Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 9 of 211
Found at i:3103313 original size:20 final size:20
Alignment explanation
Indices: 3103260--3103314 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 20
3103250 GTAATTATAT
* * *
3103260 GGATGAATTATTGTTGATAT
1 GGATAAATTACTGTTGATAC
* *
3103280 GTATAAGTTACTGTTGATAC
1 GGATAAATTACTGTTGATAC
*
3103300 GGATAAATTTCTGTT
1 GGATAAATTACTGTT
3103315 ATTACTGATG
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.29, C:0.05, G:0.22, T:0.44
Consensus pattern (20 bp):
GGATAAATTACTGTTGATAC
Found at i:3113214 original size:19 final size:19
Alignment explanation
Indices: 3113190--3113228 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
3113180 TTCGTCTATG
3113190 TAGGCATCTGTATCAGTTA
1 TAGGCATCTGTATCAGTTA
3113209 TAGGCATCTGTATCAGTTA
1 TAGGCATCTGTATCAGTTA
3113228 T
1 T
3113229 TAAAACTCGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (19 bp):
TAGGCATCTGTATCAGTTA
Found at i:3114621 original size:2 final size:2
Alignment explanation
Indices: 3114614--3114639 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3114604 ATAGATAGAT
3114614 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
3114640 GAAGTAATGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3122431 original size:12 final size:12
Alignment explanation
Indices: 3122399--3122437 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
3122389 CGTTTTAACC
3122399 TAAGTAATTAAT
1 TAAGTAATTAAT
*
3122411 TAATTAATTAAT
1 TAAGTAATTAAT
* *
3122423 TAAGAAATTCAT
1 TAAGTAATTAAT
3122435 TAA
1 TAA
3122438 AATTTTTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (12 bp):
TAAGTAATTAAT
Found at i:3125040 original size:20 final size:20
Alignment explanation
Indices: 3125009--3125053 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
3124999 TTAAAATTTC
*
3125009 TTTATATTTTTTT-TAGAT-T
1 TTTAAATTTTTTTATA-ATAT
3125028 TTTAAATTTTTTTATAATAT
1 TTTAAATTTTTTTATAATAT
3125048 TTTAAA
1 TTTAAA
3125054 AAATATAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTAAATTTTTTTATAATAT
Found at i:3126567 original size:24 final size:25
Alignment explanation
Indices: 3126517--3126567 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
3126507 CATATGTGCG
* * *
3126517 TTTACAATATTATATATGCATGCATT
1 TTTAAAATATTATAAATACAT-CATT
3126543 TTTAAAATATTATAAATACAT-ATT
1 TTTAAAATATTATAAATACATCATT
3126567 T
1 T
3126568 CATTTTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 4 0.18
26 18 0.82
ACGTcount: A:0.41, C:0.08, G:0.04, T:0.47
Consensus pattern (25 bp):
TTTAAAATATTATAAATACATCATT
Found at i:3129428 original size:4 final size:4
Alignment explanation
Indices: 3129412--3129446 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
3129402 GGTCCATAAC
*
3129412 ATGT ATGT GTGT ATGT ATGT ATGT ATGT ATGT ATG
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
3129447 ATGAAGTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.23, C:0.00, G:0.29, T:0.49
Consensus pattern (4 bp):
ATGT
Found at i:3130707 original size:183 final size:185
Alignment explanation
Indices: 3130513--3131010 Score: 732
Period size: 183 Copynumber: 2.6 Consensus size: 185
3130503 TCAAAGACAT
* * **
3130513 ATACATACATATATATATGCAAAATGATATTTAAGAAAAACCCAAAGAGGTGATTAATGTAAAAT
1 ATACATACATATATATATGCAAAATGATATTTAAGGAAAACCCAAAGAGCTGATTAATGTAAACC
*
3130578 TTAAGACAGATCACAAATATCACTTAATAACTAAGATGGCAGAAAGGAATATCAAAGTAAAAAGG
66 TTAAGACAGATCACAAATATCACTTAATAATTAAGATGGCAGAAAGGAATATCAAAGTAAAAAGG
*
3130643 GTCATCAATGGCTGTCATGCAATGTGAGGCACATATTAAGGACATACCTGC-AA-
131 GTCATCAATGGCTGTCATGCAATGTGAGGCAAATATTAAGGACATACCTGCAAAC
* *
3130696 ATACATACATATATATATGCAAAATGATATTTAAGGAAAACCCAAAGCGCTGGTTAATGTAAACC
1 ATACATACATATATATATGCAAAATGATATTTAAGGAAAACCCAAAGAGCTGATTAATGTAAACC
3130761 TTAAGACAGATCACAAATATCACTTAATAATTAAGATGGCAGAAAGGAATATCAAAGTAAAAAGG
66 TTAAGACAGATCACAAATATCACTTAATAATTAAGATGGCAGAAAGGAATATCAAAGTAAAAAGG
* *
3130826 GTTATCAATGGCTGTCATGCAATGTGAGGCAAATATTAAGGCCATACCTGCAAATGC
131 GTCATCAATGGCTGTCATGCAATGTGAGGCAAATATTAAGGACATACCTGCAAA--C
* *
3130883 ATACATATATATATGCAAATATATATGCAAAATGATATTTAAGGAAAACCCAAAGAGCTGGA-GA
1 ATAC------ATA--CATATATATATGCAAAATGATATTTAAGGAAAACCCAAAGAGCT-GATTA
* * * *
3130947 ATGTAAACCTTAAGACAGATCACAGATATCACTTAATAATTAAGATGGAAGCAAGGTATATCAA
57 ATGTAAACCTTAAGACAGATCACAAATATCACTTAATAATTAAGATGGCAGAAAGGAATATCAA
3131011 GTATCAATGG
Statistics
Matches: 284, Mismatches: 18, Indels: 14
0.90 0.06 0.04
Matches are distributed among these distances:
183 171 0.60
184 2 0.01
187 4 0.01
193 3 0.01
195 103 0.36
196 1 0.00
ACGTcount: A:0.45, C:0.14, G:0.17, T:0.24
Consensus pattern (185 bp):
ATACATACATATATATATGCAAAATGATATTTAAGGAAAACCCAAAGAGCTGATTAATGTAAACC
TTAAGACAGATCACAAATATCACTTAATAATTAAGATGGCAGAAAGGAATATCAAAGTAAAAAGG
GTCATCAATGGCTGTCATGCAATGTGAGGCAAATATTAAGGACATACCTGCAAAC
Found at i:3130920 original size:14 final size:12
Alignment explanation
Indices: 3130889--3130913 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3130879 ATGCATACAT
3130889 ATATATATGCAA
1 ATATATATGCAA
3130901 ATATATATGCAA
1 ATATATATGCAA
3130913 A
1 A
3130914 ATGATATTTA
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:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (12 bp):
ATATATATGCAA
Found at i:3131492 original size:3 final size:3
Alignment explanation
Indices: 3131484--3131527 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
3131474 GTTACACCTC
* * * *
3131484 CAT CAT CAT CAT CAT CAT CCT CAT CAT AAT CAT AAC CAT CAT CA
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
3131528 ACTATGGTGG
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.36, C:0.34, G:0.00, T:0.30
Consensus pattern (3 bp):
CAT
Found at i:3137568 original size:3 final size:3
Alignment explanation
Indices: 3137560--3137603 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
3137550 TAAAGTATGT
*
3137560 TTA TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
3137604 GTAAACAATC
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:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:3138605 original size:25 final size:26
Alignment explanation
Indices: 3138564--3138624 Score: 79
Period size: 25 Copynumber: 2.3 Consensus size: 26
3138554 TTTAAAATAC
* *
3138564 TTTTAAAATAATTTTTTTATTTTTTAT
1 TTTTAAAATAA-TTTTTTAATGTTTAT
3138591 TTTTAAAATAA-TTTTTAATGTTTAT
1 TTTTAAAATAATTTTTTAATGTTTAT
*
3138616 TTTAAAAAT
1 TTTTAAAAT
3138625 GGGCCGGGCC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
25 20 0.65
27 11 0.35
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (26 bp):
TTTTAAAATAATTTTTTAATGTTTAT
Found at i:3143784 original size:33 final size:33
Alignment explanation
Indices: 3143742--3143815 Score: 96
Period size: 33 Copynumber: 2.2 Consensus size: 33
3143732 ATGCCATTAA
** *
3143742 CAACCACCACTTACT-ACACCATCTTCTTCAACC
1 CAACCACCACTTA-TGACACCATCAACTCCAACC
*
3143775 CAACCACCACTTATGGCACCATCAACTCCAACC
1 CAACCACCACTTATGACACCATCAACTCCAACC
3143808 CAACCACC
1 CAACCACC
3143816 TTTTCCTCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
32 1 0.03
33 35 0.97
ACGTcount: A:0.32, C:0.47, G:0.03, T:0.18
Consensus pattern (33 bp):
CAACCACCACTTATGACACCATCAACTCCAACC
Found at i:3146354 original size:6 final size:6
Alignment explanation
Indices: 3146343--3146367 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
3146333 AATCAAAATT
3146343 ATTATA ATTATA ATTATA ATTATA A
1 ATTATA ATTATA ATTATA ATTATA A
3146368 AAATAATACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
ATTATA
Found at i:3152248 original size:31 final size:31
Alignment explanation
Indices: 3152213--3152280 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
3152203 TACAAAATGA
** *
3152213 TCACTAAACTATTTGAAAGCTTTCATTTAAG
1 TCACTAAACTATTCAAAAGCTTTCATTTAAC
* * *
3152244 TCACTAAATTATTCAAAAGTTTTTATTTAAC
1 TCACTAAACTATTCAAAAGCTTTCATTTAAC
3152275 TCACTA
1 TCACTA
3152281 GGTTGTTAAG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.37, C:0.16, G:0.06, T:0.41
Consensus pattern (31 bp):
TCACTAAACTATTCAAAAGCTTTCATTTAAC
Found at i:3153505 original size:9 final size:9
Alignment explanation
Indices: 3153487--3153534 Score: 60
Period size: 9 Copynumber: 5.3 Consensus size: 9
3153477 TAAATTTTAC
*
3153487 AATTTAAAT
1 AATTCAAAT
*
3153496 AATTCGAAT
1 AATTCAAAT
*
3153505 AACTCAAAT
1 AATTCAAAT
*
3153514 ACTTCAAAT
1 AATTCAAAT
3153523 AATTCAAAT
1 AATTCAAAT
3153532 AAT
1 AAT
3153535 AGATTGGTGT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.52, C:0.12, G:0.02, T:0.33
Consensus pattern (9 bp):
AATTCAAAT
Found at i:3154044 original size:21 final size:21
Alignment explanation
Indices: 3154015--3154056 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
3154005 AAACAATTCT
*
3154015 ATTTGATTTAACTTGACTCGA
1 ATTTCATTTAACTTGACTCGA
*
3154036 ATTTCATTTTACTTGACTCGA
1 ATTTCATTTAACTTGACTCGA
3154057 TTCGAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.17, G:0.12, T:0.45
Consensus pattern (21 bp):
ATTTCATTTAACTTGACTCGA
Found at i:3165827 original size:31 final size:31
Alignment explanation
Indices: 3165792--3165859 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
3165782 TACAAAATGA
** *
3165792 TCACTAAACTATTTGAAAGCTTTCATTTAAG
1 TCACTAAACTATTCAAAAGCTTTCATTTAAC
* * *
3165823 TCACTAAATTATTCAAAAGTTTTTATTTAAC
1 TCACTAAACTATTCAAAAGCTTTCATTTAAC
3165854 TCACTA
1 TCACTA
3165860 GGTTGTTAAG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.37, C:0.16, G:0.06, T:0.41
Consensus pattern (31 bp):
TCACTAAACTATTCAAAAGCTTTCATTTAAC
Found at i:3166477 original size:31 final size:32
Alignment explanation
Indices: 3166418--3166482 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
3166408 GGCAAATTAC
3166418 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
3166450 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
3166481 AA
1 AA
3166483 ATTATCTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:3169011 original size:14 final size:14
Alignment explanation
Indices: 3168994--3169023 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
3168984 GATTAACGCA
3168994 ATTCTAACATTAAT
1 ATTCTAACATTAAT
*
3169008 ATTCTAACGTTAAT
1 ATTCTAACATTAAT
3169022 AT
1 AT
3169024 ATATAGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.03, T:0.43
Consensus pattern (14 bp):
ATTCTAACATTAAT
Found at i:3175285 original size:11 final size:11
Alignment explanation
Indices: 3175251--3175320 Score: 68
Period size: 11 Copynumber: 6.4 Consensus size: 11
3175241 CTACTGTTAT
*
3175251 TTTTTTTACTA
1 TTTTGTTACTA
*
3175262 TTTTGTCACTA
1 TTTTGTTACTA
* *
3175273 TTTTTTTATTA
1 TTTTGTTACTA
*
3175284 TTTTGTTATTA
1 TTTTGTTACTA
* *
3175295 TTTCGTTATTA
1 TTTTGTTACTA
*
3175306 TATTGTTACTA
1 TTTTGTTACTA
3175317 TTTT
1 TTTT
3175321 ATTGTTATTA
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 48 1.00
ACGTcount: A:0.19, C:0.07, G:0.06, T:0.69
Consensus pattern (11 bp):
TTTTGTTACTA
Found at i:3175296 original size:22 final size:22
Alignment explanation
Indices: 3175251--3175329 Score: 86
Period size: 22 Copynumber: 3.6 Consensus size: 22
3175241 CTACTGTTAT
* *
3175251 TTTTTTTACTATTTTGTCACTA
1 TTTTTTTATTATTTTGTTACTA
*
3175273 TTTTTTTATTATTTTGTTATTA
1 TTTTTTTATTATTTTGTTACTA
** *
3175295 TTTCGTTATTATATTGTTACTA
1 TTTTTTTATTATTTTGTTACTA
* *
3175317 TTTTATTGTTATT
1 TTTTTTTATTATT
3175330 ATTTGGATAT
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.19, C:0.06, G:0.06, T:0.68
Consensus pattern (22 bp):
TTTTTTTATTATTTTGTTACTA
Found at i:3175333 original size:14 final size:14
Alignment explanation
