Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167826.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_1, 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: 36299135
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Warning! 357000 characters in sequence are not A, C, G, or T
File 23 of 402
Found at i:5312094 original size:34 final size:33
Alignment explanation
Indices: 5312020--5312111 Score: 116
Period size: 34 Copynumber: 2.8 Consensus size: 33
5312010 AAATTATTAG
5312020 GGCTAGATAAA-T-GAGCTTAAAATTTTCATGAA
1 GGCTAGATAAACTGGA-CTTAAAATTTTCATGAA
* *
5312052 GGCTAGATAAACTGGACTTAAAATCTTTCTTTAA
1 GGCTAGATAAACTGGACTTAAAAT-TTTCATGAA
* *
5312086 TGCTAGATAAACTGAACTTAAAATTT
1 GGCTAGATAAACTGGACTTAAAATTT
5312112 CATTAGGTGC
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
32 11 0.21
33 11 0.21
34 31 0.58
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (33 bp):
GGCTAGATAAACTGGACTTAAAATTTTCATGAA
Found at i:5312323 original size:28 final size:28
Alignment explanation
Indices: 5312289--5312364 Score: 100
Period size: 28 Copynumber: 2.7 Consensus size: 28
5312279 GATCAAAGGT
*
5312289 TAGATAAATTAGGCTTAAAATTAGGTGC
1 TAGATAAACTAGGCTTAAAATTAGGTGC
*
5312317 TAGATAAACTAGGCTTAAAATTGGGTGC
1 TAGATAAACTAGGCTTAAAATTAGGTGC
* *
5312345 TAGCA-AAGCTGGGCTTAAAA
1 TAG-ATAAACTAGGCTTAAAA
5312365 ATTCTTCTCA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
28 42 0.98
29 1 0.02
ACGTcount: A:0.38, C:0.11, G:0.24, T:0.28
Consensus pattern (28 bp):
TAGATAAACTAGGCTTAAAATTAGGTGC
Found at i:5312774 original size:22 final size:22
Alignment explanation
Indices: 5312749--5312797 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
5312739 ACTAATCCAA
* *
5312749 GCTTATGTGCCAATTAATCTGG
1 GCTTATGCGCCAACTAATCTGG
5312771 GCTTATGCGCCAACTAATCTGG
1 GCTTATGCGCCAACTAATCTGG
5312793 GCTTA
1 GCTTA
5312798 AAACTTCAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.33
Consensus pattern (22 bp):
GCTTATGCGCCAACTAATCTGG
Found at i:5314744 original size:42 final size:42
Alignment explanation
Indices: 5314689--5314777 Score: 151
Period size: 42 Copynumber: 2.1 Consensus size: 42
5314679 AAATGCTTTG
* * *
5314689 AAAGTATAGGGACAATAAAGTATCTCTCAAACATATATGAAA
1 AAAGTACAAGGACAATAAAGTATCTCTCAAACAGATATGAAA
5314731 AAAGTACAAGGACAATAAAGTATCTCTCAAACAGATATGAAA
1 AAAGTACAAGGACAATAAAGTATCTCTCAAACAGATATGAAA
5314773 AAAGT
1 AAAGT
5314778 TTTTCACATG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.52, C:0.12, G:0.15, T:0.21
Consensus pattern (42 bp):
AAAGTACAAGGACAATAAAGTATCTCTCAAACAGATATGAAA
Found at i:5324735 original size:17 final size:18
Alignment explanation
Indices: 5324703--5324763 Score: 54
Period size: 17 Copynumber: 3.3 Consensus size: 18
5324693 CAAGAATGTT
5324703 ATGCAAATATATTAATTATC
1 ATGC-AATATA-TAATTATC
*
5324723 ATGCAATA-ATAATAATC
1 ATGCAATATATAATTATC
**
5324740 ATATAAATATATAA-TATC
1 AT-GCAATATATAATTATC
5324758 ATGCAA
1 ATGCAA
5324764 ATCAAATATA
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
17 11 0.33
18 10 0.30
19 8 0.24
20 4 0.12
ACGTcount: A:0.51, C:0.10, G:0.05, T:0.34
Consensus pattern (18 bp):
ATGCAATATATAATTATC
Found at i:5324751 original size:37 final size:37
Alignment explanation
Indices: 5324707--5324788 Score: 100
Period size: 37 Copynumber: 2.2 Consensus size: 37
5324697 AATGTTATGC
5324707 AAATATATTAATTATCATGC-AAT--AATAATAATCATA
1 AAATATATTAA-TATCATGCAAATCAAAT-ATAATCATA
5324743 TAAATATA-TAATATCATGCAAATCAAATATAATCATA
1 -AAATATATTAATATCATGCAAATCAAATATAATCATA
*
5324780 CAATATATT
1 AAATATATT
5324789 GATAATTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
35 8 0.20
36 12 0.30
37 17 0.43
38 3 0.08
ACGTcount: A:0.52, C:0.10, G:0.02, T:0.35
Consensus pattern (37 bp):
AAATATATTAATATCATGCAAATCAAATATAATCATA
Found at i:5324887 original size:19 final size:19
Alignment explanation
Indices: 5324820--5324903 Score: 57
Period size: 19 Copynumber: 4.4 Consensus size: 19
5324810 AATTATGCAC
5324820 GCAATAAATATAGAAA-CAT
1 GCAATAAATATA-AAATCAT
* * *
5324839 GCAGTCAAATATAATATTAAT
1 GCAAT-AAATATAA-AATCAT
* *
5324860 -C-ATACAATATCATATCAT
1 GCAATA-AATATAAAATCAT
5324878 GCAATAAATATAAAATCAT
1 GCAATAAATATAAAATCAT
*
5324897 GTAATAA
1 GCAATAA
5324904 TAACAATAAT
Statistics
Matches: 48, Mismatches: 11, Indels: 12
0.68 0.15 0.17
Matches are distributed among these distances:
18 4 0.08
19 30 0.62
20 12 0.25
21 2 0.04
ACGTcount: A:0.52, C:0.12, G:0.07, T:0.29
Consensus pattern (19 bp):
GCAATAAATATAAAATCAT
Found at i:5325118 original size:21 final size:20
Alignment explanation
Indices: 5324989--5325312 Score: 179
Period size: 21 Copynumber: 15.9 Consensus size: 20
5324979 TGCAAATACA
*
5324989 CATGCAA-TCAAATATATAAT
1 CATGCAATTAAAATATA-AAT
* *
5325009 TACGCAATTAACAATATAAAAT
1 CATGCAATTAA-AATAT-AAAT
* *
5325031 -ATGCTATTAAACATCT-AAT
1 CATGCAATTAAA-ATATAAAT
* * *
5325050 TAGGCAATTAACAATGA-AAAA
1 CATGCAATTAA-AAT-ATAAAT
* *
5325071 CATACAAAT-AAATATATAAT
1 CATGCAATTAAAATATA-AAT
5325091 CATGCAATTAACAATATAAAT
1 CATGCAATTAA-AATATAAAT
* * *
5325112 TATGCAAAT-AAATATATATT
1 CATGCAATTAAAATATA-AAT
*
5325132 CATGCAATCAACAATATAAAAT
1 CATGCAATTAA-AATAT-AAAT
5325154 -ATGCAATT-AAATATATAAT
1 CATGCAATTAAAATATA-AAT
* *
5325173 CATACAGTTAACAATATAAAT
1 CATGCAATTAA-AATATAAAT
*
5325194 CATGCAATT-AAATATATCAT
1 CATGCAATTAAAATATA-AAT
*
5325214 CCATGTAATTAAAAATATAAAT
1 -CATGCAATT-AAAATATAAAT
*
5325236 CATGAAATT-AAATATATAAT
1 CATGCAATTAAAATATA-AAT
* *
5325256 CATGCAATCAACAATATAAAA
1 CATGCAATTAA-AATATAAAT
*
5325277 CATGCAATT-GAATATATAAT
1 CATGCAATTAAAATATA-AAT
*
5325297 CATGTAA--AAAATATAA
1 CATGCAATTAAAATATAA
5325313 TTAAATATAT
Statistics
Matches: 234, Mismatches: 41, Indels: 60
0.70 0.12 0.18
Matches are distributed among these distances:
18 3 0.01
19 46 0.20
20 63 0.27
21 78 0.33
22 35 0.15
23 9 0.04
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.30
Consensus pattern (20 bp):
CATGCAATTAAAATATAAAT
Found at i:5325297 original size:41 final size:41
Alignment explanation
Indices: 5324988--5325300 Score: 358
Period size: 41 Copynumber: 7.6 Consensus size: 41
5324978 ATGCAAATAC
* * *
5324988 ACATGCAATCAAATATATAATTACGCAATTAACAATATAAA
1 ACATGCAATTAAATATATAATCATGCAATTAACAATATAAA
* * * * * *
5325029 ATATGCTATTAAACATCTAATTAGGCAATTAACAATGA-AAA
1 ACATGCAATTAAATATATAATCATGCAATTAACAAT-ATAAA
* *
5325070 ACATACAAATAAATATATAATCATGCAATTAACAATATAAA
1 ACATGCAATTAAATATATAATCATGCAATTAACAATATAAA
** * * *
5325111 TTATGCAAATAAATATATATTCATGCAATCAACAATATAAA
1 ACATGCAATTAAATATATAATCATGCAATTAACAATATAAA
* * *
5325152 ATATGCAATTAAATATATAATCATACAGTTAACAATATAAA
1 ACATGCAATTAAATATATAATCATGCAATTAACAATATAAA
* * * *
5325193 TCATGCAATTAAATATATCATCCATGTAATTAAAAATATAAA
1 ACATGCAATTAAATATATAAT-CATGCAATTAACAATATAAA
* * *
5325235 TCATGAAATTAAATATATAATCATGCAATCAACAATATAAA
1 ACATGCAATTAAATATATAATCATGCAATTAACAATATAAA
*
5325276 ACATGCAATTGAATATATAATCATG
1 ACATGCAATTAAATATATAATCATG
5325301 TAAAAAATAT
Statistics
Matches: 229, Mismatches: 40, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
40 1 0.00
41 192 0.84
42 36 0.16
ACGTcount: A:0.52, C:0.12, G:0.06, T:0.30
Consensus pattern (41 bp):
ACATGCAATTAAATATATAATCATGCAATTAACAATATAAA
Found at i:5325402 original size:24 final size:23
Alignment explanation
Indices: 5325375--5325516 Score: 141
Period size: 24 Copynumber: 6.1 Consensus size: 23
5325365 AATTAAATAT
5325375 ATAATCATGCGAATAAATATATTA
1 ATAATCATGC-AATAAATATATTA
*
5325399 ATAATCAAGCAATTAAATATATTA
1 ATAATCATGCAA-TAAATATATTA
*
5325423 ATAATCATGCAATCAAAT-TA-AA
1 ATAATCATGCAAT-AAATATATTA
*
5325445 TATAATCATACAAATAAATATATTA
1 -ATAATCATGC-AATAAATATATTA
5325470 ATAATCATGC---AAATATATTA
1 ATAATCATGCAATAAATATATTA
**
5325490 ATAAATCACACAAATAAATATATTA
1 AT-AATCATGC-AATAAATATATTA
5325515 AT
1 AT
5325517 CAAATATATT
Statistics
Matches: 99, Mismatches: 8, Indels: 21
0.77 0.06 0.16
Matches are distributed among these distances:
20 12 0.12
21 6 0.06
22 1 0.01
23 18 0.18
24 49 0.49
25 13 0.13
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.32
Consensus pattern (23 bp):
ATAATCATGCAATAAATATATTA
Found at i:5325464 original size:47 final size:45
Alignment explanation
Indices: 5325375--5325516 Score: 171
Period size: 47 Copynumber: 3.0 Consensus size: 45
5325365 AATTAAATAT
* * *
5325375 ATAATCATGCGAATAAATATATTAATAATCAAGCAATTAAATATATTA
1 ATAATCATGCAAATAAAT-TAAT-ATAATCAA-CAAATAAATATATTA
5325423 ATAATCATGC-AATCAAATTAAATATAATCATACAAATAAATATATTA
1 ATAATCATGCAAAT-AAATT-AATATAATCA-ACAAATAAATATATTA
*
5325470 ATAATCATGCAAATATATTAATA-AATCACACAAATAAATATATTA
1 ATAATCATGCAAATAAATTAATATAATCA-ACAAATAAATATATTA
5325515 AT
1 AT
5325517 CAAATATATT
Statistics
Matches: 86, Mismatches: 4, Indels: 11
0.85 0.04 0.11
Matches are distributed among these distances:
45 23 0.27
46 4 0.05
47 39 0.45
48 20 0.23
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.32
Consensus pattern (45 bp):
ATAATCATGCAAATAAATTAATATAATCAACAAATAAATATATTA
Found at i:5325503 original size:21 final size:20
Alignment explanation
Indices: 5325460--5325505 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
5325450 TCATACAAAT
**
5325460 AAATATATTAATAATCATGC
1 AAATATATTAATAATCACAC
5325480 AAATATATTAATAAATCACAC
1 AAATATATTAAT-AATCACAC
5325501 AAATA
1 AAATA
5325506 AATATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.30
Consensus pattern (20 bp):
AAATATATTAATAATCACAC
Found at i:5325517 original size:21 final size:21
Alignment explanation
Indices: 5325447--5325518 Score: 65
Period size: 21 Copynumber: 3.3 Consensus size: 21
5325437 AAATTAAATA
*
5325447 TAATCATACAAATAAATATAT
1 TAATCACACAAATAAATATAT
* *
5325468 TAATAATCATGCAAATATAT-TAAT
1 TAATCA-CA--CAAATAAATAT-AT
*
5325492 AAATCACACAAATAAATATAT
1 TAATCACACAAATAAATATAT
5325513 TAATCA
1 TAATCA
5325519 AATATATTAG
Statistics
Matches: 39, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
21 20 0.51
22 2 0.05
23 3 0.08
24 14 0.36
ACGTcount: A:0.56, C:0.11, G:0.01, T:0.32
Consensus pattern (21 bp):
TAATCACACAAATAAATATAT
Found at i:5325521 original size:13 final size:12
Alignment explanation
Indices: 5325480--5325527 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 12
5325470 ATAATCATGC
5325480 AAATATATTAAT
1 AAATATATTAAT
* **
5325492 AAATCACACAAAT
1 AAAT-ATATTAAT
5325505 AAATATATTAAT
1 AAATATATTAAT
5325517 CAAATATATTA
1 -AAATATATTA
5325528 GGCAAATAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
12 9 0.32
13 19 0.68
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.33
Consensus pattern (12 bp):
AAATATATTAAT
Found at i:5325593 original size:17 final size:17
Alignment explanation
Indices: 5325567--5325601 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
5325557 TTAGTCATGC
5325567 AAATTCATGCAA-AAAT
1 AAATTCATGCAATAAAT
5325583 AAATATCATGCAATAAAT
1 AAAT-TCATGCAATAAAT
5325601 A
1 A
5325602 TAAAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 8 0.47
