Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002126.1 Hibiscus syriacus cultivar Beakdansim tig00004355_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: 1482737
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 8
Found at i:399079 original size:27 final size:27
Alignment explanation
Indices: 399041--399098 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
399031 TATTTTATAT
* *
399041 TTTTTTATATTAATTATATATATAATA
1 TTTTTTATATTAATTATATAAAAAATA
399068 TTTTTTATATTAATTATATAAAAAATA
1 TTTTTTATATTAATTATATAAAAAATA
399095 TTTT
1 TTTT
399099 CGGGTTCGGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (27 bp):
TTTTTTATATTAATTATATAAAAAATA
Found at i:401122 original size:36 final size:36
Alignment explanation
Indices: 401082--401153 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
401072 TACTGCTAAA
401082 GCAAGAATAACATTCAATGTAGAGAATTTAACTACT
1 GCAAGAATAACATTCAATGTAGAGAATTTAACTACT
401118 GCAAGAATAACATTCAATGTAGAGAATTTAACTACT
1 GCAAGAATAACATTCAATGTAGAGAATTTAACTACT
401154 AAACTAAAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (36 bp):
GCAAGAATAACATTCAATGTAGAGAATTTAACTACT
Found at i:410424 original size:18 final size:18
Alignment explanation
Indices: 410401--410444 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
410391 TAATTTTTGA
410401 TTTTCGGTAACTAAATTC
1 TTTTCGGTAACTAAATTC
* *
410419 TTTTCGGTACCTAATTTC
1 TTTTCGGTAACTAAATTC
410437 TTTTCGGT
1 TTTTCGGT
410445 CCATATTCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.18, C:0.18, G:0.14, T:0.50
Consensus pattern (18 bp):
TTTTCGGTAACTAAATTC
Found at i:412925 original size:18 final size:19
Alignment explanation
Indices: 412882--412926 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
412872 GAAACTCCAA
*
412882 CATTCTTTTTTTTCTCCGT
1 CATTCTTCTTTTTCTCCGT
*
412901 C-TCCTTCTTTTTCT-CGT
1 CATTCTTCTTTTTCTCCGT
412918 CATTCTTCT
1 CATTCTTCT
412927 CAAGGTCTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 4 0.18
18 17 0.77
19 1 0.05
ACGTcount: A:0.04, C:0.31, G:0.04, T:0.60
Consensus pattern (19 bp):
CATTCTTCTTTTTCTCCGT
Found at i:414496 original size:24 final size:24
Alignment explanation
Indices: 414440--414517 Score: 108
Period size: 24 Copynumber: 3.4 Consensus size: 24
414430 AAACAACACC
* **
414440 AGGGGTATCAGTACCT-TTGGGGT
1 AGGGGTATCAGTACCTCTTTGCAT
414463 A--GGTATCAGTACCTCTTTGCAT
1 AGGGGTATCAGTACCTCTTTGCAT
414485 AGGGGTATCAGTACCTCTTTGCAT
1 AGGGGTATCAGTACCTCTTTGCAT
414509 AGGGGTATC
1 AGGGGTATC
414518 GGTATCCTAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
21 13 0.27
22 5 0.10
23 1 0.02
24 30 0.61
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.32
Consensus pattern (24 bp):
AGGGGTATCAGTACCTCTTTGCAT
Found at i:415943 original size:33 final size:34
Alignment explanation
Indices: 415901--415964 Score: 112
Period size: 33 Copynumber: 1.9 Consensus size: 34
415891 ATTATTGCTT
*
415901 TATACATGGAATTTTGCAAATG-ATTCCAGTATC
1 TATACATGGAATTTGGCAAATGAATTCCAGTATC
415934 TATACATGGAATTTGGCAAATGAATTCCAGT
1 TATACATGGAATTTGGCAAATGAATTCCAGT
415965 TTCTTTTGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 21 0.72
34 8 0.28
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.34
Consensus pattern (34 bp):
TATACATGGAATTTGGCAAATGAATTCCAGTATC
Found at i:417897 original size:10 final size:10
Alignment explanation
Indices: 417876--417917 Score: 57
Period size: 10 Copynumber: 4.2 Consensus size: 10
417866 TTCATCACAC
*
417876 CAAATCCTCT
1 CAAATTCTCT
*
417886 CAACTTCTCT
1 CAAATTCTCT
*
417896 CAAATACTCT
1 CAAATTCTCT
417906 CAAATTCTCT
1 CAAATTCTCT
417916 CA
1 CA
417918 TAGCTCTTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.31, C:0.36, G:0.00, T:0.33
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:417905 original size:20 final size:20
Alignment explanation
Indices: 417876--417917 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
417866 TTCATCACAC
* *
417876 CAAATCCTCTCAACTTCTCT
1 CAAATACTCTCAAATTCTCT
417896 CAAATACTCTCAAATTCTCT
1 CAAATACTCTCAAATTCTCT
417916 CA
1 CA
417918 TAGCTCTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.31, C:0.36, G:0.00, T:0.33
Consensus pattern (20 bp):
CAAATACTCTCAAATTCTCT
Found at i:417954 original size:17 final size:18
Alignment explanation
Indices: 417932--417965 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
417922 TCTTTAAGGT
417932 ATATTTTATTA-TATTTA
1 ATATTTTATTAGTATTTA
*
417949 ATATTTTGTTAGTATTT
1 ATATTTTATTAGTATTT
417966 TATTTAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTTATTAGTATTTA
Found at i:428939 original size:26 final size:28
Alignment explanation
Indices: 428878--428940 Score: 76
Period size: 31 Copynumber: 2.2 Consensus size: 28
428868 CGAGTATTGC
*
428878 TGAGCTCGACTCGACTCGAAAATTCTGAAA
1 TGAGCTCGACTCGACTCGAAAACTCTG--A
428908 TAGAGCTCGACTCGACTCGAAAACTC-G-
1 T-GAGCTCGACTCGACTCGAAAACTCTGA
428935 TGAGCT
1 TGAGCT
428941 TAAAATTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
26 5 0.16
27 1 0.03
30 2 0.06
31 23 0.74
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.22
Consensus pattern (28 bp):
TGAGCTCGACTCGACTCGAAAACTCTGA
Found at i:434666 original size:15 final size:15
Alignment explanation
Indices: 434638--434711 Score: 59
Period size: 15 Copynumber: 5.2 Consensus size: 15
434628 TTATCGATGG
**
434638 ATTTTTATAAAAATA
1 ATTTTTATTTAAATA
434653 ATTTTTATTTAAAT-
1 ATTTTTATTTAAATA
* *
434667 A-TATTA-TT-GATGA
1 ATTTTTATTTAAAT-A
*
434680 ATTTTTATATAAATA
1 ATTTTTATTTAAATA
434695 ATTTTTATTTAAA-A
1 ATTTTTATTTAAATA
434709 ATT
1 ATT
434712 AGAATTTCAC
Statistics
Matches: 46, Mismatches: 8, Indels: 11
0.71 0.12 0.17
Matches are distributed among these distances:
11 2 0.04
12 2 0.04
13 5 0.11
14 9 0.20
15 26 0.57
16 2 0.04
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (15 bp):
ATTTTTATTTAAATA
Found at i:434684 original size:42 final size:43
Alignment explanation
Indices: 434620--434707 Score: 142
Period size: 42 Copynumber: 2.1 Consensus size: 43
434610 TTTAAATATA
*
434620 AAATAATATTATCGATGGATTTTTATAAAAATAATTTTTATTT
1 AAATAATATTATCGATGAATTTTTATAAAAATAATTTTTATTT
* *
434663 AAAT-ATATTATTGATGAATTTTTATATAAATAATTTTTATTT
1 AAATAATATTATCGATGAATTTTTATAAAAATAATTTTTATTT
434705 AAA
1 AAA
434708 AATTAGAATT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
42 38 0.90
43 4 0.10
ACGTcount: A:0.43, C:0.01, G:0.06, T:0.50
Consensus pattern (43 bp):
AAATAATATTATCGATGAATTTTTATAAAAATAATTTTTATTT
Found at i:435170 original size:63 final size:63
Alignment explanation
Indices: 435071--435196 Score: 216
Period size: 63 Copynumber: 2.0 Consensus size: 63
435061 TTTTGATTGG
* * *
435071 TAATGTTATATCATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATA
1 TAATGTAATAGCATTTAACCAGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATA
*
435134 TAATGTAATAGCATTTAACCAGAAATATTATCAAGTACAATAACATATTAGGTAGCTCTTATA
1 TAATGTAATAGCATTTAACCAGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATA
435197 ATGTATAGGT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
63 59 1.00
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.34
Consensus pattern (63 bp):
TAATGTAATAGCATTTAACCAGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATA
Found at i:438776 original size:21 final size:21
Alignment explanation
Indices: 438752--438795 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
438742 TGTTGTTCGT
* *
438752 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
438773 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
438794 TT
1 TT
438796 TCCCAGAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.25, G:0.27, T:0.32
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:441776 original size:22 final size:23
Alignment explanation
Indices: 441751--441794 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
441741 CACCACAGCT
*
441751 CGTATAATTGC-ACCGAAGTGCG
1 CGTAGAATTGCAACCGAAGTGCG
*
441773 CGTAGAATTGCAACCGTAGTGC
1 CGTAGAATTGCAACCGAAGTGC
441795 CATATAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (23 bp):
CGTAGAATTGCAACCGAAGTGCG
Found at i:442031 original size:148 final size:149
Alignment explanation
Indices: 441771--442223 Score: 806
Period size: 148 Copynumber: 3.1 Consensus size: 149
441761 CACCGAAGTG
** *
441771 CGCGTAGAATTGCAACCGTAGTGCCATATAAAAATGTCCATAAGGACCACATTTTATTCCTTAAG
1 CGCGTAGAATTGC-ACCGTAGTGCCATATAATGATGTCCATAAGGACCACATATTATTCCTTAAG
*
441836 AATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCACAGAAT
65 AATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAAT
*
441901 AT-CTATATAT-CCGAAGGAC
130 ATAC-ATATGTCCCGAAGGAC
441920 CGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATATTATTCCTTAAGA
1 CGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATATTATTCCTTAAGA
441985 ATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAG-ATA
66 ATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATA
442049 TACATATGTCCCGAAGGAC
131 TACATATGTCCCGAAGGAC
442068 CGCGTAGAATTGCA-CGTAGTGCCATATAATGATGTCCATAAGGACCACATATTATTCCTTAAGA
1 CGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATATTATTCCTTAAGA
*
442132 ATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACTTGTTCCAAAGAATA
66 ATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATA
442197 TACATATGTCCCGAAGGAC
131 TACATATGTCCCGAAGGAC
442216 CGCGTAGA
1 CGCGTAGA
442224 CCCTCAACTC
Statistics
Matches: 295, Mismatches: 6, Indels: 7
0.96 0.02 0.02
Matches are distributed among these distances:
147 119 0.40
148 163 0.55
149 13 0.04
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (149 bp):
CGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATATTATTCCTTAAGA
ATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATA
TACATATGTCCCGAAGGAC
Found at i:442342 original size:14 final size:14
Alignment explanation
Indices: 442323--442350 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
442313 AACTTGTAAT
442323 TCACGTATCACATA
1 TCACGTATCACATA
442337 TCACGTATCACATA
1 TCACGTATCACATA
442351 GCTTCTTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.29, G:0.07, T:0.29
Consensus pattern (14 bp):
TCACGTATCACATA
Found at i:443742 original size:21 final size:21
Alignment explanation
Indices: 443718--443762 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
443708 TGTTGTTCGT
* *
443718 TTGAAAGGGTATCGGTTCCCC
1 TTGAAAGGGTACCGATTCCCC
*
443739 TTGAATGGGTACCGATTCCCC
1 TTGAAAGGGTACCGATTCCCC
443760 TTG
1 TTG
443763 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.18, C:0.24, G:0.27, T:0.31
Consensus pattern (21 bp):
TTGAAAGGGTACCGATTCCCC
Found at i:445990 original size:201 final size:199
Alignment explanation
Indices: 445243--446362 Score: 1795
Period size: 201 Copynumber: 5.7 Consensus size: 199
445233 TATTTAAATT
* * * *
445243 AGTATCGAAAAAAATTAAAAAAGTGTCGATTCATGTTGTAGACCTATTCTCTCAT-AAACCGGTA
1 AGTATCGACACAAATTAAACAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGTA
* *
445307 TATTATA-CAGTT--ATTGTAAATTTACCTATTATATTATACTTATGGATGCATATG-TTCTGGG
66 TATTATACCGGTTACATTGTAAATTTACCTATTACATTATACTTATGGATGCATATGTTTCTGGG
* *
445368 ATCGACACTTTTT-AAAATGTATCGACACTTTATGCGTTCACCTTTTTTGGTATCCATT-TGGAC
131 ATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTCTGGAC
445431 CAAA
196 CAAA
* * * *
445435 CGTATCGACACAAATTAAACAAGTGTCGATACATATTGTAGATCTATTCTCTCATAAAATCGGTA
1 AGTATCGACACAAATTAAACAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGTA
445500 TATTATACCGGTTACATTGTAAATTTACCTATTACATTATACTTATGGATGCATATGTTTCTGGG
66 TATTATACCGGTTACATTGTAAATTTACCTATTACATTATACTTATGGATGCATATGTTTCTGGG
445565 ATCGACAC-TTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTCTGGAC
131 ATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTCTGGA-
445629 CCAAA
195 CCAAA
