Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold16
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: 5287347
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 8769 characters in sequence are not A, C, G, or T
File 20 of 35
Found at i:3128049 original size:33 final size:33
Alignment explanation
Indices: 3128004--3128085 Score: 128
Period size: 33 Copynumber: 2.5 Consensus size: 33
3127994 CTCTCTCTAT
*
3128004 TATCTCTGCTATCTCTCCTCCTATCATCCCTCC
1 TATCTCTACTATCTCTCCTCCTATCATCCCTCC
3128037 TATCTCTACTATCTCTCCTCCTATCATCCCTCC
1 TATCTCTACTATCTCTCCTCCTATCATCCCTCC
* * *
3128070 TCTCTCTTCTTTCTCT
1 TATCTCTACTATCTCT
3128086 TTGAGGGCTA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.11, C:0.44, G:0.01, T:0.44
Consensus pattern (33 bp):
TATCTCTACTATCTCTCCTCCTATCATCCCTCC
Found at i:3129777 original size:28 final size:28
Alignment explanation
Indices: 3129736--3129809 Score: 96
Period size: 28 Copynumber: 2.6 Consensus size: 28
3129726 GAAATAAAAT
3129736 CGAGGTTAGAGTATCCCCTTAGAAA-TAA
1 CGAGGTTAGAGTATCCCC-TAGAAATTAA
* * *
3129764 CGGGGTTCGAGTATCCCCTCGAAATTAA
1 CGAGGTTAGAGTATCCCCTAGAAATTAA
*
3129792 CGAGGTTGGAGTATCCCC
1 CGAGGTTAGAGTATCCCC
3129810 GATGGTGGAA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
27 5 0.12
28 35 0.88
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (28 bp):
CGAGGTTAGAGTATCCCCTAGAAATTAA
Found at i:3129856 original size:79 final size:78
Alignment explanation
Indices: 3129764--3130001 Score: 269
Period size: 79 Copynumber: 3.0 Consensus size: 78
3129754 TTAGAAATAA
* * *
3129764 CGGGGTTCGAGTATCCCCTCGAAATTAACGAGGTTGGAGTATCCCCGATGGTGGAAAATTGGTGT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACG-GGTTGGAGTATCCCCGATGGTGGAAAATCGGTGT
3129829 TTTAGAAATAAAAT
65 TTTAGAAATAAAAT
* * * * * * *
3129843 CGGGGTTGGAGTATCCCTTCAAAAATAATGGCATTGGAGTATCCCCGATTGTGAAAAAAATCGAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGG-GTTGGAGTATCCCCGATGGTG--GAAAATCGGT
*
3129908 GTTTTGGAAATAAAAT
63 GTTTTAGAAATAAAAT
* * * * * *
3129924 CGAGGTTGGACTATCCTCTTGAAAATAACTGGGTTGGAGTATCCCCAATGATGGAAAATCGGTGT
1 CGGGGTTGGAGTATCCCCTCGAAAATAAC-GGGTTGGAGTATCCCCGATGGTGGAAAATCGGTGT
*
3129989 TTTAGAAAGAAAA
65 TTTAGAAATAAAA
3130002 ACATGAATAA
Statistics
Matches: 129, Mismatches: 26, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
78 1 0.01
79 65 0.50
81 61 0.47
82 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (78 bp):
CGGGGTTGGAGTATCCCCTCGAAAATAACGGGTTGGAGTATCCCCGATGGTGGAAAATCGGTGTT
TTAGAAATAAAAT
Found at i:3129931 original size:81 final size:79
Alignment explanation
Indices: 3129797--3130001 Score: 234
Period size: 81 Copynumber: 2.6 Consensus size: 79
3129787 ATTAACGAGG
* * * * *
3129797 TTGGAGTATCCCCGATGGTGGAAAATTGGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCC-CT
1 TTGGAGTATCCCCGATGGTGAAAAATCGATGTTTTAGAAATAAAATCGAGGTTGGACTATCCTCT
3129861 TCAAAAATAA-TGGCA
66 T-AAAAATAACTGG-A
* *
3129876 TTGGAGTATCCCCGATTGTGAAAAAAATCGATGTTTTGGAAATAAAATCGAGGTTGGACTATCCT
1 TTGGAGTATCCCCGATGGTG--AAAAATCGATGTTTTAGAAATAAAATCGAGGTTGGACTATCCT
* *
3129941 CTTGAAAATAACTGGG
64 CTTAAAAATAACTGGA
* * * * *
3129957 TTGGAGTATCCCCAATGATGGAAAATCGGTGTTTTAGAAAGAAAA
1 TTGGAGTATCCCCGATGGTGAAAAATCGATGTTTTAGAAATAAAA
3130002 ACATGAATAA
Statistics
Matches: 106, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
79 40 0.38
81 60 0.57
82 6 0.06
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.29
Consensus pattern (79 bp):
TTGGAGTATCCCCGATGGTGAAAAATCGATGTTTTAGAAATAAAATCGAGGTTGGACTATCCTCT
TAAAAATAACTGGA
Found at i:3150007 original size:157 final size:154
Alignment explanation
Indices: 3149590--3150284 Score: 472
Period size: 157 Copynumber: 4.4 Consensus size: 154
3149580 GAAAATCCTT
* * * * * * *
3149590 TTTTTTTTCTCTATTGTCCTAAGAATCAAAGTTCATGCCTCAAATGAGACAGAA-ATGGATTCTC
1 TTTTTTTTCACCATTTTCCTTAGAATCAAAGTTCATCCCTCAAATGAGA-AAAATATGGATTCTT
* * * * ** * * * *
3149654 ATAATAATATCCATTCTTCTCATGATTGGACAATGAAAACACGCTT-TCTTCATTAAGATACATG
65 GTAATAATATCCATTCTTTTCACG-TTGG-TAACAAAAACAC-ATTCTCCTCTTTAGGATACATG
** * *
3149718 ATATTGATGCTTTAATTTCGCAAAAAAAG
127 ATATTGATGCTTTGGTTTTG-AAGAAAAG
* ** * ** * ** ** *
3149747 CTATTCTTCCCACCATTTTCCTTAGAATGAATA-TTTGTCCCTTAAATGAGGTAAGCATTGATTC
1 -T-TTTTTTTCACCATTTTCCTTAGAATCAA-AGTTCATCCCTCAAATGAGAAAAATATGGATTC
* * * *
3149811 TTGTAAT-ACATCCATTCTTTTAACGATTAGGTAATAAAAACAAATTCTCCTCTTTAGGATACA-
63 TTGTAATAATATCCATTCTTTTCACG-TT-GGTAACAAAAACACATTCTCCTCTTTAGGATACAT
* *
3149874 CAAATTGATGCTTTGGTTTTGTAAGAAAAG
126 GATATTGATGCTTTGGTTTTG-AAGAAAAG
* * *
3149904 TTTTCTTTTCATCATTTTCCTTAGAATCAAAGTTCATTCCTCAAATGAGAAAAATATGGATTTTT
1 TTTT-TTTTCACCATTTTCCTTAGAATCAAAGTTCATCCCTCAAATGAGAAAAATATGGATTCTT
*
3149969 GTAATAATATCCATTCTTTTCATTGTTGGGTAACAAAAACACATTCTCCT-TATTAGGATACATG
65 GTAATAATATCCATTCTTTTCA-CGTT-GGTAACAAAAACACATTCTCCTCT-TTAGGATACATG
* *
3150033 ATATTGATGTTTTGGTTTTGAATGAAAAAC
127 ATATTGATGCTTTGGTTTTGAA-G-AAAAG
* * * ** * * *
3150063 TTTTATTTCCCACCATTGTCATTAGAATCAAAGTTTGTCCCTAAAATGAGATACACT-TGGATTC
1 TTTT-TTT-TCACCATTTTCCTTAGAATCAAAGTTCATCCCTCAAATGAGA-AAAATATGGATTC
** * * * * ** * * * * *
3150127 TCATAAAAATCTCAATTCTTTTCAGGTTTCTCACATAAACACATTTTTCTCATT-GGATTACATG
63 TTGTAATAATATCCATTCTTTTCACGTTGGTAACAAAAACACATTCTCCTCTTTAGGA-TACATG
*
3150191 ATATTGATTCTTTGGTTTTGCAAGAAAAG
127 ATATTGATGCTTTGGTTTTG-AAGAAAAG
* * *
3150220 TTTTTATTTCAACCATTTTCCTTAGAA-CAAATGTTCAACCCTCAAATGAGACAAACATGGATTC
1 TTTTT-TTTC-ACCATTTTCCTTAGAATCAAA-GTTCATCCCTCAAATGAGAAAAATATGGATTC
3150284 T
63 T
3150285 CAAAAGAATA
Statistics
Matches: 414, Mismatches: 101, Indels: 45
0.74 0.18 0.08
Matches are distributed among these distances:
155 3 0.01
156 58 0.14
157 123 0.30
158 104 0.25
159 63 0.15
160 60 0.14
161 3 0.01
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.38
Consensus pattern (154 bp):
TTTTTTTTCACCATTTTCCTTAGAATCAAAGTTCATCCCTCAAATGAGAAAAATATGGATTCTTG
TAATAATATCCATTCTTTTCACGTTGGTAACAAAAACACATTCTCCTCTTTAGGATACATGATAT
TGATGCTTTGGTTTTGAAGAAAAG
Found at i:3151611 original size:42 final size:42
Alignment explanation
Indices: 3151556--3151674 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
3151546 TTCTTCTCTC
* *
3151556 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
*
3151598 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
3151640 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
3151675 TTGAGGGCTA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.08, C:0.46, G:0.03, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:3151615 original size:12 final size:11
Alignment explanation
Indices: 3151589--3151664 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
3151579 TCTATTATCT
*
3151589 CTCCTGTCTCTC
1 CTCCTATCTC-C
3151601 CTCCTATCATCC
1 CTCCTATC-TCC
3151613 CTCCTATCT--
1 CTCCTATCTCC
*
3151622 CTACTATCT--
1 CTCCTATCTCC
*
3151631 CTCCTGTCTCTC
1 CTCCTATCTC-C
3151643 CTCCTATCATCC
1 CTCCTATC-TCC
*
3151655 CTCCTCTCTC
1 CTCCTATCTC
3151665 TTCTTTCTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 3 0.06
12 31 0.58
13 4 0.08
ACGTcount: A:0.09, C:0.49, G:0.03, T:0.39
Consensus pattern (11 bp):
CTCCTATCTCC
Found at i:3151616 original size:24 final size:24
Alignment explanation
Indices: 3151580--3151665 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
3151570 CCTCCTCTCT
* *
3151580 CTATTATCTCTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
* *
3151604 CTATCATCCCTCC--TATCT-CTA
1 CTATCATCCCTCCTGTCTCTCCTC
3151625 CTATC-T--CTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
*
3151646 CTATCATCCCTCCTCTCTCT
1 CTATCATCCCTCCTGTCTCT
3151666 TCTTTCTCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 4 0.08
20 5 0.10
21 14 0.29
22 5 0.10
24 21 0.43
ACGTcount: A:0.10, C:0.45, G:0.02, T:0.42
Consensus pattern (24 bp):
CTATCATCCCTCCTGTCTCTCCTC
Found at i:3151640 original size:18 final size:18
Alignment explanation
Indices: 3151571--3151641 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 18
3151561 CCTGTCATCC
* *
3151571 CTCCTCTCTCTATTATCT
1 CTCCTGTCTCTACTATCT
*
3151589 CTCCTGTCTCTCCTCCTATCAT
1 CTCCTG--TCT-CTACTATC-T
*
3151611 CCCTCCTATCTCTACTATCT
1 --CTCCTGTCTCTACTATCT
3151631 CTCCTGTCTCT
1 CTCCTGTCTCT
3151642 CCTCCTATCA
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
18 15 0.37
20 4 0.10
21 13 0.32
22 4 0.10
24 5 0.12
ACGTcount: A:0.10, C:0.44, G:0.03, T:0.44
Consensus pattern (18 bp):
CTCCTGTCTCTACTATCT
Found at i:3155477 original size:147 final size:147
Alignment explanation
Indices: 3155225--3155769 Score: 803
Period size: 147 Copynumber: 3.7 Consensus size: 147
3155215 TACTTTGGTG
* *
3155225 TTGCAA-AAATAGCTTTTCTTTTCACCATTTTCCTTAGAATCAAAGTTTGTTCCTCAAAAGGGAC
1 TTGCAAGAAA-AGCTTTTCTTTCCACCATTTTCCTTAGAATCAAAGTTTGTTCCACAAAAGGGAC
* * *
3155289 AAATTTAAATTCTCGTCATTATATCCATTCCTTTTATGATTGGGGAGCAAAAACACATTCTTCTC
65 AAACTTGAATTCTCGTAATTATATCCATTCCTTTTATGATTGGGGAGCAAAAACACATTCTTCTC
3155354 ATTATTGATGCTTTACTT
130 ATTATTGATGCTTTACTT
* * *
3155372 TTGAAAGAAAAGCTTTTCTTTCCGCCATTTTCCTTAGAATCAAAGTTTGTTCCACATAAGGGACA
1 TTGCAAGAAAAGCTTTTCTTTCCACCATTTTCCTTAGAATCAAAGTTTGTTCCACAAAAGGGACA
*
3155437 AACTTGAATTCTCGTAATTATATCCATTCCTTTTACGATTGGGGAGCAAAAACACATTCTTCTCA
66 AACTTGAATTCTCGTAATTATATCCATTCCTTTTATGATTGGGGAGCAAAAACACATTCTTCTCA
3155502 TTATTGATGCTTTACTT
131 TTATTGATGCTTTACTT
* * *
3155519 TTGCAAGAAAAG-TTTTCTTTCCACCATTTTGCATAGAATCAAAGTTTGTTCCACAAAAGGAACA
1 TTGCAAGAAAAGCTTTTCTTTCCACCATTTTCCTTAGAATCAAAGTTTGTTCCACAAAAGGGACA
* *
3155583 AACTTGAATTCTCGTAATTATATCCATTCCTTTTATGATTAGGGAGC-AAAA-ACATTTTTCTCA
66 AACTTGAATTCTCGTAATTATATCCATTCCTTTTATGATTGGGGAGCAAAAACACATTCTTCTCA
3155646 TTATTGATGCTTTACTT
131 TTATTGATGCTTTACTT
* * ** * * *
3155663 TCGCAAGAAAAGCTTTTCTTTCCACTATTTTCCTTAGAATCAAAGTTCATTCCTCAAATGAGACA
1 TTGCAAGAAAAGCTTTTCTTTCCACCATTTTCCTTAGAATCAAAGTTTGTTCCACAAAAGGGACA
* * * * *
3155728 AACATGGATTCTCATAATAATATCCATT-ATTTTCATGATTGG
66 AACTTGAATTCTCGTAATTATATCCATTCCTTTT-ATGATTGG
3155770 ACAACAAAAG
Statistics
Matches: 361, Mismatches: 34, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
144 43 0.12
145 78 0.22
146 92 0.25
147 145 0.40
148 3 0.01
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (147 bp):
TTGCAAGAAAAGCTTTTCTTTCCACCATTTTCCTTAGAATCAAAGTTTGTTCCACAAAAGGGACA
AACTTGAATTCTCGTAATTATATCCATTCCTTTTATGATTGGGGAGCAAAAACACATTCTTCTCA
TTATTGATGCTTTACTT
Found at i:3155935 original size:158 final size:158
Alignment explanation
Indices: 3155667--3157664 Score: 1348
Period size: 158 Copynumber: 12.6 Consensus size: 158
3155657 TTACTTTCGC
* * * *
3155667 AAGAAAAGCTTTTCTTTCCACTATTTTCCTTAGAATCAAAGTTCATTCCTCAAATGAGACAAACA
1 AAGAAAAGCTTTTCTTTCCACCATTTTCCTTAGAATCAAAGTTCATCCCTTAAATGAGACAAACT
** * * * *
3155732 TGGATTCTCATAATAATATCCATTATTTTCATGATTGGACAACAAAAGCACATTTTCCTCGTTAG
66 TGGATTCTTGTAATAATATCCATTCTTTTCATGATTGGTCAACAAAAGCACATTCTCCTCATTAG
*
3155797 GATACACATATTGCTTCTTTGGTTTTGA
131 GATACACATATTGATTCTTTGGTTTTGA
* * * * *
3155825 AATAGAAGCTTTTCTTTCCACCATTTTCTTTAAAATCAAAGTTCATCCCTCAAATGAGACAAACT
1 AAGAAAAGCTTTTCTTTCCACCATTTTCCTTAGAATCAAAGTTCATCCCTTAAATGAGACAAACT
* * ** * * * *
3155890 TTGATTCTTGCAATAATATCCATTCCATTCATGATTGGTCAACAAAAACACATTGTCTTTATTAG
66 TGGATTCTTGTAATAATATCCATTCTTTTCATGATTGGTCAACAAAAGCACATTCTCCTCATTAG
* * *
3155955 GATACACAATTTTGA-TCTTTGTTTTTGC
131 GATACAC-ATATTGATTCTTTGGTTTTGA
* * ** ** * **
3155983 AATAAAAACTTTTC-TTCTTGCCATTTTCCTTAGAATCAAAGTTTGTTCCTTAAACAAGACAAAC
1 AAGAAAAGCTTTTCTTTC-CACCATTTTCCTTAGAATCAAAGTTCATCCCTTAAATGAGACAAAC
* * * * * * * *
3156047 ATT-CATTCTAGAAATAATAACCTTTCCTTTCATGATTAGG-CAGCAAAAGCACATTCTTCTCAT
65 -TTGGATTCTTGTAATAATATCCATTCTTTTCATGATT-GGTCAACAAAAGCACATTCTCCTCAT
* * *
3156110 TAGGATACACAATATTGATGCTTTGG-ATTCA
128 TAGGATACAC-ATATTGATTCTTTGGTTTTGA
* * * *
3156141 GAAGAAAAGCTTTTCTTTTCTATCATTTTTCTTAGAATCAAAGTTCGTCCCTTAAATGAGACAAA
1 -AAGAAAAGCTTTTC-TTTCCACCATTTTCCTTAGAATCAAAGTTCATCCCTTAAATGAGACAAA
* * * * * * * **
3156206 -TATAGATT-TTCATAATAATTTCCACTCTTTTTAGGATTAGGT-AACAAAAGAACA-TCTATTC
64 CT-TGGATTCTT-GTAATAATATCCATTCTTTTCATGATT-GGTCAACAAAAGCACATTCTCCTC
* * * * * *
3156267 ATTAGGATACATTACATTGGTGCTTTCGTTTTGC
126 ATTAGGATACA-CATATTGATTCTTTGGTTTTGA
* * ** * * * *
3156301 AAGGAAAGTTTTTC-TTCCACCAAATTCCTTAGAATCAAAGTTCATTCCTAAAATG-GACAAGCA
1 AAGAAAAGCTTTTCTTTCCACCATTTTCCTTAGAATCAAAGTTCATCCCTTAAATGAGACAAACT
* * * * * * *
3156364 TGGATTCCTGTAATAAGATCCATTCTTTTCATGATTGGTTAACAAAATCATAGTCTCCTTATTAG
66 TGGATTCTTGTAATAATATCCATTCTTTTCATGATTGGTCAACAAAAGCACATTCTCCTCATTAG
* *
3156429 GATTCACGATATTGATTCTTTGG-TTTCA
131 GATACAC-ATATTGATTCTTTGGTTTTGA
* * * * *
3156457 CAAGAAAAGTTTTTCTTTCTACTATTTT-C-TACGGAAACAAAGTTTATCCCTTAAATGAGACAA
1 -AAGAAAAGCTTTTCTTTCCACCATTTTCCTTA--GAATCAAAGTTCATCCCTTAAATGAGACAA
* ** * * ** * * *
3156520 AATTGGATTCTCATAAAAATCTTAATTCTTTTCATGATT-GTCACCATAATCACATTCTCCTCAT
63 ACTTGGATTCTTGTAATAATATCCATTCTTTTCATGATTGGTCAACAAAAGCACATTCTCCTCAT
* ** * ** * *
3156584 T-GGGTACATGTTATTGAATCTTTGGCATCGT
128 TAGGATACA-CATATTGATTCTTTGGTTTTGA
* * * ** *
3156615 AGGAAATGCTTTTCTTTCCACCATTTTCTTTAGAATCAAAGTTCATCCCTTAAACAAGACAGACA
1 AAGAAAAGCTTTTCTTTCCACCATTTTCCTTAGAATCAAAGTTCATCCCTTAAATGAGACAAAC-
* * * * *
3156680 TT-GATTCTAGAAATAATATCCTTTCTTTTCATGATTAGG-CAGCAAAAGCACATTCTTCTCATT
65 TTGGATTCTTGTAATAATATCCATTCTTTTCATGATT-GGTCAACAAAAGCACATTCTCCTCATT
* * *
3156743 AGGATACACAATATTGATGCTTTGG-ATTCA
129 AGGATACAC-ATATTGATTCTTTGGTTTTGA
* * *
3156773 GAAGAAAAGCTTTTCTTTTCTATCATTTTTCC-TAGAATCAAAGTTCGTCCCTTAAATGAGACAA
1 -AAGAAAAGCTTTTC-TTTCCACCA-TTTTCCTTAGAATCAAAGTTCATCCCTTAAATGAGACAA
* * * * * * **
3156837 A-TATAGATT-TTCATAATAATTTCCACTCTTTTCAGGATTAGGT-AACAAAAGAACATT-TATT
63 ACT-TGGATTCTT-GTAATAATATCCATTCTTTTCATGATT-GGTCAACAAAAGCACATTCTCCT
* * * * * *
3156898 CATTAGGATACATTACATTGGTGCTTTCGTTTTGC
125 CATTAGGATACA-CATATTGATTCTTTGGTTTTGA
* * ** * * * *
3156933 AAGGAAAGTTTTTC-TTCCACCAAATTCCTTAGAATCAAAGTTCATTCCTAAAATG-GACAAGCA
1 AAGAAAAGCTTTTCTTTCCACCATTTTCCTTAGAATCAAAGTTCATCCCTTAAATGAGACAAACT
* * * * * *
3156996 TGGATTCCTGTAATAAGATCCATTGTTTTCATGATTGGTTAACAAAACCACAGTCTCCTCATTAG
66 TGGATTCTTGTAATAATATCCATTCTTTTCATGATTGGTCAACAAAAGCACATTCTCCTCATTAG
* *
3157061 GATTCACGATATTGATTCTTT-GTTTTCA
131 GATACAC-ATATTGATTCTTTGGTTTTGA
* * * * ** * *
3157089 CAAGAAAAGTTTTTCTTTCCACCCTTTTCCTTCGAAACAAAGTTTGTCCCTTAAAAG-GACAAAA
1 -AAGAAAAGCTTTTCTTTCCACCATTTTCCTTAGAATCAAAGTTCATCCCTTAAATGAGACAAAC
* *** * * * * * ** *
3157153 TTGGATCCTCACAAAAATCTCAATTCTTTTCATGATTTGTCACCGTAATCACATTCTCCTCATT-
65 TTGGATTCTTGTAATAATATCCATTCTTTTCATGATTGGTCAACAAAAGCACATTCTCCTCATTA
* ** * ** *
3157217 GGGTACATGTTATTGAATCTTT-GCATTGT
130 GGATACA-CATATTGATTCTTTGGTTTTGA
* * * * * * *
3157246 AGGAAATGCTTTTCTTTCCACCATATTCCTCAAAATCAAAGTTCAT-CCTTCAAATGAGGCAAGC
1 AAGAAAAGCTTTTCTTTCCACCATTTTCCTTAGAATCAAAGTTCATCCCTT-AAATGAGACAAAC
* * * * * **
3157310 ATGGATTCTTGTAATACTATCCATTCTTCTCTTGATTGGGCAACAAAAAAACATTCTCCTCATTA
65 TTGGATTCTTGTAATAATATCCATTCTTTTCATGATTGGTCAACAAAAGCACATTCTCCTCATTA
* * * * *
3157375 GTATACAAGATATTAACAT-TTTGG-TTTCA
130 GGATAC-ACATATTGA-TTCTTTGGTTTTGA
* ** * *
3157404 CAAGAAAAGCTTTTATTTGTACCATTTTCCTTAGAATCAAAGTTCATCCTTTAAATGAGACAAGC
1 -AAGAAAAGCTTTTCTTTCCACCATTTTCCTTAGAATCAAAGTTCATCCCTTAAATGAGACAAAC
* * ** * * * * * *
3157469 TTGGATGCTTGTAATAATCTTAATTCTATTCATGATTTGTCACCAAAAACACATTCTCTTCATTG
65 TTGGATTCTTGTAATAATATCCATTCTTTTCATGATTGGTCAACAAAAGCACATTCTCCTCATTA
* * * * *
3157534 GGATACATGAAATTGATGCATTGG-TTTCA
130 GGATACA-CATATTGATTCTTTGGTTTTGA
* * * * *
3157563 CAAGAAAAGCTTTTCTTTCTACCATTTTCCTTAAAATCAAGGTTTGA-ACCTTAAATGAGACAAA
1 -AAGAAAAGCTTTTCTTTCCACCATTTTCCTTAGAATCAAAG-TTCATCCCTTAAATGAGACAAA
*** * * * *
3157627 CTCAAATTCTTCTAAAAATCTCAATTCTTTTCATGATT
64 CTTGGATTCTTGTAATAATATCCATTCTTTTCATGATT
3157665 TGGCACCATA
Statistics
Matches: 1407, Mismatches: 371, Indels: 123
0.74 0.20 0.06
Matches are distributed among these distances:
155 10 0.01
156 135 0.10
157 303 0.22
158 413 0.29
159 380 0.27
160 158 0.11
161 8 0.01
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.37
Consensus pattern (158 bp):
AAGAAAAGCTTTTCTTTCCACCATTTTCCTTAGAATCAAAGTTCATCCCTTAAATGAGACAAACT
TGGATTCTTGTAATAATATCCATTCTTTTCATGATTGGTCAACAAAAGCACATTCTCCTCATTAG
GATACACATATTGATTCTTTGGTTTTGA
Found at i:3156900 original size:632 final size:629
Alignment explanation
Indices: 3155648--3157466 Score: 2316
Period size: 632 Copynumber: 2.9 Consensus size: 629
3155638 TTTTCTCATT
* * * * * **
3155648 ATTGATGCTTTAC-TTTCGCAAGAAAAGCTTTTCTTTCCACTATTTTCCTTAGAATCAAAGTTCA
1 ATTGGTGCTTT-CGTTTTGCAAGGAAAGTTTTTC-TTCCACCAAATTCCTTAGAATCAAAGTTCA
* * * * * **
3155712 TTCCTCAAATGAGACAAACATGGATT-CTCATAATAATATCCATTATTTTCATGATTGGACAACA
64 TTCCTAAAATG-GACAAGCATGGATTCCT-GTAATAAGATCCATTCTTTTCATGATTGGTTAACA
* * * * * * * * * *
3155776 AAAGCACATTTTCCTCGTTAGGATACAC-ATATTGCTTCTTTGGTTTTGA-AATAGAAGCTTTTC
127 AAACCACAGTCTCCTCATTAGGATTCACGATATTGATTCTTTGG-TTTCACAAGAAAAGTTTTTC
* * * * * * * **
3155839 TTTCCACCATTTTCTTTA--AAATCAAAGTTCATCCCTCAAATGAGACAAACTTTGATTCTTGCA
191 TTTCCACCATTTTC-CTACGAAA-CAAAGTTTATCCCTTAAAAG-GACAAAATTGGATCCTCACA
* * * ** * * * * * * * * **
3155902 ATAATATCCATTCCATTCATGATTGGTCAACAAAAACACATTGTCTTTATTAGGATACACAATT-
253 AAAATCTCAATTCTTTTCATGATTTGTCACCATAATCACATTCTCCTCATT-GGGTACA-TGTTA
** * * ** ** ** **
3155966 TTG-ATCTTTGTTTTTGCAATAAAAACTTTTC-TTCTTGCCATTTTCCTTAGAATCAAAGTTTGT
316 TTGAATCTTTG-CATCGTAGGAAATGCTTTTCTTTC-CACCATTTTCCTTAGAATCAAAG-TTCA
* * *
3156029 TCCTTAAACAAGACAAACATTCATTCTAGAAATAATAACCTTTCCTTTCATGATTAGGCAGCAAA
378 TCCTTAAACAAGAC-AACATTGATTCTAGAAATAATATCCTTTCTTTTCATGATTAGGCAGCAAA
3156094 AGCACATTCTTCTCATTAGGATACACAATATTGATGCTTTGGATTCAGAAGAAAAGCTTTTCTTT
442 AGCACATTCTTCTCATTAGGATACACAATATTGATGCTTTGGATTCAGAAGAAAAGCTTTTCTTT
*
3156159 TCTATCATTTTTCTTAGAATCAAAGTTCGTCCCTTAAATGAGACAAATATAGATTTTCATAATAA
507 TCTATCATTTTTCCTAGAATCAAAGTTCGTCCCTTAAATGAGACAAATATAGATTTTCATAATAA
*
3156224 TTTCCACTCTTTTTAGGATTAGGTAACAAAAGAACATCTATTCATTAGGATACATTAC
572 TTTCCACTCTTTTCAGGATTAGGTAACAAAAGAACATCTATTCATTAGGATACATTAC
3156282 ATTGGTGCTTTCGTTTTGCAAGGAAAGTTTTTCTTCCACCAAATTCCTTAGAATCAAAGTTCATT
1 ATTGGTGCTTTCGTTTTGCAAGGAAAGTTTTTCTTCCACCAAATTCCTTAGAATCAAAGTTCATT
*
