Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, 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: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 8 of 190
Found at i:818068 original size:17 final size:17
Alignment explanation
Indices: 818036--818069 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
818026 AATAAACTAC
* *
818036 TCCTCTAAATAGAGGCA
1 TCCTCTAAACAAAGGCA
818053 TCCTCTAAACAAAGGCA
1 TCCTCTAAACAAAGGCA
818070 CAATAACTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.38, C:0.26, G:0.15, T:0.21
Consensus pattern (17 bp):
TCCTCTAAACAAAGGCA
Found at i:818078 original size:99 final size:99
Alignment explanation
Indices: 817959--818152 Score: 289
Period size: 99 Copynumber: 2.0 Consensus size: 99
817949 AAGACTCTTT
* * * * *
817959 TAAACAAAGGTATAACAACTTTGAAAAATAAAATGCTCCTCTAAATAGAGGCATAACAACTTTGA
1 TAAACAAAGGCACAACAACTTTGAAAAATAAAAAGCTCCTCTAAACAGAGACATAACAACTTTGA
* *
818024 AAAATAAACTACTCCTCTAAATAGAGGCATCCTC
66 AAAATAAAATACTCCTCCAAATAGAGGCATCCTC
* * *
818058 TAAACAAAGGCACAATAACTTTGAAAAATAAAAAGCTCCTCTAAACAGAGATATAACAACTTTGG
1 TAAACAAAGGCACAACAACTTTGAAAAATAAAAAGCTCCTCTAAACAGAGACATAACAACTTTGA
*
818123 AAAATAAAATGCTCCTCCAAATAGAGGCAT
66 AAAATAAAATACTCCTCCAAATAGAGGCAT
818153 AACAACTTTA
Statistics
Matches: 84, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
99 84 1.00
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.23
Consensus pattern (99 bp):
TAAACAAAGGCACAACAACTTTGAAAAATAAAAAGCTCCTCTAAACAGAGACATAACAACTTTGA
AAAATAAAATACTCCTCCAAATAGAGGCATCCTC
Found at i:818119 original size:41 final size:41
Alignment explanation
Indices: 818074--818177 Score: 145
Period size: 41 Copynumber: 2.5 Consensus size: 41
818064 AAGGCACAAT
* *
818074 AACTTTGAAAAATAAAAAGCTCCTCTAAACAGAGATATAAC
1 AACTTTGAAAAATAAAAAGCTCCTCCAAACAGAGACATAAC
* * * *
818115 AACTTTGGAAAATAAAATGCTCCTCCAAATAGAGGCATAAC
1 AACTTTGAAAAATAAAAAGCTCCTCCAAACAGAGACATAAC
*
818156 AACTTTAAAAAATAAAAAGCTC
1 AACTTTGAAAAATAAAAAGCTC
818178 ATCAACAATC
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.50, C:0.17, G:0.11, T:0.22
Consensus pattern (41 bp):
AACTTTGAAAAATAAAAAGCTCCTCCAAACAGAGACATAAC
Found at i:818167 original size:140 final size:143
Alignment explanation
Indices: 817910--818171 Score: 404
Period size: 140 Copynumber: 1.9 Consensus size: 143
817900 AAATAAATGC
* * * * * *
817910 TCCTCTAAACAGAGGCTCAACGACTTTGAAAAATAAAATAAGACTCTTTTAAACAAAGGTATAAC
1 TCCTCTAAACAAAGGCACAACAACTTTGAAAAATAAAATAAGACTCCTCTAAACAAAGATATAAC
* *
817975 AACTTTGAAAAATAAAATGCTCCTCTAAATAGAGGCATAACAACTTTGAAAAATAAACTACTCCT
66 AACTTTGAAAAATAAAATGCTCCTCCAAATAGAGGCATAACAACTTTAAAAAATAAACTACTCCT
818040 CTAAATAGAGGCA
131 CTAAATAGAGGCA
* *
818053 TCCTCTAAACAAAGGCACAATAACTTTGAAAAAT-AAA-AAG-CTCCTCTAAACAGAGATATAAC
1 TCCTCTAAACAAAGGCACAACAACTTTGAAAAATAAAATAAGACTCCTCTAAACAAAGATATAAC
*
818115 AACTTTGGAAAATAAAATGCTCCTCCAAATAGAGGCATAACAACTTTAAAAAATAAA
66 AACTTTGAAAAATAAAATGCTCCTCCAAATAGAGGCATAACAACTTTAAAAAATAAA
818172 AAGCTCATCA
Statistics
Matches: 108, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
140 72 0.67
141 3 0.03
142 3 0.03
143 30 0.28
ACGTcount: A:0.47, C:0.18, G:0.11, T:0.23
Consensus pattern (143 bp):
TCCTCTAAACAAAGGCACAACAACTTTGAAAAATAAAATAAGACTCCTCTAAACAAAGATATAAC
AACTTTGAAAAATAAAATGCTCCTCCAAATAGAGGCATAACAACTTTAAAAAATAAACTACTCCT
CTAAATAGAGGCA
Found at i:819335 original size:22 final size:22
Alignment explanation
Indices: 819307--819350 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
819297 GCTCCATCTG
819307 AGAAGCTCATTTCACAACATAT
1 AGAAGCTCATTTCACAACATAT
819329 AGAAGCTCATTTCACAACATAT
1 AGAAGCTCATTTCACAACATAT
819351 GGCCCTTTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.23, G:0.09, T:0.27
Consensus pattern (22 bp):
AGAAGCTCATTTCACAACATAT
Found at i:829463 original size:7 final size:7
Alignment explanation
Indices: 829451--829480 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
829441 TGTTTAATCA
829451 TTTTTAT
1 TTTTTAT
829458 TTTTTATT
1 TTTTTA-T
829466 TTTTTAT
1 TTTTTAT
829473 TTTTTAT
1 TTTTTAT
829480 T
1 T
829481 GAAACTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTTAT
Found at i:829471 original size:15 final size:15
Alignment explanation
Indices: 829451--829480 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
829441 TGTTTAATCA
829451 TTTTTATTTTTTATT
1 TTTTTATTTTTTATT
829466 TTTTTATTTTTTATT
1 TTTTTATTTTTTATT
829481 GAAACTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (15 bp):
TTTTTATTTTTTATT
Found at i:831023 original size:3 final size:3
Alignment explanation
Indices: 831015--831041 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
831005 TATCTCCTAA
831015 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
831042 CAAAGATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:831060 original size:13 final size:14
Alignment explanation
Indices: 831036--831065 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
831026 TAATAATAAT
831036 AATAATCAAAGATA
1 AATAATCAAAGATA
831050 AATAATC-AAGATA
1 AATAATCAAAGATA
831063 AAT
1 AAT
831066 TTTAAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.23
Consensus pattern (14 bp):
AATAATCAAAGATA
Found at i:834931 original size:3 final size:3
Alignment explanation
Indices: 834925--834950 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
834915 ATGATGATTA
834925 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
834951 ACCCTTTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:836009 original size:2 final size:2
Alignment explanation
Indices: 836002--836034 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
835992 TTTTCTGTAT
836002 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
836035 ATATATATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:836780 original size:2 final size:2
Alignment explanation
Indices: 836773--836819 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
836763 AGGGAGAAAT
* *
836773 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA CA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
836815 TA TA T
1 TA TA T
836820 TCAGGTTTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:837668 original size:2 final size:2
Alignment explanation
Indices: 837661--837691 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
837651 AGGAAAACAC
837661 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
837692 GTTAAAGCAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:840935 original size:18 final size:19
Alignment explanation
Indices: 840905--840940 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
840895 CGAGATGACA
840905 TAATTACAAAATTTTTAAT
1 TAATTACAAAATTTTTAAT
840924 TAATTA-AAAATTTTTAA
1 TAATTACAAAATTTTTAA
840941 CTGATAAATT
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:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (19 bp):
TAATTACAAAATTTTTAAT
Found at i:842286 original size:26 final size:26
Alignment explanation
Indices: 842245--842299 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
842235 TCCTTAGATG
*
842245 AGAACCAAATCTCTAGATGGGAACTA
1 AGAACCAAATCCCTAGATGGGAACTA
* *
842271 AGAACCAATTCCCTAGATGGGAAGTA
1 AGAACCAAATCCCTAGATGGGAACTA
842297 AGA
1 AGA
842300 TCTCAATGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.18
Consensus pattern (26 bp):
AGAACCAAATCCCTAGATGGGAACTA
Found at i:842490 original size:50 final size:51
Alignment explanation
Indices: 842385--842492 Score: 119
