Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168049.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_30, 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: 11202444
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 44000 characters in sequence are not A, C, G, or T
File 25 of 64
Found at i:3713323 original size:38 final size:42
Alignment explanation
Indices: 3713281--3713358 Score: 110
Period size: 41 Copynumber: 1.9 Consensus size: 42
3713271 ATTTAAAAAG
3713281 AAAAT-AAT-TAGATAAATAATAATAT-TAA-CAGATAACTA
1 AAAATAAATATAGATAAATAATAATATATAATCAGATAACTA
*
3713319 AAAATAAATACTAGATAAATTATAATATATAATCAGATAA
1 AAAATAAATA-TAGATAAATAATAATATATAATCAGATAA
3713359 ATATATAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
38 5 0.15
39 3 0.09
41 16 0.47
42 3 0.09
43 7 0.21
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.29
Consensus pattern (42 bp):
AAAATAAATATAGATAAATAATAATATATAATCAGATAACTA
Found at i:3713468 original size:6 final size:6
Alignment explanation
Indices: 3713457--3713522 Score: 62
Period size: 6 Copynumber: 10.2 Consensus size: 6
3713447 AATACATAAG
*
3713457 ATAAAA ATAAAA GA-AAACA ATAAAA ATAATAA AAATAAA ATAAAA ATATAAA
1 ATAAAA ATAAAA -ATAAA-A ATAAAA ATAA-AA ATA-AAA ATAAAA ATA-AAA
3713509 ATACAAA ATAAAA A
1 ATA-AAA ATAAAA A
3713523 AAATGGGCTT
Statistics
Matches: 51, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
6 25 0.49
7 25 0.49
8 1 0.02
ACGTcount: A:0.79, C:0.03, G:0.02, T:0.17
Consensus pattern (6 bp):
ATAAAA
Found at i:3713470 original size:13 final size:12
Alignment explanation
Indices: 3713457--3713522 Score: 62
Period size: 13 Copynumber: 5.1 Consensus size: 12
3713447 AATACATAAG
3713457 ATAAAAATAAAA
1 ATAAAAATAAAA
3713469 GA-AAACAATAAAA
1 -ATAAA-AATAAAA
*
3713482 ATAATAAAAATAAA
1 ATAA-AAATA-AAA
3713496 ATAAAAATATAAA
1 ATAAAAATA-AAA
3713509 ATACAAAATAAAA
1 ATA-AAAATAAAA
3713522 A
1 A
3713523 AAATGGGCTT
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
12 4 0.09
13 28 0.61
14 14 0.30
ACGTcount: A:0.79, C:0.03, G:0.02, T:0.17
Consensus pattern (12 bp):
ATAAAAATAAAA
Found at i:3713507 original size:19 final size:19
Alignment explanation
Indices: 3713421--3713522 Score: 77
Period size: 20 Copynumber: 5.2 Consensus size: 19
3713411 TATATATATT
*
3713421 AAATAGTAATAAT-AAATAA
1 AAATA-TAAAAATAAAATAA
*
3713440 ATAA-ATAAATACATAAGATAA
1 A-AATATAAA-A-ATAAAATAA
3713461 AAATA-AAAGAA-AACAATAA
1 AAATATAAA-AATAA-AATAA
3713480 AAATAATAAAAATAAAATAA
1 AAAT-ATAAAAATAAAATAA
*
3713500 AAATATAAAATACAAAATAA
1 AAATATAAAA-ATAAAATAA
3713520 AAA
1 AAA
3713523 AAATGGGCTT
Statistics
Matches: 68, Mismatches: 5, Indels: 19
0.74 0.05 0.21
Matches are distributed among these distances:
18 5 0.07
19 18 0.26
20 33 0.49
21 12 0.18
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.20
Consensus pattern (19 bp):
AAATATAAAAATAAAATAA
Found at i:3713524 original size:28 final size:27
Alignment explanation
Indices: 3713428--3713524 Score: 83
Period size: 27 Copynumber: 3.6 Consensus size: 27
3713418 ATTAAATAGT
* * *
3713428 AATAATAAATAAATAAATAAATACATAA
1 AATAA-AAATAAAAAAATAAAAATATAA
* * *
3713456 GATAAAAATAAAAGAA-AACAATA-AA
1 AATAAAAATAAAAAAATAAAAATATAA
*
3713481 AATAATAAA-AATAAAATAAAAATATAA
1 AATAA-AAATAAAAAAATAAAAATATAA
3713508 AATACAAAATAAAAAAA
1 AATA-AAAATAAAAAAA
3713525 ATGGGCTTAC
Statistics
Matches: 53, Mismatches: 11, Indels: 10
0.72 0.15 0.14
Matches are distributed among these distances:
25 11 0.21
26 13 0.25
27 18 0.34
28 11 0.21
ACGTcount: A:0.76, C:0.03, G:0.02, T:0.19
Consensus pattern (27 bp):
AATAAAAATAAAAAAATAAAAATATAA
Found at i:3717422 original size:65 final size:64
Alignment explanation
Indices: 3717271--3717706 Score: 339
Period size: 66 Copynumber: 6.8 Consensus size: 64
3717261 CAAGAGCAAA
* *
3717271 TAAGGCATTCATATTAACAAACACCTTAATTGATCATAG-TTTATAAATTATAAAAAAAAGATTA
1 TAAGGCATTCATATTAACAAACGCCTTAATTGATCAT-GTTTTATAAATTA-AAAGAAAAG-TTA
3717335 AT
63 AT
* *
3717337 TAAGGCATTCATGA-TAACAAACGCATTAATTGATCTTGTTTTATAAATTAAAAGAAAAGATTAA
1 TAAGGCATTCAT-ATTAACAAACGCCTTAATTGATCATGTTTTATAAATTAAAAGAAAAG-TTAA
3717401 T
64 T
* ** * * * * * *** *
3717402 TAAGGCGTTCATATTAACAAACGTTTTAATTGATGATGTTTCATAAAAT-ATATACTTGTCAAT
1 TAAGGCATTCATATTAACAAACGCCTTAATTGATCATGTTTTATAAATTAAAAGAAAAGTTAAT
* * * * * *
3717465 TAAGGCGTTCTTGTTAACAAATGTCTTAATTGATCATGTTTTATAAATTATAAGAAATATGTTAA
1 TAAGGCATTCATATTAACAAACGCCTTAATTGATCATGTTTTATAAATTAAAAGAAA-A-GTTAA
3717530 T
64 T
* * * * ** * *
3717531 TAAGGCATTCATGTTAACAAACACCTTAATTGATGAT-TTTCTTTAAA--AATAA-AACTGTCAG
1 TAAGGCATTCATATTAACAAACGCCTTAATTGATCATGTTT-TATAAATTAA-AAGAAAAGTTAA
3717592 T
64 T
* * * ** * * * * *
3717593 TATGGCGTTCATGTTAACAAATACCTTATTTGATGATGTTTTATAAATTATAAA-ACATGTCAAT
1 TAAGGCATTCATATTAACAAACGCCTTAATTGATCATGTTTTATAAATTA-AAAGAAAAGTTAAT
* * *
3717657 TAAGGCATTCATATTAACTAATGCCTTAATTGATAATGTTTTATAAATTA
1 TAAGGCATTCATATTAACAAACGCCTTAATTGATCATGTTTTATAAATTA
3717707 TAAAACCTGT
Statistics
Matches: 300, Mismatches: 58, Indels: 26
0.78 0.15 0.07
Matches are distributed among these distances:
62 42 0.14
63 49 0.16
64 63 0.21
65 61 0.20
66 84 0.28
67 1 0.00
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.38
Consensus pattern (64 bp):
TAAGGCATTCATATTAACAAACGCCTTAATTGATCATGTTTTATAAATTAAAAGAAAAGTTAAT
Found at i:3717505 original size:128 final size:126
Alignment explanation
Indices: 3717271--3717723 Score: 457
Period size: 128 Copynumber: 3.5 Consensus size: 126
3717261 CAAGAGCAAA
* * * ** *
3717271 TAAGGCATTCATATTAACAAACACCTTAATTGATCATAGTTT-ATAAATTATAAAAAAAAGATTA
1 TAAGGCATTCATATTAACAAACGCCTTAATTGATGAT-GTTTCATAAA--ATATAAAACTG-TCA
* * * *
3717335 ATTAAGGCATTCATGATAACAAACGCATTAATTGATCTTGTTTTATAAATTAAAAGAAAAGATTA
62 ATTAAGGCGTTCATGTTAACAAATGC-TTAATTGATCATGTTTTATAAATTAAAAGAAAAG-TTA
3717400 AT
125 AT
* ** *
3717402 TAAGGCGTTCATATTAACAAACGTTTTAATTGATGATGTTTCATAAAATAT-ATACTTGTCAATT
1 TAAGGCATTCATATTAACAAACGCCTTAATTGATGATGTTTCATAAAATATAAAAC-TGTCAATT
* *
3717466 AAGGCGTTCTTGTTAACAAATGTCTTAATTGATCATGTTTTATAAATTATAAGAAATATGTTAAT
65 AAGGCGTTCATGTTAACAAATG-CTTAATTGATCATGTTTTATAAATTAAAAGAAA-A-GTTAAT
* * * *
3717531 TAAGGCATTCATGTTAACAAACACCTTAATTGATGAT-TTTCTTTAAAA-ATAAAACTGTCAGTT
1 TAAGGCATTCATATTAACAAACGCCTTAATTGATGATGTTTC-ATAAAATATAAAACTGTCAATT
* * * * * * *
3717594 ATGGCGTTCATGTTAACAAATACCTTATTTGATGATGTTTTATAAATTATAAA-ACATGTCAAT
65 AAGGCGTTCATGTTAACAAAT-GCTTAATTGATCATGTTTTATAAATTA-AAAGAAAAGTTAAT
* * * * *
3717657 TAAGGCATTCATATTAACTAATGCCTTAATTGATAATGTTTTATAAATTATAAAACCTGTCAATT
1 TAAGGCATTCATATTAACAAACGCCTTAATTGATGATGTTTCATAAAATATAAAA-CTGTCAATT
3717722 AA
65 AA
3717724 AATATTTGTT
Statistics
Matches: 267, Mismatches: 43, Indels: 27
0.79 0.13 0.08
Matches are distributed among these distances:
126 41 0.15
127 9 0.03
128 122 0.46
129 53 0.20
130 5 0.02
131 37 0.14
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.38
Consensus pattern (126 bp):
TAAGGCATTCATATTAACAAACGCCTTAATTGATGATGTTTCATAAAATATAAAACTGTCAATTA
AGGCGTTCATGTTAACAAATGCTTAATTGATCATGTTTTATAAATTAAAAGAAAAGTTAAT
Found at i:3718715 original size:11 final size:11
Alignment explanation
Indices: 3718699--3718732 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
3718689 GAAAAGAGAG
3718699 GAGAAAAAAAA
1 GAGAAAAAAAA
3718710 GAGAAAAAAAGA
1 GAGAAAAAAA-A
*
3718722 AAGAAAAAAAA
1 GAGAAAAAAAA
3718733 TCTTAGTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (11 bp):
GAGAAAAAAAA
Found at i:3719793 original size:6 final size:7
Alignment explanation
Indices: 3719764--3719824 Score: 51
Period size: 7 Copynumber: 9.4 Consensus size: 7
3719754 TAGACCATAT
3719764 ACCCTAA
1 ACCCTAA
3719771 ACCCTAA
1 ACCCTAA
*
3719778 AACCTAA
1 ACCCTAA
3719785 ACCCT-A
1 ACCCTAA
3719791 A-CC-AA
1 ACCCTAA
*
3719796 ACCCCAA
1 ACCCTAA
*
3719803 ACCCCAA
1 ACCCTAA
3719810 A--CTAA
1 ACCCTAA
*
3719815 ACCTTAA
1 ACCCTAA
3719822 ACC
1 ACC
3719825 GTAACTTAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
5 8 0.18
6 4 0.09
7 33 0.73
ACGTcount: A:0.46, C:0.43, G:0.00, T:0.11
Consensus pattern (7 bp):
ACCCTAA
Found at i:3720345 original size:11 final size:11
Alignment explanation
Indices: 3720329--3720353 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
3720319 AATTTTAAAC
3720329 ATTAAAATAGG
1 ATTAAAATAGG
3720340 ATTAAAATAGG
1 ATTAAAATAGG
3720351 ATT
1 ATT
3720354 GTTTTAACCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (11 bp):
ATTAAAATAGG
Found at i:3720948 original size:60 final size:62
Alignment explanation
Indices: 3720864--3720989 Score: 193
Period size: 60 Copynumber: 2.1 Consensus size: 62
3720854 TTAAAAAATG
* * * * *
3720864 AAAAGTGAAAAAATGTTTTTATTTTAATTTCCTTGTTTTC-AAAAAATA-AAAAAAATTGAA
1 AAAAATGAAAAAATGTTTTCATTTTAATTTCCTTATTTTCAAAAAAAAATAAAAAAATTCAA
3720924 AAAAATGAAAAAATGTTTTCATTTTAATTTCCTTATTTTCAAAAAAAAATAAAAAAATTCAA
1 AAAAATGAAAAAATGTTTTCATTTTAATTTCCTTATTTTCAAAAAAAAATAAAAAAATTCAA
3720986 AAAA
1 AAAA
3720990 TAAGTGTGTG
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
60 37 0.63
61 7 0.12
62 15 0.25
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.36
Consensus pattern (62 bp):
AAAAATGAAAAAATGTTTTCATTTTAATTTCCTTATTTTCAAAAAAAAATAAAAAAATTCAA
Found at i:3721047 original size:25 final size:25
Alignment explanation
Indices: 3721009--3721063 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
3720999 GTGAGTTTTA
*
3721009 CATTTCATGTATGTTTTAACTATGT
1 CATTTCATGCATGTTTTAACTATGT
*
3721034 CATTTCATGCATGTTTTAATTATGT
1 CATTTCATGCATGTTTTAACTATGT
3721059 CATTT
1 CATTT
3721064 ATTATATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.24, C:0.13, G:0.11, T:0.53
Consensus pattern (25 bp):
CATTTCATGCATGTTTTAACTATGT
Found at i:3722206 original size:37 final size:37
Alignment explanation
Indices: 3722130--3722218 Score: 99
Period size: 37 Copynumber: 2.4 Consensus size: 37
3722120 CATCTATATC
* *
3722130 AATAAATAGTACATGCATTCCATTTCATGCACATGTT
1 AATAAATAGTACATGCATTCCATCTCATGAACATGTT
* * *
3722167 AATAAATGGTACATGCATTCCATC-CTATTAACATTTT
1 AATAAATAGTACATGCATTCCATCTC-ATGAACATGTT
* *
3722204 AATAAGTAGCACATG
1 AATAAATAGTACATG
3722219 TACTCTACCT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
36 1 0.02
37 42 0.98
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.34
Consensus pattern (37 bp):
AATAAATAGTACATGCATTCCATCTCATGAACATGTT
Found at i:3726237 original size:16 final size:16
Alignment explanation
Indices: 3726215--3726246 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
3726205 ATTCAAACAA
3726215 AAAAAAAGAAAGAAAAG
1 AAAAAAA-AAAGAAAAG
3726232 AAAAAAAAAAGAAAA
1 AAAAAAAAAAGAAAA
3726247 AATGAATGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAGAAAAG
Found at i:3728118 original size:33 final size:32
Alignment explanation
Indices: 3728048--3728123 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 32
3728038 GTCCTCTTCA
* * *
3728048 ATGGTGATATCTGAAGTTTTTTTTTTTACTCG
1 ATGGTGATATCTGAAGTATTTGTTTTTACTAG
*
3728080 ATGGTGATATTTGAAGTCATTTGTTTTTACTTAG
1 ATGGTGATATCTGAAGT-ATTTGTTTTTAC-TAG
3728114 -TGGTGATATC
1 ATGGTGATATC
3728124 CGAGTCCCAT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
32 16 0.43
33 19 0.51
34 2 0.05
ACGTcount: A:0.21, C:0.08, G:0.21, T:0.50
Consensus pattern (32 bp):
ATGGTGATATCTGAAGTATTTGTTTTTACTAG
Found at i:3728179 original size:56 final size:56
Alignment explanation
Indices: 3728083--3728236 Score: 245
Period size: 56 Copynumber: 2.7 Consensus size: 56
3728073 TTACTCGATG
* * *
3728083 GTGATATTTGAAGTCATTTGTTTTTACTTAGTGGTGATATCCGAGTCCCATTCGGTA
1 GTGATATTTAAAGCCCTTTG-TTTTACTTAGTGGTGATATCCGAGTCCCATTCGGTA
*
3728140 GTGATATTTAAAGCCCTTTGTTTCACTTAGTGGTGATATCCGAGTCCCATTCGGTA
1 GTGATATTTAAAGCCCTTTGTTTTACTTAGTGGTGATATCCGAGTCCCATTCGGTA
* *
3728196 GTGATATTTAAAGCCCTTTGTTTTACTTGGTAGTGATATCC
1 GTGATATTTAAAGCCCTTTGTTTTACTTAGTGGTGATATCC
3728237 TAGTTCCCTT
Statistics
Matches: 90, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
56 73 0.81
57 17 0.19
ACGTcount: A:0.21, C:0.16, G:0.21, T:0.41
Consensus pattern (56 bp):
GTGATATTTAAAGCCCTTTGTTTTACTTAGTGGTGATATCCGAGTCCCATTCGGTA
Found at i:3728396 original size:23 final size:24
Alignment explanation
Indices: 3728361--3728412 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
3728351 GATATCTGAA
*
3728361 GATATATGTATCC-ATTTAGTGGT
1 GATATATGGATCCTATTTAGTGGT
* * *
3728384 GATATTTGGATCCTCTTTGGTGGT
1 GATATATGGATCCTATTTAGTGGT
3728408 GATAT
1 GATAT
3728413 CTGAAGTCAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 11 0.46
24 13 0.54
ACGTcount: A:0.21, C:0.10, G:0.25, T:0.44
Consensus pattern (24 bp):
GATATATGGATCCTATTTAGTGGT
Found at i:3732480 original size:14 final size:14
Alignment explanation
Indices: 3732461--3732504 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
3732451 AAATCCCATG
3732461 AAACCAAAACCTAA
1 AAACCAAAACCTAA
3732475 AAACCAAAACCCT-A
1 AAACCAAAA-CCTAA
*
3732489 AAACCTAAACCCTAA
1 AAACC-AAAACCTAA
3732504 A
1 A
3732505 CCAAATCCCT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 18 0.69
15 8 0.31
ACGTcount: A:0.59, C:0.32, G:0.00, T:0.09
Consensus pattern (14 bp):
AAACCAAAACCTAA
Found at i:3732505 original size:7 final size:7
Alignment explanation
Indices: 3732481--3732557 Score: 53
Period size: 7 Copynumber: 12.0 Consensus size: 7
3732471 CTAAAAACCA
3732481 AAACCCT
1 AAACCCT
*
3732488 AAAACCT
1 AAACCCT
3732495 AAACCCT
1 AAACCCT
3732502 AAA-CC-
1 AAACCCT
3732507 AAATCCCT
1 AAA-CCCT
*
3732515 -AACCCC
1 AAACCCT
3732521 AAA-CC-
1 AAACCCT
*
3732526 AAATCCT
1 AAACCCT
3732533 AAACCCT
1 AAACCCT
3732540 -AA-CCT
1 AAACCCT
*
3732545 AGACCCT
1 AAACCCT
