Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 158 of 208
Found at i:48102579 original size:51 final size:51
Alignment explanation
Indices: 48102524--48102622 Score: 189
Period size: 51 Copynumber: 1.9 Consensus size: 51
48102514 GTTTATTGAG
*
48102524 TTGGTAAATGGTAATTGGGTTTGGGTAGACTTTAGTTTATTGGGTTGGTAC
1 TTGGTAAATGGTAATTGGGTTTGGGTAGACTTTAGTTTATTGAGTTGGTAC
48102575 TTGGTAAATGGTAATTGGGTTTGGGTAGACTTTAGTTTATTGAGTTGG
1 TTGGTAAATGGTAATTGGGTTTGGGTAGACTTTAGTTTATTGAGTTGG
48102623 GTAATTGAGT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.20, C:0.03, G:0.33, T:0.43
Consensus pattern (51 bp):
TTGGTAAATGGTAATTGGGTTTGGGTAGACTTTAGTTTATTGAGTTGGTAC
Found at i:48104576 original size:43 final size:42
Alignment explanation
Indices: 48104501--48104664 Score: 159
Period size: 43 Copynumber: 3.8 Consensus size: 42
48104491 CAAAAAGCTC
* ** *
48104501 ATACAATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAA
1 ATACGATGCCAATGTCCCAGACAAGGTCTTACACGTAATCAA
* * * *
48104543 ATAACGATGCCACTGTCCCGGACAAGGTTTTACACGTAATCAT
1 AT-ACGATGCCAATGTCCCAGACAAGGTCTTACACGTAATCAA
* * *
48104586 ATACGATGCCAATGTCCCAAACATGCTCTTACACGTAAATCGTAA
1 ATACGATGCCAATGTCCCAGACAAGGTCTTACACGT-AATC--AA
* **
48104631 AT-CGATGCCAACGTCCCAGACGTGGTCTTACACG
1 ATACGATGCCAATGTCCCAGACAAGGTCTTACACG
48104665 ATATCACATA
Statistics
Matches: 99, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
42 30 0.30
43 38 0.38
44 28 0.28
45 3 0.03
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (42 bp):
ATACGATGCCAATGTCCCAGACAAGGTCTTACACGTAATCAA
Found at i:48113414 original size:49 final size:49
Alignment explanation
Indices: 48113359--48113459 Score: 148
Period size: 49 Copynumber: 2.1 Consensus size: 49
48113349 AAAAATTCTA
*
48113359 AAAAAAAATCACTCTAATGGAAGGTACGAGAAAATTACTAAAAAACAAC
1 AAAAAAAATCACTCTAATGGAAGGTACGAGAAAAGTACTAAAAAACAAC
* * * * *
48113408 AAAAAAAATCACTTTAATGGAGGGTATGAGAAAAGTACTTAAACACAAC
1 AAAAAAAATCACTCTAATGGAAGGTACGAGAAAAGTACTAAAAAACAAC
48113457 AAA
1 AAA
48113460 TGATTCAGGG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.55, C:0.13, G:0.14, T:0.18
Consensus pattern (49 bp):
AAAAAAAATCACTCTAATGGAAGGTACGAGAAAAGTACTAAAAAACAAC
Found at i:48115058 original size:26 final size:27
Alignment explanation
Indices: 48115021--48115071 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
48115011 ACCATAACAC
48115021 AAATCAGTCATTTACCCTCAAGGGGTA
1 AAATCAGTCATTTACCCTCAAGGGGTA
*
48115048 AAAT-AGTCATTTACCCTCTAGGGG
1 AAATCAGTCATTTACCCTCAAGGGG
48115072 CATTACGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (27 bp):
AAATCAGTCATTTACCCTCAAGGGGTA
Found at i:48120485 original size:16 final size:16
Alignment explanation
Indices: 48120464--48120498 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
48120454 CTTTAAAGGG
*
48120464 ATTATAGACATACATT
1 ATTATAGACATACAAT
48120480 ATTATAGACATACAAT
1 ATTATAGACATACAAT
48120496 ATT
1 ATT
48120499 GTGGACCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.46, C:0.11, G:0.06, T:0.37
Consensus pattern (16 bp):
ATTATAGACATACAAT
Found at i:48121707 original size:29 final size:30
Alignment explanation
Indices: 48121659--48121723 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
48121649 ATGGGACCTG
* *
48121659 AATTTTGAAAATTGAAAAATA-AAGAGATTA
1 AATTTTGAAAAATGAAAAATATAA-AAATTA
*
48121689 AATTTTTAAAAAT-AAAAATATAAAAATTA
1 AATTTTGAAAAATGAAAAATATAAAAATTA
48121718 AATTTT
1 AATTTT
48121724 AGATTTTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 18 0.58
30 13 0.42
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (30 bp):
AATTTTGAAAAATGAAAAATATAAAAATTA
Found at i:48124439 original size:29 final size:29
Alignment explanation
Indices: 48124406--48124467 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
48124396 CTCACTACAA
**
48124406 AGGCTTTTTTGTCCAAAATTTTGCCACAG
1 AGGCTTTCCTGTCCAAAATTTTGCCACAG
* * *
48124435 AGGCTTTCCTGTCCAAACTTTTGCTAGAG
1 AGGCTTTCCTGTCCAAAATTTTGCCACAG
48124464 AGGC
1 AGGC
48124468 GTCCATTTTC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.34
Consensus pattern (29 bp):
AGGCTTTCCTGTCCAAAATTTTGCCACAG
Found at i:48125795 original size:92 final size:92
Alignment explanation
Indices: 48125600--48125856 Score: 414
Period size: 92 Copynumber: 2.8 Consensus size: 92
48125590 CAATTGGGAA
* * * *
48125600 ATAAAAATAATTGAATGAAACAGTAGATTAAATCAAATATATGCTTCAATTATTAAAGAG----A
1 ATAAAAACAATTGAATGAAATAGTAGATTAAATAAAATATATGCTTCAATCATTAAAGAGAATAA
48125661 AAGTTTTCATCTTATAATCCCAACCCT
66 AAGTTTTCATCTTATAATCCCAACCCT
48125688 ATAAAAACAATTGAATGAAATAGTAGATTAAATAAAATATATGCTTCAATCATTAAAGAGAATAA
1 ATAAAAACAATTGAATGAAATAGTAGATTAAATAAAATATATGCTTCAATCATTAAAGAGAATAA
*
48125753 AATTTTTCATCTTATAATCCCAACCCT
66 AAGTTTTCATCTTATAATCCCAACCCT
* * *
48125780 ATAAAAGCAATTGAATGAAATAGTAGATTAAATTAAACATATGCTTCAATCATTAAAGAGAATAA
1 ATAAAAACAATTGAATGAAATAGTAGATTAAATAAAATATATGCTTCAATCATTAAAGAGAATAA
48125845 AAGTTTTCATCT
66 AAGTTTTCATCT
48125857 ATGGTGGTTG
Statistics
Matches: 156, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
88 56 0.36
92 100 0.64
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.32
Consensus pattern (92 bp):
ATAAAAACAATTGAATGAAATAGTAGATTAAATAAAATATATGCTTCAATCATTAAAGAGAATAA
AAGTTTTCATCTTATAATCCCAACCCT
Found at i:48130190 original size:23 final size:23
Alignment explanation
Indices: 48130159--48130209 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
48130149 ACCTACTTTC
*
48130159 TTACTGTAGTAATTTTCAGGG-TA
1 TTACAGTAGTAATTTTC-GGGATA
48130182 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
48130205 TTACA
1 TTACA
48130210 CTTCAGCAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 3 0.12
23 23 0.88
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:48136784 original size:60 final size:60
Alignment explanation
Indices: 48136687--48136810 Score: 162
Period size: 60 Copynumber: 2.1 Consensus size: 60
48136677 CTCGGTCATC
* * *
48136687 TATCACCCTATGAACATGAGGATTAGCGCCCTAACCATT-GAAATTATCATTGATACCAGG
1 TATCACCCTATGAACAAGAGGATTAGCACCCTAACCATTCG-AATTATCATTGAGACCAGG
* * * *
48136747 TATCACCCTATGAACAAGAGGATTAGCATCTTGACCATTCGGATTATCATTGAGACCAGG
1 TATCACCCTATGAACAAGAGGATTAGCACCCTAACCATTCGAATTATCATTGAGACCAGG
48136807 -ATCA
1 TATCA
48136811 TTCCCGTTCC
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
59 4 0.07
60 51 0.91
61 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.27
Consensus pattern (60 bp):
TATCACCCTATGAACAAGAGGATTAGCACCCTAACCATTCGAATTATCATTGAGACCAGG
Found at i:48143730 original size:18 final size:19
Alignment explanation
Indices: 48143699--48143767 Score: 52
Period size: 19 Copynumber: 3.6 Consensus size: 19
48143689 TTTGCTATTA
*
48143699 TTATTATTTTTACTACTAT
1 TTATTATTTATACTACTAT
*
48143718 TTATTA-TTATACTGCTAT
1 TTATTATTTATACTACTAT
* * *
48143736 GTACCTATTTATA-TATTATT
1 TTA-TTATTTATACTACTA-T
48143756 TTATTATATTAT
1 TTATTAT-TTAT
48143768 TATTTTTTAA
Statistics
Matches: 38, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
18 12 0.32
19 14 0.37
20 12 0.32
ACGTcount: A:0.29, C:0.09, G:0.03, T:0.59
Consensus pattern (19 bp):
TTATTATTTATACTACTAT
Found at i:48148978 original size:32 final size:28
Alignment explanation
Indices: 48148914--48148985 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 28
48148904 GTTCAGATTC
*
48148914 AAAAAAAAAAGATCAAAATAAAAAAAAAG
1 AAAAGAAAAA-ATCAAAATAAAAAAAAAG
*
48148943 AAAAGAAAAAATCACAATCAAAACAAAATATG
1 AAAAGAAAAAATCAAAAT-AAAA-AAAA-A-G
*
48148975 AAAAGAGAAAA
1 AAAAGAAAAAA
48148986 GGAAAAGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
28 7 0.19
29 13 0.36
30 4 0.11
31 1 0.03
32 11 0.31
ACGTcount: A:0.76, C:0.07, G:0.08, T:0.08
Consensus pattern (28 bp):
AAAAGAAAAAATCAAAATAAAAAAAAAG
Found at i:48150731 original size:86 final size:86
Alignment explanation
Indices: 48150581--48151144 Score: 876
Period size: 86 Copynumber: 6.5 Consensus size: 86
48150571 TAGATCAGTG
* * * **
48150581 AAGATAGCAGATCTTGCCTTCCTGTATTGACAGCGAAGTAGATTAAAAACAAAGCCTTGCCTCCA
1 AAGA-AGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
* *
48150646 TTGGTTGCAGTAGAGCTGGTTA
65 TCGGTTGCAGTGGAGCTGGTTA
*
48150668 AAGAAGCAGATCTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAAACAAAGCCTTGCCTCCAT
1 AAGAAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCAT
*
48150733 CGGTGGCAGTGGAGCTGGTTA
66 CGGTTGCAGTGGAGCTGGTTA
*
48150754 AAGAAGCAGATCTTGCCTTCCTGCATTAACAGTGAAGCAGATCGAAAACAAAGCCTTGCCTCCAT
1 AAGAAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCAT
48150819 CGGTTGCAGTGGAGCTGGTTA
66 CGGTTGCAGTGGAGCTGGTTA
48150840 AAGAAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCAT
1 AAGAAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCAT
*
48150905 CGGTTGCAGTGGAGCTAGTTA
66 CGGTTGCAGTGGAGCTGGTTA
**
48150926 AAGAAGCAGATCTTGCCTTCCTGCGCTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCAT
1 AAGAAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCAT
* *
48150991 CGGTTGTAGTAGAGCTGGTTA
66 CGGTTGCAGTGGAGCTGGTTA
* * * *
48151012 AAAAAGCAGATCTTGCTTTCCTGCATTAACAGCGGAGCAGATCAAAAACAAAGCCTTGCCTCCAT
1 AAGAAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCAT
*
48151077 CGGTTGCAGTGGAGCTGGTTG
66 CGGTTGCAGTGGAGCTGGTTA
* * ** * *
48151098 AAGATAGCAAATCTTGCCCTCCTGCATCGATAGTGAAGCAGATCGAA
1 AAGA-AGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAA
48151145 GATTACAAGT
Statistics
Matches: 438, Mismatches: 38, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
86 401 0.92
87 37 0.08
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.23
Consensus pattern (86 bp):
AAGAAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCAT
CGGTTGCAGTGGAGCTGGTTA
Found at i:48150769 original size:43 final size:43
Alignment explanation
Indices: 48150722--48150943 Score: 123
Period size: 43 Copynumber: 5.2 Consensus size: 43
48150712 AAAACAAAGC
*
48150722 CTTGCCTCCATCGGTGGCAGTGGAGCTGGTTAAAGAAGCAGAT
1 CTTGCCTCCATCGGTAGCAGTGGAGCTGGTTAAAGAAGCAGAT
** * * * * ** * *
48150765 CTTGCCTTCC-TGCATTAACAGTGAAGCAGATCGAA-AA-CAAAGC
1 CTTGCC-TCCAT-CGGTAGCAGTGGAGCTGGTTAAAGAAGCAGA-T
*
48150808 CTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGAAGCAGAT
1 CTTGCCTCCATCGGTAGCAGTGGAGCTGGTTAAAGAAGCAGAT
** * * * * * ** * *
48150851 CTTGCCTTCC-TGCATTAACAGCGAAGCAGATCGAA-AA-CAAAGC
1 CTTGCC-TCCAT-CGGTAGCAGTGGAGCTGGTTAAAGAAGCAGA-T
* *
48150894 CTTGCCTCCATCGGTTGCAGTGGAGCTAGTTAAAGAAGCAGAT
1 CTTGCCTCCATCGGTAGCAGTGGAGCTGGTTAAAGAAGCAGAT
48150937 CTTGCCT
1 CTTGCCT
48150944 TCCTGCGCTA
Statistics
Matches: 120, Mismatches: 47, Indels: 24
0.63 0.25 0.13
Matches are distributed among these distances:
42 38 0.32
43 43 0.36
44 39 0.32
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.23
Consensus pattern (43 bp):
CTTGCCTCCATCGGTAGCAGTGGAGCTGGTTAAAGAAGCAGAT
Found at i:48150984 original size:43 final size:43
Alignment explanation
Indices: 48150851--48150986 Score: 109
Period size: 43 Copynumber: 3.2 Consensus size: 43
48150841 AGAAGCAGAT
**
48150851 CTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGC
1 CTTGCCTTCCTGCGCTAACAGCGAAGCAGATCGAAAACAAAGC
* ** * * ** * *
48150894 CTTGCC-TCCAT-CGGTTGCAGTGGAGCTAG-TTAAAGAAGCAGA-T
1 CTTGCCTTCC-TGCGCTAACAGCGAAGC-AGATCGAA-AA-CAAAGC
48150937 CTTGCCTTCCTGCGCTAACAGCGAAGCAGATCGAAAACAAAGC
1 CTTGCCTTCCTGCGCTAACAGCGAAGCAGATCGAAAACAAAGC
48150980 CTTGCCT
1 CTTGCCT
48150987 CCATCGGTTG
Statistics
Matches: 66, Mismatches: 19, Indels: 16
0.65 0.19 0.16
Matches are distributed among these distances:
42 18 0.27
43 29 0.44
44 19 0.29
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.21
Consensus pattern (43 bp):
CTTGCCTTCCTGCGCTAACAGCGAAGCAGATCGAAAACAAAGC
Found at i:48151297 original size:44 final size:44
Alignment explanation
Indices: 48151246--48151362 Score: 162
Period size: 44 Copynumber: 2.7 Consensus size: 44
48151236 AGCAAATCTT
48151246 ATCTCCCTGAGGTTGCAGTGGAGCAGATTGAATTCGATAATCCA
1 ATCTCCCTGAGGTTGCAGTGGAGCAGATTGAATTCGATAATCCA
* * * * *
48151290 ATTTCCCTGAGGTTGCAATGGAGCAAATCGAATTCGATAATCCT
