Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008745.1 Hibiscus syriacus cultivar Beakdansim tig00111834_pilon, whole genome shotgun sequence
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: 1915556
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 8
Found at i:1061786 original size:22 final size:22
Alignment explanation
Indices: 1061761--1061803 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
1061751 AATTTATTAG
1061761 TATGGATTGATTTACTTTAAAA
1 TATGGATTGATTTACTTTAAAA
* *
1061783 TATGGATTGGTTTATTTTAAA
1 TATGGATTGATTTACTTTAAA
1061804 TAATTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TATGGATTGATTTACTTTAAAA
Found at i:1061881 original size:32 final size:32
Alignment explanation
Indices: 1061842--1061920 Score: 149
Period size: 32 Copynumber: 2.5 Consensus size: 32
1061832 TAAAATATAG
1061842 TTGATTTATTTTAAATAATTTATTAGTATGGA
1 TTGATTTATTTTAAATAATTTATTAGTATGGA
*
1061874 TTGATTTATTTTAAATAATTTATTTGTATGGA
1 TTGATTTATTTTAAATAATTTATTAGTATGGA
1061906 TTGATTTATTTTAAA
1 TTGATTTATTTTAAA
1061921 ATATGGATTG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (32 bp):
TTGATTTATTTTAAATAATTTATTAGTATGGA
Found at i:1062104 original size:31 final size:31
Alignment explanation
Indices: 1062047--1062105 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
1062037 AGTTGTATGG
* **
1062047 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTACAAAACTAAA
1062078 ATTATTTAAATCTCAGTATTACAAAACT
1 ATTATTTAAATCTCAGTATTACAAAACT
1062106 CTTTTCAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTACAAAACTAAA
Found at i:1071001 original size:2 final size:2
Alignment explanation
Indices: 1070994--1071028 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1070984 CTTAATTGAA
1070994 AT AT AT AT AT AT AT 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 A
1071029 GGGGTATTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1074865 original size:23 final size:23
Alignment explanation
Indices: 1074837--1074894 Score: 102
Period size: 23 Copynumber: 2.6 Consensus size: 23
1074827 AAATTAATAA
1074837 TATATTATGTAAAATGTTTCGAT
1 TATATTATGTAAAATGTTTCGAT
1074860 TATATTATGTAAAATGTTTCGAT
1 TATATTATGTAAAATGTTTCGAT
1074883 TATA--ATGTAAAA
1 TATATTATGTAAAA
1074895 ATTATAACTA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
21 8 0.23
23 27 0.77
ACGTcount: A:0.40, C:0.03, G:0.12, T:0.45
Consensus pattern (23 bp):
TATATTATGTAAAATGTTTCGAT
Found at i:1074925 original size:12 final size:12
Alignment explanation
Indices: 1074908--1074942 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
1074898 ATAACTAATA
1074908 ATATTAAATATT
1 ATATTAAATATT
*
1074920 ATATTAAATAAT
1 ATATTAAATATT
1074932 ATATTAAATAT
1 ATATTAAATAT
1074943 ATTTATGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
ATATTAAATATT
Found at i:1077942 original size:8 final size:8
Alignment explanation
Indices: 1077929--1077969 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
1077919 CTCATTTTCA
1077929 GAGAATTT
1 GAGAATTT
1077937 GAGAATTT
1 GAGAATTT
*
1077945 -AGAGTTT
1 GAGAATTT
*
1077952 GGGAATTT
1 GAGAATTT
1077960 GAGAATTT
1 GAGAATTT
1077968 GA
1 GA
1077970 AAGATTGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:1078401 original size:126 final size:126
Alignment explanation
Indices: 1078037--1078640 Score: 1147
Period size: 126 Copynumber: 4.8 Consensus size: 126
1078027 CTATAATCGG
1078037 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
* *
1078102 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAATACCTATTAT
66 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTACTAT
1078163 TTCACTATTCACGTGAAGGCGCGTTCCC-GGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1078227 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTACTAT
66 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTACTAT
1078288 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1078353 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTACTAT
66 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTACTAT
1078414 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
* *
1078479 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGTCACTAGATATATCAGTACCTATTAT
66 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTACTAT
*
1078540 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGACGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
*
1078605 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGA
66 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGA
1078641 ATAACTTAAA
Statistics
Matches: 470, Mismatches: 7, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
125 123 0.26
126 347 0.74
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (126 bp):
TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTACTAT
Found at i:1079115 original size:28 final size:28
Alignment explanation
Indices: 1079053--1079115 Score: 65
Period size: 28 Copynumber: 2.2 Consensus size: 28
1079043 ATATTTTAAA
** *
1079053 TTTAAATTT-GAATAATATTTTTTTTTTAT
1 TTTAAATTTCGAATAATA--TAATTTATAT
*
1079082 TTTAAATTTCGAATAATATAATTTGTAT
1 TTTAAATTTCGAATAATATAATTTATAT
1079110 TTTAAA
1 TTTAAA
1079116 AACATTTATC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 13 0.43
29 9 0.30
30 8 0.27
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.57
Consensus pattern (28 bp):
TTTAAATTTCGAATAATATAATTTATAT
Found at i:1079714 original size:20 final size:21
Alignment explanation
Indices: 1079635--1079727 Score: 120
Period size: 21 Copynumber: 4.5 Consensus size: 21
1079625 TATGGTATAA
*
1079635 AACCCTGCGGGCTAGGCATGT
1 AACCCTGCGGGCTAGGAATGT
*
1079656 AA-CCTGGCGGGCTAGGCATGT
1 AACCCT-GCGGGCTAGGAATGT
1079677 AA-CCTGGCGGGCTAGGAATGT
1 AACCCT-GCGGGCTAGGAATGT
*
1079698 AACCCTGC-GGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
1079718 AACCCTGCGG
1 AACCCTGCGG
1079728 AGATGGCATA
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
20 22 0.33
21 42 0.63
22 3 0.04
ACGTcount: A:0.20, C:0.27, G:0.34, T:0.18
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Found at i:1079757 original size:21 final size:21
Alignment explanation
Indices: 1079731--1079778 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
1079721 CCTGCGGAGA
*
1079731 TGGCATATAAACTGGTGGGCT
1 TGGCATATAAACTGGAGGGCT
* *
1079752 TGGCATATGAAGTGGAGGGCT
1 TGGCATATAAACTGGAGGGCT
*
1079773 GGGCAT
1 TGGCAT
1079779 GTACCCCTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.40, T:0.25
Consensus pattern (21 bp):
TGGCATATAAACTGGAGGGCT
Found at i:1081518 original size:15 final size:15
Alignment explanation
Indices: 1081498--1081570 Score: 53
Period size: 15 Copynumber: 4.8 Consensus size: 15
1081488 ATAATTCTAA
1081498 ATAAATAATAATTAT
1 ATAAATAATAATTAT
* *
1081513 ATAAATATTATTTTAAT
1 ATAAATAATA-ATT-AT
* *
1081530 AATAAATAATATTTAC
1 -ATAAATAATAATTAT
1081546 ATAAATATATAA-TAT
1 ATAAATA-ATAATTAT
1081561 A-AAA-AATAAT
1 ATAAATAATAAT
1081571 AACTATTTAA
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
12 4 0.09
13 1 0.02
14 3 0.06
15 19 0.40
16 6 0.13
17 5 0.11
18 9 0.19
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (15 bp):
ATAAATAATAATTAT
Found at i:1081597 original size:34 final size:34
Alignment explanation
Indices: 1081534--1081599 Score: 82
Period size: 34 Copynumber: 1.9 Consensus size: 34
1081524 TTTAATAATA
* *
1081534 AATAATATTTACATAAATATATAATATAAAAAAT
1 AATAATATTTACATAAAAATATAACATAAAAAAT
1081568 AATAACTATTTA-A-AAAAATACTAACATAAAAA
1 AATAA-TATTTACATAAAAATA-TAACATAAAAA
1081600 TAAATTTCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
33 6 0.21
34 16 0.57
35 6 0.21
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (34 bp):
AATAATATTTACATAAAAATATAACATAAAAAAT
Found at i:1082635 original size:23 final size:23
Alignment explanation
Indices: 1082609--1082656 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
1082599 ATAAAGTACA
*
1082609 ATAACATACTAGGTAGCGTTTAT
1 ATAACATAATAGGTAGCGTTTAT
**
1082632 ATAATGTAATAGGTAGCGTTTAT
1 ATAACATAATAGGTAGCGTTTAT
1082655 AT
1 AT
1082657 TTACATATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.38
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGTTTAT
Found at i:1082824 original size:21 final size:22
Alignment explanation
Indices: 1082782--1082825 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
1082772 TTTAAAGTTA
* *
1082782 TTTAATTTATGTTTCAATTTTT
1 TTTAATATATGTTTCAAGTTTT
*
1082804 TTTAATAT-TGTTTCATGTTTT
1 TTTAATATATGTTTCAAGTTTT
1082825 T
1 T
1082826 CACCTACAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.20, C:0.05, G:0.07, T:0.68
Consensus pattern (22 bp):
TTTAATATATGTTTCAAGTTTT
Found at i:1083109 original size:23 final size:23
Alignment explanation
Indices: 1083083--1083145 Score: 108
Period size: 23 Copynumber: 2.7 Consensus size: 23
1083073 ATATAACCAC
1083083 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
*
1083106 TACCTATTACATTATATAAACGC
1 TACCTATTACATTATATAAACGA
*
1083129 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1083146 TTTTACCTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.40, C:0.21, G:0.03, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1083517 original size:424 final size:408
Alignment explanation
Indices: 1082723--1083689 Score: 1595
Period size: 424 Copynumber: 2.3 Consensus size: 408
1082713 TATTATATTA
*
1082723 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATTTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
* *
1082788 TTATGTTTCAATTTTTTTTAATATTGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
1082853 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTATTAATTTA
130 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTATTAATTT-
1082918 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
194 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
*
1082983 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAATATTGACACTT
259 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAATATGGACACTT
1083048 TTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
324 TTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
*
1083113 TACATTATATAAACGCTACCTATTACATCATATTTTTACC
389 TACATTATAT-AA-G----------C-GC-------TACC
*
1083153 TATTATATTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1083218 TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
66 TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
1083283 TTTGCACAAAAAATTA-TTGATTATTTGATATTTTATAAAATATTATTTAGAATT-TTAA-TT-T
131 TTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTATTAATTTAT
1083344 AATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTT
196 AATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTT
*
1083409 AAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTT
261 AAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAATATGGACACTTTT
1083474 ATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTA
326 ATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTA
1083539 CATTATATAAGCGCTACC
391 CATTATATAAGCGCTACC
1083557 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACCTT-TTTTAAAAGTTATGTA
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATA-CTTCTTTT-AAAGTTATGTA
* *
1083621 ATTTATGTTTCAA-TTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAACTTAATAATTT
64 ATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTT
1083685 CATTT
129 CATTT
1083690 CCACCTAAAT
Statistics
Matches: 525, Mismatches: 10, Indels: 30
0.93 0.02 0.05
Matches are distributed among these distances:
404 105 0.20
405 27 0.05
411 1 0.00
412 1 0.00
422 1 0.00
423 2 0.00
424 202 0.38
426 2 0.00
427 4 0.01
428 38 0.07
429 68 0.13
430 74 0.14
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.41
Consensus pattern (408 bp):
TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
TTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTATTAATTTAT
AATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTT
AAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAATATGGACACTTTT
ATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTA
CATTATATAAGCGCTACC
Found at i:1083522 original size:21 final size:22
Alignment explanation
Indices: 1083497--1083548 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
1083487 ACACTTTACA
*
1083497 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
1083520 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
1083543 ATATAA
1 ATATAA
1083549 GCGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:1083533 original size:23 final size:23
Alignment explanation
Indices: 1083507--1083561 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
1083497 ATATAACCAC
1083507 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
1083530 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
1083553 TACCTATTA
1 TACCTATTA
1083562 TATTGAAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.38, C:0.20, G:0.05, T:0.36
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1086717 original size:182 final size:183
Alignment explanation
Indices: 1086192--1086684 Score: 821
Period size: 184 Copynumber: 2.7 Consensus size: 183
1086182 TTAAAATTAC
*
1086192 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
* *
1086257 ATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
* * *
1086322 ATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
131 ATATTACAAATTTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
* *
1086375 CGATACTTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAA
1 CGACAC-TTTTTTAAATCGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
* *
1086440 TATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGAGCATAAAACCGGTATATTTTTACCGGT
65 TATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGT
1086505 TATATTACAAATTTATCTATTACATTATAATTATGGGTT-CGATGTGTAAATGT
130 TATATTACAAATTTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
