Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 240 of 349
Found at i:79369098 original size:18 final size:18
Alignment explanation
Indices: 79369052--79369101 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
79369042 AAACACTAAT
* * *
79369052 ATATATATATATATATAT
1 ATATAAATATTTATATAA
79369070 ATATAAATATTTATATAA
1 ATATAAATATTTATATAA
* *
79369088 ATTTAATTATTTAT
1 ATATAAATATTTAT
79369102 CAGTTTTGTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
ATATAAATATTTATATAA
Found at i:79369435 original size:3 final size:3
Alignment explanation
Indices: 79369427--79369482 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
79369417 TCTCCGCATC
79369427 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
79369475 TTA TTA TT
1 TTA TTA TT
79369483 TCACATTAAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:79372194 original size:40 final size:40
Alignment explanation
Indices: 79372150--79372345 Score: 281
Period size: 40 Copynumber: 4.9 Consensus size: 40
79372140 GGATATAGCT
* *
79372150 ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* *
79372190 ACTCGCACCAATGCCTTCGGGACTTAGCCCGGATT-TGGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTATAGTA
*
79372230 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-AATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTA
* *
79372270 ACTCGCACAAATGCCTTCGGGACTTAGCTCGG-AATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTA
79372310 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
79372346 CATCCGAATA
Statistics
Matches: 142, Mismatches: 10, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
40 139 0.98
41 3 0.02
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:79374590 original size:21 final size:21
Alignment explanation
Indices: 79374564--79374605 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
79374554 CCTTACACCA
*
79374564 CGTTGTGGATGAACCACTAAT
1 CGTTGTAGATGAACCACTAAT
*
79374585 CGTTGTAGATGAACTACTAAT
1 CGTTGTAGATGAACCACTAAT
79374606 AATAAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (21 bp):
CGTTGTAGATGAACCACTAAT
Found at i:79374823 original size:33 final size:35
Alignment explanation
Indices: 79374786--79374863 Score: 90
Period size: 33 Copynumber: 2.3 Consensus size: 35
79374776 ACATGTCATG
*
79374786 CTTATAACAGACT-AATACAATAGCAATA-ACATA
1 CTTATAACAGACTCAATACAATAGAAATATACATA
* * * *
79374819 CTTATAACA-AGTCAATAGAATAGAAATATTCATG
1 CTTATAACAGACTCAATACAATAGAAATATACATA
79374853 CTTATAACAGA
1 CTTATAACAGA
79374864 TCATTACGGT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
32 2 0.05
33 22 0.59
34 12 0.32
35 1 0.03
ACGTcount: A:0.49, C:0.15, G:0.09, T:0.27
Consensus pattern (35 bp):
CTTATAACAGACTCAATACAATAGAAATATACATA
Found at i:79374892 original size:34 final size:33
Alignment explanation
Indices: 79374782--79374958 Score: 151
Period size: 34 Copynumber: 5.2 Consensus size: 33
79374772 TGCAACATGT
*
79374782 CATGCTTATAACAGA-CTAATACAATAGCAAT-AA
1 CATGCTTATAACA-ATC-AATACAGTAGCAATAAA
* * * * **
79374815 CATACTTATAACAAGTCAATAGAATAGAAATATT
1 CATGCTTATAACAA-TCAATACAGTAGCAATAAA
* *
79374849 CATGCTTATAACAGATCATTACGGTAGCAATAAA
1 CATGCTTATAACA-ATCAATACAGTAGCAATAAA
* * *
79374883 CATGTTTATATCAAGTCAATACAGTAGCAATTAA
1 CATGCTTATAACAA-TCAATACAGTAGCAATAAA
* *
79374917 CATGGTTATAATAAATCAATACAGTAGCAATAAA
1 CATGCTTATAA-CAATCAATACAGTAGCAATAAA
*
79374951 CTTGCTTA
1 CATGCTTA
79374959 ACATGTTTTT
Statistics
Matches: 114, Mismatches: 24, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
32 1 0.01
33 25 0.22
34 85 0.75
35 3 0.03
ACGTcount: A:0.45, C:0.15, G:0.11, T:0.29
Consensus pattern (33 bp):
CATGCTTATAACAATCAATACAGTAGCAATAAA
Found at i:79374926 original size:68 final size:68
Alignment explanation
Indices: 79374782--79374951 Score: 175
Period size: 68 Copynumber: 2.5 Consensus size: 68
79374772 TGCAACATGT
* * *
79374782 CATGCTTATAACAGA-CTAATACAATAGCAAT-AACATACTTATAACAAGTCAATAGAATAGAAA
1 CATGCTTATAACAAATC-AATACAGTAGCAATAAACATACTTATAACAAGTCAATACAATAGAAA
*
79374845 TATT
65 TATA
* * * ** * * *
79374849 CATGCTTATAACAGATCATTACGGTAGCAATAAACATGTTTATATCAAGTCAATACAGTAGCAAT
1 CATGCTTATAACAAATCAATACAGTAGCAATAAACATACTTATAACAAGTCAATACAATAGAAAT
79374914 -TAA
66 AT-A
* *
79374917 CATGGTTATAATAAATCAATACAGTAGCAATAAAC
1 CATGCTTATAACAAATCAATACAGTAGCAATAAAC
79374952 TTGCTTAACA
Statistics
Matches: 85, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
67 27 0.32
68 58 0.68
ACGTcount: A:0.46, C:0.15, G:0.11, T:0.28
Consensus pattern (68 bp):
CATGCTTATAACAAATCAATACAGTAGCAATAAACATACTTATAACAAGTCAATACAATAGAAAT
ATA
Found at i:79379238 original size:23 final size:23
Alignment explanation
Indices: 79379190--79379235 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
79379180 AATTATTTTC
* *
79379190 ATTTTTTAAATATAAAATATTTA
1 ATTTTTTAAATATAAAAAATTAA
*
79379213 ATTTTTT-ATTATAAAAAATTAA
1 ATTTTTTAAATATAAAAAATTAA
79379235 A
1 A
79379236 ATTAATTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
ATTTTTTAAATATAAAAAATTAA
Found at i:79384940 original size:40 final size:41
Alignment explanation
Indices: 79384860--79384941 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 41
79384850 AATCAGAAAT
* * *
79384860 TGTATTTTCGGGCCTCTGTTTTCGTAAAATAGACTCGTAAA
1 TGTATTTTCGGGCCTCCGTTTTCGTAAAACAGACTAGTAAA
79384901 TGTATTTTCGGGCCTCCGTTTT-GTAAAACAGACTAGTAAA
1 TGTATTTTCGGGCCTCCGTTTTCGTAAAACAGACTAGTAAA
79384941 T
1 T
79384942 ATTTATTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
40 17 0.45
41 21 0.55
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.38
Consensus pattern (41 bp):
TGTATTTTCGGGCCTCCGTTTTCGTAAAACAGACTAGTAAA
Found at i:79385376 original size:15 final size:15
Alignment explanation
Indices: 79385358--79385390 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
79385348 ATTTAAGAAA
*
79385358 ATATTATTATATTTT
1 ATATTATTATATTAT
79385373 ATATTATTATATTAT
1 ATATTATTATATTAT
79385388 ATA
1 ATA
79385391 AATTAAATAA
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:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
ATATTATTATATTAT
Found at i:79385382 original size:8 final size:8
Alignment explanation
Indices: 79385358--79385387 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
79385348 ATTTAAGAAA
79385358 ATATTATT
1 ATATTATT
79385366 ATATT-TT
1 ATATTATT
79385373 ATATTATT
1 ATATTATT
79385381 ATATTAT
1 ATATTAT
79385388 ATAAATTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (8 bp):
ATATTATT
Found at i:79389343 original size:22 final size:22
Alignment explanation
Indices: 79389316--79389391 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
79389306 ATGTGTATAT
79389316 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* *
79389338 ATGTGATGAATG-TGAACAT-G-CA
1 ATGTGAT-AAGGCCG-A-ATGGCCA
79389360 TATGTGTGATAAGGCCGAATGGCCA
1 -A--TGTGATAAGGCCGAATGGCCA
79389385 ATGTGAT
1 ATGTGAT
79389392 GAATGTGAAC
Statistics
Matches: 41, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 16 0.39
23 8 0.20
24 8 0.20
25 9 0.22
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:79389349 original size:47 final size:47
Alignment explanation
Indices: 79389295--79389438 Score: 216
Period size: 47 Copynumber: 3.1 Consensus size: 47
79389285 GATTTTATGA
** *
79389295 GATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
*
79389342 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* ** *
79389389 GATGAATGTGAACATGCATATGTGTGATAAGGTAGAATGGCTAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
79389436 GAT
1 GAT
79389439 AAACGTGGAA
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 90 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
Found at i:79389412 original size:23 final size:23
Alignment explanation
Indices: 79389338--79389412 Score: 59
Period size: 23 Copynumber: 3.2 Consensus size: 23
79389328 CGAATGGCCA
79389338 ATGTGATGAATGTGAACATGCAT
1 ATGTGATGAATGTGAACATGCAT
* *
79389361 ATGTG-TGATAAG-G-CCGAATGGCCA-
1 ATGTGATGA-ATGTGAAC--AT-G-CAT
79389385 ATGTGATGAATGTGAACATGCAT
1 ATGTGATGAATGTGAACATGCAT
79389408 ATGTG
1 ATGTG
79389413 TGATAAGGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 18
0.64 0.07 0.30
Matches are distributed among these distances:
21 1 0.03
22 6 0.15
23 15 0.38
24 10 0.26
25 6 0.15
26 1 0.03
ACGTcount: A:0.32, C:0.11, G:0.29, T:0.28
Consensus pattern (23 bp):
ATGTGATGAATGTGAACATGCAT
Found at i:79391841 original size:98 final size:98
Alignment explanation
Indices: 79391705--79391882 Score: 248
Period size: 98 Copynumber: 1.8 Consensus size: 98
79391695 ATGTCGGGCC
* * * * *
79391705 GGTTAGCAACTAACATGCCCTACCAATAACCCAGCACATGCTCCAACTTGTTTAGCAACTAACAT
1 GGTTAGCAACTAACATGCCCTACCAATAACCCAACACATACGCCAACTTGGTTAACAACTAACAT
79391770 GACATACCAATGGCCTGTCATCTCTAGCAACCT
66 GACATACCAATGGCCTGTCATCTCTAGCAACCT
* * **
79391803 GGTTAGCAACTAACATGCCCTACTAGTGGCCCAACACATACGCCAACTTGGTTAACAACTAACAT
1 GGTTAGCAACTAACATGCCCTACCAATAACCCAACACATACGCCAACTTGGTTAACAACTAACAT
* * *
79391868 GCCCTACCAGTGGCC
66 GACATACCAATGGCC
79391883 CATCATATCC
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
98 68 1.00
ACGTcount: A:0.31, C:0.32, G:0.15, T:0.22
Consensus pattern (98 bp):
GGTTAGCAACTAACATGCCCTACCAATAACCCAACACATACGCCAACTTGGTTAACAACTAACAT
GACATACCAATGGCCTGTCATCTCTAGCAACCT
Found at i:79391880 original size:49 final size:49
Alignment explanation
Indices: 79391705--79391884 Score: 177
Period size: 49 Copynumber: 3.7 Consensus size: 49
79391695 ATGTCGGGCC
** * * *
79391705 GGTTAGCAACTAACATGCCCTACCAATAACCCAGCACATGCTCCAACTT
1 GGTTAGCAACTAACATGCCCTACCAATGGCCCAACACATACGCCAACTT
* * * * * *
79391754 GTTTAGCAACTAACATGACATACCAATGGCCTGTCATCTC-TA-G-CAACCT
1 GGTTAGCAACTAACATGCCCTACCAATGGCC---CAACACATACGCCAACTT
* *
79391803 GGTTAGCAACTAACATGCCCTACTAGTGGCCCAACACATACGCCAACTT
1 GGTTAGCAACTAACATGCCCTACCAATGGCCCAACACATACGCCAACTT
* *
79391852 GGTTAACAACTAACATGCCCTACCAGTGGCCCA
1 GGTTAGCAACTAACATGCCCTACCAATGGCCCA
79391885 TCATATCCGA
Statistics
Matches: 105, Mismatches: 20, Indels: 12
0.77 0.15 0.09
Matches are distributed among these distances:
46 4 0.04
47 2 0.02
48 1 0.01
49 93 0.89
51 1 0.01
52 4 0.04
ACGTcount: A:0.31, C:0.32, G:0.15, T:0.22
Consensus pattern (49 bp):
GGTTAGCAACTAACATGCCCTACCAATGGCCCAACACATACGCCAACTT
Found at i:79402580 original size:28 final size:28
Alignment explanation