1 ATCTCCCTGAGGTTGCAGTGGAGCAGATTGAATTCGATAATCCA
* * *
48151334 ATCTCCCTGAAGTTGTAGTGGAGCGGATT
1 ATCTCCCTGAGGTTGCAGTGGAGCAGATT
48151363 AAAGTAATAG
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 61 1.00
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (44 bp):
ATCTCCCTGAGGTTGCAGTGGAGCAGATTGAATTCGATAATCCA
Found at i:48162647 original size:40 final size:40
Alignment explanation
Indices: 48162603--48162678 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
48162593 TGAGTGCATT
*
48162603 TAGGGACA-CGAATGTGTAAACAGGGGCACAGTTGTGAAAA
1 TAGGGACACCGAA-GTGTAAACAGGGGCACAATTGTGAAAA
** *
48162643 TAGGGACACCGAAGTGTTTATAGGGGCACAATTGTG
1 TAGGGACACCGAAGTGTAAACAGGGGCACAATTGTG
48162679 CAATGAAAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 27 0.87
41 4 0.13
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.21
Consensus pattern (40 bp):
TAGGGACACCGAAGTGTAAACAGGGGCACAATTGTGAAAA
Found at i:48164385 original size:16 final size:16
Alignment explanation
Indices: 48164364--48164396 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
48164354 TTCGCTGTAT
48164364 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
48164380 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
48164396 T
1 T
48164397 AGCAATTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.36, T:0.21
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:48164471 original size:44 final size:45
Alignment explanation
Indices: 48164378--48164472 Score: 122
Period size: 44 Copynumber: 2.1 Consensus size: 45
48164368 ATAGAGGCGT
* * *
48164378 AATGGAATAGAGGCGTAATAGCAATTCAATTGTTTGGTTGAATGT
1 AATGGAATAGAGGCATAATAGCAATTCAATTGTTTGGTTGAACGG
* *
48164423 AATGGAATAGAGGCATAATAG-TATTC-TTGTGTTTGGTTGAACGG
1 AATGGAATAGAGGCATAATAGCAATTCAAT-TGTTTGGTTGAACGG
48164467 AATGGA
1 AATGGA
48164473 GGTATAATAG
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
43 1 0.02
44 23 0.52
45 20 0.45
ACGTcount: A:0.33, C:0.06, G:0.28, T:0.33
Consensus pattern (45 bp):
AATGGAATAGAGGCATAATAGCAATTCAATTGTTTGGTTGAACGG
Found at i:48164649 original size:18 final size:17
Alignment explanation
Indices: 48164628--48164662 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
48164618 TTATTATTAA
*
48164628 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
48164646 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
48164663 TCTTAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:48164758 original size:14 final size:14
Alignment explanation
Indices: 48164720--48164766 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
48164710 TAATACTATA
48164720 AAATATAATTTA--
1 AAATATAATTTATT
*
48164732 AAATA-ATTATTATT
1 AAATATAAT-TTATT
48164746 AAATATAATTTATT
1 AAATATAATTTATT
48164760 AAATATA
1 AAATATA
48164767 TATAATTCCC
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
11 2 0.07
12 8 0.28
14 17 0.59
15 2 0.07
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
AAATATAATTTATT
Found at i:48177536 original size:27 final size:26
Alignment explanation
Indices: 48177498--48177600 Score: 118
Period size: 27 Copynumber: 3.8 Consensus size: 26
48177488 ACTGTACCGA
*
48177498 AATATCCTCGATGGGTAAAATTATCAG
1 AATACCCTCGATGGGTAAAATTA-CAG
*
48177525 AATACCCTCGATGGGTAAAATTACCAA
1 AATACCCTCGATGGGTAAAATTA-CAG
* *
48177552 AATACCCTCGACGGGTAAAATTACCG
1 AATACCCTCGATGGGTAAAATTACAG
*
48177578 AAATACGCC-CAATGGGTAAAATT
1 -AATAC-CCTCGATGGGTAAAATT
48177601 GACTGTTGTG
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
26 1 0.02
27 63 0.95
28 2 0.03
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.23
Consensus pattern (26 bp):
AATACCCTCGATGGGTAAAATTACAG
Found at i:48177583 original size:54 final size:54
Alignment explanation
Indices: 48177492--48177600 Score: 141
Period size: 54 Copynumber: 2.0 Consensus size: 54
48177482 TCGTTAACTG
* * * * *
48177492 TACCGAAATATCCTCGATGGGTAAAATTATCAGAATAC-CCTCGATGGGTAAAAT
1 TACCAAAATACCCTCGACGGGTAAAATTACCAGAATACGCC-CAATGGGTAAAAT
48177546 TACCAAAATACCCTCGACGGGTAAAATTACC-GAAATACGCCCAATGGGTAAAAT
1 TACCAAAATACCCTCGACGGGTAAAATTACCAG-AATACGCCCAATGGGTAAAAT
48177600 T
1 T
48177601 GACTGTTGTG
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
53 1 0.02
54 45 0.94
55 2 0.04
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (54 bp):
TACCAAAATACCCTCGACGGGTAAAATTACCAGAATACGCCCAATGGGTAAAAT
Found at i:48191707 original size:42 final size:42
Alignment explanation
Indices: 48191640--48191752 Score: 120
Period size: 42 Copynumber: 2.7 Consensus size: 42
48191630 GTGCTAAATA
* * * ** *
48191640 GAAACCCATAAAGGTTGAACCGAAGCTCAGCAGAGCTGAACG
1 GAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAACTGAACG
* *
48191682 GAAACCCATAAGGGTTAAATTGAAGCTCAAAAGAACTGAACT
1 GAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAACTGAACG
* *
48191724 AAAACCCA-ATAGGGTTAAACTGAAACTCA
1 GAAACCCATA-AGGGTTAAACTGAAGCTCA
48191753 TATGAGTTAA
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
41 1 0.02
42 58 0.98
ACGTcount: A:0.43, C:0.20, G:0.20, T:0.16
Consensus pattern (42 bp):
GAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAACTGAACG
Found at i:48220885 original size:45 final size:44
Alignment explanation
Indices: 48220800--48220886 Score: 102
Period size: 45 Copynumber: 2.0 Consensus size: 44
48220790 ATATACAACG
* ***
48220800 AAAATTCACAGATGAAACTTGCAACTAGGCTGTGGGTGCACAGC
1 AAAATTCACAGATAAAACTTGCAACTAGGCTGTAAATGCACAGC
* * *
48220844 AAAATGTCACAGATAAAATTTGCCACTAGGTTGTAAATGCACA
1 AAAAT-TCACAGATAAAACTTGCAACTAGGCTGTAAATGCACA
48220887 ACATATTTGC
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
44 5 0.14
45 30 0.86
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (44 bp):
AAAATTCACAGATAAAACTTGCAACTAGGCTGTAAATGCACAGC
Found at i:48221444 original size:17 final size:19
Alignment explanation
Indices: 48221408--48221445 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
48221398 ACTGAACAAT
48221408 TTATAAAATTATGGGAAAAA
1 TTATAAAATTAT-GGAAAAA
48221428 TTATAAAA-TAT-GAAAAA
1 TTATAAAATTATGGAAAAA
48221445 T
1 T
48221446 AGGGACCACA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
19 3 0.17
20 8 0.44
ACGTcount: A:0.58, C:0.00, G:0.11, T:0.32
Consensus pattern (19 bp):
TTATAAAATTATGGAAAAA
Found at i:48222737 original size:19 final size:20
Alignment explanation
Indices: 48222697--48222745 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
48222687 AATTAGATTT
*
48222697 ATTTAAAATAAAAATATTAA
1 ATTTAAAATAAAAATATGAA
*
48222717 ATTTAAATTAAAAATA-GAA
1 ATTTAAAATAAAAATATGAA
*
48222736 ATTTATAATA
1 ATTTAAAATA
48222746 TTAAATACTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (20 bp):
ATTTAAAATAAAAATATGAA
Found at i:48223121 original size:10 final size:10
Alignment explanation
Indices: 48223108--48223155 Score: 53
Period size: 10 Copynumber: 4.6 Consensus size: 10
48223098 TTTAAATATT
48223108 TTTTTTACAA
1 TTTTTTACAA
*
48223118 TTTTTTATAA
1 TTTTTTACAA
48223128 -TTTTTACAA
1 TTTTTTACAA
48223137 TTTTCTTTTACAA
1 --TT-TTTTACAA
48223150 TTTTTT
1 TTTTTT
48223156 GTAATAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
9 8 0.25
10 13 0.41
11 2 0.06
12 1 0.03
13 8 0.25
ACGTcount: A:0.25, C:0.08, G:0.00, T:0.67
Consensus pattern (10 bp):
TTTTTTACAA
Found at i:48223132 original size:32 final size:32
Alignment explanation
Indices: 48223087--48223160 Score: 105
Period size: 32 Copynumber: 2.3 Consensus size: 32
48223077 AAAAAAATCA
* *
48223087 TTTTTATACTTTTTA-AATATTTTTTTTACAAT
1 TTTTTATAATTTTTACAAT-TTTCTTTTACAAT
48223119 TTTTTATAATTTTTACAATTTTCTTTTACAAT
1 TTTTTATAATTTTTACAATTTTCTTTTACAAT
*
48223151 TTTTTGTAAT
1 TTTTTATAAT
48223161 AATATTATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
32 35 0.92
33 3 0.08
ACGTcount: A:0.27, C:0.07, G:0.01, T:0.65
Consensus pattern (32 bp):
TTTTTATAATTTTTACAATTTTCTTTTACAAT
Found at i:48228349 original size:9 final size:9
Alignment explanation
Indices: 48228335--48228410 Score: 98
Period size: 9 Copynumber: 8.4 Consensus size: 9
48228325 TTTGGTTAAA
48228335 AATTAACCG
1 AATTAACCG
*
48228344 AATTAACCA
1 AATTAACCG
*
48228353 AATTACCCG
1 AATTAACCG
*
48228362 AATTACCCG
1 AATTAACCG
*
48228371 AATTACCCG
1 AATTAACCG
48228380 AATTAACCG
1 AATTAACCG
*
48228389 AATTAACCA
1 AATTAACCG
*
48228398 AATTAACCA
1 AATTAACCG
48228407 AATT
1 AATT
48228411 GAATCACTAC
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 62 1.00
ACGTcount: A:0.45, C:0.25, G:0.07, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:48228557 original size:18 final size:18
Alignment explanation
Indices: 48228517--48228560 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
48228507 TAATTTTATG
**
48228517 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
48228535 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
48228553 CTTGGGTT
1 ATTGGGTT
48228561 AAGATTGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:48229219 original size:25 final size:25
Alignment explanation
Indices: 48229126--48229219 Score: 73
Period size: 28 Copynumber: 3.6 Consensus size: 25
48229116 AAATATAGTA
48229126 ATAA-TTTATATTTAAATAATTTAAT
1 ATAATTTTATATTTAAATAA-TTAAT
* * **
48229151 ATAATTCTACATAAAATATAAATTAAT
1 ATAATTTTATATTTAA-AT-AATTAAT
* *
48229178 CTAATTTTTTAAAATTTAAATAATTAAT
1 ATAA--TTTT-ATATTTAAATAATTAAT
48229206 ATAATTTTATATTT
1 ATAATTTTATATTT
48229220 TAACAGTTTC
Statistics
Matches: 52, Mismatches: 11, Indels: 12
0.69 0.15 0.16
Matches are distributed among these distances:
25 9 0.17
26 11 0.21
27 10 0.19
28 12 0.23
29 5 0.10
30 5 0.10
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (25 bp):
ATAATTTTATATTTAAATAATTAAT
Found at i:48233947 original size:16 final size:17
Alignment explanation
Indices: 48233919--48233958 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
48233909 CTATACATGT
48233919 GAACCCCCTTTATATGC
1 GAACCCCCTTTATATGC
48233936 GAACCCCC-TTATATGC
1 GAACCCCCTTTATATGC
*
48233952 GAGCCCC
1 GAACCCC
48233959 TTTTGCACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.23, C:0.40, G:0.15, T:0.23
Consensus pattern (17 bp):
GAACCCCCTTTATATGC
Found at i:48234142 original size:24 final size:24
Alignment explanation
Indices: 48234110--48234161 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
48234100 TCATGATATG
*
48234110 CGAACCCTAAACTGATATTACATA
1 CGAAACCTAAACTGATATTACATA
48234134 CGAAACCTAAACTGATATTACATA
1 CGAAACCTAAACTGATATTACATA
48234158 CGAA
1 CGAA
48234162 CCCCTAGGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.44, C:0.23, G:0.10, T:0.23
Consensus pattern (24 bp):
CGAAACCTAAACTGATATTACATA
Found at i:48236977 original size:3 final size:3
Alignment explanation
Indices: 48236965--48237028 Score: 103
Period size: 3 Copynumber: 21.7 Consensus size: 3
48236955 TGTGCTTTTA
* *
48236965 TAT T-T TAT TAT TAT TGT TAT TAT TAT TAT TAT TAT TGT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
48237012 TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TA
48237029 GTATGCATAT
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
2 2 0.04
3 54 0.96
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:48239835 original size:100 final size:102
Alignment explanation
Indices: 48239721--48239904 Score: 257
Period size: 102 Copynumber: 1.8 Consensus size: 102
48239711 AAAGTGATGG
* *
48239721 TCACGTGTGTAGTACTAT-GGCAGGCTACTACGTGTACCGGAATGAT-A-GGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATAGCCAGGCTACTACGTGTACC-GAATGATAATGGTCACATGTGTAGT
* *
48239783 ACTATTTGTAGGCTACTATGCGTACCAGATAGTTTCGA
65 ACTATGTGCAGGCTACTATGCGTACCAGATAGTTTCGA
* * * * *
48239821 TCACGTGTGTAGTACTATATCCAGGCTACTATGTGTATCGAATGGTAATGGTCATATGTGTAGTA
1 TCACGTGTGTAGTACTATAGCCAGGCTACTACGTGTACCGAATGATAATGGTCACATGTGTAGTA
48239886 CTATGTGCAGGCTACTATG
66 CTATGTGCAGGCTACTATG
48239905 TGAACCGAAC
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
100 24 0.33
101 17 0.24
102 31 0.43
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATAGCCAGGCTACTACGTGTACCGAATGATAATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATGCGTACCAGATAGTTTCGA
Found at i:48239964 original size:45 final size:45
Alignment explanation
Indices: 48239908--48240002 Score: 163
Period size: 45 Copynumber: 2.1 Consensus size: 45
48239898 TACTATGTGA
* *
48239908 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
*
48239953 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
48239998 ACCGA
1 ACCGA
48240003 GTATCTATTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
Found at i:48247589 original size:9 final size:9
Alignment explanation
Indices: 48247575--48247605 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
48247565 GTTAAACGAA
48247575 TCGAGTTAT
1 TCGAGTTAT
*
48247584 TCGAGTTAA
1 TCGAGTTAT
48247593 TCGAGTTAT
1 TCGAGTTAT
48247602 TCGA
1 TCGA
48247606 ATCAACTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:48247676 original size:9 final size:9
Alignment explanation
Indices: 48247659--48247695 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
48247649 TGAGTTTTCG
48247659 AATTCGAAT
1 AATTCGAAT
*
48247668 AACTCGAAT
1 AATTCGAAT
48247677 AATTCGAAT
1 AATTCGAAT
48247686 AATTCGAAT
1 AATTCGAAT
48247695 A
1 A
48247696 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:48247859 original size:25 final size:25
Alignment explanation
Indices: 48247825--48247874 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
48247815 CTCAATCTAC
48247825 CCAAAATCCATTTCCCACCAAAATT
1 CCAAAATCCATTTCCCACCAAAATT
48247850 CCAAAATCCATTTCCCACCAAAATT
1 CCAAAATCCATTTCCCACCAAAATT
48247875 TTACTCTCCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.36, G:0.00, T:0.24
Consensus pattern (25 bp):
CCAAAATCCATTTCCCACCAAAATT
Found at i:48247968 original size:30 final size:31
Alignment explanation
Indices: 48247934--48247993 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
48247924 AAACTTTTTA
*
48247934 TTTTTCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTTCCCCAAAACTTTTACTCCCTTCCCAC
* *
48247964 TTTTTCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTTCCCCAAAACTTTTACTCCCTTCCCA
48247994 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.37, G:0.00, T:0.43
Consensus pattern (31 bp):
TTTTTCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:48248765 original size:5 final size:5
Alignment explanation
Indices: 48248755--48248780 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
48248745 CTCAAAAATT
48248755 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
48248781 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:48254532 original size:17 final size:17
Alignment explanation
Indices: 48254510--48254542 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
48254500 TTTGGTTCGA
48254510 AAAAAAAAAGAAAAAAG
1 AAAAAAAAAGAAAAAAG
*
48254527 AAAAAAAAGGAAAAAA
1 AAAAAAAAAGAAAAAA
48254543 ACTTAGAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAGAAAAAAG
Found at i:48263756 original size:44 final size:44
Alignment explanation
Indices: 48263641--48263984 Score: 202
Period size: 44 Copynumber: 7.5 Consensus size: 44
48263631 CTCATTGAAT
* * * *
48263641 TTGCAATGGAGCAGATTAAAGCTACAAATCTTAT-TCCCTAAAG
1 TTGCAGTGGAACAGATTAAAGCTGCAAATCTTATCTCCCTAGAG
* * * *
48263684 TTACAATGGAGCAGATTGAAA--TGACAAATCTTATCTCCTTAGAG
1 TTGCAGTGGAACAGATT-AAAGCTG-CAAATCTTATCTCCCTAGAG
* * *
48263728 TTGCAGTGAAACAGATTGAAGCTGCAAATCTTATTTCCCT-GAAG
1 TTGCAGTGGAACAGATTAAAGCTGCAAATCTTATCTCCCTAG-AG
* * *
48263772 TTACAATGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCCTAAAG
1 TTGCAGTGGAACAGATTAAAGCT----G---CAAATCTTATCTCCCTAGAG
* * *
48263823 TTGCAGTGGAATAGATTGAAA-CTACAAATCTTATTTCCCT-GAGG
1 TTGCAGTGGAACAGATT-AAAGCTGCAAATCTTATCTCCCTAGA-G
*
48263867 TTGCAGTAGAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCCT-GAAG
1 TTGCAGTGGAACAGATTAAAGCT----G---CAAATCTTATCTCCCTAG-AG
* * * * *
48263918 TTGCAGAGGAGCAGATTGAAA-CTACAAATCTTAT-TACCTCGAGG
1 TTGCAGTGGAACAGATT-AAAGCTGCAAATCTTATCTCCCTAGA-G
* *
48263962 TTCCAATGGAACAGATTAAAGCT
1 TTGCAGTGGAACAGATTAAAGCT
48263985 ACAAGTTACA
Statistics
Matches: 236, Mismatches: 36, Indels: 57
0.72 0.11 0.17
Matches are distributed among these distances:
42 1 0.00
43 41 0.17
44 118 0.50
45 2 0.01
48 1 0.00
51 66 0.28
52 7 0.03
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (44 bp):
TTGCAGTGGAACAGATTAAAGCTGCAAATCTTATCTCCCTAGAG
Found at i:48263833 original size:51 final size:51
Alignment explanation
Indices: 48263752--48264066 Score: 269
Period size: 51 Copynumber: 6.6 Consensus size: 51
48263742 ATTGAAGCTG
* * *
48263752 CAAATCTTATTTCCCTGAAGTTACAATGGAACAGATTAAAGCTACAAGTTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTA
* * *
48263803 CAAATCTTATCTCCCTAAAGTTGCAGTGGAATAGATT---G--A-AA-CTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTA
* * *
48263847 CAAATCTTATTTCCCTGAGGTTGCAGTAGAACAGATTAAAGCTACAAGTTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTA
* * *
48263898 CAAATCTTATCTCCCTGAAGTTGCAGAGGAGCAGATT---G--A-AA-CTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTA
* * * *
48263942 CAAATCTTAT-TACCTCGAGGTTCCAATGGAACAGATTAAAGCTACAAGTTA
1 CAAATCTTATCTCCCT-GAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTA
* * * * * *
48263993 CAAATTTTATCTCCTTGAAGATGTAGTGGAGCAGATTAAAGTTACAAG-T-
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTA
48264042 C---TC--ATCTCCCTGAAGTTGCAGTGGA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGA
48264067 CCAAATTGAA
Statistics
Matches: 209, Mismatches: 39, Indels: 39
0.73 0.14 0.14
Matches are distributed among these distances:
43 4 0.02
44 81 0.39
45 4 0.02
46 3 0.01
47 2 0.01
48 2 0.01
49 3 0.01
50 5 0.02
51 102 0.49
52 3 0.01
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (51 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTA
Found at i:48264082 original size:95 final size:94
Alignment explanation
Indices: 48263622--48264066 Score: 469
Period size: 95 Copynumber: 4.8 Consensus size: 94
48263612 TCATTGTGAA
** * * *
48263622 AAATCTTATCTCATTGAATTTGCAATGGAGCAGATT-AAAGCTACAAATCTTATTCCCTAAAGTT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA-CTACAAATCTTATTCCCTGAAGTT
* * *
48263686 ACAATGGAGCAGATT---G--A-AA-TGAC
65 GCAATGGAACAGATTAAAGCTACAAGTTAC
* * * * *
48263709 AAATCTTATCT-CCTTAGAGTTGCAGTGAAACAGATTGAAGCTGCAAATCTTATTTCCCTGAAGT
1 AAATCTTATCTCCCTGA-AGTTGCAGTGGAGCAGATTGAAACTACAAATCTTA-TTCCCTGAAGT
*
48263773 TACAATGGAACAGATTAAAGCTACAAGTTAC
64 TGCAATGGAACAGATTAAAGCTACAAGTTAC
* ** *
48263804 AAATCTTATCTCCCTAAAGTTGCAGTGGAATAGATTGAAACTACAAATCTTATTTCCCTGAGGTT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAACTACAAATCTTA-TTCCCTGAAGTT
* *
48263869 GCAGTAGAACAGATTAAAGCTACAAGTTAC
65 GCAATGGAACAGATTAAAGCTACAAGTTAC
* * *
48263899 AAATCTTATCTCCCTGAAGTTGCAGAGGAGCAGATTGAAACTACAAATCTTATTACCTCGAGGTT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAACTACAAATCTTATTCCCT-GAAGTT
*
48263964 CCAATGGAACAGATTAAAGCTACAAGTTAC
65 GCAATGGAACAGATTAAAGCTACAAGTTAC
* * * * * * *
48263994 AAATTTTATCTCCTTGAAGATGTAGTGGAGCAGATT-AAAGTTACAAGTCTCATCTCCCTGAAGT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA-CTACAAATCTTAT-TCCCTGAAGT
*
48264058 TGCAGTGGA
64 TGCAATGGA
48264067 CCAAATTGAA
Statistics
Matches: 303, Mismatches: 41, Indels: 20
0.83 0.11 0.05
Matches are distributed among these distances:
86 2 0.01
87 37 0.12
88 27 0.09
91 1 0.00
93 1 0.00
94 10 0.03
95 217 0.72
96 8 0.03
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (94 bp):
AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAACTACAAATCTTATTCCCTGAAGTTG
CAATGGAACAGATTAAAGCTACAAGTTAC
Found at i:48264694 original size:8 final size:8
Alignment explanation
Indices: 48264681--48264719 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
48264671 TTGAATACAA
48264681 AAAAAGGT
1 AAAAAGGT
*
48264689 AAAAAGTT
1 AAAAAGGT
48264697 AACAAAGGT
1 AA-AAAGGT
48264706 AAAAA-GT
1 AAAAAGGT
48264713 AAAAAGG
1 AAAAAGG
48264720 CTCCATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 7 0.26
8 13 0.48
9 7 0.26
ACGTcount: A:0.64, C:0.03, G:0.21, T:0.13
Consensus pattern (8 bp):
AAAAAGGT
Found at i:48265845 original size:3 final size:3
Alignment explanation
Indices: 48265833--48265876 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
48265823 TGCACTTTTA
* *
48265833 TAT T-T TAT TAT TAT TAT TGT TAT TAT TAT TAT TAT CAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
48265877 GCGTATTAGT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:48267587 original size:60 final size:59
Alignment explanation
Indices: 48267502--48267655 Score: 184
Period size: 60 Copynumber: 2.6 Consensus size: 59
48267492 GAGAAGAATA
* * * * * *
48267502 GCCTTTATGGAAAAACTCTGGATAGGAAAGCCTTTATGGCGAGTACTGAGTGTAAATGAT
1 GCCTTTGTGG-AAAACTCTTGATAGGAAAGCCTTTATAGCGAGTACTAAATGTAAAGGAT
* *
48267562 GCCTTTGTGGTAAATCTCTTGATAGGAAAGCCTTTGTAGCGAGTACTAAATGTAAAGGAT
1 GCCTTTGTGG-AAAACTCTTGATAGGAAAGCCTTTATAGCGAGTACTAAATGTAAAGGAT
* *
48267622 GCCTTTGTAGCAAACT-TTGGATAGGAAAGCCTTT
1 GCCTTTGTGGAAAACTCTT-GATAGGAAAGCCTTT
48267656 GTGGAAAAAC
Statistics
Matches: 81, Mismatches: 12, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
58 2 0.02
59 19 0.23
60 60 0.74
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (59 bp):
GCCTTTGTGGAAAACTCTTGATAGGAAAGCCTTTATAGCGAGTACTAAATGTAAAGGAT
Found at i:48267831 original size:61 final size:61
Alignment explanation
Indices: 48267644--48267839 Score: 268
Period size: 61 Copynumber: 3.2 Consensus size: 61
48267634 AACTTTGGAT
* * * * * *
48267644 AGGAAAGCCTTTGTGGAAAAACTCTAGACAGGAAAGACTTTATGGTGAGTATTAGATGTAA
1 AGGATAGCCTTTGTGGCACAACTCTGGACAGGAAAGCCTTTATGGTGAGTATTGGATGTAA
* * * * *
48267705 AGGACAACTTTTGTGGCACAACTCTGGAAAGGAAAACCTTTATGGTGAGTATTGGATGTAA
1 AGGATAGCCTTTGTGGCACAACTCTGGACAGGAAAGCCTTTATGGTGAGTATTGGATGTAA
* *
48267766 AGGATAGCCTTTGTGGCACAACTCTGGACAGGAAAGCCTTTGTGGCGAGTATTGGATGTAA
1 AGGATAGCCTTTGTGGCACAACTCTGGACAGGAAAGCCTTTATGGTGAGTATTGGATGTAA
48267827 AGGAT-GCCTTTGT
1 AGGATAGCCTTTGT
48267840 TATAACCTCT
Statistics
Matches: 118, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
60 8 0.07
61 110 0.93
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.28
Consensus pattern (61 bp):
AGGATAGCCTTTGTGGCACAACTCTGGACAGGAAAGCCTTTATGGTGAGTATTGGATGTAA
Found at i:48271517 original size:20 final size:20
Alignment explanation
Indices: 48271492--48271529 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
48271482 TGGATCTATC
48271492 AATTAAATATATTTTTTAAA
1 AATTAAATATATTTTTTAAA
*
48271512 AATTAAATTTATTTTTTA
1 AATTAAATATATTTTTTA
48271530 TTAAAGGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
AATTAAATATATTTTTTAAA
Found at i:48281320 original size:221 final size:221
Alignment explanation
Indices: 48280937--48281385 Score: 880
Period size: 221 Copynumber: 2.0 Consensus size: 221
48280927 TTTATTTTAT
*
48280937 TATTATTTTATTGTCTACAGCATGATAGTAGTACCGTACCAAACATTTGTTAAAAAATTTTATCG
1 TATTATTTTATTGTCTACAGCATGATAGTAGTACCGTACCAAACATTTGTTAAAAAAATTTATCG
48281002 TTTTCATGCTTAATTTAATAAAACCGACTAAATTGCATAAAGTGCAAAAGAAGTGTTCTAGTAGC
66 TTTTCATGCTTAATTTAATAAAACCGACTAAATTGCATAAAGTGCAAAAGAAGTGTTCTAGTAGC
48281067 TAAAGGTATTAAATAGCTATAGAACCTTAAAGTATGAGTCCTTATGTGGTAATTAGACCTTCAAT
131 TAAAGGTATTAAATAGCTATAGAACCTTAAAGTATGAGTCCTTATGTGGTAATTAGACCTTCAAT
48281132 GAAGATAGTGGATGTGCATGGCTTGG
196 GAAGATAGTGGATGTGCATGGCTTGG
48281158 TATTATTTTATTGTCTACAGCATGATAGTAGTACCGTACCAAACATTTGTTAAAAAAATTTATCG
1 TATTATTTTATTGTCTACAGCATGATAGTAGTACCGTACCAAACATTTGTTAAAAAAATTTATCG
48281223 TTTTCATGCTTAATTTAATAAAACCGACTAAATTGCATAAAGTGCAAAAGAAGTGTTCTAGTAGC
66 TTTTCATGCTTAATTTAATAAAACCGACTAAATTGCATAAAGTGCAAAAGAAGTGTTCTAGTAGC
48281288 TAAAGGTATTAAATAGCTATAGAACCTTAAAGTATGAGTCCTTATGTGGTAATTAGACCTTCAAT
131 TAAAGGTATTAAATAGCTATAGAACCTTAAAGTATGAGTCCTTATGTGGTAATTAGACCTTCAAT
*
48281353 GAAGTTAGTGGATGTGCATGGCTTGG
196 GAAGATAGTGGATGTGCATGGCTTGG
48281379 TATTATT
1 TATTATT
48281386 GAAATTTGGA
Statistics
Matches: 226, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
221 226 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (221 bp):
