Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 116 of 344
Found at i:39401935 original size:101 final size:99
Alignment explanation
Indices: 39401752--39401935 Score: 260
Period size: 101 Copynumber: 1.8 Consensus size: 99
39401742 CTGGTACGCA
* * *
39401752 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCAGTACACGTAGTAGCCTCCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCAGTACACATAGTAGCCTACACTTA
*
39401817 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACCTAACCATCTGATACACG
* * ** *
39401851 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTACACT
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCAGTACACATAGTAGCCTACACT
*
39401916 TAGTACTACACATGCGACCT
64 TAGTACTACACACGCGACCT
39401936 CACAATAGAT
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
99 29 0.40
100 3 0.04
101 41 0.56
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCAGTACACATAGTAGCCTACACTTA
GTACTACACACGCGACCTAACCATCTGATACACG
Found at i:39407566 original size:50 final size:48
Alignment explanation
Indices: 39407453--39407628 Score: 199
Period size: 50 Copynumber: 3.5 Consensus size: 48
39407443 CTGGTACGCA
* * *
39407453 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCGA-TACACG
* **
39407502 TAGTAGCCTCCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATC-GATACACG
* * * *
39407552 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATC-GATACACG
*
39407603 TAGTAGCCTACACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
39407629 TGCGACCTCA
Statistics
Matches: 108, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
49 30 0.28
50 43 0.40
51 35 0.32
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (48 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCGATACACG
Found at i:39407636 original size:101 final size:99
Alignment explanation
Indices: 39407453--39407636 Score: 260
Period size: 101 Copynumber: 1.8 Consensus size: 99
39407443 CTGGTACGCA
* * *
39407453 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCAGTACACGTAGTAGCCTCCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCAGTACACATAGTAGCCTACACTTA
*
39407518 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACCTAACCATCTGATACACG
* * ** *
39407552 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTACACT
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCAGTACACATAGTAGCCTACACT
*
39407617 TAGTACTACACATGCGACCT
64 TAGTACTACACACGCGACCT
39407637 CACAATAGAT
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
99 29 0.40
100 3 0.04
101 41 0.56
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCAGTACACATAGTAGCCTACACTTA
GTACTACACACGCGACCTAACCATCTGATACACG
Found at i:39413071 original size:11 final size:11
Alignment explanation
Indices: 39413055--39413088 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
39413045 GTGTTCAATA
39413055 CAAATATTTCT
1 CAAATATTTCT
39413066 CAAATATTTCT
1 CAAATATTTCT
39413077 CAAATATTTCT
1 CAAATATTTCT
39413088 C
1 C
39413089 GACAGTCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.35, C:0.21, G:0.00, T:0.44
Consensus pattern (11 bp):
CAAATATTTCT
Found at i:39428804 original size:34 final size:34
Alignment explanation
Indices: 39428766--39428847 Score: 87
Period size: 34 Copynumber: 2.4 Consensus size: 34
39428756 CAAAATGATC
* *
39428766 TGGGCCTTAGCCCATATA-AGT-CGCAATATTAGTG
1 TGGGCCTTAGCCCAT-TACAATAC-CAATATCAGTG
* * *
39428800 TGGGCCCTAGCCTATTACAATACCAGTATCAGTG
1 TGGGCCTTAGCCCATTACAATACCAATATCAGTG
39428834 TGGGCCTTAGCCCA
1 TGGGCCTTAGCCCA
39428848 ATTCAGTACA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
33 2 0.05
34 36 0.92
35 1 0.03
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (34 bp):
TGGGCCTTAGCCCATTACAATACCAATATCAGTG
Found at i:39436682 original size:50 final size:49
Alignment explanation
Indices: 39436614--39436743 Score: 188
Period size: 50 Copynumber: 2.6 Consensus size: 49
39436604 AAAACTGTGA
* **
39436614 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATGGTGAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATGGT-AGG
* *
39436664 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGTTGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATGGTAGG
* *
39436713 TCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTA
39436744 TGCGTACTAG
Statistics
Matches: 73, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
49 31 0.42
50 42 0.58
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (49 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATGGTAGG
Found at i:39439620 original size:28 final size:28
Alignment explanation
Indices: 39439542--39439623 Score: 146
Period size: 28 Copynumber: 2.9 Consensus size: 28
39439532 GCTTAGTAAT
* *
39439542 CTCGTACCAAAAACATCAATAGGATAAG
1 CTCGTACCAAAAACATCAACAGTATAAG
39439570 CTCGTACCAAAAACATCAACAGTATAAG
1 CTCGTACCAAAAACATCAACAGTATAAG
39439598 CTCGTACCAAAAACATCAACAGTATA
1 CTCGTACCAAAAACATCAACAGTATA
39439624 TAAAATATGA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 52 1.00
ACGTcount: A:0.46, C:0.24, G:0.11, T:0.18
Consensus pattern (28 bp):
CTCGTACCAAAAACATCAACAGTATAAG
Found at i:39446841 original size:26 final size:26
Alignment explanation
Indices: 39446812--39446890 Score: 86
Period size: 28 Copynumber: 2.9 Consensus size: 26
39446802 TTCAAAAGCT
*
39446812 TAGTAATCTTGTACCAAAAACATCAA
1 TAGTAAACTTGTACCAAAAACATCAA
*
39446838 TAGTATAAACTCGTACCAAAAACATCAA
1 TAG--TAAACTTGTACCAAAAACATCAA
* *
39446866 CAGTATAAGTTCGTACCAAAAACAT
1 TAGTA-AACTT-GTACCAAAAACAT
39446891 TGACAGTATA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 5 0.11
27 3 0.07
28 36 0.82
ACGTcount: A:0.47, C:0.20, G:0.09, T:0.24
Consensus pattern (26 bp):
TAGTAAACTTGTACCAAAAACATCAA
Found at i:39446854 original size:28 final size:28
Alignment explanation
Indices: 39446822--39446900 Score: 113
Period size: 28 Copynumber: 2.8 Consensus size: 28
39446812 TAGTAATCTT
*
39446822 GTACCAAAAACATCAATAGTATAAACTC
1 GTACCAAAAACATCAACAGTATAAACTC
**
39446850 GTACCAAAAACATCAACAGTATAAGTTC
1 GTACCAAAAACATCAACAGTATAAACTC
**
39446878 GTACCAAAAACATTGACAGTATA
1 GTACCAAAAACATCAACAGTATA
39446901 TAAAATATGA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 46 1.00
ACGTcount: A:0.48, C:0.20, G:0.10, T:0.22
Consensus pattern (28 bp):
GTACCAAAAACATCAACAGTATAAACTC
Found at i:39452951 original size:18 final size:18
Alignment explanation
Indices: 39452930--39452968 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
39452920 TCAGAACTAG
*
39452930 AATCAAAATTAGAATCAA
1 AATCAAAATCAGAATCAA
*
39452948 AATCATAATCAGAATCAA
1 AATCAAAATCAGAATCAA
39452966 AAT
1 AAT
39452969 TAGGTGACAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.59, C:0.13, G:0.05, T:0.23
Consensus pattern (18 bp):
AATCAAAATCAGAATCAA
Found at i:39452989 original size:31 final size:31
Alignment explanation
Indices: 39452948--39453024 Score: 109
Period size: 31 Copynumber: 2.5 Consensus size: 31
39452938 TTAGAATCAA
* * *
39452948 AATCATAATCAGAATCAAAATTAGGTGACAG
1 AATCAAAATCAGAATCAAAATCAGGTAACAG
**
39452979 AATCAAAATCAGAATCAGTATCAGGTAACAG
1 AATCAAAATCAGAATCAAAATCAGGTAACAG
39453010 AATCAAAATCAGAAT
1 AATCAAAATCAGAAT
39453025 GGGAATGCAA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.51, C:0.14, G:0.14, T:0.21
Consensus pattern (31 bp):
AATCAAAATCAGAATCAAAATCAGGTAACAG
Found at i:39453021 original size:19 final size:19
Alignment explanation
Indices: 39452940--39453001 Score: 67
Period size: 18 Copynumber: 3.4 Consensus size: 19
39452930 AATCAAAATT
39452940 AGAATCAAAATCA-TAATC
1 AGAATCAAAATCAGTAATC
* *
39452958 AGAATCAAAATTAGGTGA-C
1 AGAATCAAAATCA-GTAATC
39452977 AGAATCAAAATCAG-AATC
1 AGAATCAAAATCAGTAATC
*
39452995 AGTATCA
1 AGAATCA
39453002 GGTAACAGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
17 1 0.03
18 20 0.56
19 13 0.36
20 2 0.06
ACGTcount: A:0.52, C:0.15, G:0.13, T:0.21
Consensus pattern (19 bp):
AGAATCAAAATCAGTAATC
Found at i:39453474 original size:27 final size:27
Alignment explanation
Indices: 39453456--39453560 Score: 149
Period size: 27 Copynumber: 3.9 Consensus size: 27
39453446 GGTATCTCGA
* *
39453456 TAATTCCACCCTACAAGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCAG
*
39453483 TAATTCTACCCTGCAGGGGTATTTTC-G
1 TAATTCTACCCTACAGGGGTA-TTTCAG
*
39453510 TAATTCTATCCTACAGGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCAG
*
39453537 TAATTTTACCCTACAGGGGTATTT
1 TAATTCTACCCTACAGGGGTATTT
39453561 TGGTAATTTC
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 4 0.06
27 61 0.88
28 4 0.06
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCAG
Found at i:39453523 original size:54 final size:54
Alignment explanation
Indices: 39453456--39453568 Score: 172
Period size: 54 Copynumber: 2.1 Consensus size: 54
39453446 GGTATCTCGA
*
39453456 TAATTCCACCCTACAAGGGTATTTCAGTAATTCTACCCTGCAGGGGTATTTTCG
1 TAATTCCACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTTCG
* * * * *
39453510 TAATTCTATCCTACAGGGGTATTTCAGTAATTTTACCCTACAGGGGTATTTTGG
1 TAATTCCACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTTCG
39453564 TAATT
1 TAATT
39453569 TCACAAATCA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (54 bp):
TAATTCCACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTTCG
Found at i:39453566 original size:27 final size:27
Alignment explanation
Indices: 39453431--39453598 Score: 142
Period size: 27 Copynumber: 6.2 Consensus size: 27
39453421 ACACCCTAGC
* * * *
39453431 ATTTTACCCCACAAGGGTATCTCGATA
1 ATTTTACCCTACAGGGGTATTTCGGTA
** * *
39453458 ATTCCACCCTACAAGGGTATTTCAGTA
1 ATTTTACCCTACAGGGGTATTTCGGTA
* *
39453485 ATTCTACCCTGCAGGGGTATTTTC-GTA
1 ATTTTACCCTACAGGGGTA-TTTCGGTA
* * *
39453512 ATTCTATCCTACAGGGGTATTTCAGTA
1 ATTTTACCCTACAGGGGTATTTCGGTA
*
39453539 ATTTTACCCTACAGGGGTATTTTGGTA
1 ATTTTACCCTACAGGGGTATTTCGGTA
* ** *
39453566 ATTTCA-CAAATCAGGGGTATTTTGGTA
1 ATTTTACCCTA-CAGGGGTATTTCGGTA
39453593 ATTTTA
1 ATTTTA
39453599 TTGATCGAGG
Statistics
Matches: 119, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
26 6 0.05
27 109 0.92
28 4 0.03
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.36
Consensus pattern (27 bp):
ATTTTACCCTACAGGGGTATTTCGGTA
Found at i:39453581 original size:54 final size:54
Alignment explanation
Indices: 39453472--39453598 Score: 159
Period size: 54 Copynumber: 2.4 Consensus size: 54
39453462 CACCCTACAA
* * **
39453472 GGGTATTTCAGTAATTCTACCCTGCAGGGGTATTTTCGTAATTCTATCCTACAG
1 GGGTATTTCAGTAATTTTACCCTACAGGGGTATTTTCGTAATTCTATCAAACAG
*
39453526 GGGTATTTCAGTAATTTTACCCTACAGGGGTATTTTGGTAATT-TCA-CAAATCAG
1 GGGTATTTCAGTAATTTTACCCTACAGGGGTATTTTCGTAATTCT-ATCAAA-CAG
**
39453580 GGGTATTTTGGTAATTTTA
1 GGGTATTTCAGTAATTTTA
39453599 TTGATCGAGG
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
53 3 0.05
54 61 0.95
ACGTcount: A:0.24, C:0.15, G:0.21, T:0.39
Consensus pattern (54 bp):
GGGTATTTCAGTAATTTTACCCTACAGGGGTATTTTCGTAATTCTATCAAACAG
Found at i:39453610 original size:27 final size:27
Alignment explanation
Indices: 39453496--39453651 Score: 102
Period size: 27 Copynumber: 5.8 Consensus size: 27
39453486 TTCTACCCTG
* * **
39453496 CAGGGGTATTTTCGTAATTCTATCCTA-
1 CAGGGGTATTTTGGTAATTTTA-CAAAT
** **
39453523 CAGGGGTATTTCAGTAATTTTAC-CCT
1 CAGGGGTATTTTGGTAATTTTACAAAT
*
39453549 ACAGGGGTATTTTGGTAATTTCACAAAT
