Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004089.1 Hibiscus syriacus cultivar Beakdansim tig00008945_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 104426
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Found at i:9942 original size:22 final size:22
Alignment explanation
Indices: 9898--9942 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
9888 AATTAGTTTC
* *
9898 AAAATTTTAAGACATCCTAATT
1 AAAATTTTAAAACATCATAATT
*
9920 AAAATTTTAAAACATCATTATT
1 AAAATTTTAAAACATCATAATT
9942 A
1 A
9943 TATCGATCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.11, G:0.02, T:0.38
Consensus pattern (22 bp):
AAAATTTTAAAACATCATAATT
Found at i:16410 original size:2 final size:2
Alignment explanation
Indices: 16403--16430 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
16393 TTGAGTGAGT
16403 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
16431 ATGCAAAACG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:23086 original size:37 final size:37
Alignment explanation
Indices: 22988--23105 Score: 114
Period size: 39 Copynumber: 3.2 Consensus size: 37
22978 TATGTTGTCA
* * * *
22988 TTGAGATTATTTCTCTCGAAACAAAATGTCATCTCGC
1 TTGAGATAATTTCTCTCAAAACAAAATTTCGTCTCGC
* * * *
23025 TAGAGATAGCTTT-TCTTGAAAAACAAAATTTTGTCTCGC
1 TTGAGATA-ATTTCTC-T-CAAAACAAAATTTCGTCTCGC
*
23064 TTGAGATAATTTCTCTCAAAAC-AAATTTCGTCTCAC
1 TTGAGATAATTTCTCTCAAAACAAAATTTCGTCTCGC
23100 TTGAGA
1 TTGAGA
23106 CATTTTTTTT
Statistics
Matches: 64, Mismatches: 13, Indels: 9
0.74 0.15 0.10
Matches are distributed among these distances:
36 18 0.28
37 13 0.20
38 8 0.12
39 25 0.39
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (37 bp):
TTGAGATAATTTCTCTCAAAACAAAATTTCGTCTCGC
Found at i:23232 original size:67 final size:65
Alignment explanation
Indices: 23159--23356 Score: 315
Period size: 67 Copynumber: 3.0 Consensus size: 65
23149 CAAAATTTAT
* *
23159 AATCTTTGAGAATGTTTCTCTTGAAACAAATTTTGTCTCCATTGAGACAATTTCTCTTGAAACAC
1 AATCTTTGAGTATGTTTC-CTTGAAACAAATTTTGTCTCCCTTGAGACAATTTCTCTTGAAACAC
23224 AA
65 -A
*
23226 AATCTTTGAGTTTGTTTCCTTTGAAACAAATTTTGTCTCCCTTGAGACAATTTCTCTTGAAACAC
1 AATCTTTGAGTATGTTTCC-TTGAAACAAATTTTGTCTCCCTTGAGACAATTTCTCTTGAAACAC
23291 A
65 A
*
23292 AATCTTTGAGTATGTTTCCCTTGAAACAAAGTTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
1 AATCTTTGAGTATGTTT-CCTTGAAACAAA-TTTTGTCTCCCTTGAGACAATTTCTCTTGAAACA
23357 AATCCCTAAA
Statistics
Matches: 123, Mismatches: 5, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
66 28 0.23
67 95 0.77
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (65 bp):
AATCTTTGAGTATGTTTCCTTGAAACAAATTTTGTCTCCCTTGAGACAATTTCTCTTGAAACACA
Found at i:23270 original size:21 final size:21
Alignment explanation
Indices: 23236--23275 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
23226 AATCTTTGAG
* *
23236 TTTGTTTCCTTTGAAACAAAT
1 TTTGTCTCCCTTGAAACAAAT
*
23257 TTTGTCTCCCTTGAGACAA
1 TTTGTCTCCCTTGAAACAA
23276 TTTCTCTTGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.25, C:0.20, G:0.12, T:0.42
Consensus pattern (21 bp):
TTTGTCTCCCTTGAAACAAAT
Found at i:23676 original size:134 final size:130
Alignment explanation
Indices: 23358--23712 Score: 383
Period size: 132 Copynumber: 2.7 Consensus size: 130
23348 CTTGAAACAA
* * * * *
23358 ATCCCTAAAGATGGCCA-GTCGTCCTCATCGCGTAGGAACCGTGTCATCCCCCGACCAGACCTCC
1 ATCCCTAAAGATAGACATGTCGTCCTCATCGCGTAGGAACCGTGTCATCCACCGACCAGA-TTCA
* *
23422 TCATCACGTAGGAGTCGTGTCACCCCCATGATAACTAGCCATCCTAATCATGTAGGAACCGTGTT
65 TCATCACGTAGGAGCCGTGTCA--CCCATGATAACCAGCCATCCTAATCATGTAGGAACCGTGTT
23487 ATC
128 ATC
* * * ** *
23490 ATCCCTAAAGATAGA-ATGTCATCCTCATCACGTAAGAATTGTGTCATCCACCGACCAGAGTTCT
1 ATCCCTAAAGATAGACATGTCGTCCTCATCGCGTAGGAACCGTGTCATCCACCGACCAGA-TTCA
* * * * *
23554 TCATCACGTAGGAGCCGTGTCACCTATAGATAACCAGTCGTCCTCATCGTGTAGGAACCGTGTTA
65 TCATCACGTAGGAGCCGTGTCACCCAT-GATAACCAGCCATCCTAATCATGTAGGAACCGTGTTA
23619 TCACC
129 T---C
* * * * * *
23624 ATCTCTAAAGAT-GACATGTCGTCCTCATTGCATAGGAACCATGTCATCCACCGACTATATCTCA
1 ATCCCTAAAGATAGACATGTCGTCCTCATCGCGTAGGAACCGTGTCATCCACCGACCAGAT-TCA
*
23688 TCATCACGTAGAAGCCGTGTCACCC
65 TCATCACGTAGGAGCCGTGTCACCC
23713 TTTGATGACC
Statistics
Matches: 184, Mismatches: 32, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
130 4 0.02
131 34 0.18
132 72 0.39
133 3 0.02
134 71 0.39
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.25
Consensus pattern (130 bp):
ATCCCTAAAGATAGACATGTCGTCCTCATCGCGTAGGAACCGTGTCATCCACCGACCAGATTCAT
CATCACGTAGGAGCCGTGTCACCCATGATAACCAGCCATCCTAATCATGTAGGAACCGTGTTATC
Found at i:23735 original size:134 final size:131
Alignment explanation
Indices: 23358--23725 Score: 354
Period size: 134 Copynumber: 2.8 Consensus size: 131
23348 CTTGAAACAA
* * * * *
23358 ATCCCTAAAGATGGCCA-GTCGTCCTCATCGCGTAGGAACCGTGTCATCCCCCGACCAGACCTCC
1 ATCCCTAAAGATAGACATGTCGTCCTCATCGCGTAGGAACCGTGTCATCCACCGACCAGATCTCA
* ** * *
23422 TCATCACGTAGGAGTCGTGTCACCCCCATGATAAC-TAGCCATCCTAATCATGTAGGAACCGTGT
66 TCATCACGTAGGAGCCGTGTCA-CCCTTTGATACCATA--CATCCTCATCATGTAGGAACCGTGT
23486 TATC
128 TATC
* * * **
23490 ATCCCTAAAGATAGA-ATGTCATCCTCATCACGTAAGAATTGTGTCATCCACCGACCAGAGT-TC
1 ATCCCTAAAGATAGACATGTCGTCCTCATCGCGTAGGAACCGTGTCATCCACCGACCAGA-TCTC
* * * *
23553 TTCATCACGTAGGAGCCGTGTCA-CCTATAGATAACCAGT-CGTCCTCATCGTGTAGGAACCGTG
65 ATCATCACGTAGGAGCCGTGTCACCCT-TTGAT-ACCA-TACATCCTCATCATGTAGGAACCGTG
23616 TTATCACC
127 TTAT---C
* * * * * *
23624 ATCTCTAAAGAT-GACATGTCGTCCTCATTGCATAGGAACCATGTCATCCACCGACTATATCTCA
1 ATCCCTAAAGATAGACATGTCGTCCTCATCGCGTAGGAACCGTGTCATCCACCGACCAGATCTCA
*
23688 TCATCACGTAGAAGCCGTGTCACCCTTTGATGACCATA
66 TCATCACGTAGGAGCCGTGTCACCCTTTGAT-ACCATA
23726 ACTCTTCATC
Statistics
Matches: 190, Mismatches: 33, Indels: 24
0.77 0.13 0.10
Matches are distributed among these distances:
130 2 0.01
131 29 0.15
132 74 0.39
133 4 0.02
134 78 0.41
135 3 0.02
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (131 bp):
ATCCCTAAAGATAGACATGTCGTCCTCATCGCGTAGGAACCGTGTCATCCACCGACCAGATCTCA
TCATCACGTAGGAGCCGTGTCACCCTTTGATACCATACATCCTCATCATGTAGGAACCGTGTTAT
C
Found at i:23911 original size:3 final size:3
Alignment explanation
Indices: 23905--23953 Score: 64
Period size: 3 Copynumber: 16.3 Consensus size: 3
23895 TCTAAAAAAA
* *
