Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 123 of 349
Found at i:39187979 original size:50 final size:50
Alignment explanation
Indices: 39187904--39188004 Score: 193
Period size: 50 Copynumber: 2.0 Consensus size: 50
39187894 ACGATACCTG
*
39187904 ATGCTCTACTTTTACCTACAGACATATTTAATATTTAGCTAAAAATTTAA
1 ATGCTCTACTTTTACCTACAGACATATTTAACATTTAGCTAAAAATTTAA
39187954 ATGCTCTACTTTTACCTACAGACATATTTAACATTTAGCTAAAAATTTAA
1 ATGCTCTACTTTTACCTACAGACATATTTAACATTTAGCTAAAAATTTAA
39188004 A
1 A
39188005 AAATTCTCGT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.39, C:0.17, G:0.06, T:0.39
Consensus pattern (50 bp):
ATGCTCTACTTTTACCTACAGACATATTTAACATTTAGCTAAAAATTTAA
Found at i:39190340 original size:17 final size:17
Alignment explanation
Indices: 39190305--39190343 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 17
39190295 TTTGTTGGGA
39190305 TTATGTTAGCATATAAGT
1 TTATGTTA-CATATAAGT
39190323 TTATGTTA-ATAGTAAGT
1 TTATGTTACATA-TAAGT
39190340 TTAT
1 TTAT
39190344 ATCCTTTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 3 0.15
17 9 0.45
18 8 0.40
ACGTcount: A:0.33, C:0.03, G:0.15, T:0.49
Consensus pattern (17 bp):
TTATGTTACATATAAGT
Found at i:39192550 original size:26 final size:26
Alignment explanation
Indices: 39192517--39192571 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
39192507 ATGATTTCAA
*
39192517 GGTAAGTTTGTGATGGAATGAATTAT
1 GGTAAGTTTGTGATGGAAGGAATTAT
39192543 GGTAAGTTTGTGATGGAAGGAATTAT
1 GGTAAGTTTGTGATGGAAGGAATTAT
39192569 GGT
1 GGT
39192572 CATGAGATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.29, C:0.00, G:0.35, T:0.36
Consensus pattern (26 bp):
GGTAAGTTTGTGATGGAAGGAATTAT
Found at i:39198602 original size:51 final size:49
Alignment explanation
Indices: 39198542--39198682 Score: 185
Period size: 49 Copynumber: 2.8 Consensus size: 49
39198532 GAAGCTATCT
*
39198542 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTT-TTC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTATTC
* * *
39198592 GGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATTATTC
1 -GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATTC
* * *
39198642 GGTACACGTAGTAGCCTGCACTTAGTACTATACACGTGACC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACC
39198683 TCACAATAGT
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
49 39 0.49
50 4 0.05
51 36 0.46
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (49 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATTC
Found at i:39198664 original size:49 final size:51
Alignment explanation
Indices: 39198542--39198677 Score: 170
Period size: 51 Copynumber: 2.7 Consensus size: 51
39198532 GAAGCTATCT
* * *
39198542 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCG
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGATCACAATTTTCG
* * *
39198593 GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGA-C-CAATTATTC-
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGATCACAATT-TTCG
* *
39198642 GGTACACGTAGTAGCCTGCACTTAGTACTATACACG
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACG
39198678 TGACCTCACA
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
49 35 0.47
50 4 0.05
51 36 0.48
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (51 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGATCACAATTTTCG
Found at i:39211828 original size:11 final size:11
Alignment explanation
Indices: 39211814--39211852 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
39211804 ACTTTCTCTT
*
39211814 TATTTTGCTAC
1 TATTTTACTAC
*
39211825 TATTTTACTAT
1 TATTTTACTAC
*
39211836 TATGTTACTAC
1 TATTTTACTAC
39211847 TATTTT
1 TATTTT
39211853 GTTGTTATTG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.23, C:0.13, G:0.05, T:0.59
Consensus pattern (11 bp):
TATTTTACTAC
Found at i:39213232 original size:20 final size:21
Alignment explanation
Indices: 39213204--39213244 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
39213194 CTATTGATGA
* *
39213204 AACTTATAATTTTAG-ATGTT
1 AACTGATAAATTTAGAATGTT
39213224 AACTGATAAATTTAGAATGTT
1 AACTGATAAATTTAGAATGTT
39213245 GATTGATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.39, C:0.05, G:0.12, T:0.44
Consensus pattern (21 bp):
AACTGATAAATTTAGAATGTT
Found at i:39213974 original size:27 final size:25
Alignment explanation
Indices: 39213944--39214036 Score: 71
Period size: 25 Copynumber: 3.6 Consensus size: 25
39213934 CGTTCCTACC
39213944 CACAGCTTGTGTGAGCAGGCCT-ATTTT
1 CACAGCTTGTGTGAGCA-GCCTGA--TT
* * **
39213971 CACAACTCGTGTGAGCATTCTGATT
1 CACAGCTTGTGTGAGCAGCCTGATT
***
39213996 CACAGCTTGTGTGAGCATTTTGATT
1 CACAGCTTGTGTGAGCAGCCTGATT
**
39214021 CACAGCTCATGTGAGC
1 CACAGCTTGTGTGAGC
39214037 GTACATGTAC
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
25 38 0.68
26 2 0.04
27 16 0.29
ACGTcount: A:0.22, C:0.23, G:0.24, T:0.32
Consensus pattern (25 bp):
CACAGCTTGTGTGAGCAGCCTGATT
Found at i:39214007 original size:25 final size:25
Alignment explanation
Indices: 39213969--39214036 Score: 100
Period size: 25 Copynumber: 2.7 Consensus size: 25
39213959 CAGGCCTATT
*
39213969 TTCACAACTCGTGTGAGCATTCTGA
1 TTCACAGCTCGTGTGAGCATTCTGA
* *
39213994 TTCACAGCTTGTGTGAGCATTTTGA
1 TTCACAGCTCGTGTGAGCATTCTGA
*
39214019 TTCACAGCTCATGTGAGC
1 TTCACAGCTCGTGTGAGC
39214037 GTACATGTAC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.34
Consensus pattern (25 bp):
TTCACAGCTCGTGTGAGCATTCTGA
Found at i:39230739 original size:20 final size:20
Alignment explanation
Indices: 39230714--39230757 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
39230704 TAAAGGACAT
39230714 GGGCGTGTCCTAATGCACAC
1 GGGCGTGTCCTAATGCACAC
39230734 GGGCGTGTCCTAATGCACAC
1 GGGCGTGTCCTAATGCACAC
39230754 GGGC
1 GGGC
39230758 ATGTGCATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.18, C:0.30, G:0.34, T:0.18
Consensus pattern (20 bp):
GGGCGTGTCCTAATGCACAC
Found at i:39240679 original size:40 final size:40
Alignment explanation
Indices: 39240623--39240849 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
39240613 ATATTTGATG
* * * *
39240623 TATATCCGGGCCTAAAGACCCACAGGTTGTATGCTGGAAT
1 TATATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAAT
39240663 TATATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAAT
1 TATATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAAT
* * * * *
39240703 TATATTCAGGCTTAAAGATCCGCAGG-TTTCGTGCTGGAAT
1 TATATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTGGAAT
*
39240743 TGTATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAAT
1 TATATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAAT
* * *
39240783 TGTATCCGGGCTTAAAGACCCGCAGGCT-TCGTGCTTGAAT
1 TATATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTGGAAT
* * *
39240823 TGTATCCGGACTT-AAGATCCGCAGGCT
1 TATATCCGGGCTTAAAGACCCGCAGGCT
39240850 TCGTGCTGGT
Statistics
Matches: 165, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 16 0.10
40 147 0.89
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
TATATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAAT
Found at i:39240756 original size:80 final size:80
Alignment explanation
Indices: 39240623--39240897 Score: 308
Period size: 80 Copynumber: 3.5 Consensus size: 80
39240613 ATATTTGATG
* * * *
39240623 TATATCCGGGCCTAAAGACCCACAGG-TT-GTATGCTGGAATTATATCCGGGCTTAAAGACCCGC
1 TATATCCAGGCTTAAAGACCCGCAGGCTTCG--TGCTGGAATTGTATCCGGGCTTAAAGACCCGC
39240686 AGGCTATATGCTGGAAT
64 AGGCTATATGCTGGAAT
* * *
39240703 TATATTCAGGCTTAAAGATCCGCAGGTTTCGTGCTGGAATTGTATCCGGGCTTAAAGACCCGCAG
1 TATATCCAGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGACCCGCAG
39240768 GCTATATGCTGGAAT
66 GCTATATGCTGGAAT
* * * * *
39240783 TGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTTGAATTGTATCCGGACTT-AAGATCCGCAG
1 TATATCCAGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGACCCGCAG
* * *
39240847 GCT-TCGTGCTGGTAC
66 GCTAT-ATGCTGGAAT
* * ** *
39240862 TATATCTAGACTT-AAGGTCCGCAGGCTTCGTACTGG
1 TATATCCAGGCTTAAAGACCCGCAGGCTTCGTGCTGG
39240898 TGCTATATCC
Statistics
Matches: 167, Mismatches: 25, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
78 20 0.12
79 29 0.17
80 115 0.69
81 2 0.01
82 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.28
Consensus pattern (80 bp):
TATATCCAGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGACCCGCAG
GCTATATGCTGGAAT
Found at i:39240898 original size:39 final size:39
Alignment explanation
Indices: 39240831--39240906 Score: 125
Period size: 39 Copynumber: 1.9 Consensus size: 39
39240821 ATTGTATCCG
*
39240831 GACTTAAGATCCGCAGGCTTCGTGCTGGTACTATATCTA
1 GACTTAAGATCCGCAGGCTTCGTACTGGTACTATATCTA
* *
39240870 GACTTAAGGTCCGCAGGCTTCGTACTGGTGCTATATC
1 GACTTAAGATCCGCAGGCTTCGTACTGGTACTATATC
39240907 CGGGGTTAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.21, C:0.24, G:0.25, T:0.30
Consensus pattern (39 bp):
GACTTAAGATCCGCAGGCTTCGTACTGGTACTATATCTA
Found at i:39246127 original size:39 final size:39
Alignment explanation
Indices: 39246083--39246386 Score: 527
Period size: 39 Copynumber: 7.8 Consensus size: 39
39246073 TATCAACACA
*
39246083 AAGCCTGCGGGACTTTAACCCGGATACATTTCCAGCACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
* *
39246122 AAGCCTGCGGGACTTTGGCCCGGATACATTTCCAGCACA
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
*
39246161 AAGCCTGCGGGACTTTGGCCCGGATACATTTCCAGCACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
* * *
39246200 AAGCCTGTGGGACTTTAGTCCGAATACATTTCCAGCACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
* *
39246239 AAGCCTGCGGGACTTTGGCCCGGATATATTTCCAGCACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
39246278 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
39246317 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
39246356 AAGCCTGCGGGACTTTAGCCCGGATACATTT
1 AAGCCTGCGGGACTTTAGCCCGGATACATTT
39246387 TCAGTGTCTT
Statistics
Matches: 250, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 250 1.00
ACGTcount: A:0.23, C:0.29, G:0.26, T:0.22