3156347 CCTAAAATGGACAAGCATGGATTCCTGTAATAAGATCCATTCTTTTCATGATTGGTTAACAAAAT
66 CCTAAAATGGACAAGCATGGATTCCTGTAATAAGATCCATTCTTTTCATGATTGGTTAACAAAAC
* * *
3156412 CATAGTCTCCTTATTAGGATTCACGATATTGATTCTTTGGTTTCACAAGAAAAGTTTTTCTTTCT
131 CACAGTCTCCTCATTAGGATTCACGATATTGATTCTTTGGTTTCACAAGAAAAGTTTTTCTTTCC
* * * *
3156477 ACTATTTT-CTACGGAAACAAAGTTTATCCCTTAAATGAGACAAAATTGGATTCTCATAAAAATC
196 ACCATTTTCCTAC-GAAACAAAGTTTATCCCTTAAAAG-GACAAAATTGGATCCTCACAAAAATC
*
3156541 TTAATTCTTTTCATGA-TTGTCACCATAATCACATTCTCCTCATTGGGTACATGTTATTGAATCT
259 TCAATTCTTTTCATGATTTGTCACCATAATCACATTCTCCTCATTGGGTACATGTTATTGAATCT
*
3156605 TTGGCATCGTAGGAAATGCTTTTCTTTCCACCATTTTCTTTAGAATCAAAGTTCATCCCTTAAAC
324 TT-GCATCGTAGGAAATGCTTTTCTTTCCACCATTTTCCTTAGAATCAAAGTTCAT-CCTTAAAC
3156670 AAGACAGACATTGATTCTAGAAATAATATCCTTTCTTTTCATGATTAGGCAGCAAAAGCACATTC
387 AAGACA-ACATTGATTCTAGAAATAATATCCTTTCTTTTCATGATTAGGCAGCAAAAGCACATTC
3156735 TTCTCATTAGGATACACAATATTGATGCTTTGGATTCAGAAGAAAAGCTTTTCTTTTCTATCATT
451 TTCTCATTAGGATACACAATATTGATGCTTTGGATTCAGAAGAAAAGCTTTTCTTTTCTATCATT
3156800 TTTCCTAGAATCAAAGTTCGTCCCTTAAATGAGACAAATATAGATTTTCATAATAATTTCCACTC
516 TTTCCTAGAATCAAAGTTCGTCCCTTAAATGAGACAAATATAGATTTTCATAATAATTTCCACTC
*
3156865 TTTTCAGGATTAGGTAACAAAAGAACATTTATTCATTAGGATACATTAC
581 TTTTCAGGATTAGGTAACAAAAGAACATCTATTCATTAGGATACATTAC
3156914 ATTGGTGCTTTCGTTTTGCAAGGAAAGTTTTTCTTCCACCAAATTCCTTAGAATCAAAGTTCATT
1 ATTGGTGCTTTCGTTTTGCAAGGAAAGTTTTTCTTCCACCAAATTCCTTAGAATCAAAGTTCATT
*
3156979 CCTAAAATGGACAAGCATGGATTCCTGTAATAAGATCCATTGTTTTCATGATTGGTTAACAAAAC
66 CCTAAAATGGACAAGCATGGATTCCTGTAATAAGATCCATTCTTTTCATGATTGGTTAACAAAAC
*
3157044 CACAGTCTCCTCATTAGGATTCACGATATTGATTCTTTGTTTTCACAAGAAAAGTTTTTCTTTCC
131 CACAGTCTCCTCATTAGGATTCACGATATTGATTCTTTGGTTTCACAAGAAAAGTTTTTCTTTCC
* * *
3157109 ACCCTTTTCCTTCGAAACAAAGTTTGTCCCTTAAAAGGACAAAATTGGATCCTCACAAAAATCTC
196 ACCATTTTCCTACGAAACAAAGTTTATCCCTTAAAAGGACAAAATTGGATCCTCACAAAAATCTC
*
3157174 AATTCTTTTCATGATTTGTCACCGTAATCACATTCTCCTCATTGGGTACATGTTATTGAATCTTT
261 AATTCTTTTCATGATTTGTCACCATAATCACATTCTCCTCATTGGGTACATGTTATTGAATCTTT
* * * * **
3157239 GCATTGTAGGAAATGCTTTTCTTTCCACCATATTCCTCAAAATCAAAGTTCATCCTTCAAATGAG
326 GCATCGTAGGAAATGCTTTTCTTTCCACCATTTTCCTTAGAATCAAAGTTCATCCTT-AAACAAG
* * * * * * * * * * ** *
3157304 GCAAGCATGGATTCTTGTAATACTATCCATTCTTCTCTTGATTGGGCAACAAAAAAACATTCTCC
390 ACAA-CATTGATTCTAGAAATAATATCCTTTCTTTTCATGATTAGGCAGCAAAAGCACATTCTTC
* * *** * * * * *
3157369 TCATTAGTATACA-AGATATTAACATTTTGGTTTCACAAGAAAAGCTTTT-ATTTGTACCA-TTT
454 TCATTAGGATACACA-ATATTGATGCTTTGGATTCAGAAGAAAAGCTTTTCTTTTCTATCATTTT
* *
3157431 TCCTTAGAATCAAAGTTCATCCTTTAAATGAGACAA
518 TCC-TAGAATCAAAGTTCGTCCCTTAAATGAGACAA
3157467 GCTTGGATGC
Statistics
Matches: 1048, Mismatches: 118, Indels: 42
0.87 0.10 0.03
Matches are distributed among these distances:
629 6 0.01
630 45 0.04
631 197 0.19
632 637 0.61
633 133 0.13
634 30 0.03
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.37
Consensus pattern (629 bp):
ATTGGTGCTTTCGTTTTGCAAGGAAAGTTTTTCTTCCACCAAATTCCTTAGAATCAAAGTTCATT
CCTAAAATGGACAAGCATGGATTCCTGTAATAAGATCCATTCTTTTCATGATTGGTTAACAAAAC
CACAGTCTCCTCATTAGGATTCACGATATTGATTCTTTGGTTTCACAAGAAAAGTTTTTCTTTCC
ACCATTTTCCTACGAAACAAAGTTTATCCCTTAAAAGGACAAAATTGGATCCTCACAAAAATCTC
AATTCTTTTCATGATTTGTCACCATAATCACATTCTCCTCATTGGGTACATGTTATTGAATCTTT
GCATCGTAGGAAATGCTTTTCTTTCCACCATTTTCCTTAGAATCAAAGTTCATCCTTAAACAAGA
CAACATTGATTCTAGAAATAATATCCTTTCTTTTCATGATTAGGCAGCAAAAGCACATTCTTCTC
ATTAGGATACACAATATTGATGCTTTGGATTCAGAAGAAAAGCTTTTCTTTTCTATCATTTTTCC
TAGAATCAAAGTTCGTCCCTTAAATGAGACAAATATAGATTTTCATAATAATTTCCACTCTTTTC
AGGATTAGGTAACAAAAGAACATCTATTCATTAGGATACATTAC
Found at i:3158744 original size:157 final size:154
Alignment explanation
Indices: 3158294--3158745 Score: 408
Period size: 157 Copynumber: 2.9 Consensus size: 154
3158284 TACTTGTCTT
* * ** *
3158294 ATTTGAGGGATGAACTTTAATTCTAAGGAAAATGGTGGAAAGAAAAGCTTTTCTTGCGAAAGCAA
1 ATTTGAGGGATGAACTTTGATTCTAAGGAAAATGGTGGAAAAAAAAGCTTTTCTTATGAAACCAA
* ** *
3158359 AGCATCAATTTCCTGTATCCT-ATGAAGGAGAATGTGTTTTTGTTACCTAATCATGAAAACAATG
66 AGCATCAATATAATGTATCCTAATGAA-GAGAATGTGTTTTTGTT-GCTAATCATGAAAA-AATG
* * * *
3158423 GATATTATAATAAGAATCCATGTTTGTCTC
128 GATA-T-T-ATAACAATCCAAGCTTATCTC
* * * * * * **
3158453 ACTTTAAGGTATGAACTTTGATTCT-AGAAAAATAGTGG-AAAGAGAGCTTTTCCAATGAAACCA
1 A-TTTGAGGGATGAACTTTGATTCTAAGGAAAATGGTGGAAAAAAAAGCTTTTCTTATGAAACCA
* ** * ** * * * **
3158516 AAGCATCACTATTGTGTATCCCAATG-AGAAGAACATGTTTATGGTGACAAATCATGAAAAAAAA
65 AAGCATCAATATAATGTATCCTAATGAAG-AGAATGTGTTTTTGTTG-CTAATCATGAAAAAATG
* *
3158580 CATTATTATGACAATCCAAGCTTATCTC
128 GA-TATTATAACAATCCAAGCTTATCTC
3158608 ATTTGAGGGATGAACTTTGATTCTAAGGAAAATGGTGGAAAAAAAAAGCTTTTCTTATGAAACCA
1 ATTTGAGGGATGAACTTTGATTCTAAGGAAAATGGTGG-AAAAAAAAGCTTTTCTTATGAAACCA
* * ***
3158673 AACCATCAATATAATGTATCTTAATGAAGAGAATGTGTTTTTGTTGCTTGGCGATGAAAAGAATG
65 AAGCATCAATATAATGTATCCTAATGAAGAGAATGTGTTTTTGTTGCTAATC-ATGAAAA-AATG
3158738 GATATTAT
128 GATATTAT
3158746 TGTGAGAATC
Statistics
Matches: 225, Mismatches: 57, Indels: 24
0.74 0.19 0.08
Matches are distributed among these distances:
154 21 0.09
155 28 0.12
156 3 0.01
157 72 0.32
158 66 0.29
159 15 0.07
160 20 0.09
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (154 bp):
ATTTGAGGGATGAACTTTGATTCTAAGGAAAATGGTGGAAAAAAAAGCTTTTCTTATGAAACCAA
AGCATCAATATAATGTATCCTAATGAAGAGAATGTGTTTTTGTTGCTAATCATGAAAAAATGGAT
ATTATAACAATCCAAGCTTATCTC
Found at i:3158807 original size:104 final size:104
Alignment explanation
Indices: 3158673--3158984 Score: 563
Period size: 104 Copynumber: 3.0 Consensus size: 104
3158663 TATGAAACCA
* *
3158673 AACCATCAATATAATGTATCTTAATGAAGAGAATGTGTTTTTGTTGCTTGGCGATGAAAAGAATG
1 AACCATCAATATCATGTATCTTAATGAAGAGAATGTGTTTTTGTTGCCTGGCGATGAAAAGAATG
3158738 GATATTATTGTGAGAATCCATGTATGTCTCATTTAAGGG
66 GATATTATTGTGAGAATCCATGTATGTCTCATTTAAGGG
*
3158777 AACCATCAATATCATGTATCTTAATGAAGAGAATGTGTTTTTGTTGCCTGGCGATGAAAAGAGTG
1 AACCATCAATATCATGTATCTTAATGAAGAGAATGTGTTTTTGTTGCCTGGCGATGAAAAGAATG
3158842 GATATTATTGTGAGAATCCATGTATGTCTCATTTAAGGG
66 GATATTATTGTGAGAATCCATGTATGTCTCATTTAAGGG
* *
3158881 AACCATCAATATCATGTATCTTAATGAAGAGAATGTG-CTTTATTGCCTGGCGATGAAAAGAATG
1 AACCATCAATATCATGTATCTTAATGAAGAGAATGTGTTTTTGTTGCCTGGCGATGAAAAGAATG
*
3158945 GATATTATTGTGAGAATCCATGTATGTCTCATTTGAGGG
66 GATATTATTGTGAGAATCCATGTATGTCTCATTTAAGGG
3158984 A
1 A
3158985 TAAACTTTGA
Statistics
Matches: 201, Mismatches: 7, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
103 63 0.31
104 138 0.69
ACGTcount: A:0.32, C:0.11, G:0.22, T:0.34
Consensus pattern (104 bp):
AACCATCAATATCATGTATCTTAATGAAGAGAATGTGTTTTTGTTGCCTGGCGATGAAAAGAATG
GATATTATTGTGAGAATCCATGTATGTCTCATTTAAGGG
Found at i:3159930 original size:159 final size:159
Alignment explanation
Indices: 3158884--3159948 Score: 758
Period size: 159 Copynumber: 6.8 Consensus size: 159
3158874 TTAAGGGAAC
* * * * **
3158884 CATCAATATCATGTATCTTAATGAAGAG-A-ATGTGCTTTATTGCCT-GGCGATGAAAAGAATGG
1 CATCAATATCATGTATCCTAATGAAGAGAACATGT-TTTTGTTGTCTAATC-ATGAAAAGAATGG
* * * * * *
3158946 ATATTATTGTGAGAATCCATGTATGTCTCATTTGAGGGATAAACTTTGATTCTAAGGAAAATGGA
64 ATATTATTATGAGAATCCAAGTTTGTCTCATTTGAGAGACAAACTTTGATTCTAAGGAAAATGGT
* * *
3159011 GGAAAGAAAAGCTTTTATTGTGAAA-TCAAAA
129 GGAAAGGAAAGCTTTTCTTGTCAAACT-AAAA
* * ** * *
3159042 CATCATTTTTGTGTATGCTAATGAAGAGAATCA--TTTTTGTTGTCTAATCATG-AAAGAATAGA
1 CATCAATATCATGTATCCTAATGAAGAGAA-CATGTTTTTGTTGTCTAATCATGAAAAGAATGGA
* ** * * **
3159104 TATTATTATGAGAATTCATTTTTGTCTCGTTAGAGAGATGAACTTTGATTCTAA-GAAAAGTGGT
65 TATTATTATGAGAATCCAAGTTTGTCTCATTTGAGAGACAAACTTTGATTCTAAGGAAAA-TGGT
* * * *
3159168 GGAAA-GAGAAGCTTCTCTTGTTAAACTATAC
129 GGAAAGGA-AAGCTTTTCTTGTCAAACTAAAA
** * * * *** * * * *
3159199 CATCAATATTGTGCATCCTTATGAGGAGAATGGGTTTTTGTTGCCCAATCATGAAAGGAGTGGAT
1 CATCAATATCATGTATCCTAATGAAGAGAACATGTTTTTGTTGTCTAATCATGAAAAGAATGGAT
* * * *
3159264 ATTATTATGAGAATCCAAGTTTGTCTCATTT-AGGGTCGAACTTTGATT-TAAAGAAAATGGTGG
66 ATTATTATGAGAATCCAAGTTTGTCTCATTTGAGAGACAAACTTTGATTCTAAGGAAAATGGTGG
* * *
3159327 AAAAGAAAGTTTTTCTTG-CAAA--ACGAA
131 AAAGGAAAGCTTTTCTTGTCAAACTA-AAA
* * * *** * * * * *
3159354 GA-CAATATAATGTATCC-AATCAAGAGAACATGTTGAAGGTGACAAATCATGAAAAGAATTGAG
1 CATCAATATCATGTATCCTAATGAAGAGAACATGTTTTTGTTGTCTAATCATGAAAAGAATGGAT
* * * *
3159417 ATTTTTATAAGAATCCTCA-TTTGTCTCATTTTA-AGGACAAACTTTGATTCTAAGGAAAATGGT
66 ATTATTATGAGAATCC-AAGTTTGTCTCATTTGAGA-GACAAACTTTGATTCTAAGGAAAATGGT
* * **
3159480 GGAAAGAAAAGCTTTTCTTGTGAAAGC-AAGG
129 GGAAAGGAAAGCTTTTCTTGTCAAA-CTAAAA
* * * * ** *
3159511 CATCAATAT-AGTGTATCCTAAT-AA-AG-ACA---ATATGTT-TTTAATGACCAAAAGAATAGA
1 CATCAATATCA-TGTATCCTAATGAAGAGAACATGTTTTTGTTGTCTAATCATGAAAAGAATGGA
** * * ** * *
3159568 TATTATTACAAGAATCCAAGTTTGCCTCATTTGAGAAATGAACTTTGACTCTAAGGAAAATAGTG
65 TATTATTATGAGAATCCAAGTTTGTCTCATTTGAGAGACAAACTTTGATTCTAAGGAAAATGGTG
*
3159633 GAAA-GATAAGCATTTCTTG-CGAAACTAAAA
130 GAAAGGA-AAGCTTTTCTTGTC-AAACTAAAA
* * ** * * *
3159663 CAACAATATCATGTATCCTAATGAGGAGAATGTGTTTTTATTGTCCAATCATGAAAATAATGGAT
1 CATCAATATCATGTATCCTAATGAAGAGAACATGTTTTTGTTGTCTAATCATGAAAAGAATGGAT
*** * * * * *
3159728 ATTATTGCAAGAATCTATGTTTGTCTCATTTAAG-GA-ATGAACTTTGGTTCAAAGGAAAATAGG
66 ATTATTATGAGAATCCAAGTTTGTCTCATTTGAGAGACA--AACTTTGATTCTAAGGAAAAT-GG
* *
3159791 -GGAAAGGAAAGCTTTTCTTGTCCAATTAAAA
128 TGGAAAGGAAAGCTTTTCTTGTCAAACTAAAA
* * *
3159822 CATCAAGATCATGTATCCTAATGAGGAGAACATGTTTTTGTTG-CATAATCATGAAAAGAATTGA
1 CATCAATATCATGTATCCTAATGAAGAGAACATGTTTTTGTTGTC-TAATCATGAAAAGAATGGA
* *
3159886 TATTATTATGAGCATCCAAGTTTGTCTCATTTGATAGACAAACTTTGATATC-AAGGAAAATGG
65 TATTATTATGAGAATCCAAGTTTGTCTCATTTGAGAGACAAACTTTGAT-TCTAAGGAAAATGG
3159949 GACCAAACAA
Statistics
Matches: 702, Mismatches: 160, Indels: 90
0.74 0.17 0.09
Matches are distributed among these distances:
151 3 0.00
152 103 0.15
153 62 0.09
154 29 0.04
155 32 0.05
156 15 0.02
157 129 0.18
158 96 0.14
159 223 0.32
160 8 0.01
161 2 0.00
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.32
Consensus pattern (159 bp):
CATCAATATCATGTATCCTAATGAAGAGAACATGTTTTTGTTGTCTAATCATGAAAAGAATGGAT
ATTATTATGAGAATCCAAGTTTGTCTCATTTGAGAGACAAACTTTGATTCTAAGGAAAATGGTGG
AAAGGAAAGCTTTTCTTGTCAAACTAAAA
Found at i:3160297 original size:16 final size:16
Alignment explanation
Indices: 3160276--3160364 Score: 72
Period size: 16 Copynumber: 5.6 Consensus size: 16
3160266 CCTGAATCTG
3160276 AAATGACCCTAACCTA
1 AAATGACCCTAACCTA
* *
3160292 AAATGACCTTAATCTA
1 AAATGACCCTAACCTA
* * **
3160308 GAATGACCCGAACCCG
1 AAATGACCCTAACCTA
* * *
3160324 AAATGACCCGAATCTG
1 AAATGACCCTAACCTA
*
3160340 AAATGA-CCTGAACCCA
1 AAATGACCCT-AACCTA
3160356 AAATGACCC
1 AAATGACCC
3160365 GAATCCGAAA
Statistics
Matches: 56, Mismatches: 15, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
15 2 0.04
16 52 0.93
17 2 0.04
ACGTcount: A:0.40, C:0.29, G:0.13, T:0.17
Consensus pattern (16 bp):
AAATGACCCTAACCTA
Found at i:3160313 original size:32 final size:32
Alignment explanation
Indices: 3160269--3160395 Score: 134
Period size: 32 Copynumber: 4.0 Consensus size: 32
3160259 TCAACAACCT
* *
3160269 GAATCTGAAATGACCCTAACCTAAAATGACCT
1 GAATCTGAAATGACCCTAACCCAAAATGACCC
* * *
3160301 TAATCT-AGAATGACCCGAACCCGAAATGACCC
1 GAATCTGA-AATGACCCTAACCCAAAATGACCC
3160333 GAATCTGAAATGA-CCTGAACCCAAAATGACCC
1 GAATCTGAAATGACCCT-AACCCAAAATGACCC
* * *
3160365 GAATCCGAAATGA-CTTGAACCCGAAATGACC
1 GAATCTGAAATGACCCT-AACCCAAAATGACC
3160396 TAAATAATTA
Statistics
Matches: 81, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
31 3 0.04
32 77 0.95
33 1 0.01
ACGTcount: A:0.39, C:0.28, G:0.16, T:0.17
Consensus pattern (32 bp):
GAATCTGAAATGACCCTAACCCAAAATGACCC
Found at i:3160329 original size:48 final size:48
Alignment explanation
Indices: 3160275--3160396 Score: 136
Period size: 48 Copynumber: 2.5 Consensus size: 48
3160265 ACCTGAATCT
* * * * *
3160275 GAAATGACCCTAACCTAAAATGACCTTAATCTAGAATGACCCGAACCC
1 GAAATGACCCGAACCTAAAATGACCTGAACCCAAAATGACCCGAACCC
* * *
3160323 GAAATGACCCGAATCTGAAATGACCTGAACCCAAAATGACCCGAATCC
1 GAAATGACCCGAACCTAAAATGACCTGAACCCAAAATGACCCGAACCC
** **
3160371 GAAATGACTTGAACCCGAAATGACCT
1 GAAATGACCCGAACCTAAAATGACCT
3160397 AAATAATTAA
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 62 1.00
ACGTcount: A:0.39, C:0.28, G:0.16, T:0.17
Consensus pattern (48 bp):
GAAATGACCCGAACCTAAAATGACCTGAACCCAAAATGACCCGAACCC
Found at i:3160375 original size:16 final size:16
Alignment explanation
Indices: 3160309--3160395 Score: 111
Period size: 16 Copynumber: 5.4 Consensus size: 16
3160299 CTTAATCTAG
3160309 AATGACCCGAACCCGA
1 AATGACCCGAACCCGA
* *
3160325 AATGACCCGAATCTGA
1 AATGACCCGAACCCGA
* *
3160341 AATGACCTGAACCCAA
1 AATGACCCGAACCCGA
*
3160357 AATGACCCGAATCCGA
1 AATGACCCGAACCCGA
**
3160373 AATGACTTGAACCCGA
1 AATGACCCGAACCCGA
3160389 AATGACC
1 AATGACC
3160396 TAAATAATTA
Statistics
Matches: 58, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 58 1.00
ACGTcount: A:0.39, C:0.30, G:0.17, T:0.14
Consensus pattern (16 bp):
AATGACCCGAACCCGA
Found at i:3160431 original size:56 final size:56
Alignment explanation
Indices: 3160350--3160474 Score: 180
Period size: 56 Copynumber: 2.2 Consensus size: 56
3160340 AAATGACCTG
* ** *
3160350 AACCCAAAATGA-CCCGAATCCGAAATGACTTGAACCCGAAATGACCTAAATAATT
1 AACCCGAAATGACCCCGAATCCGAAATGACTCAAACCCAAAATGACCTAAATAATT
* *
3160405 AACCCGAAATGACCCCGAATCCGAAATGACTCAAACCCAAAATGACTTGAATAATT
1 AACCCGAAATGACCCCGAATCCGAAATGACTCAAACCCAAAATGACCTAAATAATT
*
3160461 AACCTGAAATGACC
1 AACCCGAAATGACC
3160475 TGAACTTAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
55 11 0.18
56 51 0.82
ACGTcount: A:0.43, C:0.26, G:0.13, T:0.18
Consensus pattern (56 bp):
AACCCGAAATGACCCCGAATCCGAAATGACTCAAACCCAAAATGACCTAAATAATT
Found at i:3161496 original size:22 final size:22
Alignment explanation
Indices: 3161471--3161575 Score: 201
Period size: 22 Copynumber: 4.8 Consensus size: 22
3161461 AGAATGACCC
3161471 AAACCCGATTAACCCGAGTGTT
1 AAACCCGATTAACCCGAGTGTT
3161493 AAACCCGATTAACCCGAGTGTT
1 AAACCCGATTAACCCGAGTGTT
3161515 AAACCCGATTAACCCGAGTGTT
1 AAACCCGATTAACCCGAGTGTT
*
3161537 AAACCCAATTAACCCGAGTGTT
1 AAACCCGATTAACCCGAGTGTT
3161559 AAACCCGATTAACCCGA
1 AAACCCGATTAACCCGA
3161576 ACCTGAAATG
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 81 1.00
ACGTcount: A:0.34, C:0.29, G:0.16, T:0.21
Consensus pattern (22 bp):
AAACCCGATTAACCCGAGTGTT
Found at i:3161500 original size:44 final size:43
Alignment explanation
Indices: 3161450--3161575 Score: 119
Period size: 44 Copynumber: 2.9 Consensus size: 43
3161440 AAACCCGATT
*
3161450 AACCCGA-ATCCAGAATGACCCAAACCCGATTAACCCGAGTGTTA
1 AACCCGATAACCAGAATG--CCAAACCCGATTAACCCGAGTGTTA
* * **
3161494 AACCCGATTAACCCGAGTGTTAAACCCGATTAACCCGAGTGTTA
1 AACCCGA-TAACCAGAATGCCAAACCCGATTAACCCGAGTGTTA
* * * **
3161538 AACCCAATTAACCCGAGTGTTAAACCCGATTAACCCGA
1 AACCCGA-TAACCAGAATGCCAAACCCGATTAACCCGA
3161576 ACCTGAAATG
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
44 67 0.91
46 7 0.09
ACGTcount: A:0.35, C:0.30, G:0.16, T:0.19
Consensus pattern (43 bp):
AACCCGATAACCAGAATGCCAAACCCGATTAACCCGAGTGTTA
Found at i:3161594 original size:16 final size:16
Alignment explanation
Indices: 3161570--3161691 Score: 113
Period size: 16 Copynumber: 7.6 Consensus size: 16
3161560 AACCCGATTA
*
3161570 ACCCGAACCTGAAATG
1 ACCCAAACCTGAAATG
**
3161586 ACCCAAACCTGAAACA
1 ACCCAAACCTGAAATG
3161602 ACCCAAA-CTCGAAATG
1 ACCCAAACCT-GAAATG
*
3161618 ACCCGAACCTGAAATG
1 ACCCAAACCTGAAATG
* *
3161634 ACCTAAATCT-AAAGTG
1 ACCCAAACCTGAAA-TG
*
3161650 ACCCGAACCTGAAATG
1 ACCCAAACCTGAAATG
* **
3161666 ACCCGAACCCAAAATG
1 ACCCAAACCTGAAATG
*
3161682 TCCCAAACCT
1 ACCCAAACCT
3161692 AAAAACAACC
Statistics
Matches: 85, Mismatches: 17, Indels: 8
0.77 0.15 0.07
Matches are distributed among these distances:
15 5 0.06
16 75 0.88
17 5 0.06
ACGTcount: A:0.41, C:0.33, G:0.13, T:0.13
Consensus pattern (16 bp):
ACCCAAACCTGAAATG
Found at i:3161628 original size:48 final size:47
Alignment explanation
Indices: 3161570--3161694 Score: 144
Period size: 48 Copynumber: 2.6 Consensus size: 47
3161560 AACCCGATTA
3161570 ACCCGAACCTGAAATGACCCAAACCTGAAACAACCCAAA-CTCGAAATG
1 ACCCGAACCTGAAATGACCCAAACCT-AAACAACCCAAACCT-GAAATG
* * ** *
3161618 ACCCGAACCTGAAATGACCTAAATCTAAAGTGACCCGAACCTGAAATG
1 ACCCGAACCTGAAATGACCCAAACCTAAA-CAACCCAAACCTGAAATG
** *
3161666 ACCCGAACCCAAAATGTCCCAAACCTAAA
1 ACCCGAACCTGAAATGACCCAAACCTAAA
3161695 AACAACCTGA
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
47 3 0.05
48 60 0.92
49 2 0.03
ACGTcount: A:0.42, C:0.32, G:0.13, T:0.13
Consensus pattern (47 bp):
ACCCGAACCTGAAATGACCCAAACCTAAACAACCCAAACCTGAAATG
Found at i:3161765 original size:15 final size:16
Alignment explanation
Indices: 3161747--3161857 Score: 66
Period size: 16 Copynumber: 7.0 Consensus size: 16
3161737 ACCCGAACTC
3161747 GAAA-GACCCAAACCT
1 GAAATGACCCAAACCT
**
3161762 GAAACAACCCAAA-CT
1 GAAATGACCCAAACCT
* *
3161777 CAAAATGACCCGAACCT
1 -GAAATGACCCAAACCT
* *
3161794 GAAATGACCTAAATCT
1 GAAATGACCCAAACCT
* * *
3161810 -AAAGTCACCCGAACCC
1 GAAA-TGACCCAAACCT
* *
3161826 GAAATGACCCGAACCC
1 GAAATGACCCAAACCT
* *
3161842 AAAATGTCCCAAACCT
1 GAAATGACCCAAACCT
3161858 AAAAACAACC
Statistics
Matches: 72, Mismatches: 19, Indels: 9
0.72 0.19 0.09
Matches are distributed among these distances:
15 9 0.12
16 58 0.81
17 5 0.07
ACGTcount: A:0.43, C:0.33, G:0.12, T:0.12
Consensus pattern (16 bp):
GAAATGACCCAAACCT
Found at i:3161791 original size:166 final size:167
Alignment explanation
Indices: 3161546--3161886 Score: 632
Period size: 166 Copynumber: 2.0 Consensus size: 167
3161536 TAAACCCAAT
3161546 TAACCCGAGTGTTAAACCCGATTAACCCGAACCTGAAATGACCCAAACCTGAAACAACCCAAACT
1 TAACCCGAGTGTTAAACCCGATTAACCCGAACCTGAAATGACCCAAACCTGAAACAACCCAAACT
* * *
3161611 CGAAATGACCCGAACCTGAAATGACCTAAATCTAAAGTGACCCGAACCTGAAATGACCCGAACCC
66 CAAAATGACCCGAACCTGAAATGACCTAAATCTAAAGTCACCCGAACCCGAAATGACCCGAACCC
3161676 AAAATGTCCCAAACCTAAAAACAACCTGAAAATTTTA
131 AAAATGTCCCAAACCTAAAAACAACCTGAAAATTTTA
3161713 TAACCCGAGTGTTAAACCCGATTAACCCGAA-CTCGAAA-GACCCAAACCTGAAACAACCCAAAC
1 TAACCCGAGTGTTAAACCCGATTAACCCGAACCT-GAAATGACCCAAACCTGAAACAACCCAAAC
3161776 TCAAAATGACCCGAACCTGAAATGACCTAAATCTAAAGTCACCCGAACCCGAAATGACCCGAACC
