Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 47 of 240
Found at i:16124485 original size:12 final size:12
Alignment explanation
Indices: 16124468--16124515 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
16124458 ATAAATACCA
16124468 AAAAATTATTTT
1 AAAAATTATTTT
*
16124480 AAAAATTA---A
1 AAAAATTATTTT
*
16124489 AAAAAGTATTTT
1 AAAAATTATTTT
16124501 AAAAA-TATTTT
1 AAAAATTATTTT
16124512 AAAA
1 AAAA
16124516 TTAAAAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
9 7 0.23
11 10 0.33
12 13 0.43
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (12 bp):
AAAAATTATTTT
Found at i:16124493 original size:21 final size:21
Alignment explanation
Indices: 16124467--16124506 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
16124457 AATAAATACC
*
16124467 AAAAAATTATTTTAAAAATTA
1 AAAAAAGTATTTTAAAAATTA
16124488 AAAAAAGTATTTTAAAAAT
1 AAAAAAGTATTTTAAAAAT
16124507 ATTTTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (21 bp):
AAAAAAGTATTTTAAAAATTA
Found at i:16124509 original size:11 final size:11
Alignment explanation
Indices: 16124468--16124555 Score: 55
Period size: 11 Copynumber: 8.4 Consensus size: 11
16124458 ATAAATACCA
16124468 AAAAATTATTTT
1 AAAAA-TATTTT
**
16124480 -AAAA-ATTAA
1 AAAAATATTTT
16124489 AAAAAGTATTTT
1 AAAAA-TATTTT
16124501 AAAAATATTTT
1 AAAAATATTTT
*
16124512 --AAA-A-TTA
1 AAAAATATTTT
* *
16124519 AAAAATA-ATA
1 AAAAATATTTT
16124529 AAAAAGTATTTT
1 AAAAA-TATTTT
16124541 AAAAATATTTT
1 AAAAATATTTT
16124552 AAAA
1 AAAA
16124556 TTAAAAATAT
Statistics
Matches: 60, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
7 2 0.03
8 1 0.02
9 9 0.15
10 12 0.20
11 22 0.37
12 14 0.23
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:16124521 original size:17 final size:17
Alignment explanation
Indices: 16124499--16124585 Score: 66
Period size: 17 Copynumber: 4.8 Consensus size: 17
16124489 AAAAAGTATT
*
16124499 TTAAAAATATTTTAAAA
1 TTAAAAATATTTAAAAA
**
16124516 TTAAAAAATAATAAAAAAGTA
1 TT-AAAAAT-ATTTAAAA--A
*
16124537 TTTTAAAAATATTTTAAAA
1 -T-TAAAAATATTTAAAAA
16124556 TTAAAAATATTTAAAAA
1 TTAAAAATATTTAAAAA
* *
16124573 ATAAATATATTTA
1 TTAAAAATATTTA
16124586 TTATATCGGG
Statistics
Matches: 55, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
17 28 0.51
18 7 0.13
19 6 0.11
21 6 0.11
22 7 0.13
23 1 0.02
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (17 bp):
TTAAAAATATTTAAAAA
Found at i:16124571 original size:40 final size:39
Alignment explanation
Indices: 16124480--16124573 Score: 152
Period size: 40 Copynumber: 2.4 Consensus size: 39
16124470 AAATTATTTT
*
16124480 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTA
1 AAAAATTTAAAAAAGTATTTTAAAAATATTTTAAAATTA
*
16124519 AAAAATAATAAAAAAGTATTTTAAAAATATTTTAAAATTA
1 AAAAAT-TTAAAAAAGTATTTTAAAAATATTTTAAAATTA
16124559 AAAATATTTAAAAAA
1 AAAA-ATTTAAAAAA
16124574 TAAATATATT
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
39 6 0.12
40 42 0.84
41 2 0.04
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (39 bp):
AAAAATTTAAAAAAGTATTTTAAAAATATTTTAAAATTA
Found at i:16127780 original size:43 final size:43
Alignment explanation
Indices: 16127654--16127979 Score: 288
Period size: 43 Copynumber: 7.6 Consensus size: 43
16127644 TATATTTTTT
* * * * * *
16127654 TAAAGGTTAT-GTTTTTAGCGGCGTTTTTGCGAGAAGCGCCGG
1 TAAAGGTTATGGTCTTTAGCAGCGTTTGTGGGAAAAGCGCCGC
* ** ** *
16127696 TAAAAGTTTAT--TCTTTAGTGGCGTTTGTGATAAAAACGCCGC
1 T-AAAGGTTATGGTCTTTAGCAGCGTTTGTGGGAAAAGCGCCGC
* * * *
16127738 TAAATGTTATGTTTTTTAGCAGC-TCTTGTGGGAAAAGTGCCGC
1 TAAAGGTTATGGTCTTTAGCAGCGT-TTGTGGGAAAAGCGCCGC
* * *
16127781 TAAAGGTCATGGTCTTTAGC-GACGTCTGTGGGAGAAGCGCCGC
1 TAAAGGTTATGGTCTTTAGCAG-CGTTTGTGGGAAAAGCGCCGC
* * *
16127824 TAAAGGTTATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGTCGC
1 TAAAGGTTATGGTCTTTAGCAGCGTTTGTGGGAAAAGCGCCGC
* * *
16127867 TAAAGGTCATGGTCTTTAGCAGCGTTTGTGGGAGAAGTGCCGC
1 TAAAGGTTATGGTCTTTAGCAGCGTTTGTGGGAAAAGCGCCGC
* * *
16127910 TAAATGTCT-TAGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
1 TAAAGGT-TATGGTCTTTAGCAGCGTTTGTGGGAAAAGCGCCGC
* *
16127953 TAAAGGTCT-TGTTCTTTAGCGGCGTTT
1 TAAAGGT-TATGGTCTTTAGCAGCGTTT
16127980 ATTTCTAAAA
Statistics
Matches: 231, Mismatches: 45, Indels: 15
0.79 0.15 0.05
Matches are distributed among these distances:
41 7 0.03
42 27 0.12
43 195 0.84
44 2 0.01
ACGTcount: A:0.21, C:0.16, G:0.30, T:0.33
Consensus pattern (43 bp):
TAAAGGTTATGGTCTTTAGCAGCGTTTGTGGGAAAAGCGCCGC
Found at i:16127853 original size:129 final size:128
Alignment explanation
Indices: 16127684--16127979 Score: 387
Period size: 129 Copynumber: 2.3 Consensus size: 128
16127674 GCGTTTTTGC
* * * * * * *
16127684 GAGAAGCGCCGGTAAAAGTTTATTCTTTAGTGGCGTTTGTGATAAAAACGCCGCTAAATGTTATG
1 GAGAAGCGCCGCTAAAGGTTTGTTCTTTAGCGGCGTTTGTGAGAAAAACGCCGCTAAAGGTCATG
* * *
16127749 TTTTTTAGCAGC-TCTTGTGGGAAAAGTGCCGCTAAAGGTCATGGTCTTTAGCGACGTCTGTGG
66 GTCTTTAGCAGCGT-TTGTGGGAAAAGTGCCGCTAAAGGTCATAGTCTTTAGCGACGTCTGTGG
* * *
16127812 GAGAAGCGCCGCTAAAGGTTATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCAT
1 GAGAAGCGCCGCTAAAGGTT-TGTTCTTTAGCGGCGTTTGTGAGAAAAACGCCGCTAAAGGTCAT
* * * * *
16127877 GGTCTTTAGCAGCGTTTGTGGGAGAAGTGCCGCTAAATGTCTTAGTCTTTAGCGGCGTTTGTGG
65 GGTCTTTAGCAGCGTTTGTGGGAAAAGTGCCGCTAAAGGTCATAGTCTTTAGCGACGTCTGTGG
*
16127941 GAAAAGCGCCGCTAAAGGTCTTGTTCTTTAGCGGCGTTT
1 GAGAAGCGCCGCTAAAGGT-TTGTTCTTTAGCGGCGTTT
16127980 ATTTCTAAAA
Statistics
Matches: 146, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
128 18 0.12
129 126 0.86
130 2 0.01
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.31
Consensus pattern (128 bp):
GAGAAGCGCCGCTAAAGGTTTGTTCTTTAGCGGCGTTTGTGAGAAAAACGCCGCTAAAGGTCATG
GTCTTTAGCAGCGTTTGTGGGAAAAGTGCCGCTAAAGGTCATAGTCTTTAGCGACGTCTGTGG
Found at i:16127978 original size:86 final size:86
Alignment explanation
Indices: 16127654--16127979 Score: 367
Period size: 86 Copynumber: 3.8 Consensus size: 86
16127644 TATATTTTTT
* * * * * * * *
16127654 TAAAGGTTATGTT-TTTAGCGGCGTTTTTGCGAGAAGCGCCGGTAAAAGTTTAT--TCTTTAGTG
1 TAAATGTTATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCT-AAAGGTCATGGTCTTTAGCG
** * *
16127716 GCGTTTGTGATAAAAACGCCGC
65 GCGTTTGTGGGAGAAGCGCCGC
* * *
16127738 TAAATGTTATGTTTTTTAGCAGC-TCTTGTGGGAAAAGTGCCGCTAAAGGTCATGGTCTTTAGCG
1 TAAATGTTATGTTCTTTAGCGGCGT-TTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCG
* *
16127802 ACGTCTGTGGGAGAAGCGCCGC
65 GCGTTTGTGGGAGAAGCGCCGC
* * *
16127824 TAAAGGTTATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCATGGTCTTTAGCAG
1 TAAATGTTATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGG
*
16127889 CGTTTGTGGGAGAAGTGCCGC
66 CGTTTGTGGGAGAAGCGCCGC
* *
16127910 TAAATGTCT-TAG-TCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGTTCTTTAGC
1 TAAATGT-TAT-GTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGC
16127973 GGCGTTT
64 GGCGTTT
16127980 ATTTCTAAAA
Statistics
Matches: 205, Mismatches: 30, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
84 20 0.10
85 22 0.11
86 160 0.78
87 3 0.01
ACGTcount: A:0.21, C:0.16, G:0.30, T:0.33
Consensus pattern (86 bp):
TAAATGTTATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGG
CGTTTGTGGGAGAAGCGCCGC
Found at i:16128781 original size:7 final size:7
Alignment explanation
Indices: 16128765--16128832 Score: 54
Period size: 7 Copynumber: 9.9 Consensus size: 7
16128755 GTTTTATTAT
16128765 TATATAA
1 TATATAA
16128772 TATA-ATA
1 TATATA-A
16128779 TATATAA
1 TATATAA
*
16128786 TATATAC
1 TATATAA
16128793 T-TA-AA
1 TATATAA
*
16128798 CAT-TAA
1 TATATAA
*
16128804 GATATAA
1 TATATAA
16128811 TATTATAA
1 TA-TATAA
16128819 TATTATAA
1 TA-TATAA
16128827 TATATA
1 TATATA
16128833 TTTTAACTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
5 1 0.02
6 8 0.16
7 25 0.50
8 16 0.32
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (7 bp):
TATATAA
Found at i:16149651 original size:19 final size:19
Alignment explanation
Indices: 16149627--16149665 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
16149617 ATTCTTCACA
*
16149627 TCATTTGATGCTTGGATGT
1 TCATTTCATGCTTGGATGT
* *
16149646 TCATTTCTTGTTTGGATGT
1 TCATTTCATGCTTGGATGT
16149665 T
1 T
16149666 GATCTCATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.13, C:0.10, G:0.23, T:0.54
Consensus pattern (19 bp):
TCATTTCATGCTTGGATGT
Found at i:16149848 original size:30 final size:30
Alignment explanation
Indices: 16149812--16149870 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
16149802 ACATTGATAC
* *
16149812 TTTTTTTT-CCTAATTTGGTACCTAAACTT
1 TTTTTTTTGTCTAATATGGTACCTAAACTT
*
16149841 TTTTTTTTGTCTCATATGGTACCTAAACTT
1 TTTTTTTTGTCTAATATGGTACCTAAACTT
16149871 GTCAAACATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 8 0.31
30 18 0.69
ACGTcount: A:0.20, C:0.17, G:0.08, T:0.54
Consensus pattern (30 bp):
TTTTTTTTGTCTAATATGGTACCTAAACTT
Found at i:16157524 original size:20 final size:20
Alignment explanation
Indices: 16157489--16157526 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
16157479 TTTTAGCCCA
*
16157489 TAATTATTTTTAAAATTTTT
1 TAATTATTTTCAAAATTTTT
*
16157509 TAATTATTTTCCAAATTT
1 TAATTATTTTCAAAATTT
16157527 AGAATAAGGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (20 bp):
TAATTATTTTCAAAATTTTT
Found at i:16158044 original size:42 final size:42
Alignment explanation
Indices: 16157941--16158089 Score: 165
Period size: 42 Copynumber: 3.5 Consensus size: 42
16157931 TCAGTGATAC
