Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 2 of 352
Found at i:384339 original size:14 final size:15
Alignment explanation
Indices: 384322--384354 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
384312 TTTAGAGTGT
384322 TTTTTTTTATTTG-G
1 TTTTTTTTATTTGAG
*
384336 TTTTTTTTTTTTGAG
1 TTTTTTTTATTTGAG
384351 TTTT
1 TTTT
384355 ATTGGTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.06, C:0.00, G:0.12, T:0.82
Consensus pattern (15 bp):
TTTTTTTTATTTGAG
Found at i:387941 original size:27 final size:27
Alignment explanation
Indices: 387910--387977 Score: 79
Period size: 26 Copynumber: 2.6 Consensus size: 27
387900 ACTGTCTTTG
*
387910 TAAATTTAATTTC-TATTTTTTAAAAAC
1 TAAATTTAATCTCTTATTTTTT-AAAAC
* *
387937 TAAATTT-AGCTCTTATTTTTTAAAAT
1 TAAATTTAATCTCTTATTTTTTAAAAC
387963 TAAATTTAATC-CTTA
1 TAAATTTAATCTCTTA
387978 ACCTTTAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
26 18 0.51
27 17 0.49
ACGTcount: A:0.38, C:0.09, G:0.01, T:0.51
Consensus pattern (27 bp):
TAAATTTAATCTCTTATTTTTTAAAAC
Found at i:387977 original size:26 final size:27
Alignment explanation
Indices: 387910--387977 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 27
387900 ACTGTCTTTG
*
387910 TAAATTTAAT-TTCTATTTTTTAAAAAC
1 TAAATTTAATCCT-TATTTTTTAAAAAC
* *
387937 TAAATTT-AGCTCTTATTTTTT-AAAAT
1 TAAATTTAATC-CTTATTTTTTAAAAAC
387963 TAAATTTAATCCTTA
1 TAAATTTAATCCTTA
387978 ACCTTTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
26 16 0.47
27 17 0.50
28 1 0.03
ACGTcount: A:0.38, C:0.09, G:0.01, T:0.51
Consensus pattern (27 bp):
TAAATTTAATCCTTATTTTTTAAAAAC
Found at i:388298 original size:22 final size:22
Alignment explanation
Indices: 388255--388298 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
388245 TTAATAATTA
* *
388255 AATTTAACTAAAAAATATTAAG
1 AATTAAACTAAAAAATAGTAAG
388277 AATTAAACTAAGAAAAT-GTAAG
1 AATTAAACTAA-AAAATAGTAAG
388299 TATTGAAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.59, C:0.05, G:0.09, T:0.27
Consensus pattern (22 bp):
AATTAAACTAAAAAATAGTAAG
Found at i:394011 original size:33 final size:32
Alignment explanation
Indices: 393969--394035 Score: 116
Period size: 33 Copynumber: 2.1 Consensus size: 32
393959 AGAAATTTCT
393969 CAAAAAGACAACCACAAACCCAAACATAAAAA
1 CAAAAAGACAACCACAAACCCAAACATAAAAA
*
394001 CAAAGAAGACAACCACAAACCCGAACATAAAAA
1 CAAA-AAGACAACCACAAACCCAAACATAAAAA
394034 CA
1 CA
394036 CGAAGGATAC
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 4 0.12
33 29 0.88
ACGTcount: A:0.63, C:0.28, G:0.06, T:0.03
Consensus pattern (32 bp):
CAAAAAGACAACCACAAACCCAAACATAAAAA
Found at i:403732 original size:30 final size:30
Alignment explanation
Indices: 403665--403755 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 30
403655 TCCATATTTA
* *
403665 TGGAAAATCAAAGATATGGGTATCAAATAA
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
403695 T---AAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
403722 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
403753 TGG
1 TGG
403756 CATAATAAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
27 25 0.46
30 21 0.39
31 8 0.15
ACGTcount: A:0.43, C:0.07, G:0.24, T:0.26
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:408390 original size:30 final size:30
Alignment explanation
Indices: 408323--408413 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 30
408313 TCCATATTTA
* *
408323 TGGAAAATCAAAGATATGGGTATCAAATAA
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
408353 T---AAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
408380 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
408411 TGG
1 TGG
408414 CATAATAAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
27 25 0.46
30 21 0.39
31 8 0.15
ACGTcount: A:0.43, C:0.07, G:0.24, T:0.26
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:419377 original size:22 final size:20
Alignment explanation
Indices: 419345--419385 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
419335 TATAATTCGT
*
419345 TAAAATAATATAATTATAAA
1 TAAAATAATATAATCATAAA
419365 TAAATATACATATAATCATAA
1 TAAA-ATA-ATATAATCATAA
419386 CTTGATACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 3 0.17
22 11 0.61
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (20 bp):
TAAAATAATATAATCATAAA
Found at i:447938 original size:20 final size:20
Alignment explanation
Indices: 447913--447952 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
447903 TTAATAATCT
447913 AATAATC-TAAATTGATTGTA
1 AATAATCAT-AATTGATTGTA
*
447933 AATAATCATAATTGCTTGTA
1 AATAATCATAATTGATTGTA
447953 TATTGTACTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.40
Consensus pattern (20 bp):
AATAATCATAATTGATTGTA
Found at i:448001 original size:80 final size:80
Alignment explanation
Indices: 447868--448028 Score: 322
Period size: 80 Copynumber: 2.0 Consensus size: 80
447858 TCGAAAATGA
447868 TTGTATATTGTACTGAATGCATGTTTTGGTTAAATTTAATAATCTAATAATCTAAATTGATTGTA
1 TTGTATATTGTACTGAATGCATGTTTTGGTTAAATTTAATAATCTAATAATCTAAATTGATTGTA
447933 AATAATCATAATTGC
66 AATAATCATAATTGC
447948 TTGTATATTGTACTGAATGCATGTTTTGGTTAAATTTAATAATCTAATAATCTAAATTGATTGTA
1 TTGTATATTGTACTGAATGCATGTTTTGGTTAAATTTAATAATCTAATAATCTAAATTGATTGTA
448013 AATAATCATAATTGC
66 AATAATCATAATTGC
448028 T
1 T
448029 CCAATAACAA
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 81 1.00
ACGTcount: A:0.36, C:0.07, G:0.12, T:0.44
Consensus pattern (80 bp):
TTGTATATTGTACTGAATGCATGTTTTGGTTAAATTTAATAATCTAATAATCTAAATTGATTGTA
AATAATCATAATTGC
Found at i:455122 original size:43 final size:43
Alignment explanation
Indices: 455074--455160 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
455064 GTTCCTTGCC
455074 TTAGAACCAAAGATTCAAGCTTGTTAAAATGCTTGCAACCTGG
1 TTAGAACCAAAGATTCAAGCTTGTTAAAATGCTTGCAACCTGG
455117 TTAGAACCAAAGATTCAAGCTTGTTAAAATGCTTGCAACCTGG
1 TTAGAACCAAAGATTCAAGCTTGTTAAAATGCTTGCAACCTGG
455160 T
1 T
455161 CTGAATTTAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.29
Consensus pattern (43 bp):
TTAGAACCAAAGATTCAAGCTTGTTAAAATGCTTGCAACCTGG
Found at i:459143 original size:48 final size:48
Alignment explanation
Indices: 458989--459136 Score: 224
Period size: 48 Copynumber: 3.1 Consensus size: 48
458979 ATATATACAC
* **
458989 ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATGCAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
** * *
459037 GGCTCATACATATTTCACATTAGCCTTTCGACTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
*
459085 ATCTCATACATATTTTACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
459133 ATCT
1 ATCT
459137 TGTACATCAA
Statistics
Matches: 88, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 88 1.00
ACGTcount: A:0.30, C:0.24, G:0.07, T:0.39
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
Found at i:460633 original size:50 final size:50
Alignment explanation
Indices: 460506--460754 Score: 275
Period size: 50 Copynumber: 4.8 Consensus size: 50
460496 GATAATAACA
* * ** * *
460506 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* * *
460557 TGCCCATGCCATGTCCCAGACGTGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
460607 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
460657 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
460712 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
460755 TTACCCAAAT
Statistics
Matches: 168, Mismatches: 23, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.54
51 32 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:460685 original size:100 final size:104
Alignment explanation
Indices: 460505--460754 Score: 348
Period size: 100 Copynumber: 2.4 Consensus size: 104
460495 TGATAATAAC
**
460505 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* * *
460570 TCCCAGACGTGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
460607 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
460670 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
460712 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
460755 TTACCCAAAT
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 49 0.37
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:460870 original size:13 final size:13
Alignment explanation
Indices: 460849--460880 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
460839 GCTTGGATCA
*
460849 TCATCAAATAAAT
1 TCATAAAATAAAT
460862 TCATAAAATAAAT
1 TCATAAAATAAAT
460875 TCATAA
1 TCATAA
460881 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:463214 original size:26 final size:27
Alignment explanation
Indices: 463169--463221 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
463159 TTAAATTCTG
* *
463169 GCATGCATTCGGACACTTAAAAATTCA
1 GCATACATTCGAACACTTAAAAATTCA
*
463196 GCATACATTCGAACA-TTAAAATTTCA
1 GCATACATTCGAACACTTAAAAATTCA
463222 CTAGCTGACA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (27 bp):
GCATACATTCGAACACTTAAAAATTCA
Found at i:465712 original size:42 final size:42
Alignment explanation
Indices: 465649--465775 Score: 170
Period size: 42 Copynumber: 3.0 Consensus size: 42
465639 CTTCGTTTTC
** * *
465649 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
*
465692 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
465733 TCGATGCCATAGCCCAGCTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC-ATATTCACATA
465774 TC
1 TC
465776 TCACTGATGC
Statistics
Matches: 76, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
41 10 0.13
42 64 0.84
43 2 0.03
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:465837 original size:47 final size:46
Alignment explanation
Indices: 465734--465857 Score: 167
Period size: 47 Copynumber: 2.7 Consensus size: 46
465724 ATTCATATAT
* * * * *
465734 CGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
* * *
465780 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTATAC-GAAGCACATATCACAC
