Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 67 of 204
Found at i:21194522 original size:27 final size:27
Alignment explanation
Indices: 21194432--21194574 Score: 95
Period size: 27 Copynumber: 5.5 Consensus size: 27
21194422 CCTTCTGGCC
* *
21194432 TCCTCTTCCTCT-TCCCTCCTAGCTTCT
1 TCCTCTTCCTCTCT-TCTCTTAGCTTCT
* * * * * *
21194459 TCTTCCTCCTCTCTCCTCCTGGCCTCT
1 TCCTCTTCCTCTCTTCTCTTAGCTTCT
*
21194486 T--T-TTCTTCTCTTCTCTTAGCTTCT
1 TCCTCTTCCTCTCTTCTCTTAGCTTCT
* *
21194510 TCCTCTTCCTCTC-TC-CTT--CTGGCC
1 TCCTCTTCCTCTCTTCTCTTAGCT-TCT
* *
21194534 TCCTCTTCTTCCCTTCTCTTAGCTTCT
1 TCCTCTTCCTCTCTTCTCTTAGCTTCT
21194561 TCCTCTTCCTCTCT
1 TCCTCTTCCTCTCT
21194575 CCTTCTGGCC
Statistics
Matches: 88, Mismatches: 19, Indels: 18
0.70 0.15 0.14
Matches are distributed among these distances:
23 2 0.02
24 29 0.33
25 6 0.07
26 6 0.07
27 42 0.48
28 3 0.03
ACGTcount: A:0.02, C:0.45, G:0.05, T:0.48
Consensus pattern (27 bp):
TCCTCTTCCTCTCTTCTCTTAGCTTCT
Found at i:21194592 original size:81 final size:82
Alignment explanation
Indices: 21194507--21194681 Score: 227
Period size: 81 Copynumber: 2.2 Consensus size: 82
21194497 TCTCTTAGCT
* *
21194507 TCTTCCTCTTCCTC-TCTCCTTCTGGCCTCCTCTTCTTCC-C-TT-CTCTTAGCTTCTTCCTCTT
1 TCTTCCTCTTCCTCTTCT-CTTCTGG--GCCTCTTCTTCCTCTTTCCTCTTAGCTTCTTCCTCCT
21194568 C-CTCTCTCCTTCTGGCCTCC
63 CTCT-TCTCCTTCTGGCCTCC
*
21194588 TCTTCCTCTTCC-CTTCTCTTTTGGGCCTCTTCTTCCTCTTTCCTCTTAGCTTCTTCCTCCTCTC
1 TCTTCCTCTTCCTCTTCTCTTCTGGGCCTCTTCTTCCTCTTTCCTCTTAGCTTCTTCCTCCTCTC
*
21194652 TTCTCTTTCTGGCCTCC
66 TTCTCCTTCTGGCCTCC
*
21194669 TCTTCCTCCTCCT
1 TCTTCCTCTTCCT
21194682 TCCTTTCCCT
Statistics
Matches: 83, Mismatches: 5, Indels: 11
0.84 0.05 0.11
Matches are distributed among these distances:
78 11 0.13
79 1 0.01
80 9 0.11
81 60 0.72
82 2 0.02
ACGTcount: A:0.01, C:0.45, G:0.06, T:0.47
Consensus pattern (82 bp):
TCTTCCTCTTCCTCTTCTCTTCTGGGCCTCTTCTTCCTCTTTCCTCTTAGCTTCTTCCTCCTCTC
TTCTCCTTCTGGCCTCC
Found at i:21194619 original size:51 final size:51
Alignment explanation
Indices: 21194408--21194607 Score: 243
Period size: 51 Copynumber: 3.9 Consensus size: 51
21194398 CCTCCGAGCA
*
21194408 TCCTCTTCCTCTCTCCTTCTGGCCTCCTCTTCCTCTTCCCTCCTAGCTTCTTCT
1 TCCTCTTCCTCTCTCCTTCTGGCCTCCTCTT-CTCTTCCCTTCT--CTTCTTCT
* * *
21194462 T-C-C-TCCTCTCTCCTCCTGGCCT-CT-TTTTCTTCTCTTCTCTTAGCTTCT
1 TCCTCTTCCTCTCTCCTTCTGGCCTCCTCTTCTCTTCCCTTCTCTT--CTTCT
21194510 TCCTCTTCCTCTCTCCTTCTGGCCTCCTC-T-TCTTCCCTTCTCTTAGCTTCT
1 TCCTCTTCCTCTCTCCTTCTGGCCTCCTCTTCTCTTCCCTTCTCTT--CTTCT
21194561 TCCTCTTCCTCTCTCCTTCTGGCCTCCTCTTCCTCTTCCCTTCTCTT
1 TCCTCTTCCTCTCTCCTTCTGGCCTCCTCTT-CTCTTCCCTTCTCTT
21194608 TTGGGCCTCT
Statistics
Matches: 130, Mismatches: 6, Indels: 20
0.83 0.04 0.13
Matches are distributed among these distances:
46 3 0.02
48 15 0.12
49 3 0.02
50 3 0.02
51 85 0.65
52 5 0.04
53 1 0.01
54 15 0.12
ACGTcount: A:0.01, C:0.46, G:0.06, T:0.47
Consensus pattern (51 bp):
TCCTCTTCCTCTCTCCTTCTGGCCTCCTCTTCTCTTCCCTTCTCTTCTTCT
Found at i:21204312 original size:114 final size:114
Alignment explanation
Indices: 21204108--21204514 Score: 638
Period size: 114 Copynumber: 3.6 Consensus size: 114
21204098 AACTATGCAA
*
21204108 TTCCACTGCAGTTCACATACACGTGGCGCTAACAACATCTAAATGTAATTAGAATCGATCGCAAA
1 TTCCACTGCAGTCCACATACACGTGGCGCTAACAACATCTAAATGTAATTAGAATCGATCGCAAA
21204173 TTGATTCGG-TGATGAGTCCTTTAACCGTCAACTATGCTATTAACAAAGG
66 TTGATT-GGATGATGAGTCCTTTAACCGTCAACTATGCTATTAACAAAGG
21204222 TTCCACTGCAGTCCACATACACGTGGCGCTAACAACATCTAAATGTAATTAGAATCGATCGCAAA
1 TTCCACTGCAGTCCACATACACGTGGCGCTAACAACATCTAAATGTAATTAGAATCGATCGCAAA
** *
21204287 TTGATTGGATGATGAGTCCCGTAACCGTCAACTACGCTATTAACAAAGG
66 TTGATTGGATGATGAGTCCTTTAACCGTCAACTATGCTATTAACAAAGG
* *
21204336 TTCCACTGCAGTCCACATACACGTGGCACTAACAACATCTAAATGTAATTAGAATCTG-TCACAA
1 TTCCACTGCAGTCCACATACACGTGGCGCTAACAACATCTAAATGTAATTAGAATC-GATCGCAA
* * * *
21204400 ATCGATTGGATGATGAGTCCTTTAACTGTCAACTATGCTATGAACAAAGA
65 ATTGATTGGATGATGAGTCCTTTAACCGTCAACTATGCTATTAACAAAGG
* * * * * *
21204450 TTCAACTGCAGTCCACATGCACGCGGCGCTAACAACATCTAAATGTAGTTACAATCGATCTCAAA
1 TTCCACTGCAGTCCACATACACGTGGCGCTAACAACATCTAAATGTAATTAGAATCGATCGCAAA
21204515 ATCTTCTAAT
Statistics
Matches: 270, Mismatches: 20, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
113 3 0.01
114 266 0.99
115 1 0.00
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (114 bp):
TTCCACTGCAGTCCACATACACGTGGCGCTAACAACATCTAAATGTAATTAGAATCGATCGCAAA
TTGATTGGATGATGAGTCCTTTAACCGTCAACTATGCTATTAACAAAGG
Found at i:21209502 original size:10 final size:8
Alignment explanation
Indices: 21209478--21209504 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
21209468 ATCATCCATT
21209478 TCAATATA
1 TCAATATA
21209486 TCAATATA
1 TCAATATA
21209494 TCAATATA
1 TCAATATA
21209502 TCA
1 TCA
21209505 TGTGCCATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (8 bp):
TCAATATA
Found at i:21209810 original size:21 final size:21
Alignment explanation
Indices: 21209749--21209904 Score: 131
Period size: 21 Copynumber: 7.6 Consensus size: 21
21209739 GAAGCTCAAA
*
21209749 AGTTGAACAGAAGCTCTTAAG
1 AGTTGAACAGAAGCTCGTAAG
* * * *
21209770 AGCTAAACATAAACTC---AG
1 AGTTGAACAGAAGCTCGTAAG
21209788 AGTTGAACAGAAGCTCGTAAG
1 AGTTGAACAGAAGCTCGTAAG
* * * *
21209809 AGCTGGACAGAAACTCATAAG
1 AGTTGAACAGAAGCTCGTAAG
21209830 AGTTGAACAGAAGCTCGTAAG
1 AGTTGAACAGAAGCTCGTAAG
* * *
21209851 AGCTT-AACAGAAACTCATAAC
1 AG-TTGAACAGAAGCTCGTAAG
* *
21209872 AGTTGAACAGAAGATCGAAAG
1 AGTTGAACAGAAGCTCGTAAG
* *
21209893 AGCTAAACAGAA
1 AGTTGAACAGAA
21209905 AGTAAAACAT
Statistics
Matches: 104, Mismatches: 26, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
18 14 0.13
20 2 0.02
21 86 0.83
22 2 0.02
ACGTcount: A:0.44, C:0.17, G:0.22, T:0.17
Consensus pattern (21 bp):
AGTTGAACAGAAGCTCGTAAG
Found at i:21209842 original size:42 final size:42
Alignment explanation
Indices: 21209749--21209905 Score: 221
Period size: 42 Copynumber: 3.8 Consensus size: 42
21209739 GAAGCTCAAA
* *
21209749 AGTTGAACAGAAGCTCTTAAGAGCTAAACATAAACTC---AG
1 AGTTGAACAGAAGCTCGTAAGAGCTAAACAGAAACTCATAAG
**
21209788 AGTTGAACAGAAGCTCGTAAGAGCTGGACAGAAACTCATAAG
1 AGTTGAACAGAAGCTCGTAAGAGCTAAACAGAAACTCATAAG
* *
21209830 AGTTGAACAGAAGCTCGTAAGAGCTTAACAGAAACTCATAAC
1 AGTTGAACAGAAGCTCGTAAGAGCTAAACAGAAACTCATAAG
* *
21209872 AGTTGAACAGAAGATCGAAAGAGCTAAACAGAAA
1 AGTTGAACAGAAGCTCGTAAGAGCTAAACAGAAA
21209906 GTAAAACATG
Statistics
Matches: 105, Mismatches: 10, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
39 33 0.31
42 72 0.69
ACGTcount: A:0.45, C:0.17, G:0.22, T:0.17
Consensus pattern (42 bp):
AGTTGAACAGAAGCTCGTAAGAGCTAAACAGAAACTCATAAG
Found at i:21215757 original size:21 final size:21
Alignment explanation
Indices: 21215731--21215799 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 21
21215721 TGAAAATTGT
21215731 ACAAAAATAGAAAATATGCAA
1 ACAAAAATAGAAAATATGCAA
* *
21215752 ACAAAACACACAAAGATA---AA
1 ACAAAA-ATAGAAA-ATATGCAA
*
21215772 ATAAAAAATAGAAAATATGCAA
1 A-CAAAAATAGAAAATATGCAA
21215794 ACAAAA
1 ACAAAA
21215800 CACACAAAGA
Statistics
Matches: 36, Mismatches: 6, Indels: 12
0.67 0.11 0.22
Matches are distributed among these distances:
19 3 0.08
20 8 0.22
21 14 0.39
22 8 0.22
23 3 0.08
ACGTcount: A:0.70, C:0.12, G:0.07, T:0.12
Consensus pattern (21 bp):
ACAAAAATAGAAAATATGCAA
Found at i:21215781 original size:42 final size:42
Alignment explanation
Indices: 21215733--21215815 Score: 166
Period size: 42 Copynumber: 2.0 Consensus size: 42
21215723 AAAATTGTAC
21215733 AAAAATAGAAAATATGCAAACAAAACACACAAAGATAAAATA
1 AAAAATAGAAAATATGCAAACAAAACACACAAAGATAAAATA
21215775 AAAAATAGAAAATATGCAAACAAAACACACAAAGATAAAAT
1 AAAAATAGAAAATATGCAAACAAAACACACAAAGATAAAAT
21215816 CTATGTACAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.69, C:0.12, G:0.07, T:0.12
Consensus pattern (42 bp):
AAAAATAGAAAATATGCAAACAAAACACACAAAGATAAAATA
Found at i:21226032 original size:27 final size:27
Alignment explanation
Indices: 21226002--21226241 Score: 245
Period size: 27 Copynumber: 8.9 Consensus size: 27
21225992 CAAATGACTA
*
21226002 AAATACCCTCGAAGGGAAAAATGATCG
1 AAATACCCTCGAAGGGTAAAATGATCG
* * *
21226029 AAATACCCTCGAAAGGTAAAATGACCA
1 AAATACCCTCGAAGGGTAAAATGATCG
* * *
21226056 AAATACCCTCAAAGGGAAAAATGATTG
1 AAATACCCTCGAAGGGTAAAATGATCG
* *
21226083 AAATACCC-CTGAATGGTAAAATGACCG
1 AAATACCCTC-GAAGGGTAAAATGATCG
* * **
21226110 AAATACTCTCCAAGGGTAAAATGGCCG
1 AAATACCCTCGAAGGGTAAAATGATCG
* **
21226137 AAATATCCTCGAAGGGTAAAACAATCG
1 AAATACCCTCGAAGGGTAAAATGATCG
21226164 AAATACCC-CTGAAGGGTAAAATGA-CTG
1 AAATACCCTC-GAAGGGTAAAATGATC-G
* **
21226191 AAATACCCTCGAAGGATAAAATGATTA
1 AAATACCCTCGAAGGGTAAAATGATCG
21226218 AAATACCCTC-ATAGGGTAAAATGA
1 AAATACCCTCGA-AGGGTAAAATGA
21226242 CTATTATACC
Statistics
Matches: 173, Mismatches: 33, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
26 4 0.02
27 167 0.97
28 2 0.01
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.18
Consensus pattern (27 bp):
AAATACCCTCGAAGGGTAAAATGATCG
Found at i:21226104 original size:81 final size:80
Alignment explanation
Indices: 21225993--21226241 Score: 277
Period size: 81 Copynumber: 3.1 Consensus size: 80
21225983 ATTCGTGGGC
* * *
21225993 AAATGACTAAAATA-CCCTCGAAGGGAAAAATGATCGAAATACCCTCGAAAGGTAAAATGACCAA
1 AAATGATTGAAATACCCCT-GAAGGGTAAAATGA-CGAAATACCCTCGAAAGGTAAAATGACCAA
*
21226057 AATACCCTCAAAGGGAA
64 AATACCCTCAAAGGGTA
* * * * * *
21226074 AAATGATTGAAATACCCCTGAATGGTAAAATGACCGAAATACTCTCCAAGGGTAAAATGGCCGAA
1 AAATGATTGAAATACCCCTGAAGGGTAAAATGA-CGAAATACCCTCGAAAGGTAAAATGACCAAA
* *
21226139 ATATCCTCGAAGGGTA
65 ATACCCTCAAAGGGTA
** * **
21226155 AAACAATCGAAATACCCCTGAAGGGTAAAATGACTGAAATACCCTCG-AAGGATAAAATGATTAA
1 AAATGATTGAAATACCCCTGAAGGGTAAAATGAC-GAAATACCCTCGAAAGG-TAAAATGACCAA
*
21226219 AATACCCTCATAGGGTA
64 AATACCCTCAAAGGGTA
21226236 AAATGA
1 AAATGA
21226242 CTATTATACC
Statistics
Matches: 136, Mismatches: 29, Indels: 6
0.80 0.17 0.04
Matches are distributed among these distances:
80 4 0.03
81 128 0.94
82 4 0.03
ACGTcount: A:0.45, C:0.18, G:0.18, T:0.18
Consensus pattern (80 bp):
AAATGATTGAAATACCCCTGAAGGGTAAAATGACGAAATACCCTCGAAAGGTAAAATGACCAAAA
TACCCTCAAAGGGTA
Found at i:21226661 original size:28 final size:28
Alignment explanation
Indices: 21226579--21226648 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
21226569 ATTGTACTTC
21226579 TACTGTATTGGGCTAAGGCCCACACTGT
1 TACTGTATTGGGCTAAGGCCCACACTGT
21226607 TACTGTATTGGGCTAAGGCCCACACTGT
1 TACTGTATTGGGCTAAGGCCCACACTGT
* *
21226635 TGCTGTATAGGGCT
1 TACTGTATTGGGCT
21226649 TACGCCCAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.20, C:0.23, G:0.27, T:0.30
Consensus pattern (28 bp):
TACTGTATTGGGCTAAGGCCCACACTGT
Found at i:21232172 original size:13 final size:13
Alignment explanation
Indices: 21232154--21232178 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21232144 AACTTATTTT
21232154 CTATCCCAAAATG
1 CTATCCCAAAATG
21232167 CTATCCCAAAAT
1 CTATCCCAAAAT
21232179 TCAAGCCAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.32, G:0.04, T:0.24
Consensus pattern (13 bp):
CTATCCCAAAATG
Found at i:21232762 original size:40 final size:40