* * * ** *
16157941 GGGGAATCAGCACATAGCAACC-CCTTTCACAATCAAGGATACG
1 GGGGAATCAACACTTAGCAACCACCTTT-AGAATCAATAAT-TG
*
16157984 GTGGAATCAACACTTAGCAACCACCTTTAGAATCAATAATTG
1 GGGGAATCAACACTTAGCAACCACCTTTAGAATCAATAATTG
* * * *
16158026 GGGGAATTAGCACTTAGCAACCACATTTAGAATCAATAATTC
1 GGGGAATCAACACTTAGCAACCACCTTTAGAATCAATAATTG
*
16158068 GGGGAATCAACACTTGGCAACC
1 GGGGAATCAACACTTAGCAACC
16158090 CCTCGGGGAA
Statistics
Matches: 90, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
42 57 0.63
43 28 0.31
44 5 0.06
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.21
Consensus pattern (42 bp):
GGGGAATCAACACTTAGCAACCACCTTTAGAATCAATAATTG
Found at i:16158107 original size:26 final size:26
Alignment explanation
Indices: 16158066--16158118 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
16158056 AATCAATAAT
*
16158066 TCGGGGAATCAACACTTGGCAACCCC
1 TCGGGGAATCAACACTTAGCAACCCC
**
16158092 TCGGGGAATCTGCACTTAGCAACCCC
1 TCGGGGAATCAACACTTAGCAACCCC
16158118 T
1 T
16158119 TTTTGATCAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.25, C:0.34, G:0.23, T:0.19
Consensus pattern (26 bp):
TCGGGGAATCAACACTTAGCAACCCC
Found at i:16158155 original size:67 final size:68
Alignment explanation
Indices: 16158026--16158159 Score: 173
Period size: 67 Copynumber: 2.0 Consensus size: 68
16158016 TCAATAATTG
*
16158026 GGGGAATTAGCACTTAGCAACCACATTTAGAATCAATAATTCGGGGAATCAACACTTGGCAACCC
1 GGGGAATTAGCACTTAGCAACCACATTTAGAATCAATAATTCGGGGAATCAACACTTAGCAACCC
16158091 CTC
66 CTC
* * * * * **
16158094 GGGGAATCT-GCACTTAGCAACCCCTTTTTG-ATCAGTGATTCGGGGAATCTGCACTTAGCAACC
1 GGGGAAT-TAGCACTTAGCAACCACATTTAGAATCAATAATTCGGGGAATCAACACTTAGCAACC
16158157 CCT
65 CCT
16158160 TACATTCAAT
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
67 31 0.54
68 25 0.44
69 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (68 bp):
GGGGAATTAGCACTTAGCAACCACATTTAGAATCAATAATTCGGGGAATCAACACTTAGCAACCC
CTC
Found at i:16164576 original size:21 final size:21
Alignment explanation
Indices: 16164538--16164579 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
16164528 CCTCTTCCCC
*
16164538 TTTATTTGTTTTCTTTTTTGT
1 TTTATTTCTTTTCTTTTTTGT
16164559 TTTATCTTCTTTTCTTTTTTG
1 TTTAT-TTCTTTTCTTTTTTG
16164580 AAAACGGTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.05, C:0.10, G:0.07, T:0.79
Consensus pattern (21 bp):
TTTATTTCTTTTCTTTTTTGT
Found at i:16176447 original size:41 final size:41
Alignment explanation
Indices: 16176404--16176547 Score: 206
Period size: 41 Copynumber: 3.6 Consensus size: 41
16176394 AATAAATATA
*
16176404 TTTATTTTTTTTAATTTTAAAATATTTTT-ACATAC---TT
1 TTTATTTTTTTTAATTTTAAAATATTTTTAAAATACTTTTT
16176441 TTTATTTTTTTTAATTTTAAAATATTTTTAAAATACTTTTT
1 TTTATTTTTTTTAATTTTAAAATATTTTTAAAATACTTTTT
*
16176482 TTTAATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTT
1 TTTATTTTTTTTAATTTTAAAATATTTTTAAAATACTTTTT
* **
16176523 TTAATTTTTTAAAATTTTTAAAATA
1 TTTATTTTTTTTAA-TTTTAAAATA
16176548 AAAATAGACC
Statistics
Matches: 96, Mismatches: 6, Indels: 5
0.90 0.06 0.05
Matches are distributed among these distances:
37 29 0.30
38 5 0.05
41 52 0.54
42 10 0.10
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (41 bp):
TTTATTTTTTTTAATTTTAAAATATTTTTAAAATACTTTTT
Found at i:16176522 original size:31 final size:31
Alignment explanation
Indices: 16176487--16176547 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
16176477 TTTTTTTTAA
16176487 TTTTTTTAA-TTTTAAAATATTTTTAAAATAC
1 TTTTTTTAATTTTTAAAA-ATTTTTAAAATAC
*
16176518 TTTTTTTAATTTTTTAAAATTTTTAAAATA
1 TTTTTTTAATTTTTAAAAATTTTTAAAATA
16176548 AAAATAGACC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 21 0.75
32 7 0.25
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (31 bp):
TTTTTTTAATTTTTAAAAATTTTTAAAATAC
Found at i:16179176 original size:19 final size:17
Alignment explanation
Indices: 16179152--16179189 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 17
16179142 CACCAATGAA
16179152 TAAATAATAATAATTTTTT
1 TAAATAA-AAT-ATTTTTT
16179171 TAAATAAAATATTTTTT
1 TAAATAAAATATTTTTT
16179188 TA
1 TA
16179190 TATTTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.47
18 3 0.16
19 7 0.37
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TAAATAAAATATTTTTT
Found at i:16179300 original size:27 final size:27
Alignment explanation
Indices: 16179266--16179325 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
16179256 GGTGGCGCCT
*
16179266 CCAATGAAAGTGCCTCATAGAGAGGCG
1 CCAATGAAAGTGCCTCATAAAGAGGCG
*
16179293 CCAATGAAGGTGCCTCATAAAGAGGCG
1 CCAATGAAAGTGCCTCATAAAGAGGCG
16179320 CCAATG
1 CCAATG
16179326 GTGGCCTTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.33, C:0.23, G:0.28, T:0.15
Consensus pattern (27 bp):
CCAATGAAAGTGCCTCATAAAGAGGCG
Found at i:16179465 original size:17 final size:18
Alignment explanation
Indices: 16179443--16179491 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 18
16179433 GAGAAAAAAA
*
16179443 AAGAGAGAA-AGGAGAAG
1 AAGAGAGAAGAGAAGAAG
16179460 AAGAGA-AAGAGAAGAAG
1 AAGAGAGAAGAGAAGAAG
16179477 AAGA-AGAAGA-AAGAA
1 AAGAGAGAAGAGAAGAA
16179492 AGAAAAAAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
16 8 0.28
17 21 0.72
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (18 bp):
AAGAGAGAAGAGAAGAAG
Found at i:16179469 original size:23 final size:23
Alignment explanation
Indices: 16179442--16179486 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
16179432 AGAGAAAAAA
*
16179442 AAAGAG-AGAAAGGAGAAGAAGAG
1 AAAGAGAAG-AAGAAGAAGAAGAG
16179465 AAAGAGAAGAAGAAGAAGAAGA
1 AAAGAGAAGAAGAAGAAGAAGA
16179487 AAGAAAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (23 bp):
AAAGAGAAGAAGAAGAAGAAGAG
Found at i:16179664 original size:22 final size:21
Alignment explanation
Indices: 16179638--16179871 Score: 121
Period size: 22 Copynumber: 11.0 Consensus size: 21
16179628 TAGATTAGAA
16179638 TTTTGTATGAATATTCTAACTT
1 TTTTGTATGAATATTCTAA-TT
*
16179660 TTTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTCTAATT
*
16179681 TTTT-TATGAATATTGTAA--
1 TTTTGTATGAATATTCTAATT
* *
16179699 TATTGTATGAATATTGTAATT
1 TTTTGTATGAATATTCTAATT
* *
16179720 ATTT-TAT--A-ATT-AAATT
1 TTTTGTATGAATATTCTAATT
* * * * *
16179736 TGTATT-TAT-AGTTTTGGATTAGTA
1 T-T-TTGTATGAATATT---CTAATT
*
16179760 TTTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTCTAATT
*
16179781 TTTTGTATGAATATTGTAATTT
1 TTTTGTATGAATATTCTAA-TT
*
16179803 TTTTGTATGAATATTGTAATATTAT
1 TTTTGTATGAATATTCT-A-A-T-T
16179828 AATTTTGTATGAATATTGC-AATTT
1 --TTTTGTATGAATATT-CTAA-TT
*
16179852 TTTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTCTAAT
16179872 ATTGTAATTT
Statistics
Matches: 173, Mismatches: 18, Indels: 43
0.74 0.08 0.18
Matches are distributed among these distances:
16 4 0.02
17 4 0.02
18 9 0.05
19 14 0.08
20 19 0.11
21 31 0.18
22 56 0.32
23 5 0.03
24 11 0.06
25 4 0.02
26 1 0.01
27 15 0.09
ACGTcount: A:0.31, C:0.01, G:0.13, T:0.55
Consensus pattern (21 bp):
TTTTGTATGAATATTCTAATT
Found at i:16179674 original size:61 final size:60
Alignment explanation
Indices: 16179609--16179795 Score: 175
Period size: 61 Copynumber: 3.1 Consensus size: 60
16179599 TAAATTATCT
* *
16179609 ATATTTAGTGTTTATAGTTTAGATTAGAATTTTGTATGAATATTCTAACTTTTTTGTATGA
1 ATATTTAGTATTTATAGTTTAGATTAGAATTTTGTATGAATATTGTAA-TTTTTTGTATGA
* * * ** * * * *
16179670 ATATTGTAATTTTTTTA-TGAATATT-GTAATATTGTATGAATATTGTAATTATTTTATAATTA
1 ATATT-TAGTATTTATAGTTTAGATTAG-AATTTTGTATGAATATTGTAATT-TTTTGT-ATGA
* *
16179732 A-ATTT-GTATTTATAGTTTTGGATTAGTATTTTGTATGAATATTGTAATTTTTTGTATGA
1 ATATTTAGTATTTATAG-TTTAGATTAGAATTTTGTATGAATATTGTAATTTTTTGTATGA
16179791 ATATT
1 ATATT
16179796 GTAATTTTTT
Statistics
Matches: 97, Mismatches: 21, Indels: 17
0.72 0.16 0.13
Matches are distributed among these distances:
59 10 0.10
60 12 0.12
61 62 0.64
62 13 0.13
ACGTcount: A:0.31, C:0.01, G:0.13, T:0.55
Consensus pattern (60 bp):
ATATTTAGTATTTATAGTTTAGATTAGAATTTTGTATGAATATTGTAATTTTTTGTATGA
Found at i:16179709 original size:19 final size:19
Alignment explanation
Indices: 16179662--16179925 Score: 99
Period size: 19 Copynumber: 13.9 Consensus size: 19
16179652 TCTAACTTTT
*
16179662 TTGTATGAATATTGTAATTT
1 TTGTATGAATATTGTAA-TA
*
16179682 TTTTATGAATATTGTAATA
1 TTGTATGAATATTGTAATA
16179701 TTGTATGAATATTGTAATTA
1 TTGTATGAATATTGTAA-TA
* *
16179721 TTTTAT-AATTAAATTTGTATTTA
1 TTGTATGAA-T--A-TTGTA-ATA
* * * * *
16179744 TAGTTTTGGAT-TAGT-ATT
1 TTG-TATGAATATTGTAATA
*
16179762 TTGTATGAATATTGTAATTTT
1 TTGTATGAATATTGTAA--TA
16179783 TTGTATGAATATTGTAAT-
1 TTGTATGAATATTGTAATA
* *
16179801 TTTTTTG--TA-TG-AATA
1 TTGTATGAATATTGTAATA
* *
16179816 TTG--T-AATATTATAATT
1 TTGTATGAATATTGTAATA
* *
16179832 TTGTATGAATATTGCAATTTTT
1 TTGTATGAATATTGTAA---TA
16179854 TTGTATGAATATTGTAATA
1 TTGTATGAATATTGTAATA
* *
16179873 TTG--T-AATTTTGTATTA
1 TTGTATGAATATTGTAATA
* * * *
16179889 ATAT-TGTAATTTTGTAATT
1 TTGTATG-AATATTGTAATA
16179908 TTGTATGAATATTGTAAT
1 TTGTATGAATATTGTAAT
16179926 GTCGGGATAT
Statistics
Matches: 183, Mismatches: 34, Indels: 55
0.67 0.12 0.20
Matches are distributed among these distances:
13 1 0.01
14 5 0.03
15 5 0.03
16 19 0.10
17 7 0.04
18 12 0.07
19 55 0.30
20 29 0.16
21 19 0.10
22 19 0.10
23 8 0.04
24 3 0.02
25 1 0.01
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.55
Consensus pattern (19 bp):
TTGTATGAATATTGTAATA
Found at i:16179841 original size:27 final size:26
Alignment explanation
