Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 158 of 427
Found at i:43606621 original size:16 final size:17
Alignment explanation
Indices: 43606600--43606634 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
43606590 TAATGTCTAG
43606600 GAAAATTA-TTAATTGA
1 GAAAATTACTTAATTGA
43606616 GAAAATTATCTTAATTGA
1 GAAAATTA-CTTAATTGA
43606634 G
1 G
43606635 GGGTTAATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
18 9 0.53
ACGTcount: A:0.46, C:0.03, G:0.14, T:0.37
Consensus pattern (17 bp):
GAAAATTACTTAATTGA
Found at i:43609727 original size:40 final size:40
Alignment explanation
Indices: 43609592--43609717 Score: 243
Period size: 40 Copynumber: 3.1 Consensus size: 40
43609582 TTATTTGATG
43609592 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
*
43609632 TGGAATTGTATCCGGGCTTAAAGACCCACAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
43609672 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
43609712 TGGAAT
1 TGGAAT
43609718 GACATCCGGG
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 84 1.00
ACGTcount: A:0.21, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
Found at i:43615489 original size:29 final size:29
Alignment explanation
Indices: 43615399--43615558 Score: 171
Period size: 29 Copynumber: 5.5 Consensus size: 29
43615389 ACTCGATTTC
* * **
43615399 GCACACTTAGTGCCATGTGA-TTCAAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
43615428 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
43615456 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
*
43615486 GCACACTTAGTGCCATATATTTCTAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
43615515 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
43615544 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
43615559 ATCTCGTCAC
Statistics
Matches: 110, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
29 109 0.99
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:43622852 original size:29 final size:29
Alignment explanation
Indices: 43622820--43622892 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
43622810 CTTCGAGCTC
*
43622820 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
43622849 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
43622878 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
43622893 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:43626145 original size:50 final size:50
Alignment explanation
Indices: 43626070--43626246 Score: 264
Period size: 50 Copynumber: 3.5 Consensus size: 50
43626060 CCATGGCAAC
*
43626070 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGATAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
43626120 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
43626170 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTAATCAATGACAAATAA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
43626220 CAAGTGAAAAGTGGTAGCTTCGACTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
43626247 CTGATCAGTG
Statistics
Matches: 115, Mismatches: 11, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
50 92 0.80
51 23 0.20
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:43626260 original size:31 final size:31
Alignment explanation
Indices: 43626222--43626401 Score: 245
Period size: 31 Copynumber: 5.8 Consensus size: 31
43626212 ACAAATAACA
*
43626222 AGTGAAAAGTGGTAGCTTCGACTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
43626253 AGTGAAAAGCGGTAGCTTCTGCTACCTGATT
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
43626284 AGTGAAAAGTGGTAGCTCCGGCTACCTAATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
43626315 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
43626346 AGTGAAAAATGGTAGC-TCTGGCTACTTGATC
1 AGTGAAAAGTGGTAGCTTC-GGCTACCTGATC
* *
43626377 AGTGAATAGTGGTAGCTTCAGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
43626402 AAGTGACAAG
Statistics
Matches: 131, Mismatches: 16, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
30 1 0.01
31 128 0.98
32 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:43626572 original size:49 final size:47
Alignment explanation
Indices: 43626423--43626634 Score: 215
Period size: 47 Copynumber: 4.6 Consensus size: 47
43626413 GATTTCCGTA
* * ** * * * *
43626423 TAAGACCATATCTGGGATATGGCATC-GGTGTGATATATGCTACTGTA
1 TAAGACCATAGCTGGGCTATGGCATCATATGTGATATGTGATTC-GTG
* * * *
43626470 TAAGACCATATCTAGGATATGGCATCA-ATGAGATATGTGATTCGTG
1 TAAGACCATAGCTGGGCTATGGCATCATATGTGATATGTGATTCGTG
43626516 TAAGACCATAGCTGGGCTATGGCATCAATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGCTATGGCATC-ATATGTGATATGTGATT-CGTG
*
43626565 TAAGACCATAGCTGGGCTATGGCATCGATATATGA-A--T-A-T-GTG
1 TAAGACCATAGCTGGGCTATGGCATC-ATATGTGATATGTGATTCGTG
43626607 TAAGACCATAGCTGGGCTATGGCATCAT
1 TAAGACCATAGCTGGGCTATGGCATCAT
43626635 TATCTGAAGA
Statistics
Matches: 148, Mismatches: 13, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
41 2 0.01
42 29 0.20
44 1 0.01
45 1 0.01
46 26 0.18
47 37 0.25
48 15 0.10
49 37 0.25
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (47 bp):
TAAGACCATAGCTGGGCTATGGCATCATATGTGATATGTGATTCGTG
Found at i:43626671 original size:42 final size:42
Alignment explanation
Indices: 43626514--43626659 Score: 168
Period size: 42 Copynumber: 3.3 Consensus size: 42
43626504 ATGTGATTCG
* *
43626514 TGTAAGACCATAGCTGGGCTATGGCATCAATATGTGATATGTGATTA
1 TGTAAGACCATAGCTGGGCTATGGCATCGATATATGA-A---GA-TA
* *
43626561 CGTGTAAGACCATAGCTGGGCTATGGCATCGATATATGAATATG
1 --TGTAAGACCATAGCTGGGCTATGGCATCGATATATGAAGATA
*
43626605 TGTAAGACCATAGCTGGGCTATGGCATC-ATTATCTGAAGATA
1 TGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAAGATA
43626647 TGTAAGACCATAG
1 TGTAAGACCATAG
43626660 TTGAACTATG
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
41 1 0.01
42 50 0.56
44 1 0.01
45 1 0.01
48 1 0.01
49 35 0.39
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATAGCTGGGCTATGGCATCGATATATGAAGATA
Found at i:43627355 original size:23 final size:23
Alignment explanation
Indices: 43627325--43627375 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
43627315 ATGATATTCG
43627325 AAATACTTTAGTGAATAAAGCTT
1 AAATACTTTAGTGAATAAAGCTT
*
43627348 AAATACTTTGGTGAATAAAGCTT
1 AAATACTTTAGTGAATAAAGCTT
43627371 AAATA
1 AAATA
43627376 TGAAATAGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.45, C:0.08, G:0.14, T:0.33
Consensus pattern (23 bp):
AAATACTTTAGTGAATAAAGCTT
Found at i:43631128 original size:21 final size:21
Alignment explanation
Indices: 43631103--43631142 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
43631093 GCCAAAATAA
43631103 GTTTTA-GACTTATACCAACAG
1 GTTTTATG-CTTATACCAACAG
*
43631124 GTTTTATGCTTATAGCAAC
1 GTTTTATGCTTATACCAAC
43631143 GCATTATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (21 bp):
GTTTTATGCTTATACCAACAG
Found at i:43636277 original size:40 final size:40
Alignment explanation
Indices: 43636219--43636425 Score: 198
Period size: 40 Copynumber: 5.2 Consensus size: 40
43636209 AATTGAATGG
* * * *
43636219 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATTA
* * * * **
43636259 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACAA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATTA
* * **
43636299 CATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATTA
* * ** *
43636339 AATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTG
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATTA
* * * **
43636379 TATCCGGGCTAAGACTCGAAGGCATTCGTGCATGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATTA
43636419 TATCCGG
1 TATCCGG
43636426 TTGTATTCCG
Statistics
Matches: 138, Mismatches: 29, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 138 1.00
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATTA
Found at i:43636356 original size:80 final size:80
Alignment explanation
Indices: 43636220--43636425 Score: 225
Period size: 80 Copynumber: 2.6 Consensus size: 80
43636210 ATTGAATGGT
* * ** * * *
43636220 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
*
43636285 TGTGCTAGT-GACAAC
66 TGTGCAAGTCG-CAAC
* * * *
43636300 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
****
43636365 TGTGCAAGTCGTTGT
66 TGTGCAAGTCGCAAC
* * *
43636380 ATCCGGGCTAAGACTCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
43636426 TTGTATTCCG
Statistics
Matches: 105, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
80 104 0.99
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
TGTGCAAGTCGCAAC
Found at i:43644387 original size:40 final size:39
Alignment explanation
Indices: 43644195--43644402 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 39
43644185 CAATTGAATG
* * ** * *
43644195 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* * * *
43644235 ATATCCGGGTTAAGACCCGAAGGCGATT-ATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTG-TT
*
43644275 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAG-TGTT
* * *
43644315 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* *
43644355 GTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
43644395 ATATCCGG
1 ATATCCGG
43644403 TTGTATTCCG
Statistics
Matches: 143, Mismatches: 20, Indels: 10
0.83 0.12 0.06
Matches are distributed among these distances:
39 4 0.03
40 134 0.94
41 5 0.03
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTT
Found at i:43649737 original size:49 final size:49
Alignment explanation
Indices: 43649665--43649762 Score: 160
Period size: 49 Copynumber: 2.0 Consensus size: 49
43649655 ATATCAAGAA
*
43649665 GATAGAAAATTCAGTATCGGTTTATACTATAGACATAGCTCAACCTTGG
1 GATAGAAAATTCAGTATCGGTTTATACTATAAACATAGCTCAACCTTGG
* * *
43649714 GATAGAAAATTCGGTATTGGTTTATACTATAAACATAGCTCAATCTTGG
1 GATAGAAAATTCAGTATCGGTTTATACTATAAACATAGCTCAACCTTGG
43649763 CTCGATACCA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (49 bp):
GATAGAAAATTCAGTATCGGTTTATACTATAAACATAGCTCAACCTTGG
Found at i:43650204 original size:15 final size:15
Alignment explanation
Indices: 43650180--43650209 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
43650170 TGCTATCTAT
43650180 TTATAAGGAGAGATA
1 TTATAAGGAGAGATA
*
43650195 TTATAGGGAGAGATA
1 TTATAAGGAGAGATA
43650210 GGAGAATCTA
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:0.43, C:0.00, G:0.30, T:0.27
Consensus pattern (15 bp):
TTATAAGGAGAGATA
Found at i:43652804 original size:39 final size:40
Alignment explanation
Indices: 43652741--43653041 Score: 341
Period size: 39 Copynumber: 7.7 Consensus size: 40
43652731 CACCAACACA
* * * * * *
43652741 AAGCCTACGAGACTTTAAGCCCGGATATC-GTACCAGTACG
1 AAGCCTGCG-GACCTTAAGTCCGGATATCAATTCCAGCACG
* * *
43652781 AAGCCTGCGGACCTTAAGTCCGGATAT-AGTACCAGTACG
1 AAGCCTGCGGACCTTAAGTCCGGATATCAATTCCAGCACG
* * *
43652820 AAACCTGCGGACCTTAAGTCCGGATAT-AGTACCAGCACG
1 AAGCCTGCGGACCTTAAGTCCGGATATCAATTCCAGCACG
* * *
43652859 AAGCCTGTGGATCTTAAGTCCGGATA-CAATTCCAGCATG
1 AAGCCTGCGGACCTTAAGTCCGGATATCAATTCCAGCACG
* * *
43652898 AAGCCTGCGGGTCTTTAAGACC-GA-ATGCAATTCCAGCACG
1 AAGCCTGC-GGACCTTAAGTCCGGATAT-CAATTCCAGCACG
43652938 AAGCCTGCGGACCTTAAGTCCGGATA-CAATTCCAGCACG
1 AAGCCTGCGGACCTTAAGTCCGGATATCAATTCCAGCACG
*
43652977 AAGCCTGCAGACCTTAAGTCCGGATA-CAATTCCAGCACG
1 AAGCCTGCGGACCTTAAGTCCGGATATCAATTCCAGCACG
43653016 AAGCCTGCGGACCTTAAGTCC-GATAT
1 AAGCCTGCGGACCTTAAGTCCGGATAT
43653042 ACATCAAATA
Statistics
Matches: 231, Mismatches: 22, Indels: 17
0.86 0.08 0.06
Matches are distributed among these distances:
38 5 0.02
39 186 0.81
40 39 0.17
41 1 0.00
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.20
Consensus pattern (40 bp):
AAGCCTGCGGACCTTAAGTCCGGATATCAATTCCAGCACG
Found at i:43652949 original size:118 final size:118
Alignment explanation
Indices: 43652812--43653025 Score: 347
Period size: 118 Copynumber: 1.8 Consensus size: 118
43652802 GGATATAGTA
* * * ** *
43652812 CCAGTACGAAACCTGCGGACCTTAAGTCCGGATATAGTACCAGCACGAAGCCTGTGGATCTTAAG