Alignment explanation
Indices: 21232718--21232892 Score: 183
Period size: 40 Copynumber: 4.4 Consensus size: 40
21232708 ACACTGGCCC
*
21232718 AAAGCCTGCTAGGCACTAAGCCAGATA-ATTACACCGGCAT
1 AAAGCCTGCTAGGCATTAAGCCAGATATA-TACACCGGCAT
* * *
21232758 AAAGCTTGCTAGGCATTAAGCCCGATATATACACTGGCAT
1 AAAGCCTGCTAGGCATTAAGCCAGATATATACACCGGCAT
* * * * *
21232798 GAAGCCCGCTAGGAATTAAGCCCGATATATACACAGGCAT
1 AAAGCCTGCTAGGCATTAAGCCAGATATATACACCGGCAT
** * *
21232838 AAAGCCTGCTAGGTTTTAAGCCCA-ATAGATACACCGGCAC
1 AAAGCCTGCTAGGCATTAAG-CCAGATATATACACCGGCAT
* *
21232878 GAAGCTTGCTAGGCA
1 AAAGCCTGCTAGGCA
21232893 CAAGGCTCAA
Statistics
Matches: 112, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
40 109 0.97
41 3 0.03
ACGTcount: A:0.33, C:0.25, G:0.22, T:0.20
Consensus pattern (40 bp):
AAAGCCTGCTAGGCATTAAGCCAGATATATACACCGGCAT
Found at i:21232889 original size:80 final size:80
Alignment explanation
Indices: 21232719--21232890 Score: 211
Period size: 80 Copynumber: 2.1 Consensus size: 80
21232709 CACTGGCCCA
* * * *
21232719 AAGCCTGCTAGGCACTAAGCCAGATAATTACACCGGCATAAAGCTTGCTAGGCATTAAGCCCGAT
1 AAGCCTGCTAGGAACTAAGCCAGATAATTACACAGGCATAAAGCCTGCTAGGCATTAAGCCCAAT
* * *
21232784 ATATACACTGGCATG
66 AGATACACCGGCACG
* * * **
21232799 AAGCCCGCTAGGAATTAAGCCCGAT-ATATACACAGGCATAAAGCCTGCTAGGTTTTAAGCCCAA
1 AAGCCTGCTAGGAACTAAGCCAGATAAT-TACACAGGCATAAAGCCTGCTAGGCATTAAGCCCAA
21232863 TAGATACACCGGCACG
65 TAGATACACCGGCACG
*
21232879 AAGCTTGCTAGG
1 AAGCCTGCTAGG
21232891 CACAAGGCTC
Statistics
Matches: 77, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
79 2 0.03
80 75 0.97
ACGTcount: A:0.33, C:0.25, G:0.22, T:0.20
Consensus pattern (80 bp):
AAGCCTGCTAGGAACTAAGCCAGATAATTACACAGGCATAAAGCCTGCTAGGCATTAAGCCCAAT
AGATACACCGGCACG
Found at i:21233594 original size:16 final size:16
Alignment explanation
Indices: 21233573--21233607 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
21233563 AGTCCTCGTA
21233573 ATTTTA-TCACTTTAAC
1 ATTTTAGTC-CTTTAAC
21233589 ATTTTAGTCCTTTAAC
1 ATTTTAGTCCTTTAAC
21233605 ATT
1 ATT
21233608 AAAAATACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.29, C:0.17, G:0.03, T:0.51
Consensus pattern (16 bp):
ATTTTAGTCCTTTAAC
Found at i:21235332 original size:30 final size:30
Alignment explanation
Indices: 21235298--21235356 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
21235288 TTTACATCCC
21235298 TTTTACACATAACTGTAGCTTGTTTAATAG
1 TTTTACACATAACTGTAGCTTGTTTAATAG
21235328 TTTTACACATAACTGTAGCTTGTTTAATA
1 TTTTACACATAACTGTAGCTTGTTTAATA
21235357 CTAAATCAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.44
Consensus pattern (30 bp):
TTTTACACATAACTGTAGCTTGTTTAATAG
Found at i:21238793 original size:6 final size:6
Alignment explanation
Indices: 21238782--21238807 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
21238772 ACCTGAAAAG
21238782 AAAATA AAAATA AAAATA AAAATA AA
1 AAAATA AAAATA AAAATA AAAATA AA
21238808 CAAAAATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:21243306 original size:57 final size:58
Alignment explanation
Indices: 21243237--21243348 Score: 165
Period size: 57 Copynumber: 1.9 Consensus size: 58
21243227 ATTTTTCAGG
* *
21243237 TCATTTTCATTTTGTAGAAAACCACATTCATTTCCAAATGGTTT-C-ATTTCTCCATTT
1 TCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAAT-GTTTCCTATTTCTCCATTT
**
21243294 TCATTTTCATTTTGGAGAAAACCTTAATCATTTCCAAATGTTTCCTATTTCTCCA
1 TCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGTTTCCTATTTCTCCA
21243349 CTTCACTATT
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
56 4 0.08
57 36 0.73
58 9 0.18
ACGTcount: A:0.27, C:0.21, G:0.07, T:0.45
Consensus pattern (58 bp):
TCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGTTTCCTATTTCTCCATTT
Found at i:21246646 original size:32 final size:31
Alignment explanation
Indices: 21246591--21246729 Score: 100
Period size: 32 Copynumber: 4.4 Consensus size: 31
21246581 GAATTGCTAC
* *
21246591 AAGCCATAAGTACAGTAATATGATTGGCACA
1 AAGCCATAAGTACAATAATATGATAGGCACA
* *
21246622 AAGCCATTAGTAGCAATGATATGATAGGCACA
1 AAGCCATAAGTA-CAATAATATGATAGGCACA
* ** * **
21246654 CAA-CCATCAGTAACGGTAATATGATCGATACA
1 -AAGCCATAAGT-ACAATAATATGATAGGCACA
* ** *
21246686 ATGCCATCGGTAACGATAATATGATAGGCACA
1 AAGCCATAAGT-ACAATAATATGATAGGCACA
*
21246718 AAGCCATCAGTA
1 AAGCCATAAGTA
21246730 GCATCACAGC
Statistics
Matches: 85, Mismatches: 19, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
31 13 0.15
32 69 0.81
33 3 0.04
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.22
Consensus pattern (31 bp):
AAGCCATAAGTACAATAATATGATAGGCACA
Found at i:21246919 original size:13 final size:13
Alignment explanation
Indices: 21246901--21246982 Score: 59
Period size: 11 Copynumber: 6.8 Consensus size: 13
21246891 CCATGCTCAG
21246901 AATCAGTCATACA
1 AATCAGTCATACA
*
21246914 AATCAG--AGACA
1 AATCAGTCATACA
*
21246925 AATCAGTCATACC
1 AATCAGTCATACA
* *
21246938 AATCA--CAGATA
1 AATCAGTCATACA
**
21246949 AATCAGTCATTTA
1 AATCAGTCATACA
*
21246962 AATCA--CAGACA
1 AATCAGTCATACA
21246973 AATCAGTCAT
1 AATCAGTCAT
21246983 TTACATCACG
Statistics
Matches: 51, Mismatches: 12, Indels: 12
0.68 0.16 0.16
Matches are distributed among these distances:
11 26 0.51
13 25 0.49
ACGTcount: A:0.46, C:0.22, G:0.10, T:0.22
Consensus pattern (13 bp):
AATCAGTCATACA
Found at i:21246928 original size:24 final size:24
Alignment explanation
Indices: 21246901--21247006 Score: 122
Period size: 24 Copynumber: 4.4 Consensus size: 24
21246891 CCATGCTCAG
*
21246901 AATCAGTCATACAAATCAGAGACA
1 AATCAGTCATACAAATCACAGACA
* *
21246925 AATCAGTCATACCAATCACAGATA
1 AATCAGTCATACAAATCACAGACA
**
21246949 AATCAGTCATTTAAATCACAGACA
1 AATCAGTCATACAAATCACAGACA
** * *
21246973 AATCAGTCATTTACATCACGGACA
1 AATCAGTCATACAAATCACAGACA
*
21246997 AATCAATCAT
1 AATCAGTCAT
21247007 TTACACTCGA
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 72 1.00
ACGTcount: A:0.45, C:0.23, G:0.09, T:0.23
Consensus pattern (24 bp):
AATCAGTCATACAAATCACAGACA
Found at i:21247071 original size:27 final size:27
Alignment explanation
Indices: 21247028--21247181 Score: 141
Period size: 27 Copynumber: 5.7 Consensus size: 27
21247018 GGGCAAAATA
*
21247028 GTCA-TTTACCCTCTAGGGGCATTACG
1 GTCATTTTACCCTATAGGGGCATTACG
* * * *
21247054 TTCATTTTACCTTATAGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGCATTACG
* *
21247081 GTCATTTAACCCTAT-GAGGGTATTACG
1 GTCATTTTACCCTATAG-GGGCATTACG
* *
21247108 GTCATTTTACCCTACAAGGGCATTACG
1 GTCATTTTACCCTATAGGGGCATTACG
* * * *
21247135 GTCATTTTACCTTACAGGGGAATTTCG
1 GTCATTTTACCCTATAGGGGCATTACG
* *
21247162 ATCATTTTACCTTATGAGGG
1 GTCATTTTACCCTAT-AGGG
21247182 TATTTTAGTC
Statistics
Matches: 105, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
26 4 0.04
27 97 0.92
28 4 0.04
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCCTATAGGGGCATTACG
Found at i:21247115 original size:54 final size:53
Alignment explanation
Indices: 21247055--21247333 Score: 244
Period size: 54 Copynumber: 5.2 Consensus size: 53
21247045 GGCATTACGT
* *
21247055 TCATTTTACCTTATAG-GGGTATTTCGGTCATTTAACCCTATGAGGGTATTACGG
1 TCATTTTACC-TATAGAGGGTATTTCGGTCATTTTACCC-ATGAGGGTATTTCGG
* * * * *
21247109 TCATTTTACCCTACA-AGGGCATTACGGTCATTTTACCTTACA-G-GGGAATTTCGA
1 TCATTTTA-CCTATAGAGGGTATTTCGGTCATTTTACC---CATGAGGGTATTTCGG
** *
21247163 TCATTTTACCT-TATGAGGGTATTTTAGTCATTTTACCCATCGAGGGTATTTCAG
1 TCATTTTACCTATA-GAGGGTATTTCGGTCATTTTACCCAT-GAGGGTATTTCGG
* * * * * *
21247217 CCATTTTACCCATCGAGGGTATTTCAGTCATTTTACCCATTAGGGGTATTTCGA
1 TCATTTTACCTATAGAGGGTATTTCGGTCATTTTACCCATGA-GGGTATTTCGG
* * * * *
21247271 TAATTTTACCCATCGAGGGTATTTTGGTTATTTTACCCATCGAGGGTATTTCGG
1 TCATTTTACCTATAGAGGGTATTTCGGTCATTTTACCCAT-GAGGGTATTTCGG
21247325 TCATTTTAC
1 TCATTTTAC
21247334 AAATATTGGG
Statistics
Matches: 182, Mismatches: 30, Indels: 26
0.76 0.13 0.11
Matches are distributed among these distances:
51 2 0.01
52 1 0.01
53 5 0.03
54 167 0.92
55 5 0.03
56 1 0.01
57 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (53 bp):
TCATTTTACCTATAGAGGGTATTTCGGTCATTTTACCCATGAGGGTATTTCGG
Found at i:21247117 original size:81 final size:81
Alignment explanation
Indices: 21247027--21247200 Score: 235
Period size: 81 Copynumber: 2.2 Consensus size: 81
21247017 GGGGCAAAAT
* * * * *
21247027 AGTCA-TTTACCCT-CTAGGGGCATTACGTTCATTTTACCTTATAGGGGTATTTCGGTCATTTAA
1 AGTCATTTTACCCTAC-AAGGGCATTACGGTCATTTTACCTTACAGGGGAATTTCGATCATTTAA
21247090 CCCTATGAGGGTATTAC
65 CCCTATGAGGGTATTAC
* *
21247107 GGTCATTTTACCCTACAAGGGCATTACGGTCATTTTACCTTACAGGGGAATTTCGATCATTTTAC
1 AGTCATTTTACCCTACAAGGGCATTACGGTCATTTTACCTTACAGGGGAATTTCGATCATTTAAC
* **
21247172 CTTATGAGGGTATTTT
66 CCTATGAGGGTATTAC
21247188 AGTCATTTTACCC
1 AGTCATTTTACCC
21247201 ATCGAGGGTA
Statistics
Matches: 81, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
80 4 0.05
81 76 0.94
82 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (81 bp):
AGTCATTTTACCCTACAAGGGCATTACGGTCATTTTACCTTACAGGGGAATTTCGATCATTTAAC
CCTATGAGGGTATTAC
Found at i:21247186 original size:27 final size:26
Alignment explanation
Indices: 21247055--21247333 Score: 172
Period size: 27 Copynumber: 10.3 Consensus size: 26
21247045 GGCATTACGT
*
21247055 TCATTTTACCTTAT-AGGGGTATTTCGG
1 TCATTTTACC-TATGA-GGGTATTTCGA
* * *
21247082 TCATTTAACCCTATGAGGGTATTACGG
1 TCATTTTA-CCTATGAGGGTATTTCGA
** * * *
21247109 TCATTTTACCCTACAAGGGCATTACGG
1 TCATTTTA-CCTATGAGGGTATTTCGA
* *
21247136 TCATTTTACCT-TACAGGGGAATTTCGA
1 TCATTTTACCTAT-GA-GGGTATTTCGA
*
21247163 TCATTTTACCTTATGAGGGTATTT-TA
1 TCATTTTACC-TATGAGGGTATTTCGA
*
21247189 GTCATTTTACCCATCGAGGGTATTTC-A
1 -TCATTTTACCTAT-GAGGGTATTTCGA
* *
21247216 GCCATTTTACCCATCGAGGGTATTTC-A
1 -TCATTTTACCTAT-GAGGGTATTTCGA
* *
21247243 GTCATTTTACCCATTAGGGGTATTTCGA
1 -TCATTTTACCTATGA-GGGTATTTCGA
* * * *
21247271 TAATTTTACCCATCGAGGGTATTTTGG
1 TCATTTTACCTAT-GAGGGTATTTCGA
* * *
21247298 TTATTTTACCCATCGAGGGTATTTCGG
1 TCATTTTACCTAT-GAGGGTATTTCGA
21247325 TCATTTTAC
1 TCATTTTAC
21247334 AAATATTGGG
Statistics
Matches: 215, Mismatches: 25, Indels: 24
0.81 0.09 0.09
Matches are distributed among these distances:
26 8 0.04
27 199 0.93
28 7 0.03
29 1 0.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (26 bp):
TCATTTTACCTATGAGGGTATTTCGA
Found at i:21247222 original size:81 final size:81
Alignment explanation
Indices: 21247056--21247294 Score: 222
Period size: 81 Copynumber: 3.0 Consensus size: 81
21247046 GCATTACGTT
* * * * ***
21247056 CATTTTACCTTATAGGGGTATTTCGGTCATTTAACCCTATGAGGGTATTACGGTCATTTTACCC-
1 CATTTTACCTTACAGGGGTATTTCGATCATTTTACCTTATGAGGGTATTTTAGTCATTTTACCCA
* * * * *
21247120 TACAAGGGCATTACGGT
66 T-CGAGGGTATTTCAGC
*
21247137 CATTTTACCTTACAGGGGAATTTCGATCATTTTACCTTATGAGGGTATTTTAGTCATTTTACCCA
1 CATTTTACCTTACAGGGGTATTTCGATCATTTTACCTTATGAGGGTATTTTAGTCATTTTACCCA
21247202 TCGAGGGTATTTCAGC
66 TCGAGGGTATTTCAGC
* * *
21247218 CATTTTACC-CATC-GAGGGTATTTC-AGTCATTTTACCCATTA-G-GGGTA-TTTCGATAATTT
1 CATTTTACCTTA-CAG-GGGTATTTCGA-TCATTTTA-CC-TTATGAGGGTATTTTAG-TCATTT
21247277 TACCCATCGAGGGTATTT
60 TACCCATCGAGGGTATTT
21247295 TGGTTATTTT
Statistics
Matches: 134, Mismatches: 17, Indels: 14
0.81 0.10 0.08