Consensus pattern (39 bp):
AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
Found at i:39246826 original size:18 final size:18
Alignment explanation
Indices: 39246803--39246840 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
39246793 GTCATTCGGC
39246803 CACATTATATACATAAAT
1 CACATTATATACATAAAT
39246821 CACATTATATACATAAAT
1 CACATTATATACATAAAT
39246839 CA
1 CA
39246841 TCCATTTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.50, C:0.18, G:0.00, T:0.32
Consensus pattern (18 bp):
CACATTATATACATAAAT
Found at i:39251794 original size:50 final size:50
Alignment explanation
Indices: 39251714--39251953 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
39251704 AAGCTCTCTG
* * *
39251714 GTACGCATAGTAGCCTTCACTTAGTACTACAAATGTGACCTATCAATCTA
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTA
* * *
39251764 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACTTAACCATCTA
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTA
* * * * ** * **
39251814 ATACACGTAGTACCCTGCACTTAGTACTACACACGTGATCGAAGTTAA-CGG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-CCTA-TCAATCTA
* * *
39251865 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTA
*
39251915 GTACACGTAGTAGCCTGCACTTAGTACTACACATGTGAC
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGAC
39251954 TCACAACGAA
Statistics
Matches: 157, Mismatches: 30, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
49 3 0.02
50 118 0.75
51 35 0.22
52 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (50 bp):
GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTA
Found at i:39251895 original size:101 final size:101
Alignment explanation
Indices: 39251764--39251952 Score: 297
Period size: 101 Copynumber: 1.9 Consensus size: 101
39251754 TATCAATCTA
* * *
39251764 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACTTAACCATCTAATACACGTAGTACCC
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTAATACACGTAGTACCC
39251829 TGCACTTAGTACTACACACGTGATCGAAGTTAACGG
66 TGCACTTAGTACTACACACGTGATCGAAGTTAACGG
* * ** *
39251865 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCC
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTAATACACGTAGTACCC
*
39251930 TGCACTTAGTACTACACATGTGA
66 TGCACTTAGTACTACACACGTGA
39251953 CTCACAACGA
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
101 79 1.00
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (101 bp):
GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTAATACACGTAGTACCC
TGCACTTAGTACTACACACGTGATCGAAGTTAACGG
Found at i:39252330 original size:19 final size:20
Alignment explanation
Indices: 39252302--39252348 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
39252292 AAGAACATGT
39252302 TATATCATCAAAATAATCACA
1 TATAT-ATCAAAATAATCACA
* *
39252323 TA-ATATCAAATTATTCACA
1 TATATATCAAAATAATCACA
39252342 TATATAT
1 TATATAT
39252349 ACTTACAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
TATATATCAAAATAATCACA
Found at i:39252626 original size:30 final size:30
Alignment explanation
Indices: 39252569--39252627 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
39252559 CAAAAATCAT
* *
39252569 ACTTTTACAAATTTGTATTTTGACCCCTAA
1 ACTTTCACAAATTTGTACTTTGACCCCTAA
* * *
39252599 ACTTTCACATATTTTTACTTTGGCCCCTA
1 ACTTTCACAAATTTGTACTTTGACCCCTA
39252628 GGCTCGTAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.25, C:0.24, G:0.07, T:0.44
Consensus pattern (30 bp):
ACTTTCACAAATTTGTACTTTGACCCCTAA
Found at i:39252951 original size:35 final size:35
Alignment explanation
Indices: 39252905--39252973 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
39252895 AATGAGTAGA
39252905 TCTTGTTACGAGGATTTCAAAAACGTAAAAATCAG
1 TCTTGTTACGAGGATTTCAAAAACGTAAAAATCAG
39252940 TCTTGTTACGAGGATTTCAAAAACGTAAAAATCA
1 TCTTGTTACGAGGATTTCAAAAACGTAAAAATCA
39252974 CTAAAAACGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (35 bp):
TCTTGTTACGAGGATTTCAAAAACGTAAAAATCAG
Found at i:39256744 original size:13 final size:13
Alignment explanation
Indices: 39256726--39256758 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
39256716 ACCGTGTGTC
39256726 ACACACGGCCTAG
1 ACACACGGCCTAG
39256739 ACACACGGCCTAG
1 ACACACGGCCTAG
39256752 ACACACG
1 ACACACG
39256759 CCCGTGTGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.33, C:0.39, G:0.21, T:0.06
Consensus pattern (13 bp):
ACACACGGCCTAG
Found at i:39257362 original size:54 final size:54
Alignment explanation
Indices: 39257277--39257379 Score: 197
Period size: 54 Copynumber: 1.9 Consensus size: 54
39257267 ATAGCTGGAT
39257277 AATGTGATAGGATCTCCGACGATCTCCAACTCGAGCTAGCTTAATAATCCTATA
1 AATGTGATAGGATCTCCGACGATCTCCAACTCGAGCTAGCTTAATAATCCTATA
*
39257331 AATGTGATAGGATCTCCGACGATCTCTAACTCGAGCTAGCTTAATAATC
1 AATGTGATAGGATCTCCGACGATCTCCAACTCGAGCTAGCTTAATAATC
39257380 TTATGAAACA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.28
Consensus pattern (54 bp):
AATGTGATAGGATCTCCGACGATCTCCAACTCGAGCTAGCTTAATAATCCTATA
Found at i:39266519 original size:16 final size:16
Alignment explanation
Indices: 39266498--39266528 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
39266488 TTCACTATTA
39266498 TGTCTTTTTTATTTTT
1 TGTCTTTTTTATTTTT
39266514 TGTCTTTTTTATTTT
1 TGTCTTTTTTATTTT
39266529 GCATGCATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.06, G:0.06, T:0.81
Consensus pattern (16 bp):
TGTCTTTTTTATTTTT
Found at i:39274597 original size:14 final size:14
Alignment explanation
Indices: 39274578--39274608 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
39274568 TACTATACTC
*
39274578 AATTTATATACTTT
1 AATTTATATAATTT
39274592 AATTTATATAATTT
1 AATTTATATAATTT
39274606 AAT
1 AAT
39274609 CTTCTTACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (14 bp):
AATTTATATAATTT
Found at i:39275082 original size:6 final size:6
Alignment explanation
Indices: 39275071--39275107 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
39275061 CTCTTGTACC
39275071 TCTTTT TCTTTT TCTTTT TC-TTT T-TTTT TCTTTT TCT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCT
39275108 AGTCCTGCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 8 0.28
6 21 0.72
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TCTTTT
Found at i:39275100 original size:16 final size:17
Alignment explanation
Indices: 39275074--39275107 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
39275064 TTGTACCTCT
39275074 TTTTCTTTTTCTTTTTC
1 TTTTCTTTTTCTTTTTC
39275091 TTTT-TTTTTCTTTTTC
1 TTTTCTTTTTCTTTTTC
39275107 T
1 T
39275108 AGTCCTGCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTCTTTTTCTTTTTC
Found at i:39276176 original size:14 final size:15
Alignment explanation
Indices: 39276151--39276179 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
39276141 AAGAAAGGTC
39276151 AGAAACAGAAAAATA
1 AGAAACAGAAAAATA
39276166 AGAAA-AGAAAAATA
1 AGAAACAGAAAAATA
39276180 GAAGAAAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.76, C:0.03, G:0.14, T:0.07
Consensus pattern (15 bp):
AGAAACAGAAAAATA
Found at i:39276579 original size:18 final size:19
Alignment explanation
Indices: 39276556--39276594 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
39276546 AAATTAATTT
*
39276556 TTAAAAATATTAT-ATTAA
1 TTAAAAATAATATGATTAA
*
39276574 TTAAAATTAATATGATTAA
1 TTAAAAATAATATGATTAA
39276593 TT
1 TT
39276595 TAATTTTACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (19 bp):
TTAAAAATAATATGATTAA
Found at i:39280414 original size:40 final size:40
Alignment explanation
Indices: 39280359--39280580 Score: 340
Period size: 40 Copynumber: 5.6 Consensus size: 40
39280349 TATTCGAATG
*
39280359 ATATCCGGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
39280399 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
39280439 ATATCTGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
39280479 ATATCCGGGCCAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
39280519 ATATCCAGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
* *
39280559 ATATCC-GGCTAAATCCCAAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
39280581 TACTTGGGTT
Statistics
Matches: 168, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 13 0.08
40 153 0.91
41 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:39286763 original size:40 final size:39
Alignment explanation
Indices: 39286711--39286803 Score: 91
Period size: 40 Copynumber: 2.4 Consensus size: 39
39286701 CGTTTGAATG
* * *
39286711 AAAAA-GCCGCTAAATAACGAGCATTAGCGG-CGCTTTTCA
1 AAAAACGCAGCTAAAGAACAAGCATTAGCGGAC-CTTTT-A
* *
39286750 AAAAACGCAGCTAAAGATCAAGTATTAGCGGTACCTTTTA
1 AAAAACGCAGCTAAAGAACAAGCATTAGCGG-ACCTTTTA
*
39286790 AAAAACGCTGCTAA
1 AAAAACGCAGCTAA
39286804 TACTCGATCT
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
39 5 0.11
40 34 0.76
41 5 0.11
42 1 0.02
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.22
Consensus pattern (39 bp):
AAAAACGCAGCTAAAGAACAAGCATTAGCGGACCTTTTA
Found at i:39287476 original size:7 final size:7
Alignment explanation
Indices: 39287392--39287497 Score: 72
Period size: 7 Copynumber: 14.9 Consensus size: 7
39287382 TGGGGTCTAA
39287392 GGTTTAG
1 GGTTTAG
*
39287399 GTGTTAAG
1 G-GTTTAG
*
39287407 GGTTAAG
1 GGTTTAG
39287414 GG-TTAG
1 GGTTTAG
39287420 TGG-TTAG
1 -GGTTTAG
*
39287427 TGGTTTAT
1 -GGTTTAG
* *
39287435 GGTTCAA
1 GGTTTAG
*
39287442 GGTTTAT
1 GGTTTAG
*
39287449 GTTTTAG
1 GGTTTAG
* *
39287456 GATTTAT
1 GGTTTAG
39287463 GGTTTAG
1 GGTTTAG
39287470 GGTTTAG
1 GGTTTAG
*
39287477 GGATTAG
1 GGTTTAG
39287484 GAGTTTAG
1 G-GTTTAG
39287492 GGTTTA
1 GGTTTA
39287498 AATTAATTAG
Statistics
Matches: 80, Mismatches: 15, Indels: 8
0.78 0.15 0.08
Matches are distributed among these distances:
6 3 0.04
7 62 0.77
8 15 0.19
ACGTcount: A:0.20, C:0.01, G:0.36, T:0.43
Consensus pattern (7 bp):
GGTTTAG
Found at i:39287480 original size:22 final size:21
Alignment explanation
Indices: 39287453--39287497 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
39287443 GTTTATGTTT
* *
39287453 TAGGATTTATGGTTTAGGGTT
