Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168037.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_29, 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: 14313602
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 50000 characters in sequence are not A, C, G, or T
File 13 of 74
Found at i:3618438 original size:21 final size:21
Alignment explanation
Indices: 3618377--3618440 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 21
3618367 CATTTTTTAT
*
3618377 TTATAATAATATATCTTTTATA
1 TTATAATAATATAT-TTTTACA
*
3618399 TTATCAA-CATA-ATTCTTTACA
1 TTAT-AATAATATATT-TTTACA
3618420 TTATAATAATATATTTTTACA
1 TTATAATAATATATTTTTACA
3618441 CTTAGTGTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
20 3 0.09
21 20 0.57
22 10 0.29
23 2 0.06
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (21 bp):
TTATAATAATATATTTTTACA
Found at i:3618687 original size:217 final size:216
Alignment explanation
Indices: 3618313--3618905 Score: 648
Period size: 218 Copynumber: 2.7 Consensus size: 216
3618303 TCAAATTATT
* *
3618313 TTAATTTTATAATTATT-TTCACTTTTTTACGTTAACATT-TTTTTT-GTTTAGAATCATTTTTT
1 TTAATTTTA-CATTATTCTT-ACTTTTTTACGTTAACATTATTTTTTGGTTTAGAATTATTTTTT
* * * * **
3618375 ATTTATAATAAT-ATATCTTTTATATTATCAACATAATTCTTTACATTATAATAATATATTTTTA
64 ATTTATAATAATAAT-TTTTTTACATTATCAACTTAATTATTTATGTTATAATAATATATTTTTA
* * * *
3618439 CACTTAG-TGTTA-TCTTTCATTATGTTTAGAATTATCATAAT-TTTTTTTAAAGGTGTTACAAC
128 TACTT-GTTGTTACT-TTTCATTATGTTTAGAATTACCATAATGTTTTATT-AAGGTGTAACAAC
3618501 ACTTCTAACTA-TTACGCCAAAAAATA
190 ACTTCTAACTATTTACGCCAAAAAATA
*
3618527 TTAATTTTACACTTATTCTTATCTTTTTTACGTTAACATCTATTTTTTGGTGTAGAATTATTTTT
1 TTAATTTTACA-TTATTCTTA-CTTTTTTACGTTAACAT-TATTTTTTGGTTTAGAATTATTTTT
* * * * *
3618592 TATTTATAATACTAATTTTTTTACATTGTCAATTTAATTATTTATGTTTTAATAAT-TTTTTTTA
63 TATTTATAATAATAATTTTTTTACATTATCAACTTAATTATTTATGTTATAATAATATATTTTTA
* * * *
3618656 TACTTGTTATTACTTTTCATTACGTTTAGAATTACCATAATGTTTTATTAAGGTGTAACGATACT
128 TACTTGTTGTTACTTTTCATTATGTTTAGAATTACCATAATGTTTTATTAAGGTGTAACAACACT
* * *
3618721 TGTAACTATTTTACGTCAAATAATA
193 TCTAACTA-TTTACGCCAAAAAATA
* * * * *
3618746 CTAATTTTACTATTATTCTCACTTTTTTACATTAAC-TTTTATTTTTGGTTTAAAATTATTTTTT
1 TTAATTTTAC-ATTATTCTTACTTTTTTACGTTAACATTAT-TTTTTGGTTTAGAATTA-TTTTT
* * * *
3618810 TAATTTCTAATAATATTATTTTTTTACATTACCAACTTAATTATTTTTGTTATAATAATATCTTT
63 T-ATTTATAATAATA--ATTTTTTTACATTATCAACTTAATTATTTATGTTATAATAATATATTT
* *
3618875 TTATGCTTGTTGTTACTTTTTATTATGTTTA
125 TTATACTTGTTGTTACTTTTCATTATGTTTA
3618906 TAACTATTAC
Statistics
Matches: 317, Mismatches: 43, Indels: 30
0.81 0.11 0.08
Matches are distributed among these distances:
213 1 0.00
214 15 0.05
215 19 0.06
216 4 0.01
217 82 0.26
218 84 0.26
219 43 0.14
220 1 0.00
221 37 0.12
222 31 0.10
ACGTcount: A:0.30, C:0.10, G:0.06, T:0.54
Consensus pattern (216 bp):
TTAATTTTACATTATTCTTACTTTTTTACGTTAACATTATTTTTTGGTTTAGAATTATTTTTTAT
TTATAATAATAATTTTTTTACATTATCAACTTAATTATTTATGTTATAATAATATATTTTTATAC
TTGTTGTTACTTTTCATTATGTTTAGAATTACCATAATGTTTTATTAAGGTGTAACAACACTTCT
AACTATTTACGCCAAAAAATA
Found at i:3618852 original size:25 final size:23
Alignment explanation
Indices: 3618798--3618857 Score: 66
Period size: 25 Copynumber: 2.5 Consensus size: 23
3618788 TTTTGGTTTA
* *
3618798 AAATTATTTTTTTAATTTCTAAT
1 AAATTATTTTTTTAATTACCAAT
3618821 AATATTATTTTTTTACATTACCAACT
1 AA-ATTATTTTTTTA-ATTACCAA-T
*
3618847 TAATTATTTTT
1 AAATTATTTTT
3618858 GTTATAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
23 2 0.06
24 12 0.39
25 15 0.48
26 2 0.06
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.58
Consensus pattern (23 bp):
AAATTATTTTTTTAATTACCAAT
Found at i:3619012 original size:223 final size:218
Alignment explanation
Indices: 3618323--3619029 Score: 601
Period size: 218 Copynumber: 3.2 Consensus size: 218
3618313 TTAATTTTAT
* * * *
3618323 AATTATTTTCACTTTTTTACGTTAACATTT-TTTTT-GTTTAGAATCA-TTTTTTATTTATAATA
1 AATTATTCTCACATTTTTACATTAACATTTATTTTTGGTTTAGAATTATTTTTTTATTTATAATA
* * * * * ** * * *
3618385 AT-ATATCTTTTATATTATCAACATAATTCTTTACATTATAATAATATATTTTTACACTTAG-TG
66 ATAAT-TTTTTTACATTACCAACTTAATTATTTATGTTATAATAAT-TCTTTTTATACTT-GTTA
* * * * * * * * *
3618448 TTA-TCTTTCATTATGTTTAGAATTATCATAAT-TTTTTTTAAAGGTGTTACAACACTTCTAACT
128 TTACT-TTTCATTACGTTTAGAACTACCACAATGCTTTATT-AAGGTGTAACGATACTTCTAACT
** * * ** *
3618511 A--TTACGCCAAAAAATATTAATTTTAC
191 ATTTTACATCAAATAACACCAATTTCAC
* * * * * *
3618537 ACTTATTCTTATCTTTTTTACGTTAACATCTATTTTTTGGTGTAGAATTA-TTTTTTATTTATAA
1 AATTATTCTCA-CATTTTTACATTAACATTTA-TTTTTGGTTTAGAATTATTTTTTTATTTATAA
* ** * * *
3618601 TACTAATTTTTTTACATTGTCAATTTAATTATTTATGTTTTAATAATTTTTTTTATACTTGTTAT
64 TAATAATTTTTTTACATTACCAACTTAATTATTTATGTTATAATAATTCTTTTTATACTTGTTAT
* * * *
3618666 TACTTTTCATTACGTTTAGAATTACCATAATGTTTTATTAAGGTGTAACGATACTTGTAACTATT
129 TACTTTTCATTACGTTTAGAACTACCACAATGCTTTATTAAGGTGTAACGATACTTCTAACTATT
* * * *
3618731 TTACGTCAAATAATACTAATTTTAC
194 TTACATCAAATAACACCAATTTCAC
* * * * *
3618756 TATTATTCTCACTTTTTTACATTAACTTTTATTTTTGGTTTAAAATTATTTTTTTAATTTCTAAT
1 AATTATTCTCACATTTTTACATTAACATTTATTTTTGGTTTAGAATTATTTTTTT-ATTTATAAT
* *
3618821 AATATTATTTTTTTACATTACCAACTTAATTATTTTTGTTATAATAATATCTTTTTATGCTTGTT
65 AATA--ATTTTTTTACATTACCAACTTAATTATTTATGTTATAATAAT-TCTTTTTATACTTGTT
* * * * **
3618886 GTTACTTTTTATTATGTTTATAACTATTACAACT-CTTTATTAAGGTGTTAA-GATACTTCTAAC
127 ATTACTTTTCATTACGTTTAGAACTACCACAA-TGCTTTATTAAGGTG-TAACGATACTTCTAAC
* *
3618949 TTATTTTACATTAAATGACACCAATTTCAC
190 -TATTTTACATCAAATAACACCAATTTCAC
*
3618979 AATTATTCTCACATTTTTACATTAACATTTATTTATTGATTTAGAATTATT
1 AATTATTCTCACATTTTTACATTAACATTTATTT-TTGGTTTAGAATTATT
3619030 CCTTGGGTTT
Statistics
Matches: 407, Mismatches: 67, Indels: 28
0.81 0.13 0.06
Matches are distributed among these distances:
214 8 0.02
215 18 0.04
216 1 0.00
217 80 0.20
218 87 0.21
219 43 0.11
221 37 0.09
222 61 0.15
223 58 0.14
224 14 0.03
ACGTcount: A:0.31, C:0.11, G:0.06, T:0.52
Consensus pattern (218 bp):
AATTATTCTCACATTTTTACATTAACATTTATTTTTGGTTTAGAATTATTTTTTTATTTATAATA
ATAATTTTTTTACATTACCAACTTAATTATTTATGTTATAATAATTCTTTTTATACTTGTTATTA
CTTTTCATTACGTTTAGAACTACCACAATGCTTTATTAAGGTGTAACGATACTTCTAACTATTTT
ACATCAAATAACACCAATTTCAC
Found at i:3619059 original size:222 final size:219
Alignment explanation
Indices: 3618599--3619061 Score: 509
Period size: 222 Copynumber: 2.1 Consensus size: 219
3618589 TTTTATTTAT
* ** * * *
3618599 AATACTAATTTTTTTACATTGTCAATTTAATTATTTATGTTTTAATAATTTTTTTTATACTTGTT
1 AATAATAATTTTTTTACATTACCAACTTAATTATTTATGTTATAATAATTCTTTTTATACTTGTT
* * * *
3618664 ATTACTTTTCATTACGTTTAGAATTACCATAATGTTTTATTAAGGTGTAACGATACTTGTAACTA
66 ATTACTTTTCATTACGTTTAGAACTACCACAATGCTTTATTAAGGTGTAACGATACTTCTAACTA
* * * * * * * *
3618729 TTTTACGTCAAATAATACTAATTTTACTATTATTCTCACTTTTTTACATTAACTTTTATTTTTGG
131 TTTTACATCAAATAACACCAATTTCACAATTATTCTCACATTTTTACATTAACATTTATTTTTGA
** * *
3618794 TTTAAAATTATTTTTTTAATTTCT
196 TTTAAAATTATTCCTTGAATTTCA
* *
3618818 AATAATATTATTTTTTTACATTACCAACTTAATTATTTTTGTTATAATAATATCTTTTTATGCTT
1 AATAATA--ATTTTTTTACATTACCAACTTAATTATTTATGTTATAATAAT-TCTTTTTATACTT
* * * * **
3618883 GTTGTTACTTTTTATTATGTTTATAACTATTACAACT-CTTTATTAAGGTGTTAA-GATACTTCT
63 GTTATTACTTTTCATTACGTTTAGAACTACCACAA-TGCTTTATTAAGGTG-TAACGATACTTCT
* *
3618946 AACTTATTTTACATTAAATGACACCAATTTCACAATTATTCTCACATTTTTACATTAACATTTAT
126 AAC-TATTTTACATCAAATAACACCAATTTCACAATTATTCTCACATTTTTACATTAACATTTAT
* **
3619011 TTATTGATTTAGAATTATTCCTTGGGTTT-A
190 TT-TTGATTTAAAATTATTCCTTGAATTTCA
*
3619041 AGATAATAATTCTTTTACATT
1 A-ATAATAATTTTTTTACATT
3619062 TTCAATTATT
Statistics
Matches: 200, Mismatches: 36, Indels: 13
0.80 0.14 0.05
Matches are distributed among these distances:
219 6 0.03
221 37 0.19
222 73 0.37
223 59 0.29
224 25 0.12
ACGTcount: A:0.31, C:0.11, G:0.06, T:0.52
Consensus pattern (219 bp):
AATAATAATTTTTTTACATTACCAACTTAATTATTTATGTTATAATAATTCTTTTTATACTTGTT
ATTACTTTTCATTACGTTTAGAACTACCACAATGCTTTATTAAGGTGTAACGATACTTCTAACTA
TTTTACATCAAATAACACCAATTTCACAATTATTCTCACATTTTTACATTAACATTTATTTTTGA
TTTAAAATTATTCCTTGAATTTCA
Found at i:3619343 original size:26 final size:27
Alignment explanation
Indices: 3619301--3619357 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 27
3619291 TGTATAAATC
* * *
3619301 TAAA-AATTAAAATATTT-TTTTTTAT
1 TAAATAATAAAAATATTTATATTTGAT
3619326 TAAATAATAAAAATATTTATATTTGAT
1 TAAATAATAAAAATATTTATATTTGAT
3619353 TAAAT
1 TAAAT
3619358 TAAATTAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 4 0.15
26 12 0.44
27 11 0.41
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (27 bp):
TAAATAATAAAAATATTTATATTTGAT
Found at i:3619915 original size:38 final size:37
Alignment explanation
Indices: 3619856--3619940 Score: 118
Period size: 38 Copynumber: 2.3 Consensus size: 37
3619846 AAGACGTGAT
3619856 AATGTCAAAATTTATGATAAGAATCAAAACTTA-GGA
1 AATGTCAAAATTTATGATAAGAATCAAAACTTATGGA
* * *
3619892 AATGTCAAAACTTTTATGGTAAGAGTCAAAACTTATGGT
1 AATGTCAAAA--TTTATGATAAGAATCAAAACTTATGGA
3619931 AATGTCAAAA
1 AATGTCAAAA
3619941 AGATTCTATT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
36 10 0.23
38 21 0.49
39 12 0.28
ACGTcount: A:0.46, C:0.09, G:0.15, T:0.29
Consensus pattern (37 bp):
AATGTCAAAATTTATGATAAGAATCAAAACTTATGGA
Found at i:3619941 original size:19 final size:18
Alignment explanation
Indices: 3619855--3619940 Score: 77
Period size: 19 Copynumber: 4.6 Consensus size: 18
3619845 AAAGACGTGA
* *
3619855 TAATGTCAAAATTTATGA
1 TAATGTCAAAACTTATGG
3619873 TAA-GAATCAAAACTTA-GG
1 TAATG--TCAAAACTTATGG
*
3619891 AAATGTCAAAACTTTTATGG
1 TAATGTCAAAAC--TTATGG
*
3619911 TAAGAGTCAAAACTTATGG
1 TAA-TGTCAAAACTTATGG
3619930 TAATGTCAAAA
1 TAATGTCAAAA
3619941 AGATTCTATT
Statistics
Matches: 55, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
17 8 0.15
18 13 0.24
19 22 0.40
20 4 0.07
21 8 0.15
ACGTcount: A:0.45, C:0.09, G:0.15, T:0.30
Consensus pattern (18 bp):
TAATGTCAAAACTTATGG
Found at i:3621656 original size:26 final size:27
Alignment explanation
Indices: 3621627--3621684 Score: 77
Period size: 26 Copynumber: 2.2 Consensus size: 27
3621617 TTTTACCTTG
*
3621627 TATATTTAA-ATAATTTTTT-ATAAATA
1 TATATTTAATAT-ATTTTTTAATAAAAA
3621653 TATA-TTAATATATTTTTTAATAAAAA
1 TATATTTAATATATTTTTTAATAAAAA
3621679 TATATT
1 TATATT
3621685 AATTTTAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 11 0.39
26 16 0.57
27 1 0.04
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (27 bp):
TATATTTAATATATTTTTTAATAAAAA
Found at i:3621685 original size:26 final size:24
Alignment explanation
Indices: 3621635--3621687 Score: 79
Period size: 26 Copynumber: 2.1 Consensus size: 24
3621625 TGTATATTTA
*
3621635 AATAATTTTTTATAAATATATATT
1 AATAATTTTTTATAAAAATATATT
3621659 AATATATTTTTTAATAAAAATATATT
1 AATA-ATTTTTT-ATAAAAATATATT
3621685 AAT
1 AAT
3621688 TTTAATTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 4 0.15
25 7 0.27
26 15 0.58
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
AATAATTTTTTATAAAAATATATT
Found at i:3627122 original size:14 final size:14
Alignment explanation
Indices: 3627103--3627131 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
3627093 AAGATACATC
3627103 AATATTTTTGGTTT
1 AATATTTTTGGTTT
3627117 AATATTTTTGGTTT
1 AATATTTTTGGTTT
3627131 A
1 A
3627132 TCCACCAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.14, T:0.62
Consensus pattern (14 bp):
AATATTTTTGGTTT
Found at i:3628116 original size:19 final size:19
Alignment explanation
Indices: 3628092--3628128 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
3628082 TTGGCGTTGG
*
3628092 AATCATTTGTTGCCATACA
1 AATCATTAGTTGCCATACA
3628111 AATCATTAGTTGCCATAC
1 AATCATTAGTTGCCATAC
3628129 GAAGATTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (19 bp):
AATCATTAGTTGCCATACA
Found at i:3632877 original size:71 final size:71
Alignment explanation
Indices: 3632756--3632907 Score: 286
Period size: 71 Copynumber: 2.1 Consensus size: 71
3632746 GTTCCTACAA
3632756 ATTCATAGAATAACTGTTAAAATTATCTGAGAAGAAACTATAATTAAGTTACAACAATAACAAAA
1 ATTC-TAGAATAACTGTTAAAATTATCTGAGAAGAAACTATAATTAAGTTACAACAATAACAAAA
*
3632821 TTTTGTT
65 ATTTGTT
3632828 ATTCTAGAATAACTGTTAAAATTATCTGAGAAGAAACTATAATTAAGTTACAACAATAACAAAAA
1 ATTCTAGAATAACTGTTAAAATTATCTGAGAAGAAACTATAATTAAGTTACAACAATAACAAAAA