Matches are distributed among these distances:
80 7 0.05
81 120 0.90
82 4 0.03
83 3 0.02
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (81 bp):
CATTTTACCTTACAGGGGTATTTCGATCATTTTACCTTATGAGGGTATTTTAGTCATTTTACCCA
TCGAGGGTATTTCAGC
Found at i:21247678 original size:27 final size:27
Alignment explanation
Indices: 21247442--21247667 Score: 303
Period size: 27 Copynumber: 8.4 Consensus size: 27
21247432 CCCCAAAATA
*
21247442 GGTAAAATGATCGAAATACCC-CATAG
1 GGTAAAATGACCGAAATACCCTCATAG
*
21247468 GGTAAAATGACCAAAATACCCTCATAG
1 GGTAAAATGACCGAAATACCCTCATAG
* *
21247495 GGTAAAATGACCGAAATACTCTCATAA
1 GGTAAAATGACCGAAATACCCTCATAG
*
21247522 GGTAAAATGACCGAAATACCCTTATAG
1 GGTAAAATGACCGAAATACCCTCATAG
* *
21247549 GGTAAAATGATCGAAATA-CCTCCACAG
1 GGTAAAATGACCGAAATACCCT-CATAG
** *
21247576 GGTAAAATGACTAAAATACCTTCATAG
1 GGTAAAATGACCGAAATACCCTCATAG
** *
21247603 GGTAAAATGATAGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCTCATAG
*
21247630 GGTAGAATGACCGAAATACCCTCATAG
1 GGTAAAATGACCGAAATACCCTCATAG
21247657 GGTAAAATGAC
1 GGTAAAATGAC
21247668 TATTATACCC
Statistics
Matches: 171, Mismatches: 26, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
26 22 0.13
27 147 0.86
28 2 0.01
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGAAATACCCTCATAG
Found at i:21247692 original size:81 final size:79
Alignment explanation
Indices: 21247443--21247693 Score: 267
Period size: 81 Copynumber: 3.1 Consensus size: 79
21247433 CCCAAAATAG
*
21247443 GTAAAATGATCGAAATA-CCCCATAGGGTAAAATGACCAAAATACCCTCATAGGGTAAAATGACC
1 GTAAAATGATCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCTCATAGGGTAAAATGA-C
* * *
21247507 GAAATACTCTCATAAG-
65 TAAATAC-C-CTTAGGA
* ** * *
21247523 GTAAAATGACCGAAATACCCTTATAGGGTAAAATGATCGAAATA-CCTCCACAGGGTAAAATGAC
1 GTAAAATGATCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCT-CATAGGGTAAAATGAC
*
21247587 TAAAATACCTTCATAGG-
65 T-AAATACC--CTTAGGA
* *
21247604 GTAAAATGATAGAAATACCCCCATAGGGTAGAATGACCGAAATACCCTCATAGGGTAAAATGACT
1 GTAAAATGATCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCTCATAGGGTAAAATGACT
*
21247669 ATTATACCCTTAGGA
66 A-AATACCCTTAGGA
*
21247684 GATGAAATGA
1 G-TAAAATGA
21247694 CTGTTATGGC
Statistics
Matches: 145, Mismatches: 18, Indels: 15
0.81 0.10 0.08
Matches are distributed among these distances:
79 5 0.03
80 23 0.16
81 114 0.79
82 3 0.02
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.22
Consensus pattern (79 bp):
GTAAAATGATCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCTCATAGGGTAAAATGACT
AAATACCCTTAGGA
Found at i:21251434 original size:34 final size:34
Alignment explanation
Indices: 21251391--21251459 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
21251381 ATAATTAAGT
21251391 AAAATTAAACTAAAAGAAAAACAAATAGGTTGTC
1 AAAATTAAACTAAAAGAAAAACAAATAGGTTGTC
21251425 AAAATTAAACTAAAAGAAAAACAAATAGGTTGTC
1 AAAATTAAACTAAAAGAAAAACAAATAGGTTGTC
21251459 A
1 A
21251460 TCTTCTATAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.59, C:0.09, G:0.12, T:0.20
Consensus pattern (34 bp):
AAAATTAAACTAAAAGAAAAACAAATAGGTTGTC
Found at i:21254461 original size:23 final size:23
Alignment explanation
Indices: 21254434--21254484 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
21254424 TTTCTAAGAT
21254434 TAGTGACTCCCAAATCAATGACC
1 TAGTGACTCCCAAATCAATGACC
*
21254457 TAGTGACTCCCGAATCAATGACC
1 TAGTGACTCCCAAATCAATGACC
21254480 TAGTG
1 TAGTG
21254485 GTCTATTGAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (23 bp):
TAGTGACTCCCAAATCAATGACC
Found at i:21263858 original size:21 final size:21
Alignment explanation
Indices: 21263830--21263883 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
21263820 TCTTTAGGGG
21263830 TATGTCGCGACACCCTCAGTC
1 TATGTCGCGACACCCTCAGTC
*
21263851 TGTGTCGCGACACCCTCAGTC
1 TATGTCGCGACACCCTCAGTC
21263872 TATGTCGCGACA
1 TATGTCGCGACA
21263884 TCAGTTTAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.19, C:0.35, G:0.22, T:0.24
Consensus pattern (21 bp):
TATGTCGCGACACCCTCAGTC
Found at i:21275194 original size:12 final size:13
Alignment explanation
Indices: 21275165--21275197 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
21275155 ATAATGTAAC
21275165 AAAT-ATAATTAT
1 AAATAATAATTAT
21275177 AAATAATAA-TAT
1 AAATAATAATTAT
21275189 AAATAATAA
1 AAATAATAA
21275198 ATGAAGCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 16 0.80
13 4 0.20
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
AAATAATAATTAT
Found at i:21275697 original size:9 final size:9
Alignment explanation
Indices: 21275655--21275697 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
21275645 TCTTTCTAAA
21275655 CTCTCAATT
1 CTCTCAATT
*
21275664 CTCTCAACT
1 CTCTCAATT
*
21275673 CTCTCAACT
1 CTCTCAATT
*
21275682 CTATCAATT
1 CTCTCAATT
*
21275691 TTCTCAA
1 CTCTCAA
21275698 GTTTTGTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.26, C:0.35, G:0.00, T:0.40
Consensus pattern (9 bp):
CTCTCAATT
Found at i:21283282 original size:43 final size:42
Alignment explanation
Indices: 21283215--21283506 Score: 245
Period size: 43 Copynumber: 6.9 Consensus size: 42
21283205 ATGAACCTAC
* ** *
21283215 GCAATTATACTGGCATGCA-AGTGCATCGTCGAATAACCTAAA
1 GCAAATATACTGGCACACACAGTGCATCATCGAATAA-CTAAA
* * * *
21283257 GAAAATATACTAGCACACACAGTGCATCATCAGATATATCGAAA
1 GCAAATATACTGGCACACACAGTGCATCATC-GA-ATAACTAAA
* * * * * **
21283301 -CAAATATATTGGCAAACATAGTGCATTATCGGATATACCGAA
1 GCAAATATACTGGCACACACAGTGCATCATCGAATA-ACTAAA
*
21283343 GCAAATATACTGGCACACACAGTGCATCATC-AGATATACTGAA
1 GCAAATATACTGGCACACACAGTGCATCATCGA-ATA-ACTAAA
* *
21283386 GCAAATATACTGGCACACACAGTGCATCATCAAATAAATCAAA
1 GCAAATATACTGGCACACACAGTGCATCATCGAATAACT-AAA
* * * *
21283429 GCAAATATCCT-GC-CACACAGTGCATCATCGGATAAAATGAA
1 GCAAATATACTGGCACACACAGTGCATCATCGAAT-AACTAAA
* *
21283470 -CAAAATATACTGGCACACACAATGCATCATCGGATAA
1 GC-AAATATACTGGCACACACAGTGCATCATCGAATAA
21283507 ACTGAAGTAT
Statistics
Matches: 206, Mismatches: 32, Indels: 24
0.79 0.12 0.09
Matches are distributed among these distances:
40 1 0.00
41 31 0.15
42 30 0.15
43 134 0.65
44 7 0.03
45 3 0.01
ACGTcount: A:0.41, C:0.22, G:0.15, T:0.21
Consensus pattern (42 bp):
GCAAATATACTGGCACACACAGTGCATCATCGAATAACTAAA
Found at i:21283349 original size:86 final size:85
Alignment explanation
Indices: 21283220--21283508 Score: 311
Period size: 86 Copynumber: 3.4 Consensus size: 85
21283210 CCTACGCAAT
** * * *
21283220 TATACTGGCATGCA-AGTGCATCGTCGAAT-AACCTAAAGAAAATATACTAGCACACACAGTGCA
1 TATACTGGCACACACAGTGCATCATCGGATAAACC-AAAGCAAATATACT-GCACACACAGTGCA
21283283 TCATCAGATATATCGAAACAAA
64 TCATCAGATATATCGAAACAAA
* * * * * *
21283305 TATATTGGCAAACATAGTGCATTATCGGATATACCGAAGCAAATATACTGGCACACACAGTGCAT
1 TATACTGGCACACACAGTGCATCATCGGATAAACCAAAGCAAATATACT-GCACACACAGTGCAT
*
21283370 CATCAGATATA-CTGAAGCAAA
65 CATCAGATATATC-GAAACAAA
** * *
21283391 TATACTGGCACACACAGTGCATCATCAAATAAATCAAAGCAAATATCCTGC-CACACAGTGCATC
1 TATACTGGCACACACAGTGCATCATCGGATAAACCAAAGCAAATATACTGCACACACAGTGCATC
* *
21283455 ATCGGATAAAAT-G-AACAAAA
66 ATCAGAT-ATATCGAAAC-AAA
*
21283475 TATACTGGCACACACAATGCATCATCGGATAAAC
1 TATACTGGCACACACAGTGCATCATCGGATAAAC
21283509 TGAAGTATAA
Statistics
Matches: 170, Mismatches: 28, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
83 2 0.01
84 53 0.31
85 16 0.09
86 96 0.56
87 3 0.02
ACGTcount: A:0.42, C:0.22, G:0.15, T:0.21
Consensus pattern (85 bp):
TATACTGGCACACACAGTGCATCATCGGATAAACCAAAGCAAATATACTGCACACACAGTGCATC
ATCAGATATATCGAAACAAA
Found at i:21288046 original size:20 final size:20
Alignment explanation
Indices: 21287998--21288046 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
21287988 GATTTTTATA
21287998 AACTTCCC-CCCAATCCCCT
1 AACTTCCCTCCCAATCCCCT
*
21288017 AACTT-TCTCCCATAT-CCCT
1 AACTTCCCTCCCA-ATCCCCT
21288036 AACTTCCCTCC
1 AACTTCCCTCC
21288047 TAAAAAATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
18 1 0.04
19 18 0.72
20 6 0.24
ACGTcount: A:0.20, C:0.51, G:0.00, T:0.29
Consensus pattern (20 bp):
AACTTCCCTCCCAATCCCCT
Found at i:21304320 original size:20 final size:20
Alignment explanation
Indices: 21304295--21304333 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
21304285 TGAGTTATTT
21304295 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
21304315 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
21304334 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:21311504 original size:50 final size:49
Alignment explanation
Indices: 21311445--21311581 Score: 197
Period size: 50 Copynumber: 2.7 Consensus size: 49
21311435 ACTGAGGTTG
*
21311445 TGAGAGGTCCCATGTAAGACCATG-CTTGGGACATGGCGTTGGTAT-CGAGA
1 TGAGAGGTCCC-TGTAAGACCATGTC-TGGGACATGGCGTTGGT-TCCAAGA
21311495 TGAGAGGTCCCTCGTAAGACCATGTCTGGGACATGGCGTTGGTTCCAAGA
1 TGAGAGGTCCCT-GTAAGACCATGTCTGGGACATGGCGTTGGTTCCAAGA
*
21311545 TGAGAGGTCCCTTGTAAGACCATGTCTAGGACATGGC
1 TGAGAGGTCCC-TGTAAGACCATGTCTGGGACATGGC
21311582 ATGGGCACCG
Statistics
Matches: 81, Mismatches: 2, Indels: 8
0.89 0.02 0.09
Matches are distributed among these distances:
49 2 0.02
50 77 0.95
51 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.24
Consensus pattern (49 bp):
TGAGAGGTCCCTGTAAGACCATGTCTGGGACATGGCGTTGGTTCCAAGA
Found at i:21313889 original size:17 final size:19
Alignment explanation
Indices: 21313853--21313889 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
21313843 AAACTGAGTC
*
21313853 TGAGATTTATTAGGTCATA
1 TGAGATTTATTAGATCATA
21313872 TGAGA-TTATT-GATCATA
1 TGAGATTTATTAGATCATA
21313889 T
1 T
21313890 CGGGCCGGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 7 0.41
18 5 0.29
19 5 0.29
ACGTcount: A:0.32, C:0.05, G:0.19, T:0.43
Consensus pattern (19 bp):
TGAGATTTATTAGATCATA
Found at i:21324533 original size:5 final size:5
Alignment explanation
Indices: 21324523--21324555 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
21324513 GTATTAGAGC
21324523 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTT
21324556 ATTGCATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTCT
Found at i:21332655 original size:26 final size:27
Alignment explanation
Indices: 21332626--21332678 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
21332616 ATAATCGTAA
* *
21332626 TGCCCTTATAGGGTAAATGACT-ATTT
1 TGCCCCTAGAGGGTAAATGACTGATTT
*
21332652 TGCCCCTCGAGGGTAAATGACTGATTT
1 TGCCCCTAGAGGGTAAATGACTGATTT
21332679 GTGCTATAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.34
Consensus pattern (27 bp):
TGCCCCTAGAGGGTAAATGACTGATTT
Found at i:21332868 original size:22 final size:21
Alignment explanation
Indices: 21332806--21332872 Score: 64
Period size: 22 Copynumber: 3.1 Consensus size: 21
21332796 GGAGAAAGTG
* *
21332806 TATGGCTTGTAGCCGTTCTGT
1 TATGGCTTTTAGTCGTTCTGT
* *
21332827 TCAAGGCTTATT-GTCTTTCTGCT
1 T-ATGGCTT-TTAGTCGTTCTG-T
21332850 TATGGCTTTTAGTCGTTCTGT
1 TATGGCTTTTAGTCGTTCTGT
21332871 TA
1 TA
21332873 ACTGGCAGCG
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
21 6 0.17
22 27 0.75
23 3 0.08
ACGTcount: A:0.12, C:0.18, G:0.22, T:0.48
Consensus pattern (21 bp):
TATGGCTTTTAGTCGTTCTGT
Found at i:21336681 original size:124 final size:118
