Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 11 of 328
Found at i:3296359 original size:19 final size:18
Alignment explanation
Indices: 3296304--3296351 Score: 78
Period size: 18 Copynumber: 2.6 Consensus size: 18
3296294 TATACGTTAT
*
3296304 TATTTATTATTATTACTA
1 TATTTTTTATTATTACTA
3296322 TATTTTTTATTATTACTA
1 TATTTTTTATTATTACTA
3296340 TATTTTTGTATT
1 TATTTTT-TATT
3296352 CTTTCTATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (18 bp):
TATTTTTTATTATTACTA
Found at i:3299438 original size:25 final size:25
Alignment explanation
Indices: 3299341--3299462 Score: 106
Period size: 25 Copynumber: 4.8 Consensus size: 25
3299331 TAAAATAATA
*
3299341 TAAAATAAATAATATA--ACAAGGTT
1 TAAAATAAATAATATATGA-AAAGTT
* * *
3299365 TAAAATAAATGATAAATGAAACCA-AT
1 TAAAATAAATAATATATGAAA--AGTT
* * *
3299391 TAAAGTAAAAAAATATATAAAAAGTT
1 TAAAAT-AAATAATATATGAAAAGTT
*
3299417 TAAAATAAATAATATATGAAAATTT
1 TAAAATAAATAATATATGAAAAGTT
*
3299442 TAAAATAAATAATAAATGAAA
1 TAAAATAAATAATATATGAAA
3299463 TGATTCAGAA
Statistics
Matches: 77, Mismatches: 15, Indels: 11
0.75 0.15 0.11
Matches are distributed among these distances:
24 14 0.18
25 39 0.51
26 13 0.17
27 11 0.14
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (25 bp):
TAAAATAAATAATATATGAAAAGTT
Found at i:3299743 original size:50 final size:49
Alignment explanation
Indices: 3299678--3299791 Score: 119
Period size: 50 Copynumber: 2.3 Consensus size: 49
3299668 AAACTGTTCC
** *
3299678 AAATAAAT-AC-TATGAAAGATTTATAA-TAAAAGAAATAAATAAGTTTAA
1 AAATAAATAACATATGAAAGACCTA-AAGTAAAA-AAATAAACAAGTTTAA
*
3299726 AAATAAATAACATATGAAAAGACCTAAAGTAATAAAATAAACAAGTTTAA
1 AAATAAATAACATATG-AAAGACCTAAAGTAAAAAAATAAACAAGTTTAA
* *
3299776 TAA-AAATAATATATGA
1 AAATAAATAACATATGA
3299792 GATATTAAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
48 9 0.16
49 13 0.23
50 23 0.41
51 11 0.20
ACGTcount: A:0.61, C:0.04, G:0.08, T:0.26
Consensus pattern (49 bp):
AAATAAATAACATATGAAAGACCTAAAGTAAAAAAATAAACAAGTTTAA
Found at i:3299821 original size:19 final size:18
Alignment explanation
Indices: 3299755--3299825 Score: 54
Period size: 19 Copynumber: 3.7 Consensus size: 18
3299745 AGACCTAAAG
*
3299755 TAAT-AAAATAAACAAGTT
1 TAATAAAAATAAATAAG-T
*
3299773 TAATAAAAATAATATATGAGA
1 TAATAAAAATAA-ATA--AGT
*
3299794 TATTAAAAAATAAATAAGCT
1 TAAT-AAAAATAAATAAG-T
3299814 TAATAAAAATAA
1 TAATAAAAATAA
3299826 TATATGTAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
18 4 0.10
19 17 0.40
20 5 0.12
21 6 0.14
22 10 0.24
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.28
Consensus pattern (18 bp):
TAATAAAAATAAATAAGT
Found at i:3299827 original size:22 final size:21
Alignment explanation
Indices: 3299761--3299827 Score: 57
Period size: 22 Copynumber: 3.2 Consensus size: 21
3299751 AAAGTAATAA
*
3299761 AATAAACAAGTTTAATAAAAAT
1 AATAAATAAG-TTAATAAAAAT
* * * *
3299783 AATATATGAGAT-ATTAAAA-
1 AATAAATAAGTTAATAAAAAT
3299802 AATAAATAAGCTTAATAAAAAT
1 AATAAATAAG-TTAATAAAAAT
3299824 AATA
1 AATA
3299828 TATGTAAAAT
Statistics
Matches: 33, Mismatches: 9, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
19 8 0.24
20 7 0.21
21 7 0.21
22 11 0.33
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.28
Consensus pattern (21 bp):
AATAAATAAGTTAATAAAAAT
Found at i:3302451 original size:17 final size:17
Alignment explanation
Indices: 3302426--3302460 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
3302416 TAACTACATG
*
3302426 ATATATAAAAATTTTAA
1 ATATATAAAAACTTTAA
*
3302443 ATATGTAAAAACTTTAA
1 ATATATAAAAACTTTAA
3302460 A
1 A
3302461 ATACATGGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (17 bp):
ATATATAAAAACTTTAA
Found at i:3304172 original size:6 final size:6
Alignment explanation
Indices: 3304161--3304231 Score: 142
Period size: 6 Copynumber: 11.8 Consensus size: 6
3304151 GGTTGCTTAT
3304161 GTGTGG GTGTGG GTGTGG GTGTGG GTGTGG GTGTGG GTGTGG GTGTGG
1 GTGTGG GTGTGG GTGTGG GTGTGG GTGTGG GTGTGG GTGTGG GTGTGG
3304209 GTGTGG GTGTGG GTGTGG GTGTG
1 GTGTGG GTGTGG GTGTGG GTGTG
3304232 AAGTGAAAGA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 65 1.00
ACGTcount: A:0.00, C:0.00, G:0.66, T:0.34
Consensus pattern (6 bp):
GTGTGG
Found at i:3305401 original size:20 final size:21
Alignment explanation
Indices: 3305373--3305416 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
3305363 AAACCTATGG
3305373 AAATATATA-AAAATATTATAA
1 AAATATATATAAAAT-TTATAA
*
3305394 AAAT-TATATGAAATTTATAA
1 AAATATATATAAAATTTATAA
3305414 AAA
1 AAA
3305417 AAATCAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (21 bp):
AAATATATATAAAATTTATAA
Found at i:3310533 original size:25 final size:25
Alignment explanation
Indices: 3310484--3310536 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
3310474 AGATAAAATA
3310484 TTTAAATTATATTTATTTAACTTAAT
1 TTTAAATTATATTTA-TTAACTTAAT
*
3310510 TTTAAATTATATTTCA-TAATTTAAT
1 TTTAAATTATATTT-ATTAACTTAAT
3310535 TT
1 TT
3310537 ATTAAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 10 0.40
26 14 0.56
27 1 0.04
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (25 bp):
TTTAAATTATATTTATTAACTTAAT
Found at i:3316684 original size:10 final size:10
Alignment explanation
Indices: 3316641--3316689 Score: 57
Period size: 10 Copynumber: 5.0 Consensus size: 10
3316631 ATGAGTCATA
3316641 ATTTTTTAAT
1 ATTTTTTAAT
3316651 ATTGTTTTAAT
1 ATT-TTTTAAT
*
3316662 A-CTTTT-AT
1 ATTTTTTAAT
*
3316670 ATTTTTTACT
1 ATTTTTTAAT
3316680 ATTTTTTAAT
1 ATTTTTTAAT
3316690 TTATAATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
8 3 0.09
9 8 0.25
10 13 0.41
11 8 0.25
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (10 bp):
ATTTTTTAAT
Found at i:3316686 original size:19 final size:19
Alignment explanation
Indices: 3316641--3316691 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 19
3316631 ATGAGTCATA
3316641 ATTTTTTAATATTGTTTTAAT
1 ATTTTTT-ATATT-TTTTAAT
* *
3316662 A-CTTTTATATTTTTTACT
1 ATTTTTTATATTTTTTAAT
3316680 ATTTTTTA-ATTT
1 ATTTTTTATATTT
3316692 ATAATTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
18 11 0.42
19 10 0.38
20 4 0.15
21 1 0.04
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.69
Consensus pattern (19 bp):
ATTTTTTATATTTTTTAAT
Found at i:3316712 original size:25 final size:24
Alignment explanation
Indices: 3316665--3316714 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
3316655 TTTTAATACT
* * *
3316665 TTTATATTTTTTACTATTTTTTAA
1 TTTATAATTTTTACAATTATTTAA
3316689 TTTATAATTTTTACAATTAATTTAA
1 TTTATAATTTTTACAATT-ATTTAA
3316714 T
1 T
3316715 AATCTTGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 16 0.73
25 6 0.27
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (24 bp):
TTTATAATTTTTACAATTATTTAA
Found at i:3325032 original size:17 final size:17
Alignment explanation
Indices: 3325010--3325045 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
3325000 AAGATGAACC
*
3325010 AAATTTTTATTATTTTT
1 AAATTTTTATTAATTTT
*
3325027 AAATTTTTTTTAATTTT
1 AAATTTTTATTAATTTT
3325044 AA
1 AA
3325046 TGATTTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
AAATTTTTATTAATTTT
Found at i:3327807 original size:10 final size:10
Alignment explanation
Indices: 3327802--3327834 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
3327792 GATTTTTTGA
3327802 TTTTTTTAA-
1 TTTTTTTAAT
3327811 TTTTTTTAAT
1 TTTTTTTAAT
3327821 TTTTTTTAAT
1 TTTTTTTAAT
3327831 TTTT
1 TTTT
3327835 AAATTATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 9 0.39
10 14 0.61
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTTTAAT
Found at i:3327808 original size:9 final size:9
Alignment explanation
Indices: 3327794--3327834 Score: 64
Period size: 9 Copynumber: 4.4 Consensus size: 9
3327784 TTAATTTTGA
*
3327794 TTTTTTGAT
1 TTTTTTAAT
3327803 TTTTTTAAT
1 TTTTTTAAT
3327812 TTTTTTAATT
1 TTTTTTAA-T
3327822 TTTTTTAAT
1 TTTTTTAAT
3327831 TTTT
1 TTTT
3327835 AAATTATTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
9 21 0.70
10 9 0.30
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.80
Consensus pattern (9 bp):
TTTTTTAAT
Found at i:3327848 original size:19 final size:18
Alignment explanation
Indices: 3327801--3327849 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
3327791 TGATTTTTTG
*
3327801 ATTTTT-TTAATTTTTTTA
1 ATTTTTATTAA-TTTTTAA
*
3327819 ATTTTTTTTAATTTTTAA
1 ATTTTTATTAATTTTTAA
3327837 ATTATTTATTAAT
1 ATT-TTTATTAAT
3327850 GTGACATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 15 0.56
19 12 0.44
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
ATTTTTATTAATTTTTAA
Found at i:3331145 original size:14 final size:14
Alignment explanation
Indices: 3331126--3331155 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
3331116 TTTTCTATCA
3331126 TACCAAATTCTGCC
1 TACCAAATTCTGCC
3331140 TACCAAATTCTGCC
1 TACCAAATTCTGCC
3331154 TA
1 TA
3331156 AATAAAAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.33, G:0.07, T:0.30
Consensus pattern (14 bp):
TACCAAATTCTGCC
Found at i:3332005 original size:16 final size:15
Alignment explanation