3632893 TTTGTT
66 TTTGTT
3632899 ATTCTAGAA
1 ATTCTAGAA
3632908 CCAATACATT
Statistics
Matches: 79, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
71 75 0.95
72 4 0.05
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.33
Consensus pattern (71 bp):
ATTCTAGAATAACTGTTAAAATTATCTGAGAAGAAACTATAATTAAGTTACAACAATAACAAAAA
TTTGTT
Found at i:3641462 original size:13 final size:13
Alignment explanation
Indices: 3641444--3641469 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3641434 TCTCAGGTCA
3641444 TGTGAAAATTGAT
1 TGTGAAAATTGAT
3641457 TGTGAAAATTGAT
1 TGTGAAAATTGAT
3641470 GCCCTTGCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.23, T:0.38
Consensus pattern (13 bp):
TGTGAAAATTGAT
Found at i:3643522 original size:25 final size:23
Alignment explanation
Indices: 3643443--3643522 Score: 72
Period size: 23 Copynumber: 3.3 Consensus size: 23
3643433 GACATCGGAT
3643443 AAAATTTATAAGAAATTTTTTAAA
1 AAAATTTATAA-AAATTTTTTAAA
**
3643467 TGAATTT-TATAAAATTTTTTAAA
1 AAAATTTATA-AAAATTTTTTAAA
*
3643490 AACTAATTTAATAAAAATTTTAATAAA
1 AA--AATTT-ATAAAAATTTT-TTAAA
3643517 AAAATT
1 AAAATT
3643523 CAAATAGATG
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
23 14 0.31
24 6 0.13
25 9 0.20
26 8 0.18
27 8 0.18
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (23 bp):
AAAATTTATAAAAATTTTTTAAA
Found at i:3646999 original size:130 final size:131
Alignment explanation
Indices: 3646744--3647003 Score: 396
Period size: 130 Copynumber: 2.0 Consensus size: 131
3646734 GACAATAAAC
3646744 TTTGAAGTCTCATTTTTTGAACCAAAAGCGGCAGCAAGTGCCTGACAACACTGAAAAAAAAAAAA
1 TTTGAAGTCTCATTTTTTGAACCAAAAGCGGCAGCAAGTGCCTGACAACACTG----AAAAAAAA
* * *
3646809 GAATGACAATTCACTGAAGGTTAGGACAAGGTATGGATGTACATCAATGAGAAGTTTCACTATAA
62 GAATGAAAATTCACTGAAGGTTAGGACAAGGCATGGATGTACATCAAAGAGAAGTTTCACTATAA
3646874 TGTAA
127 TGTAA
* * *
3646879 TTTGAAGTCTCATTTTTTGAAGCAACAGCGGCAGCAAGTGCCTGACAATACTG-AAAAAAAGAAT
1 TTTGAAGTCTCATTTTTTGAACCAAAAGCGGCAGCAAGTGCCTGACAACACTGAAAAAAAAGAAT
* * *
3646943 GAAAATTCACTGATGGTTAGGACAAGGCATGGGTGTATATCAAAGAGAAGTTTCACTATAA
66 GAAAATTCACTGAAGGTTAGGACAAGGCATGGATGTACATCAAAGAGAAGTTTCACTATAA
3647004 AGGAATTACA
Statistics
Matches: 116, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
130 66 0.57
135 50 0.43
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.25
Consensus pattern (131 bp):
TTTGAAGTCTCATTTTTTGAACCAAAAGCGGCAGCAAGTGCCTGACAACACTGAAAAAAAAGAAT
GAAAATTCACTGAAGGTTAGGACAAGGCATGGATGTACATCAAAGAGAAGTTTCACTATAATGTA
A
Found at i:3651708 original size:29 final size:28
Alignment explanation
Indices: 3651627--3651704 Score: 97
Period size: 29 Copynumber: 2.8 Consensus size: 28
3651617 TAACACAGAT
*
3651627 ATATATA-AATAAACACAATTAATATGA
1 ATATATACAATAAACACGATTAATATGA
* * *
3651654 ATATATACGAATAGATACGACTAATATGA
1 ATATATAC-AATAAACACGATTAATATGA
3651683 ATATATACAA-AAACACGATTAA
1 ATATATACAATAAACACGATTAA
3651705 AATAATAAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
27 16 0.38
28 2 0.05
29 24 0.57
ACGTcount: A:0.55, C:0.10, G:0.08, T:0.27
Consensus pattern (28 bp):
ATATATACAATAAACACGATTAATATGA
Found at i:3651788 original size:27 final size:28
Alignment explanation
Indices: 3651749--3651801 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
3651739 AACTTAATAA
* *
3651749 ACTTAATATATTAATAATATAAAAAAGT
1 ACTTAATATATTAAAAAAATAAAAAAGT
3651777 ACTT-ATATATTAAAAAAATAAAAAA
1 ACTTAATATATTAAAAAAATAAAAAA
3651802 TTTAATACTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 19 0.83
28 4 0.17
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (28 bp):
ACTTAATATATTAAAAAAATAAAAAAGT
Found at i:3651862 original size:18 final size:18
Alignment explanation
Indices: 3651818--3651863 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
3651808 ACTCCTTTAG
*
3651818 TATATATTTAATATATAT
1 TATATTTTTAATATATAT
* * *
3651836 TTTAATTTTAATTTATAT
1 TATATTTTTAATATATAT
3651854 TATATTTTTA
1 TATATTTTTA
3651864 GTATCAAATT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TATATTTTTAATATATAT
Found at i:3652690 original size:16 final size:15
Alignment explanation
Indices: 3652669--3652707 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
3652659 TTGATTTGTA
3652669 TATAAAAAAATAAGAT
1 TATAAAAAAATAA-AT
*
3652685 TATAAAAAAAATTAAT
1 TAT-AAAAAAATAAAT
3652701 TATAAAA
1 TATAAAA
3652708 CATGATAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 4 0.19
16 8 0.38
17 9 0.43
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (15 bp):
TATAAAAAAATAAAT
Found at i:3652718 original size:73 final size:73
Alignment explanation
Indices: 3652631--3652776 Score: 265
Period size: 73 Copynumber: 2.0 Consensus size: 73
3652621 TATTGATAGA
*
3652631 AAAATATGATAATTATCTTATATTATATTTGATTTGTATATAAAAAAATAAGATTATAAAAAAAA
1 AAAACATGATAATTATCTTATATTATATTTGATTTGTATATAAAAAAATAAGATTATAAAAAAAA
3652696 TTAATTAT
66 TTAATTAT
* *
3652704 AAAACATGATAATTATCTTATGTTATATTTGATTTGTATATAAAAAAATAAGATTGTAAAAAAAA
1 AAAACATGATAATTATCTTATATTATATTTGATTTGTATATAAAAAAATAAGATTATAAAAAAAA
3652769 TTAATTAT
66 TTAATTAT
3652777 CTTTTTAGTA
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 70 1.00
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.40
Consensus pattern (73 bp):
AAAACATGATAATTATCTTATATTATATTTGATTTGTATATAAAAAAATAAGATTATAAAAAAAA
TTAATTAT
Found at i:3653008 original size:27 final size:24
Alignment explanation
Indices: 3652977--3653033 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 24
3652967 AAAATATTAT
3652977 TATTATTTAATCTAATATTAATTATAA
1 TATTATTTAATCT-AT-TT-ATTATAA
*
3653004 TATTATTTTATCTATTTATTATAA
1 TATTATTTAATCTATTTATTATAA
*
3653028 TTTTAT
1 TATTAT
3653034 GCACTAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 12 0.43
25 2 0.07
26 2 0.07
27 12 0.43
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (24 bp):
TATTATTTAATCTATTTATTATAA
Found at i:3653217 original size:8 final size:8
Alignment explanation
Indices: 3653201--3653255 Score: 56
Period size: 8 Copynumber: 6.9 Consensus size: 8
3653191 GATACCTAGA
3653201 ATGTATAT
1 ATGTATAT
*
3653209 ATGTGTAT
1 ATGTATAT
*
3653217 ATATATAT
1 ATGTATAT
*
3653225 ATATATAT
1 ATGTATAT
* *
3653233 ATATATGT
1 ATGTATAT
*
3653241 ATGTATGT
1 ATGTATAT
3653249 ATGTATA
1 ATGTATA
3653256 GAGAGAGAGA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
8 41 1.00
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (8 bp):
ATGTATAT
Found at i:3653217 original size:10 final size:10
Alignment explanation
Indices: 3653201--3653246 Score: 56
Period size: 10 Copynumber: 4.6 Consensus size: 10
3653191 GATACCTAGA
3653201 ATGTATATAT
1 ATGTATATAT
*
3653211 GTGTATATAT
1 ATGTATATAT
*
3653221 ATATATATAT
1 ATGTATATAT
* *
3653231 ATATATATGT
1 ATGTATATAT
3653241 ATGTAT
1 ATGTAT
3653247 GTATGTATAG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
10 31 1.00
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (10 bp):
ATGTATATAT
Found at i:3653219 original size:2 final size:2
Alignment explanation
Indices: 3653204--3653238 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
3653194 ACCTAGAATG
* *
3653204 TA TA TA TG TG TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3653239 GTATGTATGT
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:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3653262 original size:2 final size:2
Alignment explanation
Indices: 3653255--3653289 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
3653245 ATGTATGTAT
3653255 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
3653290 TTGCATGGGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3655701 original size:27 final size:27
Alignment explanation
Indices: 3655648--3655702 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
3655638 TGTTGATCGG
* * * *
3655648 ATGTTGAACTTTTAGTTTTAATCACTA
1 ATGTTGAACTCTTAATTTCAATAACTA
3655675 ATGTTGAACTCTTAATTTCAATAACTA
1 ATGTTGAACTCTTAATTTCAATAACTA
3655702 A
1 A
3655703 GTTCAAATCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.44
Consensus pattern (27 bp):
ATGTTGAACTCTTAATTTCAATAACTA
Found at i:3658641 original size:21 final size:21
Alignment explanation
Indices: 3658609--3658679 Score: 67
Period size: 20 Copynumber: 3.5 Consensus size: 21
3658599 GGTTTAGAAT
3658609 TTTTTTAT-TTATAATAATAA
1 TTTTTTATGTTATAATAATAA
*
3658629 TTTTTTATGTTATTAAT-TTAA
1 TTTTTTATGTTA-TAATAATAA
** *
3658650 TAATTTATGTTACAATAA-AA
1 TTTTTTATGTTATAATAATAA
*
3658670 TTTGTTATGT
1 TTTTTTATGT
3658680 ATGTTCTTAT
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
20 20 0.50
21 16 0.40
22 4 0.10
ACGTcount: A:0.35, C:0.01, G:0.06, T:0.58
Consensus pattern (21 bp):
TTTTTTATGTTATAATAATAA
Found at i:3658827 original size:18 final size:20
Alignment explanation
Indices: 3658791--3658831 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
3658781 TATTTTCATC
*
3658791 TTTTTACTTTAACACTTATT
1 TTTTTACTTTAACAATTATT
3658811 TTTTTA-TTTAA-AATTATT
1 TTTTTACTTTAACAATTATT
3658829 TTT
1 TTT
3658832 ATGTATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 9 0.45
19 5 0.25
20 6 0.30
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTTTACTTTAACAATTATT
Found at i:3659413 original size:221 final size:216
Alignment explanation
Indices: 3658973--3659413 Score: 458
Period size: 217 Copynumber: 2.0 Consensus size: 216
3658963 ATTTTACATA
* * * *
3658973 AAATAATATCAAATTTGTGATTATTCTCACCATTTTATGTTAACTCTTATTTTTTTGTTTAAAAT
1 AAATAATATCAAATTTATGATTACTCTCACCATTTTATATTAACTCTTATTTTTTAGTTTAAAAT
* ** ** * *
3659038 TATTTTTTATTTGTAATAATAATTTTTTTACATTACCAACTAATTATTTACATTATAATAATATC
66 TATTATTTATTTGTAATAATAATCCTTTTACATTACCAAAGAATTATCTACATTACAATAATATC
* * * * * * * * * *
3659103 TTTTTTTGCTGGTTATCTTTTATTACATTTAGGATTATCATAACTTTTTTTTAAAGTTATTATGA
131 TTGTTATACTGGTTATCTTTTATTACATTAAGAATTACCACAACTTTTTGTTAAAGATATTACGA
* *
3659168 TACTTTTAACCATCTTATGCT
196 TAATTTTAACCATCTTACGCT
* * * *
3659189 AAATAATATCAATTTTATGATTACTCTCACCTTTTTTATATTGA-TACTTATTTTTTAGTTTAGA
1 AAATAATATCAAATTTATGATTACTCTCACC-ATTTTATATTAACT-CTTATTTTTTAGTTTAAA
** ** *
3659253 ATTATTATTTATTTGTAATAATAATCCTTTTATGTTGTCAAAGATATTATCTATATTACAATAAT
64 ATTATTATTTATTTGTAATAATAATCCTTTTACATTACCAAAGA-ATTATCTACATTACAATAAT
* *
3659318 AAT-TTGTTATACTTGTTTCTACTTTTTATTACATTAAGAATTACCACAACTTTTTGTT-AAGAT
128 -ATCTTGTTATAC-TGGTTAT-C-TTTTATTACATTAAGAATTACCACAACTTTTTGTTAAAGAT
*
3659381 GTTACGATAATTTTAATCCAAT-TTACGCT
189 ATTACGATAATTTTAA-CC-ATCTTACGCT
3659410 AAAT
1 AAAT
3659414 GACACCAATT
Statistics
Matches: 181, Mismatches: 35, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
216 29 0.16
217 60 0.33
218 23 0.13
219 7 0.04
220 18 0.10
221 42 0.23
222 2 0.01
ACGTcount: A:0.32, C:0.11, G:0.07, T:0.51
Consensus pattern (216 bp):
AAATAATATCAAATTTATGATTACTCTCACCATTTTATATTAACTCTTATTTTTTAGTTTAAAAT
TATTATTTATTTGTAATAATAATCCTTTTACATTACCAAAGAATTATCTACATTACAATAATATC
TTGTTATACTGGTTATCTTTTATTACATTAAGAATTACCACAACTTTTTGTTAAAGATATTACGA
TAATTTTAACCATCTTACGCT
Found at i:3660230 original size:219 final size:221
Alignment explanation
Indices: 3659850--3660276 Score: 477
Period size: 220 Copynumber: 1.9 Consensus size: 221
3659840 TTTGTTTAAA
* * * * * *
3659850 TTTTTTTCTTAAGGTGTAATGATACTTCTAACTATTTTATGTTAAATAATACTAATTTTATAAAT
1 TTTTTTTCTAAAGGTGTAACGACACTTCTAACTATTTTAAGTCAAATAATACCAATTTTATAAAT
* * **
3659915 ATTCTCACCGTTTTACATTAACTCTTAGCTTTTCATTTAAAATTATTTTTTATTTGTAATAATAA
66 ATTCTCACCGTTTTACACTAACACTTAGCTTTTCATTTAAAATTATTAATTATTTGTAATAATAA
** ** * *
3659980 TTCTTTTATATTACAAATTTAAATATTTATGTTTTAATAA-CATTTTTTACGCTTATTGTT-ATT
131 TTCTTTTATATTACAAAAATAAATATTTATGTTACAATAATCATTTTTTACACTTATTCTTGATT
3660043 TTTCATTATGTTTAGAAGTATTAAAAC
196 TTT-ATTATGTTTAGAAGTATTAAAAC
* * *
3660070 TTTTTTT-TAAAGGTGTTACGACACTTCTAACTATTTTAAGTCAAATAATACCAATTTTATGATT
1 TTTTTTTCTAAAGGTGTAACGACACTTCTAACTATTTTAAGTCAAATAATACCAATTTTATAAAT
*** * * ** ** *
3660134 ATTCTCATTTTTTTTATACTAGCACTTATTTTTTGGTTTAGAATTATTAATTATTTGTAATAATA
66 ATTCTCA-CCGTTTTACACTAACACTTAGCTTTTCATTTAAAATTATTAATTATTTGTAATAATA
* * * * * *
3660199 ATT-TTTTATGTTGCCAAAAAT-ATTATTTATGTTACAATAATGATTTTTTACACTTGTTCTTGC
130 ATTCTTTTATATT-ACAAAAATAAATATTTATGTTACAATAATCATTTTTTACACTTATTCTTGA
3660262 TTTTTATTATGTTTA
194 TTTTTATTATGTTTA
3660277 AATTTATTAC
Statistics
