Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 3 of 222
Found at i:916131 original size:50 final size:50
Alignment explanation
Indices: 915990--916233 Score: 231
Period size: 50 Copynumber: 4.7 Consensus size: 50
915980 GATCATAGCA
* * ** * * *
915990 TGCCAAAGTCATGTCCCAGACATGGTCTTACATGGGATGTTCTAATATCGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * *
916041 TGCTC-ATGCCATGTCCCAGACATGGTCTTACAAGGAACCTCTCATCTCGG
1 TGC-CAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
916091 TGCCAACGCTATG-CCTTAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCC-CAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
916141 TGCTAACGCCATGTCCCAAATATGGTCTTACATGGGACCTCTCATGATCTCAAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC--GG
* * *
916196 ATGTCAATGCCATGTCCTAGACATGGTCTTACATGGGA
1 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA
916234 TCCCTTTACC
Statistics
Matches: 158, Mismatches: 25, Indels: 15
0.80 0.13 0.08
Matches are distributed among these distances:
49 3 0.02
50 83 0.53
51 33 0.21
52 1 0.01
53 5 0.03
55 2 0.01
56 31 0.20
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:923387 original size:15 final size:15
Alignment explanation
Indices: 923367--923412 Score: 83
Period size: 15 Copynumber: 3.1 Consensus size: 15
923357 TAGCAAAGAA
923367 GAACCCCTCACCTCT
1 GAACCCCTCACCTCT
923382 GAACCCCTCACCTCT
1 GAACCCCTCACCTCT
*
923397 GAACCCCCCACCTCT
1 GAACCCCTCACCTCT
923412 G
1 G
923413 GAAATCAGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.20, C:0.54, G:0.09, T:0.17
Consensus pattern (15 bp):
GAACCCCTCACCTCT
Found at i:931031 original size:68 final size:68
Alignment explanation
Indices: 930922--931055 Score: 259
Period size: 68 Copynumber: 2.0 Consensus size: 68
930912 TGTTCAATTA
930922 AGCTAAATAAATTTGTGTTTCCTTTTGTCGAAGCACTCTCTGTTTTCTTATTAGTAACTACGTCA
1 AGCTAAATAAATTTGTGTTTCCTTTTGTCGAAGCACTCTCTGTTTTCTTATTAGTAACTACGTCA
930987 TTT
66 TTT
*
930990 AGCTAAATAAATTTGTGTTTCCTTTTGTCGAAGCACTCTCTGTTTTCTTATTAGTAACTATGTCA
1 AGCTAAATAAATTTGTGTTTCCTTTTGTCGAAGCACTCTCTGTTTTCTTATTAGTAACTACGTCA
931055 T
66 T
931056 GCACTCTTTA
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
68 65 1.00
ACGTcount: A:0.24, C:0.17, G:0.13, T:0.46
Consensus pattern (68 bp):
AGCTAAATAAATTTGTGTTTCCTTTTGTCGAAGCACTCTCTGTTTTCTTATTAGTAACTACGTCA
TTT
Found at i:938402 original size:22 final size:21
Alignment explanation
Indices: 938374--938434 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 21
938364 CTTCGTAATT
938374 TCATTTATTATAT-TTATATTG
1 TCATTTATTATATATTATA-TG
938395 CTCATTTATTTGATATATTATATG
1 -TCATTTA-TT-ATATATTATATG
* *
938419 TCATTCATTATTTATT
1 TCATTTATTATATATT
938435 TGTTCATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
21 6 0.18
22 9 0.26
23 8 0.24
24 6 0.18
25 5 0.15
ACGTcount: A:0.28, C:0.08, G:0.05, T:0.59
Consensus pattern (21 bp):
TCATTTATTATATATTATATG
Found at i:939673 original size:28 final size:27
Alignment explanation
Indices: 939621--939676 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 27
939611 TTTTATATTA
939621 ATTTTATTATAAGTTTTTATCATGTCT
1 ATTTTATTATAAGTTTTTATCATGTCT
* *
939648 ATTTCTATT-TAATTTTTATATGATGTCT
1 ATTT-TATTATAAGTTTT-TATCATGTCT
939676 A
1 A
939677 AAACTATTCG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 11 0.44
28 14 0.56
ACGTcount: A:0.27, C:0.07, G:0.07, T:0.59
Consensus pattern (27 bp):
ATTTTATTATAAGTTTTTATCATGTCT
Found at i:941475 original size:6 final size:6
Alignment explanation
Indices: 941442--941466 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
941432 ATAATAAATA
941442 TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT T
941467 TAATTTTAAA
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:941521 original size:21 final size:20
Alignment explanation
Indices: 941485--941529 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 20
941475 AAATACTTTA
941485 AAAATATTTTTTTATTT-TT
1 AAAATATTTTTTTATTTATT
941504 AAAATATTTTTTTGTATTTATT
1 AAAATA-TTTTTT-TATTTATT
941526 AAAA
1 AAAA
941530 ACCGGGCCGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.26
20 6 0.26
21 5 0.22
22 6 0.26
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (20 bp):
AAAATATTTTTTTATTTATT
Found at i:942621 original size:29 final size:29
Alignment explanation
Indices: 942555--942630 Score: 68
Period size: 29 Copynumber: 2.6 Consensus size: 29
942545 AAGAATGATC
*
942555 GGACTAGAGTTTTTAAATTTAAAAGTAAGA
1 GGACTA-AATTTTTAAATTTAAAAGTAAGA
* *
942585 GGATTAAATTTTTAACTTTTAAAA-TACAG-
1 GGACTAAATTTTTAA-ATTTAAAAGTA-AGA
*
942614 GGACTAAA-TCTTAAATT
1 GGACTAAATTTTTAAATT
942631 CTATAAAATA
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
27 2 0.05
28 5 0.13
29 17 0.45
30 14 0.37
ACGTcount: A:0.42, C:0.07, G:0.14, T:0.37
Consensus pattern (29 bp):
GGACTAAATTTTTAAATTTAAAAGTAAGA
Found at i:944196 original size:3 final size:3
Alignment explanation
Indices: 944188--944243 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
944178 AAAGTGTTTG
944188 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
944236 TAA TAA TA
1 TAA TAA TA
944244 GGAACATGAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:947964 original size:6 final size:6
Alignment explanation
Indices: 947945--947990 Score: 76
Period size: 6 Copynumber: 7.7 Consensus size: 6
947935 TAATGATCCT
947945 CCATAG CC-TCAG CCATAG CCATAG CCATAG CCATAG CCATAG CCAT
1 CCATAG CCAT-AG CCATAG CCATAG CCATAG CCATAG CCATAG CCAT
947991 GGCCTGCAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
5 1 0.03
6 36 0.95
7 1 0.03
ACGTcount: A:0.30, C:0.37, G:0.15, T:0.17
Consensus pattern (6 bp):
CCATAG
Found at i:948928 original size:29 final size:25
Alignment explanation
Indices: 948892--948945 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 25
948882 ATGACCCTTT
948892 TTTGTTCAAATAATAATAATTTATTTAA
1 TTTGTTC-AA-AA-AATAATTTATTTAA
948920 TTTGTTTCAAAAAATAATTTATTTAA
1 TTTG-TTCAAAAAATAATTTATTTAA
948946 ATTTAAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 14 0.56
27 2 0.08
28 6 0.24
29 3 0.12
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.50
Consensus pattern (25 bp):
TTTGTTCAAAAAATAATTTATTTAA
Found at i:951011 original size:9 final size:10
Alignment explanation
Indices: 950998--951023 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
950988 AAACATTCAA
950998 AAAAAATCAT
1 AAAAAATCAT
951008 AAAAAATCAT
1 AAAAAATCAT
951018 AAAAAA
1 AAAAAA
951024 ATTTAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (10 bp):
AAAAAATCAT
Found at i:951011 original size:11 final size:11
Alignment explanation
Indices: 950997--951025 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
950987 AAAACATTCA
950997 AAAAAAATCAT
1 AAAAAAATCAT
951008 -AAAAAATCAT
1 AAAAAAATCAT
951018 AAAAAAAT
1 AAAAAAAT
951026 TTAAAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAAAAATCAT
Found at i:970251 original size:16 final size:15
Alignment explanation
Indices: 970230--970259 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
970220 ACGACTGGGC
970230 TATTATTTGTATTATA
1 TATTATTTG-ATTATA
970246 TATTATTTGATTAT
1 TATTATTTGATTAT
970260 GTGCATTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (15 bp):
TATTATTTGATTATA
Found at i:971549 original size:28 final size:29
Alignment explanation
Indices: 971518--971572 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
971508 AAAGAATTGA
* *
971518 ATTATAGAATAAATTGT-AAAATTTGAGT
1 ATTAGAGAATAAATTGTGAAAAATTGAGT
*
971546 ATTAGAGACTAAATTGTGAAAAATTGA
1 ATTAGAGAATAAATTGTGAAAAATTGA
971573 AATTTAGGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 15 0.65
29 8 0.35
ACGTcount: A:0.47, C:0.02, G:0.16, T:0.35
Consensus pattern (29 bp):
ATTAGAGAATAAATTGTGAAAAATTGAGT
Found at i:971599 original size:18 final size:19
Alignment explanation
Indices: 971570--971605 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
971560 TGTGAAAAAT
*
971570 TGAAATTTAGGGATTTAAG
1 TGAAATTTAGGGAGTTAAG
971589 TGAAA-TTAGGGAGTTAA
1 TGAAATTTAGGGAGTTAA
971606 ATCTAATCGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.39, C:0.00, G:0.28, T:0.33
Consensus pattern (19 bp):
TGAAATTTAGGGAGTTAAG
Found at i:973523 original size:20 final size:20
Alignment explanation
Indices: 973485--973523 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
973475 CTATTATGTA
* *
973485 TAATTGAATAATAATTTATT
1 TAATTAAATAATAAGTTATT
*
973505 TAATTAAATAATGAGTTAT
1 TAATTAAATAATAAGTTAT
973524 ATATATAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (20 bp):
TAATTAAATAATAAGTTATT
Found at i:974178 original size:131 final size:131
Alignment explanation
Indices: 973942--974206 Score: 316
Period size: 131 Copynumber: 2.0 Consensus size: 131
973932 TATATAACAT
* * * * *
973942 ATTGAATGACGTGACCTATTGAGTTTATACATGTCACACATGCTATATTATCAAATGATGTATAT
1 ATTGAATGACGTGACCTATTGAGTTTAAACATGTCACACATACTACATCATCAAATGATATATAT
* * * * * *
974007 GCCACATGTAATAACATATTTGGTCCATATCATTCAATTTTAGTAAAATTATAAAAATAAACTAA
66 ACAACATGTAACAACATATTTAGTCCACATCATCCAATTTTAGTAAAATTATAAAAATAAACTAA
974072 A
131 A
** *
974073 ATTGAATGACGTGACCTATT-AGGTTTAAACATGTGGCACATACTACATCATTAAATGATATATA
1 ATTGAATGACGTGACCTATTGA-GTTTAAACATGTCACACATACTACATCATCAAATGATATATA
* ** * * ** *
974137 TATAATGTGTAACAACATATTTAGTCCACATTATCCGATTTTAGTGGAATTATAAAAATAAATTA
65 TACAACATGTAACAACATATTTAGTCCACATCATCCAATTTTAGTAAAATTATAAAAATAAACTA
974202 AA
130 AA
974204 ATT
1 ATT
974207 TATAATTAAA
Statistics
