Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167893.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_16, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22157061
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 74000 characters in sequence are not A, C, G, or T
File 102 of 113
Found at i:20272210 original size:11 final size:11
Alignment explanation
Indices: 20272194--20272235 Score: 75
Period size: 11 Copynumber: 3.8 Consensus size: 11
20272184 GCAATATCTG
20272194 ACAAATCTCAA
1 ACAAATCTCAA
*
20272205 ACAAATCTCTA
1 ACAAATCTCAA
20272216 ACAAATCTCAA
1 ACAAATCTCAA
20272227 ACAAATCTC
1 ACAAATCTC
20272236 TTATGAGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:20272219 original size:22 final size:22
Alignment explanation
Indices: 20272194--20272236 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
20272184 GCAATATCTG
20272194 ACAAATCTCAAACAAATCTCTA
1 ACAAATCTCAAACAAATCTCTA
20272216 ACAAATCTCAAACAAATCTCT
1 ACAAATCTCAAACAAATCTCT
20272237 TATGAGATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.23
Consensus pattern (22 bp):
ACAAATCTCAAACAAATCTCTA
Found at i:20273261 original size:52 final size:51
Alignment explanation
Indices: 20273109--20273265 Score: 188
Period size: 52 Copynumber: 3.0 Consensus size: 51
20273099 TAAAATCATA
* * *
20273109 CAAACTTGCCCATTAAGAATCCCTCTTCTCTTAAAATTCTTCTCCTGTAAGT
1 CAAACTTGCCTATTAAGAATCCCT-TTCTCTTAAAATTCTTCTCTTGCAAGT
* * * *
20273161 CAAACATGCCTATTAAGAATCCATTTCCTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCCTTT-CTCTTAAAATTCTTCTCTTGCAAGT
* * * *
20273213 CAAACTTACCTATTAAGAATCCTCTTTCTCTTGAAATTCTTTTTTTGCAAGT
1 CAAACTTGCCTATTAAGAATCC-CTTTCTCTTAAAATTCTTCTCTTGCAAGT
20273265 C
1 C
20273266 TTCTTGTCCA
Statistics
Matches: 88, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
51 2 0.02
52 83 0.94
53 3 0.03
ACGTcount: A:0.27, C:0.25, G:0.08, T:0.39
Consensus pattern (51 bp):
CAAACTTGCCTATTAAGAATCCCTTTCTCTTAAAATTCTTCTCTTGCAAGT
Found at i:20273306 original size:11 final size:11
Alignment explanation
Indices: 20273290--20273320 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
20273280 GCAATATCTG
20273290 ACAAATCTCAA
1 ACAAATCTCAA
20273301 ACAAATCTCAA
1 ACAAATCTCAA
20273312 ACAAATCTC
1 ACAAATCTC
20273321 TTATGAGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.52, C:0.29, G:0.00, T:0.19
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:20274735 original size:63 final size:63
Alignment explanation
Indices: 20274607--20274728 Score: 167
Period size: 63 Copynumber: 2.0 Consensus size: 63
20274597 CAAATCTCCC
* * ** *
20274607 AATAGTTTGGTGAGATTTTATATGAAAATCATTTATAAAATTTTGTTTTGATGTAGAATTCTA
1 AATAGTTTAGTGAGATTTTATATGAAAATCATTTATAAAACTTTACTTTGATGTAAAATTCTA
* *
20274670 AATAGTTTAGTGAGATTTTATTTGAAAATTATTTATAAAACTTTACTTTGA-G-AAAATTC
1 AATAGTTTAGTGAGATTTTATATGAAAATCATTTATAAAACTTTACTTTGATGTAAAATTC
20274729 ATTAAATCTT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
61 6 0.12
62 1 0.02
63 45 0.87
ACGTcount: A:0.37, C:0.04, G:0.14, T:0.45
Consensus pattern (63 bp):
AATAGTTTAGTGAGATTTTATATGAAAATCATTTATAAAACTTTACTTTGATGTAAAATTCTA
Found at i:20275499 original size:58 final size:58
Alignment explanation
Indices: 20275430--20275705 Score: 459
Period size: 58 Copynumber: 4.8 Consensus size: 58
20275420 TGCTTTTATA
*
20275430 CAAGGAAAATTGATATTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTT
*
20275488 CAAGGAAAATTGATACTTTCAACTTTTCATCAAAAATATTTTTTAGAAAGCTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTT
*
20275546 CAAGGAAAATTGATACTTTCAACTTTTTCC-CAAAAATATTTTTTAGAAAAACTTATTTT
1 CAAGGAAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTAG-AAAGCTTATTTT
*
20275605 CAAGAAAAATTGATACTTTCAACTTTTCC-CAAAAATATTTTTTAGAAAGCTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTT
*
20275662 CAAGGAAATTTGATACTTTCAACTTTTCCTCAAAAGA-ATTTTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAA-ATATTTTTT
20275706 TTTGAATTTT
Statistics
Matches: 206, Mismatches: 8, Indels: 8
0.93 0.04 0.04
Matches are distributed among these distances:
57 38 0.18
58 129 0.63
59 39 0.19
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.41
Consensus pattern (58 bp):
CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTT
Found at i:20275737 original size:5 final size:5
Alignment explanation
Indices: 20275729--20275797 Score: 75
Period size: 5 Copynumber: 13.0 Consensus size: 5
20275719 TAAAGAAAAT
*
20275729 AATAA AATAA AATAA AATAAA AATAAA AATAA AGATAAA AATAG AATAA
1 AATAA AATAA AATAA AAT-AA AAT-AA AATAA A-AT-AA AATAA AATAA
* *
20275778 AATAA AATGA GATAA AATAA
1 AATAA AATAA AATAA AATAA
20275798 GAAATACTAA
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
5 37 0.67
6 15 0.27
7 3 0.05
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:20275753 original size:6 final size:6
Alignment explanation
Indices: 20275732--20275784 Score: 60
Period size: 6 Copynumber: 9.5 Consensus size: 6
20275722 AGAAAATAAT
* *
20275732 AAAAT- AAAAT- AAAATA AAAATA AAAATA AAGATA AAAAT- AGAAT-
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
20275776 AAAATA AAA
1 AAAATA AAA
20275785 TGAGATAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
5 18 0.43
6 24 0.57
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:20275833 original size:3 final size:3
Alignment explanation
Indices: 20275820--20275870 Score: 66
Period size: 3 Copynumber: 16.0 Consensus size: 3
20275810 AATTCTAATC
*
20275820 TAA TAAA TAA TAA TAA TAA TAA TAA AAA TAA TAA TAAA TAAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA T-AA TAA TAA
20275868 TAA
1 TAA
20275871 AATGAGAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
3 34 0.77
4 10 0.23
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:20275833 original size:15 final size:16
Alignment explanation
Indices: 20275820--20275870 Score: 77
Period size: 15 Copynumber: 3.2 Consensus size: 16
20275810 AATTCTAATC
20275820 TAATAAATAATAATAA
1 TAATAAATAATAATAA
*
20275836 TAAT-AATAAAAATAA
1 TAATAAATAATAATAA
20275851 TAATAAATAAATAATAA
1 TAATAAAT-AATAATAA
20275868 TAA
1 TAA
20275871 AATGAGAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
15 14 0.45
16 7 0.23
17 10 0.32
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
TAATAAATAATAATAA
Found at i:20276324 original size:31 final size:31
Alignment explanation
Indices: 20276289--20276351 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
20276279 TGGGTAGCTG
*
20276289 ACCGAAAAATTCAAACTTGGCCTG-AAAATTC
1 ACCGAAAAATTCAAACTTGACC-GAAAAATTC
*
20276320 ACCGAAAAATTTAAACTTGACCGAAAAATTC
1 ACCGAAAAATTCAAACTTGACCGAAAAATTC
20276351 A
1 A
20276352 ATCGGAATCT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 1 0.03
31 28 0.97
ACGTcount: A:0.46, C:0.21, G:0.11, T:0.22
Consensus pattern (31 bp):
ACCGAAAAATTCAAACTTGACCGAAAAATTC
Found at i:20276732 original size:25 final size:23
Alignment explanation
Indices: 20276687--20276732 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
20276677 TCAAATCAAA
* *
20276687 TAAAAAAATGTTAATAGATAATT
1 TAAAAAAATATTAATAAATAATT
20276710 TAAAAAAATAATTAGATAAATAA
1 TAAAAAAAT-ATTA-ATAAATAA
20276733 AAATGTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 9 0.47
24 3 0.16
25 7 0.37
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (23 bp):
TAAAAAAATATTAATAAATAATT
Found at i:20276733 original size:20 final size:18
Alignment explanation
Indices: 20276710--20276885 Score: 80
Period size: 20 Copynumber: 9.6 Consensus size: 18
20276700 ATAGATAATT
20276710 TAAAAAAATAATTAGATAAA
1 TAAAAAAATAA-TA-ATAAA
**
20276730 TAAAAATGTTAATAGATAAA
1 TAAAAA-AATAATA-ATAAA
* *
20276750 TAATAATAATAATAAATATA
1 TAA-AAAAATAAT-AATAAA
* *
20276770 TAAATAGATAAGTAAT-AA
1 TAAAAAAATAA-TAATAAA
*
20276788 T-AAAAAAT-ATATATTAA
1 TAAAAAAATAATA-ATAAA
* *
20276805 T-AAATAGTAATAATAAA
1 TAAAAAAATAATAATAAA
*
20276822 TAAATAAATAATAAATAAA
1 TAAAAAAATAAT-AATAAA
*
20276841 TACAAAAAAT-ACAA-AAA
1 TA-AAAAAATAATAATAAA
*
20276858 T-ACAAAATACATAATAAA
1 TAAAAAAATA-ATAATAAA
*
20276876 -AACAAAATAA
1 TAAAAAAATAA
20276886 AACAAATTGA
Statistics
Matches: 120, Mismatches: 22, Indels: 31
0.69 0.13 0.18
Matches are distributed among these distances:
15 8 0.07
16 3 0.03
17 26 0.22
18 25 0.21
19 17 0.14
20 35 0.29
21 6 0.05
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (18 bp):
TAAAAAAATAATAATAAA
Found at i:20276752 original size:4 final size:4
Alignment explanation
Indices: 20276740--20276842 Score: 62
Period size: 4 Copynumber: 27.0 Consensus size: 4
20276730 TAAAAATGTT
* * * *
20276740 AATA GATA AAT- AAT- AAT- AAT- AATA AATA TATA AATA GATA AGT-
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA
*
20276783 AAT- AATA AA-A AATA TATATT AATA AATA GTAAT- AATA AATA AATA
1 AATA AATA AATA AATA -A-ATA AATA AATA --AATA AATA AATA AATA
20276828 AAT- AATA AATA AATA
1 AATA AATA AATA AATA
20276843 CAAAAAATAC
Statistics
Matches: 80, Mismatches: 10, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
3 26 0.32
4 47 0.59
5 2 0.03
6 5 0.06
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (4 bp):
AATA
Found at i:20276756 original size:3 final size:3
Alignment explanation
Indices: 20276748--20276835 Score: 54
Period size: 3 Copynumber: 26.7 Consensus size: 3
20276738 TTAATAGATA
20276748 AAT AAT AAT AAT AAT AAAT ATAT AAAT AGAT AAGT AAT AAT AA- AA-
1 AAT AAT AAT AAT AAT -AAT A-AT -AAT A-AT AA-T AAT AAT AAT AAT
* *
20276793 AAT ATAT ATT AAT AAAT AGT AAT AAT AAAT AAAT AAAT AAT AA
1 AAT A-AT AAT AAT -AAT AAT AAT AAT -AAT -AAT -AAT AAT AA
20276836 ATAAATACAA
Statistics
Matches: 72, Mismatches: 4, Indels: 18
0.77 0.04 0.19
Matches are distributed among these distances:
2 4 0.06
3 37 0.51
4 30 0.42
5 1 0.01
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:20276764 original size:32 final size:32
Alignment explanation
Indices: 20276728--20276842 Score: 91
Period size: 32 Copynumber: 3.8 Consensus size: 32
20276718 TAATTAGATA
* *
20276728 AATAAAAATGTTAATAGATAAATAATAATAAT
1 AATAAAAATATAAATAGATAAATAATAATAAT
* *
20276760 AATAAATATATAAATAGATAAGTAATAAT-A-
1 AATAAAAATATAAATAGATAAATAATAATAAT
* * *
20276790 AA-AAATATAT-ATTA-ATAAATAGTAATAAT
1 AATAAAAATATAAATAGATAAATAATAATAAT
*
20276819 AAATAAATAA-AT-AATAAATAAATA
1 -AATAAA-AATATAAATAGATAAATA
20276843 CAAAAAATAC
Statistics
Matches: 68, Mismatches: 9, Indels: 12
0.76 0.10 0.13
Matches are distributed among these distances:
27 10 0.15
28 4 0.06
29 8 0.12
30 4 0.06
31 9 0.13
32 33 0.49
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.30
Consensus pattern (32 bp):
AATAAAAATATAAATAGATAAATAATAATAAT
Found at i:20276778 original size:52 final size:55
Alignment explanation
Indices: 20276710--20276851 Score: 139
Period size: 56 Copynumber: 2.6 Consensus size: 55
20276700 ATAGATAATT
* * ***
20276710 TAAAAAAATAATTAGATAAATAAAAAT-GTTAATAGATA-AAT-AATAATAATAA
1 TAAATAAATAAATAGATAAATAAAAATAAAAAATAGATATAATAAATAATAATAA
* * * * *
