Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 35 of 332
Found at i:10735480 original size:79 final size:78
Alignment explanation
Indices: 10735380--10735604 Score: 274
Period size: 79 Copynumber: 2.8 Consensus size: 78
10735370 GCTCCTCGTT
* *
10735380 CAAATGCCTTCGAGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCG-GACTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
10735445 ATTTAGTAACTCGCA
64 ATTTAGTAACTCGCA
* * * *
10735460 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 CAAATGCCTTCGGACTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCGG
*
10735524 ATTTAGTATCTCGCA
64 ATTTAGTAACTCGCA
* * * *
10735539 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGA-CTTAGCCCGG-TATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
10735603 GA
63 GA
10735605 CATCATTCAA
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
78 4 0.03
79 67 0.54
80 41 0.33
81 12 0.10
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGACTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
TTAGTAACTCGCA
Found at i:10735564 original size:119 final size:120
Alignment explanation
Indices: 10735380--10735604 Score: 298
Period size: 119 Copynumber: 1.9 Consensus size: 120
10735370 GCTCCTCGTT
10735380 CAAATGCCTTCGAGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGAGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
10735445 ATTTAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * * **
10735499 CAAATGCCTTCG-GATCTTAGTCCGGATT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCGAGA-CATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACC
* *
10735561 CGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
63 CGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
10735605 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
118 5 0.05
119 66 0.72
120 21 0.23
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (120 bp):
CAAATGCCTTCGAGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:10737460 original size:20 final size:20
Alignment explanation
Indices: 10737435--10737474 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
10737425 TCACACATTC
*
10737435 ATAATTA-CATATTCTAGACA
1 ATAATTATCACATTC-AGACA
10737455 ATAATTATCACATTCAGACA
1 ATAATTATCACATTCAGACA
10737475 TTTCGGTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (20 bp):
ATAATTATCACATTCAGACA
Found at i:10743739 original size:40 final size:40
Alignment explanation
Indices: 10743695--10743918 Score: 228
Period size: 40 Copynumber: 5.6 Consensus size: 40
10743685 GCTCCTCGTT
*
10743695 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
10743735 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* * * *
10743775 CAAATTCCTTCGGG-CTTAGCCCGG-AATTAGTATCTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* *
10743814 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGG-TTATAGTAACTCGCA
* * * * *
10743854 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
10743895 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
10743919 ACATCATTCA
Statistics
Matches: 157, Mismatches: 17, Indels: 20
0.81 0.09 0.10
Matches are distributed among these distances:
38 2 0.01
39 30 0.19
40 112 0.71
41 13 0.08
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:10743796 original size:79 final size:78
Alignment explanation
Indices: 10743695--10743919 Score: 256
Period size: 79 Copynumber: 2.8 Consensus size: 78
10743685 GCTCCTCGTT
* * *
10743695 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
10743760 ATTTAGTAACTCGCA
64 ATTTAGTAACTCGCA
* * * * *
10743775 CAAATTCCTTCGGGCTTAGCCCGGAATTAGTATCTTGCACAAATGCCTTC-GGATCTTAGTCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAACTAGCACAAATGCCTTCGGGA-CTTAGCCCGG
*
10743839 ATTTAGTATCTCGCA
64 ATTTAGTAACTCGCA
* * * *
10743854 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGTAAC-TAGCACAAATGCCTTCGGGACTTAGCCCG
10743918 GA
63 GA
10743920 CATCATTCAA
Statistics
Matches: 122, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
78 4 0.03
79 64 0.52
80 42 0.34
81 12 0.10
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAT
TTAGTAACTCGCA
Found at i:10743879 original size:119 final size:120
Alignment explanation
Indices: 10743695--10743919 Score: 289
Period size: 119 Copynumber: 1.9 Consensus size: 120
10743685 GCTCCTCGTT
10743695 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* * *
10743760 ATTTAGTAAC-TCGCACAAATTCCTTCGGG-CTTAGCCCGGAATTAGTATCTTGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGAATTAGTATCTTGCA
* * * **
10743814 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACC
* *
10743876 CGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
63 CGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
10743920 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
118 6 0.07
119 64 0.70
120 21 0.23
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGAATTAGTATCTTGCA
Found at i:10745779 original size:20 final size:20
Alignment explanation
Indices: 10745754--10745793 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
10745744 TCACACATTC
*
10745754 ATAATTA-CATATTCTAGACA
1 ATAATTATCACATTC-AGACA
10745774 ATAATTATCACATTCAGACA
1 ATAATTATCACATTCAGACA
10745794 TTTCGGTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (20 bp):
ATAATTATCACATTCAGACA
Found at i:10750273 original size:15 final size:15
Alignment explanation
Indices: 10750253--10750292 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
10750243 CTTGAACTTA
10750253 GGTTTCCATGGCTAG
1 GGTTTCCATGGCTAG
10750268 GGTTTCCATGGCTAG
1 GGTTTCCATGGCTAG
10750283 GGTTTCCATG
1 GGTTTCCATG
10750293 CTTTTAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.12, C:0.20, G:0.33, T:0.35
Consensus pattern (15 bp):
GGTTTCCATGGCTAG
Found at i:10753109 original size:18 final size:18
Alignment explanation
Indices: 10753073--10753108 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
10753063 AATTCTCTCC
10753073 TCATTATTGTTGTTGTTT
1 TCATTATTGTTGTTGTTT
*
10753091 TCATTTTTGTT-TTGTTT
1 TCATTATTGTTGTTGTTT
10753108 T
1 T
10753109 TTCCTATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.08, C:0.06, G:0.14, T:0.72
Consensus pattern (18 bp):
TCATTATTGTTGTTGTTT
Found at i:10754153 original size:34 final size:35
Alignment explanation
Indices: 10754110--10754187 Score: 140
Period size: 34 Copynumber: 2.3 Consensus size: 35
10754100 TAACTGCTAC
10754110 TGATACTGTGATGGGCTAAGGCCCTAATGCATA-T
1 TGATACTGTGATGGGCTAAGGCCCTAATGCATATT
*
10754144 TGATACTGTGATGGGCTAAGGCCCTACTGCATATT
1 TGATACTGTGATGGGCTAAGGCCCTAATGCATATT
10754179 TGATACTGT
1 TGATACTGT
10754188 ACTGAGATGG
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
34 32 0.76
35 10 0.24
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (35 bp):
TGATACTGTGATGGGCTAAGGCCCTAATGCATATT
Found at i:10754202 original size:40 final size:38
Alignment explanation
Indices: 10754093--10754207 Score: 130
Period size: 34 Copynumber: 3.0 Consensus size: 38
10754083 TGTTACTGAA
* *
10754093 TAATGCATAACTGCTACTGATACTGTGATGGGCTAAGGCCC
1 TAATGCAT-ATTGATACTG-TACTG-GATGGGCTAAGGCCC
10754134 TAATGCATATTGATACTG---T-GATGGGCTAAGGCCC
1 TAATGCATATTGATACTGTACTGGATGGGCTAAGGCCC
*
10754168 TACTGCATATTTGATACTGTACTGAGATGGGCTAAGGCCC
1 TAATGCATA-TTGATACTGTACTG-GATGGGCTAAGGCCC
10754208 AAACTGTTAC
Statistics
Matches: 65, Mismatches: 3, Indels: 13
0.80 0.04 0.16
Matches are distributed among these distances:
34 23 0.35
35 9 0.14
36 1 0.02
38 1 0.02
40 23 0.35
41 8 0.12
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (38 bp):
TAATGCATATTGATACTGTACTGGATGGGCTAAGGCCC
Found at i:10754233 original size:33 final size:34
Alignment explanation
Indices: 10754182--10754248 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 34
10754172 GCATATTTGA
*
10754182 TACTGTACTGAGATGGGCTAAGGCCC-AAACTGT
1 TACTGTACTGAGAGGGGCTAAGGCCCAAAACTGT
*
10754215 TACTGATACTGA-AGGGGCTTAGGCCCAAAACTGT
1 TACTG-TACTGAGAGGGGCTAAGGCCCAAAACTGT
10754249 ATTTGACTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
33 17 0.57
34 13 0.43
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (34 bp):
TACTGTACTGAGAGGGGCTAAGGCCCAAAACTGT
Found at i:10755060 original size:16 final size:17
Alignment explanation
Indices: 10755028--10755060 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10755018 GTATATACTG
*
10755028 GAAACTATAGTTAAACT
1 GAAACTATAGATAAACT
10755045 GAAACTATA-ATAAACT
1 GAAACTATAGATAAACT
10755061 ACTAAAGACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.52, C:0.12, G:0.09, T:0.27
Consensus pattern (17 bp):
GAAACTATAGATAAACT
Found at i:10760319 original size:3 final size:3
Alignment explanation
Indices: 10760311--10760376 Score: 105
Period size: 3 Copynumber: 22.0 Consensus size: 3
10760301 TTTTCCTCCA
* * *
10760311 CTT CTT CTT CTT CTT TTT TTT CTT CTT TTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
10760359 CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT
10760377 TCTTTCTTTC
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
CTT
Found at i:10760335 original size:12 final size:12
Alignment explanation
Indices: 10760315--10760426 Score: 106
Period size: 12 Copynumber: 9.3 Consensus size: 12
10760305 CCTCCACTTC
10760315 TTCTTCTTCTTT
1 TTCTTCTTCTTT
*
10760327 TTTTTCTTCTTT
1 TTCTTCTTCTTT
*
10760339 TTCTTCTTCTTC
1 TTCTTCTTCTTT
*
10760351 TTCTTCTTCTTC
1 TTCTTCTTCTTT
10760363 TTCTTCTTCTTCT
1 TTCTTCTTCTT-T
10760376 TTC-T-TTCTTT
1 TTCTTCTTCTTT
*
10760386 CT-TTCTT-TTT
1 TTCTTCTTCTTT
*
10760396 TTATTTCTTTCTTT
1 TT-CTTC-TTCTTT
*
10760410 CTCTTCTTCTTT
1 TTCTTCTTCTTT
10760422 GTTCT
1 -TTCT
10760427 CTGCCAAATT
Statistics
Matches: 83, Mismatches: 9, Indels: 15
0.78 0.08 0.14
Matches are distributed among these distances:
10 7 0.08
11 7 0.08
12 54 0.65
13 11 0.13
14 4 0.05
ACGTcount: A:0.01, C:0.25, G:0.01, T:0.73
