Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007859.1 Hibiscus syriacus cultivar Beakdansim tig00110221_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3538007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 17 of 18
Found at i:3325411 original size:133 final size:131
Alignment explanation
Indices: 3324717--3325521 Score: 740
Period size: 130 Copynumber: 6.1 Consensus size: 131
3324707 CACTTAATTG
* * *
3324717 CTCTTCAGGGAAGATCAAATCTGGAAAAAAGGGATATGCTCAACT-ACGTTCCAAGGTAGATCAA
1 CTCTTCAGGGAAGATCAAATCT-GAAAAAAGGGATATGCTCCACTGA-GTTCCAGGGTAGATCAG
* * * * * * *
3324781 ATCTGGAAAGTTTGATTTACTTCATTGCTCTTCATGGAATATTGATTCAGGGTTGATTCGTTTCA
64 ATCTGGAAAGTTTGATTCACTTCACTGCTCTTCAGGGAAGATTGAATCAGGGTTGATTTGCTTCA
3324846 CTA
129 CTA
* * * * * * * *
3324849 TTCTTCAAGGAATATCAAATAT-AAAAAGGGGATATGTTCCGCTGAGTTCCAGAGTAGATCAGAT
1 CTCTTCAGGGAAGATCAAATCTGAAAAAAGGGATATGCTCCACTGAGTTCCAGGGTAGATCAGAT
* * * * * * * *
3324913 CTGGAAAGTTTGATTCACTTCATTACTTTTTAGGAAAGATTGAATCGGGGTTGATTTGTTTTACT
66 CTGGAAAGTTTGATTCACTTCACTGCTCTTCAGGGAAGATTGAATCAGGGTTGATTTGCTTCACT
*
3324978 G
131 A
* * ** * * * *
3324979 CTCTTCAGGGATGATCAAATATGAAAAAAAATGATATGTTCCATTGCGTTCCAAGGTAGATCAGA
1 CTCTTCAGGGAAGATCAAATCTG-AAAAAAGGGATATGCTCCACTGAGTTCCAGGGTAGATCAGA
** * * * * * * * * *
3325044 TCTAAAAAGTTTGACTCACTTCATTTCCCTACAAGGAAGATTCAATCGGGGTTGATTTACTTCAC
65 TCTGGAAAGTTTGATTCACTTCACTGCTCTTCAGGGAAGATTGAATCAGGGTTGATTTGCTTCAC
*
3325109 TG
130 TA
* ** * *
3325111 CTCTTCAGGGAAGATCAAATCT-AAAAAAGGGATCTGCTCCGTTGCGTTCCAGGGTATATCAGAT
1 CTCTTCAGGGAAGATCAAATCTGAAAAAAGGGATATGCTCCACTGAGTTCCAGGGTAGATCAGAT
* * * **
3325175 ATGGAAAGTTTGATTTACTTCACTGCTCATCTA-GGAAGATTGAATTGGGGTTGATTTGCTTCAC
66 CTGGAAAGTTTGATTCACTTCACTGCTCTTC-AGGGAAGATTGAATCAGGGTTGATTTGCTTCAC
*
3325239 TG
130 TA
* **
3325241 CTCTT-AAGGAAGATCAAATCTAGAAAAAAAAAAGATATGCTCCACTGAGTTCCAGGGTAGATCA
1 CTCTTCAGGGAAGATCAAATCT-G--AAAAAAGGGATATGCTCCACTGAGTTCCAGGGTAGATCA
* * * * * *
3325305 GATCTGAAAAGTTTGATTCAATTTACTACTCTTTAGGGAAGATTGAATCAGGGTTTATTTGCTTC
63 GATCTGGAAAGTTTGATTCACTTCACTGCTCTTCAGGGAAGATTGAATCAGGGTTGATTTGCTTC
3325370 ACTA
128 ACTA
* * * * *** * *
3325374 CTCTTCAGAGAAGATCAAATCTGGAAAAAAAGGGATATGTTCTATTTCTTTCTATGGTAGATC-G
1 CTCTTCAGGGAAGATCAAATCT-G-AAAAAAGGGATATGCTCCACTGAGTTCCAGGGTAGATCAG
* * **
3325438 TATCTGGAAAGTTTGATTCGCTTCACTGCTCTTCAGGGAAGATTGAATCAAGGTTGATTCACTTC
64 -ATCTGGAAAGTTTGATTCACTTCACTGCTCTTCAGGGAAGATTGAATCAGGGTTGATTTGCTTC
3325503 ACTA
128 ACTA
* *
3325507 CTCTTTAGGAAAGAT
1 CTCTTCAGGGAAGAT
3325522 TGAATCAGGG
Statistics
Matches: 545, Mismatches: 117, Indels: 21
0.80 0.17 0.03
Matches are distributed among these distances:
129 15 0.03
130 196 0.36
131 2 0.00
132 126 0.23
133 191 0.35
134 15 0.03
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.33
Consensus pattern (131 bp):
CTCTTCAGGGAAGATCAAATCTGAAAAAAGGGATATGCTCCACTGAGTTCCAGGGTAGATCAGAT
CTGGAAAGTTTGATTCACTTCACTGCTCTTCAGGGAAGATTGAATCAGGGTTGATTTGCTTCACT
A
Found at i:3325511 original size:41 final size:41
Alignment explanation
Indices: 3325450--3325562 Score: 156
Period size: 41 Copynumber: 2.8 Consensus size: 41
3325440 TCTGGAAAGT
3325450 TTGATTCGCTTCACTGCTCTTCAGGGAAGATTGAATCAAGG
1 TTGATTCGCTTCACTGCTCTTCAGGGAAGATTGAATCAAGG
* * * * *
3325491 TTGATTCACTTCACTACTCTTTAGGAAAGATTGAATCAGGG
1 TTGATTCGCTTCACTGCTCTTCAGGGAAGATTGAATCAAGG
*
3325532 TTGATTTGCTTCACTGCTCTTCCA-GGAAGAT
1 TTGATTCGCTTCACTGCTCTT-CAGGGAAGAT
3325563 CAAATCTGAA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
41 60 0.98
42 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (41 bp):
TTGATTCGCTTCACTGCTCTTCAGGGAAGATTGAATCAAGG
Found at i:3325541 original size:174 final size:171
Alignment explanation
Indices: 3325317--3325656 Score: 468
Period size: 174 Copynumber: 2.0 Consensus size: 171
3325307 TCTGAAAAGT
* * *
3325317 TTGATTCAATTTACTACTCTTTAGGGAAGATTGAATCAGGGTTTATTTGCTTCACTACTCTT-CA
1 TTGATTCAATTCACTACTCTTTAGGAAAGATTGAATCAGGGTTGATTTGCTTCACTACTCTTCCA
* * * * * * **
3325381 GAGAAGATCAAATCTGGAAAAAAAGGGATATGTTCTATTTCTTTCTATGGTAGATCGTATCTGGA
66 G-GAAGATCAAATCT-G-AAAAAA-GGATATGCTCCACTGCGTTCTAGGGTAGATCAAATCTGGA
*
3325446 AAGTTTGATTCGCTTCACTGCT-CTTCAGGGAAGATTGAATCAAGG
127 AAGTTTGATTCACTTCACT-CTACTTCAGGGAAGATTGAATCAAGG
* *
3325491 TTGATTCACTTCACTACTCTTTAGGAAAGATTGAATCAGGGTTGATTTGCTTCACTGCTCTTCCA
1 TTGATTCAATTCACTACTCTTTAGGAAAGATTGAATCAGGGTTGATTTGCTTCACTACTCTTCCA
* *
3325556 GGAAGATCAAATCTGAAAAAAGGATTTGCTCCACTGCGTTCTAGGGTAGATCAAATTTGGAAAGT
66 GGAAGATCAAATCTGAAAAAAGGATATGCTCCACTGCGTTCTAGGGTAGATCAAATCTGGAAAGT
*
3325621 TTGATTCACTTCACTTTACTTCAGGGAAGATTGAAT
131 TTGATTCACTTCACTCTACTTCAGGGAAGATTGAAT
3325657 TGGGCTTAAT
Statistics
Matches: 147, Mismatches: 17, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
170 1 0.01
171 66 0.45
172 6 0.04
173 1 0.01
174 70 0.48
175 3 0.02
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (171 bp):
TTGATTCAATTCACTACTCTTTAGGAAAGATTGAATCAGGGTTGATTTGCTTCACTACTCTTCCA
GGAAGATCAAATCTGAAAAAAGGATATGCTCCACTGCGTTCTAGGGTAGATCAAATCTGGAAAGT
TTGATTCACTTCACTCTACTTCAGGGAAGATTGAATCAAGG
Found at i:3327463 original size:11 final size:11
Alignment explanation
Indices: 3327449--3327473 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
3327439 CATATTTTTG
3327449 TTTTTTTTTCT
1 TTTTTTTTTCT
3327460 TTTTTTTTTCT
1 TTTTTTTTTCT
3327471 TTT
1 TTT
3327474 CTCTCGTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTTTTTCT
Found at i:3329059 original size:11 final size:11
Alignment explanation
Indices: 3329044--3329082 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
3329034 CAAATGCAAG
3329044 AAAAATAAAAC
1 AAAAATAAAAC
* *
3329055 CAAAATAAAAT
1 AAAAATAAAAC
*
3329066 AAACATAAAAC
1 AAAAATAAAAC
3329077 AAAAAT
1 AAAAAT
3329083 GGGTTAACAC
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.77, C:0.10, G:0.00, T:0.13
Consensus pattern (11 bp):
AAAAATAAAAC
Found at i:3330181 original size:17 final size:17
Alignment explanation
Indices: 3330161--3330200 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
3330151 TATATTTTTC
* *
3330161 ATTTTAATAAAATATTA
1 ATTTTAATAAAACAATA
*
3330178 ATTTTAATTAAACAATA
1 ATTTTAATAAAACAATA
3330195 ATTTTA
1 ATTTTA
3330201 CGGTTTATGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
ATTTTAATAAAACAATA
Found at i:3332164 original size:19 final size:19
Alignment explanation
Indices: 3332136--3332173 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
3332126 TTAACATAGC
3332136 TTTCTAGTCTTTTATTATT
1 TTTCTAGTCTTTTATTATT
*
3332155 TTTCTTGTCTTTTATTATT
1 TTTCTAGTCTTTTATTATT
3332174 CAACAAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.13, C:0.11, G:0.05, T:0.71
Consensus pattern (19 bp):
TTTCTAGTCTTTTATTATT
Found at i:3332352 original size:17 final size:17
Alignment explanation
Indices: 3332330--3332373 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
3332320 AATTAAACAA
*
3332330 ATAAATCAAAATAATAT
1 ATAAATCAAAACAATAT
* *
3332347 ATAAATCACAACAATTT
1 ATAAATCAAAACAATAT
*
3332364 ATAAGTCAAA
1 ATAAATCAAA
3332374 CAAACAAGTC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.59, C:0.11, G:0.02, T:0.27
Consensus pattern (17 bp):
ATAAATCAAAACAATAT
Found at i:3332386 original size:30 final size:30
Alignment explanation
Indices: 3332352--3332431 Score: 133
Period size: 30 Copynumber: 2.7 Consensus size: 30
3332342 AATATATAAA
* *
3332352 TCACAACAATTTATAAGTCAAACAAACAAG
1 TCACAATAGTTTATAAGTCAAACAAACAAG
3332382 TCACAATAGTTTATAAGTCAAACAAACAAG
1 TCACAATAGTTTATAAGTCAAACAAACAAG
*
3332412 TCATAATAGTTTATAAGTCA
1 TCACAATAGTTTATAAGTCA
3332432 CACTCACAAC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.49, C:0.16, G:0.09, T:0.26
Consensus pattern (30 bp):
TCACAATAGTTTATAAGTCAAACAAACAAG
Found at i:3332397 original size:47 final size:46
Alignment explanation
Indices: 3332310--3332406 Score: 113
Period size: 47 Copynumber: 2.1 Consensus size: 46
3332300 ACATCTATAT
* *
3332310 ACAATTTATAAATTAAACAAATAAATCAAAATAATATATAAATCACA
1 ACAATTTATAAATCAAACAAACAAATCAAAATAATATATAAATCA-A
* * * * * *
3332357 ACAATTTATAAGTCAAACAAACAAGTCACAATAGTTTATAAGTCAA
1 ACAATTTATAAATCAAACAAACAAATCAAAATAATATATAAATCAA
3332403 ACAA
1 ACAA
3332407 ACAAGTCATA
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
46 5 0.12
47 37 0.88
ACGTcount: A:0.57, C:0.13, G:0.04, T:0.26
Consensus pattern (46 bp):
ACAATTTATAAATCAAACAAACAAATCAAAATAATATATAAATCAA
Found at i:3332449 original size:23 final size:23
Alignment explanation
Indices: 3332419--3332473 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
3332409 AAGTCATAAT
* *
3332419 AGTTTATAAGTCACACTCACAAC
1 AGTTTATAAGTCAAACTCACAAA
3332442 AGTTTATAAGTCAAACTCACAAA
1 AGTTTATAAGTCAAACTCACAAA
*
3332465 AATTTATAA
1 AGTTTATAA
3332474 CACAAACAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.45, C:0.18, G:0.07, T:0.29
Consensus pattern (23 bp):
AGTTTATAAGTCAAACTCACAAA
Found at i:3332479 original size:23 final size:23
Alignment explanation
Indices: 3332433--3332480 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
3332423 TATAAGTCAC
* * **
3332433 ACTCACAACAGTTTATAAGTCAA
1 ACTCACAAAAATTTATAACACAA
3332456 ACTCACAAAAATTTATAACACAA
1 ACTCACAAAAATTTATAACACAA
3332479 AC
1 AC
3332481 AAGTCACAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.50, C:0.23, G:0.04, T:0.23
Consensus pattern (23 bp):
ACTCACAAAAATTTATAACACAA
Found at i:3341134 original size:25 final size:25
Alignment explanation
Indices: 3341106--3341157 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
3341096 AGCAACAATA
*
3341106 ATGCTTTATATACAAGCAGACAAGC
1 ATGCTTTATATACAACCAGACAAGC
3341131 ATGCTTTATATACAACCAGACAAGC
1 ATGCTTTATATACAACCAGACAAGC
3341156 AT
1 AT
3341158 TCCATGCTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.25
Consensus pattern (25 bp):
ATGCTTTATATACAACCAGACAAGC
Found at i:3349844 original size:13 final size:13
Alignment explanation
Indices: 3349810--3349863 Score: 58
Period size: 13 Copynumber: 4.3 Consensus size: 13
3349800 ATTATTAACA
3349810 TATTTAA-AATA-
1 TATTTAATAATAT
*
3349821 TATTTATTAATAT
1 TATTTAATAATAT
*
3349834 TTTTTAATAATAT
1 TATTTAATAATAT
* *
3349847 AATATAATAATAT
1 TATTTAATAATAT
3349860 TATT
1 TATT
3349864 ATTATAATAA
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
11 6 0.18
12 4 0.12
13 23 0.70
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TATTTAATAATAT
Found at i:3349876 original size:55 final size:52
Alignment explanation
Indices: 3349838--3349949 Score: 124
Period size: 53 Copynumber: 2.1 Consensus size: 52
3349828 TAATATTTTT
3349838 TAATAATATAAT-ATAATA-ATATTATTATTATAATAATATACTCAATTATATTA
1 TAATAATAT-ATGATAATATATATTATTATT-TAATAATATA-TCAATTATATTA
* *
3349891 TAATAATATATGATAATATTATATTCTTATTTTAATAATATAT-AA-TAAATTA
1 TAATAATATATGATAATA-TATATTATTA-TTTAATAATATATCAATTATATTA
3349943 TTAATAA
1 -TAATAA
3349950 AAGTTATATT
Statistics
Matches: 52, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
52 8 0.15
53 23 0.44
54 1 0.02
55 18 0.35
56 2 0.04
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (52 bp):
TAATAATATATGATAATATATATTATTATTTAATAATATATCAATTATATTA
Found at i:3349948 original size:50 final size:52
Alignment explanation