TATTATTTTATTGTCTACAGCATGATAGTAGTACCGTACCAAACATTTGTTAAAAAAATTTATCG
TTTTCATGCTTAATTTAATAAAACCGACTAAATTGCATAAAGTGCAAAAGAAGTGTTCTAGTAGC
TAAAGGTATTAAATAGCTATAGAACCTTAAAGTATGAGTCCTTATGTGGTAATTAGACCTTCAAT
GAAGATAGTGGATGTGCATGGCTTGG
Found at i:48283369 original size:21 final size:21
Alignment explanation
Indices: 48283336--48283389 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 21
48283326 GTGGGGGTCT
* * *
48283336 ACACACCTATGTGGAGGCCAC
1 ACACACCCATGTGAAAGCCAC
*
48283357 ACACACCCGTGTGAAAGCCAC
1 ACACACCCATGTGAAAGCCAC
**
48283378 ACATGCCCATGT
1 ACACACCCATGT
48283390 TAAGGGGACA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.30, C:0.35, G:0.20, T:0.15
Consensus pattern (21 bp):
ACACACCCATGTGAAAGCCAC
Found at i:48310304 original size:125 final size:125
Alignment explanation
Indices: 48310082--48310369 Score: 504
Period size: 125 Copynumber: 2.3 Consensus size: 125
48310072 TTTTTTTAAG
* *
48310082 GAAATCGCTCCAACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAATTAATTTCGAGTAGAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
48310147 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCATTGTCAGCAAAAGTACT
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCATTGTCAGCAAAAGTACT
* * *
48310207 GAAATCACTCCCACATGGACGCGCTTTTGCTACAGTAGCTCTTGAAAAAATAATTTCGAGTAGAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
* *
48310272 GTTTCTGAGCAAATAGTGTCAAAAATGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTACT
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCATTGTCAGCAAAAGTACT
*
48310332 GAAATCGCTCCCACGTGGACGCGTTTTTGCTACAGTAG
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAG
48310370 TACATGTTTG
Statistics
Matches: 153, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
125 153 1.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (125 bp):
GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCATTGTCAGCAAAAGTACT
Found at i:48312288 original size:30 final size:30
Alignment explanation
Indices: 48312237--48312304 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
48312227 TTGCTATTGC
*
48312237 TGGGCCTA-GTGATTGTATGGGCGCT-GATGA
1 TGGGCC-AGGTGAATGTATGGGC-CTCGATGA
* *
48312267 TGGGCCAGGTGAATGTTTGGGCCTCGTTGA
1 TGGGCCAGGTGAATGTATGGGCCTCGATGA
48312297 TGGGCCAG
1 TGGGCCAG
48312305 TGTCGTCGTC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 3 0.09
30 30 0.91
ACGTcount: A:0.15, C:0.16, G:0.41, T:0.28
Consensus pattern (30 bp):
TGGGCCAGGTGAATGTATGGGCCTCGATGA
Found at i:48313983 original size:28 final size:27
Alignment explanation
Indices: 48313944--48314001 Score: 73
Period size: 29 Copynumber: 2.1 Consensus size: 27
48313934 TAAAAAATTC
*
48313944 AAAAAAAT-AAAATTTAAAACTTTTTT
1 AAAAAAATAAAAAATTAAAACTTTTTT
*
48313970 AAAAATAATTAAAAAATTAAAGCTTTTTT
1 AAAAA-AA-TAAAAAATTAAAACTTTTTT
48313999 AAA
1 AAA
48314002 TAGGAATTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 5 0.19
27 2 0.07
28 1 0.04
29 19 0.70
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (27 bp):
AAAAAAATAAAAAATTAAAACTTTTTT
Found at i:48314017 original size:11 final size:11
Alignment explanation
Indices: 48314003--48314036 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
48313993 TTTTTTAAAT
48314003 AGGAATTTGAG
1 AGGAATTTGAG
48314014 AGGAATTTGAG
1 AGGAATTTGAG
*
48314025 A-GAAATTGAG
1 AGGAATTTGAG
48314035 AG
1 AG
48314037 AAAGAATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.41, C:0.00, G:0.35, T:0.24
Consensus pattern (11 bp):
AGGAATTTGAG
Found at i:48315090 original size:25 final size:25
Alignment explanation
Indices: 48315062--48315133 Score: 110
Period size: 25 Copynumber: 2.9 Consensus size: 25
48315052 TTTTATATTA
48315062 ATATTAATATTAAATAAATATAATT
1 ATATTAATATTAAATAAATATAATT
*
48315087 ATATTAATTTTAAATAAATATAATT
1 ATATTAATATTAAATAAATATAATT
* *
48315112 ATGTTAATATTAACTAAA-ATAA
1 ATATTAATATTAAATAAATATAA
48315134 AAATCTCTCC
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
24 4 0.09
25 39 0.91
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (25 bp):
ATATTAATATTAAATAAATATAATT
Found at i:48315092 original size:31 final size:30
Alignment explanation
Indices: 48315054--48315134 Score: 91
Period size: 25 Copynumber: 2.8 Consensus size: 30
48315044 AATTTAAATT
48315054 TTATATTAATATTAATATTAAATAAATATAA
1 TTATATTAATATTAAT-TTAAATAAATATAA
48315085 TTATATT-A-A-T--TTTAAATAAATATAA
1 TTATATTAATATTAATTTAAATAAATATAA
* * *
48315110 TTATGTTAATATTAACTAAAATAAA
1 TTATATTAATATTAATTTAAATAAA
48315135 AATCTCTCCC
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
25 20 0.48
26 2 0.05
27 1 0.02
28 2 0.05
29 1 0.02
30 9 0.21
31 7 0.17
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (30 bp):
TTATATTAATATTAATTTAAATAAATATAA
Found at i:48316540 original size:13 final size:13
Alignment explanation
Indices: 48316524--48316554 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
48316514 ATGGAAGGAA
48316524 GAAATTTTATTAG
1 GAAATTTTATTAG
48316537 GAAATTTTATTAG
1 GAAATTTTATTAG
*
48316550 AAAAT
1 GAAAT
48316555 AATTAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.13, T:0.42
Consensus pattern (13 bp):
GAAATTTTATTAG
Found at i:48316580 original size:12 final size:12
Alignment explanation
Indices: 48316563--48316588 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
48316553 ATAATTAAAA
48316563 TATTTTGTTTGT
1 TATTTTGTTTGT
48316575 TATTTTGTTTGT
1 TATTTTGTTTGT
48316587 TA
1 TA
48316589 AGGCAGAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.12, C:0.00, G:0.15, T:0.73
Consensus pattern (12 bp):
TATTTTGTTTGT
Found at i:48317914 original size:1 final size:1
Alignment explanation
Indices: 48317908--48317933 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
48317898 TGTTGTAGTG
48317908 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
48317934 GTGTTGTTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:48318673 original size:24 final size:24
Alignment explanation
Indices: 48318602--48318673 Score: 67
Period size: 24 Copynumber: 3.0 Consensus size: 24
48318592 ATACTCTCTC
*
48318602 TTTTTTTTATAATTT-A-ATTTCA
1 TTTTTTTTATAATTTGATATTTAA
* * *
48318624 TTTAATTTTTTTAATTTGGTACTTAA
1 TTT--TTTTTATAATTTGATATTTAA
*
48318650 TTTTTTTTCTAATTTGATATTTAA
1 TTTTTTTTATAATTTGATATTTAA
48318674 ATTTATCAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
22 3 0.08
24 29 0.74
26 7 0.18
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.65
Consensus pattern (24 bp):
TTTTTTTTATAATTTGATATTTAA
Found at i:48319293 original size:35 final size:35
Alignment explanation
Indices: 48319254--48319323 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
48319244 TAAATGAATA
48319254 AAATTTAATGATTATCATAACTTACATAAACATTT
1 AAATTTAATGATTATCATAACTTACATAAACATTT
*
48319289 AAATTTAATGATTATCATAATTTACATAAACATTT
1 AAATTTAATGATTATCATAACTTACATAAACATTT
48319324 GAAGAATATA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.46, C:0.10, G:0.03, T:0.41
Consensus pattern (35 bp):
AAATTTAATGATTATCATAACTTACATAAACATTT
Found at i:48332589 original size:415 final size:418
Alignment explanation
Indices: 48331816--48332640 Score: 1476
Period size: 415 Copynumber: 2.0 Consensus size: 418
48331806 ACAGTTAAGC
* *
48331816 AAATTGCTCAACTTAAAGCGAAGACAACATCAAGAGAAGTAGAGGCTCAATGAAAATATGAAGAA
1 AAATTGCTCAACTTAAAGCGAAGACAACATCAAGAGAAGCAGAGGCTCAAAGAAAATATGAAGAA
*
48331881 CTCCAGCTATAACCTAAAGCGGAGGCAGCAGCGAGGAAACAAAAGCAACAAGAAAATATTATGAC
66 CTCCAGCTATAACCTAAAGCGGAGGCAGCAGCGAAGAAACAAAAGCAACAAGAAAATATTATGAC
*
48331946 GAACTCCAGCTACAGCTTCAGAATATGATGAAAATGTTTCAGCAGTCGCAGAATCCACCATCTTA
131 GAACTCCAACTACAGCTTCAGAATATGATGAAAATGTTTCAGCAGTCGCAGAATCCACCATCTTA
48332011 GTCTTTTGTTTTCTTATTGTGAGAATATCTTAACAATACAACTTTTGAATGTAATATATTTTGTT
196 GTCTTTTGTTTTCTTATTGTGAGAATATCTTAACAATACAACTTTTGAATGTAATATATTTTGTT
48332076 ATTTCATTTATTAATTTAGATCATATACATATTTCATTCATGATAGTATCATTTAGATTTGAAGT
261 ATTTCATTTATTAATTTAGATCATATACATATTTCATTCATGATAGTATCATTTAGATTTGAAGT
48332141 TTTTGATTGGATTTGATGTTACAAGAAATTATGTTGAAAATTTGGGTTCTATATGAATTAAAATG
326 TTTTGATTGGATTTGATGTTACAAGAAATTATGTTGAAAATTTGGGTTCTATATGAATTAAAATG
*
48332206 GATTGGTAAAATATGCTAAAATTAAAGT
391 AATTGGTAAAATATGCTAAAATTAAAGT
* * * * *
48332234 AAATTGCTCAACTTAAAGTGGAGATAACATCAAGAGAAGCAGAGGTTTAAAGAAAATATGAAGAA
1 AAATTGCTCAACTTAAAGCGAAGACAACATCAAGAGAAGCAGAGGCTCAAAGAAAATATGAAGAA
*
48332299 CTCCAGCTATAACCTAAAGCGGAGGCAGCAGCGAAGAAGCAAAAGCAACAAG-AAA-A-TATGAC
66 CTCCAGCTATAACCTAAAGCGGAGGCAGCAGCGAAGAAACAAAAGCAACAAGAAAATATTATGAC
*
48332361 GAACTCCAACTACAGCTTCAGAATATGATGAAAATGTTTCAGCAGTCGCAGAATCCGCCATCTTA
131 GAACTCCAACTACAGCTTCAGAATATGATGAAAATGTTTCAGCAGTCGCAGAATCCACCATCTTA
*
48332426 GTCTTTTGTTTTCTTATTGTGAGAATATCTTTACAATACAACTTTTGAATGTAATATATTTTGTT
196 GTCTTTTGTTTTCTTATTGTGAGAATATCTTAACAATACAACTTTTGAATGTAATATATTTTGTT
*
48332491 ATTTCATTTATTAATTTAGATCATATACATATTTCATTCATGATAGTATTATTTAGATTTGAAGT
261 ATTTCATTTATTAATTTAGATCATATACATATTTCATTCATGATAGTATCATTTAGATTTGAAGT
* * *
48332556 TTTTGGTTGGATTTGATGTTGCAGGAAATTATGTTGAAAATTTGGGTTCTATATGAATTAAAATG
326 TTTTGATTGGATTTGATGTTACAAGAAATTATGTTGAAAATTTGGGTTCTATATGAATTAAAATG
48332621 AATTGGTAAAATATGCTAAA
391 AATTGGTAAAATATGCTAAA
48332641 TTTCCCAAAA
Statistics
Matches: 390, Mismatches: 17, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
415 278 0.71
416 1 0.00
417 3 0.01
418 108 0.28
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (418 bp):
AAATTGCTCAACTTAAAGCGAAGACAACATCAAGAGAAGCAGAGGCTCAAAGAAAATATGAAGAA
CTCCAGCTATAACCTAAAGCGGAGGCAGCAGCGAAGAAACAAAAGCAACAAGAAAATATTATGAC
GAACTCCAACTACAGCTTCAGAATATGATGAAAATGTTTCAGCAGTCGCAGAATCCACCATCTTA
GTCTTTTGTTTTCTTATTGTGAGAATATCTTAACAATACAACTTTTGAATGTAATATATTTTGTT
ATTTCATTTATTAATTTAGATCATATACATATTTCATTCATGATAGTATCATTTAGATTTGAAGT
TTTTGATTGGATTTGATGTTACAAGAAATTATGTTGAAAATTTGGGTTCTATATGAATTAAAATG
AATTGGTAAAATATGCTAAAATTAAAGT
Found at i:48333265 original size:14 final size:15
Alignment explanation
Indices: 48333236--48333283 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 15
48333226 ATTTTTATTT
48333236 TATTTAATATTAATA
1 TATTTAATATTAATA
*
48333251 TATTT-ATATTTATATT
1 TATTTAATA-TTA-ATA
48333267 TATTTAATATTAATA
1 TATTTAATATTAATA
48333282 TA
1 TA
48333284 AAATGTGGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
14 3 0.11
15 12 0.43
16 10 0.36
17 3 0.11
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TATTTAATATTAATA
Found at i:48333273 original size:25 final size:26
Alignment explanation
Indices: 48333226--48333276 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
48333216 AGGGTGGTGG
*
48333226 ATTTTTATTTTATTTAATATTAATAT
1 ATTTATATTTTATTTAATATTAATAT
48333252 ATTTATATTTATATTT-AT-TTAATAT
1 ATTTATATTT-TATTTAATATTAATAT
48333277 TAATATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 7 0.30
26 11 0.48
27 5 0.22
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (26 bp):
ATTTATATTTTATTTAATATTAATAT
Found at i:48334280 original size:138 final size:138
Alignment explanation
Indices: 48334032--48334306 Score: 514
Period size: 138 Copynumber: 2.0 Consensus size: 138
48334022 CTTTTGTTGA
48334032 AAAAAACTATCTGAGACAAACCTTTCGAATGCCGAGTCCGTGCCATAACCTTGTGGGTTACCTGT
1 AAAAAACTATCTGAGACAAACCTTTCGAATGCCGAGTCCGTGCCATAACCTTGTGGGTTACCTGT
*
48334097 AAAGAATGAAACTAAGGGGATGAGCTTAAGAATCTCAATGTGGGTCTAAACACAAGAAAATCAAT
66 AAAGAAGGAAACTAAGGGGATGAGCTTAAGAATCTCAATGTGGGTCTAAACACAAGAAAATCAAT
48334162 ACAAAAAG
131 ACAAAAAG
**
48334170 AAAAAACTATCTGAGACAAACCTTTCGAATGCCGAGTCCGTGCCATAACCTTGTGGGTTATTTGT
1 AAAAAACTATCTGAGACAAACCTTTCGAATGCCGAGTCCGTGCCATAACCTTGTGGGTTACCTGT
48334235 AAAGAAGGAAACTAAGGGGATGAGCTTAAGAATCTCAATGTGGGTCTAAACACAAGAAAATCAAT
66 AAAGAAGGAAACTAAGGGGATGAGCTTAAGAATCTCAATGTGGGTCTAAACACAAGAAAATCAAT
*
48334300 GCAAAAA
131 ACAAAAA
48334307 AGTAGACATG
Statistics
Matches: 133, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
138 133 1.00
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.22
Consensus pattern (138 bp):
AAAAAACTATCTGAGACAAACCTTTCGAATGCCGAGTCCGTGCCATAACCTTGTGGGTTACCTGT