1 -CAGGGGTATTTTGGTAATTTTACAAAT
***
39453577 CAGGGGTATTTTGGTAATTTTATTGAT
1 CAGGGGTATTTTGGTAATTTTACAAAT
** *
39453604 C-GAGGGTATTTTGGTAATTTTGTAAAC
1 CAG-GGGTATTTTGGTAATTTTACAAAT
** *
39453631 CAATGGTATTTTAGTAATTTT
1 CAGGGGTATTTTGGTAATTTT
39453652 GTAAATCGAG
Statistics
Matches: 103, Mismatches: 21, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
26 2 0.02
27 100 0.97
28 1 0.01
ACGTcount: A:0.26, C:0.11, G:0.21, T:0.42
Consensus pattern (27 bp):
CAGGGGTATTTTGGTAATTTTACAAAT
Found at i:39453665 original size:27 final size:27
Alignment explanation
Indices: 39453553--39453946 Score: 177
Period size: 27 Copynumber: 14.6 Consensus size: 27
39453543 TACCCTACAG
* * *
39453553 GGGTATTTTGGTAATTTCACAAATC-A
1 GGGTATTTTAGTAATTTTATAAATCGA
* **
39453579 GGGGTATTTTGGTAATTTTATTGATCGA
1 -GGGTATTTTAGTAATTTTATAAATCGA
* * * *
39453607 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTAGTAATTTTATAAATCGA
* *
39453634 TGGTATTTTAGTAATTTTGTAAATCGA
1 GGGTATTTTAGTAATTTTATAAATCGA
*** * * *
39453661 GGGTAAAATAGTAATTCTGTCAATCGA
1 GGGTATTTTAGTAATTTTATAAATCGA
*** * * * *
39453688 GGGTAAAATGGTAATTCTGTAAATTGA
1 GGGTATTTTAGTAATTTTATAAATCGA
*** *
39453715 GGGTAAAATAGTAATTTTATAAATCGC
1 GGGTATTTTAGTAATTTTATAAATCGA
*** * * *
39453742 GGGTAAAATAATAATTCTATAAATCAA
1 GGGTATTTTAGTAATTTTATAAATCGA
* **** * *
39453769 GTGTAAAACAGTAATTTTGTAATTCGA
1 GGGTATTTTAGTAATTTTATAAATCGA
* * *
39453796 GGGTACTTT-GATAATTTTACAAGTCGA
1 GGGTATTTTAG-TAATTTTATAAATCGA
* **
39453823 GGGTATTTCAGTAATTTTGCAAA-CTGA
1 GGGTATTTTAGTAATTTTATAAATC-GA
* *
39453850 GGGTATTTTGGTAATTTTACAAATCGA
1 GGGTATTTTAGTAATTTTATAAATCGA
* ** *
39453877 GGATATTTGGGTAATTTTATAAA-CCA
1 GGGTATTTTAGTAATTTTATAAATCGA
* * * * *
39453903 GAGGTACTTTGGTAATTTTA-CAACCGG
1 G-GGTATTTTAGTAATTTTATAAATCGA
*
39453930 GGGTATTTCAGTAATTT
1 GGGTATTTTAGTAATTT
39453947 AGTAAACTAA
Statistics
Matches: 294, Mismatches: 66, Indels: 15
0.78 0.18 0.04
Matches are distributed among these distances:
26 20 0.07
27 271 0.92
28 3 0.01
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.38
Consensus pattern (27 bp):
GGGTATTTTAGTAATTTTATAAATCGA
Found at i:39453814 original size:81 final size:81
Alignment explanation
Indices: 39453642--39453800 Score: 212
Period size: 81 Copynumber: 2.0 Consensus size: 81
39453632 AATGGTATTT
* * * * * **
39453642 TAGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTCAATCGAGGGTAAAATGGTAATTCTG
1 TAGTAATTTTATAAATCGAGGGTAAAATAATAATTCTATAAATCAAGGGTAAAACAGTAATTCTG
39453707 TAAATTGAGGGTAAAA
66 TAAATTGAGGGTAAAA
* * *
39453723 TAGTAATTTTATAAATCGCGGGTAAAATAATAATTCTATAAATCAAGTGTAAAACAGTAATTTTG
1 TAGTAATTTTATAAATCGAGGGTAAAATAATAATTCTATAAATCAAGGGTAAAACAGTAATTCTG
39453788 T-AATTCGAGGGTA
66 TAAATT-GAGGGTA
39453801 CTTTGATAAT
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
80 4 0.06
81 63 0.94
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (81 bp):
TAGTAATTTTATAAATCGAGGGTAAAATAATAATTCTATAAATCAAGGGTAAAACAGTAATTCTG
TAAATTGAGGGTAAAA
Found at i:39453827 original size:81 final size:81
Alignment explanation
Indices: 39453642--39453827 Score: 196
Period size: 81 Copynumber: 2.3 Consensus size: 81
39453632 AATGGTATTT
** * * * * **
39453642 TAGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTCAATCGAGGGTAAAATGGTAATTCTG
1 TAGTAATTTTACAAATCGAGGGTAAAATAATAATTCTATAAATCAAGGGTAAAACAGTAATTCTG
39453707 TAAATTGAGGGTAAAA
66 TAAATTGAGGGTAAAA
* * * *
39453723 TAGTAATTTTATAAATCGCGGGTAAAATAATAATTCTATAAATCAAGTGTAAAACAGTAATTTTG
1 TAGTAATTTTACAAATCGAGGGTAAAATAATAATTCTATAAATCAAGGGTAAAACAGTAATTCTG
**
39453788 T-AATTCGAGGGT-ACT
66 TAAATT-GAGGGTAAAA
* *
39453803 TTGATAATTTTACAAGTCGAGGGTA
1 TAG-TAATTTTACAAATCGAGGGTA
39453828 TTTCAGTAAT
Statistics
Matches: 87, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
80 7 0.08
81 80 0.92
ACGTcount: A:0.38, C:0.08, G:0.20, T:0.34
Consensus pattern (81 bp):
TAGTAATTTTACAAATCGAGGGTAAAATAATAATTCTATAAATCAAGGGTAAAACAGTAATTCTG
TAAATTGAGGGTAAAA
Found at i:39463248 original size:23 final size:23
Alignment explanation
Indices: 39463222--39463297 Score: 127
Period size: 23 Copynumber: 3.3 Consensus size: 23
39463212 CCTCACACGT
39463222 CCGTGTGGAGGCAATGCACACAC
1 CCGTGTGGAGGCAATGCACACAC
*
39463245 CCGTGTGGAGGCAATGCACACGC
1 CCGTGTGGAGGCAATGCACACAC
39463268 CCGTGTGGAGGCAATGCACACGA-
1 CCGTGTGGAGGCAATGCACAC-AC
39463291 CCGTGTG
1 CCGTGTG
39463298 CATTGGGACA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.22, C:0.29, G:0.34, T:0.14
Consensus pattern (23 bp):
CCGTGTGGAGGCAATGCACACAC
Found at i:39468849 original size:78 final size:81
Alignment explanation
Indices: 39468714--39468897 Score: 218
Period size: 78 Copynumber: 2.3 Consensus size: 81
39468704 TTGAATGATG
* *
39468714 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
39468778 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
39468793 TTCCGGGC-AAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
39468854 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
39468872 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
39468898 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
77 1 0.01
78 54 0.61
79 13 0.15
80 21 0.24
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:39468904 original size:40 final size:40
Alignment explanation
Indices: 39468714--39468897 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
39468704 TTGAATGATG
* * * *
39468714 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
39468754 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
39468794 TCCGGGC-AAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
39468832 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
39468873 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
39468898 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
38 31 0.25
39 6 0.05
40 76 0.62
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:39468929 original size:78 final size:78
Alignment explanation
Indices: 39468767--39468922 Score: 183
Period size: 78 Copynumber: 2.0 Consensus size: 78
39468757 GGACTAAGAT
* * **
39468767 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCAAGCCCGAAGGCATTTGAACGAGTTACTAAA
*
39468832 TCCGGGTTAAGTC
66 TCCGGGTTAAATC
* *
39468845 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGC-AAG-CCCGAAGGCATTTGAACGAGTTA-C
*
39468908 TATATCC-GGTTAAAT
62 TAAATCCGGGTTAAAT
39468923 TCGAAGGTAC
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
77 2 0.03
78 28 0.42
79 11 0.17
80 25 0.38
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (78 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCAAGCCCGAAGGCATTTGAACGAGTTACTAAA
TCCGGGTTAAATC
Found at i:39476770 original size:79 final size:81
Alignment explanation
Indices: 39476630--39476814 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 81
39476620 TTGAATGATG
* *
39476630 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
39476694 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * * **
39476709 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCTGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
39476771 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* * *
39476789 ACTGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
39476815 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 55 0.62
80 33 0.37
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:39476821 original size:40 final size:40
Alignment explanation
Indices: 39476633--39476814 Score: 201
Period size: 40 Copynumber: 4.6 Consensus size: 40
39476623 AATGATGTCC
* * * * *
39476633 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCT
* * * *
39476673 GGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCT
39476713 GGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCT
* *
39476752 GGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA-CT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCT
*
39476792 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
39476815 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 34 0.28
40 77 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCT
Found at i:39476836 original size:79 final size:79
Alignment explanation
Indices: 39476683--39476847 Score: 183
Period size: 79 Copynumber: 2.1 Consensus size: 79
39476673 GGACTAAGAT
* * **
39476683 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
* *
39476748 ATCTGGGTTAAGTC
66 ATCTCGGTTAAATC
* * *
39476762 CCGAAGGCAATTGTGCGAGTTACT-ATAACTGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
39476825 TATATC-CGGTTAAATT
63 TAAATCTCGGTTAAATC
39476841 CCGAAGG
1 CCGAAGG
39476848 TACGTGATTT
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.64
80 24 0.33
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCTCGGTTAAATC
Found at i:39479652 original size:53 final size:53
Alignment explanation
Indices: 39479584--39479688 Score: 192
Period size: 53 Copynumber: 2.0 Consensus size: 53
39479574 CTATGCTGTC
*
39479584 AAATTAGGTAGAACTTCTCAATAAAAAGATTGATGGTTTACTTGGTTCTACGT
1 AAATCAGGTAGAACTTCTCAATAAAAAGATTGATGGTTTACTTGGTTCTACGT
*
39479637 AAATCAGGTAGAACTTCTCAATAAAAATATTGATGGTTTACTTGGTTCTACG
1 AAATCAGGTAGAACTTCTCAATAAAAAGATTGATGGTTTACTTGGTTCTACG
39479689 CAGGTACATC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.35
Consensus pattern (53 bp):
AAATCAGGTAGAACTTCTCAATAAAAAGATTGATGGTTTACTTGGTTCTACGT
Found at i:39482088 original size:27 final size:27
Alignment explanation
Indices: 39482057--39482234 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
39482047 TAAATTGTAC
39482057 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
39482084 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
39482110 ATGCACTAAGTGTGCGAATTAACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
39482138 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
39482166 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
39482193 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
39482220 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
39482235 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 105 0.83
28 22 0.17
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:39482171 original size:82 final size:81
Alignment explanation
Indices: 39482058--39482208 Score: 232
Period size: 82 Copynumber: 1.9 Consensus size: 81
39482048 AAATTGTACA
* *
39482058 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
39482122 TGCGAATTAACCATGCG
65 TGCGAATTAACCATGCG
** *
39482139 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
39482204 TGCGA
65 TGCGA
39482209 GTTGATTATA
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.24
82 47 0.75
83 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTAACCATGCG
Found at i:39490242 original size:27 final size:27
Alignment explanation
Indices: 39490211--39490388 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
39490201 TAAATTGTAC
39490211 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
39490238 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
39490264 ATGCACTAAGTGTGCGAATTAACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
39490292 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
39490320 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