* *
1086558 CGACAC-TTTTAACAAT-GTATCGACACATTTTTTTTTCCAATCTGGACATAAAGTACCGACACA
1 CGACACTTTTTTA-AATCGTATCGACACA-TTTTTCTTCCAATCTGGACATAAAGTACCGACACA
*
1086621 AGATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCG
64 ATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCG
1086685 ATAGCATTGC
Statistics
Matches: 290, Mismatches: 17, Indels: 7
0.92 0.05 0.02
Matches are distributed among these distances:
181 16 0.06
182 97 0.33
183 24 0.08
184 153 0.53
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (183 bp):
CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
ATATTACAAATTTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
Found at i:1088173 original size:3 final size:3
Alignment explanation
Indices: 1088165--1088209 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
1088155 ACTTGTTTGG
* * *
1088165 ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1088210 GCCAGCTTCA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.27, C:0.33, G:0.02, T:0.38
Consensus pattern (3 bp):
ATC
Found at i:1088182 original size:12 final size:12
Alignment explanation
Indices: 1088169--1088257 Score: 79
Period size: 12 Copynumber: 7.4 Consensus size: 12
1088159 GTTTGGATCA
* *
1088169 TCATCTTCATCA
1 TCATCGTCATCT
* *
1088181 TCATCATCATCA
1 TCATCGTCATCT
* *
1088193 TCGTCATCATCT
1 TCATCGTCATCT
* *
1088205 TCATCGCCAGCT
1 TCATCGTCATCT
*
1088217 TCATCGTCATCA
1 TCATCGTCATCT
*
1088229 TGATCGTCATCT
1 TCATCGTCATCT
*
1088241 TCATCGTCAGCT
1 TCATCGTCATCT
1088253 TCATC
1 TCATC
1088258 TTCTGCGACC
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 63 1.00
ACGTcount: A:0.21, C:0.34, G:0.09, T:0.36
Consensus pattern (12 bp):
TCATCGTCATCT
Found at i:1088221 original size:36 final size:36
Alignment explanation
Indices: 1088181--1088257 Score: 111
Period size: 36 Copynumber: 2.1 Consensus size: 36
1088171 ATCTTCATCA
1088181 TCATCATCATCATCG-TCATCATCTTCATCGCCAGCT
1 TCATCATCATCAT-GATCATCATCTTCATCGCCAGCT
* * *
1088217 TCATCGTCATCATGATCGTCATCTTCATCGTCAGCT
1 TCATCATCATCATGATCATCATCTTCATCGCCAGCT
1088253 TCATC
1 TCATC
1088258 TTCTGCGACC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
35 1 0.03
36 36 0.97
ACGTcount: A:0.21, C:0.34, G:0.10, T:0.35
Consensus pattern (36 bp):
TCATCATCATCATGATCATCATCTTCATCGCCAGCT
Found at i:1088244 original size:6 final size:6
Alignment explanation
Indices: 1088169--1088260 Score: 58
Period size: 6 Copynumber: 15.3 Consensus size: 6
1088159 GTTTGGATCA
* * * * * * * *
1088169 TCATCT TCATCA TCATCA TCATCA TCGTCA TCATCT TCATCG CCAGCT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
* * * * * *
1088217 TCATCG TCATCA TGATCG TCATCT TCATCG TCAGCT TCATCT TC
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TC
1088261 TGCGACCGCT
Statistics
Matches: 66, Mismatches: 20, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
6 66 1.00
ACGTcount: A:0.21, C:0.34, G:0.09, T:0.37
Consensus pattern (6 bp):
TCATCT
Found at i:1090715 original size:399 final size:400
Alignment explanation
Indices: 1089719--1092281 Score: 4884
Period size: 399 Copynumber: 6.4 Consensus size: 400
1089709 TTAAATTAGA
1089719 ATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAAC
1 ATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAAC
1089784 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGAT
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGAT
1089849 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACA
*
1089914 AAAATATCGACACAAACTAAATTAGTGTCGACAC-TTATTTAGACATATTCTCTCAT-AAACCGA
196 AAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
1089977 TAAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTT
261 TAAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTT
1090042 GGGATCGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTG
326 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTG
1090106 GAACAAAAAT
391 GAACAAAAAT
*
1090116 ATCGACACAAACTAAATTAGTGTTGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAAC
1 ATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAAC
1090181 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGAT
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGAT
1090246 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACA
1090311 AAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
196 AAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
* *
1090376 TAAACTTGTACCAGTTAGATTGAAAAATTACATATTACATTATACTTTTGATTTTCGATGTTTTT
261 TAAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTT
*
1090441 GGGATCGACACTTTTTATATATGGATCGATACTTTATGGGTGCACCCTGTTTTCCATTCATTCTG
326 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTG
1090506 GAACAAAAAT
391 GAACAAAAAT
1090516 ATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAAC
1 ATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAAC
1090581 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGAT
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGAT
1090646 CGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACA
1090710 AAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
196 AAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
1090775 TAAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTT
261 TAAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTT
*
1090840 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCATGTTTTCCATTCATTCTG
326 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTG
1090905 GAACAAAAAT
391 GAACAAAAAT
*
1090915 ATCGACATAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAAC
1 ATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAAC
1090980 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATG-TTTTGGGAT
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGAT
1091044 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCCTGTTTTCCATTCATTCTGGAAC
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCA-CCCTGTTTTCCATTCATTCTGGAAC
1091109 AAAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
195 AAAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
1091174 GTAAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATAC-TTTGGTTTTCGATGTTTT
260 GTAAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTT
1091238 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTG-TTTCCATTCATTCT
325 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCT
1091302 GGAAC-AAAAT
390 GGAACAAAAAT
1091312 ATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAAC
1 ATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAAC
1091377 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGAT
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGAT
1091442 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACA
**
1091507 AAAATATCGACACAAACTAAATTAGTGTCGATGCATTATTTAGACATATTCTCTCATAAAACCGG
196 AAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
1091572 TAAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATAC-TTTGGTTTTCGATGTTTTT
261 TAAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTT
1091636 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTG
326 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTG
1091701 GAACAAAAAT
391 GAACAAAAAT
1091711 ATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCAT-AAACCGGTAAAC
1 ATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAAC
1091775 TTGTACCGGTTAGATTGAAAAATT--ATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGAT
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGAT
1091838 CGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACA
**
1091902 AAAATATCGACACAAACTAAATTAGTGTCGATGCATTATTTAGACATATTCTCTCATAAAACCGG
196 AAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
1091967 TAAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTT
261 TAAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTT
1092032 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTG
326 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTG
1092097 GAACAAAAAT
391 GAACAAAAAT
1092107 ATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAAC
1 ATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAAC
*
1092172 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCTATGTTTTTGGGAT
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGAT
* * *
1092237 TGACAC-TTTTATATATGGATCGACACTTTATGGTTGCACCTTGTT
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
1092282 GGCCATATTG
Statistics
Matches: 2135, Mismatches: 19, Indels: 22
0.98 0.01 0.01
Matches are distributed among these distances:
395 168 0.08
396 191 0.09
397 590 0.28
398 159 0.07
399 694 0.33
400 333 0.16
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (400 bp):
ATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAAC
TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACA
AAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
TAAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTT
GGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTG
GAACAAAAAT
Found at i:1090787 original size:199 final size:200
Alignment explanation
Indices: 1089719--1092281 Score: 4884
Period size: 200 Copynumber: 12.9 Consensus size: 200
1089709 TTAAATTAGA
1089719 ATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAAC
1 ATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAAC
1089784 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGAT
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGAT
1089849 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACA
1089914 AAAAT
196 AAAAT
*
1089919 ATCGACACAAACTAAATTAGTGTCGACAC-TTATTTAGACATATTCTCTCAT-AAACCGATAAAC
1 ATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAAC
1089982 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGAT
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGAT
1090047 CGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACA
1090111 AAAAT
196 AAAAT
*
1090116 ATCGACACAAACTAAATTAGTGTTGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAAC
1 ATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAAC
1090181 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGAT
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGAT
1090246 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACA
1090311 AAAAT
196 AAAAT
1090316 ATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAAC
1 ATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAAC
* *
1090381 TTGTACCAGTTAGATTGAAAAATTACATATTACATTATACTTTTGATTTTCGATGTTTTTGGGAT
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGAT
*
1090446 CGACACTTTTTATATATGGATCGATACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACA
1090511 AAAAT
196 AAAAT
1090516 ATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAAC
1 ATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAAC
1090581 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGAT
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGAT
1090646 CGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACA
1090710 AAAAT
196 AAAAT
1090715 ATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAAC
1 ATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAAC
1090780 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGAT
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGAT
*
1090845 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCATGTTTTCCATTCATTCTGGAACA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACA
1090910 AAAAT
196 AAAAT
*
1090915 ATCGACATAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAAC
1 ATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAAC
1090980 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATG-TTTTGGGAT
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGAT
1091044 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCCTGTTTTCCATTCATTCTGGAAC
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCA-CCCTGTTTTCCATTCATTCTGGAAC
1091109 AAAAAT
195 AAAAAT
1091115 ATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAAC
1 ATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAAC
1091180 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATAC-TTTGGTTTTCGATGTTTTTGGGAT
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGAT
1091244 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTG-TTTCCATTCATTCTGGAAC-
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACA
1091307 AAAAT
196 AAAAT
1091312 ATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAAC
1 ATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAAC
1091377 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGAT
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGAT
1091442 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACA
1091507 AAAAT
196 AAAAT
**
1091512 ATCGACACAAACTAAATTAGTGTCGATGCATTATTTAGACATATTCTCTCATAAAACCGGTAAAC
1 ATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAAC
1091577 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATAC-TTTGGTTTTCGATGTTTTTGGGAT
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGAT
1091641 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACA
1091706 AAAAT
196 AAAAT
1091711 ATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCAT-AAACCGGTAAAC
1 ATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAAC
1091775 TTGTACCGGTTAGATTGAAAAATT--ATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGAT
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGAT
1091838 CGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACA
1091902 AAAAT
196 AAAAT
**
1091907 ATCGACACAAACTAAATTAGTGTCGATGCATTATTTAGACATATTCTCTCATAAAACCGGTAAAC
1 ATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAAC
1091972 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGAT
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGAT
1092037 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACA
1092102 AAAAT
196 AAAAT
1092107 ATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAAC
1 ATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAAC
*
1092172 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCTATGTTTTTGGGAT
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGAT
* * *
1092237 TGACAC-TTTTATATATGGATCGACACTTTATGGTTGCACCTTGTT
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
1092282 GGCCATATTG
Statistics
Matches: 2323, Mismatches: 26, Indels: 29
0.98 0.01 0.01
Matches are distributed among these distances:
196 127 0.05
197 267 0.11
198 227 0.10
199 614 0.26
200 1088 0.47
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (200 bp):
ATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAAC
TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACA
AAAAT
Found at i:1092422 original size:19 final size:19
Alignment explanation
Indices: 1092400--1092448 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
1092390 TTATATTCAC
1092400 ATACAATAA-TATAAATCGT
1 ATACAA-AATTATAAATCGT
*
1092419 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
1092438 ATACAAAATTA
1 ATACAAAATTA
1092449 ACCCTACATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
18 2 0.07
19 26 0.93
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:1094268 original size:32 final size:33
Alignment explanation
Indices: 1094232--1094296 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
1094222 CATCTTAATA
*
1094232 TCACCCCTTAACACC-CAACTTCTTTCACCACT
1 TCACCCCTCAACACCTCAACTTCTTTCACCACT
*
1094264 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCTCAACTTCTTTCACCACT
1094297 CCATCTATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 14 0.47
33 16 0.53
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCTCAACTTCTTTCACCACT
Found at i:1094355 original size:21 final size:21
Alignment explanation
Indices: 1094330--1094373 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
1094320 CCCCTTATGC
1094330 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
* *
1094351 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
1094372 CT
1 CT
1094374 TGATTGTCTT
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:0.16, C:0.32, G:0.11, T:0.41
Consensus pattern (21 bp):
CTCTCAAGTGTATCTTCGACT
Found at i:1096702 original size:20 final size:20
Alignment explanation
Indices: 1096675--1096721 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
1096665 TCCGGTAACG
1096675 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
1096694 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
1096715 TTTTACC
1 TTTTACC
1096722 TGGTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:1096721 original size:106 final size:106
Alignment explanation
Indices: 1096536--1096730 Score: 345
Period size: 106 Copynumber: 1.8 Consensus size: 106
1096526 CGTACTTACG
* *
1096536 AAAGTATCGACACTTTCAATATATCCGGTATCATTTTACCGGTTTTATCATTTTGATATCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACATTTTACCGGTTTTATCATTTTGATACCGGTTT
*
1096601 TATCATATTTTTACCTGTTATATCATTGTGGATCGATATAT
66 TATCATATTTTTACCTGGTATATCATTGTGGATCGATATAT
* *
1096642 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGTTACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACATTTTACCGGTTTTATCATTTTGATACCGGTTT
1096707 TATCATATTTTTACCTGGTATATC
66 TATCATATTTTTACCTGGTATATC
1096731 GTTTTAATAT
Statistics
Matches: 84, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
106 84 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (106 bp):
AAAGTATCGACACTTTCAATATATCCGGTAACATTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGGTATATCATTGTGGATCGATATAT
Found at i:1097243 original size:227 final size:227
Alignment explanation
Indices: 1096770--1097259 Score: 883
Period size: 228 Copynumber: 2.1 Consensus size: 227
1096760 ACTTTTATAC
*
1096770 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTTAAAGTTATGTAATTTATGTTTCAATT
1 GTATGAACACTTTTATAAAAATGATATATAC--TTTTTTAAAGTTATGTAATTTATGTTTCAATT
1096835 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
64 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
1096900 TTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
129 TTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
*
1096965 GATAATAATAAATATGTTTTCCACAGTGAAATAA
194 GATAATAATAAATATATTTTCCACAGTGAAATAA
1096999 GTATGAACACTTTTATAAAAATGATATATACTTTTTTAAAGTTATGTAATTTATGTTTCAATTTT
1 GTATGAACACTTTTATAAAAATGATATATACTTTTTTAAAGTTATGTAATTTATGTTTCAA-TTT
*
1097064 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACAAAAT
65 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAT
*
1097129 TATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAG
130 TATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAG
*
1097194 ATAATAATTAATATATTTT-CACAGTGAAATAA
195 ATAATAATAAATATATTTTCCACAGTGAAATAA
* *
1097226 GTATGAACACTTTTATAAAAAGGATAGATACTTT
1 GTATGAACACTTTTATAAAAATGATATATACTTT
1097260 ACAATATAAC
Statistics
Matches: 253, Mismatches: 7, Indels: 4
0.96 0.03 0.02
Matches are distributed among these distances:
227 75 0.30
228 148 0.58
229 30 0.12
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (227 bp):
GTATGAACACTTTTATAAAAATGATATATACTTTTTTAAAGTTATGTAATTTATGTTTCAATTTT
TTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATT
ATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGA
TAATAATAAATATATTTTCCACAGTGAAATAA
Found at i:1098260 original size:28 final size:27
Alignment explanation
Indices: 1098200--1098267 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
1098190 AATAGTTTAT
* *
1098200 TATATTTTTTATTAATATTTATGTAAA
1 TATATTTTTTATTAAAATATATGTAAA
*
1098227 TATATTTTTTATTAAAATAATATTTATAA
1 TATATTTTTTATTAAAAT-ATATGTA-AA
*
1098256 T-TATTATTTATT
1 TATATTTTTTATT
1098268 TAGAATTATT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
27 17 0.49
28 15 0.43
29 3 0.09
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (27 bp):
TATATTTTTTATTAAAATATATGTAAA
Found at i:1098423 original size:33 final size:33
Alignment explanation
Indices: 1098385--1098460 Score: 84
Period size: 33 Copynumber: 2.3 Consensus size: 33
1098375 TATGGTAATA
*
1098385 TTTTTATAATTAATGTAATATTTA-AATTTTTTT
1 TTTTTATAATTAATATAA-ATTTATAATTTTTTT
* * *
1098418 TTTTTA-AAGTTATTATGAATTTATATTTTTTTT
1 TTTTTATAA-TTAATATAAATTTATAATTTTTTT
1098451 TTTTTATAAT
1 TTTTTATAAT
1098461 GTATATTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
32 7 0.19
33 27 0.75
34 2 0.06
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (33 bp):
TTTTTATAATTAATATAAATTTATAATTTTTTT
Found at i:1098472 original size:32 final size:31
Alignment explanation
Indices: 1098395--1098472 Score: 74
Period size: 33 Copynumber: 2.5 Consensus size: 31
1098385 TTTTTATAAT
1098395 TAATGTA-A-TATTTAAATTTTTTTTTTTTA
1 TAATGTATATTATTTAAATTTTTTTTTTTTA
* *
1098424 -AA-GTTATTATGAATTTATATTTTTTTTTTTTTA
1 TAATG-TA-TAT-TATTTA-AATTTTTTTTTTTTA
1098457 TAATGTATATTATTTA
1 TAATGTATATTATTTA
1098473 GGATGCTGAT
Statistics
Matches: 38, Mismatches: 3, Indels: 13
0.70 0.06 0.24
Matches are distributed among these distances:
27 1 0.03
28 4 0.11
30 1 0.03
32 10 0.26
33 17 0.45
34 4 0.11
35 1 0.03
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (31 bp):
TAATGTATATTATTTAAATTTTTTTTTTTTA
Found at i:1100045 original size:21 final size:21
Alignment explanation
Indices: 1100019--1100091 Score: 112
Period size: 21 Copynumber: 3.5 Consensus size: 21
1100009 TGTGCCATCT
*
1100019 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCTAGC
1100040 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATTCCTAGC
*
1100061 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATTCCTAGC
1100082 CCGCAGGGTT
1 CCGCAGGGTT
1100092 TTATACCATA
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
20 2 0.04
21 44 0.92
22 2 0.04
ACGTcount: A:0.18, C:0.34, G:0.27, T:0.21
Consensus pattern (21 bp):
CCGCAGGGTTACATTCCTAGC
Found at i:1100679 original size:33 final size:33
Alignment explanation
Indices: 1100607--1100704 Score: 119
Period size: 33 Copynumber: 3.0 Consensus size: 33
1100597 GATAAATGTT
*
1100607 TTTAAAATACAAAT-TATTATTCAAAATTTAAA
1 TTTAAAATAAAAATATATTATTCAAAATTTAAA
* *
1100639 ATAAAAATAAAAATAATATTATTC-AAATTTAAA
1 TTTAAAATAAAAAT-ATATTATTCAAAATTTAAA
* *
1100672 TTTAAAATATAAATTATAGTATTCAAAATTTAA
1 TTTAAAATA-AAAATATATTATTCAAAATTTAA
1100705 CATTAAATTT
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
32 11 0.20
33 24 0.44
34 20 0.36
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.39
Consensus pattern (33 bp):
TTTAAAATAAAAATATATTATTCAAAATTTAAA
Found at i:1101624 original size:126 final size:128
Alignment explanation
Indices: 1101096--1102202 Score: 1803
Period size: 126 Copynumber: 8.8 Consensus size: 128
1101086 ACCTGATTAT
1101096 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAAC--ATTCTCTGA
1 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
* *
1101159 CGAAATAATGGAAGGCGCGCCCCC-GGAACGCGCCTTCATGTCCCCTGAGAAATAATAGGTAC
66 CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCAGTGAAATAATAGGTAC
1101221 TG--ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
1 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
* *
1101284 CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCTGAGAAATAATAGGTAC
66 CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCAGTGAAATAATAGGTAC
*
1101347 TGATATATCTAGGGT-CCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
1 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
* * *
1101411 CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATATCCCCTGAGAAATAATAGGTAC
66 CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCAGTGAAATAATAGGTAC
1101474 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
1 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
1101539 CGAAATAATGGAA-G-GCGCCCCCGGGAACGCGCCTTCATGTCCCCAGTGAAATAATAGGTAC
66 CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCAGTGAAATAATAGGTAC
*
1101600 TGATATATCTAGTGTCCTCGAGGGACAT--GTGACATAATAGGGCAATGATAACATATTCTCTGA
1 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
* ****
1101663 CAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTAC
66 CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCAGTGAAATAATAGGTAC
*
1101726 TGATATATCTAGTGT-CCTGAGGGACATGAGTGACATAATAGGGCAATGAT-ACATA-T-TCTGA
1 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
1101787 C-AAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCAGTGAAATAATAGGTAC
66 CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCAGTGAAATAATAGGTAC
*
1101849 TGATATATCTAGTGTCCTC--GGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
1 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
****
1101912 C-AAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTG-AATAATAGGTAC
66 CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCAGTGAAATAATAGGTAC
*
1101973 TGATATATCTAGTGTCCCTGA-GGACATGAGTGACATAATAGGGCAATG--AACATATTCTCTGA
1 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
****
1102035 CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATG-GAATAGTGAAATAATAGGTAC
66 CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCAGTGAAATAATAGGTAC
*
1102097 TGATATATCTAGTATCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
1 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
*
1102162 C-AAATAATGGAAGGCGCGCCCCCGGGAACGCGTCTTCATGT
66 CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGT
1102203 GAATAGTACT
Statistics
Matches: 931, Mismatches: 29, Indels: 42
0.93 0.03 0.04
Matches are distributed among these distances:
122 30 0.03
123 150 0.16
124 154 0.17
125 151 0.16
126 212 0.23
127 162 0.17
128 72 0.08
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.23
Consensus pattern (128 bp):
TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCAGTGAAATAATAGGTAC
Found at i:1102298 original size:15 final size:15
Alignment explanation
Indices: 1102280--1102318 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
1102270 CACAATCTTT
1102280 CAAATTCTCAATTCC
1 CAAATTCTCAATTCC
* * *
1102295 CAAACTCTAAATTCT
1 CAAATTCTCAATTCC
1102310 CAAATTCTC
1 CAAATTCTC
1102319 TGAAAATGAG
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.36, C:0.31, G:0.00, T:0.33
Consensus pattern (15 bp):
CAAATTCTCAATTCC
Found at i:1110977 original size:21 final size:21
Alignment explanation
Indices: 1110939--1110979 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1110929 CCGTCGTGGG
* *
1110939 CGCTATTACGGTCGTCGCGGA
1 CGCTATTACGGCCATCGCGGA
*
1110960 CGCTATTGCGGCCATCGCGG
1 CGCTATTACGGCCATCGCGG
1110980 GTAACTCGGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.12, C:0.32, G:0.34, T:0.22
Consensus pattern (21 bp):
CGCTATTACGGCCATCGCGGA
Found at i:1111668 original size:2 final size:2
Alignment explanation
Indices: 1111661--1111686 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1111651 ATGTATTGAA
1111661 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
1111687 GTTTTTTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1112635 original size:122 final size:124
Alignment explanation
Indices: 1112496--1112777 Score: 392
Period size: 123 Copynumber: 2.3 Consensus size: 124
1112486 AAGTTTTGAA
* ** * * * **
1112496 AAAAAATTAAAAGTTTAGGTACTAAAGTGGATCGAATTTGATAGTTTGGGTACTAAACACG-TTA
1 AAAAAATTGAAAGTTTAGGTACTAAAACGGACCAAAATTGATAGTTTACGTACTAAACACGATTA
* *
1112560 AGGTTTTAACAGCGGGT-ACTAAAAATGAAACAAAAACTAAACGTTAGGTGTGGTTTT-G
66 AGGTTTTAACAGCGGGTAACT-AAAATGAAACAAAAACTAAACGTTAGGTATGATTTTGG
***
1112618 AAAAAATTGAAAGTTTAGGTACTAAAACGGACCAAAATTGATAGTTTACGTACTAATTGCGATTA
1 AAAAAATTGAAAGTTTAGGTACTAAAACGGACCAAAATTGATAGTTTACGTACTAAACACGATTA
* *
1112683 AGTTTTTAACGGCGGGTAACTAAAATGAAACAAAAACTAAACGTTAGGTATGATTTTGG
66 AGGTTTTAACAGCGGGTAACTAAAATGAAACAAAAACTAAACGTTAGGTATGATTTTGG
1112742 AAAAAA-TGAAAGTTTAGGTACTAAAACGGACCAAAA