Indices: 3349840--3349948 Score: 120
Period size: 55 Copynumber: 2.1 Consensus size: 52
3349830 ATATTTTTTA
*
3349840 ATAATATAATATAATAATATTATTATTATAATAATATACTCAATTATATTAT
1 ATAATATAATATAATAATATTATTATTATAATAATATACTCAATTAAATTAT
* *
3349892 AATAATAT-ATGATAATATTATATTCTTATTTTAATAATATA-T-AA-TAAATTAT
1 -ATAATATAAT-ATAATA--ATATTATTATTATAATAATATACTCAATTAAATTAT
3349944 -TAATA
1 ATAATA
3349949 AAAGTTATAT
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
50 5 0.10
52 9 0.18
53 15 0.30
54 1 0.02
55 20 0.40
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.47
Consensus pattern (52 bp):
ATAATATAATATAATAATATTATTATTATAATAATATACTCAATTAAATTAT
Found at i:3350076 original size:23 final size:21
Alignment explanation
Indices: 3350049--3350103 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 21
3350039 TAGTCTAATA
3350049 ATATTATAAAAATTCCTTAAAAT
1 ATATTATAAAAATT--TTAAAAT
*
3350072 ATATTTATTAATAATTTTAAAAT
1 ATA-TTA-TAAAAATTTTAAAAT
*
3350095 ATAATATAA
1 ATATTATAA
3350104 TATTTTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
21 3 0.11
22 2 0.07
23 13 0.46
24 3 0.11
25 7 0.25
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (21 bp):
ATATTATAAAAATTTTAAAAT
Found at i:3350104 original size:21 final size:23
Alignment explanation
Indices: 3350065--3350111 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 23
3350055 TAAAAATTCC
*
3350065 TTAAAATATATTTATTAATAATT
1 TTAAAATATATATATTAATAATT
*
3350088 TTAAAATATA-ATA-TAATATTT
1 TTAAAATATATATATTAATAATT
3350109 TTA
1 TTA
3350112 TTTTTATAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 10 0.45
22 2 0.09
23 10 0.45
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TTAAAATATATATATTAATAATT
Found at i:3350304 original size:22 final size:20
Alignment explanation
Indices: 3350252--3350305 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 20
3350242 ATTATTATAA
*
3350252 TATTTTTAAAATAATAATAT
1 TATTTTTATAATAATAATAT
3350272 TAAGTTTTTATAATAAATAATAT
1 T-A-TTTTTATAAT-AATAATAT
3350295 TATTTATTATA
1 TATTT-TTATA
3350306 TTTTATATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
20 1 0.03
21 4 0.14
22 15 0.52
23 9 0.31
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (20 bp):
TATTTTTATAATAATAATAT
Found at i:3351283 original size:21 final size:21
Alignment explanation
Indices: 3351254--3351312 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
3351244 CAAAAATCTT
*
3351254 ATCTCAAACCTTAAATCATAA
1 ATCTTAAACCTTAAATCATAA
* *
3351275 ATCTTAAACCATAAAAT-TTAA
1 ATCTTAAACC-TTAAATCATAA
* *
3351296 ATATTAAACCCTAAATC
1 ATCTTAAACCTTAAATC
3351313 CTAATCCATA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
20 4 0.13
21 21 0.70
22 5 0.17
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.31
Consensus pattern (21 bp):
ATCTTAAACCTTAAATCATAA
Found at i:3358500 original size:2 final size:2
Alignment explanation
Indices: 3358493--3358555 Score: 117
Period size: 2 Copynumber: 31.0 Consensus size: 2
3358483 TTTCTGATAA
3358493 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3358535 AT AT AT AT AT AT AT AT CAT AT
1 AT AT AT AT AT AT AT AT -AT AT
3358556 GAACCTTTCT
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 58 0.97
3 2 0.03
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3359573 original size:23 final size:23
Alignment explanation
Indices: 3359547--3359615 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 23
3359537 CACCACAGCT
*
3359547 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* *
3359570 CGTAGAATTGCACCGTAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
** * *
3359593 TATAGAAATGCATCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
3359616 TATAAGATAT
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:3359619 original size:23 final size:23
Alignment explanation
Indices: 3359555--3359619 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
3359545 CTCGTATAAT
** *
3359555 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCATATAGAAA
* *
3359578 TGCACCGTAGTGCCGTATAGAAA
1 TGCACCGAAGTGCCATATAGAAA
*
3359601 TGCATCGAAGTGCCATATA
1 TGCACCGAAGTGCCATATA
3359620 AGATATCCCT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (23 bp):
TGCACCGAAGTGCCATATAGAAA
Found at i:3363347 original size:19 final size:19
Alignment explanation
Indices: 3363323--3363360 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
3363313 ATGTAACACA
3363323 CTCAACCCGTACCCAACCC
1 CTCAACCCGTACCCAACCC
*
3363342 CTCAACCCGTACCCGACCC
1 CTCAACCCGTACCCAACCC
3363361 GAATACGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.58, G:0.08, T:0.11
Consensus pattern (19 bp):
CTCAACCCGTACCCAACCC
Found at i:3364194 original size:17 final size:17
Alignment explanation
Indices: 3364172--3364212 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
3364162 TCATGTACAC
3364172 ATGTGAGAACTATATAT
1 ATGTGAGAACTATATAT
3364189 ATGTGAGAACTATATAT
1 ATGTGAGAACTATATAT
3364206 ATGTGAG
1 ATGTGAG
3364213 TCTATAGAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.39, C:0.05, G:0.22, T:0.34
Consensus pattern (17 bp):
ATGTGAGAACTATATAT
Found at i:3364276 original size:23 final size:23
Alignment explanation
Indices: 3364250--3364318 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
3364240 CACCACAGCT
*
3364250 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* *
3364273 CGTAGAATTGCACCGTAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
* *
3364296 CGTGGAAATGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
3364319 TATAAGATGT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.28, C:0.26, G:0.28, T:0.19
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:3365942 original size:21 final size:21
Alignment explanation
Indices: 3365918--3365957 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
3365908 TCTAGTTCGT
* *
3365918 TTGAGGGGGTATCGGTTCCCC
1 TTGAAGGGGTATCGATTCCCC
*
3365939 TTGAATGGGTATCGATTCC
1 TTGAAGGGGTATCGATTCC
3365958 TCTAGCTCAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.15, C:0.20, G:0.33, T:0.33
Consensus pattern (21 bp):
TTGAAGGGGTATCGATTCCCC
Found at i:3377945 original size:2 final size:2
Alignment explanation
Indices: 3377938--3377995 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
3377928 ATATAGTTTA
3377938 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3377980 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
3377996 TAAATATTAA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3393603 original size:20 final size:21
Alignment explanation
Indices: 3393580--3393625 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
3393570 TTATCAATTT
*
3393580 AAATTTAATTTTTA-AATAAA
1 AAATTTAAATTTTATAATAAA
*
3393600 AAATTTAAATTTTATATTAAA
1 AAATTTAAATTTTATAATAAA
3393621 AAATT
1 AAATT
3393626 AGATGTTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
AAATTTAAATTTTATAATAAA
Found at i:3393610 original size:21 final size:20
Alignment explanation
Indices: 3393580--3393625 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
3393570 TTATCAATTT
3393580 AAATTTAATTTT-TAAATAAA
1 AAATTTAATTTTAT-AATAAA
*
3393600 AAATTTAAATTTTATATTAAA
1 AAATTT-AATTTTATAATAAA
3393621 AAATT
1 AAATT
3393626 AGATGTTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 6 0.26
21 16 0.70
22 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
AAATTTAATTTTATAATAAA
Found at i:3395058 original size:38 final size:38
Alignment explanation
Indices: 3395006--3395148 Score: 193
Period size: 36 Copynumber: 3.8 Consensus size: 38
3394996 TAAAATTTTT
* *
3395006 TTTTGAAAACATATATAATGTATAGTTTTTGAAAATGCA
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAAT-CA
3395045 -TTTGAAAATATATATAATATATAG-TTTTG-AAATCA
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAATCA
* *
3395080 TTTTGAAAATATATATAATATATAGTTTTTAAAAAACA
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAATCA
*
3395118 TTTTTGAAAAAATTATATAATATATAGTTTT
1 -TTTTGAAAATA-TATATAATATATAGTTTT
3395149 AAAAACATAT
Statistics
Matches: 94, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
35 2 0.02
36 28 0.30
37 9 0.10
38 27 0.29
39 10 0.11
40 18 0.19
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.44
Consensus pattern (38 bp):
TTTTGAAAATATATATAATATATAGTTTTTGAAAATCA
Found at i:3395085 original size:36 final size:36
Alignment explanation
Indices: 3395006--3395281 Score: 181
Period size: 38 Copynumber: 7.8 Consensus size: 36
3394996 TAAAATTTTT
* *
3395006 TTTTGAAAACATATATAATGTATAGTTTTTGAAAATGCA
1 TTTTGAAAATATATATAATATATAG-TTTT-AAAAT-CA
*
3395045 -TTTGAAAATATATATAATATATAGTTTTGAAATCA
1 TTTTGAAAATATATATAATATATAGTTTTAAAATCA
*
3395080 TTTTGAAAATATATATAATATATAGTTTTTAAAAAACA
1 TTTTGAAAATATATATAATATATAG-TTTT-AAAATCA
* *
3395118 TTTTTGAAAAAATTATATAATATATAGTTTTAAAAACA
1 -TTTTGAAAATA-TATATAATATATAGTTTTAAAATCA
** * *
3395156 TATTT---TTTCT-TAT-ATA-ATA-TTTTTAAATCA
1 T-TTTGAAAATATATATAATATATAGTTTTAAAATCA
* *
3395186 TTTTTGAAAA-CTATATAATATATAGTTTTGGAAAT--
1 -TTTTGAAAATATATATAATATATAGTTTT-AAAATCA
* *
3395221 TTTT---AAGA-ATATCATATATAGTTTTAAAAAAT-A
1 TTTTGAAAATATATATAATATATAGTTTT--AAAATCA
*
3395254 TTTTTG-AAATATATATATTATATAGTTT
1 -TTTTGAAAATATATATAATATATAGTTT
3395282 ATATATTATA
Statistics
Matches: 193, Mismatches: 22, Indels: 46
0.74 0.08 0.18
Matches are distributed among these distances:
30 12 0.06
31 22 0.11
32 9 0.05
33 6 0.03
34 12 0.06
35 5 0.03
36 35 0.18
37 27 0.14
38 37 0.19
39 14 0.07
40 14 0.07
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.46
Consensus pattern (36 bp):
TTTTGAAAATATATATAATATATAGTTTTAAAATCA
Found at i:3395161 original size:40 final size:38
Alignment explanation
Indices: 3394987--3395281 Score: 186
Period size: 36 Copynumber: 8.2 Consensus size: 38
3394977 TTTTCGTCCG
** * * *
3394987 TATAGTTTTTAAAATTTTTTTTTGAAAACATATATAATG
1 TATAG-TTTTAAAAAATATTTTTGAAAATATATATAATA
** ***
3395026 TATAGTTTTTGAAAATGCATTTGAAAATATATATAATA
1 TATAGTTTTAAAAAATATTTTTGAAAATATATATAATA
*
3395064 TATAGTTTT--GAAATCA-TTTTGAAAATATATATAATA
1 TATAGTTTTAAAAAAT-ATTTTTGAAAATATATATAATA
* *
3395100 TATAGTTTTTAAAAAACATTTTTGAAAAAATTATATAATA
1 TATAG-TTTTAAAAAATATTTTTGAAAATA-TATATAATA
*
3395140 TATAGTTTTAAAAACATATTTTT-----TCT-TAT-ATA
1 TATAGTTTTAAAAA-ATATTTTTGAAAATATATATAATA
* *
3395172 -ATA-TTTT--TAAATCATTTTTGAAAA-CTATATAATA
1 TATAGTTTTAAAAAAT-ATTTTTGAAAATATATATAATA
** * *
3395206 TATAGTTTT--GGAA-ATTTTT---AAGA-ATATCATA
1 TATAGTTTTAAAAAATATTTTTGAAAATATATATAATA
*
3395237 TATAGTTTTAAAAAATATTTTTG-AAATATATATATTA
1 TATAGTTTTAAAAAATATTTTTGAAAATATATATAATA
3395274 TATAGTTT
1 TATAGTTT
3395282 ATATATTATA
Statistics
Matches: 204, Mismatches: 28, Indels: 50
0.72 0.10 0.18
Matches are distributed among these distances:
27 2 0.01
28 8 0.04
30 4 0.02
31 21 0.10
32 5 0.02
33 8 0.04
34 16 0.08
35 3 0.01
36 37 0.18
37 18 0.09
38 34 0.17
39 27 0.13
40 21 0.10
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (38 bp):
TATAGTTTTAAAAAATATTTTTGAAAATATATATAATA
Found at i:3395345 original size:5 final size:5
Alignment explanation
Indices: 3395337--3395364 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
3395327 CATTTTATTC
3395337 ATTTA ATTTA ATTTA ATTTA ATTTA ATT