1 TAGGAATTAGGGTTTAGGGTT
*
39287474 TAGGGATTAGGAGTTTAGGGTT
1 TAGGAATTAGG-GTTTAGGGTT
39287496 TA
1 TA
39287498 AATTAATTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.22, C:0.00, G:0.36, T:0.42
Consensus pattern (21 bp):
TAGGAATTAGGGTTTAGGGTT
Found at i:39287614 original size:14 final size:14
Alignment explanation
Indices: 39287592--39287722 Score: 54
Period size: 14 Copynumber: 9.2 Consensus size: 14
39287582 TTAATTATCA
*
39287592 TTATAGTTTAGGGT
1 TTATGGTTTAGGGT
39287606 TTATGGTTTAGGGT
1 TTATGGTTTAGGGT
* *
39287620 ATAT-ATTTGAGGGT
1 TTATGGTTT-AGGGT
** * *
39287634 TTAAAGTGTATGAGT
1 TTATGGTTTA-GGGT
*
39287649 TACTAT--TTTAAGGT
1 T--TATGGTTTAGGGT
*
39287663 TTATGGATTATGGGT
1 TTATGGTTTA-GGGT
* * *
39287678 TTAGGGATTATGGT
1 TTATGGTTTAGGGT
39287692 TTATGGTTTAAGGGT
1 TTATGGTTT-AGGGT
* *
39287707 TGA-GGTTTAAGGT
1 TTATGGTTTAGGGT
39287720 TTA
1 TTA
39287723 GGGGTTAAGG
Statistics
Matches: 86, Mismatches: 22, Indels: 19
0.68 0.17 0.15
Matches are distributed among these distances:
12 3 0.03
13 9 0.10
14 45 0.52
15 27 0.31
17 2 0.02
ACGTcount: A:0.24, C:0.01, G:0.30, T:0.46
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:39287680 original size:15 final size:15
Alignment explanation
Indices: 39287660--39287707 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
39287650 ACTATTTTAA
39287660 GGTTTATGGATTATG
1 GGTTTATGGATTATG
*
39287675 GGTTTAGGGATTAT-
1 GGTTTATGGATTATG
* *
39287689 GGTTTATGGTTTAAG
1 GGTTTATGGATTATG
39287704 GGTT
1 GGTT
39287708 GAGGTTTAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 11 0.39
15 17 0.61
ACGTcount: A:0.19, C:0.00, G:0.35, T:0.46
Consensus pattern (15 bp):
GGTTTATGGATTATG
Found at i:39287680 original size:22 final size:21
Alignment explanation
Indices: 39287655--39287704 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
39287645 GAGTTACTAT
*
39287655 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGATTATGGATTAT-GG
* *
39287677 TTTAGGGATTATGGTTTATGG
1 TTTAAGGATTATGGATTATGG
39287698 TTTAAGG
1 TTTAAGG
39287705 GTTGAGGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.22, C:0.00, G:0.32, T:0.46
Consensus pattern (21 bp):
TTTAAGGATTATGGATTATGG
Found at i:39287701 original size:21 final size:20
Alignment explanation
Indices: 39287663--39287725 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 20
39287653 ATTTTAAGGT
*
39287663 TTATGGATTATGGGTTTAGGG
1 TTATGGTTTAT-GGTTTAGGG
39287684 ATTATGGTTTATGGTTTAAGGG
1 -TTATGGTTTATGGTTT-AGGG
*
39287706 TTGA-GGTTTAAGGTTTAGGG
1 TT-ATGGTTTATGGTTTAGGG
39287726 GTTAAGGGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
20 4 0.11
21 18 0.49
22 15 0.41
ACGTcount: A:0.21, C:0.00, G:0.37, T:0.43
Consensus pattern (20 bp):
TTATGGTTTATGGTTTAGGG
Found at i:39287730 original size:14 final size:14
Alignment explanation
Indices: 39287656--39287732 Score: 57
Period size: 14 Copynumber: 5.4 Consensus size: 14
39287646 AGTTACTATT
*
39287656 TTAAGGTTTATGGA
1 TTAAGGTTTAGGGA
*
39287670 TTATGGGTTTAGGGA
1 TTA-AGGTTTAGGGA
* * *
39287685 TTATGGTTTATGGT
1 TTAAGGTTTAGGGA
* *
39287699 TTAAGGGTT-GAGGT
1 TTAAGGTTTAG-GGA
*
39287713 TTAAGGTTTAGGGG
1 TTAAGGTTTAGGGA
39287727 TTAAGG
1 TTAAGG
39287733 GTTAAGTGTT
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 37 0.74
15 13 0.26
ACGTcount: A:0.22, C:0.00, G:0.36, T:0.42
Consensus pattern (14 bp):
TTAAGGTTTAGGGA
Found at i:39287737 original size:21 final size:21
Alignment explanation
Indices: 39287675--39287738 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
39287665 ATGGATTATG
* * *
39287675 GGTTTAGGGATTATGGTTTAT
1 GGTTTAGGGGTTAAGGTTTAA
* *
39287696 GGTTTAAGGGTTGAGGTTTAA
1 GGTTTAGGGGTTAAGGTTTAA
*
39287717 GGTTTAGGGGTTAAGGGTTAA
1 GGTTTAGGGGTTAAGGTTTAA
39287738 G
1 G
39287739 TGTTAGGTTT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.22, C:0.00, G:0.39, T:0.39
Consensus pattern (21 bp):
GGTTTAGGGGTTAAGGTTTAA
Found at i:39287758 original size:7 final size:7
Alignment explanation
Indices: 39287655--39287807 Score: 51
Period size: 7 Copynumber: 21.6 Consensus size: 7
39287645 GAGTTACTAT
*
39287655 TTTAAGG
1 TTTAGGG
*
39287662 TTTATGG
1 TTTAGGG
*
39287669 ATTATGGG
1 TTTA-GGG
39287677 TTTAGGG
1 TTTAGGG
* *
39287684 ATTATGG
1 TTTAGGG
*
39287691 TTTATGG
1 TTTAGGG
39287698 TTTAAGGG
1 TTT-AGGG
*
39287706 TTGA-GG
1 TTTAGGG
*
39287712 TTTAAGG
1 TTTAGGG
39287719 TTTAGGGG
1 TTTA-GGG
*
39287727 TTAAGGG
1 TTTAGGG
* *
39287734 TTAAGTG
1 TTTAGGG
*
39287741 -TTAGGTT
1 TTTAGG-G
39287748 TTTAGGG
1 TTTAGGG
**
39287755 TTTAAAG
1 TTTAGGG
* *
39287762 ATTA-TG
1 TTTAGGG
* *
39287768 TTTATGA
1 TTTAGGG
39287775 TTTAGGG
1 TTTAGGG
39287782 TTTAGGG
1 TTTAGGG
**
39287789 GGTAGGG
1 TTTAGGG
*
39287796 GTTAGGTG
1 TTTAGG-G
39287804 TTTA
1 TTTA
39287808 AGGCTTAGAT
Statistics
Matches: 108, Mismatches: 30, Indels: 15
0.71 0.20 0.10
Matches are distributed among these distances:
6 12 0.11
7 72 0.67
8 24 0.22
ACGTcount: A:0.22, C:0.00, G:0.35, T:0.43
Consensus pattern (7 bp):
TTTAGGG
Found at i:39288120 original size:15 final size:15
Alignment explanation
Indices: 39288102--39288135 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
39288092 ACAATTATTA
39288102 ATATAACATCATTTG
1 ATATAACATCATTTG
39288117 ATATAACATCATTTG
1 ATATAACATCATTTG
39288132 ATAT
1 ATAT
39288136 TTATATATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (15 bp):
ATATAACATCATTTG
Found at i:39288538 original size:7 final size:7
Alignment explanation
Indices: 39288525--39288579 Score: 56
Period size: 7 Copynumber: 7.4 Consensus size: 7
39288515 AATATTCAAA
39288525 AAAAATTT
1 AAAAA-TT
*
39288533 AAAATTT
1 AAAAATT
39288540 AAAAATT
1 AAAAATT
39288547 AAAAATT
1 AAAAATT
*
39288554 AAAAAAT
1 AAAAATT
*
39288561 AAAAGATA
1 AAAA-ATT
39288569 AAAAACTT
1 AAAAA-TT
39288577 AAA
1 AAA
39288580 TATTTAATAT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
7 26 0.67
8 13 0.33
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (7 bp):
AAAAATT
Found at i:39288544 original size:19 final size:22
Alignment explanation
Indices: 39288503--39288561 Score: 54
Period size: 22 Copynumber: 2.7 Consensus size: 22
39288493 ATGTTAATTT
*
39288503 AAAAATTATAAAAATATTCAAA
1 AAAAATTATAAAAATATTAAAA
39288525 AAAAATT-T-AAAAT-TTAAAAA
1 AAAAATTATAAAAATATT-AAAA
39288545 TTAAAAATTA-AAAAATA
1 --AAAAATTATAAAAATA
39288562 AAAGATAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 10
0.73 0.02 0.24
Matches are distributed among these distances:
19 2 0.07
20 8 0.27
21 1 0.03
22 14 0.47
23 5 0.17
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (22 bp):
AAAAATTATAAAAATATTAAAA
Found at i:39288545 original size:15 final size:15
Alignment explanation
Indices: 39288524--39288579 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
39288514 AAATATTCAA
*
39288524 AAAAAATTTAAAATT
1 AAAAAATTAAAAATT
*
39288539 TAAAAATTAAAAATT
1 AAAAAATTAAAAATT
39288554 AAAAAA-TAAAAGA-T
1 AAAAAATTAAAA-ATT
39288568 AAAAAACTTAAA
1 AAAAAA-TTAAA
39288580 TATTTAATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
14 12 0.34
15 19 0.54
16 4 0.11
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (15 bp):
AAAAAATTAAAAATT
Found at i:39294324 original size:34 final size:35
Alignment explanation
Indices: 39294259--39294324 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
39294249 TAATTGCGTT
*
39294259 ATTAATTTATTATTTTAAATTTTAAATTTAAATTC
1 ATTAATTTATTATTTTAAATTTTAAAGTTAAATTC
*
39294294 ATTAATTT-TTATATTT-AGTTTTAAAGTTAAA
1 ATTAATTTATTAT-TTTAAATTTTAAAGTTAAA
39294325 ATTTTAATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 17 0.61
35 11 0.39
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (35 bp):
ATTAATTTATTATTTTAAATTTTAAAGTTAAATTC
Found at i:39294327 original size:35 final size:35
Alignment explanation
Indices: 39294259--39294327 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
39294249 TAATTGCGTT
*
39294259 ATTAATTTATTATTTTAAATTTTAAATTTAAATTC
1 ATTAATTTATTATTTTAAATTTTAAATTAAAATTC
*
39294294 ATTAATTT-TTATATTT-AGTTTTAAAGTTAAAATT
1 ATTAATTTATTAT-TTTAAATTTTAAA-TTAAAATT
39294328 TTAATAGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 12 0.40
35 18 0.60
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (35 bp):
ATTAATTTATTATTTTAAATTTTAAATTAAAATTC
Found at i:39296103 original size:20 final size:19
Alignment explanation
Indices: 39296078--39296137 Score: 65
Period size: 16 Copynumber: 3.3 Consensus size: 19
39296068 GTTACAATTC
39296078 AATTTATTTTATAATATAAT
1 AATTTATTTT-TAATATAAT
*
39296098 AATTTA-ATTTAATATAAT
1 AATTTATTTTTAATATAAT
*
39296116 -A-TT-TTATTAATATAAT
1 AATTTATTTTTAATATAAT
39296132 AATTTA
1 AATTTA
39296138 ATATATAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
16 12 0.36
17 2 0.06
18 11 0.33
19 2 0.06
20 6 0.18
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
AATTTATTTTTAATATAAT
Found at i:39298263 original size:16 final size:15
Alignment explanation
Indices: 39298242--39298334 Score: 54
Period size: 16 Copynumber: 6.0 Consensus size: 15
39298232 AAATAACTGC
39298242 TAAT-AAAT-AATAA
1 TAATAAAATAAATAA
39298255 TAATAATAATAAATAA
1 TAATAA-AATAAATAA
39298271 T-ATGGAAAGA-AAATAA
1 TAAT--AAA-ATAAATAA
39298287 TATAGTAATAAT-AATATA
1 TA-A-TAA-AATAAATA-A
39298305 TAA-AAAATAAATAA
1 TAATAAAATAAATAA
*
39298319 TTAATTAAATAAATAA
1 -TAATAAAATAAATAA
39298335 CATAGAAGGG
Statistics
Matches: 64, Mismatches: 1, Indels: 27
0.70 0.01 0.29
Matches are distributed among these distances:
13 4 0.06
14 5 0.08
15 14 0.22
16 24 0.38
17 11 0.17
18 5 0.08
19 1 0.02
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (15 bp):
TAATAAAATAAATAA
Found at i:39304529 original size:21 final size:21
Alignment explanation
Indices: 39304499--39304538 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
39304489 TTTCGCCAAG
* *
39304499 ATGCATAGCATAGGGGCTATT
1 ATGCACAGCATAAGGGCTATT
39304520 ATGCACAGCATAAGGGCTA
1 ATGCACAGCATAAGGGCTA
39304539 CTATTCACCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.17, G:0.28, T:0.23