Indices: 3175300--3175333 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
3175290 TATTATTTCG
*
3175300 TTATTATATTGTTA
1 TTATTTTATTGTTA
*
3175314 CTATTTTATTGTTA
1 TTATTTTATTGTTA
3175328 TTATTT
1 TTATTT
3175334 GGATATTATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.24, C:0.03, G:0.06, T:0.68
Consensus pattern (14 bp):
TTATTTTATTGTTA
Found at i:3175355 original size:36 final size:36
Alignment explanation
Indices: 3175275--3175359 Score: 100
Period size: 36 Copynumber: 2.4 Consensus size: 36
3175265 TGTCACTATT
* **
3175275 TTTTTATTATT-TTGTTATTATTTCGTTATTATATTG
1 TTTTTATT-TTATTGTTATTATTTCGATATTATATAA
** *
3175311 TTACTATTTTATTGTTATTATTTGGATATTATATAA
1 TTTTTATTTTATTGTTATTATTTCGATATTATATAA
3175347 TTTTTATTTTATT
1 TTTTTATTTTATT
3175360 ATTAATTTAG
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
35 2 0.05
36 38 0.95
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.67
Consensus pattern (36 bp):
TTTTTATTTTATTGTTATTATTTCGATATTATATAA
Found at i:3176386 original size:12 final size:11
Alignment explanation
Indices: 3176363--3176396 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 11
3176353 ATTTTAAAAA
3176363 TAAAAA-ATTT
1 TAAAAATATTT
3176373 TAAAAAGTATTT
1 TAAAAA-TATTT
3176385 TAAAAATATTT
1 TAAAAATATTT
3176396 T
1 T
3176397 TAAATTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 6 0.27
11 6 0.27
12 10 0.45
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (11 bp):
TAAAAATATTT
Found at i:3176696 original size:18 final size:18
Alignment explanation
Indices: 3176650--3176704 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 18
3176640 TTTAATGTAC
3176650 TGTGATTGTCAATCTATAAT
1 TGTGATTGT-AAT-TATAAT
*
3176670 T-TGCTTTGTAATTATAAT
1 TGTG-ATTGTAATTATAAT
*
3176688 TGTGATTGTAGTTATAA
1 TGTGATTGTAATTATAA
3176705 CAATACTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 18 0.60
19 7 0.23
20 5 0.17
ACGTcount: A:0.29, C:0.05, G:0.16, T:0.49
Consensus pattern (18 bp):
TGTGATTGTAATTATAAT
Found at i:3177855 original size:21 final size:21
Alignment explanation
Indices: 3177829--3177873 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
3177819 AATAAATACC
*
3177829 AAAAAATTATTTTAAAAATTAA
1 AAAAAAGTATTTT-AAAATTAA
3177851 AAAAAAGTATTTTAAAATTAA
1 AAAAAAGTATTTTAAAATTAA
3177872 AA
1 AA
3177874 TTTTTTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (21 bp):
AAAAAAGTATTTTAAAATTAA
Found at i:3177872 original size:28 final size:29
Alignment explanation
Indices: 3177840--3177896 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
3177830 AAAAATTATT
3177840 TTAAAA-ATTAAAAAAAAGTATTTTAAAA
1 TTAAAATATTAAAAAAAAGTATTTTAAAA
* ***
3177868 TTAAAATTTTTTTAAAAAGTATTTTAAAA
1 TTAAAATATTAAAAAAAAGTATTTTAAAA
3177897 ATATTTTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 6 0.25
29 18 0.75
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (29 bp):
TTAAAATATTAAAAAAAAGTATTTTAAAA
Found at i:3177882 original size:11 final size:11
Alignment explanation
Indices: 3177868--3177910 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
3177858 TATTTTAAAA
*
3177868 TTAAAATTTTT
1 TTAAAATTATT
*
3177879 TTAAAAAGTATT
1 TT-AAAATTATT
*
3177891 TTAAAAATATT
1 TTAAAATTATT
3177902 TTAAAATTA
1 TTAAAATTA
3177911 AAAAATAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 18 0.67
12 9 0.33
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (11 bp):
TTAAAATTATT
Found at i:3177885 original size:12 final size:11
Alignment explanation
Indices: 3177877--3177949 Score: 55
Period size: 12 Copynumber: 6.7 Consensus size: 11
3177867 ATTAAAATTT
3177877 TTTTAAAAAGTA
1 TTTTAAAAA-TA
3177889 TTTTAAAAATA
1 TTTTAAAAATA
3177900 TTTT--AAA-A
1 TTTTAAAAATA
*
3177908 -TTAAAAAATAA
1 TTTTAAAAAT-A
***
3177919 TAAAAAAAAGTA
1 TTTTAAAAA-TA
3177931 TTTTAAAAATA
1 TTTTAAAAATA
3177942 TTTTAAAA
1 TTTTAAAA
3177950 TTAAAAAAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
7 2 0.04
8 1 0.02
9 6 0.12
11 17 0.35
12 22 0.45
13 1 0.02
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (11 bp):
TTTTAAAAATA
Found at i:3177967 original size:18 final size:17
Alignment explanation
Indices: 3177933--3177966 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
3177923 AAAAAGTATT
*
3177933 TTAAAAATATTTTAAAA
1 TTAAAAAAATTTTAAAA
3177950 TTAAAAAAATTTTAAAA
1 TTAAAAAAATTTTAAAA
3177967 AATAAATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TTAAAAAAATTTTAAAA
Found at i:3177967 original size:42 final size:41
Alignment explanation
Indices: 3177852--3177968 Score: 155
Period size: 42 Copynumber: 2.8 Consensus size: 41
3177842 AAAAATTAAA
* **
3177852 AAAAAGTATTTTAAAATT-AAAATTTTTTTAAAAAGTATTTT
1 AAAAA-TATTTTAAAATTAAAAAATTTTAAAAAAAGTATTTT
* *
3177893 AAAAATATTTTAAAATTAAAAAATAATAAAAAAAAGTATTTT
1 AAAAATATTTTAAAATTAAAAAAT-TTTAAAAAAAGTATTTT
3177935 AAAAATATTTTAAAATTAAAAAAATTTTAAAAAA
1 AAAAATATTTTAAAATT-AAAAAATTTTAAAAAA
3177969 TAAATATATT
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
40 12 0.18
41 10 0.15
42 37 0.56
43 7 0.11
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (41 bp):
AAAAATATTTTAAAATTAAAAAATTTTAAAAAAAGTATTTT
Found at i:3177972 original size:18 final size:17
Alignment explanation
Indices: 3177934--3177972 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
3177924 AAAAGTATTT
* *
3177934 TAAAAATATTTTAAAAT
1 TAAAAAAATTTTAAAAA
3177951 TAAAAAAATTTTAAAAAA
1 TAAAAAAATTTT-AAAAA
3177969 TAAA
1 TAAA
3177973 TATATTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
TAAAAAAATTTTAAAAA
Found at i:3177979 original size:18 final size:17
Alignment explanation
Indices: 3177934--3177979 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
3177924 AAAAGTATTT
*
3177934 TAAAAATATTTTAAAAT
1 TAAAAATATTTTAAAAA
*
3177951 TAAAAAAATTTTAAAAAA
1 TAAAAATATTTT-AAAAA
*
3177969 TAAATATATTT
1 TAAAAATATTT
3177980 ATTATATCGG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TAAAAATATTTTAAAAA
Found at i:3181479 original size:6 final size:6
Alignment explanation
Indices: 3181470--3181504 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
3181460 ACATATAATA
* *
3181470 TGTATG TGTATG TGTATG TGTATA TGTACG TGTAT
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTAT
3181505 ATATATGAGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.20, C:0.03, G:0.29, T:0.49
Consensus pattern (6 bp):
TGTATG
Found at i:3181487 original size:12 final size:12
Alignment explanation
Indices: 3181467--3181511 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
3181457 TATACATATA
3181467 ATATGTATGTGT
1 ATATGTATGTGT
*
3181479 ATGTGTATGTGT
1 ATATGTATGTGT
*
3181491 ATATGTACGTGT
1 ATATGTATGTGT
*
3181503 ATATATATG
1 ATATGTATG
3181512 AGCATGAAGT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.27, C:0.02, G:0.24, T:0.47
Consensus pattern (12 bp):
ATATGTATGTGT
Found at i:3182598 original size:14 final size:16
Alignment explanation
Indices: 3182574--3182605 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
3182564 TGTGTCCCCT
3182574 TTTTTTAAATATT-TA
1 TTTTTTAAATATTATA
3182589 TTTTTT-AATATTATA
1 TTTTTTAAATATTATA
3182604 TT
1 TT
3182606 ATAACTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTTTAAATATTATA
Found at i:3183253 original size:4 final size:4
Alignment explanation
Indices: 3183246--3183284 Score: 78
Period size: 4 Copynumber: 9.8 Consensus size: 4
3183236 TTATACAAAA
3183246 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
3183285 AGTCACGTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (4 bp):
ATGT
Found at i:3185074 original size:4 final size:4
Alignment explanation
Indices: 3185065--3185099 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
3185055 TTAGTTCTTC
3185065 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
3185100 GTCTTATCTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (4 bp):
ATGT
Found at i:3187577 original size:91 final size:95
Alignment explanation
Indices: 3187439--3187632 Score: 236
Period size: 95 Copynumber: 2.0 Consensus size: 95
3187429 TATATAAAGT
3187439 AAAATATATTAAACATAATGATAAATATCAAATTTATATTTTTATTATATAA-T-TATTAATT-T
1 AAAATATATTAAACATAATGATAAATAT-AAA-TTATATTTTTATTATATAACTATATTAATTAT
*
3187501 ATTTATATAAATAAATAAAGGAATTATTAATTA
64 -TTTATATAAATAAATAAAAGAATTATTAATTA
* * * *
3187534 AAAATATTTTTAACATAATGATATATAT-AA-TATATTTTTATTATATAACTACATATTTATTAT
1 AAAATATATTAAACATAATGATAAATATAAATTATATTTTTATTATATAACT--ATATTAATTAT
* * *
3187597 TTTATTTATATAAATAAAAGAGTTATTAATTA
64 TTTATATAAATAAATAAAAGAATTATTAATTA
3187629 AAAA
1 AAAA
3187633 GATGAATTAA
Statistics
Matches: 86, Mismatches: 8, Indels: 10
0.83 0.08 0.10
Matches are distributed among these distances:
91 18 0.21
92 1 0.01
93 2 0.02
95 64 0.74
96 1 0.01
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (95 bp):
AAAATATATTAAACATAATGATAAATATAAATTATATTTTTATTATATAACTATATTAATTATTT
TATATAAATAAATAAAAGAATTATTAATTA
Found at i:3187594 original size:19 final size:18
Alignment explanation
Indices: 3187557--3187596 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
3187547 CATAATGATA
* *
3187557 TATATAATATATTTTTAT
1 TATATAATACATATTTAT
3187575 TATATAACTACATATTTAT
1 TATATAA-TACATATTTAT
3187594 TAT
1 TAT
3187597 TTTATTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (18 bp):
TATATAATACATATTTAT
Found at i:3195227 original size:20 final size:21
Alignment explanation
Indices: 3195202--3195266 Score: 71
Period size: 22 Copynumber: 3.1 Consensus size: 21
3195192 GACAAAAAAA
* *
3195202 TTACTGTTGTT-TGTTGTTGT
1 TTACTGCTGTTATGTCGTTGT
3195222 TTACTGCTGTTATGTCGTTGTT
1 TTACTGCTGTTATGTCGTTG-T
*
3195244 TTA-TCACTGTTATGTCGTTGT
1 TTACT-GCTGTTATGTCGTTGT
3195265 TT
1 TT
3195267 TATTACCATT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
20 10 0.26
21 11 0.28
22 18 0.46
ACGTcount: A:0.09, C:0.11, G:0.22, T:0.58
Consensus pattern (21 bp):
TTACTGCTGTTATGTCGTTGT
Found at i:3195253 original size:22 final size:22
Alignment explanation
Indices: 3195228--3195269 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
3195218 TTGTTTACTG
3195228 CTGTTATGTCGTTGTTTTATCA
1 CTGTTATGTCGTTGTTTTATCA
3195250 CTGTTATGTCGTTGTTTTAT
1 CTGTTATGTCGTTGTTTTAT
3195270 TACCATTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.12, C:0.12, G:0.19, T:0.57
Consensus pattern (22 bp):
CTGTTATGTCGTTGTTTTATCA
Found at i:3198614 original size:17 final size:17
Alignment explanation
Indices: 3198588--3198634 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
3198578 TCACGTCAAC
3198588 AAATAATTTAAAAATTA
1 AAATAATTTAAAAATTA
3198605 TAAA-AATTTAAAAATTA
1 -AAATAATTTAAAAATTA
*
3198622 AAATAATTCAAAA
1 AAATAATTTAAAA
3198635 TTCAAAAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 3 0.11
17 21 0.78
18 3 0.11
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (17 bp):
AAATAATTTAAAAATTA
Found at i:3198622 original size:7 final size:8
Alignment explanation
Indices: 3198592--3198624 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
3198582 GTCAACAAAT
3198592 AATTTAAA
1 AATTTAAA
3198600 AATTATAAA
1 AATT-TAAA
3198609 AATTTAAA
1 AATTTAAA
3198617 AA-TTAAA
1 AATTTAAA
3198624 A
1 A
3198625 TAATTCAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 6 0.25
8 10 0.42
9 8 0.33
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
AATTTAAA
Found at i:3200539 original size:28 final size:28
Alignment explanation
Indices: 3200490--3200546 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
3200480 TAGAATTGTG
3200490 ATTTCATTTGGCATTAAATAGTCATATC
1 ATTTCATTTGGCATTAAATAGTCATATC
* * * *
3200518 ATTTTATTTGGTATTCAGTAGTCATATC