Indices: 3331981--3332012 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
3331971 GAGAACAGTA
3331981 AAATATTAAAAAAAT
1 AAATATTAAAAAAAT
3331996 AAATACTTAAAAAAAT
1 AAATA-TTAAAAAAAT
3332012 A
1 A
3332013 GACTTATCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (15 bp):
AAATATTAAAAAAAT
Found at i:3334521 original size:18 final size:18
Alignment explanation
Indices: 3334478--3334522 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
3334468 AAAGAAAAGT
*
3334478 GAGATGAAAGAAAATAAA
1 GAGATGATAGAAAATAAA
3334496 GAGATGATAGAAAATAAA
1 GAGATGATAGAAAATAAA
3334514 GAGATGATA
1 GAGATGATA
3334523 ACTTTTCTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.60, C:0.00, G:0.24, T:0.16
Consensus pattern (18 bp):
GAGATGATAGAAAATAAA
Found at i:3335367 original size:20 final size:20
Alignment explanation
Indices: 3335326--3335368 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
3335316 AGAAAATCCT
* *
3335326 AAAATTTCAAAATATCAGAA
1 AAAATTTCAAAAAATCACAA
3335346 AAAATTT-AAAAAATCATCAA
1 AAAATTTCAAAAAATCA-CAA
3335366 AAA
1 AAA
3335369 TGAAAAATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.65, C:0.09, G:0.02, T:0.23
Consensus pattern (20 bp):
AAAATTTCAAAAAATCACAA
Found at i:3339076 original size:28 final size:28
Alignment explanation
Indices: 3339036--3339092 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
3339026 ACACGAGAAA
3339036 AAGATAGTTTATATTTTTTAACCATTGT
1 AAGATAGTTTATATTTTTTAACCATTGT
3339064 AAGATAGTTTATATTTTTTAACCATTGT
1 AAGATAGTTTATATTTTTTAACCATTGT
3339092 A
1 A
3339093 GTTAAAGTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.33, C:0.07, G:0.11, T:0.49
Consensus pattern (28 bp):
AAGATAGTTTATATTTTTTAACCATTGT
Found at i:3349766 original size:5 final size:5
Alignment explanation
Indices: 3349758--3349783 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
3349748 AACAGATACA
3349758 AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT A
3349784 GATGTTATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:3352961 original size:14 final size:14
Alignment explanation
Indices: 3352923--3352961 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
3352913 TGTTTTTGAG
3352923 TTTATGATATTTTAT
1 TTTAT-ATATTTTAT
* *
3352938 TCTATTTATTTTAT
1 TTTATATATTTTAT
3352952 TTTATATATT
1 TTTATATATT
3352962 ATGTTATTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
14 16 0.80
15 4 0.20
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (14 bp):
TTTATATATTTTAT
Found at i:3356831 original size:36 final size:36
Alignment explanation
Indices: 3356788--3356860 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
3356778 GCTCAGTGAA
3356788 TGGTTTATTCCACAATTCATCCAACTACCTATTGGT
1 TGGTTTATTCCACAATTCATCCAACTACCTATTGGT
3356824 TGGTTTATTCCACAATTCATCCAACTACCTATTGGT
1 TGGTTTATTCCACAATTCATCCAACTACCTATTGGT
3356860 T
1 T
3356861 AAAGCTTATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.25, C:0.25, G:0.11, T:0.40
Consensus pattern (36 bp):
TGGTTTATTCCACAATTCATCCAACTACCTATTGGT
Found at i:3357432 original size:15 final size:14
Alignment explanation
Indices: 3357408--3357446 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 14
3357398 TTTAAACATT
3357408 TGTTAAACAGATTA
1 TGTTAAACAGATTA
3357422 TGTTCAAACAGATTA
1 TGTT-AAACAGATTA
3357437 TGTTTAAACA
1 TG-TTAAACA
3357447 TGTGTTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 4 0.17
15 17 0.74
16 2 0.09
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.36
Consensus pattern (14 bp):
TGTTAAACAGATTA
Found at i:3358287 original size:21 final size:21
Alignment explanation
Indices: 3358261--3358306 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
3358251 TAGAAAATAA
* *
3358261 TTTTTGGAAAA-TTGATTGATT
1 TTTTTGAAAAAGTTGA-TAATT
3358282 TTTTTGAAAAAGTTGATAATT
1 TTTTTGAAAAAGTTGATAATT
3358303 TTTT
1 TTTT
3358307 ATGTTTGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.54
Consensus pattern (21 bp):
TTTTTGAAAAAGTTGATAATT
Found at i:3366959 original size:17 final size:17
Alignment explanation
Indices: 3366933--3366967 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
3366923 AAGGGTTATA
* *
3366933 TTTAAGTTTTTATATTT
1 TTTAAATTTTTAAATTT
3366950 TTTAAATTTTTAAATTT
1 TTTAAATTTTTAAATTT
3366967 T
1 T
3366968 AATCTTGATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (17 bp):
TTTAAATTTTTAAATTT
Found at i:3384689 original size:6 final size:6
Alignment explanation
Indices: 3384678--3384704 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
3384668 CCCTTCTCCG
3384678 TCCGCT TCCGCT TCCGCT TCCGCT TCC
1 TCCGCT TCCGCT TCCGCT TCCGCT TCC
3384705 ACTTGGCCGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.52, G:0.15, T:0.33
Consensus pattern (6 bp):
TCCGCT
Found at i:3385675 original size:17 final size:16
Alignment explanation
Indices: 3385653--3385684 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
3385643 ATTTAATTAT
3385653 ATAAAAAAAAGTTAAAG
1 ATAAAAAAAA-TTAAAG
3385670 ATAAAAAAAATTAAA
1 ATAAAAAAAATTAAA
3385685 ATCTTATACC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (16 bp):
ATAAAAAAAATTAAAG
Found at i:3392291 original size:13 final size:13
Alignment explanation
Indices: 3392273--3392299 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3392263 TATTGCATTA
3392273 TGTTTTTGGATAT
1 TGTTTTTGGATAT
3392286 TGTTTTTGGATAT
1 TGTTTTTGGATAT
3392299 T
1 T
3392300 ATTTGTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.22, T:0.63
Consensus pattern (13 bp):
TGTTTTTGGATAT
Found at i:3392309 original size:23 final size:23
Alignment explanation
Indices: 3392283--3392331 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
3392273 TGTTTTTGGA
*
3392283 TATTGTTTT-TGGATATTATTTGT
1 TATTATTTTATGGATATT-TTTGT
**
3392306 TATTATTTTATGTTTATTTTTGT
1 TATTATTTTATGGATATTTTTGT
3392329 TAT
1 TAT
3392332 ATGGTGGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 16 0.73
24 6 0.27
ACGTcount: A:0.18, C:0.00, G:0.12, T:0.69
Consensus pattern (23 bp):
TATTATTTTATGGATATTTTTGT
Found at i:3393838 original size:259 final size:259
Alignment explanation
Indices: 3393379--3394138 Score: 1360
Period size: 259 Copynumber: 3.0 Consensus size: 259
3393369 TTGTTCAAGC
3393379 CCTAATTCACCCGCTTTCTCCTTTCCCGCTCCTCGGCGGAGGCGATGGCGGAGCCACCGGAGTCG
1 CCTAATTCACCCGCTTTCTCCTTTCCCGCTCCTCGGCGGAGGCGATGGCGGAGCCACCGGAGTCG
3393444 AGTCTCGCGACTGTTACCTCAATATGTACGCTGTTAAAAAGCCCGACAAAGTCGACCCGAATGAG
66 AGTCTCGCGACTGTTACCTCAATATGTACGCTGTTAAAAAGCCCGACAAAGTCGACCCGAATGAG
3393509 CAAAGGTTCGGTAAGTGACTCAATTGCGCTTTATCCAATGACCCCTTAAGAGAACCTTGCGTCAT
131 CAAAGGTTCGGTAAGTGACTCAATTGCGCTTTATCCAATGACCCCTTAAGAGAACCTTGCGTCAT
3393574 TGATAAACTAGGCAATATTTTTAACAAGGAAGCTCTTGTTCAAGCTTTGTTGGGCAAGAAGTTT
196 TGATAAACTAGGCAATATTTTTAACAAGGAAGCTCTTGTTCAAGCTTTGTTGGGCAAGAAGTTT
3393638 CCTAATTCACCCGCTTTCTCCTTTCCCGCTCCTCGGCGGAGGCGATGGCGGAGCCACCGGAGTCG
1 CCTAATTCACCCGCTTTCTCCTTTCCCGCTCCTCGGCGGAGGCGATGGCGGAGCCACCGGAGTCG
* *
3393703 AGTCTCGCGACTGTTACCTCAAGATCTACGCTGTTAAAAAGCCCGACAAAGTCGACCCGAATGAG
66 AGTCTCGCGACTGTTACCTCAATATGTACGCTGTTAAAAAGCCCGACAAAGTCGACCCGAATGAG
3393768 CAAAGGTTCGGTAAGTGACTCAATTGCGCTTTATCCAATGACCCCTTAAGAGAACCTTGCGTCAT
131 CAAAGGTTCGGTAAGTGACTCAATTGCGCTTTATCCAATGACCCCTTAAGAGAACCTTGCGTCAT
3393833 TGATAAACTAGGCAATATTTTTAACAAGGAAGCTCTTGTTCAA----------GC---------
196 TGATAAACTAGGCAATATTTTTAACAAGGAAGCTCTTGTTCAAGCTTTGTTGGGCAAGAAGTTT
3393878 CCTAATTCACCCGCTTTCTCCTTTCCCGCTCCTCGGCGGAGGCGATGGCGGAGCCACCGGAGTCG
1 CCTAATTCACCCGCTTTCTCCTTTCCCGCTCCTCGGCGGAGGCGATGGCGGAGCCACCGGAGTCG
3393943 AGTCTCGCGACTGTTACCTCAATATGTACGCTGTTAAAAAGCCCGACAAAGTCGACCCGAATGAG
66 AGTCTCGCGACTGTTACCTCAATATGTACGCTGTTAAAAAGCCCGACAAAGTCGACCCGAATGAG
*
3394008 CAAAGGTTCGGTAAGTGACTCAATTGCGCTTTATCCAATGACCCCTTAAGAAAACCTTGCGTCAT
131 CAAAGGTTCGGTAAGTGACTCAATTGCGCTTTATCCAATGACCCCTTAAGAGAACCTTGCGTCAT
3394073 TGATAAACTAGGCAATATTTTTAACAAGGAAGCTCTTGTTCAAGCTTTGTTGGGCAAGAAGTTT
196 TGATAAACTAGGCAATATTTTTAACAAGGAAGCTCTTGTTCAAGCTTTGTTGGGCAAGAAGTTT
3394137 CC
1 CC
3394139 CAAAGGGTTC
Statistics
Matches: 477, Mismatches: 5, Indels: 38
0.92 0.01 0.07
Matches are distributed among these distances:
240 235 0.49
249 2 0.00
250 2 0.00
259 238 0.50
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (259 bp):
CCTAATTCACCCGCTTTCTCCTTTCCCGCTCCTCGGCGGAGGCGATGGCGGAGCCACCGGAGTCG
AGTCTCGCGACTGTTACCTCAATATGTACGCTGTTAAAAAGCCCGACAAAGTCGACCCGAATGAG
CAAAGGTTCGGTAAGTGACTCAATTGCGCTTTATCCAATGACCCCTTAAGAGAACCTTGCGTCAT
TGATAAACTAGGCAATATTTTTAACAAGGAAGCTCTTGTTCAAGCTTTGTTGGGCAAGAAGTTT
Found at i:3394066 original size:240 final size:240
Alignment explanation
Indices: 3393139--3394117 Score: 1726
Period size: 240 Copynumber: 4.0 Consensus size: 240
3393129 TAAACCAAAT
*
3393139 CCCTAATTCACCCGCTTTCTCCTTTCCCGCTCCTCAGCGGAGGCGATGGCGGAGCCACCGGAGTC
1 CCCTAATTCACCCGCTTTCTCCTTTCCCGCTCCTCGGCGGAGGCGATGGCGGAGCCACCGGAGTC
3393204 GAGTCTCGCGACTGTTACCTCAAGATCTACGCTGTTAAAAAGCCCGACAAAGTCGACCCGAATGA
66 GAGTCTCGCGACTGTTACCTCAAGATCTACGCTGTTAAAAAGCCCGACAAAGTCGACCCGAATGA
3393269 GCAAAGGTTCGGTAAGTGACTCAATTGCGCTTTATCCAATGA-CCCTTAAGAGAACCTTGCGTCA
