Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 176 of 373
Found at i:58936195 original size:288 final size:288
Alignment explanation
Indices: 58935679--58936252 Score: 837
Period size: 288 Copynumber: 2.0 Consensus size: 288
58935669 TTACAGGGGA
* * * * * * * *
58935679 AAAGGTCTTAGTAAAATCCACAATAAATTACTGACTATACCCTTTGATAATCAATCTGGCCTTGT
1 AAAGGTCTCAGTAAAATCAACAACAAATTACTAACTATACCCCTTGATAACCAAGCTAGCCTTGT
* * *
58935744 ACTTGTTGATAAAACCATCAAGTTTCATTTTGGTTCTAAACACCTATTTGACCCCAATGACTTTC
66 ACTTGTTGATAAAACCATCAAGATTCATTTTAGTTCTAAACACCTATTTGACCCCAATGAATTTC
* *
58935809 TTATGAATCTGTCTATCTACCAACTCCCAAGTCTTATTCTTGTTGATCAAACTAATATCTTCCTT
131 TTATGAATCTGTCTATCTAACAACTCCCAAGTCTCATTCTTGTTGATCAAACTAATATCTTCCTT
* * *
58935874 CATACCATCTCTCTATTCAAGTTCTTGTGCTACCT-TTTCAAAAGTAACTACTTCTAACATTGCC
196 CACAACATCTCTCTATTCAAGTTCTTGTGCTACCTCTTT-AAAAGTAACTACTTCTAACACTGCC
*
58935938 AAATTACACATCTGGTAGACTTTAGTAGC
260 AAATTACACATCTGATAGACTTTAGTAGC
* *
58935967 AAAGGTCTCAGTAAAATCAACACCAAATTGCTAACTATACCCCTTGATAACCAAGCTAGCCTTGT
1 AAAGGTCTCAGTAAAATCAACAACAAATTACTAACTATACCCCTTGATAACCAAGCTAGCCTTGT
* * * *
58936032 ACTTGTTGATAGAACCATCAGGATTCATTTTAGTTCTGAACACCTATTTGATCCCAATGAATTTC
66 ACTTGTTGATAAAACCATCAAGATTCATTTTAGTTCTAAACACCTATTTGACCCCAATGAATTTC
* *
58936097 TTATGAA-CTGGTCTATCTAACAACTCCCAAGTCTCATTCTTGTTGATCATACTAATCTCTTCCT
131 TTATGAATCT-GTCTATCTAACAACTCCCAAGTCTCATTCTTGTTGATCAAACTAATATCTTCCT
* * **
58936161 TCACAACATCTCTTTATTCAAGTTCTTGTGCTACCTCTTTAAAGGTAACTGGTTCTAACACTGCC
195 TCACAACATCTCTCTATTCAAGTTCTTGTGCTACCTCTTTAAAAGTAACTACTTCTAACACTGCC
* *
58936226 AAATTACATATTTGATAGACTTTAGTA
260 AAATTACACATCTGATAGACTTTAGTA
58936253 ATTGACCTGG
Statistics
Matches: 253, Mismatches: 31, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
287 2 0.01
288 248 0.98
289 3 0.01
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (288 bp):
AAAGGTCTCAGTAAAATCAACAACAAATTACTAACTATACCCCTTGATAACCAAGCTAGCCTTGT
ACTTGTTGATAAAACCATCAAGATTCATTTTAGTTCTAAACACCTATTTGACCCCAATGAATTTC
TTATGAATCTGTCTATCTAACAACTCCCAAGTCTCATTCTTGTTGATCAAACTAATATCTTCCTT
CACAACATCTCTCTATTCAAGTTCTTGTGCTACCTCTTTAAAAGTAACTACTTCTAACACTGCCA
AATTACACATCTGATAGACTTTAGTAGC
Found at i:58941427 original size:21 final size:22
Alignment explanation
Indices: 58941387--58941427 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
58941377 TTCCAAATAA
* *
58941387 AACATTATATCATTTCTAATTC
1 AACATTATATCAATTATAATTC
58941409 AACATT-TATCAATTATAAT
1 AACATTATATCAATTATAAT
58941428 CGAGCATGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (22 bp):
AACATTATATCAATTATAATTC
Found at i:58942667 original size:15 final size:16
Alignment explanation
Indices: 58942640--58942669 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
58942630 AGATATTCCA
58942640 ATTTAGTCCCATTTTT
1 ATTTAGTCCCATTTTT
58942656 ATTTAG-CCCATTTT
1 ATTTAGTCCCATTTT
58942670 GTCAATTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.20, C:0.20, G:0.07, T:0.53
Consensus pattern (16 bp):
ATTTAGTCCCATTTTT
Found at i:58945019 original size:68 final size:68
Alignment explanation
Indices: 58944899--58945025 Score: 168
Period size: 68 Copynumber: 1.9 Consensus size: 68
58944889 GCTACATTTA
* * *
58944899 TCTCGTAGCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACCTCATA
1 TCTCGTAGCTCTCTTGTCTACATGGTATACACACAGTATCACACATGCGACCTAGCTACCTCATA
58944964 ATG
66 ATG
* * *
58944967 TCTCGTAGCTCTCTTGTAC-ACATGGTATACATC-CCGTATTACACATGTGACCTAGCTAC
1 TCTCGTAGCTCTCTTGT-CTACATGGTATACA-CACAGTATCACACATGCGACCTAGCTAC
58945026 ATACCATTTG
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
68 49 0.96
69 2 0.04
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (68 bp):
TCTCGTAGCTCTCTTGTCTACATGGTATACACACAGTATCACACATGCGACCTAGCTACCTCATA
ATG
Found at i:58945527 original size:30 final size:30
Alignment explanation
Indices: 58945491--58945551 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
58945481 TCCTTAACTC
*
58945491 AAACTTTTTCAAAATTACAATTTTGCCCCT
1 AAACTTTTACAAAATTACAATTTTGCCCCT
* * *
58945521 AAACTTTTACATATTTACACTTTTGCCCCT
1 AAACTTTTACAAAATTACAATTTTGCCCCT
58945551 A
1 A
58945552 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.25, G:0.03, T:0.41
Consensus pattern (30 bp):
AAACTTTTACAAAATTACAATTTTGCCCCT
Found at i:58950609 original size:17 final size:18
Alignment explanation
Indices: 58950587--58950620 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
58950577 AAAAATTTCA
*
58950587 AAAAGT-GACAAACTCAC
1 AAAAGTAGAAAAACTCAC
58950604 AAAAGTAGAAAAACTCA
1 AAAAGTAGAAAAACTCA
58950621 GTCATTTATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.59, C:0.18, G:0.12, T:0.12
Consensus pattern (18 bp):
AAAAGTAGAAAAACTCAC
Found at i:58955352 original size:29 final size:30
Alignment explanation
Indices: 58955286--58955400 Score: 125
Period size: 29 Copynumber: 4.0 Consensus size: 30
58955276 TACATACATG
*
58955286 CATATGGCCCA-CTGGGCCCAA-TC-TCATT
1 CATATGGCCCATCTAGGCCCAATTCAT-ATT
*
58955314 CATATGGCCCATCT-GGCCCAGTTCATATT
1 CATATGGCCCATCTAGGCCCAATTCATATT
* * *
58955343 CTTATAGCCCA-CTAGGCCCAATTCACATT
1 CATATGGCCCATCTAGGCCCAATTCATATT
*
58955372 CATATGGCCCAT-TAGGCCCAAATCATATT
1 CATATGGCCCATCTAGGCCCAATTCATATT
58955401 ATACTCATGC
Statistics
Matches: 73, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
28 19 0.26
29 53 0.73
30 1 0.01
ACGTcount: A:0.25, C:0.32, G:0.15, T:0.28
Consensus pattern (30 bp):
CATATGGCCCATCTAGGCCCAATTCATATT
Found at i:58955382 original size:58 final size:57
Alignment explanation
Indices: 58955292--58955400 Score: 157
Period size: 58 Copynumber: 1.9 Consensus size: 57
58955282 CATGCATATG
* * **
58955292 GCCCACTGGGCCCAATCTCATTCATATGGCCCATCT-GGCCCAGTTCATATTCTTATA
1 GCCCACTAGGCCCAATCACATTCATATGGCCCAT-TAGGCCCAAATCATATTCTTATA
58955349 GCCCACTAGGCCCAATTCACATTCATATGGCCCATTAGGCCCAAATCATATT
1 GCCCACTAGGCCCAA-TCACATTCATATGGCCCATTAGGCCCAAATCATATT
58955401 ATACTCATGC
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
57 15 0.33
58 31 0.67
ACGTcount: A:0.25, C:0.33, G:0.15, T:0.28
Consensus pattern (57 bp):
GCCCACTAGGCCCAATCACATTCATATGGCCCATTAGGCCCAAATCATATTCTTATA
Found at i:58956898 original size:16 final size:16
Alignment explanation
Indices: 58956877--58956909 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
58956867 AAAAATTTAA
*
58956877 GATTTCGGGATTTTTG
1 GATTTCAGGATTTTTG
58956893 GATTTCAGGATTTTTG
1 GATTTCAGGATTTTTG
58956909 G
1 G
58956910 GGCGTTACAT
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:0.15, C:0.06, G:0.30, T:0.48
Consensus pattern (16 bp):
GATTTCAGGATTTTTG
Found at i:58958508 original size:3 final size:3
Alignment explanation
Indices: 58958500--58958546 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
58958490 ATGTAGAAAT
*
58958500 ATA ATA ATA ATA ATA ATC ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
58958547 GATGATGATG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:58958551 original size:3 final size:3
Alignment explanation
Indices: 58958545--58958584 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
58958535 AATAATAATA
58958545 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
58958585 AGGAAAAGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.35, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:58959312 original size:28 final size:25
Alignment explanation
Indices: 58959281--58959338 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
58959271 AGTATGATTA
*
58959281 AATTAACACTAATATTAAAATTGATAAT
1 AATTAACA-T-ATATTAAAATGGAT-AT
* *
58959309 AATTAATATATATTATAATGGATAT
1 AATTAACATATATTAAAATGGATAT
58959334 AATTA
1 AATTA
58959339 TATATTAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 7 0.26
26 12 0.44
27 1 0.04
28 7 0.26
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.40
Consensus pattern (25 bp):
AATTAACATATATTAAAATGGATAT
Found at i:58959332 original size:26 final size:24
Alignment explanation
Indices: 58959292--58959343 Score: 68
Period size: 26 Copynumber: 2.1 Consensus size: 24
58959282 ATTAACACTA
*
58959292 ATATTAAAATTGATAATAATTAATAT
1 ATATTAAAATGGAT-ATAATT-ATAT
*
58959318 ATATTATAATGGATATAATTATAT
1 ATATTAAAATGGATATAATTATAT
58959342 AT
1 AT
58959344 TAATAATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 6 0.25
25 6 0.25
26 12 0.50
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (24 bp):
ATATTAAAATGGATATAATTATAT
Found at i:58971869 original size:36 final size:36
Alignment explanation
Indices: 58971822--58971893 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
58971812 GAGATAGTGA
*
58971822 ACATTAAATCTTCTTGATTCACTTCAGGTATCTGTG
1 ACATTAAATCTTCTTGATTCACTTCAGCTATCTGTG
*
58971858 ACATTAAATCTTCTTGATTCACTTCAGCTATTTGTG
1 ACATTAAATCTTCTTGATTCACTTCAGCTATCTGTG
58971894 TCTGAGCATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.25, C:0.19, G:0.12, T:0.43
Consensus pattern (36 bp):
ACATTAAATCTTCTTGATTCACTTCAGCTATCTGTG
Found at i:58972864 original size:20 final size:19
Alignment explanation
Indices: 58972812--58972866 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
58972802 ATAGTGTAGA
58972812 TAATCATTAAATT-A-AATT
1 TAAT-ATTAAATTAATAATT
58972830 TAATATTAACA-TAATAACTT
1 TAATATTAA-ATTAATAA-TT
58972850 TAATATTAAATTAATAA
1 TAATATTAAATTAATAA
58972867 AAAAGTTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
17 6 0.19
18 6 0.19
19 3 0.09
20 17 0.53
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (19 bp):
TAATATTAAATTAATAATT
Found at i:58982255 original size:32 final size:32
Alignment explanation
Indices: 58982209--58982279 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
58982199 AATAGGATGC
*
58982209 AAATGTATATGAACTGTGATAGATTAAGAATT
1 AAATTTATATGAACTGTGATAGATTAAGAATT
*
58982241 AAATTTATATGAACTGTGATAGATTAATAATT
1 AAATTTATATGAACTGTGATAGATTAAGAATT
58982273 AAATTTA
1 AAATTTA
58982280 CCCATACAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.45, C:0.03, G:0.14, T:0.38
Consensus pattern (32 bp):
AAATTTATATGAACTGTGATAGATTAAGAATT
Found at i:58992151 original size:25 final size:25
Alignment explanation
Indices: 58992123--58992173 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
58992113 TTGAGTACAT
58992123 TCGGCATTCGACGAATTGACGACAA
1 TCGGCATTCGACGAATTGACGACAA
*
58992148 TCGGCATTCGATGAATTGACGACAA
1 TCGGCATTCGACGAATTGACGACAA
58992173 T
1 T
58992174 GGAGGAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.24
Consensus pattern (25 bp):
TCGGCATTCGACGAATTGACGACAA
Found at i:58992364 original size:21 final size:21
Alignment explanation
Indices: 58992303--58992364 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 21
58992293 CAACTCTATT
* * *
58992303 GAGCTTCTGTTTAACCCTTAT
1 GAGCTTCCGTTCAACCCTTAC
* * * *
58992324 GGGTTTCCGTTCAGCTCTTAC
1 GAGCTTCCGTTCAACCCTTAC
58992345 GAGCTTCCGTTCAACCCTTA
1 GAGCTTCCGTTCAACCCTTA
58992365 TGGGTTTCTG
Statistics
Matches: 30, Mismatches: 11, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.16, C:0.29, G:0.18, T:0.37
Consensus pattern (21 bp):
GAGCTTCCGTTCAACCCTTAC
Found at i:58992399 original size:42 final size:42
Alignment explanation
Indices: 58992243--58992399 Score: 147
Period size: 42 Copynumber: 3.7 Consensus size: 42
58992233 TCATGTTTAC
* * * * * *
58992243 TTTCCATTTAGCTCTCACGAGCTTCTGTTTAA-CTTATATGAG
