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 36 of 190
Found at i:6283550 original size:21 final size:22
Alignment explanation
Indices: 6283511--6283551 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
6283501 AATACTTCAT
* *
6283511 AGGTTCTCATTCAATATTTCTC
1 AGGTTCTCATCCAAAATTTCTC
6283533 AGGTT-TCATCCAAAATTTC
1 AGGTTCTCATCCAAAATTTC
6283552 AAAGCTTCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.41
Consensus pattern (22 bp):
AGGTTCTCATCCAAAATTTCTC
Found at i:6283565 original size:109 final size:106
Alignment explanation
Indices: 6283307--6283602 Score: 319
Period size: 109 Copynumber: 2.7 Consensus size: 106
6283297 TTCCTCATTT
* * * * *
6283307 AAAAACTTCAAGGTTTTATCCAGAATTTCAAAGCTTCTTATTCAAGTTCAAAGATTCATATTCAA
1 AAAAA-TTCAAGGTTTCATCCAAAATTTCAAAGCTTCTCATTCAAGTTCAAAGATTCACATTCGA
* *
6283372 TAAA-TTTAGAGTTTCACACTAAATTCAAAGGTTTACGTTTG
65 TAAATTTTAGAGTTTCACACTAAATTCAAAGGTTTACGATTC
* * * * * * *
6283413 AAAAATTCAAGGGTTCACATCTATAATTTCAAAGCTTTTCATTCAAATTCAAATATTAACATTCG
1 AAAAATTCAA-GGTT-TCATCCAAAATTTCAAAGCTTCTCATTCAAGTTCAAAGATTCACATTCG
*
6283478 ATAAATTTTAGAGTTTCACATCTAATACTTCATAGGTTCT-C-ATTC
64 ATAAATTTTAGAGTTTCACA-CTAA-A-TTCAAAGGTT-TACGATTC
* * * * *
6283523 AATATTTCTCAGGTTTCATCCAAAATTTCAAAGCTTCTCATTCGAGTTCAAAGATTCACATTTGA
1 AAAAATTC-AAGGTTTCATCCAAAATTTCAAAGCTTCTCATTCAAGTTCAAAGATTCACATTCGA
6283588 TAAATTTTAGAGTTT
65 TAAATTTTAGAGTTT
6283603 TAAATATTCT
Statistics
Matches: 156, Mismatches: 26, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
105 5 0.03
106 9 0.06
107 43 0.28
108 14 0.09
109 60 0.38
110 13 0.08
111 11 0.07
112 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (106 bp):
AAAAATTCAAGGTTTCATCCAAAATTTCAAAGCTTCTCATTCAAGTTCAAAGATTCACATTCGAT
AAATTTTAGAGTTTCACACTAAATTCAAAGGTTTACGATTC
Found at i:6284071 original size:20 final size:20
Alignment explanation
Indices: 6284046--6284099 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
6284036 TACTCTAAAC
6284046 TATGATTCAAATGTTCAATA
1 TATGATTCAAATGTTCAATA
6284066 TATGATGT-AAATGTTCAATA
1 TATGAT-TCAAATGTTCAATA
*
6284086 TATGATGCAAATGT
1 TATGATTCAAATGT
6284100 ATGATCAGAC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (20 bp):
TATGATTCAAATGTTCAATA
Found at i:6288867 original size:91 final size:91
Alignment explanation
Indices: 6288765--6288947 Score: 339
Period size: 91 Copynumber: 2.0 Consensus size: 91
6288755 CATAGAAATG
*
6288765 TCTTAGATAATTATCCATTTATGATTACTAAAAATTTCATCATTGGGATTTATTTTAAATTTTTT
1 TCTTAGATAATTATCCATTTACGATTACTAAAAATTTCATCATTGGGATTTATTTTAAATTTTTT
*
6288830 ATCTTATGAGTTTTGTTTCTAAATTT
66 ATCTTATGAGTTTCGTTTCTAAATTT
6288856 TCTTAGATAATTATCCATTTACGATTACTAAAAATTTCATCATTGGGATTTATTTTAAATTTTTT
1 TCTTAGATAATTATCCATTTACGATTACTAAAAATTTCATCATTGGGATTTATTTTAAATTTTTT
*
6288921 ATCTTATGGGTTTCGTTTCTAAATTT
66 ATCTTATGAGTTTCGTTTCTAAATTT
6288947 T
1 T
6288948 TCACCATATG
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
91 89 1.00
ACGTcount: A:0.29, C:0.10, G:0.09, T:0.52
Consensus pattern (91 bp):
TCTTAGATAATTATCCATTTACGATTACTAAAAATTTCATCATTGGGATTTATTTTAAATTTTTT
ATCTTATGAGTTTCGTTTCTAAATTT
Found at i:6290768 original size:1 final size:1
Alignment explanation
Indices: 6290762--6290845 Score: 78
Period size: 1 Copynumber: 84.0 Consensus size: 1
6290752 AGTTTAAATC
** ** * * *
6290762 TTTTTTTTTTAATTTTTTTTACTTTTTTTGTTTTTTTTTGTTTTTTTTTTTTTTTTTTTGTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
** *
6290827 TTTTTGGTTTTTTGTTTTT
1 TTTTTTTTTTTTTTTTTTT
6290846 GCTTATTTTG
Statistics
Matches: 68, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 68 1.00
ACGTcount: A:0.04, C:0.01, G:0.07, T:0.88
Consensus pattern (1 bp):
T
Found at i:6290817 original size:19 final size:19
Alignment explanation
Indices: 6290762--6290845 Score: 96
Period size: 19 Copynumber: 4.3 Consensus size: 19
6290752 AGTTTAAATC
*
6290762 TTTTTTTTTTAATTTTTTTTA
1 TTTTTTTTTT--TTTTTTTTG
* *
6290783 CTTTTTTTGTTTTTTTTTG
1 TTTTTTTTTTTTTTTTTTG
6290802 TTTTTTTTTTTTTTTTTTTG
1 -TTTTTTTTTTTTTTTTTTG
**
6290822 TTTTTTTTTTGGTTTTTTG
1 TTTTTTTTTTTTTTTTTTG
6290841 TTTTT
1 TTTTT
6290846 GCTTATTTTG
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
19 30 0.55
20 17 0.31
21 8 0.15
ACGTcount: A:0.04, C:0.01, G:0.07, T:0.88
Consensus pattern (19 bp):
TTTTTTTTTTTTTTTTTTG
Found at i:6290838 original size:30 final size:30
Alignment explanation
Indices: 6290762--6290845 Score: 98
Period size: 30 Copynumber: 2.8 Consensus size: 30
6290752 AGTTTAAATC
* **
6290762 TTTTTTTTTTAATTTTTTTTACTTTTTTTG
1 TTTTTTTTTTGATTTTTTTTTTTTTTTTTG
*
6290792 -TTTTTTTTTGTTTTTTTTTTTTTTTTTTTG
1 TTTTTTTTTTG-ATTTTTTTTTTTTTTTTTG
* *
6290822 TTTTTTTTTTGGTTTTTTGTTTTT
1 TTTTTTTTTTGATTTTTTTTTTTT
6290846 GCTTATTTTG
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
29 9 0.20
30 27 0.59
31 10 0.22
ACGTcount: A:0.04, C:0.01, G:0.07, T:0.88
Consensus pattern (30 bp):
TTTTTTTTTTGATTTTTTTTTTTTTTTTTG
Found at i:6290854 original size:15 final size:14
Alignment explanation
Indices: 6290795--6290855 Score: 56
Period size: 14 Copynumber: 4.5 Consensus size: 14
6290785 TTTTTTGTTT
**
6290795 TTTTTTGTTTTTTT
1 TTTTTTGTTTTTGC
*
6290809 TTTTTTTTTTTTG-
1 TTTTTTGTTTTTGC
*
6290822 -TTTTT-TTTTTGG
1 TTTTTTGTTTTTGC
6290834 TTTTTTGTTTTTGC
1 TTTTTTGTTTTTGC
6290848 TTATTTTG
1 TT-TTTTG
6290856 GACACCTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
11 6 0.15
12 5 0.12
13 5 0.12
14 19 0.47
15 5 0.12
ACGTcount: A:0.02, C:0.02, G:0.11, T:0.85
Consensus pattern (14 bp):
TTTTTTGTTTTTGC
Found at i:6295721 original size:27 final size:27
Alignment explanation
Indices: 6295691--6295756 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
6295681 AATTAGTAAA
6295691 ATAAAATAAAAAATGAAAAATCAAAAT-
1 ATAAAATAAAAAAT-AAAAATCAAAATC
* *
6295718 ATAAAATAAATATATAAAAATTAAAATC
1 ATAAAATAAA-AAATAAAAATCAAAATC
*
6295746 AAAAAATAAAA
1 ATAAAATAAAA
6295757 TTAAAATGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 22 0.65
28 12 0.35
ACGTcount: A:0.74, C:0.03, G:0.02, T:0.21
Consensus pattern (27 bp):
ATAAAATAAAAAATAAAAATCAAAATC
Found at i:6295723 original size:13 final size:12
Alignment explanation
Indices: 6295691--6295768 Score: 59
Period size: 13 Copynumber: 5.9 Consensus size: 12
6295681 AATTAGTAAA
*
6295691 ATAAAATAAAAA
1 ATAAAATAAAAT
6295703 ATGAAAAATCAAAAT
1 AT--AAAAT-AAAAT
6295718 ATAAAATAAATAT
1 ATAAAATAAA-AT
6295731 ATAAAAATTAAAAT
1 AT-AAAA-TAAAAT
*
6295745 CAAAAAATAAAAT
1 -ATAAAATAAAAT
6295758 -TAAAATGAAAA
1 ATAAAAT-AAAA
6295769 AAGGAAACTT
Statistics
Matches: 55, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
11 5 0.09
12 9 0.16
13 15 0.27
14 15 0.27
15 11 0.20
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.22
Consensus pattern (12 bp):
ATAAAATAAAAT
Found at i:6295749 original size:33 final size:32
Alignment explanation
Indices: 6295687--6295775 Score: 108
Period size: 33 Copynumber: 2.7 Consensus size: 32
6295677 ATAAAATTAG
*
6295687 TAAAATAAAATAAAAAATGAAAAATCAAAATA
1 TAAAATAAAATAAAAAATGAAAAATCAAAAAA
*
6295719 TAAAATAAATATATAAAAAT-TAAAATCAAAAAA
1 TAAAATAAA-ATA-AAAAATGAAAAATCAAAAAA
*
6295752 TAAAATTAAAATGAAAAAAGGAAA
1 TAAAA-TAAAAT-AAAAAATGAAA
6295776 CTTGTGATTA
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
32 9 0.19
33 26 0.54
34 13 0.27
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.20
Consensus pattern (32 bp):
TAAAATAAAATAAAAAATGAAAAATCAAAAAA
Found at i:6295770 original size:20 final size:21
Alignment explanation
Indices: 6295660--6295770 Score: 72
Period size: 20 Copynumber: 5.5 Consensus size: 21
6295650 TAAGTTACTT
6295660 AATAAAATAAATAAATAATA-AA
1 AATAAAA-AAATAAA-AATATAA
* ** *
6295682 ATTAGTAAAAT-AAAATAAAA
1 AATAAAAAAATAAAAATATAA
* *
6295702 AAT-GAAAAATCAAAATATAA
1 AATAAAAAAATAAAAATATAA
* *
6295722 AATAAATATATAAAAAT-TAA
1 AATAAAAAAATAAAAATATAA
*
6295742 AATCAAAAAAT-AAAAT-TAA
1 AATAAAAAAATAAAAATATAA
*
6295761 AATGAAAAAA
1 AATAAAAAAA
6295771 GGAAACTTGT
Statistics
Matches: 72, Mismatches: 14, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
19 27 0.38
20 28 0.39
21 13 0.18
22 4 0.06
ACGTcount: A:0.73, C:0.02, G:0.03, T:0.23
Consensus pattern (21 bp):
AATAAAAAAATAAAAATATAA
Found at i:6296576 original size:3 final size:3
Alignment explanation
Indices: 6296570--6296766 Score: 55
Period size: 3 Copynumber: 72.3 Consensus size: 3
6296560 AGAAAAAAAA
* * *
6296570 AAT AAT AA- ACT A-T AAT AAT -AT AAT -AT AAT -AT AAT -AC AAT -AC
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
6296611 AAT -AT AAT AAT -AT AAT -AT ACCAT ACT -AT AAT -AT AAT AGA- AAT
1 AAT AAT AAT AAT AAT AAT AAT A--AT AAT AAT AAT AAT AAT A-AT AAT
* *
6296653 AAT AAT AAT AAT -AT AAT -AT AAT AGT AAT -AT AAT -AT AAT -AT ACT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * ** * *
6296696 -AT ACT -AT AGT -CT ACT GGT AAT AAT AAC AAT AAT AA- AAT AAT AACA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T
*
6296741 AAT AAT ATT AAT AA- AA- AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
6296767 GCAAAAATCA
Statistics
Matches: 142, Mismatches: 25, Indels: 54
0.64 0.11 0.24
Matches are distributed among these distances:
2 40 0.28
3 96 0.68
4 3 0.02
5 3 0.02
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:6296594 original size:5 final size:5
Alignment explanation
Indices: 6296584--6296703 Score: 118
Period size: 5 Copynumber: 23.6 Consensus size: 5
6296574 ATAAACTATA
* * **
6296584 ATAAT ATAAT ATAAT ATAAT ACAAT ACAAT AT-A- ATAAT ATAAT ATACC
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
* *
6296632 ATACT ATAAT ATAAT AGAAAT AATAAT AATAAT ATAAT ATAAT AGTAAT
1 ATAAT ATAAT ATAAT A-TAAT -ATAAT -ATAAT ATAAT ATAAT A-TAAT
* *
6296681 ATAAT ATAAT ATACT ATACT ATA
1 ATAAT ATAAT ATAAT ATAAT ATA
6296704 GTCTACTGGT
Statistics
Matches: 101, Mismatches: 9, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
3 2 0.02
4 2 0.02
5 79 0.78
6 17 0.17
7 1 0.01
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.35
Consensus pattern (5 bp):
ATAAT
Found at i:6296622 original size:33 final size:33
Alignment explanation
Indices: 6296571--6296691 Score: 129
