Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 20 of 333
Found at i:5945315 original size:96 final size:97
Alignment explanation
Indices: 5945145--5945326 Score: 267
Period size: 96 Copynumber: 1.9 Consensus size: 97
5945135 TATTTATTTA
* * *
5945145 TTTATTTTTACTTAGGAATATATTGAACCTTTTGACGCGAAGAAAGATGACAGCCAAGCACCGCA
1 TTTATTTTTACTTAAGAACATATCGAACCTTTTGACGCGAAGAAAGATGACAGCCAAGCACCGCA
* * *
5945210 CCTCAGTTACTTAGCCCAACATACTCCTAATT
66 CCCCAGTTACTCAACCCAACATACTCCTAATT
* * *
5945242 TTTATTTTT-CTTAAGAACATATCGAATCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCTCA
1 TTTATTTTTACTTAAGAACATATCGAACCTTTTGACGCGAAGAAAGATGACAGCCAAGCACCGCA
*
5945306 CCCCGGTTACTCAACCCAACA
66 CCCCAGTTACTCAACCCAACA
5945327 CATTCTTAAA
Statistics
Matches: 75, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
96 66 0.88
97 9 0.12
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (97 bp):
TTTATTTTTACTTAAGAACATATCGAACCTTTTGACGCGAAGAAAGATGACAGCCAAGCACCGCA
CCCCAGTTACTCAACCCAACATACTCCTAATT
Found at i:5949784 original size:10 final size:10
Alignment explanation
Indices: 5949765--5949814 Score: 68
Period size: 10 Copynumber: 5.0 Consensus size: 10
5949755 TGAAATTCTA
5949765 AAAGATAAAT
1 AAAGATAAAT
5949775 ACAA-ATAAAT
1 A-AAGATAAAT
5949785 AAAGATAAAT
1 AAAGATAAAT
5949795 AAAGATAAAT
1 AAAGATAAAT
5949805 GAAA-ATAAAT
1 -AAAGATAAAT
5949815 CCTAAAATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
9 2 0.05
10 30 0.81
11 5 0.14
ACGTcount: A:0.70, C:0.02, G:0.08, T:0.20
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:5961534 original size:17 final size:16
Alignment explanation
Indices: 5961512--5961544 Score: 57
Period size: 16 Copynumber: 2.0 Consensus size: 16
5961502 ATAAAAATAA
5961512 AAAAATATAAATTTAAT
1 AAAAATA-AAATTTAAT
5961529 AAAAATAAAATTTAAT
1 AAAAATAAAATTTAAT
5961545 TTTATCTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AAAAATAAAATTTAAT
Found at i:5963498 original size:22 final size:23
Alignment explanation
Indices: 5963449--5963499 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
5963439 TTATTTTATC
* *
5963449 TAATAAATAATTTAAATTAATTA
1 TAATAATTAATTTAAAATAATTA
*
5963472 T-ATAATTAA-TTAAAATATTTA
1 TAATAATTAATTTAAAATAATTA
5963493 TAATAAT
1 TAATAAT
5963500 ATATCGAAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 11 0.46
22 12 0.50
23 1 0.04
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TAATAATTAATTTAAAATAATTA
Found at i:5978738 original size:15 final size:15
Alignment explanation
Indices: 5978718--5978747 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5978708 ATACCTATCT
*
5978718 TTGTACATTGGGGGC
1 TTGTACATTGAGGGC
5978733 TTGTACATTGAGGGC
1 TTGTACATTGAGGGC
5978748 AATGTACATA
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:0.17, C:0.13, G:0.37, T:0.33
Consensus pattern (15 bp):
TTGTACATTGAGGGC
Found at i:5983090 original size:43 final size:43
Alignment explanation
Indices: 5983028--5983116 Score: 160
Period size: 43 Copynumber: 2.1 Consensus size: 43
5983018 AGATGCATAA
* *
5983028 TTATGAAAGAAAGTGGTATTTTTATCTCCATTTGCTAACTAAT
1 TTATGAAAGAAAGTAGTATTTTTATCTCCATTTGCTAACCAAT
5983071 TTATGAAAGAAAGTAGTATTTTTATCTCCATTTGCTAACCAAT
1 TTATGAAAGAAAGTAGTATTTTTATCTCCATTTGCTAACCAAT
5983114 TTA
1 TTA
5983117 CTTTCGCCAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (43 bp):
TTATGAAAGAAAGTAGTATTTTTATCTCCATTTGCTAACCAAT
Found at i:5984766 original size:46 final size:46
Alignment explanation
Indices: 5984377--5984727 Score: 594
Period size: 46 Copynumber: 7.6 Consensus size: 46
5984367 TATTCATTTC
* *
5984377 TATCTTTCAACCATAGTCTTATTTATTTCCTGTCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGG
* * *
5984423 TATCTTTTAACCATGGTCTTATTCATTTCCTATCATGTTGCTATGG
1 TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGG
*
5984469 TATCTTTCAACTATGGTCTTATTCATTTCCTGTCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGG
* *
5984515 TATCTTTCAACCATGGTCATATTTATTTCCTGTCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGG
* *
5984561 TATCTTTCAACCATGGTCATATTCATTTCCTGTCATGTTTCCATGG
1 TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGG
*
5984607 TATCTTTCAACCATGGTCTTATTCATTTTCTGTCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGG
*
5984653 TATCTTTCAACCATGGTCCTATTCATTTCCTGTCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGG
5984699 TATCTTTCAACCATGGTCTTATTCATTTC
1 TATCTTTCAACCATGGTCTTATTCATTTC
5984728 TCATCATACT
Statistics
Matches: 285, Mismatches: 20, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 285 1.00
ACGTcount: A:0.19, C:0.23, G:0.14, T:0.45
Consensus pattern (46 bp):
TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGG
Found at i:5984801 original size:45 final size:45
Alignment explanation
Indices: 5984747--5984857 Score: 134
Period size: 45 Copynumber: 2.5 Consensus size: 45
5984737 TGTCATAGTA
* * * *
5984747 TCTTTCAACTATAGTCTTA-TAAATCTGAATCGTGATGCCATAATG
1 TCTTTCAACTATGGTCTTACT-AATCTGAATCGCGAAGCCATAACG
** *
5984792 TCTTTCAACTATGGTCTTACTCGTCTGAATCGCGAAGCCATAGCG
1 TCTTTCAACTATGGTCTTACTAATCTGAATCGCGAAGCCATAACG
*
5984837 TCTTTCAACGATGGTCTTACT
1 TCTTTCAACTATGGTCTTACT
5984858 CGTTTCTAGT
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
45 56 0.98
46 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (45 bp):
TCTTTCAACTATGGTCTTACTAATCTGAATCGCGAAGCCATAACG
Found at i:5984858 original size:45 final size:45
Alignment explanation
Indices: 5984770--5984860 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 45
5984760 GTCTTATAAA
* * * *
5984770 TCTGAATCGTGATGCCATAATGTCTTTCAACTATGGTCTTACTCG
1 TCTGAATCGCGAAGCCATAACGTCTTTCAACGATGGTCTTACTCG
*
5984815 TCTGAATCGCGAAGCCATAGCGTCTTTCAACGATGGTCTTACTCG
1 TCTGAATCGCGAAGCCATAACGTCTTTCAACGATGGTCTTACTCG
5984860 T
1 T
5984861 TTCTAGTATG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (45 bp):
TCTGAATCGCGAAGCCATAACGTCTTTCAACGATGGTCTTACTCG
Found at i:5984877 original size:45 final size:42
Alignment explanation
Indices: 5984779--5984879 Score: 103
Period size: 45 Copynumber: 2.3 Consensus size: 42
5984769 ATCTGAATCG
** *
5984779 TGATGCCATAATGTCTTTCAACTATGGTCTTACTCGTCTGAA
1 TGATGCCATAGCGTCTTTCAACGATGGTCTTACTCGTCTGAA
* *
5984821 TCGCGAAGCCATAGCGTCTTTCAACGATGGTCTTACTCGTTTCTAGTA
1 T---GATGCCATAGCGTCTTTCAACGATGGTCTTACTCG--TCT-GAA
5984869 TGATGCCATAG
1 TGATGCCATAG
5984880 TCCAACTATG
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
42 1 0.02
45 40 0.85
47 3 0.06
48 3 0.06
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.35
Consensus pattern (42 bp):
TGATGCCATAGCGTCTTTCAACGATGGTCTTACTCGTCTGAA
Found at i:5984924 original size:33 final size:33
Alignment explanation
Indices: 5984872--5985027 Score: 120
Period size: 33 Copynumber: 4.7 Consensus size: 33
5984862 TCTAGTATGA
* * *
5984872 TGCCATAGTCCAACTATGGTCTTACACATCTAT
1 TGCCATAGCCCAGCCATGGTCTTACACATCTAT
* *
5984905 TGCCATGGCCCAGCCATGGTCTTACAC-TCGTAG
1 TGCCATAGCCCAGCCATGGTCTTACACATC-TAT
* * *** * *
5984938 TGCCATATCCAAATTATGGTCTTA-TCATC-AGGA
1 TGCCATAGCCCAGCCATGGTCTTACACATCTA--T
* * *
5984971 TGCCATAGCCTAGCTATGGTCTTACACATATAT
1 TGCCATAGCCCAGCCATGGTCTTACACATCTAT
*
5985004 TGCCATGGCCCAGCCATGGTCTTA
1 TGCCATAGCCCAGCCATGGTCTTA
5985028 TCCGTCAATT
Statistics
Matches: 94, Mismatches: 23, Indels: 12
0.73 0.18 0.09
Matches are distributed among these distances:
31 1 0.01
32 3 0.03
33 86 0.91
34 3 0.03
35 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (33 bp):
TGCCATAGCCCAGCCATGGTCTTACACATCTAT
Found at i:5989356 original size:73 final size:73
Alignment explanation
Indices: 5989237--5989384 Score: 278
Period size: 73 Copynumber: 2.0 Consensus size: 73
5989227 GCCAATGATC
5989237 AACTATTGTATTCCCTATTGAAGGAAAATGCATTACACTTGCTGTCAAATAGCTTCCACTAAAAA
1 AACTATTGTATTCCCTATTGAAGGAAAATGCATTACACTTGCTGTCAAATAGCTTCCACTAAAAA
5989302 CAATTAGT
66 CAATTAGT
* *
5989310 AACTATTGTATTCCCTATTGAAGGAAAATGTATTACACTTGCTGTCAAATAGCTTCCACTAAACA
1 AACTATTGTATTCCCTATTGAAGGAAAATGCATTACACTTGCTGTCAAATAGCTTCCACTAAAAA
5989375 CAATTAGT
66 CAATTAGT
5989383 AA
1 AA
5989385 TCCTCCTCCA
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.32
Consensus pattern (73 bp):
AACTATTGTATTCCCTATTGAAGGAAAATGCATTACACTTGCTGTCAAATAGCTTCCACTAAAAA
CAATTAGT
Found at i:5992827 original size:19 final size:16
Alignment explanation
Indices: 5992785--5992818 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
5992775 CCGGTTAGGC
*
5992785 AACGAACAAGTAAAAT
1 AACGAACAAATAAAAT
5992801 AACGAACAAATAAAAT
1 AACGAACAAATAAAAT
5992817 AA
1 AA
5992819 AGTCGAACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.68, C:0.12, G:0.09, T:0.12
Consensus pattern (16 bp):
AACGAACAAATAAAAT
Found at i:5994628 original size:26 final size:25
Alignment explanation
Indices: 5994607--5994655 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
5994597 TCGGGAATGT
5994607 TCATACGAGCACATA-AATGGGAAGG
1 TCATACGAGC-CATATAATGGGAAGG
* *
5994632 TCTTTCGAGCCATATAATGGGAAG
1 TCATACGAGCCATATAATGGGAAG
5994656 CTTATGTGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.35, C:0.16, G:0.27, T:0.22
Consensus pattern (25 bp):
TCATACGAGCCATATAATGGGAAGG
Found at i:5994789 original size:27 final size:26
Alignment explanation
Indices: 5994676--5994883 Score: 127
Period size: 25 Copynumber: 8.3 Consensus size: 26
