Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 21 of 186
Found at i:6162677 original size:42 final size:42
Alignment explanation
Indices: 6162616--6162744 Score: 222
Period size: 42 Copynumber: 3.1 Consensus size: 42
6162606 AGACATGTGA
*
6162616 CTTCAATCAATTCCACTGAAACTTCAAGGAGATCTGCTGTAG
1 CTTCGATCAATTCCACTGAAACTTCAAGGAGATCTGCTGTAG
*
6162658 CTTCGATTAATTCCACTGAAACTTCAAGGAGATCTGCTGTAG
1 CTTCGATCAATTCCACTGAAACTTCAAGGAGATCTGCTGTAG
* *
6162700 CTTCGATCAATTCCACTGAAACTTCAAGGAGATCTGTTGTGG
1 CTTCGATCAATTCCACTGAAACTTCAAGGAGATCTGCTGTAG
6162742 CTT
1 CTT
6162745 TTAACTGCTC
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 82 1.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (42 bp):
CTTCGATCAATTCCACTGAAACTTCAAGGAGATCTGCTGTAG
Found at i:6163653 original size:44 final size:44
Alignment explanation
Indices: 6163527--6163777 Score: 131
Period size: 44 Copynumber: 5.7 Consensus size: 44
6163517 AAAGCTCATC
* **
6163527 ATCTTCGATCTGCTTCCCTACTGCTTAGGGTGATAAGATCTGTAA
1 ATCTTCGATCTGTTTCCCTACTGCTTAGGG-GATAAGATCCCTAA
* * * **
6163572 ATCTTC-AGCCTGTTACCCTACTGCTTAGGGGTTTAAGA-CCCTCC
1 ATCTTCGA-TCTGTTTCCCTACTGCTTAGGGG-ATAAGATCCCTAA
* * **
6163616 GTCTTCGATCTGTTTCCCTACTACTTAGGGCGATAAGATCTATAA
1 ATCTTCGATCTGTTTCCCTACTGCTTAGGG-GATAAGATCCCTAA
* * * * * *
6163661 A-CTTC-AGCTTGTTACCCTACTGCTTAAGGGGTTAA-AGCTCGT-T
1 ATCTTCGATC-TGTTTCCCTACTGCTT-AGGGGATAAGATC-CCTAA
** * ** *
6163704 GCCTTTGATCTGTTTCCCTACTGCTTAGGGTGATAAGATCTGTGA
1 ATCTTCGATCTGTTTCCCTACTGCTTAGGG-GATAAGATCCCTAA
* * *
6163749 AT-TT-AACCTGTTACCCTACTGCTTAGGGG
1 ATCTTCGATCTGTTTCCCTACTGCTTAGGGG
6163778 GTTTAAGGTC
Statistics
Matches: 154, Mismatches: 39, Indels: 29
0.69 0.18 0.13
Matches are distributed among these distances:
42 1 0.01
43 29 0.19
44 82 0.53
45 42 0.27
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.35
Consensus pattern (44 bp):
ATCTTCGATCTGTTTCCCTACTGCTTAGGGGATAAGATCCCTAA
Found at i:6163718 original size:88 final size:88
Alignment explanation
Indices: 6163493--6163780 Score: 366
Period size: 88 Copynumber: 3.3 Consensus size: 88
6163483 AAATTTGGCT
* * * *
6163493 TGTTACCCTACTGCTTAGGGGGTCAAAGCTCATCATCTTCGATCTGCTTCCCTACTGCTTAGGGT
1 TGTTACCCTACTGCTTAAGGGGTTAAAGCTCATCGTCTTCGATCTGTTTCCCTACTGCTTAGGGT
6163558 GATAAGATCTGTAAATCTTCAGCC
66 GATAAGATCTGTAAA-CTTCAGCC
* * *
6163582 TGTTACCCTACTGCTT-AGGGGTTTAAGAC-CCTCCGTCTTCGATCTGTTTCCCTACTACTTAGG
1 TGTTACCCTACTGCTTAAGGGGTTAAAG-CTCAT-CGTCTTCGATCTGTTTCCCTACTGCTTAGG
* * *
6163645 GCGATAAGATCTATAAACTTCAGCT
64 GTGATAAGATCTGTAAACTTCAGCC
* * * *
6163670 TGTTACCCTACTGCTTAAGGGGTTAAAGCTCGTTGCCTTTGATCTGTTTCCCTACTGCTTAGGGT
1 TGTTACCCTACTGCTTAAGGGGTTAAAGCTCATCGTCTTCGATCTGTTTCCCTACTGCTTAGGGT
* * *
6163735 GATAAGATCTGTGAA-TTTAACC
66 GATAAGATCTGTAAACTTCAGCC
*
6163757 TGTTACCCTACTGCTTAGGGGGTT
1 TGTTACCCTACTGCTTAAGGGGTT
6163781 TAAGGTCTAT
Statistics
Matches: 172, Mismatches: 23, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
87 27 0.16
88 74 0.43
89 71 0.41
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (88 bp):
TGTTACCCTACTGCTTAAGGGGTTAAAGCTCATCGTCTTCGATCTGTTTCCCTACTGCTTAGGGT
GATAAGATCTGTAAACTTCAGCC
Found at i:6163851 original size:44 final size:44
Alignment explanation
Indices: 6163799--6163907 Score: 130
Period size: 43 Copynumber: 2.5 Consensus size: 44
6163789 ATAAATTTAG
* * *
6163799 TCTGCTCCACTGCGACTTCAGGGAGATGAGACTTGTAACTTCAG
1 TCTGCTCCACTGCGACTTCAGGGAGATAAGACTAGTAACTTCAA
* * *
6163843 TTTGCTCCATTGC-ACTTCAGGGAGATAAGACTAGTGACTTCAA
1 TCTGCTCCACTGCGACTTCAGGGAGATAAGACTAGTAACTTCAA
* * *
6163886 TCTGCTTCGCTGAGACTTCAGG
1 TCTGCTCCACTGCGACTTCAGG
6163908 AAAAGATTCG
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
43 34 0.64
44 19 0.36
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.29
Consensus pattern (44 bp):
TCTGCTCCACTGCGACTTCAGGGAGATAAGACTAGTAACTTCAA
Found at i:6164035 original size:43 final size:44
Alignment explanation
Indices: 6163959--6164045 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 44
6163949 GGAGACGAGA
* * *
6163959 TCTGTAATTTTCAGCCTATTACCCTACTGCTTAGGGGGTTAAGG
1 TCTGTAAATTTCAACCTATTACCCTACTACTTAGGGGGTTAAGG
* *
6164003 TCTGTAAATTT-AACCTGTTACCCTACTACTTAGGGGTTTAAGG
1 TCTGTAAATTTCAACCTATTACCCTACTACTTAGGGGGTTAAGG
6164046 CTTGGTGAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
43 28 0.74
44 10 0.26
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.37
Consensus pattern (44 bp):
TCTGTAAATTTCAACCTATTACCCTACTACTTAGGGGGTTAAGG
Found at i:6164981 original size:26 final size:24
Alignment explanation
Indices: 6164936--6164984 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
6164926 GTATTATTTT
*
6164936 TATTTGTTTTTATGTTTTTAAATA
1 TATTTGTTTTTATATTTTTAAATA
6164960 TATTTGATTTATTATATTTTTAAAT
1 TATTTG-TTT-TTATATTTTTAAAT
6164985 TTTTTTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.27
25 3 0.14
26 13 0.59
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (24 bp):
TATTTGTTTTTATATTTTTAAATA
Found at i:6171552 original size:26 final size:26
Alignment explanation
Indices: 6171523--6171578 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
6171513 TCAACATCAG
6171523 ATTATGGTCATTCCATAAGCTTAGCT
1 ATTATGGTCATTCCATAAGCTTAGCT
*
6171549 ATTATGGTCATTCCGTAAGCTTAGCT
1 ATTATGGTCATTCCATAAGCTTAGCT
6171575 ATTA
1 ATTA
6171579 GCTTATGTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.39
Consensus pattern (26 bp):
ATTATGGTCATTCCATAAGCTTAGCT
Found at i:6177302 original size:11 final size:11
Alignment explanation
Indices: 6177288--6177312 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6177278 TTTAAGTATA
6177288 ATTTTTAATTT
1 ATTTTTAATTT
6177299 ATTTTTAATTT
1 ATTTTTAATTT
6177310 ATT
1 ATT
6177313 GAAAAATATT
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:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
ATTTTTAATTT
Found at i:6179669 original size:21 final size:21
Alignment explanation
Indices: 6179643--6179683 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
6179633 AGACGAGCAA
* *
6179643 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
6179664 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
6179684 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:6181622 original size:16 final size:16
Alignment explanation
Indices: 6181589--6181622 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6181579 GGAGATTGTT
* *
6181589 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
6181605 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
6181621 AA
1 AA
6181623 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:6184607 original size:3 final size:3
Alignment explanation
Indices: 6184593--6184642 Score: 64
Period size: 3 Copynumber: 16.7 Consensus size: 3
6184583 TGAAGAAAAC
* * * *
6184593 GAT GAT GGT GAT GAT GAT GAT GGT GAT GAT GAT GAT GGT GAT GTT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
6184641 GA
1 GA
6184643 AGAAGAAGAA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.26, C:0.00, G:0.40, T:0.34
Consensus pattern (3 bp):
GAT
Found at i:6184611 original size:15 final size:15
Alignment explanation
Indices: 6184593--6184642 Score: 91
Period size: 15 Copynumber: 3.3 Consensus size: 15
6184583 TGAAGAAAAC
6184593 GATGATGGTGATGAT
1 GATGATGGTGATGAT
6184608 GATGATGGTGATGAT
1 GATGATGGTGATGAT
*
6184623 GATGATGGTGATGTT
1 GATGATGGTGATGAT
6184638 GATGA
1 GATGA
6184643 AGAAGAAGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.26, C:0.00, G:0.40, T:0.34
Consensus pattern (15 bp):
GATGATGGTGATGAT
Found at i:6188971 original size:30 final size:30
Alignment explanation
Indices: 6188915--6188980 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
6188905 TAATTTGGTC
* * *
6188915 AATTTTAGTTATTGTACTTTTTGAATTGATA
1 AATTTTAATTATTGAACTTTTCGAATT-ATA
*
6188946 AATTTTAATT-TTGAACTTTTCGAATTTTA
1 AATTTTAATTATTGAACTTTTCGAATTATA
6188975 AATTTT
1 AATTTT
6188981 TTATCCTAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 8 0.26
30 14 0.45
31 9 0.29
ACGTcount: A:0.30, C:0.05, G:0.09, T:0.56
Consensus pattern (30 bp):
AATTTTAATTATTGAACTTTTCGAATTATA
Found at i:6189377 original size:21 final size:23
Alignment explanation
Indices: 6189348--6189389 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
6189338 TTTTAATTTT
6189348 ATTAGTTTTAAT-ATTAAAAATG
1 ATTAGTTTTAATAATTAAAAATG
6189370 ATTA-TTTTAATAATTAAAAA
1 ATTAGTTTTAATAATTAAAAA
6189390 ATAAATTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (23 bp):
ATTAGTTTTAATAATTAAAAATG
Found at i:6192497 original size:23 final size:23
Alignment explanation
Indices: 6192470--6192540 Score: 73
Period size: 23 Copynumber: 3.3 Consensus size: 23
6192460 AGAATGATAA
6192470 TTTTAAATTTGAATGTATTGTTT
1 TTTTAAATTTGAATGTATTGTTT
* **
6192493 TTTTAAA--TAAATG-A---TAA
1 TTTTAAATTTGAATGTATTGTTT
6192510 TTTTAAATTTGAATGTATTGTTT
1 TTTTAAATTTGAATGTATTGTTT
6192533 TTTTAAAT
1 TTTTAAAT
6192541 AACGATAATA
Statistics
Matches: 36, Mismatches: 6, Indels: 12
0.67 0.11 0.22
Matches are distributed among these distances:
17 8 0.22
19 5 0.14
20 2 0.06
21 5 0.14
23 16 0.44
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (23 bp):
TTTTAAATTTGAATGTATTGTTT
Found at i:6192517 original size:40 final size:40
Alignment explanation
Indices: 6192462--6192542 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
6192452 CTCAAAAGAG
6192462 AATGATAATTTTAAATTTGAATGTATTGTTTTTTTAAATA
1 AATGATAATTTTAAATTTGAATGTATTGTTTTTTTAAATA
6192502 AATGATAATTTTAAATTTGAATGTATTGTTTTTTTAAATA
1 AATGATAATTTTAAATTTGAATGTATTGTTTTTTTAAATA
6192542 A
1 A
6192543 CGATAATAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (40 bp):
AATGATAATTTTAAATTTGAATGTATTGTTTTTTTAAATA
Found at i:6192560 original size:40 final size:40
Alignment explanation
Indices: 6192465--6192553 Score: 119
Period size: 40 Copynumber: 2.3 Consensus size: 40
6192455 AAAAGAGAAT
** *
6192465 GATAATTTTAAATTTGAATGTATTGTTTTTTTAAATAAAT
1 GATAATTAAAAATTTGAATGTATTGTTTTTTTAAATAAAC
**
6192505 GATAATTTTAAATTTGAATGTATTGTTTTTTTAAAT-AAC
1 GATAATTAAAAATTTGAATGTATTGTTTTTTTAAATAAAC
6192544 GATAA-TAAAA
1 GATAATTAAAA
6192554 TCATTTGTCT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
38 3 0.07
39 7 0.15
40 36 0.78
ACGTcount: A:0.40, C:0.01, G:0.10, T:0.48
Consensus pattern (40 bp):
GATAATTAAAAATTTGAATGTATTGTTTTTTTAAATAAAC
Found at i:6193075 original size:139 final size:135
Alignment explanation
Indices: 6192813--6193126 Score: 344
Period size: 139 Copynumber: 2.3 Consensus size: 135
6192803 TCTTTCGTGT
* * * * * *
6192813 GTTTAGGAACCGATATGAGCTTTTAATGCATCTATGCATGCTTTGTAAATTGTCTTGATTAGCTT
1 GTTTAGGAACCGATATGAG-TTTTAATGCATCTATGTATACCTTGTAAAGTGTCTCGACTAGCTT
* * * *
6192878 CTCTTTCTTTTGTGAATTTATTTTTATTAATAAGTATACTTATGTGTCTTTTGATTTCCGT-TTT
65 CTCTTTCTCTTGTGAATTTAATTTTATTAATAAGTATACTTATGTATCATTTGATTTCC-TCTTT
*
