Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
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: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 197 of 206
Found at i:59642162 original size:59 final size:59
Alignment explanation
Indices: 59642047--59642162 Score: 135
Period size: 59 Copynumber: 2.0 Consensus size: 59
59642037 AAGTTTAGAA
* * ** * * *
59642047 ACTAACTTGGACAAAAAAAAGTTCAAGTCATAATGTGGAAACGATTGTCAAGTTCAAGG
1 ACTAACCTAGACAAAAAAAAGTTCAAACCATAATGTGAAAACGATTGCCAAATTCAAGG
* *
59642106 ACTAACCTAGACAAAAAAAAGTTCAAACCTTAATTTGAAAAC-ACTTGCCAAATTCAA
1 ACTAACCTAGACAAAAAAAAGTTCAAACCATAATGTGAAAACGA-TTGCCAAATTCAA
59642163 ATCCCAAATA
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
58 1 0.02
59 46 0.98
ACGTcount: A:0.46, C:0.17, G:0.14, T:0.23
Consensus pattern (59 bp):
ACTAACCTAGACAAAAAAAAGTTCAAACCATAATGTGAAAACGATTGCCAAATTCAAGG
Found at i:59646896 original size:12 final size:12
Alignment explanation
Indices: 59646879--59646903 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
59646869 GGTGTTCATT
59646879 CGGTTAACCGAC
1 CGGTTAACCGAC
59646891 CGGTTAACCGAC
1 CGGTTAACCGAC
59646903 C
1 C
59646904 CGAAATTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:59647078 original size:9 final size:9
Alignment explanation
Indices: 59647064--59647149 Score: 120
Period size: 9 Copynumber: 9.4 Consensus size: 9
59647054 TTTGGTTAAA
59647064 AATTACCCG
1 AATTACCCG
59647073 AATTACCCG
1 AATTACCCG
59647082 AATTACCCG
1 AATTACCCG
59647091 AATTACCCG
1 AATTACCCG
*
59647100 AATTAACCG
1 AATTACCCG
*
59647109 AATTAACCG
1 AATTACCCG
59647118 AATTA-CCG
1 AATTACCCG
*
59647126 AAAAATACCCG
1 --AATTACCCG
59647137 AATTACCCG
1 AATTACCCG
59647146 AATT
1 AATT
59647150 TTTTTTATTT
Statistics
Matches: 71, Mismatches: 3, Indels: 6
0.89 0.04 0.08
Matches are distributed among these distances:
8 3 0.04
9 61 0.86
10 4 0.06
11 3 0.04
ACGTcount: A:0.40, C:0.28, G:0.10, T:0.22
Consensus pattern (9 bp):
AATTACCCG
Found at i:59648667 original size:13 final size:13
Alignment explanation
Indices: 59648649--59648723 Score: 105
Period size: 13 Copynumber: 5.8 Consensus size: 13
59648639 TTCTTCATTT
59648649 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
59648662 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
59648675 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
***
59648688 CTGCGGAAAAGTG
1 CTTTTGAAAAGTG
* *
59648701 CTTCTGAGAAGTG
1 CTTTTGAAAAGTG
59648714 CTTTTGAAAA
1 CTTTTGAAAA
59648724 ATTTGAGTGT
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 54 1.00
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (13 bp):
CTTTTGAAAAGTG
Found at i:59658708 original size:20 final size:20
Alignment explanation
Indices: 59658683--59658727 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
59658673 ATTATCAGCC
59658683 AAAAGCACTTCAAGCTAAAG
1 AAAAGCACTTCAAGCTAAAG
59658703 AAAAGCACTTCAAGCTAAAG
1 AAAAGCACTTCAAGCTAAAG
59658723 AAAAG
1 AAAAG
59658728 GAGAAATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.53, C:0.18, G:0.16, T:0.13
Consensus pattern (20 bp):
AAAAGCACTTCAAGCTAAAG
Found at i:59659135 original size:9 final size:9
Alignment explanation
Indices: 59659123--59659225 Score: 52
Period size: 9 Copynumber: 11.2 Consensus size: 9
59659113 AAAAAAAACA
59659123 TAAAAATAT
1 TAAAAATAT
59659132 TAAAAATAT
1 TAAAAATAT
59659141 ATATAAAAGCTA-
1 -TA-AAAA--TAT
* *
59659153 AAAAAAAAT
1 TAAAAATAT
* *
59659162 TAAAATTTT
1 TAAAAATAT
* * *
59659171 TAGAATTTT
1 TAAAAATAT
59659180 TAAAAAT-T
1 TAAAAATAT
59659188 ATAAAAATA-
1 -TAAAAATAT
59659197 TAAAAATTAT
1 TAAAAA-TAT
*
59659207 TAAAAATAA
1 TAAAAATAT
59659216 TAAAAA-AT
1 TAAAAATAT
59659224 TA
1 TA
59659226 TTTAAGAATT
Statistics
Matches: 74, Mismatches: 11, Indels: 19
0.71 0.11 0.18
Matches are distributed among these distances:
8 11 0.15
9 44 0.59
10 12 0.16
11 5 0.07
13 2 0.03
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.33
Consensus pattern (9 bp):
TAAAAATAT
Found at i:59659202 original size:17 final size:18
Alignment explanation
Indices: 59659180--59659226 Score: 69
Period size: 17 Copynumber: 2.6 Consensus size: 18
59659170 TTAGAATTTT
59659180 TAAAAATTATAAAAAT-A
1 TAAAAATTATAAAAATAA
59659197 TAAAAATTATTAAAAATAA
1 TAAAAATTA-TAAAAATAA
59659216 TAAAAAATTAT
1 T-AAAAATTAT
59659227 TTAAGAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 9 0.33
18 7 0.26
19 3 0.11
20 8 0.30
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
TAAAAATTATAAAAATAA
Found at i:59659221 original size:10 final size:9
Alignment explanation
Indices: 59659180--59659325 Score: 73
Period size: 10 Copynumber: 15.6 Consensus size: 9
59659170 TTAGAATTTT
59659180 TAAAAATTA
1 TAAAAATTA
59659189 TAAAAA-TA
1 TAAAAATTA
59659197 TAAAAATTA
1 TAAAAATTA
*
59659206 TTAAAAATAA
1 -TAAAAATTA
59659216 TAAAAAATTA
1 T-AAAAATTA
*
59659226 TTTAAGAATTA
1 --TAAAAATTA
* **
59659237 T-GAAAGCA
1 TAAAAATTA
*
59659245 TAACAAACTA
1 TAA-AAATTA
*
59659255 TAAAAATATT
1 TAAAAAT-TA
*
59659265 TAAAAACTA
1 TAAAAATTA
**
59659274 TAAAAGCTA
1 TAAAAATTA
59659283 TTAAAAATTA
1 -TAAAAATTA
*
59659293 CAAAATATTA
1 TAAAA-ATTA
**
59659303 TAATGCATTA
1 TAA-AAATTA
59659313 TAAAAA-TA
1 TAAAAATTA
59659321 TAAAA
1 TAAAA
59659326 TATTTAGTAA
Statistics
Matches: 103, Mismatches: 23, Indels: 23
0.69 0.15 0.15
Matches are distributed among these distances:
8 19 0.18
9 27 0.26
10 49 0.48
11 7 0.07
12 1 0.01
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (9 bp):
TAAAAATTA
Found at i:59659298 original size:37 final size:36
Alignment explanation
Indices: 59659180--59659301 Score: 99
Period size: 37 Copynumber: 3.3 Consensus size: 36
59659170 TTAGAATTTT
* **
59659180 TAAAAAT-TATAAAAATATAAAAATTATTAAAAATAA
1 TAAAAATATTTAAAAATATAAAAGCTATTAAAAAT-A
* *
59659216 TAAAAAATTATTTAAGAATTATGAAAGC-A-TAACAAACTA
1 T-AAAAA-TATTTAA-AAATATAAAAGCTATTAA-AAA-TA
59659255 TAAAAATATTTAAAAACTATAAAAGCTATTAAAAAT-
1 TAAAAATATTTAAAAA-TATAAAAGCTATTAAAAATA
59659291 TACAAAATATT
1 TA-AAAATATT
59659302 ATAATGCATT
Statistics
Matches: 69, Mismatches: 7, Indels: 19
0.73 0.07 0.20
Matches are distributed among these distances:
36 5 0.07
37 29 0.42
38 13 0.19
39 13 0.19
40 9 0.13
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.30
Consensus pattern (36 bp):
TAAAAATATTTAAAAATATAAAAGCTATTAAAAATA
Found at i:59662894 original size:23 final size:23
Alignment explanation
Indices: 59662842--59662891 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
59662832 CGTTAACTTA
59662842 ATAAAAT-AATAATATTATTTAT
1 ATAAAATAAATAATATTATTTAT
*
59662864 ATAAAATAAATTATATTA-TTAT
1 ATAAAATAAATAATATTATTTAT
*
59662886 TTAAAA
1 ATAAAA
59662892 ATATTTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 16 0.64
23 9 0.36
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
ATAAAATAAATAATATTATTTAT
Found at i:59666683 original size:29 final size:28
Alignment explanation
Indices: 59666655--59666708 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
59666645 AATATTTATA
*
59666655 ATAATTAAAAAATGAA-AAGTGTATGTAT
1 ATAA-TAAAAAATGAATAAATGTATGTAT
* *
59666683 ATTATAGAAAATGAATAAATGTATGT
1 ATAATAAAAAATGAATAAATGTATGT
59666709 TTTGAATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.52, C:0.00, G:0.15, T:0.33
Consensus pattern (28 bp):
ATAATAAAAAATGAATAAATGTATGTAT
Found at i:59666765 original size:17 final size:17
Alignment explanation
Indices: 59666745--59666788 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
59666735 ATATATTACA
59666745 AAAATGTATATCTATAT
1 AAAATGTATATCTATAT
* * *
59666762 AAAATATAAATGTATAT
1 AAAATGTATATCTATAT
59666779 -AAATGTATAT
1 AAAATGTATAT
59666789 AAAAATTATG
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.39
Consensus pattern (17 bp):
AAAATGTATATCTATAT
Found at i:59666794 original size:12 final size:10
Alignment explanation
Indices: 59666765--59666791 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
59666755 TCTATATAAA
59666765 ATATAAATGT
1 ATATAAATGT
59666775 ATATAAATGT
1 ATATAAATGT
59666785 ATATAAA
1 ATATAAA
59666792 AATTATGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (10 bp):
ATATAAATGT
Found at i:59666819 original size:2 final size:2
Alignment explanation
Indices: 59666812--59666861 Score: 82
Period size: 2 Copynumber: 25.0 Consensus size: 2
59666802 GTAGAATAAA
*
59666812 AT AT AT AT CT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
59666854 AT AG AT AT
1 AT AT AT AT
59666862 GTAAGGTGCA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:59667035 original size:38 final size:39
Alignment explanation
Indices: 59666963--59667040 Score: 115
Period size: 38 Copynumber: 2.0 Consensus size: 39
59666953 ATAGAATTAT
59666963 ACATTTACAAAAAGTGGAAAACGTTTTTGAAATTAAAATA
1 ACATTTACAAAAAGT-GAAAACGTTTTTGAAATTAAAATA
*
59667003 ACATTTAC-AAAAGT-AAAACGTTTTTTGAAATTAGAATA
1 ACATTTACAAAAAGTGAAAACG-TTTTTGAAATTAAAATA
59667041 TATATATATT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
37 6 0.17
38 16 0.44
39 6 0.17
40 8 0.22
ACGTcount: A:0.49, C:0.08, G:0.12, T:0.32
Consensus pattern (39 bp):
ACATTTACAAAAAGTGAAAACGTTTTTGAAATTAAAATA
Found at i:59691528 original size:2 final size:2
Alignment explanation
Indices: 59691523--59691558 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
59691513 TGTCTCTCTA
59691523 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
59691559 AGAGAGAGAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:59691563 original size:2 final size:2
Alignment explanation
Indices: 59691558--59691606 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
59691548 GTGTGTGTGT
*
59691558 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA TA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
59691600 GA GA GA G
1 GA GA GA G
59691607 TCTTTGCTAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.49, T:0.02
Consensus pattern (2 bp):
GA
Found at i:59692768 original size:2 final size:2
Alignment explanation
Indices: 59692761--59692789 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
59692751 TGTTGATGTT
59692761 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
59692790 CAGGTGGCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:59697178 original size:15 final size:15
Alignment explanation
Indices: 59697160--59697198 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
59697150 TTAGTCTTAA
59697160 TTAATTAATAAAAAC
1 TTAATTAATAAAAAC
* *
59697175 TTAATTAATCAAACC
1 TTAATTAATAAAAAC
59697190 TTAACTTAA
1 TTAA-TTAA
59697199 ATTTAGCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (15 bp):
TTAATTAATAAAAAC
Found at i:59701695 original size:3 final size:3
Alignment explanation
Indices: 59701689--59701766 Score: 68
Period size: 3 Copynumber: 25.0 Consensus size: 3
59701679 ATTTTTTTAC
* * * *
59701689 ATT ATT ATT A-T ATT TTT ATT ATT ACTT GTTT ATT ATT CTT ATT CTT
1 ATT ATT ATT ATT ATT ATT ATT ATT A-TT -ATT ATT ATT ATT ATT ATT
*
59701735 ATTT ATT ATT ATT ATT AAT ATT ATTT ATT ATT
1 A-TT ATT ATT ATT ATT ATT ATT A-TT ATT ATT
59701767 TTCATGTACA
Statistics
Matches: 60, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
2 2 0.03
3 48 0.80
4 10 0.17
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:59701746 original size:22 final size:22
Alignment explanation
Indices: 59701690--59701766 Score: 65
Period size: 22 Copynumber: 3.7 Consensus size: 22
59701680 TTTTTTTACA
*
59701690 TTATTA-TTA-TATTTTTATTA
1 TTATTATTTATTATTATTATTA
* *
59701710 TTACTTGTTTATTA---TTCTTA
1 TTA-TTATTTATTATTATTATTA
*
59701730 TTCTTATTTATTATTATTATTA
1 TTATTATTTATTATTATTATTA
*
59701752 ATATTATTTATTATT
1 TTATTATTTATTATT
59701767 TTCATGTACA
Statistics
Matches: 44, Mismatches: 7, Indels: 10
0.72 0.11 0.16
Matches are distributed among these distances:
19 9 0.20
20 10 0.23
