Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold615
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: 96016
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Found at i:2611 original size:20 final size:20
Alignment explanation
Indices: 2588--2627 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
2578 TAAGTACAAA
*
2588 ATAATTATTTT-ATAATAATT
1 ATAATT-TTTTGAAAATAATT
2608 ATAATTTTTTGAAAATAATT
1 ATAATTTTTTGAAAATAATT
2628 TTACCGAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (20 bp):
ATAATTTTTTGAAAATAATT
Found at i:3086 original size:11 final size:11
Alignment explanation
Indices: 3070--3101 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
3060 TACATAATAT
3070 ATAAAAATAAA
1 ATAAAAATAAA
3081 ATAAAAATAAA
1 ATAAAAATAAA
3092 ATAAACAATA
1 ATAAA-AATA
3102 TGTTACAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 16 0.80
12 4 0.20
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (11 bp):
ATAAAAATAAA
Found at i:7544 original size:37 final size:36
Alignment explanation
Indices: 7484--7561 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 36
7474 TTATTACGAA
* *
7484 GTCTTACCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCGGACAAAATCTCCACACGAAGTCATCGG
*
7520 GTCTTACCCGGACAAAAATC-CCACACGTAGTCATCGG
1 GTCTTA-CCGGAC-AAAATCTCCACACGAAGTCATCGG
7557 GTCTT
1 GTCTT
7562 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
36 6 0.16
37 26 0.70
38 5 0.14
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.24
Consensus pattern (36 bp):
GTCTTACCGGACAAAATCTCCACACGAAGTCATCGG
Found at i:7837 original size:47 final size:47
Alignment explanation
Indices: 7681--8058 Score: 586
Period size: 47 Copynumber: 8.1 Consensus size: 47
7671 CCCTTCGGGA
* * * * * * *
7681 CTTATCACATTTATGCAC-TTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
**
7727 C-CGTCACATATATACACTTTCACATTCATCACATC-GCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
7772 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
7818 CTTATTACATATATAACAC-TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATAT-ACACTTTCACATTCATCACATCGGCCATTAGGC
7865 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
7912 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
7959 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
8006 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
8055 CTTA
1 CTTA
8059 CTATCATTTC
Statistics
Matches: 307, Mismatches: 17, Indels: 13
0.91 0.05 0.04
Matches are distributed among these distances:
45 21 0.07
46 91 0.30
47 153 0.50
49 42 0.14
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:11524 original size:25 final size:25
Alignment explanation
Indices: 11496--11547 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
11486 AAGGAATTCG
11496 CACACACACAGTGCCTCTAATT-ATT
1 CACACACACAGTG-CTCTAATTCATT
* * *
11521 CACATACATAGTGCTCTTATTCATT
1 CACACACACAGTGCTCTAATTCATT
11546 CA
1 CA
11548 TTAATACACA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 7 0.30
25 16 0.70
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.33
Consensus pattern (25 bp):
CACACACACAGTGCTCTAATTCATT
Found at i:11809 original size:80 final size:80
Alignment explanation
Indices: 11715--12026 Score: 439
Period size: 80 Copynumber: 3.9 Consensus size: 80
11705 ACACGTCACC
* * * *
11715 AGCATGATTGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAG
1 AGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAG
11780 CCCGGATACATCGCT
66 CCCGGATACATCGCT
* * *
11795 AGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCGCTAGCATGAATGCTCTTCGGGACTTAG
1 AGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAG
* *
11860 CCTGGATACATCACT
66 CCCGGATACATCGCT
* * *
11875 AGCATGAATGCTCTTCGGGACTTAGCCCGAATACATCACTAGCATGAATGCTCTTCGGGACTTAG
1 AGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAG
11940 CCCGGATACATCGCT
66 CCCGGATACATCGCT
** * * *
11955 AGCATGAATGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC-AATGC-CTTCGGATCTTA
1 AGCATGAATGCTCTTCGGGACTTAGCCCGGATACA-TCACTAGCACGAATGCTCTTCGGAACTTA
*
12018 GTCCGGATA
65 GCCCGGATA
12027 TGGTCACTTA
Statistics
Matches: 209, Mismatches: 22, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
79 18 0.09
80 184 0.88
81 7 0.03
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (80 bp):
AGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAG
CCCGGATACATCGCT
Found at i:12005 original size:40 final size:40
Alignment explanation
Indices: 11710--11986 Score: 446
Period size: 40 Copynumber: 6.9 Consensus size: 40
11700 CGAATACACG
* * * * *
11710 TCACCAGCATGATTGCTCTTCGGGATTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
11750 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
11790 TCGCTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
11830 TCGCTAGCATGAATGCTCTTCGGGACTTAGCCTGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
11870 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGAATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
11910 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
11950 TCGCTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
11987 TTAGTAACTC
Statistics
Matches: 221, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 221 1.00
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:12005 original size:120 final size:119
Alignment explanation
Indices: 11715--12018 Score: 457
Period size: 120 Copynumber: 2.5 Consensus size: 119
11705 ACACGTCACC
* * *
11715 AGCATGATTGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAG
1 AGCATGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAGCAC-AATGCTCTTCGGAACTTAG
* *
11780 CCCGGATACATCGCTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCGCT
65 CCCGAATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCGCT
* * * *
11835 AGCATGAATGCTCTTCGGGACTTAGCCTGGATACATCACTAGCATGAATGCTCTTCGGGACTTAG
1 AGCATGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAGCA-CAATGCTCTTCGGAACTTAG
11900 CCCGAATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCGCT
65 CCCGAATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCGCT
* * * *
11955 AGCATGAATGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAATGC-CTTCGGATCTTAG
1 AGCATGAATGCTCTTCGGGACTTAGCCCGGATATA-TCACTAGCACAATGCTCTTCGGAACTTAG
12019 TCCGGATATG
Statistics
Matches: 165, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
119 11 0.07
120 147 0.89
121 7 0.04
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (119 bp):
AGCATGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACAATGCTCTTCGGAACTTAGC
CCGAATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCGCT
Found at i:12414 original size:29 final size:29
Alignment explanation
Indices: 12375--12453 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
12365 CTTAATAATC
*
12375 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
12405 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
12434 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
12454 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:12494 original size:42 final size:43
Alignment explanation
Indices: 12435--12536 Score: 197
Period size: 42 Copynumber: 2.4 Consensus size: 43
12425 TGCATTTCAA
12435 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTA-T
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
12477 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
12520 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
12537 TGAAAACCAA
Statistics
Matches: 59, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 41 0.69
43 18 0.31
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:13110 original size:9 final size:9
Alignment explanation
Indices: 13096--13125 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
13086 TCTGTGCCAT
13096 CAACATGGC
1 CAACATGGC
13105 CAACATGGC
1 CAACATGGC
13114 CAACATGGC
1 CAACATGGC
13123 CAA
1 CAA
13126 TGTGATTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.37, C:0.33, G:0.20, T:0.10
Consensus pattern (9 bp):
CAACATGGC
Found at i:14586 original size:13 final size:13
Alignment explanation
Indices: 14564--14597 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
14554 GTTTCAAGTC
* *
14564 ATGTTCTAAAGCT
1 ATGTTTTAAAGAT
14577 ATGTTTTAAAGAT
1 ATGTTTTAAAGAT
14590 ATGTTTTA
1 ATGTTTTA
14598 TGCGTGCTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.32, C:0.06, G:0.15, T:0.47
Consensus pattern (13 bp):
ATGTTTTAAAGAT
Found at i:17318 original size:22 final size:21
Alignment explanation
Indices: 17293--17372 Score: 72
Period size: 22 Copynumber: 3.7 Consensus size: 21
17283 AAAATCAAAA
17293 TTTTATTTTAAAATATTAAACT
1 TTTTATTTTAAAA-ATTAAACT
** * *
17315 TTTTCCTTTAAAAAATAGA-T
1 TTTTATTTTAAAAATTAAACT
17335 TTTTATTTCTAAAAATCTAAACT
1 TTTTATTT-TAAAAAT-TAAACT
*
17358 TTCTTTTTTTAAAAA
1 TT-TTATTTTAAAAA
17373 AATAAAAAAT
Statistics
Matches: 45, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
20 7 0.16
21 10 0.22
22 14 0.31
23 9 0.20
24 5 0.11
ACGTcount: A:0.39, C:0.09, G:0.01, T:0.51
Consensus pattern (21 bp):
TTTTATTTTAAAAATTAAACT
Found at i:23652 original size:21 final size:21
Alignment explanation
Indices: 23626--23666 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
23616 AGACGAGCAA
* *
23626 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
23647 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
23667 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:27737 original size:50 final size:50
Alignment explanation
Indices: 27613--27861 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
27603 GATAATAACA
* * ** * *
27613 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
27664 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
27714 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
27764 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
27819 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
27862 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:27791 original size:100 final size:104
Alignment explanation
Indices: 27612--27861 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
27602 TGATAATAAC
**
27612 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
27677 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
27714 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
27777 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
27819 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
27862 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:27977 original size:13 final size:13
Alignment explanation
Indices: 27956--27987 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
27946 GCTTGGATCA
*
27956 TCATCAAATAAAT
1 TCATAAAATAAAT
27969 TCATAAAATAAAT
1 TCATAAAATAAAT
27982 TCATAA
1 TCATAA
27988 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:28234 original size:30 final size:30
Alignment explanation
Indices: 28199--28256 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
28189 CCTCGACTCT
*
28199 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
28229 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
28257 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:35319 original size:50 final size:50
Alignment explanation
Indices: 35195--35443 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
35185 GATAATAACA
* * ** * *
35195 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
35246 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
35296 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
35346 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
35401 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
35444 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:35373 original size:100 final size:104
Alignment explanation
Indices: 35194--35443 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
35184 TGATAATAAC
**
35194 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
35259 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
35296 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
35359 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
35401 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
35444 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:35559 original size:13 final size:13
Alignment explanation
Indices: 35538--35569 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
35528 GCTTGGATCA
*
35538 TCATCAAATAAAT
1 TCATAAAATAAAT
35551 TCATAAAATAAAT
1 TCATAAAATAAAT
35564 TCATAA
1 TCATAA
35570 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:35816 original size:30 final size:30
Alignment explanation
Indices: 35781--35838 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
35771 CCTCGACTCT
*
35781 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
35811 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
35839 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:38217 original size:20 final size:19
Alignment explanation
Indices: 38189--38282 Score: 73
Period size: 20 Copynumber: 4.7 Consensus size: 19
