Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr3
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: 26558743
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1281270 characters in sequence are not A, C, G, or T
File 19 of 79
Found at i:6402893 original size:22 final size:22
Alignment explanation
Indices: 6402864--6402913 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
6402854 AGTTGTAAAG
* *
6402864 TTTTATTTTTATTTA-TTTATT
1 TTTTATTTTTACTTAGTTTAAT
6402885 TATTTATTTTTACTTAGTTTAAT
1 T-TTTATTTTTACTTAGTTTAAT
6402908 TTTTAT
1 TTTTAT
6402914 GTAAACATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 18 0.72
23 6 0.24
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTTATTTTTACTTAGTTTAAT
Found at i:6406874 original size:18 final size:18
Alignment explanation
Indices: 6406839--6406890 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
6406829 ATTTCAACAT
*
6406839 TTCAAAATAATTTTTAAAA
1 TTCAAAAT-ATTTATAAAA
6406858 TTCAAAATATTTATAAAAA
1 TTCAAAATATTTAT-AAAA
*
6406877 TCCAAAA-ATTTATA
1 TTCAAAATATTTATA
6406891 TTTTTAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 1 0.03
18 11 0.37
19 18 0.60
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (18 bp):
TTCAAAATATTTATAAAA
Found at i:6411100 original size:6 final size:6
Alignment explanation
Indices: 6411089--6411114 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
6411079 ATGGCGTGAA
6411089 CAGTGG CAGTGG CAGTGG CAGTGG CA
1 CAGTGG CAGTGG CAGTGG CAGTGG CA
6411115 TGCCAGTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.19, G:0.46, T:0.15
Consensus pattern (6 bp):
CAGTGG
Found at i:6417571 original size:7 final size:7
Alignment explanation
Indices: 6417561--6417585 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
6417551 AACAAAATCC
6417561 AAAATTT
1 AAAATTT
6417568 AAAATTT
1 AAAATTT
6417575 AAAATTT
1 AAAATTT
6417582 AAAA
1 AAAA
6417586 AAAGATCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (7 bp):
AAAATTT
Found at i:6428563 original size:78 final size:78
Alignment explanation
Indices: 6428433--6428591 Score: 223
Period size: 78 Copynumber: 2.0 Consensus size: 78
6428423 CTGTTCGCGC
* * *
6428433 TTTTTTCGTCATCGTCAATCCAAGATTGTTGCTCTACTGACCATCAATCTTGCGAGAGCATAATA
1 TTTTTTCGTCACCATCAATCCAAGATTGCTGCTCTACTGACCATCAATCTTGCG-GAGCATAATA
6428498 ACGTAATCTTAGGA
65 ACGTAATCTTAGGA
* * * *
6428512 TTTTTT-GTCACCATCAATTCAAGATTGCTGCTTTGA-TGACCATCATTCTTGCGGGGCATAATA
1 TTTTTTCGTCACCATCAATCCAAGATTGCTGCTCT-ACTGACCATCAATCTTGCGGAGCATAATA
6428575 ACGTAATCTTAGGA
65 ACGTAATCTTAGGA
6428589 TTT
1 TTT
6428592 GAAATATTCA
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
77 26 0.36
78 39 0.54
79 7 0.10
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.36
Consensus pattern (78 bp):
TTTTTTCGTCACCATCAATCCAAGATTGCTGCTCTACTGACCATCAATCTTGCGGAGCATAATAA
CGTAATCTTAGGA
Found at i:6433960 original size:45 final size:45
Alignment explanation
Indices: 6433874--6433997 Score: 153
Period size: 45 Copynumber: 2.8 Consensus size: 45
6433864 GTATGAATCC
* *
6433874 GCTATGATCATGAAG-TTCTTTTATGAATCCGCATGAATGAATTT
1 GCTATGATCATGAAGTTTCTTCTATGAATTCGCATGAATGAATTT
* * **
6433918 GCTATGATCATAAAGTTTCTTCTATGAATTCGTATGTTTGAATTT
1 GCTATGATCATGAAGTTTCTTCTATGAATTCGCATGAATGAATTT
* *
6433963 GCT-TTATCCATGAAGTTTCTTCTATGAATTTGCAT
1 GCTATGAT-CATGAAGTTTCTTCTATGAATTCGCAT
6433998 AGATGAGTCT
Statistics
Matches: 68, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
44 17 0.25
45 51 0.75
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.44
Consensus pattern (45 bp):
GCTATGATCATGAAGTTTCTTCTATGAATTCGCATGAATGAATTT
Found at i:6436523 original size:63 final size:61
Alignment explanation
Indices: 6436405--6436569 Score: 170
Period size: 63 Copynumber: 2.6 Consensus size: 61
6436395 TCGACACCAT
* * ** * *
6436405 ACGACCGTGTGCCAGGCTGTGTAACTCACTATTTGTGAATTACTGTCACATGGGCCAGGGAC
1 ACGAGCGTGTGCCAGGC-GTGTAACTCACTGTTTGTGAATTAAGGTCACACGGGCCAAGGAC
*
6436467 ACGAGCGTGTGTCCAGGTCGTGTAACTCACTGTTTGTGAATTAAGGTTACACGGGCCAAGGAC
1 ACGAGCGTGTG-CCAGG-CGTGTAACTCACTGTTTGTGAATTAAGGTCACACGGGCCAAGGAC
** * *
6436530 TTG-GCCGTGTGACTAGGCCGTGTAACTCACTGTGTGTGAA
1 ACGAG-CGTGTG-CCAGG-CGTGTAACTCACTGTTTGTGAA
6436570 CTAGTATCAC
Statistics
Matches: 87, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
62 11 0.13
63 75 0.86
64 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.27
Consensus pattern (61 bp):
ACGAGCGTGTGCCAGGCGTGTAACTCACTGTTTGTGAATTAAGGTCACACGGGCCAAGGAC
Found at i:6438367 original size:45 final size:45
Alignment explanation
Indices: 6438295--6438411 Score: 189
Period size: 45 Copynumber: 2.6 Consensus size: 45
6438285 TTGATAAACA
* * *
6438295 AATAAGATCATAGTTGAAAGACACTATGGCACTATATCTGAAATG
1 AATAAGACCATAGTTGAAAGACACTATGGCACTATACCGGAAATG
*
6438340 AATACGACCATAGTTGAAAGACACTATGGCACTATACCGGAAATG
1 AATAAGACCATAGTTGAAAGACACTATGGCACTATACCGGAAATG
*
6438385 AATAAGACCATGGTTGAAAGACACTAT
1 AATAAGACCATAGTTGAAAGACACTAT
6438412 AGCGTTATGT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 66 1.00
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.23
Consensus pattern (45 bp):
AATAAGACCATAGTTGAAAGACACTATGGCACTATACCGGAAATG
Found at i:6438434 original size:45 final size:45
Alignment explanation
Indices: 6438294--6438436 Score: 169
Period size: 45 Copynumber: 3.2 Consensus size: 45
6438284 TTTGATAAAC
* *
6438294 AAATAAGATCATAGTTGAAAGACACTATGGCACTATATCTGAAAT
1 AAATAAGACCATAGTTGAAAGACACTATGGCACTATATCAGAAAT
* * * *
6438339 GAATACGACCATAGTTGAAAGACACTATGGCACTATACCGGAAAT
1 AAATAAGACCATAGTTGAAAGACACTATGGCACTATATCAGAAAT
* * * ** * *
6438384 GAATAAGACCATGGTTGAAAGACACTATAGCGTTATGTCAGAGAT
1 AAATAAGACCATAGTTGAAAGACACTATGGCACTATATCAGAAAT
6438429 AAATAAGA
1 AAATAAGA
6438437 TTGTGGCTGA
Statistics
Matches: 83, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 83 1.00
ACGTcount: A:0.43, C:0.15, G:0.20, T:0.23
Consensus pattern (45 bp):
AAATAAGACCATAGTTGAAAGACACTATGGCACTATATCAGAAAT
Found at i:6438529 original size:13 final size:13
Alignment explanation
Indices: 6438511--6438633 Score: 90
Period size: 13 Copynumber: 9.4 Consensus size: 13
6438501 TAAATGTGTA
6438511 ATATGAAATGGTT
1 ATATGAAATGGTT
*
6438524 ATATGAGATGGTT
1 ATATGAAATGGTT
6438537 AT-TCGAAATGGTT
1 ATAT-GAAATGGTT
* **
6438550 ATATAAAATGAAT
1 ATATGAAATGGTT
*
6438563 ATATGAAATGATT
1 ATATGAAATGGTT
*
6438576 ATATG-AATCAGTT
1 ATATGAAAT-GGTT
**
6438589 ATATAGAAATAATT
1 ATAT-GAAATGGTT
*
6438603 ATAT-AAAGTGTTT
1 ATATGAAA-TGGTT
* *
6438616 ATAAGAAATGTTT
1 ATATGAAATGGTT
6438629 ATATG
1 ATATG
6438634 GATAGATATG
Statistics
Matches: 89, Mismatches: 14, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
12 7 0.08
13 67 0.75
14 12 0.13
15 3 0.03
ACGTcount: A:0.43, C:0.02, G:0.17, T:0.38
Consensus pattern (13 bp):
ATATGAAATGGTT
Found at i:6438559 original size:39 final size:40
Alignment explanation
Indices: 6438502--6438577 Score: 91
Period size: 39 Copynumber: 1.9 Consensus size: 40
6438492 ATTAAATGAT
* ** * *
6438502 AAATGTGTAATATGAAATGGTTATATGAGATGGTTATTCG
1 AAATGTGTAATATAAAATGAATATATGAAATGATTATTCG
*
6438542 AAATG-GTTATATAAAATGAATATATGAAATGATTAT
1 AAATGTGTAATATAAAATGAATATATGAAATGATTAT
6438578 ATGAATCAGT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
39 25 0.83
40 5 0.17
ACGTcount: A:0.42, C:0.01, G:0.20, T:0.37
Consensus pattern (40 bp):
AAATGTGTAATATAAAATGAATATATGAAATGATTATTCG
Found at i:6442658 original size:15 final size:15
Alignment explanation
Indices: 6442638--6442673 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
6442628 TAAGGAAGGG
*
6442638 AATGATCTTGGTCTC
1 AATGATCATGGTCTC
*
6442653 AATGATCATGGTGTC
1 AATGATCATGGTCTC
6442668 AATGAT
1 AATGAT
6442674 GATTCAATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (15 bp):
AATGATCATGGTCTC
Found at i:6448954 original size:42 final size:43
Alignment explanation
Indices: 6448894--6448978 Score: 163
Period size: 42 Copynumber: 2.0 Consensus size: 43
6448884 TATTAAGAAC
6448894 AAAAAATTTCAAAATAAAAGCAACACTCGGTATTTGGGATCTT
1 AAAAAATTTCAAAATAAAAGCAACACTCGGTATTTGGGATCTT
6448937 AAAAAA-TTCAAAATAAAAGCAACACTCGGTATTTGGGATCTT
1 AAAAAATTTCAAAATAAAAGCAACACTCGGTATTTGGGATCTT
6448979 CAAGAGAATC
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 36 0.86
43 6 0.14
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.27
Consensus pattern (43 bp):
AAAAAATTTCAAAATAAAAGCAACACTCGGTATTTGGGATCTT
Found at i:6460671 original size:50 final size:50
Alignment explanation
Indices: 6460616--6461086 Score: 216
Period size: 50 Copynumber: 9.5 Consensus size: 50
6460606 GCAACGGAAC
*
6460616 AGATTGAAGCTACAACGGTGAATTTCACTTCCCCGACATTGCAATTCAAA
1 AGATTGAAGCTACAACGGTGAATTTCACTTCCCCGACATTGCAATTGAAA
* * * * * * * *
6460666 AGATTGAGGCCACAACGGTAAATCTT-ACTT-TCCTAGCATTGCAGTGGAAC
1 AGATTGAAGCTACAACGGTGAAT-TTCACTTCCCCGA-CATTGCAATTGAAA
* * *
6460716 AGATTGAAGCTACAACAGCGAATCTCACTTCCCCGACATTGCAATTTG-AA
1 AGATTGAAGCTACAACGGTGAATTTCACTTCCCCGACATTGCAA-TTGAAA
* * * * * * *** *
6460766 AGATCGAAGGC-ACAACGGTAAATCTT-A-TTTCCAGGCGA-TACAGCGGAAC
1 AGATTGAA-GCTACAACGGTGAAT-TTCACTTCCCCGAC-ATTGCAATTGAAA
* * * * * *
6460815 AGATTGAAGCTACAACAGAGAATCTCAGTTTCCCGACATTGCAATTTAAA
1 AGATTGAAGCTACAACGGTGAATTTCACTTCCCCGACATTGCAATTGAAA
* * * * * * * *** *
6460865 AGATCGAAGCCACAATGGCGAATCTT-A-TTTCCAGGCGA-TGCAGCGGAAC
1 AGATTGAAGCTACAACGGTGAAT-TTCACTTCCCCGAC-ATTGCAATTGAAA
* * * *
6460914 AGATTGAAGCTACAACAGCGAATCTCACTTCCCCGACATTACAATTTG-AA
1 AGATTGAAGCTACAACGGTGAATTTCACTTCCCCGACATTGCAA-TTGAAA
* * * * * * *
6460964 AGATTGATGCCACAACGGTAAATCTT-ACTT-TCCTAGCATTGCAGTGGAACA
1 AGATTGAAGCTACAACGGTGAAT-TTCACTTCCCCGA-CATTGCAATTGAA-A
* * *
6461015 A-ATTGAAGCTACAACAGCGAATCTCACTTCCCCGACATTGCAATTTG-AA
1 AGATTGAAGCTACAACGGTGAATTTCACTTCCCCGACATTGCAA-TTGAAA
* * *
6461064 AGATCGAAGCCACAATGGTGAAT
1 AGATTGAAGCTACAACGGTGAAT
6461087 CTTATTTCCA
Statistics
Matches: 296, Mismatches: 98, Indels: 54
0.66 0.22 0.12
Matches are distributed among these distances:
48 5 0.02
49 74 0.25
50 197 0.67
51 20 0.07
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (50 bp):
AGATTGAAGCTACAACGGTGAATTTCACTTCCCCGACATTGCAATTGAAA
Found at i:6460859 original size:99 final size:99
Alignment explanation
Indices: 6460565--6461683 Score: 1523
Period size: 99 Copynumber: 11.3 Consensus size: 99
6460555 TTGCAACTCA
* * *
6460565 AAAGATCGAAGCCACAACGACGAATCTTACTTT-CAGGCAATGCAACGGAACAGATTGAAGCTAC
1 AAAGATCGAAGCCACAACGGCGAATCTTA-TTTCCAGGCGATGCAGCGGAACAGATTGAAGCTAC
* * * **
6460629 AACGGTGAATTTCACTTCCCCGACATTGCAATTCA
65 AACAGCGAATCTCACTTCCCCGACATTGCAATTTG
* * ** *
6460664 AAAGATTGAGGCCACAACGGTAAATCTTACTTTCCTA-GC-ATTGCAGTGGAACAGATTGAAGCT
1 AAAGATCGAAGCCACAACGGCGAATCTTA-TTTCC-AGGCGA-TGCAGCGGAACAGATTGAAGCT
6460727 ACAACAGCGAATCTCACTTCCCCGACATTGCAATTTG
63 ACAACAGCGAATCTCACTTCCCCGACATTGCAATTTG
* ** *
6460764 AAAGATCGAAGGCACAACGGTAAATCTTATTTCCAGGCGATACAGCGGAACAGATTGAAGCTACA
1 AAAGATCGAAGCCACAACGGCGAATCTTATTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACA
* * * *
6460829 ACAGAGAATCTCAGTTTCCCGACATTGCAATTTA
66 ACAGCGAATCTCACTTCCCCGACATTGCAATTTG
*
6460863 AAAGATCGAAGCCACAATGGCGAATCTTATTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACA
1 AAAGATCGAAGCCACAACGGCGAATCTTATTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACA
*
6460928 ACAGCGAATCTCACTTCCCCGACATTACAATTTG
66 ACAGCGAATCTCACTTCCCCGACATTGCAATTTG
* * ** * *