1 ATTTCATTTGGCATTAAATAGTCATATC
3200546 A
1 A
3200547 AATCTTTTGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.46
Consensus pattern (28 bp):
ATTTCATTTGGCATTAAATAGTCATATC
Found at i:3201884 original size:98 final size:98
Alignment explanation
Indices: 3201715--3201909 Score: 354
Period size: 98 Copynumber: 2.0 Consensus size: 98
3201705 ATACAATAAA
*
3201715 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATC
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
*
3201780 CCTTTAGAATCTCAAACTCGGAATATTTCCTTT
66 CCTTTAGAATCTCAAACTCGAAATATTTCCTTT
* *
3201813 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
3201878 CCTTTAGAATCTCAAACTCGAAATATTTCCTT
66 CCTTTAGAATCTCAAACTCGAAATATTTCCTT
3201910 CATGATTTTT
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
CCTTTAGAATCTCAAACTCGAAATATTTCCTTT
Found at i:3202612 original size:24 final size:25
Alignment explanation
Indices: 3202583--3202630 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
3202573 ATATAAATAT
3202583 GAAAATATTC-ATTAAAAAATATAG
1 GAAAATATTCGATTAAAAAATATAG
* *
3202607 GAAAATATTCGTTTTAAAAATATA
1 GAAAATATTCGATTAAAAAATATA
3202631 TATATATACA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.54, C:0.04, G:0.08, T:0.33
Consensus pattern (25 bp):
GAAAATATTCGATTAAAAAATATAG
Found at i:3203419 original size:19 final size:19
Alignment explanation
Indices: 3203395--3203526 Score: 201
Period size: 19 Copynumber: 6.8 Consensus size: 19
3203385 AATCATATAT
*
3203395 TCTAAGATTGCATACCATA
1 TCTAAGATTGCATATCATA
**
3203414 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
3203433 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
3203452 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
*
3203473 TCTAAAATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
3203492 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
3203511 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
3203527 CTCAAAAATT
Statistics
Matches: 102, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
19 84 0.82
21 18 0.18
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:3203488 original size:59 final size:59
Alignment explanation
Indices: 3203388--3203525 Score: 203
Period size: 59 Copynumber: 2.4 Consensus size: 59
3203378 ATTACAAAAT
* *
3203388 CATAT-AT-TCTAAGATTGC--ATACCATATCTAAGATTATATATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCATATACCATATCTAAAATTACATATCATATCTAAGATTG
* * *
3203443 CATATCATATCTAAGATTGCATATATCATATCTAAAATTGCATATCATATCTAGGATTG
1 CATATCATATCTAAGATTGCATATACCATATCTAAAATTACATATCATATCTAAGATTG
3203502 CATATCATATCTAAGATTGCATAT
1 CATATCATATCTAAGATTGCATAT
3203526 CCTCAAAAAT
Statistics
Matches: 74, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
55 5 0.07
56 2 0.03
57 11 0.15
59 56 0.76
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (59 bp):
CATATCATATCTAAGATTGCATATACCATATCTAAAATTACATATCATATCTAAGATTG
Found at i:3203973 original size:89 final size:90
Alignment explanation
Indices: 3203702--3204214 Score: 270
Period size: 89 Copynumber: 5.9 Consensus size: 90
3203692 TGCCATCTTC
**
3203702 AGTCTGCCT-CACTGCAACTTCA-GGACGATAAGACTTGCTTAT-TT-AGTCTGCTTCACTGCAA
1 AGTCT-CCTCCACTGCAACTTCAGGGA-GATAAGACTTGC-TATCTTCAGTCTGCCCCACTGCAA
* * * *
3203763 CTTCAGG-GAGATAAGACTAG-ATGC-G
63 CTTCAGGAGAGATAAGACTTGCTTACTT
* * * * * * * * *
3203788 A-TCTGCT-CTCTGCAACTTCAGAGAGATAATATCTAAGGT-T-TT-AATCCGCTCCACTGCAAC
1 AGTCTCCTCCACTGCAACTTCAGGGAGATAAGA-CT-TGCTATCTTCAGTCTGCCCCACTGCAAC
* *
3203848 TTCAGG-GAGATAGGATTATCGGC-T--TT
64 TTCAGGAGAGATAAGACT-T--GCTTACTT
* * *
3203874 AATCTACTCCACTACAACTTCAGGGAGATAAGACTTGCTATCTTCAGTCTGCCCCACTGCAACTT
1 AGTCTCCTCCACTGCAACTTCAGGGAGATAAGACTTGCTATCTTCAGTCTGCCCCACTGCAACTT
3203939 CAGGAG-GATAAGACTTGCTTACTT
66 CAGGAGAGATAAGACTTGCTTACTT
* * * * *
3203963 AGTCTCCTCCACTGCAACTTCAGGGAGATAAGATTTG--A--TGC-GATCTG-CACTCTGTAACT
1 AGTCTCCTCCACTGCAACTTCAGGGAGATAAGACTTGCTATCTTCAG-TCTGCCCCACTGCAACT
* *
3204022 TCA-GAGAGATAAGATCTAAGGTT--TT
65 TCAGGAGAGATAAGA-CT-TGCTTACTT
* * * ** * * *
3204047 AATC-CGCTCCACTGCAACTTCAGGGAGATAGGA-TT-ATCGGCTTTAATCTGCTCCACTGCAAC
1 AGTCTC-CTCCACTGCAACTTCAGGGAGATAAGACTTGCT-ATCTTCAGTCTGCCCCACTGCAAC
*
3204109 TTCAGG-GAGATAAGACTTGC-CATCTT
64 TTCAGGAGAGATAAGACTTGCTTA-CTT
*
3204135 CAGTCTGCC-CCACTGCAACTTCA-GGACGATAAGACTTGCT-TACTT-AGTCTGCTCCACTGCA
1 -AGTCT-CCTCCACTGCAACTTCAGGGA-GATAAGACTTGCTAT-CTTCAGTCTGCCCCACTGCA
*
3204196 ACTTCAAG-GAGATAAGACT
62 ACTTCAGGAGAGATAAGACT
3204215 AGATGCGATC
Statistics
Matches: 333, Mismatches: 54, Indels: 77
0.72 0.12 0.17
Matches are distributed among these distances:
83 6 0.02
84 104 0.31
85 16 0.05
86 11 0.03
87 19 0.06
88 48 0.14
89 120 0.36
90 7 0.02
91 2 0.01
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (90 bp):
AGTCTCCTCCACTGCAACTTCAGGGAGATAAGACTTGCTATCTTCAGTCTGCCCCACTGCAACTT
CAGGAGAGATAAGACTTGCTTACTT
Found at i:3204024 original size:173 final size:173
Alignment explanation
Indices: 3203845--3204168 Score: 401
Period size: 173 Copynumber: 1.9 Consensus size: 173
3203835 GCTCCACTGC
* * * *
3203845 AACTTCAGGGAGATAGGAT-TATCGGCTTTAATCTACTCCACTACAACTTCAGGGAGATAAGACT
1 AACTTCAGAGAGATAAGATCTA-AGGCTTTAATCCACTCCACTACAACTTCAGGGAGATAAGA-T
* * * *
3203909 T-GCTATCTTCAGTCTGCCCCACTGCAACTTCA-GGAGGATAAGACTTG-CTTACTT-AGTCT-C
64 TATC-AGCTTCAATCTGCCCCACTGCAACTTCAGGGA-GATAAGACTTGCCAT-CTTCAGTCTGC
3203969 CTCCACTGCAACTTCAGGGA-GATAAGATTTGATGCGATCTGCACTCTGT
126 C-CCACTGCAACTTCA-GGACGATAAGATTTGATGCGATCTGCACTCTGT
* * * *
3204018 AACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTA
1 AACTTCAGAGAGATAAGATCTAAGGCTTTAATCCACTCCACTACAACTTCAGGGAGATAAGATTA
* * *
3204083 TCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTGCCCCAC
66 TCAGCTTCAATCTGCCCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTGCCCCAC
3204148 TGCAACTTCAGGACGATAAGA
131 TGCAACTTCAGGACGATAAGA
3204169 CTTGCTTACT
Statistics
Matches: 129, Mismatches: 15, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
172 42 0.33
173 83 0.64
174 4 0.03
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.27
Consensus pattern (173 bp):
AACTTCAGAGAGATAAGATCTAAGGCTTTAATCCACTCCACTACAACTTCAGGGAGATAAGATTA
TCAGCTTCAATCTGCCCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTGCCCCAC
TGCAACTTCAGGACGATAAGATTTGATGCGATCTGCACTCTGT
Found at i:3204283 original size:44 final size:44
Alignment explanation
Indices: 3203743--3204300 Score: 336
Period size: 44 Copynumber: 12.9 Consensus size: 44
3203733 GACTTGCTTA
* * *
3203743 TTTAGTCTGCTTCACTGCAACTTCAGGGAGATAAGA-CT-A-GA
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAAGGT
*** * * *
3203784 TGCGATCTGCT-CTCTGCAACTTCAGAGAGATAATATCTAAGGT
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAAGGT
* * * *
3203827 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGAT-TATCGGC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTA-AGGT
* * * *
3203871 TTTAATCTACTCCACTACAACTTCAGGGAGATAAGA-CT-TGCT
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAAGGT
* * * *
3203913 ATCTTCAGTCTGCCCCACTGCAACTTCA-GGAGGATAAGA-CT-TGCT
1 -T-TT-AATCTGCTCCACTGCAACTTCAGGGA-GATAAGATCTAAGGT
* * * *
3203958 TACTTAGTCTCCTCCACTGCAACTTCAGGGAGATAAGAT-T--TGA
1 T--TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAAGGT
*** * * * *
3204001 TGCGATCTGC-ACTCTGTAACTTCAGAGAGATAAGATCTAAGGT
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAAGGT
* * * *
3204044 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGAT-TATCGGC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTA-AGGT
* *
3204088 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-TGCCAT
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAAG--GT
* * * * *
3204132 CTTCAGTCTGCCCCACTGCAACTTCA-GGACGATAAGA-CT-TGCT
1 -TTTAATCTGCTCCACTGCAACTTCAGGGA-GATAAGATCTAAGGT
* * *
3204175 TACTTAGTCTGCTCCACTGCAACTTCAAGGAGATAAGA-CT-A-GA
1 T--TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAAGGT
*** * *
3204218 TGCGATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTAAGGT
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAAGGT
** *
3204261 TTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATCTA
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTA
3204301 CAATCTTCAA
Statistics
Matches: 401, Mismatches: 86, Indels: 57
0.74 0.16 0.10
Matches are distributed among these distances:
40 64 0.16
41 22 0.05
42 5 0.01
43 30 0.07
44 207 0.52
45 73 0.18
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (44 bp):
TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAAGGT
Found at i:3204335 original size:217 final size:217
Alignment explanation
Indices: 3203692--3204297 Score: 1077
Period size: 217 Copynumber: 2.8 Consensus size: 217
3203682 TAGGAATTAG
* * *
3203692 TGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGACGATAAGACTTGCTTATTTAGTCTGCTTCA
1 TGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGACGATAAGACTTGCTTACTTAGTCTGCTCCA
*
3203757 CTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAATATCT
66 CTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCT
3203822 AAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTACTCCACT
131 AAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTACTCCACT
*
3203887 ACAACTTCAGGGAGATAAGACT
196 GCAACTTCAGGGAGATAAGACT
* * *
3203909 TGCTATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTCCTCCA
1 TGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGACGATAAGACTTGCTTACTTAGTCTGCTCCA
* * * *
3203974 CTGCAACTTCAGGGAGATAAGATTTGATGCGATCTGCACTCTGTAACTTCAGAGAGATAAGATCT
66 CTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCT
*
3204039 AAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACT
131 AAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTACTCCACT
3204104 GCAACTTCAGGGAGATAAGACT
196 GCAACTTCAGGGAGATAAGACT
3204126 TGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGACGATAAGACTTGCTTACTTAGTCTGCTCCA
1 TGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGACGATAAGACTTGCTTACTTAGTCTGCTCCA
*
3204191 CTGCAACTTCAAGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCT
66 CTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCT
*
3204256 AAGGTTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGAT
131 AAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGAT
3204298 CTACAATCTT
Statistics
Matches: 367, Mismatches: 22, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
217 367 1.00
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.28
Consensus pattern (217 bp):
TGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGACGATAAGACTTGCTTACTTAGTCTGCTCCA
CTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCT
AAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTACTCCACT
GCAACTTCAGGGAGATAAGACT
Found at i:3204465 original size:132 final size:132
Alignment explanation
Indices: 3204285--3204540 Score: 442
Period size: 132 Copynumber: 1.9 Consensus size: 132
3204275 CTGCAACTTC
* *
3204285 AGGGAGATAGGATCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGGAGACAAGGCTTGGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGC
* *
3204350 TTAAAGCTGCTTCCCACTATCTTGGAAAGATAAGAT-CCGCCGTCTTCGATCTGCTCCACCACTG
66 TTAAAGCTGCTTCCCACTATCTTGGAAAGATAAG-TGCCACCGTCTTCAATCTGCTCCACCACTG
3204414 CTT
130 CTT
3204417 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGC
* *
3204482 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGTGTCACCGTCTTCAATCTGCTCCAC
66 TTAAAGCTGCTTCCCACTATCTTGGAAAGATAAGTGCCACCGTCTTCAATCTGCTCCAC
3204541 TGTCAATGCA
Statistics
Matches: 117, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