Indices: 79402546--79402620 Score: 143
Period size: 28 Copynumber: 2.7 Consensus size: 28
79402536 AGTACATGTA
79402546 TTCAAATATAAGTATAATATTATTGATC
1 TTCAAATATAAGTATAATATTATTGATC
79402574 TTCAAATATAAGTATAATATTATTGATC
1 TTCAAATATAAGTATAATATTATTGATC
79402602 TTCAAATATAA-TATAATAT
1 TTCAAATATAAGTATAATAT
79402621 AATATAATAT
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 8 0.17
28 39 0.83
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (28 bp):
TTCAAATATAAGTATAATATTATTGATC
Found at i:79402616 original size:5 final size:5
Alignment explanation
Indices: 79402606--79402663 Score: 89
Period size: 5 Copynumber: 11.6 Consensus size: 5
79402596 TTGATCTTCA
* * *
79402606 AATAT AATAT AATAT AATAT AATAT AGTCT AATAT AATAT AATAT AGTAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
79402656 AATAT AAT
1 AATAT AAT
79402664 TAGACCTATT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
5 47 1.00
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.40
Consensus pattern (5 bp):
AATAT
Found at i:79402631 original size:20 final size:20
Alignment explanation
Indices: 79402606--79402663 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
79402596 TTGATCTTCA
*
79402606 AATATAATATAATATAATAT
1 AATATAGTATAATATAATAT
*
79402626 AATATAGTCTAATATAATAT
1 AATATAGTATAATATAATAT
79402646 AATATAGTATAATATAAT
1 AATATAGTATAATATAAT
79402664 TAGACCTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.40
Consensus pattern (20 bp):
AATATAGTATAATATAATAT
Found at i:79403002 original size:30 final size:30
Alignment explanation
Indices: 79402968--79403030 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
79402958 ACTTATTTTA
79402968 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAGAGACAT
*
79402998 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAGAGACAT
79403028 TTG
1 TTG
79403031 CTTGTTAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.24, C:0.03, G:0.16, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAGAGACAT
Found at i:79403487 original size:26 final size:25
Alignment explanation
Indices: 79403458--79403523 Score: 80
Period size: 26 Copynumber: 2.6 Consensus size: 25
79403448 GCTTCCAAAA
** *
79403458 AAAAATTAATTCAATTAAAAATTATT
1 AAAAATTAATAAAAATAAAAA-TATT
*
79403484 AAAAATTTATAAAAATAAAAATATT
1 AAAAATTAATAAAAATAAAAATATT
79403509 AAAAA-TAATAAAAAT
1 AAAAATTAATAAAAAT
79403524 TTATTTAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
24 9 0.26
25 9 0.26
26 17 0.49
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (25 bp):
AAAAATTAATAAAAATAAAAATATT
Found at i:79403503 original size:25 final size:24
Alignment explanation
Indices: 79403473--79403523 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 24
79403463 TTAATTCAAT
*
79403473 TAAAAATTATTAAAAATTTATAAAAA
1 TAAAAA-TATTAAAAA-TAATAAAAA
79403499 TAAAAATATTAAAAATAATAAAAA
1 TAAAAATATTAAAAATAATAAAAA
79403523 T
1 T
79403524 TTATTTAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 9 0.38
25 9 0.38
26 6 0.25
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (24 bp):
TAAAAATATTAAAAATAATAAAAA
Found at i:79403511 original size:15 final size:16
Alignment explanation
Indices: 79403483--79403516 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
79403473 TAAAAATTAT
*
79403483 TAAAAATTTATAAAAA
1 TAAAAATATATAAAAA
79403499 TAAAAATAT-TAAAAA
1 TAAAAATATATAAAAA
79403514 TAA
1 TAA
79403517 TAAAAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
TAAAAATATATAAAAA
Found at i:79403513 original size:10 final size:9
Alignment explanation
Indices: 79403471--79403523 Score: 58
Period size: 9 Copynumber: 6.0 Consensus size: 9
79403461 AATTAATTCA
79403471 ATTAAAAATT
1 ATTAAAAA-T
79403481 ATTAAAAAT
1 ATTAAAAAT
79403490 -TTATAAAA-
1 ATTA-AAAAT
79403498 A-TAAAAAT
1 ATTAAAAAT
79403506 ATTAAAAAT
1 ATTAAAAAT
*
79403515 AATAAAAAT
1 ATTAAAAAT
79403524 TTATTTAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
7 4 0.11
8 6 0.16
9 20 0.53
10 8 0.21
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (9 bp):
ATTAAAAAT
Found at i:79414820 original size:28 final size:27
Alignment explanation
Indices: 79414756--79414907 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
79414746 TTATTAAGTC
* *
79414756 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
79414783 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*
79414811 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
79414838 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
79414866 CGCACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
79414893 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
79414908 GCACAATTTA
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:79414840 original size:55 final size:55
Alignment explanation
Indices: 79414756--79414932 Score: 246
Period size: 55 Copynumber: 3.2 Consensus size: 55
79414746 TTATTAAGTC
* * *
79414756 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* *
79414811 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* * * * * *
79414866 CGCACACTTAGTGCTACATATTCAATTCGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAA-TCAAACT
79414922 CGCACACTTAG
1 CGCACACTTAG
79414933 CGCCAATCTC
Statistics
Matches: 109, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
55 93 0.85
56 16 0.15
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:79422985 original size:28 final size:27
Alignment explanation
Indices: 79422921--79423073 Score: 225
Period size: 28 Copynumber: 5.6 Consensus size: 27
79422911 TTATTAAGTC
* *
79422921 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
79422948 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*
79422976 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
*
79423004 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
79423032 CGCACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
79423059 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
79423074 GCACAATTTA
Statistics
Matches: 119, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 40 0.34
28 78 0.66
29 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:79423014 original size:56 final size:55
Alignment explanation
Indices: 79422921--79423098 Score: 239
Period size: 56 Copynumber: 3.2 Consensus size: 55
79422911 TTATTAAGTC
* * *
79422921 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* *
79422976 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCTACATAATCAAACT
* * * * * *
79423032 CGCACACTTAGTGCTACATATTCAATTCGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAA-TCAAACT
79423088 CGCACACTTAG
1 CGCACACTTAG
79423099 CGCCAATCTC
Statistics
Matches: 109, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
55 41 0.38
56 68 0.62
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:79426078 original size:23 final size:25
Alignment explanation
Indices: 79426048--79426107 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 25
79426038 AGCTCGAAAA
*
79426048 AGAGCTTACTGTTT-T-AGCACAAT
1 AGAGCTTACTGTTTCTCAGCACAAG
* *
79426071 AGAGCTTATTGTTTCTCAGCTCAAG
1 AGAGCTTACTGTTTCTCAGCACAAG
79426096 AGGAGCTTACTG
1 A-GAGCTTACTG
79426108 ACCATGACAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 13 0.43
24 1 0.03
25 7 0.23
26 9 0.30
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (25 bp):
AGAGCTTACTGTTTCTCAGCACAAG
Found at i:79431945 original size:47 final size:45
Alignment explanation
Indices: 79431835--79432095 Score: 144
Period size: 47 Copynumber: 5.6 Consensus size: 45
79431825 GTTATTGCTG
*
79431835 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAG-CACATTAAGAGA
* * *
79431881 GCCAGTGTAAGACCATGTCTGGGACTTGGCATC-G-GCATTAAGACCAGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCACATTAAG---AGA
* * **
79431929 GCTAGTGTAAGACATGTCTAGGACATACATCAGC-C-TCGAGACGTAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCACATTAAGA-G--A
* * * * * *
79431975 GCCAGTGTAAGACATGTCTGGGACATGTATCGGCTACGA-GATGATA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGC-AC-ATTAAGAGA
* *
79432021 GAC-AGTGTAAGACCATGTCTGGGACATGGCATC-G-A-TTTGAGATATGA
1 G-CTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCACATT-A-AGA-GA
*
79432068 GCCAGTGTAAGACCATGTCTGGGACATG
1 GCTAGTGTAAGA-CATGTCTGGGACATG
79432096 GCATTGGCAC
Statistics
Matches: 168, Mismatches: 25, Indels: 44
0.71 0.11 0.19
Matches are distributed among these distances:
43 1 0.01
44 1 0.01
45 8 0.05
46 62 0.37
47 70 0.42
48 24 0.14
49 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCACATTAAGAGA
Found at i:79432093 original size:140 final size:140
Alignment explanation
Indices: 79431838--79432094 Score: 351
Period size: 140 Copynumber: 1.8 Consensus size: 140
79431828 ATTGCTGGCT
* *
79431838 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGAGAGACAGTGTAAGACCATGTCTGG
* *
79431903 GACTTGGCATCGGCATTAAGACCAGAGCTAGTGTAAGACATGTCTAGGACATACATCAGCCTCGA
66 GACATGGCATCGGCATTAAGACCAGAGCCAGTGTAAGACATGTCTAGGACATACATCAGCCTCGA
79431968 GACGTAAGCC
131 GACGTAAGCC
* * * *
79431978 AGTGTAAGACATGTCTGGGACATGTATCGGCTACGA-GATGATAGACAGTGTAAGACCATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATGATGAGAGACAGTGTAAGACCATGTCTG
* * *
79432042 GGACATGGCATC-G-ATTTGAGA-TATGAGCCAGTGTAAGACCATGTCTGGGACAT
65 GGACATGGCATCGGCA-TTAAGACCA-GAGCCAGTGTAAGA-CATGTCTAGGACAT
79432095 GGCATTGGCA
Statistics
Matches: 102, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
138 2 0.02
139 19 0.19
140 80 0.78
141 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (140 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGAGAGACAGTGTAAGACCATGTCTGG
GACATGGCATCGGCATTAAGACCAGAGCCAGTGTAAGACATGTCTAGGACATACATCAGCCTCGA
GACGTAAGCC
Found at i:79432096 original size:47 final size:48
Alignment explanation
Indices: 79431879--79432099 Score: 206
Period size: 47 Copynumber: 4.7 Consensus size: 48
79431869 CACATTATGA
* *
79431879 GAGCCAGTGTAAGACCATGTCTGGGACTTGGCATCGGCATT-AAGACCA-
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-ATTCGAGA-CAT
* * * * ** *
79431927 GAGCTAGTGTAAGA-CATGTCTAGGACAT-ACATCAGCCTCGAGACGT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGATTCGAGACAT
* * * * *
79431973 AAGCCAGTGTAAGA-CATGTCTGGGACAT-GTATCGGCTACGAGATGAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGATTCGAGA-CAT
* * *
79432020 -AGACAGTGTAAGACCATGTCTGGGACATGGCATC-GATTTGAGATAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGATTCGAGACAT
79432066 GAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
79432100 TGGCACCTTA
Statistics
Matches: 141, Mismatches: 26, Indels: 13
0.78 0.14 0.07
Matches are distributed among these distances:
45 2 0.01
46 57 0.40
47 65 0.46
48 17 0.12
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (48 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGATTCGAGACAT
Found at i:79435927 original size:23 final size:23
Alignment explanation
Indices: 79435866--79435940 Score: 73
Period size: 23 Copynumber: 3.3 Consensus size: 23
79435856 TACCGATATA
* * *
79435866 TCAGCTCGAAAGAGCTTACTATTT
1 TCAGCTCGTATGAGCTTACT-GTT
* *
79435890 TTAGCTCAT-TGGAGCTTACTGTT
1 TCAGCTCGTAT-GAGCTTACTGTT
79435913 TCAGCTCGTATGAGCTTACTG-T
1 TCAGCTCGTATGAGCTTACTGTT
79435935 TCAGCT
1 TCAGCT
79435941 TGAAAAAGAG
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
22 7 0.17
23 19 0.45
24 16 0.38
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.37
Consensus pattern (23 bp):
TCAGCTCGTATGAGCTTACTGTT
Found at i:79437956 original size:47 final size:44
Alignment explanation
Indices: 79437841--79437962 Score: 129
Period size: 46 Copynumber: 2.7 Consensus size: 44
79437831 GCCCATAAAT
* * *
79437841 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCCTATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTC-GG-ATGCCTATACATAAGC
* *
79437887 GAACTTGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCA-C
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTA--TACA--TAAGC
*
79437934 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGCTCGGA
79437963 ACTCAACCAT
Statistics
Matches: 65, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
44 6 0.09
45 2 0.03
46 28 0.43
47 27 0.42
48 2 0.03
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (44 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCCTATACATAAGC
Found at i:79446019 original size:20 final size:20
Alignment explanation
Indices: 79445994--79446035 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
79445984 ACATGTATTA
* *
79445994 ATCAAAATTCAGAATTTTTC
1 ATCAAAATTCACAACTTTTC
*
79446014 ATCAAATTTCACAACTTTTC
1 ATCAAAATTCACAACTTTTC
79446034 AT
1 AT
79446036 TTTAGTCCGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.19, G:0.02, T:0.40
Consensus pattern (20 bp):
ATCAAAATTCACAACTTTTC
Found at i:79448400 original size:48 final size:48
Alignment explanation
Indices: 79448322--79448504 Score: 219
Period size: 48 Copynumber: 3.8 Consensus size: 48
79448312 TAGGGTTATT
*
79448322 TGTGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCAATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATA
*
79448370 TGTGATCCCATGTAAGAACATG-CTTGGGACATGGCATTGGCAT-AGATA
1 TGTGATCCCATGTAAGACCATGTC-TGGGACATGGCATTGGCATCA-ATA
* * * *
79448418 TATGA-CCCATGTAAGACCATGTCTGGGACATGGAATTGGAATCGATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATA
* * * * * *
79448465 TTTGATCCCATGTAAGATCGTATATGGGATATGGCATTGG
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGG
79448505 TATTGACATG
Statistics
Matches: 116, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
47 41 0.35
48 75 0.65
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (48 bp):
TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATA
Found at i:79448493 original size:95 final size:95
Alignment explanation
Indices: 79448328--79448504 Score: 257
Period size: 95 Copynumber: 1.9 Consensus size: 95
79448318 TATTTGTGAT
* * *
79448328 CCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCAATATGTGATCCCATGTAAGAACATGC
1 CCCATGTAAGACCATGTCTAGGACATGGAATTGGAATCAATATGTGATCCCATGTAAGAACATGA
79448393 TTGGGACATGGCATTGGCATAGATATATGA
66 TTGGGACATGGCATTGGCATAGATATATGA
* * * * *
79448423 CCCATGTAAGACCATGTCTGGGACATGGAATTGGAATCGATATTTGATCCCATGTAAGATCGT-A
1 CCCATGTAAGACCATGTCTAGGACATGGAATTGGAATCAATATGTGATCCCATGTAAGAACATGA
*
79448487 TATGGGATATGGCATTGG
66 T-TGGGACATGGCATTGG
79448505 TATTGACATG
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
94 1 0.01
95 71 0.99
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (95 bp):
CCCATGTAAGACCATGTCTAGGACATGGAATTGGAATCAATATGTGATCCCATGTAAGAACATGA
TTGGGACATGGCATTGGCATAGATATATGA
Found at i:79462586 original size:35 final size:35
Alignment explanation
Indices: 79462547--79462619 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
79462537 ATTGTACAAA
79462547 TATTTGATTACGATTCGATCATGATTATAATCGAC
1 TATTTGATTACGATTCGATCATGATTATAATCGAC
*
79462582 TATTTGATTACGATTTGATCATGATTATAATCGAC
1 TATTTGATTACGATTCGATCATGATTATAATCGAC
79462617 TAT
1 TAT
79462620 GTTCGGCACT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (35 bp):
TATTTGATTACGATTCGATCATGATTATAATCGAC
Found at i:79462711 original size:40 final size:41
Alignment explanation
Indices: 79462624--79462719 Score: 119
Period size: 40 Copynumber: 2.4 Consensus size: 41
79462614 GACTATGTTC
79462624 GGCACTAAGTGTGCG-GTTCGAAATAGCTTTGGCTACAAATA
1 GGCACTAAGTGTGCGAGTTCGAAATAGCTTTGGCTA-AAATA
* * *
79462665 -GAACTAAGTGTGCGAGTT-GGAATAGCTTTGGCT-ATATGA
1 GGCACTAAGTGTGCGAGTTCGAAATAGCTTTGGCTAAAAT-A
79462704 GGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
79462720 TACTGAGATA
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
38 3 0.06
39 1 0.02
40 41 0.85
41 3 0.06
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.27
Consensus pattern (41 bp):
GGCACTAAGTGTGCGAGTTCGAAATAGCTTTGGCTAAAATA
Found at i:79468152 original size:48 final size:48
Alignment explanation
Indices: 79468099--79468292 Score: 289
Period size: 48 Copynumber: 4.0 Consensus size: 48
79468089 TAGGGTTATG
*
79468099 TGTGATCCCATGAAAGACCATGTCTGGGACATGGCATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* * *
79468147 TGTGATCCCATGTAAGACCATGTTTGGGACATGGCATTGACATAGATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
**
79468195 TGTGATCCCATGTAAGACCATGTCTGAAACATGGCATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* * * * *
79468243 TTTGATCCCATGCAAGACCATATTTGGGATATGGCATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
79468291 TG
1 TG
79468293 AGACATCGTG
Statistics
Matches: 129, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 129 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (48 bp):
TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
Found at i:79472254 original size:47 final size:47
Alignment explanation
Indices: 79472081--79472436 Score: 514
Period size: 47 Copynumber: 7.4 Consensus size: 47
79472071 CAGCCAAGAG
79472081 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
79472128 AGTGTATGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 A--G--TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
79472179 AGTGTATGTATATATGTAATAAGGCCTAATAGCCGACGTGATGAATGTGAA
1 A--G--TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
79472230 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
79472277 AGTGTATATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
79472324 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
79472371 AGTGTATATATGTGACAAGGCCGAGTGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
79472418 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
79472437 TCTCGAAAGG
Statistics
Matches: 289, Mismatches: 16, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
47 193 0.67
49 2 0.01
51 94 0.33
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:79472611 original size:37 final size:37
Alignment explanation
Indices: 79472555--79472633 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
79472545 CCGAGCTCTA
* * *
79472555 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
79472592 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
79472629 AAGAC
1 AAGAC
79472634 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:79486369 original size:28 final size:28
Alignment explanation
Indices: 79486329--79486426 Score: 162
Period size: 28 Copynumber: 3.5 Consensus size: 28
79486319 ATAGTAAGTC
* *
79486329 CGCACACTTAGTGCT-TAATAATCAAACT
1 CGCACACTTAGTGCTAT-ACAATTAAACT
79486357 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATTAAACT
79486385 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATTAAACT
79486413 CGCACACTTAGTGC
1 CGCACACTTAGTGC
79486427 CAATCTCATT
Statistics
Matches: 67, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
28 66 0.99
29 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATTAAACT
Found at i:79488493 original size:15 final size:15
Alignment explanation
Indices: 79488445--79488513 Score: 70
Period size: 15 Copynumber: 4.7 Consensus size: 15
79488435 TAAAGATAAC
*
79488445 AAGAAAACC-GAATA
1 AAGAAACCCAGAATA
* *
79488459 AAGAAATCCA-AGATT
1 AAGAAACCCAGA-ATA
*
79488474 GAGAAACCCAGAATA
1 AAGAAACCCAGAATA
*
79488489 AAGAAATCCAGAATA
1 AAGAAACCCAGAATA
79488504 AAGAAACCCA
1 AAGAAACCCA
79488514 AGATACGATA
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
14 9 0.20
15 34 0.77
16 1 0.02
ACGTcount: A:0.58, C:0.17, G:0.14, T:0.10
Consensus pattern (15 bp):
AAGAAACCCAGAATA
Found at i:79488509 original size:30 final size:30
Alignment explanation
Indices: 79488445--79488513 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
79488435 TAAAGATAAC
* *
79488445 AAGAAAACC-GAATAAAGAAATCCAAGATT
1 AAGAAACCCAGAATAAAGAAATCCAAGATA
*
79488474 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAACCCAGAATAAAGAAATCCAAG-ATA
79488504 AAGAAACCCA
1 AAGAAACCCA
79488514 AGATACGATA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.26
30 25 0.74
ACGTcount: A:0.58, C:0.17, G:0.14, T:0.10
Consensus pattern (30 bp):
AAGAAACCCAGAATAAAGAAATCCAAGATA
Found at i:79496074 original size:20 final size:21
Alignment explanation
Indices: 79496035--79496077 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
79496025 CCTGCAGCAT
*
79496035 AGGCGTGCCCCAGAGTCACAC
1 AGGCATGCCCCAGAGTCACAC
79496056 AGGCATGCCCCAG-GTCACAC
1 AGGCATGCCCCAGAGTCACAC
79496076 AG
1 AG
79496078 ACGTGTCCCC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.26, C:0.37, G:0.28, T:0.09
Consensus pattern (21 bp):
AGGCATGCCCCAGAGTCACAC
Found at i:79496087 original size:21 final size:21
Alignment explanation
Indices: 79496038--79496087 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
79496028 GCAGCATAGG
*
79496038 CGTGCCCCAGAGTCACACAGG
1 CGTGCCCCAGAGTCACACAGA
*