1 TTTCCGTTCAGCTCTCATGAGCTTCTGTTCAACCCT-TATGGG
* * *
58992285 TTTTCGTTCAACTCT-ATTGAGCTTCTGTTTAACCCTTATGGG
1 TTTCCGTTCAGCTCTCA-TGAGCTTCTGTTCAACCCTTATGGG
* * *
58992327 TTTCCGTTCAGCTCTTACGAGCTTCCGTTCAACCCTTATGGG
1 TTTCCGTTCAGCTCTCATGAGCTTCTGTTCAACCCTTATGGG
* * *
58992369 TTTCTGTTTAGCTCTCATGAGCTTTTGTTCA
1 TTTCCGTTCAGCTCTCATGAGCTTCTGTTCA
58992400 GCCTTCGGGC
Statistics
Matches: 94, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
41 1 0.01
42 90 0.96
43 3 0.03
ACGTcount: A:0.17, C:0.24, G:0.17, T:0.43
Consensus pattern (42 bp):
TTTCCGTTCAGCTCTCATGAGCTTCTGTTCAACCCTTATGGG
Found at i:59015088 original size:20 final size:20
Alignment explanation
Indices: 59015044--59015090 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
59015034 TATTTGTTAT
*
59015044 ATTTTA-ATATTTAAAATAT
1 ATTTTATATATTTAAAATAC
* *
59015063 AGTTTATATATTTAAATTAC
1 ATTTTATATATTTAAAATAC
59015083 ATTTTATA
1 ATTTTATA
59015091 AATATTAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (20 bp):
ATTTTATATATTTAAAATAC
Found at i:59019248 original size:19 final size:19
Alignment explanation
Indices: 59019220--59019256 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
59019210 TAATTTAAGT
* *
59019220 TAAATTCTTAATTTAGGGG
1 TAAATACTTAAATTAGGGG
59019239 TAAATACTTAAATTAGGG
1 TAAATACTTAAATTAGGG
59019257 CTCAACCTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.05, G:0.19, T:0.38
Consensus pattern (19 bp):
TAAATACTTAAATTAGGGG
Found at i:59021434 original size:18 final size:18
Alignment explanation
Indices: 59021411--59021448 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
59021401 TTGATAAAAA
59021411 TTTTATAACTTTTAACAT
1 TTTTATAACTTTTAACAT
*
59021429 TTTTATAACTTTTATCAT
1 TTTTATAACTTTTAACAT
59021447 TT
1 TT
59021449 ATTTTAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTTATAACTTTTAACAT
Found at i:59022192 original size:23 final size:25
Alignment explanation
Indices: 59022166--59022218 Score: 67
Period size: 23 Copynumber: 2.2 Consensus size: 25
59022156 TAGATTTTTA
59022166 TATTTTTATTG-TG-TTTTTACTGT
1 TATTTTTATTGTTGATTTTTACTGT
* *
59022189 TATTATTATTGTTGATTTTTATTGT
1 TATTTTTATTGTTGATTTTTACTGT
59022214 T-TTTT
1 TATTTT
59022219 GTTGTTAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 10 0.40
24 5 0.20
25 10 0.40
ACGTcount: A:0.15, C:0.02, G:0.11, T:0.72
Consensus pattern (25 bp):
TATTTTTATTGTTGATTTTTACTGT
Found at i:59022266 original size:42 final size:39
Alignment explanation
Indices: 59022220--59022318 Score: 123
Period size: 39 Copynumber: 2.5 Consensus size: 39
59022210 TTGTTTTTTG
*
59022220 TTGTTAGTTATTATTATTGTTAGTAAAAAACTATTATTAGGA
1 TTGTTAGTTATTATTATTGTTAGTAAAAAACTATAATT---A
* *
59022262 TTGTTGGTTATTATTA---TTAGTAAAAAACTCTAATTA
1 TTGTTAGTTATTATTATTGTTAGTAAAAAACTATAATTA
59022298 TTGTTAGTTATTATTATTGTT
1 TTGTTAGTTATTATTATTGTT
59022319 GATTTATATT
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
36 16 0.32
39 19 0.38
42 15 0.30
ACGTcount: A:0.32, C:0.03, G:0.13, T:0.52
Consensus pattern (39 bp):
TTGTTAGTTATTATTATTGTTAGTAAAAAACTATAATTA
Found at i:59022301 original size:36 final size:37
Alignment explanation
Indices: 59022220--59022315 Score: 113
Period size: 36 Copynumber: 2.5 Consensus size: 37
59022210 TTGTTTTTTG
*
59022220 TTGTTAGTTATTATTATTGTTAGTAAAAAACTATTATTAGGA
1 TTGTTAGTTATTATTA---TTAGTAAAAAACTATAATT--GA
* *
59022262 TTGTTGGTTATTATTATTAGTAAAAAACTCTAATT-A
1 TTGTTAGTTATTATTATTAGTAAAAAACTATAATTGA
59022298 TTGTTAGTTATTATTATT
1 TTGTTAGTTATTATTATT
59022316 GTTGATTTAT
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
36 18 0.36
39 17 0.34
42 15 0.30
ACGTcount: A:0.33, C:0.03, G:0.12, T:0.51
Consensus pattern (37 bp):
TTGTTAGTTATTATTATTAGTAAAAAACTATAATTGA
Found at i:59029781 original size:137 final size:138
Alignment explanation
Indices: 59029611--59030356 Score: 1196
Period size: 137 Copynumber: 5.4 Consensus size: 138
59029601 ATTTCTAAAA
*
59029611 ATTT-TAAAATATTCGGATTCTATTTTTTAAAATATACTATTTTCGTATTTTA-TTTTTATCTTA
1 ATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATCTTA
* *
59029674 TTTTAGTACATAATATTTCAAATGTATTATTTTAGAGTTTTTTAAATAACCCTGATTTTGTCCCT
66 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTAAATAACCCTGATTTTGTCCCT
59029739 TTGTTTGT
131 TTGTTTGT
* *
59029747 ATTTCTAAAATATTCAGATTTTATTTTTTAAAATATATTATTTTCGTATTTTA-TTTTTATCTTA
1 ATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATCTTA
* *
59029811 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTAAATAACTCTGATTTTATCCCT
66 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTAAATAACCCTGATTTTGTCCCT
59029876 TTGTTTGT
131 TTGTTTGT
* ** *
59029884 ATTTCTAAAATATTTGGATTTTATTTTTTAAAATATTTTATTTTTGTATTTTATTTTTTTATCTT
1 ATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTA-TTTTTTATCTT
*
59029949 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTAAATAACTCTGATTTTGTCCC
65 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTAAATAACCCTGATTTTGTCCC
59030014 TTTGTTTGT
130 TTTGTTTGT
* *
59030023 ATTTCTAAAATATTCAGATTCTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATCTTA
1 ATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATCTTA
* *
59030088 TTTTAGTACATAATGTTTCAAATTTATTATTTTAGT-TTTTTTAAATAACCCTAATTTTGTCCCT
66 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTAAATAACCCTGATTTTGTCCCT
*
59030152 TTGTTTCT
131 TTGTTTGT
*
59030160 ATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTTGTATTTTATTTTTTATCTTA
1 ATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATCTTA
* *
59030225 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTAAATAACCTTGATTTTGTCACT
66 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTAAATAACCCTGATTTTGTCCCT
59030290 TTGTTTGT
131 TTGTTTGT
* * * *** *
59030298 ATTTCTAAAATTTTTGGATTTT-TTATATTATTTTATACTATTTTCGCATTTTATTTTTT
1 ATTTCTAAAATATTCGGATTTTATT-TTTTAAAATATACTATTTTCGTATTTTATTTTTT
59030357 TTTTTCATAT
Statistics
Matches: 567, Mismatches: 38, Indels: 8
0.92 0.06 0.01
Matches are distributed among these distances:
136 4 0.01
137 306 0.54
138 127 0.22
139 130 0.23
ACGTcount: A:0.27, C:0.08, G:0.07, T:0.58
Consensus pattern (138 bp):
ATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATCTTA
TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTAAATAACCCTGATTTTGTCCCT
TTGTTTGT
Found at i:59029935 original size:13 final size:13
Alignment explanation
Indices: 59029917--59029953 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
59029907 TTTTTTAAAA
59029917 TATTTTATTTTTG
1 TATTTTATTTTTG
*
59029930 TATTTTATTTTTT
1 TATTTTATTTTTG
*
59029943 TATCTTATTTT
1 TATTTTATTTT
59029954 AGTACATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.78
Consensus pattern (13 bp):
TATTTTATTTTTG
Found at i:59029935 original size:23 final size:24
Alignment explanation
Indices: 59029879--59029936 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 24
59029869 TATCCCTTTG
59029879 TTTGTATTTCTAAAATATTTGGATT
1 TTTGTATTT-TAAAATATTTGGATT
*
59029904 TTAT-T-TTTTAAAATATTT-TATT
1 TT-TGTATTTTAAAATATTTGGATT
59029926 TTTGTATTTTA
1 TTTGTATTTTA
59029937 TTTTTTTATC
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
21 1 0.03
22 6 0.21
23 15 0.52
24 3 0.10
25 3 0.10
26 1 0.03
ACGTcount: A:0.28, C:0.02, G:0.07, T:0.64
Consensus pattern (24 bp):
TTTGTATTTTAAAATATTTGGATT
Found at i:59030055 original size:276 final size:274
Alignment explanation
Indices: 59029611--59030356 Score: 1196
Period size: 276 Copynumber: 2.7 Consensus size: 274
59029601 ATTTCTAAAA
* *
59029611 ATTT-TAAAATATTCGGATTCTATTTTTTAAAATATACTATTTTCGTATTTTA-TTTTTATCTTA
1 ATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTTGTATTTTATTTTTTATCTTA
* *
59029674 TTTTAGTACATAATATTTCAAATGTATTATTTTAGAGTTTTTTAAATAACCCTGATTTTGTCCCT
66 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTAAATAA-CCTGATTTTGTCCCT
* *
59029739 TTGTTTGTATTTCTAAAATATTCAGATTTTATTTTTTAAAATATATTATTTTCGTATTTTA-TTT
130 TTGTTTGTATTTCTAAAATATTCAGATTCTATTTTTTAAAATATACTATTTTCGTATTTTATTTT
* *
59029803 TTATCTTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTAAATAACTCTGATT
195 TTATCTTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGT-TTTTTTAAATAACCCTAATT
*
59029868 TTATCCCTTTGTTTGT
259 TTATCCCTTTGTTTCT
* **
59029884 ATTTCTAAAATATTTGGATTTTATTTTTTAAAATATTTTATTTTTGTATTTTATTTTTTTATCTT
1 ATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTTGTATTTTA-TTTTTTATCTT
59029949 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTAAATAACTCTGATTTTGTCCC
65 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTAAATAAC-CTGATTTTGTCCC
59030014 TTTGTTTGTATTTCTAAAATATTCAGATTCTATTTTTTAAAATATACTATTTTCGTATTTTATTT
129 TTTGTTTGTATTTCTAAAATATTCAGATTCTATTTTTTAAAATATACTATTTTCGTATTTTATTT
*
59030079 TTTATCTTATTTTAGTACATAATGTTTCAAATTTATTATTTTAGTTTTTTTAAATAACCCTAATT
194 TTTATCTTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTAAATAACCCTAATT
*
59030144 TTGTCCCTTTGTTTCT
259 TTATCCCTTTGTTTCT
59030160 ATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTTGTATTTTATTTTTTATCTTA
1 ATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTTGTATTTTATTTTTTATCTTA
*
59030225 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTAAATAACCTTGATTTTGTCACT
66 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTAAATAACC-TGATTTTGTCCCT
* ** *** *
59030290 TTGTTTGTATTTCTAAAATTTTTGGATT-T-TTTATATTATTTTATACTATTTTCGCATTTTATT
130 TTGTTTGTATTTCTAAAATATTCAGATTCTATTT-T-TTAAAATATACTATTTTCGTATTTTATT
59030353 TTTT
193 TTTT
59030357 TTTTTCATAT
Statistics
Matches: 440, Mismatches: 25, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
273 7 0.02
274 46 0.10
275 128 0.29
276 213 0.48
277 46 0.10
ACGTcount: A:0.27, C:0.08, G:0.07, T:0.58
Consensus pattern (274 bp):
ATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTTGTATTTTATTTTTTATCTTA
TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTAAATAACCTGATTTTGTCCCTT
TGTTTGTATTTCTAAAATATTCAGATTCTATTTTTTAAAATATACTATTTTCGTATTTTATTTTT
TATCTTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTAAATAACCCTAATTTT
ATCCCTTTGTTTCT
Found at i:59030354 original size:43 final size:40
Alignment explanation
Indices: 59030315--59030417 Score: 101
Period size: 36 Copynumber: 2.6 Consensus size: 40
59030305 AAATTTTTGG
59030315 ATTTTTTATATTATTTTATACTATTTTCGCATTTTATTTTT
1 ATTTTTT-TATTATTTTATACTATTTTCGCATTTTATTTTT
* * *
59030356 -TTTTTTCA-TATTTTAT--TTTTTTCGTATTTTATTTTT
1 ATTTTTTTATTATTTTATACTATTTTCGCATTTTATTTTT
*
59030392 -TCATATTTTATT-TTTTATACTATTTT
1 AT--TTTTTTATTATTTTATACTATTTT
59030418 TGTAAAATAG
Statistics
Matches: 51, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
36 19 0.37
38 19 0.37
39 2 0.04
40 11 0.22
ACGTcount: A:0.19, C:0.07, G:0.02, T:0.72
Consensus pattern (40 bp):
ATTTTTTTATTATTTTATACTATTTTCGCATTTTATTTTT
Found at i:59030374 original size:16 final size:16
Alignment explanation
Indices: 59030349--59030407 Score: 95
Period size: 15 Copynumber: 3.8 Consensus size: 16
59030339 TTTCGCATTT
59030349 TATTTT-TTTTTTTCA
1 TATTTTATTTTTTTCA
*
59030364 TATTTTATTTTTTTCG
1 TATTTTATTTTTTTCA
59030380 TATTTTA-TTTTTTCA
1 TATTTTATTTTTTTCA
59030395 TATTTTATTTTTT
1 TATTTTATTTTTT
59030408 ATACTATTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
15 20 0.50
16 20 0.50
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.78
Consensus pattern (16 bp):
TATTTTATTTTTTTCA