Consensus pattern (12 bp):
TTCTTCTTCTTT
Found at i:10760381 original size:4 final size:4
Alignment explanation
Indices: 10760372--10760421 Score: 66
Period size: 4 Copynumber: 12.5 Consensus size: 4
10760362 CTTCTTCTTC
* *
10760372 TTCT TTCT TTCT TTCT TTCT TTTT TTAT TTCT TTCT TTCT CTTC- TTCT
1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT -TTCT TTCT
10760420 TT
1 TT
10760422 GTTCTCTGCC
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
3 3 0.07
4 35 0.85
5 3 0.07
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (4 bp):
TTCT
Found at i:10761527 original size:34 final size:34
Alignment explanation
Indices: 10761478--10761556 Score: 104
Period size: 34 Copynumber: 2.3 Consensus size: 34
10761468 GCATGACTGC
* * *
10761478 TACTAATACTGTGATGGGCTAAGGCCCTAATGCA
1 TACTGATACTATGATGGGCTAAGACCCTAATGCA
*
10761512 TACTGATACTATGATGGGCTAAGACCCTATTGCA
1 TACTGATACTATGATGGGCTAAGACCCTAATGCA
*
10761546 TATTTGATACT
1 TA-CTGATACT
10761557 GTACTAAGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
34 32 0.82
35 7 0.18
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (34 bp):
TACTGATACTATGATGGGCTAAGACCCTAATGCA
Found at i:10765716 original size:49 final size:49
Alignment explanation
Indices: 10765646--10765744 Score: 171
Period size: 49 Copynumber: 2.0 Consensus size: 49
10765636 TTTTGTAACT
* * *
10765646 AAATAATGTTAGCAATCACTTTGAAGCCAATTTTGGACTTTAGAAAATA
1 AAATAATGTTAACAATAACTTTGAAGCCAACTTTGGACTTTAGAAAATA
10765695 AAATAATGTTAACAATAACTTTGAAGCCAACTTTGGACTTTAGAAAATA
1 AAATAATGTTAACAATAACTTTGAAGCCAACTTTGGACTTTAGAAAATA
10765744 A
1 A
10765745 GTACTCAAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.31
Consensus pattern (49 bp):
AAATAATGTTAACAATAACTTTGAAGCCAACTTTGGACTTTAGAAAATA
Found at i:10770705 original size:3 final size:3
Alignment explanation
Indices: 10770697--10770743 Score: 85
Period size: 3 Copynumber: 15.3 Consensus size: 3
10770687 TGGTAAATGC
10770697 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
10770743 T
1 T
10770744 GTCATGTAGA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 40 0.93
4 3 0.07
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:10771215 original size:20 final size:20
Alignment explanation
Indices: 10771192--10771236 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
10771182 ATCAAGCTCA
*
10771192 AAGTATCAATATTCTGAATG
1 AAGTATCAATATTCTGAAGG
10771212 AAGTATCAATATTCTGAAGG
1 AAGTATCAATATTCTGAAGG
10771232 AAGTA
1 AAGTA
10771237 CCGATATTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.31
Consensus pattern (20 bp):
AAGTATCAATATTCTGAAGG
Found at i:10771243 original size:20 final size:20
Alignment explanation
Indices: 10771192--10771244 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
10771182 ATCAAGCTCA
* *
10771192 AAGTATCAATATTCTGAATG
1 AAGTACCAATATTCTGAAGG
*
10771212 AAGTATCAATATTCTGAAGG
1 AAGTACCAATATTCTGAAGG
*
10771232 AAGTACCGATATT
1 AAGTACCAATATT
10771245 TCTTGAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.32
Consensus pattern (20 bp):
AAGTACCAATATTCTGAAGG
Found at i:10782997 original size:46 final size:46
Alignment explanation
Indices: 10782847--10783058 Score: 187
Period size: 46 Copynumber: 4.5 Consensus size: 46
10782837 TTTGTGCGCT
* * * * *
10782847 AGTGTAAGACATATCTGGGACATGCATCGGTCACACTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGCAATGAGAGCC
* * * * * * *
10782893 ATTGTAAGACCATGTTTGGGACATGGCATTGGCATTGAAACGAGAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGCAATGAGAGCC
10782941 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGCAATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGCAATG-AGAGCC
* ***
10782987 AGCGTAAGACATGTCAACGACATGCATCGGCAC-CG-AGATGTGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC-CTCGCA-A--TGAGAGCC
10783035 AGTGTAAGACCATGTCTGGGACAT
1 AGTGTAAGA-CATGTCTGGGACAT
10783059 TGCGTTGGCC
Statistics
Matches: 130, Mismatches: 27, Indels: 15
0.76 0.16 0.09
Matches are distributed among these distances:
45 1 0.01
46 54 0.42
47 28 0.22
48 36 0.28
49 11 0.08
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.21
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGCAATGAGAGCC
Found at i:10784338 original size:22 final size:20
Alignment explanation
Indices: 10784309--10784348 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
10784299 TCGAATTGGT
*
10784309 CACAGGGCGTGTTGCCCCTCC
1 CACAGGGCATG-TGCCCCTCC
10784330 CACACGGGCATGTGCCCCT
1 CACA-GGGCATGTGCCCCT
10784349 GTGTCTAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.12, C:0.42, G:0.28, T:0.17
Consensus pattern (20 bp):
CACAGGGCATGTGCCCCTCC
Found at i:10791897 original size:200 final size:200
Alignment explanation
Indices: 10791547--10792056 Score: 740
Period size: 200 Copynumber: 2.5 Consensus size: 200
10791537 TTGAATGTTA
* * * *
10791547 TTTGGTAAGATTTGGTGTATTTTATGTAGGTATAATGGATGGTAATTGCATGGCTTGTAAGA-TA
1 TTTGGCAAGATTTGGTGTATTTTAGGTAGGTATAATGGATGGTAATTGCATGGATTTTAA-ACTA
* * * *
10791611 AGAAATTATAGGTAAAATGACTTGGTTTTGAAGGCATGTTTAGGTGCACACTGCTTGCCATACGG
65 AGAAATTATAGGTAAAATGACTTGGTTTTGAAGGCATGTTTAGGTGCACACGGCCTGCCACACAG
** **
10791676 TCGTGTGTCACACACAGTTGCATGACAC-AGCATATTGGCTAGACACCT-AGGTTTAATGT-TAT
130 TCGCATGTCACACACAGTTGCATGACACGA-CATATTGGCTAGACA-CTGAGGTAGAATGTCT-T
10791738 TTGGTATGT
192 TTGGTATGT
10791747 TTTGGCAAGATTTGGTGTATTTTAGGTAGGTATAATGGATGGTAATTGCATGGATTTTAAACTAA
1 TTTGGCAAGATTTGGTGTATTTTAGGTAGGTATAATGGATGGTAATTGCATGGATTTTAAACTAA
* * *
10791812 GAAATTATAGGTAAAATGACTTGGTTTTAAAGGCATGTTTAGGTGCGCACGGCCTGCCACATAGT
66 GAAATTATAGGTAAAATGACTTGGTTTTGAAGGCATGTTTAGGTGCACACGGCCTGCCACACAGT
* * * *
10791877 CGCATGTCACATATAGTTGCATGACACGACATATTGGTTAGACAGTGAGGTAGAATGTCTTTTGG
131 CGCATGTCACACACAGTTGCATGACACGACATATTGGCTAGACACTGAGGTAGAATGTCTTTTGG
10791942 TATGT
196 TATGT
* * * *
10791947 TTTGGCTATATTTGGTGTATTTTAGGTAGGTATAATGGATAGTAATTGCATGGATTTTAATCTAA
1 TTTGGCAAGATTTGGTGTATTTTAGGTAGGTATAATGGATGGTAATTGCATGGATTTTAAACTAA
*
10792012 GAAATTATAGGTAAAATGAATTGGTTTTGAAGGCATGTTTAGGTG
66 GAAATTATAGGTAAAATGACTTGGTTTTGAAGGCATGTTTAGGTG
10792057 TACATGTTCA
Statistics
Matches: 281, Mismatches: 25, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
199 2 0.01
200 277 0.99
201 2 0.01
ACGTcount: A:0.28, C:0.10, G:0.26, T:0.36
Consensus pattern (200 bp):
TTTGGCAAGATTTGGTGTATTTTAGGTAGGTATAATGGATGGTAATTGCATGGATTTTAAACTAA
GAAATTATAGGTAAAATGACTTGGTTTTGAAGGCATGTTTAGGTGCACACGGCCTGCCACACAGT
CGCATGTCACACACAGTTGCATGACACGACATATTGGCTAGACACTGAGGTAGAATGTCTTTTGG
TATGT
Found at i:10796409 original size:14 final size:14
Alignment explanation
Indices: 10796387--10796440 Score: 60
Period size: 14 Copynumber: 4.0 Consensus size: 14
10796377 GCATATAGAA
*
10796387 CTTGCAAAACATAG
1 CTTGTAAAACATAG
10796401 CTTGTAAAACTATA-
1 CTTGTAAAAC-ATAG
*
10796415 CTTTTAAAACAT-G
1 CTTGTAAAACATAG
10796428 CTTG-AAAACATAG
1 CTTGTAAAACATAG
10796441 GCTCACATAG
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
12 7 0.21
13 6 0.18
14 18 0.53
15 3 0.09
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.30
Consensus pattern (14 bp):
CTTGTAAAACATAG
Found at i:10797061 original size:26 final size:26
Alignment explanation
Indices: 10797030--10797138 Score: 110
Period size: 27 Copynumber: 4.1 Consensus size: 26
10797020 TCAACTTTTG
**
10797030 ACTAGTGAACACCAGTTCGTAACTCA
1 ACTAGTGAACACCAGTTCACAACTCA
*
10797056 ATTAGTGAACCACCAGTTCACAACTCA
1 ACTAGTGAA-CACCAGTTCACAACTCA
* * * *
10797083 ACTGGTGAACACTAATTCACAACTAA
1 ACTAGTGAACACCAGTTCACAACTCA
* * *
10797109 ACTAATCAAACCCCAGTTCACAACTCA
1 ACTAGT-GAACACCAGTTCACAACTCA
10797136 ACT
1 ACT
10797139 GTCGAGCACT
Statistics
Matches: 66, Mismatches: 15, Indels: 3
0.79 0.18 0.04
Matches are distributed among these distances:
26 26 0.39
27 40 0.61
ACGTcount: A:0.39, C:0.29, G:0.10, T:0.22
Consensus pattern (26 bp):
ACTAGTGAACACCAGTTCACAACTCA
Found at i:10804072 original size:14 final size:15
Alignment explanation
Indices: 10804055--10804083 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
10804045 ATAAACATTT
10804055 TAAATTAAAC-AAAA
1 TAAATTAAACTAAAA
10804069 TAAATTAAACTAAAA
1 TAAATTAAACTAAAA
10804084 AACATTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (15 bp):
TAAATTAAACTAAAA
Found at i:10824272 original size:13 final size:13
Alignment explanation
Indices: 10824254--10824279 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10824244 TTTTGGCTAG
10824254 GAAGAAAGAAAGA
1 GAAGAAAGAAAGA
10824267 GAAGAAAGAAAGA
1 GAAGAAAGAAAGA
10824280 AGAGAAGAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (13 bp):
GAAGAAAGAAAGA
Found at i:10824296 original size:19 final size:17
Alignment explanation
Indices: 10824255--10824313 Score: 75
Period size: 19 Copynumber: 3.3 Consensus size: 17
10824245 TTTGGCTAGG
10824255 AAGAAAGAAAGAGAAG-A
1 AAGAAAG-AAGAGAAGAA
10824272 AAGAAAGAAGAGAAGAA
1 AAGAAAGAAGAGAAGAA
10824289 TAAGGAAAGAAGAGAAGAA
1 -AA-GAAAGAAGAGAAGAA
10824308 GAAGAA
1 -AAGAA
10824314 GGAGAAGGAG
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
16 8 0.21
17 8 0.21
18 5 0.13
19 17 0.45
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.02
Consensus pattern (17 bp):
AAGAAAGAAGAGAAGAA
Found at i:10824371 original size:20 final size:19
Alignment explanation
Indices: 10824340--10824382 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
10824330 CTGGTGAGGG
10824340 AAGAAAAAAGAAAAAGAAA
1 AAGAAAAAAGAAAAAGAAA
* *
10824359 AAGAAAAAGAGAAAGAGAAG
1 AAGAAAAA-AGAAAAAGAAA
10824379 AAGA
1 AAGA
10824383 GGGAGGGAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (19 bp):
AAGAAAAAAGAAAAAGAAA
Found at i:10824377 original size:6 final size:6
Alignment explanation
Indices: 10824344--10824374 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
10824334 TGAGGGAAGA
*
10824344 AAAAAG AAAAAG AAAAAG AAAAAG AGAAAG A