79496059 CATGCCCCAG-GTCACACAGA
1 CGTGCCCCAGAGTCACACAGA
79496079 CGTGTCCCC
1 CGTG-CCCC
79496088 CTGTAACTGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.22, C:0.42, G:0.24, T:0.12
Consensus pattern (21 bp):
CGTGCCCCAGAGTCACACAGA
Found at i:79496088 original size:22 final size:21
Alignment explanation
Indices: 79496040--79496079 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
79496030 AGCATAGGCG
*
79496040 TGCCCCAGAGTCACACAGGCA
1 TGCCCCAGAGTCACACAGACA
79496061 TGCCCCAG-GTCACACAGAC
1 TGCCCCAGAGTCACACAGAC
79496080 GTGTCCCCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.28, C:0.40, G:0.23, T:0.10
Consensus pattern (21 bp):
TGCCCCAGAGTCACACAGACA
Found at i:79504451 original size:25 final size:25
Alignment explanation
Indices: 79504423--79504495 Score: 119
Period size: 25 Copynumber: 2.9 Consensus size: 25
79504413 CCTCTTTTAA
79504423 TAACTGGGGCAAAGCCCTTTTTGAT
1 TAACTGGGGCAAAGCCCTTTTTGAT
* *
79504448 TAACTGGGGCAAAGCCCTTTTCGGT
1 TAACTGGGGCAAAGCCCTTTTTGAT
*
79504473 AAACTGGGGCAAAGCCCTTTTTG
1 TAACTGGGGCAAAGCCCTTTTTG
79504496 CACTTCCTCC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (25 bp):
TAACTGGGGCAAAGCCCTTTTTGAT
Found at i:79504585 original size:10 final size:10
Alignment explanation
Indices: 79504541--79504607 Score: 73
Period size: 10 Copynumber: 6.6 Consensus size: 10
79504531 TATAATGAGT
79504541 ATATCATGTGC
1 ATATCATGT-C
* **
79504552 ATCTCATAAC
1 ATATCATGTC
*
79504562 ACATCATGTGC
1 ATATCATGT-C
79504573 ATATCATGTC
1 ATATCATGTC
79504583 ATATCATGTC
1 ATATCATGTC
79504593 ATATCATGT-
1 ATATCATGTC
79504602 ATATCA
1 ATATCA
79504608 AAATCTCATG
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
9 6 0.13
10 26 0.55
11 15 0.32
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (10 bp):
ATATCATGTC
Found at i:79504588 original size:21 final size:21
Alignment explanation
Indices: 79504541--79504607 Score: 84
Period size: 21 Copynumber: 3.3 Consensus size: 21
79504531 TATAATGAGT
* **
79504541 ATATCATGTGCATCTCATAAC
1 ATATCATGTGCATATCATGTC
*
79504562 ACATCATGTGCATATCATGTC
1 ATATCATGTGCATATCATGTC
79504583 ATATCATGT-CATATCATGT-
1 ATATCATGTGCATATCATGTC
79504602 ATATCA
1 ATATCA
79504608 AAATCTCATG
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
19 6 0.15
20 10 0.24
21 25 0.61
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (21 bp):
ATATCATGTGCATATCATGTC
Found at i:79512451 original size:24 final size:24
Alignment explanation
Indices: 79512424--79512481 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 24
79512414 CTAGAGGCCT
79512424 AGCCTCTTTT-AATAACTAGGGCAA
1 AGCC-CTTTTGAATAACTAGGGCAA
* *
79512448 AGCCCTTTTTGATTAACTGGGGCAA
1 AGCCC-TTTTGAATAACTAGGGCAA
79512473 AGCCCTTTT
1 AGCCCTTTT
79512482 CGGTAAACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 1 0.03
24 12 0.40
25 17 0.57
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (24 bp):
AGCCCTTTTGAATAACTAGGGCAA
Found at i:79512464 original size:25 final size:25
Alignment explanation
Indices: 79512436--79512508 Score: 92
Period size: 25 Copynumber: 2.9 Consensus size: 25
79512426 CCTCTTTTAA
*
79512436 TAACTAGGGCAAAGCCCTTTTTGAT
1 TAACTGGGGCAAAGCCCTTTTTGAT
* *
79512461 TAACTGGGGCAAAGCCCTTTTCGGT
1 TAACTGGGGCAAAGCCCTTTTTGAT
* * *
79512486 AAACTGGGGTAAAGCACTTTTTG
1 TAACTGGGGCAAAGCCCTTTTTG
79512509 CACTTCCTCC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (25 bp):
TAACTGGGGCAAAGCCCTTTTTGAT
Found at i:79512588 original size:21 final size:21
Alignment explanation
Indices: 79512543--79512610 Score: 86
Period size: 21 Copynumber: 3.3 Consensus size: 21
79512533 CAACCCATAA
* * **
79512543 CATATCATGTGCATCTCTTAA
1 CATATCATGTGCATATCATGT
79512564 CATATCATGTGCATATCATGT
1 CATATCATGTGCATATCATGT
79512585 CATATCATGT-CATATCATGT
1 CATATCATGTGCATATCATGT
79512605 -ATATCA
1 CATATCA
79512611 AAATCTCATG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.14
20 10 0.23
21 27 0.63
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (21 bp):
CATATCATGTGCATATCATGT
Found at i:79512590 original size:10 final size:10
Alignment explanation
Indices: 79512564--79512610 Score: 78
Period size: 10 Copynumber: 4.7 Consensus size: 10
79512554 CATCTCTTAA
79512564 CATATCATGT
1 CATATCATGT
79512574 GCATATCATGT
1 -CATATCATGT
79512585 CATATCATGT
1 CATATCATGT
79512595 CATATCATGT
1 CATATCATGT
79512605 -ATATCA
1 CATATCA
79512611 AAATCTCATG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
9 6 0.17
10 20 0.56
11 10 0.28
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (10 bp):
CATATCATGT
Found at i:79529396 original size:26 final size:28
Alignment explanation
Indices: 79529367--79529426 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 28
79529357 CTTTCGAGAC
79529367 TAAT-AACGTC-TAACCCTCAGTTGAAT
1 TAATAAACGTCTTAACCCTCAGTTGAAT
**
79529393 TAATCAAAATTTCTTAACCCTCAGTTGAAT
1 TAAT--AAACGTCTTAACCCTCAGTTGAAT
79529423 TAAT
1 TAAT
79529427 CAAAATTTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 4 0.14
29 4 0.14
30 20 0.71
ACGTcount: A:0.37, C:0.20, G:0.08, T:0.35
Consensus pattern (28 bp):
TAATAAACGTCTTAACCCTCAGTTGAAT
Found at i:79529413 original size:30 final size:30
Alignment explanation
Indices: 79529377--79529437 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
79529367 TAATAACGTC
79529377 TAACCCTCAGTTGAATTAATCAAAATTTCT
1 TAACCCTCAGTTGAATTAATCAAAATTTCT
79529407 TAACCCTCAGTTGAATTAATCAAAATTTCT
1 TAACCCTCAGTTGAATTAATCAAAATTTCT
79529437 T
1 T
79529438 TCTTAATTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.36, C:0.20, G:0.07, T:0.38
Consensus pattern (30 bp):
TAACCCTCAGTTGAATTAATCAAAATTTCT
Found at i:79546654 original size:34 final size:34
Alignment explanation
Indices: 79546605--79546678 Score: 112
Period size: 34 Copynumber: 2.2 Consensus size: 34
79546595 AGTGCCACGA
*
79546605 TTCACAACTCAGTATGGAAATACCCTACCTACGT
1 TTCACAACTCAGTATGGAAATACCATACCTACGT
* * *
79546639 TTCACAGCTCCGTATGGAAATACCATACCTATGT
1 TTCACAACTCAGTATGGAAATACCATACCTACGT
79546673 TTCACA
1 TTCACA
79546679 CTTTGTCGTG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.31, C:0.28, G:0.12, T:0.28
Consensus pattern (34 bp):
TTCACAACTCAGTATGGAAATACCATACCTACGT
Found at i:79546763 original size:27 final size:27
Alignment explanation
Indices: 79546733--79546797 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
79546723 GATCACTGAA
* *
79546733 CACTTTGCTATGTTTGACACACTATAT
1 CACTTTGCCATGATTGACACACTATAT
* * *
79546760 CACTTTTCCATGATTGGCACACTTTAT
1 CACTTTGCCATGATTGACACACTATAT
* *
79546787 CATTTTTCCAT
1 CACTTTGCCAT
79546798 AGTTCAATTA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.23, C:0.25, G:0.09, T:0.43
Consensus pattern (27 bp):
CACTTTGCCATGATTGACACACTATAT
Found at i:79546941 original size:31 final size:31
Alignment explanation
Indices: 79546899--79547063 Score: 217
Period size: 31 Copynumber: 5.4 Consensus size: 31
79546889 AGCTGAAACC
* ** *
79546899 ACCACTATTCACTAATCAGGTAGATGGAGCT
1 ACCACTTTTCACTAATCAGGTAGCCGAAGCT
79546930 ACCACTTTTCACTAATCAGGTAGCCGAAGCT
1 ACCACTTTTCACTAATCAGGTAGCCGAAGCT
* * *
79546961 ACTACTTTTCACTGATCAGG--GCTGAAGCT
1 ACCACTTTTCACTAATCAGGTAGCCGAAGCT
*
79546990 ACCACTTTTCACTAATCAGGTAGCCCAAGCT
1 ACCACTTTTCACTAATCAGGTAGCCGAAGCT
* * *
79547021 ACCACTTTTCACTGATCAGGTGGCCGAAGTT
1 ACCACTTTTCACTAATCAGGTAGCCGAAGCT
79547052 ACCACTTTTCAC
1 ACCACTTTTCAC
79547064 ATTTTACACA
Statistics
Matches: 117, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
29 26 0.22
31 91 0.78
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (31 bp):
ACCACTTTTCACTAATCAGGTAGCCGAAGCT
Found at i:79547002 original size:60 final size:62
Alignment explanation
Indices: 79546899--79547063 Score: 226
Period size: 60 Copynumber: 2.7 Consensus size: 62
79546889 AGCTGAAACC
* * * ** * *
79546899 ACCACTATTCACTAATCAGGTAGATGGAGCTACCACTTTTCACTAATCAGGTAGCCGAAGCT
1 ACCACTTTTCACTGATCAGGTGGCCGAAGCTACCACTTTTCACTAATCAGGTAGCCCAAGCT
* *
79546961 ACTACTTTTCACTGATCA-G-GGCTGAAGCTACCACTTTTCACTAATCAGGTAGCCCAAGCT
1 ACCACTTTTCACTGATCAGGTGGCCGAAGCTACCACTTTTCACTAATCAGGTAGCCCAAGCT
*
79547021 ACCACTTTTCACTGATCAGGTGGCCGAAGTTACCACTTTTCAC
1 ACCACTTTTCACTGATCAGGTGGCCGAAGCTACCACTTTTCAC
79547064 ATTTTACACA
Statistics
Matches: 91, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
60 54 0.59
61 2 0.02
62 35 0.38
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (62 bp):
ACCACTTTTCACTGATCAGGTGGCCGAAGCTACCACTTTTCACTAATCAGGTAGCCCAAGCT
Found at i:79547021 original size:91 final size:91
Alignment explanation
Indices: 79546890--79547063 Score: 249
Period size: 91 Copynumber: 1.9 Consensus size: 91
79546880 GTCACTTGTA
***
79546890 GCTGAAACCACCACTATTCACTAATCAGGTAGATGGAGCTACCACTTTTCACTAATCAGGTAGCC
1 GCTGAAACCACCACTATTCACTAATCAGGTAGACCAAGCTACCACTTTTCACTAATCAGGTAGCC
*
79546955 GAAGCTACTACTTTTCACTGATCAGG
66 GAAGCTACCACTTTTCACTGATCAGG
* * * * * *
79546981 GCTGAAGCTACCACTTTTCACTAATCAGGTAGCCCAAGCTACCACTTTTCACTGATCAGGTGGCC
1 GCTGAAACCACCACTATTCACTAATCAGGTAGACCAAGCTACCACTTTTCACTAATCAGGTAGCC
*
79547046 GAAGTTACCACTTTTCAC
66 GAAGCTACCACTTTTCAC
79547064 ATTTTACACA
Statistics
Matches: 72, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
91 72 1.00
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (91 bp):
GCTGAAACCACCACTATTCACTAATCAGGTAGACCAAGCTACCACTTTTCACTAATCAGGTAGCC
GAAGCTACCACTTTTCACTGATCAGG
Found at i:79547106 original size:32 final size:31
Alignment explanation
Indices: 79547068--79547168 Score: 105
Period size: 33 Copynumber: 3.1 Consensus size: 31
79547058 TTTCACATTT
79547068 TACACACAAGGCATACATTTCCTTTTCAAG-TG
1 TACACACAAGG--TACATTTCCTTTTCAAGTTG
* *
79547100 TACACACAAAGTGTACGTTTCCTTTTTAAGTTG
1 TACACAC-AAG-GTACATTTCCTTTTCAAGTTG
* *
79547133 TACACATACAGTGTACATTTCCTTTTCCAGTTG
1 TACACACA-AG-GTACATTTCCTTTTCAAGTTG
79547166 TAC
1 TAC
79547169 CTTTTAGGTA
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
32 23 0.39
33 35 0.59
34 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.37
Consensus pattern (31 bp):
TACACACAAGGTACATTTCCTTTTCAAGTTG
Found at i:79547146 original size:33 final size:33
Alignment explanation
Indices: 79547081--79547168 Score: 124
Period size: 33 Copynumber: 2.7 Consensus size: 33
79547071 ACACAAGGCA
79547081 TACATTTCCTTTTCAAG-TGTACACACAAAGTG
1 TACATTTCCTTTTCAAGTTGTACACACAAAGTG
* * * *
79547113 TACGTTTCCTTTTTAAGTTGTACACATACAGTG