21 2 0.05
22 21 0.48
23 2 0.05
ACGTcount: A:0.27, C:0.04, G:0.01, T:0.68
Consensus pattern (22 bp):
TTATTATTTATTATTATTATTA
Found at i:59714122 original size:51 final size:52
Alignment explanation
Indices: 59714025--59714130 Score: 205
Period size: 52 Copynumber: 2.1 Consensus size: 52
59714015 TCAACGAACA
59714025 ATTCTGGGTTTCTTTTTTTCTTTCTAGATTTTTTTGTACAATTTTTTTGTTT
1 ATTCTGGGTTTCTTTTTTTCTTTCTAGATTTTTTTGTACAATTTTTTTGTTT
59714077 ATTCTGGGTTTCTTTTTTTCTTTCTAGATTTTTTTGTACAA-TTTTTTGTTT
1 ATTCTGGGTTTCTTTTTTTCTTTCTAGATTTTTTTGTACAATTTTTTTGTTT
59714128 ATT
1 ATT
59714131 AGAAATTGTT
Statistics
Matches: 54, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
51 13 0.24
52 41 0.76
ACGTcount: A:0.12, C:0.09, G:0.11, T:0.67
Consensus pattern (52 bp):
ATTCTGGGTTTCTTTTTTTCTTTCTAGATTTTTTTGTACAATTTTTTTGTTT
Found at i:59714442 original size:14 final size:14
Alignment explanation
Indices: 59714423--59714450 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
59714413 TTTCAAGTTA
59714423 TAAAAATCTTCAAG
1 TAAAAATCTTCAAG
59714437 TAAAAATCTTCAAG
1 TAAAAATCTTCAAG
59714451 AATTATACCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.29
Consensus pattern (14 bp):
TAAAAATCTTCAAG
Found at i:59715518 original size:13 final size:14
Alignment explanation
Indices: 59715494--59715522 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
59715484 CTTAAATTGA
59715494 TAATTGAATTTTTT
1 TAATTGAATTTTTT
59715508 TAATT-AATTTTTT
1 TAATTGAATTTTTT
59715521 TA
1 TA
59715523 TAATTCTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (14 bp):
TAATTGAATTTTTT
Found at i:59716746 original size:17 final size:17
Alignment explanation
Indices: 59716726--59716763 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
59716716 GTTATCAAAA
*
59716726 TAATAACAAT-AATAATT
1 TAATAA-AATGAATAAAT
59716743 TAATAAAATGAATAAAT
1 TAATAAAATGAATAAAT
59716760 TAAT
1 TAAT
59716764 CTTTTTTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 3 0.16
17 16 0.84
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (17 bp):
TAATAAAATGAATAAAT
Found at i:59723380 original size:20 final size:20
Alignment explanation
Indices: 59723351--59723395 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
59723341 TGTTGCTATA
*
59723351 TTTTAGTTTTAGACTTTTAC
1 TTTTACTTTTAGACTTTTAC
* *
59723371 TTTTACTTTTAGATTTTTAT
1 TTTTACTTTTAGACTTTTAC
59723391 TTTTA
1 TTTTA
59723396 TTTATTAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.20, C:0.07, G:0.07, T:0.67
Consensus pattern (20 bp):
TTTTACTTTTAGACTTTTAC
Found at i:59724781 original size:14 final size:14
Alignment explanation
Indices: 59724752--59724790 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
59724742 AATTTACAGC
*
59724752 ATATACGAATAAAT
1 ATATACAAATAAAT
* *
59724766 ATTTACAAATATAT
1 ATATACAAATAAAT
59724780 ATATACAAATA
1 ATATACAAATA
59724791 CAATGTACCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.56, C:0.08, G:0.03, T:0.33
Consensus pattern (14 bp):
ATATACAAATAAAT
Found at i:59726997 original size:88 final size:88
Alignment explanation
Indices: 59726842--59727007 Score: 205
Period size: 88 Copynumber: 1.9 Consensus size: 88
59726832 TGGGGTCTTC
* * *
59726842 GATCTGCTCCACTACTGCTTAGGGAGATAAGAATACTGGCTTTAATGTACTCCACTGTAACCACA
1 GATCTGCTCCACTACTGCTTAGGGAGACAAGAATACTGGCTTCAATCTACTCCACTGTAACCACA
*
59726907 GGGAGGTAAAATTCACCATATTT
66 GGGAAGTAAAATTCACCATATTT
* * *
59726930 GATCTGCTCCACTACTGCTTAGGGAGACAAG-AT-CTGAAATCTTCAATCTATTCCACTGCT-GC
1 GATCTGCTCCACTACTGCTTAGGGAGACAAGAATACTG---GCTTCAATCTACTCCACTG-TAAC
59726992 C-CAGGGAAGTAAAATT
62 CACAGGGAAGTAAAATT
59727008 TTTGGCTTCA
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
86 3 0.04
87 2 0.03
88 44 0.66
89 17 0.25
90 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (88 bp):
GATCTGCTCCACTACTGCTTAGGGAGACAAGAATACTGGCTTCAATCTACTCCACTGTAACCACA
GGGAAGTAAAATTCACCATATTT
Found at i:59726998 original size:132 final size:132
Alignment explanation
Indices: 59726871--59727726 Score: 1221
Period size: 132 Copynumber: 6.5 Consensus size: 132
59726861 TAGGGAGATA
* * * *
59726871 AGAA-TACTGGCTTTAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATATTTGATCT
1 AGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTTGATCT
59726935 GCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAA
66 GCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAA
59727000 GT
131 GT
* ** * *
59727002 AAAATTTTTGGCTTCAATGTACTCCACTGTAACCACGGGGAGGTAAAATCCGCCATCTTTGACCT
1 AGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTTGATCT
* * *
59727067 GTTCCACTACTGCTTAGGGAGGCAAGATCTGAAATCTTTAATCTATTCCACTGCTGCCCAGGGAA
66 GCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAA
59727132 GT
131 GT
* * * * *
59727134 AGAATTACTGGCTTCAATGTACTCCACTATAACCATAGAGAGGTAAAATTCACCATCTTTGATCT
1 AGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTTGATCT
* * ** *
59727199 GCTCCACTACTGCTT-GAGGAGACAAGATCTAAAATCTTTAATCTATTCCACTGCTGCTTAGAGA
66 GCTCCACTACTGCTTAG-GGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGA
59727263 AGT
130 AGT
* * *
59727266 AGAATTACTGGTTTCAATGTACTCCACTGTAACCACAAGGAGGTAAAATCCGTCATCTTTGATCT
1 AGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTTGATCT
* * * *
59727331 GCTCCACTACTGCCTAGGGAGATAAGATCTGTAATCTTCAAATCTATTCCACTGCTGCCTAGGG-
66 GCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTC-AATCTATTCCACTGCTGCCCAGGGA
59727395 AGAT
130 AG-T
* * *
59727399 AGAATTACTGGCCTCAATTGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTTAATC
1 AGAATTACTGGCTTCAA-TGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTTGATC
*
59727464 TGCTCCACTACTGCTTAGCGAGAC-A-A---G--ATC-TCAATCTATTCCACTGCTGCCCAGGGA
65 TGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGA
59727521 AGT
130 AGT
*
59727524 AGAAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTTGATC
1 AG-AATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTTGATC
* * *
59727589 TGCTCCACTACTGGTTAGGGAGACAAGATCTAAAATCTTCAATCTATTCCACTGCTGACCAGGGA
65 TGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGA
59727654 AGT
130 AGT
* * * *
59727657 AGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATTCACCATCTTTGATCT
1 AGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTTGATCT
59727722 GCTCC
66 GCTCC
59727727 GCTGTCTATG
Statistics
Matches: 647, Mismatches: 62, Indels: 31
0.87 0.08 0.04
Matches are distributed among these distances:
125 94 0.15
126 19 0.03
127 4 0.01
129 1 0.00
131 4 0.01
132 390 0.60
133 71 0.11
134 64 0.10
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (132 bp):
AGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTTGATCT
GCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAA
GT
Found at i:59727777 original size:45 final size:45
Alignment explanation
Indices: 59727720--59727837 Score: 114
Period size: 43 Copynumber: 2.7 Consensus size: 45
59727710 CATCTTTGAT
*
59727720 CTGCTCCGCTGTCTATGCAGGAAGGCAAGAGCTGCTATCTTCAAC
1 CTGCTCCACTGTCTATGCAGGAAGGCAAGAGCTGCTATCTTCAAC
** * * * * * * *
59727765 CTGCTCCACTGTCTCCG-AGGGAGGCGAG-GTTGGTGTCTTCGAT
1 CTGCTCCACTGTCTATGCAGGAAGGCAAGAGCTGCTATCTTCAAC
* *
59727808 CTGCTTCACTGTCGATGCAGGAAGGCAAGA
1 CTGCTCCACTGTCTATGCAGGAAGGCAAGA
59727838 TCTATTATCA
Statistics
Matches: 55, Mismatches: 16, Indels: 4
0.73 0.21 0.05
Matches are distributed among these distances:
43 23 0.42
44 18 0.33
45 14 0.25
ACGTcount: A:0.19, C:0.26, G:0.30, T:0.25
Consensus pattern (45 bp):
CTGCTCCACTGTCTATGCAGGAAGGCAAGAGCTGCTATCTTCAAC
Found at i:59729100 original size:14 final size:13
Alignment explanation
Indices: 59729091--59729121 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
59729081 CATTTTCATC
59729091 TTTTCATTTTTCA
1 TTTTCATTTTTCA
59729104 TTTTCATCTTTTCA
1 TTTTCAT-TTTTCA
59729118 TTTT
1 TTTT
59729122 TCACATCACT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.13, C:0.16, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTTCATTTTTCA
Found at i:59729103 original size:7 final size:7
Alignment explanation
Indices: 59729083--59729124 Score: 59
Period size: 8 Copynumber: 5.9 Consensus size: 7
59729073 AGCCTCTCCA
59729083 TTTTCAT
1 TTTTCAT
59729090 CTTTTCAT
1 -TTTTCAT
59729098 TTTTCA-
1 TTTTCAT
59729104 TTTTCAT
1 TTTTCAT
59729111 CTTTTCAT
1 -TTTTCAT
59729119 TTTTCA
1 TTTTCA
59729125 CATCACTCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
6 6 0.19
7 12 0.38
8 14 0.44
ACGTcount: A:0.14, C:0.19, G:0.00, T:0.67
Consensus pattern (7 bp):
TTTTCAT
Found at i:59729107 original size:21 final size:21
Alignment explanation
Indices: 59729081--59729124 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
59729071 TTAGCCTCTC
59729081 CATTTTCATCTTTTCATTTTT
1 CATTTTCATCTTTTCATTTTT
59729102 CATTTTCATCTTTTCATTTTT
1 CATTTTCATCTTTTCATTTTT
59729123 CA
1 CA
59729125 CATCACTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.16, C:0.20, G:0.00, T:0.64
Consensus pattern (21 bp):
CATTTTCATCTTTTCATTTTT
Found at i:59729134 original size:21 final size:21
Alignment explanation
Indices: 59729086--59729136 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
59729076 CTCTCCATTT
**
59729086 TCATCTTTTCATTTTTCATTT
1 TCATCTTTTCATTTTTCATCA
59729107 TCATCTTTTCATTTTTCA-CA
1 TCATCTTTTCATTTTTCATCA
59729127 TCACTCTTTT
1 TCA-TCTTTT
59729137 TTTTTTTTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 3 0.11
21 24 0.89
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.61
Consensus pattern (21 bp):
TCATCTTTTCATTTTTCATCA
Found at i:59753192 original size:32 final size:36
Alignment explanation
Indices: 59753164--59753237 Score: 112
Period size: 38 Copynumber: 2.0 Consensus size: 36
59753154 CAAGAGATCA
59753164 CAACAGATTTCTATCCTTAATTATAGAGATTCCAATAC
1 CAACAGATTTCTATCCTTAATTATAGAGATTCC-A-AC
* *
59753202 CATCAGATTTCTATCCTTAATTATAGGGATTCCAAC
1 CAACAGATTTCTATCCTTAATTATAGAGATTCCAAC
59753238 AATATACTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
36 2 0.06
37 1 0.03
38 31 0.91
ACGTcount: A:0.34, C:0.22, G:0.09, T:0.35
Consensus pattern (36 bp):
CAACAGATTTCTATCCTTAATTATAGAGATTCCAAC
Found at i:59754085 original size:5 final size:5
Alignment explanation
Indices: 59754075--59754100 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
59754065 ATATTATTTA
59754075 AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT A
59754101 TTTATACTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:59754137 original size:23 final size:23
Alignment explanation
Indices: 59754111--59754157 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
59754101 TTTATACTAT
59754111 TTTTAAT-TTAATAATTTAATATA
1 TTTTAATATTAA-AATTTAATATA
* *
59754134 TTTTTATATTAAAATTTTATATA
1 TTTTAATATTAAAATTTAATATA
59754157 T
1 T
59754158 GATCATCTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
TTTTAATATTAAAATTTAATATA
Found at i:59754145 original size:24 final size:22
Alignment explanation
Indices: 59754100--59754157 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 22
59754090 AAAATAAAAT
59754100 ATTTATACTATTTTTAATTTAATA
1 ATTTATA-TATTTTTAATTTAA-A
59754124 ATTTAATATATTTTT-ATATTAAA
1 ATTT-ATATATTTTTAAT-TTAAA
59754147 ATTTTATATAT
1 A-TTTATATAT
59754158 GATCATCTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
23 10 0.32
24 18 0.58
25 3 0.10
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.59
Consensus pattern (22 bp):
ATTTATATATTTTTAATTTAAA
Found at i:59765921 original size:3 final size:3
Alignment explanation
Indices: 59765913--59765976 Score: 83
Period size: 3 Copynumber: 21.3 Consensus size: 3
59765903 TTCAGTAGTT
* * *
59765913 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA ATA TTC
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
59765961 TTA TTA CTA TCA TTA T
1 TTA TTA TTA TTA TTA T
59765977 ATTTATACTT