Found at i:59030391 original size:31 final size:31
Alignment explanation
Indices: 59030349--59030407 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
59030339 TTTCGCATTT
*
59030349 TATTTTTTTTTTTCATATTTTATTTTTTTCG
1 TATTTTATTTTTTCATATTTTATTTTTTTCG
59030380 TATTTTATTTTTTCATATTTTATTTTTT
1 TATTTTATTTTTTCATATTTTATTTTTT
59030408 ATACTATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.78
Consensus pattern (31 bp):
TATTTTATTTTTTCATATTTTATTTTTTTCG
Found at i:59030911 original size:8 final size:8
Alignment explanation
Indices: 59030898--59030938 Score: 59
Period size: 8 Copynumber: 5.4 Consensus size: 8
59030888 GCTTGCTCCT
59030898 TCTTCTTC
1 TCTTCTTC
*
59030906 TCTTCTTT
1 TCTTCTTC
59030914 TCTTCTTC
1 TCTTCTTC
59030922 TCTTCTT-
1 TCTTCTTC
59030929 TCTT-TTC
1 TCTTCTTC
59030936 TCT
1 TCT
59030939 CATTTCTTCC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
6 2 0.07
7 7 0.23
8 21 0.70
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (8 bp):
TCTTCTTC
Found at i:59030918 original size:16 final size:15
Alignment explanation
Indices: 59030897--59030947 Score: 70
Period size: 16 Copynumber: 3.4 Consensus size: 15
59030887 TGCTTGCTCC
59030897 TTCTTCTTCTCTTCTT
1 TTCTTCTTCTCTTC-T
59030913 TTCTTCTTCTCTTCT
1 TTCTTCTTCTCTTCT
59030928 TTCTT-TTCTC-TCAT
1 TTCTTCTTCTCTTC-T
59030942 TTCTTC
1 TTCTTC
59030948 CCCAAATGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
13 2 0.06
14 11 0.33
15 6 0.18
16 14 0.42
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.67
Consensus pattern (15 bp):
TTCTTCTTCTCTTCT
Found at i:59031117 original size:15 final size:15
Alignment explanation
Indices: 59031097--59031129 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
59031087 ACTTCAGCTT
59031097 TTTTTTTTCAGCAAC
1 TTTTTTTTCAGCAAC
*
59031112 TTTTTTTTCAGCATC
1 TTTTTTTTCAGCAAC
59031127 TTT
1 TTT
59031130 CTACTGTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.18, G:0.06, T:0.61
Consensus pattern (15 bp):
TTTTTTTTCAGCAAC
Found at i:59031153 original size:22 final size:22
Alignment explanation
Indices: 59031125--59031169 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
59031115 TTTTTCAGCA
59031125 TCTTTCTACTGTTTCTTTTTTT
1 TCTTTCTACTGTTTCTTTTTTT
59031147 TCTTTCTACTGTTTCTTTTTTT
1 TCTTTCTACTGTTTCTTTTTTT
59031169 T
1 T
59031170 TACTGTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.04, C:0.18, G:0.04, T:0.73
Consensus pattern (22 bp):
TCTTTCTACTGTTTCTTTTTTT
Found at i:59031161 original size:13 final size:13
Alignment explanation
Indices: 59031125--59031164 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
59031115 TTTTTCAGCA
59031125 TCTTTCTACTGTT
1 TCTTTCTACTGTT
59031138 TCTTT-T--T-TT
1 TCTTTCTACTGTT
59031147 TCTTTCTACTGTT
1 TCTTTCTACTGTT
59031160 TCTTT
1 TCTTT
59031165 TTTTTTACTG
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
9 7 0.30
10 2 0.09
12 2 0.09
13 12 0.52
ACGTcount: A:0.05, C:0.20, G:0.05, T:0.70
Consensus pattern (13 bp):
TCTTTCTACTGTT
Found at i:59031175 original size:17 final size:19
Alignment explanation
Indices: 59031125--59031177 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 19
59031115 TTTTTCAGCA
59031125 TCTTTCTACTGTTTCTTTTTTT
1 TCTTTCTACTGTTTC---TTTT
59031147 TCTTTCTACTGTTTCTTTT
1 TCTTTCTACTGTTTCTTTT
59031166 T-TTT-TACTGTTT
1 TCTTTCTACTGTTT
59031178 TATGTCAGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.26
18 3 0.10
19 5 0.16
22 15 0.48
ACGTcount: A:0.06, C:0.17, G:0.06, T:0.72
Consensus pattern (19 bp):
TCTTTCTACTGTTTCTTTT
Found at i:59033887 original size:3 final size:3
Alignment explanation
Indices: 59033874--59033951 Score: 56
Period size: 3 Copynumber: 27.0 Consensus size: 3
59033864 TTCCATTTTC
* * * * *
59033874 TCT TAT TCT TCT TC- TCC TCC TCT TCT TTT TCT TAT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
* *
59033921 TC- TCT GT-T TCT T-T TCT TAT TCT TCT TTT TCT
1 TCT TCT -TCT TCT TCT TCT TCT TCT TCT TCT TCT
59033952 ACTGCCCAAG
Statistics
Matches: 59, Mismatches: 11, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
2 7 0.12
3 51 0.86
4 1 0.02
ACGTcount: A:0.04, C:0.28, G:0.01, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:59033905 original size:31 final size:29
Alignment explanation
Indices: 59033869--59033946 Score: 95
Period size: 29 Copynumber: 2.6 Consensus size: 29
59033859 TCTCCTTCCA
*
59033869 TTTTCTCTTATTCTTCTTCTCCTCCTCT-
1 TTTTTTCTTATTCTTCTTCTCCTCCTCTG
* *
59033897 TCTTTTTCTTATTCTTCTTCTTCTTCTCTG
1 T-TTTTTCTTATTCTTCTTCTCCTCCTCTG
59033927 TTTCTTTTCTTATTCTTCTT
1 -TT-TTTTCTTATTCTTCTT
59033947 TTTCTACTGC
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
28 1 0.02
29 24 0.56
30 1 0.02
31 17 0.40
ACGTcount: A:0.04, C:0.28, G:0.01, T:0.67
Consensus pattern (29 bp):
TTTTTTCTTATTCTTCTTCTCCTCCTCTG
Found at i:59040486 original size:19 final size:19
Alignment explanation
Indices: 59040462--59040499 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
59040452 TATTTAAAAT
59040462 AAATAAATAAATAAAATTA
1 AAATAAATAAATAAAATTA
* *
59040481 AAATAAATAGATTAAATTA
1 AAATAAATAAATAAAATTA
59040500 CTTGTTTGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (19 bp):
AAATAAATAAATAAAATTA
Found at i:59041263 original size:7 final size:7
Alignment explanation
Indices: 59041158--59041256 Score: 191
Period size: 7 Copynumber: 14.3 Consensus size: 7
59041148 GTCAACAAAT
59041158 AAATCAA
1 AAATCAA
59041165 AAATCAA
1 AAATCAA
59041172 AAATCAA
1 AAATCAA
59041179 AAATCAA
1 AAATCAA
59041186 AAATCAA
1 AAATCAA
59041193 AAATCAA
1 AAATCAA
59041200 AAATCAA
1 AAATCAA
59041207 AAATCAA
1 AAATCAA
59041214 AAATCAA
1 AAATCAA
59041221 AAATCAA
1 AAATCAA
59041228 AAATCAA
1 AAATCAA
59041235 AAATCAA
1 AAATCAA
59041242 AAATCAA
1 AAATCAA
59041249 AAAT-AA
1 AAATCAA
59041255 AA
1 AA
59041257 TTAAAAAATA
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
6 4 0.04
7 88 0.96
ACGTcount: A:0.73, C:0.13, G:0.00, T:0.14
Consensus pattern (7 bp):
AAATCAA
Found at i:59041419 original size:33 final size:33
Alignment explanation
Indices: 59041347--59041420 Score: 112
Period size: 33 Copynumber: 2.2 Consensus size: 33
59041337 AAAATTTTAA
* * *
59041347 TATTTTAGTTAGCATTCTAGTTGAAGGAAAAAT
1 TATTTTTGCTAGCATCCTAGTTGAAGGAAAAAT
*
59041380 TATTTTTGCTAGCATCCTCGTTGAAGGAAAAAT
1 TATTTTTGCTAGCATCCTAGTTGAAGGAAAAAT
59041413 TATTTTTG
1 TATTTTTG
59041421 ACTATTTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (33 bp):
TATTTTTGCTAGCATCCTAGTTGAAGGAAAAAT
Found at i:59041956 original size:23 final size:22
Alignment explanation
Indices: 59041906--59041957 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 22
59041896 TATGAAATTT
*
59041906 TAAT-TTAATTTAATTTTAATA
1 TAATATTAATATAATTTTAATA
* *
59041927 TATTATTAATATAATTATTTATA
1 TAATATTAATATAATT-TTAATA
59041950 TAATATTA
1 TAATATTA
59041958 TTTTATGATT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 3 0.12
22 10 0.40
23 12 0.48
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TAATATTAATATAATTTTAATA
Found at i:59049317 original size:17 final size:17
Alignment explanation
Indices: 59049289--59049326 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
59049279 TTAATTTTTT
59049289 AAAATTTTAAAAAT-TA
1 AAAATTTTAAAAATATA
59049305 AAAATTATTAAAAATATA
1 AAAATT-TTAAAAATATA
59049323 AAAA
1 AAAA
59049327 ATATCTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 6 0.30
17 8 0.40
18 6 0.30
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAATTTTAAAAATATA
Found at i:59051021 original size:176 final size:175
Alignment explanation
Indices: 59050724--59051051 Score: 552
Period size: 176 Copynumber: 1.9 Consensus size: 175
59050714 AAGTGGGGGA
59050724 AGTAAAAGTTTTGGGGGAAAATAAAGAGGTTTGGGAGTTTAGGGTAAAAATGTAAAATATTATAG
1 AGTAAAAGTTTTGGGGGAAAATAAAGAGGTTTGGGAGTTTAGGGTAAAAATGTAAAATATTATAG
* * * *
59050789 CTTGGTATTTGATTTATTCGAATTTGAAAACCAAACTCGATTCGAACTCGAAATTTAAAAAAAAA
66 CTTGATATTAGATTTATTCGAACTTGAAAACCAAACTCGATTCGAACTCAAAATTTAAAAAAAAA
*
59050854 AATTTCGAGTTGACTCAAATAATAGAAGGGGGTGGGATGAGAGGAT
131 AA-TTAGAGTTGACTCAAATAATAGAAGGGGGTGGGATGAGAGGAT
59050900 AGTAAAAGTTTTGGGGGAAAATAAAGAGGTTTGGGAGTTT-GGGATAAAAATGTAAAATATTATA
1 AGTAAAAGTTTTGGGGGAAAATAAAGAGGTTTGGGAGTTTAGGG-TAAAAATGTAAAATATTATA
* *
59050964 GTTTGATATTCAG-TTTATTCGAACTTGAAAACCAAACTCGATTCGAATTCAAAATTTAAAAAAA
65 GCTTGATATT-AGATTTATTCGAACTTGAAAACCAAACTCGATTCGAACTCAAAATTTAAAAAAA
59051028 AAAATTAGAGTTGACTCAAATAAT
129 AAAATTAGAGTTGACTCAAATAAT
59051052 TAGATTAATT
Statistics
Matches: 143, Mismatches: 7, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
175 22 0.15
176 120 0.84
177 1 0.01
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.30
Consensus pattern (175 bp):
AGTAAAAGTTTTGGGGGAAAATAAAGAGGTTTGGGAGTTTAGGGTAAAAATGTAAAATATTATAG
CTTGATATTAGATTTATTCGAACTTGAAAACCAAACTCGATTCGAACTCAAAATTTAAAAAAAAA
AATTAGAGTTGACTCAAATAATAGAAGGGGGTGGGATGAGAGGAT
Found at i:59051289 original size:17 final size:17
Alignment explanation
Indices: 59051267--59051304 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
59051257 TGAATTAAAA
*
59051267 AAATAAGTAAATA-TATT
1 AAATAA-TAAACATTATT
59051284 AAATAATAAACATTATT
1 AAATAATAAACATTATT
59051301 AAAT
1 AAAT
59051305 GCACTTTAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (17 bp):
AAATAATAAACATTATT
Found at i:59056578 original size:49 final size:50
Alignment explanation
Indices: 59056501--59056730 Score: 266
Period size: 49 Copynumber: 4.6 Consensus size: 50
59056491 TATTGTGAGT
* *
59056501 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGGTAATT-GG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGG
** * * * * *
59056550 TCGTATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TTAGG
* * * * **
59056601 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTTAGG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGG
* *
59056651 TCACGTGTGTAGTACTAAGTGCAGGCTACTAAGTGTACCGGATAATT-GG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGG
* *
59056700 TCGCATGTGTAGTACTAAGTGCAGGTTACTA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTA
59056731 TGCGTACCAG
Statistics
Matches: 150, Mismatches: 29, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
49 68 0.45
50 46 0.31
51 36 0.24
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (50 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGG
Found at i:59056695 original size:101 final size:98
Alignment explanation
Indices: 59056501--59056743 Score: 288
Period size: 100 Copynumber: 2.4 Consensus size: 98
59056491 TATTGTGAGT
* * * **
59056501 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGGTAATTGGTCGTATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACT
*
59056566 AAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
66 AAGTGCAGGCTACTAAGCGTACCCGATAA-TT-GA
* ** *
59056601 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAATT-GGTCACATGTGTAGTAC
* * *
59056666 TAAGTGCAGGCTACTAAGTGTACCGGATAATTGG
65 TAAGTGCAGGCTACTAAGCGTACCCGATAATTGA
* * * * * *
59056700 TCGCATGTGTAGTACTAAGTGCAGGTTACTATGCGTACCAGATA
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATA
59056744 GCTTTGGCTA
Statistics
Matches: 121, Mismatches: 21, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
99 37 0.31
100 43 0.36
101 41 0.34
