Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold331
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: 1394875
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
File 6 of 8
Found at i:1010553 original size:52 final size:52
Alignment explanation
Indices: 1010497--1010625 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
1010487 CACTAATCTT
*
1010497 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
1010549 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1010601 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
1010626 CCATATTTCG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1018014 original size:21 final size:19
Alignment explanation
Indices: 1017990--1018029 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
1017980 CTCGGGAAAC
*
1017990 ACCTTTTATTTTTTTATTTAT
1 ACCTTTT-TTTATTT-TTTAT
1018011 ACCTTTTTTTATTTTTTAT
1 ACCTTTTTTTATTTTTTAT
1018030 GGAAACTAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 6 0.33
21 7 0.39
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.72
Consensus pattern (19 bp):
ACCTTTTTTTATTTTTTAT
Found at i:1018187 original size:2 final size:2
Alignment explanation
Indices: 1018180--1018218 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
1018170 GATTTTTAAA
1018180 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1018219 CACATATAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1019223 original size:15 final size:16
Alignment explanation
Indices: 1019203--1019232 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1019193 ACCCAGGCCA
1019203 CTCTTTTTTT-TTTCC
1 CTCTTTTTTTGTTTCC
1019218 CTCTTTTTTTGTTTC
1 CTCTTTTTTTGTTTC
1019233 TTTTTAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.00, C:0.23, G:0.03, T:0.73
Consensus pattern (16 bp):
CTCTTTTTTTGTTTCC
Found at i:1019359 original size:7 final size:8
Alignment explanation
Indices: 1019340--1019379 Score: 62
Period size: 8 Copynumber: 4.8 Consensus size: 8
1019330 TCTCCCTTTT
1019340 TTTTTTAA
1 TTTTTTAA
1019348 TTTTTTAA
1 TTTTTTAA
1019356 TTTTTTAA
1 TTTTTTAA
1019364 TTTTTTTATA
1 -TTTTTTA-A
1019374 TTTTTT
1 TTTTTT
1019380 CAAATAAGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
8 16 0.53
9 13 0.43
10 1 0.03
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTTTAA
Found at i:1019618 original size:21 final size:20
Alignment explanation
Indices: 1019588--1019626 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
1019578 CACATTTTTG
1019588 TCTAAATGTATCGATACATT
1 TCTAAATGTATCGATACATT
1019608 TCTAGAATGTATCGATACA
1 TCTA-AATGTATCGATACA
1019627 AGGTCCCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (20 bp):
TCTAAATGTATCGATACATT
Found at i:1019709 original size:19 final size:18
Alignment explanation
Indices: 1019685--1019747 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
1019675 AAACAGTAAA
1019685 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
1019704 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
*
1019717 TATATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
1019736 TGTATCGATACA
1 TGTATCGATACA
1019748 ATGTATCGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 10 0.28
15 2 0.06
17 2 0.06
19 22 0.61
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:1019728 original size:32 final size:32
Alignment explanation
Indices: 1019687--1019760 Score: 121
Period size: 32 Copynumber: 2.3 Consensus size: 32
1019677 ACAGTAAATG
*
1019687 TATCGATACATAAGTTTTGTATCGATACAATA
1 TATCGATACATAAGTGTTGTATCGATACAATA
*
1019719 TATCGATACATAAGTGTTGTATCGATACAATG
1 TATCGATACATAAGTGTTGTATCGATACAATA
*
1019751 TATCGTTACA
1 TATCGATACA
1019761 AAGCTACTGC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36
Consensus pattern (32 bp):
TATCGATACATAAGTGTTGTATCGATACAATA
Found at i:1024880 original size:31 final size:31
Alignment explanation
Indices: 1024809--1024881 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
1024799 GTGGCACCCT
* * *
1024809 AGTCAAAGCCCGCACAAGCTAGCGACACTCG
1 AGTCAAAGCCCGCACAAGCTAACAACACTCA
* *
1024840 AGTCTAAGCCTGCACAAGCTAACAACAC-CTA
1 AGTCAAAGCCCGCACAAGCTAACAACACTC-A
1024871 AGTCAAAGCCC
1 AGTCAAAGCCC
1024882 ACATAAGTTG
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
30 1 0.03
31 33 0.97
ACGTcount: A:0.36, C:0.34, G:0.18, T:0.12
Consensus pattern (31 bp):
AGTCAAAGCCCGCACAAGCTAACAACACTCA
Found at i:1024980 original size:88 final size:90
Alignment explanation
Indices: 1024794--1024987 Score: 275
Period size: 88 Copynumber: 2.1 Consensus size: 90
1024784 AGTCCACACG
* * *
1024794 AGTTGGTGGCACCCTAGTCAAAGCCCGCACAAGCTAGCGACACTCGAGTCTAAGCCTGCACAAGC
1 AGTTGGTGGCACCCTAGTCAAAGCCCACACAAGCTAGAGACACCCGAG-CT-A-CCTGCACAAGC
1024859 TAACAACACCTAAGTCAAAGCCCACATA
63 TAACAACACCTAAGTCAAAGCCCACATA
* * *
1024887 AGTTGGTGGCACCCTAGTCAAAGCCCACACAAGCTGGAGGCACCCGAG-T-CCTGCACAAGCTGA
1 AGTTGGTGGCACCCTAGTCAAAGCCCACACAAGCTAGAGACACCCGAGCTACCTGCACAAGCTAA
**
1024950 CGGCACCTAAGTCAAAGCCCACATA
66 CAACACCTAAGTCAAAGCCCACATA
1024975 AGTTGGTGGCACC
1 AGTTGGTGGCACC
1024988 TAAGTTTGAG
Statistics
Matches: 93, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
88 49 0.53
91 1 0.01
93 43 0.46
ACGTcount: A:0.30, C:0.32, G:0.23, T:0.15
Consensus pattern (90 bp):
AGTTGGTGGCACCCTAGTCAAAGCCCACACAAGCTAGAGACACCCGAGCTACCTGCACAAGCTAA
CAACACCTAAGTCAAAGCCCACATA
Found at i:1024988 original size:31 final size:31
Alignment explanation
Indices: 1024865--1024992 Score: 115
Period size: 31 Copynumber: 4.3 Consensus size: 31
1024855 AAGCTAACAA
*
1024865 CACCTAAGTCAAAGCCCACATAAGTTGGTGG
1 CACCTAAGTCAAAGCCCACATAAGCTGGTGG
* *
1024896 CACCCT-AGTCAAAGCCCACACAAGCTGGAGG
1 CA-CCTAAGTCAAAGCCCACATAAGCTGGTGG
** ** **
1024927 CACCCGAGTC-CTG--CAC--AAGCTGACGG
1 CACCTAAGTCAAAGCCCACATAAGCTGGTGG
*
1024953 CACCTAAGTCAAAGCCCACATAAGTTGGTGG
1 CACCTAAGTCAAAGCCCACATAAGCTGGTGG
1024984 CACCTAAGT
1 CACCTAAGT
1024993 TTGAGTTAAG
Statistics
Matches: 75, Mismatches: 15, Indels: 14
0.72 0.14 0.13
Matches are distributed among these distances:
26 16 0.21
27 1 0.01
28 3 0.04
29 3 0.04
30 3 0.04
31 46 0.61
32 3 0.04
ACGTcount: A:0.30, C:0.31, G:0.23, T:0.16
Consensus pattern (31 bp):
CACCTAAGTCAAAGCCCACATAAGCTGGTGG
Found at i:1025317 original size:155 final size:148
Alignment explanation
Indices: 1024939--1025345 Score: 508
Period size: 149 Copynumber: 2.7 Consensus size: 148
1024929 CCCGAGTCCT
* * * * * *
1024939 GCACAAGCTGACGGCACCTAAGTCAAAGCCCACATAAGTTGGTGGCACCTAAGTTTGAGTTAAGT
1 GCACAAGCTGGCGGCATCTGAGTCAAAGCCCACATAAGCTGGTGGCACCTAAGTTCGAGTCAAGT
* *
1025004 CCAAATTAGTTGGCACCTGTCTAAGGAGGTTAAGCCTTAGAATGTCAAAGCCCGCACAAGCTGGC
66 CC-AATTAGTTGGCATCTGTCTAAGGAGGTCAAGCCTTAGAATGTCAAAGCCCGCACAAGCTGGC
* **
1025069 AGCACCCGAGTCTTAGCCC
130 ACCACCCGAGTCAAAGCCC
** * * * * * *
1025088 ATACAAGTTGGCGACATCTGAGTCAAATCCCAGACAAGCTTGTGGCACCTAAGTTCGAGTCAAGT
1 GCACAAGCTGGCGGCATCTGAGTCAAAGCCCACATAAGCTGGTGGCACCTAAGTTCGAGTCAAGT
*
1025153 CCAACTTAGTTGGCATCTGTCTAAGGAGGTCAAGCCTTAGAATGTCAAAGCCCGCACAAATTGGT
66 CCAA-TTAGTTGGCATCTGTCTAAGGAGGTCAAGCCTTAGAATGTCAAAGCCCGCAC-AA--GCT
* *
1025218 GGCACCTAAGTCTGAGTCAAAGCCC
127 GGCACC--A-CCCGAGTCAAAGCCC
* *
1025243 GCACAAGCTGGCGGCATCTGAGTCAAAGCTCACATAACCTGGTGGCACCTAAGTTCGAGTCAAGT
1 GCACAAGCTGGCGGCATCTGAGTCAAAGCCCACATAAGCTGGTGGCACCTAAGTTCGAGTCAAGT
*
1025308 CCACATTAGTTGGCATCCGTCTAAGGAGGTCAAGCCTT
66 CCA-ATTAGTTGGCATCTGTCTAAGGAGGTCAAGCCTT
1025346 GAAAAACCAA
Statistics
Matches: 217, Mismatches: 33, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
148 2 0.01
149 103 0.47
150 2 0.01
152 7 0.03
154 1 0.00
155 101 0.47
156 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.24, T:0.22
Consensus pattern (148 bp):
GCACAAGCTGGCGGCATCTGAGTCAAAGCCCACATAAGCTGGTGGCACCTAAGTTCGAGTCAAGT
CCAATTAGTTGGCATCTGTCTAAGGAGGTCAAGCCTTAGAATGTCAAAGCCCGCACAAGCTGGCA
CCACCCGAGTCAAAGCCC
Found at i:1042248 original size:149 final size:151
Alignment explanation
Indices: 1041977--1042428 Score: 459
Period size: 149 Copynumber: 3.0 Consensus size: 151
1041967 CGACACCTGA
* * * ** * * * *
1041977 GTCAAAGCCTACATAAGTTGATGGCACC-CT-AGTTAAAGCCTGCACAAGCTGG-TGGCACCCAG
1 GTCAAAGCCTACACAAGCTGGTGGCACCACTGAGCCAAAGCCCGTACAAGCTGGCAGGCACCCAA
* * * * *
1042039 GTCTAAGTCCGCACAAGCTAGTGGCGCCTAAGTTTGAGTTAAGTCCAAATTAGTTGGCACCTATC
66 GTCAAAGCCCACACAAGCTAGTGGCACCTAAGTTCGAGTTAAGTCCAAATTAGTTGGCACCTATC
1042104 TAAGAAGGTCAAGCCTTAGAAT
131 TAAG-AGGTCAAGCCTTAGAAT
* * * * * * *
1042126 GTCAAA-CCTGCACTAAGTTGGTGGCACC-C-GAGCCTAAGCCCGTACAAGTTGG-TGGCATCTA
1 GTCAAAGCCTACAC-AAGCTGGTGGCACCACTGAGCCAAAGCCCGTACAAGCTGGCAGGCACCCA
* * * *
1042187 AGTCAAAGCCCACACAAGATGGTGGCACCTAAGTTCGAGTTAAGTCCAAATTAGTTAGCACCTGT
65 AGTCAAAGCCCACACAAGCTAGTGGCACCTAAGTTCGAGTTAAGTCCAAATTAGTTGGCACCTAT
* *
1042252 CTTAGAGGTCAAGCCTTAGAGT
130 CTAAGAGGTCAAGCCTTAGAAT
* * *
1042274 GTCAAAGCCTACACAAGCTGGTGGCACCTAAGTCTTAGTCAAAGCCCGTATAAGCTGGCAGGCAC
1 GTCAAAGCCTACACAAGCTGGTGGCACC--A--CTGAGCCAAAGCCCGTACAAGCTGGCAGGCAC
* * * * * *
1042339 CCGAGTCAAAGCCCACACAAGCTAGAGGCATCTAAGTCCGAGTCAAGTCCACATTAGTTGGCACC
62 CCAAGTCAAAGCCCACACAAGCTAGTGGCACCTAAGTTCGAGTTAAGTCCAAATTAGTTGGCACC
*
1042404 TATCTAGGGAGGTCAAGCCTTAGAA
127 TATCTA-AGAGGTCAAGCCTTAGAA
1042429 AACCAAAACC
Statistics
Matches: 246, Mismatches: 46, Indels: 15
0.80 0.15 0.05
Matches are distributed among these distances:
148 40 0.16
149 108 0.44
153 1 0.00
154 18 0.07
155 63 0.26
156 16 0.07
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.22
Consensus pattern (151 bp):
GTCAAAGCCTACACAAGCTGGTGGCACCACTGAGCCAAAGCCCGTACAAGCTGGCAGGCACCCAA
GTCAAAGCCCACACAAGCTAGTGGCACCTAAGTTCGAGTTAAGTCCAAATTAGTTGGCACCTATC
TAAGAGGTCAAGCCTTAGAAT
Found at i:1042271 original size:14 final size:16
Alignment explanation
Indices: 1042252--1042283 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
1042242 TAGCACCTGT
1042252 CTTAGAG-GTC-AAGC
1 CTTAGAGTGTCAAAGC
1042266 CTTAGAGTGTCAAAGC
1 CTTAGAGTGTCAAAGC
1042282 CT
1 CT
1042284 ACACAAGCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 3 0.19
16 6 0.38
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (16 bp):
CTTAGAGTGTCAAAGC
Found at i:1042948 original size:21 final size:20
Alignment explanation
Indices: 1042924--1043077 Score: 98
Period size: 21 Copynumber: 7.6 Consensus size: 20
1042914 TTCTACAAAT
1042924 TGTATCGATACAAACAGTAAA
1 TGTATCGATACAAA-AGTAAA
**
1042945 TGTATCGATACATGAGTAAA
1 TGTATCGATACAAAAGTAAA
****
1042965 TGTATCGATACATGCCTAAAA
1 TGTATCGATACAAAAGT-AAA
** **
1042986 TGTATCGATACAAAACCACCC
1 TGTATCGATACAAAAGTA-AA
* * *
1043007 TATATTC--TA-GAAAGGAAA
1 TGTA-TCGATACAAAAGTAAA
*
1043025 TGTATCGATACATAAGTAAA
1 TGTATCGATACAAAAGTAAA
*
1043045 TGTATTGATACAAACAGTAAA
1 TGTATCGATACAAA-AGTAAA
*
1043066 TGTATTGATACA
1 TGTATCGATACA
1043078 TTTCTCATTG
Statistics
Matches: 104, Mismatches: 22, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
17 2 0.02
18 3 0.03
19 6 0.06
20 42 0.40
21 49 0.47
22 2 0.02
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.28
Consensus pattern (20 bp):
TGTATCGATACAAAAGTAAA
Found at i:1047720 original size:150 final size:150
Alignment explanation
Indices: 1047519--1047897 Score: 445
Period size: 150 Copynumber: 2.5 Consensus size: 150
1047509 GATATATACA
* *
1047519 AAAAATTTTAAAAC-CAATAAA-AAATTGAAATTTTCAAAATTAATTTAATATGAATTAAACAAT
1 AAAAATTCTAAAACTC-ATAAATAAATTG-AATTTTCAAAACTAATTTAATATGAATTAAA-AAT
* * *
1047582 AATATTTGATGAATTTCAAAAATT-TTGA-ACTGAGAAAAATCCAACCGAAAAAATTTACGGAGC
63 AATATTTGAAGAATTTCAAAAATTATAGACA-T-AGAAAAATCCAACCGAAAAAATTTACAGAGC
*
1047645 AAAAAACTCGTAT-TTTT-T-A-AAT
126 AAAAAACTC-TATATTTTATAACAAG
*
1047667 AAAAATTCTAAAACTCATAAACTAAATTGAATTTTTTC-AAACTGATTTAATATGAATTAAAAAA
1 AAAAATTCTAAAACTCATAAA-TAAATTGAA--TTTTCAAAACTAATTTAATATGAATT-AAAAA
* * * *** * *
1047731 TAATATTTGAAAAATTTTAAAAATTATAGGCATAGAAAAATTTTACCGAAAAAATTTACATAGTA
62 TAATATTTGAAGAATTTCAAAAATTATAGACATAGAAAAATCCAACCGAAAAAATTTACAGAGCA
*
1047796 GAAAACTCTATATTTTGATAACAAG
127 AAAAACTCTATATTTT-ATAACAAG
1047821 AAAAATTCTAAAACTCATAAATAAATTGAATTTTCAAAACTAATTTAATATGAATT-AAAATAAT
1 AAAAATTCTAAAACTCATAAATAAATTGAATTTTCAAAACTAATTTAATATGAATTAAAAATAAT
1047885 ATTTGAAGAATTT
66 ATTTGAAGAATTT
1047898 TGGAAATCAT
Statistics
Matches: 199, Mismatches: 18, Indels: 26
0.82 0.07 0.11
Matches are distributed among these distances:
148 18 0.09
149 6 0.03
150 105 0.53
151 16 0.08
152 21 0.11
153 10 0.05
154 23 0.12
ACGTcount: A:0.51, C:0.08, G:0.07, T:0.34
Consensus pattern (150 bp):
AAAAATTCTAAAACTCATAAATAAATTGAATTTTCAAAACTAATTTAATATGAATTAAAAATAAT
ATTTGAAGAATTTCAAAAATTATAGACATAGAAAAATCCAACCGAAAAAATTTACAGAGCAAAAA
ACTCTATATTTTATAACAAG
Found at i:1047956 original size:149 final size:152
Alignment explanation
Indices: 1047519--1047975 Score: 413
Period size: 150 Copynumber: 3.0 Consensus size: 152
1047509 GATATATACA
* * *
1047519 AAAAATTTTAAAAC-CAATAAA--AAATTGAAATTTTCAAAATTAATTTAATATGAATTAAACAA
1 AAAAATTCTAAAACTC-ATAAACTAAATTGAATTTTTC-AAACTAATTTAATATGAATTAAA-AA
** * ** * *** ** *
1047581 TAATATTTGATGAATTTCAAAAATTTTGAAC-TGAGAAAAATCCAACCGAAAAAATTTACGGAGC
63 TAATATTTGAAAAATTTTAAAAATCATAAACAT-AGAAAAATATTACCGAAAAAATTTACATAGT
* * *
1047645 AAAAAACTCGTAT-TTTT---TA-AAT
127 AGAAAACTC-TATATTTTGAAAACAAG
*
1047667 AAAAATTCTAAAACTCATAAACTAAATTGAATTTTTTCAAACTGATTTAATATGAATTAAAAAAT
1 AAAAATTCTAAAACTCATAAACTAAATTGAA-TTTTTCAAACTAATTTAATATGAATT-AAAAAT
* ** *
1047732 AATATTTGAAAAATTTTAAAAATTATAGGCATAGAAAAATTTTACCGAAAAAATTTACATAGTAG
64 AATATTTGAAAAATTTTAAAAATCATAAACATAGAAAAATATTACCGAAAAAATTTACATAGTAG
*
1047797 AAAACTCTATATTTTGATAACAAG
129 AAAACTCTATATTTTGAAAACAAG
1047821 AAAAATTCTAAAACTCATAAA-TAAATTGAA-TTTTCAAAACTAATTTAATATGAATT-AAAATA
1 AAAAATTCTAAAACTCATAAACTAAATTGAATTTTTC-AAACTAATTTAATATGAATTAAAAATA
* ** * * * * * *
1047883 ATATTTGAAGAATTTTGGAAATCATAAACTTAGCAACATATTA-CTAAGAAATTTATGA-AGTCA
65 ATATTTGAAAAATTTTAAAAATCATAAACATAGAAAAATATTACCGAAAAAATTTA-CATAGT-A
*
1047946 -AAAACTCTATATTTTGAAAACAGG
128 GAAAACTCTATATTTTGAAAACAAG
1047970 AAAAAT
1 AAAAAT
1047976 ATGAAAGAAA
Statistics
Matches: 259, Mismatches: 36, Indels: 27
0.80 0.11 0.08
Matches are distributed among these distances:
148 18 0.07
149 45 0.17
150 130 0.50
151 14 0.05
152 19 0.07
153 10 0.04
154 23 0.09
ACGTcount: A:0.50, C:0.09, G:0.08, T:0.33
Consensus pattern (152 bp):
AAAAATTCTAAAACTCATAAACTAAATTGAATTTTTCAAACTAATTTAATATGAATTAAAAATAA
TATTTGAAAAATTTTAAAAATCATAAACATAGAAAAATATTACCGAAAAAATTTACATAGTAGAA
AACTCTATATTTTGAAAACAAG
Found at i:1049562 original size:82 final size:81
Alignment explanation
Indices: 1049359--1049577 Score: 239
Period size: 82 Copynumber: 2.7 Consensus size: 81