20276762 TAAATATATAAATAGATAAGTAATAATAAAAAATATATATTAATAAATAGTAATAA
1 TAAATAAATAAATAGATAAATAAAAATAAAAAATAGATA-TAATAAATAATAATAA
* *
20276818 TAAATAAATAAATA-ATAAATAAATACAAAAAATA
1 TAAATAAATAAATAGATAAATAAAAATAAAAAATA
20276852 CAAAAATACA
Statistics
Matches: 71, Mismatches: 15, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
52 22 0.31
53 7 0.10
55 19 0.27
56 23 0.32
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (55 bp):
TAAATAAATAAATAGATAAATAAAAATAAAAAATAGATATAATAAATAATAATAA
Found at i:20276807 original size:27 final size:27
Alignment explanation
Indices: 20276748--20276835 Score: 106
Period size: 27 Copynumber: 3.2 Consensus size: 27
20276738 TTAATAGATA
20276748 AATAATAATAATAATAAATATATAAAT
1 AATAATAATAATAATAAATATATAAAT
* *
20276775 AGATAAGTAATAATAAAAAATATAT-ATT
1 A-ATAA-TAATAATAATAAATATATAAAT
* *
20276803 AATAAATAGTAATAATAAATAAATAAAT
1 AAT-AATAATAATAATAAATATATAAAT
20276831 AATAA
1 AATAA
20276836 ATAAATACAA
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
27 20 0.39
28 14 0.27
29 17 0.33
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (27 bp):
AATAATAATAATAATAAATATATAAAT
Found at i:20277132 original size:45 final size:45
Alignment explanation
Indices: 20277082--20277244 Score: 206
Period size: 45 Copynumber: 3.6 Consensus size: 45
20277072 TGATCAAAAT
20277082 TCCTCTAAGCAGAGGCTCAACAACTTT-AAAAAACATAAACAAAGC
1 TCCTCTAAGCAGAGGCTCAACAACTTTGAAAAAA-ATAAACAAAGC
* *
20277127 TCCTCTAATCAGAGGCTCAA-AGACTTTGAAAATAATAAACAAAGC
1 TCCTCTAAGCAGAGGCTCAACA-ACTTTGAAAAAAATAAACAAAGC
* *
20277172 TCCTTTAATG-AGAGGCTCAACGACTTTGAAAATAAATAAACAAAGC
1 TCCTCTAA-GCAGAGGCTCAACAACTTTGAAAA-AAATAAACAAAGC
* * *
20277218 TCCTCTAATCAGAGGCTTAACGACTTT
1 TCCTCTAAGCAGAGGCTCAACAACTTT
20277245 TGGGAAGTAA
Statistics
Matches: 103, Mismatches: 9, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
44 1 0.01
45 62 0.60
46 40 0.39
ACGTcount: A:0.42, C:0.21, G:0.13, T:0.23
Consensus pattern (45 bp):
TCCTCTAAGCAGAGGCTCAACAACTTTGAAAAAAATAAACAAAGC
Found at i:20277285 original size:42 final size:42
Alignment explanation
Indices: 20277216--20277471 Score: 222
Period size: 41 Copynumber: 6.1 Consensus size: 42
20277206 AATAAACAAA
**
20277216 GCTCCTCTAATCAGAGGCT-TAACGACTTTTGGGAAGTAAATT
1 GCTCCTCTAATCAGAGGCTCT-ACGACTTTTGAAAAGTAAATT
* *
20277258 GCTCGTCTAATCAGAGGCTCTATGACTTTTGAAAAGTAAATT
1 GCTCCTCTAATCAGAGGCTCTACGACTTTTGAAAAGTAAATT
* * * * **
20277300 ACTCCTTTAATCAAAGGCTCTACGAC-TTTGAAAAATAAACAAA
1 GCTCCTCTAATCAGAGGCTCTACGACTTTTGAAAAGT-AA-ATT
* * *
20277343 GCTCCTCTAATCAGAGGTTCAACAACTTTTGAAAA-TAAATT
1 GCTCCTCTAATCAGAGGCTCTACGACTTTTGAAAAGTAAATT
* * * *
20277384 GCTCCTCTAAACAGAGGCAT-GACAAC-TTTGAAGAA-TAGATT
1 GCTCCTCTAATCAGAGGC-TCTACGACTTTTGAA-AAGTAAATT
* * *
20277425 GCTCCTCTAATCAGAGG-TATCACAACTTTGGAAAA-TAAATT
1 GCTCCTCTAATCAGAGGCTCT-ACGACTTTTGAAAAGTAAATT
20277466 GCTCCT
1 GCTCCT
20277472 TGACAATCAT
Statistics
Matches: 177, Mismatches: 28, Indels: 19
0.79 0.12 0.08
Matches are distributed among these distances:
39 1 0.01
40 6 0.03
41 72 0.41
42 67 0.38
43 23 0.13
44 8 0.05
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (42 bp):
GCTCCTCTAATCAGAGGCTCTACGACTTTTGAAAAGTAAATT
Found at i:20277371 original size:127 final size:128
Alignment explanation
Indices: 20277171--20277401 Score: 342
Period size: 127 Copynumber: 1.8 Consensus size: 128
20277161 ATAAACAAAG
* *
20277171 CTCCTTTAATGAGAGGCTCAACGACTTTGAAAATAAATAAACAAAGCTCCTCTAATCAGAGGCTT
1 CTCCTTTAATCAAAGGCTCAACGACTTTG-AAATAAATAAACAAAGCTCCTCTAATCAGAGGCTT
* * * * *
20277236 AACGACTTTTGGGAAGTAAATTGCTCGTCTAATCAGAGGCTCTATGACTTTTGAAAAGTAAATTA
65 AACAACTTTT-GAAAATAAATTGCTCCTCTAAACAGAGGCTCTATGACTTTTGAAAAGTAAATTA
*
20277301 CTCCTTTAATCAAAGGCTCTACGACTTTG-AA-AAATAAACAAAGCTCCTCTAATCAGAGG-TTC
1 CTCCTTTAATCAAAGGCTCAACGACTTTGAAATAAATAAACAAAGCTCCTCTAATCAGAGGCTT-
20277363 AACAACTTTTGAAAATAAATTGCTCCTCTAAACAGAGGC
65 AACAACTTTTGAAAATAAATTGCTCCTCTAAACAGAGGC
20277402 ATGACAACTT
Statistics
Matches: 92, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
126 27 0.29
127 37 0.40
128 2 0.02
130 26 0.28
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (128 bp):
CTCCTTTAATCAAAGGCTCAACGACTTTGAAATAAATAAACAAAGCTCCTCTAATCAGAGGCTTA
ACAACTTTTGAAAATAAATTGCTCCTCTAAACAGAGGCTCTATGACTTTTGAAAAGTAAATTA
Found at i:20277382 original size:84 final size:82
Alignment explanation
Indices: 20277082--20277471 Score: 257
Period size: 84 Copynumber: 4.5 Consensus size: 82
20277072 TGATCAAAAT
* ** ** *
20277082 TCCTCTAAGCAGAGGCTCAACAACTTTAAAAAACATAAACAAAGCTCCTCTAATCAGAGGCTCAA
1 TCCTCTAATCAGAGGCTCAACAACTTT-TGAAA-ATAAA-TTA-CTCCTCTAATCAGAGGCT-TA
*
20277147 AGACTTTGAAAATAATAAACAAAGC
61 CGACTTTG-AAA-AAT-AACAAAGC
* * * *
20277172 TCCTTTAATGAGAGGCTCAACGAC-TTTGAAAATAAATAAACAAAGCTCCTCTAATCAGAGGCTT
1 TCCTCTAATCAGAGGCTCAACAACTTTTGAAAATAAAT-----TA-CTCCTCTAATCAGAGGCTT
** * **
20277236 AACGACTTTTGGGAAGTAA-ATTGC
60 -ACGAC-TTTGAAAAATAACAAAGC
* * ** * *
20277260 TCGTCTAATCAGAGGCTCTATGACTTTTGAAAAGTAAATTACTCCTTTAATCAAAGGCTCTACGA
1 TCCTCTAATCAGAGGCTCAACAACTTTTGAAAA-TAAATTACTCCTCTAATCAGAGGCT-TACGA
20277325 CTTTGAAAAATAAACAAAGC
64 CTTTGAAAAAT-AACAAAGC
* * * * *
20277345 TCCTCTAATCAGAGGTTCAACAACTTTTGAAAATAAATTGCTCCTCTAAACAGAGGCATGACAAC
1 TCCTCTAATCAGAGGCTCAACAACTTTTGAAAATAAATTACTCCTCTAATCAGAGGC-TTACGAC
* * **
20277410 TTTGAAGAAT-AGATTGC
65 TTTGAAAAATAACAAAGC
* * *
20277427 TCCTCTAATCAGAGGTATC-ACAACTTTGGAAAATAAATTGCTCCT
1 TCCTCTAATCAGAGG-CTCAACAACTTTTGAAAATAAATTACTCCT
20277472 TGACAATCAT
Statistics
Matches: 242, Mismatches: 44, Indels: 36
0.75 0.14 0.11
Matches are distributed among these distances:
82 44 0.18
83 9 0.04
84 56 0.23
85 34 0.14
87 5 0.02
88 25 0.10
89 12 0.05
90 27 0.11
91 26 0.11
92 4 0.02
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (82 bp):
TCCTCTAATCAGAGGCTCAACAACTTTTGAAAATAAATTACTCCTCTAATCAGAGGCTTACGACT
TTGAAAAATAACAAAGC
Found at i:20278502 original size:16 final size:16
Alignment explanation
Indices: 20278483--20278525 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
20278473 CATTCACTTT
*
20278483 TTTTTCTTTTTTTTCA
1 TTTTTCATTTTTTTCA
20278499 TTTTTCATTTTTTTCA
1 TTTTTCATTTTTTTCA
20278515 --TTTCATTTTTT
1 TTTTTCATTTTTT
20278526 CTCTTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 11 0.42
16 15 0.58
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTTCATTTTTTTCA
Found at i:20278539 original size:21 final size:21
Alignment explanation
Indices: 20278489--20278540 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
20278479 CTTTTTTTTC
20278489 TTTTTTTTCATTTTTCAT-TT
1 TTTTTTTTCATTTTTCATCTT
*
20278509 TTTTCATTTCATTTTTTC-TCTT
1 TTTT-TTTTCA-TTTTTCATCTT
20278531 TTTTTTTTCA
1 TTTTTTTTCA
20278541 AGCATAGTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 4 0.15
21 11 0.41
22 12 0.44
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (21 bp):
TTTTTTTTCATTTTTCATCTT
Found at i:20285778 original size:15 final size:15
Alignment explanation
Indices: 20285754--20285784 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
20285744 TGTTAAGTGT
*
20285754 AATGAGTGAGAATGC
1 AATGAATGAGAATGC
20285769 AATGAATGAGAATGC
1 AATGAATGAGAATGC
20285784 A
1 A
20285785 TGTATGCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.06, G:0.29, T:0.19
Consensus pattern (15 bp):
AATGAATGAGAATGC
Found at i:20289121 original size:74 final size:74
Alignment explanation
Indices: 20289000--20289143 Score: 227
Period size: 74 Copynumber: 1.9 Consensus size: 74
20288990 TTAACTTTTC
* * * *
20289000 CTCAAAAATTCATTTTTGAAAACTTATTTTTAAGTAAAATTGATACTTTCAACTTTTTCCCAAAA
1 CTCAAAAATTCATTTTAGAAAACTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCCCAAAA
20289065 ATATTCTTT
66 ATATTCTTT
*
20289074 CTCAAAAATAT-ATTTTAGAAAGCTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCCCAAA
1 CTCAAAAAT-TCATTTTAGAAAACTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCCCAAA
20289138 AATATT
65 AATATT
20289144 TTTTAGAAAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
74 63 0.98
75 1 0.02
ACGTcount: A:0.38, C:0.15, G:0.06, T:0.41
Consensus pattern (74 bp):
CTCAAAAATTCATTTTAGAAAACTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCCCAAAA
ATATTCTTT
Found at i:20289243 original size:57 final size:58
Alignment explanation
Indices: 20289071--20289263 Score: 309
Period size: 59 Copynumber: 3.3 Consensus size: 58
20289061 AAAAATATTC
*
20289071 TTTCTCAAAAATATATTTTAGAAAGCTTATTTTCAAGGAAAATTGATACTTTCAACTT
1 TTTCCCAAAAATATATTTTAGAAAGCTTATTTTCAAGGAAAATTGATACTTTCAACTT
* * *
20289129 TTCCCCAAAAATATTTTTTAGAAATACTTATTTTCAAGGAAAATTGATACTTTCAACTT
1 TTTCCCAAAAATATATTTTAGAAA-GCTTATTTTCAAGGAAAATTGATACTTTCAACTT
*
20289188 TTTCCCAAAAATAT-TTTTAGAAAGCTTATTTTCAAGAAAAATTGATACTTTCAAC-T
1 TTTCCCAAAAATATATTTTAGAAAGCTTATTTTCAAGGAAAATTGATACTTTCAACTT
20289244 TTTCCTCAAAAATATATTTT
1 TTTCC-CAAAAATATATTTT
20289264 TTTGAATTTT
Statistics
Matches: 125, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
56 6 0.05
57 39 0.31
58 34 0.27
59 46 0.37
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.41
Consensus pattern (58 bp):
TTTCCCAAAAATATATTTTAGAAAGCTTATTTTCAAGGAAAATTGATACTTTCAACTT
Found at i:20289286 original size:57 final size:56
Alignment explanation
Indices: 20289071--20289286 Score: 249
Period size: 59 Copynumber: 3.8 Consensus size: 56
20289061 AAAAATATTC
* * * *
20289071 TTTCTCAAAAATATATTTTAGAAAGCTTATTTTCAAGGAAAATTGATACTTTCAACT
1 TTTCCCAAAAATATTTTTTAGAAATCTTATTTT-AAAGAAAATTGATACTTTCAACT
*
20289128 TTTCCCCAAAAATATTTTTTAGAAATACTTATTTTCAAGGAAAATTGATACTTTCAACTT
1 TTT-CCCAAAAATATTTTTTAGAAAT-CTTATTTT-AAAGAAAATTGATACTTTCAAC-T
* *
20289188 TTTCCCAAAAATA-TTTTTAGAAAGCTTATTTTCAAGAAAAATTGATACTTTCAACT
1 TTTCCCAAAAATATTTTTTAGAAATCTTATTTTAAAG-AAAATTGATACTTTCAACT
* *
20289244 TTTCCTCAAAAATATATTTTTTTG-AATTTTA-TTTAAAGAAAAT
1 TTTCC-C-AAAA-ATATTTTTTAGAAATCTTATTTTAAAGAAAAT
20289287 AATAAAAATA
Statistics
Matches: 141, Mismatches: 10, Indels: 16
0.84 0.06 0.10
Matches are distributed among these distances:
56 8 0.06
57 35 0.25
58 39 0.28
59 49 0.35
60 10 0.07
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.42
Consensus pattern (56 bp):
TTTCCCAAAAATATTTTTTAGAAATCTTATTTTAAAGAAAATTGATACTTTCAACT
Found at i:20289298 original size:6 final size:6
Alignment explanation
Indices: 20289287--20289333 Score: 62
Period size: 6 Copynumber: 8.2 Consensus size: 6
20289277 TAAAGAAAAT
* *
20289287 AATAAA AATAAA AATAAA AATAAA GATTAA AAT-AA AAT-AA AATAAA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA
20289333 A
1 A
20289334 TGAGATAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
5 10 0.27
6 27 0.73
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (6 bp):
AATAAA
Found at i:20289305 original size:5 final size:5
Alignment explanation
Indices: 20289282--20289346 Score: 60
Period size: 5 Copynumber: 12.4 Consensus size: 5
20289272 TTATTTAAAG
*