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG A
10824375 GAAGAAGAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:10824734 original size:17 final size:17
Alignment explanation
Indices: 10824714--10824746 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
10824704 CTTAATGAAA
10824714 AAATAAAATACAAAAAG
1 AAATAAAATACAAAAAG
10824731 AAATAAAATACAAAAA
1 AAATAAAATACAAAAA
10824747 AATAATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.79, C:0.06, G:0.03, T:0.12
Consensus pattern (17 bp):
AAATAAAATACAAAAAG
Found at i:10825008 original size:30 final size:30
Alignment explanation
Indices: 10824936--10825010 Score: 78
Period size: 30 Copynumber: 2.5 Consensus size: 30
10824926 CATTATGTAC
*
10824936 TAAAATAATAAAAAATAAAATGCAAAAATAG
1 TAAAAT-ATAAAAAATAAAATGCAAAAATAA
* * * * * *
10824967 TATATTTTAAAAAATAAAATTCGAGAATAA
1 TAAAATATAAAAAATAAAATGCAAAAATAA
10824997 TAAAATATAAAAAA
1 TAAAATATAAAAAA
10825011 ATAGCCAAAA
Statistics
Matches: 34, Mismatches: 10, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
30 30 0.88
31 4 0.12
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.25
Consensus pattern (30 bp):
TAAAATATAAAAAATAAAATGCAAAAATAA
Found at i:10825050 original size:40 final size:40
Alignment explanation
Indices: 10824997--10825093 Score: 101
Period size: 40 Copynumber: 2.5 Consensus size: 40
10824987 TCGAGAATAA
* ** *
10824997 TAAAAT-ATA-AAAAAATAGCCAAAATCA-GGATTTTTTAC
1 TAAAATAATATAAAAAATA-CCAAAATAATACATTTGTTAC
* * *
10825035 TAAATTAATATAAAAAACACTAAAATAATACATTTGTTAC
1 TAAAATAATATAAAAAATACCAAAATAATACATTTGTTAC
10825075 TAAAATAATATAAAAAATA
1 TAAAATAATATAAAAAATA
10825094 AAATACGAAA
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
38 5 0.11
39 10 0.21
40 32 0.68
ACGTcount: A:0.58, C:0.08, G:0.04, T:0.30
Consensus pattern (40 bp):
TAAAATAATATAAAAAATACCAAAATAATACATTTGTTAC
Found at i:10825203 original size:289 final size:287
Alignment explanation
Indices: 10824783--10825459 Score: 929
Period size: 289 Copynumber: 2.3 Consensus size: 287
10824773 GGCGAGTTTT
* * * * *
10824783 TTACTAAAAGAATAT-AAAAAGAAAATACAAAAATAATATA-TTTTAAAATATAAAATTCA-AAA
1 TTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTTAAAA-ATAAAA-TCAGAGA
* ** * * *
10824845 ATAAAAAATACAAATAAAGGGCCAAAATCAGTGTTTTTTACTAAATTAATATAAAAAAATACTAA
64 ATAAAAAATACAAACAAATAGACAAAATCAGGGGTTTTTACTAAATTAATATAAAAAAATACTAA
*
10824910 AATAATACATTTGAAACATTATGTACTAAAAT-A-ATAAAAAATAAAATGCAAAAATAGTATATT
129 AATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACAAAAATAGTATATT
*
10824973 TTAAAAAATAAAATTCGAGAATAATAAAATATAAA-AAAATAGCCAAAATCAGGATTTTTTACTA
194 TTAAAAAATAAAATTC--G-A-AA-AAAATACAAACAAAAT-GCCAAAATCAGGATTTTTTACTA
10825037 AATTAATATAAAAAACACTAAAATAATACATTTG-
253 AATTAATATAAAAAACACTAAAATAATACATTTGA
10825071 TTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTTAAAAATAAAATCAGAGAAT
1 TTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTTAAAAATAAAATCAGAGAAT
* * *
10825136 AAAAAATACAAACAAATATACAAGATTCAGGGGTTTTTACTAAATTAATATAAAAAAA-GCTAAA
66 AAAAAATACAAACAAATAGACAA-AATCAGGGGTTTTTACTAAATTAATATAAAAAAATACTAAA
*
10825200 ATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTT
130 ATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACAAAAATAGTATATTT
*
10825265 TAGAAAATAAAATTCGAAAAAAATACAAACAAAATGCCAAAATCAGGATTTTTTACTAAATTAAT
195 TAAAAAATAAAATTCGAAAAAAATACAAACAAAATGCCAAAATCAGGATTTTTTACTAAATTAAT
*
10825330 ATAAAAAATACTAAAATAATACATTTGAAACATTA
260 ATAAAAAACACTAAAATAATACATTTG-------A
* * *
10825365 TGTATTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTGAGAA
1 T-TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTTAAAAATAAAATCAGAGAA
*
10825430 TAAAAAAATACAAACAAATAGCCAAAATCA
65 T-AAAAAATACAAACAAATAGACAAAATCA
10825460 CCGAACAAAA
Statistics
Matches: 347, Mismatches: 25, Indels: 27
0.87 0.06 0.07
Matches are distributed among these distances:
286 65 0.19
287 7 0.02
288 18 0.05
289 87 0.25
290 40 0.12
291 43 0.12
294 1 0.00
295 65 0.19
296 21 0.06
ACGTcount: A:0.58, C:0.08, G:0.06, T:0.28
Consensus pattern (287 bp):
TTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTTAAAAATAAAATCAGAGAAT
AAAAAATACAAACAAATAGACAAAATCAGGGGTTTTTACTAAATTAATATAAAAAAATACTAAAA
TAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACAAAAATAGTATATTTT
AAAAAATAAAATTCGAAAAAAATACAAACAAAATGCCAAAATCAGGATTTTTTACTAAATTAATA
TAAAAAACACTAAAATAATACATTTGA
Found at i:10825356 original size:145 final size:147
Alignment explanation
Indices: 10824784--10825459 Score: 872
Period size: 145 Copynumber: 4.6 Consensus size: 147
10824774 GCGAGTTTTT
* * * * *
10824784 TACTAAAAGAATAT-AAAAAGAAAATACAAAAATAATATATTTTAAAATATAAAATTCAAAAATA
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAA-ATAAAATTC-AGAATA
* **
10824848 AAAAATACAAATAAAGGGCCAAAATCAGTG-TTTTTTACTAAATTAATATAAAAAAATACTAAAA
64 AAAAATACAAACAAAATGCCAAAATCAG-GATTTTTTACTAAATTAATAT-AAAAAATACTAAAA
10824912 TAATACATTTGAAACATTATG
127 TAATACATTTGAAACATTATG
* *
10824933 TACTAAAAT-A-ATAAAAAATAAAATGCAAAAATAGTATATTTTAAAAAATAAAATTCGAGAATA
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTT-AAAAATAAAATTC-AGAATA
* *
10824996 ATAAAATATAAA-AAAATAGCCAAAATCAGGATTTTTTACTAAATTAATATAAAAAACACTAAAA
64 A-AAAATACAAACAAAAT-GCCAAAATCAGGATTTTTTACTAAATTAATATAAAAAATACTAAAA
10825060 TAATACATTTG--------T-
127 TAATACATTTGAAACATTATG
10825072 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTTAAAAATAAAA-TCAGAGAAT
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATA-TTTTAAAAATAAAATTC--AGAAT
* * **
10825136 AAAAAATACAAACAAATAT-ACAAGATTCAGGGGTTTTTACTAAATTAATATAAAAAA-AGCTAA
63 AAAAAATACAAACAAA-ATGCCAA-AATCAGGATTTTTTACTAAATTAATATAAAAAATA-CTAA
10825199 AATAATACATTTGAAACATTATG
125 AATAATACATTTGAAACATTATG
10825222 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAGAAAATAAAATTC-G-A-AA
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTA-AAAATAAAATTCAGAATAA
10825284 AAAATACAAACAAAATGCCAAAATCAGGATTTTTTACTAAATTAATATAAAAAATACTAAAATAA
65 AAAATACAAACAAAATGCCAAAATCAGGATTTTTTACTAAATTAATATAAAAAATACTAAAATAA
10825349 TACATTTGAAACATTATG
130 TACATTTGAAACATTATG
* *
10825367 TATTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTGAGAATA
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTT-AAAAATAAAAT-TCAGAAT-
10825432 AAAAAATACAAAC-AAATAGCCAAAATCA
63 AAAAAATACAAACAAAAT-GCCAAAATCA
10825460 CCGAACAAAA
Statistics
Matches: 471, Mismatches: 23, Indels: 65
0.84 0.04 0.12
Matches are distributed among these distances:
139 9 0.02
140 17 0.04
141 94 0.20
142 6 0.01
145 112 0.24
146 22 0.05
147 4 0.01
148 72 0.15
149 61 0.13
150 72 0.15
151 2 0.00
ACGTcount: A:0.58, C:0.08, G:0.06, T:0.28
Consensus pattern (147 bp):
TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAATAAAATTCAGAATAAA
AAATACAAACAAAATGCCAAAATCAGGATTTTTTACTAAATTAATATAAAAAATACTAAAATAAT
ACATTTGAAACATTATG
Found at i:10827515 original size:6 final size:6
Alignment explanation
Indices: 10827504--10827550 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
10827494 TGGCCGATAT
* * *
10827504 AGAGCC AGAGCC ATAGCC AGATCC CGAGCC TA-AGCC AGAGCC AGAGC
1 AGAGCC AGAGCC AGAGCC AGAGCC AGAGCC -AGAGCC AGAGCC AGAGC
10827551 TACAACCGGA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
5 1 0.03
6 32 0.97
ACGTcount: A:0.32, C:0.34, G:0.28, T:0.06
Consensus pattern (6 bp):
AGAGCC
Found at i:10827550 original size:18 final size:18
Alignment explanation
Indices: 10827504--10827550 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
10827494 TGGCCGATAT
10827504 AGAGCCAGAGCCATAGCC
1 AGAGCCAGAGCCATAGCC
* *
10827522 AGATCCCGAGCC-TAAGCC
1 AGAGCCAGAGCCAT-AGCC
10827540 AGAGCCAGAGC
1 AGAGCCAGAGC
10827551 TACAACCGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
17 1 0.04
18 23 0.96
ACGTcount: A:0.32, C:0.34, G:0.28, T:0.06
Consensus pattern (18 bp):
AGAGCCAGAGCCATAGCC
Found at i:10827756 original size:33 final size:33
Alignment explanation
Indices: 10827719--10827807 Score: 115
Period size: 33 Copynumber: 2.7 Consensus size: 33
10827709 TCTCCCAGCT
* **
10827719 CGTATCCACCGCAGTACTCCACTAGCCCCGGCC
1 CGTATCCACCGCAGTACTCCACTACCCCCAACC
* **
10827752 CGTATCCACCACAGTACAGCACTACCCCCAACC
1 CGTATCCACCGCAGTACTCCACTACCCCCAACC
*
10827785 CGTATCTACCGCAGTACTCCACT
1 CGTATCCACCGCAGTACTCCACT
10827808 CCTCTTGAGT
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.24, C:0.46, G:0.13, T:0.17
Consensus pattern (33 bp):
CGTATCCACCGCAGTACTCCACTACCCCCAACC
Found at i:10828239 original size:26 final size:26
Alignment explanation
Indices: 10828203--10828286 Score: 91
Period size: 26 Copynumber: 3.1 Consensus size: 26
10828193 GGAACAAACT
10828203 TTAAATACATTACAACATTAATCTAA
1 TTAAATACATTACAACATTAATCTAA
*
10828229 TTAAATACATTA-ATCTAATTGGAA-CATTAA
1 TTAAATACATTACAAC--ATT--AATC--TAA
10828259 TTAAATACATTACAACATTAATCTAA
1 TTAAATACATTACAACATTAATCTAA
10828285 TT
1 TT
10828287 GGAACAAACT
Statistics
Matches: 48, Mismatches: 2, Indels: 16
0.73 0.03 0.24
Matches are distributed among these distances:
25 2 0.04
26 17 0.35
27 5 0.10
28 2 0.04
29 5 0.10
30 15 0.31
31 2 0.04
ACGTcount: A:0.48, C:0.13, G:0.02, T:0.37
Consensus pattern (26 bp):
TTAAATACATTACAACATTAATCTAA
Found at i:10828292 original size:17 final size:17
Alignment explanation
Indices: 10828211--10828292 Score: 65
Period size: 17 Copynumber: 4.5 Consensus size: 17
10828201 CTTTAAATAC
*
10828211 ATTACAACATTAATCTA
1 ATTAGAACATTAATCTA
*
10828228 ATTAAATACATTAATCTA
1 ATTAGA-ACATTAATCTA
* *
10828246 ATTGGAACATTAATTAAATA
1 ATTAGAACATTAA-T--CTA
*
10828266 CATTACAACATTAATCTA
1 -ATTAGAACATTAATCTA
*
10828284 ATTGGAACA
1 ATTAGAACA
10828293 AACTTTGTAA
Statistics
Matches: 51, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
17 19 0.37
18 18 0.35
20 3 0.06
21 11 0.22
ACGTcount: A:0.48, C:0.13, G:0.05, T:0.34