Alignment explanation
Indices: 21336403--21336702 Score: 354
Period size: 117 Copynumber: 2.5 Consensus size: 118
21336393 TGAATATTAA
* * * *
21336403 TTTTTTGTTTTTTATTTACTTAATAAATGGTCCCATTGT-CTTATTTTTTTGAGATTTTGGTATT
1 TTTTTTGTTTTTTATTTACTTAATAAATGGTCTCATTGTGTTTATTTTTTTGAGAGTTTGATATT
21336467 GTAGAAAGGATGTTAGGAAGAAAGGAAGCAAGTATCTTTTCTTTTAATATTGT
66 GTAGAAAGGATGTTAGGAAGAAAGGAAGCAAGTATCTTTTCTTTTAATATTGT
* * *
21336520 TTTTTTGTTTTTTATTTACTTAACAAATAGTCTCATTGTGTTTATTTTTTTGAGAGTTT-ATTTT
1 TTTTTTGTTTTTTATTTACTTAATAAATGGTCTCATTGTGTTTATTTTTTTGAGAGTTTGATATT
* * * * * *
21336584 GTGGGAAGGGTGTTTGGAAGAAAGGAAGCAAGTATGTTTGTGTTTTTTTTAACATTATT-T
66 GTAGAAAGGATGTTAGGAAGAAAGGAAGCAAGTA----TCT-TTTCTTTT-A-A-TATTGT
* * * *
21336644 TTTTTTGTTTTTTATGTACTTAATAGATGGTCTCATTGTGTTGAATTTTTTGAGAGTTT
1 TTTTTTGTTTTTTATTTACTTAATAAATGGTCTCATTGTGTTTATTTTTTTGAGAGTTT
21336703 TAATTTTTAT
Statistics
Matches: 155, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
117 69 0.45
118 17 0.11
121 2 0.01
122 7 0.05
123 1 0.01
124 55 0.35
125 4 0.03
ACGTcount: A:0.24, C:0.06, G:0.19, T:0.52
Consensus pattern (118 bp):
TTTTTTGTTTTTTATTTACTTAATAAATGGTCTCATTGTGTTTATTTTTTTGAGAGTTTGATATT
GTAGAAAGGATGTTAGGAAGAAAGGAAGCAAGTATCTTTTCTTTTAATATTGT
Found at i:21339158 original size:45 final size:45
Alignment explanation
Indices: 21339091--21339177 Score: 140
Period size: 45 Copynumber: 1.9 Consensus size: 45
21339081 GTAATAACAT
*
21339091 TTACATTGCAAGAAAGACAACTTACTTC-GATAGATAATCTAACTA
1 TTACATTGCAAGAAAGAAAACTTACTTCAG-TAGATAATCTAACTA
*
21339136 TTACATTGCGAGAAAGAAAACTTACTTCAGTAGATAATCTAA
1 TTACATTGCAAGAAAGAAAACTTACTTCAGTAGATAATCTAA
21339178 ATAAGTTCGT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
45 38 0.97
46 1 0.03
ACGTcount: A:0.43, C:0.16, G:0.13, T:0.29
Consensus pattern (45 bp):
TTACATTGCAAGAAAGAAAACTTACTTCAGTAGATAATCTAACTA
Found at i:21342735 original size:7 final size:7
Alignment explanation
Indices: 21342725--21342755 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
21342715 ATTTCCCCTC
21342725 CCCATTT
1 CCCATTT
21342732 CCCATTT
1 CCCATTT
21342739 CCCATTT
1 CCCATTT
21342746 CCCATTT
1 CCCATTT
21342753 CCC
1 CCC
21342756 TAAGCCCGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.13, C:0.48, G:0.00, T:0.39
Consensus pattern (7 bp):
CCCATTT
Found at i:21342737 original size:20 final size:21
Alignment explanation
Indices: 21342708--21342755 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
21342698 CAAAAAATAA
*
21342708 ATTTCTCATTTCCC-CTCCCC
1 ATTTCCCATTTCCCACTCCCC
* *
21342728 ATTTCCCATTTCCCATTTCCC
1 ATTTCCCATTTCCCACTCCCC
21342749 ATTTCCC
1 ATTTCCC
21342756 TAAGCCCGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.12, C:0.46, G:0.00, T:0.42
Consensus pattern (21 bp):
ATTTCCCATTTCCCACTCCCC
Found at i:21344868 original size:3 final size:3
Alignment explanation
Indices: 21344860--21344885 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
21344850 TTGGCTTTCT
21344860 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
21344886 TTTTTAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:21347767 original size:9 final size:9
Alignment explanation
Indices: 21347753--21347788 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
21347743 GGTTGCAAAA
21347753 AGGACGATG
1 AGGACGATG
*
21347762 AGGACGACG
1 AGGACGATG
21347771 AGGACGATG
1 AGGACGATG
*
21347780 AGGATGATG
1 AGGACGATG
21347789 TTTCTTCGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.33, C:0.11, G:0.44, T:0.11
Consensus pattern (9 bp):
AGGACGATG
Found at i:21348399 original size:21 final size:22
Alignment explanation
Indices: 21348382--21348422 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
21348372 ATTATTTATT
21348382 ATTTTTAT-TTTAAAATTTTTA
1 ATTTTTATATTTAAAATTTTTA
*
21348403 ATTTTTATATTTCAAATTTT
1 ATTTTTATATTTAAAATTTT
21348423 AAAATTCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (22 bp):
ATTTTTATATTTAAAATTTTTA
Found at i:21348406 original size:15 final size:15
Alignment explanation
Indices: 21348382--21348428 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
21348372 ATTATTTATT
21348382 ATTTTT-ATTTTAAA
1 ATTTTTAATTTTAAA
* *
21348396 ATTTTTAATTTTTAT
1 ATTTTTAATTTTAAA
**
21348411 ATTTCAAATTTTAAA
1 ATTTTTAATTTTAAA
21348426 ATT
1 ATT
21348429 CAATTTTAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
14 6 0.23
15 20 0.77
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (15 bp):
ATTTTTAATTTTAAA
Found at i:21356246 original size:15 final size:15
Alignment explanation
Indices: 21356226--21356255 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21356216 AATTTAAAGG
*
21356226 ATAAAATTAAAAGAA
1 ATAAAATAAAAAGAA
21356241 ATAAAATAAAAAGAA
1 ATAAAATAAAAAGAA
21356256 TTGAAAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.17
Consensus pattern (15 bp):
ATAAAATAAAAAGAA
Found at i:21359046 original size:30 final size:29
Alignment explanation
Indices: 21358990--21359068 Score: 70
Period size: 30 Copynumber: 2.7 Consensus size: 29
21358980 TTTATGATTG
*
21358990 AAATTTTTAAATGTGAAAATTTTAAGTATT
1 AAATTTTT-ATTGTGAAAATTTTAAGTATT
* * *
21359020 AAATTTTTATTGTTAAATTTTATAAGTGTT
1 AAATTTTTATTGTGAAAATTT-TAAGTATT
* * *
21359050 GAATTTGTATT-AGAAAATT
1 AAATTTTTATTGTGAAAATT
21359069 ATTTGAAAAA
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
29 15 0.38
30 24 0.62
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.49
Consensus pattern (29 bp):
AAATTTTTATTGTGAAAATTTTAAGTATT
Found at i:21359288 original size:27 final size:27
Alignment explanation
Indices: 21359240--21359296 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
21359230 GAATTTCTTA
* *
21359240 TTTAAAAAATAATAATTTATTTTAAT-T
1 TTTAAAAAATAATAA-TCAATTTAATAT
21359267 TTTAATAAAATAA-AATCAATTTAATAT
1 TTTAA-AAAATAATAATCAATTTAATAT
21359294 TTT
1 TTT
21359297 CTACCTCAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
26 8 0.31
27 11 0.42
28 7 0.27
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (27 bp):
TTTAAAAAATAATAATCAATTTAATAT
Found at i:21370064 original size:10 final size:10
Alignment explanation
Indices: 21370049--21370075 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
21370039 TTCTTTGAAC
21370049 TTTCTTTTTT
1 TTTCTTTTTT
21370059 TTTCTTTTTT
1 TTTCTTTTTT
21370069 TTTCTTT
1 TTTCTTT
21370076 CTCTTCTCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (10 bp):
TTTCTTTTTT
Found at i:21372213 original size:6 final size:6
Alignment explanation
Indices: 21372204--21372251 Score: 51
Period size: 6 Copynumber: 7.7 Consensus size: 6
21372194 AAATTTAAAT
** *
21372204 TTAATA TTAATA TTAATA TTAAATAA AAAATA TTTATA TTAATA TTAA
1 TTAATA TTAATA TTAATA TT-AAT-A TTAATA TTAATA TTAATA TTAA
21372252 ATAAAATAAG
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
6 27 0.79
7 6 0.18
8 1 0.03
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
TTAATA
Found at i:21372213 original size:12 final size:13
Alignment explanation
Indices: 21372198--21372254 Score: 57
Period size: 12 Copynumber: 4.5 Consensus size: 13
21372188 AATAATAAAT
21372198 TTAAAT-TTAATA
1 TTAAATATTAATA
21372210 TT-AATATTAATA
1 TTAAATATTAATA
**
21372222 TTAAATAAAAAATA
1 TTAAAT-ATTAATA
*
21372236 TT-TATATTAATA
1 TTAAATATTAATA
21372248 TTAAATA
1 TTAAATA
21372255 AAATAAGCCC
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
11 3 0.09
12 17 0.49
13 8 0.23
14 7 0.20
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TTAAATATTAATA
Found at i:21372242 original size:26 final size:26
Alignment explanation
Indices: 21372206--21372257 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
21372196 ATTTAAATTT
21372206 AATATTAATATTAATATTAAATAAAA
1 AATATTAATATTAATATTAAATAAAA
*
21372232 AATATTTATATTAATATTAAATAAAA
1 AATATTAATATTAATATTAAATAAAA
21372258 TAAGCCCTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (26 bp):
AATATTAATATTAATATTAAATAAAA
Found at i:21372328 original size:6 final size:6
Alignment explanation
Indices: 21372290--21372326 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
21372280 TCCCCATCCT
*
21372290 CCCACC CCCACC CCCACC CCCACC CCCACC CTCACC C
1 CCCACC CCCACC CCCACC CCCACC CCCACC CCCACC C
21372327 TCGACCCTCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.16, C:0.81, G:0.00, T:0.03
Consensus pattern (6 bp):
CCCACC
Found at i:21381070 original size:22 final size:22
Alignment explanation
Indices: 21381042--21381098 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
21381032 TTTATTGTTC
21381042 AAACATGAGAGCTTAGTACGTG
1 AAACATGAGAGCTTAGTACGTG
*
21381064 AAACATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTG
**
21381086 AGCCATGAGAGCT
1 AAACATGAGAGCT
21381099 CTTACACCTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.23
Consensus pattern (22 bp):
AAACATGAGAGCTTAGTACGTG
Found at i:21386081 original size:41 final size:41
Alignment explanation
Indices: 21386024--21386108 Score: 152
Period size: 41 Copynumber: 2.1 Consensus size: 41
21386014 AGTTTGCTCA
*
21386024 CTATCTTCCAGTCAGGACTGATTATTTGCTTCAAAAATTGG
1 CTATCTTCCAGTCAGGACTGATTATTCGCTTCAAAAATTGG
*
21386065 CTATCTTCCAGTCAGGACTGATTATTCGCTTCAGAAATTGG
1 CTATCTTCCAGTCAGGACTGATTATTCGCTTCAAAAATTGG
21386106 CTA
1 CTA
21386109 AGTTGTATGT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (41 bp):
CTATCTTCCAGTCAGGACTGATTATTCGCTTCAAAAATTGG
Found at i:21388147 original size:50 final size:50
Alignment explanation
Indices: 21388093--21388189 Score: 144
Period size: 50 Copynumber: 1.9 Consensus size: 50
21388083 GTCCAGGCCA
*
21388093 TGTAACTCATTGTTTT-GGATTTAGGGTCACACG-GACATGTGTCCAGATTG
1 TGTAACTCATTGTTTTAGG-CTTAGGGTCACACGAG-CATGTGTCCAGATTG
*
21388143 TGTAACTCATTGTTTTAGGCTTAGGGTCACACGAGCGTGTGTCCAGA
1 TGTAACTCATTGTTTTAGGCTTAGGGTCACACGAGCATGTGTCCAGA
21388190 CCGTGTGAGT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
50 40 0.93
51 3 0.07
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.34
Consensus pattern (50 bp):
TGTAACTCATTGTTTTAGGCTTAGGGTCACACGAGCATGTGTCCAGATTG
Found at i:21388251 original size:49 final size:48
Alignment explanation
Indices: 21388187--21388291 Score: 165
Period size: 49 Copynumber: 2.2 Consensus size: 48
21388177 GCGTGTGTCC
* * *
21388187 AGACCGTGTGAGTGTTATTTTGGGTTTTGAGTCACACTGGCATGTGCCT
1 AGACTGTGCGAGTGTTATTTTGGGTTTTGAGTCACACAGGCATGTG-CT
21388236 AGACTGTGCGAGTGTTATTTTGGGTTTTGAGTCACACAGGCATGTGCT
1 AGACTGTGCGAGTGTTATTTTGGGTTTTGAGTCACACAGGCATGTGCT
*
21388284 TGACTGTG
1 AGACTGTG
21388292 TGCTAGGCCG
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
48 9 0.17
49 43 0.83
ACGTcount: A:0.17, C:0.15, G:0.31, T:0.36
Consensus pattern (48 bp):
AGACTGTGCGAGTGTTATTTTGGGTTTTGAGTCACACAGGCATGTGCT
Found at i:21390879 original size:10 final size:10
Alignment explanation
Indices: 21390850--21390922 Score: 56
Period size: 10 Copynumber: 7.0 Consensus size: 10
21390840 AGAAGCTCAT
21390850 AAGAGCTAAA
1 AAGAGCTAAA
* *
21390860 CAAAAGCTTAA
1 -AAGAGCTAAA
*
21390871 AAGAGCTTAA
1 AAGAGCTAAA
* *
21390881 CAGAAGCTCAA
1 AAG-AGCTAAA
21390892 AAGAGCTAAA
1 AAGAGCTAAA
* *
21390902 CAAAAGCTCAA
1 -AAGAGCTAAA
21390913 AAGAGCTAAA
1 AAGAGCTAAA
21390923 CAGAAGCTCG