465827 CGATGCCATATCCCAGATATGGTCTTATACG
1 CGATGCCATATCCCAGATATGGTCTTATACG
465858 GAAATCACTT
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
46 27 0.40
47 41 0.60
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.27
Consensus pattern (46 bp):
CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
Found at i:465917 original size:31 final size:31
Alignment explanation
Indices: 465882--466030 Score: 228
Period size: 31 Copynumber: 4.8 Consensus size: 31
465872 CTTGTCACTT
465882 GTAGCCGAAGCTACCA-TTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTT-TTCACTGATCAG
*
465913 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
465944 GTAGCCGGAGCTACCACTTTTCACTAATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
465975 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
466006 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
466031 TGTCATTTGT
Statistics
Matches: 109, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
31 107 0.98
32 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:466112 original size:50 final size:50
Alignment explanation
Indices: 466006--466182 Score: 257
Period size: 50 Copynumber: 3.5 Consensus size: 50
465996 CACTGATCAG
* * * * *
466006 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTATCCTTGATCAGATAAGT
466057 GTAGCCGAAGCTATCACTTATCACTTTCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCA-TTTATCCTTGATCAGATAAGT
* * *
466107 GTAGCCGAAGCTATTATTTATCACTTTAATTTATCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTATCCTTGATCAGATAAGT
466157 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
466183 GTTGCCATTG
Statistics
Matches: 115, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
49 3 0.03
50 86 0.75
51 26 0.23
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTATCCTTGATCAGATAAGT
Found at i:471351 original size:40 final size:39
Alignment explanation
Indices: 471301--471448 Score: 134
Period size: 39 Copynumber: 3.8 Consensus size: 39
471291 CCCGAGTCCA
* * *
471301 ATTTCTAGCACAAAGCCTACGGGACTTTAAGCCCAGATAT
1 ATTTCCAGCACAAAGCCTAC-GGACCTCAAGCCCAGATAT
* * * *
471341 ATTTCCAGCACATAGCCTGCGGACCTCAAGTCCGGATAT
1 ATTTCCAGCACAAAGCCTACGGACCTCAAGCCCAGATAT
* ** * * *
471380 GTTTCCAGCACGTAGCCTGCGGACCTCAAGTCCGGATAT
1 ATTTCCAGCACAAAGCCTACGGACCTCAAGCCCAGATAT
* ** *
471419 GTTTCCAGCACGTAGCCTGCGGACCTCAAG
1 ATTTCCAGCACAAAGCCTACGGACCTCAAG
471449 TTTGGATATG
Statistics
Matches: 99, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 82 0.83
40 17 0.17
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (39 bp):
ATTTCCAGCACAAAGCCTACGGACCTCAAGCCCAGATAT
Found at i:471386 original size:39 final size:39
Alignment explanation
Indices: 471336--471464 Score: 222
Period size: 39 Copynumber: 3.3 Consensus size: 39
471326 TTTAAGCCCA
* *
471336 GATATATTTCCAGCACATAGCCTGCGGACCTCAAGTCCG
1 GATATGTTTCCAGCACGTAGCCTGCGGACCTCAAGTCCG
471375 GATATGTTTCCAGCACGTAGCCTGCGGACCTCAAGTCCG
1 GATATGTTTCCAGCACGTAGCCTGCGGACCTCAAGTCCG
**
471414 GATATGTTTCCAGCACGTAGCCTGCGGACCTCAAGTTTG
1 GATATGTTTCCAGCACGTAGCCTGCGGACCTCAAGTCCG
471453 GATATGTTTCCA
1 GATATGTTTCCA
471465 AGTATCATGC
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 86 1.00
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
GATATGTTTCCAGCACGTAGCCTGCGGACCTCAAGTCCG
Found at i:479285 original size:39 final size:39
Alignment explanation
Indices: 479234--479364 Score: 217
Period size: 39 Copynumber: 3.4 Consensus size: 39
479224 ACTTTAAGCT
* * *
479234 CGGATATATTTCCAGCACATAGCCTGTGGACCTCAAGTC
1 CGGATATGTTTCCAGCACGTAGCCTGCGGACCTCAAGTC
479273 CGGATATGTTTCCAGCACGTAGCCTGCGGACCTCAAGTC
1 CGGATATGTTTCCAGCACGTAGCCTGCGGACCTCAAGTC
* *
479312 CGGATATGTTTCCAGCATGTAACCTGCGGACCTCAAGTC
1 CGGATATGTTTCCAGCACGTAGCCTGCGGACCTCAAGTC
479351 CGGATATGTTTCCA
1 CGGATATGTTTCCA
479365 AGTATCATGC
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 87 1.00
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
CGGATATGTTTCCAGCACGTAGCCTGCGGACCTCAAGTC
Found at i:482068 original size:22 final size:21
Alignment explanation
Indices: 482013--482068 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 21
482003 GCCAAAATAA
482013 AAAAT-ATATATAA-A-CATT
1 AAAATCATATATAATACCATT
* *
482031 AAAAAC-TAAATAATACCAATT
1 AAAATCATATATAATACC-ATT
482052 AAAATCATATATAATAC
1 AAAATCATATATAATAC
482069 ACGAATAACA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
18 10 0.34
19 1 0.03
20 1 0.03
21 8 0.28
22 9 0.31
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.29
Consensus pattern (21 bp):
AAAATCATATATAATACCATT
Found at i:489424 original size:34 final size:35
Alignment explanation
Indices: 489369--489435 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
489359 CAAACACCAG
*
489369 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
489404 AAAACATTTTCCCG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
489436 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:495327 original size:15 final size:16
Alignment explanation
Indices: 495307--495340 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
495297 CTTTGCAAAA
495307 ATAAATTATTTTAT-T
1 ATAAATTATTTTATAT
*
495322 ATAAATTTTTTTATAT
1 ATAAATTATTTTATAT
495338 ATA
1 ATA
495341 TAAAATCACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
ATAAATTATTTTATAT
Found at i:495613 original size:11 final size:10
Alignment explanation
Indices: 495587--495612 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
495577 TAGAAAAGGC
495587 AAAAAATTTA
1 AAAAAATTTA
495597 AAAAAATTTA
1 AAAAAATTTA
495607 AAAAAA
1 AAAAAA
495613 AAACCCAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (10 bp):
AAAAAATTTA
Found at i:497629 original size:28 final size:26
Alignment explanation
Indices: 497574--497633 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 26
497564 TGAATATTTT
*
497574 TTATAATATAAAAATTAAATAAATAA
1 TTATAATATAAAAATTAAATAAAAAA
*
497600 TTATAATATATAACATTGATAA-AAAAAA
1 TTATAATATA-AAAATT-A-AATAAAAAA
497628 TTATAA
1 TTATAA
497634 ATTACTCAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 10 0.34
27 5 0.17
28 12 0.41
29 2 0.07
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (26 bp):
TTATAATATAAAAATTAAATAAAAAA
Found at i:505370 original size:15 final size:15
Alignment explanation
Indices: 505347--505377 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
505337 GGGTAGTAGT
505347 CTAGAAGCGGCGGCA
1 CTAGAAGCGGCGGCA
*
505362 CTAGCAGCGGCGGCA
1 CTAGAAGCGGCGGCA
505377 C
1 C
505378 GAATATCAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.32, G:0.39, T:0.06
Consensus pattern (15 bp):
CTAGAAGCGGCGGCA
Found at i:507182 original size:2 final size:2
Alignment explanation
Indices: 507175--507204 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
507165 GAATAAATAA
507175 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
507205 TTGTGTTTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:510184 original size:29 final size:28
Alignment explanation
Indices: 510152--510211 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 28
510142 AGAATTGATT
*
510152 CAAACCAAAATTAAATGTATAAAATTACA
1 CAAACCAAAATT-AATGTATAAAAATACA
* * *
510181 CAAAATCAAAGTTCATGTATAAAAATACA
1 C-AAACCAAAATTAATGTATAAAAATACA
510210 CA
1 CA
510212 TTAAACTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
28 1 0.04
29 16 0.62
30 9 0.35
ACGTcount: A:0.57, C:0.15, G:0.05, T:0.23
Consensus pattern (28 bp):
CAAACCAAAATTAATGTATAAAAATACA
Found at i:510233 original size:31 final size:29
Alignment explanation
Indices: 510153--510233 Score: 74
Period size: 31 Copynumber: 2.7 Consensus size: 29
510143 GAATTGATTC
* * *
510153 AAACCAAAATTAAATGTATAAAATTACACA
1 AAACTAAAATTCAA-GTATAAAAATACACA
* *
510183 AAA-TCAAAGTTCATGTATAAAAATACACA
1 AAACT-AAAATTCAAGTATAAAAATACACA
510212 TTAAACTAAAATTCAAGTATAA
1 --AAACTAAAATTCAAGTATAA
510234 TTTTAAGATT
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
29 14 0.35
30 9 0.22
31 16 0.40
32 1 0.03
ACGTcount: A:0.57, C:0.12, G:0.05, T:0.26
Consensus pattern (29 bp):
AAACTAAAATTCAAGTATAAAAATACACA
Found at i:511796 original size:20 final size:20
Alignment explanation
Indices: 511771--511817 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
511761 TTTTGACCTT
511771 GGATTATGTTTAAAATTTTC
1 GGATTATGTTTAAAATTTTC
511791 GGATTATGTTTAAAATTTTC
1 GGATTATGTTTAAAATTTTC
*
511811 AGATTAT
1 GGATTAT
511818 TTGGATTGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.32, C:0.04, G:0.15, T:0.49
Consensus pattern (20 bp):
GGATTATGTTTAAAATTTTC
Found at i:529215 original size:24 final size:27
Alignment explanation
Indices: 529172--529225 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
529162 TTATATTTTC
*
529172 TTTTTTAAGATATATCATTTATAA-TA
1 TTTTTTAAGATATATCATTTAAAATTA
*
529198 TTTTTTAATATA-AT-ATTTAAAATTA
1 TTTTTTAAGATATATCATTTAAAATTA
529223 TTT
1 TTT
529226 ATAATTCCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 7 0.28
25 7 0.28
26 11 0.44
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (27 bp):
TTTTTTAAGATATATCATTTAAAATTA
Found at i:534450 original size:2 final size:2
Alignment explanation
Indices: 534445--534469 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
534435 ACAAAAAAAA
534445 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
534470 ACATAATCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:536843 original size:19 final size:20
Alignment explanation
Indices: 536801--536844 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
536791 TTTTTATTTG
* *
536801 TAAAAAATTTATAATATAAT
1 TAAAAAATTCATAAAATAAT
536821 TAAAAAATTCATAAAATAA-
1 TAAAAAATTCATAAAATAAT
536840 TAAAA
1 TAAAA
536845 GTACTAATCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (20 bp):
TAAAAAATTCATAAAATAAT
Found at i:537416 original size:22 final size:22
Alignment explanation