3732552 -AACCCT
1 AAACCCT
3732558 TCCCAAACCC
Statistics
Matches: 56, Mismatches: 6, Indels: 17
0.71 0.08 0.22
Matches are distributed among these distances:
5 9 0.16
6 17 0.30
7 30 0.54
ACGTcount: A:0.43, C:0.42, G:0.01, T:0.14
Consensus pattern (7 bp):
AAACCCT
Found at i:3732537 original size:19 final size:20
Alignment explanation
Indices: 3732492--3732538 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
3732482 AACCCTAAAA
*
3732492 CCTAAACCCTAAACCAAATC
1 CCTAAACCCCAAACCAAATC
3732512 CCT-AACCCCAAACCAAAT-
1 CCTAAACCCCAAACCAAATC
3732530 CCTAAACCC
1 CCTAAACCC
3732539 TAACCTAGAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 3 0.12
19 19 0.76
20 3 0.12
ACGTcount: A:0.43, C:0.45, G:0.00, T:0.13
Consensus pattern (20 bp):
CCTAAACCCCAAACCAAATC
Found at i:3732545 original size:12 final size:12
Alignment explanation
Indices: 3732476--3732555 Score: 56
Period size: 12 Copynumber: 6.3 Consensus size: 12
3732466 AAAACCTAAA
*
3732476 AACCAAAACCCT
1 AACCTAAACCCT
3732488 AAAACCTAAACCCT
1 --AACCTAAACCCT
3732502 AAACC-AAATCCCT
1 -AACCTAAA-CCCT
* *
3732515 AACCCCAAA-CCA
1 AA-CCTAAACCCT
3732527 AATCCTAAACCCT
1 AA-CCTAAACCCT
*
3732540 AACCTAGACCCT
1 AACCTAAACCCT
3732552 AACC
1 AACC
3732556 CTTCCCAAAC
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
12 27 0.48
13 15 0.27
14 14 0.25
ACGTcount: A:0.45, C:0.41, G:0.01, T:0.12
Consensus pattern (12 bp):
AACCTAAACCCT
Found at i:3734815 original size:20 final size:20
Alignment explanation
Indices: 3734786--3735049 Score: 201
Period size: 20 Copynumber: 12.7 Consensus size: 20
3734776 GCATGTTTTA
*
3734786 TATATTTTTAATTGCATGAT
1 TATATATTTAATTGCATGAT
* ** **
3734806 TATATATTTATTTATAAAAT
1 TATATATTTAATTGCATGAT
3734826 TATATATGATTAATTGCATGAT
1 TATATAT--TTAATTGCATGAT
*
3734848 TATATATTGTTATTTGCATGAT
1 TATATA-T-TTAATTGCATGAT
* *
3734870 TATATATTTATTTTGCAAGAT
1 TATATATTTA-ATTGCATGAT
*
3734891 TATATATTATTAATTACATGAT
1 TATATA-T-TTAATTGCATGAT
*
3734913 TATACATTTAATTGCATGAT
1 TATATATTTAATTGCATGAT
3734933 T-TATATTGTTAATTGCATGAT
1 TATATA-T-TTAATTGCATGAT
* *
3734954 TATGTATTTATTTGCATGAT
1 TATATATTTAATTGCATGAT
* *
3734974 T-TATATTGTTAGTTACATGAT
1 TATATA-T-TTAATTGCATGAT
*
3734995 TAGATATTTAATTGCATG-T
1 TATATATTTAATTGCATGAT
* * **
3735014 TTTACATTATTAATTGTGTGAT
1 TATATA-T-TTAATTGCATGAT
*
3735036 TATATTTTTAATTG
1 TATATATTTAATTG
3735050 TATGTCTATT
Statistics
Matches: 193, Mismatches: 36, Indels: 30
0.75 0.14 0.12
Matches are distributed among these distances:
19 10 0.05
20 69 0.36
21 55 0.28
22 55 0.28
23 4 0.02
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.52
Consensus pattern (20 bp):
TATATATTTAATTGCATGAT
Found at i:3734952 original size:41 final size:41
Alignment explanation
Indices: 3734824--3735049 Score: 254
Period size: 41 Copynumber: 5.4 Consensus size: 41
3734814 TATTTATAAA
*
3734824 ATTATATATGATTAATTGCATGATTATATATTGTTATTTGCATG
1 ATTATATAT--TTAATTGCATGATT-TATATTGTTAATTGCATG
* * * *
3734868 ATTATATATTTATTTTGCAAGATTATATATTATTAATTACATG
1 ATTATATATTTA-ATTGCATGATT-TATATTGTTAATTGCATG
*
3734911 ATTATACATTTAATTGCATGATTTATATTGTTAATTGCATG
1 ATTATATATTTAATTGCATGATTTATATTGTTAATTGCATG
* * * *
3734952 ATTATGTATTTATTTGCATGATTTATATTGTTAGTTACATG
1 ATTATATATTTAATTGCATGATTTATATTGTTAATTGCATG
* * * * **
3734993 ATTAGATATTTAATTGCATGTTTTACATTATTAATTGTGTG
1 ATTATATATTTAATTGCATGATTTATATTGTTAATTGCATG
*
3735034 ATTATATTTTTAATTG
1 ATTATATATTTAATTG
3735050 TATGTCTATT
Statistics
Matches: 154, Mismatches: 27, Indels: 5
0.83 0.15 0.03
Matches are distributed among these distances:
41 97 0.63
42 12 0.08
43 36 0.23
44 9 0.06
ACGTcount: A:0.31, C:0.05, G:0.12, T:0.52
Consensus pattern (41 bp):
ATTATATATTTAATTGCATGATTTATATTGTTAATTGCATG
Found at i:3735155 original size:25 final size:26
Alignment explanation
Indices: 3735059--3735156 Score: 75
Period size: 28 Copynumber: 3.8 Consensus size: 26
3735049 GTATGTCTAT
3735059 TTGCATGATTATTA-ATTTATTTATT-
1 TTGCATGATTATTATATTTA-TTATTA
* *
3735084 TGTG--TGATT-GTATAATTATTATTA
1 T-TGCATGATTATTATATTTATTATTA
*
3735108 TTGCATGGTTATT-TATTCATTATTATTA
1 TTGCATGATTATTATA-T--TTATTATTA
3735136 TTGCATGATT-TTATATTTATT
1 TTGCATGATTATTATATTTATT
3735157 GCATAATATG
Statistics
Matches: 57, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
23 9 0.16
24 10 0.18
25 12 0.21
26 3 0.05
27 3 0.05
28 20 0.35
ACGTcount: A:0.27, C:0.04, G:0.11, T:0.58
Consensus pattern (26 bp):
TTGCATGATTATTATATTTATTATTA
Found at i:3735170 original size:19 final size:19
Alignment explanation
Indices: 3735133--3735176 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
3735123 TTCATTATTA
* * *
3735133 TTATTGCATGATTTTATAT
1 TTATTGCATAATATGATAT
3735152 TTATTGCATAATATGATAT
1 TTATTGCATAATATGATAT
3735171 TATATT
1 T-TATT
3735177 AATTTTCAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.32, C:0.05, G:0.09, T:0.55
Consensus pattern (19 bp):
TTATTGCATAATATGATAT
Found at i:3735336 original size:25 final size:20
Alignment explanation
Indices: 3735286--3735343 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
3735276 GATTATATAT
3735286 TTGCATGGTATTTTATATTG
1 TTGCATGGTATTTTATATTG
3735306 TTGCATGGTATTTTATATTG
1 TTGCATGGTATTTTATATTG
* *
3735326 TTTCATGGCATTTTATAT
1 TTGCATGGTATTTTATAT
3735344 ATTTATAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.21, C:0.07, G:0.17, T:0.55
Consensus pattern (20 bp):
TTGCATGGTATTTTATATTG
Found at i:3735379 original size:8 final size:8
Alignment explanation
Indices: 3735378--3735438 Score: 61
Period size: 8 Copynumber: 7.6 Consensus size: 8
3735368 TTATATGATT
3735378 ATTATATG
1 ATTATATG
*
3735386 ATTATTATT
1 ATTA-TATG
3735395 ATTATATG
1 ATTATATG
3735403 ATTATATG
1 ATTATATG
*
3735411 ATTATA-A
1 ATTATATG
*
3735418 AATATATG
1 ATTATATG
* *
3735426 TTTATATT
1 ATTATATG
3735434 ATTAT
1 ATTAT
3735439 TATTATTATT
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
7 5 0.12
8 30 0.71
9 7 0.17
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (8 bp):
ATTATATG
Found at i:3735392 original size:3 final size:3
Alignment explanation
Indices: 3735375--3735484 Score: 97
Period size: 3 Copynumber: 38.0 Consensus size: 3
3735365 TATTTATATG
* * * **
3735375 ATT ATT A-T ATG ATT ATT ATT ATT A-T ATG ATT A-T ATG ATT A-T AAA
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
3735419 ATAT ATGT -TT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 AT-T AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
3735464 ATT ACT ACT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT
3735485 GCATAATTAT
Statistics
Matches: 88, Mismatches: 12, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
2 11 0.12
3 74 0.84
4 3 0.03
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:3735503 original size:18 final size:17
Alignment explanation
Indices: 3735473--3735506 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
3735463 TATTACTACT
*
3735473 ATTATTATTATTGCATA
1 ATTATTATAATTGCATA
3735490 ATTATGTATAATTGCAT
1 ATTAT-TATAATTGCAT
3735507 GAATGATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.35, C:0.06, G:0.09, T:0.50
Consensus pattern (17 bp):
ATTATTATAATTGCATA
Found at i:3738762 original size:37 final size:38
Alignment explanation
Indices: 3738720--3738795 Score: 100
Period size: 38 Copynumber: 2.0 Consensus size: 38
3738710 TAATTAATGC
* * *
3738720 ATGGCAAAAC-CCCCCTCAATTTGTGGATCTTAATCCA
1 ATGGCAAAACTCCCCCTCAATTTATGCATCCTAATCCA
* *
3738757 ATGGCAAAACTCCCCTTCATTTTATGCATCCTAATCCA
1 ATGGCAAAACTCCCCCTCAATTTATGCATCCTAATCCA
3738795 A
1 A
3738796 CACAACTCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
37 10 0.30
38 23 0.70
ACGTcount: A:0.30, C:0.30, G:0.11, T:0.29
Consensus pattern (38 bp):
ATGGCAAAACTCCCCCTCAATTTATGCATCCTAATCCA
Found at i:3739444 original size:16 final size:16
Alignment explanation
Indices: 3739410--3739444 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
3739400 ATATAAGCTC
**
3739410 ATACTAATTGTTATGG
1 ATACTAATTGTTAAAG
3739426 ATACTAATTGTTAAAG
1 ATACTAATTGTTAAAG
3739442 ATA
1 ATA
3739445 TGTCATCAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.40, C:0.06, G:0.14, T:0.40
Consensus pattern (16 bp):
ATACTAATTGTTAAAG
Found at i:3743862 original size:71 final size:71
Alignment explanation
Indices: 3743746--3743903 Score: 239
Period size: 71 Copynumber: 2.2 Consensus size: 71
3743736 TTTCACCTAG
3743746 CTTCCATGAGGGGATCTATTGGTTCATATTTTGAACCAATTTTCCTTTGAAAATCACAATCC-GA
1 CTTCCATGAGGGGATCTATTGGTTCATATTTTGAACCAATTTTCCTTTGAAAATCACAA-CCTGA
3743810 TCGATCC
65 TCGATCC
* * *
3743817 CTTCCATGAGGGGAT-TGATTGGTTCATGTTTTGAACTAATTTTCCTTTGAAAATCACAACCTTA
1 CTTCCATGAGGGGATCT-ATTGGTTCATATTTTGAACCAATTTTCCTTTGAAAATCACAACCTGA
3743881 TCGATCC
65 TCGATCC
* *
3743888 CTTCCATTATGGGATC
1 CTTCCATGAGGGGATC
3743904 GATCCTGTCA
Statistics
Matches: 79, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
70 3 0.04
71 76 0.96
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (71 bp):
CTTCCATGAGGGGATCTATTGGTTCATATTTTGAACCAATTTTCCTTTGAAAATCACAACCTGAT
CGATCC
Found at i:3744824 original size:26 final size:26
Alignment explanation
Indices: 3744757--3744825 Score: 93
Period size: 26 Copynumber: 2.7 Consensus size: 26
3744747 ATACTCAAGA
* * ** *
3744757 TCTTTGGTTGAAATTAGTGGCAGAGC
1 TCTTTGGTTGGAATTGGAAGCAAAGC
3744783 TCTTTGGTTGGAATTGGAAGCAAAGC
1 TCTTTGGTTGGAATTGGAAGCAAAGC
3744809 TCTTTGGTTGGAATTGG
1 TCTTTGGTTGGAATTGG
3744826 TGACTATCTA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.22, C:0.10, G:0.32, T:0.36
Consensus pattern (26 bp):
TCTTTGGTTGGAATTGGAAGCAAAGC
Found at i:3745186 original size:100 final size:100
Alignment explanation
Indices: 3745059--3745366 Score: 352
Period size: 104 Copynumber: 3.0 Consensus size: 100
3745049 TCATAATAAA
* * * *
3745059 TTTTTTGAAAAATTAATAATAAAATTTTCAATCCTATCAAACTATTGGAGGATTTAAATCTTGAA
1 TTTTTTTAAAAAATAATAATAAAATTTTTAATCCTACCAAACTATTGGAGGATTTAAATCTTGAA
* *
3745124 TTAAGTTTTACCGAACTATTGAGGACTTAA-GAAAT
66 TTAAGTTTTACCAAACTATTGAAGACTTAATG-AAT
* *
3745159 TTTTTTTTAAAAATAGTAATAAAATTTTTAATCCTACCAAACTATTGGAGGATTTAAATCTTGAA
1 TTTTTTTAAAAAATAATAATAAAATTTTTAATCCTACCAAACTATTGGAGGATTTAAATCTTGAA
* *
3745224 TTAAGTTTTATCAAAATATTGGAAGACTTAATGAAT
66 TTAAGTTTTACCAAACTATT-GAAGACTTAATGAAT
** * * * ** *
3745260 TTTTCATAAAAAAAAATAATAATAAAATTTTTGATCTTACCAAATTATTTAAGGATTTAAATATT
1 TTTT--T-TTAAAAAATAATAATAAAATTTTTAATCCTACCAAACTATTGGAGGATTTAAATCTT
*
3745325 GAATT-AGATTTTACCAAACTATTGGAATG-TTTAATGAAT
63 GAATTAAG-TTTTACCAAACTATT-GAA-GACTTAATGAAT
3745364 TTT
1 TTT
3745367 CTTAAAATAA
Statistics
Matches: 178, Mismatches: 23, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
100 76 0.43
101 16 0.09
102 1 0.01
103 3 0.02
104 81 0.46
105 1 0.01
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.40
Consensus pattern (100 bp):
TTTTTTTAAAAAATAATAATAAAATTTTTAATCCTACCAAACTATTGGAGGATTTAAATCTTGAA
TTAAGTTTTACCAAACTATTGAAGACTTAATGAAT
Found at i:3745621 original size:16 final size:17
Alignment explanation
Indices: 3745584--3745622 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
3745574 ACTACCAAAC
*
3745584 TATTTGAGTAATTTAAT
1 TATTTGAGTAATTAAAT
3745601 T-TTTGA-TAATTAAAT
1 TATTTGAGTAATTAAAT
3745616 TATTTGA
1 TATTTGA
3745623 CAAATTATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 9 0.45
16 10 0.50
17 1 0.05
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.54
Consensus pattern (17 bp):
TATTTGAGTAATTAAAT
Found at i:3746888 original size:116 final size:116
Alignment explanation
Indices: 3746727--3746958 Score: 331
Period size: 116 Copynumber: 2.0 Consensus size: 116
3746717 CCTTCACAGC
*
3746727 ACCCATCCAAAAGATAGCACCAATTTGATTTCAAATTATCCAAACCTTAAAATATCTTTAAAATT
1 ACCCATCCAAAAGATAGCACCAATTTGATTTCAAATTATCAAAACCTTAAAATATCTTTAAAATT
*
3746792 TACCAAATAATTTAACTATTG-AAATTTTCCCTTAAATTACTCCAATATGTT
66 TACCAAATAATTTAACTATTGAAAATTTTCCC-TAAACTACTCCAATATGTT
* * * * *
3746843 ACCCATCCAAAGGATAGTACTAGTTTGATTTTAAATTATCAAAACCTTAAAATATCTTTAAAATT
1 ACCCATCCAAAAGATAGCACCAATTTGATTTCAAATTATCAAAACCTTAAAATATCTTTAAAATT
* * * * * *
3746908 TACTAAGTAATTTAATTATTGAAAATTTTTCCTACACTATTCCAATATGTT
66 TACCAAATAATTTAACTATTGAAAATTTTCCCTAAACTACTCCAATATGTT
3746959 TGTAATGATT
Statistics
Matches: 102, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
116 93 0.91
117 9 0.09
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.38
Consensus pattern (116 bp):
ACCCATCCAAAAGATAGCACCAATTTGATTTCAAATTATCAAAACCTTAAAATATCTTTAAAATT
TACCAAATAATTTAACTATTGAAAATTTTCCCTAAACTACTCCAATATGTT
Found at i:3747393 original size:25 final size:24
Alignment explanation
Indices: 3747365--3747415 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
3747355 TTTTTGGAAA
* *
3747365 AAGAAAGAAATCAATTGAAATAAAT
1 AAGAAAGAAATAAAAT-AAATAAAT
*
3747390 AAGATAGAAATAAAATAAATAAAT
1 AAGAAAGAAATAAAATAAATAAAT
3747414 AA
1 AA
3747416 ATAAATACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 10 0.43
25 13 0.57
ACGTcount: A:0.69, C:0.02, G:0.10, T:0.20
Consensus pattern (24 bp):
AAGAAAGAAATAAAATAAATAAAT
Found at i:3749033 original size:17 final size:18
Alignment explanation
Indices: 3748997--3749038 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
3748987 AGTTTTACAA
* *
3748997 AAAATTCATAAAAATTTC
1 AAAATTCACAAAAATGTC
3749015 AAAATTCACAAAAA-GTC
1 AAAATTCACAAAAATGTC
*
3749032 AAGATTC
1 AAAATTC
3749039 GTAAAGGTCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.55, C:0.14, G:0.05, T:0.26
Consensus pattern (18 bp):
AAAATTCACAAAAATGTC
Found at i:3749318 original size:18 final size:18
Alignment explanation
