Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 195 of 203
Found at i:62200895 original size:11 final size:11
Alignment explanation
Indices: 62200875--62200934 Score: 58
Period size: 11 Copynumber: 5.6 Consensus size: 11
62200865 AGAAAATTAA
62200875 AAAAAGTATTTT
1 AAAAA-TATTTT
62200887 AAAAATATTTT
1 AAAAATATTTT
62200898 AAAAATA----
1 AAAAATATTTT
62200905 AAAAAGTATTTT
1 AAAAA-TATTTT
62200917 -AAAATATTTTT
1 AAAAATA-TTTT
62200928 AAAAATA
1 AAAAATA
62200935 AAAAAAATAT
Statistics
Matches: 41, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
7 5 0.12
8 2 0.05
10 2 0.05
11 21 0.51
12 11 0.27
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:62205075 original size:3 final size:3
Alignment explanation
Indices: 62205069--62205120 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
62205059 GATGATGATG
62205069 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
62205117 ATA A
1 ATA A
62205121 AAGTCCTGCT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:62211063 original size:42 final size:42
Alignment explanation
Indices: 62211015--62211096 Score: 164
Period size: 42 Copynumber: 2.0 Consensus size: 42
62211005 TGCCTATTAA
62211015 TAAATCATTCTATAATTTGTATGCTTGTTCCTTTTTTCCTAG
1 TAAATCATTCTATAATTTGTATGCTTGTTCCTTTTTTCCTAG
62211057 TAAATCATTCTATAATTTGTATGCTTGTTCCTTTTTTCCT
1 TAAATCATTCTATAATTTGTATGCTTGTTCCTTTTTTCCT
62211097 TTCTTTTATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.21, C:0.17, G:0.09, T:0.54
Consensus pattern (42 bp):
TAAATCATTCTATAATTTGTATGCTTGTTCCTTTTTTCCTAG
Found at i:62213792 original size:20 final size:19
Alignment explanation
Indices: 62213714--62213785 Score: 101
Period size: 19 Copynumber: 3.7 Consensus size: 19
62213704 AAAAATACAA
62213714 TATTTTGAATTTTTATAAA-
1 TATTTTGAATTTTTA-AAAT
**
62213733 TATTTTGAAAATTTAAAAT
1 TATTTTGAATTTTTAAAAT
62213752 TATTTTGAATTTTTGAAAAT
1 TATTTTGAATTTTT-AAAAT
62213772 TATTTTGAATTTTT
1 TATTTTGAATTTTT
62213786 TGTAATTTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
18 3 0.06
19 25 0.53
20 19 0.40
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (19 bp):
TATTTTGAATTTTTAAAAT
Found at i:62235465 original size:35 final size:35
Alignment explanation
Indices: 62235419--62235489 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
62235409 TTCCCATTTA
*
62235419 AGTACAAAACATGTGTATGCTTTGGCATTCATCTT
1 AGTACAAAACATGTGTATGCTTTGCCATTCATCTT
62235454 AGTACAAAACATGTGTATGCTTTGCCATTCATCTT
1 AGTACAAAACATGTGTATGCTTTGCCATTCATCTT
62235489 A
1 A
62235490 TCTTCTATTC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (35 bp):
AGTACAAAACATGTGTATGCTTTGCCATTCATCTT
Found at i:62237619 original size:41 final size:44
Alignment explanation
Indices: 62237494--62237681 Score: 129
Period size: 45 Copynumber: 4.2 Consensus size: 44
62237484 ATACTCGGAT
* * *
62237494 AATCACATATATCGAACAATGCCAACGTCCCAGACGTGGTCTTACATG
1 AATCACATATATCG----ATGCCATCGTCCCAGACATGGTCTTACACG
* * * * *
62237542 CTATCTC--ATATCGATGCCA-CTGTCTCGGACAGGGTCTTACACG
1 -AATCACATATATCGATGCCATC-GTCCCAGACATGGTCTTACACG
* *
62237585 AATCA-A-ATA-CGATGCCAAT-GTCCTAGACATGGTCTTACACAT
1 AATCACATATATCGATGCC-ATCGTCCCAGACATGGTCTTACAC-G
**
62237627 AATCACATATATCGATGCCATCGTCCCAGATGTGGTCTTACACG
1 AATCACATATATCGATGCCATCGTCCCAGACATGGTCTTACACG
*
62237671 AGACCACATAT
1 A-ATCACATAT
62237682 CAAAAATCCT
Statistics
Matches: 110, Mismatches: 19, Indels: 24
0.72 0.12 0.16
Matches are distributed among these distances:
41 24 0.22
42 13 0.12
43 24 0.22
44 6 0.05
45 33 0.30
47 6 0.05
49 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (44 bp):
AATCACATATATCGATGCCATCGTCCCAGACATGGTCTTACACG
Found at i:62237663 original size:45 final size:41
Alignment explanation
Indices: 62237512--62237671 Score: 124
Period size: 41 Copynumber: 3.8 Consensus size: 41
62237502 ATATCGAACA
* * * * **
62237512 ATGCCAACGTCCCAGACGTGGTCTTACATGCTATCTCATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AATCAAATA-CG
* * * *
62237555 ATGCCACTGTCTCGGACAGGGTCTTACACGAATCAAATACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAATCAAATACG
* *
62237596 ATGCCAATGTCCTAGACATGGTCTTACACATAATCACATATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACAC-GAATCA-A-ATA-CG
**
62237641 ATGCC-ATCGTCCCAGATGTGGTCTTACACGA
1 ATGCCAAT-GTCCCAGACATGGTCTTACACGA
62237672 GACCACATAT
Statistics
Matches: 92, Mismatches: 20, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
41 26 0.28
42 11 0.12
43 24 0.26
44 6 0.07
45 25 0.27
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.26
Consensus pattern (41 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAATCAAATACG
Found at i:62241686 original size:81 final size:81
Alignment explanation
Indices: 62241578--62241780 Score: 318
Period size: 81 Copynumber: 2.5 Consensus size: 81
62241568 GGTATAACAG
* *
62241578 TCATTTTACCCTATAGGGGTATTTCGGTCATTTTATCC-TCTGGGGGTATTTTGATCATTTTACC
1 TCATTTTACCCTATAGGGGTATTTCGGTCATTTTA-CCTTATAGGGGTATTTTGATCATTTTACC
*
62241642 CTATGAGGGTATTTCGA
65 CTATGAAGGTATTTCGA
* * *
62241659 TCATTTTACCCTATAGGGGTATTTCGGTGATTTTACCTTATAGGGGTATTTTGGTTATTTTACCC
1 TCATTTTACCCTATAGGGGTATTTCGGTCATTTTACCTTATAGGGGTATTTTGATCATTTTACCC
62241724 TATGAAGGTATTTCGA
66 TATGAAGGTATTTCGA
* *
62241740 TCATTTTACCTTATGGGGGTATTTCGGTCATTTTACCTTAT
1 TCATTTTACCCTATAGGGGTATTTCGGTCATTTTACCTTAT
62241781 GAATTCTCGG
Statistics
Matches: 112, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
80 2 0.02
81 110 0.98
ACGTcount: A:0.19, C:0.16, G:0.20, T:0.45
Consensus pattern (81 bp):
TCATTTTACCCTATAGGGGTATTTCGGTCATTTTACCTTATAGGGGTATTTTGATCATTTTACCC
TATGAAGGTATTTCGA
Found at i:62241777 original size:27 final size:27
Alignment explanation
Indices: 62241577--62241781 Score: 248
Period size: 27 Copynumber: 7.6 Consensus size: 27
62241567 GGGTATAACA
*
62241577 GTCATTTTACCCTATAGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
62241604 GTCATTTTATCCTCTGGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
62241631 ATCATTTTACCCTATGAGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
62241658 ATCATTTTACCCTATAGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * *
62241685 GTGATTTTACCTTATAGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* **
62241712 GTTATTTTACCCTATGAAGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
62241739 ATCATTTTACCTTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
62241766 GTCATTTTACCTTATG
1 GTCATTTTACCCTATG
62241782 AATTCTCGGT
Statistics
Matches: 151, Mismatches: 27, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 151 1.00
ACGTcount: A:0.19, C:0.16, G:0.21, T:0.44
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:62244417 original size:20 final size:20
Alignment explanation
Indices: 62244385--62244456 Score: 56
Period size: 20 Copynumber: 3.6 Consensus size: 20
62244375 TACTTCACTT
*
62244385 AAAGTATCT-ATACATTGCTT
1 AAAGTAT-TGATACATTGCTC
* * *
62244405 ATAGTATTGATACTTTTCTC
1 AAAGTATTGATACATTGCTC
* **
62244425 AAAGTATTGACACATTTATC
1 AAAGTATTGATACATTGCTC
*
62244445 AAAGTATCGATA
1 AAAGTATTGATA
62244457 TTTTTATTAT
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
19 1 0.02
20 40 0.98
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (20 bp):
AAAGTATTGATACATTGCTC
Found at i:62244451 original size:40 final size:40
Alignment explanation
Indices: 62244407--62244484 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 40
62244397 CATTGCTTAT
* * *
62244407 AGTATTGATACTTTTCTCAAAGTATTGACACATTTATCAA
1 AGTATCGATACTTTTATCAAAGTATTGAAACATTTATCAA
* * * *
62244447 AGTATCGATATTTTTATTATAGTATTGAAACCTTTATC
1 AGTATCGATACTTTTATCAAAGTATTGAAACATTTATC
62244485 TTGGTATTGA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.44
Consensus pattern (40 bp):
AGTATCGATACTTTTATCAAAGTATTGAAACATTTATCAA
Found at i:62244462 original size:20 final size:20
Alignment explanation
Indices: 62244407--62244484 Score: 75
Period size: 20 Copynumber: 3.9 Consensus size: 20
62244397 CATTGCTTAT
*
62244407 AGTATTGATACTTTTCTCAA
1 AGTATTGATACTTTTATCAA
* *
62244427 AGTATTGACACATTTATCAA
1 AGTATTGATACTTTTATCAA
* * * *
62244447 AGTATCGATATTTTTATTAT
1 AGTATTGATACTTTTATCAA
* *
62244467 AGTATTGAAACCTTTATC
1 AGTATTGATACTTTTATC
62244485 TTGGTATTGA
Statistics
Matches: 44, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.44
Consensus pattern (20 bp):
AGTATTGATACTTTTATCAA
Found at i:62247924 original size:17 final size:17
Alignment explanation
Indices: 62247889--62247924 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
62247879 AAAAAATGGG
* *
62247889 TTGAGAAAATTATTTAA
1 TTGAGAAAATTAATAAA
62247906 TTGAGAAAATTAATAAA
1 TTGAGAAAATTAATAAA
62247923 TT
1 TT
62247925 AAAATTAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (17 bp):
TTGAGAAAATTAATAAA
Found at i:62256648 original size:6 final size:6
Alignment explanation
Indices: 62256634--62256663 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
62256624 TTGATCTTAT
*
62256634 CATAGA CATATA CATATA CATATA CATATA
1 CATATA CATATA CATATA CATATA CATATA
62256664 TGTATATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.50, C:0.17, G:0.03, T:0.30
Consensus pattern (6 bp):
CATATA
Found at i:62257530 original size:44 final size:43
Alignment explanation
Indices: 62257428--62257530 Score: 120
Period size: 43 Copynumber: 2.4 Consensus size: 43
62257418 AGCTCGTACA
* ** *
62257428 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAACATCG
1 ATGCCAATGTCCCAGACAAGATCTTACATGTAATCAAACATCG
*
62257471 ATGCCACTGTCCCAGACAAGATCTTACATGTAAACCTC-AA-ATCG
1 ATGCCAATGTCCCAGACAAGATCTTACATGT-AA--TCAAACATCG
62257515 ATGCCAATGTCCCAGA
1 ATGCCAATGTCCCAGA
62257531 TGTGTTCTTA
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
43 26 0.51
44 21 0.41
45 2 0.04
46 2 0.04
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAAGATCTTACATGTAATCAAACATCG
Found at i:62257540 original size:44 final size:43
Alignment explanation
Indices: 62257428--62257542 Score: 126
Period size: 44 Copynumber: 2.7 Consensus size: 43
62257418 AGCTCGTACA
* *
62257428 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAACATCG
1 ATGCCAATGTCCCAGACGTGATCTTACATGTAATCAAACATCG
* **
62257471 ATGCCACTGTCCCAGACAAGATCTTACATGTAAACCTC-AA-ATCG
1 ATGCCAATGTCCCAGACGTGATCTTACATGT-AA--TCAAACATCG
* *
62257515 ATGCCAATGTCCCAGATGTGTTCTTACA
1 ATGCCAATGTCCCAGACGTGATCTTACA
62257543 CAAATACTCA
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
43 26 0.44
44 29 0.49
45 2 0.03
46 2 0.03
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGATCTTACATGTAATCAAACATCG
Found at i:62259829 original size:85 final size:85
Alignment explanation
Indices: 62259677--62259836 Score: 257
Period size: 85 Copynumber: 1.9 Consensus size: 85
62259667 GCCTCTTGGC
* * * *
62259677 TCGTAATCGAACCACATATTTGCAGTTATTGCCACTTGTTGTGGGTGTACAACATATTTACAGAT
1 TCGTAATCGAACCACATACTTGCAGTTATTGCCACTTGTTGTAGGTGCACAACATATTTACAAAT
*
62259742 TAAATAAACTACCATTTAAT
66 TAAACAAACTACCATTTAAT
* *
62259762 TCGTGATCGAACCACATACTTGCAGTTATTGCCACTTGTTGTAGGTGCACAACATATTTGCAAAT
1 TCGTAATCGAACCACATACTTGCAGTTATTGCCACTTGTTGTAGGTGCACAACATATTTACAAAT