39490347 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
39490374 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
39490389 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 105 0.83
28 22 0.17
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:39490325 original size:82 final size:81
Alignment explanation
Indices: 39490212--39490362 Score: 232
Period size: 82 Copynumber: 1.9 Consensus size: 81
39490202 AAATTGTACA
* *
39490212 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
39490276 TGCGAATTAACCATGCG
65 TGCGAATTAACCATGCG
** *
39490293 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
39490358 TGCGA
65 TGCGA
39490363 GTTGATTATA
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.24
82 47 0.75
83 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTAACCATGCG
Found at i:39492954 original size:15 final size:16
Alignment explanation
Indices: 39492934--39492963 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
39492924 GAAAATTGCC
39492934 AAAATGGG-CTAAATA
1 AAAATGGGACTAAATA
39492949 AAAATGGGACTAAAT
1 AAAATGGGACTAAAT
39492964 TGGAATATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.53, C:0.07, G:0.20, T:0.20
Consensus pattern (16 bp):
AAAATGGGACTAAATA
Found at i:39495894 original size:47 final size:47
Alignment explanation
Indices: 39495825--39496344 Score: 799
Period size: 47 Copynumber: 11.1 Consensus size: 47
39495815 GAAATGATAG
39495825 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * *
39495872 TAAGGCCTAATAGCCGACGTGATGAATGTGAATGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
39495919 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
39495966 TAAGGCCAAATGGTCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
39496013 TAAGGCCAAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
39496060 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
39496107 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAGATAGGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
39496154 TAAGGCCTAATAGCCGATGAGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39496201 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39496248 TAAGGCCTAATGGCCGATGTG-TGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * *
39496294 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39496341 TAAG
1 TAAG
39496345 TCCCGAAGGG
Statistics
Matches: 439, Mismatches: 33, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
46 40 0.09
47 399 0.91
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:39505158 original size:21 final size:21
Alignment explanation
Indices: 39505134--39505175 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
39505124 TCATCAGATC
*
39505134 TACACCTTGAGGCATCGGGGG
1 TACACCTTGAGGAATCGGGGG
**
39505155 TACAGGTTGAGGAATCGGGGG
1 TACACCTTGAGGAATCGGGGG
39505176 AGGTGGGGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.21, C:0.17, G:0.43, T:0.19
Consensus pattern (21 bp):
TACACCTTGAGGAATCGGGGG
Found at i:39506539 original size:49 final size:50
Alignment explanation
Indices: 39506414--39506572 Score: 200
Period size: 49 Copynumber: 3.2 Consensus size: 50
39506404 CTAGTACGCA
* *
39506414 TAGTAGCCTGCACATAGTACTACACA--TGCAAACAATTATCCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGC-AACAATTATCCGGTACACG
*
39506463 TAGTAGCCTGCACTTAGTACTACACACGTGC-ACAATTATTCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGCAACAATTATCCGGTACACG
* ** * *
39506512 TAGTAGCCTGCACTTAGTACTACACACGTG-ACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGCAAC-AATTATCCGGTACACG
39506562 TAGTAGCCTGC
1 TAGTAGCCTGC
39506573 GGAACTTATG
Statistics
Matches: 97, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
49 72 0.74
50 22 0.23
51 3 0.03
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGCAACAATTATCCGGTACACG
Found at i:39523323 original size:79 final size:81
Alignment explanation
Indices: 39523187--39523371 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
39523177 TTGAATGATG
* *
39523187 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
39523251 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
39523266 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
39523328 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
39523346 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
39523372 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:39523385 original size:40 final size:40
Alignment explanation
Indices: 39523188--39523371 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
39523178 TGAATGATGT
* * * *
39523188 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
39523228 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
39523268 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
39523306 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
39523347 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
39523372 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:39523393 original size:79 final size:79
Alignment explanation
Indices: 39523240--39523394 Score: 199
Period size: 79 Copynumber: 2.0 Consensus size: 79
39523230 GGACTAAGAT
* * **
39523240 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
39523305 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* *
39523319 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
*
39523382 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
39523395 ATTTGAAGGT
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
78 2 0.03
79 39 0.59
80 25 0.38
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:39528392 original size:49 final size:49
Alignment explanation
Indices: 39528330--39528570 Score: 302
Period size: 49 Copynumber: 4.9 Consensus size: 49
39528320 CAAAGCTATT
* * * *
39528330 TGGTACGCATAGTAGCCTGTACTTAGTACTACACATGCGACCAATTATC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATC
* * **
39528379 CGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATC
* * *
39528429 TGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATC
* * * * *
39528480 AGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATTATC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATC
*
39528529 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
39528571 TCACAACAGA
Statistics
Matches: 162, Mismatches: 27, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
49 77 0.48
50 48 0.30
51 37 0.23
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (49 bp):
TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATC
Found at i:39528561 original size:100 final size:99
Alignment explanation
Indices: 39528330--39528570 Score: 322
Period size: 100 Copynumber: 2.4 Consensus size: 99
39528320 CAAAGCTATT
* * * * * * *
39528330 TGGTACGCATAGTAGCCTGTACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAGC
* *
39528395 CTGCACTTAGTACTACACACGTGACCTAACCATC
66 CTACACTTAGTACTACACACGCGACCTAACCATC
* * *
39528429 TGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCATAGTA
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCAGGTACACATAGTA
* **
39528494 GCCTACACTTAGTACTACACATGCGACC-AATTATC
64 GCCTACACTTAGTACTACACACGCGACCTAACCATC
39528529 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
39528571 TCACAACAGA
Statistics
Matches: 123, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
99 35 0.28
100 47 0.38
101 41 0.33
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (99 bp):
TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAGC
CTACACTTAGTACTACACACGCGACCTAACCATC
Found at i:39538887 original size:53 final size:53
Alignment explanation
Indices: 39538802--39538946 Score: 155
Period size: 53 Copynumber: 2.7 Consensus size: 53
39538792 TTGCTTTTTA
* * * * *
39538802 AACTTACCATTGCCATGTCTTGACATGTTCTTACGTGGTATCCTTGCCTTATG
1 AACTCACCATTGCCATGCCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
* *
39538855 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAG
1 AACTCACCATTGCCATGCCTTGACATGGTCTTACATGGGATCCTTGCCTTAT-G
** * * * *
39538909 CAGTTTATCAATGCCATGTCTTGACATGGTCTTACATG
1 -AACTCACCATTGCCATGCCTTGACATGGTCTTACATG
39538947 ATTTTATTTC
Statistics
Matches: 76, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
53 45 0.59
54 1 0.01
55 30 0.39
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.37
Consensus pattern (53 bp):
AACTCACCATTGCCATGCCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
Found at i:39541308 original size:29 final size:29
Alignment explanation
Indices: 39541266--39541416 Score: 180
Period size: 29 Copynumber: 5.2 Consensus size: 29
39541256 CGTATCGACA
* *
39541266 ACCATCGAATATGAAAAAGGATGGTGGCG
1 ACCATCGAATATGAAAAGGGATGGTGTCG
39541295 ACCATCGAATATGAAAAGGGATGGCT-TCG
1 ACCATCGAATATGAAAAGGGATGG-TGTCG
* * * *
39541324 ACCATCAAATATGAAAAGAGATAGTGACG
1 ACCATCGAATATGAAAAGGGATGGTGTCG
*
39541353 ACCATCGAATATG-AAAGGGAATGGTTTCG
1 ACCATCGAATATGAAAAGGG-ATGGTGTCG
* * *
39541382 ATCATCGAATATGAAAAGGGATAGTTTCG
1 ACCATCGAATATGAAAAGGGATGGTGTCG
39541411 ACCATC
1 ACCATC
39541417 ATTTAGCACA
Statistics
Matches: 104, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
28 6 0.06
29 91 0.88
30 7 0.07
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.21
Consensus pattern (29 bp):
ACCATCGAATATGAAAAGGGATGGTGTCG
Found at i:39548327 original size:93 final size:93
Alignment explanation
Indices: 39548168--39548338 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
39548158 GGATAGTTGA
* * * * *
39548168 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACCTACGGATGCGAACGCCCGAACTCATTGAGT
39548233 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
39548261 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACCTACGGATGCGAACGCCCGAACTCATTGAGT
39548326 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
39548339 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.27
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACCTACGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:39548341 original size:46 final size:45
Alignment explanation
Indices: 39548172--39548345 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 45
39548162 AGTTGAGCAT
* * *
39548172 CCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCGAACGC
* * *
39548218 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCGAAC---GC
*
39548263 ATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCGAACGC
* *
39548311 CCGAGCTCATTGAGTTGAGTCCGAGTTCACTTAGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGG
39548346 GGCGGGTTAC
Statistics
Matches: 106, Mismatches: 13, Indels: 19
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 4 0.04
46 58 0.55
47 27 0.25
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.27
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCGAACGC
Found at i:39554890 original size:16 final size:16
Alignment explanation
Indices: 39554842--39554884 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
39554832 GTAGATCGGC
* **
39554842 AAAAGCCGAAATGCTG
1 AAAAGCCAAAATATTG
*
39554858 AAAAGCTAAAATATTG
1 AAAAGCCAAAATATTG
39554874 AAAAGCCAAAA
1 AAAAGCCAAAA
39554885 GTTTGACTAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.56, C:0.14, G:0.16, T:0.14
Consensus pattern (16 bp):
AAAAGCCAAAATATTG
Found at i:39555153 original size:28 final size:28
