Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 72 of 205
Found at i:21480917 original size:13 final size:13
Alignment explanation
Indices: 21480899--21480925 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
21480889 ATAATGATTT
21480899 ACTTAAATTTAAA
1 ACTTAAATTTAAA
21480912 ACTTAAATTTAAA
1 ACTTAAATTTAAA
21480925 A
1 A
21480926 AGGAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (13 bp):
ACTTAAATTTAAA
Found at i:21484574 original size:24 final size:24
Alignment explanation
Indices: 21484539--21484588 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
21484529 AATCATTATA
*
21484539 GATAATGTATTGATATATATTGAT
1 GATAATGCATTGATATATATTGAT
21484563 GATAATGCATTGATATATATTGAT
1 GATAATGCATTGATATATATTGAT
21484587 GA
1 GA
21484589 CTTCCTTTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.38, C:0.02, G:0.18, T:0.42
Consensus pattern (24 bp):
GATAATGCATTGATATATATTGAT
Found at i:21486902 original size:25 final size:23
Alignment explanation
Indices: 21486871--21486919 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 23
21486861 TAGACACGTA
*
21486871 ATTTTGTATGACGCCTTTGTGGCGT
1 ATTTTGTATG--GCCCTTGTGGCGT
*
21486896 ATTTTGTTTGGCCCTTGTGGCGT
1 ATTTTGTATGGCCCTTGTGGCGT
21486919 A
1 A
21486920 CTCTACTATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 13 0.59
25 9 0.41
ACGTcount: A:0.10, C:0.16, G:0.29, T:0.45
Consensus pattern (23 bp):
ATTTTGTATGGCCCTTGTGGCGT
Found at i:21488654 original size:27 final size:27
Alignment explanation
Indices: 21488352--21488655 Score: 286
Period size: 27 Copynumber: 11.3 Consensus size: 27
21488342 GGTATAACAT
21488352 TCATTTTACCCTATGGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* * * **
21488379 TCACTTTATCCTATAGGGGTATTTAAG
1 TCATTTTACCCTATGGGGGTATTTCGG
* * *
21488406 TCATTTTACTCTATGGGGGTATTTTGA
1 TCATTTTACCCTATGGGGGTATTTCGG
* * *
21488433 CCATTTTACCCTATGGGGGTATTTTGA
1 TCATTTTACCCTATGGGGGTATTTCGG
*
21488460 TCATTTTACCTTATGGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* *
21488487 TTATTTTACCCTATGGGGGTATTTCAG
1 TCATTTTACCCTATGGGGGTATTTCGG
* * * **
21488514 CCATTTTACCCCCAT-AGGGTATTTCAA
1 TCATTTTA-CCCTATGGGGGTATTTCGG
* **
21488541 TCATTTTACCCTATGGGGTTATTTAAG
1 TCATTTTACCCTATGGGGGTATTTCGG
* * * * *
21488568 CCATTTTACCTTATTGGGGTATTTTGA
1 TCATTTTACCCTATGGGGGTATTTCGG
* * *
21488595 TCATTTTACCTTATGAGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGG
* * *
21488622 TCATTTTACCTTATAGGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGG
*
21488649 TTATTTT
1 TCATTTT
21488656 TCCTATTTTA
Statistics
Matches: 227, Mismatches: 48, Indels: 4
0.81 0.17 0.01
Matches are distributed among these distances:
26 5 0.02
27 217 0.96
28 5 0.02
ACGTcount: A:0.20, C:0.16, G:0.20, T:0.44
Consensus pattern (27 bp):
TCATTTTACCCTATGGGGGTATTTCGG
Found at i:21488655 original size:81 final size:81
Alignment explanation
Indices: 21488353--21488645 Score: 344
Period size: 81 Copynumber: 3.6 Consensus size: 81
21488343 GTATAACATT
* * *
21488353 CATTTTACCCTATGGGGGTATTTCGGTCACTTTATCC-TATAGGGGTATTTAAGTCATTTTA-CT
1 CATTTTACCCTATGAGGGTATTTCGATCATTTTA-CCTTATAGGGGTATTTAAGTCATTTTACCT
21488416 CTATGGGGGTATTTTGAC
65 -TATGGGGGTATTTTGAC
* * * ** * *
21488434 CATTTTACCCTATGGGGGTATTTTGATCATTTTACCTTATGGGGGTATTTCGGTTATTTTACCCT
1 CATTTTACCCTATGAGGGTATTTCGATCATTTTACCTTATAGGGGTATTTAAGTCATTTTACCTT
*
21488499 ATGGGGGTA-TTTCAGC
66 ATGGGGGTATTTTGA-C
* * * *
21488515 CATTTTACCCCCAT-AGGGTATTTCAATCATTTTACCCTAT-GGGGTTATTTAAGCCATTTTACC
1 CATTTTA-CCCTATGAGGGTATTTCGATCATTTTACCTTATAGGGG-TATTTAAGTCATTTTACC
* *
21488578 TTATTGGGGTATTTTGAT
64 TTATGGGGGTATTTTGAC
*
21488596 CATTTTACCTTATGAGGGTATTTCGATCATTTTACCTTATAGGGGTATTT
1 CATTTTACCCTATGAGGGTATTTCGATCATTTTACCTTATAGGGGTATTT
21488646 TGGTTATTTT
Statistics
Matches: 178, Mismatches: 26, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
80 14 0.08
81 150 0.84
82 14 0.08
ACGTcount: A:0.20, C:0.16, G:0.20, T:0.43
Consensus pattern (81 bp):
CATTTTACCCTATGAGGGTATTTCGATCATTTTACCTTATAGGGGTATTTAAGTCATTTTACCTT
ATGGGGGTATTTTGAC
Found at i:21491478 original size:25 final size:24
Alignment explanation
Indices: 21491450--21491504 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 24
21491440 TTTATACATC
*
21491450 AATTTGAACAACATTTAT-ATACCAA
1 AATTTG-ACAACATTT-TCACACCAA
* *
21491475 AATTAGACAGCATTTTCACACCAA
1 AATTTGACAACATTTTCACACCAA
21491499 AATTTG
1 AATTTG
21491505 GACAGCATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
23 1 0.04
24 19 0.76
25 5 0.20
ACGTcount: A:0.44, C:0.18, G:0.07, T:0.31
Consensus pattern (24 bp):
AATTTGACAACATTTTCACACCAA
Found at i:21491533 original size:23 final size:23
Alignment explanation
Indices: 21491499--21491542 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
21491489 TTCACACCAA
21491499 AATTTGGACAGCATAAATACATC
1 AATTTGGACAGCATAAATACATC
* *
21491522 AATTTGGGCAGCATATATACA
1 AATTTGGACAGCATAAATACA
21491543 ACAGTTTGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (23 bp):
AATTTGGACAGCATAAATACATC
Found at i:21491550 original size:23 final size:23
Alignment explanation
Indices: 21491499--21491550 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
21491489 TTCACACCAA
*
21491499 AATTTGGACAGCATAAATACATC
1 AATTTGGACAGCATAAATACAAC
* *
21491522 AATTTGGGCAGCATATATACAAC
1 AATTTGGACAGCATAAATACAAC
*
21491545 AGTTTG
1 AATTTG
21491551 AGCAACATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.29
Consensus pattern (23 bp):
AATTTGGACAGCATAAATACAAC
Found at i:21499148 original size:38 final size:38
Alignment explanation
Indices: 21499097--21499236 Score: 183
Period size: 38 Copynumber: 3.7 Consensus size: 38
21499087 CACTATTTAG
* *
21499097 GCTTTGTGCCTAGCAGGCTTAGTGCTGGTATTATTCAA
1 GCTTTGTGCCTAGCAGGCTTAGTGCCGGTGTTATTCAA
* *
21499135 GCTTTGTGCCTAGCAGGCTTAGTACCGGTGTTATTCAG
1 GCTTTGTGCCTAGCAGGCTTAGTGCCGGTGTTATTCAA
* * *
21499173 GCTTTGTGCCTAGCAAGCTTAGTGCCAGTGTTATT-ACT
1 GCTTTGTGCCTAGCAGGCTTAGTGCCGGTGTTATTCA-A
* *
21499211 GCTTTTTACCTAGCAGGCTTAGTGCC
1 GCTTTGTGCCTAGCAGGCTTAGTGCC
21499237 AATGTATTAA
Statistics
Matches: 90, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
37 1 0.01
38 89 0.99
ACGTcount: A:0.17, C:0.21, G:0.26, T:0.36
Consensus pattern (38 bp):
GCTTTGTGCCTAGCAGGCTTAGTGCCGGTGTTATTCAA
Found at i:21513356 original size:18 final size:18
Alignment explanation
Indices: 21513315--21513356 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
21513305 ACAAAATCTA
*
21513315 CCATTTCATATTCCATTT
1 CCATCTCATATTCCATTT
21513333 CACATCTCAT-TTCCATTT
1 C-CATCTCATATTCCATTT
21513351 GCCATC
1 -CCATC
21513357 CTTTACAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.21, C:0.33, G:0.02, T:0.43
Consensus pattern (18 bp):
CCATCTCATATTCCATTT
Found at i:21520458 original size:27 final size:27
Alignment explanation
Indices: 21520374--21520459 Score: 84
Period size: 27 Copynumber: 3.2 Consensus size: 27
21520364 ATCCTGTCAG
* * * * *
21520374 CCTTTGTGGCGTATTCTGAATGAATCG
1 CCTTTGTGGCATACTCTGTATGGATCA
* *
21520401 CCTTTGTGGCATACTCTATATAGAT-A
1 CCTTTGTGGCATACTCTGTATGGATCA
*
21520427 CCCTTTGTGGCATACCCTGTATGGATCA
1 -CCTTTGTGGCATACTCTGTATGGATCA
21520455 CCTTT
1 CCTTT
21520460 ATGGTGTACT
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
27 46 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.37
Consensus pattern (27 bp):
CCTTTGTGGCATACTCTGTATGGATCA
Found at i:21527774 original size:7 final size:6
Alignment explanation
Indices: 21527754--21527794 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
21527744 CCCACCCCAT
*
21527754 ATACAG ATACAG ATAACAG ATACAG ATAACAG ATGCAG ATA
1 ATACAG ATACAG AT-ACAG ATACAG AT-ACAG ATACAG ATA
21527795 TACAAGATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 19 0.61
7 12 0.39
ACGTcount: A:0.51, C:0.15, G:0.17, T:0.17
Consensus pattern (6 bp):
ATACAG
Found at i:21527774 original size:13 final size:13
Alignment explanation
Indices: 21527756--21527794 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
21527746 CACCCCATAT
21527756 ACAGATACAGATA
1 ACAGATACAGATA
21527769 ACAGATACAGATA
1 ACAGATACAGATA
*
21527782 ACAGATGCAGATA
1 ACAGATACAGATA
21527795 TACAAGATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.51, C:0.15, G:0.18, T:0.15
Consensus pattern (13 bp):
ACAGATACAGATA
Found at i:21529536 original size:42 final size:42
Alignment explanation
Indices: 21529472--21529562 Score: 155
Period size: 42 Copynumber: 2.2 Consensus size: 42
21529462 TGGTCAAGCT
*
21529472 GTGTGGCTCACACGGTCAAGAGACACGCCCATGTCTCAGGCC
1 GTGTGGCTCACACGGTCAAGAGACACACCCATGTCTCAGGCC
* *
21529514 GTGTGGCTCACACGGTCGAGAGACACACCCGTGTCTCAGGCC
1 GTGTGGCTCACACGGTCAAGAGACACACCCATGTCTCAGGCC
21529556 GTGTGGC
1 GTGTGGC
21529563 CATTTAAAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.19, C:0.32, G:0.32, T:0.18
Consensus pattern (42 bp):
GTGTGGCTCACACGGTCAAGAGACACACCCATGTCTCAGGCC
Found at i:21530793 original size:25 final size:25
Alignment explanation
Indices: 21530734--21530795 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 25
21530724 TGAGCACATA
* * * *
21530734 AACGAAAAGCTCTTTTGAGCCATTT
1 AACGAGAAGCTCATGTGAGCCATGT
*
21530759 AATG-GAAAGCTCATGTGAGCCATGT
1 AACGAG-AAGCTCATGTGAGCCATGT
21530784 AACGAGAAGCTC
1 AACGAGAAGCTC
21530796 TTGCGAGTCA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
25 28 0.97
26 1 0.03
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (25 bp):
AACGAGAAGCTCATGTGAGCCATGT
Found at i:21530910 original size:27 final size:25
Alignment explanation
Indices: 21530879--21530928 Score: 73
Period size: 27 Copynumber: 1.9 Consensus size: 25
21530869 TAGAGAGCCA
21530879 TTAATCAGAAAGCTCATGAAAGAGCTT
1 TTAATCAGAAAGCTC-T-AAAGAGCTT
*
21530906 TTAATCAGAAATCTCTAAAGAGC
1 TTAATCAGAAAGCTCTAAAGAGC
21530929 CATATATCGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 7 0.32
26 1 0.05
27 14 0.64
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (25 bp):
TTAATCAGAAAGCTCTAAAGAGCTT
Found at i:21534475 original size:28 final size:29
Alignment explanation
Indices: 21534443--21534504 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 29
21534433 AATAAAAATT
*
21534443 ATTTTATGAGA-CTAGGGGCA-AAATAGTA
1 ATTTTATGAAACCTAGGGGCAGAAAT-GTA
*
21534471 ATTTTGTGAAACTCTAGGGGCAGAAATGTA
1 ATTTTATGAAAC-CTAGGGGCAGAAATGTA
21534501 ATTT
1 ATTT
21534505 CTCCAAAGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 9 0.31
30 16 0.55
31 4 0.14
ACGTcount: A:0.35, C:0.08, G:0.24, T:0.32
Consensus pattern (29 bp):
ATTTTATGAAACCTAGGGGCAGAAATGTA
Found at i:21534853 original size:45 final size:45
Alignment explanation
Indices: 21534789--21534960 Score: 177
Period size: 45 Copynumber: 3.9 Consensus size: 45
21534779 TATTGAGTAT
* ***
21534789 CATTGATTATAAAGGTGGTTGCTATGTGTTGATTCCACCGGGTAC
1 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGAAAAC
* * *
21534834 CATTGATTATAAAGGTGGTTGCTATGTGCTGACTCCATCGAAAAT
1 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGAAAAC
* ** * * *
21534879 CATTAAAAATAAAGGTGGTTTCTATGTGCTGATTCCACCGAATAT
1 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGAAAAC
* * * *
21534924 AATTAATTATAAGGGTGG-TGTTATGTGCTGA-TCCACC
1 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACC
21534961 ATGTAATGGT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
43 6 0.06
44 11 0.10
45 90 0.84
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (45 bp):
CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGAAAAC
Found at i:21544253 original size:16 final size:16
Alignment explanation
