Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 139 of 207
Found at i:42615451 original size:17 final size:17
Alignment explanation
Indices: 42615404--42615452 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 17
42615394 AAACAATTTC
*
42615404 CGTGTTTC--AAATTTT
1 CGTGTTTCAAAAATTCT
42615419 CGTGTTTTCAAAAAATTCT
1 CGTG-TTTC-AAAAATTCT
42615438 CGTGTTTCAAAAATT
1 CGTGTTTCAAAAATT
42615453 TTCAAATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
15 4 0.14
16 4 0.14
17 7 0.24
18 4 0.14
19 10 0.34
ACGTcount: A:0.29, C:0.14, G:0.12, T:0.45
Consensus pattern (17 bp):
CGTGTTTCAAAAATTCT
Found at i:42615465 original size:25 final size:26
Alignment explanation
Indices: 42615431--42615481 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
42615421 TGTTTTCAAA
42615431 AAATTCTCGTG-TTTCAAAAATTTTC
1 AAATTCTCGTGTTTTCAAAAATTTTC
*
42615456 AAATTTTCGTGTTTTCAAAAATTTTC
1 AAATTCTCGTGTTTTCAAAAATTTTC
42615482 TTCTTCTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 10 0.42
26 14 0.58
ACGTcount: A:0.31, C:0.14, G:0.08, T:0.47
Consensus pattern (26 bp):
AAATTCTCGTGTTTTCAAAAATTTTC
Found at i:42615477 original size:18 final size:18
Alignment explanation
Indices: 42615456--42615802 Score: 119
Period size: 18 Copynumber: 20.2 Consensus size: 18
42615446 AAAAATTTTC
42615456 AAATTTTCGTGTTTTCAA
1 AAATTTTCGTGTTTTCAA
* * *
42615474 AAATTTTCTTCTTCTCAAAAA
1 AAATTTTCGTGTTTTC---AA
*
42615495 AAATTATCGTG-TTT-AA
1 AAATTTTCGTGTTTTCAA
*
42615511 AAATTTTCGCT-TTTTTAA
1 AAATTTTCG-TGTTTTCAA
*
42615529 AAATTTTCGTATTTTCAA
1 AAATTTTCGTGTTTTCAA
* * *
42615547 AAA-TTCCCTGTGTCTCAA
1 AAATTTTCGTGT-TTTCAA
** * * *
42615565 AAGCTTCCTTGTTTTTAA
1 AAATTTTCGTGTTTTCAA
*
42615583 AATTTTTCGTG-TTTCAA
1 AAATTTTCGTGTTTTCAA
**
42615600 AAATCCTCGTGTTTTCAA
1 AAATTTTCGTGTTTTCAA
* * *
42615618 CAATTCTAGTG-TTTCAA
1 AAATTTTCGTGTTTTCAA
****
42615635 AAA----AAAATTTT-AA
1 AAATTTTCGTGTTTTCAA
*
42615648 AATTTTTCGTG-TTTCAA
1 AAATTTTCGTGTTTTCAA
** *
42615665 AAA-TTTCG-GTGCATCAT
1 AAATTTTCGTGT-TTTCAA
*
42615682 AAATTTCCGTG-TTTCAA
1 AAATTTTCGTGTTTTCAA
** * *
42615699 AAAAATTAGTGTTTCCAA
1 AAATTTTCGTGTTTTCAA
* *
42615717 AGATTCTCGTG-TTTC-A
1 AAATTTTCGTGTTTTCAA
* *
42615733 AAATTTTC--ATTTTAAA
1 AAATTTTCGTGTTTTCAA
*
42615749 AAATTTT-GTG-TTTCTA
1 AAATTTTCGTGTTTTCAA
*
42615765 AACTTCTT-GTGTTTT-AA
1 AAATT-TTCGTGTTTTCAA
42615782 AAATTTTCGTGTTTTCAA
1 AAATTTTCGTGTTTTCAA
42615800 AAA
1 AAA
42615803 ATAATTGTTT
Statistics
Matches: 234, Mismatches: 66, Indels: 58
0.65 0.18 0.16
Matches are distributed among these distances:
13 5 0.02
14 3 0.01
15 4 0.02
16 43 0.18
17 71 0.30
18 88 0.38
19 8 0.03
20 2 0.01
21 10 0.04
ACGTcount: A:0.32, C:0.14, G:0.10, T:0.45
Consensus pattern (18 bp):
AAATTTTCGTGTTTTCAA
Found at i:42615492 original size:44 final size:44
Alignment explanation
Indices: 42615408--42615494 Score: 131
Period size: 44 Copynumber: 2.0 Consensus size: 44
42615398 AATTTCCGTG
*
42615408 TTTCAAATTTTCGTGTTTTCAAAAAATTCTCGTGTTTCAAAAAT
1 TTTCAAATTTTCGTGTTTTCAAAAAATTCTCGTCTTTCAAAAAT
* *
42615452 TTTCAAATTTTCGTGTTTTC-AAAAATTTTCTTCTTCTCAAAAA
1 TTTCAAATTTTCGTGTTTTCAAAAAATTCTCGTCTT-TCAAAAA
42615495 AAATTATCGT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
43 12 0.31
44 27 0.69
ACGTcount: A:0.31, C:0.15, G:0.07, T:0.47
Consensus pattern (44 bp):
TTTCAAATTTTCGTGTTTTCAAAAAATTCTCGTCTTTCAAAAAT
Found at i:42615828 original size:17 final size:16
Alignment explanation
Indices: 42615398--42615834 Score: 119
Period size: 17 Copynumber: 26.1 Consensus size: 16
42615388 TTAAAAAAAC
42615398 AATTTCCGTGTTTC-AA
1 AATTT-CGTGTTTCAAA
*
42615414 ATTTTCGTGTTTTCAAAA
1 AATTTCGTG-TTTC-AAA
42615432 AATTCTCGTGTTTCAAA
1 AATT-TCGTGTTTCAAA
42615449 AA-----T-TTTC-AA
1 AATTTCGTGTTTCAAA
*
42615458 ATTTTCGTGTTTTCAAA
1 AATTTCGTG-TTTCAAA
* *
42615475 AATTTTCTTCTTCTCAAAAAA
1 AA-TTTCGTGTT-TC---AAA
42615496 AATTATCGTGTTT-AAA
1 AATT-TCGTGTTTCAAA
* *
42615512 AATTTTCGCTTTTTTAAA
1 AA-TTTCG-TGTTTCAAA
*
42615530 AATTTTCGTATTTTCAAA
1 AA-TTTCGT-GTTTCAAA
* *
42615548 AATTCCCTGTGTCTCAAA
1 AATT-TC-GTGTTTCAAA
* * * *
42615566 AGCTTCCTTGTTTTTAAA
1 A-ATTTCGTG-TTTCAAA
*
42615584 ATTTTTCGTGTTTCAAA
1 A-ATTTCGTGTTTCAAA
* *
42615601 AATCCTCGTGTTTTCAAC
1 AAT-TTCGTG-TTTCAAA
*
42615619 AATTCTAGTGTTTCAAA
1 AATT-TCGTGTTTCAAA
****
42615636 AA-AAAAT-TTT-AAA
1 AATTTCGTGTTTCAAA
*
42615649 ATTTTTCGTGTTTCAAA
1 A-ATTTCGTGTTTCAAA
** *
42615666 AATTTCGGTGCATCATA
1 AATTTC-GTGTTTCAAA
42615683 AATTTCCGTGTTTCAAAA
1 AATTT-CGTGTTTC-AAA
* *
42615701 AAATTAGTGTTTCCAAA
1 AATTTCGTGTTT-CAAA
*
42615718 GATTCTCGTGTTTCAAA
1 AATT-TCGTGTTTCAAA
* * *
42615735 ATTTTCAT-TTTAAAA
1 AATTTCGTGTTTCAAA
* *
42615750 AATTTTGTGTTTCTAA
1 AATTTCGTGTTTCAAA
* * *
42615766 ACTTCTTGTGTTTTAAA
1 AATT-TCGTGTTTCAAA
42615783 AATTTTCGTGTTTTCAAA
1 AA-TTTCGTG-TTTCAAA
* ***
42615801 AAATAATTGTTTCAAA
1 AATTTCGTGTTTCAAA
42615817 AATCTTCGTGTTT-AAA
1 AAT-TTCGTGTTTCAAA
42615833 AA
1 AA
42615835 AAATTATCGT
Statistics
Matches: 307, Mismatches: 71, Indels: 86
0.66 0.15 0.19
Matches are distributed among these distances:
9 3 0.01
10 4 0.01
11 1 0.00
13 4 0.01
14 4 0.01
15 18 0.06
16 53 0.17
17 103 0.34
18 95 0.31
19 9 0.03
20 3 0.01
21 10 0.03
ACGTcount: A:0.32, C:0.14, G:0.10, T:0.45
Consensus pattern (16 bp):
AATTTCGTGTTTCAAA
Found at i:42628024 original size:80 final size:76
Alignment explanation
Indices: 42627672--42628167 Score: 650
Period size: 74 Copynumber: 6.5 Consensus size: 76
42627662 TCAATTTTTG
* * * *
42627672 TTTTTCAAAAATCAACTCATAATACGAAAGGTGAGTTAAGCCTCGGGTTACGCTGAGGTATTTTT
1 TTTTTTAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA-TTTT
42627737 TAATTTCTG--T
65 TAATTTCTGTCT
* * *
42627747 TTTTTCAAAAATCAACTCATAATACGAGAGGTGACTTGAGCCTCGGGTCACGCTGATGTATTTTT
1 TTTTTTAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTT
*
42627812 AATTTATGT-T
66 AATTTCTGTCT
*
42627822 TTTTTT-AAAGTCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTT
1 TTTTTTAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTT
*
42627886 AATTTCTGTCC
66 AATTTCTGTCT
*
42627897 TTTTTT--AAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTATTTTT
1 TTTTTTAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTT
42627960 AATTTCTGTCTTT
66 AATTTCTGTC--T
42627973 TTTTTTAAAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTT
1 TTTTTT--AAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTT
42628038 TTAATTTCTGTCT
64 TTAATTTCTGTCT
* * * * *
42628051 TTTTTTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCTGGTCACACGTCGAGGTATT
1 TTTTTT-AAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGC-T-GAGGTATT
*
42628116 TTTCAATTTC--T-A
63 TTT-AATTTCTGTCT
* * * * *
42628128 TTCTTCAAAAGTCAAATCATAATCCGAGAGGTGAGTTGAG
1 TTTTTTAAAAATCAACTCATAATACGAGAGGTGAGTTGAG
42628168 TTTCGGATCG
Statistics
Matches: 381, Mismatches: 29, Indels: 21
0.88 0.07 0.05
Matches are distributed among these distances:
74 140 0.37
75 67 0.18
76 35 0.09
77 47 0.12
78 9 0.02
79 11 0.03
80 72 0.19
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (76 bp):
TTTTTTAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTT
AATTTCTGTCT
Found at i:42628498 original size:12 final size:12
Alignment explanation
Indices: 42628469--42628497 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
42628459 GCTTTAGCCC
42628469 ATTTTTATTTTT
1 ATTTTTATTTTT
42628481 ATTTTTA-TTTT
1 ATTTTTATTTTT
42628492 ATTTTT
1 ATTTTT
42628498 TTGTTTTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 10 0.59
12 7 0.41
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (12 bp):
ATTTTTATTTTT
Found at i:42628504 original size:6 final size:6
Alignment explanation
Indices: 42628469--42628497 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
42628459 GCTTTAGCCC
42628469 ATTTTT ATTTTT ATTTTT A-TTTT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
42628498 TTGTTTTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
ATTTTT
Found at i:42628608 original size:29 final size:28
Alignment explanation
Indices: 42628566--42628700 Score: 89
Period size: 30 Copynumber: 4.6 Consensus size: 28
42628556 CAAAAAAATA
*
42628566 TAAA-TTATATTTTGGCCCTAAACTTTT
1 TAAATTTACATTTTGGCCCTAAACTTTT
*
42628593 TCAAATTTACATTTTGACCCCT-AACATTTT
1 T-AAATTTACATTTTG-GCCCTAAAC-TTTT
* * *
42628623 CTAAATTTTCATCTTGACCCCTAATA-TTTT
1 -TAAATTTACATTTTG-GCCCTAA-ACTTTT
* *
42628653 GTAAA-TTACATTTGGGCCCCTAAACTTTA
1 -TAAATTTACATTTTGG-CCCTAAACTTTT
*
42628682 TAGAAATTACATTTTGGCC
1 TA-AATTTACATTTTGGCC
42628701 ACATATTTTT
Statistics
Matches: 86, Mismatches: 11, Indels: 20
0.74 0.09 0.17
Matches are distributed among these distances:
27 1 0.01
28 6 0.07
29 32 0.37
30 44 0.51
31 2 0.02
32 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.08, T:0.42
Consensus pattern (28 bp):
TAAATTTACATTTTGGCCCTAAACTTTT
Found at i:42628616 original size:30 final size:29
Alignment explanation
Indices: 42628581--42628697 Score: 105
Period size: 30 Copynumber: 3.9 Consensus size: 29
42628571 TATATTTTGG
42628581 CCCTAAACTTTTTCAAATTTACATTTTGAC
1 CCCTAAACTTTTT-AAATTTACATTTTGAC
* *
42628611 CCCT-AACATTTTCTAAATTTTCATCTTGAC
1 CCCTAAAC-TTTT-TAAATTTACATTTTGAC
* *
42628641 CCCTAATA-TTTTGTAAA-TTACATTTGGGC
1 CCCTAA-ACTTTT-TAAATTTACATTTTGAC
* *
42628670 CCCTAAACTTTATAGAAATTACATTTTG
1 CCCTAAACTTTTTA-AATTTACATTTTG
42628698 GCCACATATT
Statistics
Matches: 71, Mismatches: 9, Indels: 14
0.76 0.10 0.15
Matches are distributed among these distances:
28 3 0.04
29 22 0.31
30 43 0.61
31 2 0.03
32 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.42
Consensus pattern (29 bp):
CCCTAAACTTTTTAAATTTACATTTTGAC
Found at i:42629122 original size:22 final size:22
Alignment explanation
Indices: 42629080--42629124 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
42629070 AACAAAGCAA
*
42629080 CAAGCAAAGAATATAAAAACAG
1 CAAGCAAAGAAGATAAAAACAG
*
42629102 CAAGCAAAGCAGA-AAACAACAG
1 CAAGCAAAGAAGATAAA-AACAG
42629124 C
1 C
42629125 CAAAAAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.60, C:0.20, G:0.16, T:0.04
Consensus pattern (22 bp):
CAAGCAAAGAAGATAAAAACAG
Found at i:42629154 original size:15 final size:16
Alignment explanation
Indices: 42629126--42629156 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
42629116 AACAACAGCC
42629126 AAAAAGAAAGAAGAGA
1 AAAAAGAAAGAAGAGA
42629142 AAAAAGAAA-AAGAGA
1 AAAAAGAAAGAAGAGA
42629157 GAGAGGAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (16 bp):
AAAAAGAAAGAAGAGA
Found at i:42629260 original size:9 final size:9
Alignment explanation
Indices: 42629246--42629324 Score: 53
Period size: 8 Copynumber: 9.0 Consensus size: 9
42629236 ATTCGGCCCC
*
42629246 GAAGAAGAA
1 GAAGAAAAA
42629255 GAAGAAAAA
1 GAAGAAAAA
42629264 GAAAGGAAAAA
1 G-AA-GAAAAA
*
42629275 -AAG-AGAA
1 GAAGAAAAA
42629282 G-A-AAAAA
1 GAAGAAAAA
42629289 GAAAGAAAAA
1 G-AAGAAAAA
42629299 -AAGAAAAA
1 GAAGAAAAA
*
42629307 GGA-AAAAA
1 GAAGAAAAA
42629315 GAAAGAAAAA
1 G-AAGAAAAA
42629325 TTATCTTACA
Statistics
Matches: 55, Mismatches: 5, Indels: 19
0.70 0.06 0.24
Matches are distributed among these distances:
7 8 0.15
8 15 0.27
9 14 0.25
10 12 0.22
11 6 0.11
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (9 bp):
GAAGAAAAA
Found at i:42629287 original size:25 final size:25
Alignment explanation
Indices: 42629250--42629324 Score: 109
Period size: 26 Copynumber: 3.0 Consensus size: 25
42629240 GGCCCCGAAG
42629250 AAGAAGAAG-AAAAAGAAAGGAAAAA
1 AAGAAGAAGAAAAAAGAAA-GAAAAA
42629275 AAG-AGAAGAAAAAAGAAAGAAAAA
1 AAGAAGAAGAAAAAAGAAAGAAAAA
*
42629299 AAGAAAAAGGAAAAAAGAAAGAAAAA
1 AAGAAGAA-GAAAAAAGAAAGAAAAA
42629325 TTATCTTACA
Statistics
Matches: 46, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
24 14 0.30
25 15 0.33
26 17 0.37
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (25 bp):
AAGAAGAAGAAAAAAGAAAGAAAAA
Found at i:42629300 original size:37 final size:37
Alignment explanation
Indices: 42629253--42629324 Score: 103
Period size: 37 Copynumber: 1.9 Consensus size: 37
42629243 CCCGAAGAAG
42629253 AAGAAGAAAAAG-AAAGGAAAAAAAGAGAAGAAAAAAGA
1 AAGAAGAAAAAGAAAAGG-AAAAAAGA-AAGAAAAAAGA
42629291 AAGAA-AAAAAGAAAAAGGAAAAAAGAAAGAAAAA
1 AAGAAGAAAAAG-AAAAGGAAAAAAGAAAGAAAAA
42629325 TTATCTTACA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
37 14 0.44
38 13 0.41
39 5 0.16
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (37 bp):
AAGAAGAAAAAGAAAAGGAAAAAAGAAAGAAAAAAGA
Found at i:42630143 original size:20 final size:20
Alignment explanation
Indices: 42630118--42630168 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
42630108 ACTTTTTTTT
42630118 AAAAAAAATAATCGTGTTTC
1 AAAAAAAATAATCGTGTTTC
** **
42630138 AAAAAATTTTCTCGTGTTTC
1 AAAAAAAATAATCGTGTTTC
42630158 -AAAAAAATAAT
1 AAAAAAAATAAT
42630169 AAAAAATTTC
Statistics
Matches: 23, Mismatches: 8, Indels: 1
0.72 0.25 0.03
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.49, C:0.10, G:0.08, T:0.33
Consensus pattern (20 bp):
AAAAAAAATAATCGTGTTTC
Found at i:42630186 original size:30 final size:31
Alignment explanation
Indices: 42630138--42630196 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
42630128 ATCGTGTTTC
* *
42630138 AAAAAATTTTCTCGTGTTTCAAAAAAATAAT
1 AAAAAATTTTCCCATGTTTCAAAAAAATAAT
42630169 AAAAAA-TTTCCCATGTTTCAAAAAAATA
1 AAAAAATTTTCCCATGTTTCAAAAAAATA
42630197 TATTCGTGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 20 0.77
31 6 0.23
ACGTcount: A:0.51, C:0.12, G:0.05, T:0.32
Consensus pattern (31 bp):
AAAAAATTTTCCCATGTTTCAAAAAAATAAT
Found at i:42630242 original size:15 final size:16
Alignment explanation
Indices: 42630218--42630250 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
42630208 TAAAAAAAAC
42630218 AATTTCCGTG-TTTCA
1 AATTTCCGTGTTTTCA
*
42630233 AATTTTCGTGTTTTCA
1 AATTTCCGTGTTTTCA
42630249 AA
1 AA
42630251 AATTTCTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.48
Consensus pattern (16 bp):
AATTTCCGTGTTTTCA
Found at i:42630255 original size:18 final size:18
Alignment explanation
Indices: 42630232--42630622 Score: 112
Period size: 18 Copynumber: 22.2 Consensus size: 18
42630222 TCCGTGTTTC
42630232 AAATTTTCGTGTTTTCAA
1 AAATTTTCGTGTTTTCAA
*
42630250 AAATTTCTCATG-TTTCAA
1 AAATTT-TCGTGTTTTCAA
* *
42630268 AAGTTTTCAAATTTTCGTGTTTTCAA
1 AAATTTTC-----GT-GT-TT-TCAA
*
42630294 AAATTTTC-TACTTTTCAAAA
1 AAATTTTCGT-GTTTTC--AA
42630314 AAATTTCTCGTG-TTT-AA
1 AAATTT-TCGTGTTTTCAA
* *
42630331 AAATTTTCGCGTTTTAAA
1 AAATTTTCGTGTTTTCAA
* *
42630349 AAATTTTCATATTTTCAA
1 AAATTTTCGTGTTTTCAA
**
42630367 AAATTCCCCGTG-TTTCAA
1 AAATT-TTCGTGTTTTCAA
** * * *
42630385 AAGCTTCCTTGTTTTTAA
1 AAATTTTCGTGTTTTCAA
*
42630403 AATTTTTCGTG-TTTCAA
1 AAATTTTCGTGTTTTCAA
**
42630420 AAATCCTCGTGTTTTCAA
1 AAATTTTCGTGTTTTCAA
* * * *
42630438 CAATTCT-G-GTGTTC-T
1 AAATTTTCGTGTTTTCAA
*
42630453 AAATTTT--T-TTTT-TA
1 AAATTTTCGTGTTTTCAA
*
42630467 AATTTTTCGTG-TTTCAA
1 AAATTTTCGTGTTTTCAA
* ** *
42630484 AAATTTCCGTG-CATCAT
1 AAATTTTCGTGTTTTCAA
*
42630501 AAATTTCCGTG-TTTCAAA
1 AAATTTTCGTGTTTTC-AA
** *
42630519 AAAAATTCGTGTTTCCAA
1 AAATTTTCGTGTTTTCAA
* *
42630537 AGATTCTCGTG-TTTC-A
1 AAATTTTCGTGTTTTCAA
*
42630553 AAATTTTC--ATTTT--A
1 AAATTTTCGTGTTTTCAA
*
42630567 AAATATTTCGTG-TTTCTA
1 AAAT-TTTCGTGTTTTCAA
*
42630585 AACTTCTT-GTGTTTT-AA
1 AAATT-TTCGTGTTTTCAA
*
42630602 AAATTTTTGTGTTTTCAA
1 AAATTTTCGTGTTTTCAA
42630620 AAA
1 AAA
42630623 ATAATTGTTT
Statistics
Matches: 273, Mismatches: 63, Indels: 74
0.67 0.15 0.18
Matches are distributed among these distances:
14 14 0.05
15 12 0.04
16 25 0.09
17 76 0.28
18 104 0.38
19 11 0.04
20 13 0.05
21 2 0.01
22 2 0.01
23 1 0.00
25 2 0.01
26 11 0.04
ACGTcount: A:0.29, C:0.14, G:0.10, T:0.47
Consensus pattern (18 bp):
AAATTTTCGTGTTTTCAA
Found at i:42630279 original size:26 final size:26
Alignment explanation
Indices: 42630250--42630310 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
42630240 GTGTTTTCAA
*
42630250 AAATTTCTCATG-TTTCAAAAGTTTTC
1 AAATTT-TCATGTTTTCAAAAATTTTC
*
42630276 AAATTTTCGTGTTTTCAAAAATTTTC
1 AAATTTTCATGTTTTCAAAAATTTTC
* *
42630302 TACTTTTCA
1 AAATTTTCA
42630311 AAAAAATTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
25 4 0.14
26 25 0.86
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.49
Consensus pattern (26 bp):
AAATTTTCATGTTTTCAAAAATTTTC
Found at i:42630351 original size:37 final size:38
Alignment explanation
Indices: 42630276--42630371 Score: 103
Period size: 37 Copynumber: 2.6 Consensus size: 38
42630266 AAAAGTTTTC
*
42630276 AAATTTTCGTGTTTTCAAAAATTTTCTACTTTTCAAAA
1 AAATTTTCGTGTTTTCAAAAATTTTCTACTTTTAAAAA
*
42630314 AAATTTCTCGTG-TTT-AAAAATTTTC-GCGTTTT--AAA
1 AAATTT-TCGTGTTTTCAAAAATTTTCTAC-TTTTAAAAA
* *
42630349 AAATTTTCATATTTTCAAAAATT
1 AAATTTTCGTGTTTTCAAAAATT
42630372 CCCCGTGTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 10
0.80 0.05 0.16
Matches are distributed among these distances:
34 3 0.06
35 12 0.24
36 8 0.16
37 14 0.27
38 9 0.18
39 5 0.10
ACGTcount: A:0.35, C:0.11, G:0.06, T:0.47
Consensus pattern (38 bp):
AAATTTTCGTGTTTTCAAAAATTTTCTACTTTTAAAAA
Found at i:42630479 original size:99 final size:100
Alignment explanation
Indices: 42630375--42630623 Score: 233
Period size: 99 Copynumber: 2.5 Consensus size: 100
42630365 AAAAATTCCC
** *
42630375 CGTGTTTCAAAAGCTTCCTTGTTTTTAAAATTTTTCGTGTTTCAAAAATCCTCGTGTTTTCAACA
1 CGTGTTTCAAAA-CTTCCTTGTTTTTAAAATTTTTCGTGTTTCAAAAAAACTCGTGTTTCCAA-A
* * * * *
42630440 -ATTCTGGTG-TTCTAAATTTT-TTTTTTAAATTTTT
64 GATTCTCGTGTTTCAAAATTTTCATTTTAAAATATTT
* * ** * * *
42630474 CGTGTTTCAAAAATTTCCGTG-CATCATAAA-TTTCCGTGTTTCAAAAAAAATTCGTGTTTCCAA
1 CGTGTTTC-AAAACTTCCTTGTTTTTA-AAATTTTTCGTGTTTC-AAAAAAACTCGTGTTTCCAA
42630537 AGATTCTCGTGTTTCAAAATTTTCATTTTAAAATATTT
63 AGATTCTCGTGTTTCAAAATTTTCATTTTAAAATATTT
*
42630575 CGTGTTTCTAAACTT-CTTGTGTTTTAAAAATTTTT-GTGTTTTCAAAAAA
1 CGTGTTTCAAAACTTCCTTGT-TTTT-AAAATTTTTCGTG-TTTCAAAAAA
42630624 TAATTGTTTC
Statistics
Matches: 117, Mismatches: 22, Indels: 20
0.74 0.14 0.13
Matches are distributed among these distances:
98 14 0.12
99 44 0.38
100 19 0.16
101 32 0.27
102 8 0.07
ACGTcount: A:0.28, C:0.14, G:0.11, T:0.47
Consensus pattern (100 bp):
CGTGTTTCAAAACTTCCTTGTTTTTAAAATTTTTCGTGTTTCAAAAAAACTCGTGTTTCCAAAGA
TTCTCGTGTTTCAAAATTTTCATTTTAAAATATTT
Found at i:42630648 original size:17 final size:16
Alignment explanation
Indices: 42630471--42630654 Score: 104
Period size: 17 Copynumber: 11.0 Consensus size: 16
42630461 TTTTTAAATT
42630471 TTTCGTGTTTCAAAAA
1 TTTCGTGTTTCAAAAA
** *
42630487 TTTCCGTGCATCATAAA
1 TTT-CGTGTTTCAAAAA
42630504 TTTCCGTGTTTCAAAAAAA
1 TTT-CGTGTTTC--AAAAA
* *
42630523 ATTCGTGTTTCCAAAGA
1 TTTCGTGTTT-CAAAAA
*
42630540 TTCTCGTGTTTCAAAAT
1 TT-TCGTGTTTCAAAAA
*
42630557 TTTCAT-TTT-AAAATA
1 TTTCGTGTTTCAAAA-A
* *
42630572 TTTCGTGTTTCTAAAC
1 TTTCGTGTTTCAAAAA
* *
42630588 TTCTTGTGTTTTAAAAA
1 TT-TCGTGTTTCAAAAA
*
42630605 TTTTTGTGTTTTCAAAAA
1 -TTTCGTG-TTTCAAAAA
* ***
42630623 ATAATTGTTTCAAAAA
1 TTTCGTGTTTCAAAAA
42630639 TCTTCGTGTTT-AAAAA
1 T-TTCGTGTTTCAAAAA
42630655 AAATTCTCGT
Statistics
Matches: 127, Mismatches: 29, Indels: 24
0.71 0.16 0.13
Matches are distributed among these distances:
14 4 0.03
15 8 0.06
16 25 0.20
17 58 0.46
18 25 0.20
19 7 0.06
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.45
Consensus pattern (16 bp):
TTTCGTGTTTCAAAAA
Found at i:42636690 original size:21 final size:22
Alignment explanation
Indices: 42636666--42636707 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
42636656 TTTAAACTTC
*
42636666 TATATTAAATC-CTTAATTTAG
1 TATAATAAATCACTTAATTTAG
42636687 TATAATAAATCAACTTAATTT
1 TATAATAAATC-ACTTAATTT
42636708 TATTTTGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
23 8 0.44
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.45
Consensus pattern (22 bp):
TATAATAAATCACTTAATTTAG
Found at i:42640923 original size:19 final size:19
Alignment explanation
Indices: 42640899--42640938 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
42640889 CTAAAACCAT
*
42640899 TTCA-TTGCATTTAGGTTAA
1 TTCATTTGCA-TTAAGTTAA
42640918 TTCATTTGCATTAAGTTAA
1 TTCATTTGCATTAAGTTAA
42640937 TT
1 TT
42640939 AAATTAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (19 bp):
TTCATTTGCATTAAGTTAA
Found at i:42642741 original size:41 final size:41
Alignment explanation
Indices: 42642683--42642787 Score: 131
Period size: 41 Copynumber: 2.6 Consensus size: 41
42642673 CCCGATTCAA
* * **
42642683 TTCACCGGCAATTAGCCTGCTAGACTTATCGTCCGAATTAT
1 TTCACCGGCAATAAGCCTGCTAGACATAAAGTCCGAATTAT
42642724 TTCACCGGCACA-AAGCCTGCTAGACATAAAGTCCGAATTAT
1 TTCACCGGCA-ATAAGCCTGCTAGACATAAAGTCCGAATTAT
** *
42642765 TTCACCGGCCTTAAGCCTTCTAG
1 TTCACCGGCAATAAGCCTGCTAG
42642788 GTTTTAAACC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
41 54 0.98
42 1 0.02
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.28
Consensus pattern (41 bp):
TTCACCGGCAATAAGCCTGCTAGACATAAAGTCCGAATTAT
Found at i:42648067 original size:13 final size:13
Alignment explanation
Indices: 42648049--42648076 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
42648039 TTTTTGCTAT
42648049 AGTTCTTTTGACA
1 AGTTCTTTTGACA
42648062 AGTTCTTTTGACA
1 AGTTCTTTTGACA
42648075 AG
1 AG
42648077 CTGTGAAATG
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:0.25, C:0.14, G:0.18, T:0.43
Consensus pattern (13 bp):
AGTTCTTTTGACA
Found at i:42648111 original size:26 final size:26
Alignment explanation
Indices: 42648075--42648130 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
42648065 TCTTTTGACA
*
42648075 AGCTGTGAAATGGGCCTGCTCACATG
1 AGCTATGAAATGGGCCTGCTCACATG
*
42648101 AGCTATGAAATGGGTCTGCTCACATG
1 AGCTATGAAATGGGCCTGCTCACATG
42648127 AGCT
1 AGCT
42648131 GTGAGTCGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (26 bp):
AGCTATGAAATGGGCCTGCTCACATG
Found at i:42648929 original size:14 final size:14
Alignment explanation
Indices: 42648912--42648939 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
42648902 TACCAAGCAT
42648912 CAAAAGGAGTTGGC
1 CAAAAGGAGTTGGC
42648926 CAAAAGGAGTTGGC
1 CAAAAGGAGTTGGC
42648940 TGAATATTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.36, T:0.14
Consensus pattern (14 bp):
CAAAAGGAGTTGGC
Found at i:42652846 original size:19 final size:20
