Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 70 of 362
Found at i:21745373 original size:10 final size:9
Alignment explanation
Indices: 21745341--21745415 Score: 55
Period size: 10 Copynumber: 7.7 Consensus size: 9
21745331 TAAAAGAATC
21745341 ATAAATAATT
1 ATAAA-AATT
21745351 ATAAAAGAGTT
1 ATAAAA-A-TT
21745362 ATAGAAAATT
1 ATA-AAAATT
21745372 ATATAAAATT
1 ATA-AAAATT
*
21745382 A-ATAAAATG
1 ATA-AAAATT
21745391 ATAAAAA-T
1 ATAAAAATT
21745399 ATTAAAAATTT
1 A-TAAAAA-TT
21745410 ATAAAA
1 ATAAAA
21745416 CTAGTAATTT
Statistics
Matches: 55, Mismatches: 3, Indels: 14
0.76 0.04 0.19
Matches are distributed among these distances:
8 1 0.02
9 19 0.35
10 24 0.44
11 8 0.15
12 3 0.05
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (9 bp):
ATAAAAATT
Found at i:21745388 original size:9 final size:10
Alignment explanation
Indices: 21745347--21745415 Score: 51
Period size: 9 Copynumber: 7.2 Consensus size: 10
21745337 AATCATAAAT
21745347 AATTATA-AA
1 AATTATATAA
*
21745356 AGAGTTATAGAA
1 A-A-TTATATAA
21745368 AATTATATAA
1 AATTATATAA
21745378 AATTA-ATAA
1 AATTATATAA
*
21745387 AATGATA-AA
1 AATTATATAA
21745396 AA-TAT-TAAA
1 AATTATAT-AA
21745405 AATT-TATAA
1 AATTATATAA
21745414 AA
1 AA
21745416 CTAGTAATTT
Statistics
Matches: 49, Mismatches: 3, Indels: 16
0.72 0.04 0.24
Matches are distributed among these distances:
8 2 0.04
9 22 0.45
10 16 0.33
11 6 0.12
12 3 0.06
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (10 bp):
AATTATATAA
Found at i:21745451 original size:9 final size:8
Alignment explanation
Indices: 21745425--21745477 Score: 52
Period size: 9 Copynumber: 6.0 Consensus size: 8
21745415 ACTAGTAATT
21745425 TTTTAAAAA
1 TTTT-AAAA
*
21745434 TTTTTAAA
1 TTTTAAAA
21745442 TTTTGAAAA
1 TTTT-AAAA
21745451 TTTTAATAA
1 TTTTAA-AA
21745460 TTTCTAATAA
1 TTT-TAA-AA
21745470 TTTTAAAA
1 TTTTAAAA
21745478 AATTAATAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
8 11 0.28
9 19 0.49
10 9 0.23
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (8 bp):
TTTTAAAA
Found at i:21745762 original size:12 final size:12
Alignment explanation
Indices: 21745745--21745776 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
21745735 AACCTTTAAA
21745745 ATAATTTTTTTT
1 ATAATTTTTTTT
21745757 ATAATTTTTTTT
1 ATAATTTTTTTT
21745769 ATAATTTT
1 ATAATTTT
21745777 CACTATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (12 bp):
ATAATTTTTTTT
Found at i:21745794 original size:17 final size:17
Alignment explanation
Indices: 21745764--21745801 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
21745754 TTTATAATTT
*
21745764 TTTTTATAATTTTCACTA
1 TTTTTATAAGTTTCA-TA
21745782 TTTTTAT-AGTTTCATA
1 TTTTTATAAGTTTCATA
21745798 TTTT
1 TTTT
21745802 AATCTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 6 0.32
17 6 0.32
18 7 0.37
ACGTcount: A:0.24, C:0.08, G:0.03, T:0.66
Consensus pattern (17 bp):
TTTTTATAAGTTTCATA
Found at i:21748722 original size:10 final size:10
Alignment explanation
Indices: 21748707--21748753 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
21748697 TAACATTTTG
21748707 AATTTTAATT
1 AATTTTAATT
*
21748717 AATTTTATATAA
1 AATTTTA-AT-T
21748729 AATTTTAATT
1 AATTTTAATT
*
21748739 AATTTTGATT
1 AATTTTAATT
21748749 -ATTTT
1 AATTTT
21748754 TGACAGATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
9 5 0.16
10 16 0.50
11 4 0.12
12 7 0.22
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (10 bp):
AATTTTAATT
Found at i:21750325 original size:42 final size:42
Alignment explanation
Indices: 21750279--21750362 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
21750269 TACTTAGCTA
* *
21750279 AAAATCTTAGTTTTTAATCTCCTAGTCAAATCAAAATATTTT
1 AAAATCTTAGTTTTTAACCACCTAGTCAAATCAAAATATTTT
* *
21750321 AAAATCTTAGTTTTTAACCACCTTGTCAAATCAATATATTTT
1 AAAATCTTAGTTTTTAACCACCTAGTCAAATCAAAATATTTT
21750363 TCTTCATCAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.37, C:0.15, G:0.05, T:0.43
Consensus pattern (42 bp):
AAAATCTTAGTTTTTAACCACCTAGTCAAATCAAAATATTTT
Found at i:21756563 original size:15 final size:16
Alignment explanation
Indices: 21756545--21756574 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21756535 ATTTGATCAT
21756545 ATTTTA-TTTAATAAG
1 ATTTTATTTTAATAAG
21756560 ATTTTATTTTAATAA
1 ATTTTATTTTAATAA
21756575 ATTAATAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (16 bp):
ATTTTATTTTAATAAG
Found at i:21756963 original size:29 final size:29
Alignment explanation
Indices: 21756930--21756988 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
21756920 GCCCATCCCG
21756930 CACGCACCTGCCTCCATCGCTCACTGCTA
1 CACGCACCTGCCTCCATCGCTCACTGCTA
*
21756959 CACGCACCTGCCTCCATCGCTCGCTGCTA
1 CACGCACCTGCCTCCATCGCTCACTGCTA
21756988 C
1 C
21756989 TACCTTGCAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.15, C:0.49, G:0.15, T:0.20
Consensus pattern (29 bp):
CACGCACCTGCCTCCATCGCTCACTGCTA
Found at i:21762648 original size:40 final size:40
Alignment explanation
Indices: 21762588--21762771 Score: 230
Period size: 40 Copynumber: 4.6 Consensus size: 40
21762578 TATTCGAATG
*
21762588 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * *
21762628 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * *
21762668 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
* *
21762708 ATATCCGAGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
21762748 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
21762772 CTTGTGCGAG
Statistics
Matches: 124, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 1 0.01
40 120 0.97
41 3 0.02
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:21762721 original size:80 final size:80
Alignment explanation
Indices: 21762588--21762771 Score: 257
Period size: 80 Copynumber: 2.3 Consensus size: 80
21762578 TATTCGAATG
* * *
21762588 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAG-TCCCGAAGGC
* *
21762652 ATTTGTGCGAGTTG-CT
65 ATTTATGCGAG-TGACC
*
21762668 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCC-GAGCTAAGTCCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGA-CTAAGTCCCGAAGGC
*
21762732 ATTTATGCTAGTGACC
65 ATTTATGCGAGTGACC
21762748 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
21762772 CTTGTGCGAG
Statistics
Matches: 94, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
79 5 0.05
80 89 0.95
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
TTTATGCGAGTGACC
Found at i:21770733 original size:40 final size:40
Alignment explanation
Indices: 21770671--21770854 Score: 221
Period size: 40 Copynumber: 4.6 Consensus size: 40
21770661 TATTCGAATG
*
21770671 ATATCCGGGCTAAG-TCCTGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGATCC-GAAGGCATTTATGCTAGTGACT
* * * *
21770711 ATATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * * *
21770751 ATATCCGGGCTAAGACCCAAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
21770791 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
21770831 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
21770855 CTTGTGCGAG
Statistics
Matches: 122, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 1 0.01
40 116 0.95
41 5 0.04
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:21774801 original size:10 final size:10
Alignment explanation
Indices: 21774786--21774830 Score: 54
Period size: 10 Copynumber: 4.2 Consensus size: 10
21774776 AAATGCTCGT
21774786 GAAAAAAAAA
1 GAAAAAAAAA
21774796 GAAAAAAAAGAAA
1 G--AAAAAA-AAA
*
21774809 GAAAAGAAAA
1 GAAAAAAAAA
21774819 GAAAAAAAAA
1 GAAAAAAAAA
21774829 GA
1 GA
21774831 GCATATGTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
10 15 0.50
11 5 0.17
12 6 0.20
13 4 0.13
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (10 bp):
GAAAAAAAAA
Found at i:21774802 original size:9 final size:9
Alignment explanation
Indices: 21774788--21774828 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
21774778 ATGCTCGTGA
21774788 AAAAAAAAG
1 AAAAAAAAG
21774797 AAAAAAAAG
1 AAAAAAAAG
*
21774806 AAAGAAAAG
1 AAAAAAAAG
21774815 AAAAGAAAA-
1 AAAA-AAAAG
21774824 AAAAA
1 AAAAA
21774829 GAGCATATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
8 1 0.03
9 24 0.83
10 4 0.14
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:21776434 original size:20 final size:18
Alignment explanation
Indices: 21776401--21776437 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
21776391 TGTGATGTTT
21776401 ATATGCTTAATTTAATTA
1 ATATGCTTAATTTAATTA
21776419 ATATGACTTAAATTTAATT
1 ATATG-CTT-AATTTAATT
21776438 CATGTTAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 3 0.18
20 9 0.53
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (18 bp):
ATATGCTTAATTTAATTA
Found at i:21781189 original size:55 final size:53
Alignment explanation
Indices: 21781034--21781240 Score: 153
Period size: 53 Copynumber: 3.8 Consensus size: 53
21781024 TTTCTTTTTA
* * * * *
21781034 AACTTACCAGTGCCATGTCTTGACATGGTATTACGTGATATCCTTGCCTTATG
1 AACTCACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATC
* * * * ** *
21781087 AACTCACCATTGCCATGCCTTGGCATGGTCTTACTTGGGATCTTTGCCTTATC
1 AACTCACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATC
* * * * * * *
21781140 ATAGTTTATCAATGTCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAA
1 A-A-CTCACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAT-C
* * * * * * *
21781196 AACTTACAAATGCCATGCCTTGGCAAGGTCTTACTTGGTATCCTT
1 AACTCACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTT
21781241 AAACCCTAAT
Statistics
Matches: 117, Mismatches: 34, Indels: 5
0.75 0.22 0.03
Matches are distributed among these distances:
53 44 0.38
54 34 0.29
55 38 0.32
56 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.37
Consensus pattern (53 bp):
AACTCACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATC
Found at i:21795826 original size:158 final size:158
Alignment explanation
Indices: 21795538--21795854 Score: 580
Period size: 158 Copynumber: 2.0 Consensus size: 158
21795528 ATGCCTAAGT
*
21795538 GGTCAGGCCGTGTACTACACTCGCCCGTGTCCCTAACCCATGTAACTCTCTGACTTTTAAGGCAT
1 GGTCAGGCCGTGTACTACACTCGCCCGTGTCCCTAACCCATGTAACTCTCTGAATTTTAAGGCAT
*
21795603 GAAGAAATTAAAGTAACACCGCCAAGTCAGACGCTCGTGTGCTAGGCTGTGTGACAAATTTTATT
66 GAAGAAATTAAAGTAACACCGCCAAGTCAGACGCCCGTGTGCTAGGCTGTGTGACAAATTTTATT
21795668 TTAGAATTTTAGGTGCAGTTTTCATACG
131 TTAGAATTTTAGGTGCAGTTTTCATACG
*
21795696 GGTCAGGCCGTGTACTACACTCGCCCGTGTCCCTAACCCGTGTAACTCTCTGAATTTTAAGGCAT
1 GGTCAGGCCGTGTACTACACTCGCCCGTGTCCCTAACCCATGTAACTCTCTGAATTTTAAGGCAT
* *
21795761 GAAGAAATTAAAGTAACACGGCCAAGTCAGACGCCCGTGTGCTAGGCTGTGTGGCAAATTTTATT
