Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 121 of 290
Found at i:37883339 original size:170 final size:173
Alignment explanation
Indices: 37883029--37883352 Score: 548
Period size: 170 Copynumber: 1.9 Consensus size: 173
37883019 AAATTGTACA
*
37883029 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAA-CACTATG
* *
37883094 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
65 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
37883159 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
130 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * *
37883203 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTACTAA-ACTTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAACAC-TATG
37883267 TGTGC-AACCC-A-ATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
65 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
37883329 TTTTGGACAGCGGAAAAGGTAAGT
130 TTTTGGACAGCGGAAAAGGTAAGT
37883353 ACCTTGAGTT
Statistics
Matches: 143, Mismatches: 6, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
170 73 0.51
171 1 0.01
172 7 0.05
173 9 0.06
174 53 0.37
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (173 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAACACTATGT
GTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAAT
TTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:37888918 original size:55 final size:56
Alignment explanation
Indices: 37888783--37888918 Score: 202
Period size: 56 Copynumber: 2.4 Consensus size: 56
37888773 TCCTAGACTG
* * *
37888783 GGTCTTACTCACACACATATATCGGAGTCACATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACATATATCGAAGTCACATATCGACGCCAACGTATTAAACGT
* *
37888839 GGTCTTACTCGCACACATACATCGAAGTCACATATCGACGCCAAC-TATTAAATGT
1 GGTCTTACTCGCACACATATATCGAAGTCACATATCGACGCCAACGTATTAAACGT
* *
37888894 GGTTTTACTCGTACACATATATCGA
1 GGTCTTACTCGCACACATATATCGA
37888919 TGCCACGGTC
Statistics
Matches: 72, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
55 31 0.43
56 41 0.57
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCGAAGTCACATATCGACGCCAACGTATTAAACGT
Found at i:37891844 original size:17 final size:19
Alignment explanation
Indices: 37891802--37891845 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
37891792 ATGAAATTTT
*
37891802 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
37891821 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
37891839 AA-TATTA
1 AATTATTA
37891846 CTGTATGTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:37898859 original size:15 final size:15
Alignment explanation
Indices: 37898841--37898869 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
37898831 ATATTTATAA
37898841 AATTATTATTATTAT
1 AATTATTATTATTAT
37898856 AATTATTATTATTA
1 AATTATTATTATTA
37898870 GATAGGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTATTATTATTAT
Found at i:37900835 original size:37 final size:37
Alignment explanation
Indices: 37900776--37900847 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
37900766 GGCTCAGACG
*
37900776 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGGACA
*
37900813 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGGA
37900848 ATATATTTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (37 bp):
AAATCTCCACACGAAGTCATCGGGTCTTACCCGGACA
Found at i:37901174 original size:146 final size:145
Alignment explanation
Indices: 37900988--37901579 Score: 936
Period size: 146 Copynumber: 4.0 Consensus size: 145
37900978 ATATACACAC
* * * * *
37900988 ATCTCCTACATATTTCACACTAACCCTTCGGCTTTACCACATATACGTATCTCATACATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* * *
37901053 CACTAGCCATTCGGCTTTACCACATATACGTATCTCATATATATATTTCACATTAGCCATTCGGC
66 CATTAGCCATTCGGCTTTACCACATATACATATCTC-TATACATATTTCACATTAGCCATTCGGC
37901118 TTTACCACATATACAT
130 TTTACCACATATACAT
37901134 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* *
37901199 AATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTAGCCATTCGGC
66 CATTAGCCATTCGGCTTTACCACATATACATATCTC-TATACATATTTCACATTAGCCATTCGGC
37901264 TTTACCACATATACAT
130 TTTACCACATATACAT
*
37901280 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCCCATACATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
37901345 CATTAGCCATTCGGCTTTACCACATATACATATC-CCATACATATTTCACATTAGCCATTCGGCT
66 CATTAGCCATTCGGCTTTACCACATATACATATCTCTATACATATTTCACATTAGCCATTCGGCT
37901409 TTACCACATATACAT
131 TTACCACATATACAT
*
37901424 ATCCCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCCCATACATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT--C-T-C--A--T-A
*
37901489 CGATATTTCACATTAGCCATTTGGCTTTACCACATATACATATCTC-ATACATATTTCACATTAG
57 C-ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCTATACATATTTCACATTAG
37901553 CCATTCGGCTTTACCACATATACAT
121 CCATTCGGCTTTACCACATATACAT
37901578 AT
1 AT
37901580 ATTTATCTTG
Statistics
Matches: 420, Mismatches: 15, Indels: 14
0.94 0.03 0.03
Matches are distributed among these distances:
144 91 0.22
145 1 0.00
146 236 0.56
148 1 0.00
150 1 0.00
152 1 0.00
153 2 0.00
154 86 0.20
155 1 0.00
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.35
Consensus pattern (145 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
CATTAGCCATTCGGCTTTACCACATATACATATCTCTATACATATTTCACATTAGCCATTCGGCT
TTACCACATATACAT
Found at i:37901500 original size:58 final size:48
Alignment explanation
Indices: 37900988--37901579 Score: 932
Period size: 48 Copynumber: 12.0 Consensus size: 48
37900978 ATATACACAC
* * * * *
37900988 ATCTCCTACATATTTCACACTAACCCTTCGGCTTTACCACATATACGT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
37901036 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACGT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
37901084 ATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
37901134 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
37901182 ATCTCATACATATTTCAAATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
37901230 ATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
37901280 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
37901328 ATCCCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
37901376 ATCCCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
37901424 ATCCCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
37901472 ATCCCATACATATTTCACGATATTTCACATTAGCCATTTGGCTTTACCACATATACAT
1 AT--C-T-C--A--T-AC-ATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
37901530 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
37901578 AT
1 AT
37901580 ATTTATCTTG
Statistics
Matches: 515, Mismatches: 15, Indels: 28
0.92 0.03 0.05
Matches are distributed among these distances:
48 371 0.72
49 2 0.00
50 93 0.18
52 2 0.00
54 2 0.00
55 1 0.00
56 2 0.00
57 2 0.00
58 40 0.08
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:37901506 original size:106 final size:106
Alignment explanation
Indices: 37901385--37901579 Score: 372
Period size: 106 Copynumber: 1.8 Consensus size: 106
37901375 TATCCCATAC
37901385 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCCCATACATATTTCACATTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCCCATACATATTTCACATTAGCCA
37901450 TTCGGCTTTACCACATATACATATCCCATACATATTTCACG
66 TTCGGCTTTACCACATATACATATCCCATACATATTTCACG
* *
37901491 ATATTTCACATTAGCCATTTGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCCCATACATATTTCACATTAGCCA
37901556 TTCGGCTTTACCACATATACATAT
66 TTCGGCTTTACCACATATACATAT
37901580 ATTTATCTTG
Statistics
Matches: 87, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
106 87 1.00
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (106 bp):
ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCCCATACATATTTCACATTAGCCA
TTCGGCTTTACCACATATACATATCCCATACATATTTCACG
Found at i:37907886 original size:34 final size:34
Alignment explanation
Indices: 37907848--37907920 Score: 103
Period size: 34 Copynumber: 2.1 Consensus size: 34
37907838 AGTGACAGTC
* *
37907848 CAGTATCAGT-TAGGGCCATAGCCCTTTACAGTAT
1 CAGTATCAGTGT-GGGCCATAGCCCATTACAGTAA
*
37907882 CAGTATCAGTGTGGGCCTTAGCCCATTACAGTAA
1 CAGTATCAGTGTGGGCCATAGCCCATTACAGTAA
37907916 CAGTA
1 CAGTA
37907921 AAAGAAATGC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
34 34 0.97
35 1 0.03
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.27
Consensus pattern (34 bp):
CAGTATCAGTGTGGGCCATAGCCCATTACAGTAA
Found at i:37913510 original size:17 final size:17
Alignment explanation
Indices: 37913488--37913525 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
37913478 CTAGCCCCAT
37913488 TTTTAATGTTCTTTGTA
1 TTTTAATGTTCTTTGTA
37913505 TTTTAATGTTCTTTGTA
1 TTTTAATGTTCTTTGTA
37913522 TTTT
1 TTTT
37913526 TGAAGTCCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.16, C:0.05, G:0.11, T:0.68
Consensus pattern (17 bp):
TTTTAATGTTCTTTGTA
Found at i:37914385 original size:43 final size:43
Alignment explanation
Indices: 37914332--37914416 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 43
37914322 AGGTATGTAA
*
37914332 CATCCGAGCTTGTTGAAAGGTCAGAGTTCATTATGGATGCGAG
1 CATCCGAGCTTGTTGAAAGGTCAGAGTTCATGATGGATGCGAG
* ** *
37914375 CATCTGAGCTTGTTGAGTGGTCCGAGTTCATGATGGATGCGA
1 CATCCGAGCTTGTTGAAAGGTCAGAGTTCATGATGGATGCGA
37914417 TTCATGTAAC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.22, C:0.16, G:0.32, T:0.29
Consensus pattern (43 bp):
CATCCGAGCTTGTTGAAAGGTCAGAGTTCATGATGGATGCGAG
Found at i:37916263 original size:16 final size:16
Alignment explanation
Indices: 37916244--37916277 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
37916234 TAACTATATA
37916244 TACATATATAAGCAGC
1 TACATATATAAGCAGC
37916260 TACATATATAAGCAGC
1 TACATATATAAGCAGC
37916276 TA
1 TA
37916278 TAAAAAGCAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (16 bp):
TACATATATAAGCAGC
Found at i:37933053 original size:19 final size:20
Alignment explanation
Indices: 37933026--37933065 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
37933016 CGAGATTTTC
*
37933026 AAAATTTTTGAGAATTTGGT
1 AAAATTTTTGAAAATTTGGT
37933046 AAAATTTTT-AAAATTTGGT
1 AAAATTTTTGAAAATTTGGT
37933065 A
1 A
37933066 TTTGGTTGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.45