Indices: 16179781--16179925 Score: 180
Period size: 27 Copynumber: 5.8 Consensus size: 26
16179771 TATTGTAATT
16179781 TTTTGTATGAATATTGT-A-ATTT--
1 TTTTGTATGAATATTGTAATATTTAA
16179803 TTTTGTATGAATATTGTAATATTATAA
1 TTTTGTATGAATATTGTAATATT-TAA
*
16179830 TTTTGTATGAATATTG-CA-ATTT--
1 TTTTGTATGAATATTGTAATATTTAA
16179852 TTTTGTATGAATATTGTAATATTGTAA
1 TTTTGTATGAATATTGTAATATT-TAA
* *
16179879 TTTTGTATTAATATTGTAATTTTGTAA
1 TTTTGTATGAATATTGTAATATT-TAA
16179906 TTTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTGTAAT
16179926 GTCGGGATAT
Statistics
Matches: 108, Mismatches: 5, Indels: 15
0.84 0.04 0.12
Matches are distributed among these distances:
22 33 0.31
23 2 0.02
24 7 0.06
25 5 0.05
26 1 0.01
27 60 0.56
ACGTcount: A:0.31, C:0.01, G:0.13, T:0.55
Consensus pattern (26 bp):
TTTTGTATGAATATTGTAATATTTAA
Found at i:16179842 original size:49 final size:49
Alignment explanation
Indices: 16179781--16179925 Score: 218
Period size: 49 Copynumber: 2.9 Consensus size: 49
16179771 TATTGTAATT
16179781 TTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATAA
1 TTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATAA
* *
16179830 TTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTAATATTGTAA
1 TTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATAA
*
16179879 TTTTGTATTAATATTGTAATTTTGTAATTTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTGTAA--TT-T--TTTTGTATGAATATTGTAAT
16179926 GTCGGGATAT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
49 64 0.74
51 2 0.02
52 1 0.01
54 20 0.23
ACGTcount: A:0.31, C:0.01, G:0.13, T:0.55
Consensus pattern (49 bp):
TTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATAA
Found at i:16179874 original size:8 final size:8
Alignment explanation
Indices: 16179861--16179949 Score: 52
Period size: 8 Copynumber: 10.1 Consensus size: 8
16179851 TTTTTGTATG
16179861 AATATTGT
1 AATATTGT
16179869 AATATTGT
1 AATATTGT
*
16179877 AATTTTGTATT
1 AATATTG---T
16179888 AATATTGT
1 AATATTGT
*
16179896 AATTTTGT
1 AATATTGT
*
16179904 AATTTTGTAT
1 AATATTG--T
16179914 GAATATTGT
1 -AATATTGT
* * *
16179923 AATGTCGGG
1 AATAT-TGT
16179932 ATATATTGT
1 A-ATATTGT
16179941 AATATTGT
1 AATATTGT
16179949 A
1 A
16179950 GACAATTTTG
Statistics
Matches: 63, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
8 41 0.65
9 5 0.08
10 4 0.06
11 13 0.21
ACGTcount: A:0.33, C:0.01, G:0.16, T:0.51
Consensus pattern (8 bp):
AATATTGT
Found at i:16179960 original size:76 final size:74
Alignment explanation
Indices: 16179803--16179949 Score: 190
Period size: 76 Copynumber: 2.0 Consensus size: 74
16179793 ATTGTAATTT
* ** *
16179803 TTTTGTATGAATATTGTAATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTG
1 TTTTGTATGAATATTGTAATATTATAATTTTGTATGAATATTGCAA-TTGTCGGGAT-AATATTG
16179868 TAATATTGTAA
64 TAATATTGTAA
* * * *
16179879 TTTTGTATTAATATTGTAATTTTGTAATTTTGTATGAATATTGTAA-TGTCGGGAT-ATATTGTA
1 TTTTGTATGAATATTGTAATATTATAATTTTGTATGAATATTGCAATTGTCGGGATAATATTGTA
16179942 ATATTGTA
66 ATATTGTA
16179950 GACAATTTTG
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
72 16 0.25
74 5 0.08
76 42 0.67
ACGTcount: A:0.31, C:0.01, G:0.15, T:0.52
Consensus pattern (74 bp):
TTTTGTATGAATATTGTAATATTATAATTTTGTATGAATATTGCAATTGTCGGGATAATATTGTA
ATATTGTAA
Found at i:16184437 original size:9 final size:9
Alignment explanation
Indices: 16184420--16184456 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
16184410 TTCGAATTCG
16184420 AATTCGAAT
1 AATTCGAAT
*
16184429 AACTCGAAT
1 AATTCGAAT
16184438 AATTCGAAT
1 AATTCGAAT
16184447 AATTCGAAT
1 AATTCGAAT
16184456 A
1 A
16184457 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:16186647 original size:27 final size:27
Alignment explanation
Indices: 16186613--16186667 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 27
16186603 AATATTAACA
*
16186613 TATTTTAAT-ATTATTTCAATAAT-TTT
1 TATTTTAATAAATATTT-AATAATATTT
16186639 TATTATTAATAAATATTTAATAATATTT
1 TATT-TTAATAAATATTTAATAATATTT
16186667 T
1 T
16186668 TCAATAATCT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 4 0.16
27 11 0.44
28 10 0.40
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (27 bp):
TATTTTAATAAATATTTAATAATATTT
Found at i:16186681 original size:40 final size:41
Alignment explanation
Indices: 16186618--16186696 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 41
16186608 TAACATATTT
* *
16186618 TAATATTATTTCAATAATTTTTATTATTAATAAATATTTAA
1 TAATATTATTTCAATAATCTTTATTATTAACAAATATTTAA
*
16186659 TAATATT-TTTCAATAATCTTTATTATTAACCAATATTT
1 TAATATTATTTCAATAATCTTTATTATTAACAAATATTT
16186697 GAATTAATTC
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
40 28 0.80
41 7 0.20
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (41 bp):
TAATATTATTTCAATAATCTTTATTATTAACAAATATTTAA
Found at i:16189210 original size:316 final size:316
Alignment explanation
Indices: 16188637--16189272 Score: 1200
Period size: 316 Copynumber: 2.0 Consensus size: 316
16188627 AGTAAATTGC
*
16188637 AAATTATCAGACTGATCCTTCTGGACATAATTGTAATTACTCGAGCCTAATTCTATATATTTGAT
1 AAATTATCAGACTGATCCTTCTGGACATAATTGCAATTACTCGAGCCTAATTCTATATATTTGAT
* * *
16188702 TGGTCCCTTCGGTAGCTCAACAAAAACTCAATCGGATTACATTTGGATTAGAAGAAAATTCTATG
66 TGGTCCCTCCGCTAGCTCAACAAAAACTCAATCGGATTACATTTGGATTAGAAGAAAATTCTATA
16188767 ACTTTGTAAATAATTTAATTGAGTCGATTTATTCGATGTGGAATTAAATTAGGCAGCCGTGAGAA
131 ACTTTGTAAATAATTTAATTGAGTCGATTTATTCGATGTGGAATTAAATTAGGCAGCCGTGAGAA
16188832 TTGTTCAACTAGAGAATTTGATTCAAGAATTTTCTTGAAAAACTCATTTGGAAAATCTAAGTGAT
196 TTGTTCAACTAGAGAATTTGATTCAAGAATTTTCTTGAAAAACTCATTTGGAAAATCTAAGTGAT
*
16188897 TTTTGGGAAAATTAATTTTGATCAAGTAAAATTAAATTAATCAAGTTAATTAAAAT
261 TTTTGAGAAAATTAATTTTGATCAAGTAAAATTAAATTAATCAAGTTAATTAAAAT
16188953 AAATTATCAGACTGATCCTTCTGGACATAATTGCAATTACTCGAGCCTAATTCTATATATTTGAT
1 AAATTATCAGACTGATCCTTCTGGACATAATTGCAATTACTCGAGCCTAATTCTATATATTTGAT
*
16189018 TGGTCTCTCCGCTAGCTCAACAAAAACTCAATCGGATTACATTTGGATTAGAAGAAAATTCTATA
66 TGGTCCCTCCGCTAGCTCAACAAAAACTCAATCGGATTACATTTGGATTAGAAGAAAATTCTATA
*
16189083 ACTTTGTAAATAATTTAATTGAGTCGATTTATTCGATGTGGAATTAAATTAGGCAGTCGTGAGAA
131 ACTTTGTAAATAATTTAATTGAGTCGATTTATTCGATGTGGAATTAAATTAGGCAGCCGTGAGAA
*
16189148 TTGTTCAACTAGAGAATTTGATTCAAGAATTTTCTTGAAAAATTCATTTGGAAAATCTAAGTGAT
196 TTGTTCAACTAGAGAATTTGATTCAAGAATTTTCTTGAAAAACTCATTTGGAAAATCTAAGTGAT
16189213 TTTTGAGAAAATTAATTTTGATCAAGTAAAATTAAATTAATCAAGTTAATTAAAAT
261 TTTTGAGAAAATTAATTTTGATCAAGTAAAATTAAATTAATCAAGTTAATTAAAAT
16189269 AAAT
1 AAAT
16189273 ATGATGTTTT
Statistics
Matches: 312, Mismatches: 8, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
316 312 1.00
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (316 bp):
AAATTATCAGACTGATCCTTCTGGACATAATTGCAATTACTCGAGCCTAATTCTATATATTTGAT
TGGTCCCTCCGCTAGCTCAACAAAAACTCAATCGGATTACATTTGGATTAGAAGAAAATTCTATA
ACTTTGTAAATAATTTAATTGAGTCGATTTATTCGATGTGGAATTAAATTAGGCAGCCGTGAGAA
TTGTTCAACTAGAGAATTTGATTCAAGAATTTTCTTGAAAAACTCATTTGGAAAATCTAAGTGAT
TTTTGAGAAAATTAATTTTGATCAAGTAAAATTAAATTAATCAAGTTAATTAAAAT
Found at i:16202473 original size:11 final size:11
Alignment explanation
Indices: 16202454--16202488 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
16202444 CCCCTTCCCC
16202454 CTCCCTTCTCT
1 CTCCCTTCTCT
16202465 CTCCCTTCTCT
1 CTCCCTTCTCT
16202476 CTTCCC-TCTCT
1 C-TCCCTTCTCT
16202487 CT
1 CT
16202489 TTTTTTTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.04
11 18 0.78
12 4 0.17
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCCCTTCTCT
Found at i:16203020 original size:24 final size:28
Alignment explanation
Indices: 16202973--16203026 Score: 80
Period size: 24 Copynumber: 2.1 Consensus size: 28
16202963 TTATTAGCAT
16202973 TATTAGTATTACTATTGTTATTATTATG
1 TATTAGTATTACTATTGTTATTATTATG
16203001 TATTAGTA-TA-TATT-TT-TTATTATG
1 TATTAGTATTACTATTGTTATTATTATG
16203025 TA
1 TA
16203027 CGTGTATACC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
24 10 0.38
25 2 0.08
26 4 0.15
27 2 0.08
28 8 0.31
ACGTcount: A:0.30, C:0.02, G:0.09, T:0.59
Consensus pattern (28 bp):
TATTAGTATTACTATTGTTATTATTATG
Found at i:16203514 original size:16 final size:17
Alignment explanation
Indices: 16203483--16203523 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
16203473 ATATTTCTAA
*
16203483 TATTGTGTTGTATATAC
1 TATTGTGTTATATATAC
16203500 TATTGT-TTATATATA-
1 TATTGTGTTATATATAC
16203515 TATATGTGT
1 TAT-TGTGT
16203524 ATGTATTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 3 0.14
16 11 0.52
17 7 0.33
ACGTcount: A:0.27, C:0.02, G:0.15, T:0.56
Consensus pattern (17 bp):
TATTGTGTTATATATAC
Found at i:16203926 original size:38 final size:37
Alignment explanation
Indices: 16203842--16203936 Score: 97
Period size: 38 Copynumber: 2.5 Consensus size: 37
16203832 TATACGTACT
*
16203842 TATACATACTTAAATATATTTTTCATATTTCATAATTC
1 TATACATACTTAAATATATTTTGCATATTT-ATAATTC
* *
16203880 T-TATATACTTACATATATTTATGCATATTT-TACA-TC
1 TATACATACTTAAATATATTT-TGCATATTTATA-ATTC
*
16203916 ATATACATACTTATATATATT
1 -TATACATACTTAAATATATT
16203937 CTTTATATTC
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
36 4 0.08
37 19 0.40
38 25 0.52
ACGTcount: A:0.37, C:0.13, G:0.01, T:0.49
Consensus pattern (37 bp):
TATACATACTTAAATATATTTTGCATATTTATAATTC
Found at i:16206965 original size:30 final size:31
Alignment explanation
Indices: 16206914--16206981 Score: 77
Period size: 30 Copynumber: 2.2 Consensus size: 31
16206904 GGTTTCTTTT