Matches: 168, Mismatches: 35, Indels: 8
0.80 0.17 0.04
Matches are distributed among these distances:
219 79 0.47
220 84 0.50
221 5 0.03
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.52
Consensus pattern (221 bp):
TTTTTTTCTAAAGGTGTAACGACACTTCTAACTATTTTAAGTCAAATAATACCAATTTTATAAAT
ATTCTCACCGTTTTACACTAACACTTAGCTTTTCATTTAAAATTATTAATTATTTGTAATAATAA
TTCTTTTATATTACAAAAATAAATATTTATGTTACAATAATCATTTTTTACACTTATTCTTGATT
TTTATTATGTTTAGAAGTATTAAAAC
Found at i:3660248 original size:21 final size:21
Alignment explanation
Indices: 3660192--3660248 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
3660182 AATTATTTGT
*
3660192 AATAATAATTTTTTATGTTGCC
1 AATAAT-ATTTTTTATGTTGAC
* *
3660214 AAAAATATTATTTATGTT-AC
1 AATAATATTTTTTATGTTGAC
3660234 AATAATGATTTTTTA
1 AATAAT-ATTTTTTA
3660249 CACTTGTTCT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 6 0.21
21 18 0.62
22 5 0.17
ACGTcount: A:0.39, C:0.05, G:0.07, T:0.49
Consensus pattern (21 bp):
AATAATATTTTTTATGTTGAC
Found at i:3660384 original size:67 final size:67
Alignment explanation
Indices: 3660302--3660440 Score: 154
Period size: 67 Copynumber: 2.1 Consensus size: 67
3660292 TTTGTTAGGG
* * * * *
3660302 TGTTATAACAATTTTAATAGAATTTATGCCAAGTGA-CACTAATTTTACAACTATTCTTACTTTT
1 TGTTATAACAATTTTAACACAATTTACGCCAAATGATC-CTAACTTTACAACTATTCTTACTTTT
3660366 TTA
65 TTA
* * * * * *
3660369 TGTTATGACACTTTTAACACATTTTACGTCAAATGATCTTAACTTTACAATTATTCTTACTTTTT
1 TGTTATAACAATTTTAACACAATTTACGCCAAATGATCCTAACTTTACAACTATTCTTACTTTTT
3660434 TA
66 TA
*
3660436 CGTTA
1 TGTTA
3660441 ACATTTTTTT
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
67 58 0.98
68 1 0.02
ACGTcount: A:0.32, C:0.15, G:0.07, T:0.46
Consensus pattern (67 bp):
TGTTATAACAATTTTAACACAATTTACGCCAAATGATCCTAACTTTACAACTATTCTTACTTTTT
TA
Found at i:3660482 original size:923 final size:926
Alignment explanation
Indices: 3658557--3660512 Score: 2159
Period size: 923 Copynumber: 2.1 Consensus size: 926
3658547 TTATATCAAT
* * * *
3658557 TTTACGATTATTCTAACCTTTTTGTGTTAACACTTATTTTTAGGTTTAGAA-T-TTTTTTATTTA
1 TTTACAATTATTCTAACATTTTTATGTTAACACTT-TTTTT-TGTTTAGAATTATTTTTTATTTA
* *
3658620 TAATAATAA-TTTTTTATGTTATTAATTTAATAATTTATGTTACAATAAAATTTGTTATGTATGT
64 TAATAATAATTTTTTTATGTTATCAACTTAATAATTTATGTTACAATAAAATTTGTTATGTATGT
* * **
3658684 TCTTATATTTTATTATATTTAAAATTATCACAAAATTTTTTTTAAGTATTATGATACTTTAAACA
129 TCTCACATTTTATTATATTTAAAATTATCACAAAA-TTTTTTTAAGTATTACAATACTTTAAACA
* ** *
3658749 TATTTTATGTCAAATTATACCAATTTTATTATTATTTTCATCTTTTTACTTTAACACTTATTTTT
193 TATTTTATGTCAAATGATACCAATTTTACAATTATTTTCATATTTTTACTTTAACACTTA-TTTT
* * *
3658814 TTATTTAAAATTATTTTTATGTATAATACTAATTTTTTTATGTCACAAATTTATTACATTTCAAT
257 TTATTTAAAATTATTTTTATGTATAACACTAAGTTTTTTACGTCACAAATTTATTACATTTCAAT
* * *
3658879 AATATATTTTTACGTTTGTTGTTACTCTTCATTATATATAAAATTATTACAGTGTTTTGTTAAGG
322 AATATATTTTTACATTTATTGTTACTCTTCATTATATAT---ATTA-TACAGTGTTTTCTTAAGG
* * *
3658944 TGTAACAATACTTCTAACCATTTTACATAAAATAATATCAAATTTGTGATTATTCTCACCATTTT
383 TGTAACAATACTTCTAACCATTTTACATAAAATAATATCAAATTTATAAATATTCTCACCATTTT
** ** ** *
3659009 ATGTTAACTCTTATTTTTTTGTTTAAAATTATTTTTTATTTGTAATAATAATTTTTTTACATTAC
448 ACATTAACTCTTAGCTTTTCATTTAAAATTATTTTTTATTTGTAATAATAATTCTTTTACATTAC
* * * ** * *
3659074 CAACTAATTATTTACATTATAATAATATCTTTTTTTGCTGGTTATCTTTTATTACATTTAGGATT
513 AAACTAAATATTTACATTATAATAACATCTTTTTACGCTGGTTATCTTTTATTACATTTAGAAGT
* * * * * * *
3659139 ATCATAACTTTTTTTTAAAGTTATTATGATACTTTTAACCATCTTATGCTAAATAATATCAATTT
578 ATCAAAACTTTTTTTTAAAGGTATTACGACACTTCTAACCATCTTAAGCTAAATAATACCAATTT
* * *
3659204 TATGATTACTCTCACCTTTTTTATATTGATACTTATTTTTTAGTTTAGAATTATTATTTATTTGT
643 TATGATTACTCTCACCTTTTTTATATAGACACTTATTTTTTAGTTTAGAATTATTAATTATTTGT
* * *
3659269 AATAATAATCCTTTTATGTTGTCAAAGATATTATCTATATTACAATAATAATTTGTTATACTTGT
708 AATAATAATCCTTTTATGTTGCCAAAAATATTATCTATATTACAATAATAATTTGTTACACTTGT
* * * *
3659334 TTCTACTTTTTATTACATTAAGAATTACCACAACTTTTTGTTAAGATGTTACGATAATTTTAATC
773 TTCTACTTTTTATTACATTAAGAATTACCACAACTCTTTGTTAAGATGTTACAACAATTTTAATA
* ** * *
3659399 CAATTTACGCTAAATGACACCAATTTTACATTTATTCTTATCCTTTTTCATTACAATATAGTAAT
838 CAATTTACGCCAAATGACACCAATTTTACAACTATTCTTA-CCTTTTTCATTACAACATAGTAAC
* *
3659464 ATATTTTACACTAAATGATTCTAAT
902 ACATTTTACACTAAATGATTCTAAC
* * * * * *
3659489 TTTTCAATTATTCTCACATTTTTATATTAATAAGTATTTTTTTGTTTAGAATTATTTTTTATTCA
1 TTTACAATTATTCTAACATTTTTATGTTAA-CACT-TTTTTTTGTTTAGAATTATTTTTTATTTA
* * *
3659554 TAATAATAATTTTTTTATATTATCAACTT-AT-ATTTATGTTACAAT-AAATTTTTTCATGTTTG
64 TAATAATAATTTTTTTATGTTATCAACTTAATAATTTATGTTACAATAAAATTTGTT-ATGTATG
* * * *
3659616 TTCTCACCTTTTATTATATTTAGAATTATCACAAGAA-TTTTTTAATGTATTACAATATTTTTAA
128 TTCTCACATTTTATTATATTTAAAATTATCACAA-AATTTTTTTAA-GTATTACAATACTTTAAA
*
3659680 TATATTTTATGTCAAATGATACCAATTTTACAATTATTTTCATATTTTTACTTTAACACTTA-TT
191 CATATTTTATGTCAAATGATACCAATTTTACAATTATTTTCATATTTTTACTTTAACACTTATTT
* * * * * * *
3659744 TTTA-TT-GAATTATTTTTTATTTATAACA-TTAGTTTTTTACGTTACTAATTTATTGCGTTTCA
256 TTTATTTAAAATTA-TTTTTATGTATAACACTAAGTTTTTTACGTCACAAATTTATTACATTTCA
* * * * * *
3659806 ATAATATCTTTTTATATTTATTGTTACTTTTCATT-T-TGT-TTA-A-ATTTTTTTCTTAAGGTG
320 ATAATATATTTTTACATTTATTGTTACTCTTCATTATATATATTATACAGTGTTTTCTTAAGGTG
** * ** * * *
3659866 TAATGATACTTCTAACTATTTTATGTTAAATAATA-CTAATTTTATAAATATTCTCACCGTTTTA
385 TAACAATACTTCTAACCATTTTACATAAAATAATATC-AAATTTATAAATATTCTCACCATTTTA
*
3659930 CATTAACTCTTAGCTTTTCATTTAAAATTATTTTTTATTTGTAATAATAATTCTTTTATATTACA
449 CATTAACTCTTAGCTTTTCATTTAAAATTATTTTTTATTTGTAATAATAATTCTTTTACATTACA
* ** * * **
3659995 AATTTAAATATTTATGTTTTAATAACAT-TTTTTACGCTTATTGTTAT-TTTTCATTATGTTTAG
514 AA-CTAAATATTTACATTATAATAACATCTTTTTACGC---TGGTTATCTTTT-ATTACATTTAG
* * * *
3660058 AAGTATTAAAACTTTTTTTTAAAGGTGTTACGACACTTCTAACTATTTTAAG-TCAAATAATACC
574 AAGTATCAAAACTTTTTTTTAAAGGTATTACGACACTTCTAACCATCTTAAGCT-AAATAATACC
* ** *
3660122 AATTTTATGATTATTCTCATTTTTTTTATACTAG-CACTTATTTTTTGGTTTAGAATTATTAATT
638 AATTTTATGATTACTCTCACCTTTTTTATA-TAGACACTTATTTTTTAGTTTAGAATTATTAATT
* * * * *
3660186 ATTTGTAATAATAAT-TTTTTATGTTGCCAAAAATATTATTTATGTTACAATAATGATTTTTTAC
702 ATTTGTAATAATAATCCTTTTATGTTGCCAAAAATATTATCTATATTACAATAATAATTTGTTAC
* ** * ** * * *
3660250 ACTTG-TTCTTGCTTTTTATTATGTTTAA-ATTTATTACAACTCTTTGTTAGGGTGTTATAACAA
767 ACTTGTTTC-TACTTTTTATTA-CATTAAGAATTACCACAACTCTTTGTTAAGATGTTACAACAA
* * * * * **
3660313 TTTTAATAGAATTTATGCCAAGTGACACTAATTTTACAACTATTCTTA-CTTTTTTATGTTATGA
830 TTTTAATACAATTTACGCCAAATGACACCAATTTTACAACTATTCTTACCTTTTTCA--TTACAA
** *
3660377 CACTTTTAACACATTTTAC-GTCAAATGA-TCTTAAC
893 CA-TAGTAACACATTTTACACT-AAATGATTC-TAAC
* * *
3660412 TTTACAATTATTCTTACTTTTTTACGTTAACA-TTTTTTTTGTTTAGAATTATTTTTTATTTATA
1 TTTACAATTATTCTAACATTTTTATGTTAACACTTTTTTTTGTTTAGAATTATTTTTTATTTATA
* * *
3660476 ATAATAAATTTTTTTATGTTATTACCTTAATTATTTA
66 ATAAT-AATTTTTTTATGTTATCAACTTAATAATTTA
3660513 CATTGTAATA
Statistics
Matches: 851, Mismatches: 146, Indels: 63
0.80 0.14 0.06
Matches are distributed among these distances:
919 1 0.00
920 172 0.20
921 43 0.05
922 139 0.16
923 191 0.22
924 2 0.00
927 2 0.00
928 1 0.00
929 62 0.07
930 15 0.02
931 6 0.01
932 48 0.06
933 129 0.15
934 24 0.03
935 16 0.02
ACGTcount: A:0.32, C:0.10, G:0.06, T:0.52
Consensus pattern (926 bp):
TTTACAATTATTCTAACATTTTTATGTTAACACTTTTTTTTGTTTAGAATTATTTTTTATTTATA
ATAATAATTTTTTTATGTTATCAACTTAATAATTTATGTTACAATAAAATTTGTTATGTATGTTC
TCACATTTTATTATATTTAAAATTATCACAAAATTTTTTTAAGTATTACAATACTTTAAACATAT
TTTATGTCAAATGATACCAATTTTACAATTATTTTCATATTTTTACTTTAACACTTATTTTTTAT
TTAAAATTATTTTTATGTATAACACTAAGTTTTTTACGTCACAAATTTATTACATTTCAATAATA
TATTTTTACATTTATTGTTACTCTTCATTATATATATTATACAGTGTTTTCTTAAGGTGTAACAA
TACTTCTAACCATTTTACATAAAATAATATCAAATTTATAAATATTCTCACCATTTTACATTAAC
TCTTAGCTTTTCATTTAAAATTATTTTTTATTTGTAATAATAATTCTTTTACATTACAAACTAAA
TATTTACATTATAATAACATCTTTTTACGCTGGTTATCTTTTATTACATTTAGAAGTATCAAAAC
TTTTTTTTAAAGGTATTACGACACTTCTAACCATCTTAAGCTAAATAATACCAATTTTATGATTA
CTCTCACCTTTTTTATATAGACACTTATTTTTTAGTTTAGAATTATTAATTATTTGTAATAATAA
TCCTTTTATGTTGCCAAAAATATTATCTATATTACAATAATAATTTGTTACACTTGTTTCTACTT
TTTATTACATTAAGAATTACCACAACTCTTTGTTAAGATGTTACAACAATTTTAATACAATTTAC
GCCAAATGACACCAATTTTACAACTATTCTTACCTTTTTCATTACAACATAGTAACACATTTTAC
ACTAAATGATTCTAAC
Found at i:3660979 original size:216 final size:219
Alignment explanation
Indices: 3660378--3661188 Score: 567
Period size: 217 Copynumber: 3.7 Consensus size: 219
3660368 ATGTTATGAC
* * * ** * * * *
3660378 ACTTTTAACACATTTTACGTCAAATGATCTTAACTTTACAATTATTCTTACTTTTTTACGTTAAC
1 ACTTCTAACTCATTTTACGTCAAATAAAATTAATTTTACAATTATTCTCACCTTTTTACATTAAC
* * * ** * *
3660443 ATTT-TTT-TT-GTTTAGAATTATTT-TTTATTTATAATAATAAATTTTTTTATGTTATTACCTT
66 ATTTATTTATTGGTTTAGAATT-TTTCTTTGTTTA-AGTAAT-AATTCTTTTACATTATCAACTT
* ** * ** ** * *
3660504 AATTATTTACATTGTAATAATATCTTTTTA-CACTTATTGTTACCTTT-CATTATGTTTAGAATT
128 AATTATTTACGTTACAATAATATATTTTTATGTC-TATTGTTA-CTTTCCATTACATTTAAAACT
* * * *
3660567 ATCATAACTTCTTT-TTAATGGTGTTACAAC
191 ATCACAACTT-TTTATTAA-GGTGTAACGAT
* * * **
3660597 ACTTCTAA-TCATTTTAC-ACAAAAAAAACATACCAATTTTACAATTA---T---CTTTTTATGT
1 ACTTCTAACTCATTTTACGTC-AAATAAA-AT--TAATTTTACAATTATTCTCACCTTTTTACAT
** * * * * *
3660654 TAACACATACTTT-TTGGTGTAGAATTATTT-TTTATTTATAATACTAATT-TGTTTATATTATC
62 TAACATTTA-TTTATTGGTTTAGAATT-TTTCTTTGTTTA-AGTAATAATTCT-TTTACATTATC
* * ** * * ** * ** **
3660716 AATTTAATTATTTACATTTTAATAATTTTTTTTTA-CACTTGTTGTTACTTTTTATTATGTTTAA
123 AACTTAATTATTTACGTTACAATAATATATTTTTATGTC-TATTGTTACTTTCCATTACATTTAA
*
3660780 AATTATCACAA-TGTTTTATTAAGGTGTAACGAT
187 AACTATCACAACT-TTTTATTAAGGTGTAACGAT
* * *
3660813 ACTTGTAACT-ATTTTACGTCAAATAAAATTAATTTTACGATTATTCTCACTTTTTTACATTAAC
1 ACTTCTAACTCATTTTACGTCAAATAAAATTAATTTTACAATTATTCTCACCTTTTTACATTAAC
* * *
3660877 TTTTATTTTTTGGTTTA-AATTTTT-TTAT-TTGTAA-TAATAATTTTTTTACATTA-CTAACTT
66 ATTTATTTATTGGTTTAGAATTTTTCTT-TGTT-TAAGTAATAATTCTTTTACATTATC-AACTT
* *
3660937 AATTATTTTCGTTACAATAATATATTTTTATGTCTATTGTTACTTTCCATTACATTTATAACTAT
128 AATTATTTACGTTACAATAATATATTTTTATGTCTATTGTTACTTTCCATTACATTTAAAACTAT
* *
3661002 CACAACTTTTTGTTAAGGTGTTACGAT
193 CACAACTTTTTATTAAGGTGTAACGAT
* * * * * *
3661029 ACTTCTAACTCATTTTACGTTAAATGACATTAATTTTATAATTATTTTTACCTTTTTACATTAAC
1 ACTTCTAACTCATTTTACGTCAAATAAAATTAATTTTACAATTATTCTCACCTTTTTACATTAAC
*
3661094 ATTTATTTATTGGTTTAGAATTTTTCTTTGGGTTTAAGGTAATAATTCTTTTACATTATCAATTT
66 ATTTATTTATTGGTTTAGAATTTTTCTTT--GTTTAA-GTAATAATTCTTTTACATTATCAACTT
*
3661159 AATTATTTACGTTACAATAATATCTTTTTA
128 AATTATTTACGTTACAATAATATATTTTTA
3661189 CATTGATTTT
Statistics
Matches: 481, Mismatches: 76, Indels: 67
0.77 0.12 0.11
Matches are distributed among these distances:
213 12 0.02
215 17 0.04
216 137 0.28
217 159 0.33
218 58 0.12
219 30 0.06
220 3 0.01
221 14 0.03
222 50 0.10
223 1 0.00
ACGTcount: A:0.31, C:0.11, G:0.06, T:0.52
Consensus pattern (219 bp):
ACTTCTAACTCATTTTACGTCAAATAAAATTAATTTTACAATTATTCTCACCTTTTTACATTAAC
ATTTATTTATTGGTTTAGAATTTTTCTTTGTTTAAGTAATAATTCTTTTACATTATCAACTTAAT
TATTTACGTTACAATAATATATTTTTATGTCTATTGTTACTTTCCATTACATTTAAAACTATCAC
AACTTTTTATTAAGGTGTAACGAT
Found at i:3661968 original size:19 final size:18
Alignment explanation
Indices: 3661931--3661998 Score: 73
Period size: 18 Copynumber: 3.7 Consensus size: 18
3661921 GAAGGATGTT
3661931 GTAATGTCAAAACTTATG
1 GTAATGTCAAAACTTATG
*
3661949 GTAATTTCAAAACTTTATG
1 GTAATGTCAAAAC-TTATG
* * *
3661968 GTAAGAGTCAAAACCTATA
1 GTAA-TGTCAAAACTTATG
*
3661987 ATAATGTCAAAA
1 GTAATGTCAAAA
3661999 ATATTCTATT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
18 19 0.46
19 15 0.37
20 7 0.17
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.31
Consensus pattern (18 bp):
GTAATGTCAAAACTTATG
Found at i:3663832 original size:19 final size:19
Alignment explanation
Indices: 3663808--3663844 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
3663798 ATTGGTGTTG
*
3663808 GAATCATTTGTTGCCATAC
1 GAATCATTAGTTGCCATAC
3663827 GAATCATTAGTTGCCATA
1 GAATCATTAGTTGCCATA
3663845 TGAAGATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (19 bp):
GAATCATTAGTTGCCATAC
Found at i:3666807 original size:219 final size:217
Alignment explanation
Indices: 3666383--3666807 Score: 491
Period size: 219 Copynumber: 1.9 Consensus size: 217
3666373 TTTTTTAACT
*