65 TCAAAATGACCCGAACCTGAAATGACCTAAATCTAAAGTCACCCGAACCCGAAATGACCCGAACC
3161841 CAAAATGTCCCAAACCTAAAAACAACCTGAAAATTTTA
130 CAAAATGTCCCAAACCTAAAAACAACCTGAAAATTTTA
3161879 TAACCCGA
1 TAACCCGA
3161887 AATAACCCAA
Statistics
Matches: 170, Mismatches: 3, Indels: 3
0.97 0.02 0.02
Matches are distributed among these distances:
166 135 0.79
167 35 0.21
ACGTcount: A:0.42, C:0.30, G:0.12, T:0.16
Consensus pattern (167 bp):
TAACCCGAGTGTTAAACCCGATTAACCCGAACCTGAAATGACCCAAACCTGAAACAACCCAAACT
CAAAATGACCCGAACCTGAAATGACCTAAATCTAAAGTCACCCGAACCCGAAATGACCCGAACCC
AAAATGTCCCAAACCTAAAAACAACCTGAAAATTTTA
Found at i:3161793 original size:32 final size:31
Alignment explanation
Indices: 3161736--3161797 Score: 88
Period size: 32 Copynumber: 2.0 Consensus size: 31
3161726 AAACCCGATT
* *
3161736 AACCCGAACTCGAAAGACCCAAACCTGAAAC
1 AACCCAAACTCAAAAGACCCAAACCTGAAAC
*
3161767 AACCCAAACTCAAAATGACCCGAACCTGAAA
1 AACCCAAACTCAAAA-GACCCAAACCTGAAA
3161798 TGACCTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 13 0.48
32 14 0.52
ACGTcount: A:0.47, C:0.34, G:0.11, T:0.08
Consensus pattern (31 bp):
AACCCAAACTCAAAAGACCCAAACCTGAAAC
Found at i:3161898 original size:15 final size:15
Alignment explanation
Indices: 3161880--3161914 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
3161870 AAAATTTTAT
3161880 AACCCGAAATAACCC
1 AACCCGAAATAACCC
*
3161895 AACCCGAAATAATCC
1 AACCCGAAATAACCC
3161910 AACCC
1 AACCC
3161915 AAAACCAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.46, C:0.40, G:0.06, T:0.09
Consensus pattern (15 bp):
AACCCGAAATAACCC
Found at i:3162238 original size:158 final size:157
Alignment explanation
Indices: 3162011--3162435 Score: 450
Period size: 158 Copynumber: 2.7 Consensus size: 157
3162001 CTCAATCAAG
* * * *
3162011 GAAATAATAGATATTATTACAAGAATCTATGTTTGTCTCATTTGAGGGATGAACTTTGATTCTAA
1 GAAAAAATGGATA-TATTATAAGAATCCATGTTTGTCTCATTTGAGGGATGAACTTTGATTCTAA
* *
3162076 GGAAAATGGTGGAAAAAAAAGCTTTTCCTATGAAACCAAAGCATCAAT-ATCGTGTATCTTAATA
65 GGAAAATGGTGGAAAAAAAAGCTTTTCCTATGAAACCAAAGAATCAATAAT-GTGTATCCTAATA
* * * *
3162140 AGGAGAGTGTGTTT-TGGTTGTCCAATCAT
129 AGGAGAATGTGTTTATAG-TGACAAATCAT
* *
3162169 GAAAAAATGGATATAATTATAAGAATCCATG-TAGATCTCATTTGAGGGATGAATTTTGATTCTA
1 GAAAAAATGGATAT-ATTATAAGAATCCATGTTTG-TCTCATTTGAGGGATGAACTTTGATTCTA
* * *
3162233 AGGAAAATGGCGAAAAAAAAAGCTTTT-CT-TGCAAAACCAAAGAATTAATAATGTGTATCCTAA
64 AGGAAAATGGTGGAAAAAAAAGCTTTTCCTATG--AAACCAAAGAATCAATAATGTGTATCCTAA
*
3162296 TATGGAGAATGTGTTTATAGTGACAAATCAT
127 TAAGGAGAATGTGTTTATAGTGACAAATCAT
* * * * * **
3162327 GAAAAGAACTGAGAT-TTTTGTGAGAATCCAAGTTTGTCTCATTTGAGAGACAAACTTTGATTCT
1 GAAAA-AA-TG-GATATATTATAAGAATCCATGTTTGTCTCATTTGAGGGATGAACTTTGATTCT
* * * * *
3162391 AAGAAAAATGGT-GAAAAGAAAAGTTTTTCTTACGAAAACAAAGAA
63 AAGGAAAATGGTGGAAAA-AAAAGCTTTTCCTATGAAACCAAAGAA
3162436 ATGAACTTTT
Statistics
Matches: 222, Mismatches: 32, Indels: 25
0.80 0.11 0.09
Matches are distributed among these distances:
156 2 0.01
157 5 0.02
158 134 0.60
159 71 0.32
160 6 0.03
161 4 0.02
ACGTcount: A:0.40, C:0.10, G:0.19, T:0.31
Consensus pattern (157 bp):
GAAAAAATGGATATATTATAAGAATCCATGTTTGTCTCATTTGAGGGATGAACTTTGATTCTAAG
GAAAATGGTGGAAAAAAAAGCTTTTCCTATGAAACCAAAGAATCAATAATGTGTATCCTAATAAG
GAGAATGTGTTTATAGTGACAAATCAT
Found at i:3163523 original size:34 final size:34
Alignment explanation
Indices: 3163480--3163549 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
3163470 AAAAAGAATA
*
3163480 GATATTATTATAAGCAACCATGCTTGTTTCATTT
1 GATATTATTATAAGCAACCATACTTGTTTCATTT
*
3163514 GATATTATTATAAGCAACCATATTTGTTTCATTT
1 GATATTATTATAAGCAACCATACTTGTTTCATTT
3163548 GA
1 GA
3163550 GGGACAAACT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.44
Consensus pattern (34 bp):
GATATTATTATAAGCAACCATACTTGTTTCATTT
Found at i:3163957 original size:156 final size:158
Alignment explanation
Indices: 3163701--3164235 Score: 391
Period size: 156 Copynumber: 3.4 Consensus size: 158
3163691 ATTTTAGGTC
* * * * * **
3163701 ATTTGAGGGACAAACTTTGGTTATAAGGAAAATGGTGAAAGGAAATGCTTTTCTTGTGAAACCAA
1 ATTTAAGGAACAAACTTTGATTCTAAGGAAAATGGTGAAAGGAAAAGCTTTTCTTGCAAAACCAA
* *
3163766 AGCAACAATATCATGTATCCTAAAAAGAAAAATGTGTTTTCATTGC-CAATCATGAAAAAAATGG
66 AGCAACAATATCATGTATCCTAAAAAGAAAAATGTGTTTTCATTCCACAATCA-CAAAAAAA-GG
*
3163830 -ATATTATTAT-AAGAATCTATGTTTGTCTA
129 CATATTATTATGAA-AATCTAAGTTTGTCTA
* ** * * * *
3163859 ATTTGAGGAATGAATTTTGATTCTAAGGGAAATGGTG-CA-GAAAAGCTTTTCTTGCAAAACTAA
1 ATTTAAGGAACAAACTTTGATTCTAAGGAAAATGGTGAAAGGAAAAGCTTTTCTTGCAAAACCAA
* * ** * * ** * *
3163922 AGCATCAATGTCATGTATCCTAATGAGGAGAATGTGTTTTTGTTCCACAATCACCACAAAAGGCA
66 AGCAACAATATCATGTATCCTAAAAAGAAAAATGTGTTTTCATTCCACAATCACAAAAAAAGGCA
*
3163987 TATTATTATGAAAATCTAAGTTTGTCTC
131 TATTATTATGAAAATCTAAGTTTGTCTA
* * * * * * *
3164015 ATTTAAGGAACAAACTTTGGTTCTAAGGAAAATGTGGGAAA-TAAATG-TTATT-TTTCGAGACC
1 ATTTAAGGAACAAACTTTGATTCTAAGGAAAATG-GTGAAAGGAAAAGCTT-TTCTTGCAAAACC
* * * * ** ** *
3164077 AATG-AATCCATATCATGTATCCTAATGAAG-AGAATGTGTTTTTGTTCTGCAATCATGAAAAGA
64 AAAGCAA-CAATATCATGTATCCTAA-AAAGAAAAATGTGTTTTCATTCCACAATCA-CAAAA-A
* * *
3164140 ATGG-ATATAATTATGAAAATCCAAGTTT-TC--
125 AAGGCATATTATTATGAAAATCTAAGTTTGTCTA
* * * *
3164170 ATTTAAGGAACAAACTTTGATTTTAAGGAAAAATGGGGGAAA-GAAAA-ATTGTTTTTGCAAAAC
1 ATTTAAGGAACAAACTTTGATTCTAAGG-AAAAT-GGTGAAAGGAAAAGCTT-TTCTTGCAAAAC
3164233 CAA
63 CAA
3164236 TCAATATCAT
Statistics
Matches: 301, Mismatches: 62, Indels: 29
0.77 0.16 0.07
Matches are distributed among these distances:
155 28 0.09
156 133 0.44
157 73 0.24
158 63 0.21
159 4 0.01
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.32
Consensus pattern (158 bp):
ATTTAAGGAACAAACTTTGATTCTAAGGAAAATGGTGAAAGGAAAAGCTTTTCTTGCAAAACCAA
AGCAACAATATCATGTATCCTAAAAAGAAAAATGTGTTTTCATTCCACAATCACAAAAAAAGGCA
TATTATTATGAAAATCTAAGTTTGTCTA
Found at i:3164235 original size:157 final size:157
Alignment explanation
Indices: 3163932--3164236 Score: 393
Period size: 157 Copynumber: 1.9 Consensus size: 157
3163922 AGCATCAATG
* * *
3163932 TCATGTATCCTAATGAGGAGAATGTGTTTTTGTTCCACAATCACCACAAAAGGCATATTATTATG
1 TCATGTATCCTAATGAAGAGAATGTGTTTTTGTTCCACAATCACCAAAAAAGGCATATAATTATG
* * * * **
3163997 AAAATCTAAGTTTGTCTCATTTAAGGAACAAACTTTGGTTCTAAGGAAAATGTGGGAAATAAATG
66 AAAATCCAAGTTTGTCTCATTTAAGGAACAAACTTTGATTCTAAGGAAAATGGGGGAAAGAAAAA
* *
3164062 TTATTTTTCGAGACCAATGAATCCATA
131 TTATTTTTCAAAACCAATGAATCCATA
** **
3164089 TCATGTATCCTAATGAAGAGAATGTGTTTTTGTTCTGCAATCATGAAAAGAATGG-ATATAATTA
1 TCATGTATCCTAATGAAGAGAATGTGTTTTTGTTCCACAATCACCAAAA-AA-GGCATATAATTA
*
3164153 TGAAAATCCAAG-TT-T-TCATTTAAGGAACAAACTTTGATTTTAAGGAAAAATGGGGGAAAGAA
64 TGAAAATCCAAGTTTGTCTCATTTAAGGAACAAACTTTGATTCTAAGG-AAAATGGGGGAAAGAA
*
3164215 AAATTGTTTTTGCAAAACCAAT
128 AAATTATTTTT-CAAAACCAAT
3164237 CAATATCATG
Statistics
Matches: 127, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
155 28 0.22
156 23 0.18
157 53 0.42
158 21 0.17
159 2 0.02
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.33
Consensus pattern (157 bp):
TCATGTATCCTAATGAAGAGAATGTGTTTTTGTTCCACAATCACCAAAAAAGGCATATAATTATG
AAAATCCAAGTTTGTCTCATTTAAGGAACAAACTTTGATTCTAAGGAAAATGGGGGAAAGAAAAA
TTATTTTTCAAAACCAATGAATCCATA
Found at i:3168429 original size:23 final size:25
Alignment explanation
Indices: 3168403--3168451 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 25
3168393 AAAAAAGAAG
*
3168403 AAAAAATAATATAA-T-AAAAATAT
1 AAAAAATAAAATAATTAAAAAATAT
*
3168426 AAAATATAAAATAATTAAAAAATAT
1 AAAAAATAAAATAATTAAAAAATAT
3168451 A
1 A
3168452 TACATAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 12 0.55
24 1 0.05
25 9 0.41
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (25 bp):
AAAAAATAAAATAATTAAAAAATAT
Found at i:3168833 original size:12 final size:12
Alignment explanation
Indices: 3168816--3168857 Score: 66
Period size: 12 Copynumber: 3.3 Consensus size: 12
3168806 TAACCGAGGT
3168816 GCAATGAAGAAA
1 GCAATGAAGAAA
3168828 GCAATGAAGCAAA
1 GCAATGAAG-AAA
3168841 TGCAATGAAGAAA
1 -GCAATGAAGAAA
3168854 GCAA
1 GCAA
3168858 ACGACAAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
12 13 0.46
13 6 0.21
14 9 0.32
ACGTcount: A:0.55, C:0.12, G:0.24, T:0.10
Consensus pattern (12 bp):
GCAATGAAGAAA
Found at i:3173952 original size:23 final size:20
Alignment explanation
Indices: 3173914--3173956 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 20
3173904 TCTAAATAAA
3173914 AAAAAAGAGAAAGAAAAAAG
1 AAAAAAGAGAAAGAAAAAAG
3173934 AAAAAAGTATGAAATGAAAAAAG
1 AAAAAAG-A-GAAA-GAAAAAAG
3173957 TGCAGATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 7 0.35
21 1 0.05
22 4 0.20
23 8 0.40
ACGTcount: A:0.74, C:0.00, G:0.19, T:0.07
Consensus pattern (20 bp):
AAAAAAGAGAAAGAAAAAAG
Found at i:3174255 original size:16 final size:15
Alignment explanation
Indices: 3174236--3174265 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
3174226 AAAAAGGAGA
3174236 AAAAAAAAGAAAATGC
1 AAAAAAAA-AAAATGC
3174252 AAAAAAAAAAAATG
1 AAAAAAAAAAAATG
3174266 GAAAGAATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.80, C:0.03, G:0.10, T:0.07
Consensus pattern (15 bp):
AAAAAAAAAAAATGC
Found at i:3175905 original size:89 final size:87
Alignment explanation
Indices: 3175701--3175929 Score: 246
Period size: 89 Copynumber: 2.6 Consensus size: 87
3175691 AAACACATTT
*
3175701 CCTAATCATATCCCTTTCACTCAACC-TCTAGATGGTATTGATGCATCACAAAGCTTGATTTCTT
1 CCTAATCATATCCCTTT-ACT-AACCATC-AGATGGTATTGATGCATCAAAAAGCTTGATTTCTT
* * *
3175765 GGGGGCAAGGTGTAGCCCACACATT
63 GGGGGCAAGGTGCAGCCCACAAATA
* * * * *
3175790 CCCAATCATATTCCATTTACCCAACCATCAAATGGTATTGATGCATCAAAAAGTTTGATTTCCTT
1 CCTAATCATA-TCCCTTTA-CTAACCATCAGATGGTATTGATGCATCAAAAAGCTTGATTT-CTT
3175855 -GGGGCAAGGTGCAGCCCACAAATA
63 GGGGGCAAGGTGCAGCCCACAAATA
* * * * *
3175879 CTTAATCATATCCCCTTTATCTAACCATTAGATAGTACTGATGTATCAAAA
1 CCTAATCATAT-CCCTTTA-CTAACCATCAGATGGTATTGATGCATCAAAA
3175930 TTTGTCTATC
Statistics
Matches: 116, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
88 1 0.01
89 103 0.89
90 12 0.10
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (87 bp):
CCTAATCATATCCCTTTACTAACCATCAGATGGTATTGATGCATCAAAAAGCTTGATTTCTTGGG
GGCAAGGTGCAGCCCACAAATA
Found at i:3176329 original size:42 final size:42
Alignment explanation
Indices: 3176254--3177262 Score: 558
Period size: 42 Copynumber: 23.9 Consensus size: 42
3176244 CCTTTCTTAC
* * * * *
3176254 CCTC-AGTCTGCCTATCAGCTATGAACCTGGAGACTGTCTCA
1 CCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGTCTCA
* * * *
3176295 CCTCAAGTCTGCCTATCGGTTTTGACCCTAGAGACTTTCTTA
1 CCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGTCTCA
* * * * *
3176337 CCCTCAAGTCTACCAGTCGACTTTGACCCTAGAGACTTTCTTAA
1 -CCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGTC-TCA
* * * * * *
3176381 CCTCAAGTTTGCCTGTCGACTTTGACCTTAGAGACTTTTTTA
1 CCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGTCTCA
* * * * *
3176423 CCCTC-AGTCTGCTTGTCGGCTTTGACCCTGGAGATTGCCTAA
1 -CCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGTCTCA
* ** * * * *
3176465 CCTCAAGTCTGCCTATCAACTTTGATCTTAGAGA-TAGCCTAA
1 CCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACT-GTCTCA
* * **
3176507 CCTCAAGTTTGCCTGTCGGCTTTGACCCTAGAGACTATCGAA
1 CCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGTCTCA
* * * * * *
3176549 CCTCAAGTCTGCCTCTCGGCTCTAACCCTAGAGATTTTCTTA
1 CCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGTCTCA
* * * * *
3176591 CCTTTC-AGTCTACCTATCAGCTTTGACCCTAGAGACTGCCATAA
1 CC--TCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGTC-TCA
* *
3176635 CCTCAAGTCTGCTTGTCGGCTTTGACCCT-GAAGACTTTC-CTA
1 CCTCAAGTCTGCCTGTCGGCTTTGACCCTAG-AGACTGTCTC-A
* ** * * * * *
3176677 CTTTTAGTCTGCCTATCAGTTTTGACCCTTGAGACTGCCTCAA
1 CCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGTCTC-A
* * * * * * *
3176720 TCTCAAGTCTCCCTGTTGGCTTTGACCTTGGAGACTTTCTTA
1 CCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGTCTCA
* * * * ** *
3176762 CCTTC-AGTCTACCTATTGGCTTTGACTCTAGAGACTACCCTAA
1 CC-TCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACT-GTCTCA
* * *
3176805 CCTTAAGTCTGCCTGTTGGCTTTGA-CCTCAGAGACT-TTTCTA
1 CCTCAAGTCTGCCTGTCGGCTTTGACCCT-AGAGACTGTCTC-A
* * * *
3176847 CCTTC-AGTCTGCTTGTCGGCTTTGACCCTAAAAACTGCCTCAA
1 CC-TCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGTCTC-A
* * * *
3176890 CCTCAAGTCTACCTGTCGGCTTTGACCTTAGACACTTTTCTGC-
1 CCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGAC-TGTCT-CA
* * * * *
3176933 CTTC-AGTCTGCCTGTTGGCTTTGACCCTAGAGATTGCCCCAA
1 CCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGTCTC-A
* * * * * *
3176975 CCTCAAGTCTGCCTGTTGACTTTGACTCTAGAGATTGCCTTA
1 CCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGTCTCA
* * * * *
3177017 CCTCAAGTCTGCTTGTCGACTTTGACCTTAGAGACTTTCTTA
1 CCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGTCTCA
** * * * **
3177059 CCCTC-AGTCTGTTTGTTGGCTTTGACCTTGGAGACTACCTCA
1 -CCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGTCTCA
* * * * **
3177101 CCTAAAGTCTGCATGTCAGCTTTGA-CCTTGAAGACTACCTCA
1 CCTCAAGTCTGCCTGTCGGCTTTGACCCTAG-AGACTGTCTCA
* * * * * *
3177143 CCTAAAGTCTGCCTATCAGTTTTGACCTTAGAGACTTTC-CTA
1 CCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGTCTC-A
* * * * * *
3177185 CCTTC-AGTTTGCTTGTCAGCTTTCA-CCTAAGAGATTGCCTCA
1 CC-TCAAGTCTGCCTGTCGGCTTTGACCCT-AGAGACTGTCTCA
* *
3177227 CCTAAAGTCTGCCTATCGGCTTTGACCCTAGAGACT
1 CCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACT
3177263 TTCTTACCCT
Statistics
Matches: 746, Mismatches: 183, Indels: 77
0.74 0.18 0.08
Matches are distributed among these distances:
40 1 0.00
41 22 0.03
42 443 0.59
43 268 0.36
44 11 0.01
45 1 0.00
ACGTcount: A:0.20, C:0.29, G:0.17, T:0.33
Consensus pattern (42 bp):
CCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTGTCTCA
Found at i:3176530 original size:126 final size:126
Alignment explanation
Indices: 3176295--3178407 Score: 1193
Period size: 126 Copynumber: 16.6 Consensus size: 126
3176285 GACTGTCTCA
* * * * * * *
3176295 CCTCAAGTCTGCCTATCGGTTTTGACCCTAGAGACTT-TCTTACCCTCAAGTCTACCAGTCGACT
1 CCTC-AGTCTGCCTGTCGGCTTTGACCCTAGAGA-TTGCCTCA-CCTCAAGTCTGCCTGTCGGCT
* * * * * **
3176359 TTGACCCTAGAGACTTTCTTAACCTCAAGTTTGCCTGTCGACTTTGACCTTAGAGACTTTTTTAC
63 TTGACCTTAGAGAC-TGCCTAACCTCAAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTTCCTAC
* * * * **
3176424 CCTCAGTCTGCTTGTCGGCTTTGACCCTGGAGATTGCCTAACCTCAAGTCTGCCTATCAACTTTG
1 CCTCAGTCTGCCTGTCGGCTTTGACCCTAGAGATTGCCTCACCTCAAGTCTGCCTGTCGGCTTTG
* * * * * *
3176489 ATCTTAGAGA-TAGCCTAACCTCAAGTTTGCCTGTCGGCTTTGACCCTAGAGACTAT-CGAA
66 ACCTTAGAGACT-GCCTAACCTCAAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTTCCTAC
* * * ** * * * *
3176549 CCTCAAGTCTGCCTCTCGGCTCTAACCCTAGAGATTTTCTTACCTTTC-AGTCTACCTATCAGCT
1 CCTC-AGTCTGCCTGTCGGCTTTGACCCTAGAGATTGCCTCACC--TCAAGTCTGCCTGTCGGCT
* * *
3176613 TTGACCCTAGAGACTGCCATAACCTCAAGTCTGCTTGTCGGCTTTGACCCT-GAAGACTTTCCTA
63 TTGACCTTAGAGACTGCC-TAACCTCAAGTCTGCCTGTCGGCTTTGACCTTAG-AGACTTTCCTA
3176677 C
126 C
** * * * * * * * * *
3176678 TTTTAGTCTGCCTATCAGTTTTGACCCTTGAGACTGCCTCAATCTCAAGTCTCCCTGTTGGCTTT
1 CCTCAGTCTGCCTGTCGGCTTTGACCCTAGAGATTGCCTC-ACCTCAAGTCTGCCTGTCGGCTTT
* ** * * * * **
3176743 GACCTTGGAGACTTTCTTACCTTC-AGTCTACCTATTGGCTTTGA-CTCTAGAGACTACCCTAAC
65 GACCTTAGAGACTGCCTAACC-TCAAGTCTGCCTGTCGGCTTTGACCT-TAGAGACTTTCCT-AC
* * * ** *
3176806 CTTAAGTCTGCCTGTTGGCTTTGA-CCTCAGAGACTTTTCT-ACCTTC-AGTCTGCTTGTCGGCT
1 CCTCAGTCTGCCTGTCGGCTTTGACCCT-AGAGA-TTGCCTCACC-TCAAGTCTGCCTGTCGGCT
* * * * * * *
3176868 TTGACCCTAAAAACTGCCTCAACCTCAAGTCTACCTGTCGGCTTTGACCTTAGACACTTTTCTGC
63 TTGACCTTAGAGACTGCCT-AACCTCAAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTTCCTAC
* * * * *
3176933 CTTCAGTCTGCCTGTTGGCTTTGACCCTAGAGATTGCCCCAACCTCAAGTCTGCCTGTTGACTTT
1 CCTCAGTCTGCCTGTCGGCTTTGACCCTAGAGATTGCCTC-ACCTCAAGTCTGCCTGTCGGCTTT
* * * * *
3176998 GA-CTCTAGAGATTGCCTTACCTCAAGTCTGCTTGTCGACTTTGACCTTAGAGACTTTCTTAC
65 GACCT-TAGAGACTGCCTAACCTCAAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTTCCTAC
** * * * * * * * *
3177060 CCTCAGTCTGTTTGTTGGCTTTGACCTTGGAGACTACCTCACCTAAAGTCTGCATGTCAGCTTTG
1 CCTCAGTCTGCCTGTCGGCTTTGACCCTAGAGATTGCCTCACCTCAAGTCTGCCTGTCGGCTTTG
* * * * * *
3177125 ACCTT-GAAGACTACCTCACCTAAAGTCTGCCTATCAGTTTTGACCTTAGAGACTTTCCTAC
66 ACCTTAG-AGACTGCCTAACCTCAAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTTCCTAC
* * * * * * *
3177186 CTTCAGTTTGCTTGTCAGCTTTCA-CCTAAGAGATTGCCTCACCTAAAGTCTGCCTATCGGCTTT
1 CCTCAGTCTGCCTGTCGGCTTTGACCCT-AGAGATTGCCTCACCTCAAGTCTGCCTGTCGGCTTT
* * * *
3177250 GACCCTAGAGACTTTCTTACCCTAGAGATTGCCTCACCTCAAGTCTACCTGTTGGCTTTGACCTT
65 GACCTTAGAGA----C-T-GCCT----A-------ACCTCAAGTCTGCCTGTCGGCTTTGACCTT
**
3177315 -GAAGACTTTTTTAC
113 AG-AGACTTTCCTAC
* * * * * *
3177329 CCTCAATCTGCTTGTCGGCTTTGACCTTGGAGATTGCCTAACCTCAAGTCTACCTGTCGGCTTTG
1 CCTCAGTCTGCCTGTCGGCTTTGACCCTAGAGATTGCCTCACCTCAAGTCTGCCTGTCGGCTTTG
** * * * * * *
3177394 ACCCGAGAGACTTTCTTACCCTC-AGTCTGCCTGTCGACTTTGACC-TGGAGAC-TGCCTAAC
66 ACCTTAGAGAC-TGCCTAACCTCAAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTTCCT-AC
* * * * * * * ** *
3177454 CTTAAGTCTACCTGTTGGCTTTGA-CCTGGGAGACTTTCCT-ACGTTTAGTCTGCCTATCGGCTT
1 CCTCAGTCTGCCTGTCGGCTTTGACCCT-AGAGA-TTGCCTCACCTCAAGTCTGCCTGTCGGCTT
* * * * * * * * * * *
3177517 TGGCCCTGGAGACTTTCCT-ACTTTAAGTTTACCTGTCGGCTTTGACCTTGGAGACTGTCTTA-
64 TGACCTTAGAGAC-TGCCTAACCTCAAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTTCCTAC
* * * * * * *
3177579 TCTCAAGTCTGCCTATCGGCTTTGACCCTAGAGACTTTCC-CACCTTC-AGTCTACCTATCAGTT
1 CCTC-AGTCTGCCTGTCGGCTTTGACCCTAGAGA-TTGCCTCACC-TCAAGTCTGCCTGTCGGCT
* * * ** * * * *
3177642 TTGACCTTGGAGACTGCCTCACCTAAAGTCTGCCTGTCAACTTTAACCCTAGAGAC-TGCCTAA
63 TTGACCTTAGAGACTGCCTAACCTCAAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTTCCTAC
* * * * * *
3177705 CCTCAAGTTTGCCTGTTGGCTTTGATCCTAGAGACTTTCCT-ACCTTC-AGTCTGCTTGTGGGCT
1 CCTC-AGTCTGCCTGTCGGCTTTGACCCTAGAGA-TTGCCTCACC-TCAAGTCTGCCTGTCGGCT
* * * * * * * *
3177768 TTGACCTTGGAGATTGCCTCACCTAAAGTCTGCCTATTGACTTTGACCCTAGAGACTTTCCTAC
63 TTGACCTTAGAGACTGCCTAACCTCAAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTTCCTAC
* * * * * * * * * *
3177832 CTTCAGTCTGCTTGTCGGCTTTGACCTTGGAAACTGCCTCATCTCAAGTCTGCCTATCGACTATG