Consensus pattern (21 bp):
ATGCACAGCATAAGGGCTATT
Found at i:39314080 original size:27 final size:27
Alignment explanation
Indices: 39314040--39314093 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
39314030 TTCTAGTTAT
*
39314040 AAACTAAATAAACCTGCCAGAAGCAAA
1 AAACTAAAGAAACCTGCCAGAAGCAAA
*
39314067 AAACTAAAGGAACCTGCCAGAAGCAAA
1 AAACTAAAGAAACCTGCCAGAAGCAAA
39314094 TAAAAGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.54, C:0.22, G:0.15, T:0.09
Consensus pattern (27 bp):
AAACTAAAGAAACCTGCCAGAAGCAAA
Found at i:39319273 original size:8 final size:8
Alignment explanation
Indices: 39319243--39319282 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
39319233 AATTAATTAT
*
39319243 TTTTTAAA
1 TTTTAAAA
39319251 TTTTAAAA
1 TTTTAAAA
* *
39319259 ATATAAAA
1 TTTTAAAA
39319267 TTTTAAAA
1 TTTTAAAA
39319275 TTTTAAAA
1 TTTTAAAA
39319283 AATAATTAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (8 bp):
TTTTAAAA
Found at i:39319293 original size:25 final size:26
Alignment explanation
Indices: 39319236--39319293 Score: 77
Period size: 24 Copynumber: 2.3 Consensus size: 26
39319226 CATTAGCAAT
* *
39319236 TAATTATTTTTTAAATTTTAAAAATA
1 TAATTAATTTTAAAATTTTAAAAATA
39319262 TAA--AATTTTAAAATTTTAAAAA-A
1 TAATTAATTTTAAAATTTTAAAAATA
39319285 TAATTAATT
1 TAATTAATT
39319294 GCTAATATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
23 4 0.14
24 17 0.61
25 4 0.14
26 3 0.11
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (26 bp):
TAATTAATTTTAAAATTTTAAAAATA
Found at i:39327429 original size:33 final size:33
Alignment explanation
Indices: 39327383--39327506 Score: 151
Period size: 33 Copynumber: 3.8 Consensus size: 33
39327373 TACCTAAATG
* * *
39327383 GTAC-ACTTGAAAAGGTTATATACACTTTGTGT
1 GTACAACTTGAAAAGGCTATGTACACTTTGAGT
* *
39327415 GTACAATTTGAAAAGGCTATGTACACTTTGCGT
1 GTACAACTTGAAAAGGCTATGTACACTTTGAGT
* *
39327448 GTACAACTTGAAAAGACTACGTACACTTTGAGT
1 GTACAACTTGAAAAGGCTATGTACACTTTGAGT
* **
39327481 GTACCACTTGAAAAGGGAATGTACAC
1 GTACAACTTGAAAAGGCTATGTACAC
39327507 CTCTAGTGTA
Statistics
Matches: 78, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
32 4 0.05
33 74 0.95
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (33 bp):
GTACAACTTGAAAAGGCTATGTACACTTTGAGT
Found at i:39327528 original size:66 final size:66
Alignment explanation
Indices: 39327403--39327526 Score: 153
Period size: 66 Copynumber: 1.9 Consensus size: 66
39327393 AAAGGTTATA
* * * * *
39327403 TACACTTTGTGTGTACAATTTGAAAAGGCTATGTACACTTTGCGTGTACAACTTGAAAAGACTAC
1 TACACTTTGAGTGTACAACTTGAAAAGGCAATGTACACTCTGAGTGTACAACTTGAAAAGACTAC
39327468 G
66 G
* * *
39327469 TACACTTTGAGTGTACCACTTGAAAAGGGAATGTACACCTCT-AGTGTACGAC-TGAAAA
1 TACACTTTGAGTGTACAACTTGAAAAGGCAATGTACA-CTCTGAGTGTACAACTTGAAAA
39327527 AGGTTATGTC
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
65 6 0.12
66 40 0.82
67 3 0.06
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (66 bp):
TACACTTTGAGTGTACAACTTGAAAAGGCAATGTACACTCTGAGTGTACAACTTGAAAAGACTAC
G
Found at i:39330701 original size:18 final size:19
Alignment explanation
Indices: 39330669--39330706 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
39330659 GCCATTTTTT
39330669 GTTAAAAAGGAAAAAAAAA
1 GTTAAAAAGGAAAAAAAAA
*
39330688 GTTAAAAATGAAAAAAAAA
1 GTTAAAAAGGAAAAAAAAA
39330707 ACAAAAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (19 bp):
GTTAAAAAGGAAAAAAAAA
Found at i:39330702 original size:20 final size:19
Alignment explanation
Indices: 39330669--39330707 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
39330659 GCCATTTTTT
*
39330669 GTTAAAAAGGAAAAAAAAA
1 GTTAAAAAGAAAAAAAAAA
39330688 GTTAAAAATGAAAAAAAAAA
1 GTTAAAAA-GAAAAAAAAAA
39330708 CAAAAAAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (19 bp):
GTTAAAAAGAAAAAAAAAA
Found at i:39330713 original size:19 final size:19
Alignment explanation
Indices: 39330672--39330714 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
39330662 ATTTTTTGTT
***
39330672 AAAAAGGAAAAAAAAAGTT
1 AAAAAGGAAAAAAAAAACA
*
39330691 AAAAATGAAAAAAAAAACA
1 AAAAAGGAAAAAAAAAACA
39330710 AAAAA
1 AAAAA
39330715 AGGGGATTGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.81, C:0.02, G:0.09, T:0.07
Consensus pattern (19 bp):
AAAAAGGAAAAAAAAAACA
Found at i:39330763 original size:27 final size:27
Alignment explanation
Indices: 39330733--39330799 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
39330723 GTGTGGGTCC
39330733 CAGAGGCAGCACCAATTGTGCCTCTGG
1 CAGAGGCAGCACCAATTGTGCCTCTGG
*
39330760 CAGAGG-AGGCACCAGTTGTGCCTCTGG
1 CAGAGGCA-GCACCAATTGTGCCTCTGG
* *
39330787 CATAGGCAACACC
1 CAGAGGCAGCACC
39330800 TGTTTTGCTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
26 1 0.03
27 33 0.94
28 1 0.03
ACGTcount: A:0.24, C:0.30, G:0.30, T:0.16
Consensus pattern (27 bp):
CAGAGGCAGCACCAATTGTGCCTCTGG
Found at i:39331277 original size:13 final size:13
Alignment explanation
Indices: 39331259--39331295 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
39331249 TTTTTAAACA
39331259 TATATTATTTTTG
1 TATATTATTTTTG
39331272 TATATTATTTTTG
1 TATATTATTTTTG
39331285 TATATTATTTT
1 TATATTATTTT
39331296 AGTACATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.70
Consensus pattern (13 bp):
TATATTATTTTTG
Found at i:39331320 original size:151 final size:151
Alignment explanation
Indices: 39331072--39331783 Score: 1018
Period size: 152 Copynumber: 4.8 Consensus size: 151
39331062 ATAAAAAATT
** * * *
39331072 TTTGTATTTTTAAAATTTTTGGATCTTATTTTTTAAAATATACTATTTTCATATTTTA-TTTTAT
1 TTTGTATTTTTAAAATTTTCAGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTT
*
39331136 -TATTATTTTAATACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAT
66 ATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAT
* * * **
39331200 AACCCTAAATTTGTCAATTTG
131 AACCCTGATTTTGGCCTTTTG
* ** * * * *
39331221 TTTGCATTTTTAAAATTCCCAGATTTTA-TTTTTAAACATATATTATTTTTGTATATTATTTTTG
1 TTTGTATTTTTAAAATTTTCAGATTTTATTTTTTAAA-ATATACTATTTTCGTATTTTATTTTTT
*
39331285 TATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATATTAATTTAGAAA
65 TATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGT-TTTTTTATATTAATTTAGTAA
39331350 ATAACCCTGATTTTGGCCTTTTG
129 ATAACCCTGATTTTGGCCTTTTG
* *
39331373 TTTGTATTTTT--AA-----A-ATTTTATTTTTAAAAATATACTATTTTCTTATTTTA-TTTTTT
1 TTTGTATTTTTAAAATTTTCAGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTT
*
39331429 ATATTATTTTAGTACATAATCTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAT
66 ATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAT
*
39331494 AA-CCTGATTTTGGCCCTTTTC
131 AACCCTGATTTTGG-CCTTTTG
* *
39331515 TTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTTAGTATTTTATTTTTTT
1 TTTGTATTTTTAAAATTTTCAGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTT
*
39331580 ATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATATTAATTTAATAAA
66 ATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGT-TTTTTTATATTAATTTAGTAAA
*
39331645 TAACCCTGATTTTGGCCCTTTG
130 TAACCCTGATTTTGGCCTTTTG
* **
39331667 TTTGTATTTTTAATATTTTTGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTT
1 TTTGTATTTTTAAAATTTTCAGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTT
*
39331732 ATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTATAT
66 ATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATAT
39331784 AAAAAAATGA
Statistics
Matches: 506, Mismatches: 40, Indels: 32
0.88 0.07 0.06
Matches are distributed among these distances:
141 11 0.02
142 41 0.08
143 46 0.09
144 25 0.05
145 8 0.02
148 8 0.02
149 39 0.08
150 40 0.08
151 96 0.19
152 181 0.36
153 11 0.02
ACGTcount: A:0.29, C:0.06, G:0.07, T:0.57
Consensus pattern (151 bp):
TTTGTATTTTTAAAATTTTCAGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTT
ATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAT
AACCCTGATTTTGGCCTTTTG
Found at i:39331576 original size:294 final size:296
Alignment explanation
Indices: 39331097--39331783 Score: 1044
Period size: 294 Copynumber: 2.3 Consensus size: 296
39331087 TTTTTGGATC
* *
39331097 TTATTTTTTAAAATATACTATTTTCATATTTTATTTTAT-TATTATTTTAATACATAATGTTTCA
1 TTATTTTTTAAAATATACTATTTTCATATTTTATTTTTTATATTATTTTAGTACATAATGTTTCA
* *
39331161 AATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAATAACCCTAAATTTGTCAATTTGTTTGC
66 AATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAATAACCCTAAATTTGCCAATTTCTTTGC
* *
39331226 ATTTTTAAAATTCCCAGATTTTATTTTTAAACATATATTATTTTTGTATATTATTTTTGTATATT
131 ATTTTTAAAATTCCCAGATTTTATTTTTAAACATATACTATTTTAGTATATTATTTTTGTATATT
39331291 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATATTAATTTAGA-AAATAAC
196 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATATTAATTTA-ATAAATAAC
*
39331355 CCTGATTTTGGCCTTTTGTTTGTATTTTTAA-A-ATT
260 CCTGATTTTGGCCCTTTGTTTGTATTTTTAATATATT
* * *
39331390 TTATTTTTAAAAATATACTATTTTCTTATTTTATTTTTTATATTATTTTAGTACATAATCTTTCA
1 TTATTTTTTAAAATATACTATTTTCATATTTTATTTTTTATATTATTTTAGTACATAATGTTTCA
* * **
39331455 AATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAATAA-CCTGATTTTGGCCCTTTTCTTTG
66 AATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAATAACCCTAAATTT-GCCAATTTCTTTG
* ** * * *
39331519 TATTTTTAAAATTTTCGGATTTTATTTTTTAAA-ATATACTATTTTAGTATTTTATTTTTTTATA
130 CATTTTTAAAATTCCCAGATTTTA-TTTTTAAACATATACTATTTTAGTATATTATTTTTGTATA
39331583 TTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATATTAATTTAATAAATAA
194 TTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATATTAATTTAATAAATAA
39331648 CCCTGATTTTGGCCCTTTGTTTGTATTTTTAATATTTTTGGATT
259 CCCTGATTTTGGCCCTTTGTTTGTATTTTTAATA----T--ATT
*
39331692 TTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTTATATTATTTTAGTACATAATGTTTC
1 TTATTTTTTAAAATATACTATTTTCATATTTTA-TTTTTTATATTATTTTAGTACATAATGTTTC
*
39331757 AAATGTATTATTTTAGTGTTTTTATAT
65 AAATGTATTATTTTAGTTTTTTTATAT
39331784 AAAAAAATGA
Statistics
Matches: 357, Mismatches: 24, Indels: 16
0.90 0.06 0.04
