Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 313 of 320
Found at i:100026118 original size:44 final size:43
Alignment explanation
Indices: 100026036--100026120 Score: 104
Period size: 43 Copynumber: 2.0 Consensus size: 43
100026026 CTCAAATCAT
* *
100026036 AATATATGATACTATAAAATATAAATTAACATAATTATTATTA
1 AATATATGATAATATAAAATATAAATTAAAATAATTATTATTA
* *
100026079 AATATATTATAAT-TAAAATATATAATT-TAATAA-TATTATTA
1 AATATATGATAATATAAAATATA-AATTAAAATAATTATTATTA
100026120 A
1 A
100026121 TAATCAATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
41 9 0.24
42 13 0.35
43 15 0.41
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.42
Consensus pattern (43 bp):
AATATATGATAATATAAAATATAAATTAAAATAATTATTATTA
Found at i:100035137 original size:29 final size:31
Alignment explanation
Indices: 100035090--100035151 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 31
100035080 TGGAAGTAGA
* *
100035090 TTTATAAATAAAAAGGTA-GAGGGATTAAATT
1 TTTAAAAATAAAAAGGTAGGA-GAATTAAATT
100035121 TTTAAAAAT-AAAA-GTAGGAGAATTAAATT
1 TTTAAAAATAAAAAGGTAGGAGAATTAAATT
100035150 TT
1 TT
100035152 AAATCTACGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 14 0.50
30 6 0.21
31 8 0.29
ACGTcount: A:0.50, C:0.00, G:0.16, T:0.34
Consensus pattern (31 bp):
TTTAAAAATAAAAAGGTAGGAGAATTAAATT
Found at i:100036567 original size:15 final size:15
Alignment explanation
Indices: 100036529--100036561 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
100036519 TTTCCACATC
*
100036529 ATTATTTAAATTTGT
1 ATTATTTATATTTGT
100036544 ATTATTTATATTTGT
1 ATTATTTATATTTGT
100036559 ATT
1 ATT
100036562 TATTATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (15 bp):
ATTATTTATATTTGT
Found at i:100037727 original size:26 final size:26
Alignment explanation
Indices: 100037698--100037805 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
100037688 TGGTACAAAT
100037698 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
100037724 TGATAATGGATTAAGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
100037750 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
100037776 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
100037802 TGAT
1 TGAT
100037806 GGGCATTTCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:100039453 original size:23 final size:23
Alignment explanation
Indices: 100039427--100039474 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
100039417 AATACTAAAA
100039427 ATAGTTATCCAATTGTGCCGTTC
1 ATAGTTATCCAATTGTGCCGTTC
100039450 ATAGTTATCCAATTGTGCCGTTC
1 ATAGTTATCCAATTGTGCCGTTC
100039473 AT
1 AT
100039475 CCTATTTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.40
Consensus pattern (23 bp):
ATAGTTATCCAATTGTGCCGTTC
Found at i:100046371 original size:17 final size:18
Alignment explanation
Indices: 100046333--100046378 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
100046323 AAAACACGAG
100046333 ATTT-AATAA-TTTATAA
1 ATTTAAATAATTTTATAA
100046349 ATTTTAAATAATTTTAT-A
1 A-TTTAAATAATTTTATAA
100046367 ATTTAAATAATT
1 ATTTAAATAATT
100046379 CAACAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 1 0.04
17 14 0.52
18 7 0.26
19 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
ATTTAAATAATTTTATAA
Found at i:100049258 original size:21 final size:22
Alignment explanation
Indices: 100049218--100049258 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
100049208 CAAGATGAAA
*
100049218 AAAACATTGAACATAACTAAAG
1 AAAACATTGAACACAACTAAAG
*
100049240 AAAACTTTG-ACACAACTAA
1 AAAACATTGAACACAACTAA
100049259 TAATGCATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.56, C:0.17, G:0.07, T:0.20
Consensus pattern (22 bp):
AAAACATTGAACACAACTAAAG
Found at i:100053506 original size:21 final size:21
Alignment explanation
Indices: 100053482--100053521 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
100053472 TAACGGGACT
*
100053482 GCTGACGTGTCAAGTTAACCA
1 GCTGACGTGGCAAGTTAACCA
*
100053503 GCTGATGTGGCAAGTTAAC
1 GCTGACGTGGCAAGTTAAC
100053522 TTGCCATGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (21 bp):
GCTGACGTGGCAAGTTAACCA
Found at i:100054266 original size:3 final size:3
Alignment explanation
Indices: 100054258--100054295 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
100054248 ACCATTAAAC
* *
100054258 CTT CTT CTT CTT CTT CTC CTT C-T CCT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
100054296 TTTTTTTCTG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (3 bp):
CTT
Found at i:100057840 original size:8 final size:8
Alignment explanation
Indices: 100057827--100057876 Score: 52
Period size: 8 Copynumber: 6.4 Consensus size: 8
100057817 AATATATTAT
100057827 AAAATTTA
1 AAAATTTA
100057835 AAAATTTAA
1 AAAATTT-A
*
100057844 AAAATATA
1 AAAATTTA
100057852 AAAA-TTA
1 AAAATTTA
100057859 AAAA--TA
1 AAAATTTA
100057865 ACAAATTTA
1 A-AAATTTA
100057874 AAA
1 AAA
100057877 GATAAAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
6 3 0.08
7 9 0.25
8 14 0.39
9 10 0.28
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (8 bp):
AAAATTTA
Found at i:100057854 original size:16 final size:15
Alignment explanation
Indices: 100057833--100057892 Score: 59
Period size: 16 Copynumber: 3.9 Consensus size: 15
100057823 TTATAAAATT
*
100057833 TAAAAATTTAAAAAA
1 TAAAAAATTAAAAAA
100057848 TATAAAAATT-AAAAA
1 TA-AAAAATTAAAAAA
* *
100057863 TAACAAATTTAAAAGA
1 TAA-AAAATTAAAAAA
100057879 TAAAAAAATTAAAA
1 T-AAAAAATTAAAA
100057893 TTAATCAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
14 1 0.03
15 14 0.38
16 20 0.54
17 2 0.05
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (15 bp):
TAAAAAATTAAAAAA
Found at i:100057861 original size:15 final size:15
Alignment explanation
Indices: 100057822--100057913 Score: 66
Period size: 15 Copynumber: 5.9 Consensus size: 15
100057812 TAATAAATAT
*
100057822 ATTATAAAATTTAAAA
1 ATTA-AAAATATAAAA
100057838 ATTTAAAAAATATAAAA
1 A-TT-AAAAATATAAAA
100057855 ATTAAAAATA-ACAAA
1 ATTAAAAATATA-AAA
* *
100057870 TTTAAAAGATAAAAAA
1 ATTAAAA-ATATAAAA
100057886 ATT-AAAAT-TAATCAA
1 ATTAAAAATATAA--AA
100057901 ATT-AAAATATAAA
1 ATTAAAAATATAAA
100057914 TGATAAATTC
Statistics
Matches: 64, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
13 2 0.03
14 4 0.06
15 29 0.45
16 14 0.22
17 14 0.22
18 1 0.02
ACGTcount: A:0.67, C:0.02, G:0.01, T:0.29
Consensus pattern (15 bp):
ATTAAAAATATAAAA
Found at i:100057871 original size:31 final size:32
Alignment explanation
Indices: 100057836--100057913 Score: 106
Period size: 31 Copynumber: 2.5 Consensus size: 32
100057826 TAAAATTTAA
*
100057836 AAATTTAAAAAATATAAAAATTAAAAATAA-C
1 AAATTTAAAAAATAAAAAAATTAAAAATAATC
* *
100057867 AAATTTAAAAGATAAAAAAATTAAAATTAATC
1 AAATTTAAAAAATAAAAAAATTAAAAATAATC
*
100057899 AAA-TTAAAATATAAA
1 AAATTTAAAAAATAAA
100057914 TGATAAATTC
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
31 38 0.90
32 4 0.10
ACGTcount: A:0.69, C:0.03, G:0.01, T:0.27
Consensus pattern (32 bp):
AAATTTAAAAAATAAAAAAATTAAAAATAATC
Found at i:100062014 original size:21 final size:21
Alignment explanation
Indices: 100061971--100062023 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
100061961 TAATTCTAAA
* * *
100061971 TATTATGTAAAAAAATTTTATT
1 TATTAT-TTAAAAAATGTCATT
100061993 TATTATTTAAAAAATGTCATT
1 TATTATTTAAAAAATGTCATT
100062014 T-TCTATTTAA
1 TAT-TATTTAA
100062024 TAGAATTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 1 0.04
21 20 0.74
22 6 0.22
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.51
Consensus pattern (21 bp):
TATTATTTAAAAAATGTCATT
Found at i:100063194 original size:19 final size:21
Alignment explanation
Indices: 100063172--100063219 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
100063162 TTAATGTCTA
*
100063172 TATTTTTTATT-AA-TTTAAT
1 TATTTTTTATTAAAGTTAAAT
*
100063191 TATTATTTTTTTAAAGTTAAAT
1 TATT-TTTTATTAAAGTTAAAT
100063213 TATTTTT
1 TATTTTT
100063220 ATTTAATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 4 0.17
20 6 0.25
21 5 0.21
22 9 0.38
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (21 bp):
TATTTTTTATTAAAGTTAAAT
Found at i:100063309 original size:24 final size:24
Alignment explanation
Indices: 100063277--100063340 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 24
100063267 TATTTATGTT
*
100063277 ATATGTAACAAT-AAAAATAAATAA
1 ATATATAACAATAAAAAAT-AATAA
100063301 ATATATAACAATAAAAAATAATAA
1 ATATATAACAATAAAAAATAATAA
*
100063325 A-A-ATAAAAATAAAAAA
1 ATATATAACAATAAAAAA
100063341 CGTATGAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
22 13 0.35
23 1 0.03
24 17 0.46
25 6 0.16
ACGTcount: A:0.73, C:0.03, G:0.02, T:0.22
Consensus pattern (24 bp):
ATATATAACAATAAAAAATAATAA
Found at i:100066675 original size:13 final size:13
Alignment explanation
