Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 128 of 343
Found at i:43131094 original size:47 final size:46
Alignment explanation
Indices: 43131015--43131140 Score: 182
Period size: 46 Copynumber: 2.7 Consensus size: 46
43131005 TGGTTGAGCA
* * *
43131015 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACG
*
43131061 TCCGAACTCGTTGAGTTTGAGTCTGAGTTCACTTATAGATGCGAACG
1 TCCGAACTCGTTGAG-TTGAGTCCGAGTTCACTTATAGATGCGAACG
* *
43131108 -CTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
43131141 GGGGCGGGTT
Statistics
Matches: 72, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
45 18 0.25
46 27 0.38
47 27 0.38
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.33
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACG
Found at i:43134444 original size:46 final size:46
Alignment explanation
Indices: 43134392--43134519 Score: 195
Period size: 46 Copynumber: 2.8 Consensus size: 46
43134382 GATGGTTGAG
*
43134392 CATCCGAAGTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAAGTCGTTGAGTTGAGTCCGAGTTCACTTATCGATGCGAA
** *
43134438 TGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATCGATGCGAA
1 CATCCGAAGTCGTTGAGTTGAGTCCGAGTTCACTTATCGATGCGAA
*
43134484 CACCCG-AGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CATCCGAAG-TCGTTGAGTTGAGTCCGAGTTCACTTA
43134520 GGGGGGTTAC
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
45 1 0.01
46 72 0.99
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.29
Consensus pattern (46 bp):
CATCCGAAGTCGTTGAGTTGAGTCCGAGTTCACTTATCGATGCGAA
Found at i:43141144 original size:19 final size:19
Alignment explanation
Indices: 43141120--43141214 Score: 75
Period size: 19 Copynumber: 4.8 Consensus size: 19
43141110 AAGACCATGT
43141120 CTGGGACATTGGCATCATA
1 CTGGGACATTGGCATCATA
43141139 CTGGGACATTGGCATCATTA
1 CTGGGACATTGGCATCA-TA
* ** * * *
43141159 -TGTGATTTTGTGTAACCATGT
1 CTGGGACATTG-G-CATCAT-A
*
43141180 CTGGGACATTGGCTTCATA
1 CTGGGACATTGGCATCATA
*
43141199 TTGGGACATTGGCATC
1 CTGGGACATTGGCATC
43141215 GTTATCTGAT
Statistics
Matches: 56, Mismatches: 15, Indels: 10
0.69 0.19 0.12
Matches are distributed among these distances:
19 38 0.68
20 7 0.12
21 4 0.07
22 7 0.12
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (19 bp):
CTGGGACATTGGCATCATA
Found at i:43141185 original size:60 final size:62
Alignment explanation
Indices: 43141098--43141253 Score: 244
Period size: 60 Copynumber: 2.5 Consensus size: 62
43141088 ATAACGAGAC
*
43141098 GTGATTATGTGTAAGACCATGTCTGGGACATTGGCATCATACTGGGACATTGGCATCATTAT
1 GTGATTTTGTGTAAGACCATGTCTGGGACATTGGCATCATACTGGGACATTGGCATCATTAT
* * *
43141160 GTGATTTTGTGT-A-ACCATGTCTGGGACATTGGCTTCATATTGGGACATTGGCATCGTTAT
1 GTGATTTTGTGTAAGACCATGTCTGGGACATTGGCATCATACTGGGACATTGGCATCATTAT
* *
43141220 CTGATTTCGTGTAAGACCATGTCTGGGACATTGG
1 GTGATTTTGTGTAAGACCATGTCTGGGACATTGG
43141254 GATCGATATG
Statistics
Matches: 86, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
60 54 0.63
61 2 0.02
62 30 0.35
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.35
Consensus pattern (62 bp):
GTGATTTTGTGTAAGACCATGTCTGGGACATTGGCATCATACTGGGACATTGGCATCATTAT
Found at i:43141279 original size:43 final size:43
Alignment explanation
Indices: 43141195--43141298 Score: 113
Period size: 43 Copynumber: 2.5 Consensus size: 43
43141185 ACATTGGCTT
* ** * *
43141195 CATAT-TGGGACATTGGCATCGTTATCTGATTTCGTGTAAGAC
1 CATATCTGGGACATTGGCATCGATATCTGATAACATGAAAGAC
* * *
43141237 CATGTCTGGGACATTGGGATCGATATGTGATAACATGAAAGAC
1 CATATCTGGGACATTGGCATCGATATCTGATAACATGAAAGAC
*
43141280 CATATCTGGGATA-TGGCAT
1 CATATCTGGGACATTGGCAT
43141299 TATATTTGCT
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
42 9 0.18
43 41 0.82
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (43 bp):
CATATCTGGGACATTGGCATCGATATCTGATAACATGAAAGAC
Found at i:43156128 original size:46 final size:46
Alignment explanation
Indices: 43156078--43156246 Score: 193
Period size: 46 Copynumber: 3.7 Consensus size: 46
43156068 TGAGCATCCA
*
43156078 AACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCG
* * *
43156124 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G--TCCG
* *
43156171 AACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCG
* *
43156217 AGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTA
43156247 GGGGCGGTTT
Statistics
Matches: 102, Mismatches: 12, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 3 0.03
46 54 0.53
47 28 0.27
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCG
Found at i:43156230 original size:93 final size:93
Alignment explanation
Indices: 43156071--43156241 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
43156061 GGATGGTTGA
* *
43156071 GCATCCAAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
43156136 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
43156164 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCAAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
43156229 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
43156242 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (93 bp):
GCATCCAAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:43162750 original size:43 final size:43
Alignment explanation
Indices: 43162659--43162795 Score: 132
Period size: 43 Copynumber: 3.2 Consensus size: 43
43162649 CAATGCTATA
* * **
43162659 TCCCAGATATGGTCTTACAAGTTATTACATATCGATGTGAATAG
1 TCCCAGATATGGTCTTACAAGTAATTACATAACGATGCCAAT-G
* * * *
43162703 -CCCAGTTATGGTCTTACACGAAATTAAATAACGATGCCAATG
1 TCCCAGATATGGTCTTACAAGTAATTACATAACGATGCCAATG
* * * * * *
43162745 TCCCAGACATGGTCTTCCATGTAATCACATAATGATGCTAATG
1 TCCCAGATATGGTCTTACAAGTAATTACATAACGATGCCAATG
43162788 TCCCAGAT
1 TCCCAGAT
43162796 GTAATAGCCT
Statistics
Matches: 74, Mismatches: 18, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
42 1 0.01
43 73 0.99
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (43 bp):
TCCCAGATATGGTCTTACAAGTAATTACATAACGATGCCAATG
Found at i:43164736 original size:67 final size:67
Alignment explanation
Indices: 43164615--43164768 Score: 231
Period size: 67 Copynumber: 2.3 Consensus size: 67
43164605 CACCACAGAA
* * *
43164615 ATTGCAGCGAGGCTGCCAGATATAGTGACGAAGTCACCGGATACAGATATTGTGGCTAGGCCACC
1 ATTGCAGCGAGGCTGCCAGATATAGTGACAAAGTCACCAGATACAGATATTGTGGCGAGGCCACC
43164680 AG
66 AG
*
43164682 ATTG-AGGCGAGGCTGCCAGATATTGTGACAAAGTCACCAGA-ACAGATATATGTGGCGAGGCCA
1 ATTGCA-GCGAGGCTGCCAGATATAGTGACAAAGTCACCAGATACAGATAT-TGTGGCGAGGCCA
43164745 CCAG
64 CCAG
*
43164749 ATTGCAACGAGGCTGCCAGA
1 ATTGCAGCGAGGCTGCCAGA
43164769 ACACTTCCTC
Statistics
Matches: 79, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
66 9 0.11
67 69 0.87
68 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.30, T:0.18
Consensus pattern (67 bp):
ATTGCAGCGAGGCTGCCAGATATAGTGACAAAGTCACCAGATACAGATATTGTGGCGAGGCCACC
AG
Found at i:43172917 original size:55 final size:55
Alignment explanation
Indices: 43172837--43172961 Score: 169
Period size: 55 Copynumber: 2.3 Consensus size: 55
43172827 GTTAATTTAA
* *
43172837 CAGGTTCGACCACGGGTGTTCCACACGGGCATGTCAAACACCCGTGCTGTTTTGG
1 CAGGCTCGACCACGGGTCTTCCACACGGGCATGTCAAACACCCGTGCTGTTTTGG
* * ** * *
43172892 CAGGCTCGACCACGGTTCTTTCACACGGGCATGTCGTACACCTGTGTTGTTTTGG
1 CAGGCTCGACCACGGGTCTTCCACACGGGCATGTCAAACACCCGTGCTGTTTTGG
*
43172947 CAGGCTTGACCACGG
1 CAGGCTCGACCACGG
43172962 CCATATAGCA
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
55 61 1.00
ACGTcount: A:0.17, C:0.29, G:0.29, T:0.26
Consensus pattern (55 bp):
CAGGCTCGACCACGGGTCTTCCACACGGGCATGTCAAACACCCGTGCTGTTTTGG
Found at i:43176612 original size:14 final size:15
Alignment explanation
Indices: 43176588--43176616 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
43176578 AGATATCAAA
43176588 ACAATAATTAAGAAC
1 ACAATAATTAAGAAC
43176603 ACAA-AATTAAGAAC
1 ACAATAATTAAGAAC
43176617 TAGTTAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.62, C:0.14, G:0.07, T:0.17
Consensus pattern (15 bp):
ACAATAATTAAGAAC
Found at i:43178418 original size:24 final size:26
Alignment explanation
Indices: 43178386--43178445 Score: 61
Period size: 24 Copynumber: 2.4 Consensus size: 26
43178376 TCATTGATGG
* *
43178386 TGAATTGGTTATTTAGGTACA-G-TT
1 TGAAATGGTTATTAAGGTACATGTTT
* *
43178410 TGAAATGGTAATTAATGTACATGTTT
1 TGAAATGGTTATTAAGGTACATGTTT
*
43178436 TTAAATGGTT
1 TGAAATGGTT
43178446 TGGTTTGATC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
24 17 0.61
25 1 0.04
26 10 0.36
ACGTcount: A:0.30, C:0.03, G:0.22, T:0.45
Consensus pattern (26 bp):
TGAAATGGTTATTAAGGTACATGTTT
Found at i:43181845 original size:43 final size:44
Alignment explanation
Indices: 43181798--43181920 Score: 144
Period size: 43 Copynumber: 2.8 Consensus size: 44
43181788 ATTACATATT
* * *
43181798 GATGCCACA-GTCCTAGACAAGGTCTTACATGAAATCAATTA-AC
1 GATGCCA-ATGTCCCAGACATGGTCTTACATGAAATCAATAATAC
* *
43181841 GATGCCAATGTCCCAGACATGGTCCTACACGAAATC-ATAATAC
1 GATGCCAATGTCCCAGACATGGTCTTACATGAAATCAATAATAC
* * *
43181884 AATGCCAATGTCCCAGATATGGTCTTACATGTAATCA
1 GATGCCAATGTCCCAGACATGGTCTTACATGAAATCA
43181921 CATCTCAATA
Statistics
Matches: 67, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
42 4 0.06
43 63 0.94
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.24
Consensus pattern (44 bp):
GATGCCAATGTCCCAGACATGGTCTTACATGAAATCAATAATAC
Found at i:43186267 original size:46 final size:46
Alignment explanation
Indices: 43186200--43186369 Score: 207
Period size: 46 Copynumber: 3.7 Consensus size: 46
43186190 TGTAACCCGC
*
43186200 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCAGAT
* * * *
43186246 CCATAAGTGAACTCGGACTCAACTCAACGAGCTGGGATG-CCTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTC-AGAT
* *** * * *
43186292 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGGAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACGTTCAGAT
43186339 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
43186370 TTCAGATGCC
Statistics
Matches: 101, Mismatches: 20, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
45 1 0.01
46 66 0.65
47 33 0.33
48 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCAGAT
Found at i:43186378 original size:93 final size:93
Alignment explanation
Indices: 43186208--43186379 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
43186198 GCCCATAAGT
*
43186208 GAACTCGGACTCAACTCAACGAGCTCGGACGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
**
43186273 CGAGCTGGGATGCCTAGTTACATCTCTC
66 CGAGCTCAGATGCCTAGTTACATCTCTC
* **
43186301 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGGATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
*
43186366 CGAGTTCAGATGCC
66 CGAGCTCAGATGCC
43186380 CAAATATCCC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCAGATGCCTAGTTACATCTCTC
Found at i:43188789 original size:15 final size:15
Alignment explanation
Indices: 43188765--43188812 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
43188755 AGGAAACCGA
43188765 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
43188780 ATAGAGAAATCC-AG
1 ATAAAGAAATCCAAG
*
43188794 AATAAAGAAACCCAAG
1 -ATAAAGAAATCCAAG
43188810 ATA
1 ATA
43188813 CGATACTATG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
14 2 0.07
15 24 0.86
16 2 0.07
ACGTcount: A:0.58, C:0.15, G:0.15, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:43190206 original size:19 final size:20
Alignment explanation
Indices: 43190172--43190210 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
43190162 ATATGGATAT
43190172 TTATCACAACATGTATCATA
1 TTATCACAACATGTATCATA
*
43190192 TTATCAC-ATATGTATCATA
1 TTATCACAACATGTATCATA
43190211 AACTTTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.38, C:0.18, G:0.05, T:0.38
Consensus pattern (20 bp):
TTATCACAACATGTATCATA
Found at i:43193429 original size:40 final size:40
Alignment explanation
Indices: 43193345--43193528 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
43193335 TTGAATGCTG
* * * *
43193345 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
43193384 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
43193425 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
43193465 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
43193505 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
43193529 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:43193482 original size:80 final size:81
Alignment explanation
Indices: 43193345--43193525 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
43193335 TTGAATGCTG
* * *
43193345 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
43193409 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
43193425 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
43193486 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
43193505 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
43193526 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:43193549 original size:39 final size:39
Alignment explanation
Indices: 43193426--43193575 Score: 140
Period size: 40 Copynumber: 3.8 Consensus size: 39
43193416 GTTATTAATT
* ** * **
43193426 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACTAAAA
** *
43193466 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACTAAAA
* *
43193505 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTAAGA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAAAA
* *
43193545 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
43193576 GAGCTATATC
Statistics
Matches: 93, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
39 31 0.33
40 62 0.67
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (39 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAAAA
Found at i:43201333 original size:40 final size:40
Alignment explanation
Indices: 43201249--43201432 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
43201239 TTGAATGCTG
* * * *
43201249 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
43201288 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
43201329 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
43201369 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
43201409 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
43201433 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:43201386 original size:80 final size:81
Alignment explanation
Indices: 43201249--43201429 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
43201239 TTGAATGCTG
* * *
43201249 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
43201313 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
43201329 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
43201390 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
43201409 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
43201430 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:43201453 original size:39 final size:38
Alignment explanation
Indices: 43201330--43201479 Score: 122
Period size: 40 Copynumber: 3.8 Consensus size: 38
43201320 GTTATTAATT
* ** * *
43201330 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACT-ATA
** * *
43201370 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-ATA
*
43201409 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATGA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAT-A
* *
43201449 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
43201480 GAGCTATATC
Statistics
Matches: 92, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
39 32 0.35
40 60 0.65
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTATA
Found at i:43206574 original size:68 final size:64
Alignment explanation
Indices: 43206464--43206703 Score: 229
Period size: 68 Copynumber: 3.7 Consensus size: 64
43206454 ATACAGATGG
** * * *
43206464 TATGTAGCTAGGTCACATGTATGGTGCTAAGTGCACATCATGT-GTACAAGAGAGCTACGAGACA
1 TATGTAGCTAGGTCACATGGGTGGTACTAAGTGTACACCATGTAG-ACAAGAGAGCTACGAG--A
43206528 TTA
63 -TA
** * *
43206531 TGATGTAGCTAGGTCACATGGGTTATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATA
1 T-ATGTAGCTAGGTCACATGGGTGGTACTAAGTGTACACCATGTAGACAAGAGAGCTACGAGATA
* * *
43206596 TATGTAGCTAGGTCGCATGCGTGGTTCCAGTGAAG-G-ACACCATGTAGACAAGAGAGCTACGAG
1 TATGTAGCTAGGTCACATGGGTGG-T--ACT-AAGTGTACACCATGTAGACAAGAGAGCTACGAG
43206659 ATA
62 ATA
* *
43206662 AACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT
1 TA-TGTAGCTAGGTCACATGGGTGGTACTAAGTGTACACCATGT
43206704 GTACGAGAGA
Statistics
Matches: 143, Mismatches: 21, Indels: 22
0.77 0.11 0.12
Matches are distributed among these distances:
61 3 0.02
62 3 0.02
63 8 0.06
64 20 0.14
65 20 0.14
66 31 0.22
67 6 0.04
68 51 0.36
69 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (64 bp):
TATGTAGCTAGGTCACATGGGTGGTACTAAGTGTACACCATGTAGACAAGAGAGCTACGAGATA
Found at i:43211010 original size:68 final size:66
Alignment explanation
Indices: 43210938--43211085 Score: 174
Period size: 67 Copynumber: 2.2 Consensus size: 66
43210928 CATCATGTGT
* * * *
43210938 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC-AGA-A-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
43211001 TGTAG
62 TGTAG
* * *
43211006 ACAAGAGAGCTACGGAATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACAGAATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
43211071 AG
65 AG
43211073 ACAAGAGAGCTAC
1 ACAAGAGAGCTAC
43211086 GAGATAAACT
Statistics
Matches: 70, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
64 24 0.34
65 3 0.04
66 3 0.04
67 27 0.39
68 13 0.19
ACGTcount: A:0.32, C:0.18, G:0.28, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACAGAATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:43211043 original size:64 final size:64
Alignment explanation
Indices: 43210893--43211145 Score: 203
Period size: 68 Copynumber: 3.9 Consensus size: 64
43210883 ATACAGATGG
* ** * * *
43210893 TATGTAGCTAGGTCACATGTATGGTGCTGA-GTGCACATCATGT-GTACAAGAGAGCTACAAGAC
1 TATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGCTAC--GAC
43210956 ATTA
62 A-TA
*
43210960 TGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGA-AT
1 T-ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTAC-GACAT
43211024 A
64 A
* * * * * *
43211025 TATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 TATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGACA
43211090 TA
63 TA
* * * *
43211092 AACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 TA-TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
43211146 CGAACTATAT
Statistics
Matches: 154, Mismatches: 23, Indels: 22
0.77 0.12 0.11
Matches are distributed among these distances:
62 1 0.01
63 19 0.12
64 25 0.16
65 3 0.02
66 24 0.16
67 33 0.21
68 48 0.31
69 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (64 bp):
TATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGACATA
Found at i:43214844 original size:11 final size:11
Alignment explanation
Indices: 43214830--43214854 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
43214820 CCTAAAGATG
43214830 AAATAAAATAA
1 AAATAAAATAA
43214841 AAATAAAATAA
1 AAATAAAATAA
43214852 AAA
1 AAA
43214855 ATAGATTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:43214879 original size:14 final size:13
Alignment explanation
Indices: 43214830--43214901 Score: 51
Period size: 14 Copynumber: 5.6 Consensus size: 13
43214820 CCTAAAGATG
43214830 AAATAAAAT--AA
1 AAATAAAATAAAA
43214841 AAATAAAAT-AAA
1 AAATAAAATAAAA
**
43214853 AAATAGATTTAAAA
1 AAATA-AAATAAAA
43214867 AAATAAACATAAAA
1 AAATAAA-ATAAAA
** * *
43214881 ATGTAAAATTAAT
1 AAATAAAATAAAA
43214894 AAATAAAA
1 AAATAAAA
43214902 GTCTTTAAAC
Statistics
Matches: 47, Mismatches: 10, Indels: 6
0.75 0.16 0.10
Matches are distributed among these distances:
11 9 0.19
12 7 0.15
13 13 0.28
14 18 0.38
ACGTcount: A:0.74, C:0.01, G:0.03, T:0.22
Consensus pattern (13 bp):
AAATAAAATAAAA
Found at i:43235631 original size:51 final size:51
Alignment explanation
Indices: 43235551--43235650 Score: 182
Period size: 51 Copynumber: 2.0 Consensus size: 51
43235541 CATTTATACA
43235551 GATCACAAGAGCCTCAAGTACCTTATCAATCAGAAGGACCTAAATCTTACG
1 GATCACAAGAGCCTCAAGTACCTTATCAATCAGAAGGACCTAAATCTTACG
* *
43235602 GATCACAAGAGCCTCAAGTACCTTCTCAATCAGAAGGAGCTAAATCTTA
1 GATCACAAGAGCCTCAAGTACCTTATCAATCAGAAGGACCTAAATCTTA
43235651 GGTAGCGTAG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.22
Consensus pattern (51 bp):
GATCACAAGAGCCTCAAGTACCTTATCAATCAGAAGGACCTAAATCTTACG
Found at i:43235633 original size:27 final size:27
Alignment explanation
Indices: 43235552--43235633 Score: 66
Period size: 27 Copynumber: 3.1 Consensus size: 27
43235542 ATTTATACAG
*
43235552 ATCACAAGAGCCTCAAGTACCTTATCA
1 ATCACAAGAGCCTCAAGTACCTTCTCA
* * **
43235579 ATCAGAAG-GACCT-AA--ATCTTAC-GG
1 ATCACAAGAG-CCTCAAGTACCTT-CTCA
43235603 ATCACAAGAGCCTCAAGTACCTTCTCA
1 ATCACAAGAGCCTCAAGTACCTTCTCA
43235630 ATCA
1 ATCA
43235634 GAAGGAGCTA
Statistics
Matches: 39, Mismatches: 9, Indels: 14
0.63 0.15 0.23
Matches are distributed among these distances:
24 14 0.36
25 3 0.08
26 4 0.10
27 18 0.46
ACGTcount: A:0.37, C:0.28, G:0.13, T:0.22
Consensus pattern (27 bp):
ATCACAAGAGCCTCAAGTACCTTCTCA
Found at i:43238965 original size:34 final size:34
Alignment explanation
Indices: 43238920--43238992 Score: 105
Period size: 34 Copynumber: 2.2 Consensus size: 34
43238910 TCTATATTTT
*
43238920 CACTGTGATGGGCTAAGGCCC-ACACTGATACTGA
1 CACTGTAATGGGCTAAGGCCCTA-ACTGATACTGA
*
43238954 CACTGTAATGGGCTAAGGCCCTAACTGATATTGA
1 CACTGTAATGGGCTAAGGCCCTAACTGATACTGA
43238988 -ACTGT
1 CACTGT
43238993 TACTGAAACG
