Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
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: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 151 of 210
Found at i:45965764 original size:2 final size:2
Alignment explanation
Indices: 45965757--45965795 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
45965747 TTTAGGATAA
* *
45965757 AT AT AT AT AC AT AT AT AC AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
45965796 CCGTTATCTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:45967831 original size:19 final size:19
Alignment explanation
Indices: 45967807--45967844 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
45967797 AAAGCAATGG
45967807 TAGTTT-TAATTATAGTTAT
1 TAGTTTCTAATTAT-GTTAT
*
45967826 TAGTTTCTAGTTATGTTAT
1 TAGTTTCTAATTATGTTAT
45967845 GATGTATGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.26, C:0.03, G:0.13, T:0.58
Consensus pattern (19 bp):
TAGTTTCTAATTATGTTAT
Found at i:45968586 original size:33 final size:33
Alignment explanation
Indices: 45968548--45968610 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
45968538 AACATGCTAT
45968548 ATAATAA-ATA-ATGAAATGTAAAATATAAAATTA
1 ATAATAATATATATGAAAT-TAAAA-ATAAAATTA
45968581 ATAATAATATATATGAAATTAAAAATAAAA
1 ATAATAATATATATGAAATTAAAAATAAAA
45968611 GAATTAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 13 0.46
34 8 0.29
35 7 0.25
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (33 bp):
ATAATAATATATATGAAATTAAAAATAAAATTA
Found at i:45968616 original size:36 final size:33
Alignment explanation
Indices: 45968548--45968618 Score: 90
Period size: 35 Copynumber: 2.1 Consensus size: 33
45968538 AACATGCTAT
*
45968548 ATAATAAATAATGAAATGTAAAATATAAAATTA
1 ATAATAAATAATGAAATGTAAAATAAAAAATTA
45968581 ATAATAATATATATGAAAT-TAAAAATAAAAGAATTA
1 ATAATAA-ATA-ATGAAATGT-AAAATAAAA-AATTA
45968617 AT
1 AT
45968619 TTAAATTGTG
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
33 7 0.21
34 4 0.12
35 15 0.45
36 7 0.21
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (33 bp):
ATAATAAATAATGAAATGTAAAATAAAAAATTA
Found at i:45970469 original size:7 final size:7
Alignment explanation
Indices: 45970457--45970481 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
45970447 AAGGTTTTTC
45970457 TTTTCTT
1 TTTTCTT
45970464 TTTTCTT
1 TTTTCTT
45970471 TTTTCTT
1 TTTTCTT
45970478 TTTT
1 TTTT
45970482 TGGTTTCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTCTT
Found at i:45971399 original size:19 final size:19
Alignment explanation
Indices: 45971375--45971414 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
45971365 AACTAAGTCG
45971375 ATTTGTGATATTTATAACA
1 ATTTGTGATATTTATAACA
45971394 ATTTGTGATATTTATAACA
1 ATTTGTGATATTTATAACA
45971413 AT
1 AT
45971415 AAGCTTTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.47
Consensus pattern (19 bp):
ATTTGTGATATTTATAACA
Found at i:45973028 original size:125 final size:125
Alignment explanation
Indices: 45972732--45973174 Score: 681
Period size: 125 Copynumber: 3.5 Consensus size: 125
45972722 GATAAAATCA
* *
45972732 AAGCAGGATGCTTTATCAGAAGAATTTCT-ATAATCGCGCCCACGTGGACGCACTTTTGCTATAG
1 AAGCAGGATGCTTTATCAGAAGAATTTCTGA-AATCGCGCCCACGTGGACGCGCTTTTGCTACAG
* * *
45972796 TAGTTCCTGAAAAAATAATTTCGAGTTGATGTTTCTGAGAAAATAGTATAAAAAAACGCTTC
65 TAGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTAT-AAAAAACGCTTC
* * *
45972858 AAGAAGGATGCTTTATCAGAAGACTTTCTGAAATCGTGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* *
45972923 AGGTCCTGAAAAAATAATTTCGAATTGACATTTCTGAGCAAATAGTATAAAAAACGCTTC
66 AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
* * *
45972983 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCCCACCCACGTGGACGCGCTTCTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* *
45973048 AAGTCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
66 AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
* * * * *
45973108 AAGCATGATGCTTTATCAGAAGAATTTATGAAATCGCGCCCTCGTGGACACGTTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
45973173 AG
66 AG
45973175 CATGTTTGGG
Statistics
Matches: 287, Mismatches: 29, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
125 185 0.64
126 101 0.35
127 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.29
Consensus pattern (125 bp):
AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
Found at i:45976074 original size:19 final size:19
Alignment explanation
Indices: 45976050--45976100 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 19
45976040 ATCTAACATT
45976050 TTGTTAGTAAAATTATTAA
1 TTGTTAGTAAAATTATTAA
*
45976069 TTG-T--T-AATTGTATTAA
1 TTGTTAGTAAAAT-TATTAA
45976085 TTGTTAGTAAAATTAT
1 TTGTTAGTAAAATTAT
45976101 CAAATTATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 10
0.68 0.05 0.27
Matches are distributed among these distances:
15 3 0.12
16 10 0.40
17 1 0.04
18 1 0.04
19 7 0.28
20 3 0.12
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (19 bp):
TTGTTAGTAAAATTATTAA
Found at i:45976197 original size:102 final size:102
Alignment explanation
Indices: 45976016--45976210 Score: 354
Period size: 102 Copynumber: 1.9 Consensus size: 102
45976006 ATATTTTTTT
* *
45976016 GTACTAGTCAAATCATTTTGTAAAATCTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTA
1 GTACCAGTCAAAACATTTTGTAAAATCTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTA
45976081 TTAATTGTTAGTAAAATTATCAAATTATTAATTGTTA
66 TTAATTGTTAGTAAAATTATCAAATTATTAATTGTTA
*
45976118 GTACCAGTCAAAACATTTTGTAAAATCTAACATTTTGTTAGTCAAATTATTAATTGTTAATTGTA
1 GTACCAGTCAAAACATTTTGTAAAATCTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTA
*
45976183 TTAATTGTTAGTAAATTTATCAAATTAT
66 TTAATTGTTAGTAAAATTATCAAATTAT
45976211 ATTATATTAG
Statistics
Matches: 89, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
102 89 1.00
ACGTcount: A:0.38, C:0.07, G:0.10, T:0.45
Consensus pattern (102 bp):
GTACCAGTCAAAACATTTTGTAAAATCTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTA
TTAATTGTTAGTAAAATTATCAAATTATTAATTGTTA
Found at i:45976858 original size:18 final size:18
Alignment explanation
Indices: 45976832--45976873 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
45976822 GACTCGAAAA
* * *
45976832 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
45976850 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
45976868 AGGATA
1 AGGATA
45976874 TGCACCTGGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.45, C:0.07, G:0.29, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:45977530 original size:7 final size:7
Alignment explanation
Indices: 45977520--45977552 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
45977510 TTATATACAT
45977520 AATACTA
1 AATACTA
45977527 AATACTA
1 AATACTA
45977534 AATACTA
1 AATACTA
45977541 AATACTA
1 AATACTA
45977548 AATAC
1 AATAC
45977553 CAATCAACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:45977759 original size:21 final size:21
Alignment explanation
Indices: 45977719--45977759 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
45977709 CTATTATTTT
*
45977719 TAAAAATCTACATAATAATTA
1 TAAAAATCTACATAAAAATTA
45977740 TAAAAATCTA-ATATAAAATT
1 TAAAAATCTACATA-AAAATT
45977760 TACCTCGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (21 bp):
TAAAAATCTACATAAAAATTA
Found at i:45978782 original size:22 final size:22
Alignment explanation
Indices: 45978757--45978810 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
45978747 AAATATGGAT
45978757 TTGAGAGAAATTTG-GAAGGAAA
1 TTGAGAGAAATTTGAG-AGGAAA
45978779 TTGAGAGCAAA-TTGAGAGGAAA
1 TTGAGAG-AAATTTGAGAGGAAA
45978801 TTGAGA-AAAT
1 TTGAGAGAAAT
45978811 AATTGAAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
20 3 0.10
22 22 0.76
23 4 0.14
ACGTcount: A:0.46, C:0.02, G:0.30, T:0.22
Consensus pattern (22 bp):
TTGAGAGAAATTTGAGAGGAAA
Found at i:45982674 original size:20 final size:20
Alignment explanation
Indices: 45982635--45982674 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
45982625 TGTTAATTAG
* *
45982635 ATTAAAATAAGCTTAGTTTA
1 ATTAAAATAAGATTAATTTA
*
45982655 ATTAAAGTAAGATTAATTTA
1 ATTAAAATAAGATTAATTTA
45982675 CATAATTAAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.03, G:0.10, T:0.40
Consensus pattern (20 bp):
ATTAAAATAAGATTAATTTA
Found at i:45983094 original size:32 final size:32
Alignment explanation
Indices: 45983056--45983119 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
45983046 AATGTGAAAT
45983056 TGATTATAGAAATAAGAAATAATGTTTCCCTA
1 TGATTATAGAAATAAGAAATAATGTTTCCCTA
45983088 TGATTATAGAAATAAGAAATAATGTTTCCCTA
1 TGATTATAGAAATAAGAAATAATGTTTCCCTA
45983120 AAGGGTATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.34
Consensus pattern (32 bp):
TGATTATAGAAATAAGAAATAATGTTTCCCTA
Found at i:45989578 original size:20 final size:20
Alignment explanation
Indices: 45989555--45989595 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
45989545 CATAATATTG
*
45989555 GCAGCTTGTCTACAGTACTA
1 GCAGCTTATCTACAGTACTA
* *
45989575 GCAGTTTATCTACATTACTA
1 GCAGCTTATCTACAGTACTA
45989595 G
1 G
45989596 TGGCTCAACC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (20 bp):
GCAGCTTATCTACAGTACTA
Found at i:45990530 original size:21 final size:20
Alignment explanation
Indices: 45990484--45990537 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
45990474 TGAAGCTAAA
* *
45990484 AATGGTATCAATA-CTTGAC
1 AATGGTATCGATACCTTAAC
*
45990503 AAAGGTATCGATACCTATAAC
1 AATGGTATCGATACCT-TAAC
45990524 AATGGTATCGATAC
1 AATGGTATCGATAC
45990538 TTCATGTTAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 11 0.38
20 2 0.07
21 16 0.55
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.28
Consensus pattern (20 bp):
AATGGTATCGATACCTTAAC
Found at i:46005600 original size:12 final size:12
Alignment explanation
Indices: 46005553--46005594 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
46005543 TAAGTTAAAT
*
46005553 ATTAAAATAAG-
1 ATTAAAATATGA
46005564 ATTAAAAATGATGA
1 ATT-AAAAT-ATGA
46005578 ATTAAAATATGA
1 ATTAAAATATGA
46005590 ATTAA
1 ATTAA
46005595 TTTATGTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 3 0.11
12 14 0.52
13 7 0.26
14 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.31
Consensus pattern (12 bp):
ATTAAAATATGA
Found at i:46007397 original size:50 final size:50
Alignment explanation
Indices: 46007340--46007501 Score: 148
Period size: 50 Copynumber: 3.2 Consensus size: 50
46007330 AACTCGTAAA
*
46007340 TTTAATCTGTTTAACTGCAATGTCGGGGAAGTAATATTCACCGTTGTGGC
1 TTTAATCTGTTTAACTGCAATGTCGGGGAAGTAAGATTCACCGTTGTGGC
* * * * * * * ** *
46007390 TTTAATCTGCTCT-ACTGCACTGGCTGAGAGAGTGAGATCCGTCGTTGTGAC
1 TTTAATCTG-TTTAACTGCAATGTCGGGGA-AGTAAGATTCACCGTTGTGGC
* * *
46007441 TTTAATCCT-TTTAACTGCAATGTCGGGAAAGCAAGATTTACCGTTGTGGC
1 TTTAAT-CTGTTTAACTGCAATGTCGGGGAAGTAAGATTCACCGTTGTGGC
*
46007491 CTTAATCTGTT
1 TTTAATCTGTT
46007502 CCACTACACC
Statistics
Matches: 82, Mismatches: 25, Indels: 10
0.70 0.21 0.09
Matches are distributed among these distances:
49 2 0.02
50 44 0.54
51 34 0.41
52 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (50 bp):