6192942 CTTTGGTAA
129 CTTTCG--A
* * *
6192951 GTTTAGGAACGGATATGAGTTTCTAATGCATCTATGTGTACCTTGTTAAGGTGTCTCGACTAGCC
1 GTTTAGGAACCGATATGAGTTT-TAATGCATCTATGTATACCTTG-TAAAGTGTCTCGACTAG-C
* * * *
6193016 TT-TCTTTGTCTTGTGAATTTAATTTTATTAATGAGTATACTTGTGTATCATTTGGTTTCCTCTT
63 TTCTCTTTCTCTTGTGAATTTAATTTTATTAATAAGTATACTTATGTATCATTTGATTTCCTCTT
6193080 TCTTTCGA
128 TCTTTCGA
* ***
6193088 GTTTAGGAACTGATGCAAGTTTTTAATGCATCTATGTAT
1 GTTTAGGAACCGATATGAG-TTTTAATGCATCTATGTAT
6193127 GCATTGTTAA
Statistics
Matches: 148, Mismatches: 23, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
137 34 0.23
138 40 0.27
139 71 0.48
140 3 0.02
ACGTcount: A:0.22, C:0.13, G:0.18, T:0.47
Consensus pattern (135 bp):
GTTTAGGAACCGATATGAGTTTTAATGCATCTATGTATACCTTGTAAAGTGTCTCGACTAGCTTC
TCTTTCTCTTGTGAATTTAATTTTATTAATAAGTATACTTATGTATCATTTGATTTCCTCTTTCT
TTCGA
Found at i:6197730 original size:53 final size:53
Alignment explanation
Indices: 6197589--6197739 Score: 187
Period size: 53 Copynumber: 2.8 Consensus size: 53
6197579 ATAAGTGCGC
* ** *
6197589 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTAACT
* *
6197642 CCGTATAAGACCATAGCTGGGCTATGACATCGGTATAATGTGATAATGTAATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTAACT
* * *
6197695 TCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
6197740 ACCGTGTAAG
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
52 1 0.01
53 77 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTAACT
Found at i:6198938 original size:26 final size:26
Alignment explanation
Indices: 6198900--6198963 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
6198890 TCATAAATTT
**
6198900 AATTTATAA-TAAAT-TTTAATCTTAA
1 AATTTA-AATTAAATATTTAATAATAA
*
6198925 ATATTTGAATTAAATATTTAATAATAA
1 A-ATTTAAATTAAATATTTAATAATAA
6198952 AATTTAAATTAA
1 AATTTAAATTAA
6198964 TAATCTATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
25 3 0.09
26 19 0.59
27 10 0.31
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (26 bp):
AATTTAAATTAAATATTTAATAATAA
Found at i:6199522 original size:19 final size:19
Alignment explanation
Indices: 6199498--6199536 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
6199488 CACTTTCAAG
6199498 CATCCATTGGATCAAAGAT
1 CATCCATTGGATCAAAGAT
6199517 CATCCATTGGATCAAAGAT
1 CATCCATTGGATCAAAGAT
6199536 C
1 C
6199537 TTTCTTCCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (19 bp):
CATCCATTGGATCAAAGAT
Found at i:6199784 original size:38 final size:38
Alignment explanation
Indices: 6199737--6199815 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
6199727 TCCTAACATG
6199737 TTAGATTCAAGTTGTCCAAGCAATTTAAGTACAAATGT
1 TTAGATTCAAGTTGTCCAAGCAATTTAAGTACAAATGT
*
6199775 TTAGATTCAAGTTGTCCAAGCAATTTAGGTACAAATGT
1 TTAGATTCAAGTTGTCCAAGCAATTTAAGTACAAATGT
6199813 TTA
1 TTA
6199816 AATGGCTAGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (38 bp):
TTAGATTCAAGTTGTCCAAGCAATTTAAGTACAAATGT
Found at i:6208373 original size:3 final size:3
Alignment explanation
Indices: 6208365--6208389 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
6208355 CCCTTCACTT
6208365 TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC T
6208390 GAAACTACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:6208693 original size:13 final size:13
Alignment explanation
Indices: 6208677--6208701 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6208667 CTTTTATTTG
6208677 TTCTTTTTTTCTT
1 TTCTTTTTTTCTT
6208690 TTCTTTTTTTCT
1 TTCTTTTTTTCT
6208702 GGGAATCAAA
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:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (13 bp):
TTCTTTTTTTCTT
Found at i:6222389 original size:4 final size:4
Alignment explanation
Indices: 6222380--6222419 Score: 57
Period size: 4 Copynumber: 10.5 Consensus size: 4
6222370 ATGGAATCCC
*
6222380 TACA TACA TACA TACA TACA TACA T--A TACA TGCA TACA TA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TA
6222420 TACTTATATA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
4 30 0.94
ACGTcount: A:0.47, C:0.23, G:0.03, T:0.28
Consensus pattern (4 bp):
TACA
Found at i:6222410 original size:14 final size:14
Alignment explanation
Indices: 6222380--6222422 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
6222370 ATGGAATCCC
6222380 TACATACATAC--A
1 TACATACATACATA
6222392 TACATACATACATA
1 TACATACATACATA
*
6222406 TACATGCATACATA
1 TACATACATACATA
6222420 TAC
1 TAC
6222423 TTATATATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
12 11 0.39
14 17 0.61
ACGTcount: A:0.47, C:0.23, G:0.02, T:0.28
Consensus pattern (14 bp):
TACATACATACATA
Found at i:6222441 original size:12 final size:12
Alignment explanation
Indices: 6222424--6222450 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
6222414 TACATATACT
6222424 TATATATAAATA
1 TATATATAAATA
6222436 TATATATAAATA
1 TATATATAAATA
6222448 TAT
1 TAT
6222451 TTGGGTACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TATATATAAATA
Found at i:6228173 original size:26 final size:26
Alignment explanation
Indices: 6228144--6228195 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
6228134 GGGCAAACCA
6228144 TAGTCAAATTATCCTTAGTATATGCC
1 TAGTCAAATTATCCTTAGTATATGCC
6228170 TAGTCAAATTATCCTTAGTATATGCC
1 TAGTCAAATTATCCTTAGTATATGCC
6228196 AAACCAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (26 bp):
TAGTCAAATTATCCTTAGTATATGCC
Found at i:6228203 original size:26 final size:26
Alignment explanation
Indices: 6228148--6228203 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
6228138 AAACCATAGT
* **
6228148 CAAATTATCCTTAGTATATGCCTAGT
1 CAAATTATCCTTAGTATATGCCAAAC
6228174 CAAATTATCCTTAGTATATGCCAAAC
1 CAAATTATCCTTAGTATATGCCAAAC
6228200 CAAA
1 CAAA
6228204 AATTCTTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (26 bp):
CAAATTATCCTTAGTATATGCCAAAC
Found at i:6233711 original size:119 final size:119
Alignment explanation
Indices: 6233574--6233812 Score: 469
Period size: 119 Copynumber: 2.0 Consensus size: 119
6233564 ATAGGTATCA
*
6233574 AATTGGTCCCCCTCAAAAAAAACAACAAATACCGCATTAAAAAAAGTGGCAAACTTGGGTACCAA
1 AATTGGTCCCCCTCAAAAAAAAAAACAAATACCGCATTAAAAAAAGTGGCAAACTTGGGTACCAA
6233639 ATGATATATTAAGCCTTCTTATTAATAATTTTCAACTTTTGTACAATTATAAAT
66 ATGATATATTAAGCCTTCTTATTAATAATTTTCAACTTTTGTACAATTATAAAT
6233693 AATTGGTCCCCCTCAAAAAAAAAAACAAATACCGCATTAAAAAAAGTGGCAAACTTGGGTACCAA
1 AATTGGTCCCCCTCAAAAAAAAAAACAAATACCGCATTAAAAAAAGTGGCAAACTTGGGTACCAA
6233758 ATGATATATTAAGCCTTCTTATTAATAATTTTCAACTTTTGTACAATTATAAAT
66 ATGATATATTAAGCCTTCTTATTAATAATTTTCAACTTTTGTACAATTATAAAT
6233812 A
1 A
6233813 CAAGTATGAG
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
119 119 1.00
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.30
Consensus pattern (119 bp):
AATTGGTCCCCCTCAAAAAAAAAAACAAATACCGCATTAAAAAAAGTGGCAAACTTGGGTACCAA
ATGATATATTAAGCCTTCTTATTAATAATTTTCAACTTTTGTACAATTATAAAT
Found at i:6236785 original size:75 final size:76
Alignment explanation
Indices: 6236662--6236816 Score: 276
Period size: 75 Copynumber: 2.1 Consensus size: 76
6236652 ATAAAAAGGA
6236662 CCAGTTGGAGCAGTTTTAAATGCAAATCATCAAAACTTGTAAAGCTCTGAAAG-AGCGTAGAAAA
1 CCAGTTGGAGCAGTTTTAAATGCAAATCATCAAAACTTGTAAAGCTCTGAAAGAAGCGTAGAAAA
6236726 TGGCGACAGTT
66 TGGCGACAGTT
* * *
6236737 CCAGTTGGAGCAGTTTTAAATGCAAATTATCGAAACTTGTAAAGCTCTGAAAGAAGTGTAGAAAA
1 CCAGTTGGAGCAGTTTTAAATGCAAATCATCAAAACTTGTAAAGCTCTGAAAGAAGCGTAGAAAA
6236802 TGGCGACAGTT
66 TGGCGACAGTT
6236813 CCAG
1 CCAG
6236817 CAGGAAGAGA
Statistics
Matches: 76, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
75 51 0.67
76 25 0.33
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (76 bp):
CCAGTTGGAGCAGTTTTAAATGCAAATCATCAAAACTTGTAAAGCTCTGAAAGAAGCGTAGAAAA
TGGCGACAGTT
Found at i:6238381 original size:5 final size:5
Alignment explanation
Indices: 6238363--6238399 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
6238353 AAATCTTGTT
*
6238363 TTTTA TTGTA -TTTA TTTTA TTTTA TTTTA TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT
6238400 GTACGATGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 3 0.10
5 26 0.90
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:6239962 original size:105 final size:105
Alignment explanation
Indices: 6239780--6240022 Score: 486
Period size: 105 Copynumber: 2.3 Consensus size: 105
6239770 TAAAACAAAC
6239780 CAACACAGTTCCAATTATTACATCAACACCACCTACAGCTTCTTGTTTTATATGAAAATCTTTTA
1 CAACACAGTTCCAATTATTACATCAACACCACCTACAGCTTCTTGTTTTATATGAAAATCTTTTA
6239845 ATCTTTAGTAACCAAACCAATTTTCAAATGTATATTTGAA
66 ATCTTTAGTAACCAAACCAATTTTCAAATGTATATTTGAA
6239885 CAACACAGTTCCAATTATTACATCAACACCACCTACAGCTTCTTGTTTTATATGAAAATCTTTTA
1 CAACACAGTTCCAATTATTACATCAACACCACCTACAGCTTCTTGTTTTATATGAAAATCTTTTA
6239950 ATCTTTAGTAACCAAACCAATTTTCAAATGTATATTTGAA
66 ATCTTTAGTAACCAAACCAATTTTCAAATGTATATTTGAA
6239990 CAACACAGTTCCAATTATTACATCAACACCACC
1 CAACACAGTTCCAATTATTACATCAACACCACC
6240023 GGTTTTACCT
Statistics
Matches: 138, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
105 138 1.00
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.34
Consensus pattern (105 bp):
CAACACAGTTCCAATTATTACATCAACACCACCTACAGCTTCTTGTTTTATATGAAAATCTTTTA
ATCTTTAGTAACCAAACCAATTTTCAAATGTATATTTGAA
Found at i:6240153 original size:131 final size:131
Alignment explanation
Indices: 6239919--6240251 Score: 623
Period size: 131 Copynumber: 2.5 Consensus size: 131
6239909 AACACCACCT
* * *
6239919 ACAGCTTCTTGTTTTATATGAAAATCTTTTA-ATCTTTAGTAACCAAACCAATTTTCAAATGTAT
1 ACAGCTTCTTGTTTTATACGAAAAT-TTTGATATCTTTGGTAACCAAACCAATTTTCAAATGTAT
6239983 ATTTGAACAACACAGTTCCAATTATTACATCAACACCACCGGTTTTACCTCACTGTCTGTCTTTA
65 ATTTGAACAACACAGTTCCAATTATTACATCAACACCACCGGTTTTACCTCACTGTCTGTCTTTA
6240048 AG
130 AG
6240050 ACAGCTTCTTGTTTTATACGAAAATTTTGATATCTTTGGTAACCAAACCAATTTTCAAATGTATA
1 ACAGCTTCTTGTTTTATACGAAAATTTTGATATCTTTGGTAACCAAACCAATTTTCAAATGTATA
6240115 TTTGAACAACACAGTTCCAATTATTACATCAACACCACCGGTTTTACCTCACTGTCTGTCTTTAA
66 TTTGAACAACACAGTTCCAATTATTACATCAACACCACCGGTTTTACCTCACTGTCTGTCTTTAA
6240180 G
131 G
6240181 ACAGCTTCTTGTTTTATACGAAAATTTTGATATCTTTGGTAACCAAACCAATTTTCAAATGTATA
1 ACAGCTTCTTGTTTTATACGAAAATTTTGATATCTTTGGTAACCAAACCAATTTTCAAATGTATA
6240246 TTTGAA
66 TTTGAA
6240252 GTACTGACAA
Statistics
Matches: 198, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
130 4 0.02
131 194 0.98
ACGTcount: A:0.32, C:0.20, G:0.10, T:0.38
Consensus pattern (131 bp):
ACAGCTTCTTGTTTTATACGAAAATTTTGATATCTTTGGTAACCAAACCAATTTTCAAATGTATA
TTTGAACAACACAGTTCCAATTATTACATCAACACCACCGGTTTTACCTCACTGTCTGTCTTTAA
G
Found at i:6240596 original size:44 final size:44
Alignment explanation
Indices: 6240546--6240679 Score: 268
Period size: 44 Copynumber: 3.0 Consensus size: 44
6240536 TAATTGATTC
6240546 GAGTAATTAACTTTAAAAGGCAGTATTTAGAAGGTTTGAAGTTT
1 GAGTAATTAACTTTAAAAGGCAGTATTTAGAAGGTTTGAAGTTT