62259827 TAAACAAACT
66 TAAACAAACT
62259837 GCCACTCGGT
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
85 68 1.00
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (85 bp):
TCGTAATCGAACCACATACTTGCAGTTATTGCCACTTGTTGTAGGTGCACAACATATTTACAAAT
TAAACAAACTACCATTTAAT
Found at i:62259860 original size:85 final size:85
Alignment explanation
Indices: 62259686--62259863 Score: 223
Period size: 85 Copynumber: 2.1 Consensus size: 85
62259676 CTCGTAATCG
* * * * *
62259686 AACCACATATTTGCAGTTATTGCCACTTGTTGTGGGTGTACAACATATTTACAGATTAAATAAAC
1 AACCACATACTTGCAGTTATTGCCACTTGTTGTAGGTGCACAACATATTTACAAATTAAACAAAC
* * * *
62259751 TACCATTTAATTCGTGATCG
66 TACCACTCAATTCATGATCA
*
62259771 AACCACATACTTGCAGTTATTGCCACTTGTTGTAGGTGCACAACATATTTGCAAATTAAACAAAC
1 AACCACATACTTGCAGTTATTGCCACTTGTTGTAGGTGCACAACATATTTACAAATTAAACAAAC
* **
62259836 TGCCACTCGGTTCATGAAT-A
66 TACCACTCAATTCATG-ATCA
62259856 AACCACAT
1 AACCACAT
62259864 TATTTTCATA
Statistics
Matches: 79, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
85 77 0.97
86 2 0.03
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (85 bp):
AACCACATACTTGCAGTTATTGCCACTTGTTGTAGGTGCACAACATATTTACAAATTAAACAAAC
TACCACTCAATTCATGATCA
Found at i:62260883 original size:27 final size:27
Alignment explanation
Indices: 62260822--62260874 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
62260812 AAGAAAAAAT
*
62260822 AAAAAAGATGAGATTAAATGAAGAAAC
1 AAAAAAGATGAGATTAAATGAACAAAC
62260849 AAAAAAGATGAGATTAAATGAACAAA
1 AAAAAAGATGAGATTAAATGAACAAA
62260875 TTACAAAGAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.64, C:0.04, G:0.17, T:0.15
Consensus pattern (27 bp):
AAAAAAGATGAGATTAAATGAACAAAC
Found at i:62268170 original size:608 final size:608
Alignment explanation
Indices: 62267016--62269397 Score: 4093
Period size: 608 Copynumber: 3.9 Consensus size: 608
62267006 CTTGTCCTTA
* *
62267016 CAACCGAACCGTAGAACCTTTTTCCACGGAGATACCTTAGGAAATACAAAGTCCTCCATAGAGTA
1 CAACCGAACCGTAGAACCTTTTTCCACGGAGATACCTTAAGAAATACAAAGTCCCCCATAGAGTA
* * *
62267081 CTTGATATCTCTGATTTTCAGATTTCCATAAGACTTCTATCTATCAGAAGACGCCTTCAGACGAT
66 CTTGATATATCTGATTTTCAGATTTGCATAAGACTACTATCTATCAGAAGACGCCTTCAGACGAT
*
62267146 CCCAAATTAGTCTAACATTATCCTCAGTCTCGGAAACCAACTCAGGACCCAAAACCCGTCGCTCA
131 CCCAAATTAGTCTAACATTATCTTCAGTCTCGGAAACCAACTCAGGACCCAAAACCCGTCGCTCA
62267211 CCCAACTCAGTCTAATATAACAGAGTATGACACTTATGACCATATAGAGCCTCGTAAGGTGCCAT
196 CCCAACTCAGTCTAATATAACAGAGTATGACACTTATGACCATATAGAGCCTCGTAAGGTGCCAT
*
62267276 CTAGATGCTAGATTGGAAACTGCTATTGTAGGCGAACTCAACTAACGGTAAAAAATCCTCCCAAC
261 CTAGATGCTAGATTGGAAACTGTTATTGTAGGCGAACTCAACTAACGGTAAAAAATCCTCCCAAC
*
62267341 TACCTCAGAAATAAATCACATAGCTCCAAATCATAACCTCTAGTATATGAATCACCCTCTCAAAT
326 TACCTCAGAAATAAATCACATAGCTCCAAATCATAACCTCTAGTATATGAATCACCCACTCAAAT
* * *
62267406 TGACCATCGGTCTGAGGATGGAACGCAGTACTGAAGTCCAATCTCGAACCCAGAGCCTTGTGAAG
391 TGACCATCGGTCTAAGGATAGAACGCAGTACTGAAGTACAATCTCGAACCCAGAGCCTTGTGAAG
62267471 TTTCTTCTAGAACCATGAAGTGAAGAGAGGATCCACATCAGAGATTATTGAAATTGGAACCCCAT
456 TTTCTTCTAGAACCATGAAGTGAAGAGAGGATCCACATCAGAGATTATTGAAATTGGAACCCCAT
* * *
62267536 GCAGTCTTACAATCTGAGAAATGTAGAGCTTCACTAACTTTTACAGAGAGTAGTCCATCAGAACA
521 GCAGTCTTACAATCTGAGAAATGTAGAGCTTCACTAACTTTTGCAGAGAGTAGTCCATCTGAAAA
*
62267601 GGAATAAAATGAGTGGACTTGGT
586 GGAATAAAATGAGCGGACTTGGT
* * *
62267624 CAACCGAACTGTAGAACCTTTTTCCACGGAGATACCTTCAGAAATACAAAGTCCCCCAAAGAGTA
1 CAACCGAACCGTAGAACCTTTTTCCACGGAGATACCTTAAGAAATACAAAGTCCCCCATAGAGTA
* * * **
62267689 CTCGATATCTCTGATATTT-AGACTTGCATAAGACTTTTATCTAAT-AGAAGACGCCTTCAGACG
66 CTTGATATATCTGAT-TTTCAGATTTGCATAAGACTACTATCT-ATCAGAAGACGCCTTCAGACG
* *
62267752 ATCCCAAATTAGTCTAACATTATCTTCAGTCTCGGAAACCAACTCAGGCCCCAAAACCTGTCGCT
129 ATCCCAAATTAGTCTAACATTATCTTCAGTCTCGGAAACCAACTCAGGACCCAAAACCCGTCGCT
*
62267817 CACCCAACTCAGTCTAATATAACAGAGTATGACACTTATGACCATATAGGGCCTCGTAAGGTGCC
194 CACCCAACTCAGTCTAATATAACAGAGTATGACACTTATGACCATATAGAGCCTCGTAAGGTGCC
* * *
62267882 ATCTAGATGCTAGATTGGAAACTATTATTGTAGGCGAACTAAACTAACGGTAAAAAATGCTCCCA
259 ATCTAGATGCTAGATTGGAAACTGTTATTGTAGGCGAACTCAACTAACGGTAAAAAATCCTCCCA
* *
62267947 ACTACCTCAAAAATAAATCACATAGCTCCAAATCATAACCTCTAGTATATGAATCACCCTCTCAA
324 ACTACCTCAGAAATAAATCACATAGCTCCAAATCATAACCTCTAGTATATGAATCACCCACTCAA
* * * *
62268012 ATTGACCATCGGTCTGAGGATGGAACGCAGCACTGAAGTCCAATCTCGAACCCAGAGCCTTGTGA
389 ATTGACCATCGGTCTAAGGATAGAACGCAGTACTGAAGTACAATCTCGAACCCAGAGCCTTGTGA
62268077 AGTTTCTTCTAGAACCATGAAGTGAAGAGAGGATCCACATCAGAGATTATTGAAATTGGAACCCC
454 AGTTTCTTCTAGAACCATGAAGTGAAGAGAGGATCCACATCAGAGATTATTGAAATTGGAACCCC
* *
62268142 ATGCAGTCTTACAATCTGAGAAATGTAGAGCTTCACTAACTTTTGCTGAGAGTAGCCCATCTGAA
519 ATGCAGTCTTACAATCTGAGAAATGTAGAGCTTCACTAACTTTTGCAGAGAGTAGTCCATCTGAA
62268207 AAGGAATAAAATGAGCGGACTTGGT
584 AAGGAATAAAATGAGCGGACTTGGT
62268232 CAACCGAACCGTAGAACCTTTTTCCACGGAGATACCTTAAGAAATACAAAGTCCCCCATAGAGTA
1 CAACCGAACCGTAGAACCTTTTTCCACGGAGATACCTTAAGAAATACAAAGTCCCCCATAGAGTA
62268297 CTTGATATATCTGATTTTCAGATTTGCATAAGACTACTATCTATCAGAAGACGCCTTCAGACGAT
66 CTTGATATATCTGATTTTCAGATTTGCATAAGACTACTATCTATCAGAAGACGCCTTCAGACGAT
62268362 CCCAAATTAGTCTAACATTATCTTCAGTCTCGGAAACCAACTCAGGACCCAAAACCCGTCGCTCA
131 CCCAAATTAGTCTAACATTATCTTCAGTCTCGGAAACCAACTCAGGACCCAAAACCCGTCGCTCA
62268427 CCCAACTCAGTCTAATATAACAGAGTATGACACTTATGACCATATAGAGCCTCGTAAGGTGCCAT
196 CCCAACTCAGTCTAATATAACAGAGTATGACACTTATGACCATATAGAGCCTCGTAAGGTGCCAT
* *
62268492 CTAGATGCTAGATTGGGAACTGTTATTGTAGGCGAAGTCAACTAACGGTAAAAAATCCTCCCAAC
261 CTAGATGCTAGATTGGAAACTGTTATTGTAGGCGAACTCAACTAACGGTAAAAAATCCTCCCAAC
** *
62268557 TACCTCAGAAATAAATCGTATAGCTCCAAATCATATCCTCTAGTATATGAATCACCCACTCAAAT
326 TACCTCAGAAATAAATCACATAGCTCCAAATCATAACCTCTAGTATATGAATCACCCACTCAAAT
* * * *
62268622 TTACCATCGGTCTAATGATAGAACGCAGTACTGAAGTACAATCTCGAAGCTAGAGCCTTGTGAAG
391 TGACCATCGGTCTAAGGATAGAACGCAGTACTGAAGTACAATCTCGAACCCAGAGCCTTGTGAAG
* *
62268687 TTTCTTCTAGAACCATGAAGTGAAGAGAGGATCCATATCAGAGATTATTGAAATTGGAACTCCAT
456 TTTCTTCTAGAACCATGAAGTGAAGAGAGGATCCACATCAGAGATTATTGAAATTGGAACCCCAT
* * * *
62268752 GAAGTCTTACAATCTCAGAAATGTAGAGCTTCACTAACTTTTGCGGAGATTAGTCCATCTGAAAA
521 GCAGTCTTACAATCTGAGAAATGTAGAGCTTCACTAACTTTTGCAGAGAGTAGTCCATCTGAAAA
62268817 GGAATAAAATGAGCGGACTTGGT
586 GGAATAAAATGAGCGGACTTGGT
*
62268840 CAACCGAACAGTAGAACCTTTTTCCACGGAGATACCTTAAGAAATACAAAGTCCCCCATAGAGTA
1 CAACCGAACCGTAGAACCTTTTTCCACGGAGATACCTTAAGAAATACAAAGTCCCCCATAGAGTA
62268905 CTTGATATATCTGATTTTCAGATTTGCATAAGACTACTATCTATCAGAAGACGCCTTCAGACGAT
66 CTTGATATATCTGATTTTCAGATTTGCATAAGACTACTATCTATCAGAAGACGCCTTCAGACGAT
* *
62268970 CCAAAATTAGTCTAACATTATCTTCAGTCTCGGAAACCAACTCAGGACCCAAAACCCGTCCCTCA
131 CCCAAATTAGTCTAACATTATCTTCAGTCTCGGAAACCAACTCAGGACCCAAAACCCGTCGCTCA
* * *
62269035 CCCAACTCGGTCTAATATAATAGAGTATGATACTTATGACCATATAGAGCCTCGTAAGGTGCCAT
196 CCCAACTCAGTCTAATATAACAGAGTATGACACTTATGACCATATAGAGCCTCGTAAGGTGCCAT
* *
62269100 CTAGATGCTAGATTGGGAACTGTTATTGTAGGCGAAGTCAACTAACGGTAAAAAATCCTCCCAAC
261 CTAGATGCTAGATTGGAAACTGTTATTGTAGGCGAACTCAACTAACGGTAAAAAATCCTCCCAAC
** *
62269165 TACCTCAGAAATAAATCGTATAGCTCCAAATCATATCCTCTAGTATATGAATCACCCACTCAAAT
326 TACCTCAGAAATAAATCACATAGCTCCAAATCATAACCTCTAGTATATGAATCACCCACTCAAAT
* * * *
62269230 TTACCATCGGTCTAATGATAGAACGCAGTACTGAAGTACAATCTCGAAGCTAGAGCCTTGTGAAG
391 TGACCATCGGTCTAAGGATAGAACGCAGTACTGAAGTACAATCTCGAACCCAGAGCCTTGTGAAG
* * *
62269295 TTTCTTCTAGAACCGTGAAGTGAAGAGAGAATCCACATCAGAGATTATTGAAATTGGAACGCCAT
456 TTTCTTCTAGAACCATGAAGTGAAGAGAGGATCCACATCAGAGATTATTGAAATTGGAACCCCAT
*
62269360 GCAGTCTTACAATCTTAGAAATGTAGAGCTTCACTAAC
521 GCAGTCTTACAATCTGAGAAATGTAGAGCTTCACTAAC
62269398 NNNNNNNNNN
Statistics
Matches: 1697, Mismatches: 73, Indels: 8
0.95 0.04 0.00
Matches are distributed among these distances:
607 5 0.00
608 1687 0.99
609 5 0.00
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.25
Consensus pattern (608 bp):
CAACCGAACCGTAGAACCTTTTTCCACGGAGATACCTTAAGAAATACAAAGTCCCCCATAGAGTA
CTTGATATATCTGATTTTCAGATTTGCATAAGACTACTATCTATCAGAAGACGCCTTCAGACGAT
CCCAAATTAGTCTAACATTATCTTCAGTCTCGGAAACCAACTCAGGACCCAAAACCCGTCGCTCA
CCCAACTCAGTCTAATATAACAGAGTATGACACTTATGACCATATAGAGCCTCGTAAGGTGCCAT
CTAGATGCTAGATTGGAAACTGTTATTGTAGGCGAACTCAACTAACGGTAAAAAATCCTCCCAAC
TACCTCAGAAATAAATCACATAGCTCCAAATCATAACCTCTAGTATATGAATCACCCACTCAAAT
TGACCATCGGTCTAAGGATAGAACGCAGTACTGAAGTACAATCTCGAACCCAGAGCCTTGTGAAG
TTTCTTCTAGAACCATGAAGTGAAGAGAGGATCCACATCAGAGATTATTGAAATTGGAACCCCAT
GCAGTCTTACAATCTGAGAAATGTAGAGCTTCACTAACTTTTGCAGAGAGTAGTCCATCTGAAAA
GGAATAAAATGAGCGGACTTGGT
Found at i:62280010 original size:20 final size:20
Alignment explanation
Indices: 62279987--62280041 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
62279977 TTGTGTAATT
*
62279987 AGAGGCATCGAAGTGAAAAC
1 AGAGGCACCGAAGTGAAAAC
* * *
62280007 AGAGACACCGAAGTGCAAAT
1 AGAGGCACCGAAGTGAAAAC
62280027 AGAGGCACCGAAGTG
1 AGAGGCACCGAAGTG
62280042 TAATCCTATA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.42, C:0.18, G:0.31, T:0.09
Consensus pattern (20 bp):
AGAGGCACCGAAGTGAAAAC
Found at i:62280737 original size:17 final size:17
Alignment explanation
Indices: 62280715--62280750 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
62280705 CAAATTTCCT
62280715 ATCAATTCTAA-CATTTA
1 ATCAATTC-AATCATTTA
62280732 ATCAATTCAATCATTTA
1 ATCAATTCAATCATTTA
62280749 AT
1 AT
62280751 AAAAAACTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 2 0.11
17 16 0.89
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.42
Consensus pattern (17 bp):
ATCAATTCAATCATTTA
Found at i:62285602 original size:47 final size:47
Alignment explanation
Indices: 62285545--62285895 Score: 567
Period size: 47 Copynumber: 7.4 Consensus size: 47
62285535 ATTGATGTAC
* * * * *
62285545 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
62285592 AAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
62285641 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
62285688 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
62285735 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
62285782 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
* * * * * * *
62285829 AAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
*
62285876 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
62285896 TCCCGAAGGG
Statistics
Matches: 287, Mismatches: 15, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 244 0.85
49 43 0.15
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
Found at i:62303326 original size:12 final size:12
Alignment explanation
Indices: 62303309--62303333 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
62303299 AAGAGAGAGG
62303309 GTTTGAAAAAGA
1 GTTTGAAAAAGA
62303321 GTTTGAAAAAGA
1 GTTTGAAAAAGA
62303333 G
1 G
62303334 ACAAGTGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.28, T:0.24
Consensus pattern (12 bp):
GTTTGAAAAAGA
Found at i:62311848 original size:59 final size:60
Alignment explanation
Indices: 62311771--62311905 Score: 227
Period size: 59 Copynumber: 2.3 Consensus size: 60
62311761 GGATAAGGAC
*
62311771 CAAACCTTTCAATATGGTCATATAAAAGCCTAACATTTATAAAAGTGTTCAAATGAAGG-