TTTAATCTGTTTAACTGCAATGTCGGGGAAGTAAGATTCACCGTTGTGGC
Found at i:46007768 original size:44 final size:44
Alignment explanation
Indices: 46007682--46008088 Score: 279
Period size: 44 Copynumber: 8.8 Consensus size: 44
46007672 CCTTTATTTT
* * * *
46007682 AATCCGCTCCATTGTAATCTC-GGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTCTAGCTTC
* * * *
46007725 AATCTACTCCGCTGTAATCTCAAGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTCTAGCTTC
* * *
46007769 AATCTGATGCGATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCTT-TA-TTTT
1 AATC---T--G--CT-C-C-ACTGTAATC-TCAGGGAGATAAGAT--TTCTAGCTTC
* * * *
46007823 AATCCGCACCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTCTAGCTTC
* *
46007867 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTCTAGCTTC
* * * *
46007911 AATCTGATGCGATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCTTTTA-TTTT
1 AATC---T--G--CT-C-C-ACTGTAATC-TCAGGGAGATAAGAT-TTCTAGCTTC
* * * * *
46007965 AATCCGCCCCACTGTAATCTCAAGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTCTAGCTTC
* *
46008009 AATCTGCTCCATTGTAATCTCAGGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTCTAGCTTC
46008053 AATCTGCTCCACTGTAA-CATCAGGGAGATAAGATTT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGATTT
46008089 GCCGTCTTCG
Statistics
Matches: 281, Mismatches: 51, Indels: 63
0.71 0.13 0.16
Matches are distributed among these distances:
42 1 0.00
43 23 0.08
44 177 0.63
45 4 0.01
46 2 0.01
47 4 0.01
49 3 0.01
51 4 0.01
52 2 0.01
53 4 0.01
54 51 0.18
55 4 0.01
56 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.32
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTCTAGCTTC
Found at i:46007910 original size:142 final size:142
Alignment explanation
Indices: 46007548--46008058 Score: 835
Period size: 142 Copynumber: 3.6 Consensus size: 142
46007538 TCGGTCTATT
* * * * *
46007548 CCACCGTAATCTCAGGGAAATAGGATTACTGGCTTTAATCTGTTCCGCTGTAATCTCAGGGAGAT
1 CCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGAT
* * * * * *
46007613 AAGATTTCTAGCTTCAGTCTGATGTGATCTACTCTACTATAACTTCAGAGAGGTAAGACCCTTTA
66 AAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTA
*
46007678 TTTTAATCCGCT
131 TTTTAATCCGCA
* * *
46007690 CCATTGTAATCTC-GGGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAAGGAGAT
1 CCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGAT
46007754 AAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTA
66 AAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTA
46007819 TTTTAATCCGCA
131 TTTTAATCCGCA
46007831 CCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGAT
1 CCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGAT
*
46007896 AAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTTTTA
66 AAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTA
*
46007961 TTTTAATCCGCC
131 TTTTAATCCGCA
* **
46007973 CCACTGTAATCTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCATTGTAATCTCAGGGAGAT
1 CCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGAT
46008038 AAGATTTCTGGCTTCAATCTG
66 AAGATTTCTGGCTTCAATCTG
46008059 CTCCACTGTA
Statistics
Matches: 345, Mismatches: 23, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
141 127 0.37
142 218 0.63
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.32
Consensus pattern (142 bp):
CCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGAT
AAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTA
TTTTAATCCGCA
Found at i:46008124 original size:44 final size:44
Alignment explanation
Indices: 46008004--46008112 Score: 130
Period size: 44 Copynumber: 2.5 Consensus size: 44
46007994 AGGATTACTA
* * *
46008004 GCTTCAATCTGCTCCATTGTAATC-TCAGGGAGATAAGATTTCTG
1 GCTTCAATCTGCTCCACTATAA-CATCAGGGAGATAAGATTTCCG
*
46008048 GCTTCAATCTGCTCCACTGTAACATCAGGGAGATAAGATTTGCCG
1 GCTTCAATCTGCTCCACTATAACATCAGGGAGATAAGATTT-CCG
* * *
46008093 TCTTCGATCTGCTCCGCTAT
1 GCTTCAATCTGCTCCACTAT
46008113 TGCTTAGGGA
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
43 1 0.02
44 38 0.67
45 18 0.32
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (44 bp):
GCTTCAATCTGCTCCACTATAACATCAGGGAGATAAGATTTCCG
Found at i:46016677 original size:19 final size:19
Alignment explanation
Indices: 46016651--46016698 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
46016641 TTAATAATCT
* *
46016651 TGAATGCATATG-ATGACA
1 TGAATGCAAATGCATGAAA
46016669 TGTAATGCAAATGCATGAAA
1 TG-AATGCAAATGCATGAAA
46016689 TGAATGCAAA
1 TGAATGCAAA
46016699 AAAGAGCATC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 2 0.08
19 17 0.65
20 7 0.27
ACGTcount: A:0.44, C:0.10, G:0.21, T:0.25
Consensus pattern (19 bp):
TGAATGCAAATGCATGAAA
Found at i:46020492 original size:12 final size:12
Alignment explanation
Indices: 46020456--46020497 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
46020446 TAAGTTAAAT
*
46020456 ATTAAAATAAG-
1 ATTAAAATATGA
46020467 ATTAAAAATGATGA
1 ATT-AAAAT-ATGA
46020481 ATTAAAATATGA
1 ATTAAAATATGA
46020493 ATTAA
1 ATTAA
46020498 TTTTTCTAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 3 0.11
12 14 0.52
13 7 0.26
14 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.31
Consensus pattern (12 bp):
ATTAAAATATGA
Found at i:46023575 original size:19 final size:19
Alignment explanation
Indices: 46023551--46023590 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
46023541 ACTAAGTTAG
* *
46023551 ATAAAACTAATAAAACAAA
1 ATAAAAATAACAAAACAAA
*
46023570 ATAAAAATAACAAAACCAA
1 ATAAAAATAACAAAACAAA
46023589 AT
1 AT
46023591 TTCACCAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.72, C:0.12, G:0.00, T:0.15
Consensus pattern (19 bp):
ATAAAAATAACAAAACAAA
Found at i:46029360 original size:17 final size:17
Alignment explanation
Indices: 46029338--46029370 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
46029328 TGAAAGAACA
*
46029338 GTGAAAACGAGAATGAT
1 GTGAAAACGAAAATGAT
46029355 GTGAAAACGAAAATGA
1 GTGAAAACGAAAATGA
46029371 AATAGATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.06, G:0.27, T:0.15
Consensus pattern (17 bp):
GTGAAAACGAAAATGAT
Found at i:46029900 original size:26 final size:26
Alignment explanation
Indices: 46029871--46029934 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 26
46029861 ACATTTCTAC
* *
46029871 GCGATACTATGATTGAGCACTTCGGT
1 GCGATACTATGATTGAGAACTTCGAT
* *
46029897 GCGATATTGTGATTGAGAACTTCGAT
1 GCGATACTATGATTGAGAACTTCGAT
*
46029923 GTGATACTATGA
1 GCGATACTATGA
46029935 CTATGCACTT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.33
Consensus pattern (26 bp):
GCGATACTATGATTGAGAACTTCGAT
Found at i:46043967 original size:15 final size:15
Alignment explanation
Indices: 46043947--46043977 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
46043937 CCATATGTCA
46043947 ACCACATCCAAACAT
1 ACCACATCCAAACAT
*
46043962 ACCACATTCAAACAT
1 ACCACATCCAAACAT
46043977 A
1 A
46043978 TAAAAAAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.35, G:0.00, T:0.16
Consensus pattern (15 bp):
ACCACATCCAAACAT
Found at i:46044753 original size:26 final size:26
Alignment explanation
Indices: 46044712--46044779 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 26
46044702 CCTTTACATA
** *
46044712 TATGCTCACATAAGCTATGGAAA-GAG
1 TATGCTCACACGAGCTATGAAAATG-G
*
46044738 TATGCTCACACGAGCTGTGAAAATGG
1 TATGCTCACACGAGCTATGAAAATGG
*
46044764 TCTGCTCACACGAGCT
1 TATGCTCACACGAGCT
46044780 GTGGGTTAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
26 35 0.97
27 1 0.03
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.24
Consensus pattern (26 bp):
TATGCTCACACGAGCTATGAAAATGG
Found at i:46045214 original size:17 final size:17
Alignment explanation
Indices: 46045192--46045224 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
46045182 CAATTCAATC
46045192 CAAAATTCAT-ATTTTTG
1 CAAAATT-ATGATTTTTG
46045209 CAAAATTATGATTTTT
1 CAAAATTATGATTTTT
46045225 CCCCTAATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.48
Consensus pattern (17 bp):
CAAAATTATGATTTTTG
Found at i:46046354 original size:13 final size:14
Alignment explanation
Indices: 46046321--46046360 Score: 55
Period size: 13 Copynumber: 2.8 Consensus size: 14
46046311 ATTTTTTTAT
46046321 GTTTCTTCTTCCTACC
1 GTTTCTT-TT-CTACC
46046337 GTTTCTTTTCTACC
1 GTTTCTTTTCTACC
46046351 -TTTCTTTTCT
1 GTTTCTTTTCT
46046361 TCTCTTTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 10 0.42
14 5 0.21
15 2 0.08
16 7 0.29
ACGTcount: A:0.05, C:0.30, G:0.05, T:0.60
Consensus pattern (14 bp):
GTTTCTTTTCTACC
Found at i:46048869 original size:17 final size:18
Alignment explanation
Indices: 46048837--46048870 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
46048827 TGACTTGGTA
*
46048837 TTGAATAAGTTTGTATAG
1 TTGAATAAGATTGTATAG
46048855 TTGAATAA-ATTGTATA
1 TTGAATAAGATTGTATA
46048871 ATTTGTGTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.44
Consensus pattern (18 bp):
TTGAATAAGATTGTATAG
Found at i:46048944 original size:5 final size:5
Alignment explanation
Indices: 46048934--46049063 Score: 260
Period size: 5 Copynumber: 26.0 Consensus size: 5
46048924 TTTATTAACA
46048934 ATGTT ATGTT ATGTT ATGTT ATGTT ATGTT ATGTT ATGTT ATGTT ATGTT
1 ATGTT ATGTT ATGTT ATGTT ATGTT ATGTT ATGTT ATGTT ATGTT ATGTT
46048984 ATGTT ATGTT ATGTT ATGTT ATGTT ATGTT ATGTT ATGTT ATGTT ATGTT
1 ATGTT ATGTT ATGTT ATGTT ATGTT ATGTT ATGTT ATGTT ATGTT ATGTT
46049034 ATGTT ATGTT ATGTT ATGTT ATGTT ATGTT
1 ATGTT ATGTT ATGTT ATGTT ATGTT ATGTT
46049064 TATACGGTAA
Statistics
Matches: 125, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 125 1.00
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.60
Consensus pattern (5 bp):
ATGTT
Found at i:46049091 original size:13 final size:13
Alignment explanation
Indices: 46049075--46049101 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
46049065 ATACGGTAAG
46049075 TTTTATCCAACTA
1 TTTTATCCAACTA
46049088 TTTTATCCAACTA
1 TTTTATCCAACTA
46049101 T
1 T
46049102 CTTTCAGTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.22, G:0.00, T:0.48
Consensus pattern (13 bp):
TTTTATCCAACTA
Found at i:46054769 original size:18 final size:18
Alignment explanation
Indices: 46054746--46054785 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
46054736 GATATTTTTA
*
46054746 TTTTAATGT-TTTTAGTAT
1 TTTTAATGTATTATA-TAT
46054764 TTTTAATGTATTATATAT
1 TTTTAATGTATTATATAT
46054782 TTTT
1 TTTT
46054786 TTAAAATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.25, C:0.00, G:0.07, T:0.68
Consensus pattern (18 bp):
TTTTAATGTATTATATAT
Found at i:46060664 original size:3 final size:3
Alignment explanation
Indices: 46060647--46060685 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
46060637 CAAGAAAACT
* *
46060647 ATA ATA ATT ACA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
46060686 CAAATAATCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:46061251 original size:21 final size:22
Alignment explanation
Indices: 46061214--46061258 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
46061204 ATAATAATAT
46061214 TAATAAGATTAAATTTTAAAAA
1 TAATAAGATTAAATTTTAAAAA
*
46061236 TAATAAGATT-AATTTTAACAA