Indices: 3749266--3749318 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 18
3749256 CCATATATGA
*
3749266 AAAGATTTCAAGTATCAC
1 AAAGATTTCAAGTTTCAC
* *
3749284 AAAG-GTT-AAGATTCAC
1 AAAGATTTCAAGTTTCAC
3749300 AAAGATTTCAAGTTTCAC
1 AAAGATTTCAAGTTTCAC
3749318 A
1 A
3749319 TACCTCTTTC
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
16 11 0.39
17 4 0.14
18 13 0.46
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.28
Consensus pattern (18 bp):
AAAGATTTCAAGTTTCAC
Found at i:3749356 original size:17 final size:17
Alignment explanation
Indices: 3749331--3749385 Score: 67
Period size: 17 Copynumber: 3.3 Consensus size: 17
3749321 CCTCTTTCAA
*
3749331 ATTCGCAAGAATAAAAG
1 ATTCACAAGAATAAAAG
**
3749348 ATTCACAAGAAT-TTAG
1 ATTCACAAGAATAAAAG
*
3749364 AATCACAAGAATAAAAG
1 ATTCACAAGAATAAAAG
3749381 ATTCA
1 ATTCA
3749386 TAAGGTTTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
16 13 0.43
17 17 0.57
ACGTcount: A:0.53, C:0.13, G:0.13, T:0.22
Consensus pattern (17 bp):
ATTCACAAGAATAAAAG
Found at i:3749374 original size:33 final size:34
Alignment explanation
Indices: 3749329--3749413 Score: 111
Period size: 33 Copynumber: 2.5 Consensus size: 34
3749319 TACCTCTTTC
*
3749329 AAATTCGCAAGAATAAAAGATTCACAA-GAATTT
1 AAATTCACAAGAATAAAAGATTCACAAGGAATTT
* **
3749362 AGAA-TCACAAGAATAAAAGATTCATAAGGTTTTT
1 A-AATTCACAAGAATAAAAGATTCACAAGGAATTT
3749396 AAATTCACAAGAATAAAA
1 AAATTCACAAGAATAAAA
3749414 AATTTGTAAG
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
33 24 0.53
34 21 0.47
ACGTcount: A:0.53, C:0.11, G:0.12, T:0.25
Consensus pattern (34 bp):
AAATTCACAAGAATAAAAGATTCACAAGGAATTT
Found at i:3749409 original size:34 final size:34
Alignment explanation
Indices: 3749329--3749435 Score: 119
Period size: 34 Copynumber: 3.2 Consensus size: 34
3749319 TACCTCTTTC
* * **
3749329 AAATTCGCAAGAATAAAAGATTCACAA-GAATTT
1 AAATTCACAAGAATAAAAGATTCATAAGGTTTTT
3749362 AGAA-TCACAAGAATAAAAGATTCATAAGGTTTTT
1 A-AATTCACAAGAATAAAAGATTCATAAGGTTTTT
* **
3749396 AAATTCACAAGAATAAAAAATTTGTAAGGTTTTT
1 AAATTCACAAGAATAAAAGATTCATAAGGTTTTT
*
3749430 AGATTC
1 AAATTC
3749436 GTAAGAATTT
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
33 24 0.38
34 39 0.62
ACGTcount: A:0.48, C:0.09, G:0.13, T:0.30
Consensus pattern (34 bp):
AAATTCACAAGAATAAAAGATTCATAAGGTTTTT
Found at i:3749416 original size:17 final size:17
Alignment explanation
Indices: 3749329--3749417 Score: 63
Period size: 17 Copynumber: 5.3 Consensus size: 17
3749319 TACCTCTTTC
*
3749329 AAATTCGCAAGAATAAA
1 AAATTCACAAGAATAAA
* **
3749346 AGATTCACAAGAATTTA
1 AAATTCACAAGAATAAA
*
3749363 GAA-TCACAAGAATAAA
1 AAATTCACAAGAATAAA
* * ** ***
3749379 AGATTCATAAGGTTTTT
1 AAATTCACAAGAATAAA
3749396 AAATTCACAAGAATAAA
1 AAATTCACAAGAATAAA
3749413 AAATT
1 AAATT
3749418 TGTAAGGTTT
Statistics
Matches: 48, Mismatches: 23, Indels: 2
0.66 0.32 0.03
Matches are distributed among these distances:
16 12 0.25
17 36 0.75
ACGTcount: A:0.53, C:0.10, G:0.11, T:0.26
Consensus pattern (17 bp):
AAATTCACAAGAATAAA
Found at i:3749472 original size:17 final size:17
Alignment explanation
Indices: 3749432--3749474 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
3749422 AGGTTTTTAG
*
3749432 ATTCGTAAG-AATTTAA
1 ATTCGTAAGAAATTCAA
* *
3749448 ATTTGTAAGAAATTCAT
1 ATTCGTAAGAAATTCAA
3749465 ATTCGTAAGA
1 ATTCGTAAGA
3749475 TTAACAAACT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.42, C:0.07, G:0.14, T:0.37
Consensus pattern (17 bp):
ATTCGTAAGAAATTCAA
Found at i:3755786 original size:23 final size:22
Alignment explanation
Indices: 3755735--3755784 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
3755725 TTTTAATGAG
3755735 ACTTTTGACCTTTTTTTTGTTT
1 ACTTTTGACCTTTTTTTTGTTT
* *
3755757 ACTTTTGGCCTTTTTTTTTTTT
1 ACTTTTGACCTTTTTTTTGTTT
3755779 ACTTTT
1 ACTTTT
3755785 TGAAAAAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.08, C:0.14, G:0.08, T:0.70
Consensus pattern (22 bp):
ACTTTTGACCTTTTTTTTGTTT
Found at i:3756860 original size:26 final size:26
Alignment explanation
Indices: 3756830--3756891 Score: 124
Period size: 26 Copynumber: 2.4 Consensus size: 26
3756820 CCTTTTCCAA
3756830 TAAAATTTTTGACAATTTTAATTAAT
1 TAAAATTTTTGACAATTTTAATTAAT
3756856 TAAAATTTTTGACAATTTTAATTAAT
1 TAAAATTTTTGACAATTTTAATTAAT
3756882 TAAAATTTTT
1 TAAAATTTTT
3756892 TGTTATCTGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (26 bp):
TAAAATTTTTGACAATTTTAATTAAT
Found at i:3761019 original size:37 final size:37
Alignment explanation
Indices: 3760926--3761023 Score: 142
Period size: 37 Copynumber: 2.6 Consensus size: 37
3760916 ACTTCAGTTA
* * *
3760926 AACATGAATATTAATACAGTAATAATAAAGTTGGTGT
1 AACATGAATATCAATATAGTAATAATAAAGTTGGTAT
* *
3760963 AACATGAATATGAATATAGTAATAATGAAGTTGGTAT
1 AACATGAATATCAATATAGTAATAATAAAGTTGGTAT
*
3761000 AACATGAATATCAACATAGTAATA
1 AACATGAATATCAATATAGTAATA
3761024 TTGACAAATT
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 55 1.00
ACGTcount: A:0.48, C:0.06, G:0.15, T:0.31
Consensus pattern (37 bp):
AACATGAATATCAATATAGTAATAATAAAGTTGGTAT
Found at i:3766708 original size:50 final size:51
Alignment explanation
Indices: 3766643--3766744 Score: 134
Period size: 50 Copynumber: 2.0 Consensus size: 51
3766633 TAGACAGTGA
* *
3766643 TATAATAAATATAATACAGAAATATTGAAAGAAAGTATAGATTAAA-TAAT
1 TATAATAAATATAATACAGAAATATTGAAAGAAAATAAAGATTAAATTAAT
* ** * *
3766693 TATAATAAATGTAATAGTGAAGTATTGAAAGAAAATAAATATTAAATTAAT
1 TATAATAAATATAATACAGAAATATTGAAAGAAAATAAAGATTAAATTAAT
3766744 T
1 T
3766745 TGTCATATAT
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
50 39 0.89
51 5 0.11
ACGTcount: A:0.56, C:0.01, G:0.11, T:0.32
Consensus pattern (51 bp):
TATAATAAATATAATACAGAAATATTGAAAGAAAATAAAGATTAAATTAAT
Found at i:3778452 original size:34 final size:39
Alignment explanation
Indices: 3778377--3778466 Score: 118
Period size: 34 Copynumber: 2.4 Consensus size: 39
3778367 ACAAAAAATC
*
3778377 AAACAAATAATAAACACAACAATAATATCTTAACACAACAA
1 AAACAAATAA-AAA-ATAACAATAATATCTTAACACAACAA
3778418 AAACAAATAAAAAATAAC-ATAA-A-CTTAA-A-AACAA
1 AAACAAATAAAAAATAACAATAATATCTTAACACAACAA
3778452 AAACAAATAAAAAAT
1 AAACAAATAAAAAAT
3778467 GATTAAATCT
Statistics
Matches: 48, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
34 20 0.42
35 1 0.02
36 5 0.10
37 1 0.02
38 4 0.08
39 4 0.08
40 3 0.06
41 10 0.21
ACGTcount: A:0.70, C:0.14, G:0.00, T:0.16
Consensus pattern (39 bp):
AAACAAATAAAAAATAACAATAATATCTTAACACAACAA
Found at i:3783791 original size:23 final size:21
Alignment explanation
Indices: 3783762--3783803 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 21
3783752 AATTTTATTA
3783762 ATTTATTATAATAAATAAATTTT
1 ATTTATTAT-A-AAATAAATTTT
3783785 ATTTATTATAAAATAAATT
1 ATTTATTATAAAATAAATT
3783804 AATAAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 9 0.47
22 1 0.05
23 9 0.47
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATTTATTATAAAATAAATTTT
Found at i:3788131 original size:44 final size:44
Alignment explanation
Indices: 3788068--3788154 Score: 147
Period size: 44 Copynumber: 2.0 Consensus size: 44
3788058 AATAATGTGG
***
3788068 CATTATTGACACTGGATTTCTGATTTATCTTGCCTCCTGTTCTA
1 CATTATTGACACTGGATTTCTGATTTATCCCACCTCCTGTTCTA
3788112 CATTATTGACACTGGATTTCTGATTTATCCCACCTCCTGTTCT
1 CATTATTGACACTGGATTTCTGATTTATCCCACCTCCTGTTCT
3788155 GCTATACTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.18, C:0.25, G:0.13, T:0.44
Consensus pattern (44 bp):
CATTATTGACACTGGATTTCTGATTTATCCCACCTCCTGTTCTA
Found at i:3789821 original size:14 final size:14
Alignment explanation
Indices: 3789796--3789837 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
3789786 TAAAGGAGTA
3789796 TATTAT-TTATAAT
1 TATTATATTATAAT
3789809 TATTATATTATAAT
1 TATTATATTATAAT
3789823 TAATTA-ATTATAAT
1 T-ATTATATTATAAT
3789837 T
1 T
3789838 TAGAATTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.22
14 17 0.63
15 4 0.15
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TATTATATTATAAT
Found at i:3790612 original size:17 final size:16
Alignment explanation
Indices: 3790590--3790624 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
3790580 ATAAATTATG
3790590 AACTATAAGCAAATATA
1 AACTATAAGCAAA-ATA
*
3790607 AACTATAATCAAAATA
1 AACTATAAGCAAAATA
3790623 AA
1 AA
3790625 GATATAATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.63, C:0.11, G:0.03, T:0.23
Consensus pattern (16 bp):
AACTATAAGCAAAATA
Found at i:3796415 original size:5 final size:5
Alignment explanation
Indices: 3796405--3796442 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
3796395 TTTACGGCAT
*
3796405 TTTTC TTTTC TTTTC TTTTT TTTTC TCTTT- TTTTC TTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC T-TTTC TTTTC TTT
3796443 GAACTTAGCC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
4 3 0.10
5 23 0.79
6 3 0.10
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (5 bp):
TTTTC
Found at i:3796427 original size:20 final size:20
Alignment explanation
Indices: 3796404--3796442 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
3796394 ATTTACGGCA
3796404 TTTTTCT-TTTCTTTTCTTTT
1 TTTTTCTCTTT-TTTTCTTTT
3796424 TTTTTCTCTTTTTTTCTTT
1 TTTTTCTCTTTTTTTCTTT
3796443 GAACTTAGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (20 bp):
TTTTTCTCTTTTTTTCTTTT
Found at i:3796605 original size:3 final size:3
Alignment explanation
Indices: 3796597--3796621 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
3796587 CAAAAAGAGG
3796597 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
3796622 ATACCTATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:3799492 original size:19 final size:19
Alignment explanation
Indices: 3799470--3799506 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
3799460 TGAGGGTCTT
* *
3799470 GGGTTTTACCTAGGGTTTA
1 GGGTTCTACCTAGAGTTTA
3799489 GGGTTCTACCTAGAGTTT
1 GGGTTCTACCTAGAGTTT
3799507 TGATTTCACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.16, C:0.14, G:0.30, T:0.41
Consensus pattern (19 bp):
GGGTTCTACCTAGAGTTTA
Found at i:3799797 original size:41 final size:42
Alignment explanation
Indices: 3799722--3799800 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 42
3799712 AAAATAATTT
3799722 TTATATATTTTTCTTTTTATTAAAATATTATTATTATTATTA
1 TTATATATTTTTCTTTTTATTAAAATATTATTATTATTATTA
* * ** *
3799764 TTATTTATTTTT-TTTTTGTTATTATATTTTTATTATT
1 TTATATATTTTTCTTTTTATTAAAATATTATTATTATT
3799801 TAATAATTTC
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
41 21 0.66
42 11 0.34
ACGTcount: A:0.27, C:0.01, G:0.01, T:0.71
Consensus pattern (42 bp):
TTATATATTTTTCTTTTTATTAAAATATTATTATTATTATTA
Found at i:3801371 original size:20 final size:20
Alignment explanation
Indices: 3801334--3801375 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
3801324 TATTTATTTA
*
3801334 TAGTTATTTTTACATTTTTT
1 TAGTTATTTTGACATTTTTT
**
3801354 TAGTTATTTTGATTTTTTTT
1 TAGTTATTTTGACATTTTTT
3801374 TA
1 TA
3801376 ATTTTCATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.19, C:0.02, G:0.07, T:0.71
Consensus pattern (20 bp):
TAGTTATTTTGACATTTTTT
Found at i:3806905 original size:17 final size:17
Alignment explanation
Indices: 3806883--3806915 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
3806873 TAATGAATTG
3806883 ATGAACTATAAGCAAAT
1 ATGAACTATAAGCAAAT
*
3806900 ATGAACTATAATCAAA
1 ATGAACTATAAGCAAA
3806916 ATAAAGAGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.12, G:0.09, T:0.24
Consensus pattern (17 bp):
ATGAACTATAAGCAAAT
Found at i:3807616 original size:21 final size:20
Alignment explanation
Indices: 3807592--3807641 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
3807582 TCAGGGACTT
* *
3807592 GATCGATTGGTTCAGCTAGAG
1 GATCGATTGG-TAACCTAGAG
*
3807613 GATCGATCTTGTAACCTAGAG
1 GATCGAT-TGGTAACCTAGAG
3807634 GATCGATT
1 GATCGATT
3807642 CGATCAAGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 22 0.88
22 2 0.08
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (20 bp):
GATCGATTGGTAACCTAGAG
Found at i:3814997 original size:29 final size:29
Alignment explanation
Indices: 3814955--3815013 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
3814945 AATTATTGTG
* *
3814955 AAATATTTAATGTGATACTTAAATTTTAA
1 AAATATCTAATGTGATACTTAAATTATAA
*
3814984 AAATATCTAATGTGGTACTTAAATTATAA
1 AAATATCTAATGTGATACTTAAATTATAA
3815013 A
1 A
3815014 TCTATTGACT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (29 bp):
AAATATCTAATGTGATACTTAAATTATAA
Found at i:3815286 original size:11 final size:11
Alignment explanation
Indices: 3815254--3815288 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
3815244 TATTTGATTG
3815254 TTTAATCATGT
1 TTTAATCATGT
**
3815265 TTTAAAGATGT
1 TTTAATCATGT
3815276 TTTAATCATGT
1 TTTAATCATGT
3815287 TT
1 TT
3815289 AAAAGTTGAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.29, C:0.06, G:0.11, T:0.54
Consensus pattern (11 bp):
TTTAATCATGT
Found at i:3815305 original size:22 final size:22
Alignment explanation
Indices: 3815254--3815305 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
3815244 TATTTGATTG
* *
3815254 TTTAATCATGTTTTAAAGATGT
1 TTTAATCATGTTTAAAAGATGA
*
3815276 TTTAATCATGTTTAAAAGTTGA
1 TTTAATCATGTTTAAAAGATGA
*
3815298 TTTGATCA
1 TTTAATCA
3815306 ATTGAACCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.33, C:0.06, G:0.13, T:0.48
Consensus pattern (22 bp):
TTTAATCATGTTTAAAAGATGA
Found at i:3815525 original size:70 final size:70
Alignment explanation
Indices: 3815449--3815588 Score: 181
Period size: 70 Copynumber: 2.0 Consensus size: 70
3815439 AATCCTTAAT
* * * *
3815449 TAAATGTCAATTTCACTTTTAGCAAGTTCTTTAAAAAACAATTCAAAAAAAAGTTTTGATAAAAA