1 CAAACCTTTCAAAATGGTCATATAAAAGCCTAACATTTATAAAAGTGTTCAAATGAAGGT
* * *
62311830 CCAACTTTTCAAAATGGTCATATAAAGGCCTAACATTTATAAAAGTGTTCAAATGAAGGT
1 CAAACCTTTCAAAATGGTCATATAAAAGCCTAACATTTATAAAAGTGTTCAAATGAAGGT
62311890 CAAACCTTTCAAAATG
1 CAAACCTTTCAAAATG
62311906 AACAAATAAC
Statistics
Matches: 69, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
59 55 0.80
60 14 0.20
ACGTcount: A:0.41, C:0.16, G:0.13, T:0.29
Consensus pattern (60 bp):
CAAACCTTTCAAAATGGTCATATAAAAGCCTAACATTTATAAAAGTGTTCAAATGAAGGT
Found at i:62311858 original size:28 final size:30
Alignment explanation
Indices: 62311777--62311867 Score: 98
Period size: 28 Copynumber: 3.1 Consensus size: 30
62311767 GGACCAAACC
* *
62311777 TTTCAATATGGTCATATAAAAGCCTAACAT
1 TTTCAAAATGGTCATATAAAGGCCTAACAT
* * *
62311807 TTAT-AAAAGTGTTCAAATGAAGGCC-AAC-T
1 TT-TCAAAA-TGGTCATATAAAGGCCTAACAT
62311836 TTTCAAAATGGTCATATAAAGGCCTAACAT
1 TTTCAAAATGGTCATATAAAGGCCTAACAT
62311866 TT
1 TT
62311868 ATAAAAGTGT
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
28 14 0.29
29 10 0.21
30 11 0.23
31 13 0.27
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.32
Consensus pattern (30 bp):
TTTCAAAATGGTCATATAAAGGCCTAACAT
Found at i:62314677 original size:28 final size:28
Alignment explanation
Indices: 62314605--62314669 Score: 130
Period size: 28 Copynumber: 2.3 Consensus size: 28
62314595 GTTATCTTAT
62314605 GAAAGTGTCATTGCAGTCACTGACACTA
1 GAAAGTGTCATTGCAGTCACTGACACTA
62314633 GAAAGTGTCATTGCAGTCACTGACACTA
1 GAAAGTGTCATTGCAGTCACTGACACTA
62314661 GAAAGTGTC
1 GAAAGTGTC
62314670 GTGACAGTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (28 bp):
GAAAGTGTCATTGCAGTCACTGACACTA
Found at i:62323058 original size:17 final size:17
Alignment explanation
Indices: 62323036--62323072 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
62323026 GATAAGTACA
*
62323036 CATTGTCATTGCATTTT
1 CATTGTCATTACATTTT
62323053 CATTGTCATTACATTTT
1 CATTGTCATTACATTTT
62323070 CAT
1 CAT
62323073 GTTAGTGCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.22, C:0.19, G:0.08, T:0.51
Consensus pattern (17 bp):
CATTGTCATTACATTTT
Found at i:62325275 original size:27 final size:27
Alignment explanation
Indices: 62325245--62325422 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
62325235 ATATTGAGTC
* * * *
62325245 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
62325272 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
62325299 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
62325327 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
62325354 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
62325381 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
62325408 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
62325423 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:62325384 original size:82 final size:81
Alignment explanation
Indices: 62325266--62325421 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
62325256 TGCTATATAA
* *
62325266 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
62325331 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
62325348 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
62325412 CACTTAGTGC
65 CACTTAGTGC
62325422 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:62328272 original size:24 final size:24
Alignment explanation
Indices: 62328240--62328286 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
62328230 ACCCATTTTC
*
62328240 ACAACTCATGTGAGCATTACATTT
1 ACAAATCATGTGAGCATTACATTT
*
62328264 ACAAATCATGTGAGCCTTACATT
1 ACAAATCATGTGAGCATTACATT
62328287 CAAAACTTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (24 bp):
ACAAATCATGTGAGCATTACATTT
Found at i:62329488 original size:14 final size:14
Alignment explanation
Indices: 62329469--62329496 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
62329459 GAAAATTTGT
62329469 AGTATGTGAATTAC
1 AGTATGTGAATTAC
62329483 AGTATGTGAATTAC
1 AGTATGTGAATTAC
62329497 TCTGTGTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (14 bp):
AGTATGTGAATTAC
Found at i:62330195 original size:15 final size:15
Alignment explanation
Indices: 62330152--62330201 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
62330142 GTTTGGATGT
*
62330152 TATATTTGTGT-ATA
1 TATATATGTGTAATA
62330166 TATA-ATGTACG-AATA
1 TATATATGT--GTAATA
62330181 TATATATGTGTAATA
1 TATATATGTGTAATA
62330196 TATATA
1 TATATA
62330202 AATTCTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
13 3 0.10
14 5 0.17
15 18 0.60
16 4 0.13
ACGTcount: A:0.40, C:0.02, G:0.12, T:0.46
Consensus pattern (15 bp):
TATATATGTGTAATA
Found at i:62330410 original size:76 final size:76
Alignment explanation
Indices: 62330328--62330527 Score: 199
Period size: 78 Copynumber: 2.6 Consensus size: 76
62330318 GAAATTAGGG
* * * *
62330328 ATGTATATATTATATTCGAATATGTATGAGTATACATGTATAAGTTCATGTTTTGATTATAAG-T
1 ATGTATATGTTAGATTCGAATATGTATGAGTATACATGTATAAGTTCATGTATTGA-AATAAGAT
62330392 ATGTAA-TTATAT
65 ATG-AATTTATAT
* * * * * * * *
62330404 ATGTATATGGTAGACTCGAATATATATATAAATATACATGTATAAATTCTTGTATTGAAATTAGA
1 ATGTATATGTTAGATTCG-A-ATATGTATGAGTATACATGTATAAGTTCATGTATTGAAATAAGA
62330469 TATGAATTTATAT
64 TATGAATTTATAT
* * *
62330482 ATGTATATGTGAGGTTCGAATGTGTATG-GTTATACATGTATAAGTT
1 ATGTATATGTTAGATTCGAATATGTATGAG-TATACATGTATAAGTT
62330528 TTATATTGAA
Statistics
Matches: 98, Mismatches: 21, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
76 35 0.36
77 8 0.08
78 55 0.56
ACGTcount: A:0.36, C:0.04, G:0.17, T:0.43
Consensus pattern (76 bp):
ATGTATATGTTAGATTCGAATATGTATGAGTATACATGTATAAGTTCATGTATTGAAATAAGATA
TGAATTTATAT
Found at i:62330827 original size:14 final size:14
Alignment explanation
Indices: 62330808--62330835 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
62330798 GAAAATTTGT
62330808 AGTATGTGAATTAC
1 AGTATGTGAATTAC
62330822 AGTATGTGAATTAC
1 AGTATGTGAATTAC
62330836 TCTGTGTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (14 bp):
AGTATGTGAATTAC
Found at i:62331534 original size:15 final size:15
Alignment explanation
Indices: 62331491--62331540 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
62331481 GTTTGGATGT
*
62331491 TATATTTGTGT-ATA
1 TATATATGTGTAATA
62331505 TATA-ATGTACG-AATA
1 TATATATGT--GTAATA
62331520 TATATATGTGTAATA
1 TATATATGTGTAATA
62331535 TATATA
1 TATATA
62331541 AATTCTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
13 3 0.10
14 5 0.17
15 18 0.60
16 4 0.13
ACGTcount: A:0.40, C:0.02, G:0.12, T:0.46
Consensus pattern (15 bp):
TATATATGTGTAATA
Found at i:62331749 original size:76 final size:76
Alignment explanation
Indices: 62331667--62331866 Score: 199
Period size: 78 Copynumber: 2.6 Consensus size: 76
62331657 GAAATTAGGG
* * * *
62331667 ATGTATATATTATATTCGAATATGTATGAGTATACATGTATAAGTTCATGTTTTGATTATAAG-T
1 ATGTATATGTTAGATTCGAATATGTATGAGTATACATGTATAAGTTCATGTATTGA-AATAAGAT
62331731 ATGTAA-TTATAT
65 ATG-AATTTATAT
* * * * * * * *
62331743 ATGTATATGGTAGACTCGAATATATATATAAATATACATGTATAAATTCTTGTATTGAAATTAGA
1 ATGTATATGTTAGATTCG-A-ATATGTATGAGTATACATGTATAAGTTCATGTATTGAAATAAGA
62331808 TATGAATTTATAT
64 TATGAATTTATAT
* * *
62331821 ATGTATATGTGAGGTTCGAATGTGTATG-GTTATACATGTATAAGTT
1 ATGTATATGTTAGATTCGAATATGTATGAG-TATACATGTATAAGTT
62331867 TTATATTGAA
Statistics
Matches: 98, Mismatches: 21, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
76 35 0.36
77 8 0.08
78 55 0.56
ACGTcount: A:0.36, C:0.04, G:0.17, T:0.43
Consensus pattern (76 bp):
ATGTATATGTTAGATTCGAATATGTATGAGTATACATGTATAAGTTCATGTATTGAAATAAGATA
TGAATTTATAT
Found at i:62336433 original size:34 final size:36
Alignment explanation
Indices: 62336383--62336465 Score: 91
Period size: 34 Copynumber: 2.4 Consensus size: 36
62336373 TTGTTGGATA
* * *
62336383 TATATATGTATGCATTCGGCATATGTGGATT-ATAAG
1 TATATATGTATGCATTCAGCACATGTAG-TTGATAAG
62336419 TATATATGT-T-CATTCAGCACATGTAGTTGATAAG
1 TATATATGTATGCATTCAGCACATGTAGTTGATAAG
* *
62336453 TATAAATATATGC
1 TATATATGTATGC
62336466 TTTTTGCATA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
33 2 0.05
34 25 0.64
35 2 0.05
36 10 0.26
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.39
Consensus pattern (36 bp):
TATATATGTATGCATTCAGCACATGTAGTTGATAAG
Found at i:62347880 original size:20 final size:20
Alignment explanation
Indices: 62347829--62347883 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 20
62347819 CCCATCTTCA
* * * *
62347829 CACTTCGATGTCCTTGTTTG
1 CACTTCGATGCCCATGGTCG
* *
62347849 CACCTCGGTGCCCATGGTCG
1 CACTTCGATGCCCATGGTCG
62347869 CACTTCGATGCCCAT
1 CACTTCGATGCCCAT
62347884 ATTACCATTA
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.13, C:0.35, G:0.22, T:0.31
Consensus pattern (20 bp):
CACTTCGATGCCCATGGTCG
Found at i:62359719 original size:20 final size:19
Alignment explanation
Indices: 62359696--62359769 Score: 76
Period size: 20 Copynumber: 3.8 Consensus size: 19
62359686 TTGTGCAATT
*
62359696 AGAGGCATCGAAGTGAAAAC
1 AGAGGCACCGAAGTG-AAAC
* * *
62359716 AGAGACACCGAAGAGTAAC
1 AGAGGCACCGAAGTGAAAC
* *
62359735 AGAGGCACCAAAGTGCAAAT
1 AGAGGCACCGAAGTG-AAAC
62359755 AGAGGCACCGAAGTG
1 AGAGGCACCGAAGTG
62359770 TAATCCTATA
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
19 15 0.35
20 28 0.65
ACGTcount: A:0.43, C:0.19, G:0.30, T:0.08
Consensus pattern (19 bp):
AGAGGCACCGAAGTGAAAC
Found at i:62359741 original size:39 final size:39
Alignment explanation
Indices: 62359696--62359772 Score: 100
Period size: 39 Copynumber: 2.0 Consensus size: 39
62359686 TTGTGCAATT
* *
62359696 AGAGGCATCGAAGTGAAAACAGAGACACCGAAGAGTAAC
1 AGAGGCACCAAAGTGAAAACAGAGACACCGAAGAGTAAC
* * * *
62359735 AGAGGCACCAAAGTGCAAATAGAGGCACCGAAGTGTAA
1 AGAGGCACCAAAGTGAAAACAGAGACACCGAAGAGTAA
62359773 TCCTATACAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.44, C:0.18, G:0.29, T:0.09
Consensus pattern (39 bp):
AGAGGCACCAAAGTGAAAACAGAGACACCGAAGAGTAAC
Found at i:62359758 original size:59 final size:60
Alignment explanation
Indices: 62359653--62359769 Score: 148
Period size: 59 Copynumber: 2.0 Consensus size: 60
62359643 ATAGATGCGT
* * * * *
62359653 AACAGAGTCACCGAAGTGCAGACAAAGGCACAATTGTGCAATTAGAGGCATCGAAGTGAA
1 AACAGAGACACCGAAGAGCAGACAAAGGCACAATAGTGCAAATAGAGGCACCGAAGTGAA
* *
62359713 AACAGAGACACCGAAGAGTA-ACAGAGGCACCAA-AGTGCAAATAGAGGCACCGAAGTG
1 AACAGAGACACCGAAGAGCAGACAAAGGCA-CAATAGTGCAAATAGAGGCACCGAAGTG
62359770 TAATCCTATA
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 29 0.59
60 20 0.41
ACGTcount: A:0.42, C:0.20, G:0.27, T:0.11
Consensus pattern (60 bp):
AACAGAGACACCGAAGAGCAGACAAAGGCACAATAGTGCAAATAGAGGCACCGAAGTGAA
Found at i:62360465 original size:17 final size:17
Alignment explanation
Indices: 62360443--62360478 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
62360433 CAAATTTCCT
62360443 ATCAATTCTAA-CATTTA
1 ATCAATTC-AATCATTTA
62360460 ATCAATTCAATCATTTA
1 ATCAATTCAATCATTTA
62360477 AT
1 AT
62360479 AAAAAACTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 2 0.11
17 16 0.89
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.42
Consensus pattern (17 bp):