** *
445634 AGTATCGACACAAATTAAACAAGCATCGATACGTGTTGTAGACCTATTCTCTCATAAAACCGG--
1 AGTATCGACACAAATTAAACAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGTA
* *
445697 ---TATA-CGGATACATTGTAAATTTACCTATTACATTATACTTATTGATGCATATGTTTCTGGG
66 TATTATACCGGTTACATTGTAAATTTACCTATTACATTATACTTATGGATGCATATGTTTCTGGG
* * *
445758 ATCGACACTTTTTGAAAATATATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTGTGAAC
131 ATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTCTGGAC
445823 CAAA
196 CAAA
* * **
445827 AGTATCGACACAAAATTAAACAAGTATCGATATATGTTGTAGACCTATTCTCTCATAAAATTGGT
1 AGTATCGACAC-AAATTAAACAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGT
* *
445892 ATATTTATACCTGTTACATTGTAAATTTACCTATTACATTATACTTATTGATGCATATGTTTCTG
65 ATA-TTATACCGGTTACATTGTAAATTTACCTATTACATTATACTTATGGATGCATATGTTTCTG
*
445957 GGATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTGTGG
129 GGATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTCTGG
446022 ACCAAA
194 ACCAAA
446028 AGTATCGACACAAAATTAAACAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGT
1 AGTATCGACAC-AAATTAAACAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGT
*
446093 ATATTTATACCGGCTACATTGTAAATTTACCTATTACATTATACTTATGGATGCATATGTTTCTG
65 ATA-TTATACCGGTTACATTGTAAATTTACCTATTACATTATACTTATGGATGCATATGTTTCTG
*
446158 GGATCGACACTTTTTGAAAATGTATCGACACTTTATCCGTTCACCCTTTTTGGCATCCATTCTGG
129 GGATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTCTGG
446223 ACC-AA
194 ACCAAA
*
446228 AGTATCGACACAAATTAAACAAGTGTCGATACATGTTGTAGACCTATTCTCTCAT-AAACCGTTA
1 AGTATCGACACAAATTAAACAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGTA
*
446292 TATTTATACCGGTTACATTGTAAATTTGCCTATTACATTATACTTATGGATGCATATGTTTCTGG
66 TA-TTATACCGGTTACATTGTAAATTTACCTATTACATTATACTTATGGATGCATATGTTTCTGG
446357 GATCGA
130 GATCGA
446363 TAAATTTTAC
Statistics
Matches: 866, Mismatches: 45, Indels: 28
0.92 0.05 0.03
Matches are distributed among these distances:
192 48 0.06
193 94 0.11
194 107 0.12
196 45 0.05
197 58 0.07
198 81 0.09
199 105 0.12
200 17 0.02
201 311 0.36
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (199 bp):
AGTATCGACACAAATTAAACAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGTA
TATTATACCGGTTACATTGTAAATTTACCTATTACATTATACTTATGGATGCATATGTTTCTGGG
ATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTCTGGAC
CAAA
Found at i:447238 original size:4 final size:4
Alignment explanation
Indices: 447229--447253 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
447219 AATGTCCTTT
447229 CATA CATA CATA CATA CATA CATA C
1 CATA CATA CATA CATA CATA CATA C
447254 CAATCTCTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.28, G:0.00, T:0.24
Consensus pattern (4 bp):
CATA
Found at i:448480 original size:33 final size:33
Alignment explanation
Indices: 448443--448508 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
448433 CATCTTAAGA
*
448443 TCACCCCTTAACACCTCAACTTCTTTCACCACT
1 TCACCCCTCAACACCTCAACTTCTTTCACCACT
*
448476 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCTCAACTTCTTTCACCACT
448509 CCATCTATTT
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:0.23, C:0.47, G:0.00, T:0.30
Consensus pattern (33 bp):
TCACCCCTCAACACCTCAACTTCTTTCACCACT
Found at i:448567 original size:21 final size:21
Alignment explanation
Indices: 448542--448606 Score: 94
Period size: 21 Copynumber: 3.1 Consensus size: 21
448532 CCCCTTATGC
*
448542 CTCTCAAGTGTATCTTCAACT
1 CTCTCAAGTTTATCTTCAACT
*
448563 CTCTCAAGTTTTTCTTCAACT
1 CTCTCAAGTTTATCTTCAACT
* *
448584 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTATCTTCAACT
448605 CT
1 CT
448607 TGATTGTCTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.18, C:0.31, G:0.08, T:0.43
Consensus pattern (21 bp):
CTCTCAAGTTTATCTTCAACT
Found at i:452434 original size:3 final size:3
Alignment explanation
Indices: 452428--452472 Score: 65
Period size: 3 Copynumber: 15.3 Consensus size: 3
452418 AATTTTTTTC
* *
452428 ATT ATT ATT ATT ATT ATT ATA AGT ATT ATT ATT ATT A-T ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
452473 ATAATAAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:453598 original size:21 final size:21
Alignment explanation
Indices: 453572--453616 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
453562 GATTTCTGGG
* *
453572 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
453593 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
453614 CAA
1 CAA
453617 ACGACAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:454224 original size:18 final size:18
Alignment explanation
Indices: 454201--454235 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
454191 CTAGGAGATT
454201 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
454219 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
454236 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:455398 original size:149 final size:149
Alignment explanation
Indices: 455215--455666 Score: 852
Period size: 149 Copynumber: 3.0 Consensus size: 149
455205 GAGTCGAGGG
* *
455215 TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
1 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
455280 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTA
455345 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
*
455364 TCTACGCGGTTCTTTGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
1 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
455429 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTA
455494 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
455513 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
1 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
* *
455578 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCC-TATGGACATCATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTA
455642 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
455661 TCTACG
1 TCTACG
455667 GGGCACTTCG
Statistics
Matches: 297, Mismatches: 6, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
148 38 0.13
149 259 0.87
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (149 bp):
TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTA
TATGGCACTACGGTGCAAT
Found at i:455689 original size:23 final size:23
Alignment explanation
Indices: 455645--455689 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
455635 ATCATTATAT
*
455645 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
455668 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
455690 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:459452 original size:18 final size:18
Alignment explanation
Indices: 459429--459463 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
459419 CTAGGAGATT
459429 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
459447 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
459464 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:459549 original size:21 final size:22
Alignment explanation
Indices: 459520--459563 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
459510 GTTGTATGAT
459520 AGAAAATTAT-GAAGTTATATG
1 AGAAAATTATAGAAGTTATATG
* *
459541 AGAAGATTATAGGAGTTATATG
1 AGAAAATTATAGAAGTTATATG
459563 A
1 A
459564 AATTGAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.45, C:0.00, G:0.23, T:0.32
Consensus pattern (22 bp):
AGAAAATTATAGAAGTTATATG
Found at i:460857 original size:148 final size:149
Alignment explanation
Indices: 460448--460898 Score: 859
Period size: 149 Copynumber: 3.0 Consensus size: 149
460438 GAGTCGAGGG
* *
460448 TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
1 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
460513 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTA
460578 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
460597 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
1 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
460662 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTA
460727 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
460746 TCTACGC-GTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
1 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
* *
460810 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTA
460875 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
460894 TCTAC
1 TCTAC
460899 AGGGCACTTC
Statistics
Matches: 298, Mismatches: 4, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
148 144 0.48
149 154 0.52
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.35
Consensus pattern (149 bp):
TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTA
TATGGCACTACGGTGCAAT
Found at i:464038 original size:23 final size:22
Alignment explanation
Indices: 463994--464038 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
463984 GAATGTCATG
*
463994 GGGAACCGATACCCCCATAGGA
1 GGGAACCGATACCCCCAAAGGA
*
464016 GGGAACCGATTCCCCCTAAAGGA
1 GGGAACCGATACCCCC-AAAGGA
464039 AAATTGTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.31, C:0.31, G:0.27, T:0.11
Consensus pattern (22 bp):
GGGAACCGATACCCCCAAAGGA
Found at i:465440 original size:23 final size:23
Alignment explanation
Indices: 465372--465432 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
465362 CATTATTATA
*
465372 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTATG
*
465395 CGGCACTACGGTGCAATTCTATG
1 TGGCACTACGGTGCAATTCTATG
*
465418 TGGCACTTCGGTGCA
1 TGGCACTACGGTGCA
465433 TTTATATGAG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.20, C:0.26, G:0.28, T:0.26
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTATG
Found at i:469173 original size:21 final size:21
Alignment explanation
Indices: 469147--469189 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
469137 TTATAGGCTC
* *
469147 GGGGAATTGGTACCCATTCAA
1 GGGGAATCGATACCCATTCAA
*
469168 GGGGAATCGATACCCCTTCAA
1 GGGGAATCGATACCCATTCAA
469189 G
1 G
469190 CGAATAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.21
Consensus pattern (21 bp):
GGGGAATCGATACCCATTCAA
Found at i:469260 original size:23 final size:22
Alignment explanation
Indices: 469216--469260 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
469206 AATGTCATGG
*
469216 GGGAACCGATACCCCCACAGGA
1 GGGAACCGATACCCCCAAAGGA
*
469238 GGGAACCGATTCCCCCTAAAGGA
1 GGGAACCGATACCCCC-AAAGGA
469261 AAATTGTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.31, C:0.33, G:0.27, T:0.09
Consensus pattern (22 bp):
GGGAACCGATACCCCCAAAGGA
Found at i:470591 original size:18 final size:18
Alignment explanation
Indices: 470568--470603 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
470558 AAGAATGATA
*
470568 TGTGGTCCTTCGGGACAT
1 TGTGGTCCTTCAGGACAT
470586 TGTGGTCCTTCAGGACAT
1 TGTGGTCCTTCAGGACAT
470604 ATATGTATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.22, G:0.31, T:0.33
Consensus pattern (18 bp):
TGTGGTCCTTCAGGACAT
Found at i:470679 original size:121 final size:121
Alignment explanation
Indices: 470465--470828 Score: 622
Period size: 121 Copynumber: 3.0 Consensus size: 121
470455 CGAGGGTCTA
* *
470465 TGTGGTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACGCATACTT
1 TGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACGCATACTT
** * * *
470530 GATCCCTAGCATATGTATAAAAATCTTAAAGAATGATATGTGGTCCTTCGGGACAT
66 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCAGGACAT
*
470586 TGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
1 TGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACGCATACTT
*
470651 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCAGGATAT
66 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCAGGACAT
470707 TGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACGCATACTT
1 TGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACGCATACTT
*
470772 GATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTT-ATGGACAT
66 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCA-GGACAT
470828 T
1 T
470829 ATTATATGGC
Statistics
Matches: 230, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
120 1 0.00
121 229 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (121 bp):
TGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACGCATACTT
GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCAGGACAT
Found at i:470712 original size:18 final size:17
Alignment explanation
Indices: 470685--470721 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 17
470675 CTTAAGGAAT
470685 GATATGTGGTCCTTCAG
1 GATATGTGGTCCTTCAG
470702 GATATTGTGGTCCTTCAG
1 GATA-TGTGGTCCTTCAG
470720 GA
1 GA
470722 CATATATGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.19, C:0.16, G:0.30, T:0.35
Consensus pattern (17 bp):
GATATGTGGTCCTTCAG
Found at i:475557 original size:20 final size:20
Alignment explanation
Indices: 475534--475577 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
475524 ACATTTGTTT
*
475534 TTTTTATGTTTGCATTTGCA
1 TTTTTATATTTGCATTTGCA
* *
475554 TTTTTATATTTTCATTTTCA
1 TTTTTATATTTGCATTTGCA
475574 TTTT
1 TTTT
475578 CATTTTATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.16, C:0.09, G:0.07, T:0.68
Consensus pattern (20 bp):
TTTTTATATTTGCATTTGCA
Found at i:480605 original size:52 final size:54
Alignment explanation
Indices: 480543--480702 Score: 200
Period size: 54 Copynumber: 3.0 Consensus size: 54
480533 TTGACCAGAA
480543 ATCTGTGCAGAAACCACAGAAAAGGATGAATGT-TTGTCAAATG-TTTACGAAC
1 ATCTGTGCAGAAACCACAGAAAAGGATGAATGTATTGTCAAATGTTTTACGAAC
* * * *
480595 ATCTGTGCAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACAAAC
1 ATCTGTGCAGAAACCACAGAAAAGGATGAATGTATTGTCAAATGTTTTACGAAC
* * * ** *
480649 ATTTGTACAGAAACCACA-AGAAATGATGAGCGTATTGTCCAATGTTTTACGAAC
1 ATCTGTGCAGAAACCACAGA-AAAGGATGAATGTATTGTCAAATGTTTTACGAAC
480703 CAGTTATTAT
Statistics
Matches: 92, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
52 31 0.34
53 10 0.11
54 51 0.55
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (54 bp):
ATCTGTGCAGAAACCACAGAAAAGGATGAATGTATTGTCAAATGTTTTACGAAC
Found at i:481119 original size:21 final size:20
Alignment explanation
Indices: 481067--481120 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
481057 ATATCTACAT
*
481067 TCTTCAAAGATGATAGATTC
1 TCTTCAAAGATGATAGAGTC
481087 TCTTCAAAGATGATAGAGTC
1 TCTTCAAAGATGATAGAGTC
*
481107 TCTTTCCAAGATGA
1 TC-TTCAAAGATGA
481121 AAGCTTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 21 0.68
21 10 0.32
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (20 bp):
TCTTCAAAGATGATAGAGTC
Found at i:481845 original size:25 final size:25
Alignment explanation
Indices: 481814--481890 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
481804 ATCTGTAAGC
481814 CCTTCAGTGCATGATGTTTTCAAAG
1 CCTTCAGTGCATGATGTTTTCAAAG
*
481839 CCTTCAG-GTCAT-CTG---T--AAG
1 CCTTCAGTG-CATGATGTTTTCAAAG
*
481858 CCCTTTAGTGCATGATGTTTTCAAAG
1 -CCTTCAGTGCATGATGTTTTCAAAG
481884 CCTTCAG
1 CCTTCAG
481891 GTCATCTGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 18
0.64 0.07 0.30
Matches are distributed among these distances:
19 3 0.08
20 9 0.23
21 4 0.10
24 4 0.10
25 16 0.41
26 3 0.08
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.35
Consensus pattern (25 bp):
CCTTCAGTGCATGATGTTTTCAAAG
Found at i:482155 original size:45 final size:45
Alignment explanation
Indices: 481803--482165 Score: 474
Period size: 45 Copynumber: 8.0 Consensus size: 45
481793 CTATTTCCCA
* *
481803 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCAGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* * *
481848 CATCTGTAAGCCCTTTAGTGCATGATGTTTTCAAAGCCTTCAGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* * *
481893 CATCTGTAAGCCCTTTAGTGCATGACGTTTTCAAAGCCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*
481938 CATATGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* * *
481983 CATCTGTAAGTCCTACAGTGCATGATGTTTTCAAAACCATCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
** * *
482028 CATCCATAAGCCCTTCAATGCATGATGTTTTCAAAAAGCCTTCAGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTC-AAAA-CCTTCGGGT
* * *
482075 CATCTGTAAGTCATACAGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
** * * *
482120 CATCCATAAGACCTACAGTGCAAGATGTTTTCAAAAAACCTTCGGG
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTC--AAAACCTTCGGG
482166 AGCTTTTTGA
Statistics
Matches: 284, Mismatches: 30, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
45 231 0.81
46 8 0.03
47 45 0.16
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (45 bp):
CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
Found at i:482223 original size:76 final size:74
Alignment explanation
Indices: 482097--482239 Score: 196
Period size: 76 Copynumber: 1.9 Consensus size: 74
482087 ATACAGTGCA
*
482097 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAAGATGTTTTCAAAAAACCTT
1 TGATGTTTTCAAAACCTTCGAGTCATCCATAAGACCTACAGTGCAAGATGTTTTC--AAAACCTT
482162 CGGGAGCTTTT
64 CGGGAGCTTTT
* ** * * * *
482173 TGATGTTTTTAAAACCTTCGAGTCATCTGTACGCCCTTCAGTGCATGATGTTTTCAAAACCTTCG
1 TGATGTTTTCAAAACCTTCGAGTCATCCATAAGACCTACAGTGCAAGATGTTTTCAAAACCTTCG
482238 GG
66 GG
482240 TCATCTGTAA
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
74 12 0.20
76 47 0.80
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.34
Consensus pattern (74 bp):
TGATGTTTTCAAAACCTTCGAGTCATCCATAAGACCTACAGTGCAAGATGTTTTCAAAACCTTCG
GGAGCTTTT
Found at i:482226 original size:45 final size:44
Alignment explanation
Indices: 482173--482322 Score: 201
Period size: 45 Copynumber: 3.3 Consensus size: 44
482163 GGGAGCTTTT
* *
482173 TGATGTTTTTAAAACCTTCGAGTCATCTGTACGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCG-GTCATCTGTAAGCCCTTCAGTGCA
482218 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTC-GGTCATCTGTAAGCCCTTCAGTGCA
** * *
482263 TGATGTGTTTCAAAACCTTCTGGTCATCCATAAGACCTACAGTGCA
1 TGATGT-TTTCAAAACCTTC-GGTCATCTGTAAGCCCTTCAGTGCA
*
482309 AGATGTTTTCAAAA
1 TGATGTTTTCAAAA
482323 AGCCTTCGTC
Statistics
Matches: 95, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
45 55 0.58
46 40 0.42
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (44 bp):
TGATGTTTTCAAAACCTTCGGTCATCTGTAAGCCCTTCAGTGCA
Found at i:482305 original size:167 final size:168
Alignment explanation
Indices: 482005--482330 Score: 512
Period size: 167 Copynumber: 1.9 Consensus size: 168
481995 CTACAGTGCA
*
482005 TGATGTTTTCAAAACCATCGGGTCATCCATAAGCCCTTCAATGCATGATGTTTTCAAAAAGCCTT
1 TGATGTTTTCAAAACCATCGAGTCATCCATAAGCCCTTCAATGCATGATGTTTTCAAAAAGCCTT
*
482070 CAGGTCATCTGTAAGTCATACAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTA
66 CAGGTCATCTGTAAGCCATACAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTA
482135 CAGTGCAAGATGTTTTCAAAAAACCTTCGGGAGCTTTT
131 CAGTGCAAGATGTTTTCAAAAAACCTTCGGGAGCTTTT
* * ** * *
482173 TGATGTTTTTAAAACCTTCGAGTCATCTGTACGCCCTTCAGTGCATGATGTTTTC-AAAA-CCTT
1 TGATGTTTTCAAAACCATCGAGTCATCCATAAGCCCTTCAATGCATGATGTTTTCAAAAAGCCTT
* * * *
482236 CGGGTCATCTGTAAGCCCTTCAGTGCATGATGTGTTTCAAAACCTTCTGGTCATCCATAAGACCT
66 CAGGTCATCTGTAAGCCATACAGTGCATGATGT-TTTCAAAACCTTCGGGTCATCCATAAGACCT
*
482301 ACAGTGCAAGATGTTTTCAAAAAGCCTTCG
130 ACAGTGCAAGATGTTTTCAAAAAACCTTCG
482331 TCTTTGCTCT
Statistics
Matches: 144, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
166 33 0.23
167 63 0.44
168 48 0.33
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (168 bp):
TGATGTTTTCAAAACCATCGAGTCATCCATAAGCCCTTCAATGCATGATGTTTTCAAAAAGCCTT
CAGGTCATCTGTAAGCCATACAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTA
CAGTGCAAGATGTTTTCAAAAAACCTTCGGGAGCTTTT
Found at i:482405 original size:3 final size:3
Alignment explanation
Indices: 482397--482452 Score: 80
Period size: 3 Copynumber: 19.3 Consensus size: 3
482387 TAATTTTTCC
* *
482397 ATT ATT ATT ATT ATT ATT ATA AGT ATT ATT ATT ATT A-T ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
482444 A-T ATT ATT A
1 ATT ATT ATT A
482453 ATAAATAATT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
2 4 0.09
3 43 0.91
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:491208 original size:2 final size:2
Alignment explanation
Indices: 491201--491243 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
491191 AGTTCACCAT
491201 TA TA TA 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
491243 T
1 T
491244 CTTCAAACTC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:491336 original size:34 final size:34
Alignment explanation
Indices: 491280--491384 Score: 138
Period size: 34 Copynumber: 3.1 Consensus size: 34
491270 TTGGCACAGA
* * * *
491280 AGTGTTTGGATGCACCAATGTCCACTACCCTCTC
1 AGTGTTTGGAAGCGCCAGTGTCCACTACCCACTC
* * * *
491314 AGTGTTTTGAAGGGCTAGTGTCCACTACCCACTT
1 AGTGTTTGGAAGCGCCAGTGTCCACTACCCACTC
491348 AGTGTTTGGAAGCGCCAGTGTCCACTACCCACTC
1 AGTGTTTGGAAGCGCCAGTGTCCACTACCCACTC
491382 AGT
1 AGT
491385 ATGCTTTGTG
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 59 1.00
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.29
Consensus pattern (34 bp):
AGTGTTTGGAAGCGCCAGTGTCCACTACCCACTC
Found at i:493399 original size:18 final size:18
Alignment explanation
Indices: 493367--493434 Score: 129
Period size: 18 Copynumber: 3.8 Consensus size: 18
493357 GCGTAGAATT
493367 TGTCCCGAA-GACCACTG
1 TGTCCCGAAGGACCACTG
493384 TGTCCCGAAGGACCACTG
1 TGTCCCGAAGGACCACTG
493402 TGTCCCGAAGGACCACTG
1 TGTCCCGAAGGACCACTG
493420 TGTCCCGAAGGACCA
1 TGTCCCGAAGGACCA
493435 TTGATAATCT
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
17 9 0.18
18 41 0.82
ACGTcount: A:0.24, C:0.34, G:0.26, T:0.16
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTG
Found at i:497356 original size:18 final size:18
Alignment explanation
Indices: 497333--497457 Score: 187
Period size: 18 Copynumber: 6.9 Consensus size: 18
497323 GCGTAGAACT
*
497333 TGTCCCGTAGGACCACTA
1 TGTCCCGAAGGACCACTA
* *
497351 TGTCCCGAAAGACCACTG
1 TGTCCCGAAGGACCACTA
* * *
497369 TATCCCGAATGACCACTG
1 TGTCCCGAAGGACCACTA
497387 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
497405 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
*
497423 TGTCCTGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
497441 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
497458 GATAAACCTT
Statistics
Matches: 97, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 97 1.00
ACGTcount: A:0.26, C:0.33, G:0.22, T:0.19
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:501472 original size:18 final size:18
Alignment explanation
Indices: 501443--501550 Score: 135
Period size: 18 Copynumber: 6.0 Consensus size: 18
501433 GCGTAAAACT
* *
501443 TGTCCCGTAGGACCACTA
1 TGTCCCGAAGGACCACTG
*
501461 TATCCCGAAGGACCACTG
1 TGTCCCGAAGGACCACTG
* *
501479 TATCCCGAATGACCACTG
1 TGTCCCGAAGGACCACTG
*
501497 TGTCCCGAAAGACCACTG
1 TGTCCCGAAGGACCACTG
*
501515 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTG
* *
501533 TGTACCAAAGGACCACTG
1 TGTCCCGAAGGACCACTG
501551 ATAATCCTTC
Statistics
Matches: 79, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 79 1.00
ACGTcount: A:0.28, C:0.32, G:0.21, T:0.19
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTG
Found at i:505628 original size:18 final size:18
Alignment explanation
Indices: 505607--505687 Score: 135
Period size: 18 Copynumber: 4.5 Consensus size: 18
505597 TTTGTCTCGT
*
505607 AGGACCATTATGTCCCGA
1 AGGACCACTATGTCCCGA
*
505625 AGGACCACTATGTTCCGA
1 AGGACCACTATGTCCCGA
505643 AGGACCACTATGTCCCGA
1 AGGACCACTATGTCCCGA
*
505661 AGAACCACTATGTCCCGA
1 AGGACCACTATGTCCCGA
505679 AGGACCACT
1 AGGACCACT
505688 GATAATCCCT