1 TAATAAGATTAAATTTTAAAAA
46061257 TA
1 TA
46061259 TAACTACATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (22 bp):
TAATAAGATTAAATTTTAAAAA
Found at i:46065274 original size:30 final size:31
Alignment explanation
Indices: 46065240--46065298 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 31
46065230 AAACCTTTTA
*
46065240 TTTTCCCCCAAAA-TTTTACTCCC-TCCCAC
1 TTTTTCCCCAAAACTTTTACTCCCTTCCCAC
* *
46065269 TTTTTCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTTCCCCAAAACTTTTACTCCCTTCCCA
46065299 TCCCACCTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 11 0.44
30 9 0.36
31 5 0.20
ACGTcount: A:0.20, C:0.39, G:0.00, T:0.41
Consensus pattern (31 bp):
TTTTTCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:46071584 original size:84 final size:84
Alignment explanation
Indices: 46071486--46071640 Score: 224
Period size: 86 Copynumber: 1.8 Consensus size: 84
46071476 ATTCGCTGAA
* *
46071486 TTCATCAAGTCCG-TCAATA-GACCACCCAAAATTTGGGATATGAACTCATTAAGAGTAATAAAC
1 TTCATCAAGTCCGCTCAATAGGACCA-CCAAAATCTAGGATATGAACTCATTAAGAGTAAT-AAC
46071549 TCAACCTCTCAAGTTGGTGAC
64 TCAACCTCTCAAGTTGGTGAC
* * *
46071570 TTCATCAAGTCCGTCTCAATAGGACCACCAAACTCTAGGCTATGAATTCATTAAGAGTAATAACT
1 TTCATCAAGTCCG-CTCAATAGGACCACCAAAATCTAGGATATGAACTCATTAAGAGTAATAACT
46071635 CAACCT
65 CAACCT
46071641 TATGCATGCA
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
84 13 0.21
85 10 0.16
86 35 0.56
87 5 0.08
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.26
Consensus pattern (84 bp):
TTCATCAAGTCCGCTCAATAGGACCACCAAAATCTAGGATATGAACTCATTAAGAGTAATAACTC
AACCTCTCAAGTTGGTGAC
Found at i:46072853 original size:15 final size:15
Alignment explanation
Indices: 46072835--46072864 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
46072825 CTATCAGACT
*
46072835 ATATTAGGATAATTA
1 ATATTAAGATAATTA
46072850 ATATTAAGATAATTA
1 ATATTAAGATAATTA
46072865 TTAAGGATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:46072880 original size:18 final size:17
Alignment explanation
Indices: 46072859--46072900 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
46072849 AATATTAAGA
46072859 TAATTATTAAGGA-TTATT
1 TAATT-TTAA-GATTTATT
46072877 TAATTTTAAGATTTTATT
1 TAATTTTAAGA-TTTATT
46072895 TAATTT
1 TAATTT
46072901 ATCTTTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 2 0.09
17 4 0.18
18 16 0.73
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (17 bp):
TAATTTTAAGATTTATT
Found at i:46076834 original size:22 final size:21
Alignment explanation
Indices: 46076807--46076867 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 21
46076797 GCAACCCAAT
46076807 TTTTATATTTATTTATTTATTA
1 TTTTAT-TTTATTTATTTATTA
*
46076829 TTTTATTTTCTTTAATTTATT-
1 TTTTATTTTATTT-ATTTATTA
* *
46076850 TATTACTTTATTTTATTT
1 TTTTATTTTA-TTTATTT
46076868 TATTGTTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
21 17 0.52
22 16 0.48
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTTATTTTATTTATTTATTA
Found at i:46076842 original size:17 final size:17
Alignment explanation
Indices: 46076805--46076853 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 17
46076795 AGGCAACCCA
46076805 ATTT-TTATATTTATTT
1 ATTTATTATATTTATTT
46076821 ATTTATTAT-TTTATTT
1 ATTTATTATATTTATTT
*
46076837 -TCT-TTA-ATTTATTT
1 ATTTATTATATTTATTT
46076851 ATT
1 ATT
46076854 ACTTTATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
14 10 0.36
15 3 0.11
16 11 0.39
17 4 0.14
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (17 bp):
ATTTATTATATTTATTT
Found at i:46076871 original size:22 final size:22
Alignment explanation
Indices: 46076808--46076867 Score: 59
Period size: 26 Copynumber: 2.6 Consensus size: 22
46076798 CAACCCAATT
*
46076808 TTTATATTTATTTATTTATTAT
1 TTTATATTTATTTATTTATTAC
*
46076830 TTTATTTTCTTTAATTTATTTATTAC
1 TTTA---TATTT-ATTTATTTATTAC
46076856 TTTAT-TTTATTT
1 TTTATATTTATTT
46076868 TATTGTTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
21 4 0.12
22 7 0.22
23 1 0.03
25 4 0.12
26 16 0.50
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (22 bp):
TTTATATTTATTTATTTATTAC
Found at i:46077080 original size:22 final size:21
Alignment explanation
Indices: 46077033--46077092 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 21
46077023 GCCCAGAATG
* *
46077033 CCTGCAGCCAAACTACCCTATT
1 CCTGCAGCC-AACCACCCTATC
*
46077055 CCTGCAGCCAACCACCTTTATC
1 CCTGCAGCCAACCACC-CTATC
* *
46077077 CCTGCACCCAAGCACC
1 CCTGCAGCCAACCACC
46077093 ATCCTCAGCA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
21 6 0.19
22 26 0.81
ACGTcount: A:0.25, C:0.47, G:0.10, T:0.18
Consensus pattern (21 bp):
CCTGCAGCCAACCACCCTATC
Found at i:46078218 original size:101 final size:101
Alignment explanation
Indices: 46078028--46078216 Score: 263
Period size: 101 Copynumber: 1.8 Consensus size: 101
46078018 AAGAACATGT
* * *
46078028 TGGGCTGAGTAACCAGGGTGAGGTGCTTGGCTGTCATCTCTTTTCGCGTCAAAAGGTTCGATGTG
1 TGGGCTGAGTAACCAGGGTGAGGTGCTTGGCTGTCATCTCTCTTCACGTCAAAAGGTTCGATATG
* *
46078093 TTCTTAAGAAAAAAATATAATAAATTAGGAGTCTGC
66 TCCTAAAGAAAAAAATATAATAAATTAGGAGTCTGC
** *
46078129 TGGGCTGAGTAACTGGGGTGAGGTTCTTGGCTGTCATCTCTCTTCACGTCAAAAGGTTCAGTATA
1 TGGGCTGAGTAACCAGGGTGAGGTGCTTGGCTGTCATCTCTCTTCACGTCAAAAGGTTC-G-ATA
46078194 T-TCCTAAAGCATAAAAAATATAA
64 TGTCCTAAAG-A-AAAAAATATAA
46078217 ATAATAAATA
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
101 54 0.71
102 7 0.09
103 4 0.05
104 11 0.14
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.31
Consensus pattern (101 bp):
TGGGCTGAGTAACCAGGGTGAGGTGCTTGGCTGTCATCTCTCTTCACGTCAAAAGGTTCGATATG
TCCTAAAGAAAAAAATATAATAAATTAGGAGTCTGC
Found at i:46078846 original size:15 final size:15
Alignment explanation
Indices: 46078821--46078855 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
46078811 GACTATATTT
*
46078821 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
46078835 TAATTAATATTAAGA
1 TAATTAATATTAAGA
46078850 TAATTA
1 TAATTA
46078856 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:46078871 original size:18 final size:17
Alignment explanation
Indices: 46078859--46078891 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
46078849 ATAATTATTA
46078859 AGGA-TTATTTAATTTT
1 AGGATTTATTTAATTTT
46078875 AGGATTTTATTTAATTT
1 AGGA-TTTATTTAATTT
46078892 ATCTTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
18 11 0.73
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.58
Consensus pattern (17 bp):
AGGATTTATTTAATTTT
Found at i:46083859 original size:61 final size:63
Alignment explanation
Indices: 46083713--46083913 Score: 187
Period size: 68 Copynumber: 3.1 Consensus size: 63
46083703 AAAAAAAAAT
* * * * **
46083713 ATTTCAATATGTTTAATATTAAATTAAATTTAAGACTTATCTTGATAGTATTTTATTAATTTA
1 ATTTAAATATATTTAATATTAAATTAAATTTAATATTTATCTTGATAGTATCATATTAATTTA
*
46083776 ATATTAAAGTGATTATCTTAATATTAAATTAAATTTAATATTTATCTT-ATAG-ATACATATT-C
1 AT-TTAAA-T-A-TAT-TTAATATTAAATTAAATTTAATATTTATCTTGATAGTAT-CATATTAA
46083838 TATTA
60 T-TTA
* * *
46083843 ATTT-AATATATTTAATATTAAATT-TATTCTAATATTTATCTTGATAAGTATTATATTATTTTA
1 ATTTAAATATATTTAATATTAAATTAAATT-TAATATTTATCTTGAT-AGTATCATATTAATTTA
46083906 ATATTAAA
1 AT-TTAAA
46083914 GTGATTAAGT
Statistics
Matches: 114, Mismatches: 10, Indels: 26
0.76 0.07 0.17
Matches are distributed among these distances:
60 3 0.03
61 26 0.23
62 5 0.04
63 15 0.13
64 10 0.09
65 5 0.04
66 6 0.05
67 15 0.13
68 29 0.25
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.51
Consensus pattern (63 bp):
ATTTAAATATATTTAATATTAAATTAAATTTAATATTTATCTTGATAGTATCATATTAATTTA
Found at i:46089604 original size:6 final size:6
Alignment explanation
Indices: 46089593--46089619 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
46089583 GTTATTCTTT
46089593 TTTAAA TTTAAA TTTAAA TTTAAA TTT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTT
46089620 TATAAAACTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:46095479 original size:20 final size:21
Alignment explanation
Indices: 46095444--46095491 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
46095434 ATTTTTTATT
46095444 ATTTTAAAAATATAATATAAA
1 ATTTTAAAAATATAATATAAA
* **
46095465 ATTTT-AAATTATAATATATT
1 ATTTTAAAAATATAATATAAA
46095485 ATTTTAA
1 ATTTTAA
46095492 TCATATAAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
ATTTTAAAAATATAATATAAA
Found at i:46095661 original size:15 final size:16
Alignment explanation
Indices: 46095638--46095678 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
46095628 ATATTTGAAA
46095638 ATTTAAAATA-ATATT
1 ATTTAAAATATATATT
*
46095653 ATTTCAAATATATATT
1 ATTTAAAATATATATT
46095669 ATTTATAAAT
1 ATTTA-AAAT
46095679 TTAAAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 9 0.41
16 9 0.41
17 4 0.18
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (16 bp):
ATTTAAAATATATATT
Found at i:46096237 original size:19 final size:18
Alignment explanation
Indices: 46096208--46096254 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
46096198 AATCCATTAA
*
46096208 ATTTAAAATATATGAATT
1 ATTTAATATATATGAATT
*
46096226 ACTTTAATATATATTAATT
1 A-TTTAATATATATGAATT
*
46096245 ATTAAATATA
1 ATTTAATATA
46096255 ACAAATCTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (18 bp):
ATTTAATATATATGAATT
Found at i:46096866 original size:31 final size:31
Alignment explanation
Indices: 46096805--46096895 Score: 112
Period size: 31 Copynumber: 2.9 Consensus size: 31
46096795 AAAAAAACTT
* * *
46096805 AATAGCTTAGTGACTTTTAATAAAAGCTTTCG
1 AATAGTTTAGTGAC-TTAAATAAAAACTTTCG
46096837 AATAGTTTAGTGACTTAAATAAAAACTTTCG
1 AATAGTTTAGTGACTTAAATAAAAACTTTCG
* * *
46096868 AATAATTTAGTGA-TTAAATTATAACTTT
1 AATAGTTTAGTGACTTAAATAAAAACTTT
46096896 TTAGTTAAGT
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
30 13 0.25
31 27 0.51
32 13 0.25
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.40
Consensus pattern (31 bp):
AATAGTTTAGTGACTTAAATAAAAACTTTCG
Found at i:46097978 original size:13 final size:13
Alignment explanation
Indices: 46097960--46097984 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46097950 TTTTTTTTAA
46097960 TTTTTAATTAATG
1 TTTTTAATTAATG
46097973 TTTTTAATTAAT
1 TTTTTAATTAAT
46097985 AAACATATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
TTTTTAATTAATG
Found at i:46100931 original size:31 final size:31
Alignment explanation
Indices: 46100872--46100935 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
46100862 GTTATAAAAT
* **
46100872 AGTCACTAAACTATTTGAAAATTTTCATTTA
1 AGTCAATAAACTATTTGAAAATAATCATTTA
* *
46100903 AGTCAATAAATTATTTGAAAGTAATCATTTA
1 AGTCAATAAACTATTTGAAAATAATCATTTA
46100934 AG
1 AG
46100936 GCACTAGGTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.39
Consensus pattern (31 bp):
AGTCAATAAACTATTTGAAAATAATCATTTA
Found at i:46110499 original size:13 final size:14
Alignment explanation
Indices: 46110481--46110521 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
46110471 ATTTCAGATA
46110481 CAGATA-ACAAAAT
1 CAGATATACAAAAT
* *
46110494 CAGATATGC-AGAT
1 CAGATATACAAAAT
46110507 CAGATATACAAAAT
1 CAGATATACAAAAT
46110521 C
1 C