* *
16206914 CAGTCACTCAACTTTAGAAAAA-TAACAAAA
1 CAGTCACTCAACATTACAAAAAGTAACAAAA
* *
16206944 CAGTCACT-AACATTATCAAAAAGTGACAAAT
1 CAGTCACTCAACATTA-CAAAAAGTAACAAAA
16206975 CAGTCAC
1 CAGTCAC
16206982 CCACTAACAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 6 0.19
30 13 0.41
31 13 0.41
ACGTcount: A:0.49, C:0.22, G:0.09, T:0.21
Consensus pattern (31 bp):
CAGTCACTCAACATTACAAAAAGTAACAAAA
Found at i:16207896 original size:3 final size:3
Alignment explanation
Indices: 16207888--16207978 Score: 175
Period size: 3 Copynumber: 30.7 Consensus size: 3
16207878 TCCCAAATCC
16207888 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
16207936 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C-T CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
16207979 GATAAACCCT
Statistics
Matches: 87, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
2 2 0.02
3 85 0.98
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:16229938 original size:15 final size:16
Alignment explanation
Indices: 16229920--16229960 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
16229910 AATTTTCAAT
16229920 ACTTAATTTTCT-AGA
1 ACTTAATTTTCTAAGA
* *
16229935 ACTTACTTTT-TAAGC
1 ACTTAATTTTCTAAGA
16229950 ACTTAATTTTC
1 ACTTAATTTTC
16229961 CAGTTTAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
14 1 0.05
15 20 0.95
ACGTcount: A:0.29, C:0.17, G:0.05, T:0.49
Consensus pattern (16 bp):
ACTTAATTTTCTAAGA
Found at i:16236535 original size:25 final size:26
Alignment explanation
Indices: 16236503--16236557 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 26
16236493 TTATTAAATT
*
16236503 ATATATTTTAATTATAA-TATATTTA
1 ATATATTTTAATAATAATTATATTTA
*
16236528 ATATA-TTTAATAATAATTATGTTTA
1 ATATATTTTAATAATAATTATATTTA
16236553 A-ATAT
1 ATATAT
16236558 GATTAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
ATATATTTTAATAATAATTATATTTA
Found at i:16236741 original size:44 final size:45
Alignment explanation
Indices: 16236692--16236789 Score: 135
Period size: 45 Copynumber: 2.2 Consensus size: 45
16236682 CTATTACACC
* *
16236692 TCTATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTAT
1 TCTATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTAT
** *
16236736 TCTATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTAT
1 TCTATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTAT
*
16236781 TCCATTACA
1 TCTATTACA
16236790 CCTCTAATCC
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 21 0.45
45 26 0.55
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.37
Consensus pattern (45 bp):
TCTATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTAT
Found at i:16236789 original size:16 final size:16
Alignment explanation
Indices: 16236770--16236821 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
16236760 GATTTGCTAT
* *
16236770 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
16236786 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
16236802 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
16236818 TACA
1 TACA
16236822 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:16241709 original size:27 final size:27
Alignment explanation
Indices: 16241671--16241723 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
16241661 GAGAATGCAA
16241671 GGTTTCTTAAGTTACTGCTATTATGAT
1 GGTTTCTTAAGTTACTGCTATTATGAT
16241698 GGTTTCTTAAGTTACTGCTATTATGA
1 GGTTTCTTAAGTTACTGCTATTATGA
16241724 CCATGATGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.23, C:0.11, G:0.19, T:0.47
Consensus pattern (27 bp):
GGTTTCTTAAGTTACTGCTATTATGAT
Found at i:16256180 original size:42 final size:42
Alignment explanation
Indices: 16256084--16256237 Score: 184
Period size: 42 Copynumber: 3.7 Consensus size: 42
16256074 TCTCACGAGC
* * * *
16256084 TTCTGTTTAACTCATATGAGTTTCAGTTCAA-CCTTAATGGGT
1 TTCTGTTTAGCTCTTATGAGCTTCTGTTCAACCCTT-ATGGGT
* * * *
16256126 TTCCGTTCAGCTCTTTTGAGCTTCTGTTTAACCCTTATGGGT
1 TTCTGTTTAGCTCTTATGAGCTTCTGTTCAACCCTTATGGGT
* * *
16256168 TTTTTTTTAGCTCTTATGAGCTTCCGTTCAACCCTTATGGGT
1 TTCTGTTTAGCTCTTATGAGCTTCTGTTCAACCCTTATGGGT
*
16256210 TTCTGTTTAGCTCTCATGAGCTTCTGTT
1 TTCTGTTTAGCTCTTATGAGCTTCTGTT
16256238 AAGCTTTCGA
Statistics
Matches: 92, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
42 88 0.96
43 4 0.04
ACGTcount: A:0.16, C:0.21, G:0.18, T:0.46
Consensus pattern (42 bp):
TTCTGTTTAGCTCTTATGAGCTTCTGTTCAACCCTTATGGGT
Found at i:16256236 original size:21 final size:21
Alignment explanation
Indices: 16256067--16256256 Score: 98
Period size: 21 Copynumber: 9.1 Consensus size: 21
16256057 TTTACTTTCC
* *
16256067 GTTTAGCTCTCACGAGCTTCT
1 GTTTAGCTCTTATGAGCTTCT
* * * *
16256088 GTTTAACTCATATGAGTTTCA
1 GTTTAGCTCTTATGAGCTTCT
* * * * *
16256109 GTTCAAC-CTTAATGGGTTTCC
1 GTTTAGCTCTT-ATGAGCTTCT
* *
16256130 GTTCAGCTCTTTTGAGCTTCT
1 GTTTAGCTCTTATGAGCTTCT
* * * * *
16256151 GTTTAACCCTTATGGGTTTTT
1 GTTTAGCTCTTATGAGCTTCT
* *
16256172 TTTTAGCTCTTATGAGCTTCC
1 GTTTAGCTCTTATGAGCTTCT
* * * * *
16256193 GTTCAACCCTTATGGGTTTCT
1 GTTTAGCTCTTATGAGCTTCT
*
16256214 GTTTAGCTCTCATGAGCTTCT
1 GTTTAGCTCTTATGAGCTTCT
* *
16256235 GTTAAGCT-TT-CGAGCTTCT
1 GTTTAGCTCTTATGAGCTTCT
16256254 GTT
1 GTT
16256257 AACGATATAC
Statistics
Matches: 122, Mismatches: 45, Indels: 6
0.71 0.26 0.03
Matches are distributed among these distances:
19 11 0.09
20 3 0.02
21 105 0.86
22 3 0.02
ACGTcount: A:0.16, C:0.22, G:0.18, T:0.44
Consensus pattern (21 bp):
GTTTAGCTCTTATGAGCTTCT
Found at i:16261484 original size:12 final size:13
Alignment explanation
Indices: 16261467--16261495 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
16261457 ATAAAGTTAT
16261467 TAAAAATT-AATA
1 TAAAAATTAAATA
16261479 TAAAAATTAAATA
1 TAAAAATTAAATA
16261492 TAAA
1 TAAA
16261496 TTTTGATTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAAAATTAAATA
Found at i:16265962 original size:31 final size:31
Alignment explanation
Indices: 16265902--16265962 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
16265892 GCTAGGATAA
* **
16265902 TTTAGATAACAGAATATAATTTAGGTATCAT
1 TTTAGATAACAGAAAATAATTTAAATATCAT
16265933 TTTAGATAACA-ATAAATAATTTAAATATCA
1 TTTAGATAACAGA-AAATAATTTAAATATCA
16265963 CTTGTGATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 1 0.04
31 25 0.96
ACGTcount: A:0.48, C:0.07, G:0.08, T:0.38
Consensus pattern (31 bp):
TTTAGATAACAGAAAATAATTTAAATATCAT
Found at i:16268164 original size:16 final size:16
Alignment explanation
Indices: 16268143--16268176 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
16268133 TAGGTTTAGC
*
16268143 TCTAAGACTGATTTGA
1 TCTAAGACTAATTTGA
16268159 TCTAAGACTAATTTGA
1 TCTAAGACTAATTTGA
16268175 TC
1 TC
16268177 ATAATCTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (16 bp):
TCTAAGACTAATTTGA
Found at i:16275973 original size:22 final size:23
Alignment explanation
Indices: 16275948--16276005 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 23
16275938 TGCACTAATG
16275948 AACAGAGAGCACTA-AAGTGCTA
1 AACAGAGAGCACTAGAAGTGCTA
*
16275970 AACAGAGAGCAC-AGATGTGCTA
1 AACAGAGAGCACTAGAAGTGCTA
* *
16275992 AACGGAAAGCACTA
1 AACAGAGAGCACTA
16276006 TCGTACAAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 1 0.03
22 29 0.94
23 1 0.03
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.12
Consensus pattern (23 bp):
AACAGAGAGCACTAGAAGTGCTA
Found at i:16276178 original size:16 final size:17
Alignment explanation
Indices: 16276151--16276185 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
16276141 AAAAATAATT
*
16276151 CAATTATCACATTTGCA
1 CAATTATCACATTTACA
16276168 CAATT-TCACATTTACA
1 CAATTATCACATTTACA
16276184 CA
1 CA
16276186 TATATAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.37, C:0.26, G:0.03, T:0.34
Consensus pattern (17 bp):
CAATTATCACATTTACA
Found at i:16277008 original size:5 final size:5
Alignment explanation
Indices: 16276998--16277024 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
16276988 TTATTTGTTT
16276998 ATATA ATATA ATATA ATATA ATATA AT
1 ATATA ATATA ATATA ATATA ATATA AT
16277025 TACTTATTTA
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:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:16277567 original size:22 final size:22
Alignment explanation
Indices: 16277523--16277569 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
16277513 TATGCACTAT
*
16277523 TAAACAGAGAGTACAAATATGC
1 TAAACAGAGAGCACAAATATGC
* * *
16277545 TAAACAGATAGCACTAATGTGC
1 TAAACAGAGAGCACAAATATGC
16277567 TAA
1 TAA
16277570 TAATCAAACA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.47, C:0.15, G:0.17, T:0.21
Consensus pattern (22 bp):
TAAACAGAGAGCACAAATATGC
Found at i:16278999 original size:5 final size:5
Alignment explanation
Indices: 16278989--16279030 Score: 59
Period size: 5 Copynumber: 8.6 Consensus size: 5
16278979 TGTTTATATA
* *
16278989 ATAAT ATAAT ATAAT A-ATT ATAAT ATATT ATAAT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA
16279031 CATTTTAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
4 3 0.09
5 29 0.91
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
ATAAT
Found at i:16279020 original size:24 final size:22
Alignment explanation
Indices: 16278985--16279028 Score: 70
Period size: 24 Copynumber: 1.9 Consensus size: 22
16278975 TATTTGTTTA
16278985 TATAATAATATAATATAATAAT
1 TATAATAATATAATATAATAAT
16279007 TATAATATATTATAATATAATA
1 TATAATA-A-TATAATATAATA