6460962 AAAGATTGATGCCACAACGGTAAATCTTACTTTCCTA-GC-ATTGCAGTGGAACAAATTGAAGCT
1 AAAGATCGAAGCCACAACGGCGAATCTTA-TTTCC-AGGCGA-TGCAGCGGAACAGATTGAAGCT
6461025 ACAACAGCGAATCTCACTTCCCCGACATTGCAATTTG
63 ACAACAGCGAATCTCACTTCCCCGACATTGCAATTTG
* * *
6461062 AAAGATCGAAGCCACAATGGTGAATCTTATTTCCAGGCGATACAGCGGAACAGATTGAAGCTACA
1 AAAGATCGAAGCCACAACGGCGAATCTTATTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACA
* * *
6461127 ATAGCGAATCTCAGTTCCCCGACAGTGCAATTTG
66 ACAGCGAATCTCACTTCCCCGACATTGCAATTTG
* *
6461161 AAAGATCGAAGCCACAACGGCGAATCTTATTTCCAGGCGATGCAGTGGAACAGATTGAAGCTATA
1 AAAGATCGAAGCCACAACGGCGAATCTTATTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACA
* * *
6461226 ACAGCGAATCTCACTTCCCCAATATTACAATTTG
66 ACAGCGAATCTCACTTCCCCGACATTGCAATTTG
*
6461260 AAAGATCGAAGCCACAACGGCGAATCTTATTTCCAGGCGATACAGCGGAACAGATTGAAGCTACA
1 AAAGATCGAAGCCACAACGGCGAATCTTATTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACA
*
6461325 ACAGCGAATCTCAGTTCCCCGACATTGCAATTTG
66 ACAGCGAATCTCACTTCCCCGACATTGCAATTTG
*
6461359 AAAGATCGAA-CCACAATGGCGAATCTTATTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACA
1 AAAGATCGAAGCCACAACGGCGAATCTTATTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACA
*
6461423 ACAGCGAATCTCACTTCCCCGACATTACAATTTG
66 ACAGCGAATCTCACTTCCCCGACATTGCAATTTG
* * * * * * *
6461457 AAAGATCGAAGCCACAACGGCGAATCTTACTTCTAGGTGATGCAGCAGAACAGATCGAAGATTCA
1 AAAGATCGAAGCCACAACGGCGAATCTTATTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACA
* *
6461522 ACAGCAAATCTCACTTCCCCGACATTGCAATTTA
66 ACAGCGAATCTCACTTCCCCGACATTGCAATTTG
* * ** *
6461556 AAAGATTGAAGCCACAATGGCGAATCTTATTTTTAGGCGATGCAGCGGAACAGATTGAAGCTACG
1 AAAGATCGAAGCCACAACGGCGAATCTTATTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACA
* ** **
6461621 A-TGACGAATCTCGTTTCCCCGACATTGCAATTAA
66 ACAG-CGAATCTCACTTCCCCGACATTGCAATTTG
* * *
6461655 AAAGATTGAAGCTACAACAGCGAATCTTA
1 AAAGATCGAAGCCACAACGGCGAATCTTA
6461684 CTTCTCTGGT
Statistics
Matches: 908, Mismatches: 100, Indels: 24
0.88 0.10 0.02
Matches are distributed among these distances:
98 97 0.11
99 638 0.70
100 171 0.19
101 2 0.00
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.23
Consensus pattern (99 bp):
AAAGATCGAAGCCACAACGGCGAATCTTATTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACA
ACAGCGAATCTCACTTCCCCGACATTGCAATTTG
Found at i:6461100 original size:298 final size:298
Alignment explanation
Indices: 6460555--6461671 Score: 1568
Period size: 298 Copynumber: 3.8 Consensus size: 298
6460545 AAACCATGGT
* * * * *
6460555 TTGCAACTCAAAAGATCGAAGCCACAACGACGAATCTTACTTT-CAGGCAATGCAACGGAACAGA
1 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTA-TTTCCAGGCGATGCAGCGGAACAGA
* * * * * *
6460619 TTGAAGCTACAACGGTGAATTTCACTTCCCCGACATTGCAATTCAAAAGATTGAGGCCACAACGG
65 TTGAAGCTACAACAGCGAATCTCACTTCCCCGACATTACAATTTAAAAGATTGAAGCCACAACGG
* *
6460684 TAAATCTTACTTTCCTA-GC-ATTGCAGTGGAACAGATTGAAGCTACAACAGCGAATCTCACTTC
130 CAAATCTTA-TTTCCTAGGCGA-TGCAGCGGAACAGATTGAAGCTACAACAGCGAATCTCACTTC
* * *
6460747 CCCGACATTGCAATTTGAAAGATCGAAGGCACAACGGTAAATCTTATTTCCAGGCGATACAGCGG
193 CCCGACATTGCAATTTGAAAGATCGAAGCCACAATGGTGAATCTTATTTCCAGGCGATACAGCGG
* *
6460812 AACAGATTGAAGCTACAACAGAGAATCTCAGTTTCCCGACA
258 AACAGATTGAAGCTACAACAGCGAATCTCAGTTCCCCGACA
*
6460853 TTGCAATTTAAAAGATCGAAGCCACAATGGCGAATCTTATTTCCAGGCGATGCAGCGGAACAGAT
1 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTATTTCCAGGCGATGCAGCGGAACAGAT
* * *
6460918 TGAAGCTACAACAGCGAATCTCACTTCCCCGACATTACAATTTGAAAGATTGATGCCACAACGGT
66 TGAAGCTACAACAGCGAATCTCACTTCCCCGACATTACAATTTAAAAGATTGAAGCCACAACGGC
* *
6460983 AAATCTTACTTTCCTA-GC-ATTGCAGTGGAACAAATTGAAGCTACAACAGCGAATCTCACTTCC
131 AAATCTTA-TTTCCTAGGCGA-TGCAGCGGAACAGATTGAAGCTACAACAGCGAATCTCACTTCC
6461046 CCGACATTGCAATTTGAAAGATCGAAGCCACAATGGTGAATCTTATTTCCAGGCGATACAGCGGA
194 CCGACATTGCAATTTGAAAGATCGAAGCCACAATGGTGAATCTTATTTCCAGGCGATACAGCGGA
*
6461111 ACAGATTGAAGCTACAATAGCGAATCTCAGTTCCCCGACA
259 ACAGATTGAAGCTACAACAGCGAATCTCAGTTCCCCGACA
* * *
6461151 GTGCAATTTGAAAGATCGAAGCCACAACGGCGAATCTTATTTCCAGGCGATGCAGTGGAACAGAT
1 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTATTTCCAGGCGATGCAGCGGAACAGAT
* * * * *
6461216 TGAAGCTATAACAGCGAATCTCACTTCCCCAATATTACAATTTGAAAGATCGAAGCCACAACGGC
66 TGAAGCTACAACAGCGAATCTCACTTCCCCGACATTACAATTTAAAAGATTGAAGCCACAACGGC
* * *
6461281 GAATCTTATTTCC-AGGCGATACAGCGGAACAGATTGAAGCTACAACAGCGAATCTCAGTTCCCC
131 AAATCTTATTTCCTAGGCGATGCAGCGGAACAGATTGAAGCTACAACAGCGAATCTCACTTCCCC
* *
6461345 GACATTGCAATTTGAAAGATCGAA-CCACAATGGCGAATCTTATTTCCAGGCGATGCAGCGGAAC
196 GACATTGCAATTTGAAAGATCGAAGCCACAATGGTGAATCTTATTTCCAGGCGATACAGCGGAAC
*
6461409 AGATTGAAGCTACAACAGCGAATCTCACTTCCCCGACA
261 AGATTGAAGCTACAACAGCGAATCTCAGTTCCCCGACA
* * * * * *
6461447 TTACAATTTGAAAGATCGAAGCCACAACGGCGAATCTTACTTCTAGGTGATGCAGCAGAACAGAT
1 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTATTTCCAGGCGATGCAGCGGAACAGAT
* * * * * *
6461512 CGAAGATTCAACAGCAAATCTCACTTCCCCGACATTGCAATTTAAAAGATTGAAGCCACAATGGC
66 TGAAGCTACAACAGCGAATCTCACTTCCCCGACATTACAATTTAAAAGATTGAAGCCACAACGGC
* * * * **
6461577 GAATCTTATTT-TTAGGCGATGCAGCGGAACAGATTGAAGCTACGA-TGACGAATCTCGTTTCCC
131 AAATCTTATTTCCTAGGCGATGCAGCGGAACAGATTGAAGCTACAACAG-CGAATCTCACTTCCC
** * *
6461640 CGACATTGCAATTAAAAAGATTGAAGCTACAA
195 CGACATTGCAATTTGAAAGATCGAAGCCACAA
6461672 CAGCGAATCT
Statistics
Matches: 746, Mismatches: 67, Indels: 13
0.90 0.08 0.02
Matches are distributed among these distances:
295 1 0.00
296 263 0.35
297 80 0.11
298 402 0.54
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.23
Consensus pattern (298 bp):
TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTATTTCCAGGCGATGCAGCGGAACAGAT
TGAAGCTACAACAGCGAATCTCACTTCCCCGACATTACAATTTAAAAGATTGAAGCCACAACGGC
AAATCTTATTTCCTAGGCGATGCAGCGGAACAGATTGAAGCTACAACAGCGAATCTCACTTCCCC
GACATTGCAATTTGAAAGATCGAAGCCACAATGGTGAATCTTATTTCCAGGCGATACAGCGGAAC
AGATTGAAGCTACAACAGCGAATCTCAGTTCCCCGACA
Found at i:6463487 original size:3 final size:3
Alignment explanation
Indices: 6463479--6463514 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
6463469 TATTTTAGTG
* *
6463479 TTA TTA TTA TTA TTA TTA TTA CTA TTA TAA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
6463515 GCTTTATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:6465751 original size:40 final size:40
Alignment explanation
Indices: 6465664--6465773 Score: 123
Period size: 40 Copynumber: 2.8 Consensus size: 40
6465654 GGCGTGTTTT
* * *
6465664 GGGTGTATTAGCTATTATGAGCTTCTGTCTGGCTTGTATC
1 GGGTGGATTAGCTCTTATGAGCTTCTGTCTGGCTTATATC
** * *
6465704 GATTGGATTAGCTCTTATGAGCTTTTGTCTGG-TATATTTC
1 GGGTGGATTAGCTCTTATGAGCTTCTGTCTGGCT-TATATC
* *
6465744 GGGTGGATTAGCTCTTACGAGCTCCTGTCT
1 GGGTGGATTAGCTCTTATGAGCTTCTGTCT
6465774 CGTGTGTTTG
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
39 1 0.02
40 56 0.98
ACGTcount: A:0.15, C:0.16, G:0.26, T:0.42
Consensus pattern (40 bp):
GGGTGGATTAGCTCTTATGAGCTTCTGTCTGGCTTATATC
Found at i:6473942 original size:37 final size:37
Alignment explanation
Indices: 6473891--6473984 Score: 86
Period size: 37 Copynumber: 2.5 Consensus size: 37
6473881 AGTATCGTAG
* *
6473891 TTCAATATATTCAGTGGATAAT-GCTCGTTTGAGCTTTAC
1 TTCAGTATA-TCAGTGGATAATCGCTCGATTGAGC-TT-C
* * *
6473930 TT-AGTATATCAGTAGAT-TTCTCTCGATTGAGCTTC
1 TTCAGTATATCAGTGGATAATCGCTCGATTGAGCTTC
*
6473965 TTCAGTATATCAATGGATAA
1 TTCAGTATATCAGTGGATAA
6473985 CGTTCCCTGA
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
35 3 0.07
36 16 0.36
37 18 0.41
38 5 0.11
39 2 0.05
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (37 bp):
TTCAGTATATCAGTGGATAATCGCTCGATTGAGCTTC
Found at i:6484456 original size:23 final size:23
Alignment explanation
Indices: 6484426--6484472 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
6484416 GTGGTAAAGA
*
6484426 TGCTACTACTTCGACCACTGCTG
1 TGCTACTACTTCGACCACTACTG
6484449 TGCTACTACTTCGACCACTACTG
1 TGCTACTACTTCGACCACTACTG
6484472 T
1 T
6484473 TGTTGTATCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.19, C:0.34, G:0.15, T:0.32
Consensus pattern (23 bp):
TGCTACTACTTCGACCACTACTG
Found at i:6484804 original size:21 final size:21
Alignment explanation
Indices: 6484765--6484805 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
6484755 ATTTTCACTA
6484765 TTTTAAATATAAAATATTTAT
1 TTTTAAATATAAAATATTTAT
*
6484786 TTTTATATCATAAAA-ATTTA
1 TTTTAAAT-ATAAAATATTTA
6484806 AAATTAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTTAAATATAAAATATTTAT
Found at i:6485891 original size:23 final size:24
Alignment explanation
Indices: 6485860--6485905 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
6485850 TGTCATAATT
6485860 TTTTATATAAGTA-TATTATAACAC
1 TTTTATATAA-TATTATTATAACAC
*
6485884 TTTT-TATAATATTTTTATAACA
1 TTTTATATAATATTATTATAACA
6485906 AACAAATTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 2 0.10
23 14 0.70
24 4 0.20
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (24 bp):
TTTTATATAATATTATTATAACAC
Found at i:6490222 original size:29 final size:28
Alignment explanation
Indices: 6490154--6490222 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 28
6490144 AAAATCTAAA
**
6490154 ATTTAAAATTTAGTCTTTATATTTTATT
1 ATTTAAAATTTAGTCCCTATATTTTATT
6490182 -TTTAATATATTTAGTCCCTATACTTTT-TT
1 ATTTAA-A-ATTTAGTCCCTATA-TTTTATT
6490211 ATTTAAACATTT
1 ATTTAAA-ATTT
6490223 TGGTCCTTCT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
27 5 0.15
28 1 0.03
29 19 0.56
30 9 0.26
ACGTcount: A:0.30, C:0.09, G:0.03, T:0.58
Consensus pattern (28 bp):
ATTTAAAATTTAGTCCCTATATTTTATT
Found at i:6491397 original size:24 final size:23
Alignment explanation
Indices: 6491356--6491402 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
6491346 ATTTTTTTTC
*
6491356 ATTTAAAAAAATACTTTTCTAAT
1 ATTTAAAAAAATAATTTTCTAAT
* *
6491379 ATTTAAAAATTATAATTTTTTAAT
1 ATTTAAAAA-AATAATTTTCTAAT
6491403 TATAACCTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (23 bp):
ATTTAAAAAAATAATTTTCTAAT
Found at i:6492434 original size:29 final size:30
Alignment explanation
Indices: 6492398--6492465 Score: 95
Period size: 29 Copynumber: 2.3 Consensus size: 30
6492388 TTATAGAGGT
* *
6492398 TAGATCAAATTAGTCTCTATATTA-TTAAA
1 TAGATCAAATTAGTCCCTATACTATTTAAA
6492427 TAGATCAAATTAGTCCCTATACTATTTAAA
1 TAGATCAAATTAGTCCCTATACTATTTAAA
*
6492457 -AAATCAAAT
1 TAGATCAAAT
6492466 AAGCCTAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
29 30 0.86
30 5 0.14
ACGTcount: A:0.44, C:0.13, G:0.06, T:0.37
Consensus pattern (30 bp):
TAGATCAAATTAGTCCCTATACTATTTAAA
Found at i:6493816 original size:44 final size:44
Alignment explanation
Indices: 6493768--6493855 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 44
6493758 AACCCAATGG
*
6493768 GACAAAACCTCGATTAAGGAAAAAAGAGTACAACGGGTATTTAC
1 GACAAAACCTCGATTAAGGAAAAAAGAGTACAACGCGTATTTAC
* *
6493812 GACAAAACCTCGATTAAGGGAAAAAGAGTACAGCGCGTATTTAC
1 GACAAAACCTCGATTAAGGAAAAAAGAGTACAACGCGTATTTAC
6493856 TCCCCCTCAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.43, C:0.17, G:0.22, T:0.18
Consensus pattern (44 bp):
GACAAAACCTCGATTAAGGAAAAAAGAGTACAACGCGTATTTAC
Found at i:6501541 original size:37 final size:37
Alignment explanation
Indices: 6501498--6501570 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 37
6501488 AGAGTTGCGA
6501498 TCTTAAATCAGCT-AACTCAAATAAACTTAGGTTGCAG
1 TCTTAAATCAG-TAAACTCAAATAAACTTAGGTTGCAG
* *
6501535 TCTTAAATCAGTAAACTTAATTAAACTTAGGTTGCA
1 TCTTAAATCAGTAAACTCAAATAAACTTAGGTTGCA