131 1 0.01
132 116 0.99
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (132 bp):
AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGC
TTAAAGCTGCTTCCCACTATCTTGGAAAGATAAGTGCCACCGTCTTCAATCTGCTCCACCACTGC
TT
Found at i:3205808 original size:24 final size:24
Alignment explanation
Indices: 3205781--3205835 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
3205771 TTTTCTTTTC
3205781 TTTTTTTCTTTCACTTTTTTTATT
1 TTTTTTTCTTTCACTTTTTTTATT
* *** *
3205805 TTTTTTTGTTTTTGTTTTTTTGTT
1 TTTTTTTCTTTCACTTTTTTTATT
3205829 TTTTTTT
1 TTTTTTT
3205836 AATCTGAACT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.04, C:0.05, G:0.05, T:0.85
Consensus pattern (24 bp):
TTTTTTTCTTTCACTTTTTTTATT
Found at i:3205824 original size:14 final size:13
Alignment explanation
Indices: 3205803--3205835 Score: 57
Period size: 14 Copynumber: 2.5 Consensus size: 13
3205793 ACTTTTTTTA
3205803 TTTTTTTTTGTTT
1 TTTTTTTTTGTTT
3205816 TTGTTTTTTTGTTT
1 TT-TTTTTTTGTTT
3205830 TTTTTT
1 TTTTTT
3205836 AATCTGAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (13 bp):
TTTTTTTTTGTTT
Found at i:3210492 original size:98 final size:98
Alignment explanation
Indices: 3210323--3210517 Score: 345
Period size: 98 Copynumber: 2.0 Consensus size: 98
3210313 ATACAATAAA
*
3210323 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATC
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
3210388 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
* * *
3210421 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACATCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
*
3210486 CCTTTAGAATCTCAAACTCGGAATATTTCCTT
66 CCTTTAGAATCCCAAACTCGGAATATTTCCTT
3210518 CATGATTTTT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.36, C:0.25, G:0.11, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
Found at i:3211216 original size:23 final size:24
Alignment explanation
Indices: 3211188--3211234 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
3211178 ATATAAATAT
3211188 GAAAATATTC-ATTAAAAATATAG
1 GAAAATATTCGATTAAAAATATAG
*
3211211 GAAAATATTCGTTTTAAAAATATA
1 GAAAATATTCG-ATTAAAAATATA
3211235 TATATACATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 10 0.48
25 11 0.52
ACGTcount: A:0.53, C:0.04, G:0.09, T:0.34
Consensus pattern (24 bp):
GAAAATATTCGATTAAAAATATAG
Found at i:3212005 original size:23 final size:22
Alignment explanation
Indices: 3211977--3212019 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
3211967 AAATTAAATC
3211977 TCTAAGATTACAAAATCATATAT
1 TCTAAGATTAC-AAATCATATAT
*
3212000 TCTAAGATTACATATCATAT
1 TCTAAGATTACAAATCATAT
3212020 CTAAGATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.44, C:0.14, G:0.05, T:0.37
Consensus pattern (22 bp):
TCTAAGATTACAAATCATATAT
Found at i:3212024 original size:19 final size:19
Alignment explanation
Indices: 3211977--3212112 Score: 137
Period size: 19 Copynumber: 6.8 Consensus size: 19
3211967 AAATTAAATC
*
3211977 TCTAAGATTACAAAATCATATA
1 TCTAAGATTAC-ATATC--ATA
3211999 TTCTAAGATTACATATCATA
1 -TCTAAGATTACATATCATA
* *
3212019 TCTAAGATTATATATAATA
1 TCTAAGATTACATATCATA
*
3212038 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
* *
3212059 TCTAAAATTGCATATCATA
1 TCTAAGATTACATATCATA
* *
3212078 TCTAGGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
3212097 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
3212113 CTCAGAAATT
Statistics
Matches: 101, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
19 66 0.65
20 3 0.03
21 17 0.17
22 4 0.04
23 11 0.11
ACGTcount: A:0.40, C:0.14, G:0.08, T:0.38
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:3212073 original size:59 final size:59
Alignment explanation
Indices: 3212000--3212111 Score: 170
Period size: 59 Copynumber: 1.9 Consensus size: 59
3211990 AATCATATAT
* *
3212000 TCTAAGATTACATATCATATCTAAGATTATATATAATATCTAAGATTGCATATATCATA
1 TCTAAAATTACATATCATATCTAAGATTACATATAATATCTAAGATTGCATATATCATA
* * * *
3212059 TCTAAAATTGCATATCATATCTAGGATTGCATATCATATCTAAGATTGCATAT
1 TCTAAAATTACATATCATATCTAAGATTACATATAATATCTAAGATTGCATAT
3212112 CCTCAGAAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
59 47 1.00
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.38
Consensus pattern (59 bp):
TCTAAAATTACATATCATATCTAAGATTACATATAATATCTAAGATTGCATATATCATA
Found at i:3212107 original size:38 final size:38
Alignment explanation
Indices: 3211993--3212112 Score: 154
Period size: 38 Copynumber: 3.2 Consensus size: 38
3211983 ATTACAAAAT
* *
3211993 CATAT-AT-TCTAAGATTACATATCATATCTAAGATTA
1 CATATCATATCTAAGATTGCATATCATATCTAAGATTG
* * *
3212029 TATATAATATCTAAGATTGCATATATCATATCTAAAATTG
1 CATATCATATCTAAGATTGC--ATATCATATCTAAGATTG
*
3212069 CATATCATATCTAGGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCATATCATATCTAAGATTG
3212107 CATATC
1 CATATC
3212113 CTCAGAAATT
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
36 4 0.06
37 2 0.03
38 33 0.46
40 33 0.46
ACGTcount: A:0.39, C:0.14, G:0.08, T:0.38
Consensus pattern (38 bp):
CATATCATATCTAAGATTGCATATCATATCTAAGATTG
Found at i:3225439 original size:22 final size:22
Alignment explanation
Indices: 3225398--3225439 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
3225388 TTCACTCAGT
*
3225398 CAGGCATCGGTGTCGTGACATC
1 CAGGCATCGGTGTCGCGACATC
* *
3225420 CAGGCTTCGGTGTTGCGACA
1 CAGGCATCGGTGTCGCGACA
3225440 CCCTCGACAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.17, C:0.26, G:0.33, T:0.24
Consensus pattern (22 bp):
CAGGCATCGGTGTCGCGACATC
Found at i:3228067 original size:14 final size:14
Alignment explanation
Indices: 3228044--3228078 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
3228034 TATAATATCC
*
3228044 AAATATTAACAACA
1 AAATAGTAACAACA
3228058 AAATAGTAACAACA
1 AAATAGTAACAACA
*
3228072 TAATAGT
1 AAATAGT
3228079 GAAATGATAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.60, C:0.11, G:0.06, T:0.23
Consensus pattern (14 bp):
AAATAGTAACAACA
Found at i:3232820 original size:23 final size:23
Alignment explanation
Indices: 3232794--3232887 Score: 125
Period size: 23 Copynumber: 4.1 Consensus size: 23
3232784 AATTTAGAAG
*
3232794 AGTGGAGAGACTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* * *
3232817 AGTGAAAAAACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAA
*
3232840 AGTGAAGAGACTTGAAGATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* *
3232863 AGTTAAGAGGCTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
3232886 AG
1 AG
3232888 ATACACACAT
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 60 1.00
ACGTcount: A:0.47, C:0.04, G:0.27, T:0.22
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:3237324 original size:23 final size:23
Alignment explanation
Indices: 3237298--3237391 Score: 125
Period size: 23 Copynumber: 4.1 Consensus size: 23
3237288 AAGTTAGAAG
3237298 AGTGAAGAGACTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* * * *
3237321 AGTGAAAAAACTTGAATATGGAT
1 AGTGAAGAGACTTGAATATGAAA
*
3237344 AGTGAAGAGACTTGAAGATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* *
3237367 AGTTAAGAGGCTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
3237390 AG
1 AG
3237392 ATACACACAT
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 59 1.00
ACGTcount: A:0.47, C:0.04, G:0.27, T:0.22
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:3238857 original size:27 final size:28
Alignment explanation
Indices: 3238813--3238868 Score: 80
Period size: 27 Copynumber: 2.0 Consensus size: 28
3238803 TATCGTTATA
3238813 AAAATAAAAATAATTATTTTATGA-AAAT
1 AAAATAAAAATAATTATTTTA-GATAAAT
*
3238841 AAAAT-AAACTAATTATTTTAGATAAAT
1 AAAATAAAAATAATTATTTTAGATAAAT
3238868 A
1 A
3238869 TTCAAATTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 2 0.08
27 19 0.73
28 5 0.19
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.36
Consensus pattern (28 bp):
AAAATAAAAATAATTATTTTAGATAAAT
Found at i:3244099 original size:18 final size:18
Alignment explanation
Indices: 3244073--3244133 Score: 61
Period size: 18 Copynumber: 3.2 Consensus size: 18
3244063 ATGTGATTTT
3244073 TTTTAACAAATTATTATA
1 TTTTAACAAATTATTATA
* *
3244091 TTTTCACAAACATGTGATT-TT
1 TTTTAAC-AA-AT-T-ATTATA
3244112 TTTTAACAAATTATTATA
1 TTTTAACAAATTATTATA
3244130 TTTT
1 TTTT
3244134 CACCCTTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
17 3 0.09
18 12 0.35
19 4 0.12
20 4 0.12
21 8 0.24
22 3 0.09
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.52
Consensus pattern (18 bp):
TTTTAACAAATTATTATA
Found at i:3244102 original size:39 final size:39
Alignment explanation
Indices: 3244059--3244136 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
3244049 ACGAAACATA
3244059 AAACATGTGATTTTTTTTAACAAATTATTATATTTTCAC
1 AAACATGTGATTTTTTTTAACAAATTATTATATTTTCAC
3244098 AAACATGTGATTTTTTTTAACAAATTATTATATTTTCAC
1 AAACATGTGATTTTTTTTAACAAATTATTATATTTTCAC
3244137 CCTTTTAGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.49
Consensus pattern (39 bp):
AAACATGTGATTTTTTTTAACAAATTATTATATTTTCAC
Found at i:3244341 original size:25 final size:25
Alignment explanation
Indices: 3244311--3244362 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
3244301 TTTTTAAATA
3244311 TTTAACATATATATT-AT-AATATATT
1 TTTAAC-TAT-TATTAATAAATATATT
*
3244336 TTTAACTATTTTTAATAAATATATT
1 TTTAACTATTATTAATAAATATATT
3244361 TT
1 TT
3244363 ATTACAGGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 3 0.12
24 5 0.21
25 16 0.67
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (25 bp):
TTTAACTATTATTAATAAATATATT
Found at i:3247028 original size:16 final size:16
Alignment explanation
Indices: 3246983--3247028 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
3246973 AATGTTTACA
3246983 TATATAA-ATTTAAAT
1 TATATAATATTTAAAT
*
3246998 TTTATGAAT-TTTAAAT
1 TATAT-AATATTTAAAT
*
3247014 TATATAATATATAAA
1 TATATAATATTTAAA
3247029 AATAAAAGCG
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
15 7 0.28
16 18 0.72
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (16 bp):
TATATAATATTTAAAT
Found at i:3248107 original size:60 final size:59
Alignment explanation
Indices: 3248003--3248167 Score: 199
Period size: 60 Copynumber: 2.8 Consensus size: 59
3247993 ACTACACTCC
* * * * *
3248003 TAGTCACCCAACTATTAGTAAATTTCTCTTTTAGTCATACAACTATGAAAAGTTACAAAA
1 TAGTCACCTAACTATTAGTAAATTTCTTTTTTGGTCA-CCAACTATAAAAAGTTACAAAA
* * *
3248063 TAGTCACCTAATTATTAGTAAATTTGTTTTTTGGTCACCTAACTATAAAAAGTTACAAAG
1 TAGTCACCTAACTATTAGTAAATTTCTTTTTTGGTCACC-AACTATAAAAAGTTACAAAA
*
3248123 T-GATAACCTAACTATTAGTAAA-TTCTTTTTTGGTCACCCAACTAT
1 TAG-TCACCTAACTATTAGTAAATTTCTTTTTTGGTCA-CCAACTAT
3248168 CTTGAAATTT
Statistics
Matches: 91, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
59 21 0.23
60 70 0.77
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.37
Consensus pattern (59 bp):
TAGTCACCTAACTATTAGTAAATTTCTTTTTTGGTCACCAACTATAAAAAGTTACAAAA
Found at i:3250552 original size:29 final size:29
Alignment explanation
Indices: 3250498--3250553 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
3250488 AAAAAAAAAG
* **
3250498 AAAAATTACGTGAGTAGATCGTTTTTTAA
1 AAAAATTACGAGAGTAGATCAATTTTTAA
*
3250527 AAAAATTACGAGATTAGATCAATTTTT
1 AAAAATTACGAGAGTAGATCAATTTTT
3250554 GAATGAAAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.41, C:0.07, G:0.14, T:0.38
Consensus pattern (29 bp):
AAAAATTACGAGAGTAGATCAATTTTTAA
Found at i:3251849 original size:13 final size:13
Alignment explanation
Indices: 3251831--3251868 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
