Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008685.1 Hibiscus syriacus cultivar Beakdansim tig00111708_pilon, whole genome shotgun sequence
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: 3669133
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 17 of 19
Found at i:3180919 original size:19 final size:19
Alignment explanation
Indices: 3180895--3180959 Score: 55
Period size: 19 Copynumber: 3.4 Consensus size: 19
3180885 TCAACATTTT
3180895 AGAAGAAGGGTTCATAATG
1 AGAAGAAGGGTTCATAATG
* *
3180914 AGAAGAA---CTCATCCAACG
1 AGAAGAAGGGTTCAT--AATG
3180932 AGGAAGAAGGAGTTCATAATG
1 A-GAAGAAGG-GTTCATAATG
3180953 AGAAGAA
1 AGAAGAA
3180960 CTTGTTCGGA
Statistics
Matches: 35, Mismatches: 4, Indels: 13
0.67 0.08 0.25
Matches are distributed among these distances:
16 4 0.11
18 4 0.11
19 13 0.37
20 6 0.17
21 4 0.11
23 4 0.11
ACGTcount: A:0.46, C:0.11, G:0.28, T:0.15
Consensus pattern (19 bp):
AGAAGAAGGGTTCATAATG
Found at i:3180988 original size:116 final size:116
Alignment explanation
Indices: 3180783--3181041 Score: 378
Period size: 116 Copynumber: 2.2 Consensus size: 116
3180773 TATTTATGAG
* * * *
3180783 GAAGGGTTCGTGATGAGAAAAACTCTTCCAACGAGGAAGAAGAAGTTCATAATAAGAAGAACTTG
1 GAAGGGTTCATAATGAGAAGAACTCATCCAACGAGGAAGAAGAAGTTCATAATAAGAAGAACTTG
* * *
3180848 TTCGGAACTCAGTACATCCGTCACACAAGGAGATAGATCAAC-ATTTTAGAA
66 TTCGGAACTCAGCACATCCATCACACAAGGAGATAGA-CAACTATTTCAGAA
* *
3180899 GAAGGGTTCATAATGAGAAGAACTCATCCAACGAGGAAGAAGGAGTTCATAATGAGAAGAACTTG
1 GAAGGGTTCATAATGAGAAGAACTCATCCAACGAGGAAGAAGAAGTTCATAATAAGAAGAACTTG
*
3180964 TTCGGAACTC-GACACATCCATCACACAAGGAGATAGACCACTATTTCAGAA
66 TTCGGAACTCAG-CACATCCATCACACAAGGAGATAGACAACTATTTCAGAA
**
3181015 GAATAGTTCATAATGAGAAGAACTCAT
1 GAAGGGTTCATAATGAGAAGAACTCAT
3181042 TCGATGAAGG
Statistics
Matches: 129, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
115 4 0.03
116 125 0.97
ACGTcount: A:0.40, C:0.17, G:0.22, T:0.21
Consensus pattern (116 bp):
GAAGGGTTCATAATGAGAAGAACTCATCCAACGAGGAAGAAGAAGTTCATAATAAGAAGAACTTG
TTCGGAACTCAGCACATCCATCACACAAGGAGATAGACAACTATTTCAGAA
Found at i:3181436 original size:3 final size:3
Alignment explanation
Indices: 3181423--3181473 Score: 63
Period size: 3 Copynumber: 18.0 Consensus size: 3
3181413 ATTTATTTAT
* *
3181423 TTA TT- TTA TTA TTA TTA TTG TTA TTA TT- GTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
3181469 -TA TTA
1 TTA TTA
3181474 AAAAAATATC
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 5 0.12
3 36 0.88
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:3181446 original size:20 final size:20
Alignment explanation
Indices: 3181431--3181469 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3181421 ATTTATTTTA
*
3181431 TTATTATTATTGTTATTATT
1 TTATTATTATTATTATTATT
*
3181451 GTATTATTATTATTATTAT
1 TTATTATTATTATTATTAT
3181470 ATTAAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (20 bp):
TTATTATTATTATTATTATT
Found at i:3182935 original size:28 final size:30
Alignment explanation
Indices: 3182823--3182944 Score: 153
Period size: 30 Copynumber: 4.2 Consensus size: 30
3182813 CCCTATAGGA
* *
3182823 TTAGATTTTTCACATTTAGGTCCATAGACT
1 TTAGATTTTTTACACTTAGGTCCATAGACT
* *
3182853 TTAGATTTTTTACACATAGGT-CATAGAAT
1 TTAGATTTTTTACACTTAGGTCCATAGACT
*
3182882 TTAG-TTTTTTACACTTAGGTCCCCTAGACT
1 TTAGATTTTTTACACTTAGGT-CCATAGACT
*
3182912 TTAG-TTTTTTACACTTA-GTCCCTAGACT
1 TTAGATTTTTTACACTTAGGTCCATAGACT
3182940 TTAGA
1 TTAGA
3182945 GTTCTCACAT
Statistics
Matches: 82, Mismatches: 7, Indels: 7
0.85 0.07 0.07
Matches are distributed among these distances:
28 28 0.34
29 13 0.16
30 41 0.50
ACGTcount: A:0.26, C:0.17, G:0.13, T:0.43
Consensus pattern (30 bp):
TTAGATTTTTTACACTTAGGTCCATAGACT
Found at i:3190478 original size:14 final size:14
Alignment explanation
Indices: 3190460--3190494 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
3190450 AAAATGAATT
3190460 ACATTTTCT-GAAA
1 ACATTTTCTGGAAA
3190473 ATCATTTTCTGGAAA
1 A-CATTTTCTGGAAA
3190488 ACATTTT
1 ACATTTT
3190495 ATGATATTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 1 0.05
14 14 0.70
15 5 0.25
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.43
Consensus pattern (14 bp):
ACATTTTCTGGAAA
Found at i:3190640 original size:20 final size:20
Alignment explanation
Indices: 3190615--3190654 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
3190605 TAATATTATT
3190615 ATTTTTAAAATATTAAAATA
1 ATTTTTAAAATATTAAAATA
** *
3190635 ATTTTTTTATTATTAAAATA
1 ATTTTTAAAATATTAAAATA
3190655 TTATATTTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTTTTAAAATATTAAAATA
Found at i:3190663 original size:20 final size:20
Alignment explanation
Indices: 3190625--3190664 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
3190615 ATTTTTAAAA
*
3190625 TATTAAAATAATTTTTTTAT
1 TATTAAAATAATTTATTTAT
3190645 TATTAAAAT-ATTATATTTAT
1 TATTAAAATAATT-TATTTAT
3190665 AATTTTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TATTAAAATAATTTATTTAT
Found at i:3190682 original size:29 final size:28
Alignment explanation
Indices: 3190639--3190719 Score: 92
Period size: 29 Copynumber: 2.8 Consensus size: 28
3190629 AAAATAATTT
* *
3190639 TTTTATT-ATTAAAATATTATATTTATAA
1 TTTTATTAATAAAAATATTATATTGAT-A
*
3190667 TTTTATTAATAAAAATATTAATATTGGTA
1 TTTTATTAATAAAAATATT-ATATTGATA
3190696 TTTTATTGAAATAAAAATATTATA
1 TTTTATT--AATAAAAATATTATA
3190720 AATTATATTA
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
28 7 0.15
29 18 0.39
30 9 0.20
31 12 0.26
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.51
Consensus pattern (28 bp):
TTTTATTAATAAAAATATTATATTGATA
Found at i:3190852 original size:22 final size:23
Alignment explanation
Indices: 3190827--3190870 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
3190817 TTATATTAAT
3190827 ATTAAATATAAATAAT-ATATTC
1 ATTAAATATAAATAATAATATTC
** *
3190849 ATTATTTATAATTAATAATATT
1 ATTAAATATAAATAATAATATT
3190871 ATTTCTATGA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
ATTAAATATAAATAATAATATTC
Found at i:3191005 original size:22 final size:23
Alignment explanation
Indices: 3190977--3191023 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
3190967 TTGATTATTT
3190977 TATTATAATATTAAAAATA-TAA
1 TATTATAATATTAAAAATATTAA
* *
3190999 TATTATATTATTATAAATATTAA
1 TATTATAATATTAAAAATATTAA
3191022 TA
1 TA
3191024 AATATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
TATTATAATATTAAAAATATTAA
Found at i:3191028 original size:22 final size:21
Alignment explanation
Indices: 3190984--3191036 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
3190974 TTTTATTATA
* *
3190984 ATATTAAAAATATAATATTAT
1 ATATTATAAATATAATATAAT
3191005 ATTATTATAAATATTAATA-AAT
1 A-TATTATAAATA-TAATATAAT
*
3191027 ATATTTTAAA
1 ATATTATAAA
3191037 CATTTTAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 9 0.33
22 13 0.48
23 5 0.19
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
ATATTATAAATATAATATAAT
Found at i:3191053 original size:53 final size:52
Alignment explanation
Indices: 3190945--3191094 Score: 132
Period size: 53 Copynumber: 2.9 Consensus size: 52
3190935 ATAATATCCT
**
3190945 ATATTATATTATTATAATATAATTGATTATTTTATTATAATATTAAAAATATA
1 ATATTATATTATTATAATATAATAAATTATTTTA-TATAATATTAAAAATATA
* *
3190998 ATATTATATTATTATAAATATTAATAAATATATTTTA-A-ACATTTTAATAAT-TA
1 ATATTATATTATTAT-AATA-TAATAAAT-TATTTTATATA-ATATTAAAAATATA
* * * *
3191051 ATATT-T-TGATTAAAATGATATTAAAATATTTTAT-TAATATTAAA
1 ATATTATATTATTATAAT-ATAATAAATTATTTTATATAATATTAAA
3191095 TTCAAAAAAT
Statistics
Matches: 80, Mismatches: 10, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
49 13 0.16
50 10 0.12
51 6 0.08
52 1 0.01
53 23 0.29
54 14 0.17
55 6 0.08
56 7 0.09
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (52 bp):
ATATTATATTATTATAATATAATAAATTATTTTATATAATATTAAAAATATA
Found at i:3191101 original size:25 final size:25
Alignment explanation
Indices: 3191050--3191101 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
3191040 TTTAATAATT
*
3191050 AATATTTTGATTAAAATGATATTAA
1 AATATTTTGATTAAAATGAAATTAA
* *
3191075 AATATTTT-ATTAATATTAAATTCAA
1 AATATTTTGATTAAAATGAAATT-AA
3191100 AA
1 AA
3191102 AATAAAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 11 0.48
25 12 0.52
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (25 bp):
AATATTTTGATTAAAATGAAATTAA
Found at i:3191541 original size:33 final size:33
Alignment explanation
Indices: 3191498--3191570 Score: 119
Period size: 33 Copynumber: 2.2 Consensus size: 33
3191488 AAAGAAAGAA
* *
3191498 TAACTAGATTAATGACACAAAATGTGTTGAATG
1 TAACTTGATTAATGACACAAAATGGGTTGAATG
*
3191531 TAACTTGATTACTGACACAAAATGGGTTGAATG
1 TAACTTGATTAATGACACAAAATGGGTTGAATG
3191564 TAACTTG
1 TAACTTG
3191571 TTATTCAGAG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (33 bp):
TAACTTGATTAATGACACAAAATGGGTTGAATG
Found at i:3193542 original size:15 final size:15
Alignment explanation
Indices: 3193486--3193529 Score: 88
Period size: 15 Copynumber: 2.9 Consensus size: 15
3193476 AGAAGGGTTG
3193486 GCCATCTTCTTCGTT
1 GCCATCTTCTTCGTT
3193501 GCCATCTTCTTCGTT
1 GCCATCTTCTTCGTT
3193516 GCCATCTTCTTCGT
1 GCCATCTTCTTCGT
3193530 GGTCATCATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.07, C:0.34, G:0.14, T:0.45
Consensus pattern (15 bp):
GCCATCTTCTTCGTT
Found at i:3193542 original size:30 final size:30
Alignment explanation
Indices: 3193486--3193542 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
3193476 AGAAGGGTTG
* *
3193486 GCCATCTTCTTCGTTGCCATCTTCTTCGTT
1 GCCATCTTCTTCGTGGCCATCATCTTCGTT
*
3193516 GCCATCTTCTTCGTGGTCATCATCTTC
1 GCCATCTTCTTCGTGGCCATCATCTTC
3193543 AGCTTTTGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.09, C:0.33, G:0.14, T:0.44
Consensus pattern (30 bp):
GCCATCTTCTTCGTGGCCATCATCTTCGTT
Found at i:3197008 original size:2 final size:2
Alignment explanation
Indices: 3197001--3197047 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
3196991 AGAAAGATGA
3197001 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
3197043 AG AG A
1 AG AG A
3197048 CGAAAGCTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3198751 original size:12 final size:12
Alignment explanation
Indices: 3198736--3198764 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
3198726 GAATGACATA
3198736 TATATATATATT
1 TATATATATATT
3198748 TATATATATATT
1 TATATATATATT
3198760 TATAT
1 TATAT
3198765 TAATTATATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TATATATATATT
Found at i:3200842 original size:31 final size:33
Alignment explanation
Indices: 3200797--3200859 Score: 103
Period size: 31 Copynumber: 1.9 Consensus size: 33
3200787 AGGATGCGTG
3200797 TATGCTTATATTTACTGTTTAAG-GTGTATTAC
1 TATGCTTATATTTACTGTTTAAGAGTGTATTAC
3200829 TATGCTT-TATTTACTGTTTAAGACGTGTATT
1 TATGCTTATATTTACTGTTTAAGA-GTGTATT
3200860 TTTAACTTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
31 15 0.52
32 7 0.24
33 7 0.24
ACGTcount: A:0.24, C:0.10, G:0.16, T:0.51
Consensus pattern (33 bp):
TATGCTTATATTTACTGTTTAAGAGTGTATTAC
Found at i:3200933 original size:26 final size:27
Alignment explanation
Indices: 3200883--3200937 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 27
3200873 TTTGATATTC
*
3200883 TTAATGTCATGATTAATAGTTTGTTGT
1 TTAATGTAATGATTAATAGTTTGTTGT
* *
3200910 TTAATGTAATG-TTCATGGTTTGTTGT
1 TTAATGTAATGATTAATAGTTTGTTGT
3200936 TT
1 TT
3200938 TTATAGTCCA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 15 0.60
27 10 0.40
ACGTcount: A:0.22, C:0.04, G:0.20, T:0.55
Consensus pattern (27 bp):
TTAATGTAATGATTAATAGTTTGTTGT
Found at i:3202145 original size:19 final size:20
Alignment explanation
Indices: 3202123--3202164 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
3202113 ATGTAAAATT
3202123 GTGTATCGATAC-TGCTACA
1 GTGTATCGATACATGCTACA
3202142 GTGTATCGATACATTGCTACA
1 GTGTATCGATACA-TGCTACA
3202163 GT
1 GT
3202165 ATTTTCAGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 12 0.57
21 9 0.43
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.33
Consensus pattern (20 bp):
GTGTATCGATACATGCTACA
Found at i:3203121 original size:165 final size:162
Alignment explanation
Indices: 3202946--3203332 Score: 498
Period size: 165 Copynumber: 2.3 Consensus size: 162
3202936 CCATTCTATC
* *
3202946 CGAAATGAAAGACGCTTTTCGAGGGAAGCGTTTTCTATTATTATTCAGAGAATCTGTGCCATGTC
1 CGAAATGAAAGGCGCTTTTCG-GGGAAGCGTTTTCTATTATTATTCAGAGAATCTCTGCCATGTC
* **
3203011 A-AGTGTTGCAT-CCTAT-TCGAAATGAAAG-GCATGTTTTGGGGAAAGCGTTTTCCATTATTAT
65 AGAGTGTTCCATACC-ATCT-GAAATGAAAGAGCA--TTTCAGGGAAAGCG-TTTCCATTATTAT
3203072 TCAGAGAATCTCTGCCATGTTAGAGTGTTCCATCCCATT
125 TCAGAGAATCTCTGCCATGTTAGAGTGTTCCATCCCA-T
* * * *
3203111 CGAAATGAAAGGCACGTTTCGGGGAAAACGTTTT-TCATTATTATTAAGAGAATCTCTGCCATGT
1 CGAAATGAAAGGCGCTTTTCGGGG-AAGCGTTTTCT-ATTATTATTCAGAGAATCTCTGCCATGT
*
3203175 CAGAGTGTTCCATACCATCTGAAATGAAAGAAGCATTTCAGGGAAAGTGTTTCCATTATTATTCA
64 CAGAGTGTTCCATACCATCTGAAATGAAAG-AGCATTTCAGGGAAAGCGTTTCCATTATTATTCA
* *
3203240 TAGAATCTCTGCCATGTTAGAGTGTTTCATCCCAT
128 GAGAATCTCTGCCATGTTAGAGTGTTCCATCCCAT
*
3203275 CTGAAATGAAAGGCG-TGTTTCGGGGAAGGCGTTTTCCATTATTATTCAGAGAATCTCT
1 C-GAAATGAAAGGCGCT-TTTCGGGGAA-GCGTTTTCTATTATTATTCAGAGAATCTCT
3203333 TCCACTTCAC
Statistics
Matches: 194, Mismatches: 17, Indels: 22
0.83 0.07 0.09
Matches are distributed among these distances:
164 8 0.04
165 148 0.76
166 32 0.16
167 3 0.02
168 3 0.02
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.33