1 CCTCAGTCTGCCTGTCGGCTTTGACCCTAGAGATTGCCTCACCTCAAGTCTGCCTGTCGGCTTTG
* * * * * * *
3177897 ACCCTGGAAACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTAC
66 ACCTTAGAGACTGCCTAACCTCAAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTTCCTAC
** ** * * *
3177958 TTTCAGTCTGCCTGTCAACTTTGACCCTGGAGACTT-CCTCAGCTAAAGTCTGCCTGTCGGCTTT
1 CCTCAGTCTGCCTGTCGGCTTTGACCCTAGAGA-TTGCCTCACCTCAAGTCTGCCTGTCGGCTTT
* * * * * * *
3178022 GACCTTGGAGACTG-CT-TCTCTCAAGTCTGCCTGCCAGCTTTGACCTT-GAAAATTTTCTTAC
65 GACCTTAGAGACTGCCTAAC-CTCAAGTCTGCCTGTCGGCTTTGACCTTAG-AGACTTTCCTAC
* * * * *
3178083 CCTTCAGTCTGCCTATCGGCTTTGACCTTAGAGACTACCTTACCTACAA-TCTGCCTGTCGGCTT
1 CC-TCAGTCTGCCTGTCGGCTTTGACCCTAGAGATTGCCTCACCT-CAAGTCTGCCTGTCGGCTT
* ** * *
3178147 TGACCTTGGAGACT---T-TTCTGC--GTCTGCCTGTCGGCTTTAACCCTAGAGACTGCTT-C-A
64 TGACCTTAGAGACTGCCTAACCT-CAAGTCTGCCTGTCGGCTTTGACCTTAGAGACT--TTCCTA
3178204 -
126 C
** * * * * * * *
3178204 TTTCAAGTCTGCCTGCCGGCTTTGACCTTGGAGACTT-TCTTACCTTC-AGTCTGCCTATTGGCT
1 CCTC-AGTCTGCCTGTCGGCTTTGACCCTAGAGA-TTGCCTCACC-TCAAGTCTGCCTGTCGGCT
* * * * *
3178267 TTGACCTTGGAGACTGCTTATCCTCAAGTCTACCTGTCGGCTTTGACC-TGGAGACTTTCCTA-
63 TTGACCTTAGAGACTGCCTAACCTCAAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTTCCTAC
* * * * * *
3178329 CCTCAAGTTTGCCTGTCGACTTTGACCCTGGAGACTT-CTTTACCTTCAAGTCTGCCTGTCGACT
1 CCTC-AGTCTGCCTGTCGGCTTTGACCCTAGAGA-TTGCCTCACC-TCAAGTCTGCCTGTCGGCT
*
3178393 TTGACCTTGGAGACT
63 TTGACCTTAGAGACT
3178408 TTTCCCCTTT
Statistics
Matches: 1552, Mismatches: 343, Indels: 181
0.75 0.17 0.09
Matches are distributed among these distances:
120 3 0.00
121 60 0.04
122 25 0.02
123 5 0.00
124 15 0.01
125 192 0.12
126 672 0.43
127 248 0.16
128 210 0.14
129 14 0.01
130 1 0.00
131 1 0.00
132 3 0.00
134 1 0.00
138 2 0.00
139 3 0.00
142 1 0.00
143 94 0.06
144 2 0.00
ACGTcount: A:0.19, C:0.29, G:0.19, T:0.34
Consensus pattern (126 bp):
CCTCAGTCTGCCTGTCGGCTTTGACCCTAGAGATTGCCTCACCTCAAGTCTGCCTGTCGGCTTTG
ACCTTAGAGACTGCCTAACCTCAAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTTCCTAC
Found at i:3176692 original size:85 final size:84
Alignment explanation
Indices: 3176245--3177270 Score: 771
Period size: 85 Copynumber: 12.1 Consensus size: 84
3176235 CTAGTTAAAC
* * * * * * * * *
3176245 CTTTCTTACCCTCAGTCTGCCTATCAGCTATGAACCTGGAGACTGTCTCACCTCAAGTCTGCCTA
1 CTTTCCTACCTTCAGTCTGCCTGTCAGCTTTGACCCTAGAGACTGCCTAACCTCAAGTCTGCCTG
*
3176310 TCGGTTTTGACCCTAGAGA
66 TCGGCTTTGACCCTAGAGA
* * * * * * *
3176329 CTTTCTTACCCTCAAGTCTACCAGTC-GACTTTGACCCTAGAGACTTTCTTAACCTCAAGTTTGC
1 CTTTCCTACCTTC-AGTCTGCCTGTCAG-CTTTGACCCTAGAGAC-TGCCTAACCTCAAGTCTGC
* *
3176393 CTGTCGACTTTGACCTTAGAGA
63 CTGTCGGCTTTGACCCTAGAGA
** * * * * * *
3176415 CTTTTTTACCCTCAGTCTGCTTGTCGGCTTTGACCCTGGAGATTGCCTAACCTCAAGTCTGCCTA
1 CTTTCCTACCTTCAGTCTGCCTGTCAGCTTTGACCCTAGAGACTGCCTAACCTCAAGTCTGCCTG
** * *
3176480 TCAACTTTGATCTTAGAGA
66 TCGGCTTTGACCCTAGAGA
** * * ** *
3176499 -TAGCCTAACC-TCAAGTTTGCCTGTCGGCTTTGACCCTAGAGACTATCGAACCTCAAGTCTGCC
1 CTTTCCT-ACCTTC-AGTCTGCCTGTCAGCTTTGACCCTAGAGACTGCCTAACCTCAAGTCTGCC
* * *
3176562 TCTCGGCTCTAACCCTAGAGA
64 TGTCGGCTTTGACCCTAGAGA
* * * * *
3176583 TTTTCTTACCTTTCAGTCTACCTATCAGCTTTGACCCTAGAGACTGCCATAACCTCAAGTCTGCT
1 CTTTCCTACC-TTCAGTCTGCCTGTCAGCTTTGACCCTAGAGACTGCC-TAACCTCAAGTCTGCC
3176648 TGTCGGCTTTGACCCT-GAAGA
64 TGTCGGCTTTGACCCTAG-AGA
* * * * * * *
3176669 CTTTCCTACTTTTAGTCTGCCTATCAGTTTTGACCCTTGAGACTGCCTCAATCTCAAGTCTCCCT
1 CTTTCCTACCTTCAGTCTGCCTGTCAGCTTTGACCCTAGAGACTGCCT-AACCTCAAGTCTGCCT
* * *
3176734 GTTGGCTTTGACCTTGGAGA
65 GTCGGCTTTGACCCTAGAGA
* * * ** * * *
3176754 CTTTCTTACCTTCAGTCTACCTATTGGCTTTGACTCTAGAGACTACCCTAACCTTAAGTCTGCCT
1 CTTTCCTACCTTCAGTCTGCCTGTCAGCTTTGACCCTAGAGACT-GCCTAACCTCAAGTCTGCCT
*
3176819 GTTGGCTTTGA-CCTCAGAGA
65 GTCGGCTTTGACCCT-AGAGA
* * * * * *
3176839 CTTTTCTACCTTCAGTCTGCTTGTCGGCTTTGACCCTAAAAACTGCCTCAACCTCAAGTCTACCT
1 CTTTCCTACCTTCAGTCTGCCTGTCAGCTTTGACCCTAGAGACTGCCT-AACCTCAAGTCTGCCT
* *
3176904 GTCGGCTTTGACCTTAGACA
65 GTCGGCTTTGACCCTAGAGA
* * ** * *
3176924 CTTTTCTGCCTTCAGTCTGCCTGTTGGCTTTGACCCTAGAGATTGCCCCAACCTCAAGTCTGCCT
1 CTTTCCTACCTTCAGTCTGCCTGTCAGCTTTGACCCTAGAGACTG-CCTAACCTCAAGTCTGCCT
* * *
3176989 GTTGACTTTGACTCTAGAGA
65 GTCGGCTTTGACCCTAGAGA
* * * * * *
3177009 -TTGCCTTACC-TCAAGTCTGCTTGTC-GACTTTGACCTTAGAGACTTTCTTACCCTC-AGTCTG
1 CTTTCC-TACCTTC-AGTCTGCCTGTCAG-CTTTGACCCTAGAGAC-TGCCTAACCTCAAGTCTG
** * * *
3177070 TTTGTTGGCTTTGACCTTGGAGA
62 CCTGTCGGCTTTGACCCTAGAGA
* ** * * * * *
3177093 C-TACCTCACCTAAAGTCTGCATGTCAGCTTTGA-CCTTGAAGACTACCTCACCTAAAGTCTGCC
1 CTTTCCT-ACCTTCAGTCTGCCTGTCAGCTTTGACCCTAG-AGACTGCCTAACCTCAAGTCTGCC
* * * *
3177156 TATCAGTTTTGACCTTAGAGA
64 TGTCGGCTTTGACCCTAGAGA
* * * * * *
3177177 CTTTCCTACCTTCAGTTTGCTTGTCAGCTTTCA-CCTAAGAGATTGCCTCACCTAAAGTCTGCCT
1 CTTTCCTACCTTCAGTCTGCCTGTCAGCTTTGACCCT-AGAGACTGCCTAACCTCAAGTCTGCCT
*
3177241 ATCGGCTTTGACCCTAGAGA
65 GTCGGCTTTGACCCTAGAGA
*
3177261 CTTTCTTACC
1 CTTTCCTACC
3177271 CTAGAGATTG
Statistics
Matches: 750, Mismatches: 162, Indels: 60
0.77 0.17 0.06
Matches are distributed among these distances:
83 14 0.02
84 270 0.36
85 373 0.50
86 93 0.12
ACGTcount: A:0.20, C:0.29, G:0.17, T:0.34
Consensus pattern (84 bp):
CTTTCCTACCTTCAGTCTGCCTGTCAGCTTTGACCCTAGAGACTGCCTAACCTCAAGTCTGCCTG
TCGGCTTTGACCCTAGAGA
Found at i:3176770 original size:170 final size:169
Alignment explanation
Indices: 3176245--3178407 Score: 1134
Period size: 168 Copynumber: 12.8 Consensus size: 169
3176235 CTAGTTAAAC
* * * * * * * *
3176245 CTTTCTTACCCTCAGTCTGCCTATCAGCTATGAACCTGGAGACTGTCTCACCTCAAGTCTGCCTA
1 CTTTCTTACCTTCAGTCTGCCTATCGGCTTTGACCCTAGAGACTGCCTAACCTCAAGTCTGCCTG
* * * *
3176310 TCGGTTTTGACCCTAGAGACTTTCTTACCCTCAAGTCTACC-AGTCGACTTTGACCCTAGAGACT
66 TCGGCTTTGACCCTAGAGACTTTCCTA-CCTCAAGTCTGCCTA-TCGGCTTTGACCCTAGAGACT
** * * *
3176374 TTCTTAACCTCAAGTTTGCCTGTCGACTTTGACCTTAGAGA
129 GCCTCAACCTCAAGTCTGCCTGTCGGCTTTGACCTTAGAGA
* * * * * * *
3176415 CTTTTTTACCCTCAGTCTGCTTGTCGGCTTTGACCCTGGAGATTGCCTAACCTCAAGTCTGCCTA
1 CTTTCTTACCTTCAGTCTGCCTATCGGCTTTGACCCTAGAGACTGCCTAACCTCAAGTCTGCCTG
** * * ** * *
3176480 TCAACTTTGATCTTAGAGA-TAGCCTAACCTCAAGTTTGCCTGTCGGCTTTGACCCTAGAGACT-
66 TCGGCTTTGACCCTAGAGACTTTCCT-ACCTCAAGTCTGCCTATCGGCTTTGACCCTAGAGACTG
* * * * *
3176543 -ATCGAACCTCAAGTCTGCCTCTCGGCTCTAACCCTAGAGA
130 CCTC-AACCTCAAGTCTGCCTGTCGGCTTTGACCTTAGAGA
* * * *
3176583 TTTTCTTACCTTTCAGTCTACCTATCAGCTTTGACCCTAGAGACTGCCATAACCTCAAGTCTGCT
1 CTTTCTTACC-TTCAGTCTGCCTATCGGCTTTGACCCTAGAGACTGCC-TAACCTCAAGTCTGCC
* ** * * *
3176648 TGTCGGCTTTGACCCT-GAAGACTTTCCTACTTTTAGTCTGCCTATCAGTTTTGACCCTTGAGAC
64 TGTCGGCTTTGACCCTAG-AGACTTTCCTACCTCAAGTCTGCCTATCGGCTTTGACCCTAGAGAC
* * * *
3176712 TGCCTCAATCTCAAGTCTCCCTGTTGGCTTTGACCTTGGAGA
128 TGCCTCAACCTCAAGTCTGCCTGTCGGCTTTGACCTTAGAGA
* * * * *
3176754 CTTTCTTACCTTCAGTCTACCTATTGGCTTTGACTCTAGAGACTACCCTAACCTTAAGTCTGCCT
1 CTTTCTTACCTTCAGTCTGCCTATCGGCTTTGACCCTAGAGACT-GCCTAACCTCAAGTCTGCCT
* * * * * *
3176819 GTTGGCTTTGA-CCTCAGAGACTTTTCTACCTTC-AGTCTGCTTGTCGGCTTTGACCCTAAAAAC
65 GTCGGCTTTGACCCT-AGAGACTTTCCTACC-TCAAGTCTGCCTATCGGCTTTGACCCTAGAGAC
* *
3176882 TGCCTCAACCTCAAGTCTACCTGTCGGCTTTGACCTTAGACA
128 TGCCTCAACCTCAAGTCTGCCTGTCGGCTTTGACCTTAGAGA
* * * * *
3176924 CTTT-TCTGCCTTCAGTCTGCCTGTTGGCTTTGACCCTAGAGATTGCCCCAACCTCAAGTCTGCC
1 CTTTCT-TACCTTCAGTCTGCCTATCGGCTTTGACCCTAGAGACTG-CCTAACCTCAAGTCTGCC
* * * * * * * *
3176988 TGTTGACTTTGACTCTAGAGA-TTGCCTTACCTCAAGTCTGCTTGTCGACTTTGACCTTAGAGAC
64 TGTCGGCTTTGACCCTAGAGACTTTCC-TACCTCAAGTCTGCCTATCGGCTTTGACCCTAGAGAC
** * * ** * *
3177052 TTTCTTACCCTC-AGTCTGTTTGTTGGCTTTGACCTTGGAGA
128 TGCCTCAACCTCAAGTCTGCCTGTCGGCTTTGACCTTAGAGA
** * ** * * * * * * *
3177093 CTACCTCACCTAAAGTCTGCATGTCAGCTTTGA-CCTTGAAGACTACCTCACCTAAAGTCTGCCT
1 CTTTCTTACCTTCAGTCTGCCTATCGGCTTTGACCCTAG-AGACTGCCTAACCTCAAGTCTGCCT
* * * * * * * * * *
3177157 ATCAGTTTTGACCTTAGAGACTTTCCTACCTTC-AGTTTGCTTGTCAGCTTTCA-CCTAAGAGAT
65 GTCGGCTTTGACCCTAGAGACTTTCCTACC-TCAAGTCTGCCTATCGGCTTTGACCCT-AGAGAC
* * *
3177220 TGCCTC-ACCTAAAGTCTGCCTATCGGCTTTGACCCTAGAGA
128 TGCCTCAACCTCAAGTCTGCCTGTCGGCTTTGACCTTAGAGA
* * * * **
3177261 CTTTCTTACCCTAGAGATTGCCTCACCTCAAGTCTACCTGTTGGCTTTGA-CCTTGAAGACTTTT
1 CTTTC-T----T----A---CCT----TC-AGTCTGCCTATCGGCTTTGACCCTAG-AGAC-TGC
* * * * * * * *
3177325 TTACCCTCAA-TCTGCTTGTCGGCTTTGACCTTGGAGA-TTGCCTAACCTCAAGTCTACCTGTCG
47 CTAACCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCCT-ACCTCAAGTCTGCCTATCG
* ** * * * *
3177388 GCTTTGACCCGAGAGACTTTCTTACCCTC-AGTCTGCCTGTCGACTTTGACC-TGGAGA
111 GCTTTGACCCTAGAGACTGCCTCAACCTCAAGTCTGCCTGTCGGCTTTGACCTTAGAGA
** * * * * * * * * **
3177445 CTGCCTAACCTTAAGTCTACCTGTTGGCTTTGA-CCTGGGAGACTTTCCT-ACGTTTAGTCTGCC
1 CTTTCTTACCTTCAGTCTGCCTATCGGCTTTGACCCT-AGAGAC-TGCCTAACCTCAAGTCTGCC
* * * * * * * * * *
3177508 TATCGGCTTTGGCCCTGGAGACTTTCCTACTTTAAGTTTACCTGTCGGCTTTGACCTTGGAGACT
64 TGTCGGCTTTGACCCTAGAGACTTTCCTACCTCAAGTCTGCCTATCGGCTTTGACCCTAGAGACT
* * * * *
3177573 GTCT-TATCTCAAGTCTGCCTATCGGCTTTGACCCTAGAGA
129 GCCTCAACCTCAAGTCTGCCTGTCGGCTTTGACCTTAGAGA
** * * * * * * *
3177613 CTTTCCCACCTTCAGTCTACCTATCAGTTTTGACCTTGGAGACTGCCTCACCTAAAGTCTGCCTG
1 CTTTCTTACCTTCAGTCTGCCTATCGGCTTTGACCCTAGAGACTGCCTAACCTCAAGTCTGCCTG
** * * * * * *
3177678 TCAACTTTAACCCTAGAGAC-TGCCTAACCTCAAGTTTGCCTGTTGGCTTTGATCCTAGAGACTT
66 TCGGCTTTGACCCTAGAGACTTTCCT-ACCTCAAGTCTGCCTATCGGCTTTGACCCTAGAGAC-T
* * * *
3177742 TCCT--ACCTTC-AGTCTGCTTGTGGGCTTTGACCTTGGAGA
129 GCCTCAACC-TCAAGTCTGCCTGTCGGCTTTGACCTTAGAGA
* * ** * * *
3177781 -TTGCCTCACCTAAAGTCTGCCTATTGACTTTGACCCTAGAGACTTTCCT-ACCTTC-AGTCTGC
1 CTT-TCTTACCTTCAGTCTGCCTATCGGCTTTGACCCTAGAGAC-TGCCTAACC-TCAAGTCTGC
* * * * * * * * * *
3177843 TTGTCGGCTTTGACCTTGGAAAC-TGCCTCATCTCAAGTCTGCCTATCGACTATGACCCTGGAAA
63 CTGTCGGCTTTGACCCTAGAGACTTTCCT-ACCTCAAGTCTGCCTATCGGCTTTGACCCTAGAGA
* * *
3177907 CTGCCTC-ATCTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGA
127 CTGCCTCAACCTCAAGTCTGCCTGTCGGCTTTGACCTTAGAGA
* * * ** * * * * *
3177949 CTTTCCTACTTTCAGTCTGCCTGTCAACTTTGACCCTGGAGACTTCCTCAGCTAAAGTCTGCCTG
1 CTTTCTTACCTTCAGTCTGCCTATCGGCTTTGACCCTAGAGACTGCCTAACCTCAAGTCTGCCTG
* * ** * * * *
3178014 TCGGCTTTGACCTTGGAGACTGCTT-CT--CTCAAGTCTGCCTGCCAGCTTTGA-CCTTGAAAAT
66 TCGGCTTTGACCCTAGAGACT--TTCCTACCTCAAGTCTGCCTATCGGCTTTGACCCTAG-AGAC
** * * *
3178075 TTTCTTACCCTTC-AGTCTGCCTATCGGCTTTGACCTTAGAGA
128 TGCCTCAACC-TCAAGTCTGCCTGTCGGCTTTGACCTTAGAGA
** * * * * * **
3178117 CTACCTTACCTACAATCTGCCTGTCGGCTTTGACCTTGGAGACT---T-TTCTGC--GTCTGCCT
1 CTTTCTTACCTTCAGTCTGCCTATCGGCTTTGACCCTAGAGACTGCCTAACCT-CAAGTCTGCCT
* ** ** * *
3178176 GTCGGCTTTAACCCTAGAGACTGCTT-C-ATTTCAAGTCTGCCTGCCGGCTTTGACCTTGGAGAC
65 GTCGGCTTTGACCCTAGAGACT--TTCCTACCTCAAGTCTGCCTATCGGCTTTGACCCTAGAGAC
** * * * *
3178239 TTTCT-TACCTTC-AGTCTGCCTATTGGCTTTGACCTTGGAGA
128 TGCCTCAACC-TCAAGTCTGCCTGTCGGCTTTGACCTTAGAGA
* * * * * *
3178280 C-TGCTTATCC-TCAAGTCTACCTGTCGGCTTTGA-CCTGGAGACTTTCCT-ACCTCAAGTTTGC
1 CTTTCTTA-CCTTC-AGTCTGCCTATCGGCTTTGACCCTAGAGAC-TGCCTAACCTCAAGTCTGC
* * * * * * *
3178341 CTGTCGACTTTGACCCTGGAGAC-TTCTTTACCTTCAAGTCTGCCTGTCGACTTTGACCTTGGAG
63 CTGTCGGCTTTGACCCTAGAGACTTTC-CTACC-TCAAGTCTGCCTATCGGCTTTGACCCTAGAG
3178405 ACT
126 ACT
3178408 TTTCCCCTTT
Statistics
Matches: 1547, Mismatches: 360, Indels: 174
0.74 0.17 0.08
Matches are distributed among these distances:
162 13 0.01
163 86 0.06
164 33 0.02
165 5 0.00
166 13 0.01
167 187 0.12
168 518 0.33
169 146 0.09
170 366 0.24
171 48 0.03
172 5 0.00
175 1 0.00
177 1 0.00
180 3 0.00
183 1 0.00
184 15 0.01
185 94 0.06
186 12 0.01
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.34
Consensus pattern (169 bp):
CTTTCTTACCTTCAGTCTGCCTATCGGCTTTGACCCTAGAGACTGCCTAACCTCAAGTCTGCCTG
TCGGCTTTGACCCTAGAGACTTTCCTACCTCAAGTCTGCCTATCGGCTTTGACCCTAGAGACTGC
CTCAACCTCAAGTCTGCCTGTCGGCTTTGACCTTAGAGA
Found at i:3177307 original size:59 final size:59
Alignment explanation
Indices: 3177214--3177331 Score: 166
Period size: 59 Copynumber: 2.0 Consensus size: 59
3177204 CTTTCACCTA
*
3177214 AGAGATTGCCTCACCTAAAGTCTGCCTATCGGCTTTGACCCTAG-AGACTTTCTTACCCT
1 AGAGATTGCCTCACCTAAAGTCTACCTATCGGCTTTGA-CCTAGAAGACTTTCTTACCCT
* * * * *
3177273 AGAGATTGCCTCACCTCAAGTCTACCTGTTGGCTTTGACCTTGAAGACTTTTTTACCCT
1 AGAGATTGCCTCACCTAAAGTCTACCTATCGGCTTTGACCTAGAAGACTTTCTTACCCT
3177332 CAATCTGCTT
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
58 4 0.08
59 48 0.92
ACGTcount: A:0.21, C:0.29, G:0.17, T:0.33
Consensus pattern (59 bp):
AGAGATTGCCTCACCTAAAGTCTACCTATCGGCTTTGACCTAGAAGACTTTCTTACCCT
Found at i:3177350 original size:42 final size:42
Alignment explanation
Indices: 3177286--3178409 Score: 430
Period size: 42 Copynumber: 26.9 Consensus size: 42
3177276 GATTGCCTCA
* * *
3177286 CCTCAAGTCTACCTGTTGGCTTTGACCTTGAAGACTTTTTTAC
1 CCTCAA-TCTGCCTGTCGGCTTTGACCTTGAAGACTTTCTTAC
* * * * *
3177329 CCTCAATCTGCTTGTCGGCTTTGACCTTGGAGA-TTGCCTAA
1 CCTCAATCTGCCTGTCGGCTTTGACCTTGAAGACTTTCTTAC
* *
3177370 CCTCAAGTCTACCTGTCGGCTTTGACC-CGAGAGACTTTCTTAC
1 CCTCAA-TCTGCCTGTCGGCTTTGACCTTGA-AGACTTTCTTAC
* * * * * *
3177413 CCTCAGTCTGCCTGTCGACTTTGACC-TGGAGAC-TGCCTAA
1 CCTCAATCTGCCTGTCGGCTTTGACCTTGAAGACTTTCTTAC
* * * * * *
3177453 CCTTAAGTCTACCTGTTGGCTTTGACCTGGGAGACTTTCCTAC
1 CCTCAA-TCTGCCTGTCGGCTTTGACCTTGAAGACTTTCTTAC
** * * * * * * *
3177496 GTTTAGTCTGCCTATCGGCTTTGGCCCTGGAGACTTTCCTA-
1 CCTCAATCTGCCTGTCGGCTTTGACCTTGAAGACTTTCTTAC
* * * * * *
3177537 CTTTAAGTTTACCTGTCGGCTTTGACCTTGGAGACTGTCTTA-
1 CCTCAA-TCTGCCTGTCGGCTTTGACCTTGAAGACTTTCTTAC
* * * **
3177579 TCTCAAGTCTGCCTATCGGCTTTGACCCT-AGAGACTTTCCCAC
1 CCTCAA-TCTGCCTGTCGGCTTTGACCTTGA-AGACTTTCTTAC
* * * * * * * ** *
3177622 CTTCAGTCTACCTATCAGTTTTGACCTTGGAGACTGCCTCA-
1 CCTCAATCTGCCTGTCGGCTTTGACCTTGAAGACTTTCTTAC
* ** * * * * *
3177663 CCTAAAGTCTGCCTGTCAACTTTAACCCT-AGAGAC-TGCCTAA
1 CCTCAA-TCTGCCTGTCGGCTTTGACCTTGA-AGACTTTCTTAC
* * * *
3177705 CCTCAAGTTTGCCTGTTGGCTTTGATCCTAG-AGACTTTCCTAC
1 CCTCAA-TCTGCCTGTCGGCTTTGA-CCTTGAAGACTTTCTTAC
* * * * * * *
3177748 CTTCAGTCTGCTTGTGGGCTTTGACCTTGGAGA-TTGCCT-C
1 CCTCAATCTGCCTGTCGGCTTTGACCTTGAAGACTTTCTTAC
* * * * * *
3177788 ACCTAAAGTCTGCCTATTGACTTTGACCCT-AGAGACTTTCCTAC
1 -CCTCAA-TCTGCCTGTCGGCTTTGACCTTGA-AGACTTTCTTAC
* * * ** *
3177832 CTTCAGTCTGCTTGTCGGCTTTGACCTTGGAA-ACTGCCTCA-
1 CCTCAATCTGCCTGTCGGCTTTGACCTT-GAAGACTTTCTTAC
* * * * * ** *
3177873 TCTCAAGTCTGCCTATCGACTATGACCCTGGAA-ACTGCCTCA-
1 CCTCAA-TCTGCCTGTCGGCTTTGA-CCTTGAAGACTTTCTTAC
* * * *
3177915 TCTCAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTAC
1 CCTCAA-TCTGCCTGTCGGCTTTGACCTTGAAGACTTTCTTAC
** * ** * * * *
3177958 TTTCAGTCTGCCTGTCAACTTTGACCCTGGAGACTTCCTCA-
1 CCTCAATCTGCCTGTCGGCTTTGACCTTGAAGACTTTCTTAC
* * * *
3177999 GCTAAAGTCTGCCTGTCGGCTTTGACCTTGGAGAC-TGCTT-C
1 CCTCAA-TCTGCCTGTCGGCTTTGACCTTGAAGACTTTCTTAC
* * * * *
3178040 TCTCAAGTCTGCCTGCCAGCTTTGACCTTGAAAATTTTCTTAC
1 CCTCAA-TCTGCCTGTCGGCTTTGACCTTGAAGACTTTCTTAC
* * **
3178083 CCTTCAGTCTGCCTATCGGCTTTGACCTT-AGAGACTACCTTA-
1 CC-TCAATCTGCCTGTCGGCTTTGACCTTGA-AGACTTTCTTAC
*
3178125 CCTACAATCTGCCTGTCGGCTTTGACCTTGGAGAC-TT-TT--
1 CCT-CAATCTGCCTGTCGGCTTTGACCTTGAAGACTTTCTTAC
* * * *
3178164 -CTGC-GTCTGCCTGTCGGCTTTAACCCT-AGAGAC-TGCTT-C
1 CCT-CAATCTGCCTGTCGGCTTTGACCTTGA-AGACTTTCTTAC
** * *
3178203 ATTTCAAGTCTGCCTGCCGGCTTTGACCTTGGAGACTTTCTTAC
1 -CCTCAA-TCTGCCTGTCGGCTTTGACCTTGAAGACTTTCTTAC
* * * * * * *
3178247 CTTCAGTCTGCCTATTGGCTTTGACCTTGGAGAC-TGCTTAT
1 CCTCAATCTGCCTGTCGGCTTTGACCTTGAAGACTTTCTTAC
* * *
3178288 CCTCAAGTCTACCTGTCGGCTTTGACC-TGGAGACTTTCCTA-
1 CCTCAA-TCTGCCTGTCGGCTTTGACCTTGAAGACTTTCTTAC
* * * *
3178329 CCTCAAGTTTGCCTGTCGACTTTGACCCTGGAGAC-TTCTTTAC
1 CCTCAA-TCTGCCTGTCGGCTTTGACCTTGAAGACTTTC-TTAC
* * *
3178372 CTTCAAGTCTGCCTGTCGACTTTGACCTTGGAGACTTT
1 CCTCAA-TCTGCCTGTCGGCTTTGACCTTGAAGACTTT
3178410 TCCCCTTTTT
Statistics
Matches: 815, Mismatches: 214, Indels: 103
0.72 0.19 0.09
Matches are distributed among these distances:
37 25 0.03
38 5 0.01
40 12 0.01
41 138 0.17
42 505 0.62
43 122 0.15
44 8 0.01
ACGTcount: A:0.17, C:0.29, G:0.20, T:0.34
Consensus pattern (42 bp):
CCTCAATCTGCCTGTCGGCTTTGACCTTGAAGACTTTCTTAC
Found at i:3177415 original size:84 final size:83
Alignment explanation
Indices: 3177268--3178409 Score: 857
Period size: 84 Copynumber: 13.7 Consensus size: 83
3177258 AGACTTTCTT
* * * * * *
3177268 ACCCTAGAGATTGCCTCACCTCAAGTCTACCTGTTGGCTTTGACCTTGAAGACTTTTTTACCCTC
1 ACCCTGGAGACTGCCTCACCTCAAGTCTGCCTGTCGGCTTTGACC-TGGAGACTTTCTTACCCTC
* *
3177333 AATCTGCTTGTCGGCTTTG
65 AGTCTGCCTGTCGGCTTTG
* * * * *
3177352 ACCTTGGAGATTGCCTAACCTCAAGTCTACCTGTCGGCTTTGACCCGAGAGACTTTCTTACCCTC
1 ACCCTGGAGACTGCCTCACCTCAAGTCTGCCTGTCGGCTTTGACCTG-GAGACTTTCTTACCCTC
*
3177417 AGTCTGCCTGTCGACTTTG
65 AGTCTGCCTGTCGGCTTTG
* * * * * ** *
3177436 A-CCTGGAGACTGCCTAACCTTAAGTCTACCTGTTGGCTTTGACCTGGGAGACTTTCCTACGTTT
1 ACCCTGGAGACTGCCTCACCTCAAGTCTGCCTGTCGGCTTTGACCT-GGAGACTTTCTTACCCTC
*
3177500 AGTCTGCCTATCGGCTTTG
65 AGTCTGCCTGTCGGCTTTG
* * * * * * * *
3177519 GCCCTGGAGACTTTCCT-ACTTTAAGTTTACCTGTCGGCTTTGACCTTGGAGACTGTCTTA-TCT
1 ACCCTGGAGAC-TGCCTCACCTCAAGTCTGCCTGTCGGCTTTGACC-TGGAGACTTTCTTACCCT
*
3177582 CAAGTCTGCCTATCGGCTTTG
64 C-AGTCTGCCTGTCGGCTTTG
* * * * * * ** *
3177603 ACCCTAGAGACTTTCC-CACCTTC-AGTCTACCTATCAGTTTTGACCTTGGAGACTGCCTCA-CC
1 ACCCTGGAGAC-TGCCTCACC-TCAAGTCTGCCTGTCGGCTTTGACC-TGGAGACTTTCTTACCC
* ** *
3177665 TAAAGTCTGCCTGTCAACTTTA
63 T-CAGTCTGCCTGTCGGCTTTG
* * * * * * *
3177687 ACCCTAGAGACTGCCTAACCTCAAGTTTGCCTGTTGGCTTTGATCCTAGAGACTTTCCTACCTTC
1 ACCCTGGAGACTGCCTCACCTCAAGTCTGCCTGTCGGCTTTGA-CCTGGAGACTTTCTTACCCTC
* *
3177752 AGTCTGCTTGTGGGCTTTG
65 AGTCTGCCTGTCGGCTTTG
* * * * * * * * *
3177771 ACCTTGGAGATTGCCTCACCTAAAGTCTGCCTATTGACTTTGACCCTAGAGACTTTCCTACCTTC
1 ACCCTGGAGACTGCCTCACCTCAAGTCTGCCTGTCGGCTTTGA-CCTGGAGACTTTCTTACCCTC
*
3177836 AGTCTGCTTGTCGGCTTTG
65 AGTCTGCCTGTCGGCTTTG
* * * * * * * ** * *
3177855 ACCTTGGAAACTGCCTCATCTCAAGTCTGCCTATCGACTATGACCCTGGAAACTGCCTCA-TCTC
1 ACCCTGGAGACTGCCTCACCTCAAGTCTGCCTGTCGGCTTTGA-CCTGGAGACTTTCTTACCCTC
3177919 AAGTCTGCCTGTCGGCTTTG
65 -AGTCTGCCTGTCGGCTTTG
* * ** * * *
3177939 ACCCTGGAGACTTTCCT-ACTTTC-AGTCTGCCTGTCAACTTTGACCCTGGAGACTTCCTCA-GC
1 ACCCTGGAGAC-TGCCTCAC-CTCAAGTCTGCCTGTCGGCTTTGA-CCTGGAGACTTTCTTACCC