Period size: 33 Copynumber: 3.5 Consensus size: 33
6296561 GAAAAAAAAA
6296571 ATAATA-AACTATAATAATATAATATAATATAAT
1 ATAATACAA-TATAATAATATAATATAATATAAT
*
6296604 ACAATACAATATAATAATATAATATACCATACTATAAT
1 ATAATACAATATAATAATATAATAT---A-A-TATAAT
*
6296642 ATAATAGAA-ATAATAATAATAATATAATATAAT
1 ATAATACAATATAATAAT-ATAATATAATATAAT
*
6296675 AGTAATATAATATAATA
1 A-TAATACAATATAATA
6296692 TACTATACTA
Statistics
Matches: 75, Mismatches: 4, Indels: 16
0.79 0.04 0.17
Matches are distributed among these distances:
33 28 0.37
34 10 0.13
35 7 0.09
36 1 0.01
37 9 0.12
38 20 0.27
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.34
Consensus pattern (33 bp):
ATAATACAATATAATAATATAATATAATATAAT
Found at i:6296705 original size:28 final size:28
Alignment explanation
Indices: 6296571--6296703 Score: 119
Period size: 28 Copynumber: 4.6 Consensus size: 28
6296561 GAAAAAAAAA
*
6296571 ATAATAAACTATAATA-ATATAATATAAT
1 ATAATATACTATAATATA-ATAATATAAT
* * *
6296599 ATAATACAATACAATATAATAATATAAT
1 ATAATATACTATAATATAATAATATAAT
** *
6296627 ATACCATACTATAATATAATAGAAATAAT
1 ATAATATACTATAATATAATA-ATATAAT
6296656 AATAATA-A-TATAATATAATAGTAATATAAT
1 -ATAATATACTATAATAT-A-A-TAATATAAT
*
6296686 ATAATATACTATACTATA
1 ATAATATACTATAATATA
6296704 GTCTACTGGT
Statistics
Matches: 84, Mismatches: 13, Indels: 14
0.76 0.12 0.13
Matches are distributed among these distances:
28 47 0.56
29 15 0.18
30 13 0.15
31 9 0.11
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.35
Consensus pattern (28 bp):
ATAATATACTATAATATAATAATATAAT
Found at i:6296746 original size:27 final size:26
Alignment explanation
Indices: 6296714--6296764 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
6296704 GTCTACTGGT
6296714 AATAATAACAATAATAAAATAATAACA
1 AATAATAACAATAA-AAAATAATAACA
**
6296741 AATAATATTAATAAAAAATAATAA
1 AATAATAACAATAAAAAATAATAA
6296765 TAGCAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (26 bp):
AATAATAACAATAAAAAATAATAACA
Found at i:6296754 original size:16 final size:16
Alignment explanation
Indices: 6296733--6296763 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6296723 AATAATAAAA
*
6296733 TAATAACAAATAATAT
1 TAATAAAAAATAATAT
6296749 TAATAAAAAATAATA
1 TAATAAAAAATAATA
6296764 ATAGCAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (16 bp):
TAATAAAAAATAATAT
Found at i:6296760 original size:13 final size:13
Alignment explanation
Indices: 6296717--6296766 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
6296707 TACTGGTAAT
*
6296717 AATAACAATAATAA
1 AATAATAATAA-AA
* *
6296731 AATAATAACAAAT
1 AATAATAATAAAA
*
6296744 AATATTAATAAAA
1 AATAATAATAAAA
6296757 AATAATAATA
1 AATAATAATA
6296767 GCAAAAATCA
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
13 20 0.69
14 9 0.31
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (13 bp):
AATAATAATAAAA
Found at i:6297585 original size:10 final size:10
Alignment explanation
Indices: 6297570--6297594 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
6297560 AAATGAAATG
6297570 GAAAAGATAT
1 GAAAAGATAT
6297580 GAAAAGATAT
1 GAAAAGATAT
6297590 GAAAA
1 GAAAA
6297595 AAAGCAAAAA
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:0.64, C:0.00, G:0.20, T:0.16
Consensus pattern (10 bp):
GAAAAGATAT
Found at i:6297611 original size:8 final size:8
Alignment explanation
Indices: 6297578--6297649 Score: 51
Period size: 7 Copynumber: 8.9 Consensus size: 8
6297568 TGGAAAAGAT
6297578 ATGAAAAGA
1 ATGAAAA-A
6297587 TATGAAAAA
1 -ATGAAAAA
* *
6297596 AAGCAAAA
1 ATGAAAAA
6297604 ATG-AAAA
1 ATGAAAAA
*
6297611 ATGTAAAA
1 ATGAAAAA
6297619 ATGTAAAAA
1 ATG-AAAAA
6297628 A-GAAAAA
1 ATGAAAAA
*
6297635 AGTGGAAAA
1 A-TGAAAAA
6297644 A-GAAAA
1 ATGAAAA
6297650 CTTAAATTGA
Statistics
Matches: 52, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
7 17 0.33
8 16 0.31
9 12 0.23
10 7 0.13
ACGTcount: A:0.69, C:0.01, G:0.17, T:0.12
Consensus pattern (8 bp):
ATGAAAAA
Found at i:6297633 original size:15 final size:16
Alignment explanation
Indices: 6297592--6297634 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
6297582 AAAGATATGA
6297592 AAAAAAGCAAAAATG-
1 AAAAAAGCAAAAATGT
* *
6297607 AAAAATGTAAAAATGT
1 AAAAAAGCAAAAATGT
6297623 AAAAAAG-AAAAA
1 AAAAAAGCAAAAA
6297635 AGTGGAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 18 0.75
16 6 0.25
ACGTcount: A:0.74, C:0.02, G:0.12, T:0.12
Consensus pattern (16 bp):
AAAAAAGCAAAAATGT
Found at i:6298607 original size:17 final size:17
Alignment explanation
Indices: 6298581--6298623 Score: 70
Period size: 17 Copynumber: 2.5 Consensus size: 17
6298571 GGAAAATCTT
6298581 TTCA-ACATTGCATGTA
1 TTCATACATTGCATGTA
6298597 TTCATACATTGCATGTA
1 TTCATACATTGCATGTA
6298614 TTCATTACAT
1 TTCA-TACAT
6298624 ATGTTTGGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 4 0.16
17 16 0.64
18 5 0.20
ACGTcount: A:0.30, C:0.19, G:0.09, T:0.42
Consensus pattern (17 bp):
TTCATACATTGCATGTA
Found at i:6298866 original size:38 final size:38
Alignment explanation
Indices: 6298814--6299098 Score: 216
Period size: 38 Copynumber: 7.5 Consensus size: 38
6298804 TAGATATCTA
* * **
6298814 CTTTATTTTGCAAAAGTTGTAGCCTCAATGGAAGAGTT
1 CTTTATTTTTCAAAAGTTGAAGCCTCGGTGGAAGAGTT
* * * *
6298852 CTTTATTTTTCAAAAGTTGCATCTTCGGTGGAGGAGTT
1 CTTTATTTTTCAAAAGTTGAAGCCTCGGTGGAAGAGTT
* * * * *
6298890 CTTTATTTTTTAAAAG-TCAAGCCCTTGCTGGAAGAGTA
1 CTTTATTTTTCAAAAGTTGAAG-CCTCGGTGGAAGAGTT
* * * * * *
6298928 CTTTATTTTTCAAAAATGGAAGCCTCAGTGGAAAAATA
1 CTTTATTTTTCAAAAGTTGAAGCCTCGGTGGAAGAGTT
* * * * *
6298966 CTTTATTTTTCAAAAATTAAAGCCTCAGTGGAGGAATAT
1 CTTTATTTTTCAAAAGTTGAAGCCTCGGTGGAAGAGT-T
* * * * *
6299005 -TTAATTTTTCAAAAGTTAAAGCATCGATGGAAGAGTA
1 CTTTATTTTTCAAAAGTTGAAGCCTCGGTGGAAGAGTT
* * *
6299042 CTTTATTTTTTAAAAGTTTAAAGCCTCGGTTGAAGAGTAT
1 CTTTATTTTTCAAAAG-TTGAAGCCTCGGTGGAAGAGT-T
*
6299082 -TTTATATTTCAAAAGTT
1 CTTTATTTTTCAAAAGTT
6299099 TTTAAGCCTT
Statistics
Matches: 195, Mismatches: 46, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
37 2 0.01
38 159 0.82
39 34 0.17
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (38 bp):
CTTTATTTTTCAAAAGTTGAAGCCTCGGTGGAAGAGTT
Found at i:6299012 original size:114 final size:114
Alignment explanation
Indices: 6298812--6299056 Score: 260
Period size: 114 Copynumber: 2.1 Consensus size: 114
6298802 CTTAGATATC
* * * * * * * * ** * *
6298812 TACTTTATTTTGCAAAAGTTGTAGCCTCAATGGAAGAGTTCTTTATTTTTCAAAAGTTGCATCTT
1 TACTTTATTTTTCAAAAATGGAAGCCTCAATGGAAAAATACTTTATTTTTCAAAAATTAAAGCCT
* * * * * * * *
6298877 CGGTGGAGGAGTTCTTTATTTTTTAAAAG-TCAAGCCCTTGCTGGAAGAG
66 CAGTGGAGGAATTCTTAATTTTTCAAAAGTTAAAG-CATCGATGGAAGAG
*
6298926 TACTTTATTTTTCAAAAATGGAAGCCTCAGTGGAAAAATACTTTATTTTTCAAAAATTAAAGCCT
1 TACTTTATTTTTCAAAAATGGAAGCCTCAATGGAAAAATACTTTATTTTTCAAAAATTAAAGCCT
6298991 CAGTGGAGGAATAT-TTAATTTTTCAAAAGTTAAAGCATCGATGGAAGAG
66 CAGTGGAGGAAT-TCTTAATTTTTCAAAAGTTAAAGCATCGATGGAAGAG
*
6299040 TACTTTATTTTTTAAAA
1 TACTTTATTTTTCAAAA
6299057 GTTTAAAGCC
Statistics
Matches: 107, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
114 102 0.95
115 5 0.05
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.38
Consensus pattern (114 bp):
TACTTTATTTTTCAAAAATGGAAGCCTCAATGGAAAAATACTTTATTTTTCAAAAATTAAAGCCT
CAGTGGAGGAATTCTTAATTTTTCAAAAGTTAAAGCATCGATGGAAGAG
Found at i:6299424 original size:21 final size:22
Alignment explanation
Indices: 6299377--6299425 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 22
6299367 TATTTTTATT
*
6299377 TTATTTTAATTTTTGGTTTTTA
1 TTATTTTAATTTTTAGTTTTTA
* *
6299399 -GATTTTCA-TTTTAGTTTTTA
1 TTATTTTAATTTTTAGTTTTTA
6299419 TTATTTT
1 TTATTTT
6299426 TGTTCAAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.18, C:0.02, G:0.08, T:0.71
Consensus pattern (22 bp):
TTATTTTAATTTTTAGTTTTTA
Found at i:6299950 original size:18 final size:16
Alignment explanation
Indices: 6299929--6299984 Score: 62
Period size: 15 Copynumber: 3.5 Consensus size: 16
6299919 TTGTGTTTTA
6299929 AATTTTGAGGAGTTTTGG
1 AATTTTGA-G-GTTTTGG
6299947 AATTTTGAGGTTTTGG
1 AATTTTGAGGTTTTGG
* *
6299963 -ATTTTGA-TTTTTGA
1 AATTTTGAGGTTTTGG
6299977 AATTTTGA
1 AATTTTGA
6299985 TTTTTTTCTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
14 5 0.14
15 14 0.40
16 7 0.20
17 1 0.03
18 8 0.23
ACGTcount: A:0.23, C:0.00, G:0.25, T:0.52
Consensus pattern (16 bp):
AATTTTGAGGTTTTGG
Found at i:6299968 original size:15 final size:18
Alignment explanation
Indices: 6299929--6299969 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
6299919 TTGTGTTTTA
6299929 AATTTTGAGGAGTTTTGG
1 AATTTTGAGGAGTTTTGG
6299947 AATTTTGA-G-GTTTTGG
1 AATTTTGAGGAGTTTTGG
6299963 -ATTTTGA
1 AATTTTGA
6299970 TTTTTGAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.30
16 7 0.30
17 1 0.04
18 8 0.35
ACGTcount: A:0.22, C:0.00, G:0.29, T:0.49
Consensus pattern (18 bp):
AATTTTGAGGAGTTTTGG
Found at i:6299981 original size:15 final size:14
Alignment explanation
Indices: 6299941--6299989 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
6299931 TTTTGAGGAG
*
6299941 TTTTGGAATTTTGA
1 TTTTTGAATTTTGA
* *
6299955 GGTTTTGGATTTTGA
1 -TTTTTGAATTTTGA
6299970 TTTTTGAAATTTTGA
1 TTTTTG-AATTTTGA
6299985 TTTTT
1 TTTTT
6299990 TTCTTTTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
14 5 0.18
15 23 0.82
ACGTcount: A:0.18, C:0.00, G:0.20, T:0.61
Consensus pattern (14 bp):
TTTTTGAATTTTGA
Found at i:6300436 original size:12 final size:11
Alignment explanation
Indices: 6300397--6300462 Score: 53
Period size: 13 Copynumber: 5.5 Consensus size: 11
6300387 CAAATGCAGG
6300397 TTTTTACTTTT-
1 TTTTTA-TTTTA
*
6300408 TTTTTCTTTGTA
1 TTTTTATTT-TA
6300420 TTTTTTATTTTGA
1 -TTTTTATTTT-A
6300433 TTTTTACTTTTA
1 TTTTTA-TTTTA
6300445 TTTTTATTCTCTA
1 TTTTTATT-T-TA
6300458 TTTTT
1 TTTTT
6300463 TATCTTGTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
10 3 0.07
11 8 0.17
12 15 0.33
13 20 0.43
ACGTcount: A:0.12, C:0.08, G:0.03, T:0.77
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:6300460 original size:38 final size:36
Alignment explanation
Indices: 6300397--6300475 Score: 104
Period size: 38 Copynumber: 2.1 Consensus size: 36