3251821 TTTCATATAC
3251831 AAATATT-TTTTT
1 AAATATTATTTTT
3251843 GAAATATTATTTTT
1 -AAATATTATTTTT
*
3251857 AAATAATATTTT
1 AAATATTATTTT
3251869 AATCCTGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 18 0.78
14 5 0.22
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (13 bp):
AAATATTATTTTT
Found at i:3255681 original size:23 final size:22
Alignment explanation
Indices: 3255635--3255681 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
3255625 GATAAAAACT
*
3255635 AAACCCCAAAACTTGAAAATAA
1 AAACCCCAAAACTTGAAAACAA
3255657 AAACCCTCAAAACTT-AAATACAA
1 AAACCC-CAAAACTTGAAA-ACAA
3255680 AA
1 AA
3255682 TTCTCTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.60, C:0.23, G:0.02, T:0.15
Consensus pattern (22 bp):
AAACCCCAAAACTTGAAAACAA
Found at i:3263306 original size:84 final size:84
Alignment explanation
Indices: 3263164--3263323 Score: 207
Period size: 84 Copynumber: 1.9 Consensus size: 84
3263154 TCACTTTCAG
* * * *
3263164 CATAGGTAAGACAATGTCAGAGTTAATGTTAGAATCCAATTTCTGATAATCCTCTGACATACCTG
1 CATAGGTAAGACAATGTCAGAGATAAGGTCAGAATCCAATTTCGGATAATCCTCTGACATACCTG
*
3263229 CAATAACACAAATTTTTGC
66 CAACAACACAAATTTTTGC
* * *
3263248 CATAGGTAAGGCAATGTCAGAGATAAGGTCAGAATCCAATATT-GGATGATCC-CGTGACATACT
1 CATAGGTAAGACAATGTCAGAGATAAGGTCAGAATCCAAT-TTCGGATAATCCTC-TGACATACC
*
3263311 TGTAACAACACAA
64 TGCAACAACACAA
3263324 GTATGTGGAA
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
83 1 0.02
84 62 0.95
85 2 0.03
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (84 bp):
CATAGGTAAGACAATGTCAGAGATAAGGTCAGAATCCAATTTCGGATAATCCTCTGACATACCTG
CAACAACACAAATTTTTGC
Found at i:3263620 original size:27 final size:27
Alignment explanation
Indices: 3263582--3263635 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
3263572 TGGCTTGATC
3263582 TTCTATGAGGAAGTTCTAGAAATTCTA
1 TTCTATGAGGAAGTTCTAGAAATTCTA
3263609 TTCTATGAGGAAGTTCTAGAAATTCTA
1 TTCTATGAGGAAGTTCTAGAAATTCTA
3263636 ACTCATCTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (27 bp):
TTCTATGAGGAAGTTCTAGAAATTCTA
Found at i:3269665 original size:4 final size:4
Alignment explanation
Indices: 3269658--3269684 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
3269648 TAAAGAAAGA
3269658 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
3269685 AGGGAAATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:3282063 original size:49 final size:49
Alignment explanation
Indices: 3281991--3282089 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
3281981 AATGTTTAAG
3281991 TATGAATATTTTAATTACTATGTGTGGTAGATTTAAAAAAGATGATATA
1 TATGAATATTTTAATTACTATGTGTGGTAGATTTAAAAAAGATGATATA
3282040 TATGAATATTTTAATTACTATGTGTGGTAGATTTAAAAAAGATGATATA
1 TATGAATATTTTAATTACTATGTGTGGTAGATTTAAAAAAGATGATATA
3282089 T
1 T
3282090 TCAAAATTCG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.40, C:0.02, G:0.16, T:0.41
Consensus pattern (49 bp):
TATGAATATTTTAATTACTATGTGTGGTAGATTTAAAAAAGATGATATA
Found at i:3288127 original size:14 final size:14
Alignment explanation
Indices: 3288108--3288134 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
3288098 ATAGCCTCGT
3288108 GAAATAGAAGCTTG
1 GAAATAGAAGCTTG
3288122 GAAATAGAAGCTT
1 GAAATAGAAGCTT
3288135 TCAACTCCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.07, G:0.26, T:0.22
Consensus pattern (14 bp):
GAAATAGAAGCTTG
Found at i:3288986 original size:91 final size:91
Alignment explanation
Indices: 3288831--3289009 Score: 250
Period size: 91 Copynumber: 2.0 Consensus size: 91
3288821 CCCTCTAGTT
* ** *
3288831 TTGGAATCTCGATTTCAATTTATGAAAGAAAAAGGGGCAGCAAAGATGGTAAGTAAATATATACC
1 TTGGAATCTCGATTCCAATTTATGAAAGAAAAAGCAGCAGCAAAGATGGTAAGTAAATAGATACC
*
3288896 TTGAATAGAAATTTAGAAATTAAGGG
66 TTGAATAGAAATTGAGAAATTAAGGG
* * * * * *
3288922 TTGGACTCTTGATTCCAATTTATGGAAGAAAAAGCAGTAGCAAAGATGGTAAGTTAGTAGATACC
1 TTGGAATCTCGATTCCAATTTATGAAAGAAAAAGCAGCAGCAAAGATGGTAAGTAAATAGATACC
*
3288987 TTGAATAGAAATTGAGGAATTAA
66 TTGAATAGAAATTGAGAAATTAA
3289010 AGGAGCAAAA
Statistics
Matches: 76, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
91 76 1.00
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.28
Consensus pattern (91 bp):
TTGGAATCTCGATTCCAATTTATGAAAGAAAAAGCAGCAGCAAAGATGGTAAGTAAATAGATACC
TTGAATAGAAATTGAGAAATTAAGGG
Found at i:3293294 original size:21 final size:20
Alignment explanation
Indices: 3293249--3293292 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
3293239 TTTTTGAAAA
*
3293249 TTTTAAAAAATATTTTAAAT
1 TTTTGAAAAATATTTTAAAT
*
3293269 TTTTGAAAATTATTTTAAAT
1 TTTTGAAAAATATTTTAAAT
3293289 TTTT
1 TTTT
3293293 TGTTGTGAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
TTTTGAAAAATATTTTAAAT
Found at i:3293444 original size:28 final size:26
Alignment explanation
Indices: 3293396--3293447 Score: 77
Period size: 28 Copynumber: 1.9 Consensus size: 26
3293386 TTTATTTTAA
3293396 TTTAATTCATTTGTAAATAAATTATT
1 TTTAATTCATTTGTAAATAAATTATT
*
3293422 TTTATATTCAATTTGTAACTAAATTA
1 TTTA-ATTC-ATTTGTAAATAAATTA
3293448 AGAATAAGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 4 0.17
27 4 0.17
28 15 0.65
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (26 bp):
TTTAATTCATTTGTAAATAAATTATT
Found at i:3300342 original size:7 final size:7
Alignment explanation
Indices: 3300332--3300361 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
3300322 AAAATTATAA
3300332 AATTATT
1 AATTATT
3300339 AATTATT
1 AATTATT
3300346 AATTATT
1 AATTATT
3300353 AATTATT
1 AATTATT
3300360 AA
1 AA
3300362 AATAATATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (7 bp):
AATTATT
Found at i:3314356 original size:30 final size:30
Alignment explanation
Indices: 3314299--3314365 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 30
3314289 AATTAGTAAT
* * *
3314299 GATAAAA-TTATATTTTATTCTTAAAAAAG
1 GATAAAATTTATATTTAATCCTTAAAAAAA
* *
3314328 GATAAAATTTTTATTTAATCCTTTAAAAAA
1 GATAAAATTTATATTTAATCCTTAAAAAAA
*
3314358 TATAAAAT
1 GATAAAAT
3314366 AAGACTATTA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
29 7 0.23
30 24 0.77
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.42
Consensus pattern (30 bp):
GATAAAATTTATATTTAATCCTTAAAAAAA
Found at i:3314514 original size:21 final size:22
Alignment explanation
Indices: 3314467--3314520 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
3314457 CCTAAATTTT
*
3314467 AAATTTTGAAAAATAAATAAACT
1 AAATTTT-AAAAATAAATAAACA
3314490 AAATTTTAAAAATAAA-AATA-A
1 AAATTTTAAAAATAAATAA-ACA
3314511 AAATTTTAAA
1 AAATTTTAAA
3314521 TTTTAAATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 12 0.41
22 10 0.34
23 7 0.24
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (22 bp):
AAATTTTAAAAATAAATAAACA
Found at i:3314521 original size:7 final size:7
Alignment explanation
Indices: 3314511--3314541 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
3314501 ATAAAAATAA
3314511 AAATTTT
1 AAATTTT
3314518 AAATTTT
1 AAATTTT
3314525 AAATTTT
1 AAATTTT
3314532 AAATTTT
1 AAATTTT
3314539 AAA
1 AAA
3314542 GAGTATAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (7 bp):
AAATTTT
Found at i:3319137 original size:212 final size:210
Alignment explanation
Indices: 3318767--3319195 Score: 781
Period size: 212 Copynumber: 2.0 Consensus size: 210
3318757 CCTTTAACCA
*
3318767 AATGTCTTTTAAGCTAGATACATGTGCTTCATTTCAAACAAGTGGAATTGGTGTTCCCTTCTGAT
1 AATGTCTTTTAAGCTAGATACATGTGCTGCATTTCAAACAAGTGGAATTGGTGTTCCCTTCTGAT
3318832 TTCTTAGAATAAGAAAGGGTTTTCGATTTTGGGCTATAGTCTTAGGAAGAAAGCTGAGCATGCTT
66 TTCTTAGAATAAGAAAGGGTTTTCGATTTTGGGCTATAGTCTTAGGAAGAAAGCTGAGCATGCTT
*
3318897 GTTTTAGCCTCGTGAGTCTCAGTATCCACATCCGAAAGAAAATCAGTCCAGAGATCGATAAATTC
131 GTTTTAGCCTCGTGAATCTCAGTATCCACATCCGAAAGAAAATCAGTCCAGAG--CGATAAATTC
3318962 TACTAATGGTCCTCTCT
194 TACTAATGGTCCTCTCT
*
3318979 AATGTCTTTTAAGCTAGATACATGTGCTGCATTTCAAACAAGTGGAATTGGTGTTCCCTTTTGAT
1 AATGTCTTTTAAGCTAGATACATGTGCTGCATTTCAAACAAGTGGAATTGGTGTTCCCTTCTGAT
3319044 TTCTTAGAATAAGAAAGGGTTTTCTG-TTTTGGGCTATAGTCTTAGGAAGAAAGCTGAGCATGCT
66 TTCTTAGAATAAGAAAGGGTTTTC-GATTTTGGGCTATAGTCTTAGGAAGAAAGCTGAGCATGCT
3319108 TGTTTTAGCCTCGTGAATCTC-GCTATCCACATCCGAAAGAAAATCAGTCCAGAGCGATAAATTC
130 TGTTTTAGCCTCGTGAATCTCAG-TATCCACATCCGAAAGAAAATCAGTCCAGAGCGATAAATTC
3319172 TACTAATGGTCCTCTCT
194 TACTAATGGTCCTCTCT
3319189 AATGTCT
1 AATGTCT
3319196 CTGTTTCAGT
Statistics
Matches: 212, Mismatches: 3, Indels: 6
0.96 0.01 0.03
Matches are distributed among these distances:
210 34 0.16
211 1 0.00
212 176 0.83
213 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (210 bp):
AATGTCTTTTAAGCTAGATACATGTGCTGCATTTCAAACAAGTGGAATTGGTGTTCCCTTCTGAT
TTCTTAGAATAAGAAAGGGTTTTCGATTTTGGGCTATAGTCTTAGGAAGAAAGCTGAGCATGCTT
GTTTTAGCCTCGTGAATCTCAGTATCCACATCCGAAAGAAAATCAGTCCAGAGCGATAAATTCTA
CTAATGGTCCTCTCT
Found at i:3320173 original size:22 final size:23
Alignment explanation
Indices: 3320131--3320174 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
3320121 ATTTAATGTT
*
3320131 TAATTTGATACTTATATTTTTTC
1 TAATTTAATACTTATATTTTTTC
*
3320154 TAATTTAATATTTA-ATTTTTT
1 TAATTTAATACTTATATTTTTT
3320175 TTGTCTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.64
Consensus pattern (23 bp):
TAATTTAATACTTATATTTTTTC
Found at i:3345716 original size:14 final size:14
Alignment explanation
Indices: 3345668--3345719 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 14
3345658 AATAACAATC
3345668 CATTAGATTAAATT
1 CATTAGATTAAATT
*
3345682 CATTAAAATAATAATAATT
1 CATT-AGAT--T-A-AATT
3345701 CATTAGATTAAATT
1 CATTAGATTAAATT
3345715 CATTA
1 CATTA
3345720 AAAAAAGAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
14 13 0.42
15 4 0.13
16 1 0.03
17 1 0.03
18 4 0.13
19 8 0.26
ACGTcount: A:0.48, C:0.08, G:0.04, T:0.40
Consensus pattern (14 bp):
CATTAGATTAAATT
Found at i:3345758 original size:37 final size:36
Alignment explanation
Indices: 3345654--3345761 Score: 141
Period size: 33 Copynumber: 3.1 Consensus size: 36
3345644 AAACAGAAAG
3345654 AAAGAATAACAATCCATTAGATTAAATTCATT---A
1 AAAGAATAACAATCCATTAGATTAAATTCATTAAAA
* * *
3345687 AAATAATAATAATTCATTAGATTAAATTCATTAAAA
1 AAAGAATAACAATCCATTAGATTAAATTCATTAAAA
* *
3345723 AAAGAATAACAATCCATAAAGATTAAATTCGTTAAAA
1 AAAGAATAACAATCCAT-TAGATTAAATTCATTAAAA
3345760 AA
1 AA
3345762 TCGCAATGAA
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
33 29 0.46
36 15 0.24
37 19 0.30
ACGTcount: A:0.56, C:0.09, G:0.06, T:0.30
Consensus pattern (36 bp):
AAAGAATAACAATCCATTAGATTAAATTCATTAAAA
Found at i:3358490 original size:18 final size:17
Alignment explanation
Indices: 3358462--3358515 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
3358452 CATTTAAGAT
3358462 ATTTTATATTTATATAA
1 ATTTTATATTTATATAA
3358479 ATTTTGATATTT-TA-ATA
1 ATTTT-ATATTTATATA-A
3358496 A-TTTATATTATATATAA
1 ATTTTATATT-TATATAA
3358513 ATT
1 ATT
3358516 CTAACGTTGG
Statistics
Matches: 31, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
15 5 0.16
16 5 0.16
17 13 0.42
18 8 0.26
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (17 bp):
ATTTTATATTTATATAA
Found at i:3366669 original size:22 final size:22
Alignment explanation
Indices: 3366641--3366685 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
3366631 GATCCTTAAC
3366641 TTTGAAAGTAATTTAATGAAAT
1 TTTGAAAGTAATTTAATGAAAT
3366663 TTTGAAAGTAATTTAATGAAAT
1 TTTGAAAGTAATTTAATGAAAT
3366685 T
1 T
3366686 CAAGCTTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.42
Consensus pattern (22 bp):
TTTGAAAGTAATTTAATGAAAT
Found at i:3366918 original size:26 final size:28
Alignment explanation
Indices: 3366853--3366924 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