Indices: 537390--537435 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
537380 ATGATGTTAA
* *
537390 TATTTTGATAATTT-AATTACAT
1 TATTTT-AAAATTTAAATTAAAT
537412 TATTTTAAAATTTAAATTAAAT
1 TATTTTAAAATTTAAATTAAAT
537434 TA
1 TA
537436 AAATGTGGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (22 bp):
TATTTTAAAATTTAAATTAAAT
Found at i:540138 original size:2 final size:2
Alignment explanation
Indices: 540131--540156 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
540121 ATGAAAAATA
540131 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
540157 TTGGTTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:545491 original size:18 final size:18
Alignment explanation
Indices: 545464--545499 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
545454 AGCACACTTG
*
545464 CAACAGCAGCAGCAGCAA
1 CAACAACAGCAGCAGCAA
545482 CAACAACAGCAGCAGCAA
1 CAACAACAGCAGCAGCAA
545500 TTGCAGTTGA
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:0.47, C:0.33, G:0.19, T:0.00
Consensus pattern (18 bp):
CAACAACAGCAGCAGCAA
Found at i:553618 original size:22 final size:23
Alignment explanation
Indices: 553572--553619 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
553562 GTGTTCTTGA
* *
553572 TTTTGATCTTTTCTATTTACTTT
1 TTTTCATCTTTTCTATTTACATT
*
553595 TTTTCATCTTTT-TATTTCCATT
1 TTTTCATCTTTTCTATTTACATT
553617 TTT
1 TTT
553620 GTATTTATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.12, C:0.15, G:0.02, T:0.71
Consensus pattern (23 bp):
TTTTCATCTTTTCTATTTACATT
Found at i:554489 original size:14 final size:13
Alignment explanation
Indices: 554470--554517 Score: 60
Period size: 14 Copynumber: 3.5 Consensus size: 13
554460 GTTACTACTA
*
554470 TTATATCATTAGTT
1 TTATATTATTA-TT
554484 TTATATTATTATT
1 TTATATTATTATT
*
554497 GTTATATTTTTATT
1 -TTATATTATTATT
554511 TTATATT
1 TTATATT
554518 TACTTATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
13 9 0.29
14 22 0.71
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (13 bp):
TTATATTATTATT
Found at i:554627 original size:20 final size:20
Alignment explanation
Indices: 554574--554628 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
554564 TAACTATTTA
* *
554574 TATATATCTTTATATCTTAT
1 TATATATCTATATGTCTTAT
*
554594 TATATATCTATATGTCTTGT
1 TATATATCTATATGTCTTAT
*
554614 TATATATATATATGT
1 TATATATCTATATGT
554629 ATCTCTTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.31, C:0.07, G:0.05, T:0.56
Consensus pattern (20 bp):
TATATATCTATATGTCTTAT
Found at i:554635 original size:24 final size:23
Alignment explanation
Indices: 554590--554635 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
554580 TCTTTATATC
* *
554590 TTATTATATATCTATATGTCTTG
1 TTATTATATATATATATCTCTTG
*
554613 TTATATATATATATGTATCTCTT
1 TTAT-TATATATATATATCTCTT
554636 TATAAACCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.28, C:0.09, G:0.07, T:0.57
Consensus pattern (23 bp):
TTATTATATATATATATCTCTTG
Found at i:554639 original size:22 final size:22
Alignment explanation
Indices: 554571--554632 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 22
554561 TTATAACTAT
* * *
554571 TTATATATATCTTTATATCTTA
1 TTATATATATATATGTATCTTA
* *
554593 TTATATATCTATATG--TCTTG
1 TTATATATATATATGTATCTTA
554613 TTATATATATATATGTATCT
1 TTATATATATATATGTATCT
554633 CTTTATAAAC
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
20 18 0.56
22 14 0.44
ACGTcount: A:0.31, C:0.08, G:0.05, T:0.56
Consensus pattern (22 bp):
TTATATATATATATGTATCTTA
Found at i:556058 original size:30 final size:30
Alignment explanation
Indices: 555981--556059 Score: 83
Period size: 30 Copynumber: 2.7 Consensus size: 30
555971 ATAAATTATG
* *
555981 AATTTT-ATTCT-TATATTTTAATTTGATT
1 AATTTTAATTCTATATTTTTTAATTTGATC
* *
556009 AATTTTAATTTTTACATTTTTTAA-TTGATC
1 AATTTTAA-TTCTATATTTTTTAATTTGATC
556039 AATTTTAATCTCTATATTTTT
1 AATTTTAAT-TCTATATTTTT
556060 CAAAATTTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
28 6 0.15
29 2 0.05
30 25 0.61
31 8 0.20
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (30 bp):
AATTTTAATTCTATATTTTTTAATTTGATC
Found at i:560856 original size:34 final size:34
Alignment explanation
Indices: 560817--560897 Score: 135
Period size: 34 Copynumber: 2.4 Consensus size: 34
560807 CGTATCTTCA
* *
560817 AATACATATAAAAGCCAATAAAAAATAAGTGGTG
1 AATACATAAAAAAGCAAATAAAAAATAAGTGGTG
*
560851 AATACATAAAAAAGCAAATAAAGAATAAGTGGTG
1 AATACATAAAAAAGCAAATAAAAAATAAGTGGTG
560885 AATACATAAAAAA
1 AATACATAAAAAA
560898 CCGAACGAGT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 44 1.00
ACGTcount: A:0.60, C:0.07, G:0.14, T:0.19
Consensus pattern (34 bp):
AATACATAAAAAAGCAAATAAAAAATAAGTGGTG
Found at i:563378 original size:25 final size:25
Alignment explanation
Indices: 563330--563387 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
563320 GAATTCAATG
* **
563330 ATTAAATTAATATATATATCAAAAT
1 ATTAAATTAATATAGATAAAAAAAT
563355 -TTGAAATTAATATAGATAAAAAAAT
1 ATT-AAATTAATATAGATAAAAAAAT
563380 ATTAAATT
1 ATTAAATT
563388 TAAAGACTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
24 2 0.07
25 24 0.86
26 2 0.07
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (25 bp):
ATTAAATTAATATAGATAAAAAAAT
Found at i:566712 original size:14 final size:13
Alignment explanation
Indices: 566693--566729 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 13
566683 TACAATATCT
566693 AAATAATAACAATA
1 AAATAATAA-AATA
566707 AAATAAT--AATA
1 AAATAATAAAATA
566718 AAATAATAAAAT
1 AAATAATAAAAT
566730 GACAGTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
11 11 0.52
13 3 0.14
14 7 0.33
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (13 bp):
AAATAATAAAATA
Found at i:572434 original size:40 final size:40
Alignment explanation
Indices: 572390--572470 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 40
572380 ATGATTTGAA
* *
572390 AACTTAGGCTTCTTTTGTATGAGTGTTTAGATTTAAACGT
1 AACTTAAGCTTCTTTTGTATGAGTATTTAGATTTAAACGT
*
572430 AACTTAAGCTTCTTTTGTATGAGTATTTGGATTTAAACGT
1 AACTTAAGCTTCTTTTGTATGAGTATTTAGATTTAAACGT
572470 A
1 A
572471 CTTGTAGCGA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.27, C:0.10, G:0.19, T:0.44
Consensus pattern (40 bp):
AACTTAAGCTTCTTTTGTATGAGTATTTAGATTTAAACGT
Found at i:573052 original size:21 final size:23
Alignment explanation
Indices: 573004--573052 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
572994 TTTAATGTTG
* *
573004 TTTAACCTATACATATTTTTAGT
1 TTTAACATATACATATTTTTACT
*
573027 ATTAACATATACA-A-TTTTACT
1 TTTAACATATACATATTTTTACT
573048 TTTAA
1 TTTAA
573053 AAGCCATATA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 10 0.45
22 1 0.05
23 11 0.50
ACGTcount: A:0.37, C:0.12, G:0.02, T:0.49
Consensus pattern (23 bp):
TTTAACATATACATATTTTTACT
Found at i:574107 original size:28 final size:31
Alignment explanation
Indices: 574042--574128 Score: 103
Period size: 28 Copynumber: 2.9 Consensus size: 31
574032 AAAATTCAAA
*
574042 AAAAATTACATCTTAGACCCCTGAACTTTTCT
1 AAAAATTACAT-TTAGACCCCTGAAATTTTCT
*
574074 -TAAATTACATTTA-A-CCCT-AAATTTTCT
1 AAAAATTACATTTAGACCCCTGAAATTTTCT
*
574101 AAAAATTACATTTAG-CCCCAGAAATTTT
1 AAAAATTACATTTAGACCCCTGAAATTTT
574129 GCTGCATTTG
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
27 8 0.17
28 16 0.34
29 4 0.09
30 10 0.21
31 9 0.19
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (31 bp):
AAAAATTACATTTAGACCCCTGAAATTTTCT
Found at i:574371 original size:17 final size:16
Alignment explanation
Indices: 574332--574369 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
574322 AAAAAAGAGC
574332 AAAAAATTCCAGCAAA
1 AAAAAATTCCAGCAAA
*
574348 AAAAAATTCTAGCAAA
1 AAAAAATTCCAGCAAA
574364 AAAAAA
1 AAAAAA
574370 ATATTAGCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.68, C:0.13, G:0.05, T:0.13
Consensus pattern (16 bp):
AAAAAATTCCAGCAAA
Found at i:574614 original size:18 final size:18
Alignment explanation
Indices: 574578--574617 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
574568 TGTTTTCATA
* *
574578 TTTTCTTTCCTTGGTTTT
1 TTTTCTTTCCTTAGATTT
*
574596 TTTTCTTTCTTTAGATTT
1 TTTTCTTTCCTTAGATTT
574614 TTTT
1 TTTT
574618 ATTTTATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.05, C:0.12, G:0.07, T:0.75
Consensus pattern (18 bp):
TTTTCTTTCCTTAGATTT
Found at i:580794 original size:37 final size:37
Alignment explanation
Indices: 580733--580878 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
580723 TACGTATGAT
* *
580733 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
580768 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
580805 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
* *
580842 CACTTATCATTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
580879 TAAAGCTATC
Statistics
Matches: 103, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 91 0.88
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:580909 original size:46 final size:46
Alignment explanation
Indices: 580842--581163 Score: 356
Period size: 46 Copynumber: 6.6 Consensus size: 46
580832 TAAGTGTAGC
* * **
580842 CACTTATCATTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
580888 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
580934 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
580986 CACTTATCACTTTCCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CAC-T-T-A---T-CACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
581039 CACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
581085 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
581137 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
581164 AGTACTCAAA
Statistics
Matches: 241, Mismatches: 16, Indels: 38
0.82 0.05 0.13
Matches are distributed among these distances:
46 113 0.47
47 1 0.00
48 1 0.00
49 1 0.00
50 2 0.01
51 1 0.00
52 76 0.32
53 39 0.16
54 1 0.00
55 1 0.00
56 1 0.00