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:59766132 original size:16 final size:16
Alignment explanation
Indices: 59766107--59766139 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
59766097 AAATACTCAT
59766107 TATATATATATTTATA
1 TATATATATATTTATA
*
59766123 TATATGTATATTTATA
1 TATATATATATTTATA
59766139 T
1 T
59766140 TTTTTTCTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (16 bp):
TATATATATATTTATA
Found at i:59766342 original size:16 final size:15
Alignment explanation
Indices: 59766317--59766351 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
59766307 AAGTATACAC
*
59766317 ATATATACATACTTTT
1 ATATACACAT-CTTTT
59766333 ATATACACATCTTTT
1 ATATACACATCTTTT
59766348 ATAT
1 ATAT
59766352 TTCCATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.37, C:0.14, G:0.00, T:0.49
Consensus pattern (15 bp):
ATATACACATCTTTT
Found at i:59766841 original size:109 final size:109
Alignment explanation
Indices: 59766617--59766833 Score: 382
Period size: 109 Copynumber: 2.0 Consensus size: 109
59766607 TTAAAAAAGG
* *
59766617 AAAATATTTCTAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACACGCCCTAAGGTGCT
1 AAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACACGCCCTAAGGTGCT
59766682 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTTAATATCCTTT
66 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTTAATATCCTTT
*
59766726 AAAAAATTTCAAAATATGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACACGCCCTAAGGTGCT
1 AAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACACGCCCTAAGGTGCT
* *
59766791 GGGTGTTGATTTTTCTCGTTCAACC-AATGGCTTAATATCCTTT
66 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTTAATATCCTTT
59766834 TTTAAAATAT
Statistics
Matches: 103, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
108 18 0.17
109 85 0.83
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (109 bp):
AAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACACGCCCTAAGGTGCT
GGGTGTCGATTTTTCTCATTCAACCAAATGGCTTAATATCCTTT
Found at i:59769648 original size:26 final size:27
Alignment explanation
Indices: 59769593--59769641 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 27
59769583 ATAAAATACA
*
59769593 TCTTTGCATTCCTTTTTGAGCTAATAT
1 TCTTTGCATTCCTTTTTGAGATAATAT
59769620 TCTTT-CATT-CTTTTTGA-ATAAT
1 TCTTTGCATTCCTTTTTGAGATAAT
59769642 TATTTCTGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 4 0.19
25 8 0.38
26 4 0.19
27 5 0.24
ACGTcount: A:0.20, C:0.16, G:0.08, T:0.55
Consensus pattern (27 bp):
TCTTTGCATTCCTTTTTGAGATAATAT
Found at i:59770322 original size:6 final size:6
Alignment explanation
Indices: 59770313--59770372 Score: 50
Period size: 6 Copynumber: 9.7 Consensus size: 6
59770303 AAGAAAAAGA
* * * *
59770313 AAAATC AAAATC AAAGTC AAAATG AAAATG AAAATGAA AAAATC AAAAATC
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAAT--C AAAATC -AAAATC
59770364 AAAAT- AAAA
1 AAAATC AAAA
59770373 AAAAACAAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
5 4 0.09
6 31 0.67
7 6 0.13
8 5 0.11
ACGTcount: A:0.70, C:0.08, G:0.07, T:0.15
Consensus pattern (6 bp):
AAAATC
Found at i:59770322 original size:12 final size:13
Alignment explanation
Indices: 59770306--59770360 Score: 51
Period size: 12 Copynumber: 4.3 Consensus size: 13
59770296 AAAAGTGAAG
*
59770306 AAAAAGAAAAATC
1 AAAATGAAAAATC
* *
59770319 AAAAT-CAAAGTC
1 AAAATGAAAAATC
*
59770331 AAAATG-AAAATG
1 AAAATGAAAAATC
59770343 AAAATGAAAAAATC
1 AAAATG-AAAAATC
59770357 AAAA
1 AAAA
59770361 ATCAAAATAA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
12 20 0.61
13 4 0.12
14 9 0.27
ACGTcount: A:0.71, C:0.07, G:0.09, T:0.13
Consensus pattern (13 bp):
AAAATGAAAAATC
Found at i:59771366 original size:8 final size:7
Alignment explanation
Indices: 59771344--59771388 Score: 65
Period size: 7 Copynumber: 6.4 Consensus size: 7
59771334 AAAAAAAGAG
59771344 ATGAATAA
1 ATGAA-AA
59771352 ATGAAAA
1 ATGAAAA
59771359 ATGAAAA
1 ATGAAAA
59771366 ATGAAAA
1 ATGAAAA
59771373 ATG-AAA
1 ATGAAAA
*
59771379 GTGAAAA
1 ATGAAAA
59771386 ATG
1 ATG
59771389 GAGAGGCTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
6 5 0.15
7 24 0.71
8 5 0.15
ACGTcount: A:0.64, C:0.00, G:0.18, T:0.18
Consensus pattern (7 bp):
ATGAAAA
Found at i:59771383 original size:13 final size:14
Alignment explanation
Indices: 59771344--59771388 Score: 65
Period size: 13 Copynumber: 3.2 Consensus size: 14
59771334 AAAAAAAGAG
59771344 ATGAATAAATGAAAA
1 ATGAA-AAATGAAAA
59771359 ATGAAAAATGAAAA
1 ATGAAAAATGAAAA
*
59771373 ATG-AAAGTGAAAA
1 ATGAAAAATGAAAA
59771386 ATG
1 ATG
59771389 GAGAGGCTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 12 0.41
14 12 0.41
15 5 0.17
ACGTcount: A:0.64, C:0.00, G:0.18, T:0.18
Consensus pattern (14 bp):
ATGAAAAATGAAAA
Found at i:59772899 original size:43 final size:43
Alignment explanation
Indices: 59772852--59772988 Score: 118
Period size: 43 Copynumber: 3.2 Consensus size: 43
59772842 AAACAAAGCG
59772852 TTGCCTTCATTAGTTGCAGTAGAGCTGGTTAAAGAAGCAGATC
1 TTGCCTTCATTAGTTGCAGTAGAGCTGGTTAAAGAAGCAGATC
* ** * * * * * *
59772895 TTGCCTTCCTGCGTTAACAGCTA-AGCAGATCAAA-AA-CAAAGCC
1 TTGCCTTCATTAGTT-GCAG-TAGAGCTGGTTAAAGAAGCAGA-TC
* * *
59772938 ATGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATC
1 TTGCCTTCATTAGTTGCAGTAGAGCTGGTTAAAGAAGCAGATC
59772981 TTGCCTTC
1 TTGCCTTC
59772989 CTGCGTTAAC
Statistics
Matches: 67, Mismatches: 21, Indels: 12
0.67 0.21 0.12
Matches are distributed among these distances:
41 1 0.01
42 14 0.21
43 36 0.54
44 14 0.21
45 2 0.03
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (43 bp):
TTGCCTTCATTAGTTGCAGTAGAGCTGGTTAAAGAAGCAGATC
Found at i:59772925 original size:86 final size:86
Alignment explanation
Indices: 59772630--59773389 Score: 1203
Period size: 86 Copynumber: 8.9 Consensus size: 86
59772620 CAGATCAGTG
*
59772630 AAGAAGCAGATCTTGCATTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTTCAT
1 AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTTCAT
*
59772695 TGGTTACAGTGGAGCTGGTTA
66 TGGTTGCAGTGGAGCTGGTTA
*
59772716 AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCG--AA-AAAGTCTTGCCTTCAT
1 AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTTCAT
59772778 TGGTTGCAGTGGAGCTGGTTA
66 TGGTTGCAGTGGAGCTGGTTA
* *
59772799 AAGAA--AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCGTTGCCTTCAT
1 AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTTCAT
* *
59772862 TAGTTGCAGTAGAGCTGGTTA
66 TGGTTGCAGTGGAGCTGGTTA
* * *
59772883 AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCTAAGCAGATCAAAAACAAAGCCATGCCTTCAT
1 AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTTCAT
59772948 TGGTTGCAGTGGAGCTGGTTA
66 TGGTTGCAGTGGAGCTGGTTA
59772969 AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTTCAT
1 AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTTCAT
*
59773034 TGGTTACAGTGGAGCTGGTTA
66 TGGTTGCAGTGGAGCTGGTTA
* *
59773055 AAGAAGAAGATCTTGCCTTCCTACGTTAACAGCGAAGCAGATCG--AA-AAAGCCTTGCCTTCAT
1 AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTTCAT
*
59773117 TGGTTACAGTGGAGCTGGTTA
66 TGGTTGCAGTGGAGCTGGTTA
* * *
59773138 AAGAATCAGATCTTGCCTTACTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTTCAT
1 AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTTCAT
*
59773203 TGGTTGCAATGGAGCTGGTTA
66 TGGTTGCAGTGGAGCTGGTTA
* * *
59773224 AAGAAGCAGATCTTGCATTCCTGCATTAACAACGAAGCAGATCGAAAACAAAGCCTTGCCTTCAT
1 AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTTCAT
* * * *
59773289 TGGTTGCAATAGAGCTAGTTG
66 TGGTTGCAGTGGAGCTGGTTA
* *
59773310 AAGATAGCAGATCTTGCCTTCCTGCGTTAACAACGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
1 AAGA-AGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTTCA
*
59773375 TCGGTTGCAGTGGAG
65 TTGGTTGCAGTGGAG
59773390 TAGATTGAAG
Statistics
Matches: 624, Mismatches: 41, Indels: 17
0.91 0.06 0.02
Matches are distributed among these distances:
81 36 0.06
83 118 0.19
84 42 0.07
85 2 0.00
86 357 0.57
87 69 0.11
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (86 bp):
AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTTCAT
TGGTTGCAGTGGAGCTGGTTA
Found at i:59773203 original size:255 final size:257
Alignment explanation
Indices: 59772630--59773389 Score: 1192
Period size: 255 Copynumber: 3.0 Consensus size: 257
59772620 CAGATCAGTG
*
59772630 AAGAAGCAGATCTTGCATTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTTCAT
1 AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTTCAT
*
59772695 TGGTTACAGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCG
66 TGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCG
*
59772760 --AA-AAAGTCTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAG-A-AAGATCTTGCCTTCCTG
131 AAAACAAAGCCTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGAAGAAGATCTTGCCTTCCTG
* * * *
59772820 CATTAACAGCGAAGCAGATCGAAAACAAAGCGTTGCCTTCATTAGTTGCAGTAGAGCTGGTTA
196 CGTTAACAGCGAAGCAGATCG-AAACAAAGCCTTGCCTTCATTGGTTGCAGTGGAGCTGGTTA
* * *
59772883 AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCTAAGCAGATCAAAAACAAAGCCATGCCTTCAT
1 AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTTCAT
59772948 TGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCG
66 TGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCG
* *
59773013 AAAACAAAGCCTTGCCTTCATTGGTTACAGTGGAGCTGGTTAAAGAAGAAGATCTTGCCTTCCTA
131 AAAACAAAGCCTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGAAGAAGATCTTGCCTTCCTG
*
59773078 CGTTAACAGCGAAGCAGATCG-AA-AAAGCCTTGCCTTCATTGGTTACAGTGGAGCTGGTTA
196 CGTTAACAGCGAAGCAGATCGAAACAAAGCCTTGCCTTCATTGGTTGCAGTGGAGCTGGTTA
* * *
59773138 AAGAATCAGATCTTGCCTTACTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTTCAT
1 AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTTCAT
* * * *
59773203 TGGTTGCAATGGAGCTGGTTAAAGAAGCAGATCTTGCATTCCTGCATTAACAACGAAGCAGATCG
66 TGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCG
* * * * *
59773268 AAAACAAAGCCTTGCCTTCATTGGTTGCAATAGAGCTAGTTGAAGATAGCAGATCTTGCCTTCCT
131 AAAACAAAGCCTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGA-AGAAGATCTTGCCTTCCT
* * *
59773333 GCGTTAACAACGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAG
195 GCGTTAACAGCGAAGCAGATCG-AAACAAAGCCTTGCCTTCATTGGTTGCAGTGGAG
59773390 TAGATTGAAG
Statistics
Matches: 464, Mismatches: 34, Indels: 12
0.91 0.07 0.02
Matches are distributed among these distances:
253 125 0.27
255 196 0.42
256 77 0.17
257 1 0.00
258 38 0.08
259 27 0.06
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (257 bp):
AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTTCAT
TGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCG
AAAACAAAGCCTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGAAGAAGATCTTGCCTTCCTG
CGTTAACAGCGAAGCAGATCGAAACAAAGCCTTGCCTTCATTGGTTGCAGTGGAGCTGGTTA
Found at i:59774113 original size:46 final size:45
Alignment explanation
Indices: 59773830--59774554 Score: 379
Period size: 46 Copynumber: 16.6 Consensus size: 45
59773820 TAAAACCAAG
* * * *
59773830 GATCTTATCTCTCTGAAGTTACAGTAGAGCAGATC---G-CACCA
1 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGACATCA
* * * * * * ** *
59773871 GGTCTTATTTCCCTGAGATTACAGTGTACCAGACCGATTACTTTCA
1 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAC-ATCA
* *
59773917 GATCTTATCTCCCTGAGGTTACAGCGGATG-AGATCGGAGACAT-A
1 GATCTTATCTCCCTGAGGTTACAGTGGA-GCAGATCGAAGACATCA
* * * * *
59773961 -ATCCTATCT-CCTGAAGTTACAGTGGAGCGGAT-TAA-A-ATAAA
1 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGACAT-CA
* * * * *
59774002 GGATCTTATCTCTCTGAAGTTACAGTAGAACAGATC---G-CACCA
1 -GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGACATCA
* * * * * *
59774044 GGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGACTTTCA
1 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAC-ATCA
