Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold32
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: 5587194
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.26
Warning! 895791 characters in sequence are not A, C, G, or T
File 27 of 33
Found at i:3905758 original size:15 final size:16
Alignment explanation
Indices: 3905721--3905760 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
3905711 CTTCTCTTCT
*
3905721 AAAAAAAACAAAAAGA
1 AAAAAAAACAAAAACA
3905737 AAAAAAAAC-AAAACA
1 AAAAAAAACAAAAACA
3905752 AAGAAAAAA
1 AA-AAAAAA
3905761 GAGAGAAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.32
16 15 0.68
ACGTcount: A:0.88, C:0.07, G:0.05, T:0.00
Consensus pattern (16 bp):
AAAAAAAACAAAAACA
Found at i:3908295 original size:20 final size:20
Alignment explanation
Indices: 3908260--3908312 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
3908250 TTACAATTTA
3908260 TATCGATACAATAAGTGAATG
1 TATCGATAC-ATAAGTGAATG
3908281 TATCGATACATAAGTGAATG
1 TATCGATACATAAGTGAATG
3908301 TATCGATACATA
1 TATCGATACATA
3908313 TCTGTAATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 23 0.72
21 9 0.28
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.30
Consensus pattern (20 bp):
TATCGATACATAAGTGAATG
Found at i:3908444 original size:51 final size:50
Alignment explanation
Indices: 3908368--3908505 Score: 195
Period size: 51 Copynumber: 2.7 Consensus size: 50
3908358 TCTACAAAAA
* *
3908368 AAATGTATCGATACAGTTTTCATTGTATCGATATATTTTAGTTTTTGACCC
1 AAATGTATCGATACA-TTTTCATTGTATCGATACATTTTAGCTTTTGACCC
* *
3908419 AAATGTATCGATACCTTATTCATTGTATCGATACATTTTGGCTTTTGACCC
1 AAATGTATCGATACATT-TTCATTGTATCGATACATTTTAGCTTTTGACCC
* *
3908470 AAATGTATCGATATATTCTTCAATGTATCGATACAT
1 AAATGTATCGATACATT-TTCATTGTATCGATACAT
3908506 GCAAGCAAAT
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
50 2 0.03
51 76 0.97
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (50 bp):
AAATGTATCGATACATTTTCATTGTATCGATACATTTTAGCTTTTGACCC
Found at i:3911948 original size:165 final size:167
Alignment explanation
Indices: 3911604--3912404 Score: 658
Period size: 164 Copynumber: 4.9 Consensus size: 167
3911594 AATCACCATC
* * * * *
3911604 AAATCAGTTTTAAAAAAATT-ATTCATTTTCATTAGTTTTTTATTTTTCCTTAG-AATTTCTCTT
1 AAATCAGTTTT-GAAAAATTCATTCATCTTCATGAGTTTTTCATTTTTCCTTAGAAATTTC-CCT
** * * *
3911667 ATTTCCGAAACACGGAGTTTTCTTCTTTGTAAAT-TTTTTCGGGAGGATTTTCATCGATATAAAA
64 ATTTCCGAAACACGGAGTTTTCTTCTCCGTAAATGTTTTTGGGGAGAATTTTCATCGATTTAAAA
* * * *
3911731 TTTTTAAAATTTATCAAATATCATCATTTAATTCACATA
129 TTTTTAAAATTCATAAAATATCATTATTTAATTCACATT
* * *
3911770 AAATTAGTTTTGAATAATTCATTCATCTTCATAAGTTTTTCATTTTTCCTTAG-AATTCTCCCTA
1 AAATCAGTTTTGAAAAATTCATTCATCTTCATGAGTTTTTCATTTTTCCTTAGAAATT-TCCCTA
** * *
3911834 TTTTTGAAATACGGAGTTTTCTTCTCCGTAAAT-TTTTT-TGGAGAATTTTCATCGATTTAAAAT
65 TTTCCGAAACACGGAGTTTTCTTCTCCGTAAATGTTTTTGGGGAGAATTTTCATCGATTTAAAAT
* *
3911897 TTTTAAAATTCATCAAATATCATTATTTAATTTACATT
130 TTTTAAAATTCATAAAATATCATTATTTAATTCACATT
* ** ** * *
3911935 AAATCATTTTTGAAAAATTCATTGTTCTTCATGAGTTTTGAATTTTT-CTTTGAAATTTTCCTAT
1 AAATCAGTTTTGAAAAATTCATTCATCTTCATGAGTTTTTCATTTTTCCTTAGAAATTTCCCTAT
** * * * * ** * * *
3911999 TTTTGAAACA-AGA-TTTT-TTATTCCGTAAATGTTTTTAAGGG-GATTTTTTTTTGGTTTATAA
66 TTCCGAAACACGGAGTTTTCTT-CTCCGTAAATGTTTTT-GGGGAGAATTTTCATCGATTTAAAA
* *
3912060 TTTTTAAAATTCATAAAATATCATTATTTAATTTATATT
129 TTTTTAAAATTCATAAAATATCATTATTTAATTCACATT
* * ** * *
3912099 AAATCAGTTTTGAAAAATTCATTTATTTTTGTGAGTTTTTCATTTTTTCTTTGAAA-TTCTCCTA
1 AAATCAGTTTTGAAAAATTCATTCATCTTCATGAGTTTTTCATTTTTCCTTAGAAATTTC-CCTA
* * * * * * * *
3912163 TTTCCAAAATATGGAGTTTTCTAT-TCCATAAATGTTTTTGGGGGGGAATTTTC-TTGGTTTATA
65 TTTCCGAAACACGGAGTTTTCT-TCTCCGTAAATGTTTTT-GGGGAGAATTTTCATCGATTTAAA
* * *
3912226 TTTTTTAAAATTCATAAAATATCATTTTTTAATTCATATT
128 ATTTTTAAAATTCATAAAATATCATTATTTAATTCACATT
* * * * * * *
3912266 AAATTAGTTTTAAAAAATT-ATT--TTTTGATGAGTTTTTTATTTTTTTCTT-GAAA-TGCCGCT
1 AAATCAGTTTTGAAAAATTCATTCATCTTCATGAGTTTTTCA-TTTTTCCTTAGAAATTTCC-CT
* * ** * * * * *
3912326 ATTTTCGAAAAACTAAGTTTT-TTACTTCGTAAATATTTTTGGGG-GGATTTTTATC--TTTTAA
64 ATTTCCGAAACACGGAGTTTTCTT-CTCCGTAAATGTTTTTGGGGAGAATTTTCATCGATTTAAA
3912387 ATTTTTAAAATTCATAAA
128 ATTTTTAAAATTCATAAA
3912405 CTCCTATTAA
Statistics
Matches: 532, Mismatches: 84, Indels: 43
0.81 0.13 0.07
Matches are distributed among these distances:
161 23 0.04
162 20 0.04
163 14 0.03
164 160 0.30
165 135 0.25
166 85 0.16
167 87 0.16
168 7 0.01
169 1 0.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (167 bp):
AAATCAGTTTTGAAAAATTCATTCATCTTCATGAGTTTTTCATTTTTCCTTAGAAATTTCCCTAT
TTCCGAAACACGGAGTTTTCTTCTCCGTAAATGTTTTTGGGGAGAATTTTCATCGATTTAAAATT
TTTAAAATTCATAAAATATCATTATTTAATTCACATT
Found at i:3912616 original size:14 final size:15
Alignment explanation
Indices: 3912597--3912626 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
3912587 ATTTTGTTTT
3912597 AATTTTTA-AATTTA
1 AATTTTTACAATTTA
3912611 AATTTTTACAATTTA
1 AATTTTTACAATTTA
3912626 A
1 A
3912627 TCTTTTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (15 bp):
AATTTTTACAATTTA
Found at i:3912632 original size:15 final size:13
Alignment explanation
Indices: 3912594--3912645 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 13
3912584 AAAATTTTGT
3912594 TTTAATTTTTAAA
1 TTTAATTTTTAAA
3912607 TTTAAATTTTTACAA
1 TTT-AATTTTTA-AA
**
3912622 TTTAATCTTTTTTA
1 TTTAAT-TTTTAAA
3912636 -TTAATTTTTA
1 TTTAATTTTTA
3912646 TGGTATAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
12 4 0.12
13 8 0.24
14 12 0.36
15 9 0.27
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (13 bp):
TTTAATTTTTAAA
Found at i:3914494 original size:155 final size:154
Alignment explanation
Indices: 3914257--3914798 Score: 585
Period size: 156 Copynumber: 3.5 Consensus size: 154
3914247 TAAGGTTATC
* * * * * *
3914257 GAGATACTTTCACATC-AAAGGTATACCCATAAAGGTATTTTCGTAATTTTTTAAAACTTAATCT
1 GAGATACTTTCACGTCGAAA-GTATACCCATAAGGGTATTTTCATAATTTTTTAAAACTGAGTCC
*
3914321 TAGGTTGTCACCAGGTCTGCTTTTATATCGAAGGTGGTATTTAGGATAGGTTCACCCCATCTATA
65 TAGGTTGTCACCAGGTCTGCTTTTATA-CGAAGGTGGTATTTAGGATAGGTTCACCCCAGCTATA
* * **
3914386 ACCGTTTTAAGTCCTTTATGGTTGTT
129 ACCTTTTTAAGTCCTTTAGGGTTACT
* * * * *
3914412 GGGATACTTTCACGTCGAAAGTATACCCATAGGGGTGTTTACATAATTTTTTAGAACTGAGTCCT
1 GAGATACTTTCACGTCGAAAGTATACCCATAAGGGTATTTTCATAATTTTTTAAAACTGAGTCCT
* * * *
3914477 AGGTTGTCACC-GAGTCTGTTTTTATGCCGAAGGTGGAATTTTAGGATAGGTTCACCCTAGCTAT
66 AGGTTGTCACCAG-GTCTGCTTTTAT-ACGAAGGTGGTA-TTTAGGATAGGTTCACCCCAGCTAT
3914541 AACCTTTTTAAGTCCTTTAGGGTTACT
128 AACCTTTTTAAGTCCTTTAGGGTTACT
* * *
3914568 GAGATACTTTCATGTCG-AAGATATACCCATAAGGGTATTTTCATAATTTTTTATAACCGAGTCC
1 GAGATACTTTCACGTCGAAAG-TATACCCATAAGGGTATTTTCATAATTTTTTAAAACTGAGTCC
* *
3914632 TAAGTTGTCACCAGGTCTGCTTTTATACTGAAGGTGGGTATTTAGGATAGGTTCATCCCAGCTAT
65 TAGGTTGTCACCAGGTCTGCTTTTATAC-GAAGGT-GGTATTTAGGATAGGTTCACCCCAGCTAT
* * * ** *
3914697 ATCATTTTTAGGTCCTTTAGGGGCACC
128 AACCTTTTTAAGTCCTTTAGGGTTACT
* * * * * * *
3914724 G-GGTACTTTTACGTTGAAA--AGTACCCTTTAGGGGCATTTTCATAATTTTGTTGAAA-TCGAG
1 GAGATACTTTCACGTCGAAAGTA-TACCC-ATAAGGGTATTTTCATAATTTT-TTAAAACT-GAG
3914785 TCCTAGGTTGTCAC
62 TCCTAGGTTGTCAC
3914799 TCTTACACCA
Statistics
Matches: 324, Mismatches: 50, Indels: 25
0.81 0.13 0.06
Matches are distributed among these distances:
153 1 0.00
154 6 0.02
155 116 0.36
156 197 0.61
157 4 0.01
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.37
Consensus pattern (154 bp):
GAGATACTTTCACGTCGAAAGTATACCCATAAGGGTATTTTCATAATTTTTTAAAACTGAGTCCT
AGGTTGTCACCAGGTCTGCTTTTATACGAAGGTGGTATTTAGGATAGGTTCACCCCAGCTATAAC
CTTTTTAAGTCCTTTAGGGTTACT
Found at i:3918119 original size:41 final size:39
Alignment explanation
Indices: 3918057--3918143 Score: 138
Period size: 41 Copynumber: 2.2 Consensus size: 39
3918047 AACCCTTGTC
* *
3918057 TTTGGATTGACATTATTCTTTGAAATATGAATTTTGAATAT
1 TTTGAATTGACATCATTCTTTGAAATATGAATTTTG-A-AT
3918098 TTTGAATTGACATCATTCTTTGAAATATGAATTTTGAAT
1 TTTGAATTGACATCATTCTTTGAAATATGAATTTTGAAT
3918137 TTTGAAT
1 TTTGAAT
3918144 ATATTGATGA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
39 9 0.20
40 1 0.02
41 34 0.77
ACGTcount: A:0.32, C:0.06, G:0.14, T:0.48
Consensus pattern (39 bp):
TTTGAATTGACATCATTCTTTGAAATATGAATTTTGAAT
Found at i:3920217 original size:88 final size:88
Alignment explanation
Indices: 3920069--3920366 Score: 359
Period size: 88 Copynumber: 3.4 Consensus size: 88
3920059 CAAATTGGGA
* * *
3920069 TTAGATGACATTAGCATTTGCATCATTTCATATGCA-TTGCCATTTTATTGATGCTTGCATTTGC
1 TTAGATAACATTGGCATTTGCATCATTTCATATGCATTTGCCATTTTATTGATACTTGCATTTGC
**
3920133 ATTGTTTCACACAC-TCTTGCATT
66 ATCATTTCACACACATC-TGCATT
* * * *
3920156 TTAGATAACATTGGCATTTACATCAGTTCACATCCATTTGCCATTTTATTGATACTTGCATTTGC
1 TTAGATAACATTGGCATTTGCATCATTTCATATGCATTTGCCATTTTATTGATACTTGCATTTGC
*
3920221 ATCATTTCACACACATGTGCATT
66 ATCATTTCACACACATCTGCATT
* * * *
3920244 TTAGATGACATTGGTATTTGCATTATTTCATATGCATTTGCC-TTTTCATTGATTCTTGCATTTG
1 TTAGATAACATTGGCATTTGCATCATTTCATATGCATTTGCCATTTT-ATTGATACTTGCATTTG
** * *
3920308 CATCATTTCATGCACGTCTGCACT
65 CATCATTTCACACACATCTGCATT
* * * *
3920332 TTAGATAACATTAGTAATTGCATCATTCCATATGC
1 TTAGATAACATTGGCATTTGCATCATTTCATATGC
3920367 GTCTACCAAT
Statistics
Matches: 180, Mismatches: 28, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
87 34 0.19
88 145 0.81
89 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.13, T:0.42
Consensus pattern (88 bp):
TTAGATAACATTGGCATTTGCATCATTTCATATGCATTTGCCATTTTATTGATACTTGCATTTGC
ATCATTTCACACACATCTGCATT
Found at i:3920263 original size:44 final size:44
Alignment explanation
Indices: 3920069--3920317 Score: 171
Period size: 44 Copynumber: 5.7 Consensus size: 44
3920059 CAAATTGGGA
* **
3920069 TTAGATGACATTAGCATTTGCATCATTTCATATGCA-TTGCCATT
1 TTAGATGACATT-GCATTTGCATCATTTCACACACATTTGCCATT
**
3920113 TTATTGATG-C-TTGCATTTGCATTGTTTCACACAC-TCTTG-CATT
1 TTA--GATGACATTGCATTTGCATCATTTCACACACAT-TTGCCATT
* * *
3920156 TTAGATAACATTGGCATTTACATCAGTTCACATC-CATTTGCCATT
1 TTAGATGACATT-GCATTTGCATCATTTCACA-CACATTTGCCATT
*
3920201 TTATTGAT-AC-TTGCATTTGCATCATTTCACACACATGTG-CATT
1 TTA--GATGACATTGCATTTGCATCATTTCACACACATTTGCCATT
* * * **
3920244 TTAGATGACATTGGTATTTGCATTATTTCATATGCATTTGCC-TT
1 TTAGATGACATT-GCATTTGCATCATTTCACACACATTTGCCATT
*
3920288 TTCATTGAT-TC-TTGCATTTGCATCATTTCA
1 TT-A--GATGACATTGCATTTGCATCATTTCA
3920318 TGCACGTCTG
Statistics
Matches: 163, Mismatches: 22, Indels: 40
0.72 0.10 0.18
Matches are distributed among these distances:
41 6 0.04
42 3 0.02
43 36 0.22
44 89 0.55
45 16 0.10
46 7 0.04
47 6 0.04
ACGTcount: A:0.24, C:0.19, G:0.13, T:0.44
Consensus pattern (44 bp):
TTAGATGACATTGCATTTGCATCATTTCACACACATTTGCCATT
Found at i:3920806 original size:30 final size:30
Alignment explanation
Indices: 3920772--3920865 Score: 84
Period size: 30 Copynumber: 3.1 Consensus size: 30
3920762 TGATTTCACT
3920772 CAAGTCATTGTTTAAGTTTTTGGTTTTATC
1 CAAGTCATTGTTTAAGTTTTTGGTTTTATC
* * * *
3920802 CAAGTCATTTTCATTGAG-TCTTAGTTTT-TCC
1 CAAGTCATTGT--TTAAGTTTTTGGTTTTAT-C
* * *
3920833 CAAATCATTGTTTAGGTTTTTGGTTTCATC
1 CAAGTCATTGTTTAAGTTTTTGGTTTTATC
3920863 CAA
1 CAA
3920866 CCCATTTTGC
Statistics
Matches: 48, Mismatches: 11, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
29 3 0.06
30 22 0.46
31 19 0.40
32 4 0.08
ACGTcount: A:0.21, C:0.15, G:0.15, T:0.49
Consensus pattern (30 bp):
CAAGTCATTGTTTAAGTTTTTGGTTTTATC
Found at i:3921642 original size:90 final size:90
Alignment explanation
Indices: 3921532--3921769 Score: 273
Period size: 90 Copynumber: 2.6 Consensus size: 90
3921522 AATAGAGGGA
* *
3921532 ACCACACATTCCGAATCATATTCCCTTTATTCAACCACTAAATGGTATTGATGCATCACAAAGCT
1 ACCACACATTCCTAATCATA-TCCCTTTATTCAACCACTAGATGGTATTGATGCATCACAAAGCT
* * *
3921597 TGATTTCCTTGAGA-TAAGG-GTGCAG
65 GGATTT-CTTGAGAGTAAGGAATCCAG
* * * *
3921622 CCCACACATTCCTAATCATATCCTCTTTATTCAACCACTAGATGGTATTGATACATCATAAATCT
1 ACCACACATTCCTAATCATATCC-CTTTATTCAACCACTAGATGGTATTGATGCATCACAAAGCT
* *
3921687 GGATTTCTTTAGAGTAAGGATATCCCG
65 GGATTTCTTGAGAGTAAGGA-ATCCAG
* * * * *
3921714 ACCACTCATTCTTAATCATATCCCTTTCTTTTAGCCACTAGATGGTATTGATGCAT
1 ACCACACATTCCTAATCATATCCCTTT-ATTCAACCACTAGATGGTATTGATGCAT
3921770 TACGTGACCA
Statistics
Matches: 125, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
89 9 0.07
90 65 0.52
91 4 0.03
92 47 0.38
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (90 bp):
ACCACACATTCCTAATCATATCCCTTTATTCAACCACTAGATGGTATTGATGCATCACAAAGCTG
GATTTCTTGAGAGTAAGGAATCCAG
Found at i:3922038 original size:35 final size:35
Alignment explanation
Indices: 3921944--3922133 Score: 204
Period size: 35 Copynumber: 5.4 Consensus size: 35
3921934 AAATTTTTTC
* * *
3921944 TCGTTTGAATGTATCTAGTCAAACTTTTTCCATCA
1 TCGTTTGACTGTATCTAGGCAAACTCTTTCCATCA
* * * * *
3921979 TCATTTAACTGTAACT-GGTTAAACTCTTTTCATCA
1 TCGTTTGACTGTATCTAGG-CAAACTCTTTCCATCA
* *
3922014 TCATTTGACTGTATCTAGGCAAACTCTTCCCATCA
1 TCGTTTGACTGTATCTAGGCAAACTCTTTCCATCA
* * * *
3922049 TCGCTTGGCTATATCTAGTCAAACTCTTTCCATCA
1 TCGTTTGACTGTATCTAGGCAAACTCTTTCCATCA
* *
3922084 TCGTTTGACTATATCT-GGTCAAACTCTTTCCACCA
1 TCGTTTGACTGTATCTAGG-CAAACTCTTTCCATCA
3922119 TCGTTTGACTGTATC
1 TCGTTTGACTGTATC
3922134 GATTACCACC
Statistics
Matches: 128, Mismatches: 24, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
34 2 0.02
35 124 0.97
36 2 0.02
ACGTcount: A:0.24, C:0.25, G:0.12, T:0.39
Consensus pattern (35 bp):
TCGTTTGACTGTATCTAGGCAAACTCTTTCCATCA
Found at i:3922148 original size:26 final size:26
Alignment explanation
Indices: 3922113--3922171 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 26
3922103 CAAACTCTTT
*
3922113 CCACCATCGTTTGACTGTATCGATTA
1 CCACCCTCGTTTGACTGTATCGATTA
* *
3922139 CCACCCTCGTTTGACTGTATTGGTTA
1 CCACCCTCGTTTGACTGTATCGATTA
3922165 CCACCCT
1 CCACCCT
3922172 AGTCAAACCT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.19, C:0.32, G:0.15, T:0.34
Consensus pattern (26 bp):
CCACCCTCGTTTGACTGTATCGATTA
Found at i:3922245 original size:41 final size:41
Alignment explanation
Indices: 3922207--3922513 Score: 259
Period size: 41 Copynumber: 7.5 Consensus size: 41
3922197 TGACTTTAAA
* *
3922207 GGTTTTGCCTTGGTCAACCCTTTTAATCTGTTGGCTTTATT
1 GGTTTTGCCCTGGTCAACCCTTTTAATCTGTTGGCTTTATC
** ** * * ** *
3922248 AATTTCACCCTAGCCAA-CCTTCCAAT-TGGTTGAG-TTTATT
1 GGTTTTGCCCTGGTCAACCCTTTTAATCT-GTTG-GCTTTATC
*
3922288 GATTTTGCCCTGGTCAACCCTTTTAATCTGTTGGCTTTATC
1 GGTTTTGCCCTGGTCAACCCTTTTAATCTGTTGGCTTTATC
*
3922329 GATTTTGCCCTGGTCAACCCTTTTAATCTGTTGGCTTTATC
1 GGTTTTGCCCTGGTCAACCCTTTTAATCTGTTGGCTTTATC