1 AAAAAATTGAAAGTTTAGGTACTAAAACGGACCAAAA
1112778 CTAATAGGTT
Statistics
Matches: 142, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
122 50 0.35
123 82 0.58
124 10 0.07
ACGTcount: A:0.42, C:0.10, G:0.20, T:0.28
Consensus pattern (124 bp):
AAAAAATTGAAAGTTTAGGTACTAAAACGGACCAAAATTGATAGTTTACGTACTAAACACGATTA
AGGTTTTAACAGCGGGTAACTAAAATGAAACAAAAACTAAACGTTAGGTATGATTTTGG
Found at i:1113489 original size:19 final size:19
Alignment explanation
Indices: 1113412--1113502 Score: 74
Period size: 19 Copynumber: 4.4 Consensus size: 19
1113402 AACGTGATTT
*
1113412 TGAAAAATGCGTTGCGATAG
1 TGAAAAA-GTGTTGCGATAG
* * *
1113432 TTAAAATGTGTTGCGAGAG
1 TGAAAAAGTGTTGCGATAG
1113451 TTTGAAAAACGTGTTGTTGCGATAG
1 --TGAAAAA---G-TGTTGCGATAG
1113476 TGAAAAAGTGTTGCGATAG
1 TGAAAAAGTGTTGCGATAG
*
1113495 TGTAAAAG
1 TGAAAAAG
1113503 ATTCTCAAGC
Statistics
Matches: 57, Mismatches: 8, Indels: 13
0.73 0.10 0.17
Matches are distributed among these distances:
19 28 0.49
20 6 0.11
21 5 0.09
23 7 0.12
24 1 0.02
25 10 0.18
ACGTcount: A:0.34, C:0.07, G:0.30, T:0.30
Consensus pattern (19 bp):
TGAAAAAGTGTTGCGATAG
Found at i:1115824 original size:29 final size:29
Alignment explanation
Indices: 1115784--1115847 Score: 128
Period size: 29 Copynumber: 2.2 Consensus size: 29
1115774 ATTTTAATTT
1115784 TTTTATAAATTTAAATTAGTCCCTCAAAA
1 TTTTATAAATTTAAATTAGTCCCTCAAAA
1115813 TTTTATAAATTTAAATTAGTCCCTCAAAA
1 TTTTATAAATTTAAATTAGTCCCTCAAAA
1115842 TTTTAT
1 TTTTAT
1115848 GATGGTCTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.39, C:0.12, G:0.03, T:0.45
Consensus pattern (29 bp):
TTTTATAAATTTAAATTAGTCCCTCAAAA
Found at i:1126070 original size:384 final size:384
Alignment explanation
Indices: 1125314--1130669 Score: 9197
Period size: 384 Copynumber: 13.9 Consensus size: 384
1125304 AAACCCCCCT
* *
1125314 TATGTGAATTGTGATATTTTTCTTTATTTAATTTTAGGTTTAGTAC-AAAACTTTAGGTAAGTTA
1 TATGTGAATTGTGATATTTTTCTTTATTTAATTTTAGGTTTAGTACAAAAAC-TTGGGTAAATTA
* * *
1125378 CGTATTTAATATTTAAATTATAAGCTTTTATCTATTTTAGTATTTAAACTTTTAATTTTTT-AAA
65 CGTGTTTAATACTTAAAATATAAGCTTTTATCTATTTTAGTATTTAAACTTTTAATTTTTTCAAA
*
1125442 ATCATGTCTAAAGTTTAGTTTTTGTTTCATTTTAGTATCT-TTGTTCAAAATTTAATGTTATGTT
130 ATCATATCTAAAGTTTAGTTTTTGTTTCATTTTAGTAT-TATTGTTCAAAATTTAATGTTATGTT
* * * * * * *
1125506 TTGA-ATATTTTTGAAAGCTTAAGTATTAGAATGTGCAAAAACTTATAGCTTAAATATTAAATGT
194 TTGATTTTTTTTTGAAAGCTTAAGTACTAGAACGTGCAAAAACTGATAGTTTAAATATTAAACGT
*
1125570 GTTAAGTTTTTAACGAAATGTACTAAAATGAAATAAAAATAAAATCTTAAGTAACTTTTTGAAAA
259 GTTAAGTTTTTAACGAAAGGTACTAAAATGAAATAAAAATAAAATCTTAAGTAACTTTTTG--AA
* * *
1125635 AAAAAATAAAAATTAAGGTACTAAAACAGATCAAAACTTATATGAATTT-CCCCTTTTTTGGG
322 AATAAATAAAAGTTAAGGTACTAAAACAGATCAAAACTTATAGGAATTTCCCCCTTTTTTGGG
*
1125697 TATGTGAATTGTGAGATTTTTCTTTATTTAATTTTAGGTTTAGTACAAAAACTTGGGTAAATTAC
1 TATGTGAATTGTGATATTTTTCTTTATTTAATTTTAGGTTTAGTACAAAAACTTGGGTAAATTAC
* *
1125762 GTGTTTAATACTTAAAATATAAACTTTTATCTATTTTAGTATTTAAACTTTTAATTTTTTCAAAG
66 GTGTTTAATACTTAAAATATAAGCTTTTATCTATTTTAGTATTTAAACTTTTAATTTTTTCAAAA
*
1125827 TCATATCTAAAGTTTAGTTTTTGTTTCACTTTAGTATTATTGTTCAAAATTTAATGTTATGTTTT
131 TCATATCTAAAGTTTAGTTTTTGTTTCATTTTAGTATTATTGTTCAAAATTTAATGTTATGTTTT
1125892 GATTTTTTTTTGAAAGCTTAAGTACTAGAACGTGCAAAAACTGATAGTTTAAATATTAAACGTGT
196 GATTTTTTTTTGAAAGCTTAAGTACTAGAACGTGCAAAAACTGATAGTTTAAATATTAAACGTGT
*
1125957 TAAGTTTTTAACGAAAGGTACTAAAATGAAATAAAAATAAAATCTTAAGTAACTTTTTGAAAAAA
261 TAAGTTTTTAACGAAAGGTACTAAAATGAAATAAAAATAAAATCTTAAGTAACTTTTTG-AAAAT
* ** *
1126022 AAATAAAAGTTAAGATACTAAAACAGATTGAAACTTATATGAATTTCCCCCTTTTTTGGG
325 AAATAAAAGTTAAGGTACTAAAACAGATCAAAACTTATAGGAATTTCCCCCTTTTTTGGG
*
1126082 TATGTGAATTGTGATATTTTTCTTTATTTAATTTTAGGTTTAGTTCAAAAACTTGGGTAAATTAC
1 TATGTGAATTGTGATATTTTTCTTTATTTAATTTTAGGTTTAGTACAAAAACTTGGGTAAATTAC
*
1126147 GTGTTTAATACTTAAAATATAAGCTTTTATATATTTTAGTATTTAAACTTTTAATTTTTTCAAAA
66 GTGTTTAATACTTAAAATATAAGCTTTTATCTATTTTAGTATTTAAACTTTTAATTTTTTCAAAA
*
1126212 TCATATCTAAAGTTTAGTTTTTGTTTCATTATAGTATTATTGTTCAAAATTTAATGTTATGTTTT
131 TCATATCTAAAGTTTAGTTTTTGTTTCATTTTAGTATTATTGTTCAAAATTTAATGTTATGTTTT
* * * *
1126277 GAATTTTTTTTGAAAGCTTAAGTATTAGAACGTGCAAAAACTAATAGCTTAAATATTAAACGTGT
196 GATTTTTTTTTGAAAGCTTAAGTACTAGAACGTGCAAAAACTGATAGTTTAAATATTAAACGTGT
*
1126342 TAAGTTTTTAACGAAAGGTACTAAAATGAAATAAAAATAAAATCTTAAGTAACTGTTTGAAAATA
261 TAAGTTTTTAACGAAAGGTACTAAAATGAAATAAAAATAAAATCTTAAGTAACTTTTTGAAAATA
* *
1126407 AATAAAAGTTAAGGTACTAAAATAGATCAAAACTTATAGGAATTTCTCCCTTTTTTGGG
326 AATAAAAGTTAAGGTACTAAAACAGATCAAAACTTATAGGAATTTCCCCCTTTTTTGGG
* *
1126466 TATGTGAATTGTGATATTTTTCTTTATTTAATTTTAGATTTAGTACAAAAACTTGGGTAAATTAT
1 TATGTGAATTGTGATATTTTTCTTTATTTAATTTTAGGTTTAGTACAAAAACTTGGGTAAATTAC
1126531 GTGTTTAATACTTAAAATATAAGCTTTTATCTATTTTAGTATTTAAACTTTTAATTTTTTCAAAA
66 GTGTTTAATACTTAAAATATAAGCTTTTATCTATTTTAGTATTTAAACTTTTAATTTTTTCAAAA
* * *
1126596 TCATGTCTAAAGTTTAGTTTTTGTTTCATTTTAGTA-CATTGTTCAAAATTTAATGTTATGTTTG
131 TCATATCTAAAGTTTAGTTTTTGTTTCATTTTAGTATTATTGTTCAAAATTTAATGTTATGTTTT
* * *
1126660 GAATTTGTTTTTGAAAGCTTAAGTACTAGAACGTGCACAAACTGATAGTTTAAATACTAAACGTG
196 G-ATTTTTTTTTGAAAGCTTAAGTACTAGAACGTGCAAAAACTGATAGTTTAAATATTAAACGTG
* *
1126725 TTAAGTTTTTAACGAAATGTACTAAAATGAAATAAAAATAAAATCTTAAGTAACTTTTCGAAAAT
260 TTAAGTTTTTAACGAAAGGTACTAAAATGAAATAAAAATAAAATCTTAAGTAACTTTTTGAAAAT
* *
1126790 AAATAAAAGTTGAGGTAATAAAACAGATCAAAACTTATAGGAATTTCCCCCTTTTTTGGG
325 AAATAAAAGTTAAGGTACTAAAACAGATCAAAACTTATAGGAATTTCCCCCTTTTTTGGG
*
1126850 TATGTGAATTGTGATATTTTTCTTTATTTAATTTTAGGTTTAGTACAAAAACTTGGATAAATTAC
1 TATGTGAATTGTGATATTTTTCTTTATTTAATTTTAGGTTTAGTACAAAAACTTGGGTAAATTAC
*
1126915 GTGTTTAATACTTAAAATATAAGCTTTTATCTATTTTAGTATTTAAACTTTTAATTTTTTCAAAG
66 GTGTTTAATACTTAAAATATAAGCTTTTATCTATTTTAGTATTTAAACTTTTAATTTTTTCAAAA
1126980 TCATATCTAAAGTTTAGTTTTTGTTTCATTTTAGTATTATTGTTCAAAATTTAATGTTATGTTTT
131 TCATATCTAAAGTTTAGTTTTTGTTTCATTTTAGTATTATTGTTCAAAATTTAATGTTATGTTTT
1127045 GA-TTTTTTTTGAAAGCTTAAGTACTAGAACGTGCAAAAACTGATAGTTTAAATATTAAACGTGT
196 GATTTTTTTTTGAAAGCTTAAGTACTAGAACGTGCAAAAACTGATAGTTTAAATATTAAACGTGT
* *
1127109 TAAGTTTTTAACGAAAGATACTAAAATGAAATAAAAATAAAATCTTAAGTAACTTTTTGAAAAAA
261 TAAGTTTTTAACGAAAGGTACTAAAATGAAATAAAAATAAAATCTTAAGTAACTTTTTGAAAATA
* **
1127174 AATAAAAGTTAAGATACTAAAACAGATTGAAACTTATAGGAATTTCCCCCTTTTTTGGG
326 AATAAAAGTTAAGGTACTAAAACAGATCAAAACTTATAGGAATTTCCCCCTTTTTTGGG
*
1127233 TATGTGAATTGTGATATTTTTCTTTATTTAATTTTAGGTTTAGTACAAAAACTTGGATAAATTAC
1 TATGTGAATTGTGATATTTTTCTTTATTTAATTTTAGGTTTAGTACAAAAACTTGGGTAAATTAC
* *
1127298 GTGTTTAATACTTAAAATATAAGGTTTTATCTATTTTAGTATTTAAACTTTTAATTTTTTCAAAG
66 GTGTTTAATACTTAAAATATAAGCTTTTATCTATTTTAGTATTTAAACTTTTAATTTTTTCAAAA
1127363 TCATATCTAAAGTTTAGTTTTTGTTTCATTTTAGTATTATTGTTCAAAATTTAATGTTATGTTTT
131 TCATATCTAAAGTTTAGTTTTTGTTTCATTTTAGTATTATTGTTCAAAATTTAATGTTATGTTTT
* *
1127428 GATTTTTTTTTTGAAAGCTTAAGTATTAGAACGTGCAAAAACTGATAGCTTAAATATTAAACGTG
196 GA-TTTTTTTTTGAAAGCTTAAGTACTAGAACGTGCAAAAACTGATAGTTTAAATATTAAACGTG
*
1127493 TTAAGTTTTTAACGAAAGGTACTAAAATGAAATAAAAATAAAATCTTAAGTAACTGTTTGAAAAT
260 TTAAGTTTTTAACGAAAGGTACTAAAATGAAATAAAAATAAAATCTTAAGTAACTTTTTGAAAAT
1127558 AAATAAAAGTTAAGGTACTAAAACAGATCAAAACTTATAGGAATTTCCCCCTTTTTTGGG
325 AAATAAAAGTTAAGGTACTAAAACAGATCAAAACTTATAGGAATTTCCCCCTTTTTTGGG
* *
1127618 TATGTGAATTGTGATATTTTTCTTTATTTAATTTTAGATTTAGTACAAAAACTTGGGTAAATTAT
1 TATGTGAATTGTGATATTTTTCTTTATTTAATTTTAGGTTTAGTACAAAAACTTGGGTAAATTAC
1127683 GTGTTTAATACTTAAAATATAAGCTTTTATCTATTTTAGTATTTAAACTTTTAATTTTTTCAAAA
66 GTGTTTAATACTTAAAATATAAGCTTTTATCTATTTTAGTATTTAAACTTTTAATTTTTTCAAAA
* * * *
1127748 TCATGTCTAAAGTTTAGTTTTTGTTTCATTTTAATA-CATTGTTCAAAATTTAATGTTATGTTTG
131 TCATATCTAAAGTTTAGTTTTTGTTTCATTTTAGTATTATTGTTCAAAATTTAATGTTATGTTTT
* * * * *
1127812 GAATTTGTTTTTGAAAGCTTAAGTACTAAAACGTGCACAAACTGATAGTTTAAAAACTAAACGTG
196 G-ATTTTTTTTTGAAAGCTTAAGTACTAGAACGTGCAAAAACTGATAGTTTAAATATTAAACGTG
* * *
1127877 TTAAGGTTTTAACGAAATGTACTAAAATGAAATAAAAATAAAATCTTAAGTAACTTTTCGAAAAT
260 TTAAGTTTTTAACGAAAGGTACTAAAATGAAATAAAAATAAAATCTTAAGTAACTTTTTGAAAAT
*
1127942 AAATAAAAGTTAAGGTAATAAAACAGATCAAAACTTATAGGAATTTCCCCCTTTTTTGGG
325 AAATAAAAGTTAAGGTACTAAAACAGATCAAAACTTATAGGAATTTCCCCCTTTTTTGGG
*
1128002 TATGTGAATTGTGATATTTTTCTTTATTTAATTTTAGGTTTAGTACAAAAACTTGGATAAATTAC
1 TATGTGAATTGTGATATTTTTCTTTATTTAATTTTAGGTTTAGTACAAAAACTTGGGTAAATTAC
*
1128067 GTGTTTAATACTTAAAATATAAGCTTTTATCTATTTTAGTATTTAAACTTTTAATTTTTTCAAAG
66 GTGTTTAATACTTAAAATATAAGCTTTTATCTATTTTAGTATTTAAACTTTTAATTTTTTCAAAA
1128132 TCATATCTAAAGTTTAGTTTTTGTTTCATTTTAGTATTATTGTTCAAAATTTAATGTTATGTTTT
131 TCATATCTAAAGTTTAGTTTTTGTTTCATTTTAGTATTATTGTTCAAAATTTAATGTTATGTTTT
1128197 GATTTTTTTTTTGAAAGCTTAAGTACTAGAACGTGCAAAAACTGATAGTTTAAATATTAAACGTG
196 GA-TTTTTTTTTGAAAGCTTAAGTACTAGAACGTGCAAAAACTGATAGTTTAAATATTAAACGTG
* *
1128262 TTAAGTTTTTAACGAAAGATACTAAAATGAAATAAAAATAAAATCTTAAGTAACTTTTTGAAAAA
260 TTAAGTTTTTAACGAAAGGTACTAAAATGAAATAAAAATAAAATCTTAAGTAACTTTTTGAAAAT
* ** *
1128327 AAATAAAAGTTAAGATACTAAAACAGATTGAAACTTATATGAATTTCCCCCTTTTTTGGG
325 AAATAAAAGTTAAGGTACTAAAACAGATCAAAACTTATAGGAATTTCCCCCTTTTTTGGG
*
1128387 TATGTGAATTGTGATATTTTTCTTTATTTAATTTTAGGTTTAGTTCAAAAACTTGGGTAAATTAC
1 TATGTGAATTGTGATATTTTTCTTTATTTAATTTTAGGTTTAGTACAAAAACTTGGGTAAATTAC
*
1128452 GTGTTTAATACTTAAAATATAAGCTTTTATATATTTTAGTATTTAAACTTTTAATTTTTTCAAAA
66 GTGTTTAATACTTAAAATATAAGCTTTTATCTATTTTAGTATTTAAACTTTTAATTTTTTCAAAA
* *
1128517 TCATATCTAAAGTTTAGTTTTTGTTTCATTATAGTATTATTGTTCAAAATTCAATGTTATGTTTT
131 TCATATCTAAAGTTTAGTTTTTGTTTCATTTTAGTATTATTGTTCAAAATTTAATGTTATGTTTT
* * *
1128582 GAATTTTTTTTGGAAGCTTAAGTATTAGAACGTGCAAAAACTGATAGTTTAAATATTAAACGTGT
196 GATTTTTTTTTGAAAGCTTAAGTACTAGAACGTGCAAAAACTGATAGTTTAAATATTAAACGTGT
*
1128647 TAAGTTTTTAACGAAAGGTACTAAAATGAAATAAAAATAAAATCTTAAGTAACTGTTTGAAAATA
261 TAAGTTTTTAACGAAAGGTACTAAAATGAAATAAAAATAAAATCTTAAGTAACTTTTTGAAAATA
1128712 AATAAAAGTTAAGGTACTAAAACAGATCAAAACTTATAGGAATTTCCCCCTTTTTTGGG
326 AATAAAAGTTAAGGTACTAAAACAGATCAAAACTTATAGGAATTTCCCCCTTTTTTGGG
*
1128771 TATGTGAATTGTGATATTTTTCTTTATTTAATTTTAGATTTAGTACAAAAACTTGGGTAAATT-C
1 TATGTGAATTGTGATATTTTTCTTTATTTAATTTTAGGTTTAGTACAAAAACTTGGGTAAATTAC
1128835 TGTGTTTAATACTTAAAATATAAGCTTTTATCTATTTTAGTATTTAAACTTTTAATTTTTTCAAA
66 -GTGTTTAATACTTAAAATATAAGCTTTTATCTATTTTAGTATTTAAACTTTTAATTTTTTCAAA
* *
1128900 ATCATGTCTAAAGTTTAGTTTTTGTTTCATTTTAGTA-CATTGTTCAAAATTTAATGTTATGTTT
130 ATCATATCTAAAGTTTAGTTTTTGTTTCATTTTAGTATTATTGTTCAAAATTTAATGTTATGTTT
* * * *
1128964 GGAATTTGTTTTTGAAAGCTTAAGTACTAGAACGTGCACAAACTGATAGTTTAAATACTAAACGT
195 TG-ATTTTTTTTTGAAAGCTTAAGTACTAGAACGTGCAAAAACTGATAGTTTAAATATTAAACGT
* **
1129029 GTTAAGTTTTTAACGAAATGTACTAAAATGAAATAAAAATAAAATCTTAAGTAACTTTTCAAAAA
259 GTTAAGTTTTTAACGAAAGGTACTAAAATGAAATAAAAATAAAATCTTAAGTAACTTTTTGAAAA
*
1129094 TAAATAAAAGTTAAGGTAATAAAACAGATCAAAACTTATAGGAATTTCCCCCTTTTTTGGG
324 TAAATAAAAGTTAAGGTACTAAAACAGATCAAAACTTATAGGAATTTCCCCCTTTTTTGGG
*
1129155 TATGTGAATTGTGATATTTTTCTTTATTTAATTTTAGGTTTAGTACAAAAACTTGGATAAATTAC
1 TATGTGAATTGTGATATTTTTCTTTATTTAATTTTAGGTTTAGTACAAAAACTTGGGTAAATTAC
*
1129220 GTGTTTAATACTTAAAATATAAGCTTTTATCTATTTTAGTATTTAAACTTTTAATTTTTTCAAAG
66 GTGTTTAATACTTAAAATATAAGCTTTTATCTATTTTAGTATTTAAACTTTTAATTTTTTCAAAA
1129285 TCATATCTAAAGTTTAGTTTTTGTTTCATTTTAGTATTATTGTTCAAAATTTAATGTTATGTTTT
131 TCATATCTAAAGTTTAGTTTTTGTTTCATTTTAGTATTATTGTTCAAAATTTAATGTTATGTTTT
1129350 GATTTTTTTTTGAAAGCTTAAGTACTAGAACGTGCAAAAACTGATAGTTTAAATATTAAACGTGT
196 GATTTTTTTTTGAAAGCTTAAGTACTAGAACGTGCAAAAACTGATAGTTTAAATATTAAACGTGT
1129415 TAAGTTTTTAACGAAAGGTACTAAAATGAAATAAAAATAAAATCTTAAGTAACTTTTTGAAAATA
261 TAAGTTTTTAACGAAAGGTACTAAAATGAAATAAAAATAAAATCTTAAGTAACTTTTTGAAAATA
* **
1129480 AATAAAAGTTAAGGTACTAAAACAGATCGAAACTTATTTGAATTTCCCCCTTTTTTGGG
326 AATAAAAGTTAAGGTACTAAAACAGATCAAAACTTATAGGAATTTCCCCCTTTTTTGGG
*
1129539 TATGTGAATTGTGATATTTTTCTTTATTTAATTTTAGGTTTAGTTCAAAAACTTGGGTAAATTAC
1 TATGTGAATTGTGATATTTTTCTTTATTTAATTTTAGGTTTAGTACAAAAACTTGGGTAAATTAC
*
1129604 GTGTTTAATACTTAAAATATAAGCTTTTATATATTTTAGTATTTAAACTTTTAATTTTTTCAAAA
66 GTGTTTAATACTTAAAATATAAGCTTTTATCTATTTTAGTATTTAAACTTTTAATTTTTTCAAAA
*
1129669 TCATATCTAAAGTTTAGTTTTTGTTTCATTTTAGTATCATTGTTCAAAATTTAATGTTATGTTTT
131 TCATATCTAAAGTTTAGTTTTTGTTTCATTTTAGTATTATTGTTCAAAATTTAATGTTATGTTTT
** * * * *
1129734 GAACTTTTTTTGACAGCTTAAGTATTAGAACGTGCAAAAACTGATAGCTTAAATATTAAATGTGT
196 GATTTTTTTTTGAAAGCTTAAGTACTAGAACGTGCAAAAACTGATAGTTTAAATATTAAACGTGT
1129799 TAAGTTTTTAACGAAAGGTACTAAAATGAAATAAAAATAAAATCTTAAGTAACTTTTTGAAAATA
261 TAAGTTTTTAACGAAAGGTACTAAAATGAAATAAAAATAAAATCTTAAGTAACTTTTTGAAAATA
1129864 AATAAAAGTTAAGGTACTAAAACAGATCAAAACTTATAGGAATTTCCCCCTTTTTTGGG
326 AATAAAAGTTAAGGTACTAAAACAGATCAAAACTTATAGGAATTTCCCCCTTTTTTGGG
* *
1129923 TATGTGAATTGTGATATTTTCCTTTATTTAATTTTAGGTTTAGTACAAAAACTTGGGTAAATTAT
1 TATGTGAATTGTGATATTTTTCTTTATTTAATTTTAGGTTTAGTACAAAAACTTGGGTAAATTAC
1129988 GTGTTTAATACTTAAAATATAAGCTTTTATCTATTTTAGTATTTAAACTTTTAATTTTTTCAAAA
66 GTGTTTAATACTTAAAATATAAGCTTTTATCTATTTTAGTATTTAAACTTTTAATTTTTTCAAAA
* * * * *
1130053 TCATGTCTAAAGTTTAGTTTTTGTTTCCTTTTAGTA-CATCGTTCAAAATTTAATGTTATGTTTG
131 TCATATCTAAAGTTTAGTTTTTGTTTCATTTTAGTATTATTGTTCAAAATTTAATGTTATGTTTT
* * * * *
1130117 GAATTTGTTTTTGAAAGCTTAAGTACTAGAACGTGCACAAATTGATAATTTAAATACTAAACGTG
196 G-ATTTTTTTTTGAAAGCTTAAGTACTAGAACGTGCAAAAACTGATAGTTTAAATATTAAACGTG
1130182 TTAAGTTTTTAACGAAAGGTACTAAAATGAAATAAAAATAAAATCTTAAGTAACTTTTTGAAAAT
260 TTAAGTTTTTAACGAAAGGTACTAAAATGAAATAAAAATAAAATCTTAAGTAACTTTTTGAAAAT
*
1130247 AAATAAAAGTTAAGGTACTAAAACATATCAAAACTTATAGGAATTTCCCCCTTTTTTGGG
325 AAATAAAAGTTAAGGTACTAAAACAGATCAAAACTTATAGGAATTTCCCCCTTTTTTGGG
* *
1130307 TATGTGAATTGTGATATTTTTCTTTATTTAATTTTAGGTTTAGTACAAAAACTTTGGTAAATTAT
1 TATGTGAATTGTGATATTTTTCTTTATTTAATTTTAGGTTTAGTACAAAAACTTGGGTAAATTAC
1130372 GTGTTTAATACTTAAAATATAAGCTTTTATCTATTTTAGTATTTAAACTTTTAATTTTTTCAAAA
66 GTGTTTAATACTTAAAATATAAGCTTTTATCTATTTTAGTATTTAAACTTTTAATTTTTTCAAAA
* * *