Indices: 21544220--21544253 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
21544210 AGAATTGAGT
*
21544220 TTAGAAAATTACTAAA
1 TTAGAAAATTAATAAA
*
21544236 TTAGAAAATTAATTAA
1 TTAGAAAATTAATAAA
21544252 TT
1 TT
21544254 TAAATTAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.38
Consensus pattern (16 bp):
TTAGAAAATTAATAAA
Found at i:21547821 original size:26 final size:27
Alignment explanation
Indices: 21547788--21547847 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 27
21547778 AAAATTAATA
21547788 TTTTTAATGTAATG-T-TTATTATTAT
1 TTTTTAATGTAATGTTGTTATTATTAT
* *
21547813 GTTTTTAATTTAGTGTTGTTATTATTAT
1 -TTTTTAATGTAATGTTGTTATTATTAT
21547841 TTTTTAA
1 TTTTTAA
21547848 CTAAGGAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
26 12 0.40
27 8 0.27
28 10 0.33
ACGTcount: A:0.25, C:0.00, G:0.10, T:0.65
Consensus pattern (27 bp):
TTTTTAATGTAATGTTGTTATTATTAT
Found at i:21556987 original size:26 final size:26
Alignment explanation
Indices: 21556943--21556992 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
21556933 CTATCCGGAG
* *
21556943 CTCCTGATTAAAGGCTCTTCGTGAGC
1 CTCCTAATTAAAAGCTCTTCGTGAGC
* *
21556969 CTCCTAATTAAAAGTTCTTTGTGA
1 CTCCTAATTAAAAGCTCTTCGTGA
21556993 ACTTCCTGAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (26 bp):
CTCCTAATTAAAAGCTCTTCGTGAGC
Found at i:21561161 original size:18 final size:20
Alignment explanation
Indices: 21561140--21561178 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
21561130 AAAATTTTAA
21561140 ATTAA-AAAAAAACA-ACAC
1 ATTAAGAAAAAAACATACAC
21561158 ATTAAGAAAAAAACATACAC
1 ATTAAGAAAAAAACATACAC
21561178 A
1 A
21561179 GTATATTGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.26
19 9 0.47
20 5 0.26
ACGTcount: A:0.69, C:0.15, G:0.03, T:0.13
Consensus pattern (20 bp):
ATTAAGAAAAAAACATACAC
Found at i:21561168 original size:102 final size:103
Alignment explanation
Indices: 21561001--21561237 Score: 306
Period size: 103 Copynumber: 2.3 Consensus size: 103
21560991 TAAAGAATGC
* *
21561001 CTCCACCAAAATAAAGTA-TCTTTTTTAAAAATTTTAAATTAAAAAAACAACACATTTAAAAAAA
1 CTCCACC-AAATAAAATATTATTTTTTAAAAATTTTAAATTAAAAAAACAACACATTTAAAAAAA
*
21561065 AAAACCATACA-A-TACATTGGTGACGCCATTCTATC-TGG
65 AAAA-CATACACAGTACATTGGAGACGCCATTCTA-CATGG
* *
21561103 CTCCACTAAATAAAATATTATTTTTTAAAAATTTTAAATTAAAAAAAAACAACACA-TT-AAGAA
1 CTCCACCAAATAAAATATTATTTTTTAAAAATTTTAAATT--AAAAAAACAACACATTTAAAAAA
* ** *
21561166 AAAAACATACACAGTATATTGGAGGTGTCATTCTACATGG
64 AAAAACATACACAGTACATTGGAGACGCCATTCTACATGG
21561206 CTCCACCAAATAAAATATTATTTTTTAAAAAT
1 CTCCACCAAATAAAATATTATTTTTTAAAAAT
21561238 AAAAAACACA
Statistics
Matches: 119, Mismatches: 10, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
101 15 0.13
102 38 0.32
103 52 0.44
104 14 0.12
ACGTcount: A:0.48, C:0.15, G:0.07, T:0.30
Consensus pattern (103 bp):
CTCCACCAAATAAAATATTATTTTTTAAAAATTTTAAATTAAAAAAACAACACATTTAAAAAAAA
AAACATACACAGTACATTGGAGACGCCATTCTACATGG
Found at i:21573621 original size:19 final size:20
Alignment explanation
Indices: 21573585--21573622 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
21573575 GTTGGGAATA
*
21573585 TATATTAATTATAAGTTTTT
1 TATATTAATTAGAAGTTTTT
*
21573605 TATATT-ATTAGATGTTTT
1 TATATTAATTAGAAGTTTT
21573623 GAATGTAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.61
Consensus pattern (20 bp):
TATATTAATTAGAAGTTTTT
Found at i:21574832 original size:19 final size:17
Alignment explanation
Indices: 21574817--21574854 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
21574807 TGAATGTCGA
21574817 ATATGAGAAAATATGTG
1 ATATGAGAAAATATGTG
*
21574834 GTATGAGAAAATATGTG
1 ATATGAGAAAATATGTG
21574851 ATAT
1 ATAT
21574855 TTTTATTAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.24, T:0.32
Consensus pattern (17 bp):
ATATGAGAAAATATGTG
Found at i:21577385 original size:42 final size:42
Alignment explanation
Indices: 21577338--21577474 Score: 177
Period size: 42 Copynumber: 3.2 Consensus size: 42
21577328 GATAATATTC
* * *
21577338 AGGAAGGAACATGGGAAAGCAACATCCATG-TCTAGACAAAAA
1 AGGAAGCAACTTGGGAAAGCAACATCCAAGTTC-AGACAAAAA
* * *
21577380 AGGAAGCAACTTGGGAAAACAACAACCAAGTTCAAACAAAAAA
1 AGGAAGCAACTTGGGAAAGCAACATCCAAGTTCAGAC-AAAAA
* *
21577423 AGGAAGTAACTTGGGAAAGCAACATCCAGGTTCAGACAAAAA
1 AGGAAGCAACTTGGGAAAGCAACATCCAAGTTCAGACAAAAA
21577465 AGGAAGCAAC
1 AGGAAGCAAC
21577475 GTGGAAGCAA
Statistics
Matches: 81, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
42 42 0.52
43 39 0.48
ACGTcount: A:0.50, C:0.18, G:0.22, T:0.11
Consensus pattern (42 bp):
AGGAAGCAACTTGGGAAAGCAACATCCAAGTTCAGACAAAAA
Found at i:21584319 original size:26 final size:26
Alignment explanation
Indices: 21584289--21584358 Score: 70
Period size: 29 Copynumber: 2.5 Consensus size: 26
21584279 ATAAATATTT
21584289 AATTATTTATATTTAGTCA-TATAATA
1 AATTATTTATATTTA-TCATTATAATA
* *
21584315 AATTATTAATATAATTTATTATTTTAATA
1 AATTATT--TAT-ATTTATCATTATAATA
21584344 AATTATTTAATATTT
1 AATTATTT-ATATTT
21584359 CAATTTTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
26 7 0.19
27 5 0.14
28 7 0.19
29 18 0.49
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (26 bp):
AATTATTTATATTTATCATTATAATA
Found at i:21584328 original size:16 final size:16
Alignment explanation
Indices: 21584307--21584356 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 16
21584297 ATATTTAGTC
21584307 ATATAATAAATTATTA
1 ATATAATAAATTATTA
21584323 ATATAAT---TTATTA
1 ATATAATAAATTATTA
* *
21584336 TTTTAATAAATTATTTA
1 ATATAATAAATTA-TTA
21584353 ATAT
1 ATAT
21584357 TTCAATTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
13 11 0.42
16 10 0.38
17 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATATAATAAATTATTA
Found at i:21584331 original size:29 final size:30
Alignment explanation
Indices: 21584299--21584356 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
21584289 AATTATTTAT
21584299 ATTTAGTCA-TATAATAAATTA-TTAATATA
1 ATTTA-TCATTATAATAAATTATTTAATATA
* *
21584328 ATTTATTATTTTAATAAATTATTTAATAT
1 ATTTATCATTATAATAAATTATTTAATAT
21584357 TTCAATTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 2 0.08
29 16 0.64
30 7 0.28
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (30 bp):
ATTTATCATTATAATAAATTATTTAATATA
Found at i:21584382 original size:13 final size:14
Alignment explanation
Indices: 21584366--21584407 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
21584356 TTTCAATTTT
21584366 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
21584379 ATTTTAAAAATGATA
1 ATTTTAATAAT-ATA
21584394 ATTTTAAATAATAT
1 ATTTT-AATAATAT
21584408 TCTTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:21590862 original size:35 final size:35
Alignment explanation
Indices: 21590816--21590888 Score: 128
Period size: 35 Copynumber: 2.1 Consensus size: 35
21590806 GTCGTCAATG
*
21590816 TATGAACAGACAAAAATTATTAATGCACAAACATA
1 TATGAACAGACAAAAATTATGAATGCACAAACATA
*
21590851 TATGAACAGACAAAAATTATGAATTCACAAACATA
1 TATGAACAGACAAAAATTATGAATGCACAAACATA
21590886 TAT
1 TAT
21590889 ATGGAAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.53, C:0.14, G:0.08, T:0.25
Consensus pattern (35 bp):
TATGAACAGACAAAAATTATGAATGCACAAACATA
Found at i:21590873 original size:17 final size:17
Alignment explanation
Indices: 21590816--21590873 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 17
21590806 GTCGTCAATG
21590816 TATGAACAGACAAAAAT
1 TATGAACAGACAAAAAT
* * *
21590833 TATTAA-TGCACAAACAT
1 TATGAACAG-ACAAAAAT
21590850 ATATGAACAGACAAAAAT
1 -TATGAACAGACAAAAAT
21590868 TATGAA
1 TATGAA
21590874 TTCACAAACA
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
16 1 0.03
17 18 0.56
18 12 0.38
19 1 0.03
ACGTcount: A:0.55, C:0.12, G:0.10, T:0.22
Consensus pattern (17 bp):
TATGAACAGACAAAAAT
Found at i:21590880 original size:17 final size:17
Alignment explanation
Indices: 21590825--21590881 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
21590815 GTATGAACAG
* *
21590825 ACAAAAATTATTAATGC
1 ACAAAAATTATGAATAC
* * *
21590842 ACAAACATATATGAACAG
1 ACAAAAAT-TATGAATAC
*
21590860 ACAAAAATTATGAATTC
1 ACAAAAATTATGAATAC
21590877 ACAAA
1 ACAAA
21590882 CATATATATG
Statistics
Matches: 30, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
17 18 0.60
18 12 0.40
ACGTcount: A:0.56, C:0.14, G:0.07, T:0.23
Consensus pattern (17 bp):
ACAAAAATTATGAATAC
Found at i:21597554 original size:16 final size:16
Alignment explanation
Indices: 21597533--21597570 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
21597523 TTTGGTTCGC
21597533 TGTAATGGAATAAAGG
1 TGTAATGGAATAAAGG
*
21597549 TGTAATGGAATAGAGG
1 TGTAATGGAATAAAGG
*
21597565 CGTAAT
1 TGTAAT
21597571 AGCAAATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.03, G:0.32, T:0.26
Consensus pattern (16 bp):
TGTAATGGAATAAAGG
Found at i:21597844 original size:17 final size:18
Alignment explanation
Indices: 21597803--21597837 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
21597793 TTATTATTAA
21597803 ATATAATTTAATTAAAAT
1 ATATAATTTAATTAAAAT
21597821 ATATAATTTAA-TAAAAT
1 ATATAATTTAATTAAAAT
21597838 TCTTAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
ATATAATTTAATTAAAAT
Found at i:21597943 original size:42 final size:42
Alignment explanation
Indices: 21597893--21597974 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
21597883 TATGATCCTA
*
21597893 TAAAATATAATTTAA-CATAATTATTATTAAA-TATATTTTAAT
1 TAAAATAT-ATTTAATAATAATTA-TATTAAATTATATTTTAAT
*
21597935 TAAAATATATTTAATAATAATTATGTTAAATTATATTTTA
1 TAAAATATATTTAATAATAATTATATTAAATTATATTTTA
21597975 TAGGATCATA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
41 12 0.33
42 24 0.67
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (42 bp):
TAAAATATATTTAATAATAATTATATTAAATTATATTTTAAT
Found at i:21598064 original size:18 final size:20
Alignment explanation
Indices: 21598030--21598077 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 20
21598020 ATTATTAAGA
21598030 ATTTT-ATT-AAATGATAT-
1 ATTTTAATTAAAATGATATG
21598047 ATTTTAATTAAAAT-ATATG
1 ATTTTAATTAAAATGATATG
21598066 A-TTTAA-TAAAAT
1 ATTTTAATTAAAAT
21598078 TTAAAATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
17 11 0.39
18 12 0.43
19 5 0.18
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (20 bp):
ATTTTAATTAAAATGATATG
Found at i:21598129 original size:47 final size:46
Alignment explanation
Indices: 21598060--21598300 Score: 175
Period size: 47 Copynumber: 5.3 Consensus size: 46
21598050 TTAATTAAAA
*
21598060 TATATG-ATTTAATAAAATTTAAAATAATTATTACTAATAAATTTTCT
1 TATATGAATTT-ATATAATTTAAAATAATTATTA-TAATAAATTTTCT
* *
21598107 TATATGAATTTTTATAATTTAAAATAATTATTAT--TAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATTATAATAAAT-T-TTCT
* * *
21598152 TA-AT-AATAATATATAATTTCATAA-AATTCTTGATAATAAATTTTCT
1 TATATGAAT-TTATATAATTT-AAAATAATTATT-ATAATAAATTTTCT
* *
21598198 TATATGAATTTATATAATTTAAAATAATTA--ATATTAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATTATAATAAAT-T-TTCT
* * * *
21598243 TA-AT-AATGATATATAATTTCATAA-AATTCTTAATAATAAATATTCT
1 TATATGAAT-TTATATAATTT-AAAATAATTATT-ATAATAAATTTTCT
21598289 TATATGAATTTA
1 TATATGAATTTA
21598301 CTAAAATCAT
Statistics
Matches: 152, Mismatches: 20, Indels: 44
0.70 0.09 0.20
Matches are distributed among these distances:
43 6 0.04
44 46 0.30
45 18 0.12
46 13 0.09
47 59 0.39
48 10 0.07
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.47
Consensus pattern (46 bp):
TATATGAATTTATATAATTTAAAATAATTATTATAATAAATTTTCT
Found at i:21598154 original size:101 final size:98
Alignment explanation