18 5 0.29
ACGTcount: A:0.57, C:0.11, G:0.06, T:0.26
Consensus pattern (17 bp):
AAATTCATGCAATAAAT
Found at i:5330642 original size:63 final size:63
Alignment explanation
Indices: 5330536--5330662 Score: 209
Period size: 63 Copynumber: 2.0 Consensus size: 63
5330526 CCCAAGTACT
* *
5330536 TGCCAATCTCTGTAGTATTTTTGATGCCAAGAGTGTCTATAATCCAACTTCTAACCTTTTTGC
1 TGCCAAGCTCTGTAGTATTTTTGATGCCAAGAGTGTCTATAATCCAACTTCTAACCTTTGTGC
* * *
5330599 TGCCAAGCTCTGTAGTATTTTTGATGCTAAGAGTGTTTGTAATCCAACTTCTAACCTTTGTGC
1 TGCCAAGCTCTGTAGTATTTTTGATGCCAAGAGTGTCTATAATCCAACTTCTAACCTTTGTGC
5330662 T
1 T
5330663 CGTAGGGCCT
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 59 1.00
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.40
Consensus pattern (63 bp):
TGCCAAGCTCTGTAGTATTTTTGATGCCAAGAGTGTCTATAATCCAACTTCTAACCTTTGTGC
Found at i:5341067 original size:302 final size:304
Alignment explanation
Indices: 5340583--5341198 Score: 859
Period size: 302 Copynumber: 2.0 Consensus size: 304
5340573 TTTTTGGCTC
* ** *
5340583 AAAACGCCTTTAATATTCTAGATGATAAATTGTAATAGTCGGATTATTGAAGGCGATTATATCCA
1 AAAATGCCTTTAATATTCTAGACAATAAATTGTAATAGTCGAATTATTGAAGGCGATTATATCCA
* * *
5340648 AATACGCCTTTAATAACATTTTGTTAGGAATTATTCAAGGCATTACCTATAGGAAAATGCCTTTC
66 AATACGCCTTCAATAACATTTTGTTAGGAATTATTCAAGGCATTACCTATAGAAAAATGCCATTC
*
5340713 ATAATCCATTCGATTAATTTTTAGTTGGTATTATTGAAAGCATTTTTTTAAAACGCCTTCAATAA
131 ATAATCCATTCGATTAATTTTTAGTTAGTATTATTGAAAGCATTTTTTTAAAACGCCTTCAATAA
** * *
5340778 TTTATAC-AAAAAGACGAGATAGATTTTTGAAGGTGTTTTTCACCCAAAATGCCTTTAATATTCC
196 TCCATACAAAAAAGACGAGATAGATTCTTGAAGGTGTTTTTCACCCAAAACGCCTTTAATATTCC
5340842 ACACAATAAATTTTT-GAGAGATTATTGAAGGTAGTTTTGGTAA
261 ACACAATAAATTTTTGGAGAGATTATTGAAGGTAGTTTTGGTAA
*
5340885 AAAATGCCTTTAATATT-TCAGACAATAAATTTTAATAGTCGAATTATTGAAGGC-AGTTATATC
1 AAAATGCCTTTAATATTCT-AGACAATAAATTGTAATAGTCGAATTATTGAAGGCGA-TTATATC
* * *
5340948 CAGAA-ATGCCTTCAATAACATTTTGTTAGGGATTATTCAAGGCGTTACC-AGTAGAAAAATGCC
64 CA-AATACGCCTTCAATAACATTTTGTTAGGAATTATTCAAGGCATTACCTA-TAGAAAAATGCC
* *
5341011 ATTCATAATCCATTTGATTAATTTTTAGTTAGTATTATTG-AAGCCATTTTTTTAAAACGCTTTC
127 ATTCATAATCCATTCGATTAATTTTTAGTTAGTATTATTGAAAG-CATTTTTTTAAAACGCCTTC
* * ** * *
5341075 AATAATCCATACAAAAAAGACGCGATGGATTCTTGAAGGTGTTTTTTGCTCAAAACGCTTTTAAT
191 AATAATCCATACAAAAAAGACGAGATAGATTCTTGAAGGTGTTTTTCACCCAAAACGCCTTTAAT
** * * * * *
5341140 ATTTTACACAATAAATTTTTGGTGTGATTATTGAATGTGGTTTTGGTTA
256 ATTCCACACAATAAATTTTTGGAGAGATTATTGAAGGTAGTTTTGGTAA
5341189 AAAATGCCTT
1 AAAATGCCTT
5341199 CAAAATTTTC
Statistics
Matches: 276, Mismatches: 31, Indels: 12
0.87 0.10 0.04
Matches are distributed among these distances:
301 6 0.02
302 173 0.63
303 64 0.23
304 33 0.12
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (304 bp):
AAAATGCCTTTAATATTCTAGACAATAAATTGTAATAGTCGAATTATTGAAGGCGATTATATCCA
AATACGCCTTCAATAACATTTTGTTAGGAATTATTCAAGGCATTACCTATAGAAAAATGCCATTC
ATAATCCATTCGATTAATTTTTAGTTAGTATTATTGAAAGCATTTTTTTAAAACGCCTTCAATAA
TCCATACAAAAAAGACGAGATAGATTCTTGAAGGTGTTTTTCACCCAAAACGCCTTTAATATTCC
ACACAATAAATTTTTGGAGAGATTATTGAAGGTAGTTTTGGTAA
Found at i:5344736 original size:80 final size:79
Alignment explanation
Indices: 5344607--5344810 Score: 275
Period size: 80 Copynumber: 2.6 Consensus size: 79
5344597 AACCATTTGG
* * *
5344607 CATATGATTCACCCCTCAATATCATACAAAACCATTCAGCAAAATAATATCAAACAACAAGGTTC
1 CATATGATTCAACCCTCAATATCATACAATACCATTCAGCAAAACAATATCAAACAACAAGGTTC
5344672 AACAAACCATTCAA
66 AACAAACCATTCAA
* * * *
5344686 CATATGATTTAGCCCTCTAATATCATACAATACCATTC-GCTAATACAATATCAGACAACAAGGT
1 CATATGATTCAACCCTC-AATATCATACAATACCATTCAGC-AAAACAATATCAAACAACAAGGT
*
5344750 TCAGCAAACCATTCAA
64 TCAACAAACCATTCAA
* * *
5344766 AATACGATTCAACCCTCCAATATCATACAATACCATTTAGCAAAA
1 CATATGATTCAACCCT-CAATATCATACAATACCATTCAGCAAAA
5344811 AAAATCAGCA
Statistics
Matches: 108, Mismatches: 13, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
79 17 0.16
80 88 0.81
81 3 0.03
ACGTcount: A:0.44, C:0.26, G:0.06, T:0.24
Consensus pattern (79 bp):
CATATGATTCAACCCTCAATATCATACAATACCATTCAGCAAAACAATATCAAACAACAAGGTTC
AACAAACCATTCAA
Found at i:5347856 original size:18 final size:19
Alignment explanation
Indices: 5347833--5347868 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
5347823 TGGGCCTATT
5347833 TTTATTTTTTT-TTATTTG
1 TTTATTTTTTTATTATTTG
5347851 TTTATTTTTTTATTATTT
1 TTTATTTTTTTATTATTT
5347869 ACTATTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (19 bp):
TTTATTTTTTTATTATTTG
Found at i:5347861 original size:19 final size:18
Alignment explanation
Indices: 5347833--5347868 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
5347823 TGGGCCTATT
*
5347833 TTTATTTTTTTTTATTTG
1 TTTATTTTTTATTATTTG
5347851 TTTATTTTTTTATTATTT
1 TTTA-TTTTTTATTATTT
5347869 ACTATTATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (18 bp):
TTTATTTTTTATTATTTG
Found at i:5347874 original size:18 final size:18
Alignment explanation
Indices: 5347835--5347887 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
5347825 GGCCTATTTT
**
5347835 TATTTTTTT-TTATTTGTT
1 TATTTTTTTATTATTT-AC
5347853 TATTTTTTTATTATTTAC
1 TATTTTTTTATTATTTAC
* *
5347871 TATTATATTATTATTTA
1 TATTTTTTTATTATTTA
5347888 AATTATTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 24 0.80
19 6 0.20
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.74
Consensus pattern (18 bp):
TATTTTTTTATTATTTAC
Found at i:5347897 original size:18 final size:18
Alignment explanation
Indices: 5347860--5347903 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
5347850 GTTTATTTTT
*
5347860 TTATTATTTACTATTATA
1 TTATTATTTACAATTATA
5347878 TTATTATTTA-AATTATTA
1 TTATTATTTACAATTA-TA
5347896 TTATTATT
1 TTATTATT
5347904 ATTTTGATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 4 0.17
18 20 0.83
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (18 bp):
TTATTATTTACAATTATA
Found at i:5355598 original size:22 final size:21
Alignment explanation
Indices: 5355573--5355631 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 21
5355563 GAATATTTTG
* *
5355573 ATGAGAATTTTTTAGTTCTCAA
1 ATGAGAATCTTTGAGTT-TCAA
5355595 ATGAGAATCTTTGAGTTTCAAA
1 ATGAGAATCTTTGAGTTTC-AA
*
5355617 ATAAGAATCTTTGAG
1 ATGAGAATCTTTGAG
5355632 GTGTGAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 2 0.06
22 31 0.94
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.39
Consensus pattern (21 bp):
ATGAGAATCTTTGAGTTTCAA
Found at i:5355678 original size:20 final size:21
Alignment explanation
Indices: 5355653--5355703 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
5355643 AAAATTTGTC
5355653 AATCTTTGAACTC-AAATGAG
1 AATCTTTGAACTCAAAATGAG
**
5355673 AATCTTTGGATTTCAAAATGAG
1 AATCTTT-GAACTCAAAATGAG
5355695 AATCTTTGA
1 AATCTTTGA
5355704 GGTGTGAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 7 0.26
21 6 0.22
22 14 0.52
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (21 bp):
AATCTTTGAACTCAAAATGAG
Found at i:5356352 original size:44 final size:44
Alignment explanation
Indices: 5356250--5356739 Score: 353
Period size: 44 Copynumber: 11.2 Consensus size: 44
5356240 ATGATTGTCA
* * *
5356250 AGGAGCTTTATTTATTTTTTTTCAAAGTTG-TGATGCCTCTATTTAG
1 AGGAGCTTTGTTTA--TTTTTTCAAAGTCGTTGA-GCCTCTGTTTAG
* ** * *
5356296 AGGAAC--AATTTATTTTTTTAAAGTCGTTGAGTCTCTGTTTAG
1 AGGAGCTTTGTTTATTTTTTCAAAGTCGTTGAGCCTCTGTTTAG
* *
5356338 ATGAGCTTTGTTTATTTTTTCAAAGT--TTCAATGCCTCTGTTTAG
1 AGGAGCTTTGTTTATTTTTTCAAAGTCGTT-GA-GCCTCTGTTTAG
** *
5356382 AGGAGC--AATTTATTTTTTTCAAAGTCGTTGAGCCTTTGTTTAG
1 AGGAGCTTTGTTTA-TTTTTTCAAAGTCGTTGAGCCTCTGTTTAG
* * *
5356425 AGAAGCAATTT-ATTCTTTTTTCAAAGTCGTTGAGCCTCTGTTTAG
1 AGGAGC--TTTGTTTATTTTTTCAAAGTCGTTGAGCCTCTGTTTAG
* * *
5356470 AGGAGCTTTATTTA-TTTTTCAAA----TTGAGTCTCTGCTTAG
1 AGGAGCTTTGTTTATTTTTTCAAAGTCGTTGAGCCTCTGTTTAG
* * * * * *
5356509 AGGAGCATTGTTTATTTGTCCAAAGTCGTTGAACCTCTGCTTAA
1 AGGAGCTTTGTTTATTTTTTCAAAGTCGTTGAGCCTCTGTTTAG
** *
5356553 AGGAGCTTTGTTTA-TTTTTCAAAAGTAATTGAGCCTCTGTTTAA
1 AGGAGCTTTGTTTATTTTTTC-AAAGTCGTTGAGCCTCTGTTTAG
* * * *
5356597 AAGAGCCTTG-TTAATTTTTCAAAAGTTGTTGAGCCTCTGTTTAG
1 AGGAGCTTTGTTTATTTTTTC-AAAGTCGTTGAGCCTCTGTTTAG
** * * * *
5356641 AGGAGCCATGTTTATCTTTCCAAAGTCATTGAGCCTCTGCTTAG
1 AGGAGCTTTGTTTATTTTTTCAAAGTCGTTGAGCCTCTGTTTAG
** * * * * * * *
5356685 AAAAGCCTTATTTATTTTTTTAAAAGTCATTGAGCTTCTGATTAA
1 AGGAGCTTTGTTTA-TTTTTTCAAAGTCGTTGAGCCTCTGTTTAG
5356730 AGGAGCTTTG
1 AGGAGCTTTG
5356740 ATCAAGATTT
Statistics
Matches: 353, Mismatches: 69, Indels: 45
0.76 0.15 0.10
Matches are distributed among these distances:
39 26 0.07
40 7 0.02
42 32 0.09
43 51 0.14
44 157 0.44
45 73 0.21
46 7 0.02
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.43
Consensus pattern (44 bp):
AGGAGCTTTGTTTATTTTTTCAAAGTCGTTGAGCCTCTGTTTAG
Found at i:5356381 original size:86 final size:88
Alignment explanation
Indices: 5356252--5356425 Score: 255
Period size: 86 Copynumber: 2.0 Consensus size: 88
5356242 GATTGTCAAG
*
5356252 GAGCTTTATTTATTTTTTTTCAAAGTTGTGATGCCTCTATTTAGAGGAACAATTTATTTTTTT-A
1 GAGCTTTATTTA-TTTTTTTCAAAGTTGTAATGCCTCTATTTAGAGGAACAATTTATTTTTTTCA
*
5356316 AAGTCGTTGAGTCTCTGTTTAGAT
65 AAGTCGTTGAGCCTCTGTTTAGAT
* * *
5356340 GAGCTTTGTTTA-TTTTTTCAAAGTT-TCAATGCCTCTGTTTAGAGGAGCAATTTATTTTTTTCA
1 GAGCTTTATTTATTTTTTTCAAAGTTGT-AATGCCTCTATTTAGAGGAACAATTTATTTTTTTCA
*
5356403 AAGTCGTTGAGCCTTTGTTTAGA
65 AAGTCGTTGAGCCTCTGTTTAGA
5356426 GAAGCAATTT
Statistics
Matches: 78, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
85 1 0.01
86 44 0.56
87 22 0.28
88 11 0.14
ACGTcount: A:0.23, C:0.11, G:0.18, T:0.48
Consensus pattern (88 bp):
GAGCTTTATTTATTTTTTTCAAAGTTGTAATGCCTCTATTTAGAGGAACAATTTATTTTTTTCAA
AGTCGTTGAGCCTCTGTTTAGAT
Found at i:5356573 original size:171 final size:166
Alignment explanation
Indices: 5356259--5356646 Score: 376
Period size: 171 Copynumber: 2.3 Consensus size: 166
5356249 AAGGAGCTTT
* *
5356259 ATTTATTTTTTTTCAAAGTTG-TGATGCCTCTATTTAGAGGAACAATTTATTTTTTTAAAGTCGT
1 ATTTATTTTTTTTCAAAGTTGTTGA-GCCTCTGTTTAGAGGAGC-ATTTATTTTTTTAAA---GT
* * * * * * *
5356323 TGAGTCTCTGTTTAGATGAGCTTTGTTTATTTTTTCAAAGTTTCAATGCCTCTGTTTAGAGGAGC
61 TGAGTCTCTGCTTAGAGGAGCATTGTTTATTTGTCCAAAGTTTCAA-GCCTCTGCTTAAAGGAGC
** *
5356388 AATTTATTTTTTTC-AAAGTCGTTGAGCCTTTGTTTAGAGAAGCA-
125 -ATTTATTTTTTTCAAAAGTAATTGAGCCTCTGTTTA-A-AAG-AG
*
5356432 ATTTATTCTTTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGC-TTTATTTATTTTTCAAA-TT
1 ATTTATT-TTTTTTCAAAGTTGTTGAGCCTCTGTTTAGAGGAGCATTTA-TT-TTTTT-AAAGTT
*
5356495 GAGTCTCTGCTTAGAGGAGCATTGTTTATTTGTCCAAAGTCGTTGAA-CCTCTGCTTAAAGGAGC
62 GAGTCTCTGCTTAGAGGAGCATTGTTTATTTGTCCAAAGT--TTCAAGCCTCTGCTTAAAGGAGC
*
5356559 -TTTGTTTATTTTTCAAAAGTAATTGAGCCTCTGTTTAAAAGAG
125 ATTT-ATT-TTTTTCAAAAGTAATTGAGCCTCTGTTTAAAAGAG
** * *
5356602 CCTTGTTAATTTTTCAAAAGTTGTTGAGCCTCTGTTTAGAGGAGC
1 ATTTATT-TTTTTTC-AAAGTTGTTGAGCCTCTGTTTAGAGGAGC
5356647 CATGTTTATC
Statistics