58 1 0.00
59 3 0.01
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:580961 original size:52 final size:52
Alignment explanation
Indices: 580885--581157 Score: 387
Period size: 52 Copynumber: 5.3 Consensus size: 52
580875 TAGCTAAAGC
* * *
580885 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
580938 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
*
580990 TATCACTTTCCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
* *
581043 TATCAC-TTT-A----TCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
* ** *
581089 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
581141 TATCACTTTATCACTTG
1 TATCACTTT-TCACTTG
581158 ATCAGAAGTA
Statistics
Matches: 198, Mismatches: 14, Indels: 16
0.87 0.06 0.07
Matches are distributed among these distances:
46 40 0.20
47 2 0.01
48 1 0.01
51 1 0.01
52 91 0.46
53 63 0.32
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
Found at i:581016 original size:151 final size:151
Alignment explanation
Indices: 580852--581149 Score: 506
Period size: 151 Copynumber: 2.0 Consensus size: 151
580842 CACTTATCAT
* * * *
580852 TTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCTTGATCAGATA
1 TTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACTTGATCAGATA
* *
580917 AGTATAGCCGAAGCTATCACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAG
66 AGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCCAAAG
*
580982 CTATCACTTATCACTTTCCAC
131 CTACCACTTATCACTTTCCAC
*
581003 TTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTATCACTTGATCAGATA
1 TTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACTTGATCAGATA
* *
581068 AGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAG
66 AGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCCAAAG
581133 CTACCACTTATCACTTT
131 CTACCACTTATCACTTT
581150 ATCACTTGAT
Statistics
Matches: 137, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
151 137 1.00
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (151 bp):
TTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACTTGATCAGATA
AGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCCAAAG
CTACCACTTATCACTTTCCAC
Found at i:581040 original size:98 final size:99
Alignment explanation
Indices: 580842--581163 Score: 426
Period size: 98 Copynumber: 3.3 Consensus size: 99
580832 TAAGTGTAGC
* * * **
580842 CACTTATCATTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCAC-T-T-A---T-CACTT
1 CACTTATCACTTTATCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCACTT
* *
580900 TGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
66 TGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
580934 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTT
1 CACTTATCAC-TTT-A----TCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTT
580999 CCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
60 CCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
581039 CACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCAC-T
1 CACTTATCACTTTATCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCACTT
** *
581103 TGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
66 TGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
581137 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTATCACTTGATCAGA
581164 AGTACTCAAA
Statistics
Matches: 205, Mismatches: 12, Indels: 20
0.86 0.05 0.08
Matches are distributed among these distances:
92 9 0.04
93 3 0.01
98 91 0.44
99 48 0.23
100 1 0.00
101 1 0.00
103 1 0.00
104 4 0.02
105 47 0.23
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (99 bp):
CACTTATCACTTTATCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCACTT
TGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:584345 original size:49 final size:49
Alignment explanation
Indices: 584290--584435 Score: 238
Period size: 49 Copynumber: 3.0 Consensus size: 49
584280 TTCGTTTTCT
* * *
584290 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACAAATCACATAC
1 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAAATCACATAC
* *
584339 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCACTTAC
1 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAAATCACATAC
584388 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCACAT
1 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACA-AATCACAT
584436 GTTCACATGT
Statistics
Matches: 89, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
49 83 0.93
50 6 0.07
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.24
Consensus pattern (49 bp):
CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAAATCACATAC
Found at i:585748 original size:37 final size:37
Alignment explanation
Indices: 585687--585832 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
585677 TACGTATGAT
* *
585687 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
585722 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
585759 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
585796 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
585833 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:585849 original size:46 final size:46
Alignment explanation
Indices: 585796--586064 Score: 322
Period size: 46 Copynumber: 5.6 Consensus size: 46
585786 TAAGTGTAGC
* **
585796 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
585842 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
585888 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
585940 CACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
585986 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
586038 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
586065 AGTACTCAAA
Statistics
Matches: 196, Mismatches: 15, Indels: 24
0.83 0.06 0.10
Matches are distributed among these distances:
46 110 0.56
48 2 0.01
50 2 0.01
52 82 0.42
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:585915 original size:52 final size:51
Alignment explanation
Indices: 585839--586050 Score: 290
Period size: 52 Copynumber: 4.2 Consensus size: 51
585829 TAGCTAAAGC
*
585839 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTT-TCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
585892 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTT-CACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
585944 TATCACTTT-A----TCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* ** *
585990 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTT-CACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
586042 TATCACTTT
1 TATCACTTT
586051 ATCACTTGAT
Statistics
Matches: 143, Mismatches: 9, Indels: 15
0.86 0.05 0.09
Matches are distributed among these distances:
46 43 0.30
48 1 0.01
50 1 0.01
52 87 0.61
53 11 0.08
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (51 bp):
TATCACTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:585961 original size:98 final size:98
Alignment explanation
Indices: 585807--586064 Score: 453
Period size: 98 Copynumber: 2.6 Consensus size: 98
585797 ACTTATCACT
* * *
585807 TTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCTTGATCAGATAA
1 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTATCACTTGATCAGATAA
585872 GTATAGCCGAAGCTATCACTTATCACTTTCCAC
66 GTATAGCCGAAGCTATCACTTATCACTTTCCAC
**
585905 TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTATCACTTGATCAGATAA
1 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTATCACTTGATCAGATAA
*
585970 GTATAGCCGAAGCTATTACTTATCACTTTCCAC
66 GTATAGCCGAAGCTATCACTTATCACTTTCCAC
*
586003 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTTGATCAGA
1 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTATCACTTGATCAGA
586065 AGTACTCAAA
Statistics
Matches: 151, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 151 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.34
Consensus pattern (98 bp):
TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTATCACTTGATCAGATAA
GTATAGCCGAAGCTATCACTTATCACTTTCCAC
Found at i:588621 original size:22 final size:22
Alignment explanation
Indices: 588595--588641 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
588585 CGGAGAAACG
588595 AAGAATACTTGGCGAGAAGGCT
1 AAGAATACTTGGCGAGAAGGCT
588617 AAGAATACTTGGCGAGAAGGCT
1 AAGAATACTTGGCGAGAAGGCT
588639 AAG
1 AAG
588642 TACGGATCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.38, C:0.13, G:0.32, T:0.17
Consensus pattern (22 bp):
AAGAATACTTGGCGAGAAGGCT
Found at i:588928 original size:20 final size:20
Alignment explanation
Indices: 588890--588937 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
588880 TAAATTCTAA
* **
588890 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
588910 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
588930 AAA-ATAAA
1 AAAGATAAA
588938 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:592101 original size:19 final size:19
Alignment explanation
Indices: 592072--592117 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
592062 TGTATGGTTT
592072 TAAATAA-ATACACATGTA
1 TAAATAATATACACATGTA
*
592090 TTAATAATATACACATGTA
1 TAAATAATATACACATGTA
592109 TAAATAATA
1 TAAATAATA
592118 AATAAGTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.54, C:0.09, G:0.04, T:0.33
Consensus pattern (19 bp):
TAAATAATATACACATGTA
Found at i:592959 original size:16 final size:16
Alignment explanation
Indices: 592919--592969 Score: 70
Period size: 15 Copynumber: 3.3 Consensus size: 16
592909 TTTATCAAAT
592919 TTATA-TTGATTGAAA
1 TTATATTTGATTGAAA
* *
592934 TCAT-TTTGATTGAAT
1 TTATATTTGATTGAAA
592949 TTATATTTGATTGAAA
1 TTATATTTGATTGAAA
592965 TTATA
1 TTATA
592970 ATATATATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
15 15 0.50
16 15 0.50
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.51
Consensus pattern (16 bp):
TTATATTTGATTGAAA
Found at i:593473 original size:29 final size:27