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
33 5 0.14
34 30 0.83
35 1 0.03
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (34 bp):
CACTGTAATGGGCTAAGGCCCTAACTGATACTGA
Found at i:43243127 original size:14 final size:15
Alignment explanation
Indices: 43243110--43243138 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
43243100 GCACAAAAAT
43243110 TTCACACAT-ATAAA
1 TTCACACATAATAAA
43243124 TTCACACATAATAAA
1 TTCACACATAATAAA
43243139 CATAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:43251719 original size:27 final size:27
Alignment explanation
Indices: 43251689--43251752 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 27
43251679 CACGAGCGTG
*
43251689 TGGGCCTATTTGGGCCAAGAAGGGCTT
1 TGGGCCCATTTGGGCCAAGAAGGGCTT
* *
43251716 TGGGCCCATTTGGGTCGAGAAGGGCTT
1 TGGGCCCATTTGGGCCAAGAAGGGCTT
*
43251743 TAGGCCCATT
1 TGGGCCCATT
43251753 CGTATTGTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.17, C:0.20, G:0.36, T:0.27
Consensus pattern (27 bp):
TGGGCCCATTTGGGCCAAGAAGGGCTT
Found at i:43251847 original size:27 final size:26
Alignment explanation
Indices: 43251814--43251930 Score: 90
Period size: 27 Copynumber: 4.3 Consensus size: 26
43251804 CCCGCAGTTG
*
43251814 TAAAATTACCAAAGTATCCTCGGTTTA
1 TAAAATTACCAAA-TATCCTCGATTTA
* *
43251841 TAAAATTACCCAAATATCCTTGATTTG
1 TAAAATTA-CCAAATATCCTCGATTTA
* * * *
43251868 TAAAATTATCAAAATACCCTCAATTTG
1 TAAAATTA-CCAAATATCCTCGATTTA
* * * *
43251895 CAAAAATACTAAAATACCCTCGATTTA
1 TAAAATTAC-CAAATATCCTCGATTTA
*
43251922 CAAAATTAC
1 TAAAATTAC
43251931 TATTTTACCC
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
26 1 0.01
27 69 0.92
28 5 0.07
ACGTcount: A:0.43, C:0.20, G:0.06, T:0.32
Consensus pattern (26 bp):
TAAAATTACCAAATATCCTCGATTTA
Found at i:43251931 original size:27 final size:27
Alignment explanation
Indices: 43251882--43252237 Score: 371
Period size: 27 Copynumber: 13.2 Consensus size: 27
43251872 ATTATCAAAA
* * * ***
43251882 TACCCTCAATTTGCAAAAATACTAAAA
1 TACCCTCGATTTACAAAATTACTATTT
43251909 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
* **
43251936 TACCCTCGATTGA-AAGAATTACCGTTT
1 TACCCTCGATTTACAA-AATTACTATTT
* *
43251963 TACCCTCGATTGACAGAATTA-TCATTT
1 TACCCTCGATTTACAAAATTACT-ATTT
* *
43251990 TACCCTCGATTGA-AAGAATTACTGTTT
1 TACCCTCGATTTACAA-AATTACTATTT
*
43252017 TACCATCGATTTACAAAATTA-TCATTT
1 TACCCTCGATTTACAAAATTACT-ATTT
* * *
43252044 TACCCTCGATTTATAGAATTA-TCGTTT
1 TACCCTCGATTTACAAAATTACT-ATTT
43252071 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
* * * *
43252098 TACCCTCAATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACTATTT
* *
43252125 TACCCTCGATTGACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
43252152 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
* *
43252179 TACCCTCGATTTACAAAATTATTGTTT
1 TACCCTCGATTTACAAAATTACTATTT
* * **
43252206 TACCTTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTATTT
43252233 TACCC
1 TACCC
43252238 CTAGGGTGTT
Statistics
Matches: 280, Mismatches: 41, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
26 4 0.01
27 271 0.97
28 5 0.02
ACGTcount: A:0.32, C:0.22, G:0.08, T:0.38
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTATTT
Found at i:43251956 original size:81 final size:81
Alignment explanation
Indices: 43251909--43252237 Score: 416
Period size: 81 Copynumber: 4.1 Consensus size: 81
43251899 AATACTAAAA
* *
43251909 TACCCTCGATTTACAAAATTACTATTTTACCCTCGATTGAAAGAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTAAAGAATTACCATTTTACCCTCGATT
43251974 GACAGAATTA-TCATTT
66 GACAGAATTACT-ATTT
* * * *
43251990 TACCCTCGATTGA-AAGAATTACTGTTTTACCATCGATTTACAA-AATTATCATTTTACCCTCGA
1 TACCCTCGATTTACAA-AATTACTATTTTACCCTCGATTTA-AAGAATTACCATTTTACCCTCGA
* * *
43252053 TTTATAGAATTA-TCGTTT
64 TTGACAGAATTACT-ATTT
* *
43252071 TACCCTCGATTTACAAAATTACTATTTTACCCTCAATTTATAGAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTAAAGAATTACCATTTTACCCTCGATT
43252136 GACAGAATTACTATTT
66 GACAGAATTACTATTT
*** *
43252152 TACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAA-AATTATTGTTTTACCTTCGAT
1 TACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTA-AAGAATTACCATTTTACCCTCGAT
* **
43252216 TTACAGAATTACCGTTT
65 TGACAGAATTACTATTT
43252233 TACCC
1 TACCC
43252238 CTAGGGTGTT
Statistics
Matches: 215, Mismatches: 27, Indels: 12
0.85 0.11 0.05
Matches are distributed among these distances:
80 3 0.01
81 206 0.96
82 6 0.03
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.40
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTAAAGAATTACCATTTTACCCTCGATT
GACAGAATTACTATTT
Found at i:43252779 original size:31 final size:31
Alignment explanation
Indices: 43252744--43252816 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 31
43252734 TTGCATTCAC
* * *
43252744 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTAATTCTGTCACCTGATACTG
*
43252775 ATTCTGATTCTAATTCTGTCACCTGATTCTG
1 ATTCTGATTCTAATTCTGTCACCTGATACTG
43252806 ATTCTGATTCT
1 ATTCTGATTCT
43252817 TATTTTGATT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTAATTCTGTCACCTGATACTG
Found at i:43252783 original size:6 final size:6
Alignment explanation
Indices: 43252744--43252837 Score: 68
Period size: 6 Copynumber: 15.3 Consensus size: 6
43252734 TTGCATTCAC
* * *
43252744 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
43252793 -TCACCTG ATTCTG ATTCTG ATTCTT ATTTTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
43252838 AATGTTTCTT
Statistics
Matches: 68, Mismatches: 12, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
5 4 0.06
6 55 0.81
7 7 0.10
8 2 0.03
ACGTcount: A:0.19, C:0.17, G:0.14, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:43261052 original size:19 final size:18
Alignment explanation
Indices: 43261019--43261054 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
43261009 AACTTGGCAC
*
43261019 CATAATCATTTAATTCAA
1 CATAATCAATTAATTCAA
43261037 CATAATTCAATTAATTCA
1 CATAA-TCAATTAATTCA
43261055 CTAAATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.44, C:0.17, G:0.00, T:0.39
Consensus pattern (18 bp):
CATAATCAATTAATTCAA
Found at i:43268270 original size:40 final size:41
Alignment explanation
Indices: 43268240--43268364 Score: 175
Period size: 40 Copynumber: 3.1 Consensus size: 41
43268230 GCTACTCGTT
*
43268240 CAAATGCCTTCGGGACATAGCCCAG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCAGATTATAGTAACTCGCA
* * *
43268280 CAAATGCCTTCAGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCAGATTATAGTAACTCGCA
* *
43268320 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCAGATTATAGTAACTCGCA
43268360 CAAAT
1 CAAAT
43268365 AGCCCAGTTA
Statistics
Matches: 79, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
40 77 0.97
41 2 0.03
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.24
Consensus pattern (41 bp):
CAAATGCCTTCGGGACATAACCCAGATTATAGTAACTCGCA
Found at i:43274624 original size:77 final size:81
Alignment explanation
Indices: 43274482--43274664 Score: 243
Period size: 77 Copynumber: 2.3 Consensus size: 81
43274472 GCTACTCGTT
* *
43274482 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
43274547 ATTTAGTAAC-TCGCA
66 ATATAGTAACTTAGCA
**
43274562 CAAATGCCTTCGGG-CTTAGCCCGGAT-TAGT-ACTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
* *
43274623 GATATGGTCACTTAGCA
65 GATATAGTAACTTAGCA
43274640 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
43274665 CATCATTCAA
Statistics
Matches: 92, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
76 3 0.03
77 42 0.46
78 23 0.25
79 10 0.11
80 14 0.15
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCA
Found at i:43274664 original size:40 final size:40
Alignment explanation
Indices: 43274463--43274664 Score: 245
Period size: 40 Copynumber: 5.1 Consensus size: 40
43274453 CGGAATTTAA
** *
43274463 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
43274503 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
43274543 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
43274582 CCGGAT-TAGT-ACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
43274620 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
43274660 CCGGA
1 CCGGA
43274665 CATCATTCAA
Statistics
Matches: 143, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
36 2 0.01
37 18 0.13
38 15 0.10
39 15 0.10
40 82 0.57
41 11 0.08
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:43282508 original size:40 final size:40
Alignment explanation
Indices: 43282471--43282655 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
43282461 GCTACTCGTT
* * *
43282471 CAAATGCCTTCGGGACATAGCCCAG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
43282511 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
43282551 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
43282591 CAAATGCCTTC--GATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
43282631 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
43282656 CATCATTCAA
Statistics
Matches: 130, Mismatches: 10, Indels: 10
0.87 0.07 0.07
Matches are distributed among these distances:
38 2 0.02
39 21 0.16
40 103 0.79
41 4 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:43285082 original size:40 final size:40
Alignment explanation
Indices: 43284998--43285220 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
43284988 TTGAATGATG
* * * *
43284998 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
43285038 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
43285078 TCCGGGCTAAG--CCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
43285116 TCCGGGTTAAGTCCCGAAGGCA-TTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
43285155 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
43285196 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
43285221 AACGAGGAGC
Statistics
Matches: 162, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
38 34 0.21
39 38 0.23
40 80 0.49
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:43285189 original size:79 final size:79
Alignment explanation
Indices: 43284998--43285218 Score: 272
Period size: 79 Copynumber: 2.8 Consensus size: 79
43284988 TTGAATGATG
* * * * *
43284998 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCA-
*
43285061 TTGTGCGAGATACTAAT
63 TTGTGCGAGATACTAAA
* *
43285078 TCCGGGCTAAG--CCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTG
*
43285141 TGCGAGTTACTAAA
66 TGCGAGATACTAAA
* *
43285155 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
43285219 TGAACGAGGA
Statistics
Matches: 123, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
77 26 0.21
78 33 0.27
79 51 0.41
80 13 0.11
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTG
TGCGAGATACTAAA
Found at i:43285251 original size:79 final size:79
Alignment explanation