Consensus pattern (162 bp):
CGAAATGAAAGGCGCTTTTCGGGGAAGCGTTTTCTATTATTATTCAGAGAATCTCTGCCATGTCA
GAGTGTTCCATACCATCTGAAATGAAAGAGCATTTCAGGGAAAGCGTTTCCATTATTATTCAGAG
AATCTCTGCCATGTTAGAGTGTTCCATCCCAT
Found at i:3203143 original size:83 final size:82
Alignment explanation
Indices: 3202946--3203332 Score: 478
Period size: 83 Copynumber: 4.7 Consensus size: 82
3202936 CCATTCTATC
* * * * *
3202946 CGAAATGAAAGACGCTTTTCGAGGG-AAGCGTTTTCTATTATTATTCAGAGAATCTGTGCCATGT
1 CGAAATGAAAGGCACGTTTCG-GGGAAAGCGTTTTCCATTATTATTCAGAGAATCTCTGCCATGT
* *
3203010 CA-AGTGTTGCATCCTATT
65 CAGAGTGTTCCATCCCA-T
* * *
3203028 CGAAATGAAAGGCATGTTTTGGGGAAAGCGTTTTCCATTATTATTCAGAGAATCTCTGCCATGTT
1 CGAAATGAAAGGCACGTTTCGGGGAAAGCGTTTTCCATTATTATTCAGAGAATCTCTGCCATGTC
3203093 AGAGTGTTCCATCCCATT
66 AGAGTGTTCCATCCCA-T
* * *
3203111 CGAAATGAAAGGCACGTTTCGGGGAAAACGTTTTTCATTATTATTAAGAGAATCTCTGCCATGTC
1 CGAAATGAAAGGCACGTTTCGGGGAAAGCGTTTTCCATTATTATTCAGAGAATCTCTGCCATGTC
*
3203176 AGAGTGTTCCATACCAT
66 AGAGTGTTCCATCCCAT
* * *
3203193 CTGAAATGAAAGAAGCA--TTTCAGGGAAAGTG-TTTCCATTATTATTCATAGAATCTCTGCCAT
1 C-GAAATGAAAG--GCACGTTTCGGGGAAAGCGTTTTCCATTATTATTCAGAGAATCTCTGCCAT
* *
3203255 GTTAGAGTGTTTCATCCCAT
63 GTCAGAGTGTTCCATCCCAT
** *
3203275 CTGAAATGAAAGGCGTGTTTCGGGGAAGGCGTTTTCCATTATTATTCAGAGAATCTCT
1 C-GAAATGAAAGGCACGTTTCGGGGAAAGCGTTTTCCATTATTATTCAGAGAATCTCT
3203333 TCCACTTCAC
Statistics
Matches: 266, Mismatches: 31, Indels: 15
0.85 0.10 0.05
Matches are distributed among these distances:
80 2 0.01
81 3 0.01
82 124 0.47
83 134 0.50
85 3 0.01
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.33
Consensus pattern (82 bp):
CGAAATGAAAGGCACGTTTCGGGGAAAGCGTTTTCCATTATTATTCAGAGAATCTCTGCCATGTC
AGAGTGTTCCATCCCAT
Found at i:3204067 original size:176 final size:176
Alignment explanation
Indices: 3203773--3204123 Score: 639
Period size: 176 Copynumber: 2.0 Consensus size: 176
3203763 TATTATAGAA
* *
3203773 ATGTATTCCACTTTTGTTGACGCACATGCAGTTTTGGGTATGCCCTTCTCATCCCAATATGGATT
1 ATGTATTCCACTTTTATTGACACACATGCAGTTTTGGGTATGCCCTTCTCATCCCAATATGGATT
* * *
3203838 TTCTGAACCTATTGATCAAGTTGATAGTCTAACTTAAATAATATATAATGATTTCACGTTATTAA
66 GTATGAACCTATTGATCAAGTTGATAGTCTAACTTAAATAATATATAATGATTTCACGTCATTAA
3203903 TGGCTAAACCACCTCCTGTTAGCATTCCATCAAGTTACAGGGGAAG
131 TGGCTAAACCACCTCCTGTTAGCATTCCATCAAGTTACAGGGGAAG
*
3203949 ATGTATTCCACTTTTATTGACACACATGCAGTTTTGGGTATGCCCTTCTCATCCCACTATGGATT
1 ATGTATTCCACTTTTATTGACACACATGCAGTTTTGGGTATGCCCTTCTCATCCCAATATGGATT
3204014 GTATGAACCTATTGATCAAGTTGATAGTCTAACTTAAATAATATATAATGATTTCACGTCATTAA
66 GTATGAACCTATTGATCAAGTTGATAGTCTAACTTAAATAATATATAATGATTTCACGTCATTAA
*
3204079 TGGCTAAACCACCTCCTGTTAGCATTCCATCAAGTTCCAGGGGAA
131 TGGCTAAACCACCTCCTGTTAGCATTCCATCAAGTTACAGGGGAA
3204124 TTCATTCAAC
Statistics
Matches: 168, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
176 168 1.00
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.35
Consensus pattern (176 bp):
ATGTATTCCACTTTTATTGACACACATGCAGTTTTGGGTATGCCCTTCTCATCCCAATATGGATT
GTATGAACCTATTGATCAAGTTGATAGTCTAACTTAAATAATATATAATGATTTCACGTCATTAA
TGGCTAAACCACCTCCTGTTAGCATTCCATCAAGTTACAGGGGAAG
Found at i:3208999 original size:21 final size:21
Alignment explanation
Indices: 3208967--3209021 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
3208957 GATTTACATA
*
3208967 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
3208988 TTTGCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
3209009 TTCGCGTTGCGAT
1 TTCGCGTTGCGAT
3209022 TCGCATTGCG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.18, C:0.20, G:0.29, T:0.33
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:3209019 original size:42 final size:40
Alignment explanation
Indices: 3208967--3209166 Score: 164
Period size: 42 Copynumber: 5.0 Consensus size: 40
3208957 GATTTACATA
* * *
3208967 TTCGCATTGCGATAGTCCAAGTTTGCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAA-ATT-CGTTGCGATAGTCCAAG
*
3209009 TTCGCGTTGCGAT--TCGC--A----TTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTC-CAAATTCGTTGCGATAGTCCAAG
* * *
3209042 TTCGCGTTACGATAGTCGAAGTTCACGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAATT--CGTTGCGATAGTCCAAG
* * *
3209084 TTCGCGTTGTGATTTATTACAAATTCGTTGCGATAGTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAATTCGTTGCGATAGTCCAAG
*
3209126 TTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAA
1 TTCGCGTTGCGA--TAGTCCAAATTCGTTGCGATAGTCCAA
3209167 AATCGCAACG
Statistics
Matches: 131, Mismatches: 14, Indels: 26
0.77 0.08 0.15
Matches are distributed among these distances:
33 27 0.21
35 2 0.02
40 2 0.02
41 1 0.01
42 92 0.70
44 7 0.05
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (40 bp):
TTCGCGTTGCGATAGTCCAAATTCGTTGCGATAGTCCAAG
Found at i:3209049 original size:54 final size:54
Alignment explanation
Indices: 3208966--3209075 Score: 184
Period size: 54 Copynumber: 2.0 Consensus size: 54
3208956 CGATTTACAT
* * *
3208966 ATTCGCATTGCGATAGTCCAAGTTTGCGTTGCGATAGTCGAAGTTCGCGTTGCG
1 ATTCGCATTGCGATAGTCCAAGTTCGCGTTACGATAGTCGAAGTTCACGTTGCG
*
3209020 ATTCGCATTGCGATAGTCGAAGTTCGCGTTACGATAGTCGAAGTTCACGTTGCG
1 ATTCGCATTGCGATAGTCCAAGTTCGCGTTACGATAGTCGAAGTTCACGTTGCG
3209074 AT
1 AT
3209076 AGTCCAAGTT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (54 bp):
ATTCGCATTGCGATAGTCCAAGTTCGCGTTACGATAGTCGAAGTTCACGTTGCG
Found at i:3209054 original size:21 final size:21
Alignment explanation
Indices: 3209021--3209138 Score: 116
Period size: 21 Copynumber: 5.6 Consensus size: 21
3209011 CGCGTTGCGA
*
3209021 TTCGCATTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCGAAG
*
3209042 TTCGCGTTACGATAGTCGAAG
1 TTCGCGTTGCGATAGTCGAAG
* *
3209063 TTCACGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCGAAG
* * *
3209084 TTCGCGTTGTGATTTATTAC-AAA
1 TTCGCGTTGCGA--TAGT-CGAAG
*
3209107 TT--CGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCGAAG
3209126 TTCGCGTTGCGAT
1 TTCGCGTTGCGAT
3209139 TTATTCCAAA
Statistics
Matches: 79, Mismatches: 12, Indels: 12
0.77 0.12 0.12
Matches are distributed among these distances:
18 1 0.01
19 7 0.09
21 63 0.80
23 7 0.09
24 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.33
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCGAAG
Found at i:3209154 original size:21 final size:21
Alignment explanation
Indices: 3209088--3209159 Score: 76
Period size: 21 Copynumber: 3.4 Consensus size: 21
3209078 TCCAAGTTCG
* *
3209088 CGTTGTGATTTATTACAAATT
1 CGTTGCGATTTATTCCAAATT
* *
3209109 CGTTGCGA--TAGTCCAAGTT
1 CGTTGCGATTTATTCCAAATT
3209128 CGCGTTGCGATTTATTCCAAATT
1 --CGTTGCGATTTATTCCAAATT
3209151 CGTTGCGAT
1 CGTTGCGAT
3209160 AGTCCAAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
19 8 0.20
21 24 0.59
23 9 0.22
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.39
Consensus pattern (21 bp):
CGTTGCGATTTATTCCAAATT
Found at i:3209167 original size:19 final size:19
Alignment explanation
Indices: 3209103--3209167 Score: 76
Period size: 21 Copynumber: 3.2 Consensus size: 19
3209093 TGATTTATTA
3209103 CAAATTCGTTGCGATAGTC
1 CAAATTCGTTGCGATAGTC
* *
3209122 CAAGTTCGCGTTGCGATTTATTC
1 CAAATT--CGTTGCGA--TAGTC
3209145 CAAATTCGTTGCGATAGTC
1 CAAATTCGTTGCGATAGTC
3209164 CAAA
1 CAAA
3209168 ATCGCAACGA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
19 13 0.34
21 16 0.42
23 9 0.24
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (19 bp):
CAAATTCGTTGCGATAGTC
Found at i:3209267 original size:6 final size:6
Alignment explanation
Indices: 3209256--3209286 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
3209246 GACACGTATT
3209256 ACCACG ACCACG ACCACG ACCACG ACCACG A
1 ACCACG ACCACG ACCACG ACCACG ACCACG A
3209287 AAGAACCGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.35, C:0.48, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:3210457 original size:21 final size:21
Alignment explanation
Indices: 3210045--3210471 Score: 364
Period size: 21 Copynumber: 20.4 Consensus size: 21
3210035 CGTTGCGATT
*
3210045 TTGGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
3210064 TTGGACTAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
* *
3210087 TTCGACTATCGCAA--TGAAC
1 TTGGACTATCGCAACGCGAAC
*
3210106 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
** * *
3210129 TTCTACTATCGCAA--TGTAC
1 TTGGACTATCGCAACGCGAAC
*
3210148 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
*
3210171 TTCGACTATCGCAA--CGAAC
1 TTGGACTATCGCAACGCGAAC
*
3210190 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
*
3210213 TTTGACTATCGCAACGCGAAC
1 TTGGACTATCGCAACGCGAAC
* *
3210234 TTGGACTATTGTAACGCGAAC
1 TTGGACTATCGCAACGCGAAC
3210255 TTGGACTATCGCAACGCGAAC
1 TTGGACTATCGCAACGCGAAC
* *
3210276 TTCGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
*
3210295 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
3210318 TTGGACTATCGCAA--CGAAC
1 TTGGACTATCGCAACGCGAAC
*
3210337 TTGGACTATCGCAACGTGAAC
1 TTGGACTATCGCAACGCGAAC
*
3210358 TTGGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
*
3210377 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
*
3210400 TTGGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
* * *
3210419 TTGGAATAAATCACAACGCGAAT
1 TTGGACT--ATCGCAACGCGAAC
** *
3210442 TTGGAAAATCGCAACGCAAAC
1 TTGGACTATCGCAACGCGAAC
*
3210463 TTCGACTAT
1 TTGGACTAT
3210472 GAACTTGGAC
Statistics
Matches: 329, Mismatches: 49, Indels: 58
0.75 0.11 0.13
Matches are distributed among these distances:
19 80 0.24
21 182 0.55
23 67 0.20
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (21 bp):
TTGGACTATCGCAACGCGAAC
Found at i:3212172 original size:20 final size:20
Alignment explanation
Indices: 3212147--3212189 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
3212137 CATTTGAAAT
*
3212147 ATTTTCATAAACTTTTTGAA
1 ATTTTCATAAACTTTATGAA
3212167 ATTTTCATAAACTTTATGAA
1 ATTTTCATAAACTTTATGAA
3212187 ATT
1 ATT
3212190 GATTTTACGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.09, G:0.05, T:0.49
Consensus pattern (20 bp):
ATTTTCATAAACTTTATGAA
Found at i:3213202 original size:18 final size:18
Alignment explanation
Indices: 3213179--3213213 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
3213169 TTTAAAAGTC
3213179 ATGTTATATCTATGACTT
1 ATGTTATATCTATGACTT
3213197 ATGTTATATCTATGACT
1 ATGTTATATCTATGACT
3213214 CTGGGGACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.49
Consensus pattern (18 bp):
ATGTTATATCTATGACTT
Found at i:3215019 original size:175 final size:176
Alignment explanation
Indices: 3214583--3215209 Score: 631
Period size: 177 Copynumber: 3.6 Consensus size: 176
3214573 ATACAAATGA
* * * * *
3214583 AAAATGTATCGCTCCATAGCAATATAACAGGTAAAAATATGATGAAACCGGTTTC-ATTATGATA
1 AAAATGTATCGATCCATAGCAATATAACAGGTAAAAATATGA-CAAAACGGTCTCGA-AATGATA
* * * *
3214647 AAACGGT--AAA-CCACTGGATATATCGAAAGTATCGATTAGCTTTAA-ATAAGTATCGACACTT
64 AAACGGTAAAAAGCTAC-GGATATATTGAAAGTGTCGA-TA-CATTAATATAAGTATCGACACTT
* * *
3214708 TTGGAATTTAAAGAGAAGAAGTAATAGTGCCTATAAAGTGTTGATACTTTAT
126 TT-GAATTTAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAT
* * * * * * * *
3214760 AAAACGTTTCGATCCATAAC-A-AT-ACA-GTATAAGTATTACAAAATCGATCACGAAATGATAA
1 AAAATGTATCGATCCATAGCAATATAACAGGTAAAAATATGACAAAA-CGGTCTCGAAATGATAA
* *
3214821 AACCGGTAAAGAGCTACCGGATATATTGAAAGTGTCGATACGTTAATATAAGT-TCGACACTTTT
65 AA-CGGTAAAAAGCTA-CGGATATATTGAAAGTGTCGATACATTAATATAAGTATCGACACTTTT
3214885 GAATTTAAA-AG-AGAA-TTATAGCGCCTATAAAGTGTCGATACTTTAT
128 GAATTTAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAT
*
3214931 ACAAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACAGGTCTCGAAATGATA
1 A-AAATGTATCGATCCATAGCAATATAACAGGTAAAAATATGACAAAAC-GGTCTCGAAATGATA
* * * *
3214996 AAACTGTAAAAAGCTATCGGATATATTGAAA--GTCGATAAATTAATATAAGTATCGACAATTTC
64 AAACGGTAAAAAGCTA-CGGATATATTGAAAGTGTCGATACATTAATATAAGTATCGACACTTTT
*
3215059 GTAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGAT-CTTTAT
128 G-AATTT-AAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAT
* * * * * *
3215109 GAAAATGTATCGATCCATA-CAATATAATAGGTAAAAATATGTCAAACCGATATCGAAATGACAA
1 -AAAATGTATCGATCCATAGCAATATAACAGGTAAAAATATGACAAAACGGTCTCGAAATGATAA
** * * *
3215173 AACCGGTAAAGCGCTACCGGTTATGTTGAATGTGTCG
65 AA-CGGTAAAAAGCTA-CGGATATATTGAAAGTGTCG
3215210 GCTTTAATAA
Statistics
Matches: 374, Mismatches: 52, Indels: 46
0.79 0.11 0.10
Matches are distributed among these distances:
171 29 0.08
172 23 0.06
173 43 0.11
174 29 0.08
175 52 0.14
176 58 0.16
177 84 0.22
178 28 0.07
179 28 0.07
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (176 bp):
AAAATGTATCGATCCATAGCAATATAACAGGTAAAAATATGACAAAACGGTCTCGAAATGATAAA
ACGGTAAAAAGCTACGGATATATTGAAAGTGTCGATACATTAATATAAGTATCGACACTTTTGAA
TTTAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAT
Found at i:3217463 original size:95 final size:89
Alignment explanation
Indices: 3217292--3217475 Score: 314
Period size: 95 Copynumber: 2.0 Consensus size: 89
3217282 AATTTTGAAG
3217292 TTATTTTCAAGGACGTAGAGGAGGTATAGGCAGAGGAAGATGGTTGGGGGGGATGACGGTCAGGA
1 TTATTTTCAAGGACGTAGAGGAGGTATAGGCAGAGGAAGATGGTTGGGGGGGATGACGGTCAGGA
3217357 AAAATAGAGTAAATTCAACATTTT
66 AAAATAGAGTAAATTCAACATTTT
3217381 TTATTTTCAAGGACGTAGAGGAGGTATGAGGCAGAGGAAGAGATGGTTGGAGGGGCGGATGACGG
1 TTATTTTCAAGGACGTAGAGGAGGTAT-AGGCAGAGG-A-AGATGGTT-G-GGGG-GGATGACGG
3217446 TCAGGAAAAATAGAGTAAATTCAACATTTT
60 TCAGGAAAAATAGAGTAAATTCAACATTTT
3217476 ATGTTTGAAT
Statistics
Matches: 89, Mismatches: 0, Indels: 6
0.94 0.00 0.06
Matches are distributed among these distances:
89 27 0.30
90 9 0.10
91 1 0.01
92 8 0.09
93 1 0.01
94 4 0.04
95 39 0.44
ACGTcount: A:0.34, C:0.08, G:0.34, T:0.24
Consensus pattern (89 bp):
TTATTTTCAAGGACGTAGAGGAGGTATAGGCAGAGGAAGATGGTTGGGGGGGATGACGGTCAGGA
AAAATAGAGTAAATTCAACATTTT
Found at i:3217844 original size:18 final size:18
Alignment explanation
Indices: 3217809--3217844 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
3217799 AAATTTGAAG
*
3217809 AAGAAAAGATGGACGAAA
1 AAGAAAAGATAGACGAAA
*
3217827 AAGAAAAGATAGAGGAAA
1 AAGAAAAGATAGACGAAA
3217845 TGAGGAGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.64, C:0.03, G:0.28, T:0.06
Consensus pattern (18 bp):
AAGAAAAGATAGACGAAA
Found at i:3218164 original size:17 final size:17
Alignment explanation
Indices: 3218142--3218177 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
3218132 TTTAAATATT
3218142 TCATGAAAAGATATTAA
1 TCATGAAAAGATATTAA
3218159 TCATGAAAAGATATTAA
1 TCATGAAAAGATATTAA
3218176 TC
1 TC
3218178 CTAATGATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.50, C:0.08, G:0.11, T:0.31
Consensus pattern (17 bp):
TCATGAAAAGATATTAA
Found at i:3220635 original size:29 final size:29
Alignment explanation
Indices: 3220593--3220662 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 29
3220583 GTTGAACATT
* * *
3220593 TTACACAAATAGCACCCTTTTTAAAATAA
1 TTACAAAAATAGCACCCATTTCAAAATAA
*
3220622 TTACAAAAATAGCACCCATTTCGAAATAA
1 TTACAAAAATAGCACCCATTTCAAAATAA
*
3220651 TTACCAAAATAG
1 TTACAAAAATAG
3220663 TAAAAAACGA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.47, C:0.20, G:0.06, T:0.27
Consensus pattern (29 bp):
TTACAAAAATAGCACCCATTTCAAAATAA
Found at i:3220741 original size:58 final size:55
Alignment explanation
Indices: 3220651--3220775 Score: 187
Period size: 57 Copynumber: 2.2 Consensus size: 55
3220641 TTCGAAATAA
*
3220651 TTACCAAAATAGTAAAAAACGAATTATTTACCAGAATATCACTAAAACTGAATTAT
1 TTACCAAAATAGTAAAAAACGAATTATTTACCAGAATAACAC-AAAACTGAATTAT
* *
3220707 TTACCAGAATAGTACCAAAACTGAATTATTTACCAGAATAACACAAAACTGAATTAT
1 TTACCAAAATAGTA-AAAAAC-GAATTATTTACCAGAATAACACAAAACTGAATTAT
*
3220764 TTATCAAAATAG
1 TTACCAAAATAG
3220776 CATCGGTCAA
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
56 13 0.21
57 28 0.45
58 21 0.34
ACGTcount: A:0.49, C:0.15, G:0.08, T:0.28
Consensus pattern (55 bp):
TTACCAAAATAGTAAAAAACGAATTATTTACCAGAATAACACAAAACTGAATTAT
Found at i:3220774 original size:28 final size:28
Alignment explanation
Indices: 3220666--3220766 Score: 152
Period size: 29 Copynumber: 3.6 Consensus size: 28
3220656 AAAATAGTAA
*
3220666 AAAAC-GAATTATTTACCAGAATATCAC
1 AAAACTGAATTATTTACCAGAATAACAC
3220693 TAAAACTGAATTATTTACCAGAATAGTAC-C
1 -AAAACTGAATTATTTACCAGAATA--ACAC
3220723 AAAACTGAATTATTTACCAGAATAACAC
1 AAAACTGAATTATTTACCAGAATAACAC
3220751 AAAACTGAATTATTTA
1 AAAACTGAATTATTTA
3220767 TCAAAATAGC
Statistics
Matches: 68, Mismatches: 1, Indels: 8
0.88 0.01 0.10
Matches are distributed among these distances:
27 2 0.03
28 22 0.32
29 42 0.62
30 1 0.01
31 1 0.01
ACGTcount: A:0.48, C:0.16, G:0.08, T:0.29
Consensus pattern (28 bp):
AAAACTGAATTATTTACCAGAATAACAC
Found at i:3220807 original size:24 final size:24
Alignment explanation
Indices: 3220780--3220859 Score: 110
Period size: 24 Copynumber: 3.4 Consensus size: 24
3220770 AAATAGCATC
3220780 GGTCAACGGTCAACGGTCGGGTCG
1 GGTCAACGGTCAACGGTCGGGTCG
* *
3220804 GGTCAACGGTCAACGGTCGAGCCG
1 GGTCAACGGTCAACGGTCGGGTCG
*
3220828 GGTCAACGGGTC--GGGTCGGGTCG
1 GGTCAAC-GGTCAACGGTCGGGTCG
3220851 GGTCAACGG
1 GGTCAACGG
3220860 GTCGGGTCGT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
22 2 0.04
23 15 0.30
24 29 0.58
25 4 0.08
ACGTcount: A:0.16, C:0.25, G:0.44, T:0.15
Consensus pattern (24 bp):
GGTCAACGGTCAACGGTCGGGTCG
Found at i:3220860 original size:23 final size:23
Alignment explanation
Indices: 3220794--3220868 Score: 98
Period size: 23 Copynumber: 3.2 Consensus size: 23
3220784 AACGGTCAAC
*
3220794 GGTCGGGTCGGGTCAAC-GGTCAAC
1 GGTCGGGTCGGGTCAACGGGTC--G
* *
3220818 GGTCGAGCCGGGTCAACGGGTCG
1 GGTCGGGTCGGGTCAACGGGTCG
3220841 GGTCGGGTCGGGTCAACGGGTCG
1 GGTCGGGTCGGGTCAACGGGTCG
3220864 GGTCG
1 GGTCG
3220869 TGACCGGTCA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
23 26 0.58
24 15 0.33
25 4 0.09
ACGTcount: A:0.12, C:0.24, G:0.48, T:0.16
Consensus pattern (23 bp):
GGTCGGGTCGGGTCAACGGGTCG
Found at i:3220877 original size:23 final size:23
Alignment explanation
Indices: 3220828--3220879 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
3220818 GGTCGAGCCG
* *
3220828 GGTCAACGGGTCGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCGGGACC
*
3220851 GGTCAACGGGTCGGGTCGTGACC
1 GGTCAACGGGTCGGGTCGGGACC
3220874 GGTCAA
1 GGTCAA
3220880 ACCCTTAAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.13, C:0.23, G:0.46, T:0.17
Consensus pattern (23 bp):
GGTCAACGGGTCGGGTCGGGACC
Found at i:3227979 original size:21 final size:21
Alignment explanation
Indices: 3227953--3227997 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
3227943 GATTTCTGGG
* *
3227953 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
3227974 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
3227995 CAA
1 CAA
3227998 ACGACAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:3228876 original size:31 final size:31
Alignment explanation
Indices: 3228838--3228993 Score: 242
Period size: 31 Copynumber: 5.0 Consensus size: 31
3228828 AGGGTCGAGG
*
3228838 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
*
3228869 GTTTACCTATGTTCTTCTGAACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
3228900 GTTTACCTATGTTCTTCGGAACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
* *
3228931 GTTTACCTATGTCCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
* *
3228962 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGAA-CATATGGACT
3228993 G
1 G
3228994 GTCCTTCGGG
Statistics
Matches: 115, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
31 114 0.99
32 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.38
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGAACATATGGACT
Found at i:3232165 original size:21 final size:21
Alignment explanation
Indices: 3232139--3232183 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
3232129 GATTTCTGGG
* *
3232139 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
3232160 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
3232181 CAA
1 CAA
3232184 ACGACAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:3233062 original size:31 final size:31
Alignment explanation
Indices: 3233024--3233179 Score: 242
Period size: 31 Copynumber: 5.0 Consensus size: 31
3233014 AGGGTCGAGG
*
3233024 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
*
3233055 GTTTACCTATGTTCTTCTGAACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
3233086 GTTTACCTATGTTCTTCGGAACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
* *
3233117 GTTTACCTATGTCCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
* *
3233148 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGAA-CATATGGACT
3233179 G
1 G
3233180 GTCCTTCGGG
Statistics
Matches: 115, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
31 114 0.99
32 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.38
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGAACATATGGACT
Found at i:3234451 original size:12 final size:10
Alignment explanation
Indices: 3234420--3234453 Score: 50
Period size: 10 Copynumber: 3.2 Consensus size: 10
3234410 ATCGTTTAAT
3234420 AGTCGGTCAA
1 AGTCGGTCAA
3234430 AGTCGGTCAA
1 AGTCGGTCAA
3234440 AGTTCTGGTCAA
1 AG-TC-GGTCAA
3234452 AG
1 AG
3234454 GAGGTCAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 12 0.55
11 2 0.09
12 8 0.36
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (10 bp):
AGTCGGTCAA
Found at i:3234596 original size:29 final size:29
Alignment explanation
Indices: 3234528--3234640 Score: 154
Period size: 29 Copynumber: 3.8 Consensus size: 29
3234518 GAACCCATTT
* *
3234528 CGAATTAATTACCAGAATAGCACAAAAAAAC
1 CGAATTATTTACCAGAATAGCAC--CAAAAC
*
3234559 CAAATTATTTACCAGAATAGCACCAAAAC
1 CGAATTATTTACCAGAATAGCACCAAAAC
*
3234588 TGAATTATTTACCAGAATAGCACCAAAAC
1 CGAATTATTTACCAGAATAGCACCAAAAC
* *
3234617 CGAATTGTTTACCAAAATAGCACC
1 CGAATTATTTACCAGAATAGCACC
3234641 GGTCAACGGT
Statistics
Matches: 74, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
29 53 0.72
31 21 0.28
ACGTcount: A:0.47, C:0.22, G:0.10, T:0.21
Consensus pattern (29 bp):
CGAATTATTTACCAGAATAGCACCAAAAC
Found at i:3234671 original size:18 final size:17
Alignment explanation
Indices: 3234641--3234723 Score: 93
Period size: 18 Copynumber: 5.0 Consensus size: 17
3234631 AAATAGCACC
*
3234641 GGTCAACGGTCGGATCG
1 GGTCAACGGTCGGGTCG
3234658 GGTCAA----CGGGTCG
1 GGTCAACGGTCGGGTCG
*
3234671 GGTCAACGGTCGGGCCG
1 GGTCAACGGTCGGGTCG
*
3234688 GGTTAACGGGTCGGGTCG
1 GGTCAAC-GGTCGGGTCG
3234706 GGTCAACGGGTCGGGTCG
1 GGTCAAC-GGTCGGGTCG
3234724 TGACCGATCA
Statistics
Matches: 56, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
13 12 0.21
17 18 0.32
18 26 0.46
ACGTcount: A:0.13, C:0.23, G:0.47, T:0.17
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:3234677 original size:30 final size:30
Alignment explanation
Indices: 3234641--3234704 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
3234631 AAATAGCACC
*
3234641 GGTCAACGGTCGGATCGGGTCAACGGGTCG
1 GGTCAACGGTCGGACCGGGTCAACGGGTCG
* *
3234671 GGTCAACGGTCGGGCCGGGTTAACGGGTCG
1 GGTCAACGGTCGGACCGGGTCAACGGGTCG
3234701 GGTC
1 GGTC
3234705 GGGTCAACGG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.14, C:0.23, G:0.45, T:0.17
Consensus pattern (30 bp):
GGTCAACGGTCGGACCGGGTCAACGGGTCG
Found at i:3234683 original size:12 final size:13
Alignment explanation
Indices: 3234655--3234722 Score: 60
Period size: 13 Copynumber: 5.5 Consensus size: 13
3234645 AACGGTCGGA
3234655 TCGGGTCAACGGG
1 TCGGGTCAACGGG
3234668 TCGGGTCAAC-GG
1 TCGGGTCAACGGG
3234680 TCGGG-C--CGGG
1 TCGGGTCAACGGG
3234690 TTAACGGGT---CGGG
1 -T--CGGGTCAACGGG
3234703 TCGGGTCAACGGG
1 TCGGGTCAACGGG
3234716 TCGGGTC
1 TCGGGTC
3234723 GTGACCGATC
Statistics
Matches: 47, Mismatches: 0, Indels: 16
0.75 0.00 0.25
Matches are distributed among these distances:
9 1 0.02
10 7 0.15
11 2 0.04
12 8 0.17
13 29 0.62
ACGTcount: A:0.12, C:0.24, G:0.47, T:0.18
Consensus pattern (13 bp):
TCGGGTCAACGGG
Found at i:3235509 original size:19 final size:19
Alignment explanation
Indices: 3235481--3235529 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
3235471 GTTGTTACAG
3235481 TTAA-TTTGTATAAGATTT
1 TTAATTTTGTATAAGATTT
*
3235499 TTAATTTTGTATACGATTT
1 TTAATTTTGTATAAGATTT
*
3235518 ATAATTTTGTAT
1 TTAATTTTGTAT
3235530 GTGAATGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
18 4 0.14
19 24 0.86
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TTAATTTTGTATAAGATTT
Found at i:3236376 original size:198 final size:196
Alignment explanation
Indices: 3235861--3236819 Score: 1535
Period size: 198 Copynumber: 4.9 Consensus size: 196
3235851 TGGTAAACAT
3235861 ATGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAGACCCATAATTATAATGTAA
1 ATGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAGACCCATAATTATAATGTAA
3235926 TAGGTAAATTATGAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATAAAG
66 TAGGTAAATTATGAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATAAAG
3235991 TATCGACACTTGTTGAATTTGTGTCGATACTTTGTGTCCAGAATGATTTCCTTACCAA-GTGC--
131 TATCGACACTTGTTGAATTTGTGTCGATACTTTGTGTCCAGAATGATTTCCTTACCAAGGT-CAA
3236053 --
195 TA
*
3236053 A--TGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCAAGACCCATAATTATAATGTAA
1 ATGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAGACCCATAATTATAATGTAA
3236116 TAGGTAAATTATGAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATAAAG
66 TAGGTAAATTATGAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATAAAG
*
3236181 TATCAACACTTGTTGAATTTGTGTCGATACTTTGTGTCCAGAATGATTTCCTTACCAA-GTGC-A
131 TATCGACACTTGTTGAATTTGTGTCGATACTTTGTGTCCAGAATGATTTCCTTACCAAGGT-CAA
3236244 TGGAA
195 T---A
* * *
3236249 ATGTGTCGATACATTTATAACAAGTATAGATCCCAAAAACATCGAGACCCATAATTATAATTTAA
1 ATGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAGACCCATAATTATAATGTAA
* * *
3236314 TAGGTAAATTATGAATCTAATCGGTCTAAATACACCGGTTTATGAGAAAACAAGTATACATAAAG
66 TAGGTAAATTATGAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATAAAG
*
3236379 TATCGACACTTGTTGAATTTGTGTCGATACTTTGTGTCCATAATGATTTCCTTACCAAGGTCACC
131 TATCGACACTTGTTGAATTTGTGTCGATACTTTGTGTCCAGAATGATTTCCTTACCAAGGTCA--
3236444 ATA
194 ATA
* *
3236447 ATGTGTCAATACATTTATAAAAAGTATTGATCCCAAAAACATCGAGACCCATAATTATAATGTAA
1 ATGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAGACCCATAATTATAATGTAA
* ** *
3236512 TAGGTAAATTATCAATCTAACCGGTCTAAATATGCCGGTTTATGAGAAAATAGGTGTACATAAAG
66 TAGGTAAATTATGAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATAAAG
* * *
3236577 TATCGACACTTGTTTAATTTGTGTCAATACTTTGTGTCCAGAATAATTTCCTTACCAAGGTCACT
131 TATCGACACTTGTTGAATTTGTGTCGATACTTTGTGTCCAGAATGATTTCCTTACCAAGGTCA--
3236642 ATA
194 ATA
*
3236645 ATGTGTCGATACATTTATAAAAAGTATCGATCCCAAAACCATCGAGACCCATAATTATAATGTAA
1 ATGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAGACCCATAATTATAATGTAA
* * *
3236710 TAGGTAAAGTATGAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACAGGTATGCATAAAG
66 TAGGTAAATTATGAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATAAAG
*
3236775 TATCGACACTCT-TTGAATTTATGTCGATACATTT-TGTCCAGAATG
131 TATCGACACT-TGTTGAATTTGTGTCGATAC-TTTGTGTCCAGAATG
3236820 TAAATGGTCA
Statistics
Matches: 712, Mismatches: 41, Indels: 22
0.92 0.05 0.03
Matches are distributed among these distances:
190 187 0.26
192 1 0.00
196 1 0.00
198 515 0.72
199 6 0.01
201 2 0.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (196 bp):
ATGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAGACCCATAATTATAATGTAA
TAGGTAAATTATGAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATAAAG
TATCGACACTTGTTGAATTTGTGTCGATACTTTGTGTCCAGAATGATTTCCTTACCAAGGTCAAT
A
Found at i:3236978 original size:396 final size:389
Alignment explanation
Indices: 3235861--3237002 Score: 1482
Period size: 396 Copynumber: 2.9 Consensus size: 389
3235851 TGGTAAACAT
3235861 ATGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAGACCCATAATTATAATGTAA
1 ATGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAGACCCATAATTATAATGTAA
*
3235926 TAGGTAAATTATGAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATAAAG
66 TAGGTAAATTATGAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACAGGTATACATAAAG
* ** * ****
3235991 TATCGACACTTGTTGAATTTGTGTCGATACTTTGTGTCCAGAATG-ATTTC-CTTAC-CAAGTGC
131 TATCGACACTTGTTGAATTTGTGTCGATACTTTGTGTCCAGAATGAATCTCAAATGCACAAAAAA
* *
3236053 ATGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCAAGACCCATAATTATAATGTAATA
196 ATGTCAATACATTTATAAAAAGTATCGATCCCAAAAACATGAA-ACCCATAATTATAATGTAATA
* *
3236118 GGTAAATTATGAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATAAAGTA
260 GGTAAATTATCAATCTAACCGGTCTAAATATACCGGTTTATGAGAAAACAGGTGTACATAAAGTA
* * *
3236183 TCAACACTTGTTGAATTTGTGTCGATACTTTGTGTCCAGAATGATTTCCTTACCAAGTGCATGGA
325 TCGACACTTGTTAAATTTGTGTCGATACTTTGTGTCCAGAATAATTTCCTTACCAAGTGCAT-GA
3236248 A
389 A
* * *
3236249 ATGTGTCGATACATTTATAACAAGTATAGATCCCAAAAACATCGAGACCCATAATTATAATTTAA
1 ATGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAGACCCATAATTATAATGTAA
* *
3236314 TAGGTAAATTATGAATCTAATCGGTCTAAATACACCGGTTTATGAGAAAACAAGTATACATAAAG
66 TAGGTAAATTATGAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACAGGTATACATAAAG
* * * * *
3236379 TATCGACACTTGTTGAATTTGTGTCGATACTTTGTGTCCATAATGATTTCCTTACCAAGGTCACC
131 TATCGACACTTGTTGAATTTGTGTCGATACTTTGTGTCCAGAATGA-AT-C-T-CAAATG-CACA
* ** * *
3236444 ATAATGTGTCAATACATTTATAAAAAGTATTGATCCCAAAAACATCGAGACCCATAATTATAATG
191 AAAAAATGTCAATACATTTATAAAAAGTATCGATCCCAAAAACAT-GAAACCCATAATTATAATG
* *
3236509 TAATAGGTAAATTATCAATCTAACCGGTCTAAATATGCCGGTTTATGAGAAAATAGGTGTACATA
255 TAATAGGTAAATTATCAATCTAACCGGTCTAAATATACCGGTTTATGAGAAAACAGGTGTACATA
* *
3236574 AAGTATCGACACTTGTTTAATTTGTGTCAATACTTTGTGTCCAGAATAATTTCCTTACCAAG-GT
320 AAGTATCGACACTTGTTAAATTTGTGTCGATACTTTGTGTCCAGAATAATTTCCTTACCAAGTG-
3236638 CACT-ATA
384 CA-TGA-A
*
3236645 ATGTGTCGATACATTTATAAAAAGTATCGATCCCAAAACCATCGAGACCCATAATTATAATGTAA
1 ATGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAGACCCATAATTATAATGTAA
* *
3236710 TAGGTAAAGTATGAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACAGGTATGCATAAAG
66 TAGGTAAATTATGAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACAGGTATACATAAAG
* *
3236775 TATCGACACTCT-TTGAATTTATGTCGATACATTT-TGTCCAGAATGTAAATGGTCAAAAAATGC
131 TATCGACACT-TGTTGAATTTGTGTCGATAC-TTTGTGTCCAGAATG--AAT-CTC---AAATGC
* * **
3236838 ACAAAAAAATGTTAATACATTTATAAAAAGTATCGAT-CCTAAAACAATGAAATTCATAATT-TG
188 ACAAAAAAATGTCAATACATTTATAAAAAGTATCGATCCCAAAAAC-ATGAAACCCATAATTAT-
* * * * ** **
3236901 AATGTAATAGGT-CATTTTACAATGTAACCGGTATAAATATACCTATTTTATTTG-AAACAGGT-
251 AATGTAATAGGTAAATTAT-CAATCTAACCGGTCTAAATATACC-GGTTTATGAGAAAACAGGTG
* *
3236963 CACTATAATGTATCGACACATT-TTAAATTTGTGTCGATAC
314 TAC-ATAAAGTATCGACAC-TTGTTAAATTTGTGTCGATAC
3237003 ATTTTTAAAT
Statistics
Matches: 659, Mismatches: 70, Indels: 42
0.85 0.09 0.05
Matches are distributed among these distances:
388 168 0.25
390 1 0.00
392 1 0.00
393 1 0.00
395 11 0.02
396 424 0.64
397 49 0.07
398 4 0.01
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (389 bp):
ATGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAGACCCATAATTATAATGTAA
TAGGTAAATTATGAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACAGGTATACATAAAG
TATCGACACTTGTTGAATTTGTGTCGATACTTTGTGTCCAGAATGAATCTCAAATGCACAAAAAA
ATGTCAATACATTTATAAAAAGTATCGATCCCAAAAACATGAAACCCATAATTATAATGTAATAG
GTAAATTATCAATCTAACCGGTCTAAATATACCGGTTTATGAGAAAACAGGTGTACATAAAGTAT
CGACACTTGTTAAATTTGTGTCGATACTTTGTGTCCAGAATAATTTCCTTACCAAGTGCATGAA
Found at i:3236994 original size:594 final size:586
Alignment explanation
Indices: 3235861--3237002 Score: 1582
Period size: 594 Copynumber: 1.9 Consensus size: 586
3235851 TGGTAAACAT
*
3235861 ATGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAGACCCATAATTATAATGTAA
1 ATGTGTCAATACATTTATAAAAAGTATCGATCCCAAAAACATCGAGACCCATAATTATAATGTAA
*
3235926 TAGGTAAATTATGAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATAAAG
66 TAGGTAAATTATCAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATAAAG
* * *
3235991 TATCGACACTTGTTGAATTTGTGTCGATACTTTGTGTCCAGAATGATTTCCTTACCAAGTGCATG
131 TATCGACACTTGTTGAATTTGTGTCAATACTTTGTGTCCAGAATAATTTCCTTACCAAGTACATG
3236056 TCGATACATTTATAAAAAGTATCGATCCCAAAAACATCAAGACCCATAATTATAATGTAATAGGT
196 TCGATACATTTATAAAAAGTATCGATCCCAAAAACATCAAGACCCATAATTATAATGTAATAGGT
* *
3236121 AAATTATGAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATAAAGTATCA
261 AAAGTATGAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACAGGTATACATAAAGTATCA
* ** * ** * *** *
3236186 ACACTTGTTGAATTTGTGTCGATACTTTGTGTCCAGAATGATTTCCTTACCAAGTGCATGGAAAT
326 ACACTTGTTGAATTTATGTCGATACTTTGTGTCCAGAATGAAATCCTCAAAAAATGCACAAAAAA
* * * * *
3236251 GTGTCGATACATTTATAACAAGTATAGATCCCAAAAACATCGAGACCCATAATTATAATTTAATA
391 ATGTCAATACATTTATAAAAAGTATAGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * * *
3236316 GGTAAATTATGAATCTAATCGGTCTAAATACACCGGTTTATGAGAAAACAAGTATACATAAAGTA
456 GGTAAATTATCAATCTAACCGGTATAAATACACCAGTTTATGAGAAAACAAGTACACATAAAGTA
*
3236381 TCGACACTTGTTGAATTTGTGTCGATACTTTGTGTCCATAATGATTTCCTTACCAAGGTCACCAT
521 TCGACACTTGTTAAATTTGTGTCGATACTTTGTGTCCATAATGATTTCCTTACCAAGGTCACCAT
3236446 A
586 A
*
3236447 ATGTGTCAATACATTTATAAAAAGTATTGATCCCAAAAACATCGAGACCCATAATTATAATGTAA
1 ATGTGTCAATACATTTATAAAAAGTATCGATCCCAAAAACATCGAGACCCATAATTATAATGTAA
** *
3236512 TAGGTAAATTATCAATCTAACCGGTCTAAATATGCCGGTTTATGAGAAAATAGGTGTACATAAAG
66 TAGGTAAATTATCAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATAAAG
*
3236577 TATCGACACTTGTTTAATTTGTGTCAATACTTTGTGTCCAGAATAATTTCCTTACCAAGGTCACT
131 TATCGACACTTGTTGAATTTGTGTCAATACTTTGTGTCCAGAATAATTTCCTTACCAA-GT-AC-
* *
3236642 ATAATGTGTCGATACATTTATAAAAAGTATCGATCCCAAAACCATCGAGACCCATAATTATAATG
193 ---A--TGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCAAGACCCATAATTATAATG
*
3236707 TAATAGGTAAAGTATGAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACAGGTATGCATA
253 TAATAGGTAAAGTATGAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACAGGTATACATA
* **
3236772 AAGTATCGACACTCT-TTGAATTTATGTCGATACATTT-TGTCCAGAATGTAAATGGTCAAAAAA
318 AAGTATCAACACT-TGTTGAATTTATGTCGATAC-TTTGTGTCCAGAATG-AAATCCTCAAAAAA
* * * **
3236835 TGCACAAAAAAATGTTAATACATTTATAAAAAGTATCGAT-CCTAAAACAAT-GAAATTCATAAT
380 TGCACAAAAAAATGTCAATACATTTATAAAAAGTATAGATCCCAAAAAC-ATCGAAACCCATAAT
* * * * * **
3236898 T-TGAATGTAATAGGT-CATTTTACAATGTAACCGGTATAAATATACCTATTTTATTTG-AAACA
444 TAT-AATGTAATAGGTAAATTAT-CAATCTAACCGGTATAAATACACC-AGTTTATGAGAAAACA
* *
3236960 GGT-CACTATAATGTATCGACACATT-TTAAATTTGTGTCGATAC
506 AGTACAC-ATAAAGTATCGACAC-TTGTTAAATTTGTGTCGATAC
3237003 ATTTTTAAAT
Statistics
Matches: 485, Mismatches: 54, Indels: 26
0.86 0.10 0.05
Matches are distributed among these distances:
586 179 0.37
587 2 0.00
588 1 0.00
592 1 0.00
593 7 0.01
594 244 0.50
595 51 0.11
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (586 bp):
ATGTGTCAATACATTTATAAAAAGTATCGATCCCAAAAACATCGAGACCCATAATTATAATGTAA
TAGGTAAATTATCAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATAAAG
TATCGACACTTGTTGAATTTGTGTCAATACTTTGTGTCCAGAATAATTTCCTTACCAAGTACATG
TCGATACATTTATAAAAAGTATCGATCCCAAAAACATCAAGACCCATAATTATAATGTAATAGGT
AAAGTATGAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACAGGTATACATAAAGTATCA
ACACTTGTTGAATTTATGTCGATACTTTGTGTCCAGAATGAAATCCTCAAAAAATGCACAAAAAA
ATGTCAATACATTTATAAAAAGTATAGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
GGTAAATTATCAATCTAACCGGTATAAATACACCAGTTTATGAGAAAACAAGTACACATAAAGTA
TCGACACTTGTTAAATTTGTGTCGATACTTTGTGTCCATAATGATTTCCTTACCAAGGTCACCAT
A
Found at i:3237314 original size:15 final size:15
Alignment explanation
Indices: 3237294--3237345 Score: 77
Period size: 15 Copynumber: 3.5 Consensus size: 15
3237284 AGAATCGGGG
*
3237294 CTCTTCTCAACCCAT
1 CTCTTCTCAACCCAC
3237309 CTCTTCTCAACCCAC
1 CTCTTCTCAACCCAC
* *
3237324 CTCTTCTCAATCCAG
1 CTCTTCTCAACCCAC
3237339 CTCTTCT
1 CTCTTCT
3237346 GAGGAAATCA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.17, C:0.46, G:0.02, T:0.35
Consensus pattern (15 bp):
CTCTTCTCAACCCAC
Found at i:3238494 original size:6 final size:6
Alignment explanation
Indices: 3238480--3238553 Score: 85
Period size: 6 Copynumber: 12.3 Consensus size: 6
3238470 CAAGCGGTCA
* * * * *
3238480 ATGAAG ATGACG ATGAAG ATGAAG ATGATT ATGATG ATGATG ATGATG
1 ATGATG ATGATG ATGATG ATGATG ATGATG ATGATG ATGATG ATGATG
* *
3238528 ATGATG ATGATA ACGATG ATGATG AT
1 ATGATG ATGATG ATGATG ATGATG AT
3238554 CCAAACAAGT
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 59 1.00
ACGTcount: A:0.39, C:0.03, G:0.30, T:0.28
Consensus pattern (6 bp):
ATGATG
Found at i:3238517 original size:9 final size:9
Alignment explanation
Indices: 3238480--3238553 Score: 85
Period size: 9 Copynumber: 8.2 Consensus size: 9
3238470 CAAGCGGTCA
*
3238480 ATGAAGATG
1 ATGATGATG
* *
3238489 ACGATGAAG
1 ATGATGATG
*
3238498 ATGAAGATG
1 ATGATGATG
*
3238507 ATTATGATG
1 ATGATGATG
3238516 ATGATGATG
1 ATGATGATG
3238525 ATGATGATG
1 ATGATGATG
* *
3238534 ATGATAACG
1 ATGATGATG
3238543 ATGATGATG
1 ATGATGATG
3238552 AT
1 AT
3238554 CCAAACAAGT
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
9 52 1.00
ACGTcount: A:0.39, C:0.03, G:0.30, T:0.28
Consensus pattern (9 bp):
ATGATGATG
Found at i:3238521 original size:15 final size:15
Alignment explanation
Indices: 3238479--3238553 Score: 80
Period size: 15 Copynumber: 5.0 Consensus size: 15
3238469 CCAAGCGGTC
* *
3238479 AATGAAGATGACGAT
1 AATGATGATGATGAT
*
3238494 GAA-GATGAAGATGAT
1 -AATGATGATGATGAT
*
3238509 TATGATGATGATGAT
1 AATGATGATGATGAT
*
3238524 GATGATGATGATGAT
1 AATGATGATGATGAT
*
3238539 AACGATGATGATGAT
1 AATGATGATGATGAT
3238554 CCAAACAAGT
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
14 1 0.02
15 47 0.94
16 2 0.04
ACGTcount: A:0.40, C:0.03, G:0.29, T:0.28
Consensus pattern (15 bp):
AATGATGATGATGAT
Found at i:3239748 original size:36 final size:36
Alignment explanation
Indices: 3239701--3239803 Score: 197
Period size: 36 Copynumber: 2.9 Consensus size: 36
3239691 GACTTATACA
*
3239701 GTCTTAGCGAAACATACTTGATGTATAAGCAAAACC
1 GTCTTAGCGAAACATACTTGATGTAGAAGCAAAACC
3239737 GTCTTAGCGAAACATACTTGATGTAGAAGCAAAACC
1 GTCTTAGCGAAACATACTTGATGTAGAAGCAAAACC
3239773 GTCTTAGCGAAACATACTTGATGTAGAAGCA
1 GTCTTAGCGAAACATACTTGATGTAGAAGCA
3239804 GCTGCAGATT
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
36 66 1.00
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.24
Consensus pattern (36 bp):
GTCTTAGCGAAACATACTTGATGTAGAAGCAAAACC
Found at i:3240429 original size:22 final size:21
Alignment explanation
Indices: 3240403--3240448 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
3240393 AAAAGAAAGG
*
3240403 TATACATAATGTATCGATACTT
1 TATACAT-ATGTATCGACACTT
* *
3240425 TATACATTTGTGTCGACACTT
1 TATACATATGTATCGACACTT
3240446 TAT
1 TAT
3240449 GTCCATAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.43
Consensus pattern (21 bp):
TATACATATGTATCGACACTT
Found at i:3240629 original size:22 final size:21
Alignment explanation
Indices: 3240603--3240648 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
3240593 AAAAGAAAGG
*
3240603 TATACATAATGTATCGATACTT
1 TATACAT-ATGTATCGACACTT
* *
3240625 TATACATTTGTGTCGACACTT
1 TATACATATGTATCGACACTT
3240646 TAT
1 TAT
3240649 GTCCATAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.43
Consensus pattern (21 bp):
TATACATATGTATCGACACTT
Found at i:3240825 original size:22 final size:21
Alignment explanation
Indices: 3240800--3240845 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
3240790 TAAAAAAATG
*
3240800 TATACATAATGTATCGATACTT
1 TATACAT-ATGTATCGACACTT
* *
3240822 TATACATTTGTGTCGACACTT
1 TATACATATGTATCGACACTT
3240843 TAT
1 TAT
3240846 GTCCATAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.43
Consensus pattern (21 bp):
TATACATATGTATCGACACTT
Found at i:3240920 original size:397 final size:396
Alignment explanation
Indices: 3239906--3241044 Score: 1565
Period size: 397 Copynumber: 2.8 Consensus size: 396
3239896 ATAAAGTATG
* * * *
3239906 GATCCCAAAAACATCGAGAC-CTATAAGTATAATGTAATATGTAAAATAACAATGTAACCGGTCT
1 GATCCCAAAAACATCGAAACAC-ATAATTATAATGTAATAGGTAACATAACAATGTAACCGGTCT
* * * * *
3239970 AAATATACCGGTTTATGAGAAAAGAGGTATACATAAAGTATCAACACTTTATACATTTGTGTCGA
65 AAATATACCGG-TTATTA-AAAAAAGGTATACATAATGTATCGATACTTTATACATTTGTGTCGA
* * * *
3240035 TACTTTGTGTCCATAATGTAATTTCCAACCAAAACAAGTTCAC-AAATAAGTGTCGATACATTTA
128 CACTTTATGTCCATAAT-AAATTT---TCC-AAACAAGTTCACGAAA-AAGTGTCGATACATTTA
* *
3240099 TATCAAGTGTCGATCCCAAAAACATCGAAACACGTAACTATAATGTAATAGGTCACTTTACAATG
187 TAACAAGTGTCGATCCCAAAAACATCGAAACACGTAATTATAATGTAATAGGTCACTTTACAATG
* * * *
3240164 TAATCGGTTTAAATTTACCGATTTTATGAGAAAATAGGCCTACA-ATATGTATCGACACTTTATT
252 TAACCGGTTTAAATTTACCGGTTTTA-GAGAAAATAGGTCTACATA-ATGTATCGACACTTTATA
* * *
3240228 CATTTGTGTCGATACATGTTGTCCATAATGTGTTTCCAAACCAAGTGTACGAAAAAAGTGTCGAT
315 CATTTGTGTCGACAC-TTTTGTCCATAATATGTTTCCAAACCAAGTGTACGAAAAAAGTGTCGAT
3240293 ACATTTATAACAAGTGTC
379 ACATTTATAACAAGTGTC
* * *
3240311 GATCCCAAAAGCATCGAAACACATAATTATAATGTAATAGGAAACATAACAATGTAACCGGCCTA
1 GATCCCAAAAACATCGAAACACATAATTATAATGTAATAGGTAACATAACAATGTAACCGGTCTA
3240376 AATATACCGGTTATTAAAAAAGAAAGGTATACATAATGTATCGATACTTTATACATTTGTGTCGA
66 AATATACCGGTTATT--AAAA-AAAGGTATACATAATGTATCGATACTTTATACATTTGTGTCGA
3240441 CACTTTATGTCCATAATAAATTTTCCAAACAAGTTCACGAAAAAGTGTCGATACATTTATAACAA
128 CACTTTATGTCCATAATAAATTTTCCAAACAAGTTCACGAAAAAGTGTCGATACATTTATAACAA
* * * * *
3240506 GTGTCGATCCCAAAAACATCGAAACACATGATTATAATGTAATAGGTAACATAACAATGTAACCG
193 GTGTCGATCCCAAAAACATCGAAACACGTAATTATAATGTAATAGGTCACTTTACAATGTAACCG
* * * * * *
3240571 GTCTAAATATACCGGTTATTA-AAAAAGAAAGGTATACATAATGTATCGATACTTTATACATTTG
258 GTTTAAATTTACCGGTT-TTAGAGAAA-ATAGGTCTACATAATGTATCGACACTTTATACATTTG
* *
3240635 TGTCGACACTTTATGTCCATAATAAAT-TTTCCAAA-CAAGT-TCACG-AAATAGTGTTGATACA
321 TGTCGACACTTT-TGTCCATAAT--ATGTTTCCAAACCAAGTGT-ACGAAAAAAGTGTCGATACA
3240696 TTTATAACAAGTGTC
382 TTTATAACAAGTGTC
*
3240711 GATCCCAAAAATATCGAAACACATAATTATAATGTAATAGGTAACATAACAATGTAACCGGTCTA
1 GATCCCAAAAACATCGAAACACATAATTATAATGTAATAGGTAACATAACAATGTAACCGGTCTA
*
3240776 AATATACCGGTTATTAAAAAAATGTATACATAATGTATCGATACTTTATACATTTGTGTCGACAC
66 AATATACCGGTTATTAAAAAAAGGTATACATAATGTATCGATACTTTATACATTTGTGTCGACAC
* * *
3240841 TTTATGTCCATAATAAATTTTCCAAACAAGTTCACGAAAAAGTGTTGATACATTTAGAAAAAGTG
131 TTTATGTCCATAATAAATTTTCCAAACAAGTTCACGAAAAAGTGTCGATACATTTATAACAAGTG
* * * *
3240906 CCGATCCTAAAAACATCGAAACCCGTAATTATAATGTAATAGGTCACTTTACAATGTAACCAGTT
196 TCGATCCCAAAAACATCGAAACACGTAATTATAATGTAATAGGTCACTTTACAATGTAACCGGTT
* * * *
3240971 TAAATTTACCGGTTTTATGAGAAAATAGGTCTACATAATATATCGACACTTTTTAAATTAGTGTC
261 TAAATTTACCGGTTTTA-GAGAAAATAGGTCTACATAATGTATCGACACTTTATACATTTGTGTC
3241036 GACACTTTT
325 GACACTTTT
3241045 TAAATTAGTG
Statistics
Matches: 655, Mismatches: 65, Indels: 37
0.87 0.09 0.05
Matches are distributed among these distances:
396 4 0.01
397 217 0.33
398 8 0.01
400 112 0.17
401 162 0.25
402 17 0.03
403 1 0.00
404 4 0.01
405 74 0.11
406 56 0.09
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (396 bp):
GATCCCAAAAACATCGAAACACATAATTATAATGTAATAGGTAACATAACAATGTAACCGGTCTA
AATATACCGGTTATTAAAAAAAGGTATACATAATGTATCGATACTTTATACATTTGTGTCGACAC
TTTATGTCCATAATAAATTTTCCAAACAAGTTCACGAAAAAGTGTCGATACATTTATAACAAGTG
TCGATCCCAAAAACATCGAAACACGTAATTATAATGTAATAGGTCACTTTACAATGTAACCGGTT
TAAATTTACCGGTTTTAGAGAAAATAGGTCTACATAATGTATCGACACTTTATACATTTGTGTCG
ACACTTTTGTCCATAATATGTTTCCAAACCAAGTGTACGAAAAAAGTGTCGATACATTTATAACA
AGTGTC
Found at i:3240926 original size:197 final size:198
Alignment explanation
Indices: 3239906--3241043 Score: 1459
Period size: 200 Copynumber: 5.7 Consensus size: 198
3239896 ATAAAGTATG
* * * *
3239906 GATCCCAAAAACATCGAGAC-CTATAAGTATAATGTAATATGTAAAATAACAATGTAACCGGTCT
1 GATCCCAAAAACATCGAAACAC-ATAATTATAATGTAATAGGTAACATAACAATGTAACCGGTCT
* * * *
3239970 AAATATACCGGTTTATGAGAAAAGAGGTATACATAAAGTATCAACACTTTATACATTTGTGTCGA
65 AAATATACCGG-TTATTAGAAAAAAGGTATACATAATGTATCGACACTTTATACATTTGTGTCGA
* * * *
3240035 TACTTTGTGTCCATAATGTAATTTCCAACCAAAACAAGTTCAC-AAATAAGTGTCGATACATTTA
129 CACTTTATGTCCATAAT-AAATTT---TCC-AAACAAGTTCACGAAA-AAGTGTCGATACATTTA
*
3240099 TATCAAGTGTC
188 TAACAAGTGTC
* * * * * * *
3240110 GATCCCAAAAACATCGAAACACGTAACTATAATGTAATAGGTCACTTTACAATGTAATCGGTTTA
1 GATCCCAAAAACATCGAAACACATAATTATAATGTAATAGGTAACATAACAATGTAACCGGTCTA
* * ** *
3240175 AATTTACCGATT-TTATGAGAAAATAGGCCTACA-ATATGTATCGACACTTTATTCATTTGTGTC
66 AATATACCGGTTATTA-GA-AAAA-AGGTATACATA-ATGTATCGACACTTTATACATTTGTGTC
* * *
3240238 GATACATGT-TGTCCATAAT--GTGTTTCCAAACCAAGTGT-ACGAAAAAAGTGTCGATACATTT
127 GACAC-TTTATGTCCATAATAAAT-TTTCCAAA-CAAGT-TCACG-AAAAAGTGTCGATACATTT
3240299 ATAACAAGTGTC
187 ATAACAAGTGTC
* * *
3240311 GATCCCAAAAGCATCGAAACACATAATTATAATGTAATAGGAAACATAACAATGTAACCGGCCTA
1 GATCCCAAAAACATCGAAACACATAATTATAATGTAATAGGTAACATAACAATGTAACCGGTCTA
* *
3240376 AATATACCGGTTATTAAAAAAGAAAGGTATACATAATGTATCGATACTTTATACATTTGTGTCGA
66 AATATACCGGTTATT-AGAAA-AAAGGTATACATAATGTATCGACACTTTATACATTTGTGTCGA
3240441 CACTTTATGTCCATAATAAATTTTCCAAACAAGTTCACGAAAAAGTGTCGATACATTTATAACAA
129 CACTTTATGTCCATAATAAATTTTCCAAACAAGTTCACGAAAAAGTGTCGATACATTTATAACAA
3240506 GTGTC
194 GTGTC
*
3240511 GATCCCAAAAACATCGAAACACATGATTATAATGTAATAGGTAACATAACAATGTAACCGGTCTA
1 GATCCCAAAAACATCGAAACACATAATTATAATGTAATAGGTAACATAACAATGTAACCGGTCTA
* *
3240576 AATATACCGGTTATTAAAAAAGAAAGGTATACATAATGTATCGATACTTTATACATTTGTGTCGA
66 AATATACCGGTTATT-AGAAA-AAAGGTATACATAATGTATCGACACTTTATACATTTGTGTCGA
* *
3240641 CACTTTATGTCCATAATAAATTTTCCAAACAAGTTCACGAAATAGTGTTGATACATTTATAACAA
129 CACTTTATGTCCATAATAAATTTTCCAAACAAGTTCACGAAAAAGTGTCGATACATTTATAACAA
3240706 GTGTC
194 GTGTC
*
3240711 GATCCCAAAAATATCGAAACACATAATTATAATGTAATAGGTAACATAACAATGTAACCGGTCTA
1 GATCCCAAAAACATCGAAACACATAATTATAATGTAATAGGTAACATAACAATGTAACCGGTCTA
* *
3240776 AATATACCGGTTATTA-AAAAAATGTATACATAATGTATCGATACTTTATACATTTGTGTCGACA
66 AATATACCGGTTATTAGAAAAAAGGTATACATAATGTATCGACACTTTATACATTTGTGTCGACA
* * *
3240840 CTTTATGTCCATAATAAATTTTCCAAACAAGTTCACGAAAAAGTGTTGATACATTTAGAAAAAGT
131 CTTTATGTCCATAATAAATTTTCCAAACAAGTTCACGAAAAAGTGTCGATACATTTATAACAAGT
*
3240905 GCC
196 GTC
* * * * * * * *
3240908 GATCCTAAAAACATCGAAACCCGTAATTATAATGTAATAGGTCACTTTACAATGTAACCAGTTTA
1 GATCCCAAAAACATCGAAACACATAATTATAATGTAATAGGTAACATAACAATGTAACCGGTCTA
* * * * * *
3240973 AATTTACCGGTT-TTATGAGAAAATAGGTCTACATAATATATCGACACTTTTTAAATTAGTGTCG
66 AATATACCGGTTATTA-GA-AAAA-AGGTATACATAATGTATCGACACTTTATACATTTGTGTCG
3241037 ACACTTT
128 ACACTTT
3241044 TTAAATTAGT
Statistics
Matches: 838, Mismatches: 73, Indels: 50
0.87 0.08 0.05
Matches are distributed among these distances:
196 3 0.00
197 175 0.21
198 4 0.00
199 8 0.01
200 355 0.42
201 150 0.18
202 20 0.02
203 8 0.01
204 65 0.08
205 48 0.06
206 2 0.00
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (198 bp):
GATCCCAAAAACATCGAAACACATAATTATAATGTAATAGGTAACATAACAATGTAACCGGTCTA
AATATACCGGTTATTAGAAAAAAGGTATACATAATGTATCGACACTTTATACATTTGTGTCGACA
CTTTATGTCCATAATAAATTTTCCAAACAAGTTCACGAAAAAGTGTCGATACATTTATAACAAGT
GTC
Found at i:3241073 original size:22 final size:21
Alignment explanation
Indices: 3241013--3241069 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
3241003 ACATAATATA
3241013 TCGACACTTTTTAAATTAGTG
1 TCGACACTTTTTAAATTAGTG
3241034 TCGACACTTTTTAAATTAGTG
1 TCGACACTTTTTAAATTAGTG
*
3241055 TCGATACTTTTTAAA
1 TCGACACTTTTTAAA
3241070 ATTACGCGTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (21 bp):
TCGACACTTTTTAAATTAGTG
Found at i:3244509 original size:14 final size:15
Alignment explanation
Indices: 3244484--3244512 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
3244474 GTAAATTTAC
3244484 AATATAACCGGTTAA
1 AATATAACCGGTTAA
3244499 AATAT-ACCGGTTAA
1 AATATAACCGGTTAA
3244513 TTAGCAAATA
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:0.45, C:0.14, G:0.14, T:0.28
Consensus pattern (15 bp):
AATATAACCGGTTAA
Found at i:3244611 original size:198 final size:197
Alignment explanation
Indices: 3244209--3244730 Score: 592
Period size: 198 Copynumber: 2.6 Consensus size: 197
3244199 GTTAGATTTT
* * ** *
3244209 GTGTCGATACATTTATAACA-AGTATCGATCCC-AAAATCAAAGAGACCGATAATTATAATGTAA
1 GTGTCGATACATTTA-AA-ATTGTATCGATCCCGGAAA-CATCGAAACCGATAATTATAATGTAA
* *
3244272 TAGGTAAATTTCCAATGTAACCGG-TAGAAATATACCGGGTTCATGAGAGAATAGGTCAACATAA
63 TAGGTAAATTTACAATGTAACCGGTTA-AAATATACC-GGTTAATGAGAGAATAGGTCAACATAA
* * * * * * *
3244336 AGTATCGACACTTTTTTAATTTGTGTCGATACATTTTTCCAAAATGAATGGAAAACGAGGTGTAT
126 AGTATCGACACTCTTTAAATATGTGTCGATACATTTTTCCAAAATGAAAGCAAAACGAGGTGCAC
3244401 GCATAAA
191 GCATAAA
* * *
3244408 GTGTCGATACATTTGTAAAA-TGTATCGATCATC-GAAACATCGAAATCGATAATTATTATGTAA
1 GTGTCGATACA-TT-TAAAATTGTATCGATC-CCGGAAACATCGAAACCGATAATTATAATGTAA
* * * * * *
3244471 CAGGTAAATTTACAATATAACCGGTTAAAATATACCGGTTAATTAGCA-AATAGGTCTACATTAT
63 TAGGTAAATTTACAATGTAACCGGTTAAAATATACCGGTTAATGAG-AGAATAGGTCAACATAAA
* *
3244535 GTATCGACACTCTTTAAATATGTGTCGATACTTTTTTCCAAAAT-AAAGCACAAACGAGTTGCAC
127 GTATCGACACTCTTTAAATATGTGTCGATACATTTTTCCAAAATGAAAGCA-AAACGAGGTGCAC
3244599 GCATAAA
191 GCATAAA
* *
3244606 GTGTCGATACATTTAAAATTGTATCGATCCCGGAAATATCGAAACCGATATTTATAATGTAATAG
1 GTGTCGATACATTTAAAATTGTATCGATCCCGGAAACATCGAAACCGATAATTATAATGTAATAG
* * * * * *
3244671 GTCAATTTATAATGTAACCGGTTTAAATTTACCGGTTTTATGAGA-AATAGGTCAATATAA
66 GTAAATTTACAATGTAACCGGTTAAAATATACCGG-TTAATGAGAGAATAGGTCAACATAA
3244731 GCGCTACCTA
Statistics
Matches: 273, Mismatches: 41, Indels: 20
0.82 0.12 0.06
Matches are distributed among these distances:
196 6 0.02
197 87 0.32
198 95 0.35
199 73 0.27
200 10 0.04
201 2 0.01
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.31
Consensus pattern (197 bp):
GTGTCGATACATTTAAAATTGTATCGATCCCGGAAACATCGAAACCGATAATTATAATGTAATAG
GTAAATTTACAATGTAACCGGTTAAAATATACCGGTTAATGAGAGAATAGGTCAACATAAAGTAT
CGACACTCTTTAAATATGTGTCGATACATTTTTCCAAAATGAAAGCAAAACGAGGTGCACGCATA
AA
Found at i:3248810 original size:25 final size:23
Alignment explanation
Indices: 3248776--3248821 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
3248766 TTAAGAAAAT
3248776 ATATTAATTTATATATATAAATAAG
1 ATATTAATTTAT-T-TATAAATAAG
*
3248801 ATATTTATTTATTTATAAATA
1 ATATTAATTTATTTATAAATA
3248822 TCATAAAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 8 0.40
24 1 0.05
25 11 0.55
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
ATATTAATTTATTTATAAATAAG
Found at i:3250476 original size:3 final size:3
Alignment explanation
Indices: 3250461--3250498 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
3250451 ATATTTAATT
*
3250461 TAA TAA TAT TAA TAA T-A TATA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TA
3250499 TAGTGAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 26 0.84
4 3 0.10
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:3250485 original size:21 final size:21
Alignment explanation
Indices: 3250461--3250500 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
3250451 ATATTTAATT
*
3250461 TAATAATATTAATAATATATA
1 TAATAATAATAATAATATATA
3250482 TAATAATAATAATAATATA
1 TAATAATAATAATAATATA
3250501 GTGAAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TAATAATAATAATAATATATA
Found at i:3250918 original size:46 final size:46
Alignment explanation
Indices: 3250706--3251351 Score: 978
Period size: 46 Copynumber: 14.0 Consensus size: 46
3250696 TCAAAAAGCT
* *
3250706 CCCGAAGG-TTTTAAAAACATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
* * *
3250751 CCCGAAGG-TTTTGAAAACATCACGCACTAAAGGGCTTACAGATGA
1 CCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
*
3250796 CCCGAAGG-TTTTGAAAACATCATCCACTGAAGGACTTACAGATGA
1 CCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
*
3250841 CCCGAAGGTTTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGG--TTTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
* * *
3250889 CCCGAAGGTTTTTGAAAACATCATGCACTGAAGGGCTTACAAATAA
1 CCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
* *
3250935 CCCGGAGG-TTTTGAAAACATCATGCACTGAAAGACTTACAGATGA
1 CCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
* *
3250980 CCCGAAGTTTTTTTTTTTGATAACATCATGCACTGAAGGACTTACAGATGA
1 CCCGAAG-----GTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
*
3251031 CCCGAAGGTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
* * *
3251077 CCTGGAGGTTTTTTGAAAATATCATGCACTGAAGGACTTACAGATGA
1 CCCGAAGG-TTTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
3251124 CCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
1 CCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
* *
3251170 CCCGAAGGTTTTTGATAACATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
3251216 CCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
1 CCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
* *
3251262 CCCAAAGGTTTTTGATAACATCATGCACTGAAGGACTTACAGATGA
1 CCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
*
3251308 CCCGAAGG-TTTTGAAAACATCATACACTGAAGGACTTACAGATG
1 CCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACTTACAGATG
3251352 TTGGAAATAG
Statistics
Matches: 552, Mismatches: 39, Indels: 20
0.90 0.06 0.03
Matches are distributed among these distances:
45 164 0.30
46 261 0.47
47 42 0.08
48 43 0.08
51 42 0.08
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.25
Consensus pattern (46 bp):
CCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
Found at i:3250971 original size:139 final size:138
Alignment explanation
Indices: 3250706--3251351 Score: 1005
Period size: 139 Copynumber: 4.7 Consensus size: 138
3250696 TCAAAAAGCT
* *
3250706 CCCGAAGG-TTTTAAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-TTTTGAAAAC
1 CCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTTGAAAAC
* * *
3250769 ATCACGCACTAAAGGGCTTACAGATGACCCGAAGG-TTTTGAAAACATCATCCACTGAAGGACTT
66 ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACTT
3250833 ACAGATGA
131 ACAGATGA
*
3250841 CCCGAAGGTTTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTTGAAA
1 CCCGAAGG--TTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTTGAAA
* * * *
3250906 ACATCATGCACTGAAGGGCTTACAAATAACCCGGAGG-TTTTGAAAACATCATGCACTGAAAGAC
64 ACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTTGAAAACATCATGCACTGAAGGAC
3250970 TTACAGATGA
129 TTACAGATGA
* *
3250980 CCCGAAGTTTTTTTTTTTGATAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTTG
1 CCCGAAG-----GTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTTG
* * *
3251045 AAAACATCATGCACTGAAGGGCTTACAGATGACCTGGAGGTTTTTTGAAAATATCATGCACTGAA
61 AAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-TTTTTGAAAACATCATGCACTGAA
3251110 GGACTTACAGATGA
125 GGACTTACAGATGA
*
3251124 CCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTTGATAAC
1 CCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTTGAAAAC
3251189 ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACTT
66 ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACTT
3251254 ACAGATGA
131 ACAGATGA
* *
3251262 CCCAAAGGTTTTTGATAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-TTTTGAAAAC
1 CCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTTGAAAAC
* *
3251326 ATCATACACTGAAGGACTTACAGATG
66 ATCATGCACTGAAGGGCTTACAGATG
3251352 TTGGAAATAG
Statistics
Matches: 473, Mismatches: 27, Indels: 20
0.91 0.05 0.04
Matches are distributed among these distances:
135 8 0.02
137 33 0.07
138 133 0.28
139 170 0.36
142 87 0.18
144 42 0.09
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.25
Consensus pattern (138 bp):
CCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTTGAAAAC
ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACTT
ACAGATGA
Found at i:3253476 original size:75 final size:75
Alignment explanation
Indices: 3253348--3253512 Score: 226
Period size: 75 Copynumber: 2.2 Consensus size: 75
3253338 TATGACGATG
* * ** *
3253348 TGGGCTTTCAGCATGCCCCAACATTGGCTCACACAAATGTTCAAAATGTGTCAACATTCTTGATT
1 TGGGCTTTCAGCATGCCCCAACATTAGCTAACACAAACATTCAAAATGTGTCAACATTCCTGA-T
*
3253413 C-TGATTGAAA
65 CATGAATGAAA
* *
3253423 -GAGGTTTTCAGCATGCCCCAACATTAGCTAATACAAACATTCAAAATGTGTCAACATTCCTGAT
1 TG-GGCTTTCAGCATGCCCCAACATTAGCTAACACAAACATTCAAAATGTGTCAACATTCCTGAT
3253487 CATGAATGAAA
65 CATGAATGAAA
3253498 TGGGCTTTCAGCATG
1 TGGGCTTTCAGCATG
3253513 TTTCATCATT
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
74 3 0.04
75 74 0.95
76 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.29
Consensus pattern (75 bp):
TGGGCTTTCAGCATGCCCCAACATTAGCTAACACAAACATTCAAAATGTGTCAACATTCCTGATC
ATGAATGAAA
Found at i:3259883 original size:16 final size:16
Alignment explanation
Indices: 3259862--3259904 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
3259852 ATTTAGAGCC
3259862 TTTGAATCATTCAGCA
1 TTTGAATCATTCAGCA
* *
3259878 TTTGAACCATTAAGCA
1 TTTGAATCATTCAGCA
*
3259894 ATT-AATCATTC
1 TTTGAATCATTC
3259905 TGAAGTAAAC
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
15 6 0.27
16 16 0.73
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (16 bp):
TTTGAATCATTCAGCA
Found at i:3260876 original size:12 final size:12
Alignment explanation
Indices: 3260838--3260882 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
3260828 TATATGATGG
3260838 AAATATATTT-T
1 AAATATATTTAT
* *
3260849 AATTATATATAT
1 AAATATATTTAT
*
3260861 AAATATATTTAC
1 AAATATATTTAT
3260873 AAATATATTT
1 AAATATATTT
3260883 TTTAGGGCTT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
11 8 0.29
12 20 0.71
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (12 bp):
AAATATATTTAT
Found at i:3279282 original size:21 final size:21
Alignment explanation
Indices: 3279196--3279291 Score: 70
Period size: 21 Copynumber: 4.7 Consensus size: 21
3279186 CATTCCCATA
*
3279196 AAAAGGATTGATCCCTCGACC
1 AAAAGGATTGATCCCTCAACC
* * ***
3279217 AAAGGGATCGATCCCT-TTTC
1 AAAAGGATTGATCCCTCAACC
* ** ***
3279237 AAAATGATTGATCTGTCAGGA
1 AAAAGGATTGATCCCTCAACC
3279258 AAAAGGATTGATCCCTCAACC
1 AAAAGGATTGATCCCTCAACC
3279279 AAAAGGATT-ATCC
1 AAAAGGATTGATCC
3279292 AAAACTTTCT
Statistics
Matches: 54, Mismatches: 20, Indels: 3
0.70 0.26 0.04
Matches are distributed among these distances:
20 16 0.30
21 38 0.70
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (21 bp):
AAAAGGATTGATCCCTCAACC
Found at i:3279961 original size:18 final size:20
Alignment explanation
Indices: 3279938--3279977 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
3279928 TGCTCATGAC
*
3279938 TATATTGTAT-CATGTA-TA
1 TATATTGGATGCATGTAGTA
3279956 TATATTGGATGCATGTAGTA
1 TATATTGGATGCATGTAGTA
3279976 TA
1 TA
3279978 GCTTGGTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 6 0.32
20 4 0.21
ACGTcount: A:0.33, C:0.05, G:0.17, T:0.45
Consensus pattern (20 bp):
TATATTGGATGCATGTAGTA
Found at i:3290793 original size:3 final size:3
Alignment explanation
Indices: 3290785--3290884 Score: 121
Period size: 3 Copynumber: 32.7 Consensus size: 3
3290775 TTCATTTAAA
*
3290785 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT AAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
3290833 TAT AAT TACT AAT T-T TAT TATT TAT TAC TAA TAT TAT TAT TAAT TAT
1 TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT T-AT TAT
3290880 TAT TA
1 TAT TA
3290885 CAAACGGGCC
Statistics
Matches: 84, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
2 2 0.02
3 74 0.88
4 8 0.10
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:3294579 original size:14 final size:14
Alignment explanation
Indices: 3294541--3294594 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
3294531 ATTTTAAATA
*
3294541 ATTTACATTTACAT
1 ATTTACATTTGCAT
*
3294555 TTTTACATTTGCAT
1 ATTTACATTTGCAT
3294569 ATTTACATTTGGCAT
1 ATTTACATTT-GCAT
* *
3294584 CTTTGCATTTG
1 ATTTACATTTG
3294595 TATTGCACAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
14 22 0.65
15 12 0.35
ACGTcount: A:0.24, C:0.15, G:0.09, T:0.52
Consensus pattern (14 bp):
ATTTACATTTGCAT
Found at i:3297880 original size:10 final size:10
Alignment explanation
Indices: 3297853--3297907 Score: 58
Period size: 11 Copynumber: 5.3 Consensus size: 10
3297843 CTCATCCAGC
*
3297853 AAAGAAAGAAG
1 AAAGAAA-AAA
3297864 AAA-AAAAAA
1 AAAGAAAAAA
*
3297873 GAAGAAAAAAA
1 AAAG-AAAAAA
3297884 AAAGAAAAAAA
1 AAAG-AAAAAA
3297895 AAAGAAAAAA
1 AAAGAAAAAA
3297905 AAA
1 AAA
3297908 AGGAAAAAGG
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
9 4 0.10
10 12 0.31
11 23 0.59
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (10 bp):
AAAGAAAAAA
Found at i:3297882 original size:11 final size:11
Alignment explanation
Indices: 3297865--3297915 Score: 84
Period size: 11 Copynumber: 4.5 Consensus size: 11
3297855 AGAAAGAAGA
3297865 AAAAAAAAGAAG
1 AAAAAAAA-AAG
3297877 AAAAAAAAAAG
1 AAAAAAAAAAG
3297888 AAAAAAAAAAG
1 AAAAAAAAAAG
3297899 AAAAAAAAAAGG
1 AAAAAAAAAA-G
3297911 AAAAA
1 AAAAA
3297916 GGAAAATCGA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
11 24 0.63
12 14 0.37
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:3297915 original size:1 final size:1
Alignment explanation
Indices: 3297864--3297908 Score: 54
Period size: 1 Copynumber: 45.0 Consensus size: 1
3297854 AAGAAAGAAG
* * * *
3297864 AAAAAAAAAGAAGAAAAAAAAAAGAAAAAAAAAAGAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
3297909 GGAAAAAGGA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (1 bp):
A
Found at i:3300183 original size:83 final size:83
Alignment explanation
Indices: 3300044--3300517 Score: 722
Period size: 83 Copynumber: 5.7 Consensus size: 83
3300034 CATTAACTGA
* * *
3300044 AAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAGCAGA
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
*
3300109 ACCAATCATTGAATTGGG
66 ACCAATCATTGAATTTGG
* * * *
3300127 AAGATGAATTTGTTAATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGACCTGGTTTAGCAGA
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
*
3300192 ACCAATCATTGAATTGGG
66 ACCAATCATTGAATTTGG
* *
3300210 AAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACAG
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-CAG
*
3300274 AACCAATCATTGAATTTAG
65 AACCAATCATTGAATTTGG
*
3300293 AAGATGAATTTGTTAATAGCATC-T-TGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACAG
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-CAG
*
3300355 AATCAATCATTGAATTTGG
65 AACCAATCATTGAATTTGG
* *
3300374 AAGATGAATTTGCTAATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAA
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
*
3300439 ACCAATCATTGAATTTAG
66 ACCAATCATTGAATTTGG
* * *
3300457 AAGATGAATTTGCTCATAGCATCTTCTGGAAGTATTCTTTGAGTTATTTGATCTGGTTTGG
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG
3300518 TAGGAACTAC
Statistics
Matches: 364, Mismatches: 23, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
81 77 0.21
82 5 0.01
83 278 0.76
84 4 0.01
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (83 bp):
AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
ACCAATCATTGAATTTGG
Found at i:3300424 original size:164 final size:166
Alignment explanation
Indices: 3300044--3300514 Score: 718
Period size: 164 Copynumber: 2.8 Consensus size: 166
3300034 CATTAACTGA
* * *
3300044 AAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTT-TAGCAG
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA-CAG
** *
3300108 AACCAATCATTGAATTGGGAAGATGAATTTGTTAATAGCATCTTCTGAAAGTGTTCTTTGAGTTA
65 AACCAATCATTGAATTTAGAAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
* *
3300173 TCTGACCTGGTTTAGCAGAACCAATCATTGAATTGGG
130 TCTGATCTGGTTGAGCAGAACCAATCATTGAATTGGG
* *
3300210 AAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
3300275 ACCAATCATTGAATTTAGAAGATGAATTTGTTAATAGCATC-T-TGGAAGTGTTCTTTGAGTTAT
66 ACCAATCATTGAATTTAGAAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
* *
3300338 CTGATCTGGTTG-GACAGAATCAATCATTGAATTTGG
131 CTGATCTGGTTGAG-CAGAACCAATCATTGAATTGGG
* *
3300374 AAGATGAATTTGCTAATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-CAA
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACAG
* * *
3300438 AACCAATCATTGAATTTAGAAGATGAATTTGCTCATAGCATCTTCTGGAAGTATTCTTTGAGTTA
65 AACCAATCATTGAATTTAGAAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
*
3300503 TTTGATCTGGTT
130 TCTGATCTGGTT
3300515 TGGTAGGAAC
Statistics
Matches: 280, Mismatches: 20, Indels: 10
0.90 0.06 0.03
Matches are distributed among these distances:
163 1 0.00
164 145 0.52
165 6 0.02
166 127 0.45
167 1 0.00
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (166 bp):
AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
ACCAATCATTGAATTTAGAAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
CTGATCTGGTTGAGCAGAACCAATCATTGAATTGGG
Found at i:3300511 original size:247 final size:249
Alignment explanation
Indices: 3300044--3300514 Score: 795
Period size: 247 Copynumber: 1.9 Consensus size: 249
3300034 CATTAACTGA
*
3300044 AAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAGCAGA
1 AAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTGAGCAGA
*
3300109 ACCAATCATTGAATTGGGAAGATGAATTTGTTAATAGCATCTTCTGAAAGTGTTCTTTGAGTTAT
66 ACCAATCATTGAATTGGGAAGATGAATTTGCTAATAGCATCTTCTGAAAGTGTTCTTTGAGTTAT
* *
3300174 CTGACCTGGTTTAGCAGAACCAATCATTGAATTGGGAAGATGAATGTGCTCATAGCATCTTCTGG
131 CTGACCTGGTTTAGCAAAACCAATCATTGAATTGAGAAGATGAATGTGCTCATAGCATCTTCTGG
*
3300239 AAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATTTAG
196 AAGTATTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATTTAG
*
3300293 AAGATGAATTTGTTAATAGCATC-T-TGGAAGTGTTCTTTGAGTTATCTGATCTGGTTG-GACAG
1 AAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTGAG-CAG
* *
3300355 AATCAATCATTGAATTTGGAAGATGAATTTGCTAATAGCATCTTCTGAAAGTGTTCTTTGAGTTA
65 AACCAATCATTGAATTGGGAAGATGAATTTGCTAATAGCATCTTCTGAAAGTGTTCTTTGAGTTA
* * * *
3300420 TCTGATCTGGTTTGGCAAAACCAATCATTGAATTTAGAAGATGAATTTGCTCATAGCATCTTCTG
130 TCTGACCTGGTTTAGCAAAACCAATCATTGAATTGAGAAGATGAATGTGCTCATAGCATCTTCTG
*
3300485 GAAGTATTCTTTGAGTTATTTGATCTGGTT
195 GAAGTATTCTTTGAGTTATCTGATCTGGTT
3300515 TGGTAGGAAC
Statistics
Matches: 208, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
246 1 0.00
247 183 0.88
248 1 0.00
249 23 0.11
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (249 bp):
AAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTGAGCAGA
ACCAATCATTGAATTGGGAAGATGAATTTGCTAATAGCATCTTCTGAAAGTGTTCTTTGAGTTAT
CTGACCTGGTTTAGCAAAACCAATCATTGAATTGAGAAGATGAATGTGCTCATAGCATCTTCTGG
AAGTATTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATTTAG
Found at i:3301783 original size:74 final size:74
Alignment explanation
Indices: 3301631--3301793 Score: 186
Period size: 74 Copynumber: 2.2 Consensus size: 74
3301621 AAGCAAATAT
* * * *
3301631 TGGGGCATGCTGAAAACCCTTTTCAAACAGAATCAGAAATGTTGAAATATTCTGAATATTTATCA
1 TGGGGCATGCTGAAAACCCATTTCAAACAAAATCAGAAATGTTGAAACATTCTGAACATTTATCA
3301696 GCAAAATGC
66 GCAAAATGC
* * ** *
3301705 TGGGGCATGCTGAAAACCCATTTCAATCAAAATCAGAACTGTTGATGCATTTTGAACACTTGTAT
1 TGGGGCATGCTGAAAACCCATTTCAAACAAAATCAGAAATGTTGAAACATTCTGAACA-TT-TAT
* *
3301770 TAGC-CAATG-
64 CAGCAAAATGC
3301779 TGGGGGCATGCTGAA
1 T-GGGGCATGCTGAA
3301794 GGCCCACATC
Statistics
Matches: 75, Mismatches: 11, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
74 50 0.67
75 19 0.25
76 6 0.08
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (74 bp):
TGGGGCATGCTGAAAACCCATTTCAAACAAAATCAGAAATGTTGAAACATTCTGAACATTTATCA
GCAAAATGC
Found at i:3303108 original size:22 final size:22
Alignment explanation
Indices: 3303082--3303136 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
3303072 ATCTACACTC
*
3303082 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGACAGATTCTCTT
3303104 TTCAAAGATGACAGATTCTCTT
1 TTCAAAGATGACAGATTCTCTT
3303126 TTCAAAGATGA
1 TTCAAAGATGA
3303137 AAACTTTATG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.36
Consensus pattern (22 bp):
TTCAAAGATGACAGATTCTCTT
Found at i:3303745 original size:113 final size:113
Alignment explanation
Indices: 3303611--3304511 Score: 1376
Period size: 113 Copynumber: 8.0 Consensus size: 113
3303601 ATCACGCAAA
3303611 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCAT
1 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCAT
*
3303676 CATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACT
66 CATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACT
3303724 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCAT
1 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCAT
*
3303789 CATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACT
66 CATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACT
3303837 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCAT
1 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCAT
*
3303902 CATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACT
66 CATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACT
* * *
3303950 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTCAT
1 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCAT
* * * *
3304015 CATTTGATGGATCAACATTGCCAG-GTAAAGTTCATAATAAGAAGAACT
66 CATTTGATGGATCATCTTTTCCAGAG-AAAGTTCATAATGAGAAGAACT
* *
3304063 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTCCCTGAATTCAT
1 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCAT
* * * * *
3304128 TACTTGATGAATTATTTTTTCCAGAGAAAGTTCATAATGAGAAGAACT
66 CATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACT
* * * * * *
3304176 TATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCAT
1 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCAT
* * * * *
3304240 CACTTGATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACT
66 CATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACT
* * *
3304288 CATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTT-GCTCAAATCCA
1 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCT-GAATCCA
* * *
3304352 TCATTCGATGGATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACT
65 TCATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACT
* * * * * *
3304401 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCAT
1 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCAT
* * *
3304466 CATTTGATGGATCAGCTTTTCCAGAAAAAATTCATAATGAGAAGAA
66 CATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAA
3304512 TTTGTTCAAC
Statistics
Matches: 729, Mismatches: 54, Indels: 10
0.92 0.07 0.01
Matches are distributed among these distances:
112 103 0.14
113 624 0.86
114 2 0.00
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.29
Consensus pattern (113 bp):
CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCAT
CATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACT
Found at i:3304523 original size:186 final size:185
Alignment explanation
Indices: 3304302--3304696 Score: 603
Period size: 186 Copynumber: 2.1 Consensus size: 185
3304292 TGAAGAAGGA
*
3304302 AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCA-TTCGATGGATC
1 AGAAAAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTT-GATGGATC
* *
3304366 AGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
65 AGCATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAAT
* * * * *
3304431 GAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCATTTGATGGATCAGCTTTTCC
130 GAGAAGAACTTGTTC-ACCTTTTGCTCAAATCCATCATTCGATGGATCAGCATTTCC
* ** * *
3304488 AGAAAAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTA
1 AGAAAAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCA
* *
3304553 TCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
66 GCATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
*
3304618 AGAAGAATTTGTTCACCTTTTGCTCAAATCCATCATTCGATGGATCAGCATTTCC
131 AGAAGAACTTGTTCACCTTTTGCTCAAATCCATCATTCGATGGATCAGCATTTCC
* *
3304673 AGAGAAAGTTCATAATGAGAAGAA
1 AGAAAAAATTCATAATGAGAAGAA
3304697 CTCATCTGAA
Statistics
Matches: 190, Mismatches: 18, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
185 58 0.31
186 130 0.68
187 2 0.01
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (185 bp):
AGAAAAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCA
GCATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
AGAAGAACTTGTTCACCTTTTGCTCAAATCCATCATTCGATGGATCAGCATTTCC
Found at i:3304546 original size:73 final size:73
Alignment explanation
Indices: 3304423--3304586 Score: 220
Period size: 73 Copynumber: 2.2 Consensus size: 73
3304413 GAAGAAGAAG
* * * *
3304423 TTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCATTTGATGGATCAGCTTTTCC
1 TTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTCATCACTTGATGGATCAGCATTGCC
3304488 AGAAAAAA
66 AGAAAAAA
* * * * *
3304496 TTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCC
1 TTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTCATCACTTGATGGATCAGCATTGCC
* **
3304561 AGAGAAGG
66 AGAAAAAA
3304569 TTCATAATGAGAAGAACT
1 TTCATAATGAGAAGAACT
3304587 CATCTGAAGA
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
73 78 1.00
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (73 bp):
TTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTCATCACTTGATGGATCAGCATTGCC
AGAAAAAA
Found at i:3304624 original size:451 final size:451
Alignment explanation
Indices: 3303611--3304511 Score: 1189
Period size: 451 Copynumber: 2.0 Consensus size: 451
3303601 ATCACGCAAA
* * ** * *
3303611 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCAT
1 CATCTCAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGATCAA-C-TTGCCCAGAATTCAT
* * * ** * *** * *
3303676 CATTTGGTGGATCATCTTTTCCAGAGA-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
64 TAATAGAAGAATCATCTGAACAAGAGAGAAATTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
* * *
3303740 AAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCATCATTTGGTGGATCATC
129 AAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATCCATCACTTGATGGATCATC
* * *
3303805 TTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAG
194 ATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAG
* * * * *
3303870 AAGAATTTGTTCAACCTTTTACCTGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTC
259 AAGAATTTGTTCAACCTTTTACCTAAATCCATCATTCGATGGATCAGCATTTCCAGAGAAAGTTC
*
3303935 ATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCT
324 ATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCT
* ** *
3304000 TTTGCTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAAAGTTCATAATAAGAAGAACT
389 TTTGCTTAAATTCATCATTTGATGGATCAACATTGCCAGAAAAAATTCATAATAAGAAGAACT
* * * *
3304063 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTCCCTGAATTCAT
1 CATCTCAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGATCAA-C-TTGCCCAGAATTCAT
* * * * * *** * * *
3304128 TACTTGATGAATTATTTTTTCCAGAGA-AAGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAG
64 TAATAGAAGAATCATCTGAACAAGAGAGAAATTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
* * * * *
3304191 AAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCACTTGATGGATTATC
129 AAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATCCATCACTTGATGGATCATC
*
3304256 ATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAG
194 ATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAG
*
3304321 AAGAATTTGTTCAACCTTTT-GCTCAAATCCATCATTCGATGGATCAGCATTTCCAGAGAAAGTT
259 AAGAATTTGTTCAACCTTTTACCT-AAATCCATCATTCGATGGATCAGCATTTCCAGAGAAAGTT
*
3304385 CATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACT
323 CATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACC
* * * *
3304450 TTTTGCTTAAATTCATCATTTGATGGATCAGCTTTTCCAGAAAAAATTCATAATGAGAAGAA
388 TTTTGCTTAAATTCATCATTTGATGGATCAACATTGCCAGAAAAAATTCATAATAAGAAGAA
3304512 TTTGTTCAAC
Statistics
Matches: 411, Mismatches: 37, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
450 2 0.00
451 296 0.72
452 113 0.27
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.29
Consensus pattern (451 bp):
CATCTCAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGATCAACTTGCCCAGAATTCATTA
ATAGAAGAATCATCTGAACAAGAGAGAAATTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
GAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATCCATCACTTGATGGATCATCAT
TGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAA
GAATTTGTTCAACCTTTTACCTAAATCCATCATTCGATGGATCAGCATTTCCAGAGAAAGTTCAT
AATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTT
TGCTTAAATTCATCATTTGATGGATCAACATTGCCAGAAAAAATTCATAATAAGAAGAACT
Found at i:3304691 original size:112 final size:112
Alignment explanation
Indices: 3304488--3304809 Score: 484
Period size: 112 Copynumber: 2.9 Consensus size: 112
3304478 CAGCTTTTCC
* * * *
3304488 AGAAAAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTA
1 AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTAAATTCATCA-TTGATGGATCA
* * *
3304553 TCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
65 GCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
3304601 AGAAGAAATTCATAATGAGAAGAATTTGTTC-ACCTTTTGCTCAAATCCATCATTCGATGGATCA
1 AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTAAATTCATCATT-GATGGATCA
3304665 GCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
65 GCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* * *
3304713 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCATTTGATGGATCA
1 AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTAAATTCATCA-TTGATGGATCA
* *
3304778 GCTTTTCCAAAGAAAGTTCATAATGAGAAGAA
65 GCATTTCCAGAGAAAGTTCATAATGAGAAGAA
3304810 TTTGTTCAAC
Statistics
Matches: 190, Mismatches: 16, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
111 2 0.01
112 99 0.52
113 87 0.46
114 2 0.01
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.30
Consensus pattern (112 bp):
AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTAAATTCATCATTGATGGATCAG
CATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
Found at i:3304760 original size:298 final size:298
Alignment explanation
Indices: 3304188--3304939 Score: 1301
Period size: 298 Copynumber: 2.5 Consensus size: 298
3304178 TCTGAAGAGG
* *
3304188 AAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCACTTGATGGATT
1 AAGAA-AA-TTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTCATCACTTGATGGATT
3304253 ATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAAT
64 ATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAAT
3304318 GAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTCGATGGATCAGCATTTCCAGAGAAAG
129 GAGAAGAATTTGTTC-ACCTTTTGCTCAAATCCATCATTCGATGGATCAGCATTTCCAGAGAAAG
3304383 TTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA
193 TTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA
3304448 CTTTTTGCTTAAATTCATCATTTGATGGATCAGCTTTTCCA
258 CTTTTTGCTTAAATTCATCATTTGATGGATCAGCTTTTCCA
*
3304489 GAA-AAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTA
1 -AAGAAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTCATCACTTGATGGATTA
3304553 TCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
65 TCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
3304618 AGAAGAATTTGTTCACCTTTTGCTCAAATCCATCATTCGATGGATCAGCATTTCCAGAGAAAGTT
130 AGAAGAATTTGTTCACCTTTTGCTCAAATCCATCATTCGATGGATCAGCATTTCCAGAGAAAGTT
3304683 CATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACT
195 CATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACT
3304748 TTTTGCTTAAATTCATCATTTGATGGATCAGCTTTTCCA
260 TTTTGCTTAAATTCATCATTTGATGGATCAGCTTTTCCA
* * * *
3304787 AAGAAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTCATCATTTGATGGATCAA
1 AAGAAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTCATCACTTGATGGATTAT
* * *
3304852 CATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCTTCATCTGAAGAAGAAAGAAGAAGTTCATA
66 CATTGCCAGAGAAG-GTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAATTCATA
* * *
3304916 ATAAGAAGAACTTGTTCAACTTTT
127 ATGAGAAGAATTTGTTCACCTTTT
3304940 TGCATAATTC
Statistics
Matches: 431, Mismatches: 14, Indels: 11
0.95 0.03 0.02
Matches are distributed among these distances:
297 5 0.01
298 238 0.55
299 133 0.31
300 3 0.01
301 50 0.12
302 2 0.00
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (298 bp):
AAGAAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTCATCACTTGATGGATTAT
CATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGA
GAAGAATTTGTTCACCTTTTGCTCAAATCCATCATTCGATGGATCAGCATTTCCAGAGAAAGTTC
ATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTT
TTTGCTTAAATTCATCATTTGATGGATCAGCTTTTCCA
Found at i:3304805 original size:73 final size:73
Alignment explanation
Indices: 3304718--3304884 Score: 246
Period size: 73 Copynumber: 2.3 Consensus size: 73
3304708 AAGGAAGAAG
* * *
3304718 AAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCATTTGATGGATCAGCTTT
1 AAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTCATCATTTGATGGATCAACATT
*
3304783 TCCAAAG-A
66 GCC-AAGTA
* *
3304791 AAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTCATCATTTGATGGATCAACATT
1 AAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTCATCATTTGATGGATCAACATT
*
3304856 GCCAGGTA
66 GCCAAGTA
*
3304864 GAGTTCATAATGAGAAGAACT
1 AAGTTCATAATGAGAAGAACT
3304885 CTTCATCTGA
Statistics
Matches: 84, Mismatches: 9, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
72 2 0.02
73 82 0.98
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (73 bp):
AAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTCATCATTTGATGGATCAACATT
GCCAAGTA
Found at i:3305341 original size:3 final size:3
Alignment explanation
Indices: 3305333--3305429 Score: 106
Period size: 3 Copynumber: 31.7 Consensus size: 3
3305323 TTCATTTAAA
* *
3305333 TAT TAT TAT TAT TAT TAT TAT TAT TAT AAT AAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
3305381 AAT TACT AAT T-T TAT TATT TAT TAC TAA TAT TAT TAT TAAT TAT TAT
1 TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT T-AT TAT TAT
3305428 TA
1 TA
3305430 CAAACGGGCC
Statistics
Matches: 81, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
2 2 0.02
3 71 0.88
4 8 0.10
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:3310096 original size:27 final size:25
Alignment explanation
Indices: 3310053--3310103 Score: 59
Period size: 27 Copynumber: 2.0 Consensus size: 25
3310043 TATATAAAAT
*
3310053 TTTAATTTAATACAATTATTATTTTAA
1 TTTAATTAAATACAA-T-TTATTTTAA
3310080 TTTAATTCAAATA-AATTTATTTTA
1 TTTAATT-AAATACAATTTATTTTA
3310104 CTCAAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
25 8 0.36
26 1 0.05
27 9 0.41
28 4 0.18
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (25 bp):
TTTAATTAAATACAATTTATTTTAA
Found at i:3312141 original size:14 final size:13
Alignment explanation
Indices: 3312118--3312147 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
3312108 TAAAACATAT
3312118 TAAATAATAAATA
1 TAAATAATAAATA
3312131 TAAATATATAAATA
1 TAAATA-ATAAATA
3312145 TAA
1 TAA
3312148 TCAAAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
TAAATAATAAATA
Found at i:3314341 original size:22 final size:22
Alignment explanation
Indices: 3314315--3314356 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
3314305 TCTCGGACTG
3314315 CTCCGATGATGTTCATCTCCTC
1 CTCCGATGATGTTCATCTCCTC
* **
3314337 CTCCGTTTCTGTTCATCTCC
1 CTCCGATGATGTTCATCTCC
3314357 ATTAACGTCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.10, C:0.38, G:0.12, T:0.40
Consensus pattern (22 bp):
CTCCGATGATGTTCATCTCCTC
Found at i:3315462 original size:3 final size:3
Alignment explanation
Indices: 3315454--3315527 Score: 80
Period size: 3 Copynumber: 25.0 Consensus size: 3
3315444 CCATTTGTTT
* *
3315454 TTA TTA TTA TTA TTG TTA TTA TTA TT- TTA TTTA TTA CTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
* * *
3315499 TT- TTA TAA TAA TAA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
3315528 AAAAAATACT
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
2 4 0.06
3 55 0.89
4 3 0.05
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:3315540 original size:23 final size:22
Alignment explanation
Indices: 3315488--3315541 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
3315478 TTTTATTTAT
* *
3315488 TACTATTATTATTTTATAATAA
1 TACTATTATTATTTTAAAAAAA
*
3315510 TAATTATTATTATTATTAAAAAAA
1 T-ACTATTATTATT-TTAAAAAAA
3315534 TACTATTA
1 TACTATTA
3315542 CAAACAGGCC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 1 0.04
23 17 0.65
24 8 0.31
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (22 bp):
TACTATTATTATTTTAAAAAAA
Found at i:3316970 original size:21 final size:21
Alignment explanation
Indices: 3316919--3316971 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
3316909 ATTCTGACTA
*
3316919 TCGCATTGTGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* * *
3316940 TCACGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCAAAT
*
3316961 TCGCAATGCGA
1 TCGCATTGCGA
3316972 ATACGTAAAT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:3316986 original size:20 final size:20
Alignment explanation
Indices: 3316961--3317088 Score: 150
Period size: 20 Copynumber: 6.3 Consensus size: 20
3316951 TTTTCCTAAT
3316961 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
** *
3316981 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAA-TACGTAAA
** *
3317002 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAA-TACGTAAA
3317023 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
3317043 TCGCAATGTGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
3317063 TCGCAACGCGAAT-CTGTAAA
1 TCGCAATGCGAATAC-GTAAA
3317083 TCGCAA
1 TCGCAA
3317089 CGCGGATCTA
Statistics
Matches: 97, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
19 1 0.01
20 58 0.60
21 38 0.39
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.22
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:3317004 original size:21 final size:21
Alignment explanation
Indices: 3316961--3317035 Score: 116
Period size: 21 Copynumber: 3.6 Consensus size: 21
3316951 TTTTCCTAAT
** *
3316961 TCGCAATGCGAA-TACGTAAA
1 TCGCAATGCGAATTTGGAAAA
3316981 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTTGGAAAA
3317002 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTTGGAAAA
3317023 TCGCAATGCGAAT
1 TCGCAATGCGAAT
3317036 ACGTAAATCG
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
20 12 0.24
21 39 0.76
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAATTTGGAAAA
Found at i:3317122 original size:20 final size:20
Alignment explanation
Indices: 3317099--3317148 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
3317089 CGCGGATCTA
*
3317099 ACTATCGCAACGAGATTCTG
1 ACTATCGCAACAAGATTCTG
*
3317119 ACTATCGTAACAAGATTCTG
1 ACTATCGCAACAAGATTCTG
3317139 ACTATCGCAA
1 ACTATCGCAA
3317149 TACTGAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (20 bp):
ACTATCGCAACAAGATTCTG
Found at i:3319523 original size:20 final size:20
Alignment explanation
Indices: 3319498--3319565 Score: 93
Period size: 20 Copynumber: 3.4 Consensus size: 20
3319488 CAACACGGAA
*
3319498 ATCGCAACAC-GAATATGATT
1 ATCGCAACACAGAA-ATGACT
3319518 ATCGCAACACAGAAATGACT
1 ATCGCAACACAGAAATGACT
* *
3319538 ATCGCAACGCGGAAATGACT
1 ATCGCAACACAGAAATGACT
3319558 ATCGCAAC
1 ATCGCAAC
3319566 GAGAGAATCG
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
20 41 0.93
21 3 0.07
ACGTcount: A:0.40, C:0.25, G:0.18, T:0.18
Consensus pattern (20 bp):
ATCGCAACACAGAAATGACT
Found at i:3319588 original size:33 final size:34
Alignment explanation
Indices: 3319538--3319633 Score: 131
Period size: 33 Copynumber: 2.9 Consensus size: 34
3319528 AGAAATGACT
* * **
3319538 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGCAGAAATGAAAATCGCAACGAGAGA
*
3319572 ATCGCAATGC-GAAATGAAAATCGCAACGAGTGA
1 ATCGCAATGCAGAAATGAAAATCGCAACGAGAGA
*
3319605 ATCGCAATGCAAAAATGAAAATCGCAACG
1 ATCGCAATGCAGAAATGAAAATCGCAACG
3319634 CGAATTTAGT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
33 30 0.54
34 26 0.46
ACGTcount: A:0.43, C:0.21, G:0.23, T:0.14
Consensus pattern (34 bp):
ATCGCAATGCAGAAATGAAAATCGCAACGAGAGA
Found at i:3319709 original size:33 final size:33
Alignment explanation
Indices: 3319650--3319743 Score: 116
Period size: 33 Copynumber: 2.8 Consensus size: 33
3319640 TAGTTTCGCG
*
3319650 TTGCGATTTTCATTTTTGCATTGCGATTCTCTCA
1 TTGCGATTTTCA-TTTCGCATTGCGATTCTCTCA
*
3319684 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCA
* ** *
3319717 TTGCAATAGTCATTTCCGCGTTGCGAT
1 TTGCGATTTTCATTT-CGCATTGCGAT
3319744 AGTCTGTTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
33 31 0.58
34 22 0.42
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCA
Found at i:3319868 original size:14 final size:14
Alignment explanation
Indices: 3319849--3319885 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
3319839 CATCAATTAA
3319849 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
3319863 ACAAATCACCTTTT
1 ACAAATCAACATTT
3319877 ACAAATCAA
1 ACAAATCAA
3319886 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:3321880 original size:20 final size:20
Alignment explanation
Indices: 3321857--3321929 Score: 119
Period size: 20 Copynumber: 3.6 Consensus size: 20
3321847 GAAACTTAAA
3321857 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
3321877 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* *
3321897 ATCGCAATGCGAAAAAGACT
1 ATCGCAACGCGAAAATGACT
*
3321917 ATCGCAATGCGAA
1 ATCGCAACGCGAA
3321930 TTTAACTATC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.41, C:0.23, G:0.21, T:0.15
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:3321937 original size:20 final size:19
Alignment explanation
Indices: 3321857--3321941 Score: 80
Period size: 20 Copynumber: 4.3 Consensus size: 19
3321847 GAAACTTAAA
* *
3321857 ATCGCAACGCGAAAATGACT
1 ATCGCAATGCG-AAATAACT
* *
3321877 ATCGCAACGCGAAAATGACT
1 ATCGCAATGCG-AAATAACT
*
3321897 ATCGCAATGCGAAAAAGACT
1 ATCGCAATGCGAAATA-ACT
*
3321917 ATCGCAATGCGAATTTAACT
1 ATCGCAATGCGAA-ATAACT
3321937 ATCGC
1 ATCGC
3321942 GACGAGAGAA
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
19 3 0.05
20 54 0.93
21 1 0.02
ACGTcount: A:0.39, C:0.24, G:0.19, T:0.19
Consensus pattern (19 bp):
ATCGCAATGCGAAATAACT
Found at i:3321938 original size:40 final size:40
Alignment explanation
Indices: 3321857--3321941 Score: 116
Period size: 40 Copynumber: 2.1 Consensus size: 40
3321847 GAAACTTAAA
* *
3321857 ATCGCAACGCGAAAATGACTATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAAAGACTATCGCAACGCGAAAATAACT
* * **
3321897 ATCGCAATGCGAAAAAGACTATCGCAATGCGAATTTAACT
1 ATCGCAACGCGAAAAAGACTATCGCAACGCGAAAATAACT
3321937 ATCGC
1 ATCGC
3321942 GACGAGAGAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.39, C:0.24, G:0.19, T:0.19
Consensus pattern (40 bp):
ATCGCAACGCGAAAAAGACTATCGCAACGCGAAAATAACT
Found at i:3322015 original size:20 final size:20
Alignment explanation
Indices: 3321990--3322126 Score: 104
Period size: 20 Copynumber: 7.5 Consensus size: 20
3321980 GATTGTTTCG
3321990 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
**
3322010 TTGCGATAGTCATTTTCGTG
1 TTGCGATAGTCATTTTCGCA
3322030 TTGCGAT--T--TTGTT-G--
1 TTGCGATAGTCATT-TTCGCA
**
3322044 TTGCGATTTTCA-TTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
3322063 TTGCGAT--TC--TCTCG--
1 TTGCGATAGTCATTTTCGCA
* *
3322077 TTGCGATAGTCATTTCCGCG
1 TTGCGATAGTCATTTTCGCA
3322097 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
3322117 TTGCGATAGT
1 TTGCGATAGT
3322127 AAACTATTCT
Statistics
Matches: 96, Mismatches: 7, Indels: 28
0.73 0.05 0.21
Matches are distributed among these distances:
14 14 0.15
16 12 0.12
17 6 0.06
18 4 0.04
19 7 0.07
20 53 0.55
ACGTcount: A:0.15, C:0.19, G:0.23, T:0.43
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:3322060 original size:87 final size:87
Alignment explanation
Indices: 3321962--3322123 Score: 270
Period size: 87 Copynumber: 1.9 Consensus size: 87
3321952 TCGCAATGCA
* * *
3321962 ATTTTCATTTCGCATTGCGATTGTTTCGTTGCGATAGTCATTTTCGCATTGCGATAGTCATTTTC
1 ATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATAGTCATTTCCGCATTGCGATAGTCATTTTC
**
3322027 GTGTTGCGATTTTGTTGTTGCG
66 GCATTGCGATTTTGTTGTTGCG
*
3322049 ATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATAGTCATTTCCGCGTTGCGATAGTCATTTTC
1 ATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATAGTCATTTCCGCATTGCGATAGTCATTTTC
3322114 GCATTGCGAT
66 GCATTGCGAT
3322124 AGTAAACTAT
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 69 1.00
ACGTcount: A:0.15, C:0.19, G:0.22, T:0.44
Consensus pattern (87 bp):
ATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATAGTCATTTCCGCATTGCGATAGTCATTTTC
GCATTGCGATTTTGTTGTTGCG
Found at i:3322067 original size:33 final size:34
Alignment explanation
Indices: 3322010--3322103 Score: 100
Period size: 33 Copynumber: 2.8 Consensus size: 34
3322000 CATTTTCGCA
* ** * * *
3322010 TTGCGATAGTCATTTTCGTGTTGCGATTTTGTTG
1 TTGCGATAGTCATTTCCGCATTGCGATTCTCTCG
**
3322044 TTGCGATTTTCATTT-CGCATTGCGATTCTCTCG
1 TTGCGATAGTCATTTCCGCATTGCGATTCTCTCG
*
3322077 TTGCGATAGTCATTTCCGCGTTGCGAT
1 TTGCGATAGTCATTTCCGCATTGCGAT
3322104 AGTCATTTTC
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
33 26 0.53
34 23 0.47
ACGTcount: A:0.13, C:0.19, G:0.23, T:0.45
Consensus pattern (34 bp):
TTGCGATAGTCATTTCCGCATTGCGATTCTCTCG
Found at i:3324020 original size:20 final size:20
Alignment explanation
Indices: 3323997--3324086 Score: 101
Period size: 20 Copynumber: 4.5 Consensus size: 20
3323987 TCTGAAACTT
3323997 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
3324017 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** * **
3324037 ACTATCGCAACGCGAATTTG
1 AAAATCGCAACACGAAAATG
** *
3324057 ACTATCGCAACGCG-AAATG
1 AAAATCGCAACACGAAAATG
3324076 AAAATCGCAAC
1 AAAATCGCAAC
3324087 GACAGAATCA
Statistics
Matches: 61, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
19 12 0.20
20 49 0.80
ACGTcount: A:0.46, C:0.23, G:0.17, T:0.14
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:3324485 original size:22 final size:22
Alignment explanation
Indices: 3324423--3324488 Score: 96
Period size: 22 Copynumber: 3.0 Consensus size: 22
3324413 TGACCGTGAA
* *
3324423 TGATTTCGCCGGAGATGGAGAC
1 TGATTTCGTCGGAGATGGGGAC
* *
3324445 TGATATCGTGGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
3324467 TGATTTCGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
3324489 GGATGTCGCC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.21, C:0.14, G:0.41, T:0.24
Consensus pattern (22 bp):
TGATTTCGTCGGAGATGGGGAC
Done.