Alignment explanation
Indices: 593415--593482 Score: 75
Period size: 27 Copynumber: 2.4 Consensus size: 27
593405 AATGCCTTAT
*
593415 TGGTGTGTTTGGGAGGATATGATATAC
1 TGGTGTGTTTGGGAGGATATAATATAC
*
593442 TGGTGTGTTAT-GGAGGATTTATAATATTC
1 TGGTGTGTT-TGGGAGGA--TATAATATAC
593471 TGGGTGTGTTTG
1 T-GGTGTGTTTG
593483 AGTTGGATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
27 15 0.44
28 1 0.03
29 10 0.29
30 8 0.24
ACGTcount: A:0.19, C:0.03, G:0.35, T:0.43
Consensus pattern (27 bp):
TGGTGTGTTTGGGAGGATATAATATAC
Found at i:593649 original size:13 final size:13
Alignment explanation
Indices: 593600--593639 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
593590 TTGAGCTATT
593600 AGAA-TGAAA-TG
1 AGAATTGAAATTG
593611 AGAAATTG-AATTG
1 AG-AATTGAAATTG
593624 AGAATTGAAATTG
1 AGAATTGAAATTG
593637 AGA
1 AGA
593640 TATGAGATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 2 0.08
12 9 0.36
13 14 0.56
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (13 bp):
AGAATTGAAATTG
Found at i:599232 original size:50 final size:50
Alignment explanation
Indices: 599108--599356 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
599098 GATAATAACA
* * ** * *
599108 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
599159 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
599209 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
599259 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
599314 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
599357 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:599286 original size:100 final size:104
Alignment explanation
Indices: 599107--599356 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
599097 TGATAATAAC
**
599107 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
599172 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
599209 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
599272 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
599314 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
599357 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:599472 original size:13 final size:13
Alignment explanation
Indices: 599451--599482 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
599441 GCTTGGATCA
*
599451 TCATCAAATAAAT
1 TCATAAAATAAAT
599464 TCATAAAATAAAT
1 TCATAAAATAAAT
599477 TCATAA
1 TCATAA
599483 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:599729 original size:30 final size:30
Alignment explanation
Indices: 599694--599751 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
599684 CCTCGACTCT
*
599694 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
599724 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
599752 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:606819 original size:50 final size:50
Alignment explanation
Indices: 606695--606943 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
606685 GATAATAACA
* * ** * *
606695 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
606746 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
606796 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
606846 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
606901 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
606944 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:606873 original size:100 final size:104
Alignment explanation
Indices: 606694--606943 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
606684 TGATAATAAC
**
606694 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
606759 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
606796 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
606859 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
606901 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
606944 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:607059 original size:13 final size:13
Alignment explanation
Indices: 607038--607069 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
607028 GCTTGGATCA
*
607038 TCATCAAATAAAT
1 TCATAAAATAAAT
607051 TCATAAAATAAAT
1 TCATAAAATAAAT
607064 TCATAA
1 TCATAA
607070 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:607316 original size:30 final size:30
Alignment explanation
Indices: 607281--607338 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
607271 CCTCGACTCT
*
607281 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
607311 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
607339 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:608568 original size:20 final size:20
Alignment explanation
Indices: 608530--608577 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
608520 TAAATTCTAA
* **
608530 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
608550 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
608570 AAA-ATAAA
1 AAAGATAAA
608578 ACCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:611795 original size:18 final size:18
Alignment explanation
Indices: 611754--611796 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
611744 TTTTTAATAT
*
611754 TTTATATTTAATATAATA
1 TTTATATTTAATATAAAA
*
611772 TTTATATTTGATA-AAAA
1 TTTATATTTAATATAAAA
611789 TTATATAT
1 TT-TATAT
611797 GTTGGCATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (18 bp):
TTTATATTTAATATAAAA
Found at i:613019 original size:14 final size:14
Alignment explanation
Indices: 613000--613029 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
612990 TATTTTCAAG
613000 ATAGATTAACGCAT
1 ATAGATTAACGCAT
*
613014 ATAGATTCACGCAT
1 ATAGATTAACGCAT
613028 AT
1 AT
613030 TTATAAGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (14 bp):
ATAGATTAACGCAT
Found at i:613363 original size:12 final size:12
Alignment explanation
Indices: 613327--613354 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
613317 AATACAATGC
613327 AATAAACATTCA
1 AATAAACATTCA
613339 AATAAACATTCA
1 AATAAACATTCA
613351 AATA
1 AATA
613355 TCCATTCAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.61, C:0.14, G:0.00, T:0.25
Consensus pattern (12 bp):
AATAAACATTCA
Found at i:615428 original size:30 final size:30
Alignment explanation
Indices: 615394--615474 Score: 110
Period size: 30 Copynumber: 2.7 Consensus size: 30
615384 TAGCCTTTGT
*
615394 CACCATCAA-TTCTACTAGCCACACTTGCTC
1 CACCACCAACTTC-ACTAGCCACACTTGCTC
615424 CACCACCAACTTCACTAGCCACACTTGCTC
1 CACCACCAACTTCACTAGCCACACTTGCTC
* * *
615454 CACTACCTACTCCACTAGCCA
1 CACCACCAACTTCACTAGCCA
615475 TTTTTACCCG
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
30 43 0.93
31 3 0.07
ACGTcount: A:0.27, C:0.44, G:0.06, T:0.22
Consensus pattern (30 bp):
CACCACCAACTTCACTAGCCACACTTGCTC
Found at i:615690 original size:24 final size:23
Alignment explanation
Indices: 615642--615693 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
615632 TTTTTTTTGT
*
615642 TATTATTATATTTCTTAATATTA
1 TATTATTATATTTCTTAATAATA
*
615665 TATTATATATATATTCTT-TTAATA
1 TATTAT-TATAT-TTCTTAATAATA
615689 TATTA
1 TATTA
615694 GGTATATCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.24
24 14 0.56
25 5 0.20
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (23 bp):
TATTATTATATTTCTTAATAATA
Found at i:615774 original size:47 final size:48
Alignment explanation
Indices: 615642--615856 Score: 145
Period size: 47 Copynumber: 4.5 Consensus size: 48
615632 TTTTTTTTGT
* * * *
615642 TATTAT-TATAT-TTCTTAATATTATATTATATATATAT-TCTTTTAATA
1 TATTATGTATATATT-TTAATA-TATATTATGTATATATATATTATACTA
* ** * * *
615689 TATTAGGTATAT-CCTAAATTCTATATTACGTATATATATATTATACTA
1 TATTATGTATATATTTTAA-TATATATTATGTATATATATATTATACTA
* * **
615737 T-TTATGTATATATCTTTAATACTATATTATTTATATATATATACATGTTA
1 TATTATGTATATAT-TTTAATA-TATATTATGTATATATATAT-TATACTA
* * * * *
615787 TCTTATGTATATATTTTAAT-TATATTATGTATGTATTTTTTACACTA
1 TATTATGTATATATTTTAATATATATTATGTATATATATATTATACTA
*
615834 TATTATGTACATATTTTTAATAT
1 TATTATGTATATA-TTTTAATAT
615857 TATCACGTAT
Statistics
Matches: 128, Mismatches: 30, Indels: 18
0.73 0.17 0.10
Matches are distributed among these distances:
47 45 0.35
48 38 0.30
49 22 0.17
50 11 0.09
51 12 0.09
ACGTcount: A:0.35, C:0.07, G:0.04, T:0.54
Consensus pattern (48 bp):
TATTATGTATATATTTTAATATATATTATGTATATATATATTATACTA
Found at i:615809 original size:22 final size:23
Alignment explanation
Indices: 615710--615850 Score: 90
Period size: 25 Copynumber: 5.8 Consensus size: 23
615700 TCCTAAATTC
* * *
615710 TATATTACGTATATATATATTATAC
1 TATATTATGTATATAT-T-TTACAT
615735 TAT-TTATGTATATATCTTTA-AT
1 TATATTATGTATATAT-TTTACAT
* *
615757 ACTATATTATTTATATATATATACATGT
1 --TATATTATGTATATAT-TTTACA--T
*
615785 TATCTTATGTATATATTTTA-AT
1 TATATTATGTATATATTTTACAT
* *
615807 TATATTATGTATGTATTTTTTACAC
1 TATATTATGTA--TATATTTTACAT
*
615832 TATATTATGTACATATTTT
1 TATATTATGTATATATTTT
615851 TAATATTATC
Statistics
Matches: 93, Mismatches: 14, Indels: 20
0.73 0.11 0.16
Matches are distributed among these distances:
22 12 0.13
23 9 0.10
24 24 0.26
25 32 0.34
26 15 0.16
28 1 0.01
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.55
Consensus pattern (23 bp):
TATATTATGTATATATTTTACAT
Found at i:615840 original size:25 final size:24
Alignment explanation
Indices: 615790--615876 Score: 70
Period size: 24 Copynumber: 3.5 Consensus size: 24
615780 CATGTTATCT
*
615790 TATGTATATATTTTAATTATATTATG
1 TATGTAT-T-TTTTAACTATATTATG
615816 TATGTATTTTTTACACTATATTATG
1 TATGTATTTTTTA-ACTATATTATG
** * *
615841 TACATA-TTTTTAA-TATTATCACG
1 TATGTATTTTTTAACTA-TATTATG
*
615864 TATTTATTTTTTA
1 TATGTATTTTTTA
615877 TATATGTACA
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
22 2 0.04
23 10 0.20
24 17 0.33
25 15 0.29
26 7 0.14
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (24 bp):
TATGTATTTTTTAACTATATTATG