1 TAAATGTCAATTTCACTTTTAGCAAATTATTTAAAAAACAATTCAAAAAAAAGATTTGACAAAAA
3815514 ACAAA
66 ACAAA
* * * * * * *
3815519 TAAATGTTAATTTCACTTTTAGCAAATTATTTATATAATAGTTTAAGAAAAAGATTTGACAAAAA
1 TAAATGTCAATTTCACTTTTAGCAAATTATTTAAAAAACAATTCAAAAAAAAGATTTGACAAAAA
3815584 ACAAA
66 ACAAA
3815589 CCTTGTCTGC
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
70 59 1.00
ACGTcount: A:0.49, C:0.09, G:0.08, T:0.34
Consensus pattern (70 bp):
TAAATGTCAATTTCACTTTTAGCAAATTATTTAAAAAACAATTCAAAAAAAAGATTTGACAAAAA
ACAAA
Found at i:3817877 original size:13 final size:13
Alignment explanation
Indices: 3817861--3817885 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3817851 TTTTTCTTTG
3817861 TTTTTTTATTTTA
1 TTTTTTTATTTTA
3817874 TTTTTTTATTTT
1 TTTTTTTATTTT
3817886 TTACATGACT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTTATTTTA
Found at i:3817977 original size:17 final size:18
Alignment explanation
Indices: 3817950--3817984 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
3817940 AATGATAAAT
*
3817950 GAATAAATAAATAGATAA
1 GAATAAATAAATACATAA
3817968 GAAT-AATAAATACATAA
1 GAATAAATAAATACATAA
3817985 ACAAAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.66, C:0.03, G:0.09, T:0.23
Consensus pattern (18 bp):
GAATAAATAAATACATAA
Found at i:3822633 original size:39 final size:39
Alignment explanation
Indices: 3822589--3822665 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
3822579 TGGTAGTTTA
*
3822589 ATTATAATTAGTGAGTATTATTTTATATCTCTTTTGGCT
1 ATTATAATTAGTGAGTATTATTATATATCTCTTTTGGCT
*
3822628 ATTATAATTAGTGAGTGTTATTATATATCTCTTTTGGC
1 ATTATAATTAGTGAGTATTATTATATATCTCTTTTGGC
3822666 GACATTAAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.26, C:0.08, G:0.14, T:0.52
Consensus pattern (39 bp):
ATTATAATTAGTGAGTATTATTATATATCTCTTTTGGCT
Found at i:3822843 original size:3 final size:3
Alignment explanation
Indices: 3822835--3822861 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
3822825 TGTGACTTTG
3822835 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
3822862 ATTTCACCGG
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):
TAT
Found at i:3823910 original size:96 final size:93
Alignment explanation
Indices: 3823768--3824362 Score: 320
Period size: 96 Copynumber: 6.5 Consensus size: 93
3823758 AAAATTAAAT
* * * *
3823768 ACTTATTAAAAGAGAATATTCTAAAATTCATTTATTTTAAATTATAAAACTAGATAAAATATAAT
1 ACTTA-TAAAA-AGAAAATTTTAAAATTTATTTATTTTAAACTATAAAACTAGATAAAATATAAT
3823833 AATATATTATATCAAAAATTTAAAAACAAAA
64 AATATATTATATCAAAAATTTAAAAA-AAAA
* * *
3823864 ACTTATGAAAACAGAAAATTTTAAAATTTATTTATTTTAAACTATAAAATTTGATAAAATATAGT
1 ACTTAT-AAAA-AGAAAATTTTAAAATTTATTTATTTTAAACTATAAAACTAGATAAAATATAAT
* * * *
3823929 AAACATAGTATATTAAAAACTTTTAAAAAGAAA
64 -AATATATTATATCAAAAA--TTTAAAAAAAAA
* * *
3823962 A-TT-T----TG-AAA-TTT---ATTTATCTTAATTT--A-TG--AAACTAGATAAAATATAATA
1 ACTTATAAAAAGAAAATTTTAAAATTTAT-TTATTTTAAACTATAAAACTAGATAAAATATAATA
* * * *
3824011 ATATTTTATATCTAAAACTTTTTAAAAATAA
65 ATATATTATATC-AAAA-ATTTAAAAAAAAA
* * * * *
3824042 GCTTCT--TAA-AAAA-TTTAAAATTTTATTTATTTTAAACTATAAAATTTGATAAAATATATTA
1 ACTTATAAAAAGAAAATTTTAAAA-TTTATTTATTTTAAACTATAAAACTAGATAAAATATA--A
* * * * * *
3824103 AAACTATAATATATTTATATATTT-AAAAAACA
63 TAA-TATATTATA-TCAAAAATTTAAAAAAAAA
* * ** * *
3824135 ACTTATTAAAAA-AGAATTTTGAAATTTATTTATTTTAAAAGATAAAACCAGATAAAATATAAAA
1 ACTTA-TAAAAAGAAAATTTTAAAATTTATTTATTTTAAACTATAAAACTAGATAAAATATAATA
3824199 ATATATTATATCTAAAAA--T----AAAAA
65 ATATATTATATC-AAAAATTTAAAAAAAAA
** * * * *
3824223 AC-TATAAAACTATAAA-TTTGAAA-TTATTTAATTTAAACTATAAAATTTGATAAGATATATAA
1 ACTTATAAAAAGA-AAATTTTAAAATTTATTTATTTTAAACTATAAAACTAGATAA-A-ATATAA
* *
3824285 -AACTATGTTATATTTAAAAA-TTAAAAAAAAA
63 TAA-TATATTATA-TCAAAAATTTAAAAAAAAA
* * *
3824316 ACTTATTCAAAAAGAGAATTTTGAAATTTATTTATTTTAAATTATAA
1 ACTTA-T-AAAAAGAAAATTTTAAAATTTATTTATTTTAAACTATAA
3824363 TATTTTATAA
Statistics
Matches: 382, Mismatches: 71, Indels: 91
0.70 0.13 0.17
Matches are distributed among these distances:
80 18 0.05
81 22 0.06
82 1 0.00
83 1 0.00
84 7 0.02
85 6 0.02
86 35 0.09
87 20 0.05
88 35 0.09
89 6 0.02
90 2 0.01
91 1 0.00
92 16 0.04
93 27 0.07
94 13 0.03
95 13 0.03
96 106 0.28
97 41 0.11
98 4 0.01
99 8 0.02
ACGTcount: A:0.52, C:0.05, G:0.04, T:0.39
Consensus pattern (93 bp):
ACTTATAAAAAGAAAATTTTAAAATTTATTTATTTTAAACTATAAAACTAGATAAAATATAATAA
TATATTATATCAAAAATTTAAAAAAAAA
Found at i:3823961 original size:81 final size:82
Alignment explanation
Indices: 3823860--3824104 Score: 217
Period size: 81 Copynumber: 2.9 Consensus size: 82
3823850 ATTTAAAAAC
*
3823860 AAAAACTTATGAAAACAGAAAATTTTAAAATTTATTTATTTTAAACTATAAAATTTGATAAAATA
1 AAAAACTT-TTAAAA-AGAAAATTTTAAAATTTATTTATTTTAAACTATAAAATTTGATAAAATA
*
3823925 TAGTAAACATAGTATAT-T
64 TAATAAACATAGTATATCT
* * ** * * *
3823943 AAAAACTTTTAAAAAGAAAATTTTGAAATTTATTTATCTTAATTTATGAAACTAGATAAAATATA
1 AAAAACTTTTAAAAAGAAAATTTTAAAATTTATTTATTTTAAACTATAAAATTTGATAAAATATA
* **
3824008 AT-AATATTTTATATCT
66 ATAAACATAGTATATCT
*
3824024 -AAAACTTTTTAAAAATAAGCTTCTTAAAAAATTTAAAATTTTATTTATTTTAAACTATAAAATT
1 AAAAAC-TTTT--AAA-AAG-------AAAATTTTAAAA-TTTATTTATTTTAAACTATAAAATT
*
3824088 TGATAAAATATATTAAA
54 TGATAAAATATAATAAA
3824105 ACTATAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 18
0.77 0.13 0.11
Matches are distributed among these distances:
80 14 0.11
81 50 0.39
82 5 0.04
83 11 0.09
84 3 0.02
91 10 0.08
92 32 0.25
93 2 0.02
ACGTcount: A:0.50, C:0.05, G:0.04, T:0.40
Consensus pattern (82 bp):
AAAAACTTTTAAAAAGAAAATTTTAAAATTTATTTATTTTAAACTATAAAATTTGATAAAATATA
ATAAACATAGTATATCT
Found at i:3824022 original size:177 final size:175
Alignment explanation
Indices: 3823761--3824104 Score: 446
Period size: 177 Copynumber: 2.0 Consensus size: 175
3823751 ATTCAAAAAA
* * *
3823761 ATTAAATACTTATTAAAAGAGAATATTCTAAAATTCATTTATTTTAAATTATAAAACTAGATAAA
1 ATTAAAAACTTATTAAAAGAGAAAATTCTAAAATTCATTTATCTTAAATTATAAAACTAGATAAA
3823826 ATATAATAATATATTATATC-AAAA-ATTTAAAAACAAAAACTTATGAAAACAGAAAATTTTAAA
66 ATATAATAATATATTATATCTAAAACATTTAAAAA-AAAAACTTAT---AA-A-AAAA-TTTAAA
3823889 A-TTTATTTATTTTAAACTATAAAATTTGATAAAATATAGTAAACATAGTAT
124 ATTTTATTTATTTTAAACTATAAAATTTGATAAAATATAGTAAACATAGTAT
* * * * *
3823940 ATTAAAAACTT-TTAAAA-AGAAAATTTTGAAATTTATTTATCTTAATTTATGAAACTAGATAAA
1 ATTAAAAACTTATTAAAAGAGAAAATTCTAAAATTCATTTATCTTAAATTATAAAACTAGATAAA
* * * * * * *
3824003 ATATAATAATATTTTATATCTAAAACTTTTTAAAAATAAGCTTCTTAAAAAATTTAAAATTTTAT
66 ATATAATAATATATTATATCTAAAACATTTAAAAAAAAAACTTATAAAAAAATTTAAAATTTTAT
*
3824068 TTATTTTAAACTATAAAATTTGATAAAATATATTAAA
131 TTATTTTAAACTATAAAATTTGATAAAATATAGTAAA
3824105 ACTATAATAT
Statistics
Matches: 146, Mismatches: 16, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
172 7 0.05
173 45 0.31
174 1 0.01
175 1 0.01
177 58 0.40
178 17 0.12
179 17 0.12
ACGTcount: A:0.51, C:0.05, G:0.04, T:0.40
Consensus pattern (175 bp):
ATTAAAAACTTATTAAAAGAGAAAATTCTAAAATTCATTTATCTTAAATTATAAAACTAGATAAA
ATATAATAATATATTATATCTAAAACATTTAAAAAAAAAACTTATAAAAAAATTTAAAATTTTAT
TTATTTTAAACTATAAAATTTGATAAAATATAGTAAACATAGTAT
Found at i:3824165 original size:188 final size:182
Alignment explanation
Indices: 3823943--3824362 Score: 506
Period size: 188 Copynumber: 2.3 Consensus size: 182
3823933 ATAGTATATT
* * * * *
3823943 AAAAACTT-TTAAAAAGAAAATTTTGAAATTTATTTATCTTAATTTATGAAACTAGATAAAATAT
1 AAAAACTTATTAAAAAGAGAATTTTGAAATTTATTTATTTTAAATTATAAAACCAGATAAAATAT
* * * * ***
3824007 AATAATATTTTATATCTAAAACTTTTTAAAAA-TA-AGCTTCTTAAAAAATTTAAAATTTTATTT
66 AAAAATATATTATATCTAAAA---ATAAAAAACTATA-AAAC-T-AAAAATTTAAAA--TTATTT
* * * *
3824070 ATTTTAAACTATAAAATTTGATAAAATATATTAAAACTATAATATATTTATATATTTAAAA
123 AATTTAAACTATAAAATTTGATAAAATATA-TAAAACTATAATATATTTAAAAATTAAAAA
* **
3824131 AACAACTTATTAAAAA-AGAATTTTGAAATTTATTTATTTTAAAAGATAAAACCAGATAAAATAT
1 AAAAACTTATTAAAAAGAGAATTTTGAAATTTATTTATTTTAAATTATAAAACCAGATAAAATAT
* *
3824195 AAAAATATATTATATCTAAAAATAAAAAACTATAAAACTATAAATTTGAAATTATTTAATTTAAA
66 AAAAATATATTATATCTAAAAATAAAAAACTATAAAACTAAAAATTTAAAATTATTTAATTTAAA
* **
3824260 CTATAAAATTTGATAAGATATATAAAACTATGTTATATTTAAAAATTAAAAA
131 CTATAAAATTTGATAAAATATATAAAACTATAATATATTTAAAAATTAAAAA
3824312 AAAAACTTATTCAAAAAGAGAATTTTGAAATTTATTTATTTTAAATTATAA
1 AAAAACTTATT-AAAAAGAGAATTTTGAAATTTATTTATTTTAAATTATAA
3824363 TATTTTATAA
Statistics
Matches: 200, Mismatches: 27, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
181 35 0.17
182 39 0.19
183 31 0.16
184 10 0.05
185 7 0.04
186 3 0.01
187 1 0.00
188 67 0.34
189 7 0.04
ACGTcount: A:0.52, C:0.05, G:0.04, T:0.39
Consensus pattern (182 bp):
AAAAACTTATTAAAAAGAGAATTTTGAAATTTATTTATTTTAAATTATAAAACCAGATAAAATAT
AAAAATATATTATATCTAAAAATAAAAAACTATAAAACTAAAAATTTAAAATTATTTAATTTAAA
CTATAAAATTTGATAAAATATATAAAACTATAATATATTTAAAAATTAAAAA
Found at i:3824409 original size:28 final size:30
Alignment explanation
Indices: 3824354--3824415 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
3824344 TATTTATTTT
3824354 AAAT-TATAATATTTTATAAAACATATTAA
1 AAATATATAATATTTTATAAAACATATTAA
*
3824383 GAATATATAATATATTTA-AAAA-A-ATTAA
1 AAATATATAATAT-TTTATAAAACATATTAA
3824411 AAATA
1 AAATA
3824416 GAAAATTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
28 9 0.31
29 4 0.14
30 12 0.41
31 4 0.14
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (30 bp):
AAATATATAATATTTTATAAAACATATTAA
Found at i:3824442 original size:183 final size:176
Alignment explanation
Indices: 3824051--3824454 Score: 425
Period size: 183 Copynumber: 2.2 Consensus size: 176
3824041 AGCTTCTTAA
**
3824051 AAAATTTAAAATTTTATTTATTTTAAACTATAAAATTTGATAAAATATATTAAAACTATAATATA
1 AAAATTTAAAAAATTATTTA-TTTAAACTATAAAATTTGATAAAATATATTAAAACTATAATATA
* * * *
3824116 TTTATATATTTAAAAAACAACTTATTAAAAAAGAATTTTGAAATTTATTTATTTTAAAAGATAAA
65 TTTAAAAATTAAAAAAAAAACTTATTAAAAAAGAATTTTGAAATTTATTTATTTTAAAAGATAAA
* * *
3824181 ACCAGATAAAATATAAAAATATATTATATCTAAAAATAAAAAACTAT
130 ACCAGATAAAATATAAAAATATAATATATCTAAAAATAAAAAAATAG
* * *
3824228 AAAACTATAAATTTGAAATTATTTAATTTAAACTATAAAATTTGATAAGATATA-TAAAACTATG
1 AAAA-TTTAAA----AAATTATTT-ATTTAAACTATAAAATTTGATAAAATATATTAAAACTATA
*
3824292 TTATATTTAAAAATTAAAAAAAAAACTTATTCAAAAAGAGAATTTTGAAATTTATTTATTTTAAA
60 ATATATTTAAAAATTAAAAAAAAAACTTATT-AAAAA-AGAATTTTGAAATTTATTTATTTTAAA
** * **** *
3824357 TTATAATATTTTATAAAACATATTAAGAATATATAATATATTTAAAAA-AATTAAAAATAG
123 AGATAAAACCAGAT-AAA-ATA-TAA-AA-ATATAATATATCTAAAAATAA--AAAAATAG
* * * *
3824417 AAAATTTAAAAACTTATATATTTAAATTATAATATTTG
1 AAAATTTAAAAAATTATTTATTTAAACTATAAAATTTG
3824455 TACTGTTAAA
Statistics
Matches: 186, Mismatches: 26, Indels: 24
0.79 0.11 0.10
Matches are distributed among these distances:
177 4 0.02
178 5 0.03
181 35 0.19
182 39 0.21
183 52 0.28
184 10 0.05
185 3 0.02
186 3 0.02
187 4 0.02
188 21 0.11
189 10 0.05
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.39
Consensus pattern (176 bp):
AAAATTTAAAAAATTATTTATTTAAACTATAAAATTTGATAAAATATATTAAAACTATAATATAT
TTAAAAATTAAAAAAAAAACTTATTAAAAAAGAATTTTGAAATTTATTTATTTTAAAAGATAAAA
CCAGATAAAATATAAAAATATAATATATCTAAAAATAAAAAAATAG
Found at i:3824519 original size:15 final size:15
Alignment explanation
Indices: 3824496--3824525 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3824486 TAAAAAACAA
*
3824496 AAAATATTTTAAAAT
1 AAAACATTTTAAAAT
3824511 AAAACATTTTAAAAT
1 AAAACATTTTAAAAT
3824526 GTATTTAGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (15 bp):
AAAACATTTTAAAAT
Found at i:3825236 original size:44 final size:44
Alignment explanation
Indices: 3825142--3825237 Score: 140
Period size: 44 Copynumber: 2.2 Consensus size: 44
3825132 AGTTGACGTG
* *
3825142 ATAATTTTGATTAATGTTATTATTATCATTTATATTATCAATTA
1 ATAATATTCATTAATGTTATTATTATCATTTATATTATCAATTA
* *
3825186 AAAATATTCATTAATGTTATTATTATCATTTATATTAATTAATT-
1 ATAATATTCATTAATGTTATTATTATCATTTATATT-ATCAATTA
3825230 ATAATATT
1 ATAATATT
3825238 AATAATTAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 40 0.87
45 6 0.13
ACGTcount: A:0.40, C:0.04, G:0.03, T:0.53
Consensus pattern (44 bp):
ATAATATTCATTAATGTTATTATTATCATTTATATTATCAATTA
Found at i:3826002 original size:13 final size:13
Alignment explanation
Indices: 3825979--3826049 Score: 57
Period size: 13 Copynumber: 6.0 Consensus size: 13
3825969 GGAATGTAAT
3825979 TAGAA-ATTGTGA
1 TAGAATATTGTGA
3825991 TAGAATATTGTGA
1 TAGAATATTGTGA
3826004 TAG-AT-TT-T-A
1 TAGAATATTGTGA
3826013 T--AATATTGTGA
1 TAGAATATTGTGA
* * * *
3826024 CAAAATATTATAA
1 TAGAATATTGTGA
3826037 TAGAATATTGTGA
1 TAGAATATTGTGA
3826050 AAAACTTTAA
Statistics
Matches: 45, Mismatches: 7, Indels: 13
0.69 0.11 0.20
Matches are distributed among these distances:
8 2 0.04
9 4 0.09
10 2 0.04
11 3 0.07
12 7 0.16
13 27 0.60
ACGTcount: A:0.42, C:0.01, G:0.17, T:0.39
Consensus pattern (13 bp):
TAGAATATTGTGA
Found at i:3826068 original size:25 final size:26
Alignment explanation
Indices: 3826011--3826070 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 26
3826001 TGATAGATTT
*
3826011 TATAATATTGTGACAAAATATTATAA
1 TATAATATTGTGACAAAATATTAAAA
*
3826037 TAGAATATTGTGA-AAAACT-TTAAAA
1 TATAATATTGTGACAAAA-TATTAAAA
*
3826062 TTTAATATT
1 TATAATATT
3826071 TTTAAAAAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 16 0.55
26 13 0.45
ACGTcount: A:0.48, C:0.03, G:0.08, T:0.40
Consensus pattern (26 bp):
TATAATATTGTGACAAAATATTAAAA
Found at i:3826172 original size:29 final size:30
Alignment explanation
Indices: 3826140--3826209 Score: 115
Period size: 31 Copynumber: 2.3 Consensus size: 30
3826130 TAAGATGGAT
*
3826140 TAAATTTCAAATTT-TGTGAATATAAATAC
1 TAAATTTCAAATTTCTGTGAATATAAAGAC
3826169 TAAATTTCAAATTTCGTGTGAATATAAAGAC