23905 TAT TAT TAAT TA- TAT TAT TAT TAT TCT TAT TAT TAT TCT TAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
23950 TAT T
1 TAT T
23954 TTAATTTATA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 35 0.88
4 3 0.08
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:23921 original size:12 final size:11
Alignment explanation
Indices: 23904--23965 Score: 54
Period size: 12 Copynumber: 5.5 Consensus size: 11
23894 GTCTAAAAAA
23904 ATATTATTAATT
1 ATATTATT-ATT
23916 ATATTATTATT
1 ATATTATTATT
*
23927 ATTCTTATTATT
1 A-TATTATTATT
*
23939 ATTCTTATTATT
1 A-TATTATTATT
* *
23951 ATTTTAAT-TT
1 ATATTATTATT
23961 ATATT
1 ATATT
23966 TTACATATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
10 6 0.13
11 9 0.20
12 30 0.67
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (11 bp):
ATATTATTATT
Found at i:26600 original size:31 final size:31
Alignment explanation
Indices: 26561--26628 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
26551 GGTCTGAGTA
* *
26561 GGTACTTGAACTTGACTTATTGGTTCAAACTT
1 GGTACTTGAACTTCACTTATTGGTCCAAA-TT
*
26593 -GTACTTGAACTTCACTTTTTGGTCCAAATT
1 GGTACTTGAACTTCACTTATTGGTCCAAATT
26623 GGTACT
1 GGTACT
26629 AATGATAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 2 0.06
31 30 0.94
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.41
Consensus pattern (31 bp):
GGTACTTGAACTTCACTTATTGGTCCAAATT
Found at i:26864 original size:152 final size:152
Alignment explanation
Indices: 26577--26864 Score: 384
Period size: 152 Copynumber: 1.9 Consensus size: 152
26567 TGAACTTGAC
** *
26577 TTATTGGTTCAAACTTGTACTTGAACTTCACTTTTTGGTCCAAATTGGTACTAATGATAAATGAC
1 TTATTGGTTCAAACCGGTACTTGAACTTCACTTTTTGGTCCAAATTGGTACCAATGATAAATGAC
* ** * *****
26642 TTATTTGAATAAACTAGAACCATGAAGTCAAGTTCAGGTACCAATTTGGCACGTTTTGGTCCAAT
66 TTATTTGAATAAACTAGAACAATGAAGTCAAGTTCAGGTACCAATTTGAAACGCTAAAAACCAAT
26707 TAGGTATATGAACTTGACTTAG
131 TAGGTATATGAACTTGACTTAG
* *
26729 TTATTGGTTCAAACCGGTACTTGAACTTCACTTTTTGGTCCAAATTGGTACCAATGGTAGATGAC
1 TTATTGGTTCAAACCGGTACTTGAACTTCACTTTTTGGTCCAAATTGGTACCAATGATAAATGAC
* *
26794 TTATTTGAATCAAA-TTGAACAATGAAGTCAAGTTCATGTACCAATTT-AAAC-CTAAAAACCAA
66 TTATTTGAAT-AAACTAGAACAATGAAGTCAAGTTCAGGTACCAATTTGAAACGCTAAAAACC-A
26856 ATTCAGGTA
129 ATT-AGGTA
26865 CTAATTAGTC
Statistics
Matches: 117, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
150 3 0.03
151 6 0.05
152 105 0.90
153 3 0.03
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (152 bp):
TTATTGGTTCAAACCGGTACTTGAACTTCACTTTTTGGTCCAAATTGGTACCAATGATAAATGAC
TTATTTGAATAAACTAGAACAATGAAGTCAAGTTCAGGTACCAATTTGAAACGCTAAAAACCAAT
TAGGTATATGAACTTGACTTAG
Found at i:28856 original size:29 final size:29
Alignment explanation
Indices: 28813--28930 Score: 200
Period size: 29 Copynumber: 4.0 Consensus size: 29
28803 CTCACCTAAC
*
28813 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATTTAAGCAATGACATCATTAAT
*
28843 TAAATGATTTAAGCAATGACATCTTTAAT
1 TAAATGATTTAAGCAATGACATCATTAAT
*
28872 TAAATGATTTAAGCAATGACATCTTTAAT
1 TAAATGATTTAAGCAATGACATCATTAAT
28901 TAAATGATTTAAGCAATGACATCATTAAT
1 TAAATGATTTAAGCAATGACATCATTAAT
28930 T
1 T
28931 TAGTAGGTTC
Statistics
Matches: 85, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
29 81 0.95
30 4 0.05
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.36
Consensus pattern (29 bp):
TAAATGATTTAAGCAATGACATCATTAAT
Found at i:33572 original size:29 final size:29
Alignment explanation
Indices: 33529--33611 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
33519 CTCACCTAAC
33529 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
33559 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
33588 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
33612 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:35379 original size:36 final size:37
Alignment explanation
Indices: 35339--35527 Score: 291
Period size: 36 Copynumber: 5.3 Consensus size: 37
35329 AAGTTTGCAT
*
35339 CGATTGAAGTCGAACGGAGA-GAAGCATCGGCACTTC
1 CGATTCAAGTCGAACGGAGAGGAAGCATCGGCACTTC
* * * *
35375 CGATTCAAGTCGAACGGA-ATGAAGTAACAGCACTTC
1 CGATTCAAGTCGAACGGAGAGGAAGCATCGGCACTTC
35411 CGATTCAAGTCGAACGGAG-GGAAGCATCGGCACTTC
1 CGATTCAAGTCGAACGGAGAGGAAGCATCGGCACTTC
35447 CGATTCAAGT-GAACGGA-AGGAAGCATCGGCACTTC
1 CGATTCAAGTCGAACGGAGAGGAAGCATCGGCACTTC
35482 CGATTCAAGTCGAACGG-GAGGAAGCATCGGCACTTC
1 CGATTCAAGTCGAACGGAGAGGAAGCATCGGCACTTC
35518 CGATTCAAGT
1 CGATTCAAGT
35528 GTTCATCTTT
Statistics
Matches: 140, Mismatches: 8, Indels: 10
0.89 0.05 0.06
Matches are distributed among these distances:
35 35 0.25
36 105 0.75
ACGTcount: A:0.31, C:0.23, G:0.28, T:0.18
Consensus pattern (37 bp):
CGATTCAAGTCGAACGGAGAGGAAGCATCGGCACTTC
Found at i:35505 original size:71 final size:70
Alignment explanation
Indices: 35339--35528 Score: 299
Period size: 71 Copynumber: 2.7 Consensus size: 70
35329 AAGTTTGCAT
* * *
35339 CGATTGAAGTCGAACGGAGAGAAGCATCGGCACTTCCGATTCAAGTCGAACGGAATGAAGTAACA
1 CGATTCAAGTCGAACGGAG-GAAGCATCGGCACTTCCGATTCAAGT-GAACGGAAGGAAGCAACA
35404 GCACTTC
64 GCACTTC
* *
35411 CGATTCAAGTCGAACGGAGGGAAGCATCGGCACTTCCGATTCAAGTGAACGGAAGGAAGCATCGG
1 CGATTCAAGTCGAACGGA-GGAAGCATCGGCACTTCCGATTCAAGTGAACGGAAGGAAGCAACAG
35476 CACTTC
65 CACTTC
35482 CGATTCAAGTCGAACGGGAGGAAGCATCGGCACTTCCGATTCAAGTG
1 CGATTCAAGTCGAAC-GGAGGAAGCATCGGCACTTCCGATTCAAGTG
35529 TTCATCTTTT
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
71 64 0.58
72 46 0.41
73 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.28, T:0.18
Consensus pattern (70 bp):
CGATTCAAGTCGAACGGAGGAAGCATCGGCACTTCCGATTCAAGTGAACGGAAGGAAGCAACAGC
ACTTC
Found at i:37300 original size:24 final size:24
Alignment explanation
Indices: 37255--37303 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
37245 AAAAAAAAGT
*
37255 AAAAATAAAATATAAAATATAATA
1 AAAAATAAAATATAAAAGATAATA
*
37279 AAAAATATACATAT-AAAGATAATA
1 AAAAATA-AAATATAAAAGATAATA
37303 A
1 A
37304 TAGTAGCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (24 bp):
AAAAATAAAATATAAAAGATAATA
Found at i:37393 original size:19 final size:18
Alignment explanation
Indices: 37350--37394 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
37340 TAGTAAAATA
37350 ATAATAAATATAATAGTT
1 ATAATAAATATAATAGTT
37368 ATAAATAAATATATATA-TAT
1 AT-AATAAATATA-ATAGT-T
37388 ATAATAA
1 ATAATAA