Consensus pattern (20 bp):
AAAATTTTTGAAAATTTGGT
Found at i:37934526 original size:11 final size:11
Alignment explanation
Indices: 37934510--37934565 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 11
37934500 ATTTTGATAT
37934510 ACATGATATGC
1 ACATGATATGC
37934521 ACATGATATG-
1 ACATGATATGC
** *
37934531 TTATGAGATGC
1 ACATGATATGC
*
37934542 ACATGATATAC
1 ACATGATATGC
* *
37934553 TCATCATATGC
1 ACATGATATGC
37934564 AC
1 AC
37934566 GGGTTGGGTT
Statistics
Matches: 33, Mismatches: 11, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
10 7 0.21
11 26 0.79
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (11 bp):
ACATGATATGC
Found at i:37940932 original size:29 final size:29
Alignment explanation
Indices: 37940865--37940960 Score: 131
Period size: 29 Copynumber: 3.3 Consensus size: 29
37940855 AAGTCTACAT
* *
37940865 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
37940893 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
** *
37940922 ACATTTGTATGGCCCATTAGGCCTAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
37940951 ACATTCATAT
1 ACATTCATAT
37940961 ACATGCTTTC
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
28 21 0.36
29 37 0.64
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:37941040 original size:17 final size:18
Alignment explanation
Indices: 37941018--37941052 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
37941008 TGCCTATTAT
37941018 GGGCCCA-ATAGCCCATC
1 GGGCCCACATAGCCCATC
*
37941035 GGGCCCACTTAGCCCATC
1 GGGCCCACATAGCCCATC
37941053 CTGGCCTGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.20, C:0.43, G:0.23, T:0.14
Consensus pattern (18 bp):
GGGCCCACATAGCCCATC
Found at i:37945449 original size:29 final size:29
Alignment explanation
Indices: 37945382--37945506 Score: 198
Period size: 29 Copynumber: 4.3 Consensus size: 29
37945372 AAGTCTACAT
* *
37945382 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
37945410 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
37945439 ACATTCGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
37945468 ACATTCATATGGCTCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
37945497 ACATTCATAT
1 ACATTCATAT
37945507 ACATGCTTTC
Statistics
Matches: 89, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
28 21 0.24
29 68 0.76
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.26
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:37945587 original size:17 final size:18
Alignment explanation
Indices: 37945565--37945598 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
37945555 ACCTATTATA
37945565 GGCCCA-GTAGCCCATCG
1 GGCCCACGTAGCCCATCG
*
37945582 GGCCCACTTAGCCCATC
1 GGCCCACGTAGCCCATC
37945599 CTGACCCAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.18, C:0.44, G:0.24, T:0.15
Consensus pattern (18 bp):
GGCCCACGTAGCCCATCG
Found at i:37949607 original size:29 final size:29
Alignment explanation
Indices: 37949574--37949661 Score: 114
Period size: 29 Copynumber: 3.2 Consensus size: 29
37949564 GTCAACCAGG
37949574 ACATTCTTCATCTTTTCAATTACACTACC
1 ACATTCTTCATCTTTTCAATTACACTACC
**
37949603 ACATTCTTCATCTATTTC-A--AC-C-AGG
1 ACATTCTTCATCT-TTTCAATTACACTACC
37949628 ACATTCTTCATCTTTTCAATTACACTACC
1 ACATTCTTCATCTTTTCAATTACACTACC
37949657 ACATT
1 ACATT
37949662 TCATGGATTA
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
24 4 0.08
25 15 0.31
26 1 0.02
27 4 0.08
28 1 0.02
29 20 0.41
30 4 0.08
ACGTcount: A:0.28, C:0.30, G:0.02, T:0.40
Consensus pattern (29 bp):
ACATTCTTCATCTTTTCAATTACACTACC
Found at i:37949631 original size:25 final size:24
Alignment explanation
Indices: 37949565--37949646 Score: 92
Period size: 25 Copynumber: 3.2 Consensus size: 24
37949555 GGATCTTATG
37949565 TCAACCAGGACATTCTTCATCTTT
1 TCAACCAGGACATTCTTCATCTTT
**
37949589 TCAATTACACTACCACATTCTTCATCTATT
1 TC-A--AC-C-AGGACATTCTTCATCT-TT
37949619 TCAACCAGGACATTCTTCATCTTT
1 TCAACCAGGACATTCTTCATCTTT
37949643 TCAA
1 TCAA
37949647 TTACACTACC
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
24 8 0.17
25 15 0.31
26 1 0.02
27 4 0.08
28 1 0.02
29 15 0.31
30 4 0.08
ACGTcount: A:0.28, C:0.29, G:0.05, T:0.38
Consensus pattern (24 bp):
TCAACCAGGACATTCTTCATCTTT
Found at i:37952619 original size:13 final size:13
Alignment explanation
Indices: 37952597--37952629 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
37952587 TTGCTTTAGT
37952597 TTAG-TTAGTTAA
1 TTAGTTTAGTTAA
37952609 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
37952622 TTAGTTTA
1 TTAGTTTA
37952630 ATAAACAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (13 bp):
TTAGTTTAGTTAA
Found at i:37958079 original size:6 final size:6
Alignment explanation
Indices: 37958068--37958106 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
37958058 TCCTTCGATC
*
37958068 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTCA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
37958107 GAATTTTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:37958112 original size:18 final size:18
Alignment explanation
Indices: 37958073--37958129 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
37958063 CGATCTTTTT
* **
37958073 ATTTTTATTTTTATTTTT
1 ATTTTTATTTTCATTTGA
37958091 ATTTTTATTTTCATTTGA
1 ATTTTTATTTTCATTTGA
*
37958109 ATTTTATTATTTTCTTTTGA
1 A-TTT-TTATTTTCATTTGA
37958129 A
1 A
37958130 AGACAGATCT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
18 16 0.48
19 3 0.09
20 14 0.42
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.72
Consensus pattern (18 bp):
ATTTTTATTTTCATTTGA
Found at i:37961041 original size:13 final size:13
Alignment explanation
Indices: 37961023--37961049 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
37961013 TAGTTTAGTC
37961023 AGTTAATTAGTTT
1 AGTTAATTAGTTT
37961036 AGTTAATTAGTTT
1 AGTTAATTAGTTT
37961049 A
1 A
37961050 ATAAACAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (13 bp):
AGTTAATTAGTTT
Found at i:37962824 original size:47 final size:48
Alignment explanation
Indices: 37962755--37962978 Score: 207
Period size: 47 Copynumber: 4.7 Consensus size: 48
37962745 GGGTATAATA
37962755 TCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-CATCAA-G
1 TCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCACATCAATG
* * *
37962802 TCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCAATATCAA-G
1 TCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-ACATCAATG
* * * * * *
37962850 GCTGACGCCATGTCCCAGATAT-GTCTTACACTAGATCTCGTC-TCAATG
1 TC-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-ACATCAATG
* *
37962898 TCGATACGATGTCCCAGACATGGTCTTACACTGGCTCT--CAT-AATG
1 TCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATCAATG
*
37962943 TGGCTGATG-CATGTCTCAGACAT-GTCTTACACTGGC
1 T--C-GATGCCATGTCCCAGACATGGTCTTACACTGGC
37962979 ACACAAATAA
Statistics
Matches: 145, Mismatches: 23, Indels: 19
0.78 0.12 0.10
Matches are distributed among these distances:
45 6 0.04
46 16 0.11
47 67 0.46
48 39 0.27
49 17 0.12
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (48 bp):
TCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATCAATG
Found at i:37965195 original size:20 final size:20
Alignment explanation
Indices: 37965170--37965221 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
37965160 AAATAATTCA
37965170 ACACGGGCGTGTCCCCAAGC
1 ACACGGGCGTGTCCCCAAGC
37965190 ACACGGGCGTGTCCCCAAGC
1 ACACGGGCGTGTCCCCAAGC
*
37965210 ACACGGGTGTGT
1 ACACGGGCGTGT
37965222 GCTTTGCCTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.19, C:0.35, G:0.33, T:0.13
Consensus pattern (20 bp):
ACACGGGCGTGTCCCCAAGC
Found at i:37967400 original size:27 final size:27
Alignment explanation
Indices: 37967366--37967541 Score: 201
Period size: 27 Copynumber: 6.5 Consensus size: 27
37967356 TAAATTGTAC
37967366 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
37967393 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
37967419 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
37967447 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
37967475 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
37967502 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
37967529 AGCACTGAGTGTG
1 AGCACTAAGTGTG
37967542 TGGACTCAAT
Statistics
Matches: 127, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:37967480 original size:82 final size:81
Alignment explanation
Indices: 37967367--37967522 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
37967357 AAATTGTACA
* *
37967367 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
37967431 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
37967448 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
37967513 TGCGAGTTGA
65 TGCGAATTGA
37967523 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:37967534 original size:82 final size:81
Alignment explanation
Indices: 37967363--37967541 Score: 225
Period size: 82 Copynumber: 2.2 Consensus size: 81
37967353 GAGTAAATTG
* *
37967363 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
37967428 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
37967444 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
37967508 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
37967526 TATAGCACTGAGTGTG
1 TACAGCACTAAGTGTG
37967542 TGGACTCAAT
Statistics
Matches: 82, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.22
82 64 0.78
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:37976923 original size:14 final size:13
Alignment explanation
Indices: 37976897--37976933 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
37976887 ATCCTGTAAT
37976897 ATTAA-AACAATA
1 ATTAAGAACAATA
37976909 ATTAAGAACATATA
1 ATTAAGAACA-ATA
37976923 ATTAAGAACAA
1 ATTAAGAACAA
37976934 GACAAATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.22
13 5 0.22
14 13 0.57
ACGTcount: A:0.62, C:0.08, G:0.05, T:0.24
Consensus pattern (13 bp):
ATTAAGAACAATA
Found at i:37977310 original size:13 final size:13
Alignment explanation
Indices: 37977292--37977344 Score: 79
Period size: 13 Copynumber: 4.1 Consensus size: 13
37977282 GCTCGACAGG
37977292 GACACGCCCGTGT