1130437 TCATGTCTAAAGTTTAGTTTTTGTTTCATTTTAGTA-CATTGTTCAAAATTTAATGTTATGTTTG
131 TCATATCTAAAGTTTAGTTTTTGTTTCATTTTAGTATTATTGTTCAAAATTTAATGTTATGTTTT
* * * * **
1130501 GAATTTGTTTTTGAAAGCTTAAGTACTAGAACGTGCACAAACTGATAGTTTAAATACTAAGCGCA
196 G-ATTTTTTTTTGAAAGCTTAAGTACTAGAACGTGCAAAAACTGATAGTTTAAATATTAAACGTG
* * * *
1130566 TTAAGTTTTTAACGAATGGTACTAAAATGAAATAAAAATAAAATCTTAGGCAACTTTTTGAAAAA
260 TTAAGTTTTTAACGAAAGGTACTAAAATGAAATAAAAATAAAATCTTAAGTAACTTTTTGAAAAT
*
1130631 AAATAAATGTTAAGGTACTAAAACAGATCAAAACTTATA
325 AAATAAAAGTTAAGGTACTAAAACAGATCAAAACTTATA
1130670 ATTTAGGTAC
Statistics
Matches: 4721, Mismatches: 235, Indels: 33
0.95 0.05 0.01
Matches are distributed among these distances:
383 564 0.12
384 2941 0.62
385 1216 0.26
ACGTcount: A:0.37, C:0.08, G:0.13, T:0.42
Consensus pattern (384 bp):
TATGTGAATTGTGATATTTTTCTTTATTTAATTTTAGGTTTAGTACAAAAACTTGGGTAAATTAC
GTGTTTAATACTTAAAATATAAGCTTTTATCTATTTTAGTATTTAAACTTTTAATTTTTTCAAAA
TCATATCTAAAGTTTAGTTTTTGTTTCATTTTAGTATTATTGTTCAAAATTTAATGTTATGTTTT
GATTTTTTTTTGAAAGCTTAAGTACTAGAACGTGCAAAAACTGATAGTTTAAATATTAAACGTGT
TAAGTTTTTAACGAAAGGTACTAAAATGAAATAAAAATAAAATCTTAAGTAACTTTTTGAAAATA
AATAAAAGTTAAGGTACTAAAACAGATCAAAACTTATAGGAATTTCCCCCTTTTTTGGG
Found at i:1137225 original size:30 final size:30
Alignment explanation
Indices: 1137184--1137278 Score: 111
Period size: 30 Copynumber: 3.1 Consensus size: 30
1137174 AGTAGTTAAT
1137184 ATATTAATATATATTAGTAATATATTATTA
1 ATATTAATATATATTAGTAATATATTATTA
* * * *
1137214 ATATTAGTATATATCATTAATATATTAATA
1 ATATTAATATATATTAGTAATATATTATTA
* *
1137244 CATATCATTAATATATTAGT-ATATATTATTA
1 -ATATTAAT-ATATATTAGTAATATATTATTA
1137275 ATAT
1 ATAT
1137279 ATTAATTGAC
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
30 30 0.56
31 16 0.30
32 8 0.15
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (30 bp):
ATATTAATATATATTAGTAATATATTATTA
Found at i:1137281 original size:21 final size:21
Alignment explanation
Indices: 1137182--1137282 Score: 127
Period size: 21 Copynumber: 4.9 Consensus size: 21
1137172 AAAGTAGTTA
*
1137182 ATATATTAAT-ATATATTAGT
1 ATATATTATTAATATATTAGT
1137202 AATATATTATT-A-ATATTAGT
1 -ATATATTATTAATATATTAGT
* *
1137222 ATATATCATTAATATATTAAT
1 ATATATTATTAATATATTAGT
* *
1137243 ACATATCATTAATATATTAGT
1 ATATATTATTAATATATTAGT
1137264 ATATATTATTAATATATTA
1 ATATATTATTAATATATTA
1137283 ATTGACTTTA
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
19 9 0.13
20 9 0.13
21 53 0.75
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (21 bp):
ATATATTATTAATATATTAGT
Found at i:1147718 original size:2 final size:2
Alignment explanation
Indices: 1147658--1147701 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
1147648 AACAACTCAT
1147658 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1147699 TA T
1 TA T
1147702 TGTTTGTGAA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1151414 original size:24 final size:25
Alignment explanation
Indices: 1151376--1151424 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
1151366 TAGGTCTTTT
* *
1151376 TTAAAGTTTATAAATTTAAAATTAA
1 TTAAAATTTATAAATATAAAATTAA
*
1151401 TTAAAATTT-TAAATATAAATTTAA
1 TTAAAATTTATAAATATAAAATTAA
1151425 ATTGTCTCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (25 bp):
TTAAAATTTATAAATATAAAATTAA
Found at i:1159075 original size:23 final size:23
Alignment explanation
Indices: 1159047--1159097 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
1159037 TTTTTTTTCT
*
1159047 TCAACCGAACCCCATCTTCTTCC
1 TCAACCCAACCCCATCTTCTTCC
1159070 TCAACCCAACCCCATCTTCTTCC
1 TCAACCCAACCCCATCTTCTTCC
1159093 TCAAC
1 TCAAC
1159098 ACCATTTTGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.24, C:0.49, G:0.02, T:0.25
Consensus pattern (23 bp):
TCAACCCAACCCCATCTTCTTCC
Found at i:1165289 original size:20 final size:20
Alignment explanation
Indices: 1165244--1165290 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
1165234 ATCAAACTTT
1165244 TAAAATTTATAAAATAAATA
1 TAAAATTTATAAAATAAATA
* * * *
1165264 TTAAATTTATTAAATTATTA
1 TAAAATTTATAAAATAAATA
1165284 TAAAATT
1 TAAAATT
1165291 ATACTTGTAG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TAAAATTTATAAAATAAATA
Found at i:1165760 original size:31 final size:32
Alignment explanation
Indices: 1165698--1165773 Score: 86
Period size: 31 Copynumber: 2.4 Consensus size: 32
1165688 TCTATTTTTC
* *
1165698 TTTGTTC-AATTAACTATTTAAATTTATCTTT
1 TTTGTTCAAATTAACTATTTAAATCTAACTTT
1165729 TTTGTTCAAATTAA-TACTTT-AATCTAACTTT
1 TTTGTTCAAATTAACTA-TTTAAATCTAACTTT
*
1165760 TTTTTATCAAATTA
1 TTTGT-TCAAATTA
1165774 TAAAATTTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
31 22 0.56
32 17 0.44
ACGTcount: A:0.32, C:0.11, G:0.03, T:0.55
Consensus pattern (32 bp):
TTTGTTCAAATTAACTATTTAAATCTAACTTT
Found at i:1166536 original size:15 final size:16
Alignment explanation
Indices: 1166501--1166542 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
1166491 TAATATTTTA
*
1166501 ATTTTAACTTTTAAAT
1 ATTTTAATTTTTAAAT
1166517 ATTTT-ATTTTTAAA-
1 ATTTTAATTTTTAAAT
1166531 AGTTTTAATTTT
1 A-TTTTAATTTT
1166543 GATAAAAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 1 0.04
15 12 0.52
16 10 0.43
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (16 bp):
ATTTTAATTTTTAAAT
Found at i:1168259 original size:29 final size:28
Alignment explanation
Indices: 1168204--1168259 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
1168194 TGAAGTTCCA
* *
1168204 AACCTAGACTAATTATAAAATATAATAG
1 AACCTAAACTAATTAAAAAATATAATAG
*
1168232 AACCTAAACTAGTTAAACAAATATAATA
1 AACCTAAACTAATTAAA-AAATATAATA
1168260 TCACTTTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 14 0.58
29 10 0.42
ACGTcount: A:0.55, C:0.12, G:0.05, T:0.27
Consensus pattern (28 bp):
AACCTAAACTAATTAAAAAATATAATAG
Found at i:1170717 original size:96 final size:96
Alignment explanation
Indices: 1170537--1170795 Score: 382
Period size: 96 Copynumber: 2.7 Consensus size: 96
1170527 AAAACACAAA
* *
1170537 GTCAAACTGATAAATTCTTCATACACACACTTTGC-AGCTTCATAATTAAACATGATAACAATAA
1 GTCAAACTGATAAATTCTTCATAGACACACTTTGCAAG-TTCATAATTAAACATGATAACGATAA
1170601 TCAATCAGAAATCACAGAGTTCGATACATGCC
65 TCAATCAGAAATCACAGAGTTCGATACATGCC
* *
1170633 GTCAAATTGATAAATTCTTCATAGACTCACTTTGCAAGTTCATAATTAAACATGATAACGATAAT
1 GTCAAACTGATAAATTCTTCATAGACACACTTTGCAAGTTCATAATTAAACATGATAACGATAAT
*
1170698 CAA-CTAGAACTCATC-GAGTTCGATACATGCC
66 CAATC-AGAAATCA-CAGAGTTCGATACATGCC
* * *
1170729 GTCAAACTGATAAGTTCTTCATATG-CACACTTTGCAACTTCATAATTAAGCATGATAACGATAA
1 GTCAAACTGATAAATTCTTCATA-GACACACTTTGCAAGTTCATAATTAAACATGATAACGATAA
1170793 TCA
65 TCA
1170796 GCATCGAGGT
Statistics
Matches: 149, Mismatches: 10, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
95 1 0.01
96 144 0.97
97 4 0.03
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (96 bp):
GTCAAACTGATAAATTCTTCATAGACACACTTTGCAAGTTCATAATTAAACATGATAACGATAAT
CAATCAGAAATCACAGAGTTCGATACATGCC
Found at i:1171165 original size:133 final size:135
Alignment explanation
Indices: 1170883--1171371 Score: 425
Period size: 133 Copynumber: 3.5 Consensus size: 135
1170873 ATCAAGGGAC
* * * *
1170883 TGAAATTTGCAGCAAC-AAATTGAACTTCATTAAAGACAGAGTCAAAGACCAGAGTTAGCAATAA
1 TGAAATTTGCAGCTACAAAATTGAACTTCATT-AAGACAAACTCAAAGACCAGAATTAGC-----
* ** * * * * *
1170947 AATCAAAGATCACCGAATTGTTCACCAAATTACAATCCACTCAAGCTCAATCATCAAATGCATAA
60 AATC-AAGCTCAAAGAA---TTCACCAAATTACAATCCATTCAAGCTGAACCACCAAATCCATAA
* *
1171012 ACATGAAAAGGAAAT
121 ACATGAAAAAGAAAA
*
1171027 TGAAATTTGCAGCTACAAAATTGAACTTCGTTGAAGACAAACTCAAAGACCAGAATTAGCAATC-
1 TGAAATTTGCAGCTACAAAATTGAACTTCATT-AAGACAAACTCAAAGACCAGAATTAGCAATCA
*
1171091 AGCTCAAAG-A-TCACCAAATTGCAATCCATTCAAGCTGAACCACCAAATCCATAAACATGAAAA
65 AGCTCAAAGAATTCACCAAATTACAATCCATTCAAGCTGAACCACCAAATCCATAAACATGAAAA
1171154 AGAAAA
130 AGAAAA
* * *
1171160 TGAAATTTGCAGCTACAAAATTGAAATTCATTAA-AGAAATTCAAAGACCAGAATTAGCAATAAA
1 TGAAATTTGCAGCTACAAAATTGAACTTCATTAAGACAAACTCAAAGACCAGAATTAGC----AA
* *
1171224 CTCAAAGGTCACAGAATTCTTCACCAAATTACAATCCATTCAAGCTCAAGTGCTCAACCACCAAA
62 -TC-AAGCTCAAAGAA---TTCACCAAATTACAATCCATTCAAG--C---TG---AACCACCAAA
* *
1171289 TCCATAAACATG-AAAAGATAC
114 TCCATAAACATGAAAAAGAAAA
* * * *
1171310 TGAAATTTGCAGCTAC-GAATTGAACTTCATTAAAGACAAGCTAAAAGACCAGAATCAGCAAT
1 TGAAATTTGCAGCTACAAAATTGAACTTCATT-AAGACAAACTCAAAGACCAGAATTAGCAAT
1171372 ATACTAAAAG
Statistics
Matches: 289, Mismatches: 33, Indels: 44
0.79 0.09 0.12
Matches are distributed among these distances:
131 22 0.08
132 2 0.01
133 81 0.28
135 2 0.01
136 2 0.01
137 1 0.00
138 13 0.04
139 1 0.00
140 4 0.01
143 23 0.08
144 15 0.05
145 39 0.13
146 1 0.00
147 2 0.01
148 2 0.01
149 13 0.04
150 25 0.09
151 41 0.14
ACGTcount: A:0.45, C:0.20, G:0.13, T:0.21
Consensus pattern (135 bp):
TGAAATTTGCAGCTACAAAATTGAACTTCATTAAGACAAACTCAAAGACCAGAATTAGCAATCAA
GCTCAAAGAATTCACCAAATTACAATCCATTCAAGCTGAACCACCAAATCCATAAACATGAAAAA
GAAAA
Found at i:1171357 original size:151 final size:151
Alignment explanation
Indices: 1171128--1171420 Score: 439
Period size: 151 Copynumber: 1.9 Consensus size: 151
1171118 ATTCAAGCTG
1171128 AACCACCAAATCCATAAACATGAAAAAGAAAATGAAATTTGCAGCTACAAAATTGAAATTCATTA
1 AACCACCAAATCCATAAACATGAAAAAGAAAATGAAATTTGCAGCTACAAAATTGAAATTCATTA
* * * * *
1171193 AAGAAATTCAAAGACCAGAATTAGCAATAAACTCAAAGGTCACAGAATTCTTCACCAAATTAC-A
66 AAGAAACTAAAAGACCAGAATCAGCAATAAACTAAAAGATCACAGAATTCTTCACCAAATTACTA
1171257 ATCCATTCAAGCTCAAGTGCTC
131 A-CCATTCAAGCTCAAGTGCTC
* * * *
1171279 AACCACCAAATCCATAAACATG-AAAAGATACTGAAATTTGCAGCTAC-GAATTGAACTTCATTA
1 AACCACCAAATCCATAAACATGAAAAAGAAAATGAAATTTGCAGCTACAAAATTGAAATTCATTA
* *
1171342 AAGACAAGCTAAAAGACCAGAATCAGCAATATACTAAAAGATTACAGAATTCTTCACCAAATTAC
66 AAGA-AA-CTAAAAGACCAGAATCAGCAATAAACTAAAAGATCACAGAATTCTTCACCAAATTAC
1171407 TAACCATTCAAGCT
129 TAACCATTCAAGCT
1171421 AAACCATCAA
Statistics
Matches: 128, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
149 18 0.14
150 25 0.20
151 83 0.65
152 2 0.02
ACGTcount: A:0.46, C:0.21, G:0.11, T:0.22
Consensus pattern (151 bp):
AACCACCAAATCCATAAACATGAAAAAGAAAATGAAATTTGCAGCTACAAAATTGAAATTCATTA
AAGAAACTAAAAGACCAGAATCAGCAATAAACTAAAAGATCACAGAATTCTTCACCAAATTACTA
ACCATTCAAGCTCAAGTGCTC
Found at i:1172042 original size:2 final size:2
Alignment explanation
Indices: 1172037--1172074 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1172027 AGCTATAATC
1172037 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1172075 AAAGAAAAGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:1179632 original size:20 final size:21
Alignment explanation
Indices: 1179607--1179699 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
1179597 TTTTCCCAAT
*
1179607 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
1179627 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
1179648 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
1179668 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
1179689 TCGCAATGCGA
1 TCGCAATGCGA
1179700 TACTTACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:1179652 original size:41 final size:41
Alignment explanation
Indices: 1179607--1179699 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
1179597 TTTTCCCAAT
1179607 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1179648 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1179689 TCGCAATGCGA
1 TCGCAATGCGA
1179700 TACTTACTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:1179712 original size:41 final size:41
Alignment explanation
Indices: 1179626--1179760 Score: 139
Period size: 41 Copynumber: 3.3 Consensus size: 41
1179616 GAATAAGTAA
** *
1179626 ATCGCAACGCGAATTGGGAAAATCGCAATGCGAATAAGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTTACT
1179667 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTTACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTTACT
* * ** * * *
1179708 ATCGCAATGCGATAAT-ACAAAATCGCAACGAGATACTGACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTTACT
*
1179749 TTCGCAACGCGA
1 ATCGCAACGCGA
1179761 TTCTGACTTT
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
40 5 0.06
41 73 0.91
42 2 0.03
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.19
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTTACT
Found at i:1179782 original size:20 final size:20
Alignment explanation
Indices: 1179730--1179782 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
1179720 TAATACAAAA
*
1179730 TCGCAACGAGATACTGACTT
1 TCGCAACGAGATTCTGACTT
*
1179750 TCGCAACGCGATTCTGACTT
1 TCGCAACGAGATTCTGACTT
*
1179770 TCGCAACGTGATT
1 TCGCAACGAGATT
1179783 TACATAGCGC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (20 bp):
TCGCAACGAGATTCTGACTT
Found at i:1180338 original size:19 final size:19
Alignment explanation
Indices: 1180300--1180366 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
1180290 TTCGAGAATG
1180300 AAAATCGCAACGCGGAAATA
1 AAAATCGCAACGC-GAAATA
**
1180320 ACTATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
**
1180339 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATA
1180358 AAAATCGCA
1 AAAATCGCA
1180367 TTGCGATTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
19 30 0.73
20 11 0.27
ACGTcount: A:0.48, C:0.25, G:0.16, T:0.10
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:1180410 original size:20 final size:19
Alignment explanation
Indices: 1180362--1180527 Score: 136
Period size: 20 Copynumber: 9.1 Consensus size: 19
1180352 GAAACCAAAA
*
1180362 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1180381 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1180400 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
*
1180420 TCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
1180436 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
1180453 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
1180467 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