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 58 1.00
ACGTcount: A:0.30, C:0.31, G:0.21, T:0.19
Consensus pattern (18 bp):
AGGACCACTATGTCCCGA
Found at i:506339 original size:14 final size:14
Alignment explanation
Indices: 506317--506350 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
506307 CTTTCGATCG
*
506317 ATGTCTACACAATC
1 ATGTATACACAATC
506331 ATGTATACACAATC
1 ATGTATACACAATC
506345 ATGTAT
1 ATGTAT
506351 TTATATTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (14 bp):
ATGTATACACAATC
Found at i:510762 original size:19 final size:19
Alignment explanation
Indices: 510740--510795 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
510730 ATAAACTTAT
510740 TTATTTAAGTTTTCTAATA
1 TTATTTAAGTTTTCTAATA
510759 TTA-TT---TTTT-T-AT-
1 TTATTTAAGTTTTCTAATA
510771 TTATTTAAGTTTTCTAATA
1 TTATTTAAGTTTTCTAATA
510790 TTATTT
1 TTATTT
510796 TATTTATTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 14
0.68 0.00 0.32
Matches are distributed among these distances:
12 3 0.10
13 4 0.13
14 1 0.03
15 4 0.13
16 4 0.13
17 1 0.03
18 4 0.13
19 9 0.30
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.66
Consensus pattern (19 bp):
TTATTTAAGTTTTCTAATA
Found at i:510765 original size:59 final size:58
Alignment explanation
Indices: 510702--510828 Score: 132
Period size: 59 Copynumber: 2.1 Consensus size: 58
510692 ATATAAATAA
* *
510702 ATTTTATTATTCATTGTATTA-ATTTGTAATA-AACTTATTTATTTAAGTTTTCTAATATT
1 ATTTTATTATTCATT-TA--AGATTTCTAATATAACTTATTTATTTAAGTTATCTAATATT
* * * **
510761 ATTTTTTTATTTATTTAAGTTTTCTAATATTATTTTATTTATTTAAGTTATCTAATATT
1 ATTTTATTATTCATTTAAGATTTCTAATA-TAACTTATTTATTTAAGTTATCTAATATT
510820 ATTATTATT
1 ATT-TTATT
510829 TATTTTTAAT
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
56 1 0.02
57 8 0.14
58 2 0.04
59 41 0.73
60 4 0.07
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (58 bp):
ATTTTATTATTCATTTAAGATTTCTAATATAACTTATTTATTTAAGTTATCTAATATT
Found at i:510837 original size:31 final size:28
Alignment explanation
Indices: 510736--510833 Score: 151
Period size: 28 Copynumber: 3.4 Consensus size: 28
510726 TGTAATAAAC
510736 TTATTTATTTAAGTTTTCTAATATTATTTTT
1 TTATTTATTTAAGTTTTCTAATATTA---TT
510767 TTATTTATTTAAGTTTTCTAATATTATT
1 TTATTTATTTAAGTTTTCTAATATTATT
*
510795 TTATTTATTTAAGTTATCTAATATTATT
1 TTATTTATTTAAGTTTTCTAATATTATT
510823 ATTATTTATTT
1 -TTATTTATTT
510834 TTAATTGTTT
Statistics
Matches: 65, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
28 29 0.45
29 10 0.15
31 26 0.40
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (28 bp):
TTATTTATTTAAGTTTTCTAATATTATT
Found at i:514456 original size:63 final size:64
Alignment explanation
Indices: 514373--514500 Score: 249
Period size: 63 Copynumber: 2.0 Consensus size: 64
514363 CACTCAAAGC
514373 ACAGTGATTGTTATCCTCTTTACATTGTAAACATGATACAAGAATTTTGTGGGTCTAGTGTTAA
1 ACAGTGATTGTTATCCTCTTTACATTGTAAACATGATACAAGAATTTTGTGGGTCTAGTGTTAA
514437 ACAGTGA-TGTTATCCTCTTTACATTGTAAACATGATACAAGAATTTTGTGGGTCTAGTGTTAA
1 ACAGTGATTGTTATCCTCTTTACATTGTAAACATGATACAAGAATTTTGTGGGTCTAGTGTTAA
514500 A
1 A
514501 GGTTGTATTT
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
63 57 0.89
64 7 0.11
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.38
Consensus pattern (64 bp):
ACAGTGATTGTTATCCTCTTTACATTGTAAACATGATACAAGAATTTTGTGGGTCTAGTGTTAA
Found at i:515482 original size:213 final size:213
Alignment explanation
Indices: 515115--515543 Score: 858
Period size: 213 Copynumber: 2.0 Consensus size: 213
515105 TTGGAGAAGC
515115 TGATAAGAACCTGGGCAGTACTGGAGGAGTGAATGTCTATGCACAGATGATCGATGATGCAGAGG
1 TGATAAGAACCTGGGCAGTACTGGAGGAGTGAATGTCTATGCACAGATGATCGATGATGCAGAGG
515180 GTCTAGAGAAGATCGAGAATTTACAGTCCCATGACAACACTGAGATTTATGAAAAGGCCGTGAAA
66 GTCTAGAGAAGATCGAGAATTTACAGTCCCATGACAACACTGAGATTTATGAAAAGGCCGTGAAA
515245 ATTCTTGAGACATATTGGTTGGAGGAGGAGGAGACGATGCCGCCAGGCGATGCCCCTCAAACAGG
131 ATTCTTGAGACATATTGGTTGGAGGAGGAGGAGACGATGCCGCCAGGCGATGCCCCTCAAACAGG
515310 GTTTCATTTTGGAGGGGG
196 GTTTCATTTTGGAGGGGG
515328 TGATAAGAACCTGGGCAGTACTGGAGGAGTGAATGTCTATGCACAGATGATCGATGATGCAGAGG
1 TGATAAGAACCTGGGCAGTACTGGAGGAGTGAATGTCTATGCACAGATGATCGATGATGCAGAGG
515393 GTCTAGAGAAGATCGAGAATTTACAGTCCCATGACAACACTGAGATTTATGAAAAGGCCGTGAAA
66 GTCTAGAGAAGATCGAGAATTTACAGTCCCATGACAACACTGAGATTTATGAAAAGGCCGTGAAA
515458 ATTCTTGAGACATATTGGTTGGAGGAGGAGGAGACGATGCCGCCAGGCGATGCCCCTCAAACAGG
131 ATTCTTGAGACATATTGGTTGGAGGAGGAGGAGACGATGCCGCCAGGCGATGCCCCTCAAACAGG
515523 GTTTCATTTTGGAGGGGG
196 GTTTCATTTTGGAGGGGG
515541 TGA
1 TGA
515544 GCTTCCAGTT
Statistics
Matches: 216, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
213 216 1.00
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.22
Consensus pattern (213 bp):
TGATAAGAACCTGGGCAGTACTGGAGGAGTGAATGTCTATGCACAGATGATCGATGATGCAGAGG
GTCTAGAGAAGATCGAGAATTTACAGTCCCATGACAACACTGAGATTTATGAAAAGGCCGTGAAA
ATTCTTGAGACATATTGGTTGGAGGAGGAGGAGACGATGCCGCCAGGCGATGCCCCTCAAACAGG
GTTTCATTTTGGAGGGGG
Found at i:518278 original size:60 final size:59
Alignment explanation
Indices: 518200--518315 Score: 133
Period size: 59 Copynumber: 1.9 Consensus size: 59
518190 GTTTTGTCTA
* * * ** *
518200 AGCTGGCGTTACGGTGGAAAGACGTGGATCATGAGGCACGCCTTTGCGGGGTTCTGTTCG
1 AGCTGGCGTCACAGTGG-AAGACGTAGATCATGAAACACGCCTTCGCGGGGTTCTGTTCG
* ** *
518260 AGCTGGCGTCACATTGGAAGGTGTAGATCATGAAACGCGCCTTCGCGGGGTTCTGT
1 AGCTGGCGTCACAGTGGAAGACGTAGATCATGAAACACGCCTTCGCGGGGTTCTGT
518316 CTGAACTGGC
Statistics
Matches: 46, Mismatches: 10, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
59 32 0.70
60 14 0.30
ACGTcount: A:0.18, C:0.21, G:0.36, T:0.25
Consensus pattern (59 bp):
AGCTGGCGTCACAGTGGAAGACGTAGATCATGAAACACGCCTTCGCGGGGTTCTGTTCG
Found at i:520667 original size:19 final size:19
Alignment explanation
Indices: 520643--520695 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
520633 ATAATGTTTA
520643 AAAGTATCGATACTTATAT
1 AAAGTATCGATACTTATAT
* * *
520662 AAAGTATCGAAACTTTTGT
1 AAAGTATCGATACTTATAT
*
520681 ACGAGTATCGATACT
1 A-AAGTATCGATACT
520696 CTTAAGGGTA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 17 0.61
20 11 0.39
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.34
Consensus pattern (19 bp):
AAAGTATCGATACTTATAT
Found at i:531859 original size:44 final size:44
Alignment explanation
Indices: 531776--531861 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 44
531766 AAACGGTAGA
531776 CGATCGAACCGAATAATCATAACCGAATATTAACTAAACTTTGC
1 CGATCGAACCGAATAATCATAACCGAATATTAACTAAACTTTGC
531820 CGATCGAACCGAATTAATCATAACCG-A-ATTAACTAAAACTTT
1 CGATCGAACCGAA-TAATCATAACCGAATATTAACT-AAACTTT
531862 TTTTTCTTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
43 7 0.17
44 21 0.52
45 12 0.30
ACGTcount: A:0.42, C:0.22, G:0.10, T:0.26
Consensus pattern (44 bp):
CGATCGAACCGAATAATCATAACCGAATATTAACTAAACTTTGC
Found at i:532290 original size:178 final size:176
Alignment explanation
Indices: 531992--532354 Score: 547
Period size: 178 Copynumber: 2.0 Consensus size: 176
531982 TATAAAAATA
* *
531992 AATATTTTTTAATTCAAAAAAAGTTATAATTAATTTAAATAATATATAATTATAAAATAAAATTT
1 AATA-TTTTTAATTCAAAAAAAGTTACAATTAATTTAAATAATATATAATTATAAAATAAAAATT
532057 TAGATAAATTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATTGGATCTTAAATTATTAA-
65 TAGATAAATTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATTGGATCTTAAA-TATTAAT
* *
532121 TGGGTTTTAAATGGTTTGGGCTT-AGCCCATA-TTCTATATAATATATTT
129 TGGGTTTTAAATGATTT-GG-TTGAGCCCATAGTTATATATAATATATTT
532169 AATATTTTTAATT-AAAAAACAGTTTACAATTAATTTAAAT-ATATATAATTATAAAATAAAAAA
1 AATATTTTTAATTCAAAAAA-AG-TTACAATTAATTTAAATAATATATAATTATAAAAT-AAAAA
* *
532232 TTTATATAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATTGGATCTTAAATATTA
63 TTTAGATAA-ATTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATTGGATCTTAAATATTA
*
532297 ATTGGGTTTTAAATGATTTGGTTGAGCTCATATGTTATATATAATATATTT
127 ATTGGGTTTTAAATGATTTGGTTGAGCCCATA-GTTATATATAATATATTT
532348 AATATTT
1 AATATTT
532355 AAAATTTAAT
Statistics
Matches: 171, Mismatches: 7, Indels: 14
0.89 0.04 0.07
Matches are distributed among these distances:
175 6 0.04
176 30 0.18
177 47 0.27
178 65 0.38
179 23 0.13
ACGTcount: A:0.42, C:0.03, G:0.09, T:0.46
Consensus pattern (176 bp):
AATATTTTTAATTCAAAAAAAGTTACAATTAATTTAAATAATATATAATTATAAAATAAAAATTT
AGATAAATTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATTGGATCTTAAATATTAATTG
GGTTTTAAATGATTTGGTTGAGCCCATAGTTATATATAATATATTT
Found at i:532684 original size:38 final size:37
Alignment explanation
Indices: 532632--532729 Score: 146
Period size: 38 Copynumber: 2.7 Consensus size: 37
532622 ACCAATTTAG
*
532632 GTTTCATAAGAAATTTGGGTATTTTTTTCTTATTAAA
1 GTTTCATAAGAAATTTGAGTATTTTTTTCTTATTAAA
532669 GATTTCATAAGAAATTTGAGTA--TTTTTCTTATTAAA
1 G-TTTCATAAGAAATTTGAGTATTTTTTTCTTATTAAA
* *
532705 GGTTCATAAGAAATTTGTGTATTTT
1 GTTTCATAAGAAATTTGAGTATTTT
532730 CTTATTGAAT
Statistics
Matches: 55, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
35 18 0.33
36 15 0.27
37 3 0.05
38 19 0.35
ACGTcount: A:0.32, C:0.05, G:0.14, T:0.49
Consensus pattern (37 bp):
GTTTCATAAGAAATTTGAGTATTTTTTTCTTATTAAA
Found at i:532718 original size:35 final size:36
Alignment explanation
Indices: 532634--532735 Score: 145
Period size: 35 Copynumber: 2.8 Consensus size: 36
532624 CAATTTAGGT
* *
532634 TTCATAAGAAATTTGGGTATTTTTTTCTTATTAAAGAT
1 TTCATAAGAAATTTGAGTA--TTTTTCTTATTAAAGAG
532672 TTCATAAGAAATTTGAGTATTTTTCTTATTAAAG-G
1 TTCATAAGAAATTTGAGTATTTTTCTTATTAAAGAG
*
532707 TTCATAAGAAATTTGTGTA-TTTTCTTATT
1 TTCATAAGAAATTTGAGTATTTTTCTTATT
532736 GAATATTAAT
Statistics
Matches: 61, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
34 10 0.16
35 18 0.30
36 15 0.25
38 18 0.30
ACGTcount: A:0.31, C:0.06, G:0.13, T:0.50
Consensus pattern (36 bp):
TTCATAAGAAATTTGAGTATTTTTCTTATTAAAGAG
Found at i:536012 original size:31 final size:30
Alignment explanation
Indices: 535937--536019 Score: 80
Period size: 30 Copynumber: 2.8 Consensus size: 30
535927 AGAAACCTAC
* * *
535937 CACAAC-AAACCAAAGAAAACAAAAACTCT
1 CACAACAAAAACAAAGGAAACAAAAACCCT
* * * *
535966 CACAGCAGAAGCAAAGGAAACAAAAGCCCTT
1 CACAACAAAAACAAAGGAAACAAAAACCC-T
535997 CACAACAAAAACAAA-GAAACAAA
1 CACAACAAAAACAAAGGAAACAAA
536020 TATAGGGGTA
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
29 5 0.12
30 25 0.58
31 13 0.30
ACGTcount: A:0.60, C:0.25, G:0.10, T:0.05
Consensus pattern (30 bp):
CACAACAAAAACAAAGGAAACAAAAACCCT
Found at i:546065 original size:31 final size:31
Alignment explanation
Indices: 546030--546130 Score: 102
Period size: 31 Copynumber: 3.2 Consensus size: 31
546020 ATCTATTTAG
546030 GTTATTTCTGTTTATATATTTAAATTTCTAT
1 GTTATTTCTGTTTATATATTTAAATTTCTAT
* *
546061 GTTATTT-TGATTTA-ATAAGTATT-ACTTT-TAAG
1 GTTATTTCTG-TTTATAT-A-T-TTAAATTTCT-AT
*
546093 GTTATTTCTTTTTATATATTTAAATTTCTAT
1 GTTATTTCTGTTTATATATTTAAATTTCTAT
546124 GTTATTT
1 GTTATTT
546131 TAATTTAATA
Statistics
Matches: 56, Mismatches: 5, Indels: 18
0.71 0.06 0.23
Matches are distributed among these distances:
30 6 0.11
31 26 0.46
32 19 0.34
33 5 0.09
ACGTcount: A:0.27, C:0.05, G:0.08, T:0.60
Consensus pattern (31 bp):
GTTATTTCTGTTTATATATTTAAATTTCTAT
Found at i:546107 original size:63 final size:63
Alignment explanation
Indices: 546028--546151 Score: 230
Period size: 63 Copynumber: 2.0 Consensus size: 63
546018 CTATCTATTT
*
546028 AGGTTATTTCTGTTTATATATTTAAATTTCTATGTTATTTTGATTTAATAAGTATTACTTTTA
1 AGGTTATTTCTGTTTATATATTTAAATTTCTATGTTATTTTAATTTAATAAGTATTACTTTTA
*
546091 AGGTTATTTCTTTTTATATATTTAAATTTCTATGTTATTTTAATTTAATAAGTATTACTTT
1 AGGTTATTTCTGTTTATATATTTAAATTTCTATGTTATTTTAATTTAATAAGTATTACTTT
546152 AATAAAAATG
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 59 1.00
ACGTcount: A:0.29, C:0.05, G:0.08, T:0.58