66 GAAGAAATTAAAGTAACACCGCCAAGTCAGACGCCCGTGTGCTAGGCTGTGTGACAAATTTTATT
*
21795826 TTCGAATTTTAGGTGCAGTTTTCATACG
131 TTAGAATTTTAGGTGCAGTTTTCATACG
21795854 G
1 G
21795855 CTGTGTAACA
Statistics
Matches: 153, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
158 153 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (158 bp):
GGTCAGGCCGTGTACTACACTCGCCCGTGTCCCTAACCCATGTAACTCTCTGAATTTTAAGGCAT
GAAGAAATTAAAGTAACACCGCCAAGTCAGACGCCCGTGTGCTAGGCTGTGTGACAAATTTTATT
TTAGAATTTTAGGTGCAGTTTTCATACG
Found at i:21799820 original size:28 final size:28
Alignment explanation
Indices: 21799788--21799915 Score: 184
Period size: 28 Copynumber: 4.5 Consensus size: 28
21799778 ATAGTAAGTC
21799788 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
21799816 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGC-TATATAATCAAACT
21799845 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* ** * *
21799873 TGCACACTTAGTGCTATGCAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
21799902 CGCACACTTAGTGC
1 CGCACACTTAGTGC
21799916 CAATCTCATG
Statistics
Matches: 90, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
28 45 0.50
29 45 0.50
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:21799847 original size:29 final size:28
Alignment explanation
Indices: 21799788--21799915 Score: 168
Period size: 29 Copynumber: 4.5 Consensus size: 28
21799778 ATAGTAAGTC
*
21799788 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
21799816 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGC-TACATAATCAAACT
*
21799845 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
* * * *
21799873 TGCACACTTAGTGCTATGCA-ATTTAAACC
1 CGCACACTTAGTGCTA--CATAATCAAACT
21799902 CGCACACTTAGTGC
1 CGCACACTTAGTGC
21799916 CAATCTCATG
Statistics
Matches: 89, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
28 42 0.47
29 46 0.52
30 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:21799878 original size:57 final size:57
Alignment explanation
Indices: 21799787--21799915 Score: 197
Period size: 57 Copynumber: 2.3 Consensus size: 57
21799777 TATAGTAAGT
21799787 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCT-TACATAATCAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACA-AATCAAAC
* * * * *
21799844 TCGCACACTTAGTGCTATATAATCAAACTTGCACACTTAGTGCTATGCAATTTAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
21799901 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
21799916 CAATCTCATG
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
57 62 0.95
58 3 0.05
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.28
Consensus pattern (57 bp):
CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
Found at i:21807859 original size:28 final size:28
Alignment explanation
Indices: 21807827--21807954 Score: 175
Period size: 29 Copynumber: 4.5 Consensus size: 28
21807817 ATAGTAAGTC
*
21807827 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
21807855 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGC-TATATAATCAAACT
21807884 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* ** * *
21807912 TGCACACTTAGTGCTATGCAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
21807941 CGCACACTTAGTGC
1 CGCACACTTAGTGC
21807955 CAATCTCATG
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 44 0.49
29 45 0.51
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:21807917 original size:57 final size:57
Alignment explanation
Indices: 21807826--21807954 Score: 188
Period size: 57 Copynumber: 2.3 Consensus size: 57
21807816 TATAGTAAGT
*
21807826 CCGCACACTTAGTGTTATATAATCAAACTCGCACACTTAGTGCT-TACATAATCAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACA-AATCAAAC
* * * * *
21807883 TCGCACACTTAGTGCTATATAATCAAACTTGCACACTTAGTGCTATGCAATTTAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
21807940 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
21807955 CAATCTCATG
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
57 61 0.95
58 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (57 bp):
CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
Found at i:21813013 original size:15 final size:17
Alignment explanation
Indices: 21812993--21813024 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
21812983 ATAGCATAAT
21812993 TACCAAA-TCA-ATTCA
1 TACCAAACTCACATTCA
21813008 TACCAAACTCACATTCA
1 TACCAAACTCACATTCA
21813025 CAAGTATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (17 bp):
TACCAAACTCACATTCA
Found at i:21827065 original size:15 final size:17
Alignment explanation
Indices: 21827047--21827078 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
21827037 TAGCATGTTT
21827047 TACCAAA-TCA-ATTCA
1 TACCAAACTCACATTCA
21827062 TACCAAACTCACATTCA
1 TACCAAACTCACATTCA
21827079 AAAGTGTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (17 bp):
TACCAAACTCACATTCA
Found at i:21835222 original size:36 final size:36
Alignment explanation
Indices: 21835171--21835241 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 36
21835161 TAAACTCTAT
* *
21835171 TTAGTTCAGCGGCCTTTCAGATCTATAT-TGACTGAC
1 TTAGTTCAACAGCCTTTCAGATCTAT-TCTGACTGAC
21835207 TTAGTTCAACAGCCTTTCAGATCTATTCTGACTGA
1 TTAGTTCAACAGCCTTTCAGATCTATTCTGACTGA
21835242 GGTGCTTCTC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
35 1 0.03
36 31 0.97
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.37
Consensus pattern (36 bp):
TTAGTTCAACAGCCTTTCAGATCTATTCTGACTGAC
Found at i:21837508 original size:15 final size:15
Alignment explanation
Indices: 21837490--21837519 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21837480 CCAAATTATT
21837490 AATGAAATATTTTAA
1 AATGAAATATTTTAA
*
21837505 AATGAATTATTTTAA
1 AATGAAATATTTTAA
21837520 TCATGCATGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (15 bp):
AATGAAATATTTTAA
Found at i:21838789 original size:7 final size:7
Alignment explanation
Indices: 21838769--21838809 Score: 64
Period size: 7 Copynumber: 5.9 Consensus size: 7
21838759 GAAAGAAATT
*
21838769 CATTGAA
1 CATTTAA
*
21838776 CACTTAA
1 CATTTAA
21838783 CATTTAA
1 CATTTAA
21838790 CATTTAA
1 CATTTAA
21838797 CATTTAA
1 CATTTAA
21838804 CATTTA
1 CATTTA
21838810 CTAATGTCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.41, C:0.17, G:0.02, T:0.39
Consensus pattern (7 bp):
CATTTAA
Found at i:21846075 original size:46 final size:46
Alignment explanation
Indices: 21846008--21846173 Score: 147
Period size: 46 Copynumber: 3.6 Consensus size: 46
21845998 TGTAACCCGC
* * *
21846008 CCATAAGTGAACTCAGACTCAACTCAATGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGATGTTAGCAT
* * *
21846054 CCATAAGTGAACTCGGACTCAACTCAACT-AGCTCAGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAA-TGAGCTCGGATG-TTAGCAT
* *** * * ** *
21846100 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAATGAGCTCGGATGTTAGCAT
*
21846147 CCATAAGTGAACTTGGACTCAACTCAA
1 CCATAAGTGAACTCGGACTCAACTCAA
21846174 CGATTTCGGA
Statistics
Matches: 92, Mismatches: 23, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
46 59 0.64
47 33 0.36
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGATGTTAGCAT
Found at i:21872208 original size:10 final size:10
Alignment explanation
Indices: 21872193--21872217 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
21872183 GAATCTATCA
21872193 AAAATAAATC
1 AAAATAAATC
21872203 AAAATAAATC
1 AAAATAAATC
21872213 AAAAT
1 AAAAT
21872218 TTATTATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.20
Consensus pattern (10 bp):
AAAATAAATC
Found at i:21874096 original size:43 final size:42
Alignment explanation
Indices: 21873966--21874122 Score: 158
Period size: 43 Copynumber: 3.7 Consensus size: 42
21873956 TTTCGATATG
* *
21873966 TGATTTCGTGTAAGACCACGTCTGGGAC-GTTGGCATC-TATT
1 TGATTTCATGTAAGACCATGTCTGGGACAG-TGGCATCGTATT
* * *
21874007 TGAGATTTACGTGTAAGACCATGTCTTGGACA-TCGACATCGTATT
1 T--GATTT-CATGTAAGACCATGTCTGGGACAGT-GGCATCGTATT
*
21874052 TGATTTCATGTAAGACCTTGTCTGGGACAGTGGCATCGATATT
1 TGATTTCATGTAAGACCATGTCTGGGACAGTGGCATCG-TATT
* * *
21874095 TGATTACATGTAAGACCACGTCTAGGAC
1 TGATTTCATGTAAGACCATGTCTGGGAC
21874123 GTTGGGATTG
Statistics
Matches: 97, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
41 1 0.01
42 26 0.27
43 40 0.41
44 25 0.26
45 5 0.05
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.32
Consensus pattern (42 bp):
TGATTTCATGTAAGACCATGTCTGGGACAGTGGCATCGTATT
Found at i:21875812 original size:14 final size:15
Alignment explanation
Indices: 21875793--21875830 Score: 60
Period size: 14 Copynumber: 2.5 Consensus size: 15
21875783 CTCTTCTCTC
21875793 TTTTTTTCTTT-TCT
1 TTTTTTTCTTTATCT
21875807 TTTTTTTCTTTATCT
1 TTTTTTTCTTTATCT
21875822 TCTTTTTTC
1 T-TTTTTTC
21875831 CACGAGCATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 11 0.50
15 4 0.18
16 7 0.32
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTTTTCTTTATCT
Found at i:21886191 original size:28 final size:28
Alignment explanation
Indices: 21886150--21886213 Score: 110
Period size: 28 Copynumber: 2.3 Consensus size: 28
21886140 TTCCTCGCTA
*
21886150 TGCAAAATTCTTAAAAGAATTGTACATT
1 TGCAAAATTATTAAAAGAATTGTACATT
*
21886178 TGCAAAATTATTAAAAGAATTGTGCATT
1 TGCAAAATTATTAAAAGAATTGTACATT
21886206 TGCAAAAT
1 TGCAAAAT
21886214 GAAGCTCTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.34
Consensus pattern (28 bp):
TGCAAAATTATTAAAAGAATTGTACATT
Found at i:21891106 original size:15 final size:16
Alignment explanation
Indices: 21891086--21891119 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
21891076 GTTTTAATTT
21891086 TATTAT-TTTAACATA
1 TATTATATTTAACATA
21891101 TATTATAATTTAACATA
1 TATTAT-ATTTAACATA
21891118 TA
1 TA
21891120 AAATACTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
17 11 0.65
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (16 bp):
TATTATATTTAACATA
Found at i:21892085 original size:29 final size:31
Alignment explanation
Indices: 21892040--21892097 Score: 77
Period size: 29 Copynumber: 1.9 Consensus size: 31
21892030 ACAAACTTGA
*
21892040 AATTTAGTGCTTGTATTTTT-AT-TTTTAGG
1 AATTTAGTGCTTCTATTTTTCATATTTTAGG
21892069 AATTTAGT-CTCTCTATTTTTCATATTTTA
1 AATTTAGTGCT-TCTATTTTTCATATTTTA
21892098 AAATTTAAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 2 0.08
29 16 0.64
30 2 0.08
31 5 0.20
ACGTcount: A:0.22, C:0.09, G:0.10, T:0.59
Consensus pattern (31 bp):
AATTTAGTGCTTCTATTTTTCATATTTTAGG
Found at i:21894234 original size:25 final size:23
Alignment explanation
Indices: 21894198--21894253 Score: 62
Period size: 25 Copynumber: 2.4 Consensus size: 23
21894188 TTTACCCTAC
21894198 TTTTA-TATTATATATTGAAAAATTA