1 CCAGCACGAAACCTGCGGACCTTAAGTCCGGATACAATACCAGCACGAAGCCTGCAGACCTTAAG
*
43652877 TCCGGATACAATTCCAGCATGAAGCCTGCGGGTCTTTAAGACCGAATGCAATT
66 TCCGGATACAATTCCAGCACGAAGCCTGCGGGTCTTTAAGACCGAATGCAATT
* *
43652930 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCAGACCTTAAG
1 CCAGCACGAAACCTGCGGACCTTAAGTCCGGATACAATACCAGCACGAAGCCTGCAGACCTTAAG
43652995 TCCGGATACAATTCCAGCACGAAGCCTGCGG
66 TCCGGATACAATTCCAGCACGAAGCCTGCGG
43653026 ACCTTAAGTC
Statistics
Matches: 87, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
118 87 1.00
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.19
Consensus pattern (118 bp):
CCAGCACGAAACCTGCGGACCTTAAGTCCGGATACAATACCAGCACGAAGCCTGCAGACCTTAAG
TCCGGATACAATTCCAGCACGAAGCCTGCGGGTCTTTAAGACCGAATGCAATT
Found at i:43656787 original size:4 final size:4
Alignment explanation
Indices: 43656780--43656824 Score: 63
Period size: 4 Copynumber: 10.8 Consensus size: 4
43656770 CAAAATAAAT
*
43656780 ATTA ATTA ATTA ATTA ATTA ATTA ATTTA ATTA GATAA ATTA ATT
1 ATTA ATTA ATTA ATTA ATTA ATTA A-TTA ATTA -ATTA ATTA ATT
43656825 TTCCAATTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
4 30 0.81
5 7 0.19
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (4 bp):
ATTA
Found at i:43663189 original size:20 final size:19
Alignment explanation
Indices: 43663153--43663202 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 19
43663143 TATACTTAGT
43663153 TTAA-TAATT-AATAAACC
1 TTAATTAATTAAATAAACC
43663170 TTAATTAATTAAACTAAACC
1 TTAATTAATTAAA-TAAACC
43663190 TTAATTAACTTAA
1 TTAATTAA-TTAA
43663203 CCTTAAGTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.14
18 5 0.17
19 2 0.07
20 14 0.48
21 4 0.14
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (19 bp):
TTAATTAATTAAATAAACC
Found at i:43663199 original size:15 final size:16
Alignment explanation
Indices: 43663174--43663208 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
43663164 TAAACCTTAA
43663174 TTAATTAAACTAAACC
1 TTAATTAAACTAAACC
*
43663190 TTAATT-AACTTAACC
1 TTAATTAAACTAAACC
43663205 TTAA
1 TTAA
43663209 GTGTCATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.37
Consensus pattern (16 bp):
TTAATTAAACTAAACC
Found at i:43665708 original size:29 final size:29
Alignment explanation
Indices: 43665675--43665739 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
43665665 GTGACGAGAT
43665675 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
43665704 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
43665733 CGGCACT
1 TGGCACT
43665740 GGGTGTGCGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:43665845 original size:2 final size:2
Alignment explanation
Indices: 43665840--43665870 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
43665830 GTGCGTACTC
43665840 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
43665871 CTCCGATCGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:43673690 original size:29 final size:29
Alignment explanation
Indices: 43673657--43673729 Score: 128
Period size: 29 Copynumber: 2.5 Consensus size: 29
43673647 GTGACGAGAT
43673657 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
43673686 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* *
43673715 CGGCACTAGGTGTGC
1 TGGCACTAAGTGTGC
43673730 GAGCTCGTAG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:43688339 original size:24 final size:24
Alignment explanation
Indices: 43688293--43688359 Score: 107
Period size: 24 Copynumber: 2.8 Consensus size: 24
43688283 GATAGCTCAT
* *
43688293 AAGAGCCATAATCAGGAAGTTCACA
1 AAGAACCAT-ATCGGGAAGTTCACA
43688318 AAGAACCATATCGGGAAGTTCACA
1 AAGAACCATATCGGGAAGTTCACA
43688342 AAGAACCATATCGGGAAG
1 AAGAACCATATCGGGAAG
43688360 CTCTGGATAG
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
24 32 0.80
25 8 0.20
ACGTcount: A:0.43, C:0.19, G:0.22, T:0.15
Consensus pattern (24 bp):
AAGAACCATATCGGGAAGTTCACA
Found at i:43688947 original size:21 final size:21
Alignment explanation
Indices: 43688909--43688949 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
43688899 GAATTTAACA
*
43688909 TCAATTTAATCCATTTCATAC
1 TCAATTTAATCCAATTCATAC
43688930 TCAATTTAAAT-CAATTCATA
1 TCAATTT-AATCCAATTCATA
43688950 TCCTAGGCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.39, C:0.20, G:0.00, T:0.41
Consensus pattern (21 bp):
TCAATTTAATCCAATTCATAC
Found at i:43695742 original size:21 final size:20
Alignment explanation
Indices: 43695702--43695747 Score: 67
Period size: 19 Copynumber: 2.2 Consensus size: 20
43695692 GGGCCCAACC
43695702 ATGAATATCCTTTATGTTTG
1 ATGAATATCCTTTATGTTTG
43695722 -TGAATATCCTTTACGTGTTTG
1 ATGAATATCCTTTA--TGTTTG
43695743 ATGAA
1 ATGAA
43695748 ACTGAGTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 13 0.57
21 6 0.26
22 4 0.17
ACGTcount: A:0.26, C:0.11, G:0.17, T:0.46
Consensus pattern (20 bp):
ATGAATATCCTTTATGTTTG
Found at i:43696466 original size:5 final size:5
Alignment explanation
Indices: 43696458--43696483 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
43696448 ATATTATATG
43696458 AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT A
43696484 CTTTTGGCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:43697843 original size:10 final size:9
Alignment explanation
Indices: 43697820--43697931 Score: 57
Period size: 10 Copynumber: 11.7 Consensus size: 9
43697810 TATCTTATTC
*
43697820 TTTTTATGA
1 TTTTTATAA
43697829 TTTTTATAA
1 TTTTTATAA
*
43697838 TATTTTAGAA
1 T-TTTTATAA
*
43697848 TTTTTCTATAT
1 -TTTT-TATAA
43697859 TTGTTTATAA
1 TT-TTTATAA
43697869 TTTTT-TAA
1 TTTTTATAA
*
43697877 TTTTTTCTAA
1 -TTTTTATAA
**
43697887 GCTTTATAAA
1 TTTTTAT-AA
* *
43697897 ATTTTGTAA
1 TTTTTATAA
43697906 TTATTTAT-A
1 TT-TTTATAA
43697915 TTTTATAATAA
1 TTTT-T-ATAA
43697926 TTTTTA
1 TTTTTA
43697932 GTATAATAAA
Statistics
Matches: 79, Mismatches: 13, Indels: 22
0.69 0.11 0.19
Matches are distributed among these distances:
8 5 0.06
9 29 0.37
10 34 0.43
11 11 0.14
ACGTcount: A:0.30, C:0.03, G:0.04, T:0.62
Consensus pattern (9 bp):
TTTTTATAA
Found at i:43697930 original size:29 final size:29
Alignment explanation
Indices: 43697820--43697930 Score: 81
Period size: 29 Copynumber: 3.8 Consensus size: 29
43697810 TATCTTATTC
*
43697820 TTTTTATGATTTTTATAAT-ATTTTAG-AAT
1 TTTTTAT-A-TTTTATAATAATTTTTGTAAT
*
43697849 TTTTCTATATTTGT-TTATAATTTTT-TAAT
1 TTTT-TATATTT-TATAATAATTTTTGTAAT
* *
43697878 TTTTTCTAAGCTTTATAA-AA-TTTTGTAAT
1 TTTTTAT-A-TTTTATAATAATTTTTGTAAT
*
43697907 TATTTATATTTTATAATAATTTTT
1 TTTTTATATTTTATAATAATTTTT
43697931 AGTATAATAA
Statistics
Matches: 64, Mismatches: 8, Indels: 20
0.70 0.09 0.22
Matches are distributed among these distances:
27 7 0.11
28 15 0.23
29 35 0.55
30 7 0.11
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.63
Consensus pattern (29 bp):
TTTTTATATTTTATAATAATTTTTGTAAT
Found at i:43698683 original size:10 final size:10
Alignment explanation
Indices: 43698670--43698695 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
43698660 AAAATTAAAA
43698670 AATTTTCAAT
1 AATTTTCAAT
43698680 AATTTTCAAT
1 AATTTTCAAT
43698690 AATTTT
1 AATTTT
43698696 TAAAATTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (10 bp):
AATTTTCAAT
Found at i:43698817 original size:27 final size:28
Alignment explanation
Indices: 43698768--43698821 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
43698758 TAAAAACTTC
43698768 TAAAAAATATATAAAAAAGTTAAATTTTT
1 TAAAAAATATATAAAAAAGTT-AATTTTT
* *
43698797 TAAAAAAT-TCTAAAATA-TTAATTTT
1 TAAAAAATATATAAAAAAGTTAATTTT
43698822 GGGACCTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 6 0.26
27 2 0.09
28 7 0.30
29 8 0.35
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (28 bp):
TAAAAAATATATAAAAAAGTTAATTTTT
Found at i:43699526 original size:8 final size:8
Alignment explanation
Indices: 43699513--43699539 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
43699503 AAAATATATA
43699513 AAAGTTAT
1 AAAGTTAT
43699521 AAAGTTAT
1 AAAGTTAT
43699529 AAAGTTAT
1 AAAGTTAT
43699537 AAA
1 AAA
43699540 ATAAAGATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.33
Consensus pattern (8 bp):
AAAGTTAT
Found at i:43716739 original size:35 final size:35
Alignment explanation
Indices: 43716694--43716863 Score: 184
Period size: 35 Copynumber: 4.9 Consensus size: 35
43716684 ATGGCAAAGT
*
43716694 TATGAAACGTAGGTATGTTATTATCCATACTGAGC
1 TATGAAACGTAGGTATGGTATTATCCATACTGAGC
* *
43716729 TATGATACGTAGGTATGGTGTT-TCCATACTGAGC
1 TATGAAACGTAGGTATGGTATTATCCATACTGAGC
* * ** *
43716763 TATGAGATGTAGGTATGGTATCCTCCATACCGAGC
1 TATGAAACGTAGGTATGGTATTATCCATACTGAGC
* * *
43716798 TAT-AATACGTAGGTATGGTATTTTCCATA-TCAAGT
1 TATGAA-ACGTAGGTATGGTATTATCCATACT-GAGC
* *
43716833 TGTGAAACGTAGGTATGGTATTAACCATACT
1 TATGAAACGTAGGTATGGTATTATCCATACT
43716864 AAGTAGCGAA
Statistics
Matches: 112, Mismatches: 18, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
34 31 0.28
35 78 0.70
36 3 0.03
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (35 bp):
TATGAAACGTAGGTATGGTATTATCCATACTGAGC
Found at i:43727443 original size:35 final size:35
Alignment explanation
Indices: 43727404--43727576 Score: 204
Period size: 35 Copynumber: 5.0 Consensus size: 35
43727394 ATGGCAAAGT
*
43727404 TATGACACGTAGGTATGGTATTATCCATACTGAGC
1 TATGATACGTAGGTATGGTATTATCCATACTGAGC
*
43727439 TATGATACGTAGGTATGGTATT-TCCATACTGATC
1 TATGATACGTAGGTATGGTATTATCCATACTGAGC
* * * **
43727473 CATGAGATGTAGGTATGGTATCCTCCATACTGAGC
1 TATGATACGTAGGTATGGTATTATCCATACTGAGC
* * ** *
43727508 TATAATACGTAGGTATGGTATTTTCCATACCAAGT
1 TATGATACGTAGGTATGGTATTATCCATACTGAGC
* * *
43727543 TGTGAAACGTAGGTATGGTATTAACCATACTGAG
1 TATGATACGTAGGTATGGTATTATCCATACTGAG
43727577 TAGTGAATCG
Statistics
Matches: 114, Mismatches: 23, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
34 29 0.25
35 85 0.75
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.33
Consensus pattern (35 bp):
TATGATACGTAGGTATGGTATTATCCATACTGAGC
Found at i:43734185 original size:23 final size:23
Alignment explanation
Indices: 43734158--43734201 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
43734148 AATTTTGATA
*
43734158 AATTAAATAGCTAATTAATTTAT
1 AATTAAATAACTAATTAATTTAT
43734181 AATTAAATAACTAATTAATTT
1 AATTAAATAACTAATTAATTT
43734202 TGATAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (23 bp):
AATTAAATAACTAATTAATTTAT
Found at i:43746810 original size:48 final size:48
Alignment explanation
Indices: 43746747--43746924 Score: 189
Period size: 48 Copynumber: 3.7 Consensus size: 48
43746737 CAATATGTGT
*
43746747 GCCAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCACGATATGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGA
* * * * *
43746795 GCCAGTGTAAGACCATGT-TCGGAACATGGCATCGGCGATGTTGTGAGA
1 GCCAGTGTAAGACCATGTCT-GGGACATGGCATCGGCCACGATATGAGA
* * * * * *
43746843 GCTAGTGTAAGACCATGTCTGGGACATGGCAT-TGACATTGAGACGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-CGATATGAGA
** *
43746891 GCTGGTGTAAGACCATGTCTAGGACATGGCATCG
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCG
43746925 ACAATTCACC
Statistics
Matches: 108, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
47 3 0.03
48 104 0.96
49 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.33, T:0.22
Consensus pattern (48 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGA
Found at i:43746918 original size:96 final size:96
Alignment explanation
Indices: 43746750--43746924 Score: 237
Period size: 96 Copynumber: 1.8 Consensus size: 96
43746740 TATGTGTGCC
* * * * *
43746750 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCACGATATGAGAGCCAGTGTAAGACCATGTTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGACACGAGACGAGAGCCAGTGTAAGACCATGTTA
43746815 GGAACATGGCATCGGCGATGTTGTGAGAGCT
66 GGAACATGGCATCGGCGATGTTGTGAGAGCT
* * **
43746846 AGTGTAAGACCATGTCTGGGACATGGCAT-TGACATTGAGACGAGAGCTGGTGTAAGACCATGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGACA-CGAGACGAGAGCCAGTGTAAGACCATGT-