* * * * *
3922370 GATTTTGCCTTGGCCAA-CCTTCTAAT-TAGTTGACTTTATC
1 GGTTTTGCCCTGGTCAACCCTTTTAATCT-GTTGGCTTTATC
* * *
3922410 GGTTTTGCCCTAGTCAACCTTTTTGA-CTCGTTGGCTTTATC
1 GGTTTTGCCCTGGTCAACCCTTTTAATCT-GTTGGCTTTATC
** * * ***
3922451 GGTTTCACCCTGGCCAACCCTTTTAAAT-GGTTAATTTTATC
1 GGTTTTGCCCTGGTCAACCCTTTT-AATCTGTTGGCTTTATC
*
3922492 GGTTTTGCCTTGGTCAACCCTT
1 GGTTTTGCCCTGGTCAACCCTT
3922514 CTGACTGATT
Statistics
Matches: 212, Mismatches: 44, Indels: 20
0.77 0.16 0.07
Matches are distributed among these distances:
39 2 0.01
40 62 0.29
41 146 0.69
42 2 0.01
ACGTcount: A:0.17, C:0.24, G:0.17, T:0.43
Consensus pattern (41 bp):
GGTTTTGCCCTGGTCAACCCTTTTAATCTGTTGGCTTTATC
Found at i:3922347 original size:81 final size:81
Alignment explanation
Indices: 3922209--3922430 Score: 254
Period size: 81 Copynumber: 2.7 Consensus size: 81
3922199 ACTTTAAAGG
** ** *
3922209 TTTTGCCTTGGTCAACCCTTTTAATCTGTTGGCTTTATTAATTTCACCCTAGCCAACCTTCCAAT
1 TTTTGCCTTGGTCAACCCTTTTAATCTGTTGGCTTTATCGATTTTGCCCTAGTCAACCTTCCAAT
*
3922274 -TGGTTGAG-TTTATTGA
66 CT-GTTG-GCTTTATCGA
* * **
3922290 TTTTGCCCTGGTCAACCCTTTTAATCTGTTGGCTTTATCGATTTTGCCCTGGTCAACCCTTTTAA
1 TTTTGCCTTGGTCAACCCTTTTAATCTGTTGGCTTTATCGATTTTGCCCTAGTCAA-CCTTCCAA
3922355 TCTGTTGGCTTTATCGA
65 TCTGTTGGCTTTATCGA
* * * *
3922372 TTTTGCCTTGGCCAA-CCTTCTAAT-TAGTTGACTTTATCGGTTTTGCCCTAGTCAACCTT
1 TTTTGCCTTGGTCAACCCTTTTAATCT-GTTGGCTTTATCGATTTTGCCCTAGTCAACCTT
3922431 TTTGACTCGT
Statistics
Matches: 121, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
80 5 0.04
81 84 0.69
82 31 0.26
83 1 0.01
ACGTcount: A:0.17, C:0.24, G:0.16, T:0.43
Consensus pattern (81 bp):
TTTTGCCTTGGTCAACCCTTTTAATCTGTTGGCTTTATCGATTTTGCCCTAGTCAACCTTCCAAT
CTGTTGGCTTTATCGA
Found at i:3922417 original size:122 final size:122
Alignment explanation
Indices: 3922209--3922476 Score: 349
Period size: 122 Copynumber: 2.2 Consensus size: 122
3922199 ACTTTAAAGG
* *
3922209 TTTTGCCTTGGTCAACCCTTTTAATCTGTTGGCTTTATTAATTTCACCCTAGCCAACCTTCCAAT
1 TTTTGCCCTGGTCAACCCTTTTAATCTGTTGGCTTTATCAATTTCACCCTAGCCAACCTTCCAAT
* * * *
3922274 TGGTTGAGTTTATTGATTTTGCCCTGGTCAACCCTTTTAA-TCTGTTGGCTTTATCGA
66 TAGTTGACTTTATCGATTTTGCCCTAGTCAACCCTTTTAACTC-GTTGGCTTTATCGA
* ** * * *
3922331 TTTTGCCCTGGTCAACCCTTTTAATCTGTTGGCTTTATCGATTTTGCCTTGGCCAACCTTCTAAT
1 TTTTGCCCTGGTCAACCCTTTTAATCTGTTGGCTTTATCAATTTCACCCTAGCCAACCTTCCAAT
* * * *
3922396 TAGTTGACTTTATCGGTTTTGCCCTAGTCAACCTTTTTGACTCGTTGGCTTTATCGG
66 TAGTTGACTTTATCGATTTTGCCCTAGTCAACCCTTTTAACTCGTTGGCTTTATCGA
** *
3922453 TTTCACCCTGGCCAACCCTTTTAA
1 TTTTGCCCTGGTCAACCCTTTTAA
3922477 ATGGTTAATT
Statistics
Matches: 126, Mismatches: 19, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
122 124 0.98
123 2 0.02
ACGTcount: A:0.17, C:0.25, G:0.16, T:0.43
Consensus pattern (122 bp):
TTTTGCCCTGGTCAACCCTTTTAATCTGTTGGCTTTATCAATTTCACCCTAGCCAACCTTCCAAT
TAGTTGACTTTATCGATTTTGCCCTAGTCAACCCTTTTAACTCGTTGGCTTTATCGA
Found at i:3922443 original size:81 final size:82
Alignment explanation
Indices: 3922295--3922591 Score: 291
Period size: 81 Copynumber: 3.6 Consensus size: 82
3922285 ATTGATTTTG
* * * *
3922295 CCCTGGTCAACCCTTTTAATCT-GTTGGCTTTATCGATTTTGCCCTGGTCAACCCTTTT-AATCT
1 CCCTGGCCAACCCTTTTAAT-TGGTTGACTTTATCGGTTTTGCCCTGGTCAACCCTTTTGACTC-
**
3922358 GTTGGCTTTATCGATTTTG
64 GTTGGCTTTATCGATTTCA
* * * * *
3922377 CCTTGGCCAA-CCTTCTAATTAGTTGACTTTATCGGTTTTGCCCTAGTCAACCTTTTTGACTCGT
1 CCCTGGCCAACCCTTTTAATTGGTTGACTTTATCGGTTTTGCCCTGGTCAACCCTTTTGACTCGT
*
3922441 TGGCTTTATCGGTTTCA
66 TGGCTTTATCGATTTCA
* * * * *
3922458 CCCTGGCCAACCCTTTTAAATGGTTAATTTTATCGGTTTTGCCTTGGTCAACCCTTCTGACT-GA
1 CCCTGGCCAACCCTTTTAATTGGTTGACTTTATCGGTTTTGCCCTGGTCAACCCTTTTGACTCG-
*
3922522 TTGG-TTTCATCGGTTTCA
65 TTGGCTTT-ATCGATTTCA
* * * ** * *
3922540 CCTTGACTAA-CCTTTTAATTGGTTGACTTTATCATTTTTACCTTGGTCAACC
1 CCCTGGCCAACCCTTTTAATTGGTTGACTTTATCGGTTTTGCCCTGGTCAACC
3922592 TTTCTATTTG
Statistics
Matches: 180, Mismatches: 30, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
80 1 0.01
81 105 0.58
82 74 0.41
ACGTcount: A:0.17, C:0.24, G:0.16, T:0.42
Consensus pattern (82 bp):
CCCTGGCCAACCCTTTTAATTGGTTGACTTTATCGGTTTTGCCCTGGTCAACCCTTTTGACTCGT
TGGCTTTATCGATTTCA
Found at i:3922490 original size:122 final size:122
Alignment explanation
Indices: 3922260--3922515 Score: 309
Period size: 122 Copynumber: 2.1 Consensus size: 122
3922250 TTTCACCCTA
* * * * *
3922260 GCCAACCTTCCAATTGGTTGAGTTTATTGATTTTGCCCTGGTCAACCCTTTTAATCTGTTGGCTT
1 GCCAACCTTCTAATTAGTTGACTTTATCGATTTTGCCCTAGTCAACCCTTTTAATCTGTTGGCTT
** * * **
3922325 TATCGATTTTGCCCTGGTCAACCCTTTTAATCTGTTGGCTTTATCGATTTTGCCTTG
66 TATCGATTTCACCCTGGCCAACCCTTTTAATCGGTTAACTTTATCGATTTTGCCTTG
* * *
3922382 GCCAACCTTCTAATTAGTTGACTTTATCGGTTTTGCCCTAGTCAACCTTTTTGA-CTCGTTGGCT
1 GCCAACCTTCTAATTAGTTGACTTTATCGATTTTGCCCTAGTCAACCCTTTTAATCT-GTTGGCT
* * *
3922446 TTATCGGTTTCACCCTGGCCAACCCTTTTAAAT-GGTTAATTTTATCGGTTTTGCCTTG
65 TTATCGATTTCACCCTGGCCAACCCTTTT-AATCGGTTAACTTTATCGATTTTGCCTTG
*
3922504 GTCAACCCTTCT
1 GCCAA-CCTTCT
3922516 GACTGATTGG
Statistics
Matches: 113, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
121 2 0.02
122 102 0.90
123 9 0.08
ACGTcount: A:0.16, C:0.24, G:0.17, T:0.42
Consensus pattern (122 bp):
GCCAACCTTCTAATTAGTTGACTTTATCGATTTTGCCCTAGTCAACCCTTTTAATCTGTTGGCTT
TATCGATTTCACCCTGGCCAACCCTTTTAATCGGTTAACTTTATCGATTTTGCCTTG
Found at i:3922544 original size:41 final size:39
Alignment explanation
Indices: 3922298--3922544 Score: 127
Period size: 41 Copynumber: 6.1 Consensus size: 39
3922288 GATTTTGCCC
* * ** *
3922298 TGGTCAACCCTTTTAATCTGTTGGCTTTATCGATTTTGCCC
1 TGGTCAACCCTTTTGA-CTGTTGG-TTTATCGGTTTCACCT
* * **
3922339 TGGTCAACCCTTTTAATCTGTTGGCTTTATCGATTTTGCCT
1 TGGTCAACCCTTTTGA-CTGTTGG-TTTATCGGTTTCACCT
* * * * * ** *
3922380 TGGCCAA-CCTTCTAATTAGTTGACTTTATCGGTTTTGCCC
1 TGGTCAACCCTTTTGACT-GTTG-GTTTATCGGTTTCACCT
* * *
3922420 TAGTCAACCTTTTTGACTCGTTGGCTTTATCGGTTTCACCC
1 TGGTCAACCCTTTTGACT-GTTGG-TTTATCGGTTTCACCT
* * * ** **
3922461 TGGCCAACCCTTTTAAATGGTTAATTTTATCGGTTTTGCCT
1 TGGTCAACCCTTTTGACT-GTT-GGTTTATCGGTTTCACCT
*
3922502 TGGTCAACCCTTCTGACTGATTGGTTTCATCGGTTTCACCT
1 TGGTCAACCCTTTTGACTG-TTGGTTT-ATCGGTTTCACCT
3922543 TG
1 TG
3922545 ACTAACCTTT
Statistics
Matches: 163, Mismatches: 36, Indels: 14
0.77 0.17 0.07
Matches are distributed among these distances:
39 1 0.01
40 34 0.21
41 128 0.79
ACGTcount: A:0.16, C:0.24, G:0.18, T:0.43
Consensus pattern (39 bp):
TGGTCAACCCTTTTGACTGTTGGTTTATCGGTTTCACCT
Found at i:3922882 original size:86 final size:85
Alignment explanation
Indices: 3922755--3922913 Score: 201
Period size: 86 Copynumber: 1.9 Consensus size: 85
3922745 CTGTTTATCC
* * * *
3922755 TTTGTTGACTTATTGATCCAATCCTAGTTAACTTTTTTATCCTTTGTTTACCTATCAGCTTAGTC
1 TTTGTTGACTTATCGATCCAATCCTAGTCAACTCTTTTATCCTTTGTCTACCTATCAGCTTAGT-
3922820 CTAGGGTAAATCCTTTTACTT
65 CTAGGGTAAATCCTTTTACTT
* * * * * * *
3922841 TTTGTTGACTTGTCGTTTCAATCCTGGTCAACTCTTTTATCCTTTGTCTACTTGTTAGCTTAGTC
1 TTTGTTGACTTATCGATCCAATCCTAGTCAACTCTTTTATCCTTTGTCTACCTATCAGCTTAGTC
*
3922906 TCGGGTAA
66 TAGGGTAA
3922914 CCCCTTTCAT
Statistics
Matches: 61, Mismatches: 12, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
85 8 0.13
86 53 0.87
ACGTcount: A:0.18, C:0.20, G:0.14, T:0.47
Consensus pattern (85 bp):
TTTGTTGACTTATCGATCCAATCCTAGTCAACTCTTTTATCCTTTGTCTACCTATCAGCTTAGTC
TAGGGTAAATCCTTTTACTT
Found at i:3923904 original size:33 final size:33
Alignment explanation
Indices: 3923867--3923933 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3923857 TTCAACGATT
3923867 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
3923900 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
3923933 T
1 T
3923934 TTAAGCTACT
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:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:3923905 original size:13 final size:13
Alignment explanation
Indices: 3923887--3923911 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3923877 CATAAAATGT
3923887 TGTATCGATACAA
1 TGTATCGATACAA
3923900 TGTATCGATACA
1 TGTATCGATACA
3923912 TATTTTTTTG
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:3923992 original size:13 final size:13
Alignment explanation
Indices: 3923974--3923998 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3923964 ATTACTCAAA
3923974 TGTATCGATACAT
1 TGTATCGATACAT
3923987 TGTATCGATACA
1 TGTATCGATACA
3923999 CCGATCTTTG
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:3924063 original size:52 final size:52
Alignment explanation
Indices: 3924007--3924126 Score: 213
Period size: 52 Copynumber: 2.3 Consensus size: 52
3923997 CACCGATCTT
* *
3924007 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATCTGCCCAGATGTATCGATACACTATAAAA
*
3924059 TGTATCGATACATGCAGGCAAATCTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATCTGCCCAGATGTATCGATACACTATAAAA
3924111 TGTATCGATACATGCA
1 TGTATCGATACATGCA
3924127 AGTAACTTTT
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATCTGCCCAGATGTATCGATACACTATAAAA
Found at i:3927995 original size:166 final size:165
Alignment explanation
Indices: 3927795--3928330 Score: 604
Period size: 166 Copynumber: 3.2 Consensus size: 165
3927785 AAATTCACAT
* * * * *
3927795 ATTTTCAATAATTTTT-TATTTTTTCCTTGAAATTCCTCAGTTTTCGAAATATGGAGTTTTCCT-
1 ATTTTCATTCATTTTTGAATTTTTTCCTTGAAATTCCTCTGTTTTCGAAATGTGGAGTTTT-CTA
** * * *
3927858 CTCCATAACTTTTTTCGGAGGGATTTTTCTTGGATTTTAATTTTTAAAGTTCATAAAATATTATT
65 CTTTATAAATTTTTT-GGAGGGATTTTTCTTGGATTTTAATTTTTAAAATTCATCAAATATTATT
* *
3927923 ATTTAATTTATATTAAATAAAATTTTAAAAATTCATTT
129 ATTTAATTCATATTAAAT-AAATTTTAAAAATTCATTC
*
3927961 ATTTTCA-TGAGTTTTTGAATTTTTT-CTTGAAATTCC-CTTGTTTTCGAAATGTGGAGTTTTCT
1 ATTTTCATTCA-TTTTTGAATTTTTTCCTTGAAATTCCTC-TGTTTTCGAAATGTGGAGTTTTCT
* *
3928023 ACTTTATAAATCTTTTTGAAGGGATTTTTCTT-GATTTTTAATTTTTAAAATTTATCAAATATTA
64 ACTTTATAAAT-TTTTTGGAGGGATTTTTCTTGGA-TTTTAATTTTTAAAATTCATCAAATATTA
* *
3928087 TTATTTAATTCATAGTAAATCAATTTTTAAAAATTCATTC
127 TTATTTAATTCATATTAAAT-AAATTTTAAAAATTCATTC
* * * *
3928127 ATTTTTCATTCATTTTTGAATTTTTTCCTTGAAAAAT-CTTTGTTTCCGAAATGTAGAGTTTTCT
1 A-TTTTCATTCATTTTTGAATTTTTTCCTTG-AAATTCCTCTGTTTTCGAAATGTGGAGTTTTCT
* * * * *
3928191 ACTTTGTAAATGTTTT-GAGAGGATTTTCCTTGGTTTTTAACTTTTAAAATTCATCAAATATTAT
64 ACTTTATAAATTTTTTGGAG-GGATTTTTCTTGGATTTTAATTTTTAAAATTCATCAAATATTAT
* * * *
3928255 TATTGAATTCATATTAAATCAGTTTTTAAAATTCATTC
128 TATTTAATTCATATTAAATAAATTTTAAAAATTCATTC
* * *
3928293 ATTTTCGTTCATTTTT-TATTTTGTTCCTCGAAATTCCT
1 ATTTTCATTCATTTTTGAATTTT-TTCCTTGAAATTCCT
3928331 TTTTTCTCGA
Statistics
Matches: 318, Mismatches: 37, Indels: 31
0.82 0.10 0.08
Matches are distributed among these distances:
164 9 0.03
165 29 0.09
166 145 0.46
167 91 0.29
168 40 0.13
169 4 0.01
ACGTcount: A:0.29, C:0.11, G:0.09, T:0.51
Consensus pattern (165 bp):
ATTTTCATTCATTTTTGAATTTTTTCCTTGAAATTCCTCTGTTTTCGAAATGTGGAGTTTTCTAC
TTTATAAATTTTTTGGAGGGATTTTTCTTGGATTTTAATTTTTAAAATTCATCAAATATTATTAT
TTAATTCATATTAAATAAATTTTAAAAATTCATTC
Found at i:3928405 original size:167 final size:167
Alignment explanation
Indices: 3927896--3928445 Score: 397
Period size: 166 Copynumber: 3.3 Consensus size: 167
3927886 CTTGGATTTT
* * * * * * ** *
3927896 AATTTTTAAAGTTCATAAAATATTATTATTTAATTTATATTAAATAAAATTTTAAAAATTCATTT
1 AATTTTTAAAATTTATCAAATATTATTATTGAATTCATATTAAATCAGTTTTTAAAAATTCATTC
* * * * * ** * *
3927961 A-TTTTCA-TGAGTTTTTGAATTTTTT-CTTG-AAATTCCCTTGTTTTCGAAATGTGGAGTTTTC
66 ATTTTTCATTCA-TTTTTGAATTTTTTCCTCGAAAAAT-CTTTGTTTCCGAAAACTAGAATTTTC
* * * *** **
3928022 TACTTTATAAATCTTTTTGA-AGGGATTTTTCTTGATTTTT
129 TACTTCATAAATC-TTCTGAGA-GGATTTTCCTTGGCCTAA
* * *
3928062 AATTTTTAAAATTTATCAAATATTATTATTTAATTCATAGTAAATCAATTTTTAAAAATTCATTC
1 AATTTTTAAAATTTATCAAATATTATTATTGAATTCATATTAAATCAGTTTTTAAAAATTCATTC
* ** *
3928127 ATTTTTCATTCATTTTTGAATTTTTTCCTTGAAAAATCTTTGTTTCCGAAATGTAGAGTTTTCTA
66 ATTTTTCATTCATTTTTGAATTTTTTCCTCGAAAAATCTTTGTTTCCGAAAACTAGAATTTTCTA
** * * ** **
3928192 CTTTGTAAATGTTTTGAGAGGATTTTCCTTGGTTTTT
131 CTTCATAAATCTTCTGAGAGGATTTTCCTTGGCCTAA
* *
3928229 AACTTTTAAAATTCATCAAATATTATTATTGAATTCATATTAAATCAGTTTTT-AAAATTCATTC
1 AATTTTTAAAATTTATCAAATATTATTATTGAATTCATATTAAATCAGTTTTTAAAAATTCATTC
* * *
3928293 A-TTTTCGTTCATTTTT-TATTTTGTTCCTCG-AAATTCCTTT-TTTCTCGAAAAACTA-AATTT
66 ATTTTTCATTCATTTTTGAATTTT-TTCCTCGAAAAAT-CTTTGTTTC-CG-AAAACTAGAATTT
* * *
3928353 TTTA-TTCCATAAATACTTCTG-GTGGGATTTTCTTTGGCCTAA
127 TCTACTT-CATAAAT-CTTCTGAG-AGGATTTTCCTTGGCCTAA
* * * * * * * *
3928395 AATTTTTTAAATTTATCTACTATTGTCATTGAACTCCTATTTAATCAGTTT
1 AATTTTTAAAATTTATCAAATATTATTATTGAATTCATATTAAATCAGTTT
3928446 GGAGAAATTC
Statistics
Matches: 322, Mismatches: 50, Indels: 24
0.81 0.13 0.06
Matches are distributed among these distances:
164 15 0.05
165 39 0.12
166 133 0.41
167 90 0.28
168 41 0.13
169 4 0.01
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.51
Consensus pattern (167 bp):
AATTTTTAAAATTTATCAAATATTATTATTGAATTCATATTAAATCAGTTTTTAAAAATTCATTC
ATTTTTCATTCATTTTTGAATTTTTTCCTCGAAAAATCTTTGTTTCCGAAAACTAGAATTTTCTA
CTTCATAAATCTTCTGAGAGGATTTTCCTTGGCCTAA
Found at i:3929029 original size:20 final size:20
Alignment explanation
Indices: 3929006--3929079 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
3928996 ACAATTCAAA
3929006 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
3929026 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
3929047 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
3929067 GTATCGATACATG
1 GTATCGATACATG
3929080 AAAAAGATGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:3929050 original size:21 final size:21
Alignment explanation
Indices: 3929024--3929099 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
3929014 ACATGTTGCA
3929024 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
3929045 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
3929065 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
3929086 ATGTATCGATACAT
1 ATGTATCGATACAT
3929100 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:3929057 original size:41 final size:41
Alignment explanation
Indices: 3929006--3929099 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
3928996 ACAATTCAAA
3929006 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
3929047 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
3929088 GTATCGATACAT
1 GTATCGATACAT
3929100 TTCTTGGCAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
Found at i:3933498 original size:20 final size:20
Alignment explanation
Indices: 3933475--3933548 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