20289282 AAAAT AATA- AAAAT AAAAAT AAAAAT AAAGATT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT -AAAAT -AAAAT AAA-A-T AAAAT AAAAT AAAAT
* *
20289330 AAAAT GAGAT AAAAT AA
1 AAAAT AAAAT AAAAT AA
20289347 GAAATACTAA
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
4 3 0.06
5 30 0.60
6 13 0.26
7 4 0.08
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:20289400 original size:10 final size:10
Alignment explanation
Indices: 20289284--20289406 Score: 57
Period size: 10 Copynumber: 12.6 Consensus size: 10
20289274 ATTTAAAGAA
20289284 AATAATAAA-
1 AATAATAAAT
20289293 AATAA-AAAT
1 AATAATAAAT
*
20289302 AAAAATAAA-
1 AATAATAAAT
* *
20289311 GATTA-AAAT
1 AATAATAAAT
20289320 AA-AATAAAAT
1 AATAAT-AAAT
*
20289330 AA-AATGAGAT
1 AATAAT-AAAT
20289340 AA-AATAAGA-
1 AATAATAA-AT
*
20289349 AATACTAAAT
1 AATAATAAAT
** *
20289359 AATTCTAATCT
1 AATAATAA-AT
20289370 AATCAATAAAT
1 AAT-AATAAAT
20289381 AATAAT-AAT
1 AATAATAAAT
20289390 AATAATAAAT
1 AATAATAAAT
20289400 AAATAAT
1 -AATAAT
20289407 GAAAAAAACC
Statistics
Matches: 87, Mismatches: 15, Indels: 22
0.70 0.12 0.18
Matches are distributed among these distances:
8 7 0.08
9 25 0.29
10 38 0.44
11 14 0.16
12 3 0.03
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.26
Consensus pattern (10 bp):
AATAATAAAT
Found at i:20289820 original size:12 final size:12
Alignment explanation
Indices: 20289802--20289836 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
20289792 GGTAGCTGAC
20289802 CGAAAAATTCA-
1 CGAAAAATTCAT
20289813 CTGAAAAATTCAT
1 C-GAAAAATTCAT
20289826 CGAAAAATTCA
1 CGAAAAATTCA
20289837 AACTTGGCCG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 1 0.05
12 20 0.91
13 1 0.05
ACGTcount: A:0.51, C:0.17, G:0.09, T:0.23
Consensus pattern (12 bp):
CGAAAAATTCAT
Found at i:20290212 original size:18 final size:19
Alignment explanation
Indices: 20290191--20290259 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 19
20290181 ATCAAATCAA
20290191 ATAA-AAAAATGTTAATAG
1 ATAATAAAAATGTTAATAG
***
20290209 ATAATTAAAAGAAAATAATTAG
1 ATAA-TAAAA-ATGTTAA-TAG
20290231 ATAAATAAAAATGTTAATAG
1 AT-AATAAAAATGTTAATAG
20290251 ATATATAAA
1 ATA-ATAAA
20290260 TAGATAAGTA
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
18 4 0.10
19 1 0.03
20 14 0.36
21 8 0.21
22 10 0.26
23 2 0.05
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.29
Consensus pattern (19 bp):
ATAATAAAAATGTTAATAG
Found at i:20290217 original size:22 final size:21
Alignment explanation
Indices: 20290190--20290259 Score: 65
Period size: 22 Copynumber: 3.3 Consensus size: 21
20290180 AATCAAATCA
20290190 AATAAAAAAATGTTAATAGAT
1 AATAAAAAAATGTTAATAGAT
*
20290211 AATTAAAAGAAA--ATAATTAGAT
1 AA-TAAAA-AAATGTTAA-TAGAT
*
20290233 AA-ATAAAAATGTTAATAGAT
1 AATAAAAAAATGTTAATAGAT
20290253 ATATAAA
1 A-ATAAA
20290260 TAGATAAGTA
Statistics
Matches: 38, Mismatches: 4, Indels: 13
0.69 0.07 0.24
Matches are distributed among these distances:
19 3 0.08
20 9 0.24
21 9 0.24
22 14 0.37
23 3 0.08
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.29
Consensus pattern (21 bp):
AATAAAAAAATGTTAATAGAT
Found at i:20290220 original size:42 final size:42
Alignment explanation
Indices: 20290173--20290253 Score: 112
Period size: 42 Copynumber: 1.9 Consensus size: 42
20290163 AATAAGAAGA
20290173 AAAAGAAAATCAAATCAAAT-AA-AAAAATGTTAATAGATAATT
1 AAAAGAAAAT--AATCAAATAAATAAAAATGTTAATAGATAATT
* *
20290215 AAAAGAAAATAATTAGATAAATAAAAATGTTAATAGATA
1 AAAAGAAAATAATCAAATAAATAAAAATGTTAATAGATA
20290254 TATAAATAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
40 6 0.17
41 2 0.06
42 27 0.77
ACGTcount: A:0.64, C:0.02, G:0.09, T:0.25
Consensus pattern (42 bp):
AAAAGAAAATAATCAAATAAATAAAAATGTTAATAGATAATT
Found at i:20290309 original size:17 final size:17
Alignment explanation
Indices: 20290255--20290313 Score: 63
Period size: 17 Copynumber: 3.6 Consensus size: 17
20290245 TAATAGATAT
*
20290255 ATAAATAGATAAGTAATA
1 ATAAATAAAT-AGTAATA
20290273 ATAAA-AAATA-T-AT-
1 ATAAATAAATAGTAATA
*
20290286 ATTAATAAATAGTAATA
1 ATAAATAAATAGTAATA
20290303 ATAAATAAATA
1 ATAAATAAATA
20290314 CAAAAAATAC
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
13 4 0.12
14 7 0.21
15 2 0.06
16 3 0.09
17 13 0.38
18 5 0.15
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (17 bp):
ATAAATAAATAGTAATA
Found at i:20291389 original size:22 final size:22
Alignment explanation
Indices: 20291361--20291407 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
20291351 ACGACACCCG
20291361 AAGGTTTTGACA-ATCATGCCCA
1 AAGGTTTT-ACAGATCATGCCCA
* *
20291383 AAGGTTTTATAGATCATGTCCA
1 AAGGTTTTACAGATCATGCCCA
20291405 AAG
1 AAG
20291408 AGCTTGAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 2 0.09
22 20 0.91
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (22 bp):
AAGGTTTTACAGATCATGCCCA
Found at i:20291621 original size:84 final size:83
Alignment explanation
Indices: 20291519--20291875 Score: 380
Period size: 84 Copynumber: 4.3 Consensus size: 83
20291509 AAAGATCATA
*
20291519 CCCAAAGGTCTTAGAGATTATGCTCGGAGTTCTTACAAATCTTGACTCTAAAATAAATTCAACTC
1 CCCAAAGGACTTAGAGATTATGCTCGGAG-TCTTACAAATCTTGACTCTAAAATAAATTCAACTC
*
20291584 GAAAGACTTACAAATCTT-
65 GAAAGACTTACGAATCTTG
20291602 CCCTAAAGGACTTAGAGATTATGCTCGGAAGTCTTACAAATCTTGA-TCTTAAAATAAATTCAAC
1 CCC-AAAGGACTTAGAGATTATGCTCGG-AGTCTTACAAATCTTGACTC-TAAAATAAATTCAAC
*
20291666 TCGCAAGACTTACGAATCTTG
63 TCGAAAGACTTACGAATCTTG
* * ** * * * * *
20291687 CCCAAATGACTCAGAGATTACACTTAGAAGTGTTACAAATCTTGACTTTAAAATAAATTCAGCTC
1 CCCAAAGGACTTAGAGATTATGC-TCGGAGTCTTACAAATCTTGACTCTAAAATAAATTCAACTC
* *
20291752 AAAAGACTTATGAATCTTG
65 GAAAGACTTACGAATCTTG
* * * ** * * *
20291771 TCC-AATGACTTATAGATTATAATCAGAGGTCTTATAAATCTTGACTCTAAAATAAATTCAAGTC
1 CCCAAAGGACTTAGAGATTATGCTCGGA-GTCTTACAAATCTTGACTCTAAAATAAATTCAACTC
* *
20291835 -AGAAGACTTGCGAATCTTA
65 GA-AAGACTTACGAATCTTG
* * *
20291854 CTCGAAGGACTTGGAGATTATG
1 CCCAAAGGACTTAGAGATTATG
20291876 TGTAGAGGTT
Statistics
Matches: 228, Mismatches: 37, Indels: 17
0.81 0.13 0.06
Matches are distributed among these distances:
82 3 0.01
83 66 0.29
84 151 0.66
85 8 0.04
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (83 bp):
CCCAAAGGACTTAGAGATTATGCTCGGAGTCTTACAAATCTTGACTCTAAAATAAATTCAACTCG
AAAGACTTACGAATCTTG
Found at i:20291852 original size:167 final size:167
Alignment explanation
Indices: 20291551--20291852 Score: 412
Period size: 167 Copynumber: 1.8 Consensus size: 167
20291541 CTCGGAGTTC
*
20291551 TTACAAATCTTGACTCTAAAATAAATTCAACTCGAAAGACTTACAAATCTTCCCTAAAGGACTTA
1 TTACAAATCTTGACTCTAAAATAAATTCAACTCAAAAGACTTACAAATCTTCCC-AAAGGACTTA
** *
20291616 GAGATTATGCTCGGAAGTCTTACAAATCTTGATCTTAAAATAAATTCAACTCGCAAGACTTACGA
65 GAGATTATAATCAGAAGTCTTACAAATCTTGATCTTAAAATAAATTCAACTCGCAAGACTTACGA
20291681 ATCTTGCCCAAATGACTCAGAGATTACACTTAGAAGTG
130 ATCTTGCCCAAATGACTCAGAGATTACACTTAGAAGTG
* * ** * *
20291719 TTACAAATCTTGACTTTAAAATAAATTCAGCTCAAAAGACTTATGAATCTTGTCC-AATGACTTA
1 TTACAAATCTTGACTCTAAAATAAATTCAACTCAAAAGACTTACAAATCTT-CCCAAAGGACTTA
* * * * *
20291783 TAGATTATAATCAGAGGTCTTATAAATCTTGA-CTCTAAAATAAATTCAAGTCAG-AAGACTTGC
65 GAGATTATAATCAGAAGTCTTACAAATCTTGATCT-TAAAATAAATTCAACTC-GCAAGACTTAC
20291846 GAATCTT
128 GAATCTT
20291853 ACTCGAAGGA
Statistics
Matches: 116, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
166 2 0.02
167 65 0.56
168 47 0.41
169 2 0.02
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.31
Consensus pattern (167 bp):
TTACAAATCTTGACTCTAAAATAAATTCAACTCAAAAGACTTACAAATCTTCCCAAAGGACTTAG
AGATTATAATCAGAAGTCTTACAAATCTTGATCTTAAAATAAATTCAACTCGCAAGACTTACGAA
TCTTGCCCAAATGACTCAGAGATTACACTTAGAAGTG
Found at i:20291901 original size:31 final size:31
Alignment explanation
Indices: 20291863--20291927 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
20291853 ACTCGAAGGA
** *
20291863 CTTGGAGATTATGTGTAGAGGTTTTACAAAT
1 CTTGGAGATTATGCCTAGAGGTCTTACAAAT
20291894 CTTGGAGATTATGCCTAGAGGTCTTACAAAT
1 CTTGGAGATTATGCCTAGAGGTCTTACAAAT
20291925 CTT
1 CTT
20291928 AACTCTAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.28, C:0.12, G:0.23, T:0.37
Consensus pattern (31 bp):
CTTGGAGATTATGCCTAGAGGTCTTACAAAT
Found at i:20295977 original size:88 final size:87
Alignment explanation
Indices: 20295874--20296156 Score: 404
Period size: 88 Copynumber: 3.2 Consensus size: 87
20295864 GCTCATCTAG
* * *
20295874 TCAGAGGCCATGAAACTTTGAATTTAAAATGGTTGGAGATTATGCCTGAAGGTTTTACAAATCTT
1 TCAGAGGCCATGAAACTTTGAATTTAAAATGTTTGGAGATTAT-CCTGAAGGTCTTACAAATCTC
*
20295939 AAAATCTTTAAATGCTCCTCCAA
65 AAAATCTTTAAATACTCCTCCAA
* * * *
20295962 TCAGAGGCCACGAAACTTTGAGTTTAAAATGTTTGGAGATTATACTCGAAGGTCTTACAAGTCTC
1 TCAGAGGCCATGAAACTTTGAATTTAAAATGTTTGGAGATTATCCT-GAAGGTCTTACAAATCTC
20296027 AAAATCTTTAAATACTCCTCCAA
65 AAAATCTTTAAATACTCCTCCAA
* * *
20296050 TCATAGGCCATGAAACTTTGAATTTAAAATGTTTAGAGATTATACTTGAAGGTCTTACAAATCTC
1 TCAGAGGCCATGAAACTTTGAATTTAAAATGTTTGGAGATTAT-CCTGAAGGTCTTACAAATCTC
**
20296115 AAAATCTTTAAATACGACTCCAA
65 AAAATCTTTAAATACTCCTCCAA
* *
20296138 TAAGAGGCTATGAAACTTT
1 TCAGAGGCCATGAAACTTT
20296157 TAAAAAATTA
Statistics
Matches: 173, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
87 2 0.01
88 170 0.98
89 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.32
Consensus pattern (87 bp):
TCAGAGGCCATGAAACTTTGAATTTAAAATGTTTGGAGATTATCCTGAAGGTCTTACAAATCTCA
AAATCTTTAAATACTCCTCCAA
Found at i:20296227 original size:22 final size:22
Alignment explanation
Indices: 20296181--20296254 Score: 85
Period size: 22 Copynumber: 3.4 Consensus size: 22
20296171 GTTTGCTTGA
* * **
20296181 AGGTCTTACAAATTATATCTAG
1 AGGTCTTAAAAATTATACCCGG
*
20296203 AGGTCTTAAAAATTATGCCCGG
1 AGGTCTTAAAAATTATACCCGG
* *
20296225 AGGTCTTAAAGATTATACTCGG
1 AGGTCTTAAAAATTATACCCGG
20296247 AGGTCTTA
1 AGGTCTTA
20296255 GAGGTTTCAA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.32
Consensus pattern (22 bp):
AGGTCTTAAAAATTATACCCGG
Found at i:20296379 original size:22 final size:22
Alignment explanation
Indices: 20296332--20296387 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
20296322 TTGTCCGAAG
* *
20296332 GTCTTGAAA-ATTATGCCTAGAG
1 GTCTT-AAAGATTATGCCCAGAA
*
20296354 GTCTTAAAGATTATGCCCGGAA
1 GTCTTAAAGATTATGCCCAGAA
*
20296376 GTCTTAGAGATT
1 GTCTTAAAGATT
20296388 TTAAAATCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 3 0.10
22 26 0.90
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.32
Consensus pattern (22 bp):
GTCTTAAAGATTATGCCCAGAA
Found at i:20296483 original size:22 final size:22
Alignment explanation
Indices: 20296455--20296515 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
20296445 ATCTTTTTCC
20296455 CAGAGGTCTTGAAA-ATTATGCT
1 CAGAGGTCTT-AAAGATTATGCT
* *
20296477 CGGAGGTCCTAAAGATTATGCT
1 CAGAGGTCTTAAAGATTATGCT
* *
20296499 CAAAGGTCTTAGAGATT
1 CAGAGGTCTTAAAGATT
20296516 TCAAAATCTT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 3 0.09
22 29 0.91
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.30
Consensus pattern (22 bp):
CAGAGGTCTTAAAGATTATGCT