Consensus pattern (63 bp):
AGGTTATTTCTGTTTATATATTTAAATTTCTATGTTATTTTAATTTAATAAGTATTACTTTTA
Found at i:550151 original size:199 final size:200
Alignment explanation
Indices: 549477--550238 Score: 859
Period size: 199 Copynumber: 3.8 Consensus size: 200
549467 CGTTATTTAC
* * ** * * *
549477 AAGTATCGACACAAATCTAA-AACGTGTCGATACACTATGTTCACCTATTTTCTCATAAAAC-CG
1 AAGTATCGACACAAAT-TAACAA-GTGTCGACACATTATGTAGACCTATTCTCACATAAAACATG
* * * ** *
549540 GTACATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTT-GGTGTTT-
64 GTATATTTATACCGGTTACATTATAAAATTACCTATTACATTATAATTATTGGTTTCGATGTTTC
* *
549603 TGGGATCGATACTTTTTATAAATGTATCGCCAC-TTATGCGTTCACCCTTTTGGGCATTCATTA-
129 TGGGATCGATACTTTTTAAAAATGTATCGACACTTTATGCGTTCACCCTTTTGGGCATTCATTAT
*
549666 CGACAAA
194 GGACAAA
*
549673 AAGTATCGACACAACATTAACAAGTGTCAACACATTATGTAGACCTATTCTCACATAAAAC-TGG
1 AAGTATCGACACAA-ATTAACAAGTGTCGACACATTATGTAGACCTATTCTCACATAAAACATGG
* * * *
549737 TATATTTATACCGGTTATATTACAAAATTGCCTATTACA-TATATTTA-TGGATTTCGATGTTTC
65 TATATTTATACCGGTTACATTATAAAATTACCTATTACATTATAATTATTGG-TTTCGATGTTTC
* * * * * * *
549800 TGGGATCGATACTGTTGAAAAATGTATCGACACCTTATGGGTGCACCCTTTTTGG-ATTTTCCTT
129 TGGGATCGATACTTTTTAAAAATGTATCGACACTTTATGCGTTCACCCTTTTGGGCA--TTCATT
* *
549864 GTGGACCAA
192 ATGGACAAA
* * * * * * *
549873 AAGTATCGACACAAATTCTACAAGTGTCGATACATTATATATATCTATTTTCTA-A-AAAAAATG
1 AAGTATCGACACAAATT-AACAAGTGTCGACACATTATGTAGACCTATTCTC-ACATAAAACATG
* * * * *
549936 GTTTATTTAAACCGGTTACATTGTAAATTTACCTATTACATTATAATTATTGGTTTCGATGTTTT
64 GTATATTTATACCGGTTACATTATAAAATTACCTATTACATTATAATTATTGGTTTCGATGTTTC
* * * *
550001 TGGGATCGATACTTTTTATAATTGTATCGATACTTTATGCGTTCACCCTTTTGGGCATTCATAAT
129 TGGGATCGATACTTTTTAAAAATGTATCGACACTTTATGCGTTCACCCTTTTGGGCATTCATTAT
550066 GGA-AAA
194 GGACAAA
550072 AAGTATCGACACAACATTAACAAGTGTCGACACATTATGTAGACCTATTCTCACATAAAACAT-G
1 AAGTATCGACACAA-ATTAACAAGTGTCGACACATTATGTAGACCTATTCTCACATAAAACATGG
* * * * *
550136 TATATTTATACCGGTTATATTATAAAATTACCTATTACATTATATTTTTTGATTTTGATGTTTCT
65 TATATTTATACCGGTTACATTATAAAATTACCTATTACATTATAATTATTGGTTTCGATGTTTCT
* * *
550201 GAGATCGATACATTTTAAAACTGTATCGACACTTTATG
130 GGGATCGATACTTTTTAAAAATGTATCGACACTTTATG
550239 GGAAACTTTA
Statistics
Matches: 467, Mismatches: 81, Indels: 33
0.80 0.14 0.06
Matches are distributed among these distances:
194 1 0.00
195 10 0.02
196 89 0.19
197 34 0.07
198 19 0.04
199 146 0.31
200 99 0.21
201 65 0.14
202 4 0.01
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.38
Consensus pattern (200 bp):
AAGTATCGACACAAATTAACAAGTGTCGACACATTATGTAGACCTATTCTCACATAAAACATGGT
ATATTTATACCGGTTACATTATAAAATTACCTATTACATTATAATTATTGGTTTCGATGTTTCTG
GGATCGATACTTTTTAAAAATGTATCGACACTTTATGCGTTCACCCTTTTGGGCATTCATTATGG
ACAAA
Found at i:550259 original size:15 final size:15
Alignment explanation
Indices: 550239--550278 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
550229 ACACTTTATG
*
550239 GGAAACTTTAAGTTT
1 GGAAACTTTAAGTAT
*
550254 GGAAACTTTATGTAT
1 GGAAACTTTAAGTAT
*
550269 GAAAACTTTA
1 GGAAACTTTA
550279 TTGTGGAGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.38
Consensus pattern (15 bp):
GGAAACTTTAAGTAT
Found at i:550565 original size:11 final size:11
Alignment explanation
Indices: 550549--550611 Score: 81
Period size: 11 Copynumber: 5.5 Consensus size: 11
550539 TATACATAAC
550549 AATGTTCAAAT
1 AATGTTCAAAT
550560 AATGTTCAAAT
1 AATGTTCAAAT
550571 AATGTTCAAAT
1 AATGTTCAAAT
* *
550582 AATTTATACATAAC
1 AATGT-T-CA-AAT
550596 AATGTTCAAAT
1 AATGTTCAAAT
550607 AATGT
1 AATGT
550612 AACCACAACG
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
11 33 0.73
12 3 0.07
13 3 0.07
14 6 0.13
ACGTcount: A:0.46, C:0.10, G:0.08, T:0.37
Consensus pattern (11 bp):
AATGTTCAAAT
Found at i:550605 original size:25 final size:25
Alignment explanation
Indices: 550535--550609 Score: 111
Period size: 25 Copynumber: 3.1 Consensus size: 25
550525 GTACACAAGA
550535 AATTTATACATAACAATGTTCAAAT
1 AATTTATACATAACAATGTTCAAAT
* *
550560 AATGT-T-CA-AATAATGTTCAAAT
1 AATTTATACATAACAATGTTCAAAT
550582 AATTTATACATAACAATGTTCAAAT
1 AATTTATACATAACAATGTTCAAAT
550607 AAT
1 AAT
550610 GTAACCACAA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
22 17 0.40
23 3 0.07
24 3 0.07
25 20 0.47
ACGTcount: A:0.48, C:0.11, G:0.05, T:0.36
Consensus pattern (25 bp):
AATTTATACATAACAATGTTCAAAT
Found at i:553532 original size:148 final size:148
Alignment explanation
Indices: 553276--553564 Score: 386
Period size: 148 Copynumber: 2.0 Consensus size: 148
553266 TTGGATTTCC
* * ** * *
553276 TTCTGGACAAAAAGTATCGACACAAATTCCACAAGTGTCGATACATGTTGTAGACCTATTCTCTC
1 TTCTGAACAAAAAGTATCGACACAAAATAAAAAAGTATCGATACATGTTGTAGACCTATTCTCTC
** * * *
553341 ATAAAATCGGTATTGTTATACCGGTTACATTGTAAATTTACCTATTACGTTATATTTATGGGTTT
66 ATAAAATCGGTATTGTTATACCGGTTACATTACAAAATTACCTATTACATTATAATTATGGGTTT
553406 CGATGTTTTTGAGATTCA
131 CGATGTTTTTGAGATTCA
553424 TTCTGAACAAAAAGTATCGACACAAAATAAAAAAGTATCGATACAT-TATGTAGACCTATTCT-T
1 TTCTGAACAAAAAGTATCGACACAAAATAAAAAAGTATCGATACATGT-TGTAGACCTATTCTCT
* * * **
553487 ATATAAAATCGGTATAT-TTATACCGGTTATATTACAAAATTACCTATTATATTATAATTATTTG
65 -CATAAAATCGGTAT-TGTTATACCGGTTACATTACAAAATTACCTATTACATTATAATTATGGG
553551 TTTCGATGTTTTTG
128 TTTCGATGTTTTTG
553565 GGATCAACAC
Statistics
Matches: 122, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
147 2 0.02
148 119 0.98
149 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.38
Consensus pattern (148 bp):
TTCTGAACAAAAAGTATCGACACAAAATAAAAAAGTATCGATACATGTTGTAGACCTATTCTCTC
ATAAAATCGGTATTGTTATACCGGTTACATTACAAAATTACCTATTACATTATAATTATGGGTTT
CGATGTTTTTGAGATTCA
Found at i:553765 original size:200 final size:200
Alignment explanation
Indices: 553419--553795 Score: 612
Period size: 200 Copynumber: 1.9 Consensus size: 200
553409 TGTTTTTGAG
*
553419 ATTCATTCTGAACAAAAAGTATCGACACAAAATAAAAAAGTATCGATACATTATGTAGACCTATT
1 ATTCATTCTGAACAAAAAGTATCGACACAAAATAAAAAAGTATCGAAACATTATGTAGACCTATT
* * * *
553484 CTTATATAAAATCGGTATATTTATACCGGTTATATTACAAAATTACCTATTATATTATAATTATT
66 CTCACATAAAATCGGTATATTTATACCGGTTATATTACAAAATTACATATTACATTATAATTATT
* * *
553549 TGTTTCGATGTTTTTGGGATCAACACTTTTTATAAATGTATCGACACTTTATTCGTTCATCATTT
131 TGTTTCGATATTTTTGGGATCAACACGTTTTATAAATGTATCAACACTTTATTCGTTCATCATTT
553614 TTTGC
196 TTTGC
* * *
553619 ATTCATTCTGGACAAAAAGTATCGACACAAAATAAAAAAGTGTTGAAACATTATGTAGACCTATT
1 ATTCATTCTGAACAAAAAGTATCGACACAAAATAAAAAAGTATCGAAACATTATGTAGACCTATT
* *
553684 CTCACATAAAA-CTGGTATATTTATAGCGGTTGTATTACAAAATTACATATTACATTATAATTAT
66 CTCACATAAAATC-GGTATATTTATACCGGTTATATTACAAAATTACATATTACATTATAATTAT
*
553748 TTGTTTCGATATTTTTGGGATCGACACGTTTTATAAATGTATCAACAC
130 TTGTTTCGATATTTTTGGGATCAACACGTTTTATAAATGTATCAACAC
553796 ATATGCTTAC
Statistics
Matches: 162, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
199 1 0.01
200 161 0.99
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (200 bp):
ATTCATTCTGAACAAAAAGTATCGACACAAAATAAAAAAGTATCGAAACATTATGTAGACCTATT
CTCACATAAAATCGGTATATTTATACCGGTTATATTACAAAATTACATATTACATTATAATTATT
TGTTTCGATATTTTTGGGATCAACACGTTTTATAAATGTATCAACACTTTATTCGTTCATCATTT
TTTGC
Found at i:554084 original size:19 final size:19
Alignment explanation
Indices: 554060--554108 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
554050 TTACATCCAC
554060 ATACAAAATTATAAATCAT
1 ATACAAAATTATAAATCAT
*
554079 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCAT
554098 ATACAAAATTA
1 ATACAAAATTA
554109 ACTCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCAT
Found at i:555926 original size:33 final size:33
Alignment explanation
Indices: 555889--555951 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
555879 CTTAAGTTTA
555889 CCCCTCAACACCTCAACTTATTTCACCACTTTT
1 CCCCTCAACACCTCAACTTATTTCACCACTTTT
*
555922 CCCCTCAACACCTCAACTTCTTTCACCACT
1 CCCCTCAACACCTCAACTTATTTCACCACT
555952 CCATCTATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.24, C:0.46, G:0.00, T:0.30
Consensus pattern (33 bp):
CCCCTCAACACCTCAACTTATTTCACCACTTTT
Found at i:556010 original size:21 final size:21
Alignment explanation
Indices: 555985--556049 Score: 112
Period size: 21 Copynumber: 3.1 Consensus size: 21
555975 CCCATTATGC
*
555985 CTCTCAAGTGTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
556006 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
556027 CTCTCAAGTTTCTCTCCGACT
1 CTCTCAAGTTTCTCTTCGACT
556048 CT
1 CT
556050 TGATTGTCTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.14, C:0.35, G:0.11, T:0.40
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:558726 original size:182 final size:182
Alignment explanation
Indices: 558417--559637 Score: 1929
Period size: 182 Copynumber: 6.7 Consensus size: 182
558407 TACGCGTACT
* *** * ***
558417 TATTAAAGTATCGACACTTTCAATATATCCGGTAAAGCTTTACCGGTTTTGTCATTTAGAGACCG
1 TATTAAAGTATCGACACTTGCAATATATCCGGTATCTCTTTACCGGTTTTGTCTTTTCCTGACCG
* * * *
558482 GTTTTATCATATTTTTACTTGTTATATCGTTATGGATCGATACATTTTTATAAAGTATCGACACT
66 GTTTTATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACT
* * *
558547 TTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGAAACTTA
131 TTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
* * * * * * **
558599 TATTAAATTATCGATACTTTCAATATATCCGGTAGCGCTTTACCAGTTTTGTCTTTTCGAGACCG
1 TATTAAAGTATCGACACTTGCAATATATCCGGTATCTCTTTACCGGTTTTGTCTTTTCCTGACCG
* *
558664 GTTTTATCATATTTTTACATGTTATATCATTGTGGATCGATACATATTTATAAAGAATCGACACT
66 GTTTTATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACT
558729 TTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
131 TTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
**
558781 TATTAAAGTATCGACACTTGCAATATATCATGTATCTCTTTACCGGTTTTGTCTTTTCCTGACCG
1 TATTAAAGTATCGACACTTGCAATATATCCGGTATCTCTTTACCGGTTTTGTCTTTTCCTGACCG
* *
558846 GTTTTGTCATATTTTTACCTGTTATATTGTTGTGGATCGATACATATTTATAAAGAATCGACACT
66 GTTTTATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACT
558911 TTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
131 TTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
* *
558963 TATTAAAGTATCGACACTTGTAATATATCCGATATCTCTTTACCGGTTTTGTCTTTTCCTGACCG
1 TATTAAAGTATCGACACTTGCAATATATCCGGTATCTCTTTACCGGTTTTGTCTTTTCCTGACCG
*
559028 GTTTTTTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACT
66 GTTTTATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACT
* * *
559093 TTATAGGCGTTAAAATTGCTTCTCCTTTAAATTCACAATGTGTCGGTACTTA
131 TTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
* *
559145 TATTAAAGTATCGACACTTACAATATATCCAGTATCTCTTTACCGGTTTTGTCTTTTCCTGACCG
1 TATTAAAGTATCGACACTTGCAATATATCCGGTATCTCTTTACCGGTTTTGTCTTTTCCTGACCG
* * *
559210 GTTTTGTCATATTTTTACCTATTATATCGTTGTGGATTGATACATATTTATAAAGAATCGACACT
66 GTTTTATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACT
559275 TTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
131 TTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
* *
559327 TATTAAAGTATCGACACTTGCAATATATCCAGTATCTCTTTACCAGTTTTGTCTTTTCCTGACCG
1 TATTAAAGTATCGACACTTGCAATATATCCGGTATCTCTTTACCGGTTTTGTCTTTTCCTGACCG
* *
559392 GTTTTGTCATATTTTTACATGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACT
66 GTTTTATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACT
* *
559457 TTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACTATATGTCGATACTTA
131 TTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
* * * * *
559509 TATTAAAGTATCGACACATGCAATATATCCGGTAGCGCTTTACTGGTTTTGTCTTTTCGTGACCG
1 TATTAAAGTATCGACACTTGCAATATATCCGGTATCTCTTTACCGGTTTTGTCTTTTCCTGACCG
* * * * *
559574 GTTTTATCATATTTTTTTCCTGTTATATTGATGTGGATCGATACATTTTTATAAAGTATCGACA
66 GTTTTATCATA-TTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACA
559638 TAAACCGACA
Statistics
Matches: 969, Mismatches: 69, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