6501571 ATTTTTGCGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
36 1 0.03
37 32 0.97
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.33
Consensus pattern (37 bp):
TCTTAAATCAGTAAACTCAAATAAACTTAGGTTGCAG
Found at i:6504609 original size:20 final size:22
Alignment explanation
Indices: 6504586--6504637 Score: 72
Period size: 20 Copynumber: 2.5 Consensus size: 22
6504576 TGAATATATG
*
6504586 TATATATAAAAAT-TATAA-TA
1 TATATATAAAAATCAATAAGTA
*
6504606 TATATATAAATATCAATAAGTA
1 TATATATAAAAATCAATAAGTA
6504628 TATATATAAA
1 TATATATAAA
6504638 TCAAAGATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 12 0.43
21 4 0.14
22 12 0.43
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (22 bp):
TATATATAAAAATCAATAAGTA
Found at i:6504640 original size:20 final size:20
Alignment explanation
Indices: 6504585--6504641 Score: 64
Period size: 22 Copynumber: 2.9 Consensus size: 20
6504575 ATGAATATAT
* *
6504585 GTATATATAAAAAT-TATAA
1 GTATATATATAAATCAATAA
6504604 -TATATATATAAATATCAATAA
1 GTATATATAT-AA-ATCAATAA
6504625 GTATATATATAAATCAA
1 GTATATATATAAATCAA
6504642 AGATATGTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
18 8 0.25
19 2 0.06
20 7 0.22
21 6 0.19
22 9 0.28
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.37
Consensus pattern (20 bp):
GTATATATATAAATCAATAA
Found at i:6505950 original size:19 final size:19
Alignment explanation
Indices: 6505914--6505961 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
6505904 TTTTTATCGG
*
6505914 GTTTGGGCCACATTTTTAT
1 GTTTGGGCCACATGTTTAT
6505933 GTTTGGGCCAC-TGGTTTAT
1 GTTTGGGCCACAT-GTTTAT
*
6505952 TTATTGGGCC
1 GT-TTGGGCC
6505962 TGGGAAAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.68
20 7 0.28
ACGTcount: A:0.12, C:0.17, G:0.27, T:0.44
Consensus pattern (19 bp):
GTTTGGGCCACATGTTTAT
Found at i:6506555 original size:44 final size:44
Alignment explanation
Indices: 6506500--6506610 Score: 116
Period size: 44 Copynumber: 2.5 Consensus size: 44
6506490 GACTCATATC
* *
6506500 TTCAACTTGCCCTACTGCAACTTCAGG-GGGATAAGACTTGTAAT
1 TTCAACCTGCCCTACTGCAACTTCAGGAGGG-CAAGACTTGTAAT
* ** * ** *
6506544 TTGAACCTGCCCCGCTGCAATTTCAGGAGGGCAAGGTTTGTTAT
1 TTCAACCTGCCCTACTGCAACTTCAGGAGGGCAAGACTTGTAAT
*
6506588 TTCAACCTGCTCTACTGCAACTT
1 TTCAACCTGCCCTACTGCAACTT
6506611 TAGAGAGATA
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
44 49 0.94
45 3 0.06
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.31
Consensus pattern (44 bp):
TTCAACCTGCCCTACTGCAACTTCAGGAGGGCAAGACTTGTAAT
Found at i:6507463 original size:86 final size:86
Alignment explanation
Indices: 6507239--6507664 Score: 441
Period size: 87 Copynumber: 4.9 Consensus size: 86
6507229 TTTGTTTTCG
* *
6507239 ATCTGCTTCACTGCCAGTACAAGAAGACAAGATTTACAATCTTCAACCTACTCCACTACTGCTCA
1 ATCTGCTTCACTGCCAGTACAGGAAGACAAGATCTACAATCTTCAACCTACTCCACTACTGCTCA
*
6507304 GGGAGATAGGACTAGTTTTTTT
66 GGGAGATAGGACTAG-TTTTTA
*
6507326 ATCTGCTTCACTGCCAGTACAGGAAGACAAGGTCTACAATCTTCAACCTACTCCACTACTGCTCA
1 ATCTGCTTCACTGCCAGTACAGGAAGACAAGATCTACAATCTTCAACCTACTCCACTACTGCTCA
6507391 GGGAGATAGGACTAGTTTTTA
66 GGGAGATAGGACTAGTTTTTA
* * *
6507412 ATCTGCTTCACTGCCAGTACAGGAAGACAAGATCTGCAATCTTCAATCTACTCCACTGCTGCTCA
1 ATCTGCTTCACTGCCAGTACAGGAAGACAAGATCTACAATCTTCAACCTACTCCACTACTGCTCA
* * *
6507477 GGGAGATAGGATTAGTGGCTTAA
66 GGGAGATAGGACTAGT--TTTTA
** * * * * *
6507500 ATCTGCTTCTTACTATC--T-CAGGAAGATAAGAT-TCACCATCTTCGATCTGCTCCACTACTGC
1 ATCTGCTTC--ACTGCCAGTACAGGAAGACAAGATCT-ACAATCTTCAACCTACTCCACTACTGC
* * * **
6507561 TTAGGGAGATAAGATCTACCGTCTTCG
63 TCAGGGAGATAGGA-CTA--GTTTTTA
* * * * * * * *
6507588 ATCTGCTCCACT-ACTGCT-TAGGGAGATAAGATCTACCATCTTCAACCTACTCCACTGCTGCTC
1 ATCTGCTTCACTGCCAG-TACAGGAAGACAAGATCTACAATCTTCAACCTACTCCACTACTGCTC
*
6507651 AGAGAGATAGGACT
65 AGGGAGATAGGACT
6507665 GGTGGCTTAA
Statistics
Matches: 292, Mismatches: 35, Indels: 24
0.83 0.10 0.07
Matches are distributed among these distances:
85 1 0.00
86 85 0.29
87 126 0.43
88 73 0.25
89 1 0.00
90 6 0.02
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (86 bp):
ATCTGCTTCACTGCCAGTACAGGAAGACAAGATCTACAATCTTCAACCTACTCCACTACTGCTCA
GGGAGATAGGACTAGTTTTTA
Found at i:6507524 original size:173 final size:174
Alignment explanation
Indices: 6507239--6507798 Score: 522
Period size: 175 Copynumber: 3.2 Consensus size: 174
6507229 TTTGTTTTCG
* * *
6507239 ATCTGCTTCACTGCCAGTACAAGAAGACAAGATTTACAATCTTCAACCTACTCCACTACTGCTCA
1 ATCTGCTTCACTGCCAGTACAGGAAGACAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCA
** ** ** *
6507304 GGGAGATAGGACTAGT-TTTTTTATCTGCTTC-ACTGCCAGTACAGGAAGACAAG-GTCTACAAT
66 GGGAGATAGGACTAGTGGCTTAAATCTGCTTCTACTATC--T-CAGGAAGACAAGATTC-ACAAT
* * *
6507366 CTTCAACCTACTCCACTACTGCTCAGGGAGATAGGA-CTA-GTTTTTA
127 CTTCAACCTACTCCACTACTGCTCAGGGAGATAAGATCTACGTCTTCA
* *
6507412 ATCTGCTTCACTGCCAGTACAGGAAGACAAGATCTGCAATCTTCAATCTACTCCACTGCTGCTCA
1 ATCTGCTTCACTGCCAGTACAGGAAGACAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCA
* * *
6507477 GGGAGATAGGATTAGTGGCTTAAATCTGCTTCTTACTATCTCAGGAAGATAAGATTCACCATCTT
66 GGGAGATAGGACTAGTGGCTTAAATCTGCTTC-TACTATCTCAGGAAGACAAGATTCACAATCTT
* * * * *
6507542 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCGTCTTCG
130 CAACCTACTCCACTACTGCTCAGGGAGATAAGATCTA-CGTCTTCA
* * * * * * *
6507588 ATCTGCTCCACT-ACTGCT-TAGGGAGATAAGATCTACCATCTTCAACCTACTCCACTGCTGCTC
1 ATCTGCTTCACTGCCAG-TACAGGAAGACAAGATCTACAATCTTCAACCTACTCCACTGCTGCTC
* * * * * ** **
6507651 AGAGAGATAGGACTGGTGGCTTAAATCTGCTTCCTACTATTTCGGGAAGATAAGATTTGCCGTCT
65 AGGGAGATAGGACTAGTGGCTTAAATCTGCTT-CTACTATCTCAGGAAGACAAGATTCACAATCT
* * * * * * **
6507716 TCAATCTGCTCCACTACTGATTAGGGAGACAAGATCTACAATCTTTG
129 TCAACCTACTCCACTACTGCTCAGGGAGATAAGATCTAC-GTCTTCA
* * * **
6507763 ATGTACTCCACTGCTGGTACAGGAAGACAAGATCTA
1 ATCTGCTTCACTGCCAGTACAGGAAGACAAGATCTA
6507799 TTGCTTCTAG
Statistics
Matches: 322, Mismatches: 53, Indels: 21
0.81 0.13 0.05
Matches are distributed among these distances:
173 121 0.38
174 18 0.06
175 147 0.46
176 36 0.11
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (174 bp):
ATCTGCTTCACTGCCAGTACAGGAAGACAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCA
GGGAGATAGGACTAGTGGCTTAAATCTGCTTCTACTATCTCAGGAAGACAAGATTCACAATCTTC
AACCTACTCCACTACTGCTCAGGGAGATAAGATCTACGTCTTCA
Found at i:6507571 original size:44 final size:44
Alignment explanation
Indices: 6507523--6507774 Score: 204
Period size: 44 Copynumber: 5.8 Consensus size: 44
6507513 TATCTCAGGA
6507523 AGATAAGAT-TCACCATCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATCT-ACCATCTTCGATCTGCTCCACTACTGCTTAGGG
*
6507567 AGATAAGATCTACCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATCTACCATCTTCGATCTGCTCCACTACTGCTTAGGG
* * * * * *
6507611 AGATAAGATCTACCATCTTCAACCTACTCCACTGCTGCTCAGAG
1 AGATAAGATCTACCATCTTCGATCTGCTCCACTACTGCTTAGGG
* ***** ** * ** *
6507655 AGATAGGA-CTGGTGGCTTAAATCTGCTTC-CTACTATTTCGGG
1 AGATAAGATCTACCATCTTCGATCTGCTCCACTACTGCTTAGGG
* * * * *
6507697 AAGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGATTAGGG
1 -AGATAAGATCTACCATCTTCGATCTGCTCCACTACTGCTTAGGG
* * * * *
6507742 AGACAAGATCTACAATCTTTGATGTACTCCACT
1 AGATAAGATCTACCATCTTCGATCTGCTCCACT
6507775 GCTGGTACAG
Statistics
Matches: 161, Mismatches: 43, Indels: 8
0.76 0.20 0.04
Matches are distributed among these distances:
42 7 0.04
43 19 0.12
44 124 0.77
45 11 0.07
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (44 bp):
AGATAAGATCTACCATCTTCGATCTGCTCCACTACTGCTTAGGG
Found at i:6507649 original size:88 final size:86
Alignment explanation
Indices: 6507261--6507753 Score: 351
Period size: 87 Copynumber: 5.7 Consensus size: 86
6507251 GCCAGTACAA
* * * *
6507261 GAAGACAAGATTTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAGGA-CTAGTTTTTT
1 GAAGATAAGATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAGGATCTAG-TCTTA
* * * *
6507325 TATCTGCTTCACTGCCAG-TACAG
65 AATCTGCTCCACT-ACTGCT-CAG
* * * *
6507348 GAAGACAAGGTCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAGGA-CTAGTTTTTA
1 GAAGATAAGATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAGGATCTAGTCTTAA
* * *
6507412 ATCTGCTTCACTGCCAG-TACAG
66 ATCTGCTCCACT-ACTGCT-CAG
* * * *
6507434 GAAGACAAGATCTGCAATCTTCAATCTACTCCACTGCTGCTCAGGGAGATAGGAT-TAGTGGCTT
1 GAAGATAAGATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAGGATCTAGT--CTT
*
6507498 AAATCTGCTTCTTACTA-T-CTCAG
64 AAATCTGC-TC-CACTACTGCTCAG
* * * * * *
6507521 GAAGATAAGAT-TCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCGTCT
1 GAAGATAAGATCT-ACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAGGATCTA--GTCT
** *
6507585 TCGATCTGCTCCACTACTGCTTAG
63 TAAATCTGCTCCACTACTGCTCAG
* * * * *
6507609 GGAGATAAGATCTACCATCTTCAACCTACTCCACTGCTGCTCAGAGAGATAGGA-CTGGTGGCTT
1 GAAGATAAGATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAGGATCTAGT--CTT
* *
6507673 AAATCTGCTTCCTACTA-T-TTCGG
64 AAATCTGC-TCC-ACTACTGCTCAG
* * ** * * * * * *
6507696 GAAGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGATTAGGGAGACAAGATCTA
1 GAAGATAAGATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAGGATCTA
6507754 CAATCTTTGA
Statistics
Matches: 336, Mismatches: 52, Indels: 35
0.79 0.12 0.08
Matches are distributed among these distances:
85 2 0.01
86 86 0.26
87 162 0.48
88 75 0.22
89 6 0.02
90 5 0.01
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (86 bp):
GAAGATAAGATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAGGATCTAGTCTTAA
ATCTGCTCCACTACTGCTCAG
Found at i:6507875 original size:89 final size:89
Alignment explanation
Indices: 6507779--6508078 Score: 447
Period size: 89 Copynumber: 3.4 Consensus size: 89
6507769 TCCACTGCTG
* ** * *
6507779 GTACAGGAAGACAAGATCTATTGCTTCTAGTCTGCTCTACTGCAAACTCAGGAAGGTCAGGCTTG
1 GTACAGGAAGACAAGATCTGTTGCTTCTAGTCTGCTCCGCTACAAACTCAGGGAGGTCAGGCTTG
* *
6507844 TGTCTTCGATCTGCTTCATTACCG
66 TGTCTTCGATCTGCTTCATTGCCA
* * * * *
6507868 GTACAGGAAGACAAGATCTGCTGCTTTTAGTCTGCTCCGTTACAAACTCAGGGAGGTAAGGCTAG
1 GTACAGGAAGACAAGATCTGTTGCTTCTAGTCTGCTCCGCTACAAACTCAGGGAGGTCAGGCTTG
*
6507933 TGTTTTCGATCTGCTTCATTGCCA
66 TGTCTTCGATCTGCTTCATTGCCA
** *
6507957 GTACAGGAAGACAAGATCTGTTATTTTTAGTCTGCTCCGCTACAAACTCAGGGAGGTCAGGCTTG
1 GTACAGGAAGACAAGATCTGTTGCTTCTAGTCTGCTCCGCTACAAACTCAGGGAGGTCAGGCTTG
*
6508022 TGTCTTCGATCTGCTTCACTGCCA
66 TGTCTTCGATCTGCTTCATTGCCA
6508046 GTACAGGAAGACAAGATCTGTTGCTTCTAGTCT
1 GTACAGGAAGACAAGATCTGTTGCTTCTAGTCT
6508079 ACTTCTCTGC
Statistics
Matches: 187, Mismatches: 24, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
89 187 1.00
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (89 bp):
GTACAGGAAGACAAGATCTGTTGCTTCTAGTCTGCTCCGCTACAAACTCAGGGAGGTCAGGCTTG
TGTCTTCGATCTGCTTCATTGCCA
Found at i:6509434 original size:5 final size:5
Alignment explanation
Indices: 6509424--6509479 Score: 55
Period size: 5 Copynumber: 11.8 Consensus size: 5
6509414 CCTCTCCTTT
* * * *
6509424 TTTTC TTTTC TTTT- TCTTC TTTTC TTTTT TTTTC TTTT- TTTTG TTTTG
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC
6509472 TTTT- TTTT
1 TTTTC TTTT
6509480 TGATTGAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
4 11 0.24
5 34 0.76
ACGTcount: A:0.00, C:0.11, G:0.04, T:0.86
Consensus pattern (5 bp):
TTTTC
Found at i:6509443 original size:14 final size:13
Alignment explanation
Indices: 6509420--6509478 Score: 68
Period size: 13 Copynumber: 4.6 Consensus size: 13
6509410 TTGGCCTCTC
6509420 CTTTTTTTCTTTT