5994666 CCATGTAACA
* *
5994676 GGAAGCTC-ATAAGAGCCATA-ATCA
1 GGAAGCTCAAGAAGAGCCATATATCG
* * *
5994700 AGAAGTTCAAG-AGAGCCA-ATATAG
1 GGAAGCTCAAGAAGAGCCATATATCG
*
5994724 GGAAGCTCCAG-AGAGCCAT-TAATCG
1 GGAAGCTCAAGAAGAGCCATAT-ATCG
* * * * *
5994749 GAAAGTTC-CGAAGATCCATATATCA
1 GGAAGCTCAAGAAGAGCCATATATCG
*
5994774 GGAAGCTCAAGAAAGAGCC-TTTAATCG
1 GGAAGCTCAAG-AAGAGCCATAT-ATCG
*
5994801 GGAAGCTC-CGAAGAGCCATATATCG
1 GGAAGCTCAAGAAGAGCCATATATCG
* *
5994826 GGAAGCTC-ATAAGAGCCATAAAT-G
1 GGAAGCTCAAGAAGAGCCATATATCG
* * *
5994850 GGAAACTC--GCAAGAACCATATAACG
1 GGAAGCTCAAG-AAGAGCCATATATCG
5994875 GGAAGCTCA
1 GGAAGCTCA
5994884 TGAGAGCTAA
Statistics
Matches: 140, Mismatches: 31, Indels: 24
0.72 0.16 0.12
Matches are distributed among these distances:
23 1 0.01
24 50 0.36
25 65 0.46
26 7 0.05
27 17 0.12
ACGTcount: A:0.39, C:0.20, G:0.24, T:0.17
Consensus pattern (26 bp):
GGAAGCTCAAGAAGAGCCATATATCG
Found at i:5994798 original size:52 final size:52
Alignment explanation
Indices: 5994711--5994883 Score: 164
Period size: 52 Copynumber: 3.4 Consensus size: 52
5994701 GAAGTTCAAG
* *
5994711 AGAGCCA-ATAT-AGGGAAGCTCCAG--AGAGCCATTAATCGGAAAGTTCCGA
1 AGAGCCATATATCA-GGAAGCTCAAGAAAGAGCCATTAATCGGAAAGCTCCGA
* * *
5994760 AGATCCATATATCAGGAAGCTCAAGAAAGAGCCTTTAATCGGGAAGCTCCGA
1 AGAGCCATATATCAGGAAGCTCAAGAAAGAGCCATTAATCGGAAAGCTCCGA
* * * *
5994812 AGAGCCATATATCGGGAAGCTC-A-TAAGAGCCATAAATGGGAAA-CT-CGCA
1 AGAGCCATATATCAGGAAGCTCAAGAAAGAGCCATTAATCGGAAAGCTCCG-A
* * *
5994861 AGAACCATATAACGGGAAGCTCA
1 AGAGCCATATATCAGGAAGCTCA
5994884 TGAGAGCTAA
Statistics
Matches: 104, Mismatches: 14, Indels: 11
0.81 0.11 0.09
Matches are distributed among these distances:
48 2 0.02
49 29 0.28
50 29 0.28
51 2 0.02
52 42 0.40
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.17
Consensus pattern (52 bp):
AGAGCCATATATCAGGAAGCTCAAGAAAGAGCCATTAATCGGAAAGCTCCGA
Found at i:5994825 original size:25 final size:25
Alignment explanation
Indices: 5994711--5994882 Score: 131
Period size: 25 Copynumber: 6.9 Consensus size: 25
5994701 GAAGTTCAAG
*
5994711 AGAGCCA-ATATAGGGAAGCTCC-A
1 AGAGCCATATATCGGGAAGCTCCGA
* *
5994734 GAGAGCCAT-TAATCGGAAAGTTCCGA
1 -AGAGCCATAT-ATCGGGAAGCTCCGA
* * *
5994760 AGATCCATATATCAGGAAGCTCAAGAA
1 AGAGCCATATATCGGGAAGCTC-CG-A
*
5994787 AGAGCC-TTTAATCGGGAAGCTCCGA
1 AGAGCCATAT-ATCGGGAAGCTCCGA
**
5994812 AGAGCCATATATCGGGAAGCTCATA
1 AGAGCCATATATCGGGAAGCTCCGA
* *
5994837 AGAGCCATAAAT-GGGAAACT-CGCA
1 AGAGCCATATATCGGGAAGCTCCG-A
* *
5994861 AGAACCATATAACGGGAAGCTC
1 AGAGCCATATATCGGGAAGCTC
5994883 ATGAGAGCTA
Statistics
Matches: 114, Mismatches: 23, Indels: 20
0.73 0.15 0.13
Matches are distributed among these distances:
24 25 0.22
25 64 0.56
26 8 0.07
27 17 0.15
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.17
Consensus pattern (25 bp):
AGAGCCATATATCGGGAAGCTCCGA
Found at i:5999699 original size:12 final size:12
Alignment explanation
Indices: 5999684--5999711 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
5999674 AATTAATAAC
5999684 AATATTATAATA
1 AATATTATAATA
5999696 AATATTATAATA
1 AATATTATAATA
5999708 AATA
1 AATA
5999712 ATTCTTGATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
AATATTATAATA
Found at i:6000425 original size:18 final size:17
Alignment explanation
Indices: 6000376--6000431 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 17
6000366 ATTAATTATA
*
6000376 ATATTTATGAATTTGAAT
1 ATATTTAT-AATTTTAAT
6000394 ATCATTTA-AA-TTTAAT
1 AT-ATTTATAATTTTAAT
*
6000410 ATATTTATATATTTTAAA
1 ATATTTATA-ATTTTAAT
6000428 ATAT
1 ATAT
6000432 AATAAATATA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
15 5 0.16
16 8 0.25
17 3 0.09
18 11 0.34
19 5 0.16
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.52
Consensus pattern (17 bp):
ATATTTATAATTTTAAT
Found at i:6000429 original size:25 final size:25
Alignment explanation
Indices: 6000401--6000448 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
6000391 AATATCATTT
* * *
6000401 AAATTTAATATATTTATATATTTTA
1 AAATATAATAAATATATATATTTTA
6000426 AAATATAATAAATATATATATTT
1 AAATATAATAAATATATATATTT
6000449 AGACTTAAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (25 bp):
AAATATAATAAATATATATATTTTA
Found at i:6007251 original size:23 final size:25
Alignment explanation
Indices: 6007207--6007252 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
6007197 TTTTCAAAAA
*
6007207 ATATATAATAATAAATTTAAATTTT
1 ATATATAATAATAAATTAAAATTTT
*
6007232 ATAT-TAATATTAAA-TAAAATT
1 ATATATAATAATAAATTAAAATT
6007253 AAAATCCCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 6 0.32
24 9 0.47
25 4 0.21
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
ATATATAATAATAAATTAAAATTTT
Found at i:6015042 original size:16 final size:17
Alignment explanation
Indices: 6015011--6015043 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
6015001 ACATTCCAAC
6015011 AAGAATTATTTAAATAA
1 AAGAATTATTTAAATAA
*
6015028 AAGAA-TATTTTAATAA
1 AAGAATTATTTAAATAA
6015044 TTTTTAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (17 bp):
AAGAATTATTTAAATAA
Found at i:6015689 original size:30 final size:31
Alignment explanation
Indices: 6015648--6015710 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 31
6015638 CGAGTGTATG
* *
6015648 TTAATTTTTAAATTTAG-TAATTATTTTTATA
1 TTAATTTTTAAA-TTAGACAATTATTTATATA
6015679 TTAA-TTTTAAATTAGACAATTATTTATATA
1 TTAATTTTTAAATTAGACAATTATTTATATA
6015709 TT
1 TT
6015711 GAGACTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 4 0.14
30 21 0.72
31 4 0.14
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (31 bp):
TTAATTTTTAAATTAGACAATTATTTATATA
Found at i:6031032 original size:27 final size:27
Alignment explanation
Indices: 6030966--6031020 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
6030956 CCCAAAACTG
6030966 TAAATACGTAATAGCAAAAGGTTCTCT
1 TAAATACGTAATAGCAAAAGGTTCTCT
*
6030993 TAAATACATAATAGCAAAAGGTTCTCT
1 TAAATACGTAATAGCAAAAGGTTCTCT
6031020 T
1 T
6031021 TTATTGGTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.31
Consensus pattern (27 bp):
TAAATACGTAATAGCAAAAGGTTCTCT
Found at i:6039878 original size:15 final size:14
Alignment explanation
Indices: 6039842--6039869 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6039832 TTAGTTGTAC
6039842 AATTTACCCTAATT
1 AATTTACCCTAATT
6039856 AATTTACCCTAATT
1 AATTTACCCTAATT
6039870 TTTTTTACCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.43
Consensus pattern (14 bp):
AATTTACCCTAATT
Found at i:6042831 original size:155 final size:155
Alignment explanation
Indices: 6042471--6042780 Score: 478
Period size: 155 Copynumber: 2.0 Consensus size: 155
6042461 TCTAGACTCA
* * * * * *
6042471 AAGGTTAGCTGAAAATTGGGAGGGTTTAGGCAAAAATATAGACCTAAAAATGGGCAAGGAATTGG
1 AAGGTTAGATGAAAATTGAGAGGGTTTAGGTAAAAATATAAACATAAAAAAGGGCAAGGAATTGG
* *
6042536 ACAAATTTCTTTTCGGCCTGGGCCCAGCCCAAATCACATGTTATATTTTTTTTTTGTATTTTCAA
66 ACAAATTTCTTTTCGGCCTGAGCCCAGCCCAAATCACATGCTATATTTTTTTTTTGTATTTTCAA
* *
6042601 TTTGTTGGGAAATATTTATTTTAAT
131 TTTGTTAGGAAACATTTATTTTAAT
* * * *
6042626 AAGGTTAGCTGAAAATTGGGAGGGTTTAGGTAAAAATATAAACCTAAAAAAGGGTAAGGAATTGG
1 AAGGTTAGATGAAAATTGAGAGGGTTTAGGTAAAAATATAAACATAAAAAAGGGCAAGGAATTGG
*
6042691 ACAAATTTCTTTTCGGCCTGAGCCCAGCGCAAATCACATGCTATA-TTTTTTTTTGTATTTTCAA
66 ACAAATTTCTTTTCGGCCTGAGCCCAGCCCAAATCACATGCTATATTTTTTTTTTGTATTTTCAA
6042755 TTTGTTAGGAAACATTTATTTTAAT
131 TTTGTTAGGAAACATTTATTTTAAT
6042780 A
1 A
6042781 TTTTTAATGT
Statistics
Matches: 146, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
154 43 0.29
155 103 0.71
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (155 bp):
AAGGTTAGATGAAAATTGAGAGGGTTTAGGTAAAAATATAAACATAAAAAAGGGCAAGGAATTGG
ACAAATTTCTTTTCGGCCTGAGCCCAGCCCAAATCACATGCTATATTTTTTTTTTGTATTTTCAA
TTTGTTAGGAAACATTTATTTTAAT
Found at i:6046202 original size:24 final size:24
Alignment explanation
Indices: 6046175--6046243 Score: 93
Period size: 24 Copynumber: 2.9 Consensus size: 24
6046165 AAGAAAGAGA
* *
6046175 TGGAGATGAAGATGAAGACGGGGG
1 TGGAGATGAAGATGAAGAAGAGGG
*
6046199 TGGAGATAAAGATGAAGAAGAGGG
1 TGGAGATGAAGATGAAGAAGAGGG
* *
6046223 TCGAGGTGAAGATGAAGAAGA
1 TGGAGATGAAGATGAAGAAGA
6046244 CGAAGATAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.41, C:0.03, G:0.43, T:0.13
Consensus pattern (24 bp):
TGGAGATGAAGATGAAGAAGAGGG
Found at i:6056131 original size:7 final size:7
Alignment explanation
Indices: 6056121--6056157 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
6056111 GGGTTTAAGC
6056121 TTTAATA
1 TTTAATA
**
6056128 TTTAAGC
1 TTTAATA
6056135 TTTAATA
1 TTTAATA
6056142 TTTAATA
1 TTTAATA
6056149 TTTAATA
1 TTTAATA
6056156 TT
1 TT
6056158 AGAGTTTGAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (7 bp):
TTTAATA
Found at i:6056133 original size:14 final size:14
Alignment explanation
Indices: 6056114--6056157 Score: 70
Period size: 14 Copynumber: 3.1 Consensus size: 14
6056104 ATATATAGGG
6056114 TTTAAGCTTTAATA
1 TTTAAGCTTTAATA
6056128 TTTAAGCTTTAATA
1 TTTAAGCTTTAATA
**
6056142 TTTAATATTTAATA
1 TTTAAGCTTTAATA
6056156 TT
1 TT
6056158 AGAGTTTGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.55
Consensus pattern (14 bp):
TTTAAGCTTTAATA
Found at i:6056138 original size:21 final size:21
Alignment explanation