131 GCAAAGGTTCGGTAAGTGACTCAATTGCGCTTTATCCAATGACCCCTTAAGAGAACCTTGCGTCA
3393333 TTGATAAACTAGGCAATATTTTTAACAAGGAAGCTCTTGTTCAAG
196 TTGATAAACTAGGCAATATTTTTAACAAGGAAGCTCTTGTTCAAG
3393378 CCCTAATTCACCCGCTTTCTCCTTTCCCGCTCCTCGGCGGAGGCGATGGCGGAGCCACCGGAGTC
1 CCCTAATTCACCCGCTTTCTCCTTTCCCGCTCCTCGGCGGAGGCGATGGCGGAGCCACCGGAGTC
* *
3393443 GAGTCTCGCGACTGTTACCTCAATATGTACGCTGTTAAAAAGCCCGACAAAGTCGACCCGAATGA
66 GAGTCTCGCGACTGTTACCTCAAGATCTACGCTGTTAAAAAGCCCGACAAAGTCGACCCGAATGA
3393508 GCAAAGGTTCGGTAAGTGACTCAATTGCGCTTTATCCAATGACCCCTTAAGAGAACCTTGCGTCA
131 GCAAAGGTTCGGTAAGTGACTCAATTGCGCTTTATCCAATGACCCCTTAAGAGAACCTTGCGTCA
3393573 TTGATAAACTAGGCAATATTTTTAACAAGGAAGCTCTTGTTCAAGCTTTGTTGGG
196 TTGATAAACTAGGCAATATTTTTAACAAGGAAGCTCTTGTTCAA----------G
3393628 CAAGAAGTTTCCTAATTCACCCGCTTTCTCCTTTCCCGCTCCTCGGCGGAGGCGATGGCGGAGCC
1 C---------CCTAATTCACCCGCTTTCTCCTTTCCCGCTCCTCGGCGGAGGCGATGGCGGAGCC
3393693 ACCGGAGTCGAGTCTCGCGACTGTTACCTCAAGATCTACGCTGTTAAAAAGCCCGACAAAGTCGA
57 ACCGGAGTCGAGTCTCGCGACTGTTACCTCAAGATCTACGCTGTTAAAAAGCCCGACAAAGTCGA
3393758 CCCGAATGAGCAAAGGTTCGGTAAGTGACTCAATTGCGCTTTATCCAATGACCCCTTAAGAGAAC
122 CCCGAATGAGCAAAGGTTCGGTAAGTGACTCAATTGCGCTTTATCCAATGACCCCTTAAGAGAAC
3393823 CTTGCGTCATTGATAAACTAGGCAATATTTTTAACAAGGAAGCTCTTGTTCAAG
187 CTTGCGTCATTGATAAACTAGGCAATATTTTTAACAAGGAAGCTCTTGTTCAAG
3393877 CCCTAATTCACCCGCTTTCTCCTTTCCCGCTCCTCGGCGGAGGCGATGGCGGAGCCACCGGAGTC
1 CCCTAATTCACCCGCTTTCTCCTTTCCCGCTCCTCGGCGGAGGCGATGGCGGAGCCACCGGAGTC
* *
3393942 GAGTCTCGCGACTGTTACCTCAATATGTACGCTGTTAAAAAGCCCGACAAAGTCGACCCGAATGA
66 GAGTCTCGCGACTGTTACCTCAAGATCTACGCTGTTAAAAAGCCCGACAAAGTCGACCCGAATGA
*
3394007 GCAAAGGTTCGGTAAGTGACTCAATTGCGCTTTATCCAATGACCCCTTAAGAAAACCTTGCGTCA
131 GCAAAGGTTCGGTAAGTGACTCAATTGCGCTTTATCCAATGACCCCTTAAGAGAACCTTGCGTCA
3394072 TTGATAAACTAGGCAATATTTTTAACAAGGAAGCTCTTGTTCAAG
196 TTGATAAACTAGGCAATATTTTTAACAAGGAAGCTCTTGTTCAAG
3394117 C
1 C
3394118 TTTGTTGGGC
Statistics
Matches: 712, Mismatches: 8, Indels: 39
0.94 0.01 0.05
Matches are distributed among these distances:
239 169 0.24
240 303 0.43
249 2 0.00
250 2 0.00
259 236 0.33
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (240 bp):
CCCTAATTCACCCGCTTTCTCCTTTCCCGCTCCTCGGCGGAGGCGATGGCGGAGCCACCGGAGTC
GAGTCTCGCGACTGTTACCTCAAGATCTACGCTGTTAAAAAGCCCGACAAAGTCGACCCGAATGA
GCAAAGGTTCGGTAAGTGACTCAATTGCGCTTTATCCAATGACCCCTTAAGAGAACCTTGCGTCA
TTGATAAACTAGGCAATATTTTTAACAAGGAAGCTCTTGTTCAAG
Found at i:3394077 original size:499 final size:498
Alignment explanation
Indices: 3393140--3394138 Score: 1971
Period size: 499 Copynumber: 2.0 Consensus size: 498
3393130 AAACCAAATC
3393140 CCTAATTCACCCGCTTTCTCCTTTCCCGCTCCTCAGCGGAGGCGATGGCGGAGCCACCGGAGTCG
1 CCTAATTCACCCGCTTTCTCCTTTCCCGCTCCTCAGCGGAGGCGATGGCGGAGCCACCGGAGTCG
3393205 AGTCTCGCGACTGTTACCTCAAGATCTACGCTGTTAAAAAGCCCGACAAAGTCGACCCGAATGAG
66 AGTCTCGCGACTGTTACCTCAAGATCTACGCTGTTAAAAAGCCCGACAAAGTCGACCCGAATGAG
3393270 CAAAGGTTCGGTAAGTGACTCAATTGCGCTTTATCCAATGACCCTTAAGAGAACCTTGCGTCATT
131 CAAAGGTTCGGTAAGTGACTCAATTGCGCTTTATCCAATGACCCTTAAGAGAACCTTGCGTCATT
3393335 GATAAACTAGGCAATATTTTTAACAAGGAAGCTCTTGTTCAAGCCCTAATTCACCCGCTTTCTCC
196 GATAAACTAGGCAATATTTTTAACAAGGAAGCTCTTGTTCAAGCCCTAATTCACCCGCTTTCTCC
3393400 TTTCCCGCTCCTCGGCGGAGGCGATGGCGGAGCCACCGGAGTCGAGTCTCGCGACTGTTACCTCA
261 TTTCCCGCTCCTCGGCGGAGGCGATGGCGGAGCCACCGGAGTCGAGTCTCGCGACTGTTACCTCA
3393465 ATATGTACGCTGTTAAAAAGCCCGACAAAGTCGACCCGAATGAGCAAAGGTTCGGTAAGTGACTC
326 ATATGTACGCTGTTAAAAAGCCCGACAAAGTCGACCCGAATGAGCAAAGGTTCGGTAAGTGACTC
*
3393530 AATTGCGCTTTATCCAATGACCCCTTAAGAGAACCTTGCGTCATTGATAAACTAGGCAATATTTT
391 AATTGCGCTTTATCCAATGACCCCTTAAGAAAACCTTGCGTCATTGATAAACTAGGCAATATTTT
3393595 TAACAAGGAAGCTCTTGTTCAAGCTTTGTTGGGCAAGAAGTTT
456 TAACAAGGAAGCTCTTGTTCAAGCTTTGTTGGGCAAGAAGTTT
*
3393638 CCTAATTCACCCGCTTTCTCCTTTCCCGCTCCTCGGCGGAGGCGATGGCGGAGCCACCGGAGTCG
1 CCTAATTCACCCGCTTTCTCCTTTCCCGCTCCTCAGCGGAGGCGATGGCGGAGCCACCGGAGTCG
3393703 AGTCTCGCGACTGTTACCTCAAGATCTACGCTGTTAAAAAGCCCGACAAAGTCGACCCGAATGAG
66 AGTCTCGCGACTGTTACCTCAAGATCTACGCTGTTAAAAAGCCCGACAAAGTCGACCCGAATGAG
3393768 CAAAGGTTCGGTAAGTGACTCAATTGCGCTTTATCCAATGACCCCTTAAGAGAACCTTGCGTCAT
131 CAAAGGTTCGGTAAGTGACTCAATTGCGCTTTATCCAATGA-CCCTTAAGAGAACCTTGCGTCAT
3393833 TGATAAACTAGGCAATATTTTTAACAAGGAAGCTCTTGTTCAAGCCCTAATTCACCCGCTTTCTC
195 TGATAAACTAGGCAATATTTTTAACAAGGAAGCTCTTGTTCAAGCCCTAATTCACCCGCTTTCTC
3393898 CTTTCCCGCTCCTCGGCGGAGGCGATGGCGGAGCCACCGGAGTCGAGTCTCGCGACTGTTACCTC
260 CTTTCCCGCTCCTCGGCGGAGGCGATGGCGGAGCCACCGGAGTCGAGTCTCGCGACTGTTACCTC
3393963 AATATGTACGCTGTTAAAAAGCCCGACAAAGTCGACCCGAATGAGCAAAGGTTCGGTAAGTGACT
325 AATATGTACGCTGTTAAAAAGCCCGACAAAGTCGACCCGAATGAGCAAAGGTTCGGTAAGTGACT
3394028 CAATTGCGCTTTATCCAATGACCCCTTAAGAAAACCTTGCGTCATTGATAAACTAGGCAATATTT
390 CAATTGCGCTTTATCCAATGACCCCTTAAGAAAACCTTGCGTCATTGATAAACTAGGCAATATTT
3394093 TTAACAAGGAAGCTCTTGTTCAAGCTTTGTTGGGCAAGAAGTTT
455 TTAACAAGGAAGCTCTTGTTCAAGCTTTGTTGGGCAAGAAGTTT
3394137 CC
1 CC
3394139 CAAAGGGTTC
Statistics
Matches: 498, Mismatches: 2, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
498 170 0.34
499 328 0.66
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (498 bp):
CCTAATTCACCCGCTTTCTCCTTTCCCGCTCCTCAGCGGAGGCGATGGCGGAGCCACCGGAGTCG
AGTCTCGCGACTGTTACCTCAAGATCTACGCTGTTAAAAAGCCCGACAAAGTCGACCCGAATGAG
CAAAGGTTCGGTAAGTGACTCAATTGCGCTTTATCCAATGACCCTTAAGAGAACCTTGCGTCATT
GATAAACTAGGCAATATTTTTAACAAGGAAGCTCTTGTTCAAGCCCTAATTCACCCGCTTTCTCC
TTTCCCGCTCCTCGGCGGAGGCGATGGCGGAGCCACCGGAGTCGAGTCTCGCGACTGTTACCTCA
ATATGTACGCTGTTAAAAAGCCCGACAAAGTCGACCCGAATGAGCAAAGGTTCGGTAAGTGACTC
AATTGCGCTTTATCCAATGACCCCTTAAGAAAACCTTGCGTCATTGATAAACTAGGCAATATTTT
TAACAAGGAAGCTCTTGTTCAAGCTTTGTTGGGCAAGAAGTTT
Found at i:3399601 original size:6 final size:6
Alignment explanation
Indices: 3399590--3399615 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
3399580 AACCTTTTCT
3399590 TTTATA TTTATA TTTATA TTTATA TT
1 TTTATA TTTATA TTTATA TTTATA TT
3399616 GAATTGAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTATA
Found at i:3403055 original size:4 final size:4
Alignment explanation
Indices: 3403046--3403079 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
3403036 CAATCAGGGA
3403046 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
3403080 CTAAATTAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:3404051 original size:49 final size:49
Alignment explanation
Indices: 3403999--3404094 Score: 131
Period size: 50 Copynumber: 1.9 Consensus size: 49
3403989 AATTTAGAAT
* * *
3403999 AAAATAGAAT-TTGTGATAATTATACTTTTAAAAATAATTATAATTTATTA
1 AAAAT-GAATGTTGTGAGAATTACACATTT-AAAATAATTATAATTTATTA
*
3404049 AAAATTAATGTTGTGAGAATTACACATTTAAAATAATTATAATTTA
1 AAAATGAATGTTGTGAGAATTACACATTTAAAATAATTATAATTTA
3404095 ATATATAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
49 20 0.49
50 21 0.51
ACGTcount: A:0.48, C:0.03, G:0.07, T:0.42
Consensus pattern (49 bp):
AAAATGAATGTTGTGAGAATTACACATTTAAAATAATTATAATTTATTA
Found at i:3404105 original size:50 final size:50
Alignment explanation
Indices: 3403972--3404097 Score: 136
Period size: 49 Copynumber: 2.6 Consensus size: 50
3403962 TTTAAAGTTT
* * *
3403972 CACATTTAAAAATAA--AAAATTTAGA-ATAAAATAGAAT-TTGTGATAATTA
1 CACATTTAAAAATAATTATAATTTA-ATA-AAAAT-TAATGTTGTGAGAATTA
* * *
3404021 TACTTTTAAAAATAATTATAATTTATTAAAAATTAATGTTGTGAGAATTA
1 CACATTTAAAAATAATTATAATTTAATAAAAATTAATGTTGTGAGAATTA
3404071 CACATTT-AAAATAATTATAATTTAATA
1 CACATTTAAAAATAATTATAATTTAATA
3404098 TATAATTATT
Statistics
Matches: 64, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
49 35 0.55
50 21 0.33
51 8 0.12
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.39
Consensus pattern (50 bp):
CACATTTAAAAATAATTATAATTTAATAAAAATTAATGTTGTGAGAATTA
Found at i:3408027 original size:33 final size:32
Alignment explanation
Indices: 3407989--3408076 Score: 99
Period size: 33 Copynumber: 2.7 Consensus size: 32
3407979 AAGGTGTACA
*
3407989 TTCCTTTCCAAGTGGTACACATAAAGTATACCT
1 TTCCTTT-CAAGTGGTACACACAAAGTATACCT
*
3408022 TTCCTTTTCATA-TGGTATACACAAAGTATACCT
1 TTCC-TTTCA-AGTGGTACACACAAAGTATACCT
**
3408055 AACCTTTCAAGT-GTACACACAA
1 TTCCTTTCAAGTGGTACACACAA
3408077 GGTGTACATA
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
31 10 0.21
32 6 0.13
33 27 0.57
34 4 0.09
ACGTcount: A:0.33, C:0.24, G:0.10, T:0.33
Consensus pattern (32 bp):
TTCCTTTCAAGTGGTACACACAAAGTATACCT
Found at i:3410564 original size:35 final size:37
Alignment explanation
Indices: 3410494--3410580 Score: 142
Period size: 35 Copynumber: 2.4 Consensus size: 37
3410484 TAAATGGAAA
*
3410494 ATTTGGAACCGCTAAAGAAAGTAAAAAAAAAATAAAAG
1 ATTTGGAATCGCTAAAGAAAGT-AAAAAAAAATAAAAG
3410532 ATTTGGAATC-CTAAAGAAAGT-AAAAAAAATAAAAG
1 ATTTGGAATCGCTAAAGAAAGTAAAAAAAAATAAAAG
3410567 ATTTGGAATCGCTA
1 ATTTGGAATCGCTA
3410581 GCTTTAGCTA
Statistics
Matches: 47, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
35 24 0.51
36 3 0.06
37 11 0.23
38 9 0.19
ACGTcount: A:0.55, C:0.08, G:0.16, T:0.21
Consensus pattern (37 bp):
ATTTGGAATCGCTAAAGAAAGTAAAAAAAAATAAAAG
Found at i:3414644 original size:61 final size:60