3366843 ATAAGAAAAT
* *
3366853 TTATTATTAAGAATTTTATGAAATTATATA
1 TTATTATT-A-AATTATATGAAATAATATA
*
3366883 TTATTATTAAATTATATGTAATAATA-A
1 TTATTATTAAATTATATGAAATAATATA
3366910 TTATT-TTAAATTATA
1 TTATTATTAAATTATA
3366925 CAAATTCATA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
26 10 0.26
27 6 0.15
28 14 0.36
29 1 0.03
30 8 0.21
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (28 bp):
TTATTATTAAATTATATGAAATAATATA
Found at i:3367073 original size:66 final size:63
Alignment explanation
Indices: 3367003--3367224 Score: 180
Period size: 66 Copynumber: 3.6 Consensus size: 63
3366993 AAATATATTT
*
3367003 AATATTAATTATTTCAAATTATCTTTTATATTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTAT-TTTTAAATTATCATATATTATGATTT-AGTAAATTCATATAA
3367068 G
63 G
* * * **
3367069 AATATTAATTATTAAGAATT-TTATTAAATTAT-ATAT-TT-T-AATTA-T-AA-T-ATAT-TT
1 AATATTAATTATTTA-AATTATTTTTAAATTATCATATATTATGATTTAGTAAATTCATATAAG
* * * *
3367123 AATAATAATTATATTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTCATATAA
1 AATATTAATTAT-TTAAATTAT-TTTTAAATTATCATATATTATGATTT-AGTAAATTCATATAA
3367188 G
63 G
* *
3367189 AATATTAATTATTAAGAATT-TTATTAAATTAT-ATAT
1 AATATTAATTATTTA-AATTATTTTTAAATTATCATAT
3367225 TTTAATTATA
Statistics
Matches: 120, Mismatches: 21, Indels: 33
0.69 0.12 0.19
Matches are distributed among these distances:
54 14 0.12
55 7 0.06
56 9 0.08
57 6 0.05
58 3 0.03
59 2 0.02
60 6 0.05
61 2 0.02
62 3 0.03
63 10 0.08
64 18 0.15
65 9 0.08
66 31 0.26
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.49
Consensus pattern (63 bp):
AATATTAATTATTTAAATTATTTTTAAATTATCATATATTATGATTTAGTAAATTCATATAAG
Found at i:3367089 original size:120 final size:120
Alignment explanation
Indices: 3366965--3367254 Score: 492
Period size: 120 Copynumber: 2.4 Consensus size: 120
3366955 AATTATTTTA
* * * *
3366965 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATATT-AAATTATATTT
* * *
3367029 TATATTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TACAGTATCATATATTATGATTTCAGTAAATTCATATAAGAATATTAATTATTAAG
*
3367085 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATATTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATATTAAATTATATTTT
3367150 ACAGTATCATATATTATGATTTCAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTCAGTAAATTCATATAAGAATATTAATTATTAAG
3367205 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTAT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTAT
3367255 GTTTAAATAT
Statistics
Matches: 161, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
120 159 0.99
121 2 0.01
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATATTAAATTATATTTT
ACAGTATCATATATTATGATTTCAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:3367125 original size:15 final size:15
Alignment explanation
Indices: 3367090--3367141 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
3367080 TTAAGAATTT
*
3367090 TATTAAATTAT-ATA
1 TATTTAATTATAATA
3367104 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
3367118 TATTTAATAATAAT-
1 TATTTAATTATAATA
3367132 TATATTAATT
1 TAT-TTAATT
3367142 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:3367240 original size:16 final size:16
Alignment explanation
Indices: 3367219--3367260 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
3367209 TTATTAAATT
*
3367219 ATATATTTTAATTATA
1 ATATATTTTAATAATA
3367235 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
3367250 AT-TATGTTTAA
1 ATATAT-TTTAA
3367261 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:3367245 original size:15 final size:15
Alignment explanation
Indices: 3367210--3367251 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
3367200 TTAAGAATTT
*
3367210 TATTAAATTAT-ATA
1 TATTTAATTATAATA
3367224 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
3367238 TATTTAATAATAAT
1 TATTTAATTATAAT
3367252 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:3377469 original size:30 final size:30
Alignment explanation
Indices: 3377420--3377510 Score: 119
Period size: 30 Copynumber: 3.0 Consensus size: 30
3377410 ATAAGTTTGT
* *
3377420 TTCTAATAATACTGCTTGTGATGAAAGAAA
1 TTCTGATAATATTGCTTGTGATGAAAGAAA
* * * *
3377450 TTTTGATAATATTGGTTGTGGTGAACGAAA
1 TTCTGATAATATTGCTTGTGATGAAAGAAA
*
3377480 TTCTGATAATATTACTTGTGATGAAAGAAA
1 TTCTGATAATATTGCTTGTGATGAAAGAAA
3377510 T
1 T
3377511 GAGAAACAAA
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.37
Consensus pattern (30 bp):
TTCTGATAATATTGCTTGTGATGAAAGAAA
Found at i:3381621 original size:85 final size:85
Alignment explanation
Indices: 3381515--3382096 Score: 299
Period size: 90 Copynumber: 6.6 Consensus size: 85
3381505 AATTGAGTCG
* * * *
3381515 TAATATTTTTTT-AGAATAATTAAAATAATTTCTATTTAATTT-ATTTCATT-TTCAGGATATTT
1 TAATATTTTTTTCAAAATAATTATAATAATTGCTATTT-ATTTCATTTCATTATT-AGGATACTT
* * * * **
3381577 GGGCTTGAGTCTGGTGTTGTAA
64 GGGATTGAGCCTAGTGCTACAA
* *
3381599 TAATATTTTTTTCAAAATAATTATAATAATTGCTATTTATTTCATTTCATTATTGGGGTACTTGG
1 TAATATTTTTTTCAAAATAATTATAATAATTGCTATTTATTTCATTTCATTATTAGGATACTTGG
3381664 GATTGAGCCTAGTGCTACAA
66 GATTGAGCCTAGTGCTACAA
* * **
3381684 TAATATTTTTTTTCGAAATAATTATAATAATTGC-ATTTTTTTCATTTCATTCCCGAGAGTCGGG
1 TAATA-TTTTTTTCAAAATAATTATAATAATTGCTATTTATTTCATTTCATT------A-TTAGG
* * * *
3381748 ACACTTGGGCTTGAGTCTAGTGCTGCAA
58 ATACTTGGGATTGAGCCTAGTGCTACAA
* * *
3381776 TAATATTTTTTTTTAATTTTCAAAATACTTATACTATATAT--TATTTATTTCATTTCATTATCA
1 TAATA------TTT--TTTTCAAAATAATTATAATA-AT-TGCTATTTATTTCATTTCATTATTA
** * * * *
3381839 GGGCACTTGAGCTTGAGACTCGTGCTACAA
56 GGATACTTGGGATTGAGCCTAGTGCTACAA
* * * * ** *
3381869 TATATTTTTTTATTTTCCAAAATAACTACAATAATTGCTATTTGTTTCATTTCATTCCT-GAGAC
1 TA-A--TATTT-TTTT-CAAAATAATTATAATAATTGCTATTTATTTCATTTCATTATTAG-GAT
* * * * * *
3381933 ACTTAGGTTTGAGGCTGGTGTTGCAA
60 ACTTGGGATTGAGCCTAGTGCTACAA
** *
3381959 TAATATTTTTTTATTTTCTGGAATAATTATAATAATTGCTATTTATTTCACTTCATTCA-TAGG-
1 TAATA----TTT-TTTTC-AAAATAATTATAATAATTGCTATTTATTTCATTTCATT-ATTAGGA
* * * *
3382022 CACTT-GGACTTGAGCCTAGAGCTGCAG
59 TACTTGGGA-TTGAGCCTAGTGCTACAA
* * *
3382049 T-A-ATTTTTTT-GAAATAATTAAAATAATTGTTATTTATTTCATTTCATT
1 TAATATTTTTTTCAAAATAATTATAATAATTGCTATTTATTTCATTTCATT
3382097 TTTGAGGCAC
Statistics
Matches: 397, Mismatches: 65, Indels: 75
0.74 0.12 0.14
Matches are distributed among these distances:
81 34 0.09
83 4 0.01
84 19 0.05
85 73 0.18
86 29 0.07
87 1 0.00
88 2 0.01
89 12 0.03
90 75 0.19
91 43 0.11
92 33 0.08
93 29 0.07
94 2 0.01
96 1 0.00
97 4 0.01
99 17 0.04
100 18 0.05
101 1 0.00
ACGTcount: A:0.29, C:0.12, G:0.13, T:0.46
Consensus pattern (85 bp):
TAATATTTTTTTCAAAATAATTATAATAATTGCTATTTATTTCATTTCATTATTAGGATACTTGG
GATTGAGCCTAGTGCTACAA
Found at i:3382001 original size:91 final size:90
Alignment explanation
Indices: 3381529--3382368 Score: 492
Period size: 91 Copynumber: 9.4 Consensus size: 90
3381519 ATTTTTTTAG
* * * * * * *
3381529 AATAATTAAAATAATTTCTATTTAATTT-ATTTCATT-TTCAGGATATTTGGGCTTGAGTCTGGT
1 AATAATTATAATAATTGCTATTT-ATTTCATTTCATTCATGAGG-CACTT-GGCTTGAGGCTGGT
* *
3381592 GTTGTAATAATA----TTT-TTTTC-AA
63 GTTGCAATAATATTTTTTTATTTTCTGA
* * * * *
3381614 AATAATTATAATAATTGCTATTTATTTCATTTCATT-ATTGGGGTACTTGGGATTGAGCCTAGTG
1 AATAATTATAATAATTGCTATTTATTTCATTTCATTCA-TGAGGCACTT-GGCTTGAGGCTGGTG
* *
3381678 CTACAATAATA---TTTT-TTTTC-GA
64 TTGCAATAATATTTTTTTATTTTCTGA
*
3381700 AATAATTATAATAATTGC-ATTTTTTTCATTTCATTCCCGA-GAGTCGGGACACTTGGGCTTGAG
1 AATAATTATAATAATTGCTATTTATTTCATTTCATT--C-ATGA----GG-CACTT-GGCTTGAG
* * * *
3381763 TCTAGTGCTGCAATAATATTTTTTTTTAATTTTC-AA
57 GCTGGTGTTGCAATAATA--TTTTTTT-ATTTTCTGA
* * * * *
3381799 AATACTTATACTATATAT--TATTTATTTCATTTCATT-ATCAGGGCACTTGAGCTTGAGACTCG
1 AATAATTATAATA-AT-TGCTATTTATTTCATTTCATTCATGA-GGCACTTG-GCTTGAGGCTGG
* * **
3381861 TGCTACAAT-ATATTTTTTTATTTTCCAA
62 TGTTGCAATAATATTTTTTTATTTTCTGA
* * * * * *
3381889 AATAACTACAATAATTGCTATTTGTTTCATTTCATTCCTGAGACACTTAGGTTTGAGGCTGGTGT
1 AATAATTATAATAATTGCTATTTATTTCATTTCATTCATGAGGCACTT-GGCTTGAGGCTGGTGT
*
3381954 TGCAATAATATTTTTTTATTTTCTGG
65 TGCAATAATATTTTTTTATTTTCTGA
* * * * *
3381980 AATAATTATAATAATTGCTATTTATTTCACTTCATTCAT-AGGCACTTGGACTTGAGCCTAGAGC
1 AATAATTATAATAATTGCTATTTATTTCATTTCATTCATGAGGCACTTGG-CTTGAGGCTGGTGT
*
3382044 TGCAGT-A-A-----TT-TTTT-TGA
65 TGCAATAATATTTTTTTATTTTCTGA
* * ** * *
3382061 AATAATTAAAATAATTGTTATTTATTTCATTTCATTTTTGAGGCACTTGAGTTTGAGTCTGGTGT
1 AATAATTATAATAATTGCTATTTATTTCATTTCATTCATGAGGCACTTG-GCTTGAGGCTGGTGT
* *
3382126 TGAAAATAATATTTTTTTA-ATTCTTG-
65 TG-CAATAATATTTTTTTATTTTC-TGA
* * * * * * **
3382152 GATAACTATAATAATTGTTATTTATTTCATTTTATTCATGGGGCACTTGGGCTTGAAGAAGGTGT
1 AATAATTATAATAATTGCTATTTATTTCATTTCATTCATGAGGCACTT-GGCTTGAGGCTGGTGT
** *
3382217 TGTGATAATATTTTTTTTATTTTTTGA
65 TGCAATAATA-TTTTTTTATTTTCTGA
** *
3382244 AATAATTATAATAATTGCTATTTATTTCATTTCATT--TCG-GTGCACTTGGGCTTGAGTTTGAT
1 AATAATTATAATAATTGCTATTTATTTCATTTCATTCAT-GAG-GCACTT-GGCTTGAGGCTGGT
* * * *
3382306 GCTACAATAATTATTTTTTCTATTTTTTAAA
63 GTTGCAATAA-TATTTTTT-TATTTTCT-GA
*
3382337 AATAATTATAATAATTTCTATTTATTTCATTT
1 AATAATTATAATAATTGCTATTTATTTCATTT
3382369 TATTTCGGGG
Statistics
Matches: 602, Mismatches: 100, Indels: 98
0.75 0.12 0.12
Matches are distributed among these distances:
81 36 0.06
82 24 0.04
83 5 0.01
84 5 0.01
85 71 0.12
86 30 0.05
87 1 0.00
88 2 0.00
89 12 0.02
90 90 0.15
91 147 0.24
92 79 0.13
93 55 0.09
94 3 0.00
96 1 0.00
97 5 0.01
99 17 0.03
100 18 0.03
101 1 0.00
ACGTcount: A:0.29, C:0.11, G:0.14, T:0.47
Consensus pattern (90 bp):
AATAATTATAATAATTGCTATTTATTTCATTTCATTCATGAGGCACTTGGCTTGAGGCTGGTGTT
GCAATAATATTTTTTTATTTTCTGA
Found at i:3382117 original size:172 final size:173
Alignment explanation
Indices: 3381888--3382207 Score: 441
Period size: 172 Copynumber: 1.9 Consensus size: 173
3381878 TTATTTTCCA
* *
3381888 AAATAACTACAATAATTGCTATTTGTTTCATTTCATTCCTGAGACACTTAGGTTTGAGGCTGGTG
1 AAATAACTAAAATAATTGCTATTTATTTCATTTCATTCCTGAGACACTTAGGTTTGAGGCTGGTG
* * *
3381953 TTG-CAATAATATTTTTTT-ATTTTCTGGAATAATTATAATAATTGCTATTTATTTCACTTCATT
66 TTGAAAATAATATTTTTTTAATTCT-TGG-ATAACTATAATAATTGCTATTTATTTCACTTCATT
3382016 CAT-AGGCACTTGGACTTGAGCCTAGAGCTGCAGTAATTTTTTTG
129 CATGAGGCACTTGGACTTGAGCCTAGAGCTGCAGTAATTTTTTTG
* * ** * *
3382060 AAATAATTAAAATAATTGTTATTTATTTCATTTCATTTTTGAGGCACTT-GAGTTTGAGTCTGGT
1 AAATAACTAAAATAATTGCTATTTATTTCATTTCATTCCTGAGACACTTAG-GTTTGAGGCTGGT
* * *
3382124 GTTGAAAATAATATTTTTTTAATTCTTGGATAACTATAATAATTGTTATTTATTTCATTTTATTC
65 GTTGAAAATAATATTTTTTTAATTCTTGGATAACTATAATAATTGCTATTTATTTCACTTCATTC
* *
3382189 ATGGGGCACTTGGGCTTGA
130 ATGAGGCACTTGGACTTGA
3382208 AGAAGGTGTT
Statistics
Matches: 128, Mismatches: 16, Indels: 7
0.85 0.11 0.05
Matches are distributed among these distances:
171 1 0.01
172 92 0.72
173 31 0.24
174 4 0.03
ACGTcount: A:0.28, C:0.11, G:0.16, T:0.45
Consensus pattern (173 bp):
AAATAACTAAAATAATTGCTATTTATTTCATTTCATTCCTGAGACACTTAGGTTTGAGGCTGGTG
TTGAAAATAATATTTTTTTAATTCTTGGATAACTATAATAATTGCTATTTATTTCACTTCATTCA
TGAGGCACTTGGACTTGAGCCTAGAGCTGCAGTAATTTTTTTG
Found at i:3382402 original size:183 final size:181
Alignment explanation
Indices: 3382053--3382437 Score: 424
Period size: 183 Copynumber: 2.1 Consensus size: 181
3382043 CTGCAGTAAT
* * * *
3382053 TTTTTTGAAATAATTAAAATAATTGTTATTTATTTCATTTCATTTTTGAGGCACTTGAGTTTGAG
1 TTTTTTGAAATAATTATAATAATTGCTATTTATTTCATTTCATTTTCGAGGCACTTGAGCTTGAG
* * **
3382118 TCTGGTGTTGAAAATAATATTTTTTTAATTCTTGGATAACTATAATAATTGTTATTTATTTCATT
66 TCTGATGCTGAAAATAATATTTTTTTAATTCTTAAATAACTATAATAATTGTTATTTATTTCATT
* * *
3382183 TTATTCATGGGGCACTTGGGCTTGAAGAAGGTGTTGTGATAATATTTTTTTTA