*
3178001 TAAAGTCTGCCTGTCGGCTTTG
63 T-CAGTCTGCCTGTCGGCTTTG
* * * * * * * *
3178023 ACCTTGGAGACTGCTTC-TCTCAAGTCTGCCTGCCAGCTTTGACCTTGAAAATTTTCTTACCCTT
1 ACCCTGGAGACTGCCTCACCTCAAGTCTGCCTGTCGGCTTTGACC-TGGAGACTTTCTTACCC-T
*
3178087 CAGTCTGCCTATCGGCTTTG
64 CAGTCTGCCTGTCGGCTTTG
* * * *
3178107 ACCTTAGAGACTACCTTACCTACAA-TCTGCCTGTCGGCTTTGACCTTGGAGAC-TT-TT---CT
1 ACCCTGGAGACTGCCTCACCT-CAAGTCTGCCTGTCGGCTTTGACC-TGGAGACTTTCTTACCCT
*
3178166 GC-GTCTGCCTGTCGGCTTTA
64 -CAGTCTGCCTGTCGGCTTTG
* * ** * *
3178186 ACCCTAGAGACTGCTTCATTTCAAGTCTGCCTGCCGGCTTTGACCTTGGAGACTTTCTTACCTTC
1 ACCCTGGAGACTGCCTCACCTCAAGTCTGCCTGTCGGCTTTGACC-TGGAGACTTTCTTACCCTC
* *
3178251 AGTCTGCCTATTGGCTTTG
65 AGTCTGCCTGTCGGCTTTG
* * * *
3178270 ACCTTGGAGACTG-CTTATCCTCAAGTCTACCTGTCGGCTTTGACCTGGAGACTTTCCTA-CCTC
1 ACCCTGGAGACTGCCTCA-CCTCAAGTCTGCCTGTCGGCTTTGACCTGGAGACTTTCTTACCCTC
* *
3178333 AAGTTTGCCTGTCGACTTTG
65 -AGTCTGCCTGTCGGCTTTG
* * * *
3178353 ACCCTGGAGACTTCTTTACCTTCAAGTCTGCCTGTCGACTTTGACCTTGGAGACTTT
1 ACCCTGGAGACTGCCTCACC-TCAAGTCTGCCTGTCGGCTTTGACC-TGGAGACTTT
3178410 TCCCCTTTTT
Statistics
Matches: 860, Mismatches: 161, Indels: 73
0.79 0.15 0.07
Matches are distributed among these distances:
78 3 0.00
79 59 0.07
80 4 0.00
81 2 0.00
82 7 0.01
83 154 0.18
84 576 0.67
85 52 0.06
86 3 0.00
ACGTcount: A:0.18, C:0.29, G:0.20, T:0.34
Consensus pattern (83 bp):
ACCCTGGAGACTGCCTCACCTCAAGTCTGCCTGTCGGCTTTGACCTGGAGACTTTCTTACCCTCA
GTCTGCCTGTCGGCTTTG
Found at i:3178473 original size:168 final size:163
Alignment explanation
Indices: 3178005--3178453 Score: 403
Period size: 163 Copynumber: 2.7 Consensus size: 163
3177995 CTCAGCTAAA
* * * * *
3178005 GTCTGCCTGTCGGCTTTGACCTTGGAGACTGCTTCTC-TCAAGTCTGCCTGCC-AGCTTTGACCT
1 GTCTGCCTGTCGACTTTAACCCTAGAGACTGCTTCACTTCAAGTCTGCCTGCCGA-CTTTGACCT
* * * * * ** * *
3178068 TGAAAATTTTCTTACCCTTCAGTCTGCCTATCGGCTTTGACCTTA-GAGACTACCTTA-CCTACA
65 TGGAGACTTTCTCA-CCTTCAGTCTGCATATTAGCTTTGACC-CAGGAGAAT-CCTTATCCT-CA
*
3178131 A-TCTGCCTGTCGGCTTTGACCTTGGAGACTTTTCTGC
126 AGTCTACCTGTCGGCTTTGACCTTGGAGACTTTTCTGC
* * *
3178168 GTCTGCCTGTCGGCTTTAACCCTAGAGACTGCTTCATTTCAAGTCTGCCTGCCGGCTTTGACCTT
1 GTCTGCCTGTCGACTTTAACCCTAGAGACTGCTTCACTTCAAGTCTGCCTGCCGACTTTGACCTT
* * * ** * *
3178233 GGAGACTTTCTTACCTTCAGTCTGCCTATTGGCTTTGACCTTGGAGACTGCTTATCCTCAAGTCT
66 GGAGACTTTCTCACCTTCAGTCTGCATATTAGCTTTGACCCAGGAGAATCCTTATCCTCAAGTCT
3178298 ACCTGTCGGCTTTGACC-TGGAGACTTTCCTACCT-C
131 ACCTGTCGGCTTTGACCTTGGAGACTTT--T--CTGC
* * * * * *
3178333 AAGTTTGCCTGTCGACTTTGACCCTGGAGACTTCTTTACCTTCAAGTCTGCCTGTCGACTTTGAC
1 --GTCTGCCTGTCGACTTTAACCCTAGAGACTGCTTCA-CTTCAAGTCTGCCTGCCGACTTTGAC
* * *
3178398 CTTGGAGACTTT-TCCCCTTTTTA-TCTGCATGTTAGCTTTGACCCAGGAGAATCCTT
63 CTTGGAGACTTTCTCACC--TTCAGTCTGCATATTAGCTTTGACCCAGGAGAATCCTT
3178454 TCGCTTTTGT
Statistics
Matches: 240, Mismatches: 32, Indels: 23
0.81 0.11 0.08
Matches are distributed among these distances:
162 18 0.08
163 86 0.36
164 36 0.15
165 1 0.00
166 2 0.01
167 33 0.14
168 61 0.25
169 3 0.01
ACGTcount: A:0.16, C:0.29, G:0.20, T:0.35
Consensus pattern (163 bp):
GTCTGCCTGTCGACTTTAACCCTAGAGACTGCTTCACTTCAAGTCTGCCTGCCGACTTTGACCTT
GGAGACTTTCTCACCTTCAGTCTGCATATTAGCTTTGACCCAGGAGAATCCTTATCCTCAAGTCT
ACCTGTCGGCTTTGACCTTGGAGACTTTTCTGC
Found at i:3178997 original size:14 final size:14
Alignment explanation
Indices: 3178978--3179037 Score: 58
Period size: 14 Copynumber: 4.5 Consensus size: 14
3178968 AAAAAGAAGA
3178978 AAAAATAATATAAT
1 AAAAATAATATAAT
*
3178992 AAAAAT-ATAGAAT
1 AAAAATAATATAAT
3179005 ATAAAATAAT-T-A-
1 A-AAAATAATATAAT
3179017 AAAAAT-ATATACAT
1 AAAAATAATATA-AT
3179031 AAAAATA
1 AAAAATA
3179038 GTGATAACTA
Statistics
Matches: 37, Mismatches: 2, Indels: 13
0.71 0.04 0.25
Matches are distributed among these distances:
10 2 0.05
11 6 0.16
12 1 0.03
13 9 0.24
14 17 0.46
15 2 0.05
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.27
Consensus pattern (14 bp):
AAAAATAATATAAT
Found at i:3179003 original size:25 final size:25
Alignment explanation
Indices: 3178978--3179037 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 25
3178968 AAAAAGAAGA
3178978 AAAAATAATATAATAAAA-ATATAGAAT
1 AAAAATAAT-TAA-AAAATATATAG-AT
*
3179005 ATAAAATAATTAAAAAATATATACAT
1 A-AAAATAATTAAAAAATATATAGAT
3179031 AAAAATA
1 AAAAATA
3179038 GTGATAACTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
25 6 0.20
26 7 0.23
27 9 0.30
28 8 0.27
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.27
Consensus pattern (25 bp):
AAAAATAATTAAAAAATATATAGAT
Found at i:3179406 original size:12 final size:12
Alignment explanation
Indices: 3179386--3179427 Score: 57
Period size: 12 Copynumber: 3.3 Consensus size: 12
3179376 TAATTGAGGT
3179386 GCAATGAAGAAA
1 GCAATGAAGAAA
*
3179398 GCGATGAAGCAAA
1 GCAATGAAG-AAA
3179411 TGCAATGAAGAAA
1 -GCAATGAAGAAA
3179424 GCAA
1 GCAA
3179428 ATGGCAAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
12 12 0.46
13 6 0.23
14 8 0.31
ACGTcount: A:0.52, C:0.12, G:0.26, T:0.10
Consensus pattern (12 bp):
GCAATGAAGAAA
Found at i:3179535 original size:30 final size:28
Alignment explanation
Indices: 3179494--3179563 Score: 95
Period size: 30 Copynumber: 2.4 Consensus size: 28
3179484 AACAGCAATT
* *
3179494 AAAGTAATCAAGATGCTGTAATGAAGACAA
1 AAAG-AATCAAGATGCAGCAATGAAGAC-A
3179524 AAATGAATCAAGATGCAGCAATGAAGACA
1 AAA-GAATCAAGATGCAGCAATGAAGACA
3179553 AAAGAATCAAG
1 AAAGAATCAAG
3179564 TAGCAAAGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
28 8 0.22
29 4 0.11
30 24 0.65
31 1 0.03
ACGTcount: A:0.53, C:0.11, G:0.20, T:0.16
Consensus pattern (28 bp):
AAAGAATCAAGATGCAGCAATGAAGACA
Found at i:3180616 original size:25 final size:22
Alignment explanation
Indices: 3180588--3180642 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 22
3180578 CGAACCAAGC
*
3180588 AAAAGAAAAAGCAGTAAAGCTAAAA
1 AAAAGAAAAA-CAG-AAA-CAAAAA
*
3180613 AAAAGTAATAACAGAAACAAAAA
1 AAAAG-AAAAACAGAAACAAAAA
3180636 AAAAGAA
1 AAAAGAA
3180643 GGAAGCAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 2 0.07
23 10 0.37
24 3 0.11
25 8 0.30
26 4 0.15
ACGTcount: A:0.73, C:0.07, G:0.13, T:0.07
Consensus pattern (22 bp):
AAAAGAAAAACAGAAACAAAAA
Found at i:3183964 original size:152 final size:153
Alignment explanation
Indices: 3183766--3184149 Score: 363
Period size: 152 Copynumber: 2.5 Consensus size: 153
3183756 AAGAATTGAG
*
3183766 ATTTTTATGAGAATCCAAGTTTGCCTTATTTGATAGACAAACTTTGATTCTAAGGAAAA-TGGTA
1 ATTTTTATGAGAATCCAAGTTTGCCTCATTTGATAGACAAACTTTGATTCTAA-GAAAATTGGTA
* * **
3183830 GAAAGGAAAG-ATTTCCTTGTGAAAGTGAAAA-ATCAATATCATGAATCCT-A-AGAAGAATGTG
65 GAAAGAAAAGCATGT-AATGTGAAA-T-AAAAGATCAATATCATGAATCCTAAGAGAAGAATGTG
*
3183891 TTTTTGTTGCCCAATCATGAAAAGGAT
127 TTTTTGTTGCCAAATCATGAAAAGGAT
* * *
3183918 ATTTTTATGAGAATCCATGTTTGTCTCATTT-A-AGCAACTAACTTTGATTCTAAGAAAATTGGT
1 ATTTTTATGAGAATCCAAGTTTGCCTCATTTGATAG--ACAAACTTTGATTCTAAGAAAATTGGT
* * * **
3183981 GGAAAGAAAAGCATGTAATGTGAAATAAAAGTGTCAATATCGTTCATCCTAATGAGAAGAATGTG
64 AGAAAGAAAAGCATGTAATGTGAAATAAAAG-ATCAATATCATGAATCCTAA-GAGAAGAATGTG
3184046 TTTTTGTTGCCAAATCATGAAAATAATGGAT
127 TTTTTGTTGCCAAATCATG--AA-AA-GGAT
* ** * * ** * * * *
3184077 ATTATTACAATAATCCAAGTTTGTCTCATTTGAGGGATAAACCTTGATTCTACGCAAAA-TAGT-
1 ATTTTTATGAGAATCCAAGTTTGCCTCATTTGATAGACAAACTTTGATTCTAAG-AAAATTGGTA
3184140 GAAAGAAAAG
65 GAAAGAAAAG
3184150 ATTTTCCTAC
Statistics
Matches: 191, Mismatches: 25, Indels: 26
0.79 0.10 0.11
Matches are distributed among these distances:
150 6 0.03
151 7 0.04
152 78 0.41
153 4 0.02
155 29 0.15
157 2 0.01
158 12 0.06
159 47 0.25
160 5 0.03
161 1 0.01
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.33
Consensus pattern (153 bp):
ATTTTTATGAGAATCCAAGTTTGCCTCATTTGATAGACAAACTTTGATTCTAAGAAAATTGGTAG
AAAGAAAAGCATGTAATGTGAAATAAAAGATCAATATCATGAATCCTAAGAGAAGAATGTGTTTT
TGTTGCCAAATCATGAAAAGGAT
Found at i:3186825 original size:37 final size:37
Alignment explanation
Indices: 3186749--3186831 Score: 105
Period size: 37 Copynumber: 2.3 Consensus size: 37
3186739 TTATGTTTGC
* * * * *
3186749 TTTCATGATTGTAATGAATGTTTGCCTTGCTTTTTTT
1 TTTCATGAATGCAATGAATGTTTGCCTTGATATTATT
*
3186786 TTTCATGAATGCAATTAATGTTTGCCTTGATATTATT
1 TTTCATGAATGCAATGAATGTTTGCCTTGATATTATT
3186823 TTT-ATGAAT
1 TTTCATGAAT
3186832 ACATGGGGGA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
36 6 0.15
37 34 0.85
ACGTcount: A:0.23, C:0.10, G:0.14, T:0.53
Consensus pattern (37 bp):
TTTCATGAATGCAATGAATGTTTGCCTTGATATTATT
Found at i:3187709 original size:13 final size:13
Alignment explanation
Indices: 3187691--3187715 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3187681 ATATTTCTTC
3187691 GTATCGATACATT
1 GTATCGATACATT
3187704 GTATCGATACAT
1 GTATCGATACAT
3187716 GTTCATAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:3187732 original size:32 final size:33
Alignment explanation
Indices: 3187670--3187733 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
3187660 CACACCCAGA
* * *
3187670 TGTATCGATACATATTTCTTCGTATCGATACAT
1 TGTATCGATACATAGTTCATAGTATCGATACAT
3187703 TGTATCGATACAT-GTTCATAGTATCGATACA
1 TGTATCGATACATAGTTCATAGTATCGATACA
3187734 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 15 0.54
33 13 0.46
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (33 bp):
TGTATCGATACATAGTTCATAGTATCGATACAT
Found at i:3187748 original size:20 final size:19
Alignment explanation
Indices: 3187701--3187753 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
3187691 GTATCGATAC
** *
3187701 ATTGTATCGATACATGTTC
1 ATTGTATCGATACACCTTA
*
3187720 ATAGTATCGATACACCTTAA
1 ATTGTATCGATACACCTT-A
3187740 ATTGTATCGATACA
1 ATTGTATCGATACA
3187754 TGAAATTGGT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (19 bp):
ATTGTATCGATACACCTTA
Found at i:3189803 original size:19 final size:18
Alignment explanation
Indices: 3189754--3189804 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 18
3189744 GATTTTATAA
*
3189754 TTATTAGATAATTA-TAT
1 TTATTAGATAAATATTAT
* *
3189771 TTTTTAGATGAATATTAT
1 TTATTAGATAAATATTAT
3189789 TTATTAAGATAAATAT
1 TTATT-AGATAAATAT
3189805 GAGTTTGAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 11 0.41
18 7 0.26
19 9 0.33
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (18 bp):
TTATTAGATAAATATTAT
Found at i:3190539 original size:28 final size:28
Alignment explanation
Indices: 3190508--3190562 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
3190498 AAATAAAGAT
3190508 AACCTCTAAAAACATAGGTGTTTAAATG
1 AACCTCTAAAAACATAGGTGTTTAAATG
3190536 AACCTCTAAAAACATAGGTGTTTAAAT
1 AACCTCTAAAAACATAGGTGTTTAAAT
3190563 TTTATTCAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.29
Consensus pattern (28 bp):
AACCTCTAAAAACATAGGTGTTTAAATG
Found at i:3195521 original size:18 final size:17
Alignment explanation
Indices: 3195479--3195523 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
3195469 TTATCTAATT
* * *
3195479 TATAATTATTAGATAAT
1 TATATTTATTAGACAAA
3195496 TATATTTATTAGACAAA
1 TATATTTATTAGACAAA
3195513 TATTATTTATT
1 TA-TATTTATT
3195524 GAGATAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 16 0.67
18 8 0.33
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.51
Consensus pattern (17 bp):
TATATTTATTAGACAAA
Found at i:3198202 original size:11 final size:11
Alignment explanation
Indices: 3198173--3198207 Score: 61
Period size: 11 Copynumber: 3.1 Consensus size: 11
3198163 TTTTAATTCT
3198173 ACTAATCCTCA
1 ACTAATCCTCA
3198184 ACTAAATCCTCA
1 ACT-AATCCTCA
3198196 ACTAATCCTCA
1 ACTAATCCTCA
3198207 A
1 A
3198208 GGAGTTCCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 12 0.52
12 11 0.48
ACGTcount: A:0.40, C:0.34, G:0.00, T:0.26
Consensus pattern (11 bp):
ACTAATCCTCA
Found at i:3198745 original size:42 final size:42
Alignment explanation
Indices: 3198692--3198814 Score: 174
Period size: 42 Copynumber: 2.9 Consensus size: 42
3198682 CATCTTCTTC
* * *
3198692 TCTCCTCCTCCTGTCATCCCCCCTCTCTCTATTATCTCTCCTG
1 TCTCC-CCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTG
*
3198735 TCTCCCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTG
1 TCTCCCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTG
* * *
3198777 TCTCTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 TCTCCCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
3198815 TTGAGGGCTA
Statistics
Matches: 72, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
42 67 0.93
43 5 0.07
ACGTcount: A:0.08, C:0.48, G:0.02, T:0.41
Consensus pattern (42 bp):
TCTCCCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTG
Found at i:3198754 original size:12 final size:11
Alignment explanation
Indices: 3198729--3198804 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
3198719 TCTATTATCT
*
3198729 CTCCTGTCTCCC
1 CTCCTATCT-CC
3198741 CTCCTATCATCC
1 CTCCTATC-TCC
3198753 CTCCTATCT--
1 CTCCTATCTCC
*
3198762 CTACTATCT--
1 CTCCTATCTCC
*
3198771 CTCCTGTCTCTC
1 CTCCTATCTC-C
3198783 CTCCTATCATCC
1 CTCCTATC-TCC
*
3198795 CTCCTCTCTC
1 CTCCTATCTC
3198805 TTCTTTCTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 3 0.06
12 32 0.60
13 3 0.06
ACGTcount: A:0.09, C:0.50, G:0.03, T:0.38
Consensus pattern (11 bp):
CTCCTATCTCC
Found at i:3206407 original size:59 final size:61
Alignment explanation
Indices: 3206315--3206443 Score: 194
Period size: 59 Copynumber: 2.2 Consensus size: 61
3206305 TAAAAACTTG
3206315 CCTTTTGTTTTTGCTGAAAAAACTTCAAAGCTTTCAATAGAT-TTTTGCTCACCT-GTTTC
1 CCTTTTGTTTTTGCTGAAAAAACTTCAAAGCTTTCAATAGATATTTTGCTCACCTGGTTTC
* * *
3206374 CCTTTTGTTTTTGCT-AAAAAATCTTCAAAGCTTTCAATGGATATTTTGCTCACTTGGTTTT
1 CCTTTTGTTTTTGCTGAAAAAA-CTTCAAAGCTTTCAATAGATATTTTGCTCACCTGGTTTC
3206435 CC-TTTGTTT
1 CCTTTTGTTT
3206444 GTAATAGATT
Statistics
Matches: 64, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
58 6 0.09
59 34 0.53
60 18 0.28
61 6 0.09
ACGTcount: A:0.22, C:0.19, G:0.12, T:0.47
Consensus pattern (61 bp):
CCTTTTGTTTTTGCTGAAAAAACTTCAAAGCTTTCAATAGATATTTTGCTCACCTGGTTTC
Found at i:3208352 original size:13 final size:13
Alignment explanation
Indices: 3208334--3208360 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3208324 ATATTATGCT
3208334 TTGTATCGATACA
1 TTGTATCGATACA
3208347 TTGTATCGATACA
1 TTGTATCGATACA
3208360 T
1 T
3208361 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:3219074 original size:2 final size:2
Alignment explanation
Indices: 3219067--3219096 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
3219057 ATGACTGAAA
3219067 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3219097 GGTGTGGTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3220256 original size:13 final size:13
Alignment explanation
Indices: 3220238--3220268 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
3220228 ACAATTCATC
3220238 ATGTATCGATACA
1 ATGTATCGATACA
3220251 ATGTATCGATACA
1 ATGTATCGATACA
*
3220264 TTGTA
1 ATGTA
3220269 CCATGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3220256 original size:33 final size:33
Alignment explanation
Indices: 3220217--3220284 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
3220207 CGTTACAAGT
*
3220217 AATGTATCGATACAATT-CATCATGTATCGATAC
1 AATGTATCGATAC-ATTGCACCATGTATCGATAC
*
3220250 AATGTATCGATACATTGTACCATGTATCGATAC
1 AATGTATCGATACATTGCACCATGTATCGATAC
3220283 AA
1 AA
3220285 ACAGTGGTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 3 0.09
33 29 0.91
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (33 bp):
AATGTATCGATACATTGCACCATGTATCGATAC
Found at i:3220357 original size:19 final size:19
Alignment explanation
Indices: 3220313--3220368 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
3220303 CTGCCAATCT
**
3220313 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
3220333 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
3220352 CATGTATCGATACAATG
1 CATGTATCGATACAATG
3220369 TATCGATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 19 0.56
20 15 0.44
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:3220371 original size:13 final size:13
Alignment explanation
Indices: 3220353--3220379 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3220343 TACAATGAAC
3220353 ATGTATCGATACA
1 ATGTATCGATACA
3220366 ATGTATCGATACA
1 ATGTATCGATACA
3220379 A
1 A
3220380 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3220955 original size:21 final size:22
Alignment explanation
Indices: 3220923--3220999 Score: 111
Period size: 22 Copynumber: 3.5 Consensus size: 22
3220913 AGTTTTCGTT
*
3220923 TTTCTCCCCCTTAATTAAAGAA
1 TTTCTCCCCCTTAATCAAAGAA
*
3220945 TTTCTCCCCTTTAATCAAA-AA
1 TTTCTCCCCCTTAATCAAAGAA
* *
3220966 TTTCTCCCCCTTGATCAAAGCA
1 TTTCTCCCCCTTAATCAAAGAA
3220988 TTTCTCCCCCTT
1 TTTCTCCCCCTT
3221000 TGTCAGATCT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
21 19 0.39
22 30 0.61
ACGTcount: A:0.25, C:0.34, G:0.04, T:0.38
Consensus pattern (22 bp):
TTTCTCCCCCTTAATCAAAGAA
Found at i:3222906 original size:13 final size:13
Alignment explanation
Indices: 3222888--3222912 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3222878 AGTAACCCAC
3222888 GTATCGATACAAT
1 GTATCGATACAAT
3222901 GTATCGATACAA
1 GTATCGATACAA
3222913 GGAATGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (13 bp):
GTATCGATACAAT
Found at i:3229172 original size:13 final size:13
Alignment explanation
Indices: 3229154--3229181 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
3229144 TCCATGTATT
3229154 AATGTATCGATAC
1 AATGTATCGATAC
3229167 AATGTATCGATAC
1 AATGTATCGATAC
3229180 AA
1 AA
3229182 AGCATAATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:3234002 original size:81 final size:81
Alignment explanation
Indices: 3233887--3234831 Score: 822
Period size: 81 Copynumber: 11.6 Consensus size: 81
3233877 AACGTGACAA
* * * * * * * * * **
3233887 GTTTGACCAAGGT-TGAACCATCTCGTTAAGCGAGGATGAAAAGGGTTTGACAAGATATGGTCAA
1 GTTTGACCAGGGTGAGAACCATCACGTCAAACAAGAATGAAAAGAGTTTGACCAGATACAGTCAA
*
3233951 ACGATAATGAAAAGAT
66 ACGATGATGAAAAGAT
* * * * * * * * * *
3233967 GTTTGACCAGGATGAGAACCATTACGTTAAACGAGGATGATAAGGGTTTGATCAGATATAGTTAA
1 GTTTGACCAGGGTGAGAACCATCACGTCAAACAAGAATGAAAAGAGTTTGACCAGATACAGTCAA
* *
3234032 ACGATAATGAATAGAT
66 ACGATGATGAAAAGAT
* ** * ** * ** * * *