1 TTTTATTA-TATATATT--AAAATTA
*
21894223 TTTTATTATATATATTAATATTA
1 TTTTATTATATATATTAAAATTA
21894246 -TTTATTAT
1 TTTTATTAT
21894254 CTATTGTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 8 0.28
23 6 0.21
25 13 0.45
26 2 0.07
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (23 bp):
TTTTATTATATATATTAAAATTA
Found at i:21894332 original size:19 final size:20
Alignment explanation
Indices: 21894310--21894356 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
21894300 ATAATTATTC
21894310 TATTTTT-ACT-TGTATTATA
1 TATTTTTAACTATGTA-TATA
*
21894329 TATTTATTAACTATTTATATA
1 TATTT-TTAACTATGTATATA
21894350 TATTTTT
1 TATTTTT
21894357 GACATATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 5 0.21
20 4 0.17
21 12 0.50
22 3 0.12
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (20 bp):
TATTTTTAACTATGTATATA
Found at i:21898498 original size:14 final size:16
Alignment explanation
Indices: 21898479--21898515 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
21898469 CGATATCCTT
21898479 TTTACAT-TCAT-GCA
1 TTTACATCTCATAGCA
21898493 TTTACATCTCATAGCA
1 TTTACATCTCATAGCA
21898509 TTT-CATC
1 TTTACATC
21898516 ATATCATTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.33
15 8 0.38
16 6 0.29
ACGTcount: A:0.27, C:0.24, G:0.05, T:0.43
Consensus pattern (16 bp):
TTTACATCTCATAGCA
Found at i:21901420 original size:39 final size:40
Alignment explanation
Indices: 21901376--21901542 Score: 225
Period size: 40 Copynumber: 4.2 Consensus size: 40
21901366 CCTTCGGAGT
*
21901376 TTAG-CCGGATATAGCT-ACTAGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGATATAG-TAACTAGCACAAATGCCTTCGGGAC
* *
21901415 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGAC
* *
21901455 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCAGG-C
1 TTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGAC
* *
21901494 TTAGCCCAGA-ATTAGTCACTAGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATA-TAGTAACTAGCACAAATGCCTTCGGGAC
21901534 TTAGCCCGG
1 TTAGCCCGG
21901543 TTATCAATCT
Statistics
Matches: 114, Mismatches: 10, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
38 1 0.01
39 38 0.33
40 75 0.66
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGAC
Found at i:21901500 original size:79 final size:80
Alignment explanation
Indices: 21901376--21901542 Score: 225
Period size: 79 Copynumber: 2.1 Consensus size: 80
21901366 CCTTCGGAGT
* * ** *
21901376 TTAG-CCGGATATAGCTACTAGCTCAAATGCCTTCGGGACTTAGCCC-GGTTATAGTAACTCGCA
1 TTAGCCCGGATATAGCTACTAGCACAAATGCCTTCAGGACTTAGCCCAGAAT-TAGTAACTAGCA
21901439 CAAATGCCTTCGGGAC
65 CAAATGCCTTCGGGAC
* *
21901455 TTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCAGG-CTTAGCCCAGAATTAGTCACTAGCA
1 TTAGCCCGGATATAGCT-ACTAGCACAAATGCCTTCAGGACTTAGCCCAGAATTAGTAACTAGCA
21901518 CAAATGCCTTCGGGAC
65 CAAATGCCTTCGGGAC
21901534 TTAGCCCGG
1 TTAGCCCGG
21901543 TTATCAATCT
Statistics
Matches: 78, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
79 48 0.62
80 30 0.38
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
TTAGCCCGGATATAGCTACTAGCACAAATGCCTTCAGGACTTAGCCCAGAATTAGTAACTAGCAC
AAATGCCTTCGGGAC
Found at i:21902755 original size:52 final size:53
Alignment explanation
Indices: 21902676--21902799 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 53
21902666 CTCAAAGCTC
*
21902676 TTTTTCCTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGC-TTT
1 TTTTTCTTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTTT
*
21902728 TTTTTCTTTCTTTTTCTTTCTTTTATTCGGCCAAGAACAACATGAGAGCTTTT
1 TTTTTCTTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTTT
21902781 TTTTTCTTTCTTTTTCTTT
1 TTTTTCTTTCTTTTTCTTT
21902800 TTTCATCATC
Statistics
Matches: 69, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
52 47 0.68
53 22 0.32
ACGTcount: A:0.16, C:0.20, G:0.10, T:0.54
Consensus pattern (53 bp):
TTTTTCTTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTTT
Found at i:21909459 original size:79 final size:78
Alignment explanation
Indices: 21909358--21909581 Score: 254
Period size: 79 Copynumber: 2.8 Consensus size: 78
21909348 GCTACTCGTT
* *
21909358 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
21909423 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* * *
21909438 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCAGA
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
* *
21909502 ATTAGTATCTTGCA
65 ATTAGTAACTCGCA
* * * * * *
21909516 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCAGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
21909580 GA
63 GA
21909582 CATCATTCAA
Statistics
Matches: 122, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
78 34 0.28
79 55 0.45
80 33 0.27
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:21909475 original size:39 final size:40
Alignment explanation
Indices: 21909358--21909581 Score: 253
Period size: 40 Copynumber: 5.7 Consensus size: 40
21909348 GCTACTCGTT
* *
21909358 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
21909398 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
21909438 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
21909477 CAAATGCCTTCGGG-CTTAGCCCAGAATTAGTATCTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * *
21909516 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCA
*
21909557 CAAA-GCCTTCAGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
21909582 CATCATTCAA
Statistics
Matches: 163, Mismatches: 14, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
38 2 0.01
39 72 0.44
40 76 0.47
41 13 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:21912440 original size:40 final size:40
Alignment explanation
Indices: 21912395--21912577 Score: 231
Period size: 40 Copynumber: 4.6 Consensus size: 40
21912385 CGAATACACG
* * * * *
21912395 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
* * * *** * *
21912435 ACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
* *
21912475 TCACTAGCACGAATGCTCTTCAGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
21912515 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
21912555 TCACTAGCATGAATGCTCTTCGG
1 TCACTAGCATGAATGCTCTTCGG
21912578 CTTTACAAGC
Statistics
Matches: 126, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 126 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
Found at i:21914972 original size:79 final size:79
Alignment explanation
Indices: 21914861--21915084 Score: 283
Period size: 79 Copynumber: 2.8 Consensus size: 79
21914851 GCTACTCGTT
* * *
21914861 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
21914926 ATTTAGTAACTCGCA
65 AATTAGTAACTCGCA
* *
21914941 CAAATGCCTTCGGGCTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCAG
1 CAAATGCCTTCGGGCTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
21915004 AATTAGTATCTCGCA
65 AATTAGTAACTCGCA
* * * * *
21915019 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
21915083 GA
64 GA
21915085 CATCATTCAA
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
78 35 0.28
79 57 0.46
80 33 0.26
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:21914978 original size:39 final size:40
Alignment explanation
Indices: 21914861--21915084 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
21914851 GCTACTCGTT
* *
21914861 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
21914901 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
21914941 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* *
21914980 CAAATGCCTTCGGG-CTTAGCCCAGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * *
21915019 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCA
21915060 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
21915085 CATCATTCAA
Statistics
Matches: 164, Mismatches: 13, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
38 2 0.01
39 73 0.45
40 76 0.46
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:21917727 original size:17 final size:16
Alignment explanation
Indices: 21917705--21917756 Score: 74
Period size: 14 Copynumber: 3.4 Consensus size: 16
21917695 GATTTTTTTA
21917705 AAAAAAATAACAATAAT
1 AAAAAAATAA-AATAAT
21917722 AAAAAAAT--AATAAT
1 AAAAAAATAAAATAAT
21917736 AAAAAAATAAAATAA-
1 AAAAAAATAAAATAAT
21917751 AAAAAA
1 AAAAAA
21917757 TAGAGAGGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
14 14 0.42
15 6 0.18
16 5 0.15
17 8 0.24
ACGTcount: A:0.83, C:0.02, G:0.00, T:0.15
Consensus pattern (16 bp):
AAAAAAATAAAATAAT
Found at i:21918982 original size:210 final size:210
Alignment explanation
Indices: 21918613--21919416 Score: 1067
Period size: 210 Copynumber: 3.8 Consensus size: 210
21918603 TAAGCCGCAG
** *
21918613 CATAGCAGATCTCATGTTCAGATGTTTATGCTGAAGCAGATCCAAGATGACAGATCTTATCTCTC
1 CATAGCAGATCTCACCTTCAGATGTTTACGCTGAAGCAGATCCAAGATGACAGATCTTATCTCTC
* * ** *
21918678 TGTATTCGGCGGGGAGCATATTAAAGATATAGCTGATTTGGCTTTCACGTGTTTACAATGAAGCA
66 TGTATTCGGCAGGGAGCAGATCGAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCA
* *
21918743 CATCTAAGATGATTTGTTGCCTTTGTATTGTCAGAGAACAAATCGAAGTCTGGCATTTCCACTTT
131 AATCTAAGATGATTTGTTGCCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATTTCCACTTT
21918808 AATGGAAGGCAGACA
196 AATGGAAGGCAGACA
*
21918823 CATAGCAGATCTCACCTTCAGATGTTTACGCTGAAGCAGATCCAAGATGATAGATCTTATCTCTC
1 CATAGCAGATCTCACCTTCAGATGTTTACGCTGAAGCAGATCCAAGATGACAGATCTTATCTCTC
* *
21918888 TATATTCGGCAGGGAACAGATCGAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCA
66 TGTATTCGGCAGGGAGCAGATCGAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCA
21918953 AATCTAAGATGATTTGTTGCCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATTTCCACTTT
131 AATCTAAGATGATTTGTTGCCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATTTCCACTTT
*
21919018 AATGGAAGGCAAACA
196 AATGGAAGGCAGACA
21919033 CATAGCAGATCTCACCTTCAGATGTTTACGCTGAAGCAGATCCAAGATGACAGATCTTATCTCTC
1 CATAGCAGATCTCACCTTCAGATGTTTACGCTGAAGCAGATCCAAGATGACAGATCTTATCTCTC
*
21919098 TGTATTCGGCAGGGAGTAGATCGAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCA
66 TGTATTCGGCAGGGAGCAGATCGAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCA
* * * * * * *
21919163 AATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCAAAGTCTAGCATCTCTACTTC
131 AATCTAAGATGATTTGTTGCCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATTTCCACTTT
* *
21919228 AATAG-AGTGCAGATA
196 AATGGAAG-GCAGACA
* * * *
21919243 CATAGCAGATCTGACCTTCAGACGATTA-GACTGAAACAAGATCCAAGA-G---GAT-TTGGCAT
1 CATAGCAGATCTCACCTTCAGATGTTTACG-CTGAAGC-AGATCCAAGATGACAGATCTT---AT
* * * * * * * * *
21919302 C-CT-TGTGCTT--ACAAGGAGCAAATCGAAGACATAGCTGATTTAGCTTTCACATGCTTATGAT