Consensus pattern (17 bp):
ATTAGAACATTAATCTA
Found at i:10832354 original size:40 final size:40
Alignment explanation
Indices: 10832310--10832533 Score: 244
Period size: 40 Copynumber: 5.7 Consensus size: 40
10832300 GCTCCTCGTT
* *
10832310 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
10832350 CAAATGCCTTCGGGACTTAACCCGGATTTTGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
10832390 CAAATGCCTTCGGG-CTTAGCCC-GAAATTAGTATCTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* *
10832429 CAAATGCCTTC-GGATCTTAGTCCGGATAT-GTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTCGCA
* * * *
10832468 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
10832509 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
10832534 CATCATTCAA
Statistics
Matches: 159, Mismatches: 18, Indels: 14
0.83 0.09 0.07
Matches are distributed among these distances:
38 4 0.03
39 65 0.41
40 76 0.48
41 14 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:10832412 original size:79 final size:78
Alignment explanation
Indices: 10832310--10832533 Score: 256
Period size: 79 Copynumber: 2.8 Consensus size: 78
10832300 GCTCCTCGTT
* * * *
10832310 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
*
10832375 ATTTTGTAACTCGCA
65 A-TATGTAACTCGCA
* * *
10832390 CAAATGCCTTCGGGCTTAGCCC-GAAATTAGTATCTAGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAATGCCTTCGGGCTTAGCCCGGATA-TAGTAACTAGCACAAATGCCTTCGGGA-CTTAGCCCG
*
10832453 GATATGTATCTCGCA
64 GATATGTAACTCGCA
* * * *
10832468 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGGATATAGTAAC-TAGCACAAATGCCTTCGGGACTTAGCCCG
10832532 GA
64 GA
10832534 CATCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 13
0.81 0.11 0.09
Matches are distributed among these distances:
78 29 0.24
79 64 0.52
80 29 0.24
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGA
TATGTAACTCGCA
Found at i:10835172 original size:42 final size:42
Alignment explanation
Indices: 10835085--10835214 Score: 121
Period size: 42 Copynumber: 3.3 Consensus size: 42
10835075 AATATAAATC
* * *
10835085 AACAATAATAATAACTAA-AATAATTAG--GA-TTTTTTACT
1 AACAATAATAACAACCAACAATAATAAGAAGAGTTTTTTACT
** * *
10835123 AAC---AATAACAACCAACAATCCTAATAATAGTTTTTTACT
1 AACAATAATAACAACCAACAATAATAAGAAGAGTTTTTTACT
* * *
10835162 AACAATAATAATAACTAACAATAATAAGAAGGGTTTTTTACT
1 AACAATAATAACAACCAACAATAATAAGAAGAGTTTTTTACT
10835204 AACAATAATAA
1 AACAATAATAA
10835215 TAAGGTTTTT
Statistics
Matches: 71, Mismatches: 14, Indels: 10
0.75 0.15 0.11
Matches are distributed among these distances:
35 10 0.14
36 5 0.07
38 4 0.06
39 12 0.17
42 40 0.56
ACGTcount: A:0.51, C:0.12, G:0.05, T:0.32
Consensus pattern (42 bp):
AACAATAATAACAACCAACAATAATAAGAAGAGTTTTTTACT
Found at i:10835187 original size:39 final size:40
Alignment explanation
Indices: 10835085--10835217 Score: 143
Period size: 39 Copynumber: 3.4 Consensus size: 40
10835075 AATATAAATC
10835085 AACAATAATAATAACTAA-AATAAT--TAGGATTTTTTACT
1 AACAATAATAATAACTAACAATAATAATAGG-TTTTTTACT
* * *
10835123 AACAATAACAACCAAC-AATC-CTAATAATA-GTTTTTTACT
1 AACAATAATAA-TAACTAA-CAATAATAATAGGTTTTTTACT
*
10835162 AACAATAATAATAACTAACAATAATAAGAAGGGTTTTTTACT
1 AACAATAATAATAACTAACAATAATAA-TA-GGTTTTTTACT
10835204 AACAATAATAATAA
1 AACAATAATAATAA
10835218 GGTTTTTTAC
Statistics
Matches: 78, Mismatches: 7, Indels: 16
0.77 0.07 0.16
Matches are distributed among these distances:
38 16 0.21
39 34 0.44
40 2 0.03
41 2 0.03
42 24 0.31
ACGTcount: A:0.51, C:0.12, G:0.05, T:0.32
Consensus pattern (40 bp):
AACAATAATAATAACTAACAATAATAATAGGTTTTTTACT
Found at i:10835227 original size:25 final size:26
Alignment explanation
Indices: 10835175--10835242 Score: 120
Period size: 25 Copynumber: 2.7 Consensus size: 26
10835165 AATAATAATA
*
10835175 ACTAACAATAATAAGAAGGGTTTTTT
1 ACTAACAATAATAATAAGGGTTTTTT
10835201 ACTAACAATAATAATAA-GGTTTTTT
1 ACTAACAATAATAATAAGGGTTTTTT
10835226 ACTAACAATAATAATAA
1 ACTAACAATAATAATAA
10835243 CTAACAATAA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
25 25 0.61
26 16 0.39
ACGTcount: A:0.49, C:0.09, G:0.09, T:0.34
Consensus pattern (26 bp):
ACTAACAATAATAATAAGGGTTTTTT
Found at i:10835247 original size:16 final size:16
Alignment explanation
Indices: 10835226--10835297 Score: 69
Period size: 16 Copynumber: 4.5 Consensus size: 16
10835216 AAGGTTTTTT
10835226 ACTAACAATAATAATA
1 ACTAACAATAATAATA
10835242 ACTAACAATAATAACTA
1 ACTAACAATAATAA-TA
* *
10835259 AC-AACAAAAAACAATA
1 ACTAAC-AATAATAATA
*
10835275 A-TAATCAACAATAATA
1 ACTAA-CAATAATAATA
10835291 A-TAACAA
1 ACTAACAA
10835298 CAAAAACACA
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
15 3 0.06
16 34 0.71
17 11 0.23
ACGTcount: A:0.65, C:0.15, G:0.00, T:0.19
Consensus pattern (16 bp):
ACTAACAATAATAATA
Found at i:10835253 original size:13 final size:12
Alignment explanation
Indices: 10835235--10835297 Score: 76
Period size: 13 Copynumber: 5.2 Consensus size: 12
10835225 TACTAACAAT
10835235 AATAATAACTAAC
1 AATAATAA-TAAC
10835248 AATAATAACTAAC
1 AATAATAA-TAAC
*
10835261 AACAA-AA-AAC
1 AATAATAATAAC
10835271 AATAATAATCAAC
1 AATAATAAT-AAC
10835284 AATAATAATAAC
1 AATAATAATAAC
10835296 AA
1 AA
10835298 CAAAAACACA
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
10 7 0.16
11 2 0.04
12 7 0.16
13 29 0.64
ACGTcount: A:0.67, C:0.14, G:0.00, T:0.19
Consensus pattern (12 bp):
AATAATAATAAC
Found at i:10835285 original size:36 final size:38
Alignment explanation
Indices: 10835229--10835316 Score: 119
Period size: 36 Copynumber: 2.3 Consensus size: 38
10835219 GTTTTTTACT
10835229 AACAATAATAATAACTAACAATAATAACTAACAACAAAA
1 AACAATAATAATAACTAACAATAATAAC-AACAACAAAA
*
10835268 AACAATAATAAT--C-AACAATAATAATAACAACAAAA
1 AACAATAATAATAACTAACAATAATAACAACAACAAAA
*
10835303 ACACAATAACAATA
1 A-ACAATAATAATA
10835317 TAAAATCCAT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
35 11 0.24
36 21 0.47
37 1 0.02
39 12 0.27
ACGTcount: A:0.67, C:0.16, G:0.00, T:0.17
Consensus pattern (38 bp):
AACAATAATAATAACTAACAATAATAACAACAACAAAA
Found at i:10835366 original size:10 final size:10
Alignment explanation
Indices: 10835348--10835400 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
10835338 AAATTATACA
10835348 TTTTCTTTTCT
1 TTTTC-TTTCT
* *
10835359 TTTTTTTTCC
1 TTTTCTTTCT
* *
10835369 TTCTCCTTCT
1 TTTTCTTTCT
10835379 TTTTCTTTCT
1 TTTTCTTTCT
10835389 TTTTCTCTTCT
1 TTTTCT-TTCT
10835400 T
1 T
10835401 CTCCTTGCTG
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
10 24 0.73
11 9 0.27
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (10 bp):
TTTTCTTTCT
Found at i:10835390 original size:30 final size:31
Alignment explanation
Indices: 10835348--10835406 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 31
10835338 AAATTATACA
*
10835348 TTTTCTTTTCTTTTT-TTTTCCTTCTCCTTCT
1 TTTTCTTTTCTTTTTCTCTT-CTTCTCCTTCT
10835379 TTTTC-TTTCTTTTTCTCTTCTTCTCCTT
1 TTTTCTTTTCTTTTTCTCTTCTTCTCCTT
10835407 GCTGCTACTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (31 bp):
TTTTCTTTTCTTTTTCTCTTCTTCTCCTTCT
Found at i:10846833 original size:26 final size:26
Alignment explanation
Indices: 10846804--10846855 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
10846794 ACCCTAAACA
*
10846804 TTGAACCTTGAATTGTGAACTCGAAC
1 TTGAACCTTGAACTGTGAACTCGAAC
*
10846830 TTGAACCTTGAACTGTGAATTCGAAC
1 TTGAACCTTGAACTGTGAACTCGAAC
10846856 CCAAACTCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (26 bp):
TTGAACCTTGAACTGTGAACTCGAAC
Found at i:10847336 original size:16 final size:17
Alignment explanation
Indices: 10847310--10847342 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
10847300 AGTCACCCGT
10847310 TCTTAAAGATAATCCAC
1 TCTTAAAGATAATCCAC
10847327 TCTT-AAGATAATCCAC
1 TCTTAAAGATAATCCAC
10847343 CTACTTGGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.39, C:0.24, G:0.06, T:0.30
Consensus pattern (17 bp):
TCTTAAAGATAATCCAC
Found at i:10848641 original size:58 final size:58
Alignment explanation
Indices: 10848551--10848666 Score: 223
Period size: 58 Copynumber: 2.0 Consensus size: 58
10848541 TAGGTTTGGT
10848551 TACAAGATGTCACATCATACTTACATGACTAACTTGAAGAATTTACAACTAAATTGTA
1 TACAAGATGTCACATCATACTTACATGACTAACTTGAAGAATTTACAACTAAATTGTA
*
10848609 TACAAGATGTCACATCATACTTACATGACTAACTTGAATAATTTACAACTAAATTGTA
1 TACAAGATGTCACATCATACTTACATGACTAACTTGAAGAATTTACAACTAAATTGTA
10848667 CGACTAACAT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.32
Consensus pattern (58 bp):
TACAAGATGTCACATCATACTTACATGACTAACTTGAAGAATTTACAACTAAATTGTA
Found at i:10851585 original size:13 final size:12
Alignment explanation
Indices: 10851569--10851642 Score: 53
Period size: 12 Copynumber: 6.0 Consensus size: 12
10851559 AAGAATAAAT
10851569 AAATAGATAAAAG
1 AAATAGA-AAAAG
10851582 AAATAGAAAAAG
1 AAATAGAAAAAG
* * *
10851594 AAACAGAGATAG
1 AAATAGAAAAAG
*
10851606 AAA-CGAAAAAAG
1 AAATAG-AAAAAG
*
10851618 AAAAAGAAAGAAAG
1 AAATAG-AA-AAAG
10851632 AAA-AGAAAAAG
1 AAATAGAAAAAG
10851643 GGAAAGAAAG
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
11 5 0.10
12 26 0.51
13 13 0.25
14 7 0.14
ACGTcount: A:0.73, C:0.03, G:0.19, T:0.05
Consensus pattern (12 bp):
AAATAGAAAAAG
Found at i:10851647 original size:21 final size:19
Alignment explanation
Indices: 10851613--10851655 Score: 68
Period size: 21 Copynumber: 2.2 Consensus size: 19
10851603 TAGAAACGAA
10851613 AAAAGAAAAAGAAAGAAAG
1 AAAAGAAAAAGAAAGAAAG
10851632 AAAAGAAAAAGGGAAAGAAAG
1 AAAAGAAAAA--GAAAGAAAG
10851653 AAA
1 AAA
10851656 GGAGAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 10 0.45
21 12 0.55
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (19 bp):
AAAAGAAAAAGAAAGAAAG
Found at i:10859643 original size:48 final size:48
Alignment explanation
Indices: 10859565--10859784 Score: 202
Period size: 48 Copynumber: 4.6 Consensus size: 48