3933465 ACAATTCAAA
3933475 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
3933495 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
3933516 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
3933536 GTATCGATACATG
1 GTATCGATACATG
3933549 AAAAAGATGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:3933519 original size:21 final size:21
Alignment explanation
Indices: 3933493--3933568 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
3933483 ACATGTTGCA
3933493 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
3933514 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
3933534 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
3933555 ATGTATCGATACAT
1 ATGTATCGATACAT
3933569 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:3933526 original size:41 final size:41
Alignment explanation
Indices: 3933475--3933568 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
3933465 ACAATTCAAA
3933475 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
3933516 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
3933557 GTATCGATACAT
1 GTATCGATACAT
3933569 TTCTTGGCAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
Found at i:3933625 original size:13 final size:13
Alignment explanation
Indices: 3933607--3933632 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3933597 TACAGCAAGT
3933607 ATGTATCGATACA
1 ATGTATCGATACA
3933620 ATGTATCGATACA
1 ATGTATCGATACA
3933633 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:3938671 original size:162 final size:162
Alignment explanation
Indices: 3938438--3938855 Score: 499
Period size: 162 Copynumber: 2.6 Consensus size: 162
3938428 CAAGGAGATT
* * * *
3938438 TTTTTTTTGTTTATAATTTTTAAAATTCATAAAATATCATCA-TT-ATTCATATTAAATTAGTTT
1 TTTTTTTGGTTAAAAATTTTTAAAATTCATCAAATATCATCATTTAATTCATATTAAATTAGTTT
* *
3938501 TGAAAAATTCATTCATTTTCATGAGTTTTTTATTTTTGCTT-AAA-TTTT-T-TTTTGAAAA-AT
66 TGAAAAATTCATTTATTTTCATGAGTTTTTTATTTTTGCTTAAAATTTTTCTATTTTGAAAATAC
* ** * *
3938561 TGAGTTTTCTATTCCATAATAGTTTTTGAGGGGGG
131 GGAGTTTTCTACCCCATAA-A-TGTTT-AGGGGGA
* * *
3938596 TTTTTCTTGGTATAAAAATTTTTAATATTCATCAAATATCACCATTTAACTCATATTAAATTAGT
1 TTTTT-TTGGT-TAAAAATTTTTAAAATTCATCAAATATCATCATTTAATTCATATTAAATTAGT
* * * *
3938661 TTTAAAAAATTAATTTATTTTCATGAGTTTTTTATTTTTTCTTAAAATTTTTCTATTTTTAAAAT
64 TTTGAAAAATTCATTTATTTTCATGAGTTTTTTATTTTTGCTTAAAATTTTTCTATTTTGAAAAT
* * * *
3938726 ACGGAGTTTTTTGCCCCGTAAATGTTTCGGGGGA
129 ACGGAGTTTTCTACCCCATAAATGTTTAGGGGGA
* * * * *
3938760 TTTTTTTGGTTTATAATTTTTAAAATTTATCCAATATCATCATTTAATTCATATTAAATTATTTT
1 TTTTTTTGGTTAAAAATTTTTAAAATTCATCAAATATCATCATTTAATTCATATTAAATTAGTTT
3938825 TGAAAAATTCATTTATTTTCATGAGTTTTTT
66 TGAAAAATTCATTTATTTTCATGAGTTTTTT
3938856 TTCTTAAAAT
Statistics
Matches: 219, Mismatches: 32, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
158 5 0.02
159 4 0.02
160 27 0.12
161 2 0.01
162 131 0.60
163 8 0.04
164 14 0.06
165 5 0.02
166 9 0.04
167 14 0.06
ACGTcount: A:0.31, C:0.08, G:0.09, T:0.52
Consensus pattern (162 bp):
TTTTTTTGGTTAAAAATTTTTAAAATTCATCAAATATCATCATTTAATTCATATTAAATTAGTTT
TGAAAAATTCATTTATTTTCATGAGTTTTTTATTTTTGCTTAAAATTTTTCTATTTTGAAAATAC
GGAGTTTTCTACCCCATAAATGTTTAGGGGGA
Found at i:3939579 original size:23 final size:21
Alignment explanation
Indices: 3939553--3939594 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
3939543 AGTATAGATG
3939553 CTTTTCAAGCATAAAAATAATGC
1 CTTTTCAAG--TAAAAATAATGC
*
3939576 CTTTTTAAGTAAAAATAAT
1 CTTTTCAAGTAAAAATAAT
3939595 TAAAGTATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
23 8 0.44
ACGTcount: A:0.45, C:0.12, G:0.07, T:0.36
Consensus pattern (21 bp):
CTTTTCAAGTAAAAATAATGC
Found at i:3939698 original size:20 final size:21
Alignment explanation
Indices: 3939662--3939700 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
3939652 AAGTCAAAAC
*
3939662 CCTAGATTGTATTGATACACA
1 CCTAGATTGTATCGATACACA
3939683 CCTAGA-TGTATCGATACA
1 CCTAGATTGTATCGATACA
3939701 TATTGCTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (21 bp):
CCTAGATTGTATCGATACACA
Found at i:3939713 original size:20 final size:20
Alignment explanation
Indices: 3939690--3939744 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
3939680 ACACCTAGAT
3939690 GTATCGATACATATTGCTTA
1 GTATCGATACATATTGCTTA
* * *
3939710 GTATCCATACATGTT-CTTG
1 GTATCGATACATATTGCTTA
*
3939729 GTATTGATACATATTG
1 GTATCGATACATATTG
3939745 AATTACATCG
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.42
Consensus pattern (20 bp):
GTATCGATACATATTGCTTA
Found at i:3939845 original size:20 final size:21
Alignment explanation
Indices: 3939799--3939854 Score: 78
Period size: 20 Copynumber: 2.7 Consensus size: 21
3939789 GTATCGATAT
*
3939799 ATTGTATCGATACATACTTGA
1 ATTGTATCGATACATACGTGA
*
3939820 ATTGTATCGATACATA-GTGC
1 ATTGTATCGATACATACGTGA
*
3939840 ATTGTATTGATACAT
1 ATTGTATCGATACAT
3939855 TAAGCCTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 16 0.50
21 16 0.50
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.39
Consensus pattern (21 bp):
ATTGTATCGATACATACGTGA
Found at i:3940368 original size:32 final size:34
Alignment explanation
Indices: 3940284--3940370 Score: 97
Period size: 36 Copynumber: 2.6 Consensus size: 34
3940274 CTAAGTGATT
* **
3940284 GAGAAGTTCTATCTTAGCCTTTGAAAAAGATAGG
1 GAGAGGTTCTATCTTAGCCCGTGAAAAAGATAGG
*
3940318 GAGATAGGCTCTATCTTAGCCCGTG-AAAAGATAGG
1 GAG--AGGTTCTATCTTAGCCCGTGAAAAAGATAGG
*
3940353 GAG-GTTTCTATCTTAGCC
1 GAGAGGTTCTATCTTAGCC
3940371 TTTAAAGATA
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
32 13 0.29
34 3 0.07
35 13 0.29
36 16 0.36
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (34 bp):
GAGAGGTTCTATCTTAGCCCGTGAAAAAGATAGG
Found at i:3941066 original size:22 final size:22
Alignment explanation
Indices: 3941038--3941085 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
3941028 TTCATGAATA
3941038 CATGTTTTTTTGTGATATTTAT
1 CATGTTTTTTTGTGATATTTAT
3941060 CATGTTTTTTTGTGATATTTAT
1 CATGTTTTTTTGTGATATTTAT
3941082 CATG
1 CATG
3941086 CCATGTTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.19, C:0.06, G:0.15, T:0.60
Consensus pattern (22 bp):
CATGTTTTTTTGTGATATTTAT
Found at i:3946387 original size:30 final size:29
Alignment explanation
Indices: 3946329--3946388 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 29
3946319 AGCCGAAACA
3946329 TTTCATTTATGAATTCTCCCCCTATTTGT
1 TTTCATTTATGAATTCTCCCCCTATTTGT
* *
3946358 TTTCATTTTATGCAA-TCTCTCCCTTTTTGT
1 TTTCA-TTTATG-AATTCTCCCCCTATTTGT
3946388 T
1 T
3946389 ATAAAGCAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 5 0.19
30 20 0.74
31 2 0.07
ACGTcount: A:0.15, C:0.23, G:0.07, T:0.55
Consensus pattern (29 bp):
TTTCATTTATGAATTCTCCCCCTATTTGT
Found at i:3947658 original size:46 final size:46
Alignment explanation
Indices: 3947605--3947696 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
3947595 ATCCGAACAT
*
3947605 GGTATGTGTAGGGAGGTAAATGAAGTTGAAAGAGCGAAGGAAGTTC
1 GGTATGTGTAGGGAGGTAAATGAAGTTGAAAGAACGAAGGAAGTTC
*
3947651 GGTATGTGTGGGGAGGTAAATGAAGTTGAAAGAACGAAGGAAGTTC
1 GGTATGTGTAGGGAGGTAAATGAAGTTGAAAGAACGAAGGAAGTTC
3947697 ATGTCGACTA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.35, C:0.04, G:0.39, T:0.22
Consensus pattern (46 bp):
GGTATGTGTAGGGAGGTAAATGAAGTTGAAAGAACGAAGGAAGTTC
Found at i:3948413 original size:33 final size:32
Alignment explanation
Indices: 3948357--3948420 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
3948347 AGTCGAGATG
3948357 TATCGATACAATTTCAATATATCGATACATTC
1 TATCGATACAATTTCAATATATCGATACATTC
** *
3948389 TATCGATACAAATTTCTTTGTATCGATACATT
1 TATCGATAC-AATTTCAATATATCGATACATT
3948421 TGGAAAAACA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 9 0.32
33 19 0.68
ACGTcount: A:0.34, C:0.17, G:0.08, T:0.41
Consensus pattern (32 bp):
TATCGATACAATTTCAATATATCGATACATTC
Found at i:3951383 original size:227 final size:227
Alignment explanation
Indices: 3950980--3951424 Score: 856
Period size: 227 Copynumber: 2.0 Consensus size: 227
3950970 TCCTTTCGGC
*
3950980 AACTCCATTTTGTTAAGGAGTTTTTAGGAGCAGAGAAGTTATGGCTAATACCCTTTCCATTACAA
1 AACTCCATTTTGTTAAGGAGTTTTTAGGAACAGAGAAGTTATGGCTAATACCCTTTCCATTACAA
3951045 TTGTCAAAACCAAGATTTTCAAATTCTTTTCCATGATCACTTCTTATACTGGATAAGGAGTAACC
66 TTGTCAAAACCAAGATTTTCAAATTCTTTTCCATGATCACTTCTTATACTGGATAAGGAGTAACC
3951110 TTTTTCATTTTGAATAATTTTACAAAATGTGATGAATTTTTCTAAAGCTTCATCTTTGCTACTTA
131 TTTTTCATTTTGAATAATTTTACAAAATGTGATGAATTTTTCTAAAGCTTCATCTTTGCTACTTA
3951175 AAAAGAGAACTCAAGTATATCTTTAAAAAGAG
196 AAAAGAGAACTCAAGTATATCTTTAAAAAGAG
*
3951207 AACT-CATCTTTGTTAAGGAGTTTTTAGGAACAGAGAAGTTATGGCTAATACCTTTTCCATTACA
1 AACTCCAT-TTTGTTAAGGAGTTTTTAGGAACAGAGAAGTTATGGCTAATACCCTTTCCATTACA
3951271 ATTGTCAAAACCAAGATTTTCAAATTCTTTTCCATGATCACTTCTTATACTGGATAAGGAGTAAC
65 ATTGTCAAAACCAAGATTTTCAAATTCTTTTCCATGATCACTTCTTATACTGGATAAGGAGTAAC
3951336 CTTTTTCATTTTGAATAATTTTACAAAATGTGATGAATTTTTCTAAAGCTTCATCTTTGCTACTT
130 CTTTTTCATTTTGAATAATTTTACAAAATGTGATGAATTTTTCTAAAGCTTCATCTTTGCTACTT
3951401 AAAAAGAGAACTCAAGTATATCTT
195 AAAAAGAGAACTCAAGTATATCTT
3951425 GAGAAATCAT
Statistics
Matches: 215, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
226 3 0.01
227 212 0.99
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (227 bp):
AACTCCATTTTGTTAAGGAGTTTTTAGGAACAGAGAAGTTATGGCTAATACCCTTTCCATTACAA
TTGTCAAAACCAAGATTTTCAAATTCTTTTCCATGATCACTTCTTATACTGGATAAGGAGTAACC
TTTTTCATTTTGAATAATTTTACAAAATGTGATGAATTTTTCTAAAGCTTCATCTTTGCTACTTA
AAAAGAGAACTCAAGTATATCTTTAAAAAGAG
Found at i:3960210 original size:15 final size:15
Alignment explanation
Indices: 3960190--3960238 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
3960180 ATTCCACCAA
3960190 ATCCACCACAAAATC
1 ATCCACCACAAAATC
*
3960205 ATCCACCACCTAAAT-
1 ATCCACCA-CAAAATC
*
3960220 TTCCCACCACAAAATC
1 AT-CCACCACAAAATC
3960236 ATC
1 ATC
3960239 GATACACTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
15 15 0.56
16 12 0.44
ACGTcount: A:0.41, C:0.41, G:0.00, T:0.18
Consensus pattern (15 bp):
ATCCACCACAAAATC
Found at i:3963881 original size:13 final size:13
Alignment explanation
Indices: 3963863--3963890 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
3963853 ATACAAAGAT
3963863 CAGTGTATCGATA
1 CAGTGTATCGATA
3963876 CAGTGTATCGATA
1 CAGTGTATCGATA
3963889 CA
1 CA
3963891 TTTGAGGAAT
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:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (13 bp):
CAGTGTATCGATA
Found at i:3963971 original size:13 final size:13
Alignment explanation
Indices: 3963953--3963977 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3963943 GAAAAAAATA
3963953 TGTATCGATACAT
1 TGTATCGATACAT
3963966 TGTATCGATACA
1 TGTATCGATACA
3963978 ACACTTTATG
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:3964284 original size:36 final size:35
Alignment explanation
Indices: 3964208--3964568 Score: 352
Period size: 36 Copynumber: 10.8 Consensus size: 35
3964198 GAGAAGGGTG
**
3964208 AAAGA-TGCCACAAAGTTGTGGAC-TTAAAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGACTTTAAAAGGAA
*
3964241 AAAGAGTGCCACAGAGTTGTGGACTTTAAAAGGGAA
1 AAAGAGTGCCACGGAGTTGTGGACTTTAAAA-GGAA
*
3964277 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA-G--
1 AAAGAGTGCCACGGAGTTGTGGACTTT-AAAAGGAA
*
3964310 -AAG-GTGCCACAGAGTTGTGGACTTTAAAAGGGAA
1 AAAGAGTGCCACGGAGTTGTGGACTTTAAAA-GGAA
* *
3964344 AAAGAGTGCCACAGAGTTGTGGGCTTTGAAAA-G--
1 AAAGAGTGCCACGGAGTTGTGGACTTT-AAAAGGAA
*
3964377 -AAG-GTGCCACGGAGTCGTGGAC-TTAAAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGACTTTAAAAGGAA
* * * *
3964409 CAAGGGTGCCACAGAGTTGTGGGCTTTGAAAA-G--
1 AAAGAGTGCCACGGAGTTGTGGACTTT-AAAAGGAA
3964442 -AAG-GTGCCACGGAGTTGTGGAC-TTAAAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGACTTTAAAAGGAA
* *
3964474 AAAG-GTGCCACGGAATTGTGGGCTTTGAAAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGACTTT-AAAAGGAA
* *
3964509 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG-A
1 AAAGAGTGCCACGGAGTTGTGGACTTTAAAAGGAA
* *
3964543 AAA-AGTTCCACGGAGTGGTGGACTTT
1 AAAGAGTGCCACGGAGTTGTGGACTTT
3964569 GGAAAAGATG
Statistics
Matches: 282, Mismatches: 21, Indels: 50
0.80 0.06 0.14
Matches are distributed among these distances:
29 8 0.03
30 10 0.04
31 53 0.19
32 10 0.04
33 48 0.17
34 39 0.14
35 31 0.11
36 75 0.27
37 8 0.03
ACGTcount: A:0.34, C:0.13, G:0.33, T:0.20
Consensus pattern (35 bp):
AAAGAGTGCCACGGAGTTGTGGACTTTAAAAGGAA
Found at i:3964318 original size:31 final size:31
Alignment explanation
Indices: 3964282--3964720 Score: 292
Period size: 31 Copynumber: 13.9 Consensus size: 31
3964272 GGGAAAAAGA
3964282 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAG
1 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAG
* *
3964313 GTGCCACAGAGTTGTGGACTTT-AAAAGGGAAAAAG
1 GTGCCACGGAGTTGTGGGCTTTGAAAA--G---AAG
*
3964348 AGTGCCACAGAGTTGTGGGCTTTGAAAAGAAG
1 -GTGCCACGGAGTTGTGGGCTTTGAAAAGAAG
* * ** *
3964380 GTGCCACGGAGTCGTGGACTTAAAAGGAACAAGG
1 GTGCCACGGAGTTGTGGGCTTTGAA--AAGAA-G
*
3964414 GTGCCACAGAGTTGTGGGCTTTGAAAAGAAG
1 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAG
* ** *
3964445 GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAG
1 GTGCCACGGAGTTGTGGGCTTTGAA--AAGAAG
*
3964478 GTGCCACGGAATTGTGGGCTTTGAAAAGGAAAAAG
1 GTGCCACGGAGTTGTGGGCTTTGAAAA-G---AAG
* *
3964513 AGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAA
1 -GTGCCACGGAGTTGTGGGCTTTGAAAAG--AAG
* * *
3964547 GTTCCACGGAGTGGTGGACTTTGGAAAAG-A-
1 GTGCCACGGAGTTGTGGGCTTT-GAAAAGAAG
* * *
3964577 -TGCCACCGACTTGTGGGCTTCGGAAAAG--G
1 GTGCCACGGAGTTGTGGGCTT-TGAAAAGAAG
* *
3964606 GTGCCACTGATTTGTGGGCTTTG--AAG--G
1 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAG
* * *
3964633 TTGCCACTGACTTGTGGGCTTTTGAAAAG--G
1 GTGCCACGGAGTTGTGGGC-TTTGAAAAGAAG
** *
3964663 GTGCCACTAACTTGTGGGCTTTTGAAAA-AAG
1 GTGCCACGGAGTTGTGGGC-TTTGAAAAGAAG
* * *
3964694 ATGCCACTGACTTGTGGGCTTTGAAAA
1 GTGCCACGGAGTTGTGGGCTTTGAAAA
3964721 AGATGCCACT
Statistics
Matches: 335, Mismatches: 47, Indels: 53
0.77 0.11 0.12
Matches are distributed among these distances:
27 21 0.06
28 4 0.01
29 22 0.07
30 60 0.18
31 83 0.25
32 8 0.02
33 49 0.15
34 30 0.09
35 8 0.02
36 46 0.14
37 4 0.01
ACGTcount: A:0.29, C:0.15, G:0.33, T:0.23
Consensus pattern (31 bp):
GTGCCACGGAGTTGTGGGCTTTGAAAAGAAG
Found at i:3964331 original size:67 final size:66
Alignment explanation
Indices: 3964246--3964576 Score: 438
Period size: 67 Copynumber: 5.0 Consensus size: 66
3964236 AGGAAAAAGA
*
3964246 GTGCCACAGAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGA
1 GTGCCACGGAGTTGTGGACTTTAAAA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGA
3964311 AG
65 AG
* *
3964313 GTGCCACAGAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAGA
1 GTGCCACGGAGTTGTGGACTTTAAAA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGA
3964378 AG
65 AG
* * * *
3964380 GTGCCACGGAGTCGTGGAC-TTAAAAGGAACAAGGGTGCCACAGAGTTGTGGGCTTTGAAAAGAA
1 GTGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAA
3964444 G
66 G
*
3964445 GTGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAG-GTGCCACGGAATTGTGGGCTTTGAAAAGGA
1 GTGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA-G-
3964508 AAAAG
64 --AAG
* * * * *
3964513 AGTGCCACGGAGTTGTGGGCTTTAAAAAG-AAAA-AGTTCCACGGAGTGGTGGACTTTGGAAAAG
1 -GTGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-GAAAAG
3964576 A
64 A
3964577 TGCCACCGAC
Statistics
Matches: 241, Mismatches: 15, Indels: 17
0.88 0.05 0.06
Matches are distributed among these distances:
64 25 0.10
65 70 0.29
66 7 0.03
67 83 0.34
68 3 0.01
69 41 0.17
70 12 0.05
ACGTcount: A:0.33, C:0.13, G:0.34, T:0.20
Consensus pattern (66 bp):
GTGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAA
G
Found at i:3964428 original size:132 final size:131
Alignment explanation
Indices: 3964246--3964505 Score: 407
Period size: 132 Copynumber: 2.0 Consensus size: 131
3964236 AGGAAAAAGA
* *
3964246 GTGCCACAGAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGA
1 GTGCCACAGAGTCGTGGACTTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAGA
*
3964311 AGGTGCCACAGAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAA
66 AGGTGCCACAGAGTTGTGGAC-TTAAAA-GGAAAAAG-GTGCCACAGAATTGTGGGCTTTGAAAA
3964376 GAAG
128 GAAG
* * *
3964380 GTGCCACGGAGTCGTGGAC-TTAAAA-GGAACAAGGGTGCCACAGAGTTGTGGGCTTTGAAAAGA
1 GTGCCACAGAGTCGTGGACTTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAGA
* *
3964443 AGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGTGCCACGGAATTGTGGGCTTTGAAAAG
66 AGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGGTGCCACAGAATTGTGGGCTTTGAAAAG
3964506 GAAAAAGAGT
Statistics
Matches: 118, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
129 26 0.22
130 8 0.07
131 6 0.05
132 55 0.47
133 6 0.05
134 17 0.14
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.20
Consensus pattern (131 bp):
GTGCCACAGAGTCGTGGACTTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAGA
AGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGGTGCCACAGAATTGTGGGCTTTGAAAAGAA
G
Found at i:3964540 original size:64 final size:60
Alignment explanation
Indices: 3964274--3964744 Score: 251
Period size: 65 Copynumber: 7.5 Consensus size: 60
3964264 CTTTAAAAGG
* * *
3964274 GAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACAGAGTTGTGGACTTTAAAA
1 GAAAAAG-GTGCCACAGAATTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTTGTGGAC-TT---A
* *
3964339 GGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAA
1 --GAAAAAG-GTGCCACAGAATTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTTGTGGACTT---
3964404 A
60 A
* *
3964405 GGAACAAGGGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTTGTGGACTTAAAA
1 -GAA-AAAGGTGCCACAGAATTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTTGTGGACTT---A
* *
3964470 GGAAAAAGGTGCCACGGAATTGTGGGCTTTGAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 -GAAAAAGGTGCCACAGAATTGTGGGCTTTGAAAA-G---AAG-GTGCCACGGAGTTGTGGAC-T
3964535 TAAAAA
59 T----A
* * * * * * * * *
3964541 GAAAAA-GTTCCACGGAGTGGTGGACTTTGGAAAAG-A--TGCCACCGACTTGTGGGCTTCG
1 GAAAAAGGTGCCACAGAATTGTGGGCTTT-GAAAAGAAGGTGCCACGGAGTTGTGGACTT-A
* * * * * * * *
3964599 GAAAAGGGTGCCACTGATTTGTGGGCTTTG--AAG--GTTGCCACTGACTTGTGGGCTTTT
1 GAAAAAGGTGCCACAGAATTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTTGTGGAC-TTA
* * * * * * *
3964656 GAAAAGGGTGCCACTA-ACTTGTGGGCTTTTGAAAA-AAGATGCCACTGACTTGTGGGCTTT
1 GAAAAAGGTGCCAC-AGAATTGTGGGC-TTTGAAAAGAAGGTGCCACGGAGTTGTGGACTTA
* * * *
3964716 GAAAAAGATGCCACTGACTTGTAGGCTTT
1 GAAAAAGGTGCCACAGAATTGTGGGCTTT
3964745 TGAAGGGTGA
Statistics
Matches: 352, Mismatches: 32, Indels: 48
0.81 0.07 0.11
Matches are distributed among these distances:
56 3 0.01
57 40 0.11
58 12 0.03
59 20 0.06
60 26 0.07
61 21 0.06
62 16 0.05
64 28 0.08
65 65 0.18
66 9 0.03
67 55 0.16
68 3 0.01
69 37 0.11
70 13 0.04
71 4 0.01
ACGTcount: A:0.30, C:0.15, G:0.32, T:0.23
Consensus pattern (60 bp):
GAAAAAGGTGCCACAGAATTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTTGTGGACTTA
Found at i:3964592 original size:29 final size:29
Alignment explanation
Indices: 3964560--3964744 Score: 203
Period size: 29 Copynumber: 6.3 Consensus size: 29
3964550 CCACGGAGTG
* *
3964560 GTGGACTTTGGAAAAGATGCCACCGACTT
1 GTGGGCTTTGGAAAAGATGCCACTGACTT
* * *
3964589 GTGGGCTTCGGAAAAGGGTGCCACTGATTT
1 GTGGGCTTTGGAAAA-GATGCCACTGACTT
* *
3964619 GTGGGCTTT-G-AAGGTTGCCACTGACTT
1 GTGGGCTTTGGAAAAGATGCCACTGACTT
* * *
3964646 GTGGGCTTTTGAAAAGGGTGCCACTAACTT
1 GTGGGCTTTGGAAAA-GATGCCACTGACTT
*
3964676 GTGGGCTTTTGAAAAAAGATGCCACTGACTT
1 GTGGGC-TTTG-GAAAAGATGCCACTGACTT
*
3964707 GTGGGCTTTGAAAAAGATGCCACTGACTT
1 GTGGGCTTTGGAAAAGATGCCACTGACTT
*
3964736 GTAGGCTTT
1 GTGGGCTTT
3964745 TGAAGGGTGA
Statistics
Matches: 133, Mismatches: 17, Indels: 12
0.82 0.10 0.07
Matches are distributed among these distances:
27 21 0.16
28 3 0.02
29 43 0.32
30 41 0.31
31 21 0.16
32 4 0.03
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.29
Consensus pattern (29 bp):
GTGGGCTTTGGAAAAGATGCCACTGACTT
Found at i:3964645 original size:57 final size:57
Alignment explanation
Indices: 3964575--3964750 Score: 219
Period size: 57 Copynumber: 3.0 Consensus size: 57
3964565 CTTTGGAAAA
* * *
3964575 GATGCCACCGACTTGTGGGCTTCGGAAAAGGGTGCCACTGATTTGTGGGC-TTTGAAG
1 GATGCCACTGACTTGTGGGCTT-TGAAAAGGGTGCCACTGACTTGTGGGCTTTTGAAG
* * *
3964632 GTTGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTTGAAAAAA
1 GATGCCACTGACTTGTGGGC-TTTGAAAAGGGTGCCACTGACTTGTGGGCTTTTG---AAG
* * *
3964693 GATGCCACTGACTTGTGGGCTTTGAAAAAGATGCCACTGACTTGTAGGCTTTTGAAG
1 GATGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTTGAAG
3964750 G
1 G
3964751 GTGAGGAATG
Statistics
Matches: 102, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
57 45 0.44
58 6 0.06
60 30 0.29
61 21 0.21
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.29
Consensus pattern (57 bp):
GATGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTTGAAG
Found at i:3964747 original size:30 final size:30
Alignment explanation
Indices: 3964566--3964748 Score: 212
Period size: 30 Copynumber: 6.2 Consensus size: 30
3964556 AGTGGTGGAC
* *
3964566 TTTGGAAAAGATGCCACCGACTTGTGGGCT
1 TTTGAAAAAGATGCCACTGACTTGTGGGCT
** * * *
3964596 TCGGAAAAGGGTGCCACTGATTTGTGGGC-
1 TTTGAAAAAGATGCCACTGACTTGTGGGCT
* *
3964625 TTTG--AAGGTTGCCACTGACTTGTGGGCT
1 TTTGAAAAAGATGCCACTGACTTGTGGGCT
* * *
3964653 TTTGAAAAGGGTGCCACTAACTTGTGGGCT
1 TTTGAAAAAGATGCCACTGACTTGTGGGCT
3964683 TTTGAAAAAAGATGCCACTGACTTGTGGGC-
1 TTTG-AAAAAGATGCCACTGACTTGTGGGCT
*
3964713 TTTGAAAAAGATGCCACTGACTTGTAGGCT
1 TTTGAAAAAGATGCCACTGACTTGTGGGCT
3964743 TTTGAA
1 TTTGAA
3964749 GGGTGAGGAA
Statistics
Matches: 131, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
27 21 0.16
28 4 0.03
29 26 0.20
30 58 0.44
31 22 0.17
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (30 bp):
TTTGAAAAAGATGCCACTGACTTGTGGGCT
Found at i:3965659 original size:55 final size:53
Alignment explanation
Indices: 3965563--3965713 Score: 187
Period size: 55 Copynumber: 2.8 Consensus size: 53
3965553 AAGTGATAAA
* * * * *
3965563 GATGTCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAG
1 GATGTCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG-G-AAAAG
* * *
3965618 GATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAG
1 GATGTCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGAAAAG
* *
3965671 G-TGCCAATATGCTGATTCAAAGCCAGCTATATTGGACTTAAAG
1 GATGTCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
3965714 GTGCCAATGT
Statistics
Matches: 83, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
52 37 0.45
53 6 0.07
54 1 0.01
55 39 0.47
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (53 bp):
GATGTCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGAAAAG
Found at i:3965873 original size:49 final size:49
Alignment explanation
Indices: 3965568--3966078 Score: 505
Period size: 43 Copynumber: 10.8 Consensus size: 49
3965558 ATAAAGATGT
* * * * * *
3965568 CAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGT
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGA--AG---AAGG-TGC
* * * *
3965623 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGA---AGAAGGTGC
*
3965675 CAATATGCTGATTCAAAGCCAGCTATATTGGACTT-----A-AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGAAGGTGC
* * * * * *
3965718 CAATGTGCTGATTCAAGGTCAGCTACATTGAAC-TAAAGATGAAGGTAC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGAAGGTGC
* *
3965766 CAATATGCTGATTCAAGGCCAGCGATATTAGACTT------GAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGAAGGTGC
* *
3965809 CAATGTGCTGATTCAAGGCCAGTTATATTGGACTTAAAGAAGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGAAGGTGC
* *
3965858 TAATATGCTGATTCAAGGCCAGCGATATTGGACTT-----A-AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGAAGGTGC
* *
3965901 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGAAGGTGC
3965950 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT-----A-AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGAAGGTGC
* *
3965993 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGAAGGTGC
* *
3966042 TAATATGTTGATTCAAGGCCAGCTATATTGGACTTAA
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAA
3966079 CGGAAGATGC
Statistics
Matches: 381, Mismatches: 49, Indels: 58
0.78 0.10 0.12
Matches are distributed among these distances:
42 1 0.00
43 151 0.40
44 3 0.01
48 35 0.09
49 120 0.31
52 33 0.09
53 4 0.01
55 32 0.08
56 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (49 bp):
CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGAAGGTGC
Found at i:3965881 original size:92 final size:92
Alignment explanation
Indices: 3965614--3966078 Score: 734
Period size: 92 Copynumber: 5.0 Consensus size: 92
3965604 AAGATGAGAA
* * *
3965614 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA---AGAAGGTGCCAAT
*
3965679 ATGCTGATTCAAAGCCAGCTATATTGGACTT
62 ATGCTGATTCAAGGCCAGCTATATTGGACTT
* * * *
3965710 AAAGGTGCCAATGTGCTGATTCAAGGTCAGCTACATTGAAC-TAAAGATGAAGGTACCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
* *
3965774 TGATTCAAGGCCAGCGATATTAGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
* * * *
3965801 GAAGGTGCCAATGTGCTGATTCAAGGCCAGTTATATTGGACTTAAAGAAGAAGGTGCTAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
*
3965866 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
3965893 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
3965958 TGATTCAAGGCCAGCTATATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
* *
3965985 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCTAATATGT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
3966050 TGATTCAAGGCCAGCTATATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
3966077 AA
1 AA
3966079 CGGAAGATGC
Statistics
Matches: 344, Mismatches: 24, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
91 74 0.22
92 225 0.65
94 6 0.02
95 34 0.10
96 5 0.01
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.26
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
TGATTCAAGGCCAGCTATATTGGACTT
Found at i:3966163 original size:32 final size:33
Alignment explanation
Indices: 3966086--3966244 Score: 193
Period size: 32 Copynumber: 4.8 Consensus size: 33
3966076 TAACGGAAGA
* *
3966086 TGCCACCAACTTGTGTGGGCTTTTGAAGAAGGT
1 TGCCACGAACTTGTGTGGGCTTTAGAAGAAGGT
**
3966119 TGCCACCG-ACTTGTGTGGGCTTTAG-AGGGGGT
1 TGCCA-CGAACTTGTGTGGGCTTTAGAAGAAGGT
*
3966151 TGCCACGAACTTGTGTGGGCTTTAG-AG-TGGAT
1 TGCCACGAACTTGTGTGGGCTTTAGAAGAAGG-T
*
3966183 TGCCACCAACTTGTGTGGGCTTTAGAAGAAGGT
1 TGCCACGAACTTGTGTGGGCTTTAGAAGAAGGT
3966216 TGCCACCG-ACTTGTGTGGGCTTTGAGAAG
1 TGCCA-CGAACTTGTGTGGGCTTT-AGAAG
3966245 GGTGAAAGAT
Statistics
Matches: 111, Mismatches: 8, Indels: 13
0.84 0.06 0.10
Matches are distributed among these distances:
31 4 0.04
32 54 0.49
33 44 0.40
34 9 0.08
ACGTcount: A:0.19, C:0.18, G:0.34, T:0.29
Consensus pattern (33 bp):
TGCCACGAACTTGTGTGGGCTTTAGAAGAAGGT
Found at i:3966217 original size:65 final size:65
Alignment explanation
Indices: 3966086--3966244 Score: 207
Period size: 65 Copynumber: 2.4 Consensus size: 65
3966076 TAACGGAAGA
* * * **
3966086 TGCCACCAACTTGTGTGGGCTTTTGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGGGGGT
1 TGCCACGAACTTGTGTGGGCTTTAGAAGAAGGTTGCCACCAACTTGTGTGGGCTTTAGAGAAGGT
*
3966151 TGCCACGAACTTGTGTGGGCTTTAG-AG-TGGATTGCCACCAACTTGTGTGGGCTTTAGAAGAAG
1 TGCCACGAACTTGTGTGGGCTTTAGAAGAAGG-TTGCCACCAACTTGTGTGGGCTTTAG-AGAAG
3966214 GT
64 GT
3966216 TGCCACCG-ACTTGTGTGGGCTTTGAGAAG
1 TGCCA-CGAACTTGTGTGGGCTTT-AGAAG
3966245 GGTGAAAGAT
Statistics
Matches: 83, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
63 2 0.02
64 27 0.33
65 48 0.58
66 4 0.05
67 2 0.02
ACGTcount: A:0.19, C:0.18, G:0.34, T:0.29
Consensus pattern (65 bp):
TGCCACGAACTTGTGTGGGCTTTAGAAGAAGGTTGCCACCAACTTGTGTGGGCTTTAGAGAAGGT
Found at i:3966328 original size:36 final size:34
Alignment explanation
Indices: 3966249--3966609 Score: 344
Period size: 36 Copynumber: 10.8 Consensus size: 34
3966239 GAGAAGGGTG
* *
3966249 AAAGATGCCACGAAGTTGTGGAC-TTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTTAAAAGGAA
*
3966282 AAAGAGTGCCATGGAGTTGTGGACTTTAAAAGGGAA
1 AAAG-GTGCCACGGAGTTGTGGACTTTAAAA-GGAA
*
3966318 AAAGATTGCCACGGAGTTGTAGG-CTTTGAAAA-G--
1 AAAG-GTGCCACGGAGTTGT-GGACTTT-AAAAGGAA
* *
3966351 -AAGGTGCCACGGAGTTATGGGCTTTAAAAGGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTTAAAA-GGAA
* *
3966385 AAAGAGTGCCACAGAGTTGTAGG-CTTTGAAA-G--
1 AAAG-GTGCCACGGAGTTGT-GGACTTTAAAAGGAA
*
3966417 -AAGGTGCCACGGAGTCGTGGAC-TTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTTAAAAGGAA
* *
3966449 CAAGGGTGCCACGGAGTTGTGGGCTTTGAAAA-G--
1 -AAAGGTGCCACGGAGTTGTGGACTTT-AAAAGGAA
3966482 -AAGGTGCCACGGAGTTGTGGAC-TTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTTAAAAGGAA
*
3966514 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTT-AAAA-GGAA
* *
3966550 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
1 AAAG-GTGCCACGGAGTTGTGGACTTTAAAAGGAA
*
3966585 AAA-GTGCCACGGAGTGGTGGACTTT
1 AAAGGTGCCACGGAGTTGTGGACTTT
3966610 GGAAAAGATG