1 CTTTTTTTCTTTT
6509433 CTTTTTCTTCTTTT
1 CTTTTT-TTCTTTT
*
6509447 CTTTTTTT-TTCT
1 CTTTTTTTCTTTT
*
6509459 -TTTTTTTGTTTT
1 CTTTTTTTCTTTT
*
6509471 GTTTTTTT
1 CTTTTTTT
6509479 TTGATTGAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
11 7 0.17
12 6 0.15
13 15 0.37
14 13 0.32
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (13 bp):
CTTTTTTTCTTTT
Found at i:6509456 original size:24 final size:24
Alignment explanation
Indices: 6509423--6509480 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
6509413 GCCTCTCCTT
6509423 TTTTTCTTTTCTTTTTCTTCTTTTC
1 TTTTT-TTTTCTTTTTCTTCTTTTC
* * *
6509448 TTTTTTTTTCTTTTTTTTGTTTTG
1 TTTTTTTTTCTTTTTCTTCTTTTC
6509472 TTTTTTTTT
1 TTTTTTTTT
6509481 GATTGAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 25 0.83
25 5 0.17
ACGTcount: A:0.00, C:0.10, G:0.03, T:0.86
Consensus pattern (24 bp):
TTTTTTTTTCTTTTTCTTCTTTTC
Found at i:6509479 original size:14 final size:13
Alignment explanation
Indices: 6509421--6509480 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 13
6509411 TGGCCTCTCC
6509421 TTTTTTTCTTTTCT
1 TTTTTTTCTTTT-T
*
6509435 TTTTCTTCTTTTCTT
1 TTTTTTTC-TTT-TT
6509450 TTTTTTTCTTTTT
1 TTTTTTTCTTTTT
*
6509463 TTTGTTTTGTTTTT
1 TTT-TTTTCTTTTT
6509477 TTTT
1 TTTT
6509481 GATTGAATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
13 6 0.15
14 22 0.55
15 11 0.28
16 1 0.03
ACGTcount: A:0.00, C:0.10, G:0.03, T:0.87
Consensus pattern (13 bp):
TTTTTTTCTTTTT
Found at i:6510348 original size:80 final size:80
Alignment explanation
Indices: 6510206--6510375 Score: 286
Period size: 80 Copynumber: 2.1 Consensus size: 80
6510196 AGTTATCTCC
* * *
6510206 AAAATCCTGAGGTTTAATCTAGACACATGTCATTGATATCTGATGACCTGTTATAGGGACGAAAG
1 AAAAT-CT-AGGTTTAATCTAGACACATATCATTGATATCTGAGGACCTATTATAGGGACGAAAG
6510271 TAGATCCGGAGAATAAA
64 TAGATCCGGAGAATAAA
6510288 AAAATCTAGGTTTAATCTAGACACATATCATTGATATCTGAGGACCTATTATAGGGACGAAAGTA
1 AAAATCTAGGTTTAATCTAGACACATATCATTGATATCTGAGGACCTATTATAGGGACGAAAGTA
6510353 GATCCGGAGAATAAA
66 GATCCGGAGAATAAA
*
6510368 ATAATCTA
1 AAAATCTA
6510376 AGAATATTTA
Statistics
Matches: 84, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
80 77 0.92
81 2 0.02
82 5 0.06
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (80 bp):
AAAATCTAGGTTTAATCTAGACACATATCATTGATATCTGAGGACCTATTATAGGGACGAAAGTA
GATCCGGAGAATAAA
Found at i:6515098 original size:35 final size:35
Alignment explanation
Indices: 6515059--6515127 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 35
6515049 GAAATGATCA
* * *
6515059 AAAATTATGAAAGTATAAAAGATATATATATGTAT
1 AAAATTATGAAAATATAAAAAACATATATATGTAT
*
6515094 AAAATTATGAAAATATAAAAAACATATGTATGTA
1 AAAATTATGAAAATATAAAAAACATATATATGTA
6515128 CACATATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.57, C:0.01, G:0.10, T:0.32
Consensus pattern (35 bp):
AAAATTATGAAAATATAAAAAACATATATATGTAT
Found at i:6524662 original size:21 final size:21
Alignment explanation
Indices: 6524636--6524677 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
6524626 GAACAAATAC
* *
6524636 CTTCATTGCAAAGGGTAGGAA
1 CTTCATTGAAAAAGGTAGGAA
6524657 CTTCATTGAAAAAGGTAGGAA
1 CTTCATTGAAAAAGGTAGGAA
6524678 TTGATATTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.12, G:0.26, T:0.24
Consensus pattern (21 bp):
CTTCATTGAAAAAGGTAGGAA
Found at i:6532193 original size:10 final size:9
Alignment explanation
Indices: 6532177--6532201 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
6532167 TTTTAAATTT
6532177 TAAAAAAAA
1 TAAAAAAAA
6532186 TAAAAAAAA
1 TAAAAAAAA
6532195 TAAAAAA
1 TAAAAAA
6532202 TCTTAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
TAAAAAAAA
Found at i:6532364 original size:150 final size:151
Alignment explanation
Indices: 6532169--6532470 Score: 597
Period size: 150 Copynumber: 2.0 Consensus size: 151
6532159 AATGAAAATT
6532169 TTAAATTTTAAAAAAAATAAAAAAAATAAAAAATCTTAAAATTTTTAAAAATAAAAATGATTTTA
1 TTAAATTTTAAAAAAAATAAAAAAAATAAAAAATCTTAAAATTTTTAAAAATAAAAATGATTTTA
6532234 ATAATTTAAACAAAAATTTCAAAATTTAATGTTATTTAAACTAGATTGGACCAGTCAGTCAAAGT
66 ATAATTTAAACAAAAATTTCAAAATTTAATGTTATTTAAACTAGATTGGACCAGTCAGTCAAAGT
6532299 GAGAACAGGTTAGGGTATCGA
131 GAGAACAGGTTAGGGTATCGA
6532320 TTAAATTTTAAAAAAAA-AAAAAAAATAAAAAATCTTAAAATTTTTAAAAATAAAAATGATTTTA
1 TTAAATTTTAAAAAAAATAAAAAAAATAAAAAATCTTAAAATTTTTAAAAATAAAAATGATTTTA
6532384 ATAATTTAAACAAAAATTTCAAAATTTAATGTTATTTAAACTAGATTGGACCAGTCAGTCAAAGT
66 ATAATTTAAACAAAAATTTCAAAATTTAATGTTATTTAAACTAGATTGGACCAGTCAGTCAAAGT
6532449 GAGAACAGGTTAGGGTATCGA
131 GAGAACAGGTTAGGGTATCGA
6532470 T
1 T
6532471 CCAGCACATG
Statistics
Matches: 151, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
150 134 0.89
151 17 0.11
ACGTcount: A:0.51, C:0.07, G:0.11, T:0.32
Consensus pattern (151 bp):
TTAAATTTTAAAAAAAATAAAAAAAATAAAAAATCTTAAAATTTTTAAAAATAAAAATGATTTTA
ATAATTTAAACAAAAATTTCAAAATTTAATGTTATTTAAACTAGATTGGACCAGTCAGTCAAAGT
GAGAACAGGTTAGGGTATCGA
Found at i:6532828 original size:18 final size:19
Alignment explanation
Indices: 6532801--6532842 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
6532791 TAAAAATGAA
* *
6532801 TTTTAGAATTTTAGAAT-T
1 TTTTAAAATTTTAAAATAT
6532819 TTTTAAAATTTTAAAATAT
1 TTTTAAAATTTTAAAATAT
6532838 TTTTA
1 TTTTA
6532843 TTTTTTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (19 bp):
TTTTAAAATTTTAAAATAT
Found at i:6533150 original size:21 final size:21
Alignment explanation
Indices: 6533126--6533167 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
6533116 TTTGATAATT
6533126 TTTTAAATATTTTTATTTTTA
1 TTTTAAATATTTTTATTTTTA
* * *
6533147 TTTTTATTTTTTTTATTTTTA
1 TTTTAAATATTTTTATTTTTA
6533168 ATAAATTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTTAAATATTTTTATTTTTA
Found at i:6533167 original size:6 final size:6
Alignment explanation
Indices: 6533133--6533157 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
6533123 ATTTTTTAAA
6533133 TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT T
6533158 TTTATTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:6533428 original size:6 final size:6
Alignment explanation
Indices: 6533419--6533453 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
6533409 TTTTAAAGAC
*
6533419 TTTTTA TTTTTA TTTTTA TTTTTA TTTTCA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
6533454 TTTAAAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:6537246 original size:151 final size:146
Alignment explanation
Indices: 6536971--6537262 Score: 433
Period size: 151 Copynumber: 2.0 Consensus size: 146
6536961 AGATCGCCTT
* * * *
6536971 GCCTGCCTGCCTTTTATGAATTTAAGGATTTGTCTTCACTAGTCGAGGTTTCCAGGTTTTGTTAT
1 GCCTGCCTGCCTTGTATGAATTTAAGGATCTGTCTTCACTAATCAAGGTTTCCAGGTTTTGTTAT
* *
6537036 TCTTTCTCATTTTTCAAAGTTTAATTAACCATTATTAGCAGGTTTAGCTTCATTTAAGTCATTCA
66 TCTTTCTCATTTTCCAAAGTTTAATTAACCATTATTAGCAGGTTTAGCTTCATTTAAGTCATGCA
6537101 TATATATATATACCTC
131 TATATATATATACCTC
* * *
6537117 GCCTGCCTGCCTTGTATGAATTTAAGGGTCTGTTTTTACTAATCAAGGTTTCCAGGTTTCTGTTA
1 GCCTGCCTGCCTTGTATGAATTTAAGGATCTGTCTTCACTAATCAAGGTTTCCAGGTTT-TGTTA
*
6537182 TTCTTTCTCATTATTCCAGGTTAA-TTTAATTAACCATTATTAGTAGGTTTAGCTTCATTTAAGT
65 TTCTTTCTCATT-TTCCA----AAGTTTAATTAACCATTATTAGCAGGTTTAGCTTCATTTAAGT
6537246 CATGCATATATATATAT
125 CATGCATATATATATAT
6537263 TATAAAAACC
Statistics
Matches: 130, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
146 52 0.40
147 17 0.13
148 4 0.03
151 55 0.42
152 2 0.02
ACGTcount: A:0.24, C:0.17, G:0.14, T:0.45
Consensus pattern (146 bp):
GCCTGCCTGCCTTGTATGAATTTAAGGATCTGTCTTCACTAATCAAGGTTTCCAGGTTTTGTTAT
TCTTTCTCATTTTCCAAAGTTTAATTAACCATTATTAGCAGGTTTAGCTTCATTTAAGTCATGCA
TATATATATATACCTC
Found at i:6537700 original size:41 final size:41
Alignment explanation
Indices: 6537641--6537992 Score: 625
Period size: 41 Copynumber: 8.6 Consensus size: 41
6537631 CCTTTTGGGA
*
6537641 CTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAG
1 CTTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAG-G
6537683 C-TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGG
1 CTTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGG
6537723 CTTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGG
1 CTTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGG
6537764 CTTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGG
1 CTTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGG
6537805 CTTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGG
1 CTTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGG
* * *
6537846 CTTTTAGCGGCATTTCTGAGGAAGCGCCGCTAATGCTCAGG
1 CTTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGG
*
6537887 CTTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCCCAGG
1 CTTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGG
*
6537928 CTTTTAGCGGCGTTTTGGAGAAAGCGCCGCTAATGCTCAGG
1 CTTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGG
*
6537969 CTTTTAGCGGCATTTTTGAGAAAG
1 CTTTTAGCGGCGTTTTTGAGAAAG
6537993 ANNNNNNNNN
Statistics
Matches: 297, Mismatches: 12, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
40 2 0.01
41 294 0.99
42 1 0.00
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (41 bp):
CTTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGG
Found at i:6543146 original size:128 final size:129
Alignment explanation
Indices: 6542918--6543209 Score: 471
Period size: 128 Copynumber: 2.3 Consensus size: 129
6542908 NNNNNNNNNN
* *
6542918 AAAAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTGGAAAAAGCGCCGTTAAAGGTTGTG
1 AAAAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCGTG
* * * * *
6542983 GTCTTTAGCGGCGTTTGTGTAAAAAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGTGTTTGTGG-
66 GTCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGATCGCGGTCTTTAGCGGCGATTGTGGA
* *
6543046 AAAAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTGGACAAAGCGCCGCTAAATGTCGTG
1 AAAAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCGTG
*
6543111 GTCTTTAGCGGCGTTTGTGGAAAAAGCGCTGCTAAAGATCGCGGTCTTTAGCGGCGATTGTGGA
66 GTCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGATCGCGGTCTTTAGCGGCGATTGTGGA
6543175 AAAAGCGCCGCTAAAGGTCAG-GGTCTTTAGCGGCG
1 AAAAGCGCCGCTAAAGGTC-GTGGTCTTTAGCGGCG
6543210 CTTTTTCAAA
Statistics
Matches: 152, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
128 118 0.78
129 33 0.22
130 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.34, T:0.26
Consensus pattern (129 bp):
AAAAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCGTG
GTCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGATCGCGGTCTTTAGCGGCGATTGTGGA
Found at i:6543221 original size:43 final size:43
Alignment explanation
Indices: 6542918--6543209 Score: 471
Period size: 43 Copynumber: 6.8 Consensus size: 43
6542908 NNNNNNNNNN
6542918 AAAAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTGGA
1 AAAAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTGGA
* * *
6542961 AAAAGCGCCGTTAAAGGTTGTGGTCTTTAGCGGCGTTTGTGTA
1 AAAAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTGGA
*
6543004 AAAAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGTGTTTGTGG-
1 AAAAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTGGA
6543046 AAAAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTGGA
1 AAAAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTGGA
* *
6543089 CAAAGCGCCGCTAAATGTCGTGGTCTTTAGCGGCGTTTGTGGA