61 CTCTCTGT-ATTCGGCAGGGAGCAGATCGAAGATATAGCTGATTTGGCTTTCACGTGTTTACGAT
* * * *
21919363 GAAGAAAATCTAAGGTGATTTG-T-CATACCTGTATTGTTAGAGAACAAATCGAAG
125 GAAGCAAATCTAAGATGATTTGTTGCCT--CTGTATTGTCAGAGAACAAATCGAAG
21919417 AAGCAAATTT
Statistics
Matches: 536, Mismatches: 49, Indels: 22
0.88 0.08 0.04
Matches are distributed among these distances:
204 1 0.00
206 88 0.16
207 6 0.01
208 4 0.01
209 6 0.01
210 421 0.79
211 10 0.02
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (210 bp):
CATAGCAGATCTCACCTTCAGATGTTTACGCTGAAGCAGATCCAAGATGACAGATCTTATCTCTC
TGTATTCGGCAGGGAGCAGATCGAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCA
AATCTAAGATGATTTGTTGCCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATTTCCACTTT
AATGGAAGGCAGACA
Found at i:21921045 original size:22 final size:22
Alignment explanation
Indices: 21921019--21921074 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
21921009 CCTACTTTTA
21921019 TATTATATATTGAAAAATTATT
1 TATTATATATTGAAAAATTATT
* *
21921041 TATTATATATAT-TAATATTATT
1 TATTATATAT-TGAAAAATTATT
*
21921063 TATTATCTATTG
1 TATTATATATTG
21921075 TTTTTCACAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 1 0.03
22 27 0.93
23 1 0.03
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (22 bp):
TATTATATATTGAAAAATTATT
Found at i:21921332 original size:12 final size:12
Alignment explanation
Indices: 21921315--21921364 Score: 73
Period size: 12 Copynumber: 4.0 Consensus size: 12
21921305 ATGTATATCA
*
21921315 TATATTATCTAT
1 TATATTATTTAT
21921327 TATATTATTTATGT
1 TATATTATTTA--T
21921341 TATATTATTTAT
1 TATATTATTTAT
21921353 TATATTATTTAT
1 TATATTATTTAT
21921365 AATTTTAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
12 23 0.66
14 12 0.34
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (12 bp):
TATATTATTTAT
Found at i:21921345 original size:26 final size:26
Alignment explanation
Indices: 21921315--21921364 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
21921305 ATGTATATCA
21921315 TATATTATCTATTATATTATTTATGT
1 TATATTATCTATTATATTATTTATGT
*
21921341 TATATTATTTATTATATTATTTAT
1 TATATTATCTATTATATTATTTAT
21921365 AATTTTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (26 bp):
TATATTATCTATTATATTATTTATGT
Found at i:21927436 original size:48 final size:48
Alignment explanation
Indices: 21927365--21927461 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
21927355 ATCATATAAG
21927365 TTAAATTTGAATTTATATAGATCAAGAAAGAAAGAAATTAGATTTGGA
1 TTAAATTTGAATTTATATAGATCAAGAAAGAAAGAAATTAGATTTGGA
*
21927413 TTAAATTTGAATTTATATAGATCAAGAAAGAAAGAAATTGGATTTGGA
1 TTAAATTTGAATTTATATAGATCAAGAAAGAAAGAAATTAGATTTGGA
21927461 T
1 T
21927462 CGGGGGAAGT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.46, C:0.02, G:0.18, T:0.34
Consensus pattern (48 bp):
TTAAATTTGAATTTATATAGATCAAGAAAGAAAGAAATTAGATTTGGA
Found at i:21927783 original size:43 final size:42
Alignment explanation
Indices: 21927722--21927860 Score: 147
Period size: 43 Copynumber: 3.3 Consensus size: 42
21927712 ACTTCTGAGG
* * *
21927722 TGTGATTTCATGCAAGACCATGTCTAGGACATTGGCATCGATA
1 TGTGATTACATGTAAGACCATGTCTAGGATA-TGGCATCGATA
* * * * *
21927765 TGAGATTACATGTAAGACCCTGTCTGGGATAGAGGCATCAATA
1 TGTGATTACATGTAAGACCATGTCTAGGATA-TGGCATCGATA
* * *
21927808 TGTGATAACATGTAAGACCATATCTAGGATATGGCATTG-TA
1 TGTGATTACATGTAAGACCATGTCTAGGATATGGCATCGATA
21927849 TGTGA-TACATGT
1 TGTGATTACATGT
21927861 GTTTCTGAGT
Statistics
Matches: 78, Mismatches: 18, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
40 6 0.08
41 7 0.09
42 5 0.06
43 60 0.77
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (42 bp):
TGTGATTACATGTAAGACCATGTCTAGGATATGGCATCGATA
Found at i:21934978 original size:25 final size:25
Alignment explanation
Indices: 21934942--21934998 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
21934932 TATGTCTAGG
* *
21934942 CCAACCAGCTTCTTTTTACTAAGCT
1 CCAACCAGCTTCTTCTCACTAAGCT
* *
21934967 CTAACCAGCTTCTTCTCACTATGCT
1 CCAACCAGCTTCTTCTCACTAAGCT
21934992 CCAACCA
1 CCAACCA
21934999 ACAAACAGGA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.25, C:0.37, G:0.07, T:0.32
Consensus pattern (25 bp):
CCAACCAGCTTCTTCTCACTAAGCT
Found at i:21941541 original size:35 final size:35
Alignment explanation
Indices: 21941495--21941564 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
21941485 TATAAGGAAA
*
21941495 TCGTCACATACGAACTTACCTCGAGTATGAAAATG
1 TCGTCACATACGAACTTACCGCGAGTATGAAAATG
21941530 TCGTCACATACGAACTTACCGCGAGTATGAAAATG
1 TCGTCACATACGAACTTACCGCGAGTATGAAAATG
21941565 ACAAAATGAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (35 bp):
TCGTCACATACGAACTTACCGCGAGTATGAAAATG
Found at i:21949357 original size:37 final size:37
Alignment explanation
Indices: 21949307--21949451 Score: 236
Period size: 37 Copynumber: 3.9 Consensus size: 37
21949297 ACCTTTAGCT
* * *
21949307 CGGACGAAATCTCCACACGAAGTTATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
21949344 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
*
21949381 CGGGCAAAATCTCCACACGTAGTCATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
* *
21949418 CGGACATACTCTCCACACGTAGTCATCGGGTCTT
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTT
21949452 TAGAGCTCGG
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 101 1.00
ACGTcount: A:0.25, C:0.32, G:0.21, T:0.23
Consensus pattern (37 bp):
CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
Found at i:21949641 original size:47 final size:47
Alignment explanation
Indices: 21949570--21949930 Score: 580
Period size: 47 Copynumber: 7.6 Consensus size: 47
21949560 CCCTTCGGGA
* * * * * *
21949570 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGTC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG-C
*
21949618 C-TATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
21949664 CTTACCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
21949711 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
21949758 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21949805 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
21949852 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
21949899 CTTATCACATATATATACGCTTTCACATTCAT
1 CTTATCAC--ATATATACACTTTCACATTCAT
21949931 TCAAATATAC
Statistics
Matches: 296, Mismatches: 14, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
46 2 0.01
47 272 0.92
48 1 0.00
49 21 0.07
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:21954366 original size:577 final size:576
Alignment explanation
Indices: 21953273--21954399 Score: 2074
Period size: 577 Copynumber: 2.0 Consensus size: 576
21953263 ACTATGCGAC
* *
21953273 AATGTATATTAAATTCGTTGGTAAGATAAAAATATGAAAGTTGATGGTGACTAAATTATGATTTG
1 AATGTATATTAAATTCATTGGTAAGATAAAAATATGAAAGTTGATGGTGACTAAATTATGATTTC
* * *
21953338 GTAAATGTTTATATCTAATGTTAAAGCATTGGATGAATGGACTTAGTAGTTAACTCACCTGAAGG
66 GCAAATGTTTATATCTAATGGTAAAGCATTGGATGAATGAACTTAGTAGTTAACTCACCTGAAGG
* * *
21953403 TATATGTATAGTAGATGGATTATATGTAAGAGTAATTCCATTTTTAGGCAAATTTAGATGACCGA
131 TATATGTATAATAGATAGATTATATGTAAAAGTAATTCCATTTTTAGGCAAATTTAGATGACCGA
*
21953468 GTGAGTGATAAATAGATTTGTGGTAACTGAAATTTTGGCATGTGAAATGTGTATATTTTAAATCT
196 GTGAGTGATAAATAGATTTGTGGTAACCGAAATTTTGGCATGTGAAATGTGTATATTTTAAATCT
21953533 TTACTCGTGAGTTAAATGTTTAACCATAAATAATGATTGAGAATGATTTTAGTTCGTGAGTCAAG
261 TTACTCGTGAGTTAAATGTTTAACCATAAATAATGATTGAGAATGATTTTAGTTCGTGAGTCAAG
21953598 TTTAATAAATTTATTATTGACGGTCAGTTATAATTCTTGTTTAAATGGTTAAAATGTATATAACA
326 TTTAATAAATTTATTATTGACGGTCAGTTATAATTCTTGTTTAAATGGTTAAAATGTATATAACA
* *
21953663 TTTATTTGTTTACTGAAATATATTTGATTAATTGTGAGAATATGGTTACCGTGTATGCTGAATAA
391 TTTATTTGTTTACTAAAACATATTTGATTAATTGTGAGAATATGGTTACCGTGTATGCTGAATAA
*
21953728 TAAAATGCCATGAGTTAGATTCTATTTCATTTATTTTATACATATTTTGTAATATATCTTAAAAT
456 TAAAATGCCATGAGTTAGATTCTATTTCATTTATTTTATACATATTTTGTAATACATCTTAAAAT
21953793 GCTTGATGTCTGTTAGATATCCAAATTTTATACATATTCGAAATATACTGTGCAAT
521 GCTTGATGTCTGTTAGATATCCAAATTTTATACATATTCGAAATATACTGTGCAAT
*
21953849 AATGTATATTAAATTCATTGGTAAGATAAAGATATGAAAGTTGATGGTGACTAAATTATGATTTC
1 AATGTATATTAAATTCATTGGTAAGATAAAAATATGAAAGTTGATGGTGACTAAATTATGATTTC
*
21953914 GCAAATGTTTATATCTAATGGTAATGCATTGGATGAATGAACTTAGTAGTTAACTCACCTGAAGG
66 GCAAATGTTTATATCTAATGGTAAAGCATTGGATGAATGAACTTAGTAGTTAACTCACCTGAAGG
*
21953979 TATATGTGTAATAGATAGATTATATGTAAAAGTAATTCCATTTTTAGGCAAAGTTTAGATGACCG
131 TATATGTATAATAGATAGATTATATGTAAAAGTAATTCCATTTTTAGGCAAA-TTTAGATGACCG
*
21954044 AGTGGGTGATAAATAGATTTGTGGTAACCGAAATTTTGGCATGTGAAATGTGTATATTTTAAATC
195 AGTGAGTGATAAATAGATTTGTGGTAACCGAAATTTTGGCATGTGAAATGTGTATATTTTAAATC
*
21954109 TTTACTCGTGAGTTAAATGTTTAATCATAAATAATGATTGAGAATGATTTTAGTTCGTGAGTCAA
260 TTTACTCGTGAGTTAAATGTTTAACCATAAATAATGATTGAGAATGATTTTAGTTCGTGAGTCAA
* *
21954174 GTTTAGTAAATTTATTATTGACGGTCGGTTATAATTCTTGTTTAAATGGTTAAAATGTATATAAC
325 GTTTAATAAATTTATTATTGACGGTCAGTTATAATTCTTGTTTAAATGGTTAAAATGTATATAAC
21954239 ATTTATTTGTTTACTAAAACATATTTGATTAATTGTGAGAATATGGTTACCGTGTATGCTGAATA
390 ATTTATTTGTTTACTAAAACATATTTGATTAATTGTGAGAATATGGTTACCGTGTATGCTGAATA
21954304 ATAAAATGCCATGAGTTAGATTCTATTTCATTTATTTTATACATATTTTGTAATACATCTTAAAA
455 ATAAAATGCCATGAGTTAGATTCTATTTCATTTATTTTATACATATTTTGTAATACATCTTAAAA
21954369 TGCTTGATGTCTGTTAGATATCCAAATTTTA
520 TGCTTGATGTCTGTTAGATATCCAAATTTTA
21954400 ATTCGTATTT
Statistics
Matches: 531, Mismatches: 19, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
576 171 0.32
577 360 0.68
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.40
Consensus pattern (576 bp):
AATGTATATTAAATTCATTGGTAAGATAAAAATATGAAAGTTGATGGTGACTAAATTATGATTTC
GCAAATGTTTATATCTAATGGTAAAGCATTGGATGAATGAACTTAGTAGTTAACTCACCTGAAGG
TATATGTATAATAGATAGATTATATGTAAAAGTAATTCCATTTTTAGGCAAATTTAGATGACCGA
GTGAGTGATAAATAGATTTGTGGTAACCGAAATTTTGGCATGTGAAATGTGTATATTTTAAATCT
TTACTCGTGAGTTAAATGTTTAACCATAAATAATGATTGAGAATGATTTTAGTTCGTGAGTCAAG
TTTAATAAATTTATTATTGACGGTCAGTTATAATTCTTGTTTAAATGGTTAAAATGTATATAACA
TTTATTTGTTTACTAAAACATATTTGATTAATTGTGAGAATATGGTTACCGTGTATGCTGAATAA
TAAAATGCCATGAGTTAGATTCTATTTCATTTATTTTATACATATTTTGTAATACATCTTAAAAT
GCTTGATGTCTGTTAGATATCCAAATTTTATACATATTCGAAATATACTGTGCAAT
Found at i:21960667 original size:43 final size:43
Alignment explanation
Indices: 21960617--21960703 Score: 108
Period size: 43 Copynumber: 2.0 Consensus size: 43
21960607 ATTTGTGTTT
**
21960617 TCGATATGTGTTTACGA-GTAAGACC-CTGTCTGGGACAG-TGGCA
1 TCGATATGTGGCTAC-ATGTAAGACCAC-GTCTGGGAC-GTTGGCA
21960660 TCGATATGTGGCTACATGTAAGACCACGTCTGGGACGTTGGCA
1 TCGATATGTGGCTACATGTAAGACCACGTCTGGGACGTTGGCA
21960703 T
1 T
21960704 TGTACGTTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
