Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008942.1 Hibiscus syriacus cultivar Beakdansim tig00112261_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2383254
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 11
Found at i:1268222 original size:3 final size:3
Alignment explanation
Indices: 1268214--1268294 Score: 74
Period size: 3 Copynumber: 26.0 Consensus size: 3
1268204 CCGGTCTTAC
* * * *
1268214 TTA TTA TTA TTA TTA TTA TATA TATA TAA TTA CATA TTA -TA CTA CTA
1 TTA TTA TTA TTA TTA TTA T-TA T-TA TTA TTA -TTA TTA TTA TTA TTA
*
1268261 TTA TTA TATA TTA TTA TTA ATA TTA TTA TTA TTA
1 TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA
1268295 AATAATATTA
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
2 2 0.03
3 53 0.79
4 12 0.18
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.57
Consensus pattern (3 bp):
TTA
Found at i:1272706 original size:13 final size:13
Alignment explanation
Indices: 1272688--1272734 Score: 58
Period size: 13 Copynumber: 3.6 Consensus size: 13
1272678 TGTGTCATAA
1272688 ATTTATGATGCAC
1 ATTTATGATGCAC
**
1272701 ATTTATGACACAC
1 ATTTATGATGCAC
* *
1272714 ATTTATGTTGCGC
1 ATTTATGATGCAC
1272727 ATTTATGA
1 ATTTATGA
1272735 CGCGCATTGC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (13 bp):
ATTTATGATGCAC
Found at i:1272739 original size:13 final size:13
Alignment explanation
Indices: 1272688--1272742 Score: 56
Period size: 13 Copynumber: 4.2 Consensus size: 13
1272678 TGTGTCATAA
*
1272688 ATTTATGATGCAC
1 ATTTATGACGCAC
*
1272701 ATTTATGACACAC
1 ATTTATGACGCAC
** *
1272714 ATTTATGTTGCGC
1 ATTTATGACGCAC
*
1272727 ATTTATGACGCGC
1 ATTTATGACGCAC
1272740 ATT
1 ATT
1272743 GCGTGTCATT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.38
Consensus pattern (13 bp):
ATTTATGACGCAC
Found at i:1272819 original size:85 final size:84
Alignment explanation
Indices: 1272724--1272879 Score: 249
Period size: 85 Copynumber: 1.8 Consensus size: 84
1272714 ATTTATGTTG
* * *
1272724 CGCATTTATGACGCGCATTGCGTGTCATTGAAGCCCTTGTCATAAATGAAGATGACACACATTTG
1 CGCATGTATGACGCACATTGCGTGTCATTGAAGCCCTCGTCATAAATGAAGATGACACACA-TTG
1272789 TGTGTCATAAATTTATGACA
65 TGTGTCATAAATTTATGACA
** *
1272809 CGCATGTATGACTTACATTGCGTGTCATTGAAGCCCTCGTCATAAATGAGGATGACACACATTGT
1 CGCATGTATGACGCACATTGCGTGTCATTGAAGCCCTCGTCATAAATGAAGATGACACACATTGT
1272874 GTGTCA
66 GTGTCA
1272880 GAGAGTATAT
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
84 10 0.15
85 55 0.85
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (84 bp):
CGCATGTATGACGCACATTGCGTGTCATTGAAGCCCTCGTCATAAATGAAGATGACACACATTGT
GTGTCATAAATTTATGACA
Found at i:1276517 original size:6 final size:6
Alignment explanation
Indices: 1276508--1276539 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
1276498 ATTTCCATCA
*
1276508 TCATCT TCATAT TCATAT TCATAT TCATAT TC
1 TCATAT TCATAT TCATAT TCATAT TCATAT TC
1276540 GCCATCATCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.28, C:0.22, G:0.00, T:0.50
Consensus pattern (6 bp):
TCATAT
Found at i:1281834 original size:119 final size:119
Alignment explanation
Indices: 1281618--1282024 Score: 582
Period size: 119 Copynumber: 3.4 Consensus size: 119
1281608 ATTTCACATG
* * * * *
1281618 AATTTGTAAATCCCCCGGGTCATCTGTAAAACCTCAGGTTAGGATGTTTTTGCATGAAAATGAGA
1 AATTCGTAAAACCCCCAGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGA
*
1281683 TAGA-AATTTTCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAATCCTCCGGGT
66 TA-ACAATTTTAAAAGTTTCTCATTTAATGTTCTAGAAAATTAAATCCTCCGGGT
* *
1281737 AAGTCGTAAAACCCCCAGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCACATGAAAATGAGA
1 AATTCGTAAAACCCCCAGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGA
** * * *
1281802 TTTCTATTTTTAAAGTTTCTCATTTAATGTTCTAGAAAATTAAATCCTCCGAGT
66 TAACAATTTTAAAAGTTTCTCATTTAATGTTCTAGAAAATTAAATCCTCCGGGT
**** * *
1281856 AATTCGTAAAACCTTTGGGTTATCTGTAAAATCTCAGGGTAGGATGTTTTCGCATGAAAATGAGA
1 AATTCGTAAAACCCCCAGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGA
*
1281921 TAACGATTTTAAAAGTTTCTCATTTAATGTTCTAGAAAATTAAATCCTCCGGGT
66 TAACAATTTTAAAAGTTTCTCATTTAATGTTCTAGAAAATTAAATCCTCCGGGT
* * * *
1281975 AATTCGTAAAACCTCCAGGTCATCCGTAAAACCTCCGGGTAGGATTTTTT
1 AATTCGTAAAACCCCCAGGTCATCTGTAAAACCTCAGGGTAGGATGTTTT
1282025 ATTGTTGATT
Statistics
Matches: 254, Mismatches: 33, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
119 254 1.00
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (119 bp):
AATTCGTAAAACCCCCAGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGA
TAACAATTTTAAAAGTTTCTCATTTAATGTTCTAGAAAATTAAATCCTCCGGGT
Found at i:1281989 original size:20 final size:20
Alignment explanation
Indices: 1281961--1282015 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
1281951 TCTAGAAAAT
* *
1281961 TAAATCCTCCGGGTAATTCG
1 TAAAACCTCCGGGTAATCCG
* *
1281981 TAAAACCTCCAGGTCATCCG
1 TAAAACCTCCGGGTAATCCG
1282001 TAAAACCTCCGGGTA
1 TAAAACCTCCGGGTA
1282016 GGATTTTTTA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (20 bp):
TAAAACCTCCGGGTAATCCG
Found at i:1282153 original size:3 final size:3
Alignment explanation
Indices: 1282145--1282229 Score: 64
Period size: 3 Copynumber: 27.0 Consensus size: 3
1282135 CCGGTCTTAC
* * *
1282145 TTA TTA TTA TTA TTA TTA TATA TATA TATA TAA TTA CATA TTA -TA CTA
1 TTA TTA TTA TTA TTA TTA T-TA T-TA T-TA TTA TTA -TTA TTA TTA TTA
* * *
1282193 CTA CTA TTA TATA TTA TTA TTA ATA TTA TTA TTA TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA
1282230 AATAATATTA
Statistics
Matches: 71, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
2 2 0.03
3 53 0.75
4 16 0.23
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (3 bp):
TTA
Found at i:1292437 original size:81 final size:81
Alignment explanation
Indices: 1292336--1292708 Score: 394
Period size: 81 Copynumber: 4.6 Consensus size: 81
1292326 ATTTAGCCTC
* *
1292336 TCATCTAACTTGCATGATTGA-AAATTTTCTACCAAATGCACAACTAGGCCATTAATCTTTTACT
1 TCATCTAACTGGCATAATTGACAAATTTT-TACCAAATGCACAACTAGGCCATTAATCTTTTACT
* *
1292400 CAACGGTACTTAACTGT
65 CAACGATACTTAACTAT
* * ** * * * *
1292417 TCATCTAACTGGAAAAATTGACACCTTTTTGCAAAATGCACAGCTAGGCCATTAATCTTTTGCTC
1 TCATCTAACTGGCATAATTGACAAATTTTTACCAAATGCACAACTAGGCCATTAATCTTTTACTC
*
1292482 AACGGTACTTAA-TCAT
66 AACGATACTTAACT-AT
** * *
1292498 TCATCTAACTGGCATAATTGACACCTTTCATT--CAAATGCACAATTAGGCCATTAATATTTTAC
1 TCATCTAACTGGCATAATTGACAAATTT--TTACCAAATGCACAACTAGGCCATTAATCTTTTAC
* *
1292561 TCAACGACACTTTACTAT
64 TCAACGATACTTAACTAT
* * * *
1292579 TCATCTAACTAGCATAATTGACATATTTTTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTC
1 TCATCTAACTGGCATAATTGACAAATTTTTACCAAATGCACAACTAGGCCATTAATCTTTTACTC
**
1292644 AACGATACTTAACCGT
66 AACGATACTTAACTAT
* * ** * * *
1292660 TCATCTAACTTGCATAATTAACACCTTTCTGCCAAATGCACAATTAGGC
1 TCATCTAACTGGCATAATTGACAAATTTTTACCAAATGCACAACTAGGC
1292709 AAAGAAACTT
Statistics
Matches: 247, Mismatches: 38, Indels: 14
0.83 0.13 0.05
Matches are distributed among these distances:
79 2 0.01
80 1 0.00
81 236 0.96
82 6 0.02
83 2 0.01
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.33
Consensus pattern (81 bp):
TCATCTAACTGGCATAATTGACAAATTTTTACCAAATGCACAACTAGGCCATTAATCTTTTACTC
AACGATACTTAACTAT
Found at i:1292561 original size:162 final size:160
Alignment explanation
Indices: 1292336--1293002 Score: 611
Period size: 162 Copynumber: 4.3 Consensus size: 160
1292326 ATTTAGCCTC
* * * ** * * *
1292336 TCATCTAACTTGCATGATTGAAAATTTTCTACCAAATGCACAACTAGGCCATTAATCTTTTACTC
1 TCATCTAACTGGCATAATTGACACCTTTCT-TCAAATGCACAATTAGGCCATTAATATTTTACTC
* * ** * * *
1292401 AACGGTACTTAACTGTTCATCTAACTGGAAAAATTGACACCTTTTTGCAAAATGCACAGCTAGGC
65 AACGGTACTTAACTGTTCATCTAACTGGCATAATTGACATATTTCTGCCAAATGCACAACTAGGC
* * *
1292466 CATTAATCTTTTGCTCAACGGTACTTAATCAT
130 CATTAA-CTTTTACTCAACGGTACTTAACCGT
1292498 TCATCTAACTGGCATAATTGACACCTTTCATTCAAATGCACAATTAGGCCATTAATATTTTACTC
1 TCATCTAACTGGCATAATTGACACCTTTC-TTCAAATGCACAATTAGGCCATTAATATTTTACTC
** * * * * *
1292563 AACGACACTTTACTATTCATCTAACTAGCATAATTGACATATTTTTGCCAAATGCACAGCTAGGC
65 AACGGTACTTAACTGTTCATCTAACTGGCATAATTGACATATTTCTGCCAAATGCACAACTAGGC
*
1292628 CATTAATCTTTTACTCAACGATACTTAACCGT
130 CATTAA-CTTTTACTCAACGGTACTTAACCGT
* * * * *
1292660 TCATCTAACTTGCATAATTAACACCTTTCTGCCAAATGCACAATTAGG-CA--AAGA---AACT-
1 TCATCTAACTGGCATAATTGACACCTTTCT-TCAAATGCACAATTAGGCCATTAATATTTTACTC
* * *
1292718 TA--G--C----CT-TTCATCTAACTGGCATAATTGACATCA-TTCTGTCAAATGCACAATTAGG
65 AACGGTACTTAACTGTTCATCTAACTGGCATAATTGACAT-ATTTCTGCCAAATGCACAACTAGG
* *
1292773 -C-TT-A-----A---AA-GGCT-CTTAGCCTT
129 CCATTAACTTTTACTCAACGG-TACTTAACCGT
* * *
1292793 TCATCTAATTGGCATAATTGACACCTTTTTTCCAAATGCACAACTAGGCCATTAATATTTTACTC
1 TCATCTAACTGGCATAATTGACACCTTTCTT-CAAATGCACAATTAGGCCATTAATATTTTACTC
** *
1292858 AATTGTACTTAACTGTTCATCTAACTGGCATAATTGACATATTTCTGCCAAATGCACAACTAGTC
65 AACGGTACTTAACTGTTCATCTAACTGGCATAATTGACATATTTCTGCCAAATGCACAACTAGGC
* *
1292923 CATTCAACTTTTACTCAACAGTACTTAACTGT
130 CATT-AACTTTTACTCAACGGTACTTAACCGT
* * *
1292955 TCATCTAACTTGCATAATTGACACCTTTCTGCAAAATGCACAGTTAGG
1 TCATCTAACTGGCATAATTGACACCTTTCTTC-AAATGCACAATTAGG
1293003 TCTCAAAGGC
Statistics
Matches: 409, Mismatches: 59, Indels: 74
0.75 0.11 0.14
Matches are distributed among these distances:
133 49 0.12
134 5 0.01
136 3 0.01
137 1 0.00
139 3 0.01
140 1 0.00
142 1 0.00
143 1 0.00
144 3 0.01
145 1 0.00
146 42 0.10
147 3 0.01
148 3 0.01
149 44 0.11
150 1 0.00
151 3 0.01
153 1 0.00
155 1 0.00
156 3 0.01
158 1 0.00
159 3 0.01
161 7 0.02
162 228 0.56
163 1 0.00
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.33
Consensus pattern (160 bp):
TCATCTAACTGGCATAATTGACACCTTTCTTCAAATGCACAATTAGGCCATTAATATTTTACTCA
ACGGTACTTAACTGTTCATCTAACTGGCATAATTGACATATTTCTGCCAAATGCACAACTAGGCC
ATTAACTTTTACTCAACGGTACTTAACCGT
Found at i:1292755 original size:65 final size:66
Alignment explanation
Indices: 1292650--1293209 Score: 287
Period size: 68 Copynumber: 7.9 Consensus size: 66
1292640 ACTCAACGAT
* * * *
1292650 ACTTAACCGTTCATCTAACTTGCATAATTAACACCTTTCTGCCAAATGCACAATTAGGC-AAAGA
1 ACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAATTAGGCTAAAGA
1292714 A
66 A
* * *
1292715 ACTTAGCCTTTCATCTAACTGGCATAATTGACATCATTCTGTCAAATGCACAATTAGGCTTAAAA
1 ACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAATTAGGC-T-AAA
**
1292780 GGC
64 GAA
* * * * *
1292783 TCTTAGCCTTTCATCTAATTGGCATAATTGACACCTTTTTTCCAAATGCACAACTAGGCCATTAA
1 ACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAATTAGG-C--TAA
***
1292848 TATTTT
63 -A-GAA
* * ** *
1292854 ACTCAATTGTACTTAACTGTTCATCTAACTGGCATAATTGACATATTTCTGCCAAATGCACAACT
1 ACT---TAG-CCTT---T---CATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAATT
* ****
1292919 AGTCCATTCAACTTTT
56 AG-GC--T-AA-AGAA
* * * * *
1292935 ACTCAACAGTACTTAACTGTTCATCTAACTTGCATAATTGACACCTTTCTGCAAAATGCACAGTT
1 ACT---TAG-CCTT------TCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAATT
**
1293000 AGGTCTCAAAGGC
56 AGG-CT-AAAGAA