1 AAAAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTGGA
* * * *
6543132 AAAAGCGCTGCTAAAGATCGCGGTCTTTAGCGGCGATTGTGGA
1 AAAAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTGGA
6543175 AAAAGCGCCGCTAAAGGTCAG-GGTCTTTAGCGGCG
1 AAAAGCGCCGCTAAAGGTC-GTGGTCTTTAGCGGCG
6543210 CTTTTTCAAA
Statistics
Matches: 229, Mismatches: 18, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
42 41 0.18
43 187 0.82
44 1 0.00
ACGTcount: A:0.22, C:0.18, G:0.34, T:0.26
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTGGA
Found at i:6543245 original size:128 final size:128
Alignment explanation
Indices: 6542918--6543254 Score: 369
Period size: 128 Copynumber: 2.6 Consensus size: 128
6542908 NNNNNNNNNN
* * * ***
6542918 AAAAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTGGA-AAAAGCGCCGTTAAAGGTTGT
1 AAAAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTGCACAAAA-CGCCGCTAAATGCCCT
** * * * * *
6542982 GGTCTTTAGCGGCGTTTGTGTAAAAAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGTGTTTGTGG
65 GACCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGATCGCGGTCTTTAGCGGCGATTGTGG
* * * *
6543046 AAAAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTGGACAAAGCGCCGCTAAATGTCGTG
1 AAAAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTGCACAAAACGCCGCTAAATGCCCTG
** *
6543111 GTCTTTAGCGGCGTTTGTGGAAAAAGCGCTGCTAAAGATCGCGGTCTTTAGCGGCGATTGTGG
66 ACCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGATCGCGGTCTTTAGCGGCGATTGTGG
* * * * *
6543174 AAAAAGCGCCGCTAAAGGTCAG-GGTCTTTAGCGGCGCTTT-TTCA-AAAATGTCGTTGAA-GAC
1 -AAAAGCGCCGCTAAAGGTC-GTGGTCTTTAGCGGCG-TTTGTGCACAAAACGCCGCTAAATG-C
6543235 CCTGACCTTTAGCGGCGTTT
62 CCTGACCTTTAGCGGCGTTT
6543255 TTTAAAAGCG
Statistics
Matches: 183, Mismatches: 21, Indels: 10
0.86 0.10 0.05
Matches are distributed among these distances:
127 1 0.01
128 140 0.77
129 38 0.21
130 4 0.02
ACGTcount: A:0.22, C:0.19, G:0.32, T:0.27
Consensus pattern (128 bp):
AAAAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTGCACAAAACGCCGCTAAATGCCCTG
ACCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGATCGCGGTCTTTAGCGGCGATTGTGG
Found at i:6543247 original size:171 final size:171
Alignment explanation
Indices: 6542919--6543254 Score: 451
Period size: 171 Copynumber: 2.0 Consensus size: 171
6542909 NNNNNNNNNA
* * * *
6542919 AAAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTGGAAAAAGCGCCGTTAAAGGTTGTGG
1 AAAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGATCGCGG
* * * *
6542984 TCTTTAGCGGCGTTTGTGTAAAAAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGTGTTTGTGGAAA
66 TCTTTAGCGGCGATTGTGGAAAAAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTGCAAA
* ** * **
6543049 AGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTGGAC
131 AACGCCGCTAAAGACCCTGACCTTTAGCGGCGTTTGTGGAC
* *
6543090 AAAGCGCCGCTAAATGTCGTGGTCTTTAGCGGCGTTTGTGGAAAAAGCGCTGCTAAAGATCGCGG
1 AAAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGATCGCGG
*
6543155 TCTTTAGCGGCGATTGTGGAAAAAGCGCCGCTAAAGGTCAG-GGTCTTTAGCGGCGCTTT-TTCA
66 TCTTTAGCGGCGATTGTGGAAAAAGCGCCGCTAAAGGTC-GTGGTCTTTAGCGGCG-TTTGTGCA
* * * *
6543218 AAAATGTCGTTGAAGACCCTGACCTTTAGCGGCGTTT
129 AAAACGCCGCTAAAGACCCTGACCTTTAGCGGCGTTT
6543255 TTTAAAAGCG
Statistics
Matches: 142, Mismatches: 21, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
171 138 0.97
172 4 0.03
ACGTcount: A:0.21, C:0.19, G:0.32, T:0.27
Consensus pattern (171 bp):
AAAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGATCGCGG
TCTTTAGCGGCGATTGTGGAAAAAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTGCAAA
AACGCCGCTAAAGACCCTGACCTTTAGCGGCGTTTGTGGAC
Found at i:6543325 original size:42 final size:42
Alignment explanation
Indices: 6543261--6543344 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
6543251 GTTTTTTAAA
6543261 AGCGCCGCTGAAAGCCTATTTTGGTGTAGTGATTATTTGTTT
1 AGCGCCGCTGAAAGCCTATTTTGGTGTAGTGATTATTTGTTT
*
6543303 AGCGCCGCTGAAAGCCTGTTTTGGTGTAGTGATTATTTGTTT
1 AGCGCCGCTGAAAGCCTATTTTGGTGTAGTGATTATTTGTTT
6543345 CTGATAAGTA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.18, C:0.14, G:0.27, T:0.40
Consensus pattern (42 bp):
AGCGCCGCTGAAAGCCTATTTTGGTGTAGTGATTATTTGTTT
Found at i:6545844 original size:29 final size:29
Alignment explanation
Indices: 6545786--6545845 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
6545776 TATTAAAAAT
**
6545786 AATATTTTTTATACTTTTTAATTTTTAAA
1 AATATTTTTTATACTTTTTAATTTCCAAA
6545815 AATATTTTTT-TA-TTTTTAAAATTTCCAAA
1 AATATTTTTTATACTTTTT--AATTTCCAAA
6545844 AA
1 AA
6545846 ATTAATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 5 0.19
28 2 0.07
29 20 0.74
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (29 bp):
AATATTTTTTATACTTTTTAATTTCCAAA
Found at i:6547320 original size:29 final size:29
Alignment explanation
Indices: 6547262--6547321 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
6547252 TATTAAAAAT
**
6547262 AATATTTTTTATACTTTTTAATTTTTAAA
1 AATATTTTTTATACTTTTTAATTTCCAAA
6547291 AATATTTTTT-TA-TTTTTAAAATTTCCAAA
1 AATATTTTTTATACTTTTT--AATTTCCAAA
6547320 AA
1 AA
6547322 ATTAATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 5 0.19
28 2 0.07
29 20 0.74
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (29 bp):
AATATTTTTTATACTTTTTAATTTCCAAA
Found at i:6547560 original size:145 final size:145
Alignment explanation
Indices: 6547297--6547586 Score: 580
Period size: 145 Copynumber: 2.0 Consensus size: 145
6547287 TAAAAATATT
6547297 TTTTTATTTTTAAAATTTCCAAAAAATTAATTAAATGTTGATGTGTCATCCACGTGATAATACAC
1 TTTTTATTTTTAAAATTTCCAAAAAATTAATTAAATGTTGATGTGTCATCCACGTGATAATACAC
6547362 ATACATGCCATGTCACCAATCGATATATATGTCACATTAGCAAAGTTAAAAAATGTTGACATTTT
66 ATACATGCCATGTCACCAATCGATATATATGTCACATTAGCAAAGTTAAAAAATGTTGACATTTT
6547427 CTTCTATTTTAGGTG
131 CTTCTATTTTAGGTG
6547442 TTTTTATTTTTAAAATTTCCAAAAAATTAATTAAATGTTGATGTGTCATCCACGTGATAATACAC
1 TTTTTATTTTTAAAATTTCCAAAAAATTAATTAAATGTTGATGTGTCATCCACGTGATAATACAC
6547507 ATACATGCCATGTCACCAATCGATATATATGTCACATTAGCAAAGTTAAAAAATGTTGACATTTT
66 ATACATGCCATGTCACCAATCGATATATATGTCACATTAGCAAAGTTAAAAAATGTTGACATTTT
6547572 CTTCTATTTTAGGTG
131 CTTCTATTTTAGGTG
6547587 ATTTGATAAA
Statistics
Matches: 145, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
145 145 1.00
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (145 bp):
TTTTTATTTTTAAAATTTCCAAAAAATTAATTAAATGTTGATGTGTCATCCACGTGATAATACAC
ATACATGCCATGTCACCAATCGATATATATGTCACATTAGCAAAGTTAAAAAATGTTGACATTTT
CTTCTATTTTAGGTG
Found at i:6553243 original size:18 final size:18
Alignment explanation
Indices: 6553220--6553262 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
6553210 TGCCAGGTGC
*
6553220 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
*
6553238 GTATCCTAACCTTTATAT
1 GTATCCTAACCCTTATAT
*
6553256 GTTTCCT
1 GTATCCT
6553263 TTTTCAACTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.21, C:0.26, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:6556868 original size:125 final size:126
Alignment explanation
Indices: 6556545--6557063 Score: 673
Period size: 126 Copynumber: 4.1 Consensus size: 126
6556535 GCCAAACAGG
* * * * *
6556545 AACTACTGTAGTAAACGAGCGTCCACGTGGAAGCTTTTTTCAAAAATTTTGCTAACAGTGCATCT
1 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAAAAATTTTGCTAACAATGCATCC
* * * *
6556610 TGTTTGAAGCATATTTGACACTATTATTTT-AGAACAGTCTTCCCAAAATTATTTTTTTAGA
66 TGCTTGAAGCATTTTTGACACTATT-TTTTCAGAACCGTCTTCTCAAAATTATTTTTTTAGA
* * * * *
6556671 AACTACTGTAGAAAAAAAGTGTCCACGTGAGAGCTTTTTTCAAAAATTTTGCTAACAATGAATCT
1 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAAAAATTTTGCTAACAATGCATCC
* * * *
6556736 TGTTTGAAGCATTTTTTACACTATTTTTTCAGAACCGTCGTCTCAAAATTA-TTTTGTAGA
66 TGCTTGAAGCATTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTTAGA
* ** * *
6556796 AACTACTGTAGAAAAAGACCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
1 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAAAAATTTTGCTAACAATGCATCC
* * *
6556861 TGCTTGAAGCATTTTCGACACTATTTTTTCAAAACCGTCTTCTCAAAATTATTTTTTTAGG
66 TGCTTGAAGCATTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTTAGA
* * **
6556922 AACTGCTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTAACAATGCATCC
1 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAAAAATTTTGCTAACAATGCATCC
* * * * * *
6556987 TGCTTGAAGCGTTTTTGAAACTATTTTTTTAGAACCATCTTCTTAAAATTATTTTTTTAGG
66 TGCTTGAAGCATTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTTAGA
* *
6557048 AACTACTATAAAAAAA
1 AACTACTGTAGAAAAA
6557064 ATAAAATCCT
Statistics
Matches: 345, Mismatches: 46, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
125 113 0.33
126 232 0.67
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (126 bp):
AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAAAAATTTTGCTAACAATGCATCC
TGCTTGAAGCATTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTTAGA
Found at i:6556996 original size:251 final size:251
Alignment explanation
Indices: 6556545--6557041 Score: 692
Period size: 251 Copynumber: 2.0 Consensus size: 251
6556535 GCCAAACAGG
* * * *
6556545 AACTACTGTAGTAAACGAGCGTCCACGTGGAAGCTTTTTTCAAAAATTTTGCTAACAGTGCATCT
1 AACTACTGTAGAAAAAGACCGTCCACGTGGAAGCTTTTTTCAAAAATTTTGCTAACAGTGCATCC
* *
6556610 TGTTTGAAGCATATTTGACACTATTATTTTAGAACAGTCTTCCCAAAATTATTTTTTTAGAAACT
66 TGCTTGAAGCATATTTGACACTATTATTTTAAAACAGTCTTCCCAAAATTATTTTTTTAGAAACT
** * *
6556675 ACTGTAGAAAAAAAGTGTCCACGTGAGAGCTTTTTTCAAAAATTTTGCTAACAATGAATCTTGTT
131 ACTGTAGAAAAAAAGCATCCACGTGAGAGCTTTTTTCAAAAATTTTGCTAACAATGAATCCTGCT
* * *
6556740 TGAAGCATTTTTTACACTATTTTTTCAGAACCGTCGTCTCAAAATTATTTTGTAGA
196 TGAAGCATTTTTGAAACTATTTTTTCAGAACCATCGTCTCAAAATTATTTTGTAGA
* ** *
6556796 AACTACTGTAGAAAAAGACCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
1 AACTACTGTAGAAAAAGACCGTCCACGTGGAAGCTTTTTTCAAAAATTTTGCTAACAGTGCATCC
* * *
6556861 TGCTTGAAGCAT-TTTCGACACTATT-TTTTCAAAACCGTCTTCTCAAAATTATTTTTTTAGGAA
66 TGCTTGAAGCATATTT-GACACTATTATTTT-AAAACAGTCTTCCCAAAATTATTTTTTTAGAAA
* * * ** *
6556924 CTGCTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTAACAATGCATCCTG
129 CTACTGTAGAAAAAAAGCATCCACGTGAGAGCTTTTTTCAAAAATTTTGCTAACAATGAATCCTG
* * * *
6556989 CTTGAAGCGTTTTTGAAACTATTTTTTTAGAACCATCTTCTTAAAATTATTTT
194 CTTGAAGCATTTTTGAAACTATTTTTTCAGAACCATCGTCTCAAAATTATTTT
6557042 TTTAGGAACT
Statistics
Matches: 214, Mismatches: 30, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
250 7 0.03
251 207 0.97
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.37
Consensus pattern (251 bp):
AACTACTGTAGAAAAAGACCGTCCACGTGGAAGCTTTTTTCAAAAATTTTGCTAACAGTGCATCC
TGCTTGAAGCATATTTGACACTATTATTTTAAAACAGTCTTCCCAAAATTATTTTTTTAGAAACT
ACTGTAGAAAAAAAGCATCCACGTGAGAGCTTTTTTCAAAAATTTTGCTAACAATGAATCCTGCT
TGAAGCATTTTTGAAACTATTTTTTCAGAACCATCGTCTCAAAATTATTTTGTAGA
Found at i:6557161 original size:34 final size:32
Alignment explanation
Indices: 6557122--6557238 Score: 96
Period size: 34 Copynumber: 3.5 Consensus size: 32
6557112 CACAAAATTA
6557122 TTTAAAAAAATTAAACCCTAATTTAATTAATTT
1 TTTAAAAAAATTAAACCCTAATTTAATT-ATTT
*
6557155 TCTT-AAAAAATCTAAACCCTAATTTTATTTATTT
1 T-TTAAAAAAAT-TAAACCCTAA-TTTAATTATTT
**** *
6557189 ATTTAAAACCCCTAAAACCTAATTTAATTA--T
1 -TTTAAAAAAATTAAACCCTAATTTAATTATTT
6557220 TTTAAAAAAACTCTAAACC
1 TTTAAAAAAA-T-TAAACC
6557239 TTGATTTATT
Statistics
Matches: 65, Mismatches: 12, Indels: 15
0.71 0.13 0.16
Matches are distributed among these distances:
30 7 0.11
31 1 0.02
32 5 0.08
33 15 0.23