Matches are distributed among these distances:
293 44 0.12
294 214 0.60
295 9 0.03
302 34 0.10
303 56 0.16
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.57
Consensus pattern (296 bp):
TTATTTTTTAAAATATACTATTTTCATATTTTATTTTTTATATTATTTTAGTACATAATGTTTCA
AATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAATAACCCTAAATTTGCCAATTTCTTTGC
ATTTTTAAAATTCCCAGATTTTATTTTTAAACATATACTATTTTAGTATATTATTTTTGTATATT
ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATATTAATTTAATAAATAACC
CTGATTTTGGCCCTTTGTTTGTATTTTTAATATATT
Found at i:39331957 original size:27 final size:27
Alignment explanation
Indices: 39331916--39331982 Score: 109
Period size: 27 Copynumber: 2.5 Consensus size: 27
39331906 TAGCAAAACT
*
39331916 GGTGCCGCCTATGCTAGAGG-CACAACC
1 GGTGCCGCCTCTGCTAG-GGACACAACC
39331943 GGTGCCGCCTCTGCTAGGGACACAACC
1 GGTGCCGCCTCTGCTAGGGACACAACC
39331970 GGTGCCGCCTCTG
1 GGTGCCGCCTCTG
39331983 GGACCCACAC
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
26 2 0.05
27 36 0.95
ACGTcount: A:0.16, C:0.36, G:0.31, T:0.16
Consensus pattern (27 bp):
GGTGCCGCCTCTGCTAGGGACACAACC
Found at i:39331992 original size:27 final size:27
Alignment explanation
Indices: 39331936--39331996 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
39331926 ATGCTAGAGG
* ***
39331936 CACAACCGGTGCCGCCTCTGCTAGGGA
1 CACAACCGGTGCCGCCTCTGCGACCCA
*
39331963 CACAACCGGTGCCGCCTCTGGGACCCA
1 CACAACCGGTGCCGCCTCTGCGACCCA
39331990 CACAACC
1 CACAACC
39331997 CCCCTTTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.21, C:0.43, G:0.25, T:0.11
Consensus pattern (27 bp):
CACAACCGGTGCCGCCTCTGCGACCCA
Found at i:39333619 original size:34 final size:35
Alignment explanation
Indices: 39333575--39333641 Score: 118
Period size: 34 Copynumber: 1.9 Consensus size: 35
39333565 TAGTAAAATG
39333575 TTTTCCGTAAAATGATTT-CTGGAAAATATTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
39333609 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
39333642 CTGGTGTTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 17 0.55
35 14 0.45
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:39336445 original size:25 final size:26
Alignment explanation
Indices: 39336417--39336477 Score: 65
Period size: 25 Copynumber: 2.4 Consensus size: 26
39336407 GAATATGCTG
39336417 AGAAGAGAAG-ATGAAGAACAGAAGA
1 AGAAGAGAAGAATGAAGAACAGAAGA
**
39336442 AGAA-A-AAGGAATGAAGAATGGAAGA
1 AGAAGAGAA-GAATGAAGAACAGAAGA
39336467 AGAAGAAGAAG
1 AGAAG-AGAAG
39336478 GAGCCTTACC
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
23 2 0.07
24 2 0.07
25 21 0.72
27 2 0.07
28 2 0.07
ACGTcount: A:0.61, C:0.02, G:0.33, T:0.05
Consensus pattern (26 bp):
AGAAGAGAAGAATGAAGAACAGAAGA
Found at i:39336562 original size:18 final size:17
Alignment explanation
Indices: 39336539--39336572 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
39336529 TTTGCAACAC
39336539 AAGGGGAAGGGAGAAGGG
1 AAGGGGAAGGGA-AAGGG
39336557 AAGGGGAAGGGAAAGG
1 AAGGGGAAGGGAAAGG
39336573 TTAAAGGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.59, T:0.00
Consensus pattern (17 bp):
AAGGGGAAGGGAAAGGG
Found at i:39339043 original size:24 final size:24
Alignment explanation
Indices: 39339011--39339072 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 24
39339001 TAGGCTCTTC
* *
39339011 GTGAGCTTCCCAATATGATTCCTT
1 GTGAACTTCCCAATAAGATTCCTT
* * * *
39339035 GTGAACTTCTCGATAAGGTTCTTT
1 GTGAACTTCCCAATAAGATTCCTT
*
39339059 GTGAACTTTCCAAT
1 GTGAACTTCCCAAT
39339073 TATGGCTCTT
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.39
Consensus pattern (24 bp):
GTGAACTTCCCAATAAGATTCCTT
Found at i:39341181 original size:24 final size:24
Alignment explanation
Indices: 39341154--39341218 Score: 64
Period size: 23 Copynumber: 2.8 Consensus size: 24
39341144 TTCGTAAGAA
39341154 CTTACTATTTTCAGCTCGA-TAGAG
1 CTTACTATTTTCAGCTC-ATTAGAG
** *
39341178 CTTAC-CGTTTCAGCTCATTAGAT
1 CTTACTATTTTCAGCTCATTAGAG
39341201 CTTACTATTATT-AGCTCA
1 CTTACTATT-TTCAGCTCA
39341219 GAAGGAGTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
22 1 0.03
23 18 0.55
24 12 0.36
25 2 0.06
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.40
Consensus pattern (24 bp):
CTTACTATTTTCAGCTCATTAGAG
Found at i:39352594 original size:24 final size:24
Alignment explanation
Indices: 39352534--39352628 Score: 66
Period size: 24 Copynumber: 4.0 Consensus size: 24
39352524 TTCCCTTTAC
* **
39352534 ATGGCTCTTTGTGAGCTTCCTGAT
1 ATGGCTCTTTGTGAACTTCCCAAT
* * *
39352558 A-GACTCTTCGTGAGCTTCCCAAT
1 ATGGCTCTTTGTGAACTTCCCAAT
* ***
39352581 ATGGTTCTTTGTGAACTTCGTGAT
1 ATGGCTCTTTGTGAACTTCCCAAT
* * *
39352605 AAGGTTCGTTGTGAACTTCCCAAT
1 ATGGCTCTTTGTGAACTTCCCAAT
39352629 TAAGCAATTT
Statistics
Matches: 54, Mismatches: 16, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
23 19 0.35
24 35 0.65
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.38
Consensus pattern (24 bp):
ATGGCTCTTTGTGAACTTCCCAAT
Found at i:39361100 original size:16 final size:16
Alignment explanation
Indices: 39361079--39361123 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
39361069 TGTGGAATGC
*
39361079 TTTACTTTCTTTATAT
1 TTTACTTTCATTATAT
39361095 TTTACTTTCATTATAT
1 TTTACTTTCATTATAT
*
39361111 TTTACTTTAATTA
1 TTTACTTTCATTA
39361124 ACATTATGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.24, C:0.11, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTACTTTCATTATAT
Found at i:39367947 original size:17 final size:17
Alignment explanation
Indices: 39367906--39367953 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
39367896 AAAATATATA
*
39367906 ATTAATTTTAATAATTT
1 ATTAATTATAATAATTT
*
39367923 -TAATATTATAATAATTT
1 ATTA-ATTATAATAATTT
39367940 ATTAATTAATAATA
1 ATTAATT-ATAATA
39367954 TATATGAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
16 2 0.08
17 15 0.60
18 8 0.32
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
ATTAATTATAATAATTT
Found at i:39367952 original size:26 final size:27
Alignment explanation
Indices: 39367898--39367954 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 27
39367888 AAACAAATAA
*
39367898 AATA-TATAATTAATTTTAATAATTTT
1 AATATTATAATTAATTTTAATAATTAT
*
39367924 AATATTATAA-TAA-TTTATTAATTAAT
1 AATATTATAATTAATTTTAATAATT-AT
39367950 AATAT
1 AATAT
39367955 ATATGAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 9 0.33
26 13 0.48
27 5 0.19
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (27 bp):
AATATTATAATTAATTTTAATAATTAT
Found at i:39368863 original size:41 final size:41
Alignment explanation
Indices: 39368801--39368900 Score: 173
Period size: 41 Copynumber: 2.4 Consensus size: 41
39368791 GGAATGTAGA
*
39368801 AAAACGCTTCCAGCTGGAAGCGCTTTCCGCGTGTTACCAGT
1 AAAATGCTTCCAGCTGGAAGCGCTTTCCGCGTGTTACCAGT
39368842 AAAATGCTTCCAGCTGGAAGCGCTTTCCGCGTGTTACCAGT
1 AAAATGCTTCCAGCTGGAAGCGCTTTCCGCGTGTTACCAGT
* *
39368883 AAAATGCTTTCAGTTGGA
1 AAAATGCTTCCAGCTGGA
39368901 CACGTTCCCC
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 56 1.00
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (41 bp):
AAAATGCTTCCAGCTGGAAGCGCTTTCCGCGTGTTACCAGT
Found at i:39369018 original size:22 final size:22
Alignment explanation
Indices: 39368984--39369046 Score: 58
Period size: 22 Copynumber: 2.9 Consensus size: 22
39368974 CTTACTCATT
* * *
39368984 TCTCACAATATTCTCTAAAAGA
1 TCTCTCAAAATTCTCTAAAACA
*
39369006 TCTCTCAAAATTCTC-AAACCA
1 TCTCTCAAAATTCTCTAAAACA
*
39369027 -CTCTCGAAATTCTCTCAAAA
1 TCTCTCAAAATTCTCT-AAAA
39369047 TTCTTTCTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
20 13 0.39
21 4 0.12
22 16 0.48
ACGTcount: A:0.38, C:0.29, G:0.03, T:0.30
Consensus pattern (22 bp):
TCTCTCAAAATTCTCTAAAACA
Found at i:39371470 original size:32 final size:30
Alignment explanation
Indices: 39371397--39371477 Score: 99
Period size: 32 Copynumber: 2.6 Consensus size: 30
39371387 ACCAAGTTAG
* * **
39371397 TATTTGTTATCATTTAACAAATTAAAGTTG
1 TATTTGTTATCATTTCACAAATGAAAGTCA
39371427 TAATTTGTTATCATTTCACAAAATGAAAGCTCA
1 T-ATTTGTTATCATTTCAC-AAATGAAAG-TCA
39371460 TATTTGTTATCATTTCAC
1 TATTTGTTATCATTTCAC
39371478 GGAACTGCGC
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
30 1 0.02
31 16 0.36
32 25 0.57
33 2 0.05
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.44
Consensus pattern (30 bp):
TATTTGTTATCATTTCACAAATGAAAGTCA
Found at i:39384538 original size:95 final size:95
Alignment explanation
Indices: 39384354--39385145 Score: 908
Period size: 95 Copynumber: 8.4 Consensus size: 95
39384344 GGTGGTTTGG
* * * * * *
39384354 AAATCAACTAA-TTAGATAAGATTGTTCATGATAATATATCAAATGAACTTA-GTTGCAATCTTA
1 AAATCAGCTAACTCAGAGAAGATTGTTCATGATAGTAAATCAAATGAACTTAGGCTGCAATCTTA
* ** * *
39384417 AATCAGTGAGTTGTTTGAAGCAGCGATATT
66 AATCAGCGAGCCGTTTGGAGCAGCAATATT
* * * * *
39384447 AATTCAAG-TAACTCAGAGAAGACTGTTCATGATAGTAAATCAAATGAACTTAGGTTACGATCTT
1 AAATC-AGCTAACTCAGAGAAGATTGTTCATGATAGTAAATCAAATGAACTTAGGCTGCAATCTT
* *
39384511 AAATCAGCGAGTCGTTTGGAGCAGCGATATT
65 AAATCAGCGAGCCGTTTGGAGCAGCAATATT
* * ***
39384542 AAATCAGCTAACTCAGAGAAGATTGTTCATGATAATAAATCAAATGAACTTAGACTATGATCTTA
1 AAATCAGCTAACTCAGAGAAGATTGTTCATGATAGTAAATCAAATGAACTTAGGCTGCAATCTTA
* * *
39384607 AATTACCGAGCCGTTTGGAGCAACAATATT
66 AATCAGCGAGCCGTTTGGAGCAGCAATATT
* * *
39384637 AAATAAACTAACTCAGATAAGATTGTTCATGATAGTAAATCAAATGAACTTAGGCTGCAATCTTA
1 AAATCAGCTAACTCAGAGAAGATTGTTCATGATAGTAAATCAAATGAACTTAGGCTGCAATCTTA
* * * *
39384702 AATGAGTGAGCCGTTGGGAGTAGCAATATT
66 AATCAGCGAGCCGTTTGGAGCAGCAATATT
* * * * * * *
39384732 AAATCAGTTAACTCAAAGAAGACTGTTCATGATAGTAAATCAAATTAACTCAAGCTGCAATATTA
1 AAATCAGCTAACTCAGAGAAGATTGTTCATGATAGTAAATCAAATGAACTTAGGCTGCAATCTTA
* *
39384797 AATCAGTGAGCCGTTTGGAGTAGCAATATT
66 AATCAGCGAGCCGTTTGGAGCAGCAATATT
* * * * *
39384827 AAATCAGTTAACTCGGAGAAGATTGTTCATGATAGTAAATTAAACGAACTTAGGTTGCAATCTTA
1 AAATCAGCTAACTCAGAGAAGATTGTTCATGATAGTAAATCAAATGAACTTAGGCTGCAATCTTA
* * * *
39384892 AATCAGTGAACCGTTCGGAGCAACAATATT
66 AATCAGCGAGCCGTTTGGAGCAGCAATATT
* * * * * **
39384922 AAATCAGCTAACTTAGAGATGATTGTTCATAATAGTAAATCAAATAAACTTAAGCTGTGATCTTA