Alignment explanation
Indices: 42652804--42652846 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
42652794 TCATGCTTTC
*
42652804 TATTCACATTTTCATATTCA
1 TATTCACATTTTCAAATTCA
42652824 -ATTCACATTTTCAAATT-A
1 TATTCACATTTTCAAATTCA
42652842 TATTC
1 TATTC
42652847 CACTTAGTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTCACATTTTCAAATTCA
Found at i:42652979 original size:44 final size:44
Alignment explanation
Indices: 42652926--42653052 Score: 202
Period size: 44 Copynumber: 2.9 Consensus size: 44
42652916 ACAGATACAG
*
42652926 GATGAAATCAGCACATAGCAACCACCTTATAATCAATGATACTC
1 GATGGAATCAGCACATAGCAACCACCTTATAATCAATGATACTC
*
42652970 -AGTGGAATCAGCACATAGCAACCACCTTATAATCAACGATACTC
1 GA-TGGAATCAGCACATAGCAACCACCTTATAATCAATGATACTC
*
42653014 GATGGAATCAGCACATAGCAACCACCTTTATAGTCAATG
1 GATGGAATCAGCACATAGCAACCACC-TTATAATCAATG
42653053 GTACCCGGTT
Statistics
Matches: 76, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
43 1 0.01
44 64 0.84
45 11 0.14
ACGTcount: A:0.39, C:0.25, G:0.14, T:0.22
Consensus pattern (44 bp):
GATGGAATCAGCACATAGCAACCACCTTATAATCAATGATACTC
Found at i:42653184 original size:102 final size:101
Alignment explanation
Indices: 42653065--42653249 Score: 239
Period size: 101 Copynumber: 1.8 Consensus size: 101
42653055 ACCCGGTTCA
* * * *
42653065 CATAGTAACCTGCACATAGTAGTACACATATGA-CCATTTCCA-TCCGATACACGTAGTAGCCTG
1 CATAGTAACCTGCACATAGTACTACACATACGACCCA--T-CATTCCGATACACATAGTAGACTG
* *
42653128 CACATAGTACTACACATGTGATCGAAGCTATCCGGTACG
63 CAAATAGTACTACACACGTGATCGAAGCTATCCGGTACG
* * * *
42653167 CATAGTAGCCTGTACATAGTACTACACATACGACCCATCATTTCGTTACACATAGTAGACTGCAA
1 CATAGTAACCTGCACATAGTACTACACATACGACCCATCATTCCGATACACATAGTAGACTGCAA
42653232 ATAGTACTACACACGTGA
66 ATAGTACTACACACGTGA
42653250 CCATCACTTT
Statistics
Matches: 71, Mismatches: 10, Indels: 5
0.83 0.12 0.06
Matches are distributed among these distances:
100 2 0.03
101 37 0.52
102 29 0.41
103 3 0.04
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (101 bp):
CATAGTAACCTGCACATAGTACTACACATACGACCCATCATTCCGATACACATAGTAGACTGCAA
ATAGTACTACACACGTGATCGAAGCTATCCGGTACG
Found at i:42655781 original size:8 final size:8
Alignment explanation
Indices: 42655768--42655797 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
42655758 ATATATATAC
42655768 AAAATAAT
1 AAAATAAT
42655776 AAAATAAT
1 AAAATAAT
*
42655784 AAAATAAC
1 AAAATAAT
42655792 AAAATA
1 AAAATA
42655798 TCATTTAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (8 bp):
AAAATAAT
Found at i:42659964 original size:27 final size:28
Alignment explanation
Indices: 42659904--42659964 Score: 115
Period size: 28 Copynumber: 2.2 Consensus size: 28
42659894 TATATGTTAG
42659904 CTTAGTTATGGTATACTTGTATTTTTCA
1 CTTAGTTATGGTATACTTGTATTTTTCA
42659932 CTTAGTTATGGTATACTTGTATTTTTCA
1 CTTAGTTATGGTATACTTGTATTTTTCA
42659960 -TTAGT
1 CTTAGT
42659965 CTTGTATATT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 5 0.15
28 28 0.85
ACGTcount: A:0.21, C:0.10, G:0.15, T:0.54
Consensus pattern (28 bp):
CTTAGTTATGGTATACTTGTATTTTTCA
Found at i:42662514 original size:12 final size:12
Alignment explanation
Indices: 42662497--42662522 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
42662487 CTCACACGTT
42662497 CATGTGCTAGGC
1 CATGTGCTAGGC
42662509 CATGTGCTAGGC
1 CATGTGCTAGGC
42662521 CA
1 CA
42662523 CGTAACTGCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.19, C:0.27, G:0.31, T:0.23
Consensus pattern (12 bp):
CATGTGCTAGGC
Found at i:42663431 original size:40 final size:40
Alignment explanation
Indices: 42663373--42663505 Score: 196
Period size: 40 Copynumber: 3.3 Consensus size: 40
42663363 AGATCCACTG
* * * *
42663373 AACACACCAGAAAAAAGCTCATAAGAGTTAGTCCAACCAA
1 AACACACCAGACAGAAGCTCATAAGAGCTAATCCAACCAA
*
42663413 AACACACAAGACAGAAGCTCATAA-AGGCTAATCCAACCAA
1 AACACACCAGACAGAAGCTCATAAGA-GCTAATCCAACCAA
42663453 AACACACCAGACAGAAGCTCATAAGAGCTAATCCAACCAA
1 AACACACCAGACAGAAGCTCATAAGAGCTAATCCAACCAA
*
42663493 AACACACTAGACA
1 AACACACCAGACA
42663506 AAGAGTATAA
Statistics
Matches: 84, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
39 1 0.01
40 82 0.98
41 1 0.01
ACGTcount: A:0.50, C:0.28, G:0.12, T:0.11
Consensus pattern (40 bp):
AACACACCAGACAGAAGCTCATAAGAGCTAATCCAACCAA
Found at i:42669900 original size:19 final size:20
Alignment explanation
Indices: 42669858--42669900 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
42669848 TCATGCTTTC
*
42669858 TATTCACATTTTCATATTCA
1 TATTCACATTTTCAAATTCA
42669878 -ATTCACATTTTCAAATT-A
1 TATTCACATTTTCAAATTCA
42669896 TATTC
1 TATTC
42669901 CACTTAGTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTCACATTTTCAAATTCA
Found at i:42670033 original size:44 final size:44
Alignment explanation
Indices: 42669980--42670106 Score: 202
Period size: 44 Copynumber: 2.9 Consensus size: 44
42669970 ACAGATACAG
*
42669980 GATGAAATCAGCACATAGCAACCACCTTATAATCAATGATACTC
1 GATGGAATCAGCACATAGCAACCACCTTATAATCAATGATACTC
*
42670024 -AGTGGAATCAGCACATAGCAACCACCTTATAATCAACGATACTC
1 GA-TGGAATCAGCACATAGCAACCACCTTATAATCAATGATACTC
*
42670068 GATGGAATCAGCACATAGCAACCACCTTTATAGTCAATG
1 GATGGAATCAGCACATAGCAACCACC-TTATAATCAATG
42670107 GTACCCGGTT
Statistics
Matches: 76, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
43 1 0.01
44 64 0.84
45 11 0.14
ACGTcount: A:0.39, C:0.25, G:0.14, T:0.22
Consensus pattern (44 bp):
GATGGAATCAGCACATAGCAACCACCTTATAATCAATGATACTC
Found at i:42670238 original size:102 final size:101
Alignment explanation
Indices: 42670119--42670303 Score: 239
Period size: 101 Copynumber: 1.8 Consensus size: 101
42670109 ACCCGGTTCA
* * * *
42670119 CATAGTAACCTGCACATAGTAGTACACATATGA-CCATTTCCA-TCCGATACACGTAGTAGCCTG
1 CATAGTAACCTGCACATAGTACTACACATACGACCCA--T-CATTCCGATACACATAGTAGACTG
* *
42670182 CACATAGTACTACACATGTGATCGAAGCTATCCGGTACG
63 CAAATAGTACTACACACGTGATCGAAGCTATCCGGTACG
* * * *
42670221 CATAGTAGCCTGTACATAGTACTACACATACGACCCATCATTTCGTTACACATAGTAGACTGCAA
1 CATAGTAACCTGCACATAGTACTACACATACGACCCATCATTCCGATACACATAGTAGACTGCAA
42670286 ATAGTACTACACACGTGA
66 ATAGTACTACACACGTGA
42670304 CCATCACTTT
Statistics
Matches: 71, Mismatches: 10, Indels: 5
0.83 0.12 0.06
Matches are distributed among these distances:
100 2 0.03
101 37 0.52
102 29 0.41
103 3 0.04
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (101 bp):
CATAGTAACCTGCACATAGTACTACACATACGACCCATCATTCCGATACACATAGTAGACTGCAA
ATAGTACTACACACGTGATCGAAGCTATCCGGTACG
Found at i:42672834 original size:8 final size:8
Alignment explanation
Indices: 42672821--42672850 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
42672811 ATATATATAC
42672821 AAAATAAT
1 AAAATAAT
42672829 AAAATAAT
1 AAAATAAT
*
42672837 AAAATAAC
1 AAAATAAT
42672845 AAAATA
1 AAAATA
42672851 TCATTTAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (8 bp):
AAAATAAT
Found at i:42677839 original size:27 final size:28
Alignment explanation
Indices: 42677779--42677839 Score: 115
Period size: 28 Copynumber: 2.2 Consensus size: 28
42677769 TATATGTTAG
42677779 CTTAGTTATGGTATACTTGTATTTTTCA
1 CTTAGTTATGGTATACTTGTATTTTTCA
42677807 CTTAGTTATGGTATACTTGTATTTTTCA
1 CTTAGTTATGGTATACTTGTATTTTTCA
42677835 -TTAGT
1 CTTAGT
42677840 CTTGTATATT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 5 0.15
28 28 0.85
ACGTcount: A:0.21, C:0.10, G:0.15, T:0.54
Consensus pattern (28 bp):
CTTAGTTATGGTATACTTGTATTTTTCA
Found at i:42680389 original size:12 final size:12
Alignment explanation
Indices: 42680372--42680397 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
42680362 CTCACACGTT
42680372 CATGTGCTAGGC
1 CATGTGCTAGGC
42680384 CATGTGCTAGGC
1 CATGTGCTAGGC
42680396 CA
1 CA
42680398 CGTAACTGCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.19, C:0.27, G:0.31, T:0.23
Consensus pattern (12 bp):
CATGTGCTAGGC
Found at i:42681307 original size:40 final size:40
Alignment explanation
Indices: 42681249--42681381 Score: 196
Period size: 40 Copynumber: 3.3 Consensus size: 40
42681239 AGATCCACTG
* * * *
42681249 AACACACCAGAAAAAAGCTCATAAGAGTTAGTCCAACCAA
1 AACACACCAGACAGAAGCTCATAAGAGCTAATCCAACCAA
*
42681289 AACACACAAGACAGAAGCTCATAA-AGGCTAATCCAACCAA
1 AACACACCAGACAGAAGCTCATAAGA-GCTAATCCAACCAA
42681329 AACACACCAGACAGAAGCTCATAAGAGCTAATCCAACCAA
1 AACACACCAGACAGAAGCTCATAAGAGCTAATCCAACCAA
*
42681369 AACACACTAGACA
1 AACACACCAGACA
42681382 AAGAGTATAA
Statistics
Matches: 84, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
39 1 0.01
40 82 0.98
41 1 0.01
ACGTcount: A:0.50, C:0.28, G:0.12, T:0.11
Consensus pattern (40 bp):
AACACACCAGACAGAAGCTCATAAGAGCTAATCCAACCAA
Found at i:42692298 original size:68 final size:68
Alignment explanation
Indices: 42692161--42692335 Score: 196
Period size: 68 Copynumber: 2.6 Consensus size: 68
42692151 GGTGGCCTTA
* * * * * *
42692161 ATATGTTTCCATAGCCCC-GTTATGGCCTTGCACATTATAACCTCATTGTAATTGTCGTGGCAGA
1 ATATGTTTCCATA-CCCCAGTTATGGTCTTACACATTATAACCCCATTGTAACTGTCCTCGCAGA
*
42692225 TTTC
65 CTTC
42692229 ATATGTTTCCATACCCCAGTTATGGTCTTACACATTATAACCCCA-TGTCAACTGTCCTCG-AGG
1 ATATGTTTCCATACCCCAGTTATGGTCTTACACATTATAACCCCATTGT-AACTGTCCTCGCA-G
42692292 ACTTC
64 ACTTC
* * *
42692297 ATATGTTAT-CATAGCCCAGCTATAGTCTTACACATTATA
1 ATATGTT-TCCATACCCCAGTTATGGTCTTACACATTATA
42692336 CCTCTTTTGA
Statistics
Matches: 93, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
67 8 0.09
68 84 0.90
69 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.35
Consensus pattern (68 bp):
ATATGTTTCCATACCCCAGTTATGGTCTTACACATTATAACCCCATTGTAACTGTCCTCGCAGAC
TTC
Found at i:42696260 original size:16 final size:17
Alignment explanation
Indices: 42696234--42696268 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
42696224 TAGAATTGGG
42696234 TTGAGAAAATTATTTAA
1 TTGAGAAAATTATTTAA
42696251 TTGA-AAAATTATTTAA
1 TTGAGAAAATTATTTAA
42696267 TT
1 TT
42696269 TAAATTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.46, C:0.00, G:0.09, T:0.46
Consensus pattern (17 bp):
TTGAGAAAATTATTTAA
Found at i:42704314 original size:40 final size:39
Alignment explanation
Indices: 42704252--42704459 Score: 165
Period size: 39 Copynumber: 5.3 Consensus size: 39
42704242 TGAGCGTTAC
* * *
42704252 CTACTGAAACATATGCGCTATTGAGCCATACCTACTGAAT
1 CTACTGAAA-GTATGTGCTATTGAGCCATACCTACTGATT
* * * * *
42704292 CTACTGAAATGTATGTGGTATTGAACCATACCAAATAAATT
1 CTACTGAAA-GTATGTGCTATTGAGCCATACCTACT-GATT
* * * *
42704333 -TATTGAAATGTATGCGCTATTGAGTCAAACCTACTGATT
1 CTACTGAAA-GTATGTGCTATTGAGCCATACCTACTGATT
* *
42704372 CTACT-ACAAGTATGCT-TTATCGAGCCATACCTACT-AGTT
1 CTACTGA-AAGTATG-TGCTATTGAGCCATACCTACTGA-TT
* *
42704411 CTACTGAAAGTATGCT-CTATTGAGTCATACCTACTTATT
1 CTACTGAAAGTATG-TGCTATTGAGCCATACCTACTGATT
42704450 CTACTGAAAG
1 CTACTGAAAG
42704460 GTTCTCAAGC
Statistics
Matches: 134, Mismatches: 27, Indels: 15
0.76 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
39 68 0.51
40 63 0.47
41 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (39 bp):
CTACTGAAAGTATGTGCTATTGAGCCATACCTACTGATT
Found at i:42706281 original size:22 final size:22
Alignment explanation
Indices: 42706256--42706301 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