Period size: 50 Copynumber: 2.1 Consensus size: 51
842375 TATTTATTTC
* * * * *
842385 TTCAATTCAATAATATGTCATTAAATATCCTTGAAATAAAGTCCATACTCT
1 TTCAATTCAAGAATAAGTCATCAAAAATCCTTGAAATAAAGTCCATACTCA
* * ** *
842436 TTCAATTCAAGAATAAGTC-TCAAAAATCCTTGAAGTGAAGTCTTTGCTCA
1 TTCAATTCAAGAATAAGTCATCAAAAATCCTTGAAATAAAGTCCATACTCA
842486 TTCAATT
1 TTCAATT
842493 GGAGAAATAA
Statistics
Matches: 47, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
50 30 0.64
51 17 0.36
ACGTcount: A:0.37, C:0.18, G:0.09, T:0.36
Consensus pattern (51 bp):
TTCAATTCAAGAATAAGTCATCAAAAATCCTTGAAATAAAGTCCATACTCA
Found at i:842631 original size:50 final size:51
Alignment explanation
Indices: 842509--842631 Score: 124
Period size: 51 Copynumber: 2.4 Consensus size: 51
842499 ATAAGACACA
* * * *
842509 TGAAGCGAAGTCAATACTTTTTCAATTCAAGAGCAAGTTATCAAAAATTCT
1 TGAAGTGAAGTCAATACTTCTTCAATTCAAGAACAAGTCATCAAAAATTCT
* * * * * *
842560 TAAAGTGAAGTCTATATTTCTTCAATTTAAGAACAAAG-CATC-AAGATTTT
1 TGAAGTGAAGTCAATACTTCTTCAATTCAAGAAC-AAGTCATCAAAAATTCT
*
842610 TGAAGTGAAGTCCATACTTCTT
1 TGAAGTGAAGTCAATACTTCTT
842632 TAAGAACAAG
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
50 25 0.43
51 30 0.52
52 3 0.05
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.34
Consensus pattern (51 bp):
TGAAGTGAAGTCAATACTTCTTCAATTCAAGAACAAGTCATCAAAAATTCT
Found at i:847874 original size:2 final size:2
Alignment explanation
Indices: 847869--847893 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
847859 TTTAATAATT
847869 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
847894 TACAAGGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:855185 original size:29 final size:30
Alignment explanation
Indices: 855124--855185 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
855114 CTTTGATGTT
* *
855124 TTAAGCAAATGTTACAGAATTGCTGTTAGG
1 TTAAGCAAATGTTAAAGAATTGCTCTTAGG
* *
855154 TTAAGTAAATGTTAAAG-GTTGCTCTTAGG
1 TTAAGCAAATGTTAAAGAATTGCTCTTAGG
855183 TTA
1 TTA
855186 TTTTTAATAG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 13 0.46
30 15 0.54
ACGTcount: A:0.32, C:0.08, G:0.23, T:0.37
Consensus pattern (30 bp):
TTAAGCAAATGTTAAAGAATTGCTCTTAGG
Found at i:865746 original size:12 final size:12
Alignment explanation
Indices: 865729--865754 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
865719 GAAAAATTAC
865729 ATCTATTTATCT
1 ATCTATTTATCT
865741 ATCTATTTATCT
1 ATCTATTTATCT
865753 AT
1 AT
865755 AAAATTGACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.15, G:0.00, T:0.58
Consensus pattern (12 bp):
ATCTATTTATCT
Found at i:867065 original size:1 final size:1
Alignment explanation
Indices: 867059--867088 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
867049 ATGTTGTTTC
867059 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
867089 CTACGTATGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:867165 original size:11 final size:10
Alignment explanation
Indices: 867140--867164 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
867130 TCTATTCCCC
867140 TTTTTCTTTT
1 TTTTTCTTTT
867150 TTTTTCTTTT
1 TTTTTCTTTT
867160 TTTTT
1 TTTTT
867165 TTTAATTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:867403 original size:3 final size:3
Alignment explanation
Indices: 867395--867435 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
867385 CATCTACTGT
867395 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
867436 TTAATTTTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:868135 original size:3 final size:3
Alignment explanation
Indices: 868127--868165 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
868117 GGAATTTAGA
*
868127 AAT AAT AAT AAT AAT AAC AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
868166 TTTTTATTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:874806 original size:2 final size:2
Alignment explanation
Indices: 874752--874792 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
874742 TTTGAAAGGA
* *
874752 AT AT A- AT AG AT AT AT AG AT 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 AT AT AT
874793 CAATACAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (2 bp):
AT
Found at i:876157 original size:13 final size:13
Alignment explanation
Indices: 876139--876165 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
876129 TTAATTCATC
876139 AATTTTAATTTTT
1 AATTTTAATTTTT
876152 AATTTTAATTTTT
1 AATTTTAATTTTT
876165 A
1 A
876166 CTAAATTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
AATTTTAATTTTT
Found at i:876505 original size:3 final size:3
Alignment explanation
Indices: 876491--876523 Score: 57
Period size: 3 Copynumber: 10.7 Consensus size: 3
876481 TTTCATAAAT
876491 TAA TATA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TA
876524 TTTTTTATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:876815 original size:28 final size:29
Alignment explanation
Indices: 876783--876856 Score: 82
Period size: 28 Copynumber: 2.7 Consensus size: 29
876773 TAAAAATTAT
*
876783 TAACACACAAT-TAATTTTTATAAACCAC
1 TAACACACAATCTAATTTTCATAAACCAC
* * *
876811 TAACATA-TATCTAATTTTCATAAATCAC
1 TAACACACAATCTAATTTTCATAAACCAC
*
876839 TAACACAC-ATCTTATTTT
1 TAACACACAATCTAATTTT
876857 TCATCACACA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
27 2 0.05
28 36 0.95
ACGTcount: A:0.42, C:0.20, G:0.00, T:0.38
Consensus pattern (29 bp):
TAACACACAATCTAATTTTCATAAACCAC
Found at i:881153 original size:28 final size:28
Alignment explanation
Indices: 881109--881179 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
881099 AAACAAAAAT
* *
881109 CACTAACACACAACTAACTTTTATAAAC
1 CACTAACACACATCTAACTTTCATAAAC
* *
881137 TACTAACACATATCTAACTTTCATAAAC
1 CACTAACACACATCTAACTTTCATAAAC
881165 CACTAACACACATCT
1 CACTAACACACATCT
881180 CATTTTTCAT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.44, C:0.30, G:0.00, T:0.27
Consensus pattern (28 bp):
CACTAACACACATCTAACTTTCATAAAC
Found at i:885364 original size:20 final size:20
Alignment explanation
Indices: 885339--885378 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
885329 TGTAGACACC
*
885339 CAATTGGGTCTGGCCCAAAT
1 CAATTGGGCCTGGCCCAAAT
885359 CAATTGGGCCTGGCCCAAAT
1 CAATTGGGCCTGGCCCAAAT
885379 GGGTAAGCCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.25, C:0.28, G:0.25, T:0.23
Consensus pattern (20 bp):
CAATTGGGCCTGGCCCAAAT
Found at i:885469 original size:16 final size:19
Alignment explanation
Indices: 885448--885496 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 19
885438 TTTTATGTAT
885448 TGTATTATTTATT-AT-TA
1 TGTATTATTTATTAATATA
*
885465 T-TATTATGTATTAATATA
1 TGTATTATTTATTAATATA
885483 TGTATATATTTATT
1 TGTAT-TATTTATT
885497 TATTTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 10 0.38
17 3 0.12
18 3 0.12
19 3 0.12
20 7 0.27
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (19 bp):
TGTATTATTTATTAATATA
Found at i:886163 original size:20 final size:20
Alignment explanation
Indices: 886138--886176 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
886128 TTTTCCGGCG
*
886138 AAATTTCCAGATTCCGGCAA
1 AAATTTCCAGAATCCGGCAA
886158 AAATTTCCAGAATCCGGCA
1 AAATTTCCAGAATCCGGCA
886177 CCGGTGTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.23
Consensus pattern (20 bp):
AAATTTCCAGAATCCGGCAA
Found at i:886457 original size:5 final size:5
Alignment explanation
Indices: 886447--886481 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
886437 TCTCTTCCTT
*
886447 GAGCC GAGCC GA-CC GAGCC GAGCC GATCC GAGCC G