6300387 CAAATGCAGG
* * *
6300397 TTTTTACTTTTTTTTTCTTTGTATTTTTTATTTTGA
1 TTTTTACTTTTTTTTTATTTCTATTTTTTATCTTGA
*
6300433 TTTTTACTTTTATTTTTATTCTCTATTTTTTATCTTGT
1 TTTTTACTTTT-TTTTTATT-TCTATTTTTTATCTTGA
6300471 TTTTT
1 TTTTT
6300476 CTTATTTCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
36 11 0.30
37 7 0.19
38 19 0.51
ACGTcount: A:0.11, C:0.08, G:0.04, T:0.77
Consensus pattern (36 bp):
TTTTTACTTTTTTTTTATTTCTATTTTTTATCTTGA
Found at i:6300462 original size:26 final size:28
Alignment explanation
Indices: 6300433--6300493 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
6300423 TTTATTTTGA
*
6300433 TTTTTA-CTT-TTATTT-TTATTCTCTAT
1 TTTTTATCTTGTTATTTCTTATT-TCAAT
*
6300459 TTTTTATCTTGTTTTTTCTTATTTCAAT
1 TTTTTATCTTGTTATTTCTTATTTCAAT
6300487 TTTTTAT
1 TTTTTAT
6300494 AGTGTGACTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 6 0.20
27 3 0.10
28 16 0.53
29 5 0.17
ACGTcount: A:0.15, C:0.10, G:0.02, T:0.74
Consensus pattern (28 bp):
TTTTTATCTTGTTATTTCTTATTTCAAT
Found at i:6303103 original size:38 final size:40
Alignment explanation
Indices: 6303061--6303137 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 40
6303051 CTCACTTTTT
*
6303061 ATATATAAAT-A-ACAATTCAAGTACTATCTCATTATCTC
1 ATATATAAATAAGACAATTCAAGTACTATCTAATTATCTC
* *
6303099 ATATATAAATAAGACAATTCATGTATTATCTAATTATCT
1 ATATATAAATAAGACAATTCAAGTACTATCTAATTATCT
6303138 TATTGGCTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 10 0.29
39 1 0.03
40 23 0.68
ACGTcount: A:0.43, C:0.14, G:0.04, T:0.39
Consensus pattern (40 bp):
ATATATAAATAAGACAATTCAAGTACTATCTAATTATCTC
Found at i:6303450 original size:23 final size:23
Alignment explanation
Indices: 6303410--6303470 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
6303400 TTTACCAAAA
*
6303410 CATTTAT-ATCATAGTTAGTTTTG
1 CATTTATAATCA-AATTAGTTTTG
*
6303433 TATTTATAATCAAATTAGTTTTG
1 CATTTATAATCAAATTAGTTTTG
6303456 CATTTATAATCAAAT
1 CATTTATAATCAAAT
6303471 GTGATAATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
23 30 0.88
24 4 0.12
ACGTcount: A:0.34, C:0.08, G:0.08, T:0.49
Consensus pattern (23 bp):
CATTTATAATCAAATTAGTTTTG
Found at i:6305052 original size:11 final size:10
Alignment explanation
Indices: 6305034--6305063 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
6305024 TCGGAAAGTT
6305034 TTTTTTTTAG
1 TTTTTTTTAG
6305044 TTTTATTTTAG
1 TTTT-TTTTAG
6305055 TTTTTTTTA
1 TTTTTTTTA
6305064 AAATATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.13, C:0.00, G:0.07, T:0.80
Consensus pattern (10 bp):
TTTTTTTTAG
Found at i:6305666 original size:21 final size:21
Alignment explanation
Indices: 6305641--6305680 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
6305631 CTTTAAAAAT
*
6305641 AAAT-AATCAAATAAGATAACC
1 AAATAAAT-AAATAAAATAACC
6305662 AAATAAATAAATAAAATAA
1 AAATAAATAAATAAAATAA
6305681 ATACCAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.70, C:0.07, G:0.03, T:0.20
Consensus pattern (21 bp):
AAATAAATAAATAAAATAACC
Found at i:6305678 original size:13 final size:12
Alignment explanation
Indices: 6305636--6305683 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 12
6305626 AAATACTTTA
6305636 AAAATAAATAAT
1 AAAATAAATAAT
* *
6305648 CAAATAAGATAAC
1 AAAATAA-ATAAT
*
6305661 CAAATAAATAAAT
1 AAAATAAAT-AAT
6305674 AAAATAAATA
1 AAAATAAATA
6305684 CCAAAATTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
12 9 0.30
13 21 0.70
ACGTcount: A:0.71, C:0.06, G:0.02, T:0.21
Consensus pattern (12 bp):
AAAATAAATAAT
Found at i:6306636 original size:44 final size:43
Alignment explanation
Indices: 6306456--6306670 Score: 180
Period size: 43 Copynumber: 5.1 Consensus size: 43
6306446 AACATAAAAA
* ** * * *
6306456 CTCCTCTAAACAGAGGCTTAATGAC--TAAAAAAAAAATAAAG
1 CTCCTCTAATCAGAGGCTTAACAACTTTAGAAAATAAATAAGG
* * *
6306497 CTCCTCTAATCAAAGG-TTCAATAACTTTTCA-AAAATAAATAAAG
1 CTCCTCTAATCAGAGGCTT-AACAAC-TTT-AGAAAATAAATAAGG
* * *
6306541 CTCATCTAATCAGAAGCTCAACAACTTT-GAAAAATAAATAAGG
1 CTCCTCTAATCAGAGGCTTAACAACTTTAG-AAAATAAATAAGG
*
6306584 CTCATCTAATCAGAGGCTTAACAACTTTAGAAAATAAATAAGGG
1 CTCCTCTAATCAGAGGCTTAACAACTTTAGAAAATAAATAA-GG
6306628 CTCCTCTAAAT-AGAGGCTTAA-AGACTTT-GAAAA-AAA-AAGG
1 CTCCTCT-AATCAGAGGCTTAACA-ACTTTAGAAAATAAATAAGG
6306668 CTC
1 CTC
6306671 AACAATTTTG
Statistics
Matches: 149, Mismatches: 13, Indels: 25
0.80 0.07 0.13
Matches are distributed among these distances:
40 7 0.05
41 21 0.14
42 3 0.02
43 58 0.39
44 55 0.37
45 5 0.03
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.24
Consensus pattern (43 bp):
CTCCTCTAATCAGAGGCTTAACAACTTTAGAAAATAAATAAGG
Found at i:6306636 original size:87 final size:87
Alignment explanation
Indices: 6306483--6306665 Score: 205
Period size: 87 Copynumber: 2.1 Consensus size: 87
6306473 TTAATGACTA
* *
6306483 AAAAAAAAATAAAGCTCCTCTAATCAAAGGTTCAATAACTTTTCAAAAATAAATAAAGCTCATCT
1 AAAAAAAAATAAAGCTCATCTAATCAAAGGTTCAACAACTTTTCAAAAATAAATAAAGCTCATCT
6306548 -AATCAGAAGCTCAACA-ACTTTG
66 AAAT-AGAAGCTCAA-AGACTTTG
* * * * *
6306570 AAAAATAAATAAGGCTCATCTAATCAGAGGCTT-AACAAC-TTT-AGAAAATAAATAAGGGCTCC
1 AAAAAAAAATAAAGCTCATCTAATCAAAGG-TTCAACAACTTTTCA-AAAATAAATAA-AGCTCA
* *
6306632 TCTAAATAGAGGCTTAAAGACTTTG
63 TCTAAATAGAAGCTCAAAGACTTTG
6306657 AAAAAAAAA
1 AAAAAAAAA
6306666 GGCTCAACAA
Statistics
Matches: 81, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
85 1 0.01
86 15 0.19
87 60 0.74
88 5 0.06
ACGTcount: A:0.49, C:0.16, G:0.11, T:0.24
Consensus pattern (87 bp):
AAAAAAAAATAAAGCTCATCTAATCAAAGGTTCAACAACTTTTCAAAAATAAATAAAGCTCATCT
AAATAGAAGCTCAAAGACTTTG
Found at i:6306761 original size:43 final size:41
Alignment explanation
Indices: 6306714--6306810 Score: 133
Period size: 40 Copynumber: 2.3 Consensus size: 41
6306704 AAGGCCAATG
*
6306714 ACTTTGAAAAATAAATAATGCTCCTCTAAATAGAGACTTAACA
1 ACTTTGAAAAATAAA-AA-GCTCCTCTAAACAGAGACTTAACA
* *
6306757 ACTTTGAAAAAT-AAAAGCTCCTCTAAACAGAGGCTTAATA
1 ACTTTGAAAAATAAAAAGCTCCTCTAAACAGAGACTTAACA
*
6306797 ACTTTAAAAAATAA
1 ACTTTGAAAAATAA
6306811 TTCTTCTTGA
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
40 32 0.65
41 3 0.06
42 2 0.04
43 12 0.24
ACGTcount: A:0.48, C:0.15, G:0.09, T:0.27
Consensus pattern (41 bp):
ACTTTGAAAAATAAAAAGCTCCTCTAAACAGAGACTTAACA
Found at i:6306794 original size:40 final size:40
Alignment explanation
Indices: 6306665--6306810 Score: 132
Period size: 40 Copynumber: 3.6 Consensus size: 40
6306655 TGAAAAAAAA
* * * * * *
6306665 AGGCTCAACAATTTTGGAAAATAAAAGGTCATTTAAACAA
1 AGGCTCAACAACTTTGAAAAATAAAAGCTCCTCTAAACAG
** *
6306705 AGGC-CAATGACTTTGAAAAATAAATAATGCTCCTCTAAATAG
1 AGGCTCAACAACTTTGAAAAAT-AA-AA-GCTCCTCTAAACAG
* *
6306747 AGACTTAACAACTTTGAAAAATAAAAGCTCCTCTAAACAG
1 AGGCTCAACAACTTTGAAAAATAAAAGCTCCTCTAAACAG
* * *
6306787 AGGCTTAATAACTTTAAAAAATAA
1 AGGCTCAACAACTTTGAAAAATAA
6306811 TTCTTCTTGA
Statistics
Matches: 85, Mismatches: 17, Indels: 8
0.77 0.15 0.07
Matches are distributed among these distances:
39 13 0.15
40 40 0.47
41 4 0.05
42 14 0.16
43 14 0.16
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.25
Consensus pattern (40 bp):
AGGCTCAACAACTTTGAAAAATAAAAGCTCCTCTAAACAG
Found at i:6306847 original size:22 final size:22
Alignment explanation
Indices: 6306822--6306868 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
6306812 TCTTCTTGAT
* *
6306822 AATCATGTCTAGAGGAGTCATA
1 AATCACGTCCAGAGGAGTCATA
6306844 AATCACGTCCAGAGGAGTCATA
1 AATCACGTCCAGAGGAGTCATA
6306866 AAT
1 AAT
6306869 GTTTGATGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.23
Consensus pattern (22 bp):
AATCACGTCCAGAGGAGTCATA
Found at i:6307152 original size:21 final size:21
Alignment explanation
Indices: 6307123--6307163 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
6307113 ACATTTGAAG
*
6307123 ATTCGAATTTTGGAGATTCAT
1 ATTCAAATTTTGGAGATTCAT
*
6307144 ATTCAAATTTTGGTGATTCA
1 ATTCAAATTTTGGAGATTCA
6307164 CACCCAAAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.44
Consensus pattern (21 bp):
ATTCAAATTTTGGAGATTCAT
Found at i:6307171 original size:21 final size:21
Alignment explanation
Indices: 6307128--6307171 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
6307118 TGAAGATTCG
* **
6307128 AATTTTGGAGATTCATATTCA
1 AATTTTGGAGATTCACACCCA
*
6307149 AATTTTGGTGATTCACACCCA
1 AATTTTGGAGATTCACACCCA
6307170 AA
1 AA
6307172 GGTTAAAACT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (21 bp):
AATTTTGGAGATTCACACCCA
Found at i:6307398 original size:107 final size:109
Alignment explanation
Indices: 6307281--6307548 Score: 251
Period size: 109 Copynumber: 2.5 Consensus size: 109
6307271 TTCATTTGAC
* ** *
6307281 TTCAAAGATTCACATTCAATAAATCTTAGAATTTCACATCT-AAGTTCAAAGGTTCTTATTCA-A
1 TTCAAAGATTCACATTCAAT-AATCTTAGAATTTCACATCTAAAATTCAAACATTCTCATTCAGA
** *
6307344 A-ATTTAGAGATTTGCATCCAAAATTTTGAAGCCTCTTATTCGAT
65 ATATTTAGAGATTCACATCCAAAAGTTTGAAGCCTCTTATTCGAT
* * * * * *
6307388 TTCAAGGATTCATATTCGATAATTTTAGAGTTTCACATCTAAAATTCAAACATTCTCATTTAGAA
1 TTCAAAGATTCACATTCAATAATCTTAGAATTTCACATCTAAAATTCAAACATTCTCATTCAGAA
* * * *
6307453 TATTTAGAGGTTCACATCCAAAAGTTTGAAG-TTTTTCATTTGAGT
66 TATTTAGAGATTCACATCCAAAAGTTTGAAGCCTCTT-ATTCGA-T
* * * *
6307498 TT-AAAGATTCACATTTGAAAAAAT-TTAGAGTTTCACATCTAGAATTTCAAA
1 TTCAAAGATTCACA-TT-CAATAATCTTAGAATTTCACATCTA-AAATTCAAA
6307549 GTTACTCATT
Statistics
Matches: 130, Mismatches: 23, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
106 18 0.14
107 33 0.25
108 5 0.04
109 40 0.31
110 22 0.17
111 12 0.09
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (109 bp):
TTCAAAGATTCACATTCAATAATCTTAGAATTTCACATCTAAAATTCAAACATTCTCATTCAGAA
TATTTAGAGATTCACATCCAAAAGTTTGAAGCCTCTTATTCGAT
Found at i:6307712 original size:21 final size:20
Alignment explanation
Indices: 6307649--6307995 Score: 196
Period size: 21 Copynumber: 15.7 Consensus size: 20
6307639 TTAAAGACTT
* *
6307649 TCATTTAAGAGTCAAAGATTT
1 TCATTTAA-ACTCAAAGATTC
*
6307670 TCATTTGAAATTTCTTAAAGATTC
1 TCATTT-AAA---CTCAAAGATTC
6307694 TCATTTAAGACTCAAAGATTC
1 TCATTTAA-ACTCAAAGATTC
*
6307715 TTATTTGAAAATTTCTCAAAGATTC
1 TCATTT--AAA---CTCAAAGATTC
6307740 TCATTTAAGACTCAAAGATTC