42706246 GTATTTTAGG
42706256 ATTTTTAGTCTAGT-TTTATTTT
1 ATTTTTAGTCTAGTGTTT-TTTT
*
42706278 ATTTTTAGTTTAGTGTTTTTTT
1 ATTTTTAGTCTAGTGTTTTTTT
42706300 AT
1 AT
42706302 ACTTTTTGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 19 0.86
23 3 0.14
ACGTcount: A:0.17, C:0.02, G:0.11, T:0.70
Consensus pattern (22 bp):
ATTTTTAGTCTAGTGTTTTTTT
Found at i:42706921 original size:16 final size:16
Alignment explanation
Indices: 42706881--42706921 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
42706871 GTTTATTTTC
* *
42706881 AATTTTTAAATTAGTT
1 AATTTTTAGATTAATT
*
42706897 AATTTTTAGTTTAATT
1 AATTTTTAGATTAATT
42706913 AATTTTTAG
1 AATTTTTAG
42706922 GTTGATTAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (16 bp):
AATTTTTAGATTAATT
Found at i:42706929 original size:16 final size:16
Alignment explanation
Indices: 42706881--42706929 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
42706871 GTTTATTTTC
** *
42706881 AATTTTTAAATTAGTT
1 AATTTTTAGGTTAATT
*
42706897 AATTTTTAGTTTAATT
1 AATTTTTAGGTTAATT
*
42706913 AATTTTTAGGTTGATT
1 AATTTTTAGGTTAATT
42706929 A
1 A
42706930 GATAAATTGA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (16 bp):
AATTTTTAGGTTAATT
Found at i:42713147 original size:12 final size:12
Alignment explanation
Indices: 42713130--42713154 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
42713120 CATATCCTTT
42713130 TATATTTATATA
1 TATATTTATATA
42713142 TATATTTATATA
1 TATATTTATATA
42713154 T
1 T
42713155 TATGTTTACA
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TATATTTATATA
Found at i:42715814 original size:20 final size:22
Alignment explanation
Indices: 42715784--42715824 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
42715774 CAGGAAAAAG
42715784 GAAAAATAAAAGAAC-AATGGC
1 GAAAAATAAAAGAACGAATGGC
42715805 GAAAAA-AAAAGAACGAATGG
1 GAAAAATAAAAGAACGAATGG
42715825 AAGATGACGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.63, C:0.07, G:0.22, T:0.07
Consensus pattern (22 bp):
GAAAAATAAAAGAACGAATGGC
Found at i:42723976 original size:23 final size:23
Alignment explanation
Indices: 42723950--42724082 Score: 67
Period size: 23 Copynumber: 5.7 Consensus size: 23
42723940 TAGTGTGTGA
42723950 AAATTTAAAATAATATTAATAAT
1 AAATTTAAAATAATATTAATAAT
* * *
42723973 AAATTTAGAGTAAT-TATGATAAT
1 AAATTTAAAATAATAT-TAATAAT
* * *
42723996 AAACTAAAAATAATAATACATGAA-
1 AAATTTAAAATAATATTA-AT-AAT
** * *
42724020 AAACCTAAAAT-ATA-TAAAAAA
1 AAATTTAAAATAATATTAATAAT
*
42724041 AAACTTTTAAAATAATAATACAATAAT
1 AAA--TTTAAAATAAT-AT-TAATAAT
*
42724068 AAATTTATAATAATA
1 AAATTTAAAATAATA
42724083 AGTTTAATTA
Statistics
Matches: 81, Mismatches: 18, Indels: 21
0.68 0.15 0.17
Matches are distributed among these distances:
20 2 0.02
21 4 0.05
22 3 0.04
23 38 0.47
24 14 0.17
25 13 0.16
27 7 0.09
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.32
Consensus pattern (23 bp):
AAATTTAAAATAATATTAATAAT
Found at i:42731421 original size:50 final size:50
Alignment explanation
Indices: 42731319--42731560 Score: 200
Period size: 50 Copynumber: 4.7 Consensus size: 50
42731309 GGTAATGAGA
* * *
42731319 TCCCATGTAAGACTATGTCTGGGACATGGAATTGGCATCATTGAGGTTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGA-G--ATGAGAGG
42731375 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
** * * * * * **
42731425 TCCCCCGTAAGACCATGTCTAGGACGTGGCATGGGCACCGATATAAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* * * * * * **
42731475 TCTCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTATAAGAAACA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGAGG
* * *
42731524 TCCCATGTAAAACCATTTCTGGGACATGGCTTTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
42731561 TGTTATTATC
Statistics
Matches: 155, Mismatches: 30, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
48 1 0.01
49 37 0.24
50 78 0.50
52 1 0.01
53 2 0.01
55 1 0.01
56 35 0.23
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
Found at i:42735396 original size:21 final size:22
Alignment explanation
Indices: 42735361--42735401 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
42735351 TTAATGCTGC
*
42735361 TATTTTCTAGAAATTATTTATT
1 TATTTTATAGAAATTATTTATT
42735383 TATTTTAT-GAAATTATTTA
1 TATTTTATAGAAATTATTTA
42735402 ATGTTGACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (22 bp):
TATTTTATAGAAATTATTTATT
Found at i:42735650 original size:50 final size:50
Alignment explanation
Indices: 42735553--42735658 Score: 140
Period size: 50 Copynumber: 2.1 Consensus size: 50
42735543 CATTGAGGTT
* * ** *
42735553 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGGGTTGACACCGAC
1 ATGAGAGGTCCCACGTAAGACCATGTCTAGGACATGGCATGGACACCGAC
* * *
42735603 ATGAGAGGTCCCCCGTAAGACCATGTCTAGGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCCACGTAAGACCATGTCTAGGACATGGCATGGACACCGAC
42735653 ATGAGA
1 ATGAGA
42735659 ACTCGTAATA
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.27, C:0.23, G:0.31, T:0.19
Consensus pattern (50 bp):
ATGAGAGGTCCCACGTAAGACCATGTCTAGGACATGGCATGGACACCGAC
Found at i:42736248 original size:50 final size:51
Alignment explanation
Indices: 42736146--42736387 Score: 204
Period size: 50 Copynumber: 4.7 Consensus size: 51
42736136 GGTAATGAGA
* * *
42736146 TCCCATGTAAGACTATGTCTGGGACATGGAATTGGCATCATTGAAGTTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAAG--ATGAGAGG
42736202 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAAGATGAGAGG
** * * * * **
42736252 TCCCCCGTAAGACCATGTCTAGGACATGGCATGGGCACCG-ATATAAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAAGATGAGAGG
* * * * * * * **
42736302 TCTCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTATAAGAAACA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAAGATGAGAGG
* * *
42736351 TCCCATGTAAAACCATTTCTGGGACATGGCTTTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
42736388 TGTTATTATC
Statistics
Matches: 157, Mismatches: 28, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
48 1 0.01
49 37 0.24
50 80 0.51
52 2 0.01
53 1 0.01
55 1 0.01
56 35 0.22
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (51 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAAGATGAGAGG
Found at i:42748789 original size:41 final size:41
Alignment explanation
Indices: 42748719--42749081 Score: 469
Period size: 41 Copynumber: 8.9 Consensus size: 41
42748709 TTTGTATCTT
*
42748719 TCGGGGCTTTAGCGGCGTTTTT-AAGAAAGCACCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTCAAG-AAGCGCCGCTAATGC
* ** *
42748760 TCAGATCTTTAGCGGCGTTTTTGATA-AAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTCA-AGAAGCGCCGCTAATGC
*
42748801 TCGGGGCTTTAGCGGCATTTTTCAAGAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTCAAGAAGCGCCGCTAATGC
* *
42748842 TCTGGGATTTAGCGGCGTTTTTCAAGAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTCAAGAAGCGCCGCTAATGC
*
42748883 TCGGGGCTTTAGCGGCGTTTTTCAAGAAGCCCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTCAAGAAGCGCCGCTAATGC
* * * *
42748924 TTGGGGCTTTAGCGGCGTTTTTAAAGAAGTGTCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTCAAGAAGCGCCGCTAATGC
** * * **
42748965 TTAGGGCTTTAGCAGCGTTTTCCAAGAAGAACCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTCAAGAAGCGCCGCTAATGC
* *
42749006 TCGGGGCTTTAGCGGCGTTTTCCAAGAAGCGCCGCTAATGT
1 TCGGGGCTTTAGCGGCGTTTTTCAAGAAGCGCCGCTAATGC
* * * *
42749047 TCAGGGATTTAGCGGCGTTTTTGAAAAAGCGCCGC
1 TCGGGGCTTTAGCGGCGTTTTTCAAGAAGCGCCGC
42749082 CATAGCATTT
Statistics
Matches: 281, Mismatches: 38, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
40 1 0.00
41 278 0.99
42 1 0.00
43 1 0.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (41 bp):
TCGGGGCTTTAGCGGCGTTTTTCAAGAAGCGCCGCTAATGC
Found at i:42749498 original size:13 final size:14
Alignment explanation
Indices: 42749469--42749498 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
42749459 AGAGTATGAA
42749469 ATTAGGGATTATTG
1 ATTAGGGATTATTG
42749483 ATTAGGGATT-TTG
1 ATTAGGGATTATTG
42749496 ATT
1 ATT
42749499 TAAGGGTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.47
Consensus pattern (14 bp):
ATTAGGGATTATTG
Found at i:42749569 original size:21 final size:21
Alignment explanation
Indices: 42749516--42749569 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
42749506 TGTGATTTAA
*
42749516 GATTTATGGGTTAGTGGTTAGG
1 GATTTA-GGGTTAGGGGTTAGG
*
42749538 G-GTTAGAGGTTAGGGGTTAGG
1 GATTTAG-GGTTAGGGGTTAGG
42749559 GATTTAGGGTT
1 GATTTAGGGTT
42749570 TATGGATTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
20 1 0.04
21 21 0.78
22 5 0.19
ACGTcount: A:0.19, C:0.00, G:0.44, T:0.37
Consensus pattern (21 bp):
GATTTAGGGTTAGGGGTTAGG
Found at i:42749571 original size:7 final size:7
Alignment explanation
Indices: 42749523--42749559 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
42749513 TAAGATTTAT
42749523 GGGTTAG
1 GGGTTAG
*
42749530 TGGTTAG
1 GGGTTAG
42749537 GGGTTAG
1 GGGTTAG
*
42749544 AGGTTAG
1 GGGTTAG
42749551 GGGTTAG
1 GGGTTAG
42749558 GG
1 GG
42749560 ATTTAGGGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.16, C:0.00, G:0.54, T:0.30
Consensus pattern (7 bp):
GGGTTAG
Found at i:42749672 original size:14 final size:13
Alignment explanation
Indices: 42749644--42749689 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
42749634 TAAATAATGT
42749644 TTAGGGTTAGGGG
1 TTAGGGTTAGGGG
*
42749657 TTAGGGATTTGGGG
1 TTAGGG-TTAGGGG
*
42749671 TT-TGGTTA-GGG
1 TTAGGGTTAGGGG
42749682 TTAGGGTT
1 TTAGGGTT
42749690 TAGATTAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
11 5 0.19
12 6 0.22
13 8 0.30
14 8 0.30
ACGTcount: A:0.13, C:0.00, G:0.48, T:0.39
Consensus pattern (13 bp):
TTAGGGTTAGGGG
Found at i:42749694 original size:87 final size:88
Alignment explanation
Indices: 42749595--42749760 Score: 271
Period size: 87 Copynumber: 1.9 Consensus size: 88
42749585 AAGTTAAGGT
*
42749595 TTAGGATTTAGATTAATTAGTGTATTTTAATTTATATATTAAATAATGTTTA-GGGTTAGGGGTT
1 TTAGGATTTAGATTAATTAGTGTATTTTAATTTATATATTAAATAAGGTTTAGGGGTTAGGGGTT
42749659 AGGGATTTGGGGTTTGGTTAGGG
66 AGGGATTTGGGGTTTGGTTAGGG
* * *
42749682 TTAGGGTTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAGGTTTAGGGGTTAGTGGTT
1 TTAGGATTTAGATTAATTAGTGTATTTTAATTTATATATTAAATAAGGTTTAGGGGTTAGGGGTT
* *
42749747 TGGGGTTTGGGGTT
66 AGGGATTTGGGGTT
42749761 AAGAGTTAGT
Statistics
Matches: 72, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
87 49 0.68
88 23 0.32
ACGTcount: A:0.25, C:0.00, G:0.29, T:0.46
Consensus pattern (88 bp):
TTAGGATTTAGATTAATTAGTGTATTTTAATTTATATATTAAATAAGGTTTAGGGGTTAGGGGTT
AGGGATTTGGGGTTTGGTTAGGG
Found at i:42750897 original size:22 final size:23
Alignment explanation
Indices: 42750872--42750928 Score: 66
Period size: 21 Copynumber: 2.6 Consensus size: 23
42750862 CCCTCCCCCG
42750872 AAATCCCCAACTTTCCCCCC-TA
1 AAATCCCCAACTTTCCCCCCTTA
* *
42750894 AAATCCCTAA--TTCCCCCCTTG
1 AAATCCCCAACTTTCCCCCCTTA
*
42750915 AAACCCCCAACTTT
1 AAATCCCCAACTTT
42750929 ACAAACATAC
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
20 8 0.29
21 9 0.32
22 9 0.32
23 2 0.07
ACGTcount: A:0.28, C:0.46, G:0.02, T:0.25