Indices: 43285037--43285253 Score: 198
Period size: 79 Copynumber: 2.8 Consensus size: 79
43285027 AAGTGACCAT
* * ** *
43285037 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGAT-ACTAATTCCGGGCT-AA-GCCGAAGGCA
1 ATCCGGGCTAAG-TCCCGAAGGCA-TTGTGCGAG-TGACTAAATCCGGATTAAATCCCGAAGGCA
43285098 TTGGTGCGAGTTACTAA
63 TTGGTGCGAGTTACTAA
* * * * *
43285115 ATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 ATCCGGGCTAAGTCCCGAAGGCATTGTGCGAGTGACTAAATCCGGATTAAATCCCGAAGGCATTG
43285180 GTGCGAGTTACTATA
66 GTGCGAGTTACTA-A
* * *
43285195 A-CCGGGCTATGTCCCGAAGGCATT-TGAACGAG-GAGCTATATCC-GATTAAATTCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGGCATTGTG--CGAGTGA-CTAAATCCGGATTAAATCCCGAAGG
43285254 TACGTGATTT
Statistics
Matches: 117, Mismatches: 14, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
76 1 0.01
77 22 0.19
78 22 0.19
79 59 0.50
80 13 0.11
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (79 bp):
ATCCGGGCTAAGTCCCGAAGGCATTGTGCGAGTGACTAAATCCGGATTAAATCCCGAAGGCATTG
GTGCGAGTTACTAA
Found at i:43296310 original size:49 final size:49
Alignment explanation
Indices: 43296241--43296510 Score: 440
Period size: 49 Copynumber: 5.6 Consensus size: 49
43296231 GAAATGATAG
43296241 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
43296290 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
43296339 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
43296386 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * *
43296435 CAGGGCCGAGTGGCCAACGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
43296482 TAAGGCCTAATGGCCGATGTGATGAATGT
1 TAAGGCCTAATGGCCGATGTGATGAATGT
43296511 AACACCCCGG
Statistics
Matches: 203, Mismatches: 16, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
47 79 0.39
49 124 0.61
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.29
Consensus pattern (49 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:43296414 original size:96 final size:96
Alignment explanation
Indices: 43296244--43296510 Score: 462
Period size: 96 Copynumber: 2.8 Consensus size: 96
43296234 ATGATAGTAA
43296244 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATG
*
43296309 TGATGAATGTGAAAGTGTATATATATGTGATAG
64 TGATGAATGTGAAAGTGTATATATATGTGACAG
43296342 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
*
43296407 ATGAATGTGGAAGTGTATATATATGTGACAG
66 ATGAATGTGAAAGTGTATATATATGTGACAG
* * * *
43296438 GGCCGAGTGGCCAACGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
43296503 ATGAATGT
66 ATGAATGT
43296511 AACACCCCGG
Statistics
Matches: 163, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
96 130 0.80
98 33 0.20
ACGTcount: A:0.30, C:0.10, G:0.31, T:0.29
Consensus pattern (96 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
ATGAATGTGAAAGTGTATATATATGTGACAG
Found at i:43297992 original size:39 final size:40
Alignment explanation
Indices: 43297875--43298056 Score: 192
Period size: 40 Copynumber: 4.6 Consensus size: 40
43297865 GCTACTCGTT
* *
43297875 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGAGACTTAGCCCGGATT-TAGTAACTCGCA
* * *
43297915 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGAGACTTAGCCCGGATTTAGTAACTCGCA
* *
43297955 CAAATGCCTTCGAG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGAGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
43297994 CAAATGCCTTCGA-ATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGAGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
43298035 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGAGACTTAGCCC
43298057 AGACATCATT
Statistics
Matches: 120, Mismatches: 17, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
39 35 0.29
40 74 0.62
41 11 0.09
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGAGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:43298019 original size:79 final size:81
Alignment explanation
Indices: 43297842--43298056 Score: 203
Period size: 79 Copynumber: 2.7 Consensus size: 81
43297832 AAATCACGTA
* * ** * *
43297842 CCTTCGGAATTTAA-CCGGATATAGCT-AC-TCGTTCAAATGCCTTCGGGACATAGCCCGGTTAT
1 CCTTCGGAACTTAACCCGGATATAG-TAACTTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
*
43297904 AGTAACTCGCACAATTG
65 AGTAACTCGCACAAATG
* * * *
43297921 CCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCACAAATGCCTTCGAG-CTTAGCCCGGA-ATT
1 CCTTCGGAACTTAACCCGGATATAGTAACTTAGCACAAATGCCTTCGGGACTTAGCCCGGATA-T
*
43297983 AGTATCTCGCACAAATG
65 AGTAACTCGCACAAATG
** * *
43298000 CCTTC-GAATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CCTTCGGAA-CTTAACCCGGATATAGTAACTTAGCACAAATGCCTTCGGGACTTAGCCC
43298057 AGACATCATT
Statistics
Matches: 112, Mismatches: 18, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
78 3 0.03
79 66 0.59
80 43 0.38
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (81 bp):
CCTTCGGAACTTAACCCGGATATAGTAACTTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
GTAACTCGCACAAATG
Found at i:43302478 original size:32 final size:32
Alignment explanation
Indices: 43302431--43302497 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
43302421 TACTCAATTA
* *
43302431 AATTTCTGTACATACCTGTACCATATTGTACC
1 AATTTCCGTACATACCTGTACCATATCGTACC
* * *
43302463 AATTTCCGTAGATACCTGTATCATCTCGTACC
1 AATTTCCGTACATACCTGTACCATATCGTACC
43302495 AAT
1 AAT
43302498 CTCATACTCA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.28, C:0.25, G:0.10, T:0.36
Consensus pattern (32 bp):
AATTTCCGTACATACCTGTACCATATCGTACC
Found at i:43302685 original size:56 final size:55
Alignment explanation
Indices: 43302540--43302685 Score: 150
Period size: 56 Copynumber: 2.6 Consensus size: 55
43302530 TGAATATTCA
* * * ***
43302540 ATGTATCGCACACT-AGATACCATACCCGATACCTTGCACAGTAAGTGTTGTTCTAG
1 ATGTATCGCACACTAAG-TGCCATA-CCGATACTTTGCACACTAAGTGCCATTCTAG
* ** * *
43302596 ATGTTTCGCACACTAAGTGCCACCCTCGTTACTTTGCACACTAAGTGCCATTCTGG
1 ATGTATCGCACACTAAGTGCCATAC-CGATACTTTGCACACTAAGTGCCATTCTAG
43302652 ATGTATCGCACACTAAGTGCCATGACCGATACTT
1 ATGTATCGCACACTAAGTGCCAT-ACCGATACTT
43302686 CGTACGTTAA
Statistics
Matches: 72, Mismatches: 15, Indels: 6
0.77 0.16 0.06
Matches are distributed among these distances:
55 1 0.01
56 68 0.94
57 3 0.04
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (55 bp):
ATGTATCGCACACTAAGTGCCATACCGATACTTTGCACACTAAGTGCCATTCTAG
Found at i:43308918 original size:28 final size:28
Alignment explanation
Indices: 43308835--43308925 Score: 87
Period size: 28 Copynumber: 3.2 Consensus size: 28
43308825 ACCTTGCACC
* *
43308835 CTAAGTGTCGTTCTGGATGTTTCACACA
1 CTAAGTGTCATTCTGGATGTATCACACA
* * * **
43308863 CTAAGTGCCATCCTCG-T-TACTTTGCACA
1 CTAAGTGTCATTCTGGATGTA--TCACACA
43308891 CTAAGTGTCATTCTGGATGTATCACACA
1 CTAAGTGTCATTCTGGATGTATCACACA
43308919 CTAAGTG
1 CTAAGTG
43308926 CCATCACCGA
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
26 1 0.02
27 1 0.02
28 42 0.89
29 1 0.02
30 2 0.04
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (28 bp):
CTAAGTGTCATTCTGGATGTATCACACA
Found at i:43308952 original size:56 final size:56
Alignment explanation
Indices: 43308795--43308952 Score: 160
Period size: 56 Copynumber: 2.8 Consensus size: 56
43308785 TGAATATTCA
* * ** * *
43308795 ATGTATCGCACACT-AGATACCATACC-CGATACCTTGCACCCTAAGTGTCGTTCTGG
1 ATGTATCACACACTAAG-TGCCAT-CCTCGATACCTCACACACTAAGTGTCATTCTGG
* * * **
43308851 ATGTTTCACACACTAAGTGCCATCCTCGTTACTTTGCACACTAAGTGTCATTCTGG
1 ATGTATCACACACTAAGTGCCATCCTCGATACCTCACACACTAAGTGTCATTCTGG
*
43308907 ATGTATCACACACTAAGTGCCATCAC-CGATACCTCACACATTAAGT
1 ATGTATCACACACTAAGTGCCATC-CTCGATACCTCACACACTAAGT
43308953 ACCACATATA
Statistics
Matches: 86, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
55 2 0.02
56 81 0.94
57 3 0.03
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.28
Consensus pattern (56 bp):
ATGTATCACACACTAAGTGCCATCCTCGATACCTCACACACTAAGTGTCATTCTGG
Found at i:43316168 original size:27 final size:27
Alignment explanation
Indices: 43316138--43316341 Score: 250
Period size: 27 Copynumber: 7.6 Consensus size: 27
43316128 ATATTGAGTC
* * * *
43316138 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
43316165 CGCACACTTAGTGCTACGTAATC-AAT
1 CGCACACTTAGTGCTACATAGTCAAAT
43316191 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
43316219 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
43316246 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
43316273 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
43316300 CGCACACTTAGTGCTACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
43316327 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
43316342 GTACAATTTA
Statistics
Matches: 155, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
26 23 0.15
27 108 0.70
28 24 0.15
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:43319653 original size:37 final size:37
Alignment explanation
Indices: 43319595--43319702 Score: 180
Period size: 37 Copynumber: 2.9 Consensus size: 37
43319585 TAGCTCGAAT
* *
43319595 AATCCCCACACGTAGTTATCGGGTCTTACCCGAACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGAACAA
* *
43319632 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGAACAA
43319669 AATCTCCACACGTAGTCATCGGGTCTTACCCGAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGAA
43319703 ATATATTTCC
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.23
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGAACAA
Found at i:43319901 original size:48 final size:48
Alignment explanation
Indices: 43319843--43319988 Score: 211
Period size: 48 Copynumber: 3.0 Consensus size: 48
43319833 ATATACACAC
* * *
43319843 ATCTCCTACATATTTCACATTAGCCATTCGGCTTTACCAAATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATAAAT
* * * *
43319891 ATCTCATACATACTTCACATTAACCATTCGGATTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATAAAT
**
43319939 ATCTCATACATATTTCATGTTAGCCATTCGGCTTTACCACATATAAAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATAAAT
43319987 AT
1 AT
43319989 TTATCTTGTA
Statistics
Matches: 86, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 86 1.00
ACGTcount: A:0.33, C:0.25, G:0.06, T:0.36
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATAAAT
Found at i:43323816 original size:29 final size:31
Alignment explanation
Indices: 43323779--43323855 Score: 90
Period size: 29 Copynumber: 2.6 Consensus size: 31
43323769 GGTTGAAGAA
*
43323779 CTCGCACACACAGTGCCTCAATT-ACTG-AT
1 CTCGCACACACAGTGCCTCAATTAACGGAAT
* *
43323808 CTCGCACACATAGTGCCT-GATTAACGGAAT
1 CTCGCACACACAGTGCCTCAATTAACGGAAT
*
43323838 -TTGCACACACAGTGCCTC
1 CTCGCACACACAGTGCCTC
43323856 TAATCATTCG
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
28 3 0.08
29 35 0.88
30 2 0.05
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.23
Consensus pattern (31 bp):