Alignment explanation
Indices: 3414537--3414737 Score: 194
Period size: 61 Copynumber: 3.2 Consensus size: 60
3414527 ATCACTTTAA
* * *
3414537 TATTAAATTAATATAATAATTA-T-CAAGATAAATATTAGATTAAATTTAATATTAAATC
1 TATTAAATTAATAAAATATTTATTACAAGATAAATATTAAATTAAATTTAATATTAAATC
* *
3414595 TATTAAATTAATAAAATATTTATCTACAAGATAAATATTAAATTAAATTTAATGTTAAGATAAT
1 TATTAAATTAATAAAATATTTAT-TACAAGATAAATATTAAATTAAATTTAATATTAA-AT--C
* * *
3414659 TAGTTTAATATTAAATTAATAAAATCCTATTA-AA-ATAAGTATTAAATTAAATTTAATATTAAA
1 TA--TTAA-ATT-AA-TAA-AATAT-TTATTACAAGATAAATATTAAATTAAATTTAATATTAAA
3414722 TC
59 TC
*
3414724 TATTAAAATAATAA
1 TATTAAATTAATAA
3414738 TATTTTTAGA
Statistics
Matches: 119, Mismatches: 11, Indels: 24
0.77 0.07 0.16
Matches are distributed among these distances:
58 20 0.17
60 4 0.03
61 32 0.27
62 4 0.03
63 4 0.03
64 2 0.02
65 2 0.02
66 4 0.03
67 5 0.04
68 28 0.24
69 5 0.04
70 6 0.05
71 3 0.03
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.41
Consensus pattern (60 bp):
TATTAAATTAATAAAATATTTATTACAAGATAAATATTAAATTAAATTTAATATTAAATC
Found at i:3414736 original size:68 final size:72
Alignment explanation
Indices: 3414595--3414736 Score: 168
Period size: 68 Copynumber: 2.0 Consensus size: 72
3414585 ATATTAAATC
** *
3414595 TATTAAATTAATAAAATATTTATCTACAAGATAAATATTAAATTAAATTTAATGTTAAGATAATT
1 TATTAAATTAATAAAATACCTATCTACAAGATAAATATTAAATTAAATTTAATATTAAGATAATT
***
3414660 AGTTTAA
66 AAAATAA
* *
3414667 TATTAAATTAATAAAAT-CCTAT-TA-AA-ATAAGTATTAAATTAAATTTAATATTAA-ATCTAT
1 TATTAAATTAATAAAATACCTATCTACAAGATAAATATTAAATTAAATTTAATATTAAGAT-AAT
3414727 TAAAATAA
65 TAAAATAA
3414735 TA
1 TA
3414737 ATATTTTTAG
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
67 2 0.03
68 35 0.57
69 2 0.03
70 2 0.03
71 3 0.05
72 17 0.28
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.41
Consensus pattern (72 bp):
TATTAAATTAATAAAATACCTATCTACAAGATAAATATTAAATTAAATTTAATATTAAGATAATT
AAAATAA
Found at i:3418610 original size:25 final size:23
Alignment explanation
Indices: 3418582--3418638 Score: 60
Period size: 25 Copynumber: 2.4 Consensus size: 23
3418572 TGAAAGCATT
3418582 ATAAATATAAAATTTATATATCAAA
1 ATAAATATAAAATTTA-A-ATCAAA
* * *
3418607 ATAAATGTAAGATTTAAATTAAA
1 ATAAATATAAAATTTAAATCAAA
*
3418630 ATATATATA
1 ATAAATATA
3418639 TATATATATA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 12 0.44
24 1 0.04
25 14 0.52
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.37
Consensus pattern (23 bp):
ATAAATATAAAATTTAAATCAAA
Found at i:3423363 original size:35 final size:35
Alignment explanation
Indices: 3423317--3423392 Score: 127
Period size: 35 Copynumber: 2.2 Consensus size: 35
3423307 TTCTTGCAAA
* *
3423317 GCTTTTTGAACTTTTTGTGTGAATATATTTTTGTT
1 GCTTTTTGAACTATTTGAGTGAATATATTTTTGTT
3423352 GCTTTTTGAACTATTTGAGTGAATATATTTTTGTT
1 GCTTTTTGAACTATTTGAGTGAATATATTTTTGTT
3423387 G-TTTTT
1 GCTTTTT
3423393 ACTAGAAATC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
34 5 0.13
35 34 0.87
ACGTcount: A:0.18, C:0.05, G:0.17, T:0.59
Consensus pattern (35 bp):
GCTTTTTGAACTATTTGAGTGAATATATTTTTGTT
Found at i:3423882 original size:38 final size:38
Alignment explanation
Indices: 3423827--3423906 Score: 153
Period size: 38 Copynumber: 2.1 Consensus size: 38
3423817 ATATTCACAG
3423827 AAGT-GGTTTGAAAAGCTTTGCTAGAATTGCCAATGAA
1 AAGTAGGTTTGAAAAGCTTTGCTAGAATTGCCAATGAA
3423864 AAGTAGGTTTGAAAAGCTTTGCTAGAATTGCCAATGAA
1 AAGTAGGTTTGAAAAGCTTTGCTAGAATTGCCAATGAA
3423902 AAGTA
1 AAGTA
3423907 TATATTTTCC
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
37 4 0.10
38 38 0.90
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.29
Consensus pattern (38 bp):
AAGTAGGTTTGAAAAGCTTTGCTAGAATTGCCAATGAA
Found at i:3428994 original size:15 final size:16
Alignment explanation
Indices: 3428968--3428997 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
3428958 CGAATCTCAG
3428968 CTCTTGTTTCTCTTCT
1 CTCTTGTTTCTCTTCT
3428984 CTCTT-TTTCTCTTC
1 CTCTTGTTTCTCTTC
3428998 GAACAACGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.00, C:0.33, G:0.03, T:0.63
Consensus pattern (16 bp):
CTCTTGTTTCTCTTCT
Found at i:3431146 original size:19 final size:19
Alignment explanation
Indices: 3431093--3431146 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 19
3431083 AACATTATTG
*
3431093 TTTTAGAATTTGTT-TAACT
1 TTTTAGAATTT-TTACAACT
*
3431112 TTTTATATATTCTTTACAACT
1 TTTTAGA-ATT-TTTACAACT
3431133 TTTTAGAATTTTTA
1 TTTTAGAATTTTTA
3431147 TTTTATAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 10 0.34
20 8 0.28
21 11 0.38
ACGTcount: A:0.28, C:0.07, G:0.06, T:0.59
Consensus pattern (19 bp):
TTTTAGAATTTTTACAACT
Found at i:3431176 original size:17 final size:17
Alignment explanation
Indices: 3431154--3431206 Score: 61
Period size: 17 Copynumber: 3.0 Consensus size: 17
3431144 TTATTTTATA
*
3431154 ATTTTTAATAAATATTT
1 ATTTTTAAAAAATATTT
3431171 ATTTTTAAAAAATATTTT
1 ATTTTTAAAAAATA-TTT
* *
3431189 GACTTTTAAAAATTATTT
1 -ATTTTTAAAAAATATTT
3431207 TTAATTTTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
17 13 0.42
18 6 0.19
19 12 0.39
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (17 bp):
ATTTTTAAAAAATATTT
Found at i:3431214 original size:19 final size:19
Alignment explanation
Indices: 3431145--3431214 Score: 63
Period size: 19 Copynumber: 3.7 Consensus size: 19
3431135 TTAGAATTTT
*
3431145 TATTTTATAATTTTTAATAAA
1 TATTTT-TAA-TTTTAAAAAA
*
3431166 TA--TTTATTTTTAAAAAA
1 TATTTTTAATTTTAAAAAA
* * *
3431183 TATTTTGACTTTTAAAAAT
1 TATTTTTAATTTTAAAAAA
3431202 TATTTTTAATTTT
1 TATTTTTAATTTT
3431215 TCTGAAATTT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
17 11 0.28
18 2 0.05
19 25 0.62
21 2 0.05
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (19 bp):
TATTTTTAATTTTAAAAAA
Found at i:3434750 original size:13 final size:13
Alignment explanation
Indices: 3434732--3434758 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3434722 TGTGACACAT
3434732 TATGTGTACTTTA
1 TATGTGTACTTTA
3434745 TATGTGTACTTTA
1 TATGTGTACTTTA
3434758 T
1 T
3434759 GCTGATGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.07, G:0.15, T:0.56
Consensus pattern (13 bp):
TATGTGTACTTTA
Found at i:3435197 original size:2 final size:2
Alignment explanation
Indices: 3435184--3435214 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
3435174 TTACATATTG
*
3435184 TA TA TC TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3435215 TGTAGGGATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3435498 original size:29 final size:30
Alignment explanation
Indices: 3435451--3435507 Score: 91
Period size: 29 Copynumber: 1.9 Consensus size: 30
3435441 AAATTGAATA
3435451 AAATCAAATATTTATGTAT-TCGATTACAGT
1 AAATCAAATATTTATGTATCTC-ATTACAGT
3435481 AAATCAAAT-TTTATGTATCTCATTACA
1 AAATCAAATATTTATGTATCTCATTACA
3435508 CATTTAATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.40
Consensus pattern (30 bp):
AAATCAAATATTTATGTATCTCATTACAGT
Found at i:3435971 original size:29 final size:29
Alignment explanation
Indices: 3435929--3435986 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
3435919 TATCTAAAAT
3435929 TATCCATAGCACTTTCCTAACTCCCAACC
1 TATCCATAGCACTTTCCTAACTCCCAACC
* *
3435958 TATCTATAGCACTTTCCTAACTCCTAACC
1 TATCCATAGCACTTTCCTAACTCCCAACC
3435987 CGTAAATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.28, C:0.38, G:0.03, T:0.31
Consensus pattern (29 bp):
TATCCATAGCACTTTCCTAACTCCCAACC
Found at i:3436410 original size:24 final size:26
Alignment explanation
Indices: 3436364--3436411 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
3436354 ATACTTAAAA
3436364 TGTTATTTATGTTGATTTATTTGATG
1 TGTTATTTATGTTGATTTATTTGATG
*
3436390 TGTT-TTTATGTTTATTT-TTTGA
1 TGTTATTTATGTTGATTTATTTGA
3436412 GATTATATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.24
25 12 0.57
26 4 0.19
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.67
Consensus pattern (26 bp):
TGTTATTTATGTTGATTTATTTGATG
Found at i:3443760 original size:14 final size:14
Alignment explanation
Indices: 3443724--3443762 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
3443714 AAAAAATAAT
* *
3443724 ATTTTAATAAATTT
1 ATTTTAATAAAATA
3443738 ATATTTAATAAAATA
1 AT-TTTAATAAAATA
3443753 ATTTTAATAA
1 ATTTTAATAA
3443763 TGCTATCAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
ATTTTAATAAAATA
Found at i:3449281 original size:29 final size:28
Alignment explanation
Indices: 3449243--3449303 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
3449233 TTTATCTTAG
*
3449243 GTTACATTTTAATCATTTATGTTTAAAAT
1 GTTACATTTTAATCACTTATG-TTAAAAT
* * *
3449272 GTTACGTTTTAGTCACTTATGTTAACAT
1 GTTACATTTTAATCACTTATGTTAAAAT
3449300 GTTA
1 GTTA
3449304 TAATATTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 10 0.36
29 18 0.64
ACGTcount: A:0.30, C:0.10, G:0.11, T:0.49
Consensus pattern (28 bp):
GTTACATTTTAATCACTTATGTTAAAAT
Found at i:3449784 original size:24 final size:24
Alignment explanation
Indices: 3449740--3449790 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 24
3449730 AAGAGAATGA