Matches: 111, Mismatches: 22, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
130 1 0.01
131 110 0.99
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (131 bp):
ATTGAATGACGTGACCTATTGAGTTTAAACATGTCACACATACTACATCATCAAATGATATATAT
ACAACATGTAACAACATATTTAGTCCACATCATCCAATTTTAGTAAAATTATAAAAATAAACTAA
A
Found at i:977309 original size:38 final size:41
Alignment explanation
Indices: 977230--977311 Score: 107
Period size: 41 Copynumber: 2.1 Consensus size: 41
977220 TGATCATTTT
***
977230 ATAACTTTTCATAATTGGGTGACCAAAAAAGAAATTTACTA
1 ATAACTTTTCATAATTGGGTGACCAAAAAAGAAAAAAACTA
*
977271 ATAACTTTTCATAGTT-GGTGA-CAAAAAA-AAAAAAACTA
1 ATAACTTTTCATAATTGGGTGACCAAAAAAGAAAAAAACTA
977309 ATA
1 ATA
977312 GTTTGGTGGC
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
38 10 0.27
39 7 0.19
40 5 0.14
41 15 0.41
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.29
Consensus pattern (41 bp):
ATAACTTTTCATAATTGGGTGACCAAAAAAGAAAAAAACTA
Found at i:980453 original size:16 final size:16
Alignment explanation
Indices: 980432--980483 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
980422 TTTGGTTCGC
980432 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
980448 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* * *
980464 TGTAATGGAATAGATG
1 TGTATTGGATTAGAGG
980480 TGTA
1 TGTA
980484 ATAGCAAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.29, C:0.00, G:0.35, T:0.37
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:980530 original size:45 final size:44
Alignment explanation
Indices: 980464--980558 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 44
980454 GGATTAGAGG
* * *
980464 TGTAATGGAATAGATGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
980509 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
980553 TGTAAT
1 TGTAAT
980559 AGAGGTGTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 18 0.41
45 26 0.59
ACGTcount: A:0.35, C:0.05, G:0.26, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:980700 original size:27 final size:25
Alignment explanation
Indices: 980677--980727 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 25
980667 ATTTATTATC
980677 AAAAATAA-ATTATTTAATCATATTT
1 AAAAATAATATTATTTAAT-ATATTT
*
980702 AAACATAATTATTATTTAATATATTT
1 AAAAATAA-TATTATTTAATATATTT
980728 TAATTAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 7 0.30
26 6 0.26
27 10 0.43
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (25 bp):
AAAAATAATATTATTTAATATATTT
Found at i:980741 original size:18 final size:17
Alignment explanation
Indices: 980720--980754 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
980710 TTATTATTTA
*
980720 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
980738 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
980755 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:980888 original size:18 final size:17
Alignment explanation
Indices: 980867--980901 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
980857 TTATTATTAA
*
980867 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
980885 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
980902 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:980913 original size:147 final size:149
Alignment explanation
Indices: 980639--980913 Score: 491
Period size: 147 Copynumber: 1.9 Consensus size: 149
980629 ATGATTATTG
* *
980639 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATTATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
*
980704 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
980769 AGAAATTTGTTTTGGTAAA
131 AGAAATTTGTTTTGGTAAA
* *
980788 TTATT-TTATTTAAATTTTAATAAGATTA-TTAATATCAATAATAAATAATTTACTCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
980851 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
980914 ATATTCTTAT
Statistics
Matches: 121, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
147 93 0.77
148 23 0.19
149 5 0.04
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.48
Consensus pattern (149 bp):
TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
AGAAATTTGTTTTGGTAAA
Found at i:981009 original size:18 final size:17
Alignment explanation
Indices: 980969--981021 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 17
980959 AAATATAAAT
980969 TAAAATA-ATAA-TT-A
1 TAAAATATATAATTTAA
*
980983 TTAAATATAT--TTTAA
1 TAAAATATATAATTTAA
980998 TTAAAATATATAATTTAA
1 -TAAAATATATAATTTAA
981016 TAAAAT
1 TAAAAT
981022 TCTAATAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
14 8 0.26
15 3 0.10
16 9 0.29
17 6 0.19
18 5 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TAAAATATATAATTTAA
Found at i:981116 original size:117 final size:120
Alignment explanation
Indices: 980847--981139 Score: 477
Period size: 117 Copynumber: 2.5 Consensus size: 120
980837 TTACTCATAT
*
980847 TTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTAAA-ATAATTAATATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
* * *
980912 TAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAA
65 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAA
980968 TTAAAATAA-TAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTC-TAATAAT
1 TTAAAATAATTAA-TATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
*
981031 CAATATTCTTATATGAATTTACTAAAATCAT-A-ATATGATACTATAAAATATAAT
65 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAA
* *
981085 TTGAAATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 TTAAAATAATTAATATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
981140 TAAAATAATT
Statistics
Matches: 163, Mismatches: 7, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
117 69 0.42
118 4 0.02
119 38 0.23
120 47 0.29
121 5 0.03
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.43
Consensus pattern (120 bp):
TTAAAATAATTAATATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATC
AATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAA
Found at i:983575 original size:59 final size:59
Alignment explanation
Indices: 983510--983697 Score: 150
Period size: 59 Copynumber: 3.2 Consensus size: 59
983500 ATTTTATTAA
983510 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGT
* * ** * * * ** * * * *
983569 ATCATATATTATGATTTTAGTA-AATTCATA-TAAGAATATTGATTATTAGAATTTTATTA-A
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCA-AATTA-TATTTTA-TAGT
* * * *
983629 ATTATATATTTTAATTAAAATATATTTAATAATT-ATTATTTTAATTTATATTTTACAGT
1 ATCATATATTTTAATTAAAATATATTTAAT-ATTAATTATTTCAAATTATATTTTATAGT
983688 ATCATATATT
1 ATCATATATT
983698 ATGGTTTGAG
Statistics
Matches: 91, Mismatches: 30, Indels: 16
0.66 0.22 0.12
Matches are distributed among these distances:
57 5 0.05
58 10 0.11
59 36 0.40
60 25 0.27
61 10 0.11
62 4 0.04
63 1 0.01
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.52
Consensus pattern (59 bp):
ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGT
Found at i:983624 original size:119 final size:120
Alignment explanation
Indices: 983499--983787 Score: 483
Period size: 119 Copynumber: 2.4 Consensus size: 120
983489 AATTATTTTA
*
983499 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTT
* * *
983564 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATT-AG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
983618 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATT-ATTATTTTAATTTATATTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAAT-ATTAATTATTTCAAATTATATTT
*
983682 TACAGTATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
983738 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTAT
983788 GTTTAAATAT
Statistics
Matches: 159, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
119 108 0.68
120 51 0.32
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:983645 original size:18 final size:18
Alignment explanation
Indices: 983619--983674 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 18
983609 GATTATTAGA
983619 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
983636 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
983652 A-TTTAA-T-AATTAT-T
1 ATTTTAATTAAATTATAT
983666 ATTTTAATT
1 ATTTTAATT
983675 TATATTTTAC
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
13 2 0.06
14 3 0.09
15 12 0.35
16 6 0.18
17 5 0.15
18 6 0.18
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:983755 original size:59 final size:57
Alignment explanation
Indices: 983573--983767 Score: 136
Period size: 56 Copynumber: 3.3 Consensus size: 57
983563 TATAGTATCA
*
983573 TATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATT-AGAATTTTATTAAAT
1 TATATTATG-TTTAAGTAAATTCATATAAGAATATT-ATTATTAAGAATTTTATTAAAT
* * * * * *
983631 TATA-TAT-TTTAATTAAAATAT-ATTTAATAATTATTATT-TTAATTTATATTTTA-CAGTAT
1 TATATTATGTTTAAGT-AAAT-TCATATAAGAA-TATTATTATTAA--GA-ATTTTATTA-AAT
*
983690 CATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
1 --TATATTAT-GTTTAAGTAAATTCATATAAGAATATT-ATTATTAAGAATTTTATTAAAT
*
983751 TATA-TAT-TTTAATTAAA
1 TATATTATGTTTAAGTAAA
983768 ATATATTTAA
Statistics
Matches: 104, Mismatches: 16, Indels: 36
0.67 0.10 0.23
Matches are distributed among these distances:
55 7 0.07
56 23 0.22
57 8 0.08
58 9 0.09
59 12 0.12
61 12 0.12
62 10 0.10
63 14 0.13
64 9 0.09
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (57 bp):
TATATTATGTTTAAGTAAATTCATATAAGAATATTATTATTAAGAATTTTATTAAAT
Found at i:983767 original size:18 final size:17
Alignment explanation
Indices: 983739--983773 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