1 TAAATTTCAAATTTC-TGTGAATATAAAGAC
3826200 TAAATTTCAA
1 TAAATTTCAA
3826210 GTTTAGTGCC
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
29 14 0.37
31 24 0.63
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.39
Consensus pattern (30 bp):
TAAATTTCAAATTTCTGTGAATATAAAGAC
Found at i:3826233 original size:31 final size:31
Alignment explanation
Indices: 3826140--3826223 Score: 100
Period size: 31 Copynumber: 2.8 Consensus size: 31
3826130 TAAGATGGAT
* *
3826140 TAAATTTCAAATTTTGTG--AATATAAATAC
1 TAAATTTCAAATTTAGTGCCAATATAAAGAC
* **
3826169 TAAATTTCAAATTTCGTGTGAATATAAAGAC
1 TAAATTTCAAATTTAGTGCCAATATAAAGAC
*
3826200 TAAATTTCAAGTTTAGTGCCAATA
1 TAAATTTCAAATTTAGTGCCAATA
3826224 AATGAACTAA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
29 17 0.36
31 30 0.64
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.38
Consensus pattern (31 bp):
TAAATTTCAAATTTAGTGCCAATATAAAGAC
Found at i:3830224 original size:27 final size:27
Alignment explanation
Indices: 3830200--3830254 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
3830190 AAGTAAAATG
3830200 AAAAA-AAAAAAAAATGAATACAAAAC
1 AAAAACAAAAAAAAATGAATACAAAAC
* **
3830226 AAAAACTAAGTAAAATGAATACAAAAC
1 AAAAACAAAAAAAAATGAATACAAAAC
3830253 AA
1 AA
3830255 TTTAGTTTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 5 0.20
27 20 0.80
ACGTcount: A:0.75, C:0.09, G:0.05, T:0.11
Consensus pattern (27 bp):
AAAAACAAAAAAAAATGAATACAAAAC
Found at i:3831096 original size:31 final size:31
Alignment explanation
Indices: 3831052--3831110 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
3831042 ATTTTCATTT
*
3831052 ATAGGTGATTAAAATTGGATAGAAAAATGTA
1 ATAGGTGATTAAAATTGGATAAAAAAATGTA
*
3831083 ATAGGATGA-TAAAATTGTATAAAAAAAT
1 ATAGG-TGATTAAAATTGGATAAAAAAAT
3831111 AAAATAGTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 22 0.88
32 3 0.12
ACGTcount: A:0.53, C:0.00, G:0.19, T:0.29
Consensus pattern (31 bp):
ATAGGTGATTAAAATTGGATAAAAAAATGTA
Found at i:3831117 original size:31 final size:31
Alignment explanation
Indices: 3831052--3831117 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
3831042 ATTTTCATTT
* **
3831052 ATAGGTGATTAAAATTGGATAGAAAAATGTA
1 ATAGGTGATTAAAATTGGATAAAAAAATAAA
*
3831083 ATAGGATGA-TAAAATTGTATAAAAAAATAAA
1 ATAGG-TGATTAAAATTGGATAAAAAAATAAA
3831114 ATAG
1 ATAG
3831118 TAAATACAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 27 0.90
32 3 0.10
ACGTcount: A:0.55, C:0.00, G:0.18, T:0.27
Consensus pattern (31 bp):
ATAGGTGATTAAAATTGGATAAAAAAATAAA
Found at i:3836742 original size:15 final size:15
Alignment explanation
Indices: 3836714--3836743 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
3836704 GCTTATACTC
3836714 AAGCAAAATAAAAAT
1 AAGCAAAATAAAAAT
3836729 AAGCTAAAATAAAAA
1 AAGC-AAAATAAAAA
3836744 ACAACATTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.73, C:0.07, G:0.07, T:0.13
Consensus pattern (15 bp):
AAGCAAAATAAAAAT
Found at i:3837189 original size:6 final size:6
Alignment explanation
Indices: 3837178--3837209 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
3837168 GCTATTTTCA
3837178 GCTTTT GCTTTT GCTTTT -C-TTT GCTTTT GCTT
1 GCTTTT GCTTTT GCTTTT GCTTTT GCTTTT GCTT
3837210 GAAATAGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
4 3 0.12
5 2 0.08
6 19 0.79
ACGTcount: A:0.00, C:0.19, G:0.16, T:0.66
Consensus pattern (6 bp):
GCTTTT
Found at i:3844638 original size:43 final size:43
Alignment explanation
Indices: 3844577--3844662 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
3844567 ACTAGAGCAC
3844577 ACATAGTTCTTATATGTGGATGGTTCCTTACCAAAAGATGGCT
1 ACATAGTTCTTATATGTGGATGGTTCCTTACCAAAAGATGGCT
3844620 ACATAGTTCTTATATGTGGATGGTTCCTTACCAAAAGATGGCT
1 ACATAGTTCTTATATGTGGATGGTTCCTTACCAAAAGATGGCT
3844663 TTGTAACAGG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (43 bp):
ACATAGTTCTTATATGTGGATGGTTCCTTACCAAAAGATGGCT
Found at i:3849045 original size:6 final size:7
Alignment explanation
Indices: 3849007--3849042 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
3848997 ACTTTAACCC
3849007 TTTGACT
1 TTTGACT
*
3849014 TTTGCCT
1 TTTGACT
3849021 TTTGACT
1 TTTGACT
3849028 TTTGA-T
1 TTTGACT
3849034 TTTGACT
1 TTTGACT
3849041 TT
1 TT
3849043 GACCTTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 6 0.23
7 20 0.77
ACGTcount: A:0.11, C:0.14, G:0.14, T:0.61
Consensus pattern (7 bp):
TTTGACT
Found at i:3851276 original size:16 final size:16
Alignment explanation
Indices: 3851257--3851291 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
3851247 TATGATAACA
*
3851257 TATCTTTAACAATTGG
1 TATCCTTAACAATTGG
3851273 TATCCTTAACAATTGG
1 TATCCTTAACAATTGG
3851289 TAT
1 TAT
3851292 AAGCTTGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.43
Consensus pattern (16 bp):
TATCCTTAACAATTGG
Found at i:3854799 original size:161 final size:160
Alignment explanation
Indices: 3854592--3856648 Score: 1136
Period size: 161 Copynumber: 12.9 Consensus size: 160
3854582 TTATTTGCAA
* * *
3854592 TTTATGTCTGTTTAAGACTTTTTATGCCATTAAAAGGTAAAAATGCAAATTTAG-AGTTGTTGTT
1 TTTATGTCTGTTT-AGACTTTTTATGCCATTAAAAGTTAAAAATGCAAATTT-GTTGTTATTGTT
* * * * ** *
3854656 CTATTTTAATAGTTTTGATAGTTTCAATACATGATATTAAACTTGTCTGAATAATTGAACTTGAA
64 CTATTTTAAAAGTTTGGATAGCTTCAATACATGATATTAAACTTGCCCAAATAATTAAACTTGAA
*
3854721 TTCCACGATTGATATGTATGAAAAAATTATTG
129 TTCCACGATTGATATGTATGAAAAAATTATCG
* * * *
3854753 TTTATGTTTGTTTAGGACTTTTTATACCGTTAAAA-TTCAAAAATGCAAAATTGTTGTTATTGTT
1 TTTATGTCTGTTTA-GACTTTTTATGCCATTAAAAGTT-AAAAATGCAAATTTGTTGTTATTGTT
* * * * **
3854817 CTACTTTAAAAGTTTGGATAGCTTCAATACATGATATCAAACTTACCCAAATTATTAAACTTGGT
64 CTATTTTAAAAGTTTGGATAGCTTCAATACATGATATTAAACTTGCCCAAATAATTAAACTTGAA
* *
3854882 TTCCACGGTTGATATGTATGAAAAAGTTATCG
129 TTCCACGATTGATATGTATGAAAAAATTATCG
* *** * * *
3854914 CTTACAACTATTTCAGACTTTTTATGCTATTAATAAGTT-AAAATACAAATTTGTTGTTATTGTT
1 TTTATGTCTGTTT-AGACTTTTTATGCCATTAA-AAGTTAAAAATGCAAATTTGTTGTTATTGTT
* *
3854978 CTATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTG-----------------G-T
64 CTATTTTAAAAGTTTGGATAGCTTCAATACATGATATTAAACTTGCCCAAATAATTAAACTTGAA
* * * *
3855025 TTCCACAATTGATATGTGTGAAAAAGTTATCA
129 TTCCACGATTGATATGTATGAAAAAATTATCG
** * * ** ** *
3855057 TTTACATCTATTTAAGACTTTTTATGCCATTAAGAGGAAAAAATATAAATTTGTTGTTATTATTC
1 TTTATGTCTGTTT-AGACTTTTTATGCCATTAAAAGTTAAAAATGCAAATTTGTTGTTATTGTTC
* * ** * **
3855122 TATTTTAATAGTTTGCATAGCTTCAATACATGATATTAAACTTG-TTAGAATAATTGAACTTGGT
65 TATTTTAAAAGTTTGGATAGCTTCAATACATGATATTAAACTTGCCCA-AATAATTAAACTTGAA
* ** ** *
3855186 TTCCACAATTGATATGTGCGAAAAAGCTAACG
129 TTCCACGATTGATATGTATGAAAAAATTATCG
** * * * * * *
3855218 TTTACATTTGTTTAGGACTTTTTATGCCGTTAAAAGGT-AAAATGCAAAATTGCTATTATTGTTC
1 TTTATGTCTGTTTA-GACTTTTTATGCCATTAAAAGTTAAAAATGCAAATTTGTTGTTATTGTTC
* * * * * ** * * *
3855282 TGTTTTAATAA-TTTAGATAGCTTCGACACATGATATTAAACTTGTCTGAATGATTGAACTTGAT
65 TATTTTAA-AAGTTTGGATAGCTTCAATACATGATATTAAACTTGCCCAAATAATTAAACTTGAA
* * *
3855346 TTCCAC-AGTTGATATGTGTG-AAAAGTTATTG
129 TTCCACGA-TTGATATGTATGAAAAAATTATCG
** * * *** * ** *
3855377 TTTAAATCTATTTAAGACTTTTTGTGTTGTTAAGAGGCAAAAAAGCAAATTTGTTGTTATTGCTT
1 TTTATGTCTGTTT-AGACTTTTTATGCCATTAAAAGTTAAAAATGCAAATTTGTTGTTATTG-TT
** * * * ** * *
3855442 -TGCTTTAATAGTTTGCATAGCTTTAATACATGATATTAAACTT-TTCAGAATAATTGAACTTGG
64 CTATTTTAAAAGTTTGGATAGCTTCAATACATGATATTAAACTTGCCCA-AATAATTAAACTTGA
* * * * * *
3855505 TTTCCACAATTGATATATGTGAAAAAGCTAAT-G
128 ATTCCACGATTGATATGTATGAAAAA-ATTATCG
* ** * ** * *
3855538 TTTATGTCTGCTTAGGACTTTTTATATCGTTAAAAG-GCAAAATGCAAAATTGTTATTATTGTTC
1 TTTATGTCTGTTTA-GACTTTTTATGCCATTAAAAGTTAAAAATGCAAATTTGTTGTTATTGTTC
* * * * * *
3855602 TATTTTAACAGTTTGGATAGCTTTAATACATGATATTAAACTTGTCCAAATGATTGAACTTGATT
65 TATTTTAAAAGTTTGGATAGCTTCAATACATGATATTAAACTTGCCCAAATAATTAAACTTGAAT
* *
3855667 TTCAC-AGTTGATATGTGTG-AAAAATTATCG
130 TCCACGA-TTGATATGTATGAAAAAATTATCG
* * * * * * ** *
3855697 TTTACGTCTACTTAAGACTTTTTGTGCTATTAAGAGGCAAAAATGCAAATTTATTGTTATTGTTC
1 TTTATGTCT-GTTTAGACTTTTTATGCCATTAAAAGTTAAAAATGCAAATTTGTTGTTATTGTTC
* * * *
3855762 TATTTTAACAA-TTTGCATAGCTTCAATACATGATATTAAACTT-CTCGAAACAATTAAACTTGG
65 TATTTTAA-AAGTTTGGATAGCTTCAATACATGATATTAAACTTGC-CCAAATAATTAAACTTGA
* * * * * ** * *
3855825 TTTTCA-TAGTTGAAATGTGTGAAAAAGCTAACA
128 ATTCCACGA-TTGATATGTATGAAAAAATTATCG
* * * * * * * *
3855858 TTTACGTTTGCTTAGGACTTTTTATGCCATTAAAAGAT-AAAATGTAAATTTGCTATTATTGTTA
1 TTTATGTCTGTTTA-GACTTTTTATGCCATTAAAAGTTAAAAATGCAAATTTGTTGTTATTGTTC
* * * * ** * **
3855922 TATTTTAACAGTTTAGATAGCTTTAATACATAATATTAAACTTGATCAAATAATTAAGCTTGGTT
65 TATTTTAAAAGTTTGGATAGCTTCAATACATGATATTAAACTTGCCCAAATAATTAAACTTGAAT
* * * ** *
3855987 TTCAC-AGTTGATACGTGTGAAAAAGCTAACG
130 TCCACGA-TTGATATGTATGAAAAAATTATCG
** * * * ** * * *
3856018 TTTACATCTATTTAGGACTTTTTATGCCGTTAAAGGAAAAAAATGCAAATTTGCTATTATTATTC
1 TTTATGTCTGTTTA-GACTTTTTATGCCATTAAAAGTTAAAAATGCAAATTTGTTGTTATTGTTC
* * * **** * * **
3856083 TGTTTTAACAGTTTGGATAGCTTCAATACATGATAATAAACTTGTTTGAATTATTGAACTTGGTT
65 TATTTTAAAAGTTTGGATAGCTTCAATACATGATATTAAACTTGCCCAAATAATTAAACTTGAAT
* * *
3856148 TCTACGATTGATATG-AGTGAAAAAGTTATAG
130 TCCACGATTGATATGTA-TGAAAAAATTATCG
* * *** * * * *
3856179 TTTTACGTCTATTTAGGA-TTAATTT-TGTTGTTAAAAG-GAAAAATTACAAAATTTGCTATTAT
1 -TTTATGTCTGTTTA-GACTT--TTTATGCCATTAAAAGTTAAAAA-TGC-AAATTTGTTGTTAT
* * * * * * *
3856241 TATTCTATTTTAACAGTTTGGATGGCTTCAATATATGATATT--A-TT---CGAATGATTGAACT
60 TGTTCTATTTTAAAAGTTTGGATAGCTTCAATACATGATATTAAACTTGCCCAAATAATTAAACT
** * * ** * *
3856300 TGGTTTCCAC-AGTTGATATATGTGAAAACGTTGTTG
125 TGAATTCCACGA-TTGATATGTATGAAAAAATTATCG
** * * ** * *
3856336 TTTACCTTTGTTTAGGATTTTTTATGCCATTAAAA-TGCAAAATAACAATTTTGTTGTTATTGTT
1 TTTATGTCTGTTTA-GACTTTTTATGCCATTAAAAGTTAAAAAT-GCAAATTTGTTGTTATTGTT
* * * *** * * * **
3856400 CTCTTTTAATAGTTTGGATAACTTCAATACATGATATTAAACTTTTTCAAATGATTGAATTTGGT
64 CTATTTTAAAAGTTTGGATAGCTTCAATACATGATATTAAACTTGCCCAAATAATTAAACTTGAA
** * * * * *
3856465 TTTTAC-AGTTGATATATGTGAAAAAGTTGTTG
129 TTCCACGA-TTGATATGTATGAAAAAATTATCG
* * * ** * *
3856497 TTTATCTTTGTTTAGGACTTTTTGTGCCATTAAAAGGCAAAAATACAAATTTGATGTTATTGTTC
1 TTTATGTCTGTTTA-GACTTTTTATGCCATTAAAAGTTAAAAATGCAAATTTGTTGTTATTGTTC
* * * * * * **
3856562 TATTTTAACAGTTTGGATAACTTCAATACATGATATTAAACTTGTCCAAATGATTGAATTTGGTT
65 TATTTTAAAAGTTTGGATAGCTTCAATACATGATATTAAACTTGCCCAAATAATTAAACTTGAAT
*
3856627 TCCATGATTGATATGTATGAAA
130 TCCACGATTGATATGTATGAAA
3856649 GAGCAAAATG
Statistics
Matches: 1549, Mismatches: 273, Indels: 148
0.79 0.14 0.08
Matches are distributed among these distances:
142 2 0.00
143 124 0.08
144 1 0.00
155 51 0.03
156 30 0.02
157 42 0.03
158 5 0.00
159 71 0.05
160 497 0.32
161 629 0.41
162 40 0.03
163 57 0.04
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (160 bp):
TTTATGTCTGTTTAGACTTTTTATGCCATTAAAAGTTAAAAATGCAAATTTGTTGTTATTGTTCT
ATTTTAAAAGTTTGGATAGCTTCAATACATGATATTAAACTTGCCCAAATAATTAAACTTGAATT
CCACGATTGATATGTATGAAAAAATTATCG
Found at i:3855127 original size:143 final size:143
Alignment explanation
Indices: 3854869--3855165 Score: 450
Period size: 143 Copynumber: 2.1 Consensus size: 143
3854859 TTACCCAAAT
** * *
3854869 TATTAAACTTGGTTTCCACGGTTGATATGTATGAAAAAGTTATCGCTTACAACTATTTCAGACTT
1 TATTAAACTTGGTTTCCACAATTGATATGTATGAAAAAGTTATCACTTACAACTATTTAAGACTT
* * ** * *
3854934 TTTATGCTATTAATAAGTTAAAATACAAATTTGTTGTTATTGTTCTATTTTAACAGTTTGGATAG
66 TTTATGCCATTAAGAAGAAAAAATACAAATTTGTTGTTATTATTCTATTTTAACAGTTTGCATAG
3854999 CTTCAATACATGA
131 CTTCAATACATGA
* * *
3855012 TATTAAACTTGGTTTCCACAATTGATATGTGTGAAAAAGTTATCATTTACATCTATTTAAGACTT
1 TATTAAACTTGGTTTCCACAATTGATATGTATGAAAAAGTTATCACTTACAACTATTTAAGACTT
* * *
3855077 TTTATGCCATTAAGAGGAAAAAATATAAATTTGTTGTTATTATTCTATTTTAATAGTTTGCATAG
66 TTTATGCCATTAAGAAGAAAAAATACAAATTTGTTGTTATTATTCTATTTTAACAGTTTGCATAG
3855142 CTTCAATACATGA
131 CTTCAATACATGA
3855155 TATTAAACTTG
1 TATTAAACTTG
3855166 TTAGAATAAT
Statistics
Matches: 138, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
143 138 1.00
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (143 bp):
TATTAAACTTGGTTTCCACAATTGATATGTATGAAAAAGTTATCACTTACAACTATTTAAGACTT
TTTATGCCATTAAGAAGAAAAAATACAAATTTGTTGTTATTATTCTATTTTAACAGTTTGCATAG
CTTCAATACATGA
Found at i:3855360 original size:160 final size:161
Alignment explanation
Indices: 3855017--3856648 Score: 1500
Period size: 160 Copynumber: 10.2 Consensus size: 161
3855007 CATGATATTA
* * * *
3855017 AACTTGGTTTCCACAATTGATATGTGTGAAAAAGTTATCATTTACATCTATTTAAGACTTTTTAT
1 AACTTGGTTTCCACAGTTGATATGTGTGAAAAAGTTAACGTTTACATCTATTTAGGACTTTTTAT
* ** * * * *
3855082 GCCATTAAGAGGAAAAAATATAAATTTGTTGTTATTATTCTATTTTAATAGTTTGCATAGCTTCA
66 GCCATTAAAAGGAAAAAATGCAAATTTGTTATTATTGTTCTATTTTAACAGTTTGGATAGCTTCA
*
3855147 ATACATGATATTAAACTTGT-TAGAATAATTG
131 ATACATGATATTAAACTTGTCT-GAATGATTG
* * * * *
3855178 AACTTGGTTTCCACAATTGATATGTGCGAAAAAGCTAACGTTTACATTTGTTTAGGACTTTTTAT
1 AACTTGGTTTCCACAGTTGATATGTGTGAAAAAGTTAACGTTTACATCTATTTAGGACTTTTTAT
* * * * * * * * *
3855243 GCCGTTAAAAGG-TAAAATGCAAAATTGCTATTATTGTTCTGTTTTAATAATTTAGATAGCTTCG
66 GCCATTAAAAGGAAAAAATGCAAATTTGTTATTATTGTTCTATTTTAACAGTTTGGATAGCTTCA
*
3855307 ACACATGATATTAAACTTGTCTGAATGATTG
131 ATACATGATATTAAACTTGTCTGAATGATTG
* ** * * *
3855338 AACTTGATTTCCACAGTTGATATGTGTG-AAAAGTTATTGTTTAAATCTATTTAAGACTTTTTGT
1 AACTTGGTTTCCACAGTTGATATGTGTGAAAAAGTTAACGTTTACATCTATTTAGGACTTTTTAT
*** * * ** * *
3855402 GTTGTTAAGAGGCAAAAAA-GCAAATTTGTTGTTATTGCTT-TGCTTTAATAGTTTGCATAGCTT
66 GCCATTAAAAGG-AAAAAATGCAAATTTGTTATTATTG-TTCTATTTTAACAGTTTGGATAGCTT
* * * *
3855465 TAATACATGATATTAAACTTTTCAGAATAATTG
129 CAATACATGATATTAAACTTGTCTGAATGATTG
* * * * ** **