CTCGCACACACAGTGCCTCAATTAACGGAAT
Found at i:43325537 original size:37 final size:37
Alignment explanation
Indices: 43325429--43325538 Score: 184
Period size: 37 Copynumber: 3.0 Consensus size: 37
43325419 TTTAGCTCAA
* * *
43325429 ATAATCCCCACACGTAGTTATCGGGTCTTACCCGAAC
1 ATAATCTCCACACGTAGTCATCGGGTCTTACCCGGAC
*
43325466 AAAATCTCCACACGTAGTCATCGGGTCTTACCCGGAC
1 ATAATCTCCACACGTAGTCATCGGGTCTTACCCGGAC
43325503 ATAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 ATAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
43325539 ATATATTTCC
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
ATAATCTCCACACGTAGTCATCGGGTCTTACCCGGAC
Found at i:43325737 original size:48 final size:48
Alignment explanation
Indices: 43325679--43325824 Score: 220
Period size: 48 Copynumber: 3.0 Consensus size: 48
43325669 ATATACACAC
* *
43325679 ATCTCCTACATATTTCACATTAGCCATTCGGCTTTACCAAATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * * *
43325727 ATCTCATACATACTTCACATTAACCATTCGGATTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
**
43325775 ATCTCATACATATTTCATGTTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
43325823 AT
1 AT
43325825 TTATCTTGTA
Statistics
Matches: 86, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 86 1.00
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.36
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:43333026 original size:40 final size:40
Alignment explanation
Indices: 43332963--43333056 Score: 118
Period size: 40 Copynumber: 2.4 Consensus size: 40
43332953 TTATGTTTGA
* * *
43332963 CACTAAGTGTACTATTTGAAATAGCTTCAGCTACA-AATGG
1 CACTAAGTGTGCGAGTTGAAATAGCTTCAGCTACATAA-GG
* * *
43333003 CACTAAGTGTGCGAGTTGGAATAGCTTCAGCTATATGAGG
1 CACTAAGTGTGCGAGTTGAAATAGCTTCAGCTACATAAGG
43333043 CACTAAGTGTGCGA
1 CACTAAGTGTGCGA
43333057 TACCGAGATA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 46 0.98
41 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (40 bp):
CACTAAGTGTGCGAGTTGAAATAGCTTCAGCTACATAAGG
Found at i:43339490 original size:42 final size:42
Alignment explanation
Indices: 43339425--43339551 Score: 139
Period size: 43 Copynumber: 3.0 Consensus size: 42
43339415 CATCAATTTG
* * *
43339425 TGATTTACATGTAAGACCATGTCTGGGACATTGGCATCGTATA
1 TGATTT-CATGTAAGACCCTGTCTGGGATATTGGCATTGTATA
* * *
43339468 TGATTTCATGTAAGACCCTGTCTGAGATAGTGGCATTGATATT
1 TGATTTCATGTAAGACCCTGTCTGGGATATTGGCATTG-TATA
* * *
43339511 TGGTTACATGTAAGACCAC-GTCTGGGATGTTGGCATTGTAT
1 TGATTTCATGTAAGACC-CTGTCTGGGATATTGGCATTGTAT
43339552 GAACTTATGT
Statistics
Matches: 71, Mismatches: 11, Indels: 5
0.82 0.13 0.06
Matches are distributed among these distances:
42 30 0.42
43 40 0.56
44 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (42 bp):
TGATTTCATGTAAGACCCTGTCTGGGATATTGGCATTGTATA
Found at i:43341151 original size:8 final size:8
Alignment explanation
Indices: 43341138--43341169 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
43341128 CTAGATCGGC
43341138 AAAAGCCG
1 AAAAGCCG
43341146 AAAAGCCG
1 AAAAGCCG
*
43341154 AAATGCCG
1 AAAAGCCG
43341162 AAAAGCCG
1 AAAAGCCG
43341170 GTATTTTAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.47, C:0.25, G:0.25, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:43341448 original size:28 final size:28
Alignment explanation
Indices: 43341416--43341479 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
43341406 ATGTACTAGA
*
43341416 ATACCCCTATGTATACAAAATTACCATT
1 ATACCCCTATGTATACAAAAATACCATT
* *
43341444 ATACCCCTATGTATGCAAAAATACCGTT
1 ATACCCCTATGTATACAAAAATACCATT
43341472 ATACCCCT
1 ATACCCCT
43341480 CGGGTTAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.36, C:0.28, G:0.06, T:0.30
Consensus pattern (28 bp):
ATACCCCTATGTATACAAAAATACCATT
Found at i:43341617 original size:28 final size:26
Alignment explanation
Indices: 43341586--43341675 Score: 90
Period size: 28 Copynumber: 3.2 Consensus size: 26
43341576 AGGAAGCGTC
*
43341586 CTGGTGGTTATGCCACAAATTATCTGTT
1 CTGGTGG-CATGCCACAAA-TATCTGTT
* *
43341614 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGG-CATGCCACAAATATCTGTT
*
43341641 CTTGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCA-TGCCAC-AAATATCTGT-T
43341670 CTGGTG
1 CTGGTG
43341676 ACTCTGTCAC
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
26 1 0.02
27 20 0.39
28 24 0.47
29 6 0.12
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.34
Consensus pattern (26 bp):
CTGGTGGCATGCCACAAATATCTGTT
Found at i:43341647 original size:27 final size:27
Alignment explanation
Indices: 43341596--43341675 Score: 106
Period size: 27 Copynumber: 2.9 Consensus size: 27
43341586 CTGGTGGTTA
*
43341596 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAA-TATCTGTTCTGGTGGCAC
* *
43341624 TGCCACATATATCTGTTCTTGTGGCAC
1 TGCCACAAATATCTGTTCTGGTGGCAC
43341651 TGCCACAAAATATCTGTATCTGGTG
1 TGCCAC-AAATATCTGT-TCTGGTG
43341676 ACTCTGTCAC
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
27 22 0.49
28 17 0.38
29 6 0.13
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.34
Consensus pattern (27 bp):
TGCCACAAATATCTGTTCTGGTGGCAC
Found at i:43345983 original size:14 final size:15
Alignment explanation
Indices: 43345966--43345994 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
43345956 TTACGAAAAT
43345966 TTCACACAC-ATAAA
1 TTCACACACAATAAA
43345980 TTCACACACAATAAA
1 TTCACACACAATAAA
43345995 CACAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.28, G:0.00, T:0.21
Consensus pattern (15 bp):
TTCACACACAATAAA
Found at i:43349300 original size:42 final size:43
Alignment explanation
Indices: 43349181--43349334 Score: 125
Period size: 43 Copynumber: 3.6 Consensus size: 43
43349171 CATAGGATTC
* * * * **
43349181 CGATATATG-TTATCATGTAAGACTACGTCTGGGACGTTGGCAT
1 CGATATATGATT-TCATGTAAGACCATGTTTAGGAAATTGGCAT
* * *
43349224 CGATTTGTGATTTACGTGTAAGACCATGTTTAGGAAATTGGCAT
1 CGATATATGATTT-CATGTAAGACCATGTTTAGGAAATTGGCAT
* * *
43349268 CG-TATATGATTTCATGTAAGACCCT-TTCTAGGACAGTGGCAT
1 CGATATATGATTTCATGTAAGACCATGTT-TAGGAAATTGGCAT
* * *
43349310 CGATATTTGATTACATGAAAGACCA
1 CGATATATGATTTCATGTAAGACCA
43349335 CATCTGGGAT
Statistics
Matches: 88, Mismatches: 19, Indels: 8
0.77 0.17 0.07
Matches are distributed among these distances:
41 2 0.02
42 25 0.28
43 34 0.39
44 27 0.31
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.33
Consensus pattern (43 bp):
CGATATATGATTTCATGTAAGACCATGTTTAGGAAATTGGCAT
Found at i:43349321 original size:43 final size:43
Alignment explanation
Indices: 43349218--43349334 Score: 123
Period size: 42 Copynumber: 2.7 Consensus size: 43
43349208 TCTGGGACGT
* *
43349218 TGGCATCGAT-TTGTGATTTACGTGTAAGACCATGTTTAGGAAAT
1 TGGCATCGATATT-TGATTT-CATGTAAGACCATGTTTAGGAAAG
* * *
43349262 TGGCATCG-TATATGATTTCATGTAAGACCCT-TTCTAGGACAG
1 TGGCATCGATATTTGATTTCATGTAAGACCATGTT-TAGGAAAG
* *
43349304 TGGCATCGATATTTGATTACATGAAAGACCA
1 TGGCATCGATATTTGATTTCATGTAAGACCA
43349335 CATCTGGGAT
Statistics
Matches: 61, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
41 2 0.03
42 25 0.41
43 25 0.41
44 9 0.15
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.33
Consensus pattern (43 bp):
TGGCATCGATATTTGATTTCATGTAAGACCATGTTTAGGAAAG
Found at i:43349553 original size:14 final size:14
Alignment explanation
Indices: 43349534--43349563 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
43349524 AACGAATGAT
43349534 ATGAATGTATATAA
1 ATGAATGTATATAA
43349548 ATGAATGTATATAA
1 ATGAATGTATATAA
43349562 AT
1 AT
43349564 TGTGGTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (14 bp):
ATGAATGTATATAA
Found at i:43351671 original size:47 final size:47
Alignment explanation
Indices: 43351620--43351752 Score: 162
Period size: 46 Copynumber: 2.9 Consensus size: 47
43351610 GAATTATGGG
*
43351620 GCATCTAAACTCGTTGAGTTGCGTTTTGAGTTCACCTATGGATGC-AA
1 GCATCTGAACTCGTTGAGTTGCGTTTTGAGTTCA-CTATGGATGCGAA
* * * *
43351667 GCATCCGAACTCGTTGAGTTGTGTTCTGAGTTCATTATGGATGCGAA
1 GCATCTGAACTCGTTGAGTTGCGTTTTGAGTTCACTATGGATGCGAA
* * * *
43351714 -CACCTGAGCTCGTTGAGTTGCGTTTCGAGTTCATTATGG
1 GCATCTGAACTCGTTGAGTTGCGTTTTGAGTTCACTATGG
43351753 GTGAGATTAT
Statistics
Matches: 74, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
46 42 0.57
47 32 0.43
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (47 bp):
GCATCTGAACTCGTTGAGTTGCGTTTTGAGTTCACTATGGATGCGAA
Found at i:43355311 original size:15 final size:15
Alignment explanation
Indices: 43355288--43355357 Score: 72
Period size: 15 Copynumber: 4.7 Consensus size: 15
43355278 GTATTGTATC
*
43355288 TTGGGTTTCTTTATT
1 TTGGATTTCTTTATT
43355303 TTGGATTTCTTTATT
1 TTGGATTTCTTTATT
* * *
43355318 CTAGG-TTTCTCTATC
1 -TTGGATTTCTTTATT
43355333 TTGGATTTCTTTA-T
1 TTGGATTTCTTTATT
*
43355347 TTGGTTTTCTT
1 TTGGATTTCTT
43355358 GTTATCTTTA
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
14 13 0.29
15 29 0.64
16 3 0.07
ACGTcount: A:0.10, C:0.11, G:0.16, T:0.63
Consensus pattern (15 bp):
TTGGATTTCTTTATT
Found at i:43355327 original size:30 final size:30
Alignment explanation
Indices: 43355291--43355347 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
43355281 TTGTATCTTG
* *
43355291 GGTTTCTTTATTTTGGATTTCTTTATTCTA
1 GGTTTCTCTATCTTGGATTTCTTTATTCTA
43355321 GGTTTCTCTATCTTGGATTTCTTTATT
1 GGTTTCTCTATCTTGGATTTCTTTATT
43355348 TGGTTTTCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.12, C:0.12, G:0.14, T:0.61
Consensus pattern (30 bp):
GGTTTCTCTATCTTGGATTTCTTTATTCTA
Found at i:43361105 original size:43 final size:42
Alignment explanation
Indices: 43361015--43361128 Score: 115
Period size: 43 Copynumber: 2.7 Consensus size: 42
43361005 TTACATACCG
* * * * *
43361015 ATGCCACTATCCCAGACAGGGTCTTACACGAAATAGATTAATG
1 ATGCCAATGTCCCAAACATGGTCTTACACGAAATAGA-TAATA
*
43361058 ATGCCGAA-GTCCCAAACATGGTCTTACACGAAATCG-TAATACA
1 ATGCC-AATGTCCCAAACATGGTCTTACACGAAATAGATAAT--A
*
43361101 ATGCCAATGTCCCAAACATGTTCTTACA
1 ATGCCAATGTCCCAAACATGGTCTTACA
43361129 TGTAATCACA
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
41 4 0.07
42 2 0.03
43 53 0.88
44 1 0.02
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (42 bp):
ATGCCAATGTCCCAAACATGGTCTTACACGAAATAGATAATA
Found at i:43375905 original size:27 final size:26
Alignment explanation
Indices: 43375857--43375916 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
43375847 GCGAGGCTGC
*
43375857 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
43375884 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
43375910 TAGATAT
1 CAGATAT
43375917 ATATATGTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:43376012 original size:67 final size:67
Alignment explanation
Indices: 43375917--43376089 Score: 267
Period size: 67 Copynumber: 2.6 Consensus size: 67
43375907 GAATAGATAT
* * *