983729 ATTATTAAGA
*
983739 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
983756 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
983774 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:983881 original size:147 final size:149
Alignment explanation
Indices: 983727--984001 Score: 491
Period size: 147 Copynumber: 1.9 Consensus size: 149
983717 ATAAGAATAT
*
983727 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
* *
983792 AAATATGAGTAAATTATTTATTATTGAT-ATTAATAATCTTATTAAAATTTAAATAA-AATAATT
66 AAATATGAGTAAATAATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
983855 TACCAAAACAAATTTCTGC
131 TACCAAAACAAATTTCTGC
983874 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
* *
983939 AAATATGATTAAATAATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGAGTAAATAATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
984002 CAATAATCAT
Statistics
Matches: 121, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
147 89 0.74
148 27 0.22
149 5 0.04
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.46
Consensus pattern (149 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGAGTAAATAATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
TACCAAAACAAATTTCTGC
Found at i:983914 original size:18 final size:17
Alignment explanation
Indices: 983886--983920 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
983876 ATTATTAAGA
*
983886 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
983903 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
983921 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:984131 original size:44 final size:45
Alignment explanation
Indices: 984082--984176 Score: 129
Period size: 45 Copynumber: 2.1 Consensus size: 45
984072 TTACACCTCT
* * *
984082 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
** *
984126 ATTACATTCAACCAAACAGTTGATTTGCTATTACACATCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
984171 ATTACA
1 ATTACA
984177 CCTCTAATCC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 18 0.41
45 26 0.59
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
Found at i:991689 original size:96 final size:96
Alignment explanation
Indices: 991579--991768 Score: 380
Period size: 96 Copynumber: 2.0 Consensus size: 96
991569 TCTGTGTCTC
991579 TCAGTTAAAAAATTCATTTCCTGTGATGCTTTGGCCTATTCTTTTTGTTGGTTTTATGTTTGTTT
1 TCAGTTAAAAAATTCATTTCCTGTGATGCTTTGGCCTATTCTTTTTGTTGGTTTTATGTTTGTTT
991644 CATTTGATTGAATTCAGTCAATTTTGTCTAT
66 CATTTGATTGAATTCAGTCAATTTTGTCTAT
991675 TCAGTTAAAAAATTCATTTCCTGTGATGCTTTGGCCTATTCTTTTTGTTGGTTTTATGTTTGTTT
1 TCAGTTAAAAAATTCATTTCCTGTGATGCTTTGGCCTATTCTTTTTGTTGGTTTTATGTTTGTTT
991740 CATTTGATTGAATTCAGTCAATTTTGTCT
66 CATTTGATTGAATTCAGTCAATTTTGTCT
991769 CTTCTTGTAG
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
96 94 1.00
ACGTcount: A:0.19, C:0.13, G:0.16, T:0.52
Consensus pattern (96 bp):
TCAGTTAAAAAATTCATTTCCTGTGATGCTTTGGCCTATTCTTTTTGTTGGTTTTATGTTTGTTT
CATTTGATTGAATTCAGTCAATTTTGTCTAT
Found at i:999239 original size:29 final size:29
Alignment explanation
Indices: 999198--999259 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
999188 TTTATTTTTT
999198 ATTT-TTTAATAATATAA-AGATTAAATTA
1 ATTTATTTAATAATA-AAGAGATTAAATTA
*
999226 ATTTATTTAATAATAAAGAGATTAATTTA
1 ATTTATTTAATAATAAAGAGATTAAATTA
999255 ATTTA
1 ATTTA
999260 GTATTTATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
28 6 0.19
29 25 0.81
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.47
Consensus pattern (29 bp):
ATTTATTTAATAATAAAGAGATTAAATTA
Found at i:1000786 original size:31 final size:29
Alignment explanation
Indices: 1000724--1000786 Score: 72
Period size: 31 Copynumber: 2.1 Consensus size: 29
1000714 GGTCGGACTA
*
1000724 TAATTTTTAAATTGAAAAAGTATATGAAC
1 TAATTTTTAAATTGAAAAAGTATAGGAAC
* * *
1000753 TAATTTTTGAATTTTAAATAAGTATAGGGAC
1 TAATTTTT-AAATTGAAA-AAGTATAGGAAC
1000784 TAA
1 TAA
1000787 CAACATAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 8 0.29
30 7 0.25
31 13 0.46
ACGTcount: A:0.44, C:0.03, G:0.13, T:0.40
Consensus pattern (29 bp):
TAATTTTTAAATTGAAAAAGTATAGGAAC
Found at i:1008114 original size:8 final size:9
Alignment explanation
Indices: 1008087--1008112 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
1008077 TAATTATTTT
1008087 TTAAAAAAA
1 TTAAAAAAA
1008096 TTAAAAAAA
1 TTAAAAAAA
1008105 TTAAAAAA
1 TTAAAAAA
1008113 TTCAATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (9 bp):
TTAAAAAAA
Found at i:1008707 original size:31 final size:32
Alignment explanation
Indices: 1008666--1008726 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 32
1008656 CATCCACTAA
*
1008666 TTATATTATATTTA-ATTATTTT-ATATAATAT
1 TTATACTATATTTATA-TATTTTGATATAATAT
*
1008697 TTATACTATATTTTTATATTTTGATATAAT
1 TTATACTATATTTATATATTTTGATATAAT
1008727 GTTATTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 18 0.69
32 8 0.31
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (32 bp):
TTATACTATATTTATATATTTTGATATAATAT
Found at i:1010578 original size:236 final size:230
Alignment explanation
Indices: 1010119--1010584 Score: 718
Period size: 230 Copynumber: 2.0 Consensus size: 230
1010109 TGGTGACTAA
* * *
1010119 TTAAAATACTACACATCAAGTTTATGTTTTATGTATATTTCAAGTTCGAGTAGAACTTGGTCCGG
1 TTAAAATACTACACATCAACTTTATGTTTTATGTATATTTCAAGTTCAAGTAGAACTCGGTCCGG
*
1010184 AGCCATTAGTTGAAACGGAAGTAACTAATGAGTACGAGTGGACTCAAAGTGAACAAACTAATGAA
66 AGCCATTAGTTGAAACCGAAGTAACTAATGAGTACGAGTGGACTCAAAGTGAACAAACTAATGAA
*
1010249 TTTATAACACCCTATCCAGTTTTCAGCAACTTTATTGATGACGGGAATGAAGTGATCTCCTATCA
131 TTCATAACACCCTATCCAGTTTTCAGCAACTTTATTGATGACGGGAATGAAGTGATCTCCTATCA
1010314 CCAGTCACAAGTAAGAACACTTTTCTCGGAAATTT
196 CCAGTCACAAGTAAGAACACTTTTCTCGGAAATTT
* * * *
1010349 TTAAAATACTAGACATCGACTTTATGTTTTATGTATATTTCAGGTTCAAGTAGAACTCGGTTCGG
1 TTAAAATACTACACATCAACTTTATGTTTTATGTATATTTCAAGTTCAAGTAGAACTCGGTCCGG
* * *
1010414 AGTCATTAGTTGAAACCGAAGTAACTAATGAGTATGGGTGGACTCAAAGTGAACAAACTAATGAA
66 AGCCATTAGTTGAAACCGAAGTAACTAATGAGTACGAGTGGACTCAAAGTGAACAAACTAATGAA
* * *
1010479 TTCATAACTCCCTGTCCGGTTTTAAACAGCGAAAACTTTATTGATGACGGGAATGAAGTGATCT-
131 TTCATAACACCCTATCCAGTTTT---CAGC---AACTTTATTGATGACGGGAATGAAGTGATCTC
*
1010543 CTAATCACCAGTCACAAGTAAGAACGCTTTTCTCGGAAATTT
190 CT-ATCACCAGTCACAAGTAAGAACACTTTTCTCGGAAATTT
1010585 CGAAGTTTAG
Statistics
Matches: 213, Mismatches: 16, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
230 138 0.65
233 4 0.02
235 2 0.01
236 69 0.32
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (230 bp):
TTAAAATACTACACATCAACTTTATGTTTTATGTATATTTCAAGTTCAAGTAGAACTCGGTCCGG
AGCCATTAGTTGAAACCGAAGTAACTAATGAGTACGAGTGGACTCAAAGTGAACAAACTAATGAA
TTCATAACACCCTATCCAGTTTTCAGCAACTTTATTGATGACGGGAATGAAGTGATCTCCTATCA
CCAGTCACAAGTAAGAACACTTTTCTCGGAAATTT
Found at i:1013378 original size:18 final size:18
Alignment explanation
Indices: 1013355--1013390 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
1013345 TAATCATATT
1013355 ATATTTA-ATTATTTTATA
1 ATATTTATATT-TTTTATA
1013373 ATATTTATATTTTTTATA
1 ATATTTATATTTTTTATA
1013391 TAAGACAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.82
19 3 0.18
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
ATATTTATATTTTTTATA
Found at i:1013568 original size:22 final size:22
Alignment explanation
Indices: 1013520--1013561 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
1013510 TGTTGAGTTC
1013520 TTATAATATTTATATTATATTA
1 TTATAATATTTATATTATATTA
*
1013542 TTATAATATTT-TTTTATATT
1 TTATAATATTTATATTATATT
1013562 TTTTATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
TTATAATATTTATATTATATTA
Found at i:1015844 original size:236 final size:236
Alignment explanation
Indices: 1015423--1016119 Score: 1028
Period size: 236 Copynumber: 3.0 Consensus size: 236
1015413 TGGTGACTAA
* * * *
1015423 TTAAAATACTACACATCGAGTTTACGTTTAATGTATATTTCAGGTTCGAGCAGAACTTGG-TCTG
1 TTAAAATACTACACATCGAGTTTATGTTTTATGTATATTTCAGGTTCGAGTAGAACTTGGTTC-A
*
1015487 GAGCCATTAGTTGAAACCGAAGTAACTAATGAGTACGAGTGGACTCAAAGTGAACAAACTAATGA
65 GAGCCATTAGTTGAAACCGAAGTAACTAATGAGTACGGGTGGACTCAAAGTGAACAAACTAATGA
* * * * * *
1015552 ATTTATAACACCCTATCCAGTTTTTGACAATGAGAACTTTATTGCTG-TCGGGAATGAAGCGATC
130 ATTTATAACTCCCTGTCCGGTTTTCGACAATGAGAACTTTATTGATGAT-GGGAATGAAGAGATC
*
1015616 TCCCATCACCAGTCACAAGTAAGAACACTTTTCTCGGAAAATT
194 TCCAATCACCAGTCACAAGTAAGAACACTTTTCTCGGAAAATT
* * *
1015659 TTAAAATACTACACATCAAATTTATGTTTTATGTATATTTCAGGTTCGAGTAGAACTCGGTTCAG
1 TTAAAATACTACACATCGAGTTTATGTTTTATGTATATTTCAGGTTCGAGTAGAACTTGGTTCAG
* *
1015724 AGCCATTAGTTGAAACCGAAGTAACTAATGAGTATGGGTGGACTCAAAGTGAACATACTAATGAA
66 AGCCATTAGTTGAAACCGAAGTAACTAATGAGTACGGGTGGACTCAAAGTGAACAAACTAATGAA
* *
1015789 TATATAACTCCCTGTCCGGTTTTCGACAATGAGAACTTTATTGATGATTGGAATGAAGAGATCTC
131 TTTATAACTCCCTGTCCGGTTTTCGACAATGAGAACTTTATTGATGATGGGAATGAAGAGATCTC
*
1015854 CAATCACCAGGCACAAGTAAGAACACTTTTCTCGGAAAATT
196 CAATCACCAGTCACAAGTAAGAACACTTTTCTCGGAAAATT
* * *
1015895 TTAAAATACTACACATTGAGTTTATGTTTTATGTATATTGCAGGTTCAAGTAGAACTTGGTTCAG
1 TTAAAATACTACACATCGAGTTTATGTTTTATGTATATTTCAGGTTCGAGTAGAACTTGGTTCAG
** *
1015960 AGCCATTAGTTGAAATGGAAGTAACTAATGAGTACGGATGGACTCAAAGTGAACAAACTAATGAA
66 AGCCATTAGTTGAAACCGAAGTAACTAATGAGTACGGGTGGACTCAAAGTGAACAAACTAATGAA
*
1016025 TTTATAACTCCCTGTCCGGTTTTCGAC-------A--TTA---ATGATGGGAATGAAGTGATCTC
131 TTTATAACTCCCTGTCCGGTTTTCGACAATGAGAACTTTATTGATGATGGGAATGAAGAGATCTC
1016078 CAATCACCAGTCACAAGTAAGAACACTTTTCTCGG-AAATT