Statistics
Matches: 277, Mismatches: 22, Indels: 58
0.78 0.06 0.16
Matches are distributed among these distances:
29 11 0.04
30 24 0.09
31 40 0.14
32 4 0.01
33 45 0.16
34 38 0.14
35 23 0.08
36 62 0.22
37 30 0.11
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.20
Consensus pattern (34 bp):
AAAGGTGCCACGGAGTTGTGGACTTTAAAAGGAA
Found at i:3966360 original size:31 final size:31
Alignment explanation
Indices: 3966324--3966785 Score: 299
Period size: 30 Copynumber: 14.7 Consensus size: 31
3966314 GGAAAAAGAT
*
3966324 TGCCACGGAGTTGTAGGCTTTGAAAAGAAGG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGG
*
3966355 TGCCACGGAGTTATGGGCTTT-AAAAGGGAAAAAGAG
1 TGCCACGGAGTTGTGGGCTTTGAAAA--G---AAG-G
* *
3966391 TGCCACAGAGTTGTAGGCTTTG-AAAGAAGG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGG
* * ** *
3966421 TGCCACGGAGTCGTGGACTTAAAAGGAACAAGGG
1 TGCCACGGAGTTGTGGGCTTTGAA--AAGAA-GG
3966455 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGG
* ** *
3966486 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGG
1 TGCCACGGAGTTGTGGGCTTTGAA--AAGAAGG
3966519 TGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAG
1 TGCCACGGAGTTGTGGGCTTTGAAAA--G---AAG-G
* *
3966556 TGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAG
1 TGCCACGGAGTTGTGGGCTTTGAAAAG--AAGG
* *
3966589 TGCCACGGAGTGGTGGACTTTGGAAAAG-A--
1 TGCCACGGAGTTGTGGGCTTT-GAAAAGAAGG
* * *
3966618 TGCCACCGACTTGTGGGCTTCGGAAAAG--GG
1 TGCCACGGAGTTGTGGGCTT-TGAAAAGAAGG
* * *
3966648 TGCCACTGATTTGTGGGCTTTG--AAG--GT
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGG
* *
3966675 TGCCACTGACTTGTGGGCTTTTGAAAAG--GG
1 TGCCACGGAGTTGTGGGC-TTTGAAAAGAAGG
** * *
3966705 TGCCACTAACTTGTGGGCTTTTGAAAA-AAGA
1 TGCCACGGAGTTGTGGGC-TTTGAAAAGAAGG
* * *
3966736 TGCCACTGACTTGTGGGCTTTG-AAA-AAGA
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGG
* *
3966765 TGCCACTGACTTGTGGGCTTT
1 TGCCACGGAGTTGTGGGCTTT
3966786 TGAAGGGTGA
Statistics
Matches: 359, Mismatches: 44, Indels: 58
0.78 0.10 0.13
Matches are distributed among these distances:
27 21 0.06
28 4 0.01
29 51 0.14
30 73 0.20
31 67 0.19
32 5 0.01
33 51 0.14
34 32 0.09
35 4 0.01
36 25 0.07
37 26 0.07
ACGTcount: A:0.28, C:0.15, G:0.33, T:0.24
Consensus pattern (31 bp):
TGCCACGGAGTTGTGGGCTTTGAAAAGAAGG
Found at i:3966474 original size:64 final size:64
Alignment explanation
Indices: 3966279--3966671 Score: 374
Period size: 67 Copynumber: 6.0 Consensus size: 64
3966269 GACTTAAAAG
* * *
3966279 GAAA-AAGAGTGCCATGGAGTTGTGGACTTTAAAAGGGAAAAAGATTGCCACGGAGTTGTAGGCT
1 GAAAGAAG-GTGCCACGGAGTTGTGGACTTTAAAA-GG-AAAAGAGTGCCACGGAGTTGTGGGCT
3966343 TT
63 TT
* * * *
3966345 GAAAAGAAGGTGCCACGGAGTTATGGGCTTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTAGGCT
1 G-AAAGAAGGTGCCACGGAGTTGTGGACTTTAAAA-GG-AAAAGAGTGCCACGGAGTTGTGGGCT
3966410 TT
63 TT
* *
3966412 GAAAGAAGGTGCCACGGAGTCGTGGAC-TTAAAAGGAACAAGGGTGCCACGGAGTTGTGGGCTTT
1 GAAAGAAGGTGCCACGGAGTTGTGGACTTTAAAAGGAA-AAGAGTGCCACGGAGTTGTGGGCTTT
3966476 GAAAAGAAGGTGCCACGGAGTTGTGGAC-TTAAAAGGAAAA-AGGTGCCACGGAGTTGTGGGCTT
1 G-AAAGAAGGTGCCACGGAGTTGTGGACTTTAAAAGGAAAAGA-GTGCCACGGAGTTGTGGGCTT
3966539 T
64 T
* * *
3966540 GAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAA-AGTGCCACGGAGTGGTG
1 G-AAA--G---AAG-GTGCCACGGAGTTGTGGACTTTAAAAGGAAAAGAGTGCCACGGAGTTGTG
*
3966604 GACTTT
59 GGCTTT
* * * * * * * * *
3966610 GGAA-AAGATGCCACCGACTTGTGGGC-TT---CGGAAAAGGGTGCCACTGATTTGTGGGCTTT
1 GAAAGAAGGTGCCACGGAGTTGTGGACTTTAAAAGGAAAAGAGTGCCACGGAGTTGTGGGCTTT
3966669 GAA
1 GAA
3966672 GGTTGCCACT
Statistics
Matches: 285, Mismatches: 29, Indels: 33
0.82 0.08 0.10
Matches are distributed among these distances:
58 5 0.02
59 20 0.07
61 2 0.01
62 16 0.06
63 5 0.02
64 55 0.19
65 41 0.14
66 25 0.09
67 57 0.20
68 3 0.01
69 5 0.02
70 39 0.14
71 12 0.04
ACGTcount: A:0.31, C:0.13, G:0.34, T:0.21
Consensus pattern (64 bp):
GAAAGAAGGTGCCACGGAGTTGTGGACTTTAAAAGGAAAAGAGTGCCACGGAGTTGTGGGCTTT
Found at i:3966474 original size:131 final size:130
Alignment explanation
Indices: 3966279--3966617 Score: 386
Period size: 131 Copynumber: 2.6 Consensus size: 130
3966269 GACTTAAAAG
* * *
3966279 GAAAAAGAGTGCCATGGAGTTGTGGACTTTAAAAGGGAAAAAGATTGCCACGGAGTTGTAGGCTT
1 GAAAAAGAGTGCCACGGAGTCGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTAGGCTT
*
3966344 TGAAAAGAAGGTGCCACGGAGTTATGGGCTTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTAGGC
66 TGAAAAGAAGGTGCCACGGAGTTATGGAC-TTAAAA-GGAAAAAG-GTGCCACAGAGTTGTAGGC
3966409 TTT
128 TTT
* * *
3966412 GAAAGAAG-GTGCCACGGAGTCGTGGAC-TTAAAA-GGAACAAGGGTGCCACGGAGTTGTGGGCT
1 GAAA-AAGAGTGCCACGGAGTCGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTAGGCT
* * *
3966474 TTGAAAAGAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTT
65 TTGAAAAGAAGGTGCCACGGAGTTATGGACTTAAAAGGAAAAAGGTGCCACAGAGTTGTAGGCTT
3966539 T
130 T
* * * *
3966540 GAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA-AG-AAAA-AGTGCCACGGAGTGG
1 -------GAAAAAGAGTGCCACGGAGTCGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTG
3966602 T-GGACTTTGGAAAAGA
59 TAGG-CTTT-GAAAAGA
3966618 TGCCACCGAC
Statistics
Matches: 178, Mismatches: 16, Indels: 22
0.82 0.07 0.10
Matches are distributed among these distances:
128 20 0.11
129 8 0.04
130 6 0.03
131 53 0.30
132 6 0.03
133 23 0.13
134 24 0.13
135 31 0.17
136 7 0.04
ACGTcount: A:0.33, C:0.12, G:0.35, T:0.20
Consensus pattern (130 bp):
GAAAAAGAGTGCCACGGAGTCGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTAGGCTT
TGAAAAGAAGGTGCCACGGAGTTATGGACTTAAAAGGAAAAAGGTGCCACAGAGTTGTAGGCTTT
Found at i:3966566 original size:101 final size:102
Alignment explanation
Indices: 3966229--3966608 Score: 360
Period size: 101 Copynumber: 3.8 Consensus size: 102
3966219 CACCGACTTG
* ** * * *
3966229 TGTGGGCTTTGAGAAGGGTGAAAGA-TGCCACGAAGTTGTGGAC-TTAAAAGGAAAAAGAGTGCC
1 TGTGGGCTTTGA-AAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA--AGAAAGAGTGCC
* *
3966292 ATGGAGTTGTGGACTTTAAAAGGGAAAAAGATTGCCACGGAGT
63 ACGGAGTTGTGGAC-TTAAAA-GGAAAAAG-GTGCCACGGAGT
* * *
3966335 TGTAGGCTTTGAAAA-G---AAG-GTGCCACGGAGTTATGGGCTTTAAAAGGGAAAAAGAGTGCC
1 TGTGGGCTTTGAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA---AGAAAGAGTGCC
* *
3966395 ACAGAGTTGTAGG-CTT----TGAAAGAAGGTGCCACGGAGT
63 ACGGAGTTGT-GGACTTAAAAGGAAA-AAGGTGCCACGGAGT
* * * * *
3966432 CGTGGAC-TT-AAAAGGAACAAGGGTGCCACGGAGTTGTGGGCTTTGAAAAG-AAG-GTGCCACG
1 TGTGGGCTTTGAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAGAGTGCCACG
3966493 GAGTTGTGGACTTAAAAGGAAAAAGGTGCCACGGAGT
66 GAGTTGTGGACTTAAAAGGAAAAAGGTGCCACGGAGT
*
3966530 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGTGCCAC
1 TGTGGGCTTTGAAAA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAGAGTGCCAC
*
3966595 GGAGTGGTGGACTT
65 GGAGTTGTGGACTT
3966609 TGGAAAAGAT
Statistics
Matches: 230, Mismatches: 24, Indels: 43
0.77 0.08 0.14
Matches are distributed among these distances:
94 2 0.01
95 21 0.09
96 6 0.03
97 20 0.09
98 23 0.10
99 9 0.04
100 28 0.12
101 52 0.23
102 10 0.04
103 43 0.19
104 3 0.01
105 2 0.01
106 11 0.05
ACGTcount: A:0.32, C:0.12, G:0.35, T:0.21
Consensus pattern (102 bp):
TGTGGGCTTTGAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAGAGTGCCACG
GAGTTGTGGACTTAAAAGGAAAAAGGTGCCACGGAGT
Found at i:3966610 original size:70 final size:67
Alignment explanation
Indices: 3966249--3966616 Score: 352
Period size: 64 Copynumber: 5.5 Consensus size: 67
3966239 GAGAAGGGTG
* * *
3966249 AAAGATGCCACGAAGTTGTGGAC-TT-AAAAGGAAAAAGAGTGCCATGGAGTTGTGGACTTTAAA
1 AAAG-TGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAG-GTGCCACGGAGTTGTGGAC-TTAAA
3966312 AGGGAA
63 A-GGAA
* * *
3966318 AAAGATTGCCACGGAGTTGTAGGCTTTGAAAA-G---AAGGTGCCACGGAGTTATGGGCTTTAAA
1 AAAG--TGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAGGTGCCACGGAGTTGTGGAC-TTAAA
3966379 AGGGAAA
63 A-GG-AA
* * *
3966386 AAGAGTGCCACAGAGTTGTAGGCTTTG-AAA-G---AAGGTGCCACGGAGTCGTGGACTTAAAAG
1 AA-AGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAG
3966446 GAA
65 GAA
*
3966449 CAAGGGTGCCACGGAGTTGTGGGCTTTGAAAA-G---AAGGTGCCACGGAGTTGTGGACTTAAAA
1 -AA-AGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTAAAA
3966510 GGAA
64 GGAA
*
3966514 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 AAA-GTGCCACGGAGTTGTGGGCTTTGAAAA-GGAAAAAG-GTGCCACGGAGTTGTGGAC-TTAA
*
3966579 AAAGAA
62 AAGGAA
* *
3966585 AAAGTGCCACGGAGTGGTGGACTTTGGAAAAG
1 AAAGTGCCACGGAGTTGTGGGCTTT-GAAAAG
3966617 ATGCCACCGA
Statistics
Matches: 263, Mismatches: 20, Indels: 31
0.84 0.06 0.10
Matches are distributed among these distances:
63 2 0.01
64 55 0.21
65 41 0.16
66 24 0.09
67 47 0.18
68 7 0.03
69 9 0.03
70 54 0.21
71 20 0.08
72 4 0.02
ACGTcount: A:0.34, C:0.12, G:0.34, T:0.20
Consensus pattern (67 bp):
AAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
AA
Found at i:3966686 original size:57 final size:57
Alignment explanation
Indices: 3966616--3966791 Score: 228
Period size: 57 Copynumber: 3.0 Consensus size: 57
3966606 CTTTGGAAAA
* * *
3966616 GATGCCACCGACTTGTGGGCTTCGGAAAAGGGTGCCACTGATTTGTGGGC-TTTGAAG
1 GATGCCACTGACTTGTGGGCTT-TGAAAAGGGTGCCACTGACTTGTGGGCTTTTGAAG
* * *
3966673 GTTGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTTGAAAAAA
1 GATGCCACTGACTTGTGGGC-TTTGAAAAGGGTGCCACTGACTTGTGGGCTTTTG---AAG
* *
3966734 GATGCCACTGACTTGTGGGCTTTGAAAAAGATGCCACTGACTTGTGGGCTTTTGAAG
1 GATGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTTGAAG
3966791 G
1 G
3966792 GTGAGGAATG
Statistics
Matches: 103, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
57 45 0.44
58 6 0.06
60 31 0.30
61 21 0.20
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (57 bp):
GATGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTTGAAG
Found at i:3968241 original size:16 final size:16
Alignment explanation
Indices: 3968222--3968255 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
3968212 ATCCGGACCC
3968222 TTTTTGTTGTTGTTTTT
1 TTTTTGTT-TTGTTTTT
3968239 TTTTTGTTTTGTTTTT
1 TTTTTGTTTTGTTTTT
3968255 T
1 T
3968256 CTTTCTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (16 bp):
TTTTTGTTTTGTTTTT
Found at i:3968245 original size:11 final size:11
Alignment explanation
Indices: 3968222--3968283 Score: 54
Period size: 11 Copynumber: 5.5 Consensus size: 11
3968212 ATCCGGACCC
*
3968222 TTTTTGTTGTTG
1 TTTTTGTT-TTT
3968234 TTTTT-TTTTT
1 TTTTTGTTTTT
*
3968244 GTTTTGTTTTT
1 TTTTTGTTTTT
* *
3968255 TCTTTCTTTTT
1 TTTTTGTTTTT
3968266 TTCTTCTGTTTTT
1 TT-TT-TGTTTTT
3968279 TTTTT
1 TTTTT
3968284 TGTGGAGGAC
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
10 6 0.15
11 17 0.43
12 9 0.22
13 8 0.20
ACGTcount: A:0.00, C:0.06, G:0.10, T:0.84
Consensus pattern (11 bp):
TTTTTGTTTTT
Found at i:3968253 original size:12 final size:12
Alignment explanation
Indices: 3968234--3968286 Score: 56
Period size: 12 Copynumber: 4.5 Consensus size: 12
3968224 TTTGTTGTTG
*
3968234 TTTT-TTTTTTG
1 TTTTGTTTTTTC
3968245 TTTTGTTTTTTC
1 TTTTGTTTTTTC
3968257 TTTCT-TTTTTTC
1 TTT-TGTTTTTTC
* *
3968269 TTCTGTTTTTTT
1 TTTTGTTTTTTC
3968281 TTTTGT
1 TTTTGT
3968287 GGAGGACGCC
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
11 5 0.14
12 29 0.83
13 1 0.03
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.85
Consensus pattern (12 bp):
TTTTGTTTTTTC
Found at i:3968264 original size:16 final size:14
Alignment explanation
Indices: 3968234--3968284 Score: 50
Period size: 15 Copynumber: 3.6 Consensus size: 14
3968224 TTTGTTGTTG
*
3968234 TTTTTTTTT-TGTT
1 TTTTTTTTTCTTTT
*
3968247 TTGTTTTTTCTTTCT
1 TTTTTTTTTCTTT-T
*
3968262 TTTTTTCTTCTGTTT
1 TTTTTTTTTCT-TTT
3968277 TTTTTTTT
1 TTTTTTTT
3968285 GTGGAGGACG
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
13 8 0.27
14 2 0.07
15 18 0.60
16 2 0.07
ACGTcount: A:0.00, C:0.08, G:0.06, T:0.86
Consensus pattern (14 bp):
TTTTTTTTTCTTTT
Found at i:3982128 original size:52 final size:52
Alignment explanation
Indices: 3982049--3982178 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
3982039 CCAAAATATG
3982049 AAAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
1 AAAA-TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
*
3982102 AAAATTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAAATTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
**
3982154 AATTTTGCCTGCATGTATCGATACA
1 AAAATTGCCTGCATGTATCGATACA
3982179 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
52 70 0.95
53 4 0.05
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.35
Consensus pattern (52 bp):
AAAATTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
Found at i:3982279 original size:13 final size:13
Alignment explanation
Indices: 3982261--3982285 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3982251 GAAAAAAATA
3982261 TGTATCGATACAT
1 TGTATCGATACAT
3982274 TGTATCGATACA
1 TGTATCGATACA
3982286 ACACTTTATG
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:3982503 original size:32 final size:32
Alignment explanation
Indices: 3982462--3982570 Score: 164
Period size: 32 Copynumber: 3.4 Consensus size: 32
3982452 ATTCAAGCGA
3982462 TGTGTGGGCTTTAGAGGGGGTTGCCACCAACT
1 TGTGTGGGCTTTAGAGGGGGTTGCCACCAACT
*
3982494 TGTGTGGGCTTTAGAGGGGATTGCCACCAACT
1 TGTGTGGGCTTTAGAGGGGGTTGCCACCAACT
* ** *
3982526 TGTGTGCGCTTTAGAAGAAGGTTGCCACCGACT
1 TGTGTGGGCTTTAG-AGGGGGTTGCCACCAACT
3982559 TGTGTGGGCTTT
1 TGTGTGGGCTTT
3982571 GAGAAGGGTG
Statistics
Matches: 69, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
32 44 0.64
33 25 0.36
ACGTcount: A:0.17, C:0.18, G:0.35, T:0.30
Consensus pattern (32 bp):
TGTGTGGGCTTTAGAGGGGGTTGCCACCAACT
Found at i:3982690 original size:31 final size:31
Alignment explanation
Indices: 3982618--3983094 Score: 270
Period size: 31 Copynumber: 14.9 Consensus size: 31
3982608 AAGGAAAAGG
*
3982618 AGTGCCACGGAGTTGTGGACTTT-AAAAGGGAAAAA
1 AGTGCCACGGAGTTGTGGGCTTTGAAAA--G---AA
3982653 GAGTGCCACGGAGTTGTGGGCTTTGAAAAGAA
1 -AGTGCCACGGAGTTGTGGGCTTTGAAAAGAA
* * *
3982685 AGTGCCACGGAGTTGTGGACTTTAAAGGGGAAAAA
1 AGTGCCACGGAGTTGTGGGCTTTGAA----AAGAA
3982720 GAGTGCCACGGAGTTGTGGGCTTTGAAAAGAA
1 -AGTGCCACGGAGTTGTGGGCTTTGAAAAGAA
* * *
3982752 GGTGCCACGGAGTCGTGGAC-TT-AAAAGGAACA
1 AGTGCCACGGAGTTGTGGGCTTTGAAAA-G-A-A
3982784 AGGGTGCCACGGAGTTGTGGGCTTTGAAAAGAA
1 A--GTGCCACGGAGTTGTGGGCTTTGAAAAGAA
* *
3982817 GGTGCCACGGAGTTGTGGAC-TT-AAAAGGAAAA
1 AGTGCCACGGAGTTGTGGGCTTTGAAAA-G--AA
*
3982849 AGGTGCCATGGAGTTGTGGGCTTTGAAAAGGGAAAAA
1 A-GTGCCACGGAGTTGTGGGCTTTGAAAA--G---AA
*
3982886 GAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAA
1 -AGTGCCACGGAGTTGTGGGCTTTGAAAAG--AA