Indices: 6056114--6056153 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6056104 ATATATAGGG
*
6056114 TTTAAGCTTTAATATTTAAGC
1 TTTAAGATTTAATATTTAAGC
*
6056135 TTTAATATTTAATATTTAA
1 TTTAAGATTTAATATTTAA
6056154 TATTAGAGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.53
Consensus pattern (21 bp):
TTTAAGATTTAATATTTAAGC
Found at i:6056491 original size:18 final size:19
Alignment explanation
Indices: 6056468--6056503 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
6056458 AATAAAACCC
*
6056468 AAAAAAT-ATCATTTATAT
1 AAAAAATAATCAATTATAT
6056486 AAAAAATAATCAATTATA
1 AAAAAATAATCAATTATA
6056504 ATTTGAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAAAATAATCAATTATAT
Found at i:6059134 original size:24 final size:24
Alignment explanation
Indices: 6059106--6059152 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
6059096 TGTTAATATT
*
6059106 AATAT-TCATTTG-TATGTTAAAA
1 AATATATCATTTGATATATTAAAA
6059128 AATATATCATTTGATATATTAAAA
1 AATATATCATTTGATATATTAAAA
6059152 A
1 A
6059153 TAATAATGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.23
23 7 0.32
24 10 0.45
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (24 bp):
AATATATCATTTGATATATTAAAA
Found at i:6064357 original size:39 final size:39
Alignment explanation
Indices: 6064298--6064398 Score: 157
Period size: 39 Copynumber: 2.6 Consensus size: 39
6064288 ATCGTGATCT
** *
6064298 GAAGCCCGAAATCTAGCTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
*
6064337 GCAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
*
6064376 GAAGCCCGGAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
6064399 TCATCAGAGC
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 56 1.00
ACGTcount: A:0.36, C:0.25, G:0.27, T:0.13
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
Found at i:6064380 original size:21 final size:21
Alignment explanation
Indices: 6064316--6064380 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
6064306 AAATCTAGCT
6064316 GAAGCACATAAGTGCTAAACG
1 GAAGCACATAAGTGCTAAACG
* ** *
6064337 GCAGC-CCGAAG-GCT-AACT
1 GAAGCACATAAGTGCTAAACG
6064355 GAAGCACATAAGTGCTAAACG
1 GAAGCACATAAGTGCTAAACG
6064376 GAAGC
1 GAAGC
6064381 CCGGAGGCTA
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
18 7 0.21
19 7 0.21
20 7 0.21
21 12 0.36
ACGTcount: A:0.38, C:0.23, G:0.26, T:0.12
Consensus pattern (21 bp):
GAAGCACATAAGTGCTAAACG
Found at i:6074187 original size:30 final size:30
Alignment explanation
Indices: 6074153--6074212 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
6074143 TAAGAGAAAG
6074153 TTATGCAAGAAACAAGGGTGTTATAAACTT
1 TTATGCAAGAAACAAGGGTGTTATAAACTT
6074183 TTATGCAAGAAACAAGGGTGTTATAAACTT
1 TTATGCAAGAAACAAGGGTGTTATAAACTT
6074213 GGAAATCAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.30
Consensus pattern (30 bp):
TTATGCAAGAAACAAGGGTGTTATAAACTT
Found at i:6083410 original size:29 final size:29
Alignment explanation
Indices: 6083364--6083431 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
6083354 CCTTGAAATT
***
6083364 TTTTGAAAATTTTTATTAGACCCTTTAAA
1 TTTTGAAAATTCACATTAGACCCTTTAAA
* * *
6083393 TTTTGAAAATTCACATTATACCTTTTAAT
1 TTTTGAAAATTCACATTAGACCCTTTAAA
*
6083422 TTTTTAAAAT
1 TTTTGAAAAT
6083432 ATTTTAATTA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.35, C:0.10, G:0.04, T:0.50
Consensus pattern (29 bp):
TTTTGAAAATTCACATTAGACCCTTTAAA
Found at i:6085544 original size:29 final size:30
Alignment explanation
Indices: 6085468--6085551 Score: 107
Period size: 30 Copynumber: 2.8 Consensus size: 30
6085458 ATTACATCAG
6085468 GGTTGCTCATACAAGCTAAATTTATATTAA
1 GGTTGCTCATACAAGCTAAATTTATATTAA
* * *
6085498 GATTGCTCACACAAGCTAATTTTATATT-A
1 GGTTGCTCATACAAGCTAAATTTATATTAA
* * *
6085527 GGTTGCTCGTACAGGCTAAACTTAT
1 GGTTGCTCATACAAGCTAAATTTAT
6085552 GTTACATATA
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
29 20 0.44
30 25 0.56
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (30 bp):
GGTTGCTCATACAAGCTAAATTTATATTAA
Found at i:6097901 original size:16 final size:16
Alignment explanation
Indices: 6097873--6097907 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
6097863 AGTAGATATT
6097873 TTATGTTAGTTATTTA
1 TTATGTTAGTTATTTA
6097889 TTATGCTTA-TTATTTA
1 TTATG-TTAGTTATTTA
6097905 TTA
1 TTA
6097908 CATTTCTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 15 0.83
17 3 0.17
ACGTcount: A:0.26, C:0.03, G:0.09, T:0.63
Consensus pattern (16 bp):
TTATGTTAGTTATTTA
Found at i:6099581 original size:6 final size:6
Alignment explanation
Indices: 6099566--6099609 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
6099556 TCCATTTCTC
* * * *
6099566 TTTATG TTTATT TTTATG TTTATT TTTATC TTTATC TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TT
6099610 GTCTTTCTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.75
Consensus pattern (6 bp):
TTTATT
Found at i:6099583 original size:12 final size:12
Alignment explanation
Indices: 6099566--6099606 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
6099556 TCCATTTCTC
6099566 TTTATGTTTATT
1 TTTATGTTTATT
6099578 TTTATGTTTATT
1 TTTATGTTTATT
* *
6099590 TTTATCTTTATC
1 TTTATGTTTATT
6099602 TTTAT
1 TTTAT
6099607 TTTGTCTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.17, C:0.05, G:0.05, T:0.73
Consensus pattern (12 bp):
TTTATGTTTATT
Found at i:6099593 original size:18 final size:18
Alignment explanation
Indices: 6099564--6099609 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
6099554 AGTCCATTTC
* *
6099564 TCTTTATGTTTATTTTTA
1 TCTTTATTTTTATCTTTA
*
6099582 TGTTTATTTTTATCTTTA
1 TCTTTATTTTTATCTTTA
6099600 TCTTTATTTT
1 TCTTTATTTT
6099610 GTCTTTCTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.15, C:0.07, G:0.04, T:0.74
Consensus pattern (18 bp):
TCTTTATTTTTATCTTTA
Found at i:6104066 original size:16 final size:16
Alignment explanation
Indices: 6104045--6104104 Score: 75
Period size: 16 Copynumber: 3.6 Consensus size: 16
6104035 AGAGGAGAGT
6104045 AAAAATAAATGAATAA
1 AAAAATAAATGAATAA
* **
6104061 AAAAATAAATTGAGTGTT
1 AAAAATAAA-TGAAT-AA
6104079 AAAAATAAATGAATAA
1 AAAAATAAATGAATAA
6104095 AAAAATAAAT
1 AAAAATAAAT
6104105 TGAGTGTTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
16 19 0.53
17 8 0.22
18 9 0.25
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.23
Consensus pattern (16 bp):
AAAAATAAATGAATAA
Found at i:6104082 original size:17 final size:18
Alignment explanation
Indices: 6104061--6104112 Score: 63
Period size: 16 Copynumber: 3.0 Consensus size: 18
6104051 AAATGAATAA
6104061 AAAAATAAATTGAGTGTT
1 AAAAATAAATTGAGTGTT
* **
6104079 AAAAATAAA-TGAAT-AA
1 AAAAATAAATTGAGTGTT
6104095 AAAAATAAATTGAGTGTT
1 AAAAATAAATTGAGTGTT
6104113 TATACCCAGT
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
16 9 0.35
17 8 0.31
18 9 0.35
ACGTcount: A:0.58, C:0.00, G:0.13, T:0.29
Consensus pattern (18 bp):
AAAAATAAATTGAGTGTT
Found at i:6104087 original size:34 final size:34
Alignment explanation
Indices: 6104044--6104112 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
6104034 GAGAGGAGAG
6104044 TAAAAATAAATGAATAAAAAAATAAATTGAGTGT
1 TAAAAATAAATGAATAAAAAAATAAATTGAGTGT
6104078 TAAAAATAAATGAATAAAAAAATAAATTGAGTGT
1 TAAAAATAAATGAATAAAAAAATAAATTGAGTGT
6104112 T
1 T
6104113 TATACCCAGT
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:0.61, C:0.00, G:0.12, T:0.28
Consensus pattern (34 bp):
TAAAAATAAATGAATAAAAAAATAAATTGAGTGT
Found at i:6105220 original size:38 final size:38
Alignment explanation
Indices: 6105132--6105251 Score: 134
Period size: 38 Copynumber: 3.1 Consensus size: 38
6105122 AAACCCAAAC
* * * *
6105132 ATAACACCAGCACGAAGCCTACGGGACTTTAAACTCAGAT
1 ATAATACCAGCACGAAGCCTGCGGGA-TTT-AACACGGAT
* *
6105172 ATAATACCAGCACTAGGCCTGCGGGATTTAACACGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACACGGAT
* * *
6105210 ATATTACCAGCACGAAGCCTGC-GGATTTAACCCGAAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACACGGAT
6105247 ATAAT
1 ATAAT
6105252 TCTAGCATAT
Statistics
Matches: 68, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
37 17 0.25
38 26 0.38
39 3 0.04
40 22 0.32
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (38 bp):
ATAATACCAGCACGAAGCCTGCGGGATTTAACACGGAT
Found at i:6108492 original size:28 final size:28
Alignment explanation
Indices: 6108437--6108492 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
6108427 TTCTCAATTG
*
6108437 TCCATTCTATATTTCTTTTAGTTCTATA
1 TCCATTCTATATTTCTTTTAATTCTATA
* *
6108465 TCCATTTTATATTTCTTTTAATTTTATA
1 TCCATTCTATATTTCTTTTAATTCTATA
6108493 ACATATTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.23, C:0.14, G:0.02, T:0.61
Consensus pattern (28 bp):
TCCATTCTATATTTCTTTTAATTCTATA
Found at i:6109792 original size:19 final size:18
Alignment explanation
Indices: 6109768--6109832 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 18
6109758 CACGAAGCGT
6109768 ATACTGGCACACAGAGTGC
1 ATACTGGCACACA-AGTGC
* **
6109787 ATACTGACACACAAAGCCC
1 ATACTGGCACAC-AAGTGC
*
6109806 ATACTAGCACACAAGGTGC
1 ATACTGGCACACAA-GTGC
*
6109825 ATCCTGGC
1 ATACTGGC
6109833 GCATAATCAT
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
18 2 0.06
19 32 0.91
20 1 0.03
ACGTcount: A:0.34, C:0.31, G:0.20, T:0.15
Consensus pattern (18 bp):
ATACTGGCACACAAGTGC
Found at i:6119348 original size:28 final size:28