3666383 TTTTTATGTTAACACTTATTTGTTGGTTTGGAATTACCTTTTATTTATAATAATAATTTTTTATG
1 TTTTTATGTAAACACTTATTTGTT-GTTTGGAATTACCTTTTATTTATAATAATAATTTTTTATG
* * * * * *
3666448 TTATCAATTTAATTATTTACATTATAATAATATATTTTTACACTTATTTTTATCTTTTATTACGT
65 TTATCAACTTAATCATTTACATTAAAATAATATATTTTTACACTTATTCTTATATTTAATTACGT
* * * * * * *
3666513 TTAGAATTATCACAACTTTTTTCTTAACGTATTACAACACTTTTAATAACCTTTATGCCAAATGG
130 TTAAAAGTATCACAACTCTTTTCTTAAAGTATTACAACAC-GTTAATAACCTTTATACCAAATGA
3666578 TATAAATTTTACGATGATTCTATA
194 TATAAATTTTACGATGATTCTATA
* *
3666602 TTTTTATGTAAACACTTATTT-TT-TTATTGAATTATCTTTTTATTTATAATAATAATTCTTTTA
1 TTTTTATGTAAACACTTATTTGTTGTT-TGGAATTA-CCTTTTATTTATAATAATAATT-TTTTA
* * * ***
3666665 TGTTGTCAACTTAATCATTTACGTTAAAATAATATTTTTTTTATGTTTATTCTTATATTTAATTA
63 TGTTATCAACTTAATCATTTACATTAAAATAATA-TATTTTTACACTTATTCTTATATTTAATTA
* * * *
3666730 TGTTTAAAAGTATCACAACTCTTTT-TTAAAGTATTACGATA-GTT-ATAACCTATTTTACATCA
127 CGTTTAAAAGTATCACAACTCTTTTCTTAAAGTATTACAACACGTTAATAACCT-TTATAC--CA
*
3666792 AATGATATTAATTTTA
189 AATGATATAAATTTTA
3666808 TGACTATTTT
Statistics
Matches: 172, Mismatches: 27, Indels: 14
0.81 0.13 0.07
Matches are distributed among these distances:
216 9 0.05
217 13 0.08
218 23 0.13
219 83 0.48
220 44 0.26
ACGTcount: A:0.32, C:0.10, G:0.06, T:0.52
Consensus pattern (217 bp):
TTTTTATGTAAACACTTATTTGTTGTTTGGAATTACCTTTTATTTATAATAATAATTTTTTATGT
TATCAACTTAATCATTTACATTAAAATAATATATTTTTACACTTATTCTTATATTTAATTACGTT
TAAAAGTATCACAACTCTTTTCTTAAAGTATTACAACACGTTAATAACCTTTATACCAAATGATA
TAAATTTTACGATGATTCTATA
Found at i:3667442 original size:218 final size:214
Alignment explanation
Indices: 3667064--3667694 Score: 598
Period size: 218 Copynumber: 2.9 Consensus size: 214
3667054 CTTCAAACGT
* * * * * * *
3667064 ATTTTACATC-AAATTATACCAATTTTATGATTACTTTTATCTTTTTACT-TTAACACTTATTTT
1 ATTTTAC-TCAAAATAATATCAATTTTACGATTACTCTTAACTGTTTA-TATTAACTCTTATTTT
* * * *
3667127 TTGATTTAGAATTA-TTTTTATTTATAATACTAATTTTTTAAGTTACAAATT-TA-TTACGTT-T
64 TTG-TTTAGAATTATTTTTTATTTGTAATAATAATTTTTTAA-TTACCAGTTATATTTACGTTAT
* *
3667188 CAATAATATATTTTTATGTTTGTTGTTACTTTTCATTACATTTAAAATTATTATAATTTTTTTTG
127 -AATAATATATTTTTATGCTTGTTGTTACTTTTCATTACATTTAAAATTATCATAATTTTTTTT-
*
3667253 TTAAGGTGTAACGATACTTATAACC
190 TAAAGGTGTAACGATACTTATAACC
*
3667278 ATTTTACGT-AAAATAATATCAATTTTACGATTATTCTTAAC-GTTTATATTAACTCTTATTTTT
1 ATTTTAC-TCAAAATAATATCAATTTTACGATTACTCTTAACTGTTTATATTAACTCTTATTTTT
*
3667341 TGTTTAAAATTATTTTTTATTTGTAATAATAATTTTTTACATTACCAGTTTAACTATTTACGTTA
65 TGTTTAGAATTATTTTTTATTTGTAATAATAATTTTTTA-ATTACCAG-TT-A-TATTTACGTTA
* * * ** * * *
3667406 TAATAATGTCTTTTTATGCTTGTTGTTACATTTCATTATGTATAAAATTATCGTAA-CTTTTTTT
126 TAATAATATATTTTTATGCTTGTTGTTACTTTTCATTACATTTAAAATTATCATAATTTTTTTTT
* * * **
3667470 AAAGGTGTTATGATACTTCTAATT
191 AAAGGTGTAACGATACTTATAACC
* * * *
3667494 ATTTTACTCAAAATTATATCAATTTTATGATTACTCTTACCTTTTTTATATTAA-TACTTATTTT
1 ATTTTACTCAAAATAATATCAATTTTACGATTACTCTTAAC-TGTTTATATTAACT-CTTATTTT
* * * * * *
3667558 TTGGTTTAGAATTATTATTTATTCGTAATAATAATTCTTTTATGTTGCCAAAGATATTATTTATG
64 TT-GTTTAGAATTATTTTTTATTTGTAATAATAATT-TTTTA-ATTACC--AGTTA-TATTTACG
* * * ** * *
3667623 TTACAATAATATTTTTTTATACTTGTTCCTACTTTTTATTACATTTAAAATTATCACAATTTTTT
123 TTATAATAATATATTTTTATGCTTGTTGTTACTTTTCATTACATTTAAAATTATCATAATTTTTT
*
3667688 GTTAAAG
188 TTTAAAG
3667695 TATTACGACA
Statistics
Matches: 339, Mismatches: 59, Indels: 31
0.79 0.14 0.07
Matches are distributed among these distances:
212 10 0.03
213 49 0.14
214 36 0.11
215 1 0.00
216 54 0.16
217 9 0.03
218 73 0.22
219 31 0.09
220 63 0.19
221 11 0.03
222 2 0.01
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.53
Consensus pattern (214 bp):
ATTTTACTCAAAATAATATCAATTTTACGATTACTCTTAACTGTTTATATTAACTCTTATTTTTT
GTTTAGAATTATTTTTTATTTGTAATAATAATTTTTTAATTACCAGTTATATTTACGTTATAATA
ATATATTTTTATGCTTGTTGTTACTTTTCATTACATTTAAAATTATCATAATTTTTTTTTAAAGG
TGTAACGATACTTATAACC
Found at i:3668351 original size:13 final size:13
Alignment explanation
Indices: 3668333--3668357 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3668323 CTTAATTATT
3668333 TATTTTTTAATAA
1 TATTTTTTAATAA
3668346 TATTTTTTAATA
1 TATTTTTTAATA
3668358 TTTATTGTTA
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TATTTTTTAATAA
Found at i:3668560 original size:13 final size:13
Alignment explanation
Indices: 3668542--3668571 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
3668532 ATTTTTATTC
3668542 ATTTTTATTTCAT
1 ATTTTTATTTCAT
*
3668555 ATTTTTATTTCGT
1 ATTTTTATTTCAT
3668568 ATTT
1 ATTT
3668572 ATCATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.20, C:0.07, G:0.03, T:0.70
Consensus pattern (13 bp):
ATTTTTATTTCAT
Found at i:3670917 original size:58 final size:58
Alignment explanation
Indices: 3670840--3671037 Score: 240
Period size: 58 Copynumber: 3.4 Consensus size: 58
3670830 TCAATAATCT
* * *
3670840 CTTTAAAATGAAAATTTT-AAAAAATATTTTTGAAGGAAAGTTGAATGTATTAATTTC
1 CTTTAAAATAAAAATTTTAAAAAAATATTTTTGAAGGAAAGTTGAAAGTATCAATTTC
*
3670897 CTTTAAACATAAAAATTTTAAAAGAAATATTTTTGAGGGAAAGTTGAAAGTATCAATTTC
1 CTTTAAA-ATAAAAATTTTAAAA-AAATATTTTTGAAGGAAAGTTGAAAGTATCAATTTC
* * * * *
3670957 CTTGAAAATAAAAATTTTCAAAACATATTTTT-AAGGAAAAGATGAAAGTATCAATTTT
1 CTTTAAAATAAAAATTTTAAAAAAATATTTTTGAAGG-AAAGTTGAAAGTATCAATTTC
*
3671015 TTTTGAAAAT-AAAATTTCTAAAA
1 CTTT-AAAATAAAAATTT-TAAAA
3671038 TAAAGATTAT
Statistics
Matches: 122, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
57 10 0.08
58 47 0.39
59 26 0.21
60 39 0.32
ACGTcount: A:0.46, C:0.06, G:0.11, T:0.37
Consensus pattern (58 bp):
CTTTAAAATAAAAATTTTAAAAAAATATTTTTGAAGGAAAGTTGAAAGTATCAATTTC
Found at i:3671040 original size:73 final size:73
Alignment explanation
Indices: 3670961--3671131 Score: 193
Period size: 74 Copynumber: 2.3 Consensus size: 73
3670951 AATTTCCTTG
* * * **
3670961 AAAATAAAAATTTTCAA-AACA-TATTTTTAAGGAAAAGATGAAAGTATCAATTTTTTTTGAAAA
1 AAAATAAAAATTATCAAGAAAAGTA-TTTTAAGGAAAAGATAAAAGTATCAATTTTCCTTGAAAA
3671024 TAAAATTTC
65 TAAAATTTC
* * * *
3671033 TAAAATAAAGATTATCAAGAAAAGTATTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAT
1 -AAAATAAAAATTATCAAGAAAAGTATTTTAAGGAAAAGATAAAAGTATCAATTTTCCTTGAAAA
3671098 TAAAATTTC
65 TAAAATTTC
* * *
3671107 AAAAAAAAATATTTTGAAGAAAAGT
1 AAAATAAAA-ATTATCAAGAAAAGT
3671132 TGAAAGTATC
Statistics
Matches: 82, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
73 22 0.27
74 58 0.71
75 2 0.02
ACGTcount: A:0.51, C:0.05, G:0.11, T:0.33
Consensus pattern (73 bp):
AAAATAAAAATTATCAAGAAAAGTATTTTAAGGAAAAGATAAAAGTATCAATTTTCCTTGAAAAT
AAAATTTC
Found at i:3671079 original size:74 final size:74
Alignment explanation
Indices: 3670985--3671131 Score: 195
Period size: 74 Copynumber: 2.0 Consensus size: 74
3670975 CAAAACATAT
* ** * *
3670985 TTTTAAGGAAAAGATGAAAGTATCAATTTTTTTTGAAAATAAAATTTCTAAAATAAAGATTATCA
1 TTTTAAGGAAAAGATAAAAGTATCAATTTTCCTTGAAAATAAAATTTCAAAAAAAAAGATTATCA
3671050 AGAAAAGTA
66 AGAAAAGTA
* * * * * *
3671059 TTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTGAAATTAAAATTTCAAAAAAAAATATTTTGA
1 TTTTAAGGAAAAGATAAAAGTATCAATTTTCCTTGAAAATAAAATTTCAAAAAAAAAGATTATCA
3671124 AGAAAAGT
66 AGAAAAGT
3671132 TGAAAGTATC
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
74 62 1.00
ACGTcount: A:0.49, C:0.05, G:0.12, T:0.34
Consensus pattern (74 bp):
TTTTAAGGAAAAGATAAAAGTATCAATTTTCCTTGAAAATAAAATTTCAAAAAAAAAGATTATCA
AGAAAAGTA
Found at i:3671142 original size:133 final size:132
Alignment explanation
Indices: 3670927--3671169 Score: 341
Period size: 133 Copynumber: 1.8 Consensus size: 132
3670917 AAAGAAATAT
* * * *
3670927 TTTTGAGGGAAAGTTGAAAGTATCAATTTCCTTGAAAATAAAAATTTTCAAAACATATTTTTAAG
1 TTTTGAGGAAAAGTTAAAAGTATCAATTTCCTTGAAAATAAAAATTTTCAAAAAATATTTTGAAG
* *
3670992 GAAAAGATGAAAGTATCAATTTTTTTTGAAAAT-AAAATTTCTAAAATAAAGATTATCAAGAAAA
66 GAAAAGATGAAAGTATCAATTTTTCTT-AAAATAAAAACTTCTAAAATAAAGATTATCAAGAAAA
3671056 GTA
130 GTA
*
3671059 TTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTG-AAATTAAAA-TTTCAAAAAAAAATATTTT
1 TTTTGAGGAAAAGTTAAAAGTATCAA-TTTCCTTGAAAATAAAAATTTTC---AAAAAATATTTT
*
3671122 GAA-GAAAAGTTGAAAGTATCAATTTTTCTTAAAATAAAAACTTCTAAA
62 GAAGGAAAAGATGAAAGTATCAATTTTTCTTAAAATAAAAACTTCTAAA
3671170 TGCTTTAAGG
Statistics
Matches: 98, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
131 4 0.04
132 37 0.38
133 44 0.45
134 13 0.13
ACGTcount: A:0.47, C:0.07, G:0.12, T:0.35
Consensus pattern (132 bp):
TTTTGAGGAAAAGTTAAAAGTATCAATTTCCTTGAAAATAAAAATTTTCAAAAAATATTTTGAAG
GAAAAGATGAAAGTATCAATTTTTCTTAAAATAAAAACTTCTAAAATAAAGATTATCAAGAAAAG
TA
Found at i:3671296 original size:17 final size:18
Alignment explanation
Indices: 3671265--3671301 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
3671255 AGTTGAATCA
3671265 TTATTTCTCCTTTTTATT
1 TTATTTCTCCTTTTTATT
*
3671283 TTATTTCT-CTTTTTCTT
1 TTATTTCTCCTTTTTATT
3671300 TT
1 TT
3671302 CTTGAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (18 bp):
TTATTTCTCCTTTTTATT
Found at i:3675171 original size:8 final size:8
Alignment explanation
Indices: 3675158--3675230 Score: 66
Period size: 7 Copynumber: 9.6 Consensus size: 8
3675148 ACTAATGAAT
*
3675158 GAAAAAGG
1 GAAAAAGA
3675166 GAAAAAGA
1 GAAAAAGA
*
3675174 GAAAGAGA
1 GAAAAAGA
3675182 -AAAAAGA
1 GAAAAAGA
3675189 GAAGAAA-A
1 GAA-AAAGA
*
3675197 TAAAAAG-
1 GAAAAAGA
*
3675204 GACAAA-A
1 GAAAAAGA
3675211 GAAAAAGA
1 GAAAAAGA
3675219 -AAAAAGA
1 GAAAAAGA
3675226 GAAAA
1 GAAAA
3675231 TGAAAGAATG
Statistics
Matches: 52, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
7 25 0.48
8 24 0.46
9 3 0.06
ACGTcount: A:0.74, C:0.01, G:0.23, T:0.01
Consensus pattern (8 bp):
GAAAAAGA
Found at i:3675230 original size:14 final size:14
Alignment explanation
Indices: 3675167--3675235 Score: 58
Period size: 12 Copynumber: 5.1 Consensus size: 14
3675157 TGAAAAAGGG
3675167 AAAAAGAGAAAGAGA
1 AAAAAGAGAAA-AGA
3675182 AAAAAGAG--AAGA
1 AAAAAGAGAAAAGA
* *
3675194 AAATA-A-AAAGGA
1 AAAAAGAGAAAAGA
*
3675206 CAAAAGA-AAAAGA
1 AAAAAGAGAAAAGA
3675219 AAAAAGAGAAAATGA
1 AAAAAGAGAAAA-GA
3675234 AA
1 AA
3675236 GAATGAAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
11 1 0.02
12 13 0.30
13 13 0.30
14 4 0.09
15 12 0.28
ACGTcount: A:0.75, C:0.01, G:0.20, T:0.03
Consensus pattern (14 bp):
AAAAAGAGAAAAGA
Found at i:3675256 original size:16 final size:18
Alignment explanation
Indices: 3675227--3675263 Score: 60
Period size: 16 Copynumber: 2.2 Consensus size: 18
3675217 GAAAAAAGAG
3675227 AAAATGAAAGAATGAAAA
1 AAAATGAAAGAATGAAAA
3675245 AAAATG-AA-AATGAAAA
1 AAAATGAAAGAATGAAAA
3675261 AAA
1 AAA
3675264 TAAAAGACTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 11 0.58
17 2 0.11
18 6 0.32
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.11
Consensus pattern (18 bp):
AAAATGAAAGAATGAAAA
Found at i:3675268 original size:24 final size:22
Alignment explanation
Indices: 3675212--3675268 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 22
3675202 AGGACAAAAG
* *
3675212 AAAAAGAAAAAAGAGAAAATGA
1 AAAAATAAAAAAAAGAAAATGA
*
3675234 AAGAATGAAAAAAAATGAAAATGAA
1 AAAAAT-AAAAAAAA-GAAAATG-A
3675259 AAAAATAAAA
1 AAAAATAAAA
3675269 GACTCAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
22 4 0.14
23 7 0.25
24 11 0.39
25 6 0.21
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.09
Consensus pattern (22 bp):
AAAAATAAAAAAAAGAAAATGA
Found at i:3676476 original size:25 final size:24
Alignment explanation
Indices: 3676448--3676793 Score: 312
Period size: 25 Copynumber: 14.8 Consensus size: 24
3676438 GAATCTTAAT
3676448 TTTTTAAATGAGAATCTTTAAGACG
1 TTTTTAAATGAGAATCTTTAAGA-G
3676473 TTTTTAAATGAGAATCTTTAAGA-
1 TTTTTAAATGAGAATCTTTAAGAG
* * *
3676496 TATCCTCAAATGAGAATATTT--GA-
1 T-T-TTTAAATGAGAATCTTTAAGAG
* *
3676519 ATTTCAAATGAGAATCTTT--GAG
1 TTTTTAAATGAGAATCTTTAAGAG
3676541 -TTTTAAATGAGAATCTTTAAGACG
1 TTTTTAAATGAGAATCTTTAAGA-G
*
3676565 TTTTCAAATGAGAATCTTT--GAG
1 TTTTTAAATGAGAATCTTTAAGAG
* *
3676587 TCTTCAAATGAGAATCTTTAAGATG
1 TTTTTAAATGAGAATCTTTAAGA-G
** *
3676612 TCCTCAAATGAGAATCTTTAAGATG
1 TTTTTAAATGAGAATCTTTAAGA-G
*
3676637 TTTTTAAATAAGAATCTTT--GAG
1 TTTTTAAATGAGAATCTTTAAGAG
* * *
3676659 TCTTCAAATGAGAAT-TTT-TGAG
1 TTTTTAAATGAGAATCTTTAAGAG
*
3676681 -TTTTAAATGAGAATCTTTGAGACG
1 TTTTTAAATGAGAATCTTTAAGA-G
*
3676705 TTTTTAAATGAGAATCTTTAAGAC