43746910 TAGG-ACATGGCATCG
64 TAGGAACATGGCATCG
43746925 ACAATTCACC
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
95 3 0.04
96 62 0.91
97 3 0.04
ACGTcount: A:0.26, C:0.19, G:0.33, T:0.22
Consensus pattern (96 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGACACGAGACGAGAGCCAGTGTAAGACCATGTTA
GGAACATGGCATCGGCGATGTTGTGAGAGCT
Found at i:43749997 original size:17 final size:17
Alignment explanation
Indices: 43749975--43750009 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
43749965 TTAGCAAACC
43749975 ATTTCAAACATCATAGT
1 ATTTCAAACATCATAGT
43749992 ATTTCAAACATCATAGT
1 ATTTCAAACATCATAGT
43750009 A
1 A
43750010 AAAGTACACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.17, G:0.06, T:0.34
Consensus pattern (17 bp):
ATTTCAAACATCATAGT
Found at i:43757334 original size:40 final size:40
Alignment explanation
Indices: 43757198--43757351 Score: 157
Period size: 40 Copynumber: 3.9 Consensus size: 40
43757188 GTGTGCATGA
* *
43757198 GCAAATTGTGATATCCGGGCTAAGTCCCG-AGGACATTTAT
1 GCAAATTGTGATATCCGGGCTAAGACCCGAAGG-CATTTGT
* * ** * *
43757238 GCTAGTAATTATATCCGGGCTAAGACCCGAAGGCATTCGT
1 GCAAATTGTGATATCCGGGCTAAGACCCGAAGGCATTTGT
* * *
43757278 GCAAGTTGTTAAATCCGGGCTAAGACCCGAAGGCATTTGT
1 GCAAATTGTGATATCCGGGCTAAGACCCGAAGGCATTTGT
* * * *
43757318 GCAAATCGTGATATCCGGGTTAAGTCCCGTAGGC
1 GCAAATTGTGATATCCGGGCTAAGACCCGAAGGC
43757352 CTTGGTGCGG
Statistics
Matches: 93, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
40 90 0.97
41 3 0.03
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
GCAAATTGTGATATCCGGGCTAAGACCCGAAGGCATTTGT
Found at i:43758098 original size:97 final size:99
Alignment explanation
Indices: 43757989--43758185 Score: 326
Period size: 97 Copynumber: 2.0 Consensus size: 99
43757979 GCGGTTTGTA
43757989 ATATATGGTGTCATGATGTGATCATGGATTGGAAATGGGAGTGTTGGTCACATGATCAGCCA-CT
1 ATATATGGTGTCATGATGTGATCATGGATTGGAAATGGGAGTGTTGGTCACATGATCAGCCATCT
43758053 ATGGTT-TGATCATATGTGAACCTATGTATATAT
66 ATGGTTATGATCATATGTGAACCTATGTATATAT
43758086 ATATATGGTGTCATGATGTGATCATGGATTGGAAATGGGAGTGTTGGTCACATGATCAGCCATTG
1 ATATATGGTGTCATGATGTGATCATGGATTGGAAATGGGAGTGTTGGTCACATGATCAGCCA-T-
*
43758151 GTATGGTTAAAATGATCATATGTGAACCTATGTAT
64 CTATGGTT---ATGATCATATGTGAACCTATGTAT
43758186 GGCAAGACTA
Statistics
Matches: 92, Mismatches: 1, Indels: 7
0.92 0.01 0.07
Matches are distributed among these distances:
97 62 0.67
100 7 0.08
104 23 0.25
ACGTcount: A:0.28, C:0.11, G:0.26, T:0.35
Consensus pattern (99 bp):
ATATATGGTGTCATGATGTGATCATGGATTGGAAATGGGAGTGTTGGTCACATGATCAGCCATCT
ATGGTTATGATCATATGTGAACCTATGTATATAT
Found at i:43765283 original size:40 final size:40
Alignment explanation
Indices: 43765147--43765300 Score: 148
Period size: 40 Copynumber: 3.9 Consensus size: 40
43765137 GTGTGCATGA
* *
43765147 GCAAATTGTGATATCCGGGCTAAGTCCCG-AGGACATTTAT
1 GCAAATTGTGATATCCGGGCTAAGACCCGAAGG-CATTTGT
* * ** * * *
43765187 GCTAGTAATTATATCTGGGCTAAGACCCGAAGGCATTCGT
1 GCAAATTGTGATATCCGGGCTAAGACCCGAAGGCATTTGT
* * *
43765227 GCAAGTTGTTAAATCCGGGCTAAGACCCGAAGGCATTTGT
1 GCAAATTGTGATATCCGGGCTAAGACCCGAAGGCATTTGT
* * * *
43765267 GCAAATCGTGATATCCGGGTTAAGTCCCGTAGGC
1 GCAAATTGTGATATCCGGGCTAAGACCCGAAGGC
43765301 CTTGGTGCGG
Statistics
Matches: 91, Mismatches: 22, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
40 88 0.97
41 3 0.03
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
GCAAATTGTGATATCCGGGCTAAGACCCGAAGGCATTTGT
Found at i:43770419 original size:517 final size:517
Alignment explanation
Indices: 43769434--43770464 Score: 1640
Period size: 517 Copynumber: 2.0 Consensus size: 517
43769424 TTAAACTTAC
* *
43769434 CAATCTTGATTATTAAATCTAAACATACAATATCATGTTCCCATCCATTTGGTTAAATTTGCCTA
1 CAATATTGATTATTAAATCTAAACATACAATATCATGTTCCCATCCATTTGGCTAAATTTGCCTA
* * * *
43769499 AGCATATACATTCAATCAAATATGTTAGTCACCAAAATTTTCATATAAATCAAGTAACATAGATG
66 AGCACATACATTCAATCAAACATGTCAGTCACCAAAATTTTCATATAAATCAAGTAACATAAATG
*
43769564 AGCTCATCAAGCAATATTCTATCTAGTCATTACTATTTCATCTCAAGGTTTTCATGCCAAGTCAA
131 AGCTCATCAAGCAATATTCTATCTAGTCATTACTATTTCATCTCAAGGTTTTCATGCCAAATCAA
* * * *
43769629 GAGTTTTATGTCCTTTGAATCATTGAATTCCAATGAATCCTCAAGTGGTACACCGAAGTGTACAA
196 GAGTTATATGTCATTTGAATCATTGAATTCCAATGAATCCTCAAGTAGTACACCAAAGTGTACAA
* *
43769694 TTTAACCATTCATCAATTTCTTATTCAGGGCTACCCATTAGGGCACTTAATAAAGAAACACTATC
261 TTCAACCATTCATCAATTTCTTAGTCAGGGCTACCCATTAGGGCACTTAATAAAGAAACACTATC
*
43769759 TCGAGCCACATATCATTTAACAGGATTACTAGTCCAGGCTAAATCCTTTATATAACGTATGCTCA
326 TCGAGCCACATATCATTTAACAGGATTACCAGTCCAGGCTAAATCCTTTATATAACGTATGCTCA
* * *
43769824 GGGAAGCTCAATTAGGATTACCAATCCAGGCTAAACCCTAATCATAACGTATGCTCGAAAGGTAT
391 AGGAAGCTAAATTAGGATTACCAATCCAAGCTAAACCCTAATCATAACGTATGCTCGAAAGGTAT
* * *
43769889 TACACTGGGATTACCCGT-TCAGGCTAAATACTTTTTATAACAAGGTTAATGGGGTTACTCGT
456 TACACTAGGATTACCCATCT-AGGCTAAATACTTTTTATAACAAGGTCAATGGGGTTACTCGT
*
43769951 CAATATTGATTATTAAATCTAAACATACAATATCATGTTTCCATCCATTTGGCTAAATTTGCCTA
1 CAATATTGATTATTAAATCTAAACATACAATATCATGTTCCCATCCATTTGGCTAAATTTGCCTA
* *
43770016 AGCACATACATTTAATCAAACATGTCAGTC-CCTGAAATCTTT-ATATAAATCAAGTAACATAAA
66 AGCACATACATTCAATCAAACATGTCAGTCACC-AAAAT-TTTCATATAAATCAAGTAACATAAA
43770079 TGAGCTCATCAAGCAATATTCTATCTAGTCATTACTATTTCATCTCAAGGTTTTCATGCCAAATC
129 TGAGCTCATCAAGCAATATTCTATCTAGTCATTACTATTTCATCTCAAGGTTTTCATGCCAAATC
*
43770144 AAGAGTTATATGTCATTTGAATCATTGAATTCCAATGAATGCTCAAGTAGTACACTCAAAGTGTA
194 AAGAGTTATATGTCATTTGAATCATTGAATTCCAATGAATCCTCAAGTAGTACAC-CAAAGTGTA
* * * *
43770209 CAATTCAACCATTCTTCAATTTCTTAGTCAGGGGTACCCATTAGGGCACTTAGCT-AAGAAGCAC
258 CAATTCAACCATTCATCAATTTCTTAGTCAGGGCTACCCATTAGGGCACTTA-ATAAAGAAACAC
* * *
43770273 TCTCTCGAGCCACATATCGTTTAACAGGATTACCAGTCTAGGCTAAATCCTTTATATAACGTATG
322 TATCTCGAGCCACATATCATTTAACAGGATTACCAGTCCAGGCTAAATCCTTTATATAACGTATG
* ** *
43770338 CTCAATG-AGCTAAATTAGGATTACCGGTCCAAGCTAAACCCTAATCATAACGTATGCTCGAGAG
387 CTCAAGGAAGCTAAATTAGGATTACCAATCCAAGCTAAACCCTAATCATAACGTATGCTCGAAAG
* * *
43770402 GTATTACATTAGGATTACCCATCTGGGCTAAATCCTTTTTATAACAAGGTCAATGGGGTTACT
452 GTATTACACTAGGATTACCCATCTAGGCTAAATACTTTTTATAACAAGGTCAATGGGGTTACT
43770465 TGTCCGAGCT
Statistics
Matches: 471, Mismatches: 38, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
516 2 0.00
517 334 0.71
518 134 0.28
519 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.32
Consensus pattern (517 bp):
CAATATTGATTATTAAATCTAAACATACAATATCATGTTCCCATCCATTTGGCTAAATTTGCCTA
AGCACATACATTCAATCAAACATGTCAGTCACCAAAATTTTCATATAAATCAAGTAACATAAATG
AGCTCATCAAGCAATATTCTATCTAGTCATTACTATTTCATCTCAAGGTTTTCATGCCAAATCAA
GAGTTATATGTCATTTGAATCATTGAATTCCAATGAATCCTCAAGTAGTACACCAAAGTGTACAA
TTCAACCATTCATCAATTTCTTAGTCAGGGCTACCCATTAGGGCACTTAATAAAGAAACACTATC
TCGAGCCACATATCATTTAACAGGATTACCAGTCCAGGCTAAATCCTTTATATAACGTATGCTCA
AGGAAGCTAAATTAGGATTACCAATCCAAGCTAAACCCTAATCATAACGTATGCTCGAAAGGTAT
TACACTAGGATTACCCATCTAGGCTAAATACTTTTTATAACAAGGTCAATGGGGTTACTCGT
Found at i:43770446 original size:58 final size:56
Alignment explanation
Indices: 43770298--43770446 Score: 140
Period size: 56 Copynumber: 2.6 Consensus size: 56
43770288 ATCGTTTAAC
*
43770298 AGGATTA-CCAGTCTAGGCTAAATCCTTTATATAACGTATGCTCAATGAGCTAAATT
1 AGGATTACCCA-TCTAGGCTAAATCCTTTTTATAACGTATGCTCAATGAGCTAAATT
** * * * ** * * *
43770354 AGGATTACCGGTCCAAGCTAAACCCTAATCATAACGTATGCTCGA-GAGGTATTACATT
1 AGGATTACCCATCTAGGCTAAATCCTTTTTATAACGTATGCTCAATGAGCTA--A-ATT
*
43770412 AGGATTACCCATCTGGGCTAAATCCTTTTTATAAC
1 AGGATTACCCATCTAGGCTAAATCCTTTTTATAAC
43770447 AAGGTCAATG
Statistics
Matches: 69, Mismatches: 20, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
55 5 0.07
56 33 0.48
57 2 0.03
58 29 0.42
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (56 bp):
AGGATTACCCATCTAGGCTAAATCCTTTTTATAACGTATGCTCAATGAGCTAAATT
Found at i:43778474 original size:40 final size:40
Alignment explanation
Indices: 43778415--43778621 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
43778405 CAATTGAATG
* * * *
43778415 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * *
43778455 ATATCCGGGTTAAGACCCGAAGGCA-TTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
43778494 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
43778534 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
43778574 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
43778614 ATATCCGG
1 ATATCCGG
43778622 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 24, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
39 34 0.24
40 108 0.76
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:43778594 original size:80 final size:77
Alignment explanation
Indices: 43778416--43778621 Score: 241
Period size: 79 Copynumber: 2.6 Consensus size: 77
43778406 AATTGAATGA
* * ** * * *
43778416 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAT
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAT
*
43778481 TGTGCTAGTGAC
66 TGTGCAAGTGAC
* * *
43778493 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
*
43778558 ATTTGTGCAAGTCGTTC
64 A-TTGTGCAAGT-G-AC
* *
43778575 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
43778622 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 15, Indels: 7
0.83 0.11 0.05
Matches are distributed among these distances:
77 1 0.01
79 53 0.49
80 52 0.48
81 1 0.01
82 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (77 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAT
TGTGCAAGTGAC
Found at i:43790142 original size:17 final size:18
Alignment explanation
Indices: 43790100--43790148 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
43790090 AGTTGAAAAG
43790100 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
43790119 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
43790136 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
43790149 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:43791030 original size:40 final size:40
Alignment explanation
Indices: 43790964--43791114 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
43790954 AAATTGAATG
* * *
43790964 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
43791003 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
43791043 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
43791083 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
43791115 ACTTGATTAT
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:43791128 original size:40 final size:40
Alignment explanation
Indices: 43791000--43791130 Score: 149
Period size: 40 Copynumber: 3.3 Consensus size: 40
43790990 TATGCTGGAA
* * * *
43791000 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTG
** * *
43791040 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTT-
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-TTG
*
43791080 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACTTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-TTG
43791120 ATTATATCCGG
1 ATTATATCCGG
43791131 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
39 3 0.04
40 70 0.95
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTG
Found at i:43793745 original size:40 final size:40
Alignment explanation
Indices: 43793686--43793893 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 40
43793676 CAATTGAATG
* * * *
43793686 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * *
43793726 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * **
43793766 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
43793806 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
43793846 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
43793886 ATATCCGG
1 ATATCCGG
43793894 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
39 2 0.01
40 138 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:43793824 original size:80 final size:80
Alignment explanation
Indices: 43793687--43793893 Score: 240
Period size: 80 Copynumber: 2.6 Consensus size: 80
43793677 AATTGAATGA
* * ** * * *