3855498 AACTTGGTTTCCACAATTGATATATGTGAAAAAGCTAATGTTTATGTCTGCTTAGGACTTTTTAT
1 AACTTGGTTTCCACAGTTGATATGTGTGAAAAAGTTAACGTTTACATCTATTTAGGACTTTTTAT
** * * * *
3855563 ATCGTTAAAAGG-CAAAATGCAAAATTGTTATTATTGTTCTATTTTAACAGTTTGGATAGCTTTA
66 GCCATTAAAAGGAAAAAATGCAAATTTGTTATTATTGTTCTATTTTAACAGTTTGGATAGCTTCA
**
3855627 ATACATGATATTAAACTTGTCCAAATGATTG
131 ATACATGATATTAAACTTGTCTGAATGATTG
* * * * * * *
3855658 AACTTGATTTTCACAGTTGATATGTGTGAAAAA-TTATCGTTTACGTCTACTTAAGACTTTTTGT
1 AACTTGGTTTCCACAGTTGATATGTGTGAAAAAGTTAACGTTTACATCTATTTAGGACTTTTTAT
* * * * * * *
3855722 GCTATTAAGAGGCAAAAATGCAAATTTATTGTTATTGTTCTATTTTAACAATTTGCATAGCTTCA
66 GCCATTAAAAGGAAAAAATGCAAATTTGTTATTATTGTTCTATTTTAACAGTTTGGATAGCTTCA
* ** *
3855787 ATACATGATATTAAACTTCTC-GAAACAATTA
131 ATACATGATATTAAACTTGTCTG-AATGATTG
* * * * * * * **
3855818 AACTTGGTTTTCATAGTTGAAATGTGTGAAAAAGCTAACATTTACGTTTGCTTAGGACTTTTTAT
1 AACTTGGTTTCCACAGTTGATATGTGTGAAAAAGTTAACGTTTACATCTATTTAGGACTTTTTAT
* * * * * *
3855883 GCCATTAAAA-GATAAAATGTAAATTTGCTATTATTGTTATATTTTAACAGTTTAGATAGCTTTA
66 GCCATTAAAAGGAAAAAATGCAAATTTGTTATTATTGTTCTATTTTAACAGTTTGGATAGCTTCA
* * *
3855947 ATACATAATATTAAACTTGATC-AAATAATT-
131 ATACATGATATTAAACTTG-TCTGAATGATTG
* * *
3855977 AAGCTTGGTTTTCACAGTTGATACGTGTGAAAAAGCTAACGTTTACATCTATTTAGGACTTTTTA
1 AA-CTTGGTTTCCACAGTTGATATGTGTGAAAAAGTTAACGTTTACATCTATTTAGGACTTTTTA
* * * *
3856042 TGCCGTT-AAAGGAAAAAAATGCAAATTTGCTATTATTATTCTGTTTTAACAGTTTGGATAGCTT
65 TGCCATTAAAAGG-AAAAAATGCAAATTTGTTATTATTGTTCTATTTTAACAGTTTGGATAGCTT
* * *
3856106 CAATACATGATAATAAACTTGTTTGAATTATTG
129 CAATACATGATATTAAACTTGTCTGAATGATTG
* * *
3856139 AACTTGGTTTCTAC-GATTGATATGAGTGAAAAAGTTATA-GTTTTACGTCTATTTAGGA-TTAA
1 AACTTGGTTTCCACAG-TTGATATGTGTGAAAAAGTTA-ACG-TTTACATCTATTTAGGACTT--
*** * * * * *
3856201 TTT-TGTTGTTAAAAGGAAAAATTACAAAATTTGCTATTATTATTCTATTTTAACAGTTTGGATG
61 TTTATGCCATTAAAAGGAAAAAATGC-AAATTTGTTATTATTGTTCTATTTTAACAGTTTGGATA
*
3856265 GCTTCAATATATGATATT--A--T-TC-GAATGATTG
125 GCTTCAATACATGATATTAAACTTGTCTGAATGATTG
* * *** * * * *
3856296 AACTTGGTTTCCACAGTTGATATATGTGAAAACGTTGTTGTTTACCTTTGTTTAGGATTTTTTAT
1 AACTTGGTTTCCACAGTTGATATGTGTGAAAAAGTTAACGTTTACATCTATTTAGGACTTTTTAT
* * * * * *
3856361 GCCATTAAAATGCAAAATAA--CAATTTTGTTGTTATTGTTCTCTTTTAATAGTTTGGATAACTT
66 GCCATTAAAA-GGAAAA-AATGCAAATTTGTTATTATTGTTCTATTTTAACAGTTTGGATAGCTT
* *
3856424 CAATACATGATATTAAACTT-TTTCAAATGATTG
129 CAATACATGATATTAAACTTGTCT-GAATGATTG
* ** * *** * * *
3856457 AATTTGGTTTTTACAGTTGATATATGTGAAAAAGTTGTTGTTTATC-TTTGTTTAGGACTTTTTG
1 AACTTGGTTTCCACAGTTGATATGTGTGAAAAAGTTAACGTTTA-CATCTATTTAGGACTTTTTA
* * * * *
3856521 TGCCATTAAAAGGCAAAAATACAAATTTGATGTTATTGTTCTATTTTAACAGTTTGGATAACTTC
65 TGCCATTAAAAGGAAAAAATGCAAATTTGTTATTATTGTTCTATTTTAACAGTTTGGATAGCTTC
**
3856586 AATACATGATATTAAACTTGTCCAAATGATTG
130 AATACATGATATTAAACTTGTCTGAATGATTG
* * *
3856618 AATTTGGTTTCCA-TGATTGATATGTATGAAA
1 AACTTGGTTTCCACAG-TTGATATGTGTGAAA
3856649 GAGCAAAATG
Statistics
Matches: 1219, Mismatches: 212, Indels: 80
0.81 0.14 0.05
Matches are distributed among these distances:
155 50 0.04
156 23 0.02
157 47 0.04
158 3 0.00
159 84 0.07
160 505 0.41
161 414 0.34
162 33 0.03
163 60 0.05
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.41
Consensus pattern (161 bp):
AACTTGGTTTCCACAGTTGATATGTGTGAAAAAGTTAACGTTTACATCTATTTAGGACTTTTTAT
GCCATTAAAAGGAAAAAATGCAAATTTGTTATTATTGTTCTATTTTAACAGTTTGGATAGCTTCA
ATACATGATATTAAACTTGTCTGAATGATTG
Found at i:3855635 original size:320 final size:319
Alignment explanation
Indices: 3855017--3856648 Score: 1747
Period size: 320 Copynumber: 5.1 Consensus size: 319
3855007 CATGATATTA
* *
3855017 AACTTGGTTTCCACAATTGATATGTGTGAAAAAGTTATCATTTACATCTATTTAAGACTTTTTAT
1 AACTTGGTTTCCACAGTTGATATGTGTG-AAAAGTTATCGTTTACATCTATTTAAGACTTTTTAT
** *
3855082 GCCATTAAGAGG-AAAAAATATAAATTTGTTGTTATTATTCTATTTTAATAGTTTGCATAGCTTC
65 GCCATTAAGAGGCAAAAAA-GCAAATTTGTTGTTATTGTTCTATTTTAATAGTTTGCATAGCTTC
* *
3855146 AATACATGATATTAAACTTGTT-AGAATAATTGAACTTGGTTTCCACAATTGATATGTGCGAAAA
129 AATACATGATATTAAACTT-TTCAGAATAATTGAACTTGGTTTCCACAATTGATATATGTGAAAA
* * *
3855210 AGCTAACGTTTACATTTGTTTAGGACTTTTTATGCCGTTAAAAGGTAAAATGCAAAATTGCTATT
193 AGCTAATGTTTACGTTTGTTTAGGACTTTTTATGCCGTTAAAAGGCAAAATGCAAAATTGCTATT
* * * * * * *
3855275 ATTGTTCTGTTTTAATAATTTAGATAGCTTCGACACATGATATTAAACTTGTCTGAATGATTG
258 ATTGTTCTATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTGTC-AAATGATTG
* * * *
3855338 AACTTGATTTCCACAGTTGATATGTGTGAAAAGTTATTGTTTAAATCTATTTAAGACTTTTTGTG
1 AACTTGGTTTCCACAGTTGATATGTGTGAAAAGTTATCGTTTACATCTATTTAAGACTTTTTATG
*** ** *
3855403 TTGTTAAGAGGCAAAAAAGCAAATTTGTTGTTATTGCTT-TGCTTTAATAGTTTGCATAGCTTTA
66 CCATTAAGAGGCAAAAAAGCAAATTTGTTGTTATTG-TTCTATTTTAATAGTTTGCATAGCTTCA
3855467 ATACATGATATTAAACTTTTCAGAATAATTGAACTTGGTTTCCACAATTGATATATGTGAAAAAG
130 ATACATGATATTAAACTTTTCAGAATAATTGAACTTGGTTTCCACAATTGATATATGTGAAAAAG
* * * ** *
3855532 CTAATGTTTATGTCTGCTTAGGACTTTTTATATCGTTAAAAGGCAAAATGCAAAATTGTTATTAT
195 CTAATGTTTACGTTTGTTTAGGACTTTTTATGCCGTTAAAAGGCAAAATGCAAAATTGCTATTAT
*
3855597 TGTTCTATTTTAACAGTTTGGATAGCTTTAATACATGATATTAAACTTGTCCAAATGATTG
260 TGTTCTATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTGT-CAAATGATTG
* * * * * *
3855658 AACTTGATTTTCACAGTTGATATGTGTGAAAAATTATCGTTTACGTCTACTTAAGACTTTTTGTG
1 AACTTGGTTTCCACAGTTGATATGTGTGAAAAGTTATCGTTTACATCTATTTAAGACTTTTTATG
* * * * *
3855723 CTATTAAGAGGCAAAAATGCAAATTTATTGTTATTGTTCTATTTTAACAATTTGCATAGCTTCAA
66 CCATTAAGAGGCAAAAAAGCAAATTTGTTGTTATTGTTCTATTTTAATAGTTTGCATAGCTTCAA
* * * * * * * *
3855788 TACATGATATTAAACTTCTC-GAAACAATTAAACTTGGTTTTCATAGTTGAAATGTGTGAAAAAG
131 TACATGATATTAAACTTTTCAG-AATAATTGAACTTGGTTTCCACAATTGATATATGTGAAAAAG
** * * ** * *
3855852 CTAACATTTACGTTTGCTTAGGACTTTTTATGCCATTAAAAGATAAAATGTAAATTTGCTATTAT
195 CTAATGTTTACGTTTGTTTAGGACTTTTTATGCCGTTAAAAGGCAAAATGCAAAATTGCTATTAT
* * * * *
3855917 TGTTATATTTTAACAGTTTAGATAGCTTTAATACATAATATTAAACTTGATCAAATAATT-
260 TGTTCTATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTG-TCAAATGATTG
* * * * *
3855977 AAGCTTGGTTTTCACAGTTGATACGTGTGAAAAAGCTAACGTTTACATCTATTTAGGACTTTTTA
1 AA-CTTGGTTTCCACAGTTGATATGTGTG-AAAAGTTATCGTTTACATCTATTTAAGACTTTTTA
* * * * * * * *
3856042 TGCCGTTAA-AGGAAAAAAATGCAAATTTGCTATTATTATTCTGTTTTAACAGTTTGGATAGCTT
64 TGCCATTAAGAGGCAAAAAA-GCAAATTTGTTGTTATTGTTCTATTTTAATAGTTTGCATAGCTT
* * * * *
3856106 CAATACATGATAATAAACTTGTT-TGAATTATTGAACTTGGTTTCTACGATTGATATGA-GTGAA
128 CAATACATGATATTAAACTT-TTCAGAATAATTGAACTTGGTTTCCACAATTGATAT-ATGTGAA
* * * ** * *
3856169 AAAG-TTATAGTTTTACGTCTATTTAGGA-TTAATTT-TGTTGTTAAAAGGAAAAATTACAAAAT
191 AAAGCTAAT-G-TTTACGTTTGTTTAGGACTT--TTTATGCCGTTAAAAGGCAAAA-TGCAAAA-
* * * *
3856231 TTGCTATTATTATTCTATTTTAACAGTTTGGATGGCTTCAATATATGATATT--A--T-TCGAAT
250 TTGCTATTATTGTTCTATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTGTCAAAT
3856291 GATTG
315 GATTG
* * * * * * * *
3856296 AACTTGGTTTCCACAGTTGATATATGTGAAAACGTTGTTGTTTACCTTTGTTTAGGATTTTTTAT
1 AACTTGGTTTCCACAGTTGATATGTGTGAAAA-GTTATCGTTTACATCTATTTAAGACTTTTTAT
* * * * * *
3856361 GCCATTAAAATGCAAAATAA-CAATTTTGTTGTTATTGTTCTCTTTTAATAGTTTGGATAACTTC
65 GCCATTAAGAGGCAAAA-AAGCAAATTTGTTGTTATTGTTCTATTTTAATAGTTTGCATAGCTTC
* * ** *
3856425 AATACATGATATTAAACTTTTTCA-AATGATTGAATTTGGTTTTTACAGTTGATATATGTGAAAA
129 AATACATGATATTAAAC-TTTTCAGAATAATTGAACTTGGTTTCCACAATTGATATATGTGAAAA
* ** * * * * * *
3856489 AGTTGTTGTTTATC-TTTGTTTAGGACTTTTTGTGCCATTAAAAGGCAAAAATACAAATTTGATG
193 AGCTAATGTTTA-CGTTTGTTTAGGACTTTTTATGCCGTTAAAAGGC-AAAATGCAAAATTGCTA
*
3856553 TTATTGTTCTATTTTAACAGTTTGGATAACTTCAATACATGATATTAAACTTGTCCAAATGATTG
256 TTATTGTTCTATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTGT-CAAATGATTG
* * *
3856618 AATTTGGTTTCCA-TGATTGATATGTATGAAA
1 AACTTGGTTTCCACAG-TTGATATGTGTGAAA
3856649 GAGCAAAATG
Statistics
Matches: 1097, Mismatches: 176, Indels: 75
0.81 0.13 0.06
Matches are distributed among these distances:
316 49 0.04
317 34 0.03
318 161 0.15
319 19 0.02
320 556 0.51
321 162 0.15
322 64 0.06
323 7 0.01
324 45 0.04
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.41
Consensus pattern (319 bp):
AACTTGGTTTCCACAGTTGATATGTGTGAAAAGTTATCGTTTACATCTATTTAAGACTTTTTATG
CCATTAAGAGGCAAAAAAGCAAATTTGTTGTTATTGTTCTATTTTAATAGTTTGCATAGCTTCAA
TACATGATATTAAACTTTTCAGAATAATTGAACTTGGTTTCCACAATTGATATATGTGAAAAAGC
TAATGTTTACGTTTGTTTAGGACTTTTTATGCCGTTAAAAGGCAAAATGCAAAATTGCTATTATT
GTTCTATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTGTCAAATGATTG
Found at i:3857916 original size:41 final size:41
Alignment explanation
Indices: 3857871--3857948 Score: 95
Period size: 41 Copynumber: 1.9 Consensus size: 41
3857861 TAAATTTCTT
* *
3857871 AATTTAACGACATTTGTGTTCA-AAAACACTACTAAATACTA
1 AATTTAACGACATTTGT-ATCATAAAACACCACTAAATACTA
** *
3857912 AATTTAGTGGCATTTGTATCATAAAACACCACTAAAT
1 AATTTAACGACATTTGTATCATAAAACACCACTAAAT
3857949 TTAGTGTCGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
40 3 0.10
41 28 0.90
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.32
Consensus pattern (41 bp):
AATTTAACGACATTTGTATCATAAAACACCACTAAATACTA
Found at i:3858184 original size:30 final size:30
Alignment explanation
Indices: 3858150--3858211 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 30
3858140 TAAAAATGTT
3858150 ACTAAATTAGCG-GCATTTTTATAAAATGCC
1 ACTAAATTAGCGAG-ATTTTTATAAAATGCC
* *
3858180 ACTAAATTAGTGATGTTTTTTATAAAATGCC
1 ACTAAATTAGCGA-GATTTTTATAAAATGCC
3858211 A
1 A
3858212 TTATTTTCCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 11 0.39
31 16 0.57
32 1 0.04
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (30 bp):
ACTAAATTAGCGAGATTTTTATAAAATGCC
Found at i:3859250 original size:20 final size:20
Alignment explanation
Indices: 3859214--3859251 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
3859204 AGAAAAATTG
*
3859214 ACATTTCAAAATTTTCATAA
1 ACATTTCAAAATCTTCATAA
3859234 ACATTCTCAAAA-CTTCAT
1 ACATT-TCAAAATCTTCAT
3859252 CCTAAGGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.42, C:0.21, G:0.00, T:0.37
Consensus pattern (20 bp):
ACATTTCAAAATCTTCATAA
Found at i:3859814 original size:17 final size:16
Alignment explanation
Indices: 3859792--3859844 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 16
3859782 TATTTTTTTA
3859792 TTTAAAAAAAAATTACT
1 TTTAAAAAAAAATTA-T
3859809 TTTAAAATATAAAATTAT
1 TTTAAAA-A-AAAATTAT
* *
3859827 TATTAATAAAAATTTAT
1 T-TTAAAAAAAAATTAT
3859844 T
1 T
3859845 ATCATTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
17 15 0.48
18 4 0.13
19 12 0.39
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (16 bp):
TTTAAAAAAAAATTAT
Found at i:3861734 original size:34 final size:34
Alignment explanation
Indices: 3861691--3861794 Score: 120
Period size: 34 Copynumber: 3.1 Consensus size: 34
3861681 GTAAGTCGAG
* *
3861691 AATGAAATGACCAAGATTGAACCACAAGTTAAAA
1 AATGAAATGACTAAGATTAAACCACAAGTTAAAA
** * * * *
3861725 AATGAAATGACTGGGACTAAACTATAAGTTGAAA
1 AATGAAATGACTAAGATTAAACCACAAGTTAAAA
3861759 AA-GAAATGACTAAGATTAAACCACAAGTTGAAAA
1 AATGAAATGACTAAGATTAAACCACAAGTT-AAAA
3861793 AA
1 AA
3861795 AATGATCAAG
Statistics
Matches: 55, Mismatches: 14, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
33 22 0.40
34 33 0.60
ACGTcount: A:0.53, C:0.12, G:0.16, T:0.19
Consensus pattern (34 bp):
AATGAAATGACTAAGATTAAACCACAAGTTAAAA
Found at i:3861814 original size:32 final size:33
Alignment explanation
Indices: 3861694--3861825 Score: 133
Period size: 33 Copynumber: 4.0 Consensus size: 33
3861684 AGTCGAGAAT
* * * *
3861694 GAAATGACCAAGATTGAACCACAAGTTAAAAAA
1 GAAATGACTAAGACTAAACCACAAGTTGAAAAA
** * *
3861727 TGAAATGACTGGGACTAAACTATAAGTTGAAAAA
1 -GAAATGACTAAGACTAAACCACAAGTTGAAAAA
*
3861761 GAAATGACTAAGATTAAACCACAAGTTGAAAAA
1 GAAATGACTAAGACTAAACCACAAGTTGAAAAA
* *
3861794 -AAATGA-TCAAGACTACACCACAAGCTGAAAAA
1 GAAATGACT-AAGACTAAACCACAAGTTGAAAAA
3861826 TTAAAAGACT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
31 1 0.01
32 27 0.33
33 28 0.35
34 25 0.31
ACGTcount: A:0.52, C:0.14, G:0.16, T:0.17
Consensus pattern (33 bp):
GAAATGACTAAGACTAAACCACAAGTTGAAAAA
Found at i:3862205 original size:33 final size:33
Alignment explanation
Indices: 3862132--3862211 Score: 81
Period size: 33 Copynumber: 2.5 Consensus size: 33
3862122 TAAATGACTT
* * **
3862132 AGACTGAATCG-AGGTTGAAAATGAAATGATCG
1 AGACTGAATCGCAAGATGAAAAACAAATGATCG
** *
3862164 AGGTTGAATCGCAAGATGAAAAACAAATGATGG
1 AGACTGAATCGCAAGATGAAAAACAAATGATCG
*
3862197 AGACTGAATAGCAAG
1 AGACTGAATCGCAAG
3862212 TCAAAAAATT
Statistics
Matches: 37, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
32 9 0.24
33 28 0.76
ACGTcount: A:0.44, C:0.10, G:0.28, T:0.19
Consensus pattern (33 bp):
AGACTGAATCGCAAGATGAAAAACAAATGATCG
Found at i:3864160 original size:10 final size:11
Alignment explanation
Indices: 3864135--3864159 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
3864125 ATTAACAATC
3864135 TTTTCTTTTTT
1 TTTTCTTTTTT
3864146 TTTTCTTTTTT
1 TTTTCTTTTTT
3864157 TTT
1 TTT
3864160 CAACACATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTCTTTTTT
Found at i:3868260 original size:27 final size:27
Alignment explanation
Indices: 3868228--3868289 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
3868218 TGATATTTCA
* **
3868228 ATTTTTTTCTTAACATTTTTCAAATTTT
1 ATTTTATTCTTAA-ATTCATCAAATTTT
* *
3868256 ATTTTATTTTTTAATTCATCAAATTTT
1 ATTTTATTCTTAAATTCATCAAATTTT
3868283 ATTTTAT
1 ATTTTAT
3868290 ATATAAACAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 19 0.66
28 10 0.34
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (27 bp):
ATTTTATTCTTAAATTCATCAAATTTT
Found at i:3869857 original size:27 final size:27