1 ATTTA ATTTA ATTTA ATTTA ATTTA ATT
3395365 GTTTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
ATTTA
Found at i:3396711 original size:11 final size:11
Alignment explanation
Indices: 3396697--3396725 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
3396687 TTTTTTCATG
3396697 TTTTTATTTTA
1 TTTTTATTTTA
3396708 TTTTTATTTTA
1 TTTTTATTTTA
3396719 TTTTTAT
1 TTTTTAT
3396726 CATATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:3396731 original size:11 final size:11
Alignment explanation
Indices: 3396677--3396734 Score: 55
Period size: 11 Copynumber: 5.3 Consensus size: 11
3396667 TAAATTTTTA
3396677 TTTATCATTATT
1 TTTATCA-TATT
*
3396689 TTT-TCATGTT
1 TTTATCATATT
**
3396699 TTTATTTTATT
1 TTTATCATATT
**
3396710 TTTATTTTATT
1 TTTATCATATT
3396721 TTTATCATATT
1 TTTATCATATT
3396732 TTT
1 TTT
3396735 TACTAGCTTC
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
10 6 0.15
11 30 0.77
12 3 0.08
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (11 bp):
TTTATCATATT
Found at i:3398598 original size:19 final size:19
Alignment explanation
Indices: 3398574--3398619 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
3398564 ATTTAGACAT
3398574 TTTGCATTTCGTTATTTTC
1 TTTGCATTTCGTTATTTTC
*
3398593 TTTGCATTTTGTTATTTTC
1 TTTGCATTTCGTTATTTTC
3398612 TTTGCATT
1 TTTGCATT
3398620 CACATTAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.11, C:0.13, G:0.11, T:0.65
Consensus pattern (19 bp):
TTTGCATTTCGTTATTTTC
Found at i:3401927 original size:164 final size:165
Alignment explanation
Indices: 3401685--3402646 Score: 1104
Period size: 165 Copynumber: 5.9 Consensus size: 165
3401675 ACCTGCCACC
* * *
3401685 AAGACCTTCGAGTTCGACTACGCTTAGCTCTAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
* * *
3401750 AAGGGCTATCTGCCAAAGACCCTTAAGTTCGATTATACTCAGCTTCAAGGGCATAACATTTACAG
66 AAGGGCTATCTGCCAAAGACCCTTGAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACAG
*
3401815 CATAACTCAAGGCTAGAAGGGTTATCTGTTAGC-A
131 CATAACTCAAGGCTAGAAGGGTTATCTGTTACCAA
* * *
3401849 AAGACCTTTGGGTTCGAAC-ACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGA
1 AAGACCTTCGAGTTCG-ACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGA
* *
3401913 GAAGGGCTATCTGCCAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACA
65 GAAGGGCTATCTGCCAAAGACCCTTGAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACA
* *
3401978 GCACAACTCAAGGCTAGAAGGGTTATCTGTTAGCAA
130 GCATAACTCAAGGCTAGAAGGGTTATCTGTTACCAA
* *
3402014 AAGACCTTTGAGTTCGACTACGCTCAGCT-CAACGGCACATCATTTGCAGCATAGCTTACGTCGA
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCATAGCTTAAGTCGA
* * * *
3402078 GAAGGGCTATCTGCCAAAGA-CCTTCGAGTTCGACTACGCTCAGCTCCGAGGGCATATCATTTAC
65 GAAGGGCTATCTGCCAAAGACCCTT-GAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTAC
* * * ** **
3402142 AGCACAACTTAAGTCTAGAAGGGTTGGCTGCCAACC-A
129 AGCATAACTCAAGGCTAGAAGGGTTATCTG-TTACCAA
* * *
3402179 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGACGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
* * *
3402244 AAGGGCTATCTGCCAAAGA-CC-------C-----C-C-GAG-TTCGAGGGCATATCATTTGCAG
66 AAGGGCTATCTGCCAAAGACCCTTGAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACAG
* * * * ** *
3402293 CATAGCTTAAGTCTAGAAGGGTTGTCTGCCAACAA
131 CATAACTCAAGGCTAGAAGGGTTATCTGTTACCAA
* * * * *
3402328 AAGACCTTCGAGTTCGACTATGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTAAGTCTAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
* * * * * * *
3402393 AAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGC-TCAACGGCACATCATTT
66 AAGGGCTATCTG-C--C-AAAGACCCTTGAGTTCGATTACACTCAGCTTCAAGGGCATATCATTT
*
3402457 ACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAA
127 ACAGCATAACTCAAGGCTAGAAGGGTTATCTGTTACCAA
* * * *
3402496 AAGACCTTCGAGTTTGACTACGCTCAGCTCTAAAGCACATCATTTTCAGCATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
* * * * * * *
3402561 AAAGGCTATCTGCCAAAGACCCTCGGGTTCGATTACACTCAACTTCGAGGTCATATCATTTACAA
66 AAGGGCTATCTGCCAAAGACCCTTGAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACAG
* *
3402626 CATAGCTCAAGGCAAGAAGGG
131 CATAACTCAAGGCTAGAAGGG
3402647 CTATTTGTCA
Statistics
Matches: 688, Mismatches: 81, Indels: 57
0.83 0.10 0.07
Matches are distributed among these distances:
148 3 0.00
149 113 0.16
150 3 0.00
151 1 0.00
152 2 0.00
153 5 0.01
154 1 0.00
157 1 0.00
161 1 0.00
164 186 0.27
165 252 0.37
166 6 0.01
167 2 0.00
168 112 0.16
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.24
Consensus pattern (165 bp):
AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
AAGGGCTATCTGCCAAAGACCCTTGAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACAG
CATAACTCAAGGCTAGAAGGGTTATCTGTTACCAA
Found at i:3402395 original size:149 final size:149
Alignment explanation
Indices: 3402124--3402408 Score: 435
Period size: 149 Copynumber: 1.9 Consensus size: 149
3402114 CGCTCAGCTC
* *
3402124 CGAGGGCATATCATTTACAGCACAACTTAAGTCTAGAAGGGTTGGCTGCCAACCAAAGACCTTTG
1 CGAGGGCATATCATTTACAGCACAACTTAAGTCTAGAAGGGTTGGCTGCCAACAAAAGACCTTCG
* * *
3402189 AGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGACGAGAAGGGCTATC
66 AGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCACAACTTAAGACGAGAAGGGCTATC
3402254 TGCCAAAGACCCCCGAGTT
131 TGCCAAAGACCCCCGAGTT
* * * *
3402273 CGAGGGCATATCATTTGCAGCATAGCTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTCG
1 CGAGGGCATATCATTTACAGCACAACTTAAGTCTAGAAGGGTTGGCTGCCAACAAAAGACCTTCG
* * * * * *
3402338 AGTTCGACTATGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTC
66 AGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCACAACTTAAGACGAGAAGGGCTATC
3402403 TGCCAA
131 TGCCAA
3402409 CAAAAGACCT
Statistics
Matches: 121, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
149 121 1.00
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (149 bp):
CGAGGGCATATCATTTACAGCACAACTTAAGTCTAGAAGGGTTGGCTGCCAACAAAAGACCTTCG
AGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCACAACTTAAGACGAGAAGGGCTATC
TGCCAAAGACCCCCGAGTT
Found at i:3402418 original size:84 final size:84
Alignment explanation
Indices: 3402277--3402576 Score: 386
Period size: 84 Copynumber: 3.6 Consensus size: 84
3402267 CGAGTTCGAG
* * *
3402277 GGCATATCATTTGCAGCATAGCTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTCGAGTT
1 GGCACATCATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTT
*
3402342 CGACTATGCTCAGCTCCAA
66 CGACTACGCTCAGCTCCAA
* * * *
3402361 GGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTT
1 GGCACATCATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTT
3402426 CGACTACGCTCAGCT-CAA
66 CGACTACGCTCAGCTCCAA
* * * ** *
3402444 CGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGT
1 -GGCACATCATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGT
* *
3402509 TTGACTACGCTCAGCTCTAA
65 TCGACTACGCTCAGCTCCAA
* * * * * *
3402529 AGCACATCATTTTCAGCATAGCTTAAGTCGAGAAAGGCTATCTGCCAA
1 GGCACATCATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGCCAA
3402577 AGACCCTCGG
Statistics
Matches: 187, Mismatches: 27, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
83 3 0.02
84 182 0.97
85 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.25
Consensus pattern (84 bp):
GGCACATCATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTT
CGACTACGCTCAGCTCCAA
Found at i:3402456 original size:233 final size:230
Alignment explanation
Indices: 3402047--3402488 Score: 672
Period size: 233 Copynumber: 1.9 Consensus size: 230
3402037 TCAGCTCAAC
*
3402047 GGCACATCATTTGCAGCATAGCTTACGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGAC
1 GGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGAC
*
3402112 TACGCTCAGCTCCGAGGGCATATCATTTACAGCACAACTTAAGTCTAGAAGGGTTGGCTGCCAAC
66 TACGCTCAGCTCCGAAGGCATATCATTTACAGCACAACTTAAGTCTAGAAGGGTTGGCTGCCAAC
* * * * *
3402177 CAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGACG
131 AAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGACG
3402242 AGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGAG
196 AGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGAG
* * * *
3402277 GGCATATCATTTGCAGCATAGCTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTCGAGTT
1 GGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-C--C-AAAGACCTTCGAGTT
* * *
3402342 CGACTATGCTCAGCTCC-AAGGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGC
62 CGACTACGCTCAGCTCCGAAGGCATATCATTTACAGCACAACTTAAGTCTAGAAGGGTTGGCTGC
3402406 CAACAAAAGACCTTTGAGTTCGACTACGCTCAGCT-CAACGGCACATCATTTACAGCATAACTCA
127 CAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTACAGCATAACTCA
* * *
3402470 AGGCTAGAAGGGTTATCTG
191 AGACGAGAAGGGCTATCTG
3402489 TGACCAAAAG
Statistics
Matches: 190, Mismatches: 17, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
230 39 0.21
231 1 0.01
232 3 0.02
233 116 0.61
234 31 0.16
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (230 bp):
GGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGAC
TACGCTCAGCTCCGAAGGCATATCATTTACAGCACAACTTAAGTCTAGAAGGGTTGGCTGCCAAC
AAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGACG
AGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGAG
Found at i:3403222 original size:38 final size:38
Alignment explanation
Indices: 3403170--3403311 Score: 193
Period size: 36 Copynumber: 3.8 Consensus size: 38
3403160 TAAAATTTTT
* *
3403170 TTTTGAAAACATATATAATGTATAGTTTTTGAAAATGCA
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAAT-CA
3403209 -TTTGAAAATATATATAATATATAG-TTTTG-AAATCA
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAATCA
* *
3403244 TTTTGAAAATATATATAATATATAGTTTTTAAAAAACA
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAATCA
3403282 TTTTTGAAAA-ATTATATAATATATAGTTTT
1 -TTTTGAAAATA-TATATAATATATAGTTTT
3403312 AAAAACATAT
Statistics
Matches: 94, Mismatches: 4, Indels: 10
0.87 0.04 0.09
Matches are distributed among these distances:
35 2 0.02
36 28 0.30
37 9 0.10
38 28 0.30
39 27 0.29
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.44
Consensus pattern (38 bp):
TTTTGAAAATATATATAATATATAGTTTTTGAAAATCA
Found at i:3403249 original size:36 final size:36
Alignment explanation
Indices: 3403170--3403444 Score: 181
Period size: 36 Copynumber: 7.8 Consensus size: 36
3403160 TAAAATTTTT
* *
3403170 TTTTGAAAACATATATAATGTATAGTTTTTGAAAATGCA
1 TTTTGAAAATATATATAATATATAG-TTTT-AAAAT-CA
*
3403209 -TTTGAAAATATATATAATATATAGTTTTGAAATCA
1 TTTTGAAAATATATATAATATATAGTTTTAAAATCA
*
3403244 TTTTGAAAATATATATAATATATAGTTTTTAAAAAACA
1 TTTTGAAAATATATATAATATATAG-TTTT-AAAATCA
*
3403282 TTTTTGAAAA-ATTATATAATATATAGTTTTAAAAACA
1 -TTTTGAAAATA-TATATAATATATAGTTTTAAAATCA
** * *
3403319 TATTT---TTTCT-TAT-ATA-ATA-TTTTTAAATCA
1 T-TTTGAAAATATATATAATATATAGTTTTAAAATCA
* *
3403349 TTTTTGAAAA-CTATATAATATATAGTTTTGGAAAT--
1 -TTTTGAAAATATATATAATATATAGTTTT-AAAATCA
* *
3403384 TTTT---AAGA-ATATCATATATAGTTTTAAAAAAT-A
1 TTTTGAAAATATATATAATATATAGTTTT--AAAATCA
*
3403417 TTTTTG-AAATATATATATTATATAGTTT
1 -TTTTGAAAATATATATAATATATAGTTT
3403445 ATATTATATT
Statistics
Matches: 193, Mismatches: 20, Indels: 48
0.74 0.08 0.18
Matches are distributed among these distances:
30 12 0.06
31 22 0.11
32 9 0.05