1 TACATTTCCTTTTCAAGTTGTACACACAAAGTG
*
79547146 TACATTTCCTTTTCCAGTTGTAC
1 TACATTTCCTTTTCAAGTTGTAC
79547169 CTTTTAGGTA
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
32 15 0.31
33 33 0.69
ACGTcount: A:0.25, C:0.22, G:0.12, T:0.41
Consensus pattern (33 bp):
TACATTTCCTTTTCAAGTTGTACACACAAAGTG
Found at i:79548820 original size:11 final size:11
Alignment explanation
Indices: 79548804--79548856 Score: 54
Period size: 11 Copynumber: 4.7 Consensus size: 11
79548794 TATACTAAAT
79548804 AAATAATAATA
1 AAATAATAATA
79548815 AAATAATAAT-
1 AAATAATAATA
* *
79548825 AAATATCTCATTA
1 AAATA-AT-AATA
*
79548838 AAATATTAATA
1 AAATAATAATA
79548849 AAATAATA
1 AAATAATA
79548857 TTTATCCAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
10 5 0.15
11 21 0.62
12 3 0.09
13 5 0.15
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (11 bp):
AAATAATAATA
Found at i:79551681 original size:24 final size:24
Alignment explanation
Indices: 79551647--79551718 Score: 67
Period size: 24 Copynumber: 3.0 Consensus size: 24
79551637 CCCAGGCTAT
79551647 ATAAT-GGGAAGCTCATAAGAGCC
1 ATAATCGGGAAGCTCATAAGAGCC
* * *
79551670 ATAATCGGGAAGTTCACAAAGATCC
1 ATAATCGGGAAGCTCA-TAAGAGCC
* *
79551695 AT-ATCAGAAAGCTCATGAAGAGCC
1 ATAATCGGGAAGCTCAT-AAGAGCC
79551719 TATTAGGAAG
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
23 5 0.13
24 25 0.66
25 8 0.21
ACGTcount: A:0.40, C:0.19, G:0.22, T:0.18
Consensus pattern (24 bp):
ATAATCGGGAAGCTCATAAGAGCC
Found at i:79558506 original size:27 final size:27
Alignment explanation
Indices: 79558475--79558769 Score: 326
Period size: 27 Copynumber: 11.0 Consensus size: 27
79558465 GTAGGCAAAT
* * *
79558475 CAGTCATTTTACCTTACAAGGGTATTA
1 CAGTCATTTTACCCTATAGGGGTATTA
* *
79558502 AAGTCATTTTACCCTACAGGGGTATTA
1 CAGTCATTTTACCCTATAGGGGTATTA
* * *
79558529 CAGTCAATTTACCTTATAGGGGTATTT
1 CAGTCATTTTACCCTATAGGGGTATTA
* *
79558556 CGGTCATTTTACCCTATGGGGGTATT-
1 CAGTCATTTTACCCTATAGGGGTATTA
** * *
79558582 TGGTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATAGGGGTATTA
*
79558609 CGGTCATTTTACCCTATAGGGGTATTA
1 CAGTCATTTTACCCTATAGGGGTATTA
*
79558636 CAGTCATTTTACCCTACAGGGGTATTA
1 CAGTCATTTTACCCTATAGGGGTATTA
* * *
79558663 CAGTCATCTTACCCTACAAGGGTATTA
1 CAGTCATTTTACCCTATAGGGGTATTA
* * *
79558690 CAGTCATTTCACCTTATAGGGGTATTT
1 CAGTCATTTTACCCTATAGGGGTATTA
* *
79558717 C-GATCATTTTACCCTATCGGGGTATTT
1 CAG-TCATTTTACCCTATAGGGGTATTA
*
79558744 CGGTCATTTTACCCTAT-GAGGGTATT
1 CAGTCATTTTACCCTATAG-GGGTATT
79558770 TTTGCCATTT
Statistics
Matches: 235, Mismatches: 29, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
26 27 0.11
27 207 0.88
28 1 0.00
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.38
Consensus pattern (27 bp):
CAGTCATTTTACCCTATAGGGGTATTA
Found at i:79566207 original size:23 final size:23
Alignment explanation
Indices: 79566181--79566237 Score: 114
Period size: 23 Copynumber: 2.5 Consensus size: 23
79566171 AGGGACTAAA
79566181 TCGAAAGGGTATACTGACTTAAT
1 TCGAAAGGGTATACTGACTTAAT
79566204 TCGAAAGGGTATACTGACTTAAT
1 TCGAAAGGGTATACTGACTTAAT
79566227 TCGAAAGGGTA
1 TCGAAAGGGTA
79566238 CCCTAGGGGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (23 bp):
TCGAAAGGGTATACTGACTTAAT
Found at i:79568602 original size:26 final size:26
Alignment explanation
Indices: 79568554--79568613 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
79568544 GACAACTAAT
* *
79568554 GCCTACTAAATAAACATCAGCACAAA
1 GCCTGCTAAATAAACACCAGCACAAA
* * *
79568580 GCTTGCTAAATATACACCGGCACAAA
1 GCCTGCTAAATAAACACCAGCACAAA
79568606 GCCTGCTA
1 GCCTGCTA
79568614 CACCCTAATG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.40, C:0.28, G:0.13, T:0.18
Consensus pattern (26 bp):
GCCTGCTAAATAAACACCAGCACAAA
Found at i:79575857 original size:39 final size:39
Alignment explanation
Indices: 79575705--79575964 Score: 311
Period size: 38 Copynumber: 6.6 Consensus size: 39
79575695 GCTCCTCGTT
* *
79575705 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
79575745 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
79575785 CAAATGCCTTCGGGCTTA-CCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
79575823 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
79575862 CAAATGCCTTCGGGCTTAG-CCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* * *
79575900 CAAATGCCTTCGGATCTTAGTCCGG-A-TATGTCA-CTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGAATTA-GT-ATC-TCGCA
79575940 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
79575965 CATCATTCAA
Statistics
Matches: 201, Mismatches: 9, Indels: 20
0.87 0.04 0.09
Matches are distributed among these distances:
38 70 0.35
39 70 0.35
40 59 0.29
41 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:79575872 original size:77 final size:78
Alignment explanation
Indices: 79575705--79575912 Score: 305
Period size: 77 Copynumber: 2.7 Consensus size: 78
79575695 GCTCCTCGTT
* *
79575705 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGACTTAACCC
1 CAAATGCCTTCGGG-CTTA-CCCGGAAT-TAGT-ATCTCGCACAAATGCCTTCGGGACTTAACCC
*
79575768 GGATTTAGTAACTCGCA
62 GGAATTAGTAACTCGCA
*
79575785 CAAATGCCTTCGGGCTTACCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGGAA
1 CAAATGCCTTCGGGCTTACCCGGAATTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGGAA
*
79575849 TTAGTATCTCGCA
66 TTAGTAACTCGCA
*
79575862 CAAATGCCTTCGGGCTTAGCCGGAATTAGTATCTCGCACAAATGCCTTCGG
1 CAAATGCCTTCGGGCTTACCCGGAATTAGTATCTCGCACAAATGCCTTCGG
79575913 ATCTTAGTCC
Statistics
Matches: 120, Mismatches: 6, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
77 74 0.62
78 28 0.23
79 4 0.03
80 14 0.12
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTACCCGGAATTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGGAA
TTAGTAACTCGCA
Found at i:79575948 original size:77 final size:77
Alignment explanation
Indices: 79575705--79575960 Score: 292
Period size: 77 Copynumber: 3.3 Consensus size: 77
79575695 GCTCCTCGTT
* * *
79575705 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGACTTAACCC
1 CAAATGCCTTCGGG-CTTAG-CCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGACTTAGCCC
*
79575768 GGATTTAGTAAC-TCGCA
61 GGATATAGT-ACTTCGCA
* *
79575785 CAAATGCCTTCGGGCTTACCCGGAATTAGTATCTCGCACAAATGCCTTCGGGCTTAGCCCGGA-A
1 CAAATGCCTTCGGGCTTAGCCGGAATTAGTATCTCGCACAAATGCCTTCGGACTTAGCCCGGATA
79575849 TTAGTA-TCTCGCA
66 -TAGTACT-TCGCA
*
79575862 CAAATGCCTTCGGGCTTAGCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 CAAATGCCTTCGGGCTTAGCCGGAATTAGTATCTCGCACAAATGCCTTCGGA-CTTAGCCCGGAT
*
79575927 AT-GTCACTTAGCA
65 ATAGT-ACTTCGCA
79575940 CAAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGG-CTTAGCC
79575961 CGGACATCAT
Statistics
Matches: 156, Mismatches: 10, Indels: 22
0.83 0.05 0.12
Matches are distributed among these distances:
76 1 0.01
77 84 0.54
78 51 0.33
79 6 0.04
80 14 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (77 bp):
CAAATGCCTTCGGGCTTAGCCGGAATTAGTATCTCGCACAAATGCCTTCGGACTTAGCCCGGATA
TAGTACTTCGCA
Found at i:79583841 original size:39 final size:40
Alignment explanation
Indices: 79583695--79583912 Score: 226
Period size: 39 Copynumber: 5.7 Consensus size: 40
79583685 GCTCCTCGTT
* *
79583695 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACT--CA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
79583733 CAAATGCCTTCGGGACTTAACCCGGATTTA--AACTCG--
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* *
79583769 CAAATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
79583809 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
79583848 CAAATGCCTTC-GGATCTTAGTCCGG-A-TATGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAATTA-GTAAC-TCGCA
79583888 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
79583913 CATCATTCAA
Statistics
Matches: 157, Mismatches: 10, Indels: 24
0.82 0.05 0.13
Matches are distributed among these distances:
36 33 0.21
38 34 0.22
39 56 0.36
40 34 0.22
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:79583873 original size:79 final size:76
Alignment explanation
Indices: 79583695--79583912 Score: 202
Period size: 79 Copynumber: 2.9 Consensus size: 76
79583685 GCTCCTCGTT
* * * * *
79583695 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAAC-T--CACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAACCCGGATAT-GTCACTTAGCACAAATGCCTTCGGGACTTAGCCCG
*
79583757 GATTTAAACTCG
65 GAATTAAACTCG
*
79583769 CAAATGCCTTCGGGACTTAACCCGGA-ATTAGT-A-TCTCGCACAAATGCCTTCGGG-CTTAGCC
1 CAAATGCCTTCGGGACTTAACCCGGATA-T-GTCACT-TAGCACAAATGCCTTCGGGACTTAGCC
*
79583830 CGGAATTAGTATCTCG
63 CGGAATTA--AACTCG
**
79583846 CACAAATGCCTTC-GGATCTTAGTCCGGATATGTCACTTAGCACAAA-GCCTTCGGGACTTAGCC
1 --CAAATGCCTTCGGGA-CTTAACCCGGATATGTCACTTAGCACAAATGCCTTCGGGACTTAGCC
79583909 CGGA
63 CGGA
79583913 CATCATTCAA
Statistics
Matches: 121, Mismatches: 9, Indels: 23
0.79 0.06 0.15
Matches are distributed among these distances:
73 2 0.02
74 28 0.23
75 13 0.11
76 16 0.13
77 5 0.04
78 14 0.12
79 41 0.34
80 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (76 bp):
CAAATGCCTTCGGGACTTAACCCGGATATGTCACTTAGCACAAATGCCTTCGGGACTTAGCCCGG
AATTAAACTCG
Found at i:79618775 original size:39 final size:40
Alignment explanation
Indices: 79618730--79618840 Score: 98
Period size: 40 Copynumber: 2.8 Consensus size: 40
79618720 CGGGGTTTAG
* * *
79618730 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
79618769 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * *
79618809 CCGGATATAGTCGCTAGCACAAATGCCTTCGG
1 CCGGATATAACCACTAGCATAAAGGCCTTCGG
79618841 ATCTTAGTCC
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
39 15 0.25
40 45 0.75
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:79618800 original size:40 final size:40
Alignment explanation
Indices: 79618753--79618897 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
79618743 CTCGCACAAG
* * * * *
79618753 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
79618793 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
79618833 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
*
79618874 GCCTTCGGGACTTTGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
79618898 CATTCGAGTA
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.65
41 26 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:79635088 original size:54 final size:53
Alignment explanation