46110522 CTACCCCCAT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
13 17 0.77
14 5 0.23
ACGTcount: A:0.51, C:0.17, G:0.12, T:0.20
Consensus pattern (14 bp):
CAGATATACAAAAT
Found at i:46110974 original size:18 final size:18
Alignment explanation
Indices: 46110947--46110989 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
46110937 TTCAAAATTA
* * *
46110947 TGGGCTCACATGCCTATG
1 TGGGCCCACAAGCCCATG
46110965 TGGGCCCACAAGCCCATG
1 TGGGCCCACAAGCCCATG
46110983 T-GGCCCA
1 TGGGCCCA
46110990 TACGCCTAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.19, C:0.35, G:0.28, T:0.19
Consensus pattern (18 bp):
TGGGCCCACAAGCCCATG
Found at i:46115832 original size:22 final size:22
Alignment explanation
Indices: 46115791--46115838 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
46115781 CTAAAATCTT
*
46115791 GAGACAATTTTCCATATGTCTC
1 GAGACAATTTTCCATATGTCTA
*
46115813 GAGACAATTTCTCGAT-TGTCTA
1 GAGACAATTT-TCCATATGTCTA
46115835 GAGA
1 GAGA
46115839 TATGGCTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (22 bp):
GAGACAATTTTCCATATGTCTA
Found at i:46120089 original size:123 final size:123
Alignment explanation
Indices: 46119870--46120117 Score: 442
Period size: 123 Copynumber: 2.0 Consensus size: 123
46119860 TTTATAATGA
*
46119870 TATTTGCATTTTTATTGTATTATGCATACTCTATTACCTTCATCAATGGTATATCTATATACTTA
1 TATTTGCATTTTTATTGTATTATGCATACTCTATTACCTCCATCAATGGTATATCTATATACTTA
* *
46119935 CTGTTATTTAAGTTATTGACTAAGGTGGTGTCACGAATTGACCAGGCACCAACTTGGT
66 CTATTATTTAAGTCATTGACTAAGGTGGTGTCACGAATTGACCAGGCACCAACTTGGT
* *
46119993 TATTTGCATTTTTATTGTATTATGCATACTCTATTATCTCCATCAATTGTATATCTATATACTTA
1 TATTTGCATTTTTATTGTATTATGCATACTCTATTACCTCCATCAATGGTATATCTATATACTTA
*
46120058 CTATTATTTAAGTCATTGACTAAGGTGGTGTCACGAATTGACCAGGCACCAACTTTGT
66 CTATTATTTAAGTCATTGACTAAGGTGGTGTCACGAATTGACCAGGCACCAACTTGGT
46120116 TA
1 TA
46120118 GGGAAATTAT
Statistics
Matches: 119, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
123 119 1.00
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (123 bp):
TATTTGCATTTTTATTGTATTATGCATACTCTATTACCTCCATCAATGGTATATCTATATACTTA
CTATTATTTAAGTCATTGACTAAGGTGGTGTCACGAATTGACCAGGCACCAACTTGGT
Found at i:46124058 original size:7 final size:7
Alignment explanation
Indices: 46124041--46124077 Score: 65
Period size: 7 Copynumber: 5.1 Consensus size: 7
46124031 TACAAAAATG
46124041 AAATGAAA
1 AAAT-AAA
46124049 AAATAAA
1 AAATAAA
46124056 AAATAAA
1 AAATAAA
46124063 AAATAAA
1 AAATAAA
46124070 AAATAAA
1 AAATAAA
46124077 A
1 A
46124078 GAAAATGCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 25 0.86
8 4 0.14
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.14
Consensus pattern (7 bp):
AAATAAA
Found at i:46124979 original size:131 final size:131
Alignment explanation
Indices: 46124818--46125349 Score: 813
Period size: 131 Copynumber: 4.1 Consensus size: 131
46124808 CCTGGGGAAT
* * *
46124818 ATAAGATCCGCAATCTT-CAACC-AATCCCACTGCTGACCAGGGACATAGGAGTTGTGGCTTAAA
1 ATAAGATCTGCAAT-TTCCAACCTACT-CCACTGCTGACCAGGGACATAGGACTTGTGGCTTAAA
* * * * * *
46124881 TCTATTTCCCTACTCTTAGGGAAGATAAGATTCGCCGTCTTCAATCTGCTCCACTATTTCTTTGG
64 TCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTATTGCTTAGG
46124946 GAG
129 GAG
*
46124949 ATAAGATCTGCAATTTCCAACCTACTCCACTGCTGACCAGGGACAAAGG-CTTTGTGGCTTAAAT
1 ATAAGATCTGCAATTTCCAACCTACTCCACTGCTGACCAGGGACATAGGAC-TTGTGGCTTAAAT
* ***
46125013 CTGTTTCCGTACTCCTGGGGAAGATAAGATTCATTGTCTTCGATCTGCTCCACTATTGCTTAGGG
65 CTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTATTGCTTAGGG
46125078 AG
130 AG
* * * *
46125080 ATAAGATCTACAATTTTCAACCTACTCCACGGCTGACCA--GACATAGGACTTATGGCTTAAATC
1 ATAAGATCTGCAATTTCCAACCTACTCCACTGCTGACCAGGGACATAGGACTTGTGGCTTAAATC
*
46125143 TGTTTCCCTACTCTTGGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTATTGCTTAGGGA
66 TGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTATTGCTTAGGGA
46125208 G
131 G
*
46125209 ATAAGATCTGCAATTTCCAACCTACTCCACTACTGACCAGGGACATAGGACTTGTGGCTTAAATC
1 ATAAGATCTGCAATTTCCAACCTACTCCACTGCTGACCAGGGACATAGGACTTGTGGCTTAAATC
*
46125274 TGTTTCCCTACTCCTGAGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTATTGCTTAGGGA
66 TGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTATTGCTTAGGGA
46125339 G
131 G
46125340 ATAAGATCTG
1 ATAAGATCTG
46125350 TGACTTTAGT
Statistics
Matches: 364, Mismatches: 31, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
129 116 0.32
130 3 0.01
131 243 0.67
132 2 0.01
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.30
Consensus pattern (131 bp):
ATAAGATCTGCAATTTCCAACCTACTCCACTGCTGACCAGGGACATAGGACTTGTGGCTTAAATC
TGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTATTGCTTAGGGA
G
Found at i:46125211 original size:260 final size:261
Alignment explanation
Indices: 46124818--46125348 Score: 843
Period size: 260 Copynumber: 2.0 Consensus size: 261
46124808 CCTGGGGAAT
** * * *
46124818 ATAAGATCCGCAATCTTCAACCAATCCCACTGCTGACCAGGGACATAGGAGTTGTGGCTTAAATC
1 ATAAGATCTACAATCTTCAACCAATCCCACGGCTGACCA-GGACATAGGACTTATGGCTTAAATC
* *
46124883 TATTTCCCTACTCTTAGGGAAGATAAGATTCGCCGTCTTCAATCTGCTCCACTATTTCTTTGGGA
65 TATTTCCCTACTCTTAGGGAAGATAAGATTCGCCGTCTTCAATCTGCTCCACTATTGCTTAGGGA
*
46124948 GATAAGATCTGCAATTTCCAACCTACTCCACTGCTGACCAGGGACAAAGG-CTTTGTGGCTTAAA
130 GATAAGATCTGCAATTTCCAACCTACTCCACTACTGACCAGGGACAAAGGAC-TTGTGGCTTAAA
* * **
46125012 TCTGTTTCCGTACTCCTGGGGAAGATAAGATTCATTGTCTTCGATCTGCTCCACTATTGCTTAGG
194 TCTGTTTCCCTACTCCTGAGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTATTGCTTAGG
46125077 GAG
259 GAG
* *
46125080 ATAAGATCTACAATTTTCAACCTA-CTCCACGGCTGACCA-GACATAGGACTTATGGCTTAAATC
1 ATAAGATCTACAATCTTCAACCAATC-CCACGGCTGACCAGGACATAGGACTTATGGCTTAAATC
* * *
46125143 TGTTTCCCTACTCTTGGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTATTGCTTAGGGA
65 TATTTCCCTACTCTTAGGGAAGATAAGATTCGCCGTCTTCAATCTGCTCCACTATTGCTTAGGGA
*
46125208 GATAAGATCTGCAATTTCCAACCTACTCCACTACTGACCAGGGACATAGGACTTGTGGCTTAAAT
130 GATAAGATCTGCAATTTCCAACCTACTCCACTACTGACCAGGGACAAAGGACTTGTGGCTTAAAT
*
46125273 CTGTTTCCCTACTCCTGAGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTATTGCTTAGGG
195 CTGTTTCCCTACTCCTGAGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTATTGCTTAGGG
46125338 AG
260 AG
46125340 ATAAGATCT
1 ATAAGATCT
46125349 GTGACTTTAG
Statistics
Matches: 248, Mismatches: 19, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
260 214 0.86
261 2 0.01
262 32 0.13
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.30
Consensus pattern (261 bp):
ATAAGATCTACAATCTTCAACCAATCCCACGGCTGACCAGGACATAGGACTTATGGCTTAAATCT
ATTTCCCTACTCTTAGGGAAGATAAGATTCGCCGTCTTCAATCTGCTCCACTATTGCTTAGGGAG
ATAAGATCTGCAATTTCCAACCTACTCCACTACTGACCAGGGACAAAGGACTTGTGGCTTAAATC
TGTTTCCCTACTCCTGAGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTATTGCTTAGGGA
G
Found at i:46125213 original size:44 final size:44
Alignment explanation
Indices: 46125150--46125346 Score: 120
Period size: 44 Copynumber: 4.5 Consensus size: 44
46125140 ATCTGTTTCC
* *
46125150 CTACT-CTTGGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCA
1 CTACTGCTTAGGG-AGATAAGATTCGCCGTCTTCAATCTGCTCCA
* ** * *
46125194 CTATTGCTTAGGGAGATAAGA-TCTGCAAT-TTCCAACCTACTCCA
1 CTACTGCTTAGGGAGATAAGATTC-GCCGTCTT-CAATCTGCTCCA
* * * * * * *
46125238 CTACTGAC-CAGGGACATAGGACTT-G-TGGCTTAAATCTGTTTCC-
1 CTACTG-CTTAGGGAGATAAGA-TTCGCCGTCTTCAATCTG-CTCCA
* * * *
46125281 CTACTCCTGAGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCA
1 CTACTGCTTAGGGAGATAAGATTCGCCGTCTTCAATCTGCTCCA
*
46125325 CTATTGCTTAGGGAGATAAGAT
1 CTACTGCTTAGGGAGATAAGAT
46125347 CTGTGACTTT
Statistics
Matches: 109, Mismatches: 32, Indels: 24
0.66 0.19 0.15
Matches are distributed among these distances:
42 3 0.03
43 26 0.24
44 72 0.66
45 7 0.06
46 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.29
Consensus pattern (44 bp):
CTACTGCTTAGGGAGATAAGATTCGCCGTCTTCAATCTGCTCCA
Found at i:46145947 original size:22 final size:22
Alignment explanation
Indices: 46145904--46145999 Score: 124
Period size: 22 Copynumber: 4.4 Consensus size: 22
46145894 AAACAAATCA
46145904 TCTCTCATATTTCC-TCTC-AAAT
1 TCTCTCA-ATTTCCTTC-CAAAAT
* *
46145926 CCTCTCAATTTCTTTCCAAAAT
1 TCTCTCAATTTCCTTCCAAAAT
46145948 TCTCTCAATTTCCTTCCAAAAT
1 TCTCTCAATTTCCTTCCAAAAT
* *
46145970 TCTCTTAATTACCTTCCAAAAT
1 TCTCTCAATTTCCTTCCAAAAT
46145992 TCTCTCAA
1 TCTCTCAA
46146000 ATCCATATTT
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.09
22 59 0.91
ACGTcount: A:0.27, C:0.31, G:0.00, T:0.42
Consensus pattern (22 bp):
TCTCTCAATTTCCTTCCAAAAT
Found at i:46147174 original size:7 final size:7
Alignment explanation
Indices: 46147162--46147187 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
46147152 TAGTCGATTG
46147162 GTATTTA
1 GTATTTA
46147169 GTATTTA
1 GTATTTA
46147176 GTATTTA
1 GTATTTA
46147183 GTATT
1 GTATT
46147188 ATTATGTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:46147869 original size:18 final size:18
Alignment explanation
Indices: 46147846--46147881 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
46147836 GCGTTTCCTA
46147846 ACCCTTATATGTACCCTT
1 ACCCTTATATGTACCCTT
*
46147864 ACCCTTATATGTATCCTT
1 ACCCTTATATGTACCCTT
46147882 TTCCGAGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.31, G:0.06, T:0.42
Consensus pattern (18 bp):
ACCCTTATATGTACCCTT
Found at i:46148410 original size:29 final size:29
Alignment explanation
Indices: 46148374--46148859 Score: 651
Period size: 29 Copynumber: 16.9 Consensus size: 29
46148364 GTTTATTCCT
* *
46148374 AACCCTAACCCTAACCAAACTTTATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
* * *
46148403 AACACTAACCCTAACCAAACTCAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
* *
46148432 AACCCTAACCCTACCCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
*
46148461 AACCCTAACCCTAACCTAACTCAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
* * *
46148490 AATCGTAAACCCTAACCTAATTTAATTAAA
1 AACCCT-AACCCTAACCTAACTTAATTAAA
* *
46148520 AACCCTAATCCTAACCAAACTTAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
* * *
46148549 AACCCTAACCCTAACCTGATTTAGTTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
* *
46148578 AACCTTAACCCTAACCAAACTTAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
*
46148607 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
* * *
46148636 AACCCTAACCCTAACCAAAATCAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
*
46148665 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
46148694 AACCCTAA-CC--A---AACTTAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
* *
46148717 AACCCTAACCCTAACGTAATTTAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
46148746 AACCCTAACCCTAACCTAACTTAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
*
46148775 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
* *
46148804 AACCCTAACCCTAACCAAACTTAATGAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
*
46148833 AACCCTAACCCTAACCCTAACTCAATT
1 AACCCTAACCCTAA-CCTAACTTAATT
46148860 GATAATTTCA
Statistics
Matches: 399, Mismatches: 50, Indels: 15
0.86 0.11 0.03
Matches are distributed among these distances:
23 19 0.05
24 2 0.01
26 2 0.01
28 2 0.01
29 340 0.85
30 34 0.09
ACGTcount: A:0.46, C:0.29, G:0.01, T:0.24
Consensus pattern (29 bp):
AACCCTAACCCTAACCTAACTTAATTAAA
Found at i:46148443 original size:58 final size:58
Alignment explanation
Indices: 46148374--46148848 Score: 730
Period size: 58 Copynumber: 8.3 Consensus size: 58
46148364 GTTTATTCCT
* * *
46148374 AACCCTAACCCTAACCAAACTTT-ATTAAAAACACTAACCCTAACCAAACTCAATTAAA
1 AACCCTAACCCTAACCTAA-TTTAATTAAAAACCCTAACCCTAACCAAACTTAATTAAA
* * *
46148432 AACCCTAACCCTACCCTAATTTAATTAAAAACCCTAACCCTAACCTAACTCAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCAAACTTAATTAAA
* * *
46148490 AATCGTAAACCCTAACCTAATTTAATTAAAAACCCTAATCCTAACCAAACTTAATTAAA
1 AACCCT-AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCAAACTTAATTAAA
* * *
46148549 AACCCTAACCCTAACCTGATTTAGTTAAAAACCTTAACCCTAACCAAACTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCAAACTTAATTAAA
* *
46148607 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCAAAATCAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCAAACTTAATTAAA
46148665 AACCCTAACCCTAACCTAATTTAATT--AAA----AACCCTAACCAAACTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCAAACTTAATTAAA
* *
46148717 AACCCTAACCCTAACGTAATTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCAAACTTAATTAAA
*
46148775 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCAAACTTAATGAAA
1 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCAAACTTAATTAAA
46148833 AACCCTAACCCTAACC
1 AACCCTAACCCTAACC
46148849 CTAACTCAAT
Statistics
Matches: 381, Mismatches: 28, Indels: 16
0.90 0.07 0.04
Matches are distributed among these distances:
52 46 0.12
54 3 0.01
56 3 0.01
57 3 0.01
58 274 0.72
59 52 0.14
ACGTcount: A:0.46, C:0.29, G:0.01, T:0.24
Consensus pattern (58 bp):
AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCAAACTTAATTAAA
Found at i:46148749 original size:23 final size:23
Alignment explanation
Indices: 46148671--46148813 Score: 106
Period size: 23 Copynumber: 5.4 Consensus size: 23
46148661 TAAAAACCCT
46148671 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
* *
46148694 AACCCTAACCAAACTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
46148717 AACCCTAACCCTAACGTAATTTAATTAAA
1 AACCCTAA--C---C-TAATTTAATTAAA
46148746 AACCCTAACCCTAACCTAACTTAATTAAAAA
1 AACCCTAA-CCTAA--T---TTAATT--AAA
46148777 CCCTAACCCTAACCTAATTTAATTAAA
1 ----AACCCTAACCTAATTTAATTAAA
46148804 AACCCTAACC
1 AACCCTAACC
46148814 CTAACCAAAC
Statistics
Matches: 99, Mismatches: 4, Indels: 34
0.72 0.03 0.25
Matches are distributed among these distances:
23 39 0.39
24 3 0.03
25 2 0.02
26 1 0.01
27 3 0.03
28 3 0.03
29 31 0.31
31 3 0.03
32 1 0.01
34 5 0.05
35 8 0.08
ACGTcount: A:0.46, C:0.28, G:0.01, T:0.25
Consensus pattern (23 bp):
AACCCTAACCTAATTTAATTAAA
Found at i:46149083 original size:37 final size:37
Alignment explanation
Indices: 46148861--46149081 Score: 415
Period size: 37 Copynumber: 6.0 Consensus size: 37
46148851 AACTCAATTG
46148861 ATAATTTCACTAACCATTAATAATTTTATATAATTTC
1 ATAATTTCACTAACCATTAATAATTTTATATAATTTC
46148898 ATAATTTCACTAACCATTAATAATTTTATATAATTTC
1 ATAATTTCACTAACCATTAATAATTTTATATAATTTC
46148935 ATAATTTCACTAACCATTAATAATTTTATATAATTTC
1 ATAATTTCACTAACCATTAATAATTTTATATAATTTC
46148972 ATAATTTCACTAACCATTAATAATTTTATATAATTTC
1 ATAATTTCACTAACCATTAATAATTTTATATAATTTC
*
46149009 ATAATTTCACTAACCATTAATAATTTTATATAATTTG
1 ATAATTTCACTAACCATTAATAATTTTATATAATTTC
* *
46149046 ATAATTTTACTAACCATTAGTAATTTTATATAATTT
1 ATAATTTCACTAACCATTAATAATTTTATATAATTT
46149082 GAGTTAATAC
Statistics
Matches: 181, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 181 1.00
ACGTcount: A:0.40, C:0.12, G:0.01, T:0.47
Consensus pattern (37 bp):
ATAATTTCACTAACCATTAATAATTTTATATAATTTC
Found at i:46152479 original size:125 final size:124
Alignment explanation
Indices: 46152116--46152492 Score: 612
Period size: 125 Copynumber: 3.0 Consensus size: 124
46152106 CCCAAACATG
* *
46152116 CTACTGTAGCAAAAGCGCGCCCACGAGGCCACGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
46152181 TAGAAGCGATTTTATACTATTTGGTCAGAAAAGTCAAAAAAAATTATTTCTTACATGAC
66 TAAAAGCGATTTTATACTATTTGCTCAGAAAAGTCAAAAAAAATTATTTCTTACATGAC
46152240 CTACTGTAGCAAAAGCGCGTCCACGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
46152305 TAAAAGCGATTTTATACTATTTGCTCAGAAAATTCAAAAAAAAAATATTTCTTACATGAC
66 TAAAAGCGATTTTATACTATTTGCTCAGAAAAGTC-AAAAAAAATTATTTCTTACATGAC
* *
46152365 CTACTGTAGCAAAAGCTCGTCCACGAGGCCGTGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
** * *
46152430 TAAAAGCGATTTTATACTATTTGCTCAGAAACA-TCAACTCAAAATTATTTCTTCCAGGAC
66 TAAAAGCGATTTTATACTATTTGCTCAGAAA-AGTCAA-AAAAAATTATTTCTTACATGAC
46152490 CTA
1 CTA
46152493 AAAACCCTAA
Statistics
Matches: 237, Mismatches: 13, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
124 97 0.41
125 139 0.59
126 1 0.00
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.28
Consensus pattern (124 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAAAAGCGATTTTATACTATTTGCTCAGAAAAGTCAAAAAAAATTATTTCTTACATGAC
Found at i:46154405 original size:33 final size:31
Alignment explanation
Indices: 46154336--46154415 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 31
46154326 TAAAGCCATC
46154336 AACAATTAGATGTTCG-TTGTTTCAAAAAAA
1 AACAATTAGATGTTCGTTTGTTTCAAAAAAA
46154366 AACAATTAGATGTTCGTTTTGTTTCAAAATAAA
1 AACAATTAGATGTTCG-TTTGTTTCAAAA-AAA
46154399 AACAATTAGATGTTCGT
1 AACAATTAGATGTTCGT
46154416 AGACAACTTC
Statistics
Matches: 47, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
30 16 0.34
32 12 0.26
33 19 0.40
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (31 bp):
AACAATTAGATGTTCGTTTGTTTCAAAAAAA
Found at i:46155258 original size:19 final size:20
Alignment explanation
Indices: 46155236--46155273 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
46155226 TATCTTAAAT
46155236 TTTAAAAT-AAAAATAAAAA
1 TTTAAAATCAAAAATAAAAA
* *
46155255 TTTAGAATCAAAACTAAAA
1 TTTAAAATCAAAAATAAAA
46155274 TAAATAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.66, C:0.05, G:0.03, T:0.26
Consensus pattern (20 bp):
TTTAAAATCAAAAATAAAAA
Found at i:46160227 original size:110 final size:111
Alignment explanation
Indices: 46160030--46160240 Score: 307
Period size: 110 Copynumber: 1.9 Consensus size: 111
46160020 TCCTATGTCT
46160030 ATCAAAGCAAAATAAGGAGCAGCATGAATAAAGAACGTACCAACGATAACATCTACGGTGTCTCT
1 ATCAAAGCAAAATAAGGAGCAGCATGAATAAAGAACGTACCAACGATAACATCTACGGTGTCTCT
* * * * *
46160095 GTCCTTACGGCGTCTAGCCGCATAAATCAGTGTAGGCATATGATCA
66 ATCCTCACGACATCTAGCCGCATAAACCAGTGTAGGCATATGATCA
* * * * **
46160141 ATCAAAGCAAAATAAGGAGCCGTATGAATGAAGAATGTACTGA-GATAACATCTACGGTGTCTCT
1 ATCAAAGCAAAATAAGGAGCAGCATGAATAAAGAACGTACCAACGATAACATCTACGGTGTCTCT
*
46160205 ATCCTCACGACATCTAGTCGCATAAACCAGTGTAGG
66 ATCCTCACGACATCTAGCCGCATAAACCAGTGTAGG
46160241 GAGCCTTGTC
Statistics
Matches: 88, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
110 51 0.58
111 37 0.42
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.22
Consensus pattern (111 bp):
ATCAAAGCAAAATAAGGAGCAGCATGAATAAAGAACGTACCAACGATAACATCTACGGTGTCTCT
ATCCTCACGACATCTAGCCGCATAAACCAGTGTAGGCATATGATCA
Found at i:46166838 original size:22 final size:21
Alignment explanation
Indices: 46166785--46166832 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
46166775 CCAAAACATG
*
46166785 CAATTTAACCATTTTTAATTC
1 CAATTTAACCATTTTTAAGTC
46166806 CAATTTAACCATTTTTAAGTC
1 CAATTTAACCATTTTTAAGTC
46166827 CAATTT
1 CAATTT
46166833 GCACCAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.33, C:0.19, G:0.02, T:0.46
Consensus pattern (21 bp):
CAATTTAACCATTTTTAAGTC
Found at i:46166839 original size:10 final size:10
Alignment explanation
Indices: 46166826--46166852 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
46166816 ATTTTTAAGT
46166826 CCAATTTGCA
1 CCAATTTGCA
46166836 CCAATTTGCA
1 CCAATTTGCA
46166846 CCAATTT
1 CCAATTT
46166853 CACATCAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.33
Consensus pattern (10 bp):
CCAATTTGCA
Found at i:46168210 original size:22 final size:23
Alignment explanation
Indices: 46168167--46168211 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
46168157 AAAAAGGTAC
46168167 CATATTTTTTGTATAATCTAATT
1 CATATTTTTTGTATAATCTAATT
46168190 CATATTTTTT-TACTAAT-TAATT
1 CATATTTTTTGTA-TAATCTAATT
46168212 TTGTTTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.31, C:0.09, G:0.02, T:0.58
Consensus pattern (23 bp):
CATATTTTTTGTATAATCTAATT
Found at i:46168573 original size:75 final size:75
Alignment explanation
Indices: 46168449--46168606 Score: 271
Period size: 75 Copynumber: 2.1 Consensus size: 75
46168439 AAATTGTTGT
*
46168449 TGCTAGTGGGGTAGAAGGAGTAAATACTAAGAGGGTAAGCAGTGATATAAGTGAATATGCAAATG
1 TGCTAGTGGGGTAGAAGGAGTAAATACTAAGAGGGTAAGCAGTGATATAAGTGAATATGCAAATA
46168514 CAGATGAGGA
66 CAGATGAGGA
*
46168524 TGCTAGTGGGGTAGAAGGAGTAAATACTAAGAGGGTAAGCAGTGGTATAAGTGAATATGCAAATA
1 TGCTAGTGGGGTAGAAGGAGTAAATACTAAGAGGGTAAGCAGTGATATAAGTGAATATGCAAATA
**
46168589 TGGATGAGGA
66 CAGATGAGGA
*
46168599 TGATAGTG
1 TGCTAGTG
46168607 ACTTTCAAAG
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
75 78 1.00
ACGTcount: A:0.37, C:0.06, G:0.34, T:0.23
Consensus pattern (75 bp):
TGCTAGTGGGGTAGAAGGAGTAAATACTAAGAGGGTAAGCAGTGATATAAGTGAATATGCAAATA
CAGATGAGGA
Found at i:46168666 original size:3 final size:3
Alignment explanation
Indices: 46168658--46168738 Score: 146
Period size: 3 Copynumber: 27.3 Consensus size: 3
46168648 TGGGTTAGTA
46168658 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
*
46168706 ATG ATG ATG ATG ATG ATG ATG AGG ATG A-G ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
46168739 CGAATATTAG
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
2 2 0.03
3 73 0.97
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.31
Consensus pattern (3 bp):
ATG
Found at i:46177164 original size:28 final size:28
Alignment explanation
Indices: 46177131--46177188 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
46177121 AAAAGGAAAC
*
46177131 AAATTGAAACGATAACACAAGGAACAAG
1 AAATTGAAACGACAACACAAGGAACAAG
* *
46177159 AAATTGAAATGGCAACACAAGGAACAAG
1 AAATTGAAACGACAACACAAGGAACAAG
46177187 AA
1 AA
46177189 GCCAAGAACA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.57, C:0.14, G:0.19, T:0.10
Consensus pattern (28 bp):
AAATTGAAACGACAACACAAGGAACAAG
Found at i:46177745 original size:29 final size:27
Alignment explanation
Indices: 46177691--46177757 Score: 71
Period size: 29 Copynumber: 2.4 Consensus size: 27
46177681 AATTTAGCAT
* * *
46177691 TTTTTTATTTTTATTTTTATTTTAATA
1 TTTTTTAATTTAATTTTTATTCTAATA
*
46177718 TTTTTTAATTTAATTTTTACATTCTAATT
1 TTTTTTAATTTAATTTTT--ATTCTAATA
*
46177747 TTTTTTCATTT
1 TTTTTTAATTT
46177758 GTTTGATTCT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
27 16 0.48
29 17 0.52
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.73
Consensus pattern (27 bp):
TTTTTTAATTTAATTTTTATTCTAATA
Found at i:46177749 original size:28 final size:26
Alignment explanation
Indices: 46177689--46177751 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