196 CAATCACCAGTCACAAGTAAGAACACTTTTCTCGGAAAATT
1016118 TT
1 TT
1016120 GAAGTTTAGT
Statistics
Matches: 424, Mismatches: 35, Indels: 17
0.89 0.07 0.04
Matches are distributed among these distances:
223 7 0.02
224 54 0.13
227 3 0.01
229 1 0.00
236 356 0.84
237 3 0.01
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (236 bp):
TTAAAATACTACACATCGAGTTTATGTTTTATGTATATTTCAGGTTCGAGTAGAACTTGGTTCAG
AGCCATTAGTTGAAACCGAAGTAACTAATGAGTACGGGTGGACTCAAAGTGAACAAACTAATGAA
TTTATAACTCCCTGTCCGGTTTTCGACAATGAGAACTTTATTGATGATGGGAATGAAGAGATCTC
CAATCACCAGTCACAAGTAAGAACACTTTTCTCGGAAAATT
Found at i:1020451 original size:18 final size:20
Alignment explanation
Indices: 1020414--1020452 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
1020404 AAAAAAAAAT
*
1020414 TATTATTTAAATTATTTAAA
1 TATTATTTAAAATATTTAAA
1020434 TATT-TTTAAAAT-TTTAAA
1 TATTATTTAAAATATTTAAA
1020452 T
1 T
1020453 TAATATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 7 0.39
20 4 0.22
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TATTATTTAAAATATTTAAA
Found at i:1020485 original size:35 final size:35
Alignment explanation
Indices: 1020445--1020512 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
1020435 ATTTTTAAAA
*
1020445 TTTTAA-ATTAATATATATAAAATTTTATCTTTTTC
1 TTTTAATATT-ATATATATAAAATTTAATCTTTTTC
**
1020480 TTTTAATATTATATATATTTAATTTAATCTTTT
1 TTTTAATATTATATATATAAAATTTAATCTTTT
1020513 AAAAATTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 26 0.90
36 3 0.10
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.60
Consensus pattern (35 bp):
TTTTAATATTATATATATAAAATTTAATCTTTTTC
Found at i:1022518 original size:66 final size:66
Alignment explanation
Indices: 1022447--1022585 Score: 190
Period size: 66 Copynumber: 2.1 Consensus size: 66
1022437 TGTGGTAATA
* * ** * *
1022447 TGTGAAGGC-CACTTTGTAAAGAAAGATAGCTTTGGTCACAATTGTGGTACTAAGTGAAGGGCGC
1 TGTGAAGGCTC-CTTTGTAAAGAAAGATAACTTTGGTCACAAGTGCAGTACTAAGTGAAGGCCAC
1022511 TT
65 TT
* *
1022513 TGTGAAGGCTCCTTTGTGAAGAAAGATAACTTTGGTCACAAGTGCAGTACTATGTGAAGGCCACT
1 TGTGAAGGCTCCTTTGTAAAGAAAGATAACTTTGGTCACAAGTGCAGTACTAAGTGAAGGCCACT
1022578 T
66 T
1022579 TGTGAAG
1 TGTGAAG
1022586 AAGGTAGCTT
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
66 63 0.98
67 1 0.02
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (66 bp):
TGTGAAGGCTCCTTTGTAAAGAAAGATAACTTTGGTCACAAGTGCAGTACTAAGTGAAGGCCACT
T
Found at i:1022618 original size:51 final size:52
Alignment explanation
Indices: 1022513--1022626 Score: 135
Period size: 51 Copynumber: 2.2 Consensus size: 52
1022503 AAGGGCGCTT
*
1022513 TGTGAAGGCTC-CTTTGTGAAGAAAGATAACTTTGGTCACAAGTGCAGTACTA
1 TGTGAAGGC-CACTTTGTGAAGAAAGATAACTTTGGTCACAAGGGCAGTACTA
* * **
1022565 TGTGAAGGCCACTTTGTGAAG-AAGGTAGCTTTGG-CTACAAGGGTGGTACTA
1 TGTGAAGGCCACTTTGTGAAGAAAGATAACTTTGGTC-ACAAGGGCAGTACTA
*
1022616 TGTGCAGGCCA
1 TGTGAAGGCCA
1022627 TCGAGTATTC
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
50 1 0.02
51 34 0.63
52 19 0.35
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (52 bp):
TGTGAAGGCCACTTTGTGAAGAAAGATAACTTTGGTCACAAGGGCAGTACTA
Found at i:1024178 original size:17 final size:17
Alignment explanation
Indices: 1024156--1024199 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
1024146 ATTATTATAA
* *
1024156 TATATTTTTATATTTTT
1 TATATTTTTATATTATG
*
1024173 TATATTTTGATATTATG
1 TATATTTTTATATTATG
1024190 T-TATTTTTAT
1 TATATTTTTAT
1024200 GTATATCGAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
16 8 0.35
17 15 0.65
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (17 bp):
TATATTTTTATATTATG
Found at i:1028791 original size:18 final size:18
Alignment explanation
Indices: 1028768--1028803 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
1028758 TAATTATATT
1028768 ATATTTA-ATTATTTTATA
1 ATATTTATATT-TTTTATA
1028786 ATATTTATATTTTTTATA
1 ATATTTATATTTTTTATA
1028804 TAAGACAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.82
19 3 0.18
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
ATATTTATATTTTTTATA
Found at i:1030768 original size:236 final size:233
Alignment explanation
Indices: 1030347--1031043 Score: 1027
Period size: 236 Copynumber: 3.0 Consensus size: 233
1030337 TGGTGACTAA
* * * * * * *
1030347 TTAAAATACTACACATCGAGTTTACGTTTAATGTATATTTCAGGTTCGAGCAGAACT-TGGTCTG
1 TTAAAATACTACACATCGAGTTTATGTTTTATGTATATTTCAGGTTCAAGTAGAACTCAGTTC-A
* * *
1030411 GAGCCATTAGTTGAAACTGAAGTAACTAATGAGTACGAGTGGACTCAAAGTGAACAAACTAATGA
65 GAGCCATTAGTTGAAACCGAAGTAACTAATGAGTATGGGTGGACTCAAAGTGAACAAACTAATGA
* * *
1030476 ATTTATAACACCCTATCCAGTTTTCAACAATGAGAACTTTATTGATGACGGGAATGAAGTGATCT
130 ATTTATAACTCCCTGTCCAGTTTTC-ACAA-GA-AACTTTATTGATGATGGGAATGAAGTGATCT
*
1030541 CCCATCACCAGTCACAAGTAAGAACACTTTTCTCGGAAATTT
192 CCAATCACCAGTCACAAGTAAGAACACTTTTCTCGGAAATTT
1030583 TTAAAATACTACACATCGAGTTTATGTTTTATGTATATTTCAGGTTCAAGTAGAACTCAGTTCAG
1 TTAAAATACTACACATCGAGTTTATGTTTTATGTATATTTCAGGTTCAAGTAGAACTCAGTTCAG
* *
1030648 AGTCATTAGTTGAAACCGAAGTAACTAATGAGTATGGGTTGACTCAAAGTGAACAAACTAATGAA
66 AGCCATTAGTTGAAACCGAAGTAACTAATGAGTATGGGTGGACTCAAAGTGAACAAACTAATGAA
* *
1030713 TTTATAACTCCCTGTCCGGTTTTCGACAACGAAAACTTTATTGATGATTGGAATGAAGTGATCTC
131 TTTATAACTCCCTGTCCAGTTTTC-ACAA-G-AAACTTTATTGATGATGGGAATGAAGTGATCTC
*
1030778 CAATCACCAGTCACAAGTAAGAACACTTTTCTCGAAAATTT
193 CAATCACCAGTCACAAGTAAGAACACTTTTCTCGGAAATTT
*
1030819 TTAAAATACTACACATTGAGTTTATGTTTTATGTATATTTCAGGTTCAAGTAGAACTCAGTTCAG
1 TTAAAATACTACACATCGAGTTTATGTTTTATGTATATTTCAGGTTCAAGTAGAACTCAGTTCAG
* *
1030884 AGCCATTAGTTGAAATCGAAGTAACTAATGAGTATAGGTGGACTCAAAGTGAACAAACTAATGAA
66 AGCCATTAGTTGAAACCGAAGTAACTAATGAGTATGGGTGGACTCAAAGTGAACAAACTAATGAA
*
1030949 TTTATAACTCCCTGTCCAGTTTT----AG--AC---ATAGATGATGGGAATGAAGTGATCTCCAA
131 TTTATAACTCCCTGTCCAGTTTTCACAAGAAACTTTATTGATGATGGGAATGAAGTGATCTCCAA
* * *
1031005 TAACCAGTCACAAGTAAGATCACTTTTCTCAGAAATTT
196 TCACCAGTCACAAGTAAGAACACTTTTCTCGGAAATTT
1031043 T
1 T
1031044 GAAGTTTAGT
Statistics
Matches: 426, Mismatches: 33, Indels: 16
0.90 0.07 0.03
Matches are distributed among these distances:
224 62 0.15
227 2 0.00
230 1 0.00
231 1 0.00
236 356 0.84
237 4 0.01
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (233 bp):
TTAAAATACTACACATCGAGTTTATGTTTTATGTATATTTCAGGTTCAAGTAGAACTCAGTTCAG
AGCCATTAGTTGAAACCGAAGTAACTAATGAGTATGGGTGGACTCAAAGTGAACAAACTAATGAA
TTTATAACTCCCTGTCCAGTTTTCACAAGAAACTTTATTGATGATGGGAATGAAGTGATCTCCAA
TCACCAGTCACAAGTAAGAACACTTTTCTCGGAAATTT
Found at i:1033478 original size:51 final size:51
Alignment explanation
Indices: 1033409--1033526 Score: 184
Period size: 51 Copynumber: 2.3 Consensus size: 51
1033399 ACCAGTAACA
* * *
1033409 GTAATCAATAAC-GGAACAGTAACAGTATTCGACACACAAAGTGCTGAATCG
1 GTAA-CAATAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
*
1033460 GTAACGATAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
1 GTAACAATAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
1033511 GTAACAATAACAGTAA
1 GTAACAATAACAGTAA
1033527 TCAGCACATA
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
50 6 0.10
51 55 0.90
ACGTcount: A:0.44, C:0.19, G:0.18, T:0.19
Consensus pattern (51 bp):
GTAACAATAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
Found at i:1034932 original size:9 final size:9
Alignment explanation
Indices: 1034915--1034959 Score: 56
Period size: 9 Copynumber: 5.1 Consensus size: 9
1034905 CATTTGAATA
*
1034915 AATAATTAT
1 AATATTTAT
1034924 AATATTTAT
1 AATATTTAT
1034933 AATATTTAT
1 AATATTTAT
**
1034942 -ATACATAT
1 AATATTTAT
1034950 AATATTTAT
1 AATATTTAT
1034959 A
1 A
1034960 TATAACTTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
8 6 0.20
9 24 0.80
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (9 bp):
AATATTTAT
Found at i:1039032 original size:4 final size:4
Alignment explanation
Indices: 1039006--1039060 Score: 56
Period size: 4 Copynumber: 13.8 Consensus size: 4
1038996 TGCAATATGA
* * * * * *
1039006 ACAC ACGC ACGC ACGC ACGC ACAC ACAC GCAC ACAC ACGC ACAC ACAC
1 ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC
1039054 ACAC ACA
1 ACAC ACA
1039061 AAATTTTTAG
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 45 1.00
ACGTcount: A:0.40, C:0.49, G:0.11, T:0.00
Consensus pattern (4 bp):
ACAC
Found at i:1039036 original size:10 final size:10
Alignment explanation
Indices: 1039006--1039060 Score: 74
Period size: 10 Copynumber: 5.3 Consensus size: 10
1038996 TGCAATATGA
1039006 ACACACGCACGC
1 ACACACGCA--C
*
1039018 ACGCACGCAC
1 ACACACGCAC
1039028 ACACACGCAC
1 ACACACGCAC
1039038 ACACACGCAC
1 ACACACGCAC
*
1039048 ACACACACAC
1 ACACACGCAC
1039058 ACA
1 ACA
1039061 AAATTTTTAG
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
10 32 0.80
12 8 0.20
ACGTcount: A:0.40, C:0.49, G:0.11, T:0.00
Consensus pattern (10 bp):
ACACACGCAC
Found at i:1040990 original size:23 final size:25
Alignment explanation
Indices: 1040959--1041006 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 25
1040949 TTCTGTTATT
1040959 AACAGAGA-TTCCCGATCTTTGCCA
1 AACAGAGATTTCCCGATCTTTGCCA
1040983 AACA-AGATTTCCCGATCTTTGCCA
1 AACAGAGATTTCCCGATCTTTGCCA
1041007 CATCAAAGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 3 0.13
24 20 0.87
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (25 bp):
AACAGAGATTTCCCGATCTTTGCCA
Found at i:1045566 original size:6 final size:6
Alignment explanation
Indices: 1045555--1045628 Score: 148
Period size: 6 Copynumber: 12.3 Consensus size: 6
1045545 AGGTGACATG