* *
1180486 TCCGTGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
1180506 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
1180526 TC
1 TC
1180528 AACCAAAGAC
Statistics
Matches: 119, Mismatches: 15, Indels: 26
0.74 0.09 0.16
Matches are distributed among these distances:
14 20 0.17
15 1 0.01
16 3 0.03
17 3 0.03
18 1 0.01
19 42 0.35
20 48 0.40
21 1 0.01
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1180443 original size:39 final size:39
Alignment explanation
Indices: 1180367--1180443 Score: 120
Period size: 39 Copynumber: 2.0 Consensus size: 39
1180357 CAAAATCGCA
* *
1180367 TTGCGATTTTCATTTCGCGTTGCGATTTTCATTTCGCGG
1 TTGCGATTTTCATTTCGCGTTGCGATTGTCATGTCGCGG
1180406 TTGCGATTTTCATTTCGCGTTGCGATTGTC-TGGTCGCG
1 TTGCGATTTTCATTTCGCGTTGCGATTGTCAT-GTCGCG
1180444 ATAGTCATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
38 1 0.03
39 34 0.97
ACGTcount: A:0.09, C:0.21, G:0.26, T:0.44
Consensus pattern (39 bp):
TTGCGATTTTCATTTCGCGTTGCGATTGTCATGTCGCGG
Found at i:1180452 original size:33 final size:33
Alignment explanation
Indices: 1180415--1180502 Score: 131
Period size: 33 Copynumber: 2.6 Consensus size: 33
1180405 GTTGCGATTT
* *
1180415 TCATTTCGCGTTGCGATTGTCTGGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
*
1180448 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
*
1180481 TCATTTCCGTGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
1180503 ATTATCTCGT
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
33 36 0.72
34 14 0.28
ACGTcount: A:0.11, C:0.24, G:0.25, T:0.40
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
Found at i:1182413 original size:42 final size:42
Alignment explanation
Indices: 1182353--1182475 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
1182343 GCCCGACTCG
* * *
1182353 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * *
1182395 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * ** * *
1182437 ACTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CCTATCATCCCTCAAGA-GTCCACTCCCACCGTTCAAGAG
1182476 CCCGATTCAC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 62 0.94
43 4 0.06
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.23
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:1182433 original size:21 final size:21
Alignment explanation
Indices: 1182409--1182475 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
1182399 TCATTCCTCG
1182409 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
1182430 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
1182451 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
1182472 AGAG
1 AGAG
1182476 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:1183868 original size:14 final size:14
Alignment explanation
Indices: 1183833--1183869 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
1183823 GATTGTTTAA
*
1183833 TTGATTTATAAAAG
1 TTGATTTGTAAAAG
*
1183847 GTGATTTGTAAAAG
1 TTGATTTGTAAAAG
1183861 TTGATTTGT
1 TTGATTTGT
1183870 TTAATTGATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.22, T:0.46
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:1184038 original size:19 final size:19
Alignment explanation
Indices: 1183976--1184029 Score: 90
Period size: 20 Copynumber: 2.8 Consensus size: 19
1183966 AAAAAGTACT
*
1183976 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
1183995 ATCGCAACGCGAAAATGAAA
1 ATCGCAACGCG-AAATGAAA
1184015 ATCGCAACGCGAAAT
1 ATCGCAACGCGAAAT
1184030 TAAATTCGCG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
19 14 0.42
20 19 0.58
ACGTcount: A:0.46, C:0.20, G:0.20, T:0.13
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:1184056 original size:19 final size:19
Alignment explanation
Indices: 1184034--1184184 Score: 80
Period size: 19 Copynumber: 8.7 Consensus size: 19
1184024 CGAAATTAAA
1184034 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
1184053 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
1184068 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* *
1184086 TTCGCATTGCGA-----AA
1 TTCGCGTTGCGATTTTCAT
*
1184100 TTAGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
1184119 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
1184134 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* ** *
1184152 TTCGCATTGCGATAGTAAT
1 TTCGCGTTGCGATTTTCAT
1184171 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
1184185 GAACATTAAG
Statistics
Matches: 95, Mismatches: 21, Indels: 31
0.65 0.14 0.21
Matches are distributed among these distances:
14 28 0.29
16 6 0.06
17 6 0.06
19 45 0.47
20 10 0.11
ACGTcount: A:0.15, C:0.23, G:0.21, T:0.42
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:1184080 original size:33 final size:32
Alignment explanation
Indices: 1184038--1184164 Score: 193
Period size: 33 Copynumber: 3.9 Consensus size: 32
1184028 ATTAAATTCG
1184038 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
**
1184071 CGTTGCGATTTTCATTTCGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
1184104 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
1184137 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
1184165 AGTAATTTCC
Statistics
Matches: 86, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
31 3 0.03
33 80 0.93
35 3 0.03
ACGTcount: A:0.15, C:0.23, G:0.20, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:1184127 original size:66 final size:66
Alignment explanation
Indices: 1184031--1184163 Score: 248
Period size: 66 Copynumber: 2.0 Consensus size: 66
1184021 ACGCGAAATT
*
1184031 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1184096 G
66 G
*
1184097 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1184162 G
66 G
1184163 A
1 A
1184164 TAGTAATTTC
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.41
Consensus pattern (66 bp):
AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
G
Found at i:1186472 original size:12 final size:12
Alignment explanation
Indices: 1186455--1186479 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1186445 TCTTCGGGGA
1186455 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1186467 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1186479 C
1 C
1186480 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:1186693 original size:24 final size:24
Alignment explanation
Indices: 1186666--1186712 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
1186656 CAAAATCCGT
*
1186666 GTATTGACCAATATCAAAGTTCGG
1 GTATTGACCAAGATCAAAGTTCGG
*
1186690 GTATTGACCAAGATCAAATTTCG
1 GTATTGACCAAGATCAAAGTTCG
1186713 AATACTGACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (24 bp):
GTATTGACCAAGATCAAAGTTCGG
Found at i:1186721 original size:24 final size:24
Alignment explanation
Indices: 1186670--1186721 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
1186660 ATCCGTGTAT
* ** *
1186670 TGACCAATATCAAAGTTCGGGTAT
1 TGACCAAGATCAAAGTTCGAATAC
*
1186694 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTTCGAATAC
1186718 TGAC
1 TGAC
1186722 TAGTACTCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (24 bp):
TGACCAAGATCAAAGTTCGAATAC
Found at i:1187828 original size:14 final size:16
Alignment explanation
Indices: 1187808--1187881 Score: 66
Period size: 19 Copynumber: 4.5 Consensus size: 16
1187798 TGAAAATCGC
1187808 ATTGCGATTTTC-TCG
1 ATTGCGATTTTCTTCG
1187823 -TTGCGATTTTCATTTCG
1 ATTGCGATTTTC--TTCG
1187840 CATTGCGATTTTCATTTCG
1 -ATTGCGATTTTC--TTCG
1187859 CATTGCGATTTTC-TCG
1 -ATTGCGATTTTCTTCG
1187875 -TTGCGAT
1 ATTGCGAT
1187882 AACCATTTCG
Statistics
Matches: 54, Mismatches: 0, Indels: 11
0.83 0.00 0.17
Matches are distributed among these distances:
14 18 0.33
16 3 0.06
17 3 0.06
19 30 0.56
ACGTcount: A:0.14, C:0.20, G:0.19, T:0.47
Consensus pattern (16 bp):
ATTGCGATTTTCTTCG
Found at i:1187845 original size:19 final size:19
Alignment explanation
Indices: 1187804--1187871 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
1187794 GAAATGAAAA
1187804 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
1187820 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
1187837 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
1187856 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
1187872 TCGTTGCGAT
Statistics
Matches: 47, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
14 11 0.23
16 3 0.06
17 3 0.06
19 30 0.64
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:1189486 original size:41 final size:42
Alignment explanation
Indices: 1189435--1189515 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 42
1189425 TTCAACGATG
* *
1189435 ATAGTGGCCTCTTGAACG-GTGGGGGGGAATCTTGAGGGAGA
1 ATAGGGGCCTCTTGAACGAGTGGAGGGGAATCTTGAGGGAGA
* *
1189476 ATAGGGGCCTCTTGAACGATTGGAGGGGACTCTTGAGGGA
1 ATAGGGGCCTCTTGAACGAGTGGAGGGGAATCTTGAGGGA
1189516 TGACCGGTGA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
41 17 0.49
42 18 0.51
ACGTcount: A:0.22, C:0.14, G:0.42, T:0.22
Consensus pattern (42 bp):
ATAGGGGCCTCTTGAACGAGTGGAGGGGAATCTTGAGGGAGA
Found at i:1189919 original size:20 final size:19
Alignment explanation
Indices: 1189884--1189950 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
1189874 GAAACTTAAA
1189884 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
*
1189903 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
1189923 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
1189942 ATCGCAACG
1 ATCGCAACG
1189951 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 24 0.59
20 17 0.41
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:1189958 original size:14 final size:14
Alignment explanation
Indices: 1189939--1189996 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
1189929 ATGCGAAATG
1189939 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
1189953 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
1189969 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
1189985 AAAATCGCAACG
1 AAAATCGCAACG
1189997 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:1189981 original size:32 final size:33
Alignment explanation
Indices: 1189923--1190001 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
1189913 GGAAATGGCT
*
1189923 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
1189956 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
1189988 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
1190002 CACAAATCGC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 30 0.67
33 15 0.33
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:1190049 original size:14 final size:14
Alignment explanation
Indices: 1190030--1190087 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
1190020 TTTCATTTCG
1190030 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
1190044 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
1190060 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
1190076 CGTTGCGATTTT
1 CGTTGCGATTTT
1190088 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:1190094 original size:33 final size:33
Alignment explanation
Indices: 1190013--1190099 Score: 158
Period size: 32 Copynumber: 2.7 Consensus size: 33
1190003 ACAAATCGCA
*
1190013 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
1190046 TTGCGA-TTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
1190078 TTGCGATTTTCATTTCGCATTG
1 TTGCGATTTTCATTTCGCATTG
1190100 TGATAGCCAT
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
32 31 0.60
33 21 0.40
ACGTcount: A:0.11, C:0.18, G:0.22, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:1190130 original size:20 final size:19
Alignment explanation
Indices: 1190076--1190131 Score: 58
Period size: 20 Copynumber: 2.9 Consensus size: 19
1190066 GCGATTTTGT
**
1190076 CGTTGCGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
* * *
1190095 CATTGTGATAGCCATTTCCG
1 CGTTGCGATAGTCATTT-CG
1190115 CGTTGCGATAGTCATTT
1 CGTTGCGATAGTCATTT
1190132 TCGTATTGTA
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.16, C:0.21, G:0.21, T:0.41
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:1190649 original size:18 final size:18
Alignment explanation
Indices: 1190623--1190667 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
1190613 GTCGATCAGA
*
1190623 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
1190641 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
1190659 TGATGGCTC
1 TGATGGCTC
1190668 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:1192013 original size:20 final size:20
Alignment explanation
Indices: 1191988--1192025 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1191978 AATAGTTTCT
1191988 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
1192008 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
1192026 GAGAGAATCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:1192315 original size:22 final size:22
Alignment explanation
Indices: 1192289--1192332 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
1192279 AGATTAAATA
1192289 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
1192311 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
1192333 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:1192545 original size:20 final size:20
Alignment explanation
Indices: 1192520--1192613 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
1192510 GATTATGTAT
1192520 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
1192540 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
* *** * *
1192560 TATCTCGTTGCGATTTTTTAT
1 TATCGCGTTGCGA-AAGTCAG
* *
1192581 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
1192601 TATCGCATTGCGA
1 TATCGCGTTGCGA
1192614 TTTTCCCAAT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.78
21 13 0.22
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:1192614 original size:20 final size:20
Alignment explanation