1049349 AATGAAAAGA
* * * *
1049359 GTTTGACTAGGGCGAGAACCATCACG-CTAAATTGG-ATGAAAAGAGTTTAACCAGGTATAGTCA
1 GTTTGACCAGGGCGAGAACCATCACGTC-AAATAGGAATGAAAAAAGTTTAACCAGGTAGAGTCA
**
1049422 AACAGAAACGAAAAGGT
65 AACAGAAACGAAAAAAT
* * *
1049439 GTTTAACTC-GGGCGAGAACCATCACGTCAAATAGTAATGAAAAAAGTTTAACCAGGTAGAGTTA
1 GTTTGAC-CAGGGCGAGAACCATCACGTCAAATAGGAATGAAAAAAGTTTAACCAGGTAGAGTCA
*
1049503 AACA-AGAATGAAAAAAAT
65 AACAGA-AACG-AAAAAAT
* * * *
1049521 GTTTGACCAGGGTGAGAACCATCACGTCAAACAGGAATGAAAAGATGTTTCACCAGG
1 GTTTGACCAGGGCGAGAACCATCACGTCAAATAGGAATGAAAA-AAGTTTAACCAGG
1049578 GCGAAAACTA
Statistics
Matches: 116, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
80 29 0.25
81 34 0.29
82 42 0.36
83 11 0.09
ACGTcount: A:0.41, C:0.16, G:0.23, T:0.20
Consensus pattern (81 bp):
GTTTGACCAGGGCGAGAACCATCACGTCAAATAGGAATGAAAAAAGTTTAACCAGGTAGAGTCAA
ACAGAAACGAAAAAAT
Found at i:1049594 original size:46 final size:46
Alignment explanation
Indices: 1049502--1049615 Score: 140
Period size: 46 Copynumber: 2.5 Consensus size: 46
1049492 AGGTAGAGTT
* * * *
1049502 AAACAAGAATGAAAAAAATGTTTGACCAGGGTGAGAACCATCACGTC
1 AAACAAGAATG-AAAAGATGTTTCACCAGGGCGAAAACCATCACGTC
* * *
1049549 AAACAGGAATGAAAAGATGTTTCACCAGGGCGAAAACTATTACGTC
1 AAACAAGAATGAAAAGATGTTTCACCAGGGCGAAAACCATCACGTC
*
1049595 AAACAATAATGAAAAGA-GTTT
1 AAACAAGAATGAAAAGATGTTT
1049616 GATCAAGTAC
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
45 4 0.07
46 44 0.76
47 10 0.17
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.19
Consensus pattern (46 bp):
AAACAAGAATGAAAAGATGTTTCACCAGGGCGAAAACCATCACGTC
Found at i:1049638 original size:81 final size:80
Alignment explanation
Indices: 1049546--1049777 Score: 234
Period size: 80 Copynumber: 2.9 Consensus size: 80
1049536 GAACCATCAC
* * * * *
1049546 GTCAAACAGGAATGAAAAGATGTTTCACCAGGGCGAAAACTATTACGTCAAACAATAATGAAAAG
1 GTCAAATAGGAACGAAAAGAT-TTTGACCAGGGCGAAAACCATAACGTCAAACAATAATGAAAAG
*
1049611 AGTTTGATCAAGTACA
65 AGTTTGACCAAGTACA
* *** * *
1049627 GTCAAATAGGAACGAAAAAATTTTGACCACAAC-AAGAACCATAACCTCAAACAATAATGAAAAA
1 GTCAAATAGGAACGAAAAGATTTTGACCAGGGCGAA-AACCATAACGTCAAACAATAATGAAAAG
* *
1049691 AGTTTAACCAGGTACA
65 AGTTTGACCAAGTACA
* * * * * *
1049707 ATCAAACTA-GAACAAAAAGATATTTGACCAGGGCGAGAACCATCATGTCAAACGATAATGAAAA
1 GTCAAA-TAGGAACGAAAAGAT-TTTGACCAGGGCGAAAACCATAACGTCAAACAATAATGAAAA
1049771 GAGTTTG
64 GAGTTTG
1049778 TTCATCTTCA
Statistics
Matches: 120, Mismatches: 27, Indels: 8
0.77 0.17 0.05
Matches are distributed among these distances:
79 2 0.02
80 60 0.50
81 57 0.47
82 1 0.01
ACGTcount: A:0.47, C:0.16, G:0.17, T:0.19
Consensus pattern (80 bp):
GTCAAATAGGAACGAAAAGATTTTGACCAGGGCGAAAACCATAACGTCAAACAATAATGAAAAGA
GTTTGACCAAGTACA
Found at i:1049646 original size:128 final size:126
Alignment explanation
Indices: 1049418--1049655 Score: 280
Period size: 128 Copynumber: 1.9 Consensus size: 126
1049408 ACCAGGTATA
* * * *
1049418 GTCAAACAGAAACGAAAAGGTGTTTAACTCGGGCGAGAACCATCACGTCAAATAGTAATGAAAAA
1 GTCAAACAGAAACGAAAAGATGTTTAACTCGGGCGAAAACCATCACGTCAAACAATAATGAAAAA
* * * *
1049483 AGTTTAACCAGGTAGAGTTAAACAAGAATGAAAAAAATGTTTGACCAGGGTGAGAACCATCAC
66 AGTTTAACCAAGTACAGTCAAACAAGAACG-AAAAAAT-TTTGACCAGGGTGAGAACCATCAC
* * * * *
1049546 GTCAAACAGGAATGAAAAGATGTTTCAC-CAGGGCGAAAACTATTACGTCAAACAATAATGAAAA
1 GTCAAACAGAAACGAAAAGATGTTTAACTC-GGGCGAAAACCATCACGTCAAACAATAATGAAAA
* * * * *
1049610 GAGTTTGATCAAGTACAGTCAAATAGGAACGAAAAAATTTTGACCA
65 AAGTTTAACCAAGTACAGTCAAACAAGAACGAAAAAATTTTGACCA
1049656 CAACAAGAAC
Statistics
Matches: 91, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
126 8 0.09
127 8 0.09
128 75 0.82
ACGTcount: A:0.45, C:0.15, G:0.21, T:0.20
Consensus pattern (126 bp):
GTCAAACAGAAACGAAAAGATGTTTAACTCGGGCGAAAACCATCACGTCAAACAATAATGAAAAA
AGTTTAACCAAGTACAGTCAAACAAGAACGAAAAAATTTTGACCAGGGTGAGAACCATCAC
Found at i:1054102 original size:50 final size:50
Alignment explanation
Indices: 1054021--1054154 Score: 198
Period size: 50 Copynumber: 2.7 Consensus size: 50
1054011 TTTCACAATT
* * *
1054021 TGTATCGATACATCCTTCTTTGTATTGATACATTCTGGGTTTTACCCAGA
1 TGTATCGATACATTCTTCATTGTATCGATACATTCTGGGTTTTACCCAGA
* * *
1054071 TGTATTGATACATTCTTCATTGTATCAATACATTCTGGGTTTTACCCATA
1 TGTATCGATACATTCTTCATTGTATCGATACATTCTGGGTTTTACCCAGA
*
1054121 TGTATCGATACATTC-TCAATGTATCGATACATTC
1 TGTATCGATACATTCTTCATTGTATCGATACATTC
1054155 AGGCTTTTTT
Statistics
Matches: 75, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
49 17 0.23
50 58 0.77
ACGTcount: A:0.25, C:0.19, G:0.13, T:0.42
Consensus pattern (50 bp):
TGTATCGATACATTCTTCATTGTATCGATACATTCTGGGTTTTACCCAGA
Found at i:1056556 original size:79 final size:77
Alignment explanation
Indices: 1056451--1057049 Score: 630
Period size: 79 Copynumber: 7.6 Consensus size: 77
1056441 TCATTCATGT
* * ** * *
1056451 TTTTATTTCTAAAATATCGATTTTTCACCATCATGGATACTCCAACCCCATTATTTTTTAGGAGA
1 TTTTATTTCTAAAACA-CGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTTGAGGAGA
*
1056516 TACTCCAACCTCGA
65 TACTCCAACC-CGG
* * * * * **
1056530 TTTTATTTCTAAAACATCAATTTTTCACAATCGAGGATACTTCAAACCTGTTATTTCGGAGGAGA
1 TTTTATTTCTAAAACA-CGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTTGAGGAGA
*
1056595 TACTCCAACCCTAG
65 TACTCCAACCC-GG
* *
1056609 TTTTATTTCCAAAACACCGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAAGG-G
1 TTTTATTTCTAAAACA-CGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTTG-AGGAG
*
1056673 ATACTCCAACCTTGG
64 ATACTCCAACC-CGG
* * * *
1056688 TTTTATTTCTAAATCACCGATTTTTCACCATTGGGGATACTCCAACCCTGTTATTTTTGAAGGA-
1 TTTTATTTCTAAAACA-CGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTTG-AGGAG
*
1056752 ATACTCTAACCCCGG
64 ATACTCCAA-CCCGG
* * * * *
1056767 TTTTATTT-TCAAAACACTAATTTTTCACCATC-GGGATACTCTAACCCCGTTATTTCTGAGGGG
1 TTTTATTTCT-AAAACAC-GATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTTGAGGAG
*
1056830 ATACTCCAACCTTGG
64 ATACTCCAACC-CGG
* * * * *
1056845 TTTTATTTCCAAAACACTGATTTTTCACCATCGGGGATACTCTAACCCCGTTATTTCTGAGGGGA
1 TTTTATTTCTAAAACAC-GATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTTGAGGAGA
1056910 TACTCCAACCCTGG
65 TACTCCAACCC-GG
* * *
1056924 TTTTATTTCTAAAACACTGATTTTTCATAATCGGAGATACTCCAACCCCGTTATTTTTGAGGGGA
1 TTTTATTTCTAAAACAC-GATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTTGAGGAGA
*
1056989 TACTCCAACCCTGA
65 TACTCCAACCC-GG
* * * *
1057003 TTTTATTTCCAAAACACCAATTTTGCACAATCGGGGATACTCTAACC
1 TTTTATTTCTAAAACA-CGATTTTTCACAATCGGGGATACTCCAACC
1057050 TAGTTTTCTT
Statistics
Matches: 449, Mismatches: 58, Indels: 26
0.84 0.11 0.05
Matches are distributed among these distances:
77 5 0.01
78 65 0.14
79 373 0.83
80 6 0.01
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (77 bp):
TTTTATTTCTAAAACACGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTTGAGGAGAT
ACTCCAACCCGG
Found at i:1056739 original size:158 final size:158
Alignment explanation
Indices: 1056451--1057049 Score: 702
Period size: 158 Copynumber: 3.8 Consensus size: 158
1056441 TCATTCATGT
* * * * ** * **
1056451 TTTTATTTCTAAAATATCGATTTTTCACCATCATGGATACTCCAACCCCATTATTTT-TTAGGAG
1 TTTTATTTCCAAAACACCGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAAGG-G
* * * * * *
1056515 ATACTCCAACCTCGATTTTATTTCTAAAACATCAATTTTTCACAATCGAGGATACTTCAAACCTG
65 ATACTCCAACCTTGATTTTATTTCCAAAACACCAATTTTTCACAATCGGGGATACTCCAACCCTG
*
1056580 TTATTTCGGAGGAGATACTCCAACCCTAG
130 TTATTTCGGAGGAGATACTCCAACCCTGG
1056609 TTTTATTTCCAAAACACCGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAAGGGA
1 TTTTATTTCCAAAACACCGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAAGGGA
* * * * * *
1056674 TACTCCAACCTTGGTTTTATTTCTAAATCACCGATTTTTCACCATTGGGGATACTCCAACCCTGT
66 TACTCCAACCTTGATTTTATTTCCAAAACACCAATTTTTCACAATCGGGGATACTCCAACCCTGT
* * * *
1056739 TATTTTTGAAGGA-ATACTCTAACCCCGG
131 TA-TTTCGGAGGAGATACTCCAACCCTGG
* ** * * *
1056767 TTTTATTTTCAAAACACTAATTTTTCACCATC-GGGATACTCTAACCCCGTTA-TTTCTGAGGGG
1 TTTTATTTCCAAAACACCGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTC-GAAGGG
* ** * * *
1056830 ATACTCCAACCTTGGTTTTATTTCCAAAACACTGATTTTTCACCATCGGGGATACTCTAACCCCG
65 ATACTCCAACCTTGATTTTATTTCCAAAACACCAATTTTTCACAATCGGGGATACTCCAACCCTG
* *
1056895 TTATTTCTGAGGGGATACTCCAACCCTGG
130 TTATTTCGGAGGAGATACTCCAACCCTGG
* * * * * *
1056924 TTTTATTTCTAAAACACTGATTTTTCATAATCGGAGATACTCCAACCCCGTTATTTTTGAGGGGA
1 TTTTATTTCCAAAACACCGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAAGGGA
* * *
1056989 TACTCCAACCCTGATTTTATTTCCAAAACACCAATTTTGCACAATCGGGGATACTCTAACC
66 TACTCCAACCTTGATTTTATTTCCAAAACACCAATTTTTCACAATCGGGGATACTCCAACC
1057050 TAGTTTTCTT
Statistics
Matches: 379, Mismatches: 56, Indels: 12
0.85 0.13 0.03
Matches are distributed among these distances:
156 10 0.03
157 126 0.33
158 229 0.60
159 14 0.04
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (158 bp):
TTTTATTTCCAAAACACCGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAAGGGA
TACTCCAACCTTGATTTTATTTCCAAAACACCAATTTTTCACAATCGGGGATACTCCAACCCTGT
TATTTCGGAGGAGATACTCCAACCCTGG
Found at i:1056885 original size:236 final size:236
Alignment explanation
Indices: 1056451--1057049 Score: 787
Period size: 236 Copynumber: 2.5 Consensus size: 236
1056441 TCATTCATGT
* ** * *
1056451 TTTTATTTCTAAAAT-ATCGATTTTTCACCATCATGGATACTCCAACCCCATTATTTTT-TAGGA
1 TTTTATTTCT-AAATCACCGATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTTTGAAGGA
* *
1056514 GATACTCCAACCTCGATTTTA-TTTCTAAAACA-TCAATTTTTCACAATCGAGGATACT-TCAAA
65 -ATACTCCAACCCCGATTTTATTTTC-AAAACACT-AATTTTTCACAATCG-GGATACTCT-AAC
*
1056576 CCTGTTATTTCGGAGGAGATACTCCAACCCTAGTTTTATTTCCAAAACACCGATTTTTCACAATC
125 CCCGTTATTTCGGAGGAGATACTCCAACCCTAGTTTTATTTCCAAAACACCGATTTTTCACAATC
*
1056641 GGGGATACTCCAACCCCGTTATTT-TCGAAGGGATACTCCAACCTTGG
190 GGGGATACTCCAACCCCGTTATTTCT-GAAGGGATACTCCAACCCTGG
* *
1056688 TTTTATTTCTAAATCACCGATTTTTCACCATTGGGGATACTCCAACCCTGTTATTTTTGAAGGAA
1 TTTTATTTCTAAATCACCGATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTTTGAAGGAA
* * *
1056753 TACTCTAACCCCGGTTTTATTTTCAAAACACTAATTTTTCACCATCGGGATACTCTAACCCCGTT
66 TACTCCAACCCCGATTTTATTTTCAAAACACTAATTTTTCACAATCGGGATACTCTAACCCCGTT
* * * * * *
1056818 ATTTCTGAGGGGATACTCCAACCTTGGTTTTATTTCCAAAACACTGATTTTTCACCATCGGGGAT
131 ATTTCGGAGGAGATACTCCAACCCTAGTTTTATTTCCAAAACACCGATTTTTCACAATCGGGGAT
* *
1056883 ACTCTAACCCCGTTATTTCTGAGGGGATACTCCAACCCTGG
196 ACTCCAACCCCGTTATTTCTGAAGGGATACTCCAACCCTGG
* * ** * * *
1056924 TTTTATTTCTAAAACACTGATTTTTCATAATCGGAGATACTCCAACCCCGTTATTTTTGAGGGGA
1 TTTTATTTCTAAATCACCGATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTTTGAAGGAA
* * * *
1056989 TACTCCAACCCTGATTTTATTTCCAAAACACCAATTTTGCACAATCGGGGATACTCTAACC
66 TACTCCAACCCCGATTTTATTTTCAAAACACTAATTTTTCACAATC-GGGATACTCTAACC
1057050 TAGTTTTCTT
Statistics
Matches: 317, Mismatches: 38, Indels: 14
0.86 0.10 0.04
Matches are distributed among these distances:
236 208 0.66
237 100 0.32
238 9 0.03
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (236 bp):
TTTTATTTCTAAATCACCGATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTTTGAAGGAA
TACTCCAACCCCGATTTTATTTTCAAAACACTAATTTTTCACAATCGGGATACTCTAACCCCGTT
ATTTCGGAGGAGATACTCCAACCCTAGTTTTATTTCCAAAACACCGATTTTTCACAATCGGGGAT
ACTCCAACCCCGTTATTTCTGAAGGGATACTCCAACCCTGG
Found at i:1057044 original size:51 final size:50
Alignment explanation
Indices: 1056984--1057097 Score: 131
Period size: 50 Copynumber: 2.3 Consensus size: 50
1056974 TTATTTTTGA
1056984 GGGGATACTCCAACCCT-GATTTTATTTCCAAAACACCAATTTTGCACAATC
1 GGGGATACTCCAA-CCTAG-TTTTATTTCCAAAACACCAATTTTGCACAATC
* * * * ** *
1057035 GGGGATACTCTAACCTAGTTTTCTTTTCAAAATACTGATTTTTCACAATC
1 GGGGATACTCCAACCTAGTTTTATTTCCAAAACACCAATTTTGCACAATC
*
1057085 GGGAATACTCCAA
1 GGGGATACTCCAA
1057098 TCCCGTTATT
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
50 40 0.75
51 13 0.25
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (50 bp):
GGGGATACTCCAACCTAGTTTTATTTCCAAAACACCAATTTTGCACAATC
Found at i:1057085 original size:129 final size:129
Alignment explanation
Indices: 1056905--1057178 Score: 372
Period size: 129 Copynumber: 2.1 Consensus size: 129
1056895 TTATTTCTGA
* *
1056905 GGGGATACTCCAACCCTGGTTTTATTTCTAAAACACTGATTTTTCATAATC-GGAGATACTCCAA
1 GGGGATACTCCAA-CCTAGTTTTATTTCTAAAACACTGATTTTTCACAATCGGGA-ATACTCCAA
*
1056969 CCCCGTTATTTTTGAGGGGATACTCCAACCCTGATTTTATTTCCAAAACACCAATTTTGCACAAT
64 CCCCGTTATTTTTGAGGGGATACTCCAACCCTGACTTTATTTCCAAAACACCAATTTTGCACAAT
1057034 C
129 C
* * * *
1057035 GGGGATACTCTAACCTAGTTTTCTTT-TCAAAATACTGATTTTTCACAATCGGGAATACTCCAAT
1 GGGGATACTCCAACCTAGTTTTATTTCT-AAAACACTGATTTTTCACAATCGGGAATACTCCAAC
* * ** * * *
1057099 CCCGTTATTTTTGAGGGGATGCTCCAACCCTGGCTTTATTTTTAAAACATCGATTTTTCACAATC
65 CCCGTTATTTTTGAGGGGATACTCCAACCCTGACTTTATTTCCAAAACACCAATTTTGCACAATC
*
1057164 GGGAATACTCCAACC
1 GGGGATACTCCAACC
1057179 CCATTATTTT
Statistics
Matches: 126, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
128 1 0.01
129 110 0.87
130 15 0.12
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.34
Consensus pattern (129 bp):
GGGGATACTCCAACCTAGTTTTATTTCTAAAACACTGATTTTTCACAATCGGGAATACTCCAACC
CCGTTATTTTTGAGGGGATACTCCAACCCTGACTTTATTTCCAAAACACCAATTTTGCACAATC
Found at i:1057117 original size:78 final size:79
Alignment explanation
Indices: 1057035--1057256 Score: 211
Period size: 79 Copynumber: 2.8 Consensus size: 79
1057025 TTGCACAATC
* * * *
1057035 GGGGATACTCTAA-CCTAGTTTTCTTTTCAAAATA-CTGATTTTTCACAATCGGGAATACTCCAA
1 GGGGATACTCCAACCCTAGCTTTATTTTCAAAACATC-GATTTTTCACAATCGGGAATACTCCAA
* *
1057098 TCCCGTTATTTTTGA
65 CCCCATTATTTTTGA
* * *
1057113 GGGGATGCTCCAACCCTGGCTTTATTTTTAAAACATCGATTTTTCACAATCGGGAATACTCCAAC
1 GGGGATACTCCAACCCTAGCTTTATTTTCAAAACATCGATTTTTCACAATCGGGAATACTCCAAC
*
1057178 CCCATTATTTTCGA
66 CCCATTATTTTTGA
* * * * * * *
1057192 GAGG--ACTCCAACCC-CGATCTTATTTCCAAAACATCAATTTTCCACCATCAGGGAATGTACTC
1 GGGGATACTCCAACCCTAGCT-TTATTTTCAAAACATCGATTTTTCACAATC-GGGAA--TACTC
1057254 CAA
62 CAA
1057257 TCACATACCC
Statistics
Matches: 119, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
76 2 0.02
77 34 0.29
78 16 0.13
79 58 0.49
80 9 0.08
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.32
Consensus pattern (79 bp):
GGGGATACTCCAACCCTAGCTTTATTTTCAAAACATCGATTTTTCACAATCGGGAATACTCCAAC
CCCATTATTTTTGA
Found at i:1057126 original size:208 final size:207
Alignment explanation
Indices: 1056826--1057232 Score: 577
Period size: 208 Copynumber: 2.0 Consensus size: 207
1056816 TTATTTCTGA
* * * *
1056826 GGGGATACTCCAACCTTGGTTTTATTTCCAAAACACTGATTTTTCACCATCGGGGATACTCTAAC
1 GGGGATACTCCAACCTTAGTTTTATTTCCAAAACACTGATTTTTCACAATCGGGAATACTCCAAC
* *