* * *
1293013 ACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGGACAGTTAGGCCTGAAA
1 ACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAATTAGG-CT-AAA
*
1293078 GGA
64 GAA
* * * ** *
1293081 ACTTATCCTTTAATCTAACTAGCATAA-TGCACAAATTTCTGTCAAATGCACAATTAGGCCTCAA
1 ACTTAGCCTTTCATCTAACTGGCATAATTG-ACACCTTTCTGCCAAATGCACAATTAGG-CT-AA
**
1293145 AGGC
63 AGAA
* * * * **
1293149 ACTTAGCCTTTCATCTAACTGACATAATTGACTCATTTTTTTCAAATGCACAATTAGGCTA
1 ACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAATTAGGCTA
1293210 TTAATCTTTT
Statistics
Matches: 397, Mismatches: 73, Indels: 49
0.76 0.14 0.09
Matches are distributed among these distances:
65 52 0.13
66 1 0.00
67 4 0.01
68 208 0.52
69 5 0.01
70 3 0.01
71 2 0.01
74 5 0.01
75 5 0.01
78 4 0.01
79 4 0.01
81 101 0.25
82 2 0.01
84 1 0.00
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.33
Consensus pattern (66 bp):
ACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAATTAGGCTAAAGA
A
Found at i:1292935 original size:81 final size:81
Alignment explanation
Indices: 1292792--1292996 Score: 295
Period size: 81 Copynumber: 2.5 Consensus size: 81
1292782 CTCTTAGCCT
* * *
1292792 TTCATCTAATTGGCATAATTGACACCTTTTTTCCAAATGCACAACTAGGCCATTAATATTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTAATATTTTACT
**
1292857 CAATTGTACTTAACTG
66 CAACAGTACTTAACTG
** * *
1292873 TTCATCTAACTGGCATAATTGACATATTTCTGCCAAATGCACAACTAGTCCATTCAA-CTTTTAC
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATT-AATATTTTAC
1292937 TCAACAGTACTTAACTG
65 TCAACAGTACTTAACTG
* *
1292954 TTCATCTAACTTGCATAATTGACACCTTTCTGCAAAATGCACA
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACA
1292997 GTTAGGTCTC
Statistics
Matches: 110, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
81 108 0.98
82 2 0.02
ACGTcount: A:0.32, C:0.23, G:0.10, T:0.35
Consensus pattern (81 bp):
TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTAATATTTTACT
CAACAGTACTTAACTG
Found at i:1293045 original size:68 final size:68
Alignment explanation
Indices: 1292954--1293207 Score: 323
Period size: 68 Copynumber: 3.7 Consensus size: 68
1292944 TACTTAACTG
* *
1292954 TTCATCTAACTTGCATAATTGACACCTTTCTG-CAAAATGCACAGTTAGGTCTCAAAGGCACTTA
1 TTCATCTAACTGGCATAATTGACACCTTTCTGTC-AAATGCACAGTTAGGCCTCAAAGGCACTTA
1293018 GCCT
65 GCCT
* * * *
1293022 TTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGGACAGTTAGGCCTGAAAGGAACTTAT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
1293087 CCT
66 CCT
* * ** *
1293090 TTAATCTAACTAGCATAA-TGCACAAATTTCTGTCAAATGCACAATTAGGCCTCAAAGGCACTTA
1 TTCATCTAACTGGCATAATTG-ACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTA
1293154 GCCT
65 GCCT
* * * * * *
1293158 TTCATCTAACTGACATAATTGACTCATTTTTTTCAAATGCACAATTAGGC
1 TTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGC
1293208 TATTAATCTT
Statistics
Matches: 161, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
67 2 0.01
68 156 0.97
69 3 0.02
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.31
Consensus pattern (68 bp):
TTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
CCT
Found at i:1293194 original size:136 final size:136
Alignment explanation
Indices: 1292957--1293207 Score: 362
Period size: 136 Copynumber: 1.8 Consensus size: 136
1292947 TTAACTGTTC
* ** * *
1292957 ATCTAACTTGCATAATTGACACCTTTCTGCAAAATGCACAGTTAGGTCTCAAAGGCACTTAGCCT
1 ATCTAACTAGCATAATTGACAAATTTCTGCAAAATGCACAATTAGGCCTCAAAGGCACTTAGCCT
* * * *
1293022 TTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGGACAGTTAGGCCTGAAAGGAACTTAT
66 TTCATCTAACTGACATAATTGACACATTTCTGTCAAATGCACAATTAGGCCTGAAAGGAACTTAT
1293087 CCTTTA
131 CCTTTA
1293093 ATCTAACTAGCATAA-TGCACAAATTTCTGTC-AAATGCACAATTAGGCCTCAAAGGCACTTAGC
1 ATCTAACTAGCATAATTG-ACAAATTTCTG-CAAAATGCACAATTAGGCCTCAAAGGCACTTAGC
* * *
1293156 CTTTCATCTAACTGACATAATTGACTCATTTTTTTCAAATGCACAATTAGGC
64 CTTTCATCTAACTGACATAATTGACACATTTCTGTCAAATGCACAATTAGGC
1293208 TATTAATCTT
Statistics
Matches: 101, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
135 2 0.02
136 98 0.97
137 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (136 bp):
ATCTAACTAGCATAATTGACAAATTTCTGCAAAATGCACAATTAGGCCTCAAAGGCACTTAGCCT
TTCATCTAACTGACATAATTGACACATTTCTGTCAAATGCACAATTAGGCCTGAAAGGAACTTAT
CCTTTA
Found at i:1293966 original size:19 final size:21
Alignment explanation
Indices: 1293923--1293976 Score: 76
Period size: 22 Copynumber: 2.6 Consensus size: 21
1293913 TACCCCCACC
1293923 ATGGTATCGATACTACTATACT
1 ATGGTATCGATACTACTATA-T
1293945 ATGGTATCGATACT-CTAT-T
1 ATGGTATCGATACTACTATAT
*
1293964 ATGGTACCGATAC
1 ATGGTATCGATAC
1293977 CATTTTGCAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
19 13 0.42
21 4 0.13
22 14 0.45
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.35
Consensus pattern (21 bp):
ATGGTATCGATACTACTATAT
Found at i:1298221 original size:21 final size:20
Alignment explanation
Indices: 1298184--1298227 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
1298174 ATTATTTTTA
** *
1298184 AAAAACATTTATTTTAACTT
1 AAAAACATTTAAATTAAATT
1298204 AAAAACATTTAAAATTAAATT
1 AAAAACATTT-AAATTAAATT
1298225 AAA
1 AAA
1298228 TTTTTATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (20 bp):
AAAAACATTTAAATTAAATT
Found at i:1320808 original size:81 final size:81
Alignment explanation
Indices: 1320668--1321404 Score: 1052
Period size: 81 Copynumber: 9.1 Consensus size: 81
1320658 ACTATTCCAA
* * *
1320668 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGATAGAAATGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
*
1320733 AGGTTAAATACCTTCG
66 AGGTTAAATACCTTTG
* * * *
1320749 AGTAGAAGATTAATGGCCTAGTTATGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATCAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
*
1320814 AGGTTAAATACCTTGG
66 AGGTTAAATACCTTTG
* * *
1320830 AGTAAAAGATTAATGGCCTAGCTGCGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAT
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
*
1320895 AGG-TCAATACCTTTG
66 AGGTTAAATACCTTTG
*
1320910 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
*
1320975 AGGTTAAATACCTTTA
66 AGGTTAAATACCTTTG
* * * * *
1320991 AGTAAAAGATTAATGACCTAGTTGTGCATTTGACATAAAGGTTTCAATTATGCTAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1321056 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
* *
1321072 AGTAAAAGATTAATGGCCTAGATGTGCATTTGACAGAAACGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
**
1321137 AGGTTAAATACAATTG
66 AGGTTAAATACCTTTG
* * *
1321153 AGTAAAATATTAATGGCCTAGCGGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
*
1321218 AGGTTAAATACATTTG
66 AGGTTAAATACCTTTG
*
1321234 AGTAAAAGATTAATGGCCTAGCTGTGTATTTGACAGAAAGGTGT-ATATTATGCCAGTTAGA-GA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCA-ATTATGCCAGTTAGATG-
1321297 AAAGGTTAAATACCTTTG
64 AAAGGTTAAATACCTTTG
* * * * * * * * *
1321315 AGTAAAAAATTAATAGCCTAGATGTTCATTTGGCGGAAAGGTGTCAATCATGCAAGTTATATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
*
1321380 AGGCTAAATGA-CTTTG
66 AGGTTAAAT-ACCTTTG
1321396 -GATAAAAGA
1 AG-TAAAAGA
1321405 CTAAAGGAAT
Statistics
Matches: 591, Mismatches: 58, Indels: 14
0.89 0.09 0.02
Matches are distributed among these distances:
80 77 0.13
81 511 0.86
82 3 0.01
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (81 bp):
AGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
AGGTTAAATACCTTTG
Found at i:1322668 original size:26 final size:26
Alignment explanation
Indices: 1322632--1322690 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
1322622 AGGGCACTAA
*
1322632 GTGTA-TATGGTGGGTACAACCTTAT
1 GTGTATTATGGTGGGCACAACCTTAT
* *
1322657 GTGTATTATGGTGTGCACGACCTTAT
1 GTGTATTATGGTGGGCACAACCTTAT
*
1322683 TTGTATTA
1 GTGTATTA
1322691 GCACTTTGGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 5 0.17
26 24 0.83
ACGTcount: A:0.22, C:0.12, G:0.25, T:0.41
Consensus pattern (26 bp):
GTGTATTATGGTGGGCACAACCTTAT
Found at i:1336338 original size:19 final size:20
Alignment explanation
Indices: 1336304--1336342 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
1336294 CTAGAAAATA
*
1336304 ATGTTAGAGTGTTGAAATTG
1 ATGTTAGAATGTTGAAATTG
1336324 ATGTTAGAATG-TGAAATTG
1 ATGTTAGAATGTTGAAATTG
1336343 GGCCATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.33, C:0.00, G:0.28, T:0.38
Consensus pattern (20 bp):
ATGTTAGAATGTTGAAATTG
Found at i:1339320 original size:54 final size:54
Alignment explanation
Indices: 1339240--1339491 Score: 317
Period size: 54 Copynumber: 4.7 Consensus size: 54
1339230 GAATTTATTA
*
1339240 TATGAACGACTGTATCGGCACTAAGTGTGCAACCCACGGAATTCATAATAAGTT
1 TATGAACGACCGTATCGGCACTAAGTGTGCAACCCACGGAATTCATAATAAGTT
* *
1339294 TATGAACGACCGTATCGGCACTAAGTGTGCAACCCATGGAATTCGTAATAAGTT
1 TATGAACGACCGTATCGGCACTAAGTGTGCAACCCACGGAATTCATAATAAGTT
* * * * * * * *
1339348 TTTGAA-AACTGTATCAGTATTAAGTGTCCAACCCACTGAATTCATAATAAGTT
1 TATGAACGACCGTATCGGCACTAAGTGTGCAACCCACGGAATTCATAATAAGTT
* *
1339401 TATGAACGACCGTATCGGCACTAAGTGTCCAACCCACAGAATTCATAATAAGGTT
1 TATGAACGACCGTATCGGCACTAAGTGTGCAACCCACGGAATTCATAATAA-GTT
* ** * * *
1339456 TTTGAATAATCGTATCGGCACTACGTGTGCACCCCA
1 TATGAACGACCGTATCGGCACTAAGTGTGCAACCCA
1339492 TGAAACTTAT
Statistics
Matches: 169, Mismatches: 27, Indels: 3
0.85 0.14 0.02
Matches are distributed among these distances:
53 43 0.25
54 94 0.56
55 32 0.19
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (54 bp):
TATGAACGACCGTATCGGCACTAAGTGTGCAACCCACGGAATTCATAATAAGTT
Found at i:1339434 original size:107 final size:108
Alignment explanation
Indices: 1339261--1339461 Score: 341
Period size: 107 Copynumber: 1.9 Consensus size: 108
1339251 GTATCGGCAC
* *
1339261 TAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACCGTATCGGCACTAAGTGTGCAA
1 TAAGTGTCCAACCCACGGAATTCATAATAAGTTTATGAACGACCGTATCGGCACTAAGTGTCCAA
** *
1339326 CCCATGGAATTCGTAATAA-GTTTTTGAAAACTGTATCAGTAT
66 CCCACAGAATTCATAATAAGGTTTTTGAAAACTGTATCAGTAT
*
1339368 TAAGTGTCCAACCCACTGAATTCATAATAAGTTTATGAACGACCGTATCGGCACTAAGTGTCCAA
1 TAAGTGTCCAACCCACGGAATTCATAATAAGTTTATGAACGACCGTATCGGCACTAAGTGTCCAA
1339433 CCCACAGAATTCATAATAAGGTTTTTGAA
66 CCCACAGAATTCATAATAAGGTTTTTGAA
1339462 TAATCGTATC
Statistics
Matches: 87, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
107 78 0.90
108 9 0.10
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.28
Consensus pattern (108 bp):
TAAGTGTCCAACCCACGGAATTCATAATAAGTTTATGAACGACCGTATCGGCACTAAGTGTCCAA
CCCACAGAATTCATAATAAGGTTTTTGAAAACTGTATCAGTAT
Found at i:1345935 original size:54 final size:54
Alignment explanation
Indices: 1345869--1346165 Score: 355
Period size: 54 Copynumber: 5.5 Consensus size: 54
1345859 TGAGAGTTAT
*
1345869 AACCCACGGAATTCATAATAAGTTTATGAACGACCGTATCGGCACAAAGAGTGT
1 AACCCACGGAATTCATAATAAGTTTATGAACGACCGTATCGGCACAAAGAGTGC
** * *
1345923 AACTTATGGAATTCATAATAAATTTATGAACGACCGTATCGGCACAAAGTA-TGC
1 AACCCACGGAATTCATAATAAGTTTATGAACGACCGTATCGGCACAAAG-AGTGC
* * *
1345977 AACCCACGGAATTCATAATAAGTTTATGAACGACCGTATCGACACTAAGTGTGC