Matches: 182, Mismatches: 21, Indels: 26
0.79 0.09 0.11
Matches are distributed among these distances:
169 4 0.02
170 15 0.08
171 87 0.48
172 23 0.13
173 13 0.07
174 34 0.19
175 6 0.03
ACGTcount: A:0.24, C:0.13, G:0.19, T:0.44
Consensus pattern (166 bp):
ATTTATTTTTTTTCAAAGTTGTTGAGCCTCTGTTTAGAGGAGCATTTATTTTTTTAAAGTTGAGT
CTCTGCTTAGAGGAGCATTGTTTATTTGTCCAAAGTTTCAAGCCTCTGCTTAAAGGAGCATTTAT
TTTTTTCAAAAGTAATTGAGCCTCTGTTTAAAAGAG
Found at i:5356986 original size:20 final size:20
Alignment explanation
Indices: 5356937--5357014 Score: 86
Period size: 20 Copynumber: 3.8 Consensus size: 20
5356927 TTTATTCTTA
*
5356937 TTATTATTTTTTATTTATTT
1 TTATTATTTATTATTTATTT
*
5356957 TT-TTGGTTTATTATTTATTT
1 TTATT-ATTTATTATTTATTT
*
5356977 TTATTATTTACTATTATATTT
1 TTATTATTTATTATT-TATTT
5356998 TTATTTATATTATTATT
1 TTA-TTAT-TTATTATT
5357015 ATTATTTTGA
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
19 2 0.04
20 25 0.52
21 10 0.21
22 4 0.08
23 7 0.15
ACGTcount: A:0.23, C:0.01, G:0.03, T:0.73
Consensus pattern (20 bp):
TTATTATTTATTATTTATTT
Found at i:5357003 original size:18 final size:18
Alignment explanation
Indices: 5356934--5357021 Score: 74
Period size: 18 Copynumber: 4.8 Consensus size: 18
5356924 TATTTTATTC
*
5356934 TTATTATTATTTTTTAT-
1 TTATTATTATTATTTATA
* *
5356951 TTATT-TTTTTGGTTTATTA
1 TTATTATTATT-ATTTA-TA
*
5356970 TTTATTTTTATTATTTACTA
1 -TTATTATTATTATTTA-TA
*
5356990 TTA-TATTTTTATTTATA
1 TTATTATTATTATTTATA
5357007 TTATTATTATTATTT
1 TTATTATTATTATTT
5357022 TGATTGATTC
Statistics
Matches: 57, Mismatches: 8, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
16 4 0.07
17 14 0.25
18 21 0.37
19 3 0.05
20 11 0.19
21 4 0.07
ACGTcount: A:0.24, C:0.01, G:0.02, T:0.73
Consensus pattern (18 bp):
TTATTATTATTATTTATA
Found at i:5357692 original size:14 final size:14
Alignment explanation
Indices: 5357673--5357700 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
5357663 TGATTTAATT
5357673 TAATAAAAATAAAA
1 TAATAAAAATAAAA
5357687 TAATAAAAATAAAA
1 TAATAAAAATAAAA
5357701 GTTTTGGGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (14 bp):
TAATAAAAATAAAA
Found at i:5365744 original size:136 final size:136
Alignment explanation
Indices: 5365473--5365809 Score: 360
Period size: 136 Copynumber: 2.5 Consensus size: 136
5365463 GGCATTTTTA
* * * * ** * * *
5365473 TACAAGCGCCACCAAAGCAACGACGTTTTTCTCATAAAAATACCACTAAATTAG-AG-GTGTCTT
1 TACAAACGTCACCAAAGCAATGACATTTTTCTCATAAAAATGTCACTAAATTAGCAGCATCTC-A
* * * * *
5365536 AAAGATATAAACATCGCTAATATAAATATATTTTCAGATACAAATGCCTCTCAAGTAACATCATT
65 AAAAATAAAAACACCGCTAATATAAAGATATTTTCAGATACAAATACCTCTCAAGTAACATCATT
5365601 TTTCAGT
130 TTTCAGT
* * *
5365608 TACAAATGTCACCAAAGCAATGACTTTTTTCTCATAAAAACGTCACTAAATTAGCAGCATCTCAA
1 TACAAACGTCACCAAAGCAATGACATTTTTCTCATAAAAATGTCACTAAATTAGCAGCATCTCAA
* * * ** *
5365673 AAAATAAAAACGCCGCTAATATAGAGGTATTTTCAGATACAAATACCTC-CAAAGTAGTGA-CGT
66 AAAATAAAAACACCGCTAATATAAAGATATTTTCAGATACAAATACCTCTC-AAGTA-ACATCAT
5365736 TTTTCAGT
129 TTTTCAGT
* * * *
5365744 TACAAACGTTACAAAAGCAATGACATTTTTCTCATAAAAATGTTACTAATTTAGC-GACATCTCA
1 TACAAACGTCACCAAAGCAATGACATTTTTCTCATAAAAATGTCACTAAATTAGCAG-CATCTCA
5365808 AA
65 AA
5365810 GATAGAAACA
Statistics
Matches: 168, Mismatches: 29, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
135 48 0.29
136 116 0.69
137 4 0.02
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (136 bp):
TACAAACGTCACCAAAGCAATGACATTTTTCTCATAAAAATGTCACTAAATTAGCAGCATCTCAA
AAAATAAAAACACCGCTAATATAAAGATATTTTCAGATACAAATACCTCTCAAGTAACATCATTT
TTCAGT
Found at i:5371775 original size:33 final size:33
Alignment explanation
Indices: 5371738--5371805 Score: 77
Period size: 33 Copynumber: 2.0 Consensus size: 33
5371728 ATAATCTTAT
*
5371738 AATTATTCAATTATGATAAAAT-A-TTAATATAAA
1 AATTAATCAATTAT-A-AAAATAATTTAATATAAA
*
5371771 AATTAATCACTTATAAAAATAAATTTAATATAAA
1 AATTAATCAATTATAAAAAT-AATTTAATATAAA
5371805 A
1 A
5371806 TTTTAATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
31 5 0.17
32 1 0.03
33 13 0.43
34 11 0.37
ACGTcount: A:0.57, C:0.04, G:0.01, T:0.37
Consensus pattern (33 bp):
AATTAATCAATTATAAAAATAATTTAATATAAA
Found at i:5372974 original size:29 final size:31
Alignment explanation
Indices: 5372932--5373008 Score: 99
Period size: 29 Copynumber: 2.5 Consensus size: 31
5372922 TAATTTTTAA
*
5372932 ATTA-TAATAAAATATTTAAATT-TAAAATTT
1 ATTATTAATATAATATTTAAATTAT-AAATTT
5372962 -TT-TTAATATAATATTTAAATTATAAATTT
1 ATTATTAATATAATATTTAAATTATAAATTT
5372991 ATTAATTAATATAATATT
1 ATT-ATTAATATAATATT
5373009 AAAAGAATTA
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
29 25 0.61
30 3 0.07
32 13 0.32
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (31 bp):
ATTATTAATATAATATTTAAATTATAAATTT
Found at i:5373118 original size:29 final size:29
Alignment explanation
Indices: 5373078--5373145 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
5373068 ATAACATTAA
* * * *
5373078 TTAATATATTTATAGTTTAAATATTACAT
1 TTAATATTTTTAAAATTAAAATATTACAT
*
5373107 TTAATATTTTTAAAATTAAAATATTATAT
1 TTAATATTTTTAAAATTAAAATATTACAT
*
5373136 TAAATATTTT
1 TTAATATTTT
5373146 ATTATAATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (29 bp):
TTAATATTTTTAAAATTAAAATATTACAT
Found at i:5373187 original size:2 final size:2
Alignment explanation
Indices: 5373180--5373205 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
5373170 ACATTAAGTT
5373180 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
5373206 GATTTGATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:5381621 original size:16 final size:16
Alignment explanation
Indices: 5381586--5381633 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
5381576 GGGTAAACCC
*
5381586 ATTTTATATTTATATTTT
1 ATTTTAT-TTTAT-TATT
5381604 ATTTTATTTTATTATT
1 ATTTTATTTTATTATT
5381620 ATTATTA-TTTATTA
1 ATT-TTATTTTATTA
5381634 ATATAGATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 13 0.46
17 8 0.29
18 7 0.25
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
ATTTTATTTTATTATT
Found at i:5381621 original size:23 final size:22
Alignment explanation
Indices: 5381586--5381629 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
5381576 GGGTAAACCC
*
5381586 ATTTTATATTTATATTTTATTTT
1 ATTTTATATTTAT-TATTATTTT
5381609 ATTTTAT-TATTATTATTATTT
1 ATTTTATAT-TTATTATTATTT
5381630 ATTAATATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (22 bp):
ATTTTATATTTATTATTATTTT
Found at i:5381666 original size:34 final size:34
Alignment explanation
Indices: 5381610--5381691 Score: 107
Period size: 34 Copynumber: 2.4 Consensus size: 34
5381600 TTTTATTTTA
*
5381610 TTTTATTA-TTAT-TATTATTTATTAATATAG-AT
1 TTTTATTATTTATCTATTAATTATTAATAT-GTAT
5381642 TTTTATTATTTATCTATTAATTATTAATATGTAT
1 TTTTATTATTTATCTATTAATTATTAATATGTAT
*
5381676 TTTTTTTATTTTATCT
1 TTTTATTA-TTTATCT
5381692 TGATTGATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
32 8 0.18
33 5 0.11
34 24 0.55
35 7 0.16
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.66
Consensus pattern (34 bp):
TTTTATTATTTATCTATTAATTATTAATATGTAT
Found at i:5382421 original size:3 final size:3
Alignment explanation
Indices: 5382415--5382503 Score: 99
Period size: 3 Copynumber: 29.0 Consensus size: 3
5382405 TTTTTCTTAT
* *
5382415 TTA TTA TTA TTA TTA TT- TCTT TTA TTT TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA
** *
5382460 TTA TCG TTA TCA TTA TTA TTA TTA TTA TTA TTA CTTA TTGA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TT-A TTA
5382504 GATTATAATA
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
2 1 0.01
3 65 0.89
4 7 0.10
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:5382536 original size:5 final size:5
Alignment explanation
Indices: 5382526--5382559 Score: 50
Period size: 5 Copynumber: 6.4 Consensus size: 5
5382516 TTGGTATTCC
5382526 TTATT TTATTT TTATTT TTATT TTATT TTATT TT
1 TTATT TTA-TT TTA-TT TTATT TTATT TTATT TT
5382560 TTTAAATGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 17 0.61
6 11 0.39
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTATT
Found at i:5382540 original size:6 final size:6
Alignment explanation
Indices: 5382529--5382560 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
5382519 GTATTCCTTA
5382529 TTTTAT TTTTAT TTTTA- TTTTA- TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
5382561 TTAAATGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 10 0.40
6 15 0.60
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTAT
Found at i:5382542 original size:11 final size:11
Alignment explanation
Indices: 5382526--5382560 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
5382516 TTGGTATTCC
5382526 TTATTTTATTT
1 TTATTTTATTT
5382537 TTATTTT-TATT
1 TTATTTTAT-TT
5382548 TTATTTTATTT
1 TTATTTTATTT
5382559 TT
1 TT
5382561 TTAAATGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 1 0.05
11 20 0.91
12 1 0.05
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (11 bp):
TTATTTTATTT
Found at i:5382561 original size:17 final size:17
Alignment explanation
Indices: 5382526--5382560 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
5382516 TTGGTATTCC
5382526 TTATTTTATTTTTATTT
1 TTATTTTATTTTTATTT
5382543 TTATTTTA-TTTTATTT
1 TTATTTTATTTTTATTT
5382559 TT
1 TT
5382561 TTAAATGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (17 bp):
TTATTTTATTTTTATTT
Found at i:5382647 original size:16 final size:16
Alignment explanation
Indices: 5382626--5382684 Score: 61
Period size: 17 Copynumber: 3.8 Consensus size: 16
5382616 AAGTATTAAT
5382626 TTTTCTTGAAAATAAA
1 TTTTCTTGAAAATAAA
*
5382642 TTTTCTTTGAAAATAAG
1 TTTTC-TTGAAAATAAA
5382659 TTTTC-T-AAAA-AATA
1 TTTTCTTGAAAATAA-A
*
5382673 TTTTCTAGAAAA
1 TTTTCTTGAAAA
5382685 AGTTGAAAGT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
13 2 0.06
14 9 0.25
15 1 0.03
16 9 0.25
17 15 0.42
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.44
Consensus pattern (16 bp):
TTTTCTTGAAAATAAA
Found at i:5382663 original size:17 final size:17
Alignment explanation
Indices: 5382626--5382664 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
5382616 AAGTATTAAT
5382626 TTTTC-TTGAAAATAAA
1 TTTTCTTTGAAAATAAA
*
5382642 TTTTCTTTGAAAATAAG
1 TTTTCTTTGAAAATAAA
5382659 TTTTCT
1 TTTTCT
5382665 AAAAAATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.33, C:0.08, G:0.08, T:0.51
Consensus pattern (17 bp):
TTTTCTTTGAAAATAAA
Found at i:5382747 original size:57 final size:57
Alignment explanation
Indices: 5382637--5382818 Score: 267
Period size: 58 Copynumber: 3.2 Consensus size: 57
5382627 TTTCTTGAAA
*
5382637 ATAAATTTTCTTTGAAAATAAGTTTTCTAAAAAATATTTTCT-AGAAAAAGTTGAAAGT
1 ATAAATTTTCTTTGAAAATAA-TTTTCTAAAAAATATTTT-TGAGGAAAAGTTGAAAGT
*
5382695 ATAAATTTTCTTTGAAAATAATTTTCTAAAAAATATTTTTGAGGAAAAGTTGAAAAT
1 ATAAATTTTCTTTGAAAATAATTTTCTAAAAAATATTTTTGAGGAAAAGTTGAAAGT
* * * *
5382752 ATCAATTTCCTTTAAAAATAAATTTTTTAAAAAATATTTTTGAGGAAAAGTTGAAAGT