1045555 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CATATA
1 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CATATA
1045603 CATATA CATATA CATATA CATATA CA
1 CATATA CATATA CATATA CATATA CA
1045629 GGTATTAACA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 68 1.00
ACGTcount: A:0.50, C:0.18, G:0.00, T:0.32
Consensus pattern (6 bp):
CATATA
Found at i:1069572 original size:20 final size:21
Alignment explanation
Indices: 1069549--1069596 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
1069539 TTTTTAAAAA
1069549 TTTTTAAT-A-ATTTTATACTT
1 TTTTTAATAATATTTTATA-TT
*
1069569 TTTTT-ATAATATTTTGTATT
1 TTTTTAATAATATTTTATATT
1069589 TTTTTAAT
1 TTTTTAAT
1069597 TTATTAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 2 0.08
20 13 0.54
21 9 0.38
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (21 bp):
TTTTTAATAATATTTTATATT
Found at i:1069582 original size:21 final size:21
Alignment explanation
Indices: 1069549--1069594 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
1069539 TTTTTAAAAA
1069549 TTTT-TAATAATTTTATACTTT
1 TTTTATAATAATTTTATA-TTT
*
1069570 TTTTATAAT-ATTTTGTATTT
1 TTTTATAATAATTTTATATTT
1069590 TTTTA
1 TTTTA
1069595 ATTTATTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 8 0.35
21 11 0.48
22 4 0.17
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (21 bp):
TTTTATAATAATTTTATATTT
Found at i:1069652 original size:21 final size:20
Alignment explanation
Indices: 1069613--1069656 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
1069603 AAAATTATTA
1069613 TTTTCTATATTTTAAAATAT
1 TTTTCTATATTTTAAAATAT
* *
1069633 TTTTCATATTTTTTACAATAT
1 TTTTC-TATATTTTAAAATAT
1069654 TTT
1 TTT
1069657 CTTTTTGTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTTCTATATTTTAAAATAT
Found at i:1069692 original size:25 final size:25
Alignment explanation
Indices: 1069658--1069720 Score: 69
Period size: 24 Copynumber: 2.6 Consensus size: 25
1069648 CAATATTTTC
*
1069658 TTTTTGTAA-TTTATATAATTTTT-AA
1 TTTTTTTAATTTTA-AT-ATTTTTCAA
1069683 TTTTTTTAATTTTAATATTTTTCAA
1 TTTTTTTAATTTTAATATTTTTCAA
*
1069708 -GTTTTTAATTTTA
1 TTTTTTTAATTTTA
1069721 TTTTTATTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
24 18 0.53
25 12 0.35
26 4 0.12
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.67
Consensus pattern (25 bp):
TTTTTTTAATTTTAATATTTTTCAA
Found at i:1069697 original size:15 final size:16
Alignment explanation
Indices: 1069677--1069719 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
1069667 TTTATATAAT
*
1069677 TTTTAATTTTTTTAA-
1 TTTTAATTTTTTCAAG
1069692 TTTTAATATTTTTCAAG
1 TTTTAAT-TTTTTCAAG
1069709 TTTTTAATTTT
1 -TTTTAATTTT
1069720 ATTTTTATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 7 0.29
16 7 0.29
17 3 0.12
18 7 0.29
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (16 bp):
TTTTAATTTTTTCAAG
Found at i:1069811 original size:21 final size:21
Alignment explanation
Indices: 1069762--1069816 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
1069752 GCACTTTTCC
*
1069762 ATATTTTCAATAAT-TTTTTGT
1 ATATTTTTAA-AATGTTTTTGT
1069783 A-ATTTTTAAAATGTTTTTGT
1 ATATTTTTAAAATGTTTTTGT
*
1069803 ATATTTTTATAATG
1 ATATTTTTAAAATG
1069817 ATTATAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 3 0.10
20 15 0.50
21 12 0.40
ACGTcount: A:0.31, C:0.02, G:0.07, T:0.60
Consensus pattern (21 bp):
ATATTTTTAAAATGTTTTTGT
Found at i:1075919 original size:58 final size:58
Alignment explanation
Indices: 1075854--1075972 Score: 202
Period size: 58 Copynumber: 2.1 Consensus size: 58
1075844 AAGTGTGGCG
* * *
1075854 TTCGCTATACCTTTGGTTCCTATCTCGTTAGATAGTGGGTCAAGGTTTATTTGTTGAT
1 TTCGCTATACCTTTGGCTCCTATCTCGTTAGATAGTGGGTCAAGATTTATTTGCTGAT
*
1075912 TTCGCTATACCTTTGGCTCTTATCTCGTTAGATAGTGGGTCAAGATTTATTTGCTGAT
1 TTCGCTATACCTTTGGCTCCTATCTCGTTAGATAGTGGGTCAAGATTTATTTGCTGAT
1075970 TTC
1 TTC
1075973 ACTTTTCATT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.18, C:0.17, G:0.21, T:0.45
Consensus pattern (58 bp):
TTCGCTATACCTTTGGCTCCTATCTCGTTAGATAGTGGGTCAAGATTTATTTGCTGAT
Found at i:1092897 original size:15 final size:16
Alignment explanation
Indices: 1092877--1092910 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
1092867 TATTTAATAA
1092877 ATTTATT-AATTTTTT
1 ATTTATTAAATTTTTT
1092892 ATTTATTGAAATTTTTT
1 ATTTATT-AAATTTTTT
1092909 AT
1 AT
1092911 ATAGTTATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
17 10 0.59
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (16 bp):
ATTTATTAAATTTTTT
Found at i:1093572 original size:17 final size:18
Alignment explanation
Indices: 1093538--1093583 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
1093528 CCGTTATGTC
1093538 CGCGACCGCGA-C--AAA
1 CGCGACCGCGACCGAAAA
1093553 CGCGA-CGCGACCGAAAA
1 CGCGACCGCGACCGAAAA
1093570 CGCGACCGCGACCG
1 CGCGACCGCGACCG
1093584 CAATTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
17 8 0.30
18 8 0.30
ACGTcount: A:0.28, C:0.41, G:0.30, T:0.00
Consensus pattern (18 bp):
CGCGACCGCGACCGAAAA
Found at i:1097675 original size:39 final size:40
Alignment explanation
Indices: 1097615--1097693 Score: 142
Period size: 39 Copynumber: 2.0 Consensus size: 40
1097605 AAGTTTAGAT
1097615 AAAATTCATGCTTACACAAAAATTACAGATAAGGGAAATG
1 AAAATTCATGCTTACACAAAAATTACAGATAAGGGAAATG
*
1097655 AAAATT-ATGCTTACATAAAAATTACAGATAAGGGAAATG
1 AAAATTCATGCTTACACAAAAATTACAGATAAGGGAAATG
1097694 GTTAAAGATA
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
39 32 0.84
40 6 0.16
ACGTcount: A:0.51, C:0.10, G:0.15, T:0.24
Consensus pattern (40 bp):
AAAATTCATGCTTACACAAAAATTACAGATAAGGGAAATG
Found at i:1098121 original size:27 final size:25
Alignment explanation
Indices: 1098074--1098128 Score: 58
Period size: 27 Copynumber: 2.1 Consensus size: 25
1098064 CCAAACTTAG
*
1098074 ATACCAAATTGGGATAAAAAAACTCAA
1 ATACCAAATTGGAAT-AAAAAAC-CAA
*
1098101 ATACCAAATT-GAATATTAAAACCAA
1 ATACCAAATTGGAATA-AAAAACCAA
1098126 ATA
1 ATA
1098129 GATATACTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
25 7 0.28
26 8 0.32
27 10 0.40
ACGTcount: A:0.56, C:0.15, G:0.07, T:0.22
Consensus pattern (25 bp):
ATACCAAATTGGAATAAAAAACCAA
Found at i:1105561 original size:16 final size:16
Alignment explanation
Indices: 1105528--1105561 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1105518 TGCTGTTGTT
* *
1105528 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
1105544 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
1105560 AA
1 AA
1105562 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:1108389 original size:21 final size:21
Alignment explanation
Indices: 1108363--1108403 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1108353 AGACGAGCAA
* *
1108363 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
1108384 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
1108404 TTAAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:1110342 original size:16 final size:16
Alignment explanation
Indices: 1110309--1110342 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1110299 GGAGATTGTT
* *
1110309 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
1110325 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
1110341 AA
1 AA
1110343 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:1114019 original size:20 final size:19
Alignment explanation
Indices: 1113990--1114037 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
1113980 AAACAACTAT
*
1113990 AAAAATTATAAACA-TGCAA
1 AAAAATTATAAA-ATTACAA
1114009 AAAAATGTATAAAATTACAA
1 AAAAAT-TATAAAATTACAA
1114029 AAAAATTAT
1 AAAAATTAT
1114038 TCAACAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.65, C:0.06, G:0.04, T:0.25
Consensus pattern (19 bp):
AAAAATTATAAAATTACAA
Found at i:1114191 original size:10 final size:10
Alignment explanation
Indices: 1114178--1114235 Score: 55
Period size: 10 Copynumber: 5.7 Consensus size: 10
1114168 TTGTCTTATA
1114178 TTTTTAAAAT
1 TTTTTAAAAT
1114188 TTTTTAAAAT
1 TTTTTAAAAT
*
1114198 ATTTTT-TAAT
1 -TTTTTAAAAT
*
1114208 TTTTTATTAAT
1 TTTTTA-AAAT
*
1114219 TTATTAAAAT
1 TTTTTAAAAT
*
1114229 TTATTAA
1 TTTTTAA
1114236 TTTCTATTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
9 5 0.12
10 23 0.55
11 14 0.33
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TTTTTAAAAT
Found at i:1114201 original size:21 final size:21
Alignment explanation
Indices: 1114175--1114235 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
1114165 AGTTTGTCTT
1114175 ATATTTTTAAAATTTTTTAAA
1 ATATTTTTAAAATTTTTTAAA
* *
1114196 ATATTTTT-TAATTTTTTATTA
1 ATATTTTTAAAATTTTTTA-AA
* *
1114217 AT-TTATTAAAATTTATTAA
1 ATATTTTTAAAATTTTTTAA
1114236 TTTCTATTAT
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
20 13 0.41
21 19 0.59
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
ATATTTTTAAAATTTTTTAAA
Found at i:1114202 original size:11 final size:11
Alignment explanation
Indices: 1114175--1114203 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
1114165 AGTTTGTCTT
1114175 ATATTTTTAAA
1 ATATTTTTAAA
1114186 AT-TTTTTAAA
1 ATATTTTTAAA
1114196 ATATTTTT
1 ATATTTTT
1114204 TAATTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
ATATTTTTAAA
Found at i:1114274 original size:21 final size:20
Alignment explanation
Indices: 1114236--1114278 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
1114226 AATTTATTAA
1114236 TTTCTATTATTTTAAATATT
1 TTTCTATTATTTTAAATATT
1114256 TTTCATATT-TTTTACAATATT
1 TTTC-TATTATTTTA-AATATT