* *
59774090 GATCTTATTTCCCTGAGGTTACAGCGGAGCAGATCGAAGACAT-A
1 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGACATCA
* * * * * * **
59774134 -ATCCTATCTCCCTGAAGTTACAGTGGAGCGGAT-TAAAATAAAA
1 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGACATCA
* * * *
59774177 GGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATC---G-CACCA
1 -GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGACATCA
* * * *
59774219 GGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGACTTTCA
1 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAC-ATCA
* *
59774265 GATCTTATCCCCCTGAGGTTACAGCGGAGCAGATCGAAGACAT-A
1 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGACATCA
* * * * *
59774309 -ATCCTATCTCCCTGAAGTTACAGTGGAGCGGAT-TAA-A-ATAAA
1 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGACAT-CA
* * * * *
59774351 GGATCTTACCTCTCTGAAGTTACAGTAGAGCAGATC----ACACCA
1 -GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGACATCA
* * * * * *
59774393 GGTCTTATCTCCCTGATGATACAGTAGAGTAGACCGAAGA-ATTTCA
1 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGACA--TCA
* *
59774439 GATCTTATCCCCCTGAGGTTACAGCGGAGCAGATCGAAGACA-C-
1 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGACATCA
* * * * * * *
59774482 TATCCTATCTCCCTGAAGTTACAGCGGAGCGGAT-TAAAACCA-CA
1 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGA-CATCA
* * *
59774526 GAGCTTATCTCCCTGAAGTTGCAGTGGAG
1 GATCTTATCTCCCTGAGGTTACAGTGGAG
59774555 TAAATTAAAA
Statistics
Matches: 517, Mismatches: 123, Indels: 85
0.71 0.17 0.12
Matches are distributed among these distances:
39 2 0.00
40 3 0.01
41 115 0.22
42 33 0.06
43 107 0.21
44 78 0.15
45 36 0.07
46 142 0.27
47 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (45 bp):
GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGACATCA
Found at i:59774447 original size:174 final size:174
Alignment explanation
Indices: 59773817--59774520 Score: 1146
Period size: 174 Copynumber: 4.0 Consensus size: 174
59773807 GATCGCATCA
** *
59773817 GATTAAAACCAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCAGGTCTTATTTC
1 GATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCAGGTCTTATCTC
* * ** *
59773882 CCTGAGATTACAGTGTACCAGACCGATTACTTTCAGATCTTATCTCCCTGAGGTTACAGCGGATG
66 CCTGAGATTACAGTGGAGCAGACCGAAGACTTTCAGATCTTATCCCCCTGAGGTTACAGCGGA-G
*
59773947 -AGATCGGAGACATAATCCTATCT-CCTGAAGTTACAGTGGAGCG
130 CAGATCGAAGACATAATCCTATCTCCCTGAAGTTACAGTGGAGCG
* *
59773990 GATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAACAGATCGCACCAGGTCTTATTTC
1 GATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCAGGTCTTATCTC
* **
59774055 CCTGAGATTACAGTGGAACAGACCGAAGACTTTCAGATCTTATTTCCCTGAGGTTACAGCGGAGC
66 CCTGAGATTACAGTGGAGCAGACCGAAGACTTTCAGATCTTATCCCCCTGAGGTTACAGCGGAGC
59774120 AGATCGAAGACATAATCCTATCTCCCTGAAGTTACAGTGGAGCG
131 AGATCGAAGACATAATCCTATCTCCCTGAAGTTACAGTGGAGCG
59774164 GATTAAAATAAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCAGGTCTTATCT
1 GATTAAAAT-AAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCAGGTCTTATCT
* *
59774229 CCCTGAGGTTACAGTGGAGTAGACCGAAGACTTTCAGATCTTATCCCCCTGAGGTTACAGCGGAG
65 CCCTGAGATTACAGTGGAGCAGACCGAAGACTTTCAGATCTTATCCCCCTGAGGTTACAGCGGAG
59774294 CAGATCGAAGACATAATCCTATCTCCCTGAAGTTACAGTGGAGCG
130 CAGATCGAAGACATAATCCTATCTCCCTGAAGTTACAGTGGAGCG
* *
59774339 GATTAAAATAAAGGATCTTACCTCTCTGAAGTTACAGTAGAGCAGATCACACCAGGTCTTATCTC
1 GATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCAGGTCTTATCTC
* * *
59774404 CCTGATGA-TACAGTAGAGTAGACCGAAGAATTTCAGATCTTATCCCCCTGAGGTTACAGCGGAG
66 CCTGA-GATTACAGTGGAGCAGACCGAAGACTTTCAGATCTTATCCCCCTGAGGTTACAGCGGAG
*
59774468 CAGATCGAAGACACT-ATCCTATCTCCCTGAAGTTACAGCGGAGCG
130 CAGATCGAAGACA-TAATCCTATCTCCCTGAAGTTACAGTGGAGCG
59774513 GATTAAAA
1 GATTAAAA
59774521 CCACAGAGCT
Statistics
Matches: 504, Mismatches: 22, Indels: 9
0.94 0.04 0.02
Matches are distributed among these distances:
172 1 0.00
173 142 0.28
174 192 0.38
175 169 0.34
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (174 bp):
GATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCAGGTCTTATCTC
CCTGAGATTACAGTGGAGCAGACCGAAGACTTTCAGATCTTATCCCCCTGAGGTTACAGCGGAGC
AGATCGAAGACATAATCCTATCTCCCTGAAGTTACAGTGGAGCG
Found at i:59774472 original size:349 final size:348
Alignment explanation
Indices: 59773827--59774520 Score: 1151
Period size: 349 Copynumber: 2.0 Consensus size: 348
59773817 GATTAAAACC
*
59773827 AAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCAGGTCTTATTTCCCTGAGATTA
1 AAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCAGGTCTTATCTCCCTGAGATTA
* ** * *
59773892 CAGTGTACCAGACCGATTACTTTCAGATCTTATCTCCCTGAGGTTACAGCGGATGAGATCGGAGA
66 CAGTGGACCAGACCGAAGACTTTCAGATCTTATCCCCCTGAGGTTACAGCGGATGAGATCGAAGA
*
59773957 CATAATCCTATCTCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
131 CATAATCCTATCTCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTACCTCTCTGAAGT
* * * *
59774022 TACAGTAGAACAGATCGCACCAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGACTT
196 TACAGTAGAACAGATCACACCAGGTCTTATCTCCCTGAGATTACAGTAGAACAGACCGAAGAATT
**
59774087 TCAGATCTTATTTCCCTGAGGTTACAGCGGAGCAGATCGAAGACA-TAATCCTATCTCCCTGAAG
261 TCAGATCTTATCCCCCTGAGGTTACAGCGGAGCAGATCGAAGACACT-ATCCTATCTCCCTGAAG
*
59774151 TTACAGTGGAGCGGATTAAAATAA
325 TTACAGCGGAGCGGATTAAAATAA
*
59774175 AAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCAGGTCTTATCTCCCTGAGGTTA
1 AAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCAGGTCTTATCTCCCTGAGATTA
**
59774240 CAGTGGAGTAGACCGAAGACTTTCAGATCTTATCCCCCTGAGGTTACAGCGGA-GCAGATCGAAG
66 CAGTGGACCAGACCGAAGACTTTCAGATCTTATCCCCCTGAGGTTACAGCGGATG-AGATCGAAG
59774304 ACATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTACCTCTCTGAA
130 ACATAATCCTATCT-CCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTACCTCTCTGAA
* **
59774369 GTTACAGTAGAGCAGATCACACCAGGTCTTATCTCCCTGATGA-TACAGTAGAGTAGACCGAAGA
194 GTTACAGTAGAACAGATCACACCAGGTCTTATCTCCCTGA-GATTACAGTAGAACAGACCGAAGA
59774433 ATTTCAGATCTTATCCCCCTGAGGTTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGA
258 ATTTCAGATCTTATCCCCCTGAGGTTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGA
59774498 AGTTACAGCGGAGCGGATTAAAA
323 AGTTACAGCGGAGCGGATTAAAA
59774521 CCACAGAGCT
Statistics
Matches: 322, Mismatches: 20, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
347 1 0.00
348 132 0.41
349 186 0.58
350 3 0.01
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (348 bp):
AAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCAGGTCTTATCTCCCTGAGATTA
CAGTGGACCAGACCGAAGACTTTCAGATCTTATCCCCCTGAGGTTACAGCGGATGAGATCGAAGA
CATAATCCTATCTCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTACCTCTCTGAAGT
TACAGTAGAACAGATCACACCAGGTCTTATCTCCCTGAGATTACAGTAGAACAGACCGAAGAATT
TCAGATCTTATCCCCCTGAGGTTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGT
TACAGCGGAGCGGATTAAAATAA
Found at i:59774533 original size:87 final size:86
Alignment explanation
Indices: 59773915--59774541 Score: 448
Period size: 87 Copynumber: 7.2 Consensus size: 86
59773905 CGATTACTTT
* *
59773915 CAGATCTTATCTCCCTGAGGTTACAGCGGATG-AGATCGGAGACATAATCCTATCT-CCTGAAGT
1 CAGATCTTATCCCCCTGAGGTTACAGCGGA-GCAGATCGAAGACAT-ATCCTATCTCCCTGAAGT
59773978 TACAGTGGAGCGGATTAAAA-TA
64 TACAGTGGAGCGGATTAAAACTA
* * * * ** * * * ** * *
59774000 AAGGATCTTATCTCTCTGAAGTTACAGTAGAACAGATCGCA-CCAGGTCTTATTTCCCTG-AGAT
1 CA-GATCTTATCCCCCTGAGGTTACAGCGGAGCAGATCGAAGACATATCCTATCTCCCTGAAG-T
* * ** * *
59774063 TACAGTGGAACAGACCGAAGACTTT
64 TACAGTGGAGCGGA-TTAAAAC-TA
**
59774088 CAGATCTTATTTCCCTGAGGTTACAGCGGAGCAGATCGAAGACATAATCCTATCTCCCTGAAGTT
1 CAGATCTTATCCCCCTGAGGTTACAGCGGAGCAGATCGAAGACAT-ATCCTATCTCCCTGAAGTT
59774153 ACAGTGGAGCGGATTAAAA-TAA
65 ACAGTGGAGCGGATTAAAACT-A
* * * * ** * * ** * *
59774175 AAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCA-CCAGGTCTTATCTCCCTGAGGTT
1 CA-GATCTTATCCCCCTGAGGTTACAGCGGAGCAGATCGAAGACATATCCTATCTCCCTGAAGTT
** ** * *
59774239 ACAGTGGAGTAGACCGAAGACTTT
65 ACAGTGGAGCGGA-TTAAAAC-TA
59774263 CAGATCTTATCCCCCTGAGGTTACAGCGGAGCAGATCGAAGACATAATCCTATCTCCCTGAAGTT
1 CAGATCTTATCCCCCTGAGGTTACAGCGGAGCAGATCGAAGACAT-ATCCTATCTCCCTGAAGTT
59774328 ACAGTGGAGCGGATTAAAA-TA
65 ACAGTGGAGCGGATTAAAACTA
* * * ** * ** * *
59774349 AAGGATCTTA-CCTCTCTGAAGTTACAGTAGAGCAGATC-ACA-CCAGGTCTTATCTCCCTGATG
1 CA-GATCTTATCC-CCCTGAGGTTACAGCGGAGCAGATCGA-AGACATATCCTATCTCCCTGAAG
* * ** ** * *
59774411 ATACAGTAGAGTAGACCGAAGAATTT
63 TTACAGTGGAGCGGA-TTAA-AACTA
59774437 CAGATCTTATCCCCCTGAGGTTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTT
1 CAGATCTTATCCCCCTGAGGTTACAGCGGAGCAGATCGAAGACA-TATCCTATCTCCCTGAAGTT
* *
59774502 ACAGCGGAGCGGATTAAAACCA
65 ACAGTGGAGCGGATTAAAACTA
* *
59774524 CAGAGCTTATCTCCCTGA
1 CAGATCTTATCCCCCTGA
59774542 AGTTGCAGTG
Statistics
Matches: 403, Mismatches: 112, Indels: 52
0.71 0.20 0.09
Matches are distributed among these distances:
84 8 0.02
85 45 0.11
86 71 0.18
87 147 0.36
88 54 0.13
89 76 0.19
90 2 0.00
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (86 bp):
CAGATCTTATCCCCCTGAGGTTACAGCGGAGCAGATCGAAGACATATCCTATCTCCCTGAAGTTA
CAGTGGAGCGGATTAAAACTA
Found at i:59775955 original size:3 final size:3
Alignment explanation
Indices: 59775947--59776019 Score: 128
Period size: 3 Copynumber: 24.3 Consensus size: 3
59775937 TTCAGTAGTT
59775947 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
59775995 TTA TTA TTA TTA TTA CTA TCA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
59776020 ATTTATACTT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 66 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:59776401 original size:16 final size:15
Alignment explanation
Indices: 59776376--59776410 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
59776366 AAGTATACAC
*
59776376 ATATATACATACTTTT
1 ATATACACAT-CTTTT
59776392 ATATACACATCTTTT
1 ATATACACATCTTTT
59776407 ATAT
1 ATAT
59776411 TTCCATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.37, C:0.14, G:0.00, T:0.49
Consensus pattern (15 bp):
ATATACACATCTTTT
Found at i:59776878 original size:109 final size:109
Alignment explanation
Indices: 59776687--59776982 Score: 387
Period size: 109 Copynumber: 2.6 Consensus size: 109
59776677 AAATATTTCT
59776687 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACACGCCCTAAGGTGCTGGGTGTCGATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACACGCCCTAAGGTGCTGGGTGTCGATT
59776752 TTTCTCATTCAACCAAATGGCTTAATATCCTTTAAAAAAATTCA
66 TTTCTCATTCAACCAAATGGCTTAATATCCTTTAAAAAAATTCA
* *
59776796 AAATATGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACACGCCCTAAGGTGCTGGGTGTTGATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACACGCCCTAAGGTGCTGGGTGTCGATT
*
59776861 TTTCTCGTTCAACCAAATGGCTTAATATCCTTTTTTAAAAAATATATATATATTTCA
66 TTTCTCATTCAACCAAATGGCTTAATATCC---TTT----AA-A-A-A-A-A-TTCA
* * ** * *
59776918 AAATAAGGCAATGTTTTGCCTTTGGAAATTCGAG-GAACGTGCCCTAATGTGCTGGGTTTCGATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACACGCCCTAAGGTGCTGGGTGTCGATT
59776982 T
66 T
59776983 CTTGTTTAAC
Statistics
Matches: 163, Mismatches: 11, Indels: 14
0.87 0.06 0.07
Matches are distributed among these distances:
109 92 0.56
112 3 0.02
116 2 0.01
117 1 0.01
118 1 0.01
119 1 0.01
120 1 0.01
121 26 0.16
122 36 0.22
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (109 bp):
AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACACGCCCTAAGGTGCTGGGTGTCGATT
TTTCTCATTCAACCAAATGGCTTAATATCCTTTAAAAAAATTCA
Found at i:59781904 original size:21 final size:20
Alignment explanation
Indices: 59781878--59781917 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
59781868 GACTTTTATA
*
59781878 GTTATTATTATTGTTGTTTTT
1 GTTATTATTATGGTT-TTTTT
*
59781899 GTTATTTTTATGGTTTTTT
1 GTTATTATTATGGTTTTTT