1 ATAAATTTTCTTTGAAAAT-AATTTTCTAAAAAATATTTTTGAGGAAAAGTTGAAAGT
*
5382810 ATCAATTTT
1 ATAAATTTT
5382819 TCTCAAAATT
Statistics
Matches: 114, Mismatches: 8, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
56 1 0.01
57 48 0.42
58 65 0.57
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.41
Consensus pattern (57 bp):
ATAAATTTTCTTTGAAAATAATTTTCTAAAAAATATTTTTGAGGAAAAGTTGAAAGT
Found at i:5382861 original size:57 final size:55
Alignment explanation
Indices: 5382651--5382883 Score: 215
Period size: 57 Copynumber: 4.1 Consensus size: 55
5382641 ATTTTCTTTG
* * * *
5382651 AAAATAAGTTTTCTAAAAAATATTTTCT-AGAAAAAGTTGAAAGTATAAATTTTCTTT
1 AAAATAAATTTTC-AAAAAATATTTT-TGAGGAAAAGTTGAAAGTATCAATTTT-TCT
*
5382708 GAAAAT-AATTTTCTAAAAAATATTTTTGAGGAAAAGTTGAAAATATCAATTTCCTT-T
1 -AAAATAAATTTTC-AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTT--TTCT
*
5382765 AAAAATAAATTTTTTAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCT
1 -AAAATAAA-TTTTCAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCT
* * * *
5382822 CAAAATTAAAGTTTCAGAAAAACA-TTTTG-GGAAAAAGTTGGAAGTACCAATTTTTCTT
1 -AAAA-TAAATTTTCA-AAAAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTTC-T
5382880 AAAA
1 AAAA
5382884 AAAAAAACGT
Statistics
Matches: 152, Mismatches: 13, Indels: 21
0.82 0.07 0.11
Matches are distributed among these distances:
56 5 0.03
57 86 0.57
58 56 0.37
59 5 0.03
ACGTcount: A:0.45, C:0.06, G:0.11, T:0.37
Consensus pattern (55 bp):
AAAATAAATTTTCAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCT
Found at i:5382882 original size:115 final size:115
Alignment explanation
Indices: 5382631--5382885 Score: 281
Period size: 115 Copynumber: 2.2 Consensus size: 115
5382621 TTAATTTTTC
* *
5382631 TTGAAAATA--AATTTTCTTTGAAAATAAGTTTTCTAAAAAATATTTTCTAGAAAAAGTTGAAAG
1 TTGAAAATACCAATTTTCTTTAAAAATAAATTTTCTAAAAAATATTTTCTAGAAAAAGTTGAAAG
* * * *
5382694 TATAAATTTTCTTTGAAAATAATTTTCTAAAAAATATTTTTGAGGAAAAG
66 TATAAATTTTCTCTCAAAATAAGTTTCTAAAAAACATTTTTGAGGAAAAG
* * * *
5382744 TTGAAAATATCAATTTCCTTTAAAAATAAATTTTTTAAAAAATATTTT-TGAGGAAAAGTTGAAA
1 TTGAAAATACCAATTTTCTTTAAAAATAAATTTTCTAAAAAATATTTTCT-AGAAAAAGTTGAAA
*
5382808 GTATCAATTTT-TCTCAAAATTAAAGTTTC-AGAAAAACA-TTTTG-GGAAAAAG
65 GTATAAATTTTCTCTCAAAA-T-AAGTTTCTA-AAAAACATTTTTGAGG-AAAAG
* * *
5382859 TTGGAAGTACCAATTTTTCTTAAAAAA
1 TTGAAAATACCAA-TTTTCTTTAAAAA
5382886 AAAAACGTTT
Statistics
Matches: 119, Mismatches: 15, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
113 9 0.08
114 9 0.08
115 78 0.66
116 23 0.19
ACGTcount: A:0.45, C:0.06, G:0.11, T:0.38
Consensus pattern (115 bp):
TTGAAAATACCAATTTTCTTTAAAAATAAATTTTCTAAAAAATATTTTCTAGAAAAAGTTGAAAG
TATAAATTTTCTCTCAAAATAAGTTTCTAAAAAACATTTTTGAGGAAAAG
Found at i:5382890 original size:47 final size:47
Alignment explanation
Indices: 5382839--5382936 Score: 126
Period size: 47 Copynumber: 2.1 Consensus size: 47
5382829 AAAGTTTCAG
* * *
5382839 AAAAACATTTT-GGGAAAAAGTTGGAAGTACCAATTTTTCTTAAAAAA
1 AAAAACATTTTAAGG-AAAAGTTGAAAGTACCAATTTTCCTTAAAAAA
* * *
5382886 AAAAACGTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATA
1 AAAAACATTTTAAGGAAAAGTTGAAAGTACCAATTTTCCTTAAAAAA
5382933 AAAA
1 AAAA
5382937 CTCTCAAATG
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
47 42 0.95
48 2 0.05
ACGTcount: A:0.49, C:0.08, G:0.13, T:0.30
Consensus pattern (47 bp):
AAAAACATTTTAAGGAAAAGTTGAAAGTACCAATTTTCCTTAAAAAA
Found at i:5388150 original size:17 final size:17
Alignment explanation
Indices: 5388128--5388160 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
5388118 TGATTCAAAA
5388128 TTAA-TTCCTTGACTGAT
1 TTAATTTCC-TGACTGAT
5388145 TTAATTTCCTGACTGA
1 TTAATTTCCTGACTGA
5388161 AATAAAAGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.24, C:0.18, G:0.12, T:0.45
Consensus pattern (17 bp):
TTAATTTCCTGACTGAT
Found at i:5388318 original size:2 final size:2
Alignment explanation
Indices: 5388313--5388343 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
5388303 AAATGTTTTG
*
5388313 AT AT AT AA 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 A
5388344 ACCTTATGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:5394863 original size:13 final size:13
Alignment explanation
Indices: 5394845--5394878 Score: 59
Period size: 13 Copynumber: 2.5 Consensus size: 13
5394835 TCCATTTGCA
5394845 TTTTTATTTTTAT
1 TTTTTATTTTTAT
5394858 TTTTTATTTTTAT
1 TTTTTATTTTTAT
5394871 TTATTTAT
1 TT-TTTAT
5394879 AAATATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 15 0.75
14 5 0.25
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTTATTTTTAT
Found at i:5394934 original size:50 final size:50
Alignment explanation
Indices: 5394864--5395034 Score: 195
Period size: 50 Copynumber: 3.3 Consensus size: 50
5394854 TTATTTTTTA
* * *
5394864 TTTTTATTTATTTATAAATATATATTTTATTATTATTTATCTATTA-ATCT
1 TTTTTATTTATCTATTAATATATATTTT-TTATTATTTATCTATTATATTT
* **
5394914 CTTTTATTTATCTATTAATATATATACATTTTTATTATTTAT-TAACATATTT
1 TTTTTATTTATCTATTAATATATAT---TTTTTATTATTTATCTATTATATTT
*
5394966 TTTATTATTTATCTATTAATGTATATTTTTTA-TATTTATCTATTATTATTT
1 TTT-TTATTTATCTATTAATATATATTTTTTATTATTTATCTATTA-TATTT
5395017 TTATTTATTTATCTATTA
1 TT-TTTATTTATCTATTA
5395035 TTAATTTTTG
Statistics
Matches: 103, Mismatches: 10, Indels: 15
0.80 0.08 0.12
Matches are distributed among these distances:
49 7 0.07
50 31 0.30
51 24 0.23
52 17 0.17
53 24 0.23
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.64
Consensus pattern (50 bp):
TTTTTATTTATCTATTAATATATATTTTTTATTATTTATCTATTATATTT
Found at i:5394982 original size:8 final size:7
Alignment explanation
Indices: 5394944--5395036 Score: 52
Period size: 7 Copynumber: 13.3 Consensus size: 7
5394934 TATATACATT
5394944 TTTATTA
1 TTTATTA
5394951 TTTATTAA
1 TTTATT-A
** *
5394959 CATATTT
1 TTTATTA
5394966 TTTATTA
1 TTTATTA
5394973 TTTATCTA
1 TTTAT-TA
*
5394981 TTAATGTA
1 TTTAT-TA
*
5394989 --TATTT
1 TTTATTA
5394994 TTTA-TA
1 TTTATTA
5395000 TTTATCTA
1 TTTAT-TA
5395008 -TTATTA
1 TTTATTA
5395014 TTT-TTA
1 TTTATTA
5395020 TTTATTTA
1 TTTA-TTA
*
5395028 TCTATTA
1 TTTATTA
5395035 TT
1 TT
5395037 AATTTTTGTT
Statistics
Matches: 64, Mismatches: 13, Indels: 18
0.67 0.14 0.19
Matches are distributed among these distances:
5 1 0.02
6 15 0.23
7 27 0.42
8 21 0.33
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.67
Consensus pattern (7 bp):
TTTATTA
Found at i:5395337 original size:21 final size:20
Alignment explanation
Indices: 5395313--5395353 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
5395303 TACAGCTTTA
5395313 AGAATTTGTGAGAATTTTTTT
1 AGAATTTGTGA-AATTTTTTT
* *
5395334 AGAATTTTTGAAGTTTTTTT
1 AGAATTTGTGAAATTTTTTT
5395354 TTTTGGAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.27, C:0.00, G:0.17, T:0.56
Consensus pattern (20 bp):
AGAATTTGTGAAATTTTTTT
Found at i:5395973 original size:58 final size:58
Alignment explanation
Indices: 5395910--5396186 Score: 280
Period size: 58 Copynumber: 4.7 Consensus size: 58
5395900 AAATTTCCAA
*
5395910 AAAAAAGTATTTTTGAGGAAAAGGTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTCT
1 AAAAAA-TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTCT
* * *
5395969 AAAAAATATTTTTGAAGAAAAGTTAAAAGTATCAATTTTCCTTGAAAATAAGTTTTCT
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTCT
* *
5396027 AAAAAATATTTTCGAGGAAAAGTTGAAAGTATCAA-TTTTCTTTGAAAATAA-ATTTCT
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTC-TTGAAAATAAGTTTTCT
* * * * *
5396084 AAAAAAGGGGGTTTTTTTTTA-GAAAACGTTGAAAGTAT-AAATTTTCGTCGAAATTAAAG-TTT
1 AAAAAA------TATTTTTGAGGAAAA-GTTGAAAGTATCAATTTTTC-TTGAAAAT-AAGTTTT
*
5396146 CA
57 CT
*
5396148 AAAAAATA-TTTTG-GGAAAAAATTGAAAGTATCAATTTTT
1 AAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTT
5396187 TTTATACAAA
Statistics
Matches: 184, Mismatches: 20, Indels: 29
0.79 0.09 0.12
Matches are distributed among these distances:
57 30 0.16
58 101 0.55
59 6 0.03
62 7 0.04
63 28 0.15
64 12 0.07
ACGTcount: A:0.43, C:0.06, G:0.14, T:0.37
Consensus pattern (58 bp):
AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTCT
Found at i:5400551 original size:12 final size:12
Alignment explanation
Indices: 5400531--5400566 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
5400521 TCATGCGTTG
*
5400531 GCATTGACATTT
1 GCATCGACATTT
5400543 GCATCGACATTT
1 GCATCGACATTT
5400555 GCATCGACATTT
1 GCATCGACATTT
5400567 CCATTAACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (12 bp):
GCATCGACATTT
Found at i:5400576 original size:24 final size:24
Alignment explanation
Indices: 5400531--5400576 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
5400521 TCATGCGTTG
* * *
5400531 GCATTGACATTTGCATCGACATTT
1 GCATCGACATTTCCATCAACATTT
*
5400555 GCATCGACATTTCCATTAACAT
1 GCATCGACATTTCCATCAACAT
5400577 CATTTAATGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (24 bp):
GCATCGACATTTCCATCAACATTT
Found at i:5401087 original size:129 final size:128
Alignment explanation
Indices: 5400816--5401081 Score: 306
Period size: 129 Copynumber: 2.1 Consensus size: 128
5400806 AGTTTCATTG
* * * * * *
5400816 CCTCTGATTATAAGGAGCATTCAAAGATTTTGATATTTGTAAGACTTTCGGGCATAATCTCTAAC
1 CCTCTAATTATGAGGGGCATTCAAAGATTTTAATATTTGTAAGACCTTCGAGCATAATCTCTAAC
* ** * **
5400881 ACTTTTGAGCACAACTTTCAAGACCTCCAGGCAAAAGATTTTCAAATATTTAAAAGTTTCATTA
66 ACCTCCGAGCACAACTTTCAAGACCTCCAGGCAAAAAATTTTCAAATATTTAAAAG-TTCAAGA
5400945 CCTCTAATTATGAGGGGCATTCAAAGATTTTAATATTTGTAAGACCTTCGAGCATAATCTCTAA-
1 CCTCTAATTATGAGGGGCATTCAAAGATTTTAATATTTGTAAGACCTTCGAGCATAATCTCTAAC
** * *
5401009 AGCCTCCG-GCACAACTTTCAAGATTTTCAGGCAAAAAATTTTTAAAT-TTTCAAAA-TTCACAG
66 A-CCTCCGAGCACAACTTTCAAGACCTCCAGGCAAAAAATTTTCAAATATTT-AAAAGTTCA-AG
5401071 A
128 A
* *
5401072 TCTCTTATTA
1 CCTCTAATTA
5401082 AATGAGCATC
Statistics
Matches: 116, Mismatches: 18, Indels: 8
0.82 0.13 0.06
Matches are distributed among these distances:
126 4 0.03
127 12 0.10
128 39 0.34
129 61 0.53
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.34
Consensus pattern (128 bp):
CCTCTAATTATGAGGGGCATTCAAAGATTTTAATATTTGTAAGACCTTCGAGCATAATCTCTAAC
ACCTCCGAGCACAACTTTCAAGACCTCCAGGCAAAAAATTTTCAAATATTTAAAAGTTCAAGA
Found at i:5401332 original size:109 final size:109
Alignment explanation
Indices: 5401138--5401863 Score: 757
Period size: 109 Copynumber: 6.7 Consensus size: 109
5401128 TTGATATGCA
* * * * ** *
5401138 GTGTTATCTCGATCAATTCGTTATTTTTTTGACTTACGGTGTTATCCC-AGTCGATTATGTAAGA
1 GTGTTGTCTCGATCGATTCATTA--TTTTTGACTTGCATTGTTATCCCGA-TCGATTCTGTAAGA
* *
5401202 CCTCTGAGCATGATTTCTAAGACCTCCGGGCATAAATTTGATTCACG
63 CCTCCGAGCATGATTTCTAAGACCTCCGGGCATAAATTCGATTCACG
*
5401249 GTGTTATCTCGATCGATTCATTATTTTTGACTTGCATTGTTATCCCGATCGATTCTGTAAGACCT
1 GTGTTGTCTCGATCGATTCATTATTTTTGACTTGCATTGTTATCCCGATCGATTCTGTAAGACCT
* * * *
5401314 CCGGGCATGATTTTTAAGACCTCCGGGCATAAATTTGATTTACG
66 CCGAGCATGATTTCTAAGACCTCCGGGCATAAATTCGATTCACG