46177679 TTAATTTAGC
* * *
46177689 ATTTTTTTATTTTTATTTTTATTTTA
1 ATTTTTTTAATTTAATTTTTATTCTA
46177715 ATATTTTTTAATTTAATTTTTACATTCTA
1 AT-TTTTTTAATTTAATTTTT--ATTCTA
46177744 ATTTTTTT
1 ATTTTTTT
46177752 TCATTTGTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
26 2 0.06
27 16 0.52
28 6 0.19
29 7 0.23
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (26 bp):
ATTTTTTTAATTTAATTTTTATTCTA
Found at i:46178466 original size:38 final size:37
Alignment explanation
Indices: 46178426--46178559 Score: 225
Period size: 38 Copynumber: 3.6 Consensus size: 37
46178416 TAAATATTAT
*
46178426 TTTTAAAATATTTTT-ACATACTTTTTAATTTTTTAAA
1 TTTTAAAATATTTTTAAAATACTTTTTAATTTTTT-AA
46178463 TTTTAAAATATTTTTAAAATACTTTTTAAATTTTTTAA
1 TTTTAAAATATTTTTAAAATACTTTTT-AATTTTTTAA
46178501 TTTTAAAATATTTTTAAAATACTTTTTTAATTTTTTAA
1 TTTTAAAATATTTTTAAAATAC-TTTTTAATTTTTTAA
46178539 TTTTAAAATATTTTTAAAATA
1 TTTTAAAATATTTTTAAAATA
46178560 AAAATGGGCC
Statistics
Matches: 93, Mismatches: 1, Indels: 5
0.94 0.01 0.05
Matches are distributed among these distances:
37 15 0.16
38 65 0.70
39 13 0.14
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (37 bp):
TTTTAAAATATTTTTAAAATACTTTTTAATTTTTTAA
Found at i:46178559 original size:11 final size:10
Alignment explanation
Indices: 46178423--46178556 Score: 85
Period size: 11 Copynumber: 14.0 Consensus size: 10
46178413 TAATAAATAT
46178423 TATTTTTAAAA
1 TATTTTT-AAA
*
46178434 TATTTTTACA
1 TATTTTTAAA
46178444 TACTTTTT-AA
1 TA-TTTTTAAA
46178454 T-TTTTT-AA
1 TATTTTTAAA
*
46178462 -ATTTTAAAA
1 TATTTTTAAA
46178471 TATTTTTAAAA
1 TATTTTT-AAA
46178482 TACTTTTTAAA
1 TA-TTTTTAAA
46178493 T-TTTTT--A
1 TATTTTTAAA
*
46178500 -ATTTTAAAA
1 TATTTTTAAA
46178509 TATTTTTAAAA
1 TATTTTT-AAA
*
46178520 TACTTTTTTAA
1 TA-TTTTTAAA
46178531 T-TTTTT--A
1 TATTTTTAAA
*
46178538 -ATTTTAAAA
1 TATTTTTAAA
46178547 TATTTTTAAA
1 TATTTTTAAA
46178557 ATAAAAATGG
Statistics
Matches: 98, Mismatches: 9, Indels: 33
0.70 0.06 0.24
Matches are distributed among these distances:
7 10 0.10
8 11 0.11
9 14 0.14
10 24 0.24
11 29 0.30
12 10 0.10
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (10 bp):
TATTTTTAAA
Found at i:46182919 original size:35 final size:35
Alignment explanation
Indices: 46182879--46182950 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
46182869 AGGAAGGTAG
46182879 AATTCAATTGGTATTGCTCTTCTGAAATAATCTTA
1 AATTCAATTGGTATTGCTCTTCTGAAATAATCTTA
46182914 AATTCAATTGGTATTGCTCTTCTGAAATAATCTTA
1 AATTCAATTGGTATTGCTCTTCTGAAATAATCTTA
46182949 AA
1 AA
46182951 ATAGAATTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (35 bp):
AATTCAATTGGTATTGCTCTTCTGAAATAATCTTA
Found at i:46187986 original size:3 final size:3
Alignment explanation
Indices: 46187978--46188003 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
46187968 TTCTTTGTCT
46187978 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
46188004 TTTTAGCATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:46199299 original size:22 final size:23
Alignment explanation
Indices: 46199253--46199299 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
46199243 AAGTGTAAAA
*
46199253 AATGATTTATTATTGTTGGAAAT
1 AATGATTTATAATTGTTGGAAAT
*
46199276 AATGATTTGTAATTGTT-GAAAT
1 AATGATTTATAATTGTTGGAAAT
46199298 AA
1 AA
46199300 ATTTGCATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.45
Consensus pattern (23 bp):
AATGATTTATAATTGTTGGAAAT
Found at i:46201635 original size:6 final size:7
Alignment explanation
Indices: 46201614--46201638 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
46201604 GACAAACCGT
46201614 AAATAAA
1 AAATAAA
46201621 AAATAAA
1 AAATAAA
46201628 AAATAAA
1 AAATAAA
46201635 AAAT
1 AAAT
46201639 GAACTTGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (7 bp):
AAATAAA
Found at i:46203667 original size:20 final size:20
Alignment explanation
Indices: 46203642--46203682 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
46203632 TCCTTTGGTT
46203642 AGTGCATCAGCTAGTGTCAC
1 AGTGCATCAGCTAGTGTCAC
46203662 AGTGCATCAGCTAGTGTCAC
1 AGTGCATCAGCTAGTGTCAC
46203682 A
1 A
46203683 CCCTAGTTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.24
Consensus pattern (20 bp):
AGTGCATCAGCTAGTGTCAC
Found at i:46210708 original size:2 final size:2
Alignment explanation
Indices: 46210701--46210727 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
46210691 ATTTATTTAG
46210701 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
46210728 GGAAAGAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:46215445 original size:19 final size:19
Alignment explanation
Indices: 46215421--46215458 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
46215411 ACTTACGCAG
46215421 AGTTTACTATACCTCACAA
1 AGTTTACTATACCTCACAA
*
46215440 AGTTTATTATACCTCACAA
1 AGTTTACTATACCTCACAA
46215459 TTTACAATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (19 bp):
AGTTTACTATACCTCACAA
Found at i:46223713 original size:9 final size:9
Alignment explanation
Indices: 46223695--46223743 Score: 80
Period size: 9 Copynumber: 5.4 Consensus size: 9
46223685 AGTATAAAAC
*
46223695 TTAACTGAA
1 TTAACCGAA
46223704 TTAACCGAA
1 TTAACCGAA
*
46223713 TTAATCGAA
1 TTAACCGAA
46223722 TTAACCGAA
1 TTAACCGAA
46223731 TTAACCGAA
1 TTAACCGAA
46223740 TTAA
1 TTAA
46223744 AGTATTGAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
9 37 1.00
ACGTcount: A:0.45, C:0.16, G:0.10, T:0.29
Consensus pattern (9 bp):
TTAACCGAA
Found at i:46224419 original size:20 final size:21
Alignment explanation
Indices: 46224394--46224443 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
46224384 CTTTCCACCA
46224394 CAATAAAATATT-AAAATCTT
1 CAATAAAATATTAAAAATCTT
46224414 CAATAAAATATTAAAAATCTT
1 CAATAAAATATTAAAAATCTT
*
46224435 CAACAAAAT
1 CAATAAAAT
46224444 CCTCATTAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (21 bp):
CAATAAAATATTAAAAATCTT
Found at i:46226580 original size:26 final size:26
Alignment explanation
Indices: 46226550--46226610 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
46226540 ATAAGGCTAA
* *
46226550 TTATTTTAAGTT-CTTTATATATTATT
1 TTATTTTAAGTTACTTTACATATTA-C
* *
46226576 TTATTTAAAGTTATTTTACATATTAC
1 TTATTTTAAGTTACTTTACATATTAC
46226602 TTATTTTAA
1 TTATTTTAA
46226611 AATTAACCAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
26 19 0.66
27 10 0.34
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (26 bp):
TTATTTTAAGTTACTTTACATATTAC
Found at i:46226609 original size:27 final size:25
Alignment explanation
Indices: 46226549--46226611 Score: 65
Period size: 27 Copynumber: 2.4 Consensus size: 25
46226539 CATAAGGCTA
*
46226549 ATTATTTT-AAGTTCTTTATATATT
1 ATTATTTTAAAGTTCTTTACATATT
* *
46226573 ATTTTATTTAAAGTTATTTTACATATT
1 ATTAT-TTTAAAGTT-CTTTACATATT
46226600 ACTTATTTTAAA
1 A-TTATTTTAAA
46226612 ATTAACCATA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
24 4 0.13
25 3 0.10
26 5 0.16
27 16 0.52
28 3 0.10
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (25 bp):
ATTATTTTAAAGTTCTTTACATATT
Found at i:46231303 original size:14 final size:14
Alignment explanation
Indices: 46231280--46231318 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
46231270 TGTTACTATG
46231280 TTTTATTTTTAGAC
1 TTTTATTTTTAGAC
* *
46231294 TTTTAGTTTTAGAT
1 TTTTATTTTTAGAC
46231308 TTTTATTTTTA
1 TTTTATTTTTA
46231319 TTTATTAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.21, C:0.03, G:0.08, T:0.69
Consensus pattern (14 bp):
TTTTATTTTTAGAC
Found at i:46237120 original size:18 final size:19
Alignment explanation
Indices: 46237097--46237134 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
46237087 TTGCTATTTT
46237097 TATA-TTACAAAATATCTA
1 TATATTTACAAAATATCTA
46237115 TATATTTTACAAAATATCTA
1 TATA-TTTACAAAATATCTA
46237135 CTCTCTTACC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.22
20 14 0.78
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (19 bp):
TATATTTACAAAATATCTA
Found at i:46249569 original size:62 final size:60
Alignment explanation
Indices: 46249453--46249569 Score: 153
Period size: 62 Copynumber: 1.9 Consensus size: 60
46249443 TTGTACAAAC
* ****
46249453 TATTTTTATATTGTTTTATTTAATAAAATAAAAGTTGTTTTGAATATTTTAATAGTAAAT
1 TATTTTTATATTGTTTTATTTAATAAAATAAAAGTTCTTTTGAATAAGACAATAGTAAAT
* *
46249513 TATTTTTATATTTTTTCCTATTTAATAAAATAGAAGTTCTTTTGAATAAGACAATAG
1 TATTTTTATATTGTTT--TATTTAATAAAATAAAAGTTCTTTTGAATAAGACAATAG
46249570 GAATAATGCA
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
60 15 0.31
62 33 0.69
ACGTcount: A:0.38, C:0.03, G:0.09, T:0.50
Consensus pattern (60 bp):
TATTTTTATATTGTTTTATTTAATAAAATAAAAGTTCTTTTGAATAAGACAATAGTAAAT
Found at i:46252908 original size:126 final size:125
Alignment explanation
Indices: 46252598--46253116 Score: 661
Period size: 124 Copynumber: 4.2 Consensus size: 125
46252588 AAGGCCAAAT
* ** * *
46252598 AGGAACTACTGTAGAAAAAGAGTGTCCACATGGGAGCTTTTTTTAGTAATTTTGCTGACAGTGCA
1 AGGAACTACTGTAGAAAAAAAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCA
** *
46252663 TCCTGCTTGAAGCGTTTTTGACACTATTTTTTAGAGTCATCTTTTCAAAATTATTTTTT-
66 TCCTGCTTGAAGCGTTTTTGACACTATTTTTTAGAACCATCTTCTCAAAATTATTTTTTC
* * * * *
46252722 AGGAACTACTATAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTCAATAATTTTACTGACAGTGTA
1 AGGAACTACTGTAGAAAAAAAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCA
* *
46252787 TCTTGCTTGAAGTGTTTTTGACACTATTTTTTAGAACCATCTTCTCAAAATTATTTTTTTC
66 TCCTGCTTGAAGCGTTTTTGACACTATTTTTTAGAACCATCTTCTCAAAATTA-TTTTTTC
* *
46252848 AGGAACTACTGTAAAAAAAAAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTCCA
1 AGGAACTACTGTAGAAAAAAAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCA
* ** *
46252913 TCCTGCTTGAAGTGCTTTTT-ACACTATTTTTTCAGAACTGTCTTCT-TAAATTA-TTTTTC
66 TCCTGCTTGAAGCG-TTTTTGACACTATTTTTT-AGAACCATCTTCTCAAAATTATTTTTTC
* * * *
46252972 AAGAACTACTGTAGAAAAAGAGCATCTACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCA
1 AGGAACTACTGTAGAAAAAAAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCA
* * * * **
46253037 TCCTGCTTGAAGCATTTTTGATATTATCTTTTCAGAACTGTCTTCTCAAAATTATTTTTTC
66 TCCTGCTTGAAGCGTTTTTGACACTAT-TTTTTAGAACCATCTTCTCAAAATTATTTTTTC
** *
46253098 AAAAACTACTATA-AAAAAA
1 AGGAACTACTGTAGAAAAAA
46253117 CAAAATTCTT
Statistics
Matches: 348, Mismatches: 39, Indels: 15
0.87 0.10 0.04
Matches are distributed among these distances:
123 5 0.01
124 200 0.57
125 21 0.06
126 106 0.30
127 16 0.05
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (125 bp):
AGGAACTACTGTAGAAAAAAAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCA
TCCTGCTTGAAGCGTTTTTGACACTATTTTTTAGAACCATCTTCTCAAAATTATTTTTTC
Found at i:46253046 original size:250 final size:249
Alignment explanation
Indices: 46252598--46253116 Score: 677
Period size: 250 Copynumber: 2.1 Consensus size: 249
46252588 AAGGCCAAAT
* * ** * *
46252598 AGGAACTACTGTAGAAAAAGAGTGTCCACATGGGAGCTTTTTTTAGTAATTTTGCTGACAGTGCA
1 AGGAACTACTGTAAAAAAAAAGCATCCACATGGGAGCTTTTTTCAGTAATTTTGCTGACAGTCCA
* * *
46252663 TCCTGCTTGAAGCGTTTTTGACACTATTTTTTAGAGTCATCTTTTCAAAATTATTTTTTAGGAAC
