Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 144 of 175
Found at i:44080332 original size:47 final size:48
Alignment explanation
Indices: 44080275--44080369 Score: 165
Period size: 47 Copynumber: 2.0 Consensus size: 48
44080265 AAAATGACGT
*
44080275 CAATTCATTTTCATTTGCAGTTTAACTTTAAAT-AAAATAATTATAAA
1 CAATTCATTTTCATTTGCAATTTAACTTTAAATAAAAATAATTATAAA
*
44080322 CAATTTATTTTCATTTGCAATTTAACTTTAAATAAAAATAATTATAAA
1 CAATTCATTTTCATTTGCAATTTAACTTTAAATAAAAATAATTATAAA
44080370 AACTTTAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
47 31 0.69
48 14 0.31
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.43
Consensus pattern (48 bp):
CAATTCATTTTCATTTGCAATTTAACTTTAAATAAAAATAATTATAAA
Found at i:44080409 original size:23 final size:21
Alignment explanation
Indices: 44080378--44080421 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
44080368 AAAACTTTAA
*
44080378 AAATATTAACTTTATTATAAAAT
1 AAATATTAA-TTT-TGATAAAAT
*
44080401 AAATGTTAATTTTGATAAAAT
1 AAATATTAATTTTGATAAAAT
44080422 TTAACCTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 8 0.42
22 3 0.16
23 8 0.42
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (21 bp):
AAATATTAATTTTGATAAAAT
Found at i:44080913 original size:31 final size:30
Alignment explanation
Indices: 44080877--44080945 Score: 93
Period size: 31 Copynumber: 2.3 Consensus size: 30
44080867 GATTAAATAA
*
44080877 AAATTAAAGTTTCAAGTATATATTTGAACC
1 AAATTAAAGTTTCAAGTATATAATTGAACC
* * *
44080907 ACAATTAGAGTTTCACGTATATAATTGCACC
1 A-AATTAAAGTTTCAAGTATATAATTGAACC
44080938 AAATTAAA
1 AAATTAAA
44080946 ATTCATGTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
30 7 0.21
31 26 0.79
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.33
Consensus pattern (30 bp):
AAATTAAAGTTTCAAGTATATAATTGAACC
Found at i:44080950 original size:29 final size:29
Alignment explanation
Indices: 44080877--44080961 Score: 80
Period size: 31 Copynumber: 2.8 Consensus size: 29
44080867 GATTAAATAA
*
44080877 AAATTAAAGTTTCAAGTATATATTTGAACC
1 AAATTAAA-TTTCAAGTATATAATTGAACC
* * *
44080907 ACAATTAGAGTTTCACGTATATAATTGCACC
1 A-AATTA-AATTTCAAGTATATAATTGAACC
* * *
44080938 AAATTAAAATTCATGTATACAATT
1 AAATTAAATTTCAAGTATATAATT
44080962 ATACATTAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
29 14 0.31
30 6 0.13
31 24 0.53
32 1 0.02
ACGTcount: A:0.42, C:0.13, G:0.09, T:0.35
Consensus pattern (29 bp):
AAATTAAATTTCAAGTATATAATTGAACC
Found at i:44083570 original size:30 final size:30
Alignment explanation
Indices: 44083534--44083594 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
44083524 TTTTAATACA
44083534 AAATTTAGAAGTTCATTTTGAATGTGATGT
1 AAATTTAGAAGTTCATTTTGAATGTGATGT
44083564 AAATTTAGAAGTTCATTTTGAATGTGATGT
1 AAATTTAGAAGTTCATTTTGAATGTGATGT
44083594 A
1 A
44083595 GCTATCTAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.34, C:0.03, G:0.20, T:0.43
Consensus pattern (30 bp):
AAATTTAGAAGTTCATTTTGAATGTGATGT
Found at i:44086502 original size:16 final size:18
Alignment explanation
Indices: 44086463--44086504 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
44086453 TAAGTCTATA
44086463 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
44086480 ATTTTTATATATTATG-T
1 ATATTTATATATTATGTT
44086497 A-ATTTATA
1 ATATTTATA
44086505 AGTAATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 6 0.27
17 7 0.32
18 9 0.41
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:44086902 original size:33 final size:33
Alignment explanation
Indices: 44086859--44086925 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
44086849 AATTAGAAAG
* *
44086859 GTTCATATAGACCTTTGACTGAATCCAGTTGCA
1 GTTCAAATAGACCTTTGACAGAATCCAGTTGCA
* *
44086892 GTTCAAATAGAGCTTTGACAGAATTCAGTTGCA
1 GTTCAAATAGACCTTTGACAGAATCCAGTTGCA
44086925 G
1 G
44086926 GTCGTTGACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (33 bp):
GTTCAAATAGACCTTTGACAGAATCCAGTTGCA
Found at i:44087708 original size:30 final size:30
Alignment explanation
Indices: 44087672--44087783 Score: 206
Period size: 30 Copynumber: 3.7 Consensus size: 30
44087662 ATGGTCATGA
44087672 TGTTCGTGGTGGTGGTGGTGGTCATGCAGG
1 TGTTCGTGGTGGTGGTGGTGGTCATGCAGG
44087702 TGTTCGTGGTGGTGGTGGTGGTCATGCAGG
1 TGTTCGTGGTGGTGGTGGTGGTCATGCAGG
*
44087732 TGTTCGTGGTGGTGGTGGTGGTCATGCAAG
1 TGTTCGTGGTGGTGGTGGTGGTCATGCAGG
*
44087762 TGTACGTGGTGGTGGTGGTGGT
1 TGTTCGTGGTGGTGGTGGTGGT
44087784 GATTGTTTCC
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 80 1.00
ACGTcount: A:0.07, C:0.09, G:0.50, T:0.34
Consensus pattern (30 bp):
TGTTCGTGGTGGTGGTGGTGGTCATGCAGG
Found at i:44090423 original size:31 final size:32
Alignment explanation
Indices: 44090382--44090443 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
44090372 ACATTGGTCC
* *
44090382 AATTTGATACCCGAACTTGATA-TTTTTTCTT
1 AATTTAATACCCAAACTTGATACTTTTTTCTT
*
44090413 AATTTAATACCTAAACTTGATACTTTTTTCT
1 AATTTAATACCCAAACTTGATACTTTTTTCT
44090444 AAGTTGATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 19 0.70
32 8 0.30
ACGTcount: A:0.29, C:0.16, G:0.06, T:0.48
Consensus pattern (32 bp):
AATTTAATACCCAAACTTGATACTTTTTTCTT
Found at i:44090960 original size:29 final size:29
Alignment explanation
Indices: 44090910--44091045 Score: 84
Period size: 29 Copynumber: 4.6 Consensus size: 29
44090900 TAATAAATTT
*
44090910 AGGTACCAAATT-GAACCTAAAA-AAAGCTT-
1 AGGTACCAAATTAGAA--AAAAACAAAG-TTC
* *
44090939 AGGTATCAAATTAGGAAAAAAACCAAGTTC
1 AGGTACCAAATTA-GAAAAAAACAAAGTTC
*
44090969 AGGTACCAAATTAGAAAAAAGTGTC-AAGTTC
1 AGGTACCAAATTAGAAAAAA---ACAAAGTTC
* * *** *
44091000 AGGTACCAATTTGGGCCAAAA-AAAGTTT
1 AGGTACCAAATTAGAAAAAAACAAAGTTC
44091028 AGGTACCAAATTAGAAAA
1 AGGTACCAAATTAGAAAA
44091046 CAAATGTCAA
Statistics
Matches: 82, Mismatches: 17, Indels: 17
0.71 0.15 0.15
Matches are distributed among these distances:
28 18 0.22
29 24 0.29
30 15 0.18
31 24 0.29
32 1 0.01
ACGTcount: A:0.47, C:0.14, G:0.18, T:0.21
Consensus pattern (29 bp):
AGGTACCAAATTAGAAAAAAACAAAGTTC
Found at i:44093441 original size:7 final size:7
Alignment explanation
Indices: 44093429--44093456 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
44093419 TAATTATCAA
44093429 ATGGTTG
1 ATGGTTG
44093436 ATGGTTG
1 ATGGTTG
44093443 ATGGTTG
1 ATGGTTG
44093450 ATGGTTG
1 ATGGTTG
44093457 TTCTGTTATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.43, T:0.43
Consensus pattern (7 bp):
ATGGTTG
Found at i:44095686 original size:25 final size:25
Alignment explanation
Indices: 44095658--44095751 Score: 93
Period size: 25 Copynumber: 3.8 Consensus size: 25
44095648 TCGAACCATG
* *
44095658 TAACGGGAAGCTCATGTGAGCTATA
1 TAACGGAAAGCTCATGCGAGCTATA
*
44095683 TAACGGAAAGCTCAAT-CGAGCTGTA
1 TAACGGAAAGCTC-ATGCGAGCTATA
* *
44095708 TATCGGAAAGCTCATGCGAGCCA-A
1 TAACGGAAAGCTCATGCGAGCTATA
* *
44095732 TTATCAGAAAGCTCATGCGA
1 -TAACGGAAAGCTCATGCGA
44095752 ACCAATTATC
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
24 3 0.05
25 54 0.92
26 2 0.03
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.21
Consensus pattern (25 bp):
TAACGGAAAGCTCATGCGAGCTATA
Found at i:44095814 original size:25 final size:25
Alignment explanation
Indices: 44095708--44095815 Score: 128
Period size: 25 Copynumber: 4.3 Consensus size: 25
44095698 TCGAGCTGTA
* *
44095708 TATCGGAAAGCTCATGCGAGCCAAT
1 TATCGGGAAGCTCATGAGAGCCAAT
* * * *
44095733 TATCAGAAAGCTCATGCGAACCAAT
1 TATCGGGAAGCTCATGAGAGCCAAT
*
44095758 TATCGGGAAGCTCAAGAGAG-CAAT
1 TATCGGGAAGCTCATGAGAGCCAAT
*
44095782 TAATCGGGAAGCTCATGAGAGCCAAA
1 T-ATCGGGAAGCTCATGAGAGCCAAT
44095808 TATCGGGA
1 TATCGGGA
44095816 TGCCCATAAG
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
24 5 0.07
25 63 0.88
26 4 0.06
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.19
Consensus pattern (25 bp):
TATCGGGAAGCTCATGAGAGCCAAT
Found at i:44104492 original size:19 final size:19
Alignment explanation
Indices: 44104452--44104499 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
44104442 TTTAAAACAT
44104452 AAAAGGAAAATAATTTAGA
1 AAAAGGAAAATAATTTAGA
* *
44104471 AAAATGAAATTAATTCTA-A
1 AAAAGGAAAATAATT-TAGA
*
44104490 AAAGGGAAAA
1 AAAAGGAAAA
44104500 AATAAAGGAA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 21 0.91
20 2 0.09
ACGTcount: A:0.62, C:0.02, G:0.15, T:0.21
Consensus pattern (19 bp):
AAAAGGAAAATAATTTAGA
Found at i:44117272 original size:16 final size:16
Alignment explanation
Indices: 44117251--44117293 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
44117241 AGACAGTAAG
*
44117251 CAAAGTGCGAGCCTGT
1 CAAAGTGCAAGCCTGT
*
44117267 CAAAGTGTAAGCCTGT
1 CAAAGTGCAAGCCTGT
* *
44117283 CGAATTGCAAG
1 CAAAGTGCAAG
44117294 GCGAAGTGGC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.21
Consensus pattern (16 bp):
CAAAGTGCAAGCCTGT
Found at i:44121154 original size:29 final size:32
Alignment explanation
Indices: 44121088--44121157 Score: 85
Period size: 29 Copynumber: 2.3 Consensus size: 32
44121078 TATATCATTA
44121088 ATCTTTCAATAAACATTTAATAAAAATAAACT
1 ATCTTTCAATAAACATTTAATAAAAATAAACT
* * *
44121120 -TGTTTCAA-CAACA-TTAATAATAAT-AACT
1 ATCTTTCAATAAACATTTAATAAAAATAAACT
44121148 ATCTTTCAAT
1 ATCTTTCAAT
44121158 TCGATTCGCT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
28 4 0.12
29 17 0.53
30 4 0.12
31 7 0.22
ACGTcount: A:0.47, C:0.14, G:0.01, T:0.37
Consensus pattern (32 bp):
ATCTTTCAATAAACATTTAATAAAAATAAACT
Found at i:44121671 original size:45 final size:44
Alignment explanation
Indices: 44121622--44121788 Score: 185
Period size: 45 Copynumber: 4.0 Consensus size: 44
44121612 AACGGTAGCA
* *
44121622 GTAACAGTATTCAACACACAAAGTGCTGAATCTGTAACAGTAACG
1 GTAACAGTATTCGACACACAAAGTGCCGAATC-GTAACAGTAACG
44121667 GTAACAGTATTCGACACACAAAGTG-C----CG----AGT--CG
1 GTAACAGTATTCGACACACAAAGTGCCGAATCGTAACAGTAACG
* * *
44121700 GTAACAGTATTCGACACACAAAGTGCCGAGTTGGTAACAGTAACA
1 GTAACAGTATTCGACACACAAAGTGCCGA-ATCGTAACAGTAACG
44121745 GTAACAGTATTCGACACACAAAGTGCCGAATCAGTAACAGTAAC
1 GTAACAGTATTCGACACACAAAGTGCCGAATC-GTAACAGTAAC
44121789 AGTAGTCGGC
Statistics
Matches: 103, Mismatches: 6, Indels: 26
0.76 0.04 0.19
Matches are distributed among these distances:
33 27 0.26
34 1 0.01
35 3 0.03
39 2 0.02
40 1 0.01
43 3 0.03
44 1 0.01
45 65 0.63
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (44 bp):
GTAACAGTATTCGACACACAAAGTGCCGAATCGTAACAGTAACG
Found at i:44121707 original size:33 final size:33
Alignment explanation
Indices: 44121665--44121741 Score: 145
Period size: 33 Copynumber: 2.3 Consensus size: 33
44121655 GTAACAGTAA
44121665 CGGTAACAGTATTCGACACACAAAGTGCCGAGT
1 CGGTAACAGTATTCGACACACAAAGTGCCGAGT
44121698 CGGTAACAGTATTCGACACACAAAGTGCCGAGT
1 CGGTAACAGTATTCGACACACAAAGTGCCGAGT
*
44121731 TGGTAACAGTA
1 CGGTAACAGTA
44121742 ACAGTAACAG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (33 bp):
CGGTAACAGTATTCGACACACAAAGTGCCGAGT
Found at i:44121749 original size:78 final size:78
Alignment explanation
Indices: 44121620--44121786 Score: 264
Period size: 78 Copynumber: 2.1 Consensus size: 78
44121610 GTAACGGTAG
* *
44121620 CAGTAACAGTATTCAACACACAAAGTGCTGAATCTGTAACAGTAACGGTAACAGTATTCGACACA
1 CAGTAACAGTATTCAACACACAAAGTGCCGAATCTGTAACAGTAACAGTAACAGTATTCGACACA
*
44121685 CAAAGTGCCGAGT
66 CAAAGTGCCGAAT
* * *
44121698 CGGTAACAGTATTCGACACACAAAGTGCCGAGT-TGGTAACAGTAACAGTAACAGTATTCGACAC
1 CAGTAACAGTATTCAACACACAAAGTGCCGAATCT-GTAACAGTAACAGTAACAGTATTCGACAC
44121762 ACAAAGTGCCGAAT
65 ACAAAGTGCCGAAT
44121776 CAGTAACAGTA
1 CAGTAACAGTA
44121787 ACAGTAGTCG
Statistics
Matches: 81, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
77 1 0.01
78 80 0.99
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (78 bp):
CAGTAACAGTATTCAACACACAAAGTGCCGAATCTGTAACAGTAACAGTAACAGTATTCGACACA