Statistics
Matches: 49, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
10 25 0.51
11 24 0.49
ACGTcount: A:0.55, C:0.16, G:0.16, T:0.12
Consensus pattern (10 bp):
AAGAGCTAAA
Found at i:21390959 original size:21 final size:21
Alignment explanation
Indices: 21390837--21390952 Score: 151
Period size: 21 Copynumber: 5.5 Consensus size: 21
21390827 CAAGCAAGCC
*
21390837 AACAGAAGCTCATAAGAGCTA
1 AACAGAAGCTCAAAAGAGCTA
* * *
21390858 AACAAAAGCTTAAAAGAGCTT
1 AACAGAAGCTCAAAAGAGCTA
21390879 AACAGAAGCTCAAAAGAGCTA
1 AACAGAAGCTCAAAAGAGCTA
*
21390900 AACAAAAGCTCAAAAGAGCTA
1 AACAGAAGCTCAAAAGAGCTA
*** *
21390921 AACAGAAGCTCGTGAGAGCTG
1 AACAGAAGCTCAAAAGAGCTA
21390942 AACAGAAGCTC
1 AACAGAAGCTC
21390953 GTAAGAGTTG
Statistics
Matches: 82, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 82 1.00
ACGTcount: A:0.48, C:0.19, G:0.20, T:0.13
Consensus pattern (21 bp):
AACAGAAGCTCAAAAGAGCTA
Found at i:21390959 original size:42 final size:42
Alignment explanation
Indices: 21390837--21390952 Score: 169
Period size: 42 Copynumber: 2.8 Consensus size: 42
21390827 CAAGCAAGCC
* *
21390837 AACAGAAGCTCATAAGAGCTAAACAAAAGCTTAAAAGAGCTT
1 AACAGAAGCTCATAAGAGCTAAACAAAAGCTCAAAAGAGCTA
*
21390879 AACAGAAGCTCAAAAGAGCTAAACAAAAGCTCAAAAGAGCTA
1 AACAGAAGCTCATAAGAGCTAAACAAAAGCTCAAAAGAGCTA
* * * *
21390921 AACAGAAGCTCGTGAGAGCTGAACAGAAGCTC
1 AACAGAAGCTCATAAGAGCTAAACAAAAGCTC
21390953 GTAAGAGTTG
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 66 1.00
ACGTcount: A:0.48, C:0.19, G:0.20, T:0.13
Consensus pattern (42 bp):
AACAGAAGCTCATAAGAGCTAAACAAAAGCTCAAAAGAGCTA
Found at i:21391168 original size:17 final size:17
Alignment explanation
Indices: 21391148--21391184 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
21391138 ATTAAATTCG
*
21391148 ATAATATATTTCCAACA
1 ATAATATAATTCCAACA
*
21391165 ATAATTTAATTCCAACA
1 ATAATATAATTCCAACA
21391182 ATA
1 ATA
21391185 GAACAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (17 bp):
ATAATATAATTCCAACA
Found at i:21396965 original size:21 final size:21
Alignment explanation
Indices: 21396936--21397008 Score: 110
Period size: 21 Copynumber: 3.5 Consensus size: 21
21396926 CGAACACGCC
*
21396936 AACAGAAGCTCATAAGAGCTG
1 AACAGAAGCTCAAAAGAGCTG
* *
21396957 AACAAAAGCTCAAAAGAGCTT
1 AACAGAAGCTCAAAAGAGCTG
*
21396978 AACAGAAGCTCAAAAAAGCTG
1 AACAGAAGCTCAAAAGAGCTG
21396999 AACAGAAGCT
1 AACAGAAGCT
21397009 TGTAAGAGTT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.49, C:0.19, G:0.19, T:0.12
Consensus pattern (21 bp):
AACAGAAGCTCAAAAGAGCTG
Found at i:21402860 original size:23 final size:23
Alignment explanation
Indices: 21402834--21402932 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
21402824 AGTGTTATTG
21402834 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
21402857 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
21402880 TTCAGTGGTAGCTTCAGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
21402903 TTAAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
21402926 ATCAGTG
1 ATCAGTG
21402933 TGGCACTTAT
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 70 1.00
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:21403104 original size:38 final size:37
Alignment explanation
Indices: 21403062--21403134 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 37
21403052 ATGTGTGGAA
* *
21403062 TTGAATTGAATATTGACTTGAAAA-TGGAAAAGTGAATT
1 TTGAATTGAATAGTGA-TT-AAAAGTGAAAAAGTGAATT
21403100 TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAA
1 TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAA
21403135 ATTATGAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 4 0.12
37 13 0.41
38 15 0.47
ACGTcount: A:0.45, C:0.01, G:0.22, T:0.32
Consensus pattern (37 bp):
TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAATT
Found at i:21403795 original size:22 final size:22
Alignment explanation
Indices: 21403736--21403818 Score: 112
Period size: 22 Copynumber: 3.8 Consensus size: 22
21403726 TATAAGTGAA
* **
21403736 GAGAGCTTAGTACGTGAAACAT
1 GAGAGCTTAGTACGTTAGCCAT
21403758 GAGAGCTTAGTACGTTAGCCAT
1 GAGAGCTTAGTACGTTAGCCAT
21403780 GAGAGCTTAGTACGTTAGCCAT
1 GAGAGCTTAGTACGTTAGCCAT
* * *
21403802 GAGGGTTTAGTTCGTTA
1 GAGAGCTTAGTACGTTA
21403819 AATGAAAGAA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 55 1.00
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.29
Consensus pattern (22 bp):
GAGAGCTTAGTACGTTAGCCAT
Found at i:21404005 original size:2 final size:2
Alignment explanation
Indices: 21403962--21403987 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
21403952 TAGTCATGAC
21403962 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
21403988 GTGATAGTAA
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:21404156 original size:2 final size:2
Alignment explanation
Indices: 21404149--21404192 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
21404139 TGGTATTGAA
21404149 AT AT AT AT AT AT 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 AT AT AT AT AT AT
21404191 AT
1 AT
21404193 TGGATTGAGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21405871 original size:11 final size:11
Alignment explanation
Indices: 21405855--21405884 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
21405845 AATGTTTAAG
21405855 TATATATATTA
1 TATATATATTA
21405866 TATATATATTA
1 TATATATATTA
21405877 TAT-TATAT
1 TATATATAT
21405885 AATAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.26
11 14 0.74
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (11 bp):
TATATATATTA
Found at i:21416907 original size:31 final size:30
Alignment explanation
Indices: 21416842--21416908 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
21416832 CTCCTTATTT
* *
21416842 CCCCCAAAATTTTTACTCCTTCCCACTTTC
1 CCCCCAAAACTTTTACTCCTTCCCACTCTC
*
21416872 CCCCCAAAACTTTTACTCCTCTCCCATCTCAC
1 CCCCCAAAACTTTTACTCCT-TCCCA-CTCTC
21416904 CCCCC
1 CCCCC
21416909 TTCTACCCCA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
30 19 0.59
31 5 0.16
32 8 0.25
ACGTcount: A:0.19, C:0.51, G:0.00, T:0.30
Consensus pattern (30 bp):
CCCCCAAAACTTTTACTCCTTCCCACTCTC
Found at i:21417347 original size:18 final size:17
Alignment explanation
Indices: 21417326--21417360 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
21417316 TTTATTAAAA
21417326 AATATATTTTTTACATTT
1 AATATATTTTTTA-ATTT
21417344 AATATATTTTTTAATTT
1 AATATATTTTTTAATTT
21417361 CAAAATACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (17 bp):
AATATATTTTTTAATTT
Found at i:21417367 original size:20 final size:20
Alignment explanation
Indices: 21417324--21417367 Score: 58
Period size: 18 Copynumber: 2.3 Consensus size: 20
21417314 CTTTTATTAA
21417324 AAAATATATTTTTTACATTT
1 AAAATATATTTTTTACATTT
21417344 --AATATATTTTTTA-ATTT
1 AAAATATATTTTTTACATTT
21417361 CAAAATA
1 -AAAATA
21417368 CATAGTGACA
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
17 4 0.19
18 13 0.62
20 4 0.19
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (20 bp):
AAAATATATTTTTTACATTT
Found at i:21422922 original size:14 final size:15
Alignment explanation
Indices: 21422885--21422926 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
21422875 AAGCAATATC
21422885 CATTCAAAATCTAAAG
1 CATTCAAAATC-AAAG
21422901 -ATTCAAAATCAAAG
1 CATTCAAAATCAAAG
21422915 CATT-AAAA-CAAA
1 CATTCAAAATCAAA
21422927 AACACTTGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 4 0.16
14 8 0.32
15 13 0.52
ACGTcount: A:0.57, C:0.17, G:0.05, T:0.21
Consensus pattern (15 bp):
CATTCAAAATCAAAG
Found at i:21424169 original size:12 final size:13
Alignment explanation
Indices: 21424144--21424172 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
21424134 TTTTCAGCTC
21424144 CTTTTCAGAAGTA
1 CTTTTCAGAAGTA
21424157 CTTTTCA-AAGTA
1 CTTTTCAGAAGTA
21424169 CTTT
1 CTTT
21424173 GAAAAGCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.28, C:0.17, G:0.10, T:0.45
Consensus pattern (13 bp):
CTTTTCAGAAGTA
Found at i:21429389 original size:20 final size:19
Alignment explanation
Indices: 21429364--21429402 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
21429354 ATTGAAAATG
*
21429364 AAATAAATTATAAAAAATAT
1 AAATAAATT-GAAAAAATAT
*
21429384 AAATAACTTGAAAAAATAT
1 AAATAAATTGAAAAAATAT
21429403 GTGAAAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (19 bp):
AAATAAATTGAAAAAATAT
Found at i:21432646 original size:51 final size:51
Alignment explanation
Indices: 21432588--21432695 Score: 155
Period size: 51 Copynumber: 2.1 Consensus size: 51
21432578 CCAAACATTT
* * *
21432588 GTTCATATAAAATAAT-AGTTCTTACCAAATGACAGTTCATGCAAAATAATA
1 GTTCATATAAAAT-ATCAGTTCATACCAAATAACAATTCATGCAAAATAATA
* *
21432639 GTTCATATGAAATATCAGTTCATACCGAATAACAATTCATGCAAAATAATA
1 GTTCATATAAAATATCAGTTCATACCAAATAACAATTCATGCAAAATAATA
21432690 GTTCAT
1 GTTCAT
21432696 GCTCCATCAT
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
50 2 0.04
51 49 0.96
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (51 bp):
GTTCATATAAAATATCAGTTCATACCAAATAACAATTCATGCAAAATAATA
Found at i:21432697 original size:17 final size:17
Alignment explanation
Indices: 21432588--21432695 Score: 83
Period size: 17 Copynumber: 6.4 Consensus size: 17
21432578 CCAAACATTT
*
21432588 GTTCATATAAAATAATA
1 GTTCATACAAAATAATA
* * * *
21432605 GTTCTTACCAAATGACA
1 GTTCATACAAAATAATA
*
21432622 GTTCATGCAAAATAATA
1 GTTCATACAAAATAATA
**
21432639 GTTCATATGAAAT-ATCA
1 GTTCATACAAAATAAT-A
** *
21432656 GTTCATACCGAATAACA
1 GTTCATACAAAATAATA
* *
21432673 ATTCATGCAAAATAATA
1 GTTCATACAAAATAATA
21432690 GTTCAT
1 GTTCAT
21432696 GCTCCATCAT
Statistics
Matches: 66, Mismatches: 23, Indels: 4
0.71 0.25 0.04
Matches are distributed among these distances:
16 2 0.03
17 63 0.95
18 1 0.02
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (17 bp):
GTTCATACAAAATAATA
Found at i:21433380 original size:36 final size:36
Alignment explanation
Indices: 21433339--21433413 Score: 107
Period size: 36 Copynumber: 2.1 Consensus size: 36
21433329 CACAGTTTGA
*
21433339 CAAATTAATACAGTTCGTCAT-ATGAATACAAATCAC
1 CAAATTAATACAGTTCGCCATAAT-AATACAAATCAC
* *
21433375 CAAATTAATACAGTTCGCCATAATAATATAATTCAC
1 CAAATTAATACAGTTCGCCATAATAATACAAATCAC
21433411 CAA
1 CAA
21433414 GCTAACATGG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
36 33 0.94
37 2 0.06
ACGTcount: A:0.45, C:0.20, G:0.07, T:0.28
Consensus pattern (36 bp):
CAAATTAATACAGTTCGCCATAATAATACAAATCAC
Found at i:21433401 original size:18 final size:18
Alignment explanation
Indices: 21433344--21433402 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
21433334 TTTGACAAAT
*
21433344 TAATACAGTTCGTCAT-A
1 TAATACAGTTCGCCATAA
** *
21433361 TGAATACAAATCACCA-AA
1 T-AATACAGTTCGCCATAA
21433379 TTAATACAGTTCGCCATAA
1 -TAATACAGTTCGCCATAA
21433398 TAATA
1 TAATA
21433403 TAATTCACCA
Statistics
Matches: 31, Mismatches: 7, Indels: 7
0.69 0.16 0.16
Matches are distributed among these distances:
17 1 0.03
18 27 0.87
19 3 0.10
ACGTcount: A:0.44, C:0.19, G:0.08, T:0.29
Consensus pattern (18 bp):
TAATACAGTTCGCCATAA
Found at i:21435314 original size:32 final size:31
Alignment explanation