37395 CTTTAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 2 0.08
19 16 0.67
20 6 0.25
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (18 bp):
ATAATAAATATAATAGTT
Found at i:37924 original size:35 final size:36
Alignment explanation
Indices: 37854--37953 Score: 130
Period size: 35 Copynumber: 2.8 Consensus size: 36
37844 GTGTTTGTGG
* * *
37854 ATCCTATCTTTAGGAGTTTAAAACATAGCAAAATTCT
1 ATCCTAT-TTTAGGAGTTTGAATCCTAGCAAAATTCT
*
37891 ATCCTATTTTAGGAG-TTGAATCCTAGCAGAATTCT
1 ATCCTATTTTAGGAGTTTGAATCCTAGCAAAATTCT
*
37926 ATCCTATTTTTGAGAGTTTGAATCCTAG
1 ATCCTATTTTAG-GAGTTTGAATCCTAG
37954 TAGGACGAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
35 27 0.48
36 11 0.20
37 18 0.32
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (36 bp):
ATCCTATTTTAGGAGTTTGAATCCTAGCAAAATTCT
Found at i:38722 original size:106 final size:102
Alignment explanation
Indices: 38414--38915 Score: 539
Period size: 106 Copynumber: 4.9 Consensus size: 102
38404 AATATTGTTC
* * * *
38414 CGAGTCCAATATCCTCCGCTGTGAAGTTGAAATTGGTTCTGGAACTGGGAAATTATTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCT-GAAAT-TGAAA-T-TTTGTTGACA
* * * *
38479 GTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCT
62 ATCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGCTGTCT
* * * * * *
38520 CGAGTCTAATATCATTCGCTGTGAAGATGAAATTGACTCTG-AA-CGAAATCTTGTTGACAATCA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAAATTTTGTTGACAATCA
* * *
38583 TCCGTCCCTTCATTGTGAAGTTGAACTTGTGTTGTCT
66 GCCGTCCCTTCGTTGTGAAGTTGAACTTGTGCTGTCT
* *
38620 CGAGTCCAATATCCTTCGCTGCGAAGTTGAAATTGGCTCTGAAATTTGAAAAATGTTTTTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAA-TTG--AAAT-TTTGTTGACA
* *
38685 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
62 ATCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGCTGTCT
** * * * *
38726 CGAGTCCAATATCCTTCGCTGTGAAGTTGAGTTTGGCTCCGAAATT---A-CTTGTCGACAGTCA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAAATTTTGTTGACAATCA
* * *
38787 GCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCT
66 GCCGTCCCTTCGTTGTGAAGTTGAACTTGTGCTGTCT
* * * *
38824 CGAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCCCTGAAACTGGGAAATTATTATTGACAA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAA-T-TGAAATT-TTGTTGACAA
* *
38889 CCAGCCGTCTCTTCGTTGTGAAGTTGA
63 TCAGCCGTCCCTTCGTTGTGAAGTTGA
38916 GATTGGCTCC
Statistics
Matches: 329, Mismatches: 54, Indels: 27
0.80 0.13 0.07
Matches are distributed among these distances:
98 81 0.25
99 1 0.00
100 80 0.24
101 3 0.01
102 4 0.01
103 2 0.01
104 1 0.00
105 37 0.11
106 120 0.36
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (102 bp):
CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAAATTTTGTTGACAATCA
GCCGTCCCTTCGTTGTGAAGTTGAACTTGTGCTGTCT
Found at i:38931 original size:160 final size:160
Alignment explanation
Indices: 38738--39075 Score: 586
Period size: 160 Copynumber: 2.1 Consensus size: 160
38728 AGTCCAATAT
* *
38738 CCTTCGCTGTGAAGTTGAGTTTGGCTCCGAAATTACTTGTCGACAGTCAGCCGCCCCTTCGCTGT
1 CCTTCGTTGTGAAGTTGAGATTGGCTCCGAAATTACTTGTCGACAGTCAGCCGCCCCTTCGCTGT
38803 GAAGTTGAGCTTGTGCTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCCCTGAAA
66 GAAGTTGAGCTTGTGCTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCCCTGAAA
38868 CTGGGAAATTATTATTGACAACCAGCCGTC
131 CTGGGAAATTATTATTGACAACCAGCCGTC
* ** *
38898 TCTTCGTTGTGAAGTTGAGATTGGCTCCGAAATTGTTTGTTGACAGTCAGCCGCCCCTTCGCTGT
1 CCTTCGTTGTGAAGTTGAGATTGGCTCCGAAATTACTTGTCGACAGTCAGCCGCCCCTTCGCTGT
* * *
38963 GAAGTTGAGCTTGTGCTGTCTTGGGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCCCTGAAA
66 GAAGTTGAGCTTGTGCTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCCCTGAAA
*
39028 CTGGGAAATTATTATTGACAACCAGTCGTC
131 CTGGGAAATTATTATTGACAACCAGCCGTC
39058 CCTTCGTTGTGAAGTTGA
1 CCTTCGTTGTGAAGTTGA
39076 ACTTGTGTTG
Statistics
Matches: 167, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
160 167 1.00
ACGTcount: A:0.21, C:0.22, G:0.25, T:0.32
Consensus pattern (160 bp):
CCTTCGTTGTGAAGTTGAGATTGGCTCCGAAATTACTTGTCGACAGTCAGCCGCCCCTTCGCTGT
GAAGTTGAGCTTGTGCTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCCCTGAAA
CTGGGAAATTATTATTGACAACCAGCCGTC
Found at i:39681 original size:65 final size:65
Alignment explanation
Indices: 39577--39742 Score: 296
Period size: 65 Copynumber: 2.6 Consensus size: 65
39567 GACAAAATTT
39577 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
* *
39642 TGTTTCAAGAGAAACTATCTCAAGAGAGATGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
* *
39707 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATT
39743 TTGTTTCGAG
Statistics
Matches: 95, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
65 95 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (65 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
Found at i:39748 original size:102 final size:102
Alignment explanation
Indices: 39642--39878 Score: 411
Period size: 102 Copynumber: 2.3 Consensus size: 102
39632 TCAATGTTTA
* ** *
39642 TGTTTCAAGAGAAACTATCTCAAGAGAGATGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAACTCATTTCAAGGGAAATGTTTTCAATGTTTA
*
39707 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTT
*
39744 TGTTTCGAGGGAAACTATCTCAAGAGAGACAAAACTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAACTCATTTCAAGGGAAATGTTTTCAATGTTTA
39809 TGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTT
*
39846 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAA
39879 GTTTGTTTCA
Statistics
Matches: 127, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
102 127 1.00
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.29
Consensus pattern (102 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAACTCATTTCAAGGGAAATGTTTTCAATGTTTA
TGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTT
Found at i:39758 original size:37 final size:37
Alignment explanation
Indices: 39707--39913 Score: 195
Period size: 37 Copynumber: 5.9 Consensus size: 37
39697 TCAATGTTTA
* *
39707 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
* * *
39744 TGTTTCGAGGGAAACTATCTCAAGAGAGACAAAA-CT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
** * *
39780 CATTTCAAGGGAAA-TGTTTTC-A-A-TG------TTT
1 TGTTTCAAGGGAAACTG-TCTCAAGAGAGACAAAATTT
* * *