43375917 ATATATGTGGCGAA-GCCACTAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAA
1 ATATATGTGGC-AAGGCCACCAGATTGCAGCGAGGCTGCCAAATACTGTGACGAAGTCACCAGAA
43375981 CAG
65 CAG
*
43375984 TTATATGTGGCAAGGCCACCAGATTGCAGCGAGGCTGCCAAATACTGTGACGAAGTCACCAGAAC
1 ATATATGTGGCAAGGCCACCAGATTGCAGCGAGGCTGCCAAATACTGTGACGAAGTCACCAGAAC
43376049 AG
66 AG
** *
43376051 ATATATGTGGTGAGGCCACCAGATTGCAGTGAGGCTGCC
1 ATATATGTGGCAAGGCCACCAGATTGCAGCGAGGCTGCC
43376090 TGTAACGCCC
Statistics
Matches: 97, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
66 2 0.02
67 95 0.98
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (67 bp):
ATATATGTGGCAAGGCCACCAGATTGCAGCGAGGCTGCCAAATACTGTGACGAAGTCACCAGAAC
AG
Found at i:43377457 original size:46 final size:46
Alignment explanation
Indices: 43377390--43377564 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
43377380 TGTAACCCAC
*
43377390 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGGCGTTCGCAT
* * *
43377436 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC--A-GGC--GTTCGCAT
* *
43377486 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTC-GGACTTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGG-CGTTCGCAT
*
43377529 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAG
43377565 ATGCTCAATC
Statistics
Matches: 107, Mismatches: 11, Indels: 21
0.77 0.08 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 58 0.54
47 27 0.25
48 3 0.03
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGGCGTTCGCAT
Found at i:43377509 original size:93 final size:93
Alignment explanation
Indices: 43377397--43377568 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
43377387 CACCCATAAG
43377397 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACGTTCGCATCCATAAGTGAACTCGGACTCAACTC
*
43377461 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCAGATGCCTAGTTACATCTCA
* *
43377490 CGAACTCGGACTCAACTCAACGAGTTCGGACTTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
43377555 ACGAGTTCAGATGC
66 ACGAGTTCAGATGC
43377569 TCAATCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCAGATGCCTAGTTACATCTCA
Found at i:43385069 original size:93 final size:93
Alignment explanation
Indices: 43384957--43385128 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
43384947 CGCCCATAAG
*
43384957 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
43385021 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
43385050 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
43385115 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
43385129 TCAATCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:43385123 original size:46 final size:46
Alignment explanation
Indices: 43384950--43385125 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
43384940 TGTAACCCGC
* *
43384950 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
43384996 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
43385046 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
43385089 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
43385126 TGCTCAATCA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 61 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:43387080 original size:27 final size:27
Alignment explanation
Indices: 43387060--43387112 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
43387050 TCGGTAGTCT
*
43387060 TACCTTACAGGGGCATTTCGGTAATTC
1 TACCTTACAAGGGCATTTCGGTAATTC
* *
43387087 TACCTTACAAGGGTATTTCTGTAATT
1 TACCTTACAAGGGCATTTCGGTAATT
43387113 TTGTAAATCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.38
Consensus pattern (27 bp):
TACCTTACAAGGGCATTTCGGTAATTC
Found at i:43387124 original size:27 final size:27
Alignment explanation
Indices: 43387094--43387250 Score: 108
Period size: 27 Copynumber: 5.8 Consensus size: 27
43387084 TTCTACCTTA
*
43387094 CAAGGGTATTTCTGTAATTTTGTAAAT
1 CAAGGGTATTTCTGTAATTTTATAAAT
*** *
43387121 CAAGGGTAAAACAGTAATTTTATAAAT
1 CAAGGGTATTTCTGTAATTTTATAAAT
* * * *
43387148 CGAGGGTATTTTTGTAATTTTACAAAC
1 CAAGGGTATTTCTGTAATTTTATAAAT
* *
43387175 CAGGGGTATTT-TGGTAATTTTACAAA-
1 CAAGGGTATTTCT-GTAATTTTATAAAT
* * *
43387201 CTAGGGGTATTT-TGGTAGTTTTACAAA-
1 C-AAGGGTATTTCT-GTAATTTTATAAAT
43387228 CTAAGGGTATTT-TGGTAATTTTA
1 C-AAGGGTATTTCT-GTAATTTTA
43387251 CAACTTATCC
Statistics
Matches: 110, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
26 2 0.02
27 108 0.98
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTCTGTAATTTTATAAAT
Found at i:43387192 original size:54 final size:54
Alignment explanation
Indices: 43387134--43387253 Score: 170
Period size: 54 Copynumber: 2.2 Consensus size: 54
43387124 GGGTAAAACA
* * *
43387134 GTAATTTTATAAATCGA-GGGTATTTTTGTAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTACAAA-CGAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTG
* * *
43387188 GTAATTTTACAAACTAGGGGTATTTTGGTAGTTTTACAAACTAAGGGTATTTTG
1 GTAATTTTACAAACGAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTG
43387242 GTAATTTTACAA
1 GTAATTTTACAA
43387254 CTTATCCACT
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
53 2 0.03
54 57 0.97
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (54 bp):
GTAATTTTACAAACGAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTG
Found at i:43387251 original size:27 final size:27
Alignment explanation
Indices: 43387150--43387253 Score: 163
Period size: 27 Copynumber: 3.9 Consensus size: 27
43387140 TTATAAATCG
* *
43387150 AGGGTATTTTTGTAATTTTACAAACCA
1 AGGGTATTTTGGTAATTTTACAAACTA
*
43387177 GGGGTATTTTGGTAATTTTACAAACTA
1 AGGGTATTTTGGTAATTTTACAAACTA
* *
43387204 GGGGTATTTTGGTAGTTTTACAAACTA
1 AGGGTATTTTGGTAATTTTACAAACTA
43387231 AGGGTATTTTGGTAATTTTACAA
1 AGGGTATTTTGGTAATTTTACAA
43387254 CTTATCCACT
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 71 1.00
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTACAAACTA
Found at i:43389552 original size:49 final size:49
Alignment explanation
Indices: 43389480--43389623 Score: 200
Period size: 49 Copynumber: 2.9 Consensus size: 49
43389470 GCCGAAGCTA
*
43389480 TCTGGTACGCATAGTAGCCTGCACTTAGAACTACACATGCGACCAACAG-
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC-ACAGT
* * * *
43389529 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTT
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCACAG--T
*
43389580 TCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
43389624 TCACAATAGA
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
48 4 0.05
49 39 0.48
51 39 0.48
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (49 bp):
TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCACAGT
Found at i:43389605 original size:51 final size:49
Alignment explanation
Indices: 43389483--43389623 Score: 185
Period size: 51 Copynumber: 2.8 Consensus size: 49
43389473 GAAGCTATCT
* * *
43389483 GGTACGCATAGTAGCCTGCACTTAGAACTACACATGCGACCAACAGTCT
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCG
* * *
43389532 GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTCG
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG---TCG
*
43389583 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACC
43389624 TCACAATAGA
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
48 4 0.05
49 36 0.46
51 39 0.49
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (49 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCG
Found at i:43392311 original size:25 final size:25
Alignment explanation
Indices: 43392281--43392331 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
43392271 TTATATTGTC
43392281 CTTAATTCTCTCCCATACTTATACA
1 CTTAATTCTCTCCCATACTTATACA
43392306 CTTAATTCTCTCCCATACTTATACA
1 CTTAATTCTCTCCCATACTTATACA
43392331 C
1 C
43392332 ATTATAGACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.39
Consensus pattern (25 bp):
CTTAATTCTCTCCCATACTTATACA
Found at i:43393642 original size:167 final size:167
Alignment explanation
Indices: 43393361--43393687 Score: 512
Period size: 167 Copynumber: 2.0 Consensus size: 167
43393351 ATTCCAAAAT
* * * *
43393361 CATTCTGACTCTGTCTCACAAAAATCCAATTGTCATATAATATGAAATTCTTTTTCCTTCGATGT
1 CATTCTGACTCTGTCTCACAAAAATCCAATTATCACAAAATATGAAATTCTTTTGCCTTCGATGT
* * * * *
43393426 TTCTTTTATGAGAACATAGAGTCATTAAGATTTAATTTCATATCTTGTTCAACCTCAAATTCAAT
66 TTCTTTGATGAGAAAATAGACTAATTAAGATTTAATTTAATATCTTGTTCAACCTCAAATTCAAT
43393491 TTCTACCATTTTTGATGATTTTTCAAAGTCACACAAC
131 TTCTACCATTTTTGATGATTTTTCAAAGTCACACAAC
*
43393528 CATTTTGACTCTGTCTCACAAAAATCCAATTATCACAAAATATGAAATTCTTTTGCCTTC-ATCG
1 CATTCTGACTCTGTCTCACAAAAATCCAATTATCACAAAATATGAAATTCTTTTGCCTTCGAT-G
* * *
43393592 TTTCTTTGATGATAAAATAGACTAATTAAGCTTTAATTTAATATCTTGTTCAACCTCTAATTCAA
65 TTTCTTTGATGAGAAAATAGACTAATTAAGATTTAATTTAATATCTTGTTCAACCTCAAATTCAA
*
43393657 TTTCTACCATTTTTGGTGATTTTTCAAAGTC
130 TTTCTACCATTTTTGATGATTTTTCAAAGTC
43393688 CAAAATTGCT
Statistics
Matches: 145, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
166 2 0.01
167 143 0.99
ACGTcount: A:0.31, C:0.19, G:0.09, T:0.41
Consensus pattern (167 bp):
CATTCTGACTCTGTCTCACAAAAATCCAATTATCACAAAATATGAAATTCTTTTGCCTTCGATGT
TTCTTTGATGAGAAAATAGACTAATTAAGATTTAATTTAATATCTTGTTCAACCTCAAATTCAAT
TTCTACCATTTTTGATGATTTTTCAAAGTCACACAAC
Found at i:43394125 original size:51 final size:51
Alignment explanation
Indices: 43394059--43394186 Score: 220
Period size: 51 Copynumber: 2.5 Consensus size: 51
43394049 CTGATACAAG
*
43394059 TAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTAACGGGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTAACGGGTACGCA
* **
43394110 TAGTAGCCTGCACTTATTACTACACACGTGATTGAAGTTAACGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTAACGGGTACGCA
43394161 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
43394187 TGCGACCTAT
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 72 1.00
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (51 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTAACGGGTACGCA
Found at i:43394237 original size:50 final size:50
Alignment explanation
Indices: 43393959--43394242 Score: 250
Period size: 50 Copynumber: 5.6 Consensus size: 50
43393949 CTGGTATGCA
* *
43393959 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGGTACACG
* * * * * * * * *
43394009 TATTAGCTTGTACTTAGTACTACACACATGACTTAACCATCTGATACAAG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGGTACACG
** * * ** *
43394059 TAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTAA-CGGGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCTA-TCAATCTGGTACACG
* * * * * *
43394110 TAGTAGCCTGCACTTATTACTACACACGTGA-TTGAAGTTAA-CGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT--A-TCAATCTGGTACACG
* * *
43394161 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATATGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGGTACACG
*
43394211 TAGTAGCCTGCACTTAGTACTACACATGTGAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGAC
43394243 TCATAATGAA
Statistics
Matches: 188, Mismatches: 40, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
49 3 0.02
50 104 0.55
51 79 0.42
52 2 0.01
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.28
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGGTACACG
Found at i:43394615 original size:19 final size:20
Alignment explanation
Indices: 43394587--43394633 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
43394577 AAGAGCATGT
43394587 TATATCATCAAAATAATCACA
1 TATAT-ATCAAAATAATCACA
* *
43394608 TA-ATATCAAATTATTCACA
1 TATATATCAAAATAATCACA
43394627 TATATAT
1 TATATAT
43394634 ACTTACAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
TATATATCAAAATAATCACA
Found at i:43397224 original size:16 final size:16
Alignment explanation
Indices: 43397205--43397236 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
43397195 AATTGTTTTA
43397205 TTACAGAATTTCACTT
1 TTACAGAATTTCACTT
*
43397221 TTACATAATTTCACTT
1 TTACAGAATTTCACTT
43397237 ACTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.19, G:0.03, T:0.47
Consensus pattern (16 bp):
TTACAGAATTTCACTT
Found at i:43399945 original size:43 final size:43
Alignment explanation
Indices: 43399896--43399977 Score: 155
Period size: 43 Copynumber: 1.9 Consensus size: 43
43399886 TTCGTCCCCG
*
43399896 AAAATTTTACTGTTAAATAGATTCGGATATTGTTGTCTCCTCA
1 AAAATTTTACTGTTAAATAGATTCGGAAATTGTTGTCTCCTCA
43399939 AAAATTTTACTGTTAAATAGATTCGGAAATTGTTGTCTC
1 AAAATTTTACTGTTAAATAGATTCGGAAATTGTTGTCTC
43399978 ATTGAATCTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (43 bp):
AAAATTTTACTGTTAAATAGATTCGGAAATTGTTGTCTCCTCA
Found at i:43404714 original size:17 final size:18
Alignment explanation
Indices: 43404689--43404722 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
43404679 AAAGTCTTTC
43404689 TCTTGTAAAACATTATTA
1 TCTTGTAAAACATTATTA
*
43404707 TCTT-TAAAACTTTATT
1 TCTTGTAAAACATTATT
43404723 TGCTGCGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.35, C:0.12, G:0.03, T:0.50
Consensus pattern (18 bp):
TCTTGTAAAACATTATTA
Found at i:43405421 original size:22 final size:22
Alignment explanation
Indices: 43405391--43405473 Score: 76
Period size: 22 Copynumber: 3.8 Consensus size: 22
43405381 AAGTCAACAA
*
43405391 GACGGCTCAATGCCGTAGACAG
1 GACGACTCAATGCCGTAGACAG
** * *
43405413 GACGACTCAACACCGTATATAG
1 GACGACTCAATGCCGTAGACAG
* * *
43405435 GATGACTCAATGTCGTAGACAA
1 GACGACTCAATGCCGTAGACAG
* *
43405457 GACGACTAAAGGCCGTA
1 GACGACTCAATGCCGTA
43405474 AATATCGCAG
Statistics
Matches: 45, Mismatches: 16, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.34, C:0.24, G:0.25, T:0.17
Consensus pattern (22 bp):
GACGACTCAATGCCGTAGACAG
Found at i:43408762 original size:39 final size:39
Alignment explanation
Indices: 43408703--43408872 Score: 196
Period size: 39 Copynumber: 4.3 Consensus size: 39
43408693 GTATGAGATT
* * * * *
43408703 GAAAATATATCCAGATATGAGGTCCGTAGGCTATATGCTG
1 GAAAA-ATATCCGGACATGAGATCCGCAGGCTATATGCTA
43408743 GAAAAATATCCGGACATGAGATCCGCAGGCTATATGCTA
1 GAAAAATATCCGGACATGAGATCCGCAGGCTATATGCTA
* * * *
43408782 GAAATATATTCGGACTTGAGATCCACAGGCTATATGCTA
1 GAAAAATATCCGGACATGAGATCCGCAGGCTATATGCTA
* * * ** *
43408821 GAAATATATCCGGACTTGAGGTCCGCAGGCTACGTGCTG
1 GAAAAATATCCGGACATGAGATCCGCAGGCTATATGCTA
43408860 GAAAAATATCCGG
1 GAAAAATATCCGG
43408873 GTTAAAGACC
Statistics
Matches: 114, Mismatches: 16, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 109 0.96
40 5 0.04
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (39 bp):
GAAAAATATCCGGACATGAGATCCGCAGGCTATATGCTA
Found at i:43408886 original size:78 final size:78
Alignment explanation
Indices: 43408730--43408898 Score: 207
Period size: 78 Copynumber: 2.2 Consensus size: 78
43408720 TGAGGTCCGT
* * * *
43408730 AGGCTATATGCTGGAAAAATATCCGGACATGAGATCCGCAGGCTATATGCTAGAAATATATTCGG
1 AGGCTATATGCTAGAAAAATATCCGGACATGAGATCCGCAGGCTACATGCTAGAAAAATATCCGG
* *
43408795 ACTTGAGATCCAC
66 ACTTAAGACCCAC
* * * * *
43408808 AGGCTATATGCTAGAAATATATCCGGACTTGAGGTCCGCAGGCTACGTGCTGGAAAAATATCCGG
1 AGGCTATATGCTAGAAAAATATCCGGACATGAGATCCGCAGGCTACATGCTAGAAAAATATCCGG
*
43408873 -GTTAAAGACCCAC
66 ACTT-AAGACCCAC
43408886 AGGCT-TATGCTAG
1 AGGCTATATGCTAG
43408899 TAATGTATTC
Statistics
Matches: 78, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
77 10 0.13
78 68 0.87
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (78 bp):
AGGCTATATGCTAGAAAAATATCCGGACATGAGATCCGCAGGCTACATGCTAGAAAAATATCCGG
ACTTAAGACCCAC
Found at i:43410905 original size:47 final size:47
Alignment explanation
Indices: 43410827--43411259 Score: 668
Period size: 47 Copynumber: 9.1 Consensus size: 47
43410817 CCCTTCGGGA
* * * * * *
43410827 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
43410874 CCTGTCACATATATACACTTCCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
43410921 CTTATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
43410968 CCTGTCACATATATATACACTTCCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43411017 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43411064 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43411111 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43411160 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43411207 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43411256 CTTA
1 CTTA
43411260 CTATCATTTC
Statistics
Matches: 354, Mismatches: 26, Indels: 10
0.91 0.07 0.03
Matches are distributed among these distances:
47 224 0.63
49 130 0.37
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:43411096 original size:143 final size:143
Alignment explanation
Indices: 43410829--43411256 Score: 680
Period size: 143 Copynumber: 3.0 Consensus size: 143
43410819 CTTCGGGACT
* * * * * * *
43410829 TATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* * *
43410892 TTCCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACGTT
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
*
43410957 GGCCACTCGGCCC
131 GGCCACTAGGCCC
* *
43410970 TGTCACATATATATACACTTCCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
43411035 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
* *
43411100 GGCCATTAGGCCT
131 GGCCACTAGGCCC
43411113 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
43411178 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
*
43411243 TCGGCCATTAGGCC
129 TCGGCCACTAGGCC
43411257 TTACTATCAT
Statistics
Matches: 266, Mismatches: 17, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
141 7 0.03
142 1 0.00
143 218 0.82
145 40 0.15
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.31
Consensus pattern (143 bp):
TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCACTAGGCCC
Found at i:43411257 original size:96 final size:96
Alignment explanation
Indices: 43410827--43411259 Score: 671
Period size: 96 Copynumber: 4.6 Consensus size: 96
43410817 CCCTTCGGGA
* * * * * * *
43410827 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
43410890 ACTTCCACATTCATCACATCGGCCATTAGGC
66 ACTTCCACATTCATCACATCGGCCATTAGGC
* * * * * *
43410921 CTTATCAC--ATATATACACTTTCACATTCATCACGTTGGCCACTCGGCCCTGTCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
43410984 ACACTTCCACATTCATCACATCGGCCATTAGGC
64 ACACTTCCACATTCATCACATCGGCCATTAGGC
43411017 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
43411080 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTCCACATTCATCACATCGGCCATTAGGC
43411111 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
43411176 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTCCACATTCATCACATCGGCCATTAGGC
43411207 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
43411260 CTATCATTTC
Statistics
Matches: 325, Mismatches: 8, Indels: 10
0.95 0.02 0.03
Matches are distributed among these distances:
93 1 0.00
94 97 0.30
96 227 0.70
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.31
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTCCACATTCATCACATCGGCCATTAGGC
Found at i:43421040 original size:39 final size:39
Alignment explanation
Indices: 43420984--43421153 Score: 180
Period size: 39 Copynumber: 4.3 Consensus size: 39
43420974 GTATGAGATT
* * *
43420984 GAAAATATATCCAGACATGACG-TACGCAGGCTATATTCTG
1 GAAAA-ATATCCGGACATGA-GATTCGCAGGCTATATGCTG
* * *
43421024 GAAAAATATCCGGACATGAGCTCCGCAGGCTATATGCTA
1 GAAAAATATCCGGACATGAGATTCGCAGGCTATATGCTG
* * * *
43421063 GAAATATATCCGGACATGAGATTCGCAAGCTATATACTT
1 GAAAAATATCCGGACATGAGATTCGCAGGCTATATGCTG
* * * **
43421102 GAAATATATCCGGACTTGAGGTTCGCAGGCTACGTGCTG
1 GAAAAATATCCGGACATGAGATTCGCAGGCTATATGCTG
43421141 GAAAAATATCCGG
1 GAAAAATATCCGG
43421154 GTTAAAGACC
Statistics
Matches: 111, Mismatches: 18, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
38 1 0.01
39 105 0.95
40 5 0.05
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (39 bp):
GAAAAATATCCGGACATGAGATTCGCAGGCTATATGCTG
Found at i:43421115 original size:78 final size:78
Alignment explanation
Indices: 43420986--43421153 Score: 203
Period size: 78 Copynumber: 2.2 Consensus size: 78
43420976 ATGAGATTGA
* * *
43420986 AAATATATCCAGACATGACGTACGCAGGCTATATTCTGGAAAAATATCCGGACATGAGCTCCGCA
1 AAATATATCCGGACATGACGTACGCAAGCTATATACTGGAAAAATATCCGGACATGAGCTCCGCA
*
43421051 GGCTATATGCTAG
66 GGCTACATGCTAG
* * * * * *
43421064 AAATATATCCGGACATGA-GATTCGCAAGCTATATACTTGAAATATATCCGGACTTGAGGTTCGC
1 AAATATATCCGGACATGACG-TACGCAAGCTATATACTGGAAAAATATCCGGACATGAGCTCCGC
* *
43421128 AGGCTACGTGCTGG
65 AGGCTACATGCTAG
*
43421142 AAAAATATCCGG
1 AAATATATCCGG
43421154 GTTAAAGACC
Statistics
Matches: 76, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
77 1 0.01
78 75 0.99
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (78 bp):
AAATATATCCGGACATGACGTACGCAAGCTATATACTGGAAAAATATCCGGACATGAGCTCCGCA
GGCTACATGCTAG
Found at i:43424371 original size:40 final size:40
Alignment explanation
Indices: 43424297--43424468 Score: 215
Period size: 40 Copynumber: 4.3 Consensus size: 40
43424287 GATAATCGGA
* * *
43424297 CTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCCGGG
1 CTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGG
* * * * *
43424337 CTATGTCCTGAAGGCATTTATGCTAG-TGATTATATCCGGG
1 CTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATATCCGGG
*
43424377 CTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGG
1 CTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGG
*
43424417 CTAAGACCCGAAGGGATTTGTGCGAGTTGTTATATCC-GG
1 CTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGG
43424456 CTAA-ATCCCGAAG
1 CTAAGA-CCCGAAG
43424469 ATACTTGGGT
Statistics
Matches: 113, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
38 1 0.01
39 15 0.13
40 95 0.84