1 AACCCACGGAATTCATAATAAGTTTATGAACGACCGTATCGGCACAAAGAGTGC
** *** * * ** *
1346031 AACCCATTGAATTCATAATAAGCCAATGAACAACCGTATCGACATTAAGTGTGC
1 AACCCACGGAATTCATAATAAGTTTATGAACGACCGTATCGGCACAAAGAGTGC
* * * *
1346085 AACCCACGGAATTCATAATAAGTTTATGAACTACCATATCGGGACTAAG-GTGC
1 AACCCACGGAATTCATAATAAGTTTATGAACGACCGTATCGGCACAAAGAGTGC
*
1346138 AACCCACAGAATTCATAATAAGGTTTAT
1 AACCCACGGAATTCATAATAA-GTTTAT
1346166 AAATAATTAA
Statistics
Matches: 210, Mismatches: 30, Indels: 6
0.85 0.12 0.02
Matches are distributed among these distances:
53 24 0.11
54 185 0.88
55 1 0.00
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (54 bp):
AACCCACGGAATTCATAATAAGTTTATGAACGACCGTATCGGCACAAAGAGTGC
Found at i:1354730 original size:23 final size:23
Alignment explanation
Indices: 1354703--1354746 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
1354693 AAATTAAAAT
*
1354703 AATAATAAAATTGATTTAAATCA
1 AATAATAAAATTAATTTAAATCA
* *
1354726 AATAATATAGTTAATTTAAAT
1 AATAATAAAATTAATTTAAAT
1354747 AATAATTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.39
Consensus pattern (23 bp):
AATAATAAAATTAATTTAAATCA
Found at i:1356288 original size:21 final size:20
Alignment explanation
Indices: 1356237--1356285 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 20
1356227 AATGTATGAT
1356237 TTAACTTAAACTAACAATAA
1 TTAACTTAAACTAACAATAA
1356257 TATAACTTAAACTAACAAACTAA
1 T-TAACTTAAACTAAC-AA-TAA
1356280 TTAACT
1 TTAACT
1356286 AAATTTTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 1 0.04
21 14 0.54
22 7 0.27
23 4 0.15
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (20 bp):
TTAACTTAAACTAACAATAA
Found at i:1356569 original size:24 final size:23
Alignment explanation
Indices: 1356541--1356589 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
1356531 GCAATAATTA
*
1356541 CTGCATTAAGCAGCGAAAATGATG
1 CTGCATGAAGCAGCG-AAATGATG
* *
1356565 CTGCATGAAGCGGTGAAATGATG
1 CTGCATGAAGCAGCGAAATGATG
1356588 CT
1 CT
1356590 ACAATAATGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 10 0.45
24 12 0.55
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.22
Consensus pattern (23 bp):
CTGCATGAAGCAGCGAAATGATG
Found at i:1358127 original size:17 final size:17
Alignment explanation
Indices: 1358088--1358132 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
1358078 TAAAATATAC
*
1358088 AATTTTTTAATTATTAT
1 AATTTTTTATTTATTAT
*
1358105 ATATTTTTTATTTTTTAT
1 A-ATTTTTTATTTATTAT
*
1358123 AATTTCTTAT
1 AATTTTTTAT
1358133 AGGGTTTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (17 bp):
AATTTTTTATTTATTAT
Found at i:1369399 original size:21 final size:23
Alignment explanation
Indices: 1369373--1369415 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
1369363 TTCGATATAA
1369373 CAAATGAATTT-TAAG-ATTTTG
1 CAAATGAATTTCTAAGTATTTTG
*
1369394 CAAATGATTTTCTAAGTATTTT
1 CAAATGAATTTCTAAGTATTTT
1369416 CGATATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
22 4 0.21
23 5 0.26
ACGTcount: A:0.35, C:0.07, G:0.12, T:0.47
Consensus pattern (23 bp):
CAAATGAATTTCTAAGTATTTTG
Found at i:1369658 original size:21 final size:20
Alignment explanation
Indices: 1369604--1369699 Score: 129
Period size: 20 Copynumber: 4.8 Consensus size: 20
1369594 TTGCCCAAGA
*
1369604 GGTACAGATTCCCTCCAGGG
1 GGTACAGATTCCCCCCAGGG
*
1369624 GGAACAGATTCCCCCCAGGG
1 GGTACAGATTCCCCCCAGGG
*
1369644 GGTACCGATTCCCCCCCAGGG
1 GGTACAGATT-CCCCCCAGGG
* *
1369665 GGAACAAATTCCCCCCAGGG
1 GGTACAGATTCCCCCCAGGG
*
1369685 GGTACTGATTCCCCC
1 GGTACAGATTCCCCC
1369700 TGTCTAACGG
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
20 48 0.74
21 17 0.26
ACGTcount: A:0.21, C:0.36, G:0.27, T:0.16
Consensus pattern (20 bp):
GGTACAGATTCCCCCCAGGG
Found at i:1369670 original size:41 final size:41
Alignment explanation
Indices: 1369604--1369699 Score: 149
Period size: 41 Copynumber: 2.4 Consensus size: 41
1369594 TTGCCCAAGA
* *
1369604 GGTACAGATT-CCCTCCAGGGGGAACAGATTCCCCCCAGGG
1 GGTACAGATTCCCCCCCAGGGGGAACAAATTCCCCCCAGGG
*
1369644 GGTACCGATTCCCCCCCAGGGGGAACAAATTCCCCCCAGGG
1 GGTACAGATTCCCCCCCAGGGGGAACAAATTCCCCCCAGGG
*
1369685 GGTACTGATTCCCCC
1 GGTACAGATTCCCCC
1369700 TGTCTAACGG
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
40 9 0.18
41 42 0.82
ACGTcount: A:0.21, C:0.36, G:0.27, T:0.16
Consensus pattern (41 bp):
GGTACAGATTCCCCCCCAGGGGGAACAAATTCCCCCCAGGG
Found at i:1371018 original size:20 final size:19
Alignment explanation
Indices: 1370977--1371023 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
1370967 AACGATTTTC
*
1370977 TTTTGAAAACAAAAATAGA
1 TTTTGAAAACAAAAATAAA
* *
1370996 TTTTGAAACCCAAAATGAAA
1 TTTTGAAAACAAAAAT-AAA
1371016 TTTT-AAAA
1 TTTTGAAAA
1371024 AATGATTTAG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.53, C:0.09, G:0.09, T:0.30
Consensus pattern (19 bp):
TTTTGAAAACAAAAATAAA
Found at i:1372402 original size:18 final size:19
Alignment explanation
Indices: 1372386--1372426 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
1372376 AATCAGATTG
1372386 CCCAAGAGGTACAGATTCC
1 CCCAAGAGGTACAGATTCC
* *
1372405 CCCCAGGGGTACAGATTCC
1 CCCAAGAGGTACAGATTCC
1372424 CCC
1 CCC
1372427 CAGGGGGTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.24, C:0.39, G:0.22, T:0.15
Consensus pattern (19 bp):
CCCAAGAGGTACAGATTCC
Found at i:1372426 original size:20 final size:20
Alignment explanation
Indices: 1372393--1372446 Score: 85
Period size: 19 Copynumber: 2.8 Consensus size: 20
1372383 TTGCCCAAGA
1372393 GGTACAGATTCCCCCCA-GG
1 GGTACAGATTCCCCCCAGGG
1372412 GGTACAGATTCCCCCCAGGG
1 GGTACAGATTCCCCCCAGGG
1372432 GGTAGC-GATTCCCCC
1 GGTA-CAGATTCCCCC
1372447 TATCTAATGG
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
19 17 0.52
20 15 0.45
21 1 0.03
ACGTcount: A:0.19, C:0.37, G:0.28, T:0.17
Consensus pattern (20 bp):
GGTACAGATTCCCCCCAGGG
Found at i:1377047 original size:30 final size:29
Alignment explanation
Indices: 1377007--1377369 Score: 240
Period size: 30 Copynumber: 12.3 Consensus size: 29
1376997 CATTTCAGTA
* *
1377007 TTAAAAATATATTTTATTTTTATATTAAC
1 TTAAAAATATATTTTATTCTTATCTTAAC
* **
1377036 TTATTAAATATATTTTATTCTTGCCTTAA-
1 TTA-AAAATATATTTTATTCTTATCTTAAC
*
1377065 TCTAAAAATATATTTTATTCTTATTTTAAC
1 T-TAAAAATATATTTTATTCTTATCTTAAC
* *
1377095 TTAAAAGATATATTTTAATCTTTATCTTAAG
1 TTAAAA-ATATATTTTATTC-TTATCTTAAC
*
1377126 TTAAAAAAATATTTTATTCTTATCTTAAC
1 TTAAAAATATATTTTATTCTTATCTTAAC
* * * * * * * *
1377155 ATATTACATAAATTGTATACTTAACTTAAA
1 TTA-AAAATATATTTTATTCTTATCTTAAC
* * * *
1377185 TTATTAAATATATTCTATTCTCA-CATTAAAT
1 TTA-AAAATATATTTTATTCTTATC-TT-AAC
* * *
1377216 TATAAAAATATAATTAATTCTTATTTTAAC
1 T-TAAAAATATATTTTATTCTTATCTTAAC
* * *
1377246 TTAAAACATATCTTCTATTTTTATCTTAAC
1 TTAAAA-ATATATTTTATTCTTATCTTAAC
*
1377276 TTAAAACATAT-TTTTATT-TTAAC-T-AC
1 TTAAAA-ATATATTTTATTCTTATCTTAAC
* *
1377302 --AAAAATATATTTTATTTTTATCTAAAC
1 TTAAAAATATATTTTATTCTTATCTTAAC
* * *
1377329 TACAAAAATATATTATATT-TATATCTTAAAT
1 T-TAAAAATATATTTTATTCT-TATCTT-AAC
1377360 TTAAAAATAT
1 TTAAAAATAT
1377370 TATCATAATA
Statistics
Matches: 262, Mismatches: 52, Indels: 39
0.74 0.15 0.11
Matches are distributed among these distances:
23 4 0.02
24 11 0.04
25 4 0.02
26 2 0.01
27 3 0.01
28 4 0.02
29 54 0.21
30 142 0.54
31 36 0.14
32 2 0.01
ACGTcount: A:0.41, C:0.09, G:0.01, T:0.49
Consensus pattern (29 bp):
TTAAAAATATATTTTATTCTTATCTTAAC
Found at i:1377080 original size:59 final size:61
Alignment explanation
Indices: 1377007--1377160 Score: 190
Period size: 59 Copynumber: 2.6 Consensus size: 61
1376997 CATTTCAGTA
* * *
1377007 TTAAAAATATATTTTATTTTTATATTAACTTATTAA-ATATATTTTATTC-TTGCCTTAA-
1 TTAAAAATATATTTTATTCTTATATTAACTTATTAAGATATATTTTAATCTTTACCTTAAG
* * *
1377065 TCTAAAAATATATTTTATTCTTATTTTAACTTA-AAAGATATATTTTAATCTTTATCTTAAG
1 T-TAAAAATATATTTTATTCTTATATTAACTTATTAAGATATATTTTAATCTTTACCTTAAG
* * *
1377126 TTAAAAAAATATTTTATTCTTATCTTAACATATTA
1 TTAAAAATATATTTTATTCTTATATTAACTTATTA
1377161 CATAAATTGT
Statistics
Matches: 81, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
58 3 0.04
59 41 0.51
60 35 0.43
61 2 0.02
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.52
Consensus pattern (61 bp):
TTAAAAATATATTTTATTCTTATATTAACTTATTAAGATATATTTTAATCTTTACCTTAAG
Found at i:1377305 original size:24 final size:22
Alignment explanation
Indices: 1377261--1377319 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 22
1377251 ACATATCTTC
* *
1377261 TATTTTTATCTTAACTTAAAACA
1 TATTTTTATTTTAACTCAAAA-A
1377284 TATTTTTATTTTAACTACAAAAA
1 TATTTTTATTTTAACT-CAAAAA
1377307 TATATTTTATTTT
1 TAT-TTTTATTTT
1377320 TATCTAAACT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
23 19 0.59
24 13 0.41
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.54
Consensus pattern (22 bp):
TATTTTTATTTTAACTCAAAAA
Found at i:1377530 original size:25 final size:23
Alignment explanation
Indices: 1377502--1377565 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 23
1377492 CGAAAAGAAT
1377502 AAAATATATTTAATAAGTTAAGATA
1 AAAATATATTTAAT-A-TTAAGATA
* *
1377527 AAAATATTTTTAATATTAAGATG
1 AAAATATATTTAATATTAAGATA
*
1377550 TAAAT-TAATTTAATAT
1 AAAATAT-ATTTAATAT
1377566 GTGAATTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
22 1 0.03
23 19 0.56
24 1 0.03
25 13 0.38
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (23 bp):
AAAATATATTTAATATTAAGATA
Found at i:1377554 original size:23 final size:25
Alignment explanation
Indices: 1377502--1377548 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
1377492 CGAAAAGAAT
1377502 AAAATATATTTAATAAGTTAAGATA
1 AAAATATATTTAATAAGTTAAGATA
*
1377527 AAAATATTTTTAAT-A-TTAAGAT
1 AAAATATATTTAATAAGTTAAGAT
1377549 GTAAATTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 7 0.33
24 1 0.05
25 13 0.62
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.40
Consensus pattern (25 bp):
AAAATATATTTAATAAGTTAAGATA
Found at i:1377575 original size:18 final size:17
Alignment explanation
Indices: 1377535--1377583 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
1377525 TAAAAATATT
1377535 TTTAATATTAAGATGTAA
1 TTTAAT-TTAAGATGTAA
* *
1377553 ATTAATTTAATATGTGAA
1 TTTAATTTAAGATGT-AA
*
1377571 TTTAAGTTAAGAT
1 TTTAATTTAAGAT
1377584 ATATACAATA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
17 8 0.32
18 17 0.68
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.45
Consensus pattern (17 bp):
TTTAATTTAAGATGTAA
Found at i:1385539 original size:22 final size:23
Alignment explanation
Indices: 1385511--1385558 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
1385501 AGAATCGATA
1385511 CCCCC-TTGAAGGGGAACCAATT
1 CCCCCTTTGAAGGGGAACCAATT
* * *
1385533 CCCCCTTTGAATGGGAATCGATT
1 CCCCCTTTGAAGGGGAACCAATT
1385556 CCC
1 CCC
1385559 TCCCATAGGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 5 0.23
23 17 0.77
ACGTcount: A:0.23, C:0.33, G:0.21, T:0.23
Consensus pattern (23 bp):
CCCCCTTTGAAGGGGAACCAATT
Found at i:1387814 original size:20 final size:21
Alignment explanation