43793687 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CA
*
43793752 -TTGTGCTAGT-G-AC
65 TTTGTGCAAGTCGTAC
* * *
43793765 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
*
43793830 ATTTGTGCAAGTCGTTC
64 ATTTGTGCAAGTCGTAC
* *
43793847 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
43793894 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
78 1 0.01
79 2 0.02
80 103 0.94
81 1 0.01
82 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAT
TTGTGCAAGTCGTAC
Found at i:43796705 original size:226 final size:226
Alignment explanation
Indices: 43796311--43796769 Score: 893
Period size: 226 Copynumber: 2.0 Consensus size: 226
43796301 GAAATTAAAC
*
43796311 TTGCCAATATTGATTATTTAATCTAAACATACAATATCATGTTTCCATCCATTTGGCTAAATTTT
1 TTGCCAATATTGATTATTAAATCTAAACATACAATATCATGTTTCCATCCATTTGGCTAAATTTT
43796376 CCTAAGCACATACATTTAATCAAACATGTCAGTCACTGAAATCTTTATATAAATCAAGTAACATA
66 CCTAAGCACATACATTTAATCAAACATGTCAGTCACTGAAATCTTTATATAAATCAAGTAACATA
43796441 AATGAGCTCATCAAGCAATATTCTATCTAGTCATTACTATTTCATCTCAAGGTTTTCATGCCAAA
131 AATGAGCTCATCAAGCAATATTCTATCTAGTCATTACTATTTCATCTCAAGGTTTTCATGCCAAA
43796506 TCAAGAGTTATATGTCATTTGAATCATTGAA
196 TCAAGAGTTATATGTCATTTGAATCATTGAA
43796537 TTGCCAATATTGATTATTAAATCTAAACATACAATATCATGTTTCCATCCATTTGGCTAAATTTT
1 TTGCCAATATTGATTATTAAATCTAAACATACAATATCATGTTTCCATCCATTTGGCTAAATTTT
43796602 CCTAAGCACATACATTTAATCAAACATGTCAGTCACTGAAATCTTTATATAAATCAAGTAACATA
66 CCTAAGCACATACATTTAATCAAACATGTCAGTCACTGAAATCTTTATATAAATCAAGTAACATA
43796667 AATGAGCTCATCAAGCAATATTCTATCTAGTCATTACTATTTCATCTCAAGGTTTTCATGCCAAA
131 AATGAGCTCATCAAGCAATATTCTATCTAGTCATTACTATTTCATCTCAAGGTTTTCATGCCAAA
*
43796732 TCAAGAGTTATATGTCATTTGAATCATTTAA
196 TCAAGAGTTATATGTCATTTGAATCATTGAA
43796763 TT-CCAAT
1 TTGCCAAT
43796770 GAATGCTCAA
Statistics
Matches: 231, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
225 5 0.02
226 226 0.98
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.36
Consensus pattern (226 bp):
TTGCCAATATTGATTATTAAATCTAAACATACAATATCATGTTTCCATCCATTTGGCTAAATTTT
CCTAAGCACATACATTTAATCAAACATGTCAGTCACTGAAATCTTTATATAAATCAAGTAACATA
AATGAGCTCATCAAGCAATATTCTATCTAGTCATTACTATTTCATCTCAAGGTTTTCATGCCAAA
TCAAGAGTTATATGTCATTTGAATCATTGAA
Found at i:43796955 original size:56 final size:58
Alignment explanation
Indices: 43796888--43797036 Score: 175
Period size: 56 Copynumber: 2.6 Consensus size: 58
43796878 ATCGTTTAAC
43796888 AGGATTACCAGTCTAGGCTAAATCCTTTATATAACGTATGCTC-AG-GG-AGTT-CAATT
1 AGGATTACCAGTCTAGGCTAAATCCTTTATATAACGTATGCTCGAGAGGTA-TTAC-ATT
* * *
43796944 AGGATTACCAGTCCAGGCTAAA-CCCTAATCATAACGTATGCTCGAGAGGTATTACATT
1 AGGATTACCAGTCTAGGCTAAATCCTTTAT-ATAACGTATGCTCGAGAGGTATTACATT
* *
43797002 AGGATTACCCA-TCTGGGCTAAATCCTTTTTATAAC
1 AGGATTA-CCAGTCTAGGCTAAATCCTTTATATAAC
43797037 AAGGTCAATA
Statistics
Matches: 78, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
55 5 0.06
56 34 0.44
57 2 0.03
58 28 0.36
59 9 0.12
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (58 bp):
AGGATTACCAGTCTAGGCTAAATCCTTTATATAACGTATGCTCGAGAGGTATTACATT
Found at i:43798703 original size:24 final size:24
Alignment explanation
Indices: 43798674--43798726 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
43798664 ACTACATAAG
43798674 GAAATAACAAAGAT-TGTATGCTAA
1 GAAATAACAAAGATAT-TATGCTAA
*
43798698 GAAATAACAAATATATTATGCTAA
1 GAAATAACAAAGATATTATGCTAA
*
43798722 TAAAT
1 GAAAT
43798727 TTTAAATCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 25 0.96
25 1 0.04
ACGTcount: A:0.53, C:0.08, G:0.11, T:0.28
Consensus pattern (24 bp):
GAAATAACAAAGATATTATGCTAA
Found at i:43798879 original size:18 final size:18
Alignment explanation
Indices: 43798833--43798896 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 18
43798823 CACTTCTTGT
* * *
43798833 GAGTCCGCCAATATTGTA
1 GAGTTCGCCAATATGGAA
** *
43798851 GAGTTTACCAATATTGGAT
1 GAGTTCGCCAATA-TGGAA
43798870 GA-TTCGCCAATATGGAA
1 GAGTTCGCCAATATGGAA
43798887 GAGTTCGCCA
1 GAGTTCGCCA
43798897 GGTTCAGTCC
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
17 6 0.17
18 25 0.71
19 4 0.11
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (18 bp):
GAGTTCGCCAATATGGAA
Found at i:43817508 original size:71 final size:71
Alignment explanation
Indices: 43817422--43817585 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
43817412 CGATTTGTCT
43817422 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
43817487 CTTTCA
66 CTTTCA
43817493 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
43817558 CTTTCA
66 CTTTCA
43817564 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
43817586 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:43817623 original size:71 final size:70
Alignment explanation
Indices: 43817422--43817619 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
43817412 CGATTTGTCT
* * * *
43817422 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
43817487 CTTTCA
65 CTTTCA
* * * *
43817493 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
43817558 CTTTCA
65 CTTTCA
* *
43817564 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
43817620 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:43821497 original size:29 final size:29
Alignment explanation
Indices: 43821463--43821540 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
43821453 GTGACGAGAT
* *
43821463 CGGCACTAAGTGTGCGTGCTGGAAATATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
* *
43821492 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
**
43821521 CGGCACTGGGTGTGCGAGCT
1 CGGCACTAAGTGTGCGAGCT
43821541 CGGAGGGTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.18, G:0.33, T:0.22
Consensus pattern (29 bp):
CGGCACTAAGTGTGCGAGCTGGAAAAATA
Found at i:43830240 original size:44 final size:43
Alignment explanation
Indices: 43830185--43830350 Score: 144
Period size: 44 Copynumber: 3.9 Consensus size: 43
43830175 TTCTGATATC
*
43830185 TGTTCTGCATGTAAGACCACGTCTGAGACATTGGCATCGATTT
1 TGTTTTGCATGTAAGACCACGTCTGAGACATTGGCATCGATTT
* * *
43830228 ATGTTTTGCATGTAAGACCATGTCTGGGACATTGGCATCG-TATC
1 -TGTTTTGCATGTAAGACCACGTCTGAGACATTGGCATCGAT-TT
* * * *
43830272 TGATTT-CGTGTAAGACC-CTATCT-AGGACAGTGGCATCGATATT
1 TGTTTTGCATGTAAGACCAC-GTCTGA-GACATTGGCATCGAT-TT
* * * *
43830315 TG-ATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTTTTGCATGTAAGACCACGTCTGAGACATTGGCAT
43830351 TGTATATGTT
Statistics
Matches: 98, Mismatches: 17, Indels: 15
0.75 0.13 0.12
Matches are distributed among these distances:
42 27 0.28
43 33 0.34
44 38 0.39
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (43 bp):
TGTTTTGCATGTAAGACCACGTCTGAGACATTGGCATCGATTT
Found at i:43830300 original size:42 final size:43
Alignment explanation
Indices: 43830192--43830358 Score: 142
Period size: 43 Copynumber: 3.9 Consensus size: 43
43830182 ATCTGTTCTG
** * *
43830192 CATGTAAGACCACGTCT-GAGACATTGGCATCGATTTATGTTTT
1 CATGTAAGACCATATCTAG-GACATTGGCATCGATATATGATTT
* * *
43830235 GCATGTAAGACCATGTCTGGGACATTGGCATCG-TATCTGATTT
1 -CATGTAAGACCATATCTAGGACATTGGCATCGATATATGATTT
* * * * *
43830278 CGTGTAAGACCCTATCTAGGACAGTGGCATCGATATTTGATTA
1 CATGTAAGACCATATCTAGGACATTGGCATCGATATATGATTT
** * * *
43830321 CATGTAAGACCACGTCTGGGACGTTGGCATTG-TATATG
1 CATGTAAGACCATATCTAGGACATTGGCATCGATATATG
43830359 TTTTTTTATC
Statistics
Matches: 101, Mismatches: 20, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
42 32 0.32
43 39 0.39
44 29 0.29
45 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (43 bp):
CATGTAAGACCATATCTAGGACATTGGCATCGATATATGATTT
Found at i:43830330 original size:43 final size:42
Alignment explanation
Indices: 43830236--43830332 Score: 122
Period size: 42 Copynumber: 2.3 Consensus size: 42
43830226 TTATGTTTTG
* * * *
43830236 CATGTAAGACCATGTCTGGGACATTGGCATCGTATCTGATTT
1 CATGTAAGACCATATCTAGGACAGTGGCATCGTATCTGATTA
* * *
43830278 CGTGTAAGACCCTATCTAGGACAGTGGCATCGATATTTGATTA
1 CATGTAAGACCATATCTAGGACAGTGGCATCG-TATCTGATTA
43830321 CATGTAAGACCA
1 CATGTAAGACCA
43830333 CGTCTGGGAC
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
42 27 0.60
43 18 0.40
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.30
Consensus pattern (42 bp):
CATGTAAGACCATATCTAGGACAGTGGCATCGTATCTGATTA
Found at i:43832044 original size:126 final size:126
Alignment explanation
Indices: 43831797--43832043 Score: 424
Period size: 127 Copynumber: 2.0 Consensus size: 126
43831787 TGTGTTTACT
* *
43831797 TAAACAATTAATTAATTTTTTTAAATTTCTAAAAATTATAGAATATTATTATAATTTTAGTATTA
1 TAAACAATTAATTAATTTTTTTAAATTTCTAAAAATTATAAAATATTATTATAATTTTAGTACTA
*
43831862 AATAAATTTTACACTTTTTAAAATTTTTGATAATTGTTAAGTTTTTAGATTTTTTTATAGG
66 AATAAAGTTTACACTTTTTAAAATTTTTGATAATTGTTAAGTTTTTAGATTTTTTTATAGG
*
43831923 TAAACAATTAATTAATTTTTTTAAATTTCTAAAGATTATAAAATATTATTATAATTTTTAGTACT
1 TAAACAATTAATTAATTTTTTTAAATTTCTAAAAATTATAAAATATTATTATAA-TTTTAGTACT
*
43831988 AAATAAAGTTTACACTTTTTTAAAA-TTTTGATAATTTTTAAGTTTTTAGATTTTTT
65 AAATAAAGTTTACAC-TTTTTAAAATTTTTGATAATTGTTAAGTTTTTAGATTTTTT
43832044 AAAAAAATTA
Statistics
Matches: 114, Mismatches: 5, Indels: 3
0.93 0.04 0.02
Matches are distributed among these distances:
126 52 0.46
127 53 0.46
128 9 0.08
ACGTcount: A:0.39, C:0.04, G:0.06, T:0.52
Consensus pattern (126 bp):
TAAACAATTAATTAATTTTTTTAAATTTCTAAAAATTATAAAATATTATTATAATTTTAGTACTA
AATAAAGTTTACACTTTTTAAAATTTTTGATAATTGTTAAGTTTTTAGATTTTTTTATAGG
Found at i:43836825 original size:33 final size:33
Alignment explanation
Indices: 43836782--43836918 Score: 122
Period size: 33 Copynumber: 4.3 Consensus size: 33
43836772 ACAATGCATG
*
43836782 CAGTAACAGTCTGGGCCTAAGCCCTATCCAGTAT
1 CAGT-ACAGTCTGGGCCTAAGCCCTATACAGTAT
* * *
43836816 CAGTACAGTCTAGGCCTTAGCCCTATACAGTAA
1 CAGTACAGTCTGGGCCTAAGCCCTATACAGTAT
** * * *
43836849 CAAAACAGTCTGGGCTTTAGCCTTATACAG--T
1 CAGTACAGTCTGGGCCTAAGCCCTATACAGTAT
* *
43836880 -A--ACAGTGTGGGCCTAAGCCCAATACAGTAT
1 CAGTACAGTCTGGGCCTAAGCCCTATACAGTAT
*
43836910 CAATACAGT
1 CAGTACAGT
43836919 GTAATGTAAT
Statistics
Matches: 83, Mismatches: 15, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
28 21 0.25
30 2 0.02
31 1 0.01
33 55 0.66
34 4 0.05
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.24
Consensus pattern (33 bp):
CAGTACAGTCTGGGCCTAAGCCCTATACAGTAT
Found at i:43837127 original size:27 final size:26
Alignment explanation
Indices: 43837056--43837154 Score: 94
Period size: 27 Copynumber: 3.8 Consensus size: 26
43837046 GATAATGCAA
* * *
43837056 CATAGCTACCAGAAATAGTAAATGTGG
1 CATAGCCACCAGTAACAGT-AATGTGG
*
43837083 CA-AGCCACCAGTATCAGTAATTGTGG
1 CATAGCCACCAGTAACAGTAA-TGTGG
* *
43837109 CATAGCCACCAGTAACAGTGAATATGA
1 CATAGCCACCAGTAACAGT-AATGTGG
*
43837136 CATAGTCACCAGT-ACAGTA
1 CATAGCCACCAGTAACAGTA
43837155 CTTCCTCCAT
Statistics
Matches: 61, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
25 3 0.05
26 24 0.39
27 32 0.52
28 2 0.03
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.21
Consensus pattern (26 bp):
CATAGCCACCAGTAACAGTAATGTGG
Found at i:43837320 original size:27 final size:27
Alignment explanation
Indices: 43837290--43837433 Score: 182
Period size: 27 Copynumber: 5.4 Consensus size: 27
43837280 GGGCATAATC
*
43837290 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
*
43837317 GTCATTTTACCCTACAAGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* * *
43837344 ATCATTTTACCCTACAGGGGCATTACA
1 GTCATTTTACCCTACAGGGGTATTACG
* * *
43837371 GACATTTTACCCTATAGGAGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* **
43837398 GTCATTTTACCCTATAGGGG-ATTATA
1 GTCATTTTACCCTACAGGGGTATTACG
43837424 GTCATTTTAC
1 GTCATTTTAC
43837434 AAACCGAGGG
Statistics
Matches: 101, Mismatches: 16, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
26 14 0.14
27 87 0.86
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGTATTACG
Found at i:43837457 original size:27 final size:27
Alignment explanation
Indices: 43837427--43837627 Score: 178
Period size: 27 Copynumber: 7.4 Consensus size: 27