1 AAATCAGCTAACTCAGAGAAGATTGTTCATGATAGTAAATCAAATGAACTTAGGCTGCAATCTTA
* * * **
39384987 AATTAGCGAGCTGCTTGGAGCAGTTATATT
66 AATCAGCGAGCCGTTTGGAGCAGCAATATT
*
39385017 AAATAAGCTAACTCAGAGAAGATTGTTCATGATAGTAAATCAAATGAACTTA-GCTTGCAATCTT
1 AAATCAGCTAACTCAGAGAAGATTGTTCATGATAGTAAATCAAATGAACTTAGGC-TGCAATCTT
* * * *
39385081 AAATTAGCGAGCTGTTTGGAGCAACGATATT
65 AAATCAGCGAGCCGTTTGGAGCAGCAATATT
* *
39385112 AAATCAGCTAACTCAGATAAGATTGTTCACGATA
1 AAATCAGCTAACTCAGAGAAGATTGTTCATGATA
39385146 AATAAACTAA
Statistics
Matches: 596, Mismatches: 98, Indels: 8
0.85 0.14 0.01
Matches are distributed among these distances:
93 7 0.01
94 40 0.07
95 549 0.92
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (95 bp):
AAATCAGCTAACTCAGAGAAGATTGTTCATGATAGTAAATCAAATGAACTTAGGCTGCAATCTTA
AATCAGCGAGCCGTTTGGAGCAGCAATATT
Found at i:39389062 original size:47 final size:47
Alignment explanation
Indices: 39389008--39389137 Score: 179
Period size: 47 Copynumber: 2.8 Consensus size: 47
39388998 TCAATTAATA
* *
39389008 AGTACCTATACCATGACCCGTAGCCAAATCAAGGTAACTTATCCCGG
1 AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCGG
* * * *
39389055 AGTACCTATATCATGGCCCGTAGCCAAATCAAGGTAACTCCTCTCTG
1 AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCGG
* **
39389102 AATACCTATACCATGGCTTGTAGCCAAATCAAGGTA
1 AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTA
39389138 TTATTCACAC
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 73 1.00
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.24
Consensus pattern (47 bp):
AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCGG
Found at i:39407670 original size:9 final size:9
Alignment explanation
Indices: 39407650--39407681 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
39407640 AGGATGGTAA
39407650 AATGAA-GG
1 AATGAATGG
39407658 AATGAATGG
1 AATGAATGG
39407667 AATGAATGG
1 AATGAATGG
39407676 AATGAA
1 AATGAA
39407682 ATGGGAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 6 0.26
9 17 0.74
ACGTcount: A:0.50, C:0.00, G:0.31, T:0.19
Consensus pattern (9 bp):
AATGAATGG
Found at i:39407805 original size:45 final size:45
Alignment explanation
Indices: 39407741--39407865 Score: 169
Period size: 45 Copynumber: 2.8 Consensus size: 45
39407731 ACGCCTAAAT
* *
39407741 TGAGTAAGACCATAGCTGAAAGATGTTATGGCATCAAGATAAAGA
1 TGAGTAAGACCATAGCTGAAAGATGTTATGACATCAAGATAAACA
* * * *
39407786 TGAGTAAGACCATGGCTGAAAGATGCTATGACATCATGGTAAACA
1 TGAGTAAGACCATAGCTGAAAGATGTTATGACATCAAGATAAACA
* * *
39407831 GGACTAAGACCATAGCTGAAAGATGTTATGCCATC
1 TGAGTAAGACCATAGCTGAAAGATGTTATGACATC
39407866 CTTTGATAGT
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 69 1.00
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.22
Consensus pattern (45 bp):
TGAGTAAGACCATAGCTGAAAGATGTTATGACATCAAGATAAACA
Found at i:39416147 original size:75 final size:75
Alignment explanation
Indices: 39416057--39416224 Score: 212
Period size: 75 Copynumber: 2.2 Consensus size: 75
39416047 TGAATGGGAG
*
39416057 TGTTTGGCTGTAGGTTTTGGATAGTCTAGGGTAAGAACACGCTATTCCTGGCTAGAAT-AGGAAT
1 TGTTTGGCTGCAGGTTTTGGATAGTCTAGGGTAAGAACACGCTATTCCTGGCTAGAATAAGG-AT
*
39416121 GGAATAAAGGT
65 GGAATAAAGGC
* * * ** * *
39416132 TGTTTGGCTGCAGGTTTTGGATAGTTTATGGTAGGAACGTGCTATTCTTGGCTGGAATAAGGATG
1 TGTTTGGCTGCAGGTTTTGGATAGTCTAGGGTAAGAACACGCTATTCCTGGCTAGAATAAGGATG
* *
39416197 GAATGAGGGC
66 GAATAAAGGC
*
39416207 TGTTTGGCTGCAAGTTTT
1 TGTTTGGCTGCAGGTTTT
39416225 TTGTTTCCCT
Statistics
Matches: 80, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
75 77 0.96
76 3 0.04
ACGTcount: A:0.23, C:0.10, G:0.33, T:0.34
Consensus pattern (75 bp):
TGTTTGGCTGCAGGTTTTGGATAGTCTAGGGTAAGAACACGCTATTCCTGGCTAGAATAAGGATG
GAATAAAGGC
Found at i:39420125 original size:9 final size:9
Alignment explanation
Indices: 39420105--39420136 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
39420095 AGGATGGTAA
39420105 AATGAA-GG
1 AATGAATGG
39420113 AATGAATGG
1 AATGAATGG
39420122 AATGAATGG
1 AATGAATGG
39420131 AATGAA
1 AATGAA
39420137 ATGGGAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 6 0.26
9 17 0.74
ACGTcount: A:0.50, C:0.00, G:0.31, T:0.19
Consensus pattern (9 bp):
AATGAATGG
Found at i:39420260 original size:45 final size:45
Alignment explanation
Indices: 39420196--39420320 Score: 160
Period size: 45 Copynumber: 2.8 Consensus size: 45
39420186 ACGCCTAAAT
* *
39420196 TGAGTAAGACCATAGCTGAAAGATGTTATGGCATCAAGATAAAGA
1 TGAGTAAGACCATAGCTGAAAGATGTTATGACATCAAGATAAACA
* * * *
39420241 TGAGTAAGACCATGGCTGAAAGATGCTATGACATCATGGTAAACA
1 TGAGTAAGACCATAGCTGAAAGATGTTATGACATCAAGATAAACA
* * * *
39420286 GGACTAAGACCATAGCTAAAAGATGTTATGCCATC
1 TGAGTAAGACCATAGCTGAAAGATGTTATGACATC
39420321 CTTTGATAGT
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 68 1.00
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.22
Consensus pattern (45 bp):
TGAGTAAGACCATAGCTGAAAGATGTTATGACATCAAGATAAACA
Found at i:39428606 original size:75 final size:75
Alignment explanation
Indices: 39428516--39428683 Score: 212
Period size: 75 Copynumber: 2.2 Consensus size: 75
39428506 TGAATGGGTG
*
39428516 TGTTTGGCTGTAGGTTTTGGATAGTCTAGGGTAAGAACACGCTATTCCTGGCTAGAAT-AGGAAT
1 TGTTTGGCTGCAGGTTTTGGATAGTCTAGGGTAAGAACACGCTATTCCTGGCTAGAATAAGG-AT
*
39428580 GGAATAAAGGT
65 GGAATAAAGGC
* * * ** * *
39428591 TGTTTGGCTGCAGGTTTTGGATAGTTTATGGTAGGAACGTGCTATTCTTGGCTGGAATAAGGATG
1 TGTTTGGCTGCAGGTTTTGGATAGTCTAGGGTAAGAACACGCTATTCCTGGCTAGAATAAGGATG
* *
39428656 GAATGAGGGC
66 GAATAAAGGC
*
39428666 TGTTTGGCTGCAAGTTTT
1 TGTTTGGCTGCAGGTTTT
39428684 TTGTTTCCCT
Statistics
Matches: 80, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
75 77 0.96
76 3 0.04
ACGTcount: A:0.23, C:0.10, G:0.33, T:0.34
Consensus pattern (75 bp):
TGTTTGGCTGCAGGTTTTGGATAGTCTAGGGTAAGAACACGCTATTCCTGGCTAGAATAAGGATG
GAATAAAGGC
Found at i:39428701 original size:16 final size:16
Alignment explanation
Indices: 39428680--39428712 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
39428670 TGGCTGCAAG
*
39428680 TTTTTTGTT-TCCCTA
1 TTTTTTTTTCTCCCTA
39428695 TTTTTTTTTCTCCCTA
1 TTTTTTTTTCTCCCTA
39428711 TT
1 TT
39428713 GTTGCTTCGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.06, C:0.21, G:0.03, T:0.70
Consensus pattern (16 bp):
TTTTTTTTTCTCCCTA
Found at i:39443259 original size:26 final size:26
Alignment explanation
Indices: 39443230--39443289 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 26
39443220 TCCCTTTGAA
* *
39443230 TCATTCGATATTTCGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAGTG
39443256 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACACTAAGTG
*
39443284 CCATTC
1 TCATTC
39443290 TCAATATTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 5 0.17
27 2 0.07
28 22 0.76
ACGTcount: A:0.27, C:0.28, G:0.12, T:0.33
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:39443273 original size:28 final size:28
Alignment explanation
Indices: 39443237--39443315 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
39443227 GAATCATTCG
* *
39443237 ATATTTCGCACACTAAGTGTCATTCTCA
1 ATATCTCGCACACTAAGTGCCATTCTCA
39443265 ATATCTCGCACACTAAGTGCCATTCTCA
1 ATATCTCGCACACTAAGTGCCATTCTCA
* ** *
39443293 ATATTTCATACACTGAGTGCCAT
1 ATATCTCGCACACTAAGTGCCAT
39443316 ATTTGATTGC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.29, C:0.27, G:0.11, T:0.33
Consensus pattern (28 bp):
ATATCTCGCACACTAAGTGCCATTCTCA
Found at i:39449458 original size:21 final size:22
Alignment explanation
Indices: 39449425--39449465 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
39449415 TTCATTTATG
*
39449425 TTTCATTGGCACATA-ATCATA
1 TTTCATTGCCACATATATCATA
*
39449446 TTTCATTTCCACATATATCA
1 TTTCATTGCCACATATATCA
39449466 CAATACATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (22 bp):
TTTCATTGCCACATATATCATA
Found at i:39449910 original size:28 final size:28
Alignment explanation
Indices: 39449874--39449952 Score: 122
Period size: 28 Copynumber: 2.8 Consensus size: 28
39449864 GAATCATTTG
*
39449874 ATATTTCGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
39449902 ATATCTCGCACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
* *
39449930 ATATTTCGTACACTGAGTGCCAT
1 ATATTTCGCACACTAAGTGCCAT
39449953 ATTTGATTAC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 46 1.00
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.33
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGCCATTCTCA
Found at i:39449935 original size:56 final size:57
Alignment explanation
Indices: 39449874--39449980 Score: 135
Period size: 57 Copynumber: 1.9 Consensus size: 57
39449864 GAATCATTTG
* * *
39449874 ATATTTCGCACACTAAGTGTCAT-TCTCAATATCTCGCACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATATCTCAATACCCCGCACACTAAGTGCCATTCTCA
* * * * *
39449930 ATATTTCGTACACTGAGTGCCATATTTGATTACCCCGCACACTAAGTGCCA
1 ATATTTCGCACACTAAGTGCCATATCTCAATACCCCGCACACTAAGTGCCA
39449981 CATTTAGTTA
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
56 20 0.48
57 22 0.52
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.31
Consensus pattern (57 bp):
ATATTTCGCACACTAAGTGCCATATCTCAATACCCCGCACACTAAGTGCCATTCTCA
Found at i:39464518 original size:2 final size:2
Alignment explanation
Indices: 39464511--39464540 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
39464501 AAAGGAAGTG
39464511 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
39464541 GATTTTAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:39464599 original size:21 final size:22
Alignment explanation
Indices: 39464558--39464599 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
39464548 AAGTAATACC
39464558 AAATTTAAGTTTTACAAAAAAA
1 AAATTTAAGTTTTACAAAAAAA
39464580 AAATTATAA-TTTTA-AAAAAA
1 AAATT-TAAGTTTTACAAAAAA
39464600 TTATTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 10 0.53
23 3 0.16
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (22 bp):
AAATTTAAGTTTTACAAAAAAA
Found at i:39464607 original size:15 final size:16
