Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 34 of 770
Found at i:9797977 original size:19 final size:19
Alignment explanation
Indices: 9797952--9798042 Score: 134
Period size: 19 Copynumber: 4.9 Consensus size: 19
9797942 ATAATCTTCA
9797952 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
9797971 GTGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
9797990 ATGATA--CAATCTTACAT
1 ATGATATGCAATCTTAGAT
9798007 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
9798025 ATGATATACAATCTTAGA
1 ATGATATGCAATCTTAGA
9798043 AGATATGATT
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
17 15 0.23
18 15 0.23
19 34 0.53
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:9798021 original size:35 final size:37
Alignment explanation
Indices: 9797960--9798040 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
9797950 CAATGATATG
* *
9797960 CAATCTTAGATGTGATATGCAATCTTAGATATG-ATA
1 CAATCTTACATATGATATGCAATCTTAGATATGAATA
9797996 CAATCTTACATATGAT-TGCAATCTTAGATATGATATA
1 CAATCTTACATATGATATGCAATCTTAGATATGA-ATA
9798033 CAATCTTA
1 CAATCTTA
9798041 GAAGATATGA
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
35 16 0.39
36 14 0.34
37 11 0.27
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (37 bp):
CAATCTTACATATGATATGCAATCTTAGATATGAATA
Found at i:9798572 original size:15 final size:16
Alignment explanation
Indices: 9798529--9798587 Score: 50
Period size: 16 Copynumber: 3.5 Consensus size: 16
9798519 CAATATATTT
*
9798529 TATATATTTTATATAA
1 TATATTTTTTATATAA
9798545 T-TATTATTCTTATA-AA
1 TATATT-TT-TTATATAA
9798561 TATATTTTTTATTATATA
1 TATATTTTTTA-TATA-A
9798579 TTATATTTT
1 -TATATTTT
9798588 AAATTTATTA
Statistics
Matches: 35, Mismatches: 1, Indels: 11
0.74 0.02 0.23
Matches are distributed among these distances:
15 6 0.17
16 10 0.29
17 10 0.29
18 1 0.03
19 8 0.23
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.63
Consensus pattern (16 bp):
TATATTTTTTATATAA
Found at i:9798591 original size:30 final size:29
Alignment explanation
Indices: 9798522--9798596 Score: 75
Period size: 30 Copynumber: 2.6 Consensus size: 29
9798512 TCTAAACCAA
9798522 TATATTTT--ATATATTTTATATAATTAT
1 TATATTTTAAATATATTTTATATAATTAT
* *
9798549 TAT-TCTTATAAATATATTTTTTATTATATAT
1 TATAT-TT-TAAATATATTTTATATAAT-TAT
*
9798580 TATATTTTAAATTTATT
1 TATATTTTAAATATATT
9798597 ATAAAATATC
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
26 1 0.03
27 5 0.13
28 1 0.03
30 23 0.59
31 8 0.21
32 1 0.03
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (29 bp):
TATATTTTAAATATATTTTATATAATTAT
Found at i:9799922 original size:6 final size:6
Alignment explanation
Indices: 9799913--9799940 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
9799903 TTATATTTTG
9799913 AATTTA AATTTA AATTTA AATTTA AATT
1 AATTTA AATTTA AATTTA AATTTA AATT
9799941 ATAATATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
AATTTA
Found at i:9800485 original size:31 final size:31
Alignment explanation
Indices: 9800443--9800509 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
9800433 ATCTTTTAAG
*
9800443 AAAAA-AGATAACAAGTAATAAAAAACTATT
1 AAAAAGAGATAACAAGTAACAAAAAACTATT
* *
9800473 AAAAAGAGATAACAATTAACAAGAAACTATT
1 AAAAAGAGATAACAAGTAACAAAAAACTATT
9800504 AAAAAG
1 AAAAAG
9800510 CAAAAGTGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 5 0.15
31 28 0.85
ACGTcount: A:0.66, C:0.07, G:0.09, T:0.18
Consensus pattern (31 bp):
AAAAAGAGATAACAAGTAACAAAAAACTATT
Found at i:9803975 original size:6 final size:6
Alignment explanation
Indices: 9803966--9803990 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
9803956 TTATATTTTG
9803966 AATTTA AATTTA AATTTA AATTTA A
1 AATTTA AATTTA AATTTA AATTTA A
9803991 TATATAATAT
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):
AATTTA
Found at i:9804457 original size:2 final size:2
Alignment explanation
Indices: 9804446--9804478 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
9804436 TTACATACAC
9804446 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9804479 CCATCTTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:9808482 original size:20 final size:21
Alignment explanation
Indices: 9808457--9808497 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
9808447 AAATTTAGCC
* *
9808457 CTATATTTATTTTTAT-TATT
1 CTATATATATATTTATATATT
9808477 CTATATATATATTTATATATT
1 CTATATATATATTTATATATT
9808498 GTTATTTGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (21 bp):
CTATATATATATTTATATATT
Found at i:9808559 original size:16 final size:17
Alignment explanation
Indices: 9808538--9808590 Score: 54
Period size: 20 Copynumber: 3.0 Consensus size: 17
9808528 TATATTATAC
9808538 ATTATA-AGATTATTTT
1 ATTATATAGATTATTTT
*
9808554 ATTATATATATTATTTTT
1 ATTATATAGATTA-TTTT
*
9808572 ATTTATTATATATTATTTT
1 A-TTA-TATAGATTATTTT
9808591 TCACAAATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
16 6 0.19
17 5 0.16
18 5 0.16
19 7 0.22
20 9 0.28
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (17 bp):
ATTATATAGATTATTTT
Found at i:9808568 original size:17 final size:19
Alignment explanation
Indices: 9808546--9808682 Score: 69
Period size: 22 Copynumber: 7.2 Consensus size: 19
9808536 ACATTATAAG
9808546 ATTATTTTA-TTA-TATAT
1 ATTATTTTATTTATTATAT
9808563 ATTATTTTTATTTATTATAT
1 ATTA-TTTTATTTATTATAT
* *
9808583 ATTA-TTT-TTCA-CA-A-
1 ATTATTTTATTTATTATAT
* *
9808597 ATTATTATTATTATTTTACAT
1 ATTATT-TTATT-TATTATAT
9808618 CATTATTTTTATATTATTAT-T
1 -ATTA-TTTTAT-TTATTATAT
9808639 A-TATTTTATTTGCATTATAT
1 ATTATTTTATTT--ATTATAT
9808659 ATTTATTAATTATTTA-TATAT
1 A-TTATT--TTATTTATTATAT
9808680 ATT
1 ATT
9808683 GTTCTTACAT
Statistics
Matches: 93, Mismatches: 7, Indels: 37
0.68 0.05 0.27
Matches are distributed among these distances:
14 4 0.04
15 2 0.02
16 3 0.03
17 11 0.12
18 14 0.15
19 11 0.12
20 15 0.16
21 7 0.08
22 17 0.18
23 3 0.03
24 6 0.06
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.63
Consensus pattern (19 bp):
ATTATTTTATTTATTATAT
Found at i:9808579 original size:22 final size:20
Alignment explanation
Indices: 9808546--9808682 Score: 75
Period size: 17 Copynumber: 7.2 Consensus size: 20
9808536 ACATTATAAG
9808546 ATTA-TTTTA-TTA-TATAT
1 ATTATTTTTATTTATTATAT
9808563 ATTATTTTTATTTATTATAT
1 ATTATTTTTATTTATTATAT
* *
9808583 ATTATTTTTCA--CA-AAT-T
1 ATTATTTTT-ATTTATTATAT
* *
9808600 ATTATTATTA-TT-TTACAT
1 ATTATTTTTATTTATTATAT
9808618 CATTATTTTTA--TATTAT-T
1 -ATTATTTTTATTTATTATAT
9808636 ATTATATTTTATTTGCATTATAT
1 ATTAT-TTTTATTT--ATTATAT
*
9808659 ATTTATTAATTATTTA-TATAT
1 A-TTATT-TTTATTTATTATAT
9808680 ATT
1 ATT
9808683 GTTCTTACAT
Statistics
Matches: 94, Mismatches: 9, Indels: 31
0.70 0.07 0.23
Matches are distributed among these distances:
16 1 0.01
17 19 0.20
18 15 0.16
19 16 0.17
20 17 0.18
21 7 0.07
22 6 0.06
23 3 0.03
24 10 0.11
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.63
Consensus pattern (20 bp):
ATTATTTTTATTTATTATAT
Found at i:9808589 original size:37 final size:36
Alignment explanation
Indices: 9808546--9808661 Score: 94
Period size: 35 Copynumber: 3.1 Consensus size: 36
9808536 ACATTATAAG
9808546 ATTATTTTATTATATATATTATTTTTATTTATTATAT
1 ATTATTTT-TTATATATATTATTTTTATTTATTATAT
* * * * *
9808583 ATTATTTTTCACA-A-ATTATTATTATTATTTTACAT
1 ATTATTTTTTATATATATTATTTTTATT-TATTATAT
9808618 CATTA-TTTTTATATTATTATTATATTTTATTTGCATTATAT
1 -ATTATTTTTTATA-TA-TATTAT-TTTTATTT--ATTATAT
9808659 ATT
1 ATT
9808662 TATTAATTAT
Statistics
Matches: 60, Mismatches: 10, Indels: 15
0.71 0.12 0.18
Matches are distributed among these distances:
34 11 0.18
35 13 0.22
36 7 0.12
37 9 0.15
39 6 0.10
40 9 0.15
41 5 0.08
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (36 bp):
ATTATTTTTTATATATATTATTTTTATTTATTATAT
Found at i:9808915 original size:18 final size:18
Alignment explanation
Indices: 9808892--9808926 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9808882 AATTTTAAAA
*
9808892 TTTTAAATTATATTATAT
1 TTTTAAATCATATTATAT
*
9808910 TTTTAACTCATATTATA
1 TTTTAAATCATATTATA
9808927 CACATATTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTTAAATCATATTATAT
Found at i:9809324 original size:33 final size:33
Alignment explanation
Indices: 9809285--9809354 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
9809275 TTGTATTACT
* *
9809285 CTTTTTTGTATGTCATGCATTATTTAATTATTA
1 CTTTTTTATATATCATGCATTATTTAATTATTA
9809318 CTTTTTTATATATCATGCATTATTTAATTATTA
1 CTTTTTTATATATCATGCATTATTTAATTATTA
9809351 CTTT
1 CTTT
9809355 GTATGTTTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.26, C:0.10, G:0.06, T:0.59
Consensus pattern (33 bp):
CTTTTTTATATATCATGCATTATTTAATTATTA
Found at i:9821516 original size:205 final size:206
Alignment explanation
Indices: 9821164--9821668 Score: 755
Period size: 205 Copynumber: 2.5 Consensus size: 206
9821154 CGGAGAGCAG
* *
9821164 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGGTAAAGCAAATCTAAGATGATTTGTCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCA
* **
9821229 TCTCTGTATTGTCAGTGAACAAATTGAAGTCTGGCATCTCCACTTCAATGGAGAGCAGATACACA
66 TCTCTGTATTGGCAGTGAACAAACCGAAGTCTGGCATCTCCACTTCAATGGAGAGCAGATACACA
*** ** * *
9821294 GCAGATCTCACCTTCAGATGTTTATG-CTGAA-GCTGATCCAAGACGGTTTGGTATCCTTATGCT
131 GCAGATCTCACCTTCAGACAATTA-GACTGAAGGAAGATCCAAGACGATTTGGCATCCTTATGCT
9821357 TACAAGGAACAA
195 TACAAGGAACAA
*
9821369 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGACA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCA
* *
9821434 TCTCGGTATTGGCA-TAGAGCAAACCGAAGTCTGGCATCTCCACTTCAATGGAGAGCAGATACAC
66 TCTCTGTATTGGCAGT-GAACAAACCGAAGTCTGGCATCTCCACTTCAATGGAGAGCAGATACAC
* * *
9821498 AGCAGATCTGACCTTCAGACAATTAGACTGAAGGAAGATCCAAGATGATTTGGCATCCTTGTGCT
130 AGCAGATCTCACCTTCAGACAATTAGACTGAAGGAAGATCCAAGACGATTTGGCATCCTTATGCT
9821563 TACAAGGAACAA
195 TACAAGGAACAA
* *
9821575 ATCGAAGACATAGCTGATTTGGCTTTCATGTGCTTACGATGAAGCAAATCTAAGATGATTTGTCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCA
** * *
9821640 TCTCTGTATTGTTAGAGAACAAATCGAAG
66 TCTCTGTATTGGCAGTGAACAAACCGAAG
9821669 AAGCAAATTT
Statistics
Matches: 269, Mismatches: 27, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
204 2 0.01
205 145 0.54
206 122 0.45
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (206 bp):
ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCA
TCTCTGTATTGGCAGTGAACAAACCGAAGTCTGGCATCTCCACTTCAATGGAGAGCAGATACACA
GCAGATCTCACCTTCAGACAATTAGACTGAAGGAAGATCCAAGACGATTTGGCATCCTTATGCTT
ACAAGGAACAA
Found at i:9823307 original size:25 final size:23
Alignment explanation
Indices: 9823271--9823329 Score: 59
Period size: 25 Copynumber: 2.5 Consensus size: 23
9823261 TTTACCTTAC
9823271 TTTTA-TATTATACATTATAAGATTA
1 TTTTATTA-TATACATTAT--GATTA
* *
9823296 TTTTATTATATATATTATTATTA
1 TTTTATTATATACATTATGATTA
9823319 -TTTATTATATA
1 TTTTATTATATA
9823330 TTATTTTTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
22 11 0.35
23 4 0.13
25 14 0.45
26 2 0.06
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (23 bp):
TTTTATTATATACATTATGATTA
Found at i:9823309 original size:20 final size:22
Alignment explanation
Indices: 9823286--9823330 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
9823276 TATTATACAT
9823286 TATAAGATTA-T-TTTATTATA
1 TATAAGATTATTATTTATTATA
**
9823306 TATATTATTATTATTTATTATA
1 TATAAGATTATTATTTATTATA
9823328 TAT
1 TAT
9823331 TATTTTTTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.38
21 1 0.05
22 12 0.57
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
TATAAGATTATTATTTATTATA