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (98 bp):
TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACT
AAGTGCAGGCTACTAAGCGTACCCGATAATTGA
Found at i:59058213 original size:41 final size:44
Alignment explanation
Indices: 59058123--59058246 Score: 132
Period size: 41 Copynumber: 2.9 Consensus size: 44
59058113 TAAGACCACA
* ***
59058123 TCTGGGAC-GTTGGCATCAATATGTGATTATGTGTAAGAC-CATG
1 TCTGGGACAG-TGGCATCGATATGTGATTGCATGTAAGACTCATG
* *
59058166 TCTGGGACATTGGCATCG-TATTTGATT-CATGTAAGACTC-TG
1 TCTGGGACAGTGGCATCGATATGTGATTGCATGTAAGACTCATG
* *
59058207 TTTGGGACAGTGGCATCGATATGTGATTGTATGTAAGACT
1 TCTGGGACAGTGGCATCGATATGTGATTGCATGTAAGACT
59058247 ACATCCGAGA
Statistics
Matches: 68, Mismatches: 9, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
41 26 0.38
42 17 0.25
43 25 0.37
ACGTcount: A:0.24, C:0.14, G:0.27, T:0.35
Consensus pattern (44 bp):
TCTGGGACAGTGGCATCGATATGTGATTGCATGTAAGACTCATG
Found at i:59058264 original size:43 final size:42
Alignment explanation
Indices: 59058112--59058265 Score: 141
Period size: 43 Copynumber: 3.6 Consensus size: 42
59058102 GTGTTCTCGA
* * *
59058112 GTAAGACCACATCTGGGACGTTGGCATCAATATGTGATTATGT
1 GTAAGACCACATCTGGGACATTGGCATCGATATGTGATT-TAT
** * *
59058155 GTAAGACCATGTCTGGGACATTGGCATCG-TATTTGATTCAT
1 GTAAGACCACATCTGGGACATTGGCATCGATATGTGATTTAT
** * *
59058196 GTAAGACTC-TGTTTGGGACAGTGGCATCGATATGTGATTGTAT
1 GTAAGAC-CACATCTGGGACATTGGCATCGATATGTGATT-TAT
* * *
59058239 GTAAGACTACATCCGAGACATTGGCAT
1 GTAAGACCACATCTGGGACATTGGCAT
59058266 TGTATGATAT
Statistics
Matches: 89, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
41 26 0.29
42 17 0.19
43 46 0.52
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (42 bp):
GTAAGACCACATCTGGGACATTGGCATCGATATGTGATTTAT
Found at i:59060848 original size:61 final size:61
Alignment explanation
Indices: 59060711--59060849 Score: 169
Period size: 60 Copynumber: 2.3 Consensus size: 61
59060701 TCTCGACTTG
* *
59060711 TAATAGGGCTACGGCCCAAATTGATACTGATATAGGCTAGGCCCAGTATACTCTGATATTG
1 TAATAGGGCTACGGCCCAAATTAATACTGATATAGGCTAGGCCCAGTATACTCTGATATTC
* * * *
59060772 TAA-GGGGCTACGGCCCACATTAATATTGATATGGGCTAAGGCCCAGT-TAACTCTGAT-TTC
1 TAATAGGGCTACGGCCCAAATTAATACTGATATAGGCT-AGGCCCAGTAT-ACTCTGATATTC
59060832 TAATAGGGCTTA-GGCCCA
1 TAATAGGGC-TACGGCCCA
59060850 GTAAAGCTTG
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
60 35 0.52
61 30 0.45
62 2 0.03
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (61 bp):
TAATAGGGCTACGGCCCAAATTAATACTGATATAGGCTAGGCCCAGTATACTCTGATATTC
Found at i:59067527 original size:40 final size:40
Alignment explanation
Indices: 59067476--59067745 Score: 522
Period size: 40 Copynumber: 6.8 Consensus size: 40
59067466 CATTTGAATG
59067476 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
59067516 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
59067556 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
59067596 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
59067636 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
59067676 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
59067716 ATATCCGGGCTAAGACCTGAAGGCATTTGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGT
59067746 ATAAGACCCG
Statistics
Matches: 227, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 227 1.00
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
Found at i:59067689 original size:120 final size:120
Alignment explanation
Indices: 59067476--59067961 Score: 643
Period size: 120 Copynumber: 3.9 Consensus size: 120
59067466 CATTTGAATG
*
59067476 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCA
59067541 TTTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
66 TTTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
59067596 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCA
59067661 TTTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
66 TTTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
59067716 ATATCCGGGCTAAGACCTGAAGGCATTTGTATAAGACCCGAAGGCATTTGTGCGAATTGATATAT
1 ATATCCGGGCTAAGACCCGAAGGCA--T-T-T-----------------GTGCGAATTGATATAT
* * *
59067781 CCGGGATAAGACCCGAAGGCATTTGTGCGAACTGATATATCCGGGCTAAGACCCGACGGCGTTTG
45 CCGGGATAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATTTG
59067846 TGCGAATTGAT
110 TGCGAATTGAT
* *
59067857 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTGATATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAA-TTGATATATCCGGGATAAGACCCGAAGGC
* * * * *
59067921 ATTCGTGTGAGTTGCTATA-CTCGGGTTAAGACCCGAAGGCA
65 ATTTGTGCGAATTGATATATC-CGGGCTAAGACCCGAAGGCA
59067962 ATTGAGCTTG
Statistics
Matches: 327, Mismatches: 16, Indels: 46
0.84 0.04 0.12
Matches are distributed among these distances:
119 3 0.01
120 206 0.63
122 1 0.00
123 1 0.00
124 1 0.00
137 1 0.00
138 1 0.00
141 113 0.35
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (120 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCA
TTTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
Found at i:59067752 original size:21 final size:21
Alignment explanation
Indices: 59067726--59067766 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
59067716 ATATCCGGGC
*
59067726 TAAGACCTGAAGGCATTTGTA
1 TAAGACCCGAAGGCATTTGTA
59067747 TAAGACCCGAAGGCATTTGT
1 TAAGACCCGAAGGCATTTGT
59067767 GCGAATTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (21 bp):
TAAGACCCGAAGGCATTTGTA
Found at i:59067781 original size:61 final size:61
Alignment explanation
Indices: 59067686--59067806 Score: 224
Period size: 61 Copynumber: 2.0 Consensus size: 61
59067676 ATATCCGGGC
* *
59067686 TAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGCTAAGACCTGAAGGCATTTGTA
1 TAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCATTTGTA
59067747 TAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCATTTGT
1 TAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCATTTGT
59067807 GCGAACTGAT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (61 bp):
TAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCATTTGTA
Found at i:59067801 original size:40 final size:40
Alignment explanation
Indices: 59067747--59067961 Score: 308
Period size: 40 Copynumber: 5.4 Consensus size: 40
59067737 GGCATTTGTA
*
59067747 TAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGA
1 TAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGC
*
59067787 TAAGACCCGAAGGCATTTGTGCGAACTGATATATCCGGGC
1 TAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGC
* *
59067827 TAAGACCCGACGGCGTTTGTGCGAATTGATATATCCGGGC
1 TAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGC
*
59067867 TAAGACCCGAAGGCAATTGTGC-AAGTTGATATATCCGGGC
1 TAAGACCCGAAGGCATTTGTGCGAA-TTGATATATCCGGGC
* * * * *
59067907 TAAGACCCGAAGGCATTCGTGTGAGTTGCTATA-CTCGGGT
1 TAAGACCCGAAGGCATTTGTGCGAATTGATATATC-CGGGC
59067947 TAAGACCCGAAGGCA
1 TAAGACCCGAAGGCA
59067962 ATTGAGCTTG
Statistics
Matches: 158, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
39 3 0.02
40 154 0.97
41 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.23
Consensus pattern (40 bp):
TAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGC
Found at i:59067820 original size:101 final size:101
Alignment explanation
Indices: 59067645--59067833 Score: 360
Period size: 101 Copynumber: 1.9 Consensus size: 101
59067635 TATATCCGGG
*
59067645 ATAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA
1 ATAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCATTTGTGCGA
*
59067710 ATTGATATATCCGGGCTAAGACCTGAAGGCATTTGT
66 ACTGATATATCCGGGCTAAGACCTGAAGGCATTTGT
59067746 ATAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCATTTGTGCGA
1 ATAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCATTTGTGCGA
59067811 ACTGATATATCCGGGCTAAGACC
66 ACTGATATATCCGGGCTAAGACC
59067834 CGACGGCGTT
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
101 86 1.00
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (101 bp):
ATAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCATTTGTGCGA
ACTGATATATCCGGGCTAAGACCTGAAGGCATTTGT
Found at i:59067860 original size:141 final size:141
Alignment explanation
Indices: 59067606--59067886 Score: 517
Period size: 141 Copynumber: 2.0 Consensus size: 141
59067596 ATATCCGGGC
59067606 TAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCATTTGTGCGAA
1 TAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCATTTGTGCGAA
* *
59067671 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGCTAAGACCTGA
66 CTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGCTAAGACCCGA
*
59067736 AGGCATTTGTA
131 AGGCAATTGTA
59067747 TAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCATTTGTGCGAA
1 TAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCATTTGTGCGAA
* *
59067812 CTGATATATCCGGGCTAAGACCCGACGGCGTTTGTGCGAATTGATATATCCGGGCTAAGACCCGA
66 CTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGCTAAGACCCGA
59067877 AGGCAATTGT
131 AGGCAATTGT
59067887 GCAAGTTGAT
Statistics
Matches: 135, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
141 135 1.00
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (141 bp):
TAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCATTTGTGCGAA
CTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGCTAAGACCCGA
AGGCAATTGTA
Found at i:59067870 original size:181 final size:181
Alignment explanation
Indices: 59067566--59067923 Score: 637
Period size: 181 Copynumber: 2.0 Consensus size: 181
59067556 ATATCCGGGC
*
59067566 TAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAA
1 TAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCATTTGTGCGAA
*
59067631 TTGATATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGCTAAGACCCGA
66 CTGATATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGCTAAGACCCGA
* *
59067696 AGGCATTTGTGCGAA-TTGATATATCCGGGCTAAGACCTGAAGGCATTTGTA
131 AGGCAATTGTGC-AAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGTA
59067747 TAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCATTTGTGCGAA
1 TAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCATTTGTGCGAA
* * *
59067812 CTGATATATCCGGGCTAAGACCCGACGGCGTTTGTGCGAATTGATATATCCGGGCTAAGACCCGA
66 CTGATATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGCTAAGACCCGA
59067877 AGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
131 AGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
59067924 CGTGTGAGTT
Statistics
Matches: 169, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
180 2 0.01
181 167 0.99
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.24
Consensus pattern (181 bp):
TAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCATTTGTGCGAA
CTGATATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGCTAAGACCCGA
AGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGTA
Found at i:59067909 original size:221 final size:221
Alignment explanation
Indices: 59067526--59067961 Score: 732
Period size: 221 Copynumber: 2.0 Consensus size: 221
59067516 ATATCCGGGC
*
59067526 TAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAA
1 TAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCATTTGTGCGAA
*
59067591 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGATAAGACCCGA
66 CTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGATAAGACCCGA
* *