43837417 GATTATAGTC
*
43837427 ATTTTACAAACCGAGGGTATTTCGATA
1 ATTTTACAAATCGAGGGTATTTCGATA
* * *
43837454 ATTTTACAAAT-TAGGGGTATTTTGGTA
1 ATTTTACAAATCGA-GGGTATTTCGATA
* * * *
43837481 ATTTCACAAATCAAGGGTATTTTGGTA
1 ATTTTACAAATCGAGGGTATTTCGATA
** * * *
43837508 ATTTTACAACCCAAGAGTATTT-TAGTA
1 ATTTTACAAATCGAGGGTATTTCGA-TA
* * *
43837535 ATTTCACAAAGTAG-GGGTATTTTGATA
1 ATTTTACAAA-TCGAGGGTATTTCGATA
43837562 ATTTTACAAATCGAGGGTATTTCGATA
1 ATTTTACAAATCGAGGGTATTTCGATA
43837589 ATTTTACAAATC-AGGGGTATTTC-AGTA
1 ATTTTACAAATCGA-GGGTATTTCGA-TA
43837616 ATTTTACAAATC
1 ATTTTACAAATC
43837628 AAGGTCCTAA
Statistics
Matches: 144, Mismatches: 22, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
26 5 0.03
27 137 0.95
28 2 0.01
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (27 bp):
ATTTTACAAATCGAGGGTATTTCGATA
Found at i:43837537 original size:81 final size:81
Alignment explanation
Indices: 43837427--43837626 Score: 258
Period size: 81 Copynumber: 2.5 Consensus size: 81
43837417 GATTATAGTC
* * *
43837427 ATTTTACAAACCGAGGGTATTTC-GATAATTTTACAAATTAGGGGTATTTTGGTAATTTCACAAA
1 ATTTTACAAACCAAGAGTATTTCAG-TAATTTTACAAATTAGGGGTATTTTGATAATTTCACAAA
* *
43837491 TCAAGGGTATTTTGGTA
65 TCAAGGGTATTTCGATA
* * * * *
43837508 ATTTTACAACCCAAGAGTATTTTAGTAATTTCACAAAGTAGGGGTATTTTGATAATTTTACAAAT
1 ATTTTACAAACCAAGAGTATTTCAGTAATTTTACAAATTAGGGGTATTTTGATAATTTCACAAAT
*
43837573 CGAGGGTATTTCGATA
66 CAAGGGTATTTCGATA
* * *
43837589 ATTTTACAAATCAGGGGTATTTCAGTAATTTTACAAAT
1 ATTTTACAAACCAAGAGTATTTCAGTAATTTTACAAAT
43837627 CAAGGTCCTA
Statistics
Matches: 100, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
81 99 0.99
82 1 0.01
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.38
Consensus pattern (81 bp):
ATTTTACAAACCAAGAGTATTTCAGTAATTTTACAAATTAGGGGTATTTTGATAATTTCACAAAT
CAAGGGTATTTCGATA
Found at i:43837627 original size:54 final size:53
Alignment explanation
Indices: 43837441--43837631 Score: 206
Period size: 54 Copynumber: 3.5 Consensus size: 53
43837431 TACAAACCGA
* * * *
43837441 GGGTATTTCGATAATTTTACAAATTAGGGGTATTTTGGTAATTTCACAAATCAA
1 GGGTATTTCGATAATTTTACAAATCAAGGGTA-TTTGATAATTTCACAAATCAG
* * ** * *
43837495 GGGTATTTTGGTAATTTTACAACCCAAGAGTATTTTAGTAATTTCACAAAGT-AG
1 GGGTATTTCGATAATTTTACAAATCAAGGGTATTTGA-TAATTTCACAAA-TCAG
* * *
43837549 GGGTATTTTGATAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAATCAG
1 GGGTATTTCGATAATTTTACAAATCAAGGGTATTT-GATAATTTCACAAATCAG
43837603 GGGTATTTC-AGTAATTTTACAAATCAAGG
1 GGGTATTTCGA-TAATTTTACAAATCAAGG
43837632 TCCTAACGAC
Statistics
Matches: 113, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
53 5 0.04
54 106 0.94
55 2 0.02
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.38
Consensus pattern (53 bp):
GGGTATTTCGATAATTTTACAAATCAAGGGTATTTGATAATTTCACAAATCAG
Found at i:43841644 original size:33 final size:33
Alignment explanation
Indices: 43841593--43841692 Score: 112
Period size: 33 Copynumber: 3.0 Consensus size: 33
43841583 GCATGTAGTA
* * *
43841593 ACAGTCTAA-GCCTGAGCCCTATCCAATATCAGT
1 ACAGTC-AAGGCCTTAGCCCTATACAATAACAGT
* *
43841626 ACAGTCAAGGCCTTAGCCCTATACAGTAACAGA
1 ACAGTCAAGGCCTTAGCCCTATACAATAACAGT
** *
43841659 ACAGTCTGGGCTTTAGCCCTATACAATAACAGT
1 ACAGTCAAGGCCTTAGCCCTATACAATAACAGT
43841692 A
1 A
43841693 TGGGCCTAAG
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
32 2 0.04
33 54 0.96
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (33 bp):
ACAGTCAAGGCCTTAGCCCTATACAATAACAGT
Found at i:43841704 original size:28 final size:28
Alignment explanation
Indices: 43841658--43841711 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
43841648 ACAGTAACAG
* * * *
43841658 AACAGTCTGGGCTTTAGCCCTATACAAT
1 AACAGTATGGGCCTAAGCCCAATACAAT
43841686 AACAGTATGGGCCTAAGCCCAATACA
1 AACAGTATGGGCCTAAGCCCAATACA
43841712 TTATTAGTAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (28 bp):
AACAGTATGGGCCTAAGCCCAATACAAT
Found at i:43841933 original size:27 final size:27
Alignment explanation
Indices: 43841861--43841938 Score: 68
Period size: 26 Copynumber: 2.9 Consensus size: 27
43841851 TAATAATGTA
** * * *
43841861 GCATAGCTTCCAGAAACAGTAAATGTG
1 GCATAGCCACCAGTAACAGTAATTGCG
** *
43841888 GCA-AGCCACTGGTATCAGTAATTGCG
1 GCATAGCCACCAGTAACAGTAATTGCG
43841914 GCATAGCCACCAGTAACAGTGAATT
1 GCATAGCCACCAGTAACAGT-AATT
43841939 TGACATAGTC
Statistics
Matches: 38, Mismatches: 11, Indels: 3
0.73 0.21 0.06
Matches are distributed among these distances:
26 18 0.47
27 16 0.42
28 4 0.11
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.22
Consensus pattern (27 bp):
GCATAGCCACCAGTAACAGTAATTGCG
Found at i:43842293 original size:27 final size:27
Alignment explanation
Indices: 43842096--43842282 Score: 275
Period size: 27 Copynumber: 6.9 Consensus size: 27
43842086 GGGCATAATC
*
43842096 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* *
43842123 GTCATTTTACCCTACAGAGGTATTACA
1 GTCATTTTACCCTACAGGGGTATTACG
* *
43842150 GTCATTTTACCCTACAGGGGCATTATG
1 GTCATTTTACCCTACAGGGGTATTACG
*
43842177 GTCATTTTACCCTACAAGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* *
43842204 GTCATTTTACCCTATAGGGGTGTTACG
1 GTCATTTTACCCTACAGGGGTATTACG
*
43842231 GTCATTTTACCCTACATGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* *
43842258 GTCATTTTATCTTACAGGGGTATTA
1 GTCATTTTACCCTACAGGGGTATTA
43842283 TGATAATTTT
Statistics
Matches: 141, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 141 1.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGTATTACG
Found at i:43842304 original size:27 final size:26
Alignment explanation
Indices: 43842273--43842439 Score: 149
Period size: 27 Copynumber: 6.2 Consensus size: 26
43842263 TTTATCTTAC
43842273 AGGGGTATTAT-GATAATTTTACAAACT
1 AGGGGTATT-TCGATAATTTTACAAA-T
* * * **
43842300 GGGGGTATTTCGGTACTTTTACAACCC
1 AGGGGTATTTCGATAATTTTACAA-AT
*
43842327 AAGGGTATTTCGATAATTTTACAAAT
1 AGGGGTATTTCGATAATTTTACAAAT
* * *
43842353 CAGAGGTATTTTGGTAATTTTACAAAT
1 -AGGGGTATTTCGATAATTTTACAAAT
* *
43842380 CGAGGGTATTTC-AGTAATTTCACAAATT
1 AG-GGGTATTTCGA-TAATTTTACAAA-T
43842408 AGGGGTATTTCGATAATTTTACAAAT
1 AGGGGTATTTCGATAATTTTACAAAT
*
43842434 TGGGGT
1 AGGGGT
43842440 CTTAACGACC
Statistics
Matches: 110, Mismatches: 23, Indels: 15
0.74 0.16 0.10
Matches are distributed among these distances:
26 8 0.07
27 99 0.90
28 3 0.03
ACGTcount: A:0.31, C:0.11, G:0.21, T:0.37
Consensus pattern (26 bp):
AGGGGTATTTCGATAATTTTACAAAT
Found at i:43842320 original size:81 final size:81
Alignment explanation
Indices: 43842096--43842321 Score: 213
Period size: 81 Copynumber: 2.8 Consensus size: 81
43842086 GGGCATAATC
* * * * ** * * *
43842096 GTCATTTTACCATACAGGGGTATTACGGTCATTTTACCCTACAGAGGTATTACAGTCATTTTACC
1 GTCATTTTACCCTACAAGGGTATTACGATAATTTTACCAAATAGGGGTATTACGGTCATTTTACC
*
43842161 CTACAGGGGCATTATG
66 CTACAGGGGCATTACG
* * ** *
43842177 GTCATTTTACCCTACAAGGGTATTACGGTCATTTTACCCTATAGGGGTGTTACGGTCATTTTACC
1 GTCATTTTACCCTACAAGGGTATTACGATAATTTTACCAAATAGGGGTATTACGGTCATTTTACC
* *
43842242 CTACATGGGTATTACG
66 CTACAGGGGCATTACG
* * * * * *
43842258 GTCATTTTATCTTACAGGGGTATTATGATAATTTTA-CAAACTGGGGGTATTTCGGT-ACTTTTA
1 GTCATTTTACCCTACAAGGGTATTACGATAATTTTACCAAA-TAGGGGTATTACGGTCA-TTTTA
43842321 C
64 C
43842322 AACCCAAGGG
Statistics
Matches: 123, Mismatches: 20, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
80 3 0.02
81 120 0.98
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (81 bp):
GTCATTTTACCCTACAAGGGTATTACGATAATTTTACCAAATAGGGGTATTACGGTCATTTTACC
CTACAGGGGCATTACG
Found at i:43842346 original size:81 final size:81
Alignment explanation
Indices: 43842276--43842433 Score: 210
Period size: 81 Copynumber: 2.0 Consensus size: 81
43842266 ATCTTACAGG
* * * * *
43842276 GGTATTATGATAATTTTACAAA-CTGGGGGTATTTCGGTACTTTTACAACCCAAGGGTATTTCGA
1 GGTATTATGATAATTTTACAAATC-GAGGGTATTTCAGTAATTTCACAAACCAAGGGTATTTCGA
43842340 TAATTTTACAAATCAGA
65 TAATTTTACAAATCAGA
* * ** *
43842357 GGTATTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAAATTAGGGGTATTTCGAT
1 GGTATTATGATAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAAACCAAGGGTATTTCGAT
43842422 AATTTTACAAAT
66 AATTTTACAAAT
43842434 TGGGGTCTTA
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
81 65 0.98
82 1 0.02
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.38
Consensus pattern (81 bp):
GGTATTATGATAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAAACCAAGGGTATTTCGAT
AATTTTACAAATCAGA
Found at i:43842433 original size:54 final size:54
Alignment explanation
Indices: 43842275--43842433 Score: 187
Period size: 54 Copynumber: 2.9 Consensus size: 54
43842265 TATCTTACAG
* * * **
43842275 GGGTATTAT-GATAATTTTACAAACTGGGGGTATTTCGGTACTTTTACAACCCAA
1 GGGTATT-TCGATAATTTTACAAATTAGGGGTATTTCGGTAATTTTACAAATCAA
* * * *
43842329 GGGTATTTCGATAATTTTACAAATCAGAGGTATTTTGGTAATTTTACAAATCGA
1 GGGTATTTCGATAATTTTACAAATTAGGGGTATTTCGGTAATTTTACAAATCAA
* *
43842383 GGGTATTTC-AGTAATTTCACAAATTAGGGGTATTTCGATAATTTTACAAAT
1 GGGTATTTCGA-TAATTTTACAAATTAGGGGTATTTCGGTAATTTTACAAAT
43842434 TGGGGTCTTA
Statistics
Matches: 89, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
53 2 0.02
54 87 0.98
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (54 bp):
GGGTATTTCGATAATTTTACAAATTAGGGGTATTTCGGTAATTTTACAAATCAA
Found at i:43846907 original size:29 final size:29
Alignment explanation
Indices: 43846865--43846967 Score: 172
Period size: 29 Copynumber: 3.5 Consensus size: 29
43846855 AAAATTGTAC
43846865 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAT
43846894 AGCACTAAGTGTGC-AAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAA-CTGAAAA-TATAT
*
43846924 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAT
43846953 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
43846968 GATTCACTAT
Statistics
Matches: 70, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
28 2 0.03
29 41 0.59
30 26 0.37
31 1 0.01
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAACTGAAAATATAT
Found at i:43846930 original size:59 final size:59
Alignment explanation
Indices: 43846855--43846966 Score: 197
Period size: 59 Copynumber: 1.9 Consensus size: 59
43846845 TGCGGGTTTA
*
43846855 AAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCAAGCTG
1 AAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCAAGCTG
* *
43846914 AAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGC
1 AAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGC
43846967 GGATTCACTA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
59 50 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.25
Consensus pattern (59 bp):
AAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCAAGCTG
Found at i:43854460 original size:59 final size:60
Alignment explanation
Indices: 43854364--43854496 Score: 205
Period size: 59 Copynumber: 2.2 Consensus size: 60
43854354 GACAAGATTG
* * *
43854364 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATATA
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATA
* * *
43854424 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATA
43854483 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
43854497 GATTCACTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
59 52 0.78
60 15 0.22
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (60 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATA
Found at i:43854509 original size:29 final size:29
Alignment explanation
Indices: 43854394--43854496 Score: 188
Period size: 29 Copynumber: 3.5 Consensus size: 29
43854384 AAAATTGTAC
*
43854394 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
43854423 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTGAAAA-TATAT
43854453 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
43854482 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
43854497 GATTCACTAT
Statistics
Matches: 72, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
29 43 0.60
30 29 0.40