1 TCATTTAA-ACTCAAAGATTC
* * *
6307761 TCACTTGAAACTTTTTTAAAGGTT-
1 TCA-TTTAAAC----TCAAAGATTC
6307785 T--TTTAAAACCTTCTCAAAGATTC
1 TCATTT-AAA----CTCAAAGATTC
*
6307808 TCATTTAAGGCTCAAAGATTC
1 TCATTTAA-ACTCAAAGATTC
*
6307829 TCATTTGAAACTTTCTTAAAGATTA
1 TCATTT-AAAC--TC--AAAGATTC
6307854 TCATTTAAGACTCAAAGATTC
1 TCATTTAA-ACTCAAAGATTC
6307875 TCATTTGAAACTCAAAGATTC
1 TCATTT-AAACTCAAAGATTC
6307896 TCATTTGAAAACTCAAAGATTC
1 TCATTT--AAACTCAAAGATTC
*
6307918 TCATTTATCACTCAAAGATTC
1 TCATTTA-AACTCAAAGATTC
* * *
6307939 TTATTTAAAACTGAAATATTC
1 TCATTT-AAACTCAAAGATTC
* * *
6307960 TTATTTGAAAATTCATAGATTC
1 TCATTT--AAACTCAAAGATTC
6307982 TCATTTGAAACTCA
1 TCATTT-AAACTCA
6307996 TTATTTTATC
Statistics
Matches: 261, Mismatches: 29, Indels: 72
0.72 0.08 0.20
Matches are distributed among these distances:
20 1 0.00
21 128 0.49
22 58 0.22
23 11 0.04
24 21 0.08
25 41 0.16
26 1 0.00
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (20 bp):
TCATTTAAACTCAAAGATTC
Found at i:6307744 original size:46 final size:45
Alignment explanation
Indices: 6307636--6307991 Score: 242
Period size: 46 Copynumber: 8.0 Consensus size: 45
6307626 ATTTGAGTTC
* * * *
6307636 TTCTTAAAGACTT-TCATTTAAGAGTCAAAGATTTTCATTTGAAAT
1 TTCTCAAAGA-TTCTCATTTAAGACTCAAAGATTCTCATTTGAAAA
* *
6307681 TTCTTAAAGATTCTCATTTAAGACTCAAAGATTCTTATTTGAAAA
1 TTCTCAAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAAAA
* *
6307726 TTTCTCAAAGATTCTCATTTAAGACTCAAAGATTCTCACTTGAAACT
1 -TTCTCAAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAAA-A
* * * *
6307773 TTTTTAAAGGTT-T--TTTAAAACCTTCTCAAAGATTCTCATTT---AA
1 TTCTCAAAGATTCTCATTTAAGA----CTCAAAGATTCTCATTTGAAAA
** * *
6307816 GGCTCAAAGATTCTCATTTGAA-ACTTTCTTAAAGATTATCATTT-AAGA
1 TTCTCAAAGATTCTCATTT-AAGAC--TC--AAAGATTCTCATTTGAAAA
6307864 --CTCAAAGATTCTCATTTGAA-ACTCAAAGATTCTCATTTGAAAA
1 TTCTCAAAGATTCTCATTT-AAGACTCAAAGATTCTCATTTGAAAA
** *
6307907 --CTCAAAGATTCTCATTTATCACTCAAAGATTCTTATTT-AAAA
1 TTCTCAAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAAAA
* * * * * *
6307949 --CTGAAATATTCTTATTTGAAAATTCATAGATTCTCATTTGAAA
1 TTCTCAAAGATTCTCATTT-AAGACTCAAAGATTCTCATTTGAAA
6307992 CTCATTATTT
Statistics
Matches: 257, Mismatches: 33, Indels: 43
0.77 0.10 0.13
Matches are distributed among these distances:
42 33 0.13
43 66 0.26
44 11 0.04
45 39 0.15
46 89 0.35
47 18 0.07
48 1 0.00
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.39
Consensus pattern (45 bp):
TTCTCAAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAAAA
Found at i:6307808 original size:68 final size:68
Alignment explanation
Indices: 6307707--6307905 Score: 246
Period size: 68 Copynumber: 2.9 Consensus size: 68
6307697 TTTAAGACTC
* *
6307707 AAAGATTCTTATTTGAAAATTTCTCAAAGATTCTCATTTAAGACTCAAAGATTCTCACTTGAAAC
1 AAAGATT-ATATTT-AAAA-TTCTCAAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAAAC
*
6307772 TTTTTT
63 TTTCTT
* *
6307778 AAAGGTT-T-TTTAAAACCTTCTCAAAGATTCTCATTTAAGGCTCAAAGATTCTCATTTGAAACT
1 AAAGATTATATTTAAAA--TTCTCAAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAAACT
6307841 TTCTT
64 TTCTT
*
6307846 AAAGATTATCATTTAAGA--CTCAAAGATTCTCATTTGAA-ACTCAAAGATTCTCATTTGAAA
1 AAAGATTAT-ATTTAAAATTCTCAAAGATTCTCATTT-AAGACTCAAAGATTCTCATTTGAAA
6307906 ACTCAAAGAT
Statistics
Matches: 115, Mismatches: 8, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
67 42 0.37
68 59 0.51
69 2 0.02
71 12 0.10
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (68 bp):
AAAGATTATATTTAAAATTCTCAAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAAACTTT
CTT
Found at i:6307907 original size:114 final size:112
Alignment explanation
Indices: 6307660--6307950 Score: 360
Period size: 114 Copynumber: 2.6 Consensus size: 112
6307650 CATTTAAGAG
* *
6307660 TCAAAGATTTTCATTTGAAATTTCTTAAAGATTCTCATTTAAGACTCAAAGATTCTTATTTGAAA
1 TCAAAGA-TTTCATTTGAAAATTCTCAAAGATTCTCATTTAAGACTCAAAGATTCTTATTTGAAA
* *
6307725 ATTTCTCAAAGATTCTCATTTAAGACTCAAAGATTCTCACTTGAAACTTTT
65 CTTTCTCAAAGATTATCATTTAAGACTCAAAGATTCTCACTTGAAAC---T
* * * *
6307776 TTAAAGGTTT--TTT-AAAACCTTCTCAAAGATTCTCATTTAAGGCTCAAAGATTCTCATTTGAA
1 TCAAAGATTTCATTTGAAAA--TTCTCAAAGATTCTCATTTAAGACTCAAAGATTCTTATTTGAA
* *
6307838 ACTTTCTTAAAGATTATCATTTAAGACTCAAAGATTCTCATTTGAAAC-
64 ACTTTCTCAAAGATTATCATTTAAGACTCAAAGATTCTCACTTGAAACT
** *
6307886 TCAAAGATTCTCATTTGAAAA--CTCAAAGATTCTCATTTATCACTCAAAGATTCTTATTTAAAA
1 TCAAAGATT-TCATTTGAAAATTCTCAAAGATTCTCATTTAAGACTCAAAGATTCTTATTTGAAA
6307949 CT
65 CT
6307951 GAAATATTCT
Statistics
Matches: 152, Mismatches: 17, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
110 46 0.30
111 1 0.01
112 3 0.02
113 6 0.04
114 88 0.58
115 3 0.02
116 5 0.03
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (112 bp):
TCAAAGATTTCATTTGAAAATTCTCAAAGATTCTCATTTAAGACTCAAAGATTCTTATTTGAAAC
TTTCTCAAAGATTATCATTTAAGACTCAAAGATTCTCACTTGAAACT
Found at i:6307950 original size:64 final size:64
Alignment explanation
Indices: 6307641--6307995 Score: 240
Period size: 64 Copynumber: 5.3 Consensus size: 64
6307631 AGTTCTTCTT
* * * * * *
6307641 AAAGACTT-TCATTTAAGAGTCAAAGATTTTCATTTGAAATTTCTTAAAGATTCTCATTT-AAGA
1 AAAGA-TTCTCATTTAACACTCAAAGATTCTCATTT-AAA--ACTCAAAGATTCTCATTTGAAAA
6307704 CTC
62 CTC
* * * *
6307707 AAAGATTCTTATTTGAAAATTTCTCAAAGATTCTCATTTAAGACTCAAAGATTCTCACTTG-AAA
1 AAAGATTCTCATTT-AACA---CTCAAAGATTCTCATTTAAAACTCAAAGATTCTCATTTGAAAA
*
6307771 CTTTTTT
62 C----TC
* * **
6307778 AAAGGTT-T--TTTAAAACCTTCTCAAAGATTCTCATTTAAGGCTCAAAGATTCTCATTTG-AAA
1 AAAGATTCTCATTT--AA-C-ACTCAAAGATTCTCATTTAAAACTCAAAGATTCTCATTTGAAAA
6307839 CTTTC
62 C--TC
* * *
6307844 TTAAAGATTATCATTTAAGACTCAAAGATTCTCATTTGAAACTCAAAGATTCTCATTTGAAAACT
1 --AAAGATTCTCATTTAACACTCAAAGATTCTCATTTAAAACTCAAAGATTCTCATTTGAAAACT
6307909 C
64 C
* * * * * *
6307910 AAAGATTCTCATTTATCACTCAAAGATTCTTATTTAAAACTGAAATATTCTTATTTGAAAATTC
1 AAAGATTCTCATTTAACACTCAAAGATTCTCATTTAAAACTCAAAGATTCTCATTTGAAAACTC
*
6307974 ATAGATTCTCATTTGAA-ACTCA
1 AAAGATTCTCATTT-AACACTCA
6307996 TTATTTTATC
Statistics
Matches: 235, Mismatches: 34, Indels: 42
0.76 0.11 0.14
Matches are distributed among these distances:
64 73 0.31
65 3 0.01
66 15 0.06
67 57 0.24
68 54 0.23
69 7 0.03
70 16 0.07
71 10 0.04
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.39
Consensus pattern (64 bp):
AAAGATTCTCATTTAACACTCAAAGATTCTCATTTAAAACTCAAAGATTCTCATTTGAAAACTC
Found at i:6309116 original size:11 final size:10
Alignment explanation
Indices: 6309096--6309129 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
6309086 CTTTTTTTTC
6309096 TTTTTCATTT
1 TTTTTCATTT
6309106 TTTTCTCA-TT
1 TTTT-TCATTT
6309116 TTTTTCATTT
1 TTTTTCATTT
6309126 TTTT
1 TTTT
6309130 AATCCATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 3 0.14
10 16 0.73
11 3 0.14
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTTCATTT
Found at i:6314172 original size:15 final size:15
Alignment explanation
Indices: 6314152--6314185 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
6314142 CAACCACCGA
* *
6314152 TTTTTCTTTTTTTGT
1 TTTTTCATTTTTTAT
6314167 TTTTTCATTTTTTAT
1 TTTTTCATTTTTTAT
6314182 TTTT
1 TTTT
6314186 ATTAACAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.06, C:0.06, G:0.03, T:0.85
Consensus pattern (15 bp):
TTTTTCATTTTTTAT
Found at i:6325006 original size:3 final size:3
Alignment explanation
Indices: 6324998--6325024 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
6324988 AAGGTTTTAA
6324998 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
6325025 GCTATTTCCT
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:6326149 original size:3 final size:3
Alignment explanation
Indices: 6326141--6326218 Score: 129
Period size: 3 Copynumber: 25.7 Consensus size: 3
6326131 CAAAAAGTAT
*
6326141 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA TTA TATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA
*
6326187 ATA ATA ACA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
6326219 GTCCGATGAT
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
3 68 0.97
4 2 0.03
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:6326503 original size:15 final size:16
Alignment explanation
Indices: 6326474--6326511 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
6326464 TGTATCTTTC
6326474 AAAA-AATTAAATTAA
1 AAAATAATTAAATTAA
*
6326489 AAATTAATT-AATTAA
1 AAAATAATTAAATTAA
6326504 AAAATAAT
1 AAAATAAT
6326512 AATAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAAATAATTAAATTAA
Found at i:6338715 original size:26 final size:23
Alignment explanation
Indices: 6338668--6338720 Score: 63
Period size: 26 Copynumber: 2.2 Consensus size: 23
6338658 AAATAAGGGT
*
6338668 GAAAAAAATAAAAAAGATCAAAA
1 GAAAAAAATAAAAAAGAACAAAA
6338691 GAAAAAATATATATAAAAGAACAAAA
1 GAAAAAA-ATA-A-AAAAGAACAAAA
6338717 -AAAA
1 GAAAA
6338721 TGAAAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 7 0.27
24 3 0.12
25 5 0.19
26 11 0.42
ACGTcount: A:0.77, C:0.04, G:0.08, T:0.11
Consensus pattern (23 bp):
GAAAAAAATAAAAAAGAACAAAA
Found at i:6339915 original size:50 final size:49
Alignment explanation
Indices: 6339648--6339942 Score: 192
Period size: 49 Copynumber: 6.0 Consensus size: 49
6339638 TGTTATGAAG
* * * * *
6339648 CATTTTCAAATAAGA-TTTTAAAGTTTCAAAACCTCTATTTGGAAGGAGC
1 CATTTTCAAACAAGATTTTTAAAATTTCAAAGCCTCTACTT-AAAGGAGC
* * * * * * ** *
6339697 CATTATCAGACAAAATTTTT-AAGTTTCGAAGCCTTTGTTTAGAAAGAGC
1 CATTTTCAAACAAGATTTTTAAAATTTCAAAGCCTCTACTTA-AAGGAGC
* * * * *
6339746 CATTTGT-AGACAAAATTTTTAAAATTTTC-AAGCATCTGCTTAAGGGAAAGC
1 CATTT-TCAAACAAGATTTTTAAAA-TTTCAAAGCCTCTACTTAAAGG--AGC
* * *
6339797 CA-TTTCTAAACAAGATTTTTAAAAGTTTTAAAGCCTCT--GT-AAGGATC
1 CATTTTC-AAACAAGATTTTTAAAA-TTTCAAAGCCTCTACTTAAAGGAGC
* * *
6339844 CATTTTTAGATAAGATTTTTAAAATTTCAAAGCCTCTACTTAAAGGGAGC
1 CATTTTCAAACAAGATTTTTAAAATTTCAAAGCCTCTACTTAAA-GGAGC
* * * *
6339894 CATTTTCAAACAAGATGTTTAAAGTTTCAAAACCTCTAATTAAAGGAGC
1 CATTTTCAAACAAGATTTTTAAAATTTCAAAGCCTCTACTTAAAGGAGC
6339943 TTTCATACAT
Statistics
Matches: 193, Mismatches: 38, Indels: 30
0.74 0.15 0.11
Matches are distributed among these distances:
46 12 0.06
47 19 0.10
48 4 0.02
49 63 0.33