6240590 GAGTAATTAACTTTAAAAGGCAGTATTTAGAAGGTTTGAAGTTT
1 GAGTAATTAACTTTAAAAGGCAGTATTTAGAAGGTTTGAAGTTT
6240634 GAGTAATTAACTTTAAAAGGCAGTATTTAGAAGGTTTGAAGTTT
1 GAGTAATTAACTTTAAAAGGCAGTATTTAGAAGGTTTGAAGTTT
6240678 GA
1 GA
6240680 ACCCAGTAAC
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 90 1.00
ACGTcount: A:0.37, C:0.04, G:0.23, T:0.36
Consensus pattern (44 bp):
GAGTAATTAACTTTAAAAGGCAGTATTTAGAAGGTTTGAAGTTT
Found at i:6244836 original size:25 final size:25
Alignment explanation
Indices: 6244798--6244847 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
6244788 TACAAATTTG
* * *
6244798 ATTTAATCTTTTAAAATTCATAAAA
1 ATTTAAACTATTAAAAATCATAAAA
*
6244823 ATTTAAACTATTAAAAATGATAAAA
1 ATTTAAACTATTAAAAATCATAAAA
6244848 TTGTATTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (25 bp):
ATTTAAACTATTAAAAATCATAAAA
Found at i:6262767 original size:21 final size:22
Alignment explanation
Indices: 6262741--6262787 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
6262731 CTCTGCTCAA
*
6262741 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
6262762 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
6262784 ACTC
1 ACTC
6262788 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:6269787 original size:17 final size:17
Alignment explanation
Indices: 6269765--6269804 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 17
6269755 AATCAACCTT
6269765 CACCTCCGGCACCAATC
1 CACCTCCGGCACCAATC
*
6269782 CACCT-C--CACCGATC
1 CACCTCCGGCACCAATC
6269796 CACCTCCGG
1 CACCTCCGG
6269805 TCCTTCACGA
Statistics
Matches: 19, Mismatches: 1, Indels: 6
0.73 0.04 0.23
Matches are distributed among these distances:
14 12 0.63
15 1 0.05
16 1 0.05
17 5 0.26
ACGTcount: A:0.20, C:0.55, G:0.12, T:0.12
Consensus pattern (17 bp):
CACCTCCGGCACCAATC
Found at i:6272096 original size:25 final size:25
Alignment explanation
Indices: 6272067--6272145 Score: 87
Period size: 25 Copynumber: 3.3 Consensus size: 25
6272057 GATCTTTGCT
*
6272067 TAATTTCATATGCTCTAACTTGCAG
1 TAATTTCATATGCTCTAACTTACAG
*
6272092 TAATTTCATATGCT-TCAA---AAAG
1 TAATTTCATATGCTCT-AACTTACAG
6272114 T-ATGTTCATATGCTCTAACTTACAG
1 TAAT-TTCATATGCTCTAACTTACAG
6272139 TAATTTC
1 TAATTTC
6272146 TTTTTGCAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
21 2 0.05
22 15 0.34
23 1 0.02
24 1 0.02
25 23 0.52
26 2 0.05
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.41
Consensus pattern (25 bp):
TAATTTCATATGCTCTAACTTACAG
Found at i:6272539 original size:18 final size:17
Alignment explanation
Indices: 6272512--6272666 Score: 74
Period size: 18 Copynumber: 9.0 Consensus size: 17
6272502 AATATTAAGA
6272512 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
6272529 ATTTCTATTAAA-T-TAT
1 ATTT-TATTAAATTATAT
* *
6272545 A-TTTAAT-AATAAT-T
1 ATTTTATTAAATTATAT
* *
6272559 ATTTTAAATTATATTTTAT
1 ATTTT--ATTAAATTATAT
* *
6272578 AGTATTA-TATATTATA-
1 A-TTTTATTAAATTATAT
6272594 ATTTTATTAAATTCATAT
1 ATTTTATTAAATT-ATAT
*** *
6272612 AAGAATATTTAATATTA-AGA
1 -ATTTTA-TTAA-ATTATA-T
6272632 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
6272649 ATTTTTATTAAATTATAT
1 A-TTTTATTAAATTATAT
6272667 TTAATAATAA
Statistics
Matches: 102, Mismatches: 18, Indels: 35
0.66 0.12 0.23
Matches are distributed among these distances:
13 2 0.02
14 5 0.05
15 10 0.10
16 10 0.10
17 23 0.23
18 32 0.31
19 9 0.09
20 8 0.08
21 3 0.03
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:6272582 original size:121 final size:120
Alignment explanation
Indices: 6272269--6272686 Score: 737
Period size: 120 Copynumber: 3.5 Consensus size: 120
6272259 GAATATAATG
* *
6272269 ATTTGATTAAATTATATATTTTTACTAAATTATATTTTTAATAATAATTATTTTAAATTATATTT
1 ATTTTATTAAATTATATATTTTTATTAAATTATA--TTTAATAATAATTATTTTAAATTATATTT
6272334 TATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAATATTAAGA
64 TATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAATATTAAGA
*
6272391 ATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAATAATTATTTTAAATTATATTTTA
1 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTA
6272456 TAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAAATATTAAGA
66 TAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTT-AATATTAAGA
*
6272512 ATTTTATTAAATTATATATTTCTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTA
1 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTA
* * *
6272577 TAGTATTATATATTATAATTTTATTAAATTCATATAAGAATATTTAATATTAAGA
66 TAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAATATTAAGA
*
6272632 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAA
1 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAA
6272687 NNNNNNNNNN
Statistics
Matches: 285, Mismatches: 10, Indels: 4
0.95 0.03 0.01
Matches are distributed among these distances:
120 139 0.49
121 115 0.40
122 31 0.11
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (120 bp):
ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTA
TAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAATATTAAGA
Found at i:6272583 original size:22 final size:23
Alignment explanation
Indices: 6272558--6272600 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
6272548 TAATAATAAT
*
6272558 TATTTTAAATTAT-ATTTTATAG
1 TATTATAAATTATAATTTTATAG
*
6272580 TATTATATATTATAATTTTAT
1 TATTATAAATTATAATTTTAT
6272601 TAAATTCATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
TATTATAAATTATAATTTTATAG
Found at i:6275322 original size:50 final size:51
Alignment explanation
Indices: 6275198--6275653 Score: 501
Period size: 50 Copynumber: 8.8 Consensus size: 51
6275188 GATAATAACA
* * ** * *
6275198 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCATGCTCGG
* * *
6275249 TGCCCATGTCATGTCCCAGACATGGTCTTATAGGGGACCTCTCAT-CTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGCTCGG
* * ** * *
6275299 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCATGCTCGG
* * *
6275350 TGCCCATGTCATGTCCCAGACATGGTCTTATAGGGGACCTCTCAT-CTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGCTCGG
* * *
6275400 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGCTCGG
*
6275450 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGCTCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGCTC----GG
* * *
6275505 ATGCCAATTCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGG
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGCTCGG
*
6275556 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGCTCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGCTC----GG
* * *
6275611 ATGCCAATTCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
6275654 TTACCCAAAT
Statistics
Matches: 340, Mismatches: 49, Indels: 27
0.82 0.12 0.06
Matches are distributed among these distances:
49 2 0.01
50 172 0.51
51 79 0.23
52 1 0.00
55 7 0.02
56 79 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (51 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGCTCGG
Found at i:6275373 original size:101 final size:104
Alignment explanation
Indices: 6275197--6275650 Score: 631
Period size: 106 Copynumber: 4.4 Consensus size: 104
6275187 TGATAATAAC
* ** *
6275197 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GGTGCCCATGTCAT
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCGT-ATCGGTGCCCATGCCAT
*
6275261 GTCCCAGACATGGTCTTATAGGGGACCTCTCAT-CTC-GG
65 GTCCCAGACATGGTCTTACAGGGGACCTCTCATGCTCAGG
** *
6275299 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GGTGCCCATGTCAT
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCGT-ATCGGTGCCCATGCCAT
*
6275362 GTCCCAGACATGGTCTTATAGGGGACCTCTCAT-CTC-GG
65 GTCCCAGACATGGTCTTACAGGGGACCTCTCATGCTCAGG
*
6275400 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTCTCGGTGCCCATGCCATG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCGTATCGGTGCCCATGCCATG
6275463 TCCCAGACATGGTCTTACAGGGGACCTCTCATGCTCTTAAGG
66 TCCCAGACATGGTCTTACAGGGGACCTCTCATGCTC---AGG
** *
6275505 ATGCCAATTCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTCTCGGTGCCCATGCCATG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCGTATCGGTGCCCATGCCATG
6275569 TCCCAGACATGGTCTTACAGGGGACCTCTCATGCTCTTAAGG
66 TCCCAGACATGGTCTTACAGGGGACCTCTCATGCTC---AGG
**
6275611 ATGCCAATTCCATGTCCCAGACATGGTCTTACATGGGATC
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATC
6275651 TCTTTACCCA
Statistics
Matches: 336, Mismatches: 8, Indels: 11
0.95 0.02 0.03
Matches are distributed among these distances:
99 1 0.00
100 51 0.15
101 140 0.42
105 2 0.01
106 141 0.42
107 1 0.00
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (104 bp):
ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCGTATCGGTGCCCATGCCATG
TCCCAGACATGGTCTTACAGGGGACCTCTCATGCTCAGG
Found at i:6275769 original size:13 final size:13
Alignment explanation
Indices: 6275748--6275779 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
6275738 GCTTGGATCA
*
6275748 TCATCAAATAAAT
1 TCATAAAATAAAT
6275761 TCATAAAATAAAT
1 TCATAAAATAAAT
6275774 TCATAA
1 TCATAA
6275780 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:6276026 original size:30 final size:30
Alignment explanation
Indices: 6275991--6276048 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
6275981 CCTCGACTCT
*
6275991 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
6276021 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
6276049 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:6292402 original size:14 final size:14
Alignment explanation
Indices: 6292383--6292410 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6292373 CAAACAATAA
6292383 TTATTAAATTTATT
1 TTATTAAATTTATT
6292397 TTATTAAATTTATT
1 TTATTAAATTTATT
6292411 AAATTATTTT
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:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TTATTAAATTTATT
Found at i:6298368 original size:23 final size:21
Alignment explanation
Indices: 6298341--6298389 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
6298331 TAATTAAAAA
* *
6298341 AATTAATTTCAAAAAAGTTAAAT
1 AATTAAATT-AAAAAAATT-AAT
6298364 AATTAAATTAAAAAAATTAAT
1 AATTAAATTAAAAAAATTAAT
6298385 AATTA
1 AATTA
6298390 GATGACAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 8 0.33
22 8 0.33
23 8 0.33
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (21 bp):
AATTAAATTAAAAAAATTAAT
Found at i:6298385 original size:21 final size:23
Alignment explanation
Indices: 6298332--6298389 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
6298322 ACGAGAGAAT
* *
6298332 AATTAAAAAAATTAATTTCAAAAA
1 AATT-AAATAATTAAATTCAAAAA
*
6298356 AGTTAAATAATTAAATT-AAAAA
1 AATTAAATAATTAAATTCAAAAA
6298378 AATT-AATAATTA
1 AATTAAATAATTA
6298390 GATGACAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 8 0.27
22 8 0.27
23 11 0.37
24 3 0.10
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (23 bp):
AATTAAATAATTAAATTCAAAAA