1 GACACGCCCGTGT
*
37977305 GACACGCCCATGT
1 GACACGCCCGTGT
37977318 GACACGCCCGTGT
1 GACACGCCCGTGT
* *
37977331 GACAAGCCCTTGT
1 GACACGCCCGTGT
37977344 G
1 G
37977345 CGATCGCTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.19, C:0.36, G:0.28, T:0.17
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:37977328 original size:26 final size:26
Alignment explanation
Indices: 37977292--37977344 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
37977282 GCTCGACAGG
*
37977292 GACACGCCCGTGTGACACGCCCATGT
1 GACACGCCCGTGTGACAAGCCCATGT
*
37977318 GACACGCCCGTGTGACAAGCCCTTGT
1 GACACGCCCGTGTGACAAGCCCATGT
37977344 G
1 G
37977345 CGATCGCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.19, C:0.36, G:0.28, T:0.17
Consensus pattern (26 bp):
GACACGCCCGTGTGACAAGCCCATGT
Found at i:37978434 original size:24 final size:24
Alignment explanation
Indices: 37978397--37978464 Score: 100
Period size: 24 Copynumber: 2.8 Consensus size: 24
37978387 CTGAGCTGAT
* *
37978397 AAACAGTAAGCTCTATTGAGTTAA
1 AAACGGTAAGCTCTATTGAGATAA
* *
37978421 AAATGGTAAGCTCTAGTGAGATAA
1 AAACGGTAAGCTCTATTGAGATAA
37978445 AAACGGTAAGCTCTATTGAG
1 AAACGGTAAGCTCTATTGAG
37978465 CTGAATAGTA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.40, C:0.12, G:0.22, T:0.26
Consensus pattern (24 bp):
AAACGGTAAGCTCTATTGAGATAA
Found at i:37978511 original size:45 final size:46
Alignment explanation
Indices: 37978448--37978535 Score: 126
Period size: 46 Copynumber: 1.9 Consensus size: 46
37978438 GAGATAAAAA
* * *
37978448 CGGTAAGCTCTATTGAGCTG-AATAGTAAGCTCTTTCGAGCTAAAT
1 CGGTAAGCTCTAATGAGCTGAAACAGTAAGCTCTTACGAGCTAAAT
37978493 CGGTAAGCTAC-AATGAGCTGAAACAGTAAGCTCTTACGAGCTA
1 CGGTAAGCT-CTAATGAGCTGAAACAGTAAGCTCTTACGAGCTA
37978536 TGGTGAGTCT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
45 17 0.45
46 21 0.55
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (46 bp):
CGGTAAGCTCTAATGAGCTGAAACAGTAAGCTCTTACGAGCTAAAT
Found at i:37978533 original size:23 final size:22
Alignment explanation
Indices: 37978374--37978534 Score: 58
Period size: 24 Copynumber: 6.8 Consensus size: 22
37978364 TATTCATGGT
37978374 CAGTAAGCTCTTACTGAGCTGATAAA
1 CAGTAAGCTC-TAC-GAGCTG--AAA
* *
37978400 CAGTAAGCTCTATTGAG-TTAAA
1 CAGTAAGCTCTA-CGAGCTGAAA
* * * *
37978422 AATGGTAAGCTCTAGTGAGATAAAAA
1 CA--GTAAGCTCTA-CGAGCT-GAAA
* *
37978448 CGGTAAGCTCTATTGAGCTG-AA
1 CAGTAAGCTCTA-CGAGCTGAAA
* *
37978470 TAGTAAGCTCTTTCGAGCT-AAA
1 CAGTAAGCTC-TACGAGCTGAAA
* * *
37978492 TCGGTAAGCTACAATGAGCTGAAA
1 -CAGTAAGCT-CTACGAGCTGAAA
37978516 CAGTAAGCTCTTACGAGCT
1 CAGTAAGCTC-TACGAGCT
37978535 ATGGTGAGTC
Statistics
Matches: 102, Mismatches: 22, Indels: 25
0.68 0.15 0.17
Matches are distributed among these distances:
22 22 0.22
23 27 0.26
24 34 0.33
25 6 0.06
26 13 0.13
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.27
Consensus pattern (22 bp):
CAGTAAGCTCTACGAGCTGAAA
Found at i:37979975 original size:2 final size:2
Alignment explanation
Indices: 37979968--37979999 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
37979958 TCAAATACCT
37979968 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
37980000 TATATATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:37981173 original size:31 final size:30
Alignment explanation
Indices: 37981137--37981208 Score: 126
Period size: 31 Copynumber: 2.4 Consensus size: 30
37981127 AAATCAATGA
37981137 ATTCCAAATTAGCATATTAAATAAAGTTAC
1 ATTCCAAATTAGCATATTAAATAAAGTTAC
37981167 ATTTCCAAATTAGCATATTAAATAAAGTTAC
1 A-TTCCAAATTAGCATATTAAATAAAGTTAC
*
37981198 ATTCAAAATTA
1 ATTCCAAATTA
37981209 ATGATGTTTA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
30 10 0.25
31 30 0.75
ACGTcount: A:0.47, C:0.12, G:0.06, T:0.35
Consensus pattern (30 bp):
ATTCCAAATTAGCATATTAAATAAAGTTAC
Found at i:37994087 original size:79 final size:77
Alignment explanation
Indices: 37993846--37994107 Score: 273
Period size: 77 Copynumber: 3.3 Consensus size: 77
37993836 TTGAATGCTG
* * **
37993846 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGT--ATAAATCCGGGTTAAG-TCCCGAAGGCA-
37993909 TTGTGCGAGATAC-AAA
61 TTGTGCGAGATACTAAA
* * * *
37993925 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAG-ATACAATCCGGGTTAAG-CCCGAAGGCCTTT
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTATA-AATCCGGGTTAAGTCCCGAAGG-CATT
37993988 GTGCGAGATACTAAA
63 GTGCGAGATACTAAA
* *
37994003 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCATTAAATCCGGGTTAAGTCCCGAAGGCATTG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-A-TAAATCCGGGTTAAGTCCCGAAGGCATTG
* *
37994068 TGTGAGTTACTAAA
64 TGCGAGATACTAAA
* *
37994082 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
37994108 AACGAGGAGC
Statistics
Matches: 156, Mismatches: 17, Indels: 19
0.81 0.09 0.10
Matches are distributed among these distances:
77 52 0.33
78 14 0.09
79 52 0.33
80 31 0.20
81 7 0.04
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (77 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTATAAATCCGGGTTAAGTCCCGAAGGCATTGTG
CGAGATACTAAA
Found at i:37994098 original size:39 final size:39
Alignment explanation
Indices: 37993846--37994105 Score: 242
Period size: 40 Copynumber: 6.6 Consensus size: 39
37993836 TTGAATGCTG
* * * * * *
37993846 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** *
37993886 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAAA
* * *
37993925 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATAC--AA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
* *
37993964 TCCGGGTTAAG-CCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
* *
37994003 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
37994043 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
37994082 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
37994106 TGAACGAGGA
Statistics
Matches: 190, Mismatches: 21, Indels: 19
0.83 0.09 0.08
Matches are distributed among these distances:
37 24 0.13
38 11 0.06
39 53 0.28
40 94 0.49
41 8 0.04
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:37994125 original size:79 final size:80
Alignment explanation
Indices: 37993899--37994140 Score: 205
Period size: 79 Copynumber: 3.1 Consensus size: 80
37993889 GGACTAAGAT
* * * * * **
37993899 CCGAAGG-CATTTGTGCGAGATAC-AAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAG--A-
1 CCGAAGGCCA-TTGTGCGAGATACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGTCAC
37993959 TACAATCCGGGTTAAG-C
64 TA-AATCCGGGTTAAGTC
* * * ** *
37993976 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCATTA
1 CCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGTCACTA
37994041 AATCCGGGTTAAGTC
66 AATCCGGGTTAAGTC
* * * * *
37994056 CCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCT
1 CCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGTCA-CT
* *
37994119 ATATCC-GGTTAAATC
65 AAATCCGGGTTAAGTC
37994134 CCGAAGG
1 CCGAAGG
37994141 TACGTGATTT
Statistics
Matches: 141, Mismatches: 17, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
77 49 0.35
78 20 0.14
79 62 0.44
80 10 0.07
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.23
Consensus pattern (80 bp):
CCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGTCACTA
AATCCGGGTTAAGTC
Found at i:38001896 original size:39 final size:37
Alignment explanation
Indices: 38001791--38002009 Score: 180
Period size: 40 Copynumber: 5.7 Consensus size: 37
38001781 TTGAATGCTG
* * *
38001791 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATAT
1 TCCGGGTTAAG-CCCGAAGGCATTTGTGC-GAGTCAA-AT
** *
38001830 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACAAAT
1 -TCCGGGTTAAG-CCCGAAGGCATTTGTGCGAG-T-CAAAT
*
38001871 TCCGGGTTAAGCCCGAAGGCCTTTGTGCGAG--ATAAT
1 TCCGGGTTAAGCCCGAAGGCATTTGTGCGAGTCA-AAT
*
38001907 TCCGGGTTAAGCCCGAAGGC-TTTGTGCGAGTACTAA-
1 TCCGGGTTAAGCCCGAAGGCATTTGTGCGAGT-CAAAT
* * *
38001943 T-CGGGTTAAGTCCGAAGGCATTCGTGCGAGTCATTAAA
1 TCCGGGTTAAGCCCGAAGGCATTTGTGCGAGTCA--AAT
38001981 TCCGGGTTAAGTCCCGAAGGCATTGTGTG
1 TCCGGGTTAAG-CCCGAAGGCATT-TGTG
38002010 AGTTACTAAA
Statistics
Matches: 150, Mismatches: 15, Indels: 27
0.78 0.08 0.14
Matches are distributed among these distances:
35 29 0.19
36 34 0.23
37 4 0.03
38 1 0.01
39 27 0.18
40 40 0.27
41 13 0.09
42 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.26
Consensus pattern (37 bp):
TCCGGGTTAAGCCCGAAGGCATTTGTGCGAGTCAAAT
Found at i:38001915 original size:36 final size:38
Alignment explanation
Indices: 38001844--38002044 Score: 218
Period size: 39 Copynumber: 5.3 Consensus size: 38
38001834 GGACTAAGAT
*
38001844 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGC
1 CCGAAGGCATTTGTGCGAG-TACTAATTCCGGGTTAAGC
*
38001883 CCGAAGGCCTTTGTGCGAG-A-TAATTCCGGGTTAAGC
1 CCGAAGGCATTTGTGCGAGTACTAATTCCGGGTTAAGC
*
38001919 CCGAAGGC-TTTGTGCGAGTACTAA-T-CGGGTTAAGT
1 CCGAAGGCATTTGTGCGAGTACTAATTCCGGGTTAAGC
* * *
38001954 CCGAAGGCATTCGTGCGAGTCATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGT-ACTAATTCCGGGTTAAG-C
* * * *
38001994 CCGAAGGCA-TTGTGTGAGTTACTAA-ACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAG-TACTAATTCCGGGTTAAG-C
38002032 CCGAAGGCATTTG
1 CCGAAGGCATTTG
38002045 AACGAGGAGC
Statistics
Matches: 141, Mismatches: 12, Indels: 18
0.82 0.07 0.11
Matches are distributed among these distances:
35 27 0.19
36 35 0.25
37 8 0.06
38 20 0.14
39 41 0.29
40 10 0.07
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.25
Consensus pattern (38 bp):
CCGAAGGCATTTGTGCGAGTACTAATTCCGGGTTAAGC
Found at i:38002007 original size:110 final size:116
Alignment explanation
Indices: 38001791--38002044 Score: 276
Period size: 110 Copynumber: 2.2 Consensus size: 116
38001781 TTGAATGCTG
*
38001791 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATTC
* *
38001856 GTGCGAGATACAAATTCCGGGTTAAGCCCGAAGGCCTTTGTGCGAGATAAT
66 GTGCGAGATACAAAATCCGGGTTAAGCCCGAAGGCCATTGTGCGAGATAAT
* * * **
38001907 TCCGGGTTAAG-CCCGAAGGCTTTGTGC-GAGT-ACTA-AT-CGGGTTAAG-TCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATTC
*
38001966 GTGCGAG-T-CATTAAATCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAA-
66 GTGCGAGATACA--AAATCCGGGTTAAG-CCCGAAGGCCATTGTGCGAG--A-TAAT