1 GAGCC GAGCC GAGCC GAGCC GAGCC GAGCC GAGCC G
886482 CTCCAGGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.20, C:0.40, G:0.37, T:0.03
Consensus pattern (5 bp):
GAGCC
Found at i:886466 original size:14 final size:15
Alignment explanation
Indices: 886447--886481 Score: 63
Period size: 14 Copynumber: 2.4 Consensus size: 15
886437 TCTCTTCCTT
886447 GAGCCGAGCCGA-CC
1 GAGCCGAGCCGATCC
886461 GAGCCGAGCCGATCC
1 GAGCCGAGCCGATCC
886476 GAGCCG
1 GAGCCG
886482 CTCCAGGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.20, C:0.40, G:0.37, T:0.03
Consensus pattern (15 bp):
GAGCCGAGCCGATCC
Found at i:886536 original size:13 final size:13
Alignment explanation
Indices: 886505--886545 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
886495 TTTTGAATTT
*
886505 TTTTATTTCTTT-
1 TTTTATTTGTTTA
*
886517 GTTTATTTGTTTA
1 TTTTATTTGTTTA
886530 TTTTATTTGTTTA
1 TTTTATTTGTTTA
886543 TTT
1 TTT
886546 ATTAGATTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
12 10 0.40
13 15 0.60
ACGTcount: A:0.12, C:0.02, G:0.07, T:0.78
Consensus pattern (13 bp):
TTTTATTTGTTTA
Found at i:886540 original size:21 final size:20
Alignment explanation
Indices: 886501--886545 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
886491 TTTTTTTTGA
* *
886501 ATTTTTTTATTTCTTTGTTT
1 ATTTGTTTATTTATTTGTTT
886521 ATTTGTTTATTTTATTTGTTT
1 ATTTGTTTA-TTTATTTGTTT
886542 ATTT
1 ATTT
886546 ATTAGATTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.13, C:0.02, G:0.07, T:0.78
Consensus pattern (20 bp):
ATTTGTTTATTTATTTGTTT
Found at i:886865 original size:100 final size:100
Alignment explanation
Indices: 886617--886893 Score: 348
Period size: 100 Copynumber: 2.7 Consensus size: 100
886607 TAAAAATAAA
*
886617 AAATTCCAAAAAAAATATATTTTTAGGGAAAAGTTGAAAGTAGT-AATTTTCCTTAGAAATAAAT
1 AAATTTCAAAAAAAA-ATATTTTTAGGGAAAAGTTGAAAGTA-TCAATTTTCCTTAGAAATAAAT
* ** **
886681 TTCC-AAAAAATATTTTTGGGGATTTTCCTCAGAAAT
64 TTCCAAAAAAATATTTTCGGGGAAGTTCCAAAGAAAT
886717 AAATTTCAAAAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTA-AGAATAA
1 AAATTTC---AAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGA-AATAA
*
886781 ATTTCCAAAAAAATATTTTCGGGGAAAAGTT-GAAAGAAAT
62 ATTTCCAAAAAAATATTTTCGGGG--AAGTTCCAAAGAAAT
* **
886821 AAATTTC-CAAAAAAATATTTTCGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTT
1 AAATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTT
*
886885 TCAAAAAAA
66 CCAAAAAAA
886894 GGGGTTTTTG
Statistics
Matches: 157, Mismatches: 11, Indels: 18
0.84 0.06 0.10
Matches are distributed among these distances:
100 66 0.42
101 3 0.02
102 48 0.31
103 24 0.15
104 13 0.08
105 3 0.02
ACGTcount: A:0.47, C:0.08, G:0.13, T:0.32
Consensus pattern (100 bp):
AAATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTT
CCAAAAAAATATTTTCGGGGAAGTTCCAAAGAAAT
Found at i:886879 original size:42 final size:42
Alignment explanation
Indices: 886776--886858 Score: 166
Period size: 42 Copynumber: 2.0 Consensus size: 42
886766 TTTCCTTAAG
886776 AATAAATTTCCAAAAAAATATTTTCGGGGAAAAGTTGAAAGA
1 AATAAATTTCCAAAAAAATATTTTCGGGGAAAAGTTGAAAGA
886818 AATAAATTTCCAAAAAAATATTTTCGGGGAAAAGTTGAAAG
1 AATAAATTTCCAAAAAAATATTTTCGGGGAAAAGTTGAAAG
886859 TATCAATTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.49, C:0.07, G:0.17, T:0.27
Consensus pattern (42 bp):
AATAAATTTCCAAAAAAATATTTTCGGGGAAAAGTTGAAAGA
Found at i:886919 original size:60 final size:55
Alignment explanation
Indices: 886815--886989 Score: 217
Period size: 59 Copynumber: 3.0 Consensus size: 55
886805 AAAAGTTGAA
886815 AGAAATAAATTTCCAAAAAAATATTTTCGGGGAAAAGTTGAAAGTATCAATTTTCCTT
1 AGAAATAAATTTCCAAAAAAAT-TTTT--GGGAAAAGTTGAAAGTATCAATTTTCCTT
*
886873 AGAAATAAATTTTCAAAAAAAGGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
1 AGAAATAAATTTCCAAAAAAA----TTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTT
886933 -GAAAATCGAAATTTCCAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCC
1 AG-AAAT--AAATTTCCAAAAAA-ATTTTTGGG-AAAAGTTGAAAGTATCAATTTTCC
886990 CTACAAAAAA
Statistics
Matches: 105, Mismatches: 2, Indels: 19
0.83 0.02 0.15
Matches are distributed among these distances:
58 22 0.21
59 32 0.30
60 32 0.30
61 4 0.04
62 14 0.13
63 1 0.01
ACGTcount: A:0.43, C:0.09, G:0.15, T:0.33
Consensus pattern (55 bp):
AGAAATAAATTTCCAAAAAAATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTT
Found at i:891685 original size:20 final size:21
Alignment explanation
Indices: 891656--891695 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
891646 TCAGTCTTAC
891656 ATTTTGTACTT-TTATTGGTG
1 ATTTTGTACTTCTTATTGGTG
*
891676 ATTTTTTACTTCTTATTGGT
1 ATTTTGTACTTCTTATTGGT
891696 TCTCTATGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.15, C:0.07, G:0.15, T:0.62
Consensus pattern (21 bp):
ATTTTGTACTTCTTATTGGTG
Found at i:895072 original size:2 final size:2
Alignment explanation
Indices: 895065--895107 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
895055 TTCCCAGCAA
*
895065 AT AT AT AT GT AT AT AT AT AT 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 AT AT AT
895107 A
1 A
895108 AATTATGAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:904518 original size:3 final size:3
Alignment explanation
Indices: 904504--904539 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
904494 CTTCAACATT
*
904504 ATC ATT ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
904540 TTCTTCTTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.33, C:0.31, G:0.00, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:907452 original size:24 final size:21
Alignment explanation
Indices: 907418--907466 Score: 62
Period size: 24 Copynumber: 2.2 Consensus size: 21
907408 ACGTATAAAA
907418 TTTTATGTCATATTTTTATTTTAC
1 TTTTATGTCAT-TTTTT-TTTT-C
*
907442 TTTTATTTCATTTTTTTTTTC
1 TTTTATGTCATTTTTTTTTTC
907463 TTTT
1 TTTT
907467 TCTTCCTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 5 0.21
22 4 0.17
23 5 0.21
24 10 0.42
ACGTcount: A:0.14, C:0.08, G:0.02, T:0.76
Consensus pattern (21 bp):
TTTTATGTCATTTTTTTTTTC
Found at i:914032 original size:2 final size:2
Alignment explanation
Indices: 914027--914055 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
914017 CATATGTGTG
914027 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
914056 TGGAATCTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:915610 original size:10 final size:10
Alignment explanation
Indices: 915575--915609 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
915565 AAAATGCCAA
915575 CTCTTATCTT
1 CTCTTATCTT
*
915585 ATCTTATCTT
1 CTCTTATCTT
*
915595 CTCTTCTCTT
1 CTCTTATCTT
915605 CTCTT
1 CTCTT
915610 CAAGTATATC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.09, C:0.31, G:0.00, T:0.60
Consensus pattern (10 bp):
CTCTTATCTT
Found at i:915960 original size:7 final size:7
Alignment explanation
Indices: 915948--915993 Score: 92
Period size: 7 Copynumber: 6.6 Consensus size: 7
915938 TACTAATAAG
915948 CAAGCAA
1 CAAGCAA
915955 CAAGCAA
1 CAAGCAA
915962 CAAGCAA
1 CAAGCAA
915969 CAAGCAA
1 CAAGCAA
915976 CAAGCAA
1 CAAGCAA
915983 CAAGCAA
1 CAAGCAA
915990 CAAG
1 CAAG
915994 ATTACACAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 39 1.00
ACGTcount: A:0.57, C:0.28, G:0.15, T:0.00
Consensus pattern (7 bp):
CAAGCAA
Found at i:930781 original size:23 final size:25
Alignment explanation
Indices: 930725--930787 Score: 71
Period size: 23 Copynumber: 2.7 Consensus size: 25
930715 CAAAAATATT