Found at i:6298399 original size:22 final size:24
Alignment explanation
Indices: 6298350--6298400 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 24
6298340 AAATTAATTT
*
6298350 CAAAAAAGTTAAATAATTAAATTA
1 CAAAAAAGTTAAATAATTAAATGA
*
6298374 -AAAAAA-TT-AATAATTAGATGA
1 CAAAAAAGTTAAATAATTAAATGA
6298395 CAAAAA
1 CAAAAA
6298401 TAGTCACAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 11 0.46
22 7 0.29
23 6 0.25
ACGTcount: A:0.65, C:0.04, G:0.06, T:0.25
Consensus pattern (24 bp):
CAAAAAAGTTAAATAATTAAATGA
Found at i:6301804 original size:17 final size:18
Alignment explanation
Indices: 6301782--6301821 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
6301772 CTTGTTTAGG
*
6301782 AGTGC-TTTTATCTCAAA
1 AGTGCTTTTTATCCCAAA
*
6301799 AGTGCTTTTTGTCCCAAA
1 AGTGCTTTTTATCCCAAA
6301817 AGTGC
1 AGTGC
6301822 GTCTTAGAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (18 bp):
AGTGCTTTTTATCCCAAA
Found at i:6307429 original size:44 final size:44
Alignment explanation
Indices: 6307380--6307747 Score: 177
Period size: 44 Copynumber: 8.5 Consensus size: 44
6307370 ATCTACTCTG
*
6307380 CTGTAACCTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCCTTTATTTTAATCCGCTCCA
* * ** * * ** ** *
6307424 CTGTAACTTCAGGGAGATAGGATAGTGT-CTTCGATTTGCTCCG
1 CTGTAACCTCAGGGAGATAAGATCCTTTATTTTAATCCGCTCCA
*
6307467 CTGTAATCTCAGGGAGATAAGATCCTTTATTTTAATCCGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCCTTTATTTTAATCCGCTCCA
* * *** ** **
6307511 CTGTAACTTCAGGGAGATAGGAT--TTCTGGCCTCGATTTGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCCTT-T-ATTTTAATCCGCTCCA
** * * *
6307555 CTGTAACCTCAGGGAGATAAGAT-CTGAAATTTTTAGTCTGTTCCA
1 CTGTAACCTCAGGGAGATAAGATCCT-TTA-TTTTAATCCGCTCCA
* * ** *** * *
6307600 CTGTAATCTCAGGGAAATAAGA-CC--TGGTGCGATCTGCTCTA
1 CTGTAACCTCAGGGAGATAAGATCCTTTATTTTAATCCGCTCCA
* *
6307641 CTGTAACTTCAGAGAGATAAGATCC-----TTTAATCCGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCCTTTATTTTAATCCGCTCCA
* * * * * * * *
6307680 TTGTAACTTCAGGGAGATAGGATTACTATA-TTCAATCTGCTCCG
1 CTGTAACCTCAGGGAGATAAGA-TCCTTTATTTTAATCCGCTCCA
*
6307724 CTGTAATCTCAGGGAGATAAGATC
1 CTGTAACCTCAGGGAGATAAGATC
6307748 TGCAATTTTT
Statistics
Matches: 233, Mismatches: 78, Indels: 27
0.69 0.23 0.08
Matches are distributed among these distances:
39 28 0.12
40 2 0.01
41 26 0.11
42 4 0.02
43 33 0.14
44 110 0.47
45 30 0.13
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (44 bp):
CTGTAACCTCAGGGAGATAAGATCCTTTATTTTAATCCGCTCCA
Found at i:6307488 original size:87 final size:88
Alignment explanation
Indices: 6307368--6307747 Score: 386
Period size: 87 Copynumber: 4.4 Consensus size: 88
6307358 AGACCTGATG
* * *
6307368 CGATCTACTCTGCTGTAACCTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTT
1 CGATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTT
*
6307433 CAGGGAGATAGGA-TAGTGTCTT
66 CAGGGAGATAGGATTACTGTCTT
* *
6307455 CGATTTGCTCCGCTGTAATCTCAGGGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTT
1 CGATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTT
* * *
6307520 CAGGGAGATAGGATTTCTGGCCT
66 CAGGGAGATAGGATTACTGTCTT
* * ** * * *
6307543 CGATTTGCTCCACTGTAACCTCAGGGAGATAAGAT-CTGAAATTTTTAGTCTGTTCCACTGTAA-
1 CGATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCCT-TTA-TTTTAATCCGCTCCACTGTAAC
* * * * *
6307606 TCTCAGGGAAATAAGA--CCTG-GTG
64 T-TCAGGGAGATAGGATTACTGTCTT
** * * *
6307629 CGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCC-----TTTAATCCGCTCCATTGTAACTT
1 CGATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTT
* *
6307689 CAGGGAGATAGGATTACTATATT
66 CAGGGAGATAGGATTACTGTCTT
* *
6307712 CAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATC
1 CGATCTGCTCCGCTGTAACCTCAGGGAGATAAGATC
6307748 TGCAATTTTT
Statistics
Matches: 242, Mismatches: 42, Indels: 22
0.79 0.14 0.07
Matches are distributed among these distances:
80 28 0.12
81 1 0.00
82 2 0.01
83 31 0.13
86 31 0.13
87 79 0.33
88 40 0.17
89 30 0.12
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.31
Consensus pattern (88 bp):
CGATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTT
CAGGGAGATAGGATTACTGTCTT
Found at i:6316850 original size:86 final size:85
Alignment explanation
Indices: 6316744--6316915 Score: 281
Period size: 86 Copynumber: 2.0 Consensus size: 85
6316734 CTTTCTAGTT
* * *
6316744 CAGTTATCCGGACCTTCAACTCTGTCTTCTCATCTTGGCAAGCTAGTAGACTCTTTCCGAAGGCG
1 CAGTTATCCGGACCTTCAACTCCGTCTTCTCATCTTGGCAAACTAGTAGACTCTTTCCCAAGGCG
*
6316809 AATTCTCGAGCGCGAGTATC
66 AATTCTCGAGCCCGAGTATC
*
6316829 NCAGTTATCCGGACCTTCAACTCCGTCTTCTCGTCTTGGCAAACTAGTAGACTCTTTCCCAAGGC
1 -CAGTTATCCGGACCTTCAACTCCGTCTTCTCATCTTGGCAAACTAGTAGACTCTTTCCCAAGGC
*
6316894 GACTTCTCGAGCCCGAGTATC
65 GAATTCTCGAGCCCGAGTATC
6316915 C
1 C
6316916 TGAAATTTCT
Statistics
Matches: 80, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
85 1 0.01
86 79 0.99
ACGTcount: A:0.20, C:0.31, G:0.20, T:0.28
Consensus pattern (85 bp):
CAGTTATCCGGACCTTCAACTCCGTCTTCTCATCTTGGCAAACTAGTAGACTCTTTCCCAAGGCG
AATTCTCGAGCCCGAGTATC
Found at i:6333367 original size:10 final size:10
Alignment explanation
Indices: 6333352--6333377 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
6333342 TAATTTTAGG
6333352 ATTTATTTTC
1 ATTTATTTTC
6333362 ATTTATTTTC
1 ATTTATTTTC
6333372 ATTTAT
1 ATTTAT
6333378 CTTTAATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (10 bp):
ATTTATTTTC
Found at i:6333387 original size:10 final size:10
Alignment explanation
Indices: 6333374--6333411 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
6333364 TTATTTTCAT
6333374 TTATCTTTAA
1 TTATCTTTAA
6333384 TTATCTTTAA
1 TTATCTTTAA
*
6333394 TTAT-TTGTAT
1 TTATCTT-TAA
6333404 TTATCTTT
1 TTATCTTT
6333412 TAGAATTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.24, C:0.08, G:0.03, T:0.66
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:6333387 original size:20 final size:20
Alignment explanation
Indices: 6333354--6333411 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
6333344 ATTTTAGGAT
*
6333354 TTATTTTCATTTAT-TTTCAT
1 TTATTTT-ATTTATCTTTCAA
*
6333374 TTATCTTTAATTATCTTT-AA
1 TTAT-TTTATTTATCTTTCAA
6333394 TTATTTGTATTTATCTTT
1 TTATTT-TATTTATCTTT
6333412 TAGAATTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
19 2 0.06
20 24 0.75
21 6 0.19
ACGTcount: A:0.22, C:0.09, G:0.02, T:0.67
Consensus pattern (20 bp):
TTATTTTATTTATCTTTCAA
Found at i:6335797 original size:33 final size:33
Alignment explanation
Indices: 6335754--6335828 Score: 96
Period size: 33 Copynumber: 2.3 Consensus size: 33
6335744 AGCTAATATG
* *
6335754 CTTGATTTCTAACAGCAGATACAATGGCAAACT
1 CTTGATTTCTAACAGCAAATACAACGGCAAACT
* * * *
6335787 GTTGATTTCTAACAGTAAATTCTACGGCAAACT
1 CTTGATTTCTAACAGCAAATACAACGGCAAACT
6335820 CTTGATTTC
1 CTTGATTTC
6335829 CAAAAGGAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (33 bp):
CTTGATTTCTAACAGCAAATACAACGGCAAACT
Found at i:6337295 original size:31 final size:31
Alignment explanation
Indices: 6337260--6337329 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 31
6337250 CTTGTCACTT
* * *
6337260 GTAGCCGAAGCTATCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTATTCACTAATCAA
* * *
6337291 GTAGCCGGAGCTACCATTTTTCACTAATCAA
1 GTAGCCGAAGCTACCACTATTCACTAATCAA
6337322 GTAGCCGA
1 GTAGCCGA
6337330 TGATCAGGTA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTATTCACTAATCAA
Found at i:6337351 original size:46 final size:46
Alignment explanation
Indices: 6337284--6337375 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 46
6337274 CACTATTCAC
* *
6337284 TGATCAGGTAGCCGGAGCTACCATTTTTCACTAATCAAGTAGCCGA
1 TGATCAGGTAGCCGAAGCTACCACTTTTCACTAATCAAGTAGCCGA
* * *
6337330 TGATCAGGTAGCCGAAGCTACCACTTTTCATTGATCAGGTAGCCGA
1 TGATCAGGTAGCCGAAGCTACCACTTTTCACTAATCAAGTAGCCGA
6337376 AGCTACCACT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (46 bp):
TGATCAGGTAGCCGAAGCTACCACTTTTCACTAATCAAGTAGCCGA
Found at i:6337368 original size:31 final size:31
Alignment explanation
Indices: 6337330--6337388 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
6337320 AAGTAGCCGA
6337330 TGATCAGGTAGCCGAAGCTACCACTTTTCAT
1 TGATCAGGTAGCCGAAGCTACCACTTTTCAT
6337361 TGATCAGGTAGCCGAAGCTACCACTTTT
1 TGATCAGGTAGCCGAAGCTACCACTTTT
6337389 TACTTGCCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.29
Consensus pattern (31 bp):
TGATCAGGTAGCCGAAGCTACCACTTTTCAT
Found at i:6337468 original size:50 final size:50
Alignment explanation
Indices: 6337368--6337594 Score: 364
Period size: 50 Copynumber: 4.5 Consensus size: 50
6337358 CATTGATCAG
* * * * *
6337368 GTAGCCGAAGCTACCACTTTTTACTTGCCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCACTTGTCCTTGATCAGATAAGT
* *
6337419 GTAGCTGAAGCTATCACTTATCACTTTCACTTATCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
*
6337469 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
*
6337519 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
6337569 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
6337595 GTTGCCATGG
Statistics
Matches: 164, Mismatches: 12, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
50 142 0.87
51 22 0.13
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
Found at i:6340529 original size:5 final size:5
Alignment explanation
Indices: 6340519--6340601 Score: 53
Period size: 5 Copynumber: 15.6 Consensus size: 5
6340509 GTAACCCAAT
* *
6340519 TTTTA TTTTA TTTTA TTCT- TTTTA TATTTA TTTTTA ATTTA TTATTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA T-TTTA -TTTTA TTTTA -T-TTTA
* *
6340567 TTTTTA ATTTA TTATT- TTATTA CTTTA TTTTA TTT
1 -TTTTA TTTTA TT-TTA TT-TTA TTTTA TTTTA TTT
6340602 GGATATTAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 14
0.74 0.09 0.16
Matches are distributed among these distances:
4 3 0.05
5 38 0.60
6 15 0.24
7 7 0.11
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:6340566 original size:18 final size:18
Alignment explanation
Indices: 6340539--6340583 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
6340529 TTTTATTCTT
6340539 TTTA-TATTTATTTTTAA
1 TTTATTATTTATTTTTAA
6340556 TTTATTATTTATTTTTAA
1 TTTATTATTTATTTTTAA
6340574 TTTATTATTT
1 TTTATTATTT
6340584 TATTACTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 4 0.15
18 23 0.85
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTATTATTTATTTTTAA
Found at i:6340585 original size:26 final size:26
Alignment explanation
Indices: 6340517--6340597 Score: 80
Period size: 24 Copynumber: 3.2 Consensus size: 26
6340507 AGGTAACCCA
* *
6340517 ATTTTTATTTTATT-TTATTCTT-TTT
1 ATTTTTAATTTATTATT-TTATTATTT
* *
6340542 ATATTT-ATTT-TTAATTTATTATTT
1 ATTTTTAATTTATTATTTTATTATTT
6340566 ATTTTTAATTTATTATTTTATTACTTT
1 ATTTTTAATTTATTATTTTATTA-TTT
6340593 ATTTT
1 ATTTT
6340598 ATTTGGATAT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
23 6 0.13
24 12 0.27
25 9 0.20