ATCAATTCAATCATTTA
Found at i:62367205 original size:12 final size:13
Alignment explanation
Indices: 62367188--62367216 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
62367178 CTCATACATG
62367188 AATAAATAAA-GC
1 AATAAATAAATGC
62367200 AATAAATAAATGC
1 AATAAATAAATGC
62367213 AATA
1 AATA
62367217 GTTATAGCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (13 bp):
AATAAATAAATGC
Found at i:62373489 original size:12 final size:12
Alignment explanation
Indices: 62373472--62373496 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
62373462 AAGAGAGAGG
62373472 GTTTGAAAAAGA
1 GTTTGAAAAAGA
62373484 GTTTGAAAAAGA
1 GTTTGAAAAAGA
62373496 G
1 G
62373497 ACAAGTGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.28, T:0.24
Consensus pattern (12 bp):
GTTTGAAAAAGA
Found at i:62382026 original size:59 final size:60
Alignment explanation
Indices: 62381944--62382087 Score: 218
Period size: 59 Copynumber: 2.4 Consensus size: 60
62381934 GGATAAGGAC
*
62381944 CAAACCTTTCAATATGGACATATAAAAGCCTAACATTTATAAAAGTGTTCAAATGAAGG-
1 CAAACCTTTCAAAATGGACATATAAAAGCCTAACATTTATAAAAGTGTTCAAATGAAGGT
* * * *
62382003 CCAACTTTTCAAAATGGTCATATAAAGGCCTAACATTTATAAAAGTGTTCAAATGAAGGT
1 CAAACCTTTCAAAATGGACATATAAAAGCCTAACATTTATAAAAGTGTTCAAATGAAGGT
* *
62382063 CAAACCTTTCAAAATGAACAAATAA
1 CAAACCTTTCAAAATGGACATATAA
62382088 CGGTTTATCC
Statistics
Matches: 74, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
59 54 0.73
60 20 0.27
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.27
Consensus pattern (60 bp):
CAAACCTTTCAAAATGGACATATAAAAGCCTAACATTTATAAAAGTGTTCAAATGAAGGT
Found at i:62382031 original size:28 final size:30
Alignment explanation
Indices: 62381950--62382040 Score: 89
Period size: 28 Copynumber: 3.1 Consensus size: 30
62381940 GGACCAAACC
* * *
62381950 TTTCAATATGGACATATAAAAGCCTAACAT
1 TTTCAAAATGGTCATATAAAGGCCTAACAT
* * *
62381980 TTAT-AAAAGTGTTCAAATGAAGGCC-AAC-T
1 TT-TCAAAA-TGGTCATATAAAGGCCTAACAT
62382009 TTTCAAAATGGTCATATAAAGGCCTAACAT
1 TTTCAAAATGGTCATATAAAGGCCTAACAT
62382039 TT
1 TT
62382041 ATAAAAGTGT
Statistics
Matches: 47, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
28 14 0.30
29 10 0.21
30 11 0.23
31 12 0.26
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (30 bp):
TTTCAAAATGGTCATATAAAGGCCTAACAT
Found at i:62384819 original size:28 final size:28
Alignment explanation
Indices: 62384747--62384811 Score: 130
Period size: 28 Copynumber: 2.3 Consensus size: 28
62384737 GTTATCTTAT
62384747 GAAAGTGTCATTGCAGTCACTGACACTA
1 GAAAGTGTCATTGCAGTCACTGACACTA
62384775 GAAAGTGTCATTGCAGTCACTGACACTA
1 GAAAGTGTCATTGCAGTCACTGACACTA
62384803 GAAAGTGTC
1 GAAAGTGTC
62384812 GTGACAGTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (28 bp):
GAAAGTGTCATTGCAGTCACTGACACTA
Found at i:62391022 original size:17 final size:17
Alignment explanation
Indices: 62391000--62391036 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
62390990 GATAAGTACA
*
62391000 CATTGTCATTGCATTTT
1 CATTGTCATTACATTTT
62391017 CATTGTCATTACATTTT
1 CATTGTCATTACATTTT
62391034 CAT
1 CAT
62391037 GTTAGTGCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.22, C:0.19, G:0.08, T:0.51
Consensus pattern (17 bp):
CATTGTCATTACATTTT
Found at i:62393291 original size:24 final size:24
Alignment explanation
Indices: 62393227--62393283 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
62393217 CAAACCCATT
62393227 TTCACAACTCATGTGAGCATTACA
1 TTCACAACTCATGTGAGCATTACA
* * *
62393251 TTTACAAATCATGTGAGCCTTACA
1 TTCACAACTCATGTGAGCATTACA
62393275 TTCACAACT
1 TTCACAACT
62393284 TGTGTGAGAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.32
Consensus pattern (24 bp):
TTCACAACTCATGTGAGCATTACA
Found at i:62397373 original size:15 final size:15
Alignment explanation
Indices: 62397330--62397379 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
62397320 GTTTGGATGT
*
62397330 TATATTTGTGT-ATA
1 TATATATGTGTAATA
62397344 TATA-ATGTACG-AATA
1 TATATATGT--GTAATA
62397359 TATATATGTGTAATA
1 TATATATGTGTAATA
62397374 TATATA
1 TATATA
62397380 AATTCTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
13 3 0.10
14 5 0.17
15 18 0.60
16 4 0.13
ACGTcount: A:0.40, C:0.02, G:0.12, T:0.46
Consensus pattern (15 bp):
TATATATGTGTAATA
Found at i:62397588 original size:76 final size:76
Alignment explanation
Indices: 62397506--62397705 Score: 199
Period size: 78 Copynumber: 2.6 Consensus size: 76
62397496 GAAATTAGGG
* * * *
62397506 ATGTATATATTATATTCGAATATGTATGAGTATACATGTATAAGTTCATGTTTTGATTATAAG-T
1 ATGTATATGTTAGATTCGAATATGTATGAGTATACATGTATAAGTTCATGTATTGA-AATAAGAT
62397570 ATGTAA-TTATAT
65 ATG-AATTTATAT
* * * * * * * *
62397582 ATGTATATGGTAGACTCGAATATATATATAAATATACATGTATAAATTCTTGTATTGAAATTAGA
1 ATGTATATGTTAGATTCG-A-ATATGTATGAGTATACATGTATAAGTTCATGTATTGAAATAAGA
62397647 TATGAATTTATAT
64 TATGAATTTATAT
* * *
62397660 ATGTATATGTGAGGTTCGAATGTGTATG-GTTATACATGTATAAGTT
1 ATGTATATGTTAGATTCGAATATGTATGAG-TATACATGTATAAGTT
62397706 TTATATTGAA
Statistics
Matches: 98, Mismatches: 21, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
76 35 0.36
77 8 0.08
78 55 0.56
ACGTcount: A:0.36, C:0.04, G:0.17, T:0.43
Consensus pattern (76 bp):
ATGTATATGTTAGATTCGAATATGTATGAGTATACATGTATAAGTTCATGTATTGAAATAAGATA
TGAATTTATAT
Found at i:62398062 original size:123 final size:123
Alignment explanation
Indices: 62397843--62398079 Score: 388
Period size: 123 Copynumber: 1.9 Consensus size: 123
62397833 TAAGGTTTTC
* *
62397843 AGGCTTAACGCCTAGTAGGCTAAGTGTTGGTGAACTGAATCAGGCTATAAGCCTAGCAGGCTAAG
1 AGGCTTAACGCCTAGCAGGCTAAGTGTTGGTGAACTAAATCAGGCTATAAGCCTAGCAGGCTAAG
*
62397908 TGCCGGTGAACTGAATCAGGTTATAAGCCTAGCAGGCTAAGTGCCGGTGGTCTGAATT
66 TGCCGGTGAACTAAATCAGGTTATAAGCCTAGCAGGCTAAGTGCCGGTGGTCTGAATT
* *
62397966 AGGCTATAA-GCCTAGCATGCTAAGT-TTCGGTGAACTAAATCAGGTTATAAGCCTAGCAGGCTA
1 AGGCT-TAACGCCTAGCAGGCTAAGTGTT-GGTGAACTAAATCAGGCTATAAGCCTAGCAGGCTA
*
62398029 AGTGCCGGTGATCTAAATCAGGTTATAAGCCTAGCAGGCTAAGTGCCGGTG
64 AGTGCCGGTGAACTAAATCAGGTTATAAGCCTAGCAGGCTAAGTGCCGGTG
62398080 ATTCTGTTTA
Statistics
Matches: 106, Mismatches: 6, Indels: 4
0.91 0.05 0.03
Matches are distributed among these distances:
122 2 0.02
123 101 0.95
124 3 0.03
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (123 bp):
AGGCTTAACGCCTAGCAGGCTAAGTGTTGGTGAACTAAATCAGGCTATAAGCCTAGCAGGCTAAG
TGCCGGTGAACTAAATCAGGTTATAAGCCTAGCAGGCTAAGTGCCGGTGGTCTGAATT
Found at i:62398081 original size:41 final size:41
Alignment explanation
Indices: 62397852--62398080 Score: 332
Period size: 41 Copynumber: 5.6 Consensus size: 41
62397842 CAGGCTTAAC
* ** *
62397852 GCCTAGTAGGCTAAGTGTTGGTGAACTGAATCAGGCTATAA
1 GCCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGTTATAA
62397893 GCCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGTTATAA
1 GCCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGTTATAA
** * *
62397934 GCCTAGCAGGCTAAGTGCCGGTGGTCTGAATTAGGCTATAA
1 GCCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGTTATAA
* ** *
62397975 GCCTAGCATGCTAAGTTTCGGTGAACTAAATCAGGTTATAA
1 GCCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGTTATAA
* *
62398016 GCCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGTTATAA
1 GCCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGTTATAA
62398057 GCCTAGCAGGCTAAGTGCCGGTGA
1 GCCTAGCAGGCTAAGTGCCGGTGA
62398081 TTCTGTTTAA
Statistics
Matches: 168, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 168 1.00
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (41 bp):
GCCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGTTATAA
Found at i:62399905 original size:18 final size:18
Alignment explanation
Indices: 62399863--62399905 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
62399853 GCCCATTCCG
* *
62399863 AAGTATATATATATACAT
1 AAGTATGTATATATACAC
62399881 ATA-TATGTATATATACAC
1 A-AGTATGTATATATACAC
62399899 AAGTATG
1 AAGTATG
62399906 CCCGTTCGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 1 0.05
18 19 0.90
19 1 0.05
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (18 bp):
AAGTATGTATATATACAC
Found at i:62400408 original size:28 final size:28
Alignment explanation
Indices: 62400374--62400611 Score: 460
Period size: 28 Copynumber: 8.5 Consensus size: 28
62400364 TAAATTGTAC
62400374 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
62400402 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
62400430 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
62400458 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
62400486 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
62400514 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
62400542 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
62400570 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
*
62400597 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
62400612 GACTTAATAA
Statistics
Matches: 209, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
27 24 0.11
28 185 0.89
ACGTcount: A:0.28, C:0.11, G:0.26, T:0.34
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:62405494 original size:25 final size:25
Alignment explanation
Indices: 62405450--62405521 Score: 108
Period size: 25 Copynumber: 2.9 Consensus size: 25
62405440 CAGGCCCATT
*
62405450 TTCACAACTCGTGTGAGCATACTGA
1 TTCACAACTCGTGTGAGCATACCGA
* * *
62405475 TTTACAGCTTGTGTGAGCATACCGA
1 TTCACAACTCGTGTGAGCATACCGA
62405500 TTCACAACTCGTGTGAGCATAC
1 TTCACAACTCGTGTGAGCATAC
62405522 ATGTACAAGA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (25 bp):
TTCACAACTCGTGTGAGCATACCGA
Found at i:62408379 original size:34 final size:32
Alignment explanation
Indices: 62408317--62408410 Score: 107
Period size: 34 Copynumber: 2.9 Consensus size: 32
62408307 AACTGCTTAG
*
62408317 CAAATGCATATACCTAATGCATATATATTTAA
1 CAAATGCATATACCGAATGCATATATATTTAA
* *
62408349 TAGATGCATATACCGAATGCACATATATATTTAA
1 CAAATGCATATACCGAATG--CATATATATTTAA
* * **
62408383 CAAATGCTTAGACCGAATATATATATAT
1 CAAATGCATATACCGAATGCATATATAT
62408411 GCTCATCAAT
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
32 24 0.47
34 27 0.53
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.33
Consensus pattern (32 bp):
CAAATGCATATACCGAATGCATATATATTTAA
Found at i:62409183 original size:76 final size:78
Alignment explanation
Indices: 62409044--62409211 Score: 200
Period size: 76 Copynumber: 2.2 Consensus size: 78
62409034 AGCTAACAAT
* * * *
62409044 TTCATACCTTTAATTCAATACAAGAACTTATATTTGTATATAAATACATATTCGAACTTACATAT
1 TTCATACCTTTAAATCAATACAAGAACTTATATATGTATATAAATACATATTCCAACTCACATAT
62409109 AC-ATACATAACA
66 ACAATACATAACA
* * * *
62409121 TTCATACCTTTAAAT-ATATTCAAG-ACTTAT-TCATGTATATACATATATGTTCCAACTCACAT
1 TTCATACCTTTAAATCA-ATACAAGAACTTATAT-ATGTATATAAATACATATTCCAACTCACAT
*
62409183 ATACATATATATAACA
64 ATACA-ATACATAACA
62409199 TTCATACCTTTAA
1 TTCATACCTTTAA
62409212 CCAAATCCAA
Statistics
Matches: 78, Mismatches: 9, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
75 1 0.01
76 35 0.45
77 20 0.26
78 22 0.28
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.38