930725 TTTTATTTTTTTA-ATATTTAAAAC
1 TTTTATTTTTTTATATATTTAAAAC
* *
930749 TCTTA-CTTTTTATAT-TTTAAAA-
1 TTTTATTTTTTTATATATTTAAAAC
*
930771 TTTTATTTTTTGATATA
1 TTTTATTTTTTTATATA
930788 ACTTTACTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
22 4 0.13
23 21 0.68
24 6 0.19
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (25 bp):
TTTTATTTTTTTATATATTTAAAAC
Found at i:939161 original size:31 final size:32
Alignment explanation
Indices: 939126--939187 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
939116 AGTGGCTTTT
*
939126 CTTCC-TTTTTTGCCTAATTTTTGTTTTGATG
1 CTTCCTTTTTTTGCCTAATTATTGTTTTGATG
*
939157 CTTCCTTTTTTTTCCTAATTATTGTTTTGAT
1 CTTCCTTTTTTTGCCTAATTATTGTTTTGAT
939188 AGTGACATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
31 5 0.18
32 23 0.82
ACGTcount: A:0.11, C:0.16, G:0.10, T:0.63
Consensus pattern (32 bp):
CTTCCTTTTTTTGCCTAATTATTGTTTTGATG
Found at i:965108 original size:18 final size:18
Alignment explanation
Indices: 965085--965123 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
965075 TATTTAAGTA
* *
965085 ATTTTTTTATAAATATAT
1 ATTTTTTAATAAAAATAT
965103 ATTTTTTAATAAAAATAT
1 ATTTTTTAATAAAAATAT
965121 ATT
1 ATT
965124 AATTTAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
ATTTTTTAATAAAAATAT
Found at i:965169 original size:21 final size:21
Alignment explanation
Indices: 965124--965186 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
965114 AAAATATATT
965124 AATTTA-ATTAATTAA-AACAA
1 AATTTATATTAATTAATAA-AA
*
965144 TAATTTATATTATTTAATAAAA
1 -AATTTATATTAATTAATAAAA
* *
965166 AATTTAT-TTACTAAATAAAA
1 AATTTATATTAATTAATAAAA
965186 A
1 A
965187 TAAATATATA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
20 12 0.32
21 13 0.35
22 10 0.27
23 2 0.05
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (21 bp):
AATTTATATTAATTAATAAAA
Found at i:965184 original size:20 final size:21
Alignment explanation
Indices: 965145--965186 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
965135 TTAAAACAAT
* *
965145 AATTTATATTATTTAATAAAA
1 AATTTATATTACTAAATAAAA
965166 AATTTAT-TTACTAAATAAAA
1 AATTTATATTACTAAATAAAA
965186 A
1 A
965187 TAAATATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
AATTTATATTACTAAATAAAA
Found at i:966227 original size:25 final size:25
Alignment explanation
Indices: 966196--966248 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
966186 ATAATTTGCA
*
966196 ATATTAGATGATTAATAAT-TTTAAT
1 ATATTAGATGA-AAATAATATTTAAT
*
966221 ATATTAGATGAAAATATTATTTAAT
1 ATATTAGATGAAAATAATATTTAAT
966246 ATA
1 ATA
966249 ATATATTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (25 bp):
ATATTAGATGAAAATAATATTTAAT
Found at i:966269 original size:23 final size:24
Alignment explanation
Indices: 966233--966283 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 24
966223 ATTAGATGAA
* * *
966233 AATATTATTTAATATAAT-ATATT
1 AATATTACTAAATACAATAATATT
*
966256 AATATTACTAAATACAATAATCTT
1 AATATTACTAAATACAATAATATT
966280 AATA
1 AATA
966284 AGTGCCACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (24 bp):
AATATTACTAAATACAATAATATT
Found at i:967740 original size:2 final size:2
Alignment explanation
Indices: 967733--967758 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
967723 TTCATTTTAC
967733 AT AT 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
967759 GTAGAGAGAG
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):
AT
Found at i:972195 original size:32 final size:33
Alignment explanation
Indices: 972146--972216 Score: 99
Period size: 32 Copynumber: 2.2 Consensus size: 33
972136 AAAAATAACA
* * *
972146 GTTACATGAGTACAAACATGTATCTGAGAATTT-
1 GTTA-ATGAGTAAAAACATATACCTGAGAATTTG
972179 GTTAATGAGTAAAAACATATACCTGAGAATTTG
1 GTTAATGAGTAAAAACATATACCTGAGAATTTG
972212 GTTAA
1 GTTAA
972217 CATGTATGTG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 25 0.74
33 9 0.26
ACGTcount: A:0.39, C:0.10, G:0.18, T:0.32
Consensus pattern (33 bp):
GTTAATGAGTAAAAACATATACCTGAGAATTTG
Found at i:974092 original size:54 final size:54
Alignment explanation
Indices: 974000--974127 Score: 134
Period size: 54 Copynumber: 2.4 Consensus size: 54
973990 TATCAGACAA
* * * * * *
974000 CTTCTCCCTTCTCCTCTCACTGTCTAGATCCCTGTCCCT-CTTCTTCCCTCT-CTC
1 CTTCTCCCTTCTCCTTTCACTCTCCAGATCCCTCTCCCTAC-ACCTCCCT-TGCTC
* * * *
974054 CTTCTCCCTTCTCCTTTGACTCTCCAGTTCTCTCTCCCTACACCTCTCTTGCTC
1 CTTCTCCCTTCTCCTTTCACTCTCCAGATCCCTCTCCCTACACCTCCCTTGCTC
974108 CTTCTCCCTTCTCCTTTCAC
1 CTTCTCCCTTCTCCTTTCAC
974128 CACTCATGTC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
53 1 0.02
54 59 0.97
55 1 0.02
ACGTcount: A:0.06, C:0.48, G:0.05, T:0.41
Consensus pattern (54 bp):
CTTCTCCCTTCTCCTTTCACTCTCCAGATCCCTCTCCCTACACCTCCCTTGCTC
Found at i:974140 original size:54 final size:54
Alignment explanation
Indices: 974051--974174 Score: 146
Period size: 54 Copynumber: 2.3 Consensus size: 54
974041 TCTTCCCTCT
* * *
974051 CTCCTTCTCCCTTCTCCTTTGACTCTCCAGTTCTCTCTCCCTACACCTCT-CTTG
1 CTCCTTCTCCCTTCTCCTTTCACACTCCAGTTCTCTATCCCTACACCT-TGCTTG
* * *
974105 CTCCTTCTCCCTTCTCCTTTCACCACT-CA-TGTCTCTATCTCTGCTCCTTGCTTG
1 CTCCTTCTCCCTTCTCCTTTCA-CACTCCAGT-TCTCTATCCCTACACCTTGCTTG
974159 CTCCTTCTCCCTTCTC
1 CTCCTTCTCCCTTCTC
974175 TCACCATAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
53 2 0.03
54 56 0.92
55 3 0.05
ACGTcount: A:0.06, C:0.46, G:0.06, T:0.42
Consensus pattern (54 bp):
CTCCTTCTCCCTTCTCCTTTCACACTCCAGTTCTCTATCCCTACACCTTGCTTG
Found at i:986318 original size:31 final size:33
Alignment explanation
Indices: 986251--986324 Score: 100
Period size: 31 Copynumber: 2.3 Consensus size: 33
986241 TATATTAATA
986251 TTATATT-TGTAAAATATATGATGATTTTATATAT
1 TTATATTATGTAAAATATAT-AT-ATTTTATATAT
*
986285 TTATATTATGTAAAATATAT-T-TTTTTTATAT
1 TTATATTATGTAAAATATATATATTTTATATAT
986316 TTATATTAT
1 TTATATTAT
986325 ATTTTATATA
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
31 18 0.47
33 1 0.03
34 7 0.18
35 12 0.32
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.58
Consensus pattern (33 bp):
TTATATTATGTAAAATATATATATTTTATATAT
Found at i:986579 original size:25 final size:24
Alignment explanation
Indices: 986530--986591 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 24
986520 ATATAATATG
986530 AAATTTGAATTTAATCTCAATTTA
1 AAATTTGAATTTAATCTCAATTTA
986554 AAATTTGAGATTTTAAAT-TCAA-TTA
1 AAATTTGA-A-TTT-AATCTCAATTTA
*
986579 AAATTTGATTTTA
1 AAATTTGAATTTA
986592 TTTTTTTAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
22 1 0.03
23 3 0.09
24 8 0.24
25 12 0.35
26 7 0.21
27 3 0.09
ACGTcount: A:0.42, C:0.05, G:0.06, T:0.47
Consensus pattern (24 bp):
AAATTTGAATTTAATCTCAATTTA
Found at i:1004925 original size:30 final size:31
Alignment explanation
Indices: 1004855--1004925 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
1004845 ATATAAATAA
* *
1004855 TTAAATAAATTTCTGTTTATATTTGATTCAT
1 TTAAATAAATTTCTATTCATATTTGATTCAT
* *
1004886 TTAAATAAATTTTTATTCATATTTGATTCGT
1 TTAAATAAATTTCTATTCATATTTGATTCAT
1004917 TT-AATAAAT
1 TTAAATAAAT
1004926 AAATATAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 7 0.19
31 29 0.81
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.54
Consensus pattern (31 bp):
TTAAATAAATTTCTATTCATATTTGATTCAT
Found at i:1008298 original size:59 final size:59
Alignment explanation
Indices: 1008192--1008304 Score: 149
Period size: 60 Copynumber: 1.9 Consensus size: 59
1008182 ATTAAAAATA
*
1008192 TTAAAAATAAATATCACATTATATATTATATTTATAATTTAAGAATCATATTATAGATTT