Indices: 79635029--79635164 Score: 134
Period size: 54 Copynumber: 2.5 Consensus size: 53
79635019 CTCAAGTTAA
* * *
79635029 AGAGTTACATGGTCAGGCACAAAGCCTA-AAACATGCCCGTGTGGCTCCA-GTCAG
1 AGAGTTACACGGTCAGGCACAAAGCCTACAAACA--CCCGTATGAC-CCAGGTCAG
* * * **
79635083 AGAGTTAAACGGTCTGGAACACGGCCTAACAAACACCCGTATGACCCAGGTCAG
1 AGAGTTACACGGTCAGGCACAAAGCCT-ACAAACACCCGTATGACCCAGGTCAG
79635137 AGAGTTACACGGTCTA-GCACAAAGCCTA
1 AGAGTTACACGGTC-AGGCACAAAGCCTA
79635165 GCACATGTCT
Statistics
Matches: 65, Mismatches: 13, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
53 4 0.06
54 55 0.85
55 1 0.02
56 5 0.08
ACGTcount: A:0.32, C:0.26, G:0.24, T:0.17
Consensus pattern (53 bp):
AGAGTTACACGGTCAGGCACAAAGCCTACAAACACCCGTATGACCCAGGTCAG
Found at i:79642944 original size:24 final size:24
Alignment explanation
Indices: 79642912--79642961 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
79642902 CACGGGGTTG
79642912 AATTAGTTAAAAAGACTGAAGAGA
1 AATTAGTTAAAAAGACTGAAGAGA
* *
79642936 AATTAGTTAAGAAGATTGAAGAGA
1 AATTAGTTAAAAAGACTGAAGAGA
79642960 AA
1 AA
79642962 GTTAAAGTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.02, G:0.22, T:0.22
Consensus pattern (24 bp):
AATTAGTTAAAAAGACTGAAGAGA
Found at i:79646239 original size:21 final size:21
Alignment explanation
Indices: 79646213--79646253 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
79646203 GTCAAAATGG
79646213 CCACACGGGCGTGTTGCCCTT
1 CCACACGGGCGTGTTGCCCTT
79646234 CCACACGGGCGTGTTGCCCT
1 CCACACGGGCGTGTTGCCCT
79646254 ATTTTACGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.10, C:0.39, G:0.29, T:0.22
Consensus pattern (21 bp):
CCACACGGGCGTGTTGCCCTT
Found at i:79649293 original size:55 final size:54
Alignment explanation
Indices: 79649155--79649360 Score: 234
Period size: 53 Copynumber: 3.8 Consensus size: 54
79649145 TCCTTTTTAA
* * * *
79649155 ACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GA
1 ACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGT
* * * * *
79649208 ACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAGT
1 ACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGT
* * * * * * *
79649262 AGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAAT
1 A-CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGT
* *
79649317 ACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 ACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
79649361 AAACCCTAAT
Statistics
Matches: 125, Mismatches: 26, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
53 45 0.36
54 38 0.30
55 42 0.34
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.38
Consensus pattern (54 bp):
ACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGT
Found at i:79652304 original size:44 final size:44
Alignment explanation
Indices: 79652165--79652334 Score: 213
Period size: 44 Copynumber: 3.9 Consensus size: 44
79652155 CTCGTACAAC
* * *
79652165 GCCAACATCCCAGACTTGGTCTTACATGT-AATCACATATCGAT
1 GCCAACGTCCCAGACATGGTCTTACACGTAAATCACATATCGAT
* * * * *
79652208 GCC-ACTGTCCTAGACAGGGTCTTATACG-AACTCATATAT-GAT
1 GCCAAC-GTCCCAGACATGGTCTTACACGTAAATCACATATCGAT
* *
79652250 GCCAATGTCCCAGACATGGTCTTACACGTAAATCACAAATCGAT
1 GCCAACGTCCCAGACATGGTCTTACACGTAAATCACATATCGAT
79652294 GCCAACGTCCCAGACATGGTCTTACACGTAAATCACATATC
1 GCCAACGTCCCAGACATGGTCTTACACGTAAATCACATATC
79652335 AAAATCCTAT
Statistics
Matches: 105, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
42 27 0.26
43 36 0.34
44 42 0.40
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (44 bp):
GCCAACGTCCCAGACATGGTCTTACACGTAAATCACATATCGAT
Found at i:79653432 original size:13 final size:13
Alignment explanation
Indices: 79653414--79653438 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
79653404 ACAAACAATA
79653414 AAATTTTCACACG
1 AAATTTTCACACG
79653427 AAATTTTCACAC
1 AAATTTTCACAC
79653439 ACATCAATTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:79663819 original size:14 final size:13
Alignment explanation
Indices: 79663783--79663839 Score: 55
Period size: 13 Copynumber: 4.4 Consensus size: 13
79663773 CCATATAAAC
*
79663783 ATTTCATATAA-C
1 ATTTCATATAATT
*
79663795 ACTTCATATAATT
1 ATTTCATATAATT
*
79663808 ATTTCTATATAACCT
1 ATTTC-ATATAA-TT
79663823 A-TTCATATAATT
1 ATTTCATATAATT
79663835 ATTTC
1 ATTTC
79663840 GTTTATCTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
12 12 0.33
13 13 0.36
14 9 0.25
15 2 0.06
ACGTcount: A:0.37, C:0.16, G:0.00, T:0.47
Consensus pattern (13 bp):
ATTTCATATAATT
Found at i:79663883 original size:13 final size:13
Alignment explanation
Indices: 79663863--79663930 Score: 52
Period size: 13 Copynumber: 5.2 Consensus size: 13
79663853 CATATAACAG
79663863 ATTC-ATATAACC
1 ATTCTATATAACC
* *
79663875 ATTCTATATATCT
1 ATTCTATATAACC
79663888 ATTTCTATATAACC
1 A-TTCTATATAACC
*
79663902 AATTCT-TATAATC
1 -ATTCTATATAACC
*
79663915 ATT-TCACATAACC
1 ATTCT-ATATAACC
79663928 ATT
1 ATT
79663931 TCATATAGTT
Statistics
Matches: 44, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
11 1 0.02
12 7 0.16
13 21 0.48
14 14 0.32
15 1 0.02
ACGTcount: A:0.37, C:0.21, G:0.00, T:0.43
Consensus pattern (13 bp):
ATTCTATATAACC
Found at i:79663898 original size:40 final size:40
Alignment explanation
Indices: 79663775--79663915 Score: 105
Period size: 40 Copynumber: 3.5 Consensus size: 40
79663765 ATATCTATCC
*
79663775 ATATAAACATTTCATATAA-CACTTC-ATATAAT-TATTTCT
1 ATAT-AACAATTCATATAATCACTTCTATAT-ATCTATTTCT
* * * ** *
79663814 ATATAACCTATTCATATAATTATTTCGT-T-TATCTAAATCC
1 ATATAA-CAATTCATATAATCACTTC-TATATATCTATTTCT
*
79663854 ATATAACAGATTCATATAACCA-TTCTATATATCTATTTCT
1 ATATAACA-ATTCATATAATCACTTCTATATATCTATTTCT
*
79663894 ATATAACCAATTCTTATAATCA
1 ATATAA-CAATTCATATAATCA
79663916 TTTCACATAA
Statistics
Matches: 78, Mismatches: 15, Indels: 17
0.71 0.14 0.15
Matches are distributed among these distances:
38 3 0.04
39 21 0.27
40 51 0.65
41 3 0.04
ACGTcount: A:0.39, C:0.17, G:0.01, T:0.43
Consensus pattern (40 bp):
ATATAACAATTCATATAATCACTTCTATATATCTATTTCT
Found at i:79663912 original size:80 final size:79
Alignment explanation
Indices: 79663771--79663919 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 79
79663761 TTACATATCT
* * *
79663771 ATCCATATAAACATTTCATATAACACTTCATATAATTATTTCTATATAACCTATTCATATAATTA
1 ATCCATATAAACAATTCATATAACACTTCATATAATTATTTCTATATAACCAATTCATATAATCA
79663836 TTTCGTTTATCTAA
66 TTTCGTTTATCTAA
*
79663850 ATCCATAT-AACAGATTCATATAAC-CATTC-TATATATCTATTTCTATATAACCAATTCTTATA
1 ATCCATATAAACA-ATTCATATAACAC-TTCATATA-AT-TATTTCTATATAACCAATTCATATA
79663912 ATCATTTC
62 ATCATTTC
79663920 ACATAACCAT
Statistics
Matches: 62, Mismatches: 4, Indels: 7
0.85 0.05 0.10
Matches are distributed among these distances:
78 9 0.15
79 23 0.37
80 30 0.48
ACGTcount: A:0.38, C:0.18, G:0.01, T:0.43
Consensus pattern (79 bp):
ATCCATATAAACAATTCATATAACACTTCATATAATTATTTCTATATAACCAATTCATATAATCA
TTTCGTTTATCTAA
Found at i:79663944 original size:26 final size:24
Alignment explanation
Indices: 79663783--79663945 Score: 85
Period size: 27 Copynumber: 6.2 Consensus size: 24
79663773 CCATATAAAC
79663783 ATTTCATATAA-CACTTCATATAATT
1 ATTTCATATAACCA-TTCATAT-ATT
79663808 ATTTCTATATAACCTATTCATATAATT
1 ATTTC-ATATAACC-ATTCATAT-ATT
* * * * * **
79663835 ATTTCGTTTATCTAAATCCATATAAC
1 ATTTCATATAAC--CATTCATATATT
*
79663861 AGATTCATATAACCATTCTATATATCT
1 A-TTTCATATAACCATTC-ATATAT-T
* *
79663888 ATTTCTATATAACCAATTCTTATAATC
1 ATTTC-ATATAACC-ATTCATAT-ATT
*
79663915 ATTTCACATAACCATTTCATATAGTT
1 ATTTCATATAACCA-TTCATATA-TT
79663941 ATTTC
1 ATTTC
79663946 TAAGTGTTAA
Statistics
Matches: 104, Mismatches: 21, Indels: 25
0.69 0.14 0.17
Matches are distributed among these distances:
25 10 0.10
26 39 0.38
27 48 0.46
28 7 0.07
ACGTcount: A:0.36, C:0.18, G:0.02, T:0.44
Consensus pattern (24 bp):
ATTTCATATAACCATTCATATATT
Found at i:79667495 original size:23 final size:23
Alignment explanation
Indices: 79667455--79667499 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
79667445 TTTTATAAAC
79667455 ATATCTAATAATAAAATTTTCAA
1 ATATCTAATAATAAAATTTTCAA
79667478 ATATC-AATAATAATAATTTTCA
1 ATATCTAATAATAA-AATTTTCA
79667500 TAAAAATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (23 bp):
ATATCTAATAATAAAATTTTCAA
Found at i:79678131 original size:44 final size:42
Alignment explanation
Indices: 79678062--79678225 Score: 157
Period size: 43 Copynumber: 3.8 Consensus size: 42
79678052 CATGGCATAG
* * *
79678062 GATTTCGTGTAAGACCACGTCTGGGACATTGGTATCGACTTCT
1 GATTTTGTGTAAGACCATGTCTGGGACATTGGCATCGACTT-T
* ** **
79678105 GTTTTATGTGTAAGACCATGTCTGGGACATCAGCATCGTGTTT
1 GATTT-TGTGTAAGACCATGTCTGGGACATTGGCATCGACTTT
* * *
79678148 GATTTTGTGTAAGACCCTGTCTGGGACAGTGGCATCGATGTTT
1 GATTTTGTGTAAGACCATGTCTGGGACATTGGCATCGA-CTTT
*** * *
79678191 GATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 GATTTTGTGTAAGACCATGTCTGGGACATTGGCAT
79678226 TGTATATGTT
Statistics
Matches: 98, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
42 28 0.29
43 41 0.42
44 29 0.30
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.33
Consensus pattern (42 bp):
GATTTTGTGTAAGACCATGTCTGGGACATTGGCATCGACTTT
Found at i:79682044 original size:37 final size:37
Alignment explanation
Indices: 79681990--79682100 Score: 195
Period size: 37 Copynumber: 3.0 Consensus size: 37
79681980 CCATTTTTCT
79681990 TACCCAATTTGGCATATACCTATATACGACATTGCAC
1 TACCCAATTTGGCATATACCTATATACGACATTGCAC
* *
79682027 TACCCAATTTGGTATATACCTATATACGGCATTGCAC
1 TACCCAATTTGGCATATACCTATATACGACATTGCAC
*
79682064 TACCCAATTTGGCATATACCTATATATGACATTGCAC
1 TACCCAATTTGGCATATACCTATATACGACATTGCAC
79682101 ATACTTACAA
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.32
Consensus pattern (37 bp):
TACCCAATTTGGCATATACCTATATACGACATTGCAC
Found at i:79683095 original size:25 final size:25
Alignment explanation
Indices: 79683061--79683143 Score: 80
Period size: 25 Copynumber: 3.3 Consensus size: 25
79683051 TCATGGACAT
*
79683061 GTATGCTCATACGAGCTGT-GAATCG
1 GTATGCTCATACGAGCTATAG-ATCG
**
79683086 GTATGCTCATTTGAGCTATAGATCG
1 GTATGCTCATACGAGCTATAGATCG
* * *
79683111 GTATGCTC-TCACAAGCTATAAATTG
1 GTATGCTCAT-ACGAGCTATAGATCG
79683136 GTATGCTC
1 GTATGCTC
79683144 TTACTGTAAC
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
24 1 0.02
25 46 0.96
26 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (25 bp):
GTATGCTCATACGAGCTATAGATCG