Indices: 100066657--100066683 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
100066647 GTAACTCCAT
100066657 CACCCCACTAAAC
1 CACCCCACTAAAC
100066670 CACCCCACTAAAC
1 CACCCCACTAAAC
100066683 C
1 C
100066684 GACCAGTAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.56, G:0.00, T:0.07
Consensus pattern (13 bp):
CACCCCACTAAAC
Found at i:100066712 original size:17 final size:17
Alignment explanation
Indices: 100066690--100066724 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
100066680 AACCGACCAG
100066690 TAACTCCATCACCCCAC
1 TAACTCCATCACCCCAC
*
100066707 TAACTCCATTACCCCAC
1 TAACTCCATCACCCCAC
100066724 T
1 T
100066725 TGCCTGCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.49, G:0.00, T:0.23
Consensus pattern (17 bp):
TAACTCCATCACCCCAC
Found at i:100067112 original size:21 final size:22
Alignment explanation
Indices: 100067056--100067116 Score: 70
Period size: 24 Copynumber: 2.7 Consensus size: 22
100067046 TTCCATTGAG
**
100067056 TTCTTTAAAATTCATGTTTTTATA
1 TTCTTT-AAATTCAT-TCATTATA
100067080 TTCTTTATAATTCATTCATTAT-
1 TTCTTTA-AATTCATTCATTATA
100067102 TTCTTTAAATTCATT
1 TTCTTTAAATTCATT
100067117 TGGCATTCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
21 8 0.24
22 7 0.21
23 6 0.18
24 13 0.38
ACGTcount: A:0.28, C:0.11, G:0.02, T:0.59
Consensus pattern (22 bp):
TTCTTTAAATTCATTCATTATA
Found at i:100068180 original size:125 final size:125
Alignment explanation
Indices: 100067946--100068257 Score: 444
Period size: 125 Copynumber: 2.5 Consensus size: 125
100067936 CCCCCAACAT
* * * * * * * *
100067946 GAGGAAATCTTTCGTGTTTGGAAGTTTGAGAGATCGTGCACAATTGTGCTGGGTTTCGATTTTTC
1 GAGGCAATATTTCGTATTTGAAAGTTTGATAAATCGTGCCCAATCGTGCTGGGTTTCGATTTTTC
* *
100068011 ATTCGACAAAAATACAGAATATCCTTTTGAAATTTCATCTATGTTCTCTTAAATTAAAGC
66 ATTCGACAAAAATACAGAATATCCTTTTGAAATTTCATCCATGTTCTCTTAAATTAAAAC
* *
100068071 GAGGCAATATTTCGTATTTGAAAGTTCGATAAATCGTGCCCAATCGTGTTGGGTTTCGATTTTTC
1 GAGGCAATATTTCGTATTTGAAAGTTTGATAAATCGTGCCCAATCGTGCTGGGTTTCGATTTTTC
* * * * * *
100068136 ATTCGACTAAAATACTGAATATTCTTTTGGAATTTCATCCATGTTTTCTTAAATTAAAAT
66 ATTCGACAAAAATACAGAATATCCTTTTGAAATTTCATCCATGTTCTCTTAAATTAAAAC
* *
100068196 GAGACAATATTTCGTATTTGAAAGTTTGATAAATCGTGCCAAATCGTGCTGGGTTTCGATTT
1 GAGGCAATATTTCGTATTTGAAAGTTTGATAAATCGTGCCCAATCGTGCTGGGTTTCGATTT
100068258 ACCGTTTGGC
Statistics
Matches: 165, Mismatches: 22, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
125 165 1.00
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.39
Consensus pattern (125 bp):
GAGGCAATATTTCGTATTTGAAAGTTTGATAAATCGTGCCCAATCGTGCTGGGTTTCGATTTTTC
ATTCGACAAAAATACAGAATATCCTTTTGAAATTTCATCCATGTTCTCTTAAATTAAAAC
Found at i:100068282 original size:125 final size:125
Alignment explanation
Indices: 100067955--100068298 Score: 397
Period size: 125 Copynumber: 2.7 Consensus size: 125
100067945 TGAGGAAATC
* * * * * * ** *
100067955 TTTCGTGTTTGGAAGTTTGAGAGATCGTG-CACAATTGTGCTGGGTTTCGATTTTTCATTCGACA
1 TTTCGTATTTGAAAGTTCGATAAATCGTGCCA-AATCGTGCTGGGTTTCGATTTACCATTCGACT
* * *
100068019 AAAATAC-AGAATATCCTTTTGAAATTTCATCTATGTTCTCTTAAATTAAAGCGAGGCAATA
65 AAAATACTA-AATATCCTTTTGAAATTTCATCCATGTTCTCTTAAATTAAAACGAGACAATA
* * **
100068080 TTTCGTATTTGAAAGTTCGATAAATCGTGCCCAATCGTGTTGGGTTTCGATTTTTCATTCGACTA
1 TTTCGTATTTGAAAGTTCGATAAATCGTGCCAAATCGTGCTGGGTTTCGATTTACCATTCGACTA
* * * * *
100068145 AAATACTGAATATTCTTTTGGAATTTCATCCATGTTTTCTTAAATTAAAATGAGACAATA
66 AAATACTAAATATCCTTTTGAAATTTCATCCATGTTCTCTTAAATTAAAACGAGACAATA
* * * * *
100068205 TTTCGTATTTGAAAGTTTGATAAATCGTGCCAAATCGTGCTGGGTTTCGATTTACCGTTTGGC-C
1 TTTCGTATTTGAAAGTTCGATAAATCGTGCCAAATCGTGCTGGGTTTCGATTTACCATTCGACTA
100068269 AAATAGCTAAATATCCTTTTTGAAATTTCA
66 AAATA-CTAAATATCC-TTTTGAAATTTCA
100068299 AATGTATGAG
Statistics
Matches: 186, Mismatches: 29, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
124 5 0.03
125 168 0.90
126 13 0.07
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.39
Consensus pattern (125 bp):
TTTCGTATTTGAAAGTTCGATAAATCGTGCCAAATCGTGCTGGGTTTCGATTTACCATTCGACTA
AAATACTAAATATCCTTTTGAAATTTCATCCATGTTCTCTTAAATTAAAACGAGACAATA
Found at i:100068932 original size:22 final size:21
Alignment explanation
Indices: 100068899--100068939 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
100068889 TTAGCTAATA
*
100068899 AAATATTAAACTTTTTTTCTC
1 AAATATTAAACTTTATTTCTC
*
100068920 AAATTTTATAACTTTATTTC
1 AAATATTA-AACTTTATTTC
100068940 AATTTTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.34, C:0.12, G:0.00, T:0.54
Consensus pattern (21 bp):
AAATATTAAACTTTATTTCTC
Found at i:100070525 original size:19 final size:19
Alignment explanation
Indices: 100070477--100070526 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
100070467 TTTTTATACT
* *
100070477 TTTTAAATT-TATTATTAA
1 TTTTAAATTATTTTATGAA
100070495 TTCTTAAA-TATTTTATGAA
1 TT-TTAAATTATTTTATGAA
100070514 TTTTAAATTATTT
1 TTTTAAATTATTT
100070527 GTTGACGTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 8 0.30
19 19 0.70
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (19 bp):
TTTTAAATTATTTTATGAA
Found at i:100072552 original size:182 final size:184
Alignment explanation
Indices: 100072240--100072598 Score: 607
Period size: 182 Copynumber: 2.0 Consensus size: 184
100072230 TAGGCAAGCC
*
100072240 GTGAAAGTTTGGACGAGTGGTCTAAGGCGCCAGATTTAGGCTCTGGTTCGAAAGGGCGTGGGTCC
1 GTGAAAGTTTGGACGAGTGGTCTAAGGCGCCAGATTTAGGCTCTGGTCCGAAAGGGCGTGGGTCC
*
100072305 AAATCCCACAGCTGTCAGTTTTTAATTATTAATTTTATTGGGCTTAAATCCAACTTATTAACGGG
66 AAATCCCACAGCTGTCAGTTTTTAATTATTAATTTTAGTGGGCTTAAATCCAACTTATTAACGGG
* *
100072370 CTTGAGGCTTTTTGGT-TAATACAGAAGAC-CGGAATTAGAGTCCAACCTTGCT
131 CTTGAGGCTTTTTGGTGTAATACAAAAGACGAGGAATTAGAGTCCAACCTTGCT
* * *
100072422 GTGACAGTTTGGCCGAGTGGTCTAAGGCGCCAGATTTAGGCTCTGGTCCGAAAGGGCGTGGGTTC
1 GTGAAAGTTTGGACGAGTGGTCTAAGGCGCCAGATTTAGGCTCTGGTCCGAAAGGGCGTGGGTCC
*
100072487 AAATCCCACAGCTGTCAG-TTTTAATTATTAATTTTAGTGGGCTTAAAATCCAACTTCTTAACGG
66 AAATCCCACAGCTGTCAGTTTTTAATTATTAATTTTAGTGGGCTT-AAATCCAACTTATTAACGG
*
100072551 GCTTGAGGCTTTTTGGTGTAATGCAAAAGACGAGGAATTAGAGTCCAA
130 GCTTGAGGCTTTTTGGTGTAATACAAAAGACGAGGAATTAGAGTCCAA
100072599 TCTTACTTAT
Statistics
Matches: 165, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
181 25 0.15
182 114 0.69
183 11 0.07
184 15 0.09
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (184 bp):
GTGAAAGTTTGGACGAGTGGTCTAAGGCGCCAGATTTAGGCTCTGGTCCGAAAGGGCGTGGGTCC
AAATCCCACAGCTGTCAGTTTTTAATTATTAATTTTAGTGGGCTTAAATCCAACTTATTAACGGG
CTTGAGGCTTTTTGGTGTAATACAAAAGACGAGGAATTAGAGTCCAACCTTGCT
Found at i:100079240 original size:10 final size:10
Alignment explanation
Indices: 100079225--100079254 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
100079215 TCCATTAAAT
100079225 TAAATTTTAA
1 TAAATTTTAA
100079235 TAAA-TTTAA
1 TAAATTTTAA
100079244 TAAATTTTAA
1 TAAATTTTAA
100079254 T
1 T
100079255 TTAATCCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
TAAATTTTAA
Found at i:100079756 original size:102 final size:102
Alignment explanation
Indices: 100079580--100079784 Score: 383
Period size: 102 Copynumber: 2.0 Consensus size: 102
100079570 CCGTCGTTAC
*
100079580 GAAAATCCCCTTGTCTTCCTTTCCATCCTTCATTATTCTCGCCGCCCCTTACCCAGAAGACCCTC
1 GAAAATCCCCTGGTCTTCCTTTCCATCCTTCATTATTCTCGCCGCCCCTTACCCAGAAGACCCTC
100079645 ACTTTCTCGACTGGGACTAGAGCCGTTTCGGGGTCCG
66 ACTTTCTCGACTGGGACTAGAGCCGTTTCGGGGTCCG
* *
100079682 GAAAATCCCCTGGTCTTCCTTTCCGTCCTTCATTATTCTCGCCGCCCCTTACTCAGAAGACCCTC
1 GAAAATCCCCTGGTCTTCCTTTCCATCCTTCATTATTCTCGCCGCCCCTTACCCAGAAGACCCTC
100079747 ACTTTCTCGACTGGGACTAGAGCCGTTTCGGGGTCCG
66 ACTTTCTCGACTGGGACTAGAGCCGTTTCGGGGTCCG
100079784 G
1 G
100079785 GAAGTTCTGT
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
102 100 1.00
ACGTcount: A:0.16, C:0.36, G:0.19, T:0.29
Consensus pattern (102 bp):
GAAAATCCCCTGGTCTTCCTTTCCATCCTTCATTATTCTCGCCGCCCCTTACCCAGAAGACCCTC
ACTTTCTCGACTGGGACTAGAGCCGTTTCGGGGTCCG
Found at i:100081908 original size:16 final size:16
Alignment explanation
Indices: 100081887--100081918 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
100081877 CTTACTTTAG
100081887 GTAAAATAAAAAACTA
1 GTAAAATAAAAAACTA
100081903 GTAAAATAAAAAACTA
1 GTAAAATAAAAAACTA
100081919 ACATTTTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.19
Consensus pattern (16 bp):
GTAAAATAAAAAACTA
Found at i:100086257 original size:14 final size:13
Alignment explanation
Indices: 100086241--100086265 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
100086231 TGAGAAGTGT
100086241 TTTTAAAAAAATA
1 TTTTAAAAAAATA
100086254 TTTTAAAAAAAT
1 TTTTAAAAAAAT
100086266 GATATCGATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TTTTAAAAAAATA
Found at i:100087467 original size:22 final size:23
Alignment explanation
Indices: 100087425--100087487 Score: 58