50 61 0.32
51 27 0.14
52 7 0.04
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.34
Consensus pattern (49 bp):
CATTTTCAAACAAGATTTTTAAAATTTCAAAGCCTCTACTTAAAGGAGC
Found at i:6339915 original size:97 final size:96
Alignment explanation
Indices: 6339745--6339930 Score: 234
Period size: 98 Copynumber: 1.9 Consensus size: 96
6339735 TTAGAAAGAG
*
6339745 CCATTTGTAGACAAAATTTTTAAAATTTTCAAGCATCTGCTTAAGGGAAAGCCATTTCTAAACAA
1 CCATTTGTAGACAAAATTTTTAAAATTTTCAAGCATCTACTTAAGGG-AAGCCATTTCTAAACAA
* * *
6339810 GATTTTTAAAAGTTTTAAAGCCTCTGTAAGGAT
65 GATGTTT-AAAGTTTCAAAACCTCTGTAAGGAT
* * * *
6339843 CCATTTTTAGATAAGATTTTTAAAA-TTTCAAAGCCTCTACTTAAAGGG-AGCCATTT-TCAAAC
1 CCATTTGTAGACAAAATTTTTAAAATTTTC-AAGCATCTACTT-AAGGGAAGCCATTTCT-AAAC
6339905 AAGATGTTTAAAGTTTCAAAACCTCT
63 AAGATGTTTAAAGTTTCAAAACCTCT
6339931 AATTAAAGGA
Statistics
Matches: 77, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
96 16 0.21
97 24 0.31
98 32 0.42
99 5 0.06
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (96 bp):
CCATTTGTAGACAAAATTTTTAAAATTTTCAAGCATCTACTTAAGGGAAGCCATTTCTAAACAAG
ATGTTTAAAGTTTCAAAACCTCTGTAAGGAT
Found at i:6340165 original size:9 final size:9
Alignment explanation
Indices: 6340153--6340201 Score: 50
Period size: 9 Copynumber: 5.8 Consensus size: 9
6340143 AAGGAAAACA
*
6340153 AAAAAAATT
1 AAAAAAATG
6340162 AAAAAAA-G
1 AAAAAAATG
* *
6340170 AAATAAATC
1 AAAAAAATG
6340179 AAAAAAATG
1 AAAAAAATG
6340188 --AAAAATG
1 AAAAAAATG
6340195 AAAAAAA
1 AAAAAAA
6340202 AAACAAAACA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
7 7 0.22
8 6 0.19
9 19 0.59
ACGTcount: A:0.80, C:0.02, G:0.06, T:0.12
Consensus pattern (9 bp):
AAAAAAATG
Found at i:6340177 original size:17 final size:18
Alignment explanation
Indices: 6340157--6340190 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
6340147 AAAACAAAAA
*
6340157 AAATTAAAAAAA-GAAAT
1 AAATCAAAAAAATGAAAT
6340174 AAATCAAAAAAATGAAA
1 AAATCAAAAAAATGAAA
6340191 AATGAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.76, C:0.03, G:0.06, T:0.15
Consensus pattern (18 bp):
AAATCAAAAAAATGAAAT
Found at i:6340750 original size:23 final size:24
Alignment explanation
Indices: 6340724--6340770 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
6340714 CTAAATGGTG
6340724 AAGCCT-AAACCAAACAAAAAAAA
1 AAGCCTAAAACCAAACAAAAAAAA
* *
6340747 AAGCCTAAAACTAAACAAATAAAA
1 AAGCCTAAAACCAAACAAAAAAAA
6340771 TCTAAAATCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.68, C:0.19, G:0.04, T:0.09
Consensus pattern (24 bp):
AAGCCTAAAACCAAACAAAAAAAA
Found at i:6341867 original size:3 final size:3
Alignment explanation
Indices: 6341859--6341891 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
6341849 AAGGTTTAGA
6341859 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
6341892 TTGTTTACTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:6343016 original size:6 final size:6
Alignment explanation
Indices: 6343007--6343041 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
6342997 CTTCATGCAA
*
6343007 TAATAA TAATAT TAATAT TAATAT TAATAT TAATA
1 TAATAT TAATAT TAATAT TAATAT TAATAT TAATA
6343042 AATGAAATGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
TAATAT
Found at i:6347870 original size:16 final size:16
Alignment explanation
Indices: 6347849--6347884 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
6347839 TCTAGCAAAA
* *
6347849 TTTATTTTTCTTGCCT
1 TTTATTTTACTTGCAT
6347865 TTTATTTTACTTGCAT
1 TTTATTTTACTTGCAT
6347881 TTTA
1 TTTA
6347885 AGATTCAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.14, C:0.14, G:0.06, T:0.67
Consensus pattern (16 bp):
TTTATTTTACTTGCAT
Found at i:6349800 original size:13 final size:14
Alignment explanation
Indices: 6349784--6349817 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
6349774 ATTTACAGTT
6349784 TTATTTTTA-TTTA
1 TTATTTTTACTTTA
6349797 TTA-TTTTACTTTA
1 TTATTTTTACTTTA
6349810 TTATTTTT
1 TTATTTTT
6349818 TCCTATTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 5 0.26
13 10 0.53
14 4 0.21
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (14 bp):
TTATTTTTACTTTA
Found at i:6349803 original size:18 final size:19
Alignment explanation
Indices: 6349769--6349815 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
6349759 TTCTTTTTGT
6349769 TTTTTATTTACAGTTTTA-
1 TTTTTATTTACAGTTTTAC
*
6349787 TTTTTATTTATTA-TTTTAC
1 TTTTTATTTA-CAGTTTTAC
6349806 TTTATTATTT
1 TTT-TTATTT
6349816 TTTCCTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 15 0.60
19 4 0.16
20 6 0.24
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.72
Consensus pattern (19 bp):
TTTTTATTTACAGTTTTAC
Found at i:6350839 original size:15 final size:16
Alignment explanation
Indices: 6350819--6350853 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
6350809 TTTTTTATAC
6350819 ATTTCTATTATT-TTT
1 ATTTCTATTATTATTT
*
6350834 ATTTCTATTTTTATTT
1 ATTTCTATTATTATTT
6350850 ATTT
1 ATTT
6350854 TTATGTGAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (16 bp):
ATTTCTATTATTATTT
Found at i:6351049 original size:86 final size:85
Alignment explanation
Indices: 6350957--6351251 Score: 213
Period size: 87 Copynumber: 3.4 Consensus size: 85
6350947 AAAAAAATTT
*
6350957 AGGAAAAAGATTAAAATATCAATTTTCCTAAACAACTTTAAAATGAAAACATAATAAAATAAAAA
1 AGGAAAAA-ATTAAAATATCAATTTTCCTAAAAAACTTTAAAATGAAAACATAATAAAATAAAAA
6351022 AATTTTTTTTTGAAAATACTA
65 AATTTTTTTTTGAAAATACTA
* * * *** * ** *
6351043 AGGAAAAAAGTTGAAATATCAAATTTTCTTAAAATAAAATTT--TGGGAATATTTAAGAAAA-AG
1 AGGAAAAAA-TTAAAATATC-AATTTTCCT-AAA-AAACTTTAAAATGAAAACATAATAAAATA-
* * * * * * *
6351105 CTGAAATATCTTTATTT-AAATTAATT
61 --AAAAAATTTTTTTTTGAAAATACTA
* * *
6351131 A-TAAAAAATTAAAATATCAATTTTCCTAAATAACTTTAAAATGAAAACATAATAAAATTAAAAA
1 AGGAAAAAATTAAAATATCAATTTTCCTAAAAAACTTTAAAATGAAAACATAATAAAATAAAAAA
*
6351195 TTGTTTGTTTTTGAAAAATACTA
66 AT-TTT-TTTTTG-AAAATACTA
* * *
6351218 AGGAAAAAAGTTGAACTATCAAATTTTCTTAAAA
1 AGGAAAAAA-TTAAAATATC-AATTTTCCTAAAA
6351252 TAAAATTTTG
Statistics
Matches: 148, Mismatches: 44, Indels: 30
0.67 0.20 0.14
Matches are distributed among these distances:
83 9 0.06
84 5 0.03
85 24 0.16
86 27 0.18
87 32 0.22
88 16 0.11
89 24 0.16
90 11 0.07
ACGTcount: A:0.52, C:0.07, G:0.08, T:0.34
Consensus pattern (85 bp):
AGGAAAAAATTAAAATATCAATTTTCCTAAAAAACTTTAAAATGAAAACATAATAAAATAAAAAA
ATTTTTTTTTGAAAATACTA
Found at i:6351259 original size:175 final size:173
Alignment explanation
Indices: 6350960--6351289 Score: 572
Period size: 175 Copynumber: 1.9 Consensus size: 173
6350950 AAAATTTAGG
6350960 AAAAAGATTAAAATATCAATTTTCCTAAACAACTTTAAAATGAAAACATAATAAAATAAAAAAAT
1 AAAAAGATTAAAATATCAATTTTCCTAAACAACTTTAAAATGAAAACATAATAAAATAAAAAAAT
6351025 TTTTTTTTGAAAATACTAAGGAAAAAAGTTGAAATATCAAATTTTCTTAAAATAAAATTTTGGGA
66 TTTTTTTTGAAAATACTAAGGAAAAAAGTTGAAATATCAAATTTTCTTAAAATAAAATTTTGGGA
* *
6351090 ATATTTAAGAAAAAGCTGAAATATCTTTATTTAAATTAATTAT
131 ATATTTAAGAAAAAACTAAAATATCTTTATTTAAATTAATTAT
* * *
6351133 AAAAA-ATTAAAATATCAATTTTCCTAAATAACTTTAAAATGAAAACATAATAAAATTAAAAATT
1 AAAAAGATTAAAATATCAATTTTCCTAAACAACTTTAAAATGAAAACATAATAAAATAAAAAAAT
*
6351197 GTTTGTTTTTGAAAAATACTAAGGAAAAAAGTTGAACTATCAAATTTTCTTAAAATAAAATTTTG
66 -TTT-TTTTTG-AAAATACTAAGGAAAAAAGTTGAAATATCAAATTTTCTTAAAATAAAATTTTG
6351262 GGAATATTTAAGAAAAAACTAAAATATC
128 GGAATATTTAAGAAAAAACTAAAATATC
6351290 AATTTTTCCT
Statistics
Matches: 148, Mismatches: 6, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
172 56 0.38
173 8 0.05
174 6 0.04
175 78 0.53
ACGTcount: A:0.52, C:0.07, G:0.08, T:0.34
Consensus pattern (173 bp):
AAAAAGATTAAAATATCAATTTTCCTAAACAACTTTAAAATGAAAACATAATAAAATAAAAAAAT
TTTTTTTTGAAAATACTAAGGAAAAAAGTTGAAATATCAAATTTTCTTAAAATAAAATTTTGGGA
ATATTTAAGAAAAAACTAAAATATCTTTATTTAAATTAATTAT
Found at i:6351323 original size:115 final size:115
Alignment explanation
Indices: 6351204--6351417 Score: 286
Period size: 115 Copynumber: 1.9 Consensus size: 115
6351194 ATTGTTTGTT
* * * **
6351204 TTTGAAAAATACTAAGGAAAAAAGTTGAACTATCAAATTTT-CTTAAAATAAAATTTTGGGAATA
1 TTTGAAAAATACTAAGG-AAAAAGTTGAAATATCAAATTTTGCCTAAAACAAAATTTTGAAAATA
6351268 TTTAAGAAAAAACTAAAATATCAATTTTTCCTAAATTCTTTAAAAATAAAA
65 TTTAAGAAAAAACTAAAATATCAATTTTTCCTAAATTCTTTAAAAATAAAA
* * ** * *
6351319 TTTGATAAATGCTAAGGAAAAAGTTGAAATATCATTTTTTGCCTAGACCAAAATTTTGAAAATAT
1 TTTGAAAAATACTAAGGAAAAAGTTGAAATATCAAATTTTGCCTAAAACAAAATTTTGAAAATAT
* **
6351384 TTAGGAAAAAGTTAAAATATCAATTTTTCCTAAA
66 TTAAGAAAAAACTAAAATATCAATTTTTCCTAAA
6351418 ATATCCTCTA
Statistics
Matches: 84, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
114 20 0.24
115 64 0.76
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.35
Consensus pattern (115 bp):
TTTGAAAAATACTAAGGAAAAAGTTGAAATATCAAATTTTGCCTAAAACAAAATTTTGAAAATAT
TTAAGAAAAAACTAAAATATCAATTTTTCCTAAATTCTTTAAAAATAAAA
Found at i:6352950 original size:24 final size:24
Alignment explanation
Indices: 6352918--6352964 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
6352908 TACTAATAAA
6352918 TCATGTTTTCACTCTGTCAAGTGT
1 TCATGTTTTCACTCTGTCAAGTGT
*
6352942 TCATGTTTTCACTTTGTCAAGTG
1 TCATGTTTTCACTCTGTCAAGTG
6352965 AAGTAGGTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.17, C:0.19, G:0.17, T:0.47
Consensus pattern (24 bp):
TCATGTTTTCACTCTGTCAAGTGT
Found at i:6357307 original size:20 final size:20
Alignment explanation
Indices: 6357284--6357321 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6357274 AAAGTTGGAG
*
6357284 AAAGCTAGAAAAAAAAAGTC
1 AAAGCTAAAAAAAAAAAGTC
*
6357304 AAAGTTAAAAAAAAAAAG
1 AAAGCTAAAAAAAAAAAG
6357322 AAATAAAAGT
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:0.71, C:0.05, G:0.13, T:0.11
Consensus pattern (20 bp):
AAAGCTAAAAAAAAAAAGTC
Found at i:6362318 original size:13 final size:13
Alignment explanation
Indices: 6362300--6362335 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
6362290 TACTTTGCTT
6362300 AAAAAAAGAAAG-G
1 AAAAAAA-AAAGAG
6362313 AAAAAAAAAAGAG
1 AAAAAAAAAAGAG
6362326 AAAAAAAAAA
1 AAAAAAAAAA
6362336 ACCTAAGAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 4 0.18
13 18 0.82