Alignment explanation
Indices: 39555089--39555177 Score: 117
Period size: 28 Copynumber: 3.1 Consensus size: 28
39555079 TGAGCATGAC
* *
39555089 TATACATGTGAATTGGGCCTGATGGGCCA
1 TATAAATGTG-ATTGGGCCTAATGGGCCA
*
39555118 TATAAATGTGATTTGGGCTTAAT-GGCCA
1 TATAAATGTGA-TTGGGCCTAATGGGCCA
*
39555146 TATAAATGTGATTGGGCCTAGTGGGCCA
1 TATAAATGTGATTGGGCCTAATGGGCCA
39555174 TATA
1 TATA
39555178 CAGGTATGTG
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
27 9 0.17
28 26 0.49
29 18 0.34
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.31
Consensus pattern (28 bp):
TATAAATGTGATTGGGCCTAATGGGCCA
Found at i:39557076 original size:40 final size:40
Alignment explanation
Indices: 39557024--39557295 Score: 454
Period size: 40 Copynumber: 6.8 Consensus size: 40
39557014 ATAACCACAA
* * * *
39557024 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
39557064 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
39557104 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
39557144 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATGTCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATA--TCAACTC
39557186 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
39557226 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
39557266 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
39557296 GTATTCAAAT
Statistics
Matches: 219, Mismatches: 11, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
40 179 0.82
42 40 0.18
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:39557215 original size:122 final size:122
Alignment explanation
Indices: 39557024--39557303 Score: 467
Period size: 122 Copynumber: 2.3 Consensus size: 122
39557014 ATAACCACAA
* * * *
39557024 GCACAATTGCCTTCGGGTCTTAACCCGGGTATA-G-CAACTCGCACGAATGCCTTCGGGTCTTAG
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATGTCAACTCGCACAAATGCCTTCGGGTCTTAG
* *
39557087 CCCGGATATATCAACTTGCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTC
66 CCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
39557144 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATGTCAACTCGCACAAATGCCTTCGGGTCTTAG
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATGTCAACTCGCACAAATGCCTTCGGGTCTTAG
*
39557209 CCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
66 CCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
39557266 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAT-TCAA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATGTCAA
39557304 ATGCTCATGC
Statistics
Matches: 150, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
120 30 0.20
121 5 0.03
122 115 0.77
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (122 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATGTCAACTCGCACAAATGCCTTCGGGTCTTAG
CCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:39563242 original size:37 final size:37
Alignment explanation
Indices: 39563192--39563270 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
39563182 TTATTACGAA
* * *
39563192 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
39563229 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
39563266 GTCTT
1 GTCTT
39563271 TAGAGCTCGA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:39563466 original size:47 final size:47
Alignment explanation
Indices: 39563388--39563822 Score: 685
Period size: 47 Copynumber: 9.2 Consensus size: 47
39563378 CCCTTCGGGA
* * * * * *
39563388 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
39563435 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
39563482 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39563531 CTTATCGCACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
39563578 CTTATCAC--ATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39563623 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGC
39563672 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
39563719 CCTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTA-TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39563767 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39563814 CTTATCACA
1 CTTATCACA
39563823 ATTTAGAATT
Statistics
Matches: 360, Mismatches: 21, Indels: 14
0.91 0.05 0.04
Matches are distributed among these distances:
45 44 0.12
47 180 0.50
48 46 0.13
49 90 0.25
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:39563550 original size:96 final size:94
Alignment explanation
Indices: 39563388--39563822 Score: 685
Period size: 96 Copynumber: 4.6 Consensus size: 94
39563378 CCCTTCGGGA
* * * * * * * *
39563388 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
39563453 TTTCACATTCATCACATCGGCCATTAAGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* * *
39563482 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCGCACATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
39563547 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
39563578 CTTATCAC--ATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT--AC
39563641 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
39563672 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATTCACATATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA-TCACATATATACA
39563737 CTTTCACATTCATCACATCGGCCATTAGGC
65 CTTTCACATTCATCACATCGGCCATTAGGC
39563767 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
39563823 ATTTAGAATT
Statistics
Matches: 315, Mismatches: 19, Indels: 14
0.91 0.05 0.04
Matches are distributed among these distances:
92 47 0.15
94 54 0.17
95 83 0.26
96 121 0.38
97 10 0.03
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.31
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:39563565 original size:23 final size:23
Alignment explanation
Indices: 39563538--39563610 Score: 62
Period size: 23 Copynumber: 3.2 Consensus size: 23
39563528 GGCCTTATCG
39563538 CACATATACACTTTCACATTCAT
1 CACATATACACTTTCACATTCAT
*** * *
39563561 CACATCGGC-CATT-AGGCCTT-AT
1 CACATATACACTTTCA--CATTCAT
39563583 CACATATACACTTTCACATTCAT
1 CACATATACACTTTCACATTCAT
39563606 CACAT
1 CACAT
39563611 CGGCCATTAA
Statistics
Matches: 35, Mismatches: 10, Indels: 10
0.64 0.18 0.18
Matches are distributed among these distances:
21 1 0.03
22 14 0.40
23 19 0.54
24 1 0.03
ACGTcount: A:0.32, C:0.32, G:0.05, T:0.32
Consensus pattern (23 bp):
CACATATACACTTTCACATTCAT
Found at i:39563632 original size:22 final size:22
Alignment explanation
Indices: 39563559--39563632 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
39563549 TTTCACATTC
*
39563559 ATCACATCGGCCATTAGGCCTT
1 ATCACATCGGCCATTAAGCCTT
*** * * *
39563581 ATCACATATACACTTTCA-CATT
1 ATCACATCGGC-CATTAAGCCTT
39563603 CATCACATCGGCCATTAAGCCTT
1 -ATCACATCGGCCATTAAGCCTT
39563626 ATCACAT
1 ATCACAT
39563633 ATATACACAC
Statistics
Matches: 36, Mismatches: 13, Indels: 6
0.65 0.24 0.11
Matches are distributed among these distances:
22 22 0.61
23 14 0.39
ACGTcount: A:0.30, C:0.31, G:0.09, T:0.30
Consensus pattern (22 bp):
ATCACATCGGCCATTAAGCCTT
Found at i:39566686 original size:27 final size:27
Alignment explanation
Indices: 39566653--39566922 Score: 353
Period size: 27 Copynumber: 10.0 Consensus size: 27
39566643 ATAAAGTACT
*
39566653 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
39566680 GACATACCCCTGTAAGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
39566707 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
39566734 GAAATACCTCTGTAAGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
39566761 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
39566788 GAAACACCCCTGTAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
39566815 GAAATACCCTTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
39566842 AAAATACCCCTATAGGGTGGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
39566869 AAAATACCCCTGTAGGGTGGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
39566896 GAGATACCCTTGT-GAGGTAAAATTACC
1 GAAATACCCCTGTAG-GGTAGAATTACC
39566923 ATTTTGCCCC
Statistics
Matches: 214, Mismatches: 28, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
26 1 0.00
27 213 1.00
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.24
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:39567342 original size:12 final size:12
Alignment explanation
Indices: 39567325--39567412 Score: 56
Period size: 12 Copynumber: 7.2 Consensus size: 12
39567315 TTGCATTCCC
*
39567325 ATTCTGATTTTG
1 ATTCTGATTCTG
39567337 ATTCTG-TTACCTG
1 ATTCTGATT--CTG
*
39567350 ATACTGATTCTG
1 ATTCTGATTCTG
* *
39567362 ACTCTGATTTTG
1 ATTCTGATTCTG
* *
39567374 -TCACCTGATTCTA
1 AT--TCTGATTCTG
39567387 ATTCTGATTCTG
1 ATTCTGATTCTG
39567399 ATTCT-AGTTCTG
1 ATTCTGA-TTCTG
39567411 AT
1 AT
39567413 AATGTTTCTT
Statistics
Matches: 58, Mismatches: 11, Indels: 14
0.70 0.13 0.17
Matches are distributed among these distances:
11 3 0.05
12 38 0.66
13 14 0.24
14 3 0.05
ACGTcount: A:0.19, C:0.18, G:0.15, T:0.48
Consensus pattern (12 bp):
ATTCTGATTCTG
Found at i:39567370 original size:31 final size:31
Alignment explanation
Indices: 39567325--39567403 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
39567315 TTGCATTCCC
* * *
39567325 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTA
* * *
39567356 ATTCTGACTCTGATTTTGTCACCTGATTCTA
1 ATTCTGATTCTGATTCTGTCACCTGATACTA
39567387 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
39567404 AGTTCTGATA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTA
Found at i:39567401 original size:18 final size:18
Alignment explanation
Indices: 39567378--39567412 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
39567368 ATTTTGTCAC
39567378 CTGATTCTAATTCTGATT
1 CTGATTCTAATTCTGATT
*
39567396 CTGATTCTAGTTCTGAT
1 CTGATTCTAATTCTGAT
39567413 AATGTTTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (18 bp):
CTGATTCTAATTCTGATT
Found at i:39569372 original size:28 final size:28
Alignment explanation
Indices: 39569290--39569379 Score: 128
Period size: 29 Copynumber: 3.1 Consensus size: 28
39569280 TGAGCATGAC
39569290 TATAAATGTGAATTGGGCCT-GATGGGCCA
1 TATAAATGTG-ATTGGGCCTAG-TGGGCCA
* *
39569319 TATAAATGTAATTTGGGCCTAATGGGCCA
1 TATAAATGTGA-TTGGGCCTAGTGGGCCA
39569348 TATAAATGTGATTGGGCCTAGTGGGCCA
1 TATAAATGTGATTGGGCCTAGTGGGCCA
39569376 TATA
1 TATA
39569380 CAGGTATGTG
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
28 21 0.38
29 34 0.62
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.30
Consensus pattern (28 bp):
TATAAATGTGATTGGGCCTAGTGGGCCA
Found at i:39570989 original size:46 final size:46
Alignment explanation
Indices: 39570933--39571105 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
39570923 TGGTTGAGCA
39570933 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
39570979 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
* *
39571024 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * *
39571072 CCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
39571106 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 59 0.55
47 29 0.27
48 4 0.04
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:39571089 original size:93 final size:93
Alignment explanation
Indices: 39570930--39571100 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
39570920 GGATGGTTGA
*