16279029 TACATTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 1 0.05
24 12 0.60
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
TATAATAATATAATATAATAAT
Found at i:16282373 original size:18 final size:18
Alignment explanation
Indices: 16282338--16282376 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
16282328 TTTTAATAAA
*
16282338 TTATTTAATAATTCAATT
1 TTATTTAATAATTAAATT
16282356 TTATTTCAATAA-TAAATT
1 TTATTT-AATAATTAAATT
16282374 TTA
1 TTA
16282377 AAATTAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (18 bp):
TTATTTAATAATTAAATT
Found at i:16283218 original size:3 final size:3
Alignment explanation
Indices: 16283210--16283237 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
16283200 TAGTTAAGCA
16283210 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
16283238 CAAGTAAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:16292846 original size:29 final size:32
Alignment explanation
Indices: 16292804--16292865 Score: 76
Period size: 30 Copynumber: 2.0 Consensus size: 32
16292794 TAATTAAAGT
16292804 AAAATTACACTTTACCCCTCT-AAAATTATAA
1 AAAATTACACTTTACCCCTCTAAAAATTATAA
** *
16292835 AAAATTA-A-TTTATTCCTTTAAAAATTATAA
1 AAAATTACACTTTACCCCTCTAAAAATTATAA
16292865 A
1 A
16292866 TATATAAACT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 8 0.30
30 12 0.44
31 7 0.26
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (32 bp):
AAAATTACACTTTACCCCTCTAAAAATTATAA
Found at i:16298569 original size:3 final size:3
Alignment explanation
Indices: 16298561--16298586 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
16298551 CATCAAACCA
16298561 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
16298587 CATTGTTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:16299835 original size:26 final size:26
Alignment explanation
Indices: 16299770--16299872 Score: 84
Period size: 26 Copynumber: 3.8 Consensus size: 26
16299760 AAACTATAAA
* *
16299770 AAATATTTTAAAAATTA-AAAATTATT
1 AAATATTTAAAAAATTATAAAAAT-TT
*
16299796 AAATA-TTACTAAAATTATAAAAATTT
1 AAATATTTA-AAAAATTATAAAAATTT
* * *
16299822 AAATATGTAAAAAAATATTAATAATTCAT
1 AAATATTTAAAAAATTA-TAAAAATT--T
16299851 AAATATTTCAAAAAATTATAAA
1 AAATATTT-AAAAAATTATAAA
16299873 CGCTAAAAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
25 2 0.03
26 25 0.42
27 14 0.23
29 11 0.18
30 8 0.13
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (26 bp):
AAATATTTAAAAAATTATAAAAATTT
Found at i:16300095 original size:10 final size:9
Alignment explanation
Indices: 16300015--16300111 Score: 56
Period size: 9 Copynumber: 10.4 Consensus size: 9
16300005 ATTTGGAAAC
16300015 TTTTTATAA
1 TTTTTATAA
*
16300024 TTTTTTTGAAA
1 TTTTTAT--AA
*
16300035 TATTTATAAA
1 TTTTTAT-AA
* *
16300045 TTATTAATAT
1 TT-TTTATAA
*
16300055 TTTTTTTAA
1 TTTTTATAA
*
16300064 TTTTTA-CA
1 TTTTTATAA
*
16300072 -TATTA-AA
1 TTTTTATAA
16300079 TTTTTATAA
1 TTTTTATAA
16300088 TATTTTATTAA
1 T-TTTTA-TAA
16300099 TTTTTATAA
1 TTTTTATAA
16300108 TTTT
1 TTTT
16300112 AAAAATATTT
Statistics
Matches: 67, Mismatches: 14, Indels: 14
0.71 0.15 0.15
Matches are distributed among these distances:
7 5 0.07
8 5 0.07
9 25 0.37
10 17 0.25
11 15 0.22
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (9 bp):
TTTTTATAA
Found at i:16302546 original size:16 final size:18
Alignment explanation
Indices: 16302521--16302567 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 18
16302511 CATATATATG
*
16302521 AATAAT-ATATTATAAAT
1 AATAATAATATTAAAAAT
*
16302538 AA-AA-AATATAAAAAAT
1 AATAATAATATTAAAAAT
16302554 AATAATAATATTAA
1 AATAATAATATTAA
16302568 TTATATATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
16 13 0.54
17 4 0.17
18 7 0.29
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AATAATAATATTAAAAAT
Found at i:16302620 original size:23 final size:24
Alignment explanation
Indices: 16302586--16302631 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
16302576 AATTAAACAA
16302586 TAAACGAATTTTAAAT-AATTTAT
1 TAAACGAATTTTAAATGAATTTAT
16302609 TAAAC-AAGTTTTAAATGAATTTA
1 TAAACGAA-TTTTAAATGAATTTA
16302632 AAAAAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 2 0.10
23 13 0.62
24 6 0.29
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.41
Consensus pattern (24 bp):
TAAACGAATTTTAAATGAATTTAT
Found at i:16304867 original size:18 final size:18
Alignment explanation
Indices: 16304844--16304890 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
16304834 CAGGCCCCGC
*
16304844 CAAAGCAAGCCCTGGGGG
1 CAAAGCAAGCCCTGGCGG
16304862 CAAAGCAAGCCCTGGCGG
1 CAAAGCAAGCCCTGGCGG
*
16304880 CAAAGCCAGCC
1 CAAAGCAAGCC
16304891 TCGGTGCAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.30, C:0.34, G:0.32, T:0.04
Consensus pattern (18 bp):
CAAAGCAAGCCCTGGCGG
Found at i:16305611 original size:21 final size:22
Alignment explanation
Indices: 16305585--16305626 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
16305575 AAATATAAGT
*
16305585 ATAAATAATATAATT-AAGAAC
1 ATAAATAACATAATTCAAGAAC
*
16305606 ATAAATAGCATAATTCAAGAA
1 ATAAATAACATAATTCAAGAA
16305627 GAGAACTATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.60, C:0.07, G:0.07, T:0.26
Consensus pattern (22 bp):
ATAAATAACATAATTCAAGAAC
Found at i:16307640 original size:3 final size:3
Alignment explanation
Indices: 16307632--16307687 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
16307622 TTATAACATA
16307632 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
16307680 AAT AAT AA
1 AAT AAT AA
16307688 GGGCACAAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:16309253 original size:21 final size:23
Alignment explanation
Indices: 16309205--16309255 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 23
16309195 AAAAAAAGTC
16309205 TAGGTTA-TGGGCTTATTAGGCT
1 TAGGTTATTGGGCTTATTAGGCT
* *
16309227 TGGGTTATTGGG-TT-TTAGGGT
1 TAGGTTATTGGGCTTATTAGGCT
16309248 TAGGTTAT
1 TAGGTTAT
16309256 ATATTTGGGC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 13 0.52
22 8 0.32
23 4 0.16
ACGTcount: A:0.16, C:0.04, G:0.35, T:0.45
Consensus pattern (23 bp):
TAGGTTATTGGGCTTATTAGGCT
Found at i:16311078 original size:12 final size:12
Alignment explanation
Indices: 16311061--16311086 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
16311051 AGGATATGCA
16311061 ATCTTAGATATG
1 ATCTTAGATATG
16311073 ATCTTAGATATG
1 ATCTTAGATATG
16311085 AT
1 AT
16311087 ATATGCAATC
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:0.35, C:0.08, G:0.15, T:0.42
Consensus pattern (12 bp):
ATCTTAGATATG
Found at i:16311127 original size:17 final size:19
Alignment explanation
Indices: 16311073--16311120 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 19
16311063 CTTAGATATG
16311073 ATCTTAGATATGATATATGCA
1 ATCTTAGATATG--ATATGCA
*
16311094 ATCTTATATATGATATGCA
1 ATCTTAGATATGATATGCA
16311113 ATCTTAGA
1 ATCTTAGA
16311121 AGATATGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 14 0.56
21 11 0.44
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (19 bp):
ATCTTAGATATGATATGCA
Found at i:16311129 original size:22 final size:23
Alignment explanation
Indices: 16311078--16311143 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
16311068 ATATGATCTT
16311078 AGATATGATATATGCAATCTT---
1 AGATATGAT-TATGCAATCTTAGA
*
16311099 ATATATGA-TATGCAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
* *
16311121 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
16311144 GATTTAATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
19 11 0.30
21 7 0.19
22 7 0.19
23 12 0.32
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.39
Consensus pattern (23 bp):
AGATATGATTATGCAATCTTAGA
Found at i:16311648 original size:17 final size:17
Alignment explanation
Indices: 16311609--16311660 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
16311599 TTTGCATAAC
16311609 TTTTATATACATAT--A
1 TTTTATATACATATACA
* *
16311624 -TATATATACATTTACA
1 TTTTATATACATATACA
16311640 TTTTATATACATATACA
1 TTTTATATACATATACA
16311657 TTTT
1 TTTT
16311661 TTATTTCCTA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
14 11 0.37
16 1 0.03
17 18 0.60
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.52
Consensus pattern (17 bp):
TTTTATATACATATACA
Found at i:16311771 original size:24 final size:25
Alignment explanation
Indices: 16311739--16311786 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
16311729 TATGCGTATG
16311739 TTTTCTTATAT-TATTCTTCATAAAA
1 TTTTCTTATATATATTCTTC-TAAAA
*
16311764 TTTT-TTATATATATTTTTCTAAA
1 TTTTCTTATATATATTCTTCTAAA
16311787 TTAATTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.60
Consensus pattern (25 bp):
TTTTCTTATATATATTCTTCTAAAA
Found at i:16311861 original size:30 final size:30
Alignment explanation
Indices: 16311825--16311881 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
16311815 ATTATTTGTT
*
16311825 TATATATATGTA-ATTATCTTTTTTATAATC
1 TATATATATGTATA-TATATTTTTTATAATC
16311855 TATATATATGTATATATATTTTTTATA
1 TATATATATGTATATATATTTTTTATA
16311882 TATGTACATG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (30 bp):
TATATATATGTATATATATTTTTTATAATC
Found at i:16314220 original size:113 final size:111
Alignment explanation
Indices: 16313930--16314250 Score: 364
Period size: 112 Copynumber: 2.8 Consensus size: 111
16313920 TATTTAAAAG
* *
16313930 AAAGAT-TTTTGTTGTTGTTGTGTTTTATTAGATTTAAGTTTGTATTAAATGTATGATTAGTTTG
1 AAAGATATTTT-TTGTTGTTGTGTTTTATTAG-TTTAAGTTTGTATTAAAGGTATGATTAATTTG