Consensus pattern (23 bp):
AAATCCCCAACTTTCCCCCCTTA
Found at i:42756418 original size:43 final size:43
Alignment explanation
Indices: 42756356--42756716 Score: 402
Period size: 43 Copynumber: 8.4 Consensus size: 43
42756346 GCTAAAAGTC
* * * * * *
42756356 ATCTTATAGTGGCATTTGTGGTATAAGTGTCACTAAAGGTCGTG
1 ATCTT-TAGCGGCGTTTGTGGTAGAAGCGCCACTAAAGGTCATG
* ** *
42756400 TTCTTTAGTAGCGTTTGTGGTAGAAGCGCCTCTAAAGGTCATG
1 ATCTTTAGCGGCGTTTGTGGTAGAAGCGCCACTAAAGGTCATG
* **
42756443 ATCTTTAGCGGCGTTTGTGGTAGAAGCGTCGTTAAAGGTCATG
1 ATCTTTAGCGGCGTTTGTGGTAGAAGCGCCACTAAAGGTCATG
*
42756486 ATCTTTAGCGGCGTTTGTGGTAGAAGCGCCGCTAAAGGTCATG
1 ATCTTTAGCGGCGTTTGTGGTAGAAGCGCCACTAAAGGTCATG
* * *
42756529 ATCTTTAGCGGCGTTTGTTGTAGAAGCGCCACTAAAAGTTATG
1 ATCTTTAGCGGCGTTTGTGGTAGAAGCGCCACTAAAGGTCATG
* * *
42756572 ATCTTTAGCGGTGTTTGTGGTAGAAGCGCCACTAACGGTCTTG
1 ATCTTTAGCGGCGTTTGTGGTAGAAGCGCCACTAAAGGTCATG
* ** *
42756615 TTCTTTAGCGGCGTTTGTGAG-AGAAGCGCTGCTAAAGATCATG
1 ATCTTTAGCGGCGTTTGTG-GTAGAAGCGCCACTAAAGGTCATG
* * * * * *
42756658 ATCTATAGCAGCTTTTGTGGGATAAGCGCCGCTAAAGGTCATG
1 ATCTTTAGCGGCGTTTGTGGTAGAAGCGCCACTAAAGGTCATG
*
42756701 A-CTTTTAGTGGCGTTT
1 ATC-TTTAGCGGCGTTT
42756717 ATTTTTAAAA
Statistics
Matches: 270, Mismatches: 44, Indels: 7
0.84 0.14 0.02
Matches are distributed among these distances:
42 2 0.01
43 263 0.97
44 5 0.02
ACGTcount: A:0.22, C:0.16, G:0.29, T:0.33
Consensus pattern (43 bp):
ATCTTTAGCGGCGTTTGTGGTAGAAGCGCCACTAAAGGTCATG
Found at i:42758685 original size:27 final size:26
Alignment explanation
Indices: 42758647--42758737 Score: 96
Period size: 26 Copynumber: 3.5 Consensus size: 26
42758637 GCGGATACTC
* *
42758647 CACAGCTC-TGTGAGCAGGCCCTTTTT
1 CACAACTCGTGTGAGCAGACCC-TTTT
* *
42758673 CACAACTTGTGTGAGCAGACCCGTTT
1 CACAACTCGTGTGAGCAGACCCTTTT
*
42758699 CATAACTCGTGTGAGCAGACCCATTTT
1 CACAACTCGTGTGAGCAGACCC-TTTT
*
42758726 -ACAGCTCGTGTG
1 CACAACTCGTGTG
42758738 CTCAACCATG
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
26 39 0.72
27 15 0.28
ACGTcount: A:0.21, C:0.27, G:0.23, T:0.29
Consensus pattern (26 bp):
CACAACTCGTGTGAGCAGACCCTTTT
Found at i:42769328 original size:51 final size:51
Alignment explanation
Indices: 42769266--42769456 Score: 203
Period size: 51 Copynumber: 3.8 Consensus size: 51
42769256 CCGGTTCACA
* * *
42769266 TAGTAGTCTGCACATAGTACTACACATGTGACCATCACTATCCTATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCTGTACACG
* ** * *
42769317 TAGTAGCCTGCACATAGTACTACACACGTGATCGA--AGCTATCAGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTATCCTGTACACG
* *
42769368 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-T-CTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCCT-GTACACG
* *
42769418 TAGTAGCCTACACATAGTACTACACACGTGACCAACACT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
42769457 TTCACTTTCA
Statistics
Matches: 114, Mismatches: 19, Indels: 15
0.77 0.13 0.10
Matches are distributed among these distances:
49 3 0.03
50 39 0.34
51 69 0.61
52 2 0.02
53 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCTGTACACG
Found at i:42769433 original size:101 final size:102
Alignment explanation
Indices: 42769264--42769448 Score: 295
Period size: 101 Copynumber: 1.8 Consensus size: 102
42769254 TACCGGTTCA
* * *
42769264 CATAGTAGTCTGCACATAGTACTACACATGTGACCATCACTATCCTATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCTATACACGTAGTAGCCTACA
42769329 CATAGTACTACACACGTGATCGAAGCTATCAGGTACG
66 CATAGTACTACACACGTGATCGAAGCTATCAGGTACG
*
42769366 CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-T-CTGGTACACGTAGTAGCCTA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTATCCT-ATACACGTAGTAGCCTA
42769428 CACATAGTACTACACACGTGA
64 CACATAGTACTACACACGTGA
42769449 CCAACACTTT
Statistics
Matches: 77, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
100 2 0.03
101 37 0.48
102 34 0.44
103 4 0.05
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.24
Consensus pattern (102 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCTATACACGTAGTAGCCTACA
CATAGTACTACACACGTGATCGAAGCTATCAGGTACG
Found at i:42769471 original size:101 final size:102
Alignment explanation
Indices: 42769259--42769482 Score: 276
Period size: 101 Copynumber: 2.2 Consensus size: 102
42769249 AATGATACCG
* *
42769259 GTTCACATAGTAGTCTGCACATAGTACTACACATGTGACCATCACTATCCTATACACGTAGTAGC
1 GTTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCTATACACGTAGTAGC
* * * *
42769324 CTGCACATAGTACTACACACGTGATCGAAGCTATCAG
66 CTACACATAGTACTACACACGTGATCCAAACTATCAC
* * *
42769361 GTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-T-CTGGTACACGTAGTA
1 GTTCACATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTATCCT-ATACACGTAGTA
*
42769423 GCCTACACATAGTACTACACACGTGA-CCAACACTTTCAC
64 GCCTACACATAGTACTACACACGTGATCCAA-ACTATCAC
* * *
42769462 TTTCACATAGTGGCCTACACA
1 GTTCACATAGTAGCCTGCACA
42769483 CAGTTCATGC
Statistics
Matches: 104, Mismatches: 15, Indels: 7
0.83 0.12 0.06
Matches are distributed among these distances:
100 5 0.05
101 58 0.56
102 37 0.36
103 4 0.04
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (102 bp):
GTTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCTATACACGTAGTAGC
CTACACATAGTACTACACACGTGATCCAAACTATCAC
Found at i:42772729 original size:59 final size:59
Alignment explanation
Indices: 42772666--42772784 Score: 141
Period size: 59 Copynumber: 2.0 Consensus size: 59
42772656 AAAATAAAAA
* * * * *
42772666 CAAAATCAATTTTGTTAAACGGTAGGATTAAAT-TCTGAAACAAAATTATGTAATTAAAT
1 CAAAATAAATTCTATTAAACGGGAGGAATAAATCT-TGAAACAAAATTATGTAATTAAAT
* * * *
42772725 CAAAATAAATTCTATTAAATGGGGGGAATAAATCTTGAAACAAAATTATTTGATTAAAT
1 CAAAATAAATTCTATTAAACGGGAGGAATAAATCTTGAAACAAAATTATGTAATTAAAT
42772784 C
1 C
42772785 TACGTTTAGA
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
59 49 0.98
60 1 0.02
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (59 bp):
CAAAATAAATTCTATTAAACGGGAGGAATAAATCTTGAAACAAAATTATGTAATTAAAT
Found at i:42773372 original size:469 final size:468
Alignment explanation
Indices: 42771995--42773600 Score: 2504
Period size: 469 Copynumber: 3.4 Consensus size: 468
42771985 CACTAAAAGA
* * ** *
42771995 GAGGTGGTGCACTCAGCATGCTTAAATATCAAGTCTTTTAAAGAATCAATCCTAGACATGCATTC
1 GAGGTGGTGCACTCAGCACGCTTAAATACCAAGTCTTCCAAAGAACCAATCCTAGACATGCATTC
* *
42772060 TAATATTGTCTTTTTAATTCACCGTTGAT-AA-TT-TTTTTAATTCAAAATTTCAAGCCACAATT
66 TCATATTGTCTTTTTAATTCACCATTGATAAATTTCTTTTTAATTCAAAATTTCAAGCCACAATT
*
42772122 AGGCAAAAAAAAAAAAAACAGAAAATTTTCCTTTGATTTTGTTAAACGGCAGAACTAAAATTCTG
131 AGGC----AAAAAAAAAACAGAAAATTTTCCTTTGATTTTGTTAAACGGCAGAATTAAAATTCTG
** *
42772187 AAACAAAATTAAAATCAATTTTGTTAAATGACATGATTAAATCCCAAAACAAATTATGTAATTAA
192 AAACAAAAACAAAATCAATTTTGTTAAATGACATGATTAAATCCCGAAACAAATTATGTAATTAA
42772252 ATCAAAATAAATTCTGTTAAACGGTAGGAATAAATCCCAAAACAGAATCATTTGATTAAGTCTTC
257 ATCAAAATAAATTCTGTTAAACGGTAGGAATAAATCCCAAAACAGAATCATTTGATTAAGTCTTC
42772317 GTTTAGAAACAAATCAATATCGAATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAATAGAT
322 GTTTAGAAACAAATCAATATCGAATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAATAGAT
* *
42772382 TTTATTTAATTTAAGATAAATGTCCTTATATAAATAGATTATATTTGCTAAGGAAAAATAATTTC
387 TTTATTTAATTTAAGATAAATGTCCTTATATAAATAGATTATGTCTGCTAAGGAAAAATAATTTC
*
42772447 GTGTTAGGCTGAAATAT
452 GTGTTGGGCTGAAATAT
* *
42772464 GAGGTGGTGCACTCGGCACGCTTAAATACCAATTCTTCCAAAGAACCAATCCTAGACATGCATTC
1 GAGGTGGTGCACTCAGCACGCTTAAATACCAAGTCTTCCAAAGAACCAATCCTAGACATGCATTC
* *
42772529 TCATATTGTCTTTTTAATTCACCATTGATAGATTTCTTTTTAATTCACAATTTCAAGCCACAATT
66 TCATATTGTCTTTTTAATTCACCATTGATAAATTTCTTTTTAATTCAAAATTTCAAGCCACAATT
* ** *
42772594 AGGCACAAAAAAAACCCAGAAAATTTTCCTTTGATTTTGTTAAACGTTAGAATTAAAATTCTAAA
131 AGGCA-AAAAAAAA-ACAGAAAATTTTCCTTTGATTTTGTTAAACGGCAGAATTAAAATTCTGAA
* * ** * * *
42772659 ATAAAAACAAAATCAATTTTGTTAAACGGTAGGATTAAATTCTGAAACAAAATTATGTAATTAAA
194 ACAAAAACAAAATCAATTTTGTTAAATGACATGATTAAATCCCGAAAC-AAATTATGTAATTAAA
* * ** *** * * * *
42772724 TCAAAATAAATTCTATTAAATGGGGGGAATAAATCTTGAAACAAAATTATTTGATTAAATCTACG
258 TCAAAATAAATTCTGTTAAACGGTAGGAATAAATCCCAAAACAGAATCATTTGATTAAGTCTTCG
* *
42772789 TTTAGAAACAAATCAATATCGAATAAAATCTTGTTAAACGGCGGGGATTAATCCCGAAATAGATT
323 TTTAGAAACAAATCAATATCGAATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAATAGATT
* *
42772854 TTATTTAATTTAAGATAAATGTTCTTATATAAATAGATTATGCCTGCTAAGGAAAAATAATTTCG
388 TTATTTAATTTAAGATAAATGTCCTTATATAAATAGATTATGTCTGCTAAGGAAAAATAATTTCG
42772919 TGTTGGGCTGAAATAT
453 TGTTGGGCTGAAATAT
* * * * ** *
42772935 GAGGTGGTGCACTCGGCACGCTTAAATACTAAGTCTTTCAAATAACCAATTTTAAACATGCATTC
1 GAGGTGGTGCACTCAGCACGCTTAAATACCAAGTCTTCCAAAGAACCAATCCTAGACATGCATTC
*
42773000 TCATATTGTCTTTTTAATTCACTATTGATAAATTTCTTTTTTAATTCAAAATTTCAAGCCACAAT
66 TCATATTGTCTTTTTAATTCACCATTGATAAATTTC-TTTTTAATTCAAAATTTCAAGCCACAAT
*
42773065 TAGGCAAAAAAAAAACAGAAAATTTCCCTTTGATTTTGTTAAACGGCAGAATTAAAATTCTGAAA
130 TAGGCAAAAAAAAAACAGAAAATTTTCCTTTGATTTTGTTAAACGGCAGAATTAAAATTCTGAAA
* *
42773130 CAAAAGCAAAATCAATTTTGTTAAATGACATGTTTAAATCCCGAAACAAATTATGTAATTAAATC
195 CAAAAACAAAATCAATTTTGTTAAATGACATGATTAAATCCCGAAACAAATTATGTAATTAAATC
42773195 AAAATAAATTCTGTTAAACGGTAGGAATAAATCCCAAAACAGAATCATTTGATTAAGTCTTCGTT
260 AAAATAAATTCTGTTAAACGGTAGGAATAAATCCCAAAACAGAATCATTTGATTAAGTCTTCGTT
* * *
42773260 TAGAAACAAATCAATATCGAATAAAATCTTGTTAAACGACGGGAATAAATCCCCAATTAGATTTT
325 TAGAAACAAATCAATATCGAATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAATAGATTTT
42773325 ATTTAATTTAAGATAAATGTCCTTATATAAATAGATTATGTCTGCTAAGGAAAAATAATTTCGTG
390 ATTTAATTTAAGATAAATGTCCTTATATAAATAGATTATGTCTGCTAAGGAAAAATAATTTCGTG
42773390 TTGGGCTGAAATAT
455 TTGGGCTGAAATAT
* *
42773404 GAGGTGGTGCCCTCAGCACGCTTAAATACCAATTCTTCCAAAGAACCAATCCTAGACATGCATTC
1 GAGGTGGTGCACTCAGCACGCTTAAATACCAAGTCTTCCAAAGAACCAATCCTAGACATGCATTC
*
42773469 TCATATTGTCTTTTTAATTCACCATTGATAAATTTCTTTTTAATTCACAATTTCAAGCCACAATT
66 TCATATTGTCTTTTTAATTCACCATTGATAAATTTCTTTTTAATTCAAAATTTCAAGCCACAATT
* * *
42773534 AGG-AAAAAAGAAAA-AGAAAATTTTCCTTTGATTTTGTTAAACGACAGGATT-AAATTATGAAA
131 AGGCAAAAAA-AAAACAGAAAATTTTCCTTTGATTTTGTTAAACGGCAGAATTAAAATTCTGAAA
*
42773596 TAAAA
195 CAAAA
42773601 TTATGTAATT
Statistics
Matches: 1027, Mismatches: 102, Indels: 19
0.89 0.09 0.02
Matches are distributed among these distances:
466 14 0.01
467 40 0.04
468 36 0.04
469 393 0.38
470 168 0.16
471 311 0.30
472 65 0.06
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (468 bp):
GAGGTGGTGCACTCAGCACGCTTAAATACCAAGTCTTCCAAAGAACCAATCCTAGACATGCATTC
TCATATTGTCTTTTTAATTCACCATTGATAAATTTCTTTTTAATTCAAAATTTCAAGCCACAATT
AGGCAAAAAAAAAACAGAAAATTTTCCTTTGATTTTGTTAAACGGCAGAATTAAAATTCTGAAAC
AAAAACAAAATCAATTTTGTTAAATGACATGATTAAATCCCGAAACAAATTATGTAATTAAATCA
AAATAAATTCTGTTAAACGGTAGGAATAAATCCCAAAACAGAATCATTTGATTAAGTCTTCGTTT
AGAAACAAATCAATATCGAATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAATAGATTTTA
TTTAATTTAAGATAAATGTCCTTATATAAATAGATTATGTCTGCTAAGGAAAAATAATTTCGTGT
TGGGCTGAAATAT
Found at i:42773972 original size:421 final size:424
Alignment explanation
Indices: 42773177--42774028 Score: 1370
Period size: 421 Copynumber: 2.0 Consensus size: 424
42773167 ATCCCGAAAC
* * *