33 6 0.03
34 12 0.06
35 5 0.03
36 36 0.19
37 36 0.19
38 32 0.17
39 23 0.12
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.46
Consensus pattern (36 bp):
TTTTGAAAATATATATAATATATAGTTTTAAAATCA
Found at i:3403312 original size:38 final size:36
Alignment explanation
Indices: 3403169--3403444 Score: 188
Period size: 38 Copynumber: 7.8 Consensus size: 36
3403159 TTAAAATTTT
* * *
3403169 TTTTTGAAAACATATATAATGTATAGTTTTTGAAAATGCA
1 TTTTTGAAAA-TTATATAATATATAG-TTTT-AAAA-ACA
* *
3403209 --TTTGAAAATATATATAATATATAGTTTTGAAATCA
1 TTTTTGAAAAT-TATATAATATATAGTTTTAAAAACA
3403244 -TTTTGAAAATATATATAATATATAGTTTTTAAAAAACA
1 TTTTTGAAAAT-TATATAATATATAG-TTTT-AAAAACA
3403282 TTTTTGAAAAATTATATAATATATAGTTTTAAAAACA
1 TTTTTG-AAAATTATATAATATATAGTTTTAAAAACA
*** *
3403319 TATTTT--TTCTTATAT-A-ATAT--TTTT-AAATCA
1 T-TTTTGAAAATTATATAATATATAGTTTTAAAAACA
* **
3403349 TTTTTGAAAACTATATAATATATAGTTTT-GGAA-A
1 TTTTTGAAAATTATATAATATATAGTTTTAAAAACA
* * *
3403383 TTTTT-AAGA--ATATCATATATAGTTTTAAAAAATA
1 TTTTTGAAAATTATATAATATATAGTTTT-AAAAACA
*
3403417 TTTTTG-AAATATATATATTATATAGTTT
1 TTTTTGAAAAT-TATATAATATATAGTTT
3403445 ATATTATATT
Statistics
Matches: 192, Mismatches: 24, Indels: 43
0.74 0.09 0.17
Matches are distributed among these distances:
29 4 0.02
30 6 0.03
31 25 0.13
32 1 0.01
33 13 0.07
34 15 0.08
35 13 0.07
36 27 0.14
37 30 0.16
38 34 0.18
39 19 0.10
40 5 0.03
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.46
Consensus pattern (36 bp):
TTTTTGAAAATTATATAATATATAGTTTTAAAAACA
Found at i:3404867 original size:11 final size:11
Alignment explanation
Indices: 3404853--3404881 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
3404843 TTTTTTCATG
3404853 TTTTTATTTTA
1 TTTTTATTTTA
3404864 TTTTTATTTTA
1 TTTTTATTTTA
3404875 TTTTTAT
1 TTTTTAT
3404882 CATATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:3404887 original size:11 final size:11
Alignment explanation
Indices: 3404833--3404890 Score: 55
Period size: 11 Copynumber: 5.3 Consensus size: 11
3404823 TAAATTTTTA
3404833 TTTATCATTATT
1 TTTATCA-TATT
*
3404845 TTT-TCATGTT
1 TTTATCATATT
**
3404855 TTTATTTTATT
1 TTTATCATATT
**
3404866 TTTATTTTATT
1 TTTATCATATT
3404877 TTTATCATATT
1 TTTATCATATT
3404888 TTT
1 TTT
3404891 TACTAGCTTC
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
10 6 0.15
11 30 0.77
12 3 0.08
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (11 bp):
TTTATCATATT
Found at i:3406486 original size:39 final size:38
Alignment explanation
Indices: 3406427--3406545 Score: 143
Period size: 38 Copynumber: 3.1 Consensus size: 38
3406417 TTTTTTTTAA
* * *
3406427 ATATTTGTAGAAAACGTATAATATATAATTTTGAAAAC
1 ATATTTTTAAAAAACATATAATATATAATTTTGAAAAC
* * *
3406465 ATATTTTTAAAAACATATATAATATATAGTTTTTAAAA-
1 ATATTTTTAAAAA-ACATATAATATATAATTTTGAAAAC
3406503 ATCGA-TTTTAAAAAACATATAATATATAATTTTGAAAAC
1 AT--ATTTTTAAAAAACATATAATATATAATTTTGAAAAC
3406542 ATAT
1 ATAT
3406546 ATAATATATG
Statistics
Matches: 67, Mismatches: 9, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
37 1 0.01
38 34 0.51
39 31 0.46
40 1 0.01
ACGTcount: A:0.50, C:0.05, G:0.06, T:0.39
Consensus pattern (38 bp):
ATATTTTTAAAAAACATATAATATATAATTTTGAAAAC
Found at i:3406585 original size:38 final size:39
Alignment explanation
Indices: 3406532--3406625 Score: 108
Period size: 40 Copynumber: 2.5 Consensus size: 39
3406522 TAATATATAA
*
3406532 TTTTGAAAAC--ATATATAATATATGGTTTTTAAATTTTT
1 TTTTGAAAACATATATATAATATA-GGTTTTTAAATATTT
* *
3406570 TTTTGAAAACGTATATATAATATAGTTTTTTAAATA--T
1 TTTTGAAAACATATATATAATATAGGTTTTTAAATATTT
3406607 TTTTG-AAACATATAGTATA
1 TTTTGAAAACATATA-TATA
3406626 TAGTTTCTAA
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
36 8 0.16
37 10 0.20
38 10 0.20
39 10 0.20
40 12 0.24
ACGTcount: A:0.39, C:0.03, G:0.09, T:0.49
Consensus pattern (39 bp):
TTTTGAAAACATATATATAATATAGGTTTTTAAATATTT
Found at i:3406610 original size:40 final size:38
Alignment explanation
Indices: 3406532--3406610 Score: 115
Period size: 39 Copynumber: 2.1 Consensus size: 38
3406522 TAATATATAA
3406532 TTTTGAAAACATATATAATATATGGTTTTTAAATTTTT
1 TTTTGAAAACATATATAATATATGGTTTTTAAATTTTT
* *
3406570 TTTTGAAAACGTATATATAATATA-GTTTTTTAAATATTT
1 TTTTGAAAAC--ATATATAATATATGGTTTTTAAATTTTT
3406609 TT
1 TT
3406611 GAAACATATA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
38 10 0.27
39 15 0.41
40 12 0.32
ACGTcount: A:0.37, C:0.03, G:0.08, T:0.53
Consensus pattern (38 bp):
TTTTGAAAACATATATAATATATGGTTTTTAAATTTTT
Found at i:3406627 original size:34 final size:35
Alignment explanation
Indices: 3406532--3406643 Score: 120
Period size: 34 Copynumber: 3.1 Consensus size: 35
3406522 TAATATATAA
* *
3406532 TTTTGAAAACATATATAATATATGGTTTTTAAATTTTT
1 TTTTGAAAACATATATAATATA-GTTTTTTAAA--TAT
3406570 TTTTGAAAACGTATATATAATATAGTTTTTTAAATAT
1 TTTTGAAAAC--ATATATAATATAGTTTTTTAAATAT
* *
3406607 TTTTG-AAACATATAGT-ATATAGTTTCTAAAATAT
1 TTTTGAAAACATATA-TAATATAGTTTTTTAAATAT
3406641 TTT
1 TTT
3406644 CAAAGTTTTT
Statistics
Matches: 67, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
34 24 0.36
35 1 0.01
36 4 0.06
37 7 0.10
38 10 0.15
39 9 0.13
40 12 0.18
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (35 bp):
TTTTGAAAACATATATAATATAGTTTTTTAAATAT
Found at i:3406711 original size:17 final size:16
Alignment explanation
Indices: 3406689--3406737 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
3406679 TTTATGTACA
3406689 TATATATATTATTTTT
1 TATATATATTATTTTT
*
3406705 TAT-TATATTATATTGT
1 TATATATATTAT-TTTT
3406721 TAT-TAATATTATTTTT
1 TATAT-ATATTATTTTT
3406737 T
1 T
3406738 TCATTTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 8 0.28
16 14 0.48
17 7 0.24
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (16 bp):
TATATATATTATTTTT
Found at i:3409137 original size:20 final size:19
Alignment explanation
Indices: 3409114--3409164 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
3409104 ACCCATTTTC
3409114 CAAATTCGCAACGCGAAAGT
1 CAAATTCGCAAC-CGAAAGT
* **
3409134 CAAATTCGCAACTGAATTT
1 CAAATTCGCAACCGAAAGT
3409153 CAAATTCGCAAC
1 CAAATTCGCAAC
3409165 AGGTTTTAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.39, C:0.25, G:0.14, T:0.22
Consensus pattern (19 bp):
CAAATTCGCAACCGAAAGT
Found at i:3409142 original size:40 final size:39
Alignment explanation
Indices: 3409074--3409164 Score: 103
Period size: 40 Copynumber: 2.3 Consensus size: 39
3409064 AAATGACCAA
* * * *
3409074 CAAATTCGCAACGCAAATTTTAATTTCGCAACCCATTTT
1 CAAATTCGCAACGCAAATGTCAAATTCGCAACCCAATTT
**
3409113 CCAAATTCGCAACGCGAAA-GTCAAATTCGCAACTGAATTT
1 -CAAATTCGCAACGC-AAATGTCAAATTCGCAACCCAATTT
3409153 CAAATTCGCAAC
1 CAAATTCGCAAC
3409165 AGGTTTTAGT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
39 12 0.27
40 29 0.66
41 3 0.07
ACGTcount: A:0.36, C:0.26, G:0.11, T:0.26
Consensus pattern (39 bp):
CAAATTCGCAACGCAAATGTCAAATTCGCAACCCAATTT
Found at i:3409157 original size:19 final size:19
Alignment explanation
Indices: 3409074--3409164 Score: 83
Period size: 20 Copynumber: 4.6 Consensus size: 19
3409064 AAATGACCAA
*
3409074 CAAATTCGCAACGCAAATTT
1 CAAATTCGCAAC-CGAATTT
* * * *
3409094 TAATTTCGCAACCCATTTT
1 CAAATTCGCAACCGAATTT
**
3409113 CCAAATTCGCAACGCGAAAGT
1 -CAAATTCGCAAC-CGAATTT
*
3409134 CAAATTCGCAACTGAATTT
1 CAAATTCGCAACCGAATTT
3409153 CAAATTCGCAAC
1 CAAATTCGCAAC
3409165 AGGTTTTAGT
Statistics
Matches: 56, Mismatches: 13, Indels: 5
0.76 0.18 0.07
Matches are distributed among these distances:
19 21 0.38
20 32 0.57
21 3 0.05
ACGTcount: A:0.36, C:0.26, G:0.11, T:0.26
Consensus pattern (19 bp):
CAAATTCGCAACCGAATTT
Found at i:3409930 original size:12 final size:12
Alignment explanation
Indices: 3409909--3409942 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
3409899 ACCACATTTC
*
3409909 CAATACCAAACA
1 CAATATCAAACA
3409921 CAATATCAAACA
1 CAATATCAAACA
*
3409933 CAATCTCAAA
1 CAATATCAAA
3409943 ACCCACAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:3410100 original size:24 final size:24
Alignment explanation
Indices: 3410068--3410121 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
3410058 GTATTCGAAT
3410068 TTTGATCTTGATCAATACCCGGAC
1 TTTGATCTTGATCAATACCCGGAC
* * *
3410092 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGATCAATACCCGGAC
3410116 TTTGAT
1 TTTGAT
3410122 GATGTGATGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGATCAATACCCGGAC
Found at i:3410701 original size:22 final size:22
Alignment explanation
Indices: 3410671--3410736 Score: 105
Period size: 22 Copynumber: 3.0 Consensus size: 22
3410661 GATGGAGATA
* *
3410671 GACGAATTTCATCGGAAATGGG
1 GACGGATTTCGTCGGAAATGGG
3410693 GACGGATTTCGTCGGAAATGGG
1 GACGGATTTCGTCGGAAATGGG
*
3410715 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGTCGGAAATGGG
3410737 AACAGATGTC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.24, C:0.14, G:0.39, T:0.23
Consensus pattern (22 bp):
GACGGATTTCGTCGGAAATGGG
Found at i:3410896 original size:20 final size:20
Alignment explanation
Indices: 3410871--3410970 Score: 114
Period size: 20 Copynumber: 5.0 Consensus size: 20
3410861 GCGTAAAAAC
3410871 ATTTGACTTTCGCGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
*
3410891 ATTTGACTATCGCGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
*
3410911 ATTTGAC-TTCTGTGTTGCG-
1 ATTTGACTTTC-GCGTTGCGA
* **
3410930 ATTTATAAATTCGCGTTGCGA
1 ATTT-GACTTTCGCGTTGCGA
*
3410951 ATTTGACTATCGCGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
3410971 TTGAATTTGG
Statistics
Matches: 66, Mismatches: 10, Indels: 8
0.79 0.12 0.10
Matches are distributed among these distances:
19 6 0.09
20 53 0.80
21 7 0.11
ACGTcount: A:0.19, C:0.18, G:0.24, T:0.39
Consensus pattern (20 bp):
ATTTGACTTTCGCGTTGCGA
Found at i:3415395 original size:21 final size:21
Alignment explanation
Indices: 3415359--3415402 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
3415349 TTGCAGTGGC
*
3415359 ATATGAAATGACTGTGGTGCT
1 ATATGAAATGACTGTGATGCT
**
3415380 ATATGAAATGGTTGTGATGCT
1 ATATGAAATGACTGTGATGCT
3415401 AT
1 AT
3415403 CTAAAACGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (21 bp):
ATATGAAATGACTGTGATGCT
Found at i:3417259 original size:29 final size:29
Alignment explanation
Indices: 3417219--3417284 Score: 132
Period size: 29 Copynumber: 2.3 Consensus size: 29
3417209 AGAGAGAAGC
3417219 GAGAGAGTTTTATAACTCTCTCAGTTAGA
1 GAGAGAGTTTTATAACTCTCTCAGTTAGA
3417248 GAGAGAGTTTTATAACTCTCTCAGTTAGA
1 GAGAGAGTTTTATAACTCTCTCAGTTAGA
3417277 GAGAGAGT
1 GAGAGAGT
3417285 GTGAAAGTGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (29 bp):
GAGAGAGTTTTATAACTCTCTCAGTTAGA
Found at i:3417879 original size:18 final size:18
Alignment explanation
Indices: 3417858--3417900 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
3417848 TTATTATTAT
*
3417858 TATTTA-ATTATAAATATA
1 TATTTATATAATAAATA-A
3417876 TATTTATATAATAAATAA
1 TATTTATATAATAAATAA
3417894 TATTTAT
1 TATTTAT
3417901 TTTATTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 14 0.61
19 9 0.39
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TATTTATATAATAAATAA
Found at i:3417882 original size:22 final size:20
Alignment explanation