1 TTTTTAAATGAGAATCTTTAAGAG
*
3676729 ATTTTAAATGAGAATCTTT--GAG
1 TTTTTAAATGAGAATCTTTAAGAG
* *
3676751 -TTTTAAATGAAAATCTTTAAGACA
1 TTTTTAAATGAGAATCTTTAAGA-G
*
3676775 TTTTCAAATGAGAATCTTT
1 TTTTTAAATGAGAATCTTT
3676794 GAGTCTTAAA
Statistics
Matches: 274, Mismatches: 28, Indels: 38
0.81 0.08 0.11
Matches are distributed among these distances:
21 66 0.24
22 41 0.15
23 13 0.05
24 23 0.08
25 131 0.48
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.39
Consensus pattern (24 bp):
TTTTTAAATGAGAATCTTTAAGAG
Found at i:3676787 original size:46 final size:47
Alignment explanation
Indices: 3676448--3676840 Score: 311
Period size: 46 Copynumber: 8.4 Consensus size: 47
3676438 GAATCTTAAT
*
3676448 TTTTTAAATGAGAATCTTTAAGACGTTTTTAAATGAGAATCTTTAAGA-
1 TTTTCAAATGAGAATCTTT-AGACG-TTTTAAATGAGAATCTTTAAGAG
* * * *
3676496 TATCCTCAAATGAGAATATTT-GA-ATTTCAAATGAGAATCTTT--GAG
1 T-T-TTCAAATGAGAATCTTTAGACGTTTTAAATGAGAATCTTTAAGAG
3676541 TTTT-AAATGAGAATCTTTAAGACGTTTTCAAATGAGAATCTTT--GAG
1 TTTTCAAATGAGAATCTTT-AGACGTTTT-AAATGAGAATCTTTAAGAG
* * * *
3676587 TCTTCAAATGAGAATCTTTAAGATGTCCTCAAATGAGAATCTTTAAGATG
1 TTTTCAAATGAGAATCTTT-AGACGT-TTTAAATGAGAATCTTTAAGA-G
* * * *
3676637 TTTTTAAATAAGAATCTTT-GA-GTCTTCAAATGAGAAT-TTT-TGAG
1 TTTTCAAATGAGAATCTTTAGACGT-TTTAAATGAGAATCTTTAAGAG
*
3676681 TTTT-AAATGAGAATCTTTGAGACGTTTTTAAATGAGAATCTTTAAGACA
1 TTTTCAAATGAGAATCTTT-AGACG-TTTTAAATGAGAATCTTTAAGA-G
* *
3676730 TTTT-AAATGAGAATCTTT-GA-GTTTTAAATGAAAATCTTTAAGACA
1 TTTTCAAATGAGAATCTTTAGACGTTTTAAATGAGAATCTTTAAGA-G
* * *
3676775 TTTTCAAATGAGAATCTTT-GA-GTCTTAAAT-AAAATTTTTTAAGACG
1 TTTTCAAATGAGAATCTTTAGACGTTTTAAATGAGAA-TCTTTAAGA-G
** *
3676821 TAGTCAAATGAAAATCTTTA
1 TTTTCAAATGAGAATCTTTA
3676841 AGGTGTGAAA
Statistics
Matches: 294, Mismatches: 29, Indels: 45
0.80 0.08 0.12
Matches are distributed among these distances:
42 13 0.04
43 14 0.05
44 10 0.03
45 39 0.13
46 103 0.35
47 55 0.19
48 8 0.03
49 21 0.07
50 31 0.11
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (47 bp):
TTTTCAAATGAGAATCTTTAGACGTTTTAAATGAGAATCTTTAAGAG
Found at i:3676911 original size:21 final size:21
Alignment explanation
Indices: 3676862--3676939 Score: 106
Period size: 21 Copynumber: 3.8 Consensus size: 21
3676852 CTAAAATTTG
3676862 TCAAAT-ATGAATCTTTGAA-T
1 TCAAATGA-GAATCTTTGAATT
3676882 TCAAATGAGAATCTTTGAATT
1 TCAAATGAGAATCTTTGAATT
* * *
3676903 TCAAGTGAGAATCTTTGAGTG
1 TCAAATGAGAATCTTTGAATT
3676924 TCAAATGAGAATCTTT
1 TCAAATGAGAATCTTT
3676940 AAGATGTGAA
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
20 17 0.33
21 35 0.67
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.37
Consensus pattern (21 bp):
TCAAATGAGAATCTTTGAATT
Found at i:3677074 original size:22 final size:22
Alignment explanation
Indices: 3677049--3677131 Score: 55
Period size: 22 Copynumber: 3.8 Consensus size: 22
3677039 TGAACTCAAC
3677049 TTTTGGATGTGAATCTCTAAAT
1 TTTTGGATGTGAATCTCTAAAT
* * * *
3677071 TTTT-GAGTGAGAACCTTTGAA-
1 TTTTGGA-TGTGAATCTCTAAAT
* * *
3677092 -CTTAGATGTGAAACTCTAAGAT
1 TTTTGGATGTGAATCTCTAA-AT
3677114 TTCTTGGATGTGAATCTC
1 TT-TTGGATGTGAATCTC
3677132 CAAAACTCAA
Statistics
Matches: 43, Mismatches: 12, Indels: 10
0.66 0.18 0.15
Matches are distributed among these distances:
20 11 0.26
21 5 0.12
22 14 0.33
24 13 0.30
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (22 bp):
TTTTGGATGTGAATCTCTAAAT
Found at i:3677159 original size:114 final size:114
Alignment explanation
Indices: 3677003--3677242 Score: 408
Period size: 114 Copynumber: 2.1 Consensus size: 114
3676993 TTTTAAACTT
* * * *
3677003 TTGAATGTGAACCTCCTAAATTCAAACGAAAAGCTTTGAACTCAACTTTTGGATGTGAATCTCTA
1 TTGAATGTGAACCTCCAAAACTCAAACGAAAAGCTTTAAACTCAACTTTTGGATGCGAATCTCTA
3677068 AATTTTTGAGTGAGAACCTTTGAACTTAGATGTGAAACTCTAAGATTTC
66 AATTTTTGAGTGAGAACCTTTGAACTTAGATGTGAAACTCTAAGATTTC
* *
3677117 TTGGATGTGAATCTCCAAAACTCAAACGAAAAGCTTTAAACTCAACTTTTGGATGCGAATCTCTA
1 TTGAATGTGAACCTCCAAAACTCAAACGAAAAGCTTTAAACTCAACTTTTGGATGCGAATCTCTA
* *
3677182 AATTTTTTAGTGAGAACCTTTGAACTTAGATGTGAAACTTTAAGATTTC
66 AATTTTTGAGTGAGAACCTTTGAACTTAGATGTGAAACTCTAAGATTTC
3677231 TTGAATGTGAAC
1 TTGAATGTGAAC
3677243 ATTTGAACTC
Statistics
Matches: 116, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
114 116 1.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (114 bp):
TTGAATGTGAACCTCCAAAACTCAAACGAAAAGCTTTAAACTCAACTTTTGGATGCGAATCTCTA
AATTTTTGAGTGAGAACCTTTGAACTTAGATGTGAAACTCTAAGATTTC
Found at i:3677377 original size:16 final size:16
Alignment explanation
Indices: 3677358--3677400 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
3677348 TATTGCAAAT
*
3677358 CTGAATTCTTGCATGC
1 CTGAATTCTTGCAAGC
* *
3677374 CTGAAATCTTGCAAGT
1 CTGAATTCTTGCAAGC
*
3677390 TTGAATTCTTG
1 CTGAATTCTTG
3677401 TGAAACAAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.40
Consensus pattern (16 bp):
CTGAATTCTTGCAAGC
Found at i:3677705 original size:44 final size:43
Alignment explanation
Indices: 3677612--3678053 Score: 312
Period size: 44 Copynumber: 9.9 Consensus size: 43
3677602 AGAGAAGCTT
* * ** *
3677612 TTTTTTTTAAGTCGTTGAGCTTCTTTTTAGAGGAGCTTTGTTTATA
1 TTTTTTTAAAGTCGTTGAGCCTCTGATTAGAGGAG-TTTG--TCTA
*
3677658 TTTTTTTAAAGTTGTTGAGCCTCTGATTAGAGGAGTTATGTCTA
1 TTTTTTTAAAGTCGTTGAGCCTCTGATTAGAGGAGTT-TGTCTA
** * *
3677702 TTTTTCAAAAGTCATTGAGCCTCTGATTAGAGGAGCTGTGTCTA
1 TTTTTTTAAAGTCGTTGAGCCTCTGATTAGAGGAG-TTTGTCTA
** * * * ** * *
3677746 TTTTTCAAAAGTTGTTAAGCTTCTTTTTAGAGGAGCTTTAT-TT
1 TTTTTTTAAAGTCGTTGAGCCTCTGATTAGAGGAG-TTTGTCTA
* * * * *
3677789 TTTTTTTCAAAGTCGTTAAGCCTCTGATTATAAGAACTTTGTTTA
1 TTTTTTT-AAAGTCGTTGAGCCTCTGATTA-GAGGAGTTTGTCTA
* * *
3677834 TTTTTTTTTCAAAGTTGTTGAGCCTCTGATTAGAGGAGTTGTGTTTT
1 --TTTTTTT-AAAGTCGTTGAGCCTCTGATTAGAGGAGTT-TGTCTA
* *
3677881 TTTTTTTAAAGTCATTGAGCCTCTGATTAGAGGAGCTGTGTCTA
1 TTTTTTTAAAGTCGTTGAGCCTCTGATTAGAGGAG-TTTGTCTA
* * * *
3677925 -TTTTTCAAAGTAGTTGAGCCTCTGATTAGATGAGCTTTGTTTA
1 TTTTTTTAAAGTCGTTGAGCCTCTGATTAGAGGAG-TTTGTCTA
* * * ** * *
3677968 TTTTTTTCAAAGTTGTTGAACATCTGATTAGATAAGCTTTATTTA
1 TTTTTTT-AAAGTCGTTGAGCCTCTGATTAGAGGAG-TTTGTCTA
* * **
3678013 TCTTTTTCAAAGTCGTTGAGCCTTTTTTTAGAGGAGCTTTG
1 T-TTTTTTAAAGTCGTTGAGCCTCTGATTAGAGGAG-TTTG
3678054 GTTAATTTAA
Statistics
Matches: 320, Mismatches: 64, Indels: 25
0.78 0.16 0.06
Matches are distributed among these distances:
43 43 0.13
44 130 0.41
45 72 0.22
46 42 0.13
47 33 0.10
ACGTcount: A:0.22, C:0.11, G:0.20, T:0.47
Consensus pattern (43 bp):
TTTTTTTAAAGTCGTTGAGCCTCTGATTAGAGGAGTTTGTCTA
Found at i:3677777 original size:88 final size:87
Alignment explanation
Indices: 3677610--3677999 Score: 358
Period size: 88 Copynumber: 4.4 Consensus size: 87
3677600 TTAGAGAAGC
* * * ** * * **
3677610 TTTTTTTTT-TAAGTCGTTGAGCTTCTTTTTAGAGGAGCTTTGTTTATATTTTTTTAAAGTTGTT
1 TTTTTTTTTCAAAGTCATTGAGCCTCTGATTAGAGGAGC--TGTGTCTATTTTTCAAAAGTTGTT
3677674 GAGCCTCTGATTAGAGGAGTTATG
64 GAGCCTCTGATTAGAGGAGTTATG
* * *
3677698 TCTATTTTTCAAAAGTCATTGAGCCTCTGATTAGAGGAGCTGTGTCTATTTTTCAAAAGTTGTTA
1 TTTTTTTTTC-AAAGTCATTGAGCCTCTGATTAGAGGAGCTGTGTCTATTTTTCAAAAGTTGTTG
* **
3677763 AGCTTCTTTTTAGAGGAGCTTTAT-
65 AGCCTCTGATTAGAGGAG--TTATG
* * * * * * *
3677787 TTTTTTTTTCAAAGTCGTTAAGCCTCTGATTATAAGAACTTTGTTTATTTTTTTTTC-AAAGTTG
1 TTTTTTTTTCAAAGTCATTGAGCCTCTGATTAGAGGAGCTGTGTCTA----TTTTTCAAAAGTTG
*
3677851 TTGAGCCTCTGATTAGAGGAGTTGTG
62 TTGAGCCTCTGATTAGAGGAGTTATG
* *
3677877 TTTTTTTTTTTAAAGTCATTGAGCCTCTGATTAGAGGAGCTGTGTCTATTTTTC-AAAGTAGTTG
1 -TTTTTTTTTCAAAGTCATTGAGCCTCTGATTAGAGGAGCTGTGTCTATTTTTCAAAAGTTGTTG
*
3677941 AGCCTCTGATTAGATGAGCTT-TG
65 AGCCTCTGATTAGAGGAG-TTATG
** * *
3677964 TTTATTTTTTTCAAAGTTGTTGAACATCTGATTAGA
1 -TT-TTTTTTTCAAAGTCATTGAGCCTCTGATTAGA
3678000 TAAGCTTTAT
Statistics
Matches: 246, Mismatches: 44, Indels: 24
0.78 0.14 0.08
Matches are distributed among these distances:
87 37 0.15
88 101 0.41
89 11 0.04
90 28 0.11
91 63 0.26
92 6 0.02
ACGTcount: A:0.23, C:0.11, G:0.20, T:0.47
Consensus pattern (87 bp):
TTTTTTTTTCAAAGTCATTGAGCCTCTGATTAGAGGAGCTGTGTCTATTTTTCAAAAGTTGTTGA
GCCTCTGATTAGAGGAGTTATG
Found at i:3677907 original size:179 final size:177
Alignment explanation
Indices: 3677645--3678035 Score: 531
Period size: 179 Copynumber: 2.2 Consensus size: 177
3677635 TTTTTAGAGG
3677645 AGCTTTGTTTATATTTTTTT-AAAGTTGTTGAGCCTCTGATTAGAGGAGTTATGTCTATTTTTCA
1 AGCTTTGTTTAT-TTTTTTTCAAAGTTGTTGAGCCTCTGATTAGAGGAGTTATGTCTATTTTTCA
* * **
3677709 AAAGTCATTGAGCCTCTGATTAGAGGAGCTGTGTCTATTTTTCAAAAGTTGTTAAGCTTCTTTTT
65 AAAGTCATTGAGCCTCTGATTAGAGGAGCTGTGTCTATTTTTC-AAAGTAGTTAAGCCTCTGATT
*
3677774 AGAGGAGCTTTATTT-TTTTTTTCAAAGTCGTT-AAGCCTCTGATT-ATA
129 AGAGGAGCTTTATTTATTTTTTTCAAAGTCGTTGAA-CATCTGATTAATA
* * *
3677821 AGAACTTTGTTTATTTTTTTTTCAAAGTTGTTGAGCCTCTGATTAGAGGAGTTGTGTTTTTTTTT
1 AG--CTTTGTTTA-TTTTTTTTCAAAGTTGTTGAGCCTCTGATTAGAGGAGTTATGTCTATTTTT
** *
3677886 TTAAAGTCATTGAGCCTCTGATTAGAGGAGCTGTGTCTATTTTTCAAAGTAGTTGAGCCTCTGAT
63 CAAAAGTCATTGAGCCTCTGATTAGAGGAGCTGTGTCTATTTTTCAAAGTAGTTAAGCCTCTGAT
* * *
3677951 TAGATGAGCTTTGTTTATTTTTTTCAAAGTTGTTGAACATCTGATTAGATA
128 TAGAGGAGCTTTATTTATTTTTTTCAAAGTCGTTGAACATCTGATTA-ATA
* * *
3678002 AGCTTTATTTA-TCTTTTTCAAAGTCGTTGAGCCT
1 AGCTTTGTTTATTTTTTTTCAAAGTTGTTGAGCCT
3678036 TTTTTTAGAG
Statistics
Matches: 190, Mismatches: 17, Indels: 15
0.86 0.08 0.07
Matches are distributed among these distances:
176 2 0.01
177 21 0.11
178 45 0.24
179 115 0.61
180 2 0.01
181 5 0.03
ACGTcount: A:0.23, C:0.12, G:0.19, T:0.46
Consensus pattern (177 bp):
AGCTTTGTTTATTTTTTTTCAAAGTTGTTGAGCCTCTGATTAGAGGAGTTATGTCTATTTTTCAA
AAGTCATTGAGCCTCTGATTAGAGGAGCTGTGTCTATTTTTCAAAGTAGTTAAGCCTCTGATTAG
AGGAGCTTTATTTATTTTTTTCAAAGTCGTTGAACATCTGATTAATA
Found at i:3678019 original size:134 final size:132
Alignment explanation
Indices: 3677791--3678050 Score: 326
Period size: 134 Copynumber: 1.9 Consensus size: 132
3677781 CTTTATTTTT
* * *
3677791 TTTTTCAAAGTCGTTAAGCCTCTGATTATAAGAACTTTGTTTATTTTTTTTTCAAAGTTGTTGAG
1 TTTTTCAAAGTAGTTAAGCCTCTGATTAGAAGAACTTTGTTTA-TTTTTTTTCAAAGTTGTTGAA
* * * *
3677856 CCTCTGATTAGAGGAGTTGTGTTTTTTTTTTTAAAGTCATTGAGCCTCTGATTAGAGGAGCTGTG
65 CATCTGATTAGAGAAGTTGT-ATTTTTTTTTCAAAGTCATTGAGCCTCTGATTAGAGGAGCTGTG
3677921 TCTA
129 TCTA
* * *
3677925 TTTTTCAAAGTAGTTGAGCCTCTGATTAGATGAGCTTTGTTTA-TTTTTTTCAAAGTTGTTGAAC
1 TTTTTCAAAGTAGTTAAGCCTCTGATTAGAAGAACTTTGTTTATTTTTTTTCAAAGTTGTTGAAC
* * * **
3677989 ATCTGATTAGATAAGCTT-TATTTATCTTTTTCAAAGTCGTTGAGCCTTTTTTTAGAGGAGCT
66 ATCTGATTAGAGAAG-TTGTATTT-T-TTTTTCAAAGTCATTGAGCCTCTGATTAGAGGAGCT
3678051 TTGGTTAATT
Statistics
Matches: 108, Mismatches: 15, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
131 3 0.03
132 34 0.31
133 33 0.31
134 38 0.35
ACGTcount: A:0.23, C:0.12, G:0.19, T:0.46
Consensus pattern (132 bp):
TTTTTCAAAGTAGTTAAGCCTCTGATTAGAAGAACTTTGTTTATTTTTTTTCAAAGTTGTTGAAC
ATCTGATTAGAGAAGTTGTATTTTTTTTTCAAAGTCATTGAGCCTCTGATTAGAGGAGCTGTGTC
TA
Found at i:3678749 original size:20 final size:20
Alignment explanation
Indices: 3678716--3678754 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3678706 AACCAAGTCC
* *
3678716 TGCCAGCCATGAATTCCAGT
1 TGCCAACCACGAATTCCAGT
3678736 TGCCAACCACGAATTCCAG
1 TGCCAACCACGAATTCCAG
3678755 CCTTAGATAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.33, G:0.18, T:0.21
Consensus pattern (20 bp):
TGCCAACCACGAATTCCAGT
Found at i:3680589 original size:60 final size:57
Alignment explanation
Indices: 3680532--3681027 Score: 268
Period size: 60 Copynumber: 8.1 Consensus size: 57
3680522 TTTTCAATGA
*
3680532 TCTCTTTAAAATGAAAATTTTTAAAAAATATTTTTAAAGGAAAGTTGAATGTATCAATT
1 TCTCTTTAAAAT-AAAATTTTTAAAAAATATTTTT-AAGGAAAGTTGAAAGTATCAATT
* * *
3680591 TCT-TTTGAACATAAAATTTTAAAAATATATATTTTTGAGAGAAAGTTGAAAGTATCAATT
1 TCTCTTT-AAAATAAAATTTTTAAAA-A-ATATTTTTAAG-GAAAGTTGAAAGTATCAATT
* * * *
3680651 T-TCCTTGAAAATAAAAATTTTCAAAAAATATTTTTAAGGAAAAGTTAAAAATAT-AATT
1 TCT-CTTTAAAAT-AAAATTTTTAAAAAATATTTTTAAGG-AAAGTTGAAAGTATCAATT
* * * * * * ** *
3680709 TTTCTTAAAAAAAAAAAAAGATTTCAAGAAGGAGGTTTTAAGGAAAAGTTGAAAGTATCAATT
1 TCTCTT---TAAAATAAAA-TTTTTAAAAAATA-TTTTTAAGG-AAAGTTGAAAGTATCAATT
* * *
3680772 TTTC-TTAAAA-AAAATTTTCTAAAATAAAAATTTCCAAAAGTATTTTGAGGGAAAGTTGAAAAT
1 TCTCTTTAAAATAAAATTTT-T---A-AAAAA--T-----A-T-TTTT-AAGGAAAGTTGAAAGT
3680835 ATCAATT
51 ATCAATT
