Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2
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: 5794061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 68655 characters in sequence are not A, C, G, or T
File 28 of 38
Found at i:4246996 original size:58 final size:57
Alignment explanation
Indices: 4246827--4247043 Score: 209
Period size: 58 Copynumber: 3.7 Consensus size: 57
4246817 GATGGCATCC
* * *
4246827 CTTTCTAAGCCCAATGTCATTGGCTTTGAATCAACACATTGGCCCTTGTCAAACCATTT
1 CTTTCTAAGCCCAATGTCACTGGCCTTGAATCAACACATTGGCACTTGTCAAACC--TT
* * * * * * * * *
4246886 CCTTCTAAGCCTAATGTTATTGTCCTCGAATCAACATATTGGAACTTGTCAAATCTT
1 CTTTCTAAGCCCAATGTCACTGGCCTTGAATCAACACATTGGCACTTGTCAAACCTT
* * * *
4246943 CTTTCTCAAGCCCAATGTCACTAGCCTTGAATCAGCACATTAGCACTTTTCAAACCTT
1 CTTTCT-AAGCCCAATGTCACTGGCCTTGAATCAACACATTGGCACTTGTCAAACCTT
* * * * *
4247001 CTTTCCAAAGTCCAATGTTACTGGCCTTGAATCAGCATATTGG
1 CTTT-CTAAGCCCAATGTCACTGGCCTTGAATCAACACATTGG
4247044 AACCTTTATC
Statistics
Matches: 127, Mismatches: 29, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
57 7 0.06
58 74 0.58
59 46 0.36
ACGTcount: A:0.27, C:0.26, G:0.13, T:0.34
Consensus pattern (57 bp):
CTTTCTAAGCCCAATGTCACTGGCCTTGAATCAACACATTGGCACTTGTCAAACCTT
Found at i:4248626 original size:164 final size:163
Alignment explanation
Indices: 4248296--4248869 Score: 500
Period size: 164 Copynumber: 3.5 Consensus size: 163
4248286 ATGAGTTTAA
*
4248296 AATTTTGAAAATTCATCAAATATTATTATTTAATTTATATTAAATTAGTTTTC-AAAAA-T---T
1 AATTTT-AAAATTCATCAAATATTATTATTTAATTCATATTAAATTAG-TTTCAAAAAATTCAAT
* * * *
4248356 CA--TTC---A-TTTTTCATTTTTTTTAATATTCTCCTATTTTCAAAATATGGAGTTTTCCATTC
64 CATTTTCATGAGTTTTTCATTTTTTTAAAAATTCTCCTATTTTCAAAATACGGAGTTTTCCACTC
* * * *
4248415 CGAAAATTTTTTTGGGGGGGCTTTTTCTTGGTTTTT
129 CGAAAA-TTTTTTCGAGGGGATTTTTCTTAGTTTTT
* *
4248451 AATTTTAAAATTCATCAAATATTACTT-TTTATTTCATATTAAATTAGTTTTC-AAATATTCAAT
1 AATTTTAAAATTCATCAAATATTA-TTATTTAATTCATATTAAATTAG-TTTCAAAAAATTCAAT
* * * *
4248514 CATTTTCATGAGTTTTTCATTTTTTTAAAAAATTTTTCTATTTTCGAAATACGGAGTTTTTCACT
64 CATTTTCATGAGTTTTTCATTTTTTT-AAAAATTCTCCTATTTTCAAAATACGGAGTTTTCCACT
*
4248579 CCGTAAA-TTTTTCGAGGGGATTTTTCTTAGTTTTT
128 CCGAAAATTTTTTCGAGGGGATTTTTCTTAGTTTTT
* * *
4248614 ATTTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATTAGTTTCAAAAAATTCATTT
1 A-ATTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATTAGTTTCAAAAAATTCAATC
* ** * * * **
4248679 ATTTTCATGTGTTTTTCATTTTTTCTTCGAAA-TCTCCCTATTTCCAAAAAACTGAGTTTTCTGC
65 ATTTTCATGAGTTTTTCA-TTTTT-TTAAAAATTCT-CCTATTTTCAAAATACGGAGTTTTCCAC
* * * **
4248743 TCCGTAAATATTTTT-GAGGTGATTTTTC-TCGATTTAA
127 TCCGAAAAT-TTTTTCGAGGGGATTTTTCTTAG-TTTTT
* * * * * * * **
4248780 AATTTTTAAAATTCATCTAATATTGTCATTAAATTCACATTAAATCATTTTTGAAAAATTCAAAT
1 AA-TTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATTAGTTTCAAAAAATTC-AAT
* **
4248845 TA-TTTCATGAGTTTTGAATTTTTTT
64 CATTTTCATGAGTTTTTCATTTTTTT
4248870 CTATATATTG
Statistics
Matches: 345, Mismatches: 51, Indels: 37
0.80 0.12 0.09
Matches are distributed among these distances:
154 45 0.13
155 9 0.03
158 3 0.01
160 3 0.01
163 32 0.09
164 85 0.25
165 79 0.23
166 80 0.23
167 9 0.03
ACGTcount: A:0.30, C:0.11, G:0.08, T:0.50
Consensus pattern (163 bp):
AATTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATTAGTTTCAAAAAATTCAATCA
TTTTCATGAGTTTTTCATTTTTTTAAAAATTCTCCTATTTTCAAAATACGGAGTTTTCCACTCCG
AAAATTTTTTCGAGGGGATTTTTCTTAGTTTTT
Found at i:4249345 original size:11 final size:11
Alignment explanation
Indices: 4249311--4249361 Score: 54
Period size: 11 Copynumber: 4.8 Consensus size: 11
4249301 AGCTAAAAAG
4249311 AAAGAGAA-AA
1 AAAGAGAAGAA
*
4249321 ATAAGAG-AGGA
1 A-AAGAGAAGAA
4249332 AAAGAGAAGAA
1 AAAGAGAAGAA
4249343 AAAGA-AAGAA
1 AAAGAGAAGAA
*
4249353 AAATAGAAG
1 AAAGAGAAG
4249362 GAAATAAAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
10 16 0.47
11 18 0.53
ACGTcount: A:0.71, C:0.00, G:0.25, T:0.04
Consensus pattern (11 bp):
AAAGAGAAGAA
Found at i:4249355 original size:21 final size:22
Alignment explanation
Indices: 4249311--4249368 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
4249301 AGCTAAAAAG
* *
4249311 AAAGAGAA-AAATAAGAGAGGA
1 AAAGAGAAGAAATAAGAAAGAA
4249332 AAAGAGAAGAAA-AAGAAAGAA
1 AAAGAGAAGAAATAAGAAAGAA
*
4249353 AAATAGAAGGAAATAA
1 AAAGAGAA-GAAATAA
4249369 AGAGAAAGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 22 0.71
22 7 0.23
23 2 0.06
ACGTcount: A:0.71, C:0.00, G:0.24, T:0.05
Consensus pattern (22 bp):
AAAGAGAAGAAATAAGAAAGAA
Found at i:4249619 original size:39 final size:39
Alignment explanation
Indices: 4249565--4249643 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
4249555 AAGTATGGTA
*
4249565 ATGATGTTGTTTACATATTTTCCATGATTTCTCACCATG
1 ATGATGTTGTCTACATATTTTCCATGATTTCTCACCATG
4249604 ATGATGTTGTCTACATATTTTCCATGATTTCTCACCATG
1 ATGATGTTGTCTACATATTTTCCATGATTTCTCACCATG
4249643 A
1 A
4249644 CCATTTTATT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.13, T:0.44
Consensus pattern (39 bp):
ATGATGTTGTCTACATATTTTCCATGATTTCTCACCATG
Found at i:4251499 original size:155 final size:155
Alignment explanation
Indices: 4251246--4251675 Score: 501
Period size: 155 Copynumber: 2.8 Consensus size: 155
4251236 TTTAAATCAC
* * * * *
4251246 TTAGGGGTACCGGATACTTCTACATCAAAGGTATTCCCTAGAGGCATTTTTGTAATTTCTCTAGA
1 TTAGGGGTATCGAATACTTTTACATGAAAGGTATCCCCTAGAGGCATTTTTGTAATTTCTCTA-A
* * *** * * * *
4251311 AA-TGAGTCTTAGGTTGTCATCGGGTCCGC-TTTATGTCGAAGATGGTTATTTAGGGTATGTGCA
65 AACTGAGTCCTAGGTTGTCACCGGGTTTACTTTTATGTCGAAGGTGGATATTTAGGATAGGTGCA
*
4251374 TCCTTTTTAAAATCCTTTTTAAGTCCT
130 TCCCTTTTAAAATCCTTTTTAAGT-CT
* * *
4251401 TTAGGGGTATCGAATACTTTTACATGAAAGGTATCCCCTAGAGGTATTTTCGTAATTT-TTTAAA
1 TTAGGGGTATCGAATACTTTTACATGAAAGGTATCCCCTAGAGGCATTTTTGTAATTTCTCTAAA
* * ** * *
4251465 ACTAATTCCTAGGTTGTCACCAAGTTTTCTTTTATGTCGAAGGTGGATATTTAGGATAGGTTCAT
66 ACTGAGTCCTAGGTTGTCACCGGGTTTACTTTTATGTCGAAGGTGGATATTTAGGATAGGTGCAT
*
4251530 CCCTTTTAAAATCCTTTTTAAGTTT
131 CCCTTTTAAAATCCTTTTTAAGTCT
* * * * *
4251555 TTAGAGGTATCGAGTACTTTTACGTCG-AAGGTATCCCCTAGAGGCATTTTTATAATTTCTCTAG
1 TTAGGGGTATCGAATACTTTTACAT-GAAAGGTATCCCCTAGAGGCATTTTTGTAATTTCTCTAA
* * *
4251619 AACTGAGTCCTACGTTGTCACCGGGTTTACTTTTATGCCG-AGGTGGGTATTTAGGAT
65 AACTGAGTCCTAGGTTGTCACCGGGTTTACTTTTATGTCGAAGGTGGATATTTAGGAT
4251676 GGGTTCATTC
Statistics
Matches: 231, Mismatches: 40, Indels: 9
0.82 0.14 0.03
Matches are distributed among these distances:
153 3 0.01
154 88 0.38
155 140 0.61
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.39
Consensus pattern (155 bp):
TTAGGGGTATCGAATACTTTTACATGAAAGGTATCCCCTAGAGGCATTTTTGTAATTTCTCTAAA
ACTGAGTCCTAGGTTGTCACCGGGTTTACTTTTATGTCGAAGGTGGATATTTAGGATAGGTGCAT
CCCTTTTAAAATCCTTTTTAAGTCT
Found at i:4253521 original size:20 final size:20
Alignment explanation
Indices: 4253496--4253567 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
4253486 GATCGATACA
4253496 ATGTATCGATACTAAGCAAT
1 ATGTATCGATACTAAGCAAT
* * *
4253516 ATGTATCAATAC--ATCTAGGT
1 ATGTATCGATACTAAGC-A-AT
*
4253536 GTGTATCGATACTAAGCAAT
1 ATGTATCGATACTAAGCAAT
4253556 ATGTATCGATAC
1 ATGTATCGATAC
4253568 ATCTGGGTGT
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
18 2 0.05
19 1 0.03
20 34 0.85
21 1 0.03
22 2 0.05
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (20 bp):
ATGTATCGATACTAAGCAAT
Found at i:4253552 original size:40 final size:40
Alignment explanation
Indices: 4253497--4253588 Score: 157
Period size: 40 Copynumber: 2.3 Consensus size: 40
4253487 ATCGATACAA
4253497 TGTATCGATACTAAGCAATATGTATCAATACATCTAGGTG
1 TGTATCGATACTAAGCAATATGTATCAATACATCTAGGTG
* *
4253537 TGTATCGATACTAAGCAATATGTATCGATACATCTGGGTG
1 TGTATCGATACTAAGCAATATGTATCAATACATCTAGGTG
*
4253577 TGTATCAATACT
1 TGTATCGATACT
4253589 TTCTAGGGTT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (40 bp):
TGTATCGATACTAAGCAATATGTATCAATACATCTAGGTG
Found at i:4262656 original size:13 final size:13
Alignment explanation
Indices: 4262638--4262662 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4262628 ATAATCCCCC
4262638 TGTATCGATACAG
1 TGTATCGATACAG
4262651 TGTATCGATACA
1 TGTATCGATACA
4262663 TTGAATTTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:4264728 original size:15 final size:15
Alignment explanation
Indices: 4264708--4264737 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4264698 ATTTCGTTTG
*
4264708 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
4264723 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
4264738 AGACATTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.23, G:0.13, T:0.50
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:4271156 original size:38 final size:38
Alignment explanation
Indices: 4271105--4271178 Score: 139
Period size: 38 Copynumber: 1.9 Consensus size: 38
4271095 CACTTTACCT
*
4271105 AAGAAATCATGGTTTGGGAAATTCGAAACTAGGGAGTC
1 AAGAAATCATGGTTTAGGAAATTCGAAACTAGGGAGTC
4271143 AAGAAATCATGGTTTAGGAAATTCGAAACTAGGGAG
1 AAGAAATCATGGTTTAGGAAATTCGAAACTAGGGAG
4271179 CCATCCAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.39, C:0.09, G:0.28, T:0.23
Consensus pattern (38 bp):
AAGAAATCATGGTTTAGGAAATTCGAAACTAGGGAGTC
Found at i:4272285 original size:19 final size:18
Alignment explanation
Indices: 4272261--4272341 Score: 54
Period size: 19 Copynumber: 4.2 Consensus size: 18
4272251 TTTTGAACTT
4272261 CAAACAATTTGTATCGATA
1 CAAA-AATTTGTATCGATA
**
4272280 CAAACAGAAAATGTATCGATA
1 C-AA-A-AATTTGTATCGATA
* *
4272301 CATAAGTGTTGTATCGATA
1 CAAAAAT-TTGTATCGATA
**
4272320 CATAAGTTTTGTATCGATA
1 CA-AAAATTTGTATCGATA
4272339 CAA
1 CAA
4272342 TGTATCGCTA
Statistics
Matches: 48, Mismatches: 10, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
18 2 0.04
19 27 0.56
20 5 0.10
21 14 0.29
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.31
Consensus pattern (18 bp):
CAAAAATTTGTATCGATA
Found at i:4272390 original size:13 final size:13
Alignment explanation
Indices: 4272372--4272397 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4272362 GCCAAGGAAA
4272372 TGTATCGATACAT
1 TGTATCGATACAT
4272385 TGTATCGATACAT
1 TGTATCGATACAT
4272398 CGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4272440 original size:21 final size:21
Alignment explanation
Indices: 4272384--4272442 Score: 93
Period size: 21 Copynumber: 2.9 Consensus size: 21
4272374 TATCGATACA
*
4272384 TTGTATCGATACATCGA-TCT
1 TTGTATCGATACATCTAGTCT
*
4272404 TTGTATCGATATATCTAGTCT
1 TTGTATCGATACATCTAGTCT
4272425 TTGTATCGATACATCTAG
1 TTGTATCGATACATCTAG
4272443 GAAGTTTACC
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
20 15 0.43
21 20 0.57
ACGTcount: A:0.25, C:0.17, G:0.15, T:0.42
Consensus pattern (21 bp):
TTGTATCGATACATCTAGTCT
Found at i:4285697 original size:8 final size:8
Alignment explanation
Indices: 4285684--4285733 Score: 55
Period size: 9 Copynumber: 5.9 Consensus size: 8
4285674 TTTACAAATA
4285684 AAAAAAAC
1 AAAAAAAC
4285692 AAAAAAAAGC
1 -AAAAAAA-C
*
4285702 AAAAAAGC
1 AAAAAAAC
4285710 AAAAAAAC
1 AAAAAAAC
*
4285718 AAAACAAAG
1 AAAA-AAAC
4285727 AAAAAAA
1 AAAAAAA
4285734 GAGAGAAAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
8 15 0.42
9 20 0.56
10 1 0.03
ACGTcount: A:0.84, C:0.10, G:0.06, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:4285730 original size:17 final size:17
Alignment explanation
Indices: 4285693--4285734 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
4285683 AAAAAAAACA
4285693 AAAAAAAGCAAAAAAGC
1 AAAAAAAGCAAAAAAGC
4285710 AAAAAAA-CAAAACAAAG-
1 AAAAAAAGC-AAA-AAAGC
4285727 AAAAAAAG
1 AAAAAAAG
4285735 AGAGAAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 1 0.05
17 17 0.77
18 4 0.18
ACGTcount: A:0.81, C:0.10, G:0.10, T:0.00
Consensus pattern (17 bp):
AAAAAAAGCAAAAAAGC
Found at i:4285734 original size:8 final size:8
Alignment explanation
Indices: 4285693--4285748 Score: 58
Period size: 9 Copynumber: 6.6 Consensus size: 8
4285683 AAAAAAAACA
4285693 AAAAAAAG
1 AAAAAAAG
*
4285701 CAAAAAAG
1 AAAAAAAG
*
4285709 CAAAAAAAC
1 -AAAAAAAG
4285718 AAAACAAAG
1 AAAA-AAAG
4285727 AAAAAAAG
1 AAAAAAAG
*
4285735 AGAGAAAAG
1 A-AAAAAAG
4285744 AAAAA
1 AAAAA
4285749 GAACCTACTT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
8 19 0.49
9 20 0.51
ACGTcount: A:0.80, C:0.07, G:0.12, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:4285742 original size:26 final size:26
Alignment explanation
Indices: 4285684--4285734 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
4285674 TTTACAAATA
*
4285684 AAAAAAACAAAAAAAAGCAAAAAAGC
1 AAAAAAACAAAAAAAAGAAAAAAAGC
*
4285710 AAAAAAACAAAACAAAGAAAAAAAG
1 AAAAAAACAAAAAAAAGAAAAAAAG
4285735 AGAGAAAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.82, C:0.10, G:0.08, T:0.00
Consensus pattern (26 bp):
AAAAAAACAAAAAAAAGAAAAAAAGC
Found at i:4286889 original size:61 final size:61
Alignment explanation
Indices: 4286802--4287539 Score: 783
Period size: 61 Copynumber: 12.4 Consensus size: 61
4286792 CTTTTCACCC
* * * * * *
4286802 TCCAATCCTTAAAGAGCAAGACGCCTTCTCCTTTGCAAAGCCCACATAAGCTGGTGGCAATT
1 TCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTT-CAAAGCCCACACAAGTTGGTGGCATTT
* * *
4286864 T-CAGTCCTCAAAGAGCAAGATGCCTT-TCCTTTTCAAAGCCCACACGAGTTGGTGGCATTT
1 TCCAGTCCTCAAAGAGCAGGACGCCTTCTCC-TTTCAAAGCCCACACAAGTTGGTGGCATTT
* * * * ** *
4286924 TCCAGTCGTCAAGGAGCAGGATGCCTT-TCCTTTTCAAAGCCCAAATGAGTTGGTTGCATTT
1 TCCAGTCCTCAAAGAGCAGGACGCCTTCTCC-TTTCAAAGCCCACACAAGTTGGTGGCATTT
* * *
4286985 TCCAGTCCTCAAGGAGTAGGACGCCTT-TCCTTTTCAAAGCCCACACGAGTTGGTGGCATTT
1 TCCAGTCCTCAAAGAGCAGGACGCCTTCTCC-TTTCAAAGCCCACACAAGTTGGTGGCATTT
* * *
4287046 TCCAGTCCTCAAGGAGCAGGACGCCTT-TCCTTTTAAAGCCCACACAAGTTGGTAGCATTT
1 TCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCATTT
* *
4287106 TCCAGTCCTCAAAGAGTAGGACG-C--CT--TTT-AAAGCCCACACAAGTTGGTGGCA-CT
1 TCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCATTT
*
4287160 TCCTAGTCCTCAAAGAGCAGGACG-C--CT--TTT-AAAGCCCACACAAATTGGTGGCATTT
1 TCC-AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCATTT
* * * *
4287216 TCTAGTCCTCAAAGAGCAGGATGCTTTCT-CTTTGCAAAGCCCACACAAGTTGGTGGTATTT
1 TCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTT-CAAAGCCCACACAAGTTGGTGGCATTT
* *
4287277 TCCAGTCCTCAAAAAGCAGGA------CACCTTTCAAAGCCCACACAAGTTGGTGGCATTT
1 TCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCATTT
* * * **
4287332 TCCAGTCCTCAAAGAGCAGGATGCTTTCT-CTTTGCAAAGCCCACAGAAGTTGGTGGCACCT
1 TCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTT-CAAAGCCCACACAAGTTGGTGGCATTT
* **
4287393 TCCAGTCCTCAAAGAGCAGGATGCCTT-TCCTTTGCAAAGCCCACACAAGTTGGTGGCACCT
1 TCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTT-CAAAGCCCACACAAGTTGGTGGCATTT
* * * * *
4287454 TCCAATCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACTCAAGTTGGTGGCACTT
1 TCCAGTCCTCAAAGAGCAGGACGCC-TTCTCCTTTCAAAGCCCACACAAGTTGGTGGCATTT
** *
4287516 TGTAGTCCTCAAAGAGCATGACGC
1 TCCAGTCCTCAAAGAGCAGGACGC
4287540 ACTTTATTTT
Statistics
Matches: 599, Mismatches: 55, Indels: 44
0.86 0.08 0.06
Matches are distributed among these distances:
54 4 0.01
55 135 0.23
56 10 0.02
58 3 0.01
59 4 0.01
60 80 0.13
61 310 0.52
62 48 0.08
63 5 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (61 bp):
TCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCATTT
Found at i:4286896 original size:100 final size:100
Alignment explanation
Indices: 4286707--4286898 Score: 217
Period size: 100 Copynumber: 1.9 Consensus size: 100
4286697 CCACTTTCAG
* * * * * * *
4286707 TCCTTAAAGAGCAGGATGCATTTTCCTTTTAAAGCCCACCCAAGTTGGTGGCACCCTCTAGTCCT
1 TCCTTAAAGAGCAAGACGCATTCTCCTTTCAAAGCCCACACAAGCTGGTGGCAACCTCTAGTCCT
* * *
4286772 CAAAGAGCAGGACGTTATTTCTTTTCACCCTCCAA
66 CAAAGAGCAAGACGCTATTCCTTTTCACCCTCCAA
* * **
4286807 TCCTTAAAGAGCAAGACGCCTTCTCCTTTGCAAAGCCCACATAAGCTGGTGGCAATTTC-AGTCC
1 TCCTTAAAGAGCAAGACGCATTCTCCTTT-CAAAGCCCACACAAGCTGGTGGCAACCTCTAGTCC
*
4286871 TCAAAGAGCAAGATGCCT-TTCCTTTTCA
65 TCAAAGAGCAAGACG-CTATTCCTTTTCA
4286899 AAGCCCACAC
Statistics
Matches: 75, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
100 52 0.69
101 23 0.31
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (100 bp):
TCCTTAAAGAGCAAGACGCATTCTCCTTTCAAAGCCCACACAAGCTGGTGGCAACCTCTAGTCCT
CAAAGAGCAAGACGCTATTCCTTTTCACCCTCCAA
Found at i:4287310 original size:116 final size:118
Alignment explanation
Indices: 4286831--4287544 Score: 774
Period size: 116 Copynumber: 6.0 Consensus size: 118
4286821 GACGCCTTCT
* * * * *
4286831 CCTTTGCAAAGCCCACATAAGCTGGTGGCAATTT-CAGTCCTCAAAGAGCAAGATGCCTTTC-CT
1 CCTTTGCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCTCT
* * * *
4286894 TTTCAAAGCCCACACGAGTTGGTGGCATTTTCCAGTCGTCAAGGAGCAGGATGCCTTT
66 TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGA---C--G
* * ** * * *
4286952 CCTTTTCAAAGCCCAAATGAGTTGGTTGCATTTTCCAGTCCTCAAGGAGTAGGACGCCTTTC-CT
1 CCTTTGCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCTCT
* *
4287016 TTTCAAAGCCCACACGAGTTGGTGGCATTTTCCAGTCCTCAAGGAGCAGGACG
66 TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACG
* * *
4287069 CCTTTCCTTTTAAAGCCCACACAAGTTGGTAGCATTTTCCAGTCCTCAAAGAGTAGGACG-----
1 CCTTTGC----AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTT
*
4287129 C-CTTTT-AAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCAGGACG
62 CTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC-AGTCCTCAAAGAGCAGGACG
* * * *
4287184 CCTTT-TAAAGCCCACACAAATTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATG-CTTTCTCT
1 CCTTTGCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCTCT
* * * *
4287247 TTGCAAAGCCCACACAAGTTGGTGGTATTTTCCAGTCCTCAAAAAGCAGGACA
66 TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACG
*
4287300 CCTTT-CAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATG-CTTTCTCT
1 CCTTTGCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCTCT
* * ** *
4287363 TTGCAAAGCCCACAGAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATGCCTTT
66 TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGA---C--G
** * *
4287421 CCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAATCCTCAAAGAGCAGGACGCCTTTTTCT
1 CCTTTGCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCTCT
* * ** *
4287486 TTTCAAAGCCCACTCAAGTTGGTGGCACTTTGTAGTCCTCAAAGAGCATGACG
66 TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACG
4287539 CACTTT
1 C-CTTT
4287545 ATTTTCCTCT
Statistics
Matches: 518, Mismatches: 54, Indels: 44
0.84 0.09 0.07
Matches are distributed among these distances:
110 44 0.08
114 5 0.01
115 50 0.10
116 152 0.29
117 10 0.02
118 1 0.00
119 6 0.01
120 1 0.00
121 77 0.15
122 121 0.23
123 51 0.10
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (118 bp):
CCTTTGCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCTCT
TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACG
Found at i:4287617 original size:43 final size:43
Alignment explanation
Indices: 4287520--4287685 Score: 180
Period size: 42 Copynumber: 3.8 Consensus size: 43
4287510 GCACTTTGTA
*
4287520 GTCCTCAAAGAGCATGACGCACTTT-ATTTTCCTCTTTCT--TTT
1 GTCCTCAAAGAGCAGGACGCA-TTTCATTTTCCT-TTTCTCCTTT
*
4287562 GTCCTTAAAGAGCAGGACGCATTTCATTTTCCTTTTCTCCTTT
1 GTCCTCAAAGAGCAGGACGCATTTCATTTTCCTTTTCTCCTTT
* *
4287605 GTCCTCAAAGAGCAGGACGC-TCTTTA-TTTCCTTCTTTTCCCTTCT
1 GTCCTCAAAGAGCAGGACGCAT-TTCATTTTCCTT-TTCT-CCTT-T
* *
4287650 AGTCCTCAAAGACCAGGACACATTTCATTTTCCTTT
1 -GTCCTCAAAGAGCAGGACGCATTTCATTTTCCTTT
4287686 CTTCTTTTTT
Statistics
Matches: 106, Mismatches: 8, Indels: 16
0.82 0.06 0.12
Matches are distributed among these distances:
41 8 0.08
42 35 0.33
43 28 0.26
44 4 0.04
45 1 0.01
46 22 0.21
47 8 0.08
ACGTcount: A:0.20, C:0.28, G:0.13, T:0.40
Consensus pattern (43 bp):
GTCCTCAAAGAGCAGGACGCATTTCATTTTCCTTTTCTCCTTT
Found at i:4287699 original size:89 final size:85
Alignment explanation
Indices: 4287520--4287685 Score: 226
Period size: 89 Copynumber: 1.9 Consensus size: 85
4287510 GCACTTTGTA
* * * * *
4287520 GTCCTCAAAGAGCATGACGCACTTTATTTTCCTCTTTCTTTTGTCCTTAAAGAGCAGGACGCATT
1 GTCCTCAAAGAGCAGGACGCACTTTATTTTCCTCTTTCTTTAGTCCTCAAAGACCAGGACACATT
4287585 TCATTTTCCTTTTCTCCTTT
66 TCATTTTCCTTTTCTCCTTT
*
4287605 GTCCTCAAAGAGCAGGACGCTCTTTA-TTTCCTTCTTTTCCCTTCTAGTCCTCAAAGACCAGGAC
1 GTCCTCAAAGAGCAGGACGCACTTTATTTTCC-TC-TTT--CTT-TAGTCCTCAAAGACCAGGAC
4287669 ACATTTCATTTTCCTTT
61 ACATTTCATTTTCCTTT
4287686 CTTCTTTTTT
Statistics
Matches: 70, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
84 5 0.07
85 26 0.37
86 3 0.04
88 3 0.04
89 33 0.47
ACGTcount: A:0.20, C:0.28, G:0.13, T:0.40
Consensus pattern (85 bp):
GTCCTCAAAGAGCAGGACGCACTTTATTTTCCTCTTTCTTTAGTCCTCAAAGACCAGGACACATT
TCATTTTCCTTTTCTCCTTT
Found at i:4288474 original size:13 final size:13
Alignment explanation
Indices: 4288456--4288488 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
4288446 ACATAAGTGT
4288456 TGTATCGATACAA
1 TGTATCGATACAA
4288469 TGTATCGATACAA
1 TGTATCGATACAA
4288482 TGTATCG
1 TGTATCG
4288489 CTACGAAGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4288531 original size:21 final size:21
Alignment explanation
Indices: 4288505--4288546 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
4288495 AGCTATTGCG
4288505 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
4288526 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
4288547 GTATCGATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.29
Consensus pattern (21 bp):
AAGGAAATGTATCGATACATT
Found at i:4288551 original size:13 final size:13
Alignment explanation
Indices: 4288533--4288558 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4288523 ATTAAGGAAA
4288533 TGTATCGATACAT
1 TGTATCGATACAT
4288546 TGTATCGATACAT
1 TGTATCGATACAT
4288559 CGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4288601 original size:21 final size:21
Alignment explanation
Indices: 4288545--4288603 Score: 93
Period size: 21 Copynumber: 2.9 Consensus size: 21
4288535 TATCGATACA
*
4288545 TTGTATCGATACATCGA-TCT
1 TTGTATCGATACATCTAGTCT
*
4288565 TTGTATCGATATATCTAGTCT
1 TTGTATCGATACATCTAGTCT
4288586 TTGTATCGATACATCTAG
1 TTGTATCGATACATCTAG
4288604 GAAGTTTACC
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
20 15 0.43
21 20 0.57
ACGTcount: A:0.25, C:0.17, G:0.15, T:0.42
Consensus pattern (21 bp):
TTGTATCGATACATCTAGTCT
Found at i:4290999 original size:52 final size:52
Alignment explanation
Indices: 4290932--4291075 Score: 216
Period size: 52 Copynumber: 2.8 Consensus size: 52
4290922 TGAAGTTTCT
* * * *
4290932 CAATTTTTCATAATCGGGGGTACTCTAACCCCGATTTTATTTCTAAAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACAC
* * *
4290984 TAATTTTCCACAATCGGAGATACTCCAACCCCGATTTTATTTCCAAAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACAC
*
4291036 CAATTTTTCACAATCGGGGATACTCCAACCCCGTTTTTAT
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTAT
4291076 CAGGGATACT
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 81 1.00
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.33
Consensus pattern (52 bp):
CAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACAC
Found at i:4291081 original size:26 final size:27
Alignment explanation
Indices: 4291052--4291148 Score: 126
Period size: 27 Copynumber: 3.6 Consensus size: 27
4291042 TTCACAATCG
4291052 GGGATACTCCAACCCCGTT-TTTATCA
1 GGGATACTCCAACCCCGTTATTTATCA
* * *
4291078 GGGATACTCCAACCCCGTTAATCATCG
1 GGGATACTCCAACCCCGTTATTTATCA
4291105 GGGATACTCCAACCCCGTTATTT-TCGA
1 GGGATACTCCAACCCCGTTATTTATC-A
*
4291132 GGGGATACTCAAACCCC
1 -GGGATACTCCAACCCC
4291149 CGGCTTTATT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
26 21 0.34
27 25 0.41
28 15 0.25
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.25
Consensus pattern (27 bp):
GGGATACTCCAACCCCGTTATTTATCA
Found at i:4291196 original size:80 final size:78
Alignment explanation
Indices: 4291101--4291362 Score: 285
Period size: 79 Copynumber: 3.3 Consensus size: 78
4291091 CCCGTTAATC
4291101 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCAAACCCCCGGCTTTATTCCTAAAA
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCAAA-CCCCGGCTTTATT-CTAAAA
4291166 TATTGATTTCTTATA
64 TATTGATTTCTTATA
* * * * * *
4291181 ATCGGGGATACTCCAACCCTGTTATTTCCGAGGGAATACTCCAACCCTGACTTTATTTCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCAAACCCCGGCTTTA-TTCTAAAAT
* *
4291246 ATTAATTTCTCATA
65 ATTGATTTCTTATA
* * * * * * * *
4291260 ATCAGGGATACTCAAACCCCGTTA-TCTCGGACGGGATACTCTAACCCCGGTTTTATTTTCAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTTC-GAGGGGATACTCAAACCCCGGCTTTATTCTAAAAT
* *
4291324 CATCGATTT-TTCACA
65 -ATTGATTTCTT-ATA
*
4291339 ATTGGGGATACTCCAACCCCGTTA
1 ATCGGGGATACTCCAACCCCGTTA
4291363 CTATCTCCAA
Statistics
Matches: 150, Mismatches: 28, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
78 10 0.07
79 98 0.65
80 42 0.28
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (78 bp):
ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCAAACCCCGGCTTTATTCTAAAATA
TTGATTTCTTATA
Found at i:4294077 original size:31 final size:31
Alignment explanation
Indices: 4294038--4294115 Score: 79
Period size: 32 Copynumber: 2.5 Consensus size: 31
4294028 CCAACGACAT
4294038 TGGG-TTTAGAAGGGTTACCACCAACTTATG
1 TGGGCTTTAGAAGGGTTACCACCAACTTATG
** * * *
4294068 TGGGCTTTAGAGAAAGTTGCCACCGACTTTTG
1 TGGGCTTTAGA-AGGGTTACCACCAACTTATG
4294100 TGGGCTTT-GAAAGGGT
1 TGGGCTTTAG-AAGGGT
4294116 GCCACTGACT
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
30 4 0.11
31 10 0.26
32 24 0.63
ACGTcount: A:0.23, C:0.15, G:0.31, T:0.31
Consensus pattern (31 bp):
TGGGCTTTAGAAGGGTTACCACCAACTTATG
Found at i:4294136 original size:28 final size:28
Alignment explanation
Indices: 4294097--4294557 Score: 251
Period size: 28 Copynumber: 16.5 Consensus size: 28
4294087 CCACCGACTT
4294097 TTGTGGGCTTTGAAAGGGTGCCACTGAC
1 TTGTGGGCTTTGAAAGGGTGCCACTGAC
* * * *
4294125 TTGTGAGCTTTGAAAAGGTGCCATTAAC
1 TTGTGGGCTTTGAAAGGGTGCCACTGAC
** * *
4294153 TTGTGGGCTTTGAAAATGTGCCATTAAC
1 TTGTGGGCTTTGAAAGGGTGCCACTGAC
* *
4294181 TTGTGGGCTTGGAGAA--GTGCCACTAAC
1 TTGTGGGCTTTGA-AAGGGTGCCACTGAC
** *
4294208 ACGTGGGCTTT-AAGAAGGTGCCACTGAC
1 TTGTGGGCTTTGAA-AGGGTGCCACTGAC
** * *
4294236 ACGTGGGCATTGAGAA-AGTGCCACTGAC
1 TTGTGGGCTTTGA-AAGGGTGCCACTGAC
** *
4294264 ACGTGGGCTTT-AAGAGGATGCC-CTTGAC
1 TTGTGGGCTTTGAA-AGGGTGCCAC-TGAC
*** * * *
4294292 ACATGGGCTTTGAGAGGATGTCACTGAC
1 TTGTGGGCTTTGAAAGGGTGCCACTGAC
** *
4294320 TTGCT-AACTTGGAGAA-GGTGCCACTGAC
1 TTG-TGGGCTTTGA-AAGGGTGCCACTGAC
** * *
4294348 ACGTGGGCTTT-AAGAGGATGCCATTGAC
1 TTGTGGGCTTTGAA-AGGGTGCCACTGAC
*** * * *
4294376 ACATGGGCTTTGAGAGGATGCCATTGAC
1 TTGTGGGCTTTGAAAGGGTGCCACTGAC
* **
4294404 TTATGGGCTTAAAAAGGGTGCCACTTG-C
1 TTGTGGGCTTTGAAAGGGTGCCAC-TGAC
* *
4294432 TTGTGGGCTTTGGAAGGGTGCCACCGAC
1 TTGTGGGCTTTGAAAGGGTGCCACTGAC
** *
4294460 TTGTGGGCTTAAAAAGGGTGCCATTTG-C
1 TTGTGGGCTTTGAAAGGGTGCCA-CTGAC
* * * * *
4294488 TTATAGGCTTTAAAAAGATGCCACTGAC
1 TTGTGGGCTTTGAAAGGGTGCCACTGAC
** *
4294516 TTGTGGGCTTTGAAAGAATGCCACTAAC
1 TTGTGGGCTTTGAAAGGGTGCCACTGAC
*
4294544 TTATGGGCTTTGAA
1 TTGTGGGCTTTGAA
4294558 GAGATGAACG
Statistics
Matches: 344, Mismatches: 68, Indels: 42
0.76 0.15 0.09
Matches are distributed among these distances:
25 1 0.00
26 4 0.01
27 27 0.08
28 299 0.87
29 12 0.03
30 1 0.00
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (28 bp):
TTGTGGGCTTTGAAAGGGTGCCACTGAC
Found at i:4294335 original size:84 final size:84
Alignment explanation
Indices: 4294247--4294405 Score: 282
Period size: 84 Copynumber: 1.9 Consensus size: 84
4294237 CGTGGGCATT
*
4294247 GAGAAAGTGCCACTGACACGTGGGCTTTAAGAGGATGCCCTTGACACATGGGCTTTGAGAGGATG
1 GAGAAAGTGCCACTGACACGTGGGCTTTAAGAGGATGCCATTGACACATGGGCTTTGAGAGGATG
*
4294312 TCACTGACTTGCTAACTTG
66 CCACTGACTTGCTAACTTG
*
4294331 GAGAAGGTGCCACTGACACGTGGGCTTTAAGAGGATGCCATTGACACATGGGCTTTGAGAGGATG
1 GAGAAAGTGCCACTGACACGTGGGCTTTAAGAGGATGCCATTGACACATGGGCTTTGAGAGGATG
*
4294396 CCATTGACTT
66 CCACTGACTT
4294406 ATGGGCTTAA
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
84 71 1.00
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (84 bp):
GAGAAAGTGCCACTGACACGTGGGCTTTAAGAGGATGCCATTGACACATGGGCTTTGAGAGGATG
CCACTGACTTGCTAACTTG
Found at i:4295822 original size:1 final size:1
Alignment explanation
Indices: 4295811--4295853 Score: 50
Period size: 1 Copynumber: 43.0 Consensus size: 1
4295801 TGGACCCTTA
* * * *
4295811 TTTTTTGTTTTTTTATTTTTTTGTTTTTTTTTATTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
4295854 GTACGAATGA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.05, C:0.00, G:0.05, T:0.91
Consensus pattern (1 bp):
T
Found at i:4295832 original size:16 final size:15
Alignment explanation
Indices: 4295811--4295853 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 15
4295801 TGGACCCTTA
4295811 TTTTTTGTTTTTTTAT
1 TTTTTTGTTTTTTT-T
4295827 TTTTTTGTTTTTTTT
1 TTTTTTGTTTTTTTT
4295842 TATTTTT-TTTTT
1 T-TTTTTGTTTTT
4295854 GTACGAATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.27
16 19 0.73
ACGTcount: A:0.05, C:0.00, G:0.05, T:0.91
Consensus pattern (15 bp):
TTTTTTGTTTTTTTT
Found at i:4295837 original size:21 final size:21
Alignment explanation
Indices: 4295812--4295855 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
4295802 GGACCCTTAT
*
4295812 TTTTTGTTTTTTTATTTTTTTG
1 TTTTT-TTTTATTATTTTTTTG
*
4295834 TTTTTTTTTATTTTTTTTTTG
1 TTTTTTTTTATTATTTTTTTG
4295855 T
1 T
4295856 ACGAATGACG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.05, C:0.00, G:0.07, T:0.89
Consensus pattern (21 bp):
TTTTTTTTTATTATTTTTTTG
Found at i:4304077 original size:52 final size:52
Alignment explanation
Indices: 4303929--4304057 Score: 249
Period size: 52 Copynumber: 2.5 Consensus size: 52
4303919 CGAAATATGA
4303929 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
*
4303981 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
4304033 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
4304058 AAGATCAGTG
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 76 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
Found at i:4304084 original size:13 final size:13
Alignment explanation
Indices: 4304066--4304090 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4304056 CAAAGATCAG
4304066 TGTATCGATACAA
1 TGTATCGATACAA
4304079 TGTATCGATACA
1 TGTATCGATACA
4304091 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4304187 original size:33 final size:32
Alignment explanation
Indices: 4304134--4304197 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
4304124 AGCTTAAATT
*
4304134 GTATCGATACAAAATTTATGTATCGATACAAC
1 GTATCGAAACAAAATTTATGTATCGATACAAC
*
4304166 GTATCGAAACAATATTTTATGTATCGATACAA
1 GTATCGAAACAA-AATTTATGTATCGATACAA
4304198 ATCATTGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 11 0.38
33 18 0.62
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (32 bp):
GTATCGAAACAAAATTTATGTATCGATACAAC
Found at i:4305172 original size:52 final size:52
Alignment explanation
Indices: 4305117--4305770 Score: 743
Period size: 52 Copynumber: 12.7 Consensus size: 52
4305107 TGAAGGTGCT
* * * * ** *
4305117 AATATGCTGATTCAAGGCTAGCGATATTAGACTTAAAGGTGCCAAAGGCGTT
1 AATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGAAAAGGCGTC
* ** * *
4305169 AATATGCTGATTCAAGGCCAGCTACATTAAACTTAAAGATGGAAAAGGTGCC
1 AATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGAAAAGGCGTC
* * **
4305221 AATATGCTGATTCAAGGCCAGCTATAATGGACTTAAAGGTGCCAAAGGCGTC
1 AATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGAAAAGGCGTC
* * *
4305273 AATATGCTGATTCAAAGG-CAGCTATATTGAACTTAAAGATGGAAAAGGTGCC
1 AATATGCTGATTC-AAGGCCAGCTATATTGGACTTAAAGATGGAAAAGGCGTC
* * **
4305325 AATATGCTGATTTCAAGGCCAGTTATATTGGACTTAAAGGTGTCAAAGGCGTC
1 AATATGCTGA-TTCAAGGCCAGCTATATTGGACTTAAAGATGGAAAAGGCGTC
* * *
4305378 AATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGTC
1 AATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGAAAAGGCGTC
* * **
4305430 AACATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAAAGGCGTC
1 AATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGAAAAGGCGTC
* * * *
4305482 AATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCC
1 AATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGAAAAGGCGTC
* **
4305534 AATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAAAGGCGTC
1 AATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGAAAAGGCGTC
* * * * * *
4305586 AATATGCTGATTGAAGGCTAGCTACATTGAACTTAAAGATGGAAAAGGTGCC
1 AATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGAAAAGGCGTC
* *
4305638 AACATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGCT-G--AAGTGC--C
1 AATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGAAAAG-GCGTC
* * * * * *
4305686 AATGTGCTGATTCAAGGCCAGCTACATTGGA-TTTAA-A--GACAAGGTGCC
1 AATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGAAAAGGCGTC
*
4305734 AATATGCTGATTCAAGGCCAGCTATATTGGGCTTAAA
1 AATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA
4305771 AGAAGACGCC
Statistics
Matches: 505, Mismatches: 88, Indels: 21
0.82 0.14 0.03
Matches are distributed among these distances:
45 1 0.00
46 1 0.00
47 7 0.01
48 58 0.11
49 7 0.01
50 1 0.00
51 1 0.00
52 385 0.76
53 44 0.09
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (52 bp):
AATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGAAAAGGCGTC
Found at i:4305234 original size:104 final size:104
Alignment explanation
Indices: 4305109--4305770 Score: 1038
Period size: 104 Copynumber: 6.4 Consensus size: 104
4305099 AAAGATGATG
* * * * *
4305109 AAGGTGCTAATATGCTGATTCAAGGCTAGCGATATTAGACTTAAAGGTGCCAAAGGCGTTAATAT
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAAAGGCGTCAATAT
*
4305174 GCTGATTCAAGGCCAGCTACATTAAACTTAAAGATGGAA
66 GCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAA
*
4305213 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATAATGGACTTAAAGGTGCCAAAGGCGTCAATAT
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAAAGGCGTCAATAT
*
4305278 GCTGATTCAAAGG-CAGCTATATTGAACTTAAAGATGGAA
66 GCTGATTC-AAGGCCAGCTACATTGAACTTAAAGATGGAA
* *
4305317 AAGGTGCCAATATGCTGATTTCAAGGCCAGTTATATTGGACTTAAAGGTGTCAAAGGCGTCAATA
1 AAGGTGCCAATATGCTGA-TTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAAAGGCGTCAATA
4305382 TGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAA
65 TGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAA
* *
4305422 AAGGTGTCAACATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAAAGGCGTCAATAT
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAAAGGCGTCAATAT
4305487 GCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAA
66 GCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAA
4305526 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAAAGGCGTCAATAT
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAAAGGCGTCAATAT
* *
4305591 GCTGATTGAAGGCTAGCTACATTGAACTTAAAGATGGAA
66 GCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAA
* * *
4305630 AAGGTGCCAACATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGCTG---AAGTGC--CAATG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAAAG-GCGTCAATA
* * *
4305690 TGCTGATTCAAGGCCAGCTACATTGGA-TTTAA-A--GAC
65 TGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAA
*
4305726 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAAA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA
4305771 AGAAGACGCC
Statistics
Matches: 524, Mismatches: 30, Indels: 16
0.92 0.05 0.03
Matches are distributed among these distances:
96 45 0.09
98 1 0.00
99 4 0.01
100 28 0.05
101 3 0.01
102 2 0.00
104 344 0.66
105 97 0.19
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (104 bp):
AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAAAGGCGTCAATAT
GCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAA
Found at i:4305898 original size:30 final size:29
Alignment explanation
Indices: 4305790--4305913 Score: 157
Period size: 28 Copynumber: 4.3 Consensus size: 29
4305780 CATCAACTTG
*
4305790 TGTGGGCTTTTGAAAGGTTTG-CA-TCAGCT
1 TGTGGGCTTTTGAAAGG-TTGCCACT-AACT
* *
4305819 TGTGTGCTTTTG-AAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAGGTTGCCACTAACT
4305847 TGTGGGCTTTT-AAAGGTTGCCACTAACT
1 TGTGGGCTTTTGAAAGGTTGCCACTAACT
*
4305875 TGTGGGCTTTTGAAAAGGGTGCCACTAACT
1 TGTGGGCTTTTG-AAAGGTTGCCACTAACT
4305905 TGTGGGCTT
1 TGTGGGCTT
4305914 AAAAGGAAAA
Statistics
Matches: 84, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
27 3 0.04
28 44 0.52
29 12 0.14
30 25 0.30
ACGTcount: A:0.18, C:0.16, G:0.30, T:0.36
Consensus pattern (29 bp):
TGTGGGCTTTTGAAAGGTTGCCACTAACT
Found at i:4305942 original size:34 final size:34
Alignment explanation
Indices: 4305904--4305978 Score: 98
Period size: 35 Copynumber: 2.2 Consensus size: 34
4305894 TGCCACTAAC
* * *
4305904 TTGTGGGCTTA-AAAGGAAAAAGAGTGCTACGGAG
1 TTGTGGG-TTACAAAAGAAAAAAAGTGCCACGGAG
4305938 TTGTGAGGTTACAAAAGAAAAAAAGTGCCACGGAG
1 TTGTG-GGTTACAAAAGAAAAAAAGTGCCACGGAG
4305973 TTGTGG
1 TTGTGG
4305979 ACTTTGGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
34 9 0.25
35 27 0.75
ACGTcount: A:0.36, C:0.09, G:0.33, T:0.21
Consensus pattern (34 bp):
TTGTGGGTTACAAAAGAAAAAAAGTGCCACGGAG
Found at i:4306005 original size:29 final size:29
Alignment explanation
Indices: 4305958--4306132 Score: 160
Period size: 29 Copynumber: 6.1 Consensus size: 29
4305948 ACAAAAGAAA
* *
4305958 AAAAG-TGCCACGGAGTTGTGGACTTTGG
1 AAAAGATGCCACTGACTTGTGGACTTTGG
* ***
4305986 AAAAGATGCCACCGACTTGT-GAGCTTCAA
1 AAAAGATGCCACTGACTTGTGGA-CTTTGG
* * *
4306015 AAAAGTGTGCCACTGATTTGTGGGCTTT-G
1 AAAAG-ATGCCACTGACTTGTGGACTTTGG
* * * *
4306044 -AAGGTTGCCACTTACTTGTGGACTTTGA
1 AAAAGATGCCACTGACTTGTGGACTTTGG
*
4306072 AAAAGATGCCACTGACTTGTGGGCTTTGG
1 AAAAGATGCCACTGACTTGTGGACTTTGG
* *
4306101 AAAAGATGCCACTGACTTGTGGGCTTTAG
1 AAAAGATGCCACTGACTTGTGGACTTTGG
4306130 AAA
1 AAA
4306133 GGTGAGGAAT
Statistics
Matches: 118, Mismatches: 23, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
27 18 0.15
28 10 0.08
29 74 0.63
30 15 0.13
31 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (29 bp):
AAAAGATGCCACTGACTTGTGGACTTTGG
Found at i:4306097 original size:56 final size:59
Alignment explanation
Indices: 4305957--4306132 Score: 193
Period size: 57 Copynumber: 3.1 Consensus size: 59
4305947 TACAAAAGAA
* * * * *
4305957 AAAAAG-TGCCACGGAGTTGTGGACTTTGGAAAAGATGCCACCGACTTGT-GAGCTTCA-
1 AAAAAGATGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGA-CTTTAG
* * * * *
4306014 AAAAAGTGTGCCACTGATTTGTGGGCTTT-G-AAGGTTGCCACTTACTTGTGGACTTT-G
1 AAAAAG-ATGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGACTTTAG
*
4306071 AAAAAGATGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTAG
1 AAAAAGATGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGACTTTAG
4306130 AAA
1 AAA
4306133 GGTGAGGAAT
Statistics
Matches: 98, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
56 20 0.20
57 31 0.32
58 25 0.26
59 22 0.22
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (59 bp):
AAAAAGATGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGACTTTAG
Found at i:4307034 original size:13 final size:13
Alignment explanation
Indices: 4307016--4307041 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4307006 CAATTTTTTG
4307016 TGTATCGATACAT
1 TGTATCGATACAT
4307029 TGTATCGATACAT
1 TGTATCGATACAT
4307042 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4307106 original size:21 final size:21
Alignment explanation
Indices: 4307080--4307155 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
4307070 CTGCCAAGAA
*
4307080 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
4307101 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
4307121 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
4307142 ATGTATCGATACAT
1 ATGTATCGATACAT
4307156 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:4307126 original size:20 final size:20
Alignment explanation
Indices: 4307101--4307173 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
4307091 CATCTTTTTT
4307101 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
4307121 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
4307142 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
4307162 ATGTATCGATAC
1 ATGTATCGATAC
4307174 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:4307137 original size:41 final size:41
Alignment explanation
Indices: 4307080--4307173 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
4307070 CTGCCAAGAA
*
4307080 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
4307121 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
4307162 ATGTATCGATAC
1 ATGTATCGATAC
4307174 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:4308793 original size:17 final size:17
Alignment explanation
Indices: 4308763--4308802 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
4308753 ATCCGAACCC
4308763 TTTTTGTTGTTGTTTTGT
1 TTTTTGTTGTTGTTTT-T
*
4308781 TTTTTTTTG-TGTTTTT
1 TTTTTGTTGTTGTTTTT
4308797 TTTTTG
1 TTTTTG
4308803 CGGAGGACGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 6 0.30
17 6 0.30
18 8 0.40
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.82
Consensus pattern (17 bp):
TTTTTGTTGTTGTTTTT
Found at i:4322171 original size:52 final size:52
Alignment explanation
Indices: 4322023--4322151 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
4322013 CGAAATATGA
*
4322023 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATTTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
* * * *
4322075 AAATTTGCCTGGATGCATCGATACATTTTATAATGTATCGATACATCTGGGT
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
4322127 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
4322152 AAGATCAGTG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
Found at i:4322178 original size:13 final size:13
Alignment explanation
Indices: 4322160--4322184 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4322150 CAAAGATCAG
4322160 TGTATCGATACAA
1 TGTATCGATACAA
4322173 TGTATCGATACA
1 TGTATCGATACA
4322185 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4322263 original size:13 final size:13
Alignment explanation
Indices: 4322245--4322271 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4322235 TACAAAATTT
4322245 ATGTATCGATACA
1 ATGTATCGATACA
4322258 ATGTATCGATACA
1 ATGTATCGATACA
4322271 A
1 A
4322272 ATCGTTGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4323251 original size:52 final size:52
Alignment explanation
Indices: 4323190--4323802 Score: 800
Period size: 52 Copynumber: 11.8 Consensus size: 52
4323180 ATGAAGGTTC
* *
4323190 CAATATGCTGATTCAAGGCCAGCGATATT-AGACTTAAAGGTGCCAAAGGCGT
1 CAATATGCTGATTCAAGGCCAGCTATATTGA-ACTTAAAGATGCCAAAGGCGT
* ** * *
4323242 CAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGAACTTAAAGATGCCAAAGGCGT
* *
4323294 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAAAGGCGT
1 CAATATGCTGATTCAAGGCCAGCTATATTGAACTTAAAGATGCCAAAGGCGT
* * * ** * *
4323346 CAATATGTTGATTCAAGGGCAGCTACATTGAACTTAAAGATGAAAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGAACTTAAAGATGCCAAAGGCGT
* * *
4323398 CAATATGCTGATTCAAGGCCAGCTATATTGAACTTAAAGGTGCCAAAAGCAT
1 CAATATGCTGATTCAAGGCCAGCTATATTGAACTTAAAGATGCCAAAGGCGT
* * ** * *
4323450 CAATATGCTGATTCAAGGCCAGTTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGAACTTAAAGATGCCAAAGGCGT
* * * *
4323502 CAACATGCTGATTCAAGGCCAGCTATATTGGATTTAAAGGTGCCAAAGGCGT
1 CAATATGCTGATTCAAGGCCAGCTATATTGAACTTAAAGATGCCAAAGGCGT
* ** * *
4323554 CAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGAACTTAAAGATGCCAAAGGCGT
* *
4323606 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGTTGCCAAAGGCGT
1 CAATATGCTGATTCAAGGCCAGCTATATTGAACTTAAAGATGCCAAAGGCGT
* ** *
4323658 CAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTG-
1 CAATATGCTGATTCAAGGCCAGCTATATTGAACTTAAAGATGCCAAAGGCGT
* *
4323709 CAACATGCTGATTCAAGGCCAGCTATATTGGACTTAAATG-TGCCAAAGGCGT
1 CAATATGCTGATTCAAGGCCAGCTATATTGAACTTAAA-GATGCCAAAGGCGT
*
4323761 CAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG
1 CAATATGCTGATTCAAGGCCAGCTATATTGAACTTAAAGATG
4323803 GAAAAGGTGC
Statistics
Matches: 474, Mismatches: 83, Indels: 8
0.84 0.15 0.01
Matches are distributed among these distances:
51 44 0.09
52 429 0.91
53 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (52 bp):
CAATATGCTGATTCAAGGCCAGCTATATTGAACTTAAAGATGCCAAAGGCGT
Found at i:4323309 original size:104 final size:104
Alignment explanation
Indices: 4323183--4323815 Score: 1124
Period size: 104 Copynumber: 6.1 Consensus size: 104
4323173 AAAGATGATG
* * *
4323183 AAGGTTCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGGTGCCAAAGGCGTCAATAT
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAAAGGCGTCAATAT
4323248 GCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAA
66 GCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAA
4323287 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAAAGGCGTCAATAT
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAAAGGCGTCAATAT
* * *
4323352 GTTGATTCAAGGGCAGCTACATTGAACTTAAAGATGAAA
66 GCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAA
* * *
4323391 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGAACTTAAAGGTGCCAAAAGCATCAATAT
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAAAGGCGTCAATAT
*
4323456 GCTGATTCAAGGCCAGTTACATTGAACTTAAAGATGGAA
66 GCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAA
* *
4323495 AAGGTGCCAACATGCTGATTCAAGGCCAGCTATATTGGATTTAAAGGTGCCAAAGGCGTCAATAT
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAAAGGCGTCAATAT
4323560 GCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAA
66 GCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAA
*
4323599 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGTTGCCAAAGGCGTCAATAT
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAAAGGCGTCAATAT
4323664 GCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAA
66 GCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAA
* *
4323703 AAGGTG-CAACATGCTGATTCAAGGCCAGCTATATTGGACTTAAATGTGCCAAAGGCGTCAATAT
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAAAGGCGTCAATAT
4323767 GCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAA
66 GCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAA
4323806 AAGGTGCCAA
1 AAGGTGCCAA
4323816 CATGAATGAT
Statistics
Matches: 503, Mismatches: 25, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
103 100 0.20
104 403 0.80
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.24
Consensus pattern (104 bp):
AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAAAGGCGTCAATAT
GCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAA
Found at i:4331221 original size:20 final size:20
Alignment explanation
Indices: 4331196--4331359 Score: 139
Period size: 20 Copynumber: 7.7 Consensus size: 20
4331186 TTTTAACTAG
*
4331196 ATGTATCCATACATTGAAAA
1 ATGTATCGATACATTGAAAA
*** *
4331216 ATGTATCGATACATTCTTAC
1 ATGTATCGATACATTGAAAA
* *** *
4331236 ATATATCGATACATTTTTAC
1 ATGTATCGATACATTGAAAA
*
4331256 ATATATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
4331276 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
4331296 ATGTATCGATACATCTGGGTAAAAGACATA
1 ATGTATCGATACAT-T--G----A-A-A-A
4331326 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
4331346 ATGTATCGATACAT
1 ATGTATCGATACAT
4331360 ATAGGTAAAA
Statistics
Matches: 122, Mismatches: 12, Indels: 20
0.79 0.08 0.13
Matches are distributed among these distances:
20 97 0.80
21 2 0.02
22 1 0.01
23 2 0.02
27 2 0.02
28 1 0.01
29 2 0.02
30 15 0.12
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:4331334 original size:50 final size:50
Alignment explanation
Indices: 4331275--4331369 Score: 172
Period size: 50 Copynumber: 1.9 Consensus size: 50
4331265 TACATTGAAA
* *
4331275 AATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAGACAT
1 AATGTATCGATACATTGAAAAATGTATCGATACATATAGGTAAAAGACAT
4331325 AATGTATCGATACATTGAAAAATGTATCGATACATATAGGTAAAA
1 AATGTATCGATACATTGAAAAATGTATCGATACATATAGGTAAAA
4331370 ATGTGACTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.44, C:0.11, G:0.17, T:0.28
Consensus pattern (50 bp):
AATGTATCGATACATTGAAAAATGTATCGATACATATAGGTAAAAGACAT
Found at i:4334033 original size:23 final size:24
Alignment explanation
Indices: 4334007--4334083 Score: 97
Period size: 23 Copynumber: 3.3 Consensus size: 24
4333997 TTGCTTTCTT
* *
4334007 TTGCTATTT-ACAGCTGCTTTTGC
1 TTGCTATTTGACAGTTGCTCTTGC
4334030 TTGCTATTTGACA-TTGCTCTTGC
1 TTGCTATTTGACAGTTGCTCTTGC
* *
4334053 TTGCTCTTTGAC-GTTTCTCTTGC
1 TTGCTATTTGACAGTTGCTCTTGC
4334076 TTGCTATT
1 TTGCTATT
4334084 GCTGCTGGTG
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
23 44 0.94
24 3 0.06
ACGTcount: A:0.10, C:0.22, G:0.17, T:0.51
Consensus pattern (24 bp):
TTGCTATTTGACAGTTGCTCTTGC
Found at i:4334352 original size:82 final size:82
Alignment explanation
Indices: 4334252--4334454 Score: 235
Period size: 82 Copynumber: 2.5 Consensus size: 82
4334242 ACTACAGTTA
** * * *
4334252 CTTGCTTCAGCTATTACTTTTGCTGCTTATTTTGCTATTGCTTTTCTTGCTACTTGTTTTACTAT
1 CTTGCTTCAGCTGCTACTTTTGCTGCTTGTTTTGCTATTGCTTTTCTTGCCACTTGCTTTACTAT
4334317 CTTTCTTACCGTTGCTT
66 CTTTCTTACCGTTGCTT
* * * *
4334334 CTTGCTTCAGCTGCTACTTTTGCTGTTTGTTTTGCTGTTGCTTTTCTTGCCATTTGCTTTGCTAT
1 CTTGCTTCAGCTGCTACTTTTGCTGCTTGTTTTGCTATTGCTTTTCTTGCCACTTGCTTTACTAT
* ****
4334399 TTTTCTTGTTTTTGCTT
66 CTTTCTTACCGTTGCTT
* * * * *
4334416 CTTGTTTCAACTGCTGCCTTTGTTGCTTGTTTTGCTATT
1 CTTGCTTCAGCTGCTACTTTTGCTGCTTGTTTTGCTATT
4334455 TTTGCTGCTT
Statistics
Matches: 100, Mismatches: 21, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
82 100 1.00
ACGTcount: A:0.08, C:0.21, G:0.15, T:0.56
Consensus pattern (82 bp):
CTTGCTTCAGCTGCTACTTTTGCTGCTTGTTTTGCTATTGCTTTTCTTGCCACTTGCTTTACTAT
CTTTCTTACCGTTGCTT
Found at i:4336721 original size:20 final size:20
Alignment explanation
Indices: 4336698--4336822 Score: 88
Period size: 20 Copynumber: 5.7 Consensus size: 20
4336688 TAGTACCCAG
4336698 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
4336718 ATGTATCCATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
4336738 ATGTACCAATACATTCTTCA
1 ATGTATCGATACATTTTTCA
4336758 ATGTATCGATACATTCTGTCTTTTTACCCA
1 ATGTATCGATACA-------TTTTT---CA
4336788 GATGTATCGATACATTTTTCA
1 -ATGTATCGATACATTTTTCA
4336809 ATGTATCGATACAT
1 ATGTATCGATACAT
4336823 CTAGTTAAAA
Statistics
Matches: 81, Mismatches: 13, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
20 55 0.68
21 2 0.02
24 5 0.06
27 4 0.05
30 2 0.02
31 13 0.16
ACGTcount: A:0.30, C:0.18, G:0.11, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:4351996 original size:28 final size:28
Alignment explanation
Indices: 4351961--4352454 Score: 575
Period size: 28 Copynumber: 17.5 Consensus size: 28
4351951 CATTCACCTC
*
4351961 TTCAAAGCACACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
4351989 TTTAAAGCTCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * * *
4352017 TTCAAAGCCCACAACTTAGTAGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
4352045 TTCAAAGCCCACAAGAT-AG-GGCACCCT
1 TTCAAAGCCCACAAG-TCAGTGGCACCCT
* *
4352072 TTCAAAGCCCATAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
4352100 TTCAAAGCCCACAAGTCGGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
4352128 TTGAAAGCCCACAAGTCAGTGGCACCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
4352156 TTCAAAGCCCATAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
4352184 TCCAAAGCCCACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
4352212 TTCAAAGCCCACAAGTCAGTGGCACCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
4352240 TTCAAAGCCCACAAGAT-AGTGGCACCCT
1 TTCAAAGCCCACAAG-TCAGTGGCACCCT
* * *
4352268 CTCAAAGCCCACAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
4352296 TTCAAAGCCTACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
4352324 TTCAAAGCCCATAAGTCAGTGGCACAC-
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
4352351 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* * *
4352380 TTCAAAACCCACAAG-CTAGTGGTAACTCTT
1 TTCAAAGCCCACAAGTC-AGTGG-CAC-CCT
* **
4352410 TTCAAAGCCCACACGAGTCGGTGGCAACTATT
1 TTCAAAGCCCACA--AGTCAGTGGC-AC-CCT
4352442 TTCAAAGCCCACA
1 TTCAAAGCCCACA
4352455 CAAGTTAGTA
Statistics
Matches: 404, Mismatches: 49, Indels: 22
0.85 0.10 0.05
Matches are distributed among these distances:
26 1 0.00
27 47 0.12
28 292 0.72
29 21 0.05
30 18 0.04
32 24 0.06
33 1 0.00
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.22
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCT
Found at i:4352977 original size:28 final size:28
Alignment explanation
Indices: 4352942--4353436 Score: 593
Period size: 28 Copynumber: 17.5 Consensus size: 28
4352932 CATTCACCTC
4352942 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
4352970 TTTAAAGCTCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
4352998 TTCAAAGCCCACAACTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
4353026 TTCAAAGCCCACAAGAT-AG-GGCACCCT
1 TTCAAAGCCCACAAG-TCAGTGGCACCCT
* *
4353053 TTCAAAGCCCATAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
4353081 TTCAAAGCCCACAAGTCGGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
4353109 TTGAAAGCCCACAAGTCAGTGGCACCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
4353137 TTCAAAGCCCATAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
4353165 TCCAAAGCCCACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
4353193 TTCAAAGCCCACAAGTCAGTGGCACCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
4353221 TTCAAAGCCCACAAGAT-AGTGGCACCCT
1 TTCAAAGCCCACAAG-TCAGTGGCACCCT
* * *
4353249 CTCAAAGCCCACAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
4353277 TTCAAAGCCTATAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
4353305 TTCAAAGCCCATAAGTCAGTGGCACACT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
4353333 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* * *
4353362 TTCAAAACCCACAAG-CTAGTGGTAACTCTT
1 TTCAAAGCCCACAAGTC-AGTGG-CAC-CCT
* **
4353392 TTCAAAGCCCACACAAGTCGGTGGCAACTATT
1 TTCAAAG-CC-CACAAGTCAGTGGC-AC-CCT
4353424 TTCAAAGCCCACA
1 TTCAAAGCCCACA
4353437 CAAGTTAGTA
Statistics
Matches: 408, Mismatches: 47, Indels: 22
0.86 0.10 0.05
Matches are distributed among these distances:
26 1 0.00
27 24 0.06
28 318 0.78
29 22 0.05
30 16 0.04
31 4 0.01
32 22 0.05
33 1 0.00
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.22
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCT
Found at i:4354374 original size:20 final size:20
Alignment explanation
Indices: 4354349--4354425 Score: 127
Period size: 20 Copynumber: 3.9 Consensus size: 20
4354339 AAGTACCCAG
4354349 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
* * *
4354369 ATGTATCGATACATGCATGA
1 ATGTATCGATACATTCTTCA
4354389 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
4354409 ATGTATCGATACATTCT
1 ATGTATCGATACATTCT
4354426 GTCTTTTTAC
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTCTTCA
Found at i:4355600 original size:21 final size:21
Alignment explanation
Indices: 4355567--4355607 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4355557 CTAAGTAAAA
4355567 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
4355588 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
4355608 CAAATGTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:4356012 original size:13 final size:13
Alignment explanation
Indices: 4355994--4356019 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4355984 TACACCAAGT
4355994 ATGTATCGATACA
1 ATGTATCGATACA
4356007 ATGTATCGATACA
1 ATGTATCGATACA
4356020 CCAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4356017 original size:32 final size:33
Alignment explanation
Indices: 4355976--4356039 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
4355966 TAGCCAAACT
**
4355976 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACCAAAAATTGTATCGATACAA
4356008 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
4356040 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAATTGTATCGATACAA
Found at i:4358260 original size:21 final size:21
Alignment explanation
Indices: 4358227--4358271 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
4358217 TTGCAAGTTG
*
4358227 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
4358249 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
4358269 AAA
1 AAA
4358272 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:4360093 original size:15 final size:15
Alignment explanation
Indices: 4360073--4360103 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4360063 TAAAAATGTC
*
4360073 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
4360088 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
4360103 C
1 C
4360104 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:4362196 original size:13 final size:13
Alignment explanation
Indices: 4362178--4362203 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4362168 ACATTTTTCT
4362178 TTGTATCGATACA
1 TTGTATCGATACA
4362191 TTGTATCGATACA
1 TTGTATCGATACA
4362204 GGGTGATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:4364011 original size:33 final size:33
Alignment explanation
Indices: 4363974--4364040 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
4363964 TTCAACGATT
4363974 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
4364007 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
4364040 T
1 T
4364041 TTAAGCTACT
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:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:4364012 original size:13 final size:13
Alignment explanation
Indices: 4363994--4364018 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4363984 CATAAAATGT
4363994 TGTATCGATACAA
1 TGTATCGATACAA
4364007 TGTATCGATACA
1 TGTATCGATACA
4364019 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4364099 original size:13 final size:13
Alignment explanation
Indices: 4364081--4364105 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4364071 ATTACTCAAA
4364081 TGTATCGATACAT
1 TGTATCGATACAT
4364094 TGTATCGATACA
1 TGTATCGATACA
4364106 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4364207 original size:52 final size:52
Alignment explanation
Indices: 4364114--4364237 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
4364104 CACTGATCTT
*
4364114 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
4364165 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
4364217 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
4364238 CTTTTCATAT
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
51 19 0.28
52 50 0.72
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:4367497 original size:21 final size:21
Alignment explanation
Indices: 4367472--4367514 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
4367462 CATGTCAGGA
4367472 GCATCTCGTCATGCAATGAAT
1 GCATCTCGTCATGCAATGAAT
4367493 GCATCTCGTCATGCAATGAAT
1 GCATCTCGTCATGCAATGAAT
4367514 G
1 G
4367515 TCATTTTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (21 bp):
GCATCTCGTCATGCAATGAAT
Found at i:4372544 original size:31 final size:31
Alignment explanation
Indices: 4372506--4372685 Score: 224
Period size: 31 Copynumber: 5.7 Consensus size: 31
4372496 AAATACCTTT
4372506 TCAAAGTCCACGACTCAGTGGCAATCTCTTC
1 TCAAAGTCCACGACTCAGTGGCAATCTCTTC
*
4372537 TCAAAGTCCACGACTCAGTGGC-ATCCTTTTC
1 TCAAAGTCCACGACTCAGTGGCAAT-CTCTTC
* *
4372568 TTCAAAGTCCATGACTCAGTGGCAATCTCTGC
1 -TCAAAGTCCACGACTCAGTGGCAATCTCTTC
*
4372600 TCAAAGTCCACGACTCAGTGGCATTCTCTTC
1 TCAAAGTCCACGACTCAGTGGCAATCTCTTC
* *
4372631 TCAAAGTCCATGA-TGCAGT-GCCATC-CTTC
1 TCAAAGTCCACGACT-CAGTGGCAATCTCTTC
4372660 TCTTTAAAGTCCACGACTCAGTGGCA
1 TC---AAAGTCCACGACTCAGTGGCA
4372686 TTTTTTCTTT
Statistics
Matches: 128, Mismatches: 12, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
29 6 0.05
30 7 0.05
31 71 0.55
32 39 0.30
33 5 0.04
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.28
Consensus pattern (31 bp):
TCAAAGTCCACGACTCAGTGGCAATCTCTTC
Found at i:4372576 original size:63 final size:62
Alignment explanation
Indices: 4372505--4372716 Score: 252
Period size: 63 Copynumber: 3.4 Consensus size: 62
4372495 CAAATACCTT
4372505 TTCAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCATCCTTTTC
1 TTCAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCAT-CTTTTC
* * *
4372568 TTCAAAGTCCATGACTCAGTGGCAATCTCTGCTCAAAGTCCACGACTCAGTGGCATTCTCTTC
1 TTCAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCA-TCTTTTC
* * *
4372631 -TCAAAGTCCATGA-TGCAGT-GCCATC-CTTCTCTTTAAAGTCCACGACTCAGTGGCATTTTTT
1 TTCAAAGTCCACGACT-CAGTGGCAATCTCTTCTC---AAAGTCCACGACTCAGTGGCATCTTTT
4372692 C
62 C
* * * *
4372693 TTTAAAGCCCACAACTCCGTGGCA
1 TTCAAAGTCCACGACTCAGTGGCA
4372717 CCTTGTTCCT
Statistics
Matches: 128, Mismatches: 13, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
60 5 0.04
61 6 0.05
62 22 0.17
63 91 0.71
64 4 0.03
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (62 bp):
TTCAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCATCTTTTC
Found at i:4372698 original size:31 final size:31
Alignment explanation
Indices: 4372505--4372749 Score: 219
Period size: 31 Copynumber: 7.8 Consensus size: 31
4372495 CAAATACCTT
*
4372505 TTCAAAGTCCACGACTCAGTGGCAATCTCTTC
1 TTCAAAGTCCACGACTCAGTGGC-ATCTTTTC
4372537 -TCAAAGTCCACGACTCAGTGGCATCCTTTTC
1 TTCAAAGTCCACGACTCAGTGGCAT-CTTTTC
* * *
4372568 TTCAAAGTCCATGACTCAGTGGCAATCTCTGC
1 TTCAAAGTCCACGACTCAGTGGC-ATCTTTTC
*
4372600 -TCAAAGTCCACGACTCAGTGGCATTCTCTTC
1 TTCAAAGTCCACGACTCAGTGGCA-TCTTTTC
* * *
4372631 -TCAAAGTCCATGA-TGCAGTGCCATCCTTCTC
1 TTCAAAGTCCACGACT-CAGTGGCAT-CTTTTC
* *
4372662 TTTAAAGTCCACGACTCAGTGGCATTTTTTC
1 TTCAAAGTCCACGACTCAGTGGCATCTTTTC
* * * * *
4372693 TTTAAAGCCCACAACTCCGTGGCACCTTGTTCC
1 TTCAAAGTCCACGACTCAGTGGCATCTT-TT-C
** * *
4372726 TTTTAAGTCCACAACTCTGTGGCA
1 TTCAAAGTCCACGACTCAGTGGCA
4372750 CCCTTTTAAA
Statistics
Matches: 180, Mismatches: 23, Indels: 19
0.81 0.10 0.09
Matches are distributed among these distances:
30 5 0.03
31 104 0.58
32 46 0.26
33 25 0.14
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.30
Consensus pattern (31 bp):
TTCAAAGTCCACGACTCAGTGGCATCTTTTC
Found at i:4372716 original size:94 final size:94
Alignment explanation
Indices: 4372506--4372685 Score: 290
Period size: 94 Copynumber: 1.9 Consensus size: 94
4372496 AAATACCTTT
* *
4372506 TCAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCATCCTTTTCTTC
1 TCAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGCCATCCTTCTCTTC
*
4372571 AAAGTCCATGACTCAGTGGCAATCTCTGC
66 AAAGTCCACGACTCAGTGGCAATCTCTGC
* *
4372600 TCAAAGTCCACGACTCAGTGGCATTCTCTTCTCAAAGTCCATGA-TGCAGTGCCATCCTTCTCTT
1 TCAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACT-CAGTGCCATCCTTCTCTT
*
4372664 TAAAGTCCACGACTCAGTGGCA
65 CAAAGTCCACGACTCAGTGGCA
4372686 TTTTTTCTTT
Statistics
Matches: 79, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
93 1 0.01
94 78 0.99
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.28
Consensus pattern (94 bp):
TCAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGCCATCCTTCTCTTC
AAAGTCCACGACTCAGTGGCAATCTCTGC
Found at i:4372739 original size:33 final size:34
Alignment explanation
Indices: 4372662--4373160 Score: 497
Period size: 33 Copynumber: 15.0 Consensus size: 34
4372652 CATCCTTCTC
* * * *
4372662 TTTAAAGTCCACGACTCAGTGGCA--TTTTTTC-
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCT
*
4372693 TTTAAAGCCCACAACTCCGTGGCACCTTGTTCCT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCT
* *
4372727 TTT-AAGTCCACAACTCTGTGGCA-C-----CCT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCT
* *
4372754 TTTAAAGCCCACAATTCCGTGGCA-CTTGTTTCAT
1 TTTAAAGCCCACAACTCCGTGGCACCTT-TTTCCT
* *
4372788 CTTT-AAGTCCACAACTCCGTGGCA-C-----CCG
1 -TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCT
*
4372816 TTT-AAGCCCACAACTCCGTGGCACCTTTTTCTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCT
4372849 TTTAAAGCCCACAACTCCGTGGCACCTTTTT-CT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCT
*
4372882 TTTAAAGCCCACAACTCTGTGGCACTCTTTTTTTCCT
1 TTTAAAGCCCACAACTCCGTGGCAC-C--TTTTTCCT
4372919 TTTCAAAGCCCACAACTCCGTGGCACCTTTTT-CT
1 TTT-AAAGCCCACAACTCCGTGGCACCTTTTTCCT
* **
4372953 TTTAAAGCCTACAACTTTGTGGCACTCTTTTTTCCT
1 TTTAAAGCCCACAACTCCGTGGCAC-C-TTTTTCCT
4372989 TTTCAAAGCCCACAACTCCGTGGCACCTTTTT-CT
1 TTT-AAAGCCCACAACTCCGTGGCACCTTTTTCCT
**
4373023 TTTAAAGCCCACAACTTTGTGGCACTCTTTTTCCCT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTT-CCT
**
4373059 TTTCAAAGCCCACAACTCTATGGCACCTTTTT-CT
1 TTT-AAAGCCCACAACTCCGTGGCACCTTTTTCCT
4373093 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTT-CCT
* * *
4373129 TTT-AAGTCCACAATTCCGTGGCATCTTTTTCC
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCC
4373161 CTTCCCAAAG
Statistics
Matches: 398, Mismatches: 36, Indels: 66
0.80 0.07 0.13
Matches are distributed among these distances:
27 28 0.07
28 20 0.05
31 21 0.05
32 1 0.00
33 113 0.28
34 86 0.22
35 36 0.09
36 27 0.07
37 45 0.11
38 21 0.05
ACGTcount: A:0.21, C:0.32, G:0.13, T:0.35
Consensus pattern (34 bp):
TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCT
Found at i:4372827 original size:27 final size:27
Alignment explanation
Indices: 4372789--4372840 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
4372779 TTGTTTCATC
*
4372789 TTTAAGTCCACAACTCCGTGGCACCCG
1 TTTAAGCCCACAACTCCGTGGCACCCG
4372816 TTTAAGCCCACAACTCCGTGGCACC
1 TTTAAGCCCACAACTCCGTGGCACC
4372841 TTTTTCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.23, C:0.38, G:0.17, T:0.21
Consensus pattern (27 bp):
TTTAAGCCCACAACTCCGTGGCACCCG
Found at i:4373023 original size:70 final size:70
Alignment explanation
Indices: 4372665--4373159 Score: 547
Period size: 70 Copynumber: 7.4 Consensus size: 70
4372655 CCTTCTCTTT
* * * * * *
4372665 AAAGTCCACGACTCAGTGGCA-TTTTTTC-TTTAAAGCCCACAACTCCGTGGCAC-C-TTGTTCC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTTCC
4372726 TTTT-
66 TTTTC
* * * * * *
4372730 -AAGTCCACAACTCTGTGGCACC-----CTTTTAAAGCCCACAATTCCGTGGCA--CTTGTTTCA
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTTCC
4372787 TCTTT-
66 T-TTTC
* * *
4372792 -AAGTCCACAACTCCGTGGCACC-----CGTTT-AAGCCCACAACTCCGTGGCAC-C-TTTTT-C
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTTCC
*
4372847 TTTTT
66 TTTTC
4372852 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTTTC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACTC-TTTTTTC
4372917 CTTTTC
65 CTTTTC
* *
4372923 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCTACAACTTTGTGGCACTCTTTTTTCC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTTCC
4372988 TTTTC
66 TTTTC
* *
4372993 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTTTGTGGCACTCTTTTTCCC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTTCC
4373058 TTTTC
66 TTTTC
** * *
4373063 AAAGCCCACAACTCTATGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTTCC
4373128 TTTT-
66 TTTTC
* * *
4373132 -AAGTCCACAATTCCGTGGCATCTTTTTC
1 AAAGCCCACAACTCCGTGGCACCTTTTTC
4373160 CCTTCCCAAA
Statistics
Matches: 384, Mismatches: 29, Indels: 31
0.86 0.07 0.07
Matches are distributed among these distances:
59 3 0.01
60 3 0.01
61 72 0.19
62 29 0.08
64 18 0.05
66 4 0.01
67 20 0.05
68 24 0.06
70 151 0.39
71 60 0.16
ACGTcount: A:0.21, C:0.32, G:0.13, T:0.35
Consensus pattern (70 bp):
AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTTCC
TTTTC
Found at i:4373197 original size:32 final size:32
Alignment explanation
Indices: 4373159--4373357 Score: 317
Period size: 32 Copynumber: 6.2 Consensus size: 32
4373149 GCATCTTTTT
4373159 CCCTTCCCAAAGCCCACACAAGTCGGTGGCAA
1 CCCTTCCCAAAGCCCACACAAGTCGGTGGCAA
* *
4373191 CTCTTCCTAAAGCCCACACAAGTCGGTGGCAA
1 CCCTTCCCAAAGCCCACACAAGTCGGTGGCAA
* *
4373223 CCCTTCCTAAAGCTCACACAAGTCGGTGGCAA
1 CCCTTCCCAAAGCCCACACAAGTCGGTGGCAA
*
4373255 CCCTTCTCAAAGCCCACACAAGTCGGTGGCAA
1 CCCTTCCCAAAGCCCACACAAGTCGGTGGCAA
*
4373287 CCCTTCTCAAAGCCCACACAAGTCGGTGGCAA
1 CCCTTCCCAAAGCCCACACAAGTCGGTGGCAA
* *
4373319 CCATTCTCTAAAGCCCACACAAGTCGGTGGCAA
1 CCCTTC-CCAAAGCCCACACAAGTCGGTGGCAA
4373352 CCCTTC
1 CCCTTC
4373358 TAACCCCAAT
Statistics
Matches: 155, Mismatches: 11, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
32 126 0.81
33 29 0.19
ACGTcount: A:0.28, C:0.37, G:0.18, T:0.17
Consensus pattern (32 bp):
CCCTTCCCAAAGCCCACACAAGTCGGTGGCAA
Found at i:4373205 original size:103 final size:102
Alignment explanation
Indices: 4372819--4373208 Score: 268
Period size: 105 Copynumber: 3.8 Consensus size: 102
4372809 GCACCCGTTT
* *** * *
4372819 AAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTTTAAAGCCCACAACTCCG-TGGCACCTTTTT
1 AAGCCCACAACTTCGTGGCACTCTTTTTCCCTTCCCAAAGCCCACAACT-CGATGGCAACTTCTT
* *
4372880 CTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTTTCCTTTTCA
65 C-TCTAAAGCCCACAACTCCGTGGCAC-C--TTTTT-CTTTT-A
* ** * * * *
4372924 AAGCCCACAACTCCGTGGCAC-CTTTTT--CTT-TTAAAGCCTACAACTTTG-TGGCACTCTTTT
1 AAGCCCACAACTTCGTGGCACTCTTTTTCCCTTCCCAAAGCCCACAAC-TCGATGGCA-AC-TTC
*
4372984 TTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTA
63 TT-C-TCT-AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTA
* ** * * *
4373027 AAGCCCACAACTTTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCTATGGCACCTTTTTC
1 AAGCCCACAACTTCGTGGCACTCTTTTTCCCTTCCCAAAGCCCACAACTCGATGGCAACTTCTTC
*
4373092 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT-
66 -TCTAAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTTA
* * *
4373132 AAGTCCACAA-TTCCGTGGCA-TCTTTTTCCCTTCCCAAAGCCCACACAAGTCGGTGGCAAC-TC
1 AAGCCCACAACTT-CGTGGCACTCTTTTTCCCTTCCCAAAG-CC-CACAACTCGATGGCAACTTC
4373194 TTC-CTAAAGCCCACA
63 TTCTCTAAAGCCCACA
4373209 CAAGTCGGTG
Statistics
Matches: 248, Mismatches: 21, Indels: 34
0.82 0.07 0.11
Matches are distributed among these distances:
103 53 0.21
104 60 0.24
105 63 0.25
106 28 0.11
107 23 0.09
108 21 0.08
ACGTcount: A:0.21, C:0.33, G:0.12, T:0.34
Consensus pattern (102 bp):
AAGCCCACAACTTCGTGGCACTCTTTTTCCCTTCCCAAAGCCCACAACTCGATGGCAACTTCTTC
TCTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTA
Found at i:4373416 original size:49 final size:47
Alignment explanation
Indices: 4373363--4374416 Score: 1280
Period size: 43 Copynumber: 22.7 Consensus size: 47
4373353 CCTTCTAACC
*
4373363 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGT
1 CCAATATAGCTGGCCTTGAATCAGCACATTGGCACC-TCA-CTTTAAGT
*
4373412 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCA---C-CTTTAAGT
1 CCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTCACTTTAAGT
* *
4373455 CCAATATCGCTGGCCTTGAATCAGCATATTGGCA---C-CTTTAAGT
1 CCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTCACTTTAAGT
*
4373498 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCA---C-CTTTAAGT
1 CCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTCACTTTAAGT
* * *
4373541 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATTTTTAAGT
1 CCAATATAGCTGGCCTTGAATCAGCACATTGGCACC-TCA-CTTTAAGT
* *
4373590 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTATGT
1 CCAATATAGCTGGCCTTGAATCAGCACATTGGCACC-TCA-CTTTAAGT
* *
4373639 CCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGT
1 CCAATATAGCTGGCCTTGAATCAGCACATTGGCACC-TCA-CTTTAAGT
*
4373688 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGT
1 CCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTCA-CTTTAAGT
* *
4373736 CCAATATCGCTGGCCTTGAATCAGCATATTGGCA---C-CTTTAAGT
1 CCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTCACTTTAAGT
*
4373779 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCA---C-CTTTAAGT
1 CCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTCACTTTAAGT
* *
4373822 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGT
1 CCAATATAGCTGGCCTTGAATCAGCACATTGGCACC-TCA-CTTTAAGT
*
4373871 CCAATATAGCTAGCCTTGAATCAGCACATTGGCA---C-CTTTAAGT
1 CCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTCACTTTAAGT
* *
4373914 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGT
1 CCAATATAGCTGGCCTTGAATCAGCACATTGGCACC-TCA-CTTTAAGT
* * * *
4373963 CCAATATAGTTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTACGT
1 CCAATATAGCTGGCCTTGAATCAGCACATTGGCACC-TCA-CTTTAAGT
* *
4374012 CCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGT
1 CCAATATAGCTGGCCTTGAATCAGCACATTGGCACC-TCA-CTTTAAGT
*
4374061 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGT
1 CCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTCA-CTTTAAGT
*
4374109 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCA---C-CTTTAAGT
1 CCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTCACTTTAAGT
* *
4374152 CCAATATAGCTGGCCTTCACTCAGCACATTGGCACCTCACCTTTAAGT
1 CCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTCA-CTTTAAGT
* *
4374200 CTAATGTAGCTGGCCTTGAATCAGCACATTGGCA---C-CTTTAAGT
1 CCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTCACTTTAAGT
*
4374243 CCAATATAGCTGGCCTTGACTCAGCACATTGGCACCTCACCTTTAAGT
1 CCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTCA-CTTTAAGT
*
4374291 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCA---C-CTTTAAGT
1 CCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTCACTTTAAGT
* *
4374334 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGT
1 CCAATATAGCTGGCCTTGAATCAGCACATTGGCAC---CT-CA-CTTTAAGT
* *
4374386 TCAATGTAGCTGGCCTTGAATCAGCACATTG
1 CCAATATAGCTGGCCTTGAATCAGCACATTG
4374417 ACATCCTTTT
Statistics
Matches: 903, Mismatches: 65, Indels: 71
0.87 0.06 0.07
Matches are distributed among these distances:
43 355 0.39
45 6 0.01
46 2 0.00
47 3 0.00
48 165 0.18
49 335 0.37
50 1 0.00
52 36 0.04
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.30
Consensus pattern (47 bp):
CCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTCACTTTAAGT
Found at i:4374048 original size:373 final size:367
Alignment explanation
Indices: 4373363--4374416 Score: 1625
Period size: 373 Copynumber: 2.8 Consensus size: 367
4373353 CCTTCTAACC
4373363 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCT
1 CCAATATAGCTGGCCTTGAATCAGCATATTGGCA----C--CTTTAAGTCCAATGTAGCTGGCCT
4373428 TGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
60 TGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
*
4373493 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTT
125 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTT
*
4373558 GAATCAGCATATTGGCACCTTCATTTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGC
190 GAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGC
* *
4373623 ACCTTCATCTTTATGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGT
255 ACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGT
4373688 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGT
320 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGT
*
4373736 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTAGCTGGCCTTGAATC
1 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTAGCTGGCCTTGAATC
4373801 AGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
66 AGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA----C--CTT
*
4373866 TAAGTCCAATATAGCTAGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTT
125 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTT
*
4373931 GAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATATAGTTGGCCTTGAATCAGCATATTGGC
190 GAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGC
*
4373996 ACCTTTATCTTTACGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGT
255 ACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGT
4374061 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGT
320 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGT
* * * * *
4374109 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTCACTC
1 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTAGCTGGCCTTGAATC
* * * *
4374174 AGCACATTGGCACCTCACCTTTAAGTCTAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTT
66 AGCACATTGG-----CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTT
* * *
4374239 AAGTCCAATATAGCTGGCCTTGACTCAGCACATTGGCACCTCACCTTTAAGTCCAATGTAGCTGG
126 AAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG-----CACCTTTAAGTCCAATATCGCTGG
*
4374304 CCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
186 CCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
* * *
4374363 TGGCACATTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
251 TGGCAC-CTTT--ATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTG
4374417 ACATCCTTTT
Statistics
Matches: 635, Mismatches: 27, Indels: 37
0.91 0.04 0.05
Matches are distributed among these distances:
367 85 0.13
369 1 0.00
371 43 0.07
372 41 0.06
373 343 0.54
374 39 0.06
377 42 0.07
378 41 0.06
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.30
Consensus pattern (367 bp):
CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTAGCTGGCCTTGAATC
AGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTC
CAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCA
GCATATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT
ATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
TAGCTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGT
Found at i:4374537 original size:67 final size:68
Alignment explanation
Indices: 4374429--4374555 Score: 175
Period size: 67 Copynumber: 1.9 Consensus size: 68
4374419 ATCCTTTTTC
* * *
4374429 TCATCATTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCA-CTTTTCTCA
1 TCATCATTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
4374493 TCT
66 TCT
* * * * *
4374496 TCATCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCATCTTT
1 TCATCATTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTT
4374556 AAAACCCAAT
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
67 47 0.92
68 4 0.08
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.38
Consensus pattern (68 bp):
TCATCATTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
TCT
Found at i:4379882 original size:22 final size:21
Alignment explanation
Indices: 4379833--4379884 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
4379823 GTCATGCAAG
* *
4379833 TTTTTATTTTTCTTAGCTAAT
1 TTTTTATTTTTATTAGCAAAT
**
4379854 TCATTATTTTTATTAGCCAAAT
1 TTTTTATTTTTATTAG-CAAAT
4379876 TTTTTATTT
1 TTTTTATTT
4379885 CAACTTGCAA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.23, C:0.10, G:0.04, T:0.63
Consensus pattern (21 bp):
TTTTTATTTTTATTAGCAAAT
Found at i:4382129 original size:19 final size:20
Alignment explanation
Indices: 4382086--4382136 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
4382076 TACAGGCTAA
**
4382086 TGTATCGATACATTTTTTGG
1 TGTATCGATACATACTTTGG
4382106 TGTATCGATACATACTTT-G
1 TGTATCGATACATACTTTGG
4382125 TGTATCGATACA
1 TGTATCGATACA
4382137 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.43
Consensus pattern (20 bp):
TGTATCGATACATACTTTGG
Found at i:4382549 original size:11 final size:11
Alignment explanation
Indices: 4382529--4382561 Score: 57
Period size: 12 Copynumber: 2.9 Consensus size: 11
4382519 TAATAAAGTG
4382529 AGAAGAAAAAA
1 AGAAGAAAAAA
4382540 AGAAAGAAAAAA
1 AG-AAGAAAAAA
4382552 AGAAGAAAAA
1 AGAAGAAAAA
4382562 TAGTGAAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (11 bp):
AGAAGAAAAAA
Found at i:4386205 original size:79 final size:78
Alignment explanation
Indices: 4386101--4386393 Score: 290
Period size: 79 Copynumber: 3.7 Consensus size: 78
4386091 AAATTTAATA
* * * * * *
4386101 TTTTGGAGATAAAGAT-AGGGTTGGAGTATCCTTTCAAAAATAATGAGGCTAGAGTATCCCCAAT
1 TTTTGGAAATAAA-ATCGGGGTTGGAGTATCCCTT-AAAAATAATGAGGTTGGAGTATCCCCGAT
*
4386165 TCTGGAAAATCGGTG
64 TATGGAAAATCGGTG
*
4386180 TTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTTAGAAATAAT-AGGGTTGGAGTA-CCCCGAT
1 TTTTGGAAATAAAATCGGGGTTGGAGTAT-CCCTTAAAAATAATGA-GGTTGGAGTATCCCCGAT
* *
4386243 TATGGAAAATTGGTA
64 TATGGAAAATCGGTG
* * * * *
4386258 TTTTAGAAATAAAATCGGGGTTAGAGTATCCCCTAGAAAATAACGGGGTTGGAGTATCCCCGATT
1 TTTTGGAAATAAAATCGGGGTTGGAGTATCCCTTA-AAAATAATGAGGTTGGAGTATCCCCGATT
* * *
4386323 GT-GAAAAACTGATG
65 ATGGAAAATC-GGTG
** *
4386337 TTTTGGAAATAAAA-CTGGGGTTGGAGTATTCCCTCGAAAATAACGAGGTTGGAGTAT
1 TTTTGGAAATAAAATC-GGGGTTGGAGTA-TCCCTTAAAAATAATGAGGTTGGAGTAT
4386394 TCCCTCGAAA
Statistics
Matches: 178, Mismatches: 27, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
77 5 0.03
78 70 0.39
79 95 0.53
80 8 0.04
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (78 bp):
TTTTGGAAATAAAATCGGGGTTGGAGTATCCCTTAAAAATAATGAGGTTGGAGTATCCCCGATTA
TGGAAAATCGGTG
Found at i:4386285 original size:78 final size:80
Alignment explanation
Indices: 4386152--4386393 Score: 298
Period size: 79 Copynumber: 3.1 Consensus size: 80
4386142 AATGAGGCTA
* * *
4386152 GAGTATCCCCAATTCTGGAAAATCGGTGTTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTTAG
1 GAGTATCCCCGATTATGGAAAATTGGTGTTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTTAG
*
4386217 -AAATAATAGGGTTG
66 AAAATAACAGGGTTG
* * *
4386231 GAGTA-CCCCGATTATGGAAAATTGGTATTTTAGAAATAAAATCGGGGTTAGAGTATCCCC-TAG
1 GAGTATCCCCGATTATGGAAAATTGGTGTTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTTAG
*
4386294 AAAATAACGGGGTTG
66 AAAATAACAGGGTTG
* * * * * *
4386309 GAGTATCCCCGATTGTGAAAAACTGATGTTTTGGAAATAAAA-CTGGGGTTGGAGTATTCCC-TC
1 GAGTATCCCCGATTATGGAAAATTGGTGTTTTGGAAATAAAATC-GGGGTTGGAGTATCCCCTTA
4386372 GAAAATAAC-GAGGTTG
65 GAAAATAACAG-GGTTG
4386388 GAGTAT
1 GAGTAT
4386394 TCCCTCGAAA
Statistics
Matches: 142, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
77 3 0.02
78 68 0.48
79 71 0.50
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.28
Consensus pattern (80 bp):
GAGTATCCCCGATTATGGAAAATTGGTGTTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTTAG
AAAATAACAGGGTTG
Found at i:4386295 original size:30 final size:28
Alignment explanation
Indices: 4386261--4386318 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
4386251 ATTGGTATTT
4386261 TAGAAATAAAATCGGGGTTAGAGTATCCCC
1 TAGAAA-AAAA-CGGGGTTAGAGTATCCCC
* *
4386291 TAGAAAATAACGGGGTTGGAGTATCCCC
1 TAGAAAAAAACGGGGTTAGAGTATCCCC
4386319 GATTGTGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 17 0.65
29 3 0.12
30 6 0.23
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.22
Consensus pattern (28 bp):
TAGAAAAAAACGGGGTTAGAGTATCCCC
Found at i:4386388 original size:28 final size:28
Alignment explanation
Indices: 4386355--4386421 Score: 134
Period size: 28 Copynumber: 2.4 Consensus size: 28
4386345 ATAAAACTGG
4386355 GGTTGGAGTATTCCCTCGAAAATAACGA
1 GGTTGGAGTATTCCCTCGAAAATAACGA
4386383 GGTTGGAGTATTCCCTCGAAAATAACGA
1 GGTTGGAGTATTCCCTCGAAAATAACGA
4386411 GGTTGGAGTAT
1 GGTTGGAGTAT
4386422 CCCCGATTGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (28 bp):
GGTTGGAGTATTCCCTCGAAAATAACGA
Found at i:4386406 original size:107 final size:107
Alignment explanation
Indices: 4386276--4386504 Score: 352
Period size: 107 Copynumber: 2.1 Consensus size: 107
4386266 ATAAAATCGG
* * *
4386276 GGTTAGAGTATCCCCTAGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAACTGATGTTTT
1 GGTTGGAGTATCCCCTAGAAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAACTGATATTTT
*
4386341 GGAAATAAAACTGGGGTTGGAGTATTCCCTC-GAAAATAACGA
66 GGAAATAAAACTGGGGTTGGAGTATCCCCTCAG-AAATAACGA
* * * *
4386383 GGTTGGAGTATTCCCTCGAAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTT
1 GGTTGGAGTATCCCCTAGAAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAACTGATATTTT
* *
4386448 GGAAATAAAACTGGGGTTGGAGTATCCCCTCAGAAATAATGG
66 GGAAATAAAACTGGGGTTGGAGTATCCCCTCAGAAATAACGA
4386490 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
4386505 GATTGTAAAA
Statistics
Matches: 110, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
107 109 0.99
108 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (107 bp):
GGTTGGAGTATCCCCTAGAAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAACTGATATTTT
GGAAATAAAACTGGGGTTGGAGTATCCCCTCAGAAATAACGA
Found at i:4386445 original size:79 final size:75
Alignment explanation
Indices: 4386370--4386581 Score: 244
Period size: 79 Copynumber: 2.7 Consensus size: 75
4386360 GAGTATTCCC
* *
4386370 TCGAAAATAACGAGGTTGGAGTATTCCCTCGAAAATAACGAGGTTGGAGTATCCCCGATTGTGAA
1 TCGAAAATAACGAGGTTGGAGTATCCCCTC-AAAATAACGAGGTTGGAGTATCCCCGATTGTAAA
4386435 AAATTGGTATTT
65 AAATTGGTA-TT
* * * * *
4386447 TGGAAATAAAACTGGGGTTGGAGTATCCCCTCAGAAATAATGGGGTTGGAGTATCCCCGATTGTA
1 TCGAAA-ATAAC-GAGGTTGGAGTATCCCCTCA-AAATAACGAGGTTGGAGTATCCCCGATTGTA
*
4386512 AAAAATTGGTGTT
63 AAAAATTGGTATT
* * *
4386525 TTGAAAATAAAACCGAGTTTAGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCC
1 TCGAAAAT--AA-CGAGGTTGGAGTATCCCCTC-AAAATAACGAGGTTGGAGTATCC
4386582 TCTCAGAAAT
Statistics
Matches: 113, Mismatches: 15, Indels: 12
0.81 0.11 0.09
Matches are distributed among these distances:
77 6 0.05
78 12 0.11
79 93 0.82
80 2 0.02
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (75 bp):
TCGAAAATAACGAGGTTGGAGTATCCCCTCAAAATAACGAGGTTGGAGTATCCCCGATTGTAAAA
AATTGGTATT
Found at i:4386467 original size:51 final size:51
Alignment explanation
Indices: 4386302--4386476 Score: 149
Period size: 51 Copynumber: 3.3 Consensus size: 51
4386292 AGAAAATAAC
* * *
4386302 GGGGTTGGAGTATCCCCGATTGTGAAAAACTGATGTTTTGGAAATAAAACT
1 GGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTGGAAATAAAACT
*** ** * * *
4386353 GGGGTTGGAGTATTCCCTCGAAAAT-AACGAGGTTGGAGTATTCCCTCGAAA-ATAAC-
1 GGGGTTGGAGTA-TCCC-CGATTGTGAA--AAATT-G-GTATT--TTGGAAATAAAACT
*
4386409 GAGGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTGGAAATAAAACT
1 GGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTGGAAATAAAACT
4386460 GGGGTTGGAGTATCCCC
1 GGGGTTGGAGTATCCCC
4386477 TCAGAAATAA
Statistics
Matches: 92, Mismatches: 21, Indels: 22
0.68 0.16 0.16
Matches are distributed among these distances:
49 5 0.05
50 4 0.04
51 33 0.36
52 7 0.08
53 7 0.08
54 6 0.07
55 7 0.08
56 14 0.15
57 4 0.04
58 5 0.05
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (51 bp):
GGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTGGAAATAAAACT
Found at i:4386473 original size:186 final size:185
Alignment explanation
Indices: 4386198--4386767 Score: 699
Period size: 186 Copynumber: 3.1 Consensus size: 185
4386188 ATAAAATCGG
* * * *
4386198 GGTTGGAGTA-TCCCCTTAGAAATAA-TAGGGTTGGAGTA-CCCCGATTATGGAAAATTGGTATT
1 GGTTGGAGTATTCCTCTCAGAAATAACGA-GGTTGGAGTATCCCCGATTATGAAAAATTGGTATT
*
4386260 TTAGAAATAAAA-TCGGGGTTAGAGTATCCCCTAGAAAATAACGGGGTTGGAGTATCCCCGATTG
65 TTGGAAATAAAACT-GGGGTTAGAGTATCCCCTAGAAAATAA-GGGGTTGGAGTATCCCCGATTG
* * *
4386324 TGAAAAACTGATGTTTTGGAAATAAAACTGGGGTTGGAGTATTCCCTCGAAAATAACGA
128 TGAAAAAATGGTGTTTTGGAAATAAAACTGGGGTTGGAGTATCCCCTC-AAAATAACGA
*
4386383 GGTTGGAGTATTCC-CTC-GAAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAATTGGTATT
1 GGTTGGAGTATTCCTCTCAG-AAATAACGAGGTTGGAGTATCCCCGATTATGAAAAATTGGTATT
*
4386446 TTGGAAATAAAACTGGGGTTGGAGTATCCCCTCAG-AAATAATGGGGTTGGAGTATCCCCGATTG
65 TTGGAAATAAAACTGGGGTTAGAGTATCCCCT-AGAAAATAA-GGGGTTGGAGTATCCCCGATTG
* * * * *
4386510 T-AAAAAATTGGTGTTTTGAAAATAAAACCGAGTTTAGAGTATCCCCTCAAAAATAACGA
128 TGAAAAAA-TGGTGTTTTGGAAATAAAACTGGGGTTGGAGTATCCCCTC-AAAATAACGA
** * * * *
4386569 GGTTGGAGTA-TCCTCTCAGAAATAACGAAATTAGAGTATCCCCGATTTTGAAAAAATTGATGTT
1 GGTTGGAGTATTCCTCTCAGAAATAACGAGGTTGGAGTATCCCCGATTATG-AAAAATTGGTATT
* * * *
4386633 TTGGAAATAAAACCGGGGTTAGAGTATCCCCTTGAAAATAATGGGTTAGAGTATCCCCGATTGTG
65 TTGGAAATAAAACTGGGGTTAGAGTATCCCCTAGAAAATAAGGGGTTGGAGTATCCCCGATTGTG
* * * *
4386698 AAAAAAATGGTATTTTGGAAATAAAACTAGTGTTGGAGATATCCCCTCAGAAATAACGG
130 -AAAAAATGGTGTTTTGGAAATAAAACTGGGGTTGGAG-TATCCCCTCA-AAATAACGA
4386757 GGTTGGAGTAT
1 GGTTGGAGTAT
4386768 CCCCGATTGT
Statistics
Matches: 333, Mismatches: 36, Indels: 28
0.84 0.09 0.07
Matches are distributed among these distances:
184 1 0.00
185 36 0.11
186 188 0.56
187 75 0.23
188 33 0.10
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.28
Consensus pattern (185 bp):
GGTTGGAGTATTCCTCTCAGAAATAACGAGGTTGGAGTATCCCCGATTATGAAAAATTGGTATTT
TGGAAATAAAACTGGGGTTAGAGTATCCCCTAGAAAATAAGGGGTTGGAGTATCCCCGATTGTGA
AAAAATGGTGTTTTGGAAATAAAACTGGGGTTGGAGTATCCCCTCAAAATAACGA
Found at i:4386573 original size:107 final size:107
Alignment explanation
Indices: 4386461--4386690 Score: 309
Period size: 107 Copynumber: 2.1 Consensus size: 107
4386451 AATAAAACTG
* *** * *
4386461 GGGTTGGAGTATCCCCTCAGAAATAATGGGGTTGGAGTATCCCCGATTGT-AAAAAATTGGTGTT
1 GGGTTGGAGTATCCCCTCAGAAATAACGAAATTAGAGTATCCCCGATTGTGAAAAAATTGATGTT
*
4386525 TTGAAAATAAAACCGAGTTTAGAGTATCCCCTCAAAAATAAC
66 TTGAAAATAAAACCGAGGTTAGAGTATCCCCTCAAAAATAAC
* *
4386567 GAGGTTGGAGTATCCTCTCAGAAATAACGAAATTAGAGTATCCCCGATTTTGAAAAAATTGATGT
1 G-GGTTGGAGTATCCCCTCAGAAATAACGAAATTAGAGTATCCCCGATTGTGAAAAAATTGATGT
* * ** *
4386632 TTTGGAAATAAAACCGGGGTTAGAGTATCCCCTTGAAAATAAT
65 TTTGAAAATAAAACCGAGGTTAGAGTATCCCCTCAAAAATAAC
*
4386675 GGGTTAGAGTATCCCC
1 GGGTTGGAGTATCCCC
4386691 GATTGTGAAA
Statistics
Matches: 106, Mismatches: 16, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
106 1 0.01
107 55 0.52
108 50 0.47
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.28
Consensus pattern (107 bp):
GGGTTGGAGTATCCCCTCAGAAATAACGAAATTAGAGTATCCCCGATTGTGAAAAAATTGATGTT
TTGAAAATAAAACCGAGGTTAGAGTATCCCCTCAAAAATAAC
Found at i:4386577 original size:28 final size:28
Alignment explanation
Indices: 4386543--4386611 Score: 93
Period size: 28 Copynumber: 2.5 Consensus size: 28
4386533 AAAACCGAGT
**
4386543 TTAGAGTATCCCCTCAAAAATAACGAGG
1 TTAGAGTATCCCCTCAAAAATAACGAAA
* * *
4386571 TTGGAGTATCCTCTCAGAAATAACGAAA
1 TTAGAGTATCCCCTCAAAAATAACGAAA
4386599 TTAGAGTATCCCC
1 TTAGAGTATCCCC
4386612 GATTTTGAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.25
Consensus pattern (28 bp):
TTAGAGTATCCCCTCAAAAATAACGAAA
Found at i:4386783 original size:159 final size:157
Alignment explanation
Indices: 4386569--4386953 Score: 421
Period size: 159 Copynumber: 2.5 Consensus size: 157
4386559 AAAATAACGA
* *** * *
4386569 GGTTGGAGTATCCTCTCAGAAATAACGAAATTAGAGTATCCCCGATTTTGAAAAAATTGATGTTT
1 GGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTG-AAAAATTGATGTTT
* * * * *
4386634 TGGAAATAAAACCGGGGTT-AGAGTATCCCCTTGAAAATAATG-GGTTAGAGTATCCCCGATTGT
65 TGGAAATAAAACCGAGGTTGA-AGTATACCCTCG-AAATAACGAGGTTAGAGTATCCCCGATTAT
*
4386697 GAAAAAAATGGTATTTTGGAAATAAAA-CTAG
128 G-AAAAAATAGTATTTTGGAAATAAAATC-AG
*
4386728 TGTTGGAGATATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATT-AGTGTT
1 GGTTGGAG-TATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGA-TGTT
* * *
4386792 TTGAAAATAAAATCGAGGTTGAAGTATACCCTCGAAATAACGAGGTTGGAGTATCCCCGATTATG
64 TTGGAAATAAAACCGAGGTTGAAGTATACCCTCGAAATAACGAGGTTAGAGTATCCCCGATTATG
* *
4386857 AAAAATTAGTATTTTGGAAATAAAATCGG
129 AAAAAATAGTATTTTGGAAATAAAATCAG
* * * * *
4386886 GGTTGGAGTTTCCCCT------TAACAGGGTTGGAGTATCCCCGATTGTGGAAAATCGGTGTTTT
1 GGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTT
*
4386945 AGAAATAAA
66 GGAAATAAA
4386954 GACATGAATG
Statistics
Matches: 194, Mismatches: 26, Indels: 20
0.81 0.11 0.08
Matches are distributed among these distances:
151 45 0.23
157 7 0.04
158 39 0.20
159 66 0.34
160 37 0.19
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (157 bp):
GGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTT
GGAAATAAAACCGAGGTTGAAGTATACCCTCGAAATAACGAGGTTAGAGTATCCCCGATTATGAA
AAAATAGTATTTTGGAAATAAAATCAG
Found at i:4386847 original size:78 final size:78
Alignment explanation
Indices: 4386566--4386953 Score: 389
Period size: 78 Copynumber: 5.0 Consensus size: 78
4386556 TCAAAAATAA
* ** * *
4386566 CGAGGTTGGAGTATCCTCTCAGAAATAACGAAATTAGAGTATCCCCGATTTTGAAAAAATT-GAT
1 CGAGGTTGGAGTATCCCCTC-GAAATAACGAGGTTGGAGTATCCCCGATTGTG-AAAAATTAG-T
*
4386630 GTTTTGGAAATAAAAC
63 GTTTTGGAAATAAAAT
* * * * * * * *
4386646 CGGGGTTAGAGTATCCCCTTGAAAATAATG-GGTTAGAGTATCCCCGATTGTGAAAAAAATGGTA
1 CGAGGTTGGAGTATCCCCTCG-AAATAACGAGGTTGGAGTATCCCCGATTGTG-AAAAATTAGTG
4386710 TTTTGGAAATAAAA-
64 TTTTGGAAATAAAAT
* *
4386724 CTAGTGTTGGAGATATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGT
1 CGAG-GTTGGAG-TATCCCCTC-GAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAATTAGT
*
4386789 GTTTTGAAAATAAAAT
63 GTTTTGGAAATAAAAT
* * * *
4386805 CGAGGTTGAAGTATACCCTCGAAATAACGAGGTTGGAGTATCCCCGATTATGAAAAATTAGTATT
1 CGAGGTTGGAGTATCCCCTCGAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTT
4386870 TTGGAAATAAAAT
66 TTGGAAATAAAAT
* * * **
4386883 CGGGGTTGGAGTTTCCCCT-----TAAC-AGGGTTGGAGTATCCCCGATTGTGGAAAATCGGTGT
1 CGAGGTTGGAGTATCCCCTCGAAATAACGA-GGTTGGAGTATCCCCGATTGTGAAAAATTAGTGT
*
4386942 TTTAGAAATAAA
65 TTTGGAAATAAA
4386954 GACATGAATG
Statistics
Matches: 263, Mismatches: 37, Indels: 23
0.81 0.11 0.07
Matches are distributed among these distances:
72 1 0.00
73 44 0.17
78 71 0.27
79 56 0.21
80 66 0.25
81 25 0.10
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (78 bp):
CGAGGTTGGAGTATCCCCTCGAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTT
TTGGAAATAAAAT
Found at i:4390137 original size:75 final size:74
Alignment explanation
Indices: 4389958--4390139 Score: 186
Period size: 75 Copynumber: 2.4 Consensus size: 74
4389948 AAAGGAAGGG
* * * * * * * **
4389958 GCATCTTGCTCTTTGAGGACAAATGAAAAGGAGCACATCTTGCTCTTCGAGGATAAAGGAAATGA
1 GCATCTTGCTCTTTGAGGACAAAGGAAAAAGAGCACATCCTACTCTACGAAGAGAAAGGAAAAAA
*
4390023 GAACGAAAT
66 GAAAGAAAT
** * * *
4390032 GGGTCCTGCTCCTTGAGGACAAAGGAAAAAAGAGTACATCCTACTCTACGAAGAGAAAGGAAAAA
1 GCATCTTGCTCTTTGAGGACAAAGG-AAAAAGAGCACATCCTACTCTACGAAGAGAAAGGAAAAA
*
4390097 AGGAAATAATAT
65 A-GAAAGAA-AT
4390109 GCATCTTGCTCTTTGAGGACAAA-GAAAAAGA
1 GCATCTTGCTCTTTGAGGACAAAGGAAAAAGA
4390140 AGGAAATTAA
Statistics
Matches: 85, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
74 20 0.24
75 38 0.45
76 6 0.07
77 21 0.25
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.20
Consensus pattern (74 bp):
GCATCTTGCTCTTTGAGGACAAAGGAAAAAGAGCACATCCTACTCTACGAAGAGAAAGGAAAAAA
GAAAGAAAT
Found at i:4390242 original size:59 final size:59
Alignment explanation
Indices: 4390153--4390776 Score: 691
Period size: 59 Copynumber: 10.5 Consensus size: 59
4390143 AAATTAAAGC
* *
4390153 GCGTCCTACTCTTTGGGGACT-AGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAA
1 GCGTCCTACTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAA
* ** *
4390212 GCGTCCTGCTCTTTGAGGACCAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAA
1 GCGTCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAA
* * * * * *
4390271 GCATCTTGCTCTTTGAAGACTGGAAGGTGCTACCAACTTGTGTGGGCTTTGAAAGGAAA
1 GCGTCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAA
* * * * * *
4390330 GCATCCTACTTTTTGAGGACTGGAAGGTGCTACCAACTTGTGTAGGCTTTGTAAGGAAA
1 GCGTCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAA
** * * *
4390389 AAGTCCTACTCTTTGAAGACTGAGAGGTGCGACCAACTTGTGTGGGCTTTGAAAGGAAA
1 GCGTCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAA
* *
4390448 ACGTCCTACTCTTTGAGGACTGGAAGGTGCCACCAACTTATGTGTGGGCTTTGAAAGGAAA
1 GCGTCCTACTCTTTGAGGACTGAAAGGTGCCACCAAC-T-TGTGTGGGCTTTGAAAGGAAA
* * * * * *
4390509 ACGTCCTGCTCTTTGAGGATTGGAAGGTGCCACCAACTTGTATAGGCTTTGAAAGGAAAA
1 GCGTCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG-AAA
* * * * * * * * *
4390569 GGCATCCTGCTTTTTAAGCACT-AACAAGTGCCACAAACTTGTGT-GGCTTTAAAAAGAAAA
1 -GCGTCCTACTCTTTGAGGACTGAA-AGGTGCCACCAACTTGTGTGGGCTTT-GAAAGGAAA
* * * *
4390629 GGTGTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAGAA
1 -GCGTCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGA-AA
*
4390690 G-G-CACTACTCTTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTGAAAGGAAA
1 GCGTC-CTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAA
*
4390748 GGGCATCCTACTCTTTGAGGACTGAAAGG
1 --GCGTCCTACTCTTTGAGGACTGAAAGG
4390777 ATAAAAGCTT
Statistics
Matches: 487, Mismatches: 63, Indels: 28
0.84 0.11 0.05
Matches are distributed among these distances:
58 3 0.01
59 302 0.62
60 58 0.12
61 123 0.25
62 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (59 bp):
GCGTCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAA
Found at i:4391744 original size:16 final size:16
Alignment explanation
Indices: 4391723--4391758 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
4391713 GGTTCTTTTC
4391723 TTTTCTCTTTTCTCTT
1 TTTTCTCTTTTCTCTT
*
4391739 TTTTCTTTTTTCTCTT
1 TTTTCTCTTTTCTCTT
4391755 TTTT
1 TTTT
4391759 GTTGTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTCTCTTTTCTCTT
Found at i:4391748 original size:7 final size:7
Alignment explanation
Indices: 4391718--4391778 Score: 54
Period size: 7 Copynumber: 8.6 Consensus size: 7
4391708 AAGTAGGTTC
4391718 TTTTCTT
1 TTTTCTT
*
4391725 TTCTCTT
1 TTTTCTT
*
4391732 TTCTCTT
1 TTTTCTT
4391739 TTTTCTT
1 TTTTCTT
4391746 TTTTCTCT
1 TTTTCT-T
4391754 TTTT-TGT
1 TTTTCT-T
4391761 TGTTT-TT
1 T-TTTCTT
*
4391768 TTTTGTT
1 TTTTCTT
4391775 TTTT
1 TTTT
4391779 GTTGTTTTGT
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
6 3 0.06
7 36 0.75
8 9 0.19
ACGTcount: A:0.00, C:0.13, G:0.05, T:0.82
Consensus pattern (7 bp):
TTTTCTT
Found at i:4391768 original size:28 final size:28
Alignment explanation
Indices: 4391737--4391815 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 28
4391727 CTCTTTTCTC
* *
4391737 TTTTTTCTTTTTTCTCTTTTTTGTTGTTT
1 TTTTTTGTTTTTTCT-TGTTTTGTTGTTT
*
4391766 TTTTTTGTTTTTTGTTGTTTTGTTGTTT
1 TTTTTTGTTTTTTCTTGTTTTGTTGTTT
*
4391794 TTGTTGTTGTTTTTTTTTGTTT
1 TT-TT-TTGTTTTTTCTTGTTT
4391816 AGAAAAAGGA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 14 0.32
29 15 0.34
30 15 0.34
ACGTcount: A:0.00, C:0.04, G:0.14, T:0.82
Consensus pattern (28 bp):
TTTTTTGTTTTTTCTTGTTTTGTTGTTT
Found at i:4391769 original size:20 final size:19
Alignment explanation
Indices: 4391744--4391809 Score: 78
Period size: 20 Copynumber: 3.3 Consensus size: 19
4391734 CTCTTTTTTC
4391744 TTTTTTCTCTTTTTTGTTGT
1 TTTTTTCT-TTTTTTGTTGT
*
4391764 TTTTTTTTGTTTTTTGTTGT
1 TTTTTTCT-TTTTTTGTTGT
* *
4391784 TTTGTTGTTTTTGTTGTTGT
1 TTTTTTCTTTTT-TTGTTGT
4391804 TTTTTT
1 TTTTTT
4391810 TTGTTTAGAA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
19 4 0.10
20 36 0.90
ACGTcount: A:0.00, C:0.03, G:0.15, T:0.82
Consensus pattern (19 bp):
TTTTTTCTTTTTTTGTTGT
Found at i:4395689 original size:184 final size:184
Alignment explanation
Indices: 4395380--4395753 Score: 739
Period size: 184 Copynumber: 2.0 Consensus size: 184
4395370 TAAACATTTT
4395380 CATTAATAATGTTTGATAAAAGATGCCCATACAAAAGATTTATAATGCTTTTGGGCGAAAGCACG
1 CATTAATAATGTTTGATAAAAGATGCCCATACAAAAGATTTATAATGCTTTTGGGCGAAAGCACG
*
4395445 TAGGTTTAGTTCATAGTATTACTTTTAAATAGATTAGAACAGTACAGGAATTTCATTTTCAGTCC
66 TAGGTTTAGTTCATAGTATTACTTTTAAATAGACTAGAACAGTACAGGAATTTCATTTTCAGTCC
4395510 AAAAACTTGGAACAAATCTTGAAGGGCACCAATCAGTGTCTGGCTCATCAATGG
131 AAAAACTTGGAACAAATCTTGAAGGGCACCAATCAGTGTCTGGCTCATCAATGG
4395564 CATTAATAATGTTTGATAAAAGATGCCCATACAAAAGATTTATAATGCTTTTGGGCGAAAGCACG
1 CATTAATAATGTTTGATAAAAGATGCCCATACAAAAGATTTATAATGCTTTTGGGCGAAAGCACG
4395629 TAGGTTTAGTTCATAGTATTACTTTTAAATAGACTAGAACAGTACAGGAATTTCATTTTCAGTCC
66 TAGGTTTAGTTCATAGTATTACTTTTAAATAGACTAGAACAGTACAGGAATTTCATTTTCAGTCC
4395694 AAAAACTTGGAACAAATCTTGAAGGGCACCAATCAGTGTCTGGCTCATCAATGG
131 AAAAACTTGGAACAAATCTTGAAGGGCACCAATCAGTGTCTGGCTCATCAATGG
4395748 CATTAA
1 CATTAA
4395754 CAGAAAGATC
Statistics
Matches: 189, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
184 189 1.00
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.31
Consensus pattern (184 bp):
CATTAATAATGTTTGATAAAAGATGCCCATACAAAAGATTTATAATGCTTTTGGGCGAAAGCACG
TAGGTTTAGTTCATAGTATTACTTTTAAATAGACTAGAACAGTACAGGAATTTCATTTTCAGTCC
AAAAACTTGGAACAAATCTTGAAGGGCACCAATCAGTGTCTGGCTCATCAATGG
Found at i:4398667 original size:13 final size:13
Alignment explanation
Indices: 4398651--4398681 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
4398641 ATACATTGTT
4398651 CATTGTATCAATA
1 CATTGTATCAATA
*
4398664 CATTGTATCGATA
1 CATTGTATCAATA
4398677 CATTG
1 CATTG
4398682 CTTGTTGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (13 bp):
CATTGTATCAATA
Found at i:4398677 original size:33 final size:33
Alignment explanation
Indices: 4398633--4398746 Score: 167
Period size: 33 Copynumber: 3.5 Consensus size: 33
4398623 TTTTCATATT
* *
4398633 TTGTATTGATACATTGTTCATTGTATCAATACA
1 TTGTATCGATACATTGTTCATTGTATCGATACA
*
4398666 TTGTATCGATACATTGCTT-GTTGTATCGATACA
1 TTGTATCGATACATTG-TTCATTGTATCGATACA
*
4398699 TTGTATCGATACATTGCTCATTGTATCGATACA
1 TTGTATCGATACATTGTTCATTGTATCGATACA
*
4398732 TTGTATTGATACATT
1 TTGTATCGATACATT
4398747 ATGGATTTAC
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
32 1 0.01
33 70 0.96
34 2 0.03
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (33 bp):
TTGTATCGATACATTGTTCATTGTATCGATACA
Found at i:4398704 original size:13 final size:13
Alignment explanation
Indices: 4398686--4398746 Score: 71
Period size: 13 Copynumber: 5.2 Consensus size: 13
4398676 ACATTGCTTG
4398686 TTGTATCGATACA
1 TTGTATCGATACA
4398699 TTGTATCGATACA
1 TTGTATCGATACA
4398712 TTG---C--T-CA
1 TTGTATCGATACA
4398719 TTGTATCGATACA
1 TTGTATCGATACA
*
4398732 TTGTATTGATACA
1 TTGTATCGATACA
4398745 TT
1 TT
4398747 ATGGATTTAC
Statistics
Matches: 41, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
7 5 0.12
8 1 0.02
10 2 0.05
12 1 0.02
13 32 0.78
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.43
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:4398720 original size:20 final size:20
Alignment explanation
Indices: 4398697--4398734 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
4398687 TGTATCGATA
4398697 CATTGTATCGATACATTGCT
1 CATTGTATCGATACATTGCT
4398717 CATTGTATCGATACATTG
1 CATTGTATCGATACATTG
4398735 TATTGATACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.39
Consensus pattern (20 bp):
CATTGTATCGATACATTGCT
Found at i:4401151 original size:51 final size:51
Alignment explanation
Indices: 4401086--4401205 Score: 152
Period size: 51 Copynumber: 2.4 Consensus size: 51
4401076 CAATTTTTTT
* * * *
4401086 AATCGGGGATACTCCAACT-TCGATTTTATTTTTAAAGCATCGATTTACCGC
1 AATCGGGGATACTCCAACTCT-GATTTTATTTTCAAAACATCAATTTACCAC
**
4401137 AATCGGGGATACTCCAACTCTGATTTTATTTTCAAAACATCAATTTTTCAC
1 AATCGGGGATACTCCAACTCTGATTTTATTTTCAAAACATCAATTTACCAC
**
4401188 AATTAGGGATACTCCAAC
1 AATCGGGGATACTCCAAC
4401206 CCCATTATTT
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
51 59 0.98
52 1 0.02
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.34
Consensus pattern (51 bp):
AATCGGGGATACTCCAACTCTGATTTTATTTTCAAAACATCAATTTACCAC
Found at i:4401323 original size:28 final size:28
Alignment explanation
Indices: 4401271--4401325 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
4401261 TTTTTTCATA
* *
4401271 ATTGGGGGTACTCCAACTCTGTTATTTC
1 ATTGGGGATACTCCAACTCTATTATTTC
4401299 ATTGGGGATACTCCAA-TCCTATTATTT
1 ATTGGGGATACTCCAACT-CTATTATTT
4401326 TAGAGAGCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 1 0.04
28 23 0.96
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.40
Consensus pattern (28 bp):
ATTGGGGATACTCCAACTCTATTATTTC
Found at i:4401400 original size:51 final size:50
Alignment explanation
Indices: 4401334--4401500 Score: 201
Period size: 51 Copynumber: 3.3 Consensus size: 50
4401324 TTTAGAGAGC
4401334 ATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTCCACAATCGGGG
1 ATACTCCAACCCCGATTTTATTTCTAAAATACC-ATTTTCCACAATCGGGG
* * * * ** *
4401385 ATACTCTAACTCCGATTTTATTTCCAAAATACCAGTTTCTCACAATTAGAG
1 ATACTCCAACCCCGATTTTATTTCTAAAATACCATTTTC-CACAATCGGGG
** *
4401436 ATACTCCAACCCCGACCTTATTTCTAAAGCAT-CGATTTTCCACAATCGGGG
1 ATACTCCAACCCCGATTTTATTTCTAAA--ATACCATTTTCCACAATCGGGG
4401487 ATACTCCAACCCCG
1 ATACTCCAACCCCG
4401501 TTATTTTCGA
Statistics
Matches: 96, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
50 5 0.05
51 83 0.86
52 6 0.06
53 2 0.02
ACGTcount: A:0.31, C:0.29, G:0.10, T:0.30
Consensus pattern (50 bp):
ATACTCCAACCCCGATTTTATTTCTAAAATACCATTTTCCACAATCGGGG
Found at i:4416873 original size:19 final size:19
Alignment explanation
Indices: 4416849--4416898 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
4416839 AGCGATATAT
*
4416849 TGTATCGATACAATACTTA
1 TGTATCGATACAACACTTA
4416868 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
*
4416887 TCTATCGATACA
1 TGTATCGATACA
4416899 TTGTATCGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.34
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:4417354 original size:8 final size:8
Alignment explanation
Indices: 4417341--4417390 Score: 55
Period size: 8 Copynumber: 5.9 Consensus size: 8
4417331 ATTCTTTTTT
4417341 CAAAAAAA
1 CAAAAAAA
4417349 CAAAAAACAA
1 C-AAAAA-AA
4417359 CAAAAAAAA
1 C-AAAAAAA
*
4417368 GAAAAAAA
1 CAAAAAAA
*
4417376 CAATAAAA
1 CAAAAAAA
4417384 CAAAAAA
1 CAAAAAA
4417391 GAAACAGAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
8 20 0.56
9 7 0.19
10 9 0.25
ACGTcount: A:0.84, C:0.12, G:0.02, T:0.02
Consensus pattern (8 bp):
CAAAAAAA
Found at i:4417367 original size:20 final size:19
Alignment explanation
Indices: 4417342--4417410 Score: 66
Period size: 21 Copynumber: 3.4 Consensus size: 19
4417332 TTCTTTTTTC
*
4417342 AAAAAAACAAAAAACAACA
1 AAAAAAAAAAAAAACAACA
*
4417361 AAAAAAAGAAAAAAACAATA
1 AAAAAAA-AAAAAAACAACA
* *
4417381 AAACAAAAAAGAAACAGAACA
1 AAA-AAAAAA-AAAAACAACA
4417402 AAGAAAAAA
1 AA-AAAAAA
4417411 GAGAGAAAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
19 7 0.17
20 15 0.37
21 18 0.44
22 1 0.02
ACGTcount: A:0.83, C:0.10, G:0.06, T:0.01
Consensus pattern (19 bp):
AAAAAAAAAAAAAACAACA
Found at i:4417372 original size:27 final size:29
Alignment explanation
Indices: 4417342--4417399 Score: 86
Period size: 27 Copynumber: 2.1 Consensus size: 29
4417332 TTCTTTTTTC
4417342 AAAAAAACAA-AAAACAACAAAA-AAA-AG
1 AAAAAAACAATAAAACAA-AAAAGAAACAG
4417369 AAAAAAACAATAAAACAAAAAAGAAACAG
1 AAAAAAACAATAAAACAAAAAAGAAACAG
4417398 AA
1 AA
4417400 CAAAGAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
27 14 0.50
28 10 0.36
29 4 0.14
ACGTcount: A:0.83, C:0.10, G:0.05, T:0.02
Consensus pattern (29 bp):
AAAAAAACAATAAAACAAAAAAGAAACAG
Found at i:4417395 original size:19 final size:17
Alignment explanation
Indices: 4417343--4417410 Score: 66
Period size: 17 Copynumber: 3.8 Consensus size: 17
4417333 TCTTTTTTCA
*
4417343 AAAAAACAAAAAACAAC
1 AAAAAACAAAAAAAAAC
4417360 AAAAAA-AAGAAAAAAAC
1 AAAAAACAA-AAAAAAAC
4417377 AATAAAACAAAAAAGAAAC
1 AA-AAAACAAAAAA-AAAC
*
4417396 AGAACAAAGAAAAAA
1 A-AA-AAACAAAAAA
4417411 GAGAGAAAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
16 2 0.05
17 15 0.35
18 8 0.19
19 8 0.19
20 10 0.23
ACGTcount: A:0.82, C:0.10, G:0.06, T:0.01
Consensus pattern (17 bp):
AAAAAACAAAAAAAAAC
Done.