Consensus pattern (78 bp):
TTCATACCTTTAAATCAATACAAGAACTTATATATGTATATAAATACATATTCCAACTCACATAT
ACAATACATAACA
Found at i:62409348 original size:25 final size:25
Alignment explanation
Indices: 62409314--62409372 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
62409304 GAATTTATAC
62409314 ATATATATATTCAAACATGATACAT
1 ATATATATATTCAAACATGATACAT
*
62409339 ATATATATATTCGAACATGATACAT
1 ATATATATATTCAAACATGATACAT
62409364 ATATATATA
1 ATATATATA
62409373 CATATCATTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.37
Consensus pattern (25 bp):
ATATATATATTCAAACATGATACAT
Found at i:62413864 original size:60 final size:60
Alignment explanation
Indices: 62413793--62413913 Score: 242
Period size: 60 Copynumber: 2.0 Consensus size: 60
62413783 AATGAGTCCA
62413793 TCAATATATTTATTTCTCTTATTATTTATTTATTTATTTTTAAATAAATTTAAAAATATC
1 TCAATATATTTATTTCTCTTATTATTTATTTATTTATTTTTAAATAAATTTAAAAATATC
62413853 TCAATATATTTATTTCTCTTATTATTTATTTATTTATTTTTAAATAAATTTAAAAATATC
1 TCAATATATTTATTTCTCTTATTATTTATTTATTTATTTTTAAATAAATTTAAAAATATC
62413913 T
1 T
62413914 TAAAATCGAG
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (60 bp):
TCAATATATTTATTTCTCTTATTATTTATTTATTTATTTTTAAATAAATTTAAAAATATC
Found at i:62418441 original size:14 final size:14
Alignment explanation
Indices: 62418422--62418461 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
62418412 AGTTTGTAGA
62418422 AAATAAACAAAAAT
1 AAATAAACAAAAAT
*
62418436 AAATAAA-TAAAAT
1 AAATAAACAAAAAT
*
62418449 AAAAAAACAAAAA
1 AAATAAACAAAAA
62418462 CGTAAAACAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.82, C:0.05, G:0.00, T:0.12
Consensus pattern (14 bp):
AAATAAACAAAAAT
Found at i:62421729 original size:23 final size:22
Alignment explanation
Indices: 62421678--62421729 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
62421668 CCTCGTCTTT
*
62421678 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
62421700 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
62421723 TTCTTTT
1 TTCTTTT
62421730 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:62423088 original size:11 final size:9
Alignment explanation
Indices: 62423048--62423081 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
62423038 TTTTATTGAA
*
62423048 TTTTGTCTT
1 TTTTGACTT
62423057 TTTTGA-TT
1 TTTTGACTT
62423065 TTTTGACTT
1 TTTTGACTT
62423074 TTTTGACT
1 TTTTGACT
62423082 AATTTTTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.09, C:0.09, G:0.12, T:0.71
Consensus pattern (9 bp):
TTTTGACTT
Found at i:62428852 original size:147 final size:147
Alignment explanation
Indices: 62428686--62428981 Score: 493
Period size: 147 Copynumber: 2.0 Consensus size: 147
62428676 TATTATAAAA
* * * *
62428686 TAAATAAATAGAGAGTAAAGAATAAAGAAAATAAGAAAGTAAAAGAGAGCTTAGCTTCTCTAAAG
1 TAAATAAATAAAGAGTAAAGAACAAAGAAAATAAGAAAGTAAAAGAGAGCGTAGCTTCTCCAAAG
62428751 TTTCTATTTATAGACATAATAAGTATAAATAAAAAAGAGATATACTTCTAATGACTATTAGAATT
66 TTTCTATTTATAGACATAATAAGTATAAATAAAAAAGAGATATACTTCTAATGACTATTAGAATT
*
62428816 TAAAGTATATAAAAACT
131 TAAAGTACATAAAAACT
* *
62428833 TAAATAAATAAAGAGTAAAGAACAAAGAAAATGAGAAAGTAAAAGATAGCGTAGCTTCTCCAAAG
1 TAAATAAATAAAGAGTAAAGAACAAAGAAAATAAGAAAGTAAAAGAGAGCGTAGCTTCTCCAAAG
* * * *
62428898 TTTTTATTTATAGACATAATAAGTATAAATGAAGAAGAGATATATTTCTAATGACTATTAGAATT
66 TTTCTATTTATAGACATAATAAGTATAAATAAAAAAGAGATATACTTCTAATGACTATTAGAATT
62428963 TAAAGTACATAAAAACT
131 TAAAGTACATAAAAACT
62428980 TA
1 TA
62428982 TATTGATATT
Statistics
Matches: 138, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
147 138 1.00
ACGTcount: A:0.51, C:0.07, G:0.14, T:0.28
Consensus pattern (147 bp):
TAAATAAATAAAGAGTAAAGAACAAAGAAAATAAGAAAGTAAAAGAGAGCGTAGCTTCTCCAAAG
TTTCTATTTATAGACATAATAAGTATAAATAAAAAAGAGATATACTTCTAATGACTATTAGAATT
TAAAGTACATAAAAACT
Found at i:62429706 original size:28 final size:28
Alignment explanation
Indices: 62429673--62429726 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
62429663 TATAAAAATT
*
62429673 ATTAATAATATTATTTAAATCATAATAA
1 ATTAATAATAATATTTAAATCATAATAA
* *
62429701 ATTAATATTAATATTTAAATGATAAT
1 ATTAATAATAATATTTAAATCATAAT
62429727 TTTTATATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (28 bp):
ATTAATAATAATATTTAAATCATAATAA
Found at i:62431797 original size:27 final size:26
Alignment explanation
Indices: 62431732--62431813 Score: 67
Period size: 27 Copynumber: 3.1 Consensus size: 26
62431722 GTGATGGAAA
* * ** *
62431732 AAATAATAAAAAATTTATTAAAATAA
1 AAATTATAAAAAATATAAAAAAATAT
62431758 AAATTATAAAAAA-AGTAAAGAAAATAT
1 AAATTATAAAAAATA-TAAA-AAAATAT
* *
62431785 AAATTATTCAAAATTATAAAAAAATAT
1 AAATTA-TAAAAAATATAAAAAAATAT
62431812 AA
1 AA
62431814 GAAAGTATTT
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
26 14 0.31
27 21 0.47
28 9 0.20
29 1 0.02
ACGTcount: A:0.68, C:0.01, G:0.02, T:0.28
Consensus pattern (26 bp):
AAATTATAAAAAATATAAAAAAATAT
Found at i:62439090 original size:36 final size:36
Alignment explanation
Indices: 62439043--62439123 Score: 162
Period size: 36 Copynumber: 2.2 Consensus size: 36
62439033 TATCGTATGA
62439043 TTTGCCCATGTCTATTTTTAGTACAAAAGACCCCAT
1 TTTGCCCATGTCTATTTTTAGTACAAAAGACCCCAT
62439079 TTTGCCCATGTCTATTTTTAGTACAAAAGACCCCAT
1 TTTGCCCATGTCTATTTTTAGTACAAAAGACCCCAT
62439115 TTTGCCCAT
1 TTTGCCCAT
62439124 TCTCTTGTGC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 45 1.00
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.37
Consensus pattern (36 bp):
TTTGCCCATGTCTATTTTTAGTACAAAAGACCCCAT
Found at i:62444450 original size:50 final size:50
Alignment explanation
Indices: 62444396--62444491 Score: 122
Period size: 50 Copynumber: 1.9 Consensus size: 50
62444386 TTTGAAATCG
* * *
62444396 TCCATG-TCATGTATTTAAATGAGATAAACATTTCTATGCATTGAAAACCA
1 TCCATGATAATGTATTTAAATGACA-AAACATCTCTATGCATTGAAAACCA
* * *
62444446 TCCATGATAATGTATTTGAATGACAAAACGTCTCTGTGCATTGAAA
1 TCCATGATAATGTATTTAAATGACAAAACATCTCTATGCATTGAAA
62444492 TTGTCCATAT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
50 24 0.62
51 15 0.38
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (50 bp):
TCCATGATAATGTATTTAAATGACAAAACATCTCTATGCATTGAAAACCA
Found at i:62444529 original size:20 final size:22
Alignment explanation
Indices: 62444486--62444534 Score: 75
Period size: 23 Copynumber: 2.3 Consensus size: 22
62444476 TCTCTGTGCA
62444486 TTGAAATTGTCCATATCCCATGC
1 TTGAAATTGTCCATAT-CCATGC
62444509 TTGAAATTGTCCAT-T-CATGC
1 TTGAAATTGTCCATATCCATGC
62444529 TTGAAA
1 TTGAAA
62444535 CGTCCATCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 11 0.42
22 1 0.04
23 14 0.54
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (22 bp):
TTGAAATTGTCCATATCCATGC
Found at i:62444541 original size:19 final size:19
Alignment explanation
Indices: 62444504--62444569 Score: 62
Period size: 19 Copynumber: 3.5 Consensus size: 19
62444494 GTCCATATCC
*
62444504 CATGCTTGAAATTGTCCATT
1 CATGCTTGAAA-CGTCCATT
*
62444524 CATGCTTGAAACGTCCATC
1 CATGCTTGAAACGTCCATT
* * * *
62444543 CTTGATTGAAACATTCA-T
1 CATGCTTGAAACGTCCATT
62444561 CATGCTTGA
1 CATGCTTGA
62444570 TGTATGAAAA
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
18 7 0.19
19 19 0.51
20 11 0.30
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (19 bp):
CATGCTTGAAACGTCCATT
Found at i:62446484 original size:21 final size:21
Alignment explanation
Indices: 62446458--62446500 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
62446448 AGGATTTCTA
* *
62446458 GTATTAATAATGTTGTTAATT
1 GTATTAACAATATTGTTAATT
62446479 GTATTAACAATATTGTTAATT
1 GTATTAACAATATTGTTAATT
62446500 G
1 G
62446501 AGTTGGTGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.35, C:0.02, G:0.14, T:0.49
Consensus pattern (21 bp):
GTATTAACAATATTGTTAATT
Found at i:62447704 original size:22 final size:22
Alignment explanation
Indices: 62447660--62447707 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
62447650 ATATAATAGT
* *
62447660 GAAATTGTAGCAAGACAACAGC
1 GAAATAGTAGCAAAACAACAGC
**
62447682 GAAATAGTAGCAAAACAGTAGC
1 GAAATAGTAGCAAAACAACAGC
62447704 GAAA
1 GAAA
62447708 CAACAACAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.15, G:0.23, T:0.12
Consensus pattern (22 bp):
GAAATAGTAGCAAAACAACAGC
Found at i:62448124 original size:22 final size:22
Alignment explanation
Indices: 62448094--62448212 Score: 90
Period size: 22 Copynumber: 5.6 Consensus size: 22
62448084 TTTTTATTTT
62448094 AAAA-ATTTTAAAAA-ATTAAA
1 AAAATATTTTAAAAATATTAAA
**
62448114 AAAAGTATTTTAAAAATATTTTA
1 AAAA-TATTTTAAAAATATTAAA
*
62448137 AAAATATTTTAAAAATATT--T
1 AAAATATTTTAAAAATATTAAA
* ** **
62448157 TAAA-ATTAAAAAAAGTATTTTA
1 AAAATATTTTAAAAA-TATTAAA
*
62448179 AAAATATTTT-AAAAT-TAAAA
1 AAAATATTTTAAAAATATTAAA
62448199 AAAATATTTTAAAA
1 AAAATATTTTAAAA
62448213 TTAAAAAAAA
Statistics
Matches: 78, Mismatches: 13, Indels: 15
0.74 0.12 0.14
Matches are distributed among these distances:
19 8 0.10
20 23 0.29
21 4 0.05
22 32 0.41
23 11 0.14
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (22 bp):
AAAATATTTTAAAAATATTAAA
Found at i:62448128 original size:11 final size:11
Alignment explanation
Indices: 62448088--62448192 Score: 114
Period size: 11 Copynumber: 9.9 Consensus size: 11
62448078 GGCCCATTTT
62448088 TATTTT-AAAA
1 TATTTTAAAAA
62448098 -ATTTTAAAAA
1 TATTTTAAAAA
**
62448108 -ATTAAAAAAA
1 TATTTTAAAAA
62448118 GTATTTTAAAAA
1 -TATTTTAAAAA
62448130 TATTTTAAAAA
1 TATTTTAAAAA
62448141 TATTTTAAAAA
1 TATTTTAAAAA
62448152 TATTTT--AAA
1 TATTTTAAAAA
**
62448161 -ATTAAAAAAA
1 TATTTTAAAAA
62448171 GTATTTTAAAAA
1 -TATTTTAAAAA
62448183 TATTTTAAAA
1 TATTTTAAAA
62448193 TTAAAAAAAA
Statistics
Matches: 80, Mismatches: 8, Indels: 13
0.79 0.08 0.13
Matches are distributed among these distances:
8 3 0.04
9 8 0.10
10 15 0.19
11 38 0.47
12 16 0.20
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:62448151 original size:53 final size:53
Alignment explanation
Indices: 62448088--62448221 Score: 193
Period size: 53 Copynumber: 2.6 Consensus size: 53
62448078 GGCCCATTTT
62448088 TATTTTAAAAAT-TTTAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAAA
1 TATTTTAAAAATATTT-AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAAA
*
62448141 TATTTTAAAAATATTTTAAAATTAAAAAAAGTATTTTAAAAATATTTT-AAAA
1 TATTTTAAAAATATTTAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAAA
*** *
62448193 T-TAAAAAAAATATTTTAAAATTAAAAAAA
1 TATTTTAAAAATATTTAAAAATTAAAAAAA
62448222 ATTAAAAAAA
Statistics
Matches: 76, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
51 25 0.33
52 5 0.07
53 43 0.57
54 3 0.04
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (53 bp):
TATTTTAAAAATATTTAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAAA
Found at i:62448175 original size:20 final size:19
Alignment explanation
Indices: 62448147--62448221 Score: 76
Period size: 20 Copynumber: 4.3 Consensus size: 19
62448137 AAAATATTTT
62448147 AAAAATATTTTAAAATTAA
1 AAAAATATTTTAAAATTAA
62448166 AAAAAGTA--TT----TT-A
1 AAAAA-TATTTTAAAATTAA
62448179 A-AAATATTTTAAAATTAAA
1 AAAAATATTTTAAAATT-AA
62448198 AAAAATATTTTAAAATTAA
1 AAAAATATTTTAAAATTAA