Found at i:615858 original size:20 final size:20
Alignment explanation
Indices: 615833--615891 Score: 57
Period size: 23 Copynumber: 2.9 Consensus size: 20
615823 TTTTTACACT
615833 ATATTATGTACATATTTTTA
1 ATATTATGTACATATTTTTA
** *
615853 ATATTATCACGTATTTATTTTTT
1 ATATTAT---GTACATATTTTTA
615876 ATA-TATGTACATATTT
1 ATATTATGTACATATTT
615892 ATGTAGTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 3 0.10
23 13 0.42
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (20 bp):
ATATTATGTACATATTTTTA
Found at i:624051 original size:26 final size:24
Alignment explanation
Indices: 624017--624076 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
624007 GTAATAATAG
624017 AATTAATAATAAAAATAAAGTTGATT
1 AATTAATAA-AAAAA-AAAGTTGATT
**
624043 AATTAATAAAAAAAATGGTTGATT
1 AATTAATAAAAAAAAAAGTTGATT
624067 AATTAA-AAAA
1 AATTAATAAAA
624077 GGACTATATT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
23 4 0.12
24 14 0.44
25 5 0.16
26 9 0.28
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (24 bp):
AATTAATAAAAAAAAAAGTTGATT
Found at i:624063 original size:24 final size:23
Alignment explanation
Indices: 624018--624076 Score: 79
Period size: 23 Copynumber: 2.6 Consensus size: 23
624008 TAATAATAGA
624018 ATTAA-TAATAAAAATAAAGTTG
1 ATTAATTAATAAAAATAAAGTTG
624040 ATTAATTAATAAAAA-AAATGGTTG
1 ATTAATTAATAAAAATAAA--GTTG
624064 ATTAATTAA-AAAA
1 ATTAATTAATAAAA
624077 GGACTATATT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
22 8 0.24
23 13 0.38
24 13 0.38
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.32
Consensus pattern (23 bp):
ATTAATTAATAAAAATAAAGTTG
Found at i:627412 original size:41 final size:41
Alignment explanation
Indices: 627367--627446 Score: 142
Period size: 41 Copynumber: 2.0 Consensus size: 41
627357 ATTTCACCAC
*
627367 CAAACTTTAAATAACTCTAATCTTCTCACCCTAGTAATAAA
1 CAAACTTTAAATAACTCTAATCTTCTCACCCTAGCAATAAA
*
627408 CAAACTTTAAATAACTCTGATCTTCTCACCCTAGCAATA
1 CAAACTTTAAATAACTCTAATCTTCTCACCCTAGCAATA
627447 GCCAACGCTG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.39, C:0.26, G:0.04, T:0.31
Consensus pattern (41 bp):
CAAACTTTAAATAACTCTAATCTTCTCACCCTAGCAATAAA
Found at i:630618 original size:18 final size:18
Alignment explanation
Indices: 630595--630632 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
630585 CGAGATGGGT
630595 TGGGCTTCCTATTTCATG
1 TGGGCTTCCTATTTCATG
630613 TGGGCTTCCTATTTCATG
1 TGGGCTTCCTATTTCATG
630631 TG
1 TG
630633 ATCAGGTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.11, C:0.21, G:0.24, T:0.45
Consensus pattern (18 bp):
TGGGCTTCCTATTTCATG
Found at i:631300 original size:24 final size:22
Alignment explanation
Indices: 631246--631303 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 22
631236 GAAAAATATT
*
631246 AAAAT-ATAATATTAGAATAAA
1 AAAATAATAATATTACAATAAA
*
631267 AATAACAATAATATTCACAATAAA
1 AA-AATAATAATATT-ACAATAAA
631291 GAAAATAATAATA
1 -AAAATAATAATA
631304 AAAAATAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 2 0.07
22 2 0.07
23 8 0.27
24 16 0.53
25 2 0.07
ACGTcount: A:0.66, C:0.05, G:0.03, T:0.26
Consensus pattern (22 bp):
AAAATAATAATATTACAATAAA
Found at i:635922 original size:20 final size:20
Alignment explanation
Indices: 635896--635936 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
635886 ACTCTTTAAA
*
635896 ATTTAAAAAAATTT-AAATT
1 ATTTTAAAAAATTTAAAATT
*
635915 ATTTTAAATAATTTAAAATT
1 ATTTTAAAAAATTTAAAATT
635935 AT
1 AT
635937 GAAAAATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
ATTTTAAAAAATTTAAAATT
Found at i:635943 original size:20 final size:19
Alignment explanation
Indices: 635890--635944 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 19
635880 TGTGAAACTC
635890 TTTAAAATT-TAAAAA-AA
1 TTTAAAATTATAAAAATAA
**
635907 TTT-AAATTATTTTAAATAA
1 TTTAAAATTA-TAAAAATAA
635926 TTTAAAATTATGAAAAATA
1 TTTAAAATTAT-AAAAATA
635945 TAGAAAATTC
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
16 5 0.17
17 3 0.10
18 4 0.14
19 6 0.21
20 11 0.38
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (19 bp):
TTTAAAATTATAAAAATAA
Found at i:640893 original size:60 final size:60
Alignment explanation
Indices: 640777--640965 Score: 177
Period size: 61 Copynumber: 3.1 Consensus size: 60
640767 ATTGGTCTAA
* * * *
640777 CAACAAAATTAGCCACT-AATGTTTAC-ACATTCTAGCAATTTAATCCTAAATATAAAAATT
1 CAACAAAATTAGCC-CTCAATGTTTACAAAATT-TATCAATTTAGTCCTAAATCTAAAAATT
* * * *
640837 CAACAAACTTAGCCCTCAATGTTTACAAAATTTATCATTTTAGTTCTAATTCTAAAAAATT
1 CAACAAAATTAGCCCTCAATGTTTACAAAATTTATCAATTTAGTCCTAAATCT-AAAAATT
* ** * * * * *
640898 CAATAATTTTGGCCCTCAATATTTATAAAATCTATCAATTTAGTCCTAACTCTAAAAATT
1 CAACAAAATTAGCCCTCAATGTTTACAAAATTTATCAATTTAGTCCTAAATCTAAAAATT
*
640958 -AAGAAAAT
1 CAACAAAAT
640966 ATATATAAAA
Statistics
Matches: 105, Mismatches: 21, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
59 7 0.07
60 44 0.42
61 54 0.51
ACGTcount: A:0.42, C:0.17, G:0.05, T:0.35
Consensus pattern (60 bp):
CAACAAAATTAGCCCTCAATGTTTACAAAATTTATCAATTTAGTCCTAAATCTAAAAATT
Found at i:642125 original size:30 final size:30
Alignment explanation
Indices: 642082--642138 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
642072 ATTTTTTAAA
*
642082 TTAATAATAGT-AAAATTATAATTTAATTTT
1 TTAAAAATAGTAAAAATT-TAATTTAATTTT
*
642112 TTAAAAATGGTAAAAATTTAATTTAAT
1 TTAAAAATAGTAAAAATTTAATTTAAT
642139 CCTTTAAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 18 0.75
31 6 0.25
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (30 bp):
TTAAAAATAGTAAAAATTTAATTTAATTTT
Found at i:642827 original size:15 final size:16
Alignment explanation
Indices: 642802--642831 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
642792 ATGTGAATAA
642802 TATTATTTAAAATTTT
1 TATTATTTAAAATTTT
642818 TATT-TTTAAAATTT
1 TATTATTTAAAATTT
642832 AATAATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TATTATTTAAAATTTT
Found at i:643642 original size:17 final size:16
Alignment explanation
Indices: 643606--643640 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
643596 AACAACAAAT
*
643606 AAATTAAAAATTAATA
1 AAATAAAAAATTAATA
*
643622 AAATAAAAAATTTATA
1 AAATAAAAAATTAATA
643638 AAA
1 AAA
643641 ATTAAAGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAATAAAAAATTAATA
Found at i:643893 original size:24 final size:24
Alignment explanation
Indices: 643839--643893 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
643829 AAAAATTGAG
643839 AAATAAATTTAACTAAAAAATAAA
1 AAATAAATTTAACTAAAAAATAAA
*
643863 AATTAAA-TTAAC-AAAAAATATAA
1 AAATAAATTTAACTAAAAAATA-AA
643886 ACAATAAA
1 A-AATAAA
643894 GATTAAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 8 0.30
23 8 0.30
24 11 0.41
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (24 bp):
AAATAAATTTAACTAAAAAATAAA
Found at i:645456 original size:20 final size:20
Alignment explanation
Indices: 645433--645478 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
645423 AAGTTTAAAG
645433 TTAATTATAAAAATTAATTA
1 TTAATTATAAAAATTAATTA
* **
645453 TTAATTTTATCAATTAATTA
1 TTAATTATAAAAATTAATTA
*
645473 CTAATT
1 TTAATT
645479 TTAATTAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (20 bp):
TTAATTATAAAAATTAATTA
Found at i:645479 original size:20 final size:20
Alignment explanation
Indices: 645444--645481 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
645434 TAATTATAAA
*
645444 AATTAATTATTAATTTTATC
1 AATTAATTACTAATTTTATC
645464 AATTAATTACTAATTTTA
1 AATTAATTACTAATTTTA
645482 ATTAAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (20 bp):
AATTAATTACTAATTTTATC
Found at i:645801 original size:17 final size:18
Alignment explanation
Indices: 645775--645809 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
645765 ATATATATAC
*
645775 AATTTTAATTTTA-ATTT
1 AATTTAAATTTTACATTT
645792 AATTTAAATTTTACATTT
1 AATTTAAATTTTACATTT
645810 TATTAGCACC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (18 bp):
AATTTAAATTTTACATTT
Found at i:651350 original size:18 final size:18
Alignment explanation
Indices: 651327--651419 Score: 141
Period size: 18 Copynumber: 5.2 Consensus size: 18
651317 CCCAACTACT
651327 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
**
651345 GTATACGTGAATAGTGTC
1 GTATACGTGAATAGTACC
*
651363 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTACC
* *
651381 GTATACGTGAATAGTGCT
1 GTATACGTGAATAGTACC
651399 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
651417 GTA
1 GTA
651420 AACGGTCGTA
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 67 1.00
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.31
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:651374 original size:36 final size:36
Alignment explanation
Indices: 651325--651419 Score: 165
Period size: 36 Copynumber: 2.6 Consensus size: 36
651315 ATCCCAACTA
651325 CTGTATACGTGAATAGTACCGTATACGTGAATAGTG
1 CTGTATACGTGAATAGTACCGTATACGTGAATAGTG
*
651361 -TCGTATACGTGAATAGTACTGTATACGTGAATAGTG
1 CT-GTATACGTGAATAGTACCGTATACGTGAATAGTG
651397 CTGTATACGTGAATAGTACCGTA
1 CTGTATACGTGAATAGTACCGTA
651420 AACGGTCGTA
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
35 1 0.02
36 53 0.96
37 1 0.02
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.32
Consensus pattern (36 bp):
CTGTATACGTGAATAGTACCGTATACGTGAATAGTG
Found at i:660796 original size:180 final size:172
Alignment explanation
Indices: 660260--660848 Score: 665
Period size: 174 Copynumber: 3.4 Consensus size: 172
660250 GTTTGGAATA
*
660260 TGAGTGTTGTTTTGTAGTAAGTGCAGCGATGATTAAAATGAGGTTTAGGG-T-TAACGAG-GCAA
1 TGAGTGTTGTTTTGTAGTAAGCGCAGCGATGATTAAAATGAGGTTTAGGGTTGTAACGAGCG-AA
* * * * * *
660322 GGCTTTGCCTTAGCTTTGATTACAATATAATCCCTAATGAGCTGCCTTTATCTTTCTTACGACGT
65 GGATTTGCCTAAGCTATGATTACAATATAATCACTAATGAGCTGCCGTTATCTTTTTTACGACGT
660387 TTTTCCGATTGAATGTTCAAGATTTATAAACAAATGTTTGGTTT
130 TTTTCCGATTGAATGTTCAAGATTT-TAAACAAATGTTTGGTTT