Found at i:20296511 original size:128 final size:127
Alignment explanation
Indices: 20296201--20296578 Score: 537
Period size: 127 Copynumber: 3.0 Consensus size: 127
20296191 AATTATATCT
* * * *
20296201 AGAGGTCTTAAAAATTATGCCCGGAGGTCTTAAAGATTATACTCGGAGGTCTTAGAGGTTTCAAA
1 AGAGGTCTTGAAAATTATG-CCGGAGGTCTTAAAGATTATGCTCGAAGGTCTTAGAGATTTCAAA
* * *
20296266 ATCTTTGAATGCTCCTCTAATTAGAGGCCATGAAACTTTTAAACAATTAAAATGTTTTGTCCG
65 ATCTTTGAATGCTCCTCCAATTAGAGGCCATGAAACTTTTAAAAAATTAAAATGTTTTGTCCC
* * *
20296329 A-AGGTCTTGAAAATTATGCCTAGAGGTCTTAAAGATTATGCCCGGAA-GTCTTAGAGATTTTAA
1 AGAGGTCTTGAAAATTATGCC-GGAGGTCTTAAAGATTATGCTC-GAAGGTCTTAGAGATTTCAA
* *
20296392 AATCTTTGAATGCTCCTCCAATTAGAGGCCATGAAATTTTTAAAAAAATTAAAATCTTTT-TCCC
64 AATCTTTGAATGCTCCTCCAATTAGAGGCCATGAAACTTTT-AAAAAATTAAAATGTTTTGTCCC
* *
20296456 AGAGGTCTTGAAAATTATGCTCGGAGGTCCTAAAGATTATGCTCAAAGGTCTTAGAGATTTCAAA
1 AGAGGTCTTGAAAATTATGC-CGGAGGTCTTAAAGATTATGCTCGAAGGTCTTAGAGATTTCAAA
* * *
20296521 ATCTTTGAATGCTCCTCCAATAAGAGGCCATGAAACTCTTGAAAAATTAAAATGTTTT
65 ATCTTTGAATGCTCCTCCAATTAGAGGCCATGAAACTTTTAAAAAATTAAAATGTTTT
20296579 ACAAATGGTT
Statistics
Matches: 222, Mismatches: 22, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
126 2 0.01
127 110 0.50
128 109 0.49
129 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.33
Consensus pattern (127 bp):
AGAGGTCTTGAAAATTATGCCGGAGGTCTTAAAGATTATGCTCGAAGGTCTTAGAGATTTCAAAA
TCTTTGAATGCTCCTCCAATTAGAGGCCATGAAACTTTTAAAAAATTAAAATGTTTTGTCCC
Found at i:20296982 original size:10 final size:10
Alignment explanation
Indices: 20296967--20296991 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
20296957 ACATCATTCA
20296967 TTTTTCTCTT
1 TTTTTCTCTT
20296977 TTTTTCTCTT
1 TTTTTCTCTT
20296987 TTTTT
1 TTTTT
20296992 TTTCTATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTCTCTT
Found at i:20297180 original size:18 final size:18
Alignment explanation
Indices: 20297136--20297181 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
20297126 CAATGATGTG
*
20297136 AATACAAATGTCAATGCG
1 AATACAAATGTCAATGCA
** *
20297154 AATGTAAATGTCATTGCA
1 AATACAAATGTCAATGCA
20297172 AATACAAATG
1 AATACAAATG
20297182 ACTTTTTCAC
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.46, C:0.13, G:0.15, T:0.26
Consensus pattern (18 bp):
AATACAAATGTCAATGCA
Found at i:20297394 original size:41 final size:41
Alignment explanation
Indices: 20297344--20297422 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
20297334 ATACAAATGT
* * *
20297344 GAATGTCTTTCTTATGATGCAGATGTAAGTGATGCAAAAGC
1 GAATATCTTTCTTATGATACAGATGCAAGTGATGCAAAAGC
* *
20297385 GAATATCTTTCTTGTGATACAGTTGCAAGTGATGCAAA
1 GAATATCTTTCTTATGATACAGATGCAAGTGATGCAAA
20297423 TGTAAATGTG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.33
Consensus pattern (41 bp):
GAATATCTTTCTTATGATACAGATGCAAGTGATGCAAAAGC
Found at i:20297796 original size:33 final size:33
Alignment explanation
Indices: 20297540--20297908 Score: 159
Period size: 33 Copynumber: 11.3 Consensus size: 33
20297530 GTAAATGCAT
* * * *
20297540 TGGGCTTAATATTTCATCAAGGGGCAACTAATC
1 TGGGCTTAATATTTCATTAAAGGCCAGCTAATC
* * *
20297573 TGGGCTTAAATATTTCTTTAAAGGTCGGCTAAAT-
1 TGGGCTT-AATATTTCATTAAAGGCCAGCT-AATC
* * ** * * *
20297607 TGGGCGT-ACA-TTCATTTGAGGTCAACTAATT
1 TGGGCTTAATATTTCATTAAAGGCCAGCTAATC
* ** *
20297638 TGGGCTTAAATCTTTTTTTTGAAGGCCAGCTAGA--
1 TGGGCTT-AAT-ATTTCATTAAAGGCCAGCTA-ATC
* * * *
20297672 TGGACTTAATATTTCATTAAGGGCTAGCTAATT
1 TGGGCTTAATATTTCATTAAAGGCCAGCTAATC
* * *
20297705 TAGGCTTAATATTT-A-TAAGAGGCAAGCTAATA
1 TGGGCTTAATATTTCATTAA-AGGCCAGCTAATC
**
20297737 TGGGCTTAATATTTCATTAGGGGCCAGCTAATC
1 TGGGCTTAATATTTCATTAAAGGCCAGCTAATC
* * * *
20297770 TGGGCTTAATATTTCTTTAAAAGCCAGTTAAAC
1 TGGGCTTAATATTTCATTAAAGGCCAGCTAATC
* *** **
20297803 T-GGCTT-ACATTT-ATTGGGGGTTAGCTAATC
1 TGGGCTTAATATTTCATTAAAGGCCAGCTAATC
* * * * *
20297833 TAGACTTAAATATTTCTTTGAAA-GCTAACTAAAT-
1 TGGGCTT-AATATTTCATT-AAAGGCCAGCT-AATC
* ***
20297867 TGGGCTTAATATTTCATTGAAGTTTAGCTAATC
1 TGGGCTTAATATTTCATTAAAGGCCAGCTAATC
20297900 TGGGCTTAA
1 TGGGCTTAA
20297909 ATCTTTCTTT
Statistics
Matches: 245, Mismatches: 70, Indels: 42
0.69 0.20 0.12
Matches are distributed among these distances:
30 13 0.05
31 31 0.13
32 50 0.20
33 90 0.37
34 42 0.17
35 18 0.07
36 1 0.00
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.37
Consensus pattern (33 bp):
TGGGCTTAATATTTCATTAAAGGCCAGCTAATC
Found at i:20297808 original size:65 final size:66
Alignment explanation
Indices: 20297540--20297941 Score: 281
Period size: 65 Copynumber: 6.1 Consensus size: 66
20297530 GTAAATGCAT
* * * *
20297540 TGGGCTTAATATTTCATCAAGGGG-CAACTAATCTGGGCTTAAATATTTCTTTAAAGGTCGGCTA
1 TGGGCTTAATATTTCAT-TAGGGGTCAGCTAATCTGGGCTTAAATATTTCTTTAAAGGCCAGCTA
20297604 AA
65 AA
* * * * * * * * *
20297606 TTGGGCGT-ACA-TTCATTTGAGGTCAACTAATTTGGGCTTAAATCTTTTTTTTGAAGGCCAGCT
1 -TGGGCTTAATATTTCATTAGGGGTCAGCTAATCTGGGCTTAAAT-ATTTCTTTAAAGGCCAGCT
*
20297669 AGA
64 AAA
* * * * * *
20297672 TGGACTTAATATTTCATTAAGGG-CTAGCTAATTTAGGCTT-AATA-TT-TATAAGAGGCAAGCT
1 TGGGCTTAATATTTCATTAGGGGTC-AGCTAATCTGGGCTTAAATATTTCTTTAA-AGGCCAGCT
20297733 AATA
64 AA-A
* * *
20297737 TGGGCTTAATATTTCATTAGGGGCCAGCTAATCTGGGCTT-AATATTTCTTTAAAAGCCAGTTAA
1 TGGGCTTAATATTTCATTAGGGGTCAGCTAATCTGGGCTTAAATATTTCTTTAAAGGCCAGCTAA
20297801 A
66 A
* * * * * * *
20297802 CT-GGCTT-ACATTT-ATTGGGGGTTAGCTAATCTAGACTTAAATATTTCTTTGAAA-GCTAACT
1 -TGGGCTTAATATTTCATTAGGGGTCAGCTAATCTGGGCTTAAATATTTCTTT-AAAGGCCAGCT
20297863 AAA
64 AAA
* * * * * **
20297866 TTGGGCTTAATATTTCATT-GAAGTTTAGCTAATCTGGGCTTAAATCTTTCTTTAAATGATAGCT
1 -TGGGCTTAATATTTCATTAG-GGGTCAGCTAATCTGGGCTTAAATATTTCTTTAAAGGCCAGCT
20297930 AAA
64 AAA
20297933 TTGGGCTTA
1 -TGGGCTTA
20297942 CATGCCCGAG
Statistics
Matches: 266, Mismatches: 51, Indels: 36
0.75 0.14 0.10
Matches are distributed among these distances:
63 23 0.09
64 38 0.14
65 82 0.31
66 45 0.17
67 78 0.29
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.37
Consensus pattern (66 bp):
TGGGCTTAATATTTCATTAGGGGTCAGCTAATCTGGGCTTAAATATTTCTTTAAAGGCCAGCTAA
A
Found at i:20297908 original size:67 final size:65
Alignment explanation
Indices: 20297567--20297941 Score: 216
Period size: 67 Copynumber: 5.7 Consensus size: 65
20297557 CAAGGGGCAA
* * * * *
20297567 CTAATCTGGGCTTAAATATTTCTTTAAAGGTCGGCTAAATTGGGCGT-ACATTCATTTG-AGGTC
1 CTAATCTGGGCTTAAATATTTCTTTAAAGCT-AGCTAAATTGGGCTTAACATTTA-TTGAAGGTT
*
20297630 AA
64 AG
* * * * * * * *
20297632 CTAATTTGGGCTTAAATCTTTTTTTTGAAGGCCAGCTAGA-TGGACTTAATATTTCATT-AAGGG
1 CTAATCTGGGCTTAAAT-ATTTCTTT-AAAGCTAGCTAAATTGGGCTTAACATTT-ATTGAA-GG
*
20297695 CTAG
62 TTAG
* * * * * *
20297699 CTAATTTAGGCTT-AATA-TT-TATAAGAGGCAAGCT-AATATGGGCTTAATATTTCATT-AGGG
1 CTAATCTGGGCTTAAATATTTCTTTAA-A-GCTAGCTAAAT-TGGGCTTAACATTT-ATTGA-AG
**
20297759 GCCAG
61 GTTAG
* * * **
20297764 CTAATCTGGGCTT-AATATTTCTTTAAAAGCCAGTTAAACT-GGCTT-ACATTTATTGGGGGTTA
1 CTAATCTGGGCTTAAATATTTCTTT-AAAGCTAGCTAAATTGGGCTTAACATTTATTGAAGGTTA
20297826 G
65 G
* * * * *
20297827 CTAATCTAGACTTAAATATTTCTTTGAAAGCTAACTAAATTGGGCTTAATATTTCATTGAAGTTT
1 CTAATCTGGGCTTAAATATTTCTTT-AAAGCTAGCTAAATTGGGCTTAACATTT-ATTGAAGGTT
20297892 AG
64 AG
* *
20297894 CTAATCTGGGCTTAAATCTTTCTTTAAATGATAGCTAAATTGGGCTTA
1 CTAATCTGGGCTTAAATATTTCTTTAAA-GCTAGCTAAATTGGGCTTA
20297942 CATGCCCGAG
Statistics
Matches: 239, Mismatches: 50, Indels: 40
0.73 0.15 0.12
Matches are distributed among these distances:
62 2 0.01
63 22 0.09
64 35 0.15
65 69 0.29
66 37 0.15
67 72 0.30
68 2 0.01
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.38
Consensus pattern (65 bp):
CTAATCTGGGCTTAAATATTTCTTTAAAGCTAGCTAAATTGGGCTTAACATTTATTGAAGGTTAG
Found at i:20298140 original size:10 final size:10
Alignment explanation
Indices: 20298125--20298149 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
20298115 ACATCAATCA
20298125 TTTTTCTCTT
1 TTTTTCTCTT
20298135 TTTTTCTCTT
1 TTTTTCTCTT
20298145 TTTTT
1 TTTTT
20298150 TTTCTTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTCTCTT
Found at i:20298312 original size:18 final size:18
Alignment explanation
Indices: 20298289--20298324 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
20298279 CTATCCAATG
20298289 ATGTGAATGCAAATGTCA
1 ATGTGAATGCAAATGTCA
20298307 ATGTGAATGCAAATGTCA
1 ATGTGAATGCAAATGTCA
20298325 TTGCAAATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.22, T:0.28
Consensus pattern (18 bp):
ATGTGAATGCAAATGTCA
Found at i:20298826 original size:33 final size:33
Alignment explanation
Indices: 20298772--20299024 Score: 200
Period size: 33 Copynumber: 7.8 Consensus size: 33
20298762 ATTTTTTGAA
**
20298772 GGCCAGCTAGA-CTGGATTTAATATTTCATTAAG
1 GGCCAGCTA-ATCTGGGCTTAATATTTCATTAAG
* * *
20298805 GGCTAGCTAATTTAGGCTTAATATTT-ATT-AG
1 GGCCAGCTAATCTGGGCTTAATATTTCATTAAG
* * *
20298836 AGGCAAGCTAATATGGGCTTAATATTTCATTAGG
1 -GGCCAGCTAATCTGGGCTTAATATTTCATTAAG
* *
20298870 GGCCAGCTAATCTGGGCTTAATATTTCTTTAAA
1 GGCCAGCTAATCTGGGCTTAATATTTCATTAAG
* * * **
20298903 GGCCAGTTAAACT-GGCTT-ACATTT-ATTGGG
1 GGCCAGCTAATCTGGGCTTAATATTTCATTAAG
* * *
20298933 GGCCAGCTAATCTAGACTTAAATATTTCTTTGAA-
1 GGCCAGCTAATCTGGGCTT-AATATTTCATT-AAG
* * *
20298967 AGCTAGCTAAAT-TGGGCTTAATATTTCATTGAG
1 GGCCAGCT-AATCTGGGCTTAATATTTCATTAAG
*
20299000 GGTCAGCTAATCTGGGCTTAA-ATTT
1 GGCCAGCTAATCTGGGCTTAATATTT
20299025 TTCTTTAAAT
Statistics
Matches: 171, Mismatches: 37, Indels: 25
0.73 0.16 0.11
Matches are distributed among these distances:
30 13 0.08
31 11 0.06
32 40 0.23
33 90 0.53
34 14 0.08
35 3 0.02
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.36
Consensus pattern (33 bp):
GGCCAGCTAATCTGGGCTTAATATTTCATTAAG
Found at i:20298860 original size:65 final size:65
Alignment explanation
Indices: 20298771--20299024 Score: 221
Period size: 65 Copynumber: 3.9 Consensus size: 65
20298761 CATTTTTTGA
* * ** * *
20298771 AGGCCAGCTAGACTGGATTTAATATTTCATTAAGGGCTAGCTAATTTAGGCTTAATATTTATTAG
1 AGGCAAGCTAAACTGGGCTTAATATTTCATTAAGGGCCAGCTAATCTAGGCTTAATATTTATTAG
* * *
20298836 AGGCAAGCTAATA-TGGGCTTAATATTTCATTAGGGGCCAGCTAATCTGGGCTTAATATTTCTTT
1 AGGCAAGCTAA-ACTGGGCTTAATATTTCATTAAGGGCCAGCTAATCTAGGCTTAATATTT-ATT
*
20298900 AA
64 AG
* * * ** * * *
20298902 AGGCCAGTTAAACT-GGCTT-ACATTT-ATTGGGGGCCAGCTAATCTAGACTTAAATATTTCTTT
1 AGGCAAGCTAAACTGGGCTTAATATTTCATTAAGGGCCAGCTAATCTAGGCTT-AATATTTATTA
20298964 G
65 G
* * * * * *
20298965 AAAGCTAGCTAAATTGGGCTTAATATTTCATTGAGGGTCAGCTAATCTGGGCTTAA-ATTT
1 -AGGCAAGCTAAACTGGGCTTAATATTTCATTAAGGGCCAGCTAATCTAGGCTTAATATTT
20299025 TTCTTTAAAT
Statistics
Matches: 153, Mismatches: 28, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
63 24 0.16
64 22 0.14
65 65 0.42
66 21 0.14
67 21 0.14
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (65 bp):
AGGCAAGCTAAACTGGGCTTAATATTTCATTAAGGGCCAGCTAATCTAGGCTTAATATTTATTAG
Found at i:20298987 original size:34 final size:34
Alignment explanation
Indices: 20298949--20299053 Score: 110
Period size: 34 Copynumber: 3.1 Consensus size: 34