1056891 CCCGTTATTTCTGAGGGGATACTCCAACCCTGGTTTTATTTCTAAAACA-CTGATTTTTCATAAT
66 CCCGTTATTTCTGAGGGGATACTCCAACCCTGGCTTTATTTCTAAAACATC-GATTTTTCACAAT
* * * * *
1056955 C-GGAGATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAACCCTGATTTTATTTCCAAAACA
130 CGGGA-ATACTCCAACCCCATTATTTTCGAGAGG--ACTCCAACCCCGATCTTATTTCCAAAACA
1057019 CCAATTTTGCACAATC
192 CCAATTTTGCACAATC
* * * * *
1057035 GGGGATACTCTAACC-TAGTTTTCTTTTCAAAATACTGATTTTTCACAATCGGGAATACTCCAAT
1 GGGGATACTCCAACCTTAGTTTTATTTCCAAAACACTGATTTTTCACAATCGGGAATACTCCAAC
* * *
1057099 CCCGTTATTTTTGAGGGGATGCTCCAACCCTGGCTTTATTTTTAAAACATCGATTTTTCACAATC
66 CCCGTTATTTCTGAGGGGATACTCCAACCCTGGCTTTATTTCTAAAACATCGATTTTTCACAATC
*
1057164 GGGAATACTCCAACCCCATTATTTTCGAGAGGACTCCAACCCCGATCTTATTTCCAAAACATCAA
131 GGGAATACTCCAACCCCATTATTTTCGAGAGGACTCCAACCCCGATCTTATTTCCAAAACACCAA
1057229 TTTT
196 TTTT
1057233 CCACCATCAG
Statistics
Matches: 176, Mismatches: 20, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
206 34 0.19
208 124 0.70
209 18 0.10
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (207 bp):
GGGGATACTCCAACCTTAGTTTTATTTCCAAAACACTGATTTTTCACAATCGGGAATACTCCAAC
CCCGTTATTTCTGAGGGGATACTCCAACCCTGGCTTTATTTCTAAAACATCGATTTTTCACAATC
GGGAATACTCCAACCCCATTATTTTCGAGAGGACTCCAACCCCGATCTTATTTCCAAAACACCAA
TTTTGCACAATC
Found at i:1057159 original size:79 final size:77
Alignment explanation
Indices: 1057071--1057258 Score: 216
Period size: 79 Copynumber: 2.4 Consensus size: 77
1057061 TCAAAATACT
* * * * *
1057071 GATTTTTCACAATCGGGAATACTCCAATCCCGTTATTTTTGAGGGGATGCTCCAACCCTG-GCTT
1 GATTTTTCACAATCGGGAATACTCCAATCCCATTATTTTCGAGAGGA--CTCCAACCCCGATC-T
**
1057135 TATTTTTAAAACATC
63 TATTTCCAAAACATC
*
1057150 GATTTTTCACAATCGGGAATACTCCAACCCCATTATTTTCGAGAGGACTCCAACCCCGATCTTAT
1 GATTTTTCACAATCGGGAATACTCCAATCCCATTATTTTCGAGAGGACTCCAACCCCGATCTTAT
1057215 TTCCAAAACATC
66 TTCCAAAACATC
* * *
1057227 AATTTTCCACCATCAGGGAATGTACTCCAATC
1 GATTTTTCACAATC-GGGAA--TACTCCAATC
1057259 ACATACCCCG
Statistics
Matches: 93, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
77 35 0.38
78 6 0.06
79 43 0.46
80 9 0.10
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (77 bp):
GATTTTTCACAATCGGGAATACTCCAATCCCATTATTTTCGAGAGGACTCCAACCCCGATCTTAT
TTCCAAAACATC
Found at i:1068926 original size:9 final size:9
Alignment explanation
Indices: 1068912--1068946 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
1068902 CTTTTTTTAC
1068912 AAAAAAAGA
1 AAAAAAAGA
*
1068921 AAAAAATGA
1 AAAAAAAGA
1068930 AAAAAAAGA
1 AAAAAAAGA
1068939 AGAAAAAA
1 A-AAAAAA
1068947 AACCTGCTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 17 0.74
10 6 0.26
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:1069379 original size:13 final size:13
Alignment explanation
Indices: 1069361--1069386 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1069351 TACACCAAGT
1069361 ATGTATCGATACA
1 ATGTATCGATACA
1069374 ATGTATCGATACA
1 ATGTATCGATACA
1069387 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1069384 original size:32 final size:33
Alignment explanation
Indices: 1069343--1069406 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
1069333 TAGCCAAACT
* **
1069343 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
1069375 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
1069407 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:1071638 original size:21 final size:21
Alignment explanation
Indices: 1071605--1071654 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
1071595 TTGCAAGTTG
*
1071605 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
1071627 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
1071648 AAATAAA
1 AAATAAA
1071655 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:1071930 original size:139 final size:139
Alignment explanation
Indices: 1071680--1071948 Score: 529
Period size: 139 Copynumber: 1.9 Consensus size: 139
1071670 TTTTCTATGC
1071680 TTTATATGGCACACCAAAAATTAAATGACATTCTTGAAACTCAAAGAGCATTTTTCGATAAAAAT
1 TTTATATGGCACACCAAAAATTAAATGACATTCTTGAAACTCAAAGAGCATTTTTCGATAAAAAT
1071745 GGTGTAGGATATAATGCCTTTGAGAAAGAAACAAAATTTAAAAATTTCTTTGTAAAACACAAAAA
66 GGTGTAGGATATAATGCCTTTGAGAAAGAAACAAAATTTAAAAATTTCTTTGTAAAACACAAAAA
1071810 ATTGTGTCA
131 ATTGTGTCA
1071819 TTTATATGGCACACCAAAAATTAAATGACATTCTTGAAACTCAAAGAGCATTTTTCGATAAAAAT
1 TTTATATGGCACACCAAAAATTAAATGACATTCTTGAAACTCAAAGAGCATTTTTCGATAAAAAT
*
1071884 GGTGTAGGATATAATGCCTTTGAGAAAGAAACGAAATTTAAAAATTTCTTTGTAAAACACAAAAA
66 GGTGTAGGATATAATGCCTTTGAGAAAGAAACAAAATTTAAAAATTTCTTTGTAAAACACAAAAA
1071949 TGCCTCATAT
Statistics
Matches: 129, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
139 129 1.00
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.30
Consensus pattern (139 bp):
TTTATATGGCACACCAAAAATTAAATGACATTCTTGAAACTCAAAGAGCATTTTTCGATAAAAAT
GGTGTAGGATATAATGCCTTTGAGAAAGAAACAAAATTTAAAAATTTCTTTGTAAAACACAAAAA
ATTGTGTCA
Found at i:1075714 original size:13 final size:13
Alignment explanation
Indices: 1075696--1075734 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
1075686 ACATTTTTCT
1075696 TTGTATCGATACA
1 TTGTATCGATACA
1075709 TTGTATCGATACA
1 TTGTATCGATACA
1075722 TTGTATCGATACA
1 TTGTATCGATACA
1075735 GGGTGATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1078308 original size:13 final size:13
Alignment explanation
Indices: 1078290--1078315 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1078280 TACACCAAGT
1078290 ATGTATCGATACA
1 ATGTATCGATACA
1078303 ATGTATCGATACA
1 ATGTATCGATACA
1078316 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1078313 original size:32 final size:33
Alignment explanation
Indices: 1078272--1078335 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
1078262 TAGCCAAACT
* **
1078272 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
1078304 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
1078336 TACACACACG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:1078922 original size:19 final size:19
Alignment explanation
Indices: 1078879--1078952 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 19
1078869 ACACACCAGA
* *
1078879 TGTATCGATACATTATGCTT
1 TGTATCGATACATGAT-CAT
1078899 TGTATCGATACATGATCAT
1 TGTATCGATACATGATCAT
1078918 TGTATCGATACATGGA-CAAT
1 TGTATCGATACAT-GATC-AT
1078938 TGTATCGATACATGA
1 TGTATCGATACATGA
1078953 AATTGGCAGT
Statistics
Matches: 50, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
19 18 0.36
20 32 0.64
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (19 bp):
TGTATCGATACATGATCAT
Found at i:1079045 original size:33 final size:33
Alignment explanation
Indices: 1078980--1079048 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
1078970 CTACCACTGT
*
1078980 TTGTATCGATACATGGTACATTGCATCAATACA
1 TTGTATCGATACATGATACATTGCATCAATACA
* *
1079013 TTGTATCGATACATGATGA-ATTGTATCGATACA
1 TTGTATCGATACATGAT-ACATTGCATCAATACA
1079046 TTG
1 TTG
1079049 CTTGTAACGG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
33 31 0.97
34 1 0.03
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.36
Consensus pattern (33 bp):
TTGTATCGATACATGATACATTGCATCAATACA
Found at i:1081328 original size:20 final size:19
Alignment explanation
Indices: 1081280--1081336 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
1081270 TTGTATTGAT
*
1081280 ACAATGTATCGATACATGT
1 ACAATGTATCGATACATGC
* *
1081299 TCACTGTATCGATACATGC
1 ACAATGTATCGATACATGC
1081318 ACAATTGTATCGATACATG
1 ACAA-TGTATCGATACATG
1081337 AAACTGGTAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (19 bp):
ACAATGTATCGATACATGC
Found at i:1083002 original size:3 final size:3
Alignment explanation
Indices: 1082987--1083017 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
1082977 AACCATCAAA
*
1082987 GAT GAT GAA GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1083018 TTGACTCAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.29
Consensus pattern (3 bp):
GAT
Found at i:1085488 original size:13 final size:13
Alignment explanation
Indices: 1085470--1085508 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1085460 TCACTATTCA
1085470 TGTATCGATACAT
1 TGTATCGATACAT
*
1085483 TGTATCGATACAG
1 TGTATCGATACAT
1085496 TGTATCGATACAT
1 TGTATCGATACAT
1085509 CACTGTTCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1089396 original size:20 final size:22
Alignment explanation
Indices: 1089371--1089411 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
1089361 CCACCTCCAA
*
1089371 GTCGCAA-TTGGCA-CTCCCAG
1 GTCGCAACTAGGCAGCTCCCAG
1089391 GTCGCAACTAGGCAGCTCCCA
1 GTCGCAACTAGGCAGCTCCCA
1089412 CACCCACTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 5 0.28
22 6 0.33
ACGTcount: A:0.22, C:0.37, G:0.24, T:0.17
Consensus pattern (22 bp):
GTCGCAACTAGGCAGCTCCCAG
Found at i:1091466 original size:13 final size:13
Alignment explanation
Indices: 1091448--1091472 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1091438 CATTATGCTT
1091448 TGTATCGATACAA
1 TGTATCGATACAA
1091461 TGTATCGATACA
1 TGTATCGATACA
1091473 TGTTTACTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1091485 original size:19 final size:19
Alignment explanation
Indices: 1091461--1091512 Score: 104
Period size: 19 Copynumber: 2.7 Consensus size: 19
1091451 ATCGATACAA
1091461 TGTATCGATACATGTTTAC
1 TGTATCGATACATGTTTAC
1091480 TGTATCGATACATGTTTAC
1 TGTATCGATACATGTTTAC
1091499 TGTATCGATACATG
1 TGTATCGATACATG
1091513 CACAATTGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.40
Consensus pattern (19 bp):
TGTATCGATACATGTTTAC
Found at i:1092366 original size:16 final size:16
Alignment explanation
Indices: 1092347--1092391 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
1092337 AACTTATATC
*
1092347 ATTTTAGATTCAAATA
1 ATTTTAAATTCAAATA
* *
1092363 ATTTTAAATTTAAATC
1 ATTTTAAATTCAAATA
*
1092379 ATTTTAAACTCAA
1 ATTTTAAATTCAA
1092392 TTTATTTCAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.44
Consensus pattern (16 bp):
ATTTTAAATTCAAATA
Found at i:1097196 original size:2 final size:2
Alignment explanation
Indices: 1097191--1097215 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1097181 TTCCTTTTAA
1097191 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1097216 AAGCATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1097600 original size:17 final size:17
Alignment explanation
Indices: 1097564--1097597 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
1097554 GATATTAAAT
*
1097564 TATAAATCAAATTATAA
1 TATAAATCAAATGATAA
1097581 TATAAAGTCAAATGATA
1 TATAAA-TCAAATGATA
1097598 TATGTTGTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.32
Consensus pattern (17 bp):
TATAAATCAAATGATAA
Found at i:1098532 original size:13 final size:13
Alignment explanation
Indices: 1098514--1098539 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1098504 CAATTTTTTG
1098514 TGTATCGATACAT
1 TGTATCGATACAT
1098527 TGTATCGATACAT
1 TGTATCGATACAT
1098540 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1099287 original size:21 final size:21
Alignment explanation
Indices: 1099246--1099289 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1099236 CTCCCCTTTA
* *
1099246 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
1099267 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
1099288 TC
1 TC
1099290 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:1101111 original size:13 final size:13
Alignment explanation
Indices: 1101093--1101130 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
1101083 ATAATCACCT
1101093 TGTATCGATACAA
1 TGTATCGATACAA
1101106 TGTATCGATACAA
1 TGTATCGATACAA
1101119 TGTATCGATACA
1 TGTATCGATACA
1101131 TAGAATTTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1103202 original size:15 final size:15
Alignment explanation
Indices: 1103182--1103212 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1103172 ATTTCGTTTG
*
1103182 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1103197 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1103212 G
1 G
1103213 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1110780 original size:32 final size:32
Alignment explanation
Indices: 1110738--1110808 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
1110728 AGCTTCGTAG
1110738 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
* *
1110770 TGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
1110802 CGATACA
1 CGATACA
1110809 ACACTTTATG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.34
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:1110819 original size:20 final size:19
Alignment explanation
Indices: 1110746--1110829 Score: 99
Period size: 19 Copynumber: 4.7 Consensus size: 19
1110736 AGCGATACAT
*
1110746 TGTATCGATACAAAACTTA
1 TGTATCGATACAACACTTA
*
1110765 TGTATTGAT---ACA--T-
1 TGTATCGATACAACACTTA
1110778 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
1110797 TGTATCGATACAACACTTTA
1 TGTATCGATACAACAC-TTA
1110817 TGTATCGATACAA
1 TGTATCGATACAA
1110830 ATCGTTGAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 13
0.77 0.04 0.18
Matches are distributed among these distances:
13 8 0.15
14 1 0.02
16 5 0.09
18 1 0.02
19 24 0.44
20 16 0.29
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.35
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:1111433 original size:17 final size:18
Alignment explanation
Indices: 1111394--1111427 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
1111384 TTTAGTAGTT
1111394 TTAAATAATTATTTAAAA
1 TTAAATAATTATTTAAAA
*
1111412 TTAAAT-ATTTTTTAAA
1 TTAAATAATTATTTAAA
1111428 TATAAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TTAAATAATTATTTAAAA
Found at i:1112520 original size:33 final size:32
Alignment explanation
Indices: 1112478--1112542 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
1112468 ACACACCCAG
**
1112478 ATGTATCGATACATATTGTTTAGTATCGATACA
1 ATGTATCGATACATATTCATTA-TATCGATACA
*
1112511 ATGTATCGATACATGTTCATTATATCGATACA
1 ATGTATCGATACATATTCATTATATCGATACA
1112543 TCATGAATTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 10 0.34
33 19 0.66
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (32 bp):
ATGTATCGATACATATTCATTATATCGATACA
Found at i:1116800 original size:21 final size:21
Alignment explanation
Indices: 1116776--1116834 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
1116766 TAATATTCTT
*
1116776 GAAAAGAAATTAAATGAATTA
1 GAAAAGAAAATAAATGAATTA
*
1116797 GAAAAGAAAATAAATGAATCA
1 GAAAAGAAAATAAATGAATTA
** *
1116818 GAGGAGAAAAGAAATGA
1 GAAAAGAAAATAAATGA
1116835 GTTGCAACTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.63, C:0.02, G:0.20, T:0.15