Found at i:9823314 original size:3 final size:3
Alignment explanation
Indices: 9823292--9823387 Score: 53
Period size: 3 Copynumber: 32.7 Consensus size: 3
9823282 ACATTATAAG
9823292 ATT ATT -TT ATT A-T ATAT ATT ATT ATT ATTT ATT ATAT ATT ATT -TT
1 ATT ATT ATT ATT ATT AT-T ATT ATT ATT A-TT ATT AT-T ATT ATT ATT
** * * *
9823337 -TT CACAA ATT ATT ATT ATT ATT -TT A-C ATC ATT ATT TTT A-T ATT
1 ATT -A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
9823380 ATT ATT AT
1 ATT ATT AT
9823388 ATTTTACTTG
Statistics
Matches: 74, Mismatches: 8, Indels: 22
0.71 0.08 0.21
Matches are distributed among these distances:
2 13 0.18
3 51 0.69
4 10 0.14
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:9823413 original size:33 final size:32
Alignment explanation
Indices: 9823344--9823424 Score: 92
Period size: 33 Copynumber: 2.4 Consensus size: 32
9823334 TTTTTCACAA
*
9823344 ATTATTATTATTATTTTACATCATTATTTTTAT
1 ATTATTATTA-TATTTTACATCATTATTATTAT
*
9823377 ATTATTATTATATTTTACTTGCATTATATATT-T
1 ATTATTATTATATTTTACAT-CATTAT-TATTAT
9823410 ATTAATTATTTATAT
1 ATT-ATTA-TTATAT
9823425 ATATTGTTCT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
32 9 0.21
33 20 0.48
34 7 0.17
35 6 0.14
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.62
Consensus pattern (32 bp):
ATTATTATTATATTTTACATCATTATTATTAT
Found at i:9824075 original size:33 final size:33
Alignment explanation
Indices: 9824036--9824105 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
9824026 TTGTATTACT
*
9824036 CTTTTTTGTATGTCATGCATTATTTAATTATTA
1 CTTTTTTGTATATCATGCATTATTTAATTATTA
9824069 CTTTTTTGTATATCATGCATTATTTAATTATTA
1 CTTTTTTGTATATCATGCATTATTTAATTATTA
9824102 CTTT
1 CTTT
9824106 GTATGTTTGT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.24, C:0.10, G:0.07, T:0.59
Consensus pattern (33 bp):
CTTTTTTGTATATCATGCATTATTTAATTATTA
Found at i:9824153 original size:2 final size:2
Alignment explanation
Indices: 9824146--9824178 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
9824136 CAACACATGC
9824146 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9824179 CTTTGTATGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9825271 original size:32 final size:32
Alignment explanation
Indices: 9825235--9825360 Score: 110
Period size: 32 Copynumber: 3.9 Consensus size: 32
9825225 TTTCTGAGTG
* * *
9825235 GTACACATAAAGTATACAT-TTCCTTTTGAAGT
1 GTACACACAAAGTATACATAAT-CTTTTCAAGT
*
9825267 GTACACACAAAGTGTACATAATCTTTTCAAGT
1 GTACACACAAAGTATACATAATCTTTTCAAGT
* * * * *
9825299 GTACACACAGAGTGTGCATAACCTTTTCATGT
1 GTACACACAAAGTATACATAATCTTTTCAAGT
* * * *
9825331 GGTATACATAAAGTATACTTAACCTTTTCA
1 -GTACACACAAAGTATACATAATCTTTTCA
9825361 CATTCAATAG
Statistics
Matches: 78, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
32 54 0.69
33 24 0.31
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.34
Consensus pattern (32 bp):
GTACACACAAAGTATACATAATCTTTTCAAGT
Found at i:9825425 original size:29 final size:29
Alignment explanation
Indices: 9825353--9825538 Score: 255
Period size: 29 Copynumber: 6.4 Consensus size: 29
9825343 GTATACTTAA
* *
9825353 CCTTTTCACATTCAATAGCTGAAGCTATCC
1 CCTTTTCACATTCGATAGCCGAAGCTAT-C
* **
9825383 CCTTTTTATGTTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
*
9825412 CCTTTTCACATTCGATAGCCGAAGCTATT
1 CCTTTTCACATTCGATAGCCGAAGCTATC
* *
9825441 CCTTTTCATATTCGATAGCCAAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
*
9825470 CCTTTTCACATTCGATAGCCAAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
* *
9825499 CCTTTTCACATTTGATAGTCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
*
9825528 CGTTTTCACAT
1 CCTTTTCACAT
9825539 GGTACACACA
Statistics
Matches: 139, Mismatches: 17, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
29 116 0.83
30 23 0.17
ACGTcount: A:0.25, C:0.27, G:0.12, T:0.35
Consensus pattern (29 bp):
CCTTTTCACATTCGATAGCCGAAGCTATC
Found at i:9830038 original size:26 final size:26
Alignment explanation
Indices: 9830007--9830114 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
9829997 ATGAAATTCC
*
9830007 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
9830033 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
9830059 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
9830085 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
9830111 ATCA
1 ATCA
9830115 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:9837045 original size:26 final size:26
Alignment explanation
Indices: 9837014--9837120 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
9837004 TGAAATTCCC
*
9837014 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
9837040 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
9837066 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
9837092 ATCAT-GAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
9837117 ATCA
1 ATCA
9837121 ATTTGTATCA
Statistics
Matches: 76, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
25 22 0.29
26 54 0.71
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:9839512 original size:6 final size:6
Alignment explanation
Indices: 9839462--9839495 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
9839452 TTATATTTTG
9839462 AATTTA AATTTA AATTTA AATTTA AATTTA AATT
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATT
9839496 ATAAGATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
AATTTA
Found at i:9840039 original size:31 final size:31
Alignment explanation
Indices: 9839994--9840061 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
9839984 AATCTTTTAA
*
9839994 TAAAAA-AGATAACAAGTAATAAAAAACTAT
1 TAAAAAGAAATAACAAGTAATAAAAAACTAT
* *
9840024 TAAAAAGAAATAACAATTAATAAGAAACTAT
1 TAAAAAGAAATAACAAGTAATAAAAAACTAT
9840055 TAAAAAG
1 TAAAAAG
9840062 CAAAAGTGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 6 0.18
31 28 0.82
ACGTcount: A:0.66, C:0.06, G:0.07, T:0.21
Consensus pattern (31 bp):
TAAAAAGAAATAACAAGTAATAAAAAACTAT
Found at i:9840048 original size:17 final size:17
Alignment explanation
Indices: 9840002--9840050 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 17
9839992 AATAAAAAAG
*
9840002 ATAACAAGTAAT-A-AA
1 ATAACAATTAATAAGAA
* *
9840017 A-AACTATTAAAAAGAA
1 ATAACAATTAATAAGAA
9840033 ATAACAATTAATAAGAA
1 ATAACAATTAATAAGAA
9840050 A
1 A
9840051 CTATTAAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
14 7 0.27
15 2 0.08
16 3 0.12
17 14 0.54
ACGTcount: A:0.67, C:0.06, G:0.06, T:0.20
Consensus pattern (17 bp):
ATAACAATTAATAAGAA
Found at i:9843533 original size:6 final size:6
Alignment explanation
Indices: 9843510--9843534 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
9843500 TTATATTTTG
9843510 AATTTA AATTTA AATTTA AATTTA A
1 AATTTA AATTTA AATTTA AATTTA A
9843535 TATATAATAT
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):
AATTTA
Found at i:9844656 original size:25 final size:23
Alignment explanation
Indices: 9844624--9844669 Score: 56
Period size: 25 Copynumber: 1.9 Consensus size: 23
9844614 ATATATATCA
*
9844624 TAAAATAGTACATAAAAGAAAAAT
1 TAAAATAGCACATAAAA-AAAAAT
*
9844648 TAAACATAGCATATAAAAAAAA
1 TAAA-ATAGCACATAAAAAAAA
9844670 TGAAACTATG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 8 0.42
25 11 0.58
ACGTcount: A:0.67, C:0.07, G:0.07, T:0.20
Consensus pattern (23 bp):
TAAAATAGCACATAAAAAAAAAT
Found at i:9845187 original size:22 final size:21
Alignment explanation
Indices: 9845157--9845203 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
9845147 TACAAATTAA
9845157 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
9845179 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
9845200 ATCT
1 ATCT
9845204 AAGATTGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:9845209 original size:19 final size:19
Alignment explanation
Indices: 9845174--9845248 Score: 118
Period size: 19 Copynumber: 3.9 Consensus size: 19
9845164 AGATTACAAG
9845174 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
9845195 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
9845212 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
9845231 ATCATATCTAAGATTGCA
1 ATCATATCTAAGATTGCA
9845249 CATCCTTAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.33
19 26 0.50
20 1 0.02
21 8 0.15
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.37
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:9845229 original size:36 final size:38
Alignment explanation
Indices: 9845174--9845246 Score: 132
Period size: 36 Copynumber: 2.0 Consensus size: 38
9845164 AGATTACAAG
9845174 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
1 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
9845212 ATCATATC-T-AAGATTGCATATCATATCTAAGATTG
1 ATCATATCTTCAAGATTGCATATCATATCTAAGATTG
9845247 CACATCCTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 26 0.74
37 1 0.03
38 8 0.23
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (38 bp):
ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
Found at i:9845233 original size:14 final size:15
Alignment explanation
Indices: 9845196--9845233 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
9845186 AGATTGCATA
9845196 TCATATCTAAGATTG
1 TCATATCTAAGATTG
9845211 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
9845228 -CATATC
1 TCATATC
9845234 ATATCTAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.29
17 15 0.71
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:9846207 original size:175 final size:175
Alignment explanation
Indices: 9845705--9846279 Score: 920
Period size: 175 Copynumber: 3.3 Consensus size: 175
9845695 TGAAAGCCAA
* * * * *
9845705 ATCTGCTGTGTCTTCGGTTTGCTCCTTGTGAACACAAGGATGCCAAATCATCTTGGATCTGCTTC
1 ATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTC
* * * *
9845770 AGTA-AAATCATCTGAAGGTTAGATCTACTATGTATCTGCTCTTCGTCGAAATAGAGATGCCAGA
66 AGTATAAA-CATCTGAAGGTTAGACCTACTATGTACCTGCTCTCCGTCGAAATGGAGATGCCAGA
* *
9845834 TCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCCGAAAGTCAA
130 TCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCCAAAAGTCAG
*
9845880 ATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCCAAATCATCTTGGATCTACTT
1 ATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATG-CCAAATCATCTTGGATCTGCTT
* *
9845945 TAGTATAAACATCTGAAGGTTAGACTTACTATGTACCTGCTCTCCGTCGAAATGGAGATGCCAGA
65 CAGTATAAACATCTGAAGGTTAGACCTACTATGTACCTGCTCTCCGTCGAAATGGAGATGCCAGA
9846010 TCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCCAAAAGTCAG
130 TCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCCAAAAGTCAG
*
9846056 ATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATTTGCTTC
1 ATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTC
* *
9846121 AGTATAAACATCTGAAGGTTAGACCTGCTATGTACCTGCTCTCCGTTGAAATGGAGATGCCAGAT
66 AGTATAAACATCTGAAGGTTAGACCTACTATGTACCTGCTCTCCGTCGAAATGGAGATGCCAGAT
*
9846186 CTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCTGAAAA-TCAG
131 CTGTTATCTTGGATCTGCTTTGGTGTGAGAACATC-CAAAAGTCAG
* * *
9846231 ATCTGCTATGTCTTCGATTTGTTCCCTGTAAACACAGGGATGCCAAATC
1 ATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATC
9846280 TGCTATCTTC
Statistics
Matches: 373, Mismatches: 24, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
175 204 0.55
176 166 0.45
177 3 0.01
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.33
Consensus pattern (175 bp):
ATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTC
AGTATAAACATCTGAAGGTTAGACCTACTATGTACCTGCTCTCCGTCGAAATGGAGATGCCAGAT
CTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCCAAAAGTCAG
Found at i:9846297 original size:44 final size:45
Alignment explanation
Indices: 9846231--9846316 Score: 129
Period size: 44 Copynumber: 1.9 Consensus size: 45
9846221 TGAAAATCAG
* * *
9846231 ATCTGCTATGTCTTCGATTTGTTCCCTGTAAACACAGGGATGCCAA
1 ATCTGCTA-GTCTTCAACTTGTTCCCTATAAACACAGGGATGCCAA
9846277 ATCTGCTA-TCTTCAACTTGTTCCCTATAAACACAGGGATG
1 ATCTGCTAGTCTTCAACTTGTTCCCTATAAACACAGGGATG
9846317 TCATGTTAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 29 0.78
46 8 0.22
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (45 bp):
ATCTGCTAGTCTTCAACTTGTTCCCTATAAACACAGGGATGCCAA
Found at i:9846502 original size:123 final size:124
Alignment explanation
Indices: 9846283--9846528 Score: 386
Period size: 123 Copynumber: 2.0 Consensus size: 124
9846273 CCAAATCTGC
* * ** *
9846283 TATCTTCAACTTGTTCCCTATAAACACAGGGATGTCATGTTAAAATCTTTGATCTGTTTCACTGT
1 TATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTAAAATCTTCAATCTGCTTCACTGT
*
9846348 AAGCACAAGAATGTCAGATCTTCTATCTTCGATCTG-TTCCCTATAAACACAGGGATGT
66 AAGCACAAGAATGTCAGATCTGCTATCTTCGATCTGTTTCCCTATAAACACAGGGATGT
* * *
9846406 TATCTTCAACTTGTTCCCTATAAACACAGGGTTGCCATGCTGAAATCTTCAATCTGCTTCGCTGT
1 TATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTAAAATCTTCAATCTGCTTCACTGT
* *
9846471 AAGCACAGGAGTGTCAGATCTGCTATCTTCGATCTGTTTCCCTATAAACACAGGGATG
66 AAGCACAAGAATGTCAGATCTGCTATCTTCGATCTGTTTCCCTATAAACACAGGGATG
9846529 CCAAATCTTG
Statistics
Matches: 111, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
123 90 0.81
124 21 0.19
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (124 bp):
TATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTAAAATCTTCAATCTGCTTCACTGT
AAGCACAAGAATGTCAGATCTGCTATCTTCGATCTGTTTCCCTATAAACACAGGGATGT
Found at i:9852904 original size:22 final size:21
Alignment explanation
Indices: 9852874--9852939 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
9852864 TACAAATTAA
9852874 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
9852896 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
9852917 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
9852936 ATCT
1 ATCT
9852940 AAGATTGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:9852926 original size:19 final size:19
Alignment explanation
Indices: 9852891--9852987 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
9852881 AGATTACAAG
9852891 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
9852912 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
9852931 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
9852948 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
9852967 ATCATA-CTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
9852985 ATC
1 ATC
9852988 CTTAAAGATT
Statistics
Matches: 74, Mismatches: 0, Indels: 7
0.91 0.00 0.09
Matches are distributed among these distances:
17 17 0.23
18 15 0.20
19 33 0.45
20 1 0.01
21 8 0.11
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.37
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:9852933 original size:14 final size:15
Alignment explanation
Indices: 9852913--9852969 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
9852903 AGATTGCATA
9852913 TCATATCTAAGATTG
1 TCATATCTAAGATTG
9852928 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
9852947 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
9852964 -CATATC
1 TCATATC
9852970 ATACTAAGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.16
17 17 0.45
19 15 0.39
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.39
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:9852955 original size:36 final size:37
Alignment explanation
Indices: 9852891--9852987 Score: 144
Period size: 36 Copynumber: 2.6 Consensus size: 37
9852881 AGATTACAAG
9852891 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATC-T-AAGATTG-ATATCATATCTAAGATTGCAT
9852931 ATCATATCTAAGATTG-TATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
9852967 ATCATA-CTAAGATTGCATATC
1 ATCATATCTAAGATTG-ATATC
9852988 CTTAAAGATT
Statistics
Matches: 55, Mismatches: 0, Indels: 7
0.89 0.00 0.11
Matches are distributed among these distances:
35 9 0.16
36 26 0.47
37 4 0.07
38 7 0.13
39 1 0.02
40 8 0.15
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.37
Consensus pattern (37 bp):
ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
Found at i:9853444 original size:2 final size:2
Alignment explanation
Indices: 9853433--9853465 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
9853423 TTACATACAC
9853433 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9853466 CAATCTTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:9857978 original size:26 final size:26
Alignment explanation
Indices: 9857942--9858049 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
9857932 TGAAATTCCA
9857942 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
* *
9857968 ATCATGGAACATTTACCTAACCTATT
1 ATCATGAAACATTTACCTAACCCATT
9857994 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
* *
9858020 ATCATGGAACATTTACCCAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
9858046 ATCA
1 ATCA
9858050 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGAAACATTTACCTAACCCATT
Found at i:9858356 original size:32 final size:32
Alignment explanation
Indices: 9858315--9858451 Score: 211
Period size: 32 Copynumber: 4.2 Consensus size: 32
9858305 TTACACCTTT
9858315 CCTTTTCAAGTGTACACACAAAGTGTACATAA
1 CCTTTTCAAGTGTACACACAAAGTGTACATAA
*
9858347 CCTTTTCAAGTGTACACACAAAGTGTGCATAA
1 CCTTTTCAAGTGTACACACAAAGTGTACATAA
*
9858379 CCTTTTCAAGTGTACACACAAAGTGTGCATAA
1 CCTTTTCAAGTGTACACACAAAGTGTACATAA
* * * *
9858411 CCTTTTCATGTGGTATACACAAAGTATACTTAA
1 CCTTTTCAAGT-GTACACACAAAGTGTACATAA
9858444 CCTTTTCA
1 CCTTTTCA
9858452 CATTCGATAG
Statistics
Matches: 98, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
32 73 0.74
33 25 0.26
ACGTcount: A:0.34, C:0.22, G:0.13, T:0.31
Consensus pattern (32 bp):
CCTTTTCAAGTGTACACACAAAGTGTACATAA
Found at i:9858489 original size:29 final size:29
Alignment explanation
Indices: 9858444--9858512 Score: 111
Period size: 29 Copynumber: 2.4 Consensus size: 29
9858434 GTATACTTAA
9858444 CCTTTTCACATTCGATAGCCAAAGCTATC
1 CCTTTTCACATTCGATAGCCAAAGCTATC
* *
9858473 CCTTTTCACATTTGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCAAAGCTATC
*
9858502 CGTTTTCACAT
1 CCTTTTCACAT
9858513 GGTACACACA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.35
Consensus pattern (29 bp):
CCTTTTCACATTCGATAGCCAAAGCTATC
Found at i:9862400 original size:6 final size:6
Alignment explanation
Indices: 9862391--9862418 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
9862381 TTATATTTTG
9862391 AATTTA AATTTA AATTTA AATTTA AATT
1 AATTTA AATTTA AATTTA AATTTA AATT
9862419 ATAATATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
AATTTA
Found at i:9862961 original size:31 final size:31
Alignment explanation
Indices: 9862910--9862977 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
9862900 AATCTTTTAA
*
9862910 TAAAAA-AGATAATAAGTAATAAAAAACTAT
1 TAAAAAGAGATAACAAGTAATAAAAAACTAT
* *
9862940 TAAAAAGAGATAACAATTAATAAGAAACTAT
1 TAAAAAGAGATAACAAGTAATAAAAAACTAT
9862971 TAAAAAG
1 TAAAAAG
9862978 CAAAAGTGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 6 0.18
31 28 0.82
ACGTcount: A:0.65, C:0.04, G:0.09, T:0.22
Consensus pattern (31 bp):
TAAAAAGAGATAACAAGTAATAAAAAACTAT
Found at i:9864445 original size:20 final size:21
Alignment explanation
Indices: 9864396--9864446 Score: 59
Period size: 23 Copynumber: 2.4 Consensus size: 21
9864386 TGACTTGATC
9864396 ACATTATTGGCAACAACGTCT
1 ACATTATTGGCAACAACGTCT
**
9864417 ACATCTTATTGGCAAC-TTGTCT
1 ACA--TTATTGGCAACAACGTCT
9864439 ACATTATT
1 ACATTATT
9864447 ATAGGTTTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 5 0.19
21 3 0.12
22 7 0.27
23 11 0.42
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (21 bp):
ACATTATTGGCAACAACGTCT
Found at i:9866448 original size:6 final size:6
Alignment explanation
Indices: 9866425--9866449 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
9866415 TTATATTTTG
9866425 AATTTA AATTTA AATTTA AATTTA A
1 AATTTA AATTTA AATTTA AATTTA A
9866450 TATATAATAT
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):
AATTTA
Found at i:9868009 original size:19 final size:19
Alignment explanation
Indices: 9867975--9868053 Score: 126
Period size: 19 Copynumber: 4.2 Consensus size: 19
9867965 AGATTACAAG
9867975 ATCATATCTTTAAGATTGCAT
1 ATCATATC--TAAGATTGCAT
9867996 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
9868015 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
9868032 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
9868051 ATC
1 ATC
9868054 CTTAAAGATT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.30
19 31 0.55
21 8 0.14
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.39
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:9868017 original size:14 final size:15
Alignment explanation
Indices: 9867997--9868053 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
9867987 AGATTGCATA
9867997 TCATATCTAAGATTG
1 TCATATCTAAGATTG
9868012 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
9868031 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
9868048 -CATATC
1 TCATATC
9868054 CTTAAAGATT
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.16
17 17 0.45
19 15 0.39
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.39
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:9868039 original size:36 final size:38
Alignment explanation
Indices: 9867975--9868053 Score: 126
Period size: 36 Copynumber: 2.1 Consensus size: 38
9867965 AGATTACAAG
9867975 ATCATATCTTTAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATC-TTAAGATTG-ATATCATATCTAAGATTGCAT
9868015 ATCATATC-TAAGATTG-TATCATATCTAAGATTGCAT
1 ATCATATCTTAAGATTGATATCATATCTAAGATTGCAT
9868051 ATC
1 ATC
9868054 CTTAAAGATT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
36 23 0.59
38 8 0.21
40 8 0.21
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.39
Consensus pattern (38 bp):
ATCATATCTTAAGATTGATATCATATCTAAGATTGCAT
Found at i:9868726 original size:87 final size:89
Alignment explanation
Indices: 9868635--9868836 Score: 338
Period size: 87 Copynumber: 2.3 Consensus size: 89
9868625 GCATAGGAAT
*
9868635 GTCAGATCTGCTATGTCTTTGATCTATTCCCTGTAAACATAGGGATGCCAAATCATCTTGGATCT
1 GTCAGATCTGCTATGTCTTTGATCTATTCCCTGTAAACACAGGGATGCCAAATCATCTTGGATCT
*
9868700 GCTTC-A-GTGTAAACA-CCTGAAG
66 GCTTCAATGTGAAAACATCC-GAAG
9868722 GTCAGATCTGCTATGTCTTTGATCTATTCCCTGTAAACACAGGGATGCCAAATCATCTTGGATCT
1 GTCAGATCTGCTATGTCTTTGATCTATTCCCTGTAAACACAGGGATGCCAAATCATCTTGGATCT
*
9868787 GCTTCAATGTGAAAATATCCGAAG
66 GCTTCAATGTGAAAACATCCGAAG
*
9868811 GTCAGATCTGCTATGTCTTAGATCTA
1 GTCAGATCTGCTATGTCTTTGATCTA
9868837 CTCTCCGTCG
Statistics
Matches: 108, Mismatches: 4, Indels: 4
0.93 0.03 0.03
Matches are distributed among these distances:
87 69 0.64
88 1 0.01
89 36 0.33
90 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (89 bp):
GTCAGATCTGCTATGTCTTTGATCTATTCCCTGTAAACACAGGGATGCCAAATCATCTTGGATCT
GCTTCAATGTGAAAACATCCGAAG
Found at i:9869056 original size:84 final size:84
Alignment explanation
Indices: 9868958--9869436 Score: 719
Period size: 84 Copynumber: 5.8 Consensus size: 84
9868948 TCTGTTATAC
* *
9868958 TTTAACCTATTACCCTACTGCTTAGGGGGTTAAGGCGCA-TCTTCGATCTGCTCCACTACTGCTT
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCG-AGTCTTCGATCTGCTCCACTACTGCTT