Alignment explanation
Indices: 3869822--3869873 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
3869812 CTCATCTTCA
* *
3869822 TTTAGTTTATTTTTCATTTCTTATTTCT
1 TTTAGTTTATTTGTCA-TGCTTATTTCT
3869850 TTTA-TTTATTTGTCATGCTTATTT
1 TTTAGTTTATTTGTCATGCTTATTT
3869874 GTAGGAAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 8 0.36
27 10 0.45
28 4 0.18
ACGTcount: A:0.15, C:0.10, G:0.06, T:0.69
Consensus pattern (27 bp):
TTTAGTTTATTTGTCATGCTTATTTCT
Found at i:3871595 original size:38 final size:39
Alignment explanation
Indices: 3871521--3871595 Score: 125
Period size: 38 Copynumber: 1.9 Consensus size: 39
3871511 GCATTTACAT
3871521 CATTTCAATTATCATATTGTTTGTTTATTTAACTTTATG
1 CATTTCAATTATCATATTGTTTGTTTATTTAACTTTATG
* *
3871560 CATTTCAATTGTCATATT-TTTTTTTATTTAACTTTA
1 CATTTCAATTATCATATTGTTTGTTTATTTAACTTTA
3871596 AATTTGTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
38 17 0.50
39 17 0.50
ACGTcount: A:0.25, C:0.11, G:0.05, T:0.59
Consensus pattern (39 bp):
CATTTCAATTATCATATTGTTTGTTTATTTAACTTTATG
Found at i:3872862 original size:747 final size:747
Alignment explanation
Indices: 3871421--3872845 Score: 1693
Period size: 747 Copynumber: 1.9 Consensus size: 747
3871411 TTGTTAGATG
* * * *
3871421 TAACCTAAATTAGGACATAATAAGGAATAGTTCATATGATATATTGGTTATTTAACTATTTTATT
1 TAACCTAAATTAGGACACAAGAAGGAACAGTTCATATGATATATTGGTTATCTAACTATTTTATT
* * *
3871486 TGTTTATTTAATTATTTGACTTTGTGCATTTACATCATTTCAATTATCATATTGTTTGTTTATTT
66 TGTGTATTTAATCATTTGACTTTGTGCATTTACATCATGTCAATTATCATATTGTTTGTTTATTT
* * * * *
3871551 AACTTTATGCATTTCAATTGTCATATTTTTTTTTATTTAACTTTAAATTTGTATTATTCCAATTG
131 AACTTTATGCATTTCAATCGTCAAATTTTTGTTTATTTAACTTTAAATTTGCATCATTCCAATTG
* * * **
3871616 TCATATAAGGATTATCTGCCATAAATTAATTATTGATAAACCAAATCTCATATCTACATTTATAT
196 TCATACAAGGATTATCTGCCACAAATCAATTATTGATAAACCAAATCTCATATCTACATCCATAT
*
3871681 AAGGTCAAATGAAATCAAAGTTTACATCAACTCATTATGAACCTTCTCACCAATTAAATGATAAC
261 AAAGTCAAATGAAATCAAAGTTTACATCAACTCATTATGAACCTTCTCACCAATTAAATGATAAC
* * *
3871746 TCAAAATAAGTCTAAAGAAAAGAAAGTGATTATCTGCCTCAAAAGTTTACCTTATATCTTCATAA
326 TAAAAAGAAGTCTAAAGAAAAGAAAGTGATGATCTGCCTCAAAAGTTTACCTTATATCTTCATAA
* * * *
3871811 GAGAGTTCATCTTAACCTCTAGCAAAATGACTTGACTGACTTAAACAACGTTTAGAGATGTTTGA
391 GAGAGTTCATCTGAACCTCTAACAAAATGACTTGACTAACTTAAACAACGTTTAGAGATGTATGA
** ** * * ** ** * *
3871876 AAGGAACGAGATAGAAGATATTTGAGAATAGATATGGGGACATTATTTCACTTCTTCAAGTGATT
456 AAAAAAAAAGATAGAAGATATTTAAGAATAAATATAAGGACAGGACTTCACTTCTCCAAGTGATT
* * ** *
3871941 GTGGACTATAATCTTATTAGAGCTATTATGCAGCTTTAGGATTTTTTTTATAGATACTTTGTCAT
521 GTGGACTATAATATGATTAGAGCTATTATGCAGCTTTAGGATCCTTTTTATAAATACTTTGTCAT
* *
3872006 CAATGAAGTAGATATGGTGCGTACCATAAAAAAGTACACAATTTTGCTTCAACTAGATCCATCGA
586 CAATGAAGTAGATATGATGCCTACCATAAAAAAGTACACAATTTTGCTTCAACTAGATCCATCGA
*
3872071 ATCCAAATAAAATCTATTGAACAAACAAGACAAGTTATCATAAAAAGCTTGACAAAATGCTTGGA
651 ATCCAAATAAAATCTATTGAACAAACAAGACAAGTCATCATAAAAAGCTTGACAAAATGCTTGGA
3872136 TTTAGTTTGCCTTAGGTTAATGTTTGTAAATA
716 TTTAGTTTGCCTTAGGTTAATGTTTGTAAATA
** *
3872168 TAACCTAAATTAGGACACAAGAAGGAACAGTTTGTATGATATATTGGTTATCTAATTATTTTATT
1 TAACCTAAATTAGGACACAAGAAGGAACAGTTCATATGATATATTGGTTATCTAACTATTTTATT
** *
3872233 TGTGTATTTAATCATTTGACTTTGTGCATTTGTATCATGTCAATTGTCATATTGTTTGTTTATTT
66 TGTGTATTTAATCATTTGACTTTGTGCATTTACATCATGTCAATTATCATATTGTTTGTTTATTT
*
3872298 AACTTTATGCATTTCAATCGTCAAATTGTTTGTTTATTTAACTTTACATTTGCATCATTCCAATT
131 AACTTTATGCATTTCAATCGTCAAATT-TTTGTTTATTTAACTTTAAATTTGCATCATTCCAATT
* * * * * *
3872363 GTCATACAGGGATTGTTTGCCCCATATCAATTATTGATAAA-CAAGATTTCATATCTACATCCAT
195 GTCATACAAGGATTATCTGCCACAAATCAATTATTGATAAACCAA-ATCTCATATCTACATCCAT
* * *
3872427 GA-AAAGTCAAAT-ACAATCAAAGTTTACATCAACTCGTT-TAGAACCTTCTTACCAGTTGAAA-
259 -ATAAAGTCAAATGA-AATCAAAGTTTACATCAACTCATTAT-GAACCTTCTCACCAATT-AAAT
* * * * * *
3872488 GTTAAGTAAAAAGAAGT-TCAAAGAAAA-AAGAGTGATGGTCTGCTTGAAGATTTTGTTT-CCTT
320 GATAACTAAAAAGAAGTCT-AAAGAAAAGAA-AGTGATGATCTGCCTCAA-A---AGTTTACCTT
* * * *** * * *
3872550 -T-T-TTCTTGAGAGAGTTTATCTCGATTTTC-AATAAAATGACTTGGCTAACTTAAACAATGTT
379 ATATCTTCATAAGAGAGTTCATCT-GAACCTCTAACAAAATGACTTGACTAACTTAAACAACGTT
* *
3872611 T-GAAGATGTAT-AAATAAAAAAAGATAG-GGATATTTAAGAATAAATATAAGGACACGGCCTT-
443 TAG-AGATGTATGAAA-AAAAAAAGATAGAAGATATTTAAGAATAAATATAAGGACA-GGACTTC
* *
3872672 ACTTCTCCAAGTGGA-TGTGGACTATAATATGATTAGAGCTATTATGCAGTTTTGGGATCCTTTT
505 ACTTCTCCAAGT-GATTGTGGACTATAATATGATTAGAGCTATTATGCAGCTTTAGGATCCTTTT
** ** * * *** *
3872736 TATAAATGTTTTGTTTTCAAT-AATGTAGATATGATGCCTACCATCAAAGAGTACATGGTTTTGT
569 TATAAATACTTTGTCATCAATGAA-GTAGATATGATGCCTACCATAAAAAAGTACACAATTTTGC
* * *
3872800 TTTAACTAGATCCA-CTGAATCTAGATAAAATCTATT-AGACAAACAA
633 TTCAACTAGATCCATC-GAATCCAAATAAAATCTATTGA-ACAAACAA
3872846 TAAGTACATT
Statistics
Matches: 566, Mismatches: 92, Indels: 40
0.81 0.13 0.06
Matches are distributed among these distances:
746 4 0.01
747 317 0.56
748 227 0.40
749 9 0.02
750 1 0.00
751 4 0.01
752 4 0.01
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.38
Consensus pattern (747 bp):
TAACCTAAATTAGGACACAAGAAGGAACAGTTCATATGATATATTGGTTATCTAACTATTTTATT
TGTGTATTTAATCATTTGACTTTGTGCATTTACATCATGTCAATTATCATATTGTTTGTTTATTT
AACTTTATGCATTTCAATCGTCAAATTTTTGTTTATTTAACTTTAAATTTGCATCATTCCAATTG
TCATACAAGGATTATCTGCCACAAATCAATTATTGATAAACCAAATCTCATATCTACATCCATAT
AAAGTCAAATGAAATCAAAGTTTACATCAACTCATTATGAACCTTCTCACCAATTAAATGATAAC
TAAAAAGAAGTCTAAAGAAAAGAAAGTGATGATCTGCCTCAAAAGTTTACCTTATATCTTCATAA
GAGAGTTCATCTGAACCTCTAACAAAATGACTTGACTAACTTAAACAACGTTTAGAGATGTATGA
AAAAAAAAAGATAGAAGATATTTAAGAATAAATATAAGGACAGGACTTCACTTCTCCAAGTGATT
GTGGACTATAATATGATTAGAGCTATTATGCAGCTTTAGGATCCTTTTTATAAATACTTTGTCAT
CAATGAAGTAGATATGATGCCTACCATAAAAAAGTACACAATTTTGCTTCAACTAGATCCATCGA
ATCCAAATAAAATCTATTGAACAAACAAGACAAGTCATCATAAAAAGCTTGACAAAATGCTTGGA
TTTAGTTTGCCTTAGGTTAATGTTTGTAAATA
Found at i:3877559 original size:33 final size:33
Alignment explanation
Indices: 3877521--3877611 Score: 121
Period size: 33 Copynumber: 2.8 Consensus size: 33
3877511 GATTATATAG
3877521 AATTTCAATAATAGTAAATAATAAAGATACGTT
1 AATTTCAATAATAGTAAATAATAAAGATACGTT
* *
3877554 AATTTCAATGATAGTAAATAATAAAGATAGGTT
1 AATTTCAATAATAGTAAATAATAAAGATACGTT
* * *
3877587 AAATTCTAAAAATAATAAA-AATAAA
1 AATTTC-AATAATAGTAAATAATAAA
3877612 ATTTTGAAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
33 42 0.82
34 9 0.18
ACGTcount: A:0.56, C:0.04, G:0.09, T:0.31
Consensus pattern (33 bp):
AATTTCAATAATAGTAAATAATAAAGATACGTT
Found at i:3882547 original size:22 final size:23
Alignment explanation
Indices: 3882519--3882568 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
3882509 AAACAATCCC
*
3882519 ATAAAAATTAAAAATTATAA-TT
1 ATAAAAATTAAAAATTAAAATTT
* *
3882541 ATAAAAATTTAAATTTAAAATTT
1 ATAAAAATTAAAAATTAAAATTT
3882564 ATAAA
1 ATAAA
3882569 TTGAAAGCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 17 0.71
23 7 0.29
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
ATAAAAATTAAAAATTAAAATTT
Found at i:3882568 original size:15 final size:15
Alignment explanation
Indices: 3882526--3882570 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
3882516 CCCATAAAAA
3882526 TTAAAAATTAT-AAT
1 TTAAAAATTATAAAT
3882540 TATAAAAATT-TAAAT
1 T-TAAAAATTATAAAT
*
3882555 TTAAAATTTATAAAT
1 TTAAAAATTATAAAT
3882570 T
1 T
3882571 GAAAGCTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 9 0.33
15 18 0.67
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TTAAAAATTATAAAT
Found at i:3887023 original size:12 final size:11
Alignment explanation
Indices: 3887001--3887051 Score: 61
Period size: 11 Copynumber: 4.8 Consensus size: 11
3886991 GGCACCGAAG
3887001 AAAAAAGA-AA
1 AAAAAAGAGAA
**
3887011 AAAAATTAGAA
1 AAAAAAGAGAA
3887022 AAAAAAGAGAA
1 AAAAAAGAGAA
3887033 AAAAAAG-GAA
1 AAAAAAGAGAA
*
3887043 AAAAGAGAG
1 AAAAAAGAG
3887052 CTACCAATTG
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
10 15 0.44
11 19 0.56
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.04
Consensus pattern (11 bp):
AAAAAAGAGAA
Found at i:3887043 original size:21 final size:21
Alignment explanation
Indices: 3887001--3887051 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
3886991 GGCACCGAAG
3887001 AAAAAAGA-AAAAAAATTAGAA
1 AAAAAAGAGAAAAAAA-TAGAA
3887022 AAAAAAGAGAAAAAAA-AGGAA
1 AAAAAAGAGAAAAAAATA-GAA
*
3887043 AAAAGAGAG
1 AAAAAAGAG
3887052 CTACCAATTG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 1 0.04
21 19 0.70
22 7 0.26
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.04
Consensus pattern (21 bp):
AAAAAAGAGAAAAAAATAGAA
Found at i:3891533 original size:54 final size:54
Alignment explanation
Indices: 3891472--3891582 Score: 204
Period size: 54 Copynumber: 2.1 Consensus size: 54
3891462 CCCTTCCTTG
*
3891472 GATCATCATCTCACCTAAAAAGCTAACATGTTCAAATCATAAGATTAGGAATAA
1 GATCATCATCTCACCTAAAAAGCTAACAAGTTCAAATCATAAGATTAGGAATAA
*
3891526 GATCATCATCTCACCTAAAAAGCTAACAAGTTCAAATCATAAGATTAGGAATGA
1 GATCATCATCTCACCTAAAAAGCTAACAAGTTCAAATCATAAGATTAGGAATAA
3891580 GAT
1 GAT
3891583 GATAAAACTT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.44, C:0.18, G:0.13, T:0.25
Consensus pattern (54 bp):
GATCATCATCTCACCTAAAAAGCTAACAAGTTCAAATCATAAGATTAGGAATAA
Found at i:3894130 original size:21 final size:20
Alignment explanation
Indices: 3894088--3894137 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
3894078 GGCATTGAAA
*
3894088 AAAAGAAAGAAAAAAACTAG
1 AAAAGAAAGAAAAAAACGAG
**
3894108 AAAAGAAATGAAAAAAGGGAG
1 AAAAGAAA-GAAAAAAACGAG
*
3894129 AAAGGAAAG
1 AAAAGAAAG
3894138 TTACCAGTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 9 0.36
21 16 0.64
ACGTcount: A:0.70, C:0.02, G:0.24, T:0.04
Consensus pattern (20 bp):
AAAAGAAAGAAAAAAACGAG
Found at i:3896371 original size:17 final size:17
Alignment explanation
Indices: 3896347--3896391 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
3896337 TTTTTTAGGA
*
3896347 TATAATATTTATGTTAT
1 TATAATATTTATGTAAT
*
3896364 TGTAATATTCTATGTAAT
1 TATAATATT-TATGTAAT
3896382 TAT-ATATTTA
1 TATAATATTTA
3896392 AATATAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
16 2 0.08
17 13 0.54
18 9 0.38
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.56
Consensus pattern (17 bp):
TATAATATTTATGTAAT
Found at i:3897850 original size:2 final size:2
Alignment explanation
Indices: 3897845--3897879 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
3897835 CATATATATA
*
3897845 TG TG TG TG TG TG TG GG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
3897880 AATAAAAGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.00, G:0.51, T:0.49
Consensus pattern (2 bp):
TG
Found at i:3900485 original size:632 final size:617
Alignment explanation
Indices: 3899517--3900697 Score: 1565
Period size: 632 Copynumber: 1.9 Consensus size: 617
3899507 AATCTAACAT
*
3899517 TATTATAATGTATCATTAATCTTATATAAGTATATAAAATCATTATATTATTTTTATATATATTT
1 TATTATAATGTATCATTAATCTTATATAAATATATAAAATCATTATATTATTTTTATATATATTT
* * * * *
3899582 ATACATGAATAATATCAATTACTCAATTAAATATCATATTTAATCAAATATGAATGTATCGAATA
66 ATACATAAATAATAACAATTACTCAAGTAAATATCATATTTAATCAAATATGAACGTATCAAATA
* *
3899647 ATTGATTAAGAAGTCAACTCTTATCTGTAAATGGTTATTAATTTTTTAATAATATTTCTGATTAG
131 ATTGATTAAGAAGTAAACTCTTAGCTGTAAATGGTTATTAATTTTTTAATAATATTTCTGATTAG
*
3899712 ATTTCAATAGAAGTTCTGTGAATCATTAAAAAAAATGTTTAATTACTATAATTATAATGTTTATT
196 ATTTCAATAGAAATTCTGTGAATCATTAAAAAAAATGTTTAATTACTATAATTATAATGTTTATT
* **
3899777 AATTCTTTGAATCATTAAGATATTGTTTAATTATAATGCATCATTGATTTAGCTTTGATCTATAA
261 AATTCTTTGAATCATTAAGATATTGTTTAATTATAATGAATCATTGATTTAGCTTCAATC-ATAA
* * **
3899842 TTTATGATATTTTTATTGGAAATAAAAGGTAAGTTAA-TTGAAATTTTAAAAGAAAATAAATATA
325 TTTAAGATA-TTTTATTGGAAATAAAAGGTAAGTCAACTT-AAAACTTAAAAGAAAATAAATATA
* * *
3899906 ATTAATATATTGAAATATTTTAAAATTTTAAAATTTTTATGAAATCAAATCAATTTATATC-ATC
388 ATGAATACATTGAAATATTTT---A----AAAA-TTTTATGAAATCAAATCAATTCATATCAAT-
* * *
3899970 TTAAAAAGAAATAAATATGAATCAATAAAATTAATACAAGACATGTGGCAATTGAT-AAAGATTG
444 TT-AAAA-AAATAAATATGAATAAATAAAATTAATACAAGACACGTGACAATTGATAAAAG-TTG
* * * *
3900034 TCCATATGTCAATTTTATAGGCCATTCATATTGAACATTTTTTTTTTTTGCCAAAAGTTTTGACT
506 TCCACATGTCAATATTATACGCCA-TCACATTGAACATTTTTTTTTTTTGCCAAAAGTTTTGACT
3900099 TTTATATATTTATATAAGATTGATGTTATAACGAAAACAAAAATTTAA
570 TTTATATATTTATATAAGATTGATGTTATAACGAAAACAAAAATTTAA
* * *
3900147 TATTATAATGTGTCCTTAATCTTATATAAATATATGAAATCATTATATTATTTATATATATATAT
1 TATTATAATGTATCATTAATCTTATATAAATATATAAAATCATTATATTATTT-T-TATATATAT
* * * * **
3900212 TTATACATAAATAATAACCATTATTTAGGTGGATATCATATTTAATCAAATATGAACGTATCAAA
64 TTATACATAAATAATAACAATTACTCAAGTAAATATCATATTTAATCAAATATGAACGTATCAAA
* * *
3900277 TAATTGATTAAGGAGTAAACTCTTGGCTGTAATTATAGTGGTTATTAAAATTTTTTTATAATATT
129 TAATTGATTAAGAAGTAAACTCTTAGCTGT-A--A-A-TGGTTATT--AATTTTTTAATAATATT
* * * * *
3900342 TTTTATTATATTTCAATAGAAATTCTTTGAATCATT-AAAAAAA-GTTTAA-TGCTAGTAATTAT
187 TCTGATTAGATTTCAATAGAAATTCTGTGAATCATTAAAAAAAATGTTTAATTACTA-TAATTAT
* * *
3900404 AATGTTTATTAATTCTTTGAATCATTAA-AT-TTTTTTTATTATAATATAAT-ATTGATTTAGCT
251 AATGTTTATTAATTCTTTGAATCATTAAGATATTGTTTAATTATAAT-GAATCATTGATTTAGCT
3900466 TCAATC-T-ATTTAAGATATTTTATTGGAAATAAAAGGTAAGTCAACTTAAAACTTAAAAGAAAA
315 TCAATCATAATTTAAGATATTTTATTGGAAATAAAAGGTAAGTCAACTTAAAACTTAAAAGAAAA
*
3900529 TAAATATAATGAATGCATTGAAATATTTTAAAAATTTTATGAAATCAAATCAATTCATATCAATT
380 TAAATATAATGAATACATTGAAATATTTTAAAAATTTTATGAAATCAAATCAATTCATATCAATT
* ** * * *
3900594 TAAAAAAATAAATATGAATAAATATAATTAATGTAGGATACGTGACAATTGATAAAAGTTGTTCA
445 TAAAAAAATAAATATGAATAAATAAAATTAATACAAGACACGTGACAATTGATAAAAGTTGTCCA
3900659 CATGTCAATATTATACGCCATCACATTGAACATTTTTTT