131 TTATTCA-GGGGCACTTGAGCTTGAAGAAGGTGTTGTGACAATA-TATTTTTA
*
3382236 TTTTTTGAAATAATTATAATAATTGCTATTTATTTCATTTCA-TTTCG-GTGCACTTGGGCTTGA
1 TTTTTTGAAATAATTATAATAATTGCTATTTATTTCATTTCATTTTCGAG-GCACTTGAGCTTGA
* * * * *
3382299 GTTTGATGCT-ACAATAATTATTTTTTCTATTTTTTAAAAATAATTATAATAATT-TCTATTTAT
65 GTCTGATGCTGAAAATAA-TATTTTTT-TAATTCTT--AAATAACTATAATAATTGT-TATTTAT
* * ***
3382362 TTCATTTTATTTC-GGGGCATTTGAG-TTTAAGTCTGTGTTGTGACAATATATTTTTA
125 TTCATTTTA-TTCAGGGGCACTTGAGCTTGAAGAAGGTGTTGTGACAATATATTTTTA
*
3382418 -TTTTTAAGAATAATTATAAT
1 TTTTTTGA-AATAATTATAAT
3382438 TTATTTCATT
Statistics
Matches: 171, Mismatches: 23, Indels: 17
0.81 0.11 0.08
Matches are distributed among these distances:
181 13 0.08
182 50 0.29
183 64 0.37
184 11 0.06
185 30 0.18
186 3 0.02
ACGTcount: A:0.29, C:0.07, G:0.14, T:0.50
Consensus pattern (181 bp):
TTTTTTGAAATAATTATAATAATTGCTATTTATTTCATTTCATTTTCGAGGCACTTGAGCTTGAG
TCTGATGCTGAAAATAATATTTTTTTAATTCTTAAATAACTATAATAATTGTTATTTATTTCATT
TTATTCAGGGGCACTTGAGCTTGAAGAAGGTGTTGTGACAATATATTTTTA
Found at i:3382414 original size:93 final size:93
Alignment explanation
Indices: 3382053--3382437 Score: 325
Period size: 91 Copynumber: 4.2 Consensus size: 93
3382043 CTGCAGTAAT
* * * * *
3382053 TTTTTTGAAATAATTAAAATAATTGTTATTTATTTCATTTCATTTTTGAGGCACTTGAGTTTGAG
1 TTTTTTAAAATAATTATAATAATTGTTATTTATTTCATTTCA-TTTCGGGGCACTTGAGTTTAAG
* *
3382118 TCTG-G-TGTTGAAAATAATATTTTTTTA
65 TCTGTGTTGCTGACAATAATATTTTTTTA
* * ** * * * *
3382145 ATTCTT-GGATAACTATAATAATTGTTATTTATTTCATTTTA-TTCATGGGGCACTTGGGCTTGA
1 TTTTTTAAAATAATTATAATAATTGTTATTTATTTCATTTCATTTC--GGGGCACTTGAG-TTTA
*** *
3382208 AGAAGGTGTTG-TGATAAT-AT-TTTTTTTA
63 AGTCTGTGTTGCTGACAATAATATTTTTTTA
* * * * * *
3382236 TTTTTTGAAATAATTATAATAATTGCTATTTATTTCATTTCATTTCGGTGCACTTGGGCTTGAGT
1 TTTTTTAAAATAATTATAATAATTGTTATTTATTTCATTTCATTTCGGGGCACTTGAGTTTAAGT
*
3382301 -T-TGATGCT-ACAATAATTATTTTTTCTA
66 CTGTGTTGCTGACAATAA-TATTTTTT-TA
* *
3382328 TTTTTTAAAAATAATTATAATAATT-TCTATTTATTTCATTTTATTTCGGGGCATTTGAGTTTAA
1 TTTTTT-AAAATAATTATAATAATTGT-TATTTATTTCATTTCATTTCGGGGCACTTGAGTTTAA
3382392 GTCTGTGTTG-TGACAAT-ATA--TTTTTA
64 GTCTGTGTTGCTGACAATAATATTTTTTTA
3382418 -TTTTTAAGAATAATTATAAT
1 TTTTTTAA-AATAATTATAAT
3382438 TTATTTCATT
Statistics
Matches: 235, Mismatches: 40, Indels: 39
0.75 0.13 0.12
Matches are distributed among these distances:
88 10 0.04
89 21 0.09
90 6 0.03
91 73 0.31
92 49 0.21
93 62 0.26
94 5 0.02
95 9 0.04
ACGTcount: A:0.29, C:0.07, G:0.14, T:0.50
Consensus pattern (93 bp):
TTTTTTAAAATAATTATAATAATTGTTATTTATTTCATTTCATTTCGGGGCACTTGAGTTTAAGT
CTGTGTTGCTGACAATAATATTTTTTTA
Found at i:3382588 original size:88 final size:88
Alignment explanation
Indices: 3382463--3382708 Score: 273
Period size: 88 Copynumber: 2.8 Consensus size: 88
3382453 CAAGGAGCAC
* *
3382463 CTGGATGCTGC-AATATTTTTTTACTTTTC-AAAATAATTATAACAATTGCTATACATTTCATTT
1 CTGG-TGCTGCAAATATTTTTTTA-TTTTCTAGAATAATTATAATAATTGCTATACATTTCATTT
** * *
3382526 AATTCCCTGGTATTTGGGATTGAGT
64 AATTCCCAAGCATTTGGGATTGAAT
* * * **
3382551 CTGGTGCTGCAAATTTTTTTTTATTGTCTAGAATAATTATAATATTTGCTATATGTTTCATTTAA
1 CTGGTGCTGCAAATATTTTTTTATTTTCTAGAATAATTATAATAATTGCTATACATTTCATTTAA
* *
3382616 TTCTCAAGCATTTGGGCTTGAAT
66 TTCCCAAGCATTTGGGATTGAAT
* * * *
3382639 CTGGTGCTGCAATAATATTTTGTTATTTTCTAGAATAATTAAAATAATTGCAATTCA-TTCATTT
1 CTGGTGCTGC-A-AATATTTTTTTATTTTCTAGAATAATTATAATAATTGCTATACATTTCATTT
*
3382703 CATTCC
64 AATTCC
3382709 AGGGGCACTT
Statistics
Matches: 130, Mismatches: 24, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
87 10 0.08
88 73 0.56
89 12 0.09
90 35 0.27
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.46
Consensus pattern (88 bp):
CTGGTGCTGCAAATATTTTTTTATTTTCTAGAATAATTATAATAATTGCTATACATTTCATTTAA
TTCCCAAGCATTTGGGATTGAAT
Found at i:3382726 original size:90 final size:90
Alignment explanation
Indices: 3382545--3382743 Score: 208
Period size: 90 Copynumber: 2.2 Consensus size: 90
3382535 GTATTTGGGA
* * * * * **
3382545 TTGAGTCTGGTGCTGC-A-AATTTTTTTTTATTGTCTAGAATAATTATAATATTTGCTATATGTT
1 TTGAGTCTGGTGCTGCAATAATATTTTGTTATTGTCTAGAATAATTAAAATAATTGCAATATCAT
* **
3382608 TCATTTAATTCTCAAGCATTTGGGC
66 TCATTTAATTCTCAAGCACTTGAAC
* *
3382633 TTGAATCTGGTGCTGCAATAATATTTTGTTATTTTCTAGAATAATTAAAATAATTGCAAT-TCAT
1 TTGAGTCTGGTGCTGCAATAATATTTTGTTATTGTCTAGAATAATTAAAATAATTGCAATATCAT
* *
3382697 TCATTTCATTC-CAGGGGCACTTGAAC
66 TCATTTAATTCTCA--AGCACTTGAAC
* *
3382723 TTGAGTCTTGTGCTACAATAA
1 TTGAGTCTGGTGCTGCAATAA
3382744 AGTTATTTAA
Statistics
Matches: 90, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
88 17 0.19
89 13 0.14
90 60 0.67
ACGTcount: A:0.28, C:0.13, G:0.16, T:0.43
Consensus pattern (90 bp):
TTGAGTCTGGTGCTGCAATAATATTTTGTTATTGTCTAGAATAATTAAAATAATTGCAATATCAT
TCATTTAATTCTCAAGCACTTGAAC
Found at i:3383114 original size:90 final size:88
Alignment explanation
Indices: 3382875--3384107 Score: 556
Period size: 90 Copynumber: 13.7 Consensus size: 88
3382865 ATAAGAATTA
* * * * *
3382875 CAATAAATTTTTTA-ACTTCAGGAATAATTATAAGAATTGCTATTTAATTT-TTTTCATT-TCCG
1 CAATAATTTTTTTATATTTCA-AAATAATTATAATAATTGCTATTT-ATTTCATTTCATTCTCCG
** * *
3382937 AGGTACTTGGGCTTGAGTTTAGTGCACTG
64 -GACACTTGGG-TTGAGTCTGGTG--CTG
* *
3382966 CAATTACATTTTTTT-TATTTTCCAAAATAGTTATAATAATTGCTATTTATTTAATTTCATTCTC
1 CAA-TA-ATTTTTTTATA-TTT-CAAAATAATTATAATAATTGCTATTTATTTCATTTCATTCTC
*
3383030 CGGACATTTGGGATTGAGTCTGGTGCTG
62 CGGACACTTGGG-TTGAGTCTGGTGCTG
* * * * * *
3383058 CAATAATCTTTTTTATATTTCGAAATCATTATAATAATTGC-AGCTTATTTCTTTTCATTTTCGG
1 CAATAAT-TTTTTTATATTTCAAAATAATTATAATAATTGCTA-TTTATTTCATTTCATTCTCCG
* *
3383122 GACACTTGAGTTTGAGTCTAGTGCTG
64 GACACTTG-GGTTGAGTCTGGTGCTG
* * * *
3383148 CAATAAATTTTTTTATTTTTCAAAATAATTATAATACTTGTTATTGAATTT-ATTTCATTC-CCA
1 CAAT-AATTTTTTTATATTTCAAAATAATTATAATAATTGCTATT-TATTTCATTTCATTCTCC-
* *
3383211 TGACACTTGGGTTAGAGTCTGGTGTTG
63 GGACACTTGGGTT-GAGTCTGGTGCTG
* * *
3383238 CAATAATATTTTTT-TATTTCCAAAATAATTATAATAATTGCTATTTATTTCTTTTAATTCTCAG
1 CAATAAT-TTTTTTATATTT-CAAAATAATTATAATAATTGCTATTTATTTCATTTCATTCTCCG
* * * * * *
3383302 GGCACTCGGGCTTGATTTTGGTGATA
64 GACACTTGGG-TTGAGTCTGGTGCTG
* * * * *
3383328 TAATGATATTTTTTTATTTTTTTAAAATAATTATAATAATTGCTGTCCT-TTTCA-TTCA-T-T-
1 CAAT-A-ATTTTTTTA-TATTTCAAAATAATTATAATAATTGCTAT-TTATTTCATTTCATTCTC
** *
3383388 -GGATGCTTGGGCTTGAGTCTGGTGCTA
62 CGGACACTTGGG-TTGAGTCTGGTGCTG
* * * * * * *
3383415 TAATAATTTTTTTATTTTTCGAAATAATTATGATAATTGCAAATTTATTTCATTTTATTCTCGGG
1 CAATAATTTTTTTATATTTCAAAATAATTATAATAATTGC-TATTTATTTCATTTCATTCTCCGG
* * *
3383480 GCACTTGGGCTTGAATCTAGTGCTG
65 ACACTTGGG-TTGAGTCTGGTGCTG
** * * * * *
3383505 CAACAATATATTTTTTTAT-TTTTGAAATATTTATAATAGTTGCAATTTATTTTTATTTTATT-T
1 ---CAATA-ATTTTTTTATATTTCAAAATAATTATAATAATTGCTATTTA-TTTCATTTCATTCT
** *** * * * *
3383568 TTGGGTTCTTAGGCTTGAATCTGATGTTG
61 CCGGACACTT-GGGTTGAGTCTGGTGCTG
* * * * *
3383597 AAATAA-TATTTTAT-TTT-AGGAATAATTATAATAATTG-TAAATTTATTTCATTTCATTTTCA
1 CAATAATTTTTTTATATTTCA-AAATAATTATAATAATTGCT--ATTTATTTCATTTCATTCTCC
* *
3383658 GGACACTTGGGTTTGAGTCTAGTGC-A
63 GGACACTTGGG-TTGAGTCTGGTGCTG
* *** * *
3383684 CTAATAATATTTTTTTTATTTTTTAATAATTATAATAACTGATATTTATTTCATTTCATTC-CCG
1 C-AATAAT-TTTTTTATATTTCAAAATAATTATAATAATTGCTATTTATTTCATTTCATTCTCCG
* * * *
3383748 AGGCATTTGGCCTTGAGTCTGGTGCTA
64 -GACACTTGG-GTTGAGTCTGGTGCTG
*** * * * *
3383775 CAATAAATTTTATTTTATATTTTTTTGGAATAGTTATAATAATTGGTATTTATTTTATTTCATTT
1 CAAT-AA-TTT-TTTTATA---TTTCAAAATAATTATAATAATTGCTATTTATTTCATTTCATTC
* * *
3383840 TCATGG-CACTTGGGCTTTAG-CAAT-GTGTTG
60 TC-CGGACACTTGGG-TTGAGTC--TGGTGCTG
* * * * * * *
3383870 TAATAATTTTTTTTTATTTTTATGAAATAATTATAATAATTACTATTTATTTTATTTCATTATCA
1 CAATAATTTTTTTATA-TTTCA--AAATAATTATAATAATTGCTATTTATTTCATTTCATTCTCC
* * * * *
3383935 AGATATTTGGGCTTGAGTTTGGCGCTG
63 GGACACTTGGG-TTGAGTCTGGTGCTG
* *
3383962 CAATAATAATTTTTAT-TTTCAAGAATACATATGTTAATAATT--T-TTTATTTCA-TT--TT-T
1 CAATAAT-TTTTTTATATTTCAA-AATA-AT-T-ATAATAATTGCTATTTATTTCATTTCATTCT
* ** * * *
3384019 -AGGGTACTTGGGCTTGAGTTTAGTGTTG
61 CCGGACACTTGGG-TTGAGTCTGGTGCTG
* * * *
3384047 CGATAATATTTTTT-TAATTTCTGATATAATTATAATAATTTCTATTTATTTCATTTCATTC
1 CAATAAT-TTTTTTAT-ATTTC-AAAATAATTATAATAATTGCTATTTATTTCATTTCATTC
3384108 CTCGAGCACT
Statistics
Matches: 887, Mismatches: 171, Indels: 169
0.72 0.14 0.14
Matches are distributed among these distances:
83 8 0.01
84 26 0.03
85 52 0.06
86 21 0.02
87 67 0.08
88 27 0.03
89 28 0.03
90 260 0.29
91 70 0.08
92 134 0.15
93 71 0.08
94 60 0.07
95 59 0.07
96 3 0.00
97 1 0.00
ACGTcount: A:0.28, C:0.10, G:0.14, T:0.48
Consensus pattern (88 bp):
CAATAATTTTTTTATATTTCAAAATAATTATAATAATTGCTATTTATTTCATTTCATTCTCCGGA
CACTTGGGTTGAGTCTGGTGCTG
Found at i:3383205 original size:180 final size:178
Alignment explanation
Indices: 3382875--3383981 Score: 670
Period size: 180 Copynumber: 6.1 Consensus size: 178
3382865 ATAAGAATTA
* * * * *
3382875 CAATAAATTTTTTA-ACTTCAGGAATAATTATAAGAATTGC-TATTTAATTT-TTTTCATT-TCC
1 CAATAATTTTTTTATATTTC-GAAATAATTATAATAATTGCAAATTT-ATTTCTTTTCATTCT-C
* * * * * *
3382936 GAGG-TACTTGGGCTTGAGTTTAGTGCACTGCAATTACATTTTTTTTATTTTCCAAAATAGTTAT
63 G-GGACACTTGGGCTTGAGTCTAGTG--CTACAA-TA-AATTTTTTTATTTT-TAAAATAATTAT
* *
3383000 AATAATTGCTATTTATTTAATTTCATTCTCCGGACATTTGGGATTGAGTCTGGTGCTG
122 AATAATTGCTATTAATTT-ATTTCATTCTCCGGACATTTGGGCTTGAGTCTGGTGCTG
* ** *
3383058 CAATAATCTTTTTTATATTTCGAAATCATTATAATAATTGC-AGCTTATTTCTTTTCATTTTCGG
1 CAATAAT-TTTTTTATATTTCGAAATAATTATAATAATTGCAAATTTATTTCTTTTCATTCTCGG
* * * *
3383122 GACACTTGAGTTTGAGTCTAGTGCTGCAATAAATTTTTTTATTTTTCAAAATAATTATAATACTT
65 GACACTTGGGCTTGAGTCTAGTGCTACAATAAATTTTTTTATTTTT-AAAATAATTATAATAATT
* * * *
3383187 GTTATTGAATTTATTTCATTC-CCATGACACTTGGG-TTAGAGTCTGGTGTTG
129 GCTATT-AATTTATTTCATTCTCC-GGACATTTGGGCTT-GAGTCTGGTGCTG
* * *
3383238 CAATAATATTTTTT-TATTTCCAAAATAATTATAATAATTGC-TATTTATTTCTTTTAATTCTCA
1 CAATAAT-TTTTTTATATTT-CGAAATAATTATAATAATTGCAAATTTATTTCTTTTCATTCTC-
* * * * * * *
3383301 GGG-CACTCGGGCTTGATTTTGGTGATATAATGATATTTTTTTATTTTTTTAAAATAATTATAAT
63 GGGACACTTGGGCTTGAGTCTAGTGCTACAAT-AAATTTTTTTA--TTTTTAAAATAATTATAAT
* ** * *** *
3383365 AATTGCT-GT--CCT-TTTCATTCAT-TGGATGCTTGGGCTTGAGTCTGGTGCTA
125 AATTGCTATTAATTTATTTCATTC-TCCGGACATTTGGGCTTGAGTCTGGTGCTG
* * *
3383415 TAATAATTTTTTTATTTTTCGAAATAATTATGATAATTGCAAATTTATTTCATTTT-ATTCTCGG
1 CAATAATTTTTTTATATTTCGAAATAATTATAATAATTGCAAATTTATTTC-TTTTCATTCTCGG
* * * * * *
3383479 GGCACTTGGGCTTGAATCTAGTGCTGCAACAATATATTTTTTTATTTTTGAAATATTTATAATAG
65 GACACTTGGGCTTGAGTCTAGTGCT---ACAATAAATTTTTTTATTTTTAAAATAATTATAATAA
* * * ** ** * * * *
3383544 TTGCAATTTATTTTTATTTTATT-TTTGG-GTTCTTAGGCTTGAATCTGATGTTG
127 TTGCTA-TTA-ATTTATTTCATTCTCCGGACAT-TTGGGCTTGAGTCTGGTGCTG
* * * * * * * *
3383597 AAATAA-TATTTTAT-TTTAGGAATAATTATAATAATTGTAAATTTATTTCATTTCATTTTCAGG
1 CAATAATTTTTTTATATTTCGAAATAATTATAATAATTGCAAATTTATTTCTTTTCATTCTCGGG
* * *
3383660 ACACTTGGGTTTGAGTCTAGTGC-ACTAATAATATTTTTTTTATTTTT-TAATAATTATAATAAC
66 ACACTTGGGCTTGAGTCTAGTGCTAC-AATAA-A-TTTTTTTATTTTTAAAATAATTATAATAAT
* * * * *
3383723 TGATATTTATTTCATTTCATTC-CCGAGGCATTTGGCCTTGAGTCTGGTGCTA
128 TGCTATTAATTT-ATTTCATTCTCCG-GACATTTGGGCTTGAGTCTGGTGCTG
* * * **
3383775 CAATAAATTTTATTTTATATTTTTTTGGAATAGTTATAATAATTG-GTATTTATTT-TATTTCAT
1 CAAT-AA-TTT-TTTTATA---TTTCGAAATAATTATAATAATTGCAAATTTATTTCT-TTTCAT
* * * * * ** *
3383838 TTTCATGG-CACTTGGGCTTTAG-CAATGTGTTGTAATAATTTTTTTTTATTTTTATGAAATAAT
59 TCTC-GGGACACTTGGGCTTGAGTCTA-GTGCTACAATAA-ATTTTTTTATTTTTA--AAATAAT
* * * ** * * *
3383901 TATAATAATTACTATTTATTTTATTTCATTATCAAGATATTTGGGCTTGAGTTTGGCGCTG