3234048 GCTTGAGTAAGACGAGAGCCATCACGTCAAATGAGGATGAAAAGGGTTTGACCAGATATAGTCAA
1 GTTTGACCAGGGTGAGAACCATCACGTCAAACAAGAATGAAAAGAGTTTGACCAGATACAGTCAA
*
3234113 ACGATGATAAAAAGAT
66 ACGATGATGAAAAGAT
* * * * ** * *
3234129 GTTTGACTAGGATGAGAACCATCATGTCAAACAATAACAAAAAGAGTTTGACTAGATATAGTCAA
1 GTTTGACCAGGGTGAGAACCATCACGTCAAACAAGAATGAAAAGAGTTTGACCAGATACAGTCAA
* * *
3234194 ATGATAATGAAAAAAT
66 ACGATGATGAAAAGAT
* * * * * *
3234210 GTTTGACCAAGGTAAGAACCATCATGTCAAA-TAGAAATGAAATGGAGTTTGACCAGATACAGTT
1 GTTTGACCAGGGTGAGAACCATCACGTCAAACAAG-AATGAAA-AGAGTTTGACCAGATACAGTC
*
3234274 AAACGATGATGAAAGGAT
64 AAACGATGATGAAAAGAT
* ** * *
3234292 GTTTTACCAGGGCAAGAACCATCACGTCAAACAATAATGAAAAGAGTTTGACTAGATACAGTCAA
1 GTTTGACCAGGGTGAGAACCATCACGTCAAACAAGAATGAAAAGAGTTTGACCAGATACAGTCAA
*
3234357 ACGATGATGAAAATAT
66 ACGATGATGAAAAGAT
* * * *
3234373 GTTTGACTAGGGTGAGAACCATCACGTCAAA-TAGAAAT-AAAAGGAAGTTTGACTAGATATAGT
1 GTTTGACCAGGGTGAGAACCATCACGTCAAACAAG-AATGAAAA-G-AGTTTGACCAGATACAGT
*
3234436 CAAATGATGATGAAAAGAT
63 CAAACGATGATGAAAAGAT
* ** * * * ** *
3234455 GTTTGATCAGGGCAAGGACCATCACGTCAAATAATAACAAAAAGATTTTGACCAGATACAGTCAA
1 GTTTGACCAGGGTGAGAACCATCACGTCAAACAAGAATGAAAAGAGTTTGACCAGATACAGTCAA
* *
3234520 ATGGTGATGAAAAGAT
66 ACGATGATGAAAAGAT
* * * * * * *
3234536 GTTTGACTAGGGTAAAAACAATCACGTTAAA-TAGAAATGAAAAGAAGTTTGACCAAATACAGTC
1 GTTTGACCAGGGTGAGAACCATCACGTCAAACAAG-AATGAAAAG-AGTTTGACCAGATACAGTC
*
3234600 AAATGATGATGAAAAGAT
64 AAACGATGATGAAAAGAT
* * * * * * * *
3234618 GTTTAACCAAGGTGAGAACCATCACATCAATCAATAACGAAAAGAGTTTGACTAGATACAGTTAA
1 GTTTGACCAGGGTGAGAACCATCACGTCAAACAAGAATGAAAAGAGTTTGACCAGATACAGTCAA
*
3234683 ATGATGATGAAAAGAT
66 ACGATGATGAAAAGAT
* * * * * * * * *
3234699 GTTTGACCATGGCGAGAACCATAATGTTAAACAATAACGATAAGATTTTGACCAGATACAGTCAA
1 GTTTGACCAGGGTGAGAACCATCACGTCAAACAAGAATGAAAAGAGTTTGACCAGATACAGTCAA
3234764 ACGATGATGAAAAGAT
66 ACGATGATGAAAAGAT
* *
3234780 GTTTGACCAGGGTGAGAACTATCATGTCAAAC-AGAAATGAAAAGGAGTTTGA
1 GTTTGACCAGGGTGAGAACCATCACGTCAAACAAG-AATGAAAA-GAGTTTGA
3234832 TATTTAGATC
Statistics
Matches: 707, Mismatches: 144, Indels: 26
0.81 0.16 0.03
Matches are distributed among these distances:
80 19 0.03
81 482 0.68
82 199 0.28
83 7 0.01
ACGTcount: A:0.42, C:0.12, G:0.22, T:0.23
Consensus pattern (81 bp):
GTTTGACCAGGGTGAGAACCATCACGTCAAACAAGAATGAAAAGAGTTTGACCAGATACAGTCAA
ACGATGATGAAAAGAT
Found at i:3234312 original size:163 final size:163
Alignment explanation
Indices: 3233922--3234812 Score: 923
Period size: 163 Copynumber: 5.5 Consensus size: 163
3233912 TTAAGCGAGG
* ** * *
3233922 ATGAAAAGG-GTTTGACAAGATATGGTCAAACGATAATGAAAAGATGTTTGACCAGGATGAGAAC
1 ATGAAAAGGAGTTTGACCAGATACAGTCAAACGATGATGAAAAGATGTTTGACCAGGGTGAGAAC
* * * ** ** * * * * * * * *
3233986 CATTACGTTAAACGAGGATGATAAGGGTTTGA-TCAGATATAGTTAAACGATAATGAATAGATGC
66 CATCACGTCAAACAATAACAAAAAGAGTTTGACT-AGATACAGTCAAATGATGATGAAAAGATGT
** * *** * *
3234050 TTGAGTAAGACGAGAGCCATCACGTCAAAT-GAGG
130 TTGACCAGGGTAAGAACCATCACGTCAAATAGA-A
* * * *
3234084 ATGAAAAGG-GTTTGACCAGATATAGTCAAACGATGATAAAAAGATGTTTGACTAGGATGAGAAC
1 ATGAAAAGGAGTTTGACCAGATACAGTCAAACGATGATGAAAAGATGTTTGACCAGGGTGAGAAC
* * * *
3234148 CATCATGTCAAACAATAACAAAAAGAGTTTGACTAGATATAGTCAAATGATAATGAAAAAATGTT
66 CATCACGTCAAACAATAACAAAAAGAGTTTGACTAGATACAGTCAAATGATGATGAAAAGATGTT
* *
3234213 TGACCAAGGTAAGAACCATCATGTCAAATAGAA
131 TGACCAGGGTAAGAACCATCACGTCAAATAGAA
* * * * **
3234246 ATGAAATGGAGTTTGACCAGATACAGTTAAACGATGATGAAAGGATGTTTTACCAGGGCAAGAAC
1 ATGAAAAGGAGTTTGACCAGATACAGTCAAACGATGATGAAAAGATGTTTGACCAGGGTGAGAAC
** * *
3234311 CATCACGTCAAACAATAATGAAAAGAGTTTGACTAGATACAGTCAAACGATGATGAAAATATGTT
66 CATCACGTCAAACAATAACAAAAAGAGTTTGACTAGATACAGTCAAATGATGATGAAAAGATGTT
* *
3234376 TGACTAGGGTGAGAACCATCACGTCAAATAGAA
131 TGACCAGGGTAAGAACCATCACGTCAAATAGAA
* * * * ** *
3234409 AT-AAAAGGAAGTTTGACTAGATATAGTCAAATGATGATGAAAAGATGTTTGATCAGGGCAAGGA
1 ATGAAAAGG-AGTTTGACCAGATACAGTCAAACGATGATGAAAAGATGTTTGACCAGGGTGAGAA
* * * *
3234473 CCATCACGTCAAATAATAACAAAAAGATTTTGACCAGATACAGTCAAATGGTGATGAAAAGATGT
65 CCATCACGTCAAACAATAACAAAAAGAGTTTGACTAGATACAGTCAAATGATGATGAAAAGATGT
* * * *
3234538 TTGACTAGGGTAAAAACAATCACGTTAAATAGAA
130 TTGACCAGGGTAAGAACCATCACGTCAAATAGAA
* * * * *
3234572 ATGAAAAGAAGTTTGACCAAATACAGTCAAATGATGATGAAAAGATGTTTAACCAAGGTGAGAAC
1 ATGAAAAGGAGTTTGACCAGATACAGTCAAACGATGATGAAAAGATGTTTGACCAGGGTGAGAAC
* * * *
3234637 CATCACATCAATCAATAACGAAAAGAGTTTGACTAGATACAGTTAAATGATGATGAAAAGATGTT
66 CATCACGTCAAACAATAACAAAAAGAGTTTGACTAGATACAGTCAAATGATGATGAAAAGATGTT
* ** * * * *
3234702 TGACCATGGCGAGAACCATAATGTTAAACA-ATA
131 TGACCAGGGTAAGAACCATCACGTCAAATAGA-A
* * *
3234735 ACGATAA-GATTTTGACCAGATACAGTCAAACGATGATGAAAAGATGTTTGACCAGGGTGAGAAC
1 ATGAAAAGGAGTTTGACCAGATACAGTCAAACGATGATGAAAAGATGTTTGACCAGGGTGAGAAC
* *
3234799 TATCATGTCAAACA
66 CATCACGTCAAACA
3234813 GAAATGAAAA
Statistics
Matches: 614, Mismatches: 109, Indels: 12
0.84 0.15 0.02
Matches are distributed among these distances:
162 204 0.33
163 405 0.66
164 5 0.01
ACGTcount: A:0.43, C:0.12, G:0.21, T:0.23
Consensus pattern (163 bp):
ATGAAAAGGAGTTTGACCAGATACAGTCAAACGATGATGAAAAGATGTTTGACCAGGGTGAGAAC
CATCACGTCAAACAATAACAAAAAGAGTTTGACTAGATACAGTCAAATGATGATGAAAAGATGTT
TGACCAGGGTAAGAACCATCACGTCAAATAGAA
Found at i:3234357 original size:244 final size:243
Alignment explanation
Indices: 3233925--3234831 Score: 934
Period size: 244 Copynumber: 3.7 Consensus size: 243
3233915 AGCGAGGATG
* * * *
3233925 AAAAGGGTTTGACAAGATATGGTCAAACGATAATGAAAAGATGTTTGACC-AGG-ATGAGAACCA
1 AAAAGAGTTTGACTAGATATAGTCAAATGATAATGAAAAGATGTTTGACCAAGGCA--AGAACCA
* * ** ** * * * * * *
3233988 TTACGTTAAACGAGGATGATAAGG-GTTTGATCAGATATAGTTAAACGATAATGAATAGATGCTT
64 TCACGTCAAATAATAATGATAAGGAGTTTGACCAGATACAGTCAAACGATGATGAAAAGATGTTT
** * * * * * * * *
3234052 GAGTAAGACGAGAGCCATCACGTCAAA-TGAGGATGAAAAGGGTTTGACCAGATATAGTCAAACG
129 GACCAGGGCAAGAACCATCACGTCAAACAGA-AATGAAAAGAGTTTGACCAGATACAGTCAAACG
* *
3234116 ATGATAAAAAGATGTTTGACTAGGATGAGAACCATCATGTCAAACAATAACA
193 ATGATGAAAAGATGTTTGACTAGG-TGAGAACCATCACGTCAAACAATAACA
* *
3234168 AAAAGAGTTTGACTAGATATAGTCAAATGATAATGAAAAAATGTTTGACCAAGGTAAGAACCATC
1 AAAAGAGTTTGACTAGATATAGTCAAATGATAATGAAAAGATGTTTGACCAAGGCAAGAACCATC
* * *
3234233 ATGTCAAATAGA-AATGA-AATGGAGTTTGACCAGATACAGTTAAACGATGATGAAAGGATGTTT
66 ACGTCAAATA-ATAATGATAA-GGAGTTTGACCAGATACAGTCAAACGATGATGAAAAGATGTTT
* *
3234296 TACCAGGGCAAGAACCATCACGTCAAACA-ATAATGAAAAGAGTTTGACTAGATACAGTCAAACG
129 GACCAGGGCAAGAACCATCACGTCAAACAGA-AATGAAAAGAGTTTGACCAGATACAGTCAAACG
* * *
3234360 ATGATGAAAATATGTTTGACTAGGGTGAGAACCATCACGTCAAATAGA-AATA
193 ATGATGAAAAGATGTTTGACTA-GGTGAGAACCATCACGTCAAACA-ATAACA
* * * * *
3234412 AAAGGAAGTTTGACTAGATATAGTCAAATGATGATGAAAAGATGTTTGATCAGGGCAAGGACCAT
1 AAAAG-AGTTTGACTAGATATAGTCAAATGATAATGAAAAGATGTTTGACCAAGGCAAGAACCAT
* * * * * *
3234477 CACGTCAAATAATAA-CAAAAAGATTTTGACCAGATACAGTCAAATGGTGATGAAAAGATGTTTG
65 CACGTCAAATAATAATGATAAGGAGTTTGACCAGATACAGTCAAACGATGATGAAAAGATGTTTG
* * * * * * * *
3234541 ACTAGGGTAAAAACAATCACGTTAAATAGAAATGAAAAGAAGTTTGACCAAATACAGTCAAATGA
130 ACCAGGGCAAGAACCATCACGTCAAACAGAAATGAAAAG-AGTTTGACCAGATACAGTCAAACGA
* * * * *
3234606 TGATGAAAAGATGTTTAACCAAGGTGAGAACCATCACATCAATCAATAACG
194 TGATGAAAAGATGTTTGA-CTAGGTGAGAACCATCACGTCAAACAATAACA
* * * * * *
3234657 AAAAGAGTTTGACTAGATACAGTTAAATGATGATGAAAAGATGTTTGACCATGGCGAGAACCATA
1 AAAAGAGTTTGACTAGATATAGTCAAATGATAATGAAAAGATGTTTGACCAAGGCAAGAACCATC
* * * * *
3234722 ATGTTAAACAATAACGATAA-GATTTTGACCAGATACAGTCAAACGATGATGAAAAGATGTTTGA
66 ACGTCAAATAATAATGATAAGGAGTTTGACCAGATACAGTCAAACGATGATGAAAAGATGTTTGA
** * *
3234786 CCAGGGTGAGAACTATCATGTCAAACAGAAATGAAAAGGAGTTTGA
131 CCAGGGCAAGAACCATCACGTCAAACAGAAATGAAAA-GAGTTTGA
3234832 TATTTAGATC
Statistics
Matches: 557, Mismatches: 90, Indels: 33
0.82 0.13 0.05
Matches are distributed among these distances:
242 2 0.00
243 65 0.12
244 348 0.62
245 140 0.25
246 2 0.00
ACGTcount: A:0.43, C:0.12, G:0.22, T:0.23
Consensus pattern (243 bp):
AAAAGAGTTTGACTAGATATAGTCAAATGATAATGAAAAGATGTTTGACCAAGGCAAGAACCATC
ACGTCAAATAATAATGATAAGGAGTTTGACCAGATACAGTCAAACGATGATGAAAAGATGTTTGA
CCAGGGCAAGAACCATCACGTCAAACAGAAATGAAAAGAGTTTGACCAGATACAGTCAAACGATG
ATGAAAAGATGTTTGACTAGGTGAGAACCATCACGTCAAACAATAACA
Found at i:3234967 original size:12 final size:12
Alignment explanation
Indices: 3234950--3234974 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3234940 AAGGTTGAAG
3234950 TAATTTGATATT
1 TAATTTGATATT
3234962 TAATTTGATATT
1 TAATTTGATATT
3234974 T
1 T
3234975 GAGATCTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (12 bp):
TAATTTGATATT
Found at i:3235728 original size:91 final size:92
Alignment explanation
Indices: 3235398--3235725 Score: 376
Period size: 91 Copynumber: 3.6 Consensus size: 92
3235388 TTTGTTGTCA
* * * * * * * *
3235398 TGTGGTGCATCAATACCATCTAGTGGCTAAAAGAAAGAGATGTGATTGGGAATGAGTGGTCGAGA
1 TGTGATGCATCAATACCATATAGTGGTTAGATGAAAGGGATGTGATTGGGAATGAGTGGTTGGGA
3235463 TATCTTTGCCCCAAAGGAAATCAGGCTT
66 TATCTTTGCCCC-AAGGAAATCAGGCTT
* * * * * *
3235491 TATGATGCATCAATACTATATAGTGGTTGGATGAAGGGGATGTGATTTGGAATGAGTGAGTT-GT
1 TGTGATGCATCAATACCATATAGTGGTTAGATGAAAGGGATGTGATTGGGAATGAGTG-GTTGGG
* * *
3235555 ACA-CTTTTCCCCAAGGAAATTAGGCTT
65 ATATCTTTGCCCCAAGGAAATCAGGCTT
* * * *
3235582 CGTAATGCATCAATACCATATAGTGGTTAGAT-AAAGGGATATGATTGGGAATGTGTGGTTGGGA
1 TGTGATGCATCAATACCATATAGTGGTTAGATGAAAGGGATGTGATTGGGAATGAGTGGTTGGGA
* *
3235646 TATCCTTGCTCCAAGGAAATCAGGCTT
66 TATCTTTGCCCCAAGGAAATCAGGCTT
* * *
3235673 TGTGATGCATCAATACCATCTAGT-GTTGGATGAAAGGGATTTGATTGGGAATG
1 TGTGATGCATCAATACCATATAGTGGTTAGATGAAAGGGATGTGATTGGGAATG
3235726 TGTAGTCTGC
Statistics
Matches: 194, Mismatches: 37, Indels: 10
0.80 0.15 0.04
Matches are distributed among these distances:
89 3 0.02
90 30 0.15
91 102 0.53
92 8 0.04
93 49 0.25
94 2 0.01
ACGTcount: A:0.30, C:0.12, G:0.28, T:0.30
Consensus pattern (92 bp):
TGTGATGCATCAATACCATATAGTGGTTAGATGAAAGGGATGTGATTGGGAATGAGTGGTTGGGA
TATCTTTGCCCCAAGGAAATCAGGCTT
Found at i:3237278 original size:10 final size:10
Alignment explanation
Indices: 3237263--3237316 Score: 56
Period size: 11 Copynumber: 5.2 Consensus size: 10
3237253 GTATCATGCT
3237263 TTTTTTTTTC
1 TTTTTTTTTC
3237273 TTTTTTTTTTC
1 -TTTTTTTTTC
3237284 ATTTTTCTTTTC
1 -TTTTT-TTTTC
*
3237296 -TTTTCTTTC
1 TTTTTTTTTC
*
3237305 TTTTTGTTTC
1 TTTTTTTTTC
3237315 TT
1 TT
3237317 ACTTAGAGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
9 4 0.11
10 14 0.37
11 15 0.39
12 5 0.13
ACGTcount: A:0.02, C:0.13, G:0.02, T:0.83
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:3237279 original size:12 final size:11
Alignment explanation
Indices: 3237261--3237299 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
3237251 TCGTATCATG
3237261 CTTTTTTTTTT
1 CTTTTTTTTTT
3237272 CTTTTTTTTTT
1 CTTTTTTTTTT
*
3237283 CATTTTTCTTTT
1 C-TTTTTTTTTT
3237295 CTTTT
1 CTTTT
3237300 CTTTCTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 16 0.62
12 10 0.38
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.85
Consensus pattern (11 bp):
CTTTTTTTTTT
Found at i:3237279 original size:14 final size:14
Alignment explanation
Indices: 3237263--3237316 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
3237253 GTATCATGCT
3237263 TTTTTTTTTCTTT-
1 TTTTTTTTTCTTTC
3237276 TTTTTTTCATT-TTTC
1 TTTTTTT--TTCTTTC
*
3237291 TTTTCTTTTCTTTC
1 TTTTTTTTTCTTTC
*
3237305 TTTTTGTTTCTT
1 TTTTTTTTTCTT
3237317 ACTTAGAGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
13 9 0.26
14 17 0.50
15 8 0.24
ACGTcount: A:0.02, C:0.13, G:0.02, T:0.83
Consensus pattern (14 bp):
TTTTTTTTTCTTTC
Found at i:3241692 original size:155 final size:157
Alignment explanation
Indices: 3241338--3241810 Score: 440
Period size: 155 Copynumber: 3.0 Consensus size: 157
3241328 GCCCAGTGAT
* * **
3241338 CCTAAAGGACTTAAAAAGGATTATAGATGGGATGAAACC-ATCCTAAATACCCACCATCGGGTTA
1 CCTAAAGGACTTAAAAAGGATTATAGATGGGATG-AACCTATCCTAAATACCCACTATCAGCATA
* * * ** * * * *
3241402 GAAGCGAATCTAGTGACAACATAGGACTCAGTTAAGAAAAAATTATGAAAATACCCTTAGGTCTG
65 AAAGCGGACCCGGTGACAAC-TAGGACTCAGTTAAGAAAAAATTATCAAAAAACCCCTAGGTCGG
3241467 ATACCTTAAACTCAAAAGTGCCTAATACC
129 ATACCTTAAACTCAAAAGTGCCTAATACC
* * * *
3241496 CCTAAACGACTTAAAAAGGATTATAGATGGGATAAACCTATCATAAATACCCACTTTCAGCATAA
1 CCTAAAGGACTTAAAAAGGATTATAGATGGGATGAACCTATCCTAAATACCCACTATCAGCATAA
* * *
3241561 AAGTGGACCCGGTGACAATCTAGGACTCAGTTATGAAAAAATTA-CAAAAAACCCCT-GG-GGGA
66 AAGCGGACCCGGTGACAA-CTAGGACTCAGTTAAGAAAAAATTATCAAAAAACCCCTAGGTCGGA
* ** * * ** *
3241623 TATCTTTGACTTAGAAGTGTTTGATACC
130 TACCTTAAACTCAAAAGTGCCTAATACC
* * *
3241651 CTTAAAGGACTTAAAAAGGATTATAGATGAGATGAACCTATCCTAAATACCCA-TCGTCAGCATA
1 CCTAAAGGACTTAAAAAGGATTATAGATGGGATGAACCTATCCTAAATACCCACT-ATCAGCATA
* * * * * ** *
3241715 AAAGCAGACCCGGTGACAACCTAAGACTCGGTTCTAG-AAAAATTATGAAAATGCCCCTAAG--G
65 AAAGCGGACCCGGTGACAA-CTAGGACTCAGTT-AAGAAAAAATTATCAAAAAACCCCTAGGTCG
* * * * *
3241777 GATACCTTCAACTTAGAAGTGCCTGATAAC
128 GATACCTTAAACTCAAAAGTGCCTAATACC
3241807 CCTA
1 CCTA
3241811 GTAGACACTA
Statistics
Matches: 257, Mismatches: 52, Indels: 14
0.80 0.16 0.04
Matches are distributed among these distances:
154 1 0.00
155 114 0.44
156 40 0.16
157 14 0.05
158 87 0.34
159 1 0.00
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.23
Consensus pattern (157 bp):
CCTAAAGGACTTAAAAAGGATTATAGATGGGATGAACCTATCCTAAATACCCACTATCAGCATAA
AAGCGGACCCGGTGACAACTAGGACTCAGTTAAGAAAAAATTATCAAAAAACCCCTAGGTCGGAT
ACCTTAAACTCAAAAGTGCCTAATACC
Found at i:3242864 original size:33 final size:33
Alignment explanation
Indices: 3242807--3242871 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
3242797 CGTTACAAGC
* *
3242807 AATGTATCGATACAATTCATCATGTATTGATAT
1 AATGTATCGATACAATTCACCATGTATCGATAT
*
3242840 AATGTATCGATA-TATTGCACCATGTATCGATA
1 AATGTATCGATACAATT-CACCATGTATCGATA
3242872 CAAACAGTGG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 3 0.11
33 25 0.89
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (33 bp):
AATGTATCGATACAATTCACCATGTATCGATAT
Found at i:3242928 original size:20 final size:20
Alignment explanation
Indices: 3242903--3242962 Score: 86
Period size: 20 Copynumber: 3.0 Consensus size: 20
3242893 CTGCCAATCT
3242903 CATGTATCGATACAATTATC
1 CATGTATCGATACAATTATC
* *
3242923 CATGTATCGATACAATGA-A
1 CATGTATCGATACAATTATC
3242942 CATGTATCGATACAATGTATC
1 CATGTATCGATACAAT-TATC
3242963 GATACAAAGC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
19 16 0.47
20 18 0.53
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (20 bp):
CATGTATCGATACAATTATC
Found at i:3242947 original size:19 final size:20
Alignment explanation
Indices: 3242903--3242958 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 20
3242893 CTGCCAATCT
* *
3242903 CATGTATCGATACAATTATC
1 CATGTATCGATACAATGATA
3242923 CATGTATCGATACAATGA-A
1 CATGTATCGATACAATGATA
3242942 CATGTATCGATACAATG
1 CATGTATCGATACAATG
3242959 TATCGATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 17 0.50
20 17 0.50
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAATGATA
Found at i:3242961 original size:13 final size:13
Alignment explanation
Indices: 3242943--3242969 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3242933 TACAATGAAC
3242943 ATGTATCGATACA
1 ATGTATCGATACA
3242956 ATGTATCGATACA
1 ATGTATCGATACA
3242969 A
1 A
3242970 AGCATTATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3245487 original size:13 final size:13
Alignment explanation
Indices: 3245469--3245495 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3245459 ATAGTAACCC
3245469 ATGTATCGATACA
1 ATGTATCGATACA
3245482 ATGTATCGATACA
1 ATGTATCGATACA
3245495 A
1 A
3245496 GGAATGTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3249371 original size:20 final size:21
Alignment explanation
Indices: 3249339--3249381 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
3249329 GAATCATACA
3249339 AATTCTTATTTTTC-TTAGCT
1 AATTCTTATTTTTCATTAGCT
3249359 AATTCATTA-TTTTCATTAGCT
1 AATTC-TTATTTTTCATTAGCT
3249380 AA
1 AA
3249382 CTTTTTAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.28, C:0.14, G:0.05, T:0.53
Consensus pattern (21 bp):
AATTCTTATTTTTCATTAGCT
Found at i:3251708 original size:19 final size:20
Alignment explanation
Indices: 3251664--3251717 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
3251654 CTGCTAGTTT
* **
3251664 CATGTATCGATATAATTGTC
1 CATGTATCGATACAATTGAA
3251684 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
3251703 CATGTATCGATACAA
1 CATGTATCGATACAA
3251718 AGCGTAATGT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:3255708 original size:52 final size:52
Alignment explanation
Indices: 3255630--3255830 Score: 321
Period size: 52 Copynumber: 3.9 Consensus size: 52
3255620 CGAAATATGA
3255630 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
**
3255682 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
* ** *
3255734 AAATTTGCCTGCATGTATTGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
** *
3255786 AAATTTGCCTGCATGTATCGATACAAAGATTAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACA
3255831 ATGTATCGAT
Statistics
Matches: 138, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 138 1.00
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
Found at i:3255837 original size:13 final size:13
Alignment explanation
Indices: 3255819--3255843 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3255809 CAAAGATTAG
3255819 TGTATCGATACAA
1 TGTATCGATACAA
3255832 TGTATCGATACA
1 TGTATCGATACA
3255844 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3255921 original size:33 final size:33
Alignment explanation
Indices: 3255884--3255950 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3255874 AGTAGCTTAA
3255884 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
3255917 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
3255950 A
1 A
3255951 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:3255924 original size:13 final size:13
Alignment explanation
Indices: 3255906--3255930 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3255896 CAAAAAAATA
3255906 TGTATCGATACAT
1 TGTATCGATACAT
3255919 TGTATCGATACA
1 TGTATCGATACA