62448217 AAAAA
1 AAAAA
62448222 ATTAAAAAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 20
0.70 0.00 0.30
Matches are distributed among these distances:
11 2 0.04
12 3 0.07
13 4 0.09
14 2 0.04
17 2 0.04
18 2 0.04
19 14 0.30
20 17 0.37
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (19 bp):
AAAAATATTTTAAAATTAA
Found at i:62448179 original size:31 final size:31
Alignment explanation
Indices: 62448136--62448264 Score: 156
Period size: 31 Copynumber: 4.2 Consensus size: 31
62448126 AAAATATTTT
62448136 AAAAA-TATTTTAAAAATATTTTAAAATTAA
1 AAAAAGTATTTTAAAAATATTTTAAAATTAA
62448166 AAAAAGTATTTTAAAAATATTTTAAAATTAA
1 AAAAAGTATTTTAAAAATATTTTAAAATTAA
* * ***
62448197 AAAAAATATTTTAAAATTA-AAAAAAATTAAAA
1 AAAAAGTATTTTAAAAATATTTTAAAATT--AA
*
62448229 AAAAAGTA-TGTAAATAATATTTTAAAATTAA
1 AAAAAGTATTTTAAA-AATATTTTAAAATTAA
62448260 AAAAA
1 AAAAA
62448265 TAAATATATT
Statistics
Matches: 83, Mismatches: 11, Indels: 9
0.81 0.11 0.09
Matches are distributed among these distances:
30 11 0.13
31 54 0.65
32 12 0.14
33 6 0.07
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (31 bp):
AAAAAGTATTTTAAAAATATTTTAAAATTAA
Found at i:62448222 original size:20 final size:20
Alignment explanation
Indices: 62448178--62448223 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
62448168 AAAGTATTTT
62448178 AAAAATATTTTAAAATTAAA
1 AAAAATATTTTAAAATTAAA
62448198 AAAAATATTTTAAAATTAAA
1 AAAAATATTTTAAAATTAAA
62448218 AAAAAT
1 AAAAAT
62448224 TAAAAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAAATATTTTAAAATTAAA
Found at i:62448665 original size:27 final size:28
Alignment explanation
Indices: 62448635--62448694 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
62448625 TTCAATTTTA
62448635 AATTATAAATCAATG-TTAATTTAGACT
1 AATTATAAATCAATGTTTAATTTAGACT
*
62448662 AATTATAAATCAATGTTTAATTTGGACT
1 AATTATAAATCAATGTTTAATTTAGACT
62448690 AATTA
1 AATTA
62448695 ATTTGAAGGC
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 15 0.48
28 16 0.52
ACGTcount: A:0.43, C:0.07, G:0.08, T:0.42
Consensus pattern (28 bp):
AATTATAAATCAATGTTTAATTTAGACT
Found at i:62449170 original size:33 final size:34
Alignment explanation
Indices: 62449110--62449180 Score: 117
Period size: 33 Copynumber: 2.1 Consensus size: 34
62449100 TATAAACAGT
**
62449110 TGCAAAGATTAAAGAAAAAAAGTTAGAGGTTAGC
1 TGCAAAGATTAAAGAAAAAAAAATAGAGGTTAGC
62449144 TGCAAAGATTAAA-AAAAAAAAATAGAGGTTAGC
1 TGCAAAGATTAAAGAAAAAAAAATAGAGGTTAGC
62449177 TGCA
1 TGCA
62449181 GTTCTCAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
33 22 0.63
34 13 0.37
ACGTcount: A:0.52, C:0.07, G:0.21, T:0.20
Consensus pattern (34 bp):
TGCAAAGATTAAAGAAAAAAAAATAGAGGTTAGC
Found at i:62449887 original size:20 final size:20
Alignment explanation
Indices: 62449827--62449889 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
62449817 TGGAAGGGAG
*
62449827 AAAG-AAAAAGG-AAAATGA
1 AAAGAAAAAAGGAAAAATAA
*
62449845 AAAGAAAAAAGGGAATGAA-AA
1 AAAGAAAAAA-GGAA-AAATAA
*
62449866 AAATAAAAAAGGAAAAATAA
1 AAAGAAAAAAGGAAAAATAA
62449886 AAAG
1 AAAG
62449890 TGGTGGGCCG
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
18 4 0.11
19 7 0.20
20 11 0.31
21 11 0.31
22 2 0.06
ACGTcount: A:0.75, C:0.00, G:0.19, T:0.06
Consensus pattern (20 bp):
AAAGAAAAAAGGAAAAATAA
Found at i:62461514 original size:39 final size:40
Alignment explanation
Indices: 62461419--62461680 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
62461409 TTGAATGATG
*
62461419 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
62461457 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
62461498 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
62461537 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
62461576 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
62461615 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
62461654 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
62461681 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:62465347 original size:50 final size:50
Alignment explanation
Indices: 62465236--62465474 Score: 270
Period size: 50 Copynumber: 4.7 Consensus size: 50
62465226 ATTTGGGTAA
62465236 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAG---ATG
* *
62465292 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
62465342 AGAGGTCCC-TCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGATCCCAT-GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
62465392 AGA-ACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTACATG
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* * *
62465441 AAACATCCTATGTAAGACCATGTCTGGGACATGG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGG
62465475 TTTTGGCATG
Statistics
Matches: 164, Mismatches: 14, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
48 1 0.01
49 33 0.20
50 84 0.51
51 1 0.01
53 3 0.02
55 2 0.01
56 40 0.24
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:62472541 original size:9 final size:9
Alignment explanation
Indices: 62472527--62472615 Score: 108
Period size: 9 Copynumber: 9.9 Consensus size: 9
62472517 TTCAGTTAAA
62472527 AATTAACCG
1 AATTAACCG
62472536 AATTAACCG
1 AATTAACCG
62472545 AATT-ACTCG
1 AATTAAC-CG
62472554 AATTAACCG
1 AATTAACCG
*
62472563 AATTAACTG
1 AATTAACCG
* *
62472572 GATTACCCG
1 AATTAACCG
*
62472581 AATTAACTG
1 AATTAACCG
* *
62472590 AATTACCCA
1 AATTAACCG
62472599 AATTAACCG
1 AATTAACCG
62472608 AATTAACC
1 AATTAACC
62472616 TGTAACACCC
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
8 2 0.03
9 62 0.94
10 2 0.03
ACGTcount: A:0.42, C:0.22, G:0.10, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:62474098 original size:40 final size:40
Alignment explanation
Indices: 62474000--62474302 Score: 396
Period size: 40 Copynumber: 7.6 Consensus size: 40
62473990 TCCTCGTTCA
* * * * *
62474000 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
62474039 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
62474079 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
62474119 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
62474159 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
62474199 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
62474239 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
62474279 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
62474303 CAGCATTCAA
Statistics
Matches: 238, Mismatches: 22, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 37 0.16
40 193 0.81
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:62479456 original size:13 final size:13
Alignment explanation
Indices: 62479438--62479466 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
62479428 AAGAGAGTGA
62479438 CATAACTTCTTGT
1 CATAACTTCTTGT
62479451 CATAACTTCTTGT
1 CATAACTTCTTGT
62479464 CAT
1 CAT
62479467 CGAGATGTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.24, C:0.24, G:0.07, T:0.45
Consensus pattern (13 bp):
CATAACTTCTTGT
Found at i:62480740 original size:13 final size:13
Alignment explanation
Indices: 62480722--62480759 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
62480712 ACATGAGCAT
62480722 GTGGACCACACGG
1 GTGGACCACACGG
*
62480735 GTGGACCACGCGG
1 GTGGACCACACGG
62480748 GTGGACCACACG
1 GTGGACCACACG
62480760 CCCCCTTCCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.21, C:0.32, G:0.39, T:0.08
Consensus pattern (13 bp):
GTGGACCACACGG
Found at i:62481428 original size:90 final size:90
Alignment explanation
Indices: 62481313--62481535 Score: 277
Period size: 90 Copynumber: 2.5 Consensus size: 90
62481303 AGTTTTTATC
* * *
62481313 TACAAATATGTTGTGCATTCACAACCATCTAGCAGCATATTAACCTACAACACTGGTGGTTCATC
1 TACAATTATGTTGTGCATCCACAACCATCTAGCAACATATTAACCTACAACACTGGTGGTTCATC
** *
62481378 CACCCATTTTCTGACAACTCTTATA
66 CACCCACATTCTGACAACTCTCATA
* * * * * *
62481403 TGCAATTTTGTTGTGTATCCACAACCATCTGGCAACATATTAACCTGCAACATTGGTGGTTCATC
1 TACAATTATGTTGTGCATCCACAACCATCTAGCAACATATTAACCTACAACACTGGTGGTTCATC
* *
62481468 CACCCACATTCTGACAGCTCTCATC
66 CACCCACATTCTGACAACTCTCATA
* * *
62481493 TACAATTATGTTGTGCA-CTCACAACCATTTGGCAACGTATTAA
1 TACAATTATGTTGTGCATC-CACAACCATCTAGCAACATATTAA
62481536 ACTGTAACTT
Statistics
Matches: 113, Mismatches: 19, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
89 1 0.01
90 112 0.99
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.31
Consensus pattern (90 bp):
TACAATTATGTTGTGCATCCACAACCATCTAGCAACATATTAACCTACAACACTGGTGGTTCATC
CACCCACATTCTGACAACTCTCATA
Found at i:62484385 original size:6 final size:6
Alignment explanation
Indices: 62484376--62484403 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
62484366 TAAATATAAA
62484376 ATATTT ATATTT ATATTT ATATTT ATAT
1 ATATTT ATATTT ATATTT ATATTT ATAT
62484404 AATAAAGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
ATATTT
Found at i:62489783 original size:3 final size:3
Alignment explanation
Indices: 62489775--62489808 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
62489765 ATAATTCGAG
62489775 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
62489809 CTAAATTCTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:62497403 original size:25 final size:25
Alignment explanation
Indices: 62497375--62497578 Score: 112
Period size: 25 Copynumber: 8.1 Consensus size: 25
62497365 CACTACGAAT
*
62497375 TTTCTAGAGAATTCGCTACAAAGGC
1 TTTCTAGAGAATTCGCCACAAAGGC
* *
62497400 TTTCTAGA-AGATTCACCGCAAAGGC
1 TTTCTAGAGA-ATTCGCCACAAAGGC
* * *
62497425 TTTCCA-AAAATTTGCCACAAAGGC
1 TTTCTAGAGAATTCGCCACAAAGGC
* ** * *
62497449 TTTTCTAAAGAATTTTCCAAAAAAGC
1 -TTTCTAGAGAATTCGCCACAAAGGC
* * *
62497475 TTTCCAGAGAATTCGCCATAAAAGCC
1 TTTCTAGAGAATTCGCCA-CAAAGGC
* * * *
62497501 TTT-TAGAGAATTATTGACA-AAAAGT
1 TTTCTAGAGAA-T-TCGCCACAAAGGC
* *
62497526 TTTCTAAAGAATTTGCC-CGAAAGGC
1 TTTCTAGAGAATTCGCCAC-AAAGGC
* * *
62497551 TTTTTAGAGAATTTGTCACAAAGGC
1 TTTCTAGAGAATTCGCCACAAAGGC
62497576 TTT
1 TTT
62497579 TCAGAAATTC
Statistics
Matches: 137, Mismatches: 31, Indels: 22
0.72 0.16 0.12
Matches are distributed among these distances:
24 18 0.13
25 85 0.62
26 30 0.22
27 4 0.03
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.30
Consensus pattern (25 bp):
TTTCTAGAGAATTCGCCACAAAGGC
Found at i:62497572 original size:51 final size:49
Alignment explanation
Indices: 62497423--62497572 Score: 142
Period size: 51 Copynumber: 3.0 Consensus size: 49
62497413 CACCGCAAAG
*
62497423 GCTTTCCAAA-AATTTGCCACAAAGGCTTTTCTAAAGAATTTTC-CAAAAAA
1 GCTTTCCAAAGAATTTGCC-CAAAGGCTTTT-TAGAGAATTTTCAC-AAAAA
* * * * * *
62497473 GCTTTCCAGAGAATTCGCCATAAAAGCCTTTTAGAGAATTATTGACAAAAA
1 GCTTTCCAAAGAATTTGCC-CAAAGGCTTTTTAGAGAATT-TTCACAAAAA
* *
62497524 GTTTTCTAAAGAATTTGCCCGAAAGGCTTTTTAGAGAATTTGTCACAAA
1 GCTTTCCAAAGAATTTGCCC-AAAGGCTTTTTAGAGAATTT-TCACAAA
62497573 GGCTTTTCAG
Statistics
Matches: 80, Mismatches: 15, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
50 18 0.22
51 61 0.76
52 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (49 bp):
GCTTTCCAAAGAATTTGCCCAAAGGCTTTTTAGAGAATTTTCACAAAAA