Alignment explanation
Indices: 39464576--39464610 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
39464566 GTTTTACAAA
39464576 AAAAAAATTATAATTTT
1 AAAAAAATTAT-ATTTT
39464593 AAAAAAATTAT-TTTT
1 AAAAAAATTATATTTT
39464608 AAA
1 AAA
39464611 TCTTATTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.39
17 11 0.61
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AAAAAAATTATATTTT
Found at i:39465431 original size:27 final size:25
Alignment explanation
Indices: 39465384--39465445 Score: 81
Period size: 25 Copynumber: 2.4 Consensus size: 25
39465374 GTTTTCAATT
*
39465384 ATTATTTAAAATTTAAATATTTCT-A
1 ATTATTTTAAATTTAAATATTT-TAA
39465409 ATTATTTTAAATTTAAATTTATTTTAA
1 ATTATTTTAAATTTAAA--TATTTTAA
39465436 ATTATTTTAA
1 ATTATTTTAA
39465446 TCTAATTCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
25 16 0.48
26 1 0.03
27 16 0.48
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (25 bp):
ATTATTTTAAATTTAAATATTTTAA
Found at i:39467303 original size:17 final size:16
Alignment explanation
Indices: 39467283--39467335 Score: 52
Period size: 18 Copynumber: 3.1 Consensus size: 16
39467273 AAAATTAATT
39467283 TAAATTGTAATTAAAAA
1 TAAATT-TAATTAAAAA
*
39467300 TAAATTTAAATAGATAAA
1 TAAATTTAATTA-A-AAA
* *
39467318 TATATTAAATTAAAAA
1 TAAATTTAATTAAAAA
39467334 TA
1 TA
39467336 TAGTGGCATC
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
16 10 0.33
17 8 0.27
18 12 0.40
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (16 bp):
TAAATTTAATTAAAAA
Found at i:39468642 original size:78 final size:78
Alignment explanation
Indices: 39468513--39468669 Score: 296
Period size: 78 Copynumber: 2.0 Consensus size: 78
39468503 CAAAACATAC
39468513 TGCTTTGCCCAACATAGAGAAGCTTTAATAACCTCATCAATACTCCACGAAAGACCTTGAAATAT
1 TGCTTTGCCCAACATAGAGAAGCTTTAATAACCTCATCAATACTCCACGAAAGACCTTGAAATAT
39468578 GGGTAAGTTCTGA
66 GGGTAAGTTCTGA
* *
39468591 TGCTTTGCCCAACATAGAGAAGCTTTGATAACCTCATCAGTACTCCACGAAAGACCTTGAAATAT
1 TGCTTTGCCCAACATAGAGAAGCTTTAATAACCTCATCAATACTCCACGAAAGACCTTGAAATAT
39468656 GGGTAAGTTCTGA
66 GGGTAAGTTCTGA
39468669 T
1 T
39468670 TCTTCCATAT
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
78 77 1.00
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (78 bp):
TGCTTTGCCCAACATAGAGAAGCTTTAATAACCTCATCAATACTCCACGAAAGACCTTGAAATAT
GGGTAAGTTCTGA
Found at i:39475031 original size:17 final size:17
Alignment explanation
Indices: 39475005--39475062 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
39474995 GTGAAACAAA
*
39475005 TTTTTAATAATTTATAT
1 TTTTTTATAATTTATAT
*
39475022 TTTTTTATAAGTTTTCTAT
1 TTTTTTATAA--TTTATAT
* * *
39475041 TATTTTATGATTTAAAT
1 TTTTTTATAATTTATAT
39475058 TTTTT
1 TTTTT
39475063 AGAGATTTAT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
17 18 0.56
19 14 0.44
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.67
Consensus pattern (17 bp):
TTTTTTATAATTTATAT
Found at i:39475134 original size:14 final size:14
Alignment explanation
Indices: 39475115--39475141 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
39475105 TTAGAATTTG
39475115 TTTTATTTTTAATT
1 TTTTATTTTTAATT
39475129 TTTTATTTTTAAT
1 TTTTATTTTTAAT
39475142 AATTTTATAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTATTTTTAATT
Found at i:39475146 original size:17 final size:19
Alignment explanation
Indices: 39475124--39475168 Score: 58
Period size: 17 Copynumber: 2.5 Consensus size: 19
39475114 GTTTTATTTT
39475124 TAATTTTTTA-TTTTT-AA
1 TAATTTTTTACTTTTTAAA
*
39475141 TAATTTTATACTTTTTAAA
1 TAATTTTTTACTTTTTAAA
*
39475160 TGATTTTTT
1 TAATTTTTT
39475169 CAGATTAGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 9 0.39
18 5 0.22
19 9 0.39
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (19 bp):
TAATTTTTTACTTTTTAAA
Found at i:39477361 original size:116 final size:116
Alignment explanation
Indices: 39477157--39477388 Score: 455
Period size: 116 Copynumber: 2.0 Consensus size: 116
39477147 ATGATAATGT
39477157 TTATATGTAAGACCATAGCTGGGCTATGGAATTAATGTAAAGGATGAATTAACGGATAAGACCAT
1 TTATATGTAAGACCATAGCTGGGCTATGGAATTAATGTAAAGGATGAATTAACGGATAAGACCAT
39477222 AACTGGGTTATGGCACAATGAATATAAGACCATGGCAGTGTTTATATGTAA
66 AACTGGGTTATGGCACAATGAATATAAGACCATGGCAGTGTTTATATGTAA
39477273 TTATATGTAAGACCATAGCTGGGCTATGGAATTAATGTAAAGGATGAATTAACGGATAAGACCAT
1 TTATATGTAAGACCATAGCTGGGCTATGGAATTAATGTAAAGGATGAATTAACGGATAAGACCAT
*
39477338 AACTGGGTTATGGCACTATGAATATAAGACCATGGCAGTGTTTATATGTAA
66 AACTGGGTTATGGCACAATGAATATAAGACCATGGCAGTGTTTATATGTAA
39477389 GATCATAGCT
Statistics
Matches: 115, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
116 115 1.00
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (116 bp):
TTATATGTAAGACCATAGCTGGGCTATGGAATTAATGTAAAGGATGAATTAACGGATAAGACCAT
AACTGGGTTATGGCACAATGAATATAAGACCATGGCAGTGTTTATATGTAA
Found at i:39477370 original size:33 final size:32
Alignment explanation
Indices: 39477328--39477460 Score: 93
Period size: 33 Copynumber: 4.3 Consensus size: 32
39477318 GAATTAACGG
39477328 ATAAGACCATAACTGGGTTATGGCACTATGAAT
1 ATAAGACCATAACTGGGTTATGGCACTATG-AT
** * *
39477361 ATAAGACCATGGCAGTGTT-T---A-TATG--
1 ATAAGACCATAACTGGGTTATGGCACTATGAT
* * * *
39477386 -TAAGATCATAGCTGGGCTATGGCACTCTGAT
1 ATAAGACCATAACTGGGTTATGGCACTATGAT
*
39477417 GATAAGACCATAACTGGGTTATGGCACTACGAAT
1 -ATAAGACCATAACTGGGTTATGGCACTATG-AT
*
39477451 GTAAGACCAT
1 ATAAGACCAT
39477461 GGCTAGGTCA
Statistics
Matches: 74, Mismatches: 16, Indels: 20
0.67 0.15 0.18
Matches are distributed among these distances:
24 13 0.18
25 1 0.01
28 5 0.07
29 4 0.05
32 1 0.01
33 48 0.65
34 2 0.03
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (32 bp):
ATAAGACCATAACTGGGTTATGGCACTATGAT
Found at i:39479077 original size:12 final size:12
Alignment explanation
Indices: 39479060--39479093 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
39479050 CTGGTCGTGT
39479060 AAGCCACACGGC
1 AAGCCACACGGC
39479072 AAGCCACACGGC
1 AAGCCACACGGC
*
39479084 CAGCCACACG
1 AAGCCACACG
39479094 AGCGTGTGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.32, C:0.44, G:0.24, T:0.00
Consensus pattern (12 bp):
AAGCCACACGGC
Found at i:39481005 original size:31 final size:31
Alignment explanation
Indices: 39480970--39481031 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
39480960 TATAAGAAGA
39480970 GCATGAAACTCAACGCCAAGGCCATGCACAT
1 GCATGAAACTCAACGCCAAGGCCATGCACAT
* *
39481001 GCATGCAACTCAACGCCAAGGCTATGCACAT
1 GCATGAAACTCAACGCCAAGGCCATGCACAT
39481032 TCTCTTTTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.34, C:0.32, G:0.19, T:0.15
Consensus pattern (31 bp):
GCATGAAACTCAACGCCAAGGCCATGCACAT
Found at i:39484191 original size:33 final size:33
Alignment explanation
Indices: 39484149--39484215 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
39484139 GAAATTAGAC
*
39484149 ATCATTTCATTAGAGGTCATGTCCAAAAAGGTA
1 ATCATTTCATTAGAGATCATGTCCAAAAAGGTA
*
39484182 ATCATTTCATTAGAGATCATGTCTAAAAAGGTA
1 ATCATTTCATTAGAGATCATGTCCAAAAAGGTA
39484215 A
1 A
39484216 AATAGTTCTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.31
Consensus pattern (33 bp):
ATCATTTCATTAGAGATCATGTCCAAAAAGGTA
Found at i:39485727 original size:8 final size:8
Alignment explanation
Indices: 39485716--39485746 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
39485706 CTCATGAGAT
*
39485716 TATGTGTC
1 TATGTGAC
39485724 TATGTGAC
1 TATGTGAC
39485732 TATGTGAC
1 TATGTGAC
39485740 TATGTGA
1 TATGTGA
39485747 ATCCGGGTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.23, C:0.10, G:0.26, T:0.42
Consensus pattern (8 bp):
TATGTGAC
Found at i:39498651 original size:46 final size:46
Alignment explanation
Indices: 39498578--39498807 Score: 291
Period size: 46 Copynumber: 5.0 Consensus size: 46
39498568 ATACAGGCCT
* * **
39498578 ATGGCAACCTGATATTAAATGTGTAAGACCATGGTTGAAAGATACC
1 ATGGCAACCTGACATGAAATGAATAAGACCATGGTTGAAAGATACC
* *
39498624 ATGGCAACGTGATATGAAATGAATAAGACCATGGTTGAAAGATACC
1 ATGGCAACCTGACATGAAATGAATAAGACCATGGTTGAAAGATACC
*
39498670 ATGGCAACCTGACATGAAATGAGTAAGACCATGGTTGAAAGATACC
1 ATGGCAACCTGACATGAAATGAATAAGACCATGGTTGAAAGATACC
* **
39498716 ATGGCAACATGACGGGAAAATGAATAAGACCATGGTTGAAAGATACC
1 ATGGCAACCTGACATG-AAATGAATAAGACCATGGTTGAAAGATACC
* * * * * *
39498763 ATGGCAACATGACA-GAAAACGAGTAAAACCATAGTTTAAAGATAC
1 ATGGCAACCTGACATG-AAATGAATAAGACCATGGTTGAAAGATAC
39498808 TATGACATCA
Statistics
Matches: 166, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
46 124 0.75
47 42 0.25
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (46 bp):
ATGGCAACCTGACATGAAATGAATAAGACCATGGTTGAAAGATACC
Found at i:39498776 original size:93 final size:92
Alignment explanation
Indices: 39498578--39498807 Score: 327
Period size: 93 Copynumber: 2.5 Consensus size: 92
39498568 ATACAGGCCT
* * * * * *
39498578 ATGGCAACCTGATATTAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAA
1 ATGGCAACCTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAA
39498643 TGAATAAGACCATGGTTGAAAGATACC
66 TGAATAAGACCATGGTTGAAAGATACC
*
39498670 ATGGCAACCTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAA
1 ATGGCAACCTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGG-AA
39498735 ATGAATAAGACCATGGTTGAAAGATACC
65 ATGAATAAGACCATGGTTGAAAGATACC
* * * * *
39498763 ATGGCAACATGACA-GAAAACGAGTAAAACCATAGTTTAAAGATAC
1 ATGGCAACCTGACATG-AAATGAGTAAGACCATGGTTGAAAGATAC
39498808 TATGACATCA
Statistics
Matches: 124, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
92 56 0.45
93 68 0.55
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (92 bp):
ATGGCAACCTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAA
TGAATAAGACCATGGTTGAAAGATACC
Found at i:39503097 original size:20 final size:20
Alignment explanation
Indices: 39503072--39503125 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
39503062 AAATCAATTT
39503072 AAAATGATTTTAACCAAGCC
1 AAAATGATTTTAACCAAGCC
* **
39503092 AAAATGATTTCAACCAAGTT
1 AAAATGATTTTAACCAAGCC
*
39503112 AAAATCATTTTAAC
1 AAAATGATTTTAAC