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:43857361 original size:46 final size:45
Alignment explanation
Indices: 43857308--43857561 Score: 216
Period size: 46 Copynumber: 5.5 Consensus size: 45
43857298 TTTTGTGCCC
43857308 GTGTAAGACATGTCTGGGACATGCATCGGCCGTATTATGATAGCCA
1 GTGTAAGACATGTCTGGGACATGCATCGGCC-TATTATGATAGCCA
* * *
43857354 GTGTAAGACCATGACTGGGACATGGCATCGG--TATTGA-GACGAGGGCTA
1 GTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTATT-ATGA-TA--GCCA
* * *
43857402 GTGTAAGACATGTCTGGGACATGCATCAG-CTACAGTATGAGAGCCA
1 GTGTAAGACATGTCTGGGACATGCATCGGCCT--ATTATGATAGCCA
* *
43857448 GTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGTTAGCCA
1 GTGTAAGACATGTCTGGGACATGCATCGGCCT--ATTATGATAGCCA
* * * * *
43857494 GTGTCAGACATGTCCGGGACATGCATCGG-CTATGA-GATGTGCTA
1 GTGTAAGACATGTCTGGGACATGCATCGGCCTATTATGAT-AGCCA
* *
43857538 GTATAAGACATGTCTAGGACATGC
1 GTGTAAGACATGTCTGGGACATGC
43857562 GTCAGTACGG
Statistics
Matches: 173, Mismatches: 22, Indels: 28
0.78 0.10 0.13
Matches are distributed among these distances:
43 3 0.02
44 25 0.14
45 8 0.05
46 82 0.47
47 30 0.17
48 21 0.12
49 4 0.02
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (45 bp):
GTGTAAGACATGTCTGGGACATGCATCGGCCTATTATGATAGCCA
Found at i:43857425 original size:94 final size:92
Alignment explanation
Indices: 43857308--43857523 Score: 261
Period size: 94 Copynumber: 2.3 Consensus size: 92
43857298 TTTTGTGCCC
** * *
43857308 GTGTAAGACATGTCTGGGACATGCATCGGCCGTATTATGATAGCCAGTGTAAGACCATGACTGGG
1 GTGTAAGACATGTCTGGGACATGCATCGGCCACAGTATGAGAGCCAGTGTAAGA-CATGACTGGG
* * * *
43857373 ACATGGCATCGGTATTGAGACGAGGGCTA
65 ACAT-GCATCGGCATCGAGACGAGAGCCA
* * *
43857402 GTGTAAGACATGTCTGGGACATGCATCAGCTACAGTATGAGAGCCAGTGTAAGACATGTCTGGGA
1 GTGTAAGACATGTCTGGGACATGCATCGGCCACAGTATGAGAGCCAGTGTAAGACATGACTGGGA
* * **
43857467 CATGCATCGGCCTCGAGATGTTAGCCA
66 CATGCATCGGCATCGAGACGAGAGCCA
* *
43857494 GTGTCAGACATGTCCGGGACATGCATCGGC
1 GTGTAAGACATGTCTGGGACATGCATCGGC
43857524 TATGAGATGT
Statistics
Matches: 104, Mismatches: 18, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
92 43 0.41
93 13 0.12
94 48 0.46
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (92 bp):
GTGTAAGACATGTCTGGGACATGCATCGGCCACAGTATGAGAGCCAGTGTAAGACATGACTGGGA
CATGCATCGGCATCGAGACGAGAGCCA
Found at i:43857598 original size:136 final size:139
Alignment explanation
Indices: 43857308--43857604 Score: 349
Period size: 136 Copynumber: 2.2 Consensus size: 139
43857298 TTTTGTGCCC
* *
43857308 GTGTAAGACATGTCTGGGACATGCATCGGCCGTATTATGATAGCCAGTGTAAGACCATGACTGGG
1 GTGTAAGACATGTCTGGGACATGCATCGGCCGTATGATGATAGCCAGTGTAAGACCATGACCGGG
* *
43857373 ACATGGCATCGGTATTGAGACGAGGGCTAGTGTAAGACATGTCTGGGACATGCATCAGCTACAGT
66 ACATGGCATCGGTATTGAGAC-AGGGCTAGTATAAGACATGTCTAGGACATGCATCAGCTACAGT
*
43857438 ATGAGAGCCA
130 ATCAGAGCCA
* * *
43857448 GTGTAAGACATGTCTGGGACATGCATCGGCC-TCGA-GATGTTAGCCAGTGTCAGA-CATGTCCG
1 GTGTAAGACATGTCTGGGACATGCATCGGCCGT--ATGATGATAGCCAGTGTAAGACCATGACCG
* * * *
43857510 GGACAT-GCATCGGCTA-TGAGA-TGTGCTAGTATAAGACATGTCTAGGACATGCGTCAG-TACG
64 GGACATGGCATCGG-TATTGAGACAGGGCTAGTATAAGACATGTCTAGGACATGCATCAGCTACA
* *
43857571 GT-TACATGTGTCA
128 GTAT-CA-GAGCCA
*
43857584 GTGTAAGACCTGTCTGGGACA
1 GTGTAAGACATGTCTGGGACA
43857605 CGGCATCGAC
Statistics
Matches: 137, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
134 1 0.01
135 6 0.04
136 55 0.40
138 12 0.09
139 15 0.11
140 47 0.34
141 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.24
Consensus pattern (139 bp):
GTGTAAGACATGTCTGGGACATGCATCGGCCGTATGATGATAGCCAGTGTAAGACCATGACCGGG
ACATGGCATCGGTATTGAGACAGGGCTAGTATAAGACATGTCTAGGACATGCATCAGCTACAGTA
TCAGAGCCA
Found at i:43867591 original size:13 final size:12
Alignment explanation
Indices: 43867563--43867604 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 12
43867553 CCCCTAGCAC
*
43867563 AAATCAAGC-TA
1 AAATCAAGCAAA
43867574 AAATCAAGCAAGA
1 AAATCAAGCAA-A
*
43867587 AAATCAAGGAAA
1 AAATCAAGCAAA
43867599 AAATCA
1 AAATCA
43867605 GCCACTATCC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
11 9 0.33
12 7 0.26
13 11 0.41
ACGTcount: A:0.62, C:0.14, G:0.12, T:0.12
Consensus pattern (12 bp):
AAATCAAGCAAA
Found at i:43878149 original size:27 final size:27
Alignment explanation
Indices: 43878092--43878393 Score: 246
Period size: 27 Copynumber: 10.8 Consensus size: 27
43878082 ATTATTGAAA
* ** ***
43878092 TACCCTCGACTTGTAAAATTACCAAAG
1 TACCCTCGATTTACAAAATTACCATTT
* * *
43878119 TACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCATTT
* * * *
43878146 TACCCTCGATTTATAGAAGTACCGTTT
1 TACCCTCGATTTACAAAATTACCATTT
*
43878173 TACCCTTGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
* *
43878200 TATCCTTGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
*
43878227 TACCCTCGATTTACATAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
* *
43878254 TACCC-CGTTTTACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCG-ATT----T--AC--A-A-AATTACCATTT
* *
43878291 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTACCATTT
* * * *
43878318 TACCGTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACCATTT
* * *
43878345 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACCATTT
43878372 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAAAATTAC
43878394 AGAAATACCC
Statistics
Matches: 225, Mismatches: 38, Indels: 24
0.78 0.13 0.08
Matches are distributed among these distances:
26 2 0.01
27 195 0.87
28 1 0.00
29 1 0.00
31 3 0.01
33 3 0.01
35 1 0.00
37 17 0.08
38 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.38
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCATTT
Found at i:43878177 original size:54 final size:54
Alignment explanation
Indices: 43878119--43878393 Score: 271
Period size: 54 Copynumber: 4.9 Consensus size: 54
43878109 ATTACCAAAG
* * * * *
43878119 TACCCCCGATTTACATAATTACCGTTTTACCCTCGATTTATAGAAGTACCGTTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACCATTT
* * * * *
43878173 TACCCTTGATTTACAAAATTACCATTTTATCCTTGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACCATTT
* *
43878227 TACCCTCGATTTACATAATTACCATTTTACCCCGTTTTACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTAC--AA--A--A--TTA--CCGTTTTACCCTCGATTTACAGAATTACCATTT
* * * *
43878291 TACCCTCGATTTACAAAATTATCGTTTTACCGTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACCATTT
* * ** *
43878345 TACCCTTGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTAC
43878394 AGAAATACCC
Statistics
Matches: 180, Mismatches: 31, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
54 125 0.69
56 5 0.03
58 2 0.01
60 2 0.01
62 5 0.03
64 41 0.23
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.40
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACCATTT
Found at i:43878266 original size:37 final size:38
Alignment explanation
Indices: 43878224--43878304 Score: 119
Period size: 37 Copynumber: 2.2 Consensus size: 38
43878214 AAAATTACCA
* *
43878224 TTTTACCCTCGATTTACATAATTACCATTTTACCC-CG
1 TTTTACCCTCGACTTACAGAATTACCATTTTACCCTCG
*
43878261 TTTTACCCTCGACTTACAGAATTACCGTTTTACCCTCG
1 TTTTACCCTCGACTTACAGAATTACCATTTTACCCTCG
*
43878299 ATTTAC
1 TTTTAC
43878305 AAAATTATCG
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
37 32 0.82
38 7 0.18
ACGTcount: A:0.23, C:0.30, G:0.07, T:0.40
Consensus pattern (38 bp):
TTTTACCCTCGACTTACAGAATTACCATTTTACCCTCG
Found at i:43878327 original size:91 final size:91
Alignment explanation
Indices: 43878167--43878349 Score: 258
Period size: 91 Copynumber: 2.0 Consensus size: 91
43878157 TATAGAAGTA
* * * *
43878167 CCGTTTTACCCTTGATTTACAAAATTACCATTTTATCCTTGATTTACAAAATTACCATTTTACCC
1 CCGTTTTACCCTCGACTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACCATTTTACCC
*
43878232 TCGATTTACATAATTACCATTTTACC
66 TCGATTTACAGAATTACCATTTTACC
* * * * *
43878258 CCGTTTTACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTATCGTTTTACCG
1 CCGTTTTACCCTCGACTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACCATTTTACCC
* *
43878323 TCGATTTATAGAATTACTATTTTACC
66 TCGATTTACAGAATTACCATTTTACC
43878349 C
1 C
43878350 TTGATTTACA
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
91 80 1.00
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.40
Consensus pattern (91 bp):
CCGTTTTACCCTCGACTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACCATTTTACCC
TCGATTTACAGAATTACCATTTTACC
Found at i:43878348 original size:118 final size:118
Alignment explanation
Indices: 43878140--43878385 Score: 341
Period size: 118 Copynumber: 2.1 Consensus size: 118
43878130 TACATAATTA
* * *
43878140 CCGTTTTACCCTCGATTTATAGAAGTACCGTTTTACCCTTGATTTACAAAATTACCATTTTATCC
1 CCGTTTTACCCTCGACTTACAGAAGTACCGTTTTACCCTCGATTTACAAAATTACCATTTTATCC
* *
43878205 TTGATTTACAAAATTACCATTTTACCCTCGATTTACATAATTACCATTTTACC
66 TCGATTTACAAAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACC
* * *
43878258 CCGTTTTACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTATCGTTTTA-CC
1 CCGTTTTACCCTCGACTTACAGAAGTACCGTTTTACCCTCGATTTACAAAATTACCATTTTATCC
* * * * *
43878322 GTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACTATTTTACC
66 -TCGATTTACAAAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACC
*
43878376 CTCGATTTAC
1 C-CGTTTTAC
43878386 AAAATTACAG
Statistics
Matches: 112, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
117 2 0.02
118 103 0.92
119 7 0.06
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.41
Consensus pattern (118 bp):
CCGTTTTACCCTCGACTTACAGAAGTACCGTTTTACCCTCGATTTACAAAATTACCATTTTATCC
TCGATTTACAAAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACC
Found at i:43878381 original size:145 final size:145
Alignment explanation
Indices: 43878119--43878393 Score: 406
Period size: 145 Copynumber: 1.9 Consensus size: 145
43878109 ATTACCAAAG
* * * * *
43878119 TACCCCCGATTTACATAATTACCGTTTTACCCTCGATTTATAGAAGTACCGTTTTACCCTTGATT
1 TACCCCCGACTTACAGAATTACCGTTTTACCCTCGATTTACAAAAGTACCGTTTTACCCTCGATT
* *
43878184 TACAAAATTACCATTTTATCCTTGATTTACAAAATTACCATTTTACCCTCGATTTACATAATTAC
66 TACAAAATTACCATTTTACCCTTGATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTAC
43878249 CATTTTACCCCGTTT
131 CATTTTACCCCGTTT
* * * *
43878264 TACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTATCGTTTTACCGTCGATT
1 TACCCCCGACTTACAGAATTACCGTTTTACCCTCGATTTACAAAAGTACCGTTTTACCCTCGATT
* * * * *
43878329 TATAGAATTACTATTTTACCCTTGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTAC
66 TACAAAATTACCATTTTACCCTTGATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTAC
43878394 AGAAATACCC
Statistics
Matches: 114, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
145 114 1.00
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.40
Consensus pattern (145 bp):
TACCCCCGACTTACAGAATTACCGTTTTACCCTCGATTTACAAAAGTACCGTTTTACCCTCGATT
TACAAAATTACCATTTTACCCTTGATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTAC
CATTTTACCCCGTTT
Found at i:43878402 original size:27 final size:26
Alignment explanation
Indices: 43878291--43878594 Score: 94
Period size: 27 Copynumber: 11.2 Consensus size: 26
43878281 ATTACCGTTT
****
43878291 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTA-CAAAA
* * * ***
43878318 TACCGTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTAC-AAAA
* * ***
43878345 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTAC-AAAA
43878372 TACCCTCGATTTACAAAATTACAGAAA
1 TACCCTCGATTTACAAAATTACA-AAA
* **
43878399 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTA-CAAAA
* **
43878426 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTACAAAATTA-CAAAA
* *** *
43878453 TACCACTAG-TTTGTGAAATTACCGAAA
1 TACC-CTCGATTTACAAAATTA-CAAAA
* **
43878480 TACCCTCAATTTTTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTA-CAAAA
* **
43878507 TACCC-CTAATTTACAAGGTTACAAAA
1 TACCCTC-GATTTACAAAATTACAAAA
* *
43878533 TACCCTTGACTTT-CTAAAAATTATAGAAA
1 TACCCTCGA-TTTAC--AAAATTACA-AAA
* * * *
43878562 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGATTTACAAAATTAC-AAAA