Consensus pattern (21 bp):
GAAAAGAAAATAAATGAATTA
Found at i:1119374 original size:19 final size:20
Alignment explanation
Indices: 1119350--1119403 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
1119340 ACATTATGCT
**
1119350 TTGTATCGATACATGTTC-A
1 TTGTATCGATACATGCACAA
1119369 TTGTATCGATACATGCACAA
1 TTGTATCGATACATGCACAA
*
1119389 TTGTATTGATACATG
1 TTGTATCGATACATG
1119404 AAATTGGCAG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.39
Consensus pattern (20 bp):
TTGTATCGATACATGCACAA
Found at i:1119472 original size:33 final size:32
Alignment explanation
Indices: 1119435--1119497 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 32
1119425 CCACTGTTTG
1119435 TATCGATACATG-GCACATTGTATCGATACAATA
1 TATCGATACATGAG-A-ATTGTATCGATACAATA
*
1119468 TATCGATAGATGAAGAATTGTATCGATACA
1 TATCGATACATG-AGAATTGTATCGATACA
1119498 TTGTCCTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 25 0.93
34 1 0.04
35 1 0.04
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.30
Consensus pattern (32 bp):
TATCGATACATGAGAATTGTATCGATACAATA
Found at i:1128927 original size:18 final size:18
Alignment explanation
Indices: 1128904--1128950 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
1128894 TCACAATTTA
*
1128904 TATCGATACATTG-TTAT
1 TATCGATACATTGCTCAT
1128921 GTATCGATACA-TGCTCAT
1 -TATCGATACATTGCTCAT
1128939 TATCGATACATT
1 TATCGATACATT
1128951 CTGGTTTACC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (18 bp):
TATCGATACATTGCTCAT
Found at i:1128944 original size:17 final size:17
Alignment explanation
Indices: 1128904--1128949 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
1128894 TCACAATTTA
*
1128904 TATCGATACATTGTTATG
1 TATCGATACA-TGTCATG
1128922 TATCGATACATGCTCAT-
1 TATCGATACATG-TCATG
1128939 TATCGATACAT
1 TATCGATACAT
1128950 TCTGGTTTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.39
Consensus pattern (17 bp):
TATCGATACATGTCATG
Found at i:1128992 original size:20 final size:19
Alignment explanation
Indices: 1128967--1129038 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 19
1128957 TACCCAGAAT
*
1128967 TATCGATACATTTTGCATTA
1 TATCGATACATTTT-CATTG
* *
1128987 TATCGATACGTTGCTCATTG
1 TATCGATACATT-TTCATTG
*
1129007 TATCGATACATTTTACAATG
1 TATCGATACATTTT-CATTG
1129027 TATCGATACATT
1 TATCGATACATT
1129039 CCGGTATTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
19 1 0.02
20 42 0.95
21 1 0.02
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (19 bp):
TATCGATACATTTTCATTG
Found at i:1131369 original size:51 final size:50
Alignment explanation
Indices: 1131294--1131467 Score: 217
Period size: 51 Copynumber: 3.4 Consensus size: 50
1131284 AAATTTCTAG
* * *
1131294 ATTTTTCAT-CTCGGGGATACTCCAA-TCCCAGTTTCATTTCCAAAACATCA
1 ATTTTTCATAATCGGGGATACTCCAACTCCGA-TTTTATTTCCAAAACA-CA
* * *
1131344 ATTTTTCTTAATCGGGGATACTCCAACTCCGATTTTATTTCTAAAACACCC
1 ATTTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACA-CA
* *
1131395 ATTTTCCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACTG
1 ATTTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACAC-A
*
1131446 ACTTTTCATAATCGGGGATACT
1 ATTTTTCATAATCGGGGATACT
1131468 TCGACCCCGT
Statistics
Matches: 108, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
50 9 0.08
51 95 0.88
52 4 0.04
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.35
Consensus pattern (50 bp):
ATTTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACA
Found at i:1131500 original size:79 final size:77
Alignment explanation
Indices: 1131408--1132142 Score: 689
Period size: 79 Copynumber: 9.4 Consensus size: 77
1131398 TTCCATAATC
* * * *
1131408 GGGGATACTCCAACTCCGATTTTATTTCCAAAACACTGACTTTTCATAATCGGGGATACTTCGAC
1 GGGGATACTCCAAC-CCGATTTTATTTCTAAAACA-TGAATTTTCATAATCGGGGATACTCCAAC
*
1131473 CCCGTTATTTCCGA
64 CCCGTTATTTTCGA
* * * * *
1131487 GGGGACACTCCAACCCCGGTTTCATTTCTAAAACATCAATTTT--TCATCGGGGATACTCCAACC
1 GGGGATACTCCAA-CCCGATTTTATTTCTAAAACATGAATTTTCATAATCGGGGATACTCCAACC
1131550 CCGTTATTTTCGA
65 CCGTTATTTTCGA
* ** * *
1131563 -GGGATACCCCAACCCCGGCTTTATTTCTAAAATATTAATTTCTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAA-CCCGATTTTATTTCTAAAACATGAATTT-TCATAATCGGGGATACTCCAAC
1131627 CCCGTTA-TTTCTGA
64 CCCGTTATTTTC-GA
* * * * * *
1131641 AGGGATACTCCAACCTCG-GTTTATTTCTAAAATATCAAATTTTCATAGTC-GGGATACTCTAAC
1 GGGGATACTCCAACC-CGATTTTATTTCTAAAACAT-GAATTTTCATAATCGGGGATACTCCAAC
* * * *
1131704 CTCATTATTTCCAA
64 CCCGTTATTTTCGA
* * * * *
1131718 GGGGATACTCTAATCCTGATTTTATTTCTAAATCATCGATTTTTCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAA-CCCGATTTTATTTCTAAAACAT-GAATTTTCATAATCGGGGATACTCCAAC
1131783 CCCGTTATTTTCGA
64 CCCGTTATTTTCGA
* * ** ** * *
1131797 GGGGACACTCAAACCTTAGTTTCGTTTCTAAAACATCAATTTT--TCATCGGGGATACTCCAACC
1 GGGGATACTCCAACCCGA-TTTTATTTCTAAAACATGAATTTTCATAATCGGGGATACTCCAACC
*
1131860 CCGTTATTTTTGA
65 CCGTTATTTTCGA
* * * * *
1131873 GGGGATACCCCAACCCTTG-CTTTATTTCTAAAATATTAATTTCTCATAATCAGGGATACTCCAA
1 GGGGATACTCCAACCC--GATTTTATTTCTAAAACATGAATTT-TCATAATCGGGGATACTCCAA
**
1131937 CCCTATTATTTTCGA
63 CCCCGTTATTTTCGA
* * * *
1131952 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAGTCGGGGATAGTCCAAC
1 GGGGATACTCCAA-CCCGATTTTATTTCTAAAACATGAA-TTTTCATAATCGGGGATACTCCAAC
*
1132017 CCCGTTATTTCCGA
64 CCCGTTATTTTCGA
* * * * *
1132031 GAGAATACTCCAATCCCGATTTTATTTCTAAATCATCGATTTTTCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAA-CCCGATTTTATTTCTAAAACAT-GAATTTTCATAATCGGGGATACTCCAAC
1132096 CCCGTTATTTTCGA
64 CCCGTTATTTTCGA
* * *
1132110 GGAGATACTTCAACCTCG-TTATTATCTCTAAAA
1 GGGGATACTCCAACC-CGATT-TTATTTCTAAAA
1132143 TATTAAATTT
Statistics
Matches: 538, Mismatches: 94, Indels: 48
0.79 0.14 0.07
Matches are distributed among these distances:
75 35 0.07
76 90 0.17
77 35 0.07
78 102 0.19
79 268 0.50
80 8 0.01
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.33
Consensus pattern (77 bp):
GGGGATACTCCAACCCGATTTTATTTCTAAAACATGAATTTTCATAATCGGGGATACTCCAACCC
CGTTATTTTCGA
Found at i:1131929 original size:155 final size:155
Alignment explanation
Indices: 1131408--1132111 Score: 778
Period size: 155 Copynumber: 4.5 Consensus size: 155
1131398 TTCCATAATC
* * * * * * * *
1131408 GGGGATACTCCAACTCC-GATTTTATTTCCAAAACACTGACTTT-TCATAATCGGGGATACTTCG
1 GGGGATACCCCAAC-CCTGACTTTATTTCTAAATCA-TCAATTTCTCATAATCGGGGATACTCCA
*
1131471 ACCCCGTTATTTCCGAGGGGACACTCCAACCCCGGTTTCATTTCTAAAACATCAATTTTTCATCG
64 ACCCCGTTATTTTCGAGGGGACACTCCAACCCCGGTTTCATTTCTAAAACATCAATTTTTCATCG
*
1131536 GGGATACTCCAACCCCGTTATTTTCGA
129 GGGATACTCCAACCCCGTTATTTCCGA
* * *
1131563 -GGGATACCCCAACCCCGGCTTTATTTCTAAAAT-ATTAATTTCTCATAATCGGGGATACTCCAA
1 GGGGATACCCCAACCCTGACTTTATTTCT-AAATCATCAATTTCTCATAATCGGGGATACTCCAA
* * * * * *
1131626 CCCCGTTA-TTTCTGAAGGGATACTCCAACCTCGGTTT-ATTTCTAAAATATCAAATTTTCATAG
65 CCCCGTTATTTTC-GAGGGGACACTCCAACCCCGGTTTCATTTCTAAAACATCAATTTTTCATCG
* * * *
1131689 TCGGGATACTCTAACCTCATTATTTCCAA
129 --GGGATACTCCAACCCCGTTATTTCCGA
* * * * * * *
1131718 GGGGATACTCTAATCCTGATTTTATTTCTAAATCATCGATTTTTCACAATCGGGGATACTCCAAC
1 GGGGATACCCCAACCCTGACTTTATTTCTAAATCATCAATTTCTCATAATCGGGGATACTCCAAC
* *** *
1131783 CCCGTTATTTTCGAGGGGACACTCAAACCTTAGTTTCGTTTCTAAAACATCAATTTTTCATCGGG
66 CCCGTTATTTTCGAGGGGACACTCCAACCCCGGTTTCATTTCTAAAACATCAATTTTTCATCGGG
**
1131848 GATACTCCAACCCCGTTATTTTTGA
131 GATACTCCAACCCCGTTATTTCCGA
* *
1131873 GGGGATACCCCAACCCTTG-CTTTATTTCTAAAAT-ATTAATTTCTCATAATCAGGGATACTCCA
1 GGGGATACCCCAACCC-TGACTTTATTTCT-AAATCATCAATTTCTCATAATCGGGGATACTCCA
** * *
1131936 ACCCTATTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAG
64 ACCCCGTTATTTTCGAGGGGACACTCCAACCCCGGTTTCATTTCTAAAACATCAATTTTTC--A-
*
1132001 TCGGGGATAGTCCAACCCCGTTATTTCCGA
126 TCGGGGATACTCCAACCCCGTTATTTCCGA
* * * * * * *
1132031 GAGAATACTCCAATCCC-GATTTTATTTCTAAATCATCGATTTTTCACAATCGGGGATACTCCAA
1 GGGGATACCCCAA-CCCTGACTTTATTTCTAAATCATCAATTTCTCATAATCGGGGATACTCCAA
1132095 CCCCGTTATTTTCGAGG
65 CCCCGTTATTTTCGAGG
1132112 AGATACTTCA
Statistics
Matches: 453, Mismatches: 78, Indels: 33
0.80 0.14 0.06
Matches are distributed among these distances:
153 33 0.07
154 70 0.15
155 148 0.33
156 81 0.18
157 32 0.07
158 86 0.19
159 3 0.01
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (155 bp):
GGGGATACCCCAACCCTGACTTTATTTCTAAATCATCAATTTCTCATAATCGGGGATACTCCAAC
CCCGTTATTTTCGAGGGGACACTCCAACCCCGGTTTCATTTCTAAAACATCAATTTTTCATCGGG
GATACTCCAACCCCGTTATTTCCGA
Found at i:1131931 original size:234 final size:230
Alignment explanation
Indices: 1131408--1132155 Score: 790
Period size: 234 Copynumber: 3.2 Consensus size: 230
1131398 TTCCATAATC
* * * * * *
1131408 GGGGATACTCCAA-CTCCGATTTTATTTCCAAAACACTGACTTT-TCATAATCGGGGATACTTCG
1 GGGGATACTCCAACCT-CG-CTTTATTTCTAAAATA-TTAATTTCTCATAATC-GGGATAC-TCT
* * * *
1131471 ACCCCGTTATTTCCGAGGGGACACTCCAACCCCGGTTTCATTTCTAAAACATCAATTTTT--C-A
61 AACCCATTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAA
* * * *
1131533 TCGGGGATACTCCAACCCCGTTATTTTCGA-GGGATACCCCAACCCCGGCTTTATTTCTAAAATA
126 TCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCAAACCCCAG-TTTATTTCTAAAACA
* * *
1131597 TTAATTTCTCATAATCGGGGATACTCCAACCCCGTTATTTCTGA
190 TCAATTT-T--TCATCGGGGATACTCCAACCCCGTTATTTTTGA
* * * *
1131641 AGGGATACTCCAACCTCGGTTTATTTCTAAAATATCAAATTT-TCATAGTCGGGATACTCTAACC
1 GGGGATACTCCAACCTCGCTTTATTTCTAAAATAT-TAATTTCTCATAATCGGGATACTCTAACC
* * * * * * *
1131705 TCATTATTTCCAAGGGGATACTCTAATCCTGATTTTATTTCTAAATCATCGATTTTTCACAATCG
65 -CATTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCG
* ** *
1131770 GGGATACTCCAACCCCGTTATTTTCGAGGGGACACTCAAACCTTAGTTTCGTTTCTAAAACATCA
129 GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCAAACCCCAGTTT-ATTTCTAAAACATCA
1131835 ATTTTTCATCGGGGATACTCCAACCCCGTTATTTTTGA
193 ATTTTTCATCGGGGATACTCCAACCCCGTTATTTTTGA
* * *
1131873 GGGGATACCCCAACCCTTGCTTTATTTCTAAAATATTAATTTCTCATAATCAGGGATACTCCAAC
1 GGGGATACTCCAA-CCTCGCTTTATTTCTAAAATATTAATTTCTCATAATC-GGGATACTCTAAC
* * *
1131938 CCTATTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAGTC
64 CC-ATTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATC
* * * * * * * *
1132003 GGGGATAGTCCAACCCCGTTATTTCCGAGAGAATACTCCAATCCCGATTTTATTTCTAAATCATC
128 GGGGATACTCCAACCCCGTTATTTTCGAGGGGATACT-CAAACCCCAGTTTATTTCTAAAACATC
* *
1132068 GATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGA
192 AATTTTT--C-ATCGGGGATACTCCAACCCCGTTATTTTTGA
* * * *
1132110 GGAGATACTTCAACCTCGTTATTATCTCTAAAATATTAAATTTCTC
1 GGGGATACTCCAACCTCGCT-TTATTTCTAAAATATT-AATTTCTC
1132156 TTCGGGAGAT
Statistics
Matches: 431, Mismatches: 66, Indels: 31
0.82 0.12 0.06
Matches are distributed among these distances:
230 5 0.01
231 54 0.13
232 71 0.16
233 43 0.10
234 152 0.35
235 37 0.09
236 6 0.01
237 55 0.13
238 8 0.02
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (230 bp):
GGGGATACTCCAACCTCGCTTTATTTCTAAAATATTAATTTCTCATAATCGGGATACTCTAACCC
ATTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGG
GATACTCCAACCCCGTTATTTTCGAGGGGATACTCAAACCCCAGTTTATTTCTAAAACATCAATT
TTTCATCGGGGATACTCCAACCCCGTTATTTTTGA
Found at i:1136260 original size:19 final size:20
Alignment explanation
Indices: 1136236--1136289 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
1136226 ACATTATGCT
***
1136236 TTGTATCGATACATG-TTTA
1 TTGTATCGATACATGCACAA
*
1136255 TTGTATCAATACATGCACAA
1 TTGTATCGATACATGCACAA
1136275 TTGTATCGATACATG
1 TTGTATCGATACATG
1136290 AAATTGGTAG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (20 bp):
TTGTATCGATACATGCACAA
Found at i:1140713 original size:52 final size:52
Alignment explanation
Indices: 1140633--1140752 Score: 204
Period size: 52 Copynumber: 2.3 Consensus size: 52
1140623 AAAAGTTACT
* * *
1140633 TGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAGATTTGCC
1 TGCATGTATCGATACATTTAATAATGTATCGATACATCTAGGCAAATTTGCC
*
1140685 TGCATGTATCGATACATTTTATAATGTATCGATACATCTAGGCAAATTTGCC
1 TGCATGTATCGATACATTTAATAATGTATCGATACATCTAGGCAAATTTGCC
1140737 TGCATGTATCGATACA
1 TGCATGTATCGATACA
1140753 AAGATCGATG
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 64 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.35
Consensus pattern (52 bp):
TGCATGTATCGATACATTTAATAATGTATCGATACATCTAGGCAAATTTGCC
Found at i:1140764 original size:52 final size:52
Alignment explanation
Indices: 1140633--1140772 Score: 176
Period size: 52 Copynumber: 2.7 Consensus size: 52
1140623 AAAAGTTACT
* * * *
1140633 TGCATGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGCAGATTTGCC
1 TGCATGTATCGATACA-TAAGATAATGTATCGATACATCTAGGCAAATTTGCC
***
1140685 TGCATGTATCGATACATTTTATAATGTATCGATACATCTAGGCAAATTTGCC
1 TGCATGTATCGATACATAAGATAATGTATCGATACATCTAGGCAAATTTGCC
*
1140737 TGCATGTATCGATACA-AAGATCGATGTATCGATACA
1 TGCATGTATCGATACATAAGAT-AATGTATCGATACA
1140773 ATGTATCGAT
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
51 4 0.05
52 74 0.95
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.34
Consensus pattern (52 bp):
TGCATGTATCGATACATAAGATAATGTATCGATACATCTAGGCAAATTTGCC
Found at i:1140778 original size:13 final size:13
Alignment explanation
Indices: 1140760--1140785 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1140750 ACAAAGATCG
1140760 ATGTATCGATACA
1 ATGTATCGATACA
1140773 ATGTATCGATACA
1 ATGTATCGATACA
1140786 TTTGAGTAAT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1140863 original size:33 final size:33
Alignment explanation
Indices: 1140826--1140892 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1140816 AGTAGCTTAA
1140826 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1140859 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1140892 A
1 A
1140893 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1140866 original size:13 final size:13
Alignment explanation
Indices: 1140848--1140872 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1140838 CAAAAAAATA
1140848 TGTATCGATACAT
1 TGTATCGATACAT
1140861 TGTATCGATACA
1 TGTATCGATACA
1140873 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1141331 original size:13 final size:13
Alignment explanation
Indices: 1141313--1141340 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1141303 TTTTCACAAT
1141313 TTGTATCGATACA
1 TTGTATCGATACA
1141326 TTGTATCGATACA
1 TTGTATCGATACA
1141339 TT
1 TT
1141341 TTGGTTTACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1141382 original size:20 final size:20
Alignment explanation
Indices: 1141357--1141408 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
1141347 TACCCAAAAT
*
1141357 TATCGATACATT-TTGCATTG
1 TATCGATACATTGCT-CATTG
*
1141377 TATCGATACGTTGCTCATTG
1 TATCGATACATTGCTCATTG