* * * * *
16313994 TTTTATTACTGTTATTGTTGTATCTTATATCATTTTTTTTGTGTGTATT
64 TTTTATTAATGTT-TTGTGGTATCTTATATCATGTTCTTTGTATGTATT
* * * * *
16314043 AAAGATATTTGTT-TTGTTTTGTTTTTTTAGTTTTAGATTCGTATTAAAGGTATGATTAATTTGT
1 AAAGATATTTTTTGTTGTTGTGTTTTATTAGTTTAAG-TTTGTATTAAAGGTATGATTAATTTGT
* *
16314107 TTTATTAATGTTTTGTGGTATCTTATATTA-GTTCTTTGTATTTACTT
65 TTTATTAATGTTTTGTGGTATCTTATATCATGTTCTTTGTATGTA-TT
* *
16314154 GAAATGTTATTTTTTGTTGTTGTGTTTTATTAGCTTTAAGTTTGTATT-AAGGTTTGATTAATTT
1 -AAA-GATATTTTTTGTTGTTGTGTTTTATTAG-TTTAAGTTTGTATTAAAGGTATGATTAATTT
*
16314218 GTTTTATTAATGTTTT-TGAAGAATCTTATATCA
63 GTTTTATTAATGTTTTGTG--GTATCTTATATCA
16314251 GGCTTTCGTC
Statistics
Matches: 176, Mismatches: 23, Indels: 17
0.81 0.11 0.08
Matches are distributed among these distances:
110 10 0.06
111 23 0.13
112 55 0.31
113 47 0.27
114 36 0.20
115 5 0.03
ACGTcount: A:0.23, C:0.03, G:0.16, T:0.58
Consensus pattern (111 bp):
AAAGATATTTTTTGTTGTTGTGTTTTATTAGTTTAAGTTTGTATTAAAGGTATGATTAATTTGTT
TTATTAATGTTTTGTGGTATCTTATATCATGTTCTTTGTATGTATT
Found at i:16317289 original size:32 final size:32
Alignment explanation
Indices: 16317253--16317314 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
16317243 TTTGTATGTG
*
16317253 TATTTAAAATATTTCGCATATAAACATAATGA
1 TATTTAAAATATTTCACATATAAACATAATGA
* * *
16317285 TATTTGAAATATTTTACATATAAAGATAAT
1 TATTTAAAATATTTCACATATAAACATAAT
16317315 AATTATATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.40
Consensus pattern (32 bp):
TATTTAAAATATTTCACATATAAACATAATGA
Found at i:16320787 original size:14 final size:14
Alignment explanation
Indices: 16320768--16320801 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
16320758 TTAAATAGGT
*
16320768 TAATATTAAAATCC
1 TAATATTAAAATAC
16320782 TAATATTAAAATAC
1 TAATATTAAAATAC
16320796 TAATAT
1 TAATAT
16320802 GATTAAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (14 bp):
TAATATTAAAATAC
Found at i:16341856 original size:3 final size:3
Alignment explanation
Indices: 16341848--16341874 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
16341838 CATTCAAAAA
16341848 TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC
16341875 ATCATCTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:16344725 original size:44 final size:45
Alignment explanation
Indices: 16344636--16344728 Score: 120
Period size: 44 Copynumber: 2.1 Consensus size: 45
16344626 ATAATTGTAA
*
16344636 ATTAAATTATAATATTTTGTAATGTATAATAATTATCATAGCTTCT
1 ATTAAATTATAATATTTTGTAATGTAT-ATAATTATCACAGCTTCT
*
16344682 ATTAAATTATAATTATTTT-TAAATG-AT-TAATTATCACATCTTCT
1 ATTAAATTATAA-TATTTTGT-AATGTATATAATTATCACAGCTTCT
16344726 ATT
1 ATT
16344729 TTGTTTCAAC
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
44 18 0.42
46 15 0.35
47 10 0.23
ACGTcount: A:0.39, C:0.08, G:0.04, T:0.49
Consensus pattern (45 bp):
ATTAAATTATAATATTTTGTAATGTATATAATTATCACAGCTTCT
Found at i:16351674 original size:30 final size:29
Alignment explanation
Indices: 16351625--16351700 Score: 93
Period size: 29 Copynumber: 2.6 Consensus size: 29
16351615 GTTAGGGAAC
16351625 AAATATAAATAAAAAATATTTATATATAA
1 AAATATAAATAAAAAATATTTATATATAA
*
16351654 AAATA-AAATAAAATAAATATTTATAT-TTA
1 AAATATAAAT-AAA-AAATATTTATATATAA
*
16351683 AAATATTAGATAAAAAAT
1 AAATA-TAAATAAAAAAT
16351701 CAATTAAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
28 4 0.10
29 19 0.46
30 15 0.37
31 3 0.07
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.34
Consensus pattern (29 bp):
AAATATAAATAAAAAATATTTATATATAA
Found at i:16364941 original size:23 final size:22
Alignment explanation
Indices: 16364915--16364960 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
16364905 TTGGATTATA
*
16364915 TGTTT-TGATATAACAAATTAAAG
1 TGTTTCTGA-ATAA-AAAGTAAAG
16364938 TGTTTCTGAATAAAAAGTAAAG
1 TGTTTCTGAATAAAAAGTAAAG
16364960 T
1 T
16364961 TTAGAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 9 0.43
23 9 0.43
24 3 0.14
ACGTcount: A:0.43, C:0.04, G:0.15, T:0.37
Consensus pattern (22 bp):
TGTTTCTGAATAAAAAGTAAAG
Found at i:16366188 original size:20 final size:21
Alignment explanation
Indices: 16366144--16366189 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
16366134 CTCTTTATTT
16366144 AACCCAATTTTTAACACTATAA
1 AACCCAATTTTTAACAC-ATAA
16366166 AACCCAATTTTATAAC-C-TAA
1 AACCCAATTTT-TAACACATAA
16366186 AACC
1 AACC
16366190 ATATCTACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 7 0.30
22 12 0.52
23 4 0.17
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (21 bp):
AACCCAATTTTTAACACATAA
Found at i:16376242 original size:13 final size:13
Alignment explanation
Indices: 16376226--16376256 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
16376216 ATGACAATAG
16376226 CACACGGTCTGGC
1 CACACGGTCTGGC
16376239 CACACGGTCTGGC
1 CACACGGTCTGGC
16376252 CACAC
1 CACAC
16376257 AGCTGTGTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.19, C:0.42, G:0.26, T:0.13
Consensus pattern (13 bp):
CACACGGTCTGGC
Found at i:16377133 original size:13 final size:13
Alignment explanation
Indices: 16377115--16377141 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
16377105 AACGTTCTCT
16377115 AGTATACTATTTC
1 AGTATACTATTTC
16377128 AGTATACTATTTC
1 AGTATACTATTTC
16377141 A
1 A
16377142 TGTAATTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.15, G:0.07, T:0.44
Consensus pattern (13 bp):
AGTATACTATTTC
Found at i:16377845 original size:306 final size:300
Alignment explanation
Indices: 16377268--16377845 Score: 653
Period size: 306 Copynumber: 1.9 Consensus size: 300
16377258 TTTTATTTAA
* * * ** ** *
16377268 TATATACTATTAATAAAATTCTTGATTGAGTTGGTGTCATAGATTAATTGAGTATTAACACGGTT
1 TATATACTATTAATAAAATTCTTAACTGAGTTGGTGTCAGAGATTAACCGAGTACCAACACGATT
* * * * *
16377333 AGAAAATGACTAATATATTTTTTTATTAAATGATTACCATTATTATTTTGATGGCTTTTTGTCTT
66 AGAAAATGACTAATATACTCTTTTATTAAATGACTACCACTATTATTTTGATGCCTTTTTGTCTT
* * *
16377398 TTCATATTTGATATGATTTTTAAATAAAAGACCTAAAATTGAGATGCCTATGGATGGAACTCATA
131 TTCATATTTGATATGATTTTTAAATAAAAGAACTAAAATTAACATGCCTATGGATGGAACTCATA
* * *****
16377463 TTTAATGTGCATATAAACAAATTCTTTACCTCTACACTAATAATAAATCTTGAATTTTTTTTAAA
196 TTTAATGT-CATATAAACAAATTCTTTACCACTACACCAATAATAAATCTTGAATTTAAAAAAAA
16377528 TTAACTTTTAACATAAAATATTTTCTCTTACCAAATTTGGG
260 TTAACTTTTAACATAAAATATTTTCTCTTACCAAATTTGGG
* *
16377569 TATATACTATTAATAACACTTC-TAACTGAGTTGGTGTCACGAG-TTAACCGAGTACCAACTCGA
1 TATATACTATTAATAA-AATTCTTAACTGAGTTGGTGTCA-GAGATTAACCGAGTACCAACACGA
* **
16377632 TTAGGAAATGACTAATATACTCTTTTATTAAATGACTATTACTATTATTTTGATGACCTTTTTTT
64 TTAGAAAATGACTAATATACTCTTTTATTAAATGACTACCACTATTATTTTGATG-CC--TTTTT
* * * * ** * *
16377697 GTCTTTTCATTATTTTATATAGTTTTTTAATTAAAAGAATTAAAATTAACATGTTTA-GAGTTTG
126 GTCTTTTCA-TATTTGATAT-GATTTTTAAATAAAAGAACTAAAATTAACATGCCTATG-GATGG
* * * *
16377761 AACTCATGTTTAATAGAT-TTATAAACAAATTCTTTATCACTACACCAATAATAATTCTT-AACT
188 AACTCATATTTAAT-G-TCATATAAACAAATTCTTTACCACTACACCAATAATAAATCTTGAA-T
16377824 TTAAAAAAAATTAACTTTTAAC
250 TTAAAAAAAATTAACTTTTAAC
16377846 TTTTATTTAT
Statistics
Matches: 226, Mismatches: 40, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
301 93 0.41
302 7 0.03
304 14 0.06
305 12 0.05
306 98 0.43
307 1 0.00
308 1 0.00
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.42
Consensus pattern (300 bp):
TATATACTATTAATAAAATTCTTAACTGAGTTGGTGTCAGAGATTAACCGAGTACCAACACGATT
AGAAAATGACTAATATACTCTTTTATTAAATGACTACCACTATTATTTTGATGCCTTTTTGTCTT
TTCATATTTGATATGATTTTTAAATAAAAGAACTAAAATTAACATGCCTATGGATGGAACTCATA
TTTAATGTCATATAAACAAATTCTTTACCACTACACCAATAATAAATCTTGAATTTAAAAAAAAT
TAACTTTTAACATAAAATATTTTCTCTTACCAAATTTGGG
Found at i:16380863 original size:31 final size:31
Alignment explanation
Indices: 16380825--16380893 Score: 111
Period size: 31 Copynumber: 2.2 Consensus size: 31
16380815 GAGCAACAGC
*
16380825 ATGTTTCACTTGTAGAGATGAAAACTATCCA
1 ATGTTTCACTTGTAGAGATGAAAACGATCCA
* *
16380856 ATGTTTCACTTGTAGAGCTGTAAACGATCCA
1 ATGTTTCACTTGTAGAGATGAAAACGATCCA
16380887 ATGTTTC
1 ATGTTTC
16380894 GTTTTTATGA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (31 bp):
ATGTTTCACTTGTAGAGATGAAAACGATCCA
Found at i:16382089 original size:20 final size:20
Alignment explanation
Indices: 16382047--16382113 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
16382037 TTGTATGAGA
* * * *
16382047 TTGCACATTGGTGCCACTAT
1 TTGCACTTTGATGCCATTGT
16382067 TTGCA-TTTCGATGCCATTGT
1 TTGCACTTT-GATGCCATTGT
*
16382087 TTGCACTTTGGTGCCATTGT
1 TTGCACTTTGATGCCATTGT
*
16382107 TAGCACT
1 TTGCACT
16382114 AGGTGTCTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
19 2 0.05
20 34 0.87
21 3 0.08
ACGTcount: A:0.16, C:0.22, G:0.21, T:0.40
Consensus pattern (20 bp):
TTGCACTTTGATGCCATTGT
Found at i:16384392 original size:21 final size:21
Alignment explanation
Indices: 16384366--16384411 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
16384356 AGTAAGCTTA
16384366 CATAGCTTAGTAAGTCTATAG
1 CATAGCTTAGTAAGTCTATAG
16384387 CATAGCTTAGTAAGTCTATAG
1 CATAGCTTAGTAAGTCTATAG
16384408 CATA
1 CATA
16384412 ACTAAAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (21 bp):
CATAGCTTAGTAAGTCTATAG
Found at i:16384676 original size:27 final size:27
Alignment explanation
Indices: 16384646--16384729 Score: 77
Period size: 27 Copynumber: 3.2 Consensus size: 27
16384636 ACTTTTATAT
16384646 ATCATTTACATATAAACAAATGCATAC
1 ATCATTTACATATAAACAAATGCATAC
* ** ** *
16384673 ATCA-TTATCA-A-ATAC-CTTTTATAT