26 10 0.22
27 8 0.18
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (26 bp):
ATTTTTAATTTATTATTTTATTATTT
Found at i:6340598 original size:26 final size:25
Alignment explanation
Indices: 6340524--6340598 Score: 75
Period size: 26 Copynumber: 2.9 Consensus size: 25
6340514 CCAATTTTTA
6340524 TTTTATTTTATT-CTTTTTATATTT-AT
1 TTTTATTTTATTAC--TTTAT-TTTAAT
*
6340550 TTTTAATTTATTA-TTTATTTTTAAT
1 TTTTATTTTATTACTTTA-TTTTAAT
6340575 TTATTATTTTATTACTTTATTTTA
1 TT-TTATTTTATTACTTTATTTTA
6340599 TTTGGATATT
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
24 7 0.17
25 5 0.12
26 26 0.62
27 4 0.10
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (25 bp):
TTTTATTTTATTACTTTATTTTAAT
Found at i:6340599 original size:18 final size:16
Alignment explanation
Indices: 6340517--6340601 Score: 68
Period size: 16 Copynumber: 5.2 Consensus size: 16
6340507 AGGTAACCCA
6340517 ATTTTTATTTTATTTT
1 ATTTTTATTTTATTTT
*
6340533 A-TTCT-TTTTATATTT
1 ATTTTTATTTTAT-TTT
*
6340548 ATTTTTAATTTATTATTT
1 ATTTTTATTTTA-T-TTT
*
6340566 ATTTTTAATTTATTATT
1 ATTTTTATTTTATT-TT
* *
6340583 -TTATTACTTTATTTT
1 ATTTTTATTTTATTTT
6340598 ATTT
1 ATTT
6340602 GGATATTAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
14 6 0.11
15 9 0.16
16 18 0.32
17 7 0.12
18 17 0.30
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (16 bp):
ATTTTTATTTTATTTT
Found at i:6342566 original size:10 final size:10
Alignment explanation
Indices: 6342551--6342610 Score: 70
Period size: 10 Copynumber: 6.0 Consensus size: 10
6342541 TAATTTTAGG
6342551 ATTTAT-TTT
1 ATTTATCTTT
6342560 CATTTATCTTT
1 -ATTTATCTTT
*
6342571 ATTTATATTT
1 ATTTATCTTT
*
6342581 AATTATCTTT
1 ATTTATCTTT
6342591 ATTTAT-TTGT
1 ATTTATCTT-T
6342601 ATTTATCTTT
1 ATTTATCTTT
6342611 TAAAATTTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
9 2 0.05
10 36 0.84
11 5 0.12
ACGTcount: A:0.23, C:0.07, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:6342576 original size:20 final size:19
Alignment explanation
Indices: 6342551--6342610 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 19
6342541 TAATTTTAGG
6342551 ATTTATTTTCATTTATCTTT
1 ATTTATTTT-ATTTATCTTT
*
6342571 ATTTATATTTAATTATCTTT
1 ATTTAT-TTTATTTATCTTT
6342591 ATTTATTTGTATTTATCTTT
1 ATTTATTT-TATTTATCTTT
6342611 TAAAATTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
19 2 0.06
20 31 0.86
21 3 0.08
ACGTcount: A:0.23, C:0.07, G:0.02, T:0.68
Consensus pattern (19 bp):
ATTTATTTTATTTATCTTT
Found at i:6346643 original size:65 final size:65
Alignment explanation
Indices: 6346562--6346684 Score: 237
Period size: 65 Copynumber: 1.9 Consensus size: 65
6346552 GCTCAACAAG
*
6346562 GTTGGAAGCAAGCCATGCTCGATGAAATGAGCATGATTGACAAGAATCAGACTTGAGAGCTAGCT
1 GTTGGAAGCAAGCCATGCTCGATGAAATGAGCATGATTGACAAGAATCAAACTTGAGAGCTAGCT
6346627 GTTGGAAGCAAGCCATGCTCGATGAAATGAGCATGATTGACAAGAATCAAACTTGAGA
1 GTTGGAAGCAAGCCATGCTCGATGAAATGAGCATGATTGACAAGAATCAAACTTGAGA
6346685 CTTAGTTGCC
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 57 1.00
ACGTcount: A:0.36, C:0.16, G:0.27, T:0.21
Consensus pattern (65 bp):
GTTGGAAGCAAGCCATGCTCGATGAAATGAGCATGATTGACAAGAATCAAACTTGAGAGCTAGCT
Found at i:6351693 original size:19 final size:19
Alignment explanation
Indices: 6351655--6351695 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
6351645 TCTTAACTTT
*
6351655 AAAAAATTTTAATTATTTA
1 AAAAAATTTTAATTAGTTA
6351674 AAAAATATTTTAA-TAGTTA
1 AAAAA-ATTTTAATTAGTTA
6351693 AAA
1 AAA
6351696 TTTCACTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (19 bp):
AAAAAATTTTAATTAGTTA
Found at i:6353618 original size:18 final size:17
Alignment explanation
Indices: 6353572--6353624 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 17
6353562 TTTATTGTAC
*
6353572 ATATA-TATACTTTTAT
1 ATATAGTATATTTTTAT
6353588 ATATAGTATTATTTTTAT
1 ATATAGTA-TATTTTTAT
*
6353606 ATATCATTATATTTATTAT
1 ATAT-AGTATATTT-TTAT
6353625 TATGCTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 5 0.16
17 2 0.06
18 17 0.55
19 7 0.23
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (17 bp):
ATATAGTATATTTTTAT
Found at i:6354239 original size:17 final size:17
Alignment explanation
Indices: 6354219--6354269 Score: 77
Period size: 17 Copynumber: 3.0 Consensus size: 17
6354209 GGATCCCAAC
6354219 AATTTTCGTGTTTTCAA
1 AATTTTCGTGTTTTCAA
*
6354236 AATTTTCGTGTTTTAAAA
1 AATTTTCGTGTTTT-CAA
6354254 AATTTTCGT-TTTTCAA
1 AATTTTCGTGTTTTCAA
6354270 TCGGATCACG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
16 2 0.06
17 18 0.58
18 11 0.35
ACGTcount: A:0.27, C:0.10, G:0.10, T:0.53
Consensus pattern (17 bp):
AATTTTCGTGTTTTCAA
Found at i:6357464 original size:5 final size:5
Alignment explanation
Indices: 6357454--6357491 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
6357444 GGAATTTTGC
6357454 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
6357492 GGATGGAAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:6358230 original size:10 final size:10
Alignment explanation
Indices: 6358215--6358239 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
6358205 TTTCTTTATA
6358215 TAAAATTTTT
1 TAAAATTTTT
6358225 TAAAATTTTT
1 TAAAATTTTT
6358235 TAAAA
1 TAAAA
6358240 ATATAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
TAAAATTTTT
Found at i:6363799 original size:21 final size:21
Alignment explanation
Indices: 6363773--6363813 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
6363763 AGACGAGCAA
* *
6363773 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
6363794 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
6363814 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:6372202 original size:169 final size:169
Alignment explanation
Indices: 6371917--6372319 Score: 718
Period size: 169 Copynumber: 2.4 Consensus size: 169
6371907 TTCTAAAGTT
* * * * * * *
6371917 GGGTTAACCATTTGTCAAACTTTTTCAGCTATTTTTTTGAACTTCAAATGAAAAGTAACCCCTAA
1 GGGTTCACCATTTGTCCAACTTTTCCACCTACTTTTGTAAACTTCAAATGAAAAGTAACCCCTAA
6371982 AAATTAACTTTGAATCATTCTAGAAAAGTGCTTGAAAGTAGATTAGGAATCAAACTTTAGAGCAT
66 AAATTAACTTTGAATCATTCTAGAAAAGTGCTTGAAAGTAGATTAGGAATCAAACTTTAGAGCAT
6372047 GCTTTATATATGTTTTTTCCTACTTATTAGCAACGCTTA
131 GCTTTATATATGTTTTTTCCTACTTATTAGCAACGCTTA
*
6372086 GGGTTCACCATTTGTCCAACCTTTCCACCTACTTTTGTAAACTTCAAATGAAAAGTAACCCCTAA
1 GGGTTCACCATTTGTCCAACTTTTCCACCTACTTTTGTAAACTTCAAATGAAAAGTAACCCCTAA
6372151 AAATTAACTTTGAATCATTCTAGAAAAGTGCTTGAAAGTAGATTAGGAATCAAACTTTAGAGCAT
66 AAATTAACTTTGAATCATTCTAGAAAAGTGCTTGAAAGTAGATTAGGAATCAAACTTTAGAGCAT
6372216 GCTTTATATATGTTTTTTCCTACTTATTAGCAACGCTTA
131 GCTTTATATATGTTTTTTCCTACTTATTAGCAACGCTTA
*
6372255 GGGTTCACCATTTGTCCAACTTTTCCACCTACTTTTGTAAACTTCAAATGAAAAGTTA-CCCTAA
1 GGGTTCACCATTTGTCCAACTTTTCCACCTACTTTTGTAAACTTCAAATGAAAAGTAACCCCTAA
6372319 A
66 A
6372320 GATGTGGTAA
Statistics
Matches: 224, Mismatches: 10, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
168 7 0.03
169 217 0.97
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (169 bp):
GGGTTCACCATTTGTCCAACTTTTCCACCTACTTTTGTAAACTTCAAATGAAAAGTAACCCCTAA
AAATTAACTTTGAATCATTCTAGAAAAGTGCTTGAAAGTAGATTAGGAATCAAACTTTAGAGCAT
GCTTTATATATGTTTTTTCCTACTTATTAGCAACGCTTA
Found at i:6372982 original size:9 final size:9
Alignment explanation
Indices: 6372970--6373009 Score: 53
Period size: 9 Copynumber: 4.2 Consensus size: 9
6372960 TTTTAAAAAA
6372970 TATAATTTT
1 TATAATTTT
6372979 TATAATTTT
1 TATAATTTT
6372988 TATGAATATTT
1 TAT-AAT-TTT
*
6372999 TAGAATTTT
1 TATAATTTT
6373008 TA
1 TA
6373010 AAAGTTATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 17 0.61
10 6 0.21
11 5 0.18
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (9 bp):
TATAATTTT
Found at i:6378600 original size:35 final size:35
Alignment explanation
Indices: 6378554--6378829 Score: 227
Period size: 35 Copynumber: 7.9 Consensus size: 35
6378544 CGTGGTTGGT
* *
6378554 CCATACCGAGTTGTGAAATGTAGGTATGGTATTAG
1 CCATACCGAGTTATGAAACGTAGGTATGGTATTAG
* * * * *
6378589 CCATACTGAGTTGTGAAACATAGGTATGGCATTAA
1 CCATACCGAGTTATGAAACGTAGGTATGGTATTAG
* * * *
6378624 CCATACTGAGCTGTGAAACGTAGGTATGGTATT-T
1 CCATACCGAGTTATGAAACGTAGGTATGGTATTAG
* ** *
6378658 CCATACCGAGCTATGAAACGTAGGTATGG-CGTCG
1 CCATACCGAGTTATGAAACGTAGGTATGGTATTAG
* * * * * *
6378692 TCCATACTGAGCTATGATACGTAGGTATGGCATCAT
1 -CCATACCGAGTTATGAAACGTAGGTATGGTATTAG
* ** *
6378728 CCATACTGAGTTATGAAATATAGGAATGGTATT-G
1 CCATACCGAGTTATGAAACGTAGGTATGGTATTAG
* * * **
6378762 TCCATACCGAG-CATGAAAAGTAGGTATGGTGTTTT
1 -CCATACCGAGTTATGAAACGTAGGTATGGTATTAG
*
6378797 CCATACCGAGTTGTGAAACGTAGGTATGGTATT
1 CCATACCGAGTTATGAAACGTAGGTATGGTATT
6378830 TCAATGAGGA
Statistics
Matches: 195, Mismatches: 40, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
33 1 0.01
34 54 0.28
35 140 0.72
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (35 bp):
CCATACCGAGTTATGAAACGTAGGTATGGTATTAG
Found at i:6378733 original size:104 final size:105
Alignment explanation
Indices: 6378552--6378825 Score: 320
Period size: 104 Copynumber: 2.6 Consensus size: 105
6378542 ACCGTGGTTG
* * * * *
6378552 GTCCATACCGAGTTGTGAAATGTAGGTATGGTATTAG-CCATACTGAGTTGTGAAACATAGGTAT
1 GTCCATACCGAGCTATGAAAAGTAGGTATGG-AGTAGTCCATACTGAGTTGTGAAACGTAGGTAT
* * * *
6378616 GGCATTAACCATACTGAGCTGTGAAACGTAGGTATGGTATT
65 GGCATCAACCATACTGAGCTATGAAACATAGGAATGGTATT
* * * * * *
6378657 -TCCATACCGAGCTATGAAACGTAGGTATGGCGTCGTCCATACTGAGCTATGATACGTAGGTATG
1 GTCCATACCGAGCTATGAAAAGTAGGTATGGAGTAGTCCATACTGAGTTGTGAAACGTAGGTATG
* * *
6378721 GCATCATCCATACTGAGTTATGAAATATAGGAATGGTATT
66 GCATCAACCATACTGAGCTATGAAACATAGGAATGGTATT
* ** *
6378761 GTCCATACCGAGC-ATGAAAAGTAGGTATGGTGTTTTCCATACCGAGTTGTGAAACGTAGGTATG
1 GTCCATACCGAGCTATGAAAAGTAGGTATGGAGTAGTCCATACTGAGTTGTGAAACGTAGGTATG
6378825 G
66 G
6378826 TATTTCAATG
Statistics
Matches: 142, Mismatches: 25, Indels: 5
0.83 0.15 0.03
Matches are distributed among these distances:
103 2 0.01
104 128 0.90
105 12 0.08
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.29
Consensus pattern (105 bp):
GTCCATACCGAGCTATGAAAAGTAGGTATGGAGTAGTCCATACTGAGTTGTGAAACGTAGGTATG
GCATCAACCATACTGAGCTATGAAACATAGGAATGGTATT
Found at i:6378985 original size:31 final size:31
Alignment explanation
Indices: 6378925--6378985 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
6378915 ATAAGTAATT
* *
6378925 TGATTAGTGAAAAATGGTAGCTCCGGCTACC
1 TGATCAGTGAAAAATGGTAGCTCCAGCTACC
* * *
6378956 TGATCAGTGAATAGTGGTAGCTTCAGCTAC
1 TGATCAGTGAAAAATGGTAGCTCCAGCTAC
6378986 AAATGACAAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (31 bp):
TGATCAGTGAAAAATGGTAGCTCCAGCTACC
Found at i:6392634 original size:15 final size:15
Alignment explanation
Indices: 6392614--6392648 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
6392604 TGTCTATAAC
6392614 ATAAAAACA-TTTAAT
1 ATAAAAA-ATTTTAAT
6392629 ATAAAAAATTTTAAT
1 ATAAAAAATTTTAAT