119 TATAATAATTGCTA-TTAATTTATTTCATTCTCCGGACATTTGGGCTTGAGTCTGGTGCTG
*
3383962 CAATAATAATTTTTAT-TTTC
1 CAATAAT-TTTTTTATATTTC
3383982 AAGAATACAT
Statistics
Matches: 725, Mismatches: 141, Indels: 118
0.74 0.14 0.12
Matches are distributed among these distances:
176 33 0.05
177 106 0.15
178 42 0.06
179 40 0.06
180 193 0.27
181 32 0.04
182 56 0.08
183 23 0.03
184 68 0.09
185 51 0.07
186 26 0.04
187 49 0.07
188 6 0.01
ACGTcount: A:0.28, C:0.10, G:0.14, T:0.48
Consensus pattern (178 bp):
CAATAATTTTTTTATATTTCGAAATAATTATAATAATTGCAAATTTATTTCTTTTCATTCTCGGG
ACACTTGGGCTTGAGTCTAGTGCTACAATAAATTTTTTTATTTTTAAAATAATTATAATAATTGC
TATTAATTTATTTCATTCTCCGGACATTTGGGCTTGAGTCTGGTGCTG
Found at i:3383655 original size:87 final size:90
Alignment explanation
Indices: 3383416--3383739 Score: 243
Period size: 87 Copynumber: 3.6 Consensus size: 90
3383406 CTGGTGCTAT
* * * *
3383416 AATA-ATTTTTTTATTTTTCGAAATAATTATGATAATTGCAAATTTATTTCATTTTATTCTCGGG
1 AATATATTATTTTA-TTTTAGAAATAATTATAATAATTG-AAATTTATTTCATTTTATT-TTGGG
*
3383480 GCACTTGGGCTTGAATCTAGTGCTGCAAC
63 GCACTTAGGCTTGAATCTAGTGCTG-AAC
* * * * * * * *
3383509 AATATATTTTTTTATTTTTGAAATATTTATAATAGTTGCAATTTATTTTTATTTTATTTTTGGGT
1 AATATATTATTTTATTTTAGAAATAATTATAATAATTGAAATTTA-TTTCATTTTATTTTGGGGC
* *
3383574 TCTTAGGCTTGAATCT-GATGTTG-A-
65 ACTTAGGCTTGAATCTAG-TGCTGAAC
* * * *
3383598 AATA-A-TATTTTATTTTAGGAATAATTATAATAATTGTAAATTTATTTCATTTCATTTTCAGGA
1 AATATATTATTTTATTTTAGAAATAATTATAATAATTG-AAATTTATTTCATTTTATTTT-GGGG
* * * *
3383661 CACTTGGGTTTGAGTCTAGTGCACT-AAT
64 CACTTAGGCTTGAATCTAGTG--CTGAAC
* ** * *
3383689 AATAT-TTTTTTTATTTT-TTAATAATTATAATAACTGATATTTATTTCATTT
1 AATATATTATTTTATTTTAGAAATAATTATAATAATTGAAATTTATTTCATTT
3383740 CATTCCCGAG
Statistics
Matches: 186, Mismatches: 33, Indels: 27
0.76 0.13 0.11
Matches are distributed among these distances:
87 38 0.20
88 23 0.12
89 5 0.03
90 17 0.09
91 21 0.11
92 38 0.20
93 35 0.19
94 9 0.05
ACGTcount: A:0.30, C:0.08, G:0.12, T:0.50
Consensus pattern (90 bp):
AATATATTATTTTATTTTAGAAATAATTATAATAATTGAAATTTATTTCATTTTATTTTGGGGCA
CTTAGGCTTGAATCTAGTGCTGAAC
Found at i:3383921 original size:92 final size:91
Alignment explanation
Indices: 3383605--3383930 Score: 280
Period size: 92 Copynumber: 3.5 Consensus size: 91
3383595 TGAAATAATA
* *
3383605 TTTTA-TTTTA-GGAATAATTATAATAATTGTAAATTTATTTCATTTCATTTTCAGGACACTTGG
1 TTTTATTTTTATGGAATAATTATAATAACT-TATATTTATTTCATTTCATTTTCAGG-CACTTGG
3383668 G-TTTGAGTC-TAGTGC-ACTAATAATATTTT
64 GCTTT-AGTCAT-GTGCTA-TAATAAT-TTTT
* ** * *
3383697 TTTTATTTTT-T--AATAATTATAATAACTGATATTTATTTCATTTCATTCCCGAGGCATTTGGC
1 TTTTATTTTTATGGAATAATTATAATAACTTATATTTATTTCATTTCATTTTC-AGGCACTTGGG
* *
3383759 CTTGAGTC-TGGTGCTACAATAAATTTTAT
65 CTTTAGTCAT-GTGCTATAAT-AATTTT-T
* * * *
3383788 TTTATATTTTTTTGGAATAGTTATAATAA-TTGGTATTTATTTTATTTCATTTTCATGGCACTTG
1 TTT-TATTTTTATGGAATAATTATAATAACTT-ATATTTATTTCATTTCATTTTCA-GGCACTTG
* *
3383852 GGCTTTAG-CAATGTGTTGTAATAATTTTT
63 GGCTTTAGTC-ATGTGCTATAATAATTTTT
* *
3383881 TTTTATTTTTATGAAATAATTATAATAA-TTACTATTTATTTTATTTCATT
1 TTTTATTTTTATGGAATAATTATAATAACTTA-TATTTATTTCATTTCATT
3383931 ATCAAGATAT
Statistics
Matches: 192, Mismatches: 26, Indels: 32
0.77 0.10 0.13
Matches are distributed among these distances:
90 40 0.21
91 28 0.15
92 54 0.28
93 9 0.05
94 9 0.05
95 51 0.27
96 1 0.01
ACGTcount: A:0.29, C:0.09, G:0.12, T:0.51
Consensus pattern (91 bp):
TTTTATTTTTATGGAATAATTATAATAACTTATATTTATTTCATTTCATTTTCAGGCACTTGGGC
TTTAGTCATGTGCTATAATAATTTTT
Found at i:3384142 original size:176 final size:177
Alignment explanation
Indices: 3383827--3384144 Score: 383
Period size: 176 Copynumber: 1.8 Consensus size: 177
3383817 TTGGTATTTA
* * * * *
3383827 TTTTATTTCATTTTCATGGCACTTGGGCTTTAGCAATGTGTTGTAATAATTTTTTTTTATTTTTA
1 TTTTATTTCATTTTCAGGGCACTTGGGCTTGAGCAATGTGTTGCAATAATATTTTTTTATATTTA
* * * **
3383892 TGAAATAATTATAATAATTACTATTTATTTTATTTCATTATCAAGATATTTGGGCTTGAGTTTGG
66 TGAAATAATTATAATAATTACTATTTATTTCATTTCATTATCAAGACACTTGGGCTTGAGTAAGG
3383957 CGCTGCAATAATAATTTTTATTTTCAAGAATACATATGTTAATAATT
131 CGCTGCAATAATAATTTTTATTTTCAAGAATACATATGTTAATAATT
* * ** *
3384004 TTTTATTTCATTTTTAGGGTACTTGGGCTTGAG-TTTAGTGTTGCGATAATATTTTTTTA-ATTT
1 TTTTATTTCATTTTCAGGGCACTTGGGCTTGAGCAAT-GTGTTGCAATAATATTTTTTTATATTT
* * * * *
3384067 CTGATATAATTATAATAATTTCTATTTATTTCATTTCATTCCTCGAG-CACTTGGGCTTGTA-TA
65 ATGAAATAATTATAATAATTACTATTTATTTCATTTCATT-ATCAAGACACTTGGGCTTG-AGTA
* *
3384130 AGGTGTTGCAATAAT
128 AGGCGCTGCAATAAT
3384145 TTTAATAATT
Statistics
Matches: 116, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
176 63 0.54
177 53 0.46
ACGTcount: A:0.27, C:0.09, G:0.14, T:0.49
Consensus pattern (177 bp):
TTTTATTTCATTTTCAGGGCACTTGGGCTTGAGCAATGTGTTGCAATAATATTTTTTTATATTTA
TGAAATAATTATAATAATTACTATTTATTTCATTTCATTATCAAGACACTTGGGCTTGAGTAAGG
CGCTGCAATAATAATTTTTATTTTCAAGAATACATATGTTAATAATT
Found at i:3384684 original size:174 final size:176
Alignment explanation
Indices: 3384284--3384752 Score: 479
Period size: 174 Copynumber: 2.7 Consensus size: 176
3384274 CTTGGGCTTA
* * * *
3384284 AGTCTGGTGTTGCAATAATATTTTTTATTTTCTGGAATAATTATAATAATTGTTATTAATTTTAT
1 AGTCTGGTGTTGCAATAATTTTTTTTATTTTTTGGAATAATTATAATAATTGATATTTATTTTAT
* **** *** * * ** *
3384349 TTCATTATCCAACACCGAGACTTGAGTCTGGTGCTACAATAATTTATTTTTACTTTCGAAAATAG
66 TTCATTTTTGGGCATTTAGGCTTGAGTCTGGTGTTGTAATAATAT-TTTTTACTTTCGAAAATAG
*
3384414 TTATAATAATAGCTATTTATTTCATTTCATTATGAGGCATCTAGGCTTG
130 TTATAATAATA-CTATTTATTTCATTTCATTATAAGGCATCTAGGC-TG
* * **
3384463 AGTCTGGTATTGCAATAAAATTTTTTTATTTTTCAGAATAATTATAATAATTGATATTTATTTTA
1 AGTCTGGTGTTGCAAT-AATTTTTTTTATTTTTTGGAATAATTATAATAATTGATATTTATTTTA
* * *
3384528 TTTCATTTTTGGGCATTTAGGCTTG-GTCTGGTGTTGTGATAATATTTTTTATTTTCTAAAAT-G
65 TTTCATTTTTGGGCATTTAGGCTTGAGTCTGGTGTTGTAATAATATTTTTTACTTTCGAAAATAG
*
3384591 ATTATAAT-A-A-TATTTATTTCATTTCATTTCTAAGGCAT-TGAGTG-TG
130 -TTATAATAATACTATTTATTTCATTTCA-TTATAAGGCATCT-AG-GCTG
** *
3384637 AGT-TGGTGTTGCAATAATTTTTTTTTATTTTTTTGGAATAATTATAATAATTTCTATTTATTTC
1 AGTCTGGTGTTGCAATAA-TTTTTTTTA-TTTTTTGGAATAATTATAATAATTGATATTTATTTT
* * * *
3384701 ATTTCATTTCTGGGCAGTTTGGGCTTGAGTTTGGTGTTGTTATAA-ATTTTTT
64 ATTTCATTTTTGGGCA-TTTAGGCTTGAGTCTGGTGTTGTAATAATATTTTTT
3384753 TTATATTTTC
Statistics
Matches: 244, Mismatches: 37, Indels: 22
0.81 0.12 0.07
Matches are distributed among these distances:
172 2 0.01
173 19 0.08
174 68 0.28
175 27 0.11
176 17 0.07
177 2 0.01
178 22 0.09
179 30 0.12
180 57 0.23
ACGTcount: A:0.27, C:0.09, G:0.15, T:0.49
Consensus pattern (176 bp):
AGTCTGGTGTTGCAATAATTTTTTTTATTTTTTGGAATAATTATAATAATTGATATTTATTTTAT
TTCATTTTTGGGCATTTAGGCTTGAGTCTGGTGTTGTAATAATATTTTTTACTTTCGAAAATAGT
TATAATAATACTATTTATTTCATTTCATTATAAGGCATCTAGGCTG
Found at i:3384815 original size:93 final size:92
Alignment explanation
Indices: 3384139--3384825 Score: 483
Period size: 90 Copynumber: 7.7 Consensus size: 92
3384129 AAGGTGTTGC
* * * * * * * * **
3384139 AATAATTTTAATAATTGCTATTTATTTTATTTCATTTCCAGGGTACTTGGGTTTGATTCTAAT-T
1 AATAATTATAATAATTGCTATTTATTTCATTTCATTTTCAAGGCATTTGGGCTTGAGTCTGGTGT
***
3384203 CTTTTA-AAATATTTTTTTA-TTTTCTA-
66 -TGCAATAAAT-TTTTTTTATTTTTCTAG
* * ** * * * *
3384229 AATTATTATAATAATTGCTAATTATTTTTTTTCATTCTC-GGGACACTTGGGCTTAAGTCTGGTG
1 AATAATTATAATAATTGCTATTTATTTCATTTCATTTTCAAGG-CATTTGGGCTTGAGTCTGGTG
* *
3384293 TTGCAAT-AATATTTTTTA-TTTTCTGG
65 TTGCAATAAATTTTTTTTATTTTTCTAG
* * * * ** *
3384319 AATAATTATAATAATTGTTATTAATTTTATTTCATTATCCAA--CA-CCGAGACTTGAGTCTGGT
1 AATAATTATAATAATTGCTATTTATTTCATTTCATT-TTCAAGGCATTTG-GGCTTGAGTCTGGT
* * * * *
3384381 GCTACAAT-AATTTATTTTTA-CTTTCGAA
64 GTTGCAATAAATTT-TTTTTATTTTTCTAG
* * * * * * *
3384409 AATAGTTATAATAATAGCTATTTATTTCATTTCATTAT-GAGGCATCTAGGCTTGAGTCTGGTAT
1 AATAATTATAATAATTGCTATTTATTTCATTTCATTTTCAAGGCATTTGGGCTTGAGTCTGGTGT
*
3384473 TGCAATAAAATTTTTTTATTTTTC-AG
66 TGCAATAAATTTTTTTTATTTTTCTAG
* * ** *
3384499 AATAATTATAATAATTGATATTTATTTTATTTCATTTT-TGGGCATTTAGGCTTG-GTCTGGTGT
1 AATAATTATAATAATTGCTATTTATTTCATTTCATTTTCAAGGCATTTGGGCTTGAGTCTGGTGT
** * *
3384562 TGTGAT-AATATTTTTTA-TTTTCTAA
66 TGCAATAAATTTTTTTTATTTTTCTAG
* *
3384587 AATGATTATAATAA----TATTTATTTCATTTCA-TTTCTAAGGCA-TTGAG-TGTGAGT-TGGT
1 AATAATTATAATAATTGCTATTTATTTCATTTCATTTTC-AAGGCATTTGGGCT-TGAGTCTGGT
* * *
3384644 GTTGCAATAATTTTTTTTTATTTTTTTGG
64 GTTGCAATAAATTTTTTTTATTTTTCTAG
* ** *
3384673 AATAATTATAATAATTTCTATTTATTTCATTTCA-TTTCTGGGCAGTTTGGGCTTGAGTTTGGTG
1 AATAATTATAATAATTGCTATTTATTTCATTTCATTTTCAAGGCA-TTTGGGCTTGAGTCTGGTG
** *
3384737 TTGTTATAAATTTTTTTTATATTTTCTGG
65 TTGCAATAAATTTTTTTTAT-TTTTCTAG
* * * *
3384766 AATACTTATAATAGTTGCTATTTATTTCATTTTATTTTCAAAGCATTTGGGCTTGAGTCT
1 AATAATTATAATAATTGCTATTTATTTCATTTCATTTTCAAGGCATTTGGGCTTGAGTCT
3384826 AGCAATAATA
Statistics
Matches: 471, Mismatches: 96, Indels: 57
0.75 0.15 0.09
Matches are distributed among these distances:
83 4 0.01
84 30 0.06
85 15 0.03
86 18 0.04
87 5 0.01
88 25 0.05
89 56 0.12
90 217 0.46
91 20 0.04
92 23 0.05
93 51 0.11
94 7 0.01
ACGTcount: A:0.27, C:0.09, G:0.14, T:0.50
Consensus pattern (92 bp):
AATAATTATAATAATTGCTATTTATTTCATTTCATTTTCAAGGCATTTGGGCTTGAGTCTGGTGT
TGCAATAAATTTTTTTTATTTTTCTAG
Found at i:3397366 original size:44 final size:44
Alignment explanation
Indices: 3397298--3397428 Score: 201
Period size: 44 Copynumber: 3.0 Consensus size: 44
3397288 AATCCCTGTG
*
3397298 ACTAGAACTCATAG-TTGTATGTAGGGTGAACACCCTTGGCCAA
1 ACTAGAACTCACAGATTGTATGTAGGGTGAACACCCTTGGCCAA
* * *
3397341 ACTAGAACTCAGAGATTGTATGTAGGTTGAACACCCTTGACCAA
1 ACTAGAACTCACAGATTGTATGTAGGGTGAACACCCTTGGCCAA
* *
3397385 ACTAGAACTCACAGATTGTATGTAGGGTGAACGCCCCTGGCCAA
1 ACTAGAACTCACAGATTGTATGTAGGGTGAACACCCTTGGCCAA
3397429 TGAGTCGACA
Statistics
Matches: 79, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
43 13 0.16
44 66 0.84
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (44 bp):
ACTAGAACTCACAGATTGTATGTAGGGTGAACACCCTTGGCCAA
Found at i:3400831 original size:15 final size:14
Alignment explanation
Indices: 3400808--3400842 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
3400798 TAAGCAGCAA
*
3400808 AAAAGGAAGAAAAT
1 AAAAGGAAGAAAAG
3400822 AAAAGAGAAGAAAAG
1 AAAAG-GAAGAAAAG
3400837 AAAAGG
1 AAAAGG
3400843 GTACAATGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.03
Consensus pattern (14 bp):
AAAAGGAAGAAAAG
Found at i:3410694 original size:17 final size:17
Alignment explanation
Indices: 3410674--3410707 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
3410664 TAAGACTCGG
3410674 GAAAGAA-AAAGAAATAA
1 GAAAGAACAAA-AAATAA
3410691 GAAAGAACAAAAAATAA
1 GAAAGAACAAAAAATAA
3410708 ATCTTATGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.81
18 3 0.19
ACGTcount: A:0.76, C:0.03, G:0.15, T:0.06
Consensus pattern (17 bp):
GAAAGAACAAAAAATAA
Found at i:3413666 original size:15 final size:15
Alignment explanation
Indices: 3413642--3413672 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3413632 CAATATTTGT
3413642 AATAAAAAGAAGAAG
1 AATAAAAAGAAGAAG
*
3413657 AATAAGAAGAAGAAG
1 AATAAAAAGAAGAAG
3413672 A
1 A
3413673 CATGTTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.23, T:0.06
Consensus pattern (15 bp):
AATAAAAAGAAGAAG
Found at i:3418236 original size:17 final size:16
Alignment explanation
Indices: 3418210--3418243 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
3418200 TATTTTTCAG
3418210 AAAAAAAAATTAGTAA
1 AAAAAAAAATTAGTAA
*
3418226 AAAAAATAAATTGGTAA
1 AAAAAA-AAATTAGTAA
3418243 A
1 A
3418244 TTTATTAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.21
Consensus pattern (16 bp):
AAAAAAAAATTAGTAA
Done.