1141397 TATCGATACATT
1 TATCGATACATT
1141409 CAGGTATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.25, C:0.17, G:0.15, T:0.42
Consensus pattern (20 bp):
TATCGATACATTGCTCATTG
Found at i:1143678 original size:51 final size:51
Alignment explanation
Indices: 1143616--1143776 Score: 191
Period size: 51 Copynumber: 3.2 Consensus size: 51
1143606 TTTCATCTCG
* * * * *
1143616 GGGATACTCCAA-TCCTAGTTTCATTTCCAAAACATCAATTTTTCTTAATCA
1 GGGATACTCCAACTCCGA-TTTTATTTCCAAAACACCAATTTTCCATAATCA
* * *
1143667 GGGATACTCCAACTCCGATTTTATTTCTAAAACACCCATTTTCCATAATCG
1 GGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTCCATAATCA
* * *
1143718 GGGATACTCCAACTCCGATTTTATTTCCAAAACACTGACTTTT-CATAATCG
1 GGGATACTCCAACTCCGATTTTATTTCCAAAACAC-CAATTTTCCATAATCA
1143769 GGGATACT
1 GGGATACT
1143777 TTGACCCCGT
Statistics
Matches: 96, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
51 88 0.92
52 8 0.08
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (51 bp):
GGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTCCATAATCA
Found at i:1143809 original size:79 final size:78
Alignment explanation
Indices: 1143717--1144463 Score: 744
Period size: 79 Copynumber: 9.5 Consensus size: 78
1143707 TTCCATAATC
* * * ***
1143717 GGGGATACTCCAACTCCGATTTTATTTCCAAAACA-CTGACTTTTCATAATCGGGGATACTTTGA
1 GGGGATACTCCAAC-CCGATTTTATTTCTAAAACATC-AAATTTTCATAATCGGGGATACTCCAA
*
1143781 CCCCGTTATTTCCGA
64 CCCCGTTATTTTCGA
* * * *
1143796 GGGGACACTCCAACCCTGGTTTCATTTCTAAAACATCAATTTTTC-T--TCGGGGATACTCCAAC
1 GGGGATACTCCAACCC-GATTTTATTTCTAAAACATCAAATTTTCATAATCGGGGATACTCCAAC
1143858 CCCGTTATTTTCGA
65 CCCGTTATTTTCGA
* * * *
1143872 GGGGATACCCCAACCCCGACTTTATTTCTAAAATAT-TAATTTCTCATAATCGGGGATACTCCAA
1 GGGGATACTCCAA-CCCGATTTTATTTCTAAAACATCAAATTT-TCATAATCGGGGATACTCCAA
*
1143936 CCCCGTTATTTCCGA
64 CCCCGTTATTTTCGA
* * * * *
1143951 AGGGATACTCCAACCTCGGTTTTATTTCTAAAATATCAAATTTTTATAGTC-GGGATACTCCAAC
1 GGGGATACTCCAACC-CGATTTTATTTCTAAAACATCAAATTTTCATAATCGGGGATACTCCAAC
* *
1144015 CCCGTTATTTCCAA
65 CCCGTTATTTTCGA
* * * * * *
1144029 GGGGATACTCTAATCCTGATTTTATTTCTAAATCATCGATTTTTCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAA-CCCGATTTTATTTCTAAAACATCAAATTTTCATAATCGGGGATACTCCAAC
*
1144094 CCCGTTATTTTTGA
65 CCCGTTATTTTCGA
* * * ** * *
1144108 GGGGACACTCAAACCCTAGTTTCGTTTCTAAAACATC-AATTTT--TCATCGAGGATACTCCAAC
1 GGGGATACTCCAACCCGA-TTTTATTTCTAAAACATCAAATTTTCATAATCGGGGATACTCCAAC
1144170 CCCGTTATTTTCGA
65 CCCGTTATTTTCGA
* * * *
1144184 GGGGATACCCCAACCCTTG-CTTTATTTCTAAAATAT-TAATTTCTCATAATCGGGGATACTCCA
1 GGGGATACTCCAACCC--GATTTTATTTCTAAAACATCAAATTT-TCATAATCGGGGATACTCCA
**
1144247 ACCCTATTATTTTCGA
63 ACCCCGTTATTTTCGA
* * * *
1144263 AGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAGTCGGGGATACTCCAAC
1 GGGGATACTCCAA-CCCGATTTTATTTCTAAAACATCAAATTTTCATAATCGGGGATACTCCAAC
*
1144328 CCCGTTATTTCCGA
65 CCCGTTATTTTCGA
* * * * * *
1144342 GAGAATACTCCAATCCCGATTTTATTTCTAAATCATCGATTTTTCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAA-CCCGATTTTATTTCTAAAACATCAAATTTTCATAATCGGGGATACTCCAAC
1144407 CCCGTTATTTTCGA
65 CCCGTTATTTTCGA
* * * * *
1144421 GGAGATACTTCAACCTCG-TTATTATCTCTAAAATATTAAATTT
1 GGGGATACTCCAACC-CGATT-TTATTTCTAAAACATCAAATTT
1144464 CTCTTCGGGA
Statistics
Matches: 550, Mismatches: 95, Indels: 46
0.80 0.14 0.07
Matches are distributed among these distances:
75 4 0.01
76 114 0.21
77 5 0.01
78 81 0.15
79 333 0.61
80 13 0.02
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (78 bp):
GGGGATACTCCAACCCGATTTTATTTCTAAAACATCAAATTTTCATAATCGGGGATACTCCAACC
CCGTTATTTTCGA
Found at i:1144235 original size:155 final size:156
Alignment explanation
Indices: 1143717--1144422 Score: 811
Period size: 155 Copynumber: 4.5 Consensus size: 156
1143707 TTCCATAATC
* * * * * * ***
1143717 GGGGATACTCCAACTCC-GATTTTATTTCCAAAACACTGACTTT-TCATAATCGGGGATACTTTG
1 GGGGATACCCCAAC-CCTGACTTTATTTCTAAATCA-TCAATTTCTCATAATCGGGGATACTCCA
* *
1143780 ACCCCGTTATTTCCGAGGGGACACTCCAACCCTGGTTTCATTTCTAAAACATCAATTTTTC-TTC
64 ACCCCGTTATTTTCGAGGGGACACTCCAACCCTGGTTTCATTTCTAAAACATCAATTTTTCAGTC
*
1143844 GGGGATACTCCAACCCCGTTATTTTCGA
129 GGGGATACTCCAACCCCGTTATTTCCGA
* *
1143872 GGGGATACCCCAACCCCGACTTTATTTCTAAAAT-ATTAATTTCTCATAATCGGGGATACTCCAA
1 GGGGATACCCCAACCCTGACTTTATTTCT-AAATCATCAATTTCTCATAATCGGGGATACTCCAA
* * * * * *
1143936 CCCCGTTATTTCCGAAGGGATACTCCAA-CCTCGGTTTTATTTCTAAAATATCAAATTTTTATAG
65 CCCCGTTATTTTCGAGGGGACACTCCAACCCT-GGTTTCATTTCTAAAACATC-AATTTTT-CAG
*
1144000 TC-GGGATACTCCAACCCCGTTATTTCCAA
127 TCGGGGATACTCCAACCCCGTTATTTCCGA
* * * * * * *
1144029 GGGGATACTCTAATCCTGATTTTATTTCTAAATCATCGATTTTTCACAATCGGGGATACTCCAAC
1 GGGGATACCCCAACCCTGACTTTATTTCTAAATCATCAATTTCTCATAATCGGGGATACTCCAAC
* * * * *
1144094 CCCGTTATTTTTGAGGGGACACTCAAACCCTAGTTTCGTTTCTAAAACATCAATTTTTCA-TCGA
66 CCCGTTATTTTCGAGGGGACACTCCAACCCTGGTTTCATTTCTAAAACATCAATTTTTCAGTCGG
*
1144158 GGATACTCCAACCCCGTTATTTTCGA
131 GGATACTCCAACCCCGTTATTTCCGA
*
1144184 GGGGATACCCCAACCCTTG-CTTTATTTCTAAAAT-ATTAATTTCTCATAATCGGGGATACTCCA
1 GGGGATACCCCAACCC-TGACTTTATTTCT-AAATCATCAATTTCTCATAATCGGGGATACTCCA
** * * * *
1144247 ACCCTATTATTTTCGAAGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAG
64 ACCCCGTTATTTTCGAGGGGACACTCCAACCCTGGTTTCATTTCTAAAACATCAATTTTTC--AG
1144312 TCGGGGATACTCCAACCCCGTTATTTCCGA
127 TCGGGGATACTCCAACCCCGTTATTTCCGA
* * * * * * *
1144342 GAGAATACTCCAATCCC-GATTTTATTTCTAAATCATCGATTTTTCACAATCGGGGATACTCCAA
1 GGGGATACCCCAA-CCCTGACTTTATTTCTAAATCATCAATTTCTCATAATCGGGGATACTCCAA
1144406 CCCCGTTATTTTCGAGG
65 CCCCGTTATTTTCGAGG
1144423 AGATACTTCA
Statistics
Matches: 463, Mismatches: 70, Indels: 33
0.82 0.12 0.06
Matches are distributed among these distances:
154 12 0.03
155 209 0.45
156 27 0.06
157 120 0.26
158 92 0.20
159 3 0.01
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (156 bp):
GGGGATACCCCAACCCTGACTTTATTTCTAAATCATCAATTTCTCATAATCGGGGATACTCCAAC
CCCGTTATTTTCGAGGGGACACTCCAACCCTGGTTTCATTTCTAAAACATCAATTTTTCAGTCGG
GGATACTCCAACCCCGTTATTTCCGA
Found at i:1144285 original size:312 final size:312
Alignment explanation
Indices: 1143717--1144422 Score: 1114
Period size: 312 Copynumber: 2.3 Consensus size: 312
1143707 TTCCATAATC
* * * * ***
1143717 GGGGATACTCCAACTCCGATTTTATTTCCAAAACA-CTGACTTTTCATAATCGGGGATACTTTGA
1 GGGGATACTCCAA-TCCGATTTTATTTCTAAATCATC-GATTTTTCACAATCGGGGATACTCCAA
* * * * *
1143781 CCCCGTTATTTCCGAGGGGACACTCCAACCCTGGTTTCATTTCTAAAACATCAATTTTTCTTCGG
64 CCCCGTTATTTTCGAGGGGACACTCAAACCCTAGTTTCATTTCTAAAACATCAATTTTTCATCGA
1143846 GGATACTCCAACCCCGTTATTTTCGAGGGGATACCCCAACCCCGACTTTATTTCTAAAATATTAA
129 GGATACTCCAACCCCGTTATTTTCGAGGGGATACCCCAACCCCGACTTTATTTCTAAAATATTAA
* *
1143911 TTTCTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAAGGGATACTCCAACCTCGGTTTTAT
194 TTTCTCATAATCGGGGATACTCCAACCCCATTATTTCCGAAGGGATACTCCAACCCCGGTTTTAT
*
1143976 TTCTAAAATATCAAATTTTT-ATAGTC-GGGATACTCCAACCCCGTTATTTCCAA
259 TTCTAAAACATC-AATTTTTCATAGTCGGGGATACTCCAACCCCGTTATTTCCAA
*
1144029 GGGGATACTCTAATCCTGATTTTATTTCTAAATCATCGATTTTTCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAATCC-GATTTTATTTCTAAATCATCGATTTTTCACAATCGGGGATACTCCAAC
* *
1144094 CCCGTTATTTTTGAGGGGACACTCAAACCCTAGTTTCGTTTCTAAAACATCAATTTTTCATCGAG
65 CCCGTTATTTTCGAGGGGACACTCAAACCCTAGTTTCATTTCTAAAACATCAATTTTTCATCGAG
*
1144159 GATACTCCAACCCCGTTATTTTCGAGGGGATACCCCAACCCTTG-CTTTATTTCTAAAATATTAA
130 GATACTCCAACCCCGTTATTTTCGAGGGGATACCCCAACCC-CGACTTTATTTCTAAAATATTAA
* *
1144223 TTTCTCATAATCGGGGATACTCCAACCCTATTATTTTCGAAGGGATACTCCAACCCCGGTTTTAT
194 TTTCTCATAATCGGGGATACTCCAACCCCATTATTTCCGAAGGGATACTCCAACCCCGGTTTTAT
*
1144288 TTCTAAAACATCAATTTTTCATAGTCGGGGATACTCCAACCCCGTTATTTCCGA
259 TTCTAAAACATCAATTTTTCATAGTCGGGGATACTCCAACCCCGTTATTTCCAA
* *
1144342 GAGAATACTCCAATCCCGATTTTATTTCTAAATCATCGATTTTTCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAAT-CCGATTTTATTTCTAAATCATCGATTTTTCACAATCGGGGATACTCCAAC
1144407 CCCGTTATTTTCGAGG
65 CCCGTTATTTTCGAGG
1144423 AGATACTTCA
Statistics
Matches: 362, Mismatches: 26, Indels: 11
0.91 0.07 0.03
Matches are distributed among these distances:
311 10 0.03
312 248 0.69
313 102 0.28
314 2 0.01
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (312 bp):
GGGGATACTCCAATCCGATTTTATTTCTAAATCATCGATTTTTCACAATCGGGGATACTCCAACC
CCGTTATTTTCGAGGGGACACTCAAACCCTAGTTTCATTTCTAAAACATCAATTTTTCATCGAGG
ATACTCCAACCCCGTTATTTTCGAGGGGATACCCCAACCCCGACTTTATTTCTAAAATATTAATT
TCTCATAATCGGGGATACTCCAACCCCATTATTTCCGAAGGGATACTCCAACCCCGGTTTTATTT
CTAAAACATCAATTTTTCATAGTCGGGGATACTCCAACCCCGTTATTTCCAA
Found at i:1146230 original size:13 final size:13
Alignment explanation
Indices: 1146212--1146236 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1146202 ATATTGCTTA
1146212 GTATCGATACATG
1 GTATCGATACATG
1146225 GTATCGATACAT
1 GTATCGATACAT
1146237 ATTCTTGGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
GTATCGATACATG
Found at i:1146253 original size:32 final size:33
Alignment explanation
Indices: 1146192--1146255 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
1146182 ACACCCAGAT
1146192 GTATCAATACATATTGCTTAGTATCGATACATG
1 GTATCAATACATATTGCTTAGTATCGATACATG
* *
1146225 GTATCGATACATATT-CTTGGTATCGATACAT
1 GTATCAATACATATTGCTTAGTATCGATACAT
1146256 CATAAATTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.38
Consensus pattern (33 bp):
GTATCAATACATATTGCTTAGTATCGATACATG
Found at i:1146328 original size:24 final size:24
Alignment explanation
Indices: 1146301--1146360 Score: 111
Period size: 24 Copynumber: 2.5 Consensus size: 24
1146291 TAAATCTCAT
1146301 TGTTCATGTATCACTATTCATCAC
1 TGTTCATGTATCACTATTCATCAC
*
1146325 TGTTCATGTACCACTATTCATCAC
1 TGTTCATGTATCACTATTCATCAC
1146349 TGTTCATGTATC
1 TGTTCATGTATC
1146361 GATACCTTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.23, C:0.25, G:0.10, T:0.42
Consensus pattern (24 bp):
TGTTCATGTATCACTATTCATCAC
Found at i:1146470 original size:20 final size:22
Alignment explanation
Indices: 1146424--1146470 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 22
1146414 AATTTCAAAT
1146424 GCGTGTATCGATACATTATGAA
1 GCGTGTATCGATACATTATGAA
*
1146446 --TTGTATCGATACA-TA-GAA
1 GCGTGTATCGATACATTATGAA
1146464 GCGTGTA
1 GCGTGTA
1146471 AGTGCAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 6
0.72 0.07 0.21
Matches are distributed among these distances:
18 3 0.14
19 2 0.10
20 16 0.76
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (22 bp):
GCGTGTATCGATACATTATGAA
Found at i:1146871 original size:36 final size:34
Alignment explanation
Indices: 1146826--1146923 Score: 114
Period size: 36 Copynumber: 2.9 Consensus size: 34
1146816 CTAAGTGATT
1146826 GAGAGGTTCTATCTTAGCCTTTGTAAAAGATAGGGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATA-GGA
**
1146862 GAGAGGTTCTATCTTAGCCCATGAAAAGATAGGA
1 GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGGA
* *
1146896 -AG-GTTTCTATCTTGGCC-TTG-AAAGATAG
1 GAGAGGTTCTATCTTAGCCTTTGAAAAGATAG
1146924 TGTTGTAAGG
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
30 8 0.14
31 2 0.04
32 13 0.23
33 2 0.04
34 3 0.05
35 8 0.14
36 21 0.37
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.30
Consensus pattern (34 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGGA
Found at i:1148053 original size:145 final size:143
Alignment explanation
Indices: 1147883--1148154 Score: 350
Period size: 145 Copynumber: 1.9 Consensus size: 143
1147873 TAGACCTTTA
* * * * * *
1147883 ACCAACTTAAGAACACCTCTAAATGAGTTTGAAAAAATTGA-AAATATTATGAAACAATCCCTAT
1 ACCAACCTAAAAACACCCCTAAATGAGTTTGAAAAAATTGAGAAAAATTATGAAACAAGCACTA-
* *
1147947 AAATGCTTCCATGAACCAAAAGA-CCCCTAAATAGCCTAAAAATTAAAGAAAAAAATTACATTTT
65 AAA-G-TGCCATAAACCAAAAGAGCCCCTAAATAGCCTAAAAATTAAA-AAAAAAATTACATTTT
1148011 AGACCCTATAGGTTTTG
127 AGACCCTATAGGTTTTG
* *
1148028 ACCAACCTAAAAATACCCCTAAATGAGTTTGAAAAAATTGAGAAAAATTATGAAACAAGCACTAC
1 ACCAACCTAAAAACACCCCTAAATGAGTTTGAAAAAATTGAGAAAAATTATGAAACAAGCACTAA
* * * * * *
1148093 AAGTGGCATAAACCAAAATAGCCCCTAAATGGCCTAAAATTTAAAACAAAAATTGCATTTTA
66 AAGTGCCATAAACCAAAAGAGCCCCTAAATAGCCTAAAAATTAAAAAAAAAATTACATTTTA
1148155 ACCTTAAAGT
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
143 28 0.26
144 23 0.21
145 39 0.36
146 19 0.17
ACGTcount: A:0.47, C:0.18, G:0.11, T:0.24
Consensus pattern (143 bp):
ACCAACCTAAAAACACCCCTAAATGAGTTTGAAAAAATTGAGAAAAATTATGAAACAAGCACTAA
AAGTGCCATAAACCAAAAGAGCCCCTAAATAGCCTAAAAATTAAAAAAAAAATTACATTTTAGAC
CCTATAGGTTTTG
Found at i:1150348 original size:475 final size:473
Alignment explanation
Indices: 1149037--1150411 Score: 1863
Period size: 475 Copynumber: 2.9 Consensus size: 473
1149027 AACAGTCTAC
*
1149037 ATGCTTTGATGTCGCAAGAAAAGCTTTTCTTTCCAC-TGTTTTTGATAGAATCAAAGTTTGTCTC
1 ATGCTTTGATGTCGCAAGAAAAGCTTTTCTTTCTACAT-TTTTT-ATAGAATCAAAGTTTGTCTC
* * *
1149101 TTAAATAAGACAAACATGAATACTCATACTAATCCCCATTCTTTTCAAGATTAGACGCCATAAAC
64 TTAAATAAGACAAACATGAATACTCATACTAATCCCTATTCTTTTCAAGATTAGGCACCATAAAC
* * * * * * *
1149166 ATAGTCTTCTCAATATGATACATGATATTGGTGCTTTGGTTTTGCAAAAAAGGCTTTTTTCCCAC
129 ATAGTCTTCTCATTAGGATACACGATATTGATGCTTTGGTTTTACAAGAAAGGCATTTTTCCCAC
*
1149231 CAATTTTTGTAAAGTCTATGTTCATGCCTCAAATGAGACAAACATGGATTCTAGTGATT-ATCTT
194 CAATTTTTGT-AAGTCTAAGTTCATGCCTCAAATGAGACAAACATGGATTCTAGT-ATTGATCTT
** **
1149295 TTTTCATTTCATGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATT
257 CATTCATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATT
*
1149360 TTCTTTTGCATTG-AAATCTTTTCTTTGCCCTATTTT-CTCTAAAATCAAAGTTCATCCCTTAAG
322 TTCTTTTGCA-TGAAAATCTTTTCTTTGCCCTATTTTCCT-TAAAATCAAAGTTCATCCCTTAAA
* * * * * *
1149423 TAAGATAAGCATCGATTCTCGTATCAATCTCCATTATTTTCAGGATTGGAAACTAAAACACATTC
385 TAAGACAAGCATCGATTCTCATAACAATCTCCATTATTTCCAGAATAGGAAACTAAAACACATTC
*
1149488 CTTTCATTAAGGTGCTTGACATTG
450 CTTTCATTAAGGTACTTGACATTG
* * * * *
1149512 ATG-TTCTGGTGTCACAAGAAGAGCTTTTCTTT-TCACCATTTTTGATAAAATCAAAGTTTGTCT
1 ATGCTT-TGATGTCGCAAGAAAAGCTTTTCTTTCT-A-CATTTTTTATAGAATCAAAGTTTGTCT
* **
1149575 CTTAAATAAGACAAACATGAATACTCATACTAATCCCTATTCTTTTCAGGATTAGGCACTGTAAA
63 CTTAAATAAGACAAACATGAATACTCATACTAATCCCTATTCTTTTCAAGATTAGGCACCATAAA
* * *
1149640 CATAGTCTTCTCATTAGGATACACTGATATTGTTGCTTTGATTTTAGCAAGAATGGCATTTTTCC
128 CATAGTCTTCTCATTAGGATACAC-GATATTGATGCTTTGGTTTTA-CAAGAAAGGCATTTTTCC
* ** * * * *
1149705 CACCAATTTTTGTAAATTCTAAGTTTGTGCCTCAAATGCGACAAACGTGAATTCTAGTAATGATC
191 CACCAATTTTTGT-AAGTCTAAGTTCATGCCTCAAATGAGACAAACATGGATTCTAGTATTGATC
* * * * *
1149770 TTCATTCATTTTGTGATTAGGTAGTATAAGCACATTCTCCTCATTAGGATAAATGATATTAATAA
255 TTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGA
*
1149835 TTTTCTTTTGCAT-AGAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCTCTTAA
320 TTTTCTTTTGCATGA-AAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAA
* * *
1149899 ATAAGACAAGCATCGATTCTCATAACAGTCTCCCTTATTTCCTAGAATAGGAAACTAAAACATAT
384 ATAAGACAAGCATCGATTCTCATAACAATCTCCATTATTTCC-AGAATAGGAAACTAAAACACAT
*
1149964 TCCTTTCATTAAGGTACTTGACCTTG
448 TCCTTTCATTAAGGTACTTGACATTG
* *
1149990 ATGCTTTGATGTCGCAAGAAAAGCTTTTCTTTCTAGCATTTTTTAGAGATTCAAAGTTTGTCTCT
1 ATGCTTTGATGTCGCAAGAAAAGCTTTTCTTTCTA-CATTTTTTATAGAATCAAAGTTTGTCTCT
** * * **
1150055 TAAATAAGACAAACACAAATACTCATACTAATCCCTATTCTTCTCAAAATTAGGCACCATAAATG
65 TAAATAAGACAAACATGAATACTCATACTAATCCCTATTCTTTTCAAGATTAGGCACCATAAACA
* * * * * *
1150120 TAGTCTTCTCATTA-GATACACGATATTAATGTTTTGGTTTCACAAGAAAGGAATTTTTCCTATC
130 TAGTCTTCTCATTAGGATACACGATATTGATGCTTTGGTTTTACAAGAAAGGCATTTTTCCCACC
*
1150184 AATTTTTGTAAGTCCTAAGTTCATACCAT-AAATGAGACAAACATGGATTCTAGTATTGATCTTC
195 AATTTTTGTAAGT-CTAAGTTCATGCC-TCAAATGAGACAAACATGGATTCTAGTATTGATCTTC
*
1150248 ATTCATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTATGATAAATGATATTGATGATTT
258 ATTCATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATTT
* *
1150313 TATTTTGCATGAAAATCTTTTCTTTGCCTTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAA
323 TCTTTTGCATGAAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAA
* * *
1150378 GGCAAGCATCGATTCTCGTATC--TCTCCATTATTT
388 GACAAGCATCGATTCTCATAACAATCTCCATTATTT
1150412 TCAAGATTAG
Statistics
Matches: 786, Mismatches: 98, Indels: 34
0.86 0.11 0.04
Matches are distributed among these distances:
473 11 0.01
474 5 0.01
475 331 0.42
476 44 0.06
477 225 0.29
478 167 0.21
479 3 0.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (473 bp):
ATGCTTTGATGTCGCAAGAAAAGCTTTTCTTTCTACATTTTTTATAGAATCAAAGTTTGTCTCTT
AAATAAGACAAACATGAATACTCATACTAATCCCTATTCTTTTCAAGATTAGGCACCATAAACAT
AGTCTTCTCATTAGGATACACGATATTGATGCTTTGGTTTTACAAGAAAGGCATTTTTCCCACCA
ATTTTTGTAAGTCTAAGTTCATGCCTCAAATGAGACAAACATGGATTCTAGTATTGATCTTCATT
CATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCT
TTTGCATGAAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGAC
AAGCATCGATTCTCATAACAATCTCCATTATTTCCAGAATAGGAAACTAAAACACATTCCTTTCA
TTAAGGTACTTGACATTG
Found at i:1156227 original size:97 final size:98
Alignment explanation
Indices: 1156084--1156318 Score: 375
Period size: 97 Copynumber: 2.4 Consensus size: 98
1156074 TGAAAAATGA
* *
1156084 GGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTAT-CCTCGATGATGACAATTTACGCAAGA
1 GGTTGGAGTATCCCCTCGGAGGAATAGGGTTGGAGTATCCCTCGATGATGACAATTTAAGCAAGA
* *
1156148 AGAAGATTTAAACTTTGATGAGTTTAAAAGCGG
66 AGAAGATTTAAACTTTAATGAGTTTAAAAGCAG
* *
1156181 GGTTGGAGTATCCCCTCAGAGGAATAAGGTTGGAGTATCCCT-GATGATGACAATTTAAGCAAGA
1 GGTTGGAGTATCCCCTCGGAGGAATAGGGTTGGAGTATCCCTCGATGATGACAATTTAAGCAAGA
1156245 AGAAGATTTAAACTTTAATGAGTTTAAAAGCAG
66 AGAAGATTTAAACTTTAATGAGTTTAAAAGCAG
* * *
1156278 GGTTTGAGTATCCTCTCGGAGGAATAGGGTTAGAGTATCCC
1 GGTTGGAGTATCCCCTCGGAGGAATAGGGTTGGAGTATCCC
1156319 CAATAAATAA
Statistics
Matches: 126, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
97 123 0.98
98 3 0.02
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.27
Consensus pattern (98 bp):
GGTTGGAGTATCCCCTCGGAGGAATAGGGTTGGAGTATCCCTCGATGATGACAATTTAAGCAAGA
AGAAGATTTAAACTTTAATGAGTTTAAAAGCAG
Found at i:1159434 original size:28 final size:28
Alignment explanation
Indices: 1159399--1159809 Score: 388
Period size: 28 Copynumber: 14.7 Consensus size: 28
1159389 GTTGCCACCA
*
1159399 ACTTGTGGGCTATGAAATGGTGCCACT-
1 ACTTGTGGGCTATGAAAAGGTGCCACTG
* * *
1159426 AATTCGTGGGTTTTGAAAAGGATGCCACTG
1 ACTT-GTGGGCTATGAAAAGG-TGCCACTG
* * *
1159456 ACTTGTGGGCTCTGAAAAGATGCCATTG
1 ACTTGTGGGCTATGAAAAGGTGCCACTG
* *
1159484 ACTTGTGGGTTTTG-AAAGGATGCCACTG
1 ACTTGTGGGCTATGAAAAGG-TGCCACTG
*
1159512 ACTTGTGGGCT-TTAAAAGGATGCCACTG
1 ACTTGTGGGCTATGAAAAGG-TGCCACTG
*
1159540 ACTTGTGGGCT-TTAAAAGGATGCCACTG
1 ACTTGTGGGCTATGAAAAGG-TGCCACTG
* * * * *
1159568 ACTTGTGGGCTTTGAAGAGATGCTACTA
1 ACTTGTGGGCTATGAAAAGGTGCCACTG
* *
1159596 ACTTGTGGGTTTTG-AAAGGATGCCACTG
1 ACTTGTGGGCTATGAAAAGG-TGCCACTG
* *
1159624 ACTTATGGGCTATGAAAAGGTGCCATTG
1 ACTTGTGGGCTATGAAAAGGTGCCACTG
1159652 ACTTGTGGGCTATGAAAAGGTGCCACTG
1 ACTTGTGGGCTATGAAAAGGTGCCACTG
* * *
1159680 ACTTGTGGGTTATGAAAATGTGCCACCG
1 ACTTGTGGGCTATGAAAAGGTGCCACTG
* * *
1159708 ACTTGTGAGCT-TAAAAAAGATGCCACTG
1 ACTTGTGGGCTAT-GAAAAGGTGCCACTG
* *
1159736 ACTCGT-GGCT-TGGAAAAGATGCCACTG
1 ACTTGTGGGCTAT-GAAAAGGTGCCACTG
* * * *
1159763 ACTTATGGGTTTTGAAAGGGTGCCACTG
1 ACTTGTGGGCTATGAAAAGGTGCCACTG
* *
1159791 ATTTGTGGGCTTTGAAAAG
1 ACTTGTGGGCTATGAAAAG
1159810 AACTGCCACA
Statistics
Matches: 320, Mismatches: 53, Indels: 21
0.81 0.13 0.05
Matches are distributed among these distances:
27 34 0.11
28 252 0.79
29 31 0.10
30 3 0.01
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (28 bp):
ACTTGTGGGCTATGAAAAGGTGCCACTG
Found at i:1159862 original size:28 final size:28
Alignment explanation
Indices: 1159441--1160399 Score: 624
Period size: 28 Copynumber: 34.1 Consensus size: 28
1159431 GTGGGTTTTG
* * * *
1159441 AAAAGGATGCCACTGACTTGTGGGCTCTG
1 AAAAGGGTGCCACTGAGTTGTGGACT-TT
* * * **
1159470 AAAA-GATGCCATTGACTTGTGGGTTTT
1 AAAAGGGTGCCACTGAGTTGTGGACTTT
* * * *
1159497 GAAAGGATGCCACTGACTTGTGGGCTTT
1 AAAAGGGTGCCACTGAGTTGTGGACTTT
* * *
1159525 AAAAGGATGCCACTGACTTGTGGGCTTT
1 AAAAGGGTGCCACTGAGTTGTGGACTTT
* * *
1159553 AAAAGGATGCCACTGACTTGTGGGCTTT
1 AAAAGGGTGCCACTGAGTTGTGGACTTT
* * * * * **
1159581 -GAAGAGATGCTACTAACTTGTGGGTTTT
1 AAAAG-GGTGCCACTGAGTTGTGGACTTT
* * * * * *
1159609 GAAAGGATGCCACTGACTTATGGGCTATG
1 AAAAGGGTGCCACTGAGTTGTGGACT-TT
* * * *
1159638 AAAA-GGTGCCATTGACTTGTGGGCTATG
1 AAAAGGGTGCCACTGAGTTGTGGACT-TT
* *
1159666 AAAA-GGTGCCACTGACTTGTGG-GTTAT
1 AAAAGGGTGCCACTGAGTTGTGGACTT-T
* * * *
1159693 GAAAA-TGTGCCACCGACTTGT-GAGCTTA
1 -AAAAGGGTGCCACTGAGTTGTGGA-CTTT
* * * * *
1159721 AAAAAGATGCCACTGACTCGTGG-CTTGG
1 AAAAGGGTGCCACTGAGTTGTGGACTT-T
* * * **
1159749 AAAA-GATGCCACTGACTTATGGGTTTT
1 AAAAGGGTGCCACTGAGTTGTGGACTTT
* * *
1159776 GAAAGGGTGCCACTGATTTGTGGGCTTT
1 AAAAGGGTGCCACTGAGTTGTGGACTTT
** * *
1159804 GAAAAGAACTGCCACAGAGTTGTAGAC-TT
1 -AAAAG-GGTGCCACTGAGTTGTGGACTTT
* *
1159833 AAAAGGGTGCCACAGAGTTGTGGGCTTT
1 AAAAGGGTGCCACTGAGTTGTGGACTTT
*
1159861 AAAAGTGTGCCAC-GAAGTTGTGGA-TTT
1 AAAAGGGTGCCACTG-AGTTGTGGACTTT
* *
1159888 AAAAAAGGGCTACCAC-GAAGTTGTGGA-ATT
1 --AAAAGGG-TGCCACTG-AGTTGTGGACTTT
*
1159918 AAAAGGGTGCCACGGAGTTGTGGAC-TT
1 AAAAGGGTGCCACTGAGTTGTGGACTTT
* ** *
1159945 AAAAGGTTGCCACAAAGTTATGGACTTT
1 AAAAGGGTGCCACTGAGTTGTGGACTTT
1159973 AAAAGGGTGCCA-TAGAGTTGTGGACTTT
1 AAAAGGGTGCCACT-GAGTTGTGGACTTT
1160001 AAAAGGGTGCCACGGGTGCCACAGAGTTGTGGACTTT
1 AAAAGGGTGCCAC---T------GAGTTGTGGACTTT
1160038 AAAAGGGTGCCACTGAGTTGTGGAC-TT
1 AAAAGGGTGCCACTGAGTTGTGGACTTT
* * * *
1160065 AAAAGGGTGCCACAGAGTTATAGACATT
1 AAAAGGGTGCCACTGAGTTGTGGACTTT
* *
1160093 -AAAGGGTGCCACGGAGTTCTGGACTTT
1 AAAAGGGTGCCACTGAGTTGTGGACTTT
*
1160120 AAAA-GATGCCA-TGGAGTTGTGGACTTT
1 AAAAGGGTGCCACT-GAGTTGTGGACTTT
*
1160147 AAAAGGATGCCA-TAGAGTTGTGGACTTT
1 AAAAGGGTGCCACT-GAGTTGTGGACTTT
1160175 AAAAGGGTGCCA-TGAAGTTGTGGACTTT
1 AAAAGGGTGCCACTG-AGTTGTGGACTTT
*
1160203 AAAAGGGTGCCACGGAGTTGTGGACTTT
1 AAAAGGGTGCCACTGAGTTGTGGACTTT
* * *
1160231 AAAAGGATGCCACAGAGTTATGGAC-TT
1 AAAAGGGTGCCACTGAGTTGTGGACTTT
* * *
1160258 AAAACGATGCCACGGAGTTGTGGAC-TT
1 AAAAGGGTGCCACTGAGTTGTGGACTTT
* *
1160285 AAAAGGGTGCCACGGAGTTGTGGATTTT
1 AAAAGGGTGCCACTGAGTTGTGGACTTT
**
1160313 AAAAGAATGCCACAT-AGTTGTGGACTTT
1 AAAAGGGTGCCAC-TGAGTTGTGGACTTT
* * *
1160341 -AAAGAGTGCCACGGAGTTATGGACTTT
1 AAAAGGGTGCCACTGAGTTGTGGACTTT
1160368 -AAAGGGTTGCCA-TGGAGTTGTGGACTTT
1 AAAAGGG-TGCCACT-GAGTTGTGGACTTT
1160396 AAAA
1 AAAA
1160400 CAAAAAGGTT
Statistics
Matches: 786, Mismatches: 99, Indels: 90
0.81 0.10 0.09
Matches are distributed among these distances:
26 1 0.00
27 239 0.30
28 454 0.58
29 30 0.04
30 32 0.04
32 1 0.00
34 1 0.00
37 28 0.04
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.27
Consensus pattern (28 bp):
AAAAGGGTGCCACTGAGTTGTGGACTTT
Found at i:1159906 original size:30 final size:29
Alignment explanation
Indices: 1159861--1159948 Score: 99
Period size: 30 Copynumber: 3.1 Consensus size: 29
1159851 TGTGGGCTTT
* * *
1159861 AAAAGTGTGCCACGAAGTTGTGGATTTAA
1 AAAAGGGTACCACGAAGTTGTGGAATTAA
1159890 AAAAGGGCTACCACGAAGTTGTGGAATT--
1 AAAAGGG-TACCACGAAGTTGTGGAATTAA
* * *
1159918 AAAAGGGTGCCACGGAGTTGTGGACTTAA
1 AAAAGGGTACCACGAAGTTGTGGAATTAA
1159947 AA
1 AA
1159949 GGTTGCCACA
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
27 17 0.34
28 7 0.14
29 8 0.16
30 18 0.36
ACGTcount: A:0.35, C:0.12, G:0.30, T:0.23
Consensus pattern (29 bp):
AAAAGGGTACCACGAAGTTGTGGAATTAA
Found at i:1159981 original size:55 final size:55
Alignment explanation
Indices: 1159777--1160435 Score: 594
Period size: 55 Copynumber: 11.6 Consensus size: 55
1159767 ATGGGTTTTG
* * * ** * *
1159777 AAAGGGTGCCACTGATTTGTGGGCTTTGAAAAGAACTGCCACAGAGTTGTAGACTTA
1 AAAGGGTGCCACAGAGTTGTGGACTTT-AAAAG-GGTGCCACGGAGTTGTGGACTTA
* * * *
1159834 AAAGGGTGCCACAGAGTTGTGGGCTTTAAAAGTGTGCCACGAAGTTGTGGATTTAAA
1 AAAGGGTGCCACAGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTT--A
* *
1159891 AAAGGGCTACCAC-GAAGTTGTGGA-ATTAAAAGGGTGCCACGGAGTTGTGGACTTA
1 AAAGGG-TGCCACAG-AGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTA
* * * **
1159946 AAAGGTTGCCACAAAGTTATGGACTTTAAAAGGGTGCCATAGAGTTGTGGACTTTAA
1 AAAGGGTGCCACAGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGAC-TT-A
*
1160003 AAGGGTGCCACGGGTGCCACAGAGTTGTGGACTTTAAAAGGGTGCCACTGAGTTGTGGACTTA
1 AA-------A-GGGTGCCACAGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTA
* * * *
1160066 AAAGGGTGCCACAGAGTTATAGACATT-AAAGGGTGCCACGGAGTTCTGGACTTTA
1 AAAGGGTGCCACAGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGAC-TTA
* ** * **
1160121 AAA-GATGCCATGGAGTTGTGGACTTTAAAAGGATGCCATAGAGTTGTGGACTTTA
1 AAAGGGTGCCACAGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGAC-TTA
*
1160176 AAAGGGTGCCA-TGAAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTA
1 AAAGGGTGCCACAG-AGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGAC-TTA
* * * *
1160232 AAAGGATGCCACAGAGTTATGGAC-TTAAAACGATGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACAGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTA
* * ** ** *
1160286 AAAGGGTGCCACGGAGTTGTGGATTTTAAAAGAATGCCACATAGTTGTGGACTTT
1 AAAGGGTGCCACAGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTA
* * * *
1160341 AAAGAGTGCCACGGAGTTATGGACTTT-AAAGGGTTGCCATGGAGTTGTGGACTTTAAAACAA
1 AAAGGGTGCCACAGAGTTGTGGACTTTAAAAGGG-TGCCACGGAGTTGTGGAC-TT------A
*
1160403 AAAGGTTGCCACAGAGTTGTGGACTTTGAAAAG
1 AAAGGGTGCCACAGAGTTGTGGACTTT-AAAAG
1160436 AAATGCCACT
Statistics
Matches: 497, Mismatches: 73, Indels: 57
0.79 0.12 0.09
Matches are distributed among these distances:
54 79 0.16
55 191 0.38
56 74 0.15
57 63 0.13
58 13 0.03
62 23 0.05
63 3 0.01
64 7 0.01
65 44 0.09
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.26
Consensus pattern (55 bp):
AAAGGGTGCCACAGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTA
Found at i:1160027 original size:37 final size:37
Alignment explanation
Indices: 1159977--1160050 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
1159967 GACTTTAAAA
*
1159977 GGGTGCCATAGAGTTGTGGACTTTAAAAGGGTGCCAC
1 GGGTGCCACAGAGTTGTGGACTTTAAAAGGGTGCCAC
1160014 GGGTGCCACAGAGTTGTGGACTTTAAAAGGGTGCCAC
1 GGGTGCCACAGAGTTGTGGACTTTAAAAGGGTGCCAC
1160051 TGAGTTGTGG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.24, C:0.18, G:0.35, T:0.23
Consensus pattern (37 bp):
GGGTGCCACAGAGTTGTGGACTTTAAAAGGGTGCCAC
Found at i:1161770 original size:21 final size:21
Alignment explanation
Indices: 1161737--1161776 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
1161727 CTTTTGCACC
1161737 TTTTTTTGATTTT-CTTTTCA
1 TTTTTTTGATTTTGCTTTTCA
*
1161757 TTTTTTGTGGTTTTGCTTTT
1 TTTTTT-TGATTTTGCTTTT
1161777 GGCTTTTTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 6 0.35
22 5 0.29
ACGTcount: A:0.05, C:0.07, G:0.12, T:0.75
Consensus pattern (21 bp):
TTTTTTTGATTTTGCTTTTCA
Found at i:1166043 original size:261 final size:261
Alignment explanation
Indices: 1165573--1166093 Score: 925
Period size: 261 Copynumber: 2.0 Consensus size: 261
1165563 TTTCTAGTTA
*
1165573 AAGGCCTAACTTTCACTTTTTTACAAGTCCCCAGCGGAGTCACCAACCTGTAGCGGCGTGCACTC
1 AAGGCCTAACTCTCACTTTTTTACAAGTCCCCAGCGGAGTCACCAACCTGTAGCGGCGTGCACTC
*
1165638 GACCCCCCGGTGATAGGGCAAATGAGGTGCGCCCAACTTAATATCTCTCGTGATTGTGGATTTCT
66 GACCCCCCGGTGATAGGGCAAATGAGGCGCGCCCAACTTAATATCTCTCGTGATTGTGGATTTCT
* *
1165703 ATGGCATGATAAAAGGTATATTGATTGAAGGGGAAGATCGGTAGGTAAATCGCCCATCTAACCGG
131 ATGGCATGATAAAAAGTATATTGATTGAAGGGGAAGATCAGTAGGTAAATCGCCCATCTAACCGG
1165768 TCCTCGACGGTCATCACTGTCGCAACGTGCACTCGACTTAATATCCCTCGCGATTGGGGATTTTT
196 TCCTCGACGGTCATCACTGTCGCAACGTGCACTCGACTTAATATCCCTCGCGATTGGGGATTTTT
1165833 T
261 T
** * * *
1165834 AAGGCCTAACTCTCACTTTTTTACAAGTCCCCAGCGGAGTTGCCAAGCTGTCGCGGCGTGCGCTC
1 AAGGCCTAACTCTCACTTTTTTACAAGTCCCCAGCGGAGTCACCAACCTGTAGCGGCGTGCACTC
*
1165899 GACCCCCCGGTGATAGGGCAAATGAGGCGCGCCCGACTTAATATCTCTCGTGATTGTGGATTTCT
66 GACCCCCCGGTGATAGGGCAAATGAGGCGCGCCCAACTTAATATCTCTCGTGATTGTGGATTTCT
1165964 ATGGCATGATAAAAAGTATATTGATTGAAGGGGAAGATCAGTAGGTAAATCGCCCATCTAACCGG
131 ATGGCATGATAAAAAGTATATTGATTGAAGGGGAAGATCAGTAGGTAAATCGCCCATCTAACCGG
* * *
1166029 TCCTCGATGGTCATCACTGTCGTAACGTGCGCTCGACTTAATATCCCTCGCGATTGGGGATTTTT
196 TCCTCGACGGTCATCACTGTCGCAACGTGCACTCGACTTAATATCCCTCGCGATTGGGGATTTTT
1166094 ATGGTATGGT
Statistics
Matches: 247, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
261 247 1.00
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.27
Consensus pattern (261 bp):
AAGGCCTAACTCTCACTTTTTTACAAGTCCCCAGCGGAGTCACCAACCTGTAGCGGCGTGCACTC
GACCCCCCGGTGATAGGGCAAATGAGGCGCGCCCAACTTAATATCTCTCGTGATTGTGGATTTCT
ATGGCATGATAAAAAGTATATTGATTGAAGGGGAAGATCAGTAGGTAAATCGCCCATCTAACCGG
TCCTCGACGGTCATCACTGTCGCAACGTGCACTCGACTTAATATCCCTCGCGATTGGGGATTTTT
T
Found at i:1169200 original size:13 final size:13
Alignment explanation
Indices: 1169182--1169219 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
1169172 CAAAGATCAG
1169182 TGTATCGATACAA
1 TGTATCGATACAA
1169195 TGTATCGATACAA
1 TGTATCGATACAA
1169208 TGTATCGATACA
1 TGTATCGATACA
1169220 TTTGAGTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1169296 original size:19 final size:19
Alignment explanation
Indices: 1169272--1169351 Score: 91
Period size: 19 Copynumber: 4.5 Consensus size: 19
1169262 AGCGATACAT
*
1169272 TGTATCGATACAAAACTTA
1 TGTATCGATACAACACTTA