1 TTAAAAATAAATATCACATTAAATATTATATTTATAATTTAAGAATCAT-TTATAGATTT
* * * *
1008252 TTAAAAATATATATTATATTAAATATTTTA-TTATAATTT-AGAAATCATTTATA
1 TTAAAAATAAATATCACATTAAATATTATATTTATAATTTAAG-AATCATTTATA
1008305 ATATTAATAT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
58 7 0.15
59 15 0.32
60 25 0.53
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.47
Consensus pattern (59 bp):
TTAAAAATAAATATCACATTAAATATTATATTTATAATTTAAGAATCATTTATAGATTT
Found at i:1009860 original size:23 final size:21
Alignment explanation
Indices: 1009834--1009886 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 21
1009824 TAAAATAATT
1009834 TTAAATTTTAATTTAAATTCAAA
1 TTAAATTTT-ATTT-AATTCAAA
*
1009857 TTAAATATTTATTTAATTCGAA
1 TTAAAT-TTTATTTAATTCAAA
1009879 TATAAATT
1 T-TAAATT
1009887 AAATTTTCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 9 0.33
23 15 0.56
24 3 0.11
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (21 bp):
TTAAATTTTATTTAATTCAAA
Found at i:1009892 original size:22 final size:21
Alignment explanation
Indices: 1009867--1009918 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
1009857 TTAAATATTT
1009867 ATTTAATTCGAAT-ATAAATTAA
1 ATTTAATTC-AATCA-AAATTAA
*
1009889 ATTTTCATTCAATCAAAATTAA
1 A-TTTAATTCAATCAAAATTAA
*
1009911 ATATAATT
1 ATTTAATT
1009919 AAAATTTATC
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
21 5 0.20
22 12 0.48
23 8 0.32
ACGTcount: A:0.48, C:0.08, G:0.02, T:0.42
Consensus pattern (21 bp):
ATTTAATTCAATCAAAATTAA
Found at i:1010015 original size:21 final size:22
Alignment explanation
Indices: 1009979--1010021 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
1009969 TGTATATTAT
1009979 TTTAATATAAAATTTTAATATA
1 TTTAATATAAAATTTTAATATA
* *
1010001 TTTAA-ATAAATTTTTTATATA
1 TTTAATATAAAATTTTAATATA
1010022 AATTTATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
TTTAATATAAAATTTTAATATA
Found at i:1010026 original size:23 final size:24
Alignment explanation
Indices: 1009962--1010027 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 24
1009952 TAAAATTTTA
* *
1009962 AAATTTTTGTATATTATTTTAATAT
1 AAATTTTT-TATATAAATTTAATAT
* *
1009987 AAA-ATTTTA-ATATATTTAA-AT
1 AAATTTTTTATATAAATTTAATAT
1010008 AAATTTTTTATATAAATTTA
1 AAATTTTTTATATAAATTTA
1010028 TTAATTTTAA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
21 5 0.15
22 12 0.36
23 10 0.30
24 3 0.09
25 3 0.09
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (24 bp):
AAATTTTTTATATAAATTTAATAT
Found at i:1015686 original size:24 final size:25
Alignment explanation
Indices: 1015654--1015706 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 25
1015644 TTGAAACACA
**
1015654 ATAACATAACACGTATAAAAATAAT
1 ATAACATAACAAATATAAAAATAAT
*
1015679 ATAA-ATAATAAATATAAAAATAAT
1 ATAACATAACAAATATAAAAATAAT
1015703 ATAA
1 ATAA
1015707 TTTAAAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 21 0.84
25 4 0.16
ACGTcount: A:0.66, C:0.06, G:0.02, T:0.26
Consensus pattern (25 bp):
ATAACATAACAAATATAAAAATAAT
Found at i:1017214 original size:15 final size:14
Alignment explanation
Indices: 1017191--1017220 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
1017181 CTATCTTTTA
1017191 TTTTTATTTTTATT
1 TTTTTATTTTTATT
1017205 TTTTTAATTTTTATT
1 TTTTT-ATTTTTATT
1017220 T
1 T
1017221 AATTATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTATTTTTATT
Found at i:1017355 original size:24 final size:23
Alignment explanation
Indices: 1017290--1017355 Score: 62
Period size: 25 Copynumber: 2.7 Consensus size: 23
1017280 ACATAAATTA
*
1017290 TTATCTATTAATGTATATATATATTT
1 TTATTTATTAAT-TAT-TA-ATATTT
*
1017316 TTA-TTATTTATCTATTAATATTT
1 TTATTTATTAAT-TATTAATATTT
1017339 TTATTTATCTAATTATT
1 TTATTTAT-TAATTATT
1017356 TTATTTCAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
23 9 0.26
24 10 0.29
25 12 0.35
26 3 0.09
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (23 bp):
TTATTTATTAATTATTAATATTT
Found at i:1017389 original size:5 final size:5
Alignment explanation
Indices: 1017379--1017409 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
1017369 TATTAATATA
1017379 TATTT TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT TATTT T
1017410 TCTTCTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:1017706 original size:25 final size:23
Alignment explanation
Indices: 1017652--1017707 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
1017642 GAAGCAATTC
* *
1017652 AAATTTTTTTTAGAATTTTGGCA
1 AAATTTTTTTTAAAATTTTGGAA
* *
1017675 AATTTTTTTTCTGAAAATTTTTGAA
1 AAATTTTTTT-T-AAAATTTTGGAA
1017700 AAATTTTT
1 AAATTTTT
1017708 AAATTTCGAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 9 0.35
24 1 0.04
25 16 0.62
ACGTcount: A:0.32, C:0.04, G:0.09, T:0.55
Consensus pattern (23 bp):
AAATTTTTTTTAAAATTTTGGAA
Found at i:1018151 original size:3 final size:3
Alignment explanation
Indices: 1018143--1018170 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
1018133 ATTTCAAAAG
1018143 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1018171 GCTAGACTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:1021196 original size:20 final size:22
Alignment explanation
Indices: 1021158--1021207 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
1021148 CAAATTTGAT
1021158 CCTTTGTATGTGGTCAATGTAG
1 CCTTTGTATGTGGTCAATGTAG
*
1021180 CCTTT-TAT-TGGTTAATGTA-
1 CCTTTGTATGTGGTCAATGTAG
*
1021199 CATTTGTAT
1 CCTTTGTAT
1021208 CAAAATACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 4 0.16
20 13 0.52
21 3 0.12
22 5 0.20
ACGTcount: A:0.20, C:0.12, G:0.20, T:0.48
Consensus pattern (22 bp):
CCTTTGTATGTGGTCAATGTAG
Found at i:1029056 original size:14 final size:13
Alignment explanation
Indices: 1029036--1029081 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 13
1029026 TAAATATTAA
1029036 TTTTAATAAAAAT
1 TTTTAATAAAAAT
1029049 TATTTAATATAAAAAT
1 T-TTT-A-ATAAAAAT
1029065 TTTT-AT-AAAAT
1 TTTTAATAAAAAT
1029076 TTTTAA
1 TTTTAA
1029082 AATTAAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
11 9 0.31
12 3 0.10
13 1 0.03
14 3 0.10
15 4 0.14
16 9 0.31
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TTTTAATAAAAAT
Found at i:1029098 original size:26 final size:27
Alignment explanation
Indices: 1029034--1029098 Score: 78
Period size: 26 Copynumber: 2.4 Consensus size: 27
1029024 TTTAAATATT
*
1029034 AATTTTAATAAAAATTATTTAATATAAA
1 AATTTTAAT-AAAATTATTTAAAATAAA
* *
1029062 AATTTTTATAAAATT-TTTAAAATTAA
1 AATTTTAATAAAATTATTTAAAATAAA
*
1029088 AATTATAATAA
1 AATTTTAATAA
1029099 TTATTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 18 0.56
27 6 0.19
28 8 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (27 bp):
AATTTTAATAAAATTATTTAAAATAAA
Found at i:1029222 original size:22 final size:21
Alignment explanation
Indices: 1029197--1029247 Score: 50
Period size: 22 Copynumber: 2.3 Consensus size: 21
1029187 AAAATATCTT
1029197 ATGTAGCGAATAAATGAATTGA
1 ATGTAGCGAATAAA-GAATTGA
* *
1029219 ATGTGTAG-GAATAAAGATTTTA
1 A--TGTAGCGAATAAAGAATTGA
1029241 ATGTAGC
1 ATGTAGC
1029248 ACACTCTAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 7
0.73 0.06 0.21
Matches are distributed among these distances:
20 5 0.21
22 7 0.29
23 7 0.29
24 5 0.21
ACGTcount: A:0.41, C:0.04, G:0.24, T:0.31
Consensus pattern (21 bp):
ATGTAGCGAATAAAGAATTGA
Found at i:1037140 original size:2 final size:2
Alignment explanation
Indices: 1037133--1037159 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1037123 AGGTTCATTC