43878589 TACCCT
1 TACCCT
43878595 TGGTTTGTAG
Statistics
Matches: 223, Mismatches: 39, Indels: 30
0.76 0.13 0.10
Matches are distributed among these distances:
26 19 0.09
27 181 0.81
28 12 0.05
29 11 0.05
ACGTcount: A:0.38, C:0.20, G:0.08, T:0.34
Consensus pattern (26 bp):
TACCCTCGATTTACAAAATTACAAAA
Found at i:43878419 original size:81 final size:81
Alignment explanation
Indices: 43878261--43878420 Score: 205
Period size: 81 Copynumber: 2.0 Consensus size: 81
43878251 TTTTACCCCG
* *** * *
43878261 TTTTACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTATCGTTTTACCGTCG
1 TTTTACCCTCGACTTACAGAATTACCATTTTACCCTCGATTTACAAAATTATCGAAATACCCTCA
*
43878326 ATTTATAGAATTACTA
66 ATTTATAAAATTACTA
* * *
43878342 TTTTACCCTTGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTA-CAGAAATACCCTC
1 TTTTACCCTCGACTTACAGAATTACCATTTTACCCTCGATTTACAAAATTATC-GAAATACCCTC
*
43878406 AATTTGTAAAATTAC
65 AATTTATAAAATTAC
43878421 CAAAATACCC
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
80 1 0.01
81 66 0.99
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.39
Consensus pattern (81 bp):
TTTTACCCTCGACTTACAGAATTACCATTTTACCCTCGATTTACAAAATTATCGAAATACCCTCA
ATTTATAAAATTACTA
Found at i:43878430 original size:54 final size:53
Alignment explanation
Indices: 43878372--43878518 Score: 163
Period size: 54 Copynumber: 2.7 Consensus size: 53
43878362 ATTACTATTT
* *
43878372 TACCCTCGATTTACAAAATTA-CAGAAATACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCAATTTATAAAATTACCA-AAATACCCT-AATTTGTAAAATTACCAAAA
* * * * *
43878426 TACCC-CTAGTTTGTAAAATTACCAAAATACCACTAGTTTGTGAAATTACCGAAA
1 TACCCTC-AATTTATAAAATTACCAAAATACC-CTAATTTGTAAAATTACCAAAA
*
43878480 TACCCTCAATTTTTAAAATTACCAAAATACCCCTAATTT
1 TACCCTCAATTTATAAAATTACCAAAATA-CCCTAATTT
43878519 ACAAGGTTAC
Statistics
Matches: 78, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
53 1 0.01
54 70 0.90
55 7 0.09
ACGTcount: A:0.41, C:0.22, G:0.06, T:0.31
Consensus pattern (53 bp):
TACCCTCAATTTATAAAATTACCAAAATACCCTAATTTGTAAAATTACCAAAA
Found at i:43878430 original size:81 final size:80
Alignment explanation
Indices: 43878264--43878521 Score: 198
Period size: 81 Copynumber: 3.2 Consensus size: 80
43878254 TACCCCGTTT
* * * *** * *
43878264 TACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTATCGTTTTACCGTCGATT
1 TACCCTTGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTA-CGAAATACCCTCAATT
* * ***
43878329 TATAGAATTACTATTT
65 TATAAAATTACCAAAA
*
43878345 TACCCTTGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTACAGAAATACCCTCAATT
1 TACCCTTGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTAC-GAAATACCCTCAATT
*
43878410 TGTAAAATTACCAAAA
65 TATAAAATTACCAAAA
* * *** * ***
43878426 TACCCCTAGTTTGTA-A-AATTACCAAAATACCACTAG-TTTGTGAAATTACCGAAATACCCTCA
1 TA-CCCTTGATT-TACAGAATTACCATTTTACC-CTCGATTTACAAAATTA-CGAAATACCCTCA
*
43878488 ATTTTTAAAATTACCAAAA
62 ATTTATAAAATTACCAAAA
* *
43878507 TACCCCTAATTTACA
1 TACCCTTGATTTACA
43878522 AGGTTACAAA
Statistics
Matches: 141, Mismatches: 30, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
79 2 0.01
80 7 0.05
81 118 0.84
82 12 0.09
83 2 0.01
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.34
Consensus pattern (80 bp):
TACCCTTGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACGAAATACCCTCAATTT
ATAAAATTACCAAAA
Found at i:43878597 original size:27 final size:27
Alignment explanation
Indices: 43878549--43878600 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
43878539 TGACTTTCTA
43878549 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
43878576 AAAATTACT-GAAATACCCTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
43878601 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:43878677 original size:27 final size:27
Alignment explanation
Indices: 43878645--43878745 Score: 116
Period size: 27 Copynumber: 3.7 Consensus size: 27
43878635 GACTAAAATA
*
43878645 CCCCTGTTA-GGTAAAAAGACCGTAAAG
1 CCCCTG-TAGGGTAAAATGACCGTAAAG
* *
43878672 CCCCTGTAGGGTAAAGTGACAGTAAAG
1 CCCCTGTAGGGTAAAATGACCGTAAAG
* *
43878699 CCCCTGTAAGGTAAAGTGACCGTAATA-
1 CCCCTGTAGGGTAAAATGACCGTAA-AG
*
43878726 CCCCTGTATGGTAAAATGAC
1 CCCCTGTAGGGTAAAATGAC
43878746 GAATATGCCC
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 2 0.03
27 62 0.95
28 1 0.02
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.21
Consensus pattern (27 bp):
CCCCTGTAGGGTAAAATGACCGTAAAG
Found at i:43879930 original size:25 final size:25
Alignment explanation
Indices: 43879901--43879948 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
43879891 TTATAATATG
* *
43879901 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
43879926 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
43879949 GTTTATACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:43880015 original size:20 final size:20
Alignment explanation
Indices: 43879992--43880075 Score: 150
Period size: 20 Copynumber: 4.2 Consensus size: 20
43879982 TAAACATGGT
43879992 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
43880012 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
43880032 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
43880052 ATGTATGATATGCACATGAG
1 ATGTATGATATGCACATGAC
43880072 ATGT
1 ATGT
43880076 TCATAAATGC
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:43880032 original size:11 final size:11
Alignment explanation
Indices: 43879996--43880070 Score: 63
Period size: 11 Copynumber: 7.4 Consensus size: 11
43879986 CATGGTATGT
43879996 ATGATATGCAC
1 ATGATATGCAC
* *
43880007 ATGACATG--T
1 ATGATATGCAC
43880016 ATGATATGCAC
1 ATGATATGCAC
*
43880027 ATGATATG--T
1 ATGATATGCAC
43880036 ATGATATGCAC
1 ATGATATGCAC
* *
43880047 ATGACATG--T
1 ATGATATGCAC
43880056 ATGATATGCAC
1 ATGATATGCAC
43880067 ATGA
1 ATGA
43880071 GATGTTCATA
Statistics
Matches: 48, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
9 22 0.46
11 26 0.54
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:43880200 original size:25 final size:24
Alignment explanation
Indices: 43880126--43880315 Score: 217
Period size: 25 Copynumber: 7.8 Consensus size: 24
43880116 AGTGCAAAAA
43880126 GGCTTATGCCCCAGTTAT-TAAAG
1 GGCTTATGCCCCAGTTATATAAAG
*
43880149 GGCTTATGCCCTAGTTAT-TAAAG
1 GGCTTATGCCCCAGTTATATAAAG
* *
43880172 GGCTTGTGCCCCAGTTGTGATAAAG
1 GGCTTATGCCCCAGTTAT-ATAAAG
*
43880197 GGCTTATGCCCCAGTTATGATGAAG
1 GGCTTATGCCCCAGTTAT-ATAAAG
*
43880222 GGCTTATGCCCCAGTTGTGATAAAG
1 GGCTTATGCCCCAGTTAT-ATAAAG
* *
43880247 GGCTTATGCCCTAGTTATAAAAAG
1 GGCTTATGCCCCAGTTATATAAAG
*
43880271 GGCTTTTGCCCCAGTTACTA-AAAG
1 GGCTTATGCCCCAGTTA-TATAAAG
*
43880295 AGGC-TAGGCCTCCAGTTATAT
1 -GGCTTATGCC-CCAGTTATAT
43880316 GATAAAGCAG
Statistics
Matches: 145, Mismatches: 16, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
23 37 0.26
24 30 0.21
25 78 0.54
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (24 bp):
GGCTTATGCCCCAGTTATATAAAG
Found at i:43880310 original size:74 final size:75
Alignment explanation
Indices: 43880121--43880311 Score: 202
Period size: 74 Copynumber: 2.6 Consensus size: 75
43880111 GAGGAAGTGC
* * * *
43880121 AAAAA-GGCTTATGCCCCAGTTAT--TAAAGGGCTTATGCCCTAGTTAT--TAAAGGGCTTGTGC
1 AAAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTAGGCCCCAGTTGTGATAAAGGGCTTATGC
*
43880181 CCCAGTTGTG
66 CCCAGTTATG
* * *
43880191 ATAAAGGGCTTATGCCCCAGTTATGATGAAGGGCTTATGCCCCAGTTGTGATAAAGGGCTTATGC
1 AAAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTAGGCCCCAGTTGTGATAAAGGGCTTATGC
*
43880256 CCTAGTTAT-
66 CCCAGTTATG
*
43880265 AAAAAGGGCTTTTGCCCCAGTTACT-A-AAAGAGGC-TAGGCCTCCAGTT
1 AAAAAGGGCTTATGCCCCAGTTA-TGATAAAG-GGCTTAGGCC-CCAGTT
43880312 ATATGATAAA
Statistics
Matches: 102, Mismatches: 11, Indels: 12
0.82 0.09 0.10
Matches are distributed among these distances:
70 4 0.04
71 18 0.18
73 28 0.27
74 31 0.30
75 21 0.21
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (75 bp):
AAAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTAGGCCCCAGTTGTGATAAAGGGCTTATGC
CCCAGTTATG
Found at i:43880541 original size:31 final size:31
Alignment explanation
Indices: 43880506--43880569 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
43880496 CGTTTACAGT
* *
43880506 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
**
43880537 AAAGGCTTCAGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
43880568 AA
1 AA
43880570 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTAATATGAAATATGA
Found at i:43883427 original size:26 final size:26
Alignment explanation
Indices: 43883398--43883532 Score: 168
Period size: 26 Copynumber: 5.2 Consensus size: 26
43883388 ATTACCAAAG
*
43883398 TACCC-CGATTTACATAATTACCGTTT
1 TACCCTCGATTTACA-AATTACCATTT
* * *
43883424 TACCCTCGATTTATAGAAGTACCGTTT
1 TACCCTCGATTTACA-AATTACCATTT
*
43883451 T-CCCTTGATTTACAAATTACCATTT
1 TACCCTCGATTTACAAATTACCATTT
*
43883476 TACCCTTGATTTACAAATTACCATTT
1 TACCCTCGATTTACAAATTACCATTT
43883502 TACCC-CGATTTACATAATTACCATTT
1 TACCCTCGATTTACA-AATTACCATTT
43883528 TACCC
1 TACCC
43883533 GTTTTACCCT
Statistics
Matches: 98, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
25 18 0.18
26 61 0.62
27 19 0.19
ACGTcount: A:0.28, C:0.26, G:0.07, T:0.39
Consensus pattern (26 bp):
TACCCTCGATTTACAAATTACCATTT
Found at i:43883446 original size:27 final size:27
Alignment explanation
Indices: 43883398--43883665 Score: 235
Period size: 27 Copynumber: 9.8 Consensus size: 27
43883388 ATTACCAAAG
*
43883398 TACCC-CGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
43883424 TACCCTCGATTTATAGAAGTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
43883451 T-CCCTTGATTTACA-AATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
43883476 TACCCTTGATTTACA-AATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
43883502 TACCC-CGATTTACATAATTACCATTTTACCCGTTT
1 TACCCTCGATTTAC---A-GA--A--TTA-CCGTTT
* *
43883537 TACCCTCGACTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
43883564 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
43883591 TACCGTCGATTTATAGAATTA-C-TATT
1 TACCCTCGATTTACAGAATTACCGT-TT
* **
43883617 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
43883644 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
43883666 AGAAATACCC
Statistics
Matches: 201, Mismatches: 25, Indels: 31
0.78 0.10 0.12
Matches are distributed among these distances:
25 18 0.09
26 66 0.33
27 87 0.43
28 5 0.02
30 2 0.01
32 2 0.01
33 1 0.00
34 3 0.01
35 10 0.05
36 7 0.03
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:43883557 original size:36 final size:35
Alignment explanation
Indices: 43883499--43883568 Score: 95
Period size: 36 Copynumber: 2.0 Consensus size: 35
43883489 CAAATTACCA
* *
43883499 TTTTACCCCGATTTACATAATTACCATTTTACCCG
1 TTTTACCCCGACTTACAGAATTACCATTTTACCCG
**
43883534 TTTTACCCTCGACTTACAGAATTACTGTTTTACCC
1 TTTTACCC-CGACTTACAGAATTACCATTTTACCC
43883569 TCGATTTACA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 8 0.27
36 22 0.73
ACGTcount: A:0.24, C:0.29, G:0.07, T:0.40
Consensus pattern (35 bp):
TTTTACCCCGACTTACAGAATTACCATTTTACCCG
Found at i:43883637 original size:53 final size:53
Alignment explanation
Indices: 43883532--43883692 Score: 171
Period size: 53 Copynumber: 3.0 Consensus size: 53
43883522 CCATTTTACC
* *
43883532 CGTTTTACCCTCGACTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTA
1 CGTTTTACCCTCGATTTACAGAATTACTGATTTACCCTCGATTTACAAAATTA
* * * *
43883585 TCGTTTTACCGTCGATTTATAGAATTACT-ATTTACCCTTGATTTACAGAATTA
1 -CGTTTTACCCTCGATTTACAGAATTACTGATTTACCCTCGATTTACAAAATTA
* * * ** * **
43883638 CTATTTTACCCTCGATTTACAAAATTACAGAAATACCCTCAATTTGTAAAATTA
1 C-GTTTTACCCTCGATTTACAGAATTACTGATTTACCCTCGATTTACAAAATTA
43883692 C
1 C
43883693 CAAAATACCC
Statistics
Matches: 87, Mismatches: 18, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
52 1 0.01
53 43 0.49
54 43 0.49
ACGTcount: A:0.32, C:0.21, G:0.09, T:0.39