* *
3982920 AGTGCCACGGAGTGGTGGACTTTGGAAAAG--
1 AGTGCCACGGAGTTGTGGGCTTT-GAAAAGAA
* * * *
3982950 A-TGCCACCGACTTGTGGGCTTCGAAAA-AG
1 AGTGCCACGGAGTTGTGGGCTTTGAAAAGAA
* ** *
3982979 GGTGCCATTGATTTGTGGGCTTTG--AAG--
1 AGTGCCACGGAGTTGTGGGCTTTGAAAAGAA
* *
3983006 -GTTGCCACTGACTTGTGGGCTTTTGAAAAG--
1 AG-TGCCACGGAGTTGTGGGC-TTTGAAAAGAA
* ** *
3983036 GGTGCCACTAACTTGTGGGCTTTTG-AAA-AA
1 AGTGCCACGGAGTTGTGGGC-TTTGAAAAGAA
* *
3983066 AGATGCCACTGACTTGTGGGCTTTGAAAA
1 AG-TGCCACGGAGTTGTGGGCTTTGAAAA
3983095 AGATGCCACT
Statistics
Matches: 367, Mismatches: 38, Indels: 77
0.76 0.08 0.16
Matches are distributed among these distances:
26 1 0.00
27 16 0.04
28 11 0.03
29 27 0.07
30 55 0.15
31 81 0.22
32 9 0.02
33 39 0.11
34 29 0.08
35 13 0.04
36 52 0.14
37 33 0.09
38 1 0.00
ACGTcount: A:0.29, C:0.14, G:0.34, T:0.23
Consensus pattern (31 bp):
AGTGCCACGGAGTTGTGGGCTTTGAAAAGAA
Found at i:3982699 original size:101 final size:101
Alignment explanation
Indices: 3982561--3982942 Score: 398
Period size: 101 Copynumber: 3.8 Consensus size: 101
3982551 CACCGACTTG
* * *
3982561 TGTGGGCTTTGAGAAGGGTGAAAGATGCCACGAAGTTGTGGAC-TTAAAAGGAAAAGGAGTGCCA
1 TGTGGGCTTTGA-AAAGG-AAAAG-TGCCACGGAGTTGTGGACTTTAAAAGGAAAA-GAGTGCCA
3982625 CGGAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGT
62 CGGAGTTGTGGACTTTAAAA-GGAAAAAG-GTGCCACGGAGT
*
3982667 TGTGGGCTTTGAAAA-G-AAAGTGCCACGGAGTTGTGGACTTTAAAGGGGAAAAAGAGTGCCACG
1 TGTGGGCTTTGAAAAGGAAAAGTGCCACGGAGTTGTGGACTTTAAA-AGG-AAAAGAGTGCCACG
*
3982730 GAGTTGTGGGCTTTGAAAA-G---AAGGTGCCACGGAGT
64 GAGTTGTGGACTTT-AAAAGGAAAAAGGTGCCACGGAGT
* * *
3982765 CGTGGAC-TT-AAAAGGAACAAGGGTGCCACGGAGTTGTGGGCTTTGAAAA-G--AAG-GTGCCA
1 TGTGGGCTTTGAAAAGGAA-AA--GTGCCACGGAGTTGTGGACTTT-AAAAGGAAAAGAGTGCCA
*
3982824 CGGAGTTGTGGAC-TTAAAAGGAAAAAGGTGCCATGGAGT
62 CGGAGTTGTGGACTTTAAAAGGAAAAAGGTGCCACGGAGT
* *
3982863 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAA-AGTGCCA
1 TGTGGGCTTTGAAAA-GG--AAA-AGTGCCACGGAGTTGTGGACTTTAAAAGGAAAAGAGTGCCA
*
3982927 CGGAGTGGTGGACTTT
62 CGGAGTTGTGGACTTT
3982943 GGAAAAGATG
Statistics
Matches: 238, Mismatches: 13, Indels: 52
0.79 0.04 0.17
Matches are distributed among these distances:
94 4 0.02
95 3 0.01
96 22 0.09
97 6 0.03
98 37 0.16
99 7 0.03
100 9 0.04
101 63 0.26
102 14 0.06
103 48 0.20
104 11 0.05
105 2 0.01
106 12 0.05
ACGTcount: A:0.31, C:0.12, G:0.36, T:0.21
Consensus pattern (101 bp):
TGTGGGCTTTGAAAAGGAAAAGTGCCACGGAGTTGTGGACTTTAAAAGGAAAAGAGTGCCACGGA
GTTGTGGACTTTAAAAGGAAAAAGGTGCCACGGAGT
Found at i:3982704 original size:67 final size:66
Alignment explanation
Indices: 3982618--3982950 Score: 451
Period size: 67 Copynumber: 5.0 Consensus size: 66
3982608 AAGGAAAAGG
3982618 AGTGCCACGGAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAG
1 AGTGCCACGGAGTTGTGGACTTTAAAA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAG
3982683 AA
65 AA
*
3982685 AGTGCCACGGAGTTGTGGACTTTAAAGGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAG
1 AGTGCCACGGAGTTGTGGACTTTAAA-AGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAG
3982750 AA
65 AA
* * * *
3982752 GGTGCCACGGAGTCGTGGAC-TTAAAAGGAACAAGGGTGCCACGGAGTTGTGGGCTTTGAAAAGA
1 AGTGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGA
3982816 A
66 A
* *
3982817 GGTGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAG-GTGCCATGGAGTTGTGGGCTTTGAAAAGG
1 AGTGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA--
3982880 GAAAAA
64 G---AA
* * * *
3982886 GAGTGCCACGGAGTTGTGGGCTTTAAAAAG-AAAA-AGTGCCACGGAGTGGTGGACTTTGGAAAA
1 -AGTGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-GAAAA
3982949 GA
64 GA
3982951 TGCCACCGAC
Statistics
Matches: 241, Mismatches: 15, Indels: 21
0.87 0.05 0.08
Matches are distributed among these distances:
64 26 0.11
65 69 0.29
66 7 0.03
67 83 0.34
69 3 0.01
70 41 0.17
71 12 0.05
ACGTcount: A:0.32, C:0.12, G:0.36, T:0.20
Consensus pattern (66 bp):
AGTGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGA
A
Found at i:3982966 original size:29 final size:29
Alignment explanation
Indices: 3982915--3983118 Score: 198
Period size: 30 Copynumber: 7.0 Consensus size: 29
3982905 GCTTTAAAAA
* * * *
3982915 GAAAAAG-TGCCACGGAGTGGTGGACTTT
1 GAAAAAGATGCCACTGACTTGTGGGCTTT
* * *
3982943 GGAAAAGATGCCACCGACTTGTGGGCTTC
1 GAAAAAGATGCCACTGACTTGTGGGCTTT
* * *
3982972 GAAAAAGGGTGCCATTGATTTGTGGGCTTT
1 GAAAAA-GATGCCACTGACTTGTGGGCTTT
* *
3983002 G--AAGGTTGCCACTGACTTGTGGGCTTTT
1 GAAAAAGATGCCACTGACTTGTGGGC-TTT
* * *
3983030 GAAAAGGGTGCCACTAACTTGTGGGCTTTT
1 GAAAAAGATGCCACTGACTTGTGGGC-TTT
3983060 GAAAAAAGATGCCACTGACTTGTGGGCTTT
1 G-AAAAAGATGCCACTGACTTGTGGGCTTT
* *
3983090 GAAAAAGATGCCACTGACCTGTAGGCTTT
1 GAAAAAGATGCCACTGACTTGTGGGCTTT
3983119 TGAAGGGTGA
Statistics
Matches: 147, Mismatches: 23, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
27 17 0.12
28 12 0.08
29 47 0.32
30 49 0.33
31 22 0.15
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.27
Consensus pattern (29 bp):
GAAAAAGATGCCACTGACTTGTGGGCTTT
Found at i:3982995 original size:30 final size:30
Alignment explanation
Indices: 3982880--3983118 Score: 186
Period size: 30 Copynumber: 8.0 Consensus size: 30
3982870 TTTGAAAAGG
* * *
3982880 GAAAAAGAGTGCCACGGAGTTGTGGGCTTT
1 GAAAAAGGGTGCCACTGACTTGTGGGCTTT
* * * * *
3982910 -AAAAAGAAAAAGTGCCACGGAGTGGTGGACTTT
1 GAAAAAG----GGTGCCACTGACTTGTGGGCTTT
* * * *
3982943 GGAAAA-GATGCCACCGACTTGTGGGCTTC
1 GAAAAAGGGTGCCACTGACTTGTGGGCTTT
* *
3982972 GAAAAAGGGTGCCATTGATTTGTGGGCTTT
1 GAAAAAGGGTGCCACTGACTTGTGGGCTTT
*
3983002 G---AAGGTTGCCACTGACTTGTGGGCTTTT
1 GAAAAAGGGTGCCACTGACTTGTGGGC-TTT
*
3983030 G-AAAAGGGTGCCACTAACTTGTGGGCTTTT
1 GAAAAAGGGTGCCACTGACTTGTGGGC-TTT
* *
3983060 GAAAAAAGATGCCACTGACTTGTGGGCTTT
1 GAAAAAGGGTGCCACTGACTTGTGGGCTTT
* * *
3983090 GAAAAA-GATGCCACTGACCTGTAGGCTTT
1 GAAAAAGGGTGCCACTGACTTGTGGGCTTT
3983119 TGAAGGGTGA
Statistics
Matches: 173, Mismatches: 26, Indels: 21
0.79 0.12 0.10
Matches are distributed among these distances:
27 20 0.12
28 4 0.02
29 48 0.28
30 54 0.31
31 22 0.13
33 21 0.12
34 4 0.02
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (30 bp):
GAAAAAGGGTGCCACTGACTTGTGGGCTTT
Found at i:3983019 original size:57 final size:59
Alignment explanation
Indices: 3982934--3983122 Score: 206
Period size: 57 Copynumber: 3.2 Consensus size: 59
3982924 CCACGGAGTG
* * * * * * *
3982934 GTGGACTTTGGAAAAGATGCCACCGACTTGTGGGCTTCGAAAAAGGGTGCCATTGATTT
1 GTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAAGGGTGCCACTAACTT
* *
3982993 GTGGGC-TTTG-AAGGTTGCCACTGACTTGTGGGCTTTTG-AAAAGGGTGCCACTAACTT
1 GTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGC-TTTGAAAAAGGGTGCCACTAACTT
* * *
3983050 GTGGGCTTTTGAAAAAAGATGCCACTGACTTGTGGGCTTTGAAAAA-GATGCCACTGACCT
1 GTGGGCTTTTG--AAAAGATGCCACTGACTTGTGGGCTTTGAAAAAGGGTGCCACTAACTT
*
3983110 GTAGGCTTTTGAA
1 GTGGGCTTTTGAA
3983123 GGGTGAGGAA
Statistics
Matches: 109, Mismatches: 15, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
57 42 0.39
58 12 0.11
59 5 0.05
60 25 0.23
61 25 0.23
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (59 bp):
GTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAAGGGTGCCACTAACTT
Found at i:3983125 original size:88 final size:86
Alignment explanation
Indices: 3982959--3983127 Score: 214
Period size: 88 Copynumber: 1.9 Consensus size: 86
3982949 GATGCCACCG
* * * * * * * *
3982959 ACTTGTGGGCTTCGAAAAAGGGTGCCATTGATTTGTGGGCTTTGAAGGTTGCCACTGACTTGTGG
1 ACTTGTGGGCTTCGAAAAAAGATGCCACTGACTTGTGGGCTTTGAAAGATGCCACTGACCTGTAG
3983024 GCTTTTGAAAAGGGTGCCACTA
66 GCTTTTG-AAAGGGTGCCACTA
*
3983046 ACTTGTGGGCTTTTGAAAAAAGATGCCACTGACTTGTGGGCTTTGAAAAAGATGCCACTGACCTG
1 ACTTGTGGGC-TTCGAAAAAAGATGCCACTGACTTGTGGGCTTTG--AAAGATGCCACTGACCTG
3983111 TAGGCTTTTG-AAGGGTG
63 TAGGCTTTTGAAAGGGTG
3983128 AGGAATGTCT
Statistics
Matches: 70, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
87 10 0.14
88 36 0.51
90 24 0.34
ACGTcount: A:0.23, C:0.16, G:0.31, T:0.30
Consensus pattern (86 bp):
ACTTGTGGGCTTCGAAAAAAGATGCCACTGACTTGTGGGCTTTGAAAGATGCCACTGACCTGTAG
GCTTTTGAAAGGGTGCCACTA
Found at i:3984180 original size:92 final size:92
Alignment explanation
Indices: 3983996--3984826 Score: 1295
Period size: 92 Copynumber: 9.0 Consensus size: 92
3983986 AAAAGGATAT
*
3983996 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAATATGCTGATT
* * *
3984061 CAAAGCCAGCTATATTGGACTTAAAGGTGC
63 CAAGGCCAGCGATATTGGACTTGAAGGTGC
* *
3984091 CAATGTGCTGATTCAAGGTCAGCTACATTGGACTTAAAGATGAAGGTACCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
* *
3984156 GGCCAGAGATATTAGACTTGAAGGTGC
66 GGCCAGCGATATTGGACTTGAAGGTGC
* * *
3984183 CAATGTGCTGATTCAAGGCCAGTTATATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
3984248 GGCCAGCGATATTGGACTTGAAGGTGC
66 GGCCAGCGATATTGGACTTGAAGGTGC
* * *
3984275 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAATGAAGAAGGTGCCAGTATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
* *
3984340 GGCTAGCGATATTGGACTTGAAAGTGC
66 GGCCAGCGATATTGGACTTGAAGGTGC
3984367 CAATGTGCTGATTCAAGGCCA-CTTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCA
1 CAATGTGCTGATTCAAGGCCAGC-TACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCA
*
3984431 AGGCCAGCGATATTGGACTTAAAGGTGC
65 AGGCCAGCGATATTGGACTTGAAGGTGC
* * *
3984459 CACTGTGCTAATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
* *
3984524 GGCTAGCGATATTGGACTTGAAAGTGC
66 GGCCAGCGATATTGGACTTGAAGGTGC
*
3984551 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGAGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
* *
3984616 GGCCAGCGATATTGGACTTAAAGGTGT
66 GGCCAGCGATATTGGACTTGAAGGTGC
* *
3984643 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGTTGATT
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAATATGCTGATT
*
3984708 CAAGGCTAGCGATATTGGACTTGAAGGTGC
63 CAAGGCCAGCGATATTGGACTTGAAGGTGC
*
3984738 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
* * * *
3984803 AGCCGGCTATATTGGACTTAAAGG
66 GGCCAGCGATATTGGACTTGAAGG
3984827 AAGATGCCAC
Statistics
Matches: 676, Mismatches: 55, Indels: 13
0.91 0.07 0.02
Matches are distributed among these distances:
91 1 0.00
92 548 0.81
93 2 0.00
94 2 0.00
95 123 0.18
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.26
Consensus pattern (92 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
GGCCAGCGATATTGGACTTGAAGGTGC
Found at i:3985021 original size:67 final size:66
Alignment explanation
Indices: 3984935--3985266 Score: 476
Period size: 67 Copynumber: 5.0 Consensus size: 66
3984925 AGGAAAAAGA
3984935 GTGCCACGGAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGA
1 GTGCCACGGAGTTGTGGACTTTAAAA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGA
3985000 AG
65 AG
*
3985002 GTGCGACGGAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGA
1 GTGCCACGGAGTTGTGGACTTTAAAA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGA
3985067 AG
65 AG
* * *
3985069 GTGCCACGGAGTCGTGGAC-TTAAAAGGAACAAGGGTGCCACGGAGTTGTGGGCTTTGAAAAGAA
1 GTGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAA
3985133 G
66 G
3985134 GTGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGGG
1 GTGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA--G
3985197 AAAAAG
64 ---AAG
* * * *
3985203 AGTGCCACGGAGTTGTGGGCTTTAAAAAG-AAAA-AGTGCCACGGAGTGGTGGACTTTGGAAAAG
1 -GTGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-GAAAAG
3985266 A
64 A
3985267 TGCCACCGAT
Statistics
Matches: 245, Mismatches: 11, Indels: 19
0.89 0.04 0.07
Matches are distributed among these distances:
64 27 0.11
65 69 0.28
66 8 0.03
67 83 0.34
69 4 0.02
70 42 0.17
71 12 0.05
ACGTcount: A:0.32, C:0.12, G:0.36, T:0.20
Consensus pattern (66 bp):
GTGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAA
G
Found at i:3985116 original size:132 final size:132
Alignment explanation
Indices: 3984897--3985266 Score: 493
Period size: 132 Copynumber: 2.8 Consensus size: 132
3984887 GGGAAGGGTG
* * *
3984897 AAAGATGCCACGAAGTTGTGGAC-TT-AAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTTAAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGG--AAAGAGTGCCACGGAGTTGTGGACTTTAAA
*
3984960 AGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCGACGGAGTTGTGGACTTTA
64 A-GG-AAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTTGTGGAC-TTA
3985025 AAAGGGAA
126 AAA-GGAA
*
3985033 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA-G-AAG-GTGCCACGGAGTCGTGGAC-TTAAAA
1 AAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAGAGTGCCACGGAGTTGTGGACTTTAAAA
*
3985094 GGAACAAGGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTTGTGGACTTAAAA
65 GGAA-AAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTTGTGGACTTAAAA
3985159 GGAA
129 GGAA
*
3985163 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAA-GG--AAAGAGTGCCACGGAGTTGTGGACTTTAA
* * *
3985228 AAAGAAAA-AGTGCCACGGAGTGGTGGACTTTGGAAAAGA
63 AAGGAAAAGAGTGCCACGGAGTTGTGGGCTTT-GAAAAGA
3985267 TGCCACCGAT
Statistics
Matches: 210, Mismatches: 12, Indels: 25
0.85 0.05 0.10
Matches are distributed among these distances:
129 27 0.13
130 8 0.04
131 9 0.04
132 54 0.26
133 6 0.03
134 41 0.20
135 29 0.14
136 13 0.06
137 16 0.08
138 3 0.01
139 4 0.02
ACGTcount: A:0.33, C:0.12, G:0.35, T:0.19
Consensus pattern (132 bp):
AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAGAGTGCCACGGAGTTGTGGACTTTAAAAG
GAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTTGTGGACTTAAAAGG
AA
Found at i:3985229 original size:29 final size:30
Alignment explanation
Indices: 3985196--3985320 Score: 128
Period size: 29 Copynumber: 4.1 Consensus size: 30
3985186 TTTGAAAAGG
3985196 GAAAAAGAGTGCCACGGAGTTGTGGGCTTT
1 GAAAAAGAGTGCCACGGAGTTGTGGGCTTT
* *
3985226 -AAAAAGAAAAAGTGCCACGGAGTGGTGGACTTT
1 GAAAAAG----AGTGCCACGGAGTTGTGGGCTTT
* * *
3985259 GGAAAAGA-TGCCACCGATTTGTGGGCTTT
1 GAAAAAGAGTGCCACGGAGTTGTGGGCTTT
* * *
3985288 GAAAAAGGGTGCCACTGATTTGTGGGCTTT
1 GAAAAAGAGTGCCACGGAGTTGTGGGCTTT
3985318 GAA
1 GAA
3985321 GGTTGCCACT
Statistics
Matches: 79, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
29 29 0.37
30 24 0.30
33 21 0.27
34 5 0.06
ACGTcount: A:0.30, C:0.14, G:0.33, T:0.24
Consensus pattern (30 bp):
GAAAAAGAGTGCCACGGAGTTGTGGGCTTT
Found at i:3985308 original size:30 final size:30
Alignment explanation
Indices: 3985196--3985405 Score: 137
Period size: 30 Copynumber: 7.0 Consensus size: 30
3985186 TTTGAAAAGG
* * *
3985196 GAAAAAGAGTGCCACGGAGTTGTGGGCTTT
1 GAAAAAGGGTGCCACTGATTTGTGGGCTTT
* * * * *
3985226 -AAAAAGAAAAAGTGCCACGGAGTGGTGGACTTT
1 GAAAAAG----GGTGCCACTGATTTGTGGGCTTT
* * *