Indices: 21598029--21598300 Score: 272
Period size: 91 Copynumber: 2.9 Consensus size: 98
21598019 GATTATTAAG
21598029 AATT-TTATTAAATGATATATTTTAATTAAAATATATGATTTAATAAAATTT-AAAATAATTATT
1 AATTATTATTAAAT-ATA-A-TTTAA-TAAAATATAT-ATTT-ATAAAATTTCAAAA-AATTATT
*
21598092 -ACTAATAAATTTTCTTATATGAATTTTTATAATTTAAAAT
59 GA-TAATAAATTTTCTTATATGAATTTATATAATTTAAAAT
* *
21598132 AATTATTATTAAATATAATTTAAT--AATA-ATA--TAT--AATTTCATAAAATTCTTGATAATA
1 AATTATTATTAAATATAATTTAATAAAATATATATTTATAAAATTTCAAAAAATTATTGATAATA
21598190 AATTTTCTTATATGAATTTATATAATTTAAAAT
66 AATTTTCTTATATGAATTTATATAATTTAAAAT
* * * * *
21598223 AATTAATATTAAATATAATTTAAT--AAT-GATA--TAT--AATTTCATAAAATTCTTAATAATA
1 AATTATTATTAAATATAATTTAATAAAATATATATTTATAAAATTTCAAAAAATTATTGATAATA
*
21598281 AATATTCTTATATGAATTTA
66 AATTTTCTTATATGAATTTA
21598301 CTAAAATCAT
Statistics
Matches: 159, Mismatches: 6, Indels: 20
0.86 0.03 0.11
Matches are distributed among these distances:
91 122 0.77
92 4 0.03
93 2 0.01
94 1 0.01
96 1 0.01
97 2 0.01
98 4 0.03
100 1 0.01
101 5 0.03
102 1 0.01
103 7 0.04
104 9 0.06
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (98 bp):
AATTATTATTAAATATAATTTAATAAAATATATATTTATAAAATTTCAAAAAATTATTGATAATA
AATTTTCTTATATGAATTTATATAATTTAAAAT
Found at i:21598169 original size:44 final size:43
Alignment explanation
Indices: 21598119--21598261 Score: 139
Period size: 44 Copynumber: 3.2 Consensus size: 43
21598109 TATGAATTTT
21598119 TATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATA
1 TATAATTTAAAATAATTATTATTAAATATAATTTAATAAT-ATA
* * * *
21598163 TATAATTTCATAA-AATTCTTGATAATAAAT-T-TTCTTATATGAATTTA
1 TATAATTT-AAAATAATTATT-AT--TAAATATAAT-TTA-AT-AATATA
*
21598210 TATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTATTATTAAATATAATTTAATAAT-ATA
21598254 TATAATTT
1 TATAATTT
21598262 CATAAAATTC
Statistics
Matches: 79, Mismatches: 9, Indels: 22
0.72 0.08 0.20
Matches are distributed among these distances:
43 3 0.04
44 31 0.39
45 10 0.13
46 10 0.13
47 22 0.28
48 3 0.04
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (43 bp):
TATAATTTAAAATAATTATTATTAAATATAATTTAATAATATA
Found at i:21598192 original size:91 final size:91
Alignment explanation
Indices: 21598085--21598300 Score: 369
Period size: 91 Copynumber: 2.4 Consensus size: 91
21598075 AATTTAAAAT
* * * *
21598085 AATTATTACTAATAAATTTTCTTATATGAATTTTTATAATTTAAAATAATTATTATTAAATATAA
1 AATTCTTAATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAA
21598150 TTTAATAATAATATATAATTTCATAA
66 TTTAATAATAATATATAATTTCATAA
*
21598176 AATTCTTGATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAA
1 AATTCTTAATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAA
*
21598241 TTTAATAATGATATATAATTTCATAA
66 TTTAATAATAATATATAATTTCATAA
*
21598267 AATTCTTAATAATAAATATTCTTATATGAATTTA
1 AATTCTTAATAATAAATTTTCTTATATGAATTTA
21598301 CTAAAATCAT
Statistics
Matches: 117, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
91 117 1.00
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (91 bp):
AATTCTTAATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAA
TTTAATAATAATATATAATTTCATAA
Found at i:21602788 original size:12 final size:12
Alignment explanation
Indices: 21602771--21602800 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
21602761 AACATTGATT
21602771 TCCAAATCAATC
1 TCCAAATCAATC
*
21602783 TCCAAATCAGTC
1 TCCAAATCAATC
21602795 TCCAAA
1 TCCAAA
21602801 ACATTGATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.40, C:0.33, G:0.03, T:0.23
Consensus pattern (12 bp):
TCCAAATCAATC
Found at i:21618773 original size:45 final size:46
Alignment explanation
Indices: 21618723--21618975 Score: 153
Period size: 45 Copynumber: 5.6 Consensus size: 46
21618713 TCCATGGTGC
* *
21618723 CTTTCAACCATGGTCTTATTTA-TTCTCGAATTGATGCCATAGTAT
1 CTTTCAACCATGGTCTTATTCATTTCTCGAAGTGATGCCATAGTAT
* ** * *
21618768 CTTTCAACCATGGTCTTATTCATTTTTCGTCGTGTTGCCATAGTGT
1 CTTTCAACCATGGTCTTATTCATTTCTCGAAGTGATGCCATAGTAT
* * * * *
21618814 CTTTCAACTATGGTCGTATTCATTT-TCCATCGT-ATTG-CAGTAGTGT
1 CTTTCAACCATGGTCTTATTCATTTCTCGA-AGTGA-TGCCA-TAGTAT
* * * * *
21618860 ATTTCAACTATGGTCTTATTCGTTTGATTCG-A--GATGCCATAGCAT
1 CTTTCAACCATGGTCTTATTCATTT--CTCGAAGTGATGCCATAGTAT
* * * * * * * * *
21618905 TTTTCAACTATGGTCTTACTCTTTTCTAGTA-TGGTGTCATAGTGT
1 CTTTCAACCATGGTCTTATTCATTTCTCGAAGTGATGCCATAGTAT
* *
21618950 CTTTCAACTATGGTCTTAATCATTTC
1 CTTTCAACCATGGTCTTATTCATTTC
21618976 CTTCAAGCCA
Statistics
Matches: 166, Mismatches: 31, Indels: 22
0.76 0.14 0.10
Matches are distributed among these distances:
43 2 0.01
44 1 0.01
45 85 0.51
46 76 0.46
49 2 0.01
ACGTcount: A:0.21, C:0.19, G:0.16, T:0.44
Consensus pattern (46 bp):
CTTTCAACCATGGTCTTATTCATTTCTCGAAGTGATGCCATAGTAT
Found at i:21618827 original size:46 final size:46
Alignment explanation
Indices: 21618757--21618974 Score: 194
Period size: 46 Copynumber: 4.8 Consensus size: 46
21618747 CTCGAATTGA
* *
21618757 TGCCATAGTATCTTTCAACCATGGTCTTATTCATTTTTCGTCGTGT
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTTCGTCGTGT
* * * *
21618803 TGCCATAGTGTCTTTCAACTATGGTCGTATTCATTTTCCATCGTAT
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTTCGTCGTGT
* * * * *
21618849 TG-CAGTAGTGTATTTCAACTATGGTCTTATTCGTTTGAT--TCGAGA
1 TGCCA-TAGTGTCTTTCAACTATGGTCTTATTCATTT-TTCGTCGTGT
** * * * * *
21618894 TGCCATAGCATTTTTCAACTATGGTCTTACTC-TTTTCTAGT-ATGG
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTT-TCGTCGTGT
* *
21618939 TGTCATAGTGTCTTTCAACTATGGTCTTAATCATTT
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTT
21618975 CCTTCAAGCC
Statistics
Matches: 138, Mismatches: 27, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
44 4 0.03
45 58 0.42
46 76 0.55
ACGTcount: A:0.20, C:0.19, G:0.17, T:0.44
Consensus pattern (46 bp):
TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTTCGTCGTGT
Found at i:21623684 original size:46 final size:46
Alignment explanation
Indices: 21623609--21623711 Score: 170
Period size: 46 Copynumber: 2.2 Consensus size: 46
21623599 ATAGTTTTGT
* * *
21623609 TAGGATATTATTATTAGATTTTATTTTTTAGCAATTTGATTCCTAA
1 TAGGATATTATTATTAGATATTATCTTTTAGCAATTTGATTCATAA
21623655 TAGGATATTATTATTAGATATTATCTTTTAGCAATTTGATTCATAA
1 TAGGATATTATTATTAGATATTATCTTTTAGCAATTTGATTCATAA
*
21623701 TACGATATTAT
1 TAGGATATTAT
21623712 AGGATATTAT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 53 1.00
ACGTcount: A:0.33, C:0.07, G:0.11, T:0.50
Consensus pattern (46 bp):
TAGGATATTATTATTAGATATTATCTTTTAGCAATTTGATTCATAA
Found at i:21627662 original size:45 final size:45
Alignment explanation
Indices: 21627598--21627862 Score: 399
Period size: 45 Copynumber: 5.9 Consensus size: 45
21627588 CATTGTTTAA
21627598 GAAAAGGAAAAGACCATGATTGAAAGATATCATGGCATTATAATC
1 GAAAAGGAAAAGACCATGATTGAAAGATATCATGGCATTATAATC
* * *
21627643 GAAAAGGAAAATACCATGATTGAAAGATATCATGACATTGTAATC
1 GAAAAGGAAAAGACCATGATTGAAAGATATCATGGCATTATAATC
* * *
21627688 GGAAAGGAAAGGACCATGATTAAAAGATATCATGGCATTATAATC
1 GAAAAGGAAAAGACCATGATTGAAAGATATCATGGCATTATAATC
* *
21627733 GAAAAGGAAAATACCATGATTGAAAGATATCATGACATTATAATC
1 GAAAAGGAAAAGACCATGATTGAAAGATATCATGGCATTATAATC
*
21627778 GAAAAGGAAAAGACCATGATTAAAAGATATCATGGCATTATAATC
1 GAAAAGGAAAAGACCATGATTGAAAGATATCATGGCATTATAATC
* *
21627823 AAAAAGGAAAGGACCAT-AGTTGAAAGATA-CTATGGCATTA
1 GAAAAGGAAAAGACCATGA-TTGAAAGATATC-ATGGCATTA
21627863 CTTCAGGATT
Statistics
Matches: 198, Mismatches: 20, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
44 2 0.01
45 196 0.99
ACGTcount: A:0.47, C:0.11, G:0.19, T:0.23
Consensus pattern (45 bp):
GAAAAGGAAAAGACCATGATTGAAAGATATCATGGCATTATAATC
Found at i:21630552 original size:46 final size:46
Alignment explanation
Indices: 21630477--21630579 Score: 161
Period size: 46 Copynumber: 2.2 Consensus size: 46
21630467 GAGGAGGTGT
* *
21630477 TAGGATATTATTATTAGATTTTATTTTTTAGCAATTTGATTCCTAA
1 TAGGATATTATTATTAGATATTATATTTTAGCAATTTGATTCCTAA
* * *
21630523 TAGTATATTATTATTAGATATTATATTTTAGCAATTTTATTCTTAA
1 TAGGATATTATTATTAGATATTATATTTTAGCAATTTGATTCCTAA
21630569 TAGGATATTAT
1 TAGGATATTAT
21630580 AGGATATTAT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 51 1.00
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.52
Consensus pattern (46 bp):
TAGGATATTATTATTAGATATTATATTTTAGCAATTTGATTCCTAA
Found at i:21630591 original size:46 final size:46
Alignment explanation
Indices: 21630477--21630592 Score: 126
Period size: 46 Copynumber: 2.5 Consensus size: 46
21630467 GAGGAGGTGT
** * *
21630477 TAGGATATTATTATTAGATTTTATTTTTTAGCAATTTGATTCCTAA
1 TAGGATATTATTAGGAGATATTATATTTTAGCAATTTGATTCCTAA
* ** * *
21630523 TAGTATATTATTATTAGATATTATATTTTAGCAATTTTATTCTTAA
1 TAGGATATTATTAGGAGATATTATATTTTAGCAATTTGATTCCTAA
*
21630569 TAGGATATTA-TAGGATATTATTAT
1 TAGGATATTATTAGGAGA-TATTAT
21630593 TAGATATTAT
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
45 4 0.07
46 56 0.93
ACGTcount: A:0.34, C:0.04, G:0.10, T:0.52
Consensus pattern (46 bp):
TAGGATATTATTAGGAGATATTATATTTTAGCAATTTGATTCCTAA
Found at i:21631702 original size:46 final size:46
Alignment explanation
Indices: 21631627--21631729 Score: 161
Period size: 46 Copynumber: 2.2 Consensus size: 46
21631617 GAGGAGGTGT
* *
21631627 TAGGATATTATTATTAGATTTTATTTTTTAGCAATTTGATTCCTAA
1 TAGGATATTATTATTAGATATTATATTTTAGCAATTTGATTCCTAA
* * *
21631673 TAGTATATTATTATTAGATATTATATTTTAGCAATTTTATTCTTAA
1 TAGGATATTATTATTAGATATTATATTTTAGCAATTTGATTCCTAA
21631719 TAGGATATTAT
1 TAGGATATTAT
21631730 AGGATATTAT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 51 1.00
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.52
Consensus pattern (46 bp):
TAGGATATTATTATTAGATATTATATTTTAGCAATTTGATTCCTAA
Found at i:21631741 original size:46 final size:46
Alignment explanation
Indices: 21631627--21631742 Score: 126
Period size: 46 Copynumber: 2.5 Consensus size: 46
21631617 GAGGAGGTGT
** * *
21631627 TAGGATATTATTATTAGATTTTATTTTTTAGCAATTTGATTCCTAA
1 TAGGATATTATTAGGAGATATTATATTTTAGCAATTTGATTCCTAA
* ** * *
21631673 TAGTATATTATTATTAGATATTATATTTTAGCAATTTTATTCTTAA
1 TAGGATATTATTAGGAGATATTATATTTTAGCAATTTGATTCCTAA
*
21631719 TAGGATATTA-TAGGATATTATTAT
1 TAGGATATTATTAGGAGA-TATTAT
21631743 TAGATATTAT
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
45 4 0.07
46 56 0.93
ACGTcount: A:0.34, C:0.04, G:0.10, T:0.52
Consensus pattern (46 bp):
TAGGATATTATTAGGAGATATTATATTTTAGCAATTTGATTCCTAA
Found at i:21632974 original size:38 final size:38
Alignment explanation
Indices: 21632932--21633007 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
21632922 AAGGCTTATT
21632932 GCCAAAGATTATTTTCTACTCAAATCGGTGAAGGTATA
1 GCCAAAGATTATTTTCTACTCAAATCGGTGAAGGTATA
21632970 GCCAAAGATTATTTTCTACTCAAATCGGTGAAGGTATA
1 GCCAAAGATTATTTTCTACTCAAATCGGTGAAGGTATA
21633008 TTTTGAATCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (38 bp):
GCCAAAGATTATTTTCTACTCAAATCGGTGAAGGTATA
Found at i:21635513 original size:63 final size:64
Alignment explanation
Indices: 21635416--21635540 Score: 148
Period size: 63 Copynumber: 2.0 Consensus size: 64
21635406 TCATTTTTAT
* * * * *
21635416 TTTTCTTTTTCTTTTTGGAGAAAATCACATTCATT-TCCAAATGATTTCAT-TT-CTCCATTTCC
1 TTTTCATTTTCATTTTGGAGAAAACCACAATCATTCT-CAAATG-TTCCATATTACTCCATTTCC
21635478 A
64 A
**
21635479 TTTTCATTTTCATTTTGGAGAAAACCTTAATCATTCTCAAATGTTCCATATTACTCCATTTC
1 TTTTCATTTTCATTTTGGAGAAAACCACAATCATTCTCAAATGTTCCATATTACTCCATTTC
21635541 ACCATTTCTG
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
62 5 0.10
63 37 0.71
64 10 0.19
ACGTcount: A:0.26, C:0.21, G:0.06, T:0.47
Consensus pattern (64 bp):