Indices: 1387789--1387841 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
1387779 CTCGGAGGGA
1387789 ACCGATTCCCCCCAA-GGGGT
1 ACCGATTCCCCCCAAGGGGGT
1387809 ACCGATTCCCCCCAAGGGGGT
1 ACCGATTCCCCCCAAGGGGGT
1387830 ACCGATTCCCCC
1 ACCGATTCCCCC
1387842 TGATCAGTGG
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 15 0.47
21 17 0.53
ACGTcount: A:0.19, C:0.43, G:0.23, T:0.15
Consensus pattern (21 bp):
ACCGATTCCCCCCAAGGGGGT
Found at i:1397236 original size:68 final size:70
Alignment explanation
Indices: 1397124--1397254 Score: 203
Period size: 68 Copynumber: 1.9 Consensus size: 70
1397114 AGAAGATGAT
* * * *
1397124 CCGGAGGAAGTAGAACAACAAGAATAAGAAGACCCGGGGGAAGTAGAAGAAGAAGAAGAAGAAGA
1 CCGGAGGAAGTA-AACAACAAGAAGAAGAAGACCCGGAGGAAGTAGAACAAGAAGAAAAAGAAGA
1397189 ACAAGA
65 ACAAGA
1397195 CCGGAGGAAGT-AA-AACAAGAAGAAGAAGACCCGGAGGAAGTAGAACAAGAAGAAAAAGAA
1 CCGGAGGAAGTAAACAACAAGAAGAAGAAGACCCGGAGGAAGTAGAACAAGAAGAAAAAGAA
1397255 TTGGAGAAAG
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
68 43 0.77
69 2 0.04
71 11 0.20
ACGTcount: A:0.53, C:0.11, G:0.31, T:0.04
Consensus pattern (70 bp):
CCGGAGGAAGTAAACAACAAGAAGAAGAAGACCCGGAGGAAGTAGAACAAGAAGAAAAAGAAGAA
CAAGA
Found at i:1401377 original size:14 final size:14
Alignment explanation
Indices: 1401360--1401400 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
1401350 AATACTAATT
1401360 TAAAAATATTAAAA
1 TAAAAATATTAAAA
*
1401374 TAAAATTATTAAAA
1 TAAAAATATTAAAA
*
1401388 TAATAA-ATTAAAA
1 TAAAAATATTAAAA
1401401 ATATTGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
13 7 0.29
14 17 0.71
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
TAAAAATATTAAAA
Found at i:1401378 original size:13 final size:13
Alignment explanation
Indices: 1401362--1401400 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
1401352 TACTAATTTA
1401362 AAAATATTAAAAT
1 AAAATATTAAAAT
1401375 AAAATTATTAAAAT
1 AAAA-TATTAAAAT
1401389 AATAA-ATTAAAA
1 AA-AATATTAAAA
1401401 ATATTGAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 11 0.46
14 11 0.46
15 2 0.08
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAATATTAAAAT
Found at i:1401387 original size:22 final size:22
Alignment explanation
Indices: 1401362--1401410 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1401352 TACTAATTTA
* *
1401362 AAAATATTAAAATAAAATTATT
1 AAAATAATAAAATAAAAATATT
*
1401384 AAAATAATAAATTAAAAATATT
1 AAAATAATAAAATAAAAATATT
*
1401406 GAAAT
1 AAAAT
1401411 TAAAGGGGTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATAATAAAATAAAAATATT
Found at i:1402656 original size:3 final size:3
Alignment explanation
Indices: 1402648--1402727 Score: 108
Period size: 3 Copynumber: 27.0 Consensus size: 3
1402638 TTCTGGCCTG
* * *
1402648 TAA TAA TAA TAA TAA TAA TAA CAA TAA TAA TAT TCA TAA -AA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
1402695 TAA TAT TAA TAA AAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1402728 ATGGGAATGA
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
2 2 0.03
3 64 0.97
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1403207 original size:90 final size:89
Alignment explanation
Indices: 1403046--1403225 Score: 288
Period size: 90 Copynumber: 2.0 Consensus size: 89
1403036 TCAAGTGAGA
* * *
1403046 TAAAATTTATTTGAAAACATCTTGCACTAAAGGTCTTATGGATGACCCGTAGGACTTACAAATCA
1 TAAAATTCATTTGAAAACATCCTGCACTAAAGGTCTTATCGATGACCCGTAGGACTTACAAATCA
* *
1403111 AGAAACCCCCGAAGGCTTGGTTTC
66 AGAAACCCCCAAAGGCTTAGTTTC
* *
1403135 TAAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATCGATGGCCCGTAGGACTTACAAATC
1 TAAAAT-TCATTTGAAAACATCCTGCACTAAAGGTCTTATCGATGACCCGTAGGACTTACAAATC
1403200 AAGAAACCCCCAAAGGCTTAGTTTC
65 AAGAAACCCCCAAAGGCTTAGTTTC
1403225 T
1 T
1403226 TAGTTGTTAA
Statistics
Matches: 83, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
89 6 0.07
90 77 0.93
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.27
Consensus pattern (89 bp):
TAAAATTCATTTGAAAACATCCTGCACTAAAGGTCTTATCGATGACCCGTAGGACTTACAAATCA
AGAAACCCCCAAAGGCTTAGTTTC
Found at i:1403405 original size:176 final size:177
Alignment explanation
Indices: 1403110--1403550 Score: 706
Period size: 176 Copynumber: 2.5 Consensus size: 177
1403100 CTTACAAATC
* * *
1403110 AAGAAACCCCCGAAGGCTTGGTTTCTAAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTAT
1 AAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATTTAAAAACATCCTGCACTAAAGGTCTTAT
* * *
1403175 CGATGGCCCGTAGGACTTACAAATCAAGAAACCCCCAAAGGCTTAGTTTCTTAGTTGTTAAGGAA
66 GGATGGCCCGAAGGACTTACAAATCAAGAAACCCCCAAAGGCTTAGTTTCTTAGTTGTTAAAGAA
*
1403240 CCCCTTTGTTAGGCTTAGATTCCTTTAACAACTCTTTTGAGATAATT
131 CCCATTTGTTAGGCTTAGATTCCTTTAACAACTCTTTTGAGATAATT
* *
1403287 AAGAAACCCCCGAAGGCTTAGTTTCTAAAATCCCATTTAAAAACAT-TTGCACTAAAGGTCTTAT
1 AAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATTTAAAAACATCCTGCACTAAAGGTCTTAT
* *
1403351 GGATGGCCCGAAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTTAGTTTTTAAAGAA
66 GGATGGCCCGAAGGACTTACAAATCAAGAAACCCCCAAAGGCTTAGTTTCTTAGTTGTTAAAGAA
* *
1403416 CCCATTTGTTAGGCTTAGCTTCCTTTAATAACTCTTTTGAGATAATT
131 CCCATTTGTTAGGCTTAGATTCCTTTAACAACTCTTTTGAGATAATT
* * * *
1403463 AGGAAACCCCCGAAGGATTAGTTTCTAAAATATTATTTAAAAACATCCTGCACTAAAGGTCTTAT
1 AAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATTTAAAAACATCCTGCACTAAAGGTCTTAT
*
1403528 GGATGG-ACGAAGGACTTACAAAT
66 GGATGGCCCGAAGGACTTACAAAT
1403551 TTGGTAAATA
Statistics
Matches: 243, Mismatches: 20, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
176 177 0.73
177 66 0.27
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (177 bp):
AAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATTTAAAAACATCCTGCACTAAAGGTCTTAT
GGATGGCCCGAAGGACTTACAAATCAAGAAACCCCCAAAGGCTTAGTTTCTTAGTTGTTAAAGAA
CCCATTTGTTAGGCTTAGATTCCTTTAACAACTCTTTTGAGATAATT
Found at i:1405252 original size:50 final size:51
Alignment explanation
Indices: 1405055--1405301 Score: 327
Period size: 51 Copynumber: 4.9 Consensus size: 51
1405045 AAATAACCCA
* *
1405055 ATCTTTTCATGCTGGTGTGAACCTTCAAGATGCCCCACATGGATTACTTCT
1 ATCTTTTCATGCTGATGTGAGCCTTCAAGATGCCCCACATGGATTACTTCT
* * *
1405106 GTCTTTTTCATGCTGATGTGAGCCTTTAAGATGCCCCACATGGATTACTTAT
1 ATC-TTTTCATGCTGATGTGAGCCTTCAAGATGCCCCACATGGATTACTTCT
** * * * *
1405158 GCCTTTTTATACTAATGTGAACCTTCAAGATGCCCCACATGGATTACTT-T
1 ATCTTTTCATGCTGATGTGAGCCTTCAAGATGCCCCACATGGATTACTTCT
* * * *
1405208 ATCTTTGCATGTTGATATGAGCCTTCAAGATGCCCTACATGGATTACTTCT
1 ATCTTTTCATGCTGATGTGAGCCTTCAAGATGCCCCACATGGATTACTTCT
*
1405259 ATCTTTTCATGCTGATGTGAGCCTTCAAGAT-ACCCACATGGAT
1 ATCTTTTCATGCTGATGTGAGCCTTCAAGATGCCCCACATGGAT
1405302 AATATGGACC
Statistics
Matches: 168, Mismatches: 26, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
50 50 0.30
51 72 0.43
52 46 0.27
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.36
Consensus pattern (51 bp):
ATCTTTTCATGCTGATGTGAGCCTTCAAGATGCCCCACATGGATTACTTCT
Found at i:1405277 original size:101 final size:103
Alignment explanation
Indices: 1405055--1405301 Score: 338
Period size: 101 Copynumber: 2.4 Consensus size: 103
1405045 AAATAACCCA
* * *
1405055 ATCTTTTCATGCTGGTGTGAACCTTCAAGATGCCCCACATGGATTACTTCTGTCTTTTTCATGCT
1 ATCTTTTCATGCTGATGTGAACCTTCAAGATGCCCCACATGGATTACTTCTATCTTTTGCATGCT
* *
1405120 GATGTGAGCCTTTAAGATGCCCCACATGGATTACTTAT
66 GATATGAGCCTTCAAGATGCCCCACATGGATTACTTAT
** * * * *
1405158 GCCTTTTTATACTAATGTGAACCTTCAAGATGCCCCACATGGATTACTT-TATC-TTTGCATGTT
1 ATCTTTTCATGCTGATGTGAACCTTCAAGATGCCCCACATGGATTACTTCTATCTTTTGCATGCT
* *
1405221 GATATGAGCCTTCAAGATGCCCTACATGGATTACTTCT
66 GATATGAGCCTTCAAGATGCCCCACATGGATTACTTAT
* *
1405259 ATCTTTTCATGCTGATGTGAGCCTTCAAGAT-ACCCACATGGAT
1 ATCTTTTCATGCTGATGTGAACCTTCAAGATGCCCCACATGGAT
1405302 AATATGGACC
Statistics
Matches: 124, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
100 11 0.09
101 67 0.54
102 3 0.02
103 43 0.35
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.36
Consensus pattern (103 bp):
ATCTTTTCATGCTGATGTGAACCTTCAAGATGCCCCACATGGATTACTTCTATCTTTTGCATGCT
GATATGAGCCTTCAAGATGCCCCACATGGATTACTTAT
Found at i:1406795 original size:10 final size:10
Alignment explanation
Indices: 1406770--1406810 Score: 64
Period size: 10 Copynumber: 3.9 Consensus size: 10
1406760 TTTGATTCAA
1406770 TTTCTTTTTTC
1 TTTC-TTTTTC
1406781 TTTTCTTTTTC
1 -TTTCTTTTTC
1406792 TTTCTTTTTC
1 TTTCTTTTTC
1406802 TTTCTTTTT
1 TTTCTTTTT
1406811 TCGTTTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
10 19 0.66
11 6 0.21
12 4 0.14
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (10 bp):
TTTCTTTTTC
Found at i:1406811 original size:21 final size:22
Alignment explanation
Indices: 1406770--1406822 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
1406760 TTTGATTCAA
1406770 TTTCTTTTTTCTTTTCTTTTTC-
1 TTTC-TTTTTCTTTTCTTTTTCG
1406792 TTTCTTTTTC-TTTCTTTTTTCG
1 TTTCTTTTTCTTTTC-TTTTTCG
1406814 TTT-TTTTTC
1 TTTCTTTTTC
1406823 CTTTATGATG
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.14
21 18 0.62
22 7 0.24
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (22 bp):
TTTCTTTTTCTTTTCTTTTTCG
Found at i:1406819 original size:10 final size:10
Alignment explanation
Indices: 1406774--1406822 Score: 62
Period size: 10 Copynumber: 4.7 Consensus size: 10
1406764 ATTCAATTTC
1406774 TTTTTTCTTT
1 TTTTTTCTTT
1406784 TCTTTTTCTTT
1 T-TTTTTCTTT
*
1406795 CTTTTTCTTT
1 TTTTTTCTTT
*
1406805 CTTTTTTCGTT
1 -TTTTTTCTTT
1406816 TTTTTTC
1 TTTTTTC
1406823 CTTTATGATG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
10 17 0.50
11 17 0.50
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:1409877 original size:21 final size:21
Alignment explanation
Indices: 1409852--1409891 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1409842 TAATTATGCG
1409852 AAGATGAAAATGCAAAATACA
1 AAGATGAAAATGCAAAATACA
* *
1409873 AAGATGAGAATGTAAAATA
1 AAGATGAAAATGCAAAATA
1409892 AAAATGTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.60, C:0.05, G:0.17, T:0.17
Consensus pattern (21 bp):
AAGATGAAAATGCAAAATACA
Found at i:1413564 original size:14 final size:14
Alignment explanation
Indices: 1413540--1413575 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
1413530 AGGAAAATAC
*
1413540 TAAATTAAAATTAT
1 TAAAATAAAATTAT
*
1413554 TGAAATAAAATTAT
1 TAAAATAAAATTAT
1413568 TAAAATAA
1 TAAAATAA
1413576 TAAATTAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (14 bp):
TAAAATAAAATTAT
Found at i:1413802 original size:2 final size:2
Alignment explanation
Indices: 1413795--1413824 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1413785 TTTACATTAA
1413795 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1413825 TTAGTGATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1414910 original size:3 final size:3
Alignment explanation
Indices: 1414902--1414996 Score: 113
Period size: 3 Copynumber: 32.3 Consensus size: 3
1414892 TTTTGGCCTG
* * *
1414902 TAA TAA TAA TAA TAT TAT TAA TAA TAA TAA TAT TAA TAA -AA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