20298939 CTAATCTAGA
*
20298949 CTTAAATATTTCTTTGAAAGCTAGCTAAATTGGG
1 CTTAAATATTTCTTTGAAAGATAGCTAAATTGGG
* * *
20298983 CTT-AATATTTCATTG-AGGGTCAGCT-AATCTGGG
1 CTTAAATATTTCTTTGAAAGAT-AGCTAAAT-TGGG
*
20299016 CTTAAATTTTTCTTT-AAATGATAGCTAAATTGGG
1 CTTAAATATTTCTTTGAAA-GATAGCTAAATTGGG
20299050 CTTA
1 CTTA
20299054 CATGCCCGAG
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
32 6 0.10
33 22 0.38
34 25 0.43
35 5 0.09
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.40
Consensus pattern (34 bp):
CTTAAATATTTCTTTGAAAGATAGCTAAATTGGG
Found at i:20299731 original size:12 final size:12
Alignment explanation
Indices: 20299694--20299741 Score: 52
Period size: 12 Copynumber: 4.3 Consensus size: 12
20299684 CATTCATTCC
20299694 TTTTTCTTT-AT
1 TTTTTCTTTCAT
20299705 TTTATTC-TTCA-
1 TTT-TTCTTTCAT
20299716 -TTTTCTTTCAT
1 TTTTTCTTTCAT
20299727 TTTTTCTTTC-T
1 TTTTTCTTTCAT
20299738 TTTT
1 TTTT
20299742 CCTCTTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
9 3 0.09
10 6 0.19
11 10 0.31
12 13 0.41
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTTCTTTCAT
Found at i:20299740 original size:21 final size:21
Alignment explanation
Indices: 20299695--20299734 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
20299685 ATTCATTCCT
20299695 TTTTCTTTATTTTATTCTTCA
1 TTTTCTTTATTTTATTCTTCA
20299716 TTTTCTTTCATTTT-TTCTT
1 TTTTCTTT-ATTTTATTCTT
20299735 TCTTTTTCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.75
Consensus pattern (21 bp):
TTTTCTTTATTTTATTCTTCA
Found at i:20299788 original size:19 final size:19
Alignment explanation
Indices: 20299766--20299804 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
20299756 TGCTTTGCTT
20299766 TTTTTTTTCTTTTGGATCC
1 TTTTTTTTCTTTTGGATCC
*
20299785 TTTTTTTTTTTTTGGATCC
1 TTTTTTTTCTTTTGGATCC
20299804 T
1 T
20299805 ATCATTGAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.05, C:0.13, G:0.10, T:0.72
Consensus pattern (19 bp):
TTTTTTTTCTTTTGGATCC
Found at i:20300146 original size:20 final size:20
Alignment explanation
Indices: 20300121--20300160 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
20300111 TTTCAACATT
* *
20300121 TTTTTTGTTTTTTGGTTTTG
1 TTTTTTCTTTTTTAGTTTTG
20300141 TTTTTTCTTTTTTAGTTTTG
1 TTTTTTCTTTTTTAGTTTTG
20300161 GCATTTCTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.03, C:0.03, G:0.15, T:0.80
Consensus pattern (20 bp):
TTTTTTCTTTTTTAGTTTTG
Found at i:20300293 original size:18 final size:17
Alignment explanation
Indices: 20300270--20300317 Score: 64
Period size: 16 Copynumber: 2.8 Consensus size: 17
20300260 GTCATAATTA
20300270 TTTTTTCTTCTTTCTC-T
1 TTTTTTCTTCTTT-TCAT
20300287 TTTTTT-TTCTTTTCAT
1 TTTTTTCTTCTTTTCAT
20300303 TTTTGTTCTTCTTTT
1 TTTT-TTCTTCTTTT
20300318 TTTGTTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
15 2 0.07
16 11 0.39
17 8 0.29
18 7 0.25
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.79
Consensus pattern (17 bp):
TTTTTTCTTCTTTTCAT
Found at i:20300305 original size:15 final size:16
Alignment explanation
Indices: 20300269--20300312 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
20300259 TGTCATAATT
20300269 ATTTTTTCTTCTTTCTC
1 ATTTTTT-TTCTTTCTC
*
20300286 TTTTTTTTTCTTT-TC
1 ATTTTTTTTCTTTCTC
*
20300301 ATTTTTGTTCTT
1 ATTTTTTTTCTT
20300313 CTTTTTTTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 12 0.50
16 6 0.25
17 6 0.25
ACGTcount: A:0.05, C:0.16, G:0.02, T:0.77
Consensus pattern (16 bp):
ATTTTTTTTCTTTCTC
Found at i:20301186 original size:18 final size:19
Alignment explanation
Indices: 20301155--20301190 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
20301145 ACTAAAAATT
*
20301155 TTTTTTTCTTCTTTTTTTA
1 TTTTTTTCTCCTTTTTTTA
20301174 TTTTTTTC-CCTTTTTTT
1 TTTTTTTCTCCTTTTTTT
20301191 TGCCTTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (19 bp):
TTTTTTTCTCCTTTTTTTA
Found at i:20301190 original size:21 final size:21
Alignment explanation
Indices: 20301152--20301191 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
20301142 GAGACTAAAA
**
20301152 ATTTTTTTTTCTTCTTTTTTT
1 ATTTTTTTCCCTTCTTTTTTT
20301173 ATTTTTTTCCCTT-TTTTTT
1 ATTTTTTTCCCTTCTTTTTT
20301192 GCCTTATTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.82
Consensus pattern (21 bp):
ATTTTTTTCCCTTCTTTTTTT
Found at i:20302818 original size:4 final size:4
Alignment explanation
Indices: 20302809--20302846 Score: 58
Period size: 4 Copynumber: 9.5 Consensus size: 4
20302799 TAGACACAAA
* *
20302809 AATG AATG AATG GATG AATG GATG AATG AATG AATG AA
1 AATG AATG AATG AATG AATG AATG AATG AATG AATG AA
20302847 CAAATGTCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.29, T:0.24
Consensus pattern (4 bp):
AATG
Found at i:20304968 original size:198 final size:202
Alignment explanation
Indices: 20304478--20304980 Score: 604
Period size: 202 Copynumber: 2.5 Consensus size: 202
20304468 TGAGAACTCC
* * * *
20304478 ATGAAAAAAAGTCATTAAAAGTTATAATCGTCATAAAATAAATGATAAACTATGATATATTAGTG
1 ATGAAAAAAAGTCATTAAAGGCTATAATCGTCACAAAATAAATGATAAAATATGATATATTAGTG
* * * * * * **
20304543 ATAAAAGGTAAATTGTCATAATATTGGTGACATAATTATTATCATAAATGATTATAAGATAATGT
66 ATGAAAGGTAAATCGTCATAGTATTGGTGACACAATTATCATCACAAATGATTATAAGATAACAT
* * * * * **
20304608 CAAATGAGACAATAAAATCAAACGTTACCTTATTCTTTTTTTTTTTGTGACGATAGTTTTTGTCA
131 CAAATCAGACAATAAAATCAAACGTTACATTATGCTTTTATTTTTTGTGACGATAATTTTCATCA
20304673 GCTATTT
196 GCTATTT
* * * * *
20304680 ATGAAAAAAAATCATTGAAGGCTATAATCGTCACAAAATAAATGATAAAATCTTATACATTAGTG
1 ATGAAAAAAAGTCATTAAAGGCTATAATCGTCACAAAATAAATGATAAAATATGATATATTAGTG
* * *
20304745 ATGAAAGGTAAATCATCATAGTATTGGTGATACAATTATCATCACAAATGATTGTAAGATAACAT
66 ATGAAAGGTAAATCGTCATAGTATTGGTGACACAATTATCATCACAAATGATTATAAGATAACAT
* * * * * *
20304810 CAAA-CATTATAATAAAATCAAATGTTACATTATGC-TTTATTTTTT-T-ATGTTAATTTTCATT
131 CAAATCA-GACAATAAAATCAAACGTTACATTATGCTTTTATTTTTTGTGACGATAATTTTCATC
*
20304871 GGCTATTT
195 AGCTATTT
*
20304879 ATG-AAAAAAGTCATTAAAGGCTATGATCGTCACAAAATAAATGATAAAATATGATATATTAGTG
1 ATGAAAAAAAGTCATTAAAGGCTATAATCGTCACAAAATAAATGATAAAATATGATATATTAGTG
* * *
20304943 ATGGAAA-GTAAATCGTTACAGTATTGGTGACATAATTA
66 AT-GAAAGGTAAATCGTCATAGTATTGGTGACACAATTA
20304981 AAGTCATTAA
Statistics
Matches: 254, Mismatches: 45, Indels: 8
0.83 0.15 0.03
Matches are distributed among these distances:
198 83 0.33
199 23 0.09
200 1 0.00
201 10 0.04
202 137 0.54
ACGTcount: A:0.42, C:0.09, G:0.13, T:0.35
Consensus pattern (202 bp):
ATGAAAAAAAGTCATTAAAGGCTATAATCGTCACAAAATAAATGATAAAATATGATATATTAGTG
ATGAAAGGTAAATCGTCATAGTATTGGTGACACAATTATCATCACAAATGATTATAAGATAACAT
CAAATCAGACAATAAAATCAAACGTTACATTATGCTTTTATTTTTTGTGACGATAATTTTCATCA
GCTATTT
Found at i:20307469 original size:9 final size:8
Alignment explanation
Indices: 20307438--20307475 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
20307428 TTAACAAAAA
20307438 TTTTAAA-
1 TTTTAAAT
*
20307445 TTTGAAAT
1 TTTTAAAT
20307453 TTTTAAAT
1 TTTTAAAT
*
20307461 TTTTAAAA
1 TTTTAAAT
20307469 TTTTAAA
1 TTTTAAA
20307476 CAAAATGTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
7 6 0.22
8 21 0.78
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (8 bp):
TTTTAAAT
Found at i:20308282 original size:15 final size:15
Alignment explanation
Indices: 20308254--20308288 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
20308244 TAAGATTATT
20308254 TTTTATTTAAAAAAA
1 TTTTATTTAAAAAAA
20308269 TTTT-TTTAACAAAAA
1 TTTTATTTAA-AAAAA
20308284 TTTTA
1 TTTTA
20308289 AATTACAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (15 bp):
TTTTATTTAAAAAAA
Found at i:20308341 original size:22 final size:21
Alignment explanation
Indices: 20308297--20308341 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
20308287 TAAATTACAG
* * *
20308297 ATTTTTAAATTCTTAGCATTT
1 ATTTTTAAATTCTAAACAATT
20308318 ATTTTTAAATTCTAAACAAATT
1 ATTTTTAAATTCTAAAC-AATT
20308340 AT
1 AT
20308342 GAATTTAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.38, C:0.09, G:0.02, T:0.51
Consensus pattern (21 bp):
ATTTTTAAATTCTAAACAATT
Found at i:20311751 original size:20 final size:22
Alignment explanation
Indices: 20311726--20311765 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
20311716 CATGATTTAT
20311726 GATAAA-AAAA-ATTAAAACCA
1 GATAAATAAAAGATTAAAACCA
20311746 GATAAATAAAAGATTAAAAC
1 GATAAATAAAAGATTAAAAC
20311766 ATAAAAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
21 4 0.22
22 8 0.44
ACGTcount: A:0.68, C:0.07, G:0.07, T:0.17
Consensus pattern (22 bp):
GATAAATAAAAGATTAAAACCA
Found at i:20311788 original size:18 final size:19
Alignment explanation
Indices: 20311747--20311792 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
20311737 TTAAAACCAG
*
20311747 ATAAATAAAAGATTAAAAC
1 ATAAATAAAAGATAAAAAC
20311766 ATAAA-AAAAGATAAATAAC
1 ATAAATAAAAGATAAA-AAC
20311785 -TAAATAAA
1 ATAAATAAA
20311793 TAAGACAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 13 0.54
19 11 0.46
ACGTcount: A:0.72, C:0.04, G:0.04, T:0.20
Consensus pattern (19 bp):
ATAAATAAAAGATAAAAAC
Found at i:20312797 original size:24 final size:25
Alignment explanation
Indices: 20312747--20312797 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 25
20312737 TATTGAGCTC
* * *
20312747 TTTTTTTTGTTTTTTGTTTCCACCT
1 TTTTTTTTCTTTCTTGTTTCAACCT
*
20312772 TTTTTTTTCTTTCTT-TTTCAATCT
1 TTTTTTTTCTTTCTTGTTTCAACCT
20312796 TT
1 TT
20312798 CATTTTTATT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
24 9 0.41
25 13 0.59
ACGTcount: A:0.06, C:0.16, G:0.04, T:0.75
Consensus pattern (25 bp):
TTTTTTTTCTTTCTTGTTTCAACCT
Found at i:20318769 original size:63 final size:63
Alignment explanation
Indices: 20318632--20318769 Score: 197
Period size: 63 Copynumber: 2.2 Consensus size: 63
20318622 GTTTGGTAAG
* *
20318632 ATTTTACTTTGGTGCAAATCTCTCAATAGTTTGGTGAGATTTTATATGAAAATCATTTATAAA
1 ATTTTACTTTGATGCAAATCTCTAAATAGTTTGGTGAGATTTTATATGAAAATCATTTATAAA
** * * *
20318695 ATTTTGTTTTGATGTAGAAT-TCTAAATAGTTTGGTGAGATTTTATTTGAAAATTATTTATAAA
1 ATTTTACTTTGATGCA-AATCTCTAAATAGTTTGGTGAGATTTTATATGAAAATCATTTATAAA
20318758 ATTTTACTTTGA
1 ATTTTACTTTGA
20318770 GAAAATTCAT
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
63 62 0.95
64 3 0.05
ACGTcount: A:0.33, C:0.06, G:0.14, T:0.47
Consensus pattern (63 bp):
ATTTTACTTTGATGCAAATCTCTAAATAGTTTGGTGAGATTTTATATGAAAATCATTTATAAA
Found at i:20319297 original size:12 final size:11
Alignment explanation
Indices: 20319272--20319296 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
20319262 TCTTGGTGGG
20319272 TTTCCCTTTTT
1 TTTCCCTTTTT
20319283 TTTCCCTTTTT
1 TTTCCCTTTTT
20319294 TTT
1 TTT
20319297 TTGTATGTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTCCCTTTTT
Found at i:20319687 original size:23 final size:23
Alignment explanation
Indices: 20319643--20319687 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
20319633 GATAAAAATT
*
20319643 TAAAACAAAATAATTAAAAAGAG
1 TAAAACAAAATAAATAAAAAGAG
*