1114277 TT
1 TT
1114279 CTTTTTGCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTCTATTATTTTAAATATT
Found at i:1114323 original size:67 final size:66
Alignment explanation
Indices: 1114216--1114375 Score: 164
Period size: 67 Copynumber: 2.3 Consensus size: 66
1114206 ATTTTTTATT
* * *
1114216 AATTTATTAAAATTTATTAATTTCTATTATTTTAAATATTTTT-CATATTTTTTACAATATTTTC
1 AATTTA-TATAATTT-TTAATTT-TAATATTTTAAATATTTTTGCA-AGTTTTTA-AATATTTT-
1114280 T-TTTTGC
60 TATTTT-C
*
1114287 AATTTATATAATTTTTAATTTTAATATTTT-AATATTTTTGCAAGTTTTTAATTATTTTTATTTT
1 AATTTATATAATTTTTAATTTTAATATTTTAAATATTTTTGCAAGTTTTTAAATATTTTTATTTT
*
1114351 T
66 C
*
1114352 TATTTATAATAATTTTATAATTTT
1 AATTTAT-ATAATTTT-TAATTTT
1114376 TGTGCACTTT
Statistics
Matches: 79, Mismatches: 6, Indels: 12
0.81 0.06 0.12
Matches are distributed among these distances:
65 7 0.09
66 19 0.24
67 23 0.29
68 10 0.13
69 7 0.09
70 7 0.09
71 6 0.08
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (66 bp):
AATTTATATAATTTTTAATTTTAATATTTTAAATATTTTTGCAAGTTTTTAAATATTTTTATTTT
C
Found at i:1117386 original size:21 final size:21
Alignment explanation
Indices: 1117360--1117419 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
1117350 TTCTCTAACC
1117360 ATGGTCAAAATTATTTTGAAA
1 ATGGTCAAAATTATTTTGAAA
** *
1117381 ATGGTCAAAATTATAATGGAA
1 ATGGTCAAAATTATTTTGAAA
* *
1117402 GTGGTCAGAATTATTTTG
1 ATGGTCAAAATTATTTTG
1117420 CTGGTCAAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.38, C:0.05, G:0.20, T:0.37
Consensus pattern (21 bp):
ATGGTCAAAATTATTTTGAAA
Found at i:1117432 original size:17 final size:17
Alignment explanation
Indices: 1117402--1117445 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
1117392 TATAATGGAA
*
1117402 GTGGTCAGAATTAT-TTT
1 GTGGTCA-AATTATGATT
1117419 GCTGGTCAAATTATGATT
1 G-TGGTCAAATTATGATT
1117437 GTGGTCAAA
1 GTGGTCAAA
1117446 AGTGGTATGC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 15 0.62
18 9 0.38
ACGTcount: A:0.27, C:0.09, G:0.25, T:0.39
Consensus pattern (17 bp):
GTGGTCAAATTATGATT
Found at i:1122792 original size:25 final size:24
Alignment explanation
Indices: 1122746--1122798 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
1122736 TTAATTGTAC
1122746 TTTCAATTGTAATTTAGATTTCT-
1 TTTCAATTGTAATTTAGATTTCTA
* *
1122769 TTTCAGTTGTAATTTTTAGTTTTCTA
1 TTTCAATTGTAA--TTTAGATTTCTA
1122795 TTTC
1 TTTC
1122799 GTTCTTCGCG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 11 0.44
25 10 0.40
26 4 0.16
ACGTcount: A:0.21, C:0.09, G:0.09, T:0.60
Consensus pattern (24 bp):
TTTCAATTGTAATTTAGATTTCTA
Found at i:1126773 original size:21 final size:22
Alignment explanation
Indices: 1126749--1126799 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
1126739 CTCTCTTTAT
* *
1126749 ATAATTTTATAT-AATATACTA
1 ATAATTTTATATAAAAATACCA
*
1126770 ATAATTTCATATAAAAATACCA
1 ATAATTTTATATAAAAATACCA
1126792 ATAATTTT
1 ATAATTTT
1126800 TGGCAGGATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 11 0.44
22 14 0.56
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.43
Consensus pattern (22 bp):
ATAATTTTATATAAAAATACCA
Found at i:1130049 original size:27 final size:29
Alignment explanation
Indices: 1130019--1130079 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 29
1130009 ATTATTCAAC
1130019 AAATAATAGAAAAT-TTTTAAA-AAATAA
1 AAATAATAGAAAATATTTTAAATAAATAA
* ** *
1130046 AAATTATATCAAATATTTTAAATATATAA
1 AAATAATAGAAAATATTTTAAATAAATAA
1130075 AAATA
1 AAATA
1130080 TCTACAATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
27 11 0.41
28 7 0.26
29 9 0.33
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (29 bp):
AAATAATAGAAAATATTTTAAATAAATAA
Found at i:1130203 original size:19 final size:19
Alignment explanation
Indices: 1130162--1130212 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
1130152 ATTTTAAATT
*
1130162 TTTTTATAATTTTTATACT
1 TTTTTATAATTTTTATACA
*
1130181 TTTTTATAATATTTTGTA-A
1 TTTTTATAAT-TTTTATACA
1130200 TTTTTATTAATTT
1 TTTTTA-TAATTT
1130213 ATTAAAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 18 0.64
20 10 0.36
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (19 bp):
TTTTTATAATTTTTATACA
Found at i:1130210 original size:10 final size:9
Alignment explanation
Indices: 1130162--1130296 Score: 66
Period size: 10 Copynumber: 14.8 Consensus size: 9
1130152 ATTTTAAATT
1130162 TTTTTATAA
1 TTTTTATAA
*
1130171 TTTTTATACT
1 TTTTTATA-A
1130181 TTTTTATAA
1 TTTTTATAA
*
1130190 TATTTTGTAA
1 T-TTTTATAA
1130200 TTTTTATTAA
1 TTTTTA-TAA
*
1130210 TTTATTAAAA
1 TTT-TTATAA
1130220 TTTATTAT--
1 TTT-TTATAA
*
1130228 TTTCTAT-A
1 TTTTTATAA
*
1130236 TTTTTAAATA
1 TTTTTATA-A
*
1130246 TTTTTCATAT
1 TTTTT-ATAA
*
1130256 TTTTTACAA
1 TTTTTATAA
*
1130265 TATTTTCT--
1 T-TTTTATAA
*
1130273 TTTTT-CAA
1 TTTTTATAA
*
1130281 TTTATATAA
1 TTTTTATAA
1130290 TTTTTAT
1 TTTTTAT
1130297 TTTTTAATTT
Statistics
Matches: 95, Mismatches: 19, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
7 7 0.07
8 13 0.14
9 24 0.25
10 46 0.48
11 5 0.05
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (9 bp):
TTTTTATAA
Found at i:1130249 original size:19 final size:22
Alignment explanation
Indices: 1130225--1130272 Score: 68
Period size: 19 Copynumber: 2.4 Consensus size: 22
1130215 TAAAATTTAT
1130225 TATTTTCT-ATA-TTTTTA-AA
1 TATTTTCTCATATTTTTTACAA
1130244 TATTTT-TCATATTTTTTACAA
1 TATTTTCTCATATTTTTTACAA
1130265 TATTTTCT
1 TATTTTCT
1130273 TTTTTCAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 1 0.04
19 9 0.36
20 6 0.24
21 8 0.32
22 1 0.04
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (22 bp):
TATTTTCTCATATTTTTTACAA
Found at i:1130314 original size:22 final size:20
Alignment explanation
Indices: 1130263--1130316 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
1130253 TATTTTTTAC
1130263 AATATTTTCTTTTTTCAATTT
1 AATATTTT-TTTTTTCAATTT
*
1130284 ATATAATTTTTATTTTTTAATTTT
1 A-AT-ATTTTT-TTTTTCAA-TTT
1130308 AATATTTTT
1 AATATTTTT
1130317 GCAAGTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
21 1 0.04
22 9 0.32
23 14 0.50
24 4 0.14
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.69
Consensus pattern (20 bp):
AATATTTTTTTTTTCAATTT
Found at i:1130316 original size:23 final size:21
Alignment explanation
Indices: 1130263--1130316 Score: 56
Period size: 24 Copynumber: 2.4 Consensus size: 21
1130253 TATTTTTTAC
*
1130263 AATATTTTCTTTTTTCAATTT
1 AATATTTTTTTTTTTCAATTT
1130284 ATATAATTTTTATTTTTT-AATTTT
1 A-AT-ATTTTT-TTTTTTCAA-TTT
1130308 AATATTTTT
1 AATATTTTT
1130317 GCAAGTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
21 1 0.04
22 8 0.29
23 9 0.32
24 10 0.36
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.69
Consensus pattern (21 bp):
AATATTTTTTTTTTTCAATTT
Found at i:1133696 original size:21 final size:21
Alignment explanation
Indices: 1133670--1133710 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1133660 ATCTGCTCAA
* *
1133670 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
1133691 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
1133711 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:1137586 original size:127 final size:128
Alignment explanation
Indices: 1137358--1137599 Score: 344
Period size: 127 Copynumber: 1.9 Consensus size: 128
1137348 TAAAGGTAAA
* *
1137358 TTTATTAATTAATGAAGAGAACCATATAATTTAGAGAAAAAAATAACAAATACTCATAGCAGATA
1 TTTATTAATTAATGAAAAGAACCATATAATTTAGAG-AAAAAATAACAAATACTCATAGCAAATA
*
1137423 GTGAAGGACAAGCTCAAACAACACAACAAAAACTTTAG-CTTCAGTATCATGACACAACAAAGAC
65 GTGAAGGACAACCTCAAACAACACAACAAAAACTTTAGCCTT-AGTATCATGACACAACAAAGAC
** * * *
1137487 TTTATTAATTAATGAAAAGAATTATATAATTTAGAG-AAAAATAATAAATACTCATCGTAAATAG
1 TTTATTAATTAATGAAAAGAACCATATAATTTAGAGAAAAAATAACAAATACTCATAGCAAATAG
* * * *
1137551 TGAAGGATAACCTCAAACAATACACCAAAGACTTTAGCCTTAGTATCAT
66 TGAAGGACAACCTCAAACAACACAACAAAAACTTTAGCCTTAGTATCAT
1137600 ATTATGAACA
Statistics
Matches: 100, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
127 64 0.64
128 3 0.03
129 33 0.33
ACGTcount: A:0.48, C:0.14, G:0.12, T:0.26
Consensus pattern (128 bp):
TTTATTAATTAATGAAAAGAACCATATAATTTAGAGAAAAAATAACAAATACTCATAGCAAATAG
TGAAGGACAACCTCAAACAACACAACAAAAACTTTAGCCTTAGTATCATGACACAACAAAGAC
Found at i:1148484 original size:78 final size:78
Alignment explanation
Indices: 1148353--1148509 Score: 287
Period size: 78 Copynumber: 2.0 Consensus size: 78
1148343 TCCAAGTGAC
* *
1148353 TCCTTTCTTGATCAAACTTTGAGCTTCTTTCATTGGTATCAACTGGAAGTATCAACTGGCTTTCT
1 TCCTTTCTTGATCAAACGTTGAGCTTCTTTCATTGGTATCAACTGAAAGTATCAACTGGCTTTCT
1148418 TGATTTTGTTTTT
66 TGATTTTGTTTTT
*
1148431 TCCTTTCTTGATCAAACGTTGAGCTTCTTTCATTGGTATCAACTGAAATTATCAACTGGCTTTCT
1 TCCTTTCTTGATCAAACGTTGAGCTTCTTTCATTGGTATCAACTGAAAGTATCAACTGGCTTTCT
1148496 TGATTTTGTTTTT
66 TGATTTTGTTTTT
1148509 T
1 T
1148510 TTTACCGGGA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 76 1.00
ACGTcount: A:0.20, C:0.18, G:0.15, T:0.48
Consensus pattern (78 bp):
TCCTTTCTTGATCAAACGTTGAGCTTCTTTCATTGGTATCAACTGAAAGTATCAACTGGCTTTCT
TGATTTTGTTTTT
Found at i:1150983 original size:20 final size:19
Alignment explanation
Indices: 1150956--1151005 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
1150946 TTAGTTTGTC
*
1150956 TTAT-ATTTTTAAAGTTTTT
1 TTATAATTTTT-AAGCTTTT
*
1150975 TTATAATTTTTATGCTTTT
1 TTATAATTTTTAAGCTTTT
1150994 TTATAATATTTT
1 TTATAAT-TTTT
1151006 GTAATTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 17 0.63
20 10 0.37