10859555 AGCTTCTGTA
* * * * * *
10859565 TAAGACCATATTTGGGATATGACATCGGCATCGTTATGTGATCCCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATG
* * * *
10859613 TAAGACCATGTCTGGGACATGGCATTGGCATCGATATGAGAACATCGTG
1 TAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATC-CCATG
* *
10859662 TAAGACCATAGT-TGGG-CTATCGGC-TTCG-AT--ATGTGTGATCCCATG
1 TAAGACCAT-GTCTGGGAC-AT-GGCATTGGCATCGATATGTGATCCCATG
* *
10859707 TAAGACCATGTCTGGGACATGGCATTGGTATCGATAAGTTG-TCCCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCATCGATATG-TGATCCCATG
* *
10859755 TAAGACCATATCTGGGATATGGCATTGGCA
1 TAAGACCATGTCTGGGACATGGCATTGGCA
10859785 CCTACTATGT
Statistics
Matches: 139, Mismatches: 22, Indels: 22
0.76 0.12 0.12
Matches are distributed among these distances:
44 5 0.04
45 21 0.15
46 10 0.07
48 75 0.54
49 23 0.17
50 5 0.04
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (48 bp):
TAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATG
Found at i:10878607 original size:28 final size:28
Alignment explanation
Indices: 10878575--10878668 Score: 100
Period size: 28 Copynumber: 3.4 Consensus size: 28
10878565 TATTTATATG
* *
10878575 TGGCACTTAACGTGCGAAGTATCGGGGA
1 TGGCACTTAGCGTGCGAAGTATCGAGGA
* * * *
10878603 TGGCACTTAGCGTACGATA-CATCTAGAA
1 TGGCACTTAGCGTGCGA-AGTATCGAGGA
* *
10878631 TGGCACTTAGTGTGCGAAGTAACGAGGA
1 TGGCACTTAGCGTGCGAAGTATCGAGGA
10878659 TGGCACTTAG
1 TGGCACTTAG
10878669 TGTGTGAAAC
Statistics
Matches: 52, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
27 1 0.02
28 50 0.96
29 1 0.02
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.23
Consensus pattern (28 bp):
TGGCACTTAGCGTGCGAAGTATCGAGGA
Found at i:10878694 original size:56 final size:56
Alignment explanation
Indices: 10878586--10878701 Score: 142
Period size: 56 Copynumber: 2.1 Consensus size: 56
10878576 GGCACTTAAC
* * * * * * *
10878586 GTGCGAAGTATCGGGGATGGCACTTAGCGTACGATACATCTAGAATGGCACTTAGT
1 GTGCGAAGTAACGAGGATGGCACTTAGCGTACGAAACACCCAGAACGACACTTAGT
* **
10878642 GTGCGAAGTAACGAGGATGGCACTTAGTGTGTGAAACACCCAGAACGACACTTAGT
1 GTGCGAAGTAACGAGGATGGCACTTAGCGTACGAAACACCCAGAACGACACTTAGT
10878698 GTGC
1 GTGC
10878702 AAGGTATCGG
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
56 50 1.00
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.22
Consensus pattern (56 bp):
GTGCGAAGTAACGAGGATGGCACTTAGCGTACGAAACACCCAGAACGACACTTAGT
Found at i:10878830 original size:32 final size:32
Alignment explanation
Indices: 10878794--10878871 Score: 138
Period size: 32 Copynumber: 2.4 Consensus size: 32
10878784 TACGAGATGA
*
10878794 TACAGGTATCTACGAAAATTGGTACAATATAG
1 TACAGGTATGTACGAAAATTGGTACAATATAG
*
10878826 TACAGGTATGTACGAAAATTGGTACAATATGG
1 TACAGGTATGTACGAAAATTGGTACAATATAG
10878858 TACAGGTATGTACG
1 TACAGGTATGTACG
10878872 GAGATTCAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (32 bp):
TACAGGTATGTACGAAAATTGGTACAATATAG
Found at i:10881404 original size:46 final size:47
Alignment explanation
Indices: 10881333--10881604 Score: 195
Period size: 46 Copynumber: 5.8 Consensus size: 47
10881323 TGTGTATGCT
* * *
10881333 AGTGTAA-AACATGTCTGGGATAT-GCATCGGCATTGAGACGAGAGTC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGA-GAGAGTC
* *
10881379 AGTGTAAGA-CATGTCTAGGACAT-GCATCGGC-TAG-GAGATGTGTC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGAGA-GAGTC
* * * *
10881423 AGTATAAGACCATG-CTTAGGACATGACATCGGCATGGATATGTGAGAG-C
1 AGTGTAAGACCATGTC-TAGGACATGGCATCGGCATTG--A-GAGAGAGTC
* * ** *
10881472 TAGTGTAAGACCATGTCTAGGACATGGCATCGACCTTGATTTCGATAGTC
1 -AGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGA--GAGAGAGTC
* * * *
10881522 AGTGTAAGACCATGTCTGGGACATGGCAT-TGAATTGATG-GATGAGCC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGA-GAGA-GAGTC
* *
10881569 AGTGTAAGACCATGTCTGGGACATGGCATTGGCATT
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCATT
10881605 ATACCCTATG
Statistics
Matches: 183, Mismatches: 27, Indels: 30
0.76 0.11 0.12
Matches are distributed among these distances:
43 2 0.01
44 15 0.08
45 14 0.08
46 36 0.20
47 36 0.20
48 9 0.05
49 34 0.19
50 33 0.18
51 4 0.02
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGAGAGAGTC
Found at i:10881587 original size:47 final size:49
Alignment explanation
Indices: 10881468--10881604 Score: 181
Period size: 47 Copynumber: 2.8 Consensus size: 49
10881458 GGATATGTGA
* * * *
10881468 GAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGACCTTGATTTCGAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGACATTGA-TTCGAT
* *
10881518 -AGTCAGTGTAAGACCATGTCTGGGACATGGCATTGA-ATTGA-TGGAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGACATTGATTCGAT
*
10881564 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCATT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGACATT
10881605 ATACCCTATG
Statistics
Matches: 77, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
46 4 0.05
47 34 0.44
48 7 0.09
49 32 0.42
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (49 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGACATTGATTCGAT
Found at i:10886370 original size:92 final size:93
Alignment explanation
Indices: 10886207--10886421 Score: 260
Period size: 92 Copynumber: 2.3 Consensus size: 93
10886197 TGAGAGCTAG
* * * * *
10886207 TGTAAGACCATGTCTAGTACATGGCATCCGC-ATTGAGACTAGAG-CTAGTGTAAGACATGTCTG
1 TGTAAGACCATGTCTAGGACATGGCATCGGCTA-CGAGA-T-GCGTC-AGTGTAAAACATGTCTG
*
10886270 GGACATGGCATC-AGCACGTATAGAGGTGTCAA
62 GGACATGGCATCGA-CACGTATAGAGATGTCAA
* *
10886302 TGTAAGA-CATGTTTGGGACAT-GCATCGGCTACGAGATGCGTCAGTGTAAAACCATGTCTGGGA
1 TGTAAGACCATGTCTAGGACATGGCATCGGCTACGAGATGCGTCAGTGTAAAA-CATGTCTGGGA
*
10886365 CATGGCATCGACACGTATAGAGATGTCAG
65 CATGGCATCGACACGTATAGAGATGTCAA
10886394 TGTAAGACCATGTCTAGGACATGGCATC
1 TGTAAGACCATGTCTAGGACATGGCATC
10886422 AACATAGATA
Statistics
Matches: 103, Mismatches: 11, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
91 10 0.10
92 45 0.44
93 24 0.23
94 17 0.17
95 7 0.07
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (93 bp):
TGTAAGACCATGTCTAGGACATGGCATCGGCTACGAGATGCGTCAGTGTAAAACATGTCTGGGAC
ATGGCATCGACACGTATAGAGATGTCAA
Found at i:10886566 original size:95 final size:98
Alignment explanation
Indices: 10886392--10886567 Score: 250
Period size: 95 Copynumber: 1.8 Consensus size: 98
10886382 TAGAGATGTC
* *
10886392 AGTGTAAGACCATGTCTAGGACATGGCATCAACATAGATATGTAAAAGCTAGTGCAAGACCATGT
1 AGTGTAAGACCATGTCTAGGACATGGCATCAACATAGA-ATGGAAAAGCCAGTGCAAGACCATGT
10886457 CTAGGACATGGCATCGGCCTCGATTTCAATAATA
65 CTAGGACATGGCATCGGCCTCGATTTCAATAATA
* * * **
10886491 AGTGTAAGACCATGTCTCGGACATGGCATC-GC-TTG-ATGGATGAGCCAGTGCAAGACCATGTC
1 AGTGTAAGACCATGTCTAGGACATGGCATCAACATAGAATGGAAAAGCCAGTGCAAGACCATGTC
*
10886553 TGGGACATGGCATCG
66 TAGGACATGGCATCG
10886568 ACATTATACC
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
95 37 0.54
97 2 0.03
98 1 0.01
99 29 0.42
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.23
Consensus pattern (98 bp):
AGTGTAAGACCATGTCTAGGACATGGCATCAACATAGAATGGAAAAGCCAGTGCAAGACCATGTC
TAGGACATGGCATCGGCCTCGATTTCAATAATA
Found at i:10894180 original size:49 final size:50
Alignment explanation
Indices: 10893925--10894242 Score: 223
Period size: 47 Copynumber: 6.6 Consensus size: 50
10893915 TTTGTGTGCT
* **
10893925 AGTGTAAGA-CATGTCTAGGACAT-GCATCAACCACAT-TA--TGAGAG-C
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GGCACATATATGTGAGAGTC
* * * *
10893970 TAGTGTAAGACCATGTCTGGTACATGGCATCGGCA-TTGAGA-CT-AGAG-C
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAT-ATATGTGAGAGTC
* * * *
10894018 TAGTGTAAGA-CATGTCTGGGACATGGCATCAGCACGTATA-GAG-GTGTC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCACATATATGTGAGAGTC
*
10894066 AGTGTAAGACCATGTTTGGGACATGGCATCGGCACATATATGTGAGAG-C
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACATATATGTGAGAGTC
* * *
10894115 TAGTGTAAGACCATGTCTGAGACATGGCATCGGC-C-TCA-ATTTCGATAGTC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAT-ATATGT-GAGAGTC
* * *
10894165 AGTGTAAGACCATGTCTGGGACATGG--T-GTCA-ACT-TGATG-GATAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACA-TAT-ATGTGA-GAGTC
10894212 AGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
10894243 ACATTATACC
Statistics
Matches: 221, Mismatches: 27, Indels: 44
0.76 0.09 0.15
Matches are distributed among these distances:
46 14 0.06
47 79 0.36
48 57 0.26
49 36 0.16
50 35 0.16
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (50 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACATATATGTGAGAGTC
Found at i:10894417 original size:53 final size:53
Alignment explanation
Indices: 10894337--10894442 Score: 194
Period size: 53 Copynumber: 2.0 Consensus size: 53
10894327 CGAGAAAAGT
*
10894337 ATAACCTTGTTGTGAGTGGTACAGGTACCTATTTGAAATGTATGAGATGTGAG
1 ATAACCATGTTGTGAGTGGTACAGGTACCTATTTGAAATGTATGAGATGTGAG
*
10894390 ATAACCATGTTGTGAGTGGTATAGGTACCTATTTGAAATGTATGAGATGTGAG
1 ATAACCATGTTGTGAGTGGTACAGGTACCTATTTGAAATGTATGAGATGTGAG
10894443 CTCAATATAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.29, C:0.08, G:0.28, T:0.34
Consensus pattern (53 bp):
ATAACCATGTTGTGAGTGGTACAGGTACCTATTTGAAATGTATGAGATGTGAG
Found at i:10897228 original size:16 final size:16
Alignment explanation
Indices: 10897209--10897253 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
10897199 AACATTATGT
*
10897209 AAAAATAACTAAA-TA
1 AAAAAAAACTAAATTA
*
10897224 AAAAAGAAATTAAATTA
1 AAAAA-AAACTAAATTA
10897241 AAAAAAAACTAAA
1 AAAAAAAACTAAA
10897254 CCTAAACAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
15 5 0.20
16 13 0.52
17 7 0.28
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.18
Consensus pattern (16 bp):
AAAAAAAACTAAATTA
Found at i:10899319 original size:35 final size:35
Alignment explanation
Indices: 10899273--10899451 Score: 227
Period size: 35 Copynumber: 5.1 Consensus size: 35