TTTTCATTTTCATTTTGGAGAAAACCACAATCATTCTCAAATGTTCCATATTACTCCATTTCCA
Found at i:21641354 original size:22 final size:23
Alignment explanation
Indices: 21641329--21641388 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
21641319 TGGACTGAAT
21641329 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
21641351 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
21641373 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
21641389 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:21641356 original size:4 final size:4
Alignment explanation
Indices: 21641338--21641371 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
21641328 TATAAAAATT
21641338 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
21641372 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:21642777 original size:23 final size:22
Alignment explanation
Indices: 21642725--21642777 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
21642715 TCCACGTCTT
*
21642725 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
21642747 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
21642770 TTTCTTTT
1 TTTCTTTT
21642778 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:21645150 original size:22 final size:23
Alignment explanation
Indices: 21645125--21645184 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
21645115 TGGACTGAAT
21645125 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
21645147 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
21645169 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
21645185 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:21645152 original size:4 final size:4
Alignment explanation
Indices: 21645134--21645167 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
21645124 TATAAAAATT
21645134 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
21645168 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:21646740 original size:95 final size:95
Alignment explanation
Indices: 21646610--21646995 Score: 605
Period size: 95 Copynumber: 4.1 Consensus size: 95
21646600 AATAAATTAA
* *
21646610 AAATTAAT-TAATA-TA-ATAGTACAGCAGCATAAATTAAACAAAAAAAAGGATGTT-AACTACA
1 AAATTAATATAATAGTACA-AGTACAACAGCATAAATTAAAC-AAAAAAAGTATGTTAAACTACA
*
21646671 TTTTAAACTTTAAAGTTAGTTAATTGAAGCCT
64 GTTTAAACTTTAAAGTTAGTTAATTGAAGCCT
*
21646703 AAATTAATATAATAGTACAAGTACAACAGCATAAATTAAACAAAAAAAGTATGTTAAACTGCAGT
1 AAATTAATATAATAGTACAAGTACAACAGCATAAATTAAACAAAAAAAGTATGTTAAACTACAGT
21646768 TTAAACTTTAAAGTTAGTTAATTGAAGCCT
66 TTAAACTTTAAAGTTAGTTAATTGAAGCCT
*
21646798 AAATTAATATAATAGTACAAGTACAACAGCATAAATTAAACAAAAAAAGTATGTTAAACTGCAGT
1 AAATTAATATAATAGTACAAGTACAACAGCATAAATTAAACAAAAAAAGTATGTTAAACTACAGT
21646863 TTAAACTTTAAAGTTAGTTAATTGAAGCCT
66 TTAAACTTTAAAGTTAGTTAATTGAAGCCT
*
21646893 AAATTAATATAATAGTACAA-T-----AGCATAAATTAAACAAAAAAAAGTCTGTTAAA-TCACA
1 AAATTAATATAATAGTACAAGTACAACAGCATAAATTAAAC-AAAAAAAGTATGTTAAACT-ACA
21646951 GTTTAAACTTTAAAGTTAGTTAATTGAAGCCT
64 GTTTAAACTTTAAAGTTAGTTAATTGAAGCCT
21646983 AAATTAATATAAT
1 AAATTAATATAAT
21646996 GATACAACAG
Statistics
Matches: 281, Mismatches: 6, Indels: 15
0.93 0.02 0.05
Matches are distributed among these distances:
89 15 0.05
90 63 0.22
93 8 0.03
94 19 0.07
95 175 0.62
96 1 0.00
ACGTcount: A:0.49, C:0.10, G:0.11, T:0.31
Consensus pattern (95 bp):
AAATTAATATAATAGTACAAGTACAACAGCATAAATTAAACAAAAAAAGTATGTTAAACTACAGT
TTAAACTTTAAAGTTAGTTAATTGAAGCCT
Found at i:21647343 original size:17 final size:17
Alignment explanation
Indices: 21647321--21647370 Score: 82
Period size: 17 Copynumber: 2.9 Consensus size: 17
21647311 TTTTCTCTAT
*
21647321 TAATATTACGTTATTAC
1 TAATATTACATTATTAC
*
21647338 TAATATTATATTATTAC
1 TAATATTACATTATTAC
21647355 TAATATTACATTATTA
1 TAATATTACATTATTA
21647371 TTACTTTGGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.40, C:0.08, G:0.02, T:0.50
Consensus pattern (17 bp):
TAATATTACATTATTAC
Found at i:21655215 original size:3 final size:3
Alignment explanation
Indices: 21655207--21655237 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
21655197 TCAAGATCAA
21655207 AAT AAT AAT AAT AAT AAT AAT AAT AACT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT
21655238 TATTATAGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:21658822 original size:58 final size:57
Alignment explanation
Indices: 21658660--21658822 Score: 152
Period size: 61 Copynumber: 2.7 Consensus size: 57
21658650 TTTTAATAAG
* * *
21658660 ATTATTATTAAATATATTTTAATAAAAATAAAAATATATAATTTAATCATATTTTAACATA
1 ATTATTATTAAATATA-ATTAAT-AAAATAATAATATATAA--TAATCATATCTTAACATA
* *
21658721 ATAATTATTAAATACAATTTAATAAAATAAT-ATATGAATTAATAA-CAT-TCTTAACATA
1 ATTATTATTAAATATAA-TTAATAAAATAATAATAT--A-TAATAATCATATCTTAACATA
*
21658779 ATTATTATTAAAATATGAATTAATAAAAGTCATAATATATAATA
1 ATTATTATT-AAATAT-AATTAATAAAA-TAATAATATATAATA
21658823 TTATAAAAAT
Statistics
Matches: 86, Mismatches: 8, Indels: 19
0.76 0.07 0.17
Matches are distributed among these distances:
58 22 0.26
59 22 0.26
60 15 0.17
61 24 0.28
62 3 0.03
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (57 bp):
ATTATTATTAAATATAATTAATAAAATAATAATATATAATAATCATATCTTAACATA
Found at i:21658830 original size:39 final size:38
Alignment explanation
Indices: 21658747--21658830 Score: 96
Period size: 39 Copynumber: 2.2 Consensus size: 38
21658737 ATTTAATAAA
* * * * *
21658747 ATAATATATGAATTAATAACATTCTTAACATAATTATT
1 ATAAAATATGAATTAATAAAAGTCATAACATAAATATT
*
21658785 ATTAAAATATGAATTAATAAAAGTCATAATATATAATATT
1 A-TAAAATATGAATTAATAAAAGTCATAACATA-AATATT
21658825 ATAAAA
1 ATAAAA
21658831 ATAGTATATA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
38 1 0.03
39 31 0.82
40 6 0.16
ACGTcount: A:0.54, C:0.05, G:0.04, T:0.38
Consensus pattern (38 bp):
ATAAAATATGAATTAATAAAAGTCATAACATAAATATT
Found at i:21662302 original size:16 final size:16
Alignment explanation
Indices: 21662281--21662311 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21662271 TATCAGTTAT
*
21662281 AGATACATATTACAAC
1 AGATACATAATACAAC
21662297 AGATACATAATACAA
1 AGATACATAATACAA
21662312 ATTTCCTACC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.16, G:0.06, T:0.23
Consensus pattern (16 bp):
AGATACATAATACAAC
Found at i:21671494 original size:22 final size:21
Alignment explanation
Indices: 21671466--21671516 Score: 70
Period size: 20 Copynumber: 2.4 Consensus size: 21
21671456 ATTTATCAAA
21671466 AAATATTATTT-TACAAGATAAT
1 AAATATTATTTATA-AA-ATAAT
21671488 AAATATT-TTTATAAAATAAT
1 AAATATTATTTATAAAATAAT
21671508 AAATATTAT
1 AAATATTAT
21671517 AAGTAACATG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 12 0.44
21 6 0.22
22 9 0.33
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (21 bp):
AAATATTATTTATAAAATAAT
Found at i:21676725 original size:18 final size:18
Alignment explanation
Indices: 21676687--21676729 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
21676677 CCACCTCAAC
* *
21676687 AAAAAAT-TTTAAATTAT
1 AAAAAATATTCAAATAAT
21676704 -AAAAATATTCAAATAAT
1 AAAAAATATTCAAATAAT
21676721 AAAAAATAT
1 AAAAAATAT
21676730 ATAAAAAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 6 0.27
17 8 0.36
18 8 0.36
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAAAATATTCAAATAAT
Found at i:21681833 original size:17 final size:18
Alignment explanation
Indices: 21681797--21681838 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
21681787 TTATTTAAAA
21681797 AAATTAAGAAAT-AAATT
1 AAATTAAGAAATAAAATT
*
21681814 TAATTAA-AAATAAAGATT
1 AAATTAAGAAATAAA-ATT
21681832 AAATTAA
1 AAATTAA
21681839 TAAAAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 4 0.19
17 8 0.38
18 9 0.43
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (18 bp):
AAATTAAGAAATAAAATT
Found at i:21681857 original size:23 final size:23
Alignment explanation
Indices: 21681794--21681850 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 23
21681784 AACTTATTTA
* *
21681794 AAAAAATTAAGAAATAAATTTAAT
1 AAAAAATAAAG-ATTAAATTTAAT
*
21681818 TAAAAATAAAGATTAAA-TTAAT
1 AAAAAATAAAGATTAAATTTAAT
21681840 AAAAATATAAA
1 AAAAA-ATAAA
21681851 TGTTAAAGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 9 0.32
23 10 0.36
24 9 0.32
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (23 bp):
AAAAAATAAAGATTAAATTTAAT
Found at i:21693089 original size:3 final size:3
Alignment explanation
Indices: 21693081--21693115 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
21693071 ATATATGGAG
21693081 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
21693116 GTCATCGTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:21693402 original size:3 final size:3
Alignment explanation
Indices: 21693394--21693423 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
21693384 TTCATTTCCC
21693394 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
21693424 TATTTTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:21695985 original size:36 final size:36
Alignment explanation
Indices: 21695938--21696045 Score: 180
Period size: 36 Copynumber: 3.0 Consensus size: 36
21695928 TATGATTGTA
*
21695938 GATGTTCAAATGCAAACGCCAGATTTATGGAATGTT
1 GATGTTCAAATGCAAACTCCAGATTTATGGAATGTT
21695974 GATGTTCAAATGCAAACTCCAGATTTATGGAATGTT
1 GATGTTCAAATGCAAACTCCAGATTTATGGAATGTT
* * *
21696010 GATGTTCAAATTCAAACTCCGGATTTATTGAATGTT
1 GATGTTCAAATGCAAACTCCAGATTTATGGAATGTT
21696046 ATAATAGCAA
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 68 1.00
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.34
Consensus pattern (36 bp):
GATGTTCAAATGCAAACTCCAGATTTATGGAATGTT
Found at i:21699965 original size:38 final size:38
Alignment explanation
Indices: 21699922--21699996 Score: 123
Period size: 38 Copynumber: 2.0 Consensus size: 38
21699912 CCCTTTGTTA
*
21699922 CTCTGTTTATTTTCTTTTCTTTTCTGCCGATTTGCTCC
1 CTCTGTTTATTTTCCTTTCTTTTCTGCCGATTTGCTCC
* *
21699960 CTCTGTTTCTTTTCCTTTCTTTTCTGTCGATTTGCTC
1 CTCTGTTTATTTTCCTTTCTTTTCTGCCGATTTGCTC
21699997 AGTTTCTGCC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.04, C:0.27, G:0.11, T:0.59
Consensus pattern (38 bp):
CTCTGTTTATTTTCCTTTCTTTTCTGCCGATTTGCTCC
Found at i:21702438 original size:59 final size:58
Alignment explanation
Indices: 21702373--21702681 Score: 197
Period size: 59 Copynumber: 5.2 Consensus size: 58
21702363 ATTTTATTAA
21702373 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTATATTTTATAGT
* * ** *
21702432 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTA-TT-AA-GA-ATTTTATTA-
1 ATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTAAATTATATTTTA-TAG
*
21702492 A
58 T
* * * *
21702493 ATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATCTTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAATTATATTTTATAGT
* * ** *
21702552 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTA-TT-AA-GA-ATTTTATTA-
1 ATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTAAATTATATTTTA-TAG
*
21702612 A
58 T
* * * *
21702613 ATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAATTATATTTTATAGT
21702672 ATCATATATT
1 ATCATATATT
21702682 ATGATTTGAG
Statistics
Matches: 185, Mismatches: 37, Indels: 56
0.67 0.13 0.20
Matches are distributed among these distances:
54 20 0.11
55 8 0.04
56 6 0.03
57 7 0.04
58 6 0.03
59 41 0.22
60 16 0.09
61 31 0.17
62 6 0.03
63 9 0.05
64 4 0.02
65 10 0.05
66 21 0.11
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (58 bp):
ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTATATTTTATAGT
Found at i:21702478 original size:120 final size:120