1 ATCATTTA-CATATAAACAAATGCATAC
16384697 ATCATTTACATATAAACAAATGCATAC
1 ATCATTTACATATAAACAAATGCATAC
16384724 ATCATT
1 ATCATT
16384730 ATCAAATACC
Statistics
Matches: 40, Mismatches: 12, Indels: 10
0.65 0.19 0.16
Matches are distributed among these distances:
24 10 0.25
25 7 0.17
26 7 0.17
27 16 0.40
ACGTcount: A:0.44, C:0.18, G:0.02, T:0.36
Consensus pattern (27 bp):
ATCATTTACATATAAACAAATGCATAC
Found at i:16384692 original size:51 final size:51
Alignment explanation
Indices: 16384633--16384740 Score: 209
Period size: 51 Copynumber: 2.1 Consensus size: 51
16384623 CTTACAACCG
16384633 AATA-CTTTTATATATCATTTACATATAAACAAATGCATACATCATTATCA
1 AATACCTTTTATATATCATTTACATATAAACAAATGCATACATCATTATCA
16384683 AATACCTTTTATATATCATTTACATATAAACAAATGCATACATCATTATCA
1 AATACCTTTTATATATCATTTACATATAAACAAATGCATACATCATTATCA
16384734 AATACCT
1 AATACCT
16384741 AAAACCGAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
50 4 0.07
51 53 0.93
ACGTcount: A:0.44, C:0.18, G:0.02, T:0.37
Consensus pattern (51 bp):
AATACCTTTTATATATCATTTACATATAAACAAATGCATACATCATTATCA
Found at i:16385202 original size:41 final size:41
Alignment explanation
Indices: 16385157--16385330 Score: 269
Period size: 41 Copynumber: 4.2 Consensus size: 41
16385147 ACTGGCACTT
* * *
16385157 AGCCTGCTAGACATAAAGTCTGAAATGTTTCACCGGCGTCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACTGGCATCA
16385198 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACTGGCATCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACTGGCATCA
*
16385239 AGCCTGCTAAACTTAAAGTCTGAAATGTTTCACTGGCGA-CA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACTGGC-ATCA
** *
16385280 AGCCTGCTAGACTTAAAGTCTGAAACATATCACTGGCATCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACTGGCATCA
16385321 AGCCTGCTAG
1 AGCCTGCTAG
16385331 GCACCGAGCC
Statistics
Matches: 123, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
40 1 0.01
41 121 0.98
42 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (41 bp):
AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACTGGCATCA
Found at i:16387004 original size:28 final size:26
Alignment explanation
Indices: 16386972--16387023 Score: 86
Period size: 28 Copynumber: 1.9 Consensus size: 26
16386962 TTTTTAATGT
16386972 TTATTATAACATAATAATATATTATACC
1 TTATTATAACAT-AT-ATATATTATACC
16387000 TTATTATAACATATATATATTATA
1 TTATTATAACATATATATATTATA
16387024 TTAATAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 10 0.42
27 2 0.08
28 12 0.50
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (26 bp):
TTATTATAACATATATATATTATACC
Found at i:16404597 original size:25 final size:25
Alignment explanation
Indices: 16404563--16404612 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
16404553 TTGTTGAGTC
16404563 TATTTTCTGTAAAAACAAGTAAGAA
1 TATTTTCTGTAAAAACAAGTAAGAA
16404588 TATTTTCTGTAAAAACAAGTAAGAA
1 TATTTTCTGTAAAAACAAGTAAGAA
16404613 CTTCATATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.32
Consensus pattern (25 bp):
TATTTTCTGTAAAAACAAGTAAGAA
Found at i:16409715 original size:32 final size:32
Alignment explanation
Indices: 16409679--16409750 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 32
16409669 ATAGCAATGG
* * *
16409679 TCAAATTGAATGTAATTGAAATTAAATCGA-GA
1 TCAAATTGAAT-TAATTAAAACTAAATCAAGGA
* *
16409711 TCAAATTAAATTAATTAAAACTAAATTAAGGA
1 TCAAATTGAATTAATTAAAACTAAATCAAGGA
16409743 TCAAATTG
1 TCAAATTG
16409751 CATAAGAGAC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
31 14 0.42
32 19 0.58
ACGTcount: A:0.50, C:0.07, G:0.11, T:0.32
Consensus pattern (32 bp):
TCAAATTGAATTAATTAAAACTAAATCAAGGA
Found at i:16420627 original size:25 final size:25
Alignment explanation
Indices: 16420599--16420657 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
16420589 AGTTTTTAGA
16420599 GGTCATATTGGTCCTTTATAATGTT
1 GGTCATATTGGTCCTTTATAATGTT
*
16420624 GGTCATATTGGTCTTTTATAATGTT
1 GGTCATATTGGTCCTTTATAATGTT
16420649 GGTCATATT
1 GGTCATATT
16420658 TGTACTATTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.20, C:0.10, G:0.20, T:0.49
Consensus pattern (25 bp):
GGTCATATTGGTCCTTTATAATGTT
Found at i:16422949 original size:23 final size:23
Alignment explanation
Indices: 16422904--16422949 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
16422894 AATTTAAACA
* ** *
16422904 TTTTTATTTTATTTTTTTCTATT
1 TTTTTATTTAATTTTGATATATT
16422927 TTTTTATTTAATTTTGATATATT
1 TTTTTATTTAATTTTGATATATT
16422950 GGCTCATTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (23 bp):
TTTTTATTTAATTTTGATATATT
Found at i:16425406 original size:3 final size:3
Alignment explanation
Indices: 16425398--16425437 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
16425388 GCTGGTACAT
16425398 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
16425438 ACATGGGGCG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:16434832 original size:31 final size:33
Alignment explanation
Indices: 16434797--16434863 Score: 93
Period size: 31 Copynumber: 2.1 Consensus size: 33
16434787 TTTTTTAGTT
*
16434797 AAATTTCACCCTCAACC-TTTT-AAAAAGAGTC
1 AAATTTCACCATCAACCTTTTTGAAAAAGAGTC
* *
16434828 AAATTTTACTATCAACCTTTTTGAAAAAGAGTC
1 AAATTTCACCATCAACCTTTTTGAAAAAGAGTC
16434861 AAA
1 AAA
16434864 ATAATATTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
31 14 0.45
32 4 0.13
33 13 0.42
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.31
Consensus pattern (33 bp):
AAATTTCACCATCAACCTTTTTGAAAAAGAGTC
Found at i:16435033 original size:33 final size:32
Alignment explanation
Indices: 16434965--16435030 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
16434955 TTTTAAGATC
16434965 TTATGAACCTTTTATATTTTTTAATTTTAATT
1 TTATGAACCTTTTATATTTTTTAATTTTAATT
16434997 TTATGAA-CTCTTTATATTTTTTAATTTTAATT
1 TTATGAACCT-TTTATATTTTTTAATTTTAATT
16435029 TT
1 TT
16435031 TATAATATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 2 0.06
32 31 0.94
ACGTcount: A:0.27, C:0.06, G:0.03, T:0.64
Consensus pattern (32 bp):
TTATGAACCTTTTATATTTTTTAATTTTAATT
Found at i:16436383 original size:22 final size:22
Alignment explanation
Indices: 16436358--16436402 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
16436348 AATATATACT
16436358 TCATTAAAAATGTAAGGGTAAA
1 TCATTAAAAATGTAAGGGTAAA
16436380 TCATTAAAAATGTAAGGGTAAA
1 TCATTAAAAATGTAAGGGTAAA
16436402 T
1 T
16436403 TATGCTAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.49, C:0.04, G:0.18, T:0.29
Consensus pattern (22 bp):
TCATTAAAAATGTAAGGGTAAA
Found at i:16438873 original size:14 final size:14
Alignment explanation
Indices: 16438854--16438883 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
16438844 GTTTCTTCCT
16438854 TCTCGATGATTCAA
1 TCTCGATGATTCAA
16438868 TCTCGATGATTCAA
1 TCTCGATGATTCAA
16438882 TC
1 TC
16438884 GTCGCCGTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (14 bp):
TCTCGATGATTCAA
Found at i:16443038 original size:119 final size:118
Alignment explanation
Indices: 16442937--16443221 Score: 439
Period size: 119 Copynumber: 2.4 Consensus size: 118
16442927 TAAGTAATTG
* *
16442937 AAATTATATATTTT-ATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTA
1 AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATA-TTTATAGTATCA
*
16443001 TATATTATGATTTTAGAAAATTCATACAAGAATATTTAATATTAAGAATTTTATT
65 TATATTATGATTTGAGAAAATTCATACAAGAATATTT-ATATTAAGAATTTTATT
* *
16443056 AAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATATTTATAGTATCA
1 AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTTATAGTATCA
* * * *
16443120 TATATTATGATTTGAGTAAATTGATATAAGAATATTGATTATTAAGAATTTTATT
65 TATATTATGATTTGAGAAAATTCATACAAGAATATTTA-TATTAAGAATTTTATT
16443175 AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
1 AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
16443222 ATATGATTAA
Statistics
Matches: 151, Mismatches: 11, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
118 1 0.01
119 116 0.77
120 34 0.23
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (118 bp):
AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTATAGTATCAT
ATATTATGATTTGAGAAAATTCATACAAGAATATTTATATTAAGAATTTTATT
Found at i:16443195 original size:18 final size:17
Alignment explanation
Indices: 16443167--16443201 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
16443157 ATTATTAAGA
*
16443167 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
16443184 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
16443202 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:16443455 original size:16 final size:16
Alignment explanation
Indices: 16443434--16443477 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
16443424 TTGATTTGCT
* *
16443434 ATTACATCTCTATTTC
1 ATTACACCTCTATTCC
16443450 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
16443466 ATTACGCCTCTA
1 ATTACACCTCTA
16443478 ATACAATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.25, C:0.32, G:0.02, T:0.41
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:16447346 original size:29 final size:29
Alignment explanation
Indices: 16447288--16447349 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 29
16447278 AAGGGTATCC
16447288 TTATATATATAAATTTTTATTTTGCATAATT
1 TTATATATATAAATTTTTATTTT--ATAATT
16447319 TTATATATATTAAATGTTTT-TTTT-TAATT
1 TTATATATA-TAAAT-TTTTATTTTATAATT
16447348 TT
1 TT
16447350 GACAAATTGC
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 7 0.24
31 9 0.31