AAAGAAGGAAACTAAGGGGATGAGCTTAAGAATCTCAATGTGGGTCTAAACACAAGAAAATCAAT
ACAAAAAG
Found at i:48337427 original size:14 final size:14
Alignment explanation
Indices: 48337408--48337437 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
48337398 ACAACAAAAC
48337408 ATGAGTGCATATCT
1 ATGAGTGCATATCT
48337422 ATGAGTGCATATCT
1 ATGAGTGCATATCT
48337436 AT
1 AT
48337438 ATATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (14 bp):
ATGAGTGCATATCT
Found at i:48338564 original size:38 final size:38
Alignment explanation
Indices: 48338522--48338616 Score: 129
Period size: 38 Copynumber: 2.5 Consensus size: 38
48338512 TTATTGATTG
*
48338522 CATGTTCAA-CATGCCTACTATTACTATTAAACTGAATA
1 CATGTT-AAGCATGCCTACTACTACTATTAAACTGAATA
* *
48338560 CATGTTAAGCATGTCTACTGCTACTATTAAACTGAATA
1 CATGTTAAGCATGCCTACTACTACTATTAAACTGAATA
* *
48338598 CATGTTAAGTATGTCTACT
1 CATGTTAAGCATGCCTACT
48338617 GTTTTTACAT
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
37 2 0.04
38 50 0.96
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.36
Consensus pattern (38 bp):
CATGTTAAGCATGCCTACTACTACTATTAAACTGAATA
Found at i:48338617 original size:38 final size:38
Alignment explanation
Indices: 48338543--48338617 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 38
48338533 TGCCTACTAT
48338543 TACTATTAAACTGAATACATGTTAAGCATGTCTACTGC
1 TACTATTAAACTGAATACATGTTAAGCATGTCTACTGC
*
48338581 TACTATTAAACTGAATACATGTTAAGTATGTCTACTG
1 TACTATTAAACTGAATACATGTTAAGCATGTCTACTG
48338618 TTTTTACATG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (38 bp):
TACTATTAAACTGAATACATGTTAAGCATGTCTACTGC
Found at i:48340403 original size:269 final size:269
Alignment explanation
Indices: 48339917--48340454 Score: 736
Period size: 269 Copynumber: 2.0 Consensus size: 269
48339907 ACTTGAACTT
* * *
48339917 TTTTGTTTGAAAACTGTAGATATACTTCAAAATTTAAACTTTCGAGAATACAATATGAACACTCA
1 TTTTGTTTGAAAACTATAGATATACTTCAAAACTTAAACTTTCGAGAATACAATATAAACACTCA
* * *
48339982 AGGTAGACGTGGTAGGGGTAGGCCGCGTAGGGCTGCACCCGCTGAGCCACCCATTGTTCAGAGGG
66 AGGTAGACGTGGTAGGGGTAGGCCGCATAGGGCTGCACCCACTGAGCCACCCATTGTTCAGAAGG
* * **
48340047 GAAACCAAATCCTTAAAAAGGAGTACGTGGAGAATTCTACCGCCAATGGTGACAAAGGTTACGAG
131 AAAACCAAATCCCTAAAAAGGAGTACGTGGAGAATTCTACCAACAATGGTGACAAAGGTTACGAG
* * * * * *
48340112 AATAGAGATGATGCATTGTCGCAAACAATGCTGAGGG-TTCTGCAAAGGGTTACTGGAGCCCAAG
196 AACAGAGACGATGCAGTGTCGCAAACAATGCTG-GGGATTCTACAAAGGGTTACTAGAGCCCAAA
48340176 CTAGATCGGG
260 CTAGATCGGG
* * * **
48340186 TTTTGTTTGAAAACTATAGATATACTTTAGAACTTAAATTTTTTAGAATACAATATAAACACTCA
1 TTTTGTTTGAAAACTATAGATATACTTCAAAACTTAAACTTTCGAGAATACAATATAAACACTCA
* * * *
48340251 AGGTAGACGTGGTAGGGGTAGGCTGCATAGGGTTGCACCCATTGAGCCACCCATTGTTTAGAAGG
66 AGGTAGACGTGGTAGGGGTAGGCCGCATAGGGCTGCACCCACTGAGCCACCCATTGTTCAGAAGG
* ** ** *
48340316 AAAACCCAATCCCTAAGGAGGAGTACGTGGAGAATTCTACCAACAATGGTGGTAGAGGTTACGAG
131 AAAACCAAATCCCTAAAAAGGAGTACGTGGAGAATTCTACCAACAATGGTGACAAAGGTTACGAG
* * * * *
48340381 AACGGAGACGATGCAGTGTCGCAAGCAATGTTGGGGATTTTACAAAGGGTTGCTAGAGCCCAAAC
196 AACAGAGACGATGCAGTGTCGCAAACAATGCTGGGGATTCTACAAAGGGTTACTAGAGCCCAAAC
48340446 TAGATCGGG
261 TAGATCGGG
48340455 GAGCCATGGA
Statistics
Matches: 232, Mismatches: 36, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
268 3 0.01
269 229 0.99
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.24
Consensus pattern (269 bp):
TTTTGTTTGAAAACTATAGATATACTTCAAAACTTAAACTTTCGAGAATACAATATAAACACTCA
AGGTAGACGTGGTAGGGGTAGGCCGCATAGGGCTGCACCCACTGAGCCACCCATTGTTCAGAAGG
AAAACCAAATCCCTAAAAAGGAGTACGTGGAGAATTCTACCAACAATGGTGACAAAGGTTACGAG
AACAGAGACGATGCAGTGTCGCAAACAATGCTGGGGATTCTACAAAGGGTTACTAGAGCCCAAAC
TAGATCGGG
Found at i:48341126 original size:26 final size:27
Alignment explanation
Indices: 48341087--48341149 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 27
48341077 AGTACATGTA
* *
48341087 AATTTTGTTATTATTTAA-AGAA-ATAT
1 AATTTTATTATTATATAATA-AATATAT
*
48341113 AATTTTATTTTTATATAATAAATATAT
1 AATTTTATTATTATATAATAAATATAT
*
48341140 AAATTTATTA
1 AATTTTATTA
48341150 CCATAAACAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
26 17 0.57
27 13 0.43
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.52
Consensus pattern (27 bp):
AATTTTATTATTATATAATAAATATAT
Found at i:48341212 original size:15 final size:15
Alignment explanation
Indices: 48341194--48341224 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
48341184 TTGGTTTTAA
*
48341194 ATAATAAATTATTAT
1 ATAATAAATTAATAT
48341209 ATAATAAATTAATAT
1 ATAATAAATTAATAT
48341224 A
1 A
48341225 CCCAATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAATAAATTAATAT
Found at i:48342759 original size:29 final size:30
Alignment explanation
Indices: 48342691--48342761 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 30
48342681 AAAAATTTTA
* *
48342691 ATAAATTTAGGCTTCAATTTTTACAAAATTT
1 ATAAATTTA-GCTTCAATTTCTACAAAATTC
* *
48342722 ATCATTTTAGC-TCAATTTCTA-AAAATTC
1 ATAAATTTAGCTTCAATTTCTACAAAATTC
48342750 AGTAAATTTAGC
1 A-TAAATTTAGC
48342762 CCTCAATATT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
28 7 0.21
29 17 0.52
30 2 0.06
31 7 0.21
ACGTcount: A:0.38, C:0.13, G:0.07, T:0.42
Consensus pattern (30 bp):
ATAAATTTAGCTTCAATTTCTACAAAATTC
Found at i:48343123 original size:2 final size:2
Alignment explanation
Indices: 48343116--48343148 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
48343106 TGAATCATTT
48343116 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
48343149 TAATGCATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:48346428 original size:2 final size:2
Alignment explanation
Indices: 48346421--48346459 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
48346411 CTTTCATCCT
48346421 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
48346460 TGCCTACAAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:48350257 original size:57 final size:57
Alignment explanation
Indices: 48350163--48350270 Score: 180
Period size: 57 Copynumber: 1.9 Consensus size: 57
48350153 TTGTTCCAAC
* *
48350163 GAACATGACTATCTCTTGCTATCTCATGGACAGTTTGAGTTAATGTTAAAAGCTGAG
1 GAACATGACTATCTCTTGCTATCTCATGGACAATTTGAATTAATGTTAAAAGCTGAG
* *
48350220 GAACATGACTATCTCTTGCTATTTCATGGATAATTTGAATTAATGTTAAAA
1 GAACATGACTATCTCTTGCTATCTCATGGACAATTTGAATTAATGTTAAAA
48350271 TAGTGTATGT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 47 1.00
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (57 bp):
GAACATGACTATCTCTTGCTATCTCATGGACAATTTGAATTAATGTTAAAAGCTGAG
Found at i:48351031 original size:22 final size:20
Alignment explanation
Indices: 48350988--48351046 Score: 64
Period size: 22 Copynumber: 2.8 Consensus size: 20
48350978 CTAAAGAGAG
*
48350988 AAAAATAAGTTTTTAATCTTTT
1 AAAAATAA-TTTTT-ATATTTT
*
48351010 AAATATTATATTTTTATATTTT
1 AAA-AATA-ATTTTTATATTTT
48351032 AAAAATAATTTTTAT
1 AAAAATAATTTTTAT
48351047 TGTAATTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
20 8 0.25
21 3 0.09
22 12 0.38
23 8 0.25
24 1 0.03
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (20 bp):
AAAAATAATTTTTATATTTT
Found at i:48352007 original size:15 final size:15
Alignment explanation
Indices: 48351989--48352023 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
48351979 TTTCGAGAAT
48351989 TTTTAAATTTATATA
1 TTTTAAATTTATATA
* *
48352004 TTTTAAATTTTTATT
1 TTTTAAATTTATATA
48352019 TTTTA
1 TTTTA
48352024 GAATCATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTAAATTTATATA
Found at i:48362026 original size:101 final size:101
Alignment explanation
Indices: 48361896--48362135 Score: 374
Period size: 101 Copynumber: 2.4 Consensus size: 101
48361886 TGAACTGACG
48361896 GATAAGACCATAACTGGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCA-TGACAATATT
1 GATAAGACCATAACTGGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCATTG-CAATATT
48361960 TATATGTAAAACCATAGCTAGGATATGACATTCTGAT
65 TATATGTAAAACCATAGCTAGGATATGACATTCTGAT
* * * *
48361997 GATAAGACCATAACTGGGTTATGACACTATGAACGTAATACCATGGTTGGACCATTGCAGTGTTT
1 GATAAGACCATAACTGGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCATTGCAATATTT
* * * *
48362062 ATATGTAAGACCATAGCTGGGCTATGGCATTCTGAT
66 ATATGTAAAACCATAGCTAGGATATGACATTCTGAT
* *
48362098 GATAAGACCATAACTGGGTTATGGCACTACGAATGTAA
1 GATAAGACCATAACTGGGTTATGGCACTATGAACGTAA
48362136 AGGATGAATT
Statistics
Matches: 127, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
101 125 0.98
102 2 0.02
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (101 bp):
GATAAGACCATAACTGGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCATTGCAATATTT
ATATGTAAAACCATAGCTAGGATATGACATTCTGAT
Found at i:48364812 original size:21 final size:21
Alignment explanation
Indices: 48364788--48364837 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
48364778 ATGATAACGT
*
48364788 AAAATGAAATCAAA-ATTAAA
1 AAAAAGAAATCAAACATTAAA
* *
48364808 AAAAAGATATGAAACATTAAA
1 AAAAAGAAATCAAACATTAAA
*
48364829 TAAAAGAAA
1 AAAAAGAAA
48364838 CTTCCTGTAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.70, C:0.04, G:0.08, T:0.18
Consensus pattern (21 bp):
AAAAAGAAATCAAACATTAAA
Found at i:48369840 original size:22 final size:22
Alignment explanation
Indices: 48369812--48369854 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
48369802 AGTTCTTTAC
* * *
48369812 CTTTGTTTCTTTTCCTCTGGTT
1 CTTTGTTCCTCTTCCGCTGGTT
48369834 CTTTGTTCCTCTTCCGCTGGT
1 CTTTGTTCCTCTTCCGCTGGT
48369855 GAGTTTCTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.00, C:0.28, G:0.16, T:0.56
Consensus pattern (22 bp):
CTTTGTTCCTCTTCCGCTGGTT
Found at i:48371532 original size:21 final size:19
Alignment explanation
Indices: 48371486--48371541 Score: 94
Period size: 19 Copynumber: 2.8 Consensus size: 19
48371476 AATCTTCGAA
48371486 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
48371505 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
48371524 GATATATGCAATCTTAGA
1 G--ATATGCAATCTTAGA
48371542 AGATATGATT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 20 0.57
21 15 0.43
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:48371563 original size:23 final size:24
Alignment explanation
Indices: 48371487--48371564 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 24
48371477 ATCTTCGAAG
48371487 ATATGCAATCTT---AGATATG--
1 ATATGCAATCTTAGAAGATATGAT
48371506 ATATGCAATCTTAG---ATATGAT
1 ATATGCAATCTTAGAAGATATGAT
48371527 ATATGCAATCTTAGAAGATATGAT
1 ATATGCAATCTTAGAAGATATGAT
* *
48371551 -TTTGTAATCTTAGA
1 ATATGCAATCTTAGA
48371565 GATTTAATTT
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
19 17 0.34
21 14 0.28
23 12 0.24
24 7 0.14
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.38
Consensus pattern (24 bp):
ATATGCAATCTTAGAAGATATGAT
Found at i:48372214 original size:23 final size:21
Alignment explanation
Indices: 48372169--48372233 Score: 71
Period size: 23 Copynumber: 3.0 Consensus size: 21
48372159 AATTATTTCT
48372169 TTTATTT-TTTAATTAGTTTTTA
1 TTTATTTATTT-ATT-GTTTTTA
*
48372191 TTTATATATATTTGTTGTTTTTA
1 TTTAT-T-TATTTATTGTTTTTA
48372214 TTTATTTATTTATT-TTTTTA
1 TTTATTTATTTATTGTTTTTA
48372234 AAACAAATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
20 6 0.16
21 7 0.18
22 6 0.16
23 13 0.34
24 3 0.08
25 3 0.08
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.74
Consensus pattern (21 bp):
TTTATTTATTTATTGTTTTTA
Found at i:48374681 original size:13 final size:13
Alignment explanation
Indices: 48374663--48374691 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
48374653 CTGGAAAGGA
48374663 GAAAATGAATGGT
1 GAAAATGAATGGT
48374676 GAAAATGAATGGT
1 GAAAATGAATGGT
48374689 GAA
1 GAA
48374692 TTGCCAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.31, T:0.21
Consensus pattern (13 bp):
GAAAATGAATGGT
Found at i:48377047 original size:44 final size:43
Alignment explanation
Indices: 48376999--48377178 Score: 98
Period size: 44 Copynumber: 4.1 Consensus size: 43
48376989 GAGCAACAAC
48376999 GGAGTAGGTTGAGGATCGTAGATCTTATCTCCCTAAGCAATAGT