42 2 0.05
43 36 0.92
44 1 0.03
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.28
Consensus pattern (43 bp):
TCGATATGTGGCTACATGTAAGACCACGTCTGGGACGTTGGCA
Found at i:21964241 original size:25 final size:26
Alignment explanation
Indices: 21964213--21964293 Score: 87
Period size: 25 Copynumber: 3.2 Consensus size: 26
21964203 GGAGGCCTAG
*
21964213 CCTTTTTTAAT-AACTGGGGCAAAGC
1 CCTTTTTTAATAAACTAGGGCAAAGC
*
21964238 CC-TTTTTGATAAACTAGGGCAAAGC
1 CCTTTTTTAATAAACTAGGGCAAAGC
*** *
21964263 CC-TTTTCGGTAAACTAAGGCAAAGC
1 CCTTTTTTAATAAACTAGGGCAAAGC
21964288 CCTTTT
1 CCTTTT
21964294 GCACTTCCTC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
24 7 0.14
25 39 0.80
26 3 0.06
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (26 bp):
CCTTTTTTAATAAACTAGGGCAAAGC
Found at i:21964243 original size:24 final size:24
Alignment explanation
Indices: 21964197--21964268 Score: 81
Period size: 25 Copynumber: 2.9 Consensus size: 24
21964187 ACTTTATCAT
** *
21964197 ATAACTGGAGGCCTAGCCTTTTTTA
1 ATAACTGG-GGCAAAGCCCTTTTTA
*
21964222 ATAACTGGGGCAAAGCCCTTTTTG
1 ATAACTGGGGCAAAGCCCTTTTTA
*
21964246 ATAAACTAGGGCAAAGCCCTTTT
1 AT-AACTGGGGCAAAGCCCTTTT
21964269 CGGTAAACTA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
24 14 0.34
25 27 0.66
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (24 bp):
ATAACTGGGGCAAAGCCCTTTTTA
Found at i:21967558 original size:26 final size:26
Alignment explanation
Indices: 21967529--21967583 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
21967519 TCTAGCACAT
* *
21967529 ATACTGATACTAGCAGCTTTGCTGCA
1 ATACTGATACCAGCAGCCTTGCTGCA
* *
21967555 ATACTGTTACCGGCAGCCTTGCTGCA
1 ATACTGATACCAGCAGCCTTGCTGCA
21967581 ATA
1 ATA
21967584 TTGGTGTGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.29
Consensus pattern (26 bp):
ATACTGATACCAGCAGCCTTGCTGCA
Found at i:21969759 original size:50 final size:50
Alignment explanation
Indices: 21969697--21969885 Score: 236
Period size: 50 Copynumber: 3.8 Consensus size: 50
21969687 TTAGGTCACG
* *
21969697 TGTGTAATACTAAGTGCAGGCTACTACGTGTACCAAATAGTTAGATTGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAGTTAGGTTGCA
* * * ** *
21969747 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAGTTAGGTTGCA
* * *
21969797 TGTGTAGTACTGAGTGCAGGCTACTACGTGTACCGAATTGTT-GGTTGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAGTTAGGTTGCA
* * * *
21969846 TGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGATAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAG
21969886 CTTCGGTTAC
Statistics
Matches: 116, Mismatches: 23, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
49 37 0.32
50 79 0.68
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAGTTAGGTTGCA
Found at i:21969821 original size:100 final size:100
Alignment explanation
Indices: 21969646--21969871 Score: 312
Period size: 100 Copynumber: 2.2 Consensus size: 100
21969636 GTGAGAACAC
* * *
21969646 GTGTAGTACTATGTGC-GAGCTACTATATGTTTAAGATGGTTTTAGGTCACGTGTGTAATACTAA
1 GTGTAGTACTAAGTGCAG-GCTACTACATGTATAAGATGG-TTTAGGTCACGTGTGTAATACTAA
21969710 GTGCAGGCTACTACGTGTACCAAATAGTTAGATTGCAT
64 GTGCAGGCTACTACGTGTACCAAATAGTT-GATTGCAT
* * * *
21969748 GTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGG-TTAGGTCACGTGTGTAGTACTGAGT
1 GTGTAGTACTAAGTGCAGGCTACTACATGTATAAGATGGTTTAGGTCACGTGTGTAATACTAAGT
* * *
21969812 GCAGGCTACTACGTGTACCGAATTGTTGGTTGCAT
66 GCAGGCTACTACGTGTACCAAATAGTTGATTGCAT
*
21969847 GTGTAGTACTAAGTGTAGGCTACTA
1 GTGTAGTACTAAGTGCAGGCTACTA
21969872 TGCGTACCAG
Statistics
Matches: 112, Mismatches: 11, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
99 31 0.28
100 48 0.43
102 32 0.29
103 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (100 bp):
GTGTAGTACTAAGTGCAGGCTACTACATGTATAAGATGGTTTAGGTCACGTGTGTAATACTAAGT
GCAGGCTACTACGTGTACCAAATAGTTGATTGCAT
Found at i:21973627 original size:21 final size:21
Alignment explanation
Indices: 21973603--21973648 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
21973593 AATTAACTAT
21973603 CGAAACGTTAAAATTTTTCAA
1 CGAAACGTTAAAATTTTTCAA
* *
21973624 CGAACCTTTAAAATTTTTCAA
1 CGAAACGTTAAAATTTTTCAA
21973645 CGAA
1 CGAA
21973649 CCTTTAATAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.33
Consensus pattern (21 bp):
CGAAACGTTAAAATTTTTCAA
Found at i:21973649 original size:21 final size:21
Alignment explanation
Indices: 21973610--21973655 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
21973600 TATCGAAACG
21973610 TTAAAATTTTTCAACGAACCT
1 TTAAAATTTTTCAACGAACCT
21973631 TTAAAATTTTTCAACGAACCT
1 TTAAAATTTTTCAACGAACCT
21973652 TTAA
1 TTAA
21973656 TACCATCTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.39, C:0.17, G:0.04, T:0.39
Consensus pattern (21 bp):
TTAAAATTTTTCAACGAACCT
Found at i:21975023 original size:42 final size:42
Alignment explanation
Indices: 21974976--21975120 Score: 125
Period size: 42 Copynumber: 3.4 Consensus size: 42
21974966 TACCACACCA
* * *
21974976 ATGCCATATCCCAGATACGGTCTTATAT-AGGATCT-AGTTTCG
1 ATGCCATATCCCAGATATGGTCTTATATGA-AATCTCA-TATCG
* * * * *
21975018 ATGCCAATAGCCTAGCTATAGTCTTACATGAAATCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTATATGAAATCTCATATCG
**
21975061 ATGCCATATCCCAGATATGGTCTTATACAAAATCTCATAAT-G
1 ATGCCATATCCCAGATATGGTCTTATATGAAATCTCAT-ATCG
* *
21975103 ATGTCATATCCTAGATAT
1 ATGCCATATCCCAGATAT
21975121 TGTCATACAG
Statistics
Matches: 82, Mismatches: 17, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
42 48 0.59
43 32 0.39
44 2 0.02
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTATATGAAATCTCATATCG
Found at i:21983974 original size:42 final size:42
Alignment explanation
Indices: 21983880--21983975 Score: 131
Period size: 42 Copynumber: 2.3 Consensus size: 42
21983870 ATAGCCCAAC
* *
21983880 TATGGTCTTAAATGAAGTCTCATATCGATACCATATCCCAGA
1 TATGGTCTTACATGAAATCTCATATCGATACCATATCCCAGA
**
21983922 TATGGTCTTACATGAAATCTCATAAT-GATGTCATATCCCAGA
1 TATGGTCTTACATGAAATCTCAT-ATCGATACCATATCCCAGA
*
21983964 TATGATCTTACA
1 TATGGTCTTACA
21983976 CATAGTCTTG
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
42 46 0.96
43 2 0.04
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.33
Consensus pattern (42 bp):
TATGGTCTTACATGAAATCTCATATCGATACCATATCCCAGA
Found at i:21985312 original size:18 final size:18
Alignment explanation
Indices: 21985289--21985323 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
21985279 TTATCAGTAC
21985289 CATTAGAGAA-TTCTTTAT
1 CATTAGA-AATTTCTTTAT
21985307 CATTAGAAATTTCTTTA
1 CATTAGAAATTTCTTTA
21985324 CCAACGGTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 14 0.88
ACGTcount: A:0.34, C:0.11, G:0.09, T:0.46
Consensus pattern (18 bp):
CATTAGAAATTTCTTTAT
Found at i:21986729 original size:3 final size:3
Alignment explanation
Indices: 21986721--21986773 Score: 99
Period size: 3 Copynumber: 18.0 Consensus size: 3
21986711 CGGTTGGCTT
21986721 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
21986768 TTA TTA
1 TTA TTA
21986774 AAAAAAAAGA
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 47 0.96
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:21987826 original size:37 final size:35
Alignment explanation
Indices: 21987747--21987836 Score: 108
Period size: 37 Copynumber: 2.5 Consensus size: 35
21987737 CACATGTGCA
*
21987747 GGGAAATCCCACTAAGTTTTTTTTTTATTTCTCTT
1 GGGAAATCCCACCAAGTTTTTTTTTTATTTCTCTT
* * * *
21987782 TGAAAATCTCACCAAGGTTTTTTTATTTGTTTCTCTT
1 GGGAAATCCCACCAA-GTTTTTTT-TTTATTTCTCTT
*
21987819 GGGAAATCCCACTAAGTT
1 GGGAAATCCCACCAAGTT
21987837 GGACAAGAGC
Statistics
Matches: 44, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
35 11 0.25
36 11 0.25
37 22 0.50
ACGTcount: A:0.23, C:0.18, G:0.13, T:0.46
Consensus pattern (35 bp):
GGGAAATCCCACCAAGTTTTTTTTTTATTTCTCTT
Found at i:21991773 original size:23 final size:21
Alignment explanation
Indices: 21991721--21991774 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 21
21991711 ACACTTTTTA
* *
21991721 TAAAATCCTGAAACTAAGTTT
1 TAAAATCCTAAAACTAAATTT
*
21991742 T-AGATCCTAAAACTGAAAATTT
1 TAAAATCCTAAAACT--AAATTT
21991764 TAAAATCCTAA
1 TAAAATCCTAA
21991775 CCTTTTCTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 11 0.42
21 1 0.04
22 6 0.23
23 8 0.31
ACGTcount: A:0.46, C:0.15, G:0.07, T:0.31
Consensus pattern (21 bp):
TAAAATCCTAAAACTAAATTT
Found at i:21996322 original size:66 final size:66
Alignment explanation
Indices: 21996247--21996382 Score: 254
Period size: 66 Copynumber: 2.1 Consensus size: 66
21996237 TAAAAGACAC
* *
21996247 TTTTATTATATTGTCATTTAGATGGAATTTAGTTTTTGTTTCTTTATGGACAAATTTGGATATTA
1 TTTTATTATACTATCATTTAGATGGAATTTAGTTTTTGTTTCTTTATGGACAAATTTGGATATTA
21996312 T
66 T
21996313 TTTTATTATACTATCATTTAGATGGAATTTAGTTTTTGTTTCTTTATGGACAAATTTGGATATTA
1 TTTTATTATACTATCATTTAGATGGAATTTAGTTTTTGTTTCTTTATGGACAAATTTGGATATTA
21996378 T
66 T
21996379 TTTT
1 TTTT
21996383 CATTCGGAAA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 68 1.00
ACGTcount: A:0.26, C:0.05, G:0.14, T:0.55
Consensus pattern (66 bp):
TTTTATTATACTATCATTTAGATGGAATTTAGTTTTTGTTTCTTTATGGACAAATTTGGATATTA
T
Found at i:22000943 original size:24 final size:24
Alignment explanation
Indices: 22000916--22000961 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
22000906 CTAATTTTAA
*
22000916 ATTAGAACTTAAACACTAAAAAAT
1 ATTAGAACTCAAACACTAAAAAAT
* *
22000940 ATTAGGACTCAAACATTAAAAA
1 ATTAGAACTCAAACACTAAAAA
22000962 GTGATTCATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.57, C:0.13, G:0.07, T:0.24
Consensus pattern (24 bp):
ATTAGAACTCAAACACTAAAAAAT
Found at i:22005090 original size:27 final size:26
Alignment explanation
Indices: 22005014--22005095 Score: 101
Period size: 27 Copynumber: 3.1 Consensus size: 26
22005004 GCGAACTCTA
*
22005014 AAAGGAATGCCTTTGTGGCATAATTGT
1 AAAGGAATGCCTTTGTGGCAT-ATTAT
22005041 AAAGGAATGCCTTTGTGGCATATTAT
1 AAAGGAATGCCTTTGTGGCATATTAT
* * * *
22005067 GAATGAACTGCCTTCGTGGCATATCAT
1 AAAGGAA-TGCCTTTGTGGCATATTAT
22005094 AA
1 AA
22005096 CAATACCCTT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.19
27 39 0.81
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (26 bp):
AAAGGAATGCCTTTGTGGCATATTAT
Found at i:22010042 original size:21 final size:22
Alignment explanation
Indices: 22010003--22010046 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
22009993 ATAAATTTTG
* *
22010003 ATTTTTAATAATTTAAATAAAT
1 ATTTTTAAAAAATTAAATAAAT
22010025 ATTTTTAAAAAATT-AATAAAT
1 ATTTTTAAAAAATTAAATAAAT
22010046 A
1 A
22010047 AAATTATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATTTTTAAAAAATTAAATAAAT
Found at i:22016142 original size:33 final size:32
Alignment explanation
Indices: 22016104--22016217 Score: 131
Period size: 33 Copynumber: 3.5 Consensus size: 32
22016094 GGTGTACATT
**
22016104 CCTTTTCAAGTGATACACACAAAGTATACCTTT
1 CCTTTTCAAGTG-TACACACAAAGTATACCTAA
*
22016137 CCTTTTCATA-TGGTATACACAAAGTATACCTAA
1 CCTTTTCA-AGT-GTACACACAAAGTATACCTAA
* * *
22016170 CCTTTCCAAGTGTACACACAAAGTGTACATAA
1 CCTTTTCAAGTGTACACACAAAGTATACCTAA
22016202 CCTTTTCAAGTTGTAC
1 CCTTTTCAAG-TGTAC
22016218 CACTTGGGTA
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
32 28 0.41
33 39 0.57
34 2 0.03
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (32 bp):
CCTTTTCAAGTGTACACACAAAGTATACCTAA
Found at i:22021332 original size:18 final size:17
Alignment explanation
Indices: 22021305--22021365 Score: 63
Period size: 17 Copynumber: 3.6 Consensus size: 17
22021295 TTCAGGAAAT
*
22021305 TTTATGATTTTTTATTA
1 TTTATAATTTTTTATTA
*
22021322 TTTCATAATTTTTTAATA
1 TTT-ATAATTTTTTATTA
*
22021340 TGTT-TAAATTTTTATT-
1 T-TTATAATTTTTTATTA
22021356 TTTATAATTT
1 TTTATAATTT
22021366 GTATGAATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
15 2 0.06
16 6 0.17
17 13 0.36
18 13 0.36
19 2 0.06
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.67
Consensus pattern (17 bp):
TTTATAATTTTTTATTA
Found at i:22021374 original size:25 final size:24
Alignment explanation
Indices: 22021329--22021376 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
22021319 TTATTTCATA
*
22021329 ATTTTTTAATATGTTTAAATTTTT
1 ATTTTTTAATATGTATAAATTTTT
* *
22021353 ATTTTTATAATTTGTATGAATTTT
1 ATTTTT-TAATATGTATAAATTTT
22021377 CAGATTTTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (24 bp):
ATTTTTTAATATGTATAAATTTTT
Found at i:22039632 original size:31 final size:31
Alignment explanation
Indices: 22039596--22039657 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
22039586 TAATCAACAT
22039596 GCATCTTCTACCATATCAAATAAACCTCAAA
1 GCATCTTCTACCATATCAAATAAACCTCAAA
22039627 GCATCTTCTACCATATCAAATAAACCTCAAA
1 GCATCTTCTACCATATCAAATAAACCTCAAA
22039658 ACGTCCATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.29, G:0.03, T:0.26
Consensus pattern (31 bp):
GCATCTTCTACCATATCAAATAAACCTCAAA
Found at i:22040150 original size:39 final size:39
Alignment explanation
Indices: 22040106--22040209 Score: 154
Period size: 39 Copynumber: 2.7 Consensus size: 39
22040096 CATATTCACT
* *
22040106 TTTAAGCATATATCATAATACTCATATAATCACATAATA
1 TTTAAGCATATATCATAATACTCAAATAATCACATAACA
*
22040145 TTTAAGCATATATCATAATTCTCAAATAATCACATAACA
1 TTTAAGCATATATCATAATACTCAAATAATCACATAACA
* * *
22040184 TTCAAGCATATATCACAATCCTCAAA
1 TTTAAGCATATATCATAATACTCAAA
22040210 AACAAGTTTA
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 59 1.00
ACGTcount: A:0.45, C:0.19, G:0.03, T:0.33
Consensus pattern (39 bp):
TTTAAGCATATATCATAATACTCAAATAATCACATAACA
Found at i:22042134 original size:39 final size:39
Alignment explanation
Indices: 22042094--22042278 Score: 208
Period size: 39 Copynumber: 4.7 Consensus size: 39
22042084 TTTTACTTTT
* * * * *
22042094 AAGCATATATTACATTACACATTTAATCACATAACATTT
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
** *
22042133 AAGCATATATCACAGCACTCACATAATCACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* * *
22042172 AAGTATATATCACAATACTTATATAATCACATAAAATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* * * * *
22042211 AAGCATGTATCACAATATTCATATAACCATAGAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* *
22042250 TAGCATATATCACAATACTCAAATAATCA
1 AAGCATATATCACAATACTCATATAATCA
22042279 TGTAACACCC
Statistics
Matches: 120, Mismatches: 26, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 120 1.00
ACGTcount: A:0.45, C:0.21, G:0.04, T:0.30
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATATAATCACATAACATTC
Found at i:22044064 original size:24 final size:25
Alignment explanation
Indices: 22044043--22044090 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
22044033 GGATGCTCTG
* *
22044043 AAGAGCTAT-TAACGTGAAGCTCGC
1 AAGAACTATGTAACGGGAAGCTCGC
22044067 AAGAACTATGTAACGGGAAGCTCG
1 AAGAACTATGTAACGGGAAGCTCG
22044091 AGAGGGCTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.35, C:0.19, G:0.27, T:0.19
Consensus pattern (25 bp):
AAGAACTATGTAACGGGAAGCTCGC
Found at i:22048136 original size:48 final size:47
Alignment explanation
Indices: 22048067--22048235 Score: 189
Period size: 48 Copynumber: 3.6 Consensus size: 47
22048057 TGATATGTGT
* * *
22048067 GCTAGTGTAAGGCATGACTGGGACATGCATAGGCCTCGAGATATACCA
1 GCTAGTGTAAGACATGTCTGGGACATGCAT-GGCCTCGAGATATACAA
* * * * ** *
22048115 GCCAGTGGAAGACATGTCTGGGACATGCATCGCCTTTGAGA-CGA-GA
1 GCTAGTGTAAGACATGTCTGGGACATGCATGGCC-TCGAGATATACAA
*
22048161 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCTTCGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCA-TGGCCTCGAGATATACAA
*
22048209 GCTAGTGTAAGACCTGTCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
22048236 ACGTCAGCTT
Statistics
Matches: 99, Mismatches: 18, Indels: 8
0.79 0.14 0.06
Matches are distributed among these distances:
46 33 0.33
47 8 0.08
48 58 0.59
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATGGCCTCGAGATATACAA
Found at i:22050909 original size:23 final size:23
Alignment explanation
Indices: 22050882--22050927 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
22050872 TAAAACAAGG
* *
22050882 GAAAAATTAACAAAGTAAGCTAT
1 GAAAAATAAACAAAGTAACCTAT
22050905 GAAAAATAAACAAAGTAACCTAT
1 GAAAAATAAACAAAGTAACCTAT
22050928 AAAGCTTAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.59, C:0.11, G:0.11, T:0.20
Consensus pattern (23 bp):
GAAAAATAAACAAAGTAACCTAT
Found at i:22055267 original size:40 final size:39
Alignment explanation
Indices: 22055077--22055260 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 39
22055067 CGAATGATGT
* * * *
22055077 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
22055116 TCGGGACTAAGAT-CCAAAGGCATTTGTGCGAGTTACTAATT
1 CCGGG-CTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
*
22055157 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
22055195 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
22055236 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
22055261 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 15, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
39 37 0.30
40 71 0.58
41 14 0.11
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:22055282 original size:79 final size:79
Alignment explanation
Indices: 22055132--22055293 Score: 204
Period size: 79 Copynumber: 2.1 Consensus size: 79
22055122 CTAAGATCCA
* **
22055132 AAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATC
1 AAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAATC
*
22055197 CGGGTTAAGTCCCG
66 CGGGTTAAATCCCG
* * *
22055211 AAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTAT
1 AAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAA
*
22055274 ATCC-GGTTAAATTCCG
63 ATCCGGGTTAAATCCCG
22055290 AAGG
1 AAGG
22055294 TACGTGATTC
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.64
80 24 0.33
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (79 bp):
AAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAATC
CGGGTTAAATCCCG
Found at i:22059246 original size:17 final size:17
Alignment explanation
Indices: 22059221--22059254 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
22059211 GATAAAAATG
* *
22059221 TATTTCATATGTTTTGA
1 TATTGCATATATTTTGA
22059238 TATTGCATATATTTTGA
1 TATTGCATATATTTTGA
22059255 ATACGAGACT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.06, G:0.12, T:0.56
Consensus pattern (17 bp):
TATTGCATATATTTTGA
Found at i:22070487 original size:30 final size:31
Alignment explanation
Indices: 22070411--22070493 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
22070401 TCAGTCTTGA
* *
22070411 CATAT-ACTGGGCCAAAGCCTTTTCATAAAT
1 CATATCACTAGGCCGAAGCCTTTTCATAAAT
22070441 CATATCACTAGGCCGAAGCCTTTTCATAAAT
1 CATATCACTAGGCCGAAGCCTTTTCATAAAT
22070472 CATATCACT-GGCCGAAGCCTTT
1 CATATCACTAGGCCGAAGCCTTT
22070494 ACTGTAAGCG
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
30 18 0.36
31 32 0.64
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (31 bp):
CATATCACTAGGCCGAAGCCTTTTCATAAAT
Found at i:22071017 original size:27 final size:27
Alignment explanation
Indices: 22070987--22071203 Score: 317
Period size: 27 Copynumber: 8.0 Consensus size: 27
22070977 CAAGGGTGTC
* *
22070987 TCGGTAATTCTATCCTATAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
* * *
22071014 TCGGTATTTTTACCCTACAAGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
* *
22071041 TCGGTAATTTTACCCTACATGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
*
22071068 TCAGTAATTCTACCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
* * *
22071095 TCGATAATTCTACCCTATAGGGTTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
*
22071122 TCAGTAATTCTACCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
*
22071149 TCGGTAATTCTACCCTACAGGGGTAGT
1 TCGGTAATTCTACCCTACAGGGGTATT
22071176 TCGGTAATTCTACCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
22071203 T
1 T
22071204 TGATATTTTA
Statistics
Matches: 169, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 169 1.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.37
Consensus pattern (27 bp):
TCGGTAATTCTACCCTACAGGGGTATT
Found at i:22071295 original size:27 final size:27
Alignment explanation
Indices: 22071193--22071295 Score: 111
Period size: 27 Copynumber: 3.9 Consensus size: 27
22071183 TTCTACCCTA
22071193 CAGGGGTATTTTGAT-ATTTTACAAAT
1 CAGGGGTATTTTGATAATTTTACAAAT
* * *
22071219 C-GAGAGTATTTCGATAATTTCACAAAT
1 CAG-GGGTATTTTGATAATTTTACAAAT
* * **
22071246 CAGGGGTATTTTGGTAATCTTACAAGC
1 CAGGGGTATTTTGATAATTTTACAAAT
*
22071273 CAGGGGTATTTTGGTAATTTTAC
1 CAGGGGTATTTTGATAATTTTAC
22071296 TGATTGAGGG
Statistics
Matches: 63, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
25 1 0.02
26 11 0.17
27 50 0.79
28 1 0.02
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (27 bp):
CAGGGGTATTTTGATAATTTTACAAAT
Found at i:22071332 original size:27 final size:27
Alignment explanation
Indices: 22071249--22071336 Score: 79
Period size: 27 Copynumber: 3.3 Consensus size: 27
22071239 CACAAATCAG
* * * * *
22071249 GGGTATTTTGGTAATCTTACAAGCCAG
1 GGGTATTTTGGTAATTTTATAAACTAA
* * *
22071276 GGGTATTTTGGTAATTTTACT-GATTGA
1 GGGTATTTTGGTAATTTTA-TAAACTAA
*
22071303 GGGTATTTTGGTAATTTTTTAAACTAA
1 GGGTATTTTGGTAATTTTATAAACTAA
22071330 GGGTATT
1 GGGTATT
22071337 GTAATAATTT
Statistics