* * *
660431 TCGAGTGTTGTTTTGTAGT-GGTTGCAGCGATGATTAAAATGAGGTTTAGGGTTGTAACGAGCCA
1 T-GAGTGTTGTTTTGTAGTAAG-CGCAGCGATGATTAAAATGAGGTTTAGGGTTGTAACGAGCGA
** * * * *
660495 AGTTTTTGCCTAAGCCATGAATACAATATAATCTCTAATGAGCTGCCGTTATCTTTTTTACAACG
64 AGGATTTGCCTAAGCTATGATTACAATATAATCACTAATGAGCTGCCGTTATCTTTTTTACGACG
** *
660560 TTTTTCCGACCGAATGTTCAAAATTTTAAACAAATGTTTGGTTTTT
129 TTTTTCCGATTGAATGTTCAAGATTTTAAACAAATGTTTGG--TTT
* *
660606 TGAGTGTTGTTTTGTGGTAAGCGCAGCGATGATTTAAAATAAATTGAGGTGTAGGGTTGTAACGA
1 TGAGTGTTGTTTTGTAGTAAGCGCAGCGATGA-TT---A-AAA-TGAGGTTTAGGGTTGTAACGA
* * * *
660671 GCGAAGGATGTGCCTAAGCTATG-TTCCCAATATAATCACTAATTAGGTGCCGTTAGTCTTTTTT
60 GCGAAGGATTTGCCTAAGCTATGATT-ACAATATAATCACTAATGAGCTGCCGTTA-TCTTTTTT
* * *
660735 ACGGCGTTTTTCCAATTTGAA-GTTCAAGATTTTCAAACAATTGTTT-GTATT
123 ACGACGTTTTTCCGA-TTGAATGTTCAAGATTTT-AAACAAATGTTTGGT-TT
* * * **
660786 TGAATGTTGTTTTGTAGTAATCGCAGCCATGATTAAAACAAGGTTTAGGG-T-TAACGAGCGAAG
1 TGAGTGTTGTTTTGTAGTAAGCGCAGCGATGATTAAAATGAGGTTTAGGGTTGTAACGAGCGAAG
660849 TCTTGTCTTT
Statistics
Matches: 356, Mismatches: 43, Indels: 37
0.82 0.10 0.08
Matches are distributed among these distances:
171 2 0.01
172 58 0.16
173 17 0.05
174 121 0.34
175 10 0.03
176 1 0.00
178 1 0.00
179 7 0.02
180 93 0.26
181 32 0.09
182 14 0.04
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.37
Consensus pattern (172 bp):
TGAGTGTTGTTTTGTAGTAAGCGCAGCGATGATTAAAATGAGGTTTAGGGTTGTAACGAGCGAAG
GATTTGCCTAAGCTATGATTACAATATAATCACTAATGAGCTGCCGTTATCTTTTTTACGACGTT
TTTCCGATTGAATGTTCAAGATTTTAAACAAATGTTTGGTTT
Found at i:660920 original size:354 final size:346
Alignment explanation
Indices: 660260--660905 Score: 761
Period size: 354 Copynumber: 1.9 Consensus size: 346
660250 GTTTGGAATA
* * *
660260 TGAGTGTTGTTTTGTAGTAAGTGCAGCGATGATTAAAATGAGGTTTAGGGTTAACGAGGCAAGGC
1 TGAGTGTTGTTTTGTAGTAAGCGCAGCGATGATTAAAATGAGGTGTAGGGTTAACGAGGCAAGGA
* * * * *
660325 TTTGCCTTAGCTTTGATTACAATATAATCCCTAATGAGCTGCCTTTATCTTTCTTACGACGTTTT
66 TGTGCCTAAGCTATGATTACAATATAATCACTAATGAGCTGCCGTTATCTTTCTTACGACGTTTT
* * ** *
660390 TCCGATTGAATGTTCAAGATTTATAAACAAATGTTTGGTTTTCGAGTGTTGTTTTGTAGTGGTTG
131 TCCAATTGAATGTTCAAGATTTATAAACAAATGTTTGGTTTTCGAATGTTGTTTTGTAGTAATCG
* ** *
660455 CAGCGATGATTAAAATGAGGTTTAGGGTTGTAACGAGCCAAGTTTTTGCCTAAGCCATGAATACA
196 CAGCCATGATTAAAACAAGGTTTAGGGTTGTAACGAGCCAAGTTCTTGCCTAAGCCATGAATACA
* *
660520 ATATAATCTCTAATGAGCTGCCGTTATCTTTTTTACAACGTTTTTCCGACCGAATGTTCAAAATT
261 ATATAATCTCTAATGAGCTGCCGTTATCTCTTCTACAACGTTTTTCCGACCGAATGTTCAAAATT
660585 TTAAACAAATGTTTGGTTTTT
326 TTAAACAAATGTTTGGTTTTT
*
660606 TGAGTGTTGTTTTGTGGTAAGCGCAGCGATGATTTAAAATAAATTGAGGTGTAGGGTTGTAACGA
1 TGAGTGTTGTTTTGTAGTAAGCGCAGCGATGA-TT---A-AAA-TGAGGTGTAGGG-T-TAACGA
* * * *
660671 -GCGAAGGATGTGCCTAAGCTATG-TTCCCAATATAATCACTAATTAGGTGCCGTTAGTCTTTTT
58 GGC-AAGGATGTGCCTAAGCTATGATT-ACAATATAATCACTAATGAGCTGCCGTTA-TCTTTCT
* *
660734 TACGGCGTTTTTCCAATTTGAA-GTTCAAGATTT-TCAAACAATTGTTT-GTATTT-GAATGTTG
120 TACGACGTTTTTCCAA-TTGAATGTTCAAGATTTAT-AAACAAATGTTTGGT-TTTCGAATGTTG
* *
660795 TTTTGTAGTAATCGCAGCCATGATTAAAACAAGGTTTAGGG-T-TAACGAGCGAAG-TCTTGTCT
182 TTTTGTAGTAATCGCAGCCATGATTAAAACAAGGTTTAGGGTTGTAACGAGCCAAGTTCTTGCCT
** ** * * * * * *
660857 TTGCTTTGATTTCATTTTAATCTCTTATGAGCTGCTGTTATCTCTTCTA
247 AAGCCATGAATACAATATAATCTCTAATGAGCTGCCGTTATCTCTTCTA
660906 TGGTGTTTTT
Statistics
Matches: 248, Mismatches: 38, Indels: 23
0.80 0.12 0.07
Matches are distributed among these distances:
346 30 0.12
347 2 0.01
350 1 0.00
351 46 0.19
352 22 0.09
353 6 0.02
354 91 0.37
355 45 0.18
356 5 0.02
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.39
Consensus pattern (346 bp):
TGAGTGTTGTTTTGTAGTAAGCGCAGCGATGATTAAAATGAGGTGTAGGGTTAACGAGGCAAGGA
TGTGCCTAAGCTATGATTACAATATAATCACTAATGAGCTGCCGTTATCTTTCTTACGACGTTTT
TCCAATTGAATGTTCAAGATTTATAAACAAATGTTTGGTTTTCGAATGTTGTTTTGTAGTAATCG
CAGCCATGATTAAAACAAGGTTTAGGGTTGTAACGAGCCAAGTTCTTGCCTAAGCCATGAATACA
ATATAATCTCTAATGAGCTGCCGTTATCTCTTCTACAACGTTTTTCCGACCGAATGTTCAAAATT
TTAAACAAATGTTTGGTTTTT
Found at i:661514 original size:26 final size:26
Alignment explanation
Indices: 661485--661537 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
661475 CTTAAATATG
661485 TTAGCTATTGTAGGTTTGTGCTTTAC
1 TTAGCTATTGTAGGTTTGTGCTTTAC
661511 TTAGCTATTGTAGGTTTGTGCTTTAC
1 TTAGCTATTGTAGGTTTGTGCTTTAC
661537 T
1 T
661538 ATCAAAGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.15, C:0.11, G:0.23, T:0.51
Consensus pattern (26 bp):
TTAGCTATTGTAGGTTTGTGCTTTAC
Found at i:662489 original size:30 final size:30
Alignment explanation
Indices: 662453--662512 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
662443 TAGCCTTTGT
*
662453 CACCACCAACTCCACTAGTCACAATTGCTC
1 CACCACCAACTCCACTAGCCACAATTGCTC
* * *
662483 CACCACCAACTCTATTAGCCACACTTGCTC
1 CACCACCAACTCCACTAGCCACAATTGCTC
662513 TACTATCACT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.43, G:0.07, T:0.22
Consensus pattern (30 bp):
CACCACCAACTCCACTAGCCACAATTGCTC
Found at i:667548 original size:25 final size:26
Alignment explanation
Indices: 667506--667554 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
667496 ATTATTATTA
*
667506 AAAGTAAAGTAAATAG-AAAGAAAAT
1 AAAGTAAAGTAAAAAGAAAAGAAAAT
667531 AAAGTAAAG-AACAAAGAAAAGAAA
1 AAAGTAAAGTAA-AAAGAAAAGAAA
667555 TAGAATAGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 2 0.10
25 12 0.57
26 7 0.33
ACGTcount: A:0.71, C:0.02, G:0.16, T:0.10
Consensus pattern (26 bp):
AAAGTAAAGTAAAAAGAAAAGAAAAT
Found at i:669121 original size:21 final size:23
Alignment explanation
Indices: 669062--669127 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
669052 GCTTTACTGA
669062 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACTTTATGTGTCGTATT
* **
669085 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACTTTATGTGTCGTATT
669107 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACTTTATGTGTCGTAT
669128 ACTGATCAGG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
21 15 0.42
22 4 0.11
23 17 0.47
ACGTcount: A:0.15, C:0.20, G:0.24, T:0.41
Consensus pattern (23 bp):
TCAGGCACTTTATGTGTCGTATT
Found at i:673464 original size:79 final size:75
Alignment explanation
Indices: 673033--674268 Score: 1260
Period size: 72 Copynumber: 16.5 Consensus size: 75
673023 TTCCGTTTTC
** * * *
673033 AAAAATCAACTCATATTGCGAGAGGTGAGTGGAGCCTC-AGTTCACATGTTGAGGTATTTTCAAT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG---ACACGCTGAGGTATTTTCAAT
673097 TTCTG-TTTTC--
63 TTCTGTTTTTCAA
* * * * *
673107 AAAATTCAACTTATATTGCGAGAAATGAGTTGAGCTTCAAGACACGTTGAGGTATTTTCAATTTA
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
673172 TG-TTTTC--
66 TGTTTTTCAA
* ** * ** *
673179 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-GGTTCACATACTGAGGCATTTTCAAT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG---ACACGCTGAGGTATTTTCAAT
***
673243 TTCTACCTTTCAA
63 TTCTGTTTTTCAA
**
673256 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
673321 TGTTTTT---
66 TGTTTTTCAA
* * *
673328 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGCATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
673393 TGTTTTTCAAAAAA
66 TGTTTTTC----AA
* *
673407 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAATACATGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
*
673472 TGTCTTTCAA
66 TGTTTTTCAA
* ** * * *
673482 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAAGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
*
673547 TG-TTGTCAA
66 TGTTTTTCAA
*
673556 AAAAATCAA--C---TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
673616 TG-TTTTC--
66 TGTTTTTCAA
* *
673623 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTT-AATTT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGT-ATTTTCAATTT
673687 CTG-TTTTC--
65 CTGTTTTTCAA
* *
673695 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
*
673760 TTTTTTTCAAAAA
66 TGTTTTTC---AA
*
673773 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
*
673838 TGTCTTTCAA
66 TGTTTTTCAA
** *
673848 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTT-AATTT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGT-ATTTTCAATTT
* *
673912 CTG-TTGTCCA
65 CTGTTTTTCAA
* *** * *
673922 AAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAAGACAAGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
673987 TG-TTTTC--
66 TGTTTTTCAA
* ** * *
673994 AAAAATCAACTCATATTGCCAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAAT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG---ACACGCTGAGGTATTTTCAAT
**
674058 TTCTGCCTTTCAAAA
63 TTCTGTTTTTC--AA
* ** ** * *
674073 AAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC-TCACGCGCTGAGCTATTTTCAAT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCC-T--CAAGACACGCTGAGGTATTTTCAAT
*
674137 TTCTGTCTTTCAAA
63 TTCTGTTTTTC-AA
* ** * * *
674151 AAAAATCAACTCATATTGCGATAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTTCA
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-A-GACACGCTGAGGTA---TTTTCA
* *
674216 ATTTATATTTTTCAA
61 ATTTCTGTTTTTCAA
*
674231 AAAAATCAACTCACATT--GAGAAATGTGAGTTGAGCCTC
1 AAAAATCAACTCATATTGCGAGAAA--TGAGTTGAGCCTC
674269 GGGTCACATG
Statistics
Matches: 1004, Mismatches: 109, Indels: 92
0.83 0.09 0.08
Matches are distributed among these distances:
67 8 0.01
69 51 0.05
71 7 0.01
72 273 0.27
73 15 0.01
74 153 0.15
75 156 0.16
76 5 0.00
77 36 0.04
78 121 0.12
79 131 0.13
80 31 0.03
81 16 0.02
82 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.33
Consensus pattern (75 bp):
AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
TGTTTTTCAA
Found at i:674135 original size:366 final size:361
Alignment explanation
Indices: 673033--674268 Score: 1279
Period size: 366 Copynumber: 3.3 Consensus size: 361
673023 TTCCGTTTTC