39808 ATGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTT
1 -TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
*
39846 TGTTTCAAGGGAAACTGTCTCAAGAGAGAC-AAAGTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
39882 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
39914 TGGTGAGCAC
Statistics
Matches: 134, Mismatches: 22, Indels: 28
0.73 0.12 0.15
Matches are distributed among these distances:
28 1 0.01
29 14 0.10
30 3 0.02
32 1 0.01
33 1 0.01
34 1 0.01
35 2 0.01
36 50 0.37
37 58 0.43
38 3 0.02
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (37 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
Found at i:39891 original size:36 final size:36
Alignment explanation
Indices: 39809--39913 Score: 165
Period size: 36 Copynumber: 2.9 Consensus size: 36
39799 TCAATGTTTA
* * * *
39809 TGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAG-ACAAAGTT
39846 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAGTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAGTT
39882 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
39914 TGGTGAGCAC
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
36 38 0.59
37 26 0.41
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.25
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAGTT
Found at i:40808 original size:22 final size:22
Alignment explanation
Indices: 40783--40833 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
40773 TTGTGTTTGG
40783 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
40805 TCAAAGGTTTGGTATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
40827 TCAAAGG
1 TCAAAGG
40834 ATTGATGGGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.35
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:41467 original size:20 final size:21
Alignment explanation
Indices: 41441--41502 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 21
41431 CTTTTTGTTC
*
41441 CCTTTTTTATTTTTGTTCTTT
1 CCTTTTTTATTCTTGTTCTTT
* *
41462 -CTTTTTTGTTCTTGTTTTTT
1 CCTTTTTTATTCTTGTTCTTT
*
41482 CCTTTTTTGCTTCTT-TTCTTT
1 CCTTTTTT-ATTCTTGTTCTTT
41503 TTTCTTTTTG
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 17 0.50
21 12 0.35
22 5 0.15
ACGTcount: A:0.02, C:0.16, G:0.06, T:0.76
Consensus pattern (21 bp):
CCTTTTTTATTCTTGTTCTTT
Found at i:41513 original size:22 final size:22
Alignment explanation
Indices: 41459--41511 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 22
41449 ATTTTTGTTC
41459 TTTCTTTTTTG-TTCTTGTTTT
1 TTTCTTTTTTGCTTCTTGTTTT
* *
41480 TTCCTTTTTTGCTTCTTTTCTTT
1 TTTCTTTTTTGCTTCTTGT-TTT
41503 TTTCTTTTT
1 TTTCTTTTT
41512 GCCCTTTTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 10 0.37
22 6 0.22
23 11 0.41
ACGTcount: A:0.00, C:0.15, G:0.06, T:0.79
Consensus pattern (22 bp):
TTTCTTTTTTGCTTCTTGTTTT
Found at i:42654 original size:8 final size:8
Alignment explanation
Indices: 42638--42676 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
42628 AATGTAGATG
42638 AAAATGCA
1 AAAATGCA
*
42646 AAAAGGCA
1 AAAATGCA
42654 AAAATGC-
1 AAAATGCA
42661 AAAATGCA
1 AAAATGCA
*
42669 AGAATGCA
1 AAAATGCA
42677 TGAAATGTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
7 7 0.26
8 20 0.74
ACGTcount: A:0.59, C:0.13, G:0.18, T:0.10
Consensus pattern (8 bp):
AAAATGCA
Found at i:42664 original size:15 final size:15
Alignment explanation
Indices: 42638--42676 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
42628 AATGTAGATG
42638 AAAATGCAAAAAGGCA
1 AAAATGC-AAAAGGCA
*
42654 AAAATGCAAAATGCA
1 AAAATGCAAAAGGCA
*
42669 AGAATGCA
1 AAAATGCA
42677 TGAAATGTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.59, C:0.13, G:0.18, T:0.10
Consensus pattern (15 bp):
AAAATGCAAAAGGCA
Found at i:45578 original size:12 final size:12
Alignment explanation
Indices: 45547--45579 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
45537 TAAAAAAAGT
*
45547 AAAAATAAAATA
1 AAAAATATAATA
45559 AAAAATATAATA
1 AAAAATATAATA
45571 AAAAATATA
1 AAAAATATA
45580 CATATAATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (12 bp):
AAAAATATAATA
Found at i:45713 original size:11 final size:11
Alignment explanation
Indices: 45629--45714 Score: 50
Period size: 11 Copynumber: 7.3 Consensus size: 11
45619 TTATATACGT
*
45629 TAATAGTAAAA
1 TAATATTAAAA
*
45640 TAATAATAAATA
1 TAATATTAAA-A
45652 TAATAGTTATAAA
1 TAATA-TTA-AAA
45665 TATATATATATATAA
1 TA-ATAT-TA-A-AA
45680 TAACT-TTAAAA
1 TAA-TATTAAAA
*
45691 -AACATTAAAA
1 TAATATTAAAA
*
45701 TAATATTAGAA
1 TAATATTAAAA
45712 TAA
1 TAA
45715 AAATAATTAA
Statistics
Matches: 61, Mismatches: 5, Indels: 18
0.73 0.06 0.21
Matches are distributed among these distances:
10 8 0.13
11 22 0.36
12 7 0.11
13 8 0.13
14 11 0.18
15 5 0.08
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.35
Consensus pattern (11 bp):
TAATATTAAAA
Found at i:46222 original size:35 final size:36
Alignment explanation
Indices: 46152--46251 Score: 130
Period size: 35 Copynumber: 2.8 Consensus size: 36
46142 GTGTTTGTGG
* * *
46152 ATCCTATCTTTAGGAGTTTAAAACATAGCAAAATTCT
1 ATCCTAT-TTTAGGAGTTTGAATCCTAGCAAAATTCT
*
46189 ATCCTATTTTAGGAG-TTGAATCCTAGCAGAATTCT
1 ATCCTATTTTAGGAGTTTGAATCCTAGCAAAATTCT
*
46224 ATCCTATTTTTGAGAGTTTGAATCCTAG
1 ATCCTATTTTAG-GAGTTTGAATCCTAG
46252 TAGGACGAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
35 27 0.48
36 11 0.20
37 18 0.32
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (36 bp):
ATCCTATTTTAGGAGTTTGAATCCTAGCAAAATTCT
Found at i:54061 original size:9 final size:9
Alignment explanation
Indices: 54049--54108 Score: 61
Period size: 9 Copynumber: 6.6 Consensus size: 9
54039 TTTCCCGGTT
54049 TTATTTATA
1 TTATTTATA
54058 TTA-TTATTA
1 TTATTTA-TA
54067 TTA-TTATA
1 TTATTTATA
54075 TTATTTATTA
1 TTATTTA-TA
*
54085 TATATTTTTA
1 T-TATTTATA
*
54095 TTATTAATA
1 TTATTTATA
54104 TTATT
1 TTATT
54109 ATTACAACCA
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
8 8 0.18
9 25 0.57
10 6 0.14
11 5 0.11
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
TTATTTATA
Found at i:54064 original size:3 final size:3
Alignment explanation
Indices: 54056--54112 Score: 71
Period size: 3 Copynumber: 18.7 Consensus size: 3
54046 GTTTTATTTA
* *
54056 TAT TAT TAT TAT TAT TA- TAT TATT TAT TAT ATAT TTT TAT TAT TAA