1414949 TAT TGA TAA -AA TAA TAA TAA TAT TAA TAA CAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1414996 T
1 T
1414997 GGGAATGAGA
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
2 4 0.05
3 74 0.95
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:1422474 original size:64 final size:63
Alignment explanation
Indices: 1422405--1422563 Score: 230
Period size: 64 Copynumber: 2.5 Consensus size: 63
1422395 TGCACTAAGA
* * *
1422405 GTGCATCGATGCATGAAGTGCATTCGATGTTTCA-AACAAGCCCGAGTGCATCGATGCATGGTCT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTCATAA-AA-CCCGAGTGCATCGATGCATGGTAT
* * *
1422469 GTGCATTGATGCATAAAATGCATTCGATGTTTTCATAAAACCTGAGTGCATCGATGTATGGTAT
1 GTGCATCGATGCATAAAATGCATTCGATG-TTTCATAAAACCCGAGTGCATCGATGCATGGTAT
1422533 GTGCATCGATGCATAAAATGCATTCGATGTT
1 GTGCATCGATGCATAAAATGCATTCGATGTT
1422564 CAATTTATTC
Statistics
Matches: 86, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
63 2 0.02
64 75 0.87
65 7 0.08
66 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.31
Consensus pattern (63 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTCATAAAACCCGAGTGCATCGATGCATGGTAT
Found at i:1423267 original size:21 final size:22
Alignment explanation
Indices: 1423241--1423288 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
1423231 AATATAAATC
* *
1423241 CAAACAAATTCAAAC-ATCCAA
1 CAAACAAAGTAAAACAATCCAA
1423262 CAAACAAAGTAAAACAATCCAA
1 CAAACAAAGTAAAACAATCCAA
1423284 -AAACA
1 CAAACA
1423289 TTCAAAATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 18 0.75
22 6 0.25
ACGTcount: A:0.62, C:0.25, G:0.02, T:0.10
Consensus pattern (22 bp):
CAAACAAAGTAAAACAATCCAA
Found at i:1424753 original size:21 final size:20
Alignment explanation
Indices: 1424725--1424767 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
1424715 CTGTTGCACA
*
1424725 GGGGGGAATTGGTACCCCCT
1 GGGGGGAATCGGTACCCCCT
*
1424745 GGGGCGGAATCGGTACCCTCT
1 GGGG-GGAATCGGTACCCCCT
1424766 GG
1 GG
1424768 ACATTCTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.14, C:0.26, G:0.42, T:0.19
Consensus pattern (20 bp):
GGGGGGAATCGGTACCCCCT
Found at i:1424817 original size:53 final size:54
Alignment explanation
Indices: 1424742--1424843 Score: 143
Period size: 53 Copynumber: 1.9 Consensus size: 54
1424732 ATTGGTACCC
* *
1424742 CCTGGGGCGGAATCGGTACCCTCTGGACATTCTGTTTTTTCTCGAAGCCAAAAA
1 CCTGGGGCGGAATCGGTACCCTCTGGACAATCTGGTTTTTCTCGAAGCCAAAAA
* * * *
1424796 CCTGGGG-GGAATCTGTTCCCTCTGGGCAATCTGGTTTTTCTTGAAGCC
1 CCTGGGGCGGAATCGGTACCCTCTGGACAATCTGGTTTTTCTCGAAGCC
1424844 CTTTAAAAAG
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
53 35 0.83
54 7 0.17
ACGTcount: A:0.18, C:0.25, G:0.26, T:0.30
Consensus pattern (54 bp):
CCTGGGGCGGAATCGGTACCCTCTGGACAATCTGGTTTTTCTCGAAGCCAAAAA
Found at i:1425032 original size:19 final size:20
Alignment explanation
Indices: 1425008--1425047 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
1424998 AATTTAATCT
*
1425008 AATATATAAT-TTAAAATTC
1 AATATAAAATCTTAAAATTC
1425027 AATATAAAATCTTAAAATTC
1 AATATAAAATCTTAAAATTC
1425047 A
1 A
1425048 TTACCACTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (20 bp):
AATATAAAATCTTAAAATTC
Found at i:1427393 original size:24 final size:24
Alignment explanation
Indices: 1427366--1427417 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
1427356 GTAAATTTGG
* * *
1427366 TACCGATACCTATGGTAGTATCGA
1 TACCAATACCAATGGGAGTATCGA
**
1427390 TACCAATATGAATGGGAGTATCGA
1 TACCAATACCAATGGGAGTATCGA
1427414 TACC
1 TACC
1427418 CATGGTGGAG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (24 bp):
TACCAATACCAATGGGAGTATCGA
Found at i:1427429 original size:20 final size:20
Alignment explanation
Indices: 1427404--1427441 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1427394 AATATGAATG
1427404 GGAGTATCGATACCCATGGT
1 GGAGTATCGATACCCATGGT
* *
1427424 GGAGTATTGATGCCCATG
1 GGAGTATCGATACCCATG
1427442 TGAAATTTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (20 bp):
GGAGTATCGATACCCATGGT
Found at i:1433966 original size:43 final size:42
Alignment explanation
Indices: 1433919--1434276 Score: 155
Period size: 42 Copynumber: 8.7 Consensus size: 42
1433909 ATTTTGTTAA
*
1433919 ATTGAAAAAATTAGGAGCTTCAATTATAAAAGTAGAAAGTGAT
1 ATTGAAAAAATTAGGAGCTTCAATTATAAAAGTA-AAAGTGAG
* * * * *
1433962 ATTGAATAATTTA-GAGGCCTAAATTATAAGA-TAAAAAGTGAG
1 ATTGAAAAAATTAGGA-GCTTCAATTATAAAAGT-AAAAGTGAG
* * * * *
1434004 ACTAAAAAAATTA-GAGGCCTCAATTATAAAGGTAAAACT-AG
1 ATTGAAAAAATTAGGA-GCTTCAATTATAAAAGTAAAAGTGAG
* * *
1434045 ATTGAAAAAATTATGG-GCCTCAATTGTAAGA-TAAAA---AG
1 ATTGAAAAAATTA-GGAGCTTCAATTATAAAAGTAAAAGTGAG
* * * * *
1434083 --T-AAAAACTAAGAAGGC--CAAATTATAAATGTAAAAAGTGTG
1 ATTGAAAAAATTAGGA-GCTTC-AATTATAAAAGT-AAAAGTGAG
** *
1434123 ATTGAAAAAATTAGTG-GCGCCAATTATAAAGGTATAAAGTGAG
1 ATTGAAAAAATTAG-GAGCTTCAATTATAAAAGTA-AAAGTGAG
* * * * *
1434166 -TTAAAAAAATTAGGGACCTT-AATTATAAGA-TAAAAATGAT
1 ATTGAAAAAATTA-GGAGCTTCAATTATAAAAGTAAAAGTGAG
* *
1434206 ATT-TAAAAATTA-GATGCTTCAA-TATAAAGGTAGAAAGTGAG
1 ATTGAAAAAATTAGGA-GCTTCAATTATAAAAGTA-AAAGTGAG
* * * *
1434247 ATTGAATAAATTAAGTGTTTCAATTATAAA
1 ATTGAAAAAATTAGGAGCTTCAATTATAAA
1434277 GATAAAAAAA
Statistics
Matches: 236, Mismatches: 49, Indels: 60
0.68 0.14 0.17
Matches are distributed among these distances:
34 2 0.01
35 14 0.06
36 4 0.02
37 4 0.02
38 4 0.02
39 8 0.03
40 24 0.10
41 38 0.16
42 76 0.32
43 61 0.26
44 1 0.00
ACGTcount: A:0.49, C:0.06, G:0.17, T:0.28
Consensus pattern (42 bp):
ATTGAAAAAATTAGGAGCTTCAATTATAAAAGTAAAAGTGAG
Found at i:1434018 original size:42 final size:41
Alignment explanation
Indices: 1433972--1434084 Score: 131
Period size: 41 Copynumber: 2.7 Consensus size: 41
1433962 ATTGAATAAT
*
1433972 TTAGAGGCCTAAATTATAAGATAAAAAGTGAGACTAAAAAAA
1 TTAGAGGCCTCAATTATAAGATAAAAAGT-AGACTAAAAAAA
* * * *
1434014 TTAGAGGCCTCAATTATAAAGGT-AAAACTAGATTGAAAAAA
1 TTAGAGGCCTCAATTAT-AAGATAAAAAGTAGACTAAAAAAA
*
1434055 TTATG-GGCCTCAATTGTAAGATAAAAAGTA
1 TTA-GAGGCCTCAATTATAAGATAAAAAGTA
1434085 AAAACTAAGA
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
40 4 0.07
41 30 0.50
42 22 0.37
43 4 0.07
ACGTcount: A:0.49, C:0.09, G:0.18, T:0.25
Consensus pattern (41 bp):
TTAGAGGCCTCAATTATAAGATAAAAAGTAGACTAAAAAAA
Found at i:1434075 original size:83 final size:85
Alignment explanation
Indices: 1433923--1434083 Score: 204
Period size: 83 Copynumber: 1.9 Consensus size: 85
1433913 TGTTAAATTG
* * * * *
1433923 AAAAAATTAGGAGCTTCAATTATAAAAGTAGAAAGTGATATTGAATAATTTAGAGGCCTAAATTA
1 AAAAAATTAGGAGCCTCAATTATAAAAGTAGAAACTGAGATTGAAAAAATTAGAGGCCTAAATTA
1433988 TAAGATAAAAAGTGAGACTA
66 TAAGATAAAAAGTGAGACTA
* *
1434008 AAAAAATTA-GAGGCCTCAATTATAAAGGTA-AAACT-AGATTGAAAAAATTATG-GGCCTCAAT
1 AAAAAATTAGGA-GCCTCAATTATAAAAGTAGAAACTGAGATTGAAAAAATTA-GAGGCCTAAAT
*
1434069 TGTAAGATAAAAAGT
64 TATAAGATAAAAAGT
1434084 AAAAACTAAG
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
83 34 0.52
84 7 0.11
85 25 0.38
ACGTcount: A:0.49, C:0.07, G:0.17, T:0.26
Consensus pattern (85 bp):
AAAAAATTAGGAGCCTCAATTATAAAAGTAGAAACTGAGATTGAAAAAATTAGAGGCCTAAATTA
TAAGATAAAAAGTGAGACTA
Found at i:1434147 original size:119 final size:120
Alignment explanation
Indices: 1433976--1434201 Score: 293
Period size: 119 Copynumber: 1.9 Consensus size: 120
1433966 AATAATTTAG
1433976 AGGCCTAAATTATAAGATAAAAAGTGAGACTAAAAAAATTAGAGGCCTCAATTATAAAGGTA-AA
1 AGGCCTAAATTATAAGATAAAAAGTGAGACTAAAAAAATTAGAGGCCTCAATTATAAAGGTATAA
* *
1434040 ACT-AGATTGAAAAAATTATGGG-CCTCAATTGTAAGATAAAAAGTAAAAACTAAGA
66 ACTGAG-TTAAAAAAATTA-GGGACCTCAATTATAAGATAAAAAGTAAAAACTAAGA
* * * *
1434095 AGGCC-AAATTATAA-ATGTAAAAAGTGTGATTGAAAAAATTAGTGGCGC-CAATTATAAAGGTA
1 AGGCCTAAATTATAAGA--TAAAAAGTGAGACTAAAAAAATTAGAGGC-CTCAATTATAAAGGTA
* *
1434157 TAAAGTGAGTTAAAAAAATTAGGGACCTTAATTATAAGATAAAAA
63 TAAACTGAGTTAAAAAAATTAGGGACCTCAATTATAAGATAAAAA
1434202 TGATATTTAA
Statistics
Matches: 93, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
117 1 0.01
118 9 0.10
119 47 0.51
120 34 0.37
121 2 0.02
ACGTcount: A:0.50, C:0.08, G:0.18, T:0.24
Consensus pattern (120 bp):
AGGCCTAAATTATAAGATAAAAAGTGAGACTAAAAAAATTAGAGGCCTCAATTATAAAGGTATAA
ACTGAGTTAAAAAAATTAGGGACCTCAATTATAAGATAAAAAGTAAAAACTAAGA
Found at i:1435735 original size:55 final size:54
Alignment explanation
Indices: 1435674--1436031 Score: 363
Period size: 55 Copynumber: 6.7 Consensus size: 54
1435664 TGAAAAAAGT
* * *
1435674 TAAGAAATTCATAATTTGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAA
1 TAAGAAATTCATAA-TAGTGTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAC
* * * * *
1435729 TTAGAAATTCATACTAACTGTATGAATTTCCGTATAGACACTTTGTGTGCAAAAC
1 TAAGAAATTCATAAT-AGTGTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAC
* * * * *
1435784 TAAGAAATTCATACTAATTATATGAATTTCCGTATGGGTACCTTGTGTGCAAAAC
1 TAAGAAATTCATAAT-AGTGTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAC
* * * *
1435839 TAAG-AATAC-T-A-AGTGTATGAATTTCCGTATGGCCATTTTGTGTGCAAAGC
1 TAAGAAATTCATAATAGTGTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAC
* * *
1435889 TAAG-AATAC-T-A-AGTGTATGAATTTCCATATGGGCATTTTGTGTGCAAAAC
1 TAAGAAATTCATAATAGTGTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAC
* ** *
1435939 TAAGAAATTCATACTAAGTGTATGAATTTTTGTATGGGCACTATGTGTGCAAAAC
1 TAAGAAATTCATAAT-AGTGTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAC
* * * *
1435994 TAAGAAATACATATTAGGTGTACGAATTACCGTATGGG
1 TAAGAAATTCATAATA-GTGTATGAATTTCCGTATGGG
1436032 AAATATATGT
Statistics
Matches: 256, Mismatches: 40, Indels: 14
0.83 0.13 0.05
Matches are distributed among these distances:
50 83 0.32
51 4 0.02
52 1 0.00
53 1 0.00
54 6 0.02
55 161 0.63
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (54 bp):
TAAGAAATTCATAATAGTGTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAC
Found at i:1435986 original size:155 final size:158
Alignment explanation
Indices: 1435694--1435999 Score: 422
Period size: 155 Copynumber: 1.9 Consensus size: 158
1435684 ATAATTTGTT
* *
1435694 TATGAATTTCCGTATGGGCACTTTGTGTGCAAAAATTAGAAATTCATACTAACTGTATGAATTTC
1 TATGAATTTCCGTATGGCCACTTTGTGTGCAAAAACTAGAAA-T-ATACTAACTGTATGAATTTC
* * *
1435759 CGTATAGACACTTTGTGTGCAAAACTAAGAAATTCATACTAATTATATGAATTTCCGTATGGGTA
64 CATATAGACACTTTGTGTGCAAAACTAAGAAATTCATACTAAGTATATGAATTTCCGTATGGGCA
1435824 CCTTGTGTGCAAAACTAAGAATACTAAGTG
129 CCTTGTGTGCAAAACTAAGAATACTAAGTG
* * * *
1435854 TATGAATTTCCGTATGGCCATTTTGTGTGC-AAAGCTA-AGA-ATACTAAGTGTATGAATTTCCA
1 TATGAATTTCCGTATGGCCACTTTGTGTGCAAAAACTAGAAATATACTAACTGTATGAATTTCCA
* * * * **
1435916 TATGGGCATTTTGTGTGCAAAACTAAGAAATTCATACTAAGTGTATGAATTTTTGTATGGGCA-C
66 TATAGACACTTTGTGTGCAAAACTAAGAAATTCATACTAAGTATATGAATTTCCGTATGGGCACC
1435980 TATGTGTGCAAAACTAAGAA
131 T-TGTGTGCAAAACTAAGAA
1436000 ATACATATTA
Statistics
Matches: 130, Mismatches: 15, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
154 2 0.02
155 93 0.72
158 2 0.02
159 5 0.04
160 28 0.22
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (158 bp):