Indices: 3417857--3417902 Score: 51
Period size: 19 Copynumber: 2.3 Consensus size: 20
3417847 ATTATTATTA
*
3417857 TTATTTAATTATAAATATATAT
1 TTATTT-ATAATAAATA-ATAT
3417879 TTA--TATAATAAATAATAT
1 TTATTTATAATAAATAATAT
3417897 TTATTT
1 TTATTT
3417903 TATTTATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 6
0.75 0.04 0.21
Matches are distributed among these distances:
18 7 0.33
19 9 0.43
20 2 0.10
22 3 0.14
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTATTTATAATAAATAATAT
Found at i:3418149 original size:23 final size:23
Alignment explanation
Indices: 3418123--3418166 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
3418113 CATTTTCTGA
*
3418123 TATTTCTAAATAAATAAATATTT
1 TATTTATAAATAAATAAATATTT
* *
3418146 TATTTATAAATATATATATAT
1 TATTTATAAATAAATAAATAT
3418167 ATATATTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
TATTTATAAATAAATAAATATTT
Found at i:3421965 original size:16 final size:16
Alignment explanation
Indices: 3421946--3421978 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
3421936 GATCAATACC
3421946 TTTTGCATACATGCAT
1 TTTTGCATACATGCAT
*
3421962 TTTTGCATACATTCAT
1 TTTTGCATACATGCAT
3421978 T
1 T
3421979 ATTCATTGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.18, G:0.09, T:0.48
Consensus pattern (16 bp):
TTTTGCATACATGCAT
Found at i:3429160 original size:16 final size:15
Alignment explanation
Indices: 3429139--3429221 Score: 79
Period size: 14 Copynumber: 5.8 Consensus size: 15
3429129 TATTATGCTT
3429139 GAAGAAAAAATGAAAA
1 GAAGAAAAAA-GAAAA
*
3429155 GAAGAAAAGA-AAAA
1 GAAGAAAAAAGAAAA
*
3429169 GAAAAAAAAAGAAGAA
1 GAAGAAAAAAGAA-AA
*
3429185 GAAG-AAGAAGAAAA
1 GAAGAAAAAAGAAAA
3429199 -AA-AAAAAA-AAAA
1 GAAGAAAAAAGAAAA
3429211 -AAGAAAAAAGA
1 GAAGAAAAAAGA
3429222 GGGGGTCAAG
Statistics
Matches: 56, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
12 6 0.11
13 12 0.21
14 15 0.27
15 9 0.16
16 14 0.25
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.01
Consensus pattern (15 bp):
GAAGAAAAAAGAAAA
Found at i:3429168 original size:6 final size:6
Alignment explanation
Indices: 3429159--3429218 Score: 58
Period size: 6 Copynumber: 10.7 Consensus size: 6
3429149 TGAAAAGAAG
* *
3429159 AAAAGA AAAAG- AAAA-A AAAAGA AGAAGA AGAAGA AGAAA-A AAAA-A
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA A-AAAGA AAAAGA
3429204 AAAA-A AAAAGA AAAA
1 AAAAGA AAAAGA AAAA
3429219 AGAGGGGGTC
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
5 21 0.44
6 25 0.52
7 2 0.04
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:3429616 original size:19 final size:17
Alignment explanation
Indices: 3429574--3429622 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 17
3429564 TATTTTCTCT
3429574 AAATTCAATTTA-TTTG
1 AAATTCAATTTATTTTG
*
3429590 AGATTCAATTTATTTTCG
1 AAATTCAATTTATTTT-G
*
3429608 AAAATTCAACTTATT
1 -AAATTCAATTTATT
3429623 CTTTTATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 11 0.41
17 3 0.11
18 1 0.04
19 12 0.44
ACGTcount: A:0.37, C:0.10, G:0.06, T:0.47
Consensus pattern (17 bp):
AAATTCAATTTATTTTG
Found at i:3430160 original size:114 final size:114
Alignment explanation
Indices: 3429952--3430404 Score: 780
Period size: 114 Copynumber: 4.0 Consensus size: 114
3429942 TTCCACGTTA
* * *
3429952 TCATGGTAGAAATAAGGAGGCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATGG
1 TCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
*
3430017 TTTGGTATGAACCCCAAAACCAATCATTAGATTTGAAAGAGGAATTTGC
66 TTTGGTATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAATTTGC
* * *
3430066 TCATAGTAGAAATAAGGAGGCCCAATAGCATCTTCCGGAAGTATTCTTTGAGTTATCTGATCTGG
1 TCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
*
3430131 TTTGGTATGAACCCCAAAACCAATTATTAGATTTGAAAGATGAATTTGC
66 TTTGGTATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAATTTGC
*
3430180 TCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCTGG
1 TCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
*
3430245 TTTGGTATGAACCCCAAAACCAATCATTAGATTTAAAAGATGAATTTGC
66 TTTGGTATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAATTTGC
*
3430294 TCATAGTAGAAATAAGGAGACCCAATAGCATATTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
1 TCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
* * *
3430359 TTTGGTAGGAACCCCAGAACCAATCATTAGAATTGAAAGATGAATT
66 TTTGGTATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAATT
3430405 GCATGATCGT
Statistics
Matches: 321, Mismatches: 18, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
114 321 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (114 bp):
TCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
TTTGGTATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAATTTGC
Found at i:3431313 original size:110 final size:112
Alignment explanation
Indices: 3431117--3432023 Score: 944
Period size: 110 Copynumber: 7.9 Consensus size: 112
3431107 GATTCAAATC
*
3431117 CATCACTT-GATGGATCAGCATTTCCAGTTAGAGTTCATAATGAGAAGAACTCATATGAAGAAGG
1 CATCA-TTCGATGGATCAGCATTTCCAG-AAGAGTTCATAATGAGAAGAACTCATATGAAGAAGG
*
3431181 AAGAAGAAGTTCATAATGAGAAGAACTTATTCAACCTTTTGCTTGAATT
64 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATT
* * * *
3431230 CATCATTCGATGGATCAGCGTTGCCAGAAG-GTTCATAATGAGAAGAACTTATCTGAAG-AGGAA
1 CATCATTCGATGGATCAGCATTTCCAGAAGAGTTCATAATGAGAAGAACTCATATGAAGAAGGAA
* *
3431293 GAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTTG-ACT
66 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATT
** * *
3431339 CTATCACATAAGAAGATAGATCAGCATTAACATTTCCAGTTAGAGTTCATAATGAGAAGAACTCA
1 C-AT--CAT---TCGATGGATCAG------CATTTCCAG-AAGAGTTCATAATGAGAAGAACTCA
* * *
3431404 TATTAAGAAGGAAGAAGAAGCTCATAATGAGAAGAACTTATTCAACCTTTTGCTTGAATT
53 TATGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATT
* * * *
3431464 CATCATTCGATGGATCAGCGTTGCCAGAAG-GTTCATAATGAGAAGAACTTATCTGAAG-AGGAA
1 CATCATTCGATGGATCAGCATTTCCAGAAGAGTTCATAATGAGAAGAACTCATATGAAGAAGGAA
* *
3431527 GAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTTG-ACT
66 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATT
** *
3431573 CTATCACATAAGAAGATAGATCAGCATTAACATTTCCAGATAGAGTTCATAATGAGAAGAACTCA
1 C-AT--CAT---TCGATGGATCAG------CATTTCCAGA-AGAGTTCATAATGAGAAGAACTCA
* * *
3431638 TATGAAGAAGGAAGAAGAAGTTTATAATGAGAAGAACTTATTCAACCTTTTGCTCGAATT
53 TATGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATT
* * * * *
3431698 CATCATTCGATGGATCAGCGTTGCCAGAAG-GTTCATAATAAGAAGAACTTATCTGAAG-AGGAA
1 CATCATTCGATGGATCAGCATTTCCAGAAGAGTTCATAATGAGAAGAACTCATATGAAGAAGGAA
* *
3431761 GAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTTG-ACT
66 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATT
* * * * *
3431807 C-T-A-TAGATCAGCATTAACATTTCCAGTTAGAGTTCATAATGAGAAGAACTCATATGAAGAAG
1 CATCATTCGAT--GGATCAGCATTTCCAG-AAGAGTTCATAATGAGAAGAACTCATATGAAGAAG
* * * * * * * *
3431869 AAAAAAGAAATCCATAATAAGAAGAATTTGGTCAAACCTTTTGTTTGAATT
63 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTC-AACCTTTTGCTTGAATT
* * * *
3431920 CATCATTCGATGGATCAACTTTTCCAG-AGAAGTTCATAATGAGAAGAACTTATCTGAAG-AGGA
1 CATCATTCGATGGATCAGCATTTCCAGAAG-AGTTCATAATGAGAAGAACTCATATGAAGAAGGA
*
3431983 AGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
65 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
3432024 ATAAGGAGAT
Statistics
Matches: 656, Mismatches: 94, Indels: 90
0.78 0.11 0.11
Matches are distributed among these distances:
106 4 0.01
107 1 0.00
108 12 0.02
109 11 0.02
110 164 0.25
111 112 0.17
112 55 0.08
113 67 0.10
114 14 0.02
115 19 0.03
116 4 0.01
119 18 0.03
121 15 0.02
122 10 0.02
123 51 0.08
124 93 0.14
125 6 0.01
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (112 bp):
CATCATTCGATGGATCAGCATTTCCAGAAGAGTTCATAATGAGAAGAACTCATATGAAGAAGGAA
GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATT
Found at i:3431436 original size:24 final size:23
Alignment explanation
Indices: 3431393--3431437 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
3431383 GTTCATAATG
*
3431393 AGAAGAACTCATATTAAGAAGGA
1 AGAAGAACTCATAATAAGAAGGA
*
3431416 AGAAGAAGCTCATAATGAGAAG
1 AGAAGAA-CTCATAATAAGAAG
3431438 AACTTATTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.51, C:0.09, G:0.24, T:0.16
Consensus pattern (23 bp):
AGAAGAACTCATAATAAGAAGGA
Found at i:3431544 original size:234 final size:234
Alignment explanation
Indices: 3431135--3432023 Score: 1498
Period size: 234 Copynumber: 3.8 Consensus size: 234
3431125 GATGGATCAG
3431135 CATTTCCAGTTAGAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAGTTCATAATGA
1 CATTTCCAGTTAGAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAGTTCATAATGA
3431200 GAAGAACTTATTCAACCTTTTGCTTGAATTCATCATTCGATGGATCAGCGTTGCCAGAAGGTTCA
66 GAAGAACTTATTCAACCTTTTGCTTGAATTCATCATTCGATGGATCAGCGTTGCCAGAAGGTTCA
3431265 TAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTT
131 TAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTT
3431330 TGCTTGACTCTATCACATAAGAAGATAGATCAGCATTAA
196 TGCTTGACTCTATCACATAAGAAGATAGATCAGCATTAA
* *
3431369 CATTTCCAGTTAGAGTTCATAATGAGAAGAACTCATATTAAGAAGGAAGAAGAAGCTCATAATGA
1 CATTTCCAGTTAGAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAGTTCATAATGA
3431434 GAAGAACTTATTCAACCTTTTGCTTGAATTCATCATTCGATGGATCAGCGTTGCCAGAAGGTTCA
66 GAAGAACTTATTCAACCTTTTGCTTGAATTCATCATTCGATGGATCAGCGTTGCCAGAAGGTTCA
3431499 TAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTT
131 TAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTT
3431564 TGCTTGACTCTATCACATAAGAAGATAGATCAGCATTAA
196 TGCTTGACTCTATCACATAAGAAGATAGATCAGCATTAA
* *
3431603 CATTTCCAGATAGAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAGTTTATAATGA
1 CATTTCCAGTTAGAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAGTTCATAATGA
*
3431668 GAAGAACTTATTCAACCTTTTGCTCGAATTCATCATTCGATGGATCAGCGTTGCCAGAAGGTTCA
66 GAAGAACTTATTCAACCTTTTGCTTGAATTCATCATTCGATGGATCAGCGTTGCCAGAAGGTTCA
*
3431733 TAATAAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTT
131 TAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTT
3431798 TGCTTGA--C--T--C-T------ATAGATCAGCATTAA
196 TGCTTGACTCTATCACATAAGAAGATAGATCAGCATTAA
* * * * *
3431824 CATTTCCAGTTAGAGTTCATAATGAGAAGAACTCATATGAAGAAGAAAAAAGAAATCCATAATAA
1 CATTTCCAGTTAGAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAGTTCATAATGA
* ** * * * * *
3431889 GAAGAATTTGGTCAAACCTTTTGTTTGAATTCATCATTCGATGGATCAACTTTTCCAGAGAAGTT
66 GAAGAACTTATTC-AACCTTTTGCTTGAATTCATCATTCGATGGATCAGCGTTGCCAGA-AGGTT
3431954 CATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCT
129 CATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCT
3432019 TTTGC
194 TTTGC
3432024 ATAAGGAGAT
Statistics
Matches: 628, Mismatches: 25, Indels: 15
0.94 0.04 0.02
Matches are distributed among these distances:
221 83 0.13
222 40 0.06
223 73 0.12
227 1 0.00
228 1 0.00
230 1 0.00
232 1 0.00
234 428 0.68
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (234 bp):
CATTTCCAGTTAGAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAGTTCATAATGA
GAAGAACTTATTCAACCTTTTGCTTGAATTCATCATTCGATGGATCAGCGTTGCCAGAAGGTTCA
TAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTT
TGCTTGACTCTATCACATAAGAAGATAGATCAGCATTAA