* * * *
3680842 TCCCTTGAAAATAAAAAGGTTTTAAAAAATATTTTT-AGGAAAAAGTTGAAAGTATTAATT
1 TCTCTTTAAAAT-AAAA-TTTTTAAAAAATATTTTTAAGG--AAAGTTGAAAGTATCAATT
* * * * * *
3680902 T-TCCTTGAAATTAAATTTTCATAAAAAAATATTTTGAAGAAAAGTTGAAAGTATCAAAT
1 TCTCTTTAAAATAAAATTTT--T-AAAAAATATTTTTAAGGAAAGTTGAAAGTATCAATT
* * *
3680961 TCTCCTTGAAATTAAAATTTTATAAAAAAAATATTTTAAGGAAAAGTTGAAAGTATCAATT
1 TCT-CTTTAAAATAAAATTTT-TAAAAAATAT-TTTTAAGG-AAAGTTGAAAGTATCAATT
*
3681022 TTTCTT
1 TCTCTT
3681028 GTACAAAAGT
Statistics
Matches: 339, Mismatches: 55, Indels: 85
0.71 0.11 0.18
Matches are distributed among these distances:
57 6 0.02
58 33 0.10
59 71 0.21
60 83 0.24
61 63 0.19
62 26 0.08
63 8 0.02
67 1 0.00
69 7 0.02
70 25 0.07
71 8 0.02
73 5 0.01
74 3 0.01
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.36
Consensus pattern (57 bp):
TCTCTTTAAAATAAAATTTTTAAAAAATATTTTTAAGGAAAGTTGAAAGTATCAATT
Found at i:3680791 original size:15 final size:16
Alignment explanation
Indices: 3680771--3680804 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
3680761 AAGTATCAAT
*
3680771 TTTTCTTAAA-AAAAA
1 TTTTCTAAAATAAAAA
3680786 TTTTCTAAAATAAAAA
1 TTTTCTAAAATAAAAA
3680802 TTT
1 TTT
3680805 CCAAAAGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (16 bp):
TTTTCTAAAATAAAAA
Found at i:3681008 original size:120 final size:119
Alignment explanation
Indices: 3680807--3681028 Score: 297
Period size: 119 Copynumber: 1.9 Consensus size: 119
3680797 AAAAATTTCC
* * * *
3680807 AAAAGTATTTTGAGGGAAAGTTGAAAATATCAATTTCCCTTGAAAATAAAAAGGTTTTAAAAAAT
1 AAAAATATTTTGAAGAAAAGTTGAAAATATCAAATTCCCTTGAAAATAAAAAGGTTTTAAAAAAT
* *
3680872 ATTTTTAGGAAAAAGTTGAAAGTATTAATTTTCCTTGAAATTAAATTTTCATAA
66 ATTTTAAGGAAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAATTTTCATAA
* * *
3680926 AAAAATATTTTGAAGAAAAGTTGAAAGTATCAAATTCTCCTTG-AAATTAAAA-TTTTATAAAAA
1 AAAAATATTTTGAAGAAAAGTTGAAAATATCAAATTC-CCTTGAAAATAAAAAGGTTT-T--AAA
*
3680989 AAATATTTTAAGG-AAAAGTTGAAAGTATCAATTTTTCTTG
62 AAATATTTTAAGGAAAAAGTTGAAAGTATCAATTTTCCTTG
3681029 TACAAAAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 3 0.03
119 41 0.46
120 30 0.34
121 15 0.17
ACGTcount: A:0.45, C:0.06, G:0.13, T:0.36
Consensus pattern (119 bp):
AAAAATATTTTGAAGAAAAGTTGAAAATATCAAATTCCCTTGAAAATAAAAAGGTTTTAAAAAAT
ATTTTAAGGAAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAATTTTCATAA
Found at i:3682136 original size:22 final size:21
Alignment explanation
Indices: 3682101--3682146 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
3682091 TTGGTGTAGG
*
3682101 ATTTTTTTATTTAT-AATATTA
1 ATTTTTTTAATTATCAAT-TTA
3682122 ATTTTTTTACATTATCAATTTA
1 ATTTTTTTA-ATTATCAATTTA
3682144 ATT
1 ATT
3682147 ATTTATGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 9 0.41
22 10 0.45
23 3 0.14
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (21 bp):
ATTTTTTTAATTATCAATTTA
Found at i:3683464 original size:19 final size:19
Alignment explanation
Indices: 3683391--3683465 Score: 73
Period size: 19 Copynumber: 3.9 Consensus size: 19
3683381 ACATGGTAAT
3683391 GTCAAAACTTATGGTAAGAA
1 GTCAAAACTTATGGTAA-AA
* *
3683411 -TCAAGACTTATGG-AAAT
1 GTCAAAACTTATGGTAAAA
* *
3683428 TTTAAAACTTTAATGGTAAAA
1 GTCAAAAC-TT-ATGGTAAAA
3683449 GTCAAAACTTATGGTAA
1 GTCAAAACTTATGGTAA
3683466 TGTTATAAGG
Statistics
Matches: 44, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
17 1 0.02
18 7 0.16
19 21 0.48
20 6 0.14
21 9 0.20
ACGTcount: A:0.44, C:0.09, G:0.16, T:0.31
Consensus pattern (19 bp):
GTCAAAACTTATGGTAAAA
Found at i:3683953 original size:34 final size:34
Alignment explanation
Indices: 3683914--3684000 Score: 97
Period size: 34 Copynumber: 2.6 Consensus size: 34
3683904 TCTGAAAAAT
*
3683914 TTTAAAATTTTTTGAAAATTTA-TTTTTAAAAGC
1 TTTAAAAATTTTTGAAAATTTATTTTTTAAAAGC
* * * *
3683947 TCTTAAAAACTCTT-AGACATTTATTTTTTAAAATC
1 T-TTAAAAATTTTTGA-AAATTTATTTTTTAAAAGC
3683982 TTTAAAAATTTTTGAAAAT
1 TTTAAAAATTTTTGAAAAT
3684001 AAGTTTTCAA
Statistics
Matches: 42, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
33 2 0.05
34 28 0.67
35 12 0.29
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.48
Consensus pattern (34 bp):
TTTAAAAATTTTTGAAAATTTATTTTTTAAAAGC
Found at i:3686987 original size:35 final size:35
Alignment explanation
Indices: 3686948--3687018 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
3686938 TAATATGGCA
3686948 CTTAACCAAGAAATTTGGAAATGTGCAATTGATTG
1 CTTAACCAAGAAATTTGGAAATGTGCAATTGATTG
* *
3686983 CTTAACCAAGAAATTTGTAAATGTGCAGTTGATTG
1 CTTAACCAAGAAATTTGGAAATGTGCAATTGATTG
3687018 C
1 C
3687019 CAGTGTATGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.32
Consensus pattern (35 bp):
CTTAACCAAGAAATTTGGAAATGTGCAATTGATTG
Found at i:3692375 original size:20 final size:18
Alignment explanation
Indices: 3692315--3692402 Score: 88
Period size: 19 Copynumber: 4.7 Consensus size: 18
3692305 GAAAGACGTT
*
3692315 GTAATATCAAAACTTATG
1 GTAATGTCAAAACTTATG
3692333 GTAA-GAATCAAAACTTATG
1 GTAATG--TCAAAACTTATG
*
3692352 GTAATGTCAAAACTTTTATA
1 GTAATGTCAAAAC--TTATG
* *
3692372 GTAAGAGTCAAAACATATG
1 GTAA-TGTCAAAACTTATG
3692391 GTAATGTCAAAA
1 GTAATGTCAAAA
3692403 GGATTCTATT
Statistics
Matches: 58, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
18 18 0.31
19 23 0.40
20 9 0.16
21 8 0.14
ACGTcount: A:0.45, C:0.10, G:0.15, T:0.30
Consensus pattern (18 bp):
GTAATGTCAAAACTTATG
Found at i:3692391 original size:39 final size:37
Alignment explanation
Indices: 3692315--3692402 Score: 122
Period size: 39 Copynumber: 2.3 Consensus size: 37
3692305 GAAAGACGTT
* * *
3692315 GTAATATCAAAACTTATGGTAAGAATCAAAACTTATG
1 GTAATGTCAAAACTTATAGTAAGAATCAAAACATATG
*
3692352 GTAATGTCAAAACTTTTATAGTAAGAGTCAAAACATATG
1 GTAATGTCAAAAC--TTATAGTAAGAATCAAAACATATG
3692391 GTAATGTCAAAA
1 GTAATGTCAAAA
3692403 GGATTCTATT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
37 12 0.27
39 33 0.73
ACGTcount: A:0.45, C:0.10, G:0.15, T:0.30
Consensus pattern (37 bp):
GTAATGTCAAAACTTATAGTAAGAATCAAAACATATG
Found at i:3692777 original size:24 final size:24
Alignment explanation
Indices: 3692750--3692902 Score: 73
Period size: 24 Copynumber: 6.3 Consensus size: 24
3692740 TCCGAAACTC
*
3692750 TTTAAAAATTTTTAAAAATCCATT
1 TTTAAAAATTTTTAAAAATTCATT
* ** * **
3692774 TTTAGAAGCTTTTAAAGACTTTCAGA
1 TTTAAAAATTTTTAAA-A-ATTCATT
* * *
3692800 TTCAAAAATTTTTTAATATTCATT
1 TTTAAAAATTTTTAAAAATTCATT
*
3692824 TTTAAAAATTCTTTCAAAAA-AC-TT
1 TTTAAAAATT-TTT-AAAAATTCATT
*
3692848 TTCCAAAAAATTTTTAAAAA-TC--T
1 TT--TAAAAATTTTTAAAAATTCATT
* * *
3692871 TTTAAAAATTTTTGAAATTTTATT
1 TTTAAAAATTTTTAAAAATTCATT
*
3692895 TTAAAAAA
1 TTTAAAAA
3692903 GGTTAAATCG
Statistics
Matches: 93, Mismatches: 27, Indels: 18
0.67 0.20 0.13
Matches are distributed among these distances:
21 13 0.14
22 1 0.01
23 3 0.03
24 44 0.47
25 8 0.09
26 24 0.26
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.45
Consensus pattern (24 bp):
TTTAAAAATTTTTAAAAATTCATT
Found at i:3692843 original size:13 final size:12
Alignment explanation
Indices: 3692827--3692883 Score: 50
Period size: 13 Copynumber: 4.8 Consensus size: 12
3692817 ATTCATTTTT
3692827 AAAAATTCTTTCA
1 AAAAATT-TTTCA
*
3692840 AAAAACTTTTCCA
1 AAAAA-TTTTTCA
3692853 AAAAATTTTT--
1 AAAAATTTTTCA
3692863 AAAAATCTTTT--
1 AAAAAT-TTTTCA
3692874 AAAAATTTTT
1 AAAAATTTTT
3692884 GAAATTTTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
10 10 0.25
11 10 0.25
12 4 0.10
13 14 0.35
14 2 0.05
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (12 bp):
AAAAATTTTTCA
Found at i:3692879 original size:11 final size:11
Alignment explanation
Indices: 3692823--3692883 Score: 54
Period size: 11 Copynumber: 5.4 Consensus size: 11
3692813 TAATATTCAT
3692823 TTTTAAAAATTC
1 TTTTAAAAA-TC
* *
3692835 TTTCAAAAAAC
1 TTTTAAAAATC
3692846 TTTTCCAAAAAAT-
1 TTTT---AAAAATC
3692859 TTTTAAAAATC
1 TTTTAAAAATC
3692870 TTTTAAAAAT-
1 TTTTAAAAATC
3692880 TTTT
1 TTTT
3692884 GAAATTTTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
10 10 0.24
11 14 0.34
12 8 0.20
13 4 0.10
14 5 0.12
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (11 bp):
TTTTAAAAATC
Found at i:3694169 original size:27 final size:28
Alignment explanation
Indices: 3694139--3694198 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 28
3694129 TTTTATCTTG
* *
3694139 TATATTTAA-ATA-ATTTTT-TTATAAA
1 TATATTTAATATATATTTTTAATAAAAA
3694164 TATATATTAATATATATTTTTAATAAAAA
1 TATAT-TTAATATATATTTTTAATAAAAA
3694193 TATATT
1 TATATT
3694199 AATTTTAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
25 5 0.17
26 4 0.14
27 3 0.10
28 7 0.24
29 10 0.34
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (28 bp):
TATATTTAATATATATTTTTAATAAAAA
Found at i:3696271 original size:2 final size:2
Alignment explanation
Indices: 3696264--3696288 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3696254 TGAATTGAAG
3696264 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
3696289 ACACTTTGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3700480 original size:19 final size:19
Alignment explanation
Indices: 3700456--3700492 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
3700446 GTTAAGTTGG
*
3700456 AATCATTTGTTGCCATACA
1 AATCATTAGTTGCCATACA
*
3700475 AATCATTAGTTGGCATAC
1 AATCATTAGTTGCCATAC
3700493 GAAGATTAAT
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:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (19 bp):
AATCATTAGTTGCCATACA
Found at i:3710111 original size:25 final size:25
Alignment explanation
Indices: 3710079--3710151 Score: 73
Period size: 25 Copynumber: 2.9 Consensus size: 25
3710069 AACTTTTTTA
*
3710079 TTTTTAT-AATGTATAT-TTAAATAAT
1 TTTTTATAAATATATATATT-AAT-AT
3710104 TTTTTATAAATATATATATTAATAT
1 TTTTTATAAATATATATATTAATAT
3710129 TTTTTCAATAAA-A-ATATATTAAT
1 TTTTT--ATAAATATATATATTAAT
3710152 TTTAATTAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
25 24 0.56
26 12 0.28
27 7 0.16
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (25 bp):
TTTTTATAAATATATATATTAATAT
Found at i:3710131 original size:24 final size:23
Alignment explanation
Indices: 3710077--3710132 Score: 60
Period size: 26 Copynumber: 2.3 Consensus size: 23
3710067 TAAACTTTTT
*
3710077 TATTTTTATAATGTATATTTAAA
1 TATTTTTATAATATATATTTAAA
3710100 TAATTTTTTATAAATATATATATT-AA
1 T-A-TTTTTAT-AATATATAT-TTAAA
3710126 TATTTTT
1 TATTTTT
3710133 TCAATAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 1 0.04
24 6 0.21
25 8 0.29
26 11 0.39
27 2 0.07
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (23 bp):
TATTTTTATAATATATATTTAAA
Found at i:3711126 original size:2 final size:2
Alignment explanation
Indices: 3711121--3711156 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
3711111 TGTGTGTGTG
3711121 TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3711157 TTGCTTCTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3729135 original size:2 final size:2
Alignment explanation
Indices: 3729128--3729154 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3729118 TAAAAGCCAG
3729128 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
3729155 ATGAGGGTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3729576 original size:31 final size:29
Alignment explanation
Indices: 3729538--3729608 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 29
3729528 TATATTTTAT
*
3729538 ATTTTTATAT-AGATATAAATTATAAAACATA
1 ATTTTTATATAAAATAT-AA-TAT-AAACATA
*
3729569 ATTTTTATATAAAATATAATATAAATATA
1 ATTTTTATATAAAATATAATATAAACATA
3729598 ATATTTTATAT
1 AT-TTTTATAT
3729609 GTCATTATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
29 8 0.22
30 11 0.31
31 12 0.33
32 5 0.14
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (29 bp):
ATTTTTATATAAAATATAATATAAACATA
Found at i:3729596 original size:18 final size:18
Alignment explanation
Indices: 3729544--3729598 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
3729534 TTATATTTTT
3729544 ATATAGATATAAATTATAAA
1 ATATA-ATATAAA-TATAAA
* * **
3729564 ACATAATTTTTATATAAA
1 ATATAATATAAATATAAA
3729582 ATATAATATAAATATAA
1 ATATAATATAAATATAA
3729599 TATTTTATAT
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
18 19 0.70
19 4 0.15
20 4 0.15
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (18 bp):
ATATAATATAAATATAAA