TATGAATTTCCGTATGGCCACTTTGTGTGCAAAAACTAGAAATATACTAACTGTATGAATTTCCA
TATAGACACTTTGTGTGCAAAACTAAGAAATTCATACTAAGTATATGAATTTCCGTATGGGCACC
TTGTGTGCAAAACTAAGAATACTAAGTG
Found at i:1438473 original size:160 final size:161
Alignment explanation
Indices: 1438209--1438535 Score: 638
Period size: 160 Copynumber: 2.0 Consensus size: 161
1438199 CTTAGCAAAC
1438209 TTGATGGAGTTTCCCTTTTATGAGTTTGAAATTATTTTAGGTATGAATTGGTTATCTCCACATCA
1 TTGATGGAGTTTCCCTTTTATGAGTTTGAAATTATTTTAGGTATGAATTGGTTATCTCCACATCA
1438274 TGGATGGGCAGATTGTCGTAGAAAGCGATTATTCTTAAAAGATGAGGAAGGCTCTGAAATTATCG
66 TGGATGGGCAGATTGTCGTAGAAAGCGATTATTCTTAAAAGATGAGGAAGGCTCTGAAATTATCG
1438339 TTATTGGTGATAAAGTGAAATTA-CCTCTAA
131 TTATTGGTGATAAAGTGAAATTACCCTCTAA
1438369 TTGATGGAGTTTCCCTTTTATGAGTTTGAAATTATTTTAGGTATGAATTGGTTATCTCCACATCA
1 TTGATGGAGTTTCCCTTTTATGAGTTTGAAATTATTTTAGGTATGAATTGGTTATCTCCACATCA
1438434 TGGATGGGCAGATTGTCGTAGAAAGCGATTATTCTTAAAAGATGAGGAAGGCTCTGAAATTATCG
66 TGGATGGGCAGATTGTCGTAGAAAGCGATTATTCTTAAAAGATGAGGAAGGCTCTGAAATTATCG
1438499 TTATTGGTGATAAAGTGAAATTACCCTCTAA
131 TTATTGGTGATAAAGTGAAATTACCCTCTAA
1438530 TGTGAT
1 T-TGAT
1438536 ATCATCCATG
Statistics
Matches: 165, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
160 153 0.93
161 8 0.05
162 4 0.02
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.36
Consensus pattern (161 bp):
TTGATGGAGTTTCCCTTTTATGAGTTTGAAATTATTTTAGGTATGAATTGGTTATCTCCACATCA
TGGATGGGCAGATTGTCGTAGAAAGCGATTATTCTTAAAAGATGAGGAAGGCTCTGAAATTATCG
TTATTGGTGATAAAGTGAAATTACCCTCTAA
Found at i:1442303 original size:20 final size:21
Alignment explanation
Indices: 1442255--1442304 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 21
1442245 AATACAAAAT
* *
1442255 GGTATTGATACCATAGTATAGT
1 GGTATCGATACCATAG-ATAGG
*
1442277 AGTATCGATACCATAG-TAGG
1 GGTATCGATACCATAGATAGG
1442297 GGTATCGA
1 GGTATCGA
1442305 CACTAAGGAG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 10 0.42
22 14 0.58
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (21 bp):
GGTATCGATACCATAGATAGG
Found at i:1442618 original size:16 final size:16
Alignment explanation
Indices: 1442592--1442630 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
1442582 AGTCACATAA
1442592 ATATG-ATTGATTGAT
1 ATATGTATTGATTGAT
1442607 ATATGTATTGATTGAT
1 ATATGTATTGATTGAT
1442623 ATATGTAT
1 ATATGTAT
1442631 GGTGATTACC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 5 0.22
16 18 0.78
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (16 bp):
ATATGTATTGATTGAT
Found at i:1442746 original size:55 final size:55
Alignment explanation
Indices: 1442666--1443079 Score: 589
Period size: 55 Copynumber: 7.5 Consensus size: 55
1442656 TGCAAAAAGT
* ** *
1442666 TAAGAAATTCATAATTTGTTTATGAATTTCCGTATGAGCACTTTGTGTGCAAAAC
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATGAGCACTTTGTGTGCAAAAC
* * *
1442721 TAATAAATTCATACTAAGTGTATGAATTTTCATATGAGCACTTTGTGTGCAAAAC
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATGAGCACTTTGTGTGCAAAAC
* * *
1442776 TAAGAAATTCATACTAAGTGTATGGATTTCCATATGAGCACTTTGTATGCAAAAC
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATGAGCACTTTGTGTGCAAAAC
* * * * * *
1442831 TAAGAAATTCATACTAAGTGTATGGATTTCCGTATGGGTAATATGTGAGCAAAAC
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATGAGCACTTTGTGTGCAAAAC
*
1442886 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAC
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATGAGCACTTTGTGTGCAAAAC
1442941 TAAGAAATTCATACTAAGTGTATGAATTTCCGTAT-AGGCACTTTGTGTGCAAAAC
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATGA-GCACTTTGTGTGCAAAAC
* * * * *
1442996 TAAGAAATTCATACTAAGTGTATGAATTTTCGTATGGGCGCTATGTGTGC-GAAC
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATGAGCACTTTGTGTGCAAAAC
* *
1443050 TAAGAAATCCATACTAAGCGTATGAATTTC
1 TAAGAAATTCATACTAAGTGTATGAATTTC
1443080 TACGGGAAAT
Statistics
Matches: 325, Mismatches: 32, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
54 30 0.09
55 295 0.91
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.34
Consensus pattern (55 bp):
TAAGAAATTCATACTAAGTGTATGAATTTCCGTATGAGCACTTTGTGTGCAAAAC
Found at i:1447275 original size:44 final size:44
Alignment explanation
Indices: 1447193--1447379 Score: 177
Period size: 44 Copynumber: 4.2 Consensus size: 44
1447183 AGTATTTCAA
* ** *
1447193 GCTCCTCTGTTATGTGCTTGGGTAAGT-CTATA-CGGTTACCGCA-
1 GCTCCTCTGCTATGTGCAAGGGTAAGTCCT-TACCAGTTACC-CAT
* * *
1447236 GACTCCTCTGATATGTGCAAGGGTAAGTCCTTATC-GTTACCCAG
1 G-CTCCTCTGCTATGTGCAAGGGTAAGTCCTTACCAGTTACCCAT
* * * * *
1447280 GCTTCTTTGCTACGTGCAAGGGTAAGTCCTTACCATTTTCCCAT
1 GCTCCTCTGCTATGTGCAAGGGTAAGTCCTTACCAGTTACCCAT
*
1447324 GCTCTTCTGCTATGTGCAAGGGTAAGTCCTTACC-GTTTACCACAT
1 GCTCCTCTGCTATGTGCAAGGGTAAGTCCTTACCAG-TTACC-CAT
1447369 GCTCCTCTGCT
1 GCTCCTCTGCT
1447380 TTTTGCACAT
Statistics
Matches: 119, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
43 31 0.26
44 72 0.61
45 16 0.13
ACGTcount: A:0.18, C:0.27, G:0.21, T:0.34
Consensus pattern (44 bp):
GCTCCTCTGCTATGTGCAAGGGTAAGTCCTTACCAGTTACCCAT
Found at i:1447440 original size:39 final size:39
Alignment explanation
Indices: 1447360--1447440 Score: 99
Period size: 39 Copynumber: 2.1 Consensus size: 39
1447350 TCCTTACCGT
* * * *
1447360 TTACCACATGCTCCTCTGCTTTTTGCACATGATAAGACC
1 TTACCACAGGCTCCTCTACTTTGTGCACAGGATAAGACC
* * *
1447399 TTACCGCAGGCTCCTCTACTTTGTGCACAGGGTAAGCCC
1 TTACCACAGGCTCCTCTACTTTGTGCACAGGATAAGACC
1447438 TTA
1 TTA
1447441 TCGGGTCTAC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.21, C:0.31, G:0.17, T:0.31
Consensus pattern (39 bp):
TTACCACAGGCTCCTCTACTTTGTGCACAGGATAAGACC
Found at i:1450645 original size:35 final size:35
Alignment explanation
Indices: 1450584--1450669 Score: 109
Period size: 35 Copynumber: 2.5 Consensus size: 35
1450574 CTTAGGTCCG
* * *
1450584 TAAGGAATTACCAGCTTATCAATGTTGTACTTATA
1 TAAGGAATTACCAGCTAATCAATGTTGAACCTATA
* **
1450619 TAAGAAATTACCAGCTAATCGGTGTTGAACCTATA
1 TAAGGAATTACCAGCTAATCAATGTTGAACCTATA
*
1450654 TAAGGTATTACCAGCT
1 TAAGGAATTACCAGCT
1450670 TGATCAAAGA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (35 bp):
TAAGGAATTACCAGCTAATCAATGTTGAACCTATA
Found at i:1457143 original size:11 final size:11
Alignment explanation
Indices: 1457127--1457176 Score: 59
Period size: 11 Copynumber: 4.6 Consensus size: 11
1457117 CCAGAAAAAA
1457127 TCAATGGTCGG
1 TCAATGGTCGG
*
1457138 TCAATGG-CAG
1 TCAATGGTCGG
*
1457148 TGAATGGTCGG
1 TCAATGGTCGG
1457159 TCAACT-GTCGG
1 TCAA-TGGTCGG
1457170 TCAATGG
1 TCAATGG
1457177 CCAACGGTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
10 9 0.28
11 22 0.69
12 1 0.03
ACGTcount: A:0.22, C:0.18, G:0.34, T:0.26
Consensus pattern (11 bp):
TCAATGGTCGG
Found at i:1465549 original size:55 final size:55
Alignment explanation
Indices: 1465470--1465889 Score: 508
Period size: 55 Copynumber: 7.6 Consensus size: 55
1465460 TGCAAAAAGT
* ** * *
1465470 TAAGAAATTCATAATTTGTTTATGAATTTCCGTATAAGG-ACTTTGTATGCAAAAC
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTAT-AGGCACTTTGTGTGCAAAAC
* *
1465525 TAATAAATTCATACTAAGTGTATGAATTTCCGTAT-GAGCACTTTGTGTGGAAAAC
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATAG-GCACTTTGTGTGCAAAAC
* * * *
1465580 TAAGAAAATTCATACTAAGTGTATGTATTTCCATATGGGCACTTTGTATGCAAAAC
1 TAAG-AAATTCATACTAAGTGTATGAATTTCCGTATAGGCACTTTGTGTGCAAAAC
** *
1465636 TAAGAAATTCATACTAAGTGTAT-AGATTTTTGTATAGGAACTTTGTGTGCAAAAC
1 TAAGAAATTCATACTAAGTGTATGA-ATTTCCGTATAGGCACTTTGTGTGCAAAAC
* * * *
1465691 TAAGAAATTCATACTACGCGTATGAATTTCCATAT-GGATACTTTGTGTGCAAAAC
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGG-CACTTTGTGTGCAAAAC
* * * * *
1465746 TAAGAAATTCATACTACGCGTATGAATTTTCATATGGGCACTTTGTGTGCAAAAC
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGCACTTTGTGTGCAAAAC
* * * *
1465801 TAAGAAATTCATACTAAGTGTATGAATTTTCGTATGGGCACTATGTGTGC-GAAC
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGCACTTTGTGTGCAAAAC
*
1465855 TAAGAAATCCATACTAAGTGTATGAATTTCCGTAT
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTAT
1465890 GGGAAATATA
Statistics
Matches: 323, Mismatches: 34, Indels: 17
0.86 0.09 0.05
Matches are distributed among these distances:
53 1 0.00
54 39 0.12
55 230 0.71
56 52 0.16
57 1 0.00
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (55 bp):
TAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGCACTTTGTGTGCAAAAC
Found at i:1468532 original size:23 final size:22
Alignment explanation
Indices: 1468490--1468533 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
1468480 TTTTTTAATT
* *
1468490 TTTTAATAATAAAAATATTATC
1 TTTTAATAAAAAAAAAATTATC
1468512 TTTTAATAAAAAGAAAAATTAT
1 TTTTAATAAAAA-AAAAATTAT
1468534 AAAACTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (22 bp):
TTTTAATAAAAAAAAAATTATC
Found at i:1469413 original size:29 final size:29
Alignment explanation
Indices: 1469321--1469407 Score: 156
Period size: 29 Copynumber: 3.0 Consensus size: 29
1469311 TTGACCCGAC
*
1469321 CCGAACAACTGACCCGACCCGTATCCGGT
1 CCGAACAGCTGACCCGACCCGTATCCGGT
1469350 CCGAACAGCTGACCCGACCCGTATCCGGT
1 CCGAACAGCTGACCCGACCCGTATCCGGT
*
1469379 CCGAACAGCTGACCCGACCCATATCCGGT
1 CCGAACAGCTGACCCGACCCGTATCCGGT
1469408 TTGAACTATT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 56 1.00
ACGTcount: A:0.23, C:0.41, G:0.22, T:0.14
Consensus pattern (29 bp):
CCGAACAGCTGACCCGACCCGTATCCGGT
Found at i:1470232 original size:44 final size:44
Alignment explanation
Indices: 1470178--1470391 Score: 295
Period size: 44 Copynumber: 4.8 Consensus size: 44
1470168 GGAAGTATTT
1470178 CAGGCTCCTCTGCTATGTGCAAGGGTAAGTCCTTACCGTTATCG
1 CAGGCTCCTCTGCTATGTGCAAGGGTAAGTCCTTACCGTTATCG
* *
1470222 CAGACTCCTCTGCTATGTGCAAGGGTAAGTCCTTATCGTTA-CTG
1 CAGGCTCCTCTGCTATGTGCAAGGGTAAGTCCTTACCGTTATC-G
* * *
1470266 CAGGCTACTCTGCTATGTGCAAGGGTAAGTCCTTACCGTTTTCC
1 CAGGCTCCTCTGCTATGTGCAAGGGTAAGTCCTTACCGTTATCG
* *
1470310 CAGGCTCCTCTGCTATGTGCAATGGTAAGTTCTTACCGTTTATCG
1 CAGGCTCCTCTGCTATGTGCAAGGGTAAGTCCTTACCG-TTATCG
* * * *
1470355 CAGGCTCCTCTACTTTGTGCACAGGATAAGACCTTAC
1 CAGGCTCCTCTGCTATGTGCA-AGGGTAAGTCCTTAC
1470392 TGCAGGCTCC
Statistics
Matches: 148, Mismatches: 18, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
43 1 0.01
44 112 0.76
45 24 0.16
46 11 0.07
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.31
Consensus pattern (44 bp):
CAGGCTCCTCTGCTATGTGCAAGGGTAAGTCCTTACCGTTATCG
Found at i:1476419 original size:16 final size:16
Alignment explanation
Indices: 1476400--1476443 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
1476390 CTGACCCGTA
*
1476400 TCCGACCCGATCAGTG
1 TCCGACCCGACCAGTG
*
1476416 TCCGAACCGACCAGTG
1 TCCGACCCGACCAGTG
1476432 TCCGACCCGACC
1 TCCGACCCGACC
1476444 CGACCCGCTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.20, C:0.43, G:0.23, T:0.14
Consensus pattern (16 bp):
TCCGACCCGACCAGTG
Found at i:1477294 original size:43 final size:45
Alignment explanation
Indices: 1477201--1477413 Score: 265