Alignment explanation
Indices: 6119312--6119366 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
6119302 TGAAAAAATA
* * *
6119312 TGTGGAAGTTCGCCAGGACTATGTTATG
1 TGTGGAAGTCCGCCAGGAATATCTTATG
*
6119340 TGTGGAAGTCCGTCAGGAATATCTTAT
1 TGTGGAAGTCCGCCAGGAATATCTTAT
6119367 AAGTAAGATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.33
Consensus pattern (28 bp):
TGTGGAAGTCCGCCAGGAATATCTTATG
Found at i:6120975 original size:49 final size:49
Alignment explanation
Indices: 6120903--6121003 Score: 166
Period size: 49 Copynumber: 2.1 Consensus size: 49
6120893 TAAATTATGC
* * *
6120903 TATACATTTCTAAACTTGGTCTTCCACTGTCTACACTCTTATCACTATT
1 TATACATTGCTAAACTTAGTCTTCCACTATCTACACTCTTATCACTATT
*
6120952 TATACATTGCTAAATTTAGTCTTCCACTATCTACACTCTTATCACTATT
1 TATACATTGCTAAACTTAGTCTTCCACTATCTACACTCTTATCACTATT
6121001 TAT
1 TAT
6121004 CCCTTCTAGA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.27, C:0.25, G:0.05, T:0.44
Consensus pattern (49 bp):
TATACATTGCTAAACTTAGTCTTCCACTATCTACACTCTTATCACTATT
Found at i:6121637 original size:30 final size:30
Alignment explanation
Indices: 6121601--6121660 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
6121591 ACATCAAACA
6121601 TTCAAGACTTTCATTCATATCACACTTACC
1 TTCAAGACTTTCATTCATATCACACTTACC
*
6121631 TTCAAGACTTTCATTCATATCGCACTTACC
1 TTCAAGACTTTCATTCATATCACACTTACC
6121661 ATATTTGAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.28, C:0.30, G:0.05, T:0.37
Consensus pattern (30 bp):
TTCAAGACTTTCATTCATATCACACTTACC
Found at i:6121744 original size:25 final size:24
Alignment explanation
Indices: 6121692--6121745 Score: 67
Period size: 23 Copynumber: 2.2 Consensus size: 24
6121682 CTTCTAAAGT
6121692 TACC-AAATATGAAACTAAGCACA
1 TACCAAAATATGAAACTAAGCACA
*
6121715 TACCAAAATAT-AAACTAGGCTAGCA
1 TACCAAAATATGAAACTAAGC-A-CA
6121740 TACCAA
1 TACCAA
6121746 CATAACCTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 12 0.44
24 7 0.26
25 8 0.30
ACGTcount: A:0.50, C:0.22, G:0.09, T:0.19
Consensus pattern (24 bp):
TACCAAAATATGAAACTAAGCACA
Found at i:6122316 original size:15 final size:15
Alignment explanation
Indices: 6122276--6122317 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
6122266 CATCTCATAA
*
6122276 TCATCTCATA-TTTG
1 TCATCTCATATTTTC
*
6122290 TCATTTCGATATTTTC
1 TCATCTC-ATATTTTC
6122306 TCATCTCATATT
1 TCATCTCATATT
6122318 CATTTCTCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 6 0.26
15 8 0.35
16 9 0.39
ACGTcount: A:0.21, C:0.21, G:0.05, T:0.52
Consensus pattern (15 bp):
TCATCTCATATTTTC
Found at i:6126172 original size:18 final size:18
Alignment explanation
Indices: 6126145--6126190 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
6126135 TCCAAAACAG
6126145 TTTT-TATATGTCCATGA
1 TTTTATATATGTCCATGA
6126162 TTTTATATATGTCCATGA
1 TTTTATATATGTCCATGA
6126180 TTTTATATATG
1 TTTTATATATG
6126191 CATTATCATA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 4 0.14
18 24 0.86
ACGTcount: A:0.26, C:0.09, G:0.11, T:0.54
Consensus pattern (18 bp):
TTTTATATATGTCCATGA
Found at i:6126264 original size:13 final size:13
Alignment explanation
Indices: 6126246--6126292 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
6126236 TTTTGCTTTT
6126246 AATTAAAATTATA
1 AATTAAAATTATA
**
6126259 AATTAAAAAAATA
1 AATTAAAATTATA
*
6126272 ATTTAAGAATTATA
1 AATTAA-AATTATA
6126286 AATTAAA
1 AATTAAA
6126293 TTGTATTACT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
13 17 0.63
14 10 0.37
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (13 bp):
AATTAAAATTATA
Found at i:6127773 original size:12 final size:13
Alignment explanation
Indices: 6127750--6127778 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
6127740 ATTGTATGTA
6127750 TATATATAAATAG
1 TATATATAAATAG
6127763 TATAT-TAAATAG
1 TATATATAAATAG
6127775 TATA
1 TATA
6127779 AAAAGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (13 bp):
TATATATAAATAG
Found at i:6129199 original size:14 final size:15
Alignment explanation
Indices: 6129173--6129213 Score: 57
Period size: 14 Copynumber: 2.7 Consensus size: 15
6129163 ATGGGATGAA
*
6129173 AATAAATTTTTAATT
1 AATAAAATTTTAATT
6129188 AA-AAAATTTTAATT
1 AATAAAATTTTAATT
6129202 AATTAAAATTTT
1 AA-TAAAATTTT
6129214 CAAACCTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 13 0.57
15 2 0.09
16 8 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
AATAAAATTTTAATT
Found at i:6130468 original size:13 final size:13
Alignment explanation
Indices: 6130450--6130475 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6130440 AATCATGGTG
6130450 GCTGAACTAACTC
1 GCTGAACTAACTC
6130463 GCTGAACTAACTC
1 GCTGAACTAACTC
6130476 ATTGCTATGC
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:0.31, C:0.31, G:0.15, T:0.23
Consensus pattern (13 bp):
GCTGAACTAACTC
Found at i:6133987 original size:22 final size:21
Alignment explanation
Indices: 6133962--6134002 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
6133952 TAGTAAAAGG
* *
6133962 TACATATATAATTACTATATAT
1 TACATAAAAAATTA-TATATAT
6133984 TACATAAAAAATTATATAT
1 TACATAAAAAATTATATAT
6134003 TTAAAAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.41
Consensus pattern (21 bp):
TACATAAAAAATTATATATAT
Found at i:6135744 original size:20 final size:20
Alignment explanation
Indices: 6135696--6135735 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
6135686 ATTTAATATA
6135696 AATTATTTATAATTCGACTT
1 AATTATTTATAATTCGACTT
*
6135716 AATTATTTATAATTTGACTT
1 AATTATTTATAATTCGACTT
6135736 TATTTTTTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (20 bp):
AATTATTTATAATTCGACTT
Found at i:6137214 original size:9 final size:9
Alignment explanation
Indices: 6137200--6137225 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
6137190 TACCTTTACT
6137200 AATTTAAAA
1 AATTTAAAA
6137209 AATTTAAAA
1 AATTTAAAA
6137218 AATTTAAA
1 AATTTAAA
6137226 GGGCCTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (9 bp):
AATTTAAAA
Found at i:6150951 original size:28 final size:28
Alignment explanation
Indices: 6150920--6150976 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
6150910 ATTGGTTTTC
6150920 TCAAAATTCTATATTTTCATTTTTTAGT
1 TCAAAATTCTATATTTTCATTTTTTAGT
6150948 TCAAAATTCTATATTTTCATTTTTTAGT
1 TCAAAATTCTATATTTTCATTTTTTAGT
6150976 T
1 T
6150977 TTTGATATCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.28, C:0.11, G:0.04, T:0.58
Consensus pattern (28 bp):
TCAAAATTCTATATTTTCATTTTTTAGT
Found at i:6154475 original size:43 final size:42
Alignment explanation
Indices: 6154426--6154593 Score: 158
Period size: 43 Copynumber: 4.0 Consensus size: 42
6154416 GGTTATCGAG
*
6154426 ATGTGATGACATGTAAGACCATGTCTGGGACATTGGCATTAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTAT
** * *
6154468 ACTGTGATTATGTGTAAGACCATGTCTGGGATATTGGCATTGT
1 A-TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTAT
* * * * * * * *
6154511 ATTATGATTTCGTGCAAGACCCTGTCTGGAACAGTGGCATCGAT
1 A-TGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT-TAT
* * *
6154555 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCATT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATT
6154594 GTACGAGCTT
Statistics
Matches: 98, Mismatches: 26, Indels: 5
0.76 0.20 0.04
Matches are distributed among these distances:
42 7 0.07
43 89 0.91
44 2 0.02
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (42 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTAT
Found at i:6154585 original size:86 final size:85
Alignment explanation
Indices: 6154440--6154596 Score: 217
Period size: 86 Copynumber: 1.8 Consensus size: 85
6154430 GATGACATGT
* * * * ** *
6154440 AAGACCATGTCTGGGACATTGGCATTATACTGTGATTATGTGTAAGACCATGTCTGGGATATTGG
1 AAGACCATGTCTGGAACAGTGGCATGATACTGTGATAACATGTAAGACCATATCTGGGATA-TGG
6154505 CATTGTATTATGATTTCGTGC
65 CATTGTATTATGATTTCGTGC
*
6154526 AAGACCCTGTCTGGAACAGTGGCATCGATA-TGTGATAACATGTAAGACCATATCTGGGATATGG
1 AAGACCATGTCTGGAACAGTGGCAT-GATACTGTGATAACATGTAAGACCATATCTGGGATATGG
6154590 CATTGTA
65 CATTGTA
6154597 CGAGCTTATG
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
85 10 0.16
86 49 0.79
87 3 0.05
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.32
Consensus pattern (85 bp):
AAGACCATGTCTGGAACAGTGGCATGATACTGTGATAACATGTAAGACCATATCTGGGATATGGC
ATTGTATTATGATTTCGTGC
Found at i:6155563 original size:20 final size:20
Alignment explanation
Indices: 6155538--6155579 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
6155528 TTTGCAATTA
*
6155538 GCCTATTTTTGTCCACGCGG
1 GCCTATTTTTGTCCACACGG
6155558 GCCTATTTTTGTCCACACGG
1 GCCTATTTTTGTCCACACGG
6155578 GC
1 GC
6155580 GTGTGTCCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.12, C:0.31, G:0.24, T:0.33
Consensus pattern (20 bp):
GCCTATTTTTGTCCACACGG
Found at i:6159075 original size:28 final size:28
Alignment explanation
Indices: 6159044--6159112 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 28
6159034 AATTTTGGGT
* **
6159044 AAAACTATAAAATTTGGAAAAT-AGGGAC
1 AAAACTATAAAATCTAAAAAATAAGGG-C
* *
6159072 AAAATTGTAAAATCTAAAAAATAAGGGC
1 AAAACTATAAAATCTAAAAAATAAGGGC
6159100 AAAACTATAAAAT
1 AAAACTATAAAAT
6159113 AAAAAAGGGA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
28 29 0.88
29 4 0.12
ACGTcount: A:0.58, C:0.07, G:0.13, T:0.22
Consensus pattern (28 bp):