32 9 0.31
33 4 0.14
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (29 bp):
TTATATATATAAATTTTTATTTTATAATT
Found at i:16450204 original size:25 final size:25
Alignment explanation
Indices: 16450167--16450214 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
16450157 TTTAAAATGT
* *
16450167 AAAAATTATAAAAAAAATTTAAATA
1 AAAAAGTACAAAAAAAATTTAAATA
* *
16450192 AAAAAGTACAAAATAACTTTAAA
1 AAAAAGTACAAAAAAAATTTAAA
16450215 ATGAAAAGAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (25 bp):
AAAAAGTACAAAAAAAATTTAAATA
Found at i:16452780 original size:17 final size:18
Alignment explanation
Indices: 16452741--16452781 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
16452731 TTTTATAAAT
16452741 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGATA
16452759 TGTGAATTA-ATATTGA-A
1 TGTGAATTATAT-TTGATA
16452776 TGTGAA
1 TGTGAA
16452782 AGGAAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.37, C:0.00, G:0.20, T:0.44
Consensus pattern (18 bp):
TGTGAATTATATTTGATA
Found at i:16453057 original size:23 final size:23
Alignment explanation
Indices: 16453005--16453057 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
16452995 AGTGTTATTG
*
16453005 ATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
16453028 TTTAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
16453051 ATCAGTG
1 ATCAGTG
16453058 TGGCACTTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.34
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:16455287 original size:50 final size:50
Alignment explanation
Indices: 16455207--16455306 Score: 173
Period size: 50 Copynumber: 2.0 Consensus size: 50
16455197 TTATCATTGT
* * *
16455207 GCATTTGTTAAATAAGAAAGTTACTGGCCTAATGGTTAAGTGTTAGTGAA
1 GCATTTGTTAAATAAGAAAGTTACTAGCCTAATGGTTAAATGTTACTGAA
16455257 GCATTTGTTAAATAAGAAAGTTACTAGCCTAATGGTTAAATGTTACTGAA
1 GCATTTGTTAAATAAGAAAGTTACTAGCCTAATGGTTAAATGTTACTGAA
16455307 TTTGTCCTTG
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.36, C:0.09, G:0.21, T:0.34
Consensus pattern (50 bp):
GCATTTGTTAAATAAGAAAGTTACTAGCCTAATGGTTAAATGTTACTGAA
Found at i:16456696 original size:10 final size:11
Alignment explanation
Indices: 16456681--16456740 Score: 59
Period size: 11 Copynumber: 5.5 Consensus size: 11
16456671 AACTAAATTC
16456681 TTTCTCTC-AA
1 TTTCTCTCAAA
*
16456691 TTTCTCTCTAA
1 TTTCTCTCAAA
16456702 TATTCTCTCAAA
1 T-TTCTCTCAAA
*
16456714 TTCCTCTCAAA
1 TTTCTCTCAAA
* * *
16456725 TTCCTTTGAAA
1 TTTCTCTCAAA
16456736 TTTCT
1 TTTCT
16456741 ATTTAAAAGA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
10 8 0.19
11 25 0.58
12 10 0.23
ACGTcount: A:0.23, C:0.27, G:0.02, T:0.48
Consensus pattern (11 bp):
TTTCTCTCAAA
Found at i:16456707 original size:12 final size:10
Alignment explanation
Indices: 16456681--16456723 Score: 50
Period size: 10 Copynumber: 4.0 Consensus size: 10
16456671 AACTAAATTC
16456681 TTTCTCTCAA
1 TTTCTCTCAA
16456691 TTTCTCTCTAA
1 TTTCTCTC-AA
16456702 TATTCTCTCAAA
1 T-TTCTCTC-AA
*
16456714 TTCCTCTCAA
1 TTTCTCTCAA
16456724 ATTCCTTTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 10 0.34
11 9 0.31
12 10 0.34
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.47
Consensus pattern (10 bp):
TTTCTCTCAA
Found at i:16456785 original size:29 final size:27
Alignment explanation
Indices: 16456742--16456800 Score: 73
Period size: 29 Copynumber: 2.1 Consensus size: 27
16456732 GAAATTTCTA
* *
16456742 TTTAAAAGAGCTTTAATTTTTTAATTATT
1 TTTAAAAAAGCTTTAAATTTTT-ATT-TT
*
16456771 TTTAAAAAAGTTTTAAATTTTTATTTT
1 TTTAAAAAAGCTTTAAATTTTTATTTT
16456798 TTT
1 TTT
16456801 GAATTTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 5 0.19
28 3 0.11
29 19 0.70
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (27 bp):
TTTAAAAAAGCTTTAAATTTTTATTTT
Found at i:16457901 original size:75 final size:75
Alignment explanation
Indices: 16457778--16457927 Score: 282
Period size: 75 Copynumber: 2.0 Consensus size: 75
16457768 TTATTTGATT
*
16457778 AGGTGGAACCATCCGGCAAGTTATGCTCGATTGTCTACCTCTCTTGAAGATATACGGCTTCTATT
1 AGGTGGAACCATCCGGCAAGTTATGCTCGATTATCTACCTCTCTTGAAGATATACGGCTTCTATT
16457843 GGACCAACGG
66 GGACCAACGG
16457853 AGGTGGAACCATCCGGCAAGTTATGCTCGATTATCTACCTCTCTTGAAGATATACGGCTTCTATT
1 AGGTGGAACCATCCGGCAAGTTATGCTCGATTATCTACCTCTCTTGAAGATATACGGCTTCTATT
*
16457918 GTACCAACGG
66 GGACCAACGG
16457928 TCGAAAGCAC
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 73 1.00
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.29
Consensus pattern (75 bp):
AGGTGGAACCATCCGGCAAGTTATGCTCGATTATCTACCTCTCTTGAAGATATACGGCTTCTATT
GGACCAACGG
Found at i:16458684 original size:18 final size:18
Alignment explanation
Indices: 16458648--16458690 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
16458638 TGCTAGGTGC
* * *
16458648 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCATATAT
16458666 GTATCCTAACCCATATAT
1 GTATCCTAACCCATATAT
*
16458684 GTTTCCT
1 GTATCCT
16458691 TTTTTTAGTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.21, C:0.28, G:0.09, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCCATATAT
Found at i:16462599 original size:126 final size:125
Alignment explanation
Indices: 16462317--16462606 Score: 472
Period size: 125 Copynumber: 2.3 Consensus size: 125
16462307 CCAAACATGC
* * * *
16462317 GCTACTGTAGCAAAAGCGCGTCCATGTGAGAGCTTATTTCAATACTTCTGCTGACAAAGCATCCT
1 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAATACTTCTACTGACAAAGCATCCT
*
16462382 GCTTAAAGCGTTTTTGACACTTTTTCTCAAAAACGTCTACTCGAAATTATTTTTTCAGGA
66 GCTTAAAGCGTTTTTGACACTTTTGCTCAAAAACGTCTACTCGAAATTATTTTTTCAGGA
* * *
16462442 GCTACTGTAGCAAAAGCGCATCCACGTGGGAGCTTCTTTCAGTACTTCTACTGACAAAGCATCTT
1 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAATACTTCTACTGACAAAGCATCCT
* *
16462507 GCTTAAAGCGTTTTTGACACTATTTGCTTAGAAACGTCTACTCGAAATTATTTTTTCAGGA
66 GCTTAAAGCGTTTTTGACACT-TTTGCTCAAAAACGTCTACTCGAAATTATTTTTTCAGGA
*
16462568 GCTACTGTAGCAAAAGTGCGTCCACGTGGGAGCTTCTTT
1 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTT
16462607 AATTTAACAA
Statistics
Matches: 152, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
125 79 0.52
126 73 0.48
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.33
Consensus pattern (125 bp):
GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAATACTTCTACTGACAAAGCATCCT
GCTTAAAGCGTTTTTGACACTTTTGCTCAAAAACGTCTACTCGAAATTATTTTTTCAGGA
Found at i:16462790 original size:14 final size:14
Alignment explanation
Indices: 16462771--16462807 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
16462761 TTTCCCTTAA
16462771 AAACCCTTAACTCT
1 AAACCCTTAACTCT
**
16462785 AAACCCTTGTCTCT
1 AAACCCTTAACTCT
16462799 AAACCCTTA
1 AAACCCTTA
16462808 TCTGATTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.32, C:0.35, G:0.03, T:0.30
Consensus pattern (14 bp):
AAACCCTTAACTCT
Found at i:16464497 original size:25 final size:25
Alignment explanation
Indices: 16464469--16464540 Score: 99
Period size: 27 Copynumber: 2.8 Consensus size: 25
16464459 AGCTAATATT
16464469 GGGAAGCTCCGAAGAGCCATTAATC
1 GGGAAGCTCCGAAGAGCCATTAATC
* * *
16464494 GGGAAGCTCATGAAAGAGCCTTTAATT
1 GGGAAGCTC-CG-AAGAGCCATTAATC
16464521 GGGAAGCTCCGAAGAGCCAT
1 GGGAAGCTCCGAAGAGCCAT
16464541 ATATCGAGAC
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
25 17 0.43
26 2 0.05
27 21 0.52
ACGTcount: A:0.32, C:0.21, G:0.29, T:0.18
Consensus pattern (25 bp):
GGGAAGCTCCGAAGAGCCATTAATC
Found at i:16464666 original size:25 final size:24
Alignment explanation
Indices: 16464623--16464679 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 24
16464613 GAAGAGCTAT
* *
16464623 TAACGGGAAGCTCGCAAGAACCATA
1 TAACGAGAAGCTCACAAGAACCA-A
* * *
16464648 TAACGAGAAGCTCATAAGAGCTAA
1 TAACGAGAAGCTCACAAGAACCAA
16464672 TAACGAGA
1 TAACGAGA
16464680 CACTCTTTCG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 9 0.33
25 18 0.67
ACGTcount: A:0.44, C:0.19, G:0.23, T:0.14
Consensus pattern (24 bp):
TAACGAGAAGCTCACAAGAACCAA
Found at i:16464679 original size:24 final size:24
Alignment explanation
Indices: 16464608--16464679 Score: 72
Period size: 24 Copynumber: 3.0 Consensus size: 24
16464598 AAAACAGGAT
* * *
16464608 GCTCAGAAGAGCTATTAACGGGAA
1 GCTCACAAGAGCTAATAACGAGAA
* * *
16464632 GCTCGCAAGAACCATATAACGAGAA
1 GCTCACAAGAGCTA-ATAACGAGAA
*
16464657 GCTCATAAGAGCTAATAACGAGA
1 GCTCACAAGAGCTAATAACGAGA
16464680 CACTCTTTCG
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
24 19 0.51
25 18 0.49
ACGTcount: A:0.42, C:0.19, G:0.24, T:0.15
Consensus pattern (24 bp):
GCTCACAAGAGCTAATAACGAGAA
Found at i:16464857 original size:20 final size:20
Alignment explanation
Indices: 16464832--16464872 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
16464822 TGATAATTAC
16464832 TCAATTC-ACATATATAATAT
1 TCAATTCAACATATA-AATAT
16464852 TCAATTCAAACATATAAATAT
1 TCAATTC-AACATATAAATAT
16464873 ACACAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.37
21 5 0.26
22 7 0.37
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.37
Consensus pattern (20 bp):
TCAATTCAACATATAAATAT
Found at i:16466670 original size:13 final size:13
Alignment explanation
Indices: 16466652--16466678 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
16466642 AGTTTTTCAT
16466652 TGTTTTTGAAAAG
1 TGTTTTTGAAAAG
16466665 TGTTTTTGAAAAG
1 TGTTTTTGAAAAG
16466678 T
1 T
16466679 TTGGTTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (13 bp):
TGTTTTTGAAAAG
Done.