Found at i:3431847 original size:221 final size:223
Alignment explanation
Indices: 3431588--3432089 Score: 706
Period size: 223 Copynumber: 2.3 Consensus size: 223
3431578 ACATAAGAAG
* *
3431588 ATAGATCAGCATTAACATTTCCAGATAGAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGA
1 ATAGATCAGCATTAACATTTCCAGATAGAGTTCATAATGAGAAGAACTCATATGAAGAAGAAAAA
* ** * * *
3431653 AGAAGTTTATAATGAGAAGAACTTATTC-AACCTTTTGCTCGAATTCATCATTCGATGGATCAGC
66 AGAAATCCATAATAAGAAGAACTTAGTCAAACCTTTTGCTCGAATTCATCATTCGATGGATCAAC
*
3431717 GTTGCCAGA-AGGTTCATAATAAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAA
131 GTTGCCAGAGAAGTTCATAATAAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAA
3431781 GAGCTTGTTCAACCTTTTGCTTGACTCT
196 GAGCTTGTTCAACCTTTTGCTTGACTCT
*
3431809 ATAGATCAGCATTAACATTTCCAGTTAGAGTTCATAATGAGAAGAACTCATATGAAGAAGAAAAA
1 ATAGATCAGCATTAACATTTCCAGATAGAGTTCATAATGAGAAGAACTCATATGAAGAAGAAAAA
* * * *
3431874 AGAAATCCATAATAAGAAGAATTTGGTCAAACCTTTTGTTTGAATTCATCATTCGATGGATCAAC
66 AGAAATCCATAATAAGAAGAACTTAGTCAAACCTTTTGCTCGAATTCATCATTCGATGGATCAAC
* * *
3431939 TTTTCCAGAGAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAA
131 GTTGCCAGAGAAGTTCATAATAAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAA
* * ****
3432004 GAGCTTGTTCAACCTTTTGCATAAGGAG
196 GAGCTTGTTCAACCTTTTGCTTGACTCT
* * * * * *
3432032 ATAGA-CTAGCATCAAAATTTTCAGA-AGTGCTCATAATGAGAAGAACTCATCTGAAGAA
1 ATAGATC-AGCATTAACATTTCCAGATAGAGTTCATAATGAGAAGAACTCATATGAAGAA
3432090 TAAGGAGCAG
Statistics
Matches: 248, Mismatches: 30, Indels: 5
0.88 0.11 0.02
Matches are distributed among these distances:
221 83 0.33
222 71 0.29
223 94 0.38
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (223 bp):
ATAGATCAGCATTAACATTTCCAGATAGAGTTCATAATGAGAAGAACTCATATGAAGAAGAAAAA
AGAAATCCATAATAAGAAGAACTTAGTCAAACCTTTTGCTCGAATTCATCATTCGATGGATCAAC
GTTGCCAGAGAAGTTCATAATAAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAA
GAGCTTGTTCAACCTTTTGCTTGACTCT
Found at i:3433729 original size:14 final size:15
Alignment explanation
Indices: 3433704--3433732 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
3433694 ATTGTTTAGT
3433704 TATATGTTAATTTTA
1 TATATGTTAATTTTA
3433719 TATAT-TTAATTTTA
1 TATATGTTAATTTTA
3433733 ATTATTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (15 bp):
TATATGTTAATTTTA
Found at i:3433757 original size:14 final size:13
Alignment explanation
Indices: 3433710--3433755 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
3433700 TAGTTATATG
3433710 TTAATTTTATATAT
1 TTAATTTTAT-TAT
3433724 TTAATTTTAATTA-
1 TTAATTTT-ATTAT
3433737 TT-ATTATTATTAT
1 TTAATT-TTATTAT
3433750 TTAATT
1 TTAATT
3433756 ATAAATATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
12 7 0.25
13 6 0.21
14 13 0.46
15 2 0.07
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
TTAATTTTATTAT
Found at i:3433803 original size:22 final size:22
Alignment explanation
Indices: 3433740--3433803 Score: 58
Period size: 22 Copynumber: 2.8 Consensus size: 22
3433730 TTAATTATTA
*
3433740 TTATTATTATTTAATTATAAATAT
1 TTATT-TTATTT-ATTAAAAATAT
* * *
3433764 ATA-TTTATATAATAAAAAATAT
1 TTATTTTAT-TTATTAAAAATAT
3433786 TTATTTTATTTATTAAAA
1 TTATTTTATTTATTAAAA
3433804 TCTTATTTAA
Statistics
Matches: 31, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
22 22 0.71
23 7 0.23
24 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
TTATTTTATTTATTAAAAATAT
Found at i:3433974 original size:102 final size:102
Alignment explanation
Indices: 3433879--3434071 Score: 244
Period size: 102 Copynumber: 1.9 Consensus size: 102
3433869 GAAATGGAAG
* * *
3433879 TCTTAAAATAACTGGATGTCCATTTTCTGATATTTTTAAATAAATAAATATCCTATTTATAAAT-
1 TCTTAAAACAACTAGAAGTCC-TTTTCTGATATTTTTAAATAAATAAATATCCTATTTATAAATA
*
3433943 TATATAAATTATTTATTTATATATCAAAGAAAAGAGCTA
65 TATATAAATTATTTATTTATATAT-AAAGAAAAGAGCAA
** * **
3433982 TCTTAAGGCACCTAGAAGTCCTTTTCTGATATTTTTAAATAAATAAATATTTTATTTATAAATAT
1 TCTTAAAACAACTAGAAGTCCTTTTCTGATATTTTTAAATAAATAAATATCCTATTTATAAATAT
* * *
3434047 ATATATATATATATATATATATATA
66 ATATAAAT-TATTTATTTATATATA
3434072 TTTCATAATT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
102 40 0.52
103 24 0.31
104 13 0.17
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (102 bp):
TCTTAAAACAACTAGAAGTCCTTTTCTGATATTTTTAAATAAATAAATATCCTATTTATAAATAT
ATATAAATTATTTATTTATATATAAAGAAAAGAGCAA
Found at i:3434043 original size:23 final size:23
Alignment explanation
Indices: 3434011--3434054 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
3434001 CCTTTTCTGA
*
3434011 TATTTTTAAATAAATAAATATTT
1 TATTTATAAATAAATAAATATTT
* *
3434034 TATTTATAAATATATATATAT
1 TATTTATAAATAAATAAATAT
3434055 ATATATATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
TATTTATAAATAAATAAATATTT
Found at i:3434050 original size:2 final size:2
Alignment explanation
Indices: 3434038--3434072 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
3434028 ATATTTTATT
*
3434038 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3434073 TTCATAATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:3435264 original size:18 final size:18
Alignment explanation
Indices: 3435241--3435291 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
3435231 AAAAATTAGT
3435241 ATAATAAAATATAATAAA
1 ATAATAAAATATAATAAA
*
3435259 ATAATAAACTAT--T-AA
1 ATAATAAAATATAATAAA
*
3435274 ATAATTATAATATAATAA
1 ATAA-TAAAATATAATAA
3435292 TAAAAGTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 7
0.72 0.08 0.19
Matches are distributed among these distances:
15 6 0.23
16 7 0.27
18 12 0.46
19 1 0.04
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (18 bp):
ATAATAAAATATAATAAA
Found at i:3436201 original size:15 final size:15
Alignment explanation
Indices: 3436181--3436221 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 15
3436171 TTATTATTTT
3436181 ATATATTTAATATTA
1 ATATATTTAATATTA
3436196 ATATA-TT-ATATTA
1 ATATATTTAATATTA
*
3436209 TTATATTTTAATA
1 ATATA-TTTAATA
3436222 AAAATATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
13 10 0.45
14 2 0.09
15 7 0.32
16 3 0.14
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
ATATATTTAATATTA
Found at i:3436219 original size:29 final size:28
Alignment explanation
Indices: 3436166--3436237 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 28
3436156 ATAAACACTC
3436166 AAAA-ATTATTATT-TTATATATTTAATA
1 AAAATATTA-TATTATTATATATTTAATA
*
3436193 TTAATATATTATATTATTATAT-TTTAATA
1 --AAAATATTATATTATTATATATTTAATA
3436222 AAAATATTA-ATTATTA
1 AAAATATTATATTATTA
3436238 AATTATATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
26 7 0.18
27 8 0.21
29 14 0.36
30 10 0.26
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (28 bp):
AAAATATTATATTATTATATATTTAATA
Found at i:3436283 original size:8 final size:8
Alignment explanation
Indices: 3436262--3436337 Score: 54
Period size: 8 Copynumber: 9.8 Consensus size: 8
3436252 ATAATTTTTA
*
3436262 ATAATATA
1 ATAATATT
*
3436270 AAAATATT
1 ATAATATT
3436278 ATAATA--
1 ATAATATT
3436284 AT-A-ATT
1 ATAATATT
*
3436290 ATATTATT
1 ATAATATT
3436298 ATAATA-T
1 ATAATATT
3436305 ATAATATT
1 ATAATATT
3436313 ATACATTAATT
1 ATA-A-T-ATT
*
3436324 TTAATATT
1 ATAATATT
3436332 ATAATA
1 ATAATA
3436338 AATTACTAAT
Statistics
Matches: 53, Mismatches: 7, Indels: 16
0.70 0.09 0.21
Matches are distributed among these distances:
4 1 0.02
5 1 0.02
6 4 0.08
7 7 0.13
8 31 0.58
9 2 0.04
10 2 0.04
11 5 0.09
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (8 bp):
ATAATATT
Found at i:3436406 original size:14 final size:14
Alignment explanation
Indices: 3436387--3436441 Score: 71
Period size: 14 Copynumber: 4.1 Consensus size: 14
3436377 AAATATAATA
3436387 TAATATTATTATTT
1 TAATATTATTATTT
*
3436401 TAATATTATAATTT
1 TAATATTATTATTT
*
3436415 TAATA-T-TT-TTA
1 TAATATTATTATTT
3436426 TAATATTATTATTT
1 TAATATTATTATTT
3436440 TA
1 TA
3436442 GTAAGTAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
11 7 0.21
12 2 0.06
13 3 0.09
14 22 0.65
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TAATATTATTATTT
Found at i:3436428 original size:17 final size:17
Alignment explanation
Indices: 3436406--3436440 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
3436396 TATTTTAATA
*
3436406 TTATAATTTTAATATTT
1 TTATAATATTAATATTT
*
3436423 TTATAATATTATTATTT
1 TTATAATATTAATATTT
3436440 T
1 T
3436441 AGTAAGTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTATAATATTAATATTT
Found at i:3436429 original size:25 final size:25
Alignment explanation
Indices: 3436393--3436441 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
3436383 AATATAATAT
3436393 TATTATTTTAATATTATAATTTTAA
1 TATTATTTTAATATTATAATTTTAA
*
3436418 TATT-TTTATAATATTATTATTTTA
1 TATTATTT-TAATATTATAATTTTA
3436442 GTAAGTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 3 0.14
25 19 0.86
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (25 bp):
TATTATTTTAATATTATAATTTTAA
Found at i:3436471 original size:39 final size:39
Alignment explanation
Indices: 3436389--3436525 Score: 122
Period size: 42 Copynumber: 3.5 Consensus size: 39
3436379 ATATAATATA
* * *
3436389 ATATTATTATTTTAATATTATAATTTTAATAT-TTTTAT-A-
1 ATATTATTATTTTAATA-AATAA--TTAATATAATTAATAAT
* *
3436428 ATATTATTATTTTAGTAAGTAATTAATATAATTAATAAT
1 ATATTATTATTTTAATAAATAATTAATATAATTAATAAT
* *
3436467 ATATTATTCTTGTTTTAATAAATAATTAATATAATTTATAAT
1 ATATTA---TTATTTTAATAAATAATTAATATAATTAATAAT
3436509 A-ATT-TTATTTTAATAAA
1 ATATTATTATTTTAATAAA
3436526 ATAAAATAAT
Statistics
Matches: 82, Mismatches: 10, Indels: 14
0.77 0.09 0.13
Matches are distributed among these distances:
36 7 0.09
37 16 0.20
38 4 0.05
39 22 0.27
41 3 0.04
42 30 0.37
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (39 bp):
ATATTATTATTTTAATAAATAATTAATATAATTAATAAT
Found at i:3436529 original size:42 final size:43
Alignment explanation
Indices: 3436447--3436535 Score: 101
Period size: 42 Copynumber: 2.1 Consensus size: 43
3436437 TTTTAGTAAG
** **
3436447 TAATTAATATAATTAATAATATATTATTCTTGTTTTAAT-AAA
1 TAATTAATATAATTAATAATATATTATTCTTAATAAAATAAAA
* *
3436489 TAATTAATATAATTTATAATAATTTTATT-TTAATAAAATAAAA
1 TAATTAATATAATTAATAAT-ATATTATTCTTAATAAAATAAAA
3436532 TAAT
1 TAAT
3436536 CTTAATATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
42 25 0.64
43 14 0.36
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (43 bp):
TAATTAATATAATTAATAATATATTATTCTTAATAAAATAAAA
Found at i:3443733 original size:21 final size:21
Alignment explanation
Indices: 3443704--3443753 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
3443694 AAATATATAA
* * *
3443704 TTTTT-AAAAAAGCTTAATTT
1 TTTTTAAAAAAAACTCAATAT
3443724 TTTTTAAAAAAAACTCAATAT
1 TTTTTAAAAAAAACTCAATAT
*
3443745 TTTCTAAAA
1 TTTTTAAAA
3443754 TTATAAGAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 5 0.20
21 20 0.80
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.44
Consensus pattern (21 bp):
TTTTTAAAAAAAACTCAATAT
Found at i:3446536 original size:35 final size:33
Alignment explanation
Indices: 3446482--3446546 Score: 87
Period size: 35 Copynumber: 1.9 Consensus size: 33
3446472 TTTTTGTAAA
3446482 AGGGTTGGTTCTATCTTAGCCAAGTGAAAAAGAT
1 AGGGTTGGTTCTATCTTAGCC-AGTGAAAAAGAT