* *
38002019 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGC-TTTG
38002045 AACGAGGAGC
Statistics
Matches: 118, Mismatches: 12, Indels: 18
0.80 0.08 0.12
Matches are distributed among these distances:
108 2 0.02
109 1 0.01
110 41 0.35
111 15 0.13
112 11 0.09
113 15 0.13
114 7 0.06
115 16 0.14
116 10 0.08
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.26
Consensus pattern (116 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATTC
GTGCGAGATACAAAATCCGGGTTAAGCCCGAAGGCCATTGTGCGAGATAAT
Found at i:38002063 original size:78 final size:75
Alignment explanation
Indices: 38001907--38002050 Score: 173
Period size: 75 Copynumber: 1.9 Consensus size: 75
38001897 GCGAGATAAT
* * * **
38001907 TCCGGGTTAAG-CCCGAAGGCTTTGTGCGAGTACTAATCGGGTTAAGTCCGAAGGCATTCGTGCG
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTACTAACCGGGCTAAGTCCGAAGGCATTCGAACG
*
38001971 AGTCATTAAA
66 AGTCACTAAA
* * *
38001981 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAACCGGGCTATGTCCCGAAGGCATTTGA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAG-TACT-AACCGGGCTAAGT-CCGAAGGCATTCGA
38002046 ACGAG
63 ACGAG
38002051 GAGCTATATC
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
74 11 0.19
75 17 0.29
76 4 0.07
77 10 0.17
78 16 0.28
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.25
Consensus pattern (75 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTACTAACCGGGCTAAGTCCGAAGGCATTCGAACG
AGTCACTAAA
Found at i:38006962 original size:27 final size:27
Alignment explanation
Indices: 38006932--38007109 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
38006922 ATATTGAGTC
* * * *
38006932 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
38006959 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
38006986 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
38007014 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
38007041 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
38007068 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
38007095 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38007110 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:38007071 original size:82 final size:81
Alignment explanation
Indices: 38006953--38007108 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
38006943 TGCTATATAA
* *
38006953 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
38007018 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
38007035 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
38007099 CACTTAGTGC
65 CACTTAGTGC
38007109 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:38009831 original size:20 final size:20
Alignment explanation
Indices: 38009806--38009857 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
38009796 CGGGTAAGGG
38009806 ACACGGGCATGTTCCCAAGC
1 ACACGGGCATGTTCCCAAGC
*
38009826 ACACGGGCGTGTTCCCAAGC
1 ACACGGGCATGTTCCCAAGC
38009846 ACACGGGCATGT
1 ACACGGGCATGT
38009858 GCATTGCCTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.23, C:0.33, G:0.29, T:0.15
Consensus pattern (20 bp):
ACACGGGCATGTTCCCAAGC
Found at i:38017201 original size:29 final size:29
Alignment explanation
Indices: 38017140--38017194 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
38017130 TTAAAAATTT
38017140 TAAAAATAAATAAACTAAATTCCTAAAAA
1 TAAAAATAAATAAACTAAATTCCTAAAAA
38017169 TAAAAATATAA-AAACTAAA-TCCTAAA
1 TAAAAATA-AATAAACTAAATTCCTAAA
38017195 TCCTAAATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
28 7 0.28
29 16 0.64
30 2 0.08
ACGTcount: A:0.65, C:0.11, G:0.00, T:0.24
Consensus pattern (29 bp):
TAAAAATAAATAAACTAAATTCCTAAAAA
Found at i:38017513 original size:17 final size:17
Alignment explanation
Indices: 38017491--38017542 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 17
38017481 TTTATTTAAG
38017491 TTTTGATATATTAATAA
1 TTTTGATATATTAATAA
*
38017508 TTTTG--A-GTTAAT-A
1 TTTTGATATATTAATAA
38017521 -TTTGATATATTAATAA
1 TTTTGATATATTAATAA
38017537 TTTTGA
1 TTTTGA
38017543 ATTAATATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 10
0.70 0.05 0.25
Matches are distributed among these distances:
12 4 0.14
13 1 0.04
14 6 0.21
15 6 0.21
16 1 0.04
17 10 0.36
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.54
Consensus pattern (17 bp):
TTTTGATATATTAATAA
Found at i:38017523 original size:36 final size:33
Alignment explanation
Indices: 38017483--38017555 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 33
38017473 ATAACTTATT
*
38017483 TATTTAAGTTTTGATATATTAATAATTTTGAGTTA
1 TATTTAA--TTTGATATATTAATAATTTTGAATTA
38017518 -A--T-ATTTGATATATTAATAATTTTGAATTAA
1 TATTTAATTTGATATATTAATAATTTTGAATT-A
38017548 TATTTAAT
1 TATTTAAT
38017556 ATATTGACAA
Statistics
Matches: 32, Mismatches: 1, Indels: 11
0.73 0.02 0.25
Matches are distributed among these distances:
29 24 0.75
30 1 0.03
31 2 0.06
32 1 0.03
33 1 0.03
34 3 0.09
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.53
Consensus pattern (33 bp):
TATTTAATTTGATATATTAATAATTTTGAATTA
Found at i:38017524 original size:29 final size:29
Alignment explanation
Indices: 38017492--38017560 Score: 120
Period size: 29 Copynumber: 2.4 Consensus size: 29
38017482 TTATTTAAGT
*
38017492 TTTGATATATTAATAATTTTGAGTTAATA
1 TTTGATATATTAATAATTTTGAATTAATA
38017521 TTTGATATATTAATAATTTTGAATTAATA
1 TTTGATATATTAATAATTTTGAATTAATA
*
38017550 TTTAATATATT
1 TTTGATATATT
38017561 GACAATATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (29 bp):
TTTGATATATTAATAATTTTGAATTAATA
Found at i:38017548 original size:14 final size:14
Alignment explanation
Indices: 38017500--38017549 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 14
38017490 GTTTTGATAT
38017500 ATTAATAATTTTGA
1 ATTAATAATTTTGA
*
38017514 GTTAAT-A-TTTGATA
1 ATTAATAATTTTG--A
38017528 TATTAATAATTTTGA
1 -ATTAATAATTTTGA
38017543 ATTAATA
1 ATTAATA
38017550 TTTAATATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
12 4 0.14
13 1 0.03
14 13 0.45
15 6 0.21
16 1 0.03
17 4 0.14
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (14 bp):
ATTAATAATTTTGA
Found at i:38026803 original size:22 final size:22
Alignment explanation
Indices: 38026775--38026828 Score: 108
Period size: 22 Copynumber: 2.5 Consensus size: 22
38026765 TTCCAAGTGG
38026775 TATCGATACCACTCGAGGGAAA
1 TATCGATACCACTCGAGGGAAA
38026797 TATCGATACCACTCGAGGGAAA
1 TATCGATACCACTCGAGGGAAA
38026819 TATCGATACC
1 TATCGATACC
38026829 TAGTTATTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.20
Consensus pattern (22 bp):
TATCGATACCACTCGAGGGAAA
Found at i:38038095 original size:45 final size:44
Alignment explanation
Indices: 38037974--38038183 Score: 204
Period size: 44 Copynumber: 4.8 Consensus size: 44
38037964 TACAGTATTG
*
38037974 TTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATACTA
1 TTCGGG-CTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATACTA
*
38038019 TTTGGGC-T-GAAGGCCTAGCAGGCTATAATGCCGGTGAGATACTA
1 TTCGGGCTTCG-A-GCCTAGCAGGCTATAATGCCGGTGAGATACTA
*
38038063 TTCGGGCATTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGA-TA
1 TTCGGGC-TTCGAGCCTAGCAGGCTATAATGCCGGTGAGAT-ACTA
* * *
38038108 -TCAGGCTTCAAGCCTAGCAGGCGA-AATGCCGGTGA-ATGA--A
1 TTCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGAT-ACTA
* ** * *
38038148 TTCGGGTTTAAAACCTAGCAGGCT-GAATGCCGGTGA
1 TTCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
38038184 TTTGATAAAA
Statistics
Matches: 146, Mismatches: 11, Indels: 20
0.82 0.06 0.11
Matches are distributed among these distances:
40 1 0.01
41 33 0.23
42 12 0.08
43 18 0.12
44 44 0.30
45 34 0.23
46 3 0.02
47 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (44 bp):
TTCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATACTA
Found at i:38038165 original size:41 final size:41
Alignment explanation
Indices: 38038077--38038183 Score: 119
Period size: 41 Copynumber: 2.6 Consensus size: 41
38038067 GGCATTCGAG
* * *
38038077 CCTAGCAGGCTATAATGCCGGTGAAATGATATCAGGCTTCAAG
1 CCTAGCAGGCGA-AATGCCGGTG-AATGATATCAGGCTTAAAA
* *
38038120 CCTAGCAGGCGAAATGCCGGTGAATGA-ATTCGGGTTTAAAA
1 CCTAGCAGGCGAAATGCCGGTGAATGATA-TCAGGCTTAAAA
38038161 CCTAGCAGGCTG-AATGCCGGTGA
1 CCTAGCAGGC-GAAATGCCGGTGA
38038184 TTTGATAAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
40 1 0.02
41 34 0.60
42 11 0.19
43 11 0.19
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (41 bp):
CCTAGCAGGCGAAATGCCGGTGAATGATATCAGGCTTAAAA
Found at i:38038701 original size:16 final size:18
Alignment explanation
Indices: 38038670--38038702 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
38038660 AACTCGTCAC
38038670 ACTATCTATCATTTTGGT
1 ACTATCTATCATTTTGGT
38038688 ACTA-CTAT-ATTTTGG
1 ACTATCTATCATTTTGG
38038703 AGCTAGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.48
Consensus pattern (18 bp):
ACTATCTATCATTTTGGT
Found at i:38039463 original size:17 final size:17
Alignment explanation
Indices: 38039418--38039494 Score: 63
Period size: 17 Copynumber: 4.6 Consensus size: 17
38039408 AAGGAAAAGG
38039418 AAAGAAA-AAAGGAAGA
1 AAAGAAAGAAAGGAAGA
* *
38039434 AAATAAATG-AAGGGAGA
1 AAAGAAA-GAAAGGAAGA
38039451 AAAGAAAGAAAGGAA-A
1 AAAGAAAGAAAGGAAGA
* *
38039467 AACGAGAA-AATGGAAAGA
1 AAAGA-AAGAAAGG-AAGA
38039485 AAAGAAAGAA
1 AAAGAAAGAA
38039495 GAAAAAAGGG
Statistics
Matches: 47, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
16 16 0.34
17 24 0.51
18 7 0.15
ACGTcount: A:0.69, C:0.01, G:0.26, T:0.04
Consensus pattern (17 bp):
AAAGAAAGAAAGGAAGA
Found at i:38039485 original size:25 final size:23
Alignment explanation
Indices: 38039447--38039519 Score: 67
Period size: 25 Copynumber: 3.0 Consensus size: 23
38039437 TAAATGAAGG
38039447 GAGAAAA-GAAAGAAAGGAAAAA
1 GAGAAAAGGAAAGAAAGGAAAAA
*
38039469 CGAGAAAATGGAAAGAAAAGAAAGAA
1 -GAGAAAA-GGAAAGAAAGGAAA-AA
* *
38039495 GAAAAAAGGGAAAGATAGTGAAAAA
1 GAGAAAA-GGAAAGAAAG-GAAAAA
38039520 AAGGGAAAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
23 7 0.17
25 28 0.68
26 6 0.15
ACGTcount: A:0.67, C:0.01, G:0.27, T:0.04
Consensus pattern (23 bp):
GAGAAAAGGAAAGAAAGGAAAAA
Found at i:38039508 original size:20 final size:20
Alignment explanation