3255931 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3256952 original size:52 final size:49
Alignment explanation
Indices: 3256815--3257256 Score: 458
Period size: 52 Copynumber: 9.0 Consensus size: 49
3256805 TGAGAAAAGT
* * * * * *
3256815 GATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAA
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA
* ** * *
3256864 GATGAGAAAAAGGATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
1 GAT-----AAAGG-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA
3256919 GATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T---
1 GAT---AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA
* * *
3256967 --TAAAGGTGCCAATGTGCTGATTCAAGGCCAGTTACATTGGACTTAAA
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA
* * *
3257014 GATGAAGAATGTGCCAATATGCTGATTCAAGGCCAGTTACATTGGACTTAAA
1 GAT--A-AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA
* *
3257066 GATGAAGAATGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T---
1 GAT--A-AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA
* *
3257114 --TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA
3257161 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA
* *
3257210 GATAAAGGTGCCAATATGGTGATTCAAGGCCAGCTATATTGGGCTTA
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA
3257257 GAAGGGTTGC
Statistics
Matches: 339, Mismatches: 33, Indels: 42
0.82 0.08 0.10
Matches are distributed among these distances:
43 74 0.22
44 3 0.01
46 2 0.01
49 94 0.28
51 3 0.01
52 118 0.35
53 7 0.02
54 4 0.01
55 34 0.10
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.26
Consensus pattern (49 bp):
GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA
Found at i:3257003 original size:95 final size:93
Alignment explanation
Indices: 3256886--3257261 Score: 415
Period size: 95 Copynumber: 3.9 Consensus size: 93
3256876 GATGTCAACG
*
3256886 TGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAGG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAATATGCTGATTCAAGG
* *
3256951 CCAGCTATATTGGACTTA-AAGGTGCCAATG
63 CCAGCTACATTGGACTTAGAAGGTGCCAATA
* *
3256981 TGCTGATTCAAGGCCAGTTACATTGGACTTAAAGATGAAGAATGTGCCAATATGCTGATTCAAGG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT--A-AAGGTGCCAATATGCTGATTCAAGG
*
3257046 CCAGTTACATTGGACTTAAAGATGAAGAATGTGCCAATA
63 CCAGCTACATTGGACTT----A-GAAG---GTGCCAATA
* * *
3257085 TGCTGATTCAAGGCCAGCGATATTGGAC-T-----TAAAGGTGCCAATGTGCTGATTCAAGGCCA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCA
3257144 GCTACATTGGACTTAAAGATAAAGGTGCCAATA
66 GCTACATTGGACTT--AG---AAGGTGCCAATA
* *
3257177 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGCCAATATGGTGATTCAAGGCCA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCA
* *
3257242 GCTATATTGGGCTTAGAAGG
66 GCTACATTGGACTTAGAAGG
3257262 GTTGCCACCG
Statistics
Matches: 244, Mismatches: 18, Indels: 40
0.81 0.06 0.13
Matches are distributed among these distances:
92 37 0.15
93 7 0.03
94 3 0.01
95 115 0.47
96 3 0.01
98 41 0.17
99 1 0.00
101 3 0.01
103 1 0.00
104 33 0.14
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (93 bp):
TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCA
GCTACATTGGACTTAGAAGGTGCCAATA
Found at i:3257087 original size:147 final size:143
Alignment explanation
Indices: 3256886--3257261 Score: 603
Period size: 147 Copynumber: 2.6 Consensus size: 143
3256876 GATGTCAACG
*
3256886 TGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAGG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-GAAAAGGTGCCAATATGCTGATTCAAGG
*
3256951 CCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGTTACATTGGACTTAAAGA
65 CCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA
*
3257016 TGAAGAATGTGCCAATA
130 T--A-AAGGTGCCAATA
* *
3257033 TGCTGATTCAAGGCCAGTTACATTGGACTTAAAGATGAAGAATGTGCCAATATGCTGATTCAAGG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA-AAGGTGCCAATATGCTGATTCAAGG
*
3257098 CCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA
65 CCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA
3257163 TAAAGGTGCCAATA
130 TAAAGGTGCCAATA
* *
3257177 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT--AAAGGTGCCAATATGGTGATTCAAGGC
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAAAGGTGCCAATATGCTGATTCAAGGC
*
3257240 CAGCTATATTGGGCTTAGAAGG
66 CAGCTATATTGGACTTA-AAGG
3257262 GTTGCCACCG
Statistics
Matches: 215, Mismatches: 12, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
141 39 0.18
142 5 0.02
144 45 0.21
145 1 0.00
146 3 0.01
147 122 0.57
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (143 bp):
TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAAAGGTGCCAATATGCTGATTCAAGGC
CAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
AAAGGTGCCAATA
Found at i:3257283 original size:30 final size:32
Alignment explanation
Indices: 3257249--3257323 Score: 118
Period size: 33 Copynumber: 2.4 Consensus size: 32
3257239 CCAGCTATAT
3257249 TGGGC-TTAGAAG-GGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAGAGGTTGCCACCGACTTGTG
*
3257279 TGGGCTTTGGAAGAAGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAG-AGGTTGCCACCGACTTGTG
3257312 TGGGCTTTAGAA
1 TGGGCTTTAGAA
3257324 AGGGAGAAAG
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
30 5 0.12
31 6 0.15
33 29 0.73
ACGTcount: A:0.19, C:0.17, G:0.36, T:0.28
Consensus pattern (32 bp):
TGGGCTTTAGAAGAGGTTGCCACCGACTTGTG
Found at i:3257300 original size:33 final size:34
Alignment explanation
Indices: 3257256--3257319 Score: 121
Period size: 33 Copynumber: 1.9 Consensus size: 34
3257246 TATTGGGCTT
3257256 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGGA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGGA
3257290 AGAA-GGTTGCCACCGACTTGTGTGGGCTTT
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTT
3257320 AGAAAGGGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 26 0.87
34 4 0.13
ACGTcount: A:0.17, C:0.19, G:0.36, T:0.28
Consensus pattern (34 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGGA
Found at i:3257451 original size:37 final size:36
Alignment explanation
Indices: 3257310--3257569 Score: 335
Period size: 37 Copynumber: 7.4 Consensus size: 36
3257300 CACCGACTTG
*
3257310 TGTGGGCTTTAGAAAGGGAGAAAGA-TGCCACGGAGT
1 TGTGGGCTTTA-AAAGGGAAAAAGAGTGCCACGGAGT
*
3257346 TGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
*
3257381 TGTGGGCTTTAAAA--GAAAAA-AGTGCCATGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
3257414 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTT-AAAAGGGAAAAAGAGTGCCACGGAGT
*
3257451 TATGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTT-AAAAGGGAAAAAGAGTGCCACGGAGT
*
3257488 TGTGGGCTTTAAACA--GAAAAAG-GTGCCACAGAGT
1 TGTGGGCTTTAAA-AGGGAAAAAGAGTGCCACGGAGT
* *
3257522 TGTGGGCTTTGAAA--GAAGAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
3257555 TGTGGGCTTTGAAAA
1 TGTGGGCTTT-AAAA
3257570 AGATGCCACT
Statistics
Matches: 204, Mismatches: 12, Indels: 18
0.87 0.05 0.08
Matches are distributed among these distances:
33 50 0.25
34 48 0.24
35 27 0.13
36 21 0.10
37 58 0.28
ACGTcount: A:0.33, C:0.11, G:0.35, T:0.21
Consensus pattern (36 bp):
TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
Found at i:3257466 original size:29 final size:30
Alignment explanation
Indices: 3257431--3257593 Score: 141
Period size: 37 Copynumber: 5.0 Consensus size: 30
3257421 TTTGAAAAGG
*
3257431 GAAAAAGAGTGCCACGGAGTTATGGGCTTT
1 GAAAAAGAGTGCCACGGAGTTGTGGGCTTT
3257461 GAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
1 -------GAAAAAGAGTGCCACGGAGTTGTGGGCTTT
*
3257498 AAACAGAAAAAG-GTGCCACAGAGTTGTGGGCTTT
1 -----GAAAAAGAGTGCCACGGAGTTGTGGGCTTT
3257532 GAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT
1 GAAA-AAG-A-GTGCCACGGAGTTGTGGGCTTT
* *
3257565 GAAAAAGA-TGCCACTGACTTGTGGGCTTT
1 GAAAAAGAGTGCCACGGAGTTGTGGGCTTT
3257594 TGAAGGGTAA
Statistics
Matches: 115, Mismatches: 7, Indels: 16
0.83 0.05 0.12
Matches are distributed among these distances:
29 23 0.20
30 3 0.03
31 1 0.01
32 3 0.03
33 25 0.22
34 21 0.18
35 10 0.09
37 29 0.25
ACGTcount: A:0.31, C:0.13, G:0.34, T:0.22
Consensus pattern (30 bp):
GAAAAAGAGTGCCACGGAGTTGTGGGCTTT
Found at i:3257516 original size:141 final size:141
Alignment explanation
Indices: 3257312--3257569 Score: 394
Period size: 141 Copynumber: 1.8 Consensus size: 141
3257302 CCGACTTGTG
* ** *
3257312 TGGGCTTTAGAAAGGGAGAAAGATGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACG
1 TGGGCTTTAGAAAGGGAAAAAGATGCCACGGAGTTGTGGACTTAAAACAGAAAAAGAGTGCCACA
*
3257377 GAGTTGTGGGCTTTAAAAGAAAAAAGTGCCATGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTG
66 GAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTG
3257442 CCACGGAGTTA
131 CCACGGAGTTA
* *
3257453 TGGGCTTT-GAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAG-GTGCCA
1 TGGGCTTTAG-AAAGGGAAAAAGA-TGCCACGGAGTTGTGGACTTAAAACAGAAAAAGAGTGCCA
* * *
3257516 CAGAGTTGTGGGCTTTGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
64 CAGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAA
3257570 AGATGCCACT
Statistics
Matches: 105, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
140 1 0.01
141 75 0.71
142 29 0.28
ACGTcount: A:0.33, C:0.11, G:0.35, T:0.21
Consensus pattern (141 bp):
TGGGCTTTAGAAAGGGAAAAAGATGCCACGGAGTTGTGGACTTAAAACAGAAAAAGAGTGCCACA
GAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTG
CCACGGAGTTA
Found at i:3259041 original size:1 final size:1
Alignment explanation
Indices: 3259035--3259146 Score: 89
Period size: 1 Copynumber: 112.0 Consensus size: 1
3259025 TCCGGACCCC
* * * * * ** *
3259035 TTTTTTTTGTTTTTGTTTGTTTTTTTTTTGTTTTTGTTTTTGGTTTTTTTTTTGTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * ** * * *
3259100 TGTTTTTGTTTTTTTTTTTGGTTTTTTTTTTGTTTTGTTTGTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
3259147 GAAGGACGCC
Statistics
Matches: 85, Mismatches: 26, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 85 1.00
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (1 bp):
T
Found at i:3259049 original size:6 final size:6
Alignment explanation
Indices: 3259038--3259139 Score: 117
Period size: 6 Copynumber: 17.5 Consensus size: 6
3259028 GGACCCCTTT
3259038 TTTTTG TTTTTG --TTTG TTTTT- TTTTTG TTTTTG TTTTTGG TTTTT-
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTT-G TTTTTG
* *
3259083 TTTTTG TTTTTTT TTTTTG TTTTTG TTTTTT TTTTTGG TTTTT- TTTTTG
1 TTTTTG -TTTTTG TTTTTG TTTTTG TTTTTG TTTTT-G TTTTTG TTTTTG
3259132 -TTTTG TTT
1 TTTTTG TTT
3259140 GTTTTTTGAA
Statistics
Matches: 83, Mismatches: 4, Indels: 18
0.79 0.04 0.17
Matches are distributed among these distances:
4 4 0.05
5 20 0.24
6 43 0.52
7 16 0.19
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (6 bp):
TTTTTG
Found at i:3259082 original size:43 final size:44
Alignment explanation
Indices: 3259035--3259146 Score: 167
Period size: 43 Copynumber: 2.6 Consensus size: 44
3259025 TCCGGACCCC
3259035 TTTTTTTTGTTTTTGTTTGTTTTTTTTTTGTTTTTGTTTTTGGTT
1 TTTTTTTTGTTTTTGTTTGTTTTTTTTTTGTTTTTGTTTTTGG-T
* *
3259080 TTTTTTTTGTTTTT-TTT-TTTTGTTTTTGTTTTTTTTTTTGGT
1 TTTTTTTTGTTTTTGTTTGTTTTTTTTTTGTTTTTGTTTTTGGT
3259122 TTTTTTTT-TGTTTTGTTTGTTTTTT
1 TTTTTTTTGT-TTTTGTTTGTTTTTT
3259147 GAAGGACGCC
Statistics
Matches: 61, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
41 1 0.02
42 13 0.21
43 25 0.41
44 8 0.13
45 14 0.23
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (44 bp):
TTTTTTTTGTTTTTGTTTGTTTTTTTTTTGTTTTTGTTTTTGGT
Found at i:3268848 original size:10 final size:10
Alignment explanation
Indices: 3268833--3268857 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
3268823 ATGTATCAAG
3268833 CAAAAACAAA
1 CAAAAACAAA
3268843 CAAAAACAAA
1 CAAAAACAAA
3268853 CAAAA
1 CAAAA
3268858 GCTTAGTTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.80, C:0.20, G:0.00, T:0.00
Consensus pattern (10 bp):
CAAAAACAAA
Found at i:3273126 original size:52 final size:52
Alignment explanation
Indices: 3272978--3273106 Score: 249
Period size: 52 Copynumber: 2.5 Consensus size: 52
3272968 CGAAATATGA
3272978 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
*
3273030 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
3273082 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
3273107 AAGATTAGTG
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 76 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
Found at i:3273133 original size:13 final size:13
Alignment explanation
Indices: 3273115--3273139 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3273105 CAAAGATTAG
3273115 TGTATCGATACAA
1 TGTATCGATACAA
3273128 TGTATCGATACA
1 TGTATCGATACA
3273140 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3273217 original size:33 final size:33
Alignment explanation
Indices: 3273180--3273246 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3273170 AGTAGCTTAA
3273180 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
3273213 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
3273246 A
1 A
3273247 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:3273220 original size:13 final size:13
Alignment explanation
Indices: 3273202--3273226 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3273192 CAAAAAAATA
3273202 TGTATCGATACAT
1 TGTATCGATACAT
3273215 TGTATCGATACA
1 TGTATCGATACA
3273227 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3274640 original size:165 final size:165
Alignment explanation
Indices: 3274458--3274813 Score: 414
Period size: 165 Copynumber: 2.2 Consensus size: 165
3274448 TCATAAAAAC
* * *
3274458 ATATTTGATGAATTTTAAAAATTTTAAACTATGAAAAATTC-CCCCAAAAACTTTTACAGAATAG
1 ATATTTGATGAATTTTAAAAATTTTAAACGAAGAAAAA-TCGCCCCAAAAACATTTACAGAATAG
* * * * * * *
3274522 AAAACTCAGT-TTTCCAAGAATAGGAAAATTTTAAGG-AAAAATGACAAACTTATGAAAGTAAAT
65 AAAACTCAGTATTT-CAAAAATAGAAAAATTTTAAGGAAAAAATAAAAAACTCATAAAAATAAAT
* * *
3274585 AAAATTTTCAAAACTAATTTACTATGAA-TTAAATGATG
129 AAAATTTTCAAAACTAATTTAATAT-AAGTT-AATAATA
* ** * *
3274623 ATATTTGATGAATTTTAAAAATTATAAACGAAGAAAAATCGCCCCGCAAACATTTACGGAGTAGA
1 ATATTTGATGAATTTTAAAAATTTTAAACGAAGAAAAATCGCCCCAAAAACATTTACAGAATAGA
* *
3274688 AAACTCCGTATTTCAAAAATAGAAAAATTTTAAGGAAAAAAATAAAAAACTCATAAAAATAAATG
66 AAACTCAGTATTTCAAAAATAGAAAAATTTTAAGG-AAAAAATAAAAAACTCATAAAAATAAATA
* * *
3274753 AATTTTTCAACACTGATTTAATATAAGTTAATAATA
130 AAATTTTCAAAACTAATTTAATATAAGTTAATAATA
* *
3274789 ATATTTGATGAATATTACAAATTTT
1 ATATTTGATGAATTTTAAAAATTTT
3274814 GAACCGATTA
Statistics
Matches: 160, Mismatches: 26, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
164 2 0.01
165 82 0.51
166 32 0.20
167 44 0.28
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.31
Consensus pattern (165 bp):
ATATTTGATGAATTTTAAAAATTTTAAACGAAGAAAAATCGCCCCAAAAACATTTACAGAATAGA
AAACTCAGTATTTCAAAAATAGAAAAATTTTAAGGAAAAAATAAAAAACTCATAAAAATAAATAA
AATTTTCAAAACTAATTTAATATAAGTTAATAATA
Found at i:3276924 original size:24 final size:25
Alignment explanation
Indices: 3276877--3276924 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
3276867 AGGCATTGCC
*
3276877 TTTATTATATAAAAATAATCAAATT
1 TTTATTATATAAAAATAATAAAATT
3276902 TTTATT-TATTAAAAA-AATAAAAT
1 TTTATTATA-TAAAAATAATAAAAT
3276925 CCTAAGACTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (25 bp):
TTTATTATATAAAAATAATAAAATT
Found at i:3277481 original size:154 final size:155
Alignment explanation
Indices: 3277199--3277548 Score: 470
Period size: 154 Copynumber: 2.3 Consensus size: 155
3277189 GCTAAGTTCA
* *
3277199 AAAAAATTACGAAAATGCCCTTAAGGGATACCTTCGACGTAGAAGTACCTGATACCCCTAAAAAA
1 AAAAAATTACGAAAATGCCCTTAGGGGATACCTTCGACGTAGAAGTACCCGATACCCCTAAAAAA
** * *
3277264 CTTAAAAAGGATTTTAAAAGGGATGAACCTATCCTAAATATCTACCTGCACCATAAAAGCAGACC
66 CTTAAAAAGGATCATAAAAGGAATGAACCTATCCTAAATATCTACCTGCACCATAAAAACAGACC
* *
3277329 TAGTGACAAGCTAAGACTCAATTCT
131 CAGTGACAACCTAAGACTCAATTCT
* * * *
3277354 AAAAAATTACCAAAATG-CCTCTAGGGGAT-CTTTCGATGTAGAAGTACCCGATACCCTTAAAAA
1 AAAAAATTACGAAAATGCCCT-TAGGGGATACCTTCGACGTAGAAGTACCCGATACCCCTAAAAA
* * * *
3277417 ACTTAAAAAGGATCATGAATGGAATGAACCTATCCTAAATATCTACCTTCAGCATAAAAACAGAC
65 ACTTAAAAAGGATCATAAAAGGAATGAACCTATCCTAAATATCTACCTGCACCATAAAAACAGAC
* * ***
3277482 CCGGTGACAACCTAGGACTTGGTTCT
130 CCAGTGACAACCTAAGACTCAATTCT
* *
3277508 AAAAAATTACGAAAATGCCCTTAGGGGATGCCTTCAACGTA
1 AAAAAATTACGAAAATGCCCTTAGGGGATACCTTCGACGTA
3277549 AATATCTACC
Statistics
Matches: 167, Mismatches: 25, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
154 133 0.80
155 34 0.20
ACGTcount: A:0.40, C:0.21, G:0.16, T:0.23
Consensus pattern (155 bp):
AAAAAATTACGAAAATGCCCTTAGGGGATACCTTCGACGTAGAAGTACCCGATACCCCTAAAAAA
CTTAAAAAGGATCATAAAAGGAATGAACCTATCCTAAATATCTACCTGCACCATAAAAACAGACC
CAGTGACAACCTAAGACTCAATTCT
Found at i:3277582 original size:95 final size:95
Alignment explanation
Indices: 3277452--3277631 Score: 261
Period size: 95 Copynumber: 1.9 Consensus size: 95
3277442 GAACCTATCC
* ***
3277452 TAAATATCTACCTTCAGCATAAAAACAGACCCGGTGACAACCTAGGACTTGGTTCTAAAAAATTA
1 TAAATATCTACCTTCAGCATAAAAACAAACCCGGTGACAACCTAGGACTCAATTCTAAAAAATTA
* *
3277517 CGAAAATGCCCTTAGGGGATGCCTTCAACG
66 CCAAAATGCCCCTAGGGGATGCCTTCAACG
* * * *
3277547 TAAATATCTACCTTCAGCGTAAAAGCAAACTCGGTGACAACCTGGGACTCAATTCTAAAAAATTA
1 TAAATATCTACCTTCAGCATAAAAACAAACCCGGTGACAACCTAGGACTCAATTCTAAAAAATTA
*
3277612 CCAGAATGCCCCTAGGGGAT
66 CCAAAATGCCCCTAGGGGAT
3277632 ACTTTCGATG
Statistics
Matches: 74, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
95 74 1.00
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (95 bp):
TAAATATCTACCTTCAGCATAAAAACAAACCCGGTGACAACCTAGGACTCAATTCTAAAAAATTA
CCAAAATGCCCCTAGGGGATGCCTTCAACG
Found at i:3279366 original size:117 final size:117
Alignment explanation
Indices: 3279213--3279443 Score: 372
Period size: 117 Copynumber: 2.0 Consensus size: 117
3279203 GGCACCTACC
* * *
3279213 ATAAATTTCCATTTCTTTTTGTTTTTATATTGCATTTTTTACTTTCCAAAACCATTTTTGCATTA
1 ATAAATTTCCATTTCGTTTTATTTTTATATTCCATTTTTTACTTTCCAAAACCATTTTTGCATTA
*
3279278 AATGTTTATAGGGAACATAAAGATGACTCATCAAGCTCATGATTATGAATAT
66 AATGTTTATAGGGAACACAAAGATGACTCATCAAGCTCATGATTATGAATAT
* * * *
3279330 ATAAATTTTCATTTCGTTTTATTTTTATATTCCATTTTTTATTTTCTAGAACCATTTTTGCATTA