Alignment explanation
Indices: 21702362--21702779 Score: 732
Period size: 120 Copynumber: 3.5 Consensus size: 120
21702352 AATTATTTTA
* * *
21702362 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATATTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AAATTATATTT
21702426 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
21702482 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATCTTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
21702547 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
21702602 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
* *
21702667 ATAGTATCATATATTATGATTTGAGTAAATTCATATAACAATA-TAGACTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTA-ATTATTAAG
21702722 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
21702780 ATGATTAAAT
Statistics
Matches: 286, Mismatches: 9, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
119 2 0.01
120 277 0.97
121 7 0.02
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:21702501 original size:61 final size:61
Alignment explanation
Indices: 21702435--21702742 Score: 225
Period size: 61 Copynumber: 5.1 Consensus size: 61
21702425 TTATAGTATC
21702435 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * ** * * *
21702496 ATATATT-TTAATT-A-T-AA-T-ATAT-TTAATAATAATTATGTTA-AATTATCTTTTATAGTA
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTAT-TAAGAATT-T-TATTA-A--A
*
21702553 TC
60 TT
21702555 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * * * *
21702616 ATATATT-TTAATT-A-T-AATAT-ATTTAATAATAATTATGTTAATTTA-TATTTTA-TAGTAT
1 ATATATTATGATTTGAGTAAAT-TCATATAAGAAT-ATTA-ATT-ATTAAGAATTTTATTA-AAT
*
21702674 C
61 T
* *
21702675 ATATATTATGATTTGAGTAAATTCATATAACAATA-TAGACTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTA-ATTATTAAGAATTTTATTAAATT
21702736 ATATATT
1 ATATATT
21702743 TTAATTATAA
Statistics
Matches: 185, Mismatches: 36, Indels: 52
0.68 0.13 0.19
Matches are distributed among these distances:
54 15 0.08
55 7 0.04
56 5 0.03
57 14 0.08
58 9 0.05
59 28 0.15
60 24 0.13
61 36 0.19
62 6 0.03
63 14 0.08
64 5 0.03
65 7 0.04
66 15 0.08
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:21702517 original size:16 final size:16
Alignment explanation
Indices: 21702496--21702541 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
21702486 TTATTAAATT
21702496 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
21702512 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
21702527 AT-TATGTTAAATTAT
1 ATATAT-TTTAATTAT
21702542 CTTTTATAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.44
16 12 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:21702642 original size:15 final size:15
Alignment explanation
Indices: 21702607--21702658 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
21702597 TTAAGAATTT
*
21702607 TATTAAATTAT-ATA
1 TATTTAATTATAATA
21702621 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
21702635 TATTTAATAATAAT-
1 TATTTAATTATAATA
21702649 TATGTTAATT
1 TAT-TTAATT
21702659 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:21702739 original size:59 final size:60
Alignment explanation
Indices: 21702436--21702739 Score: 176
Period size: 59 Copynumber: 5.1 Consensus size: 60
21702426 TATAGTATCA
*
21702436 TATATTATGATTTGAGTAAATTCATATAAGAATATTA-ATTATTAAGAATTTTATTAAAT
1 TATATTATGATTTGAGTAAATTCATATAACAATATTAGATTATTAAGAATTTTATTAAAT
* * * * ** *
21702495 TATA-TAT--TTTAATTATAATAT-ATTTAATAATAATTATG-TTA--AATTATCTTT-TATAGT
1 TATATTATGATTTGAGTA-AAT-TCATATAACAAT-ATTA-GATTATTAAGAAT-TTTAT-TA-A
21702552 AT
59 AT
*
21702554 CATATATTATGATTTGAGTAAATTCATATAAGAATATTA-ATTATTAAGAATTTTATTAAAT
1 --TATATTATGATTTGAGTAAATTCATATAACAATATTAGATTATTAAGAATTTTATTAAAT
* * * * * * *
21702615 TATA-TAT--TTTAATTATAATAT-ATTTAATAATAATTATG-TTAATTTA-TATTTTA-TAGTA
1 TATATTATGATTTGAGTA-AAT-TCATATAACAAT-ATTA-GATT-ATTAAGAATTTTATTA-AA
21702673 T
60 T
*
21702674 CATATATTATGATTTGAGTAAATTCATATAACAATA-TAGACTATTAAGAATTTTATTAAAT
1 --TATATTATGATTTGAGTAAATTCATATAACAATATTAGATTATTAAGAATTTTATTAAAT
21702735 TATAT
1 TATAT
21702740 ATTTTAATTA
Statistics
Matches: 182, Mismatches: 29, Indels: 68
0.65 0.10 0.24
Matches are distributed among these distances:
56 12 0.07
57 27 0.15
58 23 0.13
59 28 0.15
60 9 0.05
61 24 0.13
62 20 0.11
63 27 0.15
64 12 0.07
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (60 bp):
TATATTATGATTTGAGTAAATTCATATAACAATATTAGATTATTAAGAATTTTATTAAAT
Found at i:21702757 original size:16 final size:16
Alignment explanation
Indices: 21702736--21702777 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
21702726 TTATTAAATT
*
21702736 ATATATTTTAATTATA
1 ATATATTTTAATAATA
21702752 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
21702767 AT-TATGTTTAA
1 ATATAT-TTTAA
21702778 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:21702762 original size:15 final size:15
Alignment explanation
Indices: 21702727--21702768 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
21702717 TTAAGAATTT
*
21702727 TATTAAATTAT-ATA
1 TATTTAATTATAATA
21702741 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
21702755 TATTTAATAATAAT
1 TATTTAATTATAAT
21702769 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:21704403 original size:2 final size:2
Alignment explanation
Indices: 21704396--21704420 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
21704386 CAACTTATTT
21704396 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
21704421 TACTCACTAA
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:21708914 original size:21 final size:21
Alignment explanation
Indices: 21708875--21708929 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
21708865 TCAAGAAATC
*
21708875 TTTAACGAAACTTTAAAGTAAG
1 TTTAA-GAACCTTTAAAGTAAG
*
21708897 TTTAAGAACCTTTTAAGTAAG
1 TTTAAGAACCTTTAAAGTAAG
*
21708918 TTTAGGAACCTT
1 TTTAAGAACCTT
21708930 CTAATCATGT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 25 0.83
22 5 0.17
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (21 bp):
TTTAAGAACCTTTAAAGTAAG
Found at i:21713318 original size:21 final size:20
Alignment explanation
Indices: 21713294--21713332 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
21713284 TCTTTCTTCA
*
21713294 CATAAAATATTTAAAAAAATT
1 CATAAAAT-TGTAAAAAAATT
21713315 CATAAAATTGTAAAAAAA
1 CATAAAATTGTAAAAAAA
21713333 AAAGTTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.64, C:0.05, G:0.03, T:0.28
Consensus pattern (20 bp):
CATAAAATTGTAAAAAAATT
Found at i:21722790 original size:17 final size:17
Alignment explanation
Indices: 21722770--21722802 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
21722760 TTTTAATTGT
*
21722770 TTTTATATTTTTTTTAG
1 TTTTATATCTTTTTTAG
21722787 TTTTATATCTTTTTTA
1 TTTTATATCTTTTTTA
21722803 AATTCTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTTATATCTTTTTTAG
Found at i:21722916 original size:17 final size:18
Alignment explanation
Indices: 21722894--21722938 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
21722884 ATAATTTTTC
21722894 TAAATTTTTGTA-ATATT
1 TAAATTTTTGTATATATT
* *
21722911 TAAATTTTTTTATATTTT
1 TAAATTTTTGTATATATT
21722929 TATAATTTTT
1 TA-AATTTTT
21722939 AAAAATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 11 0.46
18 6 0.25
19 7 0.29
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (18 bp):
TAAATTTTTGTATATATT
Found at i:21722936 original size:9 final size:9
Alignment explanation
Indices: 21722729--21722952 Score: 75
Period size: 9 Copynumber: 24.2 Consensus size: 9
21722719 AAGTTTCTAC
21722729 ATTTTTATA
1 ATTTTTATA
21722738 ACTTTTTAATA
1 A-TTTTT-ATA
* *
21722749 ACTTTTATTT
1 ATTTTTA-TA
* *
21722759 ATTTTAATT
1 ATTTTTATA
*
21722768 GTTTTTAT-
1 ATTTTTATA
* *
21722776 ATTTTTTTT
1 ATTTTTATA
*
21722785 AGTTTTAT-
1 ATTTTTATA
*
21722793 ATCTTTTTTA
1 AT-TTTTATA
* *
21722803 AATTCTATA
1 ATTTTTATA
*
21722812 ATTTCTA-A
1 ATTTTTATA
21722820 ATTTTTTATA
1 A-TTTTTATA
21722830 ATATTTTCAT-
1 AT-TTTT-ATA
*
21722840 ATTCTTCATAA
1 ATT-TTTAT-A
* *
21722851 CATATTAATA
1 -ATTTTTATA
21722861 ATATTTTATA
1 AT-TTTTATA
* *
21722871 ATATTCAT-
1 ATTTTTATA
21722879 -TTTTTATA
1 ATTTTTATA
*
21722887 ATTTTTCTAA
1 ATTTTTAT-A
*
21722897 ATTTTTGTA
1 ATTTTTATA
*
21722906 ATATTTA-A
1 ATTTTTATA
*
21722914 ATTTTTTTA
1 ATTTTTATA
21722923 TATTTTTATA
1 -ATTTTTATA
*
21722933 ATTTTTAAA
1 ATTTTTATA
*
21722942 AATTTTATA
1 ATTTTTATA
21722951 AT
1 AT
21722953 ATGTTAATAA
Statistics
Matches: 158, Mismatches: 37, Indels: 40
0.67 0.16 0.17
Matches are distributed among these distances:
7 5 0.03
8 15 0.09
9 76 0.48
10 50 0.32
11 10 0.06
12 2 0.01
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.62
Consensus pattern (9 bp):
ATTTTTATA
Found at i:21723008 original size:30 final size:31
Alignment explanation
Indices: 21722974--21723060 Score: 106
Period size: 35 Copynumber: 2.7 Consensus size: 31
21722964 TGTTATGCTT
21722974 AAATAATTAAAAATCAATTAAACA-CTTCTA
1 AAATAATTAAAAATCAATTAAACACCTTCTA
*
21723004 AAATAATTTTAAAAAAAATCAATT-AACACCTTGTA
1 AAATAA--TT---AAAAATCAATTAAACACCTTCTA
21723039 AAATAATTAAAAATCAATTAAA
1 AAATAATTAAAAATCAATTAAA
21723061 TCCTCCGTAT
Statistics
Matches: 49, Mismatches: 1, Indels: 13
0.78 0.02 0.21
Matches are distributed among these distances:
30 17 0.35
31 2 0.04
32 2 0.04
33 2 0.04
34 4 0.08
35 22 0.45
ACGTcount: A:0.59, C:0.10, G:0.01, T:0.30
Consensus pattern (31 bp):
AAATAATTAAAAATCAATTAAACACCTTCTA
Found at i:21723665 original size:3 final size:3
Alignment explanation
Indices: 21723657--21723682 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
21723647 TTTGGCTTTA
21723657 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
21723683 GCTTAAAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:21724591 original size:19 final size:19
Alignment explanation
Indices: 21724563--21724609 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
21724553 CAAAAATAAC
21724563 AAAATAAAAATAAAATTTAT
1 AAAATAAAAATAAAA-TTAT
21724583 AAAATAAAAATAAAATTAT
1 AAAATAAAAATAAAATTAT
21724602 AAACATAA
1 AAA-ATAA
21724610 TATACTAGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 7 0.27
20 19 0.73
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (19 bp):
AAAATAAAAATAAAATTAT
Found at i:21726123 original size:6 final size:6
Alignment explanation
Indices: 21726114--21726141 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
21726104 TATTTGAATT
21726114 TATTTA TATTTA TATTTA TATTTA TATT
1 TATTTA TATTTA TATTTA TATTTA TATT
21726142 ATAACGAAAG
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TATTTA
Found at i:21726177 original size:24 final size:24
Alignment explanation
Indices: 21726150--21726198 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
21726140 TTATAACGAA
21726150 AGCATTCATCATTTGAACAAAAAC
1 AGCATTCATCATTTGAACAAAAAC
21726174 AGCATTCATCATTTGAACAAAAAC
1 AGCATTCATCATTTGAACAAAAAC
21726198 A
1 A
21726199 AGTTTAGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.47, C:0.20, G:0.08, T:0.24
Consensus pattern (24 bp):
AGCATTCATCATTTGAACAAAAAC
Found at i:21729945 original size:217 final size:217
Alignment explanation
Indices: 21729291--21731011 Score: 1873
Period size: 217 Copynumber: 7.9 Consensus size: 217
21729281 TTTTAGGGAT
* * * * * * *
21729291 ATGAGTGACAACCTTGAAAGGTCAACTGGTA-TTATGATCAACGTACGTTAGGAACATGTGTGGT
1 ATGAGTGACGACCTTGAAA-GTCAATTGATACTTATAATTAACATATGTTAGGAACATGTGTGGT
* ** * *
21729355 AATAAGCATTTTGATTTTTTGGTTTTTGTGACTTTTGCATTAATAAAAGTGATACATGTTTCCAT