Found at i:3729605 original size:30 final size:31
Alignment explanation
Indices: 3729538--3729608 Score: 85
Period size: 30 Copynumber: 2.3 Consensus size: 31
3729528 TATATTTTAT
*
3729538 ATTTTTATATAGATATAAATTATAAAACATA
1 ATTTTTATATAAATATAAATTATAAAACATA
*
3729569 ATTTTTATATAAA-ATATAA-TAT-AAATATA
1 ATTTTTATATAAATATA-AATTATAAAACATA
3729598 ATATTTTATAT
1 AT-TTTTATAT
3729609 GTCATTATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
29 8 0.22
30 14 0.39
31 14 0.39
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (31 bp):
ATTTTTATATAAATATAAATTATAAAACATA
Found at i:3734698 original size:4 final size:4
Alignment explanation
Indices: 3734689--3734739 Score: 52
Period size: 4 Copynumber: 12.8 Consensus size: 4
3734679 TTTTATATCC
* *
3734689 ATTT ATTT A-TT ATTT ATTT A-TT ATTAT ATAT ATTTT GTTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATT-T ATTT A-TTT ATTT ATTT ATTT
3734737 ATT
1 ATT
3734740 GATTAAATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
3 6 0.15
4 28 0.72
5 5 0.13
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (4 bp):
ATTT
Found at i:3734705 original size:11 final size:11
Alignment explanation
Indices: 3734689--3734739 Score: 56
Period size: 11 Copynumber: 5.0 Consensus size: 11
3734679 TTTTATATCC
3734689 ATTTATTTATT
1 ATTTATTTATT
3734700 ATTTATTTATT
1 ATTTATTTATT
*
3734711 A-TTATATA-T
1 ATTTATTTATT
*
3734720 ATTT-TGT-TT
1 ATTTATTTATT
3734729 ATTTATTTATT
1 ATTTATTTATT
3734740 GATTAAATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
9 9 0.27
10 10 0.30
11 14 0.42
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (11 bp):
ATTTATTTATT
Found at i:3734715 original size:21 final size:20
Alignment explanation
Indices: 3734689--3734739 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
3734679 TTTTATATCC
*
3734689 ATTTATTTATTA-TTTATTT
1 ATTTATTTATTATTTTGTTT
3734708 A-TTATTATATATATTTTGTTT
1 ATTTATT-TAT-TATTTTGTTT
3734729 ATTTATTTATT
1 ATTTATTTATT
3734740 GATTAAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
18 5 0.19
19 4 0.15
20 3 0.11
21 10 0.37
22 5 0.19
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (20 bp):
ATTTATTTATTATTTTGTTT
Found at i:3734984 original size:57 final size:56
Alignment explanation
Indices: 3734923--3735203 Score: 316
Period size: 55 Copynumber: 4.9 Consensus size: 56
3734913 TGAAAAATTC
* * *
3734923 AAAAATATTTTAAGAAAAAGTTAAAAATATCAATTTTCTTTAAAGATCAAATTAAAA
1 AAAAATATTTTAAGGAAAAGTTAAAAGTATCAATTTTCTTTAAA-ATAAAATTAAAA
* *
3734980 AAAAATACTTTAAGGAAAAGTTAAAAGTATCAATTTTTCTTGAAAATAAAATTTCAAAA
1 AAAAATATTTTAAGGAAAAGTTAAAAGTATCAA-TTTTCTTTAAAATAAAA-TT-AAAA
* ***
3735039 AAAAAAACTTTTAAGGAAAAGTTGAAAAGTATCAATTTT-TCTTAAAATAAAATT-TTC
1 AAAAATA-TTTTAAGGAAAAGTT-AAAAGTATCAATTTTCT-TTAAAATAAAATTAAAA
** * *
3735096 AAAAATGCTTTAAAGAAAAGTTAAAAGTATCAATTTT-TTAAAAATAAAATTAAAA
1 AAAAATATTTTAAGGAAAAGTTAAAAGTATCAATTTTCTTTAAAATAAAATTAAAA
* * * *
3735151 AAAAACATTTTAAGGAAAATTTTAAAGTATCAATTTTCTTTAAAGATGAAATT
1 AAAAATATTTTAAGGAAAAGTTAAAAGTATCAATTTTCTTTAAA-ATAAAATT
3735204 TTCAAAAAAA
Statistics
Matches: 188, Mismatches: 27, Indels: 18
0.81 0.12 0.08
Matches are distributed among these distances:
54 12 0.06
55 47 0.25
56 18 0.10
57 47 0.25
58 12 0.06
59 13 0.07
60 28 0.15
61 11 0.06
ACGTcount: A:0.53, C:0.06, G:0.08, T:0.34
Consensus pattern (56 bp):
AAAAATATTTTAAGGAAAAGTTAAAAGTATCAATTTTCTTTAAAATAAAATTAAAA
Found at i:3735185 original size:171 final size:173
Alignment explanation
Indices: 3734897--3735280 Score: 460
Period size: 171 Copynumber: 2.2 Consensus size: 173
3734887 AGGAAATATT
* *
3734897 AATTTTCCTTGAAAAATGAAAAA-TTCAAAAAT-ATTTTAAGAAAAAGTTAAAAATATCAATTTT
1 AATTGTCCTT-AAAAAT-AAAAATTTCAAAAATGATTTAAAGAAAAAGTTAAAAATATCAATTTT
* * *
3734960 CTTTAAAGATCAAATTAAAAAAAAATACTTTAAGGAAAAGTTAAAAGTATCAATTTTTCTTGAAA
64 CTTTAAAAATAAAATTAAAAAAAAACACTTTAAGGAAAAGTTAAAAGTATCAA-TTTTCTTGAAA
** *
3735025 -AT-AAAATTTCAAAAAAAAAAACTTTTAAGGAAAAGTTGAAAAGTATC
128 GATGAAAATTTCAAAAAAAAAAA-TTCAAAAGAAAA-TT-AAAAGTATC
* * * * *
3735072 AATTTTTCTT-AAAATAAAATTTTCAAAAATGCTTTAAAG-AAAAGTTAAAAGTATCAA-TTT-T
1 AATTGTCCTTAAAAATAAAAATTTCAAAAATGATTTAAAGAAAAAGTTAAAAATATCAATTTTCT
* * * *
3735133 TTAAAAATAAAATTAAAAAAAAACATTTTAAGGAAAATTTTAAAGTATCAATTTTCTTTAAAGAT
66 TTAAAAATAAAATTAAAAAAAAACACTTTAAGGAAAAGTTAAAAGTATCAATTTTCTTGAAAGAT
* * *
3735198 GAAATTTTCAAAAAAAAAAATTCAAAAGAAGATTAAGAGTATC
131 GAAAATTTCAAAAAAAAAAATTCAAAAGAAAATTAAAAGTATC
*
3735241 AATTGTCCTTAAAAATAAAAATTTCAAAAGATGTTTTAAA
1 AATTGTCCTTAAAAATAAAAATTTCAAAA-ATGATTTAAA
3735281 AGTTGAGAGT
Statistics
Matches: 181, Mismatches: 22, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
169 16 0.09
170 29 0.16
171 65 0.36
172 25 0.14
173 31 0.17
174 6 0.03
175 9 0.05
ACGTcount: A:0.53, C:0.07, G:0.08, T:0.33
Consensus pattern (173 bp):
AATTGTCCTTAAAAATAAAAATTTCAAAAATGATTTAAAGAAAAAGTTAAAAATATCAATTTTCT
TTAAAAATAAAATTAAAAAAAAACACTTTAAGGAAAAGTTAAAAGTATCAATTTTCTTGAAAGAT
GAAAATTTCAAAAAAAAAAATTCAAAAGAAAATTAAAAGTATC
Found at i:3740130 original size:2 final size:2
Alignment explanation
Indices: 3740123--3740149 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3740113 CTAGACAAAT
3740123 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
3740150 TTAACTGCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3740766 original size:26 final size:27
Alignment explanation
Indices: 3740715--3740767 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 27
3740705 TGATTTATAC
3740715 GATCATCTTTTAAAAATAACATTCAAT
1 GATCATCTTTTAAAAATAACATTCAAT
3740742 GATCATC-TTTAAAAAGTAACA-TCAAT
1 GATCATCTTTTAAAAA-TAACATTCAAT
3740768 AAATTTGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 13 0.52
27 12 0.48
ACGTcount: A:0.45, C:0.15, G:0.06, T:0.34
Consensus pattern (27 bp):
GATCATCTTTTAAAAATAACATTCAAT
Found at i:3745133 original size:21 final size:21
Alignment explanation
Indices: 3745109--3745159 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
3745099 CATGAAATGA
3745109 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
*
3745130 ATAAAATAGTATTTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
3745151 AT-AAATATT
1 ATAAAATATT
3745160 TAAATATACA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 6 0.21
21 22 0.79
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
ATAAAATATTATTTTTTAAAT
Found at i:3745161 original size:14 final size:16
Alignment explanation
Indices: 3745144--3745183 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
3745134 AATAGTATTT
3745144 TTTAAATATA-AA-TA
1 TTTAAATATACAATTA
3745158 TTTAAATATACAATTA
1 TTTAAATATACAATTA
*
3745174 TATAAATATA
1 TTTAAATATA
3745184 TATAAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.43
15 2 0.09
16 11 0.48
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TTTAAATATACAATTA
Found at i:3745820 original size:20 final size:18
Alignment explanation
Indices: 3745795--3745838 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 18
3745785 TAATTTGATC
3745795 TGATTTAAATTAAATTTTAT
1 TGATTT-AATTAAA-TTTAT
*
3745815 TGATTTAATTTAATTTAT
1 TGATTTAATTAAATTTAT
3745833 TGATTT
1 TGATTT
3745839 TTGTAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 11 0.48
19 6 0.26
20 6 0.26
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (18 bp):
TGATTTAATTAAATTTAT
Found at i:3746595 original size:21 final size:21
Alignment explanation
Indices: 3746570--3746616 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
3746560 TTTAAATTTA
3746570 ATAAAATATTTAAAT-TAATAT
1 ATAAAAT-TTTAAATATAATAT
*
3746591 TTAAAATTTTAAATATAATAT
1 ATAAAATTTTAAATATAATAT
3746612 ATAAA
1 ATAAA
3746617 TTATAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
ATAAAATTTTAAATATAATAT
Found at i:3747813 original size:13 final size:13
Alignment explanation
Indices: 3747795--3747819 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3747785 TTTTATCGAT
3747795 AAAAAATTTTGAG
1 AAAAAATTTTGAG
3747808 AAAAAATTTTGA
1 AAAAAATTTTGA
3747820 AATGCTTAAA
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:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (13 bp):
AAAAAATTTTGAG
Found at i:3749172 original size:125 final size:124
Alignment explanation
Indices: 3748823--3749348 Score: 402
Period size: 125 Copynumber: 4.3 Consensus size: 124
3748813 AATCTTTCGA
* * *
3748823 AAATTTTTATGAGGTGATTACTCAAGATATTTTTTGATAAAAATACCTTAAATAA--TAAAAAAA
1 AAATTTTTATGAGATGATTACTCAAGATATTTTTGGATAAAAATACCTTGAATAATCTAAAAAAA
* * * * *
3748886 A--TTTAAT-ACGGTCATTGAAGAGATTTTTGGTTAAAAACGTCTTTAATAAT-TTCGTCAT
66 ATTTTTAATGA-GGTTATTGAA-AGATTTTTGGTAAAAAATGTCTTTAATAATCCTC-ACAT
* * * * *
3748944 AAATTTTTATAACG-TGATTACTCAAGATGTTTTTCG-TTAAAATATCTTGAATAATCTTAAAAA
1 AAATTTTTATGA-GATGATTACTCAAGATATTTTTGGATAAAAATACCTTGAATAATC-TAAAAA
** * * **
3749007 ATTTTTTTAATG-GGTTTATTGAAAGTATTTATGGTCAAAAATACCTTTAATAATCCTCACAT
64 AAATTTTTAATGAGG-TTATTGAAAG-ATTTTTGGTAAAAAATGTCTTTAATAATCCTCACAT
* * *
3749069 AAATTTTTATGAGATGATTATTTAAGGTATTTTTGGATAAAAATGA-CTTGAATAATCTAAAAAA
1 AAATTTTTATGAGATGATTACTCAAGATATTTTTGGATAAAAAT-ACCTTGAATAATCTAAAAAA
* * * *
3749133 AATTTTTAATGAGGTTATTGAAAGCGTTTTTGATAAAAAATGTATTTAACAATCTCTCA-AT
65 AATTTTTAATGAGGTTATTGAAAG-ATTTTTGGTAAAAAATGTCTTTAATAATC-CTCACAT
* * ** * *
3749194 AAATTTTTATGAGATGGTTACTCAATG-TATTTTTGGACAAAAATATTTTAAATAA--T--GAAA
1 AAATTTTTATGAGATGATTACTCAA-GATATTTTTGGATAAAAATACCTTGAATAATCTAAAAAA
* * * * * * * * ***
3749254 AATTTTTAATGAGGTTAATAAAAGTATTTATAGCAAAAAATATTTTTAATAATCTTTTTAT
65 AATTTTTAATGAGGTTATTGAAAG-ATTTTTGGTAAAAAATGTCTTTAATAATCCTCACAT
* * *
3749315 AAAATTTTATGACG-TGATTACTCAATACATTTTT
1 AAATTTTTATGA-GATGATTACTCAAGATATTTTT
3749349 ATTCAAAAAT
Statistics
Matches: 326, Mismatches: 59, Indels: 40
0.77 0.14 0.09
Matches are distributed among these distances:
120 16 0.05
121 106 0.33
122 2 0.01
123 8 0.02
124 6 0.02
125 161 0.49
126 26 0.08
127 1 0.00
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.41
Consensus pattern (124 bp):
AAATTTTTATGAGATGATTACTCAAGATATTTTTGGATAAAAATACCTTGAATAATCTAAAAAAA
ATTTTTAATGAGGTTATTGAAAGATTTTTGGTAAAAAATGTCTTTAATAATCCTCACAT
Found at i:3749317 original size:121 final size:120
Alignment explanation
Indices: 3749010--3749374 Score: 299
Period size: 121 Copynumber: 3.0 Consensus size: 120
3749000 TTAAAAAATT
* * ** * * *
3749010 TTTTTAATG-GGTTTATTGAAAGTATTTATGGTC-AAAAATACCTTTAATAATCCTCACATAAAT
1 TTTTTAATGAGG-TTATTGAAAGTATTTATAGACAAAAAATATATTTAATAATCTTTAAATAAAT
* * * * * *
3749073 TTTTATGAGATGATTATTTAAGGTATTTTTGGATAAAAATGACTTGAATAATCTAAAAAAAA
65 TTTTATGAGATGATTACTCAATGTATTTTTGGACAAAAAT-A-TT---TAA-ATAATAAAAA
** * * * * * *
3749135 TTTTTAATGAGGTTATTGAAAGCGTTT-TTGATAAAAAATGTATTTAACAATCTCTCAATAAATT
1 TTTTTAATGAGGTTATTGAAAGTATTTATAGACAAAAAATATATTTAATAATCTTTAAATAAATT
*
3749199 TTTATGAGATGGTTACTCAATGTATTTTTGGACAAAAATATTTTAAATAATGAAAAA
66 TTTATGAGATGATTACTCAATGTATTTTTGGACAAAAATA-TTTAAATAAT-AAAAA
* * * ** *
3749256 TTTTTAATGAGGTTAATAAAAGTATTTATAG-CAAAAAATATTTTTAATAATCTTTTTATAAAAT
1 TTTTTAATGAGGTTATTGAAAGTATTTATAGACAAAAAATATATTTAATAATCTTTAAATAAATT
** ***
3749320 TTTATGACG-TGATTACTCAATACATTTTTATTCAAAAATACTTTAAATAATAAAA
66 TTTATGA-GATGATTACTCAATGTATTTTTGGACAAAAATA-TTTAAATAATAAAA
3749375 TAAATAAAAT
Statistics
Matches: 193, Mismatches: 42, Indels: 15
0.77 0.17 0.06
Matches are distributed among these distances:
120 7 0.04
121 98 0.51
122 3 0.02
124 5 0.03
125 78 0.40
126 2 0.01
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (120 bp):
TTTTTAATGAGGTTATTGAAAGTATTTATAGACAAAAAATATATTTAATAATCTTTAAATAAATT
TTTATGAGATGATTACTCAATGTATTTTTGGACAAAAATATTTAAATAATAAAAA
Found at i:3753282 original size:74 final size:71
Alignment explanation
Indices: 3753146--3753293 Score: 226
Period size: 74 Copynumber: 2.0 Consensus size: 71
3753136 TTAGGCGAGG
*
3753146 GTGGGGTCAGGTGTGGTGGTGTACTGTGTCCCCTTATCATAGGTTTTTAGAGGGTGCCACCCTAG
1 GTGGGGTCAGGTGTGGTGGTGTACTGTGTCCCCTTATCATAGGTTTTTAGAGGGTGCAACCCTAG
3753211 AAAGAT
66 AAAGAT
* *
3753217 GTGGGGTCAGGTGTGGTGGTGGTGTACTGTG-CCCGTTATCATAGGTTTTTAGATGGTGGCAACC
1 GTGGGGTCA-G-GT-GTGGTGGTGTACTGTGTCCCCTTATCATAGGTTTTTAGAGGGT-GCAACC
3753281 CTAGAAAGAT
62 CTAGAAAGAT
3753291 GTG
1 GTG
3753294 CCCCTCCTTG
Statistics
Matches: 70, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