20319666 TAAAAC-ATATAAATAAATAAGA
1 TAAAACAAAATAAATAAA-AAGA
20319688 CAAAAAAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.69, C:0.04, G:0.07, T:0.20
Consensus pattern (23 bp):
TAAAACAAAATAAATAAAAAGAG
Found at i:20320086 original size:23 final size:22
Alignment explanation
Indices: 20320058--20320103 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
20320048 TAAAAAAGTA
*
20320058 CCTAAAAGTTTTAAAAGATCATG
1 CCTAAAAGTCTT-AAAGATCATG
* *
20320081 CCTAAAGGTCTTAAAGATTATG
1 CCTAAAAGTCTTAAAGATCATG
20320103 C
1 C
20320104 TTGGAGTTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.30
Consensus pattern (22 bp):
CCTAAAAGTCTTAAAGATCATG
Found at i:20320486 original size:84 final size:84
Alignment explanation
Indices: 20320084--20320578 Score: 424
Period size: 84 Copynumber: 5.9 Consensus size: 84
20320074 GATCATGCCT
* * * * * * * *
20320084 AAAGGTCTTAAAGATTATGCTTGGAGTTCTTACAAATCTTGACTCTAAAATAAATTCAGCTCGAA
1 AAAGGACTTAGAGATTATACTTGGAGGTCTTACAAATCTTAACTCTAAAATAGATTCAGCTAGGA
**
20320149 AGACTTACAAATCTTACCC
66 AGACTTATGAATCTTACCC
* * ** * * *
20320168 AAAGGATTTAGAGATTATGCTTGGAGGTCTTACAAATCTCGA-TCTTAAAATAGATTCAACTCGC
1 AAAGGACTTAGAGATTATACTTGGAGGTCTTACAAATCTTAACTC-TAAAATAGATTCAGCTAGG
* * *
20320232 AAGATTTATGAATATTGCCC
65 AAGACTTATGAATCTTACCC
* * * * * * * *
20320252 AAATGACTCAGAGATTACACTTGGAAGTGTTACAAATCTTGACTTTAAAATAAATTCAGCTCA-G
1 AAAGGACTTAGAGATTATACTTGGAGGTCTTACAAATCTTAACTCTAAAATAGATTCAGCT-AGG
*
20320316 AAGACTTATGAATCTTATCC
65 AAGACTTATGAATCTTACCC
*
20320336 AAA-GACTTAGAGATTATACTTGGAGGTCTTATAAATCTTAACTCTAAAATAGATTCAAG-TCA-
1 AAAGGACTTAGAGATTATACTTGGAGGTCTTACAAATCTTAACTCTAAAATAGATTC-AGCT-AG
* **
20320398 GAAGACTTACGAATCTTACTT
64 GAAGACTTATGAATCTTACCC
* ** * * *
20320419 AGAGGACTCGGAGATTATGCCTAGAGGTCTTACAAATCTTAACTCTAAAATAGATTCAGCTAGGA
1 AAAGGACTTAGAGATTATACTTGGAGGTCTTACAAATCTTAACTCTAAAATAGATTCAGCTAGGA
* * * *
20320484 AGATTTATGAATATTGCCT
66 AGACTTATGAATCTTACCC
** * **** * * * * *
20320503 AAAAAACTTGGAGATTATACCCAAAGGTCTAATAAATCTCAACTCTAAAATAGATTCAGCTTGAA
1 AAAGGACTTAGAGATTATACTTGGAGGTCTTACAAATCTTAACTCTAAAATAGATTCAGCTAGGA
20320568 AGACTTATGAA
66 AGACTTATGAA
20320579 ATTTACCTAG
Statistics
Matches: 337, Mismatches: 67, Indels: 14
0.81 0.16 0.03
Matches are distributed among these distances:
83 72 0.21
84 264 0.78
85 1 0.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.31
Consensus pattern (84 bp):
AAAGGACTTAGAGATTATACTTGGAGGTCTTACAAATCTTAACTCTAAAATAGATTCAGCTAGGA
AGACTTATGAATCTTACCC
Found at i:20320554 original size:251 final size:251
Alignment explanation
Indices: 20320090--20320578 Score: 567
Period size: 251 Copynumber: 1.9 Consensus size: 251
20320080 GCCTAAAGGT
* * *
20320090 CTTAAAGATTATGCTTGGAGTTCTTACAAATCTTGACTCTAAAATAAATTCAGCTCGAAAGACTT
1 CTTAAAGATTATACTTGGAGGTCTTACAAATCTTAACTCTAAAATAAATTCAGCTCGAAAGACTT
* * * * *
20320155 ACAAATCTTACCCAAAGGATTTAGAGATTATGCTTGGAGGTCTTACAAATCTCGATCTTAAAATA
66 ACAAATCTTACCCAAAGGACTCAGAGATTATGCCTAGAGGTCTTACAAATCTCAATCTTAAAATA
* ** ***
20320220 GATTCAACTCGCAAGATTTATGAATATTGCCCAAATGACTCAGAGATTACACTTGGAAGTGTTAC
131 GATTCAACTAGCAAGATTTATGAATATTGCCCAAAAAACTCAGAGATTACACTCCAAAGTGTTAC
** *
20320285 AAATCTTGACTTTAAAATAAATTCAGCTCAG-AAGACTTATGAATCTTATCCAAAGA
196 AAATCTCAACTCTAAAATAAATTCAGCT-AGAAAGACTTATGAATCTTATCCAAAGA
* * *
20320341 CTTAGAGATTATACTTGGAGGTCTTATAAATCTTAACTCTAAAATAGATTCAAG-TC-AGAAGAC
1 CTTAAAGATTATACTTGGAGGTCTTACAAATCTTAACTCTAAAATAAATTC-AGCTCGA-AAGAC
* ** * * *
20320404 TTACGAATCTTACTTAGAGGACTCGGAGATTATGCCTAGAGGTCTTACAAATCTTAA-CTCTAAA
64 TTACAAATCTTACCCAAAGGACTCAGAGATTATGCCTAGAGGTCTTACAAATCTCAATCT-TAAA
* * * ** *
20320468 ATAGATTCAGCTAGGAAGATTTATGAATATTGCCTAAAAAACTTGGAGATTATAC-CCAAAG-GT
128 ATAGATTCAACTAGCAAGATTTATGAATATTGCCCAAAAAACTCAGAGATTACACTCCAAAGTGT
* * *
20320531 CTAATAAATCTCAACTCTAAAATAGATTCAGCTTGAAAGACTTATGAA
193 -T-ACAAATCTCAACTCTAAAATAAATTCAGCTAGAAAGACTTATGAA
20320579 ATTTACCTAG
Statistics
Matches: 197, Mismatches: 35, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
249 2 0.01
250 8 0.04
251 185 0.94
252 2 0.01
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (251 bp):
CTTAAAGATTATACTTGGAGGTCTTACAAATCTTAACTCTAAAATAAATTCAGCTCGAAAGACTT
ACAAATCTTACCCAAAGGACTCAGAGATTATGCCTAGAGGTCTTACAAATCTCAATCTTAAAATA
GATTCAACTAGCAAGATTTATGAATATTGCCCAAAAAACTCAGAGATTACACTCCAAAGTGTTAC
AAATCTCAACTCTAAAATAAATTCAGCTAGAAAGACTTATGAATCTTATCCAAAGA
Found at i:20321933 original size:13 final size:12
Alignment explanation
Indices: 20321915--20321955 Score: 66
Period size: 12 Copynumber: 3.5 Consensus size: 12
20321905 ATGCATTTTC
20321915 TTTTTTCTCTTT
1 TTTTTTCTCTTT
20321927 TTTTTT-TCTTT
1 TTTTTTCTCTTT
*
20321938 TTTTTTCCCTTT
1 TTTTTTCTCTTT
20321950 TTTTTT
1 TTTTTT
20321956 TTTTCATGAC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 11 0.41
12 16 0.59
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTTCTCTTT
Found at i:20321956 original size:13 final size:12
Alignment explanation
Indices: 20321910--20321956 Score: 60
Period size: 11 Copynumber: 3.8 Consensus size: 12
20321900 CAAAGATGCA
20321910 TTTTCTTTTTTCTC
1 TTTT-TTTTTTC-C
20321924 TTTTTTTTTT-C
1 TTTTTTTTTTCC
*
20321935 TTTTTTTTTCCC
1 TTTTTTTTTTCC
20321947 TTTTTTTTTT
1 TTTTTTTTTT
20321957 TTTCATGACC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 10 0.33
12 10 0.33
13 6 0.20
14 4 0.13
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTTTTTTCC
Found at i:20325149 original size:20 final size:20
Alignment explanation
Indices: 20325112--20325148 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
20325102 TTTTTATTTG
*
20325112 TTTTGATTTTTTCATTTTCA
1 TTTTGATTTTTACATTTTCA
20325132 TTTTGATTTTTAC-TTTT
1 TTTTGATTTTTACATTTT
20325149 TTAGTTTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.14, C:0.08, G:0.05, T:0.73
Consensus pattern (20 bp):
TTTTGATTTTTACATTTTCA
Found at i:20325768 original size:24 final size:24
Alignment explanation
Indices: 20325741--20325786 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
20325731 ATAAAATCTT
*
20325741 GATATATATAA-TTTTGCTAAATAA
1 GATAT-TATAACTTTTGATAAATAA
*
20325765 GATATTTTAACTTTTGATAAAT
1 GATATTATAACTTTTGATAAAT
20325787 GAAGTTACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.46
Consensus pattern (24 bp):
GATATTATAACTTTTGATAAATAA
Found at i:20326046 original size:2 final size:2
Alignment explanation
Indices: 20326039--20326073 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
20326029 AATTAGATTC
*
20326039 AT AT AT AT AT AG AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
20326074 CACACATACA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:20332310 original size:18 final size:18
Alignment explanation
Indices: 20332289--20332323 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
20332279 TATGGTAACT
20332289 GATACATTTGAGATGGAA
1 GATACATTTGAGATGGAA
*
20332307 GATACATTTGAGGTGGA
1 GATACATTTGAGATGGA
20332324 TAATAAGCAT
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:0.34, C:0.06, G:0.31, T:0.29
Consensus pattern (18 bp):
GATACATTTGAGATGGAA
Found at i:20332313 original size:36 final size:33
Alignment explanation
Indices: 20332218--20332319 Score: 98
Period size: 36 Copynumber: 3.0 Consensus size: 33
20332208 CCTTTGTTCT
*
20332218 TGATACATTTGAGATGGAAAGATATATTTGAGGA
1 TGATACATTTGAGATGG-AAGATACATTTGAGGA
* * * * *
20332252 TGATACACTTGTGGTGGAGGGTACATTT-ATGGTAA
1 TGATACATTTGAGATGGAAGATACATTTGA-GG--A
20332287 CTGATACATTTGAGATGGAAGATACATTTGAGG
1 -TGATACATTTGAGATGGAAGATACATTTGAGG
20332320 TGGATAATAA
Statistics
Matches: 52, Mismatches: 11, Indels: 8
0.73 0.15 0.11
Matches are distributed among these distances:
32 1 0.02
33 10 0.19
34 14 0.27
35 1 0.02
36 25 0.48
37 1 0.02
ACGTcount: A:0.32, C:0.07, G:0.28, T:0.32
Consensus pattern (33 bp):
TGATACATTTGAGATGGAAGATACATTTGAGGA
Found at i:20332678 original size:6 final size:6
Alignment explanation
Indices: 20332667--20332703 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
20332657 CCAAAATTTA
* *
20332667 CACCAT CACCAT CACCAT CTCCAT CACCAT CATCAT C
1 CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT C
20332704 TGGACTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.30, C:0.49, G:0.00, T:0.22
Consensus pattern (6 bp):
CACCAT
Found at i:20332690 original size:18 final size:18
Alignment explanation
Indices: 20332669--20332704 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
20332659 AAAATTTACA
20332669 CCATCACCATCACCATCT
1 CCATCACCATCACCATCT
*
20332687 CCATCACCATCATCATCT
1 CCATCACCATCACCATCT
20332705 GGACTTAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.28, C:0.47, G:0.00, T:0.25
Consensus pattern (18 bp):
CCATCACCATCACCATCT
Found at i:20336412 original size:19 final size:20
Alignment explanation
Indices: 20336388--20336425 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
20336378 AACAACAAAA
*
20336388 AAAATTA-AAATTCATATAC
1 AAAATTATAAATTAATATAC
20336407 AAAATTATAAATTAATATA
1 AAAATTATAAATTAATATA
20336426 TAACACAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAATTATAAATTAATATAC
Found at i:20336717 original size:40 final size:39
Alignment explanation
Indices: 20336664--20336768 Score: 108
Period size: 38 Copynumber: 2.7 Consensus size: 39
20336654 ACCACACCCA
* * *
20336664 ATCCCTCCCCACCCCATCAATCCCTCCACCTTCCCCC-AAC
1 ATCCCACCACACCCAATCAAT-CC-CCACCTTCCCCCTAAC
**
20336704 ATCCCACCACACCCAATCCCTCCCCACCTTCCCCCTAAC
1 ATCCCACCACACCCAATCAATCCCCACCTTCCCCCTAAC
* *
20336743 -GCCCACCACACCCAATC-CTCCCCACC
1 ATCCCACCACACCCAATCAATCCCCACC
20336769 CCATCCAATC
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
37 9 0.16
38 28 0.48
39 5 0.09
40 16 0.28
ACGTcount: A:0.22, C:0.63, G:0.01, T:0.14
Consensus pattern (39 bp):
ATCCCACCACACCCAATCAATCCCCACCTTCCCCCTAAC
Found at i:20336731 original size:38 final size:38
Alignment explanation
Indices: 20336681--20336768 Score: 130
Period size: 38 Copynumber: 2.4 Consensus size: 38
20336671 CCCACCCCAT
*
20336681 CAATCCCT--CCACCTTCCCCC-AACATCCCACCACACC
1 CAATCCCTCCCCACCTTCCCCCTAAC-GCCCACCACACC
20336717 CAATCCCTCCCCACCTTCCCCCTAACGCCCACCACACC
1 CAATCCCTCCCCACCTTCCCCCTAACGCCCACCACACC
20336755 CAAT-CCTCCCCACC
1 CAATCCCTCCCCACC
20336769 CCATCCAATC
Statistics
Matches: 48, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
36 8 0.17
37 10 0.21
38 27 0.56
39 3 0.06
ACGTcount: A:0.23, C:0.62, G:0.01, T:0.14
Consensus pattern (38 bp):
CAATCCCTCCCCACCTTCCCCCTAACGCCCACCACACC
Found at i:20338996 original size:37 final size:39
Alignment explanation
Indices: 20338955--20339034 Score: 103
Period size: 38 Copynumber: 2.1 Consensus size: 39
20338945 TTTGAACTTG
* *
20338955 TTTGAAAATT-GC-CCTCTCCAAACAAAGGCTTTGACAC
1 TTTGAAAATTGGCTCCTCCCCAAACAAAGGCTTTGAAAC
* *
20338992 TTTG-AAATTGGCTCTTCCCCAAACAGAGGCTTTGAAAC
1 TTTGAAAATTGGCTCCTCCCCAAACAAAGGCTTTGAAAC
20339030 TTTGA
1 TTTGA
20339035 CAATAGCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
36 5 0.14
37 6 0.17
38 25 0.69