Indices: 21435249--21435315 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 31
21435239 ACCTAAAATT
* * *
21435249 ATTAATTCTAATTATTTTAATATTTTATTTA
1 ATTAATTCTAATTATTTTAATATCTAATCTA
21435280 ATTAATTTCTAATTA-TTTAATTATCTAATCTA
1 ATTAA-TTCTAATTATTTTAA-TATCTAATCTA
21435312 ATTA
1 ATTA
21435316 CGATTTTCGG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 10 0.32
32 21 0.68
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (31 bp):
ATTAATTCTAATTATTTTAATATCTAATCTA
Found at i:21436401 original size:24 final size:24
Alignment explanation
Indices: 21436374--21436421 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
21436364 TTCTTCCCTA
*
21436374 CTATTTT-TCTTTTCTTTTTTACTT
1 CTATTTTAT-TTTTCCTTTTTACTT
21436398 CTATTTTATTTTTCCTTTTTACTT
1 CTATTTTATTTTTCCTTTTTACTT
21436422 ACCTCGTGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 21 0.95
25 1 0.05
ACGTcount: A:0.10, C:0.17, G:0.00, T:0.73
Consensus pattern (24 bp):
CTATTTTATTTTTCCTTTTTACTT
Found at i:21440442 original size:19 final size:18
Alignment explanation
Indices: 21440418--21440454 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
21440408 TAATTGAATT
*
21440418 AAAATAAATTTAAATTTTA
1 AAAATAAAATT-AATTTTA
21440437 AAAATAAAATTAATTTTA
1 AAAATAAAATTAATTTTA
21440455 TAATTCGAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
AAAATAAAATTAATTTTA
Found at i:21446163 original size:43 final size:42
Alignment explanation
Indices: 21446113--21446235 Score: 142
Period size: 43 Copynumber: 2.9 Consensus size: 42
21446103 CAAAAAGCTC
21446113 ATACGATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAA
1 ATACGATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAA
* * *
21446155 ATAACGATGCC-ACTGTCCCAGACAG-GGTTTTACATGAAATCAT
1 AT-ACGATGCCAAC-GTCCCAGAC-GTGGTCTTACATGTAATCAA
* * * *
21446198 ATATGATGCCAATGTCCCAGACATGGTCTTACACGTAA
1 ATACGATGCCAACGTCCCAGACGTGGTCTTACATGTAA
21446236 ATCACATATC
Statistics
Matches: 67, Mismatches: 9, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
42 31 0.46
43 35 0.52
44 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (42 bp):
ATACGATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAA
Found at i:21463436 original size:21 final size:21
Alignment explanation
Indices: 21463410--21463459 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
21463400 GGAAAAAATA
21463410 AAAAAAATGAATTATAGGGAC
1 AAAAAAATGAATTATAGGGAC
* *
21463431 AAAAAATTGATTTATAGGGAC
1 AAAAAAATGAATTATAGGGAC
*
21463452 AAACAAAT
1 AAAAAAAT
21463460 CAAATTACAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.56, C:0.06, G:0.16, T:0.22
Consensus pattern (21 bp):
AAAAAAATGAATTATAGGGAC
Found at i:21463583 original size:22 final size:23
Alignment explanation
Indices: 21463558--21463620 Score: 76
Period size: 22 Copynumber: 2.7 Consensus size: 23
21463548 TACATGAACT
21463558 AAAAATTTGAATTATAGAGACAA
1 AAAAATTTGAATTATAGAGACAA
* *
21463581 AAAAA--TCAATTTACAGAGACAA
1 AAAAATTTGAA-TTATAGAGACAA
21463603 AAAAATTTTGAATTATAG
1 AAAAA-TTTGAATTATAG
21463621 GAAGAAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
21 3 0.09
22 16 0.50
23 5 0.16
24 5 0.16
25 3 0.09
ACGTcount: A:0.56, C:0.06, G:0.11, T:0.27
Consensus pattern (23 bp):
AAAAATTTGAATTATAGAGACAA
Found at i:21463619 original size:46 final size:45
Alignment explanation
Indices: 21463558--21463687 Score: 145
Period size: 47 Copynumber: 2.8 Consensus size: 45
21463548 TACATGAACT
*
21463558 AAAAATTTGAATTATAGAGACAAAAAAATCAATTTACAGAGACAA
1 AAAAATTTGAATTATAGAGACAAAAAAATCAAATTACAGAGACAA
* ** *
21463603 AAAAATTTTGAATTATAGGAAGA-AAAAAAAACAAACAACAGGGACAA
1 AAAAA-TTTGAATTATA-G-AGACAAAAAAATCAAATTACAGAGACAA
* * * *
21463650 ACAAATTAGAATTATAGGGACAAAAAATTCAAATTACA
1 AAAAATTTGAATTATAGAGACAAAAAAATCAAATTACA
21463688 AGGATAAAAA
Statistics
Matches: 69, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
44 2 0.03
45 19 0.28
46 21 0.30
47 24 0.35
48 3 0.04
ACGTcount: A:0.58, C:0.09, G:0.12, T:0.20
Consensus pattern (45 bp):
AAAAATTTGAATTATAGAGACAAAAAAATCAAATTACAGAGACAA
Found at i:21464968 original size:41 final size:41
Alignment explanation
Indices: 21464922--21465004 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
21464912 AAAAGTTAAA
21464922 AAAATTATGTCAGCAATATGTTAGTGGATTAACAAAATGGT
1 AAAATTATGTCAGCAATATGTTAGTGGATTAACAAAATGGT
21464963 AAAATTATGTCAGCAATATGTTAGTGGATTAACAAAATGGT
1 AAAATTATGTCAGCAATATGTTAGTGGATTAACAAAATGGT
21465004 A
1 A
21465005 GTGATAAATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.42, C:0.07, G:0.19, T:0.31
Consensus pattern (41 bp):
AAAATTATGTCAGCAATATGTTAGTGGATTAACAAAATGGT
Found at i:21468011 original size:11 final size:11
Alignment explanation
Indices: 21467997--21468021 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
21467987 AAAAATAAAT
21467997 AAAAATTGTAA
1 AAAAATTGTAA
21468008 AAAAATTGTAA
1 AAAAATTGTAA
21468019 AAA
1 AAA
21468022 TCATAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (11 bp):
AAAAATTGTAA
Found at i:21496571 original size:28 final size:27
Alignment explanation
Indices: 21496530--21496627 Score: 119
Period size: 28 Copynumber: 3.6 Consensus size: 27
21496520 ACTTTATAAA
21496530 ATTTTATAATTTTTTATATTTCTATAT
1 ATTTTATAATTTTTTATATTTCTATAT
*
21496557 ATTTTATAATTTTTTATGATGTTC-ATAA
1 ATTTTATAATTTTTTAT-AT-TTCTATAT
* *
21496585 ATTTTACAATTTTTTATATATTTTATGAT
1 ATTTTATAATTTTTTATAT-TTCTAT-AT
21496614 -TTTTATAATTTTTT
1 ATTTTATAATTTTTT
21496628 CCTCTAATTT
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
27 21 0.34
28 36 0.59
29 4 0.07
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (27 bp):
ATTTTATAATTTTTTATATTTCTATAT
Found at i:21496627 original size:19 final size:19
Alignment explanation
Indices: 21496522--21496626 Score: 78
Period size: 19 Copynumber: 5.7 Consensus size: 19
21496512 CACTTACGAC
* *
21496522 TTTATAAAATTTTATAATT
1 TTTATAATATTTTATGATT
21496541 TTT-T-ATATTTCTAT-ATAT
1 TTTATAATATTT-TATGAT-T
* *
21496559 TTTATAATTTTTTATGATG
1 TTTATAATATTTTATGATT
* **
21496578 TTCATAA-ATTTTACAATT
1 TTTATAATATTTTATGATT
21496596 TTT-TATATATTTTATGATT
1 TTTATA-ATATTTTATGATT
21496615 TTTATAAT-TTTT
1 TTTATAATATTTT
21496627 TCCTCTAATT
Statistics
Matches: 67, Mismatches: 11, Indels: 17
0.71 0.12 0.18
Matches are distributed among these distances:
17 9 0.13
18 22 0.33
19 27 0.40
20 9 0.13
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (19 bp):
TTTATAATATTTTATGATT
Found at i:21496687 original size:9 final size:9
Alignment explanation
Indices: 21496531--21496711 Score: 70
Period size: 9 Copynumber: 19.4 Consensus size: 9
21496521 CTTTATAAAA
21496531 TTTTATAAT
1 TTTTATAAT
21496540 TTTT-TATAT
1 TTTTATA-AT
*
21496549 TTCTAT-AT
1 TTTTATAAT
21496557 ATTTTATAATT
1 -TTTTATAA-T
*
21496568 TTTTATGAT
1 TTTTATAAT
* * *
21496577 GTTCATAAA
1 TTTTATAAT
*
21496586 TTTTACAAT
1 TTTTATAAT
21496595 TTTT-TATAT
1 TTTTATA-AT
*
21496604 ATTTTATGAT
1 -TTTTATAAT
21496614 TTTTATAATTT
1 TTTTATAA--T
*
21496625 TTTCCTCTAAT
1 TTT--TATAAT
21496636 TTTTAATAAT
1 TTTT-ATAAT
*
21496646 TTTGAT-AT
1 TTTTATAAT
*
21496654 TTTTATTAAAA
1 TTTTA-T-AAT
**
21496665 TTCAATAA-
1 TTTTATAAT
21496673 TTTTATAAT
1 TTTTATAAT
*
21496682 TTTTATTGAT
1 TTTTA-TAAT
21496692 TTTTAT--T
1 TTTTATAAT
*
21496699 TTTTATCAT
1 TTTTATAAT
21496708 TTTT
1 TTTT
21496712 TTCCACATAT
Statistics
Matches: 128, Mismatches: 24, Indels: 40
0.67 0.12 0.21
Matches are distributed among these distances:
7 7 0.05
8 17 0.13
9 55 0.43
10 31 0.24
11 14 0.11
13 4 0.03
ACGTcount: A:0.29, C:0.04, G:0.03, T:0.64
Consensus pattern (9 bp):
TTTTATAAT
Found at i:21497432 original size:34 final size:33
Alignment explanation
Indices: 21497393--21497491 Score: 144
Period size: 34 Copynumber: 2.9 Consensus size: 33
21497383 AATTTTTTTA
*
21497393 AAAATTAATTAAATTAGGTTTTAGGGGTTTTAAG
1 AAAATTAATTAAATTAGG-TTTAGGGTTTTTAAG
* *
21497427 TAAATTAACTAAATTAGGGTTTAGGGTTTTTAAG
1 AAAATTAATTAAATTA-GGTTTAGGGTTTTTAAG
21497461 AAAATTAATTAAATTAAGGTTTAGGGTTTTT
1 AAAATTAATTAAATT-AGGTTTAGGGTTTTT
21497492 TAAAAATAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
34 55 0.95
35 3 0.05
ACGTcount: A:0.37, C:0.01, G:0.19, T:0.42
Consensus pattern (33 bp):
AAAATTAATTAAATTAGGTTTAGGGTTTTTAAG
Found at i:21497803 original size:125 final size:126
Alignment explanation
Indices: 21497579--21498849 Score: 1547
Period size: 125 Copynumber: 10.1 Consensus size: 126
21497569 ATTTTGTTTT
* * * * * * *
21497579 TTTTTCTACAGCAGTTTCTAAAAAAAATAATTTTGAGAATATGATTCTAAAAAAATAGTGACAAA
1 TTTTTCTACAGTAGTTTCT-GAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAA
* * * *
21497644 AATGCTTCAAGCAGGATGCACTGTCAACAAAAGTATTGAAAAAAGCTCCCACGTGGACGCTC
65 AATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTGGACGCTC
* * *
21497706 TTTTTCTACAGTAGTTTCTG-AAAAATAATTTTGAGAAGACGGTTCTAAAAAAATAATGTAAAAA
1 TTTTTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
* ** * * * *
21497770 ATGCTTTAAATAGTATGCACTGTTAGCAAAAGTACTAAAAAAA-CTCCCACGTGGACACTC
66 ATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTGGACGCTC
* * * * *
21497830 TTTTTGTACAGTAGTTCCTG-AAAAATAATTTTGAGAAGATGGTTTTGAAAAAATAGTGTGAAAA
1 TTTTTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
* * * * * *
21497894 CTGCTTCAAACAGCATGCACTATCAGCAAAATTACTAAAAAAAGCTCTCACGTGGACACTC
66 ATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTGGACGCTC
* **
21497955 TTTTTTTTACAGTAG-TTCTTG-AAAAATAATTTTGAGAAGACAATTCTGAAAAAATAGTGTCAA
1 -TTTTTCTACAGTAGTTTC-TGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAA
* *
21498018 AAACGCTTAAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTGGACGCTC
64 AAATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTGGACGCTC
* **
21498081 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGATAGTTCTGAAAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
* * * * * * *
21498146 ACGCTTCAAGTAGGATACATTGTCAGCAAAATTACT-GAAAAATCTCCCACGTGGATGCTC
66 ATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTGGACGCTC
* * * * * * *
21498206 TTTTTCTATAGTAGTTTTTGAAAAAATAATTTTGAGAAGACGATTATAAAAAAATAATGTAAAAA
1 TTTTTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGT-CAAA
** * * *
21498271 AATGCTTCAATTAGTATGCACTGTCAGCAAAAGTACTAAAAAAAGCTCCCACATGGACGCTC
65 AATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTGGACGCTC
* * *
21498333 TTTTTCTACAGTAGCTCCTGAAAAAATAATTTTTAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
* *
21498398 ATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCCCACATGGATGCTC
66 ATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTGGACGCTC
* * * *
21498459 TTTTTCTAAAGTAG-TTCTTGAAAAAATAATTTTGAAAAAAAGGTTCTG-AAAAATAGTGTCAAA
1 TTTTTCTACAGTAGTTTC-TGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAA
** * * * * *
21498522 AACACTTCAAGCAGGATGCACTGTCAACAAAATTACTAACAAAAGCTTCCACGTAGACACTC
65 AATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTGGACGCTC
* *
21498584 TTTTTTTACAGTAG-TTCTTGAAAAAATAATTTT-AAAAGACGGTTCTGAAAAAATAGTGTCAAA
1 TTTTTCTACAGTAGTTTC-TGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAA
* * * * * ** *
21498647 AATGCTTCAAGCAGGATGCACTATCAACAAAATTACTGAAACAGGCTCCCATATGGATGCTC