* * * * * * **
5401358 ATGTTGTCCCAATCGATTCATTATTTTTGACTTGCGTTGTTAT--C--TCAATTTTGTAAGATTT
1 GTGTTGTCTCGATCGATTCATTATTTTTGACTTGCATTGTTATCCCGATCGATTCTGTAAGACCT
* * * *
5401419 TCGGGCATGATTTCTAAGACCTCTGGGCATAAATTCGATTTACG
66 CCGAGCATGATTTCTAAGACCTCCGGGCATAAATTCGATTCACG
* ** *
5401463 GTGTTGTCTCGATCGATTCATTATTTTTGACTTGCGTTGTTATTTCGATCGATTCTGTAAGACAT
1 GTGTTGTCTCGATCGATTCATTATTTTTGACTTGCATTGTTATCCCGATCGATTCTGTAAGACCT
* ** * *
5401528 CCGAGCATGATTTCTAAGACCTTCAAGCATAAATTCAATTCGCG
66 CCGAGCATGATTTCTAAGACCTCCGGGCATAAATTCGATTCACG
* * * * * *
5401572 GTGTTGTCCCAATCGATTCATTATTTTTGACTTGCATTGTTATCTCGGTTGATTCTATAAGACCT
1 GTGTTGTCTCGATCGATTCATTATTTTTGACTTGCATTGTTATCCCGATCGATTCTGTAAGACCT
* *
5401637 CCG-GACATGATTTCTAAGACCTTCGGGCATAAATTCGATTTACG
66 CCGAG-CATGATTTCTAAGACCTCCGGGCATAAATTCGATTCACG
* * * * * * * * *
5401681 ATGTTATGTCGATCGATT-TTTAGTTTTTCAACTTGTAGTGTTATCCTGGTCGATTCTGTAAGAC
1 GTGTTGTCTCGATCGATTCATTA-TTTTT-GACTTGCATTGTTATCCCGATCGATTCTGTAAGAC
* * * *
5401745 CTCCGAGCTTGATTTCTAAGACCTTCGGGCATAAGTTCGATTCGCG
64 CTCCGAGCATGATTTCTAAGACCTCCGGGCATAAATTCGATTCACG
* * * * * * *
5401791 GTGTTGTC-CTGATCAATTCATTATTGTTAACTTACATTGTTATCCCAATCGATTCTATAAGACT
1 GTGTTGTCTC-GATCGATTCATTATTTTTGACTTGCATTGTTATCCCGATCGATTCTGTAAGACC
*
5401855 TTCGAGCAT
65 TCCGAGCAT
5401864 AAATTTGATT
Statistics
Matches: 519, Mismatches: 85, Indels: 24
0.83 0.14 0.04
Matches are distributed among these distances:
105 93 0.18
107 2 0.00
108 4 0.01
109 310 0.60
110 85 0.16
111 25 0.05
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (109 bp):
GTGTTGTCTCGATCGATTCATTATTTTTGACTTGCATTGTTATCCCGATCGATTCTGTAAGACCT
CCGAGCATGATTTCTAAGACCTCCGGGCATAAATTCGATTCACG
Found at i:5401476 original size:214 final size:214
Alignment explanation
Indices: 5401197--5401839 Score: 804
Period size: 214 Copynumber: 3.0 Consensus size: 214
5401187 GTCGATTATG
* * * * *
5401197 TAAGACCTCTGAGCATGATTTCTAAGACCTCCGGGCATAAATTTGATTCACGGTGTTATCTCGAT
1 TAAGACCTCCGGGCATGATTTCTAAGACCTCTGGGCATAAATTCGATTTACGGTGTTATCTCGAT
*
5401262 CGATTCATTATTTTTGACTTGCATTGTTATCCCGATCGATTCTGTAAGACCTCCGGGCATGATTT
66 CGATTCATTATTTTTGACTTGCATTGTTATCCCGATCGATTCTGTAAGACCTCCGAGCATGATTT
* * * ** *
5401327 TTAAGACCTCCGGGCATAAATTTGATTTACGATGTTGTCCCAATCGATTCATTATTTTTGACTTG
131 CTAAGACCTTCGGGCATAAATTCGATTCGCGGTGTTGTCCCAATCGATTCATTATTTTTGACTTG
* * *
5401392 CGTTGTTATCTCAATTTTG
196 CATTGTTATCTCAATTCTA
** * *
5401411 TAAGATTTTCGGGCATGATTTCTAAGACCTCTGGGCATAAATTCGATTTACGGTGTTGTCTCGAT
1 TAAGACCTCCGGGCATGATTTCTAAGACCTCTGGGCATAAATTCGATTTACGGTGTTATCTCGAT
* ** *
5401476 CGATTCATTATTTTTGACTTGCGTTGTTATTTCGATCGATTCTGTAAGACATCCGAGCATGATTT
66 CGATTCATTATTTTTGACTTGCATTGTTATCCCGATCGATTCTGTAAGACCTCCGAGCATGATTT
** *
5401541 CTAAGACCTTCAAGCATAAATTCAATTCGCGGTGTTGTCCCAATCGATTCATTATTTTTGACTTG
131 CTAAGACCTTCGGGCATAAATTCGATTCGCGGTGTTGTCCCAATCGATTCATTATTTTTGACTTG
*
5401606 CATTGTTATCTCGGTTGATTCTA
196 CATTGTTATCTC----AATTCTA
* * *
5401629 TAAGACCTCCGGACATGATTTCTAAGACCT-TCGGGCATAAATTCGATTTACGATGTTATGTCGA
1 TAAGACCTCCGGGCATGATTTCTAAGACCTCT-GGGCATAAATTCGATTTACGGTGTTATCTCGA
* * * * * * *
5401693 TCGATT-TTTAGTTTTTCAACTTGTAGTGTTATCCTGGTCGATTCTGTAAGACCTCCGAGCTTGA
65 TCGATTCATTA-TTTTT-GACTTGCATTGTTATCCCGATCGATTCTGTAAGACCTCCGAGCATGA
* ** * * *
5401757 TTTCTAAGACCTTCGGGCATAAGTTCGATTCGCGGTGTTGTCCTGATCAATTCATTATTGTTAAC
128 TTTCTAAGACCTTCGGGCATAAATTCGATTCGCGGTGTTGTCCCAATCGATTCATTATTTTTGAC
* *
5401822 TTACATTGTTATCCCAAT
193 TTGCATTGTTATCTCAAT
5401840 CGATTCTATA
Statistics
Matches: 365, Mismatches: 57, Indels: 13
0.84 0.13 0.03
Matches are distributed among these distances:
214 183 0.50
215 2 0.01
217 4 0.01
218 70 0.19
219 106 0.29
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (214 bp):
TAAGACCTCCGGGCATGATTTCTAAGACCTCTGGGCATAAATTCGATTTACGGTGTTATCTCGAT
CGATTCATTATTTTTGACTTGCATTGTTATCCCGATCGATTCTGTAAGACCTCCGAGCATGATTT
CTAAGACCTTCGGGCATAAATTCGATTCGCGGTGTTGTCCCAATCGATTCATTATTTTTGACTTG
CATTGTTATCTCAATTCTA
Found at i:5402181 original size:110 final size:109
Alignment explanation
Indices: 5401971--5402238 Score: 270
Period size: 110 Copynumber: 2.4 Consensus size: 109
5401961 GATCGTCAGA
* * * * * * ** * * *
5401971 CATAAATTTGATTCGCAATGTCATCCCAATTGATTTATTATTTTTTGACTTGCGGTGTTGTTTCG
1 CATAAATTTAATTCACAGTGTTATCCCGATCGATTCCTTATTTTTCGACTTGCGATGTTGTCTCG
* *
5402036 TCGATTCTATAAGACCTCCAGGCATGATTCTTAAGACCTCCGAG
66 TCGATTCTACAAGACCTCCAGGCATGATTCCTAAGACCTCCGAG
* *
5402080 CATAAATTTAATTCACAGTGTTATCTCGATCGATT-CTTGATTTTTCGACTTGCGATTTTGTCTC
1 CATAAATTTAATTCACAGTGTTATCCCGATCGATTCCTT-ATTTTTCGACTTGCGATGTTGTCTC
* * *
5402144 AGTCGATTCTGCAAGACCTCC-GGACATGATTCCTAAGACCTCTGGG
65 -GTCGATTCTACAAGACCTCCAGG-CATGATTCCTAAGACCTCCGAG
* * * * * * *
5402190 TATAAATTTGATTTACGGTGTTGTCCCGATTGATTCCTTATTTCTCGAC
1 CATAAATTTAATTCACAGTGTTATCCCGATCGATTCCTTATTTTTCGAC
5402239 ATGCAGTTTA
Statistics
Matches: 130, Mismatches: 25, Indels: 7
0.80 0.15 0.04
Matches are distributed among these distances:
108 2 0.02
109 51 0.39
110 74 0.57
111 3 0.02
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.39
Consensus pattern (109 bp):
CATAAATTTAATTCACAGTGTTATCCCGATCGATTCCTTATTTTTCGACTTGCGATGTTGTCTCG
TCGATTCTACAAGACCTCCAGGCATGATTCCTAAGACCTCCGAG
Found at i:5402387 original size:110 final size:110
Alignment explanation
Indices: 5402247--5402453 Score: 299
Period size: 110 Copynumber: 1.9 Consensus size: 110
5402237 ACATGCAGTT
*
5402247 TAATCCCAGTCACTTTTATTTTTTTAACTTACGGGACAGTC-CTAGTCGTCGTTAATCTTTGACT
1 TAATCCCAGTCACTTTTATTTTTTTAACTTACGGGACAGTCTC-AGTCATCGTTAATCTTTGACT
* * *
5402311 CGTGGTTCAATCTCGGTTATTTCTATTAGTTACCTAACTTACGGTC
65 CATGGTTCAATCTCGATCATTTCTATTAGTTACCTAACTTACGGTC
* * * * **
5402357 TAATCTCAGTCTCTTTTATTTTTTTTACTTATGGTTCAGTCTCAGTCATCGTTAATCTTTGACTC
1 TAATCCCAGTCACTTTTATTTTTTTAACTTACGGGACAGTCTCAGTCATCGTTAATCTTTGACTC
*
5402422 ATGGTTCAATTTCGATCATTTCTATTAGTTAC
66 ATGGTTCAATCTCGATCATTTCTATTAGTTAC
5402454 TTGACTTGTG
Statistics
Matches: 85, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
110 84 0.99
111 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.14, T:0.45
Consensus pattern (110 bp):
TAATCCCAGTCACTTTTATTTTTTTAACTTACGGGACAGTCTCAGTCATCGTTAATCTTTGACTC
ATGGTTCAATCTCGATCATTTCTATTAGTTACCTAACTTACGGTC
Found at i:5402486 original size:110 final size:109
Alignment explanation
Indices: 5402244--5402557 Score: 288
Period size: 110 Copynumber: 2.8 Consensus size: 109
5402234 TCGACATGCA
* ** *
5402244 GTTTAATCCCAGTCACTTTTATTTTTTTAACTTACGGGACAGTC-CTAGTCGTCGTTAATCTTTG
1 GTTTAATCCCAGTCA-TTTTATTTTTTTAACTTATGGTTCAGTCTC-AGTCATCGTTAATCTTTG
* * *
5402308 ACTCGTGGTTCAATCTCGGTTATTTCTATTAGTTACCTAACTTACG
64 ACTCATGGTTCAATCTCGATCATTTCTATTAGTTACCTAACTTACG
* * * *
5402354 GTCTAATCTCAGTCTCTTTTATTTTTTTTACTTATGGTTCAGTCTCAGTCATCGTTAATCTTTGA
1 GTTTAATCCCAGTC-ATTTTATTTTTTTAACTTATGGTTCAGTCTCAGTCATCGTTAATCTTTGA
* * * **
5402419 CTCATGGTTCAATTTCGATCATTTCTATTAGTTACTTGACTTGTG
65 CTCATGGTTCAATCTCGATCATTTCTATTAGTTACCTAACTTACG
* * * * * * * * * * *
5402464 GTTTAGTCCCGGTCATTCTTATTTTTACTGACCTATAGTTTAGTCTCGGTCATCATTAATCTCTC
1 GTTTAATCCCAGTCATT-TTATTTTT-TTAACTTATGGTTCAGTCTCAGTCATCGTTAATCTTTG
** * * *
5402529 ACTTGTGGTTTAGTCTCGATCATTCCTAT
64 ACTCATGGTTCAATCTCGATCATTTCTAT
5402558 AGCTCTCTGA
Statistics
Matches: 164, Mismatches: 36, Indels: 7
0.79 0.17 0.03
Matches are distributed among these distances:
109 2 0.01
110 109 0.66
111 53 0.32
ACGTcount: A:0.19, C:0.20, G:0.15, T:0.46
Consensus pattern (109 bp):
GTTTAATCCCAGTCATTTTATTTTTTTAACTTATGGTTCAGTCTCAGTCATCGTTAATCTTTGAC
TCATGGTTCAATCTCGATCATTTCTATTAGTTACCTAACTTACG
Found at i:5402726 original size:36 final size:35
Alignment explanation
Indices: 5402685--5402770 Score: 100
Period size: 36 Copynumber: 2.4 Consensus size: 35
5402675 TAGCTTGCGA
* * *
5402685 TTTAATCTCAGTCGCTTTTATTTTTCTGACTTGTAG
1 TTTAATC-CAGTCACTTTTATTTTTCTCACTTGCAG
* *
5402721 TTTAATCCTAGTCACTTTTATTTTTGTCACTTGCGG
1 TTTAATCC-AGTCACTTTTATTTTTCTCACTTGCAG
5402757 TTTAATCACAGTCA
1 TTTAATC-CAGTCA
5402771 TCCTTATTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
35 1 0.02
36 41 0.95
37 1 0.02
ACGTcount: A:0.20, C:0.19, G:0.13, T:0.49
Consensus pattern (35 bp):
TTTAATCCAGTCACTTTTATTTTTCTCACTTGCAG
Found at i:5404616 original size:30 final size:30
Alignment explanation
Indices: 5404581--5404654 Score: 121
Period size: 30 Copynumber: 2.5 Consensus size: 30
5404571 TTAAATTTCA
*
5404581 AAACCCTAAAACCTCTTAACCTTTAAATCC
1 AAACCCTAAAACCTCATAACCTTTAAATCC
*
5404611 AAACCCTAGAACCTCATAACCTTTAAATCC
1 AAACCCTAAAACCTCATAACCTTTAAATCC
*
5404641 AAACCCCAAAACCT
1 AAACCCTAAAACCT
5404655 AAAATTCCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.42, C:0.35, G:0.01, T:0.22
Consensus pattern (30 bp):
AAACCCTAAAACCTCATAACCTTTAAATCC
Found at i:5408065 original size:24 final size:23
Alignment explanation
Indices: 5408029--5408076 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
5408019 ATTGATTAAA
* *
5408029 TATTATTAAAATTTTTTATATTTT
1 TATTAATAAAA-TTTTAATATTTT
*
5408053 TATTAATATAATTTTAATATTTT
1 TATTAATAAAATTTTAATATTTT
5408076 T
1 T
5408077 TTATCTTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (23 bp):
TATTAATAAAATTTTAATATTTT
Found at i:5408922 original size:18 final size:17
Alignment explanation
Indices: 5408899--5408933 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
5408889 CATTATCTTA
5408899 TCTTATGGTATATGATTG
1 TCTTATGGTATAT-ATTG
5408917 TCTTATGGTATATATTG
1 TCTTATGGTATATATTG
5408934 CTTTAGAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.23, C:0.06, G:0.20, T:0.51
Consensus pattern (17 bp):
TCTTATGGTATATATTG
Found at i:5414565 original size:12 final size:13
Alignment explanation
Indices: 5414548--5414581 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
5414538 CACTCCCATC
5414548 TTTTCTTTTTT-T
1 TTTTCTTTTTTCT
5414560 TTTTCTTTTTTCT
1 TTTTCTTTTTTCT
5414573 TTTT-TTTTT
1 TTTTCTTTTT
5414582 AAGTTTACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 16 0.76
13 5 0.24
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (13 bp):
TTTTCTTTTTTCT
Found at i:5414568 original size:17 final size:17
Alignment explanation
Indices: 5414546--5414580 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
5414536 TCCACTCCCA
5414546 TCTTTTCTT-TTTTTTTT
1 TCTTTT-TTCTTTTTTTT
5414563 TCTTTTTTCTTTTTTTT
1 TCTTTTTTCTTTTTTTT
5414580 T
1 T
5414581 TAAGTTTACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 15 0.88
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (17 bp):
TCTTTTTTCTTTTTTTT
Found at i:5415639 original size:24 final size:23
Alignment explanation
Indices: 5415604--5415653 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 23
5415594 TTATAATAAT
5415604 AAATATTCAAATAAAAAATAAATA
1 AAATATTCAAATAAAAAA-AAATA
*
5415628 AAATAGTT-AAATAAATAAAAATA
1 AAATA-TTCAAATAAAAAAAAATA
5415651 AAA
1 AAA
5415654 GAATACCTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 8 0.33