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (39 bp):
TTTGAAAATTGGCTCCTCCCCAAACAAAGGCTTTGAAAC
Found at i:20339159 original size:17 final size:17
Alignment explanation
Indices: 20339139--20339171 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
20339129 TTCTTATATT
20339139 TTTATATTT-TATTTTAC
1 TTTAT-TTTGTATTTTAC
20339156 TTTATTTTGTATTTTA
1 TTTATTTTGTATTTTA
20339172 TGTATTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.73
Consensus pattern (17 bp):
TTTATTTTGTATTTTAC
Found at i:20339233 original size:13 final size:13
Alignment explanation
Indices: 20339167--20339233 Score: 55
Period size: 13 Copynumber: 5.0 Consensus size: 13
20339157 TTATTTTGTA
20339167 TTTTATGTATTTAT
1 TTTTAT-TATTTAT
* *
20339181 TATTACTATTTAT
1 TTTTATTATTTAT
**
20339194 TAATATATATTTA-
1 TTTTAT-TATTTAT
*
20339207 TTTTATTTTATTAT
1 TTTTATTAT-TTAT
20339221 TTTTATTATTTAT
1 TTTTATTATTTAT
20339234 CTGCTGATAT
Statistics
Matches: 42, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
12 2 0.05
13 22 0.52
14 18 0.43
ACGTcount: A:0.28, C:0.01, G:0.01, T:0.69
Consensus pattern (13 bp):
TTTTATTATTTAT
Found at i:20339257 original size:28 final size:27
Alignment explanation
Indices: 20339240--20339369 Score: 126
Period size: 28 Copynumber: 4.8 Consensus size: 27
20339230 TTATCTGCTG
20339240 ATATATATGTATTATTATTTATCTATTT
1 ATATATAT-TATTATTATTTATCTATTT
20339268 ATATATAATTATTATTATTTATCTATTT
1 ATATAT-ATTATTATTATTTATCTATTT
* *
20339296 ATATATATTATTATTTATCTAT-TAATT
1 ATATATATTATTA-TTATTTATCTATTT
* *
20339323 A-ATATGTTATCCTTATTA-TTATCTTTTT
1 ATATATATTA---TTATTATTTATCTATTT
*
20339351 AT-TTTATTATT-TTATTTAT
1 ATATATATTATTATTATTTAT
20339370 TTTTTTTCTT
Statistics
Matches: 86, Mismatches: 8, Indels: 19
0.76 0.07 0.17
Matches are distributed among these distances:
24 3 0.03
25 6 0.07
26 7 0.08
27 15 0.17
28 50 0.58
29 5 0.06
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (27 bp):
ATATATATTATTATTATTTATCTATTT
Found at i:20339270 original size:24 final size:25
Alignment explanation
Indices: 20339223--20339319 Score: 115
Period size: 28 Copynumber: 3.7 Consensus size: 25
20339213 TTTATTATTT
* *
20339223 TTATTATTTATCTGCTGATATATATGTA
1 TTATTATTTATCT-AT--TATATATATA
20339251 TTATTATTTATCTATTTATATATAATTA
1 TTATTATTTATCTA-TTATATAT-A-TA
20339279 TTATTATTTATCTATT-TATATATA
1 TTATTATTTATCTATTATATATATA
20339303 TTATTATTTATCTATTA
1 TTATTATTTATCTATTA
20339320 ATTAATATGT
Statistics
Matches: 63, Mismatches: 2, Indels: 11
0.83 0.03 0.14
Matches are distributed among these distances:
24 18 0.29
25 1 0.02
26 12 0.19
27 2 0.03
28 30 0.48
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.60
Consensus pattern (25 bp):
TTATTATTTATCTATTATATATATA
Found at i:20339327 original size:24 final size:24
Alignment explanation
Indices: 20339249--20339327 Score: 97
Period size: 24 Copynumber: 3.1 Consensus size: 24
20339239 GATATATATG
20339249 TATTATTATTTATCTATTTATATATAA
1 TATTATTATTTATCTA-TTA-AT-TAA
*
20339276 TTATTATTATTTATCTATTTA-TATA
1 -TATTATTATTTATCTATTAATTA-A
20339301 TATTATTATTTATCTATTAATTAA
1 TATTATTATTTATCTATTAATTAA
20339325 TAT
1 TAT
20339328 GTTATCCTTA
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
24 25 0.53
25 3 0.06
26 1 0.02
27 2 0.04
28 16 0.34
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (24 bp):
TATTATTATTTATCTATTAATTAA
Found at i:20339678 original size:24 final size:25
Alignment explanation
Indices: 20339638--20339688 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
20339628 CGGTGGGAAA
* *
20339638 TTTTTAGAGAATGTTTTGTAAATTT
1 TTTTTAGAGAATGTTTTGGAAAATT
20339663 TTTTCTAGA-AAT-TTTTGGAAAATT
1 TTTT-TAGAGAATGTTTTGGAAAATT
20339687 TT
1 TT
20339689 CAGATTTCGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 12 0.52
25 7 0.30
26 4 0.17
ACGTcount: A:0.29, C:0.02, G:0.14, T:0.55
Consensus pattern (25 bp):
TTTTTAGAGAATGTTTTGGAAAATT
Found at i:20340263 original size:9 final size:8
Alignment explanation
Indices: 20340255--20340313 Score: 55
Period size: 9 Copynumber: 6.6 Consensus size: 8
20340245 GATTTGTTTA
20340255 ATTTTTTT
1 ATTTTTTT
20340263 ATTTTTTTT
1 A-TTTTTTT
20340272 ATTTTCCTTT
1 ATTTT--TTT
20340282 ATTTTTATT
1 ATTTTT-TT
*
20340291 TTTATTTTT
1 ATT-TTTTT
20340300 ATTTTATTT
1 ATTTT-TTT
20340309 ATTTT
1 ATTTT
20340314 AAATAACATC
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
8 8 0.19
9 24 0.56
10 11 0.26
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.81
Consensus pattern (8 bp):
ATTTTTTT
Found at i:20340267 original size:5 final size:5
Alignment explanation
Indices: 20340259--20340314 Score: 53
Period size: 5 Copynumber: 11.0 Consensus size: 5
20340249 TGTTTAATTT
* *
20340259 TTTTA TTTT- TTTTA TTTTC CTTTA TTTTTA TTTTTA TTTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA -TTTTA -TTTTA -TTTTA TTTTA
20340306 -TTTA TTTTA
1 TTTTA TTTTA
20340315 AATAACATCA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
4 8 0.18
5 20 0.45
6 16 0.36
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:20340276 original size:6 final size:6
Alignment explanation
Indices: 20340258--20340308 Score: 54
Period size: 6 Copynumber: 8.5 Consensus size: 6
20340248 TTGTTTAATT
20340258 TTTTTA TTTTT- TTTATT- TTCCTTTA TTTTTA TTTTTA TTTTTA -TTTTA
1 TTTTTA TTTTTA TTT-TTA TT--TTTA TTTTTA TTTTTA TTTTTA TTTTTA
20340306 TTT
1 TTT
20340309 ATTTTAAATA
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
5 8 0.20
6 27 0.68
7 2 0.05
8 3 0.08
ACGTcount: A:0.14, C:0.04, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:20341154 original size:4 final size:4
Alignment explanation
Indices: 20341117--20341188 Score: 53
Period size: 4 Copynumber: 18.5 Consensus size: 4
20341107 CGTTTCCAGG
* * * *
20341117 TTTA TTTT TTTCA TTTT TTTA TTTTA TATA TTTA TTTA GTTA TTTA -TTA
1 TTTA TTTA TTT-A TTTA TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA
*
20341166 -TTA -TTA -TTA TTTA CTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
20341189 AGATTAGATT
Statistics
Matches: 55, Mismatches: 10, Indels: 6
0.77 0.14 0.08
Matches are distributed among these distances:
3 12 0.22
4 36 0.65
5 7 0.13
ACGTcount: A:0.24, C:0.03, G:0.01, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:20341176 original size:28 final size:28
Alignment explanation
Indices: 20341135--20341188 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
20341125 TTTCATTTTT
*
20341135 TTATTTTATATATTTATTTAGTTATTTA
1 TTATTTTATATATTTACTTAGTTATTTA
*
20341163 TTATTATTAT-TATTTACTTATTTATT
1 TTATT-TTATATATTTACTTAGTTATT
20341189 AGATTAGATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 19 0.83
29 4 0.17
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (28 bp):
TTATTTTATATATTTACTTAGTTATTTA
Found at i:20341183 original size:24 final size:26
Alignment explanation
Indices: 20341134--20341189 Score: 82
Period size: 24 Copynumber: 2.3 Consensus size: 26
20341124 TTTTCATTTT
*
20341134 TTTATT-TTATATATTTATTTAGTTA
1 TTTATTATTATATATTTATTTACTTA
20341159 TTTATTATTAT-TA-TTATTTACTTA
1 TTTATTATTATATATTTATTTACTTA
20341183 TTTATTA
1 TTTATTA
20341190 GATTAGATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 17 0.59
25 8 0.28
26 4 0.14
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (26 bp):
TTTATTATTATATATTTATTTACTTA
Found at i:20341228 original size:17 final size:15
Alignment explanation
Indices: 20341206--20341265 Score: 57
Period size: 17 Copynumber: 3.7 Consensus size: 15
20341196 ATTTGTTTAA
20341206 TATTTTTTTTTTTCCTT
1 TATTTTTTTTTTT--TT
20341223 TATTTTTATTTTCTTTT
1 TATTTTT-TTTT-TTTT
* *
20341240 TATTTTTTATTTTAT
1 TATTTTTTTTTTTTT
20341255 TATTTTATTTT
1 TATTTT-TTTT
20341266 CTTTAAATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
15 9 0.24
16 6 0.16
17 16 0.43
18 4 0.11
19 2 0.05
ACGTcount: A:0.13, C:0.05, G:0.00, T:0.82
Consensus pattern (15 bp):
TATTTTTTTTTTTTT
Found at i:20341407 original size:114 final size:115
Alignment explanation
Indices: 20341282--20341492 Score: 338
Period size: 114 Copynumber: 1.8 Consensus size: 115
20341272 ATAAAATAAA
* *
20341282 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAGCTTTC-CAAAAT
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAAG-TTTCAAAAAAT
*
20341345 ATTTTT-GAGGAAAAGTTTAAAGTATCAATTTTCCTTGAAAATAAATTTTCC
65 ATTTTTAGA-GAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAATTTTCC
*
20341396 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCAAAAAAAT
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAAGTTTC-AAAAAAT
20341461 ATTTTTAGAGAAAAGTTGAAAGTATCAATTTT
65 ATTTTTAGAGAAAAGTTGAAAGTATCAATTTT
20341493 TCCTGCACAA
Statistics
Matches: 89, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
114 51 0.57
115 3 0.03
116 33 0.37
117 2 0.02
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.36
Consensus pattern (115 bp):
AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAAGTTTCAAAAAATA
TTTTTAGAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAATTTTCC
Found at i:20341430 original size:58 final size:58
Alignment explanation
Indices: 20341282--20341492 Score: 329
Period size: 58 Copynumber: 3.7 Consensus size: 58
20341272 ATAAAATAAA
*
20341282 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCC
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAACTTTCC
* *
20341340 --AAAATATTTTTGAGGAAAAGTTTAAAGTATCAATTTTCCTTGAAAATAAATTTTCC
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAACTTTCC
* * * *
20341396 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCA
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAACTTTCC
20341454 AAAAAATATTTTT-AGAGAAAAGTTGAAAGTATCAATTTT
1 AAAAAATATTTTTGAG-GAAAAGTTGAAAGTATCAATTTT
20341493 TCCTGCACAA
Statistics
Matches: 142, Mismatches: 8, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
56 53 0.37
57 2 0.01
58 87 0.61
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.36
Consensus pattern (58 bp):
AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAACTTTCC
Found at i:20342137 original size:127 final size:128
Alignment explanation
Indices: 20341988--20342230 Score: 328
Period size: 127 Copynumber: 1.9 Consensus size: 128
20341978 CCGGAGGTCT
* * * * *
20341988 TGAAAATTTTGCCTGGAAGTCTTAAAGATTATG-TCCGAAAGTTTTAGAGATTTGAAAACCTTTG
1 TGAAAATTGTGCCTGGAAGTCTTAAAGATTATGCTCAGAAA-TCTTAAAGATTTCAAAACCTTTG
* ** *
20342052 AATGCTCATCCAATCAGAGGCTGTGACAC-TTTTAAAAAATTAAAATATTTTGCTTAGAGGTTG
65 AATGCTCATCCAATCAAAGGCCATGAAACTTTTTAAAAAATTAAAATATTTTGCTTAGAGGTTG
* ** * *
20342115 TGAAAATTGTGCCTGGAGGTCTTGGAGATTATGCTCAGAGATCTTAAAGATTTCAAAATCTTTGA
1 TGAAAATTGTGCCTGGAAGTCTTAAAGATTATGCTCAGAAATCTTAAAGATTTCAAAACCTTTGA
*
20342180 ATGCTCCTCCAATCAAAGGCCATGAAACTTTTTAAAAAATTAAAATATTTT
66 ATGCTCATCCAATCAAAGGCCATGAAACTTTTTAAAAAATTAAAATATTTT
20342231 CCCTGTAGGT
Statistics
Matches: 99, Mismatches: 15, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
127 72 0.73
128 27 0.27
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.34