6392644 ATAAA
1 ATAAA
6392649 TGAGCTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 1 0.05
15 18 0.95
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (15 bp):
ATAAAAAATTTTAAT
Found at i:6396422 original size:43 final size:43
Alignment explanation
Indices: 6396100--6396409 Score: 322
Period size: 43 Copynumber: 7.1 Consensus size: 43
6396090 GATAAATCCC
* * *
6396100 GCAGGCTTCGTGCAGGT-AT-TATATTCAGGCCTTCGTGCCTA
1 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
6396141 GCAGGCTTCTTGCCGGTGATATGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* ** * * * * **
6396184 GCAGGCGTAATGCCGGTGAAATGATATGTTATGTGAATTCGGTGTTCCT-
1 GCAGGCTTCGTGCCGGTG--ATG-TGTATT-CGGGCCTTC-GTG--CCTA
* * *
6396233 -TAGGCTTTGTGCTGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* * *
6396275 GCAGGCTTCGTGCTGGTGATATGTATTCGGGCCTTCATGCCTA
1 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* * *
6396318 GCAGGTTTCGTTCCGGTGATGTATATTCGGGCCTTCGTGCCTA
1 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
6396361 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
6396404 GCAGGC
1 GCAGGC
6396410 GTAATGCCGG
Statistics
Matches: 220, Mismatches: 38, Indels: 20
0.79 0.14 0.07
Matches are distributed among these distances:
41 18 0.08
42 2 0.01
43 159 0.72
44 5 0.02
45 6 0.03
46 7 0.03
47 5 0.02
48 15 0.07
50 3 0.01
ACGTcount: A:0.14, C:0.22, G:0.31, T:0.33
Consensus pattern (43 bp):
GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
Found at i:6402199 original size:21 final size:21
Alignment explanation
Indices: 6402175--6402222 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
6402165 GTAATATTAA
*
6402175 ATTTTAA-TTAATAGATAAATT
1 ATTTTAATTTAAAAGAT-AATT
6402196 A-TTTAATTTAAAAGATAATT
1 ATTTTAATTTAAAAGATAATT
6402216 ATTTTAA
1 ATTTTAA
6402223 AAGCTATCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (21 bp):
ATTTTAATTTAAAAGATAATT
Found at i:6402202 original size:20 final size:20
Alignment explanation
Indices: 6402177--6402219 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
6402167 AATATTAAAT
*
6402177 TTTAA-TTAATAGATAAATTA
1 TTTAATTTAAAAGAT-AATTA
6402197 TTTAATTTAAAAGATAATTA
1 TTTAATTTAAAAGATAATTA
6402217 TTT
1 TTT
6402220 TAAAAGCTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.49
Consensus pattern (20 bp):
TTTAATTTAAAAGATAATTA
Found at i:6403913 original size:30 final size:31
Alignment explanation
Indices: 6403854--6403913 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
6403844 AATTTTGAAT
* *
6403854 TAAATAATTAAGTTATTTTGATCAACTCGAC
1 TAAAAAATTAAGTTATTTGGATCAACTCGAC
* *
6403885 TAAAAAATTAAGTT-TTTGGTTTAACTCGA
1 TAAAAAATTAAGTTATTTGGATCAACTCGA
6403914 ATATAAATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 12 0.48
31 13 0.52
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (31 bp):
TAAAAAATTAAGTTATTTGGATCAACTCGAC
Found at i:6405323 original size:28 final size:28
Alignment explanation
Indices: 6405292--6405350 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
6405282 TATATGATAT
6405292 ATTAGATATATAATTAAATA-TTAATCTA
1 ATTAGATATATAATTAAATACTT-ATCTA
** * *
6405320 ATTATTTATTTACTTAAATACTTATCTA
1 ATTAGATATATAATTAAATACTTATCTA
6405348 ATT
1 ATT
6405351 TATTTTTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 24 0.92
29 2 0.08
ACGTcount: A:0.42, C:0.07, G:0.02, T:0.49
Consensus pattern (28 bp):
ATTAGATATATAATTAAATACTTATCTA
Found at i:6405586 original size:17 final size:17
Alignment explanation
Indices: 6405547--6405589 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
6405537 CCCGCAACAG
*
6405547 TAAAAAAACACTGAAAA
1 TAAAAAAAAACTGAAAA
6405564 -AGAAAAAAAACTGAAAA
1 TA-AAAAAAAACTGAAAA
6405581 TAAAAAAAA
1 TAAAAAAAA
6405590 TAAAAAAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 1 0.04
17 21 0.91
18 1 0.04
ACGTcount: A:0.77, C:0.07, G:0.07, T:0.09
Consensus pattern (17 bp):
TAAAAAAAAACTGAAAA
Found at i:6405768 original size:3 final size:3
Alignment explanation
Indices: 6405760--6405826 Score: 68
Period size: 3 Copynumber: 23.0 Consensus size: 3
6405750 TTCGGGAACA
* * *
6405760 AAG AAG AAG AAG AAA AAG AA- AAG AAG GAG AAG AAG GA- AAG AAG -AG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
*
6405805 AAG AAG AAG AAAG AAA AAG AAG
1 AAG AAG AAG -AAG AAG AAG AAG
6405827 GGGAGGAGGA
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
2 5 0.10
3 44 0.85
4 3 0.06
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:6405785 original size:17 final size:16
Alignment explanation
Indices: 6405760--6405812 Score: 65
Period size: 16 Copynumber: 3.3 Consensus size: 16
6405750 TTCGGGAACA
6405760 AAGAAGAAGAAGA-AA-
1 AAGAA-AAGAAGAGAAG
6405775 AAGAAAAGAAGGAGAAG
1 AAGAAAAGAA-GAGAAG
*
6405792 AAGGAAAGAAGAGAAG
1 AAGAAAAGAAGAGAAG
6405808 AAGAA
1 AAGAA
6405813 GAAAGAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
14 5 0.15
15 7 0.21
16 12 0.36
17 9 0.27
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (16 bp):
AAGAAAAGAAGAGAAG
Found at i:6405912 original size:17 final size:17
Alignment explanation
Indices: 6405855--6405914 Score: 50
Period size: 19 Copynumber: 3.4 Consensus size: 17
6405845 ACGGCAGTTG
* *
6405855 AAAGAAGA-AAAAAGAA
1 AAAGAAGAGAGAAGGAA
*
6405871 AAAGAAAAAGAGAAGGAGA
1 AAAG-AAGAGAGAAGGA-A
*
6405890 AGAAGAAGAGGGAAGGAA
1 A-AAGAAGAGAGAAGGAA
6405908 AAAGAAG
1 AAAGAAG
6405915 GAAAAGAAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
16 4 0.11
17 9 0.26
18 7 0.20
19 12 0.34
20 3 0.09
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (17 bp):
AAAGAAGAGAGAAGGAA
Found at i:6406564 original size:137 final size:138
Alignment explanation
Indices: 6406411--6407892 Score: 1206
Period size: 152 Copynumber: 10.2 Consensus size: 138
6406401 AATAATATAA
* * * *
6406411 AAAATAAAATATGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATAAAAAAATACGAACAAG
1 AAAATAAAATACGAAAATAATATATTTTAAAAAATAAAATACGAAAATAAAAAAATACGAACAAA
* * **
6406476 GTGCCAAATTCAGGGTTATTTATTAAATTAATATAAAAAA-ACTTAAATAATACATTTGCAAGGT
66 GTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAACACTTAAATAATACATTTGAAACAT
*
6406540 TTTCTGCT
131 TTTTTGCT
* * *
6406548 AACATAAAATACGAAAATAATATATTTTAAAAAATAAAATCCGAAAATAAAAAAATACGAACAAG
1 AAAATAAAATACGAAAATAATATATTTTAAAAAATAAAATACGAAAATAAAAAAATACGAACAAA
* **
6406613 GTGCCAAATTCAGGGTTATTTATTAAATTAATATAAAAAA-ACTTAAATAATACATTTGAAAGGT
66 GTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAACACTTAAATAATACATTTGAAACAT
*
6406677 TTTATGCT
131 TTTTTGCT
* *
6406685 AAAATAAAATACGAAAATAATATATTTTAAAAAATAAAATCCGAAAATAAAAAAATACGAACAAG
1 AAAATAAAATACGAAAATAATATATTTTAAAAAATAAAATACGAAAATAAAAAAATACGAACAAA
*
6406750 GTGCCAAATTCAGGGTTATTTATTAAATTAATATAAAAAA-ACTTAAATAATACATTTGAAACAT
66 GTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAACACTTAAATAATACATTTGAAACAT
**
6406814 TATGTACTAAAATAATAT
131 T-T-T--T----T--GCT
* * *
6406832 AAAGAAATAAAATACGAAAATAAGATATTTTAAAAAATAAGATACAAAAATAAAAAAATTACGAA
1 --A-AAATAAAATACGAAAATAATATATTTTAAAAAATAAAATACGAAAATAAAAAAA-TACGAA
* ** * * *
6406897 GAAAGTGTTAAAATCATGGTTATTTATTAAATTAATATAAAGAAATACTTAAGTAATACATTTGA
62 CAAAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAA-AAACACTTAAATAATACATTTGA
6406962 AACATTTTTTGCT
126 AACATTTTTTGCT
* ** ** * ** *
6406975 AAAATAATATAAAAAAATAATATA-TGAAAATAATATATTTTAAAAAATAATATACGAAAAAAAT
1 AAAATAAAATACGAAAATAATATATTTTAAA-AA-ATA----AAATACGAA-A-A-TAAAAAAAT
* * * *
6407039 ACGAATAAAGTGCTAAAATCAGGGTTATTTATTCAATTAATATAAAAAAACACTTACATAATACA
57 ACGAACAAAGTGCCAAAATCAGGGTTATTTATTAAATTAATAT-AAAAAACACTTAAATAATACA
6407104 TTTGAAACATTTTTTGCT
121 TTTGAAACATTTTTTGCT
* *
6407122 AAAATAATATAAAAAAATAATATATGAAAATAATATATTTTAAAAAATAAGATACGAAAATAAAA
1 ---A-AA-AT------A-AA-ATACGAAAATAATATATTTTAAAAAATAAAATACGAAAATAAAA
* * * *
6407187 AAATACGAAGAAAGTGTCAAAATCAGGGTTATTTATTCAATTAATATAAAAAAACACTTACATAA
53 AAATACGAACAAAGTGCCAAAATCAGGGTTATTTATTAAATTAATAT-AAAAAACACTTAAATAA
6407252 TACATTTGAAACATTTTTTGCTAAAATAATAT
117 TACATTTGAAACATTTTTTGC----------T
* * *
6407284 AAAAAAATAAAATATGAAAATAATATATTTTAAAAAATAAGATACGAAAATAAAAAAATACGAAG
1 ---AAAATAAAATACGAAAATAATATATTTTAAAAAATAAAATACGAAAATAAAAAAATACGAAC
* * *
6407349 AAAGTGTCAAAATCAGGGTTATTTATTCAATTAATATAAAAAAACACTTACATAATACATTTGAA
63 AAAGTGCCAAAATCAGGGTTATTTATTAAATTAATAT-AAAAAACACTTAAATAATACATTTGAA
6407414 ACATTTTTTGCT
127 ACATTTTTTGCT
* ** * ** * ** *
6407426 AAAATAATATAAAAAAATAAAATA-TGAAAATAATATATTTTAAAAAATAATATAGGAAAAAAAT
1 AAAATAAAATACGAAAATAATATATTTTAAA-AA-ATA----AAATACGAA-A-A-TAAAAAAAT
* * * * * ** * *
6407490 AAGAATAAAGTGCTAAAATAAGGATTATTTATTAAAAAAATATAAAAAAGACTCAAATAATACAT
57 ACGAACAAAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAACACTTAAATAATACAT
**
6407555 TTGAAACATTATGTACTAAAATAATAT
122 TTGAAACATT-T-T--T----T--GCT
* * *
6407582 AAAGAAATAAAATACGAAAATAATATATTTTAAAAAAGAAGATAC------AAAAAAATACGAAT
1 --A-AAATAAAATACGAAAATAATATATTTTAAAAAATAAAATACGAAAATAAAAAAATACGAAC
** ** * *
6407641 AAAGTGCTGAAATCAGGGTTATTTATTAAAAAAATATAAAAAATATTTAAATAATACATTTGAAA
63 AAAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAACACTTAAATAATACATTTGAAA
**
6407706 CATTATGTACTAAAATAATAT
128 CATT-T-T--T----T--GCT
* * * *
6407727 AAAGAAATAAAATACAAAAATAATATATTTTAAAAAAGAAGATACGAAACTAAAAAAAATACGAA
1 --A-AAATAAAATACGAAAATAATATATTTTAAAAAATAAAATACGAAAAT-AAAAAAATACGAA
* * *
6407792 GAAAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAATACTTACATAATACATTTGA
62 CAAAGTGCCAAAATCAGGGTTATTTATTAAATTAATAT-AAAAAACACTTAAATAATACATTTGA
6407857 AACATTTTTTGCT
126 AACATTTTTTGCT
* *
6407870 AAAATAATATA-AAAAATAATATA
1 AAAATAAAATACGAAAATAATATA
6407893 CGAAAATATT
Statistics
Matches: 1156, Mismatches: 108, Indels: 160
0.81 0.08 0.11
Matches are distributed among these distances:
137 259 0.22
138 5 0.00
139 39 0.03
140 33 0.03
141 5 0.00
142 1 0.00
143 2 0.00
144 5 0.00
145 146 0.13
146 31 0.03
147 118 0.10
148 11 0.01
149 3 0.00
150 52 0.04
151 45 0.04
152 270 0.23
153 57 0.05
154 6 0.01
155 5 0.00
156 1 0.00
158 4 0.00
159 25 0.02
160 22 0.02
161 6 0.01
162 5 0.00
ACGTcount: A:0.55, C:0.07, G:0.08, T:0.29
Consensus pattern (138 bp):
AAAATAAAATACGAAAATAATATATTTTAAAAAATAAAATACGAAAATAAAAAAATACGAACAAA
GTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAACACTTAAATAATACATTTGAAACAT
TTTTTGCT
Found at i:6407004 original size:15 final size:15
Alignment explanation
Indices: 6406975--6407036 Score: 67
Period size: 15 Copynumber: 4.3 Consensus size: 15
6406965 ATTTTTTGCT
6406975 AAAATAATATA--AA
1 AAAATAATATATGAA
6406988 AAAATAATATATGAA
1 AAAATAATATATGAA
* *
6407003 AATAAT-ATATTTTAA
1 AA-AATAATATATGAA
*
6407018 AAAATAATATACGAA
1 AAAATAATATATGAA
6407033 AAAA
1 AAAA
6407037 ATACGAATAA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
13 11 0.28
14 3 0.08
15 23 0.57
16 3 0.08
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (15 bp):