34 27 0.42
35 10 0.15
ACGTcount: A:0.45, C:0.15, G:0.00, T:0.39
Consensus pattern (32 bp):
TTTAAAAAAATTAAACCCTAATTTAATTATTT
Found at i:6558512 original size:17 final size:17
Alignment explanation
Indices: 6558490--6558539 Score: 82
Period size: 17 Copynumber: 2.9 Consensus size: 17
6558480 ATATAAAGTC
6558490 AAAGATATGGGTATCAG
1 AAAGATATGGGTATCAG
*
6558507 AAAGATATAGGTATCAG
1 AAAGATATGGGTATCAG
*
6558524 AAAGATAAGGGTATCA
1 AAAGATATGGGTATCA
6558540 AAATCTGAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.46, C:0.06, G:0.26, T:0.22
Consensus pattern (17 bp):
AAAGATATGGGTATCAG
Found at i:6562378 original size:17 final size:17
Alignment explanation
Indices: 6562356--6562409 Score: 81
Period size: 17 Copynumber: 3.2 Consensus size: 17
6562346 ATAGAAAGTC
6562356 AAAGATATGGGTATCAA
1 AAAGATATGGGTATCAA
* * *
6562373 AAAGATATAGGTATTAG
1 AAAGATATGGGTATCAA
6562390 AAAGATATGGGTATCAA
1 AAAGATATGGGTATCAA
6562407 AAA
1 AAA
6562410 TATGAGATTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.50, C:0.04, G:0.22, T:0.24
Consensus pattern (17 bp):
AAAGATATGGGTATCAA
Found at i:6567528 original size:21 final size:21
Alignment explanation
Indices: 6567478--6567522 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
6567468 ATTGTTCAAC
**
6567478 TAAAAAAATTTTATCTATAAA
1 TAAAAAAAAGTTATCTATAAA
*
6567499 TAAAAAAAAGTTATTTATAAA
1 TAAAAAAAAGTTATCTATAAA
6567520 TAA
1 TAA
6567523 GGAAAAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (21 bp):
TAAAAAAAAGTTATCTATAAA
Found at i:6567975 original size:18 final size:17
Alignment explanation
Indices: 6567952--6568007 Score: 69
Period size: 17 Copynumber: 3.2 Consensus size: 17
6567942 GGGGAAAAGC
6567952 AAAAGAAAATGAAAAGAA
1 AAAAGAAAAT-AAAAGAA
*
6567970 AAAAGAAAA-AAAAGTTA
1 AAAAGAAAATAAAAG-AA
*
6567987 AAAAGAACATAAAAGAA
1 AAAAGAAAATAAAAGAA
6568004 AAAA
1 AAAA
6568008 AATTAAATTG
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
16 5 0.15
17 14 0.42
18 14 0.42
ACGTcount: A:0.79, C:0.02, G:0.12, T:0.07
Consensus pattern (17 bp):
AAAAGAAAATAAAAGAA
Found at i:6570737 original size:18 final size:17
Alignment explanation
Indices: 6570716--6570764 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
6570706 TTTTCCCCTT
6570716 TCTTTCTCTTTTTTATC
1 TCTTTCTCTTTTTTATC
*
6570733 GTCTTTC-CTTTTTTTTC
1 -TCTTTCTCTTTTTTATC
*
6570750 TCTTCCTCTTCTTTT
1 TCTTTCTCTT-TTTT
6570765 CTTTTGTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 5 0.19
17 12 0.44
18 10 0.37
ACGTcount: A:0.02, C:0.27, G:0.02, T:0.69
Consensus pattern (17 bp):
TCTTTCTCTTTTTTATC
Found at i:6570753 original size:16 final size:16
Alignment explanation
Indices: 6570716--6570766 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
6570706 TTTTCCCCTT
*
6570716 TCTTTCTCTTTTTTATC
1 TCTTTC-CTTTTTTTTC
6570733 GTCTTTCCTTTTTTTTC
1 -TCTTTCCTTTTTTTTC
*
6570750 TC-TTCCTCTTCTTTTC
1 TCTTTCCT-TTTTTTTC
6570766 T
1 T
6570767 TTTGTTTTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 5 0.17
16 10 0.33
17 9 0.30
18 6 0.20
ACGTcount: A:0.02, C:0.27, G:0.02, T:0.69
Consensus pattern (16 bp):
TCTTTCCTTTTTTTTC
Found at i:6570785 original size:26 final size:25
Alignment explanation
Indices: 6570712--6570785 Score: 67
Period size: 26 Copynumber: 2.8 Consensus size: 25
6570702 CAATTTTTCC
* *
6570712 CCTTTCTTTCTCTTTTTTATCGTCTTT
1 CCTTT-TTTTTCTTTTTT-TCTTCTTT
* **
6570739 CCTTTTTTTTCTCTTCCTCTTCTTT
1 CCTTTTTTTTCTTTTTTTCTTCTTT
*
6570764 TCTTTTGTTTTCTTTTTTTCTT
1 CCTTTT-TTTTCTTTTTTTCTT
6570786 TCTTATATTG
Statistics
Matches: 37, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
25 12 0.32
26 20 0.54
27 5 0.14
ACGTcount: A:0.01, C:0.24, G:0.03, T:0.72
Consensus pattern (25 bp):
CCTTTTTTTTCTTTTTTTCTTCTTT
Found at i:6575045 original size:20 final size:20
Alignment explanation
Indices: 6575017--6575068 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
6575007 CAAGTCAAGG
*
6575017 TATCAATACTTTGCACAAAA
1 TATCTATACTTTGCACAAAA
* *
6575037 TATCTATACTTTGCACCAAG
1 TATCTATACTTTGCACAAAA
6575057 TATCTATACTTT
1 TATCTATACTTT
6575069 TTAGAAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.35, C:0.21, G:0.06, T:0.38
Consensus pattern (20 bp):
TATCTATACTTTGCACAAAA
Found at i:6594593 original size:78 final size:79
Alignment explanation
Indices: 6594494--6594651 Score: 309
Period size: 78 Copynumber: 2.0 Consensus size: 79
6594484 TTATTATTTA
6594494 TCCAAAATCTAATTATATTTTGTATTAATTTTAATTAATATTCTAAGTAAAATTTATAACTTAAA
1 TCCAAAATCTAATTATATTTTGTATTAATTTTAATTAATATTCTAAGTAAAATTTATAACTTAAA
6594559 TTTAACACTTAATT
66 TTTAACACTTAATT
6594573 TCCAAAATCT-ATTATATTTTGTATTAATTTTAATTAATATTCTAAGTAAAATTTATAACTTAAA
1 TCCAAAATCTAATTATATTTTGTATTAATTTTAATTAATATTCTAAGTAAAATTTATAACTTAAA
6594637 TTTAACACTTAATT
66 TTTAACACTTAATT
6594651 T
1 T
6594652 TTTAGCATTT
Statistics
Matches: 79, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
78 69 0.87
79 10 0.13
ACGTcount: A:0.41, C:0.09, G:0.03, T:0.47
Consensus pattern (79 bp):
TCCAAAATCTAATTATATTTTGTATTAATTTTAATTAATATTCTAAGTAAAATTTATAACTTAAA
TTTAACACTTAATT
Found at i:6595872 original size:34 final size:35
Alignment explanation
Indices: 6595825--6595891 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
6595815 CAGTAAAATA
6595825 TTTTCCGTAAAATGATTT-CGGAAAAATATTTTAC
1 TTTTCCGTAAAATGATTTACGGAAAAATATTTTAC
* * *
6595859 TTTTCTGTGAAATGATTTACTGAAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGAAAAATATTTT
6595892 TTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGAAAAATATTTTAC
Found at i:6600046 original size:46 final size:46
Alignment explanation
Indices: 6599928--6600098 Score: 165
Period size: 44 Copynumber: 3.8 Consensus size: 46
6599918 CCCGGAGTGG
* *
6599928 TGCCATAGTATCTTTCAACTATGGTCTTGATTCA--ATCAC-ACTTAA
1 TGCCATAGTATCTTTCAACTATGGTCTT-ATTCATTTTC-CGGCTTAA
* * *
6599973 TGCCATAGTTTCTTTCAACTATAGTCTTATTCATTTTTCGG-TATAA
1 TGCCATAGTATCTTTCAACTATGGTCTTATTCATTTTCCGGCT-TAA
* * ***
6600019 TGCCGTAGTATCTTTCAACTAGGGTCTTA--CCCGTTCCGGCTTAA
1 TGCCATAGTATCTTTCAACTATGGTCTTATTCATTTTCCGGCTTAA
* *
6600063 TACCATAGTATCTTTCAACTATGGTCTTTTTCATTT
1 TGCCATAGTATCTTTCAACTATGGTCTTATTCATTT
6600099 CAAGTATAAT
Statistics
Matches: 99, Mismatches: 20, Indels: 13
0.75 0.15 0.10
Matches are distributed among these distances:
44 39 0.39
45 29 0.29
46 31 0.31
ACGTcount: A:0.23, C:0.22, G:0.13, T:0.42
Consensus pattern (46 bp):
TGCCATAGTATCTTTCAACTATGGTCTTATTCATTTTCCGGCTTAA
Found at i:6600089 original size:44 final size:44
Alignment explanation
Indices: 6599882--6600090 Score: 152
Period size: 45 Copynumber: 4.7 Consensus size: 44
6599872 TGTTTAGAGG
* * * * ** *
6599882 ATGCCATGGTATCTTTCAACCAAGGTCTTACACAATCCCGGAGTG
1 ATGCCATAGTATCTTTCAACTATGGTCTTACAC-ATTCCGGCTTA
* ** * *
6599927 GTGCCATAGTATCTTTCAACTATGGTCTTGATTCAATCAC-ACTTA
1 ATGCCATAGTATCTTTCAACTATGGTCTT-ACACATTC-CGGCTTA
* * ** *
6599972 ATGCCATAGTTTCTTTCAACTATAGTCTTATTCATTTTTCGG-TATA
1 ATGCCATAGTATCTTTCAACTATGGTCTTA--CACATTCCGGCT-TA
* * * *
6600018 ATGCCGTAGTATCTTTCAACTAGGGTCTTACCCGTTCCGGCTTA
1 ATGCCATAGTATCTTTCAACTATGGTCTTACACATTCCGGCTTA
*
6600062 ATACCATAGTATCTTTCAACTATGGTCTT
1 ATGCCATAGTATCTTTCAACTATGGTCTT
6600091 TTTCATTTCA
Statistics
Matches: 124, Mismatches: 33, Indels: 15
0.72 0.19 0.09
Matches are distributed among these distances:
44 35 0.28
45 57 0.46
46 32 0.26
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.37
Consensus pattern (44 bp):
ATGCCATAGTATCTTTCAACTATGGTCTTACACATTCCGGCTTA
Found at i:6601446 original size:67 final size:66
Alignment explanation
Indices: 6601339--6601468 Score: 199
Period size: 67 Copynumber: 2.0 Consensus size: 66
6601329 TTTCCAATTC
* * *
6601339 AGAGAGCACATTCCTCAAACCTCATTTCTTACAGTGGGATTACCAG-TCTAGGCTAAATCCCCTA
1 AGAGAGCACATCCCGCAAACCTCATTTCTTACAGCGGGATTACCAGTTC-AGGCTAAATCCCCTA
6601403 CA
65 CA
*
6601405 AGAGAGCACACTCCCGCGAACCTCATTTCTTACAGCGGGATTACCAGTTCAGGCTAAATCCCCT
1 AGAGAGCACA-TCCCGCAAACCTCATTTCTTACAGCGGGATTACCAGTTCAGGCTAAATCCCCT
6601469 GTAATATAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
66 10 0.17
67 46 0.79
68 2 0.03
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (66 bp):
AGAGAGCACATCCCGCAAACCTCATTTCTTACAGCGGGATTACCAGTTCAGGCTAAATCCCCTAC
A
Found at i:6602355 original size:2 final size:2
Alignment explanation
Indices: 6602348--6602387 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
6602338 GCTGAATATT
6602348 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
6602388 TATATATATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:6603570 original size:30 final size:31
Alignment explanation
Indices: 6603514--6603572 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
6603504 CACCCTTAAA
* * *
6603514 ATATTTACACTATTGATCCTTCAAATTTTTC
1 ATATTTACACTATTAACCCCTCAAATTTTTC
6603545 ATATTTACACT-TTAACCCCTCAAATTTT
1 ATATTTACACTATTAACCCCTCAAATTTT
6603573 GGGTATTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.31, C:0.22, G:0.02, T:0.46
Consensus pattern (31 bp):
ATATTTACACTATTAACCCCTCAAATTTTTC
Found at i:6607443 original size:19 final size:18
Alignment explanation
Indices: 6607390--6607443 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 18
6607380 AAAACCACAT
* *
6607390 TCATTTCTA-AATGTTTC
1 TCATTTCTATAATTTTTG
*
6607407 TCATTTCTCTAA-TTTTG
1 TCATTTCTATAATTTTTG
6607424 TCATTTCTATATATTTTTG
1 TCATTTCTATA-ATTTTTG
6607443 T
1 T
6607444 TTATTTGATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
17 21 0.70
18 3 0.10
19 6 0.20
ACGTcount: A:0.20, C:0.15, G:0.06, T:0.59
Consensus pattern (18 bp):
TCATTTCTATAATTTTTG
Found at i:6611131 original size:26 final size:25
Alignment explanation
Indices: 6611068--6611136 Score: 72
Period size: 24 Copynumber: 2.8 Consensus size: 25
6611058 TCCTTATATA
*
6611068 TATATATATATATATTATA-ATTGTT
1 TATA-ATATATATATTATATAATGTT
*
6611093 TATAATATTTATATTATATAAT-TT
1 TATAATATATATATTATATAATGTT
6611117 TATAATAGTGATATA-TATAT
1 TATAATA-T-ATATATTATAT
6611137 GAGATGATCC
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
24 22 0.58
25 12 0.32
26 4 0.11
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (25 bp):
TATAATATATATATTATATAATGTT
Found at i:6616556 original size:27 final size:26
Alignment explanation
Indices: 6616505--6616570 Score: 66
Period size: 27 Copynumber: 2.5 Consensus size: 26
6616495 GAAATCCCAA
6616505 ATTTTCTTTCTTTCCTTCCCCTTTTC
1 ATTTTCTTTCTTTCCTTCCCCTTTTC
*
6616531 TTTTTCTTTCCTTT-C-TCCCCTGTTTTC
1 ATTTTCTTT-CTTTCCTTCCCC--TTTTC
6616558 ATTTTGC-TTCTTT
1 ATTTT-CTTTCTTT
6616571 GTTTCTTTCC
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
25 5 0.15
26 13 0.38
27 15 0.44
28 1 0.03
ACGTcount: A:0.03, C:0.30, G:0.03, T:0.64
Consensus pattern (26 bp):
ATTTTCTTTCTTTCCTTCCCCTTTTC
Found at i:6616615 original size:5 final size:5
Alignment explanation
Indices: 6616605--6616636 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
6616595 TTTGTTCTTT
6616605 TATAA TATAA TATAA TAT-A TATAA TAT-A TATA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATA
6616637 CTTAAGTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
4 8 0.32
5 17 0.68
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (5 bp):
TATAA
Found at i:6616628 original size:9 final size:9
Alignment explanation
Indices: 6616605--6616636 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
6616595 TTTGTTCTTT
6616605 TATAATATAA
1 TATAATAT-A
6616615 TATAATATA
1 TATAATATA