9869022 AGGGAGATAAGATCTGCAAA
65 AGGGAGATAAGATCTGCAAA
*
9869042 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCGTCGTCGATCTGCTCCGCTACTGC
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTC-T--TCGATCTGCTCCACTACTGC
9869107 TTAGGGAGATAAGATCTGC--A
63 TTAGGGAGATAAGATCTGCAAA
*
9869127 ---AACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTACTCCACTACTGCTTA
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTA
9869189 GGGAGATAAGATCTGCAAA
66 GGGAGATAAGATCTGCAAA
* * * *
9869208 TTTAACTTGTTACCCTACTGCTTAGGGGATTAAGACGGGTCTTCGATCTGCTCCAATACTGCTTA
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTA
9869273 GGGAGATAAGATCTGCAAA
66 GGGAGATAAGATCTGCAAA
* *
9869292 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGTGAGTCGTCATCGATCTGCTCCGCTACTGC
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTC-T--TCGATCTGCTCCACTACTGC
9869357 TTAGGGAGATAAGATCTGC---
63 TTAGGGAGATAAGATCTGCAAA
*
9869376 --GAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCT
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCT
9869437 GTGACAGCCC
Statistics
Matches: 364, Mismatches: 19, Indels: 29
0.88 0.05 0.07
Matches are distributed among these distances:
79 57 0.16
81 3 0.01
82 75 0.21
83 1 0.00
84 150 0.41
85 3 0.01
87 75 0.21
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (84 bp):
TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTA
GGGAGATAAGATCTGCAAA
Found at i:9869241 original size:166 final size:167
Alignment explanation
Indices: 9868960--9869436 Score: 699
Period size: 166 Copynumber: 2.9 Consensus size: 167
9868950 TGTTATACTT
* *
9868960 TAACCTATTACCCTACTGCTTAGGGGGTTAAGGCGCA-TCTTCGATCTGCTCCACTACTGCTTAG
1 TAACCTGTTACCCTACTGCTTAGGGGATTAAGGCG-AGTCTTCGATCTGCTCCACTACTGCTTAG
9869024 GGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCGTCGTC
65 GGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCGTC-TC
*
9869089 GATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGC-A
129 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAA
*
9869127 -AACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTACTCCACTACTGCTTAGG
1 TAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGG
* * *
9869191 GAGATAAGATCTGCAAATTTAACTTGTTACCCTACTGCTTAGGGGATTAAGACGGGTC-T-TCGA
66 GAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCGTCTCGA
*
9869254 TCTGCTCCAATACTGCTTAGGGAGATAAGATCTGCAAA
131 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGC-AA
* *
9869292 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGTGAGTCGTCATCGATCTGCTCCGCTACTGC
1 --TAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTC-T--TCGATCTGCTCCACTACTGC
*
9869357 TTAGGGAGATAAGATCTGC-----GAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTC-T
61 TTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCGT
9869416 -TCGATCTGCTCCACTACTGCT
126 CTCGATCTGCTCCACTACTGCT
9869437 GTGACAGCCC
Statistics
Matches: 285, Mismatches: 16, Indels: 19
0.89 0.05 0.06
Matches are distributed among these distances:
163 37 0.13
165 3 0.01
166 170 0.60
168 37 0.13
169 1 0.00
171 37 0.13
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.29
Consensus pattern (167 bp):
TAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGG
GAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCGTCTCGA
TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAA
Found at i:9869242 original size:43 final size:43
Alignment explanation
Indices: 9869179--9869318 Score: 137
Period size: 43 Copynumber: 3.3 Consensus size: 43
9869169 ATCTACTCCA
9869179 CTACTGCTTAGGGAGATAAGATCTGCAAATTTAACTTGTTACC
1 CTACTGCTTAGGGAGATAAGATCTGCAAATTTAACTTGTTACC
**** ** *
9869222 CTACTGCTTAGGG-GATTAAGA-C-GGGTCTTCGA-TCTGCT-CC
1 CTACTGCTTAGGGAGA-TAAGATCTGCAAATTTAACT-TGTTACC
* *
9869262 AATACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACC
1 -CTACTGCTTAGGGAGATAAGATCTGCAAATTTAACTTGTTACC
9869306 CTACTGCTTAGGG
1 CTACTGCTTAGGG
9869319 GATTAAGGTG
Statistics
Matches: 72, Mismatches: 17, Indels: 16
0.69 0.16 0.15
Matches are distributed among these distances:
40 3 0.04
41 24 0.33
42 6 0.08
43 37 0.51
44 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (43 bp):
CTACTGCTTAGGGAGATAAGATCTGCAAATTTAACTTGTTACC
Found at i:9869408 original size:250 final size:250
Alignment explanation
Indices: 9868958--9869436 Score: 859
Period size: 250 Copynumber: 1.9 Consensus size: 250
9868948 TCTGTTATAC
* * *
9868958 TTTAACCTATTACCCTACTGCTTAGGGGGTTAAGGCGCATCTTCGATCTGCTCCACTACTGCTTA
1 TTTAACCTATTACCCTACTGCTTAGGGGATTAAGACGCATCTTCGATCTGCTCCAATACTGCTTA
*
9869023 GGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCGTCGT
66 GGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCGTCAT
9869088 CGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGCAAACCTGTTACCCTACTGCTTAGGGGA
131 CGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGCAAACCTGTTACCCTACTGCTTAGGGGA
9869153 TTAAGGCGAGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGCAAA
196 TTAAGGCGAGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGCAAA
* * **
9869208 TTTAACTTGTTACCCTACTGCTTAGGGGATTAAGACGGGTCTTCGATCTGCTCCAATACTGCTTA
1 TTTAACCTATTACCCTACTGCTTAGGGGATTAAGACGCATCTTCGATCTGCTCCAATACTGCTTA
*
9869273 GGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGTGAGTCGTCAT
66 GGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCGTCAT
*
9869338 CGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGCGAACCTGTTACCCTACTGCTTAGGGGA
131 CGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGCAAACCTGTTACCCTACTGCTTAGGGGA
*
9869403 TTAAGGCGAGTCTTCGATCTGCTCCACTACTGCT
196 TTAAGGCGAGTCTTCGATCTACTCCACTACTGCT
9869437 GTGACAGCCC
Statistics
Matches: 218, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
250 218 1.00
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (250 bp):
TTTAACCTATTACCCTACTGCTTAGGGGATTAAGACGCATCTTCGATCTGCTCCAATACTGCTTA
GGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCGTCAT
CGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGCAAACCTGTTACCCTACTGCTTAGGGGA
TTAAGGCGAGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGCAAA
Found at i:9870923 original size:47 final size:47
Alignment explanation
Indices: 9870748--9871235 Score: 699
Period size: 47 Copynumber: 10.3 Consensus size: 47
9870738 ATGAGATATA
* *
9870748 TATATATATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAA--GTG
* *
9870797 TATATATGTGATAAGG-CTAATGTCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAA--GTG
* *
9870845 TATATATGTGATAAGGCCGAGTGGCCGATGTGATGAATGTGAAAATG
1 TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTG
* * *
9870892 CATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTG
*
9870939 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTG
* * *
9870986 CATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTG
*
9871033 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTG
* *
9871080 TATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTG
* * * *
9871127 TATATATGTGAGAAAGCCTAATGGCCCATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTG
* * * * *
9871174 CATATGTGTGATAAGGCCGAGTGGCCAATGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTG
*
9871221 TATAAATGTGATAAG
1 TATATATGTGATAAG
9871236 TCCCGAAGGG
Statistics
Matches: 396, Mismatches: 42, Indels: 4
0.90 0.10 0.01
Matches are distributed among these distances:
47 310 0.78
48 47 0.12
49 39 0.10
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:9870964 original size:94 final size:94
Alignment explanation
Indices: 9870748--9871235 Score: 771
Period size: 94 Copynumber: 5.2 Consensus size: 94
9870738 ATGAGATATA
* * *
9870748 TATATATATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA--GTGCATATGTGTGATAAGG
* * *
9870813 -CTAATGTCCGATGTGATGAATGTGAAAGTGTG
64 CCGAATGGCCAATGTGATGAATGTGAAA--GTG
* * *
9870845 TATATATGTGATAAGGCCGAGTGGCCGATGTGATGAATGTGAAAATGCATATGTGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATGTGTGATAAGGCC
9870910 GAATGGCCAATGTGATGAATGTGAAAGTG
66 GAATGGCCAATGTGATGAATGTGAAAGTG
9870939 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATGTGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATGTGTGATAAGGCC
9871004 GAATGGCCAATGTGATGAATGTGAAAGTG
66 GAATGGCCAATGTGATGAATGTGAAAGTG
* *
9871033 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATGTGTGATAAGGCC
*
9871098 GAGTGGCCAATGTGATGAATGTGAAAGTG
66 GAATGGCCAATGTGATGAATGTGAAAGTG
* * *
9871127 TATATATGTGAGAAAGCCTAATGGCCCATGTGATGAATGTGAAAGTGCATATGTGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATGTGTGATAAGGCC
* *
9871192 GAGTGGCCAATGTGATGGATGTGAAAGTG
66 GAATGGCCAATGTGATGAATGTGAAAGTG
*
9871221 TATAAATGTGATAAG
1 TATATATGTGATAAG
9871236 TCCCGAAGGG
Statistics
Matches: 366, Mismatches: 24, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
94 285 0.78
95 16 0.04
96 24 0.07
97 41 0.11
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (94 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATGTGTGATAAGGCC
GAATGGCCAATGTGATGAATGTGAAAGTG
Found at i:9872948 original size:43 final size:43
Alignment explanation
Indices: 9872899--9873117 Score: 129
Period size: 43 Copynumber: 5.2 Consensus size: 43
9872889 TGTTACAACT
*
9872899 GCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTGCC
1 GCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACC
* * * * * *
9872942 GCTTAGGG-GATTAAG----GCGAGTCTTCGATCTGCT-CCACTACT
1 GCTTAGGGAGA-TAAGATCTGCAAAT-TT-AACCTGTTACC-CTACC
*
9872983 GCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACT
1 GCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACC
* * * * * *
9873026 ACTTAGGG-GATTAAG----GCAAGTCTTCGATCTGCT-CCACTACT
1 GCTTAGGGAGA-TAAGATCTGCAAAT-TT-AACCTGTTACC-CTACC
** *
9873067 GCTTAGGGAGATAAGATCTTTAAATTTAACCTGTTACCCTACT
1 GCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACC
9873110 GCTTAGGG
1 GCTTAGGG
9873118 GATTAAGGCG
Statistics
Matches: 132, Mismatches: 24, Indels: 40
0.67 0.12 0.20
Matches are distributed among these distances:
39 9 0.07
40 8 0.06
41 41 0.31
42 8 0.06
43 51 0.39
44 8 0.06
45 7 0.05
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (43 bp):
GCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACC
Found at i:9872990 original size:41 final size:41
Alignment explanation
Indices: 9872942--9873074 Score: 130
Period size: 41 Copynumber: 3.2 Consensus size: 41
9872932 TTACCCTGCC
*
9872942 GCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACT
1 GCTTAGGGGATTAAGGCAAGTCTTCGATCTGCTCCACTACT
* * * *
9872983 GCTTAGGGAGA-TAAGATCTGCAAAT-TT-AACCTGTTACC-CTACT
1 GCTTAGGG-GATTAAG----GCAAGTCTTCGATCTGCT-CCACTACT
*
9873026 ACTTAGGGGATTAAGGCAAGTCTTCGATCTGCTCCACTACT
1 GCTTAGGGGATTAAGGCAAGTCTTCGATCTGCTCCACTACT
9873067 GCTTAGGG
1 GCTTAGGG
9873075 AGATAAGATC
Statistics
Matches: 71, Mismatches: 11, Indels: 20
0.70 0.11 0.20
Matches are distributed among these distances:
39 5 0.07
40 4 0.06
41 29 0.41
42 4 0.06
43 21 0.30
44 4 0.06
45 4 0.06
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (41 bp):
GCTTAGGGGATTAAGGCAAGTCTTCGATCTGCTCCACTACT
Found at i:9873037 original size:84 final size:84
Alignment explanation
Indices: 9872896--9873127 Score: 410
Period size: 84 Copynumber: 2.8 Consensus size: 84
9872886 GGGTGTTACA
* *
9872896 ACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTGCCGCTTAGGGGATTAAGGCGA
1 ACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGA
9872961 GTCTTCGATCTGCTCCACT
66 GTCTTCGATCTGCTCCACT
* *
9872980 ACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTACTTAGGGGATTAAGGCAA
1 ACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGA
9873045 GTCTTCGATCTGCTCCACT
66 GTCTTCGATCTGCTCCACT
**
9873064 ACTGCTTAGGGAGATAAGATCTTTAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCG
1 ACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCG
9873128 CTGAATTTTG
Statistics
Matches: 140, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
84 140 1.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (84 bp):
ACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGA
GTCTTCGATCTGCTCCACT
Found at i:9874123 original size:24 final size:23
Alignment explanation
Indices: 9874093--9874142 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
9874083 GGCCTCTCCA
* *
9874093 TTTTTTTCTTTTTATTTTTATTTT
1 TTTTTTTCCTTTT-CTTTTATTTT
*
9874117 TTTTTTTCCTTTTCTTTTCTTTT
1 TTTTTTTCCTTTTCTTTTATTTT
9874140 TTT
1 TTT
9874143 CCCTTTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 11 0.48
24 12 0.52
ACGTcount: A:0.04, C:0.10, G:0.00, T:0.86
Consensus pattern (23 bp):
TTTTTTTCCTTTTCTTTTATTTT
Found at i:9874129 original size:10 final size:10
Alignment explanation
Indices: 9874116--9874153 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
9874106 ATTTTTATTT
9874116 TTTTTTTTCC
1 TTTTTTTTCC
9874126 TTTTCTTTT-C
1 TTTT-TTTTCC
*
9874136 TTTTTTTCCC
1 TTTTTTTTCC
9874146 TTTTTTTT
1 TTTTTTTT
9874154 TGAAATAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
9 3 0.12
10 17 0.71
11 4 0.17
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTTTTCC
Found at i:9874129 original size:19 final size:18
Alignment explanation
Indices: 9874093--9874154 Score: 63
Period size: 20 Copynumber: 3.3 Consensus size: 18
9874083 GGCCTCTCCA
* *
9874093 TTTTTTTCTTTTT-ATTT
1 TTTTTTTTTTTTTCCTTT
9874110 TTATTTTTTTTTTTCCTTT
1 TT-TTTTTTTTTTTCCTTT
*
9874129 TCTTTTCTTTTTTTCCCTTT
1 T-TTTT-TTTTTTTTCCTTT
9874149 TTTTTT
1 TTTTTT
9874155 GAAATAAAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
17 2 0.05
18 11 0.29
19 11 0.29
20 14 0.37
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.84
Consensus pattern (18 bp):
TTTTTTTTTTTTTCCTTT
Found at i:9876364 original size:23 final size:23
Alignment explanation
Indices: 9876338--9876384 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
9876328 CAAAAGAAAT
9876338 CTCAGTAAAATTCCTAAAGATTA
1 CTCAGTAAAATTCCTAAAGATTA
9876361 CTCAGTAAAATTCCTAAAGATTA
1 CTCAGTAAAATTCCTAAAGATTA
9876384 C
1 C
9876385 AGGAAGTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.43, C:0.19, G:0.09, T:0.30
Consensus pattern (23 bp):
CTCAGTAAAATTCCTAAAGATTA
Found at i:9878345 original size:21 final size:21
Alignment explanation
Indices: 9878301--9878345 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
9878291 CAACATTTTT
* * **
9878301 AAATCGAGTTTTGGAAAATGG
1 AAATCGACTTTAGGAAAAACG
9878322 AAATCGACTTTAGGAAAAACG
1 AAATCGACTTTAGGAAAAACG
9878343 AAA
1 AAA
9878346 ACAGGAGTCG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.47, C:0.09, G:0.22, T:0.22
Consensus pattern (21 bp):
AAATCGACTTTAGGAAAAACG
Found at i:9879730 original size:22 final size:21
Alignment explanation
Indices: 9879700--9879765 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
9879690 TACAAATTAA
9879700 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
9879722 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
9879743 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
9879762 ATCT
1 ATCT
9879766 AAGATTGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:9879752 original size:19 final size:19
Alignment explanation
Indices: 9879717--9879814 Score: 164
Period size: 19 Copynumber: 5.2 Consensus size: 19
9879707 AGATTACAAG
9879717 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
9879738 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
9879757 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
9879774 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
9879793 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
9879812 ATC
1 ATC
9879815 CTTAAAGATT
Statistics
Matches: 75, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.23
19 49 0.65
20 1 0.01
21 8 0.11
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:9879781 original size:36 final size:37
Alignment explanation
Indices: 9879717--9879814 Score: 153
Period size: 36 Copynumber: 2.6 Consensus size: 37
9879707 AGATTACAAG
9879717 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATC-T-AAGATTG-ATATCATATCTAAGATTGCAT
9879757 ATCATATCTAAGATTG-TATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
9879793 ATCATATCTAAGATTGCATATC
1 ATCATATCTAAGATTG-ATATC
9879815 CTTAAAGATT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
36 36 0.64
38 11 0.20
39 1 0.02
40 8 0.14
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
Found at i:9880389 original size:2 final size:2
Alignment explanation
Indices: 9880380--9880420 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
9880370 TTATATACAC
9880380 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9880421 CAATCTTTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:9881767 original size:55 final size:55
Alignment explanation
Indices: 9881708--9881812 Score: 140
Period size: 55 Copynumber: 1.9 Consensus size: 55
9881698 CGTGTGAAAC
* *
9881708 ACTGACTT-TAGGGCACGGCCATGACACACGCCCGTGTGGCCTACCCGTGGGCAAT
1 ACTGACTTATAGAG-ACGGCCATGACACACGCCCGTGTGGCCTAACCGTGGGCAAT
* * * *
9881763 ACTGACTTATAGAGATGGCTATGGCATACGCCCGTGTGGCCTAACCGTGG
1 ACTGACTTATAGAGACGGCCATGACACACGCCCGTGTGGCCTAACCGTGG
9881813 ACAACACTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
55 39 0.91
56 4 0.09
ACGTcount: A:0.21, C:0.29, G:0.30, T:0.21
Consensus pattern (55 bp):
ACTGACTTATAGAGACGGCCATGACACACGCCCGTGTGGCCTAACCGTGGGCAAT
Found at i:9882805 original size:47 final size:46
Alignment explanation
Indices: 9882583--9882884 Score: 174
Period size: 47 Copynumber: 6.5 Consensus size: 46
9882573 TTGCCACTGC
** * *
9882583 CATGTCCCAGACATGGTCTTATGCTGGCTATC-TCCATTGAGGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTGGC-ATCAT-CATCGAGGCTGATG
* * * *
9882631 CCATGTCCCAAACATGGTCTTACACTAGC-TC-TCGTGTCTACGTGCTGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCATCATC--ATCGA-G-GCTGATG
* * * * *
9882681 CATGTCCCAGACATGTCTTACACTAGCATGA--AACTTA-GCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCATCATCATC-GAGGCTGATG
* ** *
9882725 CGTGTCCCAGACACATCTTACACTAGCTATCATCATCGAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTGGC-ATCATCATCGAGGCTGATG
* * * ** *
9882772 TATGTCCTAGACATGTCTTACACTGGCACTCATC-TCTACACCGATG
1 CATGTCCCAGACATGTCTTACACTGGCA-TCATCATCGAGGCTGATG
*
9882818 CCATGTCCCAGACGTGGTCTTACACTGG---CATCATCGAGGCTGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCATCATCATCGAGGCTGATG
**
9882863 CATGTCCCAGACACATCTTACA
1 CATGTCCCAGACATGTCTTACA
9882885 GTAGCCCTCA
Statistics
Matches: 198, Mismatches: 40, Indels: 36
0.72 0.15 0.13
Matches are distributed among these distances:
43 7 0.04
44 46 0.23
45 11 0.06
46 12 0.06
47 50 0.25
48 27 0.14
49 39 0.20
50 6 0.03
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCATCATCATCGAGGCTGATG
Found at i:9882850 original size:91 final size:88
Alignment explanation
Indices: 9882755--9882934 Score: 227
Period size: 91 Copynumber: 2.0 Consensus size: 88
9882745 CACTAGCTAT
* * ** *
9882755 CATCATCGAGGCTGATGTATGTCCTAGACATGTCTTACACTGGCACTCATCTCTACA-CCGATGC
1 CATCATCGAGGCTGATGCATGTCCCAGACACATCTTACACTAGCACTCATCT-TA-AGCCGATGC
*
9882819 CATGTCCCAGACGTGGTCTTACACTGG
64 CATGT--CAGACATGGTCTTACACTGG
* *
9882846 CATCATCGAGGCTGATGCATGTCCCAGACACATCTTACAGTAGCCCTCATCTTAATGCCGATGCC
1 CATCATCGAGGCTGATGCATGTCCCAGACACATCTTACACTAGCACTCATCTTAA-GCCGATGCC
*
9882911 ATGTCAGACATGGTCTTATACTGG
65 ATGTCAGACATGGTCTTACACTGG
9882935 TTCTCACATA
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
89 19 0.24
90 2 0.03
91 57 0.73
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (88 bp):
CATCATCGAGGCTGATGCATGTCCCAGACACATCTTACACTAGCACTCATCTTAAGCCGATGCCA
TGTCAGACATGGTCTTACACTGG
Found at i:9882915 original size:138 final size:139
Alignment explanation
Indices: 9882622--9882934 Score: 316
Period size: 138 Copynumber: 2.3 Consensus size: 139
9882612 ATCTCCATTG
* * * * * * *
9882622 AGGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCGTGTCTACGTGCTGATGCATGTC
1 AGGCCGATGCCATGT-CCAGACATGGTCTTACACTGGCACTCATCTCTACG-ACCGATGCATGTC
* *
9882687 CCAGACATGTCTTACACTAGCATGAAACTTAGCCGATGCGTGTCCCAGACACATCTTACACTAGC
64 CCAGACATGTCTTACACTAGCATGAAACTGAGCCGATGCATGTCCCAGACACATCTTACACTAGC
* *
9882752 TATCATCATCG
129 CATCATCATCA
* *
9882763 AGGCTGATG-TATGTCCTAGACAT-GTCTTACACTGGCACTCATCTCTAC-ACCGATGCCATGTC
1 AGGCCGATGCCATGTCC-AGACATGGTCTTACACTGGCACTCATCTCTACGACCGATG-CATGTC
* * * * * *
9882825 CCAGACGTGGTCTTACACTGGCAT-CATC-GAGGCTGATGCATGTCCCAGACACATCTTACAGTA
64 CCAGACAT-GTCTTACACTAGCATGAAACTGA-GCCGATGCATGTCCCAGACACATCTTACACTA
* *
9882888 GCCCTCATC-TTA
127 GCCATCATCATCA
* *
9882900 ATGCCGATGCCATGT-CAGACATGGTCTTATACTGG
1 AGGCCGATGCCATGTCCAGACATGGTCTTACACTGG
9882935 TTCTCACATA
Statistics
Matches: 141, Mismatches: 25, Indels: 16
0.77 0.14 0.09
Matches are distributed among these distances:
136 6 0.04
137 26 0.18
138 55 0.39
139 37 0.26
140 9 0.06
141 8 0.06
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (139 bp):
AGGCCGATGCCATGTCCAGACATGGTCTTACACTGGCACTCATCTCTACGACCGATGCATGTCCC
AGACATGTCTTACACTAGCATGAAACTGAGCCGATGCATGTCCCAGACACATCTTACACTAGCCA
TCATCATCA
Found at i:9883386 original size:11 final size:11
Alignment explanation
Indices: 9883360--9883398 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
9883350 AATAGAAAAA
*
9883360 TTTTACTTTG-
1 TTTTATTTTGT
9883370 TTTTATTTTGT
1 TTTTATTTTGT
*
9883381 TTTTATTTTAT
1 TTTTATTTTGT
9883392 TTTTATT
1 TTTTATT
9883399 GTATTAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
10 9 0.35
11 17 0.65
ACGTcount: A:0.13, C:0.03, G:0.05, T:0.79
Consensus pattern (11 bp):
TTTTATTTTGT
Found at i:9883403 original size:11 final size:11
Alignment explanation
Indices: 9883370--9883403 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
9883360 TTTTACTTTG
*
9883370 TTTTATTTTGT
1 TTTTATTTTAT
9883381 TTTTATTTTAT
1 TTTTATTTTAT
*
9883392 TTTTATTGTAT
1 TTTTATTTTAT
9883403 T
1 T
9883404 AATTTAGGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.06, T:0.79
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:9884433 original size:16 final size:17
Alignment explanation
Indices: 9884402--9884434 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
9884392 TTCATAAGTA
9884402 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
9884419 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
9884435 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:9884967 original size:138 final size:138
Alignment explanation
Indices: 9884714--9884977 Score: 384
Period size: 138 Copynumber: 1.9 Consensus size: 138
9884704 TTATCTTGGA
* * * * *
9884714 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTT
1 CATGATGCCATAGTATCTTTCAACCATGGTCTTACTCATTTTATATCACGTTGCCATGGTATCTT
* * * *
9884779 TCACCCATGGTCTTATTCATTTCATGTCACGCTATCATGGTATCTTTCAACCATGGTCTTATTCA
66 TCAACCATGGTCTTATACATTTCATATCACGCTACCATGGTATCTTTCAACCATGGTCTTATTCA
9884844 TTTCCCGT
131 TTTCCCGT
* * * *
9884852 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTATATTACGTTGCCATGGTATCTT
1 CATGATGCCATAGTATCTTTCAACCATGGTCTTACTCATTTTATATCACGTTGCCATGGTATCTT
* * *
9884917 TCAACCATGGTCTTATACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTA
66 TCAACCATGGTCTTATACATTTCATATCACGCTACCATGGTATCTTTCAACCATGGTCTTA