59067656 AGGCATTTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGATATA-T
131 AGGCAATTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAATTGATATACT
*
59067720 CCGGGCTAAGACCTGAAGGCATTTGTA
196 -CGGGCTAAGACCCGAAGGCATTTGTA
59067747 TAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCATTTGTGCGAA
1 TAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCATTTGTGCGAA
* * *
59067812 CTGATATATCCGGGCTAAGACCCGACGGCGTTTGTGCGAATTGATATATCCGGGCTAAGACCCGA
66 CTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGATAAGACCCGA
* * *
59067877 AGGCAATTGTGC-AAGTTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGTGAGTTGCTATAC
131 AGGCAATTGTGCGAA-TTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAATTGATATAC
*
59067941 TCGGGTTAAGACCCGAAGGCA
195 TCGGGCTAAGACCCGAAGGCA
59067962 ATTGAGCTTG
Statistics
Matches: 201, Mismatches: 12, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
220 2 0.01
221 198 0.99
222 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (221 bp):
TAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCATTTGTGCGAA
CTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGATAAGACCCGA
AGGCAATTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAATTGATATACT
CGGGCTAAGACCCGAAGGCATTTGTA
Found at i:59067980 original size:120 final size:119
Alignment explanation
Indices: 59067747--59067988 Score: 290
Period size: 120 Copynumber: 2.0 Consensus size: 119
59067737 GGCATTTGTA
* *
59067747 TAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCATTTGTGCGAA
1 TAAGACCCGAAGGCAATTGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCATTCGTGCGAA
* ** * *
59067812 CTGATATATCCGGGCTAAGACCCGACGGCGTTTGTGCGAATTGATATATCCGGGC
66 CTGATATATCCGGGCTAAGACCCGAAGGCAATTGAGCGAATGGATATATCC-GGC
* *
59067867 TAAGACCCGAAGGCAATTGTGC-AAGTTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGTGA
1 TAAGACCCGAAGGCAATTGTGCGAA-TTGATATATCCGGGATAAGACCCGAAGGCATTCGTGCGA
** * * *** *
59067931 GTTGCTATA-CTCGGGTTAAGACCCGAAGGCAATTGAGCTTGTGGTTATATCCGGC
65 ACTGATATATC-CGGGCTAAGACCCGAAGGCAATTGAGCGAATGGATATATCCGGC
59067986 TAA
1 TAA
59067989 ATTCCGAAGA
Statistics
Matches: 103, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
119 9 0.09
120 94 0.91
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (119 bp):
TAAGACCCGAAGGCAATTGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCATTCGTGCGAA
CTGATATATCCGGGCTAAGACCCGAAGGCAATTGAGCGAATGGATATATCCGGC
Found at i:59069653 original size:49 final size:49
Alignment explanation
Indices: 59069579--59069766 Score: 234
Period size: 49 Copynumber: 3.8 Consensus size: 49
59069569 TAGCCAAAGC
59069579 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCAAT
* * * * *
59069628 AATCTGGTACACGTAGTAGCTTGCACTTAGTACTACACACGTG-ATCACAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA--TGCAAC-CAAT
* * * * *
59069679 TTTCGGGTACGCATAGTTGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCAAT
* *
59069728 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
59069767 CGTGACCTCA
Statistics
Matches: 115, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
49 75 0.65
50 3 0.03
51 37 0.32
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCAAT
Found at i:59069708 original size:100 final size:100
Alignment explanation
Indices: 59069584--59069771 Score: 322
Period size: 100 Copynumber: 1.9 Consensus size: 100
59069574 AAAGCTATCT
* *
59069584 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCAATAATCTGGTACACGTAGTAGCT
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCAATAATCCGGTACACGTAGTAGCC
59069649 TGCACTTAGTACTACACACGTGATCACAGTTTTCG
66 TGCACTTAGTACTACACACGTGATCACAGTTTTCG
* * * *
59069684 GGTACGCATAGTTGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCAATAATCCGGTACACGTAGTAGCC
59069749 TGCACTTAGTACTACACACGTGA
66 TGCACTTAGTACTACACACGTGA
59069772 CCTCACAATA
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 82 1.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (100 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCAATAATCCGGTACACGTAGTAGCC
TGCACTTAGTACTACACACGTGATCACAGTTTTCG
Found at i:59072316 original size:40 final size:40
Alignment explanation
Indices: 59072223--59072440 Score: 266
Period size: 40 Copynumber: 5.5 Consensus size: 40
59072213 AAGCCAAGTA
* * *
59072223 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * * *
59072261 CCTTCAGGACATAGCCCGGATCTAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
59072301 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
59072341 CATTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
59072381 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
59072422 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
59072441 TTATCATCCA
Statistics
Matches: 157, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
38 11 0.07
39 16 0.10
40 102 0.65
41 24 0.15
42 4 0.03
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:59076198 original size:57 final size:58
Alignment explanation
Indices: 59076135--59076244 Score: 145
Period size: 58 Copynumber: 1.9 Consensus size: 58
59076125 AATTTTTTTT
* * *
59076135 ATGACATATGCTCTA-AGGAGCTT-GATCTGGGTTACCCGTCCG-GGCTAAATCCAATCC
1 ATGACATATGCTCGAGAGGA-CTTAGATCAGGATTACCCGT-CGAGGCTAAATCCAATCC
*
59076192 ATGACATATGCTCGAGAGGACTTATATCAGGATTACCCGTCGAGGCTAAATCC
1 ATGACATATGCTCGAGAGGACTTAGATCAGGATTACCCGTCGAGGCTAAATCC
59076245 TTTCTGTAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
57 19 0.41
58 27 0.59
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (58 bp):
ATGACATATGCTCGAGAGGACTTAGATCAGGATTACCCGTCGAGGCTAAATCCAATCC
Found at i:59078496 original size:31 final size:30
Alignment explanation
Indices: 59078459--59078523 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 30
59078449 GTATAGGATT
* *
59078459 TATGATTTATGAAACGGCTTTGGCCCAGTGA
1 TATGATTTATGAAAAGGCTTCGGCCCAGT-A
59078490 TATGATTTATGAAAAGGCTTCGGCCCAGTA
1 TATGATTTATGAAAAGGCTTCGGCCCAGTA
59078520 TATG
1 TATG
59078524 CCGAGACTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 5 0.16
31 27 0.84
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (30 bp):
TATGATTTATGAAAAGGCTTCGGCCCAGTA
Found at i:59080539 original size:40 final size:40
Alignment explanation
Indices: 59080462--59080679 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
59080452 AAACCAAGTA
* * *
59080462 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCACTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
59080501 CCTTCGGGACTTAGCCTGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
59080541 CCTTCGGGACCTAGCCCAGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
59080581 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
59080621 CCTTCGGGACTTAGCCC-GAAATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
59080661 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
59080680 TTATCATCCG
Statistics
Matches: 159, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
39 17 0.11
40 141 0.89
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:59084206 original size:26 final size:27
Alignment explanation
Indices: 59084153--59084212 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 27
59084143 ATTACCAAAG
*
59084153 TACCCTCAATTTATAGAATTACTGTTT
1 TACCCTCAATTTATAGAATTACTATTT
*
59084180 TACCCTTAATTTA-AGAATTACTATTT
1 TACCCTCAATTTATAGAATTACTATTT
59084206 TACCCTC
1 TACCCTC
59084213 GATTGTGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 18 0.60
27 12 0.40
ACGTcount: A:0.30, C:0.22, G:0.05, T:0.43
Consensus pattern (27 bp):
TACCCTCAATTTATAGAATTACTATTT
Found at i:59084278 original size:27 final size:27
Alignment explanation
Indices: 59084215--59084344 Score: 138
Period size: 27 Copynumber: 4.8 Consensus size: 27
59084205 TTACCCTCGA
* *
59084215 TTGTGAAATTACTAAAATACCCCTA-T
1 TTGTAAAATTACCAAAATACCCCTAGT
** *
59084241 AGGGTAGAATTACCAAAATACCCCTAGT
1 -TTGTAAAATTACCAAAATACCCCTAGT
* *
59084269 TTGTAAAATTACCAAAATACCACTGGT
1 TTGTAAAATTACCAAAATACCCCTAGT
* * *
59084296 TTGTGAAATTACCGAAATA-CCCTCAAT
1 TTGTAAAATTACCAAAATACCCCT-AGT
59084323 TTGTAAAATTACCAAAATACCC
1 TTGTAAAATTACCAAAATACCC
59084345 TTGATTTACA
Statistics
Matches: 83, Mismatches: 17, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
26 3 0.04
27 77 0.93
28 3 0.04
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCCTAGT
Found at i:59084345 original size:27 final size:27
Alignment explanation
Indices: 59084248--59084372 Score: 121
Period size: 27 Copynumber: 4.6 Consensus size: 27
59084238 TATAGGGTAG
*
59084248 AATTACCAAAATACCC-CTAGTTTGTAA
1 AATTACCAAAATACCCTC-AATTTGTAA
** *
59084275 AATTACCAAAATACCACT-GGTTTGTGA
1 AATTACCAAAATACC-CTCAATTTGTAA
*
59084302 AATTACCGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCCTCAATTTGTAA
** **
59084329 AATTACCAAAATACCCTTGATTTACAA
1 AATTACCAAAATACCCTCAATTTGTAA
59084356 AATTA-CAGAAATACCCT
1 AATTACCA-AAATACCCT
59084373 TGACTTTCTA
Statistics
Matches: 83, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
26 4 0.05
27 78 0.94
28 1 0.01
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCTCAATTTGTAA
Found at i:59084359 original size:54 final size:54
Alignment explanation
Indices: 59084248--59084456 Score: 199
Period size: 54 Copynumber: 3.9 Consensus size: 54
59084238 TATAGGGTAG
* ***
59084248 AATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAATACCAC-TGGTTTGTGA
1 AATTACCGAAATACCCTC-AGTTTGTAAAATTACCAAAATACC-CTTGGTTTACAA
* *
59084302 AATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTTGATTTACAA
1 AATTACCGAAATACCCTCAGTTTGTAAAATTACCAAAATACCCTTGGTTTACAA
* * * * * *
59084356 AATTACAGAAATACCCTTGACTTTCTAAAATTA-TAGAAATACCATTGGTTTACAA
1 AATTACCGAAATACCC-TCAGTTTGTAAAATTACCA-AAATACCCTTGGTTTACAA
* ** * * *
59084411 AATTACTGAAATACCCTTGGTTTGTAGATTTACCAAAACACCCTTG
1 AATTACCGAAATACCCTCAGTTTGTAAAATTACCAAAATACCCTTG
59084457 TAGGATGAAA
Statistics
Matches: 127, Mismatches: 23, Indels: 10
0.79 0.14 0.06
Matches are distributed among these distances:
53 1 0.01
54 79 0.62
55 47 0.37
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (54 bp):
AATTACCGAAATACCCTCAGTTTGTAAAATTACCAAAATACCCTTGGTTTACAA
Found at i:59084373 original size:27 final size:27
Alignment explanation
Indices: 59084301--59084429 Score: 136
Period size: 27 Copynumber: 4.7 Consensus size: 27
59084291 CTGGTTTGTG
* ** **
59084301 AAATTACCGAAATACCCTCAATTTGTA
1 AAATTACAGAAATACCCTTGATTTACA
59084328 AAATTACCA-AAATACCCTTGATTTACA
1 AAATTA-CAGAAATACCCTTGATTTACA
59084355 AAATTACAGAAATACCCTTGACTTT-CTA
1 AAATTACAGAAATACCCTTGA-TTTAC-A
* * *
59084383 AAATTATAGAAATACCATTGGTTTACA
1 AAATTACAGAAATACCCTTGATTTACA
*
59084410 AAATTACTGAAATACCCTTG
1 AAATTACAGAAATACCCTTG
59084430 GTTTGTAGAT
Statistics
Matches: 86, Mismatches: 11, Indels: 10
0.80 0.10 0.09
Matches are distributed among these distances:
26 2 0.02
27 60 0.70
28 24 0.28
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACAGAAATACCCTTGATTTACA
Found at i:59084408 original size:55 final size:55
Alignment explanation
Indices: 59084272--59084429 Score: 185
Period size: 55 Copynumber: 2.9 Consensus size: 55
59084262 CCCTAGTTTG
* *** * * *
59084272 TAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACCC-TCAATTTG
1 TAAAATTACCAAAATACCATTGGTTTACAAAATTACAGAAATACCCTTGAATTTC
* * *
59084326 TAAAATTACCAAAATACCCTTGATTTACAAAATTACAGAAATACCCTTGACTTTC