Matches: 47, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
26 1 0.02
27 46 0.98
ACGTcount: A:0.25, C:0.07, G:0.25, T:0.43
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACTAA
Found at i:22071369 original size:54 final size:54
Alignment explanation
Indices: 22071311--22071541 Score: 205
Period size: 54 Copynumber: 4.3 Consensus size: 54
22071301 GAGGGTATTT
* * *** * *
22071311 TGGTAATTTTTTAAACTAAGGGTATTGTAATAATTTTGTAAATTGAGGGTAAAA
1 TGGTAATTCTATAAACTAAGGGTAAAATAATAATTTTATAAATCGAGGGTAAAA
* * *
22071365 TGGTAATTCTATAAATTGAGGGTAAAATGATAATTTTATAAATCGAGGGTAAAA
1 TGGTAATTCTATAAACTAAGGGTAAAATAATAATTTTATAAATCGAGGGTAAAA
* *** *
22071419 TGGTAATTCTATAAA-TCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAA
1 TGGTAATTCTATAAACT-AAGGGTAAAATAATAATTTTATAAATCGAGGGTAAAA
* * * * * * *
22071473 CGGTAATTCTATAAA-TCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAA
1 TGGTAATTCTATAAACT-AAGGGTAAAATAATAATTTTATAAATCGAGGGTAAAA
***
22071527 CAATAATTCTATAAA
1 TGGTAATTCTATAAA
22071542 TCGATGGTAC
Statistics
Matches: 157, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
53 1 0.01
54 156 0.99
ACGTcount: A:0.41, C:0.06, G:0.20, T:0.32
Consensus pattern (54 bp):
TGGTAATTCTATAAACTAAGGGTAAAATAATAATTTTATAAATCGAGGGTAAAA
Found at i:22071371 original size:27 final size:27
Alignment explanation
Indices: 22071349--22071550 Score: 269
Period size: 27 Copynumber: 7.5 Consensus size: 27
22071339 AATAATTTTG
* *
22071349 TAAATTGAGGGTAAAATGGTAATTCTA
1 TAAATCGAGGGTAAAACGGTAATTCTA
* * * *
22071376 TAAATTGAGGGTAAAATGATAATTTTA
1 TAAATCGAGGGTAAAACGGTAATTCTA
*
22071403 TAAATCGAGGGTAAAATGGTAATTCTA
1 TAAATCGAGGGTAAAACGGTAATTCTA
* *
22071430 TAAATCGAGGGTAAAACGGTAATTTTG
1 TAAATCGAGGGTAAAACGGTAATTCTA
22071457 TAAATCGAGGGTAAAACGGTAATTCTA
1 TAAATCGAGGGTAAAACGGTAATTCTA
* *
22071484 TAAATCGAGGGTAAAACAGTAATTCTG
1 TAAATCGAGGGTAAAACGGTAATTCTA
* **
22071511 TAAATCAAGGGTAAAACAATAATTCTA
1 TAAATCGAGGGTAAAACGGTAATTCTA
*
22071538 TAAATCGATGGTA
1 TAAATCGAGGGTA
22071551 CTTTGGTAAT
Statistics
Matches: 158, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 158 1.00
ACGTcount: A:0.42, C:0.07, G:0.21, T:0.30
Consensus pattern (27 bp):
TAAATCGAGGGTAAAACGGTAATTCTA
Found at i:22071542 original size:54 final size:54
Alignment explanation
Indices: 22071341--22071550 Score: 296
Period size: 54 Copynumber: 3.9 Consensus size: 54
22071331 GGTATTGTAA
* * * *
22071341 TAATTTTGTAAATTGAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAA-TG
1 TAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAG
* * *
22071394 ATAATTTTATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGG
1 -TAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAG
22071449 TAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAG
1 TAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAG
* * ** *
22071503 TAATTCTGTAAATCAAGGGTAAAACAATAATTCTATAAATCGATGGTA
1 TAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTA
22071551 CTTTGGTAAT
Statistics
Matches: 143, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
54 142 0.99
55 1 0.01
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.31
Consensus pattern (54 bp):
TAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAG
Found at i:22071559 original size:81 final size:81
Alignment explanation
Indices: 22071341--22071575 Score: 281
Period size: 81 Copynumber: 2.9 Consensus size: 81
22071331 GGTATTGTAA
* * * * *
22071341 TAATTTTGTAAATTGAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAATGATAATTTTATAA
1 TAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTATAA
**
22071406 ATCGAGGGTAAAATGG
66 ATCGAGGGTAAAACAG
* * * * *
22071422 TAATTCTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAA
1 TAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTATAA
22071487 ATCGAGGGTAAAACAG
66 ATCGAGGGTAAAACAG
* ** * *** *
22071503 TAATTCTGTAAATCAAGGGTAAAACAATAATTCTATAAATCGATGGTACTTTGGTAATTTTACAA
1 TAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTATAA
*
22071568 GTCGAGGG
66 ATCGAGGG
22071576 CATTTCTGTA
Statistics
Matches: 128, Mismatches: 26, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
81 128 1.00
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.31
Consensus pattern (81 bp):
TAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTATAA
ATCGAGGGTAAAACAG
Found at i:22073042 original size:13 final size:14
Alignment explanation
Indices: 22073024--22073052 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
22073014 TCGAAAAAGA
22073024 AAAAAAATAA-AAT
1 AAAAAAATAACAAT
22073037 AAAAAAATAACAAT
1 AAAAAAATAACAAT
22073051 AA
1 AA
22073053 TTTTCTGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.14
Consensus pattern (14 bp):
AAAAAAATAACAAT
Found at i:22073945 original size:30 final size:31
Alignment explanation
Indices: 22073869--22073951 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
22073859 TCAGTCTCGA
22073869 CATAT-ACTCGGCCGAAGCCTTTTCATAAAT
1 CATATCACTCGGCCGAAGCCTTTTCATAAAT
*
22073899 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTCGGCCGAAGCCTTTTCATAAAT
22073930 CATATCACT-GGCCGAAGCCTTT
1 CATATCACTCGGCCGAAGCCTTT
22073952 ACTGTAAACG
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
30 18 0.35
31 33 0.65
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.29
Consensus pattern (31 bp):
CATATCACTCGGCCGAAGCCTTTTCATAAAT
Found at i:22074711 original size:16 final size:15
Alignment explanation
Indices: 22074690--22074721 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
22074680 CACAAATGCC
22074690 GGCTTTTCGGCGTTTT
1 GGCTTTTCGGC-TTTT
22074706 GGCTTTTCGGCTTTT
1 GGCTTTTCGGCTTTT
22074721 G
1 G
22074722 CCGATCTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.00, C:0.19, G:0.31, T:0.50
Consensus pattern (15 bp):
GGCTTTTCGGCTTTT
Found at i:22076922 original size:44 final size:43
Alignment explanation
Indices: 22076842--22076924 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
22076832 GATCTAAGAT
** * *
22076842 GATTTGGCATCTCTGTATTGTCAGAGAGTAAATCGAAGAAACA
1 GATTTGGCATCTCCATATTGACAGAGAGCAAATCGAAGAAACA
*
22076885 GATTTGGCATCTCCATATTCGACAGAGAGCAGATCGAAGA
1 GATTTGGCATCTCCATATT-GACAGAGAGCAAATCGAAGA
22076925 CATAGCAGAT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
43 17 0.50
44 17 0.50
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (43 bp):
GATTTGGCATCTCCATATTGACAGAGAGCAAATCGAAGAAACA
Found at i:22077021 original size:220 final size:220
Alignment explanation
Indices: 22076573--22077143 Score: 803
Period size: 220 Copynumber: 2.6 Consensus size: 220
22076563 CAAGCTAAAG
* * * * * *
22076573 CATAGCAGATCTGACCTTCAGGTGTTTACGCTGAAGC-AGATCCAAGATGATTTGGCATCTCTGT
1 CATAGCAGATTTGGCTTTCACGTGTTTACACTGAAGCAAGATCTAAGATGATTTGGCATCTCTGT
* * * *
22076637 ATTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCGTATTCGACGGAGAGCAGATCAAA
66 ATTGTCAGAGAGCAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACAGAGAGCAGATCGAA
* *
22076702 GACATAGCAGATCTAACCTTCGGATGTTTTCATATCGAAGTAGATCCAAGATGATTTGGCATCCT
131 GACATAGCAGATCTAACCTTCGGATGTTTTCA-ATCAAAGCAGATCCAAGATGATTTGGCATCCT
* *
22076767 TGTGTTTACAAGGAGCAGATAGAAGA
195 TGCGCTTACAAGGAGCAGATAGAAGA
*
22076793 CATAGCAGATTTGGCTTTCACGTGTTTACAATGAAGCAAGATCTAAGATGATTTGGCATCTCTGT
1 CATAGCAGATTTGGCTTTCACGTGTTTACACTGAAGCAAGATCTAAGATGATTTGGCATCTCTGT
*
22076858 ATTGTCAGAGAGTAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACAGAGAGCAGATCGAA
66 ATTGTCAGAGAGCAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACAGAGAGCAGATCGAA
*
22076923 GACATAGCAGATCTAACCTTCGGATGTTTTGC-ATCAAAGCAGATCCAAGATGATTTGGCATCTT
131 GACATAGCAGATCTAACCTTCGGATGTTTT-CAATCAAAGCAGATCCAAGATGATTTGGCATCCT
*
22076987 TGCGCTTACAAGGAGCAGATCGAAGA
195 TGCGCTTACAAGGAGCAGATAGAAGA
* * *
22077013 CGTAGCAGATTTGGCTTTCACGTGTTTACACTGAA--ATAGATCTAAGATGATTTGACATCTCTA
1 CATAGCAGATTTGGCTTTCACGTGTTTACACTGAAGCA-AGATCTAAGATGATTTGGCATCTCTG
* * * ** * *
22077076 TATTGTCAAAGAGCAGATCGAAGATAGCAGATTTGGTGTCTCTGA-ATT-GTCAGAGAGCAGATC
65 TATTGTCAGAGAGCAAATCGAAGA-AACAGATTTGGCATCTC-CATATTCGACAGAGAGCAGATC
22077139 GAAGA
128 GAAGA
22077144 TAACAGATTT
Statistics
Matches: 316, Mismatches: 30, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
218 1 0.00
219 64 0.20
220 133 0.42
221 117 0.37
222 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (220 bp):
CATAGCAGATTTGGCTTTCACGTGTTTACACTGAAGCAAGATCTAAGATGATTTGGCATCTCTGT
ATTGTCAGAGAGCAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACAGAGAGCAGATCGAA
GACATAGCAGATCTAACCTTCGGATGTTTTCAATCAAAGCAGATCCAAGATGATTTGGCATCCTT
GCGCTTACAAGGAGCAGATAGAAGA
Found at i:22077386 original size:15 final size:16
Alignment explanation
Indices: 22077366--22077397 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
22077356 CGGGCCCATG
22077366 AATAAATAA-AAAATA
1 AATAAATAATAAAATA
22077381 AATAAATAATAAAATA
1 AATAAATAATAAAATA
22077397 A
1 A
22077398 CAGTTTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (16 bp):
AATAAATAATAAAATA
Found at i:22078370 original size:22 final size:22
Alignment explanation
Indices: 22078342--22078385 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
22078332 GATCCTCCTG
22078342 CATTTTAGTTTTT-TTTTAAATT
1 CATTTTA-TTTTTATTTTAAATT
*
22078364 CATTTTATTTTTATTTTGAATT
1 CATTTTATTTTTATTTTAAATT
22078386 GGCCCTAACC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.68
Consensus pattern (22 bp):
CATTTTATTTTTATTTTAAATT
Found at i:22078696 original size:12 final size:12
Alignment explanation
Indices: 22078654--22078698 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
22078644 TAAAATAGTA
22078654 TATATTATT-TT
1 TATATTATTATT
22078665 TATA-TATTATT
1 TATATTATTATT
*
22078676 CAT-TATATTATT
1 TATAT-TATTATT
22078688 TATATTATTAT
1 TATATTATTAT
22078699 ACATTTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
10 4 0.14
11 8 0.29
12 15 0.54
13 1 0.04
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (12 bp):
TATATTATTATT
Found at i:22078735 original size:18 final size:18
Alignment explanation
Indices: 22078708--22078751 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
22078698 TACATTTTAT
* *
22078708 TTATAAATTTAGAATATA
1 TTATATATTTACAATATA
*
22078726 TTATATATTTACTATATA
1 TTATATATTTACAATATA
22078744 -TATATATT
1 TTATATATT
22078752 ATTCCTTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (18 bp):
TTATATATTTACAATATA
Found at i:22078907 original size:17 final size:16
Alignment explanation
Indices: 22078887--22078941 Score: 67
Period size: 17 Copynumber: 3.4 Consensus size: 16
22078877 TATATTTCAT
22078887 TATATTTTATTTATATA
1 TATATTTTA-TTATATA
*
22078904 TATATTTTATTACATA