38179 GGATGTGACA
*
38189 CAAACAGAGGCACAAATGTG
1 CAAATAGAGGCACAAA-GTG
* *
38209 CAAATAGAGGTACCGAAGTG
1 CAAATAGAGGCA-CAAAGTG
* *
38229 CAAATGGAGGCACTTAAGTG
1 CAAATAGAGGCAC-AAAGTG
*
38249 CAAATCA-AGGCACGAATGTG
1 CAAAT-AGAGGCAC-AAAGTG
*
38269 CAAATAGAGACACA
1 CAAATAGAGGCACA
38283 TATATGCGAA
Statistics
Matches: 59, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
19 3 0.05
20 53 0.90
21 3 0.05
ACGTcount: A:0.43, C:0.18, G:0.26, T:0.14
Consensus pattern (19 bp):
CAAATAGAGGCACAAAGTG
Found at i:40153 original size:214 final size:214
Alignment explanation
Indices: 39757--40153 Score: 530
Period size: 214 Copynumber: 1.9 Consensus size: 214
39747 AGATGATTAC
* * * *
39757 AAACCCAACTTTGTAAATATTCATTAAAAAAATTATTAATTAAAAATTATAATAGGTTCACAATC
1 AAACCCAACTTTCTAAAAATTCATAAAAAAAATTATTAATTAAAAATTATAATAGATTCACAATC
* * * * * *
39822 TCTTTAGATGACAGATAACAAGATATCTCCAAAATAAGAGTATATCTCACCAAATAATAATATTC
66 TCTTTAGATGACAAAAAACAAAATATCTCCAAAATAAAAATATATCTCACCAAATAACAATATTC
* * *
39887 TCTAACAAGTACTAAAACCATTAACCATTTACTCAAATTCCAAATGAAAAACATTTCGTAACCAA
131 TCTAACAACTACTAAAACCATTAACCATTTACTCAAATTACAAATCAAAAACATTTCGTAACCAA
39952 ATACTCAAAAAACTATTGA
196 ATACTCAAAAAACTATTGA
* *
39971 AAACTCAACTTTCTAAAAATTCATAAAAAAAATTGTTAATTAAAAATTATAATCA-ATTCACAAT
1 AAACCCAACTTTCTAAAAATTCATAAAAAAAATTATTAATTAAAAATTATAAT-AGATTCACAAT
* * * * *
40035 C-CGTTTATATGATAAAAAACAAAATATCTCCAAAATAAAAATATATCTCACTAGATAACAGTAT
65 CTC-TTTAGATGACAAAAAACAAAATATCTCCAAAATAAAAATATATCTCACCAAATAACAATAT
* * **
40099 TCTCTAATAACTACTAAAACC-TTCAACTATTTACTCAAATTATTAATCAAAAACA
129 TCTCTAACAACTACTAAAACCATT-AACCATTTACTCAAATTACAAATCAAAAACA
40154 CACTTTTGTA
Statistics
Matches: 156, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
213 3 0.02
214 152 0.97
215 1 0.01
ACGTcount: A:0.48, C:0.17, G:0.05, T:0.30
Consensus pattern (214 bp):
AAACCCAACTTTCTAAAAATTCATAAAAAAAATTATTAATTAAAAATTATAATAGATTCACAATC
TCTTTAGATGACAAAAAACAAAATATCTCCAAAATAAAAATATATCTCACCAAATAACAATATTC
TCTAACAACTACTAAAACCATTAACCATTTACTCAAATTACAAATCAAAAACATTTCGTAACCAA
ATACTCAAAAAACTATTGA
Found at i:46843 original size:38 final size:38
Alignment explanation
Indices: 46792--46868 Score: 120
Period size: 38 Copynumber: 2.0 Consensus size: 38
46782 GAATAGCAGC
46792 ACAAAGGTTGAGTAGTTTGCC-TTTCTCATGCATCCTAT
1 ACAAAGGTTGAGTAGTTT-CCGTTTCTCATGCATCCTAT
* *
46830 ACAAAGTTTGAGTAGTTTCCGTTTCTCATGCATGCTAT
1 ACAAAGGTTGAGTAGTTTCCGTTTCTCATGCATCCTAT
46868 A
1 A
46869 TTTGTCAAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
37 2 0.06
38 34 0.94
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (38 bp):
ACAAAGGTTGAGTAGTTTCCGTTTCTCATGCATCCTAT
Found at i:53161 original size:85 final size:85
Alignment explanation
Indices: 52834--53160 Score: 478
Period size: 85 Copynumber: 3.9 Consensus size: 85
52824 TAACCGTTAC
* * * *
52834 ACGGTGGAATCAACACTTAGCAACCA-CATTATAATAAATGATACGGGGAATCAGCACATAGCAA
1 ACGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATACGGGGAATCAGCACATAGCAA
*
52898 CCCCTTTCACAATCAAGGAT
66 CCCCTTTCACAGTCAAGGAT
* * *
52918 ACGGTGAAATCAGCACTTAGCAACCACC-TTATAATCAATGATATGGGGAATCAGCACATAGCAA
1 ACGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATACGGGGAATCAGCACATAGCAA
52982 CCCCTTTCACAGTCAAGGAT
66 CCCCTTTCACAGTCAAGGAT
* * ** *
53002 ACGGTGGAATCAGCACATAGCAATCACCTTTATATTCAATGATAATGGGAATCAGCATATAGCAA
1 ACGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATACGGGGAATCAGCACATAGCAA
* *
53067 CCCCTTTCATAGTTAAGGAT
66 CCCCTTTCACAGTCAAGGAT
* * *
53087 ACGGTGGAATCAGCACAGAGCAACCACCTTTATATTCAATGATACGGGGAATTAGCACATAGCAA
1 ACGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATACGGGGAATCAGCACATAGCAA
53152 CCCCTTTCA
66 CCCCTTTCA
53161 TTCAAAGAAT
Statistics
Matches: 221, Mismatches: 20, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
84 102 0.46
85 119 0.54
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.23
Consensus pattern (85 bp):
ACGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATACGGGGAATCAGCACATAGCAA
CCCCTTTCACAGTCAAGGAT
Found at i:53484 original size:30 final size:30
Alignment explanation
Indices: 53442--53501 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
53432 AAAATCACAC
53442 TTTGACGAAAATTAC-ATTTTTACCCCTAAAG
1 TTTGACGAAAATTACGA-TTTTACCCC-AAAG
53473 TTTGAC-AAAATTACGATTTTACCCCAAAG
1 TTTGACGAAAATTACGATTTTACCCCAAAG
53502 CTTGTAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
29 4 0.14
30 17 0.61
31 7 0.25
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.33
Consensus pattern (30 bp):
TTTGACGAAAATTACGATTTTACCCCAAAG
Found at i:57743 original size:22 final size:23
Alignment explanation
Indices: 57691--57745 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 23
57681 ATGCAATCGT
*
57691 AGATTTG-TTATGTAACCGTAGA
1 AGATTTGATTTTGTAACCGTAGA
* * *
57713 AGATATGATTTTGTAATCTTAG-
1 AGATTTGATTTTGTAACCGTAGA
57735 AGATTTGATTT
1 AGATTTGATTT
57746 GTAGATACCA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 16 0.59
23 11 0.41
ACGTcount: A:0.31, C:0.05, G:0.20, T:0.44
Consensus pattern (23 bp):
AGATTTGATTTTGTAACCGTAGA
Found at i:65255 original size:18 final size:17
Alignment explanation
Indices: 65232--65265 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
65222 TATTTCAATT
65232 TTTTAATAAAATGTAATC
1 TTTTAA-AAAATGTAATC
*
65250 TTTTAAACAATGTAAT
1 TTTTAAAAAATGTAAT
65266 GTGATTGATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (17 bp):
TTTTAAAAAATGTAATC
Found at i:67049 original size:132 final size:132
Alignment explanation
Indices: 66811--67066 Score: 422
Period size: 132 Copynumber: 1.9 Consensus size: 132
66801 CGGTCTTACC
* * * *
66811 AAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCGTCTTTGATCTGTTCCACTACTTTT
1 AAATCTGCTTCCCTACTACCTTGGAAAGATAAGATTCACCGTATTTGATCTATTCCACTACTGTT
* **
66876 TAAGAAGACATGATCTACAATCTTCAACCTATTCCATTGCTGTTTAGGGAGATAGGACTGGTGGC
66 TAAGAAGACATGATCTACAATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTGGTGGC
66941 TT
131 TT
*
66943 AAATCTGCTTCCCTATTACCTTGGAAAGATAAGATTCACCGTATTTGATCTATTCCACTACTGTT
1 AAATCTGCTTCCCTACTACCTTGGAAAGATAAGATTCACCGTATTTGATCTATTCCACTACTGTT
* *
67008 TAGGGAGACATGATCTACAATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACT
66 TAAGAAGACATGATCTACAATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACT
67067 TACAATCTTT
Statistics
Matches: 114, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
132 114 1.00
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.33
Consensus pattern (132 bp):
AAATCTGCTTCCCTACTACCTTGGAAAGATAAGATTCACCGTATTTGATCTATTCCACTACTGTT
TAAGAAGACATGATCTACAATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTGGTGGC
TT
Found at i:67057 original size:44 final size:44
Alignment explanation
Indices: 66992--67175 Score: 271
Period size: 44 Copynumber: 4.2 Consensus size: 44
66982 CGTATTTGAT
** * *
66992 CTATTCCACTACTGTTTAGGGAGACATGA-TCTACAATCTTCAAC
1 CTATTCCACTACTGTCCAGGGAGATAGGACT-TACAATCTTCAAC
* * **
67036 CTATTCCACTGCTGTCCAGGGAGATAGGACTTACAATCTTTAGT
1 CTATTCCACTACTGTCCAGGGAGATAGGACTTACAATCTTCAAC
67080 CTATTCCACTACTGTCCAGGGAGATAGGACTTACAATCTTCAAC
1 CTATTCCACTACTGTCCAGGGAGATAGGACTTACAATCTTCAAC
*
67124 CTATTCCACTACTGTCCCGGGAGATAGGACTTACAATCTTCAAC
1 CTATTCCACTACTGTCCAGGGAGATAGGACTTACAATCTTCAAC
67168 CTATTCCA
1 CTATTCCA
67176 ATGCGGTAGG
Statistics
Matches: 126, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
44 125 0.99
45 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.30
Consensus pattern (44 bp):
CTATTCCACTACTGTCCAGGGAGATAGGACTTACAATCTTCAAC
Found at i:69795 original size:72 final size:71
Alignment explanation
Indices: 69678--69820 Score: 241
Period size: 72 Copynumber: 2.0 Consensus size: 71
69668 TCTTTTCAAA
* * *
69678 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAGAGATCGTGTCCTAACTTACTGGGCATGATCTC
1 CTCAAGTTCTAAACGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTCGGCATGATC-C
69743 TTTTTTT
65 TTTTTTT
*
69750 CTCAAGTTCTAAACGATCTCGGGAATTAAGAAAAGATGGTGTCCTAACTTACTCGGCATGATCCT
1 CTCAAGTTCTAAACGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTCGGCATGATCCT
69815 TTTTTT
66 TTTTTT
69821 AAATCCGGGA
Statistics
Matches: 67, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 8 0.12
72 59 0.88
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (71 bp):
CTCAAGTTCTAAACGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTCGGCATGATCCT
TTTTTT
Found at i:73537 original size:24 final size:24
Alignment explanation
Indices: 73461--73539 Score: 106
Period size: 24 Copynumber: 3.3 Consensus size: 24
73451 GGCCTATGCT
* *
73461 ACCGGAACGGTTCACCGGAGCACC
1 ACCGGGACGGTTCGCCGGAGCACC
73485 GA-CGGGACGGTTCGCCGGAGCACC
1 -ACCGGGACGGTTCGCCGGAGCACC
* *
73509 GCCGGGACGGATCGCCGGAGCACC
1 ACCGGGACGGTTCGCCGGAGCACC
73533 ACCGGGA
1 ACCGGGA
73540 ACCTAACCGG
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
24 47 0.98
25 1 0.02
ACGTcount: A:0.20, C:0.35, G:0.38, T:0.06
Consensus pattern (24 bp):
ACCGGGACGGTTCGCCGGAGCACC
Found at i:73803 original size:42 final size:42
Alignment explanation
Indices: 73748--74039 Score: 335
Period size: 42 Copynumber: 6.9 Consensus size: 42
73738 ACTTTAGCTT
* *
73748 TGGTGCT-GAAGGCTCCCGCTCATCCATGCACCAAGGTGCCGA
1 TGGTGCTCG-AGGCTCCCGCACATCCAAGCACCAAGGTGCCGA
73790 TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGA
1 TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGA
*
73832 TGGTGCTCGAGGCTCCCGCACAT-CATAGCACCGAGGTGCCGA
1 TGGTGCTCGAGGCTCCCGCACATCCA-AGCACCAAGGTGCCGA
* ** * * *
73874 TGGT-CTCCGAGGCTCCC-CACAACCAAGGGCCTAGTTTGCCGG
1 TGGTGCT-CGAGGCTCCCGCACATCCAAGCACCAAG-GTGCCGA
* *
73916 TGGTG-TCCGATGCTCCCGCACATCCATGCACCAAGGTGCCGA
1 TGGTGCT-CGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGA
* *
73958 TGGTGCTCGAGGCTCCCGCACATCCAAGCATCAAGGTTACCGA
1 TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGG-TGCCGA
* *
74001 TGGTGGCT-GAGGCTCCCACACATCCGAGCCACCAAGGTG
1 TGGT-GCTCGAGGCTCCCGCACATCCAAG-CACCAAGGTG
74040 ATGGAGGCTC
Statistics
Matches: 214, Mismatches: 25, Indels: 21
0.82 0.10 0.08
Matches are distributed among these distances:
41 14 0.07
42 148 0.69
43 42 0.20
44 10 0.05
ACGTcount: A:0.20, C:0.34, G:0.28, T:0.17
Consensus pattern (42 bp):
TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGA
Found at i:82013 original size:43 final size:43
Alignment explanation
Indices: 81943--82035 Score: 143
Period size: 42 Copynumber: 2.2 Consensus size: 43
81933 TCTTCTTTAG
*
81943 CCCGCACATCCCAGGCACCAAGGTGCCGATGGGTGCCCGAGGCT
1 CCCGCACATCCCAAGCACCAAGGTGCCGAT-GGTGCCCGAGGCT
* *
81987 CCCGCACAT-CCAAGCACCAAGTTGCCGATGGTGTCCGAGGCT
1 CCCGCACATCCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCT
82029 CCCGCAC
1 CCCGCAC
82036 CTCCTAGCCA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
42 19 0.41
43 18 0.39
44 9 0.20
ACGTcount: A:0.19, C:0.40, G:0.28, T:0.13
Consensus pattern (43 bp):
CCCGCACATCCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCT
Found at i:82057 original size:25 final size:25
Alignment explanation
Indices: 82023--82071 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
82013 GATGGTGTCC
* *
82023 GAGGCTCCCGCACCTCCTAGCCACT
1 GAGGCTCCCGCACATCCGAGCCACT
82048 GAGGCTCCCGCACATCCGAGCCAC
1 GAGGCTCCCGCACATCCGAGCCAC
82072 CAAGGTGCCG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.18, C:0.47, G:0.22, T:0.12
Consensus pattern (25 bp):
GAGGCTCCCGCACATCCGAGCCACT
Found at i:82096 original size:43 final size:42
Alignment explanation
Indices: 82048--83090 Score: 828
Period size: 43 Copynumber: 24.6 Consensus size: 42
82038 CCTAGCCACT
* * *
82048 GAGGCTCCCGCAC-ATCCGAGCCACCAAGGTGCCGATGGTGCCC
1 GAGGCTCCCGCACGA-CCAAG-CGCCTAGGTGCCGATGGTGCCC
*
82091 GAGGCTCCCGCACGACC-A------AGG-GCCGATGGTGGCC
1 GAGGCTCCCGCACGACCAAGCGCCTAGGTGCCGATGGTGCCC
* * ** *
82125 GAGGCCCCCGCACGACCAAGGGCCTATTTTACCGATGGTGCCC
1 GAGGCTCCCGCACGACCAAGCGCCTA-GGTGCCGATGGTGCCC
* * * * *
82168 GAGCCTCTCGCATGACCAAGGGTCTAGGTTGCCGATGGTGCCC
1 GAGGCTCCCGCACGACCAAGCGCCTAGG-TGCCGATGGTGCCC
* * * * * *
82211 GAGGTTCCGGCAC-ATCCAAGCACCAAGGTGTCGATGGTGCTC
1 GAGGCTCCCGCACGA-CCAAGCGCCTAGGTGCCGATGGTGCCC
* * *
82253 GAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGATGGTGTCC
1 GAGGCTCCCGCACGACCAAGCGCCTAG-GTGCCGATGGTGCCC
* * * * *
82296 GAGGCTCCCGCAC-ATCCCAGCACCTAGGAGCCAATGGTGGCC
1 GAGGCTCCCGCACGA-CCAAGCGCCTAGGTGCCGATGGTGCCC
* **
82338 GAGGCTCCCGCACGACCAAGGGCCTATTTTGCCGATGGTGCCC
1 GAGGCTCCCGCACGACCAAGCGCCTA-GGTGCCGATGGTGCCC
* * *
82381 GAGGCTCCCGCACGACCAAGGGCTTAGTTTGCCGATGGTGCCC
1 GAGGCTCCCGCACGACCAAGCGCCTAG-GTGCCGATGGTGCCC
* * * * *
82424 GAGCCTCTCGCACGACCAAGGGCCTAGGTTGTCGATGGTGCGC
1 GAGGCTCCCGCACGACCAAGCGCCTAGG-TGCCGATGGTGCCC
* * * * * *
82467 GAGGTTCTCGGAC-ATCCAAGCACCAAGGTGCCGATGGTGCTC
1 GAGGCTCCCGCACGA-CCAAGCGCCTAGGTGCCGATGGTGCCC
* ** *
82509 GAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGACAGTGTCC
1 GAGGCTCCCGCACGACCAAGCGCCTAGG-TGCCGATGGTGCCC
* * * * *
82552 GAGGCTCCCGC-CCATCATAGCACCGAGGTGCCGATGGTGGCC
1 GAGGCTCCCGCACGACCA-AGCGCCTAGGTGCCGATGGTGCCC
* * *
82594 GAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGATGGTGTCC
1 GAGGCTCCCGCACGACCAAGCGCCTAG-GTGCCGATGGTGCCC
* ** *
82637 GAGGCTCCCGCACGACCAAGGGCCTATTTTGCCGATGGTGGCC
1 GAGGCTCCCGCACGACCAAGCGCCTA-GGTGCCGATGGTGCCC
* * *
82680 GAGGCTCCCGCACGACCAAGGGCTTAGTTTGCCGATGGTGCCC
1 GAGGCTCCCGCACGACCAAGCGCCTAG-GTGCCGATGGTGCCC
* * * * *
82723 GAGCCTCTCGCACGACCAAGGGCCTAGGTTGCCGATGGTACGC
1 GAGGCTCCCGCACGACCAAGCGCCTAGG-TGCCGATGGTGCCC
* * * * *
82766 GAGGTTCTCGCAC-ATCCAAGCACCAAGGTGCCGATGGTGCTC
1 GAGGCTCCCGCACGA-CCAAGCGCCTAGGTGCCGATGGTGCCC
* ** *
82808 GAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGACAGTGTCC
1 GAGGCTCCCGCACGACCAAGCGCCTAGG-TGCCGATGGTGCCC
* * *
82851 GAGGCTCCCGCAC-ATCATAGCACCGAGGTGCCGATGGTGCCC
1 GAGGCTCCCGCACGACCA-AGCGCCTAGGTGCCGATGGTGCCC
* *
82893 GAGGCTACCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCC
1 GAGGCTCCCGCACGACCAAGCGCCTAGG-TGCCGATGGTGCCC
* * * *
82936 GAGGCTCCCGCAC-ATCGAAGCACCGAGGTGCCGATGGCGCCC
1 GAGGCTCCCGCACGA-CCAAGCGCCTAGGTGCCGATGGTGCCC
* * * * *
82978 GAGGCTCCAG-AGCAGTACCAAGGGCTTAGTTTGCCGATGGTGTCC
1 GAGGCTCCCGCA-C-G-ACCAAGCGCCTAG-GTGCCGATGGTGCCC
* * * *
83023 GGGGCTCCTGCAC-ATCCTAGCACC-AGGTTGCCGATGGTGCCC
1 GAGGCTCCCGCACGA-CCAAGCGCCTAGG-TGCCGATGGTGCCC
*
83065 GAGGCTCCCGCACGACCAAGGGCCTA
1 GAGGCTCCCGCACGACCAAGCGCCTA
83091 TGCTACCGGA
Statistics
Matches: 798, Mismatches: 157, Indels: 90
0.76 0.15 0.09
Matches are distributed among these distances:
34 28 0.04
35 4 0.01
41 2 0.00
42 256 0.32
43 477 0.60
44 8 0.01
45 22 0.03
46 1 0.00
ACGTcount: A:0.18, C:0.33, G:0.32, T:0.16
Consensus pattern (42 bp):
GAGGCTCCCGCACGACCAAGCGCCTAGGTGCCGATGGTGCCC
Found at i:82118 original size:34 final size:34
Alignment explanation
Indices: 82070--82148 Score: 131
Period size: 34 Copynumber: 2.3 Consensus size: 34
82060 CATCCGAGCC
*
82070 ACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACG
1 ACCAAGG-GCCGATGGTGCCCGAGGCCCCCGCACG
*
82105 ACCAAGGGCCGATGGTGGCCGAGGCCCCCGCACG
1 ACCAAGGGCCGATGGTGCCCGAGGCCCCCGCACG
82139 ACCAAGGGCC
1 ACCAAGGGCC
82149 TATTTTACCG
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
34 35 0.83
35 7 0.17
ACGTcount: A:0.19, C:0.38, G:0.35, T:0.08
Consensus pattern (34 bp):
ACCAAGGGCCGATGGTGCCCGAGGCCCCCGCACG
Found at i:82591 original size:256 final size:254
Alignment explanation
Indices: 82048--82948 Score: 1065
Period size: 256 Copynumber: 3.5 Consensus size: 254
82038 CCTAGCCACT
* * *
82048 GAGGCTCCCGCACATCCGAGCCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAA-GG
1 GAGGCTCCCGCACAT-CAAG-CACCTAGGTGCCGATGGTGGCCGAGGCTCCCGCACGACCAAGGG
* * * *
82112 -------GCCGATGGTGGCCGAGGCCCCCGCACGACCAAGGGCCTATTTTACCGATGGTGCCCGA
64 CCTATTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGATGGTGCCCGA
* * *
82170 GCCTCTCGCATGACCAAGGGTCTAGGTTGCCGATGGTGCCCGAGGTTC-CGGCACATCCAAGCAC
129 GCCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGTTCTCGG-ACATCCAAGCAC
* *
82234 CAAGGTGTCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGATGGTGTCC
193 CAAGGTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGTCC
* * *
82296 GAGGCTCCCGCACATCCCAGCACCTAGGAGCCAATGGTGGCCGAGGCTCCCGCACGACCAAGGGC
1 GAGGCTCCCGCACAT-CAAGCACCTAGGTGCCGATGGTGGCCGAGGCTCCCGCACGACCAAGGGC
*
82361 CTATTTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCTTAGTTTGCCGATGGTGCCCGA
65 CTA-TTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGATGGTGCCCGA
* * *
82426 GCCTCTCGCACGACCAAGGGCCTAGGTTGTCGATGGTGCGCGAGGTTCTCGGACATCCAAGCACC
129 GCCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGTTCTCGGACATCCAAGCACC
**
82491 AAGGTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGACAGTGTCC
194 AAGGTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGTCC
* *
82552 GAGGCTCCCGCCCATCATAGCACCGAGGTGCCGATGGTGGCCGAGGCTCCCGCACGACCAAGGGC
1 GAGGCTCCCGCACATCA-AGCACCTAGGTGCCGATGGTGGCCGAGGCTCCCGCACGACCAAGGGC
* * *
82617 CTAGTTTGCCGATGGTGTCCGAGGCTCCCGCACGACCAAGGGCCTATTTTGCCGATGGTGGCCGA
65 CTA-TTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGATGGTGCCCGA
* * * ** * **
82682 GGCTCCCGCACGACCAAGGGCTTAGTTTGCCGATGGTGCCCGAGCCTCTCGCACGA-CCAAGGGC
129 GCCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGTTCTCGGAC-ATCCAAGCAC
* * * * * ** *
82746 CTAGGTTGCCGATGGTACGCGAGGTTCTCGCAC-ATCCAAGCACCAAGG-TGCCGATGGTG-CTC
193 CAAGG-TGCCGATGGTGCTCGAGGCTCCCGCACGA-CCAAGGGCCTAGGTTGCCGATGGTGTC-C
* ** ** * * *
82808 GAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGACAGTGTCCGAGGCTCCCGCAC-ATCATAGC
1 GAGGCTCCCGCAC-ATCAAGCACCTAGG-TGCCGATGGTGGCCGAGGCTCCCGCACGACCA-AGG
* * ** * *
82872 ACCGAGGTGCCGATGGTGCCCGAGGCTACCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCG
63 GCCTATTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGATGGTGCCCG
*
82937 AGGCTCCCGCAC
128 AGCCTCCCGCAC
82949 ATCGAAGCAC
Statistics
Matches: 567, Mismatches: 68, Indels: 28
0.86 0.10 0.04
Matches are distributed among these distances:
247 37 0.07
248 21 0.04
255 2 0.00
256 438 0.77
257 69 0.12
ACGTcount: A:0.18, C:0.34, G:0.32, T:0.16
Consensus pattern (254 bp):
GAGGCTCCCGCACATCAAGCACCTAGGTGCCGATGGTGGCCGAGGCTCCCGCACGACCAAGGGCC
TATTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGATGGTGCCCGAGC
CTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGTTCTCGGACATCCAAGCACCAA
GGTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGTCC
Found at i:82641 original size:299 final size:298
Alignment explanation
Indices: 82282--83019 Score: 1169
Period size: 299 Copynumber: 2.5 Consensus size: 298
82272 GGGCCTAGTT
* * ** ** * *
82282 TGCCGATGGTGTCCGAGGCTCCCGCAC-ATCCCAGCACCTAGGAGCCAATGGTGGCCGAGGCTCC
1 TGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTAGTTGCCGATGGTGCCCGAGGCTCC
82346 CGCACGACCAAGGGCCTATTTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCTTAGTTT
65 CGCACGACCAAGGGCCTATTTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCTTAGTTT
* *
82411 GCCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCCTAGGTTGTCGATGGTGCGCGAGGTTCTC
130 GCCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCCTAGGTTGCCGATGGTACGCGAGGTTCTC
*
82476 GGACATCCAAGCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGC
195 GCACATCCAAGCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGC
*
82541 CGACAGTGTCCGAGGCTCCCGCCCATCATAGCACCGAGG
260 CGACAGTGTCCGAGGCTCCCGCACATCATAGCACCGAGG
* *
82580 TGCCGATGGTGGCCGAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGATGGTGTCCGAGGCTCC
1 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAG-TTGCCGATGGTGCCCGAGGCTCC
*
82645 CGCACGACCAAGGGCCTATTTTGCCGATGGTGGCCGAGGCTCCCGCACGACCAAGGGCTTAGTTT
65 CGCACGACCAAGGGCCTATTTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCTTAGTTT
82710 GCCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCCTAGGTTGCCGATGGTACGCGAGGTTCTC
130 GCCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCCTAGGTTGCCGATGGTACGCGAGGTTCTC
82775 GCACATCCAAGCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGC
195 GCACATCCAAGCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGC
82840 CGACAGTGTCCGAGGCTCCCGCACATCATAGCACCGAGG
260 CGACAGTGTCCGAGGCTCCCGCACATCATAGCACCGAGG
*
82879 TGCCGATGGTGCCCGAGGCTACCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCC
1 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTA-GTTGCCGATGGTGCCCGAGGCTCC
* ** * ** * *
82944 CGCAC-ATCGAAGCACCGA-GGTGCCGATGGCGCCCGAGGCTCCAG-AGCAGTACCAAGGGCTTA
65 CGCACGA-CCAAGGGCCTATTTTGCCGATGGTGCCCGAGGCTCCCGCA-C-G-ACCAAGGGCTTA
83006 GTTTGCCGATGGTG
126 GTTTGCCGATGGTG
83020 TCCGGGGCTC
Statistics
Matches: 408, Mismatches: 25, Indels: 12
0.92 0.06 0.03
Matches are distributed among these distances:
297 1 0.00
298 58 0.14
299 322 0.79
300 27 0.07
ACGTcount: A:0.18, C:0.33, G:0.32, T:0.17
Consensus pattern (298 bp):
TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGTTGCCGATGGTGCCCGAGGCTCCC
GCACGACCAAGGGCCTATTTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCTTAGTTTG
CCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCCTAGGTTGCCGATGGTACGCGAGGTTCTCG
CACATCCAAGCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCC
GACAGTGTCCGAGGCTCCCGCACATCATAGCACCGAGG
Found at i:82949 original size:85 final size:85
Alignment explanation
Indices: 82112--83090 Score: 906
Period size: 85 Copynumber: 11.5 Consensus size: 85
82102 ACGACCAAGG
* * ** * * *
82112 GCCGATGGTGGCCGAGGCCCCCGCACGACCAAGGGCCTATTTTACCGATGGTGCCCGAGCCTCTC
1 GCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCCC
* *
82177 GCATGACCAAGGGTCTAGGTT
66 GCACGACCAAGGGCCTAGG-T
* * ** * * *
82198 GCCGATGGTGCCCGAGGTTCCGGCAC-ATCCAAGCACCAAGG-TGTCGATGGTGCTCGAGGCTCC
1 GCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCC
*
82261 CGCACGACCAAGGGCCTAGTTT
65 CGCACGACCAAGGGCCTAG-GT
* * ** * * *
82283 GCCGATGGTGTCCGAGGCTCCCGCAC-ATCCCAGCACCTAGG-AGCCAATGGTGGCCGAGGCTCC
1 GCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCC
**
82346 CGCACGACCAAGGGCCTATTTT
65 CGCACGACCAAGGGCCTA-GGT
* * * *
82368 GCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCTTAGTTTGCCGATGGTGCCCGAGCCTCTC
1 GCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCCC
82433 GCACGACCAAGGGCCTAGGTT
66 GCACGACCAAGGGCCTAGG-T
* * * * * ** * *
82454 GTCGATGGTGCGCGAGGTTCTCGGAC-ATCCAAGCACCAAGG-TGCCGATGGTGCTCGAGGCTCC
1 GCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCC
82517 CGCACGACCAAGGGCCTAGGTT
65 CGCACGACCAAGGGCCTAGG-T
** * * * ** * *
82539 GCCGACAGTGTCCGAGGCTCCCGC-CCATCATAGCACCGAGG-TGCCGATGGTGGCCGAGGCTCC
1 GCCGATGGTGCCCGAGGCTCCCGCACGACCA-AGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCC
*
82602 CGCACGACCAAGGGCCTAGTTT
65 CGCACGACCAAGGGCCTAG-GT
* ** *
82624 GCCGATGGTGTCCGAGGCTCCCGCACGACCAAGGGCCTATTTTGCCGATGGTGGCCGAGGCTCCC
1 GCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCCC
* *
82689 GCACGACCAAGGGCTTAGTTT
66 GCACGACCAAGGGCCTAG-GT
* * * * * *
82710 GCCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCCTAGGTTGCCGATGGTACGCGAGGTTCTC
1 GCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCCC
** *
82775 GCAC-ATCCAAGCACCAAGGT
66 GCACGA-CCAAGGGCCTAGGT
* ** *
82795 GCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGACAGTGTCCGAGGCTCCC
1 GCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCCC
* ** *
82860 GCAC-ATCATAGCACCGAGGT
66 GCACGACCA-AGGGCCTAGGT
*
82880 GCCGATGGTGCCCGAGGCTACCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCCC
1 GCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCCC
* ** *
82945 GCAC-ATCGAAGCACCGAGGT
66 GCACGA-CCAAGGGCCTAGGT
* * * * * *
82965 GCCGATGGCGCCCGAGGCTCCAG-AGCAGTACCAAGGGCTTAGTTTGCCGATGGTGTCCGGGGCT
1 GCCGATGGTGCCCGAGGCTCCCGCA-C-G-ACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCT
* * **
83029 CCTGCAC-ATCCTAGCACC-AGGTT
63 CCCGCACGA-CCAAGGGCCTAGG-T
83052 GCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTA
1 GCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTA
83091 TGCTACCGGA
Statistics
Matches: 749, Mismatches: 124, Indels: 41
0.82 0.14 0.04
Matches are distributed among these distances:
84 6 0.01
85 457 0.61
86 216 0.29
87 69 0.09
88 1 0.00
ACGTcount: A:0.18, C:0.33, G:0.32, T:0.17
Consensus pattern (85 bp):
GCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCCC
GCACGACCAAGGGCCTAGGT
Found at i:83171 original size:24 final size:24
Alignment explanation
Indices: 83095--83173 Score: 106
Period size: 24 Copynumber: 3.3 Consensus size: 24
83085 GGCCTATGCT
* *
83095 ACCGGAACGGTTCACCGGAGCACC
1 ACCGGGACGGTTCGCCGGAGCACC
83119 GA-CGGGACGGTTCGCCGGAGCACC
1 -ACCGGGACGGTTCGCCGGAGCACC
* *
83143 GCCGGGACGGATCGCCGGAGCACC
1 ACCGGGACGGTTCGCCGGAGCACC
83167 ACCGGGA
1 ACCGGGA
83174 ACCTAACCGG
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
24 47 0.98
25 1 0.02
ACGTcount: A:0.20, C:0.35, G:0.38, T:0.06
Consensus pattern (24 bp):
ACCGGGACGGTTCGCCGGAGCACC
Found at i:83446 original size:42 final size:42
Alignment explanation
Indices: 83399--83637 Score: 263
Period size: 42 Copynumber: 5.6 Consensus size: 42
83389 GAAGGCTCCC
83399 GCTCCCGCACATCCAAGCACCAAGGTGCCGATGGTGCTCGAG
1 GCTCCCGCACATCCAAGCACCAAGGTGCCGATGGTGCTCGAG
*
83441 GCTCCCGCACAT-CATAGCACCGAGGTGCCGATGGT-CTCCGAG
1 GCTCCCGCACATCCA-AGCACCAAGGTGCCGATGGTGCT-CGAG
* ** * * * *
83483 GCTCCC-CACAACCAAGGGCCTAGTTTGCCGGTGGTG-TCCGAT
1 GCTCCCGCACATCCAAGCACCAAG-GTGCCGATGGTGCT-CGAG
*
83525 GCTCCCGCACATCCATGCACCAAGGTGCCGATGGTGCTCGAG
1 GCTCCCGCACATCCAAGCACCAAGGTGCCGATGGTGCTCGAG
* *
83567 GCTCCCGCACATCCAAGCATCAAGGTTACCGATGGTGGCT-GAG
1 GCTCCCGCACATCCAAGCACCAAGG-TGCCGATGGT-GCTCGAG
* *
83610 GCTCCCACACATCCGAGCCACCAAGGTG
1 GCTCCCGCACATCCAAG-CACCAAGGTG
83638 ATGGAGGCTC
Statistics
Matches: 164, Mismatches: 23, Indels: 19
0.80 0.11 0.09
Matches are distributed among these distances:
41 14 0.09
42 99 0.60
43 41 0.25
44 10 0.06
ACGTcount: A:0.21, C:0.35, G:0.28, T:0.17
Consensus pattern (42 bp):
GCTCCCGCACATCCAAGCACCAAGGTGCCGATGGTGCTCGAG
Found at i:87119 original size:48 final size:48
Alignment explanation
Indices: 87037--87130 Score: 120
Period size: 48 Copynumber: 2.0 Consensus size: 48
87027 TTTCTTGGCT
* * *
87037 TAAAAATGCCTAAGTCAGCCTAATTTCCACCAATAATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAATTTCCAACAATAAAGGATTCAACCG
*