Period size: 22 Copynumber: 2.7 Consensus size: 23
100087415 AAAATAGTAC
*
100087425 AATAATTTAAATAAATTTTTTAA
1 AATAATTTAAATAAATATTTTAA
*
100087448 AATAATTT-AAT-AATCATTTTAT
1 AATAATTTAAATAAAT-ATTTTAA
**
100087470 AATTTTTTAAATTAAATA
1 AATAATTTAAA-TAAATA
100087488 ACCTAAACGT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
21 3 0.09
22 14 0.44
23 10 0.31
24 2 0.06
25 3 0.09
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (23 bp):
AATAATTTAAATAAATATTTTAA
Found at i:100112593 original size:19 final size:16
Alignment explanation
Indices: 100112551--100112586 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
100112541 TCAACCGTGC
100112551 TATATTATCATGTGGA
1 TATATTATCATGTGGA
*
100112567 TATATTATCATGTGAA
1 TATATTATCATGTGGA
100112583 TATA
1 TATA
100112587 ATATTATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.36, C:0.06, G:0.14, T:0.44
Consensus pattern (16 bp):
TATATTATCATGTGGA
Found at i:100115662 original size:27 final size:25
Alignment explanation
Indices: 100115599--100115673 Score: 87
Period size: 25 Copynumber: 2.9 Consensus size: 25
100115589 ATACCACTAT
* *
100115599 GTTTTAACTTTATCTTGAATTTTGTA
1 GTTTTAA-TTTTTATTGAATTTTGTA
* *
100115625 GTTTTAATTTTTATTGATTTTTGTC
1 GTTTTAATTTTTATTGAATTTTGTA
100115650 GTTTTAATTTTTTTATTGAATTTT
1 GTTTTAA--TTTTTATTGAATTTT
100115674 ATCACTAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
25 21 0.50
26 7 0.17
27 14 0.33
ACGTcount: A:0.20, C:0.04, G:0.11, T:0.65
Consensus pattern (25 bp):
GTTTTAATTTTTATTGAATTTTGTA
Found at i:100116382 original size:16 final size:16
Alignment explanation
Indices: 100116361--100116394 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
100116351 TAATTACATC
100116361 TTTTAAACAATAGATA
1 TTTTAAACAATAGATA
100116377 TTTTAAACAATAGATA
1 TTTTAAACAATAGATA
100116393 TT
1 TT
100116395 AGATCCCTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (16 bp):
TTTTAAACAATAGATA
Found at i:100116474 original size:20 final size:20
Alignment explanation
Indices: 100116445--100116483 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
100116435 AGTTTATGGG
*
100116445 ATAAATTAATTAATTTAATA
1 ATAAAATAATTAATTTAATA
100116465 ATAAAATAATTAATTTAAT
1 ATAAAATAATTAATTTAAT
100116484 TCGATCTCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
ATAAAATAATTAATTTAATA
Found at i:100120438 original size:16 final size:17
Alignment explanation
Indices: 100120401--100120438 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
100120391 TATTATTTAA
100120401 AAAATTATAAAATTTTT
1 AAAATTATAAAATTTTT
* *
100120418 GAAATTAT-AATTTTTT
1 AAAATTATAAAATTTTT
100120434 AAAAT
1 AAAAT
100120439 AATTAGAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
AAAATTATAAAATTTTT
Found at i:100125566 original size:3 final size:3
Alignment explanation
Indices: 100125558--100125584 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
100125548 TAAGGTGGAG
100125558 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
100125585 CCGCACAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:100126735 original size:3 final size:3
Alignment explanation
Indices: 100126727--100126751 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
100126717 CATGAGTACT
100126727 TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA T
100126752 AATAATAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (3 bp):
TCA
Found at i:100137092 original size:14 final size:14
Alignment explanation
Indices: 100137057--100137104 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
100137047 CAATTTCTCA
*
100137057 TTAAAAAAATGTTT
1 TTAAAAAAGTGTTT
100137071 TTAAAAAAGTGTTT
1 TTAAAAAAGTGTTT
**
100137085 TTGGAAAAGTAG-TT
1 TTAAAAAAGT-GTTT
100137099 TTAAAA
1 TTAAAA
100137105 TGTTTATTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
14 27 0.96
15 1 0.04
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.40
Consensus pattern (14 bp):
TTAAAAAAGTGTTT
Found at i:100144515 original size:32 final size:31
Alignment explanation
Indices: 100144462--100144531 Score: 79
Period size: 32 Copynumber: 2.3 Consensus size: 31
100144452 CGCTAATCGG
*
100144462 ACTGATAA-AAAAAATTTTAATAACTCAATT
1 ACTGAAAATAAAAAATTTTAATAACTCAATT
* * **
100144492 ACTTAAAATAAAAATTTTCTAATAGTTCAATT
1 ACTGAAAATAAAAAATTT-TAATAACTCAATT
100144524 ACTGAAAA
1 ACTGAAAA
100144532 CTTTTAAACA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
30 6 0.19
31 8 0.25
32 18 0.56
ACGTcount: A:0.51, C:0.10, G:0.04, T:0.34
Consensus pattern (31 bp):
ACTGAAAATAAAAAATTTTAATAACTCAATT
Found at i:100148244 original size:20 final size:21
Alignment explanation
Indices: 100148208--100148249 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
100148198 AAAAAATATT
* *
100148208 TTTTATAATATTTTATTTTAA
1 TTTTATAATAATTTATTCTAA
100148229 TTTTATAA-AATTTATTCTAA
1 TTTTATAATAATTTATTCTAA
100148249 T
1 T
100148250 ATCAAATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTTATAATAATTTATTCTAA
Found at i:100149354 original size:14 final size:14
Alignment explanation
Indices: 100149337--100149371 Score: 61
Period size: 14 Copynumber: 2.4 Consensus size: 14
100149327 CTCACATTTC
100149337 TTTTCTTTTCTCCA
1 TTTTCTTTTCTCCA
100149351 TTTTCTTTTCTCCA
1 TTTTCTTTTCTCCA
100149365 TATTTCT
1 T-TTTCT
100149372 ACTTCTTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.09, C:0.26, G:0.00, T:0.66
Consensus pattern (14 bp):
TTTTCTTTTCTCCA
Found at i:100149355 original size:19 final size:18
Alignment explanation
Indices: 100149317--100149361 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
100149307 TACGGTACGC
100149317 TTCTTTTC-TTCTCACAT
1 TTCTTTTCTTTCTCACAT
100149334 TTCTTTTCTTTTCTC-CATT
1 TTCTTTTC-TTTCTCACA-T
100149353 TTCTTTTCT
1 TTCTTTTCT
100149362 CCATATTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 8 0.32
18 3 0.12
19 14 0.56
ACGTcount: A:0.07, C:0.27, G:0.00, T:0.67
Consensus pattern (18 bp):
TTCTTTTCTTTCTCACAT
Found at i:100150043 original size:41 final size:41
Alignment explanation
Indices: 100149998--100150090 Score: 177
Period size: 41 Copynumber: 2.2 Consensus size: 41
100149988 TACATTGTGA
100149998 ATTTGTGTAGTTGAAATGCTAAGTTGTAGGAGGTGTTGAGT
1 ATTTGTGTAGTTGAAATGCTAAGTTGTAGGAGGTGTTGAGT
100150039 ATTTGTGTAGTTGAAATGCTAAGTTGTAGGAGGTGTTGAGT
1 ATTTGTGTAGTTGAAATGCTAAGTTGTAGGAGGTGTTGAGT
100150080 ATTTGTAGTAG
1 ATTTGT-GTAG
100150091 GTCGAAGTTG
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
41 47 0.92
42 4 0.08
ACGTcount: A:0.25, C:0.02, G:0.33, T:0.40
Consensus pattern (41 bp):
ATTTGTGTAGTTGAAATGCTAAGTTGTAGGAGGTGTTGAGT
Found at i:100150108 original size:20 final size:19
Alignment explanation
Indices: 100150085--100150144 Score: 68
Period size: 19 Copynumber: 3.1 Consensus size: 19
100150075 TGAGTATTTG
100150085 TAGTAGGTCGA-AGTTGTAAT
1 TAGTAGGT-GACA-TTGTAAT
*
100150105 TAGTAGGTTACATTGTAAT
1 TAGTAGGTGACATTGTAAT
*
100150124 TAGTAGGTTACATTGTGAAT
1 TAGTAGGTGACATTGT-AAT
100150144 T
1 T
100150145 TGTGTAGTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
19 24 0.65
20 13 0.35
ACGTcount: A:0.30, C:0.05, G:0.25, T:0.40
Consensus pattern (19 bp):
TAGTAGGTGACATTGTAAT
Found at i:100150122 original size:19 final size:19
Alignment explanation
Indices: 100150098--100150144 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 19
100150088 TAGGTCGAAG
100150098 TTGTAATTAGTAGGTTACA
1 TTGTAATTAGTAGGTTACA
100150117 TTGTAATTAGTAGGTTACA
1 TTGTAATTAGTAGGTTACA
100150136 TTGTGAATT
1 TTGT-AATT
100150145 TGTGTAGTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 23 0.85
20 4 0.15
ACGTcount: A:0.30, C:0.04, G:0.21, T:0.45
Consensus pattern (19 bp):
TTGTAATTAGTAGGTTACA
Found at i:100151934 original size:16 final size:17
Alignment explanation
Indices: 100151915--100151946 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
100151905 TTATTAAATC
100151915 ATATATTTAA-ATTAAA
1 ATATATTTAATATTAAA
100151931 ATATATTTAATATTAA
1 ATATATTTAATATTAA
100151947 TTATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATATTTAATATTAAA
Found at i:100152010 original size:66 final size:63
Alignment explanation
Indices: 100151939--100152151 Score: 194
Period size: 61 Copynumber: 3.4 Consensus size: 63
100151929 AAATATATTT
100151939 AATATTAATTATTTAA-AATTTTATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATA
1 AATATTAATTA-TTAAGAATTTTA--TTA-AGTATCATATATTATGATTTGAGTAAATTCATATA
100152003 AG
62 AG
* * * * * * *
100152005 AATATTAATTATTAAGAATTTTATTAA--ATTATATATTTTAATTAT-ATTATATTTA-ATAAT
1 AATATTAATTATTAAGAATTTTATTAAGTATCATATATTATGATT-TGAGTAAATTCATATAAG
* * * *
100152065 AATTATGTTATT-TT-A-TATTTTA--CAGTATCATATATTATGGTTTGAGTAAATTCATATAAG
1 AA-TAT-TAATTATTAAGAATTTTATTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
100152125 AATATTAATTATTAAGAATTTTATTAA