65 AATAAGCATTCTGATTTTTTGGGATTTGTGACTTTTACATTAATAAATGTGATACATGTTTCCAT
* * **
21729420 GTGATTGAGTATTGAAGCGATATGACAATTATTAACTTTTCCACATATTTATTGTCGGCTTGTTA
130 GTGATTGAGTATTGAAGCGATATGACAATCATTAACTTTTCCTCATATTTATTGTCGATTTGTTA
* *
21729485 GTGAGCAGCCATAACATTGGGAAC
195 GTGA-CAGTCATAACGTTGGGAAC
* * * * * **
21729509 ATGAGTGACGACCTTGAAAGGTCAATTGGTACTTATGATTAGCATACGTTGGGAACATGCATGGT
1 ATGAGTGACGACCTTGAAA-GTCAATTGATACTTATAATTAACATATGTTAGGAACATGTGTGGT
* * * * * * * * * *
21729574 AATAAGCGTTTTAATTTTTTGGGTTTTGCGACTTTTTCATGAATAAATGTGATACACGTTTCTAA
65 AATAAGCATTCTGATTTTTTGGGATTTGTGACTTTTACATTAATAAATGTGATACATGTTTCCAT
* * * *
21729639 GTGACTGAGTA-TGAAGCAATGTGACAATCATTAACTTTTCCTCATATTTATTGTTGATTTGTTA
130 GTGATTGAGTATTGAAGCGATATGACAATCATTAACTTTTCCTCATATTTATTGTCGATTTGTTA
* *
21729703 GTGAACAGTCAGAACATTGGGAAC
195 GTG-ACAGTCATAACGTTGGGAAC
* *
21729727 ATGAGTGACAACCTTGAAAGTCAATTGATACTTATAATTAACATATGTTAGGAACATGTGCGGTA
1 ATGAGTGACGACCTTGAAAGTCAATTGATACTTATAATTAACATATGTTAGGAACATGTGTGGTA
** * * ** * ** *
21729792 ATAAGTGTTTTGATTTTTAGGGATTTACGACTTTTTCATTAATAAATGTGATACACATTTTCATG
66 ATAAGCATTCTGATTTTTTGGGATTTGTGACTTTTACATTAATAAATGTGATACATGTTTCCATG
** * * * * *
21729857 TGACCGAGTATTGAAGCGACACGACAATTATTAACTTTAT-CTCGTATTTATTGTCGATTTGCTA
131 TGATTGAGTATTGAAGCGATATGACAATCATTAACTTT-TCCTCATATTTATTGTCGATTTGTTA
* * * *
21729921 GTGATAGTTATAACATTAGGAAC
195 GTGACAGTCATAACGTTGGGAAC
** * * **
21729944 ATGAGTGGTGACTTTGAAAGTCAACT-AGTACTTATAATTAACATATGTTAGGAACATGCATGGT
1 ATGAGTGACGACCTTGAAAGTCAATTGA-TACTTATAATTAACATATGTTAGGAACATGTGTGGT
* * ** * *
21730008 AATAAACTTTCTGATTTTCAGGGATTTGTGACTTTAACATTAATGAATGTGATACATGTTTCCAT
65 AATAAGCATTCTGATTTTTTGGGATTTGTGACTTTTACATTAATAAATGTGATACATGTTTCCAT
** * * * * * *
21730073 GTGATTGAACACTAAAGCAAT-TCGACAATCATTAACTTTTGCACATACTTATTGTCGATTTGTT
130 GTGATTGAGTATTGAAGCGATAT-GACAATCATTAACTTTTCCTCATATTTATTGTCGATTTGTT
* *
21730137 AGTAAGCAGCCATAACGTTGGGAAC
194 AGTGA-CAGTCATAACGTTGGGAAC
* * * * * * **
21730162 ATGA-TGACGACCTTGAAAGGTCAATTGGTATTTATGATTAGCATACGTTGGGAACATACGTGGT
1 ATGAGTGACGACCTTGAAA-GTCAATTGATACTTATAATTAACATATGTTAGGAACATGTGTGGT
* * * * *
21730226 AATAAGCATTTTGATTTTTTGGGTTTTGCGACTTTTGCATTAATAAATGCGATACATGTTTCCAT
65 AATAAGCATTCTGATTTTTTGGGATTTGTGACTTTTACATTAATAAATGTGATACATGTTTCCAT
* * * * * ** *
21730291 ATGATTGATTATAGAAGCGATGTGACAATCATTAAATTTTCCTTGTATTTATTTTCGATTTGTTA
130 GTGATTGAGTATTGAAGCGATATGACAATCATTAACTTTTCCTCATATTTATTGTCGATTTGTTA
*
21730356 GTGA-ATGGTCAGAACGTTGGGAAC
195 GTGACA--GTCATAACGTTGGGAAC
* * * * * *
21730380 ATGAGTAACCACCTTGAAAGTTAATTGGTACTTATAATTAACGTATGTTAAGAACATGTGTGGTA
1 ATGAGTGACGACCTTGAAAGTCAATTGATACTTATAATTAACATATGTTAGGAACATGTGTGGTA
* * * * *
21730445 ACAAGCGTTCTGATTTTTTGGGATTTGTAACTTTTGCGTTAATAAATGTGATGCACAT-TTT-CA
66 ATAAGCATTCTGATTTTTTGGGATTTGTGACTTTTACATTAATAAATGTGAT--ACATGTTTCCA
* * * *
21730508 TGTGATTGAGTATTGAATCGATAT-AGCAATCATTAACTTTTCCTCACATTTATTGTTGATTTGC
129 TGTGATTGAGTATTGAAGCGATATGA-CAATCATTAACTTTTCCTCATATTTATTGTCGATTTGT
*
21730572 TAGTGACCGTCATAACGTTGGGAAC
193 TAGTGACAGTCATAACGTTGGGAAC
* **
21730597 ATGAGTGACGACCTTGAAAGTCAACT-AGTACTTATAATTAATGTATGTTAGGAACATGTGTGGT
1 ATGAGTGACGACCTTGAAAGTCAATTGA-TACTTATAATTAACATATGTTAGGAACATGTGTGGT
** * *
21730661 AATAAGCATTCTGATTTTCGGGGATTTGTGACTTTTACATTAATGAATGTGATACATGTTTTCAT
65 AATAAGCATTCTGATTTTTTGGGATTTGTGACTTTTACATTAATAAATGTGATACATGTTTCCAT
* * * * *
21730726 GAGATTGAATATTGAAGCGATATGACAATCATTAACTTTTCCTCATATTTATTATTGATTTGCTA
130 GTGATTGAGTATTGAAGCGATATGACAATCATTAACTTTTCCTCATATTTATTGTCGATTTGTTA
*
21730791 GTGACAGTTATAACGTTGGGAAC
195 GTGACAGTCATAACGTTGGGAAC
* *
21730814 ATGAGTGACGACCTTGAAAGTCAAAT-AGTACTTATAATTAACGTATGTTAGGAACATGTGTGGT
1 ATGAGTGACGACCTTGAAAGTCAATTGA-TACTTATAATTAACATATGTTAGGAACATGTGTGGT
** *
21730878 AATAAGCATTCTGATTTTCAGGGATTTGTGACTTTTACATTAATGAATGTGATACATGTTTCCAT
65 AATAAGCATTCTGATTTTTTGGGATTTGTGACTTTTACATTAATAAATGTGATACATGTTTCCAT
* * * * * * *
21730943 GTGATTGAATATTGAAGCGATATGACAATCATTAACTTTTGCACATACTTATTATCGGTTTGGTA
130 GTGATTGAGTATTGAAGCGATATGACAATCATTAACTTTTCCTCATATTTATTGTCGATTTGTTA
21731008 GTGA
195 GTGA
21731012 ACAGACGTAA
Statistics
Matches: 1273, Mismatches: 208, Indels: 45
0.83 0.14 0.03
Matches are distributed among these distances:
215 4 0.00
216 6 0.00
217 673 0.53
218 476 0.37
219 110 0.09
220 4 0.00
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (217 bp):
ATGAGTGACGACCTTGAAAGTCAATTGATACTTATAATTAACATATGTTAGGAACATGTGTGGTA
ATAAGCATTCTGATTTTTTGGGATTTGTGACTTTTACATTAATAAATGTGATACATGTTTCCATG
TGATTGAGTATTGAAGCGATATGACAATCATTAACTTTTCCTCATATTTATTGTCGATTTGTTAG
TGACAGTCATAACGTTGGGAAC
Found at i:21730545 original size:653 final size:653
Alignment explanation
Indices: 21729291--21731015 Score: 2237
Period size: 653 Copynumber: 2.6 Consensus size: 653
21729281 TTTTAGGGAT
* * * * *
21729291 ATGAGTGACAACCTTGAAAGGTCAACTGGTA-TTATGATCAACGTACGTTAGGAACATGTGTGGT
1 ATGAGTGACGACCTTGAAA-GTCAACTAGTACTTATAATTAACGTATGTTAGGAACATGTGTGGT
** ** * * *
21729355 AATAAGCATTT-TGATTTTTTGGTTTTTGTGACTTTTGCATTAATAAAAGTGATACATGTTTCCA
65 AATAAGC-TTTCTGATTTTCAGGGATTTGTGACTTTTACATTAATGAATGTGATACATGTTTCCA
* * **
21729419 TGTGATTGAGTATTGAAGCGATATGACAATTATTAACTTTTCCACATATTTATTGTCGGCTTGTT
129 TGTGATTGAATATTGAAGCGATATGACAATCATTAACTTTTCCACATATTTATTGTCGATTTGTT
*
21729484 AGTGAGCAGCCATAACATTGGGAACATGAGTGACGACCTTGAAAGGTCAATTGGTACTTATGATT
194 AGTGAGCAGCCATAACGTTGGGAACATGAGTGACGACCTTGAAAGGTCAATTGGTACTTATGATT
* * * *
21729549 AGCATACGTTGGGAACATGCATGGTAATAAGCGTTTTAATTTTTTGGGTTTTGCGACTTTTTCAT
259 AGCATACGTTGGGAACATGCGTGGTAATAAGCATTTTGATTTTTTGGGTTTTGCGACTTTTACAT
* * * * * *
21729614 GAATAAATGTGATACACGTTTCTA-AGTGACTGAGTATGAAGCAATGTGACAATCATTAACTTTT
324 TAATAAATGTGATACATGTTTCCATA-TGATTGAATATGAAGCGATGTGACAATCATTAACTTTT
*
21729678 CCTCATATTTATTGTTGATTTGTTAGTGAACAGTCAGAACATTGGGAACATGAGTGACAACCTTG
388 CCTCATATTTATTGTTGATTTGTTAGTGAACAGTCAGAACATTGGGAACATGAGTAACAACCTTG
* * * *
21729743 AAAGTCAATTGATACTTATAATTAACATATGTTAGGAACATGTGCGGTAATAAGTGTTTTGATTT
453 AAAGTCAATTGATACTTATAATTAACATATGTTAAGAACATGTGCGGTAACAAGCGTTCTGATTT
* *
21729808 TTAGGGATTTACGACTTTTTCATTAATAAATGTGATACACATTTTCATGTGACCGAGTATTGAAG
518 TTAGGGATTTACAACTTTTGCATTAATAAATGTGATACACATTTTCATGTGACCGAGTATTGAAG
* * ** * *
21729873 CGACACGACAATTATTAACTTTAT-CTCGTATTTATTGTCGATTTGCTAGTGATAGTTATAACAT
583 CGACAAGACAATCATTAACTTT-TCCTCACATTTATTGTCGATTTGCTAGTGACAGTCATAACAT
21729937 TAGGAAC
647 TAGGAAC
** * * **
21729944 ATGAGTGGTGACTTTGAAAGTCAACTAGTACTTATAATTAACATATGTTAGGAACATGCATGGTA
1 ATGAGTGACGACCTTGAAAGTCAACTAGTACTTATAATTAACGTATGTTAGGAACATGTGTGGTA
* *
21730009 ATAAACTTTCTGATTTTCAGGGATTTGTGACTTTAACATTAATGAATGTGATACATGTTTCCATG
66 ATAAGCTTTCTGATTTTCAGGGATTTGTGACTTTTACATTAATGAATGTGATACATGTTTCCATG
* * * * * *
21730074 TGATTGAACACTAAAGCAAT-TCGACAATCATTAACTTTTGCACATACTTATTGTCGATTTGTTA
131 TGATTGAATATTGAAGCGATAT-GACAATCATTAACTTTTCCACATATTTATTGTCGATTTGTTA
* *
21730138 GTAAGCAGCCATAACGTTGGGAACATGA-TGACGACCTTGAAAGGTCAATTGGTATTTATGATTA
195 GTGAGCAGCCATAACGTTGGGAACATGAGTGACGACCTTGAAAGGTCAATTGGTACTTATGATTA
* *
21730202 GCATACGTTGGGAACATACGTGGTAATAAGCATTTTGATTTTTTGGGTTTTGCGACTTTTGCATT
260 GCATACGTTGGGAACATGCGTGGTAATAAGCATTTTGATTTTTTGGGTTTTGCGACTTTTACATT
* * *
21730267 AATAAATGCGATACATGTTTCCATATGATTGATTATAGAAGCGATGTGACAATCATTAAATTTTC
325 AATAAATGTGATACATGTTTCCATATGATTGAATAT-GAAGCGATGTGACAATCATTAACTTTTC
** ** * *
21730332 CTTGTATTTATT-TTCGATTTGTTAGTGAATGGTCAGAACGTTGGGAACATGAGTAACCACCTTG
389 CTCATATTTATTGTT-GATTTGTTAGTGAACAGTCAGAACATTGGGAACATGAGTAACAACCTTG
* * * *
21730396 AAAGTTAATTGGTACTTATAATTAACGTATGTTAAGAACATGTGTGGTAACAAGCGTTCTGATTT
453 AAAGTCAATTGATACTTATAATTAACATATGTTAAGAACATGTGCGGTAACAAGCGTTCTGATTT
* ** * * ** *
21730461 TTTGGGATTTGTAACTTTTGCGTTAATAAATGTGATGCACATTTTCATGTGATTGAGTATTGAAT
518 TTAGGGATTTACAACTTTTGCATTAATAAATGTGATACACATTTTCATGTGACCGAGTATTGAAG
* * * *
21730526 CGATATAG-CAATCATTAACTTTTCCTCACATTTATTGTTGATTTGCTAGTGACCGTCATAACGT
583 CGACA-AGACAATCATTAACTTTTCCTCACATTTATTGTCGATTTGCTAGTGACAGTCATAACAT
*
21730590 TGGGAAC
647 TAGGAAC
*
21730597 ATGAGTGACGACCTTGAAAGTCAACTAGTACTTATAATTAATGTATGTTAGGAACATGTGTGGTA
1 ATGAGTGACGACCTTGAAAGTCAACTAGTACTTATAATTAACGTATGTTAGGAACATGTGTGGTA
* * *
21730662 ATAAGCATTCTGATTTTCGGGGATTTGTGACTTTTACATTAATGAATGTGATACATGTTTTCATG
66 ATAAGCTTTCTGATTTTCAGGGATTTGTGACTTTTACATTAATGAATGTGATACATGTTTCCATG
* * * * *
21730727 AGATTGAATATTGAAGCGATATGACAATCATTAACTTTTCCTCATATTTATTATTGATTTGCTAG
131 TGATTGAATATTGAAGCGATATGACAATCATTAACTTTTCCACATATTTATTGTCGATTTGTTAG
** * * * *
21730792 TGA-CAGTTATAACGTTGGGAACATGAGTGACGACCTTGAAA-GTCAAATAGTACTTATAATTAA
196 TGAGCAGCCATAACGTTGGGAACATGAGTGACGACCTTGAAAGGTCAATTGGTACTTATGATTAG
* * * * * ** * *
21730855 CGTATGTTAGGAACATGTGTGGTAATAAGCATTCTGATTTTCAGGGATTTGTGACTTTTACATTA
261 CATACGTTGGGAACATGCGTGGTAATAAGCATTTTGATTTTTTGGGTTTTGCGACTTTTACATTA
* * * *
21730920 ATGAATGTGATACATGTTTCCATGTGATTGAATATTGAAGCGATATGACAATCATTAACTTTTGC
326 ATAAATGTGATACATGTTTCCATATGATTGAATA-TGAAGCGATGTGACAATCATTAACTTTTCC
* * * * * *
21730985 ACATACTTATTATCGGTTTGGTAGTGAACAG
390 TCATATTTATTGTTGATTTGTTAGTGAACAG
21731016 ACGTAACTCT
Statistics
Matches: 920, Mismatches: 140, Indels: 25
0.85 0.13 0.02
Matches are distributed among these distances:
652 308 0.33
653 610 0.66
654 2 0.00
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (653 bp):
ATGAGTGACGACCTTGAAAGTCAACTAGTACTTATAATTAACGTATGTTAGGAACATGTGTGGTA
ATAAGCTTTCTGATTTTCAGGGATTTGTGACTTTTACATTAATGAATGTGATACATGTTTCCATG
TGATTGAATATTGAAGCGATATGACAATCATTAACTTTTCCACATATTTATTGTCGATTTGTTAG
TGAGCAGCCATAACGTTGGGAACATGAGTGACGACCTTGAAAGGTCAATTGGTACTTATGATTAG
CATACGTTGGGAACATGCGTGGTAATAAGCATTTTGATTTTTTGGGTTTTGCGACTTTTACATTA
ATAAATGTGATACATGTTTCCATATGATTGAATATGAAGCGATGTGACAATCATTAACTTTTCCT
CATATTTATTGTTGATTTGTTAGTGAACAGTCAGAACATTGGGAACATGAGTAACAACCTTGAAA
GTCAATTGATACTTATAATTAACATATGTTAAGAACATGTGCGGTAACAAGCGTTCTGATTTTTA
GGGATTTACAACTTTTGCATTAATAAATGTGATACACATTTTCATGTGACCGAGTATTGAAGCGA
CAAGACAATCATTAACTTTTCCTCACATTTATTGTCGATTTGCTAGTGACAGTCATAACATTAGG
AAC
Found at i:21730980 original size:870 final size:871
Alignment explanation
Indices: 21729291--21731009 Score: 2347
Period size: 870 Copynumber: 2.0 Consensus size: 871
21729281 TTTTAGGGAT
* **
21729291 ATGAGTGACAACCTTGAAAGGTCAACTGGTATTATGATCAACGTACGTTAGGAACATGTGTGGTA
1 ATGAGTGACAACCTTGAAAGGTCAACTGGTATTATGATCAACATACGTTAGGAACATACGTGGTA
* * * *
21729356 ATAAGCATTTTGATTTTTTGGTTTTTGTGACTTTTGCATTAATAAAAGTGATACATGTTTCCATG
66 ATAAGCATTTTGATTTTTTGGGTTTTGCGACTTTTGCATTAATAAAAGCGATACATGTTTCCATA
* * * *
21729421 TGATTGAGTATTGAAGCGATATGACAATTATTAACTTTTCCACATATTTATTGTCGGCTTGTTAG
131 TGATTGAGTATAGAAGCGATATGACAATCATTAAATTTTCCACATATTTATTGTCGACTTGTTAG
* * * * * *
21729486 TGAGCAGCCATAACATTGGGAACATGAGTGACGACCTTGAAAGGTCAATTGGTACTTATGATTAG
196 TGAACAGCCAGAACATTGGGAACATGAGTAACCACCTTGAAAGGTCAATTGGTACTTATAATTAA
** * * * * *
21729551 CATACGTTGGGAACATGCATGGTAATAAGCGTTTTAATTTTTTGGGTTTTGCGACTTTTTCATGA
261 CATACGTTAAGAACATGCATGGTAACAAGCGTTCTAATTTTTTGGGATTTGCAACTTTTGCATGA
*
21729616 ATAAATGTGATACACGTTTCTAAGTGACTGAGTATGAAGCAATGTGACAATCATTAACTTTTCCT
326 ATAAATGTGATACACGTTTCTAAGTGACTGAGTATGAAGCAATATGACAATCATTAACTTTTCCT
* *
21729681 CATATTTATTGTTGATTTGTTAGTGAACAGTCAGAACATTGGGAACATGAGTGACAACCTTGAAA
391 CACATTTATTGTTGATTTGCTAGTGAACAGTCAGAACATTGGGAACATGAGTGACAACCTTGAAA
* ** * *
21729746 GTCAATTGATACTTATAATTAACATATGTTAGGAACATGTGCGGTAATAAGTGTTTTGATTTTTA
456 GTCAATAGATACTTATAATTAACATATGTTAGGAACATGTGCGGTAATAAGCATTCTGATTTTCA
* * *
21729811 GGGATTTACGACTTTTTCATTAATAAATGTGATACACATTTTCATGTGACCGAGTATTGAAGCGA