6616624 TATAATATA
1 TATAATATA
6616633 TATA
1 TATA
6616637 CTTAAGTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 14 0.64
10 8 0.36
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
TATAATATA
Found at i:6617445 original size:21 final size:21
Alignment explanation
Indices: 6617419--6617460 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
6617409 CAACCCAATC
6617419 ATAAAAATTACAAATAATTTA
1 ATAAAAATTACAAATAATTTA
6617440 ATAAAAATTACAAATAATTTA
1 ATAAAAATTACAAATAATTTA
6617461 TGTGTTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (21 bp):
ATAAAAATTACAAATAATTTA
Found at i:6617527 original size:9 final size:9
Alignment explanation
Indices: 6617509--6617548 Score: 62
Period size: 9 Copynumber: 4.4 Consensus size: 9
6617499 GTAGTGGTTC
*
6617509 AATTCAGGT
1 AATTCGGGT
6617518 AATTCGGGT
1 AATTCGGGT
*
6617527 AATTCGGTT
1 AATTCGGGT
6617536 AATTCGGGT
1 AATTCGGGT
6617545 AATT
1 AATT
6617549 TAGTTAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.38
Consensus pattern (9 bp):
AATTCGGGT
Found at i:6617554 original size:18 final size:18
Alignment explanation
Indices: 6617509--6617557 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
6617499 GTAGTGGTTC
*
6617509 AATTCAGGTAATTCGGGT
1 AATTCAGTTAATTCGGGT
*
6617527 AATTCGGTTAATTCGGGT
1 AATTCAGTTAATTCGGGT
*
6617545 AATTTAGTTAATT
1 AATTCAGTTAATT
6617558 TTGAACCAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (18 bp):
AATTCAGTTAATTCGGGT
Found at i:6618053 original size:62 final size:59
Alignment explanation
Indices: 6617966--6618099 Score: 173
Period size: 62 Copynumber: 2.2 Consensus size: 59
6617956 TCCCAAAATA
* * *
6617966 ATATTATTTTAAT-AGATTTAATATTAAATTTAACT-TAATGTTTATCTTGTAGATAAATATT
1 ATATTAATTTAATAAGATTAAATATTAAATTTAA-TATAATATTTATC-T-T-GATAAATATT
* *
6618027 CTATTAATTTAATAAGATTAAATATTAAATTTAATATAATATTTCTCTTGATAAATATT
1 ATATTAATTTAATAAGATTAAATATTAAATTTAATATAATATTTATCTTGATAAATATT
6618086 ATATTAATTTAATA
1 ATATTAATTTAATA
6618100 TTAAAGTGAT
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
59 23 0.35
60 1 0.02
61 13 0.20
62 28 0.43
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (59 bp):
ATATTAATTTAATAAGATTAAATATTAAATTTAATATAATATTTATCTTGATAAATATT
Found at i:6624406 original size:97 final size:98
Alignment explanation
Indices: 6624289--6624483 Score: 383
Period size: 97 Copynumber: 2.0 Consensus size: 98
6624279 TTTTTTTATA
6624289 TTTCATATATATATTTAAAAAATATAATACATAAAAAATACTAAAAATATTAAAATAAATGTTTC
1 TTTCATATATATATTTAAAAAATATAATACATAAAAAATACTAAAAATATTAAAATAAATGTTTC
6624354 CCAACAATTTGAAAATAAATTAAAAAAATGTAT
66 CCAACAATTTGAAAATAAATTAAAAAAATGTAT
6624387 TTTCATATAT-TATTTAAAAAATATAATACATAAAAAATACTAAAAATATTAAAATAAATGTTTC
1 TTTCATATATATATTTAAAAAATATAATACATAAAAAATACTAAAAATATTAAAATAAATGTTTC
6624451 CCAACAATTTGAAAATAAATTAAAAAAATGTAT
66 CCAACAATTTGAAAATAAATTAAAAAAATGTAT
6624484 ACTTAAATAA
Statistics
Matches: 97, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
97 87 0.90
98 10 0.10
ACGTcount: A:0.56, C:0.07, G:0.03, T:0.34
Consensus pattern (98 bp):
TTTCATATATATATTTAAAAAATATAATACATAAAAAATACTAAAAATATTAAAATAAATGTTTC
CCAACAATTTGAAAATAAATTAAAAAAATGTAT
Found at i:6629337 original size:10 final size:10
Alignment explanation
Indices: 6629324--6629370 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
6629314 TTATATTATT
6629324 ATAATTTAAA
1 ATAATTTAAA
*
6629334 ATAAGTTAAA
1 ATAATTTAAA
*
6629344 ATAATATAACA
1 ATAATTTAA-A
6629355 A-AATTTTAAA
1 ATAA-TTTAAA
6629365 ATAATT
1 ATAATT
6629371 ACTTACAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
10 22 0.73
11 8 0.27
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (10 bp):
ATAATTTAAA
Found at i:6629364 original size:21 final size:23
Alignment explanation
Indices: 6629339--6629389 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
6629329 TTAAAATAAG
6629339 TTAAAATAA-TA-TAACAAAATT
1 TTAAAATAATTACTAACAAAATT
* *
6629360 TTAAAATAATTACTTACAAATTT
1 TTAAAATAATTACTAACAAAATT
6629383 TTAAAAT
1 TTAAAAT
6629390 TAAGAGACTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 9 0.35
22 2 0.08
23 15 0.58
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (23 bp):
TTAAAATAATTACTAACAAAATT
Found at i:6635658 original size:29 final size:29
Alignment explanation
Indices: 6635616--6635673 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
6635606 ATTAGAAATT
6635616 GATGAGAAATTGATTGCTAAATATTGACA
1 GATGAGAAATTGATTGCTAAATATTGACA
6635645 GATGAGAAATTGATTGCTAAATATTGACA
1 GATGAGAAATTGATTGCTAAATATTGACA
6635674 AATTAAACAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.31
Consensus pattern (29 bp):
GATGAGAAATTGATTGCTAAATATTGACA
Found at i:6636007 original size:26 final size:26
Alignment explanation
Indices: 6635978--6636030 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
6635968 ATTTTTTAAT
**
6635978 TTTTTTAATTTTAAAATACTTTTTTG
1 TTTTTTAATTTTAAAATAAATTTTTG
*
6636004 TTTTTTATTTTTAAAATAAATTTTTG
1 TTTTTTAATTTTAAAATAAATTTTTG
6636030 T
1 T
6636031 CTCGGGCCGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (26 bp):
TTTTTTAATTTTAAAATAAATTTTTG
Found at i:6637782 original size:61 final size:61
Alignment explanation
Indices: 6637687--6637809 Score: 228
Period size: 61 Copynumber: 2.0 Consensus size: 61
6637677 TAGCTAAAAA
*
6637687 AATGTTGCCCACGGTCATTATTAACCAAAGTCTCATCATTTGCATAAGAGACACGTCGAAC
1 AATGTTGCCCACGGTCATTATTAACCAAAGTCTCATCATTTCCATAAGAGACACGTCGAAC
*
6637748 AATGTTGCCCACGGTCATTATTAACCAAAGTCTCATCATTTCCATAAGAGTCACGTCGAAC
1 AATGTTGCCCACGGTCATTATTAACCAAAGTCTCATCATTTCCATAAGAGACACGTCGAAC
6637809 A
1 A
6637810 TTATTTGCAC
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (61 bp):
AATGTTGCCCACGGTCATTATTAACCAAAGTCTCATCATTTCCATAAGAGACACGTCGAAC
Found at i:6644443 original size:18 final size:17
Alignment explanation
Indices: 6644420--6644456 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
6644410 CTACCAAATG
6644420 AAACTCTAAATAATGCTA
1 AAACTCTAAATAAT-CTA
*
6644438 AAACTCTAATTAATCTA
1 AAACTCTAAATAATCTA
6644455 AA
1 AA
6644457 TAAGAAATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.51, C:0.16, G:0.03, T:0.30
Consensus pattern (17 bp):
AAACTCTAAATAATCTA
Found at i:6646866 original size:43 final size:44
Alignment explanation
Indices: 6646813--6646907 Score: 120
Period size: 44 Copynumber: 2.2 Consensus size: 44
6646803 CATAGGATTC
* * *
6646813 CGATATGTAA-TTACGTGTAAAACCATGTCTAGGACGTTGGCAT
1 CGATATGTAATTTAAGTGTAAAACCATGTCTAGGACATCGGCAT
* * *
6646856 CGATTTGTAATTTAAGTGTAAGACCATGTCTGGGACATCGGCAT
1 CGATATGTAATTTAAGTGTAAAACCATGTCTAGGACATCGGCAT
6646900 CGTATATG
1 CG-ATATG
6646908 AGTTCGTGTA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
43 9 0.21
44 30 0.70
45 4 0.09
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (44 bp):
CGATATGTAATTTAAGTGTAAAACCATGTCTAGGACATCGGCAT
Found at i:6646986 original size:43 final size:43
Alignment explanation
Indices: 6646823--6646984 Score: 113
Period size: 43 Copynumber: 3.8 Consensus size: 43
6646813 CGATATGTAA
* * *
6646823 TTACGTGTAAAACCATGTCT-AGGACGTTGGCATCGAT-TTGTAAT
1 TTACATGTAAGACCATGTCTGA-GACGTTGGCATCGATATTG--AG
* * *
6646867 TTA-AGTGTAAGACCATGTCTGGGACATCGGCATCG-TATATGAG
1 TTACA-TGTAAGACCATGTCTGAGACGTTGGCATCGATAT-TGAG
* * * * *
6646910 TT-CGTGTAAGACCCTGTCGGGGACAG-TGGCATTGATAGTTGA-
1 TTACATGTAAGACCATGTCTGAGAC-GTTGGCATCGATA-TTGAG
6646952 TTACATGTAAGACCATGTCTGAGACGTTGGCAT
1 TTACATGTAAGACCATGTCTGAGACGTTGGCAT
6646985 TGTACGAGCT
Statistics
Matches: 92, Mismatches: 16, Indels: 21
0.71 0.12 0.16
Matches are distributed among these distances:
42 27 0.29
43 33 0.36
44 30 0.33
45 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (43 bp):
TTACATGTAAGACCATGTCTGAGACGTTGGCATCGATATTGAG
Found at i:6650349 original size:13 final size:13
Alignment explanation
Indices: 6650325--6650371 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
6650315 TAAGTCCATC
6650325 ACAGAAATAGATAT
1 ACAG-AATAGATAT
*
6650339 -CAGAATCAGATGT
1 ACAGAAT-AGATAT
*
6650352 ACAGAATAGATAA
1 ACAGAATAGATAT
6650365 ACAGAAT
1 ACAGAAT
6650372 CCTACCCTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
12 3 0.11
13 19 0.68
14 6 0.21
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (13 bp):
ACAGAATAGATAT
Found at i:6655189 original size:16 final size:17
Alignment explanation
Indices: 6655170--6655209 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
6655160 TTGAAAAGAA
6655170 AAATAATTTAAAA-CTT
1 AAATAATTTAAAAGCTT
*
6655186 AAAT-TTTTAAAAGCTT
1 AAATAATTTAAAAGCTT
6655202 AAA-AATTT
1 AAATAATTT
6655210 GGAGAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.40
Consensus pattern (17 bp):
AAATAATTTAAAAGCTT
Found at i:6655516 original size:57 final size:57
Alignment explanation
Indices: 6655427--6655617 Score: 287
Period size: 57 Copynumber: 3.4 Consensus size: 57
6655417 ATACAAACTA
* * *
6655427 CAGAGAATATTTACTATTCA-TGTGTCTTTTCTTGTAGGGAATATTTACTGTTTTCGC
1 CAGAGAATATTTCCTGTTCACT-TGTCTTTTCTTGCAGGGAATATTTACTGTTTTCGC
* *
6655484 CAGAGAAAATTTCCTGTTCACTTGTCTTTTCTTGCAGGGAATATTTA-TAGTTTCCGC
1 CAGAGAATATTTCCTGTTCACTTGTCTTTTCTTGCAGGGAATATTTACT-GTTTTCGC
*
6655541 CAGAGAATATTTCATGTTCACTTGTCTTTTCTTGCAGGGAATATTTACTGTTTTCGC
1 CAGAGAATATTTCCTGTTCACTTGTCTTTTCTTGCAGGGAATATTTACTGTTTTCGC
*
6655598 TAGAGAATATTTCCTGTTCA
1 CAGAGAATATTTCCTGTTCA
6655618 TGCATCTTTT
Statistics
Matches: 121, Mismatches: 10, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
56 1 0.01
57 118 0.98
58 2 0.02
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.43
Consensus pattern (57 bp):
CAGAGAATATTTCCTGTTCACTTGTCTTTTCTTGCAGGGAATATTTACTGTTTTCGC
Found at i:6663954 original size:57 final size:57
Alignment explanation
Indices: 6663767--6663934 Score: 300
Period size: 57 Copynumber: 2.9 Consensus size: 57
6663757 AAAAGATGCA
* * *
6663767 TGAACAGAAAATATTCTCTGGAGAAAACAGTAAATATTCCCTGCAAGAGAAGACAAG
1 TGAACAGGAAATATTCTCTGGCGAAAACAGTAAATATTCCCTGCAAGAAAAGACAAG
6663824 TGAACAGGAAATATTCTCTGGCGAAAACAGTAAATATTCCCTGCAAGAAAAGACAAG
1 TGAACAGGAAATATTCTCTGGCGAAAACAGTAAATATTCCCTGCAAGAAAAGACAAG
*
6663881 TGTACAGGAAATATTCTCTGGCGAAAACAGTAAATATTCCCTGCAAGAAAAGAC
1 TGAACAGGAAATATTCTCTGGCGAAAACAGTAAATATTCCCTGCAAGAAAAGAC
6663935 GCATGAATAG
Statistics
Matches: 107, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 107 1.00
ACGTcount: A:0.43, C:0.17, G:0.19, T:0.20
Consensus pattern (57 bp):
TGAACAGGAAATATTCTCTGGCGAAAACAGTAAATATTCCCTGCAAGAAAAGACAAG
Found at i:6664590 original size:326 final size:326
Alignment explanation
Indices: 6663997--6664656 Score: 1311
Period size: 326 Copynumber: 2.0 Consensus size: 326
6663987 ATTCTCTGAA
6663997 AAGTTTTAATCAAAGTCTCAATTATGTAATGATGTAAGGGAAAAAATTTCCCGGTTCAAATGATG
1 AAGTTTTAATCAAAGTCTCAATTATGTAATGATGTAAGGGAAAAAATTTCCCGGTTCAAATGATG
6664062 TAAAGAGATAATAGCCCTCGTTTTCCCAGAATTCCAAAGTTTCTCCAAATTTTTAAGCTTGCAAA
66 TAAAGAGATAATAGCCCTCGTTTTCCCAGAATTCCAAAGTTTCTCCAAATTTTTAAGCTTGCAAA
6664127 AATTTAAGTTTTAAATTATTTTTCTTTTCAAAATTTAATCAATAATCAAATTTTTATTACAAATT
131 AATTTAAGTTTTAAATTATTTTTCTTTTCAAAATTTAATCAATAATCAAATTTTTATTACAAATT
6664192 TCAAATTACGATTATCTCATTCCAAACCCGATCCTCAGATCCTCGAGACAGTCTGGTATAAATTA
196 TCAAATTACGATTATCTCATTCCAAACCCGATCCTCAGATCCTCGAGACAGTCTGGTATAAATTA
6664257 GATTAAATTCAATATTAAATCTTGTTAAAATAATAGAATATTTATCTATAAGATAAACATTAAAT
261 GATTAAATTCAATATTAAATCTTGTTAAAATAATAGAATATTTATCTATAAGATAAACATTAAAT
6664322 T
326 T
6664323 AAGTTTTAATCAAAGTCTCAATTATGTAATGATGTAAGGGAAAAAATTTCCCGGTTCAAATGATG