1 TAAAATTACCAAAATACCATTGGTTTACAAAATTACAGAAATACCCTTGAATTTC
* *
59084381 TAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAATACCCTTG
1 TAAAATTACCA-AAATACCATTGGTTTACAAAATTACAGAAATACCCTTG
59084430 GTTTGTAGAT
Statistics
Matches: 88, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
54 40 0.45
55 48 0.55
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (55 bp):
TAAAATTACCAAAATACCATTGGTTTACAAAATTACAGAAATACCCTTGAATTTC
Found at i:59084551 original size:27 final size:27
Alignment explanation
Indices: 59084474--59084551 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
59084464 AAATGACTAA
* *
59084474 AATACCCCT-AATAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* *
59084501 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
59084528 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
59084552 GAATATGCCT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 39 0.93
28 2 0.05
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.21
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:59085419 original size:24 final size:25
Alignment explanation
Indices: 59085343--59085412 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
59085333 AGGAAGTGCT
* * *
59085343 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
59085368 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
59085393 AAAAGGGCTTTGCCCTAGTT
1 AAAAGGGCTTTGCCCCAGTT
59085413 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:59085425 original size:24 final size:25
Alignment explanation
Indices: 59085343--59085425 Score: 84
Period size: 25 Copynumber: 3.4 Consensus size: 25
59085333 AGGAAGTGCT
* *
59085343 AAAAG-GGCTATGCCCCAGTTTACC
1 AAAAGAGGCTTTGCCCCAGTTTATC
59085367 GAAAAG-GGCTTTGCCCCAGTTTATC
1 -AAAAGAGGCTTTGCCCCAGTTTATC
* *
59085392 AAAA-AGGGCTTTGCCCTAG-TTATT
1 AAAAGA-GGCTTTGCCCCAGTTTATC
59085416 AAAAGAGGCT
1 AAAAGAGGCT
59085426 AGGCCTCCAG
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
24 16 0.31
25 35 0.69
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (25 bp):
AAAAGAGGCTTTGCCCCAGTTTATC
Found at i:59085681 original size:31 final size:31
Alignment explanation
Indices: 59085636--59085714 Score: 126
Period size: 31 Copynumber: 2.6 Consensus size: 31
59085626 TACAGTAAAG
59085636 GCTTCGG-CCAGTGATATGATTTATGAAAAA
1 GCTTCGGCCCAGTGATATGATTTATGAAAAA
*
59085666 GCTTCGGCCCAGTGATATGATTTATGAAAAG
1 GCTTCGGCCCAGTGATATGATTTATGAAAAA
*
59085697 GCTTCGGCCGAGT-ATATG
1 GCTTCGGCCCAGTGATATG
59085715 TCGAGACTGA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
30 12 0.26
31 34 0.74
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (31 bp):
GCTTCGGCCCAGTGATATGATTTATGAAAAA
Found at i:59095680 original size:21 final size:22
Alignment explanation
Indices: 59095654--59095698 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
59095644 TGTAGCGCAA
**
59095654 GCATG-TCCTAGGGTCACACGG
1 GCATGTTCCTAGGACCACACGG
*
59095675 GCATGTTCCTTGGACCACACGG
1 GCATGTTCCTAGGACCACACGG
59095697 GC
1 GC
59095699 GTGTGAACCC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.18, C:0.31, G:0.31, T:0.20
Consensus pattern (22 bp):
GCATGTTCCTAGGACCACACGG
Found at i:59097489 original size:42 final size:41
Alignment explanation
Indices: 59097440--59097540 Score: 107
Period size: 43 Copynumber: 2.4 Consensus size: 41
59097430 TGAGATTACG
59097440 TGTAAGACCATATCTGGC-ATATGGAATTGAGATGAGACTTCC-
1 TGTAAGACCATATCTGGCTAT-TGGAATTGAGATGAGA--TCCA
* * *
59097482 TGTAAGACCATAGCTGGGCTATTGGCATTGATATGAGATCCTA
1 TGTAAGACCATATCT-GGCTATTGGAATTGAGATGAGATCC-A
*
59097525 TGTAAGACCACATCTG
1 TGTAAGACCATATCTG
59097541 AGATATGACA
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
41 3 0.06
42 15 0.30
43 30 0.60
44 2 0.04
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.29
Consensus pattern (41 bp):
TGTAAGACCATATCTGGCTATTGGAATTGAGATGAGATCCA
Found at i:59097662 original size:20 final size:20
Alignment explanation
Indices: 59097634--59097680 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
59097624 CGGTAATGTT
59097634 TAAGTTGTGAAAGATTATGG
1 TAAGTTGTGAAAGATTATGG
*
59097654 TATGTTGTGAAAGATTATGG
1 TAAGTTGTGAAAGATTATGG
59097674 TAAGTTG
1 TAAGTTG
59097681 CAAGTTGGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.30, T:0.38
Consensus pattern (20 bp):
TAAGTTGTGAAAGATTATGG
Found at i:59103184 original size:8 final size:8
Alignment explanation
Indices: 59103173--59103216 Score: 54
Period size: 8 Copynumber: 5.2 Consensus size: 8
59103163 AAAAATAAAT
59103173 TTAAAAAA
1 TTAAAAAA
59103181 TT-AAAAA
1 TTAAAAAA
59103188 TATATAAAAA
1 T-TA-AAAAA
59103198 TTAAAAAA
1 TTAAAAAA
59103206 TTAAGAAAA
1 TTAA-AAAA
59103215 TT
1 TT
59103217 TCACTAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
7 6 0.19
8 12 0.38
9 8 0.25
10 6 0.19
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (8 bp):
TTAAAAAA
Found at i:59103214 original size:17 final size:15
Alignment explanation
Indices: 59103173--59103216 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 15
59103163 AAAAATAAAT
59103173 TTAAAAAATTAAAAA
1 TTAAAAAATTAAAAA
59103188 TATATAAAAATTAAAAAA
1 T-TA-AAAAATT-AAAAA
59103206 TTAAGAAAATT
1 TTAA-AAAATT
59103217 TCACTAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 1 0.04
16 3 0.12
17 15 0.60
18 6 0.24
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (15 bp):
TTAAAAAATTAAAAA
Found at i:59106021 original size:25 final size:25
Alignment explanation
Indices: 59105988--59106167 Score: 207
Period size: 25 Copynumber: 7.1 Consensus size: 25
59105978 CCTCAAAGAT
* *
59105988 TTATCAGATGATTCACCACAGAGGT
1 TTATCAGATGATTCACCACAAAGGC
* *
59106013 TTATCAGATAATTCACTACAAAGGC
1 TTATCAGATGATTCACCACAAAGGC
* **
59106038 TTATTAGATGATTTGCCACAAAGGC
1 TTATCAGATGATTCACCACAAAGGC
* *
59106063 TTATCAAATGATTCACCATAAAGGC
1 TTATCAGATGATTCACCACAAAGGC
59106088 TTATCAGATGATTCACCACTACAAAGGC
1 TTATCAGATGATTCA-C-C-ACAAAGGC
* **
59106116 TTATTAGATGATTTGCCACAAAGGC
1 TTATCAGATGATTCACCACAAAGGC
* *
59106141 TTATTAGATAATTCACCACAAAGGC
1 TTATCAGATGATTCACCACAAAGGC
59106166 TT
1 TT
59106168 CACGTAAACT
Statistics
Matches: 130, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
25 107 0.82
26 2 0.02
27 2 0.02
28 19 0.15
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (25 bp):
TTATCAGATGATTCACCACAAAGGC
Found at i:59106135 original size:78 final size:75
Alignment explanation
Indices: 59105988--59106167 Score: 270
Period size: 78 Copynumber: 2.4 Consensus size: 75
59105978 CCTCAAAGAT
* *
59105988 TTATCAGATGATTCACCACAGAGGTTTATCAGATAATTCACTACAAAGGCTTATTAGATGATTTG
1 TTATCAGATGATTCACCACAAAGGCTTATCAGATAATTCACTACAAAGGCTTATTAGATGATTTG
59106053 CCACAAAGGC
66 CCACAAAGGC
* * *
59106063 TTATCAAATGATTCACCATAAAGGCTTATCAGATGATTCACCACTACAAAGGCTTATTAGATGAT
1 TTATCAGATGATTCACCACAAAGGCTTATCAGATAATT---CACTACAAAGGCTTATTAGATGAT
59106128 TTGCCACAAAGGC
63 TTGCCACAAAGGC
* *
59106141 TTATTAGATAATTCACCACAAAGGCTT
1 TTATCAGATGATTCACCACAAAGGCTT
59106168 CACGTAAACT
Statistics
Matches: 93, Mismatches: 9, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
75 33 0.35
78 60 0.65
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (75 bp):
TTATCAGATGATTCACCACAAAGGCTTATCAGATAATTCACTACAAAGGCTTATTAGATGATTTG
CCACAAAGGC
Found at i:59109446 original size:28 final size:30
Alignment explanation
Indices: 59109414--59109482 Score: 72
Period size: 28 Copynumber: 2.4 Consensus size: 30
59109404 GTTACCATTG
59109414 TTGATAAATTGATGAG-TTAGACT-TGAAA
1 TTGATAAATTGATGAGCTTAGACTATGAAA
* * *
59109442 TTGATAGATT-TTGAGCTTAGATTATGAAA
1 TTGATAAATTGATGAGCTTAGACTATGAAA
*
59109471 ATGACTAAATTG
1 TTGA-TAAATTG
59109483 TAAAGTTAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
27 4 0.12
28 15 0.47
29 8 0.25
30 5 0.16
ACGTcount: A:0.38, C:0.04, G:0.20, T:0.38
Consensus pattern (30 bp):
TTGATAAATTGATGAGCTTAGACTATGAAA
Found at i:59116436 original size:30 final size:30
Alignment explanation
Indices: 59116400--59116456 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
59116390 AAAATCATAT
59116400 TTTTACAAATTTGCA-TTTTGGCCCCTAAAC
1 TTTTACAAATTTGCACTTTT-GCCCCTAAAC
* *
59116430 TTTTACATATTTGTACTTTTGCCCCTA
1 TTTTACAAATTTGCACTTTTGCCCCTA
59116457 TGCTTGGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.46
Consensus pattern (30 bp):
TTTTACAAATTTGCACTTTTGCCCCTAAAC
Found at i:59118302 original size:21 final size:21
Alignment explanation
Indices: 59118286--59118344 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
59118276 CGATGTCATT
* *
59118286 ACATTCAATTCTAATGTCACA
1 ACATCCAATTCAAATGTCACA
*
59118307 ACATCCAATTCAAATGTCACG
1 ACATCCAATTCAAATGTCACA
* *
59118328 ACATCCAACTCCAATGT
1 ACATCCAATTCAAATGT
59118345 TGCAACATTC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (21 bp):
ACATCCAATTCAAATGTCACA
Found at i:59121092 original size:68 final size:64
Alignment explanation
Indices: 59120975--59121227 Score: 219
Period size: 68 Copynumber: 3.9 Consensus size: 64
59120965 ATACAGATGG
** * * * *
59120975 TATGTAGCTAGGTCACATGTATGGTGCTGA-GTGCACATCATGTGTACAAGAGAGCTACAAGACA
1 TATGTAGCTAGGTCACATGGGTGGTACT-ATGTGTACACCATGTGTACAAGAGAGCTAC--GAGA
59121039 TTA
63 -TA
* *
59121042 TGATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGCTACGGGAT
1 T-ATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGT-GTACAAGAGAGCTACGAGAT
59121106 A
64 A
* * * * * *
59121107 TATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAG-ACAAGAGAGCTACGAG
1 TATGTAGCTAGGTCACATGGGTGGTACTA--TG-TGTACACCATGT-GTACAAGAGAGCTACGAG
59121171 ATA
62 ATA
* * *
59121174 AACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGTGTACAAGAGAGC
1 TA-TGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTGTACAAGAGAGC
59121228 CGAACTATAT
Statistics
Matches: 155, Mismatches: 23, Indels: 20
0.78 0.12 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.12
64 26 0.17
65 3 0.02
66 23 0.15
67 33 0.21
68 49 0.32
69 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (64 bp):
TATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTGTACAAGAGAGCTACGAGATA
Found at i:59121125 original size:64 final size:64
Alignment explanation
Indices: 59121044--59121227 Score: 212
Period size: 67 Copynumber: 2.8 Consensus size: 64
59121034 AGACATTATG
* *
59121044 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
59121108 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
59121173 AA
63 AA
* * *
59121175 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
59121228 CGAACTATAT
Statistics
Matches: 100, Mismatches: 15, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 26 0.26
66 21 0.21
67 31 0.31
68 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:59121166 original size:67 final size:64
Alignment explanation
Indices: 59121020--59121199 Score: 184
Period size: 67 Copynumber: 2.7 Consensus size: 64
59121010 CATCATGTGT
* * * * *
59121020 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATG
1 ACAAGAGAGCTAC--GAGA-TAT-ATGTAGCTAGGTCGCATGCGTGGTACCATGAGGACACCATG
59121085 TAG
62 TAG
* *
59121088 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGCGTGGTACCA--TG-AGGACACCATGT
59121153 AG
63 AG
* * *
59121155 ACAAGAGAGCTACGAGATAAACTG--GCTAGGTCACATGGGTGGTAC
1 ACAAGAGAGCTACGAGATATA-TGTAGCTAGGTCGCATGCGTGGTAC
59121200 TAAGTGTTCA