*
3449740 AAAATAAATAAATAAATAAAAGTT
1 AAAATAAATAAATAAATAAAAATT
3449764 AAAATAACATAAA-AGAA-AAAAATT
1 AAAATAA-ATAAATA-AATAAAAATT
3449788 AAA
1 AAA
3449791 TTGCTCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.20
Consensus pattern (24 bp):
AAAATAAATAAATAAATAAAAATT
Found at i:3450863 original size:22 final size:22
Alignment explanation
Indices: 3450838--3450881 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
3450828 TAGTCATATA
3450838 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* *
3450860 ATAAATTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
3450882 TATTTAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:3450933 original size:15 final size:16
Alignment explanation
Indices: 3450906--3450936 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
3450896 ATTTTATTTT
3450906 AATAATAAATTTTAAA
1 AATAATAAATTTTAAA
3450922 AATAAT-AATTTTAAA
1 AATAATAAATTTTAAA
3450937 TAATGTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATAATAAATTTTAAA
Found at i:3450997 original size:15 final size:15
Alignment explanation
Indices: 3450977--3451033 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
3450967 ATTCAATATT
3450977 AATATTTTAATAATA
1 AATATTTTAATAATA
*
3450992 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
3451011 AATATATTAATAATA
1 AATATTTTAATAATA
*
3451026 AATGTTTT
1 AATATTTT
3451034 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:3451521 original size:14 final size:14
Alignment explanation
Indices: 3451502--3451529 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
3451492 TTCAGAAAAG
3451502 TAAATCATTTTCTA
1 TAAATCATTTTCTA
3451516 TAAATCATTTTCTA
1 TAAATCATTTTCTA
3451530 GAAGTCAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.00, T:0.50
Consensus pattern (14 bp):
TAAATCATTTTCTA
Found at i:3451660 original size:16 final size:17
Alignment explanation
Indices: 3451641--3451678 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
3451631 TCTAAGTAAT
*
3451641 AAATTATATCTCAT-TA
1 AAATTATATCACATATA
*
3451657 AAATTATTTCACATATA
1 AAATTATATCACATATA
3451674 AAATT
1 AAATT
3451679 TCACATCATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (17 bp):
AAATTATATCACATATA
Found at i:3454224 original size:3 final size:3
Alignment explanation
Indices: 3454218--3454245 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
3454208 GGAGGAGGAG
3454218 GAA GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA G
3454246 TGGACGAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:3456931 original size:28 final size:28
Alignment explanation
Indices: 3456891--3456946 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
3456881 TTGCCTTCGG
*
3456891 TCTCTGTAGTACTTTGCCCTTTTAGTGT
1 TCTCTGCAGTACTTTGCCCTTTTAGTGT
3456919 TCTCTGCAGTACTTTGCCCTTTTAGTGT
1 TCTCTGCAGTACTTTGCCCTTTTAGTGT
3456947 ACTTTGCACA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (28 bp):
TCTCTGCAGTACTTTGCCCTTTTAGTGT
Found at i:3456954 original size:28 final size:28
Alignment explanation
Indices: 3456892--3456954 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
3456882 TGCCTTCGGT
* *
3456892 CTCTGTAGTACTTTGCCCTTTTAGTGTT
1 CTCTGCAGTACTTTGCCCTTTTAGTGTA
3456920 CTCTGCAGTACTTTGCCCTTTTAGTGTA
1 CTCTGCAGTACTTTGCCCTTTTAGTGTA
*
3456948 CTTTGCA
1 CTCTGCA
3456955 CAGTCATGCA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.13, C:0.24, G:0.17, T:0.46
Consensus pattern (28 bp):
CTCTGCAGTACTTTGCCCTTTTAGTGTA
Found at i:3459495 original size:20 final size:19
Alignment explanation
Indices: 3459467--3459506 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
3459457 GATTAGGAAC
* *
3459467 ATCATATTATTATTCTAAAT
1 ATCACATTATCATT-TAAAT
3459487 ATCACATTATCATTTAAAT
1 ATCACATTATCATTTAAAT
3459506 A
1 A
3459507 CACTTGTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (19 bp):
ATCACATTATCATTTAAAT
Found at i:3460343 original size:12 final size:12
Alignment explanation
Indices: 3460326--3460350 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3460316 AAATGCTATG
3460326 TCATAAGGCATA
1 TCATAAGGCATA
3460338 TCATAAGGCATA
1 TCATAAGGCATA
3460350 T
1 T
3460351 ATCTCCATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (12 bp):
TCATAAGGCATA
Found at i:3465451 original size:3 final size:3
Alignment explanation
Indices: 3465443--3465477 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
3465433 CTTTGTTTCT
3465443 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
3465478 TTTTGAAGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:3475416 original size:6 final size:6
Alignment explanation
Indices: 3475405--3475429 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
3475395 AATTAATAAT
3475405 TTTATA TTTATA TTTATA TTTATA T
1 TTTATA TTTATA TTTATA TTTATA T
3475430 GTAAATATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTATA
Found at i:3476272 original size:19 final size:19
Alignment explanation
Indices: 3476232--3476272 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
3476222 AATTTTAAGT
*
3476232 TTAAATTAAAAATTAAAAA
1 TTAAATTAAAAATAAAAAA
3476251 TTAAATTAAAAA-AAAAACA
1 TTAAATTAAAAATAAAAA-A
3476270 TTA
1 TTA
3476273 GAACTTTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.29
Consensus pattern (19 bp):
TTAAATTAAAAATAAAAAA
Found at i:3480745 original size:13 final size:13
Alignment explanation
Indices: 3480727--3480760 Score: 61
Period size: 12 Copynumber: 2.7 Consensus size: 13
3480717 TTCACTGTAA
3480727 AATAGTAAAAAAT
1 AATAGTAAAAAAT
3480740 AATAGT-AAAAAT
1 AATAGTAAAAAAT
3480752 AATAGTAAA
1 AATAGTAAA
3480761 GGGGAAGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.68, C:0.00, G:0.09, T:0.24
Consensus pattern (13 bp):
AATAGTAAAAAAT
Found at i:3480938 original size:17 final size:18
Alignment explanation
Indices: 3480918--3480951 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
3480908 AAGTGAATTG
3480918 AAATTGCA-AAATTAAAT
1 AAATTGCAGAAATTAAAT
3480935 AAATTGCAGAAATTAAA
1 AAATTGCAGAAATTAAA
3480952 ATGAGGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.59, C:0.06, G:0.09, T:0.26
Consensus pattern (18 bp):
AAATTGCAGAAATTAAAT
Found at i:3481655 original size:10 final size:10
Alignment explanation
Indices: 3481636--3481695 Score: 79
Period size: 10 Copynumber: 6.0 Consensus size: 10
3481626 TGAAATTCTA
3481636 AAAGATAAAT
1 AAAGATAAAT
3481646 ACAA-ATAAAT
1 A-AAGATAAAT
*
3481656 AAAGATAATT
1 AAAGATAAAT
3481666 AAAGATAAAT
1 AAAGATAAAT
3481676 AAAGATAAAT
1 AAAGATAAAT
3481686 GAAA-ATAAAT
1 -AAAGATAAAT
3481696 CCTAGAATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:3482066 original size:16 final size:16
Alignment explanation
Indices: 3482045--3482078 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
3482035 GATAAAGAAA
*
3482045 AATAGGGTGGGACGTT
1 AATAGGGTGGGAAGTT
*
3482061 AATAGGGTTGGAAGTT
1 AATAGGGTGGGAAGTT
3482077 AA
1 AA
3482079 AAAGAGGAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.32, C:0.03, G:0.38, T:0.26
Consensus pattern (16 bp):
AATAGGGTGGGAAGTT
Found at i:3492006 original size:396 final size:396
Alignment explanation
Indices: 3491274--3492067 Score: 1561
Period size: 396 Copynumber: 2.0 Consensus size: 396
3491264 TTTGCATGTT
3491274 CCCAAGAATTCCTGCCTAAAATCAAATTAGTAGGAAGGCAAGCAGCATTAGTTTCAAAGGAGGTA
1 CCCAAGAATTCCTGCCTAAAATCAAATTAGTAGGAAGGCAAGCAGCATTAGTTTCAAAGGAGGTA
3491339 GAGAGTCAACCATGGTTCAGTCTTCAAATTGTGAATGATGATGAAGCTCGTGTAGCACTCAAGCG
66 GAGAGTCAACCATGGTTCAGTCTTCAAATTGTGAATGATGATGAAGCTCGTGTAGCACTCAAGCG
3491404 GAGCATGGTGCTTAGTCAAATCGAGCAATCAATCAAATTTGACACTTTGAAATGGATTAGTGATT
131 GAGCATGGTGCTTAGTCAAATCGAGCAATCAATCAAATTTGACACTTTGAAATGGATTAGTGATT
3491469 ATTTGACAGACTGTAAATCTAATGATAAGAAAGTGGATTAGAGCCATAATCTCTCACCATGGATA
196 ATTTGACAGACTGTAAATCTAATGATAAGAAAGTGGATTAGAGCCATAATCTCTCACCATGGATA
*
3491534 TGAATATGTCTGGTAAAGCAGGGGAAAAAACATGATGAACCATAGCATATTGACTTAGACTCCCT
261 TGAATATGTCTGGTAAAGCAGGGGAAAAAACACGATGAACCATAGCATATTGACTTAGACTCCCT
3491599 AAGTTTTGTACACAGTCTCATTGGATATGTTTCACACAAGGAATTTTTGTTATTCATGGACACAA
326 AAGTTTTGTACACAGTCTCATTGGATATGTTTCACACAAGGAATTTTTGTTATTCATGGACACAA
3491664 AAGTGG
391 AAGTGG
3491670 CCCAAGAATTCCTGCCTAAAATCAAATTAGTAGGAAGGCAAGCAGCATTAGTTTCAAAGGAGGTA
1 CCCAAGAATTCCTGCCTAAAATCAAATTAGTAGGAAGGCAAGCAGCATTAGTTTCAAAGGAGGTA
3491735 GAGAGTCAACCATGGTTCAGTCTTCAAATTGTGAATGATGATGAAGCTCGTGTAGCACTCAAGCG
66 GAGAGTCAACCATGGTTCAGTCTTCAAATTGTGAATGATGATGAAGCTCGTGTAGCACTCAAGCG
3491800 GAGCATGGTGCTTAGTCAAATCGAGCAATCAATCAAATTTGACACTTTGAAATGGATTAGTGATT
131 GAGCATGGTGCTTAGTCAAATCGAGCAATCAATCAAATTTGACACTTTGAAATGGATTAGTGATT
3491865 ATTTGACAGACTGTAAATCTAATGATAAGAAAGTGGATTAGAGCCATAATCTCTCACCATGGATA
196 ATTTGACAGACTGTAAATCTAATGATAAGAAAGTGGATTAGAGCCATAATCTCTCACCATGGATA
3491930 TGAATATGTCTGGTAAAGCAGGGGAAAAAACACGATGAACCATAGCATATTGACTTAGACTCCCT
261 TGAATATGTCTGGTAAAGCAGGGGAAAAAACACGATGAACCATAGCATATTGACTTAGACTCCCT
* *
3491995 TAGTTTTGTACACAGTCTCATTGGATATGTTTCACACAAGGAATTTTTGTTTTTCATGGACACAA
326 AAGTTTTGTACACAGTCTCATTGGATATGTTTCACACAAGGAATTTTTGTTATTCATGGACACAA
3492060 AAGTGG
391 AAGTGG
3492066 CC
1 CC