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAGAG
Found at i:6362959 original size:26 final size:27
Alignment explanation
Indices: 6362926--6362979 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 27
6362916 TCCTTAAACT
6362926 TTAAAA-TTTT-TATCACATTGGTACC
1 TTAAAATTTTTCTATCACATTGGTACC
*
6362951 TTAAGAATTTTTCTATCATATTGGTACC
1 TTAA-AATTTTTCTATCACATTGGTACC
6362979 T
1 T
6362980 AAACTTTCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 4 0.16
26 2 0.08
27 4 0.16
28 15 0.60
ACGTcount: A:0.30, C:0.15, G:0.09, T:0.46
Consensus pattern (27 bp):
TTAAAATTTTTCTATCACATTGGTACC
Found at i:6363160 original size:28 final size:29
Alignment explanation
Indices: 6363127--6363188 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
6363117 TGTAAAAAAG
*
6363127 AAAAATTATAAAAAAATATTTTAAAAATT-
1 AAAATTTATAAAAAAAT-TTTTAAAAATTC
* *
6363156 AAAATTTTTTAAAAAATTTTTAAAAATTC
1 AAAATTTATAAAAAAATTTTTAAAAATTC
6363185 AAAA
1 AAAA
6363189 CAATTAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 11 0.38
29 18 0.62
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (29 bp):
AAAATTTATAAAAAAATTTTTAAAAATTC
Found at i:6363195 original size:28 final size:29
Alignment explanation
Indices: 6363137--6363204 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 29
6363127 AAAAATTATA
***
6363137 AAAAAATATTTTAAAAATTAAAATTTTTT
1 AAAAAATATTTTAAAAATTAAAATCAATT
6363166 AAAAAAT-TTTTAAAAATTCAAAA-CAATT
1 AAAAAATATTTTAAAAATT-AAAATCAATT
*
6363194 AAAAAAAATTT
1 AAAAAATATTT
6363205 AGAATTTTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 19 0.58
29 14 0.42
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (29 bp):
AAAAAATATTTTAAAAATTAAAATCAATT
Found at i:6363198 original size:29 final size:29
Alignment explanation
Indices: 6363135--6363204 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
6363125 AGAAAAATTA
***
6363135 TAAAAAAATATTTTAAAAATTAAAATTTT
1 TAAAAAAATATTTTAAAAATTAAAACAAT
*
6363164 TTAAAAAAT-TTTTAAAAATTCAAAACAAT
1 TAAAAAAATATTTTAAAAATT-AAAACAAT
6363193 TAAAAAAA-ATTT
1 TAAAAAAATATTT
6363205 AGAATTTTTC
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
28 11 0.32
29 23 0.68
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (29 bp):
TAAAAAAATATTTTAAAAATTAAAACAAT
Found at i:6363237 original size:9 final size:10
Alignment explanation
Indices: 6363215--6363250 Score: 54
Period size: 11 Copynumber: 3.4 Consensus size: 10
6363205 AGAATTTTTC
6363215 TTTTTAAAAT
1 TTTTTAAAAT
6363225 TTTTTAAAATT
1 TTTTTAAAA-T
6363236 TTTTTATAAAT
1 TTTTTA-AAAT
6363247 TTTT
1 TTTT
6363251 CTTTTTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 9 0.38
11 12 0.50
12 3 0.12
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (10 bp):
TTTTTAAAAT
Found at i:6363238 original size:11 final size:11
Alignment explanation
Indices: 6363215--6363250 Score: 56
Period size: 10 Copynumber: 3.3 Consensus size: 11
6363205 AGAATTTTTC
6363215 TTTTTAAAA-T
1 TTTTTAAAATT
6363225 TTTTTAAAATT
1 TTTTTAAAATT
6363236 TTTTTATAAATT
1 TTTTTA-AAATT
6363248 TTT
1 TTT
6363251 CTTTTTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 9 0.38
11 7 0.29
12 8 0.33
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
TTTTTAAAATT
Found at i:6364627 original size:6 final size:6
Alignment explanation
Indices: 6364608--6364639 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
6364598 TTAATTTTTT
6364608 TATTTA TAATTTA TATTTA TATTTA TATTTA T
1 TATTTA T-ATTTA TATTTA TATTTA TATTTA T
6364640 TTAATTGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
TATTTA
Found at i:6365889 original size:17 final size:17
Alignment explanation
Indices: 6365867--6365902 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
6365857 TGATGGATCA
6365867 AAAGGGAGATCTAAGTC
1 AAAGGGAGATCTAAGTC
6365884 AAAGGGAGATCTAAGTC
1 AAAGGGAGATCTAAGTC
6365901 AA
1 AA
6365903 GAGATAGAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.44, C:0.11, G:0.28, T:0.17
Consensus pattern (17 bp):
AAAGGGAGATCTAAGTC
Found at i:6368743 original size:62 final size:62
Alignment explanation
Indices: 6368677--6368812 Score: 168
Period size: 63 Copynumber: 2.2 Consensus size: 62
6368667 AAGTGAAGGT
* *
6368677 TATTATTTAAAGCATTGTTTTACCAAAAATAC-CTTAAATAA-TCTCCTTTAAAAAAAATTAGA
1 TATTATTTAAAACATTGTTTTA-CAAAAAAACACTTAAATAACTC-CCTTTAAAAAAAATTAGA
* * * *
6368739 TATTACTTAAAACATTTTTTTATAAAAAAACATTTTAAATAACTCCCTTTAAAAAAAATTAGA
1 TATTATTTAAAACATTGTTTTACAAAAAAACA-CTTAAATAACTCCCTTTAAAAAAAATTAGA
*
6368802 GATTATTTAAA
1 TATTATTTAAA
6368813 CGCCTTAAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
61 7 0.11
62 19 0.30
63 35 0.56
64 2 0.03
ACGTcount: A:0.47, C:0.11, G:0.04, T:0.38
Consensus pattern (62 bp):
TATTATTTAAAACATTGTTTTACAAAAAAACACTTAAATAACTCCCTTTAAAAAAAATTAGA
Found at i:6369256 original size:62 final size:61
Alignment explanation
Indices: 6369004--6369246 Score: 206
Period size: 62 Copynumber: 4.0 Consensus size: 61
6368994 ATTTTTGGTC
* ** * *
6369004 AAATAATCCCTTTTAAAAAAATATTAGAGATTATTTAAGGTATTTTTAGTCAAAAACGCCTT
1 AAATAATCTCTTTTAAAAAAATATTAGAGATTATTTAAGACATTTTTA-ACAAAAACACCTT
* * * * * * *
6369066 AAATAATCTCCTCT--AAAAATATTAGAGATTATGTAAAATATTTTTGACCAAAAACGCCTT
1 AAATAATCTCTTTTAAAAAAATATTAGAGATTATTTAAGACATTTTT-AACAAAAACACCTT
* * * * * * * **
6369126 AAATGATATC-TTTCAAACAAT-TGAAGAGTATTATTTAAGACATTTTTTACAAAAAAAATTTT
1 AAATAATCTCTTTTAAAAAAATAT-TAGAG-ATTATTTAAGACATTTTTAAC-AAAAACACCTT
*
6369188 AAATAATCTCTTTTAAAAAAATATTAGAGATTATTTAAGGCATTTTTGAACAAAAACAC
1 AAATAATCTCTTTTAAAAAAATATTAGAGATTATTTAAGACATTTTT-AACAAAAACAC
6369247 TTTTGATAAT
Statistics
Matches: 142, Mismatches: 30, Indels: 18
0.75 0.16 0.09
Matches are distributed among these distances:
59 2 0.01
60 49 0.35
61 11 0.08
62 64 0.45
63 15 0.11
64 1 0.01
ACGTcount: A:0.44, C:0.11, G:0.09, T:0.36
Consensus pattern (61 bp):
AAATAATCTCTTTTAAAAAAATATTAGAGATTATTTAAGACATTTTTAACAAAAACACCTT
Found at i:6372441 original size:28 final size:29
Alignment explanation
Indices: 6372391--6372452 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 29
6372381 TATGTGTTAT
6372391 CTTTTAATTTTGAAAAAAAAATTGTCTTA
1 CTTTTAATTTTGAAAAAAAAATTGTCTTA
** *
6372420 -TTTTAATATTT-AAAAATTAATTTTCTTA
1 CTTTTAAT-TTTGAAAAAAAAATTGTCTTA
6372448 CTTTT
1 CTTTT
6372453 CTTTATTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
28 21 0.75
29 7 0.25
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.53
Consensus pattern (29 bp):
CTTTTAATTTTGAAAAAAAAATTGTCTTA
Found at i:6373239 original size:3 final size:3
Alignment explanation
Indices: 6373231--6373359 Score: 149
Period size: 3 Copynumber: 43.7 Consensus size: 3
6373221 TCTAATTGAT
*
6373231 TTA TTA TTA TTA TTA TTA TTAA TT- TTT TTA -TA TT- TATA TT- TTA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA T-TA TTA TTA
6373274 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
** * * * *
6373322 TTA TTA TTA TCG TTG TTG TTG TTG TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
6373360 TTCAAACAAT
Statistics
Matches: 115, Mismatches: 5, Indels: 12
0.87 0.04 0.09
Matches are distributed among these distances:
2 7 0.06
3 104 0.90
4 4 0.03
ACGTcount: A:0.28, C:0.01, G:0.04, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:6373671 original size:7 final size:7
Alignment explanation
Indices: 6373659--6373711 Score: 70
Period size: 8 Copynumber: 7.1 Consensus size: 7
6373649 ATCATTTTTT
6373659 AAATTTA
1 AAATTTA
6373666 AAATTTA
1 AAATTTA
6373673 AAATTTTA
1 AAA-TTTA
6373681 AAATTTTA
1 AAA-TTTA
6373689 AAATTTTA
1 AAA-TTTA
*
6373697 AAATTTT
1 AAATTTA
6373704 AAATTTA
1 AAATTTA
6373711 A
1 A
6373712 TTTAATTTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
7 20 0.47
8 23 0.53
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
AAATTTA
Found at i:6373671 original size:16 final size:15
Alignment explanation
Indices: 6373662--6373709 Score: 78
Period size: 15 Copynumber: 3.1 Consensus size: 15
6373652 ATTTTTTAAA
6373662 TTTAAAATTTAAAAT
1 TTTAAAATTTAAAAT
6373677 TTTAAAATTTTAAAAT
1 TTTAAAA-TTTAAAAT
*
6373693 TTTAAAATTTTAAAT
1 TTTAAAATTTAAAAT
6373708 TT
1 TT
6373710 AATTTAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 16 0.52
16 15 0.48
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TTTAAAATTTAAAAT
Found at i:6373682 original size:8 final size:8
Alignment explanation
Indices: 6373662--6373706 Score: 83
Period size: 8 Copynumber: 5.8 Consensus size: 8
6373652 ATTTTTTAAA
6373662 TTTAAAA-
1 TTTAAAAT
6373669 TTTAAAAT
1 TTTAAAAT
6373677 TTTAAAAT
1 TTTAAAAT
6373685 TTTAAAAT
1 TTTAAAAT
6373693 TTTAAAAT
1 TTTAAAAT
6373701 TTTAAA
1 TTTAAA
6373707 TTTAATTTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 7 0.19
8 30 0.81
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (8 bp):
TTTAAAAT
Found at i:6374232 original size:27 final size:26
Alignment explanation
Indices: 6374199--6374276 Score: 84
Period size: 27 Copynumber: 2.9 Consensus size: 26
6374189 GTTCTTTCCT
** *
6374199 TTCTTTTTCCCCTCTTTTTTTTTTTA
1 TTCTTTTTTTCCTCTTTTTTTTTTCA
* *
6374225 TCTTTTTTTTTCTTCTTTTTTCTTTTCA
1 T-TCTTTTTTTCCTCTTTTTT-TTTTCA
*
6374253 TTCTTTTTTTCCTCTTTTCTTTTT
1 TTCTTTTTTTCCTCTTTTTTTTTT
6374277 GTCTAATGCT
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
26 5 0.12
27 31 0.74
28 6 0.14
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.77
Consensus pattern (26 bp):
TTCTTTTTTTCCTCTTTTTTTTTTCA
Found at i:6374250 original size:16 final size:15
Alignment explanation
Indices: 6374211--6374262 Score: 65
Period size: 13 Copynumber: 3.6 Consensus size: 15
6374201 CTTTTTCCCC
*
6374211 TCTTTTTTTTTTTA-
1 TCTTTTTTTTTTCAT
6374225 TC-TTTTTTTTTC-T
1 TCTTTTTTTTTTCAT
6374238 TCTTTTTTCTTTTCAT
1 TCTTTTTT-TTTTCAT
6374254 TCTTTTTTT
1 TCTTTTTTT
6374263 CCTCTTTTCT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
13 11 0.33
14 7 0.21
15 6 0.18
16 9 0.27
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.83
Consensus pattern (15 bp):
TCTTTTTTTTTTCAT
Found at i:6375915 original size:22 final size:22
Alignment explanation
Indices: 6375869--6375929 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
6375859 GTTTTGCCTA