Statistics
Matches: 96, Mismatches: 12, Indels: 10
0.81 0.10 0.08
Matches are distributed among these distances:
64 25 0.26
65 3 0.03
66 22 0.23
67 31 0.32
68 15 0.16
ACGTcount: A:0.31, C:0.17, G:0.31, T:0.22
Consensus pattern (64 bp):
ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGCGTGGTACCATGAGGACACCATGTAG
Found at i:59122319 original size:2 final size:2
Alignment explanation
Indices: 59122312--59122336 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
59122302 CCATGACATG
59122312 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 T
59122337 GACTAGTCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:59139504 original size:50 final size:49
Alignment explanation
Indices: 59139390--59139519 Score: 188
Period size: 50 Copynumber: 2.6 Consensus size: 49
59139380 TTGGTACGCA
* * * *
59139390 TAGTAGCCTGCACTTAGTACTAAACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTAAACACGTGACCAACTATCCGATACACG
* *
59139439 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTAAACACGTGACC-AACTATCCGATACACG
*
59139489 TAGTAGCCTGCACTTAGTACTATACACGTGA
1 TAGTAGCCTGCACTTAGTACTAAACACGTGA
59139520 TCGAAGTTAT
Statistics
Matches: 73, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
49 30 0.41
50 43 0.59
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTAAACACGTGACCAACTATCCGATACACG
Found at i:59139592 original size:101 final size:99
Alignment explanation
Indices: 59139390--59139574 Score: 244
Period size: 101 Copynumber: 1.8 Consensus size: 99
59139380 TTGGTACGCA
* *
59139390 TAGTAGCCTGCACTTAGTACTAAACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTAAACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
*
59139455 GTACTACACACGTGACCTAACTATCTGATACACG
66 GTACTACACACGCGACCTAACTATCTGATACACG
* * * ** * *
59139489 TAGTAGCCTGCACTTAGTACTATACACGTGATCGAAGTTATTGGGTACGCATAGTAGCCTGTACT
1 TAGTAGCCTGCACTTAGTACTAAACACGCGA-CCAA-TTATCCGGTACACATAGTAGCCTGCACT
* *
59139554 TAGTATTACACATGCGACCTA
64 TAGTACTACACACGCGACCTA
59139575 GCTACATATA
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
99 28 0.39
100 3 0.04
101 41 0.57
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTAAACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTAACTATCTGATACACG
Found at i:59142296 original size:17 final size:17
Alignment explanation
Indices: 59142263--59142314 Score: 77
Period size: 17 Copynumber: 2.9 Consensus size: 17
59142253 CCAGTGTGGT
59142263 TTACCCGTGTAGGGCCCAC
1 TTACCCGTG--GGGCCCAC
59142282 TTACCCGTGGGGCCCAC
1 TTACCCGTGGGGCCCAC
*
59142299 TTGCCCGTGGGGCCCA
1 TTACCCGTGGGGCCCA
59142315 TACAGCCCAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
17 23 0.72
19 9 0.28
ACGTcount: A:0.12, C:0.38, G:0.31, T:0.19
Consensus pattern (17 bp):
TTACCCGTGGGGCCCAC
Found at i:59148879 original size:23 final size:23
Alignment explanation
Indices: 59148849--59148906 Score: 109
Period size: 23 Copynumber: 2.6 Consensus size: 23
59148839 CTACCCAACA
59148849 AGCCTCTACACTCCACTTCGTCC
1 AGCCTCTACACTCCACTTCGTCC
59148872 AGCCTCTACACTCCACTTCGTCC
1 AGCCTCTACACTCCACTTCGTCC
59148895 AGCCT-TACACTC
1 AGCCTCTACACTC
59148907 TATGTGGGGA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 7 0.20
23 28 0.80
ACGTcount: A:0.19, C:0.47, G:0.09, T:0.26
Consensus pattern (23 bp):
AGCCTCTACACTCCACTTCGTCC
Found at i:59157584 original size:26 final size:26
Alignment explanation
Indices: 59157509--59157584 Score: 89
Period size: 26 Copynumber: 2.9 Consensus size: 26
59157499 CATATACTGA
* *
59157509 TACTGGCAGCTTTGCTGCGTTACTAT
1 TACTGGCAGCTTTGCTGCGATATTAT
* * * *
59157535 TACTGGCAGCTCTGCAGTGGTATTAT
1 TACTGGCAGCTTTGCTGCGATATTAT
*
59157561 TACTGGCAGCTTTGTTGCGATATT
1 TACTGGCAGCTTTGCTGCGATATT
59157585 GGTGTGTTGG
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.17, C:0.20, G:0.25, T:0.38
Consensus pattern (26 bp):
TACTGGCAGCTTTGCTGCGATATTAT
Found at i:59162340 original size:40 final size:40
Alignment explanation
Indices: 59162296--59162479 Score: 314
Period size: 40 Copynumber: 4.6 Consensus size: 40
59162286 TTGGCTCAGA
* *
59162296 TATAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGT
1 TATAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGT
* *
59162336 TATAATAACCCGTACGAATGCCTTCGAGACTTAACCCGGT
1 TATAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGT
*
59162376 TATAATAACCCGCACGAATGCCTTTGGGACTTAACCCGGT
1 TATAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGT
*
59162416 TATAATAACCCGCACGAATGCCTTCGGGACTTAACCCAGT
1 TATAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGT
59162456 TATAATAACCCGCACGAATGCCTT
1 TATAATAACCCGCACGAATGCCTT
59162480 GCACATATAT
Statistics
Matches: 135, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 135 1.00
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (40 bp):
TATAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGT
Found at i:59167034 original size:42 final size:43
Alignment explanation
Indices: 59166938--59167048 Score: 115
Period size: 40 Copynumber: 2.7 Consensus size: 43
59166928 ATTGACTACG
* * * *
59166938 TATGGCACTTTGTGTGC-ATTTCGAGATAGCTTCGGCTATGTA
1 TATGGCACTTAGTGTGCGAATTCGAGATAGCTTCGACTATATA
* * *
59166980 -A-AGCACTCAGTGTGCGAATTGGA-ATAGCTTCGACTATATA
1 TATGGCACTTAGTGTGCGAATTCGAGATAGCTTCGACTATATA
59167020 TATGGCACTTAGTGTGCGAAGTT-GAGATA
1 TATGGCACTTAGTGTGCGAA-TTCGAGATA
59167049 ACTTTGGCTA
Statistics
Matches: 55, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
40 26 0.47
41 7 0.13
42 17 0.31
43 5 0.09
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.32
Consensus pattern (43 bp):
TATGGCACTTAGTGTGCGAATTCGAGATAGCTTCGACTATATA
Found at i:59167076 original size:83 final size:83
Alignment explanation
Indices: 59166938--59167094 Score: 194
Period size: 83 Copynumber: 1.9 Consensus size: 83
59166928 ATTGACTACG
* * * *
59166938 TATGGCACTTTGTGTGCATTTCGAGATAGCTTCGGCTATGTAAAGCACTCAGTGTGCGA-ATTGG
1 TATGGCACTTAGTGTGCAGTTCGAGATAACTTCGGCTATGTAAAGCACTCAGTGTGCGAGATTAG
59167002 AATAGCTTCGACTATATA
66 AATAGCTTCGACTATATA
* * *
59167020 TATGGCACTTAGTGTGCGAAGTT-GAGATAACTTTGGCTATG-AAAGGCACTTAGTGTGTGAGAT
1 TATGGCACTTAGTGTGC--AGTTCGAGATAACTTCGGCTATGTAAA-GCACTCAGTGTGCGAGAT
*
59167083 TATAATAGCTTC
63 TAGAATAGCTTC
59167095 AGCTAAGCTT
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
82 19 0.30
83 29 0.46
84 15 0.24
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (83 bp):
TATGGCACTTAGTGTGCAGTTCGAGATAACTTCGGCTATGTAAAGCACTCAGTGTGCGAGATTAG
AATAGCTTCGACTATATA
Found at i:59171674 original size:50 final size:50
Alignment explanation
Indices: 59171554--59171843 Score: 291
Period size: 50 Copynumber: 5.8 Consensus size: 50
59171544 AACTGAAGCT
* * * *
59171554 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC-AACA
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
* *
59171603 AT-TCGGTACACGTAGTAGCCTGTACTTAGTACTACACACGTGACCTAACC
1 ATCT-GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
* * *
59171653 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGA-TTGAA-G
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCT-AACC
* * ** * * *
59171702 TTGTTGGGTACGTATAGTAGCCTGCACTTAGTACTACACATGTAACCTAACT
1 AT-CT-GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
* *
59171754 ATCTGGTACACATAGTAGCCTGCACTTAGCACTACACACGCGACCTAAAACC
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCT--AACC
*** * *
59171806 ATCTTAAACACATAGTAGCCTACACATAGTACTACACA
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
59171844 TGTGTTCTCA
Statistics
Matches: 196, Mismatches: 35, Indels: 17
0.79 0.14 0.07
Matches are distributed among these distances:
48 1 0.01
49 40 0.20
50 80 0.41
51 38 0.19
52 37 0.19
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.25
Consensus pattern (50 bp):
ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
Found at i:59180669 original size:40 final size:40
Alignment explanation
Indices: 59180562--59180860 Score: 430
Period size: 40 Copynumber: 7.6 Consensus size: 40
59180552 TATTCGGATG
* *
59180562 ATAACCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACT
59180602 ATAA-CGGGCTAAGT-CCGAAGGCATTTGTACGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACT
59180640 ATAACCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACT
* *
59180680 ATATCCGGGCTAAGTCCCGAAGGCATTTGTACCAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACT
* * *
59180720 ATATCCGGGCTAAGTCCCGAAGGTATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACT
* *
59180760 ATATCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACT
*
59180799 ATAACCGGGCTAAATCCCGAAGGCATTTG-AGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTA-CGAGTTA-CT
* *
59180839 ATATCC-GGCTAATTCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
59180861 TACTTGGTTT
Statistics
Matches: 241, Mismatches: 13, Indels: 11
0.91 0.05 0.04
Matches are distributed among these distances:
38 27 0.11
39 72 0.30
40 142 0.59
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACT
Found at i:59180827 original size:79 final size:80
Alignment explanation
Indices: 59180562--59180860 Score: 464
Period size: 79 Copynumber: 3.8 Consensus size: 80
59180552 TATTCGGATG
* *
59180562 ATAACCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-ACGGGCTAAGT-CCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
59180625 TTTGTACGAGTTACT
66 TTTGTACGAGTTACT
*
59180640 ATAACCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
*
59180705 TTTGTACCAGTTACT
66 TTTGTACGAGTTACT
* *
59180720 ATATCCGGGCTAAGTCCCGAAGGTATTTGTGCGAGTTACTATATCCGGGCTAAGT-CCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
*
59180784 TTTGTGCGAGTTACT
66 TTTGTACGAGTTACT
* * *
59180799 ATAACCGGGCTAAATCCCGAAGGCATTTGAGCGAG-TAGCTATATCC-GGCTAATTCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
59180861 TACTTGGTTT
Statistics
Matches: 203, Mismatches: 14, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
78 50 0.25
79 78 0.38
80 75 0.37
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
TTTGTACGAGTTACT
Found at i:59188852 original size:40 final size:40
Alignment explanation
Indices: 59188782--59189080 Score: 473
Period size: 40 Copynumber: 7.6 Consensus size: 40
59188772 TATTCGGATG
59188782 ATAACCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
59188821 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
59188861 ATAACCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
59188901 ATATCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
59188941 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
59188981 ATATCCGGGCTAAGTCCCG-AGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
59189020 ATAACCGGGCTAAAT-CCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* *
59189059 ATATCC-GGCTAATTCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
59189081 TACTTGGTTT
Statistics
Matches: 248, Mismatches: 8, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
38 12 0.05
39 76 0.31
40 160 0.65
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:59196622 original size:44 final size:42
Alignment explanation
Indices: 59196500--59196637 Score: 143
Period size: 44 Copynumber: 3.2 Consensus size: 42
59196490 CCCAGATGTT
* * * * * *
59196500 GTCTTACATGAAATCAAATATTGATGTCACTGTCCCAGATAGG
1 GTCTTACACGAAATCAAATA-CGATGCCAATGTCCCAGACATG