66 TCCTGCTTGAAGCGTTTTTGACACTATTTTTTAGACTCATCTTTT-AAAATTATTTTTCAAGAAC
* * *
46252728 TACTATAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTCAATAATTTTACTGACAGTGTATCTTGC
130 TACTATAGAAAAAAAGCATCCACGTGGGAGCTTTTTTCAATAATTTTACTGACAGTGCATCCTGC
** *
46252793 TTGAAGTGTTTTTGACACTAT-TTTTTAGAACCATCTTCTCAAAATTATTTTTTTC
195 TTGAAGCATTTTTGACACTATCTTTTCAGAACCATCTTCTCAAAATTA-TTTTTTC
*
46252848 AGGAACTACTGTAAAAAAAAAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTCCA
1 AGGAACTACTGTAAAAAAAAAGCATCCACATGGGAGCTTTTTTCAGTAATTTTGCTGACAGTCCA
* *
46252913 TCCTGCTTGAAGTGCTTTTT-ACACTATTTTTTCAGAACT-GTCTTCTT-AAATTATTTTTCAAG
66 TCCTGCTTGAAGCG-TTTTTGACACTATTTTTT-AG-ACTCATCTT-TTAAAATTATTTTTCAAG
* * * * * *
46252975 AACTACTGTAGAAAAAGAGCATCTACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
127 AACTACTATAGAAAAAAAGCATCCACGTGGGAGCTTTTTTCAATAATTTTACTGACAGTGCATCC
* * **
46253040 TGCTTGAAGCATTTTTGATATTATCTTTTCAGAACTGTCTTCTCAAAATTATTTTTTC
192 TGCTTGAAGCATTTTTGACACTATCTTTTCAGAACCATCTTCTCAAAATTATTTTTTC
** *
46253098 AAAAACTACTATAAAAAAA
1 AGGAACTACTGTAAAAAAA
46253117 CAAAATTCTT
Statistics
Matches: 233, Mismatches: 31, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
250 195 0.84
251 34 0.15
252 4 0.02
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (249 bp):
AGGAACTACTGTAAAAAAAAAGCATCCACATGGGAGCTTTTTTCAGTAATTTTGCTGACAGTCCA
TCCTGCTTGAAGCGTTTTTGACACTATTTTTTAGACTCATCTTTTAAAATTATTTTTCAAGAACT
ACTATAGAAAAAAAGCATCCACGTGGGAGCTTTTTTCAATAATTTTACTGACAGTGCATCCTGCT
TGAAGCATTTTTGACACTATCTTTTCAGAACCATCTTCTCAAAATTATTTTTTC
Found at i:46253240 original size:34 final size:35
Alignment explanation
Indices: 46253197--46253262 Score: 116
Period size: 34 Copynumber: 1.9 Consensus size: 35
46253187 CTAACCACAA
46253197 AATTATTTTTAAAAAATCTAAACCCTAATTTAATT
1 AATTATTTTTAAAAAATCTAAACCCTAATTTAATT
*
46253232 AATT-TTTTTAAAAATTCTAAACCCTAATTTA
1 AATTATTTTTAAAAAATCTAAACCCTAATTTA
46253263 TTTTTTAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 26 0.87
35 4 0.13
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (35 bp):
AATTATTTTTAAAAAATCTAAACCCTAATTTAATT
Found at i:46253265 original size:29 final size:31
Alignment explanation
Indices: 46253202--46253287 Score: 97
Period size: 34 Copynumber: 2.7 Consensus size: 31
46253192 CACAAAATTA
*
46253202 TTTTTAAAAAATCTAAACCCTAATTTAATTAATT
1 TTTTTAAAAATTCTAAACCCTAA-TT-ATTAA-T
46253236 TTTTTAAAAATTCTAAACCCTAA-T-TT-AT
1 TTTTTAAAAATTCTAAACCCTAATTATTAAT
*
46253264 TTTTTAAAAATCCCTAAACCCTAA
1 TTTTTAAAAAT-TCTAAACCCTAA
46253288 ATAAATAAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 7
0.84 0.03 0.12
Matches are distributed among these distances:
28 12 0.24
29 12 0.24
30 2 0.04
32 1 0.02
34 22 0.45
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTTTAAAAATTCTAAACCCTAATTATTAAT
Found at i:46253358 original size:15 final size:16
Alignment explanation
Indices: 46253323--46253360 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
46253313 ACAAAGCACT
*
46253323 AACCCTAAAATCATAA
1 AACCCTAAAACCATAA
*
46253339 AACCCTAAACCCAT-A
1 AACCCTAAAACCATAA
46253354 AACCCTA
1 AACCCTA
46253361 GGCACTAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.50, C:0.34, G:0.00, T:0.16
Consensus pattern (16 bp):
AACCCTAAAACCATAA
Found at i:46256949 original size:21 final size:21
Alignment explanation
Indices: 46256925--46256968 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
46256915 ATCTTCAAGG
46256925 ATATGCAATCTTAGATATAAT
1 ATATGCAATCTTAGATATAAT
* *
46256946 ATATGCAATCTTGGATATGAT
1 ATATGCAATCTTAGATATAAT
46256967 AT
1 AT
46256969 GCAATTTTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.39
Consensus pattern (21 bp):
ATATGCAATCTTAGATATAAT
Found at i:46256970 original size:19 final size:20
Alignment explanation
Indices: 46256924--46256979 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
46256914 AATCTTCAAG
*
46256924 GATATGCAATCTTAGATATAA
1 GATATGCAATCTTGGATAT-A
*
46256945 TATATGCAATCTTGGATAT-
1 GATATGCAATCTTGGATATA
*
46256964 GATATGCAATTTTGGA
1 GATATGCAATCTTGGA
46256980 AGATATGATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 14 0.45
21 17 0.55
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.38
Consensus pattern (20 bp):
GATATGCAATCTTGGATATA
Found at i:46257166 original size:43 final size:43
Alignment explanation
Indices: 46257113--46257201 Score: 151
Period size: 43 Copynumber: 2.1 Consensus size: 43
46257103 ATTGTTTGAA
*
46257113 AAAAAAATCAATAAAAAAAAGGGAGAACGATTGGCAATTTTTT
1 AAAAAAATCAATAAAAAAAAGGGAGAACGATTGACAATTTTTT
* *
46257156 AAAAAAATCAATAAAAAAAGGGGAGAACGATTGACAGTTTTTT
1 AAAAAAATCAATAAAAAAAAGGGAGAACGATTGACAATTTTTT
46257199 AAA
1 AAA
46257202 GGTGGCTTAC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.54, C:0.07, G:0.17, T:0.22
Consensus pattern (43 bp):
AAAAAAATCAATAAAAAAAAGGGAGAACGATTGACAATTTTTT
Found at i:46264124 original size:45 final size:45
Alignment explanation
Indices: 46263908--46264573 Score: 196
Period size: 44 Copynumber: 15.1 Consensus size: 45
46263898 CAAATCAGTT
* * *
46263908 AAGATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGGTCG
1 AAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCG
* * * * ** * * * * **
46263953 AAGACACCA-ACCTT-ACTTCCTTGGGT-TATAGCGGAGCAGGTTA
1 AAGATAGCAGATCTTGCCTTCC-TGCATCGACAGCGAAGCAGATCG
*
46263996 AAAATAGCAGATCTTGCCTTCCTGCA-CTGACAGCGAAGCAGATCG
1 AAGATAGCAGATCTTGCCTTCCTGCATC-GACAGCGAAGCAGATCG
* * * ** * * * * * *
46264041 AAGACA-CTAG-CCTTGCCTCCCTGGGTTG-TAGTGGAGCAGGTTG
1 AAGATAGC-AGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCG
* * *
46264084 AAGATAGTAGATCTTGCTTTCCTGCATCGACAACGAAGCAGATCG
1 AAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCG
* * * * ** * * * * * *
46264129 AAGATACCAG-CCTTCCCTCCCTGGGTTG-TAGTGGAGCAGGTTG
1 AAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCG
46264172 AAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCG
1 AAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCG
* ** * * * * * *
46264217 AAGATA-CTAG-CCTTGCC-TCCTTGGGTTG-TAGTG-GGCAGCTTG
1 AAGATAGC-AGATCTTGCCTTCC-TGCATCGACAGCGAAGCAGATCG
* * * * *
46264259 AAGATAACAGATCTTGCCTTCCTGTACCGATAGTGAAGCAGATCG
1 AAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCG
* ** * * * * *
46264304 AAGATA-CTAG-CCTTG-CTTCTCTGGGTCG-TAGTGGAGCAGGTTG
1 AAGATAGC-AGATCTTGCCTTC-CTGCATCGACAGCGAAGCAGATCG
* * * *
46264347 AAGATAGTAGATCTTGCCTTCTTGTA-CTGACAGTGAAGCAGATCG
1 AAGATAGCAGATCTTGCCTTCCTGCATC-GACAGCGAAGCAGATCG
* * * ** * * * * *
46264392 AAGATACCA-ACCTTGCCTCCCTGGGTCG-TAGTGGAGCAGGTTG
1 AAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCG
* *
46264435 AAGATAGCAGATCTTGCCTTCCT--ATACTGGCAGTGAAGCAGATCG
1 AAGATAGCAGATCTTGCCTTCCTGCAT-C-GACAGCGAAGCAGATCG
* * * ** * * * * * *
46264480 AAGATACCAG-CCTTGCCTCCCTGGGTTG-TAG-TAGAGTAGGTTG
1 AAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGA-AGCAGATCG
* * * *
46264523 AAGATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCA
1 AAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCG
46264568 AAGATA
1 AAGATA
46264574 CCAGCCTTGT
Statistics
Matches: 431, Mismatches: 153, Indels: 74
0.66 0.23 0.11
Matches are distributed among these distances:
42 16 0.04
43 136 0.32
44 143 0.33
45 134 0.31
46 2 0.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (45 bp):
AAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCG
Found at i:46264527 original size:43 final size:43
Alignment explanation
Indices: 46264051--46264546 Score: 223
Period size: 44 Copynumber: 11.3 Consensus size: 43
46264041 AAGACACTAG
* **
46264051 CCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGTAGA
1 CCTTGCCTCCCTGGGTCGTAGT-GAGCAGGTTGAAGATACCAGA
* * * ** * ** * *
46264095 TCTTGCTTTCCTGCATCGACAACGAAGCAGATCGAAGATACCAG-
1 CCTTGCCTCCCTGGGTCG-TAGTG-AGCAGGTTGAAGATACCAGA
* * *
46264139 CCTTCCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGA
1 CCTTGCCTCCCTGGGTCGTAGT-GAGCAGGTTGAAGATACCAGA
* * ** * * * * *
46264183 TCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGATACTAG-
1 CCTTGCCTCCCTGGGTCG-TAGTG-AGCAGGTTGAAGATACCAGA
* * * * *
46264227 CCTTGCCTCCTTGGGTTGTAGTGGGCAGCTTGAAGATAACAGA
1 CCTTGCCTCCCTGGGTCGTAGTGAGCAGGTTGAAGATACCAGA
* * *** * * *
46264270 TCTTGCCTTCCTGTACCGATAGTGAAGCAGATCGAAGATACTAG-
1 CCTTGCCTCCCTGGGTCG-TAGTG-AGCAGGTTGAAGATACCAGA
* * **
46264314 CCTTGCTTCTCTGGGTCGTAGTGGAGCAGGTTGAAGATAGTAGA
1 CCTTGCCTCCCTGGGTCGTAGT-GAGCAGGTTGAAGATACCAGA
* * * * * *
46264358 TCTTGCCT-TCT-TGTACTGACAGTGAAGCAGATCGAAGATACCA-A
1 CCTTGCCTCCCTGGGT-C-G-TAGTG-AGCAGGTTGAAGATACCAGA
*
46264402 CCTTGCCTCCCTGGGTCGTAGTGGAGCAGGTTGAAGATAGCAGA
1 CCTTGCCTCCCTGGGTCGTAGT-GAGCAGGTTGAAGATACCAGA
* * *** * * * *
46264446 TCTTGCCTTCCTATACTGGCAGTGAAGCAGATCGAAGATACCAG-
1 CCTTGCCTCCCT-GGGTCGTAGTG-AGCAGGTTGAAGATACCAGA
* * *
46264490 CCTTGCCTCCCTGGGTTGTAGTAGAGTAGGTTGAAGATAGCAGA
1 CCTTGCCTCCCTGGGTCGTAGT-GAGCAGGTTGAAGATACCAGA
* *
46264534 TCTTGCCTTCCTG
1 CCTTGCCTCCCTG
46264547 TACCGACAGT
Statistics
Matches: 318, Mismatches: 111, Indels: 46
0.67 0.23 0.10
Matches are distributed among these distances:
42 16 0.05
43 93 0.29
44 119 0.37
45 88 0.28
46 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (43 bp):
CCTTGCCTCCCTGGGTCGTAGTGAGCAGGTTGAAGATACCAGA
Found at i:46264563 original size:351 final size:350
Alignment explanation
Indices: 46263908--46264596 Score: 995
Period size: 351 Copynumber: 2.0 Consensus size: 350
46263898 CAAATCAGTT
*
46263908 AAGATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGGTCGAAGACACCAACCTTACTTCC
1 AAGATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAACCTTACTTCC
*
46263973 TTGGGTTATAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGA
66 TTGGGTCATAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGA
* * * * *
46264038 TCGAAGACACTAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGTAGATCTTGCTT
131 TCGAAGACACCAACCTTGCCTCCCTGGGTCGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCT
*
46264103 TCCTGCATCGACAACGAAGCAGATCGAAGATACCAGCCTTCCCTCCCTGGGTTGTAGTGGAGCAG
196 TCCT-CATCGACAACGAAGCAGATCGAAGATACCAGCCTTCCCTCCCTGGGTTGTAGTAGAGCAG
* * *
46264168 GTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGATACTAGCCTTGC
260 GTTGAAGATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGATACCAGCCTTGC
* *
46264233 CTCCTTGGGTTGTAGTGGGCAGCTTG
325 CTCCCTAGGTTGTAGTGGGCAGCTTG
* * * * * * *
46264259 AAGATAACAGATCTTGCCTTCCTGTACCGATAGTGAAGCAGATCGAAGATACTAGCCTTGCTT-C
1 AAGATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAACCTTACTTCC
* * * * * * * *
46264323 TCTGGGTCGTAGTGGAGCAGGTTGAAGATAGTAGATCTTGCCTTCTTGTACTGACAGTGAAGCAG
66 T-TGGGTCATAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAG
*
46264388 ATCGAAGATACCAACCTTGCCTCCCTGGGTCGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCC
130 ATCGAAGACACCAACCTTGCCTCCCTGGGTCGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCC
* ** * *
46264453 TTCCT-ATACTGGCAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTAGAGT
195 TTCCTCAT-C-GACAACGAAGCAGATCGAAGATACCAGCCTTCCCTCCCTGGGTTGTAGTAGAGC
* *
46264517 AGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCAAAGATACCAGCCTT
258 AGGTTGAAGATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGATACCAGCCTT
*
46264582 GTCTCCCTAGGTTGT
323 GCCTCCCTAGGTTGT
46264597 CGTGAAGTAG
Statistics
Matches: 298, Mismatches: 37, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
349 2 0.01
350 3 0.01
351 293 0.98
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (350 bp):
AAGATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAACCTTACTTCC
TTGGGTCATAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGA
TCGAAGACACCAACCTTGCCTCCCTGGGTCGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCT
TCCTCATCGACAACGAAGCAGATCGAAGATACCAGCCTTCCCTCCCTGGGTTGTAGTAGAGCAGG
TTGAAGATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGATACCAGCCTTGCC
TCCCTAGGTTGTAGTGGGCAGCTTG
Found at i:46264626 original size:88 final size:88
Alignment explanation
Indices: 46263908--46264596 Score: 921
Period size: 88 Copynumber: 7.8 Consensus size: 88
46263898 CAAATCAGTT
* * * * * * *
46263908 AAGATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGGTCGAAGACACCAACCTTACTTCC
1 AAGATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCC
* * * *
46263973 TTGGGTTATAGCGGAGCAGGTTA
66 CTGGGTTGTAGTGGAGCAGGTTG
* * * * *
46263996 AAAATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCC
1 AAGATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCC
46264061 CTGGGTTGTAGTGGAGCAGGTTG
66 CTGGGTTGTAGTGGAGCAGGTTG
* * * * * *
46264084 AAGATAGTAGATCTTGCTTTCCTGCATCGACAACGAAGCAGATCGAAGATACCAGCCTTCCCTCC
1 AAGATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCC
46264149 CTGGGTTGTAGTGGAGCAGGTTG
66 CTGGGTTGTAGTGGAGCAGGTTG
* * *
46264172 AAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGATACTAGCCTTGCCTCC
1 AAGATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCC
* *
46264237 TTGGGTTGTAGTGG-GCAGCTTG
66 CTGGGTTGTAGTGGAGCAGGTTG
* * * * * *
46264259 AAGATAACAGATCTTGCCTTCCTGTACCGATAGTGAAGCAGATCGAAGATACTAGCCTTGCTTCT
1 AAGATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCC
*
46264324 CTGGGTCGTAGTGGAGCAGGTTG
66 CTGGGTTGTAGTGGAGCAGGTTG
* * * * *
46264347 AAGATAGTAGATCTTGCCTTCTTGTACTGACAGTGAAGCAGATCGAAGATACCAACCTTGCCTCC
1 AAGATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCC
*
46264412 CTGGGTCGTAGTGGAGCAGGTTG
66 CTGGGTTGTAGTGGAGCAGGTTG
* * * *
46264435 AAGATAGCAGATCTTGCCTTCCTATACTGGCAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCC
1 AAGATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCC
* *
46264500 CTGGGTTGTAGTAGAGTAGGTTG
66 CTGGGTTGTAGTGGAGCAGGTTG
* * *
46264523 AAGATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCAAAGATACCAGCCTTGTCTCC
1 AAGATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCC
*
46264588 CTAGGTTGT
66 CTGGGTTGT
46264597 CGTGAAGTAG
Statistics
Matches: 539, Mismatches: 61, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
87 77 0.14
88 462 0.86
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (88 bp):
AAGATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCC
CTGGGTTGTAGTGGAGCAGGTTG
Found at i:46264646 original size:44 final size:44
Alignment explanation
Indices: 46264597--46264945 Score: 409
Period size: 44 Copynumber: 7.9 Consensus size: 44
46264587 CCTAGGTTGT
* *
46264597 CGTGAAGTAGATCAAAAAAAGCAGATCTTGTCTTCTTGTATTGG
1 CGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGG
* * * *
46264641 TGTGAAGTAGATCAAAGATAGCAGATCTTATCTTCATATATTGG
1 CGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGG
* * * *** *
46264685 CGTGAAGTAGATCGAAGATAGCATATCTTGTCTTCCCATACTGG
1 CGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGG
* * * *
46264729 TGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTAG
1 -CGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGG
*
46264774 CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGG
1 CGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGG
* * * *
46264818 CGTGAAGTAGATCAAAGATAGCAGATCTTCTCTTCCCATACTAGTGG
1 CGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTT--CAT-GTATTGG
* *
46264865 C--GAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGG
1 CGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGG
*
46264907 C--GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTAT
1 CGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTAT
46264946 CAGCATATAA
Statistics
Matches: 264, Mismatches: 37, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
42 43 0.16
43 3 0.01
44 147 0.56
45 62 0.23
46 3 0.01
47 6 0.02
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.30
Consensus pattern (44 bp):
CGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGG
Found at i:46264763 original size:133 final size:131
Alignment explanation
Indices: 46264523--46265011 Score: 581
Period size: 133 Copynumber: 3.7 Consensus size: 131
46264513 GAGTAGGTTG
* * ** * * * *
46264523 AAGATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCAAAGATACCAG-CCTTGTC-T
1 AAGATAGCAGATCTTGTCTTCATGTATTGGC-GTGAAGTAGATCAAAGATAGCAGATCTTGTCTT
* * * * * *
46264586 CCC-TAGGTTGTCGTGAAGTAGATCAAAAAAAGCAGATCTTGTCTTCTTGTATTGGTGTGAAGTA
65 CCCATA-CTGGTGGCGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATT-G-GTGAAGTA
46264650 GATCA
127 GATCA
* * * *
46264655 AAGATAGCAGATCTTATCTTCATATATTGGCGTGAAGTAGATCGAAGATAGCATATCTTGTCTTC
1 AAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTC
*
46264720 CCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTAGCGTGAAGTAGA
66 CCATACTGGTGGCGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATT-G-GTGAAGTAGA
46264785 TCA
129 TCA
*
46264788 AAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCTTCTCTTC
1 AAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTC
* * * *
46264853 CCATACTAGTGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGCGAAGTAGATC
66 CCATACTGGTGGCGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGGTGAAGTAGATC
*
46264918 G
131 A
* ** * * * * *
46264919 AAGAAAGCAGATCTTGTCTTCATGTATCAGCAT-ATAATAGATCAAAGGTAGCAGATGTCGTCTT
1 AAGATAGCAGATCTTGTCTTCATGTATTGGCGTGA-AGTAGATCAAAGATAGCAGATCTTGTCTT
*
46264983 CCCATACTGGTGGCAAAGTAGATCAAAGA
65 CCCATACTGGTGGCGAAGTAGATCAAAGA
46265012 TACAAGTCTT
Statistics
Matches: 311, Mismatches: 42, Indels: 9
0.86 0.12 0.02
Matches are distributed among these distances:
130 1 0.00
131 109 0.35
132 31 0.10
133 168 0.54
134 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (131 bp):
AAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTC
CCATACTGGTGGCGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGGTGAAGTAGATC
A
Found at i:46264777 original size:89 final size:89
Alignment explanation
Indices: 46264597--46265011 Score: 392
Period size: 89 Copynumber: 4.7 Consensus size: 89
46264587 CCTAGGTTGT
* * *** * * *
46264597 CGTGAAGTAGATCAAAAAAAGCAGATCTTGTCTTCTTGTATTGGT-GTGAAGTAGATCAAAGATA
1 CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAA
* *
46264661 GCAGATCTTATCTTCATATATTGG
66 GCAGATCTTGTCTTCATATATTAG
* * *
46264685 CGTGAAGTAGATCGAAGATAGCATATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAA
1 CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAA
*
46264750 GCAGATCTTGTCTTCATGTATTAG
66 GCAGATCTTGTCTTCATATATTAG
*** * * * *
46264774 CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCAAAGATA
1 CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAA
* ** *
46264838 GCAGATCTTCTCTTCCCATACTAG
66 GCAGATCTTGTCTTCATATATTAG
* * * * * * ** *
46264862 TGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTT--CAT-GTATTGGCGAAGTAGATCGAAGAA
1 -CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAA
* *
46264924 AGCAGATCTTGTCTTCATGTATCAG
65 AGCAGATCTTGTCTTCATATATTAG
* * * * * *
46264949 CAT-ATAATAGATCAAAGGTAGCAGATGTCGTCTTCCCATACTGGTGGCAAAGTAGATCAAAGA
1 CGTGA-AGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGA
46265012 TACAAGTCTT
Statistics
Matches: 256, Mismatches: 64, Indels: 13
0.77 0.19 0.04
Matches are distributed among these distances:
85 1 0.00
86 23 0.09
87 35 0.14
88 75 0.29
89 122 0.48
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (89 bp):
CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAA
GCAGATCTTGTCTTCATATATTAG
Found at i:46265416 original size:22 final size:22
Alignment explanation
Indices: 46265356--46265413 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 22
46265346 AATCTTCAAG
46265356 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
*
46265375 GATATGCAATCTTGGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
46265397 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
46265414 GATTTAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 13 0.41
22 8 0.25
23 11 0.34
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:46273344 original size:25 final size:24
Alignment explanation
Indices: 46273307--46273374 Score: 91
Period size: 25 Copynumber: 2.8 Consensus size: 24
46273297 GTCACCGATT
**
46273307 TTAGCTCTTATGAGCTTCCTGATA
1 TTAGCTCGCATGAGCTTCCTGATA
*
46273331 CTTAGCTCGCATGAGCTTCCTGTTA
1 -TTAGCTCGCATGAGCTTCCTGATA
46273356 TTCAGCTCGCATGAGCTTC
1 TT-AGCTCGCATGAGCTTC
46273375 TCGTTATTCA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
24 2 0.05
25 37 0.95
ACGTcount: A:0.18, C:0.26, G:0.19, T:0.37
Consensus pattern (24 bp):
TTAGCTCGCATGAGCTTCCTGATA
Found at i:46273380 original size:25 final size:25
Alignment explanation
Indices: 46273316--46273384 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
46273306 TTTAGCTCTT
*
46273316 ATGAGCTTCCTGATACTT-AGCTCGC
1 ATGAGCTTCCTGTTA-TTCAGCTCGC
46273341 ATGAGCTTCCTGTTATTCAGCTCGC
1 ATGAGCTTCCTGTTATTCAGCTCGC
46273366 ATGAGCTT-CTCGTTATTCA
1 ATGAGCTTCCT-GTTATTCA
46273385 AATCGGAGGA
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
24 4 0.10
25 37 0.90
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.36
Consensus pattern (25 bp):
ATGAGCTTCCTGTTATTCAGCTCGC
Found at i:46274681 original size:21 final size:22
Alignment explanation
Indices: 46274655--46274696 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
46274645 AATTGGTTTC
46274655 TGAAATGAATG-TTATTTGATA
1 TGAAATGAATGTTTATTTGATA
**
46274676 TGAAATGTCTGTTTATTTGAT
1 TGAAATGAATGTTTATTTGAT
46274697 CTGTAAACTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.31, C:0.02, G:0.19, T:0.48
Consensus pattern (22 bp):
TGAAATGAATGTTTATTTGATA
Found at i:46276675 original size:15 final size:15
Alignment explanation
Indices: 46276655--46276684 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
46276645 TAAAGTGTCT
46276655 GAGTCGAAGCTTGAA
1 GAGTCGAAGCTTGAA
46276670 GAGTCGAAGCTTGAA
1 GAGTCGAAGCTTGAA
46276685 CTAGTGCCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.20
Consensus pattern (15 bp):
GAGTCGAAGCTTGAA
Found at i:46279757 original size:14 final size:15
Alignment explanation
Indices: 46279733--46279763 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
46279723 AAACCCAAAT
46279733 AATCAATAATAATTA
1 AATCAATAATAATTA
46279748 AATC-ATAATAATTA
1 AATCAATAATAATTA
46279762 AA
1 AA
46279764 CCAGCAAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.32
Consensus pattern (15 bp):
AATCAATAATAATTA
Done.