1 TATATTTTATTATATA
*
22078920 TCATATATTATTATATA
1 T-ATATTTTATTATATA
22078937 T-TATT
1 TATATT
22078942 CCCTATATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
15 3 0.09
16 7 0.21
17 23 0.70
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (16 bp):
TATATTTTATTATATA
Found at i:22083228 original size:42 final size:44
Alignment explanation
Indices: 22083135--22083230 Score: 128
Period size: 42 Copynumber: 2.2 Consensus size: 44
22083125 CATTTCAAAC
* *
22083135 GTGGTCTTACATGTAATCAAATATAGATGTCACTATCCCAGATA
1 GTGGTCTTACATGAAATCAAATATAGATGCCACTATCCCAGATA
*
22083179 G-GGTCTTACATGAAATCAAATA-CGATGCCAAC-ATCCCAGAT-
1 GTGGTCTTACATGAAATCAAATATAGATGCC-ACTATCCCAGATA
22083220 GTGGTCTTACA
1 GTGGTCTTACA
22083231 CAAAATCACA
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
41 1 0.02
42 23 0.49
43 22 0.47
44 1 0.02
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (44 bp):
GTGGTCTTACATGAAATCAAATATAGATGCCACTATCCCAGATA
Found at i:22084706 original size:16 final size:16
Alignment explanation
Indices: 22084685--22084716 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22084675 ACCCAATAAC
*
22084685 CTAAACTACCAGCCCA
1 CTAAACTAACAGCCCA
22084701 CTAAACTAACAGCCCA
1 CTAAACTAACAGCCCA
22084717 TTACACAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.41, G:0.06, T:0.12
Consensus pattern (16 bp):
CTAAACTAACAGCCCA
Found at i:22086189 original size:14 final size:15
Alignment explanation
Indices: 22086166--22086206 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
22086156 TTAATACTAC
22086166 GTTATGTATATATAT
1 GTTATGTATATATAT
*
22086181 -TTATATATAT-TAT
1 GTTATGTATATATAT
22086194 GTTATGTATATAT
1 GTTATGTATATAT
22086207 TTTGAACACC
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 3 0.14
14 18 0.82
15 1 0.05
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (15 bp):
GTTATGTATATATAT
Found at i:22098908 original size:70 final size:71
Alignment explanation
Indices: 22098704--22098982 Score: 292
Period size: 70 Copynumber: 3.9 Consensus size: 71
22098694 TTTGGGTACT
* ** *
22098704 CTGAGGTATTTTTAGTTTATGTTTCAAAAAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTC
1 CTGAGGTATTTTTAATTTATGTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTC
*
22098769 AGGTCACG
64 AGGACACG
* * * *
22098777 GTGAGGTATTTTTAATTCCTGTTGTTTCAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCT
1 CTGAGGTATTTTTAATT--T-ATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCT
*
22098842 CAAGACACG
63 CAGGACACG
* * * * * *
22098851 TTGAGGTAATTTCAATTTATG-TTCCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
1 CTGAGGTATTTTTAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAG
*
22098915 GGCACG
66 GACACG
* ** * *
22098921 CTGAGGTATTTTTAGTTTATGTTT-AGAAAATTGACTCATCTTGCGAAAGGTGAGTTAAGCCT
1 CTGAGGTATTTTTAATTTATGTTTCA-AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCT
22098983 TTTAATTTCT
Statistics
Matches: 172, Mismatches: 29, Indels: 12
0.81 0.14 0.06
Matches are distributed among these distances:
70 61 0.35
71 35 0.20
72 1 0.01
73 15 0.09
74 53 0.31
75 1 0.01
76 6 0.03
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (71 bp):
CTGAGGTATTTTTAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAG
GACACG
Found at i:22099150 original size:88 final size:88
Alignment explanation
Indices: 22099001--22099168 Score: 234
Period size: 88 Copynumber: 1.9 Consensus size: 88
22098991 CTGTTTTTCA
* * * *
22099001 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATTT
1 AAAATCAACTCATATTGCAAGAGATGAGTTGAGCCTCGGCTCACATGCTGAGCTATTTTCAAATT
22099066 CTATT-TTCCAAATTCCGTTCGTC
66 CTATTATT-CAAATTCCGTTCGTC
*
22099089 AAAATCAACTCATATTGCAAGAGATGAGTTGAGCCTCGAG-TCACATG-TCGAGGTATTTTCAAA
1 AAAATCAACTCATATTGCAAGAGATGAGTTGAGCCTCG-GCTCACATGCT-GAGCTATTTTCAAA
*
22099152 TTCTGTTATTCAAATTC
64 TTCTATTATTCAAATTC
22099169 TGTTTTTTAA
Statistics
Matches: 71, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
87 1 0.01
88 67 0.94
89 3 0.04
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.34
Consensus pattern (88 bp):
AAAATCAACTCATATTGCAAGAGATGAGTTGAGCCTCGGCTCACATGCTGAGCTATTTTCAAATT
CTATTATTCAAATTCCGTTCGTC
Found at i:22099165 original size:14 final size:14
Alignment explanation
Indices: 22099146--22099172 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22099136 TCGAGGTATT
22099146 TTCAAATTCTGTTA
1 TTCAAATTCTGTTA
22099160 TTCAAATTCTGTT
1 TTCAAATTCTGTT
22099173 TTTTAATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.15, G:0.07, T:0.52
Consensus pattern (14 bp):
TTCAAATTCTGTTA
Found at i:22100174 original size:16 final size:16
Alignment explanation
Indices: 22100153--22100184 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22100143 GCCCAATAAC
*
22100153 CTAAACTACCAGCCCA
1 CTAAACTAACAGCCCA
22100169 CTAAACTAACAGCCCA
1 CTAAACTAACAGCCCA
22100185 TTACACAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.41, G:0.06, T:0.12
Consensus pattern (16 bp):
CTAAACTAACAGCCCA
Found at i:22101664 original size:14 final size:15
Alignment explanation
Indices: 22101629--22101672 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 15
22101619 TTTTTAATAC
22101629 TACGTTATGTATATA
1 TACGTTATGTATATA
* *
22101644 TA-TTTATATATAT-
1 TACGTTATGTATATA
22101657 TACGTTATGTATATA
1 TACGTTATGTATATA
22101672 T
1 T
22101673 TTTGAACACC
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
13 2 0.09
14 18 0.78
15 3 0.13
ACGTcount: A:0.34, C:0.05, G:0.09, T:0.52
Consensus pattern (15 bp):
TACGTTATGTATATA
Found at i:22102053 original size:35 final size:31
Alignment explanation
Indices: 22101988--22102081 Score: 89
Period size: 35 Copynumber: 2.8 Consensus size: 31
22101978 CTAGATTTTA
* *
22101988 TATTCTTATATGTATATTATTACATTTATTT
1 TATTCTTATATATATATTATTACATGTATTT
22102019 TATTCTTATCATATATATTATCAATACATGTATTT
1 TATTCTTAT-ATATATATTAT---TACATGTATTT
*
22102054 TATTATATGTATATATATATTATGTACA
1 TA-T-TCT-TATATATATATTAT-TACA
22102082 CATATTAATA
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
31 9 0.17
32 10 0.19
35 16 0.31
36 1 0.02
37 13 0.25
38 3 0.06
ACGTcount: A:0.34, C:0.07, G:0.04, T:0.54
Consensus pattern (31 bp):
TATTCTTATATATATATTATTACATGTATTT
Found at i:22106983 original size:42 final size:42
Alignment explanation
Indices: 22106867--22107057 Score: 136
Period size: 43 Copynumber: 4.5 Consensus size: 42
22106857 ATGCCAATGC
* * * *
22106867 CATATCCCAGATATGGTCTTACATG-GGATCACATATCGACGT
1 CATATCCCAGATATGGTCTTACACGAAG-TCTCATATCGATGT
* *
22106909 CAATAGCCCAGCTATGGTCTTACAC-AATGTCTCATATCGATGT
1 C-ATATCCCAGATATGGTCTTACACGAA-GTCTCATATCGATGT
* * * * *
22106952 CATATCCCAAATATGGTCTTATACGAAGTCTCATTTTCGAAGC
1 CATATCCCAGATATGGTCTTACACGAAGTCTCA-TATCGATGT
* * ** * * **
22106995 CATGTCCTAGACGTGGTCTTACACGAAATCGCATGCCGAT-T
1 CATATCCCAGATATGGTCTTACACGAAGTCTCATATCGATGT
*
22107036 CCATATCCCAAATATGGTCTTA
1 -CATATCCCAGATATGGTCTTA
22107058 TACGGAATCT
Statistics
Matches: 113, Mismatches: 30, Indels: 12
0.73 0.19 0.08
Matches are distributed among these distances:
42 46 0.41
43 66 0.58
44 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (42 bp):
CATATCCCAGATATGGTCTTACACGAAGTCTCATATCGATGT
Found at i:22108675 original size:27 final size:27
Alignment explanation
Indices: 22108637--22108690 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
22108627 ACTCAGGTAA
22108637 ATGGTGTTACACTCACTAAGTTCTCCC
1 ATGGTGTTACACTCACTAAGTTCTCCC
22108664 ATGGTGTTACACTCACTAAGTTCTCCC
1 ATGGTGTTACACTCACTAAGTTCTCCC
22108691 GAACTTACCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.30, G:0.15, T:0.33
Consensus pattern (27 bp):
ATGGTGTTACACTCACTAAGTTCTCCC
Found at i:22120037 original size:54 final size:54
Alignment explanation
Indices: 22119970--22120073 Score: 127
Period size: 54 Copynumber: 1.9 Consensus size: 54
22119960 TTAGTGTATT
** * * *
22119970 AAGTCAGTGAGTTACATGACCTAGCACACGGCCTGTGACACGGCTGTGTGTCGC
1 AAGTCAGAAAGTTACACGACCTAGCACACGGCCTGCGACACGGCCGTGTGTCGC
* ** *
22120024 AAGTCAGAAAGTTATACGGTCTAGCACACGGCTTGCGACACGGCCGTGTG
1 AAGTCAGAAAGTTACACGACCTAGCACACGGCCTGCGACACGGCCGTGTG
22120074 ACCCAACTCA
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 41 1.00
ACGTcount: A:0.24, C:0.25, G:0.30, T:0.21
Consensus pattern (54 bp):
AAGTCAGAAAGTTACACGACCTAGCACACGGCCTGCGACACGGCCGTGTGTCGC
Found at i:22120091 original size:54 final size:54
Alignment explanation
Indices: 22119990--22120096 Score: 133
Period size: 54 Copynumber: 2.0 Consensus size: 54
22119980 GTTACATGAC
* * * * * *
22119990 CTAGCACACGGCCTGTGACACGGCTGTGTGTCGCAAGTCAGAAAGTTATACGGT
1 CTAGCACACGGCCTGCGACACGGCCGTGTGACCCAACTCAGAAAGTTACACGGT
* **
22120044 CTAGCACACGGCTTGCGACACGGCCGTGTGACCCAACTCAGTGAGTTACACGG
1 CTAGCACACGGCCTGCGACACGGCCGTGTGACCCAACTCAGAAAGTTACACGG
22120097 GTGAAGACAC
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 44 1.00
ACGTcount: A:0.23, C:0.28, G:0.29, T:0.20
Consensus pattern (54 bp):
CTAGCACACGGCCTGCGACACGGCCGTGTGACCCAACTCAGAAAGTTACACGGT
Found at i:22132064 original size:40 final size:40
Alignment explanation
Indices: 22132002--22132146 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
22131992 CATTTGAATG
* * *
22132002 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCTGAAGGCATTTATGCGAGTTGA-T
* *
22132042 TTATCCGGGCTAAGACCTGAAGGCATTTTTGCGAGTTGAT
1 ATATCCGGGCTAAGACCTGAAGGCATTTATGCGAGTTGAT
* *
22132082 ATATCCGGGCTAAGACCTGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCTGAAGGCATTTATGCGAGTTGAT
* * *
22132122 ATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCTGAAGGCA
22132147 ATTGTGCTTG
Statistics
Matches: 93, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
40 90 0.97
41 3 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCTGAAGGCATTTATGCGAGTTGAT
Found at i:22132165 original size:80 final size:80
Alignment explanation
Indices: 22132002--22132173 Score: 186
Period size: 80 Copynumber: 2.2 Consensus size: 80
22131992 CATTTGAATG
* * * * * *
22132002 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCTGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATACCCGGGCTAAGACCCGAAGGCA
* * *
22132067 TTTTTGCGAGTTGAT
66 ATTGTGCGAGTGGAT
* * *
22132082 ATATCCGGGCTAAGACCTGAAGGCATTTGTGCGAGTTG-CTATACCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAG-TGACTATACCCGGGCTAAGACCCGAAGGC
** *
22132146 AATTGTGCTTGTGGTT
65 AATTGTGCGAGTGGAT
22132162 ATATCC-GGCTAA
1 ATATCCGGGCTAA
22132174 ATTCCGAAGA
Statistics
Matches: 76, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
79 6 0.08
80 68 0.89
81 2 0.03
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATACCCGGGCTAAGACCCGAAGGCA
ATTGTGCGAGTGGAT
Done.