* * *
59196543 GTCTTCCACGAAATCATATACGATTCCAATGTCCCAGACATG
1 GTCTTACACGAAATCAAATACGATGCCAATGTCCCAGACATG
*
59196585 GTCTTACACGTAAATAACAAAT-CGATGCCAATGTCCCAGACTTG
1 GTCTTACACG-AAAT--CAAATACGATGCCAATGTCCCAGACATG
59196629 GTCTTACAC
1 GTCTTACAC
59196638 AATAACACAT
Statistics
Matches: 79, Mismatches: 13, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
42 25 0.32
43 21 0.27
44 29 0.37
45 4 0.05
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.28
Consensus pattern (42 bp):
GTCTTACACGAAATCAAATACGATGCCAATGTCCCAGACATG
Found at i:59213477 original size:43 final size:42
Alignment explanation
Indices: 59213349--59213499 Score: 139
Period size: 43 Copynumber: 3.5 Consensus size: 42
59213339 TCCGATATGC
* *
59213349 GATTTCATGTAAGACCATGTCTGGGACGTTGGCATCGACT-TAT
1 GATTTCATGTAAGACCATGTCTGGGAAG-TGGCATCGA-TATTT
* *
59213392 GATTTACATGTAAGACCATGTTTGGGACA-TCG-ATGCCG-TATTT
1 GATTT-CATGTAAGACCATGTCTGGGA-AGTGGCAT--CGATATTT
* *
59213435 GATTTCGTGTAAGACCCTGTCTGGGATAGTGGCATCGATATTT
1 GATTTCATGTAAGACCATGTCTGGGA-AGTGGCATCGATATTT
* *
59213478 GATTACATGTAAGACCACGTCT
1 GATTTCATGTAAGACCATGTCT
59213500 AGGACGATGG
Statistics
Matches: 87, Mismatches: 13, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
42 24 0.28
43 39 0.45
44 24 0.28
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.33
Consensus pattern (42 bp):
GATTTCATGTAAGACCATGTCTGGGAAGTGGCATCGATATTT
Found at i:59216158 original size:53 final size:53
Alignment explanation
Indices: 59215979--59216238 Score: 254
Period size: 53 Copynumber: 4.8 Consensus size: 53
59215969 ATTAGGATTT
* * * * * *
59215979 AAGGATACCAAGTAAGACCATGCCAAGGCATGACATTAGTAAGTTTTACAAGGA
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATGGTAAG-TTCATAAGGA
* * * * * * * * *
59216033 AAGGAAATCATGTAAGACTATGTCAAGACATGGCATTGATAAACTACTATAAGGCA
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATGGT-AAGTTC-ATAAGG-A
* * *
59216089 AA-GATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGGTCATAAGGA
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATGGTAAGTTCATAAGGA
* * *
59216141 AAGGATACCATGTAAGACCATGTCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATGGTAAGTTCATAAGGA
* *
59216194 AAGGATACCACGTAAGACCAT-CTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGC-CAAGGCATGGCAATGGTAAGTT
59216239 TAAAAATGAA
Statistics
Matches: 168, Mismatches: 33, Indels: 11
0.79 0.16 0.05
Matches are distributed among these distances:
52 3 0.02
53 92 0.55
54 34 0.20
55 36 0.21
56 3 0.02
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.20
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATGGTAAGTTCATAAGGA
Found at i:59223886 original size:43 final size:43
Alignment explanation
Indices: 59223839--59223965 Score: 136
Period size: 43 Copynumber: 3.0 Consensus size: 43
59223829 CATCGACTTA
* * *
59223839 TGATTTATGTGTAAGACCCTGTCTGGAACATTGGCGTTGTATT
1 TGATTTACGTGTAAGACCCTGTCTGGGACATTGGCATTGTATT
* *
59223882 TGATTT-CGTGTAAGACCCTATC-GAGGACAATGGCATTGATATT
1 TGATTTACGTGTAAGACCCTGTCTG-GGACATTGGCATTG-TATT
* *
59223925 TGA-TTACATGTAAGACCAC-GTCTGGGACGTTGGCATTGTAT
1 TGATTTACGTGTAAGACC-CTGTCTGGGACATTGGCATTGTAT
59223966 GAGCTTTTCG
Statistics
Matches: 70, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
41 1 0.01
42 30 0.43
43 37 0.53
44 2 0.03
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (43 bp):
TGATTTACGTGTAAGACCCTGTCTGGGACATTGGCATTGTATT
Found at i:59226704 original size:17 final size:17
Alignment explanation
Indices: 59226682--59226715 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
59226672 ATGTTTTTGG
59226682 TCATTTAAATTGGTCTA
1 TCATTTAAATTGGTCTA
59226699 TCATTTAAATTGGTCTA
1 TCATTTAAATTGGTCTA
59226716 AGTGATGTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.47
Consensus pattern (17 bp):
TCATTTAAATTGGTCTA
Found at i:59239288 original size:42 final size:43
Alignment explanation
Indices: 59239200--59239350 Score: 125
Period size: 43 Copynumber: 3.5 Consensus size: 43
59239190 CCCTGACGTA
*
59239200 GTCTTACATGTAATCAAATATCGATGCCACTATCCCAGACAGG
1 GTCTTACATGAAATCAAATATCGATGCCACTATCCCAGACAGG
* * * *
59239243 GTCTTACATGAAATCAAATA-CGATGTCGA-TGTCCTAGACATG
1 GTCTTACATGAAATCAAATATCGATG-CCACTATCCCAGACAGG
* *
59239285 GTCTTACACGTAAATTTC-AA-ATCGATGCCAAC-ATCCCAGA-TGTG
1 GTCTTACATG-AAA--TCAAATATCGATGCC-ACTATCCCAGACAG-G
* *
59239329 ATCTTACATGAAATCACATATC
1 GTCTTACATGAAATCAAATATC
59239351 AGAATCCTAT
Statistics
Matches: 84, Mismatches: 14, Indels: 20
0.71 0.12 0.17
Matches are distributed among these distances:
41 2 0.02
42 25 0.30
43 32 0.38
44 23 0.27
45 2 0.02
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (43 bp):
GTCTTACATGAAATCAAATATCGATGCCACTATCCCAGACAGG
Found at i:59240978 original size:17 final size:18
Alignment explanation
Indices: 59240956--59240989 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
59240946 CACATTGAAG
59240956 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
59240973 TGTTTTCATTGAAAACC
1 TGTTTTCATCGAAAACC
59240990 CTTCTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:59242250 original size:28 final size:28
Alignment explanation
Indices: 59242210--59242308 Score: 153
Period size: 28 Copynumber: 3.5 Consensus size: 28
59242200 CCATTTAGGT
*
59242210 CCAATCTCATTCATATGGCCCATCGGGC
1 CCAATCACATTCATATGGCCCATCGGGC
*
59242238 CCAATCACATTCATATGGCCCATCAGGC
1 CCAATCACATTCATATGGCCCATCGGGC
* * *
59242266 CCAATCACTTTCATATGGCTCGTCGGGC
1 CCAATCACATTCATATGGCCCATCGGGC
59242294 CCAATCACATTCATA
1 CCAATCACATTCATA
59242309 GTCATGCAAT
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 64 1.00
ACGTcount: A:0.25, C:0.34, G:0.15, T:0.25
Consensus pattern (28 bp):
CCAATCACATTCATATGGCCCATCGGGC
Found at i:59242282 original size:56 final size:57
Alignment explanation
Indices: 59242189--59242308 Score: 170
Period size: 56 Copynumber: 2.1 Consensus size: 57
59242179 ATCCATACTT
* * * *
59242189 ATTCATTTGGCCCATTTAGGTCCAATCTCATTCATATGGCCCATCGGGCCCAATCAC
1 ATTCATATGGCCCATTCAGGCCCAATCACATTCATATGGCCCATCGGGCCCAATCAC
* * *
59242246 ATTCATATGGCCCA-TCAGGCCCAATCACTTTCATATGGCTCGTCGGGCCCAATCAC
1 ATTCATATGGCCCATTCAGGCCCAATCACATTCATATGGCCCATCGGGCCCAATCAC
59242302 ATTCATA
1 ATTCATA
59242309 GTCATGCAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
56 43 0.77
57 13 0.23
ACGTcount: A:0.24, C:0.32, G:0.16, T:0.28
Consensus pattern (57 bp):
ATTCATATGGCCCATTCAGGCCCAATCACATTCATATGGCCCATCGGGCCCAATCAC
Found at i:59246598 original size:46 final size:45
Alignment explanation
Indices: 59246548--59246720 Score: 208
Period size: 46 Copynumber: 3.8 Consensus size: 45
59246538 TGGTTGAGCA
59246548 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGT-AATG
* *
59246594 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAA-T--G
* *
59246639 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-TAATG
* *
59246687 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
59246721 GGGGCGGGTT
Statistics
Matches: 110, Mismatches: 8, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 6 0.05
45 3 0.03
46 61 0.55
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAATG
Found at i:59246704 original size:93 final size:93
Alignment explanation
Indices: 59246545--59246715 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
59246535 GGATGGTTGA
** * *
59246545 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
59246610 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
59246638 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
59246703 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
59246716 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:59251905 original size:43 final size:43
Alignment explanation
Indices: 59251810--59251955 Score: 116
Period size: 43 Copynumber: 3.4 Consensus size: 43
59251800 TACGAGATGT
* * * * * *
59251810 GATTACATGTAAGATCATGTCTGGGACATTGGCATTGTATTGA
1 GATTACGTGTAAGACCAGGTCTAGGACATTGGCATCGTAATGA
*
59251853 GATTACGTGTAAGACCAGGTCTAGGACATTGGCATCGTTAAT-C
1 GATTACGTGTAAGACCAGGTCTAGGACATTGGCATCG-TAATGA
* *** * * *
59251896 GATTTCGTGTAAGACCCTTTCGAGGACAGTGGCATCG-ATATGT
1 GATTACGTGTAAGACCAGGTCTAGGACATTGGCATCGTA-ATGA
* *
59251939 GATAACATGTAAGACCA
1 GATTACGTGTAAGACCA
59251956 TATCTGGGAT
Statistics
Matches: 82, Mismatches: 18, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
41 1 0.01
42 2 0.02
43 76 0.93
44 3 0.04
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.29
Consensus pattern (43 bp):
GATTACGTGTAAGACCAGGTCTAGGACATTGGCATCGTAATGA
Found at i:59257631 original size:40 final size:40
Alignment explanation
Indices: 59257576--59257722 Score: 224
Period size: 40 Copynumber: 3.7 Consensus size: 40
59257566 ATTTGAATGA
*
59257576 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
* *
59257616 TATCCAGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
* * *
59257656 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTT
59257696 TATCCGGGCTAAGACCCGAAGGCATTT
1 TATCCGGGCTAAGACCCGAAGGCATTT
59257723 GTGCGAGTTG
Statistics
Matches: 100, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
40 97 0.97
41 3 0.03
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
Found at i:59257723 original size:40 final size:40
Alignment explanation
Indices: 59257575--59257786 Score: 223
Period size: 40 Copynumber: 5.3 Consensus size: 40
59257565 CATTTGAATG
* * *
59257575 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
* * * * *
59257615 TTATCCAGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
*
59257655 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATT
*
59257695 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATT
* * * * * ** *
59257735 ATACCCGAGTTAAGATCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
59257775 ATATCC-GGCTAA
1 ATATCCGGGCTAA
59257787 ATTCCGAAGA
Statistics
Matches: 151, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 6 0.04
40 142 0.94
41 3 0.02
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
Found at i:59259825 original size:40 final size:40
Alignment explanation
Indices: 59259725--59259989 Score: 272
Period size: 40 Copynumber: 6.7 Consensus size: 40
59259715 GCTCCTCGTT
* * * * *
59259725 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
* ** *
59259765 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
*
59259804 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
* *
59259844 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTATCTCGCA
*
59259884 CAAATGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTATCTCGCA
** * * *
59259924 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGT-ATC-TCGCA
*
59259965 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
59259990 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 20, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
39 39 0.20
40 143 0.72
41 16 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
Found at i:59259998 original size:41 final size:41
Alignment explanation
Indices: 59259921--59259998 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
59259911 TTTGTATCTC
* * *
59259921 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
59259962 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
59259999 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Done.