Indices: 1192500--1192614 Score: 88
Period size: 20 Copynumber: 5.7 Consensus size: 20
1192490 CGCTTTGAAA
*
1192500 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* *
1192521 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * *
1192541 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTCAGT
* * ** * *
1192561 ATCTCGTTGCGATTTTTTATT
1 ATCGCATTGCGA-TAGTCAGT
1192582 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
1192602 ATCGCATTGCGAT
1 ATCGCATTGCGAT
1192615 TTTCCCAATT
Statistics
Matches: 76, Mismatches: 16, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
19 2 0.03
20 50 0.66
21 24 0.32
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.36
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:1192632 original size:21 final size:21
Alignment explanation
Indices: 1192603--1192695 Score: 100
Period size: 20 Copynumber: 4.5 Consensus size: 21
1192593 ATAGTCAGTA
1192603 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
1192624 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
1192644 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
1192665 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
1192685 TCGCATTGCGA
1 TCGCATTGCGA
1192696 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:1192633 original size:41 final size:41
Alignment explanation
Indices: 1192542--1192676 Score: 139
Period size: 41 Copynumber: 3.3 Consensus size: 41
1192532 AAAGTCAGTA
* * * ** *
1192542 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-TTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* *
1192582 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* **
1192624 TCGCGTTGCGAT-TTACTTATTCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
1192665 TCGCGTTGCGAT
1 TCGCGTTGCGAT
1192677 TTACTTATTC
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
40 3 0.04
41 74 0.94
42 2 0.03
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.39
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:1192677 original size:41 final size:41
Alignment explanation
Indices: 1192603--1192695 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
1192593 ATAGTCAGTA
1192603 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1192644 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1192685 TCGCATTGCGA
1 TCGCATTGCGA
1192696 ATTGGGAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:1203194 original size:34 final size:34
Alignment explanation
Indices: 1203151--1203221 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
1203141 ATTGTCTTGC
1203151 ACCTTAACTTAAGACCCTAAATCATATACCATAA
1 ACCTTAACTTAAGACCCTAAATCATATACCATAA
1203185 ACCTTAACTTAAGACCCTAAATCATATACCATAA
1 ACCTTAACTTAAGACCCTAAATCATATACCATAA
1203219 ACC
1 ACC
1203222 CTAGAGACTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.44, C:0.28, G:0.03, T:0.25
Consensus pattern (34 bp):
ACCTTAACTTAAGACCCTAAATCATATACCATAA
Found at i:1203633 original size:33 final size:33
Alignment explanation
Indices: 1203594--1203656 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
1203584 TTATTTTGAA
1203594 TTTTATAAAATTATTATAAAATAATTATTATTT
1 TTTTATAAAATTATTATAAAATAATTATTATTT
* *
1203627 TTTTATAAAATTATTGTAGAATAATTATTA
1 TTTTATAAAATTATTATAAAATAATTATTA
1203657 GATATATGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.52
Consensus pattern (33 bp):
TTTTATAAAATTATTATAAAATAATTATTATTT
Found at i:1209757 original size:22 final size:21
Alignment explanation
Indices: 1209732--1209796 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 21
1209722 AGAGAGTATG
*
1209732 GAGGCGAGAGTGAAGAAGATGA
1 GAGGAGAGAG-GAAGAAGATGA
* * *
1209754 GAGGGGCAGGGGAAGAAGACGA
1 GAGGAG-AGAGGAAGAAGATGA
*
1209776 GAGGAGAGAGGAAGGAGATGA
1 GAGGAGAGAGGAAGAAGATGA
1209797 AGGGGAAGGG
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
21 12 0.34
22 20 0.57
23 3 0.09
ACGTcount: A:0.40, C:0.05, G:0.51, T:0.05
Consensus pattern (21 bp):
GAGGAGAGAGGAAGAAGATGA
Found at i:1209801 original size:42 final size:44
Alignment explanation
Indices: 1209732--1209813 Score: 114
Period size: 42 Copynumber: 1.9 Consensus size: 44
1209722 AGAGAGTATG
* *
1209732 GAGGCGAGAGTGAAGAAGATGAGAGGGGCAGGGGAAGAAGACGA
1 GAGGAGAGAGTGAAGAAGATGAGAGGGGAAGGGGAAGAAGACGA
* *
1209776 GAGGAGAGAG-GAAGGAGATGA-AGGGGAAGGGGATGAAG
1 GAGGAGAGAGTGAAGAAGATGAGAGGGGAAGGGGAAGAAG
1209814 CGGGAGGCGA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 15 0.44
43 10 0.29
44 9 0.26
ACGTcount: A:0.39, C:0.04, G:0.52, T:0.05
Consensus pattern (44 bp):
GAGGAGAGAGTGAAGAAGATGAGAGGGGAAGGGGAAGAAGACGA
Found at i:1209805 original size:15 final size:16
Alignment explanation
Indices: 1209785--1209818 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
1209775 AGAGGAGAGA
1209785 GGAAGGAGATGAAG-G
1 GGAAGGAGATGAAGCG
*
1209800 GGAAGGGGATGAAGCG
1 GGAAGGAGATGAAGCG
1209816 GGA
1 GGA
1209819 GGCGAAGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.35, C:0.03, G:0.56, T:0.06
Consensus pattern (16 bp):
GGAAGGAGATGAAGCG
Found at i:1212999 original size:27 final size:27
Alignment explanation
Indices: 1212969--1213105 Score: 256
Period size: 27 Copynumber: 5.1 Consensus size: 27
1212959 GATGATTTAA
*
1212969 TCGTTGATCCAGTCGAAACACCGGAGG
1 TCGTTGATCCAGTCGAGACACCGGAGG
1212996 TCGTTGATCCAGTCGAGACACCGGAGG
1 TCGTTGATCCAGTCGAGACACCGGAGG
*
1213023 TCATTGATCCAGTCGAGACACCGGAGG
1 TCGTTGATCCAGTCGAGACACCGGAGG
1213050 TCGTTGATCCAGTCGAGACACCGGAGG
1 TCGTTGATCCAGTCGAGACACCGGAGG
1213077 TCGTTGATCCAGTCGAGACACCGGAGG
1 TCGTTGATCCAGTCGAGACACCGGAGG
1213104 TC
1 TC
1213106 ATCGATGACT
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 107 1.00
ACGTcount: A:0.23, C:0.26, G:0.31, T:0.19
Consensus pattern (27 bp):
TCGTTGATCCAGTCGAGACACCGGAGG
Found at i:1216181 original size:43 final size:43
Alignment explanation
Indices: 1216100--1216182 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
1216090 CCCTCCATGG
* * **
1216100 CTCTCAATCCAAACTAAAAGGGGCAAACCGTCGTCGACTACGA
1 CTCTCAATCCAAACTAAAAGAGGCAAACAGTCACCGACTACGA
*
1216143 CTCTCAATCCAAACTAAAAGAGGTAAACAGTCACCGACTA
1 CTCTCAATCCAAACTAAAAGAGGCAAACAGTCACCGACTA
1216183 ACATATTTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.39, C:0.29, G:0.16, T:0.17
Consensus pattern (43 bp):
CTCTCAATCCAAACTAAAAGAGGCAAACAGTCACCGACTACGA
Found at i:1231371 original size:17 final size:17
Alignment explanation
Indices: 1231349--1231381 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1231339 TATAGGGAGT
1231349 TGTTTTGTTGAGTCACA
1 TGTTTTGTTGAGTCACA
*
1231366 TGTTTTGTTGTGTCAC
1 TGTTTTGTTGAGTCAC
1231382 CCGACTATTA
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:0.12, C:0.12, G:0.24, T:0.52
Consensus pattern (17 bp):
TGTTTTGTTGAGTCACA
Found at i:1238941 original size:27 final size:27
Alignment explanation
Indices: 1238877--1238942 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 27
1238867 ATTTGAATTT
*
1238877 TTCA-AATTTT-AGAAATAAAAATATA
1 TTCATAATTTTAAAAAATAAAAATATA
* *
1238902 TTCTTAA-TATAAAAAATATAAAATATA
1 TTCATAATTTTAAAAAATA-AAAATATA
1238929 TT-ATAATTTTAAAA
1 TTCATAATTTTAAAA
1238943 TTTAAGAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
25 5 0.16
26 11 0.34
27 16 0.50
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (27 bp):
TTCATAATTTTAAAAAATAAAAATATA
Found at i:1241242 original size:20 final size:20
Alignment explanation
Indices: 1241210--1241256 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
1241200 TTATATACCA
1241210 GGTAAAAATATGATAAAACC
1 GGTAAAAATATGATAAAACC
1241230 GGTAACAAA-ATGATAAAACC
1 GGTAA-AAATATGATAAAACC
1241250 GGTAAAA
1 GGTAAAA
1241257 CGTTACCGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.55, C:0.11, G:0.17, T:0.17
Consensus pattern (20 bp):
GGTAAAAATATGATAAAACC
Found at i:1241344 original size:181 final size:182
Alignment explanation
Indices: 1240998--1241470 Score: 671
Period size: 181 Copynumber: 2.6 Consensus size: 182
1240988 GATCCAAATT
* * * * *
1240998 AAAAATGTGTCGATCCAAAACGATATAACAGGTAAAACTATAACAAAACCGGTATA-GAAATGAT
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTA-ACAAAATGAT
* * * * * *
1241062 AAAACCGGTCAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTT
65 AAAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTT
* * *
1241127 CGTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTA
130 CGTGAATTTAAAAGAGAAGCAGTTATAAAGCCTATAAAGTGTCGATACTTTAA
** *
1241180 AAAAATGTATCGATCCAAAATTATATACCAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
* *
1241245 AAACCGGTAAAACGTTACCGGATATATTAAAAGTGTCGATACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
** *
1241309 GTGAATTTAAAAGAGAAGCAGTTATAGCGCCTATAATGTGTCGATACTTTAA
131 GTGAATTTAAAAGAGAAGCAGTTATAAAGCCTATAAAGTGTCGATACTTTAA
* * * *
1241361 AAAAATATATCGATCTACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
* *
1241426 AAACCGGTAAAATGATACCGGATATATTGAAAGTGTCGATACTTT
66 AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTT
1241471 CGTAAGTATG
Statistics
Matches: 259, Mismatches: 31, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
181 165 0.64
182 94 0.36
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.27
Consensus pattern (182 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGCAGTTATAAAGCCTATAAAGTGTCGATACTTTAA
Found at i:1241414 original size:20 final size:19
Alignment explanation
Indices: 1241391--1241437 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
1241381 CGATATAACA
1241391 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
1241411 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
1241431 GGTAAAA
1 GGTAAAA
1241438 TGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:1241439 original size:17 final size:19
Alignment explanation
Indices: 1241400--1241442 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
1241390 AGGTAAAAAT
1241400 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
1241420 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
1241437 ATGATA
1 ATGATA
1241443 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:1243697 original size:21 final size:21
Alignment explanation
Indices: 1243670--1243734 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
1243660 AAGACAATCA
*
1243670 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
* * *
1243691 CGAGTCGTAGAGAAACTCGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
1243712 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
1243733 AG
1 AG
1243735 GCATAAGGGG
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.38, C:0.14, G:0.31, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:1243810 original size:33 final size:33
Alignment explanation
Indices: 1243768--1243833 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
1243758 AAATAGATGG
*
1243768 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
*
1243801 AGTGGTGAAAGAAGTTGAGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
1243834 TATTAAGATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.30, C:0.00, G:0.47, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:1245649 original size:19 final size:19
Alignment explanation
Indices: 1245625--1245673 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
1245615 AATGTAGGGT
1245625 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
1245644 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
1245663 TATTTTTGTAT
1 TAATTTTGTAT
1245674 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:1246307 original size:198 final size:198
Alignment explanation
Indices: 1245792--1247351 Score: 2785
Period size: 198 Copynumber: 7.9 Consensus size: 198
1245782 CAATATGGCC
* *
1245792 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCAATCCCAAAAACATCGAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCG-AA
* * *
1245857 ACCAAAAGTATAATGTAATATGTAATTTTTTAATCTAACCGGTACAAGTCTACCGGTTTTATGAG
64 CCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAG
1245922 AGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGA
129 AGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGAT-TTTTTTTTCCAGAATGA
1245987 ATGGAA
193 ATGGAA
* *
1245993 AACAGTGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AAC
*
1246058 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTCTACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
1246123 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATTTTTTTTTCCAGAATGAAT
130 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATTTTTTTTTCCAGAATGAAT
1246188 GGAA
195 GGAA
*
1246192 AACAGTGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
1246257 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTCTACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
1246322 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATTTTTTTTTCCAGAATGAATG
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATTTTTTTTTCCAGAATGAATG
1246387 GAA
196 GAA
1246390 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
* *
1246455 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTCTACCGGTTTTATGAAAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
1246520 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGAT-TTTTTTTTCCAGAATGAAT
1246585 GGAA
195 GGAA
1246589 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
1246654 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
* *
1246719 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATTTTTTTTTCCAGAATGAATG
1246784 GAA
196 GAA
*
1246787 AACATGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
* *
1246852 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGATTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
* * *
1246917 AATATATATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATTTTTTTTTCCAGAATGAATG
1246982 GAA
196 GAA
1246985 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
1247050 CAAAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