AAAACTATAAAATCTAAAAAATAAGGGC
Found at i:6159118 original size:28 final size:28
Alignment explanation
Indices: 6159061--6159118 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 28
6159051 TAAAATTTGG
* * **
6159061 AAAATAGGGACAAAATTGTAAAATCTAA
1 AAAATAGGGACAAAACTATAAAATAAAA
6159089 AAAATAAGGG-CAAAACTATAAAATAAAA
1 AAAAT-AGGGACAAAACTATAAAATAAAA
6159117 AA
1 AA
6159119 GGGAAAATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
28 21 0.84
29 4 0.16
ACGTcount: A:0.64, C:0.07, G:0.12, T:0.17
Consensus pattern (28 bp):
AAAATAGGGACAAAACTATAAAATAAAA
Found at i:6159130 original size:22 final size:24
Alignment explanation
Indices: 6159089--6159132 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
6159079 TAAAATCTAA
6159089 AAAATAAGGGCAAAACTATAAAAT
1 AAAATAAGGGCAAAACTATAAAAT
*
6159113 AAAA-AAGGG-AAAATTATAAA
1 AAAATAAGGGCAAAACTATAAA
6159133 TTTGAGAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 5 0.26
24 4 0.21
ACGTcount: A:0.66, C:0.05, G:0.14, T:0.16
Consensus pattern (24 bp):
AAAATAAGGGCAAAACTATAAAAT
Found at i:6162611 original size:11 final size:9
Alignment explanation
Indices: 6162586--6162610 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
6162576 TAATATATAT
6162586 CTATATACA
1 CTATATACA
6162595 CTATATACA
1 CTATATACA
6162604 CTATATA
1 CTATATA
6162611 TTTGCATCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.20, G:0.00, T:0.36
Consensus pattern (9 bp):
CTATATACA
Found at i:6173353 original size:12 final size:12
Alignment explanation
Indices: 6173336--6173370 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
6173326 TTTAACTCTC
6173336 TCTTCTTTTTCT
1 TCTTCTTTTTCT
6173348 TCTTCTTTTTCT
1 TCTTCTTTTTCT
*
6173360 TTTTGCTTTTT
1 TCTT-CTTTTT
6173371 TTCCTCCTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 15 0.71
13 6 0.29
ACGTcount: A:0.00, C:0.20, G:0.03, T:0.77
Consensus pattern (12 bp):
TCTTCTTTTTCT
Found at i:6179045 original size:69 final size:69
Alignment explanation
Indices: 6178966--6179103 Score: 276
Period size: 69 Copynumber: 2.0 Consensus size: 69
6178956 CTTAAACCGA
6178966 CATCATTTTTACATCCCAATCCTATAGGTTTTTTTTTTTAATTGGGTTTTGCGGTGGGTCAGGTT
1 CATCATTTTTACATCCCAATCCTATAGGTTTTTTTTTTTAATTGGGTTTTGCGGTGGGTCAGGTT
6179031 GACT
66 GACT
6179035 CATCATTTTTACATCCCAATCCTATAGGTTTTTTTTTTTAATTGGGTTTTGCGGTGGGTCAGGTT
1 CATCATTTTTACATCCCAATCCTATAGGTTTTTTTTTTTAATTGGGTTTTGCGGTGGGTCAGGTT
6179100 GACT
66 GACT
6179104 TTTTATTGAA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.17, C:0.16, G:0.20, T:0.46
Consensus pattern (69 bp):
CATCATTTTTACATCCCAATCCTATAGGTTTTTTTTTTTAATTGGGTTTTGCGGTGGGTCAGGTT
GACT
Found at i:6179621 original size:5 final size:5
Alignment explanation
Indices: 6179613--6179645 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
6179603 ATACTATATG
6179613 TATAA TATAA TATAA TATAA TATAA TATAA TAT
1 TATAA TATAA TATAA TATAA TATAA TATAA TAT
6179646 TCTAATTTCT
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:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:6181066 original size:14 final size:14
Alignment explanation
Indices: 6181022--6181057 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
6181012 AATTATCCCG
6181022 AAAAA-AAAA-AAA
1 AAAAACAAAACAAA
6181034 AAAAACAAAACAAA
1 AAAAACAAAACAAA
6181048 AAAAACAAAA
1 AAAAACAAAA
6181058 GAAGGAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 5 0.23
13 4 0.18
14 13 0.59
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAACAAAACAAA
Found at i:6184036 original size:47 final size:47
Alignment explanation
Indices: 6183967--6184061 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
6183957 GAAATGGGAC
6183967 ATAGTTCATTTGTATAATGGGAAAGAATTAGCAATGAAAAGCTCAGA
1 ATAGTTCATTTGTATAATGGGAAAGAATTAGCAATGAAAAGCTCAGA
6184014 ATAGTTCATTTGTATAATGGGAAAGAATTAGCAATGAAAAGCTCAGA
1 ATAGTTCATTTGTATAATGGGAAAGAATTAGCAATGAAAAGCTCAGA
6184061 A
1 A
6184062 GGTGATTCAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.43, C:0.08, G:0.21, T:0.27
Consensus pattern (47 bp):
ATAGTTCATTTGTATAATGGGAAAGAATTAGCAATGAAAAGCTCAGA
Found at i:6187568 original size:6 final size:6
Alignment explanation
Indices: 6187554--6187596 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
6187544 TTATCGTATG
* * *
6187554 AATTAA AATTTA AA-TAA TATAAA AATTAA AATTAA AATTAA AA
1 AATTAA AATTAA AATTAA AATTAA AATTAA AATTAA AATTAA AA
6187597 ATATAGATTA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
5 3 0.10
6 27 0.90
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AATTAA
Found at i:6187711 original size:18 final size:19
Alignment explanation
Indices: 6187688--6187724 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
6187678 AGTCAAGATT
*
6187688 AAAAATTTAAA-ATTAAAA
1 AAAAATTCAAAGATTAAAA
6187706 AAAAATTCAAAGATTAAAA
1 AAAAATTCAAAGATTAAAA
6187725 TAGATTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.24
Consensus pattern (19 bp):
AAAAATTCAAAGATTAAAA
Found at i:6187931 original size:19 final size:19
Alignment explanation
Indices: 6187907--6187959 Score: 60
Period size: 15 Copynumber: 3.0 Consensus size: 19
6187897 AATTTATGTC
6187907 ATTTAAATATCATACGAAA
1 ATTTAAATATCATACGAAA
* *
6187926 ATTTAAAT-TTATAC---C
1 ATTTAAATATCATACGAAA
6187941 ATTTAAATATCATACGAAA
1 ATTTAAATATCATACGAAA
6187960 GCTCTAACTA
Statistics
Matches: 26, Mismatches: 4, Indels: 8
0.68 0.11 0.21
Matches are distributed among these distances:
15 8 0.31
16 5 0.19
18 5 0.19
19 8 0.31
ACGTcount: A:0.49, C:0.11, G:0.04, T:0.36
Consensus pattern (19 bp):
ATTTAAATATCATACGAAA
Found at i:6187932 original size:34 final size:34
Alignment explanation
Indices: 6187889--6187959 Score: 124
Period size: 34 Copynumber: 2.1 Consensus size: 34
6187879 GCAGAATGAT
**
6187889 AAAATTTAAATTTATGTCATTTAAATATCATACG
1 AAAATTTAAATTTATACCATTTAAATATCATACG
6187923 AAAATTTAAATTTATACCATTTAAATATCATACG
1 AAAATTTAAATTTATACCATTTAAATATCATACG
6187957 AAA
1 AAA
6187960 GCTCTAACTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.48, C:0.10, G:0.04, T:0.38
Consensus pattern (34 bp):
AAAATTTAAATTTATACCATTTAAATATCATACG
Found at i:6190430 original size:9 final size:9
Alignment explanation
Indices: 6190410--6190467 Score: 55
Period size: 9 Copynumber: 6.2 Consensus size: 9
6190400 TGAGATAATT
6190410 TTTTTATGTA
1 TTTTTAT-TA
6190420 TTTTTATTA
1 TTTTTATTA
6190429 TTTTTAATATA
1 TTTTT-AT-TA
*
6190440 TTATTATT-
1 TTTTTATTA
*
6190448 TTTTTAATA
1 TTTTTATTA
*
6190457 TTTTTAATA
1 TTTTTATTA
6190466 TT
1 TT
6190468 AATATAAATT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
8 6 0.14
9 19 0.45
10 11 0.26
11 6 0.14
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.71
Consensus pattern (9 bp):
TTTTTATTA
Found at i:6190457 original size:17 final size:18
Alignment explanation
Indices: 6190407--6190458 Score: 61
Period size: 20 Copynumber: 2.8 Consensus size: 18
6190397 ATATGAGATA
* *
6190407 ATTTTTTTATGTATTTTT
1 ATTTTTTTATATATTATT
6190425 ATTATTTTTAATATATTATT
1 ATT-TTTTT-ATATATTATT
6190445 ATTTTTTTA-ATATT
1 ATTTTTTTATATATT
6190459 TTTAATATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.13
19 10 0.33
20 11 0.37
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (18 bp):
ATTTTTTTATATATTATT
Found at i:6190467 original size:20 final size:20
Alignment explanation
Indices: 6190407--6190467 Score: 56
Period size: 19 Copynumber: 3.1 Consensus size: 20
6190397 ATATGAGATA
*
6190407 ATTTTTTTATGTATTTTT-AT
1 ATTTTTTTA-ATATTTTTAAT
* * *
6190427 -TATTTTTAATA-TATTATT
1 ATTTTTTTAATATTTTTAAT
6190445 ATTTTTTTAATATTTTTAAT
1 ATTTTTTTAATATTTTTAAT
6190465 ATT
1 ATT
6190468 AATATAAATT
Statistics
Matches: 31, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
17 3 0.10
18 3 0.10
19 17 0.55
20 8 0.26
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (20 bp):
ATTTTTTTAATATTTTTAAT
Found at i:6190479 original size:28 final size:28
Alignment explanation
Indices: 6190419--6190479 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
6190409 TTTTTTATGT
* * *
6190419 ATTTTTATTATTTTTAATATATTATTAT
1 ATTTTTAATATTTTTAATATAATATTAA
*
6190447 TTTTTTAATATTTTTAATATTAATA-TAA
1 ATTTTTAATATTTTTAATA-TAATATTAA
6190475 ATTTT
1 ATTTT
6190480 ATTATCAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
28 23 0.85
29 4 0.15
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (28 bp):
ATTTTTAATATTTTTAATATAATATTAA
Found at i:6197454 original size:30 final size:30
Alignment explanation
Indices: 6197418--6197484 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 30
6197408 ACGTGGAGGA
* *
6197418 CTTAATTATTTTTTTA-TTATTTTATG-ATGG
1 CTTAATT-TATTTTTAGTTATTTTA-GAAGGG
6197448 CTTAATTTATTTTTAGTTATTTTAGAAGGG
1 CTTAATTTATTTTTAGTTATTTTAGAAGGG
6197478 CTTAATT
1 CTTAATT
6197485 GAGTTAGGGA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 8 0.24
30 25 0.76
ACGTcount: A:0.25, C:0.04, G:0.12, T:0.58
Consensus pattern (30 bp):
CTTAATTTATTTTTAGTTATTTTAGAAGGG
Found at i:6201991 original size:13 final size:13
Alignment explanation
Indices: 6201973--6201998 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6201963 CTGTGCACCC
6201973 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
6201986 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
6201999 ACAAATCCCT