87085 TAAAAACGCCTAAGTTAG-CTCAA-TTCGCAACAATAAAGGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AATTTC-CAACAATAAAGGATTCAAC
87131 AGAATTCCCT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
47 5 0.12
48 35 0.88
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.23
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAATTTCCAACAATAAAGGATTCAACCG
Found at i:89387 original size:23 final size:23
Alignment explanation
Indices: 89319--89387 Score: 54
Period size: 23 Copynumber: 3.0 Consensus size: 23
89309 CGAGTGCCTC
89319 CTTTACATCCGCCATGGATCCCT
1 CTTTACATCCGCCATGGATCCCT
* * * * *
89342 C-GT-CGACCCCCCGATCG-TGCCT
1 CTTTAC-ATCCGCC-ATGGATCCCT
89364 CTTTACATCCGCCATGGATCCCT
1 CTTTACATCCGCCATGGATCCCT
89387 C
1 C
89388 GAGTTTACCC
Statistics
Matches: 31, Mismatches: 10, Indels: 10
0.61 0.20 0.20
Matches are distributed among these distances:
21 1 0.03
22 14 0.45
23 15 0.48
24 1 0.03
ACGTcount: A:0.14, C:0.43, G:0.16, T:0.26
Consensus pattern (23 bp):
CTTTACATCCGCCATGGATCCCT
Found at i:89680 original size:48 final size:48
Alignment explanation
Indices: 89598--89691 Score: 120
Period size: 48 Copynumber: 2.0 Consensus size: 48
89588 TTTCTTGGCT
* * *
89598 TAAAAATGCCTAAGTCAGCCTAATTTCCACCAATAATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAATTTCCAACAATAAAGGATTCAACCG
*
89646 TAAAAACGCCTAAGTTAG-CTCAA-TTCGCAACAATAAAGGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AATTTC-CAACAATAAAGGATTCAAC
89692 AGAATTCCCT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
47 5 0.12
48 35 0.88
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.23
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAATTTCCAACAATAAAGGATTCAACCG
Found at i:94785 original size:43 final size:43
Alignment explanation
Indices: 94715--94807 Score: 143
Period size: 42 Copynumber: 2.2 Consensus size: 43
94705 TCTTCTTTAG
*
94715 CCCGCACATCCCAGGCACCAAGGTGCCGATGGGTGCCCGAGGCT
1 CCCGCACATCCCAAGCACCAAGGTGCCGAT-GGTGCCCGAGGCT
* *
94759 CCCGCACAT-CCAAGCACCAAGTTGCCGATGGTGTCCGAGGCT
1 CCCGCACATCCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCT
94801 CCCGCAC
1 CCCGCAC
94808 CTCCTAGCCA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
42 19 0.41
43 18 0.39
44 9 0.20
ACGTcount: A:0.19, C:0.40, G:0.28, T:0.13
Consensus pattern (43 bp):
CCCGCACATCCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCT
Found at i:94829 original size:25 final size:25
Alignment explanation
Indices: 94795--94843 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
94785 GATGGTGTCC
* *
94795 GAGGCTCCCGCACCTCCTAGCCACT
1 GAGGCTCCCGCACATCCGAGCCACT
94820 GAGGCTCCCGCACATCCGAGCCAC
1 GAGGCTCCCGCACATCCGAGCCAC
94844 CAAGGTGCCG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.18, C:0.47, G:0.22, T:0.12
Consensus pattern (25 bp):
GAGGCTCCCGCACATCCGAGCCACT
Found at i:94868 original size:43 final size:42
Alignment explanation
Indices: 94820--95858 Score: 849
Period size: 43 Copynumber: 24.6 Consensus size: 42
94810 CCTAGCCACT
* * *
94820 GAGGCTCCCGCAC-ATCCGAGCCACCAAGGTGCCGATGGTGCCC
1 GAGGCTCCCGCACGA-CCAAG-CGCCTAGGTGCCGATGGTGCCC
*
94863 GAGGCTCCCGCACGACC-A------AGG-GCCGATGGTGGCC
1 GAGGCTCCCGCACGACCAAGCGCCTAGGTGCCGATGGTGCCC
* * ** *
94897 GAGGCCCCCGCACGACCAAGGGCCTATTTTACCGATGGTGCCC
1 GAGGCTCCCGCACGACCAAGCGCCTA-GGTGCCGATGGTGCCC
* * * *
94940 GAGCCTCTCGCACGACCAAGGGTCTAGGTTGCCGATGGTGCCC
1 GAGGCTCCCGCACGACCAAGCGCCTAGG-TGCCGATGGTGCCC
* * * * * *
94983 GAGGTTCCGGCAC-ATCCAAGCACCAAGGTGTCGATGGTGCTC
1 GAGGCTCCCGCACGA-CCAAGCGCCTAGGTGCCGATGGTGCCC
* * *
95025 GAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGATGGTGTCC
1 GAGGCTCCCGCACGACCAAGCGCCTAG-GTGCCGATGGTGCCC
* * * *
95068 GAGGCTCCCGCAC-ATCCCAGCACCTAGG-GGCGATGGTGGCC
1 GAGGCTCCCGCACGA-CCAAGCGCCTAGGTGCCGATGGTGCCC
* **
95109 GAGGCTCCCGCACGACCAAGGGCCTATTTTGCCGATGGTGCCC
1 GAGGCTCCCGCACGACCAAGCGCCTA-GGTGCCGATGGTGCCC
* * *
95152 GAGGCTCCCGCACGACCAAGGGCTTAGTTTGCCGATGGTGCCC
1 GAGGCTCCCGCACGACCAAGCGCCTAG-GTGCCGATGGTGCCC
* * * * *
95195 GAGCCTCTCGCACGACCAAGGGCCTAGGTTGTCGATGGTGCGC
1 GAGGCTCCCGCACGACCAAGCGCCTAGG-TGCCGATGGTGCCC
* * * * * *
95238 GAGGTTCTCGGAC-ATCCAAGCACCAAGGTGCCGATGGTGCTC
1 GAGGCTCCCGCACGA-CCAAGCGCCTAGGTGCCGATGGTGCCC
* ** *
95280 GAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGACAGTGTCC
1 GAGGCTCCCGCACGACCAAGCGCCTAGG-TGCCGATGGTGCCC
* * * * *
95323 GAGGCTCCCGC-CCATCATAGCACCGAGGTGCCGATGGTGGCC
1 GAGGCTCCCGCACGACCA-AGCGCCTAGGTGCCGATGGTGCCC
* * *
95365 GAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGATGGTGTCC
1 GAGGCTCCCGCACGACCAAGCGCCTAG-GTGCCGATGGTGCCC
* ** *
95408 GAGGCTCCCGCACGACCAAGGGCCTATTTTGCCGATGGTGGCC
1 GAGGCTCCCGCACGACCAAGCGCCTA-GGTGCCGATGGTGCCC
* * *
95451 GAGGCTCCCGCACGACCAAGGGCTTAGTTTGCCGATGGTGCCC
1 GAGGCTCCCGCACGACCAAGCGCCTAG-GTGCCGATGGTGCCC
* * * * *
95494 GAGCCTCTCGCACGACCAAGGGCCTAGGTTGCCGATGGTACGC
1 GAGGCTCCCGCACGACCAAGCGCCTAGG-TGCCGATGGTGCCC
* * * * *
95537 GAGGTTCTCGCAC-ATCCAAGCACCAAGGTGCCGATGGTGCTC
1 GAGGCTCCCGCACGA-CCAAGCGCCTAGGTGCCGATGGTGCCC
* ** *
95579 GAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGACAGTGTCC
1 GAGGCTCCCGCACGACCAAGCGCCTAGG-TGCCGATGGTGCCC
* * *
95622 GAGGCTCCCGCAC-ATCATAGCACCGAGGTGCCGATGGTGCCC
1 GAGGCTCCCGCACGACCA-AGCGCCTAGGTGCCGATGGTGCCC
* *
95664 GAGGCTACCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCC
1 GAGGCTCCCGCACGACCAAGCGCCTAGG-TGCCGATGGTGCCC
* * * *
95707 GAGGCTCCCGCAC-ATCGAAGCACCGAGGTGCCGATGGCGCCC
1 GAGGCTCCCGCACGA-CCAAGCGCCTAGGTGCCGATGGTGCCC
** * * * *
95749 GAGGCT-CCGCAATACCAAGGGCTTAGTTTGCCGATGGTGTCC
1 GAGGCTCCCGCACGACCAAGCGCCTAG-GTGCCGATGGTGCCC
* * * *
95791 GGGGCTCCTGCAC-ATCCTAGCACC-AGGTTGCCGATGGTGCCC
1 GAGGCTCCCGCACGA-CCAAGCGCCTAGG-TGCCGATGGTGCCC
*
95833 GAGGCTCCCGCACGACCAAGGGCCTA
1 GAGGCTCCCGCACGACCAAGCGCCTA
95859 TGCTACCGGA
Statistics
Matches: 799, Mismatches: 154, Indels: 86
0.77 0.15 0.08
Matches are distributed among these distances:
34 28 0.04
35 4 0.01
41 45 0.06
42 239 0.30
43 482 0.60
44 1 0.00
ACGTcount: A:0.18, C:0.34, G:0.32, T:0.16
Consensus pattern (42 bp):
GAGGCTCCCGCACGACCAAGCGCCTAGGTGCCGATGGTGCCC
Found at i:94890 original size:34 final size:34
Alignment explanation
Indices: 94842--94920 Score: 131
Period size: 34 Copynumber: 2.3 Consensus size: 34
94832 CATCCGAGCC
*
94842 ACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACG
1 ACCAAGG-GCCGATGGTGCCCGAGGCCCCCGCACG
*
94877 ACCAAGGGCCGATGGTGGCCGAGGCCCCCGCACG
1 ACCAAGGGCCGATGGTGCCCGAGGCCCCCGCACG
94911 ACCAAGGGCC
1 ACCAAGGGCC
94921 TATTTTACCG
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