CAAAGTGCCGAAT
Found at i:44121816 original size:38 final size:39
Alignment explanation
Indices: 44121659--44121819 Score: 138
Period size: 33 Copynumber: 4.2 Consensus size: 39
44121649 GAATCTGTAA
* *
44121659 CAGTAACGGTAACAGTATTCGACACACAAAGTGCCG---
1 CAGTAACAGTAACAGTAGTCGACACACAAAGTGCCGAAT
* * *
44121695 -AGT--CGGTAACAGTATTCGACACACAAAGTGCCGAGTTGGTAA
1 CAGTAACAGTAACAGTAGTCGACACACAAAGTGCCGA------AT
*
44121737 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
1 CAGTAACAGTAACAGTAGTCGACACACAAAGTGCCGAAT
* * *
44121776 CAGTAACAGTAACAGTAGTCGGCACA-TAAGTGCCTAAT
1 CAGTAACAGTAACAGTAGTCGACACACAAAGTGCCGAAT
44121814 CAGTAA
1 CAGTAA
44121820 GCCGGCAAAT
Statistics
Matches: 107, Mismatches: 6, Indels: 22
0.79 0.04 0.16
Matches are distributed among these distances:
33 30 0.28
35 3 0.03
38 16 0.15
39 25 0.23
43 3 0.03
45 30 0.28
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (39 bp):
CAGTAACAGTAACAGTAGTCGACACACAAAGTGCCGAAT
Found at i:44142805 original size:124 final size:124
Alignment explanation
Indices: 44142554--44142944 Score: 534
Period size: 124 Copynumber: 3.1 Consensus size: 124
44142544 GCCCAAGCAG
* * *
44142554 GAACTACTATAGAAAAAGAGCACCCATGTGGGAGC-TTTTTCAGTAATTTTTCTGACAGTGCATC
1 GAACTACTATAGAAAAAGAGCGCCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
* * **
44142618 ATGCTTGAAGCATTTTTTACACTATTTTTCAGAATTGTCTTCTCAAAATTATTTTTTCAA
66 CTGCTTGAAGCATTTTTGACACTATTTTTCAGAACCGTCTTCTCAAAATTA-TTTTTCAA
*
44142678 GAACTACTATAGAAAAAGAGCGCCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTACATC
1 GAACTACTATAGAAAAAGAGCGCCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
* *
44142743 CTGCTTGAAGCGTTTTTGACACTATTTTTTAGAACCGTCTTCTCAAAATTATTTTTCAA
66 CTGCTTGAAGCATTTTTGACACTATTTTTCAGAACCGTCTTCTCAAAATTATTTTTCAA
* * * * * *
44142802 GAACTACTGTAGAAAAAAAGCGTCCACATGGGAGCTTTTGTCAGTAATTTTGTTGACAGTGCATC
1 GAACTACTATAGAAAAAGAGCGCCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
** * * *
44142867 CTGCTTGAAATATTTTTGACATTATCTTTTCAGAACCGTCTTCTTAAAATTAATTTTTC-T
66 CTGCTTGAAGCATTTTTGACACTAT-TTTTCAGAACCGTCTTCTCAAAATT-ATTTTTCAA
*
44142927 GAAACTACTGTAGAAAAA
1 G-AACTACTATAGAAAAA
44142945 AAAACAAAGT
Statistics
Matches: 239, Mismatches: 24, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
124 120 0.50
125 96 0.40
126 23 0.10
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (124 bp):
GAACTACTATAGAAAAAGAGCGCCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
CTGCTTGAAGCATTTTTGACACTATTTTTCAGAACCGTCTTCTCAAAATTATTTTTCAA
Found at i:44143115 original size:29 final size:29
Alignment explanation
Indices: 44143037--44143116 Score: 83
Period size: 34 Copynumber: 2.6 Consensus size: 29
44143027 AAAAATTATT
44143037 TTTAAAAAA-CTAAACCCTAATTTAATTAA
1 TTTAAAAAACCTAAA-CCTAATTTAATTAA
44143066 TTTAATTAAAACCCCTAAAACCTAATTTAATT-A
1 TTTAA--AAAA--CCT-AAACCTAATTTAATTAA
44143099 TTTAAAAAACTCTAAACC
1 TTTAAAAAAC-CTAAACC
44143117 CTGCTTTTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 14
0.76 0.00 0.24
Matches are distributed among these distances:
29 11 0.25
30 2 0.05
31 8 0.18
33 6 0.14
34 14 0.32
35 3 0.07
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.34
Consensus pattern (29 bp):
TTTAAAAAACCTAAACCTAATTTAATTAA
Found at i:44143209 original size:15 final size:15
Alignment explanation
Indices: 44143189--44143218 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
44143179 CTAATACTAC
44143189 AACCCACAAACCCTA
1 AACCCACAAACCCTA
44143204 AACCCACAAACCCTA
1 AACCCACAAACCCTA
44143219 GGCACTAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.47, G:0.00, T:0.07
Consensus pattern (15 bp):
AACCCACAAACCCTA
Found at i:44151493 original size:27 final size:27
Alignment explanation
Indices: 44151461--44151682 Score: 224
Period size: 27 Copynumber: 8.4 Consensus size: 27
44151451 CCCTAAAATA
*
44151461 GGTAAAATGACCAAAATACCCTCATAG
1 GGTAAAATGACCGAAATACCCTCATAG
* *
44151488 AGTAAAATGACCAAAATA-CCTCCATAG
1 GGTAAAATGACCGAAATACCCT-CATAG
* * * *
44151515 GGTAAAATAATCAAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCTCATAG
** *
44151542 GGTAAAATGATTGAAATGCCC-CA-A-
1 GGTAAAATGACCGAAATACCCTCATAG
* *
44151566 --TAGAATGACTGAAATACCC-CTATAG
1 GGTAAAATGACCGAAATACCCTC-ATAG
* *
44151591 GGTAAAATGACTGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCTCATAG
* *
44151618 GGTAAAATGACCGAAATACCTTTATAG
1 GGTAAAATGACCGAAATACCCTCATAG
*
44151645 GGTAAAATGATCGAAATACCCTCATAG
1 GGTAAAATGACCGAAATACCCTCATAG
44151672 GGTAAAATGAC
1 GGTAAAATGAC
44151683 TGTTATACCC
Statistics
Matches: 166, Mismatches: 21, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
22 17 0.10
23 1 0.01
24 1 0.01
25 1 0.01
26 5 0.03
27 138 0.83
28 3 0.02
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (27 bp):
GGTAAAATGACCGAAATACCCTCATAG
Found at i:44151645 original size:103 final size:103
Alignment explanation
Indices: 44151474--44151661 Score: 261
Period size: 103 Copynumber: 1.8 Consensus size: 103
44151464 AAAATGACCA
* *
44151474 AAATACCCTCATAGAGTAAAATGACCAAAATACCTCCATAGGGTAAAATAATCAAAATACCCCCA
1 AAATACCCTCATAGAGTAAAATGACCAAAATACCCCCATAGGGTAAAATAACCAAAATACCCCCA
*
44151539 TAGGGTAAAATGATTGAAATGCCCCAATAGAATGACTG
66 TAGGGTAAAATGATCGAAATGCCCCAATAGAATGACTG
* ** * * ***
44151577 AAATACCC-CTATAGGGTAAAATGACTGAAATACCCCCATAGGGTAAAATGACCGAAATACCTTT
1 AAATACCCTC-ATAGAGTAAAATGACCAAAATACCCCCATAGGGTAAAATAACCAAAATACCCCC
44151641 ATAGGGTAAAATGATCGAAAT
65 ATAGGGTAAAATGATCGAAAT
44151662 ACCCTCATAG
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
102 1 0.01
103 72 0.99
ACGTcount: A:0.44, C:0.19, G:0.16, T:0.21
Consensus pattern (103 bp):
AAATACCCTCATAGAGTAAAATGACCAAAATACCCCCATAGGGTAAAATAACCAAAATACCCCCA
TAGGGTAAAATGATCGAAATGCCCCAATAGAATGACTG
Found at i:44154695 original size:23 final size:23
Alignment explanation
Indices: 44154635--44154720 Score: 88
Period size: 23 Copynumber: 3.9 Consensus size: 23
44154625 CCTAATCAGT
* *
44154635 ATACGGCACAT-AAGTACCTG-A
1 ATACGACACATAAAGTGCCTGAA
** *
44154656 A-ACGACACACGAGGTGCCTGAA
1 ATACGACACATAAAGTGCCTGAA
* *
44154678 ATAGGACACATAAAGTGCCTGAT
1 ATACGACACATAAAGTGCCTGAA
44154701 ATACGACACATAAAGTGCCT
1 ATACGACACATAAAGTGCCT
44154721 AATCGGCAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
20 7 0.13
21 8 0.15
22 2 0.04
23 35 0.67
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.17
Consensus pattern (23 bp):
ATACGACACATAAAGTGCCTGAA
Found at i:44157084 original size:50 final size:50
Alignment explanation
Indices: 44156971--44157213 Score: 335
Period size: 50 Copynumber: 4.8 Consensus size: 50
44156961 GATAATAACA
* * * * * ** * *
44156971 TGCCAAAGCCATGTCCTATACAAGGCCTTACATGGGATGTTCTTATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* **
44157022 TGCCCATC-CCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TG-CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
44157072 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
44157122 TGCCAATGCCATGTTCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
44157172 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
44157214 TTACCCAAAT
Statistics
Matches: 171, Mismatches: 19, Indels: 5
0.88 0.10 0.03
Matches are distributed among these distances:
49 4 0.02
50 139 0.81
51 25 0.15
52 3 0.02
ACGTcount: A:0.21, C:0.31, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:44158500 original size:18 final size:19
Alignment explanation
Indices: 44158479--44158514 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
44158469 ATTATTTATC
44158479 TAATAAATATCT-TTTAAA
1 TAATAAATATCTATTTAAA
44158497 TAATAAATATCTATTTAA
1 TAATAAATATCTATTTAA
44158515 TATACAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (19 bp):
TAATAAATATCTATTTAAA
Found at i:44158523 original size:19 final size:18
Alignment explanation
Indices: 44158483--44158525 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
44158473 TTTATCTAAT
*
44158483 AAATATCTTTTAAATAAT
1 AAATATCTTTTAAATAAC
44158501 AAATATCTATTT-AATATAC
1 AAATATCT-TTTAAATA-AC
44158520 AAATAT
1 AAATAT
44158526 AAATATTACA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (18 bp):
AAATATCTTTTAAATAAC
Found at i:44158808 original size:17 final size:15
Alignment explanation
Indices: 44158772--44158811 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 15
44158762 ATTTATTTCA
44158772 TAATATAATAATAAT
1 TAATATAATAATAAT
*
44158787 TAATATAATTTATAATT
1 TAATATAA-TAATAA-T
44158804 TAATATAA
1 TAATATAA
44158812 AACCTTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 5 0.23
17 9 0.41
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TAATATAATAATAAT
Found at i:44160580 original size:51 final size:50
Alignment explanation
Indices: 44160459--44160644 Score: 178
Period size: 51 Copynumber: 3.7 Consensus size: 50
44160449 GAAAGTGATG
* * * * * * *
44160459 GTCACACGTGTAGTACTATGTGTAGGCTACTACGTGTACTGGAATAATA-G
1 GTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGG-ATAGTATT
*
44160509 GTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT-TT
1 GTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTATT
* * * * * * *
44160558 CGATCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTATCGTATGGTAATT
1 -G-TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT-ATT
*
44160611 GTCACATATGTAGTACTATGTGCAGGCTACTATG
1 GTCACATGTGTAGTACTATGTGCAGGCTACTATG
44160645 TGAACTGAAC
Statistics
Matches: 111, Mismatches: 20, Indels: 9
0.79 0.14 0.06
Matches are distributed among these distances:
49 4 0.04
50 37 0.33
51 67 0.60
52 1 0.01
53 2 0.02
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (50 bp):
GTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTATT
Found at i:44165735 original size:26 final size:26
Alignment explanation
Indices: 44165698--44165747 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
44165688 ACATATTTTC
*
44165698 TCAAAATTTTACTAAGGGTAAAATCA
1 TCAAAATATTACTAAGGGTAAAATCA
*
44165724 TCAAAATATTACTATGGGTAAAAT
1 TCAAAATATTACTAAGGGTAAAAT
44165748 AGGGATGAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.32
Consensus pattern (26 bp):
TCAAAATATTACTAAGGGTAAAATCA
Found at i:44167872 original size:21 final size:22
Alignment explanation
Indices: 44167848--44167894 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
44167838 CATAAGTGTC
*
44167848 TGAA-ACGACACACGAAGTGCT
1 TGAATACGACACACAAAGTGCT
*
44167869 TGAAATACGACACATAAAGTGCT
1 TG-AATACGACACACAAAGTGCT
44167892 TGA
1 TGA
44167895 TCGACAAAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 2 0.09
22 3 0.14
23 17 0.77
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.19
Consensus pattern (22 bp):
TGAATACGACACACAAAGTGCT
Found at i:44171579 original size:46 final size:46
Alignment explanation
Indices: 44171526--44171615 Score: 171
Period size: 46 Copynumber: 2.0 Consensus size: 46
44171516 CTACTTGTAC
*
44171526 AAGCCCAATCTGAACTAGCCCAAACCCAAGACCCAAAACAGACCCA
1 AAGCCCAATCTGAACCAGCCCAAACCCAAGACCCAAAACAGACCCA
44171572 AAGCCCAATCTGAACCAGCCCAAACCCAAGACCCAAAACAGACC
1 AAGCCCAATCTGAACCAGCCCAAACCCAAGACCCAAAACAGACC
44171616 TAACCCCTAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.43, C:0.40, G:0.11, T:0.06
Consensus pattern (46 bp):
AAGCCCAATCTGAACCAGCCCAAACCCAAGACCCAAAACAGACCCA
Found at i:44172788 original size:26 final size:24
Alignment explanation
Indices: 44172702--44172789 Score: 61
Period size: 23 Copynumber: 3.6 Consensus size: 24
44172692 TAGTTGCTCT
* * * *
44172702 TATATATACACGTATATTTCT-TT
1 TATATATATACATATTTTTCTATA
* *
44172725 TATATATAAATATATTTTTCTATA
1 TATATATATACATATTTTTCTATA
* * * *
44172749 TATTTACATGCATACTTTTTGTACTA
1 TATATATATACATA-TTTTTCTA-TA
44172775 TATATATATACATAT
1 TATATATATACATAT
44172790 ACACTTATTT
Statistics
Matches: 48, Mismatches: 14, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
23 17 0.35
24 10 0.21
25 8 0.17
26 13 0.27
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.51
Consensus pattern (24 bp):
TATATATATACATATTTTTCTATA
Found at i:44173007 original size:27 final size:25
Alignment explanation
Indices: 44172976--44173039 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 25
44172966 ATGTGTCCCC
*
44172976 TTTTTATATAT-ATGTAAATCTCCATA
1 TTTTTATATATCATATAAAT-T-CATA
*
44173002 TATTTTACATATGCATATAAATTCATA
1 T-TTTTATATAT-CATATAAATTCATA
44173029 TTTTTATATAT
1 TTTTTATATAT
44173040 TTTATAATAC
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
26 10 0.31
27 14 0.44
28 1 0.03
29 7 0.22
ACGTcount: A:0.36, C:0.09, G:0.03, T:0.52
Consensus pattern (25 bp):
TTTTTATATATCATATAAATTCATA
Found at i:44173214 original size:5 final size:5
Alignment explanation
Indices: 44173200--44173228 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
44173190 ACATAAGTGC
44173200 TTTA- TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
44173229 ATTGTTTCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:44194298 original size:9 final size:9
Alignment explanation
Indices: 44194284--44194326 Score: 68
Period size: 9 Copynumber: 4.6 Consensus size: 9
44194274 TATCTGAAGA
44194284 AAAAAATAT
1 AAAAAATAT
44194293 AAAAAATTAT
1 AAAAAA-TAT
44194303 AAAAAAATAT
1 -AAAAAATAT
44194313 AAAAAATAT
1 AAAAAATAT
44194322 AAAAA
1 AAAAA
44194327 GCGGAAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
9 20 0.62
10 6 0.19
11 6 0.19
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
AAAAAATAT
Found at i:44194298 original size:10 final size:10
Alignment explanation
Indices: 44194283--44194326 Score: 72
Period size: 10 Copynumber: 4.5 Consensus size: 10
44194273 TTATCTGAAG
44194283 AAAAAAATAT
1 AAAAAAATAT
*
44194293 AAAAAATTAT
1 AAAAAAATAT
44194303 AAAAAAATAT
1 AAAAAAATAT
44194313 -AAAAAATAT
1 AAAAAAATAT
44194322 AAAAA
1 AAAAA
44194327 GCGGAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
9 9 0.29
10 22 0.71
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (10 bp):
AAAAAAATAT
Found at i:44204647 original size:22 final size:23
Alignment explanation
Indices: 44204621--44204744 Score: 101
Period size: 25 Copynumber: 5.2 Consensus size: 23
44204611 TAATGAACAT
* *
44204621 AGAGCACTAAAGTGCTATA-CAG
1 AGAGCACCAACGTGCTATATCAG
* *
44204643 AGAGCA-CATATGTGCTA-AACAG
1 AGAGCACCA-ACGTGCTATATCAG
** *
44204665 AGAGCACTGACGTGCTAAATATTAG
1 AGAGCACCAACGTGCT--ATATCAG
44204690 AGAGCACCAACGTGCTAATAATCAG
1 AGAGCACCAACGTGCT-AT-ATCAG
44204715 AGAGCACCAACGTGCTAATAATCAG
1 AGAGCACCAACGTGCT-AT-ATCAG
44204740 AGAGC
1 AGAGC
44204745 GCGCTAAAGT
Statistics
Matches: 85, Mismatches: 10, Indels: 11
0.80 0.09 0.10
Matches are distributed among these distances:
21 2 0.02
22 28 0.33
24 4 0.05
25 51 0.60
ACGTcount: A:0.40, C:0.20, G:0.23, T:0.18
Consensus pattern (23 bp):
AGAGCACCAACGTGCTATATCAG
Found at i:44204695 original size:25 final size:26
Alignment explanation
Indices: 44204662--44204744 Score: 118
Period size: 25 Copynumber: 3.3 Consensus size: 26
44204652 ATGTGCTAAA
**
44204662 CAGAGAGCACTGACGTGCTAAAT-AT
1 CAGAGAGCACCAACGTGCTAAATAAT
*
44204687 TAGAGAGCACCAACGTGCT-AATAAT
1 CAGAGAGCACCAACGTGCTAAATAAT
44204712 CAGAGAGCACCAACGTGCT-AATAAT
1 CAGAGAGCACCAACGTGCTAAATAAT
44204737 CAGAGAGC
1 CAGAGAGC
44204745 GCGCTAAAGT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
24 3 0.06
25 50 0.94
ACGTcount: A:0.39, C:0.22, G:0.23, T:0.17
Consensus pattern (26 bp):
CAGAGAGCACCAACGTGCTAAATAAT
Found at i:44205117 original size:13 final size:14
Alignment explanation
Indices: 44205091--44205119 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
44205081 TAATATAGGC
44205091 ATTTAAATAAAATA
1 ATTTAAATAAAATA
44205105 ATTTAAA-AAAATA
1 ATTTAAATAAAATA
44205118 AT
1 AT
44205120 CTTGTAGTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
ATTTAAATAAAATA
Found at i:44205791 original size:11 final size:11
Alignment explanation
Indices: 44205775--44205812 Score: 67
Period size: 11 Copynumber: 3.5 Consensus size: 11
44205765 TCTTTCTTTC
*
44205775 TTTCTCCCCTG
1 TTTCTCCTCTG
44205786 TTTCTCCTCTG
1 TTTCTCCTCTG
44205797 TTTCTCCTCTG
1 TTTCTCCTCTG
44205808 TTTCT
1 TTTCT
44205813 TTATTCTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.00, C:0.37, G:0.08, T:0.55
Consensus pattern (11 bp):
TTTCTCCTCTG
Found at i:44205868 original size:10 final size:10
Alignment explanation
Indices: 44205846--44205882 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
44205836 GTTTTTTTTA
44205846 TATATAATA-
1 TATATAATAT
44205855 -ATATAATAT
1 TATATAATAT
*
44205864 TATATTATAT
1 TATATAATAT
44205874 TATATAATA
1 TATATAATA
44205883 AAATAACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
8 8 0.33
10 16 0.67
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (10 bp):
TATATAATAT
Found at i:44208232 original size:18 final size:17
Alignment explanation
Indices: 44208205--44208238 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
44208195 AGTTGATGAA
44208205 TTGAATTAATGTGTATT
1 TTGAATTAATGTGTATT
*
44208222 TTGATATTAATTTGTAT
1 TTGA-ATTAATGTGTAT
44208239 ATAATTGCGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.29, C:0.00, G:0.15, T:0.56
Consensus pattern (17 bp):
TTGAATTAATGTGTATT
Found at i:44214354 original size:19 final size:17
Alignment explanation
Indices: 44214330--44214373 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
44214320 TTGAATTGTA
*
44214330 AATTTAAAGATTAAATATT
1 AATTTAAA-ATAAAATA-T
44214349 AATTTAAAATAAAATAT
1 AATTTAAAATAAAATAT
44214366 AA-TTAAAA
1 AATTTAAAA
44214374 CACATAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 6 0.25
17 3 0.12
18 7 0.29
19 8 0.33
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (17 bp):
AATTTAAAATAAAATAT
Found at i:44228422 original size:20 final size:21
Alignment explanation
Indices: 44228388--44228447 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 21
44228378 ATAATAATTC
*
44228388 TAAAAATTCT-TAAAAATAAA
1 TAAAAATTATGTAAAAATAAA
* *
44228408 TATAAATTATG-AAAAAT-AT
1 TAAAAATTATGTAAAAATAAA
*
44228427 TAAAAATTATGTTAAAATAAA
1 TAAAAATTATGTAAAAATAAA
44228448 ATCAAATCCT
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
19 11 0.35
20 19 0.61
21 1 0.03
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (21 bp):
TAAAAATTATGTAAAAATAAA
Found at i:44229836 original size:12 final size:13
Alignment explanation
Indices: 44229817--44229854 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
44229807 CAATTTTATA
44229817 TATTTATATATTC
1 TATTTATATATTC
*
44229830 T-TTTATAAATTTC
1 TATTTATATA-TTC
44229843 TATTTATATATT
1 TATTTATATATT
44229855 TTTAATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
12 7 0.33
13 7 0.33
14 7 0.33
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (13 bp):
TATTTATATATTC
Found at i:44229850 original size:14 final size:14
Alignment explanation
Indices: 44229817--44229855 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
44229807 CAATTTTATA
44229817 TATTTATATA-TTC
1 TATTTATATATTTC
*
44229830 T-TTTATAAATTTC
1 TATTTATATATTTC
44229843 TATTTATATATTT
1 TATTTATATATTT
44229856 TTAATTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 5 0.23
14 10 0.45
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (14 bp):
TATTTATATATTTC
Found at i:44245669 original size:11 final size:11
Alignment explanation
Indices: 44245644--44245678 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
44245634 ACAAATCCTT
*
44245644 TCTCAAATTTTC
1 TCTC-AATTTCC
44245656 TCTCAATTTCC
1 TCTCAATTTCC
44245667 TCTCAATTTCC
1 TCTCAATTTCC
44245678 T
1 T
44245679 TCCAAATTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 18 0.82
12 4 0.18
ACGTcount: A:0.20, C:0.31, G:0.00, T:0.49
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:44245671 original size:23 final size:23
Alignment explanation
Indices: 44245644--44245697 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
44245634 ACAAATCCTT
*
44245644 TCTCAAATTTTC-TCTC-AATTTCC
1 TCTCAAATTTCCTTC-CAAATTT-C
44245667 TCTC-AATTTCCTTCCAAATTTC
1 TCTCAAATTTCCTTCCAAATTTC
44245689 TCTCAAATT
1 TCTCAAATT
44245698 CATATTTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
22 12 0.44
23 15 0.56
ACGTcount: A:0.24, C:0.30, G:0.00, T:0.46
Consensus pattern (23 bp):
TCTCAAATTTCCTTCCAAATTTC
Found at i:44245695 original size:11 final size:11
Alignment explanation
Indices: 44245644--44245697 Score: 51
Period size: 11 Copynumber: 4.8 Consensus size: 11
44245634 ACAAATCCTT
44245644 TCTCAAATTTTC
1 TCTCAAA-TTTC
44245656 TCTC-AATTTCC
1 TCTCAAATTT-C
44245667 TCTC-AATTTC
1 TCTCAAATTTC
44245677 -CTTCCAAATTTC
1 TC-T-CAAATTTC
44245689 TCTCAAATT
1 TCTCAAATT
44245698 CATATTTAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
9 1 0.03
10 5 0.14
11 19 0.51
12 11 0.30
13 1 0.03
ACGTcount: A:0.24, C:0.30, G:0.00, T:0.46
Consensus pattern (11 bp):
TCTCAAATTTC
Found at i:44245712 original size:40 final size:40
Alignment explanation
Indices: 44245667--44245744 Score: 113
Period size: 40 Copynumber: 1.9 Consensus size: 40
44245657 CTCAATTTCC
44245667 TCTCAATTTCCTTCCAAATTTCTCTCAAAT-TCATATTTAA
1 TCTCAATTTCCTTCCAAATTTCTCTCAAATCTC-TATTTAA
** *
44245707 TCTCAATTTCCTTTTAAATTTCTCTTAAATCTCTATTT
1 TCTCAATTTCCTTCCAAATTTCTCTCAAATCTCTATTT
44245745 TTAAATAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 32 0.94
41 2 0.06
ACGTcount: A:0.27, C:0.23, G:0.00, T:0.50
Consensus pattern (40 bp):
TCTCAATTTCCTTCCAAATTTCTCTCAAATCTCTATTTAA
Found at i:44248948 original size:18 final size:18
Alignment explanation
Indices: 44248921--44248957 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
44248911 CAAGTGCGTT
* *
44248921 TCCTAGCCCTTTTATGTA
1 TCCTAACCCTTATATGTA
44248939 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
44248957 T
1 T
44248958 AATTTTTCGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.27, G:0.08, T:0.43
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:44249490 original size:8 final size:8
Alignment explanation
Indices: 44249470--44249505 Score: 58
Period size: 7 Copynumber: 4.8 Consensus size: 8
44249460 ATGTATTTAA
44249470 TTATAAA-
1 TTATAAAT
44249477 TTATAAAT
1 TTATAAAT
44249485 TTATAAAT
1 TTATAAAT
44249493 TTAT-AAT
1 TTATAAAT
44249500 TTATAA
1 TTATAA
44249506 TTAAATGCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 14 0.52
8 13 0.48
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
TTATAAAT
Found at i:44249490 original size:15 final size:15
Alignment explanation
Indices: 44249470--44249505 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
44249460 ATGTATTTAA
44249470 TTATAAA-TTATAAAT
1 TTATAAATTTAT-AAT
44249485 TTATAAATTTATAAT
1 TTATAAATTTATAAT
44249500 TTATAA
1 TTATAA
44249506 TTAAATGCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TTATAAATTTATAAT
Found at i:44249642 original size:44 final size:44
Alignment explanation
Indices: 44249569--44249883 Score: 221
Period size: 44 Copynumber: 7.2 Consensus size: 44
44249559 CCCTAATCCT
* * *
44249569 AACCCTTAACTTAAAAACTC-T-AACCCTTAAATTAAAAACGCTA
1 AACCCTAAACCTAAAAAC-CATAAACCCTTAAATTAAAAACACTA
* * **
44249612 AATCATAAACCTAAAAACCATAAACCCTTAAGCTAAAAACCCTAACCCTA
1 AACCCTAAACCTAAAAACCATAAACCCTTAAATTAAAAA--C--A--CTA
* * * * *
44249662 AACCATTAACCTAAAAATCTTAAACCC-TAAACTTAAAAACAATA
1 AACCCTAAACCTAAAAACCATAAACCCTTAAA-TTAAAAACACTA
*
44249706 AACCCTAAACCTAAAAACCTTAAACCC-TAAACTTAAAAA-ACTCA
1 AACCCTAAACCTAAAAACCATAAACCCTTAAA-TTAAAAACACT-A
* * *
44249750 AACCCTTAACCTAAAAATCATAAACCCTTAACTTAAAAACACTA
1 AACCCTAAACCTAAAAACCATAAACCCTTAAATTAAAAACACTA
44249794 AACCCTAAACCCTAAAAACTC-TAAA--C-T--A-T--AAACACTA
1 AACCCTAAA-CCTAAAAAC-CATAAACCCTTAAATTAAAAACACTA
** *
44249831 AACCCTAAACCTAAAAACTC-TAAACTTTTAACTTAAAAAC-CTTA
1 AACCCTAAACCTAAAAAC-CATAAACCCTTAAATTAAAAACAC-TA
44249875 AACCCTAAA
1 AACCCTAAA
44249884 AACCCTAACC
Statistics
Matches: 222, Mismatches: 27, Indels: 45
0.76 0.09 0.15
Matches are distributed among these distances:
36 15 0.07
37 17 0.08
39 2 0.01
42 3 0.01
43 19 0.09
44 109 0.49
45 18 0.08
46 3 0.01
48 1 0.00
49 3 0.01
50 32 0.14
ACGTcount: A:0.50, C:0.27, G:0.01, T:0.22
Consensus pattern (44 bp):
AACCCTAAACCTAAAAACCATAAACCCTTAAATTAAAAACACTA
Found at i:44249686 original size:22 final size:22
Alignment explanation
Indices: 44249660--44249819 Score: 146
Period size: 22 Copynumber: 7.2 Consensus size: 22
44249650 ACCCTAACCC
* *
44249660 TAAACCATTAACCTAAAAATCT
1 TAAACCCTAAACCTAAAAATCT
* *
44249682 TAAACCCTAAACTTAAAAA-CAA
1 TAAACCCTAAACCTAAAAATC-T
*
44249704 TAAACCCTAAACCTAAAAACCT
1 TAAACCCTAAACCTAAAAATCT
* *
44249726 TAAACCCTAAACTTAAAAAACT
1 TAAACCCTAAACCTAAAAATCT
* * *
44249748 CAAACCCTTAACCTAAAAATCA
1 TAAACCCTAAACCTAAAAATCT
* * *
44249770 TAAACCCTTAACTTAAAAA-CAC
1 TAAACCCTAAACCTAAAAATC-T
44249792 TAAACCCTAAACCCTAAAAA-CT
1 TAAACCCTAAA-CCTAAAAATCT
44249814 CTAAAC
1 -TAAAC
44249820 TATAAACACT
Statistics
Matches: 114, Mismatches: 19, Indels: 9
0.80 0.13 0.06
Matches are distributed among these distances:
21 2 0.02
22 98 0.86
23 14 0.12
ACGTcount: A:0.52, C:0.28, G:0.00, T:0.21
Consensus pattern (22 bp):
TAAACCCTAAACCTAAAAATCT
Found at i:44249774 original size:37 final size:38
Alignment explanation
Indices: 44249727--44249857 Score: 126
Period size: 37 Copynumber: 3.3 Consensus size: 38
44249717 TAAAAACCTT
* *
44249727 AAACCCTAAACTTA-AAAAACTCAAACCCTTAACCTAA
1 AAACTCTAAACTTATAAAAACTCAAACCCTAAACCTAA
*
44249764 AAA-TCATAAACCCTTAACTTAAAAACACTAAACCCTAAACCCTAA
1 AAACTC-TAAA--CTT-A--TAAAAACTC-AAACCCTAAA-CCTAA
*
44249809 AAACTCTAAAC-TATAAACACT-AAACCCTAAACCTAA
1 AAACTCTAAACTTATAAAAACTCAAACCCTAAACCTAA
44249845 AAACTCTAAACTT
1 AAACTCTAAACTT
44249858 TTAACTTAAA
Statistics
Matches: 78, Mismatches: 5, Indels: 22
0.74 0.05 0.21
Matches are distributed among these distances:
36 17 0.22
37 18 0.23
39 9 0.12
40 1 0.01
41 1 0.01
42 1 0.01
43 8 0.10
44 9 0.12
45 12 0.15
46 2 0.03
ACGTcount: A:0.51, C:0.28, G:0.00, T:0.21
Consensus pattern (38 bp):
AAACTCTAAACTTATAAAAACTCAAACCCTAAACCTAA
Found at i:44249801 original size:7 final size:7
Alignment explanation
Indices: 44249786--44249845 Score: 50
Period size: 7 Copynumber: 8.4 Consensus size: 7
44249776 CTTAACTTAA
*
44249786 AAACACT
1 AAACCCT
44249793 AAACCCT
1 AAACCCT
44249800 AAACCCT
1 AAACCCT
*
44249807 AAAAACTCT
1 --AAACCCT
**
44249816 AAACTAT
1 AAACCCT
*
44249823 AAACACT
1 AAACCCT
44249830 AAACCCT
1 AAACCCT
44249837 AAA-CCT
1 AAACCCT
44249843 AAA
1 AAA
44249846 AACTCTAAAC
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
6 6 0.13
7 33 0.73
9 6 0.13
ACGTcount: A:0.53, C:0.30, G:0.00, T:0.17
Consensus pattern (7 bp):
AAACCCT
Found at i:44249853 original size:22 final size:22
Alignment explanation
Indices: 44249829--44249883 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
44249819 CTATAAACAC
44249829 TAAACCCTAAACCTAAAAA-CT
1 TAAACCCTAAACCTAAAAACCT
** * *
44249850 CTAAACTTTTAACTTAAAAACCT
1 -TAAACCCTAAACCTAAAAACCT
44249873 TAAACCCTAAA
1 TAAACCCTAAA
44249884 AACCCTAACC
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
22 23 0.92
23 2 0.08
ACGTcount: A:0.49, C:0.25, G:0.00, T:0.25
Consensus pattern (22 bp):
TAAACCCTAAACCTAAAAACCT
Found at i:44249871 original size:37 final size:38
Alignment explanation
Indices: 44249793--44249916 Score: 139
Period size: 37 Copynumber: 3.3 Consensus size: 38
44249783 TAAAAACACT
* *
44249793 AAACCCTAAACCCTAAAAACTCTAAACTATAAAC--ACT
1 AAACCCTAAACCCTAAAAACTCTAAACTTTAAACTTA-A
*
44249830 AAACCCTAAA-CCTAAAAACTCTAAACTTTTAACTTAA
1 AAACCCTAAACCCTAAAAACTCTAAACTTTAAACTTAA
* * *
44249867 AAACCTTAAACCCTAAAAACCCT-AACCTTAAACTTAA
1 AAACCCTAAACCCTAAAAACTCTAAACTTTAAACTTAA
*
44249904 CAAACCTTAAACC
1 -AAACCCTAAACC
44249917 ATTAAATTAA
Statistics
Matches: 76, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
36 21 0.28
37 31 0.41
38 24 0.32
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.22
Consensus pattern (38 bp):
AAACCCTAAACCCTAAAAACTCTAAACTTTAAACTTAA
Found at i:44249987 original size:43 final size:42
Alignment explanation
Indices: 44249880--44250001 Score: 131
Period size: 43 Copynumber: 2.8 Consensus size: 42
44249870 CCTTAAACCC
*
44249880 TAAAAACCCT-AACCTTAAACTTAACAAACCTTAAACCATTAAAT
1 TAAAAACCCTAAACCTT-AACTTAA-AAACCCT-AACCATTAAAT
* * *
44249924 TAAAAAACCCCAAACCCTTAACTTAAAAACCCTAATCATTAACT
1 T-AAAAACCCTAAA-CCTTAACTTAAAAACCCTAACCATTAAAT
44249968 TAAAAACCCTAAACTCTTAACTCT-AAAACCCTAA
1 TAAAAACCCTAAAC-CTTAACT-TAAAAACCCTAA
44250002 ACCCTAAAAC
Statistics
Matches: 68, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
42 1 0.01
43 28 0.41
44 12 0.18
45 14 0.21
46 9 0.13
47 4 0.06
ACGTcount: A:0.48, C:0.28, G:0.00, T:0.24
Consensus pattern (42 bp):
TAAAAACCCTAAACCTTAACTTAAAAACCCTAACCATTAAAT
Found at i:44250002 original size:22 final size:22
Alignment explanation
Indices: 44249880--44250003 Score: 116
Period size: 22 Copynumber: 5.6 Consensus size: 22
44249870 CCTTAAACCC
44249880 TAAAAACCCT-AAC-CTTAAACT
1 TAAAAACCCTAAACTCTT-AACT
* *
44249901 TAACAAACCTTAAAC-CATTAAAT
1 TAA-AAACCCTAAACTC-TTAACT
* *
44249924 TAAAAAACCCCAAACCCTTAACT
1 T-AAAAACCCTAAACTCTTAACT
44249947 TAAAAACCCT-AA-TCATTAACT
1 TAAAAACCCTAAACTC-TTAACT
44249968 TAAAAACCCTAAACTCTTAACT
1 TAAAAACCCTAAACTCTTAACT
44249990 CT-AAAACCCTAAAC
1 -TAAAAACCCTAAAC
44250004 CCTAAAACCT
Statistics
Matches: 87, Mismatches: 7, Indels: 17
0.78 0.06 0.15
Matches are distributed among these distances:
20 1 0.01
21 21 0.24
22 34 0.39
23 26 0.30
24 5 0.06
ACGTcount: A:0.48, C:0.28, G:0.00, T:0.23
Consensus pattern (22 bp):
TAAAAACCCTAAACTCTTAACT
Found at i:44250004 original size:29 final size:29
Alignment explanation
Indices: 44249971--44250034 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 29
44249961 ATTAACTTAA
44249971 AAACCCT-AAACTCTTAACTCTAAAACCCT
1 AAACCCTAAAAC-CTTAACTCTAAAACCCT
* *
44250000 AAACCCTAAAACCTTAATTTTAAAACCCT
1 AAACCCTAAAACCTTAACTCTAAAACCCT
44250029 -AACCCT
1 AAACCCT
44250035 TAAGTTAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
28 6 0.19
29 22 0.69
30 4 0.12
ACGTcount: A:0.42, C:0.33, G:0.00, T:0.25
Consensus pattern (29 bp):
AAACCCTAAAACCTTAACTCTAAAACCCT
Found at i:44250562 original size:14 final size:14
Alignment explanation
Indices: 44250543--44250569 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
44250533 GATTGACAAA
44250543 CGAATATTACATAC
1 CGAATATTACATAC
44250557 CGAATATTACATA
1 CGAATATTACATA
44250570 TCACTTCTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.30
Consensus pattern (14 bp):
CGAATATTACATAC
Found at i:44252975 original size:126 final size:126
Alignment explanation
Indices: 44252688--44253222 Score: 740
Period size: 125 Copynumber: 4.3 Consensus size: 126
44252678 GCCAAACATG
* *
44252688 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGTGATTTCACAAATTCTTCTCAAAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
44252753 TAT-AAGC-TATTTTATACTATTTGCTCAGAAATGTCAACTCGAAATTATTTCTTTCAGGAC
66 T-TGAAGCGTATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
* ** *
44252813 CAACTGTAGCAAAAGCGCGTCCACAAGGGCGCGATTTCAGAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * * *
44252878 TTGAAGCGTTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATAATTT-TTTCAAGAC
66 TTGAAGCG-TATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
* *
44252939 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGTGATTTCACAAATTCTTCTCATAA-AGTATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCA-AATAGCATCCTG
* * * *
44253003 GTAGAAGCG-ATTTTATACTATTTGCTCAAAAACGTCAACTCGAAATTATTTCTTCCAGGAT
65 CTTGAAGCGTATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
* * * * * *
44253064 CAACTATAGCAAAAGCGCGTCCAGGAGGGCGCGATTTCACAAATTCTTCACATATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
44253129 TTGAAGCGTTTTTTATACTATCTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAGGAC
66 TTGAAGCGTATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
* * *
44253189 CTACTGTAGCAAAAACGCGTACACGTGGGTGCGA
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGA
44253223 CTGCAAAAAT
Statistics
Matches: 358, Mismatches: 45, Indels: 14
0.86 0.11 0.03
Matches are distributed among these distances:
124 41 0.11
125 166 0.46
126 109 0.30
127 42 0.12
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.30
Consensus pattern (126 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TTGAAGCGTATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
Found at i:44253131 original size:251 final size:250
Alignment explanation
Indices: 44252688--44253217 Score: 862
Period size: 251 Copynumber: 2.1 Consensus size: 250
44252678 GCCAAACATG
44252688 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGTGATTTCACAAATTCTTCTCAAAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGTGATTTCACAAATTCTTCTCAAAAAGCATCCTGC
* * * * *
44252753 TATAAGCTATTTTATACTATTTGCTCAGAAATGTCAACTCGAAATTATTTCTTTCAGGACCAACT
66 TAGAAGCGATTTTATACTATTTGCTCAAAAACGTCAACTCGAAATTATTTCTTCCAGGACCAACT
* * *
44252818 GTAGCAAAAGCGCGTCCACAAGGGCGCGATTTCAGAAATTCTTCTCAAATAGCATCCTGCTTGAA
131 ATAGCAAAAGCGCGTCCACAAGGGCGCGATTTCACAAATTCTTCACAAATAGCATCCTGCTTGAA
* *
44252883 GCGTTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATAATTTTTTCAAGAC
196 GCG-TTTTTTATACTATCTGCTCAGAAACGTCAACTCGAAATAATTTTTCCAAGAC
* * *
44252939 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGTGATTTCACAAATTCTTCTCATAAAGTATCCTGG
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGTGATTTCACAAATTCTTCTCAAAAAGCATCCTGC
*
44253004 TAGAAGCGATTTTATACTATTTGCTCAAAAACGTCAACTCGAAATTATTTCTTCCAGGATCAACT
66 TAGAAGCGATTTTATACTATTTGCTCAAAAACGTCAACTCGAAATTATTTCTTCCAGGACCAACT
** *
44253069 ATAGCAAAAGCGCGTCCAGGAGGGCGCGATTTCACAAATTCTTCACATATAGCATCCTGCTTGAA
131 ATAGCAAAAGCGCGTCCACAAGGGCGCGATTTCACAAATTCTTCACAAATAGCATCCTGCTTGAA
* *
44253134 GCGTTTTTTATACTATCTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
196 GCGTTTTTTATACTATCTGCTCAGAAACGTCAACTCGAAATAATTTTTCCAAGAC
* *
44253189 CTACTGTAGCAAAAACGCGTACACGTGGG
1 CTACTGTAGCAAAAGCGCGTCCACGTGGG
44253218 TGCGACTGCA
Statistics
Matches: 258, Mismatches: 21, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
250 75 0.29
251 183 0.71
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.30
Consensus pattern (250 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGCGTGATTTCACAAATTCTTCTCAAAAAGCATCCTGC
TAGAAGCGATTTTATACTATTTGCTCAAAAACGTCAACTCGAAATTATTTCTTCCAGGACCAACT
ATAGCAAAAGCGCGTCCACAAGGGCGCGATTTCACAAATTCTTCACAAATAGCATCCTGCTTGAA
GCGTTTTTTATACTATCTGCTCAGAAACGTCAACTCGAAATAATTTTTCCAAGAC
Found at i:44256769 original size:12 final size:11
Alignment explanation
Indices: 44256719--44256772 Score: 56
Period size: 12 Copynumber: 4.7 Consensus size: 11
44256709 AATTTTTATT
44256719 TTTTAAAAAAA
1 TTTTAAAAAAA
*
44256730 TTCTTAACAATAA
1 TT-TTAA-AAAAA
*
44256743 TTCT-AAAAAA
1 TTTTAAAAAAA
44256753 TTTTAAAAAAA
1 TTTTAAAAAAA
44256764 TCTTTAAAA
1 T-TTTAAAA
44256773 TAAAAATAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
10 7 0.20
11 10 0.29
12 12 0.34
13 6 0.17
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (11 bp):
TTTTAAAAAAA
Found at i:44259283 original size:42 final size:42
Alignment explanation
Indices: 44259224--44259307 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
44259214 AATGGACTAA
44259224 GAGTATTACACCACTTCATTGTATGGTCCATTCTTTAAATCC
1 GAGTATTACACCACTTCATTGTATGGTCCATTCTTTAAATCC
44259266 GAGTATTACACCACTTCATTGTATGGTCCATTCTTTAAATCC
1 GAGTATTACACCACTTCATTGTATGGTCCATTCTTTAAATCC
44259308 AAGGTAAACT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.38
Consensus pattern (42 bp):
GAGTATTACACCACTTCATTGTATGGTCCATTCTTTAAATCC
Found at i:44262416 original size:19 final size:19
Alignment explanation
Indices: 44262380--44262417 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
44262370 TTATGCTTGT
*
44262380 TTTTATTCTTTTATAATTA
1 TTTTATTCTATTATAATTA
44262399 TTTTATT-TATTATCAATTA
1 TTTTATTCTATTAT-AATTA
44262418 AAAAAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTTATTCTATTATAATTA
Found at i:44265477 original size:18 final size:18
Alignment explanation
Indices: 44265450--44265489 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
44265440 CAGATTTGTT
* *
44265450 TCCTAGCCCTTTTATGTA
1 TCCTAACCCTTATATGTA
*
44265468 TCCTAACCCTTATATGTT
1 TCCTAACCCTTATATGTA
44265486 TCCT
1 TCCT
44265490 TTTCCGAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.30, G:0.07, T:0.45
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:44265757 original size:21 final size:21
Alignment explanation
Indices: 44265731--44265777 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
44265721 CAACTCCGAC
44265731 AACCAG-ATGCCCTACCGGAAG
1 AACCAGAAT-CCCTACCGGAAG
* *
44265752 AACCAGAATCCCTGCCGGAGG
1 AACCAGAATCCCTACCGGAAG
44265773 AACCA
1 AACCA
44265778 CAACCGCCGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.34, C:0.34, G:0.23, T:0.09
Consensus pattern (21 bp):
AACCAGAATCCCTACCGGAAG
Found at i:44266056 original size:22 final size:22
Alignment explanation
Indices: 44266030--44266701 Score: 398
Period size: 22 Copynumber: 28.4 Consensus size: 22
44266020 AATTTAATTG
44266030 AAAAACCCTAACTCCTTAACCT
1 AAAAACCCTAACTCCTTAACCT
* * *
44266052 TAAAACTCTAAAC-CCATAACCT
1 AAAAACCCT-AACTCCTTAACCT
*
44266074 AAAAACCCTAACACCTTAACCT
1 AAAAACCCTAACTCCTTAACCT
*
44266096 AAAAACCCTAACCCTAACCCTTAACTT
1 AAAAACCCTAA--CT---CCTTAACCT
*
44266123 AAAAACCCTAACCCCTTAACCT
1 AAAAACCCTAACTCCTTAACCT
* *
44266145 AAAAA-CCTAAAACCTTAAACTCTAAACTT
1 AAAAACCCT--AA-C-T--CCT-TAA-CCT
* *
44266174 AAAAACCCTAACACTTTAACCT
1 AAAAACCCTAACTCCTTAACCT
*
44266196 AAAAACTCC-AACCCTAACCCTTAACTT
1 AAAAAC-CCTAA--CT---CCTTAACCT
*
44266223 AAAAACCCTAACACCTTAACCT
1 AAAAACCCTAACTCCTTAACCT
*
44266245 AAAAATCCC-AACCCTAACCCTTAACTT
1 AAAAA-CCCTAA--CT---CCTTAACCT
* *
44266272 AAAAACCCTAACACCTTCACCT
1 AAAAACCCTAACTCCTTAACCT
*
44266294 AAAAACCCTAACCCTAACCCTTAACTT
1 AAAAACCCTAA--CT---CCTTAACCT
*
44266321 AAAAACCCTAACACCTTAACCT
1 AAAAACCCTAACTCCTTAACCT
* *
44266343 AAAAACCCCAACCCTAACCGTTAACTT
1 AAAAACCCTAA--CT--CC-TTAACCT
* *
44266370 AAAAACCTTAACCCCTTAACCT
1 AAAAACCCTAACTCCTTAACCT
*
44266392 AAAAACCCTAACTCTAACCCTTAACTT
1 AAAAACCCTAA--CT---CCTTAACCT
44266419 AAAAACCCTAAC-CCTTAACCT
1 AAAAACCCTAACTCCTTAACCT
*
44266440 AAAAACCCTAACCCTAACCCTTAACTT
1 AAAAACCCTAA--CT---CCTTAACCT
*
44266467 AAAAACCCTAACACCTTAACCT
1 AAAAACCCTAACTCCTTAACCT
* * *
44266489 AAAAACCCCAACCCTAACTGTTAACTT
1 AAAAACCCTAA--CT--C-CTTAACCT
44266516 AAAAACCCTAA-TCCATTAACCT
1 AAAAACCCTAACTCC-TTAACCT
*
44266538 -AAAACCCTAAAC-CCTTAACTT
1 AAAAACCCT-AACTCCTTAACCT
*
44266559 AAAAACACTAA-TCCCTTAACCT
1 AAAAACCCTAACT-CCTTAACCT
*
44266581 GAAAACCCTAAC-CCTTTAACCT
1 AAAAACCCTAACTCC-TTAACCT
*
44266603 AAAAACCCTAAC-CCTTAACTT
1 AAAAACCCTAACTCCTTAACCT
*
44266624 AAAAACCCTAACCCCTTAACCT
1 AAAAACCCTAACTCCTTAACCT
*
44266646 -AAAACCCTAACCCTAACCCTTAACTT
1 AAAAACCCTAA--CT---CCTTAACCT
*
44266672 AAAAACCCTAAC-CCTTAACTT
1 AAAAACCCTAACTCCTTAACCT
*
44266693 TAAAACCCT
1 AAAAACCCT
44266702 CACTGGTTGA
Statistics
Matches: 515, Mismatches: 64, Indels: 143
0.71 0.09 0.20
Matches are distributed among these distances:
21 88 0.17
22 212 0.41
23 17 0.03
24 10 0.02
25 8 0.02
26 16 0.03
27 149 0.29
28 5 0.01
29 7 0.01
30 3 0.01
ACGTcount: A:0.43, C:0.35, G:0.00, T:0.22
Consensus pattern (22 bp):
AAAAACCCTAACTCCTTAACCT
Found at i:44266070 original size:49 final size:48
Alignment explanation
Indices: 44266030--44266695 Score: 734
Period size: 49 Copynumber: 13.9 Consensus size: 48
44266020 AATTTAATTG
* * * *
44266030 AAAAACCCTAACTCCTTAACCTTAAAACTCTAAACCC--A---TAACCT
1 AAAAACCCTAACACCTTAACCTAAAAACCCT-AACCCTAACCTTAACTT
44266074 AAAAACCCTAACACCTTAACCTAAAAACCCTAACCCTAACCCTTAACTT
1 AAAAACCCTAACACCTTAACCTAAAAACCCTAACCCTAA-CCTTAACTT
* * *
44266123 AAAAACCCTAACCCCTTAACCTAAAAA-CCTAAAACCTTAAACTCTAAACTT
1 AAAAACCCTAACACCTTAACCTAAAAACCCT--AACCCT-AAC-CTTAACTT
*
44266174 AAAAACCCTAACACTTTAACCTAAAAACTCC-AACCCTAACCCTTAACTT
1 AAAAACCCTAACACCTTAACCTAAAAAC-CCTAACCCTAA-CCTTAACTT
44266223 AAAAACCCTAACACCTTAACCTAAAAATCCC-AACCCTAACCCTTAACTT
1 AAAAACCCTAACACCTTAACCTAAAAA-CCCTAACCCTAA-CCTTAACTT
*
44266272 AAAAACCCTAACACCTTCACCTAAAAACCCTAACCCTAACCCTTAACTT
1 AAAAACCCTAACACCTTAACCTAAAAACCCTAACCCTAA-CCTTAACTT
*
44266321 AAAAACCCTAACACCTTAACCTAAAAACCCCAACCCTAACCGTTAACTT
1 AAAAACCCTAACACCTTAACCTAAAAACCCTAACCCTAACC-TTAACTT
* * *
44266370 AAAAACCTTAACCCCTTAACCTAAAAACCCTAACTCTAACCCTTAACTT
1 AAAAACCCTAACACCTTAACCTAAAAACCCTAACCCTAA-CCTTAACTT
44266419 AAAAACCCTAAC-CCTTAACCTAAAAACCCTAACCCTAACCCTTAACTT
1 AAAAACCCTAACACCTTAACCTAAAAACCCTAACCCTAA-CCTTAACTT
* *
44266467 AAAAACCCTAACACCTTAACCTAAAAACCCCAACCCTAACTGTTAACTT
1 AAAAACCCTAACACCTTAACCTAAAAACCCTAACCCTAAC-CTTAACTT
* *
44266516 AAAAACCCTAATC-CATTAACCT-AAAACCCTAA----ACCCTTAACTT
1 AAAAACCCTAA-CACCTTAACCTAAAAACCCTAACCCTAACCTTAACTT
* * *
44266559 AAAAACACTAATC-CCTTAACCTGAAAACCCTAACCCT----TTAACCT
1 AAAAACCCTAA-CACCTTAACCTAAAAACCCTAACCCTAACCTTAACTT
* * *
44266603 AAAAACCCTAAC-CCTTAACTTAAAAACCCTAACCCCTTAACCTAAAACCCT
1 AAAAACCCTAACACCTTAACCTAAAAACCCTAA-CCC-TAACCT-TAA-CTT
* *
44266654 ---AACCCTAAC-CCTTAACTTAAAAACCCTAACCCTTAACTTTAA
1 AAAAACCCTAACACCTTAACCTAAAAACCCTAACCC-TAACCTTAA
44266696 AACCCTCACT
Statistics
Matches: 553, Mismatches: 36, Indels: 64
0.85 0.06 0.10
Matches are distributed among these distances:
43 51 0.09
44 59 0.11
45 2 0.00
46 2 0.00
47 9 0.02
48 94 0.17
49 279 0.50
50 18 0.03
51 37 0.07
53 2 0.00
ACGTcount: A:0.43, C:0.35, G:0.00, T:0.22
Consensus pattern (48 bp):
AAAAACCCTAACACCTTAACCTAAAAACCCTAACCCTAACCTTAACTT
Found at i:44266446 original size:15 final size:15
Alignment explanation
Indices: 44266428--44266475 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
44266418 TAAAAACCCT
44266428 AACCCTTAACCTAAA
1 AACCCTTAACCTAAA
44266443 AACCC-TAACCCT---
1 AACCCTTAA-CCTAAA
*
44266455 AACCCTTAACTTAAA
1 AACCCTTAACCTAAA
44266470 AACCCT
1 AACCCT
44266476 AACACCTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
12 7 0.26
13 3 0.11
14 3 0.11
15 14 0.52
ACGTcount: A:0.42, C:0.38, G:0.00, T:0.21
Consensus pattern (15 bp):
AACCCTTAACCTAAA
Found at i:44266697 original size:48 final size:48
Alignment explanation
Indices: 44266606--44266701 Score: 167
Period size: 48 Copynumber: 2.0 Consensus size: 48
44266596 TTAACCTAAA
44266606 AACCCTAACCCTTAACTTAAAAACCCTAACCCCTTAACCTAAAACCCT
1 AACCCTAACCCTTAACTTAAAAACCCTAACCCCTTAACCTAAAACCCT
*
44266654 AACCCTAACCCTTAACTTAAAAACCCTAA-CCCTTAACTTTAAAACCCT
1 AACCCTAACCCTTAACTTAAAAACCCTAACCCCTTAAC-CTAAAACCCT
44266702 CACTGGTTGA
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
47 8 0.17
48 38 0.83
ACGTcount: A:0.40, C:0.38, G:0.00, T:0.23
Consensus pattern (48 bp):
AACCCTAACCCTTAACTTAAAAACCCTAACCCCTTAACCTAAAACCCT
Found at i:44267707 original size:127 final size:125
Alignment explanation
Indices: 44267427--44267819 Score: 538
Period size: 126 Copynumber: 3.1 Consensus size: 125
44267417 CCCAAACATG
* * * *
44267427 CTACTGTAGAAAAAGCGCATCCACGTGGGTGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
* * * * * * *
44267492 TAGAAGCG-ATTTTATACTGTTTGCTTAGAAACGCCAAGTCAAAATTATTTTTCCAAGAC
66 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAAGAC
* * * *
44267551 CTATTATAGCAAAAGCGCGTCCACAAGGGCGCGATTTCACAAATTCTTCTTA-AATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTG
* * *
44267615 CTTGCAGCGTTGTTTTATATTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
65 CTTGAAGCGTT-TTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAAGAC
* * * *
44267678 CAACTGTAGCAAAAGCGCGTCCATGAGGGCGCGATTTCAAAAATTCTTCTCATAAAGCATCCTTC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
*
44267743 TTGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAAGAC
66 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAAGAC
44267803 CTACTGTAGCAAAAGCG
1 CTACTGTAGCAAAAGCG
44267820 AGTACATGTG
Statistics
Matches: 233, Mismatches: 31, Indels: 9
0.85 0.11 0.03
Matches are distributed among these distances:
123 2 0.01
124 60 0.26
125 24 0.10
126 74 0.32
127 71 0.30
128 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAAGAC
Found at i:44289347 original size:17 final size:18
Alignment explanation
Indices: 44289315--44289348 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
44289305 TGAAATCATG
44289315 ATAATTACACATTTAAAA
1 ATAATTACACATTTAAAA
*
44289333 ATAATTAGA-ATTTAAA
1 ATAATTACACATTTAAA
44289349 CAATTATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (18 bp):
ATAATTACACATTTAAAA
Found at i:44293946 original size:8 final size:8
Alignment explanation
Indices: 44293933--44293957 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
44293923 ACTAAATTGC
44293933 AAAGTTTA
1 AAAGTTTA
44293941 AAAGTTTA
1 AAAGTTTA
44293949 AAAGTTTA
1 AAAGTTTA
44293957 A
1 A
44293958 GGCCGAAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.36
Consensus pattern (8 bp):
AAAGTTTA
Found at i:44296330 original size:14 final size:14
Alignment explanation
Indices: 44296311--44296351 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
44296301 TGATTAAAGA
* *
44296311 TTAATTAATTTAGT
1 TTAATTAATTAAGC
44296325 TTAATTAACTTAAGC
1 TTAATTAA-TTAAGC
44296340 TTAATTAATTAA
1 TTAATTAATTAA
44296352 CCATTAAGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (14 bp):
TTAATTAATTAAGC
Found at i:44298983 original size:30 final size:30
Alignment explanation
Indices: 44298925--44298983 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
44298915 TATTATATGT
**
44298925 TAATTAATTAAGGTAATTAAGGTAAAAACA
1 TAATTAATTAAGGTAATTAACCTAAAAACA
* * *
44298955 TAATTAATTATGTTAATTAACCTTAAAAC
1 TAATTAATTAAGGTAATTAACCTAAAAAC
44298984 TAAGTATATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.49, C:0.07, G:0.08, T:0.36
Consensus pattern (30 bp):
TAATTAATTAAGGTAATTAACCTAAAAACA
Found at i:44299247 original size:11 final size:11
Alignment explanation
Indices: 44299231--44299260 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
44299221 GATAATTAGA
*
44299231 TGAAATTGGTG
1 TGAAATTGATG
44299242 TGAAATTGATG
1 TGAAATTGATG
44299253 TGAAATTG
1 TGAAATTG
44299261 CTAGAAGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.30, T:0.37
Consensus pattern (11 bp):
TGAAATTGATG
Found at i:44300246 original size:20 final size:19
Alignment explanation
Indices: 44300217--44300255 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
44300207 TAAGGTTATA
44300217 AACATATGAATTAACTAAAT
1 AACATATGAATTAA-TAAAT
*
44300237 AACATGTGAATTAATAAAT
1 AACATATGAATTAATAAAT
44300256 GAAACAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.31
Consensus pattern (19 bp):
AACATATGAATTAATAAAT
Found at i:44303603 original size:21 final size:21
Alignment explanation
Indices: 44303558--44303597 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
44303548 AAAATGTTAC
*
44303558 TAAATTTATCATAAAAAATTA
1 TAAATTTATCATAAAAAATAA
44303579 TAAATTT-T-ATAAAAAATAA
1 TAAATTTATCATAAAAAATAA
44303598 ATTAAAAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 1 0.06
21 7 0.39
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (21 bp):
TAAATTTATCATAAAAAATAA
Found at i:44306004 original size:13 final size:13
Alignment explanation
Indices: 44305944--44306004 Score: 52
Period size: 13 Copynumber: 4.7 Consensus size: 13
44305934 TAAACCAAAA
* *
44305944 TTTTTAAAAATAC
1 TTTTCAAAAACAC
*
44305957 TTATCAAAATA-AC
1 TTTTCAAAA-ACAC
*
44305970 TTTTCTAAAACAC
1 TTTTCAAAAACAC
*
44305983 TTTTTAAAAACAC
1 TTTTCAAAAACAC
*
44305996 TTCTCAAAA
1 TTTTCAAAA
44306005 GTAATGTTAA
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
12 1 0.03
13 36 0.95
14 1 0.03
ACGTcount: A:0.46, C:0.16, G:0.00, T:0.38
Consensus pattern (13 bp):
TTTTCAAAAACAC
Found at i:44309745 original size:23 final size:22
Alignment explanation
Indices: 44309706--44309749 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
44309696 ATTCGTTTTT
* *
44309706 TTATTTTTTTACTATTATTATA
1 TTATTTTATTACAATTATTATA
44309728 TTATTATTATTACAATTATTAT
1 TTATT-TTATTACAATTATTAT
44309750 TTCTATGTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.64
Consensus pattern (22 bp):
TTATTTTATTACAATTATTATA
Found at i:44315329 original size:21 final size:21
Alignment explanation
Indices: 44315290--44315329 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
44315280 ATAATATTAA
* *
44315290 TTTCAATATTAATTGTAAAAT
1 TTTCAATATTAACTATAAAAT
44315311 TTTCAATATTAACTATAAA
1 TTTCAATATTAACTATAAA
44315330 TTATGGCGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (21 bp):
TTTCAATATTAACTATAAAAT
Found at i:44321307 original size:43 final size:42
Alignment explanation
Indices: 44321241--44321397 Score: 158
Period size: 43 Copynumber: 3.7 Consensus size: 42
44321231 GGCTCGTACA
* *
44321241 ATGCCAACGTCCCAAAC-GTGGTCTTACATGTAATCAAATAACG
1 ATGCCAATGTCCCAGACAG-GGTCTTACATGTAATCAAAT-ACG
* *
44321284 ATGCCACTGTCCCAGACAGGGTCTTACATGTAATCATATACG
1 ATGCCAATGTCCCAGACAGGGTCTTACATGTAATCAAATACG
** * *
44321326 ACACCAATGTCCCAGACATGGTCTTACACGTAAATCTCAAAT-CG
1 ATGCCAATGTCCCAGACAGGGTCTTACATGT-AA--TCAAATACG
*
44321370 ATGCCAATGTCCTAGAC-GTGGTCTTACA
1 ATGCCAATGTCCCAGACAG-GGTCTTACA
44321398 CGATATCACA
Statistics
Matches: 95, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
42 29 0.31
43 35 0.37
44 26 0.27
45 5 0.05
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACAGGGTCTTACATGTAATCAAATACG
Found at i:44326235 original size:16 final size:16
Alignment explanation
Indices: 44326206--44326275 Score: 113
Period size: 16 Copynumber: 4.4 Consensus size: 16
44326196 TTTGGTTCGC
*
44326206 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
* *
44326222 CGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
44326238 TGTAATGGATTAGAGG
1 TGTAATGGATTAGAGG
44326254 TGTAATGGATTAGAGG
1 TGTAATGGATTAGAGG
44326270 TGTAAT
1 TGTAAT
44326276 AGCAAATCAA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.31, C:0.01, G:0.36, T:0.31
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:44326320 original size:45 final size:44
Alignment explanation
Indices: 44326254--44326344 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
44326244 GGATTAGAGG
* *
44326254 TGTAATGGATTAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* ***
44326299 TGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
44326343 TG
1 TG
44326345 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 18 0.45
45 22 0.55
ACGTcount: A:0.31, C:0.05, G:0.29, T:0.35
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:44326523 original size:16 final size:17
Alignment explanation
Indices: 44326486--44326523 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
44326476 ATTTAATCAT
44326486 ATTTAAACATAATTATA
1 ATTTAAACATAATTATA
*
44326503 A-TTAAATAT-ATTATA
1 ATTTAAACATAATTATA
44326518 ATTTAA
1 ATTTAA
44326524 TAAAATTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 7 0.37
16 11 0.58
17 1 0.05
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTTAAACATAATTATA
Found at i:44326559 original size:22 final size:21
Alignment explanation
Indices: 44326469--44326754 Score: 83
Period size: 22 Copynumber: 14.0 Consensus size: 21
44326459 ATTATCAATA
* *
44326469 ATAA-ATAATTTAATCATATT
1 ATAATATAATTTAATAAAATT
* *
44326489 -TAAACATAATTATAATTAAA-T
1 AT-AATATAATT-TAATAAAATT
*
44326510 ATATTATAATTTAATAAAATT
1 ATAATATAATTTAATAAAATT
* * *
44326531 CTTATATGAATTTACTAAAATT
1 ATAATAT-AATTTAATAAAATT
**
44326553 ATAATAT-A--TAATAGTA-T
1 ATAATATAATTTAATAAAATT
*
44326570 AAAATATAATTTAAAATAATAATT
1 ATAATATAATTT--AATAA-AATT
44326594 ATTAAATATAATTTAAT-AAA--
1 A-T-AATATAATTTAATAAAATT
44326614 A-AATATAATTTAATAAAATT
1 ATAATATAATTTAATAAAATT
* * *
44326634 CTTA-AT-A-TTAA-AATATT
1 ATAATATAATTTAATAAAATT
* * * *
44326651 CTTATATGAATTTACTAAAATC
1 ATAATAT-AATTTAATAAAATT
*
44326673 ATAATAT-ATAATACTATAAAA-T
1 ATAATATAAT-TTA--ATAAAATT
* ** **
44326695 ATAATCTAAAATAATTATTATT
1 ATAATATAATTTAA-TAAAATT
*
44326717 A-AATATAATTTAATATAA--
1 ATAATATAATTTAATAAAATT
44326735 AT-ATATAATTTAATAAAATT
1 ATAATATAATTTAATAAAATT
44326755 CTTAGTATTA
Statistics
Matches: 195, Mismatches: 38, Indels: 66
0.65 0.13 0.22
Matches are distributed among these distances:
17 29 0.15
18 31 0.16
19 2 0.01
20 22 0.11
21 37 0.19
22 51 0.26
23 8 0.04
24 5 0.03
26 10 0.05
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.42
Consensus pattern (21 bp):
ATAATATAATTTAATAAAATT
Found at i:44326593 original size:13 final size:12
Alignment explanation
Indices: 44326569--44326609 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
44326559 TATAATAGTA
44326569 TAAAATATAATT
1 TAAAATATAATT
44326581 TAAAATAATAATT
1 TAAAAT-ATAATT
*
44326594 ATTAAATATAATT
1 -TAAAATATAATT
44326607 TAA
1 TAA
44326610 TAAAAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 8 0.32
13 12 0.48
14 5 0.20
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAAAATATAATT
Found at i:44326619 original size:17 final size:17
Alignment explanation
Indices: 44326597--44326631 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
44326587 AATAATTATT
44326597 AAATATAATTTAATAAA
1 AAATATAATTTAATAAA
44326614 AAATATAATTTAATAAA
1 AAATATAATTTAATAAA
44326631 A
1 A
44326632 TTCTTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAATATAATTTAATAAA
Found at i:44326742 original size:18 final size:17
Alignment explanation
Indices: 44326719--44326753 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
44326709 TTATTATTAA
44326719 ATATAATTTAATATAAAT
1 ATATAATTTAATA-AAAT
44326737 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
44326754 TCTTAGTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:44326812 original size:61 final size:60
Alignment explanation
Indices: 44326524--44326814 Score: 192
Period size: 61 Copynumber: 4.8 Consensus size: 60
44326514 TATAATTTAA
* * *
44326524 TAAA-ATTCTTATATGAATTTACTAAAATTATAATATATAATAGTATAAAA-T-ATAAT-T
1 TAAATATTCTTATA-GAATTTACTAAAATCATAATATATAATACTATAAAATTCTTAATAT
** * * ** * * *
44326581 TAAAATAATAATTATTA-AATATAATTTAAT-AAAAAATATAAT-TTAATAAAATTCTTAATAT
1 T-AAAT-ATTCTTA-TAGAATTTACTAAAATCATAATATATAATACT-ATAAAATTCTTAATAT
* *
44326642 TAAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAA-T-ATAATCT
1 T-AAATATTCTTATA-GAATTTACTAAAATCATAATATATAATACTATAAAATTCTTAATAT
* * * * ** * *
44326702 AAAATAATTATTATTA-AATATAATTTAAT-ATAAATATATAAT-TTAATAAAATTCTTAGTAT
1 TAAAT-ATTCTTA-TAGAATTTACTAAAATCAT-AATATATAATACT-ATAAAATTCTTAATAT
44326763 TAAATATTCTTATACGAATTTACTAAAATCATAATATATAATACTATAAAAT
1 TAAATATTCTTATA-GAATTTACTAAAATCATAATATATAATACTATAAAAT
44326815 ATAATCTAAA
Statistics
Matches: 174, Mismatches: 38, Indels: 40
0.69 0.15 0.16
Matches are distributed among these distances:
57 2 0.01
58 22 0.13
59 43 0.25
60 32 0.18
61 55 0.32
62 19 0.11
63 1 0.01
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (60 bp):
TAAATATTCTTATAGAATTTACTAAAATCATAATATATAATACTATAAAATTCTTAATAT
Found at i:44326830 original size:120 final size:119
Alignment explanation
Indices: 44326524--44326830 Score: 526
Period size: 120 Copynumber: 2.6 Consensus size: 119
44326514 TATAATTTAA
* * *
44326524 TAAA-ATTCTTATATGAATTTACTAAAATTATAATATATAATAGTATAAAATATAATTTAAAATA
1 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAAATA
*
44326588 ATAATTATTAAATATAATTTAATAAAAAATATAATTTAATAAAATTCTTAATAT
66 ATTATTATTAAATATAATTTAATAAAAAATATAATTTAATAAAATTCTTAATAT
44326642 TAAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAAAT
1 T-AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAAAT
* *
44326707 AATTATTATTAAATATAATTTAATATAAATATATAATTTAATAAAATTCTTAGTAT
65 AATTATTATTAAATATAATTTAATA-AAAAATATAATTTAATAAAATTCTTAATAT
*
44326763 TAAATATTCTTATACGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAAATA
1 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAAATA
44326828 ATT
66 ATT
44326831 GATTTTGTGG
Statistics
Matches: 179, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
118 1 0.01
119 3 0.02
120 146 0.82
121 29 0.16
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (119 bp):
TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAAATA
ATTATTATTAAATATAATTTAATAAAAAATATAATTTAATAAAATTCTTAATAT
Found at i:44328330 original size:13 final size:13
Alignment explanation
Indices: 44328314--44328343 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
44328304 TAGACCAAGC
44328314 TTTTCAAAAGCAT
1 TTTTCAAAAGCAT
*
44328327 TTTTCATAAGCAT
1 TTTTCAAAAGCAT
44328340 TTTT
1 TTTT
44328344 TGCAGCACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.13, G:0.07, T:0.50
Consensus pattern (13 bp):
TTTTCAAAAGCAT
Found at i:44332266 original size:120 final size:120
Alignment explanation
Indices: 44332125--44332602 Score: 865
Period size: 120 Copynumber: 4.0 Consensus size: 120
44332115 TAGATTATAT
* *
44332125 ATTAT-TTTTATAGTATTATATATTATGATTTTAGGAAATTCATATAATAATATTTAATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
*
44332189 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATTATTATTTTAA
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
44332244 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATAT-AGTAATATTTAATATTAA
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAG-AATATTTAATATTAA
44332308 GAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
65 GAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
*
44332364 ATTATATTTTATATTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
44332429 AATTTTA-TAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
*
44332483 ATTAAATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
*
44332548 AATTTTATTAAATTATATA-TTTTATTAAATTATATTTAATAATAATTATGTTAA
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
44332602 A
1 A
44332603 ATATGATTAA
Statistics
Matches: 348, Mismatches: 7, Indels: 8
0.96 0.02 0.02
Matches are distributed among these distances:
119 158 0.45
120 188 0.54
121 2 0.01
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (120 bp):
ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
Found at i:44332550 original size:239 final size:238
Alignment explanation
Indices: 44332125--44332602 Score: 861
Period size: 239 Copynumber: 2.0 Consensus size: 238
44332115 TAGATTATAT
*
44332125 ATTATTTTTATAGTATTATATATTATGATTTTAGGAAATTCATATAATAATATTTAATATTAAGA
1 ATTATTTTTATAGTATTATATATTATGATTTTAGGAAATTCATATAAGAATATTTAATATTAAGA
* *
44332190 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATTATTATTTTAAATTATATTTTA
66 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTAAATTTTA
44332255 TAGTATTATATATTATGATTTTAGTAAATTCATATAGTAATATTTAATATTAAGAATTTTATTAA
131 TAGTATTATATATTATGATTTTAGTAAATTCATATAGTAATATTTAATATTAAGAATTTTATTAA
*
44332320 ATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
196 ATTATATA-TTTTATTAAATTATATTTAATAATAATTATGTTAA
* *
44332364 ATTATATTTTATATTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
1 ATTAT-TTTTATAGTATTATATATTATGATTTTAGGAAATTCATATAAGAATATTTAATATTAAG
44332429 AATTTTA-TAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTAAATTTT
65 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTAAATTTT
44332493 ATAGTATTATATATTATGATTTTAGTAAATTCATATAAG-AATATTTAATATTAAGAATTTTATT
130 ATAGTATTATATATTATGATTTTAGTAAATTCATAT-AGTAATATTTAATATTAAGAATTTTATT
44332557 AAATTATATATTTTATTAAATTATATTTAATAATAATTATGTTAA
194 AAATTATATATTTTATTAAATTATATTTAATAATAATTATGTTAA
44332602 A
1 A
44332603 ATATGATTAA
Statistics
Matches: 231, Mismatches: 6, Indels: 5
0.95 0.02 0.02
Matches are distributed among these distances:
238 35 0.15
239 131 0.57
240 65 0.28
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (238 bp):
ATTATTTTTATAGTATTATATATTATGATTTTAGGAAATTCATATAAGAATATTTAATATTAAGA
ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTAAATTTTA
TAGTATTATATATTATGATTTTAGTAAATTCATATAGTAATATTTAATATTAAGAATTTTATTAA
ATTATATATTTTATTAAATTATATTTAATAATAATTATGTTAA
Found at i:44332565 original size:22 final size:18
Alignment explanation
Indices: 44332549--44332583 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
44332539 AATATTAAGA
44332549 ATTTTATTAAATTATA-T
1 ATTTTATTAAATTATATT
44332566 ATTTTATTAAATTATATT
1 ATTTTATTAAATTATATT
44332584 TAATAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 16 0.94
18 1 0.06
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
ATTTTATTAAATTATATT
Found at i:44332802 original size:44 final size:45
Alignment explanation
Indices: 44332739--44332835 Score: 135
Period size: 45 Copynumber: 2.2 Consensus size: 45
44332729 CTATTACACC
*
44332739 TCCATTCCATTCAACCAAACACA-AGA-ATACTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACA-ATAGATATACTATTACGCCTCTAT
* * *
44332783 TCCATTACATTCAACCAAACAATTGATTTGCTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACAATAGATATACTATTACGCCTCTAT
44332828 TCCATTAC
1 TCCATTAC
44332836 GCTTCTATTC
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
43 1 0.02
44 22 0.47
45 24 0.51
ACGTcount: A:0.33, C:0.30, G:0.05, T:0.32
Consensus pattern (45 bp):
TCCATTACATTCAACCAAACAATAGATATACTATTACGCCTCTAT
Found at i:44332836 original size:16 final size:16
Alignment explanation
Indices: 44332815--44332863 Score: 89
Period size: 16 Copynumber: 3.1 Consensus size: 16
44332805 TTGATTTGCT
44332815 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
44332831 ATTACGCTTCTATTCC
1 ATTACGCCTCTATTCC
44332847 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
44332863 A
1 A
44332864 ATACATCGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.20, C:0.35, G:0.06, T:0.39
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:44334660 original size:110 final size:109
Alignment explanation
Indices: 44334259--44334664 Score: 559
Period size: 108 Copynumber: 3.7 Consensus size: 109
44334249 ATACGAAAAA
* * *
44334259 GAAAAAAAGAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGTACCCAGTAAACAGTAAA
1 GAAAAAAATAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGAACAGTAAA
*
44334324 TTTTTTTTTCTTTTTTTT-GTGTCAGAGTCAGATATAAAAATAC
66 TTTTTTTTTCTTTTTTTTCGTGTCAGAATCAGATATAAAAATAC
** *** * *
44334367 GAAAAAAA-ATTTAAAATTTTTTTTGGTGCTGGTCTGTCAATGGCCGGCACCCAGTGAACAGT-A
1 GAAAAAAATA-AAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGAACAGTAA
44334430 ATTTTTTTTTCTTTTTTTTCGTGTCAGAATCAGATATAAAAATAC
65 ATTTTTTTTTCTTTTTTTTCGTGTCAGAATCAGATATAAAAATAC
* * *
44334475 GAAAAAAATAAAAAATAAAATTTTTTTTTGGTGCTGGCCTTTCAATGGCTGGCACCCAGTGAACA
1 GAAAAAAATAAAAAA-AAAA----TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGAACA
*
44334540 GTAAAATTTTTTTTTCTTTTTTTTTCGTGTCAGAATCATATATAAAAATAC
61 GT-AAATTTTTTTTTC-TTTTTTTTCGTGTCAGAATCAGATATAAAAATAC
* *
44334591 GAAAAAAATAAAAAAAAAA-TTTGGGTGTTGGCCTGTCAATGGCCGGCACCTAGTGAACAGTAAA
1 GAAAAAAATAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGAACAGTAAA
44334655 TTTTTTTTTC
66 TTTTTTTTTC
44334665 GTCAATGGCC
Statistics
Matches: 263, Mismatches: 24, Indels: 21
0.85 0.08 0.07
Matches are distributed among these distances:
107 21 0.08
108 86 0.33
109 15 0.06
110 37 0.14
113 40 0.15
115 16 0.06
116 48 0.18
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.35
Consensus pattern (109 bp):
GAAAAAAATAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGAACAGTAAA
TTTTTTTTTCTTTTTTTTCGTGTCAGAATCAGATATAAAAATAC
Found at i:44334684 original size:40 final size:40
Alignment explanation
Indices: 44334625--44334704 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
44334615 GTGTTGGCCT
*
44334625 GTCAATGGCCGGCACCTAGTGAACAGTAAATTTTTTTTTC
1 GTCAATGGCCGGCACCTAGTGAACAGTAAAATTTTTTTTC
*
44334665 GTCAATGGCCGGCAGCTAGTGAACAGTAAAATTTTTTTTC
1 GTCAATGGCCGGCACCTAGTGAACAGTAAAATTTTTTTTC
44334705 TTTTTTTTTC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (40 bp):
GTCAATGGCCGGCACCTAGTGAACAGTAAAATTTTTTTTC
Found at i:44334780 original size:371 final size:372
Alignment explanation
Indices: 44334294--44334970 Score: 972
Period size: 371 Copynumber: 1.8 Consensus size: 372
44334284 GTGCTGGCCT
* * *
44334294 GTCAATGGCCGGTACCCAGTAAACAGTAAATTTTTTTTTCTTTTTTTTGTGTCAGAGTCAGATAT
1 GTCAATGGCCGGCACCCAGTAAACAGTAAAATTTTTTTTCTTTTTTTTGTGTCAGAATCAGATAT
* **** * * *
44334359 AAAAATACGAAAAAAAATTTAAAATTTTTTTTGGTGCTGGTCTGTCAATGGCCGGCACCCAGTGA
66 AAAAATACGAAAAAAAATTAAAAAAAAATTTGGGTGCTGGCCTATCAATGGCCGGCACCCAGTGA
* *
44334424 ACAGTAATTTTTTTTTC-TTTTTTTTCGTGTCAGAATCAGATATAAAAATACGAAAAAAAT-AAA
131 ACAGTAAATTTTTTTTCTTTTTTTTTCATGTCAGAATCAGATATAAAAATAC-AAAAAAATAAAA
** * * * * **
44334487 AAAT-AAAATTTTTTTTTGGTGCTGGCCTTTCAATGGCTGGCACCCAGTGA-ACAGTAAAATTTT
195 AAATAAAAAACTTTTTTGGGTGCTGGCCTGTCAATGGCCGACACCCAGT-ACACAGTAAAA--AA
** *
44334550 TTTTTCTTTT-TTTTTCGTGTCAGAATCATATATAAAAATACGAAAAAAATAAAAAAAAAATTTG
257 AATTTCTTTTCTTTTTCGTGTCAGAATCAGATATAAAAATACGAAAAAAATAAAAAAAAAATTTG
44334614 GGTGTTGGCCTGTCAATGGCCGGCACCTAGTGAACAGTAAATTTTTTTTTC
322 GGTGTTGGCCTGTCAATGGCCGGCACCTAGTGAACAGTAAATTTTTTTTTC
* * *
44334665 GTCAATGGCCGGCAGCTAGTGAACAGTAAAATTTTTTTTCTTTTTTTTTCGTGTCAGAATCAGAT
1 GTCAATGGCCGGCACCCAGTAAACAGTAAAATTTTTTTTC-TTTTTTTT-GTGTCAGAATCAGAT
*
44334730 ATAAAAATACG-AAAAAAA-TAAAAAAAAATTTGGGTGCTGGCCTATCAATGGCTGGCACCCAGT
64 ATAAAAATACGAAAAAAAATTAAAAAAAAATTTGGGTGCTGGCCTATCAATGGCCGGCACCCAGT
44334793 GAACAGTAAATTTTTTTTCTTTTTTTTTCATGTCAGAATCAGATATAAAAATACAAAAAAATAAA
129 GAACAGTAAATTTTTTTTCTTTTTTTTTCATGTCAGAATCAGATATAAAAATACAAAAAAATAAA
44334858 AAAATAAAAAACTTTTTTGGGTGCTGGCCTGTCAATGGCCGACACCCAGTACACAGTAAAAAAAA
194 AAAATAAAAAACTTTTTTGGGTGCTGGCCTGTCAATGGCCGACACCCAGTACACAGTAAAAAAAA
* **
44334923 TTTCTTTTCTTTTTTGTGTCAGAATTGGATATAAAAATACGAAAAAAA
259 TTTCTTTTCTTTTTCGTGTCAGAATCAGATATAAAAATACGAAAAAAA
44334971 AATTGTAGGA
Statistics
Matches: 268, Mismatches: 31, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
371 105 0.39
372 91 0.34
373 72 0.27
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (372 bp):
GTCAATGGCCGGCACCCAGTAAACAGTAAAATTTTTTTTCTTTTTTTTGTGTCAGAATCAGATAT
AAAAATACGAAAAAAAATTAAAAAAAAATTTGGGTGCTGGCCTATCAATGGCCGGCACCCAGTGA
ACAGTAAATTTTTTTTCTTTTTTTTTCATGTCAGAATCAGATATAAAAATACAAAAAAATAAAAA
AATAAAAAACTTTTTTGGGTGCTGGCCTGTCAATGGCCGACACCCAGTACACAGTAAAAAAAATT
TCTTTTCTTTTTCGTGTCAGAATCAGATATAAAAATACGAAAAAAATAAAAAAAAAATTTGGGTG
TTGGCCTGTCAATGGCCGGCACCTAGTGAACAGTAAATTTTTTTTTC
Found at i:44334794 original size:148 final size:150
Alignment explanation
Indices: 44334516--44334810 Score: 504
Period size: 148 Copynumber: 2.0 Consensus size: 150
44334506 TGCTGGCCTT
* *
44334516 TCAATGGCTGGCACCCAGTGAACAGTAAAATTTTTTTTTCTTTTTTTTTCGTGTCAGAATCATAT
1 TCAATGGCCGGCACCCAGTGAACAGTAAAATTTTTTTTTCTTTTTTTTTCGTGTCAGAATCAGAT
* * *
44334581 ATAAAAATACGAAAAAAATAAAAAAAAAATTTGGGTGTTGGCCTGTCAATGGCCGGCACCTAGTG
66 ATAAAAATACGAAAAAAATAAAAAAAAAATTTGGGTGCTGGCCTATCAATGGCCGGCACCCAGTG
44334646 AACAGTAAATTTTTTTTTCG
131 AACAGTAAATTTTTTTTTCG
* *
44334666 TCAATGGCCGGCAGCTAGTGAACAGTAAAA-TTTTTTTTCTTTTTTTTTCGTGTCAGAATCAGAT
1 TCAATGGCCGGCACCCAGTGAACAGTAAAATTTTTTTTTCTTTTTTTTTCGTGTCAGAATCAGAT
*
44334730 ATAAAAATACGAAAAAAAT-AAAAAAAAATTTGGGTGCTGGCCTATCAATGGCTGGCACCCAGTG
66 ATAAAAATACGAAAAAAATAAAAAAAAAATTTGGGTGCTGGCCTATCAATGGCCGGCACCCAGTG
44334794 AACAGTAAATTTTTTTT
131 AACAGTAAATTTTTTTT
44334811 CTTTTTTTTT
Statistics
Matches: 137, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
148 58 0.42
149 52 0.38
150 27 0.20
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.34
Consensus pattern (150 bp):
TCAATGGCCGGCACCCAGTGAACAGTAAAATTTTTTTTTCTTTTTTTTTCGTGTCAGAATCAGAT
ATAAAAATACGAAAAAAATAAAAAAAAAATTTGGGTGCTGGCCTATCAATGGCCGGCACCCAGTG
AACAGTAAATTTTTTTTTCG
Found at i:44334893 original size:115 final size:107
Alignment explanation
Indices: 44334665--44334970 Score: 364
Period size: 115 Copynumber: 2.8 Consensus size: 107
44334655 TTTTTTTTTC
* *
44334665 GTCAATGGCCGGCAGCTAGTGAACAGTAAAATTTTTTTTCTTTTTTTTTCGTGTCAGAATCAGAT
1 GTCAATGGCCGGCACCCAGTGAACAGT-AAATTTTTTTTCTTTTTTTTTCGTGTCAGAATCAGAT
44334730 ATAAAAATACGAAAAAAATAAAAAAAAATTTGGGTGCTGGCCT
65 ATAAAAATACGAAAAAAATAAAAAAAAATTTGGGTGCTGGCCT
* * *
44334773 ATCAATGGCTGGCACCCAGTGAACAGTAAATTTTTTTTCTTTTTTTTTCATGTCAGAATCAGATA
1 GTCAATGGCCGGCACCCAGTGAACAGTAAATTTTTTTTCTTTTTTTTTCGTGTCAGAATCAGATA
44334838 TAAAAATAC-AAAAAAATAAAAAAATAAAAAACTTTTTTGGGTGCTGGCCT
66 TAAAAATACGAAAAAAAT----AAA-AAAAAA----TTTGGGTGCTGGCCT
* ***** * **
44334888 GTCAATGGCCGACACCCAGT-ACACAGTAAAAAAAATTTCTTTTCTTTTTTGTGTCAGAATTGGA
1 GTCAATGGCCGGCACCCAGTGA-ACAGTAAATTTTTTTTCTTTT-TTTTTCGTGTCAGAATCAGA
44334952 TATAAAAATACGAAAAAAA
64 TATAAAAATACGAAAAAAA
44334971 AATTGTAGGA
Statistics
Matches: 169, Mismatches: 17, Indels: 15
0.84 0.08 0.07
Matches are distributed among these distances:
106 8 0.05
107 46 0.27
108 23 0.14
110 3 0.02
111 6 0.04
114 1 0.01
115 48 0.28
116 27 0.16
117 7 0.04
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (107 bp):
GTCAATGGCCGGCACCCAGTGAACAGTAAATTTTTTTTCTTTTTTTTTCGTGTCAGAATCAGATA
TAAAAATACGAAAAAAATAAAAAAAAATTTGGGTGCTGGCCT
Found at i:44335246 original size:109 final size:108
Alignment explanation
Indices: 44335133--44335403 Score: 395
Period size: 109 Copynumber: 2.5 Consensus size: 108
44335123 GAAAAAAAAA
*
44335133 TTACTGTTCATTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTT-ATTATTTTTC
1 TTACTGTTCACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTAATTATTTTTC
* *
44335197 GTATTTTTATATTTGATTTTGACA-GAAAAAAAAGAAAAAATATTT
66 GTATTTTTATATTTGACTCTGACACGAAAAAAAAG---AAATATTT
* * *
44335242 TTACTGTTCACTGGGTGCCGGCTATTGACAGGCCAGCACCCAAATTTTTTTTTTAAATTTTTTTT
1 TTACTGTTCACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTT-AATTATTTTT
*
44335307 CGTATTTTTATATTTGACTCTGACACGAAAAAAAAGAAATTTTT
65 CGTATTTTTATATTTGACTCTGACACGAAAAAAAAGAAATATTT
* * *
44335351 TTACTGTTTACTGGGTGCCGGCCATTGATAGGCCAGTACCC-AAATTTTTTTTT
1 TTACTGTTCACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTT
44335404 CTTTTTCGTA
Statistics
Matches: 147, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
108 11 0.07
109 95 0.65
111 31 0.21
112 10 0.07
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (108 bp):
TTACTGTTCACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTAATTATTTTTC
GTATTTTTATATTTGACTCTGACACGAAAAAAAAGAAATATTT
Found at i:44337773 original size:14 final size:14
Alignment explanation
Indices: 44337754--44337780 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
44337744 ATTGAAGGAA
44337754 TTTATTAGAAATAT
1 TTTATTAGAAATAT
44337768 TTTATTAGAAATA
1 TTTATTAGAAATA
44337781 AAACTAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (14 bp):
TTTATTAGAAATAT
Found at i:44341528 original size:17 final size:16
Alignment explanation
Indices: 44341506--44341546 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
44341496 TATATTTGTG
44341506 TATATATAATGTACAGA
1 TATATATAATGTA-AGA
*
44341523 TATATAT-ATGTAATA
1 TATATATAATGTAAGA
44341538 TATATATAA
1 TATATATAA
44341547 ATTCTTGAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 9 0.41
16 6 0.27
17 7 0.32
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.41
Consensus pattern (16 bp):
TATATATAATGTAAGA
Found at i:44344769 original size:23 final size:21
Alignment explanation
Indices: 44344717--44344774 Score: 71
Period size: 23 Copynumber: 2.6 Consensus size: 21
44344707 GGGTTTGTAA
* *
44344717 ATTGGGCTCAGGTAGTTTTAGG
1 ATTGGGCT-AGGTTGGTTTAGG
44344739 ATTGGGCTAGGTTGGTTTAGGG
1 ATTGGGCTAGGTTGGTTTA-GG
44344761 TATTGGGCTAGGTT
1 -ATTGGGCTAGGTT
44344775 AGTTGGGTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
21 9 0.28
22 10 0.31
23 13 0.41
ACGTcount: A:0.16, C:0.07, G:0.40, T:0.38
Consensus pattern (21 bp):
ATTGGGCTAGGTTGGTTTAGG
Found at i:44345706 original size:73 final size:72
Alignment explanation
Indices: 44345323--44346163 Score: 1280
Period size: 73 Copynumber: 11.6 Consensus size: 72
44345313 TGGCATGTGA
* * * * * *
44345323 TCTTGA-GCCCAACTCATTTCTCGCAATATGAATTGACTCTTTAAAAACAAAAACT-AAAGATAC
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT-TTTGAAAACAGAAATTGAAA-ATAC
44345386 CTCAACATGTG
64 CTCAAC--GTG
* * * *
44345397 AAC-TGAGGCTCAACTCACTTT-TCGCAATATGAGTTGATTGTTTTGACAACAGAAATTGAAATT
1 -TCTTGAGGCTCAACTCA-TTTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAAAT
*
44345460 ACCTCAGCGTG
62 ACCTCAACGTG
** *
44345471 TCCCGAGGCTCAACTCATGTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACC
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAAATACC
*
44345536 TCAATGTG
65 TCAACGTG
* *
44345544 TC-TGAGGCTCAACTCATTTCTCGCAATATGGGTTGAATTTTGAAAACAGAAATTGAAATTACCT
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCT
*
44345608 CAATGTG
66 CAACGTG
*
44345615 TCTTGAGGCTCAACTCATTTCTCGCAATATGAATTGAATTTTGAAAAGCAGAAATTGAAAATACC
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAAATACC
44345680 TCAACGTG
65 TCAACGTG
* *
44345688 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTGAAAACAGAAATTGAAATTACCT
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCT
44345753 CAACGTG
66 CAACGTG
*
44345760 TCTTGAGGCTCAACTCATTTCTCGCAATATGAATTGAATTTTGAAAAGCAGAAATTGAAAATACC
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAAATACC
44345825 TCAACGTG
65 TCAACGTG
* *
44345833 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTGAAAACAGAAATTGAAATTACCT
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCT
44345898 CAACGTG
66 CAACGTG
44345905 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACC
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAAATACC
44345970 TCAACGTG
65 TCAACGTG
*
44345978 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAAAAATTGAAAATACC
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAAATACC
44346043 TCAACGTG
65 TCAACGTG
* *
44346051 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAATAGAAATTGAAATTACCT
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCT
44346116 CAACGTG
66 CAACGTG
44346123 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG-ATTTT
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTT
44346164 CCTTGGAAAG
Statistics
Matches: 713, Mismatches: 41, Indels: 28
0.91 0.05 0.04
Matches are distributed among these distances:
71 31 0.04
72 288 0.40
73 307 0.43
74 35 0.05
75 25 0.04
76 23 0.03
77 4 0.01
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.31
Consensus pattern (72 bp):
TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCT
CAACGTG
Found at i:44345762 original size:145 final size:145
Alignment explanation
Indices: 44345323--44346163 Score: 1338
Period size: 145 Copynumber: 5.8 Consensus size: 145
44345313 TGGCATGTGA
* * * * *
44345323 TCTTGA-GCCCAACTCATTTCTCGCAATATGAATTGACTCTTT-AAAAACAAAAACT-AAAGATA
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAATTGAAT-TTTGAAAAGCAGAAATTGAAA-ATA
* *
44345385 CCTCAACATGTGAAC-TGAGGCTCAACTCACTTT-TCGCAATATGAGTTGATTGTTTTGACAACA
64 CCTCAAC--GTG-TCTTGAGGCTCAACTCA-TTTCTCGCAATATGAGTTGA--GTTTTGAAAACA
*
44345448 GAAATTGAAATTACCTCAGCGTG
123 GAAATTGAAATTACCTCAACGTG
** * *
44345471 TCCCGAGGCTCAACTCATGTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACC
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAATTGAATTTTGAAAAGCAGAAATTGAAAATACC
* * *
44345536 TCAATGTGTC-TGAGGCTCAACTCATTTCTCGCAATATGGGTTGAATTTTGAAAACAGAAATTGA
66 TCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTGAAAACAGAAATTGA
*
44345600 AATTACCTCAATGTG
131 AATTACCTCAACGTG
44345615 TCTTGAGGCTCAACTCATTTCTCGCAATATGAATTGAATTTTGAAAAGCAGAAATTGAAAATACC
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAATTGAATTTTGAAAAGCAGAAATTGAAAATACC
44345680 TCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTGAAAACAGAAATTGA
66 TCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTGAAAACAGAAATTGA
44345745 AATTACCTCAACGTG
131 AATTACCTCAACGTG
44345760 TCTTGAGGCTCAACTCATTTCTCGCAATATGAATTGAATTTTGAAAAGCAGAAATTGAAAATACC
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAATTGAATTTTGAAAAGCAGAAATTGAAAATACC
44345825 TCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTGAAAACAGAAATTGA
66 TCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTGAAAACAGAAATTGA
44345890 AATTACCTCAACGTG
131 AATTACCTCAACGTG
*
44345905 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACC
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAATTGAATTTTGAAAAGCAGAAATTGAAAATACC
* *
44345970 TCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAAAAATTG
66 TCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTGAAAA-CAGAAATTG
*
44346035 AAAATACCTCAACGTG
130 AAATTACCTCAACGTG
* * *
44346051 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-TAGAAATTGAAATTACC
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAATTGAATTTTGAAAAGCAGAAATTGAAAATACC
44346115 TCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTT
66 TCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTT
44346164 CCTTGGAAAG
Statistics
Matches: 657, Mismatches: 30, Indels: 16
0.93 0.04 0.02
Matches are distributed among these distances:
144 105 0.16
145 392 0.60
146 100 0.15
147 3 0.00
148 7 0.01
149 47 0.07
150 3 0.00
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.31
Consensus pattern (145 bp):
TCTTGAGGCTCAACTCATTTCTCGCAATATGAATTGAATTTTGAAAAGCAGAAATTGAAAATACC
TCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTGAAAACAGAAATTGA
AATTACCTCAACGTG
Found at i:44345848 original size:218 final size:218
Alignment explanation
Indices: 44345323--44346163 Score: 1313
Period size: 218 Copynumber: 3.9 Consensus size: 218
44345313 TGGCATGTGA
* * * *
44345323 TCTTGA-GCCCAACTCATTTCTCGCAATATGAATTGACTCTTT-AAAAACAAAAACT-AAAGATA
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAATTGAAT-TTTGAAAAGCAAAAATTGAAA-ATA
* * *
44345385 CCTCAACATGTGAAC-TGAGGCTCAACTCACTTT-TCGCAATATGAGTTGATTGTTTTGACAACA
64 CCTCAAC--GTG-TCTTGAGGCTCAACTCA-TTTCTCGCAATATGAGTTGA--ATTTTGAAAACA
* ** *
44345448 GAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCATGTCTCGCAATATGAGTTGAATTTT
123 GAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTT
*
44345513 GAAAAGCAGAAATTGAAAATACCTCAATGTG
188 GAAAAGCAGAAATTGAAAATACCTCAACGTG
** * *
44345544 TC-TGAGGCTCAACTCATTTCTCGCAATATGGGTTGAATTTTGAAAA-CAGAAATTGAAATTACC
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAATTGAATTTTGAAAAGCAAAAATTGAAAATACC
* *
44345607 TCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAATTGAATTTTGAAAAGCAGAAATTG
66 TCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTG
* *
44345672 AAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTGAAAA-C
130 AAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGC
*
44345736 AGAAATTGAAATTACCTCAACGTG
195 AGAAATTGAAAATACCTCAACGTG
*
44345760 TCTTGAGGCTCAACTCATTTCTCGCAATATGAATTGAATTTTGAAAAGCAGAAATTGAAAATACC
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAATTGAATTTTGAAAAGCAAAAATTGAAAATACC
*
44345825 TCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTGAAAACAGAAATTGA
66 TCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGA
44345890 AATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCA
131 AATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCA
44345955 GAAATTGAAAATACCTCAACGTG
196 GAAATTGAAAATACCTCAACGTG
*
44345978 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAAAAATTGAAAATACC
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAATTGAATTTTGAAAAGCAAAAATTGAAAATACC
*
44346043 TCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAATAGAAATTGA
66 TCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGA
44346108 AATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG-ATTTT
131 AATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTT
44346164 CCTTGGAAAG
Statistics
Matches: 578, Mismatches: 33, Indels: 22
0.91 0.05 0.03
Matches are distributed among these distances:
216 33 0.06
217 187 0.32
218 301 0.52
220 20 0.03
221 37 0.06
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.31
Consensus pattern (218 bp):
TCTTGAGGCTCAACTCATTTCTCGCAATATGAATTGAATTTTGAAAAGCAAAAATTGAAAATACC
TCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGA
AATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCA
GAAATTGAAAATACCTCAACGTG
Found at i:44359355 original size:20 final size:19
Alignment explanation
Indices: 44359332--44359377 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
44359322 AGGAAGAGGA
*
44359332 GGGAGAGAAAAGAGGGAGCG
1 GGGAGAGAAAAGAGGG-GAG
* *
44359352 GGGAAAGAAGAGAGGGGAG
1 GGGAGAGAAAAGAGGGGAG
44359371 GGGAGAG
1 GGGAGAG
44359378 CTCCGGCCAC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.39, C:0.02, G:0.59, T:0.00
Consensus pattern (19 bp):
GGGAGAGAAAAGAGGGGAG
Found at i:44359479 original size:9 final size:9
Alignment explanation
Indices: 44359458--44359487 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
44359448 AAGGTAATTT
44359458 TTTTTTATA
1 TTTTTTATA
44359467 -TTTTTATA
1 TTTTTTATA
44359475 TTTTTTATA
1 TTTTTTATA
44359484 TTTT
1 TTTT
44359488 GCACTATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTTATA
Found at i:44362193 original size:40 final size:40
Alignment explanation
Indices: 44362126--44362201 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
44362116 GTATCGTATA
* *
44362126 TAGCCGAAGCTATTCCAACTCGCACACTTAGTGCCATTTG
1 TAGCCGAAGCTATTCAAACTCGCACACTTAATGCCATTTG
* *
44362166 TAGCCGAAGCTATATTAAACT-GTACACTTAATGCCA
1 TAGCCGAAGCTAT-TCAAACTCGCACACTTAATGCCA
44362202 AGCATAGTCG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 26 0.84
41 5 0.16
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (40 bp):
TAGCCGAAGCTATTCAAACTCGCACACTTAATGCCATTTG
Found at i:44364894 original size:6 final size:6
Alignment explanation
Indices: 44364885--44364948 Score: 53
Period size: 6 Copynumber: 10.5 Consensus size: 6
44364875 TAAAAGAATT
*
44364885 GAAAAA GAAAAA GAAAAA GAAAGAA -AAGAA GAACAATA GAAAAA -ATAAAA
1 GAAAAA GAAAAA GAAAAA GAAA-AA GAAAAA GAA-AA-A GAAAAA GA-AAAA
*
44364935 -AAAAA GAATAA GAA
1 GAAAAA GAAAAA GAA
44364949 GAAGGAGATG
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
5 7 0.14
6 33 0.67
7 5 0.10
8 4 0.08
ACGTcount: A:0.78, C:0.02, G:0.16, T:0.05
Consensus pattern (6 bp):
GAAAAA
Done.