59781918 ATTATTTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.12, C:0.00, G:0.15, T:0.72
Consensus pattern (20 bp):
GTTATTATTATGGTTTTTTT
Found at i:59783615 original size:15 final size:14
Alignment explanation
Indices: 59783561--59783616 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
59783551 TAACAATATA
59783561 GTAATAATAATAA-
1 GTAATAATAATAAG
59783574 GTACATAAATAATAAGG
1 GTA-AT-AATAATAA-G
59783591 GTAA-AATAATAATG
1 GTAATAATAATAA-G
59783605 GTAATAATAATA
1 GTAATAATAATA
59783617 TTAATTTAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
13 3 0.08
14 15 0.41
15 15 0.41
16 1 0.03
17 3 0.08
ACGTcount: A:0.57, C:0.02, G:0.12, T:0.29
Consensus pattern (14 bp):
GTAATAATAATAAG
Found at i:59784332 original size:4 final size:4
Alignment explanation
Indices: 59784325--59784350 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
59784315 AAAAAAGGGA
59784325 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
59784351 GAAATCAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:59800628 original size:3 final size:3
Alignment explanation
Indices: 59800620--59800651 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
59800610 AGGCAACCCA
*
59800620 TCT TCT TCT TCT TCT TCT TCT TCA TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
59800652 ACTTGGTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.03, C:0.34, G:0.00, T:0.62
Consensus pattern (3 bp):
TCT
Found at i:59801991 original size:24 final size:22
Alignment explanation
Indices: 59801964--59802013 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
59801954 AATGTGTACG
* *
59801964 ATTAAATTAAAAATTATGTATATA
1 ATTAAA-TAAAAATAATATAT-TA
59801988 ATTAAATAAAAATAATATATTA
1 ATTAAATAAAAATAATATATTA
59802010 ATTA
1 ATTA
59802014 TGTCAAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 6 0.25
23 12 0.50
24 6 0.25
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
ATTAAATAAAAATAATATATTA
Found at i:59802668 original size:18 final size:18
Alignment explanation
Indices: 59802615--59802672 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 18
59802605 TTTTATTGGA
*
59802615 TTTTAAAATTTTTATGTAT
1 TTTTAAAATTTTTAAG-AT
* *
59802634 TTTTTAATTTTATTAAGAT
1 TTTTAAAATTT-TTAAGAT
*
59802653 TTTTAAAATTTGTAAGAT
1 TTTTAAAATTTTTAAGAT
59802671 TT
1 TT
59802673 ACTTGAAAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
18 8 0.25
19 20 0.62
20 4 0.12
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (18 bp):
TTTTAAAATTTTTAAGAT
Found at i:59802717 original size:18 final size:17
Alignment explanation
Indices: 59802680--59802720 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
59802670 TTTACTTGAA
59802680 AATTTTATTATTTTTGG
1 AATTTTATTATTTTTGG
59802697 AATTTATATATATTTTT-G
1 AATTT-TAT-TATTTTTGG
59802715 AATTTT
1 AATTTT
59802721 TTTAAAATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 6 0.27
18 9 0.41
19 7 0.32
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.63
Consensus pattern (17 bp):
AATTTTATTATTTTTGG
Found at i:59804914 original size:20 final size:22
Alignment explanation
Indices: 59804876--59804923 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 22
59804866 CTCTCTCAAT
59804876 AAAAATTACAAAAAGAATTTTC
1 AAAAATTACAAAAAGAATTTTC
* *
59804898 AAAAATT-C-AAAATAATTTTT
1 AAAAATTACAAAAAGAATTTTC
59804918 AAAAAT
1 AAAAAT
59804924 CACATTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 16 0.67
21 1 0.04
22 7 0.29
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.31
Consensus pattern (22 bp):
AAAAATTACAAAAAGAATTTTC
Found at i:59813153 original size:11 final size:11
Alignment explanation
Indices: 59813123--59813160 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
59813113 TGACTTAATT
*
59813123 TAATATATAT-
1 TAATATATTTA
59813133 TAAT-TATTTA
1 TAATATATTTA
59813143 TAATATATTTA
1 TAATATATTTA
59813154 TAATATA
1 TAATATA
59813161 AAATATATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
9 4 0.16
10 8 0.32
11 13 0.52
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
TAATATATTTA
Found at i:59817227 original size:56 final size:56
Alignment explanation
Indices: 59817129--59817263 Score: 180
Period size: 56 Copynumber: 2.4 Consensus size: 56
59817119 GGTATTTATG
* * **
59817129 ATCTTTTAGCAATTTGATTCCTAATGGGATATTATAGGATATTACTATGGAATATT
1 ATCTTTTAGCAATTTGATTCCTAATGAGATATTACAAAATATTACTATGGAATATT
* * * *
59817185 ATCTCTTAGCAATTTGATTCCTAATGAGATGTTACAAAATATTATTATGGTATATT
1 ATCTTTTAGCAATTTGATTCCTAATGAGATATTACAAAATATTACTATGGAATATT
* *
59817241 ATCTTTTGGTAATTTGATTCCTA
1 ATCTTTTAGCAATTTGATTCCTA
59817264 TATAATTATT
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
56 68 1.00
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.44
Consensus pattern (56 bp):
ATCTTTTAGCAATTTGATTCCTAATGAGATATTACAAAATATTACTATGGAATATT
Found at i:59834154 original size:23 final size:23
Alignment explanation
Indices: 59834112--59834155 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
59834102 GTAAAACCGA
*
59834112 ATAATTGTCACATGTTTATTACC
1 ATAATTGTCACATGTATATTACC
59834135 ATAATTG-CACATGTAATATTA
1 ATAATTGTCACATGT-ATATTA
59834156 TTAACCTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (23 bp):
ATAATTGTCACATGTATATTACC
Found at i:59838059 original size:29 final size:29
Alignment explanation
Indices: 59837989--59838057 Score: 120
Period size: 29 Copynumber: 2.3 Consensus size: 29
59837979 CGAAGTTTTG
59837989 AAACCAAATTTAAAGATGGGAATTAAATA
1 AAACCAAATTTAAAGATGGGAATTAAATA
59838018 AAACCAAATTTAAAGATGGGAATTAAATA
1 AAACCAAATTTAAAGATGGGAATTAAATA
*
59838047 AGGACCAAATT
1 A-AACCAAATT
59838058 AAGATGCGCG
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
29 30 0.79
30 8 0.21
ACGTcount: A:0.54, C:0.09, G:0.14, T:0.23
Consensus pattern (29 bp):
AAACCAAATTTAAAGATGGGAATTAAATA
Found at i:59839861 original size:45 final size:45
Alignment explanation
Indices: 59839796--59840555 Score: 580
Period size: 45 Copynumber: 17.1 Consensus size: 45
59839786 CACCATCTTT
* *
59839796 GATCTGCTTTCTTCGATCTACTTCGCCACTAGTATGGGAAGACAA
1 GATCTGCTTTCTTTGATCTACTTCGCCACCAGTATGGGAAGACAA
* * * * * ***
59839841 GATCTACTATCTTTGATCTACTTC-ACGCCAATACATGAAGACAA
1 GATCTGCTTTCTTTGATCTACTTCGCCACCAGTATGGGAAGACAA
*
59839885 GATCTGCTTTCTTGGATCTACTTCGCCACCAGTATGGGAAGACAA
1 GATCTGCTTTCTTTGATCTACTTCGCCACCAGTATGGGAAGACAA
* * * * ***
59839930 GATCTGCTATCTTTGATCTACTTC-ACGCCAATACATGAAGACAA
1 GATCTGCTTTCTTTGATCTACTTCGCCACCAGTATGGGAAGACAA
*
59839974 GATCTGCTTTCTTGGATCTACTTCGCCACCAGTATGGGAAGACAA
1 GATCTGCTTTCTTTGATCTACTTCGCCACCAGTATGGGAAGACAA
* * * ** * ***
59840019 GATCTACTATCTTTGATCTACTTC-ACGTCAATACATGAAGACAA
1 GATCTGCTTTCTTTGATCTACTTCGCCACCAGTATGGGAAGACAA
* * * *
59840063 TATCTGTTTTCTTGGATCTACTTCGCCACCAGTATGGGGAGACAA
1 GATCTGCTTTCTTTGATCTACTTCGCCACCAGTATGGGAAGACAA
* * * * * ***
59840108 GATCTACTATCTTTGATCTACTTC-ACGCCAATACATGAAGACAA
1 GATCTGCTTTCTTTGATCTACTTCGCCACCAGTATGGGAAGACAA
* *
59840152 GATCTGCTTTATTGGATCTACTTCGCCACCAGTATGGGAAGACAA
1 GATCTGCTTTCTTTGATCTACTTCGCCACCAGTATGGGAAGACAA
** * * * *
59840197 GATCTGCTTTCTTCAATCTACTCCACCACCAGTATGGGGAGATAA
1 GATCTGCTTTCTTTGATCTACTTCGCCACCAGTATGGGAAGACAA
* * * * * ***
59840242 TATCT-ATTGTATTTGATCTACTTC-ACGCC-GATACATGAAGACAA
1 GATCTGCTT-TCTTTGATCTACTTCGCCACCAG-TATGGGAAGACAA
* *
59840286 GA--T--TTT-TTCGATCTGCTTCGCCACCAGTATGGGAAGACAA
1 GATCTGCTTTCTTTGATCTACTTCGCCACCAGTATGGGAAGACAA
* * * * ***
59840326 GATCTGGTATCTTTGATCTACTTC-ACGCCAGTACATGAAGACAA
1 GATCTGCTTTCTTTGATCTACTTCGCCACCAGTATGGGAAGACAA
* *
59840370 GATCTGTTTTCTTTGATCTACTTCGCCACCAGTATAGGAAGACAA
1 GATCTGCTTTCTTTGATCTACTTCGCCACCAGTATGGGAAGACAA
* * * * *** * *
59840415 GATCTGGTATCTTTGATCTACTTC-ACGCCAGTACATGAAGATAT
1 GATCTGCTTTCTTTGATCTACTTCGCCACCAGTATGGGAAGACAA
* *
59840459 GATCCAT-TTTTCCTTCGATCTACTTCGCCACCAGTATGGGAAGACAA
1 GAT-C-TGCTTT-CTTTGATCTACTTCGCCACCAGTATGGGAAGACAA
* * * * ** * * *
59840506 GATCTG-TATATTCGATCCACTTCGCTGCCAATATAGGAAGACAG
1 GATCTGCTTTCTTTGATCTACTTCGCCACCAGTATGGGAAGACAA
59840550 GATCTG
1 GATCTG
59840556 TCGCTTTTCA
Statistics
Matches: 548, Mismatches: 148, Indels: 39
0.75 0.20 0.05
Matches are distributed among these distances:
39 11 0.02
40 16 0.03
41 3 0.01
42 2 0.00
43 1 0.00
44 239 0.44
45 245 0.45
46 15 0.03
47 16 0.03
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.31
Consensus pattern (45 bp):
GATCTGCTTTCTTTGATCTACTTCGCCACCAGTATGGGAAGACAA
Found at i:59840218 original size:89 final size:89
Alignment explanation
Indices: 59839796--59840201 Score: 740
Period size: 89 Copynumber: 4.6 Consensus size: 89
59839786 CACCATCTTT
* *
59839796 GATCTGCTTTCTTCGATCTACTTCGCCACTAGTATGGGAAGACAAGATCTACTATCTTTGATCTA
1 GATCTGCTTTCTTGGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTACTATCTTTGATCTA
59839861 CTTCACGCCAATACATGAAGACAA
66 CTTCACGCCAATACATGAAGACAA
*
59839885 GATCTGCTTTCTTGGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTA
1 GATCTGCTTTCTTGGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTACTATCTTTGATCTA
59839950 CTTCACGCCAATACATGAAGACAA
66 CTTCACGCCAATACATGAAGACAA
59839974 GATCTGCTTTCTTGGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTACTATCTTTGATCTA
1 GATCTGCTTTCTTGGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTACTATCTTTGATCTA
*
59840039 CTTCACGTCAATACATGAAGACAA
66 CTTCACGCCAATACATGAAGACAA
* * *
59840063 TATCTGTTTTCTTGGATCTACTTCGCCACCAGTATGGGGAGACAAGATCTACTATCTTTGATCTA
1 GATCTGCTTTCTTGGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTACTATCTTTGATCTA
59840128 CTTCACGCCAATACATGAAGACAA
66 CTTCACGCCAATACATGAAGACAA
*
59840152 GATCTGCTTTATTGGATCTACTTCGCCACCAGTATGGGAAGACAAGATCT
1 GATCTGCTTTCTTGGATCTACTTCGCCACCAGTATGGGAAGACAAGATCT
59840202 GCTTTCTTCA
Statistics
Matches: 304, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
89 304 1.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (89 bp):
GATCTGCTTTCTTGGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTACTATCTTTGATCTA
CTTCACGCCAATACATGAAGACAA
Found at i:59840282 original size:89 final size:88
Alignment explanation
Indices: 59840144--59840556 Score: 415
Period size: 89 Copynumber: 4.7 Consensus size: 88
59840134 GCCAATACAT
* * * * * * ***
59840144 GAAGACAAGATCTGCTTTATTGGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTTTCT
1 GAAGACAAGATCTGGTATCTTTGATCTACTTC-ACGCCAGTACATGAAGACAAGATCTG-TTTCT
* * *
59840209 TCAATCTACTCCACCACCAGTATGG
64 TCGATCTACTTCGCCACCAGTATGG
* * * ** * *
59840234 GGAGATAATATCTATTGTATTTGATCTACTTCACGCC-GATACATGAAGACAAGA--T-TTT-TT
1 GAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAG-TACATGAAGACAAGATCTGTTTCTT
*
59840294 CGATCTGCTTCGCCACCAGTATGG
65 CGATCTACTTCGCCACCAGTATGG
59840318 GAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTT
1 GAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTG-TTTCTT
* *
59840383 TGATCTACTTCGCCACCAGTATAG
65 CGATCTACTTCGCCACCAGTATGG
* * *
59840407 GAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGATATGATCCATTTTTCC
1 GAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGAT-C-TGTTT-C
59840472 TTCGATCTACTTCGCCACCAGTATGG
63 TTCGATCTACTTCGCCACCAGTATGG
* * * * * * * *
59840498 GAAGACAAGATCT-GTATATTCGATCCACTTCGCTGCCAATATAGGAAGACAGGATCTGT
1 GAAGACAAGATCTGGTATCTTTGATCTACTTCAC-GCCAGTACATGAAGACAAGATCTGT
59840557 CGCTTTTCAA
Statistics
Matches: 271, Mismatches: 41, Indels: 23
0.81 0.12 0.07
Matches are distributed among these distances:
84 67 0.25
85 4 0.01
86 1 0.00
87 1 0.00
88 4 0.01
89 93 0.34
90 46 0.17
91 55 0.20
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (88 bp):
GAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTCTTC
GATCTACTTCGCCACCAGTATGG
Found at i:59840285 original size:267 final size:267
Alignment explanation
Indices: 59839797--59840288 Score: 711
Period size: 267 Copynumber: 1.8 Consensus size: 267
59839787 ACCATCTTTG
*