182 923 0.95
183 46 0.05
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (182 bp):
TATTAAAGTATCGACACTTGCAATATATCCGGTATCTCTTTACCGGTTTTGTCTTTTCCTGACCG
GTTTTATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACT
TTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
Found at i:563580 original size:17 final size:19
Alignment explanation
Indices: 563560--563594 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
563550 AAATAATTAA
563560 AATAA-ATATAAA-ATTTT
1 AATAATATATAAATATTTT
563577 AATAATATATAAATATTT
1 AATAATATATAAATATTT
563595 ATATGATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 7 0.44
19 4 0.25
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
AATAATATATAAATATTTT
Found at i:563595 original size:18 final size:17
Alignment explanation
Indices: 563564--563609 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
563554 AATTAAAATA
563564 AATATAAAATTTTA-AT
1 AATATAAAATTTTATAT
563580 AATATATAAATATTTATAT
1 AATATA-AAAT-TTTATAT
*
563599 GATATAAAATT
1 AATATAAAATT
563610 AAATATCTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 6 0.23
17 5 0.19
18 8 0.31
19 7 0.27
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (17 bp):
AATATAAAATTTTATAT
Found at i:563615 original size:17 final size:15
Alignment explanation
Indices: 563560--563643 Score: 55
Period size: 17 Copynumber: 5.3 Consensus size: 15
563550 AAATAATTAA
*
563560 AATAAATATAAAATTTT
1 AATATATATAAAA--TT
563577 AATAATATATAAATATT
1 AAT-ATATATAAA-ATT
*
563594 TATATGATATAAAATT
1 AATAT-ATATAAAATT
* *
563610 AA-ATATCTATAATAT
1 AATATATATAAAAT-T
*
563625 AATAT-TAAAAAATT
1 AATATATATAAAATT
563639 AATAT
1 AATAT
563644 TTAATTTATT
Statistics
Matches: 54, Mismatches: 8, Indels: 13
0.72 0.11 0.17
Matches are distributed among these distances:
14 13 0.24
15 10 0.19
16 8 0.15
17 14 0.26
18 8 0.15
19 1 0.02
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (15 bp):
AATATATATAAAATT
Found at i:563626 original size:21 final size:22
Alignment explanation
Indices: 563586--563633 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
563576 TAATAATATA
*
563586 TAAATATTTATATGATATAAAAT
1 TAAATATCTATA-GATATAAAAT
*
563609 TAAATATCTATA-ATATAATAT
1 TAAATATCTATAGATATAAAAT
563630 TAAA
1 TAAA
563634 AAATTAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 12 0.52
23 11 0.48
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (22 bp):
TAAATATCTATAGATATAAAAT
Found at i:563680 original size:64 final size:62
Alignment explanation
Indices: 563603--563738 Score: 236
Period size: 64 Copynumber: 2.1 Consensus size: 62
563593 TTATATGATA
563603 TAAAATTAAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAAATTAATAT
1 TAAAATT-AATATCTATAATATAATATTAAAAAATTAATATTTAATTTA-TT-AAAAATTAATAT
*
563668 TAAAATTAATATCTATAATATAATATTAAAATATTAATATTTAATTTATTAAAAATTAATAT
1 TAAAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTAAAAATTAATAT
563730 TAAAATTAA
1 TAAAATTAA
563739 AATAAAATAT
Statistics
Matches: 70, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
62 21 0.30
63 2 0.03
64 40 0.57
65 7 0.10
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (62 bp):
TAAAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTAAAAATTAATAT
Found at i:563712 original size:26 final size:25
Alignment explanation
Indices: 563659--563738 Score: 96
Period size: 23 Copynumber: 3.2 Consensus size: 25
563649 TTATTTAAAA
563659 AATTAATATT-AAAATTAATATCTAT
1 AATTAATATTAAAAATTAATAT-TAT
563684 AATATAATATTAAAATATTAATATT-T
1 AAT-TAATATTAAAA-ATTAATATTAT
*
563710 AATT--TATTAAAAATTAATATTAA
1 AATTAATATTAAAAATTAATATTAT
563733 AATTAA
1 AATTAA
563739 AATAAAATAT
Statistics
Matches: 48, Mismatches: 1, Indels: 12
0.79 0.02 0.20
Matches are distributed among these distances:
22 9 0.19
23 12 0.25
25 4 0.08
26 11 0.23
27 4 0.08
28 8 0.17
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (25 bp):
AATTAATATTAAAAATTAATATTAT
Found at i:563764 original size:12 final size:12
Alignment explanation
Indices: 563719--563764 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
563709 TAATTTATTA
563719 AAAATT-AATATT
1 AAAATTAAATA-T
563731 AAAATTAAA-AT
1 AAAATTAAATAT
563742 AAAA-TATAATAT
1 AAAATTA-AATAT
563754 AAAATTAAATA
1 AAAATTAAATA
563765 AAACCTCTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
10 2 0.07
11 7 0.23
12 17 0.57
13 4 0.13
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAAATAT
Found at i:563764 original size:64 final size:64
Alignment explanation
Indices: 563603--563762 Score: 216
Period size: 64 Copynumber: 2.5 Consensus size: 64
563593 TTATATGATA
** *
563603 TAAAATTAAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAAATTAATAT
1 TAAAATT-AATAAATATAATATAATATTAAAATATTAATATTTAATTTATTTAAAAAATTAATAT
**
563668 TAAAATTAATATCTATAATATAATATTAAAATATTAATATTTAATTTA-TT-AAAAATTAATAT
1 TAAAATTAATAAATATAATATAATATTAAAATATTAATATTTAATTTATTTAAAAAATTAATAT
*
563730 TAAAATTAAAATAAAATATAATATAAAATTAAA
1 TAAAATT--AAT-AAATATAATATAATATTAAA
563763 TAAAACCTCT
Statistics
Matches: 88, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
62 19 0.22
63 2 0.02
64 43 0.49
65 24 0.27
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.41
Consensus pattern (64 bp):
TAAAATTAATAAATATAATATAATATTAAAATATTAATATTTAATTTATTTAAAAAATTAATAT
Found at i:566791 original size:24 final size:24
Alignment explanation
Indices: 566747--566792 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
566737 TTAAAATTTT
*
566747 ATTTATATTCATCATAAATAAAAA
1 ATTTATATTCATAATAAATAAAAA
*
566771 ATTTATA-TCAATAATATATAAA
1 ATTTATATTC-ATAATAAATAAA
566793 TATATACTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 2 0.11
24 17 0.89
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (24 bp):
ATTTATATTCATAATAAATAAAAA
Found at i:567076 original size:10 final size:10
Alignment explanation
Indices: 567061--567135 Score: 61
Period size: 10 Copynumber: 7.7 Consensus size: 10
567051 CATTTAATAA
567061 ATAAACGAAC
1 ATAAACGAAC
567071 ATAAACGAAC
1 ATAAACGAAC
567081 ---AA-GAAC
1 ATAAACGAAC
567087 ATAAACGAAC
1 ATAAACGAAC
** *
567097 ACGAAC-ATAA
1 ATAAACGA-AC
567107 ATGAACACGAAC
1 AT-AA-ACGAAC
567119 ATAAACGAAC
1 ATAAACGAAC
567129 ATAAACG
1 ATAAACG
567136 TTGGAGACCC
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
6 4 0.08
7 2 0.04
9 3 0.06
10 33 0.65
11 3 0.06
12 5 0.10
13 1 0.02
ACGTcount: A:0.59, C:0.20, G:0.12, T:0.09
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:567088 original size:16 final size:16
Alignment explanation
Indices: 567065--567129 Score: 112
Period size: 16 Copynumber: 4.1 Consensus size: 16
567055 TAATAAATAA
567065 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
567081 AAGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
567097 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
567113 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
567129 A
1 A
567130 TAAACGTTGG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.58, C:0.22, G:0.12, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:567897 original size:14 final size:14
Alignment explanation
Indices: 567880--567935 Score: 57
Period size: 14 Copynumber: 4.3 Consensus size: 14
567870 AATGAACATA
567880 AACGAACATAATCG
1 AACGAACATAATCG
567894 AACGAACAT-A---
1 AACGAACATAATCG
* *
567904 AACAAACATAACCG
1 AACGAACATAATCG
*
567918 AACGAACATAATCT
1 AACGAACATAATCG
567932 AACG
1 AACG
567936 TTCACGAACG
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
10 8 0.24
11 1 0.03
13 1 0.03
14 24 0.71
ACGTcount: A:0.54, C:0.23, G:0.11, T:0.12
Consensus pattern (14 bp):
AACGAACATAATCG
Found at i:567900 original size:24 final size:24
Alignment explanation
Indices: 567859--567928 Score: 97
Period size: 24 Copynumber: 2.9 Consensus size: 24
567849 AGATTGAGTT
*
567859 AAACATAAAT-GAATGAACATAAAC
1 AAACAT-AATCGAACGAACATAAAC
*
567883 GAACATAATCGAACGAACATAAAC
1 AAACATAATCGAACGAACATAAAC
*
567907 AAACATAACCGAACGAACATAA
1 AAACATAATCGAACGAACATAA
567929 TCTAACGTTC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
23 3 0.07
24 38 0.93
ACGTcount: A:0.59, C:0.19, G:0.10, T:0.13
Consensus pattern (24 bp):
AAACATAATCGAACGAACATAAAC
Found at i:571923 original size:18 final size:18
Alignment explanation
Indices: 571900--571942 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
571890 TGTTCCGAAA
*
571900 GACCACTAA-GTCTAGAAG
1 GACCAC-AATGTCCAGAAG
*
571918 GACCACAATGTCCCGAAG
1 GACCACAATGTCCAGAAG
571936 GACCACA
1 GACCACA
571943 TATCACATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.37, C:0.30, G:0.21, T:0.12
Consensus pattern (18 bp):
GACCACAATGTCCAGAAG
Found at i:579674 original size:32 final size:32
Alignment explanation
Indices: 579633--579825 Score: 304
Period size: 32 Copynumber: 6.1 Consensus size: 32
579623 GAGTCGAGGG
* **
579633 TTACCTATGTCTTTCAGGACATATGGACAACA
1 TTACCTATGTCTTTCGGGACATATGGACAGTA
*
579665 TTACCTATGTCTTTCGGGACATATTGACAGTA
1 TTACCTATGTCTTTCGGGACATATGGACAGTA
579697 TTACCTATGTCTTTCGGGACATATGGACAGTA
1 TTACCTATGTCTTTCGGGACATATGGACAGTA
579729 TTACCTATGTCTTTCGGGACATATGGACAGTA
1 TTACCTATGTCTTTCGGGACATATGGACAGTA
579761 TTACCTATGT-TCTTCGGGACATATGGACAGT-
1 TTACCTATGTCT-TTCGGGACATATGGACAGTA
579792 TTACCTATGT-TGTTCGGGACATATGGACA-TA
1 TTACCTATGTCT-TTCGGGACATATGGACAGTA
579823 TTA
1 TTA
579826 TTATAAGAGC
Statistics
Matches: 153, Mismatches: 6, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
30 1 0.01
31 32 0.21
32 120 0.78
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (32 bp):
TTACCTATGTCTTTCGGGACATATGGACAGTA
Found at i:580575 original size:22 final size:21
Alignment explanation
Indices: 580527--580579 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
580517 GACCGAAATT
*
580527 ACTGTAGCAAGGGTATAGGTAC
1 ACTGTAGC-AGGGTATAGATAC
*
580549 ACTGTAGCAGGGTATCGATACC
1 ACTGTAGCAGGGTATAGATA-C
*
580571 CCTGTAGCA
1 ACTGTAGCA
580580 TTCTGGAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 10 0.37
22 17 0.63
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (21 bp):
ACTGTAGCAGGGTATAGATAC
Found at i:587803 original size:13 final size:14
Alignment explanation
Indices: 587773--587802 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
587763 TTAGATTGTA
587773 TTTT-AAATTGATT
1 TTTTAAAATTGATT
587786 TTTTAAAATTGATT
1 TTTTAAAATTGATT
587800 TTT
1 TTT
587803 AGTGTTTAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (14 bp):
TTTTAAAATTGATT
Found at i:593953 original size:2 final size:2
Alignment explanation
Indices: 593946--593986 Score: 52
Period size: 2 Copynumber: 22.0 Consensus size: 2
593936 CGGAGTTATT
*
593946 TA TA TA TA TA TA TT TA T- TA TA TA TA TA TA TA TA -A TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
593985 TA
1 TA
593987 GTTTGTGAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
1 3 0.09
2 31 0.91
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:594100 original size:37 final size:37
Alignment explanation
Indices: 594012--594465 Score: 281
Period size: 38 Copynumber: 12.4 Consensus size: 37
594002 TTTTGATGAA
* * * *
594012 ATATAATATATAGTTTTCAGAAAACGATTTTCGAAATTTT
1 ATATAATATATAGTTTTTA-AAAAC-ATTTT-TAAAATAT
* *
594052 ATATATTATATAGTTTTTGAAAACATTTTTAAAATAT
1 ATATAATATATAGTTTTTAAAAACATTTTTAAAATAT
* * *
594089 ATATAATATATAG-TTTTGAAAACATTTTGAAAACATTT
1 ATATAATATATAGTTTTTAAAAACATTTT-TAAA-ATAT
* * *
594127 ATATATTATATAGTTTTT-AAAGCAATTTTGAAAACT-T
1 ATATAATATATAGTTTTTAAAAAC-ATTTTTAAAA-TAT
594164 ATATAATATATAGTTTTTAAAAACATTTTTGAGAAAT-T
1 ATATAATATATAGTTTTTAAAAACATTTTT-A-AAATAT
* * * *
594202 ATATAATTTATCG-TTTTAAAAATATTTTTGAAAAAATT
1 ATATAATATATAGTTTTTAAAAACATTTTT-AAAATA-T
* *
594240 TTATAATATATAG-TTTTAAAAATATTTTTGAAAA-ATT
1 ATATAATATATAGTTTTTAAAAACATTTTT-AAAATA-T