1 AAGTTTTAATCAAAGTCTCAATTATGTAATGATGTAAGGGAAAAAATTTCCCGGTTCAAATGATG
6664388 TAAAGAGATAATAGCCCTCGTTTTCCCAGAATTCCAAAGTTTCTCCAAATTTTTAAGCTTGCAAA
66 TAAAGAGATAATAGCCCTCGTTTTCCCAGAATTCCAAAGTTTCTCCAAATTTTTAAGCTTGCAAA
6664453 AATTTAAGTTTTAAATTATTTTTCTTTTCAAAATTTAATCAATAATCAAATTTTTATTACAAATT
131 AATTTAAGTTTTAAATTATTTTTCTTTTCAAAATTTAATCAATAATCAAATTTTTATTACAAATT
6664518 TCAAATTACGATTATCTCATTCCAAACCCGATCCTCAGATCCTCGAGACAGTCTGGTATAAATTA
196 TCAAATTACGATTATCTCATTCCAAACCCGATCCTCAGATCCTCGAGACAGTCTGGTATAAATTA
6664583 GATTAAATTCAATATTAAATCTTGTTAAAATAATAGAATATTTATCTATAAGATAAACATTAAAT
261 GATTAAATTCAATATTAAATCTTGTTAAAATAATAGAATATTTATCTATAAGATAAACATTAAAT
6664648 T
326 T
*
6664649 AAATTTTA
1 AAGTTTTA
6664657 TATTAAAATA
Statistics
Matches: 333, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
326 333 1.00
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.37
Consensus pattern (326 bp):
AAGTTTTAATCAAAGTCTCAATTATGTAATGATGTAAGGGAAAAAATTTCCCGGTTCAAATGATG
TAAAGAGATAATAGCCCTCGTTTTCCCAGAATTCCAAAGTTTCTCCAAATTTTTAAGCTTGCAAA
AATTTAAGTTTTAAATTATTTTTCTTTTCAAAATTTAATCAATAATCAAATTTTTATTACAAATT
TCAAATTACGATTATCTCATTCCAAACCCGATCCTCAGATCCTCGAGACAGTCTGGTATAAATTA
GATTAAATTCAATATTAAATCTTGTTAAAATAATAGAATATTTATCTATAAGATAAACATTAAAT
T
Found at i:6664735 original size:37 final size:36
Alignment explanation
Indices: 6664657--6664748 Score: 98
Period size: 37 Copynumber: 2.4 Consensus size: 36
6664647 TTAAATTTTA
6664657 TATTAAAATAATCACTTTAATATTAAATTAATAAAATAC
1 TATTAAAATAAT-A--TTAATATTAAATTAATAAAATAC
* *
6664696 TATTAAGATAAGTATTAA-ATTAAATATAATATTAA-AC
1 TATTAAAATAA-TATTAATATTAAAT-TAATA-AAATAC
6664733 TATTAAAATAATATTA
1 TATTAAAATAATATTA
6664749 TTTTTGGAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
36 12 0.26
37 21 0.45
38 2 0.04
39 11 0.23
40 1 0.02
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.39
Consensus pattern (36 bp):
TATTAAAATAATATTAATATTAAATTAATAAAATAC
Found at i:6666370 original size:16 final size:16
Alignment explanation
Indices: 6666349--6666383 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
6666339 GCTATGCATG
*
6666349 TAAAATATAAAAGACA
1 TAAAATACAAAAGACA
*
6666365 TAAAATACAAAATACA
1 TAAAATACAAAAGACA
6666381 TAA
1 TAA
6666384 TAGTGAAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.69, C:0.09, G:0.03, T:0.20
Consensus pattern (16 bp):
TAAAATACAAAAGACA
Found at i:6681871 original size:25 final size:26
Alignment explanation
Indices: 6681809--6681871 Score: 60
Period size: 25 Copynumber: 2.5 Consensus size: 26
6681799 TTTATTATTG
* * * *
6681809 TAAATATAAAAATTTATTTTTACATC
1 TAAATATTAAAATTTAATTATAAATC
6681835 GTAAA-ATT-AAATTTAATTATAAAT-
1 -TAAATATTAAAATTTAATTATAAATC
6681859 TAAATATTAAAAT
1 TAAATATTAAAAT
6681872 CGGTTATGAG
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
23 4 0.13
24 3 0.10
25 17 0.57
26 2 0.07
27 4 0.13
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (26 bp):
TAAATATTAAAATTTAATTATAAATC
Found at i:6687810 original size:29 final size:29
Alignment explanation
Indices: 6687771--6687832 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 29
6687761 AACACTTTTA
*
6687771 AATTTTAATTTCT-CTATTTTTAATTTAAAT
1 AATTTTAATTTATACTA-TTTTAATTT-AAT
6687801 AATTTT-ATTTATACTATTTTAATTTAAT
1 AATTTTAATTTATACTATTTTAATTTAAT
6687829 AATT
1 AATT
6687833 AAATTTTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 7 0.23
29 14 0.47
30 9 0.30
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (29 bp):
AATTTTAATTTATACTATTTTAATTTAAT
Found at i:6696568 original size:14 final size:14
Alignment explanation
Indices: 6696549--6696575 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6696539 TTTTTATACT
6696549 ATTTTAAAATTTAA
1 ATTTTAAAATTTAA
6696563 ATTTTAAAATTTA
1 ATTTTAAAATTTA
6696576 GTCTATATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
ATTTTAAAATTTAA
Found at i:6697278 original size:17 final size:17
Alignment explanation
Indices: 6697258--6697290 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
6697248 TGAATTTTGG
6697258 AAAT-TTTTATATTTTTA
1 AAATCTTTT-TATTTTTA
6697275 AAATCTTTTTATTTTT
1 AAATCTTTTTATTTTT
6697291 TATTTTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (17 bp):
AAATCTTTTTATTTTTA
Found at i:6697954 original size:22 final size:22
Alignment explanation
Indices: 6697923--6697975 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
6697913 AGTATTTTTT
* *
6697923 ATATTT-TTTAAAAAATATAAT
1 ATATTTATTTAAAAAATAAAAA
* *
6697944 ATTTTTATTTAAAATATAAAAA
1 ATATTTATTTAAAAAATAAAAA
6697966 ATATTTATTT
1 ATATTTATTT
6697976 TACTTTTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 5 0.19
22 21 0.81
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
ATATTTATTTAAAAAATAAAAA
Found at i:6698477 original size:28 final size:27
Alignment explanation
Indices: 6698413--6698477 Score: 69
Period size: 28 Copynumber: 2.4 Consensus size: 27
6698403 TTTTAAAAAA
6698413 AATATTTTTATTATTTTAATTTTATTC
1 AATATTTTTATTATTTTAATTTTATTC
** * *
6698440 AATAAGTTTATATATTTT-TTATTTATTG
1 AATATTTTTAT-TATTTTAAT-TTTATTC
6698468 AATATTTTTA
1 AATATTTTTA
6698478 ATGTTTACAT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
27 10 0.33
28 20 0.67
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (27 bp):
AATATTTTTATTATTTTAATTTTATTC
Found at i:6698930 original size:29 final size:29
Alignment explanation
Indices: 6698888--6698957 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 29
6698878 TATAATAGGG
* *
6698888 AATAGATCAAATTAATCTCTCTATTATTA
1 AATAGATCAAATTAATCCCTATATTATTA
*
6698917 AATAGATCAAATTAGTCCCTATATTATTA
1 AATAGATCAAATTAATCCCTATATTATTA
* *
6698946 AAAAAATCAAAT
1 AATAGATCAAAT
6698958 AAGTCTAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.47, C:0.13, G:0.04, T:0.36
Consensus pattern (29 bp):
AATAGATCAAATTAATCCCTATATTATTA
Found at i:6699399 original size:30 final size:29
Alignment explanation
Indices: 6699343--6699426 Score: 114
Period size: 29 Copynumber: 2.8 Consensus size: 29
6699333 CATTTAATTA
** *
6699343 ATTTTTTAAAACTTAAAAATAATTTTTAT
1 ATTTTTTAAATTTTAAAAATAATTTTTTT
6699372 ATTTTTTAAATTTTAAAAATAATTTTTTT
1 ATTTTTTAAATTTTAAAAATAATTTTTTT
*
6699401 ATTTTTATAATTTTTAAAAACTAATT
1 ATTTTT-TAAATTTTAAAAA-TAATT
6699427 AAATGTTGAT
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
29 32 0.65
30 12 0.24
31 5 0.10
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (29 bp):
ATTTTTTAAATTTTAAAAATAATTTTTTT
Found at i:6700025 original size:24 final size:23
Alignment explanation
Indices: 6699983--6700033 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
6699973 TTTTATTATT
*
6699983 ATTTAATTTTTATAAAATAATATC
1 ATTTAATTTTTATAAAAT-ATATA
*
6700007 ATTTAATTTATTA-ATAATATATA
1 ATTTAATTT-TTATAAAATATATA
6700030 ATTT
1 ATTT
6700034 TTTCACCATC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 8 0.33
24 13 0.54
25 3 0.12
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
ATTTAATTTTTATAAAATATATA
Found at i:6702194 original size:20 final size:20
Alignment explanation
Indices: 6702157--6702208 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 20
6702147 TTGTACAAGA
* * *
6702157 TTGCACTTCGGTGACTCTGT
1 TTGCACTTTGATGACTCTAT
*
6702177 TTGCACTTTGATGCCTCTAT
1 TTGCACTTTGATGACTCTAT
* *
6702197 TAGCATTTTGAT
1 TTGCACTTTGAT
6702209 TCTCTCTAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.15, C:0.21, G:0.19, T:0.44
Consensus pattern (20 bp):
TTGCACTTTGATGACTCTAT
Found at i:6708283 original size:9 final size:9
Alignment explanation
Indices: 6708247--6708345 Score: 80
Period size: 9 Copynumber: 10.8 Consensus size: 9
6708237 TTTCCATACG
6708247 AATATTA-A
1 AATATTATA
6708255 AATATTATAA
1 AATATTAT-A
*
6708265 AAGAATTATA
1 AA-TATTATA
6708275 AATATTATA
1 AATATTATA
6708284 AATATTA-A
1 AATATTATA
6708292 AAT-TTATA
1 AATATTATA
*
6708300 TATACTTATTA
1 AATA-TTA-TA
6708311 AA-ATTATTA
1 AATATTA-TA
*
6708320 AAAATTATA
1 AATATTATA
*
6708329 AAAACTTATA
1 AATA-TTATA
6708339 AATATTA
1 AATATTA
6708346 AGGTTAAATA
Statistics
Matches: 77, Mismatches: 5, Indels: 17
0.78 0.05 0.17
Matches are distributed among these distances:
7 3 0.04
8 14 0.18
9 30 0.39
10 22 0.29
11 8 0.10
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (9 bp):
AATATTATA
Found at i:6708286 original size:29 final size:28
Alignment explanation
Indices: 6708247--6708345 Score: 93
Period size: 29 Copynumber: 3.6 Consensus size: 28
6708237 TTTCCATACG
6708247 AATA-TTA-AAATATTATAAAAGAATTATA
1 AATACTTATAAATATTAT-AAA-AATTATA
*
6708275 AATA-TTATAAATA-T-TAAAATTTATA
1 AATACTTATAAATATTATAAAAATTATA
*
6708300 TATACTTATTAAA-ATTATTAAAAATTATA
1 AATACTTA-TAAATATTA-TAAAAATTATA
*
6708329 AAAACTTATAAATATTA
1 AATACTTATAAATATTA
6708346 AGGTTAAATA
Statistics
Matches: 59, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
25 9 0.15
26 7 0.12
27 6 0.10
28 12 0.20
29 25 0.42
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (28 bp):
AATACTTATAAATATTATAAAAATTATA
Found at i:6709091 original size:20 final size:21
Alignment explanation
Indices: 6709047--6709090 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 21
6709037 ATATTTTGAC
*
6709047 TTTTAAAAGTTATTTTGAATT
1 TTTTAAAAGTGATTTTGAATT
6709068 TTTTAAAA-TGATTTT-AATT
1 TTTTAAAAGTGATTTTGAATT
6709087 TTTT
1 TTTT
6709091 TTGTAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.36
20 6 0.27
21 8 0.36
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (21 bp):
TTTTAAAAGTGATTTTGAATT
Found at i:6709622 original size:21 final size:21
Alignment explanation
Indices: 6709597--6709640 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
6709587 ATCTTCAAGG
6709597 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
*
6709618 ATATGCAATCTTGGATATGAT
1 ATATGCAATCTTAGATATGAT
6709639 AT
1 AT
6709641 GCAACCTTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.39
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:6709642 original size:19 final size:19
Alignment explanation
Indices: 6709596--6709651 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 19
6709586 AATCTTCAAG
*
6709596 GATATGCAATCTTAGATAT
1 GATATGCAATCTTGGATAT
6709615 GATATATGCAATCTTGGATAT
1 G--ATATGCAATCTTGGATAT
*
6709636 GATATGCAACCTTGGA
1 GATATGCAATCTTGGA
6709652 AGATATGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.45
21 18 0.55
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (19 bp):
GATATGCAATCTTGGATAT
Found at i:6715779 original size:17 final size:17
Alignment explanation
Indices: 6715752--6715791 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
6715742 CTCCCTTTTC
6715752 TCTTT-TTTTCTTTCTT
1 TCTTTATTTTCTTTCTT
6715768 TCTTTATTTTCTTTCTT
1 TCTTTATTTTCTTTCTT
6715785 T-TTTATT
1 TCTTTATT
6715792 GAAAGCACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 11 0.48
17 12 0.52
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (17 bp):
TCTTTATTTTCTTTCTT
Found at i:6720988 original size:24 final size:25
Alignment explanation
Indices: 6720956--6721007 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
6720946 CTAAAATAGG
* *
6720956 ATTTGTTC-TATTTTGGCCACTCTA
1 ATTTGTTCTTAATTTAGCCACTCTA
*
6720980 ATTTTTTCTTAATTTAGCCACTCTA
1 ATTTGTTCTTAATTTAGCCACTCTA
6721005 ATT
1 ATT
6721008 AAGATAATTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 7 0.29
25 17 0.71
ACGTcount: A:0.21, C:0.19, G:0.08, T:0.52
Consensus pattern (25 bp):
ATTTGTTCTTAATTTAGCCACTCTA
Done.