Found at i:62499148 original size:9 final size:8
Alignment explanation
Indices: 62499128--62499178 Score: 56
Period size: 9 Copynumber: 6.6 Consensus size: 8
62499118 TTAAAATAAA
62499128 TTTATA-T
1 TTTATAGT
62499135 TTTATTAGT
1 TTTA-TAGT
62499144 TTTATA--
1 TTTATAGT
62499150 TTTATA-T
1 TTTATAGT
62499157 TTTATAGTT
1 TTTATAG-T
62499166 TTTATAGT
1 TTTATAGT
62499174 TTTAT
1 TTTAT
62499179 TTTATTTTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
6 6 0.15
7 10 0.26
8 10 0.26
9 13 0.33
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (8 bp):
TTTATAGT
Found at i:62499155 original size:22 final size:23
Alignment explanation
Indices: 62499127--62499184 Score: 86
Period size: 22 Copynumber: 2.6 Consensus size: 23
62499117 TTTAAAATAA
62499127 ATTTATATTTTATTAG-TTTTAT
1 ATTTATATTTTATTAGTTTTTAT
62499149 ATTTATATTTTA-TAGTTTTTAT
1 ATTTATATTTTATTAGTTTTTAT
62499171 AGTTT-TATTTTATT
1 A-TTTATATTTTATT
62499185 TTATTTAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
21 3 0.09
22 26 0.79
23 4 0.12
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (23 bp):
ATTTATATTTTATTAGTTTTTAT
Found at i:62499248 original size:25 final size:26
Alignment explanation
Indices: 62499213--62499268 Score: 80
Period size: 25 Copynumber: 2.2 Consensus size: 26
62499203 TAAATTATTT
*
62499213 TATTTTCATAATTATGTAATTTTT-AA
1 TATTTTCATAATTAT-AAATTTTTGAA
62499239 TATTTT-ATAATTATAAATTTTTGAA
1 TATTTTCATAATTATAAATTTTTGAA
62499264 TATTT
1 TATTT
62499269 AAAATAATGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 7 0.25
25 15 0.54
26 6 0.21
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.59
Consensus pattern (26 bp):
TATTTTCATAATTATAAATTTTTGAA
Found at i:62499730 original size:7 final size:7
Alignment explanation
Indices: 62499718--62499744 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
62499708 TATAGTAATA
62499718 TAAAATT
1 TAAAATT
62499725 TAAAATT
1 TAAAATT
62499732 TAAAATT
1 TAAAATT
62499739 TAAAAT
1 TAAAAT
62499745 ACAAATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
TAAAATT
Found at i:62500330 original size:19 final size:19
Alignment explanation
Indices: 62500306--62500356 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
62500296 AAAAGATAAT
62500306 ATATATTTATATTTTTATA
1 ATATATTTATATTTTTATA
*
62500325 ATATATATACTA-TTTTATA
1 ATATATTTA-TATTTTTATA
62500344 AT-TATTTATATTT
1 ATATATTTATATTT
62500357 AATTATGTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
17 2 0.07
18 7 0.25
19 17 0.61
20 2 0.07
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
ATATATTTATATTTTTATA
Found at i:62502489 original size:26 final size:28
Alignment explanation
Indices: 62502460--62502519 Score: 72
Period size: 26 Copynumber: 2.2 Consensus size: 28
62502450 TCAAAACACC
*
62502460 TAAATGCAATACAATAA-AT-ATTACAA
1 TAAATACAATACAATAATATCATTACAA
* *
62502486 TAAATATAGTACAATAATATCATTACAA
1 TAAATACAATACAATAATATCATTACAA
62502514 -AAATAC
1 TAAATAC
62502520 TAAACATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
26 14 0.50
27 7 0.25
28 7 0.25
ACGTcount: A:0.57, C:0.12, G:0.03, T:0.28
Consensus pattern (28 bp):
TAAATACAATACAATAATATCATTACAA
Found at i:62502500 original size:14 final size:12
Alignment explanation
Indices: 62502469--62502518 Score: 57
Period size: 12 Copynumber: 3.9 Consensus size: 12
62502459 CTAAATGCAA
62502469 TACAATAAATAT
1 TACAATAAATAT
62502481 TACAATAAATAT
1 TACAATAAATAT
62502493 AGTACAATAATATCAT
1 --TACAATAA-AT-AT
62502509 TACAA-AAATA
1 TACAATAAATA
62502519 CTAAACATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
11 1 0.03
12 14 0.41
13 2 0.06
14 13 0.38
15 2 0.06
16 2 0.06
ACGTcount: A:0.58, C:0.10, G:0.02, T:0.30
Consensus pattern (12 bp):
TACAATAAATAT
Found at i:62502891 original size:38 final size:35
Alignment explanation
Indices: 62502849--62502936 Score: 95
Period size: 39 Copynumber: 2.3 Consensus size: 35
62502839 TAATTAAAAA
* *
62502849 AATTCAAAATCTCAATAAATAAAAAACATTTGTCAAAT
1 AATTCAAAAACCCAATAAAT-AAAAA-A-TTGTCAAAT
62502887 AATTCAAAAAAAAACCCAATAAATAAAAAATTGTCAAAT
1 AATTC----AAAAACCCAATAAATAAAAAATTGTCAAAT
62502926 AATTCAAAAAC
1 AATTCAAAAAC
62502937 AACAAAAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
35 6 0.14
38 5 0.11
39 14 0.32
40 1 0.02
41 5 0.11
42 13 0.30
ACGTcount: A:0.60, C:0.14, G:0.02, T:0.24
Consensus pattern (35 bp):
AATTCAAAAACCCAATAAATAAAAAATTGTCAAAT
Found at i:62503149 original size:31 final size:32
Alignment explanation
Indices: 62503080--62503169 Score: 85
Period size: 31 Copynumber: 2.8 Consensus size: 32
62503070 TTTTTTACCC
*
62503080 TTTTTTTAAACCCTAAACAAAACCCTTTAATA
1 TTTTTTTAAACCCTAAACAAAACCCTCTAATA
* * *
62503112 TATTTTT-AACCCTAAACAAATCCC-CTAATC
1 TTTTTTTAAACCCTAAACAAAACCCTCTAATA
*
62503142 TCTTTTTTCCAAACCCTAATAAAAAACC
1 T-TTTTTT--AAACCCTAA-ACAAAACC
62503170 TTTAATCCCT
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
30 5 0.11
31 21 0.46
32 6 0.13
34 8 0.17
35 6 0.13
ACGTcount: A:0.39, C:0.27, G:0.00, T:0.34
Consensus pattern (32 bp):
TTTTTTTAAACCCTAAACAAAACCCTCTAATA
Found at i:62504274 original size:388 final size:388
Alignment explanation
Indices: 62503526--62504684 Score: 1952
Period size: 388 Copynumber: 3.0 Consensus size: 388
62503516 GACACATAGC
* * *
62503526 CTTCACTCTAATTTTTTAGTTTTCCTTTTTTTTTTCATTTTCATTTTGTATTTTGTTTTGTATTT
1 CTTCACCCTAATTTTTCAGTTTTCC-TTTTTTTTTCTTTTTCATTTTGTATTTTGTTTTGTATTT
*
62503591 GTACTCGGGTTGGGTATTCGGGTTTTTTAATGCCGCC-ATCAACAAGGATGCACCATTAATTTTT
65 GTACTCGGGTTGGGTATTCGGGTTTTTTAATGCCGCCTATCAACAAGGCTGCACCATTAATTTTT
62503655 TTTAACTAAATCCGACGGGTGTGAGAAAATAGAGGTGGTGCTGCCTCTGCACCACCCTCCACCAC
130 TTTAACTAAATCCGACGGGTGTGAGAAAATAG-GGTGGTGCTGCCTCTGCACCACCCTCCACCAC
**
62503720 CCTTGGTATACCATTTTCGTAAATAATTCAGCTCACATATTATTTTAGATATTTTTAAATTTTTT
194 CCTTGGTATACCATTTTCGTAAATAATTCAGCTCGTATATTATTTTAGATATTTTTAAATTTTTT
*
62503785 ATATTATATATGTAAAAAAGCCACTAACTTACAAGTTGCTCAAAATACTAGTAAGGCATTTCACC
259 ATATTATATATGTAAAAAAGCCACTAACTTACAAGTTGCTCAAAATACTAGTAAGACATTTCACC
*
62503850 AAAAAAATAAATACTAATAAGACAAAAATCATAGAATAAATATGGCCTTACAATGGAATTGCAAA
324 AAAAAAATAAATACTAATAAGACAAAAATCATAGAATAAATATGGCCTTGCAATGGAATTGCAAA
62503915 CTTCACCCTAATTTTTCAGTTTTCC-TTTTTTTTCTTTTTCATTTTGTATTTTGTTTTGTATTTG
1 CTTCACCCTAATTTTTCAGTTTTCCTTTTTTTTTCTTTTTCATTTTGTATTTTGTTTTGTATTTG
*
62503979 TACTCGGGTTGGGTATTCGGGTTTTTTAATGCCGCCTATCAACAAGGCTGAACCATTAATTTTTT
66 TACTCGGGTTGGGTATTCGGGTTTTTTAATGCCGCCTATCAACAAGGCTGCACCATTAATTTTTT
* *
62504044 TTAACTAAATCCGACGGGTGTGAGAAAATAGGGGTGGTGCTGCCTCTGCAGCACCCTCCACCACT
131 TTAACTAAATCCGACGGGTGTGAGAAAATA-GGGTGGTGCTGCCTCTGCACCACCCTCCACCACC
*
62504109 CTTGGTATACCATTTTCGTAAATAATTTAGCTCGTATATTATTTTAGATATTTTTAAA-TTTTTA
195 CTTGGTATACCATTTTCGTAAATAATTCAGCTCGTATATTATTTTAGATATTTTTAAATTTTTTA
62504173 TATTATATATGTAAAAAAGCCACTAACTTACAAGTTGCTCAAAATACTAGTAAGACATTTCACCA
260 TATTATATATGTAAAAAAGCCACTAACTTACAAGTTGCTCAAAATACTAGTAAGACATTTCACC-
*
62504238 AAAAAAATAAATACTAATAAGACAAAAATTATAGAATAAATATGGCCTTGCAATGGAATTGCAAA
324 AAAAAAATAAATACTAATAAGACAAAAATCATAGAATAAATATGGCCTTGCAATGGAATTGC--A
62504303 CAA
387 -AA
62504306 CTTCACCCTAATTTTTCAGTTTTCCTTTTTTTTTTCTTTTTCATTTTGTATTTTGTTTTGTATTT
1 CTTCACCCTAATTTTTCAGTTTTCC-TTTTTTTTTCTTTTTCATTTTGTATTTTGTTTTGTATTT
**
62504371 GTACTTAGGTTGGGTATTCGGGTTTTTTAATGCCGCCTATCAACAAGGCTGCACCATTAAATTTT
65 GTACTCGGGTTGGGTATTCGGGTTTTTTAATGCCGCCTATCAACAAGGCTGCACCATT-AATTTT
*
62504436 TTTTAACTAAATCCGACGGGTGTGAGAAAATA-------G--G---CAGCACCACCCTCCACCAC
129 TTTTAACTAAATCCGACGGGTGTGAGAAAATAGGGTGGTGCTGCCTCTGCACCACCCTCCACCAC
* *
62504489 CCTTGGTATACCATTTTCGTAAATAATTCAGCTAGTATATTTTTTTAGATATTTTTAAATTTTTT
194 CCTTGGTATACCATTTTCGTAAATAATTCAGCTCGTATATTATTTTAGATATTTTTAAATTTTTT
*
62504554 ATATTATATATGTAAAAAAGTCACTAACTTACAAGTTGCTCAAAATACTAGTAAGACATTTCACC
259 ATATTATATATGTAAAAAAGCCACTAACTTACAAGTTGCTCAAAATACTAGTAAGACATTTCACC
*
62504619 AAAAAAATAAATACTAATAAGACAAAAATCATAGAATAAATATGGCCTTGCAATGAAATTGCAAA
324 AAAAAAATAAATACTAATAAGACAAAAATCATAGAATAAATATGGCCTTGCAATGGAATTGCAAA
62504684 C
1 C
62504685 AATTTGCAAT
Statistics
Matches: 735, Mismatches: 25, Indels: 31
0.93 0.03 0.04
Matches are distributed among these distances:
378 3 0.00
379 1 0.00
381 132 0.18
382 69 0.09
384 1 0.00
386 1 0.00
387 143 0.19
388 202 0.27
389 24 0.03
390 1 0.00
391 27 0.04
393 93 0.13
394 38 0.05
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (388 bp):
CTTCACCCTAATTTTTCAGTTTTCCTTTTTTTTTCTTTTTCATTTTGTATTTTGTTTTGTATTTG
TACTCGGGTTGGGTATTCGGGTTTTTTAATGCCGCCTATCAACAAGGCTGCACCATTAATTTTTT
TTAACTAAATCCGACGGGTGTGAGAAAATAGGGTGGTGCTGCCTCTGCACCACCCTCCACCACCC
TTGGTATACCATTTTCGTAAATAATTCAGCTCGTATATTATTTTAGATATTTTTAAATTTTTTAT
ATTATATATGTAAAAAAGCCACTAACTTACAAGTTGCTCAAAATACTAGTAAGACATTTCACCAA
AAAAATAAATACTAATAAGACAAAAATCATAGAATAAATATGGCCTTGCAATGGAATTGCAAA
Found at i:62513231 original size:4 final size:4
Alignment explanation
Indices: 62513222--62513281 Score: 102
Period size: 4 Copynumber: 15.0 Consensus size: 4
62513212 CTACAAATAT
62513222 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
62513270 ATGC ATGC ATAC
1 ATAC ATAC ATAC
62513282 CCTTCGTATG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 54 1.00
ACGTcount: A:0.47, C:0.25, G:0.03, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:62516252 original size:2 final size:2
Alignment explanation
Indices: 62516245--62516269 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
62516235 TCATTACATT
62516245 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
62516270 CTAGTGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:62518371 original size:15 final size:15
Alignment explanation
Indices: 62518351--62518384 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
62518341 GAGGTAGTAC
62518351 AACAGAACAAAGCAA
1 AACAGAACAAAGCAA
* *
62518366 AACAGAACAGAGCAG
1 AACAGAACAAAGCAA
62518381 AACA
1 AACA
62518385 ATGTAATTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.62, C:0.21, G:0.18, T:0.00
Consensus pattern (15 bp):
AACAGAACAAAGCAA
Found at i:62518436 original size:20 final size:20
Alignment explanation
Indices: 62518399--62518437 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
62518389 AATTCAAATA
*
62518399 GAACAGAACCGAATAGAGCG
1 GAACAGAACCGAACAGAGCG
* *
62518419 GAACAGAACGGAGCAGAGC
1 GAACAGAACCGAACAGAGC
62518438 AAAACAGAGC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.44, C:0.21, G:0.33, T:0.03
Consensus pattern (20 bp):
GAACAGAACCGAACAGAGCG
Found at i:62521551 original size:49 final size:50
Alignment explanation
Indices: 62521484--62521630 Score: 125
Period size: 53 Copynumber: 2.8 Consensus size: 50
62521474 CTGGGAACCA
* * * * *
62521484 AGTGTCAAGACCGTAGGCTAACAT-CCCTCAGAAACACACCTCGGCACTG
1 AGTGCCAAGCCCGAAGGCTAACATCCCCCCAGAAACACACCTCAGCACTG
* * * **
62521533 AGTGCCAAGCCCGAAGGCTTTACATCCGCCCCCGGAAGCACACCTCAGTGCTG
1 AGTGCCAAGCCCGAAGGC-TAACAT-C-CCCCCAGAAACACACCTCAGCACTG
* *
62521586 AGTGCCAAGCCCGAAGGCTTTACATCCACCCTCGGAAACACACCT
1 AGTGCCAAGCCCGAAGGC-TAACATCC-CCC-CAGAAACACACCT
62521631 GAATTACTGT
Statistics
Matches: 81, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