1037133 AT AT 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 A
1037160 ACCTTAAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1038577 original size:2 final size:2
Alignment explanation
Indices: 1038570--1038602 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
1038560 AAATTGAACT
*
1038570 TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1038603 TACTGTAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:1048934 original size:10 final size:10
Alignment explanation
Indices: 1048919--1048948 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
1048909 ATCAAATTTT
1048919 TATATTTTAA
1 TATATTTTAA
1048929 TATATTTTAA
1 TATATTTTAA
1048939 T-TATTTTAA
1 TATATTTTAA
1048948 T
1 T
1048949 TAATAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TATATTTTAA
Found at i:1048945 original size:9 final size:9
Alignment explanation
Indices: 1048921--1048950 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
1048911 CAAATTTTTA
1048921 TATTTTAAT
1 TATTTTAAT
1048930 ATATTTTAAT
1 -TATTTTAAT
1048940 TATTTTAAT
1 TATTTTAAT
1048949 TA
1 TA
1048951 ATAAAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
TATTTTAAT
Found at i:1052056 original size:17 final size:18
Alignment explanation
Indices: 1052019--1052081 Score: 66
Period size: 18 Copynumber: 3.8 Consensus size: 18
1052009 ATACTCTTAA
1052019 AAATTATATAAATAATTT
1 AAATTATATAAATAATTT
* *
1052037 AAATTGTATAAAT-TTTT
1 AAATTATATAAATAATTT
1052054 AAA--A-AT-AATAATTT
1 AAATTATATAAATAATTT
1052068 AAATTA-ATAAATAA
1 AAATTATATAAATAA
1052082 ATTATCTTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
13 3 0.08
14 8 0.22
16 3 0.08
17 11 0.30
18 12 0.32
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (18 bp):
AAATTATATAAATAATTT
Found at i:1061564 original size:3 final size:3
Alignment explanation
Indices: 1061556--1061591 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
1061546 CAAATGGAAG
*
1061556 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA AAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1061592 CAGTGAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:1070528 original size:23 final size:23
Alignment explanation
Indices: 1070482--1070535 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
1070472 AATACTTCAT
*
1070482 TAATTTTTTAATTATAATTATAA
1 TAATTTTTTAATCATAATTATAA
* *
1070505 TTATTTTTTAATCATTA-TATTAA
1 TAATTTTTTAATCATAATTA-TAA
1070528 TAATTTTT
1 TAATTTTT
1070536 ATTATTTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 2 0.08
23 24 0.92
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (23 bp):
TAATTTTTTAATCATAATTATAA
Found at i:1071335 original size:22 final size:21
Alignment explanation
Indices: 1071309--1071361 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 21
1071299 TCGAAAATTA
1071309 ATAAAATATTATATTTTAAAAT
1 ATAAAATATTAT-TTTTAAAAT
*
1071331 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTAAAAT
1071352 ATAAATATAT
1 ATAAA-ATAT
1071362 AATTATATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 13 0.45
22 16 0.55
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
ATAAAATATTATTTTTAAAAT
Found at i:1071343 original size:20 final size:22
Alignment explanation
Indices: 1071309--1071362 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 22
1071299 TCGAAAATTA
1071309 ATAAAATAT-TATATTTTAAAAT
1 ATAAAATATATAT-TTTTAAAAT
*
1071331 ATAAAATAT-TATTTTTTAAAT
1 ATAAAATATATATTTTTAAAAT
1071352 AT-AAATATATA
1 ATAAAATATATA
1071363 ATTATATATA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 6 0.20
21 12 0.40
22 12 0.40
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
ATAAAATATATATTTTTAAAAT
Found at i:1071900 original size:8 final size:8
Alignment explanation
Indices: 1071875--1071912 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
1071865 ATTTTTTATT
1071875 TATAAATA
1 TATAAATA
1071883 TA-AAATTA
1 TATAAA-TA
1071891 TATAAATA
1 TATAAATA
1071899 TATAAATA
1 TATAAATA
1071907 TA-AAAT
1 TATAAAT
1071913 TAAATAATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
7 7 0.25
8 18 0.64
9 3 0.11
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (8 bp):
TATAAATA
Found at i:1076887 original size:21 final size:21
Alignment explanation
Indices: 1076847--1076907 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 21
1076837 ATAGAATTAA
*
1076847 ATTTAAATATTT-TTATATTT
1 ATTTAAATATTTATGATATTT
1076867 ATTTATAATATTTATGA-ATTT
1 ATTTA-AATATTTATGATATTT
* *
1076888 AATTAAATTTTTAT-ATATTT
1 ATTTAAATATTTATGATATTT
1076908 TAATTATTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
19 1 0.03
20 17 0.49
21 15 0.43
22 2 0.06
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (21 bp):
ATTTAAATATTTATGATATTT
Found at i:1077082 original size:20 final size:21
Alignment explanation
Indices: 1077044--1077082 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1077034 ATTTTTATTT
1077044 TAAATAAAATTCAAATTAAAA
1 TAAATAAAATTCAAATTAAAA
1077065 TAAATAAAATTC-AATTAA
1 TAAATAAAATTCAAATTAA
1077083 GCTTAAATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (21 bp):
TAAATAAAATTCAAATTAAAA
Found at i:1077858 original size:20 final size:20
Alignment explanation
Indices: 1077830--1077867 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1077820 AGTTCCATGC
*
1077830 CTGAGAATATGGAAATATAA
1 CTGAAAATATGGAAATATAA
1077850 CTGAAAATATGGAAATAT
1 CTGAAAATATGGAAATAT
1077868 GAGCTCATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.05, G:0.18, T:0.26
Consensus pattern (20 bp):
CTGAAAATATGGAAATATAA
Found at i:1078901 original size:15 final size:15
Alignment explanation
Indices: 1078879--1078918 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
1078869 TCAGGCAAAA
1078879 ACATAAAGATTTTAT
1 ACATAAAGATTTTAT
* *
1078894 AGATAAAGGTTTTAT
1 ACATAAAGATTTTAT
1078909 ACATAAAGAT
1 ACATAAAGAT
1078919 AATAATTAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.35
Consensus pattern (15 bp):
ACATAAAGATTTTAT
Found at i:1080013 original size:26 final size:28
Alignment explanation
Indices: 1079957--1080013 Score: 66
Period size: 26 Copynumber: 2.1 Consensus size: 28
1079947 ATAAAATTTG
* *
1079957 AATATATTTATAAATTATTTATTTATTT
1 AATATATTTATAAAATATTTATTTATAT
1079985 AATA-ATTT-TAAAATA-TTATTTATAAT
1 AATATATTTATAAAATATTTATTTAT-AT
1080011 AAT
1 AAT
1080014 CTAATAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
25 8 0.31
26 10 0.38
27 4 0.15
28 4 0.15
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (28 bp):
AATATATTTATAAAATATTTATTTATAT
Found at i:1080445 original size:15 final size:15
Alignment explanation
Indices: 1080422--1080460 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
1080412 ATATTCATAA
1080422 ATAAT-AAATAAATT
1 ATAATCAAATAAATT
1080436 ATAATCAAATAAATT
1 ATAATCAAATAAATT
* *
1080451 TTAAACAAAT
1 ATAATCAAAT
1080461 TCAAATAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 5 0.23
15 17 0.77
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (15 bp):
ATAATCAAATAAATT
Found at i:1085043 original size:100 final size:100
Alignment explanation
Indices: 1084885--1085077 Score: 341
Period size: 100 Copynumber: 1.9 Consensus size: 100
1084875 GGTACATATG
*
1084885 ACATAGTTTACATAACAAATCTTTTAGGGTTTATAATTTGATGCCTGGACTAGGTCATAGAAGCT
1 ACATAGTTTACATAACAAATCTTTCAGGGTTTATAATTTGATGCCTGGACTAGGTCATAGAAGCT
* *
1084950 TAAACTTGCAAAGAAGAACTTTCCACTTACACATT
66 GAAACTTGCAAAGAAGAACTTTCAACTTACACATT
*