*
594277 ATATAATATATAGTTTTAAAAAACATTTTTTGAAAA-ATT
1 ATATAATATATAGTTTTTAAAAACA-TTTTT-AAAATA-T
* *
594316 ATATAATATATAG-TTTTAAAAATATTTTTTGAAA-A-
1 ATATAATATATAGTTTTTAAAAACA-TTTTTAAAATAT
* * *
594351 CT-T-ATATATA-TTTTT-AAAACATTTTGAAAA-CT
1 ATATAATATATAGTTTTTAAAAACATTTTTAAAATAT
* * * * *
594383 ATACAATGTATAG-TTTTGAAATC-TTTTTTAAA-A-
1 ATATAATATATAGTTTTTAAAAACATTTTTAAAATAT
*
594416 ATAT-A-ATATAG--TTTAAAAATATTTTTTGAAATATAT
1 ATATAATATATAGTTTTTAAAAACA-TTTTT-AAA-ATAT
*
594452 ATATATTATATAGT
1 ATATAATATATAGT
594466 ATTATTATTT
Statistics
Matches: 340, Mismatches: 47, Indels: 55
0.77 0.11 0.12
Matches are distributed among these distances:
30 6 0.02
31 12 0.04
32 12 0.04
33 16 0.05
34 19 0.06
35 6 0.02
36 22 0.06
37 80 0.24
38 108 0.32
39 43 0.13
40 16 0.05
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.46
Consensus pattern (37 bp):
ATATAATATATAGTTTTTAAAAACATTTTTAAAATAT
Found at i:594135 original size:75 final size:77
Alignment explanation
Indices: 594012--594362 Score: 391
Period size: 75 Copynumber: 4.6 Consensus size: 77
594002 TTTTGATGAA
* * *
594012 ATATAATATATAGTTTTCAGAAAACGATTTTCG-AAATTTTATATATTATATAGTTTTTGAAAAC
1 ATATAATATATAGTTTT-A-AAAAC-ATTTTTGAAAAATTTATATATTATATAGTTTTTAAAAAC
594076 ATTTTT-AAAATA-T
63 ATTTTTGAAAATATT
* * *
594089 ATATAATATATAGTTTTGAAAACA-TTTTGAAAACATTTATATATTATATAGTTTTT-AAAGCAA
1 ATATAATATATAGTTTTAAAAACATTTTTGAAAA-ATTTATATATTATATAGTTTTTAAAAACAT
*
594152 TTTTGAAAA-CTT
65 TTTTGAAAATATT
* * *
594164 ATATAATATATAGTTTTTAAAAACATTTTTGAGAAA-TTATATAATT-TATCG-TTTTAAAAATA
1 ATATAATATATAG-TTTTAAAAACATTTTTGAAAAATTTATAT-ATTATATAGTTTTTAAAAACA
*
594226 TTTTTGAAAAAATT
64 TTTTTGAAAATATT
* * * *
594240 TTATAATATATAGTTTTAAAAATATTTTTGAAAAA-TTATATAATATATAGTTTTAAAAAACATT
1 ATATAATATATAGTTTTAAAAACATTTTTGAAAAATTTATATATTATATAGTTTTTAAAAACA-T
594304 TTTTGAAAA-ATT
65 TTTTGAAAATATT
* *
594316 ATATAATATATAGTTTTAAAAATATTTTTTGAAAACTTATATATATT
1 ATATAATATATAGTTTTAAAAACA-TTTTTGAAAAATT-TATATATT
594363 TTTAAAACAT
Statistics
Matches: 236, Mismatches: 23, Indels: 28
0.82 0.08 0.10
Matches are distributed among these distances:
73 4 0.02
74 19 0.08
75 97 0.41
76 63 0.27
77 45 0.19
78 1 0.00
79 7 0.03
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.46
Consensus pattern (77 bp):
ATATAATATATAGTTTTAAAAACATTTTTGAAAAATTTATATATTATATAGTTTTTAAAAACATT
TTTGAAAATATT
Found at i:594139 original size:38 final size:38
Alignment explanation
Indices: 594012--594360 Score: 374
Period size: 38 Copynumber: 9.1 Consensus size: 38
594002 TTTTGATGAA
* *
594012 ATATAATATATAGTTTTCAGAAAACGATTTTCG-AAATTTT
1 ATATAATATATAGTTTT-A-AAAAC-ATTTTTGAAAAATTT
* * *
594052 ATATATTATATAGTTTTTGAAAACATTTTT--AAAATAT
1 ATATAATATATAG-TTTTAAAAACATTTTTGAAAAATTT
*
594089 ATATAATATATAGTTTTGAAAACA-TTTTGAAAACATTT
1 ATATAATATATAGTTTTAAAAACATTTTTGAAAA-ATTT
* * * * *
594127 ATATATTATATAGTTTTTAAAGCAATTTTG-AAAACTT
1 ATATAATATATAGTTTTAAAAACATTTTTGAAAAATTT
*
594164 ATATAATATATAGTTTTTAAAAACATTTTTGAGAAA-TT
1 ATATAATATATAG-TTTTAAAAACATTTTTGAAAAATTT
* * *
594202 ATATAATTTATCGTTTTAAAAATATTTTTGAAAAAATTT
1 ATATAATATATAGTTTTAAAAACATTTTTG-AAAAATTT
*
594241 -TATAATATATAGTTTTAAAAATATTTTTGAAAAA-TT
1 ATATAATATATAGTTTTAAAAACATTTTTGAAAAATTT
594277 ATATAATATATAGTTTTAAAAAACATTTTTTGAAAAA-TT
1 ATATAATATATAGTTTT-AAAAACA-TTTTTGAAAAATTT
* *
594316 ATATAATATATAGTTTTAAAAATATTTTTTGAAAACTTAT
1 ATATAATATATAGTTTTAAAAACA-TTTTTGAAAAATT-T
594356 ATATA
1 ATATA
594361 TTTTTAAAAC
Statistics
Matches: 270, Mismatches: 25, Indels: 28
0.84 0.08 0.09
Matches are distributed among these distances:
35 4 0.01
36 13 0.05
37 72 0.27
38 113 0.42
39 46 0.17
40 18 0.07
41 4 0.01
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.46
Consensus pattern (38 bp):
ATATAATATATAGTTTTAAAAACATTTTTGAAAAATTT
Found at i:594482 original size:24 final size:24
Alignment explanation
Indices: 594462--594527 Score: 68
Period size: 24 Copynumber: 2.9 Consensus size: 24
594452 ATATATTATA
*
594462 TAGTATTATTATTTTTTTATTTAC
1 TAGTATTATTATTTATTTATTTAC
* *
594486 TTGTTTTATTATTTATTTATTTA-
1 TAGTATTATTATTTATTTATTTAC
*
594509 T-TTA-T-TTATTTATTTATTT
1 TAGTATTATTATTTATTTATTT
594528 TTTCGTTTTG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
20 14 0.38
21 1 0.03
22 1 0.03
23 1 0.03
24 20 0.54
ACGTcount: A:0.23, C:0.02, G:0.03, T:0.73
Consensus pattern (24 bp):
TAGTATTATTATTTATTTATTTAC
Found at i:594501 original size:4 final size:4
Alignment explanation
Indices: 594470--594527 Score: 75
Period size: 4 Copynumber: 14.5 Consensus size: 4
594460 TATAGTATTA
*
594470 TTAT TTTT TTAT TTACT TGT-T TTA- TTAT TTAT TTAT TTAT TTAT TTAT
1 TTAT TTAT TTAT TTA-T T-TAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
594518 TTAT TTAT TT
1 TTAT TTAT TT
594528 TTTCGTTTTG
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
3 4 0.08
4 41 0.85
5 2 0.04
6 1 0.02
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:595829 original size:13 final size:13
Alignment explanation
Indices: 595811--595845 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
595801 TTTATTTCGT
595811 TTTTTATTTATTA
1 TTTTTATTTATTA
*
595824 TTTTTATCTATTA
1 TTTTTATTTATTA
*
595837 TTTGTATTT
1 TTTTTATTT
595846 TTTTAAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.74
Consensus pattern (13 bp):
TTTTTATTTATTA
Found at i:595880 original size:12 final size:14
Alignment explanation
Indices: 595865--595901 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
595855 TTCTTTTTCA
595865 TTTTTAT-TAT-CT
1 TTTTTATATATCCT
595877 TTTTTATATATCCT
1 TTTTTATATATCCT
595891 TTTTTATATAT
1 TTTTTATATAT
595902 ATCTTTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 7 0.30
13 3 0.13
14 13 0.57
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTTTATATATCCT
Found at i:595900 original size:16 final size:14
Alignment explanation
Indices: 595865--595910 Score: 60
Period size: 15 Copynumber: 3.3 Consensus size: 14
595855 TTCTTTTTCA
595865 TTTTTAT-TATC-T
1 TTTTTATATATCTT
595877 TTTTTATATATCCTT
1 TTTTTATATAT-CTT
595892 TTTTATATATATCTT
1 TTTT-TATATATCTT
595907 TTTT
1 TTTT
595911 CTATTTTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
12 7 0.23
13 3 0.10
14 1 0.03
15 12 0.40
16 7 0.23
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTTTATATATCTT
Found at i:601452 original size:84 final size:81
Alignment explanation
Indices: 601194--601799 Score: 527
Period size: 84 Copynumber: 7.3 Consensus size: 81
601184 ACGTTTGTAA
* * * *
601194 CATAACTTAAATCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTTGACTACGCTCAGCTC
1 CATAACTTAAGTCAAGAAGGGTTATCTG-C-A-CAAAGACCTTCGAGTTCGACTACGCTCAGCTC
**
601259 TGAGGCACATCATTTGCAG
63 CAAGGCACATCATTTGCAG
* * ** * * * *
601278 TATAACTTAAGT-AGAGAAGGGCTATCTGC-CAAAGACCCCCAAGTTCGATTACACTCAGCTTCG
1 CATAACTTAAGTCA-AGAAGGGTTATCTGCACAAAGACCTTCGAGTTCGACTACGCTCAGC-TCC
* *
601341 AGGGCACATCATTTGTAG
64 AAGGCACATCATTTGCAG
*
601359 CATAACTTAAGTCAAGAAGGGTTATCTGCCAACAATAGACCTTCGAGTTCGACTATGCTCAGCTC
1 CATAACTTAAGTCAAGAAGGGTTATCTG-C-ACAA-AGACCTTCGAGTTCGACTACGCTCAGCTC
* *
601424 CAAGACACATCATTTGTAG
63 CAAGGCACATCATTTGCAG
* * ** * * * *
601443 CATAGCTTAAGTCGAGAAGGGTTATCTGC-CAAAGACCCCCGAGTTTGATTACACTCAGCTTCGA
1 CATAACTTAAGTCAAGAAGGGTTATCTGCACAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCA
* * **
601507 GGGCATATCATTCACAG
65 AGGCACATCATTTGCAG
* * * * *
601524 CATAACTCAAGGCTAGAAGGGTTATCTATCACCAAGGACCTTCGAGTTCGACTACGCTCAGCTCC
1 CATAACTTAAGTCAAGAAGGGTTATCT-GCA-CAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
*
601589 AAGGCATATCATTTGCAG
64 AAGGCACATCATTTGCAG
* * * * ** * * *
601607 CAATAGCTTAAGTCGAGAAGGGCTATCTGC-CAAAGCCCCCCGAGTTCGATTACACTCAGCTTCG
1 C-ATAACTTAAGTCAAGAAGGGTTATCTGCACAAAGACCTTCGAGTTCGACTACGCTCAGC-TCC
*
601671 AGGGCACATCATTTGCAG
64 AAGGCACATCATTTGCAG
* ** * * * *
601689 CGTAACACAAGGCTAGAAGGGTTATCTGCCACCAAAGACCTTTGAGTTCGACTACGCTCATCTCC
1 CATAACTTAAGTCAAGAAGGGTTATCTG-CA-CAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
*
601754 AAGGAACATCATTTGCAG
64 AAGGCACATCATTTGCAG
* * *
601772 CATAGCTCAAGGCAAGAAGGGTTATCTG
1 CATAACTTAAGTCAAGAAGGGTTATCTG
601800 TCAATAAATT
Statistics
Matches: 414, Mismatches: 92, Indels: 33
0.77 0.17 0.06
Matches are distributed among these distances:
80 44 0.11
81 125 0.30
82 23 0.06
83 63 0.15
84 138 0.33
85 21 0.05
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (81 bp):
CATAACTTAAGTCAAGAAGGGTTATCTGCACAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA
GGCACATCATTTGCAG
Found at i:601471 original size:165 final size:164
Alignment explanation
Indices: 601208--601799 Score: 817
Period size: 165 Copynumber: 3.6 Consensus size: 164
601198 ACTTAAATCG
* * ** *
601208 AGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTTGACTACGCTCAGCTCTGAGGCACATCATT
1 AGAAGGGTTATCTGCCAA-CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGACACATCATT
* * * *
601273 TGCAGTATAACTTAAGTAGAGAAGGGCTATCTGCCAAAGACCCCCAAGTTCGATTACACTCAGCT
65 TGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCT
* * * *
601338 TCGAGGGCACATCATTTGTAGCATAACTTAAGTCA
130 TCGAGGGCACATCATTTGCAGCATAACTCAAGGCT
*
601373 AGAAGGGTTATCTGCCAACAATAGACCTTCGAGTTCGACTATGCTCAGCTCCAAGACACATCATT
1 AGAAGGGTTATCTGCCAACAA-AGACCTTCGAGTTCGACTACGCTCAGCTCCAAGACACATCATT
* * *
601438 TGTAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGACCCCCGAGTTTGATTACACTCAGCT
65 TGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCT
* **
601503 TCGAGGGCATATCATTCACAGCATAACTCAAGGCT
130 TCGAGGGCACATCATTTGCAGCATAACTCAAGGCT
** * * * *
601538 AGAAGGGTTATCTATCACCAAGGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTT
1 AGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGACACATCATTT
*
601603 GCAGCAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGCCCCCCGAGTTCGATTACACTCAGCT
66 GCAGC-ATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCT
* *
601668 TCGAGGGCACATCATTTGCAGCGTAACACAAGGCT
130 TCGAGGGCACATCATTTGCAGCATAACTCAAGGCT
* * *
601703 AGAAGGGTTATCTGCCACCAAAGACCTTTGAGTTCGACTACGCTCATCTCCAAGGA-ACATCATT
1 AGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GACACATCATT
* * * *
601767 TGCAGCATAGCTCAAGGCAAGAAGGGTTATCTG
65 TGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG
601800 TCAATAAATT
Statistics
Matches: 377, Mismatches: 47, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
164 70 0.19
165 306 0.81
166 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.24
Consensus pattern (164 bp):
AGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGACACATCATTT
GCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTT
CGAGGGCACATCATTTGCAGCATAACTCAAGGCT
Found at i:602332 original size:2 final size:2
Alignment explanation
Indices: 602325--602365 Score: 52
Period size: 2 Copynumber: 22.0 Consensus size: 2
602315 GAGTTATTTT
*
602325 TA TA TA TA TA TT TA T- TA TA TA TA TA TA TA TA TA -A TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
602364 TA
1 TA
602366 GTTTGTGAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
1 3 0.09
2 31 0.91
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:602344 original size:15 final size:14
Alignment explanation
Indices: 602319--602350 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
602309 CTCCCGGAGT
602319 TATTTTTATATATA
1 TATTTTTATATATA
602333 TATTTATTATATATA
1 TATTT-TTATATATA
602348 TAT
1 TAT
602351 ATATATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TATTTTTATATATA
Found at i:602507 original size:38 final size:36
Alignment explanation
Indices: 602391--602786 Score: 250
Period size: 37 Copynumber: 11.0 Consensus size: 36
602381 TTTTGACGAA
* *
602391 ATATAATATATATTTTCAGAAAACGATTTTG-AAATTT
1 ATATAATATATATTTT-TGAAAAC-ATTTTGAAAAATT
* * *
602428 ATATATTATAAATTTTTGAAAATATTTTG-AAAA-T