49 15 0.19
50 5 0.06
51 1 0.01
52 4 0.05
53 56 0.69
ACGTcount: A:0.27, C:0.36, G:0.21, T:0.16
Consensus pattern (50 bp):
AGTGCCAAGCCCGAAGGCTAACATCCCCCCAGAAACACACCTCAGCACTG
Found at i:62521576 original size:53 final size:53
Alignment explanation
Indices: 62521514--62521630 Score: 180
Period size: 53 Copynumber: 2.2 Consensus size: 53
62521504 ACATCCCTCA
* *
62521514 GAAACACACCTCGGCACTGAGTGCCAAGCCCGAAGGCTTTACATCCGCCCCCG
1 GAAACACACCTCAGCACTGAGTGCCAAGCCCGAAGGCTTTACATCCACCCCCG
* ** *
62521567 GAAGCACACCTCAGTGCTGAGTGCCAAGCCCGAAGGCTTTACATCCACCCTCG
1 GAAACACACCTCAGCACTGAGTGCCAAGCCCGAAGGCTTTACATCCACCCCCG
62521620 GAAACACACCT
1 GAAACACACCT
62521631 GAATTACTGT
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
53 57 1.00
ACGTcount: A:0.26, C:0.38, G:0.21, T:0.15
Consensus pattern (53 bp):
GAAACACACCTCAGCACTGAGTGCCAAGCCCGAAGGCTTTACATCCACCCCCG
Found at i:62529025 original size:6 final size:7
Alignment explanation
Indices: 62529006--62529032 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
62528996 GAAGTGAAAT
62529006 ACAAAAA
1 ACAAAAA
62529013 ACAAAAA
1 ACAAAAA
62529020 ACAAAAA
1 ACAAAAA
62529027 ACAAAA
1 ACAAAA
62529033 GAAAAATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (7 bp):
ACAAAAA
Found at i:62532794 original size:44 final size:44
Alignment explanation
Indices: 62532731--62532820 Score: 162
Period size: 44 Copynumber: 2.0 Consensus size: 44
62532721 ATTATTTTAA
* *
62532731 TTTCAAAATTTTATTAAGTATAAATCTATTTTTATAAAAATACT
1 TTTCAAAATTCTAGTAAGTATAAATCTATTTTTATAAAAATACT
62532775 TTTCAAAATTCTAGTAAGTATAAATCTATTTTTATAAAAATACT
1 TTTCAAAATTCTAGTAAGTATAAATCTATTTTTATAAAAATACT
62532819 TT
1 TT
62532821 AAATTATATT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.47
Consensus pattern (44 bp):
TTTCAAAATTCTAGTAAGTATAAATCTATTTTTATAAAAATACT
Found at i:62535241 original size:19 final size:18
Alignment explanation
Indices: 62535200--62535238 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
62535190 TCAAGTAAAG
*
62535200 AAAGACAAAAACGCAAAT
1 AAAGACAAAAACACAAAT
62535218 AAAGACAAAAACACAAAT
1 AAAGACAAAAACACAAAT
62535236 AAA
1 AAA
62535239 AGATGACCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.72, C:0.15, G:0.08, T:0.05
Consensus pattern (18 bp):
AAAGACAAAAACACAAAT
Found at i:62540929 original size:51 final size:51
Alignment explanation
Indices: 62540847--62541132 Score: 294
Period size: 51 Copynumber: 5.6 Consensus size: 51
62540837 GATGAACACG
*
62540847 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATT-GTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAAT-ATTGGTCACA
* * * * * * * *
62540898 TGTCTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT-TTGGTCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAA-ATATTGGTCACA
* *
62540949 TGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGA-TGGTCATA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAAT-ATTGGTCACA
* * * *
62541000 TGTGTAGTACTAAGTGAAGGCTACTATGTGTATCGA-AAAGTTTTGGTCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAA-TATTGGTCACA
* * * * * *
62541051 TGTGTAGTACTATGTGAAGGCTACTACATGAACCG-TAAAAACTTGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATA-TTGGTCACA
*
62541102 TGTGTAGTACTATGTGGAGGCTACTACGTGT
1 TGTGTAGTACTATGTGAAGGCTACTACGTGT
62541133 TTTGAATGAT
Statistics
Matches: 191, Mismatches: 36, Indels: 16
0.79 0.15 0.07
Matches are distributed among these distances:
50 6 0.03
51 184 0.96
52 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (51 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATATTGGTCACA
Found at i:62541102 original size:153 final size:153
Alignment explanation
Indices: 62540847--62541131 Score: 387
Period size: 153 Copynumber: 1.9 Consensus size: 153
62540837 GATGAACACG
**
62540847 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATTGTCACATGTCTAGTACTAAG
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAAATAATTGTCACATGTCTAGTACTAAG
** * * * *
62540912 TGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCACGTGTGTAGTACTATGTGAAGGCTACTACG
66 TGAAGGCTACAACATGAACCGAAAAACTTTGATCACGTGTGTAGTACTATGTGAAGGCTACTACG
62540977 TGAATCGATAAATGATGGTCATA
131 TGAATCGATAAATGATGGTCATA
* * * *
62541000 TGTGTAGTACTAAGTGAAGGCTACTATGTGTATCGA-AAAGT-TTTGGTCACGTGTGTAGTACTA
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAAA-TAATT-GTCACATGTCTAGTACTA
* * *
62541063 TGTGAAGGCTACTACATGAACCGTAAAAAC-TTGATCACGTGTGTAGTACTATGTGGAGGCTACT
64 AGTGAAGGCTACAACATGAACCG-AAAAACTTTGATCACGTGTGTAGTACTATGTGAAGGCTACT
62541127 ACGTG
128 ACGTG
62541132 TTTTGAATGA
Statistics
Matches: 114, Mismatches: 15, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
152 5 0.04
153 105 0.92
154 4 0.04
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (153 bp):
TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAAATAATTGTCACATGTCTAGTACTAAG
TGAAGGCTACAACATGAACCGAAAAACTTTGATCACGTGTGTAGTACTATGTGAAGGCTACTACG
TGAATCGATAAATGATGGTCATA
Found at i:62541126 original size:102 final size:100
Alignment explanation
Indices: 62540843--62541132 Score: 382
Period size: 102 Copynumber: 2.8 Consensus size: 100
62540833 TATCGATGAA
* * *
62540843 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATTGTCACATGTCTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCG-TAAA-AATTGTCACATGTGTAGTAC
* *
62540908 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
64 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
* * *
62540945 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCATATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCG-TAAA-AATTGTCACATGTGTAGTAC
* *
62541010 TAAGTGAAGGCTACTATGTGTATCGAAAAGTTTTGGT
64 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
* * *
62541047 CACGTGTGTAGTACTATGTGAAGGCTACTACATGAACCGTAAAAACTTGATCACGTGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGTAAAAA-TTG-TCACATGTGTAGTAC
* * *
62541112 TATGTGGAGGCTACTACGTGT
64 TAAGTGAAGGCTACTATGTGT
62541133 TTTGAATGAT
Statistics
Matches: 167, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
100 1 0.01
101 6 0.04
102 160 0.96
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.31
Consensus pattern (100 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGTAAAAATTGTCACATGTGTAGTACTA
AGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
Found at i:62541170 original size:153 final size:153
Alignment explanation
Indices: 62540850--62541170 Score: 353
Period size: 153 Copynumber: 2.1 Consensus size: 153
62540840 GAACACGTGT
62540850 GTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATTGTCACATGTCTAGTACTAAGTGA
1 GTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATTGTCACATGTCTAGTACTAAGTGA
** * * * *
62540915 AGGCTACAATGTGTACCGAGAAGCTTTGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGA
66 AGGCTACAACATGAACCGAAAAACTTTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGTGA
* ** * * *
62540980 ATCGATAAATGATGGTCATATGT
131 ATCGATAAATAAAAGTAACATGG
** * * * * *
62541003 GTAGTACTAAGTGAAGGCTACTATGTGTATCGA-AAAGT-TTTGGTCACGTGTGTAGTACTATGT
1 GTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAA-TAATT-GTCACATGTCTAGTACTAAGT
* *
62541066 GAAGGCTACTACATGAACCGTAAAAAC-TTGATCACGTGTGTAGTACTATGTGGAGGCTACTACG
64 GAAGGCTACAACATGAACCG-AAAAACTTTGATCACGTGTGTAGTACTATGTGAAGGCTACTACG
** * *
62541130 TGTTTTGA-ATGATAAAAGTAACATGG
128 TGAATCGATA-AATAAAAGTAACATGG
62541156 GTAGTACTGTGTGAA
1 GTAGTACTGTGTGAA
62541171 AAACCCCAAA
Statistics
Matches: 137, Mismatches: 27, Indels: 8
0.80 0.16 0.05
Matches are distributed among these distances:
152 6 0.04
153 127 0.93
154 4 0.03
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.31
Consensus pattern (153 bp):
GTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATTGTCACATGTCTAGTACTAAGTGA
AGGCTACAACATGAACCGAAAAACTTTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGTGA
ATCGATAAATAAAAGTAACATGG
Found at i:62543568 original size:68 final size:69
Alignment explanation
Indices: 62543435--62543568 Score: 189
Period size: 68 Copynumber: 2.0 Consensus size: 69
62543425 CTTTAAACTA
* *
62543435 AATCACTTTAATATTAAATTAATATAATATTTATCAAGATAAACAGTAAATTAAATTTAATATTA
1 AATCACTTTAATATTAAATTAATAAAATATCTATCAAGATAAACAGTAAATTAAATTTAATATTA
62543500 AGAT
66 AGAT
* * ** * *
62543504 AATCACTTTAATATTAAATTAATAAAATA-CTATTAGGATAAGTATTAAATTAAATTTCATATTA
1 AATCACTTTAATATTAAATTAATAAAATATCTATCAAGATAAACAGTAAATTAAATTTAATATTA
62543568 A
66 A
62543569 ACTATTAAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
68 29 0.51
69 28 0.49
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (69 bp):
AATCACTTTAATATTAAATTAATAAAATATCTATCAAGATAAACAGTAAATTAAATTTAATATTA
AGAT
Found at i:62550294 original size:24 final size:24
Alignment explanation
Indices: 62550267--62550321 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
62550257 ATATATCACA
*
62550267 ATTATAA-AATTACATAATATAAAT
1 ATTATAACAATTACATAA-AAAAAT
*
62550291 ATTATAGACAATTATATAAAAAAAT
1 ATTATA-ACAATTACATAAAAAAAT
62550316 A-TATAA
1 ATTATAA
62550322 TGAGATAGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 1 0.04
24 10 0.37
25 7 0.26
26 9 0.33
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.35
Consensus pattern (24 bp):
ATTATAACAATTACATAAAAAAAT
Found at i:62551989 original size:3 final size:3
Alignment explanation
Indices: 62551981--62552823 Score: 1686
Period size: 3 Copynumber: 281.0 Consensus size: 3
62551971 CACTTAGCTT
62551981 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
62552029 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
62552077 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
62552125 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
62552173 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
62552221 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
62552269 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
62552317 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
62552365 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
62552413 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
62552461 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
62552509 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
62552557 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
62552605 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
62552653 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
62552701 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
62552749 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
62552797 GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA
62552824 AGCCAATTTC
Statistics
Matches: 840, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 840 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:62553545 original size:3 final size:3
Alignment explanation
Indices: 62553537--62553569 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
62553527 TCTCCATTTC
62553537 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
62553570 ACTACTACTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Done.