59839797 ATCTGCTTTCTTCGATCTACTTCGCCACTAGTATGGGAAGACAAGATCTACTATCTTTGATCTAC
1 ATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTACTATCTTTGATCTAC
*
59839862 TTCACGCCAATACATGAAGACAAGATCTGCTTTCTTGGATCTACTTCGCCACCAGTATGGGAAGA
66 TTCACGCCAATACATGAAGACAAGATCTGCTTTATTGGATCTACTTCGCCACCAGTATGGGAAGA
** * * * * *
59839927 CAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTGGATC
131 CAAGATCTGCTATCTTCAATCTACTCCACACCAATACAGGAAGACAAGATCTGATTTATTGGATC
* **
59839992 TACTTCGCCACCAGTATGGGAAGACAAGATCTACTATCTTTGATCTACTTCACGTCAATACATGA
196 TACTTCACCACCAGTACAGGAAGACAAGATCTACTATCTTTGATCTACTTCACGTCAATACATGA
59840057 AGACAAT
261 AGACAAT
* * *
59840064 ATCTGTTTTCTTGGATCTACTTCGCCACCAGTATGGGGAGACAAGATCTACTATCTTTGATCTAC
1 ATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTACTATCTTTGATCTAC
59840129 TTCACGCCAATACATGAAGACAAGATCTGCTTTATTGGATCTACTTCGCCACCAGTATGGGAAGA
66 TTCACGCCAATACATGAAGACAAGATCTGCTTTATTGGATCTACTTCGCCACCAGTATGGGAAGA
* * ** * * * *
59840194 CAAGATCTGCTTTCTTCAATCTACTCCACCACCAGTATGGGGAGATAATATCT-ATTGTATTTGA
131 CAAGATCTGCTATCTTCAATCTACTCCA-CACCAATACAGGAAGACAAGATCTGATT-TATTGGA
* *
59840258 TCTACTTCA-CGCC-GATACATGAAGACAAGAT
194 TCTACTTCACCACCAG-TACAGGAAGACAAGAT
59840289 TTTTTCGATC
Statistics
Matches: 197, Mismatches: 25, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
266 1 0.01
267 167 0.85
268 29 0.15
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (267 bp):
ATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTACTATCTTTGATCTAC
TTCACGCCAATACATGAAGACAAGATCTGCTTTATTGGATCTACTTCGCCACCAGTATGGGAAGA
CAAGATCTGCTATCTTCAATCTACTCCACACCAATACAGGAAGACAAGATCTGATTTATTGGATC
TACTTCACCACCAGTACAGGAAGACAAGATCTACTATCTTTGATCTACTTCACGTCAATACATGA
AGACAAT
Found at i:59840286 original size:178 final size:178
Alignment explanation
Indices: 59839796--59840288 Score: 587
Period size: 178 Copynumber: 2.8 Consensus size: 178
59839786 CACCATCTTT
* * * **
59839796 GATCTGCTTTCTTCGATCTACTTCGCCACTAGTATGGGAAGACAAGATCTACTATCTTTGATCTA
1 GATCTGCTTTATTGGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTACTATCTTCAATCTA
* * * * * * * **
59839861 CTTCACGCCAATACATGAAGACAAGATCTGCTT-TCTTGGATCTACTTCGCCACCAGTATGGGAA
66 CTCCACACCAATACAGGAAGACAATATCT-ATTGTATTGGATCTACTTCACCACCAGTACAGGAA
*
59839925 GACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAA
130 GACAAGATCTACTATCTTTGATCTACTTCACGCCAATACATGAAGACAA
* **
59839974 GATCTGCTTTCTTGGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTACTATCTTTGATCTA
1 GATCTGCTTTATTGGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTACTATCTTCAATCTA
* ** * * * * * ** *
59840039 CTTCACGTCAATACATGAAGACAATATCTGTTTTCTTGGATCTACTTCGCCACCAGTATGGGGAG
66 CTCCACACCAATACAGGAAGACAATATCTATTGTATTGGATCTACTTCACCACCAGTACAGGAAG
59840104 ACAAGATCTACTATCTTTGATCTACTTCACGCCAATACATGAAGACAA
131 ACAAGATCTACTATCTTTGATCTACTTCACGCCAATACATGAAGACAA
* *
59840152 GATCTGCTTTATTGGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTTTCTTCAATCTA
1 GATCTGCTTTATTGGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTACTATCTTCAATCTA
* ** * * * * *
59840217 CTCCACCACCAGTATGGGGAGATAATATCTATTGTATTTGATCTACTTCA-CGCC-GATACATGA
66 CTCCA-CACCAATACAGGAAGACAATATCTATTGTATTGGATCTACTTCACCACCAG-TACAGGA
59840280 AGACAAGAT
129 AGACAAGAT
59840289 TTTTTCGATC
Statistics
Matches: 281, Mismatches: 31, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
177 3 0.01
178 247 0.88
179 31 0.11
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (178 bp):
GATCTGCTTTATTGGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTACTATCTTCAATCTA
CTCCACACCAATACAGGAAGACAATATCTATTGTATTGGATCTACTTCACCACCAGTACAGGAAG
ACAAGATCTACTATCTTTGATCTACTTCACGCCAATACATGAAGACAA
Found at i:59841881 original size:44 final size:42
Alignment explanation
Indices: 59841811--59841895 Score: 118
Period size: 44 Copynumber: 2.0 Consensus size: 42
59841801 AGCCTCTCCA
*
59841811 TTTTTTTACTCAAGGCTCCCTTTGTAGGGTTTCACCCTGGTT
1 TTTTTTTACTCAAGGCTCCATTTGTAGGGTTTCACCCTGGTT
*
59841853 TTTTTTTGACTCAAAGAGC-CCATTTGTAGGGTTTCACCTTGGT
1 TTTTTTT-ACTC-AAG-GCTCCATTTGTAGGGTTTCACCCTGGT
59841896 CCCACCTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
42 7 0.18
43 4 0.11
44 25 0.66
45 2 0.05
ACGTcount: A:0.15, C:0.21, G:0.20, T:0.44
Consensus pattern (42 bp):
TTTTTTTACTCAAGGCTCCATTTGTAGGGTTTCACCCTGGTT
Found at i:59848270 original size:15 final size:15
Alignment explanation
Indices: 59848233--59848275 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
59848223 AATCATATAT
* *
59848233 ATATTATTAATAAAA
1 ATATAATTATTAAAA
*
59848248 TTATTAATTATTAAAA
1 ATA-TAATTATTAAAA
59848264 ATATAATTATTA
1 ATATAATTATTA
59848276 CCAAAATTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 11 0.48
16 12 0.52
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATATAATTATTAAAA
Found at i:59848272 original size:19 final size:19
Alignment explanation
Indices: 59848235--59848272 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
59848225 TCATATATAT
*
59848235 ATTATTAATAAAATTATTA
1 ATTATTAATAAAATAATTA
59848254 ATTATTAA-AAATATAATTA
1 ATTATTAATAAA-ATAATTA
59848273 TTACCAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTATTAATAAAATAATTA
Found at i:59858049 original size:2 final size:2
Alignment explanation
Indices: 59858042--59858084 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
59858032 AATTTTAGTA
*
59858042 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
59858084 A
1 A
59858085 AATTCTTCAC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:59865630 original size:25 final size:25
Alignment explanation
Indices: 59865525--59865633 Score: 89
Period size: 25 Copynumber: 4.4 Consensus size: 25
59865515 TGGACACACC
* *
59865525 ACAGCTCGTATGAGCTT-CTCAATTT
1 ACAGCTCATATGAGCTTCCT-GATTT
* * *
59865550 ACAACTCATATAAGCTTCCCT-ATAT
1 ACAGCTCATATGAGCTT-CCTGATTT
59865575 ACAGCTCATATGAGCTTCCTGATTT
1 ACAGCTCATATGAGCTTCCTGATTT
** * *
59865600 GTAGCTCGTATGAGCTTTCTG-TTT
1 ACAGCTCATATGAGCTTCCTGATTT
59865624 CACAGCTCAT
1 -ACAGCTCAT
59865634 GAGAGCATAT
Statistics
Matches: 66, Mismatches: 14, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
24 6 0.09
25 58 0.88
27 2 0.03
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.36
Consensus pattern (25 bp):
ACAGCTCATATGAGCTTCCTGATTT
Found at i:59865664 original size:25 final size:26
Alignment explanation
Indices: 59865601--59865667 Score: 68
Period size: 25 Copynumber: 2.7 Consensus size: 26
59865591 TCCTGATTTG
* *
59865601 TAGCTCGTATGAGC-TTTCTGTTTCA
1 TAGCTCGTATGAGCATATCTGATTCA
* *
59865626 CAGCTCATGA-GAGCATAT-TGATTCA
1 TAGCTCGT-ATGAGCATATCTGATTCA
59865651 TAGCTCGTATGAGCATA
1 TAGCTCGTATGAGCATA
59865668 CATGAATATG
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
24 1 0.03
25 29 0.88
26 3 0.09
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.34
Consensus pattern (26 bp):
TAGCTCGTATGAGCATATCTGATTCA
Found at i:59871260 original size:59 final size:59
Alignment explanation
Indices: 59871168--59871286 Score: 238
Period size: 59 Copynumber: 2.0 Consensus size: 59
59871158 ATATAATGAT
59871168 AGTTTTCAATCGAGCATAAAGATGGAACTGTATATGGCTCTGTATGGTCACAAATGTCG
1 AGTTTTCAATCGAGCATAAAGATGGAACTGTATATGGCTCTGTATGGTCACAAATGTCG
59871227 AGTTTTCAATCGAGCATAAAGATGGAACTGTATATGGCTCTGTATGGTCACAAATGTCG
1 AGTTTTCAATCGAGCATAAAGATGGAACTGTATATGGCTCTGTATGGTCACAAATGTCG
59871286 A
1 A
59871287 ACTCTATTAT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (59 bp):
AGTTTTCAATCGAGCATAAAGATGGAACTGTATATGGCTCTGTATGGTCACAAATGTCG
Found at i:59872970 original size:24 final size:24
Alignment explanation
Indices: 59872955--59873006 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
59872945 AATCAATGTC
59872955 AAATATATTATACTAATAAATGCT
1 AAATATATTATACTAATAAATGCT
* *
59872979 AAATATATTATACTAATAAGTACT
1 AAATATATTATACTAATAAATGCT
59873003 AAAT
1 AAAT
59873007 CTTCTAGATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.52, C:0.08, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATGCT
Found at i:59875099 original size:2 final size:2
Alignment explanation
Indices: 59875092--59875117 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
59875082 ATTAAGCCAT
59875092 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
59875118 AATCATTCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:59876789 original size:2 final size:2
Alignment explanation
Indices: 59876784--59876815 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
59876774 TCTAACACAC
59876784 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
59876816 TTCATCAACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:59888203 original size:15 final size:16
Alignment explanation
Indices: 59888183--59888217 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
59888173 AGTCATTTCA
59888183 TATTTAAA-TAATTTT
1 TATTTAAATTAATTTT
59888198 TATTTAAATTAATTTT
1 TATTTAAATTAATTTT
59888214 TATT
1 TATT
59888218 CGAGTTATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TATTTAAATTAATTTT
Found at i:59896099 original size:26 final size:25
Alignment explanation
Indices: 59896065--59896145 Score: 85
Period size: 26 Copynumber: 3.2 Consensus size: 25
59896055 TGGCTATCCA
59896065 GAGC-TCCTGATTAAAGGCTCTTCGT
1 GAGCTTCCTGATTAAAGGCTCTT-GT
* *
59896090 GAGCTTCCTGATTAAAAGTTCTTTGT
1 GAGCTTCCTGATTAAAGGCTC-TTGT
* * *
59896116 GAACTTCCTGATT-ATGGCTCTTAT
1 GAGCTTCCTGATTAAAGGCTCTTGT
59896140 GAGCTT
1 GAGCTT
59896146 TCTGTTATAT
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
24 8 0.17
25 8 0.17
26 28 0.61
27 2 0.04
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.38
Consensus pattern (25 bp):
GAGCTTCCTGATTAAAGGCTCTTGT
Found at i:59898081 original size:43 final size:43
Alignment explanation
Indices: 59898033--59898146 Score: 165
Period size: 43 Copynumber: 2.7 Consensus size: 43
59898023 CAATGTCATA
* * * *
59898033 TCCCAGATATGGTCTTAGATGTTATCACATATCGATGCCAATG
1 TCCCAGACATGGTCTTACACGTAATCACATATCGATGCCAATG
*
59898076 TCCCAGACATGGTCTTACACGTAATCTCATATCGATGCCAATG
1 TCCCAGACATGGTCTTACACGTAATCACATATCGATGCCAATG
* *
59898119 TCCCAAACATGGTCTTACACGAAATCAC
1 TCCCAGACATGGTCTTACACGTAATCAC
59898147 TCCTTGAAAG
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 63 1.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACGTAATCACATATCGATGCCAATG
Found at i:59902364 original size:23 final size:23
Alignment explanation
Indices: 59902338--59902508 Score: 166
Period size: 23 Copynumber: 7.5 Consensus size: 23
59902328 GTGTTATTGA
*
59902338 TCAGTGGTAGCTTCAGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
*
59902361 TCAGTGGTAGCTACGGCTACA-T
1 TCAGTGGTAGCTTCGGCTACATT
* * * *
59902383 ACTAGTGGTAGCTTTGGATATATT
1 TC-AGTGGTAGCTTCGGCTACATT
* * **
59902407 TCAGTGGTAGATACGGCTACACA
1 TCAGTGGTAGCTTCGGCTACATT
*
59902430 TCAGTGGTAGCTTCGGATACATT
1 TCAGTGGTAGCTTCGGCTACATT
* * * *
59902453 TCAGTGGTAGCTACCGCTACGTA
1 TCAGTGGTAGCTTCGGCTACATT
* *
59902476 TCAGTGGTAGCTTCGACTACATA
1 TCAGTGGTAGCTTCGGCTACATT
59902499 TCAGT-GTAGC
1 TCAGTGGTAGC
59902509 ACTTATGTGC
Statistics
Matches: 117, Mismatches: 29, Indels: 5
0.77 0.19 0.03
Matches are distributed among these distances:
22 7 0.06
23 108 0.92
24 2 0.02
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (23 bp):
TCAGTGGTAGCTTCGGCTACATT
Found at i:59902393 original size:46 final size:46
Alignment explanation
Indices: 59902337--59902508 Score: 224
Period size: 46 Copynumber: 3.8 Consensus size: 46
59902327 AGTGTTATTG
* *
59902337 ATCAGTGGTAGCTTCAGCTACATTTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGATACATTTCAGTGGTAGCTACGGCTACAT
* * * *
59902383 A-CTAGTGGTAGCTTTGGATATATTTCAGTGGTAGATACGGCTACAC
1 ATC-AGTGGTAGCTTCGGATACATTTCAGTGGTAGCTACGGCTACAT
* *
59902429 ATCAGTGGTAGCTTCGGATACATTTCAGTGGTAGCTACCGCTACGT
1 ATCAGTGGTAGCTTCGGATACATTTCAGTGGTAGCTACGGCTACAT
*