39570930 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
*
39570995 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCAAGTTCGTGAGATGTAACTAG
* * *
39571023 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
39571088 TGAGTCCAAGTTC
66 TGAGTCCAAGTTC
39571101 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
TGAGTCCAAGTTCGTGAGATGTAACTAG
Found at i:39574800 original size:15 final size:15
Alignment explanation
Indices: 39574780--39574808 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
39574770 TGAAATTATG
39574780 TTTGAATATGTTTAA
1 TTTGAATATGTTTAA
39574795 TTTGAATATGTTTA
1 TTTGAATATGTTTA
39574809 GATCAAGAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (15 bp):
TTTGAATATGTTTAA
Found at i:39575170 original size:43 final size:42
Alignment explanation
Indices: 39575122--39575276 Score: 147
Period size: 43 Copynumber: 3.7 Consensus size: 42
39575112 TGTGTTCTCA
39575122 TGTAAGACCACGTCTGGGACGTTGGCATCAATATGTGATTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATC-ATATGTGATTACG
* * * * *
39575165 TGTAAGACCATGTCTGGGACATCGGTATCATATTTGATT-CG
1 TGTAAGACCACGTCTGGGACGTTGGCATCATATGTGATTACG
* * * * *
39575206 TGTAAGACC-CTGTCTAGGACAG-AGGCAACGATATGAGA-TAGCA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATC-ATATGTGATTA-CG
39575249 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
39575277 TGTACGATAT
Statistics
Matches: 88, Mismatches: 17, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
41 24 0.27
42 16 0.18
43 47 0.53
44 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCATATGTGATTACG
Found at i:39592428 original size:47 final size:47
Alignment explanation
Indices: 39592321--39592998 Score: 1007
Period size: 47 Copynumber: 14.1 Consensus size: 47
39592311 GAAATGATAG
39592321 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
39592370 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
39592417 TAAGGCCTAATGGCAGATGTGATGAATGTGAAAGTGTATATATGAT-A
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG-TGA
* *
39592464 TAAGGCCTAATGGCCAATGTGATGAGTGTGAAAGTGTATATATAGATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT--ATGTGA
39592515 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
39592564 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG----TATATATGTGA
*
39592615 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
39592662 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
39592709 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCGTATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
39592756 TAAAGCCTAATGGCCGATGTGATGAATGTGAAAGCGTATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39592803 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG----TATATATGTGA
*
39592854 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39592901 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * *
39592948 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39592995 TAAG
1 TAAG
39592999 TCCCGAAGGG
Statistics
Matches: 587, Mismatches: 30, Indels: 26
0.91 0.05 0.04
Matches are distributed among these distances:
47 363 0.62
48 1 0.00
49 83 0.14
50 1 0.00
51 139 0.24
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:39592604 original size:145 final size:144
Alignment explanation
Indices: 39592314--39592998 Score: 964
Period size: 145 Copynumber: 4.8 Consensus size: 144
39592304 CGAATATGAA
39592314 ATGATAGTAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
1 ATGATA-TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
* *
39592379 ATGGCCGATGTGATGAATGTGAAAGTG--TATATACGTGATAAGGCCTAATGGCAGATGTGATGA
65 ATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
39592442 ATGTGAAAGTGTATAT
130 ATGTGAAAGTG-ATAT
* *
39592458 ATGATATAAGGCCTAATGGCCAATGTGATGAGTGTGAAAGTGTATATATAGATGTGATAAGGCCT
1 ATGATATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT--ATGTGATAAGGCCT
39592523 AATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
64 AATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
39592588 AATGTGAAAGTGTATAT
129 AATGTGAAAGTG-ATAT
* *
39592605 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATACGTGATAAGGC
1 AT-GA--T-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
* *
39592668 CTAATGGCCGATGTGATGAATGTGAAAATG--TATATACGTGATAAGGCCTAATGGCCGATGTGA
62 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGA
*
39592731 TGAATGTGAAAGCGTATAT
127 TGAATGTGAAAGTG-ATAT
* * * *
39592750 ATGAGATAAAGCCTAATGGCCGATGTGATGAATGTGAAAGCG--TATATATGAGATAAGGCCTAA
1 ATGATATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
*
39592813 TGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAGGGCCTAATGGCCGATGTGATG
66 TGGCCGATGTGATGAATGTGAAAGTG--TATATATATGTGATAAGGCCTAATGGCCGATGTGATG
39592878 AATGTGAAAGTGTATAT
129 AATGTGAAAGTG-ATAT
* * *
39592895 ATG-TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCCGA
1 ATGAT-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
* * * *
39592957 GTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
65 ATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
39592999 TCCCGAAGGG
Statistics
Matches: 495, Mismatches: 33, Indels: 29
0.89 0.06 0.05
Matches are distributed among these distances:
141 88 0.18
142 1 0.00
143 45 0.09
144 7 0.01
145 220 0.44
147 92 0.19
148 1 0.00
149 5 0.01
150 1 0.00
151 35 0.07
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.28
Consensus pattern (144 bp):
ATGATATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
TGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
TGTGAAAGTGATAT
Found at i:39595135 original size:29 final size:29
Alignment explanation
Indices: 39595100--39595173 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
39595090 GTTGTGAGAT
* *
39595100 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
39595129 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
39595158 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
39595174 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:39595587 original size:39 final size:40
Alignment explanation
Indices: 39595486--39595629 Score: 145
Period size: 40 Copynumber: 3.6 Consensus size: 40
39595476 TCGAATGATG
* *
39595486 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
39595525 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
* * * *
39595566 TCCGGGCTAAG-CCCGAAGGCATTGGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
39595605 TCCGGGCTAAGTCCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAG-GCATT
39595630 CATGCTAGTG
Statistics
Matches: 89, Mismatches: 8, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
39 34 0.38
40 37 0.42
41 17 0.19
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:39595648 original size:40 final size:40
Alignment explanation
Indices: 39595566--39595720 Score: 172
Period size: 40 Copynumber: 3.9 Consensus size: 40
39595556 AGATACTAAT
** * *
39595566 TCCGGGCTAAG-CCCGAAG-GCATTGGTG-TGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTG-GTGA-TATA
* *
39595605 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTGGTGATATA
* * *
39595645 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTGGTGATATA
* *
39595685 TCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTGGTGA
39595721 CGTGTATTCG
Statistics
Matches: 97, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
39 11 0.11
40 75 0.77
41 10 0.10
42 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTGGTGATATA
Found at i:39595649 original size:79 final size:80
Alignment explanation
Indices: 39595566--39595720 Score: 201
Period size: 80 Copynumber: 1.9 Consensus size: 80
39595556 AGATACTAAT
*
39595566 TCCGGGCTAAG-CCCGAAG-GCATTGGTG-TGAGT-TACTAAATCCGGGCTAAGTCCCGAAGAGC
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTG-GTGT--TAAATCCGGGCTAAGTCCCGAAGAGC
*
39595627 ATTCATGCTAGTGATGTA
63 AATCATGCTAGTGATGTA
* * *
39595645 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAGGTCCCGAAGAGCAAT
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAAATCCGGGCTAAGTCCCGAAGAGCAAT
*
39595710 CATGCTGGTGA
66 CATGCTAGTGA
39595721 CGTGTATTCG
Statistics
Matches: 66, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
79 11 0.17
80 42 0.64
81 10 0.15
82 3 0.05
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAAATCCGGGCTAAGTCCCGAAGAGCAAT
CATGCTAGTGATGTA
Found at i:39599673 original size:47 final size:47
Alignment explanation
Indices: 39599566--39600289 Score: 1133
Period size: 47 Copynumber: 15.1 Consensus size: 47
39599556 GAAATGATAG
39599566 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
39599615 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
39599662 TAAGGCCTAATGGCCGATGTGATGAATATGAAAGTGTATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39599709 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATAGATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT--ATGTGA
39599760 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
39599809 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
39599856 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
39599903 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCGTATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
39599950 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATAT-GTGA
*
39600000 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
39600047 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCGTATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39600094 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG----TATATATGTGA
*
39600145 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39600192 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * *
39600239 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39600286 TAAG
1 TAAG
39600290 TCCCGAAGGG
Statistics
Matches: 632, Mismatches: 32, Indels: 24
0.92 0.05 0.03
Matches are distributed among these distances:
47 405 0.64
48 7 0.01
49 90 0.14
50 37 0.06
51 93 0.15
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:39604113 original size:40 final size:40
Alignment explanation
Indices: 39604069--39604144 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
39604059 CAGCTAAGAA
39604069 TGGCACTT-A-GTGTGCAGTTTGAAATAGCTTCAGCTAAATG
1 TGGCACTTGATGTGTG-A-TTTGAAATAGCTTCAGCTAAATG
* *
39604109 TGGCACTTGATGTGTGATTTGAGATAGCTTCGGCTA
1 TGGCACTTGATGTGTGATTTGAAATAGCTTCAGCTA
39604145 TATACATATA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
40 25 0.78
41 2 0.06
42 5 0.16
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (40 bp):
TGGCACTTGATGTGTGATTTGAAATAGCTTCAGCTAAATG
Found at i:39604238 original size:28 final size:28
Alignment explanation
Indices: 39604171--39604241 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
39604161 TATATGTGGC
* * * *
39604171 ACTTAGTGTTCAAAATATTGAGAATGGC
1 ACTTAGTGTGCGAGATATTGAGAATGGA
* * *
39604199 ATTTGGTGTGCGAGATATTGAGTATGGA
1 ACTTAGTGTGCGAGATATTGAGAATGGA
39604227 ACTTAGTGTGCGAGA
1 ACTTAGTGTGCGAGA
39604242 CATCGAAGAT
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.30, C:0.08, G:0.30, T:0.32
Consensus pattern (28 bp):
ACTTAGTGTGCGAGATATTGAGAATGGA
Found at i:39618791 original size:39 final size:39
Alignment explanation
Indices: 39618723--39618872 Score: 248