10899263 CATGATTCAA
* * * *
10899273 AACTCAGTATGGTTAATACCATACCTATGTTTCAC
1 AACTCAGTATGGATAATACCATACCTACGTATCAT
*
10899308 AACTC-GATATGGGA-AATACCATACCTACATATCAT
1 AACTCAG-TAT-GGATAATACCATACCTACGTATCAT
* *
10899343 AGCTCAGTATGGAAAATACCATACCTACGTATCAT
1 AACTCAGTATGGATAATACCATACCTACGTATCAT
*
10899378 AGCTCAGTATGGATAATACCATACCTACGTATCAT
1 AACTCAGTATGGATAATACCATACCTACGTATCAT
* * *
10899413 ATCTCAGTATGGATAATACCATACCTATGTGTCAT
1 AACTCAGTATGGATAATACCATACCTACGTATCAT
10899448 AACT
1 AACT
10899452 TTTCCATGGA
Statistics
Matches: 128, Mismatches: 12, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
34 4 0.03
35 121 0.95
36 3 0.02
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (35 bp):
AACTCAGTATGGATAATACCATACCTACGTATCAT
Found at i:10902606 original size:37 final size:37
Alignment explanation
Indices: 10902562--10902635 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
10902552 TAGTTATTAA
10902562 ATAATGGTTAATAAAATAAAACAAAGCCAAATTTGCT
1 ATAATGGTTAATAAAATAAAACAAAGCCAAATTTGCT
10902599 ATAATGGTTAATAAAATAAAACAAAGCCAAATTTGCT
1 ATAATGGTTAATAAAATAAAACAAAGCCAAATTTGCT
10902636 TCATCTTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.51, C:0.11, G:0.11, T:0.27
Consensus pattern (37 bp):
ATAATGGTTAATAAAATAAAACAAAGCCAAATTTGCT
Found at i:10905103 original size:25 final size:25
Alignment explanation
Indices: 10905046--10905121 Score: 88
Period size: 25 Copynumber: 3.2 Consensus size: 25
10905036 AAGTGTTATA
10905046 CAGAGAGCAC-AGATGTGCT-A-AA-
1 CAGAGAGCACTA-ATGTGCTAATAAT
*
10905068 CGGAGAGCACTAATGTGCTAATAAT
1 CAGAGAGCACTAATGTGCTAATAAT
* *
10905093 CAGAGAGCACTAACGTACTAATAAT
1 CAGAGAGCACTAATGTGCTAATAAT
10905118 CAGA
1 CAGA
10905122 TAGCGCGCTA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
22 16 0.35
23 2 0.04
24 2 0.04
25 26 0.57
ACGTcount: A:0.41, C:0.18, G:0.22, T:0.18
Consensus pattern (25 bp):
CAGAGAGCACTAATGTGCTAATAAT
Found at i:10905525 original size:7 final size:7
Alignment explanation
Indices: 10905513--10905539 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
10905503 CATACACATA
10905513 ATTTAAC
1 ATTTAAC
10905520 ATTTAAC
1 ATTTAAC
10905527 ATTTAAC
1 ATTTAAC
10905534 ATTTAA
1 ATTTAA
10905540 TAATTACCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (7 bp):
ATTTAAC
Found at i:10907384 original size:27 final size:27
Alignment explanation
Indices: 10907336--10907494 Score: 184
Period size: 27 Copynumber: 5.9 Consensus size: 27
10907326 GCGAGACTAC
* *
10907336 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
10907363 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
10907389 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
10907416 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
10907443 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
10907470 TAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
10907495 GACGCTTCCT
Statistics
Matches: 116, Mismatches: 8, Indels: 16
0.83 0.06 0.11
Matches are distributed among these distances:
26 10 0.09
27 101 0.87
28 5 0.04
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:10907495 original size:54 final size:54
Alignment explanation
Indices: 10907354--10907497 Score: 245
Period size: 54 Copynumber: 2.7 Consensus size: 54
10907344 GTGACGAAGT
* *
10907354 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
10907408 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
*
10907462 CACCAGATTAGATAATTGTGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
10907498 GCTTCCTCCA
Statistics
Matches: 86, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
53 5 0.06
54 81 0.94
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:10910169 original size:20 final size:21
Alignment explanation
Indices: 10910144--10910197 Score: 65
Period size: 20 Copynumber: 2.5 Consensus size: 21
10910134 CAATCAGTAT
*
10910144 ACGACACATAAG-TGCCTGAA
1 ACGACACACAAGATGCCTGAA
*
10910164 ACGACACACGAGATGCCTGAAA
1 ACGACACACAAGATGCCTG-AA
10910186 TACGACACACAA
1 -ACGACACACAA
10910198 AGTGCTTGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 10 0.36
21 6 0.21
22 2 0.07
23 10 0.36
ACGTcount: A:0.43, C:0.28, G:0.19, T:0.11
Consensus pattern (21 bp):
ACGACACACAAGATGCCTGAA
Found at i:10911501 original size:22 final size:21
Alignment explanation
Indices: 10911460--10911501 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
10911450 CTCTTAACAT
*
10911460 AGGGGCACACGCCCGTGTGAG
1 AGGGGCACACGCCCGGGTGAG
*
10911481 AGGGGCAACACGCTCGGGTGA
1 AGGGGC-ACACGCCCGGGTGA
10911502 CATTTCAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.21, C:0.26, G:0.43, T:0.10
Consensus pattern (21 bp):
AGGGGCACACGCCCGGGTGAG
Found at i:10922599 original size:21 final size:21
Alignment explanation
Indices: 10922583--10922625 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
10922573 TGTATGCTAT
* *
10922583 ATATGTTCTGTAATATGATAA
1 ATATGCTCTATAATATGATAA
*
10922604 ATATGCTCTATAATAAGATAA
1 ATATGCTCTATAATATGATAA
10922625 A
1 A
10922626 ATTAACCTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.37
Consensus pattern (21 bp):
ATATGCTCTATAATATGATAA
Found at i:10936725 original size:11 final size:11
Alignment explanation
Indices: 10936709--10936738 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
10936699 TACCCAGGAA
10936709 AGATTTCACCT
1 AGATTTCACCT
10936720 AGATTTCACCT
1 AGATTTCACCT
10936731 AGATTTCA
1 AGATTTCA
10936739 TATGTCATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.37
Consensus pattern (11 bp):
AGATTTCACCT
Found at i:10938362 original size:13 final size:13
Alignment explanation
Indices: 10938346--10938370 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10938336 TCAATCAAAT
10938346 ATATATTTTTTTG
1 ATATATTTTTTTG
10938359 ATATATTTTTTT
1 ATATATTTTTTT
10938371 CTTTTTGATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (13 bp):
ATATATTTTTTTG
Found at i:10940967 original size:5 final size:5
Alignment explanation
Indices: 10940920--10940978 Score: 55
Period size: 5 Copynumber: 10.8 Consensus size: 5
10940910 AACGATAATA
* *
10940920 AAAAT AAAACT GAATAT AAAACT AATAAT AATAAT AAAGT AAAAT AAAAT
1 AAAAT AAAA-T -AAAAT AAAA-T AA-AAT AA-AAT AAAAT AAAAT AAAAT
10940970 AAAAT AAAA
1 AAAAT AAAA
10940979 AATTGTAATT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
5 27 0.59
6 14 0.30
7 5 0.11
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.22
Consensus pattern (5 bp):
AAAAT
Found at i:10940967 original size:10 final size:10
Alignment explanation
Indices: 10940920--10940978 Score: 55
Period size: 12 Copynumber: 5.4 Consensus size: 10
10940910 AACGATAATA
10940920 AAAATAAAACT
1 AAAATAAAA-T
*
10940931 GAATATAAAACT
1 -AAAATAAAA-T
10940943 AATAATAATAAT
1 AA-AATAA-AAT
*
10940955 AAAGTAAAAT
1 AAAATAAAAT
10940965 AAAATAAAAT
1 AAAATAAAAT
10940975 AAAA
1 AAAA
10940979 AATTGTAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
10 16 0.39
11 6 0.15
12 17 0.41
13 2 0.05
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.22
Consensus pattern (10 bp):
AAAATAAAAT
Found at i:10940970 original size:15 final size:16
Alignment explanation
Indices: 10940914--10940978 Score: 62
Period size: 15 Copynumber: 3.9 Consensus size: 16
10940904 TATACTAACG
10940914 ATAATAAAAATAAAACTGA
1 ATAAT-AAAATAAAA-T-A
10940933 AT-ATAAAACTAATAATA
1 ATAATAAAA-TAA-AATA
*
10940950 ATAATAAAGTAAAATA
1 ATAATAAAATAAAATA
10940966 A-AATAAAATAAAA
1 ATAATAAAATAAAA
10940979 AATTGTAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
15 11 0.27
16 5 0.12
17 10 0.24
18 11 0.27
19 4 0.10
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (16 bp):
ATAATAAAATAAAATA
Found at i:10952143 original size:20 final size:20
Alignment explanation
Indices: 10952114--10952168 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
10952104 ATTAGAATGT
10952114 AAAA-ATTAAATTAAAAACA
1 AAAATATTAAATTAAAAACA
* *
10952133 AAAATATTAAAGTAAAAATA
1 AAAATATTAAATTAAAAACA
*
10952153 AAAATGGTTAAATTAA
1 AAAAT-ATTAAATTAA
10952169 TAGAAATAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 4 0.13
20 18 0.60
21 8 0.27
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.25
Consensus pattern (20 bp):
AAAATATTAAATTAAAAACA
Found at i:10954281 original size:23 final size:25
Alignment explanation
Indices: 10954254--10954306 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
10954244 CATGATGAAT
10954254 AAATAACA-T-TATTTATTTATATA
1 AAATAACATTATATTTATTTATATA
**
10954277 AAATATTATTATATTTATTTATATA
1 AAATAACATTATATTTATTTATATA
10954302 AAATA
1 AAATA
10954307 TTATGATGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 6 0.23
24 1 0.04
25 19 0.73
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (25 bp):
AAATAACATTATATTTATTTATATA
Found at i:10954297 original size:25 final size:25
Alignment explanation
Indices: 10954263--10954310 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
10954253 TAAATAACAT
10954263 TATTTATTTATATAAAATATTATTA
1 TATTTATTTATATAAAATATTATTA
10954288 TATTTATTTATATAAAATATTAT
1 TATTTATTTATATAAAATATTAT
10954311 GATGTTACTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
TATTTATTTATATAAAATATTATTA
Found at i:10967040 original size:23 final size:23
Alignment explanation
Indices: 10967014--10967064 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 23
10967004 ATATATTTTT
10967014 GACTTAATATTTGTAT-TATGCCA
1 GACTTAATATTT-TATATATGCCA
10967037 GACTTAATATTTTATACTATGCCA
1 GACTTAATATTTTATA-TATGCCA
10967061 -ACTT
1 GACTT
10967065 GATAATTACG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
22 3 0.12
23 16 0.62
24 7 0.27
ACGTcount: A:0.31, C:0.16, G:0.10, T:0.43
Consensus pattern (23 bp):
GACTTAATATTTTATATATGCCA
Found at i:10969106 original size:18 final size:19
Alignment explanation
Indices: 10969083--10969123 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