1 ATATAATATATATTTTTGAAAACATTTTGAAAAATT
602462 ATAT-ATATATATTTTTGAAAACATTTTGAAAACATT
1 ATATAATATATATTTTTGAAAACATTTTGAAAA-ATT
* * *
602498 -TATATTATATAGTTTTT-AAAGCAATTTTGAAAACTT
1 ATATAATATATA-TTTTTGAAAAC-ATTTTGAAAAATT
* *
602534 ATATAATATATAGTTTTTTAAAACATTTTTGAGAAATT
1 ATATAATATATA-TTTTTGAAAACA-TTTTGAAAAATT
** * *
602572 ATATAATATATCGTTTTAAAAATATTTTTGAAAAAATT
1 ATATAATATATATTTTTGAAAACA-TTTTG-AAAAATT
* * *
602610 TTATAACATATAGTTTT-AATAACATTTTTGAAAAATT
1 ATATAATATATATTTTTGAA-AACA-TTTTGAAAAATT
**
602647 ATATAATATATAGTTTTAAAAAACATTTTTTTTTGAAAAATT
1 ATATAATATATA-TTTTTGAAAACA-----TTTTGAAAAATT
* * *
602689 ATAT-A-ATATAGTTTTAAAATATATTTTG-AAAA--
1 ATATAATATATATTTTTGAAA-ACATTTTGAAAAATT
* *
602721 CT-T-ATATATATTTTT-AAAACATTTTG-AAAACT
1 ATATAATATATATTTTTGAAAACATTTTGAAAAATT
* * * * *
602753 ATACAATGTATAGTTTTGAAATC-TTTTTAAAAAT
1 ATATAATATATATTTTTGAAAACATTTTGAAAAAT
602787 ATAATATAGT
Statistics
Matches: 293, Mismatches: 41, Indels: 52
0.76 0.11 0.13
Matches are distributed among these distances:
30 11 0.04
31 5 0.02
32 11 0.04
33 21 0.07
34 26 0.09
35 26 0.09
36 18 0.06
37 80 0.27
38 61 0.21
39 9 0.03
40 7 0.02
41 1 0.00
42 17 0.06
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (36 bp):
ATATAATATATATTTTTGAAAACATTTTGAAAAATT
Found at i:602582 original size:75 final size:74
Alignment explanation
Indices: 602391--602769 Score: 262
Period size: 75 Copynumber: 5.2 Consensus size: 74
602381 TTTTGACGAA
** * * * * * *
602391 ATATAATATATA-TTTTCAGAAAACGA-TTTTG-AAATTTATATATTATAAATTTTTGAAAA-TA
1 ATATAATATATAGTTTT-TTAAAAC-ATTTTTGAAAAATTATATAATATATAGTTTTAAAAACAA
602452 TTTTGAAAA-T
64 TTTTGAAAATT
* * * *
602462 ATAT-ATATATA-TTTTTGAAAACA-TTTTGAAAACATT-TATATTATATAGTTTTTAAAGCAAT
1 ATATAATATATAGTTTTTTAAAACATTTTTGAAAA-ATTATATAATATATAGTTTTAAAAACAAT
602523 TTTGAAAACTT
65 TTTGAAAA-TT
* * * *
602534 ATATAATATATAGTTTTTTAAAACATTTTTGAGAAATTATATAATATATCGTTTTAAAAATATTT
1 ATATAATATATAGTTTTTTAAAACATTTTTGAAAAATTATATAATATATAGTTTTAAAAACAATT
602599 TTGAAAAAATT
66 TTG--AAAATT
* *
602610 TTATAACATATAG--TTTTAATAACATTTTTGAAAAATTATATAATATATAGTTTTAAAAAACAT
1 ATATAATATATAGTTTTTTAA-AACATTTTTGAAAAATTATATAATATATAGTTTT-AAAAACA-
*
602673 TTTTTTTTGAAAAATT
63 ---ATTTTG-AAAATT
* *
602689 ATAT-A-ATATAG--TTTTAAAATATATTTTG-AAAACT-TAT-ATATAT--TTTT-AAAAC-AT
1 ATATAATATATAGTTTTTTAAAACAT-TTTTGAAAAATTATATAATATATAGTTTTAAAAACAAT
*
602743 TTTGAAAACT
65 TTTGAAAATT
* *
602753 ATACAATGTATAGTTTT
1 ATATAATATATAGTTTT
602770 GAAATCTTTT
Statistics
Matches: 259, Mismatches: 27, Indels: 47
0.78 0.08 0.14
Matches are distributed among these distances:
64 8 0.03
65 6 0.02
66 5 0.02
68 8 0.03
69 26 0.10
70 28 0.11
71 4 0.02
72 9 0.03
73 7 0.03
74 26 0.10
75 66 0.25
76 28 0.11
77 21 0.08
78 1 0.00
79 10 0.04
80 6 0.02
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (74 bp):
ATATAATATATAGTTTTTTAAAACATTTTTGAAAAATTATATAATATATAGTTTTAAAAACAATT
TTGAAAATT
Found at i:602729 original size:37 final size:36
Alignment explanation
Indices: 602391--602731 Score: 212
Period size: 38 Copynumber: 9.2 Consensus size: 36
602381 TTTTGACGAA
* *
602391 ATATA-ATATATA-TTTTCAGAAAACGATTTTGAAATTT
1 ATATATATATATAGTTTT-A-AAAA-TATTTTGAAAATT
* * *
602428 ATATAT-TATAAATTTTTGAAAATATTTTGAAAA-T
1 ATATATATATATAGTTTTAAAAATATTTTGAAAATT
* *
602462 ATATATATATAT--TTTTGAAAACATTTTGAAAACATT
1 ATATATATATATAGTTTTAAAAATATTTTG-AAA-ATT
*
602498 -TATAT-TATATAGTTTTTAAAGCA-ATTTTGAAAACTT
1 ATATATATATATAG-TTTTAAA-AATATTTTGAAAA-TT
602534 ATATA-ATATATAGTTTTTTAAAACAT-TTTTGAGAAATT
1 ATATATATATATAG--TTTTAAAA-ATATTTTGA-AAATT
*
602572 ATATA-ATATATCGTTTTAAAAATATTTTTGAAAAAATT
1 ATATATATATATAGTTTTAAAAATA-TTTTG--AAAATT
* *
602610 TTATA-ACATATAGTTTTAATAACAT-TTTTGAAAAATT
1 ATATATATATATAGTTTTAA-AA-ATATTTTG-AAAATT
* *
602647 ATATA-ATATATAGTTTTAAAAAACATTTTTTTTTGAAAAAT
1 ATATATATATATAGTTTT--AAAA-A---TATTTTGAAAATT
602688 -TATATA-ATATAGTTTTAAAATATATTTTGAAAACTT
1 ATATATATATATAGTTTTAAAA-ATATTTTGAAAA-TT
602724 ATATATAT
1 ATATATAT
602732 TTTTAAAACA
Statistics
Matches: 252, Mismatches: 19, Indels: 65
0.75 0.06 0.19
Matches are distributed among these distances:
33 15 0.06
34 15 0.06
35 32 0.13
36 19 0.08
37 66 0.26
38 69 0.27
39 8 0.03
40 16 0.06
41 7 0.03
42 5 0.02
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (36 bp):
ATATATATATATAGTTTTAAAAATATTTTGAAAATT
Found at i:602808 original size:29 final size:30
Alignment explanation
Indices: 602689--602823 Score: 96
Period size: 29 Copynumber: 4.3 Consensus size: 30
602679 TTGAAAAATT
*
602689 ATATAATATAGTTTTAAAATATATTTTGAAAA
1 ATATAATATAGTTTT-AAA-ATCTTTTGAAAA
* *
602721 CT-TATATATATTTTTAAAA-CATTTTGAAAA
1 ATATA-ATATAGTTTTAAAATC-TTTTGAAAA
* * *
602751 CTATACAATGTATAGTTTTGAAATCTTTTTAAAA
1 --ATATAA--TATAGTTTTAAAATCTTTTGAAAA
* *
602785 ATATAATATAG-TTTAAAATTTTTTGAAAT
1 ATATAATATAGTTTTAAAATCTTTTGAAAA
*
602814 ATATATTATA
1 ATATAATATA
602824 TAGTATTATT
Statistics
Matches: 81, Mismatches: 14, Indels: 19
0.71 0.12 0.17
Matches are distributed among these distances:
29 23 0.28
30 15 0.19
31 5 0.06
32 17 0.21
33 1 0.01
34 19 0.23
35 1 0.01
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (30 bp):
ATATAATATAGTTTTAAAATCTTTTGAAAA
Found at i:602843 original size:23 final size:24
Alignment explanation
Indices: 602824--602869 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
602814 ATATATTATA
602824 TAGTATTATTATTT-TTTATTTAC
1 TAGTATTATTATTTATTTATTTAC
* *
602847 TTGTTTTATTATTTATTTATTTA
1 TAGTATTATTATTTATTTATTTA
602870 TTTATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.70
Consensus pattern (24 bp):
TAGTATTATTATTTATTTATTTAC
Found at i:602862 original size:4 final size:4
Alignment explanation
Indices: 602832--602884 Score: 67
Period size: 4 Copynumber: 13.5 Consensus size: 4
602822 TATAGTATTA
602832 TTAT TT-T TTAT TTACT TGT-T TTA- TTAT TTAT TTAT TTAT TTAT TTAT
1 TTAT TTAT TTAT TTA-T T-TAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
602879 TTAT TT
1 TTAT TT
602885 TTTCGTTTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
3 7 0.16
4 34 0.77
5 2 0.05
6 1 0.02
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (4 bp):
TTAT
Found at i:604138 original size:4 final size:4
Alignment explanation
Indices: 604109--604185 Score: 66
Period size: 4 Copynumber: 18.8 Consensus size: 4
604099 TTTGTTATTA
**
604109 TTAT TT-T TTACT TTAT TTCG TTAT TTAT TTAT TTAT TTAT TTAT TTAT
1 TTAT TTAT TTA-T TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
* * * *
604157 TATTT TTAT CTAT TTTT TGTAT TTTT TTA
1 T-TAT TTAT TTAT TTAT T-TAT TTAT TTA
604186 AATATTCTTT
Statistics
Matches: 57, Mismatches: 12, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
3 3 0.05
4 44 0.77
5 10 0.18
ACGTcount: A:0.19, C:0.04, G:0.03, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:604212 original size:12 final size:13
Alignment explanation
Indices: 604197--604228 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
604187 ATATTCTTTT
604197 TCATTTTTA-ATA
1 TCATTTTTATATA
604209 TCATTTTTATATA
1 TCATTTTTATATA
604222 TC-TTTTT
1 TCATTTTT
604229 TCTATTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.25, C:0.09, G:0.00, T:0.66
Consensus pattern (13 bp):
TCATTTTTATATA
Found at i:604368 original size:12 final size:12
Alignment explanation
Indices: 604351--604380 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
604341 TCGGATCGAA
604351 TAATTTAAATTT
1 TAATTTAAATTT
604363 TAATTTAAATTT
1 TAATTTAAATTT
*
604375 CAATTT
1 TAATTT
604381 TCGCAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (12 bp):
TAATTTAAATTT
Found at i:608471 original size:55 final size:51
Alignment explanation
Indices: 608328--608587 Score: 219
Period size: 55 Copynumber: 5.0 Consensus size: 51
608318 TCGATAATTT
* * * * **
608328 TGATCTAATAGTATTTTAGATAATG-AAAATATAAATATTCATATTTGATAATTT
1 TGATTTAATAGTATTTTAGTTCATGAAAAATATAAATATTCA-AATT-A-AA-AA
* * *
608382 TGATCTAATAATATTTTAGTTCATGAAAAGTATAAATATTCAAATTAAAAA
1 TGATTTAATAGTATTTTAGTTCATGAAAAATATAAATATTCAAATTAAAAA
* *
608433 TGATTTATTAGTATTTTAGTTCATGAAAAA-A-AAATATAAATGAATATTTAAAAAA
1 TGATTTAATAGTATTTTAGTTCATGAAAAATATAAATAT---TCAA-A-TT-AAAAA
* *
608488 TGATTTAATAGTATTTTAATTCAT--AAAA-CTAAATATTCAAATTAAAAGA
1 TGATTTAATAGTATTTTAGTTCATGAAAAATATAAATATTCAAATTAAAA-A
* * *
608537 TGATAATAATAGTATTTTATTTCATGAAAAA-CTAAATATTCAAATTAAAAA
1 TGAT-TTAATAGTATTTTAGTTCATGAAAAATATAAATATTCAAATTAAAAA
608588 AATATAAAAA
Statistics
Matches: 176, Mismatches: 18, Indels: 27
0.80 0.08 0.12
Matches are distributed among these distances:
48 4 0.02
49 13 0.07
50 20 0.11
51 30 0.17
52 28 0.16
53 6 0.03
54 33 0.19
55 42 0.24
ACGTcount: A:0.48, C:0.05, G:0.08, T:0.39
Consensus pattern (51 bp):
TGATTTAATAGTATTTTAGTTCATGAAAAATATAAATATTCAAATTAAAAA
Found at i:608561 original size:50 final size:50
Alignment explanation
Indices: 608382--608588 Score: 188
Period size: 51 Copynumber: 4.0 Consensus size: 50
608372 TTGATAATTT
* * *
608382 TGATCTAATAATATTTTAGTTCATGAAAAGTA-TAAATATTCAAATT-AAAAA
1 TGATATAATAGTATTTTAATTCAT-AAAA--ACTAAATATTCAAATTAAAAAA
* * * * *
608433 TGATTTATTAGTATTTTAGTTCATGAAAAA-AAAATATAAATGAATATTTAAAAAA
1 TGATATAATAGTATTTTAATTCAT-AAAAACTAAATAT---TCAA-A-TTAAAAAA
* *
608488 TGATTTAATAGTATTTTAATTCAT-AAAACTAAATATTCAAATTAAAAGA
1 TGATATAATAGTATTTTAATTCATAAAAACTAAATATTCAAATTAAAAAA
*
608537 TGATAATAATAGTATTTTATTTCATGAAAAACTAAATATTCAAATTAAAAAA
1 TGAT-ATAATAGTATTTTAATTCAT-AAAAACTAAATATTCAAATTAAAAAA
608589 ATATAAAAAT
Statistics
Matches: 133, Mismatches: 13, Indels: 19
0.81 0.08 0.12
Matches are distributed among these distances:
49 18 0.14
50 19 0.14
51 29 0.22
52 27 0.20
53 5 0.04
54 8 0.06
55 27 0.20
ACGTcount: A:0.50, C:0.05, G:0.07, T:0.38
Consensus pattern (50 bp):
TGATATAATAGTATTTTAATTCATAAAAACTAAATATTCAAATTAAAAAA
Found at i:608581 original size:52 final size:49
Alignment explanation
Indices: 608328--608587 Score: 234
Period size: 54 Copynumber: 5.0 Consensus size: 49
608318 TCGATAATTT
* * * * **
608328 TGATCTAATAGTATTTTAGATAATGAAAATATAAATATTCATATTTGATAATTT
1 TGATTTAATAGTATTTTAGTTCATGAAAA-ATAAATATTCA-AATT-A-AA-AA
* *
608382 TGATCTAATAATATTTTAGTTCATGAAAAGTATAAATATTCAAATTAAAAA
1 TGATTTAATAGTATTTTAGTTCATGAAAA--ATAAATATTCAAATTAAAAA
* * *
608433 TGATTTATTAGTATTTTAGTTCATGAAAAAAAAATATAAATGAATATTTAAAAAA
1 TGATTTAATAGTATTTTAGTTCATGAAAAATAAATAT---TCAA-A-TT-AAAAA
* *
608488 TGATTTAATAGTATTTTAATTCAT-AAAACTAAATATTCAAATTAAAAGA
1 TGATTTAATAGTATTTTAGTTCATGAAAAATAAATATTCAAATTAAAA-A
* *
608537 TGATAATAATAGTATTTTATTTCATGAAAAACTAAATATTCAAATTAAAAA
1 TGAT-TTAATAGTATTTTAGTTCATGAAAAA-TAAATATTCAAATTAAAAA
608588 AATATAAAAA
Statistics
Matches: 176, Mismatches: 19, Indels: 25
0.80 0.09 0.11
Matches are distributed among these distances:
48 4 0.02
49 14 0.08
50 19 0.11
51 34 0.19
52 23 0.13
53 2 0.01
54 41 0.23
55 39 0.22
ACGTcount: A:0.48, C:0.05, G:0.08, T:0.39
Consensus pattern (49 bp):
TGATTTAATAGTATTTTAGTTCATGAAAAATAAATATTCAAATTAAAAA
Found at i:608599 original size:69 final size:68
Alignment explanation
Indices: 608526--608676 Score: 293
Period size: 69 Copynumber: 2.2 Consensus size: 68
608516 CTAAATATTC
608526 AAATTAAAAGATGATAATAATAGTATTTTATTTCATGAAAAACTAAATATTCAAATTAAAAAAAT
1 AAATTAAAAGATGATAATAATAGTATTTTATTTCATGAAAAACTAAATATTCAAATT-AAAAAAT
608591 ATAA
65 ATAA
608595 AAATTAAAAGATGATAATAATAGTATTTTATTTCATGAAAAACTAAATATTCAAATTAAAAAATA
1 AAATTAAAAGATGATAATAATAGTATTTTATTTCATGAAAAACTAAATATTCAAATTAAAAAATA
608660 TAA
66 TAA
608663 AAATTAAAAGATGA
1 AAATTAAAAGATGA
608677 CAATTCAATG
Statistics
Matches: 82, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
68 25 0.30
69 57 0.70
ACGTcount: A:0.57, C:0.04, G:0.07, T:0.32
Consensus pattern (68 bp):
AAATTAAAAGATGATAATAATAGTATTTTATTTCATGAAAAACTAAATATTCAAATTAAAAAATA
TAA
Done.