Period size: 44 Copynumber: 4.8 Consensus size: 45
1477191 GAACTGTTTT
* *
1477201 AGGCTCCCCTGCTATGTGCAA-GGTAAGTCCTTATCG-TTACCAC
1 AGGCTCCTCTGCTATGTGCAAGGGTAAGTCCTTACCGTTTACCAC
** *
1477244 AATCTCCTCTGCTATGTGCAAGGGCAAGTCCTTACCG-TTACC-C
1 AGGCTCCTCTGCTATGTGCAAGGGTAAGTCCTTACCGTTTACCAC
* *
1477287 AGGCTCCTCTGCTATATGCAAGGGTAAGTCCTTACCGTTTTCC-C
1 AGGCTCCTCTGCTATGTGCAAGGGTAAGTCCTTACCGTTTACCAC
*
1477331 AGGCTCCTCTGCTATGTGCAAGGGTAAGTCCTTATCGTTTACCAC
1 AGGCTCCTCTGCTATGTGCAAGGGTAAGTCCTTACCGTTTACCAC
* * * * *
1477376 ATGCTCCTCTGCTTTGTGCACATGATAAGACCTTACCG
1 AGGCTCCTCTGCTATGTGCA-AGGGTAAGTCCTTACCG
1477414 CAGGCTCCTC
Statistics
Matches: 147, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
43 52 0.35
44 63 0.43
45 19 0.13
46 13 0.09
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (45 bp):
AGGCTCCTCTGCTATGTGCAAGGGTAAGTCCTTACCGTTTACCAC
Found at i:1477346 original size:87 final size:88
Alignment explanation
Indices: 1477201--1477388 Score: 256
Period size: 87 Copynumber: 2.1 Consensus size: 88
1477191 GAACTGTTTT
* * * *
1477201 AGGCTCCCCTGCTATGTGCAAGGTAAGTCCTTATCGTTACCACAATCTCCTCTGCTATGTGCAAG
1 AGGCTCCTCTGCTATATGCAAGGTAAGTCCTTACCGTTACCACAAGCTCCTCTGCTATGTGCAAG
1477266 GGCAAGTCCTTACCG-TTACC-C
66 GGCAAGTCCTTACCGTTTACCAC
* *
1477287 AGGCTCCTCTGCTATATGCAAGGGTAAGTCCTTACCGTTTTCC-CAGGCTCCTCTGCTATGTGCA
1 AGGCTCCTCTGCTATATGCAA-GGTAAGTCCTTACCG-TTACCACAAGCTCCTCTGCTATGTGCA
* *
1477351 AGGGTAAGTCCTTATCGTTTACCAC
64 AGGGCAAGTCCTTACCGTTTACCAC
*
1477376 ATGCTCCTCTGCT
1 AGGCTCCTCTGCT
1477389 TTGTGCACAT
Statistics
Matches: 89, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
86 19 0.21
87 48 0.54
88 9 0.10
89 13 0.15
ACGTcount: A:0.19, C:0.30, G:0.20, T:0.30
Consensus pattern (88 bp):
AGGCTCCTCTGCTATATGCAAGGTAAGTCCTTACCGTTACCACAAGCTCCTCTGCTATGTGCAAG
GGCAAGTCCTTACCGTTTACCAC
Found at i:1477423 original size:39 final size:39
Alignment explanation
Indices: 1477369--1477452 Score: 105
Period size: 39 Copynumber: 2.2 Consensus size: 39
1477359 TCCTTATCGT
* * * * *
1477369 TTACCACATGCTCCTCTGCTTTGTGCACATGATAAGACC
1 TTACCGCAGGCTCCTCAGCCTTGTGCACAGGATAAGACC
* *
1477408 TTACCGCAGGCTCCTCAGCCTTGTGCACAGGGTAAGCCC
1 TTACCGCAGGCTCCTCAGCCTTGTGCACAGGATAAGACC
1477447 TTACCG
1 TTACCG
1477453 GGTGTACAAG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.20, C:0.33, G:0.20, T:0.26
Consensus pattern (39 bp):
TTACCGCAGGCTCCTCAGCCTTGTGCACAGGATAAGACC
Found at i:1493381 original size:48 final size:48
Alignment explanation
Indices: 1493305--1493436 Score: 183
Period size: 48 Copynumber: 2.7 Consensus size: 48
1493295 TCATAAATGA
1493305 AAATGCATAACGGTGCATTATTGGTAGAAAGGTGCCACTAATAAAAATT
1 AAATGCATAACGGTGCATT-TTGGTAGAAAGGTGCCACTAATAAAAATT
* * * * *
1493354 AAATGCATAACAGAGCATTTTGGTAGAAAAGTACCACTAATGAAAATT
1 AAATGCATAACGGTGCATTTTGGTAGAAAGGTGCCACTAATAAAAATT
* * *
1493402 AAATGCATAACGGTGTATTTTGGCATAAAGGTGCC
1 AAATGCATAACGGTGCATTTTGGTAGAAAGGTGCC
1493437 GCTCCTGGTT
Statistics
Matches: 71, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
48 54 0.76
49 17 0.24
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (48 bp):
AAATGCATAACGGTGCATTTTGGTAGAAAGGTGCCACTAATAAAAATT
Found at i:1494798 original size:23 final size:23
Alignment explanation
Indices: 1494766--1494817 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
1494756 TGTCTTCTTT
*
1494766 CTCTCTACTCTTTGTATCTTATC
1 CTCTCCACTCTTTGTATCTTATC
1494789 CTCTCCACTCTTTGTATCTTATC
1 CTCTCCACTCTTTGTATCTTATC
1494812 CTCTCC
1 CTCTCC
1494818 CGTAACCAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.12, C:0.37, G:0.04, T:0.48
Consensus pattern (23 bp):
CTCTCCACTCTTTGTATCTTATC
Found at i:1495628 original size:61 final size:62
Alignment explanation
Indices: 1495559--1495674 Score: 153
Period size: 62 Copynumber: 1.9 Consensus size: 62
1495549 ATCGATACCG
* * *
1495559 AAGTATTTTTGAAAAAATTGAAGC-AAATTTGGTATTGATACTCACGGGAGTATCAATATCC
1 AAGTATTTTTCAAAAAATCGAAGCTAAATTTGGTATTGATACTCACCGGAGTATCAATATCC
* * * * *
1495620 AAGTATTTTTCAAAACATCGAATCTGATTTTGGTATTGATACTCACCTGAGTATC
1 AAGTATTTTTCAAAAAATCGAAGCTAAATTTGGTATTGATACTCACCGGAGTATC
1495675 GATAAACAAG
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
61 20 0.43
62 26 0.57
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.35
Consensus pattern (62 bp):
AAGTATTTTTCAAAAAATCGAAGCTAAATTTGGTATTGATACTCACCGGAGTATCAATATCC
Found at i:1497066 original size:19 final size:19
Alignment explanation
Indices: 1497042--1497099 Score: 107
Period size: 19 Copynumber: 3.1 Consensus size: 19
1497032 ATTATGCCGC
1497042 AAGCTTCATGCATGTTTAG
1 AAGCTTCATGCATGTTTAG
1497061 AAGCTTCATGCATGTTTAG
1 AAGCTTCATGCATGTTTAG
*
1497080 AAGCTTCATGAATGTTTAG
1 AAGCTTCATGCATGTTTAG
1497099 A
1 A
1497100 TTCTAGGATT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 38 1.00
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (19 bp):
AAGCTTCATGCATGTTTAG
Found at i:1497521 original size:2 final size:2
Alignment explanation
Indices: 1497514--1497539 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1497504 AACATTAATT
1497514 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
1497540 ATCTAATATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1498900 original size:21 final size:21
Alignment explanation
Indices: 1498874--1498917 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
1498864 CTTACTCATG
1498874 TCGATAGCTGCATGGTTCAAT
1 TCGATAGCTGCATGGTTCAAT
1498895 TCGATAGCTGCATGGTTCAAT
1 TCGATAGCTGCATGGTTCAAT
1498916 TC
1 TC
1498918 TCTTAACCTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (21 bp):
TCGATAGCTGCATGGTTCAAT
Found at i:1501227 original size:18 final size:19
Alignment explanation
Indices: 1501204--1501240 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
1501194 ACCCATAAAA
*
1501204 AGTCAACTGC-CGGTCAAC
1 AGTCAACGGCTCGGTCAAC
1501222 AGTCAACGGCTCGGTCAAC
1 AGTCAACGGCTCGGTCAAC
1501241 GGTGATCAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.27, C:0.32, G:0.24, T:0.16
Consensus pattern (19 bp):
AGTCAACGGCTCGGTCAAC
Found at i:1503007 original size:33 final size:31
Alignment explanation
Indices: 1502900--1503009 Score: 96
Period size: 32 Copynumber: 3.4 Consensus size: 31
1502890 AGTTTCTTGG
* *
1502900 AATAACAAATTATGACAACT-TTATTTAATCA
1 AATAACAAATTATGACAAATATTATTT-TTCA
* * *
1502931 TAATAACAATTTATAACAAATATTAATTTTCA
1 -AATAACAAATTATGACAAATATTATTTTTCA
* * *
1502963 ATACAAAAAATTATGACAAATAATATTCTTTCA
1 A-ATAACAAATTATGACAAATATTATT-TTTCA
1502996 CAATAACAAATTAT
1 -AATAACAAATTAT
1503010 AATAAAGTTA
Statistics
Matches: 61, Mismatches: 13, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
31 1 0.02
32 39 0.64
33 20 0.33
34 1 0.02
ACGTcount: A:0.51, C:0.12, G:0.02, T:0.35
Consensus pattern (31 bp):
AATAACAAATTATGACAAATATTATTTTTCA
Found at i:1504595 original size:13 final size:13
Alignment explanation
Indices: 1504577--1504654 Score: 86
Period size: 13 Copynumber: 6.0 Consensus size: 13
1504567 GTCATAAATC
*
1504577 TATGACGCACATT
1 TATGACGCGCATT
1504590 TATGACAG-GCATT
1 TATGAC-GCGCATT
* *
1504603 TATTACACGCATT
1 TATGACGCGCATT
**
1504616 TATGACATGCATT
1 TATGACGCGCATT
1504629 TATGACGCGCATT
1 TATGACGCGCATT
*
1504642 TATGACCCGCATT
1 TATGACGCGCATT
1504655 GCGCGTCATT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
13 54 0.98
14 1 0.02
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (13 bp):
TATGACGCGCATT
Found at i:1504621 original size:39 final size:39
Alignment explanation
Indices: 1504577--1504654 Score: 95
Period size: 39 Copynumber: 2.0 Consensus size: 39
1504567 GTCATAAATC
* *
1504577 TATGACGCACATTTATGACAG-GCATTTATTACACGCATT
1 TATGACACACATTTATGAC-GCGCATTTATGACACGCATT
** *
1504616 TATGACATGCATTTATGACGCGCATTTATGACCCGCATT
1 TATGACACACATTTATGACGCGCATTTATGACACGCATT
1504655 GCGCGTCATT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
38 1 0.03
39 32 0.97
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (39 bp):
TATGACACACATTTATGACGCGCATTTATGACACGCATT
Found at i:1504653 original size:26 final size:26
Alignment explanation
Indices: 1504577--1504654 Score: 102
Period size: 26 Copynumber: 3.0 Consensus size: 26
1504567 GTCATAAATC
* *
1504577 TATGACGCACATTTATGACAGGCATT
1 TATGACGCGCATTTATGACACGCATT
* * *
1504603 TATTACACGCATTTATGACATGCATT
1 TATGACGCGCATTTATGACACGCATT
*
1504629 TATGACGCGCATTTATGACCCGCATT
1 TATGACGCGCATTTATGACACGCATT
1504655 GCGCGTCATT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (26 bp):
TATGACGCGCATTTATGACACGCATT
Found at i:1504775 original size:85 final size:85
Alignment explanation
Indices: 1504626--1504791 Score: 219
Period size: 85 Copynumber: 2.0 Consensus size: 85
1504616 TATGACATGC
* * * * *
1504626 ATTTATGACGCGCATTTATGACCCGCATTGCGCGTCATTGAAGCCCCCGTCATAAATAACGATGA
1 ATTTATGACACGCATTTATGACCCACATTGCGCGTCATTGAAGCACACGTCATAAATAAAGATGA
* *
1504691 CACATATTTGTGTGTCATAA
66 CACACATTCGTGTGTCATAA
**
1504711 ATTTATGACACGCATTTATGACTTACATTGCGCGTCATTGAAGCACACG-CTATTAAA-AAAGAT
1 ATTTATGACACGCATTTATGACCCACATTGCGCGTCATTGAAGCACACGTC-A-TAAATAAAGAT
1504774 GACACACATTCGTGTGTC
64 GACACACATTCGTGTGTC
1504792 GTGATTGTAT
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
84 1 0.01
85 65 0.93
86 4 0.06
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (85 bp):
ATTTATGACACGCATTTATGACCCACATTGCGCGTCATTGAAGCACACGTCATAAATAAAGATGA
CACACATTCGTGTGTCATAA
Found at i:1510153 original size:40 final size:40
Alignment explanation
Indices: 1510098--1510256 Score: 282
Period size: 40 Copynumber: 4.0 Consensus size: 40
1510088 TGCAGGTTTA
*
1510098 TAATACACTTTGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
* *
1510138 TAATACACTTTGGTGTATATGGTGGGCATGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1510178 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
*
1510218 TAATACACTTCGGTGTATATGGTGGGCATGACCTTATGT
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGT
1510257 ATAGCACTAC
Statistics
Matches: 115, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 115 1.00
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.35
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
Found at i:1517235 original size:8 final size:8
Alignment explanation
Indices: 1517219--1517261 Score: 68
Period size: 8 Copynumber: 5.4 Consensus size: 8
1517209 GGACTAATGC
1517219 AAAGAGAA
1 AAAGAGAA
*
1517227 AAAGGGAA
1 AAAGAGAA
1517235 AAAGAGAA
1 AAAGAGAA
*
1517243 AAAGGGAA
1 AAAGAGAA
1517251 AAAGAGAA
1 AAAGAGAA
1517259 AAA
1 AAA
1517262 TGGGGGAAGC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (8 bp):
AAAGAGAA
Found at i:1517240 original size:16 final size:16
Alignment explanation
Indices: 1517219--1517261 Score: 86
Period size: 16 Copynumber: 2.7 Consensus size: 16
1517209 GGACTAATGC
1517219 AAAGAGAAAAAGGGAA
1 AAAGAGAAAAAGGGAA
1517235 AAAGAGAAAAAGGGAA
1 AAAGAGAAAAAGGGAA
1517251 AAAGAGAAAAA
1 AAAGAGAAAAA
1517262 TGGGGGAAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (16 bp):
AAAGAGAAAAAGGGAA
Found at i:1519793 original size:21 final size:20