10969073 CATGAGTTTC
10969083 TTTGTTT-TATTTTT-TTTA
1 TTTGTTTCT-TTTTTCTTTA
10969101 TTTGTTTCTTTTTTCTTTA
1 TTTGTTTCTTTTTTCTTTA
10969120 TTTG
1 TTTG
10969124 ATTGGGATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.07, C:0.05, G:0.07, T:0.80
Consensus pattern (19 bp):
TTTGTTTCTTTTTTCTTTA
Found at i:10981733 original size:21 final size:21
Alignment explanation
Indices: 10981709--10981749 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
10981699 AGGAAAAAAC
10981709 AATTAAAGAAG-AGAAAGATTG
1 AATTAAA-AAGAAGAAAGATTG
*
10981730 AATTAAAAAGAATAAAGATT
1 AATTAAAAAGAAGAAAGATT
10981750 ACGAAAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.61, C:0.00, G:0.17, T:0.22
Consensus pattern (21 bp):
AATTAAAAAGAAGAAAGATTG
Found at i:10986526 original size:14 final size:15
Alignment explanation
Indices: 10986507--10986535 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
10986497 ATATGCGGCA
10986507 AAAAAATAA-AAAAT
1 AAAAAATAATAAAAT
10986521 AAAAAATAATAAAAT
1 AAAAAATAATAAAAT
10986536 TTATAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (15 bp):
AAAAAATAATAAAAT
Found at i:10986571 original size:18 final size:18
Alignment explanation
Indices: 10986522--10986571 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
10986512 ATAAAAAATA
*
10986522 AAAAATAATAAAATTTAT
1 AAAAATAATAAATTTTAT
*
10986540 AAAAATGACTAAATTTTAAT
1 AAAAAT-AATAAATTTT-AT
10986560 AAAAAT-ATAAAT
1 AAAAATAATAAAT
10986572 ATATGCTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 11 0.41
19 8 0.30
20 8 0.30
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (18 bp):
AAAAATAATAAATTTTAT
Found at i:10986603 original size:11 final size:12
Alignment explanation
Indices: 10986580--10986604 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10986570 ATATATGCTT
10986580 AAAATTAGAAAA
1 AAAATTAGAAAA
10986592 AAAATTAGAAAA
1 AAAATTAGAAAA
10986604 A
1 A
10986605 TCGTAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATTAGAAAA
Found at i:10986633 original size:9 final size:10
Alignment explanation
Indices: 10986610--10986702 Score: 50
Period size: 10 Copynumber: 9.0 Consensus size: 10
10986600 AAAAATCGTA
10986610 AAAAAATTAT
1 AAAAAATTAT
*
10986620 AAAAAATTGT
1 AAAAAATTAT
**
10986630 AAAATTTTAT
1 AAAAAATTAT
10986640 AGTCATGAAAATTAT
1 A---A--AAAATTAT
10986655 AAAAAA-TAT
1 AAAAAATTAT
10986664 AAAGAAA-TAT
1 AAA-AAATTAT
10986674 --AAAATTCAT
1 AAAAAATT-AT
* *
10986683 AAAAAATAAA
1 AAAAAATTAT
10986693 AAAAAATTAT
1 AAAAAATTAT
10986703 CGTATTAAAA
Statistics
Matches: 63, Mismatches: 10, Indels: 20
0.68 0.11 0.22
Matches are distributed among these distances:
7 3 0.05
8 2 0.03
9 8 0.13
10 36 0.57
11 5 0.08
12 1 0.02
13 1 0.02
15 7 0.11
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:10986633 original size:20 final size:20
Alignment explanation
Indices: 10986589--10986633 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
10986579 TAAAATTAGA
*
10986589 AAAAAAATTAGAAAAATCGT
1 AAAAAAATTAAAAAAATCGT
*
10986609 AAAAAAATTATAAAAAATTGT
1 AAAAAAATTA-AAAAAATCGT
10986630 AAAA
1 AAAA
10986634 TTTTATAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.69, C:0.02, G:0.07, T:0.22
Consensus pattern (20 bp):
AAAAAAATTAAAAAAATCGT
Found at i:10986671 original size:10 final size:9
Alignment explanation
Indices: 10986647--10986696 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
10986637 TATAGTCATG
*
10986647 AAAATTATA
1 AAAAATATA
10986656 AAAAATATA
1 AAAAATATA
10986665 AAGAAATAT-
1 AA-AAATATA
*
10986674 AAAATTCATA
1 AAAAAT-ATA
10986684 AAAAATA-A
1 AAAAATATA
10986692 AAAAA
1 AAAAA
10986697 AATTATCGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
8 9 0.26
9 15 0.43
10 11 0.31
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (9 bp):
AAAAATATA
Found at i:10986699 original size:28 final size:27
Alignment explanation
Indices: 10986647--10986699 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
10986637 TATAGTCATG
* *
10986647 AAAATTATAAAAAATATAAAGAAATAT
1 AAAATTATAAAAAATAAAAAAAAATAT
10986674 AAAATTCATAAAAAATAAAAAAAAAT
1 AAAATT-ATAAAAAATAAAAAAAAAT
10986700 TATCGTATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 6 0.26
28 17 0.74
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.23
Consensus pattern (27 bp):
AAAATTATAAAAAATAAAAAAAAATAT
Found at i:10986890 original size:9 final size:9
Alignment explanation
Indices: 10986873--10986965 Score: 61
Period size: 9 Copynumber: 10.4 Consensus size: 9
10986863 TTTTGATACA
10986873 TTTTATAAT
1 TTTTATAAT
*
10986882 TTTTTTAAT
1 TTTTATAAT
10986891 TTTTA-ATAT
1 TTTTATA-AT
*
10986900 TTTAAT-AT
1 TTTTATAAT
*
10986908 TTTTATTAAAA
1 TTTTA-T-AAT
*
10986919 TTTAATAAT
1 TTTTATAAT
*
10986928 TTTTATAAA
1 TTTTATAAT
*
10986937 TTTTATTGA-
1 TTTTA-TAAT
10986946 TTTTAT--T
1 TTTTATAAT
10986953 TTTTATAAT
1 TTTTATAAT
10986962 TTTT
1 TTTT
10986966 TGCCACATGT
Statistics
Matches: 65, Mismatches: 10, Indels: 18
0.70 0.11 0.19
Matches are distributed among these distances:
7 6 0.09
8 8 0.12
9 43 0.66
10 3 0.05
11 5 0.08
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (9 bp):
TTTTATAAT
Found at i:10986911 original size:27 final size:27
Alignment explanation
Indices: 10986872--10986943 Score: 74
Period size: 27 Copynumber: 2.6 Consensus size: 27
10986862 TTTTTGATAC
* **
10986872 ATTTTATAATTTTTTTAATTTTTAAT-
1 ATTTTATAATTTTATTAAAATTTAATA
*
10986898 ATTTTAATATTTTTATTAAAATTTAATA
1 ATTTT-ATAATTTTATTAAAATTTAATA
10986926 ATTTTTATAAATTTTATT
1 A-TTTTAT-AATTTTATT
10986944 GATTTTATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
26 5 0.14
27 17 0.46
28 3 0.08
29 12 0.32
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (27 bp):
ATTTTATAATTTTATTAAAATTTAATA
Found at i:10986921 original size:20 final size:21
Alignment explanation
Indices: 10986893--10986941 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
10986883 TTTTTAATTT
*
10986893 TTAATATTTTAAT-ATTTTTA
1 TTAAAATTTTAATAATTTTTA
10986913 TTAAAA-TTTAATAATTTTTA
1 TTAAAATTTTAATAATTTTTA
10986933 -T-AAATTTTA
1 TTAAAATTTTA
10986942 TTGATTTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 3 0.12
19 11 0.42
20 12 0.46
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TTAAAATTTTAATAATTTTTA
Found at i:10986927 original size:46 final size:45
Alignment explanation
Indices: 10986872--10986958 Score: 113
Period size: 46 Copynumber: 1.9 Consensus size: 45
10986862 TTTTTGATAC
* * *
10986872 ATTTTATAATTTTTTTAATTTTTAAT-ATTTTAATATTTTTATTAAA
1 ATTTAATAATTTTTATAAATTTTAATGATTTT-AT-TTTTTATTAAA
*
10986918 ATTTAATAATTTTTATAAATTTTATTGATTTTATTTTTTAT
1 ATTTAATAATTTTTATAAATTTTAATGATTTTATTTTTTAT
10986959 AATTTTTTGC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
45 7 0.19
46 24 0.67
47 5 0.14
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (45 bp):
ATTTAATAATTTTTATAAATTTTAATGATTTTATTTTTTATTAAA
Found at i:10986949 original size:19 final size:19
Alignment explanation
Indices: 10986873--10986941 Score: 72
Period size: 19 Copynumber: 3.7 Consensus size: 19
10986863 TTTTGATACA
**
10986873 TTTTAT-AATTTTTTTAAT
1 TTTTATAAATTTTAATAAT
*
10986891 TTTTA-ATATTTTAAT-AT
1 TTTTATAAATTTTAATAAT
*
10986908 TTTTATTAAAATTTAATAAT
1 TTTTA-TAAATTTTAATAAT
10986928 TTTTATAAATTTTA
1 TTTTATAAATTTTA
10986942 TTGATTTTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
17 7 0.17
18 11 0.27
19 16 0.39
20 7 0.17
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTATAAATTTTAATAAT
Found at i:10998746 original size:54 final size:54
Alignment explanation
Indices: 10998639--10998751 Score: 129
Period size: 54 Copynumber: 2.1 Consensus size: 54
10998629 GTTGTGATGC
* ** * * * *
10998639 TTGTGTAAAATAAATTGGTGCTGAATGTGTTGATGCAAGGAATGGTTGCGCGTG
1 TTGTGTAAAATAAACTGAAGCTAAAGGTGATGATGCAAGGAATAGTTGCGCGTG
* *
10998693 TTGTGTAAAATAAACTGAAGCTAAAGGTGATGATGCAGGGAATAAG-TGTGCGTG
1 TTGTGTAAAATAAACTGAAGCTAAAGGTGATGATGCAAGGAAT-AGTTGCGCGTG
10998747 TTGTG
1 TTGTG
10998752 ATGTTTATGA
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
54 48 0.98
55 1 0.02
ACGTcount: A:0.29, C:0.07, G:0.33, T:0.31
Consensus pattern (54 bp):
TTGTGTAAAATAAACTGAAGCTAAAGGTGATGATGCAAGGAATAGTTGCGCGTG
Found at i:10999678 original size:29 final size:29
Alignment explanation
Indices: 10999636--10999695 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
10999626 CGTAAAAATG
10999636 ATAGTTGATACCATGCCCATGATTGAAGA
1 ATAGTTGATACCATGCCCATGATTGAAGA
10999665 ATAGTTGATACCATGCCCATGATTGAAGA
1 ATAGTTGATACCATGCCCATGATTGAAGA
10999694 AT
1 AT
10999696 GAGCATGCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (29 bp):
ATAGTTGATACCATGCCCATGATTGAAGA
Found at i:11000554 original size:7 final size:7
Alignment explanation
Indices: 11000544--11000568 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
11000534 AAAATTGGAA
11000544 ATTGAGG
1 ATTGAGG
11000551 ATTGAGG
1 ATTGAGG
11000558 ATTGAGG
1 ATTGAGG
11000565 ATTG
1 ATTG
11000569 GGAATTTAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.40, T:0.32
Consensus pattern (7 bp):
ATTGAGG
Found at i:11000554 original size:14 final size:14
Alignment explanation
Indices: 11000515--11000579 Score: 51
Period size: 14 Copynumber: 4.6 Consensus size: 14
11000505 TTTTAAAAAT
*
11000515 AATTGAGGATTGAA
1 AATTGAGGATTGGA
* **
11000529 AATTCAAAATTGGA
1 AATTGAGGATTGGA
11000543 AATTGAGGATT-GA
1 AATTGAGGATTGGA
* *
11000556 GGATTGAGGATTGGG
1 -AATTGAGGATTGGA
*
11000571 AATTTAGGA
1 AATTGAGGA
11000580 CATAAGAATG
Statistics
Matches: 38, Mismatches: 11, Indels: 4
0.72 0.21 0.08
Matches are distributed among these distances:
13 2 0.05
14 35 0.92
15 1 0.03
ACGTcount: A:0.38, C:0.02, G:0.31, T:0.29
Consensus pattern (14 bp):
AATTGAGGATTGGA
Found at i:11000960 original size:12 final size:11
Alignment explanation
Indices: 11000941--11000971 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