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:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
TTAGTTTAGTTAA
Found at i:6215051 original size:13 final size:13
Alignment explanation
Indices: 6215035--6215061 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6215025 TTAAAAATAT
6215035 AAAGGTTAAATTG
1 AAAGGTTAAATTG
6215048 AAAGGTTAAATTG
1 AAAGGTTAAATTG
6215061 A
1 A
6215062 GTACAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.22, T:0.30
Consensus pattern (13 bp):
AAAGGTTAAATTG
Found at i:6220445 original size:24 final size:24
Alignment explanation
Indices: 6220418--6220468 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
6220408 CTCGAAACCA
* *
6220418 GACTCAGAGTCGGAGCTGAAGCCG
1 GACTCAGAGTCAGAGCCGAAGCCG
*
6220442 GACTCGGAGTCAGAGCCGAAGCCG
1 GACTCAGAGTCAGAGCCGAAGCCG
6220466 GAC
1 GAC
6220469 GTGGATCCTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.27, G:0.37, T:0.10
Consensus pattern (24 bp):
GACTCAGAGTCAGAGCCGAAGCCG
Found at i:6224003 original size:24 final size:24
Alignment explanation
Indices: 6223975--6224026 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
6223965 TTAGCAAGTC
* *
6223975 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
6223999 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
6224023 AAAT
1 AAAT
6224027 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:6230336 original size:11 final size:11
Alignment explanation
Indices: 6230320--6230346 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
6230310 ACATGCCCAA
6230320 GTGTCTAGGCC
1 GTGTCTAGGCC
6230331 GTGTCTAGGCC
1 GTGTCTAGGCC
6230342 GTGTC
1 GTGTC
6230347 AAAACTGTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.07, C:0.26, G:0.37, T:0.30
Consensus pattern (11 bp):
GTGTCTAGGCC
Found at i:6244398 original size:21 final size:20
Alignment explanation
Indices: 6244374--6244413 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
6244364 CATGTATTTT
6244374 AATGATTGATGATAGATTATG
1 AATGATTGATGATAG-TTATG
*
6244395 AATGTTTGATGATAGTTAT
1 AATGATTGATGATAGTTAT
6244414 ACAAGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (20 bp):
AATGATTGATGATAGTTATG
Found at i:6244421 original size:20 final size:21
Alignment explanation
Indices: 6244379--6244421 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
6244369 ATTTTAATGA
*
6244379 TTGATGATAGATTATGAATGT
1 TTGATGATAGATTATGAAAGT
6244400 TTGATGATAG-TTAT-ACAAGT
1 TTGATGATAGATTATGA-AAGT
6244420 TT
1 TT
6244422 TGTTAAGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 9 0.45
21 10 0.50
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (21 bp):
TTGATGATAGATTATGAAAGT
Found at i:6256619 original size:6 final size:6
Alignment explanation
Indices: 6256608--6256648 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
6256598 AAAATTGAAA
6256608 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
6256649 GATAAAAGGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:6262043 original size:13 final size:13
Alignment explanation
Indices: 6262025--6262053 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
6262015 GGTTGTTTAT
6262025 TAAACTAATTAAC
1 TAAACTAATTAAC
6262038 TAAACTAATTAAC
1 TAAACTAATTAAC
6262051 TAA
1 TAA
6262054 TTAAACTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:6268892 original size:16 final size:17
Alignment explanation
Indices: 6268861--6268894 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
6268851 GTATTCTTTC
6268861 TGTAAACAACCTTTCCT
1 TGTAAACAACCTTTCCT
*
6268878 TGTAAA-AATCTTTCCT
1 TGTAAACAACCTTTCCT
6268894 T
1 T
6268895 TTCTTTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.29, C:0.24, G:0.06, T:0.41
Consensus pattern (17 bp):
TGTAAACAACCTTTCCT
Found at i:6274284 original size:18 final size:18
Alignment explanation
Indices: 6274233--6274285 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
6274223 GATAAATCCT
*
6274233 AATCAAGGATTTACTACC
1 AATCAAGGATTTACTCCC
*
6274251 AATCAAGGATTGACTCCC
1 AATCAAGGATTTACTCCC
*
6274269 AATCAGGGATTTACTCC
1 AATCAAGGATTTACTCC
6274286 TATATTAACA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (18 bp):
AATCAAGGATTTACTCCC
Found at i:6275961 original size:16 final size:17
Alignment explanation
Indices: 6275930--6275963 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
6275920 GCATTCTCTC
6275930 TGTAAACAACCTTTCCT
1 TGTAAACAACCTTTCCT
*
6275947 TGTAAA-AATCTTTCCT
1 TGTAAACAACCTTTCCT
6275963 T
1 T
6275964 TTCTTTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.29, C:0.24, G:0.06, T:0.41
Consensus pattern (17 bp):
TGTAAACAACCTTTCCT
Found at i:6278348 original size:38 final size:38
Alignment explanation
Indices: 6278297--6278491 Score: 284
Period size: 38 Copynumber: 5.1 Consensus size: 38
6278287 AAAGGCCCAA
* *
6278297 ATATAATACCAGCACTAGGCCTGCGAGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGAGATTTAACCCGG
*
6278335 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGAGATTTAACCCGG
* * *
6278373 ATATATTACCAACACGAAACCTGCGAGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGAGATTTAACCCGG
6278411 ATATAATACCAGCACGAAGCCTGC-AGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGA-GATTTAACCCGG
* * * *
6278449 ATATATTACTAGTACGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGAGATTTAACCCGG
6278487 ATATA
1 ATATA
6278492 CGTCGAATAT
Statistics
Matches: 141, Mismatches: 14, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
37 1 0.01
38 140 0.99
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.22
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGAGATTTAACCCGG
Found at i:6283100 original size:39 final size:40
Alignment explanation
Indices: 6283010--6283112 Score: 172
Period size: 39 Copynumber: 2.6 Consensus size: 40
6283000 CTCTTCATAG
*
6283010 AAGTACACAATCACCCAAAATACATTTCTTTTTTGTAATC
1 AAGTACACAATCACCCAAAATACATTTCTTTTCTGTAATC
*
6283050 AAGTACGCAATCACCCAAAATACATTTC-TTTCTGTAATC
1 AAGTACACAATCACCCAAAATACATTTCTTTTCTGTAATC
*
6283089 AAGTACACAATCACCCAAATTACA
1 AAGTACACAATCACCCAAAATACA
6283113 ATTTAATCTT
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
39 32 0.54
40 27 0.46
ACGTcount: A:0.40, C:0.25, G:0.06, T:0.29
Consensus pattern (40 bp):
AAGTACACAATCACCCAAAATACATTTCTTTTCTGTAATC
Found at i:6286374 original size:76 final size:77
Alignment explanation
Indices: 6286250--6286397 Score: 210
Period size: 76 Copynumber: 1.9 Consensus size: 77
6286240 TTGCTAGTCT
* *
6286250 GTTGAAGACACCCGTTGAAAACAATAAGAAAAAATGTGAGCCTATCAAAGGTGCAAGCTCAGCCT
1 GTTGAAGACACCCGTTGAAAACAATAAGAAAAAATGCGAACCTATCAAAGGTGCAAGCTCAGCCT
6286315 AGTGCGATTAGA
66 AGTGCGATTAGA
* * * * *
6286327 GTTGAAGACACCTGTT-AAAGA-AGTAAGAAAAAATGCGAACTTGTCAAATGTGCAAGCTCAGCC
1 GTTGAAGACACCCGTTGAAA-ACAATAAGAAAAAATGCGAACCTATCAAAGGTGCAAGCTCAGCC
6286390 TAGTGCGA
65 TAGTGCGA
6286398 GCAGAAAAGT
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
76 47 0.75
77 16 0.25
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.20
Consensus pattern (77 bp):
GTTGAAGACACCCGTTGAAAACAATAAGAAAAAATGCGAACCTATCAAAGGTGCAAGCTCAGCCT
AGTGCGATTAGA
Found at i:6307339 original size:26 final size:27
Alignment explanation
Indices: 6307280--6307331 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
6307270 TATTTAACAT
* *
6307280 ATTATTTATTTGAAATTTGCTTTATAA
1 ATTATTTATTTCAAATTTGATTTATAA
*
6307307 ACTATTTATTTCAAA-TTGATTTATA
1 ATTATTTATTTCAAATTTGATTTATA
6307332 CTTTATTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.54
Consensus pattern (27 bp):
ATTATTTATTTCAAATTTGATTTATAA
Found at i:6307354 original size:23 final size:22
Alignment explanation
Indices: 6307311--6307354 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
6307301 TTATAAACTA
* *
6307311 TTTATTTCAAATTGATTTATAC
1 TTTATTTAAAATTGATATATAC
*
6307333 TTTATTTTAAAATTTATATATA
1 TTTA-TTTAAAATTGATATATA
6307355 TTGCTTATTC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (22 bp):
TTTATTTAAAATTGATATATAC
Found at i:6307412 original size:27 final size:27
Alignment explanation
Indices: 6307376--6307427 Score: 88
Period size: 27 Copynumber: 1.9 Consensus size: 27
6307366 GAACTGTTTC
6307376 ATATATTA-TTATTTTAAACCTTTTTTT
1 ATATATTATTTATTTTAAA-CTTTTTTT
6307403 ATATATTATTTATTTTAAACTTTTT
1 ATATATTATTTATTTTAAACTTTTT
6307428 ATTTTACACT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
27 14 0.58
28 10 0.42
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (27 bp):
ATATATTATTTATTTTAAACTTTTTTT
Found at i:6307428 original size:25 final size:25
Alignment explanation
Indices: 6307333--6307429 Score: 88
Period size: 25 Copynumber: 3.8 Consensus size: 25
6307323 TGATTTATAC
* * *
6307333 TTTATTTTAAAATTTATATATATTG
1 TTTATTTTAAACTTTTTATATATTA
* * * *
6307358 CTTATTCTGAACTGTTTCATATATTA
1 TTTATTTTAAACT-TTTTATATATTA
6307384 -TTATTTTAAACCTTTTTTTATATATTA
1 TTTATTTTAAA-C--TTTTTATATATTA
6307411 TTTATTTTAAACTTTTTAT
1 TTTATTTTAAACTTTTTAT
6307430 TTTACACTTT
Statistics
Matches: 57, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
25 24 0.42
26 10 0.18
27 12 0.21
28 11 0.19
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (25 bp):
TTTATTTTAAACTTTTTATATATTA
Found at i:6307430 original size:14 final size:14
Alignment explanation
Indices: 6307384--6307439 Score: 53
Period size: 14 Copynumber: 4.0 Consensus size: 14
6307374 TCATATATTA