65 AATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTGGACGCTC
* *** * * *
21498709 TTTTTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAAATAATTTTGAAAATATAGTTTCAAAA
1 TTTTTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
* * *
21498774 ATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACT-GAAAAAGCTCACACGTGGACGTTC
66 ATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTGGACGCTC
*
21498834 TTTTTCTATAGTAGTT
1 TTTTTCTACAGTAGTT
21498850 CCTGCTTTGT
Statistics
Matches: 988, Mismatches: 145, Indels: 24
0.85 0.13 0.02
Matches are distributed among these distances:
124 121 0.12
125 402 0.41
126 376 0.38
127 89 0.09
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
ATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTGGACGCTC
Found at i:21498750 original size:14 final size:14
Alignment explanation
Indices: 21498731--21498757 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
21498721 AGTTTCTGAA
21498731 AAAATAATTTTGAG
1 AAAATAATTTTGAG
21498745 AAAATAATTTTGA
1 AAAATAATTTTGA
21498758 AAATATAGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (14 bp):
AAAATAATTTTGAG
Found at i:21498774 original size:628 final size:626
Alignment explanation
Indices: 21497600--21498849 Score: 1781
Period size: 628 Copynumber: 2.0 Consensus size: 626
21497590 CAGTTTCTAA
* * * * *
21497600 AAAAAATAATTTTGAGAATATGATTCTAAAAAAATAGTGACAAAAATGCTTCAAGCAGGATGCAC
1 AAAAAATAATTTTGAGAAGACGATTATAAAAAAATAATGAAAAAAATGCTTCAAGCAGGATGCAC
* * * * *
21497665 TGTCAACAAAAGTATTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTTCTGAAAA
66 TGTCAACAAAAGTACTAAAAAAAGCTCCCACATGGACGCTCTTTTTCTACAGTAGCTCCTGAAAA
* * * *
21497730 ATAATTTTGAGAAGACGGTTCTAAAAAAATAATGTAAAAAATGCTTTAAATAGTATGCACTGTTA
131 ATAATTTTGAGAAGACGGTTCTAAAAAAATAATGTAAAAAATGCTTCAAACAGGATGCACTGTCA
* * *
21497795 GCAAAAGTACTAAAAAAACTCCCACGTGGACACTCTTTTTGTACAGTAGTTCCTGAAAAATAATT
196 GCAAAAGTACTAAAAAAACTCCCACATGGACACTCTTTTTCTAAAGTAGTTCCTGAAAAATAATT
* * * * * * *
21497860 TTGAGAAGATGGTTTTGAAAAAATAGTGTGAAAACTGCTTCAAACAGCATGCACTATCAGCAAAA
261 TTGAAAAAAAGGTTCTGAAAAAATAGTGTAAAAACTACTTCAAACAGCATGCACTATCAACAAAA
*
21497925 TTACTAAAAAAAGCTCTCACGTGGACACTCTTTTTTTTACAGTAGTTCTTGAAAAATAATTTTGA
326 TTACTAAAAAAAGCTCTCACGTAGACACTCTTTTTTTTACAGTAGTTCTTGAAAAATAATTTTGA
* * *
21497990 GAAGACAATTCTGAAAAAATAGTGTCAAAAACGCTTAAAGCAGGATGCACTGTCAGCAAAATTAC
391 AAAGACAATTCTGAAAAAATAGTGTCAAAAACGCTTAAAGCAGGATGCACTATCAACAAAATTAC
* *
21498055 TAAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAG
456 TAAAAAAAGCTCCCACATGGACGCTCTTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAA
* * *
21498120 ATAGTTCTGAAAAAATAGTGTCAAAAACGCTTCAAGTAGGATACATTGTCAGCAAAATTACTGAA
521 ATAATTCTGAAAAAATAGTGTCAAAAACGCTTCAAGCAGGATACACTGTCAGCAAAATTACTGAA
* * *
21498185 AAATCTCCCACGTGGATGCTCTTTTTCTATAGTAGTTTTTG
586 AAAGCTCACACGTGGACGCTCTTTTTCTATAGTAGTTTTTG
** *
21498226 AAAAAATAATTTTGAGAAGACGATTATAAAAAAATAATGTAAAAAAATGCTTCAATTAGTATGCA
1 AAAAAATAATTTTGAGAAGACGATTATAAAAAAATAATG-AAAAAAATGCTTCAAGCAGGATGCA
*
21498291 CTGTCAGCAAAAGTACTAAAAAAAGCTCCCACATGGACGCTCTTTTTCTACAGTAGCTCCTGAAA
65 CTGTCAACAAAAGTACTAAAAAAAGCTCCCACATGGACGCTCTTTTTCTACAGTAGCTCCTG-AA
* * * * *
21498356 AAATAATTTTTAGAAGACGGTTCTGAAAAAATAGTGTCAAAAATGCTTCAAGCAGGATGCACTGT
129 AAATAATTTTGAGAAGACGGTTCTAAAAAAATAATGTAAAAAATGCTTCAAACAGGATGCACTGT
* ** *
21498421 CAGCAAAATTACTAAAAAAAGCTCCCACATGGATGCTCTTTTTCTAAAGTAGTTCTTGAAAAAAT
194 CAGCAAAAGTACTAAAAAAA-CTCCCACATGGACACTCTTTTTCTAAAGTAGTTCCTG-AAAAAT
* * *
21498486 AATTTTGAAAAAAAGGTTCTG-AAAAATAGTGTCAAAAAC-ACTTCAAGCAGGATGCACTGTCAA
257 AATTTTGAAAAAAAGGTTCTGAAAAAATAGTGT-AAAAACTACTTCAAACAGCATGCACTATCAA
*
21498549 CAAAATTACTAACAAAAGCT-TCCACGTAGACACTC-TTTTTTTACAGTAGTTCTTGAAAAAATA
321 CAAAATTACTAAAAAAAGCTCT-CACGTAGACACTCTTTTTTTTACAGTAGTTCTTG-AAAAATA
** * *
21498612 ATTTT-AAAAGACGGTTCTGAAAAAATAGTGTCAAAAATGCTTCAAGCAGGATGCACTATCAACA
384 ATTTTGAAAAGACAATTCTGAAAAAATAGTGTCAAAAACGCTTAAAGCAGGATGCACTATCAACA
* * * * * *
21498676 AAATTACTGAAACAGGCTCCCATATGGATGCTCTTTTTCTACAGTAGTTTCTGAAAAAATAATTT
449 AAATTACTAAAAAAAGCTCCCACATGGACGCTCTTTTTCTACAGTAGTTCCTGAAAAAATAATTT
* * * * *
21498741 TGAGAAAATAATTTTGAAAATATAGTTTCAAAAATGCTTCAAGCAGGATGCACTGTCAGCAAAAT
514 TGAGAAAATAATTCTGAAAAAATAGTGTCAAAAACGCTTCAAGCAGGATACACTGTCAGCAAAAT
*
21498806 TACTGAAAAAGCTCACACGTGGACGTTCTTTTTCTATAGTAGTT
579 TACTGAAAAAGCTCACACGTGGACGCTCTTTTTCTATAGTAGTT
21498850 CCTGCTTTGT
Statistics
Matches: 548, Mismatches: 69, Indels: 12
0.87 0.11 0.02
Matches are distributed among these distances:
626 35 0.06
627 77 0.14
628 304 0.55
629 104 0.19
630 28 0.05
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.29
Consensus pattern (626 bp):
AAAAAATAATTTTGAGAAGACGATTATAAAAAAATAATGAAAAAAATGCTTCAAGCAGGATGCAC
TGTCAACAAAAGTACTAAAAAAAGCTCCCACATGGACGCTCTTTTTCTACAGTAGCTCCTGAAAA
ATAATTTTGAGAAGACGGTTCTAAAAAAATAATGTAAAAAATGCTTCAAACAGGATGCACTGTCA
GCAAAAGTACTAAAAAAACTCCCACATGGACACTCTTTTTCTAAAGTAGTTCCTGAAAAATAATT
TTGAAAAAAAGGTTCTGAAAAAATAGTGTAAAAACTACTTCAAACAGCATGCACTATCAACAAAA
TTACTAAAAAAAGCTCTCACGTAGACACTCTTTTTTTTACAGTAGTTCTTGAAAAATAATTTTGA
AAAGACAATTCTGAAAAAATAGTGTCAAAAACGCTTAAAGCAGGATGCACTATCAACAAAATTAC
TAAAAAAAGCTCCCACATGGACGCTCTTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAA
ATAATTCTGAAAAAATAGTGTCAAAAACGCTTCAAGCAGGATACACTGTCAGCAAAATTACTGAA
AAAGCTCACACGTGGACGCTCTTTTTCTATAGTAGTTTTTG
Found at i:21503541 original size:6 final size:6
Alignment explanation
Indices: 21503530--21503563 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
21503520 TAATGCTCAT
21503530 CCATTG CCATTG CCATTG CCATTG CCATTG CCAT
1 CCATTG CCATTG CCATTG CCATTG CCATTG CCAT
21503564 CAATATTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.18, C:0.35, G:0.15, T:0.32
Consensus pattern (6 bp):
CCATTG
Found at i:21505114 original size:27 final size:28
Alignment explanation
Indices: 21505064--21505119 Score: 105
Period size: 27 Copynumber: 2.0 Consensus size: 28
21505054 GATAATAAAG
21505064 ATAGAATTTTGTTTTTCTCTCAAATGGA
1 ATAGAATTTTGTTTTTCTCTCAAATGGA
21505092 ATAGAATTTTG-TTTTCTCTCAAATGGA
1 ATAGAATTTTGTTTTTCTCTCAAATGGA
21505119 A
1 A
21505120 ACGTATAGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 17 0.61
28 11 0.39
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.45
Consensus pattern (28 bp):
ATAGAATTTTGTTTTTCTCTCAAATGGA
Found at i:21506410 original size:7 final size:7
Alignment explanation
Indices: 21506398--21506437 Score: 71
Period size: 7 Copynumber: 5.7 Consensus size: 7
21506388 TCTGAAATTG
21506398 ATATACT
1 ATATACT
21506405 ATATACT
1 ATATACT
21506412 ATATACT
1 ATATACT
*
21506419 ACATACT
1 ATATACT
21506426 ATATACT
1 ATATACT
21506433 ATATA
1 ATATA
21506438 ATGTTTCAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.45, C:0.15, G:0.00, T:0.40
Consensus pattern (7 bp):
ATATACT
Found at i:21511012 original size:87 final size:86
Alignment explanation
Indices: 21510866--21511029 Score: 224
Period size: 87 Copynumber: 1.9 Consensus size: 86
21510856 AAATTTAGAT
* *
21510866 TCGGTGAATTCATCAAGTACATCTCAATAAGACCATCCACACTCTCGAATATGAACTCATTAAGA
1 TCGGTGAATTCATCAAGTACATCTCAATAAGACCACCCAAACTCTCGAATATGAACTCATTAAGA
21510931 GTAATAAACTCAACATCTCAAG
66 GTAA-AAACTCAACATCTCAAG
* * **
21510953 TCGGTGAATTCATCAAGT-CTGTCTCAAT-AGAACCACCCAAACTCTTGGCTATGAACTCATTAA
1 TCGGTGAATTCATCAAGTAC-ATCTCAATAAG-ACCACCCAAACTCTCGAATATGAACTCATTAA
*
21511016 GAGTAAGAACTCAA
64 GAGTAAAAACTCAA
21511030 ACTTATGCAT
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
86 10 0.15
87 58 0.85
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (86 bp):
TCGGTGAATTCATCAAGTACATCTCAATAAGACCACCCAAACTCTCGAATATGAACTCATTAAGA
GTAAAAACTCAACATCTCAAG
Found at i:21519128 original size:12 final size:12
Alignment explanation
Indices: 21519111--21519145 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
21519101 TCACTCTCAC
21519111 TTTCTTTTTCAA
1 TTTCTTTTTCAA
**
21519123 TTTCTTTTTCGT
1 TTTCTTTTTCAA
21519135 TTTCTTTTTCA
1 TTTCTTTTTCA
21519146 CAATCTTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.09, C:0.17, G:0.03, T:0.71
Consensus pattern (12 bp):
TTTCTTTTTCAA
Found at i:21519152 original size:24 final size:23
Alignment explanation
Indices: 21519111--21519165 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
21519101 TCACTCTCAC
*
21519111 TTTCTTTTTCAATTTCTTTTTCG
1 TTTCTTTTTCAATATCTTTTTCG
21519134 TTTTCTTTTTCACA-ATCTTTTTCG
1 -TTTCTTTTTCA-ATATCTTTTTCG
*
21519158 ATTCTTTT
1 TTTCTTTT
21519166 CTCTCTTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 7 0.25
24 20 0.71
25 1 0.04
ACGTcount: A:0.11, C:0.18, G:0.04, T:0.67
Consensus pattern (23 bp):
TTTCTTTTTCAATATCTTTTTCG
Found at i:21519209 original size:18 final size:18
Alignment explanation
Indices: 21519149--21519212 Score: 76
Period size: 18 Copynumber: 3.5 Consensus size: 18
21519139 TTTTTCACAA
*
21519149 TCTTTTTCGATTCTTTTC
1 TCTTTTTCAATTCTTTTC
* *
21519167 TCTCTTTCAATTTTTTTCC
1 TCTTTTTCAATTCTTTT-C
21519186 TCTTTTTCAATCTCTTTT-
1 TCTTTTTCAAT-TCTTTTC
21519204 TCTTTTTCA
1 TCTTTTTCA
21519213 TTACAACATG
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
18 23 0.59
19 11 0.28
20 5 0.13
ACGTcount: A:0.09, C:0.23, G:0.02, T:0.66
Consensus pattern (18 bp):
TCTTTTTCAATTCTTTTC
Found at i:21520169 original size:12 final size:12
Alignment explanation
Indices: 21520151--21520181 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
21520141 AATATATCTC
21520151 ATTTTTTTC-AA
1 ATTTTTTTCGAA
21520162 ATTTTTTTCGAA
1 ATTTTTTTCGAA
21520174 ATTTTTTT
1 ATTTTTTT
21520182 TACGAACCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.47
12 10 0.53
ACGTcount: A:0.23, C:0.06, G:0.03, T:0.68
Consensus pattern (12 bp):
ATTTTTTTCGAA
Found at i:21524427 original size:23 final size:24
Alignment explanation
Indices: 21524373--21524430 Score: 75
Period size: 23 Copynumber: 2.5 Consensus size: 24
21524363 AGTTAAAATG
*
21524373 TAATTTCATAATTGTATTAATTTA
1 TAATTTTATAATTGTATTAATTTA
*
21524397 T-ATCTTTATCATT-TATTAATTTA
1 TAAT-TTTATAATTGTATTAATTTA
21524420 TAATTTTATAA
1 TAATTTTATAA
21524431 ATATATAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 19 0.66
24 10 0.34
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (24 bp):
TAATTTTATAATTGTATTAATTTA
Found at i:21528939 original size:22 final size:22
Alignment explanation
Indices: 21528911--21528952 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
21528901 AAAAATAAAC
*
21528911 TGCTATTTTTTTGTTATTTTAA
1 TGCTATTTTCTTGTTATTTTAA
*
21528933 TGCTATTTTCTTGTTGTTTT
1 TGCTATTTTCTTGTTATTTT
21528953 CTCCGTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.12, C:0.07, G:0.12, T:0.69
Consensus pattern (22 bp):
TGCTATTTTCTTGTTATTTTAA
Found at i:21535271 original size:21 final size:21
Alignment explanation
Indices: 21535232--21535273 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
21535222 ATTCAAAATA
21535232 AAATAATACAATCTAAAATATC
1 AAATAATA-AATCTAAAATATC
21535254 AAATAAT-AATCTTAAAATAT
1 AAATAATAAATC-TAAAATAT
21535274 TTTTAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.21
21 8 0.42
22 7 0.37
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.31