1 AATATTAATTATTAAGAATTTTATTAA
100152152 ATTATATATT
Statistics
Matches: 113, Mismatches: 21, Indels: 29
0.69 0.13 0.18
Matches are distributed among these distances:
57 1 0.01
58 5 0.04
59 30 0.27
60 14 0.12
61 31 0.27
62 5 0.04
63 2 0.02
64 3 0.03
65 4 0.04
66 18 0.16
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (63 bp):
AATATTAATTATTAAGAATTTTATTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:100152025 original size:120 final size:120
Alignment explanation
Indices: 100151901--100152193 Score: 482
Period size: 120 Copynumber: 2.4 Consensus size: 120
100151891 AATTATTTTA
* * *
100151901 AATTTTATTAAATCATATATTTAAATTAAAATATATTTAATATTAATTAT-TTAAAATTT-TATT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT--AATTTATATT
*
100151964 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
64 TTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* * *
100152021 AATTTTATTAAATTATATATTTTAATTATATTATATTTAATAATAATTATGTTATTTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
*
100152086 ACAGTATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
100152141 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
100152194 TAAATATGAT
Statistics
Matches: 161, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
119 4 0.02
120 155 0.96
121 2 0.01
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:100152053 original size:18 final size:17
Alignment explanation
Indices: 100152022--100152056 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
100152012 ATTATTAAGA
100152022 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
100152039 ATTTTAATTATATTATAT
1 ATTTT-ATTAAATTATAT
100152057 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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:100152170 original size:18 final size:17
Alignment explanation
Indices: 100152142--100152176 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
100152132 ATTATTAAGA
*
100152142 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
100152159 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
100152177 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:100152290 original size:147 final size:149
Alignment explanation
Indices: 100152130--100152404 Score: 509
Period size: 147 Copynumber: 1.9 Consensus size: 149
100152120 ATAAGAATAT
*
100152130 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
100152195 AAATATGATTAAATTATTTATTATTGAT-ATTAATAATCTTATTAAAATTTAAATAA-AATAATT
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
100152258 TACCAAAACAAATTTCTGC
131 TACCAAAACAAATTTCTGC
100152277 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
100152342 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
100152405 CAATAATCAT
Statistics
Matches: 123, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
147 91 0.74
148 27 0.22
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (149 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
TACCAAAACAAATTTCTGC
Found at i:100152317 original size:18 final size:17
Alignment explanation
Indices: 100152289--100152323 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
100152279 ATTATTAAGA
*
100152289 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
100152306 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
100152324 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:100152534 original size:44 final size:45
Alignment explanation
Indices: 100152485--100152579 Score: 129
Period size: 45 Copynumber: 2.1 Consensus size: 45
100152475 TTACACCTCT
* *
100152485 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
* ** *
100152529 ATTACATTCAACCAGACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
100152574 ATTACA
1 ATTACA
100152580 CCTCTAATCC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 17 0.39
45 27 0.61
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:100152579 original size:16 final size:16
Alignment explanation
Indices: 100152558--100152595 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
100152548 TTGATTTGCT
*
100152558 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
100152574 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
100152590 AATACA
1 ATTACA
100152596 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:100154857 original size:20 final size:20
Alignment explanation
Indices: 100154821--100154871 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
100154811 AAACGTCAAG
*
100154821 ATTCAAGGTTTGAGTTTAGA
1 ATTCAAGGTTTAAGTTTAGA
*
100154841 ATTCAAGG-TTAATGTTTAGG
1 ATTCAAGGTTTAA-GTTTAGA
*
100154861 ATTCAATGTTT
1 ATTCAAGGTTT
100154872 TGGATTCTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 3 0.12
20 21 0.81
21 2 0.08
ACGTcount: A:0.29, C:0.06, G:0.22, T:0.43
Consensus pattern (20 bp):
ATTCAAGGTTTAAGTTTAGA
Found at i:100167913 original size:32 final size:32
Alignment explanation
Indices: 100167870--100167934 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
100167860 TGGTGTTGAG
100167870 AATGTAAATATAAATGTATAGCTATATATACT
1 AATGTAAATATAAATGTATAGCTATATATACT
*
100167902 AATGTATATATAAATGTATAGCTATATATACT
1 AATGTAAATATAAATGTATAGCTATATATACT
100167934 A
1 A
100167935 TATTGTTGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.46, C:0.06, G:0.09, T:0.38
Consensus pattern (32 bp):
AATGTAAATATAAATGTATAGCTATATATACT
Found at i:100174047 original size:199 final size:199
Alignment explanation
Indices: 100173707--100174104 Score: 796
Period size: 199 Copynumber: 2.0 Consensus size: 199
100173697 AAGTTTCACT
100173707 CGAGTAGAGAGGAATCAATGTGCGGATAAGTTGGCTCGATTAGGGAGCGGCTTTCGATAGGATTA
1 CGAGTAGAGAGGAATCAATGTGCGGATAAGTTGGCTCGATTAGGGAGCGGCTTTCGATAGGATTA
100173772 TTCAAACACCTTTTGTGTATTTGTAGGGTTTCCCTTATTTGTATTAAGGCATTATTGAAATTTGA
66 TTCAAACACCTTTTGTGTATTTGTAGGGTTTCCCTTATTTGTATTAAGGCATTATTGAAATTTGA
100173837 TGCCTATTGTTGTTCTTTGTATCGATCCTTATTTTGATTTTTAATATATGCTCTATTTTATTTTA
131 TGCCTATTGTTGTTCTTTGTATCGATCCTTATTTTGATTTTTAATATATGCTCTATTTTATTTTA
100173902 AAAA
196 AAAA
100173906 CGAGTAGAGAGGAATCAATGTGCGGATAAGTTGGCTCGATTAGGGAGCGGCTTTCGATAGGATTA
1 CGAGTAGAGAGGAATCAATGTGCGGATAAGTTGGCTCGATTAGGGAGCGGCTTTCGATAGGATTA
100173971 TTCAAACACCTTTTGTGTATTTGTAGGGTTTCCCTTATTTGTATTAAGGCATTATTGAAATTTGA
66 TTCAAACACCTTTTGTGTATTTGTAGGGTTTCCCTTATTTGTATTAAGGCATTATTGAAATTTGA
100174036 TGCCTATTGTTGTTCTTTGTATCGATCCTTATTTTGATTTTTAATATATGCTCTATTTTATTTTA
131 TGCCTATTGTTGTTCTTTGTATCGATCCTTATTTTGATTTTTAATATATGCTCTATTTTATTTTA
100174101 AAAA
196 AAAA
100174105 AAGTGTCTGA
Statistics
Matches: 199, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
199 199 1.00
ACGTcount: A:0.25, C:0.12, G:0.21, T:0.42
Consensus pattern (199 bp):
CGAGTAGAGAGGAATCAATGTGCGGATAAGTTGGCTCGATTAGGGAGCGGCTTTCGATAGGATTA
TTCAAACACCTTTTGTGTATTTGTAGGGTTTCCCTTATTTGTATTAAGGCATTATTGAAATTTGA
TGCCTATTGTTGTTCTTTGTATCGATCCTTATTTTGATTTTTAATATATGCTCTATTTTATTTTA
AAAA
Found at i:100175489 original size:35 final size:35
Alignment explanation
Indices: 100175443--100175512 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
100175433 TAAAACCTTT
100175443 TATTTTTGACTGCACAAAAGTGAAATGTCAACCAA
1 TATTTTTGACTGCACAAAAGTGAAATGTCAACCAA
100175478 TATTTTTGACTGCACAAAAGTGAAATGTCAACCAA
1 TATTTTTGACTGCACAAAAGTGAAATGTCAACCAA
100175513 AGATATATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (35 bp):
TATTTTTGACTGCACAAAAGTGAAATGTCAACCAA
Found at i:100182322 original size:30 final size:30
Alignment explanation
Indices: 100182286--100182348 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
100182276 GCACGATAAA
* *
100182286 CAACATTAGACAAATATCATAAGACCATTT
1 CAACATTAGACAAATATCATAAAACCAGTT
100182316 CAACATTAGACAAATATCATAAAACCAGTT
1 CAACATTAGACAAATATCATAAAACCAGTT
100182346 CAA
1 CAA
100182349 ACTTAATATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.49, C:0.21, G:0.06, T:0.24
Consensus pattern (30 bp):
CAACATTAGACAAATATCATAAAACCAGTT
Found at i:100201940 original size:22 final size:21
Alignment explanation
Indices: 100201890--100201942 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
100201880 AAACGTTAAA
100201890 TATATTAATATATACAATATTT
1 TATATTAATATATACAATA-TT
* *
100201912 TAAATTAATATAATAGAGATA-T
1 TATATTAATAT-ATACA-ATATT
100201934 TATATTAAT
1 TATATTAAT
100201943 TAAAAAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 19 0.73
23 4 0.15
24 3 0.12
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (21 bp):
TATATTAATATATACAATATT
Found at i:100202026 original size:18 final size:19
Alignment explanation
Indices: 100201992--100202042 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
100201982 AAATTTAACG
100201992 ATTAAATTAT-T--AAAAT
1 ATTAAATTATATAAAAAAT
100202008 ATT-AATTATATAAAAAAT
1 ATTAAATTATATAAAAAAT
100202026 ATTAAAATTATATAAAA
1 ATT-AAATTATATAAAA