Found at i:79688842 original size:46 final size:46
Alignment explanation
Indices: 79688663--79688969 Score: 211
Period size: 46 Copynumber: 6.5 Consensus size: 46
79688653 TTTGTGTGCC
* * *
79688663 AGTGTAAGA-CATGTTTGGGACATGCATCGGCCACA-TTGTGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGG-CACAGATGT-AGAGCT
** * *
79688709 AGTGTAAGACCATGTCTGGGACATGGCATTAGCATTGAGACG-AGAGCT
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCA--CAGATGTAGAGCT
* * * * *
79688757 AATGTAACA-AATGTCTGGGACATGCATCGACCTCGAGATGTA-AGCT
1 AGTGTAAGACCATGTCTGGGACATGCATCG-GCAC-AGATGTAGAGCT
* *
79688803 AGTGTAAGA-CATGTCTGGGACATGCATCGGTTACTAGATGT-G-TC-
1 AGTGTAAGACCATGTCTGGGACATGCATCGG-CAC-AGATGTAGAGCT
* * * ** *
79688847 AGTGTAAGACCATGTATGGGACATGGCATTGGCACATATAAAG-GTTT
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCACAGATGTAGAG-CT
*
79688894 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGATATGTGAGAGCT
1 -AGTGTAAGACCATGTCTGGGACAT-GCATCGGCAC--AGATGT-AGAGCT
79688945 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGACCATGTCTGGGACATG
79688970 GCGTTGGCCT
Statistics
Matches: 204, Mismatches: 37, Indels: 37
0.73 0.13 0.13
Matches are distributed among these distances:
44 12 0.06
45 17 0.08
46 60 0.29
47 30 0.15
48 50 0.25
49 2 0.01
50 29 0.14
51 3 0.01
52 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGGCACAGATGTAGAGCT
Found at i:79689017 original size:49 final size:50
Alignment explanation
Indices: 79688662--79689023 Score: 206
Period size: 46 Copynumber: 7.6 Consensus size: 50
79688652 ATTTGTGTGC
* *
79688662 CAGTGTAAGA-CATGTTTGGGACAT-GCATCGGC-CAC-AT-TGTGAGAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-CGATATGTGAGAGT
** ** * *
79688708 CAGTGTAAGACCATGTCTGGGACATGGCATTAGCATTGAGA--CGAGAG-
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGATATGTGAGAGT
* * * * *
79688755 CTAATGTAACA-AATGTCTGGGACAT-GCATCGAC-CTCGAGATGT-A-AG-
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-CGATATGTGAGAGT
* * *
79688801 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGTTA-CTAGATGT----GT
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCGG-CACCGATATGTGAGAGT
* * **
79688846 CAGTGTAAGACCATGTATGGGACATGGCATTGGCA-C-ATAT-AAAG-GTTT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGATATGTGAGAG--T
*
79688894 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGATATGTGAGAG-
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGATATGTGAGAGT
* * *
79688943 CTAGTGTAAGACCATGTCTGGGACATGGCGTTGGC-CTCGAT-T-TCGATAGT
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-CGATATGT-GAGAGT
*
79688993 CAGTGTAAGACCATGTTTGGGACATGGCATC
1 CAGTGTAAGACCATGTCTGGGACATGGCATC
79689024 AATTTGATGG
Statistics
Matches: 250, Mismatches: 39, Indels: 51
0.74 0.11 0.15
Matches are distributed among these distances:
44 13 0.05
45 16 0.06
46 63 0.25
47 28 0.11
48 53 0.21
49 35 0.14
50 39 0.16
51 2 0.01
52 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (50 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGATATGTGAGAGT
Found at i:79689839 original size:21 final size:21
Alignment explanation
Indices: 79689814--79689853 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
79689804 ACATACGGGC
79689814 GTGTGTCTAGACCGTGTGTCA
1 GTGTGTCTAGACCGTGTGTCA
79689835 GTGTGTCTAGACCGTGTGT
1 GTGTGTCTAGACCGTGTGT
79689854 GACACATGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.12, C:0.17, G:0.35, T:0.35
Consensus pattern (21 bp):
GTGTGTCTAGACCGTGTGTCA
Found at i:79691934 original size:25 final size:25
Alignment explanation
Indices: 79691906--79691968 Score: 90
Period size: 25 Copynumber: 2.5 Consensus size: 25
79691896 GCTTTTCTTC
* *
79691906 TTCCAATTAAACTTTGTTTTTAGTT
1 TTCCACTTAAACTTTATTTTTAGTT
*
79691931 TTCCACTTAAAATTTATTTTTAGTT
1 TTCCACTTAAACTTTATTTTTAGTT
*
79691956 TTACACTTAAACT
1 TTCCACTTAAACT
79691969 CTGATTAGTG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.29, C:0.14, G:0.05, T:0.52
Consensus pattern (25 bp):
TTCCACTTAAACTTTATTTTTAGTT
Found at i:79704562 original size:27 final size:26
Alignment explanation
Indices: 79704516--79704576 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 26
79704506 CTTCTCCCAA
79704516 TTAAACTC-TTTTTTTAGTTTC-CTAC
1 TTAAACTCTTTTTTTTAGTTTCAC-AC
*
79704541 TTAAACTCTTTTTTTTTTGTTTCACAC
1 TTAAACTC-TTTTTTTTAGTTTCACAC
79704568 TTAAACTCT
1 TTAAACTCT
79704577 AATTAATGTA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
25 8 0.25
26 1 0.03
27 22 0.69
28 1 0.03
ACGTcount: A:0.21, C:0.20, G:0.03, T:0.56
Consensus pattern (26 bp):
TTAAACTCTTTTTTTTAGTTTCACAC
Found at i:79705127 original size:21 final size:20
Alignment explanation
Indices: 79705090--79705128 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
79705080 AATATTATGC
*
79705090 CTAATTTTTATTATTTTAAT
1 CTAATTTATATTATTTTAAT
*
79705110 CTAATATTATATTTTTTTA
1 CTAAT-TTATATTATTTTA
79705129 TTTTAGTTCC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (20 bp):
CTAATTTATATTATTTTAAT
Found at i:79705733 original size:21 final size:21
Alignment explanation
Indices: 79705704--79705760 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
79705694 AAACGAAAAC
*
79705704 AAAACAATAAAACACCACTAA
1 AAAACAATAAAACACCACCAA
* *
79705725 AAAATAATAAAACAGCACCAA
1 AAAACAATAAAACACCACCAA
79705746 AACAAC-ATCAAAACA
1 AA-AACAAT-AAAACA
79705761 GCATCAAACA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 22 0.73
22 8 0.27
ACGTcount: A:0.67, C:0.23, G:0.02, T:0.09
Consensus pattern (21 bp):
AAAACAATAAAACACCACCAA
Found at i:79705749 original size:11 final size:11
Alignment explanation
Indices: 79705733--79705805 Score: 51
Period size: 11 Copynumber: 6.4 Consensus size: 11
79705723 AAAAAATAAT
79705733 AAAACAGCACC
1 AAAACAGCACC
* *
79705744 AAAACAACATC
1 AAAACAGCACC
*
79705755 AAAACAGCATCA
1 AAAACAGCA-CC
*
79705767 AACAACAG-A-A
1 AA-AACAGCACC
79705777 AAAACAGCATCACC
1 AAAACAG---CACC
79705791 AAAACAGCACC
1 AAAACAGCACC
79705802 AAAA
1 AAAA
79705806 ACTTACAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
9 5 0.10
10 3 0.06
11 25 0.51
12 3 0.06
13 6 0.12
14 7 0.14
ACGTcount: A:0.60, C:0.29, G:0.07, T:0.04
Consensus pattern (11 bp):
AAAACAGCACC
Found at i:79705780 original size:22 final size:21
Alignment explanation
Indices: 79705733--79705788 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
79705723 AAAAAATAAT
* **
79705733 AAAACAGCACCAAAACAACATC
1 AAAACAGCATC-AAACAACAAA
79705755 AAAACAGCATCAAACAACAGAA
1 AAAACAGCATCAAACAACA-AA
79705777 AAAACAGCATCA
1 AAAACAGCATCA
79705789 CCAAAACAGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 8 0.27
22 22 0.73
ACGTcount: A:0.61, C:0.27, G:0.07, T:0.05
Consensus pattern (21 bp):
AAAACAGCATCAAACAACAAA
Found at i:79709299 original size:40 final size:40
Alignment explanation
Indices: 79709240--79709507 Score: 446
Period size: 40 Copynumber: 6.7 Consensus size: 40
79709230 GAGCATTGGA
*
79709240 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
*
79709280 ATATATCCGGGCTATGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
* * *
79709320 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
* *
79709360 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
*
79709400 ATATATCCGGGCTATGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
79709440 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
* *
79709480 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
79709508 ATGTGTTTGC
Statistics
Matches: 215, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 215 1.00
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
Found at i:79719267 original size:40 final size:40
Alignment explanation
Indices: 79719208--79719458 Score: 312
Period size: 40 Copynumber: 6.3 Consensus size: 40
79719198 CATTTGAATG
*
79719208 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
79719248 TTATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
79719288 TTATCCGGGTTAA-ACCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
79719327 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * *
79719367 ATATCTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * * * *
79719407 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
79719447 ATATCC-GGCTAA
1 ATATCCGGGCTAA
79719459 ATTCCGAAGA
Statistics
Matches: 189, Mismatches: 18, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
39 44 0.23
40 142 0.75
41 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:79719450 original size:80 final size:80
Alignment explanation
Indices: 79719208--79719458 Score: 328
Period size: 79 Copynumber: 3.2 Consensus size: 80
79719198 CATTTGAATG
*
79719208 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTTTATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTTTATCCGGGTTAAGACCCGAAGGCA
* *
79719273 TTTATGCTAGTGATT
66 TTTGTGCTAGTGGTT
* * *
79719288 TTATCCGGGTTAA-ACCCGAAGGCATTTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTTTATCCGGGTTAAGACCCGAAGGCA
* * *
79719352 TTTGTGCGAGTTGAT
66 TTTGTGCTAGTGGTT
* * * * *
79719367 ATATCTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATACCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTTTATCCGGGTTAAGACCCGAAGGC
* *
79719431 AATTGTGCTTGTGGTT
65 ATTTGTGCTAGTGGTT
79719447 ATATCC-GGCTAA
1 ATATCCGGGCTAA
79719459 ATTCCGAAGA
Statistics
Matches: 146, Mismatches: 23, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
79 75 0.51
80 69 0.47
81 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTTTATCCGGGTTAAGACCCGAAGGCA
TTTGTGCTAGTGGTT
Found at i:79719457 original size:119 final size:119
Alignment explanation
Indices: 79719208--79719458 Score: 328
Period size: 119 Copynumber: 2.1 Consensus size: 119
79719198 CATTTGAATG
* * * *
79719208 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTTTATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCA
* * * * *
79719273 TTTATGCTAGTGATTTTATCCGGGTTAAACCCGAAGGCATTTGTGCTAGTGATT
66 TTTATGCGAGTGACTATACCCGGGTTAAACCCGAAGGCAATTGTGCTAGTGATT
* *
79719327 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TATATCTGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATTATATCCGGGCTAAGACCCGAAGGC
* * *
79719391 ATTTGTGCGAGTTG-CTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
65 ATTTATGCGAG-TGACTATACCCGGGTTAA-ACCCGAAGGCAATTGTGCTAGTGATT
79719447 ATATCC-GGCTAA
1 ATATCCGGGCTAA
79719459 ATTCCGAAGA