* **
6375869 GAGGTCTTACAGA-TATACTTG
1 GAGGTCTTAGAGATTATGTTTG
*
6375890 GAGGTCTTAGAGGTTATGTTTG
1 GAGGTCTTAGAGATTATGTTTG
6375912 GAGGTCTTAGAGATTATG
1 GAGGTCTTAGAGATTATG
6375930 CTCAAAGGTC
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 11 0.32
22 23 0.68
ACGTcount: A:0.25, C:0.08, G:0.31, T:0.36
Consensus pattern (22 bp):
GAGGTCTTAGAGATTATGTTTG
Found at i:6376147 original size:126 final size:126
Alignment explanation
Indices: 6375915--6376535 Score: 706
Period size: 126 Copynumber: 4.9 Consensus size: 126
6375905 ATGTTTGGAG
* * * * * *
6375915 GTCTTAGAGATTATGCTCAAAGGTCTTATAAATCTCAACATCTTTAAATGCTTATCATATC-GAG
1 GTCTTAGAGATTATGCTTAGAGGTCTTACAAATCTCAACATCTTTGAATGCTCATCGTATCAGAG
* * * *
6375979 GCATTGAAACTTTGAAAATTTAAATTATTTTGCCTAGAGGTCTTGA-AGACTATACTCGAAA
66 GCATTGAAACTTTGAAAATTTAAAATGTTTTACCTAGAGGTCTT-ACAGATTATACTCGAAA
* * * *
6376040 GTCTTAGAGATTATGCTTGGAGGT-TCTACAAATCTCAAAATCTTTGAAAGCTCATCATATCAGA
1 GTCTTAGAGATTATGCTTAGAGGTCT-TACAAATCTCAACATCTTTGAATGCTCATCGTATCAGA
* * * * *
6376104 GGCATTGAAACTTTGAAAATTTAAAATATTTTACCTAGAGGTCTTATAGATTATGC-CTAGAG
65 GGCATTGAAACTTTGAAAATTTAAAATGTTTTACCTAGAGGTCTTACAGATTATACTCGA-AA
* * * * *
6376166 GTCTTAAAGATTATGTTTAGAGGTTTTACAAAAT-TCAACATCTTTGAATGCTCTTTGTATCA-A
1 GTCTTAGAGATTATGCTTAGAGGTCTTAC-AAATCTCAACATCTTTGAATGCTCATCGTATCAGA
* * * *
6376229 TGGCATTAAAACTTTGAAAATTTAAAATGTTTTA-CTTGAAGGTCTTAAAGATTATGA-TCGAAG
65 -GGCATTGAAACTTTGAAAATTTAAAATGTTTTACCTAG-AGGTCTTACAGATTAT-ACTCGAAA
*
6376292 GTCTTAGAGATTATGCTGA-AGGTCTTACAAATCTCAACATCTTTGAATGCTCATCGTATCAGAG
1 GTCTTAGAGATTATGCTTAGAGGTCTTACAAATCTCAACATCTTTGAATGCTCATCGTATCAGAG
* * * **
6376356 GCATTGAGACTTTGAAATTTTAAAATGTTTT-GCTCAGAGGTCTTACAGATTATGGTCGAAA
66 GCATTGAAACTTTGAAAATTTAAAATGTTTTACCT-AGAGGTCTTACAGATTATACTCGAAA
* * * * *
6376417 G-CTTTAGAGATTATGCCTAGAGGTCTTACCAATCTCAACACCTTTGAATGCTTATCGTATTAGA
1 GTC-TTAGAGATTATGCTTAGAGGTCTTACAAATCTCAACATCTTTGAATGCTCATCGTATCAGA
* * *
6376481 GGCATTGAAACTTTAAAAATTTAAAATGTTTTGCCTAGAGGTCTCACAGATTATA
65 GGCATTGAAACTTTGAAAATTTAAAATGTTTTACCTAGAGGTCTTACAGATTATA
6376536 GGTGCTAGCT
Statistics
Matches: 425, Mismatches: 53, Indels: 35
0.83 0.10 0.07
Matches are distributed among these distances:
124 6 0.01
125 158 0.37
126 252 0.59
127 9 0.02
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.35
Consensus pattern (126 bp):
GTCTTAGAGATTATGCTTAGAGGTCTTACAAATCTCAACATCTTTGAATGCTCATCGTATCAGAG
GCATTGAAACTTTGAAAATTTAAAATGTTTTACCTAGAGGTCTTACAGATTATACTCGAAA
Found at i:6376165 original size:22 final size:22
Alignment explanation
Indices: 6376137--6376189 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
6376127 AAATATTTTA
*
6376137 CCTAGAGGTCTTATAGATTATG
1 CCTAGAGGTCTTAAAGATTATG
6376159 CCTAGAGGTCTTAAAGATTATG
1 CCTAGAGGTCTTAAAGATTATG
**
6376181 TTTAGAGGT
1 CCTAGAGGT
6376190 TTTACAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.28, C:0.11, G:0.25, T:0.36
Consensus pattern (22 bp):
CCTAGAGGTCTTAAAGATTATG
Found at i:6376314 original size:21 final size:21
Alignment explanation
Indices: 6376265--6376318 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 21
6376255 ATGTTTTACT
6376265 TGAAGGTCTTAAAGATTATGA
1 TGAAGGTCTTAAAGATTATGA
* *
6376286 TCGAAGGTCTTAGAGATTATGC
1 T-GAAGGTCTTAAAGATTATGA
6376308 TGAAGGTCTTA
1 TGAAGGTCTTA
6376319 CAAATCTCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 11 0.37
22 19 0.63
ACGTcount: A:0.31, C:0.09, G:0.26, T:0.33
Consensus pattern (21 bp):
TGAAGGTCTTAAAGATTATGA
Found at i:6376336 original size:251 final size:252
Alignment explanation
Indices: 6375912--6376524 Score: 742
Period size: 251 Copynumber: 2.4 Consensus size: 252
6375902 GTTATGTTTG
* * * * *
6375912 GAGGTCTTAGAGATTATGCTCAAAGGTCTTA-TAAATCTCAACATCTTTAAATGCTTATCATATC
1 GAGGTCTTAGAGATTATGCTTAGAGGTCTTACAAAAT-TCAACATCTTTGAATGCTTATCGTATC
* * * * *
6375976 GAGGCATTGAAACTTTGAAAATTTAAATTATTTTGCCTAGAGGTCTTGAAGACTATACTCGAAAG
65 AAGGCATTGAAACTTTGAAAATTTAAAATGTTTTACCTAGAGGTCTTAAAGACTATACTCGAAAG
*
6376041 TCTTAGAGATTATGCTTGGAGGTTCTACAAATCTCAAAATCTTTGAAAGCTCATCATATCAGAGG
130 TCTTAGAGATTATGCTTGAAGGTTCTACAAATCTCAAAATCTTTGAAAGCTCATCATATCAGAGG
* *
6376106 CATTGAAACTTTGAAAATTTAAAATATTTTACCT-AGAGGTCTTATAGATTAT-GCCTA
195 CATTGAAACTTTGAAAATTTAAAATATTTT-CCTCAGAGGTCTTACAGATTATGGCCGA
* * * *
6376163 GAGGTCTTAAAGATTATGTTTAGAGGTTTTACAAAATTCAACATCTTTGAATGCTCT-TTGTATC
1 GAGGTCTTAGAGATTATGCTTAGAGGTCTTACAAAATTCAACATCTTTGAATGCT-TATCGTATC
* * *
6376227 AATGGCATTAAAACTTTGAAAATTTAAAATGTTTTA-CTTGAAGGTCTTAAAGATTATGA-TCGA
65 AA-GGCATTGAAACTTTGAAAATTTAAAATGTTTTACCTAG-AGGTCTTAAAGACTAT-ACTCGA
* * * *
6376290 AGGTCTTAGAGATTATGC-TGAAGG-TCTTACAAATCTCAACATCTTTGAATGCTCATCGTATCA
127 AAGTCTTAGAGATTATGCTTGAAGGTTC-TACAAATCTCAAAATCTTTGAAAGCTCATCATATCA
* * * * *
6376353 GAGGCATTGAGACTTTGAAATTTTAAAATGTTTTGCTCAGAGGTCTTACAGATTATGGTCGA
191 GAGGCATTGAAACTTTGAAAATTTAAAATATTTTCCTCAGAGGTCTTACAGATTATGGCCGA
* * * * * *
6376415 AAGCT-TTAGAGATTATGCCTAGAGGTCTTAC-CAATCTCAACACCTTTGAATGCTTATCGTATT
1 GAGGTCTTAGAGATTATGCTTAGAGGTCTTACAAAAT-TCAACATCTTTGAATGCTTATCGTATC
* *
6376478 AGAGGCATTGAAACTTTAAAAATTTAAAATGTTTTGCCTAGAGGTCT
65 A-AGGCATTGAAACTTTGAAAATTTAAAATGTTTTACCTAGAGGTCT
6376525 CACAGATTAT
Statistics
Matches: 307, Mismatches: 43, Indels: 24
0.82 0.11 0.06
Matches are distributed among these distances:
250 8 0.03
251 219 0.71
252 79 0.26
253 1 0.00
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.35
Consensus pattern (252 bp):
GAGGTCTTAGAGATTATGCTTAGAGGTCTTACAAAATTCAACATCTTTGAATGCTTATCGTATCA
AGGCATTGAAACTTTGAAAATTTAAAATGTTTTACCTAGAGGTCTTAAAGACTATACTCGAAAGT
CTTAGAGATTATGCTTGAAGGTTCTACAAATCTCAAAATCTTTGAAAGCTCATCATATCAGAGGC
ATTGAAACTTTGAAAATTTAAAATATTTTCCTCAGAGGTCTTACAGATTATGGCCGA
Found at i:6376594 original size:32 final size:32
Alignment explanation
Indices: 6376536--6376596 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
6376526 ACAGATTATA
*
6376536 GGTGCTAGCTAAATTGGCCTTAGTTTGATTTG
1 GGTGCTAGCTAAATAGGCCTTAGTTTGATTTG
*
6376568 GGTGCTAGCTAAACTAGG-CTTTGTTTGAT
1 GGTGCTAGCTAAA-TAGGCCTTAGTTTGAT
6376597 CTAGGCACTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
32 23 0.88
33 3 0.12
ACGTcount: A:0.20, C:0.13, G:0.28, T:0.39
Consensus pattern (32 bp):
GGTGCTAGCTAAATAGGCCTTAGTTTGATTTG
Found at i:6376642 original size:27 final size:26
Alignment explanation
Indices: 6376616--6376671 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 26
6376606 GGGTACTCTG
6376616 GGCTTAGATTAGGTGCTAGCTAATCT
1 GGCTTAGATTAGGTGCTAGCTAATCT
*
6376642 GG----GATTAGGTGTTAGCTAATCT
1 GGCTTAGATTAGGTGCTAGCTAATCT
6376664 AGGCTTAG
1 -GGCTTAG
6376672 GTGCCAACTA
Statistics
Matches: 24, Mismatches: 1, Indels: 9
0.71 0.03 0.26
Matches are distributed among these distances:
22 19 0.79
23 2 0.08
26 2 0.08
27 1 0.04
ACGTcount: A:0.23, C:0.12, G:0.30, T:0.34
Consensus pattern (26 bp):
GGCTTAGATTAGGTGCTAGCTAATCT
Found at i:6376650 original size:22 final size:22
Alignment explanation
Indices: 6376622--6376687 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
6376612 TCTGGGCTTA
6376622 GATTAGGTGCTAGCTAATCTGG
1 GATTAGGTGCTAGCTAATCTGG
* *
6376644 GATTAGGTGTTAGCTAATCTAG
1 GATTAGGTGCTAGCTAATCTGG
* * *
6376666 GCTTAGGTGCCAACTAATCTGG
1 GATTAGGTGCTAGCTAATCTGG
6376688 ACTTAAAGTT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.32
Consensus pattern (22 bp):
GATTAGGTGCTAGCTAATCTGG
Found at i:6376936 original size:20 final size:21
Alignment explanation
Indices: 6376913--6376955 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
6376903 CTTGTCAAAA
* *
6376913 TATTTTTTCTCTT-TTTTTTT
1 TATTTTCTCTCTTATCTTTTT
6376933 TA-TTTCTCTCTTATCTTTTT
1 TATTTTCTCTCTTATCTTTTT
6376953 TAT
1 TAT
6376956 GATAGACTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (21 bp):
TATTTTCTCTCTTATCTTTTT
Found at i:6377416 original size:26 final size:25
Alignment explanation
Indices: 6377360--6377418 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 25
6377350 ATACTTTTTG
* *
6377360 TATGATGCAAATGCAAATGTCTTTT
1 TATGATGCAAATGCAAATGCCTTGT
* *
6377385 TCATGATGCAAGTGCGAATGCCTTGGT
1 T-ATGATGCAAATGCAAATGCCTT-GT
6377412 TATGATG
1 TATGATG
6377419 TAGATGATGT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
25 1 0.04
26 25 0.89
27 2 0.07
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.36
Consensus pattern (25 bp):
TATGATGCAAATGCAAATGCCTTGT
Found at i:6378977 original size:10 final size:10
Alignment explanation
Indices: 6378959--6379013 Score: 51
Period size: 10 Copynumber: 5.3 Consensus size: 10
6378949 TCTTTCTTTC
*
6378959 TTTTCTCTAT
1 TTTTTTCTAT
6378969 TTTTTTCTAT
1 TTTTTTCTAT
6378979 TTTTTTGCT-T
1 TTTTTT-CTAT
6378989 TTTTTCTCTTAT
1 TTTTT-TC-TAT
6379001 TTTATTT-TAT
1 TTT-TTTCTAT
6379011 TTT
1 TTT
6379014 ATTTTTTTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
10 28 0.72
11 4 0.10
12 5 0.13
13 2 0.05
ACGTcount: A:0.09, C:0.11, G:0.02, T:0.78
Consensus pattern (10 bp):
TTTTTTCTAT
Found at i:6380026 original size:32 final size:32
Alignment explanation
Indices: 6379979--6380043 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
6379969 AGTATAAAGG
6379979 TATTAGATAAATAATCACCAATTACTTTGAGA
1 TATTAGATAAATAATCACCAATTACTTTGAGA
* * *
6380011 TATTAGATGAGTAATCACCAATTATTTTGAGA
1 TATTAGATAAATAATCACCAATTACTTTGAGA
6380043 T
1 T
6380044 TCTCGCCATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (32 bp):
TATTAGATAAATAATCACCAATTACTTTGAGA
Found at i:6380173 original size:15 final size:15
Alignment explanation
Indices: 6380155--6380193 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
6380145 TTGTGAATCA
6380155 TTTTTTTGTTTTATT
1 TTTTTTTGTTTTATT
*
6380170 TTTTATTTTTTTTATT
1 TTTT-TTTGTTTTATT
6380186 TTTATTTT
1 TTT-TTTT
6380194 TGCAAAGCAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 4 0.19
16 16 0.76
17 1 0.05
ACGTcount: A:0.10, C:0.00, G:0.03, T:0.87
Consensus pattern (15 bp):
TTTTTTTGTTTTATT
Found at i:6380184 original size:16 final size:15
Alignment explanation
Indices: 6380158--6380194 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 15
6380148 TGAATCATTT
6380158 TTTTGTTTTATTTTTTA
1 TTTT-TTTTA-TTTTTA