100202043 CAACTTAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 6 0.20
16 4 0.13
18 8 0.27
20 12 0.40
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
ATTAAATTATATAAAAAAT
Found at i:100202051 original size:20 final size:20
Alignment explanation
Indices: 100202003--100202042 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
100201993 TTAAATTATT
100202003 AAAATATT--AATTATATAA
1 AAAATATTAAAATTATATAA
100202021 AAAATATTAAAATTATATAA
1 AAAATATTAAAATTATATAA
100202041 AA
1 AA
100202043 CAACTTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 8 0.40
20 12 0.60
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAATATTAAAATTATATAA
Found at i:100202933 original size:31 final size:31
Alignment explanation
Indices: 100202880--100202939 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 31
100202870 AGCTAAAAAA
*
100202880 AAGTTCAAGCCCTAATATGAGAACAATTATC
1 AAGTTCAAGCCCTAATATGAGAAAAATTATC
100202911 AAGTTCAAGTCCC-AATGA-GAGAAAAATTA
1 AAGTTCAAG-CCCTAAT-ATGAGAAAAATTA
100202940 CCAAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
31 22 0.85
32 4 0.15
ACGTcount: A:0.45, C:0.17, G:0.15, T:0.23
Consensus pattern (31 bp):
AAGTTCAAGCCCTAATATGAGAAAAATTATC
Found at i:100205914 original size:38 final size:39
Alignment explanation
Indices: 100205861--100205970 Score: 159
Period size: 39 Copynumber: 2.8 Consensus size: 39
100205851 TGATTCCAAC
* *
100205861 CCCCATGCTACTTTGTTTTATTATTAATCAAAAGCA-TT
1 CCCCATGCTATTTTGTTTTATTATTAATTAAAAGCATTT
* **
100205899 CCCCATGCTATTTTGTTTTATTGTTAATTAAAATTATTT
1 CCCCATGCTATTTTGTTTTATTATTAATTAAAAGCATTT
*
100205938 CCCCATACTATTTTGTTTTATTATTAATTAAAA
1 CCCCATGCTATTTTGTTTTATTATTAATTAAAA
100205971 CCATACTTTA
Statistics
Matches: 64, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
38 31 0.48
39 33 0.52
ACGTcount: A:0.29, C:0.16, G:0.06, T:0.48
Consensus pattern (39 bp):
CCCCATGCTATTTTGTTTTATTATTAATTAAAAGCATTT
Found at i:100214466 original size:21 final size:21
Alignment explanation
Indices: 100214440--100214481 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
100214430 TAACAAAAAG
100214440 TTGATAAAGTGATATAATTTT
1 TTGATAAAGTGATATAATTTT
100214461 TTGATAAAGTGATATAATTTT
1 TTGATAAAGTGATATAATTTT
100214482 AGAGTGTCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (21 bp):
TTGATAAAGTGATATAATTTT
Found at i:100215239 original size:17 final size:17
Alignment explanation
Indices: 100215213--100215246 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
100215203 TTAGGGAATT
100215213 TACAAGTATAAATATAA
1 TACAAGTATAAATATAA
*
100215230 TACAATTATAAATATAA
1 TACAAGTATAAATATAA
100215247 ATATAAATAT
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:0.59, C:0.06, G:0.03, T:0.32
Consensus pattern (17 bp):
TACAAGTATAAATATAA
Found at i:100215245 original size:6 final size:6
Alignment explanation
Indices: 100215219--100215257 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
100215209 AATTTACAAG
* *
100215219 TATAAA TAT-AA TACAAT TATAAA TATAAA TATAAA TATA
1 TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA TATA
100215258 TGTATGAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
5 4 0.14
6 24 0.86
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (6 bp):
TATAAA
Found at i:100229475 original size:46 final size:46
Alignment explanation
Indices: 100229401--100229492 Score: 130
Period size: 46 Copynumber: 2.0 Consensus size: 46
100229391 CACTATTCAC
* * *
100229401 TGATTAGGTAGCCGGAGCTACCATTTTTCACTAATCAAGTAGCCGA
1 TGATCAGGTAGCCGAAGCTACCACTTTTCACTAATCAAGTAGCCGA
* * *
100229447 TGATCAGGTAGCCGAAGCTACCACTTTTCATTGATCAGGTAGCCGA
1 TGATCAGGTAGCCGAAGCTACCACTTTTCACTAATCAAGTAGCCGA
100229493 AGTTACCACT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (46 bp):
TGATCAGGTAGCCGAAGCTACCACTTTTCACTAATCAAGTAGCCGA
Found at i:100229485 original size:31 final size:31
Alignment explanation
Indices: 100229447--100229505 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
100229437 AAGTAGCCGA
100229447 TGATCAGGTAGCCGAAGCTACCACTTTTCAT
1 TGATCAGGTAGCCGAAGCTACCACTTTTCAT
*
100229478 TGATCAGGTAGCCGAAGTTACCACTTTT
1 TGATCAGGTAGCCGAAGCTACCACTTTT
100229506 TACTTGCCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (31 bp):
TGATCAGGTAGCCGAAGCTACCACTTTTCAT
Found at i:100229572 original size:50 final size:50
Alignment explanation
Indices: 100229485--100229761 Score: 410
Period size: 50 Copynumber: 5.5 Consensus size: 50
100229475 CATTGATCAG
* * * * *
100229485 GTAGCCGAAGTTACCACTTTTTACTTGCCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
* *
100229536 GTAGCTGAAGCTATCACTTATCAGTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* * * *
100229586 GTAGCCAAAGCTATCACTTATCACTTTCACTTATCCTTGATCAAATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* *
100229636 ATAGCCGAAACTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* *
100229686 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
100229736 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
100229762 GTTGCCATGG
Statistics
Matches: 203, Mismatches: 23, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
50 183 0.90
51 20 0.10
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:100233454 original size:16 final size:17
Alignment explanation
Indices: 100233423--100233457 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
100233413 TTTGACATAT
100233423 AAATATTATATATAAAG
1 AAATATTATATATAAAG
*
100233440 AAATA-TATATCTAAAG
1 AAATATTATATATAAAG
100233456 AA
1 AA
100233458 TTGGTTAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (17 bp):
AAATATTATATATAAAG
Found at i:100235355 original size:26 final size:27
Alignment explanation
Indices: 100235306--100235359 Score: 92
Period size: 26 Copynumber: 2.0 Consensus size: 27
100235296 ATTGAGGTGG
*
100235306 ACTGGCTCTTTTTAAGAGAAGTTTTCA
1 ACTGGCTCTTTTCAAGAGAAGTTTTCA
100235333 ACTGGCTC-TTTCAAGAGAAGTTTTCA
1 ACTGGCTCTTTTCAAGAGAAGTTTTCA
100235359 A
1 A
100235360 ACAACTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 18 0.69
27 8 0.31
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.37
Consensus pattern (27 bp):
ACTGGCTCTTTTCAAGAGAAGTTTTCA
Found at i:100235377 original size:31 final size:31
Alignment explanation
Indices: 100235342--100235406 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
100235332 AACTGGCTCT
*
100235342 TTCAAGAGAAGTTTTCAAACAACTAAATGTA
1 TTCAAGAGAAGTTTTCAAACAACCAAATGTA
100235373 TTCAAGAGAAGTTTTCAAACAACCAAATGTA
1 TTCAAGAGAAGTTTTCAAACAACCAAATGTA
100235404 TTC
1 TTC
100235407 CGTGTTGAGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.43, C:0.15, G:0.12, T:0.29
Consensus pattern (31 bp):
TTCAAGAGAAGTTTTCAAACAACCAAATGTA
Found at i:100246475 original size:20 final size:21
Alignment explanation
Indices: 100246452--100246517 Score: 64
Period size: 20 Copynumber: 3.2 Consensus size: 21
100246442 TAAATTTAAG
100246452 GTTTAAGGTTTGA-GTTTAGA
1 GTTTAAGGTTTGAGGTTTAGA
* * * *
100246472 GTTTCATGTTT-AGGTTCAAA
1 GTTTAAGGTTTGAGGTTTAGA
*
100246492 GTTTAATGGTTTGAGGTTTAGT
1 GTTTAA-GGTTTGAGGTTTAGA
100246514 GTTT
1 GTTT
100246518 GGGTTTAAGG
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
19 1 0.03
20 19 0.56
21 4 0.12
22 10 0.29
ACGTcount: A:0.21, C:0.03, G:0.27, T:0.48
Consensus pattern (21 bp):
GTTTAAGGTTTGAGGTTTAGA
Found at i:100247172 original size:20 final size:18
Alignment explanation
Indices: 100247139--100247178 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
100247129 ACTCCGTTCT
*
100247139 ATTTTTTATAATTTTTTG
1 ATTTTTTATAATTTATTG
100247157 ATTTTTTATATTATTTATTG
1 ATTTTTTATA--ATTTATTG
100247177 AT
1 AT
100247179 GTGACATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 10 0.53
20 9 0.47
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (18 bp):
ATTTTTTATAATTTATTG
Found at i:100249755 original size:34 final size:34
Alignment explanation
Indices: 100249712--100249781 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
100249702 ATCCATTTTG
100249712 GAGTTGTTGGTGCTTATATAGATAGATTATAGAA
1 GAGTTGTTGGTGCTTATATAGATAGATTATAGAA
100249746 GAGTTGTTGGTGCTTATATAGATAGATTATAGAA
1 GAGTTGTTGGTGCTTATATAGATAGATTATAGAA
100249780 GA
1 GA
100249782 AAAATTCGGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.33, C:0.03, G:0.27, T:0.37
Consensus pattern (34 bp):
GAGTTGTTGGTGCTTATATAGATAGATTATAGAA
Found at i:100251962 original size:18 final size:17
Alignment explanation
Indices: 100251931--100251964 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
100251921 TTAATTATTA
100251931 ATATTTATTATAAATAT
1 ATATTTATTATAAATAT
*
100251948 ATATATTATTTTAAATA
1 ATAT-TTATTATAAATA
100251965 GTTATGAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATATTTATTATAAATAT
Found at i:100252357 original size:31 final size:32
Alignment explanation