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT -TAT TAT TAT TAT TAT
54102 TAT TAT TAT TA
1 TAT TAT TAT TA
54113 CAACCAGGCC
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
2 2 0.04
3 39 0.83
4 6 0.13
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:54112 original size:12 final size:12
Alignment explanation
Indices: 54049--54112 Score: 62
Period size: 12 Copynumber: 5.5 Consensus size: 12
54039 TTTCCCGGTT
*
54049 TTATTTATATTA
1 TTATTAATATTA
*
54061 TTATTATTATTA
1 TTATTAATATTA
54073 -TATT-AT-TTA
1 TTATTAATATTA
* *
54082 TTATATATTTTTA
1 TTAT-TAATATTA
54095 TTATTAATATTA
1 TTATTAATATTA
54107 TTATTA
1 TTATTA
54113 CAACCAGGCC
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
9 3 0.07
10 4 0.10
11 5 0.12
12 23 0.55
13 7 0.17
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
TTATTAATATTA
Found at i:55232 original size:30 final size:28
Alignment explanation
Indices: 55198--55253 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 28
55188 TATATTTAGG
55198 ATAAATAACAGATTTAATCCCTTAATTTTA
1 ATAAATAACA-ATTTAATCCC-TAATTTTA
* *
55228 ATAAATAATATTTTAATCCCTAATTT
1 ATAAATAACAATTTAATCCCTAATTT
55254 ATATTTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 6 0.25
29 9 0.38
30 9 0.38
ACGTcount: A:0.43, C:0.12, G:0.02, T:0.43
Consensus pattern (28 bp):
ATAAATAACAATTTAATCCCTAATTTTA
Found at i:64997 original size:927 final size:929
Alignment explanation
Indices: 63202--65064 Score: 3703
Period size: 927 Copynumber: 2.0 Consensus size: 929
63192 AATTGGACCA
63202 CTGAAGATCTTCCTATAGTTTTTAATATTAACGCAGAGTAATATTCAGAACTAATCTTTATGTTT
1 CTGAAGATCTTCCTATAGTTTTTAATATTAACGCAGAGTAATATTCAGAACTAATCTTTATGTTT
63267 AGCTCAAAAATATGAAAACTTTTTGTTATCTTGTAAAAGAAATTATGTTAAATATAAGAAATTTT
66 AGCTCAAAAATATGAAAACTTTTTGTTATCTTGTAAAAGAAATTATGTTAAATATAAGAAATTTT
63332 CTTTAAAATTTTCAGATGGCAATCATTCTTTACATTTTCTTACATTTTTACATTTATTTATTTCA
131 CTTTAAAATTTTCAGATGGCAATCATTCTTTACATTTTCTTACATTTTTACATTTATTTATTTCA
63397 TAAATTTACTATATTCTTTCGGAAAATATGTCCGACTTAAATTTGCAGGTGTCACCATGTTAATA
196 TAAATTTACTATATTCTTTCGGAAAATATGTCCGACTTAAATTTGCAGGTGTCACCATGTTAATA
63462 GCATGTTTATTCCTAAATTTAATCAAGAGATAAATTTAGAGCAACCCATATGTCTGGAAGAAATC
261 GCATGTTTATTCCTAAATTTAATCAAGAGATAAATTTAGAGCAACCCATATGTCTGGAAGAAATC
63527 AATGGGTGTGAGGATGAACTGGAATGTGATGTTCCTACTGAACTATTAAGATTGGTAGAAAAAGA
326 AATGGGTGTGAGGATGAACTGGAATGTGATGTTCCTACTGAACTATTAAGATTGGTAGAAAAAGA
63592 AGACAAACAAATTCTACCCCACAAAGAAGAGATTGAGACTGTGAATTTGGGAACAGATGAAGAAA
391 AGACAAACAAATTCTACCCCACAAAGAAGAGATTGAGACTGTGAATTTGGGAACAGATGAAGAAA
63657 TAAAAGAGGTGAAAATTGGTACTACTCTGACAATCCAGATAAAACAAGAATTGATAAATCTCCTT
456 TAAAAGAGGTGAAAATTGGTACTACTCTGACAATCCAGATAAAACAAGAATTGATAAATCTCCTT
63722 CAAGAGTTCAAAGATATCTTTGCCTGGTCTTATCAAGATATGCCTGGTTTAAGCACAGATATAGT
521 CAAGAGTTCAAAGATATCTTTGCCTGGTCTTATCAAGATATGCCTGGTTTAAGCACAGATATAGT
63787 AATACACAAGCTTCCAATCAATCCAGAATATAAACCGGTCCAACAAAAGCTCAGACGAATGAGGC
586 AATACACAAGCTTCCAATCAATCCAGAATATAAACCGGTCCAACAAAAGCTCAGACGAATGAGGC
63852 CAGAAATGTTGTTGCAAATCAAAGAAGAAGTGATGAAACAAATCAATGCAGGTTTCCTACAGGCA
651 CAGAAATGTTGTTGCAAATCAAAGAAGAAGTGATGAAACAAATCAATGCAGGTTTCCTACAGGCA
63917 TCTAAATACCCAGAATGGATAGCCAACATTGTTCCCGTACCGAAGAAAAATGGAAAAGTTCGAAT
716 TCTAAATACCCAGAATGGATAGCCAACATTGTTCCCGTACCGAAGAAAAATGGAAAAGTTCGAAT
63982 GTGTGTGGATTACAGAGATCTCAACAAAGCTAGTCCGAAAGATAGCTTTCCATTACCCCACATAG
781 GTGTGTGGATTACAGAGATCTCAACAAAGCTAGTCCGAAAGATAGCTTTCCATTACCCCACATAG
64047 ACACATTGGTAGACAATACTGCAGGACACACATGGTTTTCATTCATGGATGGTTTTTCAGGATAT
846 ACACATTGGTAGACAATACTGCAGGACACACATGGTTTTCATTCATGGATGGTTTTTCAGGATAT
64112 AATCAGATAAAAATGAATC
911 AATCAGATAAAAATGAATC
64131 CTGAAGATCTTCCTATAGTTTTTAATATTAACGCAGAGTAATATTCAGAACTAATCTTTATGTTT
1 CTGAAGATCTTCCTATAGTTTTTAATATTAACGCAGAGTAATATTCAGAACTAATCTTTATGTTT
64196 AGCTCAAAAATATGAAAACTTTTTGTTATCTTGTAAAAGAAATTATGTTAAATATAAGAAATTTT
66 AGCTCAAAAATATGAAAACTTTTTGTTATCTTGTAAAAGAAATTATGTTAAATATAAGAAATTTT
64261 CTTTAAAATTTTCAGATGGCAATCATTCTTTACATTTTCTTACATTTTTACATTTATTTATTTCA
131 CTTTAAAATTTTCAGATGGCAATCATTCTTTACATTTTCTTACATTTTTACATTTATTTATTTCA
64326 TAAATTTACTATATTCTTTCGGAAAATATGTCCGACTTAAATTTGCAGGTGTCACCATGTTAATA
196 TAAATTTACTATATTCTTTCGGAAAATATGTCCGACTTAAATTTGCAGGTGTCACCATGTTAATA
64391 GCATGTTTATTCCTAAATTTAATCAAGAGATAAATTTAGAGCAACCCATATGTCTGGAAG-AATC
261 GCATGTTTATTCCTAAATTTAATCAAGAGATAAATTTAGAGCAACCCATATGTCTGGAAGAAATC
64455 AAT-GGTGTGAGGATGAACTGGAATGTGATGTTCCTACTGAACTATTAAGATTGGTAGAAAAAGA
326 AATGGGTGTGAGGATGAACTGGAATGTGATGTTCCTACTGAACTATTAAGATTGGTAGAAAAAGA
64519 AGACAAACAAATTCTACCCCACAAAGAAGAGATTGAGACTGTGAATTTGGGAACAGATGAAGAAA
391 AGACAAACAAATTCTACCCCACAAAGAAGAGATTGAGACTGTGAATTTGGGAACAGATGAAGAAA
64584 TAAAAGAGGTGAAAATTGGTACTACTCTGACAATCCAGATAAAACAAGAATTGATAAATCTCCTT
456 TAAAAGAGGTGAAAATTGGTACTACTCTGACAATCCAGATAAAACAAGAATTGATAAATCTCCTT
64649 CAAGAGTTCAAAGATATCTTTGCCTGGTCTTATCAAGATATGCCTGGTTTAAGCACAGATATAGT
521 CAAGAGTTCAAAGATATCTTTGCCTGGTCTTATCAAGATATGCCTGGTTTAAGCACAGATATAGT
64714 AATACACAAGCTTCCAATCAATCCAGAATATAAACCGGTCCAACAAAAGCTCAGACGAATGAGGC
586 AATACACAAGCTTCCAATCAATCCAGAATATAAACCGGTCCAACAAAAGCTCAGACGAATGAGGC
64779 CAGAAATGTTGTTGCAAATCAAAGAAGAAGTGATGAAACAAATCAATGCAGGTTTCCTACAGGCA
651 CAGAAATGTTGTTGCAAATCAAAGAAGAAGTGATGAAACAAATCAATGCAGGTTTCCTACAGGCA
64844 TCTAAATACCCAGAATGGATAGCCAACATTGTTCCCGTACCGAAGAAAAATGGAAAAGTTCGAAT
716 TCTAAATACCCAGAATGGATAGCCAACATTGTTCCCGTACCGAAGAAAAATGGAAAAGTTCGAAT
64909 GTGTGTGGATTACAGAGATCTCAACAAAGCTAGTCCGAAAGATAGCTTTCCATTACCCCACATAG
781 GTGTGTGGATTACAGAGATCTCAACAAAGCTAGTCCGAAAGATAGCTTTCCATTACCCCACATAG
*
64974 ACACATTGGTAGACAATACTGCAGGACACACATGGTTTTCATTCATGGATGGTTTTTCAGTATAT
846 ACACATTGGTAGACAATACTGCAGGACACACATGGTTTTCATTCATGGATGGTTTTTCAGGATAT
65039 AATCAGATAAAAATGAATC
911 AATCAGATAAAAATGAATC
65058 CTGAAGA
1 CTGAAGA
65065 CATGGAAAAA
Statistics
Matches: 933, Mismatches: 1, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
927 606 0.65
928 7 0.01
929 320 0.34
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (929 bp):
CTGAAGATCTTCCTATAGTTTTTAATATTAACGCAGAGTAATATTCAGAACTAATCTTTATGTTT
AGCTCAAAAATATGAAAACTTTTTGTTATCTTGTAAAAGAAATTATGTTAAATATAAGAAATTTT
CTTTAAAATTTTCAGATGGCAATCATTCTTTACATTTTCTTACATTTTTACATTTATTTATTTCA
TAAATTTACTATATTCTTTCGGAAAATATGTCCGACTTAAATTTGCAGGTGTCACCATGTTAATA
GCATGTTTATTCCTAAATTTAATCAAGAGATAAATTTAGAGCAACCCATATGTCTGGAAGAAATC