3492068 TATGAATATG
Statistics
Matches: 395, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
396 395 1.00
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.28
Consensus pattern (396 bp):
CCCAAGAATTCCTGCCTAAAATCAAATTAGTAGGAAGGCAAGCAGCATTAGTTTCAAAGGAGGTA
GAGAGTCAACCATGGTTCAGTCTTCAAATTGTGAATGATGATGAAGCTCGTGTAGCACTCAAGCG
GAGCATGGTGCTTAGTCAAATCGAGCAATCAATCAAATTTGACACTTTGAAATGGATTAGTGATT
ATTTGACAGACTGTAAATCTAATGATAAGAAAGTGGATTAGAGCCATAATCTCTCACCATGGATA
TGAATATGTCTGGTAAAGCAGGGGAAAAAACACGATGAACCATAGCATATTGACTTAGACTCCCT
AAGTTTTGTACACAGTCTCATTGGATATGTTTCACACAAGGAATTTTTGTTATTCATGGACACAA
AAGTGG
Found at i:3500095 original size:39 final size:39
Alignment explanation
Indices: 3500050--3500126 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
3500040 TGAGGTGATA
* *
3500050 TAAAAATGGAGGACTAAATAATTTATTCTACTTAAAATG
1 TAAAAATGGAGGACTAAATAAGTTATTCTACCTAAAATG
3500089 TAAAAATGGAGGACTAAATAAGTTATTCTACCTAAAAT
1 TAAAAATGGAGGACTAAATAAGTTATTCTACCTAAAAT
3500127 TTTAAAAGTA
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:0.47, C:0.09, G:0.13, T:0.31
Consensus pattern (39 bp):
TAAAAATGGAGGACTAAATAAGTTATTCTACCTAAAATG
Found at i:3500567 original size:8 final size:9
Alignment explanation
Indices: 3500539--3500566 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
3500529 ATTTGATCTT
3500539 AATTTTAAA
1 AATTTTAAA
3500548 AATTTTAAA
1 AATTTTAAA
3500557 AATTTTAAA
1 AATTTTAAA
3500566 A
1 A
3500567 TACATAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (9 bp):
AATTTTAAA
Found at i:3500633 original size:25 final size:24
Alignment explanation
Indices: 3500591--3500641 Score: 75
Period size: 25 Copynumber: 2.1 Consensus size: 24
3500581 CAAAAAATAT
3500591 AATAATAAATTAAGATTAAATAAA
1 AATAATAAATTAAGATTAAATAAA
* *
3500615 AATAATTATATTAATATTAAATAAA
1 AATAA-TAAATTAAGATTAAATAAA
3500640 AA
1 AA
3500642 AAACCCTCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (24 bp):
AATAATAAATTAAGATTAAATAAA
Found at i:3500644 original size:29 final size:29
Alignment explanation
Indices: 3500582--3500644 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 29
3500572 AAATATTTTC
3500582 AAAAAATATAATAATAAATTAAGATTAAA
1 AAAAAATATAATAATAAATTAAGATTAAA
* * *
3500611 TAAAAATAATTATATTAATATTAA-A-TAAA
1 AAAAAAT-ATAATAATAA-ATTAAGATTAAA
3500640 AAAAA
1 AAAAA
3500645 CCCTCTCATT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
29 14 0.50
30 9 0.32
31 5 0.18
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (29 bp):
AAAAAATATAATAATAAATTAAGATTAAA
Found at i:3508733 original size:15 final size:17
Alignment explanation
Indices: 3508713--3508745 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
3508703 TCGAAAATCC
3508713 TTTTAA-AAATAA-TTA
1 TTTTAAGAAATAACTTA
3508728 TTTTAAGAAATAACTTA
1 TTTTAAGAAATAACTTA
3508745 T
1 T
3508746 CTACATATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 6 0.38
17 4 0.25
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (17 bp):
TTTTAAGAAATAACTTA
Found at i:3513058 original size:16 final size:16
Alignment explanation
Indices: 3513032--3513072 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
3513022 TTTGAATATT
*
3513032 TTTTAAG-TTTGGATTG
1 TTTTAAGTTTTGG-TTA
3513048 TTTT-AGTTTTGGTTA
1 TTTTAAGTTTTGGTTA
3513063 TTTTAAGTTT
1 TTTTAAGTTT
3513073 AAAAAATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.17, C:0.00, G:0.20, T:0.63
Consensus pattern (16 bp):
TTTTAAGTTTTGGTTA
Found at i:3515709 original size:14 final size:14
Alignment explanation
Indices: 3515692--3515765 Score: 68
Period size: 14 Copynumber: 5.4 Consensus size: 14
3515682 TTTCATTACT
3515692 TTATGTTATTATTA
1 TTATGTTATTATTA
3515706 TTATGTTATTATTA
1 TTATGTTATTATTA
3515720 -TA--TTATTATTA
1 TTATGTTATTATTA
* *
3515731 TTATTATTATTACTA
1 TTA-TGTTATTATTA
3515746 GTATATGTT-TTATTA
1 -T-TATGTTATTATTA
3515761 -TATGT
1 TTATGT
3515766 GTATATATCT
Statistics
Matches: 51, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
11 9 0.18
12 7 0.14
13 2 0.04
14 14 0.27
15 13 0.25
16 4 0.08
17 2 0.04
ACGTcount: A:0.30, C:0.01, G:0.07, T:0.62
Consensus pattern (14 bp):
TTATGTTATTATTA
Found at i:3515714 original size:11 final size:10
Alignment explanation
Indices: 3515700--3515741 Score: 59
Period size: 11 Copynumber: 4.1 Consensus size: 10
3515690 CTTTATGTTA
3515700 TTATTATTAT
1 TTATTATTAT
3515710 GTTATTATTAT
1 -TTATTATTAT
3515721 ATTATTATTA-
1 -TTATTATTAT
3515731 TTATTATTAT
1 TTATTATTAT
3515741 T
1 T
3515742 ACTAGTATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
9 9 0.31
10 1 0.03
11 19 0.66
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (10 bp):
TTATTATTAT
Found at i:3515761 original size:3 final size:3
Alignment explanation
Indices: 3515697--3515742 Score: 69
Period size: 3 Copynumber: 16.0 Consensus size: 3
3515687 TTACTTTATG
*
3515697 TTA TTA TTA TTA -TG TTA TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
3515743 CTAGTATATG
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
2 3 0.08
3 36 0.92
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:3516416 original size:25 final size:25
Alignment explanation
Indices: 3516368--3516417 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
3516358 ATGTTTTTTG
* *
3516368 TACTATCTTATGTGTGCATCTTAAA
1 TACTATATTATGTATGCATCTTAAA
* *
3516393 TACTATATTATGTATGTATTTTAAA
1 TACTATATTATGTATGCATCTTAAA
3516418 CACCTTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.32, C:0.10, G:0.10, T:0.48
Consensus pattern (25 bp):
TACTATATTATGTATGCATCTTAAA
Found at i:3516619 original size:17 final size:17
Alignment explanation
Indices: 3516588--3516633 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
3516578 TATGTATGCC
*
3516588 ATGTATATATATATGTAT
1 ATGTATAT-TTTATGTAT
3516606 ATGTATATTTTATGTAT
1 ATGTATATTTTATGTAT
3516623 ATTGT-TATTTT
1 A-TGTATATTTT
3516634 CTATCATCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (17 bp):
ATGTATATTTTATGTAT
Found at i:3517817 original size:277 final size:277
Alignment explanation
Indices: 3517323--3517879 Score: 1096
Period size: 277 Copynumber: 2.0 Consensus size: 277
3517313 TCATTTTTTT
3517323 TTTACTTCTTTTCATATGAATGTAGCATCCTCACAATTTCTAGTATTTATTTTTTGATACAATGT
1 TTTACTTCTTTTCATATGAATGTAGCATCCTCACAATTTCTAGTATTTATTTTTTGATACAATGT
3517388 CTAAAACTATTCGCAGTCTCTCCCCAACTCTTAAATAAGAGGATAATGCGGCACTCAAACTTATG
66 CTAAAACTATTCGCAGTCTCTCCCCAACTCTTAAATAAGAGGATAATGCGGCACTCAAACTTATG
3517453 TCCTATTGCACTGACAAAATCGATACCAACTAAGCTAAAACTCAATCGACAATGTAAAACTCAAA
131 TCCTATTGCACTGACAAAATCGATACCAACTAAGCTAAAACTCAATCGACAATGTAAAACTCAAA
3517518 TTCAATCCCTTATTATTGAGCCTACAAAGGTCACTCTCCTCGAAGAATCCTTTAAGTTGCAATTT
196 TTCAATCCCTTATTATTGAGCCTACAAAGGTCACTCTCCTCGAAGAATCCTTTAAGTTGCAATTT
3517583 AACAATAAGCCCACAAG
261 AACAATAAGCCCACAAG
3517600 TTTACTTCTTTTCATATGAATGTAGCATCCTCACAATTTCTAGTATTTATTTTTTGATACAATGT
1 TTTACTTCTTTTCATATGAATGTAGCATCCTCACAATTTCTAGTATTTATTTTTTGATACAATGT
3517665 CTAAAACTATTCGCAGTCTCTCCCCAACTCTTAAATAAGAGGATAATGCGGCACTCAAACTTATG
66 CTAAAACTATTCGCAGTCTCTCCCCAACTCTTAAATAAGAGGATAATGCGGCACTCAAACTTATG
3517730 TCCTATTGCACTGACAAAATCGATACCAACTAAGCTAAAACTCAATCGACAATGTAAAACTCAAA
131 TCCTATTGCACTGACAAAATCGATACCAACTAAGCTAAAACTCAATCGACAATGTAAAACTCAAA
**
3517795 TTCAATCCCTTATTATTGAGCCTGTAAAGGTCACTCTCCTCGAAGAATCCTTTAAGTTGCAATTT
196 TTCAATCCCTTATTATTGAGCCTACAAAGGTCACTCTCCTCGAAGAATCCTTTAAGTTGCAATTT
3517860 AACAATAAGCCCACAAG
261 AACAATAAGCCCACAAG
3517877 TTT
1 TTT
3517880 CACACGCCAA
Statistics
Matches: 278, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
277 278 1.00
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (277 bp):
TTTACTTCTTTTCATATGAATGTAGCATCCTCACAATTTCTAGTATTTATTTTTTGATACAATGT
CTAAAACTATTCGCAGTCTCTCCCCAACTCTTAAATAAGAGGATAATGCGGCACTCAAACTTATG
TCCTATTGCACTGACAAAATCGATACCAACTAAGCTAAAACTCAATCGACAATGTAAAACTCAAA
TTCAATCCCTTATTATTGAGCCTACAAAGGTCACTCTCCTCGAAGAATCCTTTAAGTTGCAATTT
AACAATAAGCCCACAAG
Found at i:3526884 original size:21 final size:21
Alignment explanation
Indices: 3526842--3526893 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
3526832 AATATTAAAA
3526842 TAAAATAATAAGCAACAATAG
1 TAAAATAATAAGCAACAATAG
* *
3526863 TGAAAATAATAAG-TATAATAG
1 T-AAAATAATAAGCAACAATAG
3526884 TAAACATAAT
1 TAAA-ATAAT
3526894 GATATATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 3 0.11
21 13 0.48
22 11 0.41
ACGTcount: A:0.60, C:0.06, G:0.10, T:0.25
Consensus pattern (21 bp):
TAAAATAATAAGCAACAATAG
Found at i:3527074 original size:28 final size:27
Alignment explanation
Indices: 3527020--3527074 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
3527010 ATATAATACG
*
3527020 GTATTTAAAAAATATATATATAATATA
1 GTATTTAAAAAATATATACATAATATA
* *
3527047 GTATTTAAAAAAATGTATACATAGTATA
1 GTATTT-AAAAAATATATACATAATATA
3527075 TATACTAGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 6 0.25
28 18 0.75
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.38
Consensus pattern (27 bp):
GTATTTAAAAAATATATACATAATATA
Found at i:3527279 original size:38 final size:35
Alignment explanation
Indices: 3527198--3527283 Score: 91