24 14 0.58
25 2 0.08
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.24
Consensus pattern (23 bp):
AAATATTCAAATAAAAAAAAATA
Found at i:5417326 original size:23 final size:23
Alignment explanation
Indices: 5417284--5417327 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
5417274 AAATTTTAAC
*
5417284 TTAAAATTCAAAGATTCACAATT
1 TTAAAATTCAAAGATCCACAATT
* *
5417307 TTAAAATTCAATGGTCCACAA
1 TTAAAATTCAAAGATCCACAA
5417328 ACTGCAAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.45, C:0.16, G:0.07, T:0.32
Consensus pattern (23 bp):
TTAAAATTCAAAGATCCACAATT
Found at i:5417603 original size:17 final size:17
Alignment explanation
Indices: 5417583--5417659 Score: 84
Period size: 17 Copynumber: 4.6 Consensus size: 17
5417573 TCAGATTTGT
*
5417583 AAGAACTTTAGGTTCGC
1 AAGAACTTTAAGTTCGC
* *
5417600 AAGAGCTTTAAGTTCTC
1 AAGAACTTTAAGTTCGC
* * *
5417617 AAGAATTTTAAGCTCGT
1 AAGAACTTTAAGTTCGC
*
5417634 AAGAATTTTAAGTTCGC
1 AAGAACTTTAAGTTCGC
5417651 AAGAA-TTTA
1 AAGAACTTTA
5417660 TGGTTTGCAA
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
16 4 0.08
17 46 0.92
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (17 bp):
AAGAACTTTAAGTTCGC
Found at i:5417686 original size:18 final size:17
Alignment explanation
Indices: 5417634--5417687 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
5417624 TTAAGCTCGT
* *
5417634 AAGAATTTTAAGTTCGC
1 AAGAATTTTTAGTTTGC
* *
5417651 AAGAATTTATGGTTTGC
1 AAGAATTTTTAGTTTGC
5417668 AAGAATTTTTAGATTTGC
1 AAGAATTTTTAG-TTTGC
5417686 AA
1 AA
5417688 AATATTCAAC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 23 0.77
18 7 0.23
ACGTcount: A:0.35, C:0.07, G:0.19, T:0.39
Consensus pattern (17 bp):
AAGAATTTTTAGTTTGC
Found at i:5421929 original size:12 final size:13
Alignment explanation
Indices: 5421903--5421931 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
5421893 TAAAAGGTTG
5421903 TATACAAATAATA
1 TATACAAATAATA
5421916 TATACAAA-AATA
1 TATACAAATAATA
5421928 TATA
1 TATA
5421932 TATAAATTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (13 bp):
TATACAAATAATA
Found at i:5423219 original size:16 final size:16
Alignment explanation
Indices: 5423191--5423247 Score: 57
Period size: 16 Copynumber: 3.8 Consensus size: 16
5423181 ATATATTAAA
*
5423191 AAAT-AATAGATAATT
1 AAATAAATAAATAATT
5423206 AAATAAATAAATAATT
1 AAATAAATAAATAATT
* *
5423222 AATTAATTAAATAA--
1 AAATAAATAAATAATT
*
5423236 AAATAAAAAAAT
1 AAATAAATAAAT
5423248 TAAAGTCGGC
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
14 9 0.26
15 4 0.11
16 22 0.63
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (16 bp):
AAATAAATAAATAATT
Found at i:5424761 original size:36 final size:35
Alignment explanation
Indices: 5424693--5424795 Score: 136
Period size: 35 Copynumber: 2.9 Consensus size: 35
5424683 TAACCTAGGG
* * *
5424693 GACAACCAAAGAGAATGTAAATCATATG-ACTTTTT
1 GACAACCAAAGAGTATATAAATCA-AAGAACTTTTT
* *
5424728 GACAACCAAAGGGGTATATAAATCAAAGCACTTTTT
1 GACAACCAAA-GAGTATATAAATCAAAGAACTTTTT
5424764 GACAACCAAAGAGTATATAAATCAAAGAACTT
1 GACAACCAAAGAGTATATAAATCAAAGAACTT
5424796 ATTTTTTGTA
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
35 32 0.53
36 28 0.47
ACGTcount: A:0.46, C:0.16, G:0.15, T:0.24
Consensus pattern (35 bp):
GACAACCAAAGAGTATATAAATCAAAGAACTTTTT
Found at i:5425161 original size:20 final size:20
Alignment explanation
Indices: 5425125--5425162 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
5425115 ACTTTAAAAT
*
5425125 ACATAAATTTATTTTTAAAG
1 ACATAAATTCATTTTTAAAG
5425145 ACATAAA-TCATTCTTTAA
1 ACATAAATTCATT-TTTAA
5425163 GAAACCATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.45, C:0.11, G:0.03, T:0.42
Consensus pattern (20 bp):
ACATAAATTCATTTTTAAAG
Found at i:5432034 original size:279 final size:281
Alignment explanation
Indices: 5431562--5432119 Score: 919
Period size: 279 Copynumber: 2.0 Consensus size: 281
5431552 GGAAGGTAAG
** * **
5431562 AGCTTGCCACCTTTTCTTTTTTCTTTGCTTCTCATTTTCCTCATAGCTAAGTTTTGAAATGCAAA
1 AGCTTGCCACCTTTTCTTTTCCCTTTCCTTCTCATTTTCCAAATAGCTAAGTTTTGAAATGCAAA
* *
5431627 TCATGAGTTCCATCCCATAGGCACACATGTAGATAAGTGTGTGTATAATTAGAAACAGTCTTTAA
66 TCATGAGTCCCATCCCATAGGCACACATGTAGATAAGTGTGTGTATAATTAGAAACAGTCTTAAA
* *
5431692 GGACATCCACCACAATCCACACCTTATTGAAGCAAATTATGGAATAGTTAATTGATCATTAAGAC
131 GGACATCCACCACAATCCACACCTTATTGAAGCAAATTATGGAACAGTTAATTGATAATTAAGAC
* *
5431757 ATAATCTTGAGTATCTTATA-CAAGAATGGTTGGCTTCATGAAATATGCAAAAATAACCTCTTTT
196 ATAATCTTGAGTATCTTA-AGCAAGAATGGTTGGCTTCATGAAATATGCAAAAATAACCCCTTTC
5431821 TATGGGTTTTTCCCCCTTTTCAA
260 TAT-GGTTTTTCCCCCTTTTCAA
5431844 AGCTTGCCACCTTTTC-TTTCCCTTTCCTTCTCATTTTCCAAATAGCTAAGTTTTGAAATGCAAA
1 AGCTTGCCACCTTTTCTTTTCCCTTTCCTTCTCATTTTCCAAATAGCTAAGTTTTGAAATGCAAA
*
5431908 TCATGAGTCCCATCCCATAGGCACACATGTAGA-CA-TGTGTGTATAATTAGAAACAGTCTTAAA
66 TCATGAGTCCCATCCCATAGGCACACATGTAGATAAGTGTGTGTATAATTAGAAACAGTCTTAAA
* * *
5431971 GGACATCCACCACAA-CCTACACCTTATTGAGGCAAATTATGGAACAGTTACTTGTTAATTAAGA
131 GGACATCCACCACAATCC-ACACCTTATTGAAGCAAATTATGGAACAGTTAATTGATAATTAAGA
5432035 CATAATCTTGAGTATCTTAAGCAAGAATGGTTGGCTTCATGAAATATGCAAAAATAACCCCTTTC
195 CATAATCTTGAGTATCTTAAGCAAGAATGGTTGGCTTCATGAAATATGCAAAAATAACCCCTTTC
5432100 TATGGTTTTTCCCCCTTTTC
260 TATGGTTTTTCCCCCTTTTC
5432120 TACTATTCTC
Statistics
Matches: 259, Mismatches: 15, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
278 20 0.08
279 147 0.57
280 1 0.00
281 75 0.29
282 16 0.06
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.34
Consensus pattern (281 bp):
AGCTTGCCACCTTTTCTTTTCCCTTTCCTTCTCATTTTCCAAATAGCTAAGTTTTGAAATGCAAA
TCATGAGTCCCATCCCATAGGCACACATGTAGATAAGTGTGTGTATAATTAGAAACAGTCTTAAA
GGACATCCACCACAATCCACACCTTATTGAAGCAAATTATGGAACAGTTAATTGATAATTAAGAC
ATAATCTTGAGTATCTTAAGCAAGAATGGTTGGCTTCATGAAATATGCAAAAATAACCCCTTTCT
ATGGTTTTTCCCCCTTTTCAA
Found at i:5436292 original size:2 final size:2
Alignment explanation
Indices: 5436287--5436322 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
5436277 CTTTTTTTCC
*
5436287 AT AT AT AT AT AT TT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5436323 TTCTTCAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:5436824 original size:50 final size:54
Alignment explanation
Indices: 5436718--5436843 Score: 163
Period size: 50 Copynumber: 2.4 Consensus size: 54
5436708 AAATTTGTTT
5436718 TTATAATTATTTATTATAATACTTCATACCATAATTATAAAAATACACCTTCTC
1 TTATAATTATTTATTATAATACTTCATACCATAATTATAAAAATACACCTTCTC
* * * * *
5436772 TTA-AATTAATTATTATACT-CTT-ATATC-TAATTATAAAAATACA-TTATGTC
1 TTATAATTATTTATTATAATACTTCATACCATAATTATAAAAATACACCT-TCTC
5436822 TTATAATTATTTATTATAATAC
1 TTATAATTATTTATTATAATAC
5436844 ATGTATATCA
Statistics
Matches: 62, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
49 1 0.02
50 22 0.35
51 18 0.29
52 4 0.06
53 14 0.23
54 3 0.05
ACGTcount: A:0.41, C:0.12, G:0.01, T:0.46
Consensus pattern (54 bp):
TTATAATTATTTATTATAATACTTCATACCATAATTATAAAAATACACCTTCTC
Found at i:5436914 original size:14 final size:15
Alignment explanation
Indices: 5436890--5436922 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
5436880 GACTCCTTTG
5436890 TTTTGCAAAAAATGA
1 TTTTGCAAAAAATGA
5436905 TTTT-CAAAAAATGA
1 TTTTGCAAAAAATGA
5436919 TTTT
1 TTTT
5436923 TGAAAAATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.42
Consensus pattern (15 bp):
TTTTGCAAAAAATGA
Found at i:5436923 original size:15 final size:15
Alignment explanation
Indices: 5436890--5436929 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
5436880 GACTCCTTTG
*
5436890 TTTTGCAAAAAATGA
1 TTTTTCAAAAAATGA
5436905 -TTTTCAAAAAATGA
1 TTTTTCAAAAAATGA
*
5436919 TTTTTGAAAAA
1 TTTTTCAAAAA
5436930 TGTTTATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.38
Consensus pattern (15 bp):
TTTTTCAAAAAATGA
Found at i:5437134 original size:18 final size:18
Alignment explanation
Indices: 5437075--5437134 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 18
5437065 TGATTAAAAT
5437075 ATATTAAAAT--TAT-TA
1 ATATTAAAATAATATATA
*
5437090 ATATTAAAA-AATA-ATT
1 ATATTAAAATAATATATA
**
5437106 ATATTTTAATAATATATA
1 ATATTAAAATAATATATA
5437124 ATATTAAAATA
1 ATATTAAAATA
5437135 TTATGTTAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
15 9 0.26
16 10 0.29
17 4 0.12
18 11 0.32
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
ATATTAAAATAATATATA
Found at i:5437277 original size:69 final size:75
Alignment explanation
Indices: 5437198--5437346 Score: 204
Period size: 74 Copynumber: 2.0 Consensus size: 75
5437188 TTAATTAATA
5437198 TATTATAATATTA-T-TT-A-TTAATAACATTTATTAATATATTA-TATTAATAGT-ATATTATT
1 TATTATAATATTATTATTAAGTTAATAACATTTATTAATATATTACTATTAATA-TAATATTATT
5437257 TA-TAATATAT
65 TATTAATATAT
* *
5437267 TATTATAATATTATTAATTAAGTTAATAATATTTATTATTATATTATCTATTAATATAATATTAT
1 TATTATAATATTATT-ATTAAGTTAATAACATTTATTAATATATTA-CTATTAATATAATATTAT
5437332 TTATTAATATAT
64 TTATTAATATAT
5437344 TAT
1 TAT
5437347 ATTAATAGTA
Statistics
Matches: 69, Mismatches: 2, Indels: 10
0.85 0.02 0.12
Matches are distributed among these distances:
69 13 0.19
70 1 0.01
72 2 0.03
73 1 0.01
74 22 0.32
75 1 0.01
76 18 0.26
77 11 0.16
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (75 bp):
TATTATAATATTATTATTAAGTTAATAACATTTATTAATATATTACTATTAATATAATATTATTT
ATTAATATAT
Found at i:5437293 original size:18 final size:17
Alignment explanation
Indices: 5437203--5437567 Score: 165
Period size: 18 Copynumber: 21.8 Consensus size: 17
5437193 TAATATATTA
5437203 TAATATTATTTATTAAT
1 TAATATTATTTATTAAT
* *
5437220 AACATTTATTAATATATTATAT
1 TA-A--TATT-ATTTATTA-AT
* *
5437242 TAATAGTATATTATTTA-
1 TAATATTAT-TTATTAAT
5437259 TAATA-TA-TTATT-A-
1 TAATATTATTTATTAAT
*
5437272 TAATATTATTAATTAAGT
1 TAATATTATTTATTAA-T
*
5437290 TAATAATATTTATT-AT
1 TAATATTATTTATTAAT
*
5437306 T-ATATTATCTATTAAT
1 TAATATTATTTATTAAT
5437322 ATAATATTATTTATTAA-
1 -TAATATTATTTATTAAT
5437339 T-ATATTA--TATTAA-
1 TAATATTATTTATTAAT
*
5437352 TAGTATATGATTTATTAAT
1 TA--ATATTATTTATTAAT
* * *
5437371 ATATTATAAAATTA-TATAT
1 -TAATAT-TATTTATTA-AT
5437390 TAATATATGATTTATTAAT
1 TAATAT-T-ATTTATTAAT
* *
5437409 AAAATATTATTTATTTAT
1 -TAATATTATTTATTAAT
* *
5437427 ATAATATTAATATATT-AG
1 -TAATATT-ATTTATTAAT
*
5437445 T-ATAATATTTATTAA-
1 TAATATTATTTATTAAT
5437460 TAATATTATTTATT-AT
1 TAATATTATTTATTAAT
5437476 T-ATATTA--TATTAA-
1 TAATATTATTTATTAAT
* *
5437489 TAGTATATTATTTGTTTAT
1 TA--ATATTATTTATTAAT
5437508 ATAATATTATTTATTAA-
1 -TAATATTATTTATTAAT
5437525 T-ATATTA--TA--ACA-
1 TAATATTATTTATTA-AT
5437537 TAATATTATTTATTAAT
1 TAATATTATTTATTAAT
5437554 ATAATATTATTTAT
1 -TAATATTATTTAT
5437568 AAGTAAAATT
Statistics
Matches: 271, Mismatches: 31, Indels: 91
0.69 0.08 0.23
Matches are distributed among these distances:
11 1 0.00
12 2 0.01
13 26 0.10
14 8 0.03
15 42 0.15
16 38 0.14
17 10 0.04
18 92 0.34
19 26 0.10
20 15 0.06
21 8 0.03
22 3 0.01
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (17 bp):