Statistics
Matches: 114, Mismatches: 15, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
119 81 0.71
120 33 0.29
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (119 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCA
TTTATGCGAGTGACTATACCCGGGTTAAACCCGAAGGCAATTGTGCTAGTGATT
Found at i:79720973 original size:15 final size:15
Alignment explanation
Indices: 79720955--79721107 Score: 55
Period size: 15 Copynumber: 9.9 Consensus size: 15
79720945 CCGCAATAGT
*
79720955 AGAAAAACCAGAATA
1 AGAAAAACCACAATA
* *
79720970 AGAAAACCCACAAAA
1 AGAAAAACCACAATA
* *
79720985 ACTATAAA-CACAATA
1 A-GAAAAACCACAATA
*
79721000 GCAGAAAAACC-TAATA
1 --AGAAAAACCACAATA
* *
79721016 AAAGAAAACCATAATA
1 AGA-AAAACCACAATA
*
79721032 AGAAAAACCAGAA-A
1 AGAAAAACCACAATA
* *
79721046 ACCTATAAA-CACAATA
1 A--GAAAAACCACAATA
*
79721062 GCATAAAAACC-CAATA
1 --AGAAAAACCACAATA
*
79721078 GCAGAAAAACCAGAATA
1 --AGAAAAACCACAATA
*
79721095 AGAAACACCACAA
1 AGAAAAACCACAA
79721108 AAACTATGAA
Statistics
Matches: 104, Mismatches: 21, Indels: 26
0.69 0.14 0.17
Matches are distributed among these distances:
14 4 0.04
15 49 0.47
16 43 0.41
17 7 0.07
18 1 0.01
ACGTcount: A:0.62, C:0.20, G:0.08, T:0.09
Consensus pattern (15 bp):
AGAAAAACCACAATA
Found at i:79721088 original size:16 final size:16
Alignment explanation
Indices: 79721052--79721088 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
79721042 GAAAACCTAT
* *
79721052 AAACACAATAGCATAA
1 AAACCCAATAGCAGAA
79721068 AAACCCAATAGCAGAA
1 AAACCCAATAGCAGAA
79721084 AAACC
1 AAACC
79721089 AGAATAAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.59, C:0.24, G:0.08, T:0.08
Consensus pattern (16 bp):
AAACCCAATAGCAGAA
Found at i:79721098 original size:63 final size:63
Alignment explanation
Indices: 79720948--79721135 Score: 261
Period size: 62 Copynumber: 3.0 Consensus size: 63
79720938 CTAGAGACCG
* *
79720948 CAATAGTAGAAAAACCAGAATAAGAAAACCCACAAAAACTATAAACACAATAGCAGAAAAACC
1 CAATAGAAGAAAAACCAGAATAAGAAAAACCACAAAAACTATAAACACAATAGCAGAAAAACC
* * * * * *
79721011 TAATAAAAG-AAAACCATAATAAGAAAAACCAGAAAACCTATAAACACAATAGCATAAAAACC
1 CAATAGAAGAAAAACCAGAATAAGAAAAACCACAAAAACTATAAACACAATAGCAGAAAAACC
* * * *
79721073 CAATAGCAGAAAAACCAGAATAAGAAACACCACAAAAACTATGAACAGAATAGCAGAAAAACC
1 CAATAGAAGAAAAACCAGAATAAGAAAAACCACAAAAACTATAAACACAATAGCAGAAAAACC
79721136 AAAAGCATAA
Statistics
Matches: 106, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
62 54 0.51
63 52 0.49
ACGTcount: A:0.61, C:0.20, G:0.10, T:0.10
Consensus pattern (63 bp):
CAATAGAAGAAAAACCAGAATAAGAAAAACCACAAAAACTATAAACACAATAGCAGAAAAACC
Found at i:79721532 original size:26 final size:26
Alignment explanation
Indices: 79721496--79721548 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
79721486 AGAGGAAGTT
79721496 AGGAAAGCTGAGCAAAATAAAGGGTA
1 AGGAAAGCTGAGCAAAATAAAGGGTA
*
79721522 AGGACAGCTGAGCAAAATAAAGGGTA
1 AGGAAAGCTGAGCAAAATAAAGGGTA
79721548 A
1 A
79721549 AGGTAAAGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.49, C:0.09, G:0.30, T:0.11
Consensus pattern (26 bp):
AGGAAAGCTGAGCAAAATAAAGGGTA
Found at i:79730563 original size:34 final size:35
Alignment explanation
Indices: 79730512--79730668 Score: 189
Period size: 34 Copynumber: 4.6 Consensus size: 35
79730502 AATGTTCATC
* * * * *
79730512 TTAATTAAGCTGC-TGGAATAAATGCTCATATTCG
1 TTAATTGAGTTGCTTGGAATAAATGCTTATTTTAG
79730546 TTAATTGAGTT-CTTGGAATAAATGCTTATTTTAG
1 TTAATTGAGTTGCTTGGAATAAATGCTTATTTTAG
*
79730580 TTAATTGAGTTGC-TGGAATAAATGTTTATTTTAG
1 TTAATTGAGTTGCTTGGAATAAATGCTTATTTTAG
*
79730614 TTAATTGAGTTGCTT-GAATAAATGCTTATCTTAG
1 TTAATTGAGTTGCTTGGAATAAATGCTTATTTTAG
* * *
79730648 TTTATTTAATTGC-TGGAATAA
1 TTAATTGAGTTGCTTGGAATAA
79730669 CTTATTGTTA
Statistics
Matches: 108, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
33 2 0.02
34 104 0.96
35 2 0.02
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.44
Consensus pattern (35 bp):
TTAATTGAGTTGCTTGGAATAAATGCTTATTTTAG
Found at i:79730601 original size:68 final size:68
Alignment explanation
Indices: 79730512--79730668 Score: 210
Period size: 68 Copynumber: 2.3 Consensus size: 68
79730502 AATGTTCATC
* * *
79730512 TTAATTAAGCTGCTGGAATAAATGCTCATATTCGTTAATTGAGTT-CTTGGAATAAATGCTTATT
1 TTAATTAAGTTGCTGGAATAAATGCTCATATTAGTTAATTGAGTTGCTT-GAATAAATGCTTATC
79730576 TTAG
65 TTAG
* * * *
79730580 TTAATTGAGTTGCTGGAATAAATGTTTATTTTAGTTAATTGAGTTGCTTGAATAAATGCTTATCT
1 TTAATTAAGTTGCTGGAATAAATGCTCATATTAGTTAATTGAGTTGCTTGAATAAATGCTTATCT
79730645 TAG
66 TAG
*
79730648 TTTATTTAA-TTGCTGGAATAA
1 -TTAATTAAGTTGCTGGAATAA
79730669 CTTATTGTTA
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
68 69 0.88
69 9 0.12
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.44
Consensus pattern (68 bp):
TTAATTAAGTTGCTGGAATAAATGCTCATATTAGTTAATTGAGTTGCTTGAATAAATGCTTATCT
TAG
Found at i:79730727 original size:40 final size:40
Alignment explanation
Indices: 79730674--79730781 Score: 143
Period size: 36 Copynumber: 2.8 Consensus size: 40
79730664 AATAACTTAT
* *
79730674 TGTTAAATATGTTTATTTACAGTTTTTAAATTAAGTTAAG
1 TGTTAAATGTGTTTATTTACAGTTTTTAAATTAAATTAAG
* *
79730714 TGTTAAATGTGTTTATCTACA--ATTT--ATTAAATTAAG
1 TGTTAAATGTGTTTATTTACAGTTTTTAAATTAAATTAAG
79730750 TGTTAAATGTGTTTATTTACAGTTTATTAAAT
1 TGTTAAATGTGTTTATTTACAGTTT-TTAAAT
79730782 AAGCTTATTA
Statistics
Matches: 57, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
36 30 0.53
38 4 0.07
39 2 0.04
40 19 0.33
41 2 0.04
ACGTcount: A:0.34, C:0.04, G:0.12, T:0.50
Consensus pattern (40 bp):
TGTTAAATGTGTTTATTTACAGTTTTTAAATTAAATTAAG
Found at i:79733656 original size:56 final size:56
Alignment explanation
Indices: 79733570--79733689 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
79733560 ACAAGGGATG
79733570 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
79733626 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
79733682 ATGGGCAA
1 ATGGGCAA
79733690 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:79734960 original size:79 final size:81
Alignment explanation
Indices: 79734824--79735006 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
79734814 TCGAATGATG
* *
79734824 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
79734888 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
79734903 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
79734965 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
79734983 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
79735007 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:79735022 original size:40 final size:40
Alignment explanation
Indices: 79734825--79735008 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
79734815 CGAATGATGT
* * * *
79734825 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
79734865 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
79734905 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
79734943 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
79734984 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
79735009 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:79735030 original size:79 final size:79
Alignment explanation
Indices: 79734877--79735041 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
79734867 GGACTAAGAT
* **
79734877 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
79734942 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
79734956 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
79735019 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
79735035 CCGAAGG
1 CCGAAGG
79735042 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:79741561 original size:56 final size:56
Alignment explanation
Indices: 79741496--79741615 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
79741486 ACAAGGGATG
79741496 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
79741552 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
79741608 ATGGGCAA
1 ATGGGCAA
79741616 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:79742883 original size:79 final size:81
Alignment explanation
Indices: 79742747--79742929 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
79742737 TCGAATGATG
* *
79742747 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
79742811 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
79742826 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
79742888 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
79742906 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
79742930 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:79742945 original size:40 final size:40
Alignment explanation
Indices: 79742748--79742931 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
79742738 CGAATGATGT
* * * *
79742748 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
79742788 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
79742828 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
79742866 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
79742907 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
79742932 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:79742953 original size:79 final size:79
Alignment explanation
Indices: 79742800--79742964 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
79742790 GGACTAAGAT
* **
79742800 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
79742865 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
79742879 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
79742942 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
79742958 CCGAAGG
1 CCGAAGG
79742965 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:79745840 original size:34 final size:34
Alignment explanation
Indices: 79745802--79745893 Score: 141
Period size: 34 Copynumber: 2.7 Consensus size: 34
79745792 AATTAAGCTA
79745802 CTGGAATAAAT-TTTCATCTTAGTTAATTGAGTTG
1 CTGGAATAAATGTTT-ATCTTAGTTAATTGAGTTG
* *
79745836 CTGGAATAAATGTTTATTTTAGTTAATTGCGTTG
1 CTGGAATAAATGTTTATCTTAGTTAATTGAGTTG
*
79745870 CTGGAATAAATGCTTATCTTAGTT
1 CTGGAATAAATGTTTATCTTAGTT
79745894 TATGTAATTG
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
34 50 0.94
35 3 0.06
ACGTcount: A:0.28, C:0.09, G:0.18, T:0.45
Consensus pattern (34 bp):
CTGGAATAAATGTTTATCTTAGTTAATTGAGTTG
Done.