9884978 CACATTTCAT
Statistics
Matches: 110, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
138 110 1.00
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.42
Consensus pattern (138 bp):
CATGATGCCATAGTATCTTTCAACCATGGTCTTACTCATTTTATATCACGTTGCCATGGTATCTT
TCAACCATGGTCTTATACATTTCATATCACGCTACCATGGTATCTTTCAACCATGGTCTTATTCA
TTTCCCGT
Found at i:9884983 original size:46 final size:46
Alignment explanation
Indices: 9884719--9884991 Score: 341
Period size: 46 Copynumber: 5.9 Consensus size: 46
9884709 TTGGACATGA
* * * * * *
9884719 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATATCACGT
* * *
9884765 TGCCATGGTATCTTTCACCCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
** *** *
9884811 TATCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
* *
9884857 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTATATTACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
* *
9884903 TGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
**
9884949 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCA
9884992 AAGAGTACAC
Statistics
Matches: 199, Mismatches: 27, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
45 4 0.02
46 195 0.98
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
Found at i:9885092 original size:54 final size:54
Alignment explanation
Indices: 9885026--9885162 Score: 265
Period size: 54 Copynumber: 2.5 Consensus size: 54
9885016 TCCTTACAGT
9885026 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
1 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
9885080 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
1 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
*
9885134 GGGATTATCAGTCCAGGCTAAATCCCCTG
1 GGGATTACCAGTCCAGGCTAAATCCCCTG
9885163 CAACGACAAT
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
54 82 1.00
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (54 bp):
GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
Found at i:9889796 original size:24 final size:27
Alignment explanation
Indices: 9889768--9889906 Score: 187
Period size: 27 Copynumber: 5.3 Consensus size: 27
9889758 AGCATGGCTG
*
9889768 CCAGAACAGATA-ATGT-GCA-AGTCA
1 CCAGAACAGATATATGTGGCAGAGCCA
9889792 CCAGAACAGATA-ATCGTGGCAGAGCCA
1 CCAGAACAGATATAT-GTGGCAGAGCCA
9889819 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
* *
9889846 CCAGATCAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
* * *
9889873 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
9889900 CCAGAAC
1 CCAGAAC
9889907 GCTTCCTCCA
Statistics
Matches: 106, Mismatches: 5, Indels: 5
0.91 0.04 0.04
Matches are distributed among these distances:
24 14 0.13
25 2 0.02
26 3 0.03
27 85 0.80
28 2 0.02
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (27 bp):
CCAGAACAGATATATGTGGCAGAGCCA
Found at i:9891506 original size:26 final size:26
Alignment explanation
Indices: 9891470--9891604 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
9891460 CATGAAATTC
*
9891470 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
9891496 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
9891522 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
9891548 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
9891574 TTATCATG-AACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
9891599 TTATCA
1 TTATCA
9891605 ATTTGTATCA
Statistics
Matches: 107, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
25 23 0.21
26 84 0.79
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:9895582 original size:27 final size:28
Alignment explanation
Indices: 9895545--9895684 Score: 184
Period size: 27 Copynumber: 5.2 Consensus size: 28
9895535 AGCATGGCTG
* *
9895545 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
9895571 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
9895599 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
9895626 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
9895653 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
9895680 CCAGA
1 CCAGA
9895685 ACGCTTCCTC
Statistics
Matches: 106, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
26 5 0.05
27 84 0.79
28 17 0.16
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:9897364 original size:26 final size:26
Alignment explanation
Indices: 9897295--9897429 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
9897285 CATGAAATTC
* *
9897295 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
*
9897321 TTATCAT-GAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
9897346 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
9897372 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
*
9897398 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
9897424 TTATCA
1 TTATCA
9897430 ATTTGTATCA
Statistics
Matches: 105, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
25 24 0.23
26 81 0.77
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:9897943 original size:15 final size:15
Alignment explanation
Indices: 9897923--9897956 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
9897913 AAAGCCCATG
9897923 AAATAAGCATACTAA
1 AAATAAGCATACTAA
9897938 AAATAAGCATACTAA
1 AAATAAGCATACTAA
9897953 AAAT
1 AAAT
9897957 GTAAAAAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.21
Consensus pattern (15 bp):
AAATAAGCATACTAA
Found at i:9902213 original size:16 final size:16
Alignment explanation
Indices: 9902185--9902222 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
9902175 ATGAGCAAAT
*
9902185 TATAAA-CATATAAAA
1 TATAAATCAAATAAAA
9902200 TATAAATCAAATAAAA
1 TATAAATCAAATAAAA
*
9902216 TAAAAAT
1 TATAAAT
9902223 AAAGATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.26
Consensus pattern (16 bp):
TATAAATCAAATAAAA
Found at i:9902518 original size:21 final size:20
Alignment explanation
Indices: 9902494--9902613 Score: 77
Period size: 21 Copynumber: 5.7 Consensus size: 20
9902484 AATAAAACTT
9902494 TATAAACAAAATATATAATAA
1 TATAAA-AAAATATATAATAA
*
9902515 TAT-AAACAATATGATAGATAA
1 TATAAAAAAATAT-ATA-ATAA
9902536 TATATAAAATAATATAT-AT-A
1 TATA-AAAA-AATATATAATAA
* *
9902556 TAGT-AAAATATATGTAATATAA
1 TA-TAAAAAAATATAT-A-ATAA
* *
9902578 TATATAATAATATATAATAA
1 TATAAAAAAATATATAATAA
9902598 TATAATAAATAATATA
1 TATAA-AAA-AATATA
9902614 CAAAGATAAA
Statistics
Matches: 76, Mismatches: 10, Indels: 25
0.68 0.09 0.23
Matches are distributed among these distances:
18 5 0.07
19 10 0.13
20 16 0.21
21 19 0.25
22 16 0.21
23 5 0.07
24 5 0.07
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (20 bp):
TATAAAAAAATATATAATAA
Found at i:9902546 original size:40 final size:40
Alignment explanation
Indices: 9902501--9902602 Score: 120
Period size: 42 Copynumber: 2.5 Consensus size: 40
9902491 CTTTATAAAC
9902501 AAAATATATAATAATATAAACA-ATATG-ATAGATAATATAT
1 AAAATATATAATAATATAAA-ATATATGTA-AGATAATATAT
*
9902541 AAAATA-ATATATATATAGTAAAATATATGTAATATAATATAT
1 AAAATATATA-ATA-ATA-TAAAATATATGTAAGATAATATAT
9902583 AATAATATATAATAATATAA
1 AA-AATATATAATAATATAA
9902603 TAAATAATAT
Statistics
Matches: 54, Mismatches: 1, Indels: 13
0.79 0.01 0.19
Matches are distributed among these distances:
39 3 0.06
40 9 0.17
41 7 0.13
42 24 0.44
43 8 0.15
44 3 0.06
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.35
Consensus pattern (40 bp):
AAAATATATAATAATATAAAATATATGTAAGATAATATAT
Found at i:9902547 original size:12 final size:12
Alignment explanation
Indices: 9902532--9902613 Score: 51
Period size: 10 Copynumber: 7.7 Consensus size: 12
9902522 AATATGATAG
9902532 ATAATATATAAA
1 ATAATATATAAA
9902544 ATAATATAT---
1 ATAATATATAAA
*
9902553 AT-ATA-GTAAA
1 ATAATATATAAA
* *
9902563 AT-ATATGTAAT
1 ATAATATATAAA
9902574 ATAATATAT--A
1 ATAATATATAAA
9902584 ATAATATAT--A
1 ATAATATATAAA
9902594 ATAATATA-ATAA
1 ATAATATATA-AA
9902606 ATAATATA
1 ATAATATA
9902614 CAAAGATAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
7 1 0.02
8 3 0.05
9 2 0.03
10 23 0.40
11 6 0.10
12 23 0.40
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (12 bp):
ATAATATATAAA
Found at i:9902605 original size:28 final size:28
Alignment explanation
Indices: 9902503--9902605 Score: 85
Period size: 24 Copynumber: 3.7 Consensus size: 28
9902493 TTATAAACAA
*
9902503 AATATATAATAATATAAACAATATGATAGAT
1 AATATATAATAATAT-AATAATAT-ATA-AT
9902534 AATATATAA-AATA-ATATATATATAGTAA-
1 AATATATAATAATATA-ATA-ATATA-TAAT
*
9902562 AATATAT-GT-A-AT-ATAATATATAAT
1 AATATATAATAATATAATAATATATAAT
9902586 AATATATAATAATATAATAA
1 AATATATAATAATATAATAA
9902606 ATAATATACA
Statistics
Matches: 59, Mismatches: 3, Indels: 23
0.69 0.04 0.27
Matches are distributed among these distances:
23 3 0.05
24 12 0.20
25 4 0.07
26 2 0.03
27 3 0.05
28 12 0.20
29 4 0.07
30 10 0.17
31 9 0.15
ACGTcount: A:0.59, C:0.01, G:0.04, T:0.36
Consensus pattern (28 bp):
AATATATAATAATATAATAATATATAAT
Found at i:9902622 original size:25 final size:25
Alignment explanation
Indices: 9902570--9902622 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
9902560 AAAATATATG
* * *
9902570 TAATATAATATATAATAATATATAA
1 TAATATAATAAATAATAATACAAAA
9902595 TAATATAATAAATAAT-ATACAAAGA
1 TAATATAATAAATAATAATACAAA-A
9902620 TAA
1 TAA
9902623 ATACTATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (25 bp):
TAATATAATAAATAATAATACAAAA
Found at i:9904884 original size:44 final size:44
Alignment explanation
Indices: 9904203--9904883 Score: 915
Period size: 44 Copynumber: 15.5 Consensus size: 44
9904193 TCAAGAATGT
* * * *
9904203 CAAACCTGCTATCTTTGATCTGCTCTCCGACAATACAGAGACGT
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
* * *
9904247 CAAATCTGCTATCTTTGATCTGCTCTCTGACAATACAAAGACTC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
* *
9904291 CAAATCTG-TCATCTTCGATCTACTTTCTGACAATACAGAGACGC
1 CAAATCTGCT-ATCTTCGATCTGCTCTCTGACAATACAGAGACGC
* * *
9904335 TAAATCTGCTATCCTCAATCTGCTCTCTGACAATACAGAGACGC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
* *
9904379 CAAATCTG-TCATCTTCGATCTGCTCTCAGACAATACAGAGATGC
1 CAAATCTGCT-ATCTTCGATCTGCTCTCTGACAATACAGAGACGC
*
9904423 CAAATCTG-TCATCTTCGATCTACTCTCTGACAATACAGAGACGC
1 CAAATCTGCT-ATCTTCGATCTGCTCTCTGACAATACAGAGACGC
* * *
9904467 CAAATCTGTTATCTTCGATCTGCTCTCTGACAACACAAAGACGC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
* *
9904511 CAAATCTGTTATCTTCGATCTGCTCTCTGACAACACAGAGACGC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
** * *
9904555 CAAATCTGCTATCTTCGATCTAATCTCTGACAATACAGAGATGT
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
* *
9904599 CAAATCTGCTATCCTCGATCTGCTCTCTGACAATACAGAGATGC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
* * * *
9904643 CAAATCTAAC-ATCTTCAATCTGCTCTTTGACAATACAGAGACAC
1 CAAATCT-GCTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
9904687 CAAATCTG-TCATCTTCGATCTGCTCTCTGACAATACAGAGACGC
1 CAAATCTGCT-ATCTTCGATCTGCTCTCTGACAATACAGAGACGC
* *
9904731 CAAATCTG-TCATCTTTGATCTGCTCTCTGACAATATAGAGACGC
1 CAAATCTGCT-ATCTTCGATCTGCTCTCTGACAATACAGAGACGC
* *
9904775 CAAATCTGTTATCTTTGATCTGCTCTCTGACAATACAGAGACGC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
* * * *
9904819 CAAATCTACTATCTTCGATCTACTCTCTGACAGTACAGAGACAC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
*
9904863 CAAATCTGCTATCTTTGATCT
1 CAAATCTGCTATCTTCGATCT
9904884 ATATTGTCGC
Statistics
Matches: 571, Mismatches: 58, Indels: 16
0.89 0.09 0.02
Matches are distributed among these distances:
43 2 0.00
44 565 0.99
45 4 0.01
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (44 bp):
CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