TAATATTATTTATTAAT
Found at i:5437525 original size:13 final size:13
Alignment explanation
Indices: 5437186--5437555 Score: 145
Period size: 13 Copynumber: 28.0 Consensus size: 13
5437176 TTCTTTATAA
*
5437186 TATTAATTAATA-
1 TATTTATTAATAT
5437198 TA-TTA-TAATAT
1 TATTTATTAATAT
*
5437209 TATTTATTAATAA
1 TATTTATTAATAT
*
5437222 CATTTATTAATA-
1 TATTTATTAATAT
*
5437234 TATTATATTAATAG
1 TATT-TATTAATAT
* *
5437248 TATATTATTTATAA
1 TAT-TTATTAATAT
*
5437262 TATATTATT-ATAA
1 TAT-TTATTAATAT
5437275 TA-TTATTAAT-T
1 TATTTATTAATAT
* * *
5437286 AAGTTAATAATAT
1 TATTTATTAATAT
5437299 T-TATTATTATATTAT
1 TAT-TTATTA-A-TAT
*
5437314 CTATTAATATAATAT
1 -TATTTAT-TAATAT
5437329 TATTTATTAATA-
1 TATTTATTAATAT
5437341 TATTATATTAATAGTAT
1 TATT-TATT-A-A-TAT
5437358 ATGATTTATTAATA-
1 -T-ATTTATTAATAT
*
5437372 TA-TTA-TAAAAT
1 TATTTATTAATAT
*
5437383 TATATATTAATAT
1 TATTTATTAATAT
*
5437396 ATGATTTATTAATAA
1 -T-ATTTATTAATAT
* *
5437411 AATATTATTTAT-T
1 TAT-TTATTAATAT
5437424 TATATAATATTAATA-
1 TAT-T--TATTAATAT
5437439 TA-TTAGTATAATAT
1 TATTTA-T-TAATAT
*
5437453 T-TATTAATAATAT
1 TAT-TTATTAATAT
*
5437466 TATTTATTATTA-
1 TATTTATTAATAT
*
5437478 TATTATATTAATAG
1 TATT-TATTAATAT
5437492 TA--TATT-AT-T
1 TATTTATTAATAT
*
5437501 TGTTTATATAATAT
1 TATTTAT-TAATAT
5437515 TATTTATTAATA-
1 TATTTATTAATAT
*
5437527 TATTATAACATAATAT
1 TATT-T-A-TTAATAT
5437543 TATTTATTAATAT
1 TATTTATTAATAT
5437556 AATATTATTT
Statistics
Matches: 277, Mismatches: 33, Indels: 95
0.68 0.08 0.23
Matches are distributed among these distances:
9 1 0.00
10 11 0.04
11 24 0.09
12 34 0.12
13 98 0.35
14 48 0.17
15 37 0.13
16 12 0.04
17 4 0.01
18 5 0.02
19 3 0.01
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.54
Consensus pattern (13 bp):
TATTTATTAATAT
Found at i:5438754 original size:29 final size:30
Alignment explanation
Indices: 5438709--5438768 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 30
5438699 GCTTTGACCC
*
5438709 AAATTTTACTTCGATCTCTAAAT-TTTAAA
1 AAATTTTAATTCGATCTCTAAATGTTTAAA
* *
5438738 AAATTTTAATT-GAATCTGTAATTGTTTAAA
1 AAATTTTAATTCG-ATCTCTAAATGTTTAAA
5438768 A
1 A
5438769 TTATTTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
28 1 0.04
29 18 0.69
30 7 0.27
ACGTcount: A:0.40, C:0.08, G:0.07, T:0.45
Consensus pattern (30 bp):
AAATTTTAATTCGATCTCTAAATGTTTAAA
Found at i:5439135 original size:14 final size:15
Alignment explanation
Indices: 5439111--5439143 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
5439101 GACTCCTTTG
5439111 TTTTGCAAAAAATGA
1 TTTTGCAAAAAATGA
5439126 TTTT-CAAAAAATGA
1 TTTTGCAAAAAATGA
5439140 TTTT
1 TTTT
5439144 TGAAAAATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.42
Consensus pattern (15 bp):
TTTTGCAAAAAATGA
Found at i:5439144 original size:15 final size:15
Alignment explanation
Indices: 5439111--5439150 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
5439101 GACTCCTTTG
*
5439111 TTTTGCAAAAAATGA
1 TTTTTCAAAAAATGA
5439126 -TTTTCAAAAAATGA
1 TTTTTCAAAAAATGA
*
5439140 TTTTTGAAAAA
1 TTTTTCAAAAA
5439151 TGTTTATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.38
Consensus pattern (15 bp):
TTTTTCAAAAAATGA
Found at i:5439352 original size:18 final size:18
Alignment explanation
Indices: 5439293--5439352 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 18
5439283 TGATTAAAAT
5439293 ATATTAAAAT--TAT-TA
1 ATATTAAAATAATATATA
*
5439308 ATATTAAAA-AATA-ATT
1 ATATTAAAATAATATATA
**
5439324 ATATTTTAATAATATATA
1 ATATTAAAATAATATATA
5439342 ATATTAAAATA
1 ATATTAAAATA
5439353 TTATGTTAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
15 9 0.26
16 10 0.29
17 4 0.12
18 11 0.32
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
ATATTAAAATAATATATA
Found at i:5439495 original size:69 final size:75
Alignment explanation
Indices: 5439416--5439564 Score: 204
Period size: 74 Copynumber: 2.0 Consensus size: 75
5439406 TTAATTAATA
5439416 TATTATAATATTA-T-TT-A-TTAATAACATTTATTAATATATTA-TATTAATAGT-ATATTATT
1 TATTATAATATTATTATTAAGTTAATAACATTTATTAATATATTACTATTAATA-TAATATTATT
5439475 TA-TAATATAT
65 TATTAATATAT
* *
5439485 TATTATAATATTATTAATTAAGTTAATAATATTTATTATTATATTATCTATTAATATAATATTAT
1 TATTATAATATTATT-ATTAAGTTAATAACATTTATTAATATATTA-CTATTAATATAATATTAT
5439550 TTATTAATATAT
64 TTATTAATATAT
5439562 TAT
1 TAT
5439565 ATTAATAGTA
Statistics
Matches: 69, Mismatches: 2, Indels: 10
0.85 0.02 0.12
Matches are distributed among these distances:
69 13 0.19
70 1 0.01
72 2 0.03
73 1 0.01
74 22 0.32
75 1 0.01
76 18 0.26
77 11 0.16
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (75 bp):
TATTATAATATTATTATTAAGTTAATAACATTTATTAATATATTACTATTAATATAATATTATTT
ATTAATATAT
Found at i:5439511 original size:18 final size:17
Alignment explanation
Indices: 5439421--5439785 Score: 165
Period size: 18 Copynumber: 21.8 Consensus size: 17
5439411 TAATATATTA
5439421 TAATATTATTTATTAAT
1 TAATATTATTTATTAAT
* *
5439438 AACATTTATTAATATATTATAT
1 TA-A--TATT-ATTTATTA-AT
* *
5439460 TAATAGTATATTATTTA-
1 TAATATTAT-TTATTAAT
5439477 TAATA-TA-TTATT-A-
1 TAATATTATTTATTAAT
*
5439490 TAATATTATTAATTAAGT
1 TAATATTATTTATTAA-T
*
5439508 TAATAATATTTATT-AT
1 TAATATTATTTATTAAT
*
5439524 T-ATATTATCTATTAAT
1 TAATATTATTTATTAAT
5439540 ATAATATTATTTATTAA-
1 -TAATATTATTTATTAAT
5439557 T-ATATTA--TATTAA-
1 TAATATTATTTATTAAT
*
5439570 TAGTATATGATTTATTAAT
1 TA--ATATTATTTATTAAT
* * *
5439589 ATATTATAAAATTA-TATAT
1 -TAATAT-TATTTATTA-AT
5439608 TAATATATGATTTATTAAT
1 TAATAT-T-ATTTATTAAT
* *
5439627 AAAATATTATTTATTTAT
1 -TAATATTATTTATTAAT
* *
5439645 ATAATATTAATATATT-AG
1 -TAATATT-ATTTATTAAT
*
5439663 T-ATAATATTTATTAA-
1 TAATATTATTTATTAAT
5439678 TAATATTATTTATT-AT
1 TAATATTATTTATTAAT
5439694 T-ATATTA--TATTAA-
1 TAATATTATTTATTAAT
* *
5439707 TAGTATATTATTTGTTTAT
1 TA--ATATTATTTATTAAT
5439726 ATAATATTATTTATTAA-
1 -TAATATTATTTATTAAT
5439743 T-ATATTA--TA--ACA-
1 TAATATTATTTATTA-AT
5439755 TAATATTATTTATTAAT
1 TAATATTATTTATTAAT
5439772 ATAATATTATTTAT
1 -TAATATTATTTAT
5439786 AAGTAAAATT
Statistics
Matches: 271, Mismatches: 31, Indels: 91
0.69 0.08 0.23
Matches are distributed among these distances:
11 1 0.00
12 2 0.01
13 26 0.10
14 8 0.03
15 42 0.15
16 38 0.14
17 10 0.04
18 92 0.34
19 26 0.10
20 15 0.06
21 8 0.03
22 3 0.01
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (17 bp):
TAATATTATTTATTAAT
Found at i:5439743 original size:13 final size:13
Alignment explanation
Indices: 5439404--5439773 Score: 145
Period size: 13 Copynumber: 28.0 Consensus size: 13
5439394 TTCTTTATAA
*
5439404 TATTAATTAATA-
1 TATTTATTAATAT
5439416 TA-TTA-TAATAT
1 TATTTATTAATAT
*
5439427 TATTTATTAATAA
1 TATTTATTAATAT
*
5439440 CATTTATTAATA-
1 TATTTATTAATAT
*
5439452 TATTATATTAATAG
1 TATT-TATTAATAT
* *
5439466 TATATTATTTATAA
1 TAT-TTATTAATAT
*
5439480 TATATTATT-ATAA
1 TAT-TTATTAATAT
5439493 TA-TTATTAAT-T
1 TATTTATTAATAT
* * *
5439504 AAGTTAATAATAT
1 TATTTATTAATAT
5439517 T-TATTATTATATTAT
1 TAT-TTATTA-A-TAT
*
5439532 CTATTAATATAATAT
1 -TATTTAT-TAATAT
5439547 TATTTATTAATA-
1 TATTTATTAATAT
5439559 TATTATATTAATAGTAT
1 TATT-TATT-A-A-TAT
5439576 ATGATTTATTAATA-
1 -T-ATTTATTAATAT
*
5439590 TA-TTA-TAAAAT
1 TATTTATTAATAT
*
5439601 TATATATTAATAT
1 TATTTATTAATAT
*
5439614 ATGATTTATTAATAA
1 -T-ATTTATTAATAT
* *
5439629 AATATTATTTAT-T
1 TAT-TTATTAATAT
5439642 TATATAATATTAATA-
1 TAT-T--TATTAATAT
5439657 TA-TTAGTATAATAT
1 TATTTA-T-TAATAT
*
5439671 T-TATTAATAATAT
1 TAT-TTATTAATAT
*
5439684 TATTTATTATTA-
1 TATTTATTAATAT
*
5439696 TATTATATTAATAG
1 TATT-TATTAATAT
5439710 TA--TATT-AT-T
1 TATTTATTAATAT
*
5439719 TGTTTATATAATAT
1 TATTTAT-TAATAT
5439733 TATTTATTAATA-
1 TATTTATTAATAT
*
5439745 TATTATAACATAATAT
1 TATT-T-A-TTAATAT
5439761 TATTTATTAATAT
1 TATTTATTAATAT
5439774 AATATTATTT
Statistics
Matches: 277, Mismatches: 33, Indels: 95
0.68 0.08 0.23
Matches are distributed among these distances:
9 1 0.00
10 11 0.04
11 24 0.09
12 34 0.12
13 98 0.35
14 48 0.17
15 37 0.13
16 12 0.04
17 4 0.01
18 5 0.02
19 3 0.01
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.54
Consensus pattern (13 bp):
TATTTATTAATAT
Found at i:5441464 original size:14 final size:14
Alignment explanation
Indices: 5441442--5441471 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
5441432 TTTCCTTTTT
*
5441442 AATATATTTTATAA
1 AATACATTTTATAA
5441456 AATACATTTTATAA
1 AATACATTTTATAA
5441470 AA
1 AA
5441472 AAGAAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (14 bp):
AATACATTTTATAA
Found at i:5448929 original size:33 final size:33
Alignment explanation
Indices: 5448887--5448956 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
5448877 TTGTCTTACC
*
5448887 CAAACATTTTTAGACCAAACAGAAAACTTTCTT
1 CAAACATTTTTAGACCAAACAGAAAACCTTCTT
5448920 CAAACATTTTTAGACCAAACAGAAAACCTTCTT
1 CAAACATTTTTAGACCAAACAGAAAACCTTCTT
5448953 CAAA
1 CAAA
5448957 ACCGCTGATG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.44, C:0.23, G:0.06, T:0.27
Consensus pattern (33 bp):
CAAACATTTTTAGACCAAACAGAAAACCTTCTT
Found at i:5452024 original size:21 final size:21
Alignment explanation
Indices: 5451971--5452042 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
5451961 ACCTTAAGTG
* * *
5451971 ATGAGTCACTATACCATAATA
1 ATGAGTCATTGTACCATAGTA
** *
5451992 ATGAACCTTTGTACCATAGTA
1 ATGAGTCATTGTACCATAGTA
* *
5452013 ATGAGTCATTGTACCTTAGTT
1 ATGAGTCATTGTACCATAGTA
*
5452034 ATGACTCAT
1 ATGAGTCAT
5452043 CGTCCTTTAG
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (21 bp):
ATGAGTCATTGTACCATAGTA
Found at i:5459698 original size:22 final size:22
Alignment explanation
Indices: 5459670--5459713 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
5459660 ATTTTTTGTC
*
5459670 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
* *
5459692 CTTAATTTTAGAGATATAAATA
1 CTTAATTCTAGAGATACAAATA
5459714 TAAATATACA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.36
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:5463413 original size:24 final size:23
Alignment explanation
Indices: 5463376--5463429 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
5463366 GAGGGATTTG
* *
5463376 AGAGAAGAATAGAAAGAA-AGGA
1 AGAGGAGAAGAGAAAGAAGAGGA
*
5463398 GAGACGGAGAAGAGAAGGAAGAGGA
1 -AGA-GGAGAAGAGAAAGAAGAGGA
5463423 AGAGGAG
1 AGAGGAG
5463430 CGGAGAGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 7 0.27
24 15 0.58
25 4 0.15
ACGTcount: A:0.54, C:0.02, G:0.43, T:0.02
Consensus pattern (23 bp):
AGAGGAGAAGAGAAAGAAGAGGA
Found at i:5463681 original size:48 final size:49
Alignment explanation
Indices: 5463629--5463747 Score: 113
Period size: 48 Copynumber: 2.5 Consensus size: 49
5463619 ATTAAATTAA
** *
5463629 ATTTAAATAATTTAATTTATTGATATAATCGAATTTATATATTTT-TAT
1 ATTTAAATAATTTAATTTATAAATATAATCAAATTTATATATTTTATAT
* * *
5463677 ATTTAATTTGAA--TAATTTATAAATATAATTAAATTTTTATATTTTAATAT
1 ATTTAA-AT-AATTTAATTTATAAATATAATCAAATTTATATATTTT-ATAT
*
5463727 ATTTTAATAATTT--TTTATAAA