AAAATAATATATGAA
Found at i:6407012 original size:13 final size:13
Alignment explanation
Indices: 6406975--6407012 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
6406965 ATTTTTTGCT
*
6406975 AAAATAATATAAA
1 AAAATAATATATA
*
6406988 AAAATAATATATG
1 AAAATAATATATA
6407001 AAAATAATATAT
1 AAAATAATATAT
6407013 TTTAAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (13 bp):
AAAATAATATATA
Found at i:6407159 original size:13 final size:13
Alignment explanation
Indices: 6407122--6407159 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
6407112 ATTTTTTGCT
*
6407122 AAAATAATATAAA
1 AAAATAATATATA
*
6407135 AAAATAATATATG
1 AAAATAATATATA
6407148 AAAATAATATAT
1 AAAATAATATAT
6407160 TTTAAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (13 bp):
AAAATAATATATA
Found at i:6407269 original size:152 final size:151
Alignment explanation
Indices: 6406685--6407900 Score: 1648
Period size: 152 Copynumber: 8.1 Consensus size: 151
6406675 GTTTTATGCT
* * * *
6406685 AAAATAAAATACGAAAATAATATATTTTAAAAAATAAAATCCGAAAATAAAAAAATACGAACAAG
1 AAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAAAAAAATACGAAGAAA
* *
6406750 GTGCCAAATTCAGGGTTATTTATTAAATTAATAT-AAAAAA-ACTTAAATAATACATTTGAAACA
66 GTG-CAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTACATAATACATTTGAAACA
* * *
6406813 TTATGTACTAAAATAATATAAA
130 TTTTTTGCTAAAATAATATAAA
* * *
6406835 GAAATAAAATACGAAAATAAGATATTTTAAAAAATAAGATACAAAAATAAAAAAATTACGAAGAA
1 AAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAAAAAAA-TACGAAGAA
* * * *
6406900 AGTGTTAAAATCATGGTTATTTATTAAATTAATATAAAGAAATACTTA-AGTAATACATTTGAAA
65 AGTG-CAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTACA-TAATACATTTGAAA
6406964 CATTTTTTGCTAAAATAATATAAA
128 CATTTTTTGCTAAAATAATATAAA
* * * *
6406988 AAAATAATATATGAAAATAATATATTTTAAAAAATAATATACG-----AAAAAAATACGAATAAA
1 AAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAAAAAAATACGAAGAAA
*
6407048 GTGCTAAAATCAGGGTTATTTATTCAATTAATATAAAAAAACACTTACATAATACATTTGAAACA
66 GTGC-AAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTACATAATACATTTGAAACA
6407113 TTTTTTGCTAAAATAATATAAA
130 TTTTTTGCTAAAATAATATAAA
* *
6407135 AAAATAATATATGAAAATAATATATTTTAAAAAATAAGATACGAAAATAAAAAAATACGAAGAAA
1 AAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAAAAAAATACGAAGAAA
*
6407200 GTGTCAAAATCAGGGTTATTTATTCAATTAATATAAAAAAACACTTACATAATACATTTGAAACA
66 GTG-CAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTACATAATACATTTGAAACA
6407265 TTTTTTGCTAAAATAATATAAA
130 TTTTTTGCTAAAATAATATAAA
*
6407287 AAAATAAAATATGAAAATAATATATTTTAAAAAATAAGATACGAAAATAAAAAAATACGAAGAAA
1 AAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAAAAAAATACGAAGAAA
*
6407352 GTGTCAAAATCAGGGTTATTTATTCAATTAATATAAAAAAACACTTACATAATACATTTGAAACA
66 GTG-CAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTACATAATACATTTGAAACA
6407417 TTTTTTGCTAAAATAATATAAA
130 TTTTTTGCTAAAATAATATAAA
* * * * *
6407439 AAAATAAAATATGAAAATAATATATTTTAAAAAATAATATA-G----GAAAAAAATAAGAATAAA
1 AAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAAAAAAATACGAAGAAA
* * ** * * *
6407499 GTGCTAAAATAAGGATTATTTATTAAAAAAATAT-AAAAAAGACTCAAATAATACATTTGAAACA
66 GTGC-AAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTACATAATACATTTGAAACA
* * *
6407563 TTATGTACTAAAATAATATAAA
130 TTTTTTGCTAAAATAATATAAA
* * *
6407585 GAAATAAAATACGAAAATAATATATTTTAAAAAAGAAGATAC------AAAAAAATACGAATAAA
1 AAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAAAAAAATACGAAGAAA
* ** * * *
6407644 GTGCTGAAATCAGGGTTATTTATTAAAAAAATAT-AAAAAATATTTAAATAATACATTTGAAACA
66 GTGC-AAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTACATAATACATTTGAAACA
* * *
6407708 TTATGTACTAAAATAATATAAA
130 TTTTTTGCTAAAATAATATAAA
* * * *
6407730 GAAATAAAATACAAAAATAATATATTTTAAAAAAGAAGATACGAAACTAAAAAAAATACGAAGAA
1 AAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAAT-AAAAAAATACGAAGAA
*
6407795 AGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAATACTTACATAATACATTTGAAAC
65 AGTG-CAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTACATAATACATTTGAAAC
6407860 ATTTTTTGCTAAAATAATAT-AA
129 ATTTTTTGCTAAAATAATATAAA
*
6407882 AAAATAATATACGAAAATA
1 AAAATAAAATACGAAAATA
6407901 TTTTACTTAT
Statistics
Matches: 974, Mismatches: 69, Indels: 44
0.90 0.06 0.04
Matches are distributed among these distances:
145 137 0.14
146 84 0.09
147 172 0.18
148 8 0.01
150 50 0.05
151 39 0.04
152 361 0.37
153 123 0.13
ACGTcount: A:0.56, C:0.07, G:0.08, T:0.29
Consensus pattern (151 bp):
AAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAAAAAAATACGAAGAAA
GTGCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTACATAATACATTTGAAACAT
TTTTTGCTAAAATAATATAAA
Found at i:6412658 original size:21 final size:21
Alignment explanation
Indices: 6412632--6412674 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
6412622 CCAAAAGTTG
6412632 GGGCTAATGTTATTAAATTAA
1 GGGCTAATGTTATTAAATTAA
*
6412653 GGGCTAATGTTATTAGATTAA
1 GGGCTAATGTTATTAAATTAA
6412674 G
1 G
6412675 TTAATGTTGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.05, G:0.23, T:0.37
Consensus pattern (21 bp):
GGGCTAATGTTATTAAATTAA
Found at i:6415368 original size:24 final size:24
Alignment explanation
Indices: 6415341--6415421 Score: 62
Period size: 24 Copynumber: 3.4 Consensus size: 24
6415331 CAAAATAAAG
6415341 TCTAAATTATCAACCATAAATTAA
1 TCTAAATTATCAACCATAAATTAA
* *
6415365 TCTAAATATGTTTAA-C-TAAAGTCTAA
1 TCTAAAT-T-ATCAACCATAAA-T-TAA
* *
6415391 T-T-AATTAACAACCATAAAGTAA
1 TCTAAATTATCAACCATAAATTAA
6415413 TCTAAATTA
1 TCTAAATTA
6415422 AAATTAGGGT
Statistics
Matches: 43, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
22 6 0.14
23 3 0.07
24 23 0.53
25 4 0.09
26 7 0.16
ACGTcount: A:0.48, C:0.14, G:0.04, T:0.35
Consensus pattern (24 bp):
TCTAAATTATCAACCATAAATTAA
Found at i:6416116 original size:23 final size:23
Alignment explanation
Indices: 6416072--6416116 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
6416062 GTATATTAAA
**
6416072 ATTAAAAATAAAATGTAAATATG
1 ATTAAAAATAAAAAATAAATATG
*
6416095 ATTAAAAATAAAAAATATATAT
1 ATTAAAAATAAAAAATAAATAT
6416117 TTATTATAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.31
Consensus pattern (23 bp):
ATTAAAAATAAAAAATAAATATG
Found at i:6416726 original size:24 final size:24
Alignment explanation
Indices: 6416694--6416746 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
6416684 AAGCAAAATA
*
6416694 ATAAATACAGCCTAAGTTTGTGAC
1 ATAAGTACAGCCTAAGTTTGTGAC
6416718 ATAAGTACAGCCTAAGTTTGTGAC
1 ATAAGTACAGCCTAAGTTTGTGAC
6416742 ATAAG
1 ATAAG
6416747 CAGCCCACCC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (24 bp):
ATAAGTACAGCCTAAGTTTGTGAC
Found at i:6418569 original size:25 final size:25
Alignment explanation
Indices: 6418535--6418587 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
6418525 ATTTCTCTGC
6418535 ATGATGATATATACATGAGGTAAGA
1 ATGATGATATATACATGAGGTAAGA
6418560 ATGATGATATATACATGAGGTAAGA
1 ATGATGATATATACATGAGGTAAGA
6418585 ATG
1 ATG
6418588 GTGCTGGGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.43, C:0.04, G:0.25, T:0.28
Consensus pattern (25 bp):
ATGATGATATATACATGAGGTAAGA
Found at i:6421213 original size:16 final size:16
Alignment explanation
Indices: 6421177--6421216 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
6421167 ATAACATTAC
6421177 ATAATATA-ATAATAA
1 ATAATATATATAATAA
*
6421192 ACAATATATATAATAA
1 ATAATATATATAATAA
*
6421208 TTAATATAT
1 ATAATATAT
6421217 CATGTATTAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
ATAATATATATAATAA
Found at i:6422829 original size:3 final size:3
Alignment explanation
Indices: 6422821--6422850 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
6422811 GAAAAAGAAT
*
6422821 TAA TAA TAA TAA CAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
6422851 AGGAAAAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:6426951 original size:31 final size:32
Alignment explanation
Indices: 6426898--6426957 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
6426888 GTCCATAGAT
*
6426898 ATTAATTTGTTGAATAATTATTAAATTTTGGA
1 ATTAATTTGTTGAAAAATTATTAAATTTTGGA
* *
6426930 ATTAATTT-TTTAAAAATTATTATATTTT
1 ATTAATTTGTTGAAAAATTATTAAATTTT
6426958 AAAGAAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 17 0.68
32 8 0.32
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (32 bp):
ATTAATTTGTTGAAAAATTATTAAATTTTGGA
Found at i:6430395 original size:14 final size:15
Alignment explanation
Indices: 6430376--6430404 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
6430366 TCTTAAGCTT
6430376 CAAGGCAAAC-ACCA
1 CAAGGCAAACTACCA
6430390 CAAGGCAAACTACCA
1 CAAGGCAAACTACCA
6430405 TAACAGTAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.48, C:0.34, G:0.14, T:0.03
Consensus pattern (15 bp):
CAAGGCAAACTACCA
Found at i:6431209 original size:29 final size:29
Alignment explanation
Indices: 6431160--6431216 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 29
6431150 ATTCTTAAAA
*
6431160 ATAAAAATACAAAAATTAAATTTTAAATTT
1 ATAAAAATACAAAAA-TAAATTATAAATTT
6431190 ATAAAAACTACAAAAA-AAATTATAAAT
1 ATAAAAA-TACAAAAATAAATTATAAAT
6431217 ATTTTAACCT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 10 0.40
30 7 0.28
31 8 0.32
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (29 bp):
ATAAAAATACAAAAATAAATTATAAATTT
Found at i:6432042 original size:18 final size:19
Alignment explanation
Indices: 6432018--6432057 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
6432008 AGTATATTAT
*
6432018 AATTTTTTACATTTTTTAA
1 AATTTTATACATTTTTTAA
*
6432037 AATTTTATACTTTTTTTAA
1 AATTTTATACATTTTTTAA
6432056 AA
1 AA
6432058 AGTTATAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (19 bp):
AATTTTATACATTTTTTAA
Found at i:6432143 original size:22 final size:22
Alignment explanation
Indices: 6432114--6432162 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
6432104 TGTTTTTAGT
6432114 AATT-TTTTTATAA-TTTTTAAA
1 AATTCTTTTT-TAATTTTTTAAA
*
6432135 AATTCTTTTTTAATTTTTTCAA
1 AATTCTTTTTTAATTTTTTAAA
6432157 AATTCT
1 AATTCT
6432163 AATTTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 7 0.28
22 18 0.72
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (22 bp):
AATTCTTTTTTAATTTTTTAAA
Found at i:6432173 original size:22 final size:21
Alignment explanation
Indices: 6432098--6432175 Score: 61
Period size: 22 Copynumber: 3.7 Consensus size: 21
6432088 AATTTTCTAA
**
6432098 TTTTTATGTTTTTAGTAATT-T
1 TTTTTAT-TTTTTAAAAATTCT
*
6432119 TTTTATAATTTTTAAAAATTCT
1 TTTT-TATTTTTTAAAAATTCT
*
6432141 TTTTTAATTTTTTCAAAATTCT
1 TTTTT-ATTTTTTAAAAATTCT
**
6432163 AATTT-TTTTTTAA
1 TTTTTATTTTTTAA
6432176 TTTTAAAGAT
Statistics
Matches: 46, Mismatches: 8, Indels: 7
0.75 0.13 0.11
Matches are distributed among these distances:
20 7 0.15
21 15 0.33
22 24 0.52
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.65