1 GGAGTAGGTTGAGGA-CGTAGATCTTATCTCCCTAAGCAATAGT
* * * * *
48377043 GGAGTAGATCGAGGACGGCAAATCTTATCTTTCC-AAG--ATAGT
1 GGAGTAGGTTGAGGAC-GTAGATCTTATC-TCCCTAAGCAATAGT
* * * ** * * * * *
48377085 GGGAAGTAGATTTAAGCCACCAAG-CCTTGTCTCCCTGAGCAGTAGC
1 -GG-AGTAG-GTTGAG-GACGTAGATCTTATCTCCCTAAGCAATAGT
* * *
48377131 GGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGT
1 GGAGTAGGTTGAGGA-CGTAGATCTTATCTCCCTAAGCAATAGT
48377175 GGAG
1 GGAG
48377179 AAGATTGAAG
Statistics
Matches: 96, Mismatches: 29, Indels: 22
0.65 0.20 0.15
Matches are distributed among these distances:
42 6 0.06
43 11 0.11
44 65 0.68
45 9 0.09
46 5 0.05
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.27
Consensus pattern (43 bp):
GGAGTAGGTTGAGGACGTAGATCTTATCTCCCTAAGCAATAGT
Found at i:48377187 original size:44 final size:43
Alignment explanation
Indices: 48377018--48377453 Score: 162
Period size: 44 Copynumber: 10.0 Consensus size: 43
48377008 TGAGGATCGT
* * * *
48377018 AGATCTTATCTCCCTAAGCAATAGTGGAGTAGATCGAGGACGGC
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGAAGATTGAAGAC-GC
* * * *
48377062 AAATCTTATCTTTCC-AAG-A-TAGTGGGAAGTAGATTTAAGCCAC-C
1 AGATCTTATC-TCCCTAAGCAGTAGT-GG-AGAAGATTGAAG--ACGC
* * * * * * * *
48377106 A-AGCCTTGTCTCCCTGAGCAGTAGCGGAGTAGGTTGAAGATTGT
1 AGA-TCTTATCTCCCTAAGCAGTAGTGGAGAAGATTGAAGA-CGC
48377150 AGATCTTATCTCCCTAAGCAGTAGTGGAGAAGATTGAAGACGAC
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGAAGATTGAAGACG-C
* * * *
48377194 AAATCTTATCTTTCC-AAG-A-TAGTGAGAAGCAGATTTAAGCCAC-C
1 AGATCTTATC-TCCCTAAGCAGTAGTG-G-AGAAGATTGAAG--ACGC
** * * * * * * * * *
48377238 AGGCCTTGTCTCTCTGAGCAGCAGCGGAGTAGGTTGAAGATTGT
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGAAGATTGAAGA-CGC
*
48377282 AGATCTTATCTCCCTAAGCAGTAGTGAAGAAGATTGAAGACGAC
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGAAGATTGAAGACG-C
* * * * *
48377326 AAATCTTATCTTTCC-AAG-A-TAGTGGGAAACAGATTTAACAC-C
1 AGATCTTATC-TCCCTAAGCAGTAGT-GGAGA-AGATTGAAGACGC
* * * * * * * * *
48377368 A-AGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGT
1 AGA-TCTTATCTCCCTAAGCAGTAGTGGAGAAGATTGAAGA-CGC
*
48377412 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACG
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGAAGATTGAAGACG
48377454 GAAAATCATA
Statistics
Matches: 279, Mismatches: 79, Indels: 69
0.65 0.19 0.16
Matches are distributed among these distances:
41 4 0.01
42 31 0.11
43 22 0.08
44 196 0.70
45 16 0.06
46 10 0.04
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.26
Consensus pattern (43 bp):
AGATCTTATCTCCCTAAGCAGTAGTGGAGAAGATTGAAGACGC
Found at i:48377202 original size:132 final size:132
Alignment explanation
Indices: 48376974--48377516 Score: 867
Period size: 132 Copynumber: 4.1 Consensus size: 132
48376964 GTGAAACACT
* * * * * *
48376974 AAGCCTTGTCTCCTTGAGCAACAACGGAGTAGGTTGAGGATCGTAGATCTTATCTCCCTAAGCAA
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* * * * *
48377039 TAGTGGAGTAGATCGAGGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGTAGATTTAAGCCA
66 TAGTGGAGAAGATTGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
48377104 CC
131 CC
*
48377106 AAGCCTTGTCTCCCTGAGCAGTAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
*
48377171 TAGTGGAGAAGATTGAAGACGACAAATCTTATCTTTCCAAGATAGTGAGAAGCAGATTTAAGCCA
66 TAGTGGAGAAGATTGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
48377236 CC
131 CC
* *
48377238 AGGCCTTGTCTCTCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* *
48377303 TAGTGAAGAAGATTGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAACAGATTTAA--CA
66 TAGTGGAGAAGATTGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
48377366 CC
131 CC
48377368 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* * * *
48377433 TAGTGGAGCAGATTGAAGACGGA-AAATCATATCTTTCGAAGATAGTGGGAAGCAGATTTAAGCT
66 TAGTGGAGAAGATTGAAGAC-GACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCC
48377497 ACC
130 ACC
48377500 AAGCCTTGTCTCCCTGA
1 AAGCCTTGTCTCCCTGA
48377517 AGTTGTAGTG
Statistics
Matches: 381, Mismatches: 27, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
130 120 0.31
131 2 0.01
132 259 0.68
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (132 bp):
AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
TAGTGGAGAAGATTGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
CC
Found at i:48377448 original size:262 final size:262
Alignment explanation
Indices: 48376974--48377512 Score: 857
Period size: 262 Copynumber: 2.0 Consensus size: 262
48376964 GTGAAACACT
*
48376974 AAGCCTTGTCTCCTTGAGCAACAACGGAGTAGGTTGAGGATCGTAGATCTTATCTCCCTAAGCAA
1 AAGCCTTGTCTCC-TGAGCAACAACGGAGTAGGTTGAAGATCGTAGATCTTATCTCCCTAAGCAA
* * * * **
48377039 TAGTGGAGTAGATCGAGGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGTAGATTTAAGCCA
65 TAGTGAAGAAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAACAGATTTAA-CCA
*
48377104 CCAAGCCTTGTCTCCCTGAGCAGTAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGC
129 CCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGC
*
48377169 AGTAGTGGAGAAGATTGAAGAC-GACAAATCTTATCTTTCCAAGATAGTGAGAAGCAGATTTAAG
194 AGTAGTGGAGAAGATTGAAGACGGA-AAATCATATCTTTCCAAGATAGTGAGAAGCAGATTTAAG
48377233 CCACC
258 CCACC
* * * * *
48377238 AGGCCTTGTCTCTCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
1 AAGCCTTGTCTC-CTGAGCAACAACGGAGTAGGTTGAAGATCGTAGATCTTATCTCCCTAAGCAA
*
48377303 TAGTGAAGAAGATTGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAACAGATTTAA-CAC
65 TAGTGAAGAAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAACAGATTTAACCAC
48377367 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
130 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
* * * *
48377432 GTAGTGGAGCAGATTGAAGACGGAAAATCATATCTTTCGAAGATAGTGGGAAGCAGATTTAAGCT
195 GTAGTGGAGAAGATTGAAGACGGAAAATCATATCTTTCCAAGATAGTGAGAAGCAGATTTAAGCC
48377497 ACC
260 ACC
48377500 AAGCCTTGTCTCC
1 AAGCCTTGTCTCC
48377513 CTGAAGTTGT
Statistics
Matches: 253, Mismatches: 20, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
261 1 0.00
262 138 0.55
263 2 0.01
264 111 0.44
265 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (262 bp):
AAGCCTTGTCTCCTGAGCAACAACGGAGTAGGTTGAAGATCGTAGATCTTATCTCCCTAAGCAAT
AGTGAAGAAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAACAGATTTAACCACC
AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
TAGTGGAGAAGATTGAAGACGGAAAATCATATCTTTCCAAGATAGTGAGAAGCAGATTTAAGCCA
CC
Found at i:48377695 original size:45 final size:44
Alignment explanation
Indices: 48377587--48378305 Score: 264
Period size: 44 Copynumber: 16.6 Consensus size: 44
48377577 TCGCATCTAG
*
48377587 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAA
* *
48377631 TCTTATC-CTCCTGAAGTTGCAGT-GAGACAGACTGCA-TATGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGGAG-CAGACT-AAGTA-AGCAAA
* *
48377676 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGA-TTA--AAGCCGATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAG-C-A-AA
* * * *
48377720 TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAA--AATCACAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA-A-A
* * * ** * *
48377764 TCTTATCTCTCTGAAGTTACAG-AGAGCAGATCGCATTTAG----
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CTAAGTAAGCAAA
* * *
48377804 TCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAGCAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAA
* * *
48377848 TCTTATC-CTCCTGAAATTGCAGT-GAGGCGGACTGAAG-ATGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGTA-AGCAAA
* * * * *
48377893 TCTTATCTCTCTAAAGTTGTAGTGGAGCAG-GTTA--AAGCCGATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAG-C-A-AA
* * ** * * **
48377937 TCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAA--AACCTTGGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGC--AAA
* * * * * * *
48377981 TCTTATCTCTCTGAAGTTGCAG-AGAGCATA-T-CG-CATCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAA
*
48378021 TCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAG-ATGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGTA-AGCAAA
* * * *
48378066 TCTTATCTCCCTGAAGTTGTAGTGAAGCAG-GTTA--AAGCTGATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGC--A-AA
* * ** * * *
48378110 TCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAA--AACCTTAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGC--AAA
* * * * *
48378154 TCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T---TACATCTAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTA-AGCAAA
* * *
48378194 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAATCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAA
* *
48378238 TCTTATC-CTCCT-AATGTTGCAGT-GAGGCAGACTGAAG-ATGCGAA
1 TCTTATCTC-CCTGAA-GTTGCAGTGGA-GCAGACT-AAGTAAGCAAA
48378282 TCTTATCTCCCTGAAG-TGCAGTGG
1 TCTTATCTCCCTGAAGTTGCAGTGG
48378306 GGCATACNNN
Statistics
Matches: 505, Mismatches: 112, Indels: 116
0.69 0.15 0.16
Matches are distributed among these distances:
39 1 0.00
40 64 0.13
41 23 0.05
42 13 0.03
43 41 0.08
44 247 0.49
45 106 0.21
46 10 0.02
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAA
Found at i:48377769 original size:217 final size:216
Alignment explanation
Indices: 48377508--48378090 Score: 839
Period size: 217 Copynumber: 2.7 Consensus size: 216
48377498 CCAAGCCTTG
* *
48377508 TCTCCCTGAAGTTGTAGTGAAGAGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTACAGAGAG
1 TCTCCCTGAAGTTGCAGTGGAGAGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTACAGAGAG
48377573 CAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATC
66 CAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAAGTCTTATC
* * * *
48377638 CTCCTGAAGTTGCAGTGAGACAGACTGCATATGGCAAATCTTATCTCCCTGAGGTTGCAGTGGAG
130 CTCCTGAAGTTGCAGTGAGACAGACTGAAGATGGCAAATCTTATCTCCCTAAAGTTGCAGTGGAG
48377703 CAGATTAAAGCCGATAATCCTA
195 CAGATTAAAGCCGATAATCCTA
* * ***
48377725 TCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTACAGAGAG
1 TCTCCCTGAAGTTGCAGTGGAGAGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTACAGAGAG
* *
48377790 CAGATCGCATTTAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAGCAAGCAAGTCTTATC
66 CAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAAGTCTTATC
* * * * *
48377855 CTCCTGAAATTGCAGTGAGGCGGACTGAAGATGGCAAATCTTATCTCTCTAAAGTTGTAGTGGAG
130 CTCCTGAAGTTGCAGTGAGACAGACTGAAGATGGCAAATCTTATCTCCCTAAAGTTGCAGTGGAG
*
48377920 CAGGTTAAAGCCGATAATCCTA
195 CAGATTAAAGCCGATAATCCTA
* * *
48377942 TCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGAG
1 TCTCCCTGAAGTTGCAGTGGAGAGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTACAGAGAG
* * * *
48378007 CATATCGCATCAAGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCAAATCTT
66 CAGATCGCATCTAGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGA-AGCAAGTCTT
*
48378070 AT-CTCCCTGAAGTTGTAGTGA
127 ATCCT-CCTGAAGTTGCAGTGA
48378091 AGCAGGTTAA
Statistics
Matches: 326, Mismatches: 35, Indels: 9
0.88 0.09 0.02
Matches are distributed among these distances:
216 3 0.01
217 296 0.91
218 27 0.08
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.28
Consensus pattern (216 bp):
TCTCCCTGAAGTTGCAGTGGAGAGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTACAGAGAG
CAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAGTCTTATCC
TCCTGAAGTTGCAGTGAGACAGACTGAAGATGGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGC
AGATTAAAGCCGATAATCCTA
Found at i:48377878 original size:128 final size:129
Alignment explanation
Indices: 48377676--48377910 Score: 282
Period size: 128 Copynumber: 1.8 Consensus size: 129
48377666 ATATGGCAAA
* * * * *
48377676 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAAGCAGATAATCCTATCTCCCTGAAATTGCA
* * *
48377741 GTGGAGCGGA-TTAAAATCACAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATTTAG
66 GTGGAGCGGACTGAAAATCACAAATCTTATCTCTCTAAAGTTACAGAGAGCAGATCGCATTTAG
* *
48377804 TCTTATCTCCCTGAAGTTGCAATGGAGCAGACT-AAGCAAGCA-AGTCTTATC-CTCCTGAAATT
1 TCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAAGC-AG-ATAATCCTATCTC-CCTGAAATT