Consensus pattern (53 bp):
CGTTTTACCCTCGATTTACAGAATTACTGATTTACCCTCGATTTACAAAATTA
Found at i:43883691 original size:80 final size:80
Alignment explanation
Indices: 43883535--43883692 Score: 210
Period size: 80 Copynumber: 2.0 Consensus size: 80
43883525 TTTTACCCGT
* *** * *
43883535 TTTACCCTCGACTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTATCGTTTTACCGTCGA
1 TTTACCCTCGACTTACAGAATTACTATTTTACCCTCGATTTACAAAATTATCGAAATACCCTCAA
*
43883600 TTTATAGAATTACTA
66 TTTATAAAATTACTA
* *
43883615 TTTACCCTTGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTA-CAGAAATACCCTCA
1 TTTACCCTCGACTTACAGAATTACTATTTTACCCTCGATTTACAAAATTATC-GAAATACCCTCA
*
43883679 ATTTGTAAAATTAC
65 ATTTATAAAATTAC
43883693 CAAAATACCC
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
79 1 0.01
80 66 0.99
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.39
Consensus pattern (80 bp):
TTTACCCTCGACTTACAGAATTACTATTTTACCCTCGATTTACAAAATTATCGAAATACCCTCAA
TTTATAAAATTACTA
Found at i:43883872 original size:27 final size:27
Alignment explanation
Indices: 43883617--43883868 Score: 136
Period size: 27 Copynumber: 9.3 Consensus size: 27
43883607 AATTACTATT
* * **
43883617 TACCCTTGATTTACAGAATTA-CTATTT
1 TACCCTTGATTTACAAAATTACCGA-AA
* *
43883644 TACCCTCGATTTACAAAATTACAGAAA
1 TACCCTTGATTTACAAAATTACCGAAA
** ** *
43883671 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACCGAAA
* ** *
43883698 TACCCCT-AGTTTGTAAAATTACCAAAA
1 TACCCTTGA-TTTACAAAATTACCGAAA
* ***
43883725 TACCAC-TGGTTTGTGAAATTACCGAAA
1 TACC-CTTGATTTACAAAATTACCGAAA
** * *
43883752 TACCCTCAATTT-TAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACCGAAA
* * *
43883778 TACCCCTGATTTACAAAGTTACAGAAA
1 TACCCTTGATTTACAAAATTACCGAAA
**
43883805 TACCCTTGACTTT-CTAAAAATTATAGAAA
1 TACCCTTGA-TTTAC--AAAATTACCGAAA
* * *
43883834 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGATTTACAAAATTACCGAAA
43883861 TACCCTTG
1 TACCCTTG
43883869 GTTTGTAGAT
Statistics
Matches: 179, Mismatches: 36, Indels: 20
0.76 0.15 0.09
Matches are distributed among these distances:
26 23 0.13
27 129 0.72
28 8 0.04
29 19 0.11
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACCGAAA
Found at i:43883973 original size:27 final size:27
Alignment explanation
Indices: 43883937--43884016 Score: 108
Period size: 27 Copynumber: 3.0 Consensus size: 27
43883927 GTAAAAAGAC
*
43883937 GTAAAGCCCCTGTAGGGTAAAGTGACA
1 GTAAAGCCCCTGTAAGGTAAAGTGACA
*
43883964 GTAAAGCCCCTGTAAGGTAAAGTGACC
1 GTAAAGCCCCTGTAAGGTAAAGTGACA
* *
43883991 GTAATA-CCCCTGTATGGTAAAATGAC
1 GTAA-AGCCCCTGTAAGGTAAAGTGAC
43884017 GAATATGCCC
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
27 47 0.98
28 1 0.02
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.21
Consensus pattern (27 bp):
GTAAAGCCCCTGTAAGGTAAAGTGACA
Found at i:43885281 original size:20 final size:20
Alignment explanation
Indices: 43885258--43885341 Score: 150
Period size: 20 Copynumber: 4.2 Consensus size: 20
43885248 TAAACATGGT
43885258 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
43885278 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
43885298 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
43885318 ATGTATGATATGCACATGAG
1 ATGTATGATATGCACATGAC
43885338 ATGT
1 ATGT
43885342 TCATAAATGC
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:43885298 original size:11 final size:11
Alignment explanation
Indices: 43885262--43885336 Score: 63
Period size: 11 Copynumber: 7.4 Consensus size: 11
43885252 CATGGTATGT
43885262 ATGATATGCAC
1 ATGATATGCAC
* *
43885273 ATGACATG--T
1 ATGATATGCAC
43885282 ATGATATGCAC
1 ATGATATGCAC
*
43885293 ATGATATG--T
1 ATGATATGCAC
43885302 ATGATATGCAC
1 ATGATATGCAC
* *
43885313 ATGACATG--T
1 ATGATATGCAC
43885322 ATGATATGCAC
1 ATGATATGCAC
43885333 ATGA
1 ATGA
43885337 GATGTTCATA
Statistics
Matches: 48, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
9 22 0.46
11 26 0.54
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:43885548 original size:24 final size:24
Alignment explanation
Indices: 43885392--43885576 Score: 247
Period size: 23 Copynumber: 7.8 Consensus size: 24
43885382 AGTGCAAAAA
43885392 GGCTTATGCCCCAGTTAT-TAAAG
1 GGCTTATGCCCCAGTTATATAAAG
43885415 GGCTTATGCCCCAGTTAT-TAAAG
1 GGCTTATGCCCCAGTTATATAAAG
43885438 GGCTTATGCCCCAGTT-TATAAAG
1 GGCTTATGCCCCAGTTATATAAAG
*
43885461 GGCTTATGCCCCAGTTAT-GAAAG
1 GGCTTATGCCCCAGTTATATAAAG
*
43885484 GGCTTATGCCCCAGTTGTATAAAG
1 GGCTTATGCCCCAGTTATATAAAG
* *
43885508 GGCTTATGCCCTAGTTATAAAAAG
1 GGCTTATGCCCCAGTTATATAAAG
*
43885532 GGCTTTTGCCCCAGTTACTA-AAAG
1 GGCTTATGCCCCAGTTA-TATAAAG
*
43885556 AGGC-TAGGCCTCCAGTTATAT
1 -GGCTTATGCC-CCAGTTATAT
43885577 GATAAAGCAG
Statistics
Matches: 145, Mismatches: 10, Indels: 12
0.87 0.06 0.07
Matches are distributed among these distances:
22 1 0.01
23 81 0.56
24 51 0.35
25 12 0.08
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
GGCTTATGCCCCAGTTATATAAAG
Found at i:43885802 original size:31 final size:31
Alignment explanation
Indices: 43885767--43885830 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
43885757 CGTTTACAGT
*
43885767 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
43885798 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
43885829 AA
1 AA
43885831 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:43891253 original size:21 final size:21
Alignment explanation
Indices: 43891227--43891271 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
43891217 TTAGTTTAGG
43891227 ATTAAATTGAAATAAAGTTTA
1 ATTAAATTGAAATAAAGTTTA
43891248 ATTAAATTGAAATAAAGTTTA
1 ATTAAATTGAAATAAAGTTTA
43891269 ATT
1 ATT
43891272 CATCAATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (21 bp):
ATTAAATTGAAATAAAGTTTA
Found at i:43892335 original size:40 final size:39
Alignment explanation
Indices: 43892272--43892405 Score: 160
Period size: 40 Copynumber: 3.3 Consensus size: 39
43892262 GCTATCTATT
43892272 AGGCTTTTGTGTCGGTGTATTTATCAGGCTTTGTGCCTAGC
1 AGGC-TTTGTGTC-GTGTATTTATCAGGCTTTGTGCCTAGC
* * *
43892313 AGGCTTTGTGCCAGTGTGTTTATCAGGCTTTGTTCCTAGC
1 AGGCTTTGTGTC-GTGTATTTATCAGGCTTTGTGCCTAGC
* * ** *
43892353 AAGTTTTGTGTCGATGTATTTATTGGGCTTTGTGCCTAAC
1 AGGCTTTGTGTCG-TGTATTTATCAGGCTTTGTGCCTAGC
43892393 AGGCTTTGTGTCG
1 AGGCTTTGTGTCG
43892406 GTGTTATCTA
Statistics
Matches: 78, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 73 0.94
41 4 0.05
ACGTcount: A:0.13, C:0.16, G:0.28, T:0.42
Consensus pattern (39 bp):
AGGCTTTGTGTCGTGTATTTATCAGGCTTTGTGCCTAGC
Found at i:43896292 original size:48 final size:48
Alignment explanation
Indices: 43896237--43896415 Score: 250
Period size: 48 Copynumber: 3.7 Consensus size: 48
43896227 CTCACACACT
* * * * *
43896237 AAGTGCTAATATCATGGCCCGAAGGCAACTCAATGTATCTCGCACCCG
1 AAGTGCCAATATCATGGCCCGAAGCCAAATCAATGAAGCTCGCACCCG
* * * *
43896285 AAGTGCTAATATCATGGCCTGAAGCCAAATTAATGAAGCTCGCACCTG
1 AAGTGCCAATATCATGGCCCGAAGCCAAATCAATGAAGCTCGCACCCG
* *
43896333 AAGTGCCGATATCATGGCCCGAAGCCAAATCAATGAAGCTCGCACCCA
1 AAGTGCCAATATCATGGCCCGAAGCCAAATCAATGAAGCTCGCACCCG
*
43896381 AAGTGCCGATATCATGGCCCGAAGCCAAATCAATG
1 AAGTGCCAATATCATGGCCCGAAGCCAAATCAATG
43896416 TATCCCCTAA
Statistics
Matches: 118, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 118 1.00
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.19
Consensus pattern (48 bp):
AAGTGCCAATATCATGGCCCGAAGCCAAATCAATGAAGCTCGCACCCG
Found at i:43898346 original size:24 final size:24
Alignment explanation
Indices: 43898316--43898582 Score: 480
Period size: 24 Copynumber: 11.1 Consensus size: 24
43898306 GAATGTGACT
* *
43898316 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
43898340 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
43898364 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
43898388 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
43898412 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
43898436 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
43898460 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
43898484 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
43898508 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
43898532 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
43898556 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
43898580 ATA
1 ATA
43898583 TGGTCTTTGC
Statistics
Matches: 239, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 239 1.00
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:43906378 original size:24 final size:24
Alignment explanation
Indices: 43906348--43906613 Score: 462
Period size: 24 Copynumber: 11.1 Consensus size: 24
43906338 GAATGTGACT
* *
43906348 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
43906372 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
43906396 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
43906420 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
43906444 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
43906468 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
43906492 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
43906516 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
43906540 ATAGT-AATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
43906563 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
43906587 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
43906611 ATA
1 ATA
43906614 TGGTCTTTGC
Statistics
Matches: 236, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
23 23 0.10
24 213 0.90
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:43906691 original size:143 final size:143
Alignment explanation
Indices: 43906354--43906613 Score: 450
Period size: 143 Copynumber: 1.8 Consensus size: 143
43906344 GACTATAGCA
* *
43906354 AATCGCACACATAGTGCTATAGC-AAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTG
1 AATCGCACACATAGTGCCATA-CTAAATCGCACACATAGTGACATAGT-AATCGCACACATAGTG
43906418 CCATAGTAAATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTGAATCGCACA
64 CCATAGTAAATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTGAATCGCACA
*
43906483 CATAGTGCCATAGTG
129 CATAGTGCCATAGTC
* *
43906498 AATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAGTAATCGCACACATAGTGCC
1 AATCGCACACATAGTGCCATACTAAATCGCACACATAGTGACATAGTAATCGCACACATAGTGCC
43906563 ATAGTAAATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATA
66 ATAGTAAATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATA
43906614 TGGTCTTTGC
Statistics
Matches: 113, Mismatches: 2, Indels: 3
0.96 0.02 0.03
Matches are distributed among these distances:
143 69 0.61
144 44 0.39
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (143 bp):
AATCGCACACATAGTGCCATACTAAATCGCACACATAGTGACATAGTAATCGCACACATAGTGCC
ATAGTAAATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTGAATCGCACACA
TAGTGCCATAGTC
Found at i:43912078 original size:21 final size:20
Alignment explanation
Indices: 43912040--43912078 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
43912030 ATTACTAAGG
**
43912040 ATAAATTAGTAATTTAATAA
1 ATAAATTAGTAAAATAATAA
43912060 ATAAACTTAGTAAAATAAT
1 ATAAA-TTAGTAAAATAAT
43912079 GAAAACAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (20 bp):
ATAAATTAGTAAAATAATAA
Found at i:43914719 original size:42 final size:43
Alignment explanation
Indices: 43914660--43914750 Score: 123
Period size: 42 Copynumber: 2.1 Consensus size: 43
43914650 TAGGGTTAGT
*
43914660 TGAGATTACGTGTAAGACCATATCTAGGA-TA-TAGCATCGATA
1 TGAGATTACGTGTAAGACCATAGCT-GGACTATTAGCATCGATA
** *
43914702 TGAGATTTTGTGTAAGACCATAGCTGGACTATTGGCATCGATA
1 TGAGATTACGTGTAAGACCATAGCTGGACTATTAGCATCGATA
43914745 TGAGAT
1 TGAGAT
43914751 CCCATATAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
41 3 0.07
42 24 0.56
43 16 0.37
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.31
Consensus pattern (43 bp):
TGAGATTACGTGTAAGACCATAGCTGGACTATTAGCATCGATA
Done.