42773177 AAATTATGTAATTAAATCAAAATAAATTCTGTTAAACGGTAGGAATAAATCCCAAAACAGAATCA
1 AAATTATGTAATTAAATCAAAATAAATTCTATTAAACGGCAGGAATAAATCCCAAAACAAAATCA
42773242 TTTGATTAAGTCTTCGTTTAGAAACAAATCAATATCGAATAAAATCTTGTTAAACGACGGGAATA
66 TTTGATTAAGTCTTCGTTTAGAAACAAATCAATATCGAATAAAATCTTGTTAAACGACGGGAATA
* ** *
42773307 AATCCCCAATTAGATTTTATTTAATTTAAGATAAATGTCCTTATATAAATAGATTATGTCTGCTA
131 AATCCCAAAACAGATTTTATTTAATTTAAGATAAATGTCCTTATATAAATAAATTATGTCTGCTA
* * *
42773372 AGGAAAAATAATTTCGTGTTGGGCTGAAATATGAGGTGGTGCCCTCAGCACGCTTAAATACCAAT
196 AAGAAAAATAATTTCGTGTTGGGCTGAAATATGAGGTGGTGCACTCAGCACGCTTAAATACCAAG
*
42773437 TCTTCCAAAGAACCAATCCTAGACATGCATTCTCATATTGTCTTTTTAATTCACCATTGATAAAT
261 TCTTCCAAAGAACCAATACTAGACATGCATTCTCATATTGTCTTTTTAATTCACCATTGATAAAT
* *
42773502 TTCTTTTTAATTCACAATTTCAAGCCACAATTAGG-AA-AAAAGAAAAAGAAAATTTTCCTTTGA
326 TTATTTTTAATTCACAATTTCAAGCCACAATTAGGAAAGAAAAGAAAAAGAAAATTTCCCTTTGA
* *
42773565 TTTTGTTAAACGACAGGATT-AAATTATGAAATA
391 TTTTGTAAAACGACAGAATTAAAATTATGAAATA
* * * *
42773598 AAATTATGTAATTAAATCAAAATAAATTCTATTAAATGGCGGGAATAAATCCCGAAACAAAATTA
1 AAATTATGTAATTAAATCAAAATAAATTCTATTAAACGGCAGGAATAAATCCCAAAACAAAATCA
* * *
42773663 TTTGATTAAGTTTTCGTTTAGAAACAAATCAATATTGAATAAAATCTTGTTAAACGGCGGGAATA
66 TTTGATTAAGTCTTCGTTTAGAAACAAATCAATATCGAATAAAATCTTGTTAAACGACGGGAATA
*
42773728 AATCCCAAAACAGATTTTATTTAATTTAATATAAATGTCCTTATATAAATAAATTATGTCTGCTA
131 AATCCCAAAACAGATTTTATTTAATTTAAGATAAATGTCCTTATATAAATAAATTATGTCTGCTA
*
42773793 AAGAAAAATAATTTCGTGTTGGGCTGAAATATGAGGTGGTGCACTCGGCACGCTTAAATACCAAG
196 AAGAAAAATAATTTCGTGTTGGGCTGAAATATGAGGTGGTGCACTCAGCACGCTTAAATACCAAG
* * *
42773858 TCTTTCAAAGAACCAATACTAGACATGCATTCTTATATTGTCTTTTTAATTCACCGTTGATAAAT
261 TCTTCCAAAGAACCAATACTAGACATGCATTCTCATATTGTCTTTTTAATTCACCATTGATAAAT
*
42773923 TTATTTTTAATTCCCAATTTCAAGCCACAATTAGGCAAAAAAGAAAAG-AAAAGAAAATTTCCCT
326 TTATTTTTAATTCACAATTTCAAGCCACAATTAGG----AAAGAAAAGAAAAAGAAAATTTCCCT
* *
42773987 TTGATTTTGTAAAACTACAGAATTAAAATTCTGAAATA
387 TTGATTTTGTAAAACGACAGAATTAAAATTATGAAATA
42774025 AAAT
1 AAAT
42774029 CAAAACCAAT
Statistics
Matches: 394, Mismatches: 30, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
421 335 0.85
426 38 0.10
427 21 0.05
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (424 bp):
AAATTATGTAATTAAATCAAAATAAATTCTATTAAACGGCAGGAATAAATCCCAAAACAAAATCA
TTTGATTAAGTCTTCGTTTAGAAACAAATCAATATCGAATAAAATCTTGTTAAACGACGGGAATA
AATCCCAAAACAGATTTTATTTAATTTAAGATAAATGTCCTTATATAAATAAATTATGTCTGCTA
AAGAAAAATAATTTCGTGTTGGGCTGAAATATGAGGTGGTGCACTCAGCACGCTTAAATACCAAG
TCTTCCAAAGAACCAATACTAGACATGCATTCTCATATTGTCTTTTTAATTCACCATTGATAAAT
TTATTTTTAATTCACAATTTCAAGCCACAATTAGGAAAGAAAAGAAAAAGAAAATTTCCCTTTGA
TTTTGTAAAACGACAGAATTAAAATTATGAAATA
Found at i:42774144 original size:59 final size:59
Alignment explanation
Indices: 42774011--42774136 Score: 137
Period size: 59 Copynumber: 2.1 Consensus size: 59
42774001 CTACAGAATT
* * * * * * * *
42774011 AAAATTCTGAAATAAAATCAAAACCAATTTTGTTAAATGGCAGGATTAAATCCTGAAAC
1 AAAATTATGTAATTAAATCAAAACAAATTCTGTTAAATGACAGGAATAAATCCCGAAAC
* *
42774070 AAAATTATGTAATTAAATCAAAATAAATTCTGTTAAATGAC-GAGAATAAATCCCGAAAT
1 AAAATTATGTAATTAAATCAAAACAAATTCTGTTAAATGACAG-GAATAAATCCCGAAAC
*
42774129 AGAATTAT
1 AAAATTAT
42774137 TTGATTAAGT
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
58 1 0.02
59 54 0.98
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.29
Consensus pattern (59 bp):
AAAATTATGTAATTAAATCAAAACAAATTCTGTTAAATGACAGGAATAAATCCCGAAAC
Found at i:42776225 original size:12 final size:11
Alignment explanation
Indices: 42776207--42776233 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
42776197 CTTTACCTCC
42776207 CTTTTTTTTTT
1 CTTTTTTTTTT
42776218 CTTTTTTTTTT
1 CTTTTTTTTTT
42776229 CTTTT
1 CTTTT
42776234 CCTTTTCTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (11 bp):
CTTTTTTTTTT
Found at i:42784982 original size:39 final size:39
Alignment explanation
Indices: 42784862--42784983 Score: 124
Period size: 39 Copynumber: 3.1 Consensus size: 39
42784852 CTTTGAGTCA
* *
42784862 ATGAGACACTAGGTGTCAATATATTACTTAGAATTAATTCG
1 ATGAGACACTAGGTGTCAAT-TATTACTTCGAATT-ATCCG
* * ** * *
42784903 ATGAGACACTGGGTGCCAA-T-TTACTTCGGTTTAGCTG
1 ATGAGACACTAGGTGTCAATTATTACTTCGAATTATCCG
42784940 ATGAGACACT-GGTGTCAACTTATTACTTCGAATTATCCG
1 ATGAGACACTAGGTGTCAA-TTATTACTTCGAATTATCCG
42784979 ATGAG
1 ATGAG
42784984 GTACTGGGTA
Statistics
Matches: 65, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
36 7 0.11
37 12 0.18
38 10 0.15
39 19 0.29
41 17 0.26
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (39 bp):
ATGAGACACTAGGTGTCAATTATTACTTCGAATTATCCG
Found at i:42787739 original size:35 final size:33
Alignment explanation
Indices: 42787690--42787754 Score: 85
Period size: 35 Copynumber: 1.9 Consensus size: 33
42787680 TAAAAAATCT
42787690 AAAGTTAAAATATATTATTATAATAATATTATTTA
1 AAAGTTAAAATATA-TATTAT-ATAATATTATTTA
** *
42787725 AAAGTTAAGTTATATATTATATTATATTAT
1 AAAGTTAAAATATATATTATATAATATTAT
42787755 ATTATATTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 9 0.33
34 6 0.22
35 12 0.44
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (33 bp):
AAAGTTAAAATATATATTATATAATATTATTTA
Found at i:42787745 original size:5 final size:5
Alignment explanation
Indices: 42787737--42787763 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
42787727 AGTTAAGTTA
42787737 TATAT TATAT TATAT TATAT TATAT TA
1 TATAT TATAT TATAT TATAT TATAT TA
42787764 AATAAAAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:42788753 original size:25 final size:25
Alignment explanation
Indices: 42788725--42788772 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
42788715 GAACTTTAGC
*
42788725 GTGCTCTCTGATTATTAGCACGTTG
1 GTGCTCTCTGATTACTAGCACGTTG
*
42788750 GTGCTCTCTGATTACTAGTACGT
1 GTGCTCTCTGATTACTAGCACGT
42788773 CAGTGCTATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.40
Consensus pattern (25 bp):
GTGCTCTCTGATTACTAGCACGTTG
Found at i:42788778 original size:25 final size:25
Alignment explanation
Indices: 42788725--42788828 Score: 76
Period size: 25 Copynumber: 4.4 Consensus size: 25
42788715 GAACTTTAGC
* **
42788725 GTGCTCTCTGATTATTAGCACGTTG
1 GTGCTCTCTGATTACTAGCACGTCA
*
42788750 GTGCTCTCTGATTACTAGTACGTCA
1 GTGCTCTCTGATTACTAGCACGTCA
* * * *
42788775 GTGCTATCTGTTTA-GAGCA--TCT
1 GTGCTCTCTGATTACTAGCACGTCA
* *
42788797 GTGCTCTCTG--TA-TAGCACTTTA
1 GTGCTCTCTGATTACTAGCACGTCA
42788819 GTGCTCTCTG
1 GTGCTCTCTG
42788829 TTCATTAGTG
Statistics
Matches: 64, Mismatches: 13, Indels: 7
0.76 0.15 0.08
Matches are distributed among these distances:
20 6 0.09
22 22 0.34
24 3 0.05
25 33 0.52
ACGTcount: A:0.16, C:0.22, G:0.22, T:0.39
Consensus pattern (25 bp):
GTGCTCTCTGATTACTAGCACGTCA
Found at i:42792463 original size:5 final size:5
Alignment explanation
Indices: 42792455--42792481 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
42792445 ATTTAATTTA
42792455 TATAT TATAT TATAT TATAT TATAT TA
1 TATAT TATAT TATAT TATAT TATAT TA
42792482 AATAAAAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:42793472 original size:25 final size:25
Alignment explanation
Indices: 42793444--42793528 Score: 125
Period size: 25 Copynumber: 3.4 Consensus size: 25
42793434 GAACTTTAGC
*
42793444 GTGCTCTCTAATTATTAGCACGTTG
1 GTGCTCTCTGATTATTAGCACGTTG
42793469 GTGCTCTCTGATTATTAGCACGTTG
1 GTGCTCTCTGATTATTAGCACGTTG
* * **
42793494 GTGCTATCTGATTACTAGCACGTCA
1 GTGCTCTCTGATTATTAGCACGTTG
42793519 GTGCTCTCTG
1 GTGCTCTCTG
42793529 TTTAGCACAT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 54 1.00
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.38
Consensus pattern (25 bp):
GTGCTCTCTGATTATTAGCACGTTG
Found at i:42795541 original size:13 final size:13
Alignment explanation
Indices: 42795525--42795550 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
42795515 TTAGACTCGT
42795525 AAATATTTATTAA
1 AAATATTTATTAA
42795538 AAATATTTATTAA
1 AAATATTTATTAA
42795551 GCTAGCTGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AAATATTTATTAA
Found at i:42795776 original size:5 final size:5
Alignment explanation
Indices: 42795751--42795839 Score: 78
Period size: 5 Copynumber: 17.8 Consensus size: 5
42795741 AAAGTTAATA
* * * *
42795751 TATAT TATAA TATTAT AATAT TATAT CT-TAA T-TAT TA-AG TATA- TATAT
1 TATAT TATAT TA-TAT TATAT TATAT -TATAT TATAT TATAT TATAT TATAT
42795799 TATAT TATAT TATAT TATAT TATATT ATATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATA-T -TATAT TATAT TATA
42795840 ATGATAAAAT
Statistics
Matches: 70, Mismatches: 7, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
4 11 0.16
5 49 0.70
6 6 0.09
7 4 0.06
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (5 bp):
TATAT
Found at i:42795785 original size:27 final size:25
Alignment explanation
Indices: 42795752--42795841 Score: 94
Period size: 27 Copynumber: 3.4 Consensus size: 25
42795742 AAGTTAATAT
42795752 ATATTATAATATTATAATATTATATCTT
1 ATATTATAATA-TAT-ATATTATAT-TT
42795780 A-ATTATTAAGTATATATATTATA-TT
1 ATATTA-TAA-TATATATATTATATTT
*
42795805 ATATTATATTATATTATATTATATATT
1 ATATTATAATATA-TATATTATAT-TT
42795832 ATATTATAAT
1 ATATTATAAT
42795842 GATAAAATAA
Statistics
Matches: 54, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
24 4 0.07
25 14 0.26
26 4 0.07
27 23 0.43
28 7 0.13
29 2 0.04
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (25 bp):
ATATTATAATATATATATTATATTT
Found at i:42801804 original size:17 final size:17
Alignment explanation
Indices: 42801782--42801848 Score: 57
Period size: 17 Copynumber: 3.7 Consensus size: 17
42801772 TTGAATGTTA
42801782 TGTGATTATATGAGTAT
1 TGTGATTATATGAGTAT
*
42801799 TGTGATATATGCTTGAATGT-T
1 TGTGAT-TAT--ATG-A-GTAT
42801820 ATGTGATTATATGAGTAT
1 -TGTGATTATATGAGTAT
42801838 TGTGA-TATATG
1 TGTGATTATATG
42801849 CTTAAATGTT
Statistics
Matches: 41, Mismatches: 2, Indels: 15
0.71 0.03 0.26
Matches are distributed among these distances:
16 6 0.15
17 13 0.32
18 5 0.12
19 2 0.05
20 2 0.05
21 5 0.12
22 8 0.20
ACGTcount: A:0.28, C:0.01, G:0.24, T:0.46
Consensus pattern (17 bp):
TGTGATTATATGAGTAT
Found at i:42801809 original size:39 final size:39
Alignment explanation
Indices: 42801753--42801888 Score: 186
Period size: 39 Copynumber: 3.5 Consensus size: 39
42801743 AACATGTTTT
* * *
42801753 TGAGTATTATGACATATGATTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
42801792 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
* *
42801831 TGAGTATTGTGATATATGCTTAAATGTTATGTG--CATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
* * *
42801868 TGTGTAATGTGATAGATGCTT
1 TGAGTATTGTGATATATGCTT
42801889 AAAAGTGAAT
Statistics
Matches: 89, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
37 21 0.24
39 68 0.76
ACGTcount: A:0.29, C:0.04, G:0.23, T:0.44
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
Found at i:42804272 original size:17 final size:16
Alignment explanation
Indices: 42804245--42804317 Score: 56
Period size: 17 Copynumber: 4.2 Consensus size: 16
42804235 CAAAGATTGC
42804245 AAAACTATAAAAAAATAT
1 AAAA-TATAAAAAAAT-T
**
42804263 AAAATATAAAATTATT