6307384 TTATTTTAAACCTTT
1 TTATTTTAAA-CTTT
* *
6307399 TT-TTATATA-TTAT
1 TTATTTTAAACTT-T
6307412 TTATTTTAAACTTT
1 TTATTTTAAACTTT
*
6307426 TTATTTTACACTTT
1 TTATTTTAAACTTT
6307440 AATTGGTTTC
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
12 2 0.06
13 3 0.09
14 24 0.73
15 4 0.12
ACGTcount: A:0.27, C:0.09, G:0.00, T:0.64
Consensus pattern (14 bp):
TTATTTTAAACTTT
Found at i:6308232 original size:130 final size:126
Alignment explanation
Indices: 6308084--6308415 Score: 382
Period size: 130 Copynumber: 2.6 Consensus size: 126
6308074 GATGTTTAAT
* * *
6308084 GTTTAGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGTTCAAAATGA
1 GTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTGCAATTTCCCGTTTGTTC-AAATAA
* * * *
6308149 TCGAATATTCCTTTGGAATTTCACTTATGTTTTAAAAATTCCTTAAAACGAAGGCAACGTTCAAA
65 TCGAATATTCCTTTAGAATATCACTCATGTTTTAAAAATT-C-TAAAAC-AAGACAACGTTCAAA
* *
6308214 GTTTGGAAATTTGGGGAATCGTGCCCTATCGTGCTGGGTTGCAATTTCCCGTTTGTTCAAATAAT
1 GTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTGCAATTTCCCGTTTGTTCAAATAAT
** * *
6308279 CGAATATTCCTTTAGAATATCACTCATGTTTTCTAAATTCTAAAACAAGACAATGTTCAAC
66 CGAATATTCCTTTAGAATATCACTCATGTTTTAAAAATTCTAAAACAAGACAACGTTCAAA
* * * * * * * ** *
6308340 GTTTAGG-AATCCGAGAAAACGTGCCCTA-CGTGCTGGATTTCGATTTACCGTTTGACCAAACAA
1 GTTT-GGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTGCAATTTCCCGTTTGTTCAAATAA
*
6308403 CCGAATA-TCCTTT
65 TCGAATATTCCTTT
6308416 TAAAAAATTT
Statistics
Matches: 175, Mismatches: 26, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
124 6 0.03
125 34 0.19
126 32 0.18
127 8 0.05
128 1 0.01
129 40 0.23
130 54 0.31
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (126 bp):
GTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTGCAATTTCCCGTTTGTTCAAATAAT
CGAATATTCCTTTAGAATATCACTCATGTTTTAAAAATTCTAAAACAAGACAACGTTCAAA
Found at i:6312087 original size:43 final size:43
Alignment explanation
Indices: 6312018--6312099 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 43
6312008 TCTTTCAATT
* * * * *
6312018 TCATACCGTACAAACAATTATTCTTAGATTCTTTTATTCATGA
1 TCATACCATACAAACAATCATCCTTAGAATCATTTATTCATGA
*
6312061 TCATACCATACAAATAATCATCCTTAGAATCATTTATTC
1 TCATACCATACAAACAATCATCCTTAGAATCATTTATTC
6312100 TTTGGCATCT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 33 1.00
ACGTcount: A:0.35, C:0.21, G:0.05, T:0.39
Consensus pattern (43 bp):
TCATACCATACAAACAATCATCCTTAGAATCATTTATTCATGA
Found at i:6315434 original size:45 final size:45
Alignment explanation
Indices: 6315345--6315852 Score: 203
Period size: 45 Copynumber: 11.4 Consensus size: 45
6315335 GCCACCATCC
* * * * * *
6315345 TATCTCCCT-AAGTTGTAGTGGAGTAGGCTGAAGATTA-TAGATCT
1 TATCTCTCTGAAGTTGCAGTGGAGTAGACTGAAGA-TAGCAAACCT
* * * *
6315389 TGTCTCTCTGAAGTTGCAGTAGAGTACACTGAAGATAGCAAATCT
1 TATCTCTCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAACCT
* * * * * * * * *
6315434 TATCTCTCCGAAATTACAGTAGAGCAGAGTTAAAGCTA-TAAACCT
1 TATCTCTCTGAAGTTGCAGTGGAGTAGA-CTGAAGATAGCAAACCT
* * * * * *
6315479 TATCCCCCTAAAGGTACAGTGGAGTAGACTAAAGATAGCAAACCT
1 TATCTCTCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAACCT
* * * * * * **
6315524 TATCCCCCTGAAGTTGCAGTGGGGCA-AGTTGAAGTTA-CAAGTCT
1 TATCTCTCTGAAGTTGCAGTGGAGTAGA-CTGAAGATAGCAAACCT
*
6315568 TATCT-TCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAGACCT
1 TATCTCT-CTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAACCT
* ** ***
6315613 TATCTCTCTGAAGTTGCAGTGGAGCAGGTTGAA-ATTA-CAAGTAT
1 TATCTCTCTGAAGTTGCAGTGGAGTAGACTGAAGA-TAGCAAACCT
* **
6315657 TA--TCTCTGAAGTTGCAGT--AG-AG-CAGATCATAGCAAACCT
1 TATCTCTCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAACCT
* * ** * * *
6315696 TATTTCTCTGAAGTTGCAATGGAACAGATTGAAGCTATAAATCACAGATCT
1 TATCTCTCTGAAGTTGCAGTGGAGTAGACTGAAG--AT--AGCA-A-ACCT
* * *
6315747 TATTTCTCTGAAGTTGTAGTGGAGTAG-GTCGAA-ATTA-CAAACCT
1 TATCTCTCTGAAGTTGCAGTGGAGTAGACT-GAAGA-TAGCAAACCT
* * * * *
6315791 CATCT-TCCTGAAGTTGCAGTGGAGCAG-GTTAAAATAGCAAGA-CT
1 TATCTCT-CTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAA-ACCT
6315835 TATCTC-CTCGAAGTTGCA
1 TATCTCTCT-GAAGTTGCA
6315853 ATAGAGCATA
Statistics
Matches: 350, Mismatches: 82, Indels: 64
0.71 0.17 0.13
Matches are distributed among these distances:
38 4 0.01
39 9 0.03
40 2 0.01
41 15 0.04
42 16 0.05
43 8 0.02
44 103 0.29
45 145 0.41
46 9 0.03
47 3 0.01
48 1 0.00
49 4 0.01
50 2 0.01
51 29 0.08
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (45 bp):
TATCTCTCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAACCT
Found at i:6315434 original size:132 final size:132
Alignment explanation
Indices: 6314725--6315408 Score: 1039
Period size: 132 Copynumber: 5.2 Consensus size: 132
6314715 AATTCTACAA
* * * *
6314725 ATCTTGCCTCCCTGAAGTTACAGTGAAGCAGATCGAAGACGGCAGATCTTGTCTTCCTGAAGTTG
1 ATCTTGCCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGCAAATCTTGTCTTTCTGAAGTTG
6314790 CAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGA
66 CAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATT-A
*
6314855 -AA
130 TAG
*
6314857 ATCTTGCCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGCGAATCTTGTC-TTCTTGAAGTT
1 ATCTTGCCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGCAAATCTTGTCTTTC-TGAAGTT
* * *
6314921 GCAGTGAAGTAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTA
65 GCAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTA
6314986 TAG
130 TAG
* * * * * * *
6314989 ATCCTGTCTCCCTGAAGTTGCAGTAGAGCAGATCGAAGATGGCGAATCTTGTCTTCCTGAAGTTA
1 ATCTTGCCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGCAAATCTTGTCTTTCTGAAGTTG
* * *
6315054 CAGTGAAGCGGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAACATTGT
66 CAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTAT
6315119 AG
131 AG
* * *
6315121 ATCTTGCCTCCCTGAAGTTGCAGTGGAGCAGATCAAAGACGACAGATCTTGTCTTTCTGAAGTTG
1 ATCTTGCCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGCAAATCTTGTCTTTCTGAAGTTG
* * *
6315186 CAGTGAAGTAGATTTAAGCCACCATCCTATCTCCCTAAGAAGTAGTGGAGTAGGTTAAAGATTGT
66 CAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTAT
6315251 AG
131 AG
* *
6315253 ATCTTGCCTCACTGAAGTTGCAGTGGAGCAGATCGAATACGGCAAATCTTGTCTTTCTGAAGTTG
1 ATCTTGCCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGCAAATCTTGTCTTTCTGAAGTTG
** * *
6315318 CAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAGTTGTAGTGGAGTAGGCTGAAGATTAT
66 CAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTAT
6315383 AG
131 AG
* *
6315385 ATCTTGTCTCTCTGAAGTTGCAGT
1 ATCTTGCCTCCCTGAAGTTGCAGT
6315409 AGAGTACACT
Statistics
Matches: 501, Mismatches: 48, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
131 3 0.01
132 496 0.99
133 2 0.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.28
Consensus pattern (132 bp):
ATCTTGCCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGCAAATCTTGTCTTTCTGAAGTTG
CAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTAT
AG
Found at i:6315578 original size:44 final size:43
Alignment explanation
Indices: 6315530--6315680 Score: 155
Period size: 44 Copynumber: 3.5 Consensus size: 43
6315520 ACCTTATCCC
*
6315530 CCTGAAGTTGCAGTGGGGCAAGTTGAAGTTACAAGTCTTATCTT
1 CCTGAAGTTGCAGTGGAGCAAGTTGAAGTTACAAGTCTTATC-T
* * * *
6315574 CCTGAAGTTGCAGTGGAG-TAGACTGAAGATAGC-AGACCTTATCT
1 CCTGAAGTTGCAGTGGAGCAAG-TTGAAGTTA-CAAG-TCTTATCT
* * *
6315618 CTCTGAAGTTGCAGTGGAGCAGGTTGAAATTACAAGTATTATCT
1 C-CTGAAGTTGCAGTGGAGCAAGTTGAAGTTACAAGTCTTATCT
*
6315662 -CTGAAGTTGCAGTAGAGCA
1 CCTGAAGTTGCAGTGGAGCA
6315681 GATCATAGCA
Statistics
Matches: 88, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
42 18 0.20
43 2 0.02
44 35 0.40
45 32 0.36
46 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.28
Consensus pattern (43 bp):
CCTGAAGTTGCAGTGGAGCAAGTTGAAGTTACAAGTCTTATCT
Found at i:6315594 original size:89 final size:88
Alignment explanation
Indices: 6315386--6315852 Score: 308
Period size: 89 Copynumber: 5.2 Consensus size: 88
6315376 AGATTATAGA
* * * * * * *
6315386 TCTTGTCTCTCTGAAGTTGCAGTAGAGTACACTGAAGATAGCAAATCTTATCTCTCC-GAAATTA
1 TCTTATCTC-CTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAACCTTATC-CCCCTGAAGTTG
* * * * *
6315450 CAGTAGAGCAGAGTTAAAGCTATAAA
64 CAGTGGAGCA-AGTTGAAGTTACAAG
* * * * * *
6315476 CCTTATCCCCCTAAAGGTACAGTGGAGTAGACTAAAGATAGCAAACCTTATCCCCCTGAAGTTGC
1 TCTTAT-CTCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAACCTTATCCCCCTGAAGTTGC
*
6315541 AGTGGGGCAAGTTGAAGTTACAAG
65 AGTGGAGCAAGTTGAAGTTACAAG
* * *
6315565 TCTTATCTTCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAGACCTTATCTCTCTGAAGTTGC
1 TCTTATC-TCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAACCTTATCCCCCTGAAGTTGC
* *
6315630 AGTGGAGCAGGTTGAAATTACAAG
65 AGTGGAGCAAGTTGAAGTTACAAG
* * ** ** *
6315654 TATTATCT-CTGAAGTTGCAGT--AG-AG-CAGATCATAGCAAACCTTATTTCTCTGAAGTTGCA
1 TCTTATCTCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAACCTTATCCCCCTGAAGTTGCA
* *
6315714 ATGGAAC-AGATTGAAGCTATAAATCACAG
66 GTGGAGCAAG-TTGAAG-T-T--A-CA-AG
* * * * **
6315743 ATCTTATTTCTCTGAAGTTGTAGTGGAGTAG-GTCGAA-ATTA-CAAACCTCATCTTCCTGAAGT
1 -TCTTATCTC-CTGAAGTTGCAGTGGAGTAGACT-GAAGA-TAGCAAACCTTATCCCCCTGAAGT
* **
6315805 TGCAGTGGAGCAGGTT-AAAATAGCAAG
62 TGCAGTGGAGCAAGTTGAAGTTA-CAAG
*
6315832 ACTTATCTCCTCGAAGTTGCA