510 CATGTCAATATTATACGCCATCACATTGAACATTTTTTT
3900698 GAAGACAAAA
Statistics
Matches: 484, Mismatches: 53, Indels: 38
0.84 0.09 0.07
Matches are distributed among these distances:
620 18 0.04
621 63 0.13
622 8 0.02
623 28 0.06
624 6 0.01
628 1 0.00
630 49 0.10
631 67 0.14
632 100 0.21
633 2 0.00
635 30 0.06
636 9 0.02
637 49 0.10
638 7 0.01
639 47 0.10
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.42
Consensus pattern (617 bp):
TATTATAATGTATCATTAATCTTATATAAATATATAAAATCATTATATTATTTTTATATATATTT
ATACATAAATAATAACAATTACTCAAGTAAATATCATATTTAATCAAATATGAACGTATCAAATA
ATTGATTAAGAAGTAAACTCTTAGCTGTAAATGGTTATTAATTTTTTAATAATATTTCTGATTAG
ATTTCAATAGAAATTCTGTGAATCATTAAAAAAAATGTTTAATTACTATAATTATAATGTTTATT
AATTCTTTGAATCATTAAGATATTGTTTAATTATAATGAATCATTGATTTAGCTTCAATCATAAT
TTAAGATATTTTATTGGAAATAAAAGGTAAGTCAACTTAAAACTTAAAAGAAAATAAATATAATG
AATACATTGAAATATTTTAAAAATTTTATGAAATCAAATCAATTCATATCAATTTAAAAAAATAA
ATATGAATAAATAAAATTAATACAAGACACGTGACAATTGATAAAAGTTGTCCACATGTCAATAT
TATACGCCATCACATTGAACATTTTTTTTTTTTGCCAAAAGTTTTGACTTTTATATATTTATATA
AGATTGATGTTATAACGAAAACAAAAATTTAA
Found at i:3900843 original size:10 final size:10
Alignment explanation
Indices: 3900828--3900854 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
3900818 TGAATACATA
3900828 ATTACATAAT
1 ATTACATAAT
3900838 ATTACATAAT
1 ATTACATAAT
3900848 ATTACAT
1 ATTACAT
3900855 TAACAATTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (10 bp):
ATTACATAAT
Found at i:3901527 original size:2 final size:2
Alignment explanation
Indices: 3901520--3901549 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
3901510 GACTAACCTC
*
3901520 AT AT AT AT AT AT AT AC AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3901550 CTGAAAGTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:3909974 original size:322 final size:320
Alignment explanation
Indices: 3909096--3910348 Score: 1194
Period size: 322 Copynumber: 3.9 Consensus size: 320
3909086 AAAACACAAT
* * * ** * * ** *
3909096 ATAACAATAAATTTGCATTTTTGCCTTTTAATAGCATAAAAAATCTTAAACAAACCCTAAATGAT
1 ATAACAACAAATTTACATTTTTGCCTTTTAACA-CATAAAAAGCCATAAACAAA-CATAAACAAC
* * * *
3909161 AACTTTTTCACACATATCAATTATGAAATTTAAATTCAATCATT-GGACAAGTTTAGTATTATGT
64 AACTTTTTCACACATATCAATTATGAAAATCAAATTCAATCATTCAGACAAGTTTAGTATCATGT
* * * * * * *
3909225 ATTTAAGCTATTGAAATTGTTAAAACAAAACAATAATAGTAAATTTGCATTTTTGCGTTTTAATA
129 ATTTAAGCTATCGAAATTGTTAAAATAAAACAATAACAATAAATTTACATTTTTGCCTTTTAACA
* * * * * * *
3909290 GCACAAAAAGCACTAAACAGACAT-AAACGATAATTTTTTCACAGATATGAATAATGGAAACTAA
194 ACATAAAAAGCACTAAACA-A-ATGAAACGGTAACTTTTTCACACATATGAATAATGAAAACCAA
3909354 ATTCAATCATTCGGATAAGTTTAATATCATGTATTTAAGCTATCAAAATTGTTAAAATAGAACA
257 ATTCAATCATTCGGATAAGTTTAATATCATGTATTTAAGCTATCAAAATTGTTAAAATAGAACA
* * * *
3909418 ATAACAACAAATTTATATTTTTACCTTTTAACACACAAAACG-CACTAAACAAACATAAACAACA
1 ATAACAACAAATTTACATTTTTGCCTTTTAACACATAAAAAGCCA-TAAACAAACATAAACAACA
* **
3909482 ACTTTTTCACACATATGAATTATGAAAATCAAATTCAATCATTC-GAACAAGTTTAGTATCATAC
65 ACTTTTTCACACATATCAATTATGAAAATCAAATTCAATCATTCAG-ACAAGTTTAGTATCATGT
* * * * *
3909546 ATATAAGCTATCGAAATTATTAAAATGAAACAATAACAATAAAATTACATTTTTGCCTTTTAACG
129 ATTTAAGCTATCGAAATTGTTAAAATAAAACAATAACAATAAATTTACATTTTTGCCTTTTAACA
*** * * ** *
3909611 ACATAAAAAGCACTAAATTGATGTAAACAGTAACCTTTTCACACATATGAACCATGAAAACCAAG
194 ACATAAAAAGCACTAAACAAATG-AAACGGTAACTTTTTCACACATATGAATAATGAAAACCAAA
* * * * *
3909676 TTCAATCATTTGGACAAGTTTAGTATTATGTATTTAAGCTATCGAAATTGTTAAAATAGAACA
258 TTCAATCATTCGGATAAGTTTAATATCATGTATTTAAGCTATCAAAATTGTTAAAATAGAACA
* * * ** *
3909739 ATAACATCAAATTTGCATTTTTGCCTTTTAACAACATAAAAGGCCATAAACAAATGTAAACAGCA
1 ATAACAACAAATTTACATTTTTGCCTTTTAAC-ACATAAAAAGCCATAAACAAACATAAACAACA
* * * * *
3909804 ACTTTTTCACACATATCAATCATGAAAATCAAGTTCTATCATTCATACAACTTTAGTATCATGTA
65 ACTTTTTCACACATATCAATTATGAAAATCAAATTCAATCATTCAGACAAGTTTAGTATCATGTA
* * * *
3909869 TTTAAGCTATCAAAATTGTTAAAATAGAACAATAACAACAAATTTATATTTTTGCCTTTTAACAA
130 TTTAAGCTATCGAAATTGTTAAAATAAAACAATAACAATAAATTTACATTTTTGCCTTTTAACAA
* * ** ***
3909934 CATAACAAGTC-CTAAACAAATGCAAACGGTAACTTTTTCACACATATCAATTGTGAAAACCTTC
195 CATAAAAAG-CACTAAACAAATG-AAACGGTAACTTTTTCACACATATGAATAATGAAAACCAAA
* * * * * *
3909998 TTCAATTATTCGGATAAGTTTAATATCATGTATTTAAGCTACCCAAATGGTTAAAACATAACA
258 TTCAATCATTCGGATAAGTTTAATATCATGTATTTAAGCTATCAAAATTGTTAAAATAGAACA
** * * * * **
3910061 ATAACAGGAAATTTACATTTTTGCCTTTTAACGACATAAAAAACCCTAAACAGACATAAATATTA
1 ATAACAACAAATTTACATTTTTGCCTTTTAAC-ACATAAAAAGCCATAAACAAACATAAACAACA
* * * * * * * * *
3910126 ATTTTTTCACATATATCAATGATAGAAACT-AAGTTTAATCATTTAGATAAGTTTAATATCATGT
65 ACTTTTTCACACATATCAATTAT-GAAAATCAAATTCAATCATTCAGACAAGTTTAGTATCATGT
* * * * * *** * *
3910190 GTTAAAACTATCCAAATTGTTAAAATAAAACAATAATAGCCAATTTGCA-TTTTGACCTTTTAAT
129 ATTTAAGCTATCGAAATTGTTAAAATAAAACAATAACAATAAATTTACATTTTTG-CCTTTTAAC
* * * * ** * * * * *
3910254 AGCATAAAAAGTCA-TAAGCAAACGTTAACGACAATTTTTTCATACATATCAACAGTG-AAACTC
193 AACATAAAAAG-CACTAAACAAATG-AAACGGTAACTTTTTCACACATATGAATAATGAAAAC-C
* *
3910317 AAGTTCAAAT-ATTCAGATAAGTTTAATATCAT
255 AAATTC-AATCATTCGGATAAGTTTAATATCAT
3910349 AAACTTACTT
Statistics
Matches: 765, Mismatches: 152, Indels: 28
0.81 0.16 0.03
Matches are distributed among these distances:
319 2 0.00
320 49 0.06
321 223 0.29
322 480 0.63
323 11 0.01
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (320 bp):
ATAACAACAAATTTACATTTTTGCCTTTTAACACATAAAAAGCCATAAACAAACATAAACAACAA
CTTTTTCACACATATCAATTATGAAAATCAAATTCAATCATTCAGACAAGTTTAGTATCATGTAT
TTAAGCTATCGAAATTGTTAAAATAAAACAATAACAATAAATTTACATTTTTGCCTTTTAACAAC
ATAAAAAGCACTAAACAAATGAAACGGTAACTTTTTCACACATATGAATAATGAAAACCAAATTC
AATCATTCGGATAAGTTTAATATCATGTATTTAAGCTATCAAAATTGTTAAAATAGAACA
Found at i:3910213 original size:483 final size:479
Alignment explanation
Indices: 3909096--3910348 Score: 1385
Period size: 483 Copynumber: 2.6 Consensus size: 479
3909086 AAAACACAAT
* * * * * * *
3909096 ATAACAATAAATTTGCATTTTTGCCTTTTAA-TAGCATAAAAAATCTTAAACAAACCCTAAATGA
1 ATAACAAGAAATTTACATTTTTGCCTTTTAACGA-CATAAAAAACCCTAAACAGA-CATAAAT-A
* * *
3909160 TAACTTTTTCACACATATCAATTATGAAATTTAAATTCAATCA-TTGGACAAGTTTAGTATTATG
63 TAACTTTTTCACACATATCAATCATGAAA-CTAAGTTCAATCATTTGGACAAGTTTAGTATTATG
* * *
3909224 TATTTAAGCTATTGAAATTGTTAAAACAAAACAATAATAGT-AAATTTGCATTTTTGCGTTTTAA
127 TATTTAAGCTATCGAAATTGTTAAAATAAAACAATAATA-TCAAATTTGCATTTTTGCCTTTTAA
* * * * * * * *
3909288 TAGCACAAAAAGCACTAAACAGACATAAACGATAATTTTTTCACAGATATGAATAATGGAAA-CT
191 TAGCATAAAAAGCA-TAAACAAACGTAAACGACAATTTTTTCACACATATCAATCATGAAAATC-
* * * *
3909352 AAATTCAATCATTCGGATAAGTTTAATATCATGTATTTAAGCTATCAAAATTGTTAAAATAGAAC
254 AAGTTCAATCATTCAGACAACTTTAATATCATGTATTTAAGCTATCAAAATTGTTAAAATAGAAC
* *
3909417 AATAACAACAAATTTATATTTTTACCTTTTAACACACAAAACGCACTAAACAAACATAAACAACA
319 AATAACAACAAATTTATATTTTTACCTTTTAACACACAAAAAGCACTAAACAAACACAAACAACA
* * *
3909482 ACTTTTTCACACATATGAATTATGAAAATCAAATTCAATCATTCGAACAAGTTTAGTATCATACA
384 ACTTTTTCACACATATCAATTATGAAAACCAAATTCAATCATTCGAACAAGTTTAATATCATACA
* * * *
3909547 TATAAGCTATCGAAATTATTAAAATGAAACA
449 TATAAGCTACCCAAATGATTAAAATCAAACA
* * * * ** ** *
3909578 ATAACAATAAAATTACATTTTTGCCTTTTAACGACATAAAAAGCACTAAATTGATGTAAACAGTA
1 ATAACAAGAAATTTACATTTTTGCCTTTTAACGACATAAAAAACCCTAAACAGACATAAATA-TA
* * * *
3909643 ACCTTTTCACACATATGAACCATGAAAACCAAGTTCAATCATTTGGACAAGTTTAGTATTATGTA
65 ACTTTTTCACACATATCAATCATG-AAACTAAGTTCAATCATTTGGACAAGTTTAGTATTATGTA
* * * *
3909708 TTTAAGCTATCGAAATTGTTAAAATAGAACAATAACATCAAATTTGCATTTTTGCCTTTTAACAA
129 TTTAAGCTATCGAAATTGTTAAAATAAAACAATAATATCAAATTTGCATTTTTGCCTTTTAATAG
* * *
3909773 CATAAAAGGCCATAAACAAATGTAAAC-AGCAACTTTTTCACACATATCAATCATGAAAATCAAG
194 CATAAAAAG-CATAAACAAACGTAAACGA-CAATTTTTTCACACATATCAATCATGAAAATCAAG
* * *
3909837 TTCTATCATTCATACAACTTTAGTATCATGTATTTAAGCTATCAAAATTGTTAAAATAGAACAAT
257 TTCAATCATTCAGACAACTTTAATATCATGTATTTAAGCTATCAAAATTGTTAAAATAGAACAAT
* ** ***
3909902 AACAACAAATTTATATTTTTGCCTTTTAACA-ACATAACAAGTC-CTAAACAAATGCAAACGGTA
322 AACAACAAATTTATATTTTTACCTTTTAACACACA-AA-AAG-CACTAAACAAACACAAACAACA
* *** * * * **
3909965 ACTTTTTCACACATATCAATTGTGAAAACCTTCTTCAATTATTCGGATAAGTTTAATATCATGTA
384 ACTTTTTCACACATATCAATTATGAAAACCAAATTCAATCATTCGAACAAGTTTAATATCATACA
* *
3910030 TTTAAGCTACCCAAATGGTTAAAA-CATAACA
449 TATAAGCTACCCAAATGATTAAAATCA-AACA
*
3910061 ATAACAGGAAATTTACATTTTTGCCTTTTAACGACATAAAAAACCCTAAACAGACATAAATATTA
1 ATAACAAGAAATTTACATTTTTGCCTTTTAACGACATAAAAAACCCTAAACAGACATAAATA-TA
* * * * * * * * *
3910126 ATTTTTTCACATATATCAATGATAGAAACTAAGTTTAATCATTTAGATAAGTTTAATATCATGTG
65 ACTTTTTCACACATATCAATCAT-GAAACTAAGTTCAATCATTTGGACAAGTTTAGTATTATGTA
* * * * *
3910191 TTAAAACTATCCAAATTGTTAAAATAAAACAATAATAGCCAATTTGCA-TTTTGACCTTTTAATA
129 TTTAAGCTATCGAAATTGTTAAAATAAAACAATAATATCAAATTTGCATTTTTG-CCTTTTAATA
* * * *
3910255 GCATAAAAAGTCATAAGCAAACGTTAACGACAATTTTTTCATACATATCAA-CAGTGAAACTCAA
193 GCATAAAAAG-CATAAACAAACGTAAACGACAATTTTTTCACACATATCAATCA-TGAAAATCAA
* *
3910319 GTTCAAAT-ATTCAGATAAGTTTAATATCAT
256 GTTC-AATCATTCAGACAACTTTAATATCAT
3910349 AAACTTACTT
Statistics
Matches: 637, Mismatches: 117, Indels: 33
0.81 0.15 0.04
Matches are distributed among these distances:
480 1 0.00
481 41 0.06
482 268 0.42
483 322 0.51
484 5 0.01
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (479 bp):
ATAACAAGAAATTTACATTTTTGCCTTTTAACGACATAAAAAACCCTAAACAGACATAAATATAA
CTTTTTCACACATATCAATCATGAAACTAAGTTCAATCATTTGGACAAGTTTAGTATTATGTATT
TAAGCTATCGAAATTGTTAAAATAAAACAATAATATCAAATTTGCATTTTTGCCTTTTAATAGCA
TAAAAAGCATAAACAAACGTAAACGACAATTTTTTCACACATATCAATCATGAAAATCAAGTTCA
ATCATTCAGACAACTTTAATATCATGTATTTAAGCTATCAAAATTGTTAAAATAGAACAATAACA
ACAAATTTATATTTTTACCTTTTAACACACAAAAAGCACTAAACAAACACAAACAACAACTTTTT
CACACATATCAATTATGAAAACCAAATTCAATCATTCGAACAAGTTTAATATCATACATATAAGC
TACCCAAATGATTAAAATCAAACA
Found at i:3910337 original size:161 final size:160
Alignment explanation
Indices: 3909096--3910348 Score: 1085
Period size: 161 Copynumber: 7.8 Consensus size: 160
3909086 AAAACACAAT
* * * * * * *
3909096 ATAACAATAAATTTGCATTTTTGCCTTTTAATAGCATAAAAAATCTTAAACAAACCCTAAATGAT
1 ATAACAACAAATTTACATTTTTGCCTTTTAACAGCAT-AAAAAGCATAAACAAA-CGTAAACGAT
* * * * *
3909161 AACTTTTTCACACATATCAATTATGAAATTTAAATTCAATCATT-GGACAAGTTTAGTATTATGT
64 AACTTTTTCACACATATCAATTATGAAACTCAAGTTCAATCATTCGGACAAGTTTAATATCATGT
* *
3909225 ATTTAAGCTATTGAAATTGTTAAAACAAAACA
129 ATTTAAGCTATCGAAATTGTTAAAATAAAACA
* ** * * * * * *
3909257 ATAATAGTAAATTTGCATTTTTGCGTTTTAATAGCACAAAAAGCACTAAACAGACATAAACGATA
1 ATAACAACAAATTTACATTTTTGCCTTTTAACAGCATAAAAAGCA-TAAACAAACGTAAACGATA
* * * * * *
3909322 ATTTTTTCACAGATATGAATAATGGAAACT-AAATTCAATCATTCGGATAAGTTTAATATCATGT
65 ACTTTTTCACACATATCAATTAT-GAAACTCAAGTTCAATCATTCGGACAAGTTTAATATCATGT
* *
3909386 ATTTAAGCTATCAAAATTGTTAAAATAGAACA
129 ATTTAAGCTATCGAAATTGTTAAAATAAAACA
* * * * * * *
3909418 ATAACAACAAATTTATATTTTTACCTTTTAACA-CACAAAACGCACTAAACAAACATAAACAACA
1 ATAACAACAAATTTACATTTTTGCCTTTTAACAGCATAAAAAGCA-TAAACAAACGTAAACGATA
* * * * * **
3909482 ACTTTTTCACACATATGAATTATGAAAATCAAATTCAATCATTCGAACAAGTTTAGTATCATACA
65 ACTTTTTCACACATATCAATTATGAAACTCAAGTTCAATCATTCGGACAAGTTTAATATCATGTA
* * *
3909547 TATAAGCTATCGAAATTATTAAAATGAAACA
130 TTTAAGCTATCGAAATTGTTAAAATAAAACA
* * *** *
3909578 ATAACAATAAAATTACATTTTTGCCTTTTAAC-GACATAAAAAGCACTAAATTGATGTAAAC-AG
1 ATAACAACAAATTTACATTTTTGCCTTTTAACAG-CATAAAAAGCA-TAAACAAACGTAAACGA-
* * ** * * *
3909641 TAACCTTTTCACACATATGAACCATGAAAAC-CAAGTTCAATCATTTGGACAAGTTTAGTATTAT
63 TAACTTTTTCACACATATCAATTATG-AAACTCAAGTTCAATCATTCGGACAAGTTTAATATCAT
*
3909705 GTATTTAAGCTATCGAAATTGTTAAAATAGAACA
127 GTATTTAAGCTATCGAAATTGTTAAAATAAAACA
* * * * * *
3909739 ATAACATCAAATTTGCATTTTTGCCTTTTAACAACATAAAAGGCCATAAACAAATGTAAAC-AGC
1 ATAACAACAAATTTACATTTTTGCCTTTTAACAGCATAAAAAG-CATAAACAAACGTAAACGA-T
* * * ** * *
3909803 AACTTTTTCACACATATCAATCATGAAAATCAAGTTCTATCATTCATACAACTTTAGTATCATGT
64 AACTTTTTCACACATATCAATTATGAAACTCAAGTTCAATCATTCGGACAAGTTTAATATCATGT
* *
3909868 ATTTAAGCTATCAAAATTGTTAAAATAGAACA
129 ATTTAAGCTATCGAAATTGTTAAAATAAAACA
* * * * * * *
3909900 ATAACAACAAATTTATATTTTTGCCTTTTAACAACATAACAAGTCCTAAACAAATGCAAACGGTA
1 ATAACAACAAATTTACATTTTTGCCTTTTAACAGCATAAAAAG-CATAAACAAACGTAAACGATA
* *** * *
3909965 ACTTTTTCACACATATCAATTGTGAAAAC-CTTCTTCAATTATTCGGATAAGTTTAATATCATGT
65 ACTTTTTCACACATATCAATTATG-AAACTCAAGTTCAATCATTCGGACAAGTTTAATATCATGT
* * * * *
3910029 ATTTAAGCTACCCAAATGGTTAAAACATAACA
129 ATTTAAGCTATCGAAATTGTTAAAATAAAACA
** * * * * *
3910061 ATAACAGGAAATTTACATTTTTGCCTTTTAAC-GACATAAAAAACCCTAAACAGACATAAA-TAT
1 ATAACAACAAATTTACATTTTTGCCTTTTAACAG-CAT-AAAAAGCATAAACAAACGTAAACGA-
* * * * ** *
3910124 TAATTTTTTCACATATATCAATGATAGAAACT-AAGTTTAATCATTTAGATAAGTTTAATATCAT
63 TAACTTTTTCACACATATCAATTAT-GAAACTCAAGTTCAATCATTCGGACAAGTTTAATATCAT
* * * *
3910188 GTGTTAAAACTATCCAAATTGTTAAAATAAAACA
127 GTATTTAAGCTATCGAAATTGTTAAAATAAAACA
* * * * * * * *
3910222 ATAATAGCCAATTTGCA-TTTTGACCTTTTAATAGCATAAAAAGTCATAAGCAAACGTTAACGAC
1 ATAACAACAAATTTACATTTTTG-CCTTTTAACAGCATAAAAAG-CATAAACAAACGTAAACGAT
* * * * *
3910286 AATTTTTTCATACATATCAA-CAGTGAAACTCAAGTTCAAAT-ATTCAGATAAGTTTAATATCAT
64 AACTTTTTCACACATATCAATTA-TGAAACTCAAGTTC-AATCATTCGGACAAGTTTAATATCAT
3910349 AAACTTACTT
Statistics
Matches: 897, Mismatches: 170, Indels: 50
0.80 0.15 0.04
Matches are distributed among these distances:
159 5 0.01
160 199 0.22
161 675 0.75
162 18 0.02
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (160 bp):
ATAACAACAAATTTACATTTTTGCCTTTTAACAGCATAAAAAGCATAAACAAACGTAAACGATAA
CTTTTTCACACATATCAATTATGAAACTCAAGTTCAATCATTCGGACAAGTTTAATATCATGTAT
TTAAGCTATCGAAATTGTTAAAATAAAACA
Done.