Indices: 38039485--38039527 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
38039475 AATGGAAAGA
38039485 AAAGAAAGA-AGAAAAAAGGG
1 AAAGAAAGAGA-AAAAAAGGG
* *
38039505 AAAGATAGTGAAAAAAAGGG
1 AAAGAAAGAGAAAAAAAGGG
38039525 AAA
1 AAA
38039528 AGAGAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 19 0.95
21 1 0.05
ACGTcount: A:0.67, C:0.00, G:0.28, T:0.05
Consensus pattern (20 bp):
AAAGAAAGAGAAAAAAAGGG
Found at i:38039640 original size:21 final size:21
Alignment explanation
Indices: 38039610--38039674 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
38039600 ACATTTTATA
*
38039610 ATTTTAAAATTATATATTTTT
1 ATTTTTAAATTATATATTTTT
* *
38039631 ATTTTTAAATGAT-TTTTTATT
1 ATTTTTAAATTATATATTT-TT
*
38039652 ATTTTTAATATTTTAATATTTTT
1 ATTTTTAA-ATTAT-ATATTTTT
38039675 CAGTTTTATA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
20 4 0.12
21 21 0.62
22 3 0.09
23 2 0.06
24 4 0.12
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (21 bp):
ATTTTTAAATTATATATTTTT
Found at i:38039707 original size:33 final size:33
Alignment explanation
Indices: 38039645--38039731 Score: 81
Period size: 33 Copynumber: 2.6 Consensus size: 33
38039635 TTAAATGATT
* *
38039645 TTTTATTATTTTTAATATTTTAATATTTTTCAG
1 TTTTATAATTTTTAAAATTTTAATATTTTTCAG
* *
38039678 TTTTATAATTTTTAACAATTCTT-AT-TTTTTAAAA
1 TTTTATAATTTTTAA-AATT-TTAATATTTTT-CAG
*
38039712 CTTTA-AATTTTTAAAATTTT
1 TTTTATAATTTTTAAAATTTT
38039732 TGAGATTTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
31 2 0.04
32 4 0.09
33 28 0.61
34 10 0.22
35 2 0.04
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.62
Consensus pattern (33 bp):
TTTTATAATTTTTAAAATTTTAATATTTTTCAG
Found at i:38062279 original size:16 final size:16
Alignment explanation
Indices: 38062260--38062290 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
38062250 GGCAAAAGTC
38062260 AAAATGCCGAAAAGCT
1 AAAATGCCGAAAAGCT
*
38062276 AAAATGTCGAAAAGC
1 AAAATGCCGAAAAGC
38062291 CGAAAGTTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.16, G:0.19, T:0.13
Consensus pattern (16 bp):
AAAATGCCGAAAAGCT
Found at i:38065028 original size:39 final size:40
Alignment explanation
Indices: 38064983--38065206 Score: 224
Period size: 39 Copynumber: 5.7 Consensus size: 40
38064973 GCTCCTCGTT
* * * *
38064983 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
38065023 C-AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
38065062 CGAATGCCTTC-GGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
38065101 CAAAGGCCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
38065141 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
38065182 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
38065207 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 22, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
39 73 0.47
40 68 0.44
41 14 0.09
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:38065114 original size:79 final size:76
Alignment explanation
Indices: 38064983--38065207 Score: 234
Period size: 79 Copynumber: 2.8 Consensus size: 76
38064973 GCTCCTCGTT
* * * *
38064983 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTC-GGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
*
38065048 TTTAATAACTCGCA
64 CTT-ATAACTCGCA
* * *
38065062 CGAATGCCTTCGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 CAAATGCCTTCGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG-
* *
38065127 ACTTGTATCTCGCA
63 ACTTATAACTCGCA
* * * * *
38065141 CAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCGG
38065206 AC
63 AC
38065208 AGCATTCAAT
Statistics
Matches: 122, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
77 1 0.01
78 25 0.20
79 52 0.43
80 35 0.29
81 9 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (76 bp):
CAAATGCCTTCGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGACT
TATAACTCGCA
Found at i:38065215 original size:41 final size:41
Alignment explanation
Indices: 38065138--38065215 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
38065128 CTTGTATCTC
* * *
38065138 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
38065179 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
38065216 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:38072525 original size:39 final size:40
Alignment explanation
Indices: 38072480--38072703 Score: 233
Period size: 40 Copynumber: 5.7 Consensus size: 40
38072470 GCTCCTCGTT
* * * *
38072480 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
38072520 C-AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
38072559 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
38072599 CAAAGGCCTTCGGG-CTTAACCCGGAACTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
38072638 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
38072679 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
38072704 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 20, Indels: 14
0.82 0.10 0.07
Matches are distributed among these distances:
38 2 0.01
39 66 0.42
40 78 0.50
41 11 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:38072583 original size:79 final size:78
Alignment explanation
Indices: 38072480--38072704 Score: 247
Period size: 79 Copynumber: 2.8 Consensus size: 78
38072470 GCTCCTCGTT
* * *
38072480 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAAGCCTTCGGGACTTAACCCGGA
*
38072545 TTTAATAACTCGCA
66 CTT-ATAACTCGCA
* * * *
38072559 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGG-CTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAA-GCCTTCGGGACTTAACCCGG
* *
38072623 AACTTGTATCTCGCA
65 -ACTTATAACTCGCA
* * * * * *
38072638 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCA-CACAAAGCCTTCGGGACTTAACCCG
38072702 GAC
64 GAC
38072705 AGCATTCAAT
Statistics
Matches: 121, Mismatches: 20, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
78 3 0.02
79 91 0.75
80 27 0.22
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAAGCCTTCGGGACTTAACCCGGA
CTTATAACTCGCA
Found at i:38072712 original size:41 final size:41
Alignment explanation
Indices: 38072635--38072712 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
38072625 CTTGTATCTC
* * *
38072635 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
38072676 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
38072713 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:38077466 original size:29 final size:29
Alignment explanation
Indices: 38077428--38077499 Score: 99
Period size: 29 Copynumber: 2.5 Consensus size: 29
38077418 TGTGAATGGG
*
38077428 CCTAACGGGCCATAAACAGGTGATTTGGC
1 CCTAATGGGCCATAAACAGGTGATTTGGC
* *
38077457 CCTAATGGGCCATATACAGGTGATTTGGG
1 CCTAATGGGCCATAAACAGGTGATTTGGC
* *
38077486 TCTAATGAGCCATA
1 CCTAATGGGCCATA
38077500 TGAATATGAT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (29 bp):
CCTAATGGGCCATAAACAGGTGATTTGGC
Found at i:38079249 original size:68 final size:66
Alignment explanation
Indices: 38079177--38079348 Score: 179
Period size: 67 Copynumber: 2.6 Consensus size: 66
38079167 CATCATGTGT
* * * *
38079177 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
38079240 TGTAG
62 TGTAG
* * *
38079245 ACAAGAGAGCTACGGCATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
38079310 AG
65 AG
* * * *
38079312 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
38079349 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 18 0.20
67 31 0.35
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:38079282 original size:64 final size:64
Alignment explanation
Indices: 38079132--38079384 Score: 203
Period size: 68 Copynumber: 3.9 Consensus size: 64
38079122 ATACAGATAG
* ** * * * *
38079132 TATGTAGCTAGGTCACATGTATGGTGCTGA-GTGCACATCATGT-GTACAAGAGAGCTACAAGAC
1 TATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGCTAC--GGC
38079195 ATTA
62 A-TA
*
38079199 TGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGCATA
1 T-ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGGCATA
* * * * *
38079264 TATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAG-
1 TATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACG-GC
38079328 ATA
62 ATA
* * * *
38079331 AAT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 TATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
38079385 CGAACTATAT
Statistics
Matches: 154, Mismatches: 23, Indels: 22
0.77 0.12 0.11
Matches are distributed among these distances:
62 1 0.01
63 19 0.12
64 25 0.16
65 3 0.02
66 24 0.16
67 34 0.22
68 47 0.31
69 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (64 bp):
TATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGGCATA
Found at i:38082147 original size:17 final size:18
Alignment explanation
Indices: 38082114--38082148 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
38082104 TTTTTAGAAG
38082114 GGTTTTCAACGAAAACAC
1 GGTTTTCAACGAAAACAC
*
38082132 GGTTTTC-ACTAAAACAC
1 GGTTTTCAACGAAAACAC
38082149 TTCAATGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (18 bp):
GGTTTTCAACGAAAACAC
Found at i:38083964 original size:6 final size:6
Alignment explanation
Indices: 38083946--38084033 Score: 74
Period size: 6 Copynumber: 14.3 Consensus size: 6
38083936 AAGAAACATT
* *
38083946 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAG- GTGACAGA ATCAGA ATCAAA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
* *
38083995 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
38084034 GTGAATGCCA
Statistics
Matches: 66, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
5 4 0.06
6 53 0.80
7 7 0.11
8 2 0.03
ACGTcount: A:0.49, C:0.16, G:0.17, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:38083998 original size:37 final size:37
Alignment explanation
Indices: 38083957--38084029 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 37
38083947 TCAGAACTAG
* *
38083957 AATCAGAATCAGAATCAGGTGACAGAATCAGAATCAA
1 AATCAGAATCAGAATCAGGTAACAGAATCAAAATCAA
*
38083994 AATCAGAATCAGTATCAGGTAACAGAATCAAAATCA
1 AATCAGAATCAGAATCAGGTAACAGAATCAAAATCA
38084030 GAATGTGAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.18
Consensus pattern (37 bp):
AATCAGAATCAGAATCAGGTAACAGAATCAAAATCAA