Period size: 36 Copynumber: 2.3 Consensus size: 35
3527188 AAAATAAAAA
* * *
3527198 AATATATAAATAATATAGTATTAAAGATGTATACAT
1 AATATATAAA-AATACAATATTAAAGATATATACAT
* *
3527234 AACATATAAAAATACAATATTAAATGATATATATATGT
1 AATATATAAAAATACAATATTAAA-GATATATACA--T
3527272 AATATATAAAAA
1 AATATATAAAAA
3527284 AATGTATACA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
35 12 0.29
36 17 0.41
38 12 0.29
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.34
Consensus pattern (35 bp):
AATATATAAAAATACAATATTAAAGATATATACAT
Found at i:3527309 original size:25 final size:27
Alignment explanation
Indices: 3527281--3527334 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 27
3527271 TAATATATAA
*
3527281 AAAAATGTATACATA-ATATA-ATATT
1 AAAAATATATACATAGATATACATATT
*
3527306 AAAAATATTTACATAGTATATACATATT
1 AAAAATATATACATAG-ATATACATATT
3527334 A
1 A
3527335 GAGATAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 13 0.54
27 5 0.21
28 6 0.25
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.37
Consensus pattern (27 bp):
AAAAATATATACATAGATATACATATT
Found at i:3527648 original size:22 final size:20
Alignment explanation
Indices: 3527615--3527661 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 20
3527605 TATATTAAAG
3527615 ATATATACATATGTAACAAAA
1 ATATATACATAT-TAACAAAA
*
3527636 CATATACTA-ATATTAATAAAA
1 -ATATA-TACATATTAACAAAA
3527657 ATATA
1 ATATA
3527662 ATAAGGGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 5 0.22
21 7 0.30
22 9 0.39
23 2 0.09
ACGTcount: A:0.57, C:0.09, G:0.02, T:0.32
Consensus pattern (20 bp):
ATATATACATATTAACAAAA
Found at i:3527911 original size:22 final size:20
Alignment explanation
Indices: 3527886--3527937 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 20
3527876 AACAATAACG
3527886 ATAATGGTAAATATAATAATAA
1 ATAATGGTAAA-A-AATAATAA
* *
3527908 ATAAT-ATTAAAAATAATAA
1 ATAATGGTAAAAAATAATAA
3527927 A-AATGGTAAAA
1 ATAATGGTAAAA
3527938 GTAATATAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
18 3 0.12
19 13 0.52
20 1 0.04
21 3 0.12
22 5 0.20
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (20 bp):
ATAATGGTAAAAAATAATAA
Found at i:3528560 original size:24 final size:25
Alignment explanation
Indices: 3528522--3528574 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 25
3528512 TTTAAAAAGG
*
3528522 TATAATTTTTTTTGTATTTTTAATA
1 TATAATTTTTTTTGTATTTATAATA
3528547 TATAA-TTTTTTTGTATTTATAATA
1 TATAATTTTTTTTGTATTTATAATA
3528571 TATA
1 TATA
3528575 TAAGTTTATG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
24 22 0.81
25 5 0.19
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (25 bp):
TATAATTTTTTTTGTATTTATAATA
Found at i:3530299 original size:21 final size:21
Alignment explanation
Indices: 3530275--3530335 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 21
3530265 TTGCATGTAC
3530275 GTATCACTATATGCTGTAAAT
1 GTATCACTATATGCTGTAAAT
** *
3530296 GTAT-TTTCT-TGC--T-A-T
1 GTATCACTATATGCTGTAAAT
3530311 GTATCACTATATGCTGTAAAT
1 GTATCACTATATGCTGTAAAT
3530332 GTAT
1 GTAT
3530336 TTTCTTGCTA
Statistics
Matches: 28, Mismatches: 6, Indels: 12
0.61 0.13 0.26
Matches are distributed among these distances:
15 5 0.18
16 3 0.11
17 4 0.14
19 4 0.14
20 3 0.11
21 9 0.32
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.44
Consensus pattern (21 bp):
GTATCACTATATGCTGTAAAT
Found at i:3530320 original size:36 final size:36
Alignment explanation
Indices: 3530275--3530347 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
3530265 TTGCATGTAC
3530275 GTATCACTATATGCTGTAAATGTATTTTCTTGCTAT
1 GTATCACTATATGCTGTAAATGTATTTTCTTGCTAT
3530311 GTATCACTATATGCTGTAAATGTATTTTCTTGCTAT
1 GTATCACTATATGCTGTAAATGTATTTTCTTGCTAT
3530347 G
1 G
3530348 AATATAGATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.25, C:0.14, G:0.15, T:0.47
Consensus pattern (36 bp):
GTATCACTATATGCTGTAAATGTATTTTCTTGCTAT
Found at i:3536955 original size:17 final size:17
Alignment explanation
Indices: 3536923--3536965 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
3536913 TCTAACATTA
*
3536923 TATAATATATATGATGAT
1 TATAAT-TATACGATGAT
3536941 TATAATTATACGATGAT
1 TATAATTATACGATGAT
3536958 TATAATTA
1 TATAATTA
3536966 ATGATTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 18 0.75
18 6 0.25
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.44
Consensus pattern (17 bp):
TATAATTATACGATGAT
Found at i:3550690 original size:26 final size:27
Alignment explanation
Indices: 3550661--3550715 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
3550651 TGAATACTTA
*
3550661 ATTTTAATATACATATTT-AAATTTTT
1 ATTTTAATATAAATATTTAAAATTTTT
* *
3550687 ATTTTATTATAAATTTTTAGAAATTTTT
1 ATTTTAATATAAATATTTA-AAATTTTT
3550715 A
1 A
3550716 GAAATCTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 15 0.62
28 9 0.38
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (27 bp):
ATTTTAATATAAATATTTAAAATTTTT
Found at i:3554250 original size:17 final size:18
Alignment explanation
Indices: 3554228--3554262 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
3554218 TTAAATAATT
*
3554228 CTAAGGCTAAA-AAGCAA
1 CTAAGGCAAAACAAGCAA
3554245 CTAAGGCAAAACAAGCAA
1 CTAAGGCAAAACAAGCAA
3554263 GAAACTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.54, C:0.20, G:0.17, T:0.09
Consensus pattern (18 bp):
CTAAGGCAAAACAAGCAA
Found at i:3557371 original size:50 final size:50
Alignment explanation
Indices: 3557317--3557411 Score: 145
Period size: 50 Copynumber: 1.9 Consensus size: 50
3557307 AATTAAAAGG
* * *
3557317 ATTTAATTTTGAGTGACAAAAATAAAAGCATCCTAAAAGTTGGGTCAAGA
1 ATTTAATTTTGAATGACAAAAATAAAAGCACCCTAAAAATTGGGTCAAGA
* *
3557367 ATTTAATTTTGAATGACCAAAATAAAAGCGCCCTAAAAATTGGGT
1 ATTTAATTTTGAATGACAAAAATAAAAGCACCCTAAAAATTGGGT
3557412 GACCAACTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 40 1.00
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.28
Consensus pattern (50 bp):
ATTTAATTTTGAATGACAAAAATAAAAGCACCCTAAAAATTGGGTCAAGA
Found at i:3557856 original size:20 final size:22
Alignment explanation
Indices: 3557833--3557876 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
3557823 AAAATATTAA
*
3557833 AAAAT-ATTTT-TATATTTTTT
1 AAAATAATTTTCTAAATTTTTT
3557853 AAAATAATTTTCTAAATTTTTT
1 AAAATAATTTTCTAAATTTTTT
3557875 AA
1 AA
3557877 TTTTAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.24
21 5 0.24
22 11 0.52
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
AAAATAATTTTCTAAATTTTTT
Found at i:3565351 original size:16 final size:16
Alignment explanation
Indices: 3565330--3565368 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
3565320 TATTAATATT
3565330 TAAAATTTAATCAAAA
1 TAAAATTTAATCAAAA
*
3565346 TAAAATTTCATCAAAA
1 TAAAATTTAATCAAAA
3565362 TAAAATT
1 TAAAATT
3565369 AATATCGGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (16 bp):
TAAAATTTAATCAAAA
Found at i:3568883 original size:19 final size:19
Alignment explanation
Indices: 3568818--3568885 Score: 77
Period size: 18 Copynumber: 3.7 Consensus size: 19
3568808 AATTAATCGG
* *
3568818 TTATCCAGTAACAGTC-AA
1 TTATTCAGTAACAATCAAA
*
3568836 TTATTCAGTAAAAATCAAA
1 TTATTCAGTAACAATCAAA
* *
3568855 -TATACAGTAACAATTAAA
1 TTATTCAGTAACAATCAAA
3568873 TTATTCAGTAACA
1 TTATTCAGTAACA
3568886 GTCGATCTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
18 28 0.68
19 13 0.32
ACGTcount: A:0.47, C:0.15, G:0.07, T:0.31
Consensus pattern (19 bp):
TTATTCAGTAACAATCAAA
Found at i:3569061 original size:47 final size:47
Alignment explanation
Indices: 3569007--3569160 Score: 254
Period size: 47 Copynumber: 3.3 Consensus size: 47
3568997 CCGAAACAGT
* *
3569007 AACAGTAACAGTACGGTACACAGAGTGCCTCATCGGAACAAATTCGG
1 AACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATCCGG
*
3569054 AACAGTAACAGTATGGTACACAGAGTACCTCATCGGAACAAATCCGG
1 AACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATCCGG
* * *
3569101 AACAGCAACAGTACGGTACACAGAGTACCTCATCGAAACAAATCCGA
1 AACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATCCGG
3569148 AACAGTAACAGTA
1 AACAGTAACAGTA
3569161 ACGATAATAG
Statistics
Matches: 99, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 99 1.00
ACGTcount: A:0.40, C:0.24, G:0.20, T:0.16
Consensus pattern (47 bp):
AACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATCCGG
Found at i:3569727 original size:22 final size:22
Alignment explanation
Indices: 3569681--3569727 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
3569671 TATTAGATAT
**
3569681 TAAATAGATATTTATTATTTTA
1 TAAATAGATATTTATTATTAAA
3569703 TAAA-AGATATTTATTAATTAAA
1 TAAATAGATATTTATT-ATTAAA
3569725 TAA
1 TAA
3569728 TTATATTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (22 bp):
TAAATAGATATTTATTATTAAA
Found at i:3571869 original size:23 final size:23
Alignment explanation
Indices: 3571843--3571974 Score: 65
Period size: 23 Copynumber: 5.6 Consensus size: 23
3571833 ACAACTTTTC
3571843 GTGAGCTTCCTGATAGGCTCTTT
1 GTGAGCTTCCTGATAGGCTCTTT
* * **
3571866 GTGAGCCTCCCGATAGTGCTCGCT
1 GTGAGCTTCCTGATAG-GCTCTTT
* * **
3571890 -TGAACTT-CTCGATATATGGCTATCC