521 GGGATTTACGACTTTTACATTAATAAATGTGATACACATTTTCATGAGACCGAATATTGAAGCGA
* * * *
21729876 CACGACAATTATTAACTTTATCTCGTATTTATTGTCGATTTGCTAGTGATAGTTATAACATTAGG
586 CACGACAATCATTAACTTTATCTCATATTTATTATCGATTTGCTAGTGACAGTTATAACATTAGG
** * *
21729941 AACATGAGTGGTGACTTTGAAAGTCAACTAGTACTTATAATTAACATATGTTAGGAACATGCATG
651 AACATGAGTGACGACCTTGAAAGTCAAATAGTACTTATAATTAACATATGTTAGGAACATGCATG
*
21730006 GTAATAAACTTTCTGATTTTCAGGGATTTGTGACTTTAACATTAATGAATGTGATACATGTTTCC
716 GTAATAAACATTCTGATTTTCAGGGATTTGTGACTTTAACATTAATGAATGTGATACATGTTTCC
* *
21730071 ATGTGATTGAACACTAAAGCAATTCGACAATCATTAACTTTTGCACATACTTATTGTCGATTTGT
781 ATGTGATTGAACACTAAAGCAATTCGACAATCATTAACTTTTGCACATACTTATTATCGATTTGG
21730136 TAGTAAGCAGCCATAACGTTGGGAAC
846 TAGTAAGCAGCCATAACGTTGGGAAC
* * * * *
21730162 ATGA-TGACGACCTTGAAAGGTCAATTGGTATTTATGATTAGCATACGTTGGGAACATACGTGGT
1 ATGAGTGACAACCTTGAAAGGTCAACTGGTA-TTATGATCAACATACGTTAGGAACATACGTGGT
*
21730226 AATAAGCATTTTGATTTTTTGGGTTTTGCGACTTTTGCATTAATAAATGCGATACATGTTTCCAT
65 AATAAGCATTTTGATTTTTTGGGTTTTGCGACTTTTGCATTAATAAAAGCGATACATGTTTCCAT
* * *** * *
21730291 ATGATTGATTATAGAAGCGATGTGACAATCATTAAATTTTCCTTGTATTTATTTTCGATTTGTTA
130 ATGATTGAGTATAGAAGCGATATGACAATCATTAAATTTTCCACATATTTATTGTCGACTTGTTA
** * * *
21730356 GTGAATGGTCAGAACGTTGGGAACATGAGTAACCACCTTGAAA-GTTAATTGGTACTTATAATTA
195 GTGAACAGCCAGAACATTGGGAACATGAGTAACCACCTTGAAAGGTCAATTGGTACTTATAATTA
* * ** * * * *
21730420 ACGTATGTTAAGAACATGTGTGGTAACAAGCGTTCTGATTTTTTGGGATTTGTAACTTTTGCGTT
260 ACATACGTTAAGAACATGCATGGTAACAAGCGTTCTAATTTTTTGGGATTTGCAACTTTTGCATG
* * * * * *
21730485 AATAAATGTGATGCACATTT-TCATGTGATTGAGTATTGAATCGATAT-AGCAATCATTAACTTT
325 AATAAATGTGATACACGTTTCT-AAGTGACTGAGTA-TGAAGCAATATGA-CAATCATTAACTTT
* * * *
21730548 TCCTCACATTTATTGTTGATTTGCTAGTG-ACCGTCATAACGTTGGGAACATGAGTGACGACCTT
387 TCCTCACATTTATTGTTGATTTGCTAGTGAACAGTCAGAACATTGGGAACATGAGTGACAACCTT
** *
21730612 GAAAGTCAACTAG-TACTTATAATTAATGTATGTTAGGAACATGTGTGGTAATAAGCATTCTGAT
452 GAAAGTCAA-TAGATACTTATAATTAACATATGTTAGGAACATGTGCGGTAATAAGCATTCTGAT
* ** * ** **
21730676 TTTCGGGGATTTGTGACTTTTACATTAATGAATGTGATACATGTTTTCATGAGATTGAATATTGA
516 TTTCAGGGATTTACGACTTTTACATTAATAAATGTGATACACATTTTCATGAGACCGAATATTGA
* * *
21730741 AGCGATATGACAATCATTAACTTT-TCCTCATATTTATTATTGATTTGCTAGTGACAGTTATAAC
581 AGCGACACGACAATCATTAACTTTAT-CTCATATTTATTATCGATTTGCTAGTGACAGTTATAAC
* * *
21730805 GTTGGGAACATGAGTGACGACCTTGAAAGTCAAATAGTACTTATAATTAACGTATGTTAGGAACA
645 ATTAGGAACATGAGTGACGACCTTGAAAGTCAAATAGTACTTATAATTAACATATGTTAGGAACA
** * *
21730870 TGTGTGGTAATAAGCATTCTGATTTTCAGGGATTTGTGACTTTTACATTAATGAATGTGATACAT
710 TGCATGGTAATAAACATTCTGATTTTCAGGGATTTGTGACTTTAACATTAATGAATGTGATACAT
* * * *
21730935 GTTTCCATGTGATTGAATATTGAAGCGATAT-GACAATCATTAACTTTTGCACATACTTATTATC
775 GTTTCCATGTGATTGAACACTAAAGCAAT-TCGACAATCATTAACTTTTGCACATACTTATTATC
*
21730999 GGTTTGGTAGT
839 GATTTGGTAGT
21731010 GAACAGACGT
Statistics
Matches: 733, Mismatches: 108, Indels: 15
0.86 0.13 0.02
Matches are distributed among these distances:
869 2 0.00
870 499 0.68
871 232 0.32
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (871 bp):
ATGAGTGACAACCTTGAAAGGTCAACTGGTATTATGATCAACATACGTTAGGAACATACGTGGTA
ATAAGCATTTTGATTTTTTGGGTTTTGCGACTTTTGCATTAATAAAAGCGATACATGTTTCCATA
TGATTGAGTATAGAAGCGATATGACAATCATTAAATTTTCCACATATTTATTGTCGACTTGTTAG
TGAACAGCCAGAACATTGGGAACATGAGTAACCACCTTGAAAGGTCAATTGGTACTTATAATTAA
CATACGTTAAGAACATGCATGGTAACAAGCGTTCTAATTTTTTGGGATTTGCAACTTTTGCATGA
ATAAATGTGATACACGTTTCTAAGTGACTGAGTATGAAGCAATATGACAATCATTAACTTTTCCT
CACATTTATTGTTGATTTGCTAGTGAACAGTCAGAACATTGGGAACATGAGTGACAACCTTGAAA
GTCAATAGATACTTATAATTAACATATGTTAGGAACATGTGCGGTAATAAGCATTCTGATTTTCA
GGGATTTACGACTTTTACATTAATAAATGTGATACACATTTTCATGAGACCGAATATTGAAGCGA
CACGACAATCATTAACTTTATCTCATATTTATTATCGATTTGCTAGTGACAGTTATAACATTAGG
AACATGAGTGACGACCTTGAAAGTCAAATAGTACTTATAATTAACATATGTTAGGAACATGCATG
GTAATAAACATTCTGATTTTCAGGGATTTGTGACTTTAACATTAATGAATGTGATACATGTTTCC
ATGTGATTGAACACTAAAGCAATTCGACAATCATTAACTTTTGCACATACTTATTATCGATTTGG
TAGTAAGCAGCCATAACGTTGGGAAC
Found at i:21748643 original size:20 final size:21
Alignment explanation
Indices: 21748609--21748647 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
21748599 AAATACAATT
21748609 ATAAAAATAAATAAAATTAAG
1 ATAAAAATAAATAAAATTAAG
*
21748630 ATAAAAAT-ATTAAAATTA
1 ATAAAAATAAATAAAATTA
21748648 TGTACTGGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (21 bp):
ATAAAAATAAATAAAATTAAG
Found at i:21750959 original size:19 final size:19
Alignment explanation
Indices: 21750922--21751010 Score: 76
Period size: 19 Copynumber: 4.7 Consensus size: 19
21750912 GTAAGAGAAA
* *
21750922 ACTAGCAAATATAGTGCAT
1 ACTAGCACATAAAGTGCAT
*
21750941 ACTAGCACATAAAGCGCAT
1 ACTAGCACATAAAGTGCAT
*
21750960 CCTAGTGCACA-AAA-TGCAT
1 ACTA--GCACATAAAGTGCAT
**
21750979 ACTAGCACACGAAGTGCAT
1 ACTAGCACATAAAGTGCAT
21750998 ACT-GACACATAAA
1 ACTAG-CACATAAA
21751011 ACGCATCCTG
Statistics
Matches: 56, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
17 5 0.09
18 3 0.05
19 40 0.71
20 3 0.05
21 5 0.09
ACGTcount: A:0.42, C:0.24, G:0.16, T:0.19
Consensus pattern (19 bp):
ACTAGCACATAAAGTGCAT
Found at i:21752652 original size:3 final size:3
Alignment explanation
Indices: 21752646--21752702 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
21752636 AGTAGTAGAC
21752646 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
21752694 GAA GAA GAA
1 GAA GAA GAA
21752703 AGCTTGATTC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:21752842 original size:4 final size:4
Alignment explanation
Indices: 21752833--21752894 Score: 115
Period size: 4 Copynumber: 15.5 Consensus size: 4
21752823 TTTATGTTAC
*
21752833 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ACAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
21752881 ATAA ATAA ATAA AT
1 ATAA ATAA ATAA AT
21752895 GATGTTGATT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
4 56 1.00
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:21754466 original size:18 final size:18
Alignment explanation
Indices: 21754431--21754474 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
21754421 ATTTTAATTT
* *
21754431 TGAAAGTAAGAATAAAAA
1 TGAAAATAACAATAAAAA
*
21754449 TGAAAATAACAATTAAAA
1 TGAAAATAACAATAAAAA
*
21754467 TAAAAATA
1 TGAAAATA
21754475 TTAAAAGTTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.68, C:0.02, G:0.09, T:0.20
Consensus pattern (18 bp):
TGAAAATAACAATAAAAA
Found at i:21755043 original size:14 final size:14
Alignment explanation
Indices: 21755024--21755063 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
21755014 TTGATTGGCA
21755024 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
21755038 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
21755052 GGAAAATGTTTT
1 GTAAAATGTTTT
21755064 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:21755072 original size:20 final size:20
Alignment explanation
Indices: 21755047--21755086 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
21755037 CGTAAAATGA
*
21755047 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
21755067 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
21755087 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:21755076 original size:34 final size:35
Alignment explanation
Indices: 21755032--21755098 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
21755022 CAGTAAAATG
*
21755032 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
21755066 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
21755099 CTAGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:21755210 original size:20 final size:20
Alignment explanation
Indices: 21755185--21755223 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
21755175 GTTTTTACAT
21755185 ATATTAATAAATTTATATAC
1 ATATTAATAAATTTATATAC
*
21755205 ATATTAATAAATTTTTATA
1 ATATTAATAAATTTATATA
21755224 TTTTAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTAATAAATTTATATAC
Found at i:21755283 original size:15 final size:15
Alignment explanation
Indices: 21755254--21755306 Score: 52
Period size: 17 Copynumber: 3.2 Consensus size: 15
21755244 TATTGCAATG
*
21755254 ATTTATTTATAAATAA
1 ATTT-TTTATTAATAA
21755270 ATTTTTTATTAATAAA
1 ATTTTTTATTAAT-AA
21755286 AGTTTTTTATCTAATTAA
1 A-TTTTTTAT-TAA-TAA
21755304 ATT
1 ATT
21755307 CCAAATGTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
15 8 0.25
16 7 0.22
17 10 0.31
18 6 0.19
19 1 0.03
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (15 bp):
ATTTTTTATTAATAA
Found at i:21757993 original size:11 final size:11
Alignment explanation
Indices: 21757977--21758002 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
21757967 AACCATCTGT
21757977 ATATAACCAAA
1 ATATAACCAAA
21757988 ATATAACCAAA
1 ATATAACCAAA
21757999 ATAT
1 ATAT
21758003 CATCCAGCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (11 bp):
ATATAACCAAA
Found at i:21758306 original size:6 final size:6
Alignment explanation
Indices: 21758282--21758325 Score: 61
Period size: 6 Copynumber: 7.2 Consensus size: 6
21758272 GTTGCAATCC
* *
21758282 AAGGGG AAGGGA AAAGGG AAGGGG AAGGGG AAGGGG AAAGGGG A
1 AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG -AAGGGG A
21758326 GAAGAAGGCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
6 27 0.82
7 6 0.18
ACGTcount: A:0.41, C:0.00, G:0.59, T:0.00
Consensus pattern (6 bp):
AAGGGG
Found at i:21759577 original size:37 final size:38
Alignment explanation
Indices: 21759496--21759586 Score: 107
Period size: 37 Copynumber: 2.5 Consensus size: 38
21759486 TGGATGGAAG
* **
21759496 TAAA-TTTTAAAAGTT-AAATTTTTGAAAAATTAAATT
1 TAAATTTTTGAAAGTTAAAATTTTTGAAAAACAAAATT
* * *
21759532 TGATTTTTTTAAA-TTAAAATTTTTGAAAAACAAAATT
1 TAAATTTTTGAAAGTTAAAATTTTTGAAAAACAAAATT
21759569 TAAATTTTTGAAAGTTAA
1 TAAATTTTTGAAAGTTAA
21759587 GGAACTTTTT
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
36 4 0.09
37 36 0.82
38 4 0.09
ACGTcount: A:0.47, C:0.01, G:0.07, T:0.45
Consensus pattern (38 bp):
TAAATTTTTGAAAGTTAAAATTTTTGAAAAACAAAATT
Found at i:21759914 original size:37 final size:37
Alignment explanation
Indices: 21759872--21759943 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
21759862 CTGAGAATCG
*
21759872 TTACTGTTCATCTCCATTTTTTATTTGCAGAGAATTT
1 TTACTGTTCATCTCCATTTTTTATTTGCAAAGAATTT
* ** *
21759909 TTACTGTTTATCTCTGTTTTTTCTTTGCAAAGAAT
1 TTACTGTTCATCTCCATTTTTTATTTGCAAAGAAT
21759944 CACTCATGTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.21, C:0.15, G:0.11, T:0.53
Consensus pattern (37 bp):
TTACTGTTCATCTCCATTTTTTATTTGCAAAGAATTT
Found at i:21759959 original size:37 final size:37
Alignment explanation
Indices: 21759913--21760059 Score: 159
Period size: 37 Copynumber: 4.0 Consensus size: 37
21759903 GAATTTTTAC
* * * *
21759913 TGTTTATCTCTGTTTTTTCTTTGCAAAGAATCACTCA
1 TGTTCATCTCTGTCTTTTCTTTGTAGAGAATCACTCA
* * *
21759950 TGTTCATCTCAGTCTTTTCTTTGTAGAGAATCTCTCT
1 TGTTCATCTCTGTCTTTTCTTTGTAGAGAATCACTCA
* * * * *
21759987 TGTTCATCTTTATCTTTTCTTTATAGGGAATCACTCC
1 TGTTCATCTCTGTCTTTTCTTTGTAGAGAATCACTCA
* * *
21760024 TGTTCATATCTGTCTTTGCTTTGTAGGGAATCACTC
1 TGTTCATCTCTGTCTTTTCTTTGTAGAGAATCACTC
21760060 TTGCTTATCT
Statistics
Matches: 91, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 91 1.00
ACGTcount: A:0.18, C:0.20, G:0.14, T:0.48
Consensus pattern (37 bp):
TGTTCATCTCTGTCTTTTCTTTGTAGAGAATCACTCA
Found at i:21760077 original size:37 final size:37
Alignment explanation
Indices: 21759940--21760091 Score: 157
Period size: 37 Copynumber: 4.1 Consensus size: 37
21759930 TCTTTGCAAA
* *
21759940 GAATCACTCATGTTCATC-TCAGTCTTTTCTTTGTAGA
1 GAATCACTCTTGTTCATCTTCA-TCTTTTCTTTGTAGG
* * *
21759977 GAATCTCTCTTGTTCATCTTTATCTTTTCTTTATAGG
1 GAATCACTCTTGTTCATCTTCATCTTTTCTTTGTAGG
* * * *
21760014 GAATCACTCCTGTTCAT-ATCTGTCTTTGCTTTGTAGG
1 GAATCACTCTTGTTCATCTTC-ATCTTTTCTTTGTAGG
* *
21760051 GAATCACTCTTGCTT-ATCTTCATCTTTACTTTGCAGG
1 GAATCACTCTTG-TTCATCTTCATCTTTTCTTTGTAGG
21760088 GAAT
1 GAAT
21760092 ATTTGAAGGT
Statistics
Matches: 94, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
36 1 0.01
37 87 0.93
38 6 0.06
ACGTcount: A:0.19, C:0.21, G:0.14, T:0.45
Consensus pattern (37 bp):
GAATCACTCTTGTTCATCTTCATCTTTTCTTTGTAGG
Found at i:21760089 original size:74 final size:74
Alignment explanation
Indices: 21759931--21760091 Score: 198
Period size: 74 Copynumber: 2.2 Consensus size: 74
21759921 TCTGTTTTTT
** * * *
21759931 CTTTGCAAAGAATCACTCATGTTCATCTCAGTCTTTTCTTTGTAGAGAATCTCTCTTGTTCATCT
1 CTTTGCAGGGAATCACTCATGTTCATATCAGTCTTTGCTTTGTAGAGAATCACTCTTGTTCATCT
* *
21759996 TTATCTTTT
66 TCATCTTTA
** * * *
21760005 CTTTATAGGGAATCACTCCTGTTCATATCTGTCTTTGCTTTGTAGGGAATCACTCTTGCTT-ATC
1 CTTTGCAGGGAATCACTCATGTTCATATCAGTCTTTGCTTTGTAGAGAATCACTCTTG-TTCATC
21760069 TTCATCTTTA
65 TTCATCTTTA
21760079 CTTTGCAGGGAAT
1 CTTTGCAGGGAAT
21760092 ATTTGAAGGT
Statistics
Matches: 72, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
74 70 0.97
75 2 0.03
ACGTcount: A:0.20, C:0.21, G:0.14, T:0.45
Consensus pattern (74 bp):
CTTTGCAGGGAATCACTCATGTTCATATCAGTCTTTGCTTTGTAGAGAATCACTCTTGTTCATCT
TCATCTTTA
Found at i:21762909 original size:5 final size:5
Alignment explanation
Indices: 21762901--21762981 Score: 90
Period size: 5 Copynumber: 16.2 Consensus size: 5
21762891 TAATTTATTA
* * *
21762901 CATAT CATAT CATAT TAGAT CATAT CATAT CATAT CATAT CATAT CGTAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
** * **
21762951 CATAT CAGGT TATAT TGTAT CATAT CATAT C
1 CATAT CATAT CATAT CATAT CATAT CATAT C
21762982 CTACCCCCAT
Statistics
Matches: 62, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
5 62 1.00
ACGTcount: A:0.36, C:0.17, G:0.06, T:0.41
Consensus pattern (5 bp):
CATAT
Found at i:21764284 original size:50 final size:50
Alignment explanation
Indices: 21764225--21764326 Score: 204
Period size: 50 Copynumber: 2.0 Consensus size: 50
21764215 TAAATCGGAC
21764225 TTGTAAATATTTTTAAATATTTACGAGGCTAGAATAGTTGCTAATTAATT
1 TTGTAAATATTTTTAAATATTTACGAGGCTAGAATAGTTGCTAATTAATT
21764275 TTGTAAATATTTTTAAATATTTACGAGGCTAGAATAGTTGCTAATTAATT
1 TTGTAAATATTTTTAAATATTTACGAGGCTAGAATAGTTGCTAATTAATT
21764325 TT
1 TT
21764327 TAGAGTAGTA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.35, C:0.06, G:0.14, T:0.45
Consensus pattern (50 bp):
TTGTAAATATTTTTAAATATTTACGAGGCTAGAATAGTTGCTAATTAATT
Found at i:21764511 original size:3 final size:3
Alignment explanation
Indices: 21764503--21764553 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
21764493 ATGGATGTAT
21764503 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
21764551 ATA
1 ATA
21764554 GTGGATCATG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:21764596 original size:13 final size:13
Alignment explanation
Indices: 21764574--21764607 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
21764564 CAAATTAAAC
21764574 AAAGAAAAGAAAAG
1 AAAGAAAAG-AAAG
21764588 AAA-AAAAGAAAG
1 AAAGAAAAGAAAG
21764600 AAAGAAAA
1 AAAGAAAA
21764608 TGAGAAGAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 7 0.37
13 9 0.47
14 3 0.16
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (13 bp):
AAAGAAAAGAAAG
Found at i:21770258 original size:21 final size:21
Alignment explanation
Indices: 21770232--21770284 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
21770222 CATTGTTTCT
* * *
21770232 AATCTCACTGCTACAGTATCC
1 AATCTCACCGCTACAATAACC
*
21770253 AATCTCACCGCTACAATAACT
1 AATCTCACCGCTACAATAACC
21770274 AATCTCACCGC
1 AATCTCACCGC
21770285 CACCACTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.32, C:0.36, G:0.08, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAATAACC
Found at i:21774444 original size:41 final size:41
Alignment explanation
Indices: 21774365--21774446 Score: 103
Period size: 41 Copynumber: 2.0 Consensus size: 41
21774355 AGACCAATTT
* *
21774365 AATTGGATCAATCATTGTACGATTAATCATACAGTTTATTC
1 AATTAGATCAATCATTGTACGATTAATCATACAATTTATTC
** *
21774406 AATTAGATCAATGGTTGTACGATTAAT-GTCACAATTTATTC
1 AATTAGATCAATCATTGTACGATTAATCAT-ACAATTTATTC
21774447 GATCATGCTA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
40 1 0.03
41 34 0.97
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.39
Consensus pattern (41 bp):
AATTAGATCAATCATTGTACGATTAATCATACAATTTATTC
Found at i:21774927 original size:41 final size:41
Alignment explanation
Indices: 21774865--21774954 Score: 137
Period size: 41 Copynumber: 2.2 Consensus size: 41
21774855 ACATGGACTG
* *
21774865 ATTCAATTGGATCAATGATTGTACAGTTAAT-TATACAATTT
1 ATTCAATTGGATCAATGATTGTACAATTAATGT-CACAATTT
*
21774906 ATTCAATTGGATCAATTATTGTACAATTAATGTCACAATTT
1 ATTCAATTGGATCAATGATTGTACAATTAATGTCACAATTT
21774947 ATTCAATT
1 ATTCAATT
21774955 ATGCTAGTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
41 44 0.98
42 1 0.02
ACGTcount: A:0.37, C:0.11, G:0.10, T:0.42
Consensus pattern (41 bp):
ATTCAATTGGATCAATGATTGTACAATTAATGTCACAATTT
Found at i:21775310 original size:501 final size:500
Alignment explanation
Indices: 21774154--21775747 Score: 2047
Period size: 501 Copynumber: 3.2 Consensus size: 500
21774144 TACTCTTCAA
* * *
21774154 GTTAGTACATTCGTACATAGATCCGATTCAATTGGTTCAATGTCATAAGCATTCAATTACATTTG
1 GTTAGTACATTCGTATATAGACCCGATTCAATTGGTTCAATGTCATAAGCATTCAATTACATTAG
* * ** * *
21774219 TAGTTAG-GG--TGCATAATTGATAAATACTCTTAAATGGATGACAA-ACGTAAAATTAAACATT
66 TAGTTAGAGGAATGCATAATTGATAAATACTCTTAAATTGATCA-AATATTTGAAATTAAACATA
* * * * *
21774280 GATGGTCCAAAATTTTGATATATTTCACTATATGATAATGAATTCCAAA-ATGTATGCTCAATGT
130 GGTGGTCCAAAGTTTTGATATATTTCACTATATGATATTGAATTCTAAACATGTATACTCAATGT
* * * * * *
21774344 TGTGTTTACATAGACCAATTTAATTGGATCAATCATTGTACGATTAATCATACAGTTTATTCAAT
195 AGTGTTTACATGGACCAATTCAATTGGATCAATGATTGTACGATTAATTATACAATTTATTCAAT
* * * * *
21774409 TAGATCAATGGTTGTACGATTAATGTCACAATTTATTCGATCATGCTAACTAATAATTAGAGGAA
260 TGGATCAATGATTGTACAATTAATGTCACAATTTATTCGATTATG----CTAGTAATTAGAGGAA
* * ** ** **
21774474 GATACAATTGATCAATACTCTTAAAAATACCTATACACTACAATGACATTATTTTCATACATAGA
321 TATACAATTGATCAATACTTTTAAAAATATTTATACACTACAATGTTATTACCTTCATACATAGA
* * * * *
21774539 TTCATTCAATTAAATCAATGATTGTACAATTATTGTCATAACTCATTCAACTACATTGGA-AATT
386 TTCATTCAATTAAATCAATGATTGTACAATTAATGACATAACTCATTCAATTACGTT-AATAATT
* * * * **
21774603 AGAGAAATGAAAAAGTGATC-ATGACTTTTCAAATTACTCATACACCACAAT
450 AGAGAAATGTACAATTGATCAAT-ACTTTTTAAATTACTTGTACACCACAAT
* * ** * * * *
21774654 GCTAGTACATTTGTATATAGACATGATTCAATTAGTTCAATGTCATTATCATTCAATTACATAAG
1 GTTAGTACATTCGTATATAGACCCGATTCAATTGGTTCAATGTCATAAGCATTCAATTACATTAG
* *
21774719 TAGTTAGAGGAATGCATAAGTGATAAATACTCTTAAATTGATCAAATATTTGAAATTAAACATCG
66 TAGTTAGAGGAATGCATAATTGATAAATACTCTTAAATTGATCAAATATTTGAAATTAAACATAG
* * * *
21774784 GTAGTCCAAAGTTTTGATATATTTCACTATATGATATTGCATTCTAAACATGTATAATCAAAGTA
131 GTGGTCCAAAGTTTTGATATATTTCACTATATGATATTGAATTCTAAACATGTATACTCAATGTA
**
21774849 GTGTTTACATGGACTGATTCAATTGGATCAATGATTGTAC-AGTTAATTATACAATTTATTCAAT
196 GTGTTTACATGGACCAATTCAATTGGATCAATGATTGTACGA-TTAATTATACAATTTATTCAAT
* *
21774913 TGGATCAATTATTGTACAATTAATGTCACAATTTATTCAATTATGCTAGTAATTAGAGGAATATA
260 TGGATCAATGATTGTACAATTAATGTCACAATTTATTCGATTATGCTAGTAATTAGAGGAATATA
*
21774978 CAATTGATCAATACTTTTAAAAATATTTATACACTACAACGTTATTACCTTCATACATAGATTCA
325 CAATTGATCAATACTTTTAAAAATATTTATACACTACAATGTTATTACCTTCATACATAGATTCA
* *
21775043 TTCGATTAAATCAATAATTGTACAATTAATGACATAACTCATTCAATTACGTTAATAATTAGAGA
390 TTCAATTAAATCAATGATTGTACAATTAATGACATAACTCATTCAATTACGTTAATAATTAGAGA
* * * *
21775108 AACGTGCAATTCATCAATACTTTTTTAAATTACTTGTATACCACAAT
455 AATGTACAATTGATCAATAC-TTTTTAAATTACTTGTACACCACAAT
* * * * * *
21775155 GTTAGTACATTCGTATATAAACCCAATCCAATTGGCTCAATGTCATAATCACTCAATTACATTAG
1 GTTAGTACATTCGTATATAGACCCGATTCAATTGGTTCAATGTCATAAGCATTCAATTACATTAG
* * * *
21775220 TATTTAGAGGAATGCATAATTGATAAATACCCTTAAATTGATCAAATATTTGAAGTTAAATATAG
66 TAGTTAGAGGAATGCATAATTGATAAATACTCTTAAATTGATCAAATATTTGAAATTAAACATAG
*
21775285 GTGGTCCAATGTTTTGATATATTTCACTATATGATATTGAATTCTAAACATGTATACTCAATGTT
131 GTGGTCCAAAGTTTTGATATATTTCACTATATGATATTGAATTCTAAACATGTATACTCAATG-T
** *
21775350 A-TGTTTACATGGACCAATTCAATTACATCAATGATTGTATGATTAATTATACAATTTATTCAAT
195 AGTGTTTACATGGACCAATTCAATTGGATCAATGATTGTACGATTAATTATACAATTTATTCAAT
* * ** * *
21775414 TGGATCTATGATTGTACAATTAATGTCACAATTTATTTGATTACACTAGTAATTAGTGGAATAGA
260 TGGATCAATGATTGTACAATTAATGTCACAATTTATTCGATTATGCTAGTAATTAGAGGAATATA
* * * *
21775479 CAATTGATCAATACTTTTAAAAGTATTTATGCACTACAATGTTATTACCTTTATACATAGATTTA
325 CAATTGATCAATACTTTTAAAAATATTTATACACTACAATGTTATTACCTTCATACATAGATTCA
* * * *
21775544 TTCAATTAGATCAAGGATTGTACAATTAAT-ATCATAACTCATGCAATTATGTTAATAATTAGAG
390 TTCAATTAAATCAATGATTGTACAATTAATGA-CATAACTCATTCAATTACGTTAATAATTAGAG
* * * *
21775608 AAATGTACAATTGGTTAATACTTTTTGAATTACTTGTACACCATAAT
454 AAATGTACAATTGATCAATACTTTTTAAATTACTTGTACACCACAAT
* * * * * * *
21775655 GTTAGTACATTCATATATAGATCCGATTTAATTGGTTCAATGCCATAAGCATCCAATTACGTTTG
1 GTTAGTACATTCGTATATAGACCCGATTCAATTGGTTCAATGTCATAAGCATTCAATTACATTAG
21775720 TAGTTAGAGGAATGCATAATTGATAAAT
66 TAGTTAGAGGAATGCATAATTGATAAAT
21775748 TGTGACGCCC
Statistics
Matches: 945, Mismatches: 137, Indels: 24
0.85 0.12 0.02
Matches are distributed among these distances:
499 1 0.00
500 306 0.32
501 441 0.47
502 5 0.01
503 86 0.09
504 106 0.11
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37
Consensus pattern (500 bp):
GTTAGTACATTCGTATATAGACCCGATTCAATTGGTTCAATGTCATAAGCATTCAATTACATTAG
TAGTTAGAGGAATGCATAATTGATAAATACTCTTAAATTGATCAAATATTTGAAATTAAACATAG
GTGGTCCAAAGTTTTGATATATTTCACTATATGATATTGAATTCTAAACATGTATACTCAATGTA
GTGTTTACATGGACCAATTCAATTGGATCAATGATTGTACGATTAATTATACAATTTATTCAATT
GGATCAATGATTGTACAATTAATGTCACAATTTATTCGATTATGCTAGTAATTAGAGGAATATAC
AATTGATCAATACTTTTAAAAATATTTATACACTACAATGTTATTACCTTCATACATAGATTCAT
TCAATTAAATCAATGATTGTACAATTAATGACATAACTCATTCAATTACGTTAATAATTAGAGAA
ATGTACAATTGATCAATACTTTTTAAATTACTTGTACACCACAAT
Found at i:21775436 original size:41 final size:41
Alignment explanation
Indices: 21775366--21775450 Score: 100
Period size: 41 Copynumber: 2.1 Consensus size: 41
21775356 ACATGGACCA
** *
21775366 ATTCAATTACATCAATGATTGTATGATTAAT-TATACAATTT
1 ATTCAATTACATCAATGATTGTACAATTAATGT-CACAATTT
** *
21775407 ATTCAATTGGATCTATGATTGTACAATTAATGTCACAATTT
1 ATTCAATTACATCAATGATTGTACAATTAATGTCACAATTT
21775448 ATT
1 ATT
21775451 TGATTACACT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
41 36 0.97
42 1 0.03
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.44
Consensus pattern (41 bp):
ATTCAATTACATCAATGATTGTACAATTAATGTCACAATTT
Found at i:21778709 original size:42 final size:42
Alignment explanation
Indices: 21778650--21778751 Score: 141
Period size: 42 Copynumber: 2.4 Consensus size: 42
21778640 TTTACATTAA
** * * *
21778650 TGCTCACACGTGCTGTGGGTCAGAATATAAGCTACACGATGT
1 TGCTCACACAAGCTGTGGGTCAAAATATAAGCTACACAATGC
*
21778692 TGCTCAGACAAGCTGTGGGTCAAAATATAAGCTACACAATGC
1 TGCTCACACAAGCTGTGGGTCAAAATATAAGCTACACAATGC
*
21778734 TGCTTACACAAGCTGTGG
1 TGCTCACACAAGCTGTGG
21778752 TGAATAGTTG
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.25
Consensus pattern (42 bp):
TGCTCACACAAGCTGTGGGTCAAAATATAAGCTACACAATGC
Done.