Found at i:9916988 original size:10 final size:10
Alignment explanation
Indices: 9916973--9917083 Score: 79
Period size: 10 Copynumber: 10.6 Consensus size: 10
9916963 TTATAAACAA
9916973 AATATATAAT
1 AATATATAAT
*
9916983 AATATA-AAC
1 AATATATAAT
9916992 AATATGATAGAT
1 AATAT-ATA-AT
9917004 AATATATAA-
1 AATATATAAT
9917013 AATA-ATATAT
1 AATATATA-AT
9917023 ATATATAGTAA-
1 A-ATATA-TAAT
*
9917034 AATGTATGTAAT
1 AA--TATATAAT
9917046 ATCATATATAAT
1 A--ATATATAAT
9917058 AATATATAAT
1 AATATATAAT
9917068 AATA-ATAAAT
1 AATATAT-AAT
9917078 AATATA
1 AATATA
9917084 CAAAGATAAA
Statistics
Matches: 82, Mismatches: 4, Indels: 29
0.71 0.03 0.25
Matches are distributed among these distances:
8 3 0.04
9 14 0.17
10 30 0.37
11 12 0.15
12 20 0.24
13 2 0.02
14 1 0.01
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.36
Consensus pattern (10 bp):
AATATATAAT
Found at i:9916989 original size:21 final size:22
Alignment explanation
Indices: 9916964--9917023 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 22
9916954 TAATAAAATT
9916964 TATAAACAAAATATATA-ATAA
1 TATAAACAAAATATATAGATAA
9916985 TATAAAC--AATATGATAGATAA
1 TATAAACAAAATAT-ATAGATAA
9917006 TATATAA-AATAATATATA
1 TATA-AACAA-AATATATA
9917024 TATATAGTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
19 5 0.15
20 3 0.09
21 15 0.45
22 2 0.06
23 3 0.09
24 5 0.15
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (22 bp):
TATAAACAAAATATATAGATAA
Found at i:9917064 original size:12 final size:12
Alignment explanation
Indices: 9916951--9917083 Score: 62
Period size: 12 Copynumber: 11.1 Consensus size: 12
9916941 AATATATAAC
*
9916951 ATATAATAAAAT
1 ATATAATAATAT
* * *
9916963 TTATAAACAAAAT
1 ATAT-AATAATAT
9916976 ATATAATAATAT
1 ATATAATAATAT
* *
9916988 AAACAAT-ATGAT
1 ATATAATAAT-AT
*
9917000 AGATAAT-ATAT
1 ATATAATAATAT
*
9917011 AAAATAATATATAT
1 -ATATAATA-ATAT
* *
9917025 ATATAGTAAAAT
1 ATATAATAATAT
* *
9917037 GTAT-GTAATAT
1 ATATAATAATAT
9917048 CATAT-ATAATAAT
1 -ATATAATAAT-AT
9917061 ATATAATAATA-
1 ATATAATAATAT
9917072 ATA-AATAATAT
1 ATATAATAATAT
9917083 A
1 A
9917084 CAAAGATAAA
Statistics
Matches: 95, Mismatches: 17, Indels: 19
0.73 0.13 0.15
Matches are distributed among these distances:
10 7 0.07
11 14 0.15
12 47 0.49
13 23 0.24
14 4 0.04
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (12 bp):
ATATAATAATAT
Found at i:9920624 original size:23 final size:23
Alignment explanation
Indices: 9920577--9920624 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
9920567 TGATCACATC
*
9920577 ATTGGCAACATCGTCTACATCTT
1 ATTGGCAACATCGTCTACATATT
*
9920600 ATTGGCAAC-TTGTCTACATTATT
1 ATTGGCAACATCGTCTACA-TATT
9920623 AT
1 AT
9920625 AGGTTTACTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.27, C:0.21, G:0.12, T:0.40
Consensus pattern (23 bp):
ATTGGCAACATCGTCTACATATT
Found at i:9923069 original size:19 final size:19
Alignment explanation
Indices: 9923016--9923095 Score: 83
Period size: 19 Copynumber: 4.3 Consensus size: 19
9923006 CATATCATAT
* *
9923016 CATATCATATCTAAAATTG
1 CATATCACATCTAAGATTG
* *
9923035 --TATCATATCAAAGATTG
1 CATATCACATCTAAGATTG
* *
9923052 CATTTCACATCTAAGATTT
1 CATATCACATCTAAGATTG
*
9923071 CATATCATATCTAAGATTG
1 CATATCACATCTAAGATTG
9923090 CATATC
1 CATATC
9923096 CTTAAAGATT
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
17 15 0.30
19 35 0.70
ACGTcount: A:0.38, C:0.17, G:0.07, T:0.38
Consensus pattern (19 bp):
CATATCACATCTAAGATTG
Found at i:9923503 original size:45 final size:45
Alignment explanation
Indices: 9923448--9923645 Score: 240
Period size: 45 Copynumber: 4.5 Consensus size: 45
9923438 GGAAGGCGAT
* * *
9923448 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACCGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
9923493 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* ** * * *
9923538 ATTTCCT-TCTTCAATCTGCT-CCCGTCTAATACAGAGATGTCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * * *
9923581 A-CTGTTATCTCCGATTTGCTCCCCGTCTAATACAAAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* *
9923625 ATCTGTCATCTTGGATCTGCT
1 ATCTGTTATCTTCGATCTGCT
9923646 TCGATGTAAA
Statistics
Matches: 129, Mismatches: 21, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
42 2 0.02
43 32 0.25
44 34 0.26
45 61 0.47
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.32
Consensus pattern (45 bp):
ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
Found at i:9923610 original size:87 final size:89
Alignment explanation
Indices: 9923462--9923626 Score: 253
Period size: 87 Copynumber: 1.9 Consensus size: 89
9923452 GCTATCTTTG
* *
9923462 ATCTGCTCCCCGTCTAATACCGAGACGCCAAATCTGTTATCTTCGATCTGCTCCCCGTCTAATAC
1 ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTCCGATCTGCTCCCCGTCTAATAC
*
9923527 AGAGACGCCAAATTTCCTTCTTCA
66 AAAGACGCCAAATTTCCTTCTTCA
* * *
9923551 ATCTGCT-CCCGTCTAATACAGAGATGTCAAA-CTGTTATCTCCGATTTGCTCCCCGTCTAATAC
1 ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTCCGATCTGCTCCCCGTCTAATAC
*
9923614 AAAGATGCCAAAT
66 AAAGACGCCAAAT
9923627 CTGTCATCTT
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
87 41 0.59
88 21 0.30
89 7 0.10
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.29
Consensus pattern (89 bp):
ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTCCGATCTGCTCCCCGTCTAATAC
AAAGACGCCAAATTTCCTTCTTCA
Found at i:9923995 original size:44 final size:44
Alignment explanation
Indices: 9923947--9924603 Score: 248
Period size: 44 Copynumber: 14.9 Consensus size: 44
9923937 CCAAATATTC
*
9923947 TATCTTCGATCTACTCTCCACCAATACAAAGACT-CCAAATCTAT
1 TATCTTCGATCTGCTCTCCACCAATACAAAGA-TGCCAAATCTAT
* ** * *
9923991 TATCTTCGATCTGTTCTCTGCCAATACAGAGATGTCAAATCTAT
1 TATCTTCGATCTGCTCTCCACCAATACAAAGATGCCAAATCTAT
*** *
9924035 TATCTTCGATCTGCTCTTTGCCAATACAGAGATGCCAAATC---
1 TATCTTCGATCTGCTCTCCACCAATACAAAGATGCCAAATCTAT
* * * * ** *
9924076 -ATCTTAGA-CTTG-TTTCAACGTAA-ACACGTGGAAGCCAAATC-AGCT
1 TATCTTCGATC-TGCTCTCCAC-CAATACA--AAGATGCCAAATCTA--T
* * ** * *
9924121 ATGTCTTCGATCTGCACTCTGCCGAATACAGAGATGCCAAATCTGT
1 -TATCTTCGATCTGCTCTCCACC-AATACAAAGATGCCAAATCTAT
* * ** **
9924167 CATCTTTGATCTGCTCTCTGCCAATACAAAGATGCCAAATCTGC
1 TATCTTCGATCTGCTCTCCACCAATACAAAGATGCCAAATCTAT
** *
9924211 TATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATC---
1 TATCTTCGATCTGCTCTCCACCAATACAAAGATGCCAAATCTAT
* * ** ** *
9924252 -ATCTTAGA-CTTGCT-TCAATGTAA-ACACGTGGAAGCCAAATC-AGCT
1 TATCTTCGATC-TGCTCTCCA-CCAATACA--AAGATGCCAAATCTA--T
* * * *
9924297 ATGTCTTCGATCTGCTCTCCGCCGAATACAGAGATGCCAAATCTGT
1 -TATCTTCGATCTGCTCTCCACC-AATACAAAGATGCCAAATCTAT
* * ** * **
9924343 CATCTTTGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGC
1 TATCTTCGATCTGCTCTCCACCAATACAAAGATGCCAAATCTAT
* ** *
9924387 TATCTTCGATCTGCTATCTGCCAATACAGAGATGCCAAATC---
1 TATCTTCGATCTGCTCTCCACCAATACAAAGATGCCAAATCTAT
* * * * * *
9924428 -ATCTTAGA-CTTGCT-TCAACGTAA-ACACATGGAAGCCAAATC-AGC
1 TATCTTCGATC-TGCTCTCCAC-CAATACA-A-AGATGCCAAATCTA-T
* * *
9924472 TATGCCTTCGATCTGCTCTCCGCCAAATACAGAGATGCCAAATCTGT
1 TAT--CTTCGATCTGCTCTCCACC-AATACAAAGATGCCAAATCTAT
* * ** *
9924519 CATCTTCGATCTACTCTCTGCCAATACAGAGATGCCAAATCTAT
1 TATCTTCGATCTGCTCTCCACCAATACAAAGATGCCAAATCTAT
* * * ** *
9924563 TGTCTTTGATCTGCTTTCTGCCAATACAGAGATGCCAAATC
1 TATCTTCGATCTGCTCTCCACCAATACAAAGATGCCAAATC
9924604 ATCTTGGATA
Statistics
Matches: 478, Mismatches: 89, Indels: 92
0.73 0.14 0.14
Matches are distributed among these distances:
39 20 0.04
40 37 0.08
41 30 0.06
43 1 0.00
44 248 0.52
45 55 0.12
46 2 0.00
47 59 0.12
48 17 0.04
49 9 0.02
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (44 bp):
TATCTTCGATCTGCTCTCCACCAATACAAAGATGCCAAATCTAT
Found at i:9924189 original size:176 final size:176
Alignment explanation
Indices: 9923949--9924608 Score: 1054
Period size: 176 Copynumber: 3.8 Consensus size: 176
9923939 AAATATTCTA
* * * * * *
9923949 TCTTCGATCTACTCTCCACC-AATACAAAGACT-CCAAATCTATTATCTTCGATCTGTTCTCTGC
1 TCTTCGATCTGCTCTCCGCCGAATACAGAGA-TGCCAAATCTGTCATCTTCGATCTGCTCTCTGC
* * *
9924012 CAATACAGAGATGTCAAATCTATTATCTTCGATCTGCTCTTTGCCAATACAGAGATGCCAAATCA
65 CAATACAGAGATGCCAAATCTACTATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCA
*
9924077 TCTTAGACTTGTTTCAACGTAAACACGTGGAAGCCAAATCAGCTATG
130 TCTTAGACTTGCTTCAACGTAAACACGTGGAAGCCAAATCAGCTATG
* * *
9924124 TCTTCGATCTGCACTCTGCCGAATACAGAGATGCCAAATCTGTCATCTTTGATCTGCTCTCTGCC
1 TCTTCGATCTGCTCTCCGCCGAATACAGAGATGCCAAATCTGTCATCTTCGATCTGCTCTCTGCC
* *
9924189 AATACAAAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCAT
66 AATACAGAGATGCCAAATCTACTATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCAT
*
9924254 CTTAGACTTGCTTCAATGTAAACACGTGGAAGCCAAATCAGCTATG
131 CTTAGACTTGCTTCAACGTAAACACGTGGAAGCCAAATCAGCTATG
*
9924300 TCTTCGATCTGCTCTCCGCCGAATACAGAGATGCCAAATCTGTCATCTTTGATCTGCTCTCTGCC
1 TCTTCGATCTGCTCTCCGCCGAATACAGAGATGCCAAATCTGTCATCTTCGATCTGCTCTCTGCC
* *
9924365 AATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTATCTGCCAATACAGAGATGCCAAATCAT
66 AATACAGAGATGCCAAATCTACTATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCAT
*
9924430 CTTAGACTTGCTTCAACGTAAACACATGGAAGCCAAATCAGCTATG
131 CTTAGACTTGCTTCAACGTAAACACGTGGAAGCCAAATCAGCTATG
* * *
9924476 CCTTCGATCTGCTCTCCGCCAAATACAGAGATGCCAAATCTGTCATCTTCGATCTACTCTCTGCC
1 TCTTCGATCTGCTCTCCGCCGAATACAGAGATGCCAAATCTGTCATCTTCGATCTGCTCTCTGCC
* * * *
9924541 AATACAGAGATGCCAAATCTATTGTCTTTGATCTGCTTTCTGCCAATACAGAGATGCCAAATCAT
66 AATACAGAGATGCCAAATCTACTATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCAT
9924606 CTT
131 CTT
9924609 GGATATGCTT
Statistics
Matches: 452, Mismatches: 31, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
175 17 0.04
176 435 0.96
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (176 bp):
TCTTCGATCTGCTCTCCGCCGAATACAGAGATGCCAAATCTGTCATCTTCGATCTGCTCTCTGCC
AATACAGAGATGCCAAATCTACTATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCAT
CTTAGACTTGCTTCAACGTAAACACGTGGAAGCCAAATCAGCTATG
Found at i:9925618 original size:7 final size:7
Alignment explanation
Indices: 9925606--9925677 Score: 76
Period size: 7 Copynumber: 9.9 Consensus size: 7
9925596 GGCCTCTCCA
9925606 TTTTTTC
1 TTTTTTC
9925613 TTTTTTC
1 TTTTTTC
9925620 TTTTTTCTC
1 -TTTTT-TC
9925629 TTTTTTC
1 TTTTTTC
9925636 TTTTTAT-
1 TTTTT-TC
9925643 TTTTTTC
1 TTTTTTC
9925650 TCTTTTTC
1 T-TTTTTC
9925658 TTTTATT-
1 TTTT-TTC
*
9925665 TTTTTCC
1 TTTTTTC
9925672 TTTTTT
1 TTTTTT
9925678 TTGAAATAGA
Statistics
Matches: 56, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
6 2 0.04
7 32 0.57
8 20 0.36
9 2 0.04
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTTTTC
Found at i:9925634 original size:23 final size:22
Alignment explanation
Indices: 9925606--9925677 Score: 103
Period size: 23 Copynumber: 3.3 Consensus size: 22
9925596 GGCCTCTCCA
9925606 TTTTTTCTTTTTTCTTTTTTCTC
1 TTTTTTCTTTTTT-TTTTTTCTC
9925629 TTTTTTCTTTTTATTTTTTTCTC
1 TTTTTTCTTTTT-TTTTTTTCTC
*
9925652 -TTTTTCTTTTATTTTTTTC-C
1 TTTTTTCTTTTTTTTTTTTCTC
9925672 TTTTTT
1 TTTTTT
9925678 TTGAAATAGA
Statistics
Matches: 46, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
20 1 0.02
21 13 0.28
22 10 0.22
23 21 0.46
24 1 0.02
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (22 bp):
TTTTTTCTTTTTTTTTTTTCTC
Found at i:9931416 original size:5 final size:5
Alignment explanation
Indices: 9931374--9931399 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
9931364 TTCAAGATTG
9931374 CATAT CATAT CATAT CATAT CATAT C
1 CATAT CATAT CATAT CATAT CATAT C