Period size: 39 Copynumber: 3.8 Consensus size: 39
39618713 CCGGATATAA
*
39618723 CACGAATGCCTTCGAGG-CTTAACCCGGATATAACACCAG
1 CACGAATGCCTTCG-GGACTTAGCCCGGATATAACACCAG
*
39618762 CACGAATGCCTTCGGGACTTAGCCTGGATATAACACCAG
1 CACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAG
39618801 CACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAG
1 CACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAG
* *
39618840 CATGAATGCCTTCAGGACTTAGCCCGGATATAA
1 CACGAATGCCTTCGGGACTTAGCCCGGATATAA
39618873 TTCTCCATTA
Statistics
Matches: 105, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
38 2 0.02
39 103 0.98
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (39 bp):
CACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAG
Found at i:39619411 original size:110 final size:103
Alignment explanation
Indices: 39619205--39619417 Score: 354
Period size: 103 Copynumber: 2.0 Consensus size: 103
39619195 TGTGGATAGG
39619205 CTACTCGATTGCTTTCTCCTTTCCCCTATCTGATTTAGTTCCTCTTTGCTCTTGAATTTAAACAA
1 CTACTCGATTGCTTTCTCCTTTCCCCTATCTGATTTAGTTCCTCTTTGCTCTTGAATTTAAACAA
39619270 ATGAATTTGTTTAATTACTTACTCAACTTTAATTCTAT
66 ATGAATTTGTTTAATTACTTACTCAACTTTAATTCTAT
39619308 CTACTCGATTGCTTTCTCCTTTCCCCTATCTGATTTAGTTCCTCTTTGCTCTTGAGCTTTAAATT
1 CTACTCGATTGCTTTCTCCTTTCCCCTATCTGATTTAGTTCCTCTTTGCTCTT--G-----AATT
*
39619373 TAAACAAATGAATTTGTTTAATTACTTACTCAAGTTTAATTCTAT
59 TAAACAAATGAATTTGTTTAATTACTTACTCAACTTTAATTCTAT
39619418 AATAGTCACA
Statistics
Matches: 102, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
103 53 0.52
105 1 0.01
110 48 0.47
ACGTcount: A:0.23, C:0.22, G:0.08, T:0.46
Consensus pattern (103 bp):
CTACTCGATTGCTTTCTCCTTTCCCCTATCTGATTTAGTTCCTCTTTGCTCTTGAATTTAAACAA
ATGAATTTGTTTAATTACTTACTCAACTTTAATTCTAT
Found at i:39623952 original size:26 final size:25
Alignment explanation
Indices: 39623908--39623956 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
39623898 TTATAACATG
* *
39623908 AAAATGACCATTTTGCCCCCTAGGTA
1 AAAATGACCATTAT-ACCCCTAGGTA
*
39623934 AAAATGACTATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
39623957 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 8 0.40
26 12 0.60
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:39624059 original size:20 final size:20
Alignment explanation
Indices: 39623993--39624059 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
39623983 ATTTTGATAA
*
39623993 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
39624013 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
39624033 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
39624053 ACGTGAT
1 ACATGAT
39624060 GTAATCATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:39624229 original size:23 final size:23
Alignment explanation
Indices: 39624110--39624227 Score: 193
Period size: 23 Copynumber: 5.1 Consensus size: 23
39624100 AGGAAATGAA
*
39624110 AAAGGGCTTGTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
39624133 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
39624156 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
39624179 AAAGGGCTTATACCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
39624202 AAAAGGGCTTTTG-CCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
39624225 AAA
1 AAA
39624228 AGAGGCTAGG
Statistics
Matches: 90, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
22 3 0.03
23 77 0.86
24 10 0.11
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:39624477 original size:31 final size:31
Alignment explanation
Indices: 39624442--39624505 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
39624432 CGTTTACAGT
*
39624442 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
39624473 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
39624504 AA
1 AA
39624506 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:39639327 original size:27 final size:27
Alignment explanation
Indices: 39639296--39639470 Score: 181
Period size: 27 Copynumber: 6.4 Consensus size: 27
39639286 TAAATTGTAC
39639296 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * ** *
39639323 TGCACTAAGTGTACGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
39639349 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
39639377 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* **
39639405 AGCACTAAGTGTGCGATTTGATTACAT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
39639432 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
39639459 AGCACTGAGTGT
1 AGCACTAAGTGT
39639471 ACGGACTCAA
Statistics
Matches: 124, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 101 0.81
28 23 0.19
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:39639410 original size:82 final size:81
Alignment explanation
Indices: 39639297--39639452 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
39639287 AAATTGTACA
* *
39639297 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTACGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTACGAAATGAATA-CATAGCACTAAGTG
39639361 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
39639378 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACATAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTACGAAATGAATACATAGCACTAAGTG
*
39639443 TGCGAGTTGA
65 TGCGAATTGA
39639453 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 17 0.26
82 49 0.74
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTACGAAATGAATACATAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:39639464 original size:82 final size:81
Alignment explanation
Indices: 39639293--39639470 Score: 214
Period size: 82 Copynumber: 2.2 Consensus size: 81
39639283 GATTAAATTG
* *
39639293 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTACGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTACGAAATGAATATCATGCACTAA
39639358 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
39639374 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTA-CATAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTACGAAATGAATATCAT-GCACT
* **
39639438 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
39639456 TATAGCACTGAGTGT
1 TACAGCACTAAGTGT
39639471 ACGGACTCAA
Statistics
Matches: 80, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 19 0.24
82 61 0.76
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTACGAAATGAATATCATGCACTAA
GTGTGCGAATTGACCA
Found at i:39641231 original size:46 final size:47
Alignment explanation
Indices: 39641133--39641281 Score: 167
Period size: 47 Copynumber: 3.2 Consensus size: 47
39641123 ACATAGTCAT
* * ** * * *
39641133 ATATCACATACCGAGGCCATAGCCCAGCCATGGTCTTACAC-GGATCAC
1 ATATCAC--ACCGATGCCATATCCCAGATATGGTCTTATACAGAAGCAC
* *
39641181 ATATCACACTGATGCCAT-TCCCAGATATGGTCTTATACAGTAGCAC
1 ATATCACACCGATGCCATATCCCAGATATGGTCTTATACAGAAGCAC
* *
39641227 ATATCACACCGATGCCATATCCCGGATATGGTCTTATACGGAAGCAC
1 ATATCACACCGATGCCATATCCCAGATATGGTCTTATACAGAAGCAC
39641274 ATATCACA
1 ATATCACA
39641282 TTTCTCCGAA
Statistics
Matches: 87, Mismatches: 12, Indels: 5
0.84 0.12 0.05
Matches are distributed among these distances:
45 16 0.18
46 31 0.36
47 33 0.38
48 7 0.08
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (47 bp):
ATATCACACCGATGCCATATCCCAGATATGGTCTTATACAGAAGCAC
Found at i:39641273 original size:47 final size:45
Alignment explanation
Indices: 39641162--39641281 Score: 168
Period size: 47 Copynumber: 2.6 Consensus size: 45
39641152 TAGCCCAGCC
* * *
39641162 ATGGTCTTACACGGATCACATATCACACTGATGCCATTCCCAGAT
1 ATGGTCTTATACGGAGCACATATCACACCGATGCCATTCCCAGAT
* *
39641207 ATGGTCTTATACAGTAGCACATATCACACCGATGCCATATCCCGGAT
1 ATGGTCTTATAC-GGAGCACATATCACACCGATGCCAT-TCCCAGAT
39641254 ATGGTCTTATACGGAAGCACATATCACA
1 ATGGTCTTATACGG-AGCACATATCACA
39641282 TTTCTCCGAA
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
45 11 0.17
46 23 0.35
47 32 0.48
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.26
Consensus pattern (45 bp):
ATGGTCTTATACGGAGCACATATCACACCGATGCCATTCCCAGAT
Found at i:39644303 original size:48 final size:48
Alignment explanation
Indices: 39644232--39644328 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
39644222 TCGGTTAGGG
39644232 TAGATAAACTGTATAGAGATGTGCCTATAGAAACTCAAGGAAAAGTTT
1 TAGATAAACTGTATAGAGATGTGCCTATAGAAACTCAAGGAAAAGTTT
39644280 TAGATAAACTGTATAGAGATGTGCCTATAGAAACTCAAGGAAAAGTTT
1 TAGATAAACTGTATAGAGATGTGCCTATAGAAACTCAAGGAAAAGTTT
39644328 T
1 T
39644329 CTCTGAGGAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.28
Consensus pattern (48 bp):
TAGATAAACTGTATAGAGATGTGCCTATAGAAACTCAAGGAAAAGTTT
Found at i:39645976 original size:40 final size:40
Alignment explanation
Indices: 39645895--39646111 Score: 314
Period size: 40 Copynumber: 5.5 Consensus size: 40
39645885 AAACCAAGTA
** *
39645895 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
39645934 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
39645974 CCTTCGGGACTTGGCCCGGTTGTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
39646014 CCTTCGGGACTTAGCCCGGATCTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
39646054 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
39646094 CCTTCGGG-CTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
39646112 TTATCAATCC
Statistics
Matches: 163, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 23 0.14
40 140 0.86
ACGTcount: A:0.22, C:0.29, G:0.25, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:39651731 original size:27 final size:27
Alignment explanation
Indices: 39651692--39651896 Score: 250
Period size: 27 Copynumber: 7.6 Consensus size: 27
39651682 ATTTTTAGTC
* * *
39651692 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAAAT
*
39651719 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
39651746 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
*
39651773 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAA-T
** ** *
39651801 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAAAT
* **
39651828 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAAAT
* *
39651855 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
39651882 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
39651897 GTACAATTTA
Statistics
Matches: 157, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
27 133 0.85
28 24 0.15
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAAAT
Found at i:39659740 original size:27 final size:27
Alignment explanation
Indices: 39659701--39659905 Score: 250
Period size: 27 Copynumber: 7.6 Consensus size: 27
39659691 ATTTTTAGTC
* * *
39659701 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAAAT
*
39659728 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
39659755 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
*
39659782 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAA-T
** ** *
39659810 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAAAT
* **
39659837 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAAAT
* *
39659864 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
39659891 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
39659906 GTACAATTTA
Statistics
Matches: 157, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
27 133 0.85
28 24 0.15
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAAAT
Found at i:39661858 original size:29 final size:29
Alignment explanation
Indices: 39661795--39661862 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
39661785 TAATCAACCG
39661795 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
39661824 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
39661853 CGCACACTTA
1 CGCACACTTA
39661863 CCTTTCCCAC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:39661975 original size:174 final size:174
Alignment explanation
Indices: 39661684--39662011 Score: 584
Period size: 174 Copynumber: 1.9 Consensus size: 174
39661674 AACTCAAGGT
* * * *
39661684 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTCCCACTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
39661749 GAAAATATATATTGGGTTCACACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCACACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
39661814 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
39661858 ACTTACCTTTCCCACTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTCCCACTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
39661923 GAAAATATATATTGGGTTCACACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCACACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
39661988 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
39662012 TGTACAATTT
Statistics
Matches: 146, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 146 1.00
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTCCCACTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCACACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:39662003 original size:29 final size:30
Alignment explanation
Indices: 39661964--39662042 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
39661954 CTTAATAATC
39661964 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
39661994 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
39662023 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
39662043 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:39671908 original size:27 final size:26
Alignment explanation
Indices: 39671875--39671948 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 26
39671865 CACCCAGTTG
*
39671875 TAAAATTACCAAAGTACCCCCGGTTTA
1 TAAAATTACCAAA-TACCCCCGATTTA
* **
39671902 TAAAATTACCCAAATATCCTTGATTTA
1 TAAAATTA-CCAAATACCCCCGATTTA
39671929 TAAAATTACCGAAATACCCC
1 TAAAATTACC-AAATACCCC
39671949 TGTAAGGTAC
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
26 2 0.05
27 32 0.82
28 5 0.13
ACGTcount: A:0.41, C:0.24, G:0.07, T:0.28
Consensus pattern (26 bp):
TAAAATTACCAAATACCCCCGATTTA
Found at i:39671962 original size:27 final size:27
Alignment explanation
Indices: 39671932--39672368 Score: 504
Period size: 27 Copynumber: 16.2 Consensus size: 27
39671922 TGATTTATAA
* * *
39671932 AATTACCGAAATACCCCTGTAAGGTAC
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
39671959 AATTACTAAAATACCCCAGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
** * *
39671986 AATTACCAAAATACCCTTGCAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
39672013 AATTACTAAAATA-CCCTAGTAAGGTAG
1 AATTACTGAAATACCCCT-GTAGGGTAG
*
39672040 AATTACTG-AATACCCCTGTAGAGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
39672066 AATTACTGAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
39672093 AATTACCGAAATACCCTTGTAGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
*
39672120 AATTACTGAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
39672147 AATTATTGAAATACCCCTATATGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
39672174 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
39672201 AATTA-TCGAAATATCCCTGTAAGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
**
39672228 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
39672255 AATTATTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
39672282 AATTACCGTAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
39672309 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * *
39672336 AATTA-TCGAGATACCCTTGTGGGGTAA
1 AATTACT-GAAATACCCCTGTAGGGTAG
39672363 AATTAC
1 AATTAC
39672369 CATTTTTCCC
Statistics
Matches: 348, Mismatches: 55, Indels: 13
0.84 0.13 0.03
Matches are distributed among these distances:
26 24 0.07
27 324 0.93
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:39672803 original size:25 final size:25
Alignment explanation
Indices: 39672772--39672870 Score: 144
Period size: 25 Copynumber: 3.7 Consensus size: 25
39672762 TTGCATTCAC
39672772 ATTCTGATTTTGATTCTGTTATCTGATACTG
1 ATTCTGATTTTGATTCTGTTA-C-----CTG
39672803 ATTCTGATTTTGATTCTGTTACCTG
1 ATTCTGATTTTGATTCTGTTACCTG
39672828 ATTCTGATTTTGATTCTGTTACCTG
1 ATTCTGATTTTGATTCTGTTACCTG
39672853 ATTCTGATTTTGATTCTG
1 ATTCTGATTTTGATTCTG
39672871 ATTCTAGTTC
Statistics
Matches: 68, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
25 46 0.68
30 1 0.01
31 21 0.31
ACGTcount: A:0.17, C:0.14, G:0.16, T:0.53
Consensus pattern (25 bp):
ATTCTGATTTTGATTCTGTTACCTG
Found at i:39672810 original size:31 final size:29
Alignment explanation
Indices: 39672772--39672884 Score: 128
Period size: 31 Copynumber: 3.9 Consensus size: 29
39672762 TTGCATTCAC
39672772 ATTCTGATTTTGATTCTGTTATCTGATACTG
1 ATTCTGATTTTGATTCTGTTA-CTGAT-CTG
39672803 ATTCTGATTTTGATTCTGTTAC----CTG
1 ATTCTGATTTTGATTCTGTTACTGATCTG
39672828 ATTCTGATTTTGATTCTGTTACCTGATTCTG
1 ATTCTGATTTTGATTCTGTTA-CTGA-TCTG
* *
39672859 ATTTTGATTCTGATTCTAGTT-CTGAT
1 ATTCTGATTTTGATTCT-GTTACTGAT
39672885 AATGTTCTTA
Statistics
Matches: 73, Mismatches: 2, Indels: 16
0.80 0.02 0.18
Matches are distributed among these distances:
25 24 0.33
26 1 0.01
29 1 0.01
30 5 0.07
31 39 0.53
32 3 0.04
ACGTcount: A:0.18, C:0.14, G:0.16, T:0.52
Consensus pattern (29 bp):
ATTCTGATTTTGATTCTGTTACTGATCTG
Found at i:39672811 original size:6 final size:6
Alignment explanation
Indices: 39672772--39672884 Score: 97
Period size: 6 Copynumber: 18.3 Consensus size: 6
39672762 TTGCATTCAC
* * * *
39672772 ATTCTG ATTTTG ATTCTG TTATCTG ATACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT-TCTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
39672821 -TTACCTG ATTCTG ATTTTG ATTCTG -TTACCTG ATTCTG ATTTTG ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG
39672871 ATTCT- AGTTCTG AT
1 ATTCTG A-TTCTG AT
39672885 AATGTTCTTA
Statistics
Matches: 86, Mismatches: 12, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
5 5 0.06
6 65 0.76
7 12 0.14
8 4 0.05
ACGTcount: A:0.18, C:0.14, G:0.16, T:0.52
Consensus pattern (6 bp):
ATTCTG
Found at i:39672831 original size:13 final size:13
Alignment explanation
Indices: 39672813--39672858 Score: 60
Period size: 13 Copynumber: 3.6 Consensus size: 13
39672803 ATTCTGATTT
39672813 TGATTCTGTTACC
1 TGATTCTGTTACC
*
39672826 TGATTCTGATT--T
1 TGATTCTG-TTACC
39672838 TGATTCTGTTACC
1 TGATTCTGTTACC
39672851 TGATTCTG
1 TGATTCTG
39672859 ATTTTGATTC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
11 2 0.07
12 8 0.29
13 16 0.57
14 2 0.07
ACGTcount: A:0.15, C:0.17, G:0.17, T:0.50
Consensus pattern (13 bp):
TGATTCTGTTACC
Found at i:39676488 original size:26 final size:28
Alignment explanation
Indices: 39676458--39676520 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
39676448 TTATCAAATA
39676458 TAATC-TT-GATTAGCCACACCAATAGC
1 TAATCATTCGATTAGCCACACCAATAGC
** **
39676484 TAATCATTCTCTTAGCCACTGCAATAGC
1 TAATCATTCGATTAGCCACACCAATAGC
39676512 TAATCATTC
1 TAATCATTC
39676521 TCAAACATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 5 0.16
27 2 0.06
28 24 0.77
ACGTcount: A:0.32, C:0.27, G:0.10, T:0.32
Consensus pattern (28 bp):
TAATCATTCGATTAGCCACACCAATAGC
Found at i:39676499 original size:28 final size:28
Alignment explanation
Indices: 39676467--39676522 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
39676457 ATAATCTTGA
39676467 TTAGCCACACCAATAGCTAATCATTCTC
1 TTAGCCACACCAATAGCTAATCATTCTC
**
39676495 TTAGCCACTGCAATAGCTAATCATTCTC
1 TTAGCCACACCAATAGCTAATCATTCTC
39676523 AAACATTTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.30
Consensus pattern (28 bp):
TTAGCCACACCAATAGCTAATCATTCTC
Found at i:39677070 original size:18 final size:18
Alignment explanation
Indices: 39677047--39677089 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
39677037 AGACAAACTC
39677047 AGTAGCCTGCGGAAATCA
1 AGTAGCCTGCGGAAATCA
*
39677065 AGTAGCCTGTGGAAATCA
1 AGTAGCCTGCGGAAATCA
*
39677083 TGTAGCC
1 AGTAGCC
39677090 AAGCTACCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.21
Consensus pattern (18 bp):
AGTAGCCTGCGGAAATCA
Found at i:39681471 original size:24 final size:23
Alignment explanation
Indices: 39681419--39681473 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
39681409 CAATCAAATT
*
39681419 TGCACACATAGTGCTCGTCACAC
1 TGCACACATAGTGCTAGTCACAC
39681442 TCGCACACATAGTGCCATAG-CACAC
1 T-GCACACATAGTG-C-TAGTCACAC
39681467 TGCACAC
1 TGCACAC
39681474 TCAGTGCATT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 1 0.04
24 18 0.64
25 7 0.25
26 2 0.07
ACGTcount: A:0.29, C:0.36, G:0.16, T:0.18
Consensus pattern (23 bp):
TGCACACATAGTGCTAGTCACAC
Found at i:39687555 original size:16 final size:16
Alignment explanation
Indices: 39687534--39687565 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
39687524 CTGGCAAATC
39687534 TCGAAATGCCGAAAAG
1 TCGAAATGCCGAAAAG
39687550 TCGAAATGCCGAAAAG
1 TCGAAATGCCGAAAAG
39687566 CCGGAAGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.19, G:0.25, T:0.12
Consensus pattern (16 bp):
TCGAAATGCCGAAAAG
Found at i:39687838 original size:29 final size:29
Alignment explanation
Indices: 39687785--39687878 Score: 104
Period size: 28 Copynumber: 3.3 Consensus size: 29
39687775 ATTGCATGAC
* *
39687785 TATGAATGTGATTGGGGGCC-GATGGGCCA
1 TATGAATGTGATT-TGGGCCTAATGGGCCA
39687814 TATGAATGTGATTTGGGCCTAAT-GGCCA
1 TATGAATGTGATTTGGGCCTAATGGGCCA
* * *
39687842 TATGAATGAGA-TTGGGCCTAGTGGACCA
1 TATGAATGTGATTTGGGCCTAATGGGCCA
*
39687870 TATGCATGT
1 TATGAATGT
39687879 ATGTAGACTT
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
27 10 0.18
28 31 0.55
29 15 0.27
ACGTcount: A:0.24, C:0.14, G:0.33, T:0.29
Consensus pattern (29 bp):
TATGAATGTGATTTGGGCCTAATGGGCCA
Found at i:39689648 original size:77 final size:77
Alignment explanation
Indices: 39689521--39689704 Score: 314
Period size: 77 Copynumber: 2.4 Consensus size: 77
39689511 TATAAGATGA
* * *
39689521 TATACCGATTTGGCTTCGGACCATGCATATCGGATGAGTTGGCTTCGGGCCATGATATTAGCACT
1 TATACCGATTTGGCTTCGGGCCATGCATATCGAATGAGCTGGCTTCGGGCCATGATATTAGCACT
39689586 TCGGGTGTGAGT
66 TCGGGTGTGAGT
39689598 TATACCGATTTGGCTTCGGGCCATGCATATCGAATGAGCTGGCTTCGGGCCATGATATTAGCACT
1 TATACCGATTTGGCTTCGGGCCATGCATATCGAATGAGCTGGCTTCGGGCCATGATATTAGCACT
39689663 TCGGGTGTGAGT
66 TCGGGTGTGAGT
** *
39689675 TATACAAATTTGGCTTTGGGCCATGCATAT
1 TATACCGATTTGGCTTCGGGCCATGCATAT
39689705 AGGATGTTTT
Statistics
Matches: 101, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
77 101 1.00
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.32
Consensus pattern (77 bp):
TATACCGATTTGGCTTCGGGCCATGCATATCGAATGAGCTGGCTTCGGGCCATGATATTAGCACT
TCGGGTGTGAGT
Found at i:39689742 original size:77 final size:77
Alignment explanation
Indices: 39689528--39689729 Score: 305
Period size: 77 Copynumber: 2.6 Consensus size: 77