Found at i:38084020 original size:31 final size:29
Alignment explanation
Indices: 38083930--38084033 Score: 111
Period size: 31 Copynumber: 3.4 Consensus size: 29
38083920 TAACCCATTA
* * *
38083930 CAAAATAAGAAACATTATCAGAACTAGAAT
1 CAAAATCAGAATCAGTATCAGAAC-AGAAT
*
38083960 CAGAATCAGAATCAGGTGA-CAGAATCAGAAT
1 CAAAATCAGAATCA-GT-ATCAGAA-CAGAAT
38083991 CAAAATCAGAATCAGTATCAGGTAACAGAAT
1 CAAAATCAGAATCAGTATCA-G-AACAGAAT
38084022 CAAAATCAGAAT
1 CAAAATCAGAAT
38084034 GTGAATGCCA
Statistics
Matches: 63, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
29 1 0.02
30 15 0.24
31 43 0.68
32 4 0.06
ACGTcount: A:0.51, C:0.15, G:0.15, T:0.18
Consensus pattern (29 bp):
CAAAATCAGAATCAGTATCAGAACAGAAT
Found at i:38084200 original size:27 final size:26
Alignment explanation
Indices: 38084152--38084211 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
38084142 GCGAGGCTAC
* *
38084152 CAGATATTGTGACAAAGTCACCATATA
1 CAGATATTGTGACAAAGCCACCAGA-A
* * *
38084179 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACAAAGCCACCAGAA
38084205 CAGATAT
1 CAGATAT
38084212 ATATATGTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACAAAGCCACCAGAA
Found at i:38084258 original size:71 final size:67
Alignment explanation
Indices: 38084179--38084320 Score: 176
Period size: 67 Copynumber: 2.1 Consensus size: 67
38084169 TCACCATATA
* * * *
38084179 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGTGAAGCCACCAGATTGCAGCGA
1 CAGATATTGTGACGAAGCCACCAGAACAG----ATATATGTGGCGAAGCCACCAGATTGCAGCGA
38084244 GACTGC
62 GACTGC
* * * *
38084250 CAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCACCAGATTGTAGCGAGGCT
1 CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAGCGAGACT
38084315 GC
66 GC
38084317 CAGA
1 CAGA
38084321 ACGCTTCCTC
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
67 38 0.60
71 25 0.40
ACGTcount: A:0.31, C:0.21, G:0.28, T:0.20
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAGCGAGACT
GC
Found at i:38084298 original size:27 final size:26
Alignment explanation
Indices: 38084250--38084301 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
38084240 GCGAGACTGC
*
38084250 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
38084276 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
38084302 TTGTAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:38084577 original size:27 final size:27
Alignment explanation
Indices: 38084547--38084823 Score: 304
Period size: 27 Copynumber: 10.3 Consensus size: 27
38084537 GGGGTAAAAT
* * *
38084547 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
38084574 GGTAATTCTACCTTAC-AGAGGTATTTC
1 GGTAATTCTACCCTACAAG-GGTATTTC
* * * *
38084601 AGTAATTTTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
38084628 GATAATTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
38084655 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
**
38084682 AATAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
38084709 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
38084736 GATATTTCTACCCTACAAGAGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
38084763 GATAATTCTACCCAACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
38084790 AGAAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
38084817 GGTAATT
1 GGTAATT
38084824 TTACAAACTA
Statistics
Matches: 209, Mismatches: 39, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
26 2 0.01
27 206 0.99
28 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:38084842 original size:54 final size:54
Alignment explanation
Indices: 38084548--38084823 Score: 360
Period size: 54 Copynumber: 5.1 Consensus size: 54
38084538 GGGTAAAATG
* * * * * *
38084548 GTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCTTAC-AGAGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAAG-GGTATTTCA
* * *
38084602 GTAATTTTACCCTATAGGGGTATTTCGATAATTCTACCTTACAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCA
*
38084656 GTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCA
* *
38084710 GTAATTCTACCCTACAGGGGTATTTCGATATTTCTACCCTACAAGAGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCA
* * * *
38084763 GATAATTCTACCCAACAGGGGTATTTCAGA-AATTCTACCCTATAGGGGTATTTCG
1 G-TAATTCTACCCTACAGGGGTATTTC-GATAATTCTACCCTACAAGGGTATTTCA
38084818 GTAATT
1 GTAATT
38084824 TTACAAACTA
Statistics
Matches: 201, Mismatches: 17, Indels: 8
0.89 0.08 0.04
Matches are distributed among these distances:
53 1 0.00
54 195 0.97
55 5 0.02
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (54 bp):
GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCA
Found at i:38084864 original size:81 final size:81
Alignment explanation
Indices: 38084617--38084869 Score: 228
Period size: 81 Copynumber: 3.1 Consensus size: 81
38084607 TTTACCCTAT
* * * ** * *
38084617 AGGGGTATTTC-GATAATTCTACCTTACAAGGGTATTTC-AGTAATTCTACCCTACAGGGGTATT
1 AGGGGTATTTCAGA-AATTCTACCCTACAGGGGTATTTCGA-TATTTCTACCAAACAAGAGTATT
* **
38084680 TCAATAATTCTACCCTAC
64 TCGATAATTCTACCAAAC
* * **
38084698 AAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGATATTTCTACCCTACAAGAGTATTTC
1 AGGGGTATTTCAGAAATTCTACCCTACAGGGGTATTTCGATATTTCTACCAAACAAGAGTATTTC
*
38084763 GATAATTCTACCCAAC
66 GATAATTCTACCAAAC
* * * *
38084779 AGGGGTATTTCAGAAATTCTACCCTATAGGGGTATTTCGGTAATTT-TA-CAAACTAGGGGTATT
1 AGGGGTATTTCAGAAATTCTACCCTACAGGGGTATTTCGAT-ATTTCTACCAAAC-AAGAGTATT
* * *
38084842 TTGGTAATTTTA-CAAAC
64 TCGATAATTCTACCAAAC
38084859 TAGGGGTATTT
1 -AGGGGTATTT
38084870 TGGTAATTTG
Statistics
Matches: 146, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
80 7 0.05
81 133 0.91
82 6 0.04
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (81 bp):
AGGGGTATTTCAGAAATTCTACCCTACAGGGGTATTTCGATATTTCTACCAAACAAGAGTATTTC
GATAATTCTACCAAAC
Found at i:38084887 original size:27 final size:27
Alignment explanation
Indices: 38084805--38084878 Score: 139
Period size: 27 Copynumber: 2.7 Consensus size: 27
38084795 TTCTACCCTA
*
38084805 TAGGGGTATTTCGGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
38084832 TAGGGGTATTTTGGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
38084859 TAGGGGTATTTTGGTAATTT
1 TAGGGGTATTTTGGTAATTT
38084879 GGTAAACTAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.27, C:0.07, G:0.24, T:0.42
Consensus pattern (27 bp):
TAGGGGTATTTTGGTAATTTTACAAAC
Found at i:38086812 original size:23 final size:23
Alignment explanation
Indices: 38086785--38086848 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
38086775 TACCGATAAA
*
38086785 TCAGCTCGTAAGATCTTACTATT
1 TCAGCTCGTAAGAGCTTACTATT
*
38086808 TCAGCTCATAAGAGCTTACTATT
1 TCAGCTCGTAAGAGCTTACTATT
*
38086831 TTAGCTCGTAAGAGCTTA
1 TCAGCTCGTAAGAGCTTA
38086849 TTGTTTTTAG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (23 bp):
TCAGCTCGTAAGAGCTTACTATT
Found at i:38087177 original size:57 final size:57
Alignment explanation
Indices: 38087085--38087208 Score: 185
Period size: 57 Copynumber: 2.2 Consensus size: 57
38087075 CAAATGAATC
* * * *
38087085 ACTGTTATATGGATGAAGTACTATTTAGACGAATGAGTTATTGTTCTCGAATAAATT
1 ACTGTTATACGGATGAAGTACTATTTAGACAAATGAGTTACTGTTATCGAATAAATT
* *
38087142 ACTGTTATACGGATGAAGTACTGTTTAGACAAATGAGTTACTGTTATCGAATGAATT
1 ACTGTTATACGGATGAAGTACTATTTAGACAAATGAGTTACTGTTATCGAATAAATT
38087199 ACTGATTATA
1 ACTG-TTATA
38087209 TGATTGAGAG
Statistics
Matches: 60, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
57 55 0.92
58 5 0.08
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.37
Consensus pattern (57 bp):
ACTGTTATACGGATGAAGTACTATTTAGACAAATGAGTTACTGTTATCGAATAAATT
Found at i:38087200 original size:18 final size:18
Alignment explanation
Indices: 38087114--38087207 Score: 71
Period size: 18 Copynumber: 5.0 Consensus size: 18
38087104 ACTATTTAGA
* * *
38087114 CGAATGAGTTATTGTTCT
1 CGAATGAATTACTGTTAT
*
38087132 CGAATAAATTACTGTTAT
1 CGAATGAATTACTGTTAT
* * *
38087150 ACGGATGAAGTACTGTTTAGA
1 -CGAATGAATTACTG-TTA-T
* *
38087171 CAAATGAGTTACTGTTAT
1 CGAATGAATTACTGTTAT
38087189 CGAATGAATTACTGATTAT
1 CGAATGAATTACTG-TTAT
38087208 ATGATTGAGA
Statistics
Matches: 57, Mismatches: 15, Indels: 7
0.72 0.19 0.09
Matches are distributed among these distances:
18 26 0.46
19 18 0.32
20 13 0.23
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (18 bp):
CGAATGAATTACTGTTAT
Found at i:38089011 original size:30 final size:30
Alignment explanation
Indices: 38088975--38089035 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
38088965 TGGCCATATG
38088975 TATATCATTCAATTGGCTATTGGTAGGGCT
1 TATATCATTCAATTGGCTATTGGTAGGGCT
38089005 TATATCATTCAATTGGCTATTGGTAGGGCT
1 TATATCATTCAATTGGCTATTGGTAGGGCT
38089035 T
1 T
38089036 CATTGCGATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.23, C:0.13, G:0.23, T:0.41
Consensus pattern (30 bp):
TATATCATTCAATTGGCTATTGGTAGGGCT
Found at i:38101248 original size:19 final size:18
Alignment explanation
Indices: 38101215--38101257 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
38101205 GGGGCCCTCA
* *
38101215 GGCCCATTGGGCCAACAT
1 GGCCCATTCGGCCAAAAT
38101233 GGCCCAGTTCGGCCAAAAT
1 GGCCCA-TTCGGCCAAAAT
38101252 GGCCCA
1 GGCCCA
38101258 ATATCGTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.23, C:0.35, G:0.28, T:0.14
Consensus pattern (18 bp):
GGCCCATTCGGCCAAAAT
Found at i:38108908 original size:34 final size:34
Alignment explanation
Indices: 38108860--38108924 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
38108850 GTATCAGTTA
* * *
38108860 GGCCTTAGCCCATTACAGTAACAGTAGCAGTTTG
1 GGCCTGAGCACATTACAGTAACAATAGCAGTTTG
* *
38108894 GGCCTGAGCACATTACGGTTACAATAGCAGT
1 GGCCTGAGCACATTACAGTAACAATAGCAGT
38108925 GGGGCCTAAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.25
Consensus pattern (34 bp):
GGCCTGAGCACATTACAGTAACAATAGCAGTTTG
Found at i:38128411 original size:13 final size:13
Alignment explanation
Indices: 38128395--38128419 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38128385 TTAAATTAGT
38128395 TAATTAGTTTAAA
1 TAATTAGTTTAAA
38128408 TAATTAGTTTAA
1 TAATTAGTTTAA
38128420 TAAACAAACC
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TAATTAGTTTAAA
Found at i:38128824 original size:21 final size:21