9931400 TAAAATTGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.38
Consensus pattern (5 bp):
CATAT
Found at i:9931436 original size:19 final size:19
Alignment explanation
Indices: 9931356--9931468 Score: 139
Period size: 19 Copynumber: 6.2 Consensus size: 19
9931346 AGATTACAAA
9931356 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
*
9931377 ATCATATC--ATA-T-CAT
1 ATCATATCTAAGATTGCAT
*
9931392 ATCATATCTAAAATTG--T
1 ATCATATCTAAGATTGCAT
9931409 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
*
9931428 ATCACATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
9931447 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
9931466 ATC
1 ATC
9931469 CTTAAATATT
Statistics
Matches: 81, Mismatches: 5, Indels: 14
0.81 0.05 0.14
Matches are distributed among these distances:
15 11 0.14
16 1 0.01
17 20 0.25
18 1 0.01
19 40 0.49
21 8 0.10
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:9932167 original size:6 final size:6
Alignment explanation
Indices: 9932158--9932182 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
9932148 TTATATTTTG
9932158 AATTTA AATTTA AATTTA AATTTA A
1 AATTTA AATTTA AATTTA AATTTA A
9932183 TATATAATAT
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):
AATTTA
Found at i:9933980 original size:55 final size:55
Alignment explanation
Indices: 9933913--9934039 Score: 157
Period size: 55 Copynumber: 2.3 Consensus size: 55
9933903 ACTTCCTCAG
* * *
9933913 CCCGTGTGCAATACTGACTT-TAGGGCATGGCCATGACACACACCCGTGTGGCCTA
1 CCCGTGGGCAATACTAACTTATA-GACATGGCCATGACACACACCCGTGTGGCCTA
* * *
9933968 CCCGTGGGCAATACTAACTTATAGACATGGCTATGGCACACGCCCGTGTGGCCTA
1 CCCGTGGGCAATACTAACTTATAGACATGGCCATGACACACACCCGTGTGGCCTA
* * *
9934023 ACCGTGGACACTACTAA
1 CCCGTGGGCAATACTAA
9934040 TTTGAAAGTT
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
55 60 0.97
56 2 0.03
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.21
Consensus pattern (55 bp):
CCCGTGGGCAATACTAACTTATAGACATGGCCATGACACACACCCGTGTGGCCTA
Found at i:9935017 original size:48 final size:47
Alignment explanation
Indices: 9934886--9935017 Score: 142
Period size: 47 Copynumber: 2.8 Consensus size: 47
9934876 AACTTAGCCT
* * ***
9934886 ATGCGTGTCCCAGACACGTCTTACACTGGCTATCATCATCGAGGTCA
1 ATGCATGTCCCAGACATGTCTTACACTGGCTATCATCATCGACACCA
* * *
9934933 ATGCATGTCCCAGGCATGTCTTACACTGGC-ACTCATC-TCTACACCG
1 ATGCATGTCCCAGACATGTCTTACACTGGCTA-TCATCATCGACACCA
*
9934979 ATGCCATGTCCCAGACGTGGTCTTACACTGGCTATCATC
1 ATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATC
9935018 GAGGCTGATG
Statistics
Matches: 71, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
46 8 0.11
47 44 0.62
48 18 0.25
49 1 0.01
ACGTcount: A:0.22, C:0.32, G:0.20, T:0.27
Consensus pattern (47 bp):
ATGCATGTCCCAGACATGTCTTACACTGGCTATCATCATCGACACCA
Found at i:9935021 original size:92 final size:92
Alignment explanation
Indices: 9934792--9935104 Score: 239
Period size: 92 Copynumber: 3.4 Consensus size: 92
9934782 GGGTTAAGTT
* * * ** * *
9934792 GCCGCTGCCATGTCCTAGACATGGTCTTA-GCTATCTC--CATCCAGGCTGATGCCATGTCCCAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCGAGGCTAATG-CATGTCCCAG
* ** ** *
9934854 AAATGGTCTTACACTAGCACGAAACTT-A
65 ACA-CATCTTACACTAGCACTCATCTTAA
* * *
9934882 GCCTATG-CGTGTCCCAGACA-CGTCTTACACTGGCTATCATCATCGAGG-TCAATGCATGTCCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC--TCATCATCGAGGCT-AATGCATGTCCC
* ** *
9934944 AGGCATGTCTTACACTGGCACTCATCTCTACA
63 AGACACATCTTACACTAGCACTCATCT-TA-A
* * * *
9934976 -CCGATGCCATGTCCCAGACGTGGTCTTACACTGGCT-ATCATCGAGGCTGATGCATTTCGCAGA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCGAGGCTAATGCATGTCCCAGA
* * *
9935039 CACATCTTACAGTAGCCCTCGTCTTAA
66 CACATCTTACACTAGCACTCATCTTAA
*
9935066 TGCCGATGCCATGTCCCAGACATGGTCTTATACTGGCTC
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC
9935105 TCACATAACC
Statistics
Matches: 175, Mismatches: 33, Indels: 27
0.74 0.14 0.11
Matches are distributed among these distances:
88 6 0.03
89 14 0.08
90 6 0.03
91 21 0.12
92 86 0.49
93 17 0.10
94 12 0.07
95 13 0.07
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (92 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCGAGGCTAATGCATGTCCCAGA
CACATCTTACACTAGCACTCATCTTAA
Found at i:9935540 original size:5 final size:5
Alignment explanation
Indices: 9935526--9935582 Score: 60
Period size: 5 Copynumber: 10.6 Consensus size: 5
9935516 AAATAGAAAG
* *
9935526 ATTTT TTTTT ATTTT ATTTT AATATT ATTATTT ATTTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT -ATTTT A-T-TTT A-TTTT ATTTT ATTTT
9935575 ATTTT ATT
1 ATTTT ATT
9935583 AATTTAGGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
5 31 0.69
6 9 0.20
7 5 0.11
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
ATTTT
Found at i:9935563 original size:29 final size:29
Alignment explanation
Indices: 9935526--9935588 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
9935516 AAATAGAAAG
*
9935526 ATTTTTTTTTATTTTATTTTAATATTATT-
1 ATTTATTTTTATTTTATTTT-ATATTATTA
*
9935555 ATTTATTTTTATTTTATTTTATTTTATTA
1 ATTTATTTTTATTTTATTTTATATTATTA
9935584 ATTTA
1 ATTTA
9935589 GGTTAGGCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 7 0.23
29 24 0.77
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (29 bp):
ATTTATTTTTATTTTATTTTATATTATTA
Found at i:9940394 original size:19 final size:20
Alignment explanation
Indices: 9940370--9940407 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9940360 TAATTAGATT
9940370 TTAATTAA-GTAAATTTAGC
1 TTAATTAAGGTAAATTTAGC
*
9940389 TTAATTAAGGTTAATTTAG
1 TTAATTAAGGTAAATTTAG
9940408 TGAAAGGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.39, C:0.03, G:0.13, T:0.45
Consensus pattern (20 bp):
TTAATTAAGGTAAATTTAGC
Found at i:9943326 original size:17 final size:17
Alignment explanation
Indices: 9943268--9943463 Score: 75
Period size: 17 Copynumber: 11.4 Consensus size: 17
9943258 TTATAACCAA
* *
9943268 AATATATAGTAATATAT
1 AATATATAATAAAATAT
* *
9943285 ACCATATGATAAATAATATAA
1 A--ATAT-AT-AATAAAATAT
*
9943306 AATATATAATAAAATGT
1 AATATATAATAAAATAT
*
9943323 AATATGTAATAAAATAT
1 AATATATAATAAAATAT
* **
9943340 AAT-GA-AATATGA-AT
1 AATATATAATAAAATAT
* *
9943354 ACTATA-AATAAGGATAAT
1 AATATATAATAA-AAT-AT
*
9943372 AATACATAATAAAAATAAT
1 AATATATAAT-AAAAT-AT
* *
9943391 AATAATATCATATATATAAT
1 AAT-ATATAATA-AAAT-AT
* * *
9943411 AAAATATAATAACATGT
1 AATATATAATAAAATAT
*
9943428 AATTTATAA-AAAA-AT
1 AATATATAATAAAATAT
9943443 AATA-ATAAT-AAATAT
1 AATATATAATAAAATAT
9943458 AATATA
1 AATATA
9943464 ATGAATGTTA
Statistics
Matches: 135, Mismatches: 29, Indels: 31
0.69 0.15 0.16
Matches are distributed among these distances:
14 11 0.08
15 20 0.15
16 6 0.04
17 34 0.25
18 11 0.08
19 27 0.20
20 17 0.13
21 9 0.07
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.33
Consensus pattern (17 bp):
AATATATAATAAAATAT
Found at i:9943375 original size:3 final size:3
Alignment explanation
Indices: 9943367--9943465 Score: 50
Period size: 3 Copynumber: 33.7 Consensus size: 3
9943357 ATAAATAAGG
* *
9943367 ATA ATA ATA CATA ATA AAA ATA ATA ATA AT- ATC AT- ATA TATA ATA
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA
* * * *
9943412 A-A AT- ATA ATA ACA TGTA ATTT ATA A-A AAA ATA ATA ATA ATA A-A
1 ATA ATA ATA ATA ATA -ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA
9943455 TATA AT- ATA AT
1 -ATA ATA ATA AT
9943466 GAATGTTACA
Statistics
Matches: 75, Mismatches: 9, Indels: 24
0.69 0.08 0.22
Matches are distributed among these distances:
2 13 0.17
3 52 0.69
4 10 0.13
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:9943430 original size:10 final size:10
Alignment explanation
Indices: 9943299--9943422 Score: 66
Period size: 10 Copynumber: 13.0 Consensus size: 10
9943289 TATGATAAAT
9943299 AATATAA-AA
1 AATATAATAA
*
9943308 TATATAATAA
1 AATATAATAA
*
9943318 AATGTAAT--
1 AATATAATAA
*
9943326 -ATGTAATAA
1 AATATAATAA
*
9943335 AATATAATGA
1 AATATAATAA
*
9943345 AATATGAATAC
1 AATAT-AATAA
*
9943356 TATA-AAT-A
1 AATATAATAA
**
9943364 AGGATAATAA
1 AATATAATAA
* *
9943374 TACATAATAA
1 AATATAATAA
9943384 AA-ATAATAA
1 AATATAATAA
*
9943393 TAATATCAT-A
1 -AATATAATAA
*
9943403 TATATAATAA
1 AATATAATAA
9943413 AATATAATAA
1 AATATAATAA
9943423 CATGTAATTT
Statistics
Matches: 85, Mismatches: 20, Indels: 19
0.69 0.16 0.15
Matches are distributed among these distances:
7 7 0.08
8 1 0.01
9 25 0.29
10 42 0.49
11 10 0.12
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.31
Consensus pattern (10 bp):
AATATAATAA
Found at i:9945204 original size:45 final size:45
Alignment explanation
Indices: 9945136--9945403 Score: 274
Period size: 45 Copynumber: 5.9 Consensus size: 45
9945126 CGATATTTGC
* * *
9945136 TATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGT
1 TATCTTCGATCTGCTCCCAGTCTAATACAGAGATGCCAAATCTGT
* *
9945181 TATCTTCGATCTGCTCCCAGTCTAATACAGAGACGCCAAATCTGC
1 TATCTTCGATCTGCTCCCAGTCTAATACAGAGATGCCAAATCTGT
*
9945226 T-TCTTCAATCTGCTCCCAGTCTAATACAGAGATGCCAAATCTGT
1 TATCTTCGATCTGCTCCCAGTCTAATACAGAGATGCCAAATCTGT
* * * *
9945270 TATCTCCGATTTGCTCCCCA-TCTAATATAGAGATGCCAAATCTAT
1 TATCTTCGATCTGCT-CCCAGTCTAATACAGAGATGCCAAATCTGT
* * * * * * * * *
9945315 CATCTTGGATCTGCTTCGA-TGTAA-ACACATGAAGGTCAGATCTGCT
1 TATCTTCGATCTGCTCCCAGTCTAATACAGA-G-ATGCCAAATCTG-T
* *
9945361 ATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
1 -TATCTTCGATCTGCTCCCAGTCTAATACAGAGATGCCAAATC
9945404 ATCTTGGATC
Statistics
Matches: 180, Mismatches: 35, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
43 3 0.02
44 48 0.27
45 95 0.53
46 5 0.03
47 20 0.11
48 5 0.03
49 4 0.02
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (45 bp):
TATCTTCGATCTGCTCCCAGTCTAATACAGAGATGCCAAATCTGT
Found at i:9945295 original size:89 final size:89
Alignment explanation
Indices: 9945144--9945312 Score: 268
Period size: 89 Copynumber: 1.9 Consensus size: 89
9945134 GCTATCTTTG
* *
9945144 ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCCCAGTCTAATAC
1 ATCTGCTCCCAGTCTAATACAGAGACGCCAAATCTGTTATCTCCGATCTGCTCCCAGTCTAATAC
9945209 AGAGACGCCAAATCTGCTTCTTCA
66 AGAGACGCCAAATCTGCTTCTTCA
* *
9945233 ATCTGCTCCCAGTCTAATACAGAGATGCCAAATCTGTTATCTCCGATTTGCTCCCCA-TCTAATA
1 ATCTGCTCCCAGTCTAATACAGAGACGCCAAATCTGTTATCTCCGATCTGCT-CCCAGTCTAATA
* *
9945297 TAGAGATGCCAAATCT
65 CAGAGACGCCAAATCT
9945313 ATCATCTTGG
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
89 69 0.95
90 4 0.05
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.29
Consensus pattern (89 bp):
ATCTGCTCCCAGTCTAATACAGAGACGCCAAATCTGTTATCTCCGATCTGCTCCCAGTCTAATAC
AGAGACGCCAAATCTGCTTCTTCA
Found at i:9945472 original size:78 final size:78
Alignment explanation
Indices: 9945343--9945637 Score: 466
Period size: 78 Copynumber: 3.8 Consensus size: 78
9945333 ATGTAAACAC
9945343 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
9945408 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * * *
9945421 ATGAAGGTCTA-ATCTGTTATGTCTTTGTTCTGCTCCCCGTCTAATACAGAGATACCAAATCATC
1 ATGAAGGTC-AGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
9945485 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
* * *
9945499 ATGAAGGTCAGATCTGCTGTGTCTTCGATTTGCTCCCCGTCTAATACAGAGATGCCAAATGATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
9945564 TGGATCTACTTCA
66 TGGATCTGCTTCA
* * **
9945577 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
9945638 TGTTATCTTC
Statistics
Matches: 196, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
77 1 0.01
78 194 0.99
79 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Done.