1 AAAATATAAAAAAATT
*
42804279 CAAAATATTATAAAAATT
1 -AAAATA-TAAAAAAATT
**
42804297 AAAATATGTAAAAATT
1 AAAATATAAAAAAATT
42804313 CAAAA
1 -AAAA
42804318 AAAATGTTAA
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
16 10 0.22
17 25 0.54
18 11 0.24
ACGTcount: A:0.66, C:0.04, G:0.01, T:0.29
Consensus pattern (16 bp):
AAAATATAAAAAAATT
Found at i:42809384 original size:29 final size:29
Alignment explanation
Indices: 42809351--42809419 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
42809341 TAGGGATAGG
42809351 AAATTTCATTAGGATATCTTAAG-TTAATT
1 AAATTTCATTAGGATAT-TTAAGATTAATT
* * *
42809380 AAATTCCATTAGGTTATTTTAGATTAATT
1 AAATTTCATTAGGATATTTAAGATTAATT
42809409 -AATTTCATTAG
1 AAATTTCATTAG
42809420 TTTAATTAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 14 0.40
29 21 0.60
ACGTcount: A:0.36, C:0.07, G:0.10, T:0.46
Consensus pattern (29 bp):
AAATTTCATTAGGATATTTAAGATTAATT
Found at i:42821616 original size:47 final size:47
Alignment explanation
Indices: 42821559--42821668 Score: 157
Period size: 47 Copynumber: 2.3 Consensus size: 47
42821549 AAGGAAGACG
* *
42821559 AAGTGACAGTTTATCTACACAAGTGGTGGCTTGTCCACAATATTATA
1 AAGTGGCAGTTTATCTACAAAAGTGGTGGCTTGTCCACAATATTATA
* * * *
42821606 AAGTGGCAGTTTATCTGCAAAATTGGTGGCTTGTCCATAATATTATT
1 AAGTGGCAGTTTATCTACAAAAGTGGTGGCTTGTCCACAATATTATA
*
42821653 AAGTGGTAGTTTATCT
1 AAGTGGCAGTTTATCT
42821669 TCATTACTGT
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (47 bp):
AAGTGGCAGTTTATCTACAAAAGTGGTGGCTTGTCCACAATATTATA
Found at i:42826476 original size:27 final size:27
Alignment explanation
Indices: 42826444--42826592 Score: 163
Period size: 27 Copynumber: 5.5 Consensus size: 27
42826434 ACCCTGATCT
* * *
42826444 ACAGCTTGTGTGAGTAACCCAAATATC
1 ACAGCTTGTGTGAGCAATCTAAATATC
*
42826471 ACAGCTTGTGTAAGCAATCTAAATATC
1 ACAGCTTGTGTGAGCAATCTAAATATC
* * * *
42826498 ACAACTTGTGTGAGTAATATAAATATT
1 ACAGCTTGTGTGAGCAATCTAAATATC
*
42826525 ACAGCTTGTGTGAGCAATCTAAATATT
1 ACAGCTTGTGTGAGCAATCTAAATATC
* * * * *
42826552 ACAACTTGTGTGATCAATTTAAAGATT
1 ACAGCTTGTGTGAGCAATCTAAATATC
*
42826579 ACAGCTTGTATGAG
1 ACAGCTTGTGTGAG
42826593 TGGATCTAAA
Statistics
Matches: 103, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 103 1.00
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (27 bp):
ACAGCTTGTGTGAGCAATCTAAATATC
Found at i:42826580 original size:54 final size:54
Alignment explanation
Indices: 42826448--42826592 Score: 184
Period size: 54 Copynumber: 2.7 Consensus size: 54
42826438 TGATCTACAG
*** * * *
42826448 CTTGTGTGAGTAACCCAAATATCACAGCTTGTGTAAGCAATCTAAATATCACAA
1 CTTGTGTGAGTAATATAAAGATTACAGCTTGTGTGAGCAATCTAAATATCACAA
* *
42826502 CTTGTGTGAGTAATATAAATATTACAGCTTGTGTGAGCAATCTAAATATTACAA
1 CTTGTGTGAGTAATATAAAGATTACAGCTTGTGTGAGCAATCTAAATATCACAA
* *
42826556 CTTGTGTGA-TCAATTTAAAGATTACAGCTTGTATGAG
1 CTTGTGTGAGT-AATATAAAGATTACAGCTTGTGTGAG
42826593 TGGATCTAAA
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
53 1 0.01
54 80 0.99
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.33
Consensus pattern (54 bp):
CTTGTGTGAGTAATATAAAGATTACAGCTTGTGTGAGCAATCTAAATATCACAA
Found at i:42826587 original size:81 final size:81
Alignment explanation
Indices: 42826443--42826593 Score: 194
Period size: 81 Copynumber: 1.9 Consensus size: 81
42826433 AACCCTGATC
* * * *
42826443 TACAGCTTGTGTGAGTAACCCAAATATCACAGCTTGTGTAAGCAATCTAAATATCACAACTTGTG
1 TACAGCTTGTGTGAGCAACCCAAATATCACAACTTGTGTAAGCAATCTAAAGATCACAACTTGTA
42826508 TGAGTAATATAAATAT
66 TGAGTAATATAAATAT
* * * * * * * *
42826524 TACAGCTTGTGTGAGCAATCTAAATATTACAACTTGTGTGATCAATTTAAAGATTACAGCTTGTA
1 TACAGCTTGTGTGAGCAACCCAAATATCACAACTTGTGTAAGCAATCTAAAGATCACAACTTGTA
42826589 TGAGT
66 TGAGT
42826594 GGATCTAAAT
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
81 58 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (81 bp):
TACAGCTTGTGTGAGCAACCCAAATATCACAACTTGTGTAAGCAATCTAAAGATCACAACTTGTA
TGAGTAATATAAATAT
Found at i:42835429 original size:197 final size:194
Alignment explanation
Indices: 42835092--42835484 Score: 723
Period size: 197 Copynumber: 2.0 Consensus size: 194
42835082 ATTAAATTAA
42835092 GATTTTTATTTTGGGAAATAGAAAAATAAATATTGGGTTAGATTGAATTATAAAGTACTTGGTTA
1 GATTTTTATTTTGGGAAATAGAAAAATAAATATTGGGTTAGATTGAATTATAAAGTACTTGGTTA
* *
42835157 AAATTCTGAGTACTTTTAATTAGACTCGATATGGGAGAGGCCCAAAAGCCCCTTTTTTTAAAGAG
66 AAAGTCTGAGTACTTTTAATTAGACTCGATATGGGAGAGGCCCAAAAGCCCCTTTGTTTAAAGAG
*
42835222 AGGGACGACAAACCCTAGTTTGTTTAACTAGGTTTGTCACCCCACCTAATCCTTCTTAGACTAG
131 AGGGACGACAAACCCTAGTTTGTTTAACTAGGTTTGTCACCCCACCTAATCCTACTTAGACTAG
42835286 GATTTTTATTTTGGGAAATAGAAAAATAAATATTGGGTTAGATTGAATTATAAAGTACTTGGTTA
1 GATTTTTATTTTGGGAAATAGAAAAATAAATATTGGGTTAGATTGAATTATAAAGTACTTGGTTA
42835351 AAAGTCTAAGGAGTACTTTTAATTAGACTCGATATGGGAGAGGCCCAAAAGCCCCTTTGTTTAAA
66 AAAGTCT---GAGTACTTTTAATTAGACTCGATATGGGAGAGGCCCAAAAGCCCCTTTGTTTAAA
*
42835416 GAGAGGGACGACAAACCCTAGTTTGTTTAACTAGGTTTGTCACCCTACCTAATCCTACTTAGACT
128 GAGAGGGACGACAAACCCTAGTTTGTTTAACTAGGTTTGTCACCCCACCTAATCCTACTTAGACT
42835481 AG
193 AG
42835483 GA
1 GA
42835485 GTTCGTTTTT
Statistics
Matches: 192, Mismatches: 4, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
194 71 0.37
197 121 0.63
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.33
Consensus pattern (194 bp):
GATTTTTATTTTGGGAAATAGAAAAATAAATATTGGGTTAGATTGAATTATAAAGTACTTGGTTA
AAAGTCTGAGTACTTTTAATTAGACTCGATATGGGAGAGGCCCAAAAGCCCCTTTGTTTAAAGAG
AGGGACGACAAACCCTAGTTTGTTTAACTAGGTTTGTCACCCCACCTAATCCTACTTAGACTAG
Found at i:42837568 original size:20 final size:19
Alignment explanation
Indices: 42837543--42837591 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
42837533 GCAAAGATGA
42837543 GAAATGAAATATGAAATGGT
1 GAAATGAAATATG-AATGGT
* *
42837563 GAAATGAAATGTGAATTGT
1 GAAATGAAATATGAATGGT
*
42837582 GAAATAAAAT
1 GAAATGAAAT
42837592 CAAGTATTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 14 0.54
20 12 0.46
ACGTcount: A:0.51, C:0.00, G:0.22, T:0.27
Consensus pattern (19 bp):
GAAATGAAATATGAATGGT
Found at i:42843971 original size:17 final size:19
Alignment explanation
Indices: 42843939--42843977 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
42843929 AAAATGAATT
42843939 TAATATATATGTTATAGAA
1 TAATATATATGTTATAGAA
*
42843958 TAATA-ATA-GTTATATAA
1 TAATATATATGTTATAGAA
42843975 TAA
1 TAA
42843978 AAACAAAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 11 0.58
18 3 0.16
19 5 0.26
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (19 bp):
TAATATATATGTTATAGAA
Found at i:42848282 original size:2 final size:2
Alignment explanation
Indices: 42848275--42848306 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
42848265 GTTTAGGGTG
42848275 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
42848307 ACTCCCTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:42848501 original size:24 final size:24
Alignment explanation
Indices: 42848474--42848522 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
42848464 TCATCTTTAA
42848474 TTATGCTTAGTTTTAACTGTTTCC
1 TTATGCTTAGTTTTAACTGTTTCC
* **
42848498 TTATTCTTAGTTTTAGTTGTTTCC
1 TTATGCTTAGTTTTAACTGTTTCC
42848522 T
1 T
42848523 ACATTTTTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.14, C:0.14, G:0.12, T:0.59
Consensus pattern (24 bp):
TTATGCTTAGTTTTAACTGTTTCC
Found at i:42850705 original size:9 final size:9
Alignment explanation
Indices: 42850693--42850783 Score: 58
Period size: 10 Copynumber: 9.7 Consensus size: 9
42850683 AAAAATTAGA
42850693 AAAAAATAT
1 AAAAAATAT
*
42850702 -AAAAATCGT
1 AAAAAAT-AT
42850711 AAAAAATAT
1 AAAAAATAT
*
42850720 AAAAAATTCT
1 AAAAAA-TAT
**
42850730 AAAATTTTAT
1 AAAA-AATAT
* *
42850740 AAAAATTCT
1 AAAAAATAT
42850749 AAAAATATAT
1 AAAAA-ATAT
*
42850759 ATAAAATAT
1 AAAAAATAT
*
42850768 ATAGAAATAT
1 A-AAAAATAT
42850778 AAAAAA
1 AAAAAA
42850784 ATTATAAATT
Statistics
Matches: 62, Mismatches: 14, Indels: 12
0.70 0.16 0.14
Matches are distributed among these distances:
8 6 0.10
9 25 0.40
10 31 0.50
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.29
Consensus pattern (9 bp):
AAAAAATAT
Found at i:42850725 original size:19 final size:18
Alignment explanation
Indices: 42850693--42850783 Score: 76
Period size: 19 Copynumber: 4.8 Consensus size: 18
42850683 AAAAATTAGA
42850693 AAAAAATAT-AAAAATCGT
1 AAAAAATATAAAAAATC-T
42850711 AAAAAATATAAAAAATTCT
1 AAAAAATATAAAAAA-TCT
** *
42850730 AAAATTTTATAAAAATTCT
1 AAAA-AATATAAAAAATCT
* *
42850749 AAAAATATATATAAAATAT
1 AAAAA-ATATAAAAAATCT
*
42850768 ATAGAAATATAAAAAA
1 A-AAAAATATAAAAAA
42850784 ATTATAAATT
Statistics
Matches: 58, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
18 9 0.16
19 36 0.62
20 13 0.22
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.29
Consensus pattern (18 bp):
AAAAAATATAAAAAATCT
Found at i:42850789 original size:19 final size:18
Alignment explanation
Indices: 42850713--42850791 Score: 61
Period size: 19 Copynumber: 4.2 Consensus size: 18
42850703 AAAATCGTAA
*
42850713 AAAATAT-AAAAAATTCT
1 AAAATATAAAAAAATTAT
* * *
42850730 AAAATTTTATAAAAATTCT
1 AAAA-TATAAAAAAATTAT
*
42850749 AAAAATATATATAAAATATAT
1 -AAAATATA-AAAAAAT-TAT
42850770 AGAAATATAAAAAAATTAT
1 A-AAATATAAAAAAATTAT
42850789 AAA
1 AAA
42850792 TTTTTATAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
17 4 0.08
18 4 0.08
19 16 0.33
20 16 0.33
21 9 0.18
ACGTcount: A:0.65, C:0.03, G:0.01, T:0.32
Consensus pattern (18 bp):
AAAATATAAAAAAATTAT
Found at i:42850797 original size:59 final size:59
Alignment explanation
Indices: 42850710--42850839 Score: 153
Period size: 59 Copynumber: 2.2 Consensus size: 59
42850700 ATAAAAATCG
* *
42850710 TAAA-AAATAT-AAAAAATTCTAAAATTTTATAAAAATTC-T-A-AAAATATATATAAAATA
1 TAAAGAAATATAAAAAAATTATAAAATTTTAT--AAATTCGTAAGAAAAT-TATACAAAATA
* * *
42850767 TATAGAAATATAAAAAAATTATAAATTTTTATAAATTCGTAAGAAAATTATACAAAATG
1 TAAAGAAATATAAAAAAATTATAAAATTTTATAAATTCGTAAGAAAATTATACAAAATA
42850826 TAAAGAAATATAAA
1 TAAAGAAATATAAA
42850840 TTTCGTAAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
57 9 0.15
58 7 0.11
59 41 0.66
60 5 0.08
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.32
Consensus pattern (59 bp):
TAAAGAAATATAAAAAAATTATAAAATTTTATAAATTCGTAAGAAAATTATACAAAATA
Found at i:42851088 original size:25 final size:25
Alignment explanation
Indices: 42851011--42851088 Score: 65
Period size: 25 Copynumber: 3.1 Consensus size: 25
42851001 TTTTTTTATG
42851011 ATTTTTATAA-AA-TTTTACAATTTTT
1 ATTTTT-TAATAATTTTTA-AATTTTT
* * *
42851036 ATTTTTT-CT-ATTTTATAAAAATTCT
1 ATTTTTTAATAATTTT-T-AAATTTTT
42851061 ATTTTTTAATAATTTTTAAATTTTT
1 ATTTTTTAATAATTTTTAAATTTTT
42851086 ATT
1 ATT
42851089 AAAAATTAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
23 1 0.02
24 4 0.10
25 28 0.68
26 3 0.07
27 5 0.12
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (25 bp):
ATTTTTTAATAATTTTTAAATTTTT
Found at i:42851102 original size:19 final size:19
Alignment explanation
Indices: 42851076--42851124 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
42851066 TTAATAATTT
42851076 TTAA-ATTTTTAT-TAAAAA
1 TTAATATTTTT-TCTAAAAA
*
42851094 TTAATATTTTTTCTAAAAT