Alignment explanation
Indices: 38128794--38128839 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
38128784 ACCTCAAAGG
*
38128794 TGTGTTGCGACATCCCTTGGT
1 TGTGTCGCGACATCCCTTGGT
*
38128815 TGTGTCGCGATATCCCTTGGT
1 TGTGTCGCGACATCCCTTGGT
38128836 TGTG
1 TGTG
38128840 GTGCATCACC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.09, C:0.22, G:0.30, T:0.39
Consensus pattern (21 bp):
TGTGTCGCGACATCCCTTGGT
Found at i:38132001 original size:43 final size:43
Alignment explanation
Indices: 38131953--38132119 Score: 124
Period size: 43 Copynumber: 3.9 Consensus size: 43
38131943 GTTACTGAGA
38131953 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* * * ** * *
38131996 TGTGATTACGTGTCATACCATGTCTGAAACTTTGGCATCGT-T
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* *** * * *
38132038 TATCGATTTTGTGTACGACCCTGTCTGGGACAGTGGCATTG-AT
1 TGT-GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* * * * *
38132081 ATGTGATAACATGTAAAACCATATTTGGGATA-TGGCATT
1 -TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATT
38132120 ATACGAGCTA
Statistics
Matches: 91, Mismatches: 30, Indels: 7
0.71 0.23 0.05
Matches are distributed among these distances:
42 10 0.11
43 79 0.87
44 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
Found at i:38139555 original size:28 final size:28
Alignment explanation
Indices: 38139520--38139579 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 28
38139510 ATGTCATGCC
*
38139520 AATAGGTTATTGAGATGTGATTACATGT
1 AATAGGTTAATGAGATGTGATTACATGT
38139548 AATAGGTTAATGAGATGTGATTACATGT
1 AATAGGTTAATGAGATGTGATTACATGT
38139576 AATA
1 AATA
38139580 CCATGTCTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.37, C:0.03, G:0.23, T:0.37
Consensus pattern (28 bp):
AATAGGTTAATGAGATGTGATTACATGT
Found at i:38145325 original size:31 final size:31
Alignment explanation
Indices: 38145290--38145369 Score: 106
Period size: 31 Copynumber: 2.5 Consensus size: 31
38145280 TATCAGAACT
* * *
38145290 AGAATCTGAATTAGAATCAAAATCAGGTGAC
1 AGAATCAGAATCAGAATCAAAATCAGGTAAC
*
38145321 AGAATCAGAATCAGAATCAATATCAGGTAAC
1 AGAATCAGAATCAGAATCAAAATCAGGTAAC
*
38145352 AGAATCAAAAATCAGAAT
1 AGAATC-AGAATCAGAAT
38145370 ATGAATGCAA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
31 33 0.77
32 10 0.23
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAAAATCAGGTAAC
Found at i:38145548 original size:27 final size:26
Alignment explanation
Indices: 38145506--38145587 Score: 110
Period size: 27 Copynumber: 3.1 Consensus size: 26
38145496 GCTCAGTTAT
** *
38145506 CAGATATTGTTACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
38145533 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
38145559 CAGATATTTGTGGCATAGCCACCAGAA
1 CAGATA-TTGTGGCAGAGCCACCAGAA
38145586 CA
1 CA
38145588 AAATACGTGG
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
26 7 0.14
27 43 0.86
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:38145768 original size:22 final size:22
Alignment explanation
Indices: 38145740--38145803 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
38145730 GCAAATACGT
*
38145740 TTGGCACACAGCCATAATCAAG
1 TTGGCACAAAGCCATAATCAAG
* * *
38145762 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAAG
*
38145784 TTGACACAAAGCCATAATCA
1 TTGGCACAAAGCCATAATCA
38145804 GAAGGCTTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAAG
Found at i:38146289 original size:27 final size:27
Alignment explanation
Indices: 38146258--38146983 Score: 910
Period size: 27 Copynumber: 26.9 Consensus size: 27
38146248 AGGCATCTCG
* *
38146258 GTAATTCCACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
38146285 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
38146312 GTAATTCTACCCTACAGGGGAATTGC-
1 GTAATTCTACCCTACAGGGGTATTTCA
*
38146338 GATAATTCTACCCTACAGGGATATTTCA
1 G-TAATTCTACCCTACAGGGGTATTTCA
*
38146366 GTAATTCTACCCTACAGGGGTATTGTGA
1 GTAATTCTACCCTACAGGGGTATT-TCA
**
38146394 -TAATTCTACCCTACAGGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
38146420 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
38146447 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
38146474 GTAATTCTACCCTACAGGGATATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
38146501 GTAATTCTACCCTACAGGGGTATTGC-
1 GTAATTCTACCCTACAGGGGTATTTCA
* * **
38146527 GATAATTCTACCTTATAGGGGTATTTTG
1 G-TAATTCTACCCTACAGGGGTATTTCA
* *
38146555 GTAATTCTACCCTATAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
38146582 GTAATTCTACCCTATAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
38146609 GTAATTCTACTCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
38146636 GTAATTCTATCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
38146663 ATAATTCTACCATATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
38146690 GTAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
38146717 GTAATTTTACCCTACAAGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
*
38146743 GATAATTCTACCTTACAGGGGTATTTCA
1 G-TAATTCTACCCTACAGGGGTATTTCA
* *
38146771 GTAATTCTACTCTATAGGGGTA-TTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
38146797 GTAATTCTACCTTACTA-GGGTATTTAA
1 GTAATTCTACCCTAC-AGGGGTATTTCA
* **
38146824 GTAATTCTACCCTACAAGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
38146851 GTAATTCTACCTTACTGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
38146878 GTAAATT-TACCCTACAGGGGTATTTCG
1 GT-AATTCTACCCTACAGGGGTATTTCA
*
38146905 GTAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
38146932 GTAATTCTACCTTACAGGGATATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
38146958 GATAATTCTACCTTATAGGGGTATTT
1 G-TAATTCTACCCTACAGGGGTATTT
38146984 TGATAATTTT
Statistics
Matches: 621, Mismatches: 64, Indels: 28
0.87 0.09 0.04
Matches are distributed among these distances:
26 31 0.05
27 581 0.94
28 9 0.01
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:38147053 original size:27 final size:27
Alignment explanation
Indices: 38146976--38147046 Score: 115
Period size: 27 Copynumber: 2.6 Consensus size: 27
38146966 TACCTTATAG
* *
38146976 GGGTATTTTGATAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
*
38147003 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
38147030 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
38147047 GGTAAACTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAA
Found at i:38148784 original size:50 final size:49
Alignment explanation
Indices: 38148674--38148856 Score: 213
Period size: 50 Copynumber: 3.7 Consensus size: 49
38148664 CTGGTACGCA
* ***
38148674 TAGTAGCCTGCACATAGTACTACACATACGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
** * *
38148723 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * * * *
38148773 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTATCCGGTACACG
*
38148824 TAGTAGCCTGCACTTAGTACTACACATGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
38148857 TCACAATAGA
Statistics
Matches: 114, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
49 30 0.26
50 44 0.39
51 39 0.34
52 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:38148848 original size:101 final size:99
Alignment explanation
Indices: 38148674--38148857 Score: 260
Period size: 101 Copynumber: 1.8 Consensus size: 99
38148664 CTGGTACGCA
* *
38148674 TAGTAGCCTGCACATAGTACTACACATACGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACATAGTACTACACACACGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
38148739 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGTGACCTAACCATCTGATACACG
* ** * * * *
38148773 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACATAGTACTACACACACGA-C-CAATTATCCGGTACACATAGTAGCCTGCACT
*
38148838 TAGTACTACACATGTGACCT
64 TAGTACTACACACGTGACCT
38148858 CACAATAGAT
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
99 27 0.37
100 1 0.01
101 45 0.62
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACATAGTACTACACACACGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
GTACTACACACGTGACCTAACCATCTGATACACG
Found at i:38151023 original size:15 final size:15
Alignment explanation
Indices: 38150965--38151029 Score: 66
Period size: 15 Copynumber: 4.4 Consensus size: 15
38150955 TAAAGATAAT
*
38150965 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
38150979 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
38150994 GAA-AAA-CCTAGAATA
1 -AAGAAATCC-AGAATA
38151009 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
38151024 AAGAAA
1 AAGAAA
38151030 CCCAAGATAC
Statistics
Matches: 43, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
14 13 0.30
15 25 0.58
16 5 0.12
ACGTcount: A:0.63, C:0.12, G:0.14, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:38154135 original size:50 final size:49
Alignment explanation
Indices: 38154025--38154154 Score: 181
Period size: 50 Copynumber: 2.6 Consensus size: 49
38154015 CTGGTACGCA
* * * **
38154025 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCTGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCCTGTACACG
*
38154074 TAGTAGCCTGCACTTAGTCCTACACACGTGACCTAACCA-CCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AACCATCCTG-TACACG
38154124 TAGTAGCCTGCACTTAGTACTACACACGTGA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA
38154155 TCACAGTTTT
Statistics
Matches: 72, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
49 33 0.46
50 39 0.54
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCCTGTACACG
Found at i:38164716 original size:12 final size:12
Alignment explanation
Indices: 38164699--38164727 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
38164689 TGATTGATTG
38164699 CTTAACTAATTA
1 CTTAACTAATTA
38164711 CTTAACTAATTA
1 CTTAACTAATTA
38164723 CTTAA
1 CTTAA
38164728 TCAAGTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.41, C:0.17, G:0.00, T:0.41
Consensus pattern (12 bp):
CTTAACTAATTA
Found at i:38168989 original size:45 final size:45
Alignment explanation
Indices: 38168938--38169023 Score: 127
Period size: 45 Copynumber: 1.9 Consensus size: 45
38168928 CAAAACATGT
* *
38168938 GTCACATATATCACGAACTCAGACCATAACTCAATGAGTTCGGAC
1 GTCACATATATCACGAACTCAAACCACAACTCAATGAGTTCGGAC
* * *