39503126 ACATCAAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.30
Consensus pattern (20 bp):
AAAATGATTTTAACCAAGCC
Found at i:39503534 original size:75 final size:75
Alignment explanation
Indices: 39503448--39503598 Score: 275
Period size: 75 Copynumber: 2.0 Consensus size: 75
39503438 AATAAATCCC
*
39503448 AACGGTCACTGAATTAGATTTTATTACAAAAAAATATCAATACCCTTTTATTAGGTATCAATACT
1 AACGGTCACTGAATTAGAATTTATTACAAAAAAATATCAATACCCTTTTATTAGGTATCAATACT
*
39503513 CGAAAACTGT
66 CAAAAACTGT
39503523 AACGGTCACTGAATTAGAATTTATTACAAAAAAATATCAATACCCTTTTATTAGGTATCAATACT
1 AACGGTCACTGAATTAGAATTTATTACAAAAAAATATCAATACCCTTTTATTAGGTATCAATACT
*
39503588 CAAAAATTGT
66 CAAAAACTGT
39503598 A
1 A
39503599 GGTGAAATAA
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 73 1.00
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (75 bp):
AACGGTCACTGAATTAGAATTTATTACAAAAAAATATCAATACCCTTTTATTAGGTATCAATACT
CAAAAACTGT
Found at i:39508660 original size:22 final size:21
Alignment explanation
Indices: 39508630--39508695 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
39508620 TACAAATTAA
39508630 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
39508652 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
39508673 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
39508692 ATCT
1 ATCT
39508696 AAGATTGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:39508682 original size:19 final size:19
Alignment explanation
Indices: 39508647--39508725 Score: 117
Period size: 19 Copynumber: 4.2 Consensus size: 19
39508637 AGATTACAAG
39508647 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
39508668 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
39508687 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
*
39508704 ATCATATCTAAGATTTCAT
1 ATCATATCTAAGATTGCAT
39508723 ATC
1 ATC
39508726 CTTAAAGATT
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
17 16 0.29
19 30 0.55
20 1 0.02
21 8 0.15
ACGTcount: A:0.35, C:0.16, G:0.09, T:0.39
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:39508711 original size:36 final size:39
Alignment explanation
Indices: 39508647--39508725 Score: 119
Period size: 36 Copynumber: 2.1 Consensus size: 39
39508637 AGATTACAAG
39508647 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATCTTCAAGATTG-ATATCATATCTAAGATTGCAT
*
39508687 ATCATATC-T-AAGATTG-TATCATATCTAAGATTTCAT
1 ATCATATCTTCAAGATTGATATCATATCTAAGATTGCAT
39508723 ATC
1 ATC
39508726 CTTAAAGATT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
36 22 0.58
38 7 0.18
39 1 0.03
40 8 0.21
ACGTcount: A:0.35, C:0.16, G:0.09, T:0.39
Consensus pattern (39 bp):
ATCATATCTTCAAGATTGATATCATATCTAAGATTGCAT
Found at i:39508948 original size:29 final size:29
Alignment explanation
Indices: 39508906--39509038 Score: 162
Period size: 29 Copynumber: 4.6 Consensus size: 29
39508896 AATCCCAGGA
*
39508906 TATTTTTTTAGAACCCATCTAGTCAAAAT
1 TATTTTTTCAGAACCCATCTAGTCAAAAT
* *
39508935 TATTTTTTTAGAACCCATCTCGTCAAAAT
1 TATTTTTTCAGAACCCATCTAGTCAAAAT
* *
39508964 TATTTTTTCAGAACTCATCTCGTCAAAAT
1 TATTTTTTCAGAACCCATCTAGTCAAAAT
* * *
39508993 TATGTTTCCAGAACCTATCTCA-TCAAAA-
1 TATTTTTTCAGAACCCATCT-AGTCAAAAT
*
39509021 TAATTTTTCAGAACCCAT
1 TATTTTTTCAGAACCCAT
39509039 TTCAATTTTT
Statistics
Matches: 91, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
28 14 0.15
29 77 0.85
ACGTcount: A:0.33, C:0.21, G:0.07, T:0.39
Consensus pattern (29 bp):
TATTTTTTCAGAACCCATCTAGTCAAAAT
Found at i:39509173 original size:23 final size:23
Alignment explanation
Indices: 39509140--39509203 Score: 110
Period size: 23 Copynumber: 2.7 Consensus size: 23
39509130 TTAATCAATT
*
39509140 AAAACCATAAAACACTAACCCTAA
1 AAAACC-TAAAACCCTAACCCTAA
39509164 AAAACCTAAAACCCTAACCCTAA
1 AAAACCTAAAACCCTAACCCTAA
39509187 AAAACCTAAAACCCTAA
1 AAAACCTAAAACCCTAA
39509204 TAATAAAACC
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
23 33 0.85
24 6 0.15
ACGTcount: A:0.56, C:0.31, G:0.00, T:0.12
Consensus pattern (23 bp):
AAAACCTAAAACCCTAACCCTAA
Found at i:39509210 original size:23 final size:23
Alignment explanation
Indices: 39509140--39509211 Score: 81
Period size: 23 Copynumber: 3.1 Consensus size: 23
39509130 TTAATCAATT
* **
39509140 AAAACCATAAAACACTAACCCTAA
1 AAAACC-TAAAACCCTAACAATAA
**
39509164 AAAACCTAAAACCCTAACCCTAA
1 AAAACCTAAAACCCTAACAATAA
*
39509187 AAAACCTAAAACCCTAATAATAA
1 AAAACCTAAAACCCTAACAATAA
39509210 AA
1 AA
39509212 CCCTAATTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
23 38 0.86
24 6 0.14
ACGTcount: A:0.58, C:0.28, G:0.00, T:0.14
Consensus pattern (23 bp):
AAAACCTAAAACCCTAACAATAA
Found at i:39509212 original size:14 final size:15
Alignment explanation
Indices: 39509193--39509225 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
39509183 CTAAAAAACC
39509193 TAAAACCCTAA-TAA
1 TAAAACCCTAATTAA
39509207 TAAAACCCTAATTAA
1 TAAAACCCTAATTAA
39509222 TAAA
1 TAAA
39509226 CTCTAAAAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.58, C:0.18, G:0.00, T:0.24
Consensus pattern (15 bp):
TAAAACCCTAATTAA
Found at i:39513762 original size:37 final size:37
Alignment explanation
Indices: 39513709--39513848 Score: 253
Period size: 37 Copynumber: 3.8 Consensus size: 37
39513699 CGAATAGTCC
* *
39513709 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
39513746 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
39513783 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
*
39513820 CCACACGTAGTCATCGAGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
39513849 ATATATTTCC
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 100 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
Found at i:39514075 original size:48 final size:48
Alignment explanation
Indices: 39514018--39514377 Score: 675
Period size: 48 Copynumber: 7.5 Consensus size: 48
39514008 CTAGCCGAAT
*
39514018 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCG
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
39514066 CATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
39514114 CACTAGCCATTCGGCTTTACCACGTATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
39514162 CACTAGCCATTCGGCTTTACCACGTATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
39514210 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
39514258 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
39514306 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
39514354 CATTAGCCATTCGGCTTTACCACA
1 CACTAGCCATTCGGCTTTACCACA
39514378 CACATATATA
Statistics
Matches: 306, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 306 1.00
ACGTcount: A:0.30, C:0.29, G:0.07, T:0.33
Consensus pattern (48 bp):
CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
Found at i:39517615 original size:29 final size:29
Alignment explanation
Indices: 39517556--39517688 Score: 155
Period size: 29 Copynumber: 4.7 Consensus size: 29
39517546 CTGACTGATT
* * *
39517556 TCGCACACATAGCG-CTCGATTATAGAAC
1 TCGCACACATAGTGCCTCAATTAAAGAAC
39517584 TCGCACACATAGTGCCTCAATTAAAGAAC
1 TCGCACACATAGTGCCTCAATTAAAGAAC
* *
39517613 TCGCACACATAGTGCCTCAATTACCA-ATC
1 TCGCACACATAGTGCCTCAATTA-AAGAAC
* * *
39517642 TCGCACACATAGCG-CTCGATTGAAGAAC
1 TCGCACACATAGTGCCTCAATTAAAGAAC
*
39517670 TTGCACACATAGTGCCTCA
1 TCGCACACATAGTGCCTCA
39517689 TAATTCCAGC
Statistics
Matches: 88, Mismatches: 13, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
27 1 0.01
28 33 0.38
29 53 0.60
30 1 0.01
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (29 bp):
TCGCACACATAGTGCCTCAATTAAAGAAC
Found at i:39517623 original size:57 final size:57
Alignment explanation
Indices: 39517556--39517688 Score: 153
Period size: 57 Copynumber: 2.3 Consensus size: 57
39517546 CTGACTGATT
* * *
39517556 TCGCACACATAGCG-CTCGATTA-TAGAACTCGCACACATAGTGCCTCAATTAAAGAAC
1 TCGCACACATAGCGCCTCAATTACCA-AACTCGCACACATAGCG-CTCAATTAAAGAAC
* * * *
39517613 TCGCACACATAGTGCCTCAATTACCAATCTCGCACACATAGCGCTCGATTGAAGAAC
1 TCGCACACATAGCGCCTCAATTACCAAACTCGCACACATAGCGCTCAATTAAAGAAC
* *
39517670 TTGCACACATAGTGCCTCA
1 TCGCACACATAGCGCCTCA
39517689 TAATTCCAGC
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
57 43 0.65
58 22 0.33
59 1 0.02
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (57 bp):
TCGCACACATAGCGCCTCAATTACCAAACTCGCACACATAGCGCTCAATTAAAGAAC
Found at i:39517762 original size:40 final size:40
Alignment explanation
Indices: 39517694--39517924 Score: 367
Period size: 40 Copynumber: 5.8 Consensus size: 40
39517684 CCTCATAATT
* * *
39517694 CCAGCACGAATGC-CTTCGAGGTC-TAGCCCGGATATATCA
1 CCAGCACGAATGCTCTTCG-GGACTTAGCCCGGACATAACA
* * * *
39517733 CTAGCACGAATGCTCTTCGGGACTTAGCCCGAATATATCA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAACA
*
39517773 CTAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAACA
39517813 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAACA
39517853 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAACA
39517893 CCAGCACGAATGCTCTTCGGGACTTAGCCCGG
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGG
39517925 CTATATAACT
Statistics
Matches: 183, Mismatches: 7, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
39 15 0.08
40 168 0.92
ACGTcount: A:0.26, C:0.31, G:0.23, T:0.20
Consensus pattern (40 bp):
CCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAACA
Found at i:39517765 original size:23 final size:23
Alignment explanation
Indices: 39517734--39517800 Score: 65
Period size: 23 Copynumber: 3.2 Consensus size: 23
39517724 GATATATCAC
39517734 TAGCACGAATGCTCTTCGGGACT
1 TAGCACGAATGCTCTTCGGGACT
* * *
39517757 TAGCCCGAAT-AT-ATC---AC-
1 TAGCACGAATGCTCTTCGGGACT
39517774 TAGCACGAATGCTCTTCGGGACT
1 TAGCACGAATGCTCTTCGGGACT
39517797 TAGC
1 TAGC
39517801 CCGGACATAA
Statistics
Matches: 32, Mismatches: 6, Indels: 12
0.64 0.12 0.24
Matches are distributed among these distances:
17 9 0.28
18 3 0.09
19 2 0.06
21 2 0.06
22 3 0.09
23 13 0.41
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (23 bp):
TAGCACGAATGCTCTTCGGGACT
Done.