71 9 0.13
72 1 0.01
73 26 0.37
74 34 0.49
ACGTcount: A:0.18, C:0.15, G:0.36, T:0.31
Consensus pattern (71 bp):
GTGGGGTCAGGTGTGGTGGTGTACTGTGTCCCCTTATCATAGGTTTTTAGAGGGTGCAACCCTAG
AAAGAT
Found at i:3753357 original size:22 final size:22
Alignment explanation
Indices: 3753330--3753373 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
3753320 AATTTGTTAA
*
3753330 AAAAATGTGAGAGAAAGGACAT
1 AAAAATATGAGAGAAAGGACAT
3753352 AAAAATATGAGAGAAAGGACAT
1 AAAAATATGAGAGAAAGGACAT
3753374 GCAAGTAGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.57, C:0.05, G:0.25, T:0.14
Consensus pattern (22 bp):
AAAAATATGAGAGAAAGGACAT
Found at i:3753661 original size:18 final size:18
Alignment explanation
Indices: 3753638--3753672 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
3753628 TGGGGAATAC
3753638 CCCACCACACCAGGGATA
1 CCCACCACACCAGGGATA
3753656 CCCACCACACCAGGGAT
1 CCCACCACACCAGGGAT
3753673 GATTTGATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.46, G:0.17, T:0.06
Consensus pattern (18 bp):
CCCACCACACCAGGGATA
Found at i:3757709 original size:18 final size:18
Alignment explanation
Indices: 3757672--3757708 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
3757662 AGAAAAAAGG
*
3757672 AACTTATAAAAAATGAAA
1 AACTTATAAAAAAAGAAA
3757690 AACTT-TAAAAAAAGAAA
1 AACTTATAAAAAAAGAAA
3757707 AA
1 AA
3757709 AAAAAACAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.19
Consensus pattern (18 bp):
AACTTATAAAAAAAGAAA
Found at i:3757973 original size:20 final size:19
Alignment explanation
Indices: 3757944--3757998 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
3757934 TATCTAATAG
*
3757944 AAAATAAAAAGTGAAAA-AA
1 AAAATTAAAAGT-AAAACAA
3757963 ACAAATTAAAAGTAAAAGCAA
1 A-AAATTAAAAGTAAAA-CAA
*
3757984 AAAATTAAAAATAAA
1 AAAATTAAAAGTAAA
3757999 TTTAATAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.75, C:0.04, G:0.07, T:0.15
Consensus pattern (19 bp):
AAAATTAAAAGTAAAACAA
Found at i:3762779 original size:17 final size:18
Alignment explanation
Indices: 3762748--3762781 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
3762738 TTTTTCTTAA
*
3762748 AAAATAATAATAATTTTT
1 AAAATAATAAAAATTTTT
3762766 AAAA-AATAAAAATTTT
1 AAAATAATAAAAATTTT
3762782 AAAGGAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AAAATAATAAAAATTTTT
Found at i:3762983 original size:3 final size:3
Alignment explanation
Indices: 3762975--3763030 Score: 57
Period size: 3 Copynumber: 19.3 Consensus size: 3
3762965 TTCTTTTCAT
*
3762975 TTA TTA TTA TTA TTA TTA TTA TTA TTTA GTTA TCA TT- TTA -TA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA -TTA TTA TTA TTA TTA TTA
3763019 TTA TTA TT- TTA T
1 TTA TTA TTA TTA T
3763031 ATAGTTCATT
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
2 8 0.18
3 31 0.69
4 6 0.13
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:3763049 original size:29 final size:32
Alignment explanation
Indices: 3762982--3763048 Score: 88
Period size: 29 Copynumber: 2.2 Consensus size: 32
3762972 CATTTATTAT
*
3762982 TATTATTATTATTATTATTTAGTTATCATTTTA
1 TATT-TTATTATTATTATATAGTTATCATTTTA
3763015 TATTTTATTATT-TTATATAG-T-TCATTTTA
1 TATTTTATTATTATTATATAGTTATCATTTTA
3763044 -ATTTT
1 TATTTT
3763049 TTAATGGAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
28 5 0.15
29 8 0.24
30 1 0.03
31 7 0.21
32 8 0.24
33 4 0.12
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (32 bp):
TATTTTATTATTATTATATAGTTATCATTTTA
Found at i:3763226 original size:22 final size:22
Alignment explanation
Indices: 3763170--3763226 Score: 53
Period size: 22 Copynumber: 2.5 Consensus size: 22
3763160 AAACATACGC
*
3763170 AAATAAAAATAAATTAAAAAAGA
1 AAATAAAAA-AAATGAAAAAAGA
** *
3763193 AAA-AACTTAAAATGATAAAAGA
1 AAATAA-AAAAAATGAAAAAAGA
3763215 AAATAAAAAAAA
1 AAATAAAAAAAA
3763227 ACAATATCTG
Statistics
Matches: 26, Mismatches: 6, Indels: 5
0.70 0.16 0.14
Matches are distributed among these distances:
22 20 0.77
23 6 0.23
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.16
Consensus pattern (22 bp):
AAATAAAAAAAATGAAAAAAGA
Found at i:3765576 original size:6 final size:6
Alignment explanation
Indices: 3765565--3765601 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
3765555 CCCAACCAGT
3765565 AGGAGC AGGAGC AGGAGC AGGAGC AGGAGC AGGAGC A
1 AGGAGC AGGAGC AGGAGC AGGAGC AGGAGC AGGAGC A
3765602 TCAATGCCAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.35, C:0.16, G:0.49, T:0.00
Consensus pattern (6 bp):
AGGAGC
Found at i:3773338 original size:13 final size:13
Alignment explanation
Indices: 3773297--3773344 Score: 69
Period size: 14 Copynumber: 3.5 Consensus size: 13
3773287 CAAATGTCAA
3773297 TTTTAATAAAATT
1 TTTTAATAAAATT
*
3773310 CATTTAATATAAATT
1 -TTTTAATA-AAATT
3773325 TTTTAATAAAATT
1 TTTTAATAAAATT
3773338 TTTTAAT
1 TTTTAAT
3773345 CATAATTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
13 12 0.39
14 14 0.45
15 5 0.16
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (13 bp):
TTTTAATAAAATT
Found at i:3773351 original size:14 final size:13
Alignment explanation
Indices: 3773297--3773351 Score: 56
Period size: 14 Copynumber: 4.0 Consensus size: 13
3773287 CAAATGTCAA
*
3773297 TTTTAATAAAATT
1 TTTTAATATAATT
*
3773310 CATTTAATATAAATT
1 -TTTTAATAT-AATT
*
3773325 TTTTAATAAAATT
1 TTTTAATATAATT
3773338 TTTTAATCATAATT
1 TTTTAAT-ATAATT
3773352 ATAATATTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
13 11 0.32
14 19 0.56
15 4 0.12
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.53
Consensus pattern (13 bp):
TTTTAATATAATT
Found at i:3773365 original size:27 final size:28
Alignment explanation
Indices: 3773335--3773389 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
3773325 TTTTAATAAA
* * *
3773335 ATTTTTTAATCATAATTATAAT-ATTTT
1 ATTTTTCAATCACAATTACAATAATTTT
3773362 ATTTTTCAATCACAATTACAATAATTTT
1 ATTTTTCAATCACAATTACAATAATTTT
3773390 TATTATTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 19 0.79
28 5 0.21
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (28 bp):
ATTTTTCAATCACAATTACAATAATTTT
Found at i:3775636 original size:25 final size:24
Alignment explanation
Indices: 3775602--3775650 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
3775592 ATAATTATTG
3775602 TTATAATTATAATTTAAAAAAATTA
1 TTATAATTATAA-TTAAAAAAATTA
*
3775627 TTATAATTATGATTAAAAAAATTA
1 TTATAATTATAATTAAAAAAATTA
3775651 ATGAAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 12 0.52
25 11 0.48
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
TTATAATTATAATTAAAAAAATTA
Found at i:3777768 original size:25 final size:25
Alignment explanation
Indices: 3777740--3777789 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
3777730 TTCGTATATT
* *
3777740 TATATCGTATTTTATATAAAAATAA
1 TATATCATAATTTATATAAAAATAA
* *
3777765 TATATTATAATTTATATTAAAATAA
1 TATATCATAATTTATATAAAAATAA
3777790 AAATATATAA
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:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (25 bp):
TATATCATAATTTATATAAAAATAA
Found at i:3777798 original size:25 final size:25
Alignment explanation
Indices: 3777750--3777800 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
3777740 TATATCGTAT
*
3777750 TTTATATAAAAATAATATATTATAA
1 TTTATATAAAAATAAAATATTATAA
*
3777775 TTTATATTAAAATAAAA-ATATATAA
1 TTTATATAAAAATAAAATAT-TATAA
3777800 T
1 T
3777801 ATATTTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 2 0.09
25 21 0.91
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (25 bp):
TTTATATAAAAATAAAATATTATAA
Found at i:3781620 original size:18 final size:19
Alignment explanation
Indices: 3781597--3781634 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
3781587 CGTTTGTTAA
3781597 TAAAAAAAATTAA-AAAAT
1 TAAAAAAAATTAAGAAAAT
3781615 TAAAAAAAATTAAGAAAAT
1 TAAAAAAAATTAAGAAAAT
3781634 T
1 T
3781635 GAGAAAAACG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (19 bp):
TAAAAAAAATTAAGAAAAT
Found at i:3782444 original size:6 final size:6
Alignment explanation
Indices: 3782428--3782457 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
3782418 ATTCTTTAAT
3782428 TTTTTA TTTTTTA TTTTTA TTTTTA TTTTT
1 TTTTTA -TTTTTA TTTTTA TTTTTA TTTTT
3782458 TTTCAATGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (6 bp):
TTTTTA
Found at i:3782459 original size:8 final size:7
Alignment explanation
Indices: 3782426--3782458 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
3782416 GTATTCTTTA
3782426 ATTTTTT
1 ATTTTTT
3782433 ATTTTTT
1 ATTTTTT
3782440 A-TTTTT
1 ATTTTTT
3782446 A-TTTTT
1 ATTTTTT
3782452 ATTTTTT
1 ATTTTTT
3782459 TTCAATGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 12 0.48
7 13 0.52
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
ATTTTTT
Found at i:3782557 original size:58 final size:57
Alignment explanation
Indices: 3782466--3782732 Score: 335
Period size: 58 Copynumber: 4.6 Consensus size: 57
3782456 TTTTTCAATG
* *
3782466 ATTTTCC-TAAAATAAAATTCTCAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCA
1 ATTTTCCTTAAAATAAAATT-TTAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCA
* *
3782523 ATTTTTCTTGAAAATAAAATTTTAAAAAAATATTTTTGAGGGAAAGTTGAAAGTATCA
1 ATTTTCCTT-AAAATAAAATTTTAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCA
* *
3782581 ATTTTCCTTTAAAATAAAAAGGTTT-AAAAAATATATTTTAAGGGAAAAGTTGAAAGTATCA
1 ATTTTCC-TTAAAAT-AAAA-TTTTAAAAAAATAT-TTTTGA-GGAAAAGTTGAAAGTATCA
* *
3782642 ATTTTCCTTAAAAAAAAATTTTAAAAAAGTA-TTTTGAGGAAAAGTTGAAAGTATCA
1 ATTTTCCTTAAAATAAAATTTTAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCA
* *
3782698 ATTTTTCTTAAAGTAAAATTTCTAAAATAAA-ATTT
1 ATTTTCCTTAAAATAAAATTT-TAAAA-AAATATTT
3782733 CCAAAAAAAT
Statistics
Matches: 183, Mismatches: 16, Indels: 21
0.83 0.07 0.10
Matches are distributed among these distances:
56 37 0.20
57 17 0.09
58 53 0.29
59 37 0.20
60 14 0.08
61 25 0.14
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.36
Consensus pattern (57 bp):
ATTTTCCTTAAAATAAAATTTTAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCA
Found at i:3782610 original size:117 final size:116
Alignment explanation
Indices: 3782489--3782715 Score: 341
Period size: 117 Copynumber: 1.9 Consensus size: 116
3782479 AAAATTCTCA
* * *
3782489 AAAAAATAT-TTTTGA-GAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTTAAAAAA
1 AAAAAATATATTTTAAGGAAAAAGTTGAAAGTATCAATTTTCCTT-AAAAAAAAATTTTAAAAAA
*
3782552 ATATTTTTGAGGGAAAGTTGAAAGTATCAATTTTCCTTTAAAATAAAAAGGTTT
65 ATA-TTTTGAGGAAAAGTTGAAAGTATCAATTTTCC-TTAAAATAAAAAGGTTT
* *
3782606 AAAAAATATATTTTAAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAAAAATTTTAAAAAAG
1 AAAAAATATATTTTAAGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAAAAAATTTTAAAAAAA
* *
3782671 TATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAGTAAAA
66 TATTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATAAAA
3782716 TTTCTAAAAT
Statistics
Matches: 100, Mismatches: 8, Indels: 5
0.88 0.07 0.04
Matches are distributed among these distances:
116 10 0.10
117 39 0.39
118 25 0.25
119 26 0.26
ACGTcount: A:0.48, C:0.04, G:0.13, T:0.35
Consensus pattern (116 bp):
AAAAAATATATTTTAAGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAAAAAATTTTAAAAAAA
TATTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATAAAAAGGTTT
Found at i:3786064 original size:15 final size:15
Alignment explanation
Indices: 3786041--3786074 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
3786031 TTCATGTATG
* *
3786041 CATTTTCATTCATTA
1 CATTCTCATTCAATA
3786056 CATTCTCATTCAATA
1 CATTCTCATTCAATA
3786071 CATT
1 CATT
3786075 TAATAAAGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.47
Consensus pattern (15 bp):
CATTCTCATTCAATA
Found at i:3792988 original size:16 final size:15
Alignment explanation
Indices: 3792967--3793020 Score: 56
Period size: 16 Copynumber: 3.5 Consensus size: 15
3792957 TACTATGCTT
*
3792967 AAAAAAATGAAAGATG
1 AAAAAAAT-AAAGATA
*
3792983 AAAAAAATAAAAAATA
1 AAAAAAAT-AAAGATA
3792999 AAAAAAATAAAGA-A
1 AAAAAAATAAAGATA
*
3793013 AGAAAAAT
1 AAAAAAAT
3793021 TAAAAAAAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
14 8 0.24
15 4 0.12
16 21 0.64
ACGTcount: A:0.80, C:0.00, G:0.09, T:0.11
Consensus pattern (15 bp):
AAAAAAATAAAGATA
Done.