** * *
673033 AAAAATCAACTCATATTGCGAGAGGTGAGTGGAGCCTC-AGTTCACATGTTGAGGTATTTTCAAT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG---ACATGCTGAGGTATTTTCAAT
* * ** * * *
673097 TTCTGT-TTTC--AAAATTCAACTTATATTGCGAGAAATGAGTTGAGCTTCAAGACACGTTGAGG
63 TTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
* * * *
673159 T-ATTTTCAATTTATGTT-TTC-AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-GGT
128 TAATTTT-AATTTCTGTTGTCCAAAAAATCAACTC-TATTGCGAGAGGTGAGTTGAGCCTCAAG-
* * **
673220 TCACATA-CTGAGGCATTTTCAATTTCTACCTTTCAAAAAAATCAACTCATATTGCGAGAAATGA
190 --ACA-AGTTGAGGTATTTTCAATTTCT-GTTTTC--AAAAATCAACTCATATTGCGAGAAATGA
*
673284 GTTGAGCCTCAAGACACAT-TGAGGTATTTTCAATTTCTGTTTTTAAAATTCAACTCATATTGCG
249 GTTGAGCCTCAAG-CACATGTGAGGTATTTTCAATTTCTG-TTTCAAAATTCAACTCATATTGCG
673348 AGAAATGAGTTGAGCCTCAAGACATGCTGAGGCATTTTCAATTTCTGTTTTTCAAAAAA
312 AGAAATGAGTTGAGCCT-AAG--A-GCTGAGGC--TTTCAA-TTCT-TTTTTC-AAAAA
*
673407 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAATACATGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTC
* *
673472 TGTCTTTCAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAAGTAA
66 TGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAA
* * ** *
673537 TTTCAATTTCTGTTGTCAAAAAAATCAA--C--TTGCGAGAAATGAGTTGAGCCTCAAGACACGT
131 TTTTAATTTCTGTTGTCCAAAAAATCAACTCTATTGCGAGAGGTGAGTTGAGCCTCAAGACAAGT
*
673598 TGAGGTATTTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAA
196 TGAGGTATTTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAA
*
673663 G-ACACGTTGAGGTAATTTT-AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTT
261 GCACATG-TGAGGT-ATTTTCAATTTCTG-TTTCAAAATTCAACTCATATTGCGAGAAATGAGTT
*
673726 GAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTTTTTTTCAAAAA
323 GAGCCT-AAG--A-GCTGAGG--CTTTCAA-TTC-TTTTTTCAAAAA
673773 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTC
673838 TGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAA
66 TGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAA
*
673903 TTTTAATTTCTGTTGTCCAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAAGACAAG
131 TTTTAATTTCTGTTGTCCAAAAAATCAACTC-TATTGCGAGAGGTGAGTTGAGCCTCAAGACAAG
* **
673968 TTGAGGTATTTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCCAGAGGTGAGTTGAGCCTC-
195 TTGAGGTATTTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCA
* * * *
674032 GGTTCACATGCTGAGGTATTTTCAATTTCTGCCTTTCAAAAAAAAATCGACTCATATTGCGAGAG
260 AG--CACATG-TGAGGTATTTTCAATTTCTG--TTTC----AAAATTCAACTCATATTGCGAGAA
* * * *
674097 GTGAGTTGAGCCTTGGCTCACGCGCTGA-GCTATTTTCAATTTCTGTCTTTC--AAA
316 ATGAGTTGAG-C----CT-AAGAGCTGAGGC---TTTCAA-TTCT-TTTTTCAAAAA
* ** * * **
674151 AAAAATCAACTCATATTGCGATAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTTCA
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-A-GACATGCTGAGGTA---TTTTCA
* * * * * * *
674216 ATTTATATTTTTCAAAAAAATCAACTCACATTGAGAAATGTGAGTTGAGCCTC
61 ATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
674269 GGGTCACATG
Statistics
Matches: 749, Mismatches: 70, Indels: 77
0.84 0.08 0.09
Matches are distributed among these distances:
365 3 0.00
366 158 0.21
367 126 0.17
368 7 0.01
369 4 0.01
370 22 0.03
371 87 0.12
372 51 0.07
373 23 0.03
374 39 0.05
375 55 0.07
376 5 0.01
377 9 0.01
378 68 0.09
379 4 0.01
380 31 0.04
383 57 0.08
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.33
Consensus pattern (361 bp):
AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTC
TGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAA
TTTTAATTTCTGTTGTCCAAAAAATCAACTCTATTGCGAGAGGTGAGTTGAGCCTCAAGACAAGT
TGAGGTATTTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAA
GCACATGTGAGGTATTTTCAATTTCTGTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAG
CCTAAGAGCTGAGGCTTTCAATTCTTTTTTCAAAAA
Found at i:674290 original size:80 final size:81
Alignment explanation
Indices: 673770--674268 Score: 252
Period size: 74 Copynumber: 6.5 Consensus size: 81
673760 TTTTTTTCAA
* * **
673770 AAAAAAAATCAACTCATATTGCGAGAAA--TGAGTTGAGCCTCA-A-GACATGCTGAGGTA---T
1 AAAAAAAATCAACTCACATT--GAGAAAGGTGAGTTGAGCCTCAGATCACACACTGAGGTATTTT
* *
673828 TTTCAATTTCTGTCTTTC
64 TTTCAATTTATATCTTTC
* * * * * *
673846 -AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACACGCTGAGGTA--ATTT
1 AAAAAAAATCAACTCACATTGAGAAAGGTGAGTTGAGCCTCAGATCACACACTGAGGTATTTTTT
* * *
673906 T-AATTTCTGT-TGTC
66 TCAATTTATATCTTTC
* ** * * * **
673920 -CAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAAGA-CA-A-GTTGAGGTA---TT
1 AAAAAAAATCAACTCACATTGAGAAAGGTGAGTTGAGCCTC-AGATCACACACTGAGGTATTTTT
* *
673978 TTCAATTTCTGT-TTTC
65 TTCAATTTATATCTTTC
* ** * * * **
673994 ---AAAAATCAACTCATATTGCCAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTA---TTT
1 AAAAAAAATCAACTCACATTGAGAAAGGTGAGTTGAGCCTCAGATCACACACTGAGGTATTTTTT
* **
674053 TCAATTTCTGCCTTTC
66 TCAATTTATATCTTTC
* * * * ** * * * *
674069 AAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTA---TT
1 -AAAAAAAATCAACTCACATTGAGAAAGGTGAGTTGAGCCTCAGATCACACACTGAGGTATTTTT
* *
674131 TTCAATTTCTGTCTTTC
65 TTCAATTTATATCTTTC
* * * *
674148 AAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTT
1 AAAAAAAATCAACTCACATTGAGAAAGGTGAGTTGAGCCTCAGATCACACACTGAGGTATTTTTT
*
674213 TCAATTTATATTTTTC
66 TCAATTTATATCTTTC
*
674229 -AAAAAAATCAACTCACATTGAGAAATGTGAGTTGAGCCTC
1 AAAAAAAATCAACTCACATTGAGAAAGGTGAGTTGAGCCTC
674269 GGGTCACATG
Statistics
Matches: 363, Mismatches: 42, Indels: 32
0.83 0.10 0.07
Matches are distributed among these distances:
71 1 0.00
72 37 0.10
73 9 0.02
74 81 0.22
75 62 0.17
76 5 0.01
78 50 0.14
79 67 0.18
80 35 0.10
81 16 0.04
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (81 bp):
AAAAAAAATCAACTCACATTGAGAAAGGTGAGTTGAGCCTCAGATCACACACTGAGGTATTTTTT
TCAATTTATATCTTTC
Found at i:674392 original size:53 final size:53
Alignment explanation
Indices: 674312--674419 Score: 180
Period size: 53 Copynumber: 2.0 Consensus size: 53
674302 TTTCAAAATA
674312 TGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTTTTAATTTC
1 TGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTTTTAATTTC
* * * *
674365 TGTTTTCAAAAATCAACTCATATTGCGAGAGGTGATTTGAGCTTTTTAATTTC
1 TGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTTTTAATTTC
674418 TG
1 TG
674420 CGAGAGGTGA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.40
Consensus pattern (53 bp):
TGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTTTTAATTTC
Found at i:674424 original size:30 final size:30
Alignment explanation
Indices: 674388--674449 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
674378 CAACTCATAT
* *
674388 TGCGAGAGGTGATTTGAGCTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGCCTTTTAATTTC
674418 TGCGAGAGGTGAGTTGAGCCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGCCTTTTAATTTC
674448 TG
1 TG
674450 TTTTTCAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.19, C:0.11, G:0.29, T:0.40
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGCCTTTTAATTTC
Found at i:674438 original size:83 final size:84
Alignment explanation
Indices: 674335--674490 Score: 269
Period size: 84 Copynumber: 1.9 Consensus size: 84
674325 CAACTCATAT
*
674335 TGCGAGAAGTGAGTTAAGCCTTTTAATTTCTG-TTTTCAAAAATCAACTCATATTGCGAGAGGTG
1 TGCGAGAAGTGAGTTAAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTACGAGAGGTG
*
674399 ATTTGAGCTTTTTAATTTC
66 AGTTGAGCTTTTTAATTTC
* *
674418 TGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTACGAGAGGTG
1 TGCGAGAAGTGAGTTAAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTACGAGAGGTG
674483 AGTTGAGC
66 AGTTGAGC
674491 CTCGAGTCAC
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
83 30 0.44
84 38 0.56
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (84 bp):
TGCGAGAAGTGAGTTAAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTACGAGAGGTG
AGTTGAGCTTTTTAATTTC
Found at i:675364 original size:12 final size:12
Alignment explanation
Indices: 675347--675373 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
675337 GCCACAATTG
675347 CTCCACCACCAA
1 CTCCACCACCAA
675359 CTCCACCACCAA
1 CTCCACCACCAA
675371 CTC
1 CTC
675374 TACTAGCCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.59, G:0.00, T:0.11
Consensus pattern (12 bp):
CTCCACCACCAA
Found at i:675365 original size:42 final size:42
Alignment explanation
Indices: 675319--675406 Score: 122
Period size: 42 Copynumber: 2.1 Consensus size: 42
675309 CTAGCCTTTG
*
675319 CCACCACAAACTCCATTAGCCACAATTGCTCCACCACCAACT
1 CCACCACAAACTCCACTAGCCACAATTGCTCCACCACCAACT
* * * * *
675361 CCACCACCAACTCTACTAGCCACACTTGCTCCACTACCTACT
1 CCACCACAAACTCCACTAGCCACAATTGCTCCACCACCAACT
675403 CCAC
1 CCAC
675407 TAGCCACACT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.30, C:0.48, G:0.05, T:0.18
Consensus pattern (42 bp):
CCACCACAAACTCCACTAGCCACAATTGCTCCACCACCAACT
Found at i:675393 original size:30 final size:30
Alignment explanation
Indices: 675359--675429 Score: 115
Period size: 30 Copynumber: 2.4 Consensus size: 30
675349 CCACCACCAA
* *
675359 CTCCACCACCAACTCTACTAGCCACACTTG
1 CTCCACTACCAACTCCACTAGCCACACTTG
*
675389 CTCCACTACCTACTCCACTAGCCACACTTG
1 CTCCACTACCAACTCCACTAGCCACACTTG
675419 CTCCACTACCA
1 CTCCACTACCA
675430 CTTGTACCTA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.25, C:0.48, G:0.06, T:0.21
Consensus pattern (30 bp):
CTCCACTACCAACTCCACTAGCCACACTTG
Found at i:678684 original size:30 final size:30
Alignment explanation
Indices: 678645--678713 Score: 111
Period size: 30 Copynumber: 2.3 Consensus size: 30
678635 TAGGTACAAG
*
678645 TGGTAGTGGAGCAAGTGTGGCTAGAGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGAGGAGT
* *
678675 TGGTGGTGGAGCAATTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGAGGAGT
678705 TGGTGGTGG
1 TGGTGGTGG
678714 CAAAGGCTAG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.17, C:0.06, G:0.49, T:0.28
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGAGGAGT
Done.