1084985 ACATAGTTTACATAACAAATCTTTCAGGGTTTATAATTTGATGCTTGGACTAGGTCATAGAAGCT
1 ACATAGTTTACATAACAAATCTTTCAGGGTTTATAATTTGATGCCTGGACTAGGTCATAGAAGCT
*
1085050 GAAACTTGCAAAGATGAACTTTCAACTT
66 GAAACTTGCAAAGAAGAACTTTCAACTT
1085078 CTTTTACAAA
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 88 1.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (100 bp):
ACATAGTTTACATAACAAATCTTTCAGGGTTTATAATTTGATGCCTGGACTAGGTCATAGAAGCT
GAAACTTGCAAAGAAGAACTTTCAACTTACACATT
Found at i:1085922 original size:3 final size:3
Alignment explanation
Indices: 1085914--1086080 Score: 102
Period size: 3 Copynumber: 57.3 Consensus size: 3
1085904 TTTGTTTGGG
* * *
1085914 TAT TAT TA- TAT TAT AAGA TAT TA- TAT TAT T-T TAT TAT TA- TAG
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
1085956 TAT AAT ATAT TA- TAT GAT ATAGT GTAT TA- TAT TAT TAC CAT TAT TAC
1 TAT TAT -TAT TAT TAT TAT -TA-T -TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
1086003 TAT TTT TAT T-T TAT TA- TAT TAT TAT CAT TAT TAT TA- TAC T-T TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
1086047 TAT TAT TAT TAT TAT TAT AAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1086081 TTTCCTTTTC
Statistics
Matches: 125, Mismatches: 25, Indels: 28
0.70 0.14 0.16
Matches are distributed among these distances:
2 19 0.15
3 98 0.78
4 5 0.04
5 3 0.02
ACGTcount: A:0.35, C:0.04, G:0.03, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:1085951 original size:26 final size:26
Alignment explanation
Indices: 1085914--1085968 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 26
1085904 TTTGTTTGGG
*
1085914 TATTATTATATTATAAG-ATATTATAT
1 TATTATTATATTAT-AGTATAATATAT
1085940 TATT-TTATTATTATAGTATAATATAT
1 TATTATTA-TATTATAGTATAATATAT
1085966 TAT
1 TAT
1085969 ATGATATAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 5 0.19
26 21 0.81
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (26 bp):
TATTATTATATTATAGTATAATATAT
Found at i:1086018 original size:34 final size:35
Alignment explanation
Indices: 1085980--1086077 Score: 126
Period size: 34 Copynumber: 2.8 Consensus size: 35
1085970 TGATATAGTG
* * *
1085980 TATTATATTATTACCATTATTACTATTTTTA-TTT
1 TATTATATTATTATCATTATTATTATTTTTACTAT
*
1086014 TATTATATTATTATCATTATTATTATACTTTACTAT
1 TATTATATTATTATCATTATTATTAT-TTTTACTAT
*
1086050 TATTATTATTATTATAATTATTATTATT
1 TATTA-TATTATTATCATTATTATTATT
1086078 ATTTTTCCTT
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
34 24 0.44
35 4 0.07
36 7 0.13
37 20 0.36
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (35 bp):
TATTATATTATTATCATTATTATTATTTTTACTAT
Found at i:1087306 original size:25 final size:22
Alignment explanation
Indices: 1087278--1087332 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 22
1087268 ATTTTTTTAA
1087278 TTTATTTTCATATTTTAAGTTTT-GT
1 TTTATTTTCA-ATTTT---TTTTCGT
1087303 TTTATTTTCAATTTTTTTTCGT
1 TTTATTTTCAATTTTTTTTCGT
1087325 TTTATTTT
1 TTTATTTT
1087333 ATTGGTTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.14
22 10 0.34
24 5 0.17
25 10 0.34
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.73
Consensus pattern (22 bp):
TTTATTTTCAATTTTTTTTCGT
Found at i:1087432 original size:67 final size:67
Alignment explanation
Indices: 1087354--1087486 Score: 216
Period size: 67 Copynumber: 2.0 Consensus size: 67
1087344 TTATTTATTT
*
1087354 TATTTAGTAATTCAATCTTTATTAAATAAAAAATA-T-TTTTTCTTTTTGGAAAAATGCAAAAAA
1 TATTTAATAATTCAATCTTTATTAAATAAAAAA-AGTCTTTTT-TTTTTGGAAAAATGCAAAAAA
1087417 AAAC
64 AAAC
*
1087421 TATTTAATAATTCAATCTTTATTAAATAAAAAAAGTCTTTTTTTTTTGGAAAAATGCCAAAAAAA
1 TATTTAATAATTCAATCTTTATTAAATAAAAAAAGTCTTTTTTTTTTGGAAAAATGCAAAAAAAA
1087486 A
66 A
1087487 TCTTTTCCAA
Statistics
Matches: 62, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
66 1 0.02
67 56 0.90
68 5 0.08
ACGTcount: A:0.47, C:0.08, G:0.06, T:0.40
Consensus pattern (67 bp):
TATTTAATAATTCAATCTTTATTAAATAAAAAAAGTCTTTTTTTTTTGGAAAAATGCAAAAAAAA
AC
Found at i:1102424 original size:14 final size:14
Alignment explanation
Indices: 1102407--1102435 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1102397 AAGGGGAAAG
1102407 ATTGACATATATTT
1 ATTGACATATATTT
1102421 ATTGACATATATTT
1 ATTGACATATATTT
1102435 A
1 A
1102436 AACTCAACCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.48
Consensus pattern (14 bp):
ATTGACATATATTT
Found at i:1109795 original size:2 final size:2
Alignment explanation
Indices: 1109788--1109813 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1109778 CATATTTTTA
1109788 AT AT 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
1109814 TGAATTCAAA
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):
AT
Found at i:1110031 original size:2 final size:2
Alignment explanation
Indices: 1110015--1110047 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
1110005 GTAAGTCTAC
*
1110015 AT AT A- AT AC AT 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
1110048 TCATACATGG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:1114174 original size:2 final size:2
Alignment explanation
Indices: 1114167--1114203 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
1114157 TTCACAAGCA
* *
1114167 AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT TT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1114204 ATTGTCATAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
AT
Found at i:1121564 original size:26 final size:25
Alignment explanation
Indices: 1121508--1121577 Score: 77
Period size: 26 Copynumber: 2.7 Consensus size: 25
1121498 AAAATAAAAA
* * *
1121508 TAAATTTAATTTTTATGTTTGATTT
1 TAAATTTAATTTTTATATTTAAATT
1121533 TAAATTTAATTATTTATATTTAAATT
1 TAAATTTAATT-TTTATATTTAAATT
* *
1121559 TGAATTTAAATTTGTATAT
1 TAAATTT-AATTTTTATAT
1121578 ATATAAATAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
25 11 0.29
26 23 0.61
27 4 0.11
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.59
Consensus pattern (25 bp):
TAAATTTAATTTTTATATTTAAATT
Found at i:1121609 original size:19 final size:20
Alignment explanation
Indices: 1121576--1121629 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 20
1121566 AAATTTGTAT
1121576 ATATATAA-ATAAAATAATA
1 ATATATAATATAAAATAATA
* *
1121595 ATTTTTAAT-TAAAATAATA
1 ATATATAATATAAAATAATA
1121614 ATATATAATATAAAAT
1 ATATATAATATAAAAT
1121630 TTTAATTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 23 0.79
20 6 0.21
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
ATATATAATATAAAATAATA
Found at i:1121679 original size:21 final size:21
Alignment explanation
Indices: 1121622--1121679 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
1121612 TAATATATAA
*
1121622 TATAAAATTTTAA-TTAAATT
1 TATAAAAATTTAATTTAAATT
*
1121642 TATAAATTATTTAATTTAAATAT
1 TATAAA-AATTTAATTTAAAT-T
1121665 TA-AAAAATTTAATTT
1 TATAAAAATTTAATTT
1121680 TGATTCACTG
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
20 6 0.19
21 14 0.44
22 9 0.28
23 3 0.09
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TATAAAAATTTAATTTAAATT
Found at i:1121710 original size:37 final size:37
Alignment explanation
Indices: 1121669--1121753 Score: 100
Period size: 37 Copynumber: 2.3 Consensus size: 37
1121659 AAATATTAAA
* * *
1121669 AAATTTAATTTTGATTCACTGATAAATCAAATT-ATTT
1 AAATTTAATTTTAATTCACTAAT-AATCAAATTAAATT
* * *
1121706 AAATTTAAATTTAATTCATTAATAATTAAATTAAATT
1 AAATTTAATTTTAATTCACTAATAATCAAATTAAATT
1121743 AAATTTAATTT
1 AAATTTAATTT
1121754 ATAAATATTA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