*
3446516 AGGGATTGGTTCTAGT-TTAGCCATTGAAAAA
1 AGGG-TTGGTTCTA-TCTTAGCCAGTGAAAAA
3446547 CTAGAGAGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
34 12 0.43
35 15 0.54
36 1 0.04
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.31
Consensus pattern (33 bp):
AGGGTTGGTTCTATCTTAGCCAGTGAAAAAGAT
Found at i:3448298 original size:23 final size:23
Alignment explanation
Indices: 3448272--3448319 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
3448262 CGAATGGAGC
3448272 CCCGACCCTAGACCCAGTTCAAA
1 CCCGACCCTAGACCCAGTTCAAA
* *
3448295 CCCGACCCTAGACTCGGTTCAAA
1 CCCGACCCTAGACCCAGTTCAAA
3448318 CC
1 CC
3448320 TGAACCGACC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.27, C:0.44, G:0.15, T:0.15
Consensus pattern (23 bp):
CCCGACCCTAGACCCAGTTCAAA
Found at i:3449221 original size:25 final size:25
Alignment explanation
Indices: 3449193--3449240 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
3449183 TTATTTTAGT
*
3449193 TTTTTTTATTA-TTATTTTTATTTCG
1 TTTTGTTATTACTT-TTTTTATTTCG
*
3449218 TTTTGTTGTTACTTTTTTTATTT
1 TTTTGTTATTACTTTTTTTATTT
3449241 GGCACTCTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 18 0.90
26 2 0.10
ACGTcount: A:0.12, C:0.04, G:0.06, T:0.77
Consensus pattern (25 bp):
TTTTGTTATTACTTTTTTTATTTCG
Found at i:3449442 original size:3 final size:3
Alignment explanation
Indices: 3449434--3449514 Score: 155
Period size: 3 Copynumber: 27.3 Consensus size: 3
3449424 TTATTTCACC
3449434 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
3449482 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
3449515 CTTATTTTTT
Statistics
Matches: 77, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 75 0.97
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:3449847 original size:16 final size:17
Alignment explanation
Indices: 3449810--3449847 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
3449800 GCATACCAGT
3449810 TTTTTGTCTTAAAAATG
1 TTTTTGTCTTAAAAATG
* *
3449827 ATTTT-TCTTAAAATTG
1 TTTTTGTCTTAAAAATG
3449843 TTTTT
1 TTTTT
3449848 AAAAGACGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.26, C:0.05, G:0.08, T:0.61
Consensus pattern (17 bp):
TTTTTGTCTTAAAAATG
Found at i:3450749 original size:16 final size:16
Alignment explanation
Indices: 3450712--3450749 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
3450702 TCTCACTAAC
3450712 TTTTTCTTTTCATTTT
1 TTTTTCTTTTCATTTT
3450728 TGTTTTC-TTTCATTTT
1 T-TTTTCTTTTCATTTT
3450744 ATTTTT
1 -TTTTT
3450750 ATCATTTGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.08, C:0.11, G:0.03, T:0.79
Consensus pattern (16 bp):
TTTTTCTTTTCATTTT
Found at i:3452713 original size:150 final size:150
Alignment explanation
Indices: 3452414--3452695 Score: 354
Period size: 150 Copynumber: 1.9 Consensus size: 150
3452404 CAGAAGTCGT
* * * *
3452414 TGCTTCAATAGAGAATTCTTGTGAAGAACATAAGGCGCAAAAGGGTGAAAAAGGAAATCCAAGCA
1 TGCTTCAACAGAGAATTCCTGTGAAAAACATAAGGCGCAAAAGGATGAAAAAGGAAATCCAAGCA
* * * *
3452479 TAAGGGCTTCCATGAATGTAATTTGAGACTGGCTCGTGGGTTTCAGAATGGATGGGGCAGATGCA
66 TAAGGGCTTCCATGAATGTAATCTGAGACTGGCTCGTGGGTTTAAGAATAGATGGGGCAGACGCA
* *
3452544 GCCAGGAAGACACCTCAAAC
131 ACCAGAAAGACACCTCAAAC
* * * * *
3452564 TGCTTCAACAGAGGATTCCTGTGAAAAACATAAGGCGCAAGAGGAT-AGGAAAGGAAATCTAGGC
1 TGCTTCAACAGAGAATTCCTGTGAAAAACATAAGGCGCAAAAGGATGA-AAAAGGAAATCCAAGC
* * *
3452628 ATAAGGGCTTCTATGAATGTAGTCTGAGACTGGC-CTGTGGGTTTAAGAATCAG-TGGGTCAGAC
65 ATAAGGGCTTCCATGAATGTAATCTGAGACTGGCTC-GTGGGTTTAAGAAT-AGATGGGGCAGAC
3452691 GCAAC
128 GCAAC
3452696 TTTAAAGAAG
Statistics
Matches: 112, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
149 2 0.02
150 109 0.97
151 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.29, T:0.21
Consensus pattern (150 bp):
TGCTTCAACAGAGAATTCCTGTGAAAAACATAAGGCGCAAAAGGATGAAAAAGGAAATCCAAGCA
TAAGGGCTTCCATGAATGTAATCTGAGACTGGCTCGTGGGTTTAAGAATAGATGGGGCAGACGCA
ACCAGAAAGACACCTCAAAC
Found at i:3453821 original size:99 final size:99
Alignment explanation
Indices: 3453640--3453841 Score: 271
Period size: 99 Copynumber: 2.0 Consensus size: 99
3453630 TTATAATATT
* * *
3453640 ATATATATACAATAAAACTTGAGTTGTCCCTCTAAAGCAATTCGTTAAACGCCTCGGCTTTACGG
1 ATATATATACAATAAAACTTGAGCTATCCCTCTAAAACAATTCGTTAAACGCCTCGGCTTTACGG
*
3453705 ATAAGATTCAGCTAGCCTGATAAAGTTGATTATA
66 ATAAGATTCAGCTAGCCTGATAAAGGTGATTATA
* * * * * * *
3453739 ATATCTATATAATAAAGCTTGAGCTATCCCTCTAAAATAATTGGTTAAATGCC-CTGGCTTTATG
1 ATATATATACAATAAAACTTGAGCTATCCCTCTAAAACAATTCGTTAAACGCCTC-GGCTTTACG
* *
3453803 GATAAGATTCAGTTAGCCTGATAAAGGTGATTGTA
65 GATAAGATTCAGCTAGCCTGATAAAGGTGATTATA
3453838 ATAT
1 ATAT
3453842 TGAGTTGTCC
Statistics
Matches: 89, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
98 1 0.01
99 88 0.99
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (99 bp):
ATATATATACAATAAAACTTGAGCTATCCCTCTAAAACAATTCGTTAAACGCCTCGGCTTTACGG
ATAAGATTCAGCTAGCCTGATAAAGGTGATTATA
Found at i:3455872 original size:85 final size:85
Alignment explanation
Indices: 3455152--3455844 Score: 895
Period size: 85 Copynumber: 8.1 Consensus size: 85
3455142 TAAATGAACT
* * ** * * *
3455152 ATTTGCAGCATAGCTCAAGGCGAGAAGGGCTAACTACCAGCAAAAAACCTTTGAGTTCGATTACA
1 ATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAAC-AAAGACCTTCGAGTTCGATTACA
* *
3455217 CTCAGCTTAAAGACATATCAA
65 TTCAGCTCAAAGACATATCAA
* * *
3455238 ATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAATACCTTCGAGTTCGATTACAT
1 ATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACAT
* *
3455303 TCAGCTCAAGGGCATATCAA
66 TCAGCTCAAAGACATATCAA
* * *
3455323 ATTTACAGTATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTTGAGTTTGATTACAT
1 ATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACAT
* *
3455388 TCAACTCAAAGGCATATCAA
66 TCAGCTCAAAGACATATCAA
* * * *
3455408 ATTTAGAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAATAAAGACATTCGAGTTCAATTACAT
1 ATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACAT
3455473 TCAGCTCAAAGACATATCAA
66 TCAGCTCAAAGACATATCAA
* * * * * *
3455493 ATTTACAACATAGCTCAAGGCGAGAAGGGTTATCTCTCAAGAAAGACCTTCTAGTTTGATTACAT
1 ATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACAT
* *
3455558 TCAGCTCAAGGGCATATCAA
66 TCAGCTCAAAGACATATCAA
* * * *
3455578 ATTTACAGCATAGCTCATGGCGAGAAAGGCT-TCCTGTCAACAAAGACCTTCGAGTTTGATTATA
1 ATTTACAGCATAGCTCAAGGCGAGAAGGGCTAT-CTGTCAACAAAGACCTTCGAGTTCGATTACA
* *
3455642 TTTAGCTCAAGGACATATCAA
65 TTCAGCTCAAAGACATATCAA
** * * *
3455663 ATTTACAGCATAGCTCAAGGCGAGAAGATCTATCTATCAA-AAACAACCTTCAAGTTCGATTACA
1 ATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAA-GACCTTCGAGTTCGATTACA
*
3455727 TTCAGCTCAAGGACATATCAA
65 TTCAGCTCAAAGACATATCAA
* * * * *
3455748 ATTTACAGCATAGCTCAAGGAGAGAATGACTATCTGTCAACAAATACCTTCGAGTTCGATTCCAT
1 ATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACAT
*
3455813 TCAGCTCAAAGACATGTCAA
66 TCAGCTCAAAGACATATCAA
*
3455833 ATTTATAGCATA
1 ATTTACAGCATA
3455845 ACATAAGTCG
Statistics
Matches: 531, Mismatches: 72, Indels: 9
0.87 0.12 0.01
Matches are distributed among these distances:
84 4 0.01
85 489 0.92
86 38 0.07
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (85 bp):
ATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACAT
TCAGCTCAAAGACATATCAA
Found at i:3457688 original size:3 final size:3
Alignment explanation
Indices: 3457682--3457725 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
3457672 GTTGTTGTTG
*
3457682 TTA TTA TTA TTA TTA TTA TTA TTA TTA ATA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
3457726 TCGTTTTGTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:3457892 original size:23 final size:24
Alignment explanation
Indices: 3457847--3457894 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
3457837 CTGGTAGAAA
3457847 TTAACATTTTCTTAATTTTTTATT
1 TTAACATTTTCTTAATTTTTTATT
*
3457871 TTAACATTTTCTT-CTTTTTTATT
1 TTAACATTTTCTTAATTTTTTATT
3457894 T
1 T
3457895 ATTTCTCTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 10 0.43
24 13 0.57
ACGTcount: A:0.21, C:0.10, G:0.00, T:0.69
Consensus pattern (24 bp):
TTAACATTTTCTTAATTTTTTATT
Found at i:3458094 original size:12 final size:12
Alignment explanation
Indices: 3458077--3458101 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3458067 GAATTGAATT
3458077 TTTAAATTTCAA
1 TTTAAATTTCAA
3458089 TTTAAATTTCAA
1 TTTAAATTTCAA
3458101 T
1 T
3458102 CTTCGTAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTAAATTTCAA
Found at i:3466657 original size:26 final size:28
Alignment explanation
Indices: 3466627--3466681 Score: 96
Period size: 27 Copynumber: 2.0 Consensus size: 28
3466617 TATTATCAAT
3466627 TATTTTAA-TATTTTAATTTAA-AATAA
1 TATTTTAATTATTTTAATTTAACAATAA
3466653 TATTTTAATTATTTTAATTTAACAATAA
1 TATTTTAATTATTTTAATTTAACAATAA
3466681 T
1 T
3466682 CTTTCATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 8 0.30
27 13 0.48
28 6 0.22
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (28 bp):
TATTTTAATTATTTTAATTTAACAATAA
Found at i:3466856 original size:18 final size:19
Alignment explanation
Indices: 3466835--3466872 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
3466825 TAAAAAAATA
3466835 AAAAAATATA-ATTATAAT
1 AAAAAATATACATTATAAT
*
3466853 -AAAAATATACTTTATAAT
1 AAAAAATATACATTATAAT
3466871 AA
1 AA
3466873 TTCACTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 3
0.81 0.05 0.14
Matches are distributed among these distances:
17 9 0.53
18 7 0.41
19 1 0.06
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAAAATATACATTATAAT
Found at i:3471193 original size:19 final size:19
Alignment explanation
Indices: 3471169--3471214 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
3471159 TAGACAAACA
3471169 TACAATCTTTCGAATAATC
1 TACAATCTTTCGAATAATC
3471188 TACAATCTTTCGAATAATC
1 TACAATCTTTCGAATAATC
3471207 TACAATCT
1 TACAATCT
3471215 ATATGACAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.37, C:0.22, G:0.04, T:0.37
Consensus pattern (19 bp):
TACAATCTTTCGAATAATC
Found at i:3472323 original size:35 final size:35
Alignment explanation
Indices: 3472277--3472378 Score: 141
Period size: 35 Copynumber: 2.9 Consensus size: 35
3472267 TCCGTTCTAG
* *
3472277 TTGAATCGAAAGTGCGATGCTTTCTTCTGTTCGAC
1 TTGAATCGAAAGTGCGATGCTTCCTTCTGTTCAAC
* *
3472312 TTGAATCGAAAGTGTGATGCCTCCTTCTGTTCAAC
1 TTGAATCGAAAGTGCGATGCTTCCTTCTGTTCAAC
* * *
3472347 TTGAATCGAAAGTGCAATGCTTCATTCCGTTC
1 TTGAATCGAAAGTGCGATGCTTCCTTCTGTTC
3472379 TAATTTAATC
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 58 1.00
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.35
Consensus pattern (35 bp):
TTGAATCGAAAGTGCGATGCTTCCTTCTGTTCAAC
Found at i:3474036 original size:19 final size:19
Alignment explanation
Indices: 3474012--3474048 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
3474002 ACATTAGCGG
3474012 TGTATATTCTAAAATGCAC
1 TGTATATTCTAAAATGCAC
*
3474031 TGTATATTCTAGAATGCA
1 TGTATATTCTAAAATGCA
3474049 TATTCCAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.38
Consensus pattern (19 bp):
TGTATATTCTAAAATGCAC
Found at i:3475968 original size:19 final size:19
Alignment explanation
Indices: 3475944--3475980 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