1 ATTTAAATAATTTAATTTATAAA
5463748 ATATTTTAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
48 44 0.77
49 2 0.04
50 11 0.19
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.55
Consensus pattern (49 bp):
ATTTAAATAATTTAATTTATAAATATAATCAAATTTATATATTTTATAT
Found at i:5463741 original size:10 final size:11
Alignment explanation
Indices: 5463715--5463756 Score: 50
Period size: 10 Copynumber: 3.8 Consensus size: 11
5463705 TTAAATTTTT
5463715 ATATTTTAAT-
1 ATATTTTAATA
5463725 ATATTTTAATA
1 ATATTTTAATA
* *
5463736 ATTTTTTATAAA
1 ATATTTTA-ATA
5463748 ATATTTTAA
1 ATATTTTAA
5463757 ATTTTAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
10 10 0.37
11 8 0.30
12 9 0.33
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (11 bp):
ATATTTTAATA
Found at i:5463954 original size:6 final size:6
Alignment explanation
Indices: 5463912--5463959 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
5463902 ATTTATATCA
* * * *
5463912 AAATTT AAATCTT AAATTA AAAATT AAACTC AAATTT AAATTT AAATT
1 AAATTT AAAT-TT AAATTT AAATTT AAATTT AAATTT AAATTT AAATT
5463960 CGATCTATTA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
6 28 0.82
7 6 0.18
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (6 bp):
AAATTT
Found at i:5469094 original size:20 final size:20
Alignment explanation
Indices: 5469069--5469106 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
5469059 CCACGGCTGG
5469069 TTTTCTCACCAACAATTCGA
1 TTTTCTCACCAACAATTCGA
**
5469089 TTTTCTTGCCAACAATTC
1 TTTTCTCACCAACAATTC
5469107 ATCCAACATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.29, G:0.05, T:0.39
Consensus pattern (20 bp):
TTTTCTCACCAACAATTCGA
Found at i:5469303 original size:3 final size:3
Alignment explanation
Indices: 5469297--5469322 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
5469287 ATTATGTCAA
5469297 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
5469323 CATAAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:5480745 original size:14 final size:14
Alignment explanation
Indices: 5480726--5480759 Score: 61
Period size: 13 Copynumber: 2.5 Consensus size: 14
5480716 GAACAGAATT
5480726 AACAAAAAAAAAAA
1 AACAAAAAAAAAAA
5480740 AAC-AAAAAAAAAA
1 AACAAAAAAAAAAA
5480753 AACAAAA
1 AACAAAA
5480760 CTAAAATCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (14 bp):
AACAAAAAAAAAAA
Found at i:5480752 original size:18 final size:19
Alignment explanation
Indices: 5480729--5480765 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
5480719 CAGAATTAAC
5480729 AAAAAAAAAAAAAC-AAAA
1 AAAAAAAAAAAAACTAAAA
*
5480747 AAAAAAAACAAAACTAAAA
1 AAAAAAAAAAAAACTAAAA
5480766 TCTGCCCCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.89, C:0.08, G:0.00, T:0.03
Consensus pattern (19 bp):
AAAAAAAAAAAAACTAAAA
Found at i:5484708 original size:38 final size:38
Alignment explanation
Indices: 5484629--5484703 Score: 109
Period size: 37 Copynumber: 2.0 Consensus size: 38
5484619 TTTAGTATTT
* * *
5484629 TTATATCTGAATTCGATTCGATTTGATATTATATAAAA
1 TTATATCTGAATTCGACTCGATTCGAAATTATATAAAA
5484667 TTATATCTG-ATTCGACTCGATTCGAAATTA-ATAAAA
1 TTATATCTGAATTCGACTCGATTCGAAATTATATAAAA
5484703 T
1 T
5484704 ATTATTTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
36 7 0.21
37 18 0.53
38 9 0.26
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (38 bp):
TTATATCTGAATTCGACTCGATTCGAAATTATATAAAA
Found at i:5484732 original size:12 final size:12
Alignment explanation
Indices: 5484717--5484776 Score: 65
Period size: 12 Copynumber: 5.2 Consensus size: 12
5484707 ATTTTTAATA
5484717 TAAATATAAAAT
1 TAAATATAAAAT
5484729 TAAATATATAAA-
1 TAAATATA-AAAT
*
5484741 TAATTATAAAAT
1 TAAATATAAAAT
5484753 TAAATA-AATAAT
1 TAAATATAA-AAT
5484765 TAAA-A-AAAAT
1 TAAATATAAAAT
5484775 TA
1 TA
5484777 TTTTTATATA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
10 5 0.12
11 8 0.19
12 27 0.63
13 3 0.07
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
TAAATATAAAAT
Found at i:5484748 original size:24 final size:24
Alignment explanation
Indices: 5484716--5484776 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
5484706 TATTTTTAAT
*
5484716 ATAAATATAAAATTAAATATATAA
1 ATAAATATAAAATTAAATAAATAA
*
5484740 ATAATTATAAAATTAAATAAATAA
1 ATAAATATAAAATTAAATAAATAA
*
5484764 TTAAA-A-AAAATTA
1 ATAAATATAAAATTA
5484777 TTTTTATATA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 7 0.21
23 1 0.03
24 25 0.76
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (24 bp):
ATAAATATAAAATTAAATAAATAA
Found at i:5498149 original size:30 final size:30
Alignment explanation
Indices: 5498113--5498172 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
5498103 GAGGCATAAG
5498113 TACATAACCAAATATAATCCAATACCATAT
1 TACATAACCAAATATAATCCAATACCATAT
5498143 TACATAACCAAATATAATCCAATACCATAT
1 TACATAACCAAATATAATCCAATACCATAT
5498173 CTTCCCAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (30 bp):
TACATAACCAAATATAATCCAATACCATAT
Found at i:5503443 original size:44 final size:41
Alignment explanation
Indices: 5503389--5503553 Score: 129
Period size: 44 Copynumber: 3.8 Consensus size: 41
5503379 GCGTTTGGCA
*
5503389 TTTTAGGGGTTTGATTTGAAAGTTTAAGGTTTTAGGGTTTTTGAT
1 TTTTA-GGGTTTGATTT-AAGGTTT-AGGTTTTAGGG-TTTTGAT
* * *
5503434 TTTTAGGGTTTTGATTTTAAGGTTTGGGATTTAGGATTTTGA-
1 TTTTAGGG-TTTGA-TTTAAGGTTTAGGTTTTAGGGTTTTGAT
*
5503476 TTTTAGGGTTTGGATTTAGGGTTTTAGTGTTTTTAGGGTTTTGA-
1 TTTTAGGGTTT-GATTTAAGG-TTTAG-G-TTTTAGGGTTTTGAT
** *
5503520 TTTTAAAGTTTGAGGTTTATGGTTTA-GTTTTAGG
1 TTTTAGGGTTTGA--TTTAAGGTTTAGGTTTTAGG
5503554 ATTTCAATTT
Statistics
Matches: 101, Mismatches: 11, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
41 16 0.16
42 15 0.15
43 9 0.09
44 36 0.36
45 22 0.22
46 3 0.03
ACGTcount: A:0.18, C:0.00, G:0.29, T:0.53
Consensus pattern (41 bp):
TTTTAGGGTTTGATTTAAGGTTTAGGTTTTAGGGTTTTGAT
Found at i:5503457 original size:14 final size:14
Alignment explanation
Indices: 5503418--5503524 Score: 101
Period size: 14 Copynumber: 7.4 Consensus size: 14
5503408 AAGTTTAAGG
5503418 TTTTAGGGTTTTTGA
1 TTTTAGGG-TTTTGA
5503433 TTTTTAGGGTTTTGA
1 -TTTTAGGGTTTTGA
* *
5503448 TTTTAAGGTTTGGGA
1 TTTTAGGGTTT-TGA
*
5503463 -TTTAGGATTTTGA
1 TTTTAGGGTTTTGA
*
5503476 TTTTAGGGTTTGGA
1 TTTTAGGGTTTTGA
*
5503490 -TTTAGGGTTTTAGTGT
1 TTTTAGGG-TTT--TGA
5503506 TTTTAGGGTTTTGA
1 TTTTAGGGTTTTGA
5503520 TTTTA
1 TTTTA
5503525 AAGTTTGAGG
Statistics
Matches: 75, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
13 9 0.12
14 39 0.52
15 8 0.11
16 12 0.16
17 7 0.09
ACGTcount: A:0.16, C:0.00, G:0.28, T:0.56
Consensus pattern (14 bp):
TTTTAGGGTTTTGA
Found at i:5503571 original size:72 final size:72
Alignment explanation
Indices: 5503419--5503572 Score: 183
Period size: 72 Copynumber: 2.2 Consensus size: 72
5503409 AGTTTAAGGT
* *
5503419 TTTAGGGTTTT--TGATTTTTAGGGTTTTGATTTTAAGGTTTGGGATTTAGGATTTTGATTTTAG
1 TTTAGGGTTTTAGTG-TTTTTAGGGTTTTGATTTTAAAGTTTGGGATTTAGGATTTAGATTTTAG
* **
5503482 GGTTTGGA
65 GATTTCAA
5503490 TTTAGGGTTTTAGTGTTTTTAGGGTTTTGATTTTAAAGTTTGAGG-TTTATGG-TTTAG-TTTTA
1 TTTAGGGTTTTAGTGTTTTTAGGGTTTTGATTTTAAAGTTTG-GGATTTA-GGATTTAGATTTTA
5503552 GGATTTCAA
64 GGATTTCAA
*
5503561 TTTTATGGTTTT
1 -TTTAGGGTTTT
5503573 GAAATTTAGG
Statistics
Matches: 72, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
71 22 0.31
72 44 0.61
73 6 0.08
ACGTcount: A:0.18, C:0.01, G:0.27, T:0.55
Consensus pattern (72 bp):
TTTAGGGTTTTAGTGTTTTTAGGGTTTTGATTTTAAAGTTTGGGATTTAGGATTTAGATTTTAGG
ATTTCAA
Found at i:5503869 original size:17 final size:16
Alignment explanation
Indices: 5503840--5503873 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
5503830 ATTTTTTTAG
5503840 TATTTTTTGTTATTAT
1 TATTTTTTGTTATTAT
*
5503856 TATTTTTTATTTATTAT
1 TATTTTTT-GTTATTAT
5503873 T
1 T
5503874 TACCTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (16 bp):
TATTTTTTGTTATTAT
Found at i:5503922 original size:16 final size:16
Alignment explanation
Indices: 5503901--5503939 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
5503891 AAAAGTTTGA
* *
5503901 ATTTATTTTTATTTTT
1 ATTTATTATCATTTTT
5503917 ATTTATTATCATTTTT
1 ATTTATTATCATTTTT
5503933 A-TTATTA
1 ATTTATTA
5503940 CTATTATCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 6 0.29
16 15 0.71
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (16 bp):
ATTTATTATCATTTTT
Found at i:5503931 original size:21 final size:21
Alignment explanation
Indices: 5503905--5503948 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
5503895 GTTTGAATTT
* *
5503905 ATTTTTATTTTTATTTATTATC
1 ATTTTTATTATTA-CTATTATC
5503927 ATTTTTATTATTACTATTATC
1 ATTTTTATTATTACTATTATC
5503948 A
1 A
5503949 AAATAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.66
Consensus pattern (21 bp):
ATTTTTATTATTACTATTATC
Found at i:5505157 original size:28 final size:28
Alignment explanation
Indices: 5505116--5505176 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 28
5505106 AACTTCTCCC
5505116 TTTTTTATGTTATTC-TTCTTTCTTCTT
1 TTTTTTATGTTATTCTTTCTTTCTTCTT
* *
5505143 TTTTGTTATTTTATTCTTTTGTTTCTTCTT
1 TTTT-TTATGTTATTC-TTTCTTTCTTCTT
5505173 TTTT
1 TTTT
5505177 ATGTTTAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 4 0.14
28 10 0.34
30 15 0.52
ACGTcount: A:0.07, C:0.11, G:0.05, T:0.77
Consensus pattern (28 bp):
TTTTTTATGTTATTCTTTCTTTCTTCTT
Found at i:5505183 original size:28 final size:29
Alignment explanation
Indices: 5505115--5505183 Score: 85
Period size: 28 Copynumber: 2.5 Consensus size: 29
5505105 AAACTTCTCC
5505115 CTTTTTTATG-TTATTCTTCTTTCTTCTT
1 CTTTTTTATGTTTATTCTTCTTTCTTCTT
5505143 -TTTTGTTAT-TTTATTCTT-TTGT-TTCTT
1 CTTTT-TTATGTTTATTCTTCTT-TCTTCTT
5505170 CTTTTTTATGTTTA
1 CTTTTTTATGTTTA
5505184 ATTAATAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
27 15 0.42
28 21 0.58
ACGTcount: A:0.09, C:0.12, G:0.06, T:0.74
Consensus pattern (29 bp):
CTTTTTTATGTTTATTCTTCTTTCTTCTT
Found at i:5506559 original size:15 final size:16
Alignment explanation
Indices: 5506541--5506581 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
5506531 TTTGTTTTGC
5506541 AAAAATTTATTTT-AA
1 AAAAATTTATTTTGAA
5506556 AAAAATGTT-TTTTGAA
1 AAAAAT-TTATTTTGAA
*
5506572 AAATATTTAT
1 AAAAATTTAT
5506582 GCTTTCTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (16 bp):
AAAAATTTATTTTGAA
Found at i:5506768 original size:25 final size:25
Alignment explanation
Indices: 5506698--5506768 Score: 90
Period size: 26 Copynumber: 2.8 Consensus size: 25
5506688 TTGATATAAC
5506698 TATTAAAA-TATTAAAAATTATTTAT
1 TATTAAAATTATT-AAAATTATTTAT
* *
5506723 TATTAAAGTATATTGAAATTATTTAT
1 TATTAAAAT-TATTAAAATTATTTAT
*
5506749 TATTAAAATTATTAATATTA
1 TATTAAAATTATTAAAATTA
5506769 AAGAATAATT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
25 16 0.41
26 19 0.49
27 4 0.10
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (25 bp):
TATTAAAATTATTAAAATTATTTAT
Done.