41 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGG
Found at i:43424719 original size:22 final size:22
Alignment explanation
Indices: 43424679--43424720 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
43424669 GAATGTGCAT
*
43424679 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
43424701 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
43424721 TCAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:43427741 original size:39 final size:39
Alignment explanation
Indices: 43427696--43427852 Score: 260
Period size: 39 Copynumber: 4.0 Consensus size: 39
43427686 AAGCAAGACA
*
43427696 CTGGAAATGTATCCGGGCTAAAGGCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
43427735 CTGGAAATGTATCCTGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
43427774 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* ** *
43427813 CTGGAAATGTATCTGGGCTAAAGTCCTTCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
43427852 C
1 C
43427853 CAGTAACATA
Statistics
Matches: 111, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 111 1.00
ACGTcount: A:0.20, C:0.24, G:0.30, T:0.25
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:43430035 original size:12 final size:12
Alignment explanation
Indices: 43430018--43430046 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
43430008 GTTCATTGTA
43430018 TGTTTGACTGTT
1 TGTTTGACTGTT
43430030 TGTTTGACTGTT
1 TGTTTGACTGTT
43430042 TGTTT
1 TGTTT
43430047 ATTAAGGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.07, G:0.24, T:0.62
Consensus pattern (12 bp):
TGTTTGACTGTT
Found at i:43436247 original size:19 final size:19
Alignment explanation
Indices: 43436223--43436260 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
43436213 TTACACCGTT
43436223 TCTTCTATGTGAAACTAGA
1 TCTTCTATGTGAAACTAGA
43436242 TCTTCTATGTGAAACTAGA
1 TCTTCTATGTGAAACTAGA
43436261 CTCATTAAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (19 bp):
TCTTCTATGTGAAACTAGA
Found at i:43437701 original size:20 final size:18
Alignment explanation
Indices: 43437664--43437714 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
43437654 CTATAGAAAC
43437664 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
43437681 TCACACATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
43437701 TTACAACTTTACAA
1 TCACAA-TTTACAA
43437715 AAAAACGTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:43439009 original size:22 final size:22
Alignment explanation
Indices: 43438981--43439024 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
43438971 GTGGCACACA
*
43438981 GAGGGGCAACACGCCCGTGTGG
1 GAGGGGCAACACGCCCATGTGG
43439003 GAGGGGCAACACGCCCATGTGG
1 GAGGGGCAACACGCCCATGTGG
43439025 CCATTCCAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.27, G:0.43, T:0.09
Consensus pattern (22 bp):
GAGGGGCAACACGCCCATGTGG
Found at i:43453619 original size:15 final size:15
Alignment explanation
Indices: 43453599--43453655 Score: 80
Period size: 15 Copynumber: 3.8 Consensus size: 15
43453589 TATCGTATCT
43453599 TGGATTTCTTTATTC
1 TGGATTTCTTTATTC
43453614 TGGATTTCTTTATTC
1 TGGATTTCTTTATTC
* *
43453629 TGGGTTTCTCTA-TC
1 TGGATTTCTTTATTC
43453643 TTGGATTTCTTTA
1 -TGGATTTCTTTA
43453656 CTCAGTTTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
14 2 0.05
15 35 0.95
ACGTcount: A:0.12, C:0.14, G:0.16, T:0.58
Consensus pattern (15 bp):
TGGATTTCTTTATTC
Found at i:43456474 original size:56 final size:54
Alignment explanation
Indices: 43456375--43456531 Score: 165
Period size: 56 Copynumber: 2.8 Consensus size: 54
43456365 TTTGATGACA
** * * *
43456375 TGATACATGCTACATCCGAGAGCTTGTGTAG-CCTCGTTGAGAGGCATGCAATTATG
1 TGATACATGCTAGGTCCGGGAGCTTATGTAGCCCT-ATTGAGAGGCATG--ATTATG
* *
43456431 TTG-TACATGCTAGGTCCGGGAGCTTATGTAGCCCTATTAAGAGGCATGGTTATG
1 -TGATACATGCTAGGTCCGGGAGCTTATGTAGCCCTATTGAGAGGCATGATTATG
* *
43456485 TGATGCATGCTAGGTCCGGGTGCTCTTATGTAGCCCTATTGAGAGGC
1 TGATACATGCTAGGTCCGGGAG--CTTATGTAGCCCTATTGAGAGGC
43456532 GTGCTATATG
Statistics
Matches: 86, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
53 2 0.02
54 22 0.26
56 57 0.66
57 5 0.06
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (54 bp):
TGATACATGCTAGGTCCGGGAGCTTATGTAGCCCTATTGAGAGGCATGATTATG
Found at i:43459488 original size:47 final size:45
Alignment explanation
Indices: 43459390--43459553 Score: 159
Period size: 46 Copynumber: 3.5 Consensus size: 45
43459380 GTGCCGATGC
* * *
43459390 CATGTCCCAGACACGGTCTTACACTGGCTTACATATCAAGTCGAAG
1 CATGTCCCAGACA-TGTCTTACACTGGCTTACATCTCAAGCCGAAG
* * *
43459436 CCATGTCCTAGACATGGTCTTACACTGAC-TATCATCTCATAGCCGACG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTTA-CATCTCA-AGCCGAAG
* * * * * *
43459484 CATGTCCCAAACATGTCTTACATTGGCTTCCGTCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTTACATCTC-AAGCCGAAG
43459530 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
43459554 AGCACTCGTC
Statistics
Matches: 96, Mismatches: 16, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
46 46 0.48
47 44 0.46
48 6 0.06
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.27
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTGGCTTACATCTCAAGCCGAAG
Found at i:43459564 original size:46 final size:46
Alignment explanation
Indices: 43459382--43459598 Score: 136
Period size: 47 Copynumber: 4.6 Consensus size: 46
43459372 GTGGTAAGGT
* * * * * *
43459382 GCCGATGCCATGTCCCAGACACGGTCTTACACTGGCTTACATATCAA-
1 GCCGATG-CATGTCCCAGACA-TGTCTTACACTAGCCTCCGTCTCAAG
* * * * * *
43459429 GTCGAAGCCATGTCCTAGACATGGTCTTACACT-GACTATCATCTCATA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCCT-CCGTCTCA-AG
* * * * * *
43459477 GCCGACGCATGTCCCAAACATGTCTTACATTGGCTTCCGTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCCTCCGTCTCAAG
*
43459523 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACT-CGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC-CTCCGTCTCAAG
**
43459569 TTCGATGCCATGTCCCAGACATGGTCTTAC
1 GCCGATG-CATGTCCCAGACAT-GTCTTAC
43459599 GTTAGCTCTC
Statistics
Matches: 135, Mismatches: 27, Indels: 15
0.76 0.15 0.08
Matches are distributed among these distances:
45 1 0.01
46 58 0.43
47 63 0.47
48 13 0.10
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCCTCCGTCTCAAG
Found at i:43462275 original size:29 final size:29
Alignment explanation
Indices: 43462224--43462299 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
43462214 GCATGAATAT
* *
43462224 AATGTGATTGTAGCCTAATGGGCCACATA
1 AATGTGATTTTAGCCTAAAGGGCCACATA
* * *
43462253 AATGTGATTTTGGCGTAAAGGGCCATATA
1 AATGTGATTTTAGCCTAAAGGGCCACATA
43462282 AATGTGA-TTTAGTCCTAA
1 AATGTGATTTTAG-CCTAA
43462300 TAGGCCATGT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
28 4 0.10
29 35 0.90
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.32
Consensus pattern (29 bp):
AATGTGATTTTAGCCTAAAGGGCCACATA
Found at i:43462305 original size:29 final size:28
Alignment explanation
Indices: 43462220--43462307 Score: 90
Period size: 29 Copynumber: 3.1 Consensus size: 28
43462210 GTGAGCATGA
*
43462220 ATAT-AATGTGATTGTAGCCTAATGGGCC
1 ATATAAATGTGATT-TAGCCTAATAGGCC
* * *
43462248 ACATAAATGTGATTTTGGCGTAA-AGGGCC
1 ATATAAATGTGA-TTTAGCCTAATA-GGCC
43462277 ATATAAATGTGATTTAGTCCTAATAGGCC
1 ATATAAATGTGATTTAG-CCTAATAGGCC
43462306 AT
1 AT
43462308 GTGAATATAA
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
28 7 0.15
29 38 0.79
30 3 0.06
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.32
Consensus pattern (28 bp):
ATATAAATGTGATTTAGCCTAATAGGCC
Found at i:43466843 original size:29 final size:29
Alignment explanation
Indices: 43466761--43466875 Score: 142
Period size: 29 Copynumber: 4.0 Consensus size: 29
43466751 AGCATGAATA
* *
43466761 TAATGTGATTTGGGCCTAATGGGCAACAT
1 TAATGTGATTTGGGCCTAATGGGCCATAT
* *
43466790 AAATGTGATTTGGGCCTAAAGGGCCATAT
1 TAATGTGATTTGGGCCTAATGGGCCATAT
*
43466819 TAATGTGATTTGGGCCTAATGGGCCATGT
1 TAATGTGATTTGGGCCTAATGGGCCATAT
* * * *
43466848 GAATAT-AATTGGGTCTAATGGGCCATAT
1 TAATGTGATTTGGGCCTAATGGGCCATAT
43466876 ACAGGTATGT
Statistics
Matches: 74, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
28 19 0.26
29 55 0.74
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.31
Consensus pattern (29 bp):
TAATGTGATTTGGGCCTAATGGGCCATAT
Found at i:43476975 original size:6 final size:6
Alignment explanation
Indices: 43476952--43477061 Score: 55
Period size: 6 Copynumber: 17.8 Consensus size: 6
43476942 TATCAGTACT
* * * * *
43476952 AGAATC AAAATG AGAATC AGAATC AGGATT AG-GTGAC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * * *
43477001 AGAATC AGGTGAT- AGAATT AGAATC AGAATT AGTATC AGGTAAT- AGAATC
1 AGAATC A-G-AATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC
*
43477051 AAAATC AGAAT
1 AGAATC AGAAT
43477062 GTGAATGTAA
Statistics
Matches: 77, Mismatches: 18, Indels: 18
0.68 0.16 0.16
Matches are distributed among these distances:
5 6 0.08
6 60 0.78
7 6 0.08
8 5 0.06
ACGTcount: A:0.47, C:0.10, G:0.21, T:0.22
Consensus pattern (6 bp):
AGAATC
Found at i:43476993 original size:25 final size:25
Alignment explanation
Indices: 43476964--43477033 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
43476954 AATCAAAATG
*
43476964 AGAATCAGAATCAGGATTAGGTGAC
1 AGAATCAGAATCAGAATTAGGTGAC
* *
43476989 AGAATCAGAATCAGAATCAGGTGAT
1 AGAATCAGAATCAGAATTAGGTGAC
*
43477014 AGAATTAGAATCAGAATTAG
1 AGAATCAGAATCAGAATTAG
43477034 TATCAGGTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.44, C:0.10, G:0.24, T:0.21
Consensus pattern (25 bp):
AGAATCAGAATCAGAATTAGGTGAC
Found at i:43477024 original size:31 final size:31
Alignment explanation
Indices: 43476927--43477061 Score: 114
Period size: 31 Copynumber: 4.4 Consensus size: 31
43476917 TAGCCCATTA
* ** *
43476927 CAGAATAAGAATCATTATCA-GTACTAGAAT
1 CAGAATCAGAATCAGAATCAGGTAATAGAAT
* * * *
43476957 CAAAATGAGAATCAGAATCAGG-ATTAG-GT
1 CAGAATCAGAATCAGAATCAGGTAATAGAAT
*
43476986 GACAGAATCAGAATCAGAATCAGGTGATAGAAT
1 --CAGAATCAGAATCAGAATCAGGTAATAGAAT
* * *
43477019 TAGAATCAGAATTAGTATCAGGTAATAGAAT
1 CAGAATCAGAATCAGAATCAGGTAATAGAAT
*
43477050 CAAAATCAGAAT
1 CAGAATCAGAAT
43477062 GTGAATGTAA
Statistics
Matches: 83, Mismatches: 17, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
29 1 0.01
30 20 0.24
31 58 0.70
32 3 0.04
33 1 0.01
ACGTcount: A:0.47, C:0.11, G:0.19, T:0.23
Consensus pattern (31 bp):
CAGAATCAGAATCAGAATCAGGTAATAGAAT
Found at i:43477227 original size:27 final size:26
Alignment explanation
Indices: 43477179--43477238 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
43477169 GCGAGGCTGC
*
43477179 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
43477206 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
43477232 CAAATAT
1 CAGATAT
43477239 ATATATGTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Done.