* *
1247114 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCATAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGAT-TTTTTTTTCCAGAATGAAT
1247179 GGAA
195 GGAA
1247183 AACAGGGTGCA-CCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1247246 CAAAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
1247310 AATATGTCTAAAT--TGTGTCGACACGT--TATAGTTTGTGTCGAT
131 AATATGTCTAAATAATGTGTCGACAC-TAATATAGTTTGTGTCGAT
1247352 ACTAATTTAA
Statistics
Matches: 1334, Mismatches: 22, Indels: 14
0.97 0.02 0.01
Matches are distributed among these distances:
193 16 0.01
194 11 0.01
195 1 0.00
196 104 0.08
197 107 0.08
198 645 0.48
199 278 0.21
200 138 0.10
201 34 0.03
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.31
Consensus pattern (198 bp):
AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATTTTTTTTTCCAGAATGAATG
GAA
Found at i:1246607 original size:397 final size:398
Alignment explanation
Indices: 1245792--1247352 Score: 2804
Period size: 397 Copynumber: 3.9 Consensus size: 398
1245782 CAATATGGCC
* *
1245792 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCAATCCCAAAAACATCGAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCG-AA
* * *
1245857 ACCAAAAGTATAATGTAATATGTAATTTTTTAATCTAACCGGTACAAGTCTACCGGTTTTATGAG
64 CCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAG
*
1245922 AGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGA
129 AGAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGA
*
1245987 ATGGAAAACAGTGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCAT
194 ATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCAT
* *
1246052 CGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTCTACCGGTTTT
259 CG-AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
1246117 ATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGAT-TTTTTTTTCCAG
323 ATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAG
1246181 AATGAATGGAA
388 AATGAATGGAA
*
1246192 AACAGTGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
1246257 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTCTACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
*
1246322 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGAT-TTTTTTTTCCAGAATGAAT
131 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
1246386 GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
196 GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
*
1246451 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTCTACCGGTTTTATG
261 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATG
*
1246516 AAAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAAT
326 AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAAT
1246581 GAATGGAA
391 GAATGGAA
1246589 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
1246654 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
1246719 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAAT
131 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
*
1246783 GGAAAACATGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
196 GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
* *
1246848 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGATTTTATG
261 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATG
* *
1246913 AGAGAATATATATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAAT
326 AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAAT
1246977 GAATGGAA
391 GAATGGAA
1246985 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
1247050 CAAAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
*
1247114 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCATAATGAAT
131 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
1247179 GGAAAACAGGGTGCA-CCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCG
196 GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
1247242 AACCCAAAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAAGTATACCGGTTTTATG
261 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATG
1247306 AGAGAATATGTCTAAAT--TGTGTCGACACGT--TATAGTTTGTGTCGATA
326 AGAGAATATGTCTAAATAATGTGTCGACAC-TAATATAGTTTGTGTCGATA
1247353 CTAATTTAAA
Statistics
Matches: 1132, Mismatches: 25, Indels: 18
0.96 0.02 0.02
Matches are distributed among these distances:
390 17 0.02
391 11 0.01
392 1 0.00
393 50 0.04
394 52 0.05
395 110 0.10
396 253 0.22
397 468 0.41
398 112 0.10
399 24 0.02
400 34 0.03
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.31
Consensus pattern (398 bp):
AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATG
AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAAT
GAATGGAA
Found at i:1246990 original size:595 final size:595
Alignment explanation
Indices: 1245792--1247352 Score: 2825
Period size: 595 Copynumber: 2.6 Consensus size: 595
1245782 CAATATGGCC
* *
1245792 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCAATCCCAAAAACATCGAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCG-AA
* *
1245857 ACCAAAAGTATAATGTAATATGTAATTTTTTAATCTAACCGGTACAAGTCTACCGGTTTTATGAG
64 CCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTCTACCGGTTTTATGAG
1245922 AGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGA
129 AGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGA
*
1245987 ATGGAAAACAGTGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCAT
194 ATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCAT
* *
1246052 CGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTCTACCGGTTTT
259 CG-AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
1246117 ATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATTTTTTTTTCCAGA
323 ATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGA
1246182 ATGAATGGAAAACAGTGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAA
388 ATGAATGGAAAACAGTGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAA
* *
1246247 TCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTCTACCGGT
453 TCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGAT
* * *
1246312 TTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATTTTTTTTTCC
518 TTTATGAGAGAATATATATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCC
1246377 AGAATGAATGGAA
583 AGAATGAATGGAA
1246390 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
1246455 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTCTACCGGTTTTATGAAAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTCTACCGGTTTTATGAGAG
1246520 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
1246585 GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
196 GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
*
1246650 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
261 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATG
*
1246715 AGAGAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATG
326 AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATG
1246780 AATGGAAAACA-TGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATC
391 AATGGAAAACAGT-GTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATC
*
1246844 ATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGATTT
455 ATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGATTT
1246909 TATGAGAGAATATATATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAG
520 TATGAGAGAATATATATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAG
1246974 AATGAATGGAA
585 AATGAATGGAA
1246985 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
* *
1247050 CAAAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTCTACCGGTTTTATGAGAG
* *
1247114 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCATAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
1247179 GGAAAACAGGGTGCA-CCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCG
196 GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
1247242 AACCCAAAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAAGTATACCGGTTTTATG
261 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATG
1247306 AGAGAATATGTCTAAAT--TGTGTCGACACGT--TATAGTTTGTGTCGATA
326 AGAGAATATGTCTAAATAATGTGTCGACAC-TAATATAGTTTGTGTCGATA
1247353 CTAATTTAAA
Statistics
Matches: 937, Mismatches: 24, Indels: 14
0.96 0.02 0.01
Matches are distributed among these distances:
588 17 0.02
589 11 0.01
590 1 0.00
591 52 0.06
592 52 0.06
593 23 0.02
594 117 0.12
595 410 0.44
596 195 0.21
597 24 0.03
598 35 0.04
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.31
Consensus pattern (595 bp):
AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTCTACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATG
AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATG
AATGGAAAACAGTGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCA
TCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGATTTT
ATGAGAGAATATATATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGA
ATGAATGGAA
Found at i:1248833 original size:3 final size:3
Alignment explanation
Indices: 1248825--1248892 Score: 64
Period size: 3 Copynumber: 22.7 Consensus size: 3
1248815 GAAGCTGACA
* * * ** * *
1248825 ATG ATG ATG ACG ATG AAG CTG GCG ATG AAG ATG ATG ACG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
*
1248873 ATG ATG ATG AAG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG AT
1248893 CCAAACAAGT
Statistics
Matches: 50, Mismatches: 15, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.35, C:0.06, G:0.34, T:0.25
Consensus pattern (3 bp):
ATG
Found at i:1248850 original size:12 final size:12
Alignment explanation
Indices: 1248812--1248854 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
1248802 GGTCGCAGAA
1248812 GATGAAGCTGAC
1 GATGAAGCTGAC
* * *
1248824 AATGATGATGAC
1 GATGAAGCTGAC
*
1248836 GATGAAGCTGGC
1 GATGAAGCTGAC
1248848 GATGAAG
1 GATGAAG
1248855 ATGATGACGA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.35, C:0.12, G:0.35, T:0.19
Consensus pattern (12 bp):
GATGAAGCTGAC
Found at i:1248852 original size:24 final size:25
Alignment explanation
Indices: 1248812--1248867 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 25
1248802 GGTCGCAGAA
1248812 GATGAAGCTGACAAT-GATGATGAC
1 GATGAAGCTGACAATAGATGATGAC
* *
1248836 GATGAAGCTGGCGATGAAGATGATGAC
1 GATGAAGCTGACAAT--AGATGATGAC
1248863 GATGA
1 GATGA
1248868 TGATGATGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 13 0.48
27 14 0.52
ACGTcount: A:0.36, C:0.11, G:0.34, T:0.20
Consensus pattern (25 bp):
GATGAAGCTGACAATAGATGATGAC
Found at i:1250702 original size:183 final size:182
Alignment explanation
Indices: 1250389--1250877 Score: 861
Period size: 183 Copynumber: 2.7 Consensus size: 182
1250379 GCAATGCTAT
*
1250389 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATCTT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
* *
1250454 GTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACATTGTTAAAAAGTGTCGACA
66 GTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACATT-TAAAAAAGTATCGACA
*
1250519 TTTACACACCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAAC
130 TTTACACACCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
1250572 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
1250637 GTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTATCGACA
66 GTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATAC-ATTTAAAAAAGTATCGACA
* *
1250702 TTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAAC
130 TTTACACACCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
* * *
1250755 CGGTATAAATATACCGATTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTATAATATT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
*
1250820 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGT
66 GTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATA-CATTTAAAAAAGT
1250878 GTCGTTAATT
Statistics
Matches: 294, Mismatches: 10, Indels: 4
0.95 0.03 0.01
Matches are distributed among these distances:
183 290 0.99
184 4 0.01
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.34
Consensus pattern (182 bp):
CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
GTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACATTTAAAAAAGTATCGACAT
TTACACACCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
Found at i:1253371 original size:25 final size:25
Alignment explanation
Indices: 1253343--1253407 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
1253333 TTATCATTAA
1253343 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
1253368 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
1253393 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
1253408 TCTTTTGAGT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:1253785 original size:23 final size:23
Alignment explanation
Indices: 1253754--1253826 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
1253744 ATAGGTAAAC
*
1253754 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1253777 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1253800 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
1253823 ATAT
1 ATAT
1253827 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1254275 original size:18 final size:18
Alignment explanation
Indices: 1254254--1254290 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1254244 GTAATTGGAG
1254254 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
1254272 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
1254290 T
1 T
1254291 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:1254298 original size:24 final size:24
Alignment explanation
Indices: 1254246--1254292 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
1254236 TTTCATATGT
* *
1254246 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
1254270 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
1254293 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Done.