6380175 TTTTTTTTATTTTTA
1 TTTTTTTTATTTTTA
6380190 TTTTT
1 TTTTT
6380195 GCAAAGCACT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 11 0.55
16 5 0.25
17 4 0.20
ACGTcount: A:0.11, C:0.00, G:0.03, T:0.86
Consensus pattern (15 bp):
TTTTTTTTATTTTTA
Found at i:6384720 original size:33 final size:32
Alignment explanation
Indices: 6384649--6384722 Score: 84
Period size: 32 Copynumber: 2.4 Consensus size: 32
6384639 CAAAAGAAAG
6384649 TTTTC-TTT-TTCCTTTTTTTCAAAAAATGCT
1 TTTTCTTTTATTCCTTTTTTTCAAAAAATGCT
* *
6384679 TTCT-TTTTATTCCATTTTTTT-AAGAATATGCT
1 TTTTCTTTTATTCC-TTTTTTTCAA-AAAATGCT
6384711 TTTTCTTTTATT
1 TTTTCTTTTATT
6384723 ATCCATTTCT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
30 6 0.17
31 6 0.17
32 17 0.47
33 7 0.19
ACGTcount: A:0.19, C:0.14, G:0.04, T:0.64
Consensus pattern (32 bp):
TTTTCTTTTATTCCTTTTTTTCAAAAAATGCT
Found at i:6386548 original size:36 final size:34
Alignment explanation
Indices: 6386482--6386549 Score: 82
Period size: 36 Copynumber: 1.9 Consensus size: 34
6386472 TATATTATAA
* * *
6386482 ATCATACCAAATATCATGTAATAATATCATGCCT
1 ATCATACAAAATATCATGCAAGAATATCATGCCT
*
6386516 ATCATACTAAAATATTCATGCAAGAATGTCATGC
1 ATCATAC-AAAATA-TCATGCAAGAATATCATGC
6386550 AAATATATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 7 0.25
35 5 0.18
36 16 0.57
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (34 bp):
ATCATACAAAATATCATGCAAGAATATCATGCCT
Found at i:6386583 original size:17 final size:20
Alignment explanation
Indices: 6386544--6386652 Score: 87
Period size: 18 Copynumber: 5.8 Consensus size: 20
6386534 TGCAAGAATG
*
6386544 TCATGCAAATATATTAACTA
1 TCATGCAAATATATTAACAA
6386564 TCATGC-AATA-A-TAACAA
1 TCATGCAAATATATTAACAA
* *
6386581 TCATGTAAATATA-TAA-TA
1 TCATGCAAATATATTAACAA
6386599 TCATGCAAATATATT----A
1 TCATGCAAATATATTAACAA
6386615 TCATGCAAATA-ATATAA-AA
1 TCATGCAAATATAT-TAACAA
6386634 TACCATGCAAATATATTAA
1 T--CATGCAAATATATTAA
6386653 TAACTATTCA
Statistics
Matches: 75, Mismatches: 4, Indels: 19
0.77 0.04 0.19
Matches are distributed among these distances:
15 2 0.03
16 13 0.17
17 10 0.13
18 18 0.24
19 11 0.15
20 6 0.08
21 13 0.17
22 2 0.03
ACGTcount: A:0.50, C:0.13, G:0.06, T:0.32
Consensus pattern (20 bp):
TCATGCAAATATATTAACAA
Found at i:6386630 original size:35 final size:34
Alignment explanation
Indices: 6386544--6386651 Score: 110
Period size: 37 Copynumber: 3.0 Consensus size: 34
6386534 TGCAAGAATG
**
6386544 TCATGCAAATATATTAACTATCATGC-AATAATAACAA
1 TCATGCAAATATA-TAA-TATCATGCAAAT-AT-ATTA
*
6386581 TCATGTAAATATATAATATCATGCAAATATATTA
1 TCATGCAAATATATAATATCATGCAAATATATTA
*
6386615 TCATGCAAATAATATAAAATACCATGCAAATATATTA
1 TCATGCAAAT-ATAT--AATATCATGCAAATATATTA
6386652 ATAACTATTC
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
34 11 0.18
35 14 0.23
36 6 0.10
37 31 0.50
ACGTcount: A:0.49, C:0.13, G:0.06, T:0.32
Consensus pattern (34 bp):
TCATGCAAATATATAATATCATGCAAATATATTA
Found at i:6386646 original size:55 final size:54
Alignment explanation
Indices: 6386544--6386654 Score: 129
Period size: 55 Copynumber: 2.0 Consensus size: 54
6386534 TGCAAGAATG
* *
6386544 TCATGCAAATATATTAACTATCATGCAATAATAACAATCATGTAAATATA-TAATA
1 TCATGCAAATATATT-A-TATCATGCAATAATAAAAATCATGCAAATATATTAATA
6386599 TCATGCAAATATA-T-TATCATGCAAATAATATAAAATACCATGCAAATATATTAATA
1 TCATGCAAATATATTATATCATGC-AATAATA-AAAAT--CATGCAAATATATTAATA
6386655 ACTATTCATG
Statistics
Matches: 49, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
51 8 0.16
52 7 0.14
53 4 0.08
54 1 0.02
55 24 0.49
56 5 0.10
ACGTcount: A:0.50, C:0.13, G:0.05, T:0.32
Consensus pattern (54 bp):
TCATGCAAATATATTATATCATGCAATAATAAAAATCATGCAAATATATTAATA
Found at i:6386798 original size:24 final size:25
Alignment explanation
Indices: 6386759--6386806 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
6386749 ATAAAATTAA
*
6386759 TCATGCAATAACATATAACATCATG
1 TCATGCAATAACATATAAAATCATG
*
6386784 TCATGCTATAA-ATATAAAATCAT
1 TCATGCAATAACATATAAAATCAT
6386807 TCGATAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.46, C:0.17, G:0.06, T:0.31
Consensus pattern (25 bp):
TCATGCAATAACATATAAAATCATG
Found at i:6386970 original size:16 final size:16
Alignment explanation
Indices: 6386951--6387003 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
6386941 ATATGTAATT
6386951 AAATATATAATCATGC
1 AAATATATAATCATGC
* * * *
6386967 AAATAAATATGTAAT-T
1 AAATATATA-ATCATGC
6386983 AAATATATAATCATGC
1 AAATATATAATCATGC
6386999 AAATA
1 AAATA
6387004 GCAATATATT
Statistics
Matches: 27, Mismatches: 8, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
15 3 0.11
16 21 0.78
17 3 0.11
ACGTcount: A:0.55, C:0.08, G:0.06, T:0.32
Consensus pattern (16 bp):
AAATATATAATCATGC
Found at i:6386972 original size:32 final size:32
Alignment explanation
Indices: 6386931--6387003 Score: 146
Period size: 32 Copynumber: 2.3 Consensus size: 32
6386921 AATGTAAATT
6386931 ATGCAAATAAATATGTAATTAAATATATAATC
1 ATGCAAATAAATATGTAATTAAATATATAATC
6386963 ATGCAAATAAATATGTAATTAAATATATAATC
1 ATGCAAATAAATATGTAATTAAATATATAATC
6386995 ATGCAAATA
1 ATGCAAATA
6387004 GCAATATATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (32 bp):
ATGCAAATAAATATGTAATTAAATATATAATC
Found at i:6386973 original size:20 final size:20
Alignment explanation
Indices: 6386950--6387028 Score: 66
Period size: 23 Copynumber: 4.2 Consensus size: 20
6386940 AATATGTAAT
6386950 TAAATATATAATCATGCAAA
1 TAAATATATAATCATGCAAA
*
6386970 TAAATATGTAAT--T-----
1 TAAATATATAATCATGCAAA
6386983 -AAATATATAATCATGCAAA
1 TAAATATATAATCATGCAAA
6387002 TAGCAATATATTAATCATGCAAA
1 TA--AATATA-TAATCATGCAAA
6387025 TAAA
1 TAAA
6387029 CATGCAATTA
Statistics
Matches: 46, Mismatches: 2, Indels: 21
0.67 0.03 0.30
Matches are distributed among these distances:
12 10 0.22
14 1 0.02
18 1 0.02
20 12 0.26
21 2 0.04
22 6 0.13
23 14 0.30
ACGTcount: A:0.53, C:0.09, G:0.06, T:0.32
Consensus pattern (20 bp):
TAAATATATAATCATGCAAA
Found at i:6387009 original size:22 final size:23
Alignment explanation
Indices: 6386984--6387026 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
6386974 TATGTAATTA
6386984 AATATA-TAATCATGCAAATAGC
1 AATATATTAATCATGCAAATAGC
6387006 AATATATTAATCATGCAAATA
1 AATATATTAATCATGCAAATA
6387027 AACATGCAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.51, C:0.12, G:0.07, T:0.30
Consensus pattern (23 bp):
AATATATTAATCATGCAAATAGC
Found at i:6387049 original size:87 final size:85
Alignment explanation
Indices: 6386894--6387058 Score: 267
Period size: 87 Copynumber: 1.9 Consensus size: 85
6386884 ATAATCATAC
* * * *
6386894 AATTAAATATATAATCATGCAAATAACAATGTAAATTATGCAAATAAATATGTAATTAAATATAT
1 AATTAAATATATAATCATGCAAATAACAATATAAATCATGCAAATAAACATGCAATTAAATATAT
6386959 AATCATGCAAATAAATATGT
66 AATCATGCAAATAAATATGT
*
6386979 AATTAAATATATAATCATGCAAATAGCAATATATTAATCATGCAAATAAACATGCAATTAAATAT
1 AATTAAATATATAATCATGCAAATAACAATATA--AATCATGCAAATAAACATGCAATTAAATAT
6387044 ATAATCATGCAAATA
64 ATAATCATGCAAATA
6387059 TTAGTATATA
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
85 31 0.42
87 42 0.58
ACGTcount: A:0.53, C:0.09, G:0.07, T:0.32
Consensus pattern (85 bp):
AATTAAATATATAATCATGCAAATAACAATATAAATCATGCAAATAAACATGCAATTAAATATAT
AATCATGCAAATAAATATGT
Found at i:6387052 original size:20 final size:20
Alignment explanation
Indices: 6386979--6387055 Score: 62
Period size: 20 Copynumber: 4.1 Consensus size: 20
6386969 ATAAATATGT
6386979 AATTAAATATATAATCATGC
1 AATTAAATATATAATCATGC
*
6386999 AAATAGCAATATATTAATCATGC
1 AATTA--AATATA-TAATCATGC
6387022 -----AA-ATA-AA-CATGC
1 AATTAAATATATAATCATGC
6387034 AATTAAATATATAATCATGC
1 AATTAAATATATAATCATGC
6387054 AA
1 AA
6387056 ATATTAGTAT
Statistics
Matches: 45, Mismatches: 1, Indels: 22
0.66 0.01 0.32
Matches are distributed among these distances:
12 5 0.11
13 2 0.04
15 3 0.07
16 2 0.04
17 2 0.04
18 3 0.07
19 2 0.04
20 11 0.24
22 6 0.13
23 9 0.20
ACGTcount: A:0.52, C:0.12, G:0.06, T:0.30
Consensus pattern (20 bp):
AATTAAATATATAATCATGC
Found at i:6387067 original size:55 final size:56
Alignment explanation
Indices: 6386953--6387058 Score: 187
Period size: 55 Copynumber: 1.9 Consensus size: 56
6386943 ATGTAATTAA
* *
6386953 ATATATAATCATGCAAATAAATATGTAATTAAATATATAATCATGCAAATAGCAAT
1 ATATATAATCATGCAAATAAACATGCAATTAAATATATAATCATGCAAATAGCAAT
6387009 ATAT-TAATCATGCAAATAAACATGCAATTAAATATATAATCATGCAAATA
1 ATATATAATCATGCAAATAAACATGCAATTAAATATATAATCATGCAAATA
6387059 TTAGTATATA
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
55 44 0.92
56 4 0.08
ACGTcount: A:0.52, C:0.10, G:0.07, T:0.31
Consensus pattern (56 bp):
ATATATAATCATGCAAATAAACATGCAATTAAATATATAATCATGCAAATAGCAAT
Found at i:6388142 original size:17 final size:17
Alignment explanation
Indices: 6388122--6388168 Score: 67
Period size: 17 Copynumber: 2.7 Consensus size: 17
6388112 CAAAAAAATT
*
6388122 AAATTAAATTAAAATCA
1 AAATTAAACTAAAATCA
*
6388139 AAATTAGACTAAAATCA
1 AAATTAAACTAAAATCA
6388156 AAATTAAAACTAA
1 AAATT-AAACTAA
6388169 GATAGGATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 20 0.77
18 6 0.23
ACGTcount: A:0.64, C:0.09, G:0.02, T:0.26
Consensus pattern (17 bp):
AAATTAAACTAAAATCA
Found at i:6389709 original size:6 final size:6
Alignment explanation
Indices: 6389680--6389717 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
6389670 TCTTTCCTCA
6389680 TTTA-T TTTA-T TTTATT TATTATT TTTATT TTTATT TTT
1 TTTATT TTTATT TTTATT T-TTATT TTTATT TTTATT TTT
6389718 TTAAGCAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 9 0.29
6 16 0.52
7 6 0.19
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTATT
Found at i:6391887 original size:31 final size:31
Alignment explanation
Indices: 6391852--6391911 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
6391842 TTTTCCCATG
6391852 GAATTTTCATTCACTACTAGATACATATATA
1 GAATTTTCATTCACTACTAGATACATATATA
* *
6391883 GAATTTTCATTCATTGCTAGATACATATA
1 GAATTTTCATTCACTACTAGATACATATA
6391912 AAGGGTTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.37, C:0.15, G:0.08, T:0.40
Consensus pattern (31 bp):
GAATTTTCATTCACTACTAGATACATATATA
Done.