1169291 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
*
1169304 TGTATGGATACAACACTTA
1 TGTATCGATACAACACTTA
*
1169323 TGTATGGATACAACACTTA
1 TGTATCGATACAACACTTA
1169342 TGTATCGATA
1 TGTATCGATA
1169352 TAAATCGTTG
Statistics
Matches: 52, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
13 8 0.15
14 1 0.02
16 5 0.10
18 1 0.02
19 37 0.71
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:1169305 original size:32 final size:32
Alignment explanation
Indices: 1169264--1169334 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 32
1169254 AGCTTCGTAG
1169264 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
* *
1169296 CGATACATTGTATGGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
1169328 GGATACA
1 CGATACA
1169335 ACACTTATGT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.32
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:1169432 original size:21 final size:21
Alignment explanation
Indices: 1169382--1169432 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
1169372 TTTTTGACCG
**
1169382 TTTGGACCTTGTATCGATACA
1 TTTGGACAATGTATCGATACA
*
1169403 TTCT-AACAATGTATCGATACA
1 TT-TGGACAATGTATCGATACA
1169424 TTTGGACAA
1 TTTGGACAA
1169433 AAATGTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
20 1 0.04
21 22 0.92
22 1 0.04
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (21 bp):
TTTGGACAATGTATCGATACA
Found at i:1170108 original size:48 final size:48
Alignment explanation
Indices: 1170055--1170187 Score: 203
Period size: 48 Copynumber: 2.8 Consensus size: 48
1170045 TCGAAAATGC
* ** * *
1170055 GAAAAATGACAATGTGCTGATTCATGGCCAGCGACATTTAAACTTGAA
1 GAAAAATGCCAATGTGCTGAGGCAAGGCCAACGACATTTAAACTTGAA
1170103 GAAAAATGCCAATGTGCTGAGGCAAGGCCAACGACATTTAAACTTGAA
1 GAAAAATGCCAATGTGCTGAGGCAAGGCCAACGACATTTAAACTTGAA
* *
1170151 GAAAAATGCCAATGTGCTGAGGCAAAGCCAGCGACAT
1 GAAAAATGCCAATGTGCTGAGGCAAGGCCAACGACAT
1170188 CGGGCTTAGG
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 78 1.00
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.20
Consensus pattern (48 bp):
GAAAAATGCCAATGTGCTGAGGCAAGGCCAACGACATTTAAACTTGAA
Found at i:1170336 original size:49 final size:49
Alignment explanation
Indices: 1170205--1170610 Score: 461
Period size: 49 Copynumber: 8.6 Consensus size: 49
1170195 AGGAATGTTG
* *
1170205 AAGATGAAGGTGCCAATGTGCTAATTCAAGGCCAGCGACATTGGACTTA
1 AAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
* * * * *
1170254 AGAGACGACAAAGGTGCCAATATGTTGATTCAAGGCCAGCGATATTGGACTTA
1 A-AGATG---AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
*
1170307 AAGATGAAGGTGCTAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
1 AAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
* * * * *
1170356 AAGATAAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-
1 AAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
*
1170404 --G-T--AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTA
1 AAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
* * *
1170448 AAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTA
1 AAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
* *
1170497 AAG--G-A---GCCAATGTGTTGATGCAAGGCCAGCTACATTGGACTT-
1 AAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
1170539 AA-A-G-A--TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
1 AAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
* *
1170583 AAGATAAAGGTGCCAATATGCTGATTCA
1 AAGATGAAGGTGCCAATGTGCTGATTCA
1170611 GGAGTTAGTT
Statistics
Matches: 304, Mismatches: 35, Indels: 36
0.81 0.09 0.10
Matches are distributed among these distances:
42 4 0.01
43 103 0.34
44 2 0.01
45 2 0.01
46 3 0.01
47 3 0.01
49 139 0.46
50 4 0.01
52 4 0.01
53 40 0.13
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.25
Consensus pattern (49 bp):
AAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
Found at i:1170447 original size:92 final size:92
Alignment explanation
Indices: 1170212--1170581 Score: 455
Period size: 92 Copynumber: 4.0 Consensus size: 92
1170202 TTGAAGATGA
* * *
1170212 AGGTGCCAATGTGCTAATTCAAGGCCAGCGACATTGGACTTAAGAGACGACAAAGGTGCCAATAT
1 AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAA-AGA-TA-AAA-GTGCCAATAT
*
1170277 GTTGATTCAAGGCCAGCGATATTGGACTTAAAGAT
62 GCTGATTCAAGGCCAGCGATATTGGACTT---G-T
*
1170312 GAAGGTGCTAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAATATGC
1 --AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAATATGC
1170377 TGATTCAAGGCCAGCGATATTGGACTTGT
64 TGATTCAAGGCCAGCGATATTGGACTTGT
* * *
1170406 AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGAAGGTGCCAATATGCTG
1 AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAATATGCTG
* **
1170471 ATTCAAGGCCAGCAATATTGGACTTAA
66 ATTCAAGGCCAGCGATATTGGACTTGT
* * * *
1170498 AGGAGCCAATGTGTTGATGCAAGGCCAGCTACATTGGACTTAAAG-----A-TGCCAATGTGCTG
1 AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAATATGCTG
* *
1170557 ATTCAAGGCCAGCTACATTGGACTT
66 ATTCAAGGCCAGCGATATTGGACTT
1170582 AAAGATAAAG
Statistics
Matches: 248, Mismatches: 20, Indels: 16
0.87 0.07 0.06
Matches are distributed among these distances:
86 35 0.14
92 126 0.51
94 1 0.00
95 1 0.00
98 38 0.15
99 3 0.01
100 1 0.00
101 3 0.01
102 40 0.16
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (92 bp):
AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAATATGCTG
ATTCAAGGCCAGCGATATTGGACTTGT
Found at i:1171452 original size:97 final size:95
Alignment explanation
Indices: 1171204--1171441 Score: 354
Period size: 97 Copynumber: 2.5 Consensus size: 95
1171194 TTGAAAAACG
* * *
1171204 GGGTTGGAGTAT-CCCTCGAGGAAT-GAGGTTAGAGTATCCTCAATGATGACAATTTAAGCAAGA
1 GGGTTGGAGTATCCCCTCGAGGAATAG-GGTTAGAGTATCCCCGATGATGACAATTTAAACAAGA
1171267 AGAAGATTTAAACTTTGATGAGTTTAAAAGC
65 AGAAGATTTAAACTTTGATGAGTTTAAAAGC
* *
1171298 GAGGTTGGAATATCCCCTCGGAGGAATAGGGTTAGAGTATCCCGGATGATGACAATTTAAACAAG
1 G-GGTTGGAGTATCCCCTC-GAGGAATAGGGTTAGAGTATCCCCGATGATGACAATTTAAACAAG
*
1171363 AAGAAGATTTAAACTTTGATGAGTTTAAAGGC
64 AAGAAGATTTAAACTTTGATGAGTTTAAAAGC
*
1171395 AGGGTTGGAGTATCCCCTCGAAGGAATAGGGTTAGATTATCCCCGAT
1 -GGGTTGGAGTATCCCCTCG-AGGAATAGGGTTAGAGTATCCCCGAT
1171442 AAATAAAATT
Statistics
Matches: 129, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
94 1 0.01
95 10 0.08
96 6 0.05
97 110 0.85
98 2 0.02
ACGTcount: A:0.33, C:0.13, G:0.27, T:0.26
Consensus pattern (95 bp):
GGGTTGGAGTATCCCCTCGAGGAATAGGGTTAGAGTATCCCCGATGATGACAATTTAAACAAGAA
GAAGATTTAAACTTTGATGAGTTTAAAAGC
Found at i:1172680 original size:22 final size:23
Alignment explanation
Indices: 1172645--1172691 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
1172635 TGGAAAATGT
1172645 GATAATCATACAATGAAATGATG
1 GATAATCATACAATGAAATGATG
* * *
1172668 GATAA-CATTCAATGAGATGCTG
1 GATAATCATACAATGAAATGATG
1172690 GA
1 GA
1172692 CATGTTAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.26
Consensus pattern (23 bp):
GATAATCATACAATGAAATGATG
Found at i:1174623 original size:50 final size:50
Alignment explanation
Indices: 1174565--1174708 Score: 211
Period size: 49 Copynumber: 2.9 Consensus size: 50
1174555 TTTTAACTAG
*
1174565 ATGTATCGATACATTGAAAATGTATTGATACATCTGGGTAAAAAGACAGA
1 ATGTATCGATACATTGAAAATGTATCGATACATCTGGGTAAAAAGACAGA
* *
1174615 ATGTATCGATACATTAAAAATTGTATCGATACATTTGGGT--AAAGACAGA
1 ATGTATCGATACATTGAAAA-TGTATCGATACATCTGGGTAAAAAGACAGA
* *
1174664 ATGTATTGATACATTGAAAAATGTATCGATACATCTGGTTAAAAA
1 ATGTATCGATACATTG-AAAATGTATCGATACATCTGGGTAAAAA
1174709 TGTGACTTTT
Statistics
Matches: 83, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
49 40 0.48
50 23 0.28
51 20 0.24
ACGTcount: A:0.42, C:0.10, G:0.18, T:0.31
Consensus pattern (50 bp):
ATGTATCGATACATTGAAAATGTATCGATACATCTGGGTAAAAAGACAGA
Found at i:1175730 original size:56 final size:56
Alignment explanation
Indices: 1175631--1176412 Score: 538
Period size: 56 Copynumber: 13.7 Consensus size: 56
1175621 TACCAACTTG
* *
1175631 TGTGGGCTTTAGAGAAAGTTGCCACCGACTTGTGTGGGCTTTGAAAGAATGCCACTGACT
1 TGTGGGCTTT-GA-AAAGGTGCCACTGAC-T-TGTGGGCTTTGAAAGAATGCCACTGACT
* * * *
1175691 TGTGGGCTTTGAAAAGGTGTCACTGACTTCTGGGCTTTGAAA-AGACGCCACTAACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGA-ATGCCACTGACT
* *
1175747 TGTGGGGCTTTGAAAAGGTGCCACTGACTTGTGGG-TCTTGAAA-AGGTGCCACTAACT
1 TGT-GGGCTTTGAAAAGGTGCCACTGACTTGTGGGCT-TTGAAAGA-ATGCCACTGACT
* * * *
1175804 TGTGGGC-TTGGAAAGGTGCTATTAACTTGTGGGCTTTGAAA-AGATGCCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGA-ATGCCACTGACT
* * * * *
1175859 TGTGGG-TTTTAAAAGGATGCCACTAACTTGTGGGCTTTGAGAAG-GTGCCACTAACA
1 TGTGGGCTTTGAAAAGG-TGCCACTGACTTGTGGGCTTTGA-AAGAATGCCACTGACT
** * * *
1175915 CATGGGCTTTG-AAAGGATGCCACTGAC-TGTGGGCTTTGAGAA-ATTGCCACTAACA
1 TGTGGGCTTTGAAAAGG-TGCCACTGACTTGTGGGCTTTGA-AAGAATGCCACTGACT
* * * * * * *
1175970 TGTGGGCTCTG-AGAGGATGCCACTAACTTGTGGGCTTGGAAAGGATGCCACTAATT
1 TGTGGGCTTTGAAAAGG-TGCCACTGACTTGTGGGCTTTGAAAGAATGCCACTGACT
* *** *
1176026 TATGGGCTTTGATGGGGTGCGACTGACTTGTGGGCTTTGAAGGGGCTTGGAGAGGATGCCACTGA
1 TGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAA---------AGA--ATGCCACTGA
1176091 CT
55 CT
* * * * * * *
1176093 TGTGGGCTTTGAGAAA-GTGCCACTAACATATCGGCTTTGAGAGGATGCCATTGACT
1 TGTGGGCTTTGA-AAAGGTGCCACTGACTTGTGGGCTTTGAAAGAATGCCACTGACT
* * * * * * *
1176149 TGTGGGCTTTGAGAAGATGCCACTAACTTGTGGGCTTAGAAAGGATGCCACAGATT
1 TGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGAATGCCACTGACT
* * *
1176205 TGTAGGCTTTG-AAAGGTGCCACTGACTTGTGGGCTTT-AAA-AAGGTGCCACTAACA
1 TGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGAA--TGCCACTGACT
* * * * *
1176260 CGTGGGCTTTG-AGAGGATGCCATTGACTTGTGGGCTTGGAAA-AGATGCCACTGATT
1 TGTGGGCTTTGAAAAGG-TGCCACTGACTTGTGGGCTTTGAAAGA-ATGCCACTGACT
** * * * * ** * *
1176316 TGTGGGCTTTGAAGGGGTACCACTGACTTATGGGTTTTGAAGGGGTGCCATTGAGT
1 TGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGAATGCCACTGACT
* * *
1176372 TGTGGGCTTTG-AAAGAATGCCATTGACTTATGGGCTTTGAA
1 TGTGGGCTTTGAAAAG-GTGCCACTGACTTGTGGGCTTTGAA
1176413 GAGATGAACA
Statistics
Matches: 582, Mismatches: 106, Indels: 72
0.77 0.14 0.09
Matches are distributed among these distances:
53 1 0.00
54 3 0.01
55 150 0.26
56 292 0.50
57 67 0.12
58 15 0.03
59 2 0.00
60 10 0.02
65 2 0.00
67 40 0.07
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.29
Consensus pattern (56 bp):
TGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGAATGCCACTGACT
Found at i:1175975 original size:139 final size:140
Alignment explanation
Indices: 1175631--1176383 Score: 686
Period size: 139 Copynumber: 5.3 Consensus size: 140
1175621 TACCAACTTG
* * * * *
1175631 TGTGGGCTTTAGAGAAAGTTGCCACCGACTTGTGTGGGCTTTGA-AAGAATGCCACTGACTTGTG
1 TGTGGGCTTT-GA-AAAGGTGCCACTGAC-T-TGTGGGCTTTGAGAA-AGTGCCACTAACATGTG
* * * *
1175695 GGCTTTGAAAAGG-TGTCACTGACTTCTGGGCTTTGAAAAGACGCCACTAACTTGTGGGGCTTTG
61 GGCTTTG-AGAGGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTAACTTGT-GGGCTTTG
* *
1175759 AAAAGGTGCCACTGACT
124 AGAAGGTGCCACTGACA
* * * *
1175776 TGTGGG-TCTTGAAAAGGTGCCACTAACTTGTGGGC-TTG-GAAAGGTGCTATTAACTTGTGGGC
1 TGTGGGCT-TTGAAAAGGTGCCACTGACTTGTGGGCTTTGAGAAA-GTGCCACTAACATGTGGGC
* * *
1175838 TTTGAAAAGATGCCACTGACTTGTGGG-TTTTAAAAGGATGCCACTAACTTGTGGGCTTTGAGAA
64 TTTGAGAGGATGCCACTGACTTGTGGGCTTTGAAAA-GATGCCACTAACTTGTGGGCTTTGAGAA
*
1175902 GGTGCCACTAACA
128 GGTGCCACTGACA
** *
1175915 CATGGGCTTTG-AAAGGATGCCACTGAC-TGTGGGCTTTGAGAAATTGCCACTAACATGTGGGCT
1 TGTGGGCTTTGAAAAGG-TGCCACTGACTTGTGGGCTTTGAGAAAGTGCCACTAACATGTGGGCT
* * * * * * *
1175978 CTGAGAGGATGCCACTAACTTGTGGGCTTGGAAAGGATGCCACTAATTTATGGGCTTTGATG-GG
65 TTGAGAGGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTAACTTGTGGGCTTTGA-GAAG
* *
1176042 GTGCGACTGACT
129 GTGCCACTGACA
1176054 TGTGGGCTTTGAAGGGGCTTGGAGAGGATGCCACTGACTTGTGGGCTTTGAGAAAGTGCCACTAA
1 TGTGGGCTTTGAA---------A-AGG-TGCCACTGACTTGTGGGCTTTGAGAAAGTGCCACTAA
* * * *
1176119 CATATCGGCTTTGAGAGGATGCCATTGACTTGTGGGCTTTGAGAAGATGCCACTAACTTGTGGGC
55 CATGTGGGCTTTGAGAGGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTAACTTGTGGGC
* * **
1176184 TTAGA-AAGGATGCCACAGATT
120 TTTGAGAAGG-TGCCACTGACA
* * *
1176205 TGTAGGCTTTG-AAAGGTGCCACTGACTTGTGGGCTTT-AAAAAGGTGCCACTAACACGTGGGCT
1 TGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAGAAA-GTGCCACTAACATGTGGGCT
* * * * *
1176268 TTGAGAGGATGCCATTGACTTGTGGGCTTGGAAAAGATGCCACTGATTTGTGGGCTTTGA-AGGG
65 TTGAGAGGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTAACTTGTGGGCTTTGAGA-AG
* *
1176332 GTACCACTGACT
129 GTGCCACTGACA
* * ** * *
1176344 TATGGGTTTTGAAGGGGTGCCATTGAGTTGTGGGCTTTGA
1 TGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGA
1176384 AAGAATGCCA
Statistics
Matches: 505, Mismatches: 74, Indels: 62
0.79 0.12 0.10
Matches are distributed among these distances:
138 16 0.03
139 243 0.48
140 93 0.18
141 9 0.02
142 1 0.00
143 12 0.02
144 3 0.01
145 8 0.02
149 1 0.00
150 17 0.03
151 102 0.20
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.29
Consensus pattern (140 bp):
TGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAGAAAGTGCCACTAACATGTGGGCTT
TGAGAGGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTAACTTGTGGGCTTTGAGAAGGT
GCCACTGACA
Found at i:1176070 original size:28 final size:28
Alignment explanation
Indices: 1175631--1176066 Score: 389
Period size: 28 Copynumber: 15.5 Consensus size: 28
1175621 TACCAACTTG
* **
1175631 TGTGGGCTTTAGAGAAAGTTGCCACCGACTT
1 TGTGGGCTTT-GA-AAAGATGCCACTAAC-T
*
1175662 GTGTGGGCTTTG-AAAGAATGCCACTGACT
1 -TGTGGGCTTTGAAAAG-ATGCCACTAACT
* * *
1175691 TGTGGGCTTTGAAAAGGTGTCACTGACT
1 TGTGGGCTTTGAAAAGATGCCACTAACT
* *
1175719 TCTGGGCTTTGAAAAGACGCCACTAACT
1 TGTGGGCTTTGAAAAGATGCCACTAACT
* *
1175747 TGTGGGGCTTTGAAAAGGTGCCACTGACT
1 TGT-GGGCTTTGAAAAGATGCCACTAACT
*
1175776 TGTGGG-TCTTGAAAAGGTGCCACTAACT
1 TGTGGGCT-TTGAAAAGATGCCACTAACT
* * * *
1175804 TGTGGGC-TTGGAAAGGTGCTATTAACT
1 TGTGGGCTTTGAAAAGATGCCACTAACT
*
1175831 TGTGGGCTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTGAAAAGATGCCACTAACT
*
1175859 TGTGGG-TTTTAAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAA-GATGCCACTAACT
* * *
1175887 TGTGGGCTTTGAGAAGGTGCCACTAACA
1 TGTGGGCTTTGAAAAGATGCCACTAACT
** * *
1175915 CATGGGCTTTGAAAGGATGCCACTGAC-
1 TGTGGGCTTTGAAAAGATGCCACTAACT
* *
1175942 TGTGGGCTTTGAGAAA-TTGCCACTAACA
1 TGTGGGCTTTGA-AAAGATGCCACTAACT
* * *
1175970 TGTGGGCTCTGAGAGGATGCCACTAACT
1 TGTGGGCTTTGAAAAGATGCCACTAACT
* * *
1175998 TGTGGGCTTGGAAAGGATGCCACTAATT
1 TGTGGGCTTTGAAAAGATGCCACTAACT
* *** * * *
1176026 TATGGGCTTTGATGGGGTGCGACTGACT
1 TGTGGGCTTTGAAAAGATGCCACTAACT
1176054 TGTGGGCTTTGAA
1 TGTGGGCTTTGAA
1176067 GGGGCTTGGA
Statistics