34 35 0.83
35 7 0.17
ACGTcount: A:0.19, C:0.38, G:0.35, T:0.08
Consensus pattern (34 bp):
ACCAAGGGCCGATGGTGCCCGAGGCCCCCGCACG
Found at i:95044 original size:85 final size:84
Alignment explanation
Indices: 94928--95845 Score: 727
Period size: 85 Copynumber: 10.8 Consensus size: 84
94918 GCCTATTTTA
* * * * * *
94928 CCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGTCTAGGTTGCCGATGGTGCCCGAGGTTCCGG
1 CCGATGGTG-CCGAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGATGGTGCCCGAGGCTCCCG
94993 CACATCCAAGCACCAAGGTG
65 CACATCCAAGCACCAAGGTG
* *
95013 TCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGATGGTGTCCGAGGCTCCCG
1 CCGATGGTGC-CGAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGATGGTGCCCGAGGCTCCCG
* *
95078 CACATCCCAGCACCTAGG-G
65 CACATCCAAGCACCAAGGTG
* *
95097 GCGATGGTGGCCGAGGCTCCCGCACGACCAAGGGCCTATTTTGCCGATGGTGCCCGAGGCTCCCG
1 CCGATGGT-GCCGAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGATGGTGCCCGAGGCTCCCG
** ** *
95162 CACGA-CCAAGGGCTTAGTTTG
65 CAC-ATCCAAGCACCAAG-GTG
* * * * * * *
95183 CCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCCTAGGTTGTCGATGGTGCGCGAGGTTCTCG
1 CCGATGGTG-CCGAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGATGGTGCCCGAGGCTCCCG
*
95248 GACATCCAAGCACCAAGGTG
65 CACATCCAAGCACCAAGGTG
* ** *
95268 CCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGACAGTGTCCGAGGCTCCCG
1 CCGATGGTGC-CGAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGATGGTGCCCGAGGCTCCCG
* *
95333 CCCAT-CATAGCACCGAGGTG
65 CACATCCA-AGCACCAAGGTG
*
95353 CCGATGGTGGCCGAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGATGGTGTCCGAGGCTCCCG
1 CCGATGGT-GCCGAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGATGGTGCCCGAGGCTCCCG
** ***
95418 CACGA-CCAAGGGCCTATTTTG
65 CAC-ATCCAAGCACC-AAGGTG
* * *
95439 CCGATGGTGGCCGAGGCTCCCGCACGACCAAGGGCTTAGTTTGCCGATGGTGCCCGAGCCTCTCG
1 CCGATGGT-GCCGAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGATGGTGCCCGAGGCTCCCG
** *
95504 CACGA-CCAAGGGCCTAGGTTG
65 CAC-ATCCAAGCACCAAGG-TG
* * * ** * * *
95525 CCGATGGTACGCGAGGTTCTCGCAC-ATCCAAGCACCAAG-GTGCCGATGGTGCTCGAGGCTCCC
1 CCGATGGTGC-CGAGGCTCCCGCACGA-CCAAGGGCCTAGTTTGCCGATGGTGCCCGAGGCTCCC
** *
95588 GCACGA-CCAAGGGCCTAGGTTG
64 GCAC-ATCCAAGCACCAAGG-TG
** * ** * * *
95610 CCGACAGTGTCCGAGGCTCCCGCAC-ATCATAGCACCGAG-GTGCCGATGGTGCCCGAGGCTACC
1 CCGATGGTG-CCGAGGCTCCCGCACGACCA-AGGGCCTAGTTTGCCGATGGTGCCCGAGGCTCCC
** *
95673 GCACGA-CCAAGGGCCTAGGTTG
64 GCAC-ATCCAAGCACCAAGG-TG
* ** * * *
95695 CCGATGGTGCCCGAGGCTCCCGCAC-ATCGAAGCACCGAG-GTGCCGATGGCGCCCGAGGCT-CC
1 CCGATGGTG-CCGAGGCTCCCGCACGA-CCAAGGGCCTAGTTTGCCGATGGTGCCCGAGGCTCCC
** ** *
95757 GCA-ATACCAAGGGCTTAGTTTG
64 GCACAT-CCAAGCACCAAG-GTG
* * * ** *
95779 CCGATGGTGTCCGGGGCTCCTGCAC-ATCCTAGCACC-AGGTTGCCGATGGTGCCCGAGGCTCCC
1 CCGATGGTG-CCGAGGCTCCCGCACGA-CCAAGGGCCTAGTTTGCCGATGGTGCCCGAGGCTCCC
95842 GCAC
64 GCAC
95846 GACCAAGGGC
Statistics
Matches: 710, Mismatches: 98, Indels: 49
0.83 0.11 0.06
Matches are distributed among these distances:
82 1 0.00
83 2 0.00
84 145 0.20
85 383 0.54
86 179 0.25
ACGTcount: A:0.18, C:0.33, G:0.32, T:0.17
Consensus pattern (84 bp):
CCGATGGTGCCGAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGATGGTGCCCGAGGCTCCCGC
ACATCCAAGCACCAAGGTG
Found at i:95446 original size:299 final size:298
Alignment explanation
Indices: 95054--95787 Score: 1181
Period size: 299 Copynumber: 2.5 Consensus size: 298
95044 GGGCCTAGTT
* * ** * * *
95054 TGCCGATGGTGTCCGAGGCTCCCGCAC-ATCCCAGCACCTAG-GGGCGATGGTGGCCGAGGCTCC
1 TGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTAGTTGCCGATGGTGCCCGAGGCTCC
95117 CGCACGACCAAGGGCCTATTTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCTTAGTTT
65 CGCACGACCAAGGGCCTATTTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCTTAGTTT
* *
95182 GCCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCCTAGGTTGTCGATGGTGCGCGAGGTTCTC
130 GCCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCCTAGGTTGCCGATGGTACGCGAGGTTCTC
*
95247 GGACATCCAAGCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGC
195 GCACATCCAAGCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGC
*
95312 CGACAGTGTCCGAGGCTCCCGCCCATCATAGCACCGAGG
260 CGACAGTGTCCGAGGCTCCCGCACATCATAGCACCGAGG
* *
95351 TGCCGATGGTGGCCGAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGATGGTGTCCGAGGCTCC
1 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAG-TTGCCGATGGTGCCCGAGGCTCC
*
95416 CGCACGACCAAGGGCCTATTTTGCCGATGGTGGCCGAGGCTCCCGCACGACCAAGGGCTTAGTTT
65 CGCACGACCAAGGGCCTATTTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCTTAGTTT
95481 GCCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCCTAGGTTGCCGATGGTACGCGAGGTTCTC
130 GCCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCCTAGGTTGCCGATGGTACGCGAGGTTCTC
95546 GCACATCCAAGCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGC
195 GCACATCCAAGCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGC
95611 CGACAGTGTCCGAGGCTCCCGCACATCATAGCACCGAGG
260 CGACAGTGTCCGAGGCTCCCGCACATCATAGCACCGAGG
*
95650 TGCCGATGGTGCCCGAGGCTACCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCC
1 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTA-GTTGCCGATGGTGCCCGAGGCTCC
* ** * ** * **
95715 CGCAC-ATCGAAGCACCGA-GGTGCCGATGGCGCCCGAGGCT-CCGCAATACCAAGGGCTTAGTT
65 CGCACGA-CCAAGGGCCTATTTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCTTAGTT
95777 TGCCGATGGTG
129 TGCCGATGGTG
95788 TCCGGGGCTC
Statistics
Matches: 407, Mismatches: 25, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
297 66 0.16
298 20 0.05
299 320 0.79
300 1 0.00
ACGTcount: A:0.18, C:0.33, G:0.33, T:0.17
Consensus pattern (298 bp):
TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGTTGCCGATGGTGCCCGAGGCTCCC
GCACGACCAAGGGCCTATTTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCTTAGTTTG
CCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCCTAGGTTGCCGATGGTACGCGAGGTTCTCG
CACATCCAAGCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCC
GACAGTGTCCGAGGCTCCCGCACATCATAGCACCGAGG
Found at i:95896 original size:24 final size:24
Alignment explanation
Indices: 95869--95930 Score: 97
Period size: 24 Copynumber: 2.6 Consensus size: 24
95859 TGCTACCGGA
*
95869 ACGGTTCACCGGAGCACCGACGGG
1 ACGGTTCGCCGGAGCACCGACGGG
*
95893 ACGGTTCGCCGGAGCACCGCCGGG
1 ACGGTTCGCCGGAGCACCGACGGG
*
95917 ACGGATCGCCGGAG
1 ACGGTTCGCCGGAG
95931 ACCACCGGGA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.18, C:0.34, G:0.40, T:0.08
Consensus pattern (24 bp):
ACGGTTCGCCGGAGCACCGACGGG
Done.