59902475 ATCAGTGGTAGCTTC-GACTACATATCAGT-GTAGC
1 ATCAGTGGTAGCTTCGGA-TACATTTCAGTGGTAGC
59902509 ACTTATGTGC
Statistics
Matches: 110, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
45 8 0.07
46 101 0.92
47 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (46 bp):
ATCAGTGGTAGCTTCGGATACATTTCAGTGGTAGCTACGGCTACAT
Found at i:59905497 original size:15 final size:16
Alignment explanation
Indices: 59905461--59905497 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
59905451 TTTTAACTCG
*
59905461 ATCGGAGCTATTCTAT
1 ATCGGAGCTATTCGAT
59905477 AT-GGAGCTATT-GAT
1 ATCGGAGCTATTCGAT
59905491 ATCGGAG
1 ATCGGAG
59905498 TAGTTCTCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 4 0.21
15 13 0.68
16 2 0.11
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (16 bp):
ATCGGAGCTATTCGAT
Found at i:59905764 original size:15 final size:16
Alignment explanation
Indices: 59905746--59905779 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
59905736 CCAGATAATC
59905746 TCATTATTCTGA-ATT
1 TCATTATTCTGACATT
59905761 TCATTATTCTGACATT
1 TCATTATTCTGACATT
59905777 TCA
1 TCA
59905780 AATTGGTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.26, C:0.18, G:0.06, T:0.50
Consensus pattern (16 bp):
TCATTATTCTGACATT
Found at i:59910847 original size:13 final size:13
Alignment explanation
Indices: 59910831--59910855 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59910821 ATAACAGTTA
59910831 CAGATATACAGAT
1 CAGATATACAGAT
59910844 CAGATATACAGA
1 CAGATATACAGA
59910856 ATCCTACCCC
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:0.48, C:0.16, G:0.16, T:0.20
Consensus pattern (13 bp):
CAGATATACAGAT
Found at i:59920776 original size:28 final size:29
Alignment explanation
Indices: 59920719--59920777 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 29
59920709 GTTGGGAGGG
**
59920719 GAGTAAAAGTTTTTTGGGAAAAGTGGAAAA
1 GAGTAAAAGTTTTGAGGGAAAAGT-GAAAA
59920749 GAGTAAAAGTTTTGAGGGAAAAGT-AAAA
1 GAGTAAAAGTTTTGAGGGAAAAGTGAAAA
59920777 G
1 G
59920778 GGTTTGGGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
28 5 0.19
30 22 0.81
ACGTcount: A:0.46, C:0.00, G:0.31, T:0.24
Consensus pattern (29 bp):
GAGTAAAAGTTTTGAGGGAAAAGTGAAAA
Found at i:59924910 original size:42 final size:42
Alignment explanation
Indices: 59924851--59924939 Score: 142
Period size: 42 Copynumber: 2.1 Consensus size: 42
59924841 CTGTTACAAC
* * *
59924851 CCAGGCCATGTGAGTCACACGGGCAAGGACACGGGTGTGTGT
1 CCAGGCCATGTGAGTCACACGAGCAAGGACACGAGCGTGTGT
*
59924893 CCAGGCCATGTGAGTCACACGAGCAGGGACACGAGCGTGTGT
1 CCAGGCCATGTGAGTCACACGAGCAAGGACACGAGCGTGTGT
59924935 CCAGG
1 CCAGG
59924940 TCGTGTAACT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.22, C:0.26, G:0.37, T:0.15
Consensus pattern (42 bp):
CCAGGCCATGTGAGTCACACGAGCAAGGACACGAGCGTGTGT
Found at i:59932747 original size:126 final size:126
Alignment explanation
Indices: 59932367--59932886 Score: 708
Period size: 125 Copynumber: 4.1 Consensus size: 126
59932357 TTTGTTTTTA
* * * * * *
59932367 TTTCTACACTAGTT-TCAGAAAAATTAATTTTGAGAAGACGGTTCTGAAAAGATAATGTCAAAAA
1 TTTCTACAGTAGTTCT-TGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTAAAAAA
* * *
59932431 CGCTTCAAGTAGGATGCACTATCAGCAAAATTACTG-AAAATAGCTCCCACGTGAACGCTCTT
65 CGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAT-GCTCCCACGTGGACGCTCTT
* *
59932493 TTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGATTCTGAAAAAATAGTGTAAAAAAT
1 TTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTAAAAAAC
** * *
59932558 GCTTCAAGCAGGATGCA-TGTCAGCAAAATTACTGAAAAAAACTCCCACGTGGGCACTCTT
66 GCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAATGCTCCCACGTGGACGCTCTT
* * *
59932618 TTTCTATAGTAGTTCTTGAAAAAATAATTTTGAGAAGGCAGTTCT-ATAAAAATAGTGTAAAAAA
1 TTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTGA-AAAAATAGTGTAAAAAA
* * * *
59932682 CACTTCAAGTAGGATGCACTGTCAGCAAAATTACTGAAAAATGCTCCCATGTGGATGCTCTT
65 CGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAATGCTCCCACGTGGACGCTCTT
* * * *
59932744 TTTCTACAATAGTTTTTGAAAAAATAATTTTGAGAAGATGGTTCTG-AAAAATAGTGTCAAAAAC
1 TTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTAAAAAAC
* * * *
59932808 GCTTCAAGCAGGATGCATTGTTAGCAAAATTACTGAAAAAGGCTCCCACGTGGATGCTCTT
66 GCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAATGCTCCCACGTGGACGCTCTT
59932869 TTTCTACAGTAGTTCTTG
1 TTTCTACAGTAGTTCTTG
59932887 CTTGGCCTTA
Statistics
Matches: 346, Mismatches: 43, Indels: 11
0.87 0.11 0.03
Matches are distributed among these distances:
124 1 0.00
125 193 0.56
126 151 0.44
127 1 0.00
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.30
Consensus pattern (126 bp):
TTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTAAAAAAC
GCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAATGCTCCCACGTGGACGCTCTT
Found at i:59932836 original size:251 final size:251
Alignment explanation
Indices: 59932367--59932886 Score: 742
Period size: 251 Copynumber: 2.1 Consensus size: 251
59932357 TTTGTTTTTA
* * * * * *
59932367 TTTCTACACTAGTT-TCAGAAAAATTAATTTTGAGAAGACGGTTCTGAAAAGATAATGTCAAAAA
1 TTTCTACAGTAGTTCT-TGAAAAAATAATTTTGAGAAGACAGTTCTGAAAAAATAATGTAAAAAA
*
59932431 CGCTTCAAGTAGGATGCACTATCAGCAAAATTACTGAAAATAGCTCCCACGTGAACGCTCTTTTT
65 CACTTCAAGTAGGATGCACTATCAGCAAAATTACTGAAAATAGCTCCCACGTGAACGCTCTTTTT
* *
59932496 CTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGATTCTGAAAAAATAGTGTAAAAAATGCT
130 CTACAATAGTTCTTGAAAAAATAATTTTGAGAAGACGATTCTGAAAAAATAGTGTAAAAAACGCT
*
59932561 TCAAGCAGGATGCATGTCAGCAAAATTACTGAAAAAAACTCCCACGTGGGCACTCTT
195 TCAAGCAGGATGCATGTCAGCAAAATTACTGAAAAAAACTCCCACGTGGACACTCTT
* * *
59932618 TTTCTATAGTAGTTCTTGAAAAAATAATTTTGAGAAGGCAGTTCT-ATAAAAATAGTGTAAAAAA
1 TTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACAGTTCTGA-AAAAATAATGTAAAAAA
* * * *
59932682 CACTTCAAGTAGGATGCACTGTCAGCAAAATTACTGAAAA-ATGCTCCCATGTGGATGCTCTTTT
65 CACTTCAAGTAGGATGCACTATCAGCAAAATTACTGAAAATA-GCTCCCACGTGAACGCTCTTTT
* * * *
59932746 TCTACAATAGTTTTTGAAAAAATAATTTTGAGAAGATGGTTCTG-AAAAATAGTGTCAAAAACGC
129 TCTACAATAGTTCTTGAAAAAATAATTTTGAGAAGACGATTCTGAAAAAATAGTGTAAAAAACGC
* ** **
59932810 TTCAAGCAGGATGCATTGTTAGCAAAATTACTGAAAAAGGCTCCCACGTGGATGCTCTT
194 TTCAAGCAGGATGCA-TGTCAGCAAAATTACTGAAAAAAACTCCCACGTGGACACTCTT
59932869 TTTCTACAGTAGTTCTTG
1 TTTCTACAGTAGTTCTTG
59932887 CTTGGCCTTA
Statistics
Matches: 238, Mismatches: 27, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
250 35 0.15
251 202 0.85
252 1 0.00
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.30
Consensus pattern (251 bp):
TTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACAGTTCTGAAAAAATAATGTAAAAAAC
ACTTCAAGTAGGATGCACTATCAGCAAAATTACTGAAAATAGCTCCCACGTGAACGCTCTTTTTC
TACAATAGTTCTTGAAAAAATAATTTTGAGAAGACGATTCTGAAAAAATAGTGTAAAAAACGCTT
CAAGCAGGATGCATGTCAGCAAAATTACTGAAAAAAACTCCCACGTGGACACTCTT
Found at i:59936210 original size:18 final size:18
Alignment explanation
Indices: 59936189--59936225 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
59936179 AAAAGGAAAT
* *
59936189 ATATAAGTGTTAGGATAC
1 ATATAAGGGCTAGGATAC
59936207 ATATAAGGGCTAGGATAC
1 ATATAAGGGCTAGGATAC
59936225 A
1 A
59936226 CACCTAGCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.41, C:0.08, G:0.24, T:0.27
Consensus pattern (18 bp):
ATATAAGGGCTAGGATAC
Found at i:59939852 original size:20 final size:20
Alignment explanation
Indices: 59939827--59939911 Score: 80
Period size: 20 Copynumber: 4.2 Consensus size: 20
59939817 GATTCGAGTT
*
59939827 AAACAACAAAGAATCAATTC
1 AAACAACAAACAATCAATTC
* *
59939847 AAACAATAAACAATCTATTC
1 AAACAACAAACAATCAATTC
* * * *
59939867 AAAGAATCAAAGAATCGATTTA
1 AAACAA-CAAACAATC-AATTC
*
59939889 AAACAACAAACAATCGATTC
1 AAACAACAAACAATCAATTC
59939909 AAA
1 AAA
59939912 GAAGCAACAA
Statistics
Matches: 49, Mismatches: 14, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
20 27 0.55
21 15 0.31
22 7 0.14
ACGTcount: A:0.58, C:0.18, G:0.06, T:0.19
Consensus pattern (20 bp):
AAACAACAAACAATCAATTC
Found at i:59939898 original size:21 final size:21
Alignment explanation
Indices: 59939827--59939907 Score: 67
Period size: 21 Copynumber: 3.9 Consensus size: 21
59939817 GATTCGAGTT
* * *
59939827 AAACAACAAAGAATC-AATTC
1 AAACAACAAACAATCGATTTA
* * *
59939847 AAACAATAAACAATCTATTCA
1 AAACAACAAACAATCGATTTA
* *
59939868 AAGA-ATCAAAGAATCGATTTA
1 AA-ACAACAAACAATCGATTTA
59939889 AAACAACAAACAATCGATT
1 AAACAACAAACAATCGATT
59939908 CAAAGAAGCA
Statistics
Matches: 46, Mismatches: 12, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
20 14 0.30
21 31 0.67
22 1 0.02
ACGTcount: A:0.57, C:0.17, G:0.06, T:0.20
Consensus pattern (21 bp):
AAACAACAAACAATCGATTTA
Found at i:59939900 original size:42 final size:41
Alignment explanation
Indices: 59939833--59939914 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 41
59939823 AGTTAAACAA
* * *
59939833 CAAAGAATCAATTCAAACAATAAACAATCTATTCAAAGAAT
1 CAAAGAATCAATTAAAACAACAAACAATCGATTCAAAGAAT
*
59939874 CAAAGAATCGATTTAAAACAACAAACAATCGATTCAAAGAA
1 CAAAGAATC-AATTAAAACAACAAACAATCGATTCAAAGAA
59939915 GCAACAATGC
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 9 0.25
42 27 0.75
ACGTcount: A:0.56, C:0.17, G:0.07, T:0.20
Consensus pattern (41 bp):
CAAAGAATCAATTAAAACAACAAACAATCGATTCAAAGAAT
Found at i:59940950 original size:24 final size:24
Alignment explanation
Indices: 59940929--59940985 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
59940919 AAGATTTAGT
*
59940929 ATTTATTAGTATAATATATTTAAC
1 ATTTATTAGCATAATATATTTAAC
* *
59940953 ATTTATTAGCATAATATATCTGAC
1 ATTTATTAGCATAATATATTTAAC
*
59940977 ATTGATTAG
1 ATTTATTAG
59940986 AATTAGATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.46
Consensus pattern (24 bp):
ATTTATTAGCATAATATATTTAAC
Found at i:59954051 original size:17 final size:17
Alignment explanation
Indices: 59954026--59954063 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
59954016 TAATAATGAG
*
59954026 AATACCAATTTTATAAT
1 AATACCAATTTTATAAA
*
59954043 AATATCAATTTTATAAA
1 AATACCAATTTTATAAA
59954060 AATA
1 AATA
59954064 ATATTGATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (17 bp):
AATACCAATTTTATAAA
Found at i:59954065 original size:20 final size:20
Alignment explanation
Indices: 59954040--59954077 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
59954030 CCAATTTTAT
59954040 AATAATATCAATTTTATAAA
1 AATAATATCAATTTTATAAA
**
59954060 AATAATATTGATTTTATA
1 AATAATATCAATTTTATA
59954078 CTAATCACAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (20 bp):
AATAATATCAATTTTATAAA
Found at i:59956305 original size:44 final size:44
Alignment explanation
Indices: 59956247--59956586 Score: 164
Period size: 44 Copynumber: 7.8 Consensus size: 44
59956237 ATCTACTTCG
* * * *
59956247 CTGCAACCTCAAGGAGATGAGATTTGTAGTTTTAATCAGCTCCA
1 CTGCAACTTCAAGGAGATAAGATTTATAGCTTTAATCAGCTCCA
* * *
59956291 CT-CTAACTTCAAGGAGATAAGATTTATGGCTTTAATCTGTTCCA
1 CTGC-AACTTCAAGGAGATAAGATTTATAGCTTTAATCAGCTCCA
* * * * *
59956335 CTGCAACTTTAAGGAGATATGGTTT-TA---AT-AT-A-CTCTA
1 CTGCAACTTCAAGGAGATAAGATTTATAGCTTTAATCAGCTCCA
* ** * ** *
59956372 CTACAACTTC-AGAGAGATAAGAGTTGCTATCTTCT-ATTTGTTCCA
1 CTGCAACTTCAAG-GAGATAAGA-TTTATAGCTT-TAATCAGCTCCA
* ** * * *
59956417 CTGCAACTTCAGGGAGATAAGATTTGCAGCTTCAATCTGCTCTA
1 CTGCAACTTCAAGGAGATAAGATTTATAGCTTTAATCAGCTCCA
* * * * * * *
59956461 TTGCAACTT-TAGAGAGATAAGATTTGCTATCTTCAATCTGCTCTA
1 CTGCAACTTCAAG-GAGATAAGATTT-ATAGCTTTAATCAGCTCCA
* * * * *
59956506 CTGCAACTTCAGGGAGATAAGATTTATTGCTTCAATCTGCTCTA
1 CTGCAACTTCAAGGAGATAAGATTTATAGCTTTAATCAGCTCCA
* * * *
59956550 TTGCAACTT-TAGAAAGATAAGATTTGTAGCTTTAATC
1 CTGCAACTTCAAG-GAGATAAGATTTATAGCTTTAATC
59956587 TACTCCAGTT
Statistics
Matches: 226, Mismatches: 53, Indels: 34
0.72 0.17 0.11
Matches are distributed among these distances:
36 2 0.01
37 18 0.08