1 TTAATATTTTTTCTAAAAA
*
42851113 TTATTATTTTTT
1 TTAATATTTTTT
42851125 ATAATCTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 5 0.19
19 22 0.81
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
TTAATATTTTTTCTAAAAA
Found at i:42851254 original size:90 final size:91
Alignment explanation
Indices: 42851159--42851332 Score: 217
Period size: 91 Copynumber: 1.9 Consensus size: 91
42851149 AGAGCAGGGA
* * * *
42851159 CTTAATTAC-ATTTTTGAAAAATTTTGA-GTGTCTTTTTTATGCATTTTGAAAGTTCAAGTACCC
1 CTTAATTACTATTTTTGAAAAAGTTTGATG-GCCTTTTTAATGCATTTTAAAAGTTCAAGTACCC
* **
42851222 AATTGAGTGGAAAAAGAAAAGCAATGG
65 AATTGAATACAAAAAGAAAAGCAATGG
* * * * *
42851249 CTTAATTGCTTTTTTTGAAGAAGTTTGATGGCCTTTTTAATGCATTTTAAAAGTTCAAGTGCTCA
1 CTTAATTACTATTTTTGAAAAAGTTTGATGGCCTTTTTAATGCATTTTAAAAGTTCAAGTACCCA
42851314 ATTGAATACAAAAAGAAAA
66 ATTGAATACAAAAAGAAAA
42851333 AAGAAAGGAC
Statistics
Matches: 70, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
90 8 0.11
91 61 0.87
92 1 0.01
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.37
Consensus pattern (91 bp):
CTTAATTACTATTTTTGAAAAAGTTTGATGGCCTTTTTAATGCATTTTAAAAGTTCAAGTACCCA
ATTGAATACAAAAAGAAAAGCAATGG
Found at i:42851353 original size:91 final size:90
Alignment explanation
Indices: 42851190--42851356 Score: 210
Period size: 91 Copynumber: 1.8 Consensus size: 90
42851180 TTTTGAGTGT
* * * ** *
42851190 CTTTTTTATGCATTTTGAAAGTTCAAGTACCCAATTGAGTGGAAAAAGAAAAGCAATGGCTTAAT
1 CTTTTTAATGCATTTTAAAAGTTCAAGTACCCAATTGAATACAAAAAGAAAAGCAAAGGCTTAAT
42851255 TGCTTTTTTTGAAGAAGTTTGATGGC
66 T-CTTTTTTTGAAGAAGTTTGATGGC
* *
42851281 CTTTTTAATGCATTTTAAAAGTTCAAGTGCTCAATTGAATACAAAAAGAAAAAAG-AAAGGACTT
1 CTTTTTAATGCATTTTAAAAGTTCAAGTACCCAATTGAATACAAAAAG--AAAAGCAAAGG-CTT
*
42851345 AATTTTTTTTTT
63 AATTCTTTTTTT
42851357 AAGTTTTTTA
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
91 41 0.64
92 11 0.17
93 12 0.19
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.37
Consensus pattern (90 bp):
CTTTTTAATGCATTTTAAAAGTTCAAGTACCCAATTGAATACAAAAAGAAAAGCAAAGGCTTAAT
TCTTTTTTTGAAGAAGTTTGATGGC
Found at i:42852049 original size:17 final size:18
Alignment explanation
Indices: 42852008--42852049 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
42851998 AACTGTTGTT
*
42852008 TTTTCTTATTGTTTTTTA
1 TTTTCTTATTGTTTTCTA
* *
42852026 CTCTCTT-TTGTTTTCTA
1 TTTTCTTATTGTTTTCTA
42852043 TTTTCTT
1 TTTTCTT
42852050 GTTATTTTTT
Statistics
Matches: 19, Mismatches: 5, Indels: 1
0.76 0.20 0.04
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.07, C:0.14, G:0.05, T:0.74
Consensus pattern (18 bp):
TTTTCTTATTGTTTTCTA
Found at i:42857776 original size:92 final size:95
Alignment explanation
Indices: 42857600--42857776 Score: 236
Period size: 92 Copynumber: 1.9 Consensus size: 95
42857590 TATATATTAG
* * *
42857600 ATTTCTAAATTAGTTTTAATAGTAGTATGTATAAATTAGTTCAATGTTTTATTATTTCAATTTAA
1 ATTTCTAAATTACTTTTAATAGTACTA-GTAT-AATTAATTCAATGTTTTATTATTTCAATTTAA
*
42857665 TATTATAGTGTTTTCTTTTATTTTTGTTCCAA
64 TATTATAGTGTTTTATTTTATTTTTGTTCCAA
*
42857697 ATTTCTATATTACTTTTAATAGTACTA-TAT-ATTAATTC-ATGTTTTATTAATTT-AATTTAAT
1 ATTTCTAAATTACTTTTAATAGTACTAGTATAATTAATTCAATGTTTTATT-ATTTCAATTTAAT
* *
42857758 ATTATATTTTTTTATTTTA
65 ATTATAGTGTTTTATTTTA
42857777 GCTCCAAATT
Statistics
Matches: 72, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
92 34 0.47
93 11 0.15
95 3 0.04
97 24 0.33
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (95 bp):
ATTTCTAAATTACTTTTAATAGTACTAGTATAATTAATTCAATGTTTTATTATTTCAATTTAATA
TTATAGTGTTTTATTTTATTTTTGTTCCAA
Found at i:42857822 original size:87 final size:89
Alignment explanation
Indices: 42857629--42857795 Score: 214
Period size: 87 Copynumber: 1.9 Consensus size: 89
42857619 TAGTAGTATG
* * * *
42857629 TATAAATTAGTTCAATGTTTTATTATTTCAATTTAATATTATAGTGTTTTCTTTTATTTTTGTTC
1 TATATATTAATTC-ATGTTTTATTATTTCAATTTAATATTATA--G-TTTCTTTTATTTTAGCTC
*
42857694 CAAATTTCTATATTACTTTTAATAGTAC
62 CAAATTTCTATAGTACTTTTAATAGTAC
42857722 TATATATTAATTCATGTTTTATTAATTT-AATTTAATATTATA-TTT-TTTTATTTTAGCTCCAA
1 TATATATTAATTCATGTTTTATT-ATTTCAATTTAATATTATAGTTTCTTTTATTTTAGCTCCAA
*
42857784 ATTTTTATAGTA
65 ATTTCTATAGTA
42857796 TATTTGCTTG
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
87 25 0.37
88 3 0.04
92 24 0.36
93 15 0.22
ACGTcount: A:0.31, C:0.07, G:0.05, T:0.57
Consensus pattern (89 bp):
TATATATTAATTCATGTTTTATTATTTCAATTTAATATTATAGTTTCTTTTATTTTAGCTCCAAA
TTTCTATAGTACTTTTAATAGTAC
Found at i:42860228 original size:20 final size:20
Alignment explanation
Indices: 42860203--42860243 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
42860193 AATACGTCCT
42860203 AACACTTATAAAAGATATAA
1 AACACTTATAAAAGATATAA
*
42860223 AACACTTATAAAAGGTATAA
1 AACACTTATAAAAGATATAA
42860243 A
1 A
42860244 CTAGTTAGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.59, C:0.10, G:0.07, T:0.24
Consensus pattern (20 bp):
AACACTTATAAAAGATATAA
Found at i:42860529 original size:21 final size:21
Alignment explanation
Indices: 42860503--42860558 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
42860493 AATAGCGGTG
*
42860503 GCGGTGAGATTAGTTACCGTA
1 GCGGTGAGATTAGATACCGTA
* *
42860524 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACCGTA
**
42860545 GCAATGAGATTAGA
1 GCGGTGAGATTAGA
42860559 AACAACGATG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.29, C:0.11, G:0.34, T:0.27
Consensus pattern (21 bp):
GCGGTGAGATTAGATACCGTA
Found at i:42860964 original size:14 final size:14
Alignment explanation
Indices: 42860945--42860986 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
42860935 GTTTGCCAGT
42860945 AAAATGTTTTCTGG
1 AAAATGTTTTCTGG
*
42860959 AAAATGATTTACT-G
1 AAAATG-TTTTCTGG
*
42860973 AAAATATTTTCTGG
1 AAAATGTTTTCTGG
42860987 TATTTGTATG
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
13 5 0.22
14 13 0.57
15 5 0.22
ACGTcount: A:0.36, C:0.07, G:0.17, T:0.40
Consensus pattern (14 bp):
AAAATGTTTTCTGG
Found at i:42864895 original size:6 final size:6
Alignment explanation
Indices: 42864884--42864927 Score: 61
Period size: 6 Copynumber: 7.2 Consensus size: 6
42864874 TTTGCAACCC
**
42864884 AAGGGG AAGGGG AAATGG AAGGGG AAGGGG AAGGGG AAAGGGG A
1 AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG -AAGGGG A
42864928 GAAAAAGGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
6 27 0.82
7 6 0.18
ACGTcount: A:0.39, C:0.00, G:0.59, T:0.02
Consensus pattern (6 bp):
AAGGGG
Found at i:42865823 original size:17 final size:17
Alignment explanation
Indices: 42865803--42865836 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
42865793 TCATTTTAGA
42865803 GAATATAAAACATATTC
1 GAATATAAAACATATTC
42865820 GAATATAAAACATATTC
1 GAATATAAAACATATTC
42865837 CTTACATGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.29
Consensus pattern (17 bp):
GAATATAAAACATATTC
Found at i:42868713 original size:13 final size:14
Alignment explanation
Indices: 42868685--42868716 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
42868675 AGTCAAAGAA
42868685 GACAAAAAACACTT
1 GACAAAAAACACTT
42868699 GACAAAAAACA-TT
1 GACAAAAAACACTT
42868712 GACAA
1 GACAA
42868717 GTGTTACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.59, C:0.19, G:0.09, T:0.12
Consensus pattern (14 bp):
GACAAAAAACACTT
Found at i:42869408 original size:79 final size:81
Alignment explanation
Indices: 42869311--42869462 Score: 263
Period size: 80 Copynumber: 1.9 Consensus size: 81
42869301 CATCGTTTCT
*
42869311 TTGTAAAAAATTTTCCTTTACATCTCTATCT-TTTTTGTAATAAAATCTATTGTCTTCCGCATAT
1 TTGTAAAAAATTTTCCTTTACATCTCTATCTATTTTTATAATAAAATCTATTGTCTTCCGCATAT
42869375 CCTTATCTCCTAGTAA
66 CCTTATCTCCTAGTAA
* *
42869391 TTGT-AAAAATTTTCCTTTACTTCTCTATCTATTTTTATAATAAAATCTATTGTCTTCCGCATCT
1 TTGTAAAAAATTTTCCTTTACATCTCTATCTATTTTTATAATAAAATCTATTGTCTTCCGCATAT
42869455 CCTTATCT
66 CCTTATCT
42869463 TTGTGTAATT
Statistics
Matches: 68, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
79 25 0.37
80 43 0.63
ACGTcount: A:0.26, C:0.20, G:0.05, T:0.48
Consensus pattern (81 bp):
TTGTAAAAAATTTTCCTTTACATCTCTATCTATTTTTATAATAAAATCTATTGTCTTCCGCATAT
CCTTATCTCCTAGTAA
Found at i:42872283 original size:21 final size:21
Alignment explanation
Indices: 42872259--42872308 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
42872249 TTTTAACCCA
*
42872259 TTAA-AATGATAAAAATTTAAT
1 TTAATAAT-ATAAAAATTGAAT
*
42872280 TTAATAATTTAAAAATTGAAT
1 TTAATAATATAAAAATTGAAT
42872301 TTATATAA
1 TTA-ATAA
42872309 ACTATTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 18 0.72
22 7 0.28
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (21 bp):
TTAATAATATAAAAATTGAAT
Found at i:42875787 original size:24 final size:24
Alignment explanation
Indices: 42875754--42875801 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
42875744 GATCACGAAC
*
42875754 AAGCTCGTTTATTGGCTCGTTTAT
1 AAGCTCGTTTATTGACTCGTTTAT
* *
42875778 AAGCTTGTTTATTGACTTGTTTAT
1 AAGCTCGTTTATTGACTCGTTTAT
42875802 TTATTAATGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.19, C:0.12, G:0.19, T:0.50
Consensus pattern (24 bp):
AAGCTCGTTTATTGACTCGTTTAT
Found at i:42876023 original size:12 final size:12
Alignment explanation
Indices: 42876008--42876049 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
42875998 TTATGTTCAT
*
42876008 ATGTTCATGAAC
1 ATGTTCGTGAAC
**
42876020 ATGTTCGTTTA-
1 ATGTTCGTGAAC
42876031 ATGTTCGTGAAC
1 ATGTTCGTGAAC
42876043 ATGTTCG
1 ATGTTCG
42876050 ATTAAGTTAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
11 9 0.38
12 15 0.62
ACGTcount: A:0.24, C:0.14, G:0.21, T:0.40
Consensus pattern (12 bp):
ATGTTCGTGAAC
Found at i:42876036 original size:23 final size:23
Alignment explanation
Indices: 42876008--42876071 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 23
42875998 TTATGTTCAT
*
42876008 ATGTTCATGAACATGTTCGTTTA
1 ATGTTCATGAACATGTTCGATTA
*
42876031 ATGTTCGTGAACATGTTCGATTA
1 ATGTTCATGAACATGTTCGATTA
*
42876054 A-GTTAAATGAACATGTTC
1 ATGTT-CATGAACATGTTC
42876072 TTGAACATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
22 3 0.08
23 33 0.92
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (23 bp):
ATGTTCATGAACATGTTCGATTA
Found at i:42878270 original size:17 final size:18
Alignment explanation
Indices: 42878238--42878271 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
42878228 AATAAATCAA
*
42878238 GAAATTTTTGGAAAATAT
1 GAAAATTTTGGAAAATAT
42878256 GAAAATTTT-GAAAATA
1 GAAAATTTTGGAAAATA
42878272 GGGGTCACAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (18 bp):
GAAAATTTTGGAAAATAT
Found at i:42879252 original size:39 final size:39
Alignment explanation
Indices: 42879209--42879284 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
42879199 GAGTGCTTAC
** *
42879209 AGGGGCATGAATGTGCTTTAAGGACACCAAAGTGCAAGA
1 AGGGGCACAAATGTGATTTAAGGACACCAAAGTGCAAGA
* *
42879248 AGGGGCACAAATGTGATTTAGGGGCACCAAAGTGCAA
1 AGGGGCACAAATGTGATTTAAGGACACCAAAGTGCAA
42879285 ATAAAGGCAC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.36, C:0.16, G:0.32, T:0.17
Consensus pattern (39 bp):
AGGGGCACAAATGTGATTTAAGGACACCAAAGTGCAAGA
Done.