Consensus pattern (21 bp):
AAATAATAAATCTAAAATATC
Found at i:21536028 original size:34 final size:33
Alignment explanation
Indices: 21535990--21536102 Score: 147
Period size: 34 Copynumber: 3.3 Consensus size: 33
21535980 TTCAACAGAG
21535990 CAATACAGTAGCAATCAATATGCTTATAACAGTT
1 CAATACAGTAGCAAT-AATATGCTTATAACAGTT
* *
21536024 CAATATAGTAGCAAATAATATGCTTATAACGGTT
1 CAATACAGTAGC-AATAATATGCTTATAACAGTT
* *
21536058 CAATAAAGTAGCAAGTAATATGCTTATAACAGAT
1 CAATACAGTAGCAA-TAATATGCTTATAACAGTT
21536092 CAACT-CAGTAG
1 CAA-TACAGTAG
21536103 TAAAATTCAT
Statistics
Matches: 70, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
33 2 0.03
34 64 0.91
35 4 0.06
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.28
Consensus pattern (33 bp):
CAATACAGTAGCAATAATATGCTTATAACAGTT
Found at i:21546008 original size:2 final size:2
Alignment explanation
Indices: 21546001--21546029 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
21545991 ATAAAGTAAA
21546001 AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21546030 GTATTTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:21546020 original size:15 final size:15
Alignment explanation
Indices: 21546000--21546029 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
21545990 AATAAAGTAA
21546000 AATATATATATATAT
1 AATATATATATATAT
21546015 AATATATATATATAT
1 AATATATATATATAT
21546030 GTATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AATATATATATATAT
Found at i:21546021 original size:13 final size:13
Alignment explanation
Indices: 21546003--21546028 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21545993 AAAGTAAAAT
21546003 ATATATATATATA
1 ATATATATATATA
21546016 ATATATATATATA
1 ATATATATATATA
21546029 TGTATTTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATATATATATATA
Found at i:21546093 original size:3 final size:3
Alignment explanation
Indices: 21546072--21546109 Score: 60
Period size: 3 Copynumber: 12.7 Consensus size: 3
21546062 TACATATGCT
21546072 TAA TAA -AA TAA TAA CTAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TA
21546110 CAAAAAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:21548176 original size:263 final size:263
Alignment explanation
Indices: 21547692--21548502 Score: 1276
Period size: 263 Copynumber: 3.1 Consensus size: 263
21547682 CAATACATGA
** *
21547692 AGACAAGATCTG-CTTC-TCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTATTGGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
* *
21547755 TATACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTATTGCTTAG
66 TGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTATTGCTTGG
*
21547820 AGAGACAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAATAGAATTACTGGCTTC
131 GGAGACAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGG-AATAGAATTACTGGCTTC
* * *
21547885 AATGTACTCCACTATAACCACGAGGAGGTAAAATCCGCCATCTTTGATCTACTCCGCTACTGCTT
195 AATGTACTCCACTATAACTACGAGGAGGTAAAATCCGCCATCTTTGATCTGCTCCACTACTGCTT
21547950 AGGG
260 AGGG
21547954 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
* *
21548019 TGTACTCCACTGCAACCTCAGGGAGG-AAAATCTGCCATCTTTGATCTGCTCCACTATTGCTTGG
66 TGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTATTGCTTGG
*
21548083 GGAGACAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAAGGAGATAGAATTACTGGCTTC
131 GGAGACAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGA-ATAGAATTACTGGCTTC
21548148 AATGTACTCCACTATAACTACGAGGAGGTAAAATCCGCCATCTTTGATCTGCTCCACTACTGCTT
195 AATGTACTCCACTATAACTACGAGGAGGTAAAATCCGCCATCTTTGATCTGCTCCACTACTGCTT
21548213 AGGG
260 AGGG
* *
21548217 AGACAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAATAGAATTACTGGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
* * * *
21548282 TGTACTCCACTATAACCAC-GATGAGGTAAAAT-TCGCCATATTTGATCTGCTCCACTACTGCTT
66 TGTACTCCACTGTAACCACAG-GGAGGTAAAATCT-GCCATCTTTGATCTGCTCCACTATTGCTT
* *
21548345 GGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTATTGGCT
129 GGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAA-TAGAATTACTGGCT
* ** * *
21548410 TCAATATACTCCACTGCAGCCT-C-AGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACT
193 TCAATGTACTCCACTATA-ACTACGA-GGAGGTAAAATCCGCCATCTTTGATCTGCTCCACTACT
21548473 GCTTAGGG
256 GCTTAGGG
*
21548481 AGACAAGATCTGTAATCTTCAA
1 AGACAAGATCTGAAATCTTCAA
21548503 CCTGCTCTAC
Statistics
Matches: 511, Mismatches: 29, Indels: 16
0.92 0.05 0.03
Matches are distributed among these distances:
262 14 0.03
263 252 0.49
264 243 0.48
265 2 0.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (263 bp):
AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
TGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTATTGCTTGG
GGAGACAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAATAGAATTACTGGCTTCA
ATGTACTCCACTATAACTACGAGGAGGTAAAATCCGCCATCTTTGATCTGCTCCACTACTGCTTA
GGG
Found at i:21548438 original size:395 final size:395
Alignment explanation
Indices: 21547692--21548502 Score: 1360
Period size: 395 Copynumber: 2.1 Consensus size: 395
21547682 CAATACATGA
** * *
21547692 AGACAAGATCTGCTTC-TCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTATTGGCTTCAAT
1 AGACAAGATCTGAATCTTCAATCTATTCCACTGCTGCCCAAGGAAGTAGAATTACTGGCTTCAAT
* * *
21547756 ATACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTATTGCTTAGA
66 ATACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTTGATCTGCTCCACTACTGCTTAGA
21547821 GAGACAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAATAGAATTACTGGCTTCA
131 GAGACAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAATAGAATTACTGGCTTCA
* *
21547886 ATGTACTCCACTATAACCACGAGGAGGTAAAATCCGCCATCTTTGATCTACTCCGCTACTGCTTA
196 ATGTACTCCACTATAACCACGAGGAGGTAAAATCCGCCATATTTGATCTACTCCACTACTGCTTA
21547951 GGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTT
261 GGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTT
* *
21548016 CAATGTACTCCACTGCAACCTCAGGGAGG-AAAATCTGCCATCTTTGATCTGCTCCACTATTGCT
326 CAATATACTCCACTGCAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCT
*
21548080 TGGGG
391 TAGGG
*
21548085 AGACAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAAGG-AGATAGAATTACTGGCTTCA
1 AGACAAGATCTG-AATCTTCAATCTATTCCACTGCTGCCCAAGGAAG-TAGAATTACTGGCTTCA
* *
21548149 ATGTACTCCACTATAACTAC-GAGGAGGTAAAATCCGCCATCTTTGATCTGCTCCACTACTGCTT
64 ATATACTCCACTATAACCACAG-GGAGGTAAAATCCGCCATCTTTGATCTGCTCCACTACTGCTT
*
21548213 AGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAATAGAATTACTGGCT
128 AGAGAGACAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAATAGAATTACTGGCT
* * *
21548278 TCAATGTACTCCACTATAACCACGATGAGGTAAAATTCGCCATATTTGATCTGCTCCACTACTGC
193 TCAATGTACTCCACTATAACCACGAGGAGGTAAAATCCGCCATATTTGATCTACTCCACTACTGC
* *
21548343 TTGGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTATTGG
258 TTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGG
*
21548408 CTTCAATATACTCCACTGCAGCCTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACT
323 CTTCAATATACTCCACTGCAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACT
21548473 GCTTAGGG
388 GCTTAGGG
21548481 AGACAAGATCTGTAATCTTCAA
1 AGACAAGATCTG-AATCTTCAA
21548503 CCTGCTCTAC
Statistics
Matches: 390, Mismatches: 23, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
393 12 0.03
394 5 0.01
395 314 0.81
396 59 0.15
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (395 bp):
AGACAAGATCTGAATCTTCAATCTATTCCACTGCTGCCCAAGGAAGTAGAATTACTGGCTTCAAT
ATACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTTGATCTGCTCCACTACTGCTTAGA
GAGACAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAATAGAATTACTGGCTTCA
ATGTACTCCACTATAACCACGAGGAGGTAAAATCCGCCATATTTGATCTACTCCACTACTGCTTA
GGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTT
CAATATACTCCACTGCAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCT
TAGGG
Found at i:21548525 original size:132 final size:133
Alignment explanation
Indices: 21547692--21548502 Score: 1230
Period size: 132 Copynumber: 6.2 Consensus size: 133
21547682 CAATACATGA
** * *
21547692 AGACAAGATCTG-CTTC-TCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTATTGGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCTTCAA
* * *
21547755 TATACTCCACTGTAACCACAG-GGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTATTGCTTA
66 TGTACTCCACTATAACCACAGAGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTA
*
21547819 GAG
131 GGG
*
21547822 AGACAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAATAGAATTACTGGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCTTCAA
* * *
21547887 TGTACTCCACTATAACCAC-GAGGAGGTAAAATCCGCCATCTTTGATCTACTCCGCTACTGCTTA
66 TGTACTCCACTATAACCACAGAGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTA
21547951 GGG
131 GGG
*
21547954 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCTTCAA
** * * *
21548019 TGTACTCCACTGCAACCTCAG-GGAGG-AAAATCTGCCATCTTTGATCTGCTCCACTATTGCTTG
66 TGTACTCCACTATAACCACAGAGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTA
21548082 GGG
131 GGG
*
21548085 AGACAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAAGG-AGATAGAATTACTGGCTTCA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAG-TAGAATTACTGGCTTCA
* *
21548149 ATGTACTCCACTATAACTAC-GAGGAGGTAAAATCCGCCATCTTTGATCTGCTCCACTACTGCTT
65 ATGTACTCCACTATAACCACAGAGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTT
21548213 AGGG
130 AGGG
*
21548217 AGACAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAATAGAATTACTGGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCTTCAA
* *
21548282 TGTACTCCACTATAACCAC-GATGAGGTAAAAT-TCGCCATATTTGATCTGCTCCACTACTGCTT
66 TGTACTCCACTATAACCACAGAGGAGGTAAAATCT-GCCATCTTTGATCTGCTCCACTACTGCTT
*
21548345 GGGG
130 AGGG
* *
21548349 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTATTGGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCTTCAA
* ** * *
21548414 TATACTCCACTGCAGCCTCAG-GGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTA
66 TGTACTCCACTATAACCACAGAGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTA
21548478 GGG
131 GGG
*
21548481 AGACAAGATCTGTAATCTTCAA
1 AGACAAGATCTGAAATCTTCAA
21548503 CCTGCTCTAC
Statistics
Matches: 620, Mismatches: 50, Indels: 20
0.90 0.07 0.03
Matches are distributed among these distances:
130 15 0.02
131 118 0.19
132 483 0.78
133 4 0.01
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (133 bp):
AGACAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCTTCAA
TGTACTCCACTATAACCACAGAGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTA
GGG
Found at i:21549737 original size:42 final size:42
Alignment explanation
Indices: 21549676--21549790 Score: 185
Period size: 42 Copynumber: 2.7 Consensus size: 42
21549666 AAGACCAGTG
*
21549676 CATGCCCCACTCTGATCAGTATTTGAGCTGCTCCGATAATCT
1 CATGCCCCATTCTGATCAGTATTTGAGCTGCTCCGATAATCT
* *
21549718 CATGCCCCATTCTGTTCAGTATTTGAGCTACTCCGATAATCT
1 CATGCCCCATTCTGATCAGTATTTGAGCTGCTCCGATAATCT
* *
21549760 CATGCCCCATTCTAATCAATATTTGAGCTGC
1 CATGCCCCATTCTGATCAGTATTTGAGCTGC
21549791 CCTTTTCGGG
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 66 1.00
ACGTcount: A:0.23, C:0.30, G:0.15, T:0.33
Consensus pattern (42 bp):
CATGCCCCATTCTGATCAGTATTTGAGCTGCTCCGATAATCT
Done.