AATGGGTGTGAGGATGAACTGGAATGTGATGTTCCTACTGAACTATTAAGATTGGTAGAAAAAGA
AGACAAACAAATTCTACCCCACAAAGAAGAGATTGAGACTGTGAATTTGGGAACAGATGAAGAAA
TAAAAGAGGTGAAAATTGGTACTACTCTGACAATCCAGATAAAACAAGAATTGATAAATCTCCTT
CAAGAGTTCAAAGATATCTTTGCCTGGTCTTATCAAGATATGCCTGGTTTAAGCACAGATATAGT
AATACACAAGCTTCCAATCAATCCAGAATATAAACCGGTCCAACAAAAGCTCAGACGAATGAGGC
CAGAAATGTTGTTGCAAATCAAAGAAGAAGTGATGAAACAAATCAATGCAGGTTTCCTACAGGCA
TCTAAATACCCAGAATGGATAGCCAACATTGTTCCCGTACCGAAGAAAAATGGAAAAGTTCGAAT
GTGTGTGGATTACAGAGATCTCAACAAAGCTAGTCCGAAAGATAGCTTTCCATTACCCCACATAG
ACACATTGGTAGACAATACTGCAGGACACACATGGTTTTCATTCATGGATGGTTTTTCAGGATAT
AATCAGATAAAAATGAATC
Found at i:67872 original size:11 final size:10
Alignment explanation
Indices: 67842--67878 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
67832 ATGCTTGAAG
*
67842 AGAAAAAAAG
1 AGAAAAAAAA
*
67852 TGAAAAAAAA
1 AGAAAAAAAA
67862 AGAAAAAAAA
1 AGAAAAAAAA
67872 AGAAAAA
1 AGAAAAA
67879 GGGGAGGTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.03
Consensus pattern (10 bp):
AGAAAAAAAA
Found at i:69210 original size:84 final size:84
Alignment explanation
Indices: 69002--69868 Score: 1380
Period size: 84 Copynumber: 10.4 Consensus size: 84
68992 ATATCCCAGT
* * *
69002 CCAAACATTGAATTTGGAAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
1 CCAATCATTGAATTTGGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
*
69067 TGATCTGGTTTAGCA-GAA
66 TGATCTGGTTTGGCATGAA
* *
69085 CCAATCATTGAATTTGGAAGATGAATGTACTCATAGCATCTTCTGGAAATGTTCTTTGAGTTATC
1 CCAATCATTGAATTTGGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
*
69150 TGATCTGGTTTGGCATTAA
66 TGATCTGGTTTGGCATGAA
69169 CCAATCATTGAATTTGGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
1 CCAATCATTGAATTTGGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
*
69234 TGATCTGGTTTGG--TAAA
66 TGATCTGGTTTGGCATGAA
* *
69251 CCAATCATTGAATTTGGAAGATGAATGTACTCATAGCATCTTCTGGAAATGTTCTTTGAGTTATC
1 CCAATCATTGAATTTGGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
69316 TGATCTGGTTTGGCATGAA
66 TGATCTGGTTTGGCATGAA
69335 CCAATCATTGAATTTGGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
1 CCAATCATTGAATTTGGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
*
69400 TGATCTGGTTTGG--TAAA
66 TGATCTGGTTTGGCATGAA
* *
69417 CCAATCATTGAATTTGGAAGATGAATGTACTCATAGCATCTTCTGGAAATGTTCTTTGAGTTATC
1 CCAATCATTGAATTTGGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
69482 TGATCTGGTTTGGCATGAA
66 TGATCTGGTTTGGCATGAA
*
69501 CCAATCATTGAATTTGGAAGATGAATGTGCTCATAACATCTTCTGGAAGTGTTCTTTGAGTTATC
1 CCAATCATTGAATTTGGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
* *
69566 TGATCTAGTTTGG--TAAA
66 TGATCTGGTTTGGCATGAA
* * * *
69583 CCAATCGTTGAATTTAGAAGATGAATTTGC-CAATAGCATCTTCTAGAAGTGTTCTTTGAGTTAT
1 CCAATCATTGAATTTGGAAGATGAATGTGCTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
*
69647 TTGATCTGG-TTGGACA-GAA
65 CTGATCTGGTTTGG-CATGAA
*
69666 CCAATCATTGAATTTGGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATT
1 CCAATCATTGAATTTGGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
69731 TGATCTGG-TTGGACA-GAA
66 TGATCTGGTTTGG-CATGAA
* * * *
69749 CCAATCATTGAATTCGGAAGATGAATGTACTCATAGCATCTTCTAGAAATGTTCTTTGAGTTATC
1 CCAATCATTGAATTTGGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
69814 TGATCTGGTTTGGCATGAA
66 TGATCTGGTTTGGCATGAA
*
69833 CCAATCATTGAATTTGGAAGATGAATTTGCTCATAG
1 CCAATCATTGAATTTGGAAGATGAATGTGCTCATAG
69869 TAGAAATAAG
Statistics
Matches: 728, Mismatches: 44, Indels: 23
0.92 0.06 0.03
Matches are distributed among these distances:
81 5 0.01
82 225 0.31
83 223 0.31
84 275 0.38
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.37
Consensus pattern (84 bp):
CCAATCATTGAATTTGGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
TGATCTGGTTTGGCATGAA
Found at i:69313 original size:166 final size:166
Alignment explanation
Indices: 69002--69868 Score: 1481
Period size: 166 Copynumber: 5.2 Consensus size: 166
68992 ATATCCCAGT
* * *
69002 CCAAACATTGAATTTGGAAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
1 CCAATCATTGAATTTGGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
* *
69067 TGATCTGGTTTAGCAGAACCAATCATTGAATTTGGAAGATGAATGTACTCATAGCATCTTCTGGA
66 TGATCTGGTTTGGTA-AACCAATCATTGAATTTGGAAGATGAATGTACTCATAGCATCTTCTGGA
*
69132 AATGTTCTTTGAGTTATCTGATCTGGTTTGGCATTAA
130 AATGTTCTTTGAGTTATCTGATCTGGTTTGGCATGAA
69169 CCAATCATTGAATTTGGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
1 CCAATCATTGAATTTGGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
69234 TGATCTGGTTTGGTAAACCAATCATTGAATTTGGAAGATGAATGTACTCATAGCATCTTCTGGAA
66 TGATCTGGTTTGGTAAACCAATCATTGAATTTGGAAGATGAATGTACTCATAGCATCTTCTGGAA
69299 ATGTTCTTTGAGTTATCTGATCTGGTTTGGCATGAA
131 ATGTTCTTTGAGTTATCTGATCTGGTTTGGCATGAA
69335 CCAATCATTGAATTTGGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
1 CCAATCATTGAATTTGGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
69400 TGATCTGGTTTGGTAAACCAATCATTGAATTTGGAAGATGAATGTACTCATAGCATCTTCTGGAA
66 TGATCTGGTTTGGTAAACCAATCATTGAATTTGGAAGATGAATGTACTCATAGCATCTTCTGGAA
69465 ATGTTCTTTGAGTTATCTGATCTGGTTTGGCATGAA
131 ATGTTCTTTGAGTTATCTGATCTGGTTTGGCATGAA
*
69501 CCAATCATTGAATTTGGAAGATGAATGTGCTCATAACATCTTCTGGAAGTGTTCTTTGAGTTATC
1 CCAATCATTGAATTTGGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
* * * * * *
69566 TGATCTAGTTTGGTAAACCAATCGTTGAATTTAGAAGATGAATTTGC-CAATAGCATCTTCTAGA
66 TGATCTGGTTTGGTAAACCAATCATTGAATTTGGAAGATGAATGTACTC-ATAGCATCTTCTGGA
* *
69630 AGTGTTCTTTGAGTTATTTGATCTGG-TTGGACA-GAA
130 AATGTTCTTTGAGTTATCTGATCTGGTTTGG-CATGAA
*
69666 CCAATCATTGAATTTGGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATT
1 CCAATCATTGAATTTGGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
* * *
69731 TGATCTGG-TTGGACAGAACCAATCATTGAATTCGGAAGATGAATGTACTCATAGCATCTTCTAG
66 TGATCTGGTTTGG-TA-AACCAATCATTGAATTTGGAAGATGAATGTACTCATAGCATCTTCTGG
69795 AAATGTTCTTTGAGTTATCTGATCTGGTTTGGCATGAA
129 AAATGTTCTTTGAGTTATCTGATCTGGTTTGGCATGAA
*
69833 CCAATCATTGAATTTGGAAGATGAATTTGCTCATAG
1 CCAATCATTGAATTTGGAAGATGAATGTGCTCATAG
69869 TAGAAATAAG
Statistics
Matches: 666, Mismatches: 27, Indels: 14
0.94 0.04 0.02
Matches are distributed among these distances:
164 4 0.01
165 79 0.12
166 465 0.70
167 118 0.18
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.37