1 GTGAGCTTCCT-G--ATA-GGCTCTTT
*
3571915 G-GAGCTTCCCGATAGGCTCTTT
1 GTGAGCTTCCTGATAGGCTCTTT
*
3571937 GTGAGCTTCAC-GATATGGTTCTTT
1 GTGAGCTTC-CTGATA-GGCTCTTT
* *
3571961 GTGAACTACCTGAT
1 GTGAGCTTCCTGAT
3571975 TTCGGCTCTA
Statistics
Matches: 80, Mismatches: 18, Indels: 21
0.67 0.15 0.18
Matches are distributed among these distances:
22 7 0.09
23 35 0.44
24 23 0.29
25 13 0.16
26 2 0.03
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.34
Consensus pattern (23 bp):
GTGAGCTTCCTGATAGGCTCTTT
Found at i:3571964 original size:24 final size:23
Alignment explanation
Indices: 3571916--3571964 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
3571906 TGGCTATCCG
*
3571916 GAGCTTCCCGATAGGCTCTTTGT
1 GAGCTTCACGATAGGCTCTTTGT
*
3571939 GAGCTTCACGATATGGTTCTTTGT
1 GAGCTTCACGATA-GGCTCTTTGT
3571963 GA
1 GA
3571965 ACTACCTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 12 0.52
24 11 0.48
ACGTcount: A:0.16, C:0.20, G:0.27, T:0.37
Consensus pattern (23 bp):
GAGCTTCACGATAGGCTCTTTGT
Found at i:3572394 original size:46 final size:46
Alignment explanation
Indices: 3572342--3572477 Score: 202
Period size: 46 Copynumber: 3.0 Consensus size: 46
3572332 GCTCTCTGAA
* *
3572342 ATGAAATGTGTAAGACCATGGTTGAAAGATACTATGGCAACGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACTATGGCAACATGAC
*
3572388 ATGAAATGAATAAGACCATGGTTGAAAGATACTATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACTATGGCAACATGAC
* * *
3572434 A-GAAAACGAGTAAGACCATAGTTGAAAGATACTATGGCATCATG
1 ATG-AAATGAGTAAGACCATGGTTGAAAGATACTATGGCAACATG
3572478 TCGAAGATAA
Statistics
Matches: 82, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
45 1 0.01
46 81 0.99
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.22
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACTATGGCAACATGAC
Found at i:3579624 original size:39 final size:39
Alignment explanation
Indices: 3579437--3579613 Score: 282
Period size: 39 Copynumber: 4.5 Consensus size: 39
3579427 ACAAAGCATG
3579437 CGGGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTT
1 CGGGAC-TT-AGCCCGGATATAATACCAGCACGAATGCCTT
* **
3579478 CAGGACTTAGCCCGGATATAACGCCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
**
3579517 CGGGACTTAGCCCGGATATAGCACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
*
3579556 CAGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
3579595 CGGGACTTAGCCCGGATAT
1 CGGGACTTAGCCCGGATAT
3579614 TTTTCCAGCA
Statistics
Matches: 126, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
39 119 0.94
40 2 0.02
41 5 0.04
ACGTcount: A:0.28, C:0.29, G:0.24, T:0.20
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
Found at i:3579651 original size:39 final size:39
Alignment explanation
Indices: 3579606--3579737 Score: 185
Period size: 39 Copynumber: 3.4 Consensus size: 39
3579596 GGGACTTAGC
* * *
3579606 CCGGATATTTTTCCAGCACT-TAGCCTGCGGACTTTAAGT
1 CCGGATATATTTCCAGCA-TAAAGCCTGCGGACTTCAAGT
*
3579645 CTGGATATATTTCCAGCATAAAGCCTGCGGACTTCAAGT
1 CCGGATATATTTCCAGCATAAAGCCTGCGGACTTCAAGT
*
3579684 CCGGATATATTTCCAACATAAAGCCTGCGGACTTCAAGT
1 CCGGATATATTTCCAGCATAAAGCCTGCGGACTTCAAGT
* *
3579723 CCGAATATTTTTCCA
1 CCGGATATATTTCCA
3579738 ATACCATGCA
Statistics
Matches: 84, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
38 1 0.01
39 83 0.99
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (39 bp):
CCGGATATATTTCCAGCATAAAGCCTGCGGACTTCAAGT
Found at i:3579651 original size:78 final size:78
Alignment explanation
Indices: 3579437--3579730 Score: 233
Period size: 78 Copynumber: 3.7 Consensus size: 78
3579427 ACAAAGCATG
* * * * * *
3579437 CGGGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTTCAGGAC-TT-AGCCCGGATATAAC
1 CGGGAC-TT-AGCCCGGATATATTTCCAGCACTAA-GCCTGC-GGACTTTAAGTCCGGATATAAT
*
3579500 GCCAGCACGAATGCCTT
62 ACCAGCACGAATGCCTT
*** * * *
3579517 CGGGACTTAGCCCGGATATAGCACCAGCACGAATGCCTTCAGGAC-TT-AGCCCGGATATAATAC
1 CGGGACTTAGCCCGGATATATTTCCAGCACTAA-GCCTGC-GGACTTTAAGTCCGGATATAATAC
3579580 CAGCACGAATGCCTT
64 CAGCACGAATGCCTT
* * * * *
3579595 CGGGACTTAGCCCGGATATTTTTCCAGCACTTAGCCTGCGGACTTTAAGTCTGGATATATTTCCA
1 CGGGACTTAGCCCGGATATATTTCCAGCACTAAGCCTGCGGACTTTAAGTCCGGATATAATACCA
* * *
3579660 GCA-TAAAGCCTG
66 GCACGAATGCCTT
* * * *
3579672 C-GGACTTCAAGTCCGGATATATTTCCAACA-TAAAGCCTGCGGACTTCAAGTCCGAATAT
1 CGGGACTT--AGCCCGGATATATTTCCAGCACT-AAGCCTGCGGACTTTAAGTCCGGATAT
3579731 TTTTCCAATA
Statistics
Matches: 184, Mismatches: 25, Indels: 12
0.83 0.11 0.05
Matches are distributed among these distances:
76 10 0.05
77 15 0.08
78 151 0.82
79 2 0.01
80 6 0.03
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (78 bp):
CGGGACTTAGCCCGGATATATTTCCAGCACTAAGCCTGCGGACTTTAAGTCCGGATATAATACCA
GCACGAATGCCTT
Found at i:3582106 original size:8 final size:8
Alignment explanation
Indices: 3582089--3582118 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
3582079 TCACAGAAAT
3582089 CATACATG
1 CATACATG
*
3582097 CATGCATG
1 CATACATG
3582105 CATACATG
1 CATACATG
3582113 CATACA
1 CATACA
3582119 CATAAATTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.37, C:0.27, G:0.13, T:0.23
Consensus pattern (8 bp):
CATACATG
Found at i:3603077 original size:34 final size:34
Alignment explanation
Indices: 3603039--3603107 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
3603029 TTTGACTGAG
*
3603039 TTGCTGCTAGAGTATGATTTTGAAACATAAGTTT
1 TTGCTGCTAGAATATGATTTTGAAACATAAGTTT
3603073 TTGCTGCTAGAATATGATTTTGAAACATAAGTTT
1 TTGCTGCTAGAATATGATTTTGAAACATAAGTTT
3603107 T
1 T
3603108 GTTTGGTTGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (34 bp):
TTGCTGCTAGAATATGATTTTGAAACATAAGTTT
Found at i:3606472 original size:14 final size:16
Alignment explanation
Indices: 3606455--3606486 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
3606445 AGTTGTTTTG
3606455 TTTTGTTT-TT-TGTT
1 TTTTGTTTCTTCTGTT
3606469 TTTTGTTTCTTCTGTT
1 TTTTGTTTCTTCTGTT
3606485 TT
1 TT
3606487 CTTCTTGACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 2 0.12
16 6 0.38
ACGTcount: A:0.00, C:0.06, G:0.12, T:0.81
Consensus pattern (16 bp):
TTTTGTTTCTTCTGTT
Found at i:3610346 original size:18 final size:19
Alignment explanation
Indices: 3610297--3610347 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 19
3610287 TTCAAACACT
*
3610297 ATATATAGTATATTTCTAAC
1 ATATATA-TATATTTATAAC
3610317 AT-TAT-TACTATTTATAA-
1 ATATATATA-TATTTATAAC
3610334 ATATATATATATTT
1 ATATATATATATTT
3610348 TACGTACATA
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
17 4 0.15
18 16 0.59
19 5 0.19
20 2 0.07
ACGTcount: A:0.41, C:0.06, G:0.02, T:0.51
Consensus pattern (19 bp):
ATATATATATATTTATAAC
Found at i:3618818 original size:46 final size:46
Alignment explanation
Indices: 3618768--3618943 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
3618758 TGGTTGAGCA
3618768 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
3618814 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
3618859 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
3618907 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
3618944 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:3618924 original size:93 final size:93
Alignment explanation
Indices: 3618765--3618936 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
3618755 GGATGGTTGA
* *
3618765 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
3618830 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
3618858 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
3618923 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
3618937 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:3626275 original size:46 final size:46
Alignment explanation
Indices: 3626223--3626398 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
3626213 TGGTTGAGCA
3626223 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
3626269 TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
3626314 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
3626362 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
3626399 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.57
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:3626379 original size:93 final size:93
Alignment explanation
Indices: 3626220--3626391 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
3626210 GGATGGTTGA
* **
3626220 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
3626285 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
3626313 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
3626378 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
3626392 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:3629979 original size:15 final size:15
Alignment explanation
Indices: 3629959--3629989 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
3629949 ATCCGAAATC
3629959 TATCTATCTATTTTT
1 TATCTATCTATTTTT
3629974 TATCTATCTATTTTT
1 TATCTATCTATTTTT
3629989 T
1 T
3629990 CTTTAGTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.13, G:0.00, T:0.68
Consensus pattern (15 bp):
TATCTATCTATTTTT
Done.