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (19 bp):
TTATAATTTTTAAGCTTTT
Found at i:1151059 original size:19 final size:22
Alignment explanation
Indices: 1151035--1151082 Score: 68
Period size: 19 Copynumber: 2.4 Consensus size: 22
1151025 TAAAATTTAT
1151035 TATTTTCT-ATA-TTTTTA-AA
1 TATTTTCTCATATTTTTTACAA
1151054 TATTTT-TCATATTTTTTACAA
1 TATTTTCTCATATTTTTTACAA
1151075 TATTTTCT
1 TATTTTCT
1151083 TTTTGCAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 1 0.04
19 9 0.36
20 6 0.24
21 8 0.32
22 1 0.04
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (22 bp):
TATTTTCTCATATTTTTTACAA
Found at i:1151076 original size:21 final size:20
Alignment explanation
Indices: 1151037--1151080 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 20
1151027 AAATTTATTA
1151037 TTTTCTATATTTTTAAATAT
1 TTTTCTATATTTTTAAATAT
1151057 TTTTC-ATATTTTTTACAATAT
1 TTTTCTATA-TTTTTA-AATAT
1151078 TTT
1 TTT
1151081 CTTTTTGCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 3 0.14
20 11 0.50
21 8 0.36
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTTCTATATTTTTAAATAT
Found at i:1151116 original size:21 final size:24
Alignment explanation
Indices: 1151090--1151134 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 24
1151080 TCTTTTTGCA
1151090 ATTTAT-ATAATTTT-T-ATTTTT
1 ATTTATAATAATTTTATCATTTTT
1151111 ATTTATAATAATTTTATCATTTTT
1 ATTTATAATAATTTTATCATTTTT
1151135 GTGCACTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 6 0.29
22 8 0.38
23 1 0.05
24 6 0.29
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (24 bp):
ATTTATAATAATTTTATCATTTTT
Found at i:1151174 original size:22 final size:21
Alignment explanation
Indices: 1151141--1151196 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 21
1151131 TTTTGTGCAC
* *
1151141 TTTTCTATATTTTCAATTAATTT
1 TTTTGTATATTTTCAA--AATAT
*
1151164 TTTTGTA-ATTTTTAAAATAT
1 TTTTGTATATTTTCAAAATAT
1151184 TTTTGTATATTTT
1 TTTTGTATATTTT
1151197 TATAATGATT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 11 0.38
21 5 0.17
22 7 0.24
23 6 0.21
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.66
Consensus pattern (21 bp):
TTTTGTATATTTTCAAAATAT
Found at i:1153773 original size:18 final size:16
Alignment explanation
Indices: 1153741--1153776 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 16
1153731 ATGGGATGAG
1153741 AATAAATTTTTAATTA
1 AATAAATTTTTAATTA
1153757 AATAAATTTAATTAATTA
1 AATAAATTT--TTAATTA
1153775 AA
1 AA
1153777 AATTTTAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.50
18 9 0.50
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AATAAATTTTTAATTA
Found at i:1154626 original size:18 final size:17
Alignment explanation
Indices: 1154595--1154629 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
1154585 GATTTAGGGT
1154595 TTAAATTTTTTAATTAA
1 TTAAATTTTTTAATTAA
1154612 TTAAATTTATTTAATTAA
1 TTAAATTT-TTTAATTAA
1154630 AAATATATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTAAATTTTTTAATTAA
Found at i:1155807 original size:12 final size:12
Alignment explanation
Indices: 1155790--1155843 Score: 90
Period size: 12 Copynumber: 4.5 Consensus size: 12
1155780 AGCAACAAGG
*
1155790 TATAAACTAGAT
1 TATAAACCAGAT
1155802 TATAAACCAGAT
1 TATAAACCAGAT
*
1155814 TATAAACCAGAA
1 TATAAACCAGAT
1155826 TATAAACCAGAT
1 TATAAACCAGAT
1155838 TATAAA
1 TATAAA
1155844 ATTTCAAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 39 1.00
ACGTcount: A:0.54, C:0.13, G:0.07, T:0.26
Consensus pattern (12 bp):
TATAAACCAGAT
Found at i:1157248 original size:31 final size:32
Alignment explanation
Indices: 1157210--1157271 Score: 90
Period size: 31 Copynumber: 1.9 Consensus size: 32
1157200 CCAAAACAAG
*
1157210 CTTTTAGCGGCGCTTT-TTAGCGCCGCAAATA
1 CTTTTAGCGGCGCTTTATAAGCGCCGCAAATA
*
1157241 CTTTTAGCGGTGCTTTGATAAGCGCCGCAAA
1 CTTTTAGCGGCGCTTT-ATAAGCGCCGCAAA
1157272 AGATGCCGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 15 0.56
33 12 0.44
ACGTcount: A:0.21, C:0.24, G:0.24, T:0.31
Consensus pattern (32 bp):
CTTTTAGCGGCGCTTTATAAGCGCCGCAAATA
Found at i:1157457 original size:43 final size:43
Alignment explanation
Indices: 1157385--1157529 Score: 127
Period size: 43 Copynumber: 3.4 Consensus size: 43
1157375 AGATTAAGAG
*
1157385 CTTTAGCGGCGTTTTTAATATAACTGCCGCTATAGAT-TGGTGT
1 CTTTAGCGGCGTTTTTAATATAACTGCCGCTATAGATCAGG-GT
**
1157428 CTTTAGCGGCGTTTTTGTTGA-AAGC-GCCGCTATAGATCAGGGT
1 CTTTAGCGGCGTTTTTAAT-ATAA-CTGCCGCTATAGATCAGGGT
* * * * * * *
1157471 CGTTAGCGGCTTTTTTTATATAAGC-ACCACTATAGATCATGGC
1 CTTTAGCGGCGTTTTTAATATAA-CTGCCGCTATAGATCAGGGT
*
1157514 CTTTAGCGGCGCTTTT
1 CTTTAGCGGCGTTTTT
1157530 CCCAAAAACG
Statistics
Matches: 84, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
42 1 0.01
43 79 0.94
44 4 0.05
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.37
Consensus pattern (43 bp):
CTTTAGCGGCGTTTTTAATATAACTGCCGCTATAGATCAGGGT
Found at i:1157549 original size:43 final size:43
Alignment explanation
Indices: 1157502--1157624 Score: 149
Period size: 43 Copynumber: 2.9 Consensus size: 43
1157492 AAGCACCACT
* * * *
1157502 ATAGATCATGGCCTTTAGCGGCGCTTTTCCCA-AAAACGCCGCA
1 ATAGACCATGACCTATAGCGGCGCTTTT-CCAGAAAACACCGCA
* *
1157545 ATAGACCCTGATCTATAGCGGCGCTTTTCCAGAAAACACCGCA
1 ATAGACCATGACCTATAGCGGCGCTTTTCCAGAAAACACCGCA
* * *
1157588 ATAGACCCTGATCTATAGCGGCGCTTATCCAGAAAAC
1 ATAGACCATGACCTATAGCGGCGCTTTTCCAGAAAAC
1157625 GCAGCTAAAT
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
42 3 0.04
43 69 0.96
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (43 bp):
ATAGACCATGACCTATAGCGGCGCTTTTCCAGAAAACACCGCA
Found at i:1157639 original size:43 final size:42
Alignment explanation
Indices: 1157517--1157722 Score: 229
Period size: 43 Copynumber: 4.7 Consensus size: 42
1157507 TCATGGCCTT
1157517 TAGCGGCGCTTTTCCCAAAAACGCCGC-AATAGACCCTGATCTA
1 TAGCGGCGCTTTT-CCAAAAACGCCGCTAA-AGACCCTGATCTA
*
1157560 TAGCGGCGCTTTTCCAGAAAACACCGC-AATAGACCCTGATCTA
1 TAGCGGCGCTTTTCCA-AAAACGCCGCTAA-AGACCCTGATCTA
* * *
1157603 TAGCGGCGCTTATCCAGAAAACGCAGCTAAATACCCTTTG-TCTATA
1 TAGCGGCGCTTTTCCA-AAAACGCCGCTAAAGACCC--TGATC--TA
** *
1157649 TAGCGGCGCTTCGCGCAAAAACGCCGCTAAAGACCCTAATCTA
1 TAGCGGCGCTTTTC-CAAAAACGCCGCTAAAGACCCTGATCTA
1157692 TAGCGGCGCTTTTACCAAAAACGCCGCTAAA
1 TAGCGGCGCTTTT-CCAAAAACGCCGCTAAA
1157723 TTTGGCAGAT
Statistics
Matches: 142, Mismatches: 12, Indels: 18
0.83 0.07 0.10
Matches are distributed among these distances:
42 3 0.02
43 96 0.68
44 6 0.04
45 4 0.03
46 31 0.22
47 2 0.01
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (42 bp):
TAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCTGATCTA
Found at i:1157683 original size:89 final size:89
Alignment explanation
Indices: 1157558--1157723 Score: 230
Period size: 89 Copynumber: 1.9 Consensus size: 89
1157548 GACCCTGATC
** *
1157558 TATAGCGGCGCTTTTCCAGAAAACACCGCAATAGACCCTGATCTATAGCGGCGCTTAT-CCAGAA
1 TATAGCGGCGCTTCGCCAGAAAACACCGCAATAGACCCTAATCTATAGCGGCGCTTATACCA-AA
1157622 AACGCAGCTAAATACCCTTTGTCTA
65 AACGCAGCTAAATACCCTTTGTCTA
* *
1157647 TATAGCGGCGCTTCGCGCA-AAAACGCCGCTAA-AGACCCTAATCTATAGCGGCGCTTTTACCAA
1 TATAGCGGCGCTTCGC-CAGAAAACACCGC-AATAGACCCTAATCTATAGCGGCGCTTATACCAA
*
1157710 AAACGCCGCTAAAT
64 AAACGCAGCTAAAT
1157724 TTGGCAGATT
Statistics
Matches: 68, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
89 61 0.90
90 7 0.10
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.22
Consensus pattern (89 bp):
TATAGCGGCGCTTCGCCAGAAAACACCGCAATAGACCCTAATCTATAGCGGCGCTTATACCAAAA
ACGCAGCTAAATACCCTTTGTCTA
Found at i:1158055 original size:21 final size:21
Alignment explanation
Indices: 1158029--1158140 Score: 125
Period size: 21 Copynumber: 5.3 Consensus size: 21
1158019 TTTGACGCTG
1158029 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
**
1158050 CTCTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGCAGC
*
1158071 CTCTGCTTCCCTTGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* * * *
1158092 CTGTTCTTCTCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
* * *
1158113 CTCTGCTTCTCTTGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
*
1158134 ATCTGCT
1 CTCTGCT
1158141 CTAAGCTGCT
Statistics
Matches: 77, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 77 1.00
ACGTcount: A:0.04, C:0.43, G:0.18, T:0.36
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:1158196 original size:66 final size:66
Alignment explanation
Indices: 1158117--1158258 Score: 189
Period size: 66 Copynumber: 2.2 Consensus size: 66
1158107 TGCCGCCTCT
* *
1158117 GCTTCTCTTGCTGCCGCATCTGCTCTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTTGAACC
1 GCTTCTCTCGCTGCCGCATCTGCTCTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-GTTGAACA
*
1158180 TTA
64 TCA
* * * *
1158183 GCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGAACATC
1 GCTTCTCTCGCTGCCGCATCTGCTCTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGAACATC
1158248 A
66 A
1158249 GCTTCTCTCG
1 GCTTCTCTCG
1158259 ATGTTGCCTC
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
65 1 0.01
66 62 0.93
67 4 0.06
ACGTcount: A:0.14, C:0.27, G:0.19, T:0.40
Consensus pattern (66 bp):
GCTTCTCTCGCTGCCGCATCTGCTCTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGAACATC
A
Found at i:1158274 original size:66 final size:66
Alignment explanation
Indices: 1158151--1158281 Score: 183
Period size: 66 Copynumber: 2.0 Consensus size: 66
1158141 CTAAGCTGCT
* * * *
1158151 GCTGGAGTTCTTCATACTTTCGTTGAACCTTAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGT
1 GCTGGAGTTCTTCATACTTTCGTTGAACATCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTGT
1158216 A
66 A
* * *
1158217 GCTGGAGTTCTTCATATCTTT-TTTGAACATCAGCTTCTCTCGATGTTGCCTCCGCTTTAAGTTG
1 GCTGGAGTTCTTCATA-CTTTCGTTGAACATCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTG
1158281 T
65 T
1158282 GTAATTTGCT
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
66 53 0.93
67 4 0.07
ACGTcount: A:0.15, C:0.24, G:0.19, T:0.42
Consensus pattern (66 bp):
GCTGGAGTTCTTCATACTTTCGTTGAACATCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTGT
A
Found at i:1161640 original size:27 final size:29
Alignment explanation
Indices: 1161610--1161670 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 29
1161600 ATTATTCAAC
1161610 AAATAATAGAAAAT-TTTTAAA-AAATAA
1 AAATAATAGAAAATATTTTAAATAAATAA
* ** *
1161637 AAATTATATCAAATATTTTAAATATATAA
1 AAATAATAGAAAATATTTTAAATAAATAA
1161666 AAATA
1 AAATA
1161671 TCTACAATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
27 11 0.41
28 7 0.26
29 9 0.33
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (29 bp):
AAATAATAGAAAATATTTTAAATAAATAA
Found at i:1161764 original size:9 final size:9
Alignment explanation
Indices: 1161752--1161903 Score: 69
Period size: 8 Copynumber: 17.6 Consensus size: 9
1161742 TATTTTAAAT
1161752 TTTTTATAA
1 TTTTTATAA
*
1161761 -TTTTATAC
1 TTTTTATAA
1161769 TTTTTATAA
1 TTTTTATAA
*
1161778 TATTTTGTAA
1 T-TTTTATAA
1161788 TTTTTATTAA
1 TTTTTA-TAA
*
1161798 TTTATTAAAA
1 TTT-TTATAA
1161808 TTTATTAT--
1 TTT-TTATAA
*
1161816 TTTCTAT-A
1 TTTTTATAA
1161824 TTTTTA-AA
1 TTTTTATAA
1161832 TATTTTCAT-A
1 T-TTTT-ATAA
*
1161842 TTTTTACAA
1 TTTTTATAA
*
1161851 TATTTTCT--
1 T-TTTTATAA
*
1161859 TTTTT-CAA
1 TTTTTATAA
*
1161867 TTTATATAA
1 TTTTTATAA
1161876 TTTTTAT--
1 TTTTTATAA
1161883 TTTTT-TAA
1 TTTTTATAA
*
1161891 TTTTAAT-A
1 TTTTTATAA
1161899 TTTTT
1 TTTTT
1161904 GCAAGTTTTT
Statistics
Matches: 109, Mismatches: 17, Indels: 35
0.68 0.11 0.22
Matches are distributed among these distances:
6 1 0.01
7 12 0.11
8 32 0.29
9 31 0.28
10 30 0.28
11 3 0.03
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.66
Consensus pattern (9 bp):
TTTTTATAA
Found at i:1161765 original size:17 final size:17
Alignment explanation
Indices: 1161739--1161778 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
1161729 TTAGTTTGTC
*
1161739 TTAT-ATTTTAAATTTT
1 TTATAATTTTAAACTTT
*
1161755 TTATAATTTTATACTTT
1 TTATAATTTTAAACTTT
1161772 TTATAAT
1 TTATAAT
1161779 ATTTTGTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATAATTTTAAACTTT
Found at i:1161782 original size:19 final size:18
Alignment explanation
Indices: 1161741--1161856 Score: 73
Period size: 18 Copynumber: 6.4 Consensus size: 18
1161731 AGTTTGTCTT
*
1161741 ATATTTTAAATTTTT-T-
1 ATATTTTATATTTTTATA
1161757 ATAATTTTATACTTTTTATA
1 AT-ATTTTATA-TTTTTATA
*
1161777 ATATTTTGTAATTTTTATTA
1 ATATTTTAT-ATTTTTA-TA
** *
1161797 AT-TTATTA-AAATTTATT
1 ATATT-TTATATTTTTATA
1161814 AT-TTTCTATATTTTTA-A
1 ATATTT-TATATTTTTATA
*
1161831 ATATTTTCATATTTTTACA
1 ATATTTT-ATATTTTTATA
1161850 ATATTTT
1 ATATTTT
1161857 CTTTTTTCAA
Statistics
Matches: 79, Mismatches: 9, Indels: 21
0.72 0.08 0.19
Matches are distributed among these distances:
16 3 0.04
17 17 0.22
18 27 0.34
19 23 0.29
20 9 0.11
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (18 bp):
ATATTTTATATTTTTATA
Found at i:1161857 original size:19 final size:19
Alignment explanation
Indices: 1161813--1161858 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 19
1161803 TAAAATTTAT
1161813 TATTTTCTATATTTTTAAA
1 TATTTTCTATATTTTTAAA
1161832 TATTTTC-ATATTTTTACAA
1 TATTTTCTATATTTTTA-AA
1161851 TATTTTCT
1 TATTTTCT
1161859 TTTTTCAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.63
Consensus pattern (19 bp):
TATTTTCTATATTTTTAAA
Found at i:1163720 original size:17 final size:17
Alignment explanation
Indices: 1163698--1163731 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1163688 ATCCACTAAT
*
1163698 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
1163715 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
1163732 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:1168359 original size:17 final size:17
Alignment explanation
Indices: 1168337--1168370 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1168327 ATCCACTAAT
*
1168337 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
1168354 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
1168371 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:1169338 original size:128 final size:129
Alignment explanation
Indices: 1169109--1169351 Score: 355
Period size: 128 Copynumber: 1.9 Consensus size: 129
1169099 TAAAGGTAAA
* *
1169109 TTTATTAATTAATGAAGAGAACCATATAATTTAGAGAAAAAAATAACAAATACTCATAGCAGATA
1 TTTATTAATTAATGAAAAGAACCATATAATTTAGAGAAAAAAATAACAAATACTCATAGCAAATA
*
1169174 GTGAAGGACAAGCTCAAACAACACAACAAAAACTTTAG-CTTCAGTATCATGACACAACAAAGAC
66 GTGAAGGACAACCTCAAACAACACAACAAAAACTTTAGCCTT-AGTATCATGACACAACAAAGAC
** * * *
1169238 TTTATTAATTAATGAAAAGAATTATATAATTTAGAG-AAAAAATAATAAATACTCATCGTAAATA
1 TTTATTAATTAATGAAAAGAACCATATAATTTAGAGAAAAAAATAACAAATACTCATAGCAAATA
* * * *
1169302 GTGAAGGATAACCTCAAACAATACACCAAACACTTTAGCCTTAGTATCAT
66 GTGAAGGACAACCTCAAACAACACAACAAAAACTTTAGCCTTAGTATCAT
1169352 ATTATGAACA
Statistics
Matches: 101, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
128 65 0.64
129 36 0.36
ACGTcount: A:0.49, C:0.15, G:0.11, T:0.26
Consensus pattern (129 bp):
TTTATTAATTAATGAAAAGAACCATATAATTTAGAGAAAAAAATAACAAATACTCATAGCAAATA
GTGAAGGACAACCTCAAACAACACAACAAAAACTTTAGCCTTAGTATCATGACACAACAAAGAC
Found at i:1177359 original size:19 final size:19
Alignment explanation
Indices: 1177333--1177376 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
1177323 TTAGTTTGTC
*
1177333 TTAT-ATTTTAAAGTTTTT
1 TTATAATTTTAAAGCTTTT
* *
1177351 TTATAATTTTTATGCTTTT
1 TTATAATTTTAAAGCTTTT
1177370 TTATAAT
1 TTATAAT
1177377 ATTTTGTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (19 bp):
TTATAATTTTAAAGCTTTT
Found at i:1177360 original size:9 final size:9
Alignment explanation
Indices: 1177348--1177602 Score: 72
Period size: 9 Copynumber: 27.0 Consensus size: 9
1177338 TTTTAAAGTT
1177348 TTTTTATAA
1 TTTTTATAA
**
1177357 TTTTTATGCT
1 TTTTTAT-AA
1177367 TTTTTATAA
1 TTTTTATAA
*
1177376 TATTTTGTAA
1 T-TTTTATAA
1177386 TTTTTACTAA
1 TTTTTA-TAA
*
1177396 TTTATTAAAA
1 TTT-TTATAA
1177406 TTTATTAT--
1 TTT-TTATAA
*
1177414 TTTCTAT-A
1 TTTTTATAA
*
1177422 TTTTTAAATA
1 TTTTTATA-A
*
1177432 TTTTTCATAT
1 TTTTT-ATAA
*
1177442 TTTTTACAA
1 TTTTTATAA
* *
1177451 TATTT-T-C
1 TTTTTATAA
**
1177458 TTTTTGCAA
1 TTTTTATAA
*
1177467 TTTATATAA
1 TTTTTATAA
**
1177476 TTTTTATTT
1 TTTTTATAA
1177485 TTATTTATAA
1 TT-TTTATAA
*
1177495 TAATTTTATCA
1 T--TTTTATAA
* *
1177506 TTTTTGTGCAC
1 TTTTTAT--AA
1177517 TTTTCTAT-A
1 TTTT-TATAA
*
1177526 TTTTCAATTAA
1 TTTT-TA-TAA
*
1177537 TTTTTTGTAA
1 -TTTTTATAA
*
1177547 TTTTTAAAA
1 TTTTTATAA
*
1177556 TATTTTGTATA
1 T-TTTTATA-A
1177567 TTTTTATAA
1 TTTTTATAA
**
1177576 TGATTATAA
1 TTTTTATAA
*
1177585 TTTTTATTA
1 TTTTTATAA
*
1177594 TTTTAATAA
1 TTTTTATAA
1177603 AAAATTAATT
Statistics
Matches: 175, Mismatches: 50, Indels: 42
0.66 0.19 0.16
Matches are distributed among these distances:
7 7 0.04
8 8 0.05
9 72 0.41
10 62 0.35
11 19 0.11
12 7 0.04
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (9 bp):
TTTTTATAA
Found at i:1177435 original size:19 final size:22
Alignment explanation
Indices: 1177411--1177458 Score: 68
Period size: 19 Copynumber: 2.4 Consensus size: 22
1177401 TAAAATTTAT
1177411 TATTTTCT-ATA-TTTTTA-AA
1 TATTTTCTCATATTTTTTACAA
1177430 TATTTT-TCATATTTTTTACAA
1 TATTTTCTCATATTTTTTACAA
1177451 TATTTTCT
1 TATTTTCT
1177459 TTTTGCAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 1 0.04
19 9 0.36
20 6 0.24
21 8 0.32
22 1 0.04
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (22 bp):
TATTTTCTCATATTTTTTACAA
Found at i:1177452 original size:21 final size:20
Alignment explanation
Indices: 1177413--1177456 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 20
1177403 AAATTTATTA
1177413 TTTTCTATATTTTTAAATAT
1 TTTTCTATATTTTTAAATAT
1177433 TTTTC-ATATTTTTTACAATAT
1 TTTTCTATA-TTTTTA-AATAT
1177454 TTT
1 TTT
1177457 CTTTTTGCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 3 0.14
20 11 0.50
21 8 0.36
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTTCTATATTTTTAAATAT
Found at i:1177492 original size:21 final size:24
Alignment explanation
Indices: 1177466--1177510 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 24
1177456 TCTTTTTGCA
1177466 ATTTAT-ATAATTTT-T-ATTTTT
1 ATTTATAATAATTTTATCATTTTT
1177487 ATTTATAATAATTTTATCATTTTT
1 ATTTATAATAATTTTATCATTTTT
1177511 GTGCACTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 6 0.29
22 8 0.38
23 1 0.05
24 6 0.29
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (24 bp):
ATTTATAATAATTTTATCATTTTT
Found at i:1180147 original size:18 final size:16
Alignment explanation
Indices: 1180115--1180150 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 16
1180105 ATGGGATGAG
1180115 AATAAATTTTTAATTA
1 AATAAATTTTTAATTA
1180131 AATAAATTTAATTAATTA
1 AATAAATTT--TTAATTA
1180149 AA
1 AA
1180151 AATTTTAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.50
18 9 0.50
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AATAAATTTTTAATTA
Done.