38168983 GTCACATATGTCATGAACTCAAACCACAACTTAATGAGTTC
1 GTCACATATATCACGAACTCAAACCACAACTCAATGAGTTC
38169024 AAATTACATA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.36, C:0.26, G:0.14, T:0.24
Consensus pattern (45 bp):
GTCACATATATCACGAACTCAAACCACAACTCAATGAGTTCGGAC
Found at i:38171616 original size:18 final size:18
Alignment explanation
Indices: 38171590--38171636 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
38171580 ACCATCGGAG
38171590 TCACTCAGAAAATCCTGT
1 TCACTCAGAAAATCCTGT
*
38171608 TCCCTCAGAAAATCCTGT
1 TCACTCAGAAAATCCTGT
38171626 TCACTCAGAAA
1 TCACTCAGAAA
38171637 CAACCATCGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.34, C:0.30, G:0.11, T:0.26
Consensus pattern (18 bp):
TCACTCAGAAAATCCTGT
Found at i:38174833 original size:41 final size:41
Alignment explanation
Indices: 38174776--38174853 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
38174766 AGAGACTAAA
* *
38174776 CAGAAAGTGAAAGTGATTCGTGAAAGTCTGAAAGCAGTGAG
1 CAGAAAGTGAAAGTGATTCATGAAAGTCTAAAAGCAGTGAG
38174817 CAGAAAGTGAAAGTGATTCATGAAAGTCTAAAAGCAG
1 CAGAAAGTGAAAGTGATTCATGAAAGTCTAAAAGCAG
38174854 CGTCAAATGG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.42, C:0.10, G:0.28, T:0.19
Consensus pattern (41 bp):
CAGAAAGTGAAAGTGATTCATGAAAGTCTAAAAGCAGTGAG
Found at i:38176666 original size:42 final size:42
Alignment explanation
Indices: 38176583--38176718 Score: 130
Period size: 43 Copynumber: 3.2 Consensus size: 42
38176573 ACCTAGGATG
* * * * *
38176583 TTGGCATCGATTTGTGATTTACGTGTAAGACCATGTTTGGGACA
1 TTGGCATCG-TATATGATTT-CATGTAAGACCCTGTCTGGGACA
*
38176627 TTGGCATCGTATATGATTTCATGTAAGACCCTGTCTGGGATA
1 TTGGCATCGTATATGATTTCATGTAAGACCCTGTCTGGGACA
* * * * *
38176669 GTGGCATCAATATTTGATTACATGTAAGACCAC-GTCTGGGACG
1 TTGGCATC-GTATATGATTTCATGTAAGACC-CTGTCTGGGACA
38176712 TTGGCAT
1 TTGGCAT
38176719 TGTACGAGCT
Statistics
Matches: 77, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
42 26 0.34
43 41 0.53
44 10 0.13
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (42 bp):
TTGGCATCGTATATGATTTCATGTAAGACCCTGTCTGGGACA
Found at i:38182632 original size:70 final size:70
Alignment explanation
Indices: 38182519--38182662 Score: 254
Period size: 70 Copynumber: 2.1 Consensus size: 70
38182509 TTACAAGGCG
38182519 AATTTGCCACCCATTTTGGGTCCTCCCTACAAGCATCAAATCCACATCATTTTATACCAAATG-T
1 AATTTGCCACCCATTTTGGGTCCTCCCTACAAGCATCAAATCCACATCATTTTATACCAAATGTT
38182583 TAAGCC
66 TAA-CC
* *
38182589 AATTTTCCACCCATTTTGGGTCCTCCCTACAAGCATCAAATCCATATCATTTTATACCAAATGTT
1 AATTTGCCACCCATTTTGGGTCCTCCCTACAAGCATCAAATCCACATCATTTTATACCAAATGTT
38182654 TAACC
66 TAACC
38182659 AATT
1 AATT
38182663 CACAAACAAA
Statistics
Matches: 71, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
70 67 0.94
71 4 0.06
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.33
Consensus pattern (70 bp):
AATTTGCCACCCATTTTGGGTCCTCCCTACAAGCATCAAATCCACATCATTTTATACCAAATGTT
TAACC
Found at i:38183612 original size:13 final size:13
Alignment explanation
Indices: 38183590--38183622 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
38183580 AAGGGTTTGT
38183590 TTAT-TAAACTAA
1 TTATCTAAACTAA
38183602 TTATCTAAACTAA
1 TTATCTAAACTAA
*
38183615 TTAACTAA
1 TTATCTAA
38183623 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:38191600 original size:13 final size:13
Alignment explanation
Indices: 38191578--38191610 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
38191568 AAGGGTTTGT
38191578 TTAT-TAAACTAA
1 TTATCTAAACTAA
38191590 TTATCTAAACTAA
1 TTATCTAAACTAA
*
38191603 TTAACTAA
1 TTATCTAA
38191611 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:38193186 original size:40 final size:40
Alignment explanation
Indices: 38193132--38193306 Score: 305
Period size: 40 Copynumber: 4.4 Consensus size: 40
38193122 CGGATGTAAC
*
38193132 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
38193172 AACCCGCACAAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
** *
38193212 AACTGGCACGAATGCCTTTGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
38193252 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
38193292 AACCCGCACGAATGC
1 AACCCGCACGAATGC
38193307 TATGCACATA
Statistics
Matches: 126, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 126 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:38195945 original size:40 final size:40
Alignment explanation
Indices: 38195890--38195971 Score: 137
Period size: 40 Copynumber: 2.0 Consensus size: 40
38195880 TTTATCGACC
*
38195890 GTTGGGTTTCTAGGTTCTCACGAGTAGTGGTGGAATGCAA
1 GTTGGGTTTCTAGGTTCTCACGAGAAGTGGTGGAATGCAA
* *
38195930 GTTGGGTTTTTAGGTTCTCACGAGAAGTGGTGGAGTGCAA
1 GTTGGGTTTCTAGGTTCTCACGAGAAGTGGTGGAATGCAA
38195970 GT
1 GT
38195972 ATTTTAGAGG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.20, C:0.11, G:0.37, T:0.33
Consensus pattern (40 bp):
GTTGGGTTTCTAGGTTCTCACGAGAAGTGGTGGAATGCAA
Found at i:38196793 original size:27 final size:27
Alignment explanation
Indices: 38196762--38196951 Score: 247
Period size: 27 Copynumber: 7.1 Consensus size: 27
38196752 ACCCTAAATT
38196762 AGGTAAAATGACCGTAATGCCCCTATA
1 AGGTAAAATGACCGTAATGCCCCTATA
*
38196789 AGGTAAAATAACCGTAATGCCCCTATA
1 AGGTAAAATGACCGTAATGCCCCTATA
*
38196816 AGGTAAAATGACCGTAATGCCCTTATA
1 AGGTAAAATGACCGTAATGCCCCTATA
*
38196843 AGGTAAAATGACCGTAATGCCCCTGTA
1 AGGTAAAATGACCGTAATGCCCCTATA
* * ** *
38196870 GGGTAATATGACCGTAATGCCTTTGTA
1 AGGTAAAATGACCGTAATGCCCCTATA
* * * * *
38196897 GGGTAAAATGATCGTAATACCCATGTA
1 AGGTAAAATGACCGTAATGCCCCTATA
*
38196924 GGGTAAAATGACCGTAATG-CCCTATA
1 AGGTAAAATGACCGTAATGCCCCTATA
38196950 AG
1 AG
38196952 ATTTAAGGTA
Statistics
Matches: 144, Mismatches: 19, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
26 6 0.04
27 138 0.96
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
AGGTAAAATGACCGTAATGCCCCTATA
Found at i:38197298 original size:33 final size:33
Alignment explanation
Indices: 38197256--38197326 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
38197246 ATTGCATTAC
*
38197256 ACTGTACTGATACTGTATAGGGCTAAGGCCCAG
1 ACTGTACTGATACTGAATAGGGCTAAGGCCCAG
*
38197289 ACTGTACTGATACTGAATAGGGCTCAGGCCCAG
1 ACTGTACTGATACTGAATAGGGCTAAGGCCCAG
38197322 ACTGT
1 ACTGT
38197327 TACTAATCTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.24
Consensus pattern (33 bp):
ACTGTACTGATACTGAATAGGGCTAAGGCCCAG
Found at i:38198599 original size:43 final size:42
Alignment explanation
Indices: 38198527--38198687 Score: 125
Period size: 43 Copynumber: 3.8 Consensus size: 42
38198517 CAATGACAAC
* *
38198527 GTCCCAGAC-GTGGTCTTACATGTAATCAAATATAGATGCC-ATT
1 GTCCCAGACAG-GGTCTTACACGAAATCAAATA-AGATGCCGA-T
* * *
38198570 GTCCTAGATAGGGTCTTACACGAAATCAAATACGATGCCGAT
1 GTCCCAGACAGGGTCTTACACGAAATCAAATAAGATGCCGAT
* * **
38198612 GTCCCAGACATGGTCTTACATGTAAAT--AATAAGTCGATGCTAAT
1 GTCCCAGACAGGGTCTTACACG-AAATCAAATAA---GATGCCGAT
*
38198656 GTCCCAGAC-GTGGTTTTACACGAAATCAAATA
1 GTCCCAGACAG-GGTCTTACACGAAATCAAATA
38198688 TCGAATCCTA
Statistics
Matches: 94, Mismatches: 15, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
41 4 0.04
42 25 0.27
43 35 0.37
44 26 0.28
45 4 0.04
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.27
Consensus pattern (42 bp):
GTCCCAGACAGGGTCTTACACGAAATCAAATAAGATGCCGAT
Found at i:38200216 original size:34 final size:34
Alignment explanation
Indices: 38200173--38200240 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
38200163 ACTAAAAATG
38200173 TTGAATTTGATAATATATAGACCAAGATAAGCTA
1 TTGAATTTGATAATATATAGACCAAGATAAGCTA
38200207 TTGAATTTGATAATATATAGACCAAGATAAGCTA
1 TTGAATTTGATAATATATAGACCAAGATAAGCTA
38200241 AGTTCGGGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.44, C:0.09, G:0.15, T:0.32
Consensus pattern (34 bp):
TTGAATTTGATAATATATAGACCAAGATAAGCTA
Found at i:38200371 original size:20 final size:20
Alignment explanation
Indices: 38200331--38200372 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
38200321 ACCAAACTTT
*
38200331 AAATTAATTGTATGTATTTG
1 AAATTAATTGTATGTAATTG
38200351 AAATTAA-TGTATGTAGATTG
1 AAATTAATTGTATGTA-ATTG
38200371 AA
1 AA
38200373 TATAAGTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.43
Consensus pattern (20 bp):
AAATTAATTGTATGTAATTG
Found at i:38200614 original size:22 final size:23
Alignment explanation
Indices: 38200533--38200613 Score: 121
Period size: 23 Copynumber: 3.6 Consensus size: 23
38200523 TAGCTCGTAT
38200533 GAGCTTACCGTTTCAGCTCTTCAG
1 GAGCTTACCGTTTCAGCTCTTC-G
*
38200557 G-GCTTACCGTTTCAGCTCTACG
1 GAGCTTACCGTTTCAGCTCTTCG
38200579 GAGCTTACCGTTT-AGCTCTTCG
1 GAGCTTACCGTTTCAGCTCTTCG
*
38200601 GAGCTTACTGTTT
1 GAGCTTACCGTTT
38200614 ATCAGCTCAG
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
22 22 0.42
23 30 0.57
24 1 0.02
ACGTcount: A:0.15, C:0.27, G:0.22, T:0.36
Consensus pattern (23 bp):
GAGCTTACCGTTTCAGCTCTTCG
Found at i:38203333 original size:21 final size:20
Alignment explanation
Indices: 38203303--38203347 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
38203293 TTGGGGTCGA
*
38203303 TGGG-CCATATGAATGTGATT
1 TGGGCCCATATGAATGAGA-T
38203323 TGGGCCCATATGAATGAGAT
1 TGGGCCCATATGAATGAGAT
38203343 TGGGC
1 TGGGC
38203348 TTAGTGGGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.24, C:0.13, G:0.33, T:0.29
Consensus pattern (20 bp):
TGGGCCCATATGAATGAGAT
Found at i:38207567 original size:16 final size:16
Alignment explanation
Indices: 38207546--38207576 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
38207536 AAAAAATCCC
38207546 GAAATGCCGAAAAGTT
1 GAAATGCCGAAAAGTT
*
38207562 GAAATGCCTAAAAGT
1 GAAATGCCGAAAAGT
38207577 CAGAAGTTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.13, G:0.23, T:0.19
Consensus pattern (16 bp):
GAAATGCCGAAAAGTT
Found at i:38207829 original size:20 final size:21
Alignment explanation
Indices: 38207792--38207830 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
38207782 ATTGCATGAC
*
38207792 TATGAATGTGATTTGGGCCCA
1 TATGAATGAGATTTGGGCCCA
38207813 TATGAATGAGA-TTGGGCC
1 TATGAATGAGATTTGGGCC
38207831 TAGTGGGCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.26, C:0.13, G:0.31, T:0.31
Consensus pattern (21 bp):
TATGAATGAGATTTGGGCCCA
Done.