Alignment explanation
Indices: 1519765--1519812 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
1519755 AATGATTTTC
* *
1519765 TTTT-AAAAGAAAAAATTAGA
1 TTTTGAAAAG-AAAAATGAAA
*
1519785 TTTTGAAAAGCAAAATGAAA
1 TTTTGAAAAGAAAAATGAAA
1519805 TTTTGAAA
1 TTTTGAAA
1519813 TATGATTTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 19 0.79
21 5 0.21
ACGTcount: A:0.54, C:0.02, G:0.12, T:0.31
Consensus pattern (20 bp):
TTTTGAAAAGAAAAATGAAA
Found at i:1526296 original size:21 final size:21
Alignment explanation
Indices: 1526272--1526326 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
1526262 CAAGAGTTCA
*
1526272 TGATGATCATCAAAAGAAACT
1 TGATGATCATAAAAAGAAACT
*
1526293 TGATGATCTTAAAAAGAAACT
1 TGATGATCATAAAAAGAAACT
*
1526314 TGATGATCTTAAA
1 TGATGATCATAAA
1526327 GCTTCTTTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.45, C:0.11, G:0.15, T:0.29
Consensus pattern (21 bp):
TGATGATCATAAAAAGAAACT
Found at i:1540712 original size:18 final size:19
Alignment explanation
Indices: 1540689--1540726 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
1540679 TCAAAACATG
*
1540689 CCTTGA-AGTATCGATACT
1 CCTTGAGAGTACCGATACT
1540707 CCTTGATGAGTACCGATACT
1 CCTTGA-GAGTACCGATACT
1540727 ACTATACGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (19 bp):
CCTTGAGAGTACCGATACT
Found at i:1541136 original size:23 final size:22
Alignment explanation
Indices: 1541110--1541153 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
1541100 ATTATATATG
1541110 TATAATATTGTTTTTTACAAAAC
1 TATAATATT-TTTTTTACAAAAC
* *
1541133 TATACTATTTTTTTTATAAAA
1 TATAATATTTTTTTTACAAAA
1541154 TTGTCTTTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (22 bp):
TATAATATTTTTTTTACAAAAC
Found at i:1546073 original size:20 final size:21
Alignment explanation
Indices: 1546038--1546076 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
1546028 GTTAGAAGTA
1546038 TAATTAGATGAGTTACAAAAG
1 TAATTAGATGAGTTACAAAAG
*
1546059 TAATTATAT-AGTTACAAA
1 TAATTAGATGAGTTACAAA
1546077 CTGCTGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.49, C:0.05, G:0.13, T:0.33
Consensus pattern (21 bp):
TAATTAGATGAGTTACAAAAG
Found at i:1548728 original size:29 final size:29
Alignment explanation
Indices: 1548666--1548728 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
1548656 GGCCATGGCT
*
1548666 CCTCTAAAATTTTAAAAAAATTAATGTAG
1 CCTCTAAAATTTTAAAAAAATTAATCTAG
* * *
1548695 ACTCTTAAATTTTCAAAAAATTTAATCT-G
1 CCTCTAAAATTTT-AAAAAAATTAATCTAG
1548724 CCTCT
1 CCTCT
1548729 CAATTTTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
29 16 0.57
30 12 0.43
ACGTcount: A:0.41, C:0.16, G:0.05, T:0.38
Consensus pattern (29 bp):
CCTCTAAAATTTTAAAAAAATTAATCTAG
Found at i:1549015 original size:25 final size:25
Alignment explanation
Indices: 1548963--1549016 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
1548953 ATATGCCACT
* *
1548963 GTAT-ATATATATACTTATGCATAT
1 GTATAATATATATACTTATACATAA
*
1548987 GTATAATATATATACTTATATATAA
1 GTATAATATATATACTTATACATAA
1549012 GTATA
1 GTATA
1549017 TATGCCTTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 4 0.15
25 22 0.85
ACGTcount: A:0.43, C:0.06, G:0.07, T:0.44
Consensus pattern (25 bp):
GTATAATATATATACTTATACATAA
Found at i:1550044 original size:25 final size:25
Alignment explanation
Indices: 1549993--1550044 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
1549983 TGAGAGATTA
*
1549993 AATTTTAACATAAATTTATTTAGTT
1 AATTTTAACATAAATTTATGTAGTT
**
1550018 AATTTTATTATAAATTTAGTGTA-TT
1 AATTTTAACATAAATTTA-TGTAGTT
1550043 AA
1 AA
1550045 AGTGTAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 20 0.87
26 3 0.13
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (25 bp):
AATTTTAACATAAATTTATGTAGTT
Found at i:1551628 original size:21 final size:22
Alignment explanation
Indices: 1551594--1551635 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
1551584 ACATAGAAAA
1551594 TAAATTAAACTTATA-AATATT
1 TAAATTAAACTTATATAATATT
**
1551615 TAAATTAATTTTATATAATAT
1 TAAATTAAACTTATATAATAT
1551636 AATAAAGAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (22 bp):
TAAATTAAACTTATATAATATT
Found at i:1551855 original size:20 final size:20
Alignment explanation
Indices: 1551827--1551879 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
1551817 GATTTTCCAT
*
1551827 AATCGCAACGCGAATATGA-A
1 AATCGCAACGCGAACAT-ATA
*
1551847 AATCACAACGCGAACATATA
1 AATCGCAACGCGAACATATA
1551867 AATCGCAACGCGA
1 AATCGCAACGCGA
1551880 TTCTGATTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 1 0.03
20 28 0.97
ACGTcount: A:0.45, C:0.25, G:0.17, T:0.13
Consensus pattern (20 bp):
AATCGCAACGCGAACATATA
Found at i:1551928 original size:16 final size:17
Alignment explanation
Indices: 1551902--1551933 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
1551892 CAACGAGTAT
1551902 CCGTAAAATCGCAACGC
1 CCGTAAAATCGCAACGC
1551919 CCGT-AAATCGCAACG
1 CCGTAAAATCGCAACG
1551934 AGAATACGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.34, C:0.34, G:0.19, T:0.12
Consensus pattern (17 bp):
CCGTAAAATCGCAACGC
Found at i:1551945 original size:20 final size:20
Alignment explanation
Indices: 1551920--1552033 Score: 122
Period size: 20 Copynumber: 5.7 Consensus size: 20
1551910 TCGCAACGCC
1551920 CGTAAATCGCAACGAGAATA
1 CGTAAATCGCAACGAGAATA
* * *
1551940 CGTAAATCGTAACGCGTAT-
1 CGTAAATCGCAACGAGAATA
1551959 CTGTAAATCGCAACGAGAATA
1 C-GTAAATCGCAACGAGAATA
* * * *
1551980 CGTAAATCGCAATGTGTATC
1 CGTAAATCGCAACGAGAATA
* *
1552000 CGTAAATCACAACGACAATA
1 CGTAAATCGCAACGAGAATA
1552020 CGTAAAATCGCAAC
1 CGT-AAATCGCAAC
1552034 TTGTATCCAT
Statistics
Matches: 74, Mismatches: 17, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
19 1 0.01
20 63 0.85
21 10 0.14
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.20
Consensus pattern (20 bp):
CGTAAATCGCAACGAGAATA
Found at i:1551972 original size:40 final size:40
Alignment explanation
Indices: 1551919--1552054 Score: 191
Period size: 40 Copynumber: 3.4 Consensus size: 40
1551909 ATCGCAACGC
* *
1551919 CCGTAAATCGCAACGAGAATACGTAAATCGTAACGCGTAT
1 CCGTAAATCGCAACGAGAATACGTAAATCGCAACGTGTAT
* *
1551959 CTGTAAATCGCAACGAGAATACGTAAATCGCAATGTGTAT
1 CCGTAAATCGCAACGAGAATACGTAAATCGCAACGTGTAT
* * *
1551999 CCGTAAATCACAACGACAATACGTAAAATCGCAACTTGTAT
1 CCGTAAATCGCAACGAGAATACGT-AAATCGCAACGTGTAT
*
1552040 CCATAAATCGCAACG
1 CCGTAAATCGCAACG
1552055 CGATTTTTAA
Statistics
Matches: 84, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
40 57 0.68
41 27 0.32
ACGTcount: A:0.39, C:0.23, G:0.17, T:0.21
Consensus pattern (40 bp):
CCGTAAATCGCAACGAGAATACGTAAATCGCAACGTGTAT
Found at i:1552683 original size:21 final size:20
Alignment explanation
Indices: 1552616--1552726 Score: 76
Period size: 20 Copynumber: 5.8 Consensus size: 20
1552606 TTCTAAACTT
*
1552616 AAAATCGCAACATGAAAATG
1 AAAATCGCAACACGAAAATG
1552636 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** *
1552656 ACTATCGCAACGA-GAGAAATA
1 AAAATCGCAAC-ACGA-AAATG
*
1552677 AAAATCG-GA-ACG---A-G
1 AAAATCGCAACACGAAAATG
* *
1552691 AGAATCGCAACGCG-AAATG
1 AAAATCGCAACACGAAAATG
*
1552710 AAAATCGCAACGCGAAA
1 AAAATCGCAACACGAAA
1552727 CCAAAATCGC
Statistics
Matches: 70, Mismatches: 12, Indels: 18
0.70 0.12 0.18
Matches are distributed among these distances:
14 6 0.09
15 2 0.03
16 2 0.03
18 2 0.03
19 15 0.21
20 33 0.47
21 10 0.14
ACGTcount: A:0.50, C:0.19, G:0.20, T:0.11
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:1552793 original size:20 final size:21
Alignment explanation
Indices: 1552770--1552816 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
1552760 ATTGCGATAG
* *
1552770 TCATTTC-CGCGTTTCGATTT
1 TCATTTCTCGCGTTGCAATTT
*
1552790 TCA-TTCTCTCGTTGCAATTT
1 TCATTTCTCGCGTTGCAATTT
1552810 TCATTTC
1 TCATTTC
1552817 AACCAAAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 3 0.14
20 16 0.73
21 3 0.14
ACGTcount: A:0.13, C:0.26, G:0.11, T:0.51
Consensus pattern (21 bp):
TCATTTCTCGCGTTGCAATTT
Found at i:1554859 original size:21 final size:21
Alignment explanation
Indices: 1554835--1554901 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
1554825 TCATTCCTCG
1554835 AGAGTCCCCTCTCACCGTTCA
1 AGAGTCCCCTCTCACCGTTCA
* * * * *
1554856 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCTCACCGTTCA
* *
1554877 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCTCACCGTTCA
1554898 AGAG
1 AGAG
1554902 CCCGATTCAC
Statistics
Matches: 33, Mismatches: 12, Indels: 3
0.69 0.25 0.06
Matches are distributed among these distances:
20 1 0.03
21 31 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.34, G:0.21, T:0.21
Consensus pattern (21 bp):
AGAGTCCCCTCTCACCGTTCA
Found at i:1556246 original size:14 final size:14
Alignment explanation
Indices: 1556227--1556259 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
1556217 GTTTAATTGT
1556227 TTTGTAAAAGATGA
1 TTTGTAAAAGATGA
*
1556241 TTTGTAAAAGTTGA
1 TTTGTAAAAGATGA
1556255 TTTGT
1 TTTGT
1556260 TTAATTGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.45
Consensus pattern (14 bp):
TTTGTAAAAGATGA
Found at i:1556388 original size:19 final size:17
Alignment explanation
Indices: 1556366--1556457 Score: 52
Period size: 19 Copynumber: 5.4 Consensus size: 17
1556356 AAAAATAACT
1556366 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAAT-AAA
* *
1556385 ATCGCAA-CG--AGAGA
1 ATCGCAAGCGAAATAAA
*
1556399 ATCGCAATGCAAAATTAAA
1 ATCGCAA-GCGAAA-TAAA
*
1556418 ATCACAA-CG-AA-AAA
1 ATCGCAAGCGAAATAAA
1556432 ATCGCAACGCGAAACTAAA
1 ATCGCAA-GCGAAA-TAAA
1556451 ATCGCAA
1 ATCGCAA
1556458 CGTGAAACTA
Statistics
Matches: 55, Mismatches: 8, Indels: 20
0.66 0.10 0.24
Matches are distributed among these distances:
14 18 0.33
15 1 0.02
16 5 0.09
17 5 0.09
18 1 0.02
19 25 0.45
ACGTcount: A:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (17 bp):
ATCGCAAGCGAAATAAA
Found at i:1556408 original size:33 final size:32
Alignment explanation
Indices: 1556366--1556459 Score: 116
Period size: 33 Copynumber: 2.8 Consensus size: 32
1556356 AAAAATAACT
* *
1556366 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAAT-AAAATCGCAACGAAAAA
* *
1556399 ATCGCAATGCAAAATTAAAATCACAACGAAAAA
1 ATCGCAATGCGAAA-TAAAATCGCAACGAAAAA
*
1556432 ATCGCAACGCGAAACTAAAATCGCAACG
1 ATCGCAATGCGAAA-TAAAATCGCAACG
1556460 TGAAACTAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
33 51 0.98
34 1 0.02
ACGTcount: A:0.49, C:0.21, G:0.17, T:0.13
Consensus pattern (32 bp):
ATCGCAATGCGAAATAAAATCGCAACGAAAAA
Found at i:1556458 original size:19 final size:19
Alignment explanation
Indices: 1556429--1556469 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
1556419 TCACAACGAA
1556429 AAAATCGCAACGCGAAACT
1 AAAATCGCAACGCGAAACT
*
1556448 AAAATCGCAACGTGAAACT
1 AAAATCGCAACGCGAAACT
1556467 AAA
1 AAA
1556470 TTCGAGTTGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.51, C:0.22, G:0.15, T:0.12
Consensus pattern (19 bp):
AAAATCGCAACGCGAAACT
Done.