Consensus pattern (21 bp):
TTTTTATTTTTTAAAAATTCT
Found at i:6434863 original size:13 final size:13
Alignment explanation
Indices: 6434845--6434869 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6434835 GTTTGGCAAT
6434845 ACTTTTAAAAAGG
1 ACTTTTAAAAAGG
6434858 ACTTTTAAAAAG
1 ACTTTTAAAAAG
6434870 TAGTTATGAA
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:0.48, C:0.08, G:0.12, T:0.32
Consensus pattern (13 bp):
ACTTTTAAAAAGG
Found at i:6437641 original size:18 final size:18
Alignment explanation
Indices: 6437618--6437652 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
6437608 TTGTTTTTAA
6437618 GTATTGTAATATATTATT
1 GTATTGTAATATATTATT
*
6437636 GTATTGTATTATATTAT
1 GTATTGTAATATATTAT
6437653 GTAATTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.11, T:0.57
Consensus pattern (18 bp):
GTATTGTAATATATTATT
Found at i:6449235 original size:33 final size:33
Alignment explanation
Indices: 6449198--6449321 Score: 194
Period size: 33 Copynumber: 3.8 Consensus size: 33
6449188 CTCTGTTTCA
* *
6449198 GGTTGCTGGATAGGAGCTAGAATGTGAGTGTTT
1 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
*
6449231 GGTTGCTGGACGGGAGCTGGAATGTGAGTGTTT
1 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
* *
6449264 GGTTGCTAGACAGGAGCTGAAATGTGAGTGTTT
1 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
*
6449297 GGTTGCTGGACAGTAGCTGGAATGT
1 GGTTGCTGGACAGGAGCTGGAATGT
6449322 CAAGAAGAAA
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 82 1.00
ACGTcount: A:0.20, C:0.09, G:0.40, T:0.31
Consensus pattern (33 bp):
GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
Found at i:6456295 original size:20 final size:20
Alignment explanation
Indices: 6456270--6456308 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
6456260 AGTTATGGGT
6456270 TGAATTAGATTT-TAATTAGG
1 TGAATT-GATTTCTAATTAGG
*
6456290 TGAATTTATTTCTAATTAG
1 TGAATTGATTTCTAATTAG
6456309 AAGTAATTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.33, C:0.03, G:0.15, T:0.49
Consensus pattern (20 bp):
TGAATTGATTTCTAATTAGG
Found at i:6456517 original size:3 final size:3
Alignment explanation
Indices: 6456509--6456555 Score: 71
Period size: 3 Copynumber: 16.0 Consensus size: 3
6456499 AGATATTTAC
6456509 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TT- TTA TCTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
6456553 TTA
1 TTA
6456556 ATTCAGAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.10
3 34 0.83
4 3 0.07
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:6456770 original size:16 final size:16
Alignment explanation
Indices: 6456749--6456780 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
6456739 AACGAAATAG
*
6456749 AAAGAAAGAAGAAAAA
1 AAAGAAAAAAGAAAAA
6456765 AAAGAAAAAAGAAAAA
1 AAAGAAAAAAGAAAAA
6456781 TTAGAGTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (16 bp):
AAAGAAAAAAGAAAAA
Found at i:6464030 original size:9 final size:9
Alignment explanation
Indices: 6464016--6464041 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
6464006 GCCACCGCTG
6464016 CACGCGCCT
1 CACGCGCCT
6464025 CACGCGCCT
1 CACGCGCCT
6464034 CACGCGCC
1 CACGCGCC
6464042 ACCGTACATG
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:0.12, C:0.58, G:0.23, T:0.08
Consensus pattern (9 bp):
CACGCGCCT
Found at i:6465008 original size:76 final size:76
Alignment explanation
Indices: 6464913--6465141 Score: 359
Period size: 76 Copynumber: 3.0 Consensus size: 76
6464903 ACCTGTTATG
* *
6464913 TCTTTGATCTGCTTCAATGAAGGTCAGATCTGCTGTCTTCAATCTGCTCTCCGTCTAATATAGAG
1 TCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTGTCTTCAATCTGCTCTCCGTCTAATACAGAG
6464978 ATGCCAAATCA
66 ATGCCAAATCA
* * * *
6464989 TCTTGGATCTGTTTCAATGAAGGTCAGATCTGCTGTCTTCGATCTGCTCCCCGTCTAATACAGAA
1 TCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTGTCTTCAATCTGCTCTCCGTCTAATACAGAG
6465054 ATGCCAAATCA
66 ATGCCAAATCA
* * *
6465065 TCTCGGATCTGCTTCAATGAAGGTAAGATCTGCTGCGTCTTTAATCTGCTCTCCGTCTAATACAG
1 TCTTGGATCTGCTTCAATGAAGGTCAGATCTGCT--GTCTTCAATCTGCTCTCCGTCTAATACAG
6465130 AGATGCCAAATC
64 AGATGCCAAATC
6465142 TGCTATCTTC
Statistics
Matches: 138, Mismatches: 13, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
76 101 0.73
78 37 0.27
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.32
Consensus pattern (76 bp):
TCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTGTCTTCAATCTGCTCTCCGTCTAATACAGAG
ATGCCAAATCA
Found at i:6465205 original size:198 final size:197
Alignment explanation
Indices: 6464940--6465337 Score: 618
Period size: 198 Copynumber: 2.0 Consensus size: 197
6464930 TGAAGGTCAG
* * * * *
6464940 ATCTGCTGTCTTCAATCTGCTCTCCGTCTAATATAGAGATGCCAAATCATCTTGGATCTGTTTCA
1 ATCTGCTATCTTCAATCTGCTCTCCGACTAATACAGAGATGCCAAATCATCTTGGAGCTGCTTCA
*
6465005 ATGAAGGTCAGATCTGCTGTCTTCGATCTGCTCCCCGTCTAATACAGAAATGCCAAATCATCTCG
66 ATGAAGGTCAGATCTGCTGTCTTCGATCTGCTCCCCATCTAATACAGAAATGCCAAATCATCTCG
* * *
6465070 GATCTGCTTCAATGAAGGTAAGATCTGCTGCGTCTTTAATCTGCTCTCCGTCTAATACAGAGATG
131 GATCTGCTTCAATGAAGGTAAGATCTACT--GTCTTCAATCTGCTCCCCGTCTAATACAGAGATG
6465135 CCAA
194 CCAA
*
6465139 ATCTGCTATCTTCAATCTGCTCTCTGAC-AATACAGAGATGCCAAATCATCTTGGAGCTGCTTCA
1 ATCTGCTATCTTCAATCTGCTCTCCGACTAATACAGAGATGCCAAATCATCTTGGAGCTGCTTCA
* * *
6465203 ATGAAGGTCAGATCTGCTGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATTATCTTG
66 ATGAAGGTCAGATCTGCTGTCTTCGATCTGCTCCCCATCTAATACAGAAATGCCAAATCATCTCG
* * * *
6465268 GATCTGCTTCAATGAAGTTCAGGTCTACTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCC
131 GATCTGCTTCAATGAAGGTAAGATCTACTGTCTTCAATCTGCTCCCCGTCTAATACAGAGATGCC
6465333 AA
196 AA
6465335 ATC
1 ATC
6465338 ATCTTAGATT
Statistics
Matches: 182, Mismatches: 17, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
196 38 0.21
198 119 0.65
199 25 0.14
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (197 bp):
ATCTGCTATCTTCAATCTGCTCTCCGACTAATACAGAGATGCCAAATCATCTTGGAGCTGCTTCA
ATGAAGGTCAGATCTGCTGTCTTCGATCTGCTCCCCATCTAATACAGAAATGCCAAATCATCTCG
GATCTGCTTCAATGAAGGTAAGATCTACTGTCTTCAATCTGCTCCCCGTCTAATACAGAGATGCC
AA
Found at i:6465266 original size:76 final size:76
Alignment explanation
Indices: 6465139--6465448 Score: 460
Period size: 76 Copynumber: 4.1 Consensus size: 76
6465129 GAGATGCCAA
* * * * * *
6465139 ATCTGCTATCTTCAATCTGCTCTCTGAC-AATACAGAGATGCCAAATCATCTTGGAGCTGCTTCA
1 ATCTGCTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCA
6465203 ATGAAGGTCAG
66 ATGAAGGTCAG
* *
6465214 ATCTGCTGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATTATCTTGGATCTGCTTCA
1 ATCTGCTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCA
*
6465279 ATGAAGTTCAG
66 ATGAAGGTCAG
* * * * *
6465290 GTCTACTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTAGATTTGTTTCA
1 ATCTGCTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCA
6465355 ATGAAGGTCAG
66 ATGAAGGTCAG
* * *
6465366 ATCTGCTGTCTTCGATCTGATTCTCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCA
1 ATCTGCTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCA
6465431 ATGAAGGTCAG
66 ATGAAGGTCAG
6465442 ATCTGCT
1 ATCTGCT
6465449 ATGCTTTAGC
Statistics
Matches: 209, Mismatches: 25, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
75 22 0.11
76 187 0.89
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.32
Consensus pattern (76 bp):
ATCTGCTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCA
ATGAAGGTCAG
Found at i:6465559 original size:350 final size:334
Alignment explanation
Indices: 6465240--6466100 Score: 952
Period size: 306 Copynumber: 2.7 Consensus size: 334
6465230 CTGCTCCCCA
* * *
6465240 TCTAATACAGAGATGCCAAATTATCTTGGATCTGCTTCAATGAAGTTCAGGTCTACTGTCTTCGA
1 TCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGTTCAGATCTGCTGTCTTCGA
*
6465305 TCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTAGATTTGTTTCAATGAAGGTCAGATCT
66 TCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTAGATCTGTTTCAATGAAGGTCAGATCT
* * *
6465370 GCTGTCTTCGATCTGATTCTCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGA
131 GCTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGA
* * * * * *
6465435 AGGTCAGATCTGCTATG-CTTTAGCCT-AT-TACC-CTACTGCTTAGGGAATTAAGGCACA-T-C
196 AGGTCAGATCTGCTATGTCTTTAACCTGATCT-CCGCTAATAC--AGAG-A-T--GCCAAACTGC
* * * *
6465494 AATCTTCATTGTCCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAG
254 AATCTTCAATCTCCTCCCCGAC-AATACAGAGATGCCAAATCATCTTGGAGCTGCTTCAATGAAG
*
6465559 GTCTGATCTGCTGTCCG
318 GTCAGATCTGCTGTCCG
*
6465576 TCTAATATAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTT-AGATCTGCTATGTCTT
1 TCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAA-GTTCAGATCTGC--TGTCTT
* *
6465640 TGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTAGATCTGCTTCAATGAAGGTCAGA
63 CGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTAGATCTGTTTCAATGAAGGTCAGA
* * *
6465705 TCTGTTGTCTTCGATTTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTACTTCAA
128 TCTGCTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAA
* * * * * * *
6465770 TAAAGGTCAGATCTGTTATGTATTTGATCTGCTCACCGTCTAATACAGAGATGCCAAA-T-C-AT
193 TGAAGGTCAGATCTGCTATGTCTTTAACCTGATCTCCG-CTAATACAGAGATGCCAAACTGCAAT
** * ** *
6465832 CTTGGATCT-GT----TTCAATGA-AG-G-T--C--A-GATC-T---GCTG--TC--T-----TC
257 CTTCAATCTCCTCCCCGACAAT-ACAGAGATGCCAAATCATCTTGGAGCTGCTTCAATGAAGGTC
**
6465871 -GATCTGCTCCCCG
321 AGATCTGCTGTCCG
* *
6465884 TCTAATACAGAGATGCCAAATCATCTTGGATCTGTTTCAATGAAGGTCAGATCTGCTGTCTTCGA
1 TCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGTTCAGATCTGCTGTCTTCGA
* *
6465949 TGTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGTTTCAATGAAGGTCAGATCT
66 TCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTAGATCTGTTTCAATGAAGGTCAGATCT
6466014 GCTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGA
131 GCTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGA
6466079 AGGTCAGATCTGCTATG-CTTTA
196 AGGTCAGATCTGCTATGTCTTTA
6466101 GCCTATTACC
Statistics
Matches: 465, Mismatches: 50, Indels: 51
0.82 0.09 0.09
Matches are distributed among these distances:
305 3 0.01
306 147 0.32
307 2 0.00
308 61 0.13
309 2 0.00
314 1 0.00
316 2 0.00
318 3 0.01
321 1 0.00
322 3 0.01
323 1 0.00
325 1 0.00
327 1 0.00
328 1 0.00
329 5 0.01
330 3 0.01
334 1 0.00
335 7 0.02
336 54 0.12
337 3 0.01
338 146 0.31
339 6 0.01
340 6 0.01
342 5 0.01
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.33
Consensus pattern (334 bp):
TCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGTTCAGATCTGCTGTCTTCGA
TCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTAGATCTGTTTCAATGAAGGTCAGATCT
GCTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGA
AGGTCAGATCTGCTATGTCTTTAACCTGATCTCCGCTAATACAGAGATGCCAAACTGCAATCTTC
AATCTCCTCCCCGACAATACAGAGATGCCAAATCATCTTGGAGCTGCTTCAATGAAGGTCAGATC
TGCTGTCCG
Done.