11000931 TATATAAAAC
11000941 TTATTTTATTA
1 TTATTTTATTA
11000952 TTAATTTTATTA
1 TT-ATTTTATTA
11000964 TTATTTTA
1 TTATTTTA
11000972 AAGACATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:11000985 original size:30 final size:30
Alignment explanation
Indices: 11000949--11001010 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
11000939 ACTTATTTTA
11000949 TTATTAATTTTATTATTATTTTAAAGACAT
1 TTATTAATTTTATTATTATTTTAAAGACAT
* *
11000979 TTATTAATTTTGTTATTATTTTAGAGACAT
1 TTATTAATTTTATTATTATTTTAAAGACAT
11001009 TT
1 TT
11001011 GCTTGTTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.32, C:0.03, G:0.06, T:0.58
Consensus pattern (30 bp):
TTATTAATTTTATTATTATTTTAAAGACAT
Found at i:11001164 original size:12 final size:12
Alignment explanation
Indices: 11001134--11001166 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
11001124 TATGTATTTT
11001134 AAAATT-ATATA
1 AAAATTAATATA
11001145 AAAA-TAATATA
1 AAAATTAATATA
11001156 AAAATTAATAT
1 AAAATTAATAT
11001167 GGGCGGGACG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:11015044 original size:17 final size:17
Alignment explanation
Indices: 11015022--11015057 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
11015012 AAATAGGTTA
11015022 CTTTTTTTTAGTCGTGC
1 CTTTTTTTTAGTCGTGC
11015039 CTTTTTTTTAGTCGTGC
1 CTTTTTTTTAGTCGTGC
11015056 CT
1 CT
11015058 ACCTGACAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.06, C:0.19, G:0.17, T:0.58
Consensus pattern (17 bp):
CTTTTTTTTAGTCGTGC
Found at i:11015121 original size:12 final size:11
Alignment explanation
Indices: 11015075--11015130 Score: 51
Period size: 11 Copynumber: 4.9 Consensus size: 11
11015065 AGGCGCGACA
11015075 TATTATTTTAT
1 TATTATTTTAT
* *
11015086 TAATAATTTTTTT
1 T-ATTA-TTTTAT
*
11015099 TAATATTTTAT
1 TATTATTTTAT
11015110 TATTATTATTAT
1 TATTATT-TTAT
11015122 TA-TATTTTA
1 TATTATTTTA
11015131 AAAAAATTTC
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
10 3 0.08
11 16 0.44
12 11 0.31
13 6 0.17
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TATTATTTTAT
Found at i:11017256 original size:13 final size:13
Alignment explanation
Indices: 11017238--11017272 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
11017228 CAGAAGATCA
11017238 TCGAAAACTTGAT
1 TCGAAAACTTGAT
11017251 TCGAAAACTTGAT
1 TCGAAAACTTGAT
11017264 TCGAAAACT
1 TCGAAAACT
11017273 ATTTGTACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (13 bp):
TCGAAAACTTGAT
Found at i:11019148 original size:20 final size:19
Alignment explanation
Indices: 11019116--11019177 Score: 92
Period size: 18 Copynumber: 3.3 Consensus size: 19
11019106 AATATAATGC
11019116 AAAAAAA-TAATTTACATA
1 AAAAAAAGTAATTTACATA
11019134 AAAATAAAGTAATTTACAT-
1 AAAA-AAAGTAATTTACATA
11019153 AAAAAAAGTAATTTACAATA
1 AAAAAAAGTAATTTAC-ATA
11019173 AAAAA
1 AAAAA
11019178 CCCCTTAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
18 16 0.40
19 9 0.22
20 15 0.38
ACGTcount: A:0.66, C:0.05, G:0.03, T:0.26
Consensus pattern (19 bp):
AAAAAAAGTAATTTACATA
Found at i:11019481 original size:18 final size:18
Alignment explanation
Indices: 11019444--11019483 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
11019434 CCGGAGTGTA
* *
11019444 GCTCCGGCTCTGGCTCTG
1 GCTCCGGCTCCGACTCTG
*
11019462 GCTCCGGCTCCGACTTTG
1 GCTCCGGCTCCGACTCTG
11019480 GCTC
1 GCTC
11019484 TAGGTCTACC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.03, C:0.40, G:0.30, T:0.28
Consensus pattern (18 bp):
GCTCCGGCTCCGACTCTG
Found at i:11021973 original size:17 final size:16
Alignment explanation
Indices: 11021951--11021997 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
11021941 AAAAATTTAT
11021951 CAAATAATTCTAAATTA
1 CAAATAATT-TAAATTA
*
11021968 CAAATAATTTAATTTTA
1 CAAATAATTTAA-ATTA
11021985 -AAATAATTATAAA
1 CAAATAATT-TAAA
11021998 AATTTACTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 11 0.42
17 15 0.58
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.38
Consensus pattern (16 bp):
CAAATAATTTAAATTA
Found at i:11022282 original size:3 final size:3
Alignment explanation
Indices: 11022276--11022307 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
11022266 TTTTTAAAAT
11022276 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
11022308 TTAAAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:11025863 original size:27 final size:27
Alignment explanation
Indices: 11025833--11026003 Score: 173
Period size: 27 Copynumber: 6.3 Consensus size: 27
11025823 TACTGCAATG
** *
11025833 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
* * * * *
11025860 CCCTTGATTTATAGAATTACCGTTTCA
1 CCCTCGATTTACAAAATTACCATTTTA
* *
11025887 CCCTTGATTTATAAAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
* * * *
11025914 CCCTCGATTTACAGAGTTATCGTTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
*
11025941 CCTTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
**
11025968 CCCTC-AGTTTACAAAATTATTATTTTA
1 CCCTCGA-TTTACAAAATTACCATTTTA
11025995 CCCTCGATT
1 CCCTCGATT
11026004 GTGAAATTAC
Statistics
Matches: 121, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
26 1 0.01
27 119 0.98
28 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.08, T:0.42
Consensus pattern (27 bp):
CCCTCGATTTACAAAATTACCATTTTA
Found at i:11025959 original size:81 final size:81
Alignment explanation
Indices: 11025855--11026003 Score: 194
Period size: 81 Copynumber: 1.8 Consensus size: 81
11025845 AGAATTACCA
* * * * *
11025855 TTTTACCCTTGATTTATAGAATTACCGTTTCACCCT-TGATTTATAAAATTACCATTTTACCCTC
1 TTTTACCCTTGATTTACAAAATTACCATTTCACCCTCAG-TTTACAAAATTACCATTTTACCCTC
11025919 GATTTACAGAGTTATCG
65 GATTTACAGAGTTATCG
* **
11025936 TTTTA-CCTTCGATTTACAAAATTACCATTTTACCCTCAGTTTACAAAATTATTATTTTACCCTC
1 TTTTACCCTT-GATTTACAAAATTACCATTTCACCCTCAGTTTACAAAATTACCATTTTACCCTC
11026000 GATT
65 GATT
11026004 GTGAAATTAC
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
80 4 0.07
81 53 0.91
82 1 0.02
ACGTcount: A:0.28, C:0.21, G:0.07, T:0.43
Consensus pattern (81 bp):
TTTTACCCTTGATTTACAAAATTACCATTTCACCCTCAGTTTACAAAATTACCATTTTACCCTCG
ATTTACAGAGTTATCG
Found at i:11026025 original size:27 final size:27
Alignment explanation
Indices: 11025995--11026158 Score: 95
Period size: 27 Copynumber: 6.1 Consensus size: 27
11025985 TATTATTTTA
* *
11025995 CCCTCGATTGTGAAATTACTAAAATAC
1 CCCTCGATTGTAAAATTACCAAAATAC
* * *
11026022 CCCT-G-TAAGATAGAATTACTAAAATAC
1 CCCTCGAT-TG-TAAAATTACCAAAATAC
* * *
11026049 CCCTAGTTTGTAAAATTACCGAAATAC
1 CCCTCGATTGTAAAATTACCAAAATAC
* * * * *
11026076 CACTGGTTTGTGAAATTACCGAAATA-
1 CCCTCGATTGTAAAATTACCAAAATAC
* *
11026102 CTCTCAATTTGTAAAATTACCAAAATAC
1 CCCTCGA-TTGTAAAATTACCAAAATAC
* *
11026130 CCCT-AATT-TACAAAATTACAAAAATAC
1 CCCTCGATTGT--AAAATTACCAAAATAC
11026157 CC
1 CC
11026159 TTAACTTTCT
Statistics
Matches: 111, Mismatches: 18, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
25 2 0.02
26 7 0.06
27 96 0.86
28 5 0.05
29 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (27 bp):
CCCTCGATTGTAAAATTACCAAAATAC
Found at i:11026146 original size:54 final size:55
Alignment explanation
Indices: 11026055--11026213 Score: 158
Period size: 54 Copynumber: 2.9 Consensus size: 55
11026045 ATACCCCTAG
* *** * *
11026055 TTTGTAAAATTACCGAAATACCACTGGTTTGTGAAATTACCGAAATACTCTCAA-
1 TTTGTAAAATTACCAAAATACCACTGGTTTACAAAATTACAGAAATACCCTCAAC
* ** * *
11026109 TTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACAAAAATACCCTTAAC
1 TTTGTAAAATTACCAAAATACCACTGGTTTACAAAATTACAGAAATACCCTCAAC
* ** * *
11026164 TTTCTAAAAATTATAAAAATACCATTGGTTTACAAAATTACTGAAATACC
1 TTTGT-AAAATTACCAAAATACCACTGGTTTACAAAATTACAGAAATACC
11026214 GTTGGTTTGT
Statistics
Matches: 83, Mismatches: 20, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
54 43 0.52
55 4 0.05
56 36 0.43
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.31
Consensus pattern (55 bp):
TTTGTAAAATTACCAAAATACCACTGGTTTACAAAATTACAGAAATACCCTCAAC
Found at i:11027085 original size:20 final size:20
Alignment explanation
Indices: 11027062--11027112 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
11027052 TTGATATGAT
*
11027062 ATGCACTTGATATGTATAAA
1 ATGCACATGATATGTATAAA
*
11027082 ATGCACATGATATGTATGAA
1 ATGCACATGATATGTATAAA
11027102 ATGCACATGAT
1 ATGCACATGAT
11027113 GTATTCATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (20 bp):
ATGCACATGATATGTATAAA
Found at i:11027240 original size:52 final size:51
Alignment explanation
Indices: 11027162--11027297 Score: 224
Period size: 52 Copynumber: 2.7 Consensus size: 51
11027152 GAGGAAGTGC
*
11027162 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCG
11027214 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
11027265 AAAAGGGCTT-TGCCCCAG-TTATT-AAAAGAGGCT
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAG-GGCT
11027298 AGGCCTCCAG
Statistics
Matches: 82, Mismatches: 1, Indels: 5
0.93 0.01 0.06
Matches are distributed among these distances:
48 5 0.06
49 9 0.11
50 8 0.10
51 24 0.29
52 36 0.44
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
Found at i:11027259 original size:25 final size:26
Alignment explanation
Indices: 11027162--11027297 Score: 190
Period size: 26 Copynumber: 5.3 Consensus size: 26
11027152 GAGGAAGTGC
11027162 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
11027188 AAAAGGGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
11027214 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
11027240 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
11027265 AAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
11027288 AAAAGAGGCT
1 AAAAG-GGCT
11027298 AGGCCTCCAG
Statistics
Matches: 99, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
23 5 0.05
24 7 0.07
25 31 0.31
26 56 0.57
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Done.