38 2 0.01
39 4 0.02
40 1 0.00
43 7 0.03
44 132 0.58
45 58 0.26
46 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (44 bp):
CTGCAACTTCAAGGAGATAAGATTTATAGCTTTAATCAGCTCCA
Found at i:59956511 original size:45 final size:45
Alignment explanation
Indices: 59956367--59956575 Score: 253
Period size: 44 Copynumber: 4.7 Consensus size: 45
59956357 TTTTAATATA
* * * *
59956367 CTCTACTACAACTTCAGAGAGATAAGAGTTGCTATCTTCTATTTG
1 CTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTG
* * * *
59956412 TTCCACTGCAACTTCAGGGAGATAAGATTTGC-AGCTTCAATCTG
1 CTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTG
* *
59956456 CTCTATTGCAACTTTAGAGAGATAAGATTTGCTATCTTCAATCTG
1 CTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTG
* *
59956501 CTCTACTGCAACTTCAGGGAGATAAGATTT-AT-TGCTTCAATCTG
1 CTCTACTGCAACTTCAGAGAGATAAGATTTGCTAT-CTTCAATCTG
* * *
59956545 CTCTATTGCAACTTTAGAAAGATAAGATTTG
1 CTCTACTGCAACTTCAGAGAGATAAGATTTG
59956576 TAGCTTTAAT
Statistics
Matches: 139, Mismatches: 22, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
43 1 0.01
44 73 0.53
45 65 0.47
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.34
Consensus pattern (45 bp):
CTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTG
Found at i:59956518 original size:89 final size:89
Alignment explanation
Indices: 59956375--59956593 Score: 314
Period size: 89 Copynumber: 2.5 Consensus size: 89
59956365 TACTCTACTA
* * * * *
59956375 CAACTTCAGAGAGATAAGAGTTGCTATCTTCTATTTGTTCCACTGCAACTTCAGGGAGATAAGAT
1 CAACTTTAGAGAGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
*
59956440 TTGCAGCTTCAATCTGCTCTATTG
66 TTACAGCTTCAATCTGCTCTATTG
*
59956464 CAACTTTAGAGAGATAAGATTTGCTATCTTCAATCTGCTCTACTGCAACTTCAGGGAGATAAGAT
1 CAACTTTAGAGAGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
**
59956529 TTATTGCTTCAATCTGCTCTATTG
66 TTACAGCTTCAATCTGCTCTATTG
* * * *
59956553 CAACTTTAGAAAGATAAGATTTG-TAGCTTTAATCTACTCCA
1 CAACTTTAGAGAGATAAGATTTGCTATCTTCAATCTGCTCCA
59956594 GTTCAAGGAA
Statistics
Matches: 116, Mismatches: 14, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
88 14 0.12
89 102 0.88
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (89 bp):
CAACTTTAGAGAGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
TTACAGCTTCAATCTGCTCTATTG
Found at i:59968332 original size:17 final size:14
Alignment explanation
Indices: 59968298--59968329 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
59968288 TAATAATGAG
59968298 AATACCAATTTTAT
1 AATACCAATTTTAT
*
59968312 AATACCAATTATAT
1 AATACCAATTTTAT
59968326 AATA
1 AATA
59968330 ATAATATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (14 bp):
AATACCAATTTTAT
Found at i:59968347 original size:17 final size:17
Alignment explanation
Indices: 59968327--59968368 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
59968317 CAATTATATA
59968327 ATAATAATATCAATTTT
1 ATAATAATATCAATTTT
*
59968344 ATAATAATATCGATTTT
1 ATAATAATATCAATTTT
59968361 ATAATAAT
1 ATAATAAT
59968369 GGTACTAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (17 bp):
ATAATAATATCAATTTT
Found at i:59968367 original size:20 final size:19
Alignment explanation
Indices: 59968310--59968368 Score: 68
Period size: 20 Copynumber: 3.1 Consensus size: 19
59968300 TACCAATTTT
*
59968310 ATAATACCAATTATATAATA
1 ATAATATCAATT-TATAATA
59968330 ATAATATCAATTT-T-ATA
1 ATAATATCAATTTATAATA
*
59968347 ATAATATCGATTTTATAATA
1 ATAATATC-AATTTATAATA
59968367 AT
1 AT
59968369 GGTACTAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
17 11 0.32
18 5 0.15
19 2 0.06
20 16 0.47
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (19 bp):
ATAATATCAATTTATAATA
Found at i:59968735 original size:4 final size:4
Alignment explanation
Indices: 59968726--59968764 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
59968716 GCAAGGCAAT
** *
59968726 AATA AATA AATA AATA AATA AATA AGCA AATA AAAA AAT
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AAT
59968765 CATGAAAGGC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (4 bp):
AATA
Found at i:59970102 original size:12 final size:12
Alignment explanation
Indices: 59970085--59970111 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
59970075 TTATAAATGG
59970085 ATTGGACTGTTT
1 ATTGGACTGTTT
59970097 ATTGGACTGTTT
1 ATTGGACTGTTT
59970109 ATT
1 ATT
59970112 CATTTAGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.19, C:0.07, G:0.22, T:0.52
Consensus pattern (12 bp):
ATTGGACTGTTT
Found at i:59971096 original size:29 final size:28
Alignment explanation
Indices: 59971064--59971127 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
59971054 AAAAAGCCTT
59971064 TTTTTTGAAAATTTACCGAAATGGGCCGA
1 TTTTTTGAAAATTTACCGAAATGGGCC-A
* ** * *
59971093 TTTTTTTATTATTTACCGGAATGGTCCA
1 TTTTTTGAAAATTTACCGAAATGGGCCA
59971121 TTTTTTG
1 TTTTTTG
59971128 GGAAGTCGCG
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
28 7 0.24
29 22 0.76
ACGTcount: A:0.23, C:0.12, G:0.17, T:0.47
Consensus pattern (28 bp):
TTTTTTGAAAATTTACCGAAATGGGCCA
Found at i:59974669 original size:23 final size:23
Alignment explanation
Indices: 59974640--59974724 Score: 107
Period size: 23 Copynumber: 3.7 Consensus size: 23
59974630 AAATTAGGTA
* *
59974640 AAATTATGTTATGGTTTTTAACT
1 AAATTAGGTTATGGTTTTTAAAT
*
59974663 AAATTATGTTATGGTTTTTAAAT
1 AAATTAGGTTATGGTTTTTAAAT
* **
59974686 AAATTAGGTTAGGGTTTTTATTT
1 AAATTAGGTTATGGTTTTTAAAT
*
59974709 AAATTAGGTTAAGGTT
1 AAATTAGGTTATGGTT
59974725 AGGGTTTTTA
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 56 1.00
ACGTcount: A:0.32, C:0.01, G:0.18, T:0.49
Consensus pattern (23 bp):
AAATTAGGTTATGGTTTTTAAAT
Found at i:59974726 original size:29 final size:29
Alignment explanation
Indices: 59974691--59975144 Score: 684
Period size: 29 Copynumber: 15.8 Consensus size: 29
59974681 TAAATAAATT
*
59974691 AGGTTAGGGTTTTTATTTAAATTAGGTTA
1 AGGTTAGGGTTTTTAATTAAATTAGGTTA
*
59974720 AGGTTAGGGTTTTTAATTAAATTAGGGTA
1 AGGTTAGGGTTTTTAATTAAATTAGGTTA
* *
59974749 GGGTTAGGGTTTTTAATTAGATTAGGTTA
1 AGGTTAGGGTTTTTAATTAAATTAGGTTA
*
59974778 AGGTTAGGGTTTTTAATTAGATTAGGTTA
1 AGGTTAGGGTTTTTAATTAAATTAGGTTA
59974807 AGGTTAGGGTTTTTAATTAAATTAGGTTA
1 AGGTTAGGGTTTTTAATTAAATTAGGTTA
59974836 AGGTTA-GGTTTTTAATTAAATTAGGTTA
1 AGGTTAGGGTTTTTAATTAAATTAGGTTA
* *
59974864 AGGTTAGGGTTTTAAATTAAATTAGGGTA
1 AGGTTAGGGTTTTTAATTAAATTAGGTTA
* *
59974893 GGGTTAGGGTCTTTAATTAAATTAGGTTA
1 AGGTTAGGGTTTTTAATTAAATTAGGTTA
*
59974922 AGGTTAAGGTTTTTAATTAAATTAGGTTA
1 AGGTTAGGGTTTTTAATTAAATTAGGTTA
* *
59974951 AGATTAGGGTTTTTAATTAAATTAGGGTA
1 AGGTTAGGGTTTTTAATTAAATTAGGTTA
*
59974980 GGGTTAGGGTTTTTAATTAAATTAGGTTA
1 AGGTTAGGGTTTTTAATTAAATTAGGTTA
* *
59975009 AAGTTAGGGTTTTTAATTAAATTAGGGTA
1 AGGTTAGGGTTTTTAATTAAATTAGGTTA
* *
59975038 GGGTTAGGGTTTTTAATTAAATTGGGTTA
1 AGGTTAGGGTTTTTAATTAAATTAGGTTA
*
59975067 AGGTTA-GGTTTTTAATTAAATTAGGGTA
1 AGGTTAGGGTTTTTAATTAAATTAGGTTA
* *
59975095 GGGTTAGGG-TTTTAATTAAATTACGTTA
1 AGGTTAGGGTTTTTAATTAAATTAGGTTA
*
59975123 A-GTT-GGGGTTTTAATTAAATTA
1 AGGTTAGGGTTTTTAATTAAATTA
59975145 NNNNNNNNNN
Statistics
Matches: 386, Mismatches: 36, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
26 3 0.01
27 17 0.04
28 70 0.18
29 296 0.77
ACGTcount: A:0.30, C:0.00, G:0.26, T:0.44
Consensus pattern (29 bp):
AGGTTAGGGTTTTTAATTAAATTAGGTTA
Found at i:59976561 original size:32 final size:32
Alignment explanation
Indices: 59976520--59976588 Score: 104
Period size: 32 Copynumber: 2.2 Consensus size: 32
59976510 GCCATTGATG
*
59976520 AAAATATAAAAAAAA-TTTAAAATTATTTTTAA
1 AAAATATAAAAAAAATTTTAAAATTA-TTTAAA
*
59976552 AAAATATAAAAAAAATTTTGAAATTATTTAAA
1 AAAATATAAAAAAAATTTTAAAATTATTTAAA
59976584 AAAAT
1 AAAAT
59976589 GAAATTGAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 25 0.74
33 9 0.26
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (32 bp):
AAAATATAAAAAAAATTTTAAAATTATTTAAA
Found at i:59976647 original size:22 final size:21
Alignment explanation
Indices: 59976622--59976672 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 21
59976612 TAATATGGAT
* *
59976622 TTGAGAGATTTTTGGAATGAAA
1 TTGAGAGA-TTTTGAAAGGAAA
59976644 TTGAGAGGATTTTGAAAGGAAA
1 TTGAGA-GATTTTGAAAGGAAA
59976666 TTGAGAG
1 TTGAGAG
59976673 TTTAAGAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 1 0.04
22 23 0.88
23 2 0.08
ACGTcount: A:0.37, C:0.00, G:0.31, T:0.31
Consensus pattern (21 bp):
TTGAGAGATTTTGAAAGGAAA
Found at i:59976696 original size:52 final size:52
Alignment explanation
Indices: 59976625--59976723 Score: 171
Period size: 52 Copynumber: 1.9 Consensus size: 52
59976615 TATGGATTTG
* *
59976625 AGAGATTTTTGGAATGAAATTGAGAGGATTTTGAAAGGAAATTGAGAGTTTA
1 AGAGAATTTTGGAAGGAAATTGAGAGGATTTTGAAAGGAAATTGAGAGTTTA
*
59976677 AGAGAATTTTGGAAGGAAATTGAGAGGATTTTGGAAGGAAATTGAGA
1 AGAGAATTTTGGAAGGAAATTGAGAGGATTTTGAAAGGAAATTGAGA
59976724 TAGGATTTGT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.39, C:0.00, G:0.31, T:0.29
Consensus pattern (52 bp):
AGAGAATTTTGGAAGGAAATTGAGAGGATTTTGAAAGGAAATTGAGAGTTTA
Found at i:59976707 original size:22 final size:22
Alignment explanation
Indices: 59976677--59976723 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
59976667 TGAGAGTTTA
59976677 AGAGAATTTTGGAAGGAAATTG
1 AGAGAATTTTGGAAGGAAATTG
*
59976699 AGAGGATTTTGGAAGGAAATTG
1 AGAGAATTTTGGAAGGAAATTG
59976721 AGA
1 AGA
59976724 TAGGATTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.40, C:0.00, G:0.34, T:0.26
Consensus pattern (22 bp):
AGAGAATTTTGGAAGGAAATTG
Found at i:59980023 original size:94 final size:95
Alignment explanation
Indices: 59979914--59980192 Score: 348
Period size: 94 Copynumber: 3.0 Consensus size: 95
59979904 CAGTGAAACC
* * * *
59979914 ACAAATCCTATACCCCTAAAGTTGCAGTGGGTCAGATTGAAATC-ACCACAATAAATCTTATCTC
1 ACAAATCCTATACCCCTAAAGTTGCAGTGGGTCAGATTGAGATCTACCATAGTGAATCTTATCTC
59979978 CCTAAAGTTGCAGTGGAGCAGATCT-AAGCT
66 CCTAAAGTTGCAGTGGAGCAGAT-TGAAGCT
**
59980008 ACAAATCCTGCACCCCTGAAA-TTGCAGTGGGT--G---G-GATCTACCATAGTGAATCTTATCT
1 ACAAATCCTATACCCCT-AAAGTTGCAGTGGGTCAGATTGAGATCTACCATAGTGAATCTTATCT
59980066 CCC-AGAAGTTGCAGTGGAGCAGATTGAAGCT
65 CCCTA-AAGTTGCAGTGGAGCAGATTGAAGCT
* *
59980097 AAAAATCCTATACCCCTAAAGTTGCAGTAGGTCAGATT-AGATCTACCATAGTGAATCTTATCTC
1 ACAAATCCTATACCCCTAAAGTTGCAGTGGGTCAGATTGAGATCTACCATAGTGAATCTTATCTC
* *
59980161 CCTGAAGTTGCAGTGG-GTCAGATTGAATCT
66 CCTAAAGTTGCAGTGGAG-CAGATTGAAGCT
59980191 AC
1 AC
59980193 CATAGCGAAT
Statistics
Matches: 159, Mismatches: 13, Indels: 26
0.80 0.07 0.13
Matches are distributed among these distances:
88 8 0.05
89 68 0.43
91 1 0.01
92 1 0.01
93 1 0.01
94 77 0.48
95 3 0.02
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (95 bp):
ACAAATCCTATACCCCTAAAGTTGCAGTGGGTCAGATTGAGATCTACCATAGTGAATCTTATCTC
CCTAAAGTTGCAGTGGAGCAGATTGAAGCT
Found at i:59980191 original size:50 final size:50
Alignment explanation
Indices: 59980043--59980226 Score: 215
Period size: 50 Copynumber: 3.8 Consensus size: 50
59980033 AGTGGGTGGG
*
59980043 ATCTACCATAGTGAATCTTATCTCCCAGAAGTTGCAGTGGAG-CAGATTGA
1 ATCTACCATAGTGAATCTTATCTCCCTGAAGTTGCAGTGG-GTCAGATTGA
* * * *
59980093 AGCTA--A-A---AATCCTATAC-CCCTAAAGTTGCAGTAGGTCAGATT-A
1 ATCTACCATAGTGAATCTTAT-CTCCCTGAAGTTGCAGTGGGTCAGATTGA
59980136 GATCTACCATAGTGAATCTTATCTCCCTGAAGTTGCAGTGGGTCAGATTGA
1 -ATCTACCATAGTGAATCTTATCTCCCTGAAGTTGCAGTGGGTCAGATTGA
* *
59980187 ATCTACCATAGCGAATCTTATCTCTCTGAAGTTGCAGTGG
1 ATCTACCATAGTGAATCTTATCTCCCTGAAGTTGCAGTGG
59980227 AGCAAGATGA
Statistics
Matches: 112, Mismatches: 11, Indels: 22
0.77 0.08 0.15
Matches are distributed among these distances:
43 2 0.02
44 31 0.28
45 1 0.01
46 1 0.01
47 2 0.02
48 1 0.01
49 1 0.01
50 72 0.64
51 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (50 bp):
ATCTACCATAGTGAATCTTATCTCCCTGAAGTTGCAGTGGGTCAGATTGA
Done.