* **
48377866 GCAGT-GAGGCGGACTGAAGATGGCAAATCTTATCTCTCTAAAGTT
63 GCAGTGGA-GCGGACTGAAAATCACAAATCTTATCTCTCTAAAGTT
48377911 GTAGTGGAGC
Statistics
Matches: 89, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
127 7 0.08
128 56 0.63
129 26 0.29
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (129 bp):
TCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAAGCAGATAATCCTATCTCCCTGAAATTGCA
GTGGAGCGGACTGAAAATCACAAATCTTATCTCTCTAAAGTTACAGAGAGCAGATCGCATTTAG
Found at i:48377919 original size:173 final size:173
Alignment explanation
Indices: 48377718--48378226 Score: 518
Period size: 173 Copynumber: 2.9 Consensus size: 173
48377708 TAAAGCCGAT
* * * *
48377718 AATCCTATCTCCCTGAAGTTGCAGTGGAGC-GGATTAAAATC-ACAGATCTTATC-TCTCTGAAG
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGG-TTAAAACCGACA-ATCCTATCTTC-CTGAAG
*** *
48377780 TTACAG-AGAGCAGA-TCGCA-TTTAG-TCTTATCTCCCTGAAGTTGCA-ATGGAGCAGACTAAG
63 TTACAGTAGAGCAGATTAAAACCTTAGATCTTATCTCCCTGAAGTTGCAGA--GAGCAGA-T-AG
*
48377840 CAAGCAAGTCTTATCCTCCTGAAATTGCAGTGAGGCGGACTGAAGATGGCA
124 C-AGCAAGTCTTATCCTCCTGAAATTGCAGTGAGGCAGACTGAAGATGGCA
* * * * *
48377891 AATCTTATCTCTCTAAAGTTGTAGTGGAGCAGGTTAAAGCCGATAATCCTATCTTCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTAAAACCGACAATCCTATCTTCCTGAAGTTA
* ** * * * * *
48377956 CAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGAGCATATCGCATCAAG
66 CAGTAGAGCAGATTAAAACCTTAGATCTTATCTCCCTGAAGTTGCAGAGAGCAGATAGCAGCAAG
*
48378021 TCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCA
131 TCTTATCCTCCTGAAATTGCAGTGAGGCAGACTGAAGATGGCA
* * * * *
48378064 AATCTTATCTCCCTGAAGTTGTAGTGAAGCAGGTTAAAGCTGATAATCCTATCTTCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTAAAACCGACAATCCTATCTTCCTGAAGTTA
* ** * * *
48378129 CAGTGGAGTGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATTA-CATCTA
66 CAGTAGAGCAGATTAAAACCTTAGATCTTATCTCCCTGAAGTTGCAGAGAGCAGA-TAGCAGCAA
* *
48378193 GTCTTAT-CTCCCTGAAGTTGTAGTG-GAGCAGACT
130 GTCTTATCCT-CCTGAAATTGCAGTGAG-GCAGACT
48378227 AAGTAATCAA
Statistics
Matches: 293, Mismatches: 32, Indels: 22
0.84 0.09 0.06
Matches are distributed among these distances:
172 3 0.01
173 243 0.83
174 14 0.05
175 3 0.01
176 9 0.03
177 20 0.07
178 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (173 bp):
AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTAAAACCGACAATCCTATCTTCCTGAAGTTA
CAGTAGAGCAGATTAAAACCTTAGATCTTATCTCCCTGAAGTTGCAGAGAGCAGATAGCAGCAAG
TCTTATCCTCCTGAAATTGCAGTGAGGCAGACTGAAGATGGCA
Found at i:48378136 original size:217 final size:217
Alignment explanation
Indices: 48377512--48378304 Score: 786
Period size: 217 Copynumber: 3.7 Consensus size: 217
48377502 GCCTTGTCTC
* * * *
48377512 CCTGAAGTTGTAGTGAAGAGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTACAGAGAGCAGA
1 CCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTACAGAGAGCAGA
* *
48377577 TCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-TAAGCAAGTCTTATCCTC
66 TCGCATCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAT-AGCAAATCTTATCCTC
* * * * *
48377641 CTGAAGTTGCAGTG-AGACAGACTGCATATGGCAAATCTTATCTCCCTGAGGTTGCAGTGGAGCA
130 CTGAAGTTGCAGTGAAG-CAGGCTGAAGATGGCAAATCTTATCTTCCTGAAGTTGCAGTGGAGCA
* *
48377705 GATTAAAGCCGATAATCCTATCTC
194 GGTTAAAGCCGATAATCCTATCTT
* **
48377729 CCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTACAGAGAGCAGA
1 CCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTACAGAGAGCAGA
** * *
48377794 TCGCATTTAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAGCA-AGCAAGTCTTATCCTC
66 TCGCATCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-ATAGCAAATCTTATCCTC
* * * *
48377858 CTGAAATTGCAGTGAGGC-GGACTGAAGATGGCAAATCTTATC-TCTCTAAAGTTGTAGTGGAGC
130 CTGAAGTTGCAGTGAAGCAGG-CTGAAGATGGCAAATCTTATCTTC-CTGAAGTTGCAGTGGAGC
48377921 AGGTTAAAGCCGATAATCCTATCTT
193 AGGTTAAAGCCGATAATCCTATCTT
* * * *
48377946 CCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGAGCATA
1 CCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTACAGAGAGCAGA
*
48378011 TCGCATCAAGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCAAATCTTAT-C
66 TCGCATCAAGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGATAGCAAATCTTATCC
* * * * *
48378073 TCCCTGAAGTTGTAGTGAAGCAGGTTAAAGCT-G-ATAATCCTATCTTCCTGAAGTTGCAGTGGA
128 T-CCTGAAGTTGCAGTGAAGCAGGCTGAAGATGGCA-AATCTTATCTTCCTGAAGTTGCAGTGGA
* * * *
48378136 G-TGGATTAAAACC-TTAGATCTTATC-T
191 GCAGG-TTAAAGCCGATA-ATCCTATCTT
* * * * * ** *
48378162 CTCTGAAGTTGCAG-AGAGCAGATT-ACATC-TAG-TCTTATCTCCCTGAAGTTGTAGTGGAGCA
1 C-CTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTACAG-AGAGCA
* * *
48378223 GACTAAGTAATCAAGTCTTATC-CTCCT-AATGTTGCAGT-GAGGCAGACTGAAGAT-GCGAATC
64 GA-T-CG-CATCAAGTCTTATCTC-CCTGAA-GTTGCAGTGGA-GCAGACT-AAGATAGCAAATC
48378284 TTAT-CTCCCTGAAG-TGCAGTG
122 TTATCCT-CCTGAAGTTGCAGTG
48378305 GGGCATACNN
Statistics
Matches: 496, Mismatches: 59, Indels: 44
0.83 0.10 0.07
Matches are distributed among these distances:
213 20 0.04
214 8 0.02
215 10 0.02
216 42 0.08
217 377 0.76
218 37 0.07
219 2 0.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.28
Consensus pattern (217 bp):
CCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTACAGAGAGCAGA
TCGCATCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGATAGCAAATCTTATCCTCC
TGAAGTTGCAGTGAAGCAGGCTGAAGATGGCAAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGG
TTAAAGCCGATAATCCTATCTT
Found at i:48378861 original size:21 final size:21
Alignment explanation
Indices: 48378836--48378879 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
48378826 ATCTTCGAGG
48378836 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
48378857 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
48378878 AT
1 AT
48378880 GTAATCTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.39
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:48378885 original size:19 final size:19
Alignment explanation
Indices: 48378835--48378890 Score: 85
Period size: 21 Copynumber: 2.8 Consensus size: 19
48378825 AATCTTCGAG
48378835 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
48378854 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
48378875 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
48378891 AGATATGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
19 15 0.44
21 19 0.56
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:48378916 original size:22 final size:22
Alignment explanation
Indices: 48378869--48378913 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
48378859 ATGCAATCTT
*
48378869 AGATATGATATGTAATCTTAGA
1 AGATATGATATGTAATCTGAGA
*
48378891 AGATATGATTTTGTAATCTGAGA
1 AGATATGA-TATGTAATCTGAGA
48378914 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.38, C:0.04, G:0.20, T:0.38
Consensus pattern (22 bp):
AGATATGATATGTAATCTGAGA
Found at i:48378923 original size:22 final size:23
Alignment explanation
Indices: 48378879--48378923 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
48378869 AGATATGATA
* *
48378879 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTGAGAAGATATAATTT
*
48378902 TGTAATCTGAG-AGATTTAATTT
1 TGTAATCTGAGAAGATATAATTT
48378924 GTAGATACCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.33, C:0.04, G:0.18, T:0.44
Consensus pattern (23 bp):
TGTAATCTGAGAAGATATAATTT
Found at i:48381852 original size:64 final size:64
Alignment explanation
Indices: 48381751--48381881 Score: 253
Period size: 64 Copynumber: 2.0 Consensus size: 64
48381741 CGGTAGACAC
48381751 TTTAGTTCCATTCTTGTTCATCTTAAAACAATATGCAATGTTAATGATGTGGACTGTCCACTAA
1 TTTAGTTCCATTCTTGTTCATCTTAAAACAATATGCAATGTTAATGATGTGGACTGTCCACTAA
*
48381815 TTTAGTTCCATTCTTGTTCATCTTAAAACAGTATGCAATGTTAATGATGTGGACTGTCCACTAA
1 TTTAGTTCCATTCTTGTTCATCTTAAAACAATATGCAATGTTAATGATGTGGACTGTCCACTAA
48381879 TTT
1 TTT
48381882 GGCATATTGC
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
64 66 1.00
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (64 bp):
TTTAGTTCCATTCTTGTTCATCTTAAAACAATATGCAATGTTAATGATGTGGACTGTCCACTAA
Found at i:48382052 original size:44 final size:44
Alignment explanation
Indices: 48382002--48382095 Score: 179
Period size: 44 Copynumber: 2.1 Consensus size: 44
48381992 GTCTCGAGTT
*
48382002 TCATTTTCATATGCTTTTCAAATATAAGTATTGTATTAACCAAA
1 TCATTTTCATATGCTTATCAAATATAAGTATTGTATTAACCAAA
48382046 TCATTTTCATATGCTTATCAAATATAAGTATTGTATTAACCAAA
1 TCATTTTCATATGCTTATCAAATATAAGTATTGTATTAACCAAA
48382090 TCATTT
1 TCATTT
48382096 ATTGAATATA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 49 1.00
ACGTcount: A:0.36, C:0.14, G:0.06, T:0.44
Consensus pattern (44 bp):
TCATTTTCATATGCTTATCAAATATAAGTATTGTATTAACCAAA
Found at i:48382089 original size:22 final size:22
Alignment explanation
Indices: 48382020--48382090 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
48382010 ATATGCTTTT
48382020 CAAATATAAGTATTGTATTAAC
1 CAAATATAAGTATTGTATTAAC
** * *
48382042 CAAATCAT-TTTCATATG-CTT-AT
1 CAAAT-ATAAGT-AT-TGTATTAAC
48382064 CAAATATAAGTATTGTATTAAC
1 CAAATATAAGTATTGTATTAAC
48382086 CAAAT
1 CAAAT
48382091 CATTTATTGA
Statistics
Matches: 35, Mismatches: 8, Indels: 12
0.64 0.15 0.22
Matches are distributed among these distances:
20 2 0.06
21 6 0.17
22 19 0.54
23 6 0.17
24 2 0.06
ACGTcount: A:0.42, C:0.13, G:0.07, T:0.38
Consensus pattern (22 bp):
CAAATATAAGTATTGTATTAAC
Found at i:48382099 original size:21 final size:22
Alignment explanation
Indices: 48382074--48382117 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
48382064 CAAATATAAG
*
48382074 TATTGTAT-TAACCAAATCATT
1 TATTGAATATAACCAAATCATT
48382095 TATTGAATATAACCAAATCATT
1 TATTGAATATAACCAAATCATT
48382117 T
1 T
48382118 TCATATGCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.41, C:0.14, G:0.05, T:0.41
Consensus pattern (22 bp):
TATTGAATATAACCAAATCATT
Found at i:48382763 original size:13 final size:13
Alignment explanation
Indices: 48382741--48382836 Score: 129
Period size: 13 Copynumber: 7.4 Consensus size: 13
48382731 GAAATTTTTA
*
48382741 AAAAGCACTTCTC
1 AAAAGTACTTCTC
* *
48382754 AAAAATACTTCTG
1 AAAAGTACTTCTC
*
48382767 AAAAGTATTTCTC
1 AAAAGTACTTCTC
* *
48382780 AAAAATACTTCTG
1 AAAAGTACTTCTC
48382793 AAAAGTACTTCTC
1 AAAAGTACTTCTC
48382806 AAAAGTACTTCTC
1 AAAAGTACTTCTC
*
48382819 AAAAGTACTTTTC
1 AAAAGTACTTCTC
48382832 AAAAG
1 AAAAG
48382837 CAACAAAGAA
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 71 1.00
ACGTcount: A:0.43, C:0.19, G:0.08, T:0.30
Consensus pattern (13 bp):
AAAAGTACTTCTC
Found at i:48382836 original size:26 final size:26
Alignment explanation
Indices: 48382741--48382835 Score: 145
Period size: 26 Copynumber: 3.7 Consensus size: 26
48382731 GAAATTTTTA
*
48382741 AAAAGCACTTCTCAAAAATACTTCTG
1 AAAAGTACTTCTCAAAAATACTTCTG
*
48382767 AAAAGTATTTCTCAAAAATACTTCTG
1 AAAAGTACTTCTCAAAAATACTTCTG
* *
48382793 AAAAGTACTTCTCAAAAGTACTTCTC
1 AAAAGTACTTCTCAAAAATACTTCTG
*
48382819 AAAAGTACTTTTCAAAA
1 AAAAGTACTTCTCAAAA
48382836 GCAACAAAGA
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 63 1.00
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (26 bp):
AAAAGTACTTCTCAAAAATACTTCTG
Found at i:48389479 original size:21 final size:21
Alignment explanation
Indices: 48389453--48389501 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
48389443 ATGTACACGA
48389453 CCGTGTGA-CTGAGGCACATGC
1 CCGTGTGAGCT-AGGCACATGC
* *
48389474 CCGTGTGAGCTAGGGACATGG
1 CCGTGTGAGCTAGGCACATGC
48389495 CCGTGTG
1 CCGTGTG
48389502 CATAGGCCGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 23 0.92
22 2 0.08
ACGTcount: A:0.16, C:0.24, G:0.39, T:0.20
Consensus pattern (21 bp):
CCGTGTGAGCTAGGCACATGC
Found at i:48390917 original size:81 final size:81
Alignment explanation
Indices: 48390782--48390945 Score: 328
Period size: 81 Copynumber: 2.0 Consensus size: 81
48390772 CAAGTTATTA
48390782 TTTCTCTCACTCTAATGTCGAGTAAACTATCAAATGAAAATTGTAATCACAAATCATGTCATAAT
1 TTTCTCTCACTCTAATGTCGAGTAAACTATCAAATGAAAATTGTAATCACAAATCATGTCATAAT