Indices: 100252319--100252382 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
100252309 AGGTATAGAT
* *
100252319 TTGAATATTGAAATC-AAATTCAAGTACTAAA
1 TTGAATATTGAAACCGAAACTCAAGTACTAAA
*
100252350 TTGAATATTGAAGCCGAAACTCAAGTACTAAA
1 TTGAATATTGAAACCGAAACTCAAGTACTAAA
100252382 T
1 T
100252383 AAAAATATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 13 0.45
32 16 0.55
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.30
Consensus pattern (32 bp):
TTGAATATTGAAACCGAAACTCAAGTACTAAA
Found at i:100258928 original size:7 final size:6
Alignment explanation
Indices: 100258887--100258927 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
100258877 ATAATTTAAT
*
100258887 AAATAA AAATAA AAATCTAA AACTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA
100258928 ACATATAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 26 0.84
8 5 0.16
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:100258928 original size:20 final size:20
Alignment explanation
Indices: 100258890--100258929 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
100258880 ATTTAATAAA
**
100258890 TAAAAATAAAAATCTAAAAC
1 TAAAAATAAAAATAAAAAAC
100258910 TAAAAATAAAAATAAAAAAC
1 TAAAAATAAAAATAAAAAAC
100258930 ATATAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.17
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Found at i:100258997 original size:9 final size:9
Alignment explanation
Indices: 100258947--100258996 Score: 64
Period size: 9 Copynumber: 5.6 Consensus size: 9
100258937 TTTATACAGA
*
100258947 TAATTCTGT
1 TAATTCGGT
100258956 TAATTCGGT
1 TAATTCGGT
*
100258965 TAATTCAGT
1 TAATTCGGT
*
100258974 TAATTCGAT
1 TAATTCGGT
*
100258983 TAATTTGGT
1 TAATTCGGT
100258992 TAATT
1 TAATT
100258997 TTATATTTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.28, C:0.08, G:0.14, T:0.50
Consensus pattern (9 bp):
TAATTCGGT
Found at i:100262898 original size:117 final size:117
Alignment explanation
Indices: 100262362--100263068 Score: 979
Period size: 117 Copynumber: 5.9 Consensus size: 117
100262352 AAACAACAAC
* * * *
100262362 AAGAAGAAGAAAACTACTGGTGGCGAACAGATTATTGAAGGGTTAAGTGATAACAAGGTTGAAAT
1 AAGAAGAAGAAAACTATTGGTGGTGAACAGAGTATTGAAGGGTTAAGTGATAGCAAGGTTGAAAT
* *
100262427 GGAAGATCCCTTTAAGCCTAAACGTGGTCGGCCAAAGGGTGCAATGAACAAGAAG
66 GGAAGATCCCCTTAAGCCTAAACGTGGTCGGCCAAAGGGTTCAA--AA-AAGAAG
* * * *
100262482 AAGAAGAAGAAAACTATTGATGGTGAACAGAGCATTGAAGTGTTAAGTGATAGCAGGGTTGAAAT
1 AAGAAGAAGAAAACTATTGGTGGTGAACAGAGTATTGAAGGGTTAAGTGATAGCAAGGTTGAAAT
*
100262547 GGAAGATCCCCTTAAGCCTAAACGTGGTCGGCCAAAGGGTTC---AACGAAG
66 GGAAGATCCCCTTAAGCCTAAACGTGGTCGGCCAAAGGGTTCAAAAAAGAAG
* *
100262596 AAGAAGAAGAAAACTATTGGTGATGAACAGAGTATTGAAGGGTTAAGTGGTAGCAAGGTTGAAAT
1 AAGAAGAAGAAAACTATTGGTGGTGAACAGAGTATTGAAGGGTTAAGTGATAGCAAGGTTGAAAT
* *
100262661 GGAAGATCCCCTTAAGCGTAAACGTGGTCGGCCAAAGGGTACAATGAAGAAGAAGAAG
66 GGAAGATCCCCTTAAGCCTAAACGTGGTCGGCCAAAGGGT----TCAA-AA-AAGAAG
** * *
100262719 AAGAAGAAGAAAACTATTGGTGGTGAACATTGTATTGTAGGGTTAAGTGATAGCAGGGTTGAAAT
1 AAGAAGAAGAAAACTATTGGTGGTGAACAGAGTATTGAAGGGTTAAGTGATAGCAAGGTTGAAAT
* *
100262784 GGAAAATCCCCTTAAGCCTAAACGTGGTCGGCCAAAGGGTTCAACAAAGAAG
66 GGAAGATCCCCTTAAGCCTAAACGTGGTCGGCCAAAGGGTTCAAAAAAGAAG
* *
100262836 AAGAAGAAGAAAACTATTGGTGGTGAACAAAGTATTGACGGGTTAAGTGATAGCAAGGTTGAAAT
1 AAGAAGAAGAAAACTATTGGTGGTGAACAGAGTATTGAAGGGTTAAGTGATAGCAAGGTTGAAAT
* ** *
100262901 GGAAGATCCCCTTAAGCCTAAACGTGGTCGGCCAAAGGGTACAATGAACAAG
66 GGAAGATCCCCTTAAGCCTAAACGTGGTCGGCCAAAGGGTTCAAAAAAGAAG
* * * *
100262953 AAGAAGAAGAAAACTATTGGTGCTGAGCAGAGTATTGAAGGGTTTAGTAATAGCAAGGTTGAAAT
1 AAGAAGAAGAAAACTATTGGTGGTGAACAGAGTATTGAAGGGTTAAGTGATAGCAAGGTTGAAAT
100263018 GGAAGATCCCCTTAAAGCCAAGCCTAAACGTGGTCGGCCAAAGGGTTCAAA
66 GGAAGATCCCCTT------AAGCCTAAACGTGGTCGGCCAAAGGGTTCAAA
100263069 GAATAAACAG
Statistics
Matches: 524, Mismatches: 48, Indels: 27
0.87 0.08 0.05
Matches are distributed among these distances:
114 103 0.20
115 1 0.00
117 185 0.35
118 2 0.00
119 3 0.01
120 97 0.19
122 1 0.00
123 132 0.25
ACGTcount: A:0.38, C:0.13, G:0.29, T:0.20
Consensus pattern (117 bp):
AAGAAGAAGAAAACTATTGGTGGTGAACAGAGTATTGAAGGGTTAAGTGATAGCAAGGTTGAAAT
GGAAGATCCCCTTAAGCCTAAACGTGGTCGGCCAAAGGGTTCAAAAAAGAAG
Found at i:100262988 original size:357 final size:356
Alignment explanation
Indices: 100262316--100263077 Score: 1082
Period size: 357 Copynumber: 2.1 Consensus size: 356
100262306 GCAAGCAGGC
* * * *
100262316 TAAGGGTAAGCGTGGTAGGCCAAAGGGTTCGAAGAAAAACAACAACAAGAAGAAGAAAACTACTG
1 TAAGCGTAAACGTGGTCGGCCAAAGGGTACGAAGAAAAACAACAACAAGAAGAAGAAAACTACTG
* *
100262381 GTGGCGAACAGATTATTGAAGGGTTAAGTGATAACAAGGTTGAAATGGAAGATCCCTTTAAGCCT
66 GTGGCGAACAGATTATTGAAGGGTTAAGTGATAACAAGGTTGAAATGGAAAATCCCCTTAAGCCT
100262446 AAACGTGGTCGGCCAAAGGGTGCAATGAACAAGAAGAAGAAGAAGAAAACTATTGATGGTGAACA
131 AAACGTGGTCGGCCAAAGGGTGCAA-GAACAAGAAGAAGAAGAAGAAAACTATTGATGGTGAACA
* * *
100262511 GAGCATTGAAGTGTTAAGTGATAGCAGGGTTGAAATGGAAGATCCCCTTAAGCCTAAACGTGGTC
195 AAGCATTGAAGGGTTAAGTGATAGCAAGGTTGAAATGGAAGATCCCCTTAAGCCTAAACGTGGTC
*
100262576 GGCCAAAGGGTTCAACGAAGAAGAAGAAGAAAACTATTGGTGATGAACAGAGTATTGAAGGGTTA
260 GGCCAAAGGGTACAACGAAGAAGAAGAAGAAAACTATTGGTGATGAACAGAGTATTGAAGGGTTA
**
100262641 AGTGGTAGCAAGGTTGAAATGGAAGATCCCCT
325 AGTAATAGCAAGGTTGAAATGGAAGATCCCCT
* * * * *
100262673 TAAGCGTAAACGTGGTCGGCCAAAGGGTAC-AATGAAGAAGAAGAAGAAGAAGAAGAAAACTATT
1 TAAGCGTAAACGTGGTCGGCCAAAGGGTACGAA-GAAAAACAACAACAAGAAGAAGAAAACTACT
* * * * *
100262737 GGTGGTGAACA-TTGTATTGTAGGGTTAAGTGATAGCAGGGTTGAAATGGAAAATCCCCTTAAGC
65 GGTGGCGAACAGAT-TATTGAAGGGTTAAGTGATAACAAGGTTGAAATGGAAAATCCCCTTAAGC
* * *
100262801 CTAAACGTGGTCGGCCAAAGGGTTCAA-CA-AAGAAGAAGAAGAAGAAAACTATTGGTGGTGAAC
129 CTAAACGTGGTCGGCCAAAGGGTGCAAGAACAAGAAGAAGAAGAAGAAAACTATTGATGGTGAAC
* *
100262864 AAAGTATTGACGGGTTAAGTGATAGCAAGGTTGAAATGGAAGATCCCCTTAAGCCTAAACGTGGT
194 AAAGCATTGAAGGGTTAAGTGATAGCAAGGTTGAAATGGAAGATCCCCTTAAGCCTAAACGTGGT
* * *
100262929 CGGCCAAAGGGTACAATGAACAAGAAGAAGAAGAAAACTATTGGTGCTGAGCAGAGTATTGAAGG
259 CGGCCAAAGGGTACAACG---AAGAAGAAGAAGAAAACTATTGGTGATGAACAGAGTATTGAAGG
*
100262994 GTTTAGTAATAGCAAGGTTGAAATGGAAGATCCCCT
321 GTTAAGTAATAGCAAGGTTGAAATGGAAGATCCCCT
* *
100263030 TAAAGCCAAGCCTAAACGTGGTCGGCCAAAGGGTTCAAAGAATAAACA
1 T-AAG-C--G--TAAACGTGGTCGGCCAAAGGGTACGAAGAA-AAACA
100263078 GAAAAAGCTT
Statistics
Matches: 358, Mismatches: 34, Indels: 19
0.87 0.08 0.05
Matches are distributed among these distances:
354 109 0.30
355 1 0.00
356 3 0.01
357 209 0.58
358 3 0.01
359 1 0.00
361 1 0.00
363 26 0.07
364 5 0.01
ACGTcount: A:0.39, C:0.13, G:0.29, T:0.20
Consensus pattern (356 bp):
TAAGCGTAAACGTGGTCGGCCAAAGGGTACGAAGAAAAACAACAACAAGAAGAAGAAAACTACTG
GTGGCGAACAGATTATTGAAGGGTTAAGTGATAACAAGGTTGAAATGGAAAATCCCCTTAAGCCT
AAACGTGGTCGGCCAAAGGGTGCAAGAACAAGAAGAAGAAGAAGAAAACTATTGATGGTGAACAA
AGCATTGAAGGGTTAAGTGATAGCAAGGTTGAAATGGAAGATCCCCTTAAGCCTAAACGTGGTCG
GCCAAAGGGTACAACGAAGAAGAAGAAGAAAACTATTGGTGATGAACAGAGTATTGAAGGGTTAA
GTAATAGCAAGGTTGAAATGGAAGATCCCCT
Found at i:100270953 original size:31 final size:28
Alignment explanation
Indices: 100270902--100270958 Score: 78
Period size: 31 Copynumber: 1.9 Consensus size: 28
100270892 ATTTTGTCTT
*
100270902 TTACATTTAAAAAATAGTAAATTAGTTC
1 TTACATTTAAAAAAGAGTAAATTAGTTC
100270930 TTACATGTTAAATTAAAGAGTAAATTAGT
1 TTACAT-TTAAA--AAAGAGTAAATTAGT
100270959 CTTTTCTGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 6 0.24
29 5 0.20
31 14 0.56
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.39
Consensus pattern (28 bp):
TTACATTTAAAAAAGAGTAAATTAGTTC
Found at i:100271015 original size:36 final size:36
Alignment explanation
Indices: 100270968--100271039 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
100270958 TCTTTTCTGT
100270968 TAAAAATTTCATCCATTTATATCATAAGAAATTGGC
1 TAAAAATTTCATCCATTTATATCATAAGAAATTGGC
100271004 TAAAAATTTCATCCATTTATATCATAAGAAATTGGC
1 TAAAAATTTCATCCATTTATATCATAAGAAATTGGC
100271040 GTGACTAATG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.36
Consensus pattern (36 bp):
TAAAAATTTCATCCATTTATATCATAAGAAATTGGC
Found at i:100281795 original size:14 final size:14
Alignment explanation
Indices: 100281776--100281802 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
100281766 TGGATTATAT
100281776 AAAAGAAAAAAAAG
1 AAAAGAAAAAAAAG
100281790 AAAAGAAAAAAAA
1 AAAAGAAAAAAAA
100281803 AAGTTGGAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAAAAAG
Found at i:100282419 original size:6 final size:6
Alignment explanation
Indices: 100282408--100282436 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
100282398 AAAAAAGAAA
100282408 GTGGAT GTGGAT GTGGAT GTGGAT GTGGA
1 GTGGAT GTGGAT GTGGAT GTGGAT GTGGA
100282437 AAATAATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.52, T:0.31
Consensus pattern (6 bp):
GTGGAT