3475934 ACATTAGCGG
3475944 TGTATATTCTAAAATGCAC
1 TGTATATTCTAAAATGCAC
*
3475963 TGTATATTCTAGAATGCA
1 TGTATATTCTAAAATGCA
3475981 TATTCCAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.38
Consensus pattern (19 bp):
TGTATATTCTAAAATGCAC
Found at i:3477903 original size:19 final size:19
Alignment explanation
Indices: 3477879--3477915 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
3477869 ACATTAGCGG
3477879 TGTATATTCTAAAATGCAC
1 TGTATATTCTAAAATGCAC
*
3477898 TGTATATTCTAGAATGCA
1 TGTATATTCTAAAATGCA
3477916 TATTCCAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.38
Consensus pattern (19 bp):
TGTATATTCTAAAATGCAC
Found at i:3478638 original size:21 final size:21
Alignment explanation
Indices: 3478589--3478652 Score: 83
Period size: 22 Copynumber: 3.0 Consensus size: 21
3478579 CATATGAAAT
*
3478589 TTGTCCCGAAAGACCTGTGAA
1 TTGTCCCGAAAGACCTATGAA
*
3478610 TATGTCCCGAAAGACCTATGAG
1 T-TGTCCCGAAAGACCTATGAA
* *
3478632 TTGTCCCGAAGGACATATGAA
1 TTGTCCCGAAAGACCTATGAA
3478653 ACCCTCAACT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 18 0.49
22 19 0.51
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.23
Consensus pattern (21 bp):
TTGTCCCGAAAGACCTATGAA
Found at i:3481166 original size:19 final size:19
Alignment explanation
Indices: 3481138--3481174 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
3481128 ACACAAGCGG
*
3481138 TGCATGTTCTAGAATGCAC
1 TGCATATTCTAGAATGCAC
3481157 TGCATATTCTAGAATGCA
1 TGCATATTCTAGAATGCA
3481175 TATTCTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (19 bp):
TGCATATTCTAGAATGCAC
Found at i:3481241 original size:30 final size:30
Alignment explanation
Indices: 3481205--3481264 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
3481195 TCAAATTATT
* *
3481205 CTACATCTTCTACTTCTACTTCTTCCTCGA
1 CTACATCTTCAACTTCTACTTCTTCATCGA
3481235 CTACATCTTCAACTTCTACTTCTTCATCGA
1 CTACATCTTCAACTTCTACTTCTTCATCGA
3481265 TTTATACTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.20, C:0.35, G:0.03, T:0.42
Consensus pattern (30 bp):
CTACATCTTCAACTTCTACTTCTTCATCGA
Found at i:3481260 original size:15 final size:15
Alignment explanation
Indices: 3481203--3481260 Score: 53
Period size: 15 Copynumber: 3.9 Consensus size: 15
3481193 CCTCAAATTA
*
3481203 TTCTACATCTTCTAC
1 TTCTACATCTTCAAC
* **
3481218 TTCTACTTCTTCCTC
1 TTCTACATCTTCAAC
**
3481233 GACTACATCTTCAAC
1 TTCTACATCTTCAAC
*
3481248 TTCTACTTCTTCA
1 TTCTACATCTTCA
3481261 TCGATTTATA
Statistics
Matches: 32, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.19, C:0.34, G:0.02, T:0.45
Consensus pattern (15 bp):
TTCTACATCTTCAAC
Found at i:3482087 original size:27 final size:27
Alignment explanation
Indices: 3482057--3482115 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
3482047 ATCTACTACA
*
3482057 AAAACCTTAA-AAATAATCGAAGAAAAC
1 AAAACCATAATAAAT-ATCGAAGAAAAC
* **
3482084 AAAAGCATAATTCATATCGAAGAAAAC
1 AAAACCATAATAAATATCGAAGAAAAC
3482111 AAAAC
1 AAAAC
3482116 AAAAGCATAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
27 24 0.92
28 2 0.08
ACGTcount: A:0.61, C:0.15, G:0.08, T:0.15
Consensus pattern (27 bp):
AAAACCATAATAAATATCGAAGAAAAC
Found at i:3492217 original size:2 final size:2
Alignment explanation
Indices: 3492201--3492238 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
3492191 GTGAAGGAAA
3492201 AT AT -T AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3492239 TATTAAAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 32 0.94
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:3494191 original size:30 final size:29
Alignment explanation
Indices: 3494155--3494212 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
3494145 TGATTGCTTA
*
3494155 GGGCCCCCATTTTTTTAATCTTTATAATTG
1 GGGCCCCCA-TGTTTTAATCTTTATAATTG
* *
3494185 GGGCCCCTATGTTTTCATCTTTATAATT
1 GGGCCCCCATGTTTTAATCTTTATAATT
3494213 AGGTCTTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.19, C:0.21, G:0.14, T:0.47
Consensus pattern (29 bp):
GGGCCCCCATGTTTTAATCTTTATAATTG
Found at i:3494318 original size:43 final size:43
Alignment explanation
Indices: 3494196--3494514 Score: 199
Period size: 43 Copynumber: 7.4 Consensus size: 43
3494186 GGCCCCTATG
* * * * * *
3494196 TTTTCATCTTTATAATT-AGGTCTTTAATTTTTTAAATCTTATT
1 TTTTTATCTTTATAATTGAAGTCTCTAATTTTTTCAATCTCA-C
* * *
3494239 TTTTTATCTATATAATTG-AGATC-CTAATATTATTCAATCTCGC
1 TTTTTATCTTTATAATTGAAG-TCTCTAAT-TTTTTCAATCTCAC
* *
3494282 TTTTTATCTTTATAATTGAAGTCTCTAATTTTTTCAAT-ACATT
1 TTTTTATCTTTATAATTGAAGTCTCTAATTTTTTCAATCTCA-C
* * *
3494325 TTTTTACCTTTATAATTG-AGGCTCTAATTTTGT-AATCTCAC
1 TTTTTATCTTTATAATTGAAGTCTCTAATTTTTTCAATCTCAC
* * * *
3494366 TTCTAAT-TTTATAATTG-AGGCTTTTAAGTTTTTTCAATCTCAC
1 TTTTTATCTTTATAATTGAAGTC-TCTAA-TTTTTTCAATCTCAC
* * * * * * *
3494409 TTTCTACCTTT-TCAATTGAGGTCCCTAAGTTTTTTTAATATCAA
1 TTTTTATCTTTAT-AATTGAAGTCTCTAA-TTTTTTCAATCTCAC
* * * * * *
3494453 TTTCTACCTTTATAATTGAGGCCCCTAATTTTTT-AATCCCAC
1 TTTTTATCTTTATAATTGAAGTCTCTAATTTTTTCAATCTCAC
*
3494495 TTTTTTAACTTTATAATTGA
1 -TTTTTATCTTTATAATTGA
3494515 GGCCCTTAAG
Statistics
Matches: 220, Mismatches: 41, Indels: 30
0.76 0.14 0.10
Matches are distributed among these distances:
40 14 0.06
41 11 0.05
42 26 0.12
43 99 0.45
44 67 0.30
45 3 0.01
ACGTcount: A:0.26, C:0.15, G:0.07, T:0.51
Consensus pattern (43 bp):
TTTTTATCTTTATAATTGAAGTCTCTAATTTTTTCAATCTCAC
Found at i:3494427 original size:44 final size:43
Alignment explanation
Indices: 3494329--3494605 Score: 242
Period size: 44 Copynumber: 6.4 Consensus size: 43
3494319 TACATTTTTT
* *
3494329 TACCTTTATAATTGAGG-CTCTAA-TTTTGTAATCTCAC-TTC
1 TACCTTTATAATTGAGGCCCCTAAGTTTTTTAATCTCACTTTC
** ***
3494369 TAATTTTATAATTGAGGCTTTTAAGTTTTTTCAATCTCACTTTC
1 TACCTTTATAATTGAGGCCCCTAAGTTTTTT-AATCTCACTTTC
* * *
3494413 TACCTTT-TCAATTGAGGTCCCTAAGTTTTTTTAATATCAATTTC
1 TACCTTTAT-AATTGAGGCCCCTAAG-TTTTTTAATCTCACTTTC
* *
3494457 TACCTTTATAATTGAGGCCCCTAA-TTTTTTAATCCCACTTTTT
1 TACCTTTATAATTGAGGCCCCTAAGTTTTTTAATCTCAC-TTTC
* * *
3494500 TAACTTTATAATTGAGGCCCTTAAGTTTTTATAATATCACTTTC
1 TACCTTTATAATTGAGGCCCCTAAGTTTTT-TAATCTCACTTTC
* * * ** *
3494544 TAACTTTGTAATTGAGACCCCTATTTTTTTTCAATTTCGA-TTTC
1 TACCTTTATAATTGAGGCCCCTAAGTTTTTT-AATCTC-ACTTTC
* *
3494588 TACATTTATAATTAAGGC
1 TACCTTTATAATTGAGGC
3494606 TTCTGATTTT
Statistics
Matches: 191, Mismatches: 34, Indels: 20
0.78 0.14 0.08
Matches are distributed among these distances:
40 15 0.08
41 4 0.02
42 16 0.08
43 35 0.18
44 106 0.55
45 15 0.08
ACGTcount: A:0.26, C:0.18, G:0.09, T:0.47
Consensus pattern (43 bp):
TACCTTTATAATTGAGGCCCCTAAGTTTTTTAATCTCACTTTC
Found at i:3494515 original size:43 final size:42
Alignment explanation
Indices: 3494274--3494573 Score: 230
Period size: 44 Copynumber: 7.0 Consensus size: 42
3494264 AATATTATTC
* * * * * *
3494274 AATCTCGCTTTTTATCTTTATAATTGAAGTCTCTAATTTTTT
1 AATCTCACTTTCTAACTTTATAATTGAGGCCCCTAATTTTTT
* * * * * *
3494316 CAAT-ACATTTTTTTACCTTTATAATTGAGG-CTCTAATTTTGT
1 -AATCTCA-CTTTCTAACTTTATAATTGAGGCCCCTAATTTTTT
* ***
3494358 AATCTCAC-TTCTAATTTTATAATTGAGGCTTTTAAGTTTTTT
1 AATCTCACTTTCTAACTTTATAATTGAGGCCCCTAA-TTTTTT
* *
3494400 CAATCTCACTTTCTACCTTT-TCAATTGAGGTCCCTAAGTTTTTTT
1 -AATCTCACTTTCTAACTTTAT-AATTGAGGCCCCTAA--TTTTTT
* * *
3494445 AATATCAATTTCTACCTTTATAATTGAGGCCCCTAATTTTTT
1 AATCTCACTTTCTAACTTTATAATTGAGGCCCCTAATTTTTT
* * *
3494487 AATCCCACTTTTTTAACTTTATAATTGAGGCCCTTAAGTTTTTAT
1 AATCTCAC-TTTCTAACTTTATAATTGAGGCCCCTAA-TTTTT-T
* * * *
3494532 AATATCACTTTCTAACTTTGTAATTGAGACCCCTATTTTTTT
1 AATCTCACTTTCTAACTTTATAATTGAGGCCCCTAATTTTTT
3494574 TCAATTTCGA
Statistics
Matches: 208, Mismatches: 37, Indels: 25
0.77 0.14 0.09
Matches are distributed among these distances:
40 17 0.08
41 7 0.03
42 31 0.15
43 61 0.29
44 78 0.38
45 14 0.07
ACGTcount: A:0.25, C:0.17, G:0.08, T:0.49
Consensus pattern (42 bp):
AATCTCACTTTCTAACTTTATAATTGAGGCCCCTAATTTTTT
Found at i:3494529 original size:131 final size:128
Alignment explanation
Indices: 3494271--3494605 Score: 354
Period size: 131 Copynumber: 2.6 Consensus size: 128
3494261 CCTAATATTA
* * * * * * * *
3494271 TTCAATCTCGCTTTTTATCTTTATAATTGAAGTCTCTAATTTTTTCAATA-CATTTTTTTACCTT
1 TTCAATCTCACTTTCTAACTTTATAATTGAGGTCCCTAATTTTTTTAATATCA-ATTTCTACCTT
* * * **
3494335 TATAATTGAGG-CTCTAATTTTGTAATCTCACTTCTAATTTTATAATTGAGGCTTTTAAGTTTT
65 TATAATTGAGGCCCCTAATTTTGTAATCCCACTTCTAACTTTATAATTGAGGCCCTTAAGTTTT
*
3494398 TTCAATCTCACTTTCTACCTTT-TCAATTGAGGTCCCTAAGTTTTTTTAATATCAATTTCTACCT
1 TTCAATCTCACTTTCTAACTTTAT-AATTGAGGTCCCTAA-TTTTTTTAATATCAATTTCTACCT
* *
3494462 TTATAATTGAGGCCCCTAATTTTTTAATCCCACTTTTTTAACTTTATAATTGAGGCCCTTAAGTT
64 TTATAATTGAGGCCCCTAATTTTGTAATCCCAC--TTCTAACTTTATAATTGAGGCCCTTAAGTT
3494527 TT
127 TT
* * ** * * * *
3494529 TAT-AATATCACTTTCTAACTTTGTAATTGAGACCCCTATTTTTTTTCAATTTCGATTTCTACAT
1 T-TCAATCTCACTTTCTAACTTTATAATTGAGGTCCCTAATTTTTTT-AATATCAATTTCTACCT
*
3494593 TTATAATTAAGGC
64 TTATAATTGAGGC
3494606 TTCTGATTTT
Statistics
Matches: 175, Mismatches: 24, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
126 1 0.01
127 32 0.18
128 30 0.17
129 19 0.11
130 7 0.04
131 84 0.48
132 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.08, T:0.49
Consensus pattern (128 bp):
TTCAATCTCACTTTCTAACTTTATAATTGAGGTCCCTAATTTTTTTAATATCAATTTCTACCTTT
ATAATTGAGGCCCCTAATTTTGTAATCCCACTTCTAACTTTATAATTGAGGCCCTTAAGTTTT
Found at i:3494535 original size:87 final size:87
Alignment explanation
Indices: 3494289--3494578 Score: 288
Period size: 87 Copynumber: 3.4 Consensus size: 87
3494279 CGCTTTTTAT
* * * * *
3494289 CTTTATAATTGAAGTCTCTAATTTTTTCAAT-ACATTTTTTTACCTTTATAATTGAGGCTCTAA-
1 CTTTATAATTGAGGCCCCTAATTTTTTCAATCACACTTTTTTACCTTTATAATTGAGGCCCTAAG
* * *
3494352 -TTTTGTAATCTC-ACTTCTAA
66 TTTTTATAATATCAATTTCTAA
* *** * *
3494372 TTTTATAATTGAGGCTTTTAAGTTTTTTCAATCTCAC-TTTCTACCTTT-TCAATTGAGGTCCCT
1 CTTTATAATTGAGGCCCCTAA-TTTTTTCAATCACACTTTTTTACCTTTAT-AATTGAGG-CCCT
* *
3494435 AAGTTTTTTTAATATCAATTTCTAC
63 AAGTTTTTATAATATCAATTTCTAA
* *
3494460 CTTTATAATTGAGGCCCCTAATTTTTT-AATCCCACTTTTTTAACTTTATAATTGAGGCCCTTAA
1 CTTTATAATTGAGGCCCCTAATTTTTTCAATCACACTTTTTTACCTTTATAATTGAGGCCC-TAA
*
3494524 GTTTTTATAATATCACTTTCTAA
65 GTTTTTATAATATCAATTTCTAA
* * *
3494547 CTTTGTAATTGAGACCCCTATTTTTTTTCAAT
1 CTTTATAATTGAGGCCCCTA-ATTTTTTCAAT
3494579 TTCGATTTCT
Statistics
Matches: 169, Mismatches: 26, Indels: 18
0.79 0.12 0.08
Matches are distributed among these distances:
83 17 0.10
84 28 0.17
85 7 0.04
86 10 0.06
87 74 0.44
88 30 0.18
89 3 0.02
ACGTcount: A:0.26, C:0.17, G:0.08, T:0.49
Consensus pattern (87 bp):
CTTTATAATTGAGGCCCCTAATTTTTTCAATCACACTTTTTTACCTTTATAATTGAGGCCCTAAG
TTTTTATAATATCAATTTCTAA
Found at i:3499512 original size:11 final size:11
Alignment explanation
Indices: 3499491--3499526 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
3499481 GTTTGATGCT
3499491 TTCTC-TTTGA
1 TTCTCTTTTGA
3499501 TTCTCTTTTGA
1 TTCTCTTTTGA
3499512 TTCTCTTTTGA
1 TTCTCTTTTGA
3499523 TTCT
1 TTCT
3499527 TGTTGATTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 5 0.20
11 20 0.80
ACGTcount: A:0.08, C:0.19, G:0.08, T:0.64
Consensus pattern (11 bp):
TTCTCTTTTGA
Done.