Consensus pattern (166 bp):
CCAATCATTGAATTTGGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
TGATCTGGTTTGGTAAACCAATCATTGAATTTGGAAGATGAATGTACTCATAGCATCTTCTGGAA
ATGTTCTTTGAGTTATCTGATCTGGTTTGGCATGAA
Found at i:70856 original size:113 final size:113
Alignment explanation
Indices: 70672--71337 Score: 1008
Period size: 113 Copynumber: 5.9 Consensus size: 113
70662 CCATAATTCA
70672 ATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
1 ATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
70737 TCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATCTG
66 TCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATCTG
70785 ATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
1 ATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
70850 TCATAATGAGAAGAATTTGTTC-ACCTTTTGCTCAAATCCATCATC-G
66 TCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATCTG
70896 ATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
1 ATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
70961 TCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATCTG
66 TCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATCTG
71009 ATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
1 ATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
71074 TCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATCTG
66 TCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATCTG
* *
71122 ATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAATAACTCATCTGAAGGA-GAAGAA-AAAG
1 ATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAA-
* ** * * * **
71185 TTCACAATGAGAAGAGCTTATTCAACCTTTCGCAT-AATTCTATCACAGAAGCAGATAG
65 TTCATAATGAGAAGAATTTGTTCAACCTTTTGC-TCAA----ATC-C---ATCATCT-G
* * *
71243 ATTAGCATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATTTGAAGAA-GAAGAAG--
1 A-T-GGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
* * *
71305 -TTCACAATGAGAAGAGTTTGTTCAGCCTTTTGC
64 ATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
71338 ATAACTCTGT
Statistics
Matches: 518, Mismatches: 19, Indels: 25
0.92 0.03 0.04
Matches are distributed among these distances:
111 91 0.18
112 82 0.16
113 253 0.49
116 3 0.01
117 1 0.00
120 33 0.06
121 2 0.00
122 1 0.00
123 52 0.10
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.27
Consensus pattern (113 bp):
ATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
TCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATCTG
Found at i:71062 original size:224 final size:224
Alignment explanation
Indices: 70658--71337 Score: 1005
Period size: 224 Copynumber: 3.0 Consensus size: 224
70648 GCAAAGATTT
* *
70658 AAATCCATAATTCAATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCA-TCGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAG
70723 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATCTGATG
65 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATCTGATG
70788 GATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCA
130 GATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCA
70853 TAATGAGAAGAATTTGTTCACCTTTTGCTC
195 TAATGAGAAGAATTTGTTCACCTTTTGCTC
70883 AAATCCATCATCGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AAATCCATCATCGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGA
70948 AGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATCTGATGG
66 AGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATCTGATGG
71013 ATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCAT
131 ATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCAT
71078 AATGAGAAGAATTTGTTCAACCTTTTGCTC
196 AATGAGAAGAATTTGTTC-ACCTTTTGCTC
*
71108 AAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAATAACTCATCTGAAG
1 AAATCCATCATC-GATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAG
* * ** * *
71173 GA-GAAGAA-AAAGTTCACAATGAGAAGAGCTTATTCAACCTTTCGCAT-AATTCTATCACAGAA
65 AAGGAAGAAGAAA-TTCATAATGAGAAGAATTTGTTCAACCTTTTGC-TCAA----ATC-C---A
* ** * * *
71235 GCAGATAGATTAGCATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATTTGAAGAA-G
120 TCATCT-GA-T-GGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
* *
71299 AAGAAG---TTCACAATGAGAAGAGTTTGTTCAGCCTTTTGC
182 AAGAAGAAATTCATAATGAGAAGAATTTGTTCA-CCTTTTGC
71338 ATAACTCTGT
Statistics
Matches: 422, Mismatches: 17, Indels: 25
0.91 0.04 0.05
Matches are distributed among these distances:
224 205 0.49
225 68 0.16
226 53 0.13
229 3 0.01
230 1 0.00
231 1 0.00
232 29 0.07
233 4 0.01
234 2 0.00
235 8 0.02
236 48 0.11
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.27
Consensus pattern (224 bp):
AAATCCATCATCGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGA
AGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATCTGATGG
ATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCAT
AATGAGAAGAATTTGTTCACCTTTTGCTC
Found at i:71096 original size:337 final size:339
Alignment explanation
Indices: 70672--71337 Score: 1017
Period size: 337 Copynumber: 2.0 Consensus size: 339
70662 CCATAATTCA
70672 ATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
1 ATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
70737 TCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATCTGATGGATCAGCTTTTCCA
66 TCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATCTGATGGATCAGCTTTTCCA
* *
70802 GAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAA-TTCATAATGAGAAGAAT
131 GAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAA-GAAGAA-AAAGTTCACAATGAGAAGAAC
* * * * *
70866 TTGTTC-ACCTTTTGC-TCAA-ATC-C-ATC-ATCGA-T-GGATCAGCTTTTCCAGAAAAAGTTC
194 TTATTCAACCTTTCGCAT-AATATCACAAGCAATAGATTAGCATCAGCTTTTCCAGAAAAAGTTC
*
70923 ATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCT
258 ATAATGAGAAGAACTCATCTGAAGAA-GAAGAAG---TTCACAATGAGAAGAATTTGTTCAACCT
70988 TTTGCTCAAATCCATCATCTG
319 TTTGCTCAAATCCATCATCTG
71009 ATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
1 ATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
71074 TCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATCTGATGGATCAGCTTTTCCA
66 TCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATCTGATGGATCAGCTTTTCCA
* * *
71139 GAAAAAGTTCATAATGAGAATAACTCATCTGAAGGAGAAGAAAAAGTTCACAATGAGAAGAGCTT
131 GAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAAAAGTTCACAATGAGAAGAACTT