Consensus pattern (128 bp):
TGAAAATTGTGCCTGGAAGTCTTAAAGATTATGCTCAGAAATCTTAAAGATTTCAAAACCTTTGA
ATGCTCATCCAATCAAAGGCCATGAAACTTTTTAAAAAATTAAAATATTTTGCTTAGAGGTTG
Found at i:20342434 original size:80 final size:80
Alignment explanation
Indices: 20342343--20342495 Score: 245
Period size: 80 Copynumber: 1.9 Consensus size: 80
20342333 ATGCCTAGAG
* * *
20342343 GTCTTGAAAATTATACT-CAAAGGTTTTAAATATCTCAAAATCTTTGAAAATTTTGAAAATTTAA
1 GTCTTGAAAATTAT-CTCCAAAGGTCTTAAAGATCTCAAAATCTTTGAAAATCTTGAAAATTTAA
20342407 AATGCTTTGGCCAAAA
65 AATGCTTTGGCCAAAA
* *
20342423 GTCTTGAAAATTATGTCCAGAGGTCTTAAAGATCTCAAAATCTTTGAAAATCTTGAAAATTTAAA
1 GTCTTGAAAATTATCTCCAAAGGTCTTAAAGATCTCAAAATCTTTGAAAATCTTGAAAATTTAAA
20342488 ATGCTTTG
66 ATGCTTTG
20342496 TCCGAGGGTT
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
79 1 0.01
80 66 0.99
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (80 bp):
GTCTTGAAAATTATCTCCAAAGGTCTTAAAGATCTCAAAATCTTTGAAAATCTTGAAAATTTAAA
ATGCTTTGGCCAAAA
Found at i:20342533 original size:24 final size:24
Alignment explanation
Indices: 20342506--20342561 Score: 71
Period size: 22 Copynumber: 2.4 Consensus size: 24
20342496 TCCGAGGGTT
***
20342506 TTAAAGAAATTATGCTTGGAGGTC
1 TTAAAGAAATTATGCCCAGAGGTC
20342530 TT-AA-AAATTATGCCCAGAGGTC
1 TTAAAGAAATTATGCCCAGAGGTC
20342552 TTAAAGAAAT
1 TTAAAGAAAT
20342562 CAAAATCTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 17 0.63
23 4 0.15
24 6 0.22
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (24 bp):
TTAAAGAAATTATGCCCAGAGGTC
Found at i:20342539 original size:104 final size:104
Alignment explanation
Indices: 20342423--20342658 Score: 316
Period size: 104 Copynumber: 2.3 Consensus size: 104
20342413 TTGGCCAAAA
* * ** *
20342423 GTCTTGAAAATTATGTCCAGAGGTCTTAAAGATCTCAAAATCTTTGAAAATCTTGAAAATTTAAA
1 GTCTTAAAAATTATGACCAGAGGTCTTAAAGAAATCAAAATCTTTGAAAATCTTAAAAATTTAAA
*
20342488 ATGCTTTGTCCGAG-GGTTTTAAAGAAATTATGCTTGGAG
66 ATGCTTTG-CCGAGAGGTCTTAAAGAAATTATGCTTGGAG
* *
20342527 GTCTTAAAAATTATGCCCAGAGGTCTTAAAGAAATCAAAATCTTTGAAAATTTTAAAAATTTAAA
1 GTCTTAAAAATTATGACCAGAGGTCTTAAAGAAATCAAAATCTTTGAAAATCTTAAAAATTTAAA
* ** *
20342592 ATGGTTTGCTTAGAGGTCTTAAAGAAATTGTGCTTGGAG
66 ATGCTTTGCCGAGAGGTCTTAAAGAAATTATGCTTGGAG
20342631 GTC-TAGAAAATTAT-ACCAAGAGGTCTTA
1 GTCTTA-AAAATTATGACC-AGAGGTCTTA
20342659 GAAATTTGTC
Statistics
Matches: 117, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
103 7 0.06
104 110 0.94
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (104 bp):
GTCTTAAAAATTATGACCAGAGGTCTTAAAGAAATCAAAATCTTTGAAAATCTTAAAAATTTAAA
ATGCTTTGCCGAGAGGTCTTAAAGAAATTATGCTTGGAG
Found at i:20342934 original size:18 final size:18
Alignment explanation
Indices: 20342903--20342948 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
20342893 TTCATCAAAT
* *
20342903 GATGCGAATGCAAATGTC
1 GATGCAAATACAAATGTC
20342921 GATGCAAATACAAATGTC
1 GATGCAAATACAAATGTC
*
20342939 AATGCAAATA
1 GATGCAAATA
20342949 TTTAACACAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.43, C:0.15, G:0.20, T:0.22
Consensus pattern (18 bp):
GATGCAAATACAAATGTC
Found at i:20346176 original size:3 final size:3
Alignment explanation
Indices: 20346143--20346266 Score: 123
Period size: 3 Copynumber: 41.7 Consensus size: 3
20346133 ATGGGCTCAC
*
20346143 ATT ATT -TT ATT -TT ATT -TT ATT ATTT ATTT ATT ATT ATT ATT AGT
1 ATT ATT ATT ATT ATT ATT ATT ATT A-TT A-TT ATT ATT ATT ATT ATT
* ** *
20346187 ATT ATT -TT TTT CGT -TT GTT ATTT ATT ATT ATT ACTT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT A-TT ATT ATT ATT
*
20346232 ATT ATT ATT ATT ATT ATT ATT ACT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
20346267 CATTTTTTTT
Statistics
Matches: 105, Mismatches: 8, Indels: 16
0.81 0.06 0.12
Matches are distributed among these distances:
2 9 0.09
3 83 0.79
4 13 0.12
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:20346293 original size:17 final size:18
Alignment explanation
Indices: 20346221--20346292 Score: 67
Period size: 18 Copynumber: 4.1 Consensus size: 18
20346211 TTATTATTAC
* * *
20346221 TTATTATTATTATTATTA
1 TTATTATTATCATTTTTT
* ** *
20346239 TTATTATTATTATTACTA
1 TTATTATTATCATTTTTT
20346257 TTATTATTATCATTTTTT
1 TTATTATTATCATTTTTT
20346275 TTATT-TTATC-TTTTTT
1 TTATTATTATCATTTTTT
20346291 TT
1 TT
20346293 TCTTGATTAA
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
16 8 0.16
17 5 0.10
18 36 0.73
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (18 bp):
TTATTATTATCATTTTTT
Found at i:20347260 original size:74 final size:76
Alignment explanation
Indices: 20347151--20347316 Score: 231
Period size: 74 Copynumber: 2.3 Consensus size: 76
20347141 TTCAATGATT
* *
20347151 TTTCT-AAAAT-AAAA-TTTCAAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTTC-T
1 TTTCTAAAAATAAAAATTTTCAAAAAAAAATTTTGAGGAAAAAGTTGAAAGTATCAATTTTTCTT
20347211 T-AAAAGTAAAA
66 TGAAAA-TAAAA
20347222 TTTCTAAAAATAAAAATTTTCAAAAAAAAATTTTGAGGAAAAAGTTGAAAGTATCAATTTTTCTT
1 TTTCTAAAAATAAAAATTTTCAAAAAAAAATTTTGAGGAAAAAGTTGAAAGTATCAATTTTTCTT
20347287 TGAAAATAAAA
66 TGAAAATAAAA
*
20347298 --TGTAAAAATAAATAATTTT
1 TTTCTAAAAATAAA-AATTTT
20347317 AAAGAAAGTT
Statistics
Matches: 85, Mismatches: 3, Indels: 10
0.87 0.03 0.10
Matches are distributed among these distances:
71 5 0.06
72 5 0.06
73 4 0.05
74 30 0.35
75 30 0.35
76 7 0.08
77 4 0.05
ACGTcount: A:0.50, C:0.05, G:0.09, T:0.36
Consensus pattern (76 bp):
TTTCTAAAAATAAAAATTTTCAAAAAAAAATTTTGAGGAAAAAGTTGAAAGTATCAATTTTTCTT
TGAAAATAAAA
Found at i:20348798 original size:63 final size:63
Alignment explanation
Indices: 20348646--20348791 Score: 197
Period size: 63 Copynumber: 2.3 Consensus size: 63
20348636 GTTTGGTAAG
* * * * *
20348646 ATTTTACTTTGGTGCAAATTTTTCAATAGTTTGGTGAGATTTTATTTGAAAATCATTTATAAA
1 ATTTTACTTTGATGTAAAATTCTAAATAGTTTGGTGAGATTTTATTTGAAAATCATTTATAAA
** * *
20348709 ATTTTGTTTTGATGTAGAATTCTAAATAGTTTGGTGAGATTTTATTTGAAAATTATTTATAAA
1 ATTTTACTTTGATGTAAAATTCTAAATAGTTTGGTGAGATTTTATTTGAAAATCATTTATAAA
20348772 ATTTTACTTTGA-G-AAAATTC
1 ATTTTACTTTGATGTAAAATTC
20348792 ATTAAATCTT
Statistics
Matches: 71, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
61 6 0.08
62 1 0.01
63 64 0.90
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.48
Consensus pattern (63 bp):
ATTTTACTTTGATGTAAAATTCTAAATAGTTTGGTGAGATTTTATTTGAAAATCATTTATAAA
Found at i:20349724 original size:29 final size:29
Alignment explanation
Indices: 20349669--20349724 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
20349659 ATTTAAAACC
* *
20349669 AAATAAATAAAAGAGTAAAACATAAAAAT
1 AAATAAATAAAACAGTAAAACAAAAAAAT
*
20349698 AAATAAATAAATACA-TAAGACAAAAAA
1 AAATAAATAAA-ACAGTAAAACAAAAAA
20349725 GATATAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 21 0.91
30 2 0.09
ACGTcount: A:0.73, C:0.05, G:0.05, T:0.16
Consensus pattern (29 bp):
AAATAAATAAAACAGTAAAACAAAAAAAT
Found at i:20350225 original size:83 final size:83
Alignment explanation
Indices: 20350112--20350479 Score: 332
Period size: 83 Copynumber: 4.4 Consensus size: 83
20350102 GTCCAAAGGT
* * * *
20350112 CTTAAAGATTATGCTCG-GAGTTCTTACAAATCTTGACTCTAAAACAAATTTAGCTCGAAAGACT
1 CTTAGAGATTACGCTCGAG-GTT-TTACAAATCTTGACTCTAAAATAAATTCAGCTCGAAAGACT
*
20350176 TACAAATCTTACCCAGAGGA
64 TACGAATCTTACCCAGAGGA
* * * * * * *
20350196 CTTAGAGATTACGCTCAAAGTTTTACAAATCTCGA-TCTTAAAATAGATTCAACTTGCAAGACTT
1 CTTAGAGATTACGCTCGAGGTTTTACAAATCTTGACTC-TAAAATAAATTCAGCTCGAAAGACTT
* * * *
20350260 ATGAATCTTGCCCAAATGA
65 ACGAATCTTACCCAGAGGA
* * * * * *
20350279 CTCAGAGATTACACTTGAAGGTGTTACAAATCTTGACTTTAAAATAAATTCAGCTCAAAAGACTT
1 CTTAGAGATTACGCTCG-AGGTTTTACAAATCTTGACTCTAAAATAAATTCAGCTCGAAAGACTT
* **
20350344 ATGAATCTTGTCCA-AGGA
65 ACGAATCTTACCCAGAGGA
* * * * *
20350362 CTTAGAGATTACTCTCGGAGGTCTTATAAATCTCGACTTTAAAATAAATTCAAG-TC-AAAGACT
1 CTTAGAGATTACGCTC-GAGGTTTTACAAATCTTGACTCTAAAATAAATTC-AGCTCGAAAGACT
*
20350425 TACGAATCTTACTCAGAGGA
64 TACGAATCTTACCCAGAGGA
* * *
20350445 CTTGGAGATTATGCTTGGAGGTTTTACAAATCTTG
1 CTTAGAGATTACGC-TCGAGGTTTTACAAATCTTG
20350480 GAGATTATGC
Statistics
Matches: 228, Mismatches: 48, Indels: 17
0.78 0.16 0.06
Matches are distributed among these distances:
82 20 0.09
83 137 0.60
84 70 0.31
85 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (83 bp):
CTTAGAGATTACGCTCGAGGTTTTACAAATCTTGACTCTAAAATAAATTCAGCTCGAAAGACTTA
CGAATCTTACCCAGAGGA
Found at i:20350474 original size:166 final size:167
Alignment explanation
Indices: 20350117--20350479 Score: 412
Period size: 167 Copynumber: 2.2 Consensus size: 167
20350107 AAGGTCTTAA
* * *
20350117 AGATTATGCTCGGA-GTTCTTACAAATCTTGACTCTAAAACAAATTTAGCTCGAAAGACTTACAA
1 AGATTATGCTTGGAGGTT-TTACAAATCTTGACTCTAAAACAAATTCAGCTCAAAAGACTTACAA
* *
20350181 ATCTTACCCAGAGGACTTAGAGATTACGCTCAAAGTTTTACAAATCTCGATCTTAAAATAGATTC
65 ATCTTACCCAGAGGACTTAGAGATTACGCTCAAAGTCTTACAAATCTCGATCTTAAAATAAATTC
* * * *
20350246 AACTTGCAAGACTTATGAATCTTGCCCAAATGACTCAG
130 AACGTGCAAGACTTACGAATCTTACCCAAAGGACTCAG
** * * * * **
20350284 AGATTACACTTGAAGGTGTTACAAATCTTGACTTTAAAATAAATTCAGCTCAAAAGACTTATGAA
1 AGATTATGCTTGGAGGTTTTACAAATCTTGACTCTAAAACAAATTCAGCTCAAAAGACTTACAAA
** * * * *
20350349 TCTTGTCCA-AGGACTTAGAGATTACTCTCGGAGGTCTTATAAATCTCGA-CTTTAAAATAAATT
66 TCTTACCCAGAGGACTTAGAGATTACGCTC-AAAGTCTTACAAATCTCGATC-TTAAAATAAATT
* * **
20350412 CAA-GT-CAAAGACTTACGAATCTTACTCAGAGGACTTGG
129 CAACGTGC-AAGACTTACGAATCTTACCCAAAGGACTCAG
20350450 AGATTATGCTTGGAGGTTTTACAAATCTTG
1 AGATTATGCTTGGAGGTTTTACAAATCTTG
20350480 GAGATTATGC
Statistics
Matches: 161, Mismatches: 31, Indels: 9
0.80 0.15 0.04
Matches are distributed among these distances:
165 1 0.01
166 71 0.44
167 87 0.54
168 2 0.01
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (167 bp):
AGATTATGCTTGGAGGTTTTACAAATCTTGACTCTAAAACAAATTCAGCTCAAAAGACTTACAAA
TCTTACCCAGAGGACTTAGAGATTACGCTCAAAGTCTTACAAATCTCGATCTTAAAATAAATTCA
ACGTGCAAGACTTACGAATCTTACCCAAAGGACTCAG
Found at i:20350502 original size:30 final size:31
Alignment explanation
Indices: 20350445--20350506 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 31
20350435 ACTCAGAGGA
** *
20350445 CTTGGAGATTATGCTTGGAGGTTTTACAAAT
1 CTTGGAGATTATGCTCAGAGGTCTTACAAAT
20350476 CTTGGAGATTATGC-CAGAGGTCTTACAAAT
1 CTTGGAGATTATGCTCAGAGGTCTTACAAAT
20350506 C
1 C
20350507 GTAACTCTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 14 0.50
31 14 0.50
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (31 bp):
CTTGGAGATTATGCTCAGAGGTCTTACAAAT
Found at i:20351954 original size:17 final size:15
Alignment explanation
Indices: 20351940--20351984 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 15
20351930 TGCCTTTTAG
20351940 CTTTTCTCTTTTTTTT
1 CTTTTCT-TTTTTTTT
*
20351956 TTTTTCTTTTTTTTTTT
1 CTTTTC--TTTTTTTTT
20351973 CTTTTCTTTTTT
1 CTTTTCTTTTTT
20351985 CTCTTTTGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
15 6 0.24
16 5 0.20
17 13 0.52
18 1 0.04
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (15 bp):
CTTTTCTTTTTTTTT
Done.