36 8 0.20
37 32 0.80
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.47
Consensus pattern (37 bp):
AAATTTAATTTTAATTCACTAATAATCAAATTAAATT
Found at i:1121721 original size:20 final size:20
Alignment explanation
Indices: 1121691--1121743 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
1121681 GATTCACTGA
* *
1121691 TAAATCAAATTATTTAA-ATT
1 TAAATTAAATTA-TTAATAAT
*
1121711 TAAATTTAATTCATTAATAAT
1 TAAATTAAATT-ATTAATAAT
1121732 TAAATTAAATTA
1 TAAATTAAATTA
1121744 AATTTAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
20 14 0.52
21 13 0.48
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (20 bp):
TAAATTAAATTATTAATAAT
Found at i:1121757 original size:27 final size:27
Alignment explanation
Indices: 1121704--1121757 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
1121694 ATCAAATTAT
* *
1121704 TTAAATTTAAATTTAATTCATTAATAA
1 TTAAATTTAAATTAAATTAATTAATAA
*
1121731 TTAAA-TTAAATTAAATTTAATTTATAA
1 TTAAATTTAAATTAAA-TTAATTAATAA
1121758 ATATTAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 9 0.39
27 14 0.61
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (27 bp):
TTAAATTTAAATTAAATTAATTAATAA
Found at i:1146157 original size:14 final size:14
Alignment explanation
Indices: 1146138--1146164 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1146128 TTGAACCAGC
1146138 ACTAAAAATCCATA
1 ACTAAAAATCCATA
1146152 ACTAAAAATCCAT
1 ACTAAAAATCCAT
1146165 CCAAAAGTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.22, G:0.00, T:0.22
Consensus pattern (14 bp):
ACTAAAAATCCATA
Found at i:1147004 original size:34 final size:34
Alignment explanation
Indices: 1146961--1147050 Score: 101
Period size: 33 Copynumber: 2.7 Consensus size: 34
1146951 GTTATAATAC
*
1146961 TTTTAAAAATATATTTACGAAAAAACATAATATT
1 TTTTAAAAATATATTTACGAAAAAACATAACATT
* * * **
1146995 TTTTCAAAATAT-TTTTCCAAAAATTATAACATT
1 TTTTAAAAATATATTTACGAAAAAACATAACATT
* *
1147028 TTTTAAAAATGTATTTATGAAAA
1 TTTTAAAAATATATTTACGAAAA
1147051 TATTAAAATA
Statistics
Matches: 44, Mismatches: 11, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
33 26 0.59
34 18 0.41
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.42
Consensus pattern (34 bp):
TTTTAAAAATATATTTACGAAAAAACATAACATT
Found at i:1147697 original size:18 final size:20
Alignment explanation
Indices: 1147673--1147718 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 20
1147663 TGATTTTTAA
*
1147673 ATAATTAAAT-AATTATAAT
1 ATAATTAAATAAATTAAAAT
1147692 -TAATT-AATAAATTAAAAT
1 ATAATTAAATAAATTAAAAT
1147710 ATAATTAAA
1 ATAATTAAA
1147719 CAACCAAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
17 3 0.13
18 13 0.57
19 5 0.22
20 2 0.09
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
ATAATTAAATAAATTAAAAT
Found at i:1147750 original size:7 final size:7
Alignment explanation
Indices: 1147738--1147771 Score: 50
Period size: 8 Copynumber: 4.6 Consensus size: 7
1147728 TCATATCTAA
1147738 TAAATTT
1 TAAATTT
1147745 TAAATTTT
1 TAAA-TTT
1147753 TAAATTT
1 TAAATTT
1147760 TAATATTT
1 TAA-ATTT
1147768 TAAA
1 TAAA
1147772 ATTTGGTTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 11 0.44
8 14 0.56
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
TAAATTT
Found at i:1147758 original size:15 final size:16
Alignment explanation
Indices: 1147738--1147775 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
1147728 TCATATCTAA
1147738 TAAATTTTAA-ATTTT
1 TAAATTTTAATATTTT
1147753 TAAATTTTAATATTTT
1 TAAATTTTAATATTTT
*
1147769 AAAATTT
1 TAAATTT
1147776 GGTTGCCTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TAAATTTTAATATTTT
Found at i:1152747 original size:108 final size:108
Alignment explanation
Indices: 1152553--1152774 Score: 426
Period size: 108 Copynumber: 2.1 Consensus size: 108
1152543 TGTGCTCTTT
*
1152553 TAAGTTGGATCCATCTTTTTTGCATCATCCTAGTTCTACTCTTCATCTTCCATAAAGTGCACATC
1 TAAGCTGGATCCATCTTTTTTGCATCATCCTAGTTCTACTCTTCATCTTCCATAAAGTGCACATC
1152618 CCTGCTTATAATAATTTTTTCAGTTTATGGCTGGAAAATTTTA
66 CCTGCTTATAATAATTTTTTCAGTTTATGGCTGGAAAATTTTA
1152661 TAAGCTGGATCCATCTTTTTTGCATCATCCTAGTTCTACTCTTCATCTTCCATAAAGTGCACATC
1 TAAGCTGGATCCATCTTTTTTGCATCATCCTAGTTCTACTCTTCATCTTCCATAAAGTGCACATC
*
1152726 CCTGCTTATAATATTTTTTTCAGTTTATGGCTGGAAAATTTTA
66 CCTGCTTATAATAATTTTTTCAGTTTATGGCTGGAAAATTTTA
1152769 TAAGCT
1 TAAGCT
1152775 TTTGCAATTA
Statistics
Matches: 112, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
108 112 1.00
ACGTcount: A:0.25, C:0.21, G:0.12, T:0.42
Consensus pattern (108 bp):
TAAGCTGGATCCATCTTTTTTGCATCATCCTAGTTCTACTCTTCATCTTCCATAAAGTGCACATC
CCTGCTTATAATAATTTTTTCAGTTTATGGCTGGAAAATTTTA
Found at i:1160942 original size:9 final size:10
Alignment explanation
Indices: 1160896--1160943 Score: 53
Period size: 11 Copynumber: 4.6 Consensus size: 10
1160886 ATACATAATT
1160896 TAAAATTTGAA
1 TAAAATTT-AA
*
1160907 TAAAAATTATA
1 TAAAATTTA-A
1160918 TATAAATTTAA
1 TA-AAATTTAA
1160929 TAAAATTTAA
1 TAAAATTTAA
1160939 -AAAAT
1 TAAAAT
1160944 ATTTTTATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 5 0.15
10 9 0.27
11 13 0.39
12 6 0.18
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (10 bp):
TAAAATTTAA
Found at i:1161958 original size:14 final size:13
Alignment explanation
Indices: 1161932--1161972 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
1161922 TTAAATTTAA
1161932 AATTTAAAATTTT
1 AATTTAAAATTTT
1161945 AATTTAAAGATTTT
1 AATTTAAA-ATTTT
* *
1161959 AAGTTCAAATTTT
1 AATTTAAAATTTT
1161972 A
1 A
1161973 GAGTTAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (13 bp):
AATTTAAAATTTT
Found at i:1168526 original size:16 final size:16
Alignment explanation
Indices: 1168505--1168536 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
1168495 TGATAAAAGT
1168505 GCATTGGATATCATGA
1 GCATTGGATATCATGA
1168521 GCATTGGATATCATGA
1 GCATTGGATATCATGA
1168537 ACTTTGTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.31
Consensus pattern (16 bp):
GCATTGGATATCATGA
Found at i:1177621 original size:2 final size:2
Alignment explanation
Indices: 1177614--1177638 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1177604 ATAAGAGAAA
1177614 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
1177639 TCAGATGAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1186519 original size:4 final size:4
Alignment explanation
Indices: 1186512--1186542 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
1186502 GAGAGAGAGA
1186512 GAGG GAGG GAGG GAGG GAGG GAGG GAGG GAG
1 GAGG GAGG GAGG GAGG GAGG GAGG GAGG GAG
1186543 AGAAGATGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.74, T:0.00
Consensus pattern (4 bp):
GAGG
Found at i:1189305 original size:18 final size:18
Alignment explanation
Indices: 1189275--1189328 Score: 65
Period size: 18 Copynumber: 3.0 Consensus size: 18
1189265 ATCATGTATT
1189275 TTTTA-ATTATTTATTTAA
1 TTTTATATT-TTTATTTAA
* *
1189293 TTTTATATTTTTATATAT
1 TTTTATATTTTTATTTAA
*
1189311 TTTTATATTTATATTTAA
1 TTTTATATTTTTATTTAA
1189329 AAAATATTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
18 27 0.90
19 3 0.10
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTATATTTTTATTTAA
Found at i:1190124 original size:2 final size:2
Alignment explanation
Indices: 1190117--1190153 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1190107 CAACTTGTTT
1190117 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1190154 GTATGTATGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Done.