39689518 TGATATACCG
*
39689528 ATTTGGCTTCGGACCATGCATATCGGATGAGTTGGCTTCGGGCCATGATATTAGCACTTCGGGTG
1 ATTTGGCTTCGGGCCATGCATATCGGATGAGTTGGCTTCGGGCCATGATATTAGCACTTCGGGTG
**
39689593 TGAGTTATACCG
66 TGAGTTATACAA
* *
39689605 ATTTGGCTTCGGGCCATGCATATCGAATGAGCTGGCTTCGGGCCATGATATTAGCACTTCGGGTG
1 ATTTGGCTTCGGGCCATGCATATCGGATGAGTTGGCTTCGGGCCATGATATTAGCACTTCGGGTG
39689670 TGAGTTATACAA
66 TGAGTTATACAA
* * ** **
39689682 ATTTGGCTTTGGGCCATGCATATAGGATGTTTTGGCTTTAGGCCATGA
1 ATTTGGCTTCGGGCCATGCATATCGGATGAGTTGGCTTCGGGCCATGA
39689730 AAATAGTTCT
Statistics
Matches: 112, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
77 112 1.00
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.32
Consensus pattern (77 bp):
ATTTGGCTTCGGGCCATGCATATCGGATGAGTTGGCTTCGGGCCATGATATTAGCACTTCGGGTG
TGAGTTATACAA
Found at i:39691775 original size:79 final size:81
Alignment explanation
Indices: 39691675--39691859 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
39691665 GCTCCTCGTT
* * *
39691675 CAAATGCCTTCGGGCCATAGCCCGG-TTATAGTAACTCACACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCACACAAATGCCTTC-GGATCTTAACCC
* *
39691738 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* * **
39691755 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCACACAAATGCCTTCGGATCTTAACCCGG
* *
39691819 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
39691835 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
39691860 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCACACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:39691859 original size:40 final size:41
Alignment explanation
Indices: 39691675--39691859 Score: 195
Period size: 40 Copynumber: 4.6 Consensus size: 41
39691665 GCTCCTCGTT
* * * *
39691675 CAAATGCCTTCGGGCCATAGCCCGGTTATAGTAACTCA-CA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTAGCA
* * *
39691715 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTAGCA
* *
39691755 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTTAGCA
* * *
39691794 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTTAGCA
39691835 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
39691860 CATCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 76 0.62
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTAGCA
Found at i:39699784 original size:79 final size:81
Alignment explanation
Indices: 39699684--39699868 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
39699674 GCTCCTCGTT
* *
39699684 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
39699747 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* * **
39699764 CAAATGCCTTCGGG-CTTAGCCCAGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
39699828 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
*
39699844 CAAA-GCCTTCGGGACTTAGTCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
39699869 CATCATTCAA
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.61
80 32 0.36
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:39699868 original size:40 final size:40
Alignment explanation
Indices: 39699684--39699868 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
39699674 GCTCCTCGTT
* *
39699684 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
39699724 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
39699764 CAAATGCCTTCGGG-CTTAGCCCAGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
39699803 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
*
39699844 CAAA-GCCTTCGGGACTTAGTCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
39699869 CATCATTCAA
Statistics
Matches: 125, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 80 0.64
41 12 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:39709896 original size:43 final size:43
Alignment explanation
Indices: 39709830--39710028 Score: 258
Period size: 43 Copynumber: 4.6 Consensus size: 43
39709820 ATATCGTACA
* **
39709830 ATGCCAACGTCCCAGACATGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACATAATCACATATCG
* * * *
39709873 AT-CCCACTGTCCCAAACAG-GGTCTTACTCATAAACACATATCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACATAATCACATATCG
* *
39709916 ATGCCAACATCCTAGACGTGGTCTTACACATAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACATAATCACATATCG
* *
39709959 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACAAATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACATAATCACATATCG
*
39710002 ATGCCAACGTCCCAGATGTGGTCTTAC
1 ATGCCAACGTCCCAGACGTGGTCTTAC
39710029 TCGCACACTT
Statistics
Matches: 134, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
42 5 0.04
43 125 0.93
44 4 0.03
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACATAATCACATATCG
Found at i:39717234 original size:65 final size:65
Alignment explanation
Indices: 39717130--39717260 Score: 226
Period size: 65 Copynumber: 2.0 Consensus size: 65
39717120 CCCCTAGGGT
* *
39717130 TAAGGTTGACCTGAATGCATGTTTAACTGTTACTATTTACTGCATTCCATGTTATTATTATCTGA
1 TAAGGTTGACCTGAATGCATATTTAACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
* *
39717195 TAAGGTTGACCTGAATGCATATTTGACTGTTACTATTTACTGTATGCCATGTTATTATTATCTGA
1 TAAGGTTGACCTGAATGCATATTTAACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
39717260 T
1 T
39717261 GCATGGGACT
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
65 62 1.00
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.44
Consensus pattern (65 bp):
TAAGGTTGACCTGAATGCATATTTAACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
Found at i:39729925 original size:46 final size:46
Alignment explanation
Indices: 39729875--39730003 Score: 222
Period size: 46 Copynumber: 2.8 Consensus size: 46
39729865 TGGTTGAGCA
*
39729875 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
39729921 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
39729967 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
39730004 GCGGGTTACA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:39736041 original size:21 final size:21
Alignment explanation
Indices: 39736016--39736084 Score: 138
Period size: 21 Copynumber: 3.3 Consensus size: 21
39736006 GCATGGAGTA
39736016 GAAGAAGCTACATGGGAATCC
1 GAAGAAGCTACATGGGAATCC
39736037 GAAGAAGCTACATGGGAATCC
1 GAAGAAGCTACATGGGAATCC
39736058 GAAGAAGCTACATGGGAATCC
1 GAAGAAGCTACATGGGAATCC
39736079 GAAGAA
1 GAAGAA
39736085 ACTATGAGAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 48 1.00
ACGTcount: A:0.41, C:0.17, G:0.29, T:0.13
Consensus pattern (21 bp):
GAAGAAGCTACATGGGAATCC
Found at i:39737033 original size:46 final size:46
Alignment explanation
Indices: 39736983--39737158 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
39736973 TGGTTGAGCA
39736983 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
39737029 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
39737074 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
39737122 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
39737159 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:39737139 original size:93 final size:93
Alignment explanation
Indices: 39736980--39737151 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
39736970 GGATGGTTGA
* *
39736980 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
39737045 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
39737073 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
39737138 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
39737152 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:39739673 original size:21 final size:21
Alignment explanation
Indices: 39739647--39739689 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
39739637 TCCGATTTGT
39739647 TTCCTAGGCTCAAATGGGAAC
1 TTCCTAGGCTCAAATGGGAAC
39739668 TTCCTAGGCTCAAATGGGAAC
1 TTCCTAGGCTCAAATGGGAAC
39739689 T
1 T
39739690 CTACTATCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (21 bp):
TTCCTAGGCTCAAATGGGAAC
Found at i:39751023 original size:15 final size:17
Alignment explanation
Indices: 39751003--39751042 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
39750993 GAGAGATGAA
39751003 AAAAAGAAAT-G-AAAG
1 AAAAAGAAATCGAAAAG
39751018 AAAAAGAAATCGAAAAAG
1 AAAAAGAAATCG-AAAAG
39751036 AAAAAGA
1 AAAAAGA
39751043 GAGTGAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 10 0.45
16 1 0.05
18 11 0.50
ACGTcount: A:0.75, C:0.03, G:0.17, T:0.05
Consensus pattern (17 bp):
AAAAAGAAATCGAAAAG
Found at i:39753012 original size:27 final size:27
Alignment explanation
Indices: 39752982--39753069 Score: 83
Period size: 27 Copynumber: 3.3 Consensus size: 27
39752972 TAAAACAATC
39752982 ATTTTACCCTATAGGGGTATTTCAGTA
1 ATTTTACCCTATAGGGGTATTTCAGTA
* * *
39753009 ATTTTACACTACAAGGGTATTTC-GATA
1 ATTTTACCCTATAGGGGTATTTCAG-TA
**
39753036 ATTTTA-CAAACT-GAGGGTATTTCAGTA
1 ATTTTACCCTA-TAG-GGGTATTTCAGTA
39753063 ATTTTAC
1 ATTTTAC
39753070 AAGTTGAGGG
Statistics
Matches: 48, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
26 2 0.04
27 45 0.94
28 1 0.02
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.40
Consensus pattern (27 bp):
ATTTTACCCTATAGGGGTATTTCAGTA
Found at i:39753040 original size:54 final size:54
Alignment explanation
Indices: 39752996--39753152 Score: 162
Period size: 54 Copynumber: 2.9 Consensus size: 54
39752986 TACCCTATAG
39752996 GGGTATTTCAGTAATTTTAC-ACTACAAGGGTATTTCGATAATTTTACAAACTGA
1 GGGTATTTCAGTAATTTTACAACT-CAAGGGTATTTCGATAATTTTACAAACTGA
* ** * *
39753050 GGGTATTTCAGTAATTTTACAAGTTGAGGGTATTTCGATAATTTCACAAA-TCA
1 GGGTATTTCAGTAATTTTACAACTCAAGGGTATTTCGATAATTTTACAAACTGA
* * * *
39753103 GGAGTATGTC-GTTAATTTTACAACCCGA-GATATTTC-AGTAATTTTACAAA
1 GG-GTATTTCAG-TAATTTTACAACTCAAGGGTATTTCGA-TAATTTTACAAA
39753153 TCAGAGGCTT
Statistics
Matches: 88, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
52 1 0.01
53 23 0.26
54 62 0.70
55 2 0.02
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (54 bp):
GGGTATTTCAGTAATTTTACAACTCAAGGGTATTTCGATAATTTTACAAACTGA
Found at i:39753070 original size:27 final size:27
Alignment explanation
Indices: 39752996--39753152 Score: 128
Period size: 27 Copynumber: 5.9 Consensus size: 27
39752986 TACCCTATAG
* *
39752996 GGGTATTTC-AGTAATTTTACACTAC-AA
1 GGGTATTTCGA-TAATTTTACA-AACTGA
39753023 GGGTATTTCGATAATTTTACAAACTGA
1 GGGTATTTCGATAATTTTACAAACTGA
**
39753050 GGGTATTTC-AGTAATTTTACAAGTTGA
1 GGGTATTTCGA-TAATTTTACAAACTGA
* *
39753077 GGGTATTTCGATAATTTCACAAA-TCA
1 GGGTATTTCGATAATTTTACAAACTGA
* * * *
39753103 GGAGTATGTCGTTAATTTTACAACCCGA
1 GG-GTATTTCGATAATTTTACAAACTGA
*
39753131 -GATATTTC-AGTAATTTTACAAA
1 GGGTATTTCGA-TAATTTTACAAA
39753153 TCAGAGGCTT
Statistics
Matches: 106, Mismatches: 17, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
26 23 0.22
27 80 0.75
28 3 0.03
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (27 bp):
GGGTATTTCGATAATTTTACAAACTGA
Found at i:39753365 original size:17 final size:17
Alignment explanation
Indices: 39753343--39753375 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
39753333 TATCCGTGTG
39753343 GGCCCA-CGAGCCCATTA
1 GGCCCACCG-GCCCATTA
39753360 GGCCCACCGGCCCATT
1 GGCCCACCGGCCCATT
39753376 TTGACCCATC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.18, C:0.45, G:0.24, T:0.12
Consensus pattern (17 bp):
GGCCCACCGGCCCATTA
Done.