3985259 GGAAAA-GATGCCACCGATTTGTGGGCTTT
1 GAAAAAGGGTGCCACTGATTTGTGGGCTTT
3985288 GAAAAAGGGTGCCACTGATTTGTGGGCTTT
1 GAAAAAGGGTGCCACTGATTTGTGGGCTTT
* * *
3985318 G---AAGGTTGCCACTAACTTGTGGGCTTTT
1 GAAAAAGGGTGCCACTGATTTGTGGGC-TTT
* *
3985346 G-AAAAGGGTGCCACTAACTTT-TGTGCTTTT
1 GAAAAAGGGTGCCACTGA-TTTGTGGGC-TTT
* * *
3985376 GAAAAAAGATGCCACTGACTTGTGGGCTTT
1 GAAAAAGGGTGCCACTGATTTGTGGGCTTT
3985406 TGAAGGGTGA
Statistics
Matches: 145, Mismatches: 23, Indels: 24
0.76 0.12 0.12
Matches are distributed among these distances:
27 20 0.14
28 4 0.03
29 28 0.19
30 49 0.34
31 19 0.13
33 21 0.14
34 4 0.03
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.28
Consensus pattern (30 bp):
GAAAAAGGGTGCCACTGATTTGTGGGCTTT
Found at i:3985374 original size:57 final size:59
Alignment explanation
Indices: 3985250--3985409 Score: 166
Period size: 57 Copynumber: 2.7 Consensus size: 59
3985240 CCACGGAGTG
* * ** * *
3985250 GTGGACTTTGGAAAAGATGCCACCGATTTGTGGGC-TTTGAAAAAGGGTGCCACTGATTT
1 GTGGGCTTTTGAAAAGATGCCACTAACTTGTGGGCTTTTG-AAAAGGGTGCCACTAATTT
* *
3985309 GTGGGC-TTTG-AAGGTTGCCACTAACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTTT
1 GTGGGCTTTTGAAAAGATGCCACTAACTTGTGGGCTTTTGAAAAGGGTGCCACTAA-TTT
* *
3985367 -TGTGCTTTTGAAAAAAGATGCCACTGACTTGTGGGCTTTTGAA
1 GTGGGCTTTTG--AAAAGATGCCACTAACTTGTGGGCTTTTGAA
3985410 GGGTGAGGAA
Statistics
Matches: 83, Mismatches: 12, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
57 37 0.45
58 14 0.17
59 5 0.06
61 27 0.33
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.32
Consensus pattern (59 bp):
GTGGGCTTTTGAAAAGATGCCACTAACTTGTGGGCTTTTGAAAAGGGTGCCACTAATTT
Found at i:3992351 original size:28 final size:28
Alignment explanation
Indices: 3992271--3992743 Score: 399
Period size: 28 Copynumber: 16.2 Consensus size: 28
3992261 TGTCAATACG
* * *
3992271 ACCCTTTTCAAAGCCCACAAGTCAATTGC
1 ACCC-TTTCAAAGCCCACAAGTTAGTGGC
* *
3992300 ATCATTCTCAAAGCCCACAAGTTAGTGGC
1 ACCCTT-TCAAAGCCCACAAGTTAGTGGC
* *
3992329 ATCCTTTCAAAGCCCACATGTTAGTGGC
1 ACCCTTTCAAAGCCCACAAGTTAGTGGC
* * * *
3992357 ATCTTTTCAAAGCCCACATGTCAGTGGC
1 ACCCTTTCAAAGCCCACAAGTTAGTGGC
* *
3992385 ATCCTCTCAAAGCCCACAAGTTAGTGGC
1 ACCCTTTCAAAGCCCACAAGTTAGTGGC
* * * *
3992413 ATCCTTTCAAACCCCACAAGTCAGCGGC
1 ACCCTTTCAAAGCCCACAAGTTAGTGGC
* * * *
3992441 ACCCGTTT-AAGTGCACACAAGTTGGTGGTA
1 ACCC-TTTCAA-AGCCCACAAGTTAGTGG-C
* *
3992471 ACCTCTCTCAAAGCCCACAAGTCAGTGGC
1 ACC-CTTTCAAAGCCCACAAGTTAGTGGC
**
3992500 ACCCTTTCAAAGCCCACAAGTCGGTGGC
1 ACCCTTTCAAAGCCCACAAGTTAGTGGC
* * *
3992528 ACCCTTTCGAAGCCCATAAGTCAGTGGC
1 ACCCTTTCAAAGCCCACAAGTTAGTGGC
* *
3992556 ACCCTTTCAAAGCCCATAAGTTAGTAGC
1 ACCCTTTCAAAGCCCACAAGTTAGTGGC
3992584 ACCCTTTCAAAGCCCACAAGTTAGTGGC
1 ACCCTTTCAAAGCCCACAAGTTAGTGGC
* * *
3992612 ACCTTTTCGAAGCCCACACAAGTTGGTGGC
1 ACCCTTTCAAAG-CC-CACAAGTTAGTGGC
* *
3992642 AACCTTCTCTAAAGCCCACACAGGTTGGTGGC
1 ACCCTT-TC-AAAGCCCACA-A-GTTAGTGGC
* * *
3992674 AACCCTTTTAAAGCACACACAAGTTAATGGG
1 -ACCCTTTCAAAGC-C-CACAAGTTAGTGGC
* *
3992705 AACCTTCTCTAAAGCCCACACAAGTTTGTGGC
1 ACCCTT-TC-AAAG-CC-CACAAGTTAGTGGC
3992737 AACCCTT
1 -ACCCTT
3992744 CTAAACCTAA
Statistics
Matches: 367, Mismatches: 58, Indels: 34
0.80 0.13 0.07
Matches are distributed among these distances:
28 211 0.57
29 45 0.12
30 44 0.12
31 20 0.05
32 32 0.09
33 15 0.04
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (28 bp):
ACCCTTTCAAAGCCCACAAGTTAGTGGC
Found at i:3992592 original size:171 final size:170
Alignment explanation
Indices: 3992304--3992724 Score: 484
Period size: 171 Copynumber: 2.4 Consensus size: 170
3992294 AATTGCATCA
* * * * *
3992304 TTCTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACATGTTAGTGGCATCTTTTCAAAG
1 TTCTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
* * * *
3992369 CCCACATGTCAGTGGCATCCTCTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAACCCCACAAGT
66 CCCACAAGTCAGTGGCACCCTCTCAAAGCCCACAAGTTAGTAGCACCCTTTCAAACCCCACAAGT
** *
3992434 CAGCGGCACCCGTTT-AAGTGCACACAAGTTGGTGGTAACC
131 CAGCGGCA-CCGTTTCAAGCCCACACAAGTTGGTGGCAACC
* * *
3992474 TCTCTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCGGTGGCACCCTTTCGAA
1 T-TCTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAA
* * * *
3992539 GCCCATAAGTCAGTGGCACCCTTTCAAAGCCCATAAGTTAGTAGCACCCTTTCAAAGCCCACAAG
65 GCCCACAAGTCAGTGGCACCCTCTCAAAGCCCACAAGTTAGTAGCACCCTTTCAAACCCCACAAG
* * *
3992604 TTAGTGGCACCTTTTCGAAGCCCACACAAGTTGGTGGCAACC
130 TCAGCGGCACCGTTTC-AAGCCCACACAAGTTGGTGGCAACC
* * * * * *
3992646 TTCTCTAAAGCCCACACAGGTTGGTGGCAACCCTTTTAAAGCACACACAAGTTAATGGGAACCTT
1 TTCTC-AAAGCCCACA-A-GTTAGTGGC-ACCCTTTCAAAGC-C-CACAAGTCAGTGGCACCCTT
3992711 CTCTAAAGCCCACA
60 -TC-AAAGCCCACA
3992725 CAAGTTTGTG
Statistics
Matches: 208, Mismatches: 32, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
170 6 0.03
171 123 0.59
172 33 0.16
173 1 0.00
174 7 0.03
175 12 0.06
176 1 0.00
177 15 0.07
178 2 0.01
179 8 0.04
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.23
Consensus pattern (170 bp):
TTCTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
CCCACAAGTCAGTGGCACCCTCTCAAAGCCCACAAGTTAGTAGCACCCTTTCAAACCCCACAAGT
CAGCGGCACCGTTTCAAGCCCACACAAGTTGGTGGCAACC
Found at i:3993132 original size:25 final size:25
Alignment explanation
Indices: 3993104--3993155 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
3993094 CCAGACAAAA
3993104 TGGTGTCTATTTGTCTTTGCCCTGT
1 TGGTGTCTATTTGTCTTTGCCCTGT
*
3993129 TGGTGTCTATTTGTCTTTGCCTTGT
1 TGGTGTCTATTTGTCTTTGCCCTGT
3993154 TG
1 TG
3993156 CTGATACAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.04, C:0.17, G:0.25, T:0.54
Consensus pattern (25 bp):
TGGTGTCTATTTGTCTTTGCCCTGT
Found at i:4005201 original size:20 final size:20
Alignment explanation
Indices: 4005164--4005217 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
4005154 TTCCATAATT
* *
4005164 TGTATCGGTACAATAAGTTAA
1 TGTATCGATAC-ATAAGTGAA
4005185 TGTATCGATACATAAGTGAA
1 TGTATCGATACATAAGTGAA
* *
4005205 TGTGTCAATACAT
1 TGTATCGATACAT
4005218 GCTTGACATG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 19 0.66
21 10 0.34
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (20 bp):
TGTATCGATACATAAGTGAA
Found at i:4015601 original size:19 final size:20
Alignment explanation
Indices: 4015567--4015617 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
4015557 CAACAATTTG
*
4015567 TATCGATATAATAAGTAAATA
1 TATCGATA-CATAAGTAAATA
* *
4015588 TAT-GATACATAAGTGAATG
1 TATCGATACATAAGTAAATA
4015607 TATCGATACAT
1 TATCGATACAT
4015618 GTTTGAAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 12 0.46
20 11 0.42
21 3 0.12
ACGTcount: A:0.45, C:0.08, G:0.14, T:0.33
Consensus pattern (20 bp):
TATCGATACATAAGTAAATA
Found at i:4015739 original size:51 final size:52
Alignment explanation
Indices: 4015684--4015811 Score: 161
Period size: 52 Copynumber: 2.5 Consensus size: 52
4015674 AATGTACCGT
*
4015684 TACATTTTTCATTATATCGATACATTCT-GGGTTTTGACCCAAATGTATCAA
1 TACATTTTTCATTATATCGATACATTCTAGGGTTTTAACCCAAATGTATCAA
* * * * *
4015735 TACATTCTTCATTATATTGAAACATTCTAGGTTTTTAACCCAAATGTATCGA
1 TACATTTTTCATTATATCGATACATTCTAGGGTTTTAACCCAAATGTATCAA
* *
4015787 TACATTCTTT-AATGTATCGATACAT
1 TACATT-TTTCATTATATCGATACAT
4015812 ACAGGCAAAT
Statistics
Matches: 64, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
51 25 0.39
52 37 0.58
53 2 0.03
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.41
Consensus pattern (52 bp):
TACATTTTTCATTATATCGATACATTCTAGGGTTTTAACCCAAATGTATCAA
Found at i:4015795 original size:52 final size:51
Alignment explanation
Indices: 4015673--4015795 Score: 165
Period size: 51 Copynumber: 2.4 Consensus size: 51
4015663 TCTGGAATGA
* * * * *
4015673 AAATGTACCGTTACATTTTTCATTATATCGATACATTCTGGGTTTTGACCC
1 AAATGTATCGATACATTCTTCATTATATCGAAACATTCTGGGTTTTAACCC
* * *
4015724 AAATGTATCAATACATTCTTCATTATATTGAAACATTCTAGGTTTTTAACCC
1 AAATGTATCGATACATTCTTCATTATATCGAAACATTCT-GGGTTTTAACCC
4015776 AAATGTATCGATACATTCTT
1 AAATGTATCGATACATTCTT
4015796 TAATGTATCG
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
51 33 0.53
52 29 0.47
ACGTcount: A:0.31, C:0.18, G:0.11, T:0.41
Consensus pattern (51 bp):
AAATGTATCGATACATTCTTCATTATATCGAAACATTCTGGGTTTTAACCC
Found at i:4016365 original size:21 final size:21
Alignment explanation
Indices: 4016318--4016378 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 21
4016308 TATAAATAGT
*
4016318 AAATGTATTGATACATAAGTG
1 AAATGTATTGATACATAACTG
**
4016339 -AATGTATTGATACATGCCTG
1 AAATGTATTGATACATAACTG
* *
4016359 AAATGTATCGATACAAAACT
1 AAATGTATTGATACATAACT
4016379 ACCATACATT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
20 17 0.53
21 15 0.47
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.31
Consensus pattern (21 bp):
AAATGTATTGATACATAACTG
Found at i:4021811 original size:13 final size:13
Alignment explanation
Indices: 4021793--4021818 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4021783 CAATTTTTTG
4021793 TGTATCGATACAT
1 TGTATCGATACAT
4021806 TGTATCGATACAT
1 TGTATCGATACAT
4021819 ACTTTGTGTA
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:4021830 original size:32 final size:33
Alignment explanation
Indices: 4021773--4021836 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
4021763 TACAAGCCAA
** *
4021773 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCAATACAT
4021806 TGTATCGATAC-ATACTTTGTGTATCAATACA
1 TGTATCGATACAATACTTTGTGTATCAATACA
4021837 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCAATACAT
Found at i:4023919 original size:21 final size:20
Alignment explanation
Indices: 4023890--4023932 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
4023880 GACTAGTGTA
* *
4023890 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGCGACCT
*
4023911 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
4023931 GG
1 GG
4023933 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.09, C:0.28, G:0.44, T:0.19
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:4024382 original size:13 final size:13
Alignment explanation
Indices: 4024364--4024402 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
4024354 ATAATCCCCC
*
4024364 TGTATCGATACAG
1 TGTATCGATACAA
4024377 TGTATCGATACAA
1 TGTATCGATACAA
4024390 TGTATCGATACAA
1 TGTATCGATACAA
4024403 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4028301 original size:21 final size:21
Alignment explanation
Indices: 4028272--4028316 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
4028262 AAGTTTTTAT
*
4028272 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
4028292 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
4028314 TTT
1 TTT
4028317 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:4038708 original size:20 final size:20
Alignment explanation
Indices: 4038682--4038736 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
4038672 AAAAAGATAG
*
4038682 AATGTATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* *
4038702 CATGTATCGATACATTGAAA
1 AATGTATCGATACATTCAAA
*
4038722 AATGTATCGAAACAT
1 AATGTATCGATACAT
4038737 CTGAGTAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.31
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:4039506 original size:28 final size:28
Alignment explanation
Indices: 4039463--4039674 Score: 273
Period size: 28 Copynumber: 7.6 Consensus size: 28
4039453 CAACTTGTGC
*
4039463 GGGCTTTGAAAGGATGCCACTGACTTGT
1 GGGCTTTGAAAAGATGCCACTGACTTGT
* *
4039491 GGGCTTTAAAAAGATGCCACCT-TCTTGT
1 GGGCTTTGAAAAGATGCCA-CTGACTTGT
*
4039519 GGGCTTTGAAAGGATGCCACTGACTTGT
1 GGGCTTTGAAAAGATGCCACTGACTTGT
* * *
4039547 GGGCTTTGAAAGGGTGCTACTGACTTGT
1 GGGCTTTGAAAAGATGCCACTGACTTGT
* *
4039575 GGGCTTTGAAAGGATGCCACTAACTTGT
1 GGGCTTTGAAAAGATGCCACTGACTTGT
* *
4039603 GGGCATTGAAGAGATGCCACTGACTTGT
1 GGGCTTTGAAAAGATGCCACTGACTTGT
* * *
4039631 GGGCTTTGAAAAGGTACCACTGACTTAT
1 GGGCTTTGAAAAGATGCCACTGACTTGT
*
4039659 GGACTTTGAAAAGATG
1 GGGCTTTGAAAAGATG
4039675 AACGTTCTAG
Statistics
Matches: 159, Mismatches: 23, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
27 2 0.01
28 155 0.97
29 2 0.01
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.29
Consensus pattern (28 bp):
GGGCTTTGAAAAGATGCCACTGACTTGT
Found at i:4039591 original size:84 final size:84
Alignment explanation
Indices: 4039463--4039674 Score: 302
Period size: 84 Copynumber: 2.5 Consensus size: 84
4039453 CAACTTGTGC
* * * *
4039463 GGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTAAAAAGATGCCACCT-TCTTGTGGGCTTTG
1 GGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGATGCCA-CTAACTTGTGGGCATTG
4039527 AA-AGGATGCCACTGACTTGT
65 AAGA-GATGCCACTGACTTGT
* *
4039547 GGGCTTTGAAAGGGTGCTACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCATTGA
1 GGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTAACTTGTGGGCATTGA
4039612 AGAGATGCCACTGACTTGT
66 AGAGATGCCACTGACTTGT
* * * *
4039631 GGGCTTTGAAAAGGTACCACTGACTTATGGACTTTGAAAAGATG
1 GGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGATG
4039675 AACGTTCTAG
Statistics
Matches: 114, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
83 2 0.02
84 111 0.97
85 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.29
Consensus pattern (84 bp):
GGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTAACTTGTGGGCATTGA
AGAGATGCCACTGACTTGT
Found at i:4049300 original size:18 final size:18
Alignment explanation
Indices: 4049277--4049313 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
4049267 TTTCTCTCTA
4049277 GTACTTTTCCATGCAATG
1 GTACTTTTCCATGCAATG
4049295 GTACTTTTCCATGCAATG
1 GTACTTTTCCATGCAATG
4049313 G
1 G
4049314 ACCTTCTTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.38
Consensus pattern (18 bp):
GTACTTTTCCATGCAATG
Found at i:4054866 original size:20 final size:20
Alignment explanation
Indices: 4054812--4054885 Score: 62
Period size: 20 Copynumber: 3.7 Consensus size: 20
4054802 TTTTAACTAG
* *
4054812 ATGTATCGATACATTGA-AGA
1 ATGTATTGATACATT-ATACA
* *
4054832 ATGTATCGATGCATTCATAC-
1 ATGTATTGATACATT-ATACA
* *
4054852 ATGTATTGATACATTTTTCA
1 ATGTATTGATACATTATACA
4054872 ATGTATTGATACAT
1 ATGTATTGATACAT
4054886 CTGGGTAAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
19 2 0.04
20 42 0.93
21 1 0.02
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.39
Consensus pattern (20 bp):
ATGTATTGATACATTATACA
Found at i:4058412 original size:13 final size:13
Alignment explanation
Indices: 4058394--4058418 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4058384 TTTACCCAGA
4058394 TGTATCGATACAC
1 TGTATCGATACAC
4058407 TGTATCGATACA
1 TGTATCGATACA