Found at i:100284206 original size:16 final size:16
Alignment explanation
Indices: 100284164--100284209 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
100284154 TTCCTTTTCG
100284164 AAAAAAGG-AAAGAAA
1 AAAAAAGGAAAAGAAA
100284179 ATTAAAAA--AAAAGAAA
1 A--AAAAAGGAAAAGAAA
100284195 AAAAAAGGAAAAGAA
1 AAAAAAGGAAAAGAA
100284210 CAGCAAAAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
14 5 0.19
15 1 0.04
16 15 0.58
17 5 0.19
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.04
Consensus pattern (16 bp):
AAAAAAGGAAAAGAAA
Found at i:100297224 original size:231 final size:231
Alignment explanation
Indices: 100296777--100297464 Score: 1227
Period size: 231 Copynumber: 3.0 Consensus size: 231
100296767 CATCTGCCTC
**
100296777 TTTTTAACATTATCTACACGTTTCATACAAGCTCCCATGTGACATGTTTCAATTTTTAATTGGGC
1 TTTTTAACATTATCTACACGTTTCATACAAATTCCCATGTGACATGTTTCAATTTTTAATTGGGC
* * *
100296842 TGTTTTCTGGATTGAAAAAATTTGGAATTTTAAAATTTTTGAA-TATTATGGGTTTTAATTGTTT
66 TGTTTTCTGGATTGAAAAAATTCGGAGTTTTAAAATTTTTGAATTATTATGGGTTTTAAATGTTT
*
100296906 TGGGTTTAGTTTGTTTGTGTTTGAATATCGTGTTTTTTTAAATAATTAAAATTTGGATTTGAATT
131 TGGGTTTAGTTTGTTTGTGTTTGAATATCGTGTTTTTTTAAATAATTAAAATTTAGATTTGAATT
100296971 GTCGACTTTTTATGATTAATTACGATAAAATTTGGG
196 GTCGACTTTTTATGATTAATTACGATAAAATTTGGG
*
100297007 TTTTTAACACTATCTACACGTTTCATACAAATTCCCATGTGACATGTTTCAATTTTTAATTGGGC
1 TTTTTAACATTATCTACACGTTTCATACAAATTCCCATGTGACATGTTTCAATTTTTAATTGGGC
*
100297072 TGCTTTT-TGGATTGAAAAAATTCGGAGTTTTAAAATTTTTGAATTATTATGGATTTTAAATGTT
66 TG-TTTTCTGGATTGAAAAAATTCGGAGTTTTAAAATTTTTGAATTATTATGGGTTTTAAATGTT
100297136 TTGGGTTTAGTTTGTTTGTGTTTGAATATCGTGTTTTTTTAAATAATTAAAATTTAGATTTGAAT
130 TTGGGTTTAGTTTGTTTGTGTTTGAATATCGTGTTTTTTTAAATAATTAAAATTTAGATTTGAAT
* *
100297201 TGTTGATTTTTTATGATTAATTACGATAAAATTTGGG
195 TGTCGACTTTTTATGATTAATTACGATAAAATTTGGG
100297238 TTTTTAACATTATCTACACGTTTCATACAAATTCCCATGTGACATGTTTCAATTTTTAATTGGGC
1 TTTTTAACATTATCTACACGTTTCATACAAATTCCCATGTGACATGTTTCAATTTTTAATTGGGC
* *
100297303 TGTTTTCTGGATTGAGAAAATTCGGAGTTTTAAAATTTTTGAATTATTATGGGTTTTAAATATTT
66 TGTTTTCTGGATTGAAAAAATTCGGAGTTTTAAAATTTTTGAATTATTATGGGTTTTAAATGTTT
* *
100297368 TGGGTTTAGTTTATTTGTGTTTGAATATTGTGTTTTTTTAAATAATTAAAATTTAGATTTGAATT
131 TGGGTTTAGTTTGTTTGTGTTTGAATATCGTGTTTTTTTAAATAATTAAAATTTAGATTTGAATT
100297433 GTCGACTTTTTATGATTAATTACGATAAAATT
196 GTCGACTTTTTATGATTAATTACGATAAAATT
100297465 AAGTTTGAAA
Statistics
Matches: 437, Mismatches: 18, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
230 102 0.23
231 335 0.77
ACGTcount: A:0.28, C:0.08, G:0.16, T:0.48
Consensus pattern (231 bp):
TTTTTAACATTATCTACACGTTTCATACAAATTCCCATGTGACATGTTTCAATTTTTAATTGGGC
TGTTTTCTGGATTGAAAAAATTCGGAGTTTTAAAATTTTTGAATTATTATGGGTTTTAAATGTTT
TGGGTTTAGTTTGTTTGTGTTTGAATATCGTGTTTTTTTAAATAATTAAAATTTAGATTTGAATT
GTCGACTTTTTATGATTAATTACGATAAAATTTGGG
Found at i:100300314 original size:60 final size:58
Alignment explanation
Indices: 100300248--100300389 Score: 162
Period size: 57 Copynumber: 2.4 Consensus size: 58
100300238 AAAATTCAAG
* * *
100300248 ATAGTTGAGTGACTAAAAAAGACAAAATTAAATTGTTGAGTG-ATCATTTTGTAATTTTTC
1 ATAGTTGAGTGACTAAAAAAGA-AAAATTAAATAGTTGAGCGAACCATTTTGTAA--TTTC
* * * *
100300308 ATAGTTGAGTGAATAAAAAA-AGAAATTTACTAGTTGAGCGAACCATTTTGTAATTTC
1 ATAGTTGAGTGACTAAAAAAGAAAAATTAAATAGTTGAGCGAACCATTTTGTAATTTC
* *
100300365 ATAGTTGAGTGACCAAAGAAGAAAA
1 ATAGTTGAGTGACTAAAAAAGAAAA
100300390 GAAAAGACTA
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
57 21 0.30
58 17 0.25
59 12 0.17
60 19 0.28
ACGTcount: A:0.42, C:0.08, G:0.18, T:0.32
Consensus pattern (58 bp):
ATAGTTGAGTGACTAAAAAAGAAAAATTAAATAGTTGAGCGAACCATTTTGTAATTTC
Found at i:100302670 original size:12 final size:12
Alignment explanation
Indices: 100302653--100302677 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
100302643 GTTTGTCAAT
100302653 CCAACTGATTTA
1 CCAACTGATTTA
100302665 CCAACTGATTTA
1 CCAACTGATTTA
100302677 C
1 C
100302678 TCGGTCCACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (12 bp):
CCAACTGATTTA
Found at i:100305844 original size:19 final size:20
Alignment explanation
Indices: 100305807--100305846 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
100305797 TAACATAATG
*
100305807 ATATATAATAGATAATTATT
1 ATATATAATACATAATTATT
*
100305827 ATATA-AATACATATTTATT
1 ATATATAATACATAATTATT
100305846 A
1 A
100305847 GTTGATTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (20 bp):
ATATATAATACATAATTATT
Found at i:100315435 original size:22 final size:22
Alignment explanation
Indices: 100315410--100315452 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
100315400 ATAGCAATAT
*
100315410 AACAGCGAAATAACAACAAAAC
1 AACAACGAAATAACAACAAAAC
* *
100315432 AACAACGAAATTACAGCAAAA
1 AACAACGAAATAACAACAAAA
100315453 AATAAAGTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.63, C:0.21, G:0.09, T:0.07
Consensus pattern (22 bp):
AACAACGAAATAACAACAAAAC
Found at i:100316235 original size:22 final size:23
Alignment explanation
Indices: 100316201--100316257 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
100316191 TATTTTAATC
*
100316201 ATTTAA-TTATTAATTTTTT-AA
1 ATTTAATTTTTTAATTTTTTAAA
100316222 ATTTAATTTTTTAATTTTTTAAA
1 ATTTAATTTTTTAATTTTTTAAA
*
100316245 ATTAAATTTTTTA
1 ATTTAATTTTTTA
100316258 GTCATTCTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
21 6 0.19
22 12 0.38
23 14 0.44
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (23 bp):
ATTTAATTTTTTAATTTTTTAAA
Found at i:100319500 original size:50 final size:50
Alignment explanation
Indices: 100319380--100319514 Score: 200
Period size: 50 Copynumber: 2.7 Consensus size: 50
100319370 ATCTGGTATG
* * ** *
100319380 CATAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCCGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCCGATACA
* *
100319429 CGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCCGATACA
100319479 CATAGTAGCCTGCACTTAGTACTACACACGTGACCT
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCT
100319515 CACAATAGAT
Statistics
Matches: 77, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
49 32 0.42
50 45 0.58
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (50 bp):
CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCCGATACA
Found at i:100323953 original size:31 final size:31
Alignment explanation
Indices: 100323918--100323994 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 31
100323908 ACTAATAGTT
***
100323918 GGACTTAAATTTTAAAATCTTAAAAATAGAA
1 GGACTTAAATTTTAAAAAAATAAAAATAGAA
*
100323949 GGAC-TAAATTCTTAAAAAAATAAAAATATAA
1 GGACTTAAATT-TTAAAAAAATAAAAATAGAA
*
100323980 CGA-TTAAATTTTAAA
1 GGACTTAAATTTTAAA
100323995 TTTATAAAGA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
30 11 0.28
31 28 0.72
ACGTcount: A:0.55, C:0.06, G:0.08, T:0.31
Consensus pattern (31 bp):
GGACTTAAATTTTAAAAAAATAAAAATAGAA
Found at i:100325135 original size:22 final size:22
Alignment explanation
Indices: 100325094--100325166 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 22
100325084 GAATTAAATT
**
100325094 ATATAATTTTATTACATTAAAA
1 ATATAATTTTATTATTTTAAAA
*
100325116 ATATAATTTTATTATTTTAATA
1 ATATAATTTTATTATTTTAAAA
* * *
100325138 GTTTATATTTTATAATTTTTAAAA
1 ATATA-ATTTTATTA-TTTTAAAA
100325162 A-ATAA
1 ATATAA
100325167 ATCAAATTTT
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
22 23 0.57
23 10 0.25
24 7 0.17
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (22 bp):
ATATAATTTTATTATTTTAAAA
Found at i:100326109 original size:29 final size:29
Alignment explanation
Indices: 100326029--100326098 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 29
100326019 ATATTAAAAT
* * *
100326029 TATACATGAACTATGGTTTAATGTGCAATTG
1 TATACATGAACTTTAGTTT--TGTGCAATTC
*
100326060 TATATATGAACTTTAGTTTTGTGCAATTC
1 TATACATGAACTTTAGTTTTGTGCAATTC
100326089 TATACATGAA
1 TATACATGAA
100326099 TTTTTTATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 18 0.53
31 16 0.47
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.41
Consensus pattern (29 bp):
TATACATGAACTTTAGTTTTGTGCAATTC
Found at i:100326694 original size:3 final size:3
Alignment explanation
Indices: 100326688--100326712 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
100326678 ATAATAATGC
100326688 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
100326713 CTTTTAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:100333213 original size:39 final size:40
Alignment explanation
Indices: 100333106--100333216 Score: 111
Period size: 38 Copynumber: 2.8 Consensus size: 40
100333096 GACCTCGAGT
* **
100333106 CGATGAGACACTGGGTGTC-ACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAAC--TATTACTTCGGATAGAGC
** ** *
100333147 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAG-GC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGATAGAGC
100333185 CGATGAGACACTGGGTGTCAACTATTACTTCG
1 CGATGAGACACTGGGTGTCAACTATTACTTCG
100333217 AACTATCCGA
Statistics
Matches: 56, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
38 19 0.34
39 19 0.34
40 1 0.02
41 15 0.27
42 2 0.04
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGATAGAGC
Found at i:100333227 original size:39 final size:39
Alignment explanation
Indices: 100333106--100333240 Score: 98
Period size: 39 Copynumber: 3.4 Consensus size: 39
100333096 GACCTCGAGT
* * *
100333106 CGATGAGACACTGGGTGTC-ACTATATTTCTTCGGATA-GATT
1 CGATGAGACACTGGGTGTCAAC--TATTACTTC-GA-ACTATC
** ** * *
100333147 CGATGAGGTACTGGGTACCAACT-TTACTTCG-GCTAGGC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTA-TC
100333185 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTATC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTATC
* *
100333224 CGATGAGGCATTGGGTG
1 CGATGAGACACTGGGTG
100333241 CCATATTGGT
Statistics
Matches: 72, Mismatches: 17, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
37 1 0.01
38 20 0.28
39 30 0.42
40 4 0.06
41 15 0.21
42 2 0.03
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGAACTATC
Found at i:100364105 original size:29 final size:30
Alignment explanation
Indices: 100364041--100364104 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
100364031 TTTTAATATT
100364041 TTAAAAATATAAAAACTAAATTTCATCAAA
1 TTAAAAATATAAAAACTAAATTTCATCAAA
** *
100364071 TT-AAAATATAATGACTAAA-TTCAT-AAC
1 TTAAAAATATAAAAACTAAATTTCATCAAA
100364098 TTAAAAA
1 TTAAAAA
100364105 AAATGATAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
27 4 0.13
28 9 0.30
29 15 0.50
30 2 0.07
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.31
Consensus pattern (30 bp):
TTAAAAATATAAAAACTAAATTTCATCAAA
Found at i:100365241 original size:16 final size:16
Alignment explanation
Indices: 100365214--100365253 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
100365204 AAAAGCTTAT
100365214 ATATATATTTTTTTAAA
1 ATATA-ATTTTTTTAAA
100365231 ATATAATTTTTTTAAA
1 ATATAATTTTTTTAAA
100365247 ATCATAA
1 AT-ATAA
100365254 ATAAGAGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (16 bp):
ATATAATTTTTTTAAA
Found at i:100385354 original size:14 final size:14
Alignment explanation
Indices: 100385335--100385366 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
100385325 TAAAACTGAT
100385335 TATAATTATTTTGA
1 TATAATTATTTTGA
100385349 TATAATTATTTTGA
1 TATAATTATTTTGA
100385363 TATA
1 TATA
100385367 TTCTCTGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (14 bp):
TATAATTATTTTGA
Found at i:100385478 original size:22 final size:22
Alignment explanation
Indices: 100385439--100385486 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
100385429 ATGTTTCACT
100385439 TATAATTATATTAAAAT-ATAA
1 TATAATTATATTAAAATAATAA
**
100385460 TATAATTTATATTTTAATAATAA
1 TATAA-TTATATTAAAATAATAA
100385483 -ATAA
1 TATAA
100385487 AATATTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 5 0.22
22 14 0.61
23 4 0.17
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
TATAATTATATTAAAATAATAA
Found at i:100385491 original size:20 final size:20
Alignment explanation
Indices: 100385468--100385505 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
100385458 AATATAATTT
100385468 ATATTTTAATAA-TAAATAAA
1 ATATTTT-ATAATTAAATAAA
100385488 ATATTTTATAATTAAATA
1 ATATTTTATAATTAAATA
100385506 GATTTTTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
ATATTTTATAATTAAATAAA
Found at i:100385505 original size:27 final size:27
Alignment explanation
Indices: 100385438--100385505 Score: 66
Period size: 27 Copynumber: 2.5 Consensus size: 27
100385428 TATGTTTCAC
* *
100385438 TTATAATTATATTAAAATATAATATAAT
1 TTATAATTA-AATAAAATATAAAATAAT
* * *
100385466 TTATATTTTAATAATAA-ATAAAATATT
1 TTATAATTAAATAA-AATATAAAATAAT
100385493 TTATAATTAAATA
1 TTATAATTAAATA
100385506 GATTTTTGTT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
27 23 0.72
28 9 0.28
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (27 bp):
TTATAATTAAATAAAATATAAAATAAT
Found at i:100392032 original size:130 final size:130
Alignment explanation
Indices: 100391878--100392245 Score: 495
Period size: 130 Copynumber: 2.8 Consensus size: 130
100391868 AGAGCCGAGT
* * * * * *
100391878 GAAATTTTGAAGGGATATTTGATTATTTTAAAC-AATCGGGAAATTTCTACCCAACACGTTAGGG
1 GAAATTTTGAAGGGATATTCGATTATTTTGAGCAAAT-GCGAAATTACAACCCAACACGTTAGGG
* * * * * *
100391942 CACGATCCCGTGAATTGCCAAATATCACATATCGCCTTCGTTTTAGGGATTTTAAAAGACATGAG
65 CACGATTCCGCGAATTGCCAAACATCAAATATCGTCTTCGTTTTAGGGATTTTAAAAGACATGAA
100392007 C
130 C
* * *
100392008 GAAATTTTAAAGTGATATTCGATTATTTTGAGCAAATGCGAAATTGCAACCCAACACGTTAGGGC
1 GAAATTTTGAAGGGATATTCGATTATTTTGAGCAAATGCGAAATTACAACCCAACACGTTAGGGC
* * * * * *
100392073 AAGATTCCGCGAATTGCCAAACATCAAATCTCATCTTCGTTTAAGGGATTTTAAAAGATATGAAT
66 ACGATTCCGCGAATTGCCAAACATCAAATATCGTCTTCGTTTTAGGGATTTTAAAAGACATGAAC
* * *
100392138 GAAATTTCGAAGGGAAATTCGATTATTTTGAGCAAATGCGAAATTACAACTCAACACGTTAGGGC
1 GAAATTTTGAAGGGATATTCGATTATTTTGAGCAAATGCGAAATTACAACCCAACACGTTAGGGC
*
100392203 ACGATTCCGCGAATTGCCAAACATCAAATTTCGTCTTCGTTTT
66 ACGATTCCGCGAATTGCCAAACATCAAATATCGTCTTCGTTTT
100392246 GGAGAATTTT
Statistics
Matches: 207, Mismatches: 30, Indels: 2
0.87 0.13 0.01
Matches are distributed among these distances:
130 204 0.99
131 3 0.01
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (130 bp):
GAAATTTTGAAGGGATATTCGATTATTTTGAGCAAATGCGAAATTACAACCCAACACGTTAGGGC
ACGATTCCGCGAATTGCCAAACATCAAATATCGTCTTCGTTTTAGGGATTTTAAAAGACATGAAC
Found at i:100392909 original size:22 final size:22
Alignment explanation
Indices: 100392884--100392927 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
100392874 TTTCTTTTAA
100392884 AATTATTAGAAATTAAATTACT
1 AATTATTAGAAATTAAATTACT
*
100392906 AATTATTAGGAATTAAATTACT
1 AATTATTAGAAATTAAATTACT
100392928 TTAAATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.41
Consensus pattern (22 bp):
AATTATTAGAAATTAAATTACT
Found at i:100394958 original size:47 final size:47
Alignment explanation
Indices: 100394889--100395106 Score: 190
Period size: 47 Copynumber: 4.6 Consensus size: 47
100394879 CATGGCAACA
* * * *
100394889 TGTGATATGTGATTTCCATATAAGACCATAGT-TGGGCTATGGCATCGG
1 TGTGATATGTG-CTTACGTATAAGACCATA-TCTGGGATATGGCATCGG
* * *
100394937 TGTGATATGAGCTTACGTATAAGACCATATGTGAGATATGGCATCGG
1 TGTGATATGTGCTTACGTATAAGACCATATCTGGGATATGGCATCGG
* * * *
100394984 TGTGATATGTGCTTATGTGTAAGACCATATCTAGGATATGGCATCAG
1 TGTGATATGTGCTTACGTATAAGACCATATCTGGGATATGGCATCGG
* * * ** * *
100395031 TGTGATATGTG-ATCCGTGTAAGACCATGGCTGGGCTATGGCTTCGG
1 TGTGATATGTGCTTACGTATAAGACCATATCTGGGATATGGCATCGG
* *
100395077 TGTATGATATGTGAC-TATGTACAAGACCAT
1 TG--TGATATGTG-CTTACGTATAAGACCAT
100395107 CGTTTTACTA
Statistics
Matches: 139, Mismatches: 26, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
46 29 0.21
47 80 0.58
48 19 0.14
49 11 0.08
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.32
Consensus pattern (47 bp):
TGTGATATGTGCTTACGTATAAGACCATATCTGGGATATGGCATCGG
Found at i:100399123 original size:18 final size:18
Alignment explanation
Indices: 100399102--100399140 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
100399092 GATTGAGAGT
* *
100399102 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
*
100399120 GAAAAGAAATTTGAAAAA
1 GAAAAGAAATGTGAAAAA
100399138 GAA
1 GAA
100399141 GTTGAAGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.23, T:0.13
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:100405770 original size:20 final size:20
Alignment explanation
Indices: 100405747--100405790 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
100405737 CTATAAAAAT
100405747 TAATTATATATGTTA-AATAA
1 TAATTATATAT-TTATAATAA
*
100405767 TAATTATATATTTATATTAA
1 TAATTATATATTTATAATAA
100405787 TAAT
1 TAAT
100405791 CACTAACCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 3 0.14
20 19 0.86
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
TAATTATATATTTATAATAA
Found at i:100415296 original size:26 final size:26
Alignment explanation
Indices: 100415267--100415319 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
100415257 ATTGGAGAAG
100415267 TACTTAGTCTACAATGTGAGGCTAAT
1 TACTTAGTCTACAATGTGAGGCTAAT
100415293 TACTTAGTCTACAATGTGAGGCTAAT
1 TACTTAGTCTACAATGTGAGGCTAAT
100415319 T
1 T
100415320 CCCATGATCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (26 bp):
TACTTAGTCTACAATGTGAGGCTAAT
Found at i:100424717 original size:25 final size:26
Alignment explanation
Indices: 100424673--100424727 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 26
100424663 TAATCAAATC
*
100424673 TTATAATATTTTTGCTTTTTGTTGTG
1 TTATAATATTTTTGCATTTTGTTGTG
100424699 TTATAATA-TