Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1940
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: 123946
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Found at i:3505 original size:52 final size:51
Alignment explanation
Indices: 3427--3575 Score: 235
Period size: 52 Copynumber: 2.9 Consensus size: 51
3417 CGAAATATGA
3427 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTG-ATAGTGTATCGATACATCTGGGC
* *
3479 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTGATAGTGTATCGATACATCTGGGC
**
3531 AAATTTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGAT-AGTGTATCGATACA
3576 ATGTATCGAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 85 0.96
53 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTGATAGTGTATCGATACATCTGGGC
Found at i:3582 original size:13 final size:13
Alignment explanation
Indices: 3564--3588 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3554 CAAAGATCAG
3564 TGTATCGATACAA
1 TGTATCGATACAA
3577 TGTATCGATACA
1 TGTATCGATACA
3589 TTTAAGTGAT
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:3666 original size:33 final size:33
Alignment explanation
Indices: 3629--3695 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3619 AGTAGCTTAA
3629 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
3662 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
3695 A
1 A
3696 AATCGTTGAA
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:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:3669 original size:13 final size:13
Alignment explanation
Indices: 3651--3675 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3641 CAAAAAAATA
3651 TGTATCGATACAT
1 TGTATCGATACAT
3664 TGTATCGATACA
1 TGTATCGATACA
3676 ACACTTTATG
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:5805 original size:21 final size:21
Alignment explanation
Indices: 5772--5812 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
5762 CTAAGTAAAA
5772 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
5793 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
5813 CAAGGTTGAC
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:5877 original size:20 final size:19
Alignment explanation
Indices: 5852--5922 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
5842 ACTCTGAAAA
5852 GTATCGATACACATTTAAAT
1 GTATCGATACACA-TTAAAT
* **
5872 GTATCGATACAAATTGCAT
1 GTATCGATACACATTAAAT
**
5891 AGTATCGATACACACAAATAT
1 -GTATCGATACACATTAA-AT
5912 GTATCGATACA
1 GTATCGATACA
5923 GGTCATTGGC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.10
20 35 0.85
21 2 0.05
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.30
Consensus pattern (19 bp):
GTATCGATACACATTAAAT
Found at i:6103 original size:13 final size:13
Alignment explanation
Indices: 6085--6110 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6075 ACATATTTGT
6085 GTGTATCGATACA
1 GTGTATCGATACA
6098 GTGTATCGATACA
1 GTGTATCGATACA
6111 TCATAAATAG
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:0.23, T:0.31
Consensus pattern (13 bp):
GTGTATCGATACA
Found at i:7837 original size:86 final size:87
Alignment explanation
Indices: 7720--8235 Score: 399
Period size: 86 Copynumber: 5.9 Consensus size: 87
7710 ATTCTTTCGA
* * * * * * *
7720 AGGAATGGGGATAGTGTTTCCCCAAAGATAAAATTATATGAAGAAAATTTTGA-TTTTTGAAGAA
1 AGGAGTGGGGATGGAGTTTCCCTAAAAATAAAATTATATGAAGAAAAATTTGATTTTTTGAAGAG
* *
7784 CAAGATTAGAGTATCCTCTCAG
66 CAGGATTAGAGTGTCCTCTCAG
* * *
7806 AGGAGTGGGGATGAAGTTTCCCTAAAAATAAAATT-TCACGGATG-AAAATTTGATTTTTTTTTT
1 AGGAGTGGGGATGGAGTTTCCCTAAAAATAAAATTAT-A-TGAAGAAAAATTTGA----TTTTTT
* ** ** **
7869 GAAAAGTGGGGCTAGAGTGTCC-CTTTG
60 GAAGAGCAGGATTAGAGTGTCCTCTCAG
* * * **
7896 AAAGAGTGGGGATGGAGTTTCTCTAAAGATAAAATTATATGAAGAAAAATTAAATTTTTTTGAAG
1 -AGGAGTGGGGATGGAGTTTCCCTAAAAATAAAATTATATGAAGAAAAATTTGA-TTTTTTGAAG
* *
7961 AGCAGGGTTGGAGTGTCC-CTCAG
64 AGCAGGATTAGAGTGTCCTCTCAG
* *
7984 AGGAGTGGGGATGGAGTTTTCCC-AAAAATAAAATTATGTAAAGAAAAATTTGATTTTTTTTGAA
1 AGGAGTGGGGATGGAG-TTTCCCTAAAAATAAAATTATATGAAGAAAAATTTGA--TTTTTTGAA
* * *
8048 GAGCGGGATT-G-GAGT-ATCTCAGG
63 GAGCAGGATTAGAGTGTCCTCTCA-G
* * * ** * *
8071 AGGAGTGGAGATGAAGTTTCCTTAAAAATAAAATTATACAAAGAAAAATTTGATCTTTTCAAGAG
1 AGGAGTGGGGATGGAGTTTCCCTAAAAATAAAATTATATGAAGAAAAATTTGATTTTTTGAAGAG
* * *
8136 C-GGGTTAGAGTGTGCTCTCGG
66 CAGGATTAGAGTGTCCTCTCAG
* ** *
8157 AGGAGTGAGGATGGAGTTTCCCTAAAGTTAAAATTAT-TCGAAGAAAATTTTGATTTTTTTTGAA
1 AGGAGTGGGGATGGAGTTTCCCTAAAAATAAAATTATAT-GAAGAAAAATTTGA--TTTTTTGAA
8221 GAGCTAGG-TTAGAGT
63 GAGC-AGGATTAGAGT
8236 TTCCCCTTGG
Statistics
Matches: 340, Mismatches: 67, Indels: 43
0.76 0.15 0.10
Matches are distributed among these distances:
84 4 0.01
85 13 0.04
86 97 0.29
87 91 0.27
88 61 0.18
89 7 0.02
90 8 0.02
91 58 0.17
92 1 0.00
ACGTcount: A:0.35, C:0.09, G:0.25, T:0.32
Consensus pattern (87 bp):
AGGAGTGGGGATGGAGTTTCCCTAAAAATAAAATTATATGAAGAAAAATTTGATTTTTTGAAGAG
CAGGATTAGAGTGTCCTCTCAG
Found at i:8015 original size:87 final size:85
Alignment explanation
Indices: 7720--8277 Score: 338
Period size: 87 Copynumber: 6.4 Consensus size: 85
7710 ATTCTTTCGA
* * * * * **
7720 AGGAATGGGGATAGTGTTTCCCCAAAGATAAAATTATATGAAGAAAATTTTGA--TTTTTGAAGA
1 AGGAGTGGGGATGGAGTTT-CCCAAAAATAAAATTATATGAAGAAAAATTAAATTTTTTTGAAGA
* * * *
7783 ACAAGATTAGAGTATCCTCTCAG
65 GC-GGGTTAGAGTGTCC-CTCAG
* * * * **
7806 AGGAGTGGGGATGAAGTTTCCCTAAAAATAAAATT-TCACGGATGAAAATTTGATTTTTTTTTTG
1 AGGAGTGGGGATGGAGTTTCCC-AAAAATAAAATTAT-A-TGAAGAAAAATT-A-AATTTTTTTG
* * * **
7870 AAAAGTGGGGCTAGAGTGTCCCTTTG
61 AAGAG-CGGGTTAGAGTGTCCCTCAG
* * *
7896 AAAGAGTGGGGATGGAGTTTCTCTAAAGATAAAATTATATGAAGAAAAATTAAATTTTTTTGAAG
1 -AGGAGTGGGGATGGAGTTTC-CCAAAAATAAAATTATATGAAGAAAAATTAAATTTTTTTGAAG
*
7961 AGCAGGGTTGGAGTGTCCCTCAG
64 AGC-GGGTTAGAGTGTCCCTCAG
* * * *
7984 AGGAGTGGGGATGGAGTTTTCCCAAAAATAAAATTATGTAAAGAAAAATTTGATTTTTTTTGAAG
1 AGGAGTGGGGATGGAG-TTTCCCAAAAATAAAATTATATGAAGAAAAA-TTAAATTTTTTTGAAG
* *
8049 AGCGGGATTGGAGTAT--CTCAGG
64 AGCGGG-TTAGAGTGTCCCTCA-G
* * * ** ** * *
8071 AGGAGTGGAGATGAAGTTTCCTTAAAAATAAAATTATACAAAGAAAAATTTGA-TCTTTTCAAGA
1 AGGAGTGGGGATGGAGTTTCC-CAAAAATAAAATTATATGAAGAAAAATTAAATTTTTTTGAAGA
* *
8135 GCGGGTTAGAGTGTGCTCTCGG
65 GCGGGTTAGAGTGT-CCCTCAG
* ** * * *
8157 AGGAGTGAGGATGGAGTTTCCCTAAAGTTAAAATTAT-TCGAAGAAAATTTTGATTTTTTTTGAA
1 AGGAGTGGGGATGGAGTTTCCC-AAAAATAAAATTATAT-GAAGAAAA-ATTAAATTTTTTTGAA
* * **
8221 GAGCTAGGTTAGAGTTTCCCCTTGG
63 GAGC-GGGTTAGAGTGT-CCCTCAG
* * * * *
8246 AGAAATAGGGATGGACTTTCCCCAAAATAAAA
1 AGGAGTGGGGATGGAGTTTCCCAAAAATAAAA
8278 ACTTTTAATG
Statistics
Matches: 365, Mismatches: 82, Indels: 48
0.74 0.17 0.10
Matches are distributed among these distances:
84 7 0.02
85 18 0.05
86 76 0.21
87 94 0.26
88 74 0.20
89 33 0.09
90 12 0.03
91 49 0.13
92 2 0.01
ACGTcount: A:0.35, C:0.10, G:0.25, T:0.31
Consensus pattern (85 bp):
AGGAGTGGGGATGGAGTTTCCCAAAAATAAAATTATATGAAGAAAAATTAAATTTTTTTGAAGAG
CGGGTTAGAGTGTCCCTCAG
Found at i:8203 original size:173 final size:174
Alignment explanation
Indices: 7899--8224 Score: 428
Period size: 173 Copynumber: 1.9 Consensus size: 174
7889 CCCTTTGAAA
* * * ** * *
7899 GAGTGGGGATGGAGTTTCTCTAAAGATAAAATTATATGAAGAAAAATTAAATTTTTTTGAAGAGC
1 GAGTGGAGATGAAGTTTCTCTAAAAATAAAATTATACAAAGAAAAATTAAATTCTTTTCAAGAGC
* *
7964 AGGGTTGGAGTGTCCCTCAGAGGAGTGGGGATGGAGTTTTCCCAAAAATAAAATTATGTAAAGAA
66 AGGGTTAGAGTGTCCCTCAGAGGAGTGAGGATGGAGTTTTCCCAAAAATAAAATTATGTAAAGAA
8029 AAATTTGATTTTTTTTGAAGAGCGGGATTGGAGTATCTCAGGAG
131 AAATTTGATTTTTTTTGAAGAGCGGGATTGGAGTATCTCAGGAG
**
8073 GAGTGGAGATGAAGTTTC-CTTAAAAATAAAATTATACAAAGAAAAATTTGA-TCTTTTCAAGAG
1 GAGTGGAGATGAAGTTTCTC-TAAAAATAAAATTATACAAAGAAAAATTAAATTCTTTTCAAGAG
* * ** *
8136 C-GGGTTAGAGTGTGCTCTCGGAGGAGTGAGGATGGAG-TTTCCCTAAAGTTAAAATTAT-TCGA
65 CAGGGTTAGAGTGT-CCCTCAGAGGAGTGAGGATGGAGTTTTCCC-AAAAATAAAATTATGT-AA
*
8198 AGAAAATTTTGATTTTTTTTGAAGAGC
127 AGAAAAATTTGATTTTTTTTGAAGAGC
8225 TAGGTTAGAG
Statistics
Matches: 131, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
172 18 0.14
173 71 0.54
174 42 0.32
ACGTcount: A:0.35, C:0.08, G:0.26, T:0.31
Consensus pattern (174 bp):
GAGTGGAGATGAAGTTTCTCTAAAAATAAAATTATACAAAGAAAAATTAAATTCTTTTCAAGAGC
AGGGTTAGAGTGTCCCTCAGAGGAGTGAGGATGGAGTTTTCCCAAAAATAAAATTATGTAAAGAA
AAATTTGATTTTTTTTGAAGAGCGGGATTGGAGTATCTCAGGAG
Found at i:10927 original size:22 final size:21
Alignment explanation
Indices: 10899--10950 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
10889 ATTTTTACTT
*
10899 AAAAACATTCGATTTA-AAGCTC
1 AAAAACATTCG-TTCATAA-CTC
*
10921 AAAAACATTTGTTCATAACTC
1 AAAAACATTCGTTCATAACTC
10942 AAAAACATT
1 AAAAACATT
10951 TATTGAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 15 0.56
22 12 0.44
ACGTcount: A:0.48, C:0.17, G:0.06, T:0.29
Consensus pattern (21 bp):
AAAAACATTCGTTCATAACTC
Found at i:11763 original size:33 final size:33
Alignment explanation
Indices: 11726--11794 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
11716 TCGGTTAAGA
* *
11726 GAACTAAAGTTCTCATCCATACGCTACGAAAGT
1 GAACTAAAGTGCTCATCCATACACTACGAAAGT
*
11759 GAACTAAAGTGCTCATCCATGCACTACGAAAGT
1 GAACTAAAGTGCTCATCCATACACTACGAAAGT
11792 GAA
1 GAA
11795 GTGATCAACT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.22
Consensus pattern (33 bp):
GAACTAAAGTGCTCATCCATACACTACGAAAGT
Found at i:19493 original size:13 final size:13
Alignment explanation
Indices: 19475--19499 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19465 CAATTTTTCA
19475 TGTATCGATACAT
1 TGTATCGATACAT
19488 TGTATCGATACA
1 TGTATCGATACA
19500 ATGTGCATGT
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:19497 original size:33 final size:32
Alignment explanation
Indices: 19455--19518 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
19445 TTTGAGTCAA
* *
19455 TGTATCGATACAATTTTTCATGTATCGATACAT
1 TGTATCGATACAA-TGTGCATGTATCGATACAT
19488 TGTATCGATACAATGTGCATGTATCGATACA
1 TGTATCGATACAATGTGCATGTATCGATACA
19519 ATTAGTGGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 16 0.55
33 13 0.45
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.38
Consensus pattern (32 bp):
TGTATCGATACAATGTGCATGTATCGATACAT
Found at i:19512 original size:19 final size:19
Alignment explanation
Indices: 19488--19604 Score: 74
Period size: 19 Copynumber: 5.8 Consensus size: 19
19478 ATCGATACAT
19488 TGTATCGATACAATGTGCA
1 TGTATCGATACAATGTGCA
*
19507 TGTATCGATACAATTAGTGGTCG
1 TGTATCGATACAA-T-GT-G-CA
* * * * *
19530 GGTAGCTACTTCCAAT-TTCA
1 TGTATCGA--TACAATGTGCA
* *
19550 TGTATCGATACATTTGTTCA
1 TGTATCGATACA-ATGTGCA
**
19570 TGTATCGATACAATGAACA
1 TGTATCGATACAATGTGCA
19589 TGTATCGATACAATGT
1 TGTATCGATACAATGT
19605 ATGATACAAA
Statistics
Matches: 74, Mismatches: 16, Indels: 16
0.70 0.15 0.15
Matches are distributed among these distances:
18 3 0.04
19 33 0.45
20 23 0.31
21 2 0.03
22 2 0.03
23 6 0.08
24 1 0.01
25 4 0.05
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (19 bp):
TGTATCGATACAATGTGCA
Found at i:19571 original size:20 final size:19
Alignment explanation
Indices: 19542--19604 Score: 83
Period size: 19 Copynumber: 3.3 Consensus size: 19
19532 TAGCTACTTC
19542 CAAT-TTCATGTATCGATA
1 CAATGTTCATGTATCGATA
*
19560 CATTTGTTCATGTATCGATA
1 CA-ATGTTCATGTATCGATA
**
19580 CAATGAACATGTATCGATA
1 CAATGTTCATGTATCGATA
19599 CAATGT
1 CAATGT
19605 ATGATACAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
18 2 0.05
19 20 0.53
20 16 0.42
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (19 bp):
CAATGTTCATGTATCGATA
Found at i:21338 original size:20 final size:19
Alignment explanation
Indices: 21283--21338 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
21273 AAAACCCTTA
*
21283 AAAGTATCGATACATAATTC
1 AAAGTATCGATACAT-GTTC
21303 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATGTT-C
*
21323 AATGTATCGATACATG
1 AAAGTATCGATACATG
21339 AAAAAGATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 2 0.06
20 31 0.94
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.30
Consensus pattern (19 bp):
AAAGTATCGATACATGTTC
Found at i:21426 original size:13 final size:13
Alignment explanation
Indices: 21408--21433 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21398 TACACCAAGT
21408 ATGTATCGATACA
1 ATGTATCGATACA
21421 ATGTATCGATACA
1 ATGTATCGATACA
21434 CAAAAAATTG
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:21431 original size:32 final size:33
Alignment explanation
Indices: 21390--21453 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
21380 TAGCCAAACT
* **
21390 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
21422 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
21454 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:21519 original size:20 final size:22
Alignment explanation
Indices: 21488--21531 Score: 74
Period size: 20 Copynumber: 2.1 Consensus size: 22
21478 CTATATTTTT
21488 CAAATATGTATCGATACA-TCA
1 CAAATATGTATCGATACATTCA
21509 CAAAT-TGTATCGATACATTCA
1 CAAATATGTATCGATACATTCA
21530 CA
1 CA
21532 CGGGAAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (22 bp):
CAAATATGTATCGATACATTCA
Found at i:25529 original size:15 final size:16
Alignment explanation
Indices: 25510--25546 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
25500 GATAAAAATG
*
25510 TCCAAAATAAGGAAGC
1 TCCAAAATAAAGAAGC
25526 -CCAAAATAAAGAAGC
1 TCCAAAATAAAGAAGC
25541 TCCAAA
1 TCCAAA
25547 CGAAATTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.54, C:0.22, G:0.14, T:0.11
Consensus pattern (16 bp):
TCCAAAATAAAGAAGC
Found at i:27644 original size:13 final size:13
Alignment explanation
Indices: 27626--27651 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27616 ACATTTTTCT
27626 TTGTATCGATACA
1 TTGTATCGATACA
27639 TTGTATCGATACA
1 TTGTATCGATACA
27652 GGGGGTTTAT
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:29464 original size:19 final size:19
Alignment explanation
Indices: 29440--29477 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
29430 AAATTTTTGA
29440 TATGAATTACTTGATTAAG
1 TATGAATTACTTGATTAAG
29459 TATGAATTACTTGATTAAG
1 TATGAATTACTTGATTAAG
29478 GGGGAGAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.05, G:0.16, T:0.42
Consensus pattern (19 bp):
TATGAATTACTTGATTAAG
Found at i:30301 original size:20 final size:22
Alignment explanation
Indices: 30270--30313 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 22
30260 CTATATTTTT
30270 CAAATATGTATCAATACA-TCA
1 CAAATATGTATCAATACATTCA
*
30291 CAAAT-TGTATCGATACATTCA
1 CAAATATGTATCAATACATTCA
30312 CA
1 CA
30314 CGGGAAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (22 bp):
CAAATATGTATCAATACATTCA
Found at i:31882 original size:19 final size:20
Alignment explanation
Indices: 31841--31891 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
31831 AGGCTAGAAA
* *
31841 TATCGATACATATTGCTTTG
1 TATCGATACATGTTGCATTG
31861 TATCGATACATGTT-CATTG
1 TATCGATACATGTTGCATTG
*
31880 TATTGATACATG
1 TATCGATACATG
31892 AAACTGGTAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.43
Consensus pattern (20 bp):
TATCGATACATGTTGCATTG
Found at i:33651 original size:20 final size:20
Alignment explanation
Indices: 33628--33721 Score: 62
Period size: 20 Copynumber: 5.0 Consensus size: 20
33618 CACATTGTAC
33628 TGATACAATGTATCGATACA
1 TGATACAATGTATCGATACA
*
33648 TGATA-AATTGTATTGATACA
1 TGATACAA-TGTATCGATACA
* *
33668 TG--GC-A--TATTG-TAC-
1 TGATACAATGTATCGATACA
*
33681 CGATACAATGTATCGATACA
1 TGATACAATGTATCGATACA
*
33701 TGATGA-ATTGTATCGATACA
1 TGAT-ACAATGTATCGATACA
33721 T
1 T
33722 TGCTTCAAAC
Statistics
Matches: 57, Mismatches: 7, Indels: 20
0.68 0.08 0.24
Matches are distributed among these distances:
13 1 0.02
14 3 0.05
15 6 0.11
16 1 0.02
18 5 0.09
19 5 0.09
20 35 0.61
21 1 0.02
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.34
Consensus pattern (20 bp):
TGATACAATGTATCGATACA
Found at i:33658 original size:33 final size:33
Alignment explanation
Indices: 33603--33667 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
33593 TACCACTGTT
*
33603 TGTATCGATACATAGCACATTGTACTGATACAA
1 TGTATCGATACATAGCAAATTGTACTGATACAA
* *
33636 TGTATCGATACAT-GATAAATTGTATTGATACA
1 TGTATCGATACATAG-CAAATTGTACTGATACA
33668 TGGCATATTG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 1 0.04
33 27 0.96
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (33 bp):
TGTATCGATACATAGCAAATTGTACTGATACAA
Found at i:33686 original size:53 final size:53
Alignment explanation
Indices: 33602--33721 Score: 195
Period size: 53 Copynumber: 2.3 Consensus size: 53
33592 CTACCACTGT
*
33602 TTGTATCGATACATAGCACATTGTACTGATACAATGTATCGATACATGATAAA
1 TTGTATCGATACATAGCACATTGTACCGATACAATGTATCGATACATGATAAA
* * * *
33655 TTGTATTGATACATGGCATATTGTACCGATACAATGTATCGATACATGATGAA
1 TTGTATCGATACATAGCACATTGTACCGATACAATGTATCGATACATGATAAA
33708 TTGTATCGATACAT
1 TTGTATCGATACAT
33722 TGCTTCAAAC
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 61 1.00
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (53 bp):
TTGTATCGATACATAGCACATTGTACCGATACAATGTATCGATACATGATAAA
Found at i:41406 original size:22 final size:20
Alignment explanation
Indices: 41378--41417 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
41368 TAACCGATTA
41378 TCAAAGGGGAGAAATTTTTTTT
1 TCAAA-GGGA-AAATTTTTTTT
41400 TCAAAGGGAAAATTTTTT
1 TCAAAGGGAAAATTTTTT
41418 AACGATAGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.50
21 4 0.22
22 5 0.28
ACGTcount: A:0.35, C:0.05, G:0.20, T:0.40
Consensus pattern (20 bp):
TCAAAGGGAAAATTTTTTTT
Found at i:42031 original size:32 final size:33
Alignment explanation
Indices: 41970--42034 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
41960 ACACACCCAG
*
41970 ATGTACCGATACATTATGCTTTGTATTGATACA
1 ATGTACCGATACATTATGCATTGTATTGATACA
* *
42003 ATGTATCGATACA-TATTCATTGTATTGATACA
1 ATGTACCGATACATTATGCATTGTATTGATACA
42035 TGGACAATTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.40
Consensus pattern (33 bp):
ATGTACCGATACATTATGCATTGTATTGATACA
Found at i:42110 original size:20 final size:20
Alignment explanation
Indices: 42085--42171 Score: 125
Period size: 20 Copynumber: 4.7 Consensus size: 20
42075 CTACCACTGT
42085 TTGTATCGATACATGGCACA
1 TTGTATCGATACATGGCACA
42105 TTGTATCGAT--A---CA-A
1 TTGTATCGATACATGGCACA
42119 -TGTATCGATACATGGCACA
1 TTGTATCGATACATGGCACA
42138 TTGTATCGATACATGGCACA
1 TTGTATCGATACATGGCACA
42158 TTGTATCGATACAT
1 TTGTATCGATACAT
42172 TGTTTCAAAC
Statistics
Matches: 60, Mismatches: 0, Indels: 14
0.81 0.00 0.19
Matches are distributed among these distances:
13 9 0.15
14 1 0.02
15 3 0.05
18 3 0.05
19 1 0.02
20 43 0.72
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.32
Consensus pattern (20 bp):
TTGTATCGATACATGGCACA
Found at i:42124 original size:13 final size:13
Alignment explanation
Indices: 42106--42130 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42096 CATGGCACAT
42106 TGTATCGATACAA
1 TGTATCGATACAA
42119 TGTATCGATACA
1 TGTATCGATACA
42131 TGGCACATTG
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:42128 original size:33 final size:33
Alignment explanation
Indices: 42086--42150 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
42076 TACCACTGTT
42086 TGTATCGATACATGGCACATTGTATCGATACAA
1 TGTATCGATACATGGCACATTGTATCGATACAA
42119 TGTATCGATACATGGCACATTGTATCGATACA
1 TGTATCGATACATGGCACATTGTATCGATACA
42151 TGGCACATTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.31
Consensus pattern (33 bp):
TGTATCGATACATGGCACATTGTATCGATACAA
Found at i:46202 original size:50 final size:49
Alignment explanation
Indices: 46084--46215 Score: 178
Period size: 50 Copynumber: 2.7 Consensus size: 49
46074 AATTTGTAAT
* * *
46084 GATACA-TTCTTCATTGCATCGATAAATTATGGGTTTTACCTAGATGTATC
1 GATACATTTC-TCATTGTATCGATACATT-TAGGTTTTACCTAGATGTATC
46134 GATACATTAT-TCATTGTATCGATACATTCTAGGTTTTACCTAGATGTATC
1 GATACATT-TCTCATTGTATCGATACATT-TAGGTTTTACCTAGATGTATC
*
46184 GATACATTTCTCAATGTATCGATACATTTAGG
1 GATACATTTCTCATTGTATCGATACATTTAGG
46216 CATTTTTGAC
Statistics
Matches: 74, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
49 5 0.07
50 67 0.91
51 1 0.01
52 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.40
Consensus pattern (49 bp):
GATACATTTCTCATTGTATCGATACATTTAGGTTTTACCTAGATGTATC
Found at i:48655 original size:79 final size:79
Alignment explanation
Indices: 48572--48902 Score: 387
Period size: 79 Copynumber: 4.2 Consensus size: 79
48562 TCCACAATCA
* * * * * * * *
48572 GGGATACTCCAACCCTGTTATTTTCGAGTGGATATTTCTACTCCGATTTTATTTTTAAAATGCCA
1 GGGATACTCCAACCCTGTTATTTTCGAGGGGATAATCCAACCCCAATTTTATTTCTAAAACGCCA
48637 ATTTTTCACCATTG
66 ATTTTTCACCATTG
* * * *
48651 GGGATACTCCAACCTTGTTATTTTCGAGGGGATAATCCAACCCCAATTTTATTTTTAAAATGCTA
1 GGGATACTCCAACCCTGTTATTTTCGAGGGGATAATCCAACCCCAATTTTATTTCTAAAACGCCA
*
48716 ATTTTTCATCATTG
66 ATTTTTCACCATTG
* * * *
48730 GGGATACTCCAACCTTGTTATTTTCGAGGGGATAATCCAACCCCAATTTTATTTCCAAAACACTA
1 GGGATACTCCAACCCTGTTATTTTCGAGGGGATAATCCAACCCCAATTTTATTTCTAAAACGCCA
* *
48795 ATTTTTTACCATCG
66 ATTTTTCACCATTG
* * * * * *
48809 GGGATACTCCAA-GCTAATTATTTTCGAGGGGATACTCCAACCCTAGTTTTATTTCTAAAACGTC
1 GGGATACTCCAACCCT-GTTATTTTCGAGGGGATAATCCAACCCCAATTTTATTTCTAAAACGCC
* *
48873 GATTTTCCACCATT-
65 AATTTTTCACCATTG
*
48887 TGGATACTCCAACCCT
1 GGGATACTCCAACCCT
48903 AGTTTTATTT
Statistics
Matches: 218, Mismatches: 32, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
78 12 0.06
79 206 0.94
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (79 bp):
GGGATACTCCAACCCTGTTATTTTCGAGGGGATAATCCAACCCCAATTTTATTTCTAAAACGCCA
ATTTTTCACCATTG
Found at i:48899 original size:50 final size:50
Alignment explanation
Indices: 48838--48935 Score: 155
Period size: 50 Copynumber: 2.0 Consensus size: 50
48828 ATTTTCGAGG
48838 GGATACTCCAACCCTAGTTTTATTTCT-AAA-ACGTCGATTTTCCACCATTT
1 GGATACTCCAACCCTAGTTTTATTTCTGAAACAC-T-GATTTTCCACCATTT
*
48888 GGATACTCCAACCCTAGTTTTATTTCTGAAACACTGATTTTTCACCAT
1 GGATACTCCAACCCTAGTTTTATTTCTGAAACACTGATTTTCCACCAT
48936 CGAGGATACT
Statistics
Matches: 45, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
50 39 0.87
51 4 0.09
52 2 0.04
ACGTcount: A:0.27, C:0.26, G:0.10, T:0.38
Consensus pattern (50 bp):
GGATACTCCAACCCTAGTTTTATTTCTGAAACACTGATTTTCCACCATTT
Found at i:48909 original size:129 final size:129
Alignment explanation
Indices: 48759--49014 Score: 352
Period size: 129 Copynumber: 2.0 Consensus size: 129
48749 ATTTTCGAGG
* * *
48759 GGATAATCCAACCCCAATTTTATTTCCAAAACACTAATTTTTTACCATCGGGGATACTCCAAGCT
1 GGATAATCCAACCCCAATTTTATTTCCAAAACACTAATTTTTCACCATCGAGGATACTCCAACCT
* *
48824 AATTATTTTCGAGGGGATACTCCAACC-CTAGTTTTATTTCTAAAACGTCGATTTTCCACCATTT
66 AATTATTTTCGAGGGGACACTCCAACCTC-AGTTTTATTTCTAAAACATCGATTTTCCACCATTT
* * * ** * *
48888 GGATACTCCAACCCTAGTTTTATTTCTGAAACACTGATTTTTCACCATCGAGGATACTCTAACCT
1 GGATAATCCAACCCCAATTTTATTTCCAAAACACTAATTTTTCACCATCGAGGATACTCCAACCT
** * *
48953 CGTTATTTTCGAGGGGACACTCCAACCTCGGTTTTATTTCTAAAACATCGATTTTTCACCAT
66 AATTATTTTCGAGGGGACACTCCAACCTCAGTTTTATTTCTAAAACATCGATTTTCCACCAT
49015 CGGGGATACT
Statistics
Matches: 110, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
129 109 0.99
130 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (129 bp):
GGATAATCCAACCCCAATTTTATTTCCAAAACACTAATTTTTCACCATCGAGGATACTCCAACCT
AATTATTTTCGAGGGGACACTCCAACCTCAGTTTTATTTCTAAAACATCGATTTTCCACCATTT
Found at i:48987 original size:79 final size:79
Alignment explanation
Indices: 48888--49300 Score: 509
Period size: 79 Copynumber: 5.3 Consensus size: 79
48878 TCCACCATTT
* * *
48888 GGATACTCCAA-CCCTAGTTTTATTTCTGAAACACTGATTTTTCACCATCGAGGATACTCTAACC
1 GGATACTCCAACCCCGA-TTTTATTTCTAAAACACTGATTTTTCACCATCGGGGATACTCTAACC
48952 TCGTTATTTTCGAGG
65 TCGTTATTTTCGAGG
* * * *
48967 GGACACTCCAACCTCGGTTTTATTTCTAAAACA-TCGATTTTTCACCATCGGGGATACTTTAACC
1 GGATACTCCAACCCCGATTTTATTTCTAAAACACT-GATTTTTCACCATCGGGGATACTCTAACC
* *
49031 CCGTTATTTTTGAGG
65 TCGTTATTTTCGAGG
** * *
49046 GGATACTCCAACCTTGATTTTATTTTTAAAACACTGATTTTTCACCATCGGGGATACTCCAACCT
1 GGATACTCCAACCCCGATTTTATTTCTAAAACACTGATTTTTCACCATCGGGGATACTCTAACCT
49111 CGTTA-TTTCTGAGG
66 CGTTATTTTC-GAGG
* * * *
49125 GGATACTCCAACCCCGCTTTTATTTCTAAAACATTAATTTTTCACAATCGGGGATACTCTAACC-
1 GGATACTCCAACCCCGATTTTATTTCTAAAACACTGATTTTTCACCATCGGGGATACTCTAACCT
* *
49189 CAGTTATTTTTGAAG
66 C-GTTATTTTCGAGG
* * * *
49204 GGATACTCCAACCCCAATTTTATTTCTAAAACATTGATTTTTCACAATC-GGGATACTTTAATCC
1 GGATACTCCAACCCCGATTTTATTTCTAAAACACTGATTTTTCACCATCGGGGATACTCTAA-CC
*
49268 T-GTTATTTCCGAGG
65 TCGTTATTTTCGAGG
49282 GGATACT-CAACCCC-ATTTT
1 GGATACTCCAACCCCGATTTT
49301 TTATCTCCAA
Statistics
Matches: 292, Mismatches: 34, Indels: 19
0.85 0.10 0.06
Matches are distributed among these distances:
76 5 0.02
77 7 0.02
78 33 0.11
79 241 0.83
80 6 0.02
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.36
Consensus pattern (79 bp):
GGATACTCCAACCCCGATTTTATTTCTAAAACACTGATTTTTCACCATCGGGGATACTCTAACCT
CGTTATTTTCGAGG
Found at i:49048 original size:208 final size:209
Alignment explanation
Indices: 48678--49109 Score: 503
Period size: 208 Copynumber: 2.1 Consensus size: 209
48668 TTATTTTCGA
* * ** * * *
48678 GGGGATAATCCAACCCCAATTTTATTTTTAAAATGCTAATTTTTCATCATTGGGGATACTCCAAC
1 GGGGATACTCCAACCCCAATTTTATTTCTAAAACACTAATTTTTCACCATCGAGGATACTCCAAC
* * *
48743 CTTGTTATTTTCGAGGGGATAATCCAACCCCAATTTTATTTCCAAAACACTAATTTTTTACCATC
66 CTCGTTATTTTCGAGGGGACAATCCAACCCCAATTTTATTTCCAAAACACTAATTTTTCACCATC
* * *
48808 GGGGATACTCCAAGCTAATTATTTTCGAGGGGATACTCCAACCCTAG-TTTTATTTCTAAAAC-G
131 GGGGATACTCCAACCCAATTATTTTCGAGGGGATACTCCAA-CCTAGATTTTATTTCTAAAACAC
48871 TCGATTTTCCACCAT-
195 T-GATTTTCCACCATC
** * * * * *
48886 TTGGATACTCCAACCCTAGTTTTATTTCTGAAACACTGATTTTTCACCATCGAGGATACTCTAAC
1 GGGGATACTCCAACCCCAATTTTATTTCTAAAACACTAATTTTTCACCATCGAGGATACTCCAAC
* * ** * *
48951 CTCGTTATTTTCGAGGGGACACTCCAACCTCGGTTTTATTTCTAAAACA-TCGATTTTTCACCAT
66 CTCGTTATTTTCGAGGGGACAATCCAACCCCAATTTTATTTCCAAAACACT-AATTTTTCACCAT
** ** * * *
49015 CGGGGATACTTTAACCCCGTTATTTTTGAGGGGATACTCCAACCTTGATTTTATTTTTAAAACAC
130 CGGGGATACTCCAACCCAATTATTTTCGAGGGGATACTCCAACCTAGATTTTATTTCTAAAACAC
*
49080 TGATTTTTCACCATC
195 TGATTTTCCACCATC
49095 GGGGATACTCCAACC
1 GGGGATACTCCAACC
49110 TCGTTATTTC
Statistics
Matches: 184, Mismatches: 36, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
207 5 0.03
208 165 0.90
209 14 0.08
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (209 bp):
GGGGATACTCCAACCCCAATTTTATTTCTAAAACACTAATTTTTCACCATCGAGGATACTCCAAC
CTCGTTATTTTCGAGGGGACAATCCAACCCCAATTTTATTTCCAAAACACTAATTTTTCACCATC
GGGGATACTCCAACCCAATTATTTTCGAGGGGATACTCCAACCTAGATTTTATTTCTAAAACACT
GATTTTCCACCATC
Found at i:49134 original size:287 final size:287
Alignment explanation
Indices: 48637--49156 Score: 706
Period size: 287 Copynumber: 1.8 Consensus size: 287
48627 TAAAATGCCA
* * * *
48637 ATTTTTCACCATTGGGGATACTCCAACCTTGTTATTTTCGAGGGGATAATCCAACCCCAATTTTA
1 ATTTTTCACCATCGAGGATACTCCAACCTCGTTATTTTCGAGGGGACAATCCAACCCCAATTTTA
* * * **
48702 TTTTTAAAATGCTAATTTTTCATCATTGGGGATACTCCAACCTTGTTATTTTCGAGGGGATAATC
66 TTTTAAAAATGCTAATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATAATC
* *
48767 CAACCCCAATTTTATTTCCAAAACACTAATTTTTTACCATCGGGGATACTCCAAGCTAATTATTT
131 CAACCCCAATTTTATTTCCAAAACACTAATTTTTCACCATCGGGGATACTCCAACCTAATTATTT
48832 TCGAGGGGATACTCCAACCCTAG-TTTTATTTCTAAAACGTCGATTTTCCACCATTTGGATACTC
196 TCGAGGGGATACTCCAACCC-AGCTTTTATTTCTAAAACGTCGATTTTCCACCATTTGGATACTC
48896 CAACCCTAGTTTTATTTCTGAAACACTG
260 CAACCCTAGTTTTATTTCTGAAACACTG
* * * **
48924 ATTTTTCACCATCGAGGATACTCTAACCTCGTTATTTTCGAGGGGACACTCCAACCTCGGTTTTA
1 ATTTTTCACCATCGAGGATACTCCAACCTCGTTATTTTCGAGGGGACAATCCAACCCCAATTTTA
* ** * *
48989 TTTCTAAAACAT-C-GATTTTTCACCATCGGGGATACTTTAACCCCGTTATTTTTGAGGGGATAC
66 TTT-TAAAA-ATGCTAATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATAA
*** ** * **
49052 TCCAACCTTGATTTTATTTTTAAAACACTGATTTTTCACCATCGGGGATACTCCAACCTCGTTA-
129 TCCAACCCCAATTTTATTTCCAAAACACTAATTTTTCACCATCGGGGATACTCCAACCTAATTAT
*
49116 TTTCTGAGGGGATACTCCAACCCCGCTTTTATTTCTAAAAC
194 TTTC-GAGGGGATACTCCAACCCAGCTTTTATTTCTAAAAC
49157 ATTAATTTTT
Statistics
Matches: 199, Mismatches: 30, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
286 5 0.03
287 187 0.94
288 5 0.03
289 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.36
Consensus pattern (287 bp):
ATTTTTCACCATCGAGGATACTCCAACCTCGTTATTTTCGAGGGGACAATCCAACCCCAATTTTA
TTTTAAAAATGCTAATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATAATC
CAACCCCAATTTTATTTCCAAAACACTAATTTTTCACCATCGGGGATACTCCAACCTAATTATTT
TCGAGGGGATACTCCAACCCAGCTTTTATTTCTAAAACGTCGATTTTCCACCATTTGGATACTCC
AACCCTAGTTTTATTTCTGAAACACTG
Found at i:49323 original size:158 final size:157
Alignment explanation
Indices: 48888--49295 Score: 586
Period size: 158 Copynumber: 2.6 Consensus size: 157
48878 TCCACCATTT
* *
48888 GGATACTCCAACCCTAGTTTTATTTCTGAAACACTGATTTTTCACCATCGAGGATACTCTAACCT
1 GGATACTCCAACCCTAATTTTATTTCTAAAACACTGATTTTTCACCATCG-GGATACTCTAACCT
* * * * ** *
48953 CGTTATTTTCGAGGGGACACTCCAACCTCGGTTTTATTTCTAAAACATCGATTTTTCACCATCGG
65 CGTTATTTCCGAGGGGATACTCCAACCCCGCTTTTATTTCTAAAACATTAATTTTTCACAATCGG
* * *
49018 GGATACTTTAACCCCGTTATTTTTGAGG
130 GGATACTCTAACCCAGTTATTTTTGAAG
* * * *
49046 GGATACTCCAACCTTGATTTTATTTTTAAAACACTGATTTTTCACCATCGGGGATACTCCAACCT
1 GGATACTCCAACCCTAATTTTATTTCTAAAACACTGATTTTTCACCATC-GGGATACTCTAACCT
*
49111 CGTTATTTCTGAGGGGATACTCCAACCCCGCTTTTATTTCTAAAACATTAATTTTTCACAATCGG
65 CGTTATTTCCGAGGGGATACTCCAACCCCGCTTTTATTTCTAAAACATTAATTTTTCACAATCGG
49176 GGATACTCTAACCCAGTTATTTTTGAAG
130 GGATACTCTAACCCAGTTATTTTTGAAG
* * * *
49204 GGATACTCCAACCCCAATTTTATTTCTAAAACATTGATTTTTCACAATCGGGATACTTTAATCCT
1 GGATACTCCAACCCTAATTTTATTTCTAAAACACTGATTTTTCACCATCGGGATACTCTAA-CCT
49269 -GTTATTTCCGAGGGGATACT-CAACCCC
65 CGTTATTTCCGAGGGGATACTCCAACCCC
49296 ATTTTTTATC
Statistics
Matches: 222, Mismatches: 26, Indels: 6
0.87 0.10 0.02
Matches are distributed among these distances:
156 7 0.03
157 29 0.13
158 185 0.83
159 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.35
Consensus pattern (157 bp):
GGATACTCCAACCCTAATTTTATTTCTAAAACACTGATTTTTCACCATCGGGATACTCTAACCTC
GTTATTTCCGAGGGGATACTCCAACCCCGCTTTTATTTCTAAAACATTAATTTTTCACAATCGGG
GATACTCTAACCCAGTTATTTTTGAAG
Found at i:54129 original size:39 final size:40
Alignment explanation
Indices: 54045--54132 Score: 151
Period size: 40 Copynumber: 2.2 Consensus size: 40
54035 TGTCTACATA
* *
54045 AATGCAATATATCTTGTTGATTGATAAAAGCATGTCATTG
1 AATGCAATATATCTTGTTGATTAATAAAAGCATGTCACTG
54085 AATGCAATATATCTTGTTGATTAATAAAA-CATGTCACTG
1 AATGCAATATATCTTGTTGATTAATAAAAGCATGTCACTG
54124 AATGCAATA
1 AATGCAATA
54133 AATTTCCTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
39 18 0.39
40 28 0.61
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (40 bp):
AATGCAATATATCTTGTTGATTAATAAAAGCATGTCACTG
Found at i:57742 original size:88 final size:87
Alignment explanation
Indices: 57556--57809 Score: 244
Period size: 88 Copynumber: 2.9 Consensus size: 87
57546 TATTACTCCG
* * * ** * *
57556 AGAGGATACCCCAAC-CTCGTTCTTCCAAAAATTTAAATCTTCCTTCATAATGATTTTGTCCTTG
1 AGAGGATACTCTAACTC-CGTTCTTCCAAAAATTCAAATCTTCCTTTGT-ATAATTTTAT-CTTG
* * * *
57620 GAGAAACTCTATCCCTACTACCCCA
63 GGGAAACTCCATCCCCACTACCCAA
* *
57645 AGAGGATACTCTAA-TCCCGTTGTTCCAAAAATCCAAATCTTCCTTTGTATAATTTTATCATTGG
1 AGAGGATACTCTAACT-CCGTTCTTCCAAAAATTCAAATCTTCCTTTGTATAATTTTATC-TTGG
57709 GGAAACTCCATCCCCACTACTCCAA
64 GGAAACTCCATCCCCACTAC-CCAA
* * * * * **
57734 AG-GGATACTCTAACTCTGTTTTTCCAAAAATTCAACTTTTCCTCTGTATAATTTTATCTTCAAG
1 AGAGGATACTCTAACTCCGTTCTTCCAAAAATTCAAATCTTCCTTTGTATAATTTTATCTT-GGG
57798 GAAACTCCATCC
65 GAAACTCCATCC
57810 ATATTTTTCT
Statistics
Matches: 138, Mismatches: 21, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
87 3 0.02
88 90 0.65
89 44 0.32
90 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.10, T:0.33
Consensus pattern (87 bp):
AGAGGATACTCTAACTCCGTTCTTCCAAAAATTCAAATCTTCCTTTGTATAATTTTATCTTGGGG
AAACTCCATCCCCACTACCCAA
Found at i:58739 original size:20 final size:21
Alignment explanation
Indices: 58714--58773 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 21
58704 TTTTACCCAG
*
58714 ATGTATCGATACATT-TTTCA
1 ATGTATCGATACATTGTATCA
* *
58734 ATGTATCGACAC-TTGTATGA
1 ATGTATCGATACATTGTATCA
*
58754 ATGTATCGATACATTCTATC
1 ATGTATCGATACATTGTATC
58774 TTTTTACCCA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
19 2 0.06
20 25 0.78
21 5 0.16
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (21 bp):
ATGTATCGATACATTGTATCA
Found at i:64433 original size:20 final size:20
Alignment explanation
Indices: 64408--64551 Score: 105
Period size: 20 Copynumber: 6.8 Consensus size: 20
64398 TTTTCACAAT
64408 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
* *
64428 TTGTATCAATACATTGTTTA
1 TTGTATCGATACATTGTTCA
* *
64448 TGGTATCGATATATTCTGGGTTTACCCA
1 TTGTATCGATACA-T-T--G-TT---CA
*
64476 GATGTATCGATACATT-TTGCA
1 -TTGTATCGATACATTGTT-CA
*
64497 TTGTATCGATACATTGCTCA
1 TTGTATCGATACATTGTTCA
64517 TTGTATCGATACATT-TT-A
1 TTGTATCGATACATTGTTCA
64535 TAATGTATCGATACATT
1 T--TGTATCGATACATT
64552 TAGGCATTTT
Statistics
Matches: 99, Mismatches: 13, Indels: 24
0.73 0.10 0.18
Matches are distributed among these distances:
18 2 0.02
19 1 0.01
20 73 0.74
21 4 0.04
22 1 0.01
23 2 0.02
24 1 0.01
25 2 0.02
27 1 0.01
28 2 0.02
29 10 0.10
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.43
Consensus pattern (20 bp):
TTGTATCGATACATTGTTCA
Found at i:65712 original size:51 final size:51
Alignment explanation
Indices: 65637--65815 Score: 193
Period size: 51 Copynumber: 3.5 Consensus size: 51
65627 AAATTTCTAG
* * **
65637 ATTTTTCAT-CTCGGGGATACTCCAA-TCCCGGTTCCATTTCCAAAACATCA
1 ATTTTTCATAATCGGGGATACTCCAACT-CCGATTTTATTTCCAAAACATCA
* * * * *
65687 ATTTTTCTTAATCGGGGATACTCCAACTCTGATTTTATTTCTAAAGCATCG
1 ATTTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATCA
* * *
65738 A-TTTACAGTAATCGGGGATACTCTAACTCCGATTTTATTTCCAAAACACCA
1 ATTTTTCA-TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATCA
* *
65789 ATTTTTCACAATTGGGGATACTCCAAC
1 ATTTTTCATAATCGGGGATACTCCAAC
65816 CCTATTATTT
Statistics
Matches: 104, Mismatches: 21, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
50 12 0.12
51 86 0.83
52 6 0.06
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (51 bp):
ATTTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATCA
Found at i:65921 original size:28 final size:28
Alignment explanation
Indices: 65883--65954 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
65873 TTTCATAATC
* *
65883 GGGGGTACTCCAACCCCGTTATTTCATC-A
1 GGGGATACTCCAACCCCATTATTT--TCGA
*
65912 -GGGATACTCCAATCCCATTATTTTCGA
1 GGGGATACTCCAACCCCATTATTTTCGA
65939 GGGGATACTCCAACCC
1 GGGGATACTCCAACCC
65955 TGATTTTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
26 2 0.05
27 1 0.03
28 34 0.92
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (28 bp):
GGGGATACTCCAACCCCATTATTTTCGA
Found at i:66000 original size:51 final size:52
Alignment explanation
Indices: 65939--66055 Score: 177
Period size: 51 Copynumber: 2.3 Consensus size: 52
65929 TTATTTTCGA
* *
65939 GGGGATACTCCAACCCT-GATTTTATTTCTAAAATACCAATTT-TCCACAATC
1 GGGGATACTCCAACCCTCGATTTTATTTCCAAAACACCAATTTCT-CACAATC
*
65990 GGGGATACTCCAA-CTTCGATTTTATTTCCAAAACACCAATTTCTCACAATC
1 GGGGATACTCCAACCCTCGATTTTATTTCCAAAACACCAATTTCTCACAATC
66041 GGGGATACTCCAACC
1 GGGGATACTCCAACC
66056 TCGTTATTTT
Statistics
Matches: 60, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
50 2 0.03
51 56 0.93
52 2 0.03
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.30
Consensus pattern (52 bp):
GGGGATACTCCAACCCTCGATTTTATTTCCAAAACACCAATTTCTCACAATC
Found at i:66075 original size:79 final size:77
Alignment explanation
Indices: 65992--66210 Score: 242
Period size: 80 Copynumber: 2.7 Consensus size: 77
65982 CCACAATCGG
* * *
65992 GGATACTCCAACTTCGATTTTATTTCCAAAACACCAATTTCTCACAATCGGGGATACTCCAA-CC
1 GGATACTCCAAC-CCGATTTTATTTCCAAAACACCGATTT-TCATAATCGGGGATACTCCAACCC
*
66056 TCGTTATTTTTGTGA
64 T-GTTATTTTTGAGA
* * * *
66071 GGATACTCCAACCCCGATTTTATTTTCAAAATATCGATTTTCTATAATTCAGGGATACTCCAACC
1 GGATACTCCAA-CCCGATTTTATTTCCAAAACACCGATTTTC-ATAA-TCGGGGATACTCCAACC
*
66136 CTGTTATTTTTGAGG
63 CTGTTATTTTTGAGA
* * *
66151 GGACACTCCAACCCTGACTTTTATTTCTAGAACACCGATTTTCCATAATCGGGGATACTC
1 GGATACTCCAACCC-GA-TTTTATTTCCAAAACACCGATTTT-CATAATCGGGGATACTC
66211 TAGCCCCATT
Statistics
Matches: 117, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
78 2 0.02
79 39 0.33
80 49 0.42
81 26 0.22
82 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (77 bp):
GGATACTCCAACCCGATTTTATTTCCAAAACACCGATTTTCATAATCGGGGATACTCCAACCCTG
TTATTTTTGAGA
Found at i:68408 original size:13 final size:13
Alignment explanation
Indices: 68390--68415 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
68380 CAGGGTAGCT
68390 TTGTATCGATACA
1 TTGTATCGATACA
68403 TTGTATCGATACA
1 TTGTATCGATACA
68416 ACACTTATGT
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:69365 original size:49 final size:49
Alignment explanation
Indices: 69208--69626 Score: 316
Period size: 49 Copynumber: 8.8 Consensus size: 49
69198 CGAAGAATGA
* * * *
69208 CAATGTGCTGATTCATA-GCCAACGACATTAGACTTGAAGAAGAA--TGC
1 CAATGTGCTGATTCA-AGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* ** * * * * *
69255 CAATGTGCTAAGACAAGGCCAGCGAAATTGGGCTTAGGAATGTTAAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTA--AA-GATGAAGGTGC
* * * *
69307 CAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * *
69356 CAATGTGCTGATTTAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * * **
69405 CAATATGCTGATTCAAGGCTAGCGATATCGGACTTAAAGATGAAGACGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * *
69454 CAATGTGCTGATTCAAGG-CTGACGACATTGGACTTGAAGAAGAA--TGC
1 CAATGTGCTGATTCAAGGCCAG-CGACATTGGACTTAAAGATGAAGGTGC
* *
69501 CAATGTGCTGAGAT-AAGGCCAGCGACATTGGGC-T-----T----GTGC
1 CAATGTGCTGA-TTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
** * *
69540 CAATGTGCTGATTCAAGGCCAATGACATTGGTCTTAAAGA-CAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * *
69588 CAATATGCCGATTCAAGGCCAGCAATATTGGACTTAAAG
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAG
69627 GTGCCACGGA
Statistics
Matches: 290, Mismatches: 61, Indels: 41
0.74 0.16 0.10
Matches are distributed among these distances:
38 1 0.00
39 30 0.10
40 1 0.00
46 2 0.01
47 53 0.18
48 40 0.14
49 127 0.44
50 5 0.02
52 31 0.11
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
Found at i:69762 original size:33 final size:33
Alignment explanation
Indices: 69656--69963 Score: 320
Period size: 34 Copynumber: 9.6 Consensus size: 33
69646 TTACAAGGGA
* *
69656 TGCCACGGAGGTGTGGGCTTAAAAGGAAAAAAGG
1 TGCCACGGAGTTGTGGACTTAAAAGG-AAAAAGG
*
69690 TGCCACGGAGTTGTGGACTTAAAAAG-AAAAGG
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGG
* *
69722 TGTCACGGAGTTGTGGACTTAAAAGGAACAAGG
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGG
* *
69755 TGCCACGGGGTTGTGGACTTAAAAGGAAAAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGG
* *
69788 TTCCACGGAGTTATGGACTTAAAA-G-----GG
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGG
* *
69815 TGCCACCGAGTTGTGGACTTAAAAGGAAAAAGTA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAG-G
* * *
69849 TGCCATGGAGTTGTGGGCTTTAAAAAGAAAAAGG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAGG
*
69883 TGCCATGGAGTTGTGGACTTAAAA-G-----GG
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGG
*
69910 TGCCACAGAGTTGTGGACTTTGAAAA-GAAAAAGG
1 TGCCACGGAGTTGTGGAC-TT-AAAAGGAAAAAGG
*
69944 TGCCACAGAGTTGTGGACTT
1 TGCCACGGAGTTGTGGACTT
69964 TGGGAAGAGA
Statistics
Matches: 232, Mismatches: 26, Indels: 33
0.80 0.09 0.11
Matches are distributed among these distances:
27 40 0.17
28 3 0.01
29 5 0.02
32 32 0.14
33 64 0.28
34 75 0.32
35 13 0.06
ACGTcount: A:0.34, C:0.13, G:0.32, T:0.21
Consensus pattern (33 bp):
TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGG
Found at i:69786 original size:66 final size:66
Alignment explanation
Indices: 69623--69963 Score: 308
Period size: 61 Copynumber: 5.4 Consensus size: 66
69613 TATTGGACTT
* * * * * *
69623 AAAGGTGCCACGGAATTGTGAACTTACAAGG-----GATGCCACGGAGGTGTGGGCTTAAAAGGA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGTCACGGAGTTGTGGACTTAAAAGG-
69683 AA
65 AA
* *
69685 AAAGGTGCCACGGAGTTGTGGACTTAAAAAG-AAAAGGTGTCACGGAGTTGTGGACTTAAAAGGA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGTCACGGAGTTGTGGACTTAAAAGGA
69749 A
66 A
* * *
69750 CAAGGTGCCACGGGGTTGTGGACTTAAAAGGAAAAAGAT-TCCACGGAGTTATGGACTTAAAA-G
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGT-CACGGAGTTGTGGACTTAAAAGG
69813 --
65 AA
* * * * *
69813 ---GGTGCCACCGAGTTGTGGACTTAAAAGGAAAAAGTATGCCATGGAGTTGTGGGCTTTAAAAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAG-ATGTCACGGAGTTGTGGAC-TTAAAAG
69875 GAA
64 GAA
* * *
69878 AAAGGTGCCATGGAGTTGTGGACTTAAAAGG-----G-TGCCACAGAGTTGTGGACTTTGAAAA-
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGTCACGGAGTTGTGGAC-TT-AAAAG
69936 GAA
64 GAA
*
69939 AAAGGTGCCACAGAGTTGTGGACTT
1 AAAGGTGCCACGGAGTTGTGGACTT
69964 TGGGAAGAGA
Statistics
Matches: 237, Mismatches: 26, Indels: 33
0.80 0.09 0.11
Matches are distributed among these distances:
60 32 0.14
61 58 0.24
62 37 0.16
63 2 0.01
65 32 0.14
66 50 0.21
68 26 0.11
ACGTcount: A:0.34, C:0.13, G:0.32, T:0.21
Consensus pattern (66 bp):
AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGTCACGGAGTTGTGGACTTAAAAGGA
A
Found at i:69900 original size:95 final size:93
Alignment explanation
Indices: 69654--69963 Score: 370
Period size: 95 Copynumber: 3.2 Consensus size: 93
69644 ACTTACAAGG
* *
69654 GATGCCACGGAGGTGTGGGCTTAAAAGGAAAAAAGGTGCCACGGAGTTGTGGACTTAAAAAGAAA
1 GATGCCACGGAGTTGTGGACTTAAAAGG-AAAAAGGTGCCACGGAGTTGTGGACTT-AAAAG---
* * *
69719 AGGTGTCACGGAGTTGTGGACTTAAAAGGAACAA
61 -GGTGCCACAGAGTTGTGGACTTAAAAGGAAAAA
* * * * *
69753 GGTGCCACGGGGTTGTGGACTTAAAAGGAAAAAGATTCCACGGAGTTATGGACTTAAAAGGGTGC
1 GATGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGC
*
69818 CACCGAGTTGTGGACTTAAAAGGAAAAA
66 CACAGAGTTGTGGACTTAAAAGGAAAAA
* * * *
69846 GTATGCCATGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCATGGAGTTGTGGACTTAAAAGGGT
1 G-ATGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGT
69911 GCCACAGAGTTGTGGACTTTGAAAA-GAAAAA
64 GCCACAGAGTTGTGGAC-TT-AAAAGGAAAAA
* *
69942 GGTGCCACAGAGTTGTGGACTT
1 GATGCCACGGAGTTGTGGACTT
69964 TGGGAAGAGA
Statistics
Matches: 183, Mismatches: 24, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
93 31 0.17
94 17 0.09
95 69 0.38
96 9 0.05
97 9 0.05
98 24 0.13
99 24 0.13
ACGTcount: A:0.34, C:0.13, G:0.32, T:0.21
Consensus pattern (93 bp):
GATGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGC
CACAGAGTTGTGGACTTAAAAGGAAAAA
Found at i:69979 original size:159 final size:155
Alignment explanation
Indices: 69644--69963 Score: 378
Period size: 159 Copynumber: 2.0 Consensus size: 155
69634 GGAATTGTGA
* * * * *
69644 ACTTACAAGGGATGCCACGGAGGTGTGGGCTTAAAAGGAAAAAAGGTGCCACGGAGTTGTGGACT
1 ACTTA-AAAGGATGCCACCGAGTTGTGGACTTAAAAGGAAAAAAGATGCCACGGAGTTGTGGACT
* * *
69709 TAAAAAGAAAAGGTGTCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGGGTTGTGGACT
65 TAAAAAGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG----AGGTGCCACAGAGTTGTGGACT
* *
69774 TAAAAGGAAAAAGATTCCACGGAGTTATGG
126 TAAAAGGAAAAAGATGCCACAGAGTTATGG
* * *
69804 ACTTAAAAGGGTGCCACCGAGTTGTGGACTTAAAAGG-AAAAAGTATGCCATGGAGTTGTGGGCT
1 ACTTAAAAGGATGCCACCGAGTTGTGGACTTAAAAGGAAAAAAG-ATGCCACGGAGTTGTGGAC-
*
69868 TTAAAAAGAAAAAGGTGCCATGGAGTTGTGGACTTAAAA-G-GGTGCCACAGAGTTGTGGACTTT
64 TTAAAAAG-AAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAGGTGCCACAGAGTTGTGGAC-TT
* *
69931 GAAAA-GAAAAAGGTGCCACAGAGTTGTGG
127 -AAAAGGAAAAAGATGCCACAGAGTTATGG
69960 ACTT
1 ACTT
69964 TGGGAAGAGA
Statistics
Matches: 139, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
155 18 0.13
156 26 0.19
157 4 0.03
158 6 0.04
159 43 0.31
160 14 0.10
161 28 0.20
ACGTcount: A:0.34, C:0.13, G:0.32, T:0.21
Consensus pattern (155 bp):
ACTTAAAAGGATGCCACCGAGTTGTGGACTTAAAAGGAAAAAAGATGCCACGGAGTTGTGGACTT
AAAAAGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAGGTGCCACAGAGTTGTGGACTTAAAA
GGAAAAAGATGCCACAGAGTTATGG
Found at i:70009 original size:61 final size:60
Alignment explanation
Indices: 69944--70283 Score: 335
Period size: 61 Copynumber: 5.5 Consensus size: 60
69934 AAGAAAAAGG
* * * *
69944 TGCCACAGAGTTGTGGACTTTGGGAAGAGATGCCACTGAGTCATGGACTTTGAGAAGAGTT
1 TGCCACAGAGTCGTGGACTTTGAGAAGAGATGCCACTGAGTCGTGGACTTTGAGAAGAG-A
* *
70005 TGCCACTA-AGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGGGAAGAGA
1 TGCCAC-AGAGTCGTGGACTTTG-AGAAGAGATGCCACTGAGTCGTGGACTTTGAGAAGAGA
* * * * *
70066 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAAGATGCCACTGAGTTGTGGACTTGGAAGAAAAGG
1 TGCCACAGAGTCGTGGACTTTG-AG---AAGAGATGCCACTGAGTCGTGGACTTTG-AGAAGA-G
70131 A
60 A
* * * * * *
70132 TGCCACTA-AGTCATGGACATAGAAAAGAGATGCCACTGAGTTGTGGACTTTGAAGAAAAGA
1 TGCCAC-AGAGTCGTGGACTTTGAGAAGAGATGCCACTGAGTCGTGGACTTTG-AGAAGAGA
* * * * *
70193 TGCCACTGAGTCGTGGACTTTGGGATA-AGATGCCACTGAATCATGGGCTTTGAGAAGAGA
1 TGCCACAGAGTCGTGGACTTTGAGA-AGAGATGCCACTGAGTCGTGGACTTTGAGAAGAGA
*
70253 TTGCCACTGAGTCGTGGACTTTGAGAAGAGA
1 -TGCCACAGAGTCGTGGACTTTGAGAAGAGA
70284 GATTTGAAGA
Statistics
Matches: 236, Mismatches: 30, Indels: 26
0.81 0.10 0.09
Matches are distributed among these distances:
60 8 0.03
61 110 0.47
62 68 0.29
64 26 0.11
65 5 0.02
66 19 0.08
ACGTcount: A:0.31, C:0.15, G:0.31, T:0.24
Consensus pattern (60 bp):
TGCCACAGAGTCGTGGACTTTGAGAAGAGATGCCACTGAGTCGTGGACTTTGAGAAGAGA
Found at i:70022 original size:31 final size:30
Alignment explanation
Indices: 69944--70283 Score: 367
Period size: 31 Copynumber: 11.0 Consensus size: 30
69934 AAGAAAAAGG
* * *
69944 TGCCACAGAGTTGTGGACTTTGGGAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGA
* *
69974 TGCCACTGAGTCATGGACTTTGAGAAGAGTT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAG-A
* *
70005 TGCCACTAAGTCGTGGACTTTGAAGAAAAGA
1 TGCCACTGAGTCGTGGACTTTG-AGAAGAGA
*
70036 TGCCACTGAGTCGTGGACTTTGGGAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGA
*
70066 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAAGA
1 TGCCACTGAGTCGTGGACTTTG-AG---AAGAGA
* * *
70100 TGCCACTGAGTTGTGGACTTGGAAGAAAAGGA
1 TGCCACTGAGTCGTGGACTTTG-AGAAGA-GA
* * * * *
70132 TGCCACTAAGTCATGGACATAGAAAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGA
* *
70162 TGCCACTGAGTTGTGGACTTTGAAGAAAAGA
1 TGCCACTGAGTCGTGGACTTTG-AGAAGAGA
*
70193 TGCCACTGAGTCGTGGACTTTGGGATA-AGA
1 TGCCACTGAGTCGTGGACTTTGAGA-AGAGA
* * *
70223 TGCCACTGAATCATGGGCTTTGAGAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGA
70253 TTGCCACTGAGTCGTGGACTTTGAGAAGAGA
1 -TGCCACTGAGTCGTGGACTTTGAGAAGAGA
70284 GATTTGAAGA
Statistics
Matches: 260, Mismatches: 39, Indels: 21
0.81 0.12 0.07
Matches are distributed among these distances:
29 1 0.00
30 101 0.39
31 105 0.40
32 25 0.10
34 28 0.11
ACGTcount: A:0.31, C:0.15, G:0.31, T:0.24
Consensus pattern (30 bp):
TGCCACTGAGTCGTGGACTTTGAGAAGAGA
Found at i:71568 original size:17 final size:17
Alignment explanation
Indices: 71548--71587 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
71538 TTTGCACTTT
*
71548 TTTTTGTGTGTTTTTTG
1 TTTTTGTATGTTTTTTG
*
71565 TTTTTGTATTTTTTTTG
1 TTTTTGTATGTTTTTTG
71582 TGTTTT
1 T-TTTT
71588 TACTTTTGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.03, C:0.00, G:0.17, T:0.80
Consensus pattern (17 bp):
TTTTTGTATGTTTTTTG
Found at i:71602 original size:26 final size:28
Alignment explanation
Indices: 71538--71602 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 28
71528 TGATTTTGCC
**
71538 TTTGCACTTTTTTTTGTGTGTTTTTTGTT
1 TTTG-ACTTTTTTTTGTGTGTTTTTTACT
71567 TTTG--TATTTTTTT-TGTG-TTTTTACT
1 TTTGACT-TTTTTTTGTGTGTTTTTTACT
71592 TTTGACTTTTT
1 TTTGACTTTTT
71603 CATCATTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
25 10 0.32
26 9 0.29
27 8 0.26
29 4 0.13
ACGTcount: A:0.06, C:0.06, G:0.14, T:0.74
Consensus pattern (28 bp):
TTTGACTTTTTTTTGTGTGTTTTTTACT
Found at i:80080 original size:28 final size:28
Alignment explanation
Indices: 80048--80104 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
80038 AGGTATCAAT
**
80048 ACATTTCATGGATTTGTATCGATACACA
1 ACATTTCATCAATTTGTATCGATACACA
80076 ACATTTCATCAATTTGTATCGATACACA
1 ACATTTCATCAATTTGTATCGATACACA
80104 A
1 A
80105 GCTTGTGTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.35
Consensus pattern (28 bp):
ACATTTCATCAATTTGTATCGATACACA
Found at i:80933 original size:16 final size:17
Alignment explanation
Indices: 80901--80940 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
80891 AAATTAAAAC
80901 TAAATAAAATAAAATAA
1 TAAATAAAATAAAATAA
*
80918 TAAATAAAGT-AAATAA
1 TAAATAAAATAAAATAA
80934 TAAATAA
1 TAAATAA
80941 TAAAAGCCGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (17 bp):
TAAATAAAATAAAATAA
Found at i:83469 original size:18 final size:18
Alignment explanation
Indices: 83448--83493 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
83438 TTTTTGCTTA
83448 TTTTTCATTTTTCCATG-
1 TTTTTCATTTTTCCATGC
83465 TTTTTCCATTTTTCCATGC
1 TTTTT-CATTTTTCCATGC
*
83484 TTTCTCATTT
1 TTTTTCATTT
83494 AATGTTCTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 5 0.19
18 17 0.65
19 4 0.15
ACGTcount: A:0.11, C:0.22, G:0.04, T:0.63
Consensus pattern (18 bp):
TTTTTCATTTTTCCATGC
Found at i:85075 original size:20 final size:20
Alignment explanation
Indices: 85050--85122 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
85040 GATGACATTG
85050 GCATTTGCATCGTATCATGT
1 GCATTTGCATCGTATCATGT
* * *
85070 GCATTTGCCTCTTTATTGATGTTT
1 GCATTTGCATC-GTA-TCATG--T
*
85094 GCATTTGCATCGTTTCATGT
1 GCATTTGCATCGTATCATGT
*
85114 ACATTTGCA
1 GCATTTGCA
85123 CATTAGATGA
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
20 19 0.46
21 2 0.05
22 8 0.20
23 1 0.02
24 11 0.27
ACGTcount: A:0.18, C:0.19, G:0.18, T:0.45
Consensus pattern (20 bp):
GCATTTGCATCGTATCATGT
Found at i:85097 original size:88 final size:88
Alignment explanation
Indices: 84828--85198 Score: 422
Period size: 88 Copynumber: 4.2 Consensus size: 88
84818 GGTATCTACA
* * * * * *
84828 CTTGTATTTACATCATTTCACGCACATTTGTACTTAAGATGACATTGGCATTTGCATCATATCAT
1 CTTGCATTTGCATCATTTCATGCACATCTGCACTTTAGATGACATTGGCATTTGCATCATATCAT
*
84893 GTGCATTTGCCT-TACTATTGATG
66 GTGCATTTGCCTCT-TTATTGATG
* * * * * * *
84916 CTTGCGTTTGCATTATTTCATGCACATCTGCACTTTGGATGATAATGGCA-TTACATCGTATCAT
1 CTTGCATTTGCATCATTTCATGCACATCTGCACTTTAGATGACATTGGCATTTGCATCATATCAT
*
84980 GTGCATTTTCCTCTTTATTGATG
66 GTGCATTTGCCTCTTTATTGATG
* * *
85003 CTTGCATTTGCATCATTTCATGCATATCTGTACTTTAGATGACATTGGCATTTGCATCGTATCAT
1 CTTGCATTTGCATCATTTCATGCACATCTGCACTTTAGATGACATTGGCATTTGCATCATATCAT
85068 GTGCATTTGCCTCTTTATTGATG
66 GTGCATTTGCCTCTTTATTGATG
* * * * * * * * *
85091 TTTGCATTTGCATCGTTTCATGTACATTTGCACATTAGATGATATTGGTATTTGCATTATTTCAT
1 CTTGCATTTGCATCATTTCATGCACATCTGCACTTTAGATGACATTGGCATTTGCATCATATCAT
* * * *
85156 ATGAATTTCCCACTTTATTGATG
66 GTGCATTTGCCTCTTTATTGATG
* *
85179 CTTGCATTTACATCGTTTCA
1 CTTGCATTTGCATCATTTCA
85199 CATGCATTTG
Statistics
Matches: 239, Mismatches: 42, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
87 74 0.31
88 165 0.69
ACGTcount: A:0.22, C:0.19, G:0.16, T:0.43
Consensus pattern (88 bp):
CTTGCATTTGCATCATTTCATGCACATCTGCACTTTAGATGACATTGGCATTTGCATCATATCAT
GTGCATTTGCCTCTTTATTGATG
Found at i:85134 original size:175 final size:176
Alignment explanation
Indices: 84828--85199 Score: 478
Period size: 175 Copynumber: 2.1 Consensus size: 176
84818 GGTATCTACA
* *
84828 CTTGTATTTACATCATTTCACGCACATTTGTACTTAAGATGACATTGGCATTTGCATCATATCAT
1 CTTGCATTTACATCATTTCACGCACATCTGTACTTAAGATGACATTGGCATTTGCATCATATCAT
* * * *
84893 GTGCATTTGCCTTACTATTGATGCTTGCGTTTGCATTATTTCATGCACATCTGCACTTTGGATGA
66 GTGCATTTGCCTTACTATTGATGCTTGCATTTGCATCATTTCATGCACATCTGCACATTAGATGA
* * * * *
84958 TAATGGCA-TTACATCGTATCATGTGCATTTTCCTCTTTATTGATG
131 TAATGGCATTTACATCATATCATATGAATTTCCCACTTTATTGATG
* * * * *
85003 CTTGCATTTGCATCATTTCATGCATATCTGTACTTTAGATGACATTGGCATTTGCATCGTATCAT
1 CTTGCATTTACATCATTTCACGCACATCTGTACTTAAGATGACATTGGCATTTGCATCATATCAT
* * * * *
85068 GTGCATTTGCCTCT-TTATTGATGTTTGCATTTGCATCGTTTCATGTACATTTGCACATTAGATG
66 GTGCATTTGCCT-TACTATTGATGCTTGCATTTGCATCATTTCATGCACATCTGCACATTAGATG
* * * * *
85132 ATATTGGTATTTGCATTATTTCATATGAATTTCCCACTTTATTGATG
130 ATAATGGCATTTACATCATATCATATGAATTTCCCACTTTATTGATG
*
85179 CTTGCATTTACATCGTTTCAC
1 CTTGCATTTACATCATTTCAC
85200 ATGCATTTGC
Statistics
Matches: 166, Mismatches: 29, Indels: 3
0.84 0.15 0.02
Matches are distributed among these distances:
175 118 0.71
176 48 0.29
ACGTcount: A:0.22, C:0.19, G:0.16, T:0.43
Consensus pattern (176 bp):
CTTGCATTTACATCATTTCACGCACATCTGTACTTAAGATGACATTGGCATTTGCATCATATCAT
GTGCATTTGCCTTACTATTGATGCTTGCATTTGCATCATTTCATGCACATCTGCACATTAGATGA
TAATGGCATTTACATCATATCATATGAATTTCCCACTTTATTGATG
Found at i:85144 original size:44 final size:44
Alignment explanation
Indices: 84833--85147 Score: 167
Period size: 44 Copynumber: 7.2 Consensus size: 44
84823 CTACACTTGT
* * * * * * *
84833 ATTTACATCATTTCACGCACATTTGTACTTAAGATGACATTGGC
1 ATTTGCATCGTTTCATGTACATTTGCACTTTAGATGATATTGGC
* * * * *
84877 ATTTGCATCATATCATGTGCATTTGC-CTTACTA-TTGATGCTT-GC
1 ATTTGCATCGTTTCATGTACATTTGCACTT--TAGATGAT-ATTGGC
* ** * * * *
84921 GTTTGCATTATTTCATGCACATCTGCACTTTGGATGATAATGGC
1 ATTTGCATCGTTTCATGTACATTTGCACTTTAGATGATATTGGC
* * * * * * *
84965 A-TTACATCGTATCATGTGCATTTTCCTCTTTA-TTGATGCTT-GC
1 ATTTGCATCGTTTCATGTACA-TTTGCACTTTAGATGAT-ATTGGC
* * * * * *
85008 ATTTGCATCATTTCATGCATATCTGTACTTTAGATGACATTGGC
1 ATTTGCATCGTTTCATGTACATTTGCACTTTAGATGATATTGGC
* * * * * *
85052 ATTTGCATCGTATCATGTGCATTTGCCTCTTTA-TTGATGTTTGC
1 ATTTGCATCGTTTCATGTACATTTG-CACTTTAGATGATATTGGC
* *
85096 ATTTGCATCGTTTCATGTACATTTGCACATTAGATGATATTGGT
1 ATTTGCATCGTTTCATGTACATTTGCACTTTAGATGATATTGGC
85140 ATTTGCAT
1 ATTTGCAT
85148 TATTTCATAT
Statistics
Matches: 191, Mismatches: 67, Indels: 26
0.67 0.24 0.09
Matches are distributed among these distances:
43 39 0.20
44 141 0.74
45 11 0.06
ACGTcount: A:0.23, C:0.18, G:0.17, T:0.43
Consensus pattern (44 bp):
ATTTGCATCGTTTCATGTACATTTGCACTTTAGATGATATTGGC
Found at i:85732 original size:59 final size:60
Alignment explanation
Indices: 85638--86540 Score: 613
Period size: 59 Copynumber: 15.2 Consensus size: 60
85628 ATCTATATAT
* * *
85638 AGTCATTG-TTAGGTTTCTGGTTTTATCCAGACCATTTAGTTGAGTCTTGGTTTCATCCA
1 AGTCATTGTTTAGGTTTCTGGTTTTATCCAGGCCATTTAGTTGAGTCTTGGTTTTACCCA
* * * * * *
85697 TGTCATTGTTTAAGTTTCTAG-TTTATCTAGGCCATTCAATTGAGTCTTGGTTTTACCCA
1 AGTCATTGTTTAGGTTTCTGGTTTTATCCAGGCCATTTAGTTGAGTCTTGGTTTTACCCA
* * * * * * * **
85756 AGTTA-T-TTTAGGTTTTTGGTTTTATCTAGACTATTTAGTTAAGTCTCGAATTTACCCA
1 AGTCATTGTTTAGGTTTCTGGTTTTATCCAGGCCATTTAGTTGAGTCTTGGTTTTACCCA
* ** *
85814 A-TCATTGTTTAGGTTTTTGGTTTTATCCAGGCCATTTCTTTAAGTCTTGGTTTTA-CCA
1 AGTCATTGTTTAGGTTTCTGGTTTTATCCAGGCCATTTAGTTGAGTCTTGGTTTTACCCA
* * * * ***
85872 AGTCATTGTTTAGGTTTTTGGTTTTATTCAAGCCATTTATTTGAGTCTTGGTTTCGTCC-
1 AGTCATTGTTTAGGTTTCTGGTTTTATCCAGGCCATTTAGTTGAGTCTTGGTTTTACCCA
* * * * *
85931 A---ATTGTTTAGTTTTCTGGTTTCATCTAGGCCATTTTGTTGAGTCTTGGTTTTGCCCA
1 AGTCATTGTTTAGGTTTCTGGTTTTATCCAGGCCATTTAGTTGAGTCTTGGTTTTACCCA
* * * * * * * *
85988 AGTCATTATTTAGGTTTTTTGGTTTTGTCCAGGCCATTTTGTTGAGTCTTTGTTATGCCTA
1 AGTCATTGTTTAGG-TTTCTGGTTTTATCCAGGCCATTTAGTTGAGTCTTGGTTTTACCCA
* * * * * * * *
86049 AGTCATTATTTAAGTTTCTGGTTTTGTCCA-ACCATTTTGTTGAGTTTTAGTTTTGCCCTA
1 AGTCATTGTTTAGGTTTCTGGTTTTATCCAGGCCATTTAGTTGAGTCTTGGTTTTACCC-A
* ** * * * **
86109 AGTCATT-ATTAGGTTTCCAGCTTTATCTAGGCCATTTTCTTAAGTCAGAGTCTTAATTTTACCC
1 AGTCATTGTTTAGGTTTCTGGTTTTATCCAGGCCA---T-TT-AGT-TGAGTCTTGGTTTTACCC
86173 A
60 A
* * * * ** * * * *
86174 CGTCGTTGTTTAGGTTTTTGGTTTTACCCAGGCCATTTCTTTTAGTGTTAGTTTCACCCA
1 AGTCATTGTTTAGGTTTCTGGTTTTATCCAGGCCATTTAGTTGAGTCTTGGTTTTACCCA
* * ** * * *
86234 AGTCATTGTCTAAGTTT-TGGGTTTGGTCTAGGACATTT-GTTGAGTCTTGGTTTTGCCCA
1 AGTCATTGTTTAGGTTTCT-GGTTTTATCCAGGCCATTTAGTTGAGTCTTGGTTTTACCCA
* * * * * * *
86293 AGTCATTGTTTAAGTTT-TGGTTTCATCGAGGTCC-TTTTGTTGAATCTTGGTTTTATCTA
1 AGTCATTGTTTAGGTTTCTGGTTTTATCCAGG-CCATTTAGTTGAGTCTTGGTTTTACCCA
** * * * * * *
86352 AGTCATTACTTAGTTTTCTAGTTTCATCCAAGCCA-TTATGTTGAGTTTTGGTTTTGCCCTA
1 AGTCATTGTTTAGGTTTCTGGTTTTATCCAGGCCATTTA-GTTGAGTCTTGGTTTTACCC-A
*** ** * **
86413 AGTCATTG-TTAGGTTT-TTAATTTATCCAAACCATTTCGTTGAGTCTTGGTTACACCCA
1 AGTCATTGTTTAGGTTTCTGGTTTTATCCAGGCCATTTAGTTGAGTCTTGGTTTTACCCA
* * * ** * *
86471 AGTCATCG-TTAGGTTTCTAGTTTTAACCAGGCCATTTCCTCGAGTCTTGGTTTCACCCA
1 AGTCATTGTTTAGGTTTCTGGTTTTATCCAGGCCATTTAGTTGAGTCTTGGTTTTACCCA
86530 AGTCATTGTTT
1 AGTCATTGTTT
86541 TAAGTTCTGT
Statistics
Matches: 662, Mismatches: 152, Indels: 59
0.76 0.17 0.07
Matches are distributed among these distances:
56 45 0.07
57 13 0.02
58 66 0.10
59 305 0.46
60 124 0.19
61 61 0.09
62 2 0.00
63 2 0.00
64 2 0.00
65 8 0.01
66 34 0.05
ACGTcount: A:0.18, C:0.16, G:0.19, T:0.47
Consensus pattern (60 bp):
AGTCATTGTTTAGGTTTCTGGTTTTATCCAGGCCATTTAGTTGAGTCTTGGTTTTACCCA
Found at i:85860 original size:117 final size:117
Alignment explanation
Indices: 85638--86540 Score: 463
Period size: 117 Copynumber: 7.6 Consensus size: 117
85628 ATCTATATAT
* * * * *
85638 AGTCATT-GTTAGGTTTCTGGTTTTATCCAGACCATTTAGTTGAGTCTTGGTTTCATCCATGTCA
1 AGTCATTATTTAGGTTTTTGGTTTTATCAAGACCATTTAGTTGAGTCTTGGTTT-ACCCA-ATCA
* * *
85702 TTGTTTAAGTTTCTAG-TTTATCTAGGCCA-TTCAATTGAGTCTTGGTTTTACCCA
64 TTGTTT-AGTTTTTGGTTTTATCTAGGCCATTTC-TTTGAGTCTTGGTTTTACCCA
* * * * * *
85756 AGTTA-T-TTTAGGTTTTTGGTTTTATCTAGACTATTTAGTTAAGTCTCGAATTTACCCAATCAT
1 AGTCATTATTTAGGTTTTTGGTTTTATCAAGACCATTTAGTTGAGTCTTG-GTTTACCCAATCAT
* *
85819 TGTTTAGGTTTTTGGTTTTATCCAGGCCATTTCTTTAAGTCTTGGTTTTA-CCA
65 TGTTTA-GTTTTTGGTTTTATCTAGGCCATTTCTTTGAGTCTTGGTTTTACCCA
* *
85872 AGTCATTGTTTAGGTTTTTGGTTTTATTCAAG-CCATTTATTTGAGTCTTGGTTT-CGTCC-A--
1 AGTCATTATTTAGGTTTTTGGTTTTA-TCAAGACCATTTAGTTGAGTCTTGGTTTAC--CCAATC
* *
85932 ATTGTTTAGTTTTCTGGTTTCATCTAGGCCATTT-TGTTGAGTCTTGGTTTTGCCCA
63 ATTGTTTAGTTTT-TGGTTTTATCTAGGCCATTTCT-TTGAGTCTTGGTTTTACCCA
* * * * * * *
85988 AGTCATTATTTAGGTTTTTTGGTTTTGTCCAGGCCATTTTGTTGAGTCTTTGTTATGCCTAAGTC
1 AGTCATTATTTAGG-TTTTTGGTTTTATCAAGACCATTTAGTTGAGTCTTGGTT-TACCCAA-TC
* * * * * * * *
86053 ATTATTTAAGTTTCTGGTTTTGTCCA-ACCATTT-TGTTGAGTTTTAGTTTTGCCCTA
63 ATTGTTT-AGTTTTTGGTTTTATCTAGGCCATTTCT-TTGAGTCTTGGTTTTACCC-A
*** * * * * **
86109 AGTCATTA-TTAGGTTTCCAGCTTTATCTAGGCCATTTTCTTAAGTCAGAGTCTTAATTTTACCC
1 AGTCATTATTTAGGTTTTTGGTTTTATCAAGACCA---T-TT-AGT-TGAGTCTT-GGTTTACCC
* * * * * * * *
86173 ACGTCGTTGTTTAGGTTTTTGGTTTTACCCAGGCCATTTCTTTTAGTGTTAGTTTCACCCA
59 A-ATCATTGTTTA-GTTTTTGGTTTTATCTAGGCCATTTCTTTGAGTCTTGGTTTTACCCA
* * * * ** * *
86234 AGTCATTGTCTAAGTTTTGGGTTTGGTCTAGGA-CATTT-GTTGAGTCTTGGTTTTGCCCAAGTC
1 AGTCATTATTTAGGTTTTTGGTTTTATC-AAGACCATTTAGTTGAGTCTTGG-TTTACCCAA-TC
* * * * *
86297 ATTGTTTAAG-TTTTGGTTTCATCGAGGTCC-TTT-TGTTGAATCTTGGTTTTATCTA
63 ATTGTTT-AGTTTTTGGTTTTATCTAGG-CCATTTCT-TTGAGTCTTGGTTTTACCCA
* * * * *
86352 AGTCATTACTTA-GTTTTCTAGTTTCATCCAAG-CCA-TTATGTTGAGTTTTGGTTTTGCCCTAA
1 AGTCATTATTTAGGTTTT-TGGTTTTAT-CAAGACCATTTA-GTTGAGTCTTGG-TTTACCC-AA
** * ** * **
86414 GTCATTG-TTAGGTTTTT-AATTTATCCAAACCATTTCGTTGAGTCTTGGTTACACCCA
61 -TCATTGTTTA-GTTTTTGGTTTTATCTAGGCCATTTCTTTGAGTCTTGGTTTTACCCA
** * * * * * ** *
86471 AGTCA-TCGTTAGGTTTCTAGTTTTAACCAGGCCATTTCCTCGAGTCTTGGTTTCACCCAAGTCA
1 AGTCATTATTTAGGTTTTTGGTTTTATCAAGACCATTTAGTTGAGTCTTGGTTT-ACCCAA-TCA
86535 TTGTTT
64 TTGTTT
86541 TAAGTTCTGT
Statistics
Matches: 606, Mismatches: 124, Indels: 110
0.72 0.15 0.13
Matches are distributed among these distances:
114 6 0.01
115 41 0.07
116 43 0.07
117 126 0.21
118 125 0.21
119 103 0.17
120 46 0.08
121 24 0.04
122 8 0.01
123 3 0.00
124 3 0.00
125 40 0.07
126 36 0.06
127 2 0.00
ACGTcount: A:0.18, C:0.16, G:0.19, T:0.47
Consensus pattern (117 bp):
AGTCATTATTTAGGTTTTTGGTTTTATCAAGACCATTTAGTTGAGTCTTGGTTTACCCAATCATT
GTTTAGTTTTTGGTTTTATCTAGGCCATTTCTTTGAGTCTTGGTTTTACCCA
Found at i:85864 original size:30 final size:30
Alignment explanation
Indices: 85830--85925 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
85820 GTTTAGGTTT
* *
85830 TTGGTTTTATCCAGGCCATTTCTTTAAGTC
1 TTGGTTTTATCCAAGCCATTTATTTAAGTC
* * * *
85860 TTGGTTTTA-CCAAGTCA-TTGTTTAGGTTT
1 TTGGTTTTATCCAAGCCATTTATTTAAG-TC
* *
85889 TTGGTTTTATTCAAGCCATTTATTTGAGTC
1 TTGGTTTTATCCAAGCCATTTATTTAAGTC
85919 TTGGTTT
1 TTGGTTT
85926 CGTCCAATTG
Statistics
Matches: 52, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
28 7 0.13
29 16 0.31
30 23 0.44
31 6 0.12
ACGTcount: A:0.17, C:0.14, G:0.19, T:0.51
Consensus pattern (30 bp):
TTGGTTTTATCCAAGCCATTTATTTAAGTC
Found at i:85893 original size:29 final size:30
Alignment explanation
Indices: 85806--85897 Score: 100
Period size: 29 Copynumber: 3.1 Consensus size: 30
85796 AAGTCTCGAA
85806 TTTACCCAA-TCATTGTTTAGGTTTTTGGT
1 TTTACCCAAGTCATTGTTTAGGTTTTTGGT
* * * * * *
85835 TTTATCCAGGCCATTTCTTTAAG-TCTTGGT
1 TTTACCCAAGTCA-TTGTTTAGGTTTTTGGT
85865 TTTA-CCAAGTCATTGTTTAGGTTTTTGGT
1 TTTACCCAAGTCATTGTTTAGGTTTTTGGT
85894 TTTA
1 TTTA
85898 TTCAAGCCAT
Statistics
Matches: 49, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
28 7 0.14
29 23 0.47
30 12 0.24
31 7 0.14
ACGTcount: A:0.17, C:0.14, G:0.17, T:0.51
Consensus pattern (30 bp):
TTTACCCAAGTCATTGTTTAGGTTTTTGGT
Found at i:86109 original size:60 final size:61
Alignment explanation
Indices: 85939--86118 Score: 224
Period size: 61 Copynumber: 3.0 Consensus size: 61
85929 CCAATTGTTT
** * * *
85939 AGTTTTCTGGTTTCATCTAGGCCATTTTGTTGAGTCTTGGTTTTGCCC-AAGTCATTATTTA
1 AGTTTTCTGGTTTTGTCCAGACCATTTTGTTGAGT-TTTGTTTTGCCCTAAGTCATTATTTA
* * * *
86000 GGTTTTTTGGTTTTGTCCAGGCCATTTTGTTGAGTCTTTGTTATG-CCTAAGTCATTATTTA
1 AGTTTTCTGGTTTTGTCCAGACCATTTTGTTGAGT-TTTGTTTTGCCCTAAGTCATTATTTA
86061 AG-TTTCTGGTTTTGTCCA-ACCATTTTGTTGAGTTTTAGTTTTGCCCTAAGTCATTATT
1 AGTTTTCTGGTTTTGTCCAGACCATTTTGTTGAGTTTT-GTTTTGCCCTAAGTCATTATT
86119 AGGTTTCCAG
Statistics
Matches: 105, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
58 3 0.03
59 19 0.18
60 31 0.30
61 52 0.50
ACGTcount: A:0.16, C:0.15, G:0.19, T:0.49
Consensus pattern (61 bp):
AGTTTTCTGGTTTTGTCCAGACCATTTTGTTGAGTTTTGTTTTGCCCTAAGTCATTATTTA
Found at i:86312 original size:29 final size:29
Alignment explanation
Indices: 86230--86315 Score: 75
Period size: 29 Copynumber: 2.9 Consensus size: 29
86220 GTTAGTTTCA
*
86230 CCCAAGTCATTGTCTAAGTTTTGGGTTTGG
1 CCCAAGTCATTGTTTAAGTTTT-GGTTTGG
* * * * * * *
86260 TCTAGGACATT-TGTTGAGTCTTGGTTTTG
1 CCCAAGTCATTGT-TTAAGTTTTGGTTTGG
86289 CCCAAGTCATTGTTTAAGTTTTGGTTT
1 CCCAAGTCATTGTTTAAGTTTTGGTTT
86316 CATCGAGGTC
Statistics
Matches: 40, Mismatches: 14, Indels: 5
0.68 0.24 0.08
Matches are distributed among these distances:
29 26 0.65
30 14 0.35
ACGTcount: A:0.16, C:0.14, G:0.24, T:0.45
Consensus pattern (29 bp):
CCCAAGTCATTGTTTAAGTTTTGGTTTGG
Found at i:86735 original size:47 final size:47
Alignment explanation
Indices: 86659--86752 Score: 125
Period size: 47 Copynumber: 2.0 Consensus size: 47
86649 AAAACTGTAG
* *
86659 AAACCACATATTCCCTATCATATTTTTCTTCTTCAGCTGGTTATCAA
1 AAACCACATATTCCCTATCATATTCTTCTTCTTCAGCTCGTTATCAA
* ** * *
86706 AAACCACATCTTCTTTATCATGTTCTTCTTCTTTAGCTCGTTATCAA
1 AAACCACATATTCCCTATCATATTCTTCTTCTTCAGCTCGTTATCAA
86753 TGTGTTTTAG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 40 1.00
ACGTcount: A:0.26, C:0.26, G:0.06, T:0.43
Consensus pattern (47 bp):
AAACCACATATTCCCTATCATATTCTTCTTCTTCAGCTCGTTATCAA
Found at i:86833 original size:74 final size:74
Alignment explanation
Indices: 86722--87033 Score: 367
Period size: 74 Copynumber: 4.2 Consensus size: 74
86712 CATCTTCTTT
* * *
86722 ATCATGTTCTTCTTCTTTAGCTCGTTATCAATGTGTTTTAGTTGTTGTTGGAAAATTATAACCAC
1 ATCATGTTCTTCTTCTTTAGCTCGTTATCAATTTGTTTCAGTTATTGTTGGAAAATTATAACCAC
86787 ATATTCCCC
66 ATATTCCCC
* * ** * * *
86796 ATCATGTTCTTCCTCTTTTGCTTATTATCAATTTGTTTCGGCTATTGTTGGGAAATTATAACCAC
1 ATCATGTTCTTCTTCTTTAGCTCGTTATCAATTTGTTTCAGTTATTGTTGGAAAATTATAACCAC
86861 ATATTCCCC
66 ATATTCCCC
* ** *
86870 ATCATGTTCTTTTTCTTTAGCTCGTTATCAATTTGTTTTGGTTATTATTAGG-AAATTATAACCA
1 ATCATGTTCTTCTTCTTTAGCTCGTTATCAATTTGTTTCAGTTATTGTT-GGAAAATTATAACCA
*
86934 CATATTCTCC
65 CATATTCCCC
* * * * *
86944 ATCATGTTTTTTTCTTCTTCAGCTCGTTATTAGTTTGTCTCA-TCTATTGTTGGAAAATTATAAC
1 ATCATG--TTCTTCTTCTTTAGCTCGTTATCAATTTGTTTCAGT-TATTGTTGGAAAATTATAAC
*
87008 CACATACTCCCC
63 CACATATTCCCC
**
87020 ATCACATTCTTCTT
1 ATCATGTTCTTCTT
87034 TGGCTTGTTA
Statistics
Matches: 200, Mismatches: 33, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
74 139 0.69
75 5 0.03
76 56 0.28
ACGTcount: A:0.23, C:0.20, G:0.11, T:0.46
Consensus pattern (74 bp):
ATCATGTTCTTCTTCTTTAGCTCGTTATCAATTTGTTTCAGTTATTGTTGGAAAATTATAACCAC
ATATTCCCC
Found at i:88183 original size:65 final size:64
Alignment explanation
Indices: 88114--88275 Score: 191
Period size: 65 Copynumber: 2.5 Consensus size: 64
88104 TTTGCCTTGA
*
88114 TCAACCCTTTTCGACTTAGGTTTCATCTTGGTCA-CTTTTAGTTGACTTTATTAATTTCATCCTA
1 TCAACCCTTTTCGACTTAGGTTTCATCCTGGTCATC-TTTAGTTGACTTTATTAATTTCA-CCTA
88178 G
64 G
* * * * ** * *
88179 TCAACACTTTTCGACTTAGATTCCATCCTGGTCATCTTTAGTTGACTTTGTTGGTTTCACTTGG
1 TCAACCCTTTTCGACTTAGGTTTCATCCTGGTCATCTTTAGTTGACTTTATTAATTTCACCTAG
* * *
88243 TCAACCTTTTTCAACTTAGGTTTCACCCTGGTC
1 TCAACCCTTTTCGACTTAGGTTTCATCCTGGTC
88276 TCAGTTCTTA
Statistics
Matches: 81, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
64 30 0.37
65 50 0.62
66 1 0.01
ACGTcount: A:0.19, C:0.23, G:0.14, T:0.44
Consensus pattern (64 bp):
TCAACCCTTTTCGACTTAGGTTTCATCCTGGTCATCTTTAGTTGACTTTATTAATTTCACCTAG
Found at i:88876 original size:33 final size:33
Alignment explanation
Indices: 88839--88905 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
88829 TTCAACGATT
88839 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
88872 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
88905 T
1 T
88906 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:88877 original size:13 final size:13
Alignment explanation
Indices: 88859--88883 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
88849 CATAAAATGT
88859 TGTATCGATACAA
1 TGTATCGATACAA
88872 TGTATCGATACA
1 TGTATCGATACA
88884 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:88964 original size:13 final size:13
Alignment explanation
Indices: 88946--88970 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
88936 ATTACTCAAA
88946 TGTATCGATACAT
1 TGTATCGATACAT
88959 TGTATCGATACA
1 TGTATCGATACA
88971 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:89072 original size:52 final size:52
Alignment explanation
Indices: 88979--89102 Score: 205
Period size: 52 Copynumber: 2.4 Consensus size: 52
88969 CACTGATCTT
*
88979 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
89030 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
89082 TGTCTCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
89103 CTTTTCATAT
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
51 19 0.28
52 49 0.72
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:93195 original size:10 final size:10
Alignment explanation
Indices: 93180--93206 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
93170 TGCTAACTAA
93180 GTTTTTGTTT
1 GTTTTTGTTT
93190 GTTTTTGTTT
1 GTTTTTGTTT
93200 GTTTTTG
1 GTTTTTG
93207 CTTGATACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.22, T:0.78
Consensus pattern (10 bp):
GTTTTTGTTT
Found at i:102903 original size:1 final size:1
Alignment explanation
Indices: 102897--103003 Score: 70
Period size: 1 Copynumber: 107.0 Consensus size: 1
102887 GGCGTCCTCC
* ** * ** ** * *
102897 AAAAAAAAAAAAAAACAAAAAAAATGAAAAAACAAAAAAAAATGAATGAAAAAAAAAACAAAAGA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * *
102962 AAAAAAAAACAAAAACAATAAAAAAACAAACAAAAACAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
103004 GGGGGTCCGG
Statistics
Matches: 77, Mismatches: 29, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 77 1.00
ACGTcount: A:0.85, C:0.07, G:0.04, T:0.04
Consensus pattern (1 bp):
A
Found at i:102917 original size:16 final size:16
Alignment explanation
Indices: 102896--103003 Score: 94
Period size: 16 Copynumber: 6.7 Consensus size: 16
102886 CGGCGTCCTC
102896 CAAAAAAAAAAAAAAA
1 CAAAAAAAAAAAAAAA
*
102912 CAAAAAAAATGAAAAAA
1 CAAAAAAAA-AAAAAAA
** *
102929 C-AAAAAAAAATGAAT
1 CAAAAAAAAAAAAAAA
* *
102944 GAAAAAAAAAACAAAA
1 CAAAAAAAAAAAAAAA
*
102960 GAAAAAAAAAACAAAAA
1 CAAAAAAAAAA-AAAAA
* *
102977 C-AATAAAAAAACAAA
1 CAAAAAAAAAAAAAAA
102992 CAAAAACAAAAA
1 CAAAAA-AAAAA
103004 GGGGGTCCGG
Statistics
Matches: 73, Mismatches: 14, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
15 8 0.11
16 49 0.67
17 16 0.22
ACGTcount: A:0.84, C:0.08, G:0.04, T:0.04
Consensus pattern (16 bp):
CAAAAAAAAAAAAAAA
Found at i:102919 original size:17 final size:17
Alignment explanation
Indices: 102897--103003 Score: 83
Period size: 17 Copynumber: 6.2 Consensus size: 17
102887 GGCGTCCTCC
102897 AAAAAAAAAAAAAAACA
1 AAAAAAAAAAAAAAACA
**
102914 AAAAAAATGAAAAAACA
1 AAAAAAAAAAAAAAACA
**
102931 AAAAAAAATGAATGAAA-A
1 AAAAAAAA--AAAAAAACA
* *
102949 AAAAAACAAAAGAAA-A
1 AAAAAAAAAAAAAAACA
* * *
102965 AAAAAACAAAAACAATA
1 AAAAAAAAAAAAAAACA
*
102982 AAAAAACAAACAAAAACA
1 AAAAAA-AAAAAAAAACA
103000 AAAA
1 AAAA
103004 GGGGGTCCGG
Statistics
Matches: 72, Mismatches: 14, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
16 20 0.28
17 29 0.40
18 19 0.26
19 4 0.06
ACGTcount: A:0.85, C:0.07, G:0.04, T:0.04
Consensus pattern (17 bp):
AAAAAAAAAAAAAAACA
Found at i:104500 original size:30 final size:28
Alignment explanation
Indices: 104445--104700 Score: 235
Period size: 30 Copynumber: 8.8 Consensus size: 28
104435 TCACCCTTCA
* *
104445 AAAGTCCACAAGTCAGTGGCATTTTTTTC
1 AAAGCCCACAAGTCAGTGGCA-ATTTTTC
* *
104474 AAAGCCCACAAGTCGGTGGCATTTTTTTC
1 AAAGCCCACAAGTCAGTGGCA-ATTTTTC
** *
104503 GAAAGCCCACAAGTCAGTGGCAACCTTTA
1 -AAAGCCCACAAGTCAGTGGCAATTTTTC
* ** *
104532 AAAGCCCACAAGTTAGTGGCACCCTGTTC
1 AAAGCCCACAAGTCAGTGGCA-ATTTTTC
104561 AAAAGCCCACAAGTCAGTGGCATATTTTTC
1 -AAAGCCCACAAGTCAGTGGCA-ATTTTTC
** *
104591 AAAAGCCCACAAGTCAGTGGCAACCTTTA
1 -AAAGCCCACAAGTCAGTGGCAATTTTTC
*
104620 AAAGCCCACAAGTCAGTGGCAA-TCTTC
1 AAAGCCCACAAGTCAGTGGCAATTTTTC
* * *
104647 AAAGCCCACAAATCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCA--ATTTTTC
*
104677 AAAGCCCACACAAGTCGGTGGCAA
1 AAAG-CC-CACAAGTCAGTGGCAA
104701 CCCTTCTAAG
Statistics
Matches: 189, Mismatches: 30, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
27 22 0.12
28 42 0.22
29 37 0.20
30 73 0.39
31 2 0.01
32 13 0.07
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.22
Consensus pattern (28 bp):
AAAGCCCACAAGTCAGTGGCAATTTTTC
Found at i:104551 original size:58 final size:58
Alignment explanation
Indices: 104441--104700 Score: 292
Period size: 58 Copynumber: 4.4 Consensus size: 58
104431 TTCATCACCC
* * * * * ***
104441 TTCAAAAGTCCACAAGTCAGTGGCATTTTTTTCAAAGCCCACAAGTCGGTGGCATTTTT
1 TTCAAAAGCCCACAAGTCAGTGGCA-ATCTTTAAAAGCCCACAAGTCAGTGGCACCCTT
* * * *
104500 TTCGAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTTAGTGGCACCCTG
1 TTCAAAAGCCCACAAGTCAGTGGCAATCTTTAAAAGCCCACAAGTCAGTGGCACCCTT
* *
104558 TTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCAACC-T
1 TTCAAAAGCCCACAAGTCAGTGGCA-ATCTTT-AAAAGCCCACAAGTCAGTGGCACCCTT
* *
104617 TT-AAAAGCCCACAAGTCAGTGGCAATC-TTCAAAGCCCACAAATCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCAATCTTTAAAAGCCCACAAGTCAGTGGCACCCTT
* *
104673 TTCCAAAGCCCACACAAGTCGGTGGCAA
1 TTCAAAAG-CC-CACAAGTCAGTGGCAA
104701 CCCTTCTAAG
Statistics
Matches: 171, Mismatches: 24, Indels: 12
0.83 0.12 0.06
Matches are distributed among these distances:
55 22 0.13
56 5 0.03
57 6 0.04
58 71 0.42
59 44 0.26
60 23 0.13
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (58 bp):
TTCAAAAGCCCACAAGTCAGTGGCAATCTTTAAAAGCCCACAAGTCAGTGGCACCCTT
Found at i:104596 original size:88 final size:85
Alignment explanation
Indices: 104439--104702 Score: 321
Period size: 88 Copynumber: 3.0 Consensus size: 85
104429 CATTCATCAC
* * * * * * *
104439 CCTTCAAAAGTCCACAAGTCAGTGGCATTTTTTTCAAAGCCCACAAGTCGGTGGCATTTTTTTCG
1 CCTTTAAAAGCCCACAAGTCAGTGGCA--ATCTTCAAAGCCCACAAGTCAGTGGCATATTTTTCA
104504 AAAGCCCACAAGTCAGTGGCAA
64 AAAGCCCACAAGTCAGTGGCAA
* * *
104526 CCTTTAAAAGCCCACAAGTTAGTGGCACCCTGTTCAAAAGCCCACAAGTCAGTGGCATATTTTTC
1 CCTTTAAAAGCCCACAAGTCAGTGGCA--ATCTTC-AAAGCCCACAAGTCAGTGGCATATTTTTC
104591 AAAAGCCCACAAGTCAGTGGCAA
63 AAAAGCCCACAAGTCAGTGGCAA
* *** *
104614 CCTTTAAAAGCCCACAAGTCAGTGGCAATCTTCAAAGCCCACAAATCAGTGGCACCCTTTTCCAA
1 CCTTTAAAAGCCCACAAGTCAGTGGCAATCTTCAAAGCCCACAAGTCAGTGGCATATTTTTCAAA
*
104679 AGCCCACACAAGTCGGTGGCAA
66 AG-CC-CACAAGTCAGTGGCAA
104701 CC
1 CC
104703 CTTCTAAGCC
Statistics
Matches: 155, Mismatches: 19, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
85 29 0.19
86 6 0.04
87 45 0.29
88 75 0.48
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (85 bp):
CCTTTAAAAGCCCACAAGTCAGTGGCAATCTTCAAAGCCCACAAGTCAGTGGCATATTTTTCAAA
AGCCCACAAGTCAGTGGCAA
Found at i:104769 original size:49 final size:49
Alignment explanation
Indices: 104707--105001 Score: 325
Period size: 49 Copynumber: 6.0 Consensus size: 49
104697 GCAACCCTTC
* *
104707 TAAGCCCAATATAGCTGGCCTTGAATCACCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* *
104756 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
*
104805 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C-----CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
104848 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTT--ATCTT
* * * *
104900 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC---TT-T-ATCTT
* * * * *
104955 TAAGCCCAATATCGTTGGCCGTGAATC-GACATATTGGCATCTTTATC
1 TAAGTCCAATATAGCTGGCCTTGAATCAG-CATATTGGCACCTTTATC
105002 ACTTTTCTCA
Statistics
Matches: 213, Mismatches: 19, Indels: 28
0.82 0.07 0.11
Matches are distributed among these distances:
43 41 0.19
44 1 0.00
48 1 0.00
49 86 0.40
50 1 0.00
51 2 0.01
52 38 0.18
53 2 0.01
54 2 0.01
55 38 0.18
56 1 0.00
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
Found at i:104860 original size:43 final size:43
Alignment explanation
Indices: 104799--104891 Score: 177
Period size: 43 Copynumber: 2.2 Consensus size: 43
104789 TTGGCACCTT
104799 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
*
104842 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
104885 CACCTTT
1 CACCTTT
104892 TCCATCTTTA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (43 bp):
CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
Found at i:104869 original size:22 final size:22
Alignment explanation
Indices: 104801--104869 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
104791 GGCACCTTCA
104801 CCTTTAAGTCCAATATAGCTGG
1 CCTTTAAGTCCAATATAGCTGG
* * *
104823 CCTTGAA-TCAGCACAT-TGGC--A
1 CCTTTAAGTC--CA-ATATAGCTGG
104844 CCTTTAAGTCCAATATAGCTGG
1 CCTTTAAGTCCAATATAGCTGG
104866 CCTT
1 CCTT
104870 GAATCAGCAT
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 8 0.24
22 12 0.35
23 5 0.15
24 2 0.06
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.30
Consensus pattern (22 bp):
CCTTTAAGTCCAATATAGCTGG
Found at i:104880 original size:92 final size:95
Alignment explanation
Indices: 104753--104944 Score: 318
Period size: 92 Copynumber: 2.0 Consensus size: 95
104743 GCACCTTTAT
104753 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TT-CACCTTTAAGTCCAATA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTCCACCTTTAAGTCCAATA
*
104816 TAGCTGGCCTTGAATCAGCACATTGGCA-C
66 TAGCTGGCCTTGAATCAGCACATTGACATC
* *
104845 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTTCCACCTTTAAGTCCAAT
*
104910 GTAGCTGGCCTTGAATCAGCACATTGACATC
65 ATAGCTGGCCTTGAATCAGCACATTGACATC
104941 CTTT
1 CTTT
104945 TTCTCATCTT
Statistics
Matches: 92, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
92 44 0.48
94 2 0.02
95 41 0.45
96 5 0.05
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (95 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTCCACCTTTAAGTCCAATA
TAGCTGGCCTTGAATCAGCACATTGACATC
Found at i:104923 original size:52 final size:53
Alignment explanation
Indices: 104845--104998 Score: 186
Period size: 52 Copynumber: 2.9 Consensus size: 53
104835 ACATTGGCAC
104845 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
* * * *
104897 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTCTCAT
* * * * *
104952 CTTTAAGCCCAATATCGTTGGCCGTGAATC-GACATATTGGCATCTTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAG-CATATTGGCACCTTT
104999 ATCACTTTTC
Statistics
Matches: 85, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
52 38 0.45
53 5 0.06
54 7 0.08
55 35 0.41
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (53 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
Found at i:105844 original size:33 final size:33
Alignment explanation
Indices: 105807--105873 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
105797 TTCAACGATT
105807 TGTATCAATACATAAAATGTTGTATCGATACAA
1 TGTATCAATACATAAAATGTTGTATCGATACAA
* *** *
105840 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCAATACATAAAATGTTGTATCGATACAA
105873 T
1 T
105874 TTAAGCTACT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (33 bp):
TGTATCAATACATAAAATGTTGTATCGATACAA
Found at i:105845 original size:13 final size:13
Alignment explanation
Indices: 105827--105851 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
105817 CATAAAATGT
105827 TGTATCGATACAA
1 TGTATCGATACAA
105840 TGTATCGATACA
1 TGTATCGATACA
105852 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:105932 original size:13 final size:13
Alignment explanation
Indices: 105914--105938 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
105904 ATTACTTAAA
105914 TGTATCGATACAT
1 TGTATCGATACAT
105927 TGTATCGATACA
1 TGTATCGATACA
105939 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:106040 original size:52 final size:52
Alignment explanation
Indices: 105947--106070 Score: 196
Period size: 52 Copynumber: 2.4 Consensus size: 52
105937 CACTGATCTT
* *
105947 TGTATCGATACATGCAGGC-AATTTGCCTAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
105998 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
106050 TGTCTCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
106071 CTTTTCATAT
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
51 19 0.28
52 48 0.72
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:112494 original size:42 final size:42
Alignment explanation
Indices: 112423--112961 Score: 415
Period size: 42 Copynumber: 12.7 Consensus size: 42
112413 TCTTACTTTC
* *
112423 AGTCTACCTGTCGGCTTTGACCCTAGAGACTGCCTTATCTAA
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTTATCTAA
* * * ** * * *
112465 AGTTTGTCTGTCGGCTTTGACCTTGGAGACTTTTCTAACCCT-C
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGAC-TGCCTTA-TCTAA
* * **
112508 AGTCTGCCTGTCGGCTTTAACCCTGGAGATTGCCCCATCTAA
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTTATCTAA
* ** * **
112550 AGTCTGTCTGTCGGCTTTGATCCC-GGAGACTTTCTTACCCTTT
1 AGTCTGCCTGTCGGCTTTGA-CCCTGGAGACTGCCTTA-TCTAA
* * * *
112593 AGTCTGCTTGTCGGCTTTGACCCTGGAAGACTTTCC-TACCCT-C
1 AGTCTGCCTGTCGGCTTTGACCCTGG-AGAC-TGCCTTA-TCTAA
* ** *
112636 AGTCTGCCTATCAACTTTGACCTTGGAGACTGCCTTATCTAA
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTTATCTAA
* *
112678 AGTCTGCCTGTCGGCTTTGACCCTCGAGACTGCCTCATCTAA
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTTATCTAA
* * ** * **
112720 AGTCTACTTGTCGGCTTTGACCCTGGAGACTTTCTTACCTTTC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTTATC-TAA
* * * ** **
112763 AGTCTACCTCTCGACTTTGACCCTGGAGACTTTCTTA-CTTTC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTTATC-TAA
* * *
112805 AGTCTGCCTGTCGGTTTTGACCCTAGAGACTGCCTCATCTAA
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTTATCTAA
* * * ** **
112847 AGTCTGCCTGTCGGCTTTAACCTTGGAGACTTTCCTGCT-TTC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGAC-TGCCTTATCTAA
* * * *
112889 AGTCTGCATATCGGCTTTGACCCTAGAGACTGCCTCATCTAA
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTTATCTAA
*
112931 AGTCTGCCTGTCGACTTTGACCCTGGAGACT
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACT
112962 TTTTCACATT
Statistics
Matches: 389, Mismatches: 94, Indels: 28
0.76 0.18 0.05
Matches are distributed among these distances:
41 12 0.03
42 246 0.63
43 116 0.30
44 12 0.03
45 3 0.01
ACGTcount: A:0.17, C:0.29, G:0.20, T:0.34
Consensus pattern (42 bp):
AGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTTATCTAA
Found at i:112558 original size:85 final size:84
Alignment explanation
Indices: 112411--112793 Score: 360
Period size: 85 Copynumber: 4.5 Consensus size: 84
112401 CAATATGAAT
** * * ** *
112411 TTTCTTACTTTCAGTCTACCTGTCGGCTTTGACCCTAGAGACTGCCTTATCTAAAGTTTGTCTGT
1 TTTCTTACCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCCCATCTAAAGTCTGTCTGT
112476 CGGCTTTGACCTTGGAGAC
66 CGGCTTTGACCTTGGAGAC
* * *
112495 TTTTCTAACCCTCAGTCTGCCTGTCGGCTTTAACCCTGGAGATTGCCCCATCTAAAGTCTGTCTG
1 -TTTCTTACCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCCCATCTAAAGTCTGTCTG
*
112560 TCGGCTTTGATCC-CGGAGAC
65 TCGGCTTTGA-CCTTGGAGAC
* * ** * * * *
112580 TTTCTTACCCTTTAGTCTGCTTGTCGGCTTTGACCCTGGAAGACTTTCCTACCCT-CAGTCTGCC
1 TTTCTTACCC-TCAGTCTGCCTGTCGGCTTTGACCCTGG-AGACTGCCCCA-TCTAAAGTCTGTC
* **
112644 TATCAACTTTGACCTTGGAGAC
63 TGTCGGCTTTGACCTTGGAGAC
** * * * * *
112666 TGCCTTA-TCTAAAGTCTGCCTGTCGGCTTTGACCCTCGAGACTGCCTCATCTAAAGTCT-ACTT
1 TTTCTTACCCT-CAGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCCCATCTAAAGTCTGTC-T
*
112729 GTCGGCTTTGACCCTGGAGAC
64 GTCGGCTTTGACCTTGGAGAC
* * * *
112750 TTTCTTACCTTTCAGTCTACCTCTCGACTTTGACCCTGGAGACT
1 TTTCTTACC-CTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACT
112794 TTCTTACTTT
Statistics
Matches: 236, Mismatches: 52, Indels: 20
0.77 0.17 0.06
Matches are distributed among these distances:
83 3 0.01
84 45 0.19
85 149 0.63
86 37 0.16
87 2 0.01
ACGTcount: A:0.17, C:0.29, G:0.19, T:0.35
Consensus pattern (84 bp):
TTTCTTACCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCCCATCTAAAGTCTGTCTGT
CGGCTTTGACCTTGGAGAC
Found at i:112780 original size:127 final size:126
Alignment explanation
Indices: 112423--112961 Score: 598
Period size: 127 Copynumber: 4.2 Consensus size: 126
112413 TCTTACTTTC
* * *
112423 AGTCTACCTGTCGGCTTTGACCCTAGAGACTGCCTTATCTAAAGTTTG-TCTGTCGGCTTTGACC
1 AGTCTGCCTGTCGGCTTTGACCCTAGAGACTGCCTCATCTAAAGTCTGCT-TGTCGGCTTTGACC
* * * * * * *
112487 TTGGAGACTTTTCTAACCCTCAGTCTGCCTGTCGGCTTTAACCCTGGAGATTGCCCCATCTAA
65 CTGGAGACTTTCCT-ACCCTCAGTCTGCCTATCGACTTTGACCCTGGAGACTGCCTCATCTAA
* * ** * * **
112550 AGTCTGTCTGTCGGCTTTGATCCC-GGAGACTTTCTTACCCTTTAGTCTGCTTGTCGGCTTTGAC
1 AGTCTGCCTGTCGGCTTTGA-CCCTAGAGACTGCCTCA-TCTAAAGTCTGCTTGTCGGCTTTGAC
* * *
112614 CCTGGAAGACTTTCCTACCCTCAGTCTGCCTATCAACTTTGACCTTGGAGACTGCCTTATCTAA
64 CCTGG-AGACTTTCCTACCCTCAGTCTGCCTATCGACTTTGACCCTGGAGACTGCCTCATCTAA
* *
112678 AGTCTGCCTGTCGGCTTTGACCCTCGAGACTGCCTCATCTAAAGTCTACTTGTCGGCTTTGACCC
1 AGTCTGCCTGTCGGCTTTGACCCTAGAGACTGCCTCATCTAAAGTCTGCTTGTCGGCTTTGACCC
* * * * ** * **
112743 TGGAGACTTTCTTACCTTTCAGTCTACCTCTCGACTTTGACCCTGGAGACTTTCTTA-CTTTC
66 TGGAGACTTTCCTACC-CTCAGTCTGCCTATCGACTTTGACCCTGGAGACTGCCTCATC-TAA
* * * *
112805 AGTCTGCCTGTCGGTTTTGACCCTAGAGACTGCCTCATCTAAAGTCTGCCTGTCGGCTTTAACCT
1 AGTCTGCCTGTCGGCTTTGACCCTAGAGACTGCCTCATCTAAAGTCTGCTTGTCGGCTTTGACCC
* ** * * *
112870 TGGAGACTTTCCTGCTTTCAGTCTGCATATCGGCTTTGACCCTAGAGACTGCCTCATCTAA
66 TGGAGACTTTCCTACCCTCAGTCTGCCTATCGACTTTGACCCTGGAGACTGCCTCATCTAA
* *
112931 AGTCTGCCTGTCGACTTTGACCCTGGAGACT
1 AGTCTGCCTGTCGGCTTTGACCCTAGAGACT
112962 TTTTCACATT
Statistics
Matches: 344, Mismatches: 60, Indels: 17
0.82 0.14 0.04
Matches are distributed among these distances:
126 74 0.22
127 165 0.48
128 95 0.28
129 10 0.03
ACGTcount: A:0.17, C:0.29, G:0.20, T:0.34
Consensus pattern (126 bp):
AGTCTGCCTGTCGGCTTTGACCCTAGAGACTGCCTCATCTAAAGTCTGCTTGTCGGCTTTGACCC
TGGAGACTTTCCTACCCTCAGTCTGCCTATCGACTTTGACCCTGGAGACTGCCTCATCTAA
Found at i:113528 original size:24 final size:25
Alignment explanation
Indices: 113486--113532 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
113476 AACATGAATA
*
113486 ATAAAAATAAAATATTAATAATATT
1 ATAAAAATAAAATAGTAATAATATT
*
113511 ATAATAAT-AAATAGTAATAATA
1 ATAAAAATAAAATAGTAATAATA
113533 AATTAATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (25 bp):
ATAAAAATAAAATAGTAATAATATT
Found at i:113570 original size:24 final size:24
Alignment explanation
Indices: 113526--113575 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
113516 AATAAATAGT
* *
113526 AATAATAAATTAATTAATTAACAA
1 AATAAAAAATTAATTAATTAAAAA
113550 AATAAAAAATT-ATTAATTTAAAAA
1 AATAAAAAATTAATTAA-TTAAAAA
113574 AA
1 AA
113576 ATCGAATTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 5 0.22
24 18 0.78
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (24 bp):
AATAAAAAATTAATTAATTAAAAA
Found at i:113812 original size:14 final size:14
Alignment explanation
Indices: 113793--113886 Score: 83
Period size: 14 Copynumber: 7.1 Consensus size: 14
113783 TACACATCAT
113793 TTTCATTTCATGCA
1 TTTCATTTCATGCA
113807 TTTCA--T-AT--A
1 TTTCATTTCATGCA
*
113816 TTACATTTCATGCA
1 TTTCATTTCATGCA
* * *
113830 -TGCATTTCACGTA
1 TTTCATTTCATGCA
113843 TGTTCATTTCATGCA
1 T-TTCATTTCATGCA
*
113858 TTTCGTTTCATGCA
1 TTTCATTTCATGCA
*
113872 TTACATTTCATGCA
1 TTTCATTTCATGCA
113886 T
1 T
113887 GTTTTCTTTC
Statistics
Matches: 63, Mismatches: 10, Indels: 14
0.72 0.11 0.16
Matches are distributed among these distances:
9 5 0.08
11 3 0.05
12 3 0.05
13 10 0.16
14 31 0.49
15 11 0.17
ACGTcount: A:0.23, C:0.20, G:0.10, T:0.47
Consensus pattern (14 bp):
TTTCATTTCATGCA
Found at i:113850 original size:28 final size:27
Alignment explanation
Indices: 113801--113887 Score: 95
Period size: 28 Copynumber: 3.1 Consensus size: 27
113791 ATTTTCATTT
113801 CATGCATTTCATATATTACATTTCATG
1 CATGCATTTCATATATTACATTTCATG
*
113828 CATGCATTTCACGTATGTT-CATTTCATG
1 CATGCATTTCA--TATATTACATTTCATG
* * **
113856 CATTTCGTTTCATGCATTACATTTCATG
1 CA-TGCATTTCATATATTACATTTCATG
113884 CATG
1 CATG
113888 TTTTCTTTCA
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
27 15 0.31
28 22 0.45
29 12 0.24
ACGTcount: A:0.24, C:0.21, G:0.11, T:0.44
Consensus pattern (27 bp):
CATGCATTTCATATATTACATTTCATG
Found at i:113867 original size:56 final size:53
Alignment explanation
Indices: 113754--113887 Score: 166
Period size: 51 Copynumber: 2.5 Consensus size: 53
113744 GCTTGCTTTT
*
113754 AGTTTCATGCATTACA-TTCATGCATGCATTACACATCATTTTCATTTCATGC
1 AGTTTCATGCATTACATTTCATGCATGCATTACACATCATGTTCATTTCATGC
** * *
113806 A-TTTCATATATTACATTTCATGCATGCATTTCACGT-ATGTTCATTTCATGC
1 AGTTTCATGCATTACATTTCATGCATGCATTACACATCATGTTCATTTCATGC
113857 ATTTCGTTTCATGCATTACATTTCATGCATG
1 A----GTTTCATGCATTACATTTCATGCATG
113888 TTTTCTTTCA
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
51 27 0.39
52 19 0.28
56 23 0.33
ACGTcount: A:0.25, C:0.21, G:0.10, T:0.43
Consensus pattern (53 bp):
AGTTTCATGCATTACATTTCATGCATGCATTACACATCATGTTCATTTCATGC
Found at i:114324 original size:33 final size:33
Alignment explanation
Indices: 114282--114365 Score: 98
Period size: 33 Copynumber: 2.5 Consensus size: 33
114272 TGCTACTTGC
* *
114282 AAATGAATGTAATTGAAACAGCAGTTC-AAGGG
1 AAATGAATGTAATCGAAACAGCAATTCAAAGGG
* *
114314 AGAATGAATGTAATCGAAATAGCAATTCAAAGGT
1 A-AATGAATGTAATCGAAACAGCAATTCAAAGGG
* *
114348 AAATGAATGCAGTCGAAA
1 AAATGAATGTAATCGAAA
114366 ACTGCTGCAA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
32 1 0.02
33 38 0.86
34 5 0.11
ACGTcount: A:0.46, C:0.10, G:0.23, T:0.21
Consensus pattern (33 bp):
AAATGAATGTAATCGAAACAGCAATTCAAAGGG
Found at i:118968 original size:18 final size:20
Alignment explanation
Indices: 118925--118968 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 20
118915 ATAAATTTCT
*
118925 AATTTTTATTTTATTTTAGT
1 AATTTTTATTTTATTTTAGA
118945 AA--TTTATTTTA-TTTA-A
1 AATTTTTATTTTATTTTAGA
118961 AATTTTTA
1 AATTTTTA
118969 AATTATTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 6
0.75 0.04 0.21
Matches are distributed among these distances:
16 2 0.10
17 4 0.19
18 13 0.62
20 2 0.10
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (20 bp):
AATTTTTATTTTATTTTAGA
Found at i:119432 original size:20 final size:18
Alignment explanation
Indices: 119412--119450 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
119402 ATTTAAAATT
119412 TTTAAAAAATATTATATA
1 TTTAAAAAATATTATATA
*
119430 TTTAAAAATTATTATAT-
1 TTTAAAAAATATTATATA
119447 TTTA
1 TTTA
119451 TATTCATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTAAAAAATATTATATA
Found at i:120404 original size:29 final size:29
Alignment explanation
Indices: 120379--120482 Score: 102
Period size: 32 Copynumber: 3.4 Consensus size: 29
120369 TCGATATTGA
120379 TTATAAATTTGATGAATTAAATATATTTAT
1 TTATAAATTTGATGAATTAAATATA-TTAT
* * * * *
120409 TTGTATATTTTATAAATATTAAATAAAATTAT
1 TTATAAATTTGAT-GA-ATTAAAT-ATATTAT
*
120441 TTATAAATTTAATGAATATAAATA-ATTAT
1 TTATAAATTTGATGAAT-TAAATATATTAT
120470 TTATAAATTTGAT
1 TTATAAATTTGAT
120483 AGTTATTAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
29 17 0.28
30 13 0.22
31 7 0.12
32 21 0.35
33 2 0.03
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (29 bp):
TTATAAATTTGATGAATTAAATATATTAT
Found at i:123840 original size:12 final size:12
Alignment explanation
Indices: 123823--123847 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
123813 TACACAAAGT
123823 ATGTATCGATAC
1 ATGTATCGATAC
123835 ATGTATCGATAC
1 ATGTATCGATAC
123847 A
1 A
123848 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (12 bp):
ATGTATCGATAC
Found at i:123840 original size:31 final size:32
Alignment explanation
Indices: 123805--123868 Score: 103
Period size: 31 Copynumber: 2.0 Consensus size: 32
123795 TAGCCAAACT
**
123805 TGTATCGATACACAAAGTA-TGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
123836 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
123868 T
1 T
123869 TGGCTTGTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 17 0.57
32 13 0.43
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.30
Consensus pattern (32 bp):
TGTATCGATACACAAAAAATTGTATCGATACA
Done.