1 TCTTATCTCCT-GAAGTTGCA
6315853 ATAGAGCATA
Statistics
Matches: 297, Mismatches: 60, Indels: 42
0.74 0.15 0.11
Matches are distributed among these distances:
82 1 0.00
83 40 0.13
84 3 0.01
85 3 0.01
87 16 0.05
88 19 0.06
89 99 0.33
90 61 0.21
91 2 0.01
92 13 0.04
94 4 0.01
95 31 0.10
96 5 0.02
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.28
Consensus pattern (88 bp):
TCTTATCTCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAACCTTATCCCCCTGAAGTTGCA
GTGGAGCAAGTTGAAGTTACAAG
Found at i:6317829 original size:26 final size:27
Alignment explanation
Indices: 6317770--6317821 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
6317760 TATTTAACAT
* *
6317770 ATTATTTATTTGAAATTTGCTTTATAA
1 ATTATTTATTTCAAATTTGATTTATAA
*
6317797 ACTATTTATTTCAAA-TTGATTTATA
1 ATTATTTATTTCAAATTTGATTTATA
6317822 CTTTATTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.54
Consensus pattern (27 bp):
ATTATTTATTTCAAATTTGATTTATAA
Found at i:6317844 original size:23 final size:22
Alignment explanation
Indices: 6317801--6317844 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
6317791 TTATAAACTA
* *
6317801 TTTATTTCAAATTGATTTATAC
1 TTTATTTAAAATTGATATATAC
*
6317823 TTTATTTTAAAATTTATATATA
1 TTTA-TTTAAAATTGATATATA
6317845 TTGCTTATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (22 bp):
TTTATTTAAAATTGATATATAC
Found at i:6317915 original size:27 final size:27
Alignment explanation
Indices: 6317866--6317917 Score: 88
Period size: 27 Copynumber: 1.9 Consensus size: 27
6317856 GAACCCTTTC
6317866 ATATATTATTATTTTAAACCTTTTTTT
1 ATATATTATTATTTTAAACCTTTTTTT
6317893 ATATATTATTTATTTTAAA-CTTTTT
1 ATATATTA-TTATTTTAAACCTTTTT
6317918 ATTTTATGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
27 14 0.58
28 10 0.42
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (27 bp):
ATATATTATTATTTTAAACCTTTTTTT
Found at i:6317916 original size:25 final size:25
Alignment explanation
Indices: 6317823--6317919 Score: 88
Period size: 25 Copynumber: 3.8 Consensus size: 25
6317813 TGATTTATAC
* * *
6317823 TTTATTTTAAAATTTATATATATTG
1 TTTATTTTAAACTTTTTATATATTA
* * * *
6317848 CTTATTTTGAACCCTTTCATATATTA
1 TTTATTTT-AAACTTTTTATATATTA
6317874 -TTATTTTAAACCTTTTTTTATATATTA
1 TTTATTTTAAA-C--TTTTTATATATTA
6317901 TTTATTTTAAACTTTTTAT
1 TTTATTTTAAACTTTTTAT
6317920 TTTATGCTTT
Statistics
Matches: 57, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
24 2 0.04
25 22 0.39
26 11 0.19
27 12 0.21
28 10 0.18
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (25 bp):
TTTATTTTAAACTTTTTATATATTA
Found at i:6317929 original size:14 final size:14
Alignment explanation
Indices: 6317874--6317923 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
6317864 TCATATATTA
6317874 TTATTTTAAACCTTT
1 TTATTTTAAA-CTTT
* *
6317889 TT-TTATATA-TTAT
1 TTATTTTAAACTT-T
6317902 TTATTTTAAACTTT
1 TTATTTTAAACTTT
6317916 TTATTTTA
1 TTATTTTA
6317924 TGCTTTAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
12 2 0.07
13 3 0.11
14 19 0.68
15 4 0.14
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (14 bp):
TTATTTTAAACTTT
Found at i:6318807 original size:129 final size:129
Alignment explanation
Indices: 6318465--6318816 Score: 360
Period size: 129 Copynumber: 2.8 Consensus size: 129
6318455 ATTTCGATAG
* * * * * * *
6318465 ATCGTGCCCTAAT-GTGTTGGGTTTCGATCTT-TCATTTGTTTAAATAATCGAATTTTCCTTTAA
1 ATCGTGCCCT-ATCGTGCTGGGTTGCAAT-TTCTCGTTTGTTCAAATAATCGAATATTCCTTTAG
** *** * * * *
6318528 AATTTCGTTTGCGTTTTCTAAA--CCTTAAAACAAAAGCGATGTTTGATGTTTAGAAATTCAAGG
64 AATTTCACTCATGTTTTCTAAATTCCTTAAAACAAAAGCAACGTTCGAAGTTTAGAAATTCAAGG
6318591 A
129 A
* * * *
6318592 ATCGTGCCCTATCGTGCTGGGTTTCAATTTCTCGTTTGTTCAAAATGATCGCATATTCCTTTGGA
1 ATCGTGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGTTC-AAATAATCGAATATTCCTTTAGA
** * * * **
6318657 ATTTCACTCATG-TTTAAAAATTCCTTAAAACGAAGGCAACGTTCGAAGTTTTGAAATTCGGGGA
65 ATTTCACTCATGTTTTCTAAATTCCTTAAAACAAAAGCAACGTTCGAAGTTTAGAAATTCAAGGA
*
6318721 ATCGTGCCCTATCGTGCTGGGTTGCAATTTC-CTGTTTGTTCAAATAATTGAATATTCCTTTAGA
1 ATCGTGCCCTATCGTGCTGGGTTGCAATTTCTC-GTTTGTTCAAATAATCGAATATTCCTTTAGA
6318785 ATTTCACTCATGTTTTCTAAATT-C-TAAAACAA
65 ATTTCACTCATGTTTTCTAAATTCCTTAAAACAA
6318817 GACAATGTTC
Statistics
Matches: 185, Mismatches: 33, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
126 4 0.02
127 44 0.24
128 58 0.31
129 79 0.43
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (129 bp):
ATCGTGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGTTCAAATAATCGAATATTCCTTTAGAA
TTTCACTCATGTTTTCTAAATTCCTTAAAACAAAAGCAACGTTCGAAGTTTAGAAATTCAAGGA
Found at i:6319436 original size:19 final size:19
Alignment explanation
Indices: 6319412--6319538 Score: 192
Period size: 19 Copynumber: 6.9 Consensus size: 19
6319402 ATAATCTTCA
*
6319412 ATGATATGCAATCTTAAAT
1 ATGATATGCAATCTTAGAT
6319431 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
6319450 ATGAT-T-CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
6319467 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
6319485 ATGATATGTAATCTTAGAT
1 ATGATATGCAATCTTAGAT
6319504 ATGATAT--AATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
6319521 ATGATGTGCAATCTTAGA
1 ATGATATGCAATCTTAGA
6319539 AGATATGATT
Statistics
Matches: 101, Mismatches: 3, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
17 33 0.33
18 17 0.17
19 51 0.50
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:6319444 original size:36 final size:38
Alignment explanation
Indices: 6319412--6319545 Score: 192
Period size: 36 Copynumber: 3.7 Consensus size: 38
6319402 ATAATCTTCA
*
6319412 ATGATATGCAATCTTAAATATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
6319450 ATGAT-T-CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
*
6319485 ATGATATGTAATCTTAGATATGATAT--AATCTTAGAT
1 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
*
6319521 ATGATGTGCAATCTTAGA-A-GATATG
1 ATGATATGCAATCTTAGATATGATATG
6319546 ATTTTGTAAT
Statistics
Matches: 88, Mismatches: 4, Indels: 11
0.85 0.04 0.11
Matches are distributed among these distances:
34 5 0.06
35 19 0.22
36 42 0.48
37 16 0.18
38 6 0.07
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (38 bp):
ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
Found at i:6319450 original size:14 final size:15
Alignment explanation
Indices: 6319433--6319487 Score: 58
Period size: 17 Copynumber: 3.4 Consensus size: 15
6319423 TCTTAAATAT
6319433 GATATG-CAATCTTA
1 GATATGTCAATCTTA
6319447 GATATGATTCAATCTTA
1 GATATG--TCAATCTTA
6319464 GATATGATTGCAATCTTA
1 GATATG--T-CAATCTTA
6319482 GATATG
1 GATATG
6319488 ATATGTAATC
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.16
17 17 0.46
18 14 0.38
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (15 bp):
GATATGTCAATCTTA
Found at i:6319477 original size:54 final size:55
Alignment explanation
Indices: 6319400--6319536 Score: 201
Period size: 54 Copynumber: 2.5 Consensus size: 55
6319390 TCATATGGAA
*
6319400 ATATAATCTT-CA-ATGATATGCAATCTTAAATATGATATGCAATCTTAGATATG
1 ATATAATCTTAGATATGATATGCAATCTTAAATATGATATGCAATCTTAGATATG
* *
6319453 AT-TCAATCTTAGATATGAT-TGCAATCTTAGATATGATATGTAATCTTAGATATG
1 ATAT-AATCTTAGATATGATATGCAATCTTAAATATGATATGCAATCTTAGATATG
*
6319507 ATATAATCTTAGATATGATGTGCAATCTTA
1 ATATAATCTTAGATATGATATGCAATCTTA
6319537 GAAGATATGA
Statistics
Matches: 76, Mismatches: 3, Indels: 8
0.87 0.03 0.09
Matches are distributed among these distances:
52 1 0.01
53 8 0.11
54 51 0.67
55 16 0.21
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.39
Consensus pattern (55 bp):
ATATAATCTTAGATATGATATGCAATCTTAAATATGATATGCAATCTTAGATATG
Found at i:6319506 original size:14 final size:15
Alignment explanation
Indices: 6319440--6319525 Score: 73
Period size: 17 Copynumber: 5.0 Consensus size: 15
6319430 TATGATATGC
6319440 AATCTTAGATATGATT
1 AATCTTAGATATGA-T
6319456 CAATCTTAGATATGATT
1 -AATCTTAGATATGA-T
6319473 GCAATCTTAGATATGATATGT
1 --AATCTTAGATATG--A--T
6319494 AATCTTAGATATGATAT
1 AATCTTAGATATG--AT
6319511 AATCTTAGATATGAT
1 AATCTTAGATATGAT
6319526 GTGCAATCTT
Statistics
Matches: 64, Mismatches: 1, Indels: 10
0.85 0.01 0.13
Matches are distributed among these distances:
15 2 0.03
17 30 0.47
18 14 0.22
19 16 0.25
20 1 0.02
21 1 0.02
ACGTcount: A:0.37, C:0.08, G:0.14, T:0.41
Consensus pattern (15 bp):
AATCTTAGATATGAT
Found at i:6319564 original size:22 final size:21
Alignment explanation
Indices: 6319412--6319564 Score: 79
Period size: 19 Copynumber: 8.0 Consensus size: 21
6319402 ATAATCTTCA
* *
6319412 ATGATATGCAATCTTA-A-AT
1 ATGATGTGTAATCTTAGAGAT
* *
6319431 ATGATATGCAATCTT--AGAT
1 ATGATGTGTAATCTTAGAGAT
*
6319450 ATGAT-T-CAATCTT--AGAT
1 ATGATGTGTAATCTTAGAGAT
*
6319467 ATGAT-TGCAATCTT--AGAT
1 ATGATGTGTAATCTTAGAGAT
*
6319485 ATGATATGTAATCTT--AGAT
1 ATGATGTGTAATCTTAGAGAT
*
6319504 ATGA--TATAATCTT--AGAT
1 ATGATGTGTAATCTTAGAGAT
*
6319521 ATGATGTGCAATCTTAGAAGAT
1 ATGATGTGTAATCTTAG-AGAT
*
6319543 ATGATTTTGTAATCTTAGAGAT
1 ATGA-TGTGTAATCTTAGAGAT
6319565 TTAATTTGTA
Statistics
Matches: 119, Mismatches: 6, Indels: 15
0.85 0.04 0.11
Matches are distributed among these distances:
17 33 0.28
18 18 0.15
19 45 0.38
22 12 0.10
23 11 0.09
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.39
Consensus pattern (21 bp):
ATGATGTGTAATCTTAGAGAT
Done.