4058419 TTGCTCATTG
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:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:4058473 original size:42 final size:42
Alignment explanation
Indices: 4058426--4058524 Score: 180
Period size: 42 Copynumber: 2.4 Consensus size: 42
4058416 ACATTGCTCA
*
4058426 TTGTATCGATACATTGTATCAATAGATTCTGGATTTACCCAG
1 TTGTATCGATACATTGTATCAATACATTCTGGATTTACCCAG
4058468 TTGTATCGATACATTGTATCAATACATTCTGGATTTACCCAG
1 TTGTATCGATACATTGTATCAATACATTCTGGATTTACCCAG
*
4058510 ATGTATCGATACATT
1 TTGTATCGATACATT
4058525 TTATAATGTA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.38
Consensus pattern (42 bp):
TTGTATCGATACATTGTATCAATACATTCTGGATTTACCCAG
Found at i:4060912 original size:51 final size:51
Alignment explanation
Indices: 4060857--4061000 Score: 123
Period size: 51 Copynumber: 2.8 Consensus size: 51
4060847 TCCCGGTTCC
* *
4060857 ATTTCTAAAACAACAATTTTTCTTAATCGGGGATACTCCAACTCCGATTTT
1 ATTTCTAAAACAACAATTTTTCATAATAGGGGATACTCCAACTCCGATTTT
* *** ** * *
4060908 ATTTCTAAAGCATTGATTTACCGCTAA-AGGAGG-TACTCTAACTCCGATTTT
1 ATTTCTAAAACAACAATTTTTC-ATAATAGG-GGATACTCCAACTCCGATTTT
* * *
4060959 ATTT-TCAAAACACCAATTTTTCACAATTGGGGATACTCCAAC
1 ATTTCT-AAAACAACAATTTTTCATAATAGGGGATACTCCAAC
4061001 CCCGTTATTT
Statistics
Matches: 69, Mismatches: 19, Indels: 10
0.70 0.19 0.10
Matches are distributed among these distances:
50 5 0.07
51 59 0.86
52 5 0.07
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.35
Consensus pattern (51 bp):
ATTTCTAAAACAACAATTTTTCATAATAGGGGATACTCCAACTCCGATTTT
Found at i:4061019 original size:28 final size:28
Alignment explanation
Indices: 4060987--4061060 Score: 130
Period size: 28 Copynumber: 2.6 Consensus size: 28
4060977 TTTCACAATT
4060987 GGGGATACTCCAACCCCGTTATTTCATC
1 GGGGATACTCCAACCCCGTTATTTCATC
* *
4061015 GGGGATACTCCGACCCCGTTATTTCATT
1 GGGGATACTCCAACCCCGTTATTTCATC
4061043 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
4061061 GCCTTATTTC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.20, C:0.32, G:0.22, T:0.26
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTTCATC
Found at i:4061095 original size:79 final size:79
Alignment explanation
Indices: 4061012--4061189 Score: 225
Period size: 79 Copynumber: 2.3 Consensus size: 79
4061002 CCGTTATTTC
* * **
4061012 ATCGGGGATACTCCGACCCCGTTA-TTTCATTGGGGATACTCCAACCCCGGCCTTATTTCTA-AA
1 ATCGGGGATACTCCAACCCCGTTATTTTCA-AGGGGATACTCCAACCCCAACCTTATTTCTAGAA
4061075 GCATCGATTTTCCATA
65 -CATCGATTTTCCATA
** * *
4061091 ATCGGGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCAATTTTATTTTTAGAAT
1 ATCGGGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCAACCTTATTTCTAGAAC
*
4061156 ATCGATTTTCTATA
66 ATCGATTTTCCATA
* *
4061170 ATCGGGGATATTCCAGCCCC
1 ATCGGGGATACTCCAACCCC
4061190 ATTGTTGTCT
Statistics
Matches: 86, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
79 79 0.92
80 7 0.08
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCAACCTTATTTCTAGAAC
ATCGATTTTCCATA
Found at i:4067328 original size:61 final size:61
Alignment explanation
Indices: 4067254--4068046 Score: 742
Period size: 61 Copynumber: 13.4 Consensus size: 61
4067244 TTAGCGCTTT
* * * *
4067254 AGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAGCCCACACGAGTTGGTGGCACATTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTC
* * * *
4067315 AGTCTTCAAAGAGCAGGACG-CTTTTTCCTTCTGAAGCCCACACAAGTTGGTGGCAC-CTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTT-CTTTTAAAGCCCACACAAGTTGGTGGCACTTTTC
* ** *
4067375 TAGTCCTCAAAGAGCAGGACGTCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCCTCC
1 -AGTCCTCAAAGAGCAGGACGCCTTTTTC-TTTTAAAGCCCACACAAGTTGGTGGCACTTTTC
* * * *
4067438 AGTCCTCAAAGAGCAAGACACCTTTTCCTCTTAAAGCCCACACAAGTTGGTGGCACTTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTC
* * * ** *
4067499 AGTCCTCAACGAGCAGGATGTCTTTCACTTTTCAAAGCCCACACAAGTTGGTGGCACCATTT-
1 AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCA-CTTTTC
* * * * * *
4067561 AGTCCTCAAAGAGCATGACACATTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTC
* * * *
4067622 AGTCCTTAAAGAGCAGGATG-C-----CTTTTAAAGCCTACACGAGTTGGTGGCACCTTTT-
1 AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTTC
* * * *
4067677 AGTCCTCAAAGGGCAGGACACC----TC--TCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTC
* * * * * *
4067732 AGTCTTAAAAGAGTAGGACGCC--TTTC----AAAGCCCACACAAGTTGGTGGTATTTTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTTC
* *
4067788 ATTCCTCAAAGAGCAAGACG-C-----CTTTTAAAGCCCACACAAGTTGGTGGCACTTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTC
* * *
4067843 TAGTCCTCAAAGAGCAGGACGCCATTTCCTTTGAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 -AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTT-C
*
4067905 AATCCTCAAAGAGCAGGACGCC--TTTC----AAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTT-C
* * * *
4067960 AGTCTTTAAAGAGCAGGATGCC-TTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACTTTTC
* *
4068021 AGTCCTGAAAGAGCAGGATGCCTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTT
4068047 CCCTTTCTCT
Statistics
Matches: 615, Mismatches: 82, Indels: 69
0.80 0.11 0.09
Matches are distributed among these distances:
52 1 0.00
54 4 0.01
55 155 0.25
56 67 0.11
57 4 0.01
59 3 0.00
60 12 0.02
61 224 0.36
62 138 0.22
63 7 0.01
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (61 bp):
AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTC
Found at i:4067441 original size:123 final size:118
Alignment explanation
Indices: 4067253--4068038 Score: 677
Period size: 123 Copynumber: 6.7 Consensus size: 118
4067243 TTTAGCGCTT
* *
4067253 TAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTC-AAGCCCACACGAGTTGGTGGCACATTTCAG
1 TAGTCCTCAAAGAGCAGGATG-CTTTTTC-TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAG
* * *
4067317 TCTTCAAAGAGCAGGACGCTTTTTCCTTCTGAAGCCCACACAAGTTGGTGGCACCTTC
64 TCCTCAAAGAGCAGGACAC---TTCCTTCTAAAGCCCACACAAGTTGGTGGCACCTTC
* * * *
4067375 TAGTCCTCAAAGAGCAGGACGTCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCCTCCAG
1 TAGTCCTCAAAGAGCAGGATG-CTTTTTC-TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAG
* *
4067440 TCCTCAAAGAGCAAGACACCTTTTCC-TCTTAAAGCCCACACAAGTTGGTGGCA-CTTT
64 TCCTCAAAGAGCAGGACA-C--TTCCTTC-TAAAGCCCACACAAGTTGGTGGCACCTTC
* **
4067497 TCAGTCCTCAACGAGCAGGATGTCTTTCACTTTTCAAAGCCCACACAAGTTGGTGGCACCATTT-
1 T-AGTCCTCAAAGAGCAGGATG-CTTTTTC-TTTCAAAGCCCACACAAGTTGGTGGCACC-TTTC
* * ** *
4067561 AGTCCTCAAAGAGCATGACACATTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTT
62 AGTCCTCAAAGAGCAGGACAC---TTCCTTCTAAAGCCCACACAAGTTGGTGGCACCTTC
* * * * *
4067621 TAGTCCTTAAAGAGCAGGATGC-----CTTTTAAAGCCTACACGAGTTGGTGGCACCTTTTAGTC
1 TAGTCCTCAAAGAGCAGGATGCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
* *
4067681 CTCAAAGGGCAGGACACCT-C-TC-AAAGCCCACACAAGTTGGTGGCACCTT-
66 CTCAAAGAGCAGGACACTTCCTTCTAAAGCCCACACAAGTTGGTGGCACCTTC
* * * * * ** * *
4067730 TCAGTCTTAAAAGAGTAGGACGC-----CTTTCAAAGCCCACACAAGTTGGTGGTATTTTTTTAT
1 T-AGTCCTCAAAGAGCAGGATGCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCA-CCTTTCAG
* * * *
4067790 TCCTCAAAGAGCA--AGAC-GCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTC
64 TCCTCAAAGAGCAGGACACTTCCTTCTAAAGCCCACACAAGTTGGTGGCAC-CTTC
* * * * * *
4067843 TAGTCCTCAAAGAGCAGGACGCCATTTCCTTTGAAAGCCCACACAAGTTGGTGGCA-TTTTCCAA
1 TAGTCCTCAAAGAGCAGGATG-CTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAG
* * **
4067907 TCCTCAAAGAGCAGGACGC--CTTTC-AAAGCCCACACAAGTTGGTGGCATTTTC
64 TCCTCAAAGAGCAGGACACTTCCTTCTAAAGCCCACACAAGTTGGTGGCACCTTC
* * * * * *
4067959 CAGTCTTTAAAGAGCAGGATGCCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTTAGT
1 TAGTCCTCAAAGAGCAGGATGCTTTTTC-TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
*
4068024 CCTGAAAGAGCAGGA
65 CCTCAAAGAGCAGGA
4068039 TGCCTTTTCC
Statistics
Matches: 566, Mismatches: 71, Indels: 60
0.81 0.10 0.09
Matches are distributed among these distances:
109 5 0.01
110 67 0.12
111 42 0.07
112 20 0.04
113 3 0.01
115 8 0.01
116 112 0.20
117 42 0.07
118 29 0.05
119 2 0.00
122 39 0.07
123 190 0.34
124 7 0.01
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.27
Consensus pattern (118 bp):
TAGTCCTCAAAGAGCAGGATGCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
CTCAAAGAGCAGGACACTTCCTTCTAAAGCCCACACAAGTTGGTGGCACCTTC
Found at i:4067653 original size:55 final size:55
Alignment explanation
Indices: 4067405--4068046 Score: 577
Period size: 55 Copynumber: 11.1 Consensus size: 55
4067395 GTCTTTTTCT
** ** * *
4067405 TTTTAAAGCCCACACAAGTTGGTGGCACCCTCCAGTCCTCAAAGAGCAAGACACC
1 TTTTAAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGACGCC
* * *
4067460 TTTTCCTCTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAACGAGCAGGATGTCTTTC
1 ---T--T-TTAAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGA---C--GC
4067525 AC
55 -C
** * *
4067527 TTTTCAAAGCCCACACAAGTTGGTGGCACCATTTAGTCCTCAAAGAGCATGACACATTTTCC
1 TTTT-AAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCA-G-GAC----GCC
* * *
4067589 TTTTAAAGCCCACACAAGTTGGTGGCATTTTTTAGTCCTTAAAGAGCAGGATGCC
1 TTTTAAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGACGCC
* * * * *
4067644 TTTTAAAGCCTACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGGGCAGGACACC
1 TTTTAAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGACGCC
* * * * * * *
4067699 TCTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCTTAAAAGAGTAGGACGCC
1 TTTTAAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGACGCC
* * * * *
4067754 TTTCAAAGCCCACACAAGTTGGTGGTATTTTTTTATTCCTCAAAGAGCAAGACGCC
1 TTTTAAAGCCCACACAAGTTGGTGGCA-CTTTTTAGTCCTCAAAGAGCAGGACGCC
4067810 TTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCC
1 TTTTAAAGCCCACACAAGTTGGTGGCACTTTT-TAGTCCTCAAAGAGCAGGACGCC
* *
4067866 ATTTCCTTTGAAAGCCCACACAAGTTGGTGGCA-TTTTCCAATCCTCAAAGAGCAGGACGCC
1 ---T--TTT-AAAGCCCACACAAGTTGGTGGCACTTTT-TAGTCCTCAAAGAGCAGGACGCC
* * * * *
4067927 TTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCTTTAAAGAGCAGGATGCCTTTTC
1 TTTTAAAGCCCACACAAGTTGGTGGCACTTTT-TAGTCCTCAAAGAGCAGGACG-C----C
* *
4067987 TTTTCAAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTGAAAGAGCAGGATGCC
1 TTTT-AAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGACGCC
4068043 TTTT
1 TTTT
4068047 CCCTTTCTCT
Statistics
Matches: 493, Mismatches: 62, Indels: 60
0.80 0.10 0.10
Matches are distributed among these distances:
55 168 0.34
56 74 0.15
58 2 0.00
59 2 0.00
60 7 0.01
61 157 0.32
62 73 0.15
63 5 0.01
64 3 0.01
66 1 0.00
67 1 0.00
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (55 bp):
TTTTAAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGACGCC
Found at i:4068110 original size:45 final size:43
Alignment explanation
Indices: 4068045--4068158 Score: 135
Period size: 45 Copynumber: 2.7 Consensus size: 43
4068035 AGGATGCCTT
* * *
4068045 TTCCCTTTCT-CTTTTCTCCTCAAAGAGCAGGACACAC-TTCA
1 TTCCCTTTTTCCTTTTGTCCTCAAAGAGCAGGACACACTTTAA
*
4068086 TTCCCTTCTTTTCCCTTTTGTCCTCAAAGAGCAGGACGCACTTTAA
1 TTCCC-T-TTTT-CCTTTTGTCCTCAAAGAGCAGGACACACTTTAA
*
4068132 TTTCCTTTTT-CTTTTGTCCTCAAAGAG
1 TTCCCTTTTTCCTTTTGTCCTCAAAGAG
4068159 TCGGATGAAT
Statistics
Matches: 63, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
41 5 0.08
42 18 0.29
43 3 0.05
44 4 0.06
45 26 0.41
46 7 0.11
ACGTcount: A:0.19, C:0.30, G:0.11, T:0.39
Consensus pattern (43 bp):
TTCCCTTTTTCCTTTTGTCCTCAAAGAGCAGGACACACTTTAA
Found at i:4068226 original size:35 final size:35
Alignment explanation
Indices: 4068178--4068277 Score: 157
Period size: 35 Copynumber: 2.9 Consensus size: 35
4068168 TTTCGTTTTC
**
4068178 CTTTTTC-CTTTGTCCTCGAAAAGCAGGATGTACT
1 CTTTTTCACTTTGTCCTCGAAAAGCAGGACATACT
4068212 CTTTTTCACTTTGTCCTCGAAAAGCAGGACATACT
1 CTTTTTCACTTTGTCCTCGAAAAGCAGGACATACT
* *
4068247 CTTTTTCACTTTGTCCTCGAGAAGCAAGACA
1 CTTTTTCACTTTGTCCTCGAAAAGCAGGACA
4068278 CTTTCCTTTT
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
34 7 0.11
35 54 0.89
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (35 bp):
CTTTTTCACTTTGTCCTCGAAAAGCAGGACATACT
Found at i:4068303 original size:41 final size:41
Alignment explanation
Indices: 4068245--4068347 Score: 120
Period size: 41 Copynumber: 2.5 Consensus size: 41
4068235 GCAGGACATA
* *
4068245 CTCTTTTTCACTTTGTCCTCGAGAAGCAAGACAC-TTTCCTT
1 CTCTTTTTC-CTTTGTCCTCAAGAAGCAAGACACATTTCATT
* * * *
4068286 TTCTTTCTTCCTTTGTCCTTAAGGAGCAAGACCCATTTCATT
1 CTCTTT-TTCCTTTGTCCTCAAGAAGCAAGACACATTTCATT
4068328 CTC-TTTTCCTTTGTCCTCAA
1 CTCTTTTTCCTTTGTCCTCAA
4068348 AAAGTGGGAC
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
40 14 0.27
41 27 0.52
42 11 0.21
ACGTcount: A:0.17, C:0.29, G:0.11, T:0.43
Consensus pattern (41 bp):
CTCTTTTTCCTTTGTCCTCAAGAAGCAAGACACATTTCATT
Found at i:4068772 original size:7 final size:8
Alignment explanation
Indices: 4068753--4068780 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
4068743 TTTCCTAAGC
4068753 TTTTTAGA
1 TTTTTAGA
4068761 TTTTTAGA
1 TTTTTAGA
4068769 TTTTTAGA
1 TTTTTAGA
4068777 TTTT
1 TTTT
4068781 CTAAGCTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.11, T:0.68
Consensus pattern (8 bp):
TTTTTAGA
Found at i:4068978 original size:20 final size:20
Alignment explanation
Indices: 4068949--4069107 Score: 107
Period size: 20 Copynumber: 7.8 Consensus size: 20
4068939 TTTTCACAAT
4068949 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
* *
4068969 TTGTACCGATACATTGTTTA
1 TTGTATCGATACATTGTTCA
*
4068989 TTGTATCGATACATT-AT-A
1 TTGTATCGATACATTGTTCA
* *
4069007 TCG-ATAC-ATTC-TTGGTTTACCCA
1 TTGTAT-CGATACATT-G-TT---CA
* * *
4069030 GATGTATCGATACATTATGCA
1 -TTGTATCGATACATTGTTCA
*
4069051 TTGTATCGATACATTGCTT-G
1 TTGTATCGATACATTG-TTCA
4069071 TTGTATCGATACATT-TCTCA
1 TTGTATCGATACATTGT-TCA
4069091 TTGTATCGATACATTGT
1 TTGTATCGATACATTGT
4069108 ATCAATACAT
Statistics
Matches: 106, Mismatches: 17, Indels: 31
0.69 0.11 0.20
Matches are distributed among these distances:
16 2 0.02
17 5 0.05
18 5 0.05
19 3 0.03
20 76 0.72
21 4 0.04
23 1 0.01
24 3 0.03
25 5 0.05
26 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.15, T:0.43
Consensus pattern (20 bp):
TTGTATCGATACATTGTTCA
Found at i:4069010 original size:13 final size:13
Alignment explanation
Indices: 4068992--4069016 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4068982 TTGTTTATTG
4068992 TATCGATACATTA
1 TATCGATACATTA
4069005 TATCGATACATT
1 TATCGATACATT
4069017 CTTGGTTTAC
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:0.08, T:0.40
Consensus pattern (13 bp):
TATCGATACATTA
Done.