1 ATAAATTTCCATTTCGTTTTATTTTTATATTCCATTTTTTACTTTCCAAAACCATTTTTGCATTA
* *
3279395 AATGTTTATGGGGAACACAAAGATGACTCGTCAAGCTCATGATTATGAA
66 AATGTTTATAGGGAACACAAAGATGACTCATCAAGCTCATGATTATGAA
3279444 GATAAAGGTC
Statistics
Matches: 104, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
117 104 1.00
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.45
Consensus pattern (117 bp):
ATAAATTTCCATTTCGTTTTATTTTTATATTCCATTTTTTACTTTCCAAAACCATTTTTGCATTA
AATGTTTATAGGGAACACAAAGATGACTCATCAAGCTCATGATTATGAATAT
Found at i:3279947 original size:166 final size:165
Alignment explanation
Indices: 3279741--3280234 Score: 425
Period size: 165 Copynumber: 3.0 Consensus size: 165
3279731 TTAGGTATAT
* * * * *
3279741 TTTAAAAATTT-TAGACCAA-AGAAAATCCCCCTAGAAATATTTATGGAATA-AAAAATTTGATT
1 TTTAAAAATTTAAAAACCAAGA-AAAATCCCCCCA-AAATATTTACGGAATAGAAAAATCTG--T
* ** * * * ** *
3279803 TTTTTTGAAA-AGGGGAATTTCAAGGAAAAAAATCAAACACT-CTTGAAGATGAATGAATTTTTA
62 ATTTTCAAAACAAGGAAATTTCAAGG-AAAAAATCAAA-AATGAATGAAAATGAATGAATTTTTA
** * *
3279866 AAAACTTATTTAATATAAAATAAATAATAATATTTTATGGA-
125 AAAACAGATTTAATATAAAATAAATAATAATATTTGAT-AAC
* * *
3279907 TTTTAAAA-TTAAAAACCAAGAAAAATCCCCCCCAAAATATTTACGGAGTAGAAAACTCTGTATT
1 TTTAAAAATTTAAAAACCAAGAAAAAT-CCCCCCAAAATATTTACGGAATAGAAAAATCTGTATT
* * *
3279971 TTCAAAACAAGGAAATTTCAAGGAAAAATTCAAAAATGAATGAAAATTAATGAATTTTTGAAAAC
65 TTCAAAACAAGGAAATTTCAAGGAAAAAATCAAAAATGAATGAAAATGAATGAATTTTTAAAAAC
*
3280036 AGATTTAGTATAAAATAAATAATAATATTTGATAAC
130 AGATTTAATATAAAATAAATAATAATATTTGATAAC
* * * * * *
3280072 TTTAAAAATTTAAAAACTAAGAAAACTCCCCCCAAAAAATTTAC-AAAGTAGAAAACTCCGTATT
1 TTTAAAAATTTAAAAACCAAGAAAAATCCCCCCAAAATATTTACGGAA-TAGAAAAATCTGTATT
* * * * ** *
3280136 TTGAAAACTA-GAGAATTTTAAGGAAAAAATTTAAAAACT-AATGAAAATGAATGCGTTTTTGAA
65 TTCAAAACAAGGA-AATTTCAAGGAAAAAA-TCAAAAA-TGAATGAAAATGAATGAATTTTTAAA
* * *
3280199 AACTA-ATTTAATATGAAACAAACAATAATATTTGAT
127 AAC-AGATTTAATATAAAATAAATAATAATATTTGAT
3280235 GAATTAAAAA
Statistics
Matches: 271, Mismatches: 44, Indels: 26
0.79 0.13 0.08
Matches are distributed among these distances:
164 6 0.02
165 131 0.48
166 118 0.44
167 16 0.06
ACGTcount: A:0.49, C:0.10, G:0.11, T:0.30
Consensus pattern (165 bp):
TTTAAAAATTTAAAAACCAAGAAAAATCCCCCCAAAATATTTACGGAATAGAAAAATCTGTATTT
TCAAAACAAGGAAATTTCAAGGAAAAAATCAAAAATGAATGAAAATGAATGAATTTTTAAAAACA
GATTTAATATAAAATAAATAATAATATTTGATAAC
Found at i:3280244 original size:165 final size:164
Alignment explanation
Indices: 3279816--3280244 Score: 508
Period size: 165 Copynumber: 2.6 Consensus size: 164
3279806 TTTGAAAAGG
* * ** * * *
3279816 GGAATTTCAAGGAAAAAAATCAAACACTCTTGAAGATGAATGAATTTTTAAAAACTTATTTAATA
1 GGAATTTCAAGGAAAAAATTCAAAAACTAATGAAAATGAATGAATTTTTGAAAACTAATTTAATA
* * * *
3279881 TAAAATAAATAATAATATTTTATGGATTTTAAAATTAAAAACCAAGAAAAATCCCCCCCAAAATA
66 TAAAATAAATAATAATATTTGAT-GAATTAAAAATTAAAAACCAAGAAAAATCCCCCCCAAAAAA
** *
3279946 TTTACGGAGTAGAAAACTCTGTATTTTCAAAACAA
130 TTTACAAAGTAGAAAACTCCGTATTTTCAAAACAA
*
3279981 GGAAATTTCAAGG-AAAAATTCAAAAA-TGAATGAAAATTAATGAATTTTTGAAAAC-AGATTTA
1 GG-AATTTCAAGGAAAAAATTCAAAAACT-AATGAAAATGAATGAATTTTTGAAAACTA-ATTTA
* * *
3280043 GTATAAAATAAATAATAATATTTGAT-AACTTTAAAAATTTAAAAACTAAGAAAACT-CCCCCCA
63 ATATAAAATAAATAATAATATTTGATGAA--TTAAAAA-TTAAAAACCAAGAAAAATCCCCCCCA
* *
3280106 AAAAATTTACAAAGTAGAAAACTCCGTATTTTGAAAACTA
125 AAAAATTTACAAAGTAGAAAACTCCGTATTTTCAAAACAA
* * **
3280146 GAGAATTTTAAGGAAAAAATTTAAAAACTAATGAAAATGAATGCGTTTTTGAAAACTAATTTAAT
1 G-GAATTTCAAGGAAAAAATTCAAAAACTAATGAAAATGAATGAATTTTTGAAAACTAATTTAAT
* * *
3280211 ATGAAACAAACAATAATATTTGATGAATTAAAAA
65 ATAAAATAAATAATAATATTTGATGAATTAAAAA
3280245 AAATTTAAAC
Statistics
Matches: 224, Mismatches: 29, Indels: 22
0.81 0.11 0.08
Matches are distributed among these distances:
163 1 0.00
164 1 0.00
165 128 0.57
166 90 0.40
167 4 0.02
ACGTcount: A:0.51, C:0.10, G:0.10, T:0.29
Consensus pattern (164 bp):
GGAATTTCAAGGAAAAAATTCAAAAACTAATGAAAATGAATGAATTTTTGAAAACTAATTTAATA
TAAAATAAATAATAATATTTGATGAATTAAAAATTAAAAACCAAGAAAAATCCCCCCCAAAAAAT
TTACAAAGTAGAAAACTCCGTATTTTCAAAACAA
Found at i:3281833 original size:44 final size:42
Alignment explanation
Indices: 3281734--3281838 Score: 113
Period size: 42 Copynumber: 2.5 Consensus size: 42
3281724 GAGGTAGATT
* * * *
3281734 TGACC-AGGCTGGTAACCATACGTCAAATTAGAATAAAATATC
1 TGACCAAGG-TGGTAACCATACATCAAATCAAAATAAAAAATC
* * *
3281776 TGACTAGGGTGGTAACTATACATCAAATCAAAATAAAAAGAATC
1 TGACCAAGGTGGTAACCATACATCAAATCAAAAT-AAAA-AATC
3281820 TGACCAAGGTGGTAACCAT
1 TGACCAAGGTGGTAACCAT
3281839 TAGTTAGATA
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
42 25 0.50
43 6 0.12
44 19 0.38
ACGTcount: A:0.42, C:0.17, G:0.18, T:0.23
Consensus pattern (42 bp):
TGACCAAGGTGGTAACCATACATCAAATCAAAATAAAAAATC
Found at i:3281896 original size:44 final size:44
Alignment explanation
Indices: 3281688--3282929 Score: 506
Period size: 44 Copynumber: 28.6 Consensus size: 44
3281678 ATGCAAATCG
* * * * * **
3281688 TTTGACTAAGGTGGTAATCATATGTCAAACAAGAAGGAGGTAGA
1 TTTGACCAGGGTGGTAACCATACGTCAAACAGGAAGGAGACAGA
* * * * *
3281732 TTTGACCAGGCTGGTAACCATACGTCAAATTA-GAA-TA-AAATA
1 TTTGACCAGGGTGGTAACCATACGTCAAA-CAGGAAGGAGACAGA
* * * * ** * *
3281774 TCTGACTAGGGTGGTAACTATACATCAAATCA--AAATAAAAAGAA
1 TTTGACCAGGGTGGTAACCATACGTCAAA-CAGGAAGGAGACAG-A
* * * * *
3281818 TCTGACCAAGGTGGTAACCATTA-GTTAGATAGGAAGGAGACAGA
1 TTTGACCAGGGTGGTAACCA-TACGTCAAACAGGAAGGAGACAGA
* * * * *
3281862 CTTGACCAGAGTGGTAACCATACGTCAAACAGGAAGGGGGCAAA
1 TTTGACCAGGGTGGTAACCATACGTCAAACAGGAAGGAGACAGA
* * ** * *
3281906 TTTGACTAGGGTGGTAACCATACATCAAATCA--AAATAAAAAGAA
1 TTTGACCAGGGTGGTAACCATACGTCAAA-CAGGAAGGAGACAG-A
* * * * * * * * **
3281950 TCTAACTAAGGTGATAACCATACGTTAGACAAGAAGGAGGTAGA
1 TTTGACCAGGGTGGTAACCATACGTCAAACAGGAAGGAGACAGA
* ** * *
3281994 TTTGACTAGGGTGGTAACCATACGTCCAATTA-GAATGA-AAAGAA
1 TTTGACCAGGGTGGTAACCATACGT-CAAACAGGAAGGAGACAG-A
* * * *
3282038 TCTGACCAGGGTGGTAACCATACGTCAAACAAGAATGAGACAAA
1 TTTGACCAGGGTGGTAACCATACGTCAAACAGGAAGGAGACAGA
* * * **
3282082 CTTGACCAGGGTGGTAACCATACGTCAAATAGGAATGAGGTAGA
1 TTTGACCAGGGTGGTAACCATACGTCAAACAGGAAGGAGACAGA
* * * * *
3282126 TTTGACTAGGGTGGTAACCATACATCAAACTA-GAA-TAAAAAGAA
1 TTTGACCAGGGTGGTAACCATACGTCAAAC-AGGAAGGAGACAG-A
* * ** * * * * **
3282170 TCTAACCCCGGTGGTGACCATACGCCAGACTA-GAAAGAGGTAGA
1 TTTGACCAGGGTGGTAACCATACGTCAAAC-AGGAAGGAGACAGA
* * * *
3282214 TTTGACCAGGGTGGTAACCATACGTTAGACAGGAATGAGACAAA
1 TTTGACCAGGGTGGTAACCATACGTCAAACAGGAAGGAGACAGA
* * * * * *
3282258 CTTGACCAAGGTGGTAACCATACATCAAATCA-GAA-TAAAAAGAA
1 TTTGACCAGGGTGGTAACCATACGTCAAA-CAGGAAGGAGACAG-A
* * * * *
3282302 TCTGAACAGGGTGATAACCATACGTCAGACAGGAAGGAGGCAGA
1 TTTGACCAGGGTGGTAACCATACGTCAAACAGGAAGGAGACAGA
* * * * * * *
3282346 TTTAACTAGGGTGGTAACCATACATCAGATAGGAAAGAGATAGA
1 TTTGACCAGGGTGGTAACCATACGTCAAACAGGAAGGAGACAGA
* * * * * *
3282390 CTTGACTAGGGTGGTAACCATACATCAAACAAGAAGGAGGCAAA
1 TTTGACCAGGGTGGTAACCATACGTCAAACAGGAAGGAGACAGA
* * * * * * *
3282434 TTTAACTAGGGTGGTAACCATACATCAAATCA-GAA-TAAAAAAA
1 TTTGACCAGGGTGGTAACCATACGTCAAA-CAGGAAGGAGACAGA
* * * * **
3282477 TCTAACCAGGGT-GTAACCATATGTCAGACAGGAAGGAGGTAGA
1 TTTGACCAGGGTGGTAACCATACGTCAAACAGGAAGGAGACAGA
* * ** * ** * *
3282520 TTTAACTAGGGTAATAACCATACATCAAATTGGAATGA-AAAGAA
1 TTTGACCAGGGTGGTAACCATACGTCAAACAGGAAGGAGACAG-A
* * * * *
3282564 TTTGACCAGGGTAGTAACCATACATCAGATAGGAAGGAAACAGA
1 TTTGACCAGGGTGGTAACCATACGTCAAACAGGAAGGAGACAGA
* * * * * * *
3282608 ATTGACCAAGGTGGTAACCATATGTAAAATAGGAATGA-AAAGAA
1 TTTGACCAGGGTGGTAACCATACGTCAAACAGGAAGGAGACAG-A
* * * * *
3282652 TCTGACTAGGGTGGTAA-CATACATTAGACAGGAAGGAGACAGA
1 TTTGACCAGGGTGGTAACCATACGTCAAACAGGAAGGAGACAGA
* * * * * *
3282695 CTTGACTAGGGTGGTAACCATACGTTAAATTA-GAATGA-ACAAA
1 TTTGACCAGGGTGGTAACCATACGTCAAA-CAGGAAGGAGACAGA
* * *** * * * *
3282738 TCTGACCAGAGTGGTAACCATACGTTTGACAGAAAAGAGGCAAA
1 TTTGACCAGGGTGGTAACCATACGTCAAACAGGAAGGAGACAGA
* **
3282782 TTTGACCAGAGTGGTAACCATACGT----CA-TTA--AG--A-A
1 TTTGACCAGGGTGGTAACCATACGTCAAACAGGAAGGAGACAGA
* * * * * *
3282816 TTTGACTAGTGTGGTAACCATACGTC-CATAGGAAAGAGGCAGA
1 TTTGACCAGGGTGGTAACCATACGTCAAACAGGAAGGAGACAGA
* * *
3282859 TTTGACCAGGGTGGTAACCATATGTCAAATCA-GAATGA-AAAGAA
1 TTTGACCAGGGTGGTAACCATACGTCAAA-CAGGAAGGAGACAG-A
* *
3282903 TCTT-ACCATGGTAGTAACCATACGTCA
1 T-TTGACCAGGGTGGTAACCATACGTCA
3282930 GACCTAAATA
Statistics
Matches: 903, Mismatches: 246, Indels: 98
0.72 0.20 0.08
Matches are distributed among these distances:
34 24 0.03
35 1 0.00
37 3 0.00
38 1 0.00
39 1 0.00
40 4 0.00
41 4 0.00
42 48 0.05
43 146 0.16
44 633 0.70
45 38 0.04
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.21
Consensus pattern (44 bp):
TTTGACCAGGGTGGTAACCATACGTCAAACAGGAAGGAGACAGA
Found at i:3281919 original size:88 final size:87
Alignment explanation
Indices: 3281697--3282929 Score: 660
Period size: 88 Copynumber: 14.2 Consensus size: 87
3281687 GTTTGACTAA
* * * * * *
3281697 GGTGGTAATCATATGTCAAACAAGAAGGAGGTAGATTTGACCAGGCTGGTAACCATACGTCAAAT
1 GGTGGTAACCATACGTCAAACAAGAAGGAGGCAAATTTGACTAGGGTGGTAACCATACGTCAAA-
* * *
3281762 TAG-AATA-AAA-TATCTGACTAG
65 TAGAAAGAGAAAGAAT-TGACCAG
* * * *** * * * *
3281783 GGTGGTAACTATACATCAAATCAA-AA-TAAAAAGAATCTGACCAAGGTGGTAACCATTA-GTTA
1 GGTGGTAACCATACGTCAAA-CAAGAAGGAGGCA-AATTTGACTAGGGTGGTAACCA-TACGTCA
* * * *
3281845 GATAGGAAGGAGACAGACTTGACCAG
63 AATA-GAAAGAGAAAGAATTGACCAG
* * * *
3281871 AGTGGTAACCATACGTCAAACAGGAAGGGGGCAAATTTGACTAGGGTGGTAACCATACATCAAAT
1 GGTGGTAACCATACGTCAAACAAGAAGGAGGCAAATTTGACTAGGGTGGTAACCATACGTCAAAT
* * * * *
3281936 CA-AAATAAAAAGAATCTAACTAA
66 -AGAAAGAGAAAGAAT-TGACCAG
* * * * * *
3281959 GGTGATAACCATACGTTAGACAAGAAGGAGGTAGATTTGACTAGGGTGGTAACCATACGTCCAAT
1 GGTGGTAACCATACGTCAAACAAGAAGGAGGCAAATTTGACTAGGGTGGTAACCATACGT-CAAA
*
3282024 TAGAATGA-AAAGAATCTGACCAG
65 TAGAAAGAGAAAGAAT-TGACCAG
* * * *
3282047 GGTGGTAACCATACGTCAAACAAGAATGAGACAAACTTGACCAGGGTGGTAACCATACGTCAAAT
1 GGTGGTAACCATACGTCAAACAAGAAGGAGGCAAATTTGACTAGGGTGGTAACCATACGTCAAAT
* ** * *
3282112 AGGAATGAGGTAGATTTGACTAG
66 A-GAAAGAGAAAGAATTGACCAG
* * * *** * * *** * *
3282135 GGTGGTAACCATACATCAAACTAGAA-TAAAAAGAATCTAACCCCGGTGGTGACCATACGCCAGA
1 GGTGGTAACCATACGTCAAACAAGAAGGAGGCA-AATTTGACTAGGGTGGTAACCATACGTCA-A
* ** *
3282199 CTAGAAAGAGGTAGATTTGACCAG
64 ATAGAAAGAGAAAGAATTGACCAG
* * * * * * * * *
3282223 GGTGGTAACCATACGTTAGACAGGAATGAGACAAACTTGACCAAGGTGGTAACCATACATCAAAT
1 GGTGGTAACCATACGTCAAACAAGAAGGAGGCAAATTTGACTAGGGTGGTAACCATACGTCAAAT
*
3282288 CAGAATA-A-AAAGAATCTGAACAG
66 -AGAA-AGAGAAAGAAT-TGACCAG
* * * * * * *
3282311 GGTGATAACCATACGTCAGACAGGAAGGAGGCAGATTTAACTAGGGTGGTAACCATACATCAGAT
1 GGTGGTAACCATACGTCAAACAAGAAGGAGGCAAATTTGACTAGGGTGGTAACCATACGTCAAAT
* * *
3282376 AGGAAAGAGATAGACTTGACTAG
66 A-GAAAGAGAAAGAATTGACCAG
* * *
3282399 GGTGGTAACCATACATCAAACAAGAAGGAGGCAAATTTAACTAGGGTGGTAACCATACATCAAAT
1 GGTGGTAACCATACGTCAAACAAGAAGGAGGCAAATTTGACTAGGGTGGTAACCATACGTCAAAT
*
3282464 CAGAATA-A-AAA-AATCTAACCAG
66 -AGAA-AGAGAAAGAAT-TGACCAG
* * * * * * ** *
3282486 GGT-GTAACCATATGTCAGACAGGAAGGAGGTAGATTTAACTAGGGTAATAACCATACATCAAAT
1 GGTGGTAACCATACGTCAAACAAGAAGGAGGCAAATTTGACTAGGGTGGTAACCATACGTCAAA-
* *
3282550 TGGAATGA-AAAGAATTTGACCAG
65 TAGAAAGAGAAAGAA-TTGACCAG
* * * * * ** * * * *
3282573 GGTAGTAACCATACATCAGATAGGAAGGAAACAGAA-TTGACCAAGGTGGTAACCATATGTAAAA
1 GGTGGTAACCATACGTCAAACAAGAAGGAGGCA-AATTTGACTAGGGTGGTAACCATACGTCAAA
* *
3282637 TAGGAATGA-AAAGAATCTGACTAG
65 TA-GAAAGAGAAAGAAT-TGACCAG
* * * * * * * *
3282661 GGTGGTAA-CATACATTAGACAGGAAGGAGACAGACTTGACTAGGGTGGTAACCATACGTTAAAT
1 GGTGGTAACCATACGTCAAACAAGAAGGAGGCAAATTTGACTAGGGTGGTAACCATACGTCAAA-
* *
3282725 TAGAATGA-ACA-AATCTGACCAG
65 TAGAAAGAGAAAGAAT-TGACCAG
* *** * * *
3282747 AGTGGTAACCATACGTTTGAC-AGAAAAGAGGCAAATTTGACCAGAGTGGTAACCATACGTC--A
1 GGTGGTAACCATACGTCAAACAAG-AAGGAGGCAAATTTGACTAGGGTGGTAACCATACGTCAAA
* * *
3282809 T---TA-AG--A-ATTTGACTAG
65 TAGAAAGAGAAAGAATTGACCAG
* * * * * * * *
3282825 TGTGGTAACCATACGTC-CATAGGAAAGAGGCAGATTTGACCAGGGTGGTAACCATATGTCAAAT
1 GGTGGTAACCATACGTCAAACAAGAAGGAGGCAAATTTGACTAGGGTGGTAACCATACGTCAAAT
* * *
3282889 CAGAATGA-AAAGAATCTTACCAT
66 -AGAAAGAGAAAGAAT-TGACCAG
*
3282912 GGTAGTAACCATACGTCA
1 GGTGGTAACCATACGTCA
3282930 GACCTAAATA
Statistics
Matches: 891, Mismatches: 202, Indels: 106
0.74 0.17 0.09
Matches are distributed among these distances:
77 35 0.04
78 22 0.02
79 5 0.01
80 1 0.00
84 2 0.00
85 6 0.01
86 123 0.14
87 171 0.19
88 497 0.56
89 29 0.03
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.21
Consensus pattern (87 bp):
GGTGGTAACCATACGTCAAACAAGAAGGAGGCAAATTTGACTAGGGTGGTAACCATACGTCAAAT
AGAAAGAGAAAGAATTGACCAG
Found at i:3281951 original size:132 final size:131
Alignment explanation
Indices: 3281690--3282804 Score: 654
Period size: 132 Copynumber: 8.5 Consensus size: 131
3281680 GCAAATCGTT
* * * * * * * * *
3281690 TGACTAAGGTGGTAATCATATGTCAAACAAGAAGGAGGTAGATTTGACCAGGCTGGTAACCATAC
1 TGACCAAGGTGGTAACCATACGTTAGACAGGAAGGAGATAGATTTGACTAGGGTGGTAACCATAC
* * * * *
3281755 GTCAAATTAGAAT-AAAA-TATCTGACTAGGGTGGTAACTATACATCAAATCAAAATAAAAAGAA
66 ATCAAA-CAGAATAAAAAGAATTTGACTAGGGTGGTAACCATACATCAAATCAAAATAAAAAGAA
3281818 TC
130 TC
* * * * *
3281820 TGACCAAGGTGGTAACCATTA-GTTAGATAGGAAGGAGACAGACTTGACCAGAGTGGTAACCATA
1 TGACCAAGGTGGTAACCA-TACGTTAGACAGGAAGGAGATAGATTTGACTAGGGTGGTAACCATA
* * ****
3281884 CGTCAAACAGGA-AGGGGGCAAATTTGACTAGGGTGGTAACCATACATCAAATCAAAATAAAAAG
65 CATCAAACAGAATAAAAAG--AATTTGACTAGGGTGGTAACCATACATCAAATCAAAATAAAAAG
3281948 AATC
128 AATC
* * * * *
3281952 TAACTAAGGTGATAACCATACGTTAGACAAGAAGGAGGTAGATTTGACTAGGGTGGTAACCATAC
1 TGACCAAGGTGGTAACCATACGTTAGACAGGAAGGAGATAGATTTGACTAGGGTGGTAACCATAC
* ** * * * * * *
3282017 GTCCAATTAGAATGAAAAGAATCTGACCAGGGTGGTAACCATACGTCAAA-CAAGAATGAGACA-
66 AT-CAAACAGAATAAAAAGAATTTGACTAGGGTGGTAACCATACATCAAATCAA-AAT-AAAAAG
3282080 AA-C
128 AATC
* * * * * *
3282083 TTGACCAGGGTGGTAACCATACGTCAAATAGGAATGAGGTAGATTTGACTAGGGTGGTAACCATA
1 -TGACCAAGGTGGTAACCATACGTTAGACAGGAAGGAGATAGATTTGACTAGGGTGGTAACCATA
* * *** * ** * * * * *
3282148 CATCAAACTAGAATAAAAAGAATCTAACCCCGGTGGTGACCATACGCCAGA-CTAGA-AAGAGGT
65 CATCAAAC-AGAATAAAAAGAATTTGACTAGGGTGGTAACCATACATCAAATCAAAATAAAAAG-
*
3282211 AGATT
128 A-ATC
* * * * * * *
3282216 TGACCAGGGTGGTAACCATACGTTAGACAGGAATGAGACAAACTTGACCAAGGTGGTAACCATAC
1 TGACCAAGGTGGTAACCATACGTTAGACAGGAAGGAGATAGATTTGACTAGGGTGGTAACCATAC
* * * * ** ** *
3282281 ATCAAATCAGAATAAAAAGAATCTGAAC-AGGGTGATAACCATACGTCAGA-CAGGA-AGGAGGC
66 ATCAAA-CAGAATAAAAAGAATTTG-ACTAGGGTGGTAACCATACATCAAATCAAAATAAAAAG-
*
3282343 AGATT
128 A-ATC
* * * * * * * *
3282348 TAACTAGGGTGGTAACCATACATCAGATAGGAAAGAGATAGACTTGACTAGGGTGGTAACCATAC
1 TGACCAAGGTGGTAACCATACGTTAGACAGGAAGGAGATAGATTTGACTAGGGTGGTAACCATAC
* *** * *
3282413 ATCAAACAAGAAGGAGGCA-AATTTAACTAGGGTGGTAACCATACATCAAATCAGAATAAAAA-A
66 ATCAAAC-AGAA-TAAAAAGAATTTGACTAGGGTGGTAACCATACATCAAATCAAAATAAAAAGA
3282476 ATC
129 ATC
* * * * * * **
3282479 TAACCAGGGT-GTAACCATATGTCAGACAGGAAGGAGGTAGATTTAACTAGGGTAATAACCATAC
1 TGACCAAGGTGGTAACCATACGTTAGACAGGAAGGAGATAGATTTGACTAGGGTGGTAACCATAC
** * * * * ** *
3282543 ATCAAATTGGAATGAAAAGAATTTGACCAGGGTAGTAACCATACATCAGAT-AGGAAGGAAACAG
66 ATCAAA-CAGAATAAAAAGAATTTGACTAGGGTGGTAACCATACATCAAATCA--AAATAAAAAG
3282607 AAT-
128 AATC
* * * * * * *
3282610 TGACCAAGGTGGTAACCATATGTAAAATAGGAATGA-AAAGAATCTGACTAGGGTGGTAA-CATA
1 TGACCAAGGTGGTAACCATACGTTAGACAGGAAGGAGATAG-ATTTGACTAGGGTGGTAACCATA
* * * * * * * * * * * *
3282673 CATTAGACAGGAAGGAGACAG-ACTTGACTAGGGTGGTAACCATACGTTAAATTAGAATGAACA-
65 CATCAAACA-GAA-TAAAAAGAATTTGACTAGGGTGGTAACCATACATCAAATCAAAATAAAAAG
3282736 AATC
128 AATC
* * * ** * * *
3282740 TGACC-AGAGTGGTAACCATACGTTTGACAGAAAAGAGGCAAATTTGACCAGAGTGGTAACCATA
1 TGACCAAG-GTGGTAACCATACGTTAGACAGGAAGGAGATAGATTTGACTAGGGTGGTAACCATA
3282804 C
65 C
3282805 GTCATTAAGA
Statistics
Matches: 768, Mismatches: 180, Indels: 73
0.75 0.18 0.07
Matches are distributed among these distances:
129 11 0.01
130 185 0.24
131 85 0.11
132 466 0.61
133 18 0.02
134 3 0.00
ACGTcount: A:0.41, C:0.16, G:0.24, T:0.20
Consensus pattern (131 bp):
TGACCAAGGTGGTAACCATACGTTAGACAGGAAGGAGATAGATTTGACTAGGGTGGTAACCATAC
ATCAAACAGAATAAAAAGAATTTGACTAGGGTGGTAACCATACATCAAATCAAAATAAAAAGAAT
C
Found at i:3282752 original size:43 final size:44
Alignment explanation
Indices: 3282650--3282806 Score: 133
Period size: 43 Copynumber: 3.6 Consensus size: 44
3282640 GAATGAAAAG
* * * * * *
3282650 AATCTGACTAGGGTGGTAA-CATACATTAGACAGGAAGGAGACA
1 AATCTGACCAGAGTGGTAACCATACGTTAAACAGAAAAGAGACA
* * * * *
3282693 GA-CTTGACTAGGGTGGTAACCATACGTTAAATTAG-AATGA-ACA
1 AATC-TGACCAGAGTGGTAACCATACGTTAAA-CAGAAAAGAGACA
** *
3282736 AATCTGACCAGAGTGGTAACCATACGTTTGACAGAAAAGAGGCA
1 AATCTGACCAGAGTGGTAACCATACGTTAAACAGAAAAGAGACA
*
3282780 AATTTGACCAGAGTGGTAACCATACGT
1 AATCTGACCAGAGTGGTAACCATACGT
3282807 CATTAAGAAT
Statistics
Matches: 94, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
42 3 0.03
43 47 0.50
44 42 0.45
45 2 0.02
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.22
Consensus pattern (44 bp):
AATCTGACCAGAGTGGTAACCATACGTTAAACAGAAAAGAGACA
Found at i:3283058 original size:48 final size:48
Alignment explanation
Indices: 3282945--3283190 Score: 343
Period size: 48 Copynumber: 5.1 Consensus size: 48
3282935 AAATAAGAAA
* *
3282945 AGTTTGACCAGGTCCTAACACTAATACAGTCAAACGA-GGATGAAAAG
1 AGTTTGACCAGGCCCTAACACCAATACAGTCAAACGAGGGATGAAAAG
* * * * * *
3282992 AGTTTAACTAGGCCCTAACACCAGTACAATCAAACGAGGGATAAAAAA
1 AGTTTGACCAGGCCCTAACACCAATACAGTCAAACGAGGGATGAAAAG
* *
3283040 AGTTTAACCAGGCCCTAACACCAATACAGTCAAA-TAGGGGATGAAAAG
1 AGTTTGACCAGGCCCTAACACCAATACAGTCAAACGA-GGGATGAAAAG
* * *
3283088 AGTTTGACTAGGCCCTAACACCAATACAGTAAAATGAGGGATGAAAAG
1 AGTTTGACCAGGCCCTAACACCAATACAGTCAAACGAGGGATGAAAAG
*
3283136 AGTTTGACCAGGCCCTAACACCAATACATTCAAACGAGGGATGAAAAG
1 AGTTTGACCAGGCCCTAACACCAATACAGTCAAACGAGGGATGAAAAG
3283184 AGTTTGA
1 AGTTTGA
3283191 AAGAAAATTT
Statistics
Matches: 174, Mismatches: 22, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
47 32 0.18
48 141 0.81
49 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.21, T:0.18
Consensus pattern (48 bp):
AGTTTGACCAGGCCCTAACACCAATACAGTCAAACGAGGGATGAAAAG
Done.