48390847 TGAATCTCCAATACAT
66 TGAATCTCCAATACAT
48390863 TTTCTCTCACTCTAATGTCGAGTAAACTATCAAATGAAAATTGTAATCACAAATCATGTCATAAT
1 TTTCTCTCACTCTAATGTCGAGTAAACTATCAAATGAAAATTGTAATCACAAATCATGTCATAAT
48390928 TGAATCTCCAATACAT
66 TGAATCTCCAATACAT
48390944 TT
1 TT
48390946 AAAACATATA
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 83 1.00
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.34
Consensus pattern (81 bp):
TTTCTCTCACTCTAATGTCGAGTAAACTATCAAATGAAAATTGTAATCACAAATCATGTCATAAT
TGAATCTCCAATACAT
Found at i:48393838 original size:547 final size:546
Alignment explanation
Indices: 48392706--48394209 Score: 2341
Period size: 545 Copynumber: 2.7 Consensus size: 546
48392696 TTGCCTTTAT
* * *
48392706 AGGTTTCTTTGTGCACAAACACAAAAAGCTAAAGAACTTGGAGGCAATGATGGAGATAGGGCACT
1 AGGTTTCTTTGTGCACAAACACAAAAAGCTAAAGAACTTGGAAGCAATGATGGGGATAGGGCGCT
48392771 GGTTCAAGCCTTGATTTTGGTTTTGAAGGGATTTTTTTTTAAAGAACTTTGTTTGGGTTATGGGA
66 GGTTCAAGCCTTGATTTTGGTTTTGAAGGGA-TTTTTTTTAAAGAACTTTGTTTGGGTTATGGGA
* *
48392836 AATAGTTTAAGCAGAATAATATTTAAAAGAGAATAGTGCTAATAACGTGTTATAAAATAAAAGAA
130 AATAGTTTAAGTAGAATAATATTTAAAAGAGAATAGTGCTGATAACGTGTTATAAAATAAAAGAA
* * **
48392901 TAGAGAGAAAAGAACAAAGAAAATAGGAGAATAAAAGAGAGAGCATATTTTATTGATCAATAAAA
195 CAGAGAGAAAAGAACAAAGAAAATAGGAGAATAAAA-AGAGAGCGTATTTTATTGATCAATGGAA
*
48392966 GTAAGTTACAATGCTTCTCCAAAATCTATATTTATAGACATAAAAAGTATAAATGAAACATAACT
259 GTAAGTTACAATGCTTCTCCAAAATCTATATTTATAGACATAAAAAGTATAAATGAAACAGAACT
* * * * * * *
48393031 TTACTTCTAATGACTATTAG-ATTTAAATTTCATCAAAACTTCTCTTGATTTTGATGGTCATCCA
324 CTATTTTTAATGACTATTAGAATTTAAATTTCATCAAAACTTATCCTGATCTTGATGGACATCCA
* *
48393095 CTTAATAAAATATTCATAACACTCCCCCTTGAATGTCCATTGGTAGATAATGTACCTCGTTAAAA
389 CTTAATAAAATATTCATAACACTCCCCCTTGAACGTCCATTGATAGATAATGTACCTCGTTAAAA
* * *
48393160 CCTTACTAAGATAAAAATCCCATGGGAAAAAATTCCTATTGAAGGAAAAAAAGTACATATATCTA
454 CCTTACTAAAATAAAAAACCCATGGGAAAAAATTCCTATTGAAGGAAAAAAAGTACACATATCTA
*
48393225 TAATACGCATAATATGTTACCTCATTAC
519 TAATACGCATAATATGCTACCTCATTAC
48393253 AGGTTTCTTTGTGCACAAACACAAAAAGCTAAAGAACTTGGAAGCAATGATGGGGATAGGGCGCT
1 AGGTTTCTTTGTGCACAAACACAAAAAGCTAAAGAACTTGGAAGCAATGATGGGGATAGGGCGCT
*
48393318 GGTTCAAGCCTTGATTTTGGTTCTGAAGGGA-TTTTTTTAAAGAACTTTGTTTGGGTTATGGGAA
66 GGTTCAAGCCTTGATTTTGGTTTTGAAGGGATTTTTTTTAAAGAACTTTGTTTGGGTTATGGGAA
* * *
48393382 ATAGTTTAAGTAGAATACTATTTAAAAGAGAATTGTGCTGATATCGTGTTATAAAATAAAAGAAC
131 ATAGTTTAAGTAGAATAATATTTAAAAGAGAATAGTGCTGATAACGTGTTATAAAATAAAAGAAC
* *
48393447 AGAGAGCAAAGAACAAAGAAAATAGGAAAATAAAATAGAGAGCGTATTTTATTGATCAATGGAAG
196 AGAGAGAAAAGAACAAAGAAAATAGGAGAATAAAA-AGAGAGCGTATTTTATTGATCAATGGAAG
* *
48393512 TAAGTTACAATGCTTCTCCAATATCTATATTTATAGACATAGAAAGTATAAATGAAACAGAACTC
260 TAAGTTACAATGCTTCTCCAAAATCTATATTTATAGACATAAAAAGTATAAATGAAACAGAACTC
*
48393577 TATTTTTAATGACTACTAGAATTTAAATTTCATCAAAACTTATCCTGATCTTGATGGACATCCAC
325 TATTTTTAATGACTATTAGAATTTAAATTTCATCAAAACTTATCCTGATCTTGATGGACATCCAC
* *
48393642 TTAATAAAATATTCATAACACTCCCCCTTGGACGTCCATTGATAGATAATGTACCTTGTTAAAAC
390 TTAATAAAATATTCATAACACTCCCCCTTGAACGTCCATTGATAGATAATGTACCTCGTTAAAAC
* * * *
48393707 CTTATTAAAATAAAAAACCTCGTGGGAAAAAATTCTTATTGAAGGAAAAAGAGTACACATATCTA
455 CTTACTAAAATAAAAAACC-CATGGGAAAAAATTCCTATTGAAGGAAAAAAAGTACACATATCTA
*
48393772 TAATACGCATAATATGCTGCCTCATTAC
519 TAATACGCATAATATGCTACCTCATTAC
* **
48393800 AGGTTTCTTTGTGCACAAACGCAAAAAGCTAAAGAACTTGGAAGCAATGACAGGGATAGGGCGCT
1 AGGTTTCTTTGTGCACAAACACAAAAAGCTAAAGAACTTGGAAGCAATGATGGGGATAGGGCGCT
*
48393865 GGTTCAAGCCTTGATTTTGGTTTTGAAGGGATTTTTTTTAAAGAACTTTGTTTGGGTTATGAGAA
66 GGTTCAAGCCTTGATTTTGGTTTTGAAGGGATTTTTTTTAAAGAACTTTGTTTGGGTTATGGGAA
* * * * *
48393930 ATAGTTTAAGTAGAATAATATTTAAAAGAGACTCGTACTGATAACATGTCATAAAATAAAAGAAC
131 ATAGTTTAAGTAGAATAATATTTAAAAGAGAATAGTGCTGATAACGTGTTATAAAATAAAAGAAC
* * * * *
48393995 ATAGAGTAAAGAACAAATAAAATAGGTGAAT--AAAGAGAGCGTAGTTTATTGATCAATGGAAGT
196 AGAGAGAAAAGAACAAAGAAAATAGGAGAATAAAAAGAGAGCGTATTTTATTGATCAATGGAAGT
* * * *
48394058 AATTTACAATGGTTCTCCAAAATCTATATTTATAGACATAAAAAGTATAAATGAAATAGAATTCT
261 AAGTTACAATGCTTCTCCAAAATCTATATTTATAGACATAAAAAGTATAAATGAAACAGAACTCT
* * * *
48394123 ACTTCTAATCTAATGACTATTAGAATTTAAAGTTCATCAAAACTTATCCTAATCTTAATTGACAT
326 A-TT-T--T-TAATGACTATTAGAATTTAAATTTCATCAAAACTTATCCTGATCTTGATGGACAT
*
48394188 CTACTTAATAAAATATTCATAA
386 CCACTTAATAAAATATTCATAA
48394210 TAAACTAAAA
Statistics
Matches: 879, Mismatches: 70, Indels: 13
0.91 0.07 0.01
Matches are distributed among these distances:
545 317 0.36
546 122 0.14
547 252 0.29
548 116 0.13
549 1 0.00
550 71 0.08
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.31
Consensus pattern (546 bp):
AGGTTTCTTTGTGCACAAACACAAAAAGCTAAAGAACTTGGAAGCAATGATGGGGATAGGGCGCT
GGTTCAAGCCTTGATTTTGGTTTTGAAGGGATTTTTTTTAAAGAACTTTGTTTGGGTTATGGGAA
ATAGTTTAAGTAGAATAATATTTAAAAGAGAATAGTGCTGATAACGTGTTATAAAATAAAAGAAC
AGAGAGAAAAGAACAAAGAAAATAGGAGAATAAAAAGAGAGCGTATTTTATTGATCAATGGAAGT
AAGTTACAATGCTTCTCCAAAATCTATATTTATAGACATAAAAAGTATAAATGAAACAGAACTCT
ATTTTTAATGACTATTAGAATTTAAATTTCATCAAAACTTATCCTGATCTTGATGGACATCCACT
TAATAAAATATTCATAACACTCCCCCTTGAACGTCCATTGATAGATAATGTACCTCGTTAAAACC
TTACTAAAATAAAAAACCCATGGGAAAAAATTCCTATTGAAGGAAAAAAAGTACACATATCTATA
ATACGCATAATATGCTACCTCATTAC
Found at i:48394817 original size:14 final size:14
Alignment explanation
Indices: 48394800--48394827 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
48394790 CTCACATTTC
48394800 TTTTCTTTTCTCCA
1 TTTTCTTTTCTCCA
48394814 TTTTCTTTTCTCCA
1 TTTTCTTTTCTCCA
48394828 GATTTCTGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.29, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTTCTTTTCTCCA
Found at i:48394818 original size:19 final size:18
Alignment explanation
Indices: 48394780--48394824 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
48394770 TACGGTACGC
48394780 TTCTTTTC-TTCTCACAT
1 TTCTTTTCTTTCTCACAT
48394797 TTCTTTTCTTTTCTC-CATT
1 TTCTTTTC-TTTCTCACA-T
48394816 TTCTTTTCT
1 TTCTTTTCT
48394825 CCAGATTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 8 0.32
18 3 0.12
19 14 0.56
ACGTcount: A:0.07, C:0.27, G:0.00, T:0.67
Consensus pattern (18 bp):
TTCTTTTCTTTCTCACAT
Found at i:48394902 original size:6 final size:6
Alignment explanation
Indices: 48394893--48394934 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
48394883 GTAAAATAGA
* *
48394893 TTTTGA TTTTG- TTTTGC TTTTGC TTTTGC TTTTGC TTGTGC T
1 TTTTGC TTTTGC TTTTGC TTTTGC TTTTGC TTTTGC TTTTGC T
48394935 CAAATTTGGA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
5 5 0.15
6 29 0.85
ACGTcount: A:0.02, C:0.12, G:0.19, T:0.67
Consensus pattern (6 bp):
TTTTGC
Found at i:48398013 original size:15 final size:16
Alignment explanation
Indices: 48397987--48398028 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
48397977 NNNNNNNNNN
*
48397987 ATATATTTTAATTATA
1 ATATATTTTAATAATA
48398003 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
48398018 AT-TATCTTTAA
1 ATATAT-TTTAA
48398029 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:48398229 original size:44 final size:45
Alignment explanation
Indices: 48398166--48398263 Score: 126
Period size: 45 Copynumber: 2.2 Consensus size: 45
48398156 CTATTACACC
* *
48398166 TCTATTCCATTCAACCAAACACAAGA-TTACTATTACTCCTCTAT
1 TCTATTACATTCAACCAAACACAAGATTTACTATTACACCTCTAT
*** *
48398210 TCTATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTAT
1 TCTATTACATTCAACCAAACACAAGATTTACTATTACACCTCTAT
*
48398255 TCCATTACA
1 TCTATTACA
48398264 CCTCTAATCC
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 22 0.48
45 24 0.52
ACGTcount: A:0.33, C:0.28, G:0.04, T:0.36
Consensus pattern (45 bp):
TCTATTACATTCAACCAAACACAAGATTTACTATTACACCTCTAT
Found at i:48398262 original size:45 final size:44
Alignment explanation
Indices: 48398154--48398263 Score: 122
Period size: 45 Copynumber: 2.6 Consensus size: 44
48398144 TTTTCCATTA
48398154 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * * ***
48398193 TACTATTACTCCTCTATTCTATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
48398238 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
48398264 CCTCTAATCC
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
39 16 0.29
44 16 0.29
45 24 0.43
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.35
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:48398263 original size:16 final size:16
Alignment explanation
Indices: 48398244--48398295 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
48398234 GATTTGCTAT
* *
48398244 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
48398260 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
48398276 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
48398292 TACA
1 TACA
48398296 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:48401753 original size:47 final size:45
Alignment explanation
Indices: 48401702--48401869 Score: 132
Period size: 47 Copynumber: 3.6 Consensus size: 45
48401692 TATTTAATAT
*
48401702 TAATTATTTTAAATTGTATAAATTCATATAAGAAAAATTATTATCAA
1 TAATTATTTTAAATT-TATAAATTCATATAAGAAAATTTATTAT-AA
* * **
48401749 TAATT-TTATGAAA-TTATATATT-AT-T-ATTAAATTATATGTAATAA
1 TAATTATT-TTAAATTTATAAATTCATATAAGAAAATT-TAT-T-ATAA
* * *
48401793 TAATTATTTTAAATTATACAAATTCATATAAGATAATTTATTAGTTA
1 TAATTATTTTAAATT-TATAAATTCATATAAGAAAATTTATTA-TAA
48401840 TAATTATTTTAAATTTTATTAAA-TCATATA
1 TAATTATTTTAAA-TTTA-TAAATTCATATA
48401870 TTTTAATTAA
Statistics
Matches: 95, Mismatches: 13, Indels: 26
0.71 0.10 0.19
Matches are distributed among these distances:
42 5 0.05
43 4 0.04
44 14 0.15
45 12 0.13
46 10 0.11
47 36 0.38
48 9 0.09
49 5 0.05
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.48
Consensus pattern (45 bp):
TAATTATTTTAAATTTATAAATTCATATAAGAAAATTTATTATAA
Found at i:48401778 original size:91 final size:91
Alignment explanation
Indices: 48401628--48401835 Score: 308
Period size: 91 Copynumber: 2.3 Consensus size: 91
48401618 TTGATTTTAG
* *
48401628 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATCATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATCATTAAATTAT
* * *
48401693 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
* * * *
48401720 TAAATTCATATAAGAAAAATTATTATCAATAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATCATTAAATTATA
48401785 TGTAATAATAATTATTTTAAATTATA
66 TGTAATAATAATTATTTTAAATTATA
* *
48401811 CAAATTCATATAAGATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
48401836 GTTATAATTA
Statistics
Matches: 104, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
91 88 0.85
92 16 0.15
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATCATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:48401796 original size:44 final size:43
Alignment explanation
Indices: 48401649--48401810 Score: 107
Period size: 44 Copynumber: 3.6 Consensus size: 43
48401639 AAGAACATTT
* * * *
48401649 TATTATTAAGAATT-TTATGAAATTATATATCATCATTAAATTA
1 TATTAATAATAATTATT-TGAAATTATATATAATTATTAAATTA
* * * *
48401692 TATTTAATATTAATTATTTTAAATTGTATA-AATTCATATAAGA-AA
1 TA-TTAATAATAATTATTTGAAATTATATATAATT-AT-TAA-ATTA
* *
48401737 AATTATTATCAATAATT-TTATGAAATTATATATTATTATTAAATTA
1 TATTA--AT-AATAATTATT-TGAAATTATATATAATTATTAAATTA
*
48401783 TATGTAATAATAATTATTTTAAATTATA
1 TAT-TAATAATAATTATTTGAAATTATA
48401811 CAAATTCATA
Statistics
Matches: 90, Mismatches: 16, Indels: 25
0.69 0.12 0.19
Matches are distributed among these distances:
43 4 0.04
44 40 0.44
45 12 0.13
46 11 0.12
47 20 0.22
48 3 0.03
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (43 bp):
TATTAATAATAATTATTTGAAATTATATATAATTATTAAATTA
Found at i:48401804 original size:26 final size:28
Alignment explanation
Indices: 48401750--48401810 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
48401740 TATTATCAAT
* *
48401750 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
48401778 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
48401804 AATTATA
1 AATTATA
48401811 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Done.