Matches: 335, Mismatches: 58, Indels: 26
0.80 0.14 0.06
Matches are distributed among these distances:
27 52 0.16
28 223 0.67
29 40 0.12
30 9 0.03
31 1 0.00
32 10 0.03
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.29
Consensus pattern (28 bp):
TGTGGGCTTTGAAAAGATGCCACTAACT
Found at i:1176113 original size:28 final size:27
Alignment explanation
Indices: 1176082--1176412 Score: 248
Period size: 28 Copynumber: 11.9 Consensus size: 27
1176072 TTGGAGAGGA
1176082 TGCCACTGACTTGTGGGCTTTGAGAAAG
1 TGCCACTGACTTGTGGGCTTTGA-AAAG
* * * * * *
1176110 TGCCACTAACATATCGGCTTTGAGAGG
1 TGCCACTGACTTGTGGGCTTTGAAAAG
* *
1176137 ATGCCATTGACTTGTGGGCTTTGAGAAG
1 -TGCCACTGACTTGTGGGCTTTGAAAAG
* * *
1176165 ATGCCACTAACTTGTGGGCTTAGAAAGG
1 -TGCCACTGACTTGTGGGCTTTGAAAAG
* * * *
1176193 ATGCCACAGATTTGTAGGCTTTGAAAGG
1 -TGCCACTGACTTGTGGGCTTTGAAAAG
*
1176221 TGCCACTGACTTGTGGGCTTTAAAAAGG
1 TGCCACTGACTTGTGGGCTTTGAAAA-G
* ** * *
1176249 TGCCACTAACACGTGGGCTTTGAGAGG
1 TGCCACTGACTTGTGGGCTTTGAAAAG
* *
1176276 ATGCCATTGACTTGTGGGCTTGGAAAAG
1 -TGCCACTGACTTGTGGGCTTTGAAAAG
* **
1176304 ATGCCACTGATTTGTGGGCTTTGAAGGGG
1 -TGCCACTGACTTGTGGGCTTTGAA-AAG
* * * **
1176333 TACCACTGACTTATGGGTTTTGAAGGGG
1 TGCCACTGACTTGTGGGCTTTGAA-AAG
* * *
1176361 TGCCATTGAGTTGTGGGCTTTGAAAGAA
1 TGCCACTGACTTGTGGGCTTTGAAA-AG
* *
1176389 TGCCATTGACTTATGGGCTTTGAA
1 TGCCACTGACTTGTGGGCTTTGAA
1176413 GAGATGAACA
Statistics
Matches: 239, Mismatches: 59, Indels: 10
0.78 0.19 0.03
Matches are distributed among these distances:
27 24 0.10
28 214 0.90
29 1 0.00
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (27 bp):
TGCCACTGACTTGTGGGCTTTGAAAAG
Found at i:1176148 original size:95 final size:95
Alignment explanation
Indices: 1175980--1176160 Score: 251
Period size: 95 Copynumber: 1.9 Consensus size: 95
1175970 TGTGGGCTCT
** * *
1175980 GAGAGGATGCCACTAACTTGTGGGCTTGGAAAGGATGCCACTAATTTATGGGCTTTGATGGGGTG
1 GAGAGGATGCCACTAACTTGTGGGCTTGGAAAGGATGCCACTAACATATCGGCTTTGATGGGATG
*
1176045 CGACTGACTTGTGGGCTTTGAAGGGGCTTG
66 CCACTGACTTGTGGGCTTTGAAGGGGCTTG
*
1176075 GAGAGGATGCCACTGACTTGTGGGCTTTGAGAAA-G-TGCCACTAACATATCGGCTTTGA-GAGG
1 GAGAGGATGCCACTAACTTGTGGGC-TTG-GAAAGGATGCCACTAACATATCGGCTTTGATG-GG
*
1176137 ATGCCATTGACTTGTGGGCTTTGA
63 ATGCCACTGACTTGTGGGCTTTGA
1176161 GAAGATGCCA
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
94 1 0.01
95 67 0.88
96 4 0.05
97 4 0.05
ACGTcount: A:0.22, C:0.16, G:0.34, T:0.28
Consensus pattern (95 bp):
GAGAGGATGCCACTAACTTGTGGGCTTGGAAAGGATGCCACTAACATATCGGCTTTGATGGGATG
CCACTGACTTGTGGGCTTTGAAGGGGCTTG
Found at i:1176267 original size:206 final size:206
Alignment explanation
Indices: 1175872--1176271 Score: 538
Period size: 206 Copynumber: 1.9 Consensus size: 206
1175862 GGGTTTTAAA
* *
1175872 AGGATGCCACTAACTTGTGGGCTTTGAGAAGGTGCCACTAACACATGGGCTTTGAAAGGATGCCA
1 AGGATGCCACTAACTTGTGGGCTTTGAGAAAGTGCCACTAACACATCGGCTTTGAAAGGATGCCA
* *
1175937 CTGACTGTGGGCTTTGAGAAATTGCCACTAACATGTGGGCTCTGAGAGGATGCCACTAACTTGTG
66 CTGACTGTGGGCTTTGAGAAATTGCCACTAACATGTGGGCTCTGAAAGGATGCCACTAACTTGTA
* * *** * * **
1176002 GGCTTGGAAAGGATGCCACTAATTTATGGGCTTTGATGGGGTGCGACTGACTTGTGGGCTTTGAA
131 GGCTTGGAAAGGATGCCACTAACTTATGGGCTTTAAAAAGGTGCCACTAACACGTGGGCTTTGAA
1176067 GGGGCTTGGAG
196 GGGGCTTGGAG
* * *
1176078 AGGATGCCACTGACTTGTGGGCTTTGAGAAAGTGCCACTAACATATCGGCTTTGAGAGGATGCCA
1 AGGATGCCACTAACTTGTGGGCTTTGAGAAAGTGCCACTAACACATCGGCTTTGAAAGGATGCCA
* * *
1176143 TTGACTTGTGGGCTTTGAGAAGA-TGCCACTAACTTGTGGGCT-TAGAAAGGATGCCAC-AGATT
66 CTGAC-TGTGGGCTTTGAGAA-ATTGCCACTAACATGTGGGCTCT-GAAAGGATGCCACTA-ACT
* * *
1176205 TGTAGGCTTTGAAAGG-TGCCACTGACTTGTGGGCTTTAAAAAGGTGCCACTAACACGTGGGCTT
127 TGTAGGCTTGGAAAGGATGCCACTAACTTATGGGCTTTAAAAAGGTGCCACTAACACGTGGGCTT
1176269 TGA
192 TGA
1176272 GAGGATGCCA
Statistics
Matches: 168, Mismatches: 22, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
206 106 0.63
207 61 0.36
208 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (206 bp):
AGGATGCCACTAACTTGTGGGCTTTGAGAAAGTGCCACTAACACATCGGCTTTGAAAGGATGCCA
CTGACTGTGGGCTTTGAGAAATTGCCACTAACATGTGGGCTCTGAAAGGATGCCACTAACTTGTA
GGCTTGGAAAGGATGCCACTAACTTATGGGCTTTAAAAAGGTGCCACTAACACGTGGGCTTTGAA
GGGGCTTGGAG
Found at i:1176412 original size:84 final size:84
Alignment explanation
Indices: 1176068--1176415 Score: 294
Period size: 84 Copynumber: 4.2 Consensus size: 84
1176058 GGCTTTGAAG
* * ** * * * * *
1176068 GGGC-TTGGAGAGGATGCCACTGACTTGTGGGCTTTG-AGAAAGTGCCACTAACATATCGGCTTT
1 GGGCTTTGAAGAGG-TGCCACTAACTTGTGGGCTTTGAAGGGA-TGCCATTGACTTGTGGGCTTT
* * *
1176131 GAGAGGATGCCATTGACTTGT
64 GAAAGAATGCCACTGACTTGT
* * * ** * *
1176152 GGGCTTTG-AGAAGATGCCACTAACTTGTGGGCTTAGAAAGGATGCCACAGATTTGTAGGCTTTG
1 GGGCTTTGAAG-AGGTGCCACTAACTTGTGGGCTTTGAAGGGATGCCATTGACTTGTGGGCTTTG
*
1176216 AAAG-GTGCCACTGACTTGT
65 AAAGAATGCCACTGACTTGT
* * ** *
1176235 GGGCTTTAAAAAGGTGCCACTAACACGTGGGCTTTG-AGAGGATGCCATTGACTTGTGGGCTTGG
1 GGGCTTTGAAGAGGTGCCACTAACTTGTGGGCTTTGAAG-GGATGCCATTGACTTGTGGGCTTTG
*
1176299 AAA-AGATGCCACTGATTTGT
65 AAAGA-ATGCCACTGACTTGT
* * * * * * *
1176319 GGGCTTTGAAGGGGTACCACTGACTTATGGGTTTTGAAGGGGTGCCATTGAGTTGTGGGCTTTGA
1 GGGCTTTGAAGAGGTGCCACTAACTTGTGGGCTTTGAAGGGATGCCATTGACTTGTGGGCTTTGA
* *
1176384 AAGAATGCCATTGACTTAT
66 AAGAATGCCACTGACTTGT
1176403 GGGCTTTGAAGAG
1 GGGCTTTGAAGAG
1176416 ATGAACATTC
Statistics
Matches: 210, Mismatches: 45, Indels: 18
0.77 0.16 0.07
Matches are distributed among these distances:
82 1 0.00
83 64 0.30
84 135 0.64
85 10 0.05
ACGTcount: A:0.24, C:0.16, G:0.32, T:0.28
Consensus pattern (84 bp):
GGGCTTTGAAGAGGTGCCACTAACTTGTGGGCTTTGAAGGGATGCCATTGACTTGTGGGCTTTGA
AAGAATGCCACTGACTTGT
Found at i:1186640 original size:51 final size:51
Alignment explanation
Indices: 1186554--1186675 Score: 201
Period size: 51 Copynumber: 2.4 Consensus size: 51
1186544 ATATGAAAAT
1186554 TTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAA
1 TTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAA
* *
1186605 TGTGCCTACATGTATCGAT-CATTTTATAGTGTATCGATACATCTGGGCAAA
1 T-TGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAA
1186656 CTTGCCTGCATGTATCGATA
1 -TTGCCTGCATGTATCGATA
1186676 TAAAGATCAG
Statistics
Matches: 65, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
51 48 0.74
52 17 0.26
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAA
Found at i:1186704 original size:13 final size:13
Alignment explanation
Indices: 1186686--1186710 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1186676 TAAAGATCAG
1186686 TGTATCGATACAA
1 TGTATCGATACAA
1186699 TGTATCGATACA
1 TGTATCGATACA
1186711 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1186789 original size:32 final size:32
Alignment explanation
Indices: 1186748--1186848 Score: 166
Period size: 32 Copynumber: 3.1 Consensus size: 32
1186738 GGCAGTAGCT
* *
1186748 TACATTGTATCGATACAAAACTTATGTATTGA
1 TACATTGTATCGATACAACACTTATGTATCGA
1186780 TACATTGTATCGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
*
1186812 TACATTGTATTGATACAACACTTCATGTATCGA
1 TACATTGTATCGATACAACACTT-ATGTATCGA
1186845 TACA
1 TACA
1186849 AATCGTTGAA
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 52 0.80
33 13 0.20
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.36
Consensus pattern (32 bp):
TACATTGTATCGATACAACACTTATGTATCGA
Found at i:1186809 original size:19 final size:19
Alignment explanation
Indices: 1186753--1186849 Score: 74
Period size: 19 Copynumber: 5.7 Consensus size: 19
1186743 TAGCTTACAT
*
1186753 TGTATCGATACAAAACTTA
1 TGTATCGATACAACACTTA
*
1186772 TGTATTGAT---ACA--T-
1 TGTATCGATACAACACTTA
1186785 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
1186804 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
*
1186817 TGTATTGATACAACACTTCA
1 TGTATCGATACAACACTT-A
1186837 TGTATCGATACAA
1 TGTATCGATACAA
1186850 ATCGTTGAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 25
0.67 0.06 0.28
Matches are distributed among these distances:
13 16 0.27
14 2 0.03
16 11 0.18
18 2 0.03
19 17 0.28
20 12 0.20
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.35
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:1187697 original size:58 final size:55
Alignment explanation
Indices: 1187641--1187791 Score: 206
Period size: 52 Copynumber: 2.9 Consensus size: 55
1187631 TGTTAAAGAT
* *
1187641 GAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAA
1 GAAGGCGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAA
* *
1187696 G-A--CGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTACAGATGAC--A
1 GAAGGCGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAA
* *
1187746 -AAGGCGCTAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
1 GAAGGCGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAG
1187792 GTGCCAATGT
Statistics
Matches: 87, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
50 2 0.02
52 83 0.95
54 1 0.01
55 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.22
Consensus pattern (55 bp):
GAAGGCGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAA
Found at i:1187952 original size:49 final size:49
Alignment explanation
Indices: 1187633--1188068 Score: 460
Period size: 43 Copynumber: 9.1 Consensus size: 49
1187623 CTTAGGAATG
* * *
1187633 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
1 TTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
**
1187682 TTAAAGATGACAAAGACGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TTAAAGAT---AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * *
1187734 TTACAGATGACAAAGGCGCTAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TTA-A-A-GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* *
1187786 -T-----TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTAGG-C
1 TTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATT-GGAC
* * * *
1187829 TTAAAAGATGAGGGTACCAATATGCTGATTCAAGGCCAGTGATATTGGAC
1 TT-AAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * *
1187879 -T-----TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
*
1187922 TTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGTGATATTGGAC
1 TTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * * *
1187971 -T-----TAAAGGTGCCCATGTGCTGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
*
1188014 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1188063 TTAAAG
1 TTAAAG
1188069 GGTTGCCACC
Statistics
Matches: 320, Mismatches: 40, Indels: 54
0.77 0.10 0.13
Matches are distributed among these distances:
43 106 0.33
44 5 0.02
48 1 0.00
49 92 0.29
50 33 0.10
51 1 0.00
52 78 0.24
53 1 0.00
54 1 0.00
55 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (49 bp):
TTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
Found at i:1187987 original size:92 final size:92
Alignment explanation
Indices: 1187699--1188069 Score: 564
Period size: 92 Copynumber: 4.0 Consensus size: 92
1187689 TGACAAAGAC
* * * * *
1187699 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTACAGATGACAAAGGCGCTAATATGCTGA
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTA-A-A-GATAAAGGTGCCAATATGCTGA
1187764 TTCAAGGCCAGCGATATTGGACTTAAAGGT
63 TTCAAGGCCAGCGATATTGGACTTAAAGGT
* * *
1187794 GCCAATGTGCTGATTCAAGGCCAGCGACATTAGG-CTTAAAAGATGAGGGTACCAATATGCTGAT
1 GCCAATGTGCTGATTCAAGGCCAGCGACATT-GGACTT-AAAGATAAAGGTGCCAATATGCTGAT
*
1187858 TCAAGGCCAGTGATATTGGACTTAAAGGT
64 TCAAGGCCAGCGATATTGGACTTAAAGGT
*
1187887 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTC
*
1187952 AAGGCCAGTGATATTGGACTTAAAGGT
66 AAGGCCAGCGATATTGGACTTAAAGGT
* * *
1187979 GCCCATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTC
1188044 AAGGCCAGCGATATTGGACTTAAAGG
66 AAGGCCAGCGATATTGGACTTAAAGG
1188070 GTTGCCACCG
Statistics
Matches: 257, Mismatches: 16, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
92 142 0.55
93 78 0.30
94 1 0.00
95 33 0.13
96 3 0.01
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (92 bp):
GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTC
AAGGCCAGCGATATTGGACTTAAAGGT
Found at i:1188143 original size:32 final size:32
Alignment explanation
Indices: 1188066--1188255 Score: 265
Period size: 32 Copynumber: 5.9 Consensus size: 32
1188056 ATTGGACTTA
1188066 AAGGGTTGCCACCGACTTGTGTGGGCTTTAGAG
1 AAGGGTTGCCACCGACTTGTGTGGGCTTT-GAG
* * *
1188099 AATGGTTGCCACCAACTTGTGTGGACTTT-AG
1 AAGGGTTGCCACCGACTTGTGTGGGCTTTGAG
1188130 AGAGGGTTGCCACCGACTTGTGTGGGCTTTGAG
1 A-AGGGTTGCCACCGACTTGTGTGGGCTTTGAG
* * *
1188163 AAGGGTTGCCATCGACTTGTGCGGGCTTTGGG
1 AAGGGTTGCCACCGACTTGTGTGGGCTTTGAG
* *
1188195 AAGGTTTGCCACCGACTTGTGTGGGCTTTGGG
1 AAGGGTTGCCACCGACTTGTGTGGGCTTTGAG
* *
1188227 AAGGGTTGTCACCAACTTGTGTGGGCTTT
1 AAGGGTTGCCACCGACTTGTGTGGGCTTT
1188256 AAAGAATGGT
Statistics
Matches: 140, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
31 3 0.02
32 108 0.77
33 29 0.21
ACGTcount: A:0.16, C:0.18, G:0.35, T:0.30
Consensus pattern (32 bp):
AAGGGTTGCCACCGACTTGTGTGGGCTTTGAG
Found at i:1188313 original size:33 final size:33
Alignment explanation
Indices: 1188267--1188683 Score: 335
Period size: 34 Copynumber: 12.8 Consensus size: 33
1188257 AAGAATGGTG
*
1188267 AAAGATGCCACGAAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCACGAAGTTGTGGACTTAAAAGGAA
* *
1188300 CAAGGTGCGACGAAGTTGTGGACTTTAAAAGGGAA
1 AAAGGTGCCACGAAGTTGTGGAC-TTAAAA-GGAA
* * **
1188335 AAAGAGTGCCACGGAGTTGTGGGCTTTGAA--AA
1 AAAG-GTGCCACGAAGTTGTGGACTTAAAAGGAA
* *
1188367 GAAGGTGCCACGAAGTCGTGGACTTAAAAGGAA
1 AAAGGTGCCACGAAGTTGTGGACTTAAAAGGAA
* ** *
1188400 CAAGGTGCCACGGGGTTGTGGACTTTAAAAGGGGA
1 AAAGGTGCCACGAAGTTGTGGAC-TTAAAA-GGAA
* *
1188435 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAA-G--
1 AAAG-GTGCCACGAAGTTGTGGAC-TTAAAAGGAA
* * *
1188467 ---GGTGCCACGGAGTTGTGGATTTAGAAGGAA
1 AAAGGTGCCACGAAGTTGTGGACTTAAAAGGAA
* * * *
1188497 AAAGAGTGCCATGGAGTTGTGGGCTTTAAAAAGAA
1 AAAG-GTGCCACGAAGTTGTGGAC-TTAAAAGGAA
* *
1188532 AAAGGTGTCAC-AGAGTTGTGGACTTAGAAGGAA
1 AAAGGTGCCACGA-AGTTGTGGACTTAAAAGGAA
* *
1188565 AAAGAGTGCCACGGAGTTGTGGGCTTAAAA-G--
1 AAAG-GTGCCACGAAGTTGTGGACTTAAAAGGAA
*
1188596 ---GGTGCCACGAAGTTATGGACTTAAAA-GAA
1 AAAGGTGCCACGAAGTTGTGGACTTAAAAGGAA
1188625 AAAGGTGCCACGAAGTTGTGGACTTTAAAAGGAA
1 AAAGGTGCCACGAAGTTGTGGAC-TTAAAAGGAA
* * * *
1188659 AAAGATGCCATGGAGTCGTGGACTT
1 AAAGGTGCCACGAAGTTGTGGACTT
1188684 TGATGCGACT
Statistics
Matches: 309, Mismatches: 49, Indels: 52
0.75 0.12 0.13
Matches are distributed among these distances:
27 28 0.09
28 19 0.06
29 1 0.00
31 20 0.06
32 24 0.08
33 63 0.20
34 85 0.28
35 29 0.09
36 40 0.13
ACGTcount: A:0.34, C:0.12, G:0.33, T:0.21
Consensus pattern (33 bp):
AAAGGTGCCACGAAGTTGTGGACTTAAAAGGAA
Done.