*
71204 ATTCAACCTTTCGCATAATTCTATCACAGAAGCAGATAGATTAGCATCAGCTTTTCCAGAGAAAG
196 ATTCAACCTTTCGCATAA---TATCAC--AAGCA-ATAGATTAGCATCAGCTTTTCCAGAAAAAG
* * *
71269 TTCATAATGAGAAGAACTCATTTGAAGAAGAAGAAGTTCACAATGAGAAGAGTTTGTTCAGCCTT
255 TTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGTTCACAATGAGAAGAATTTGTTCAACCTT
71334 TTGC
320 TTGC
71338 ATAACTCTGT
Statistics
Matches: 299, Mismatches: 15, Indels: 22
0.89 0.04 0.07
Matches are distributed among these distances:
335 3 0.01
336 25 0.08
337 174 0.58
338 1 0.00
341 3 0.01
342 1 0.00
345 32 0.11
347 4 0.01
348 8 0.03
349 48 0.16
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.27
Consensus pattern (339 bp):
ATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
TCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATCTGATGGATCAGCTTTTCCA
GAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAAAAGTTCACAATGAGAAGAACTT
ATTCAACCTTTCGCATAATATCACAAGCAATAGATTAGCATCAGCTTTTCCAGAAAAAGTTCATA
ATGAGAAGAACTCATCTGAAGAAGAAGAAGTTCACAATGAGAAGAATTTGTTCAACCTTTTGCTC
AAATCCATCATCTG
Found at i:71372 original size:120 final size:120
Alignment explanation
Indices: 71126--71415 Score: 352
Period size: 120 Copynumber: 2.4 Consensus size: 120
71116 CATCTGATGG
* * *
71126 ATCAGCTTTTCCAGAAAAAGTTCATAATGAGAATAACTCATCTGAAGGAGAAGAAAAAGTTCACA
1 ATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATATG-A--AGAAGAAAAAGTTCACA
* * * *
71191 ATGAGAAGAGCTTATTCAACCTTTCGCATAATTCTATCACAGAAGCAGATAGATTAGC
63 ATGAGAAGAGCTTATTCAACCTTTCGCATAACTCTATCACAGAAGCAAATAGATCAAC
* *
71249 ATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATTTGAAGAAGAAGAAGTTCACAATG
1 ATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATATGAAGAAGAAAAAGTTCACAATG
* * * * * * *
71314 AGAAGAGTTTGTTCAGCCTTTTGCATAACTCTGTCACAGAAGGAAATAGGTCAAC
66 AGAAGAGCTTATTCAACCTTTCGCATAACTCTATCACAGAAGCAAATAGATCAAC
** *
71369 ATCA---TCCCCAGCGGAAAGTTCATAATGAGAAGAACTCATATGAAGAA
1 ATCAGCTTTTCCAG-AGAAAGTTCATAATGAGAAGAACTCATATGAAGAA
71416 AGAGAATAAT
Statistics
Matches: 147, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
117 5 0.03
118 33 0.22
120 67 0.46
122 1 0.01
123 41 0.28
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.24
Consensus pattern (120 bp):
ATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATATGAAGAAGAAAAAGTTCACAATG
AGAAGAGCTTATTCAACCTTTCGCATAACTCTATCACAGAAGCAAATAGATCAAC
Found at i:71578 original size:3 final size:3
Alignment explanation
Indices: 71570--71626 Score: 71
Period size: 3 Copynumber: 18.7 Consensus size: 3
71560 ATTTTATTTA
* *
71570 TAT TAT TAT TAT TAT TA- TAT TATT TAT TAT ATAT TTT TAT TAT TAA
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT -TAT TAT TAT TAT TAT
71616 TAT TAT TAT TA
1 TAT TAT TAT TA
71627 CAACCAGGCC
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
2 2 0.04
3 39 0.83
4 6 0.13
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:71626 original size:12 final size:12
Alignment explanation
Indices: 71563--71626 Score: 62
Period size: 12 Copynumber: 5.5 Consensus size: 12
71553 TTCCCCGATT
*
71563 TTATTTATATTA
1 TTATTAATATTA
*
71575 TTATTATTATTA
1 TTATTAATATTA
71587 -TATT-AT-TTA
1 TTATTAATATTA
* *
71596 TTATATATTTTTA
1 TTAT-TAATATTA
71609 TTATTAATATTA
1 TTATTAATATTA
71621 TTATTA
1 TTATTA
71627 CAACCAGGCC
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
9 3 0.07
10 4 0.10
11 5 0.12
12 23 0.55
13 7 0.17
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
TTATTAATATTA
Found at i:80940 original size:2 final size:2
Alignment explanation
Indices: 80933--81003 Score: 142
Period size: 2 Copynumber: 35.5 Consensus size: 2
80923 ATTAATAATC
80933 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
80975 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
81004 GAAACTACTT
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 69 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:91154 original size:45 final size:46
Alignment explanation
Indices: 91066--91156 Score: 148
Period size: 45 Copynumber: 2.0 Consensus size: 46
91056 TTGAAAAATC
* * *
91066 CTGAGTGCATCGATGCATGGTCTTGTGCATCGATGCATCAAATGCA
1 CTGAGTACATCGATGCATGGTCATGTGCATCGATGCATAAAATGCA
91112 CTGAGTACATCGATGCATGGT-ATGTGCATCGATGCATAAAATGCA
1 CTGAGTACATCGATGCATGGTCATGTGCATCGATGCATAAAATGCA
91157 TTCGATGTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
45 22 0.52
46 20 0.48
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (46 bp):
CTGAGTACATCGATGCATGGTCATGTGCATCGATGCATAAAATGCA
Found at i:91201 original size:20 final size:20
Alignment explanation
Indices: 91176--91213 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
91166 TAAAAAATTA
91176 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
*
91196 ATTGGTGCATCGGTGCAT
1 ATTGGTGCATCGATGCAT
91214 CACTTTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.16, G:0.34, T:0.32
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:97858 original size:22 final size:21
Alignment explanation
Indices: 97816--97855 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
97806 GAGTTTATTT
*
97816 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
97837 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
97856 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:99926 original size:45 final size:46
Alignment explanation
Indices: 99838--99928 Score: 157
Period size: 45 Copynumber: 2.0 Consensus size: 46
99828 TTGAAAAAGC
* *
99838 CTGAGTGCATCGATGCATGGTCTTGTGCATCGATGCATCAAATGCA
1 CTGAGTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCA
99884 CTGAGTGCATCGATGCATGGT-ATGTGCATCGATGCATAAAATGCA
1 CTGAGTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCA
99929 TTCGATGTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
45 22 0.51
46 21 0.49
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.27
Consensus pattern (46 bp):
CTGAGTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCA
Found at i:102487 original size:13 final size:13
Alignment explanation
Indices: 102469--102494 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
102459 ATGTATTAAT
102469 ATAAAAAATAAAA
1 ATAAAAAATAAAA
102482 ATAAAAAATAAAA
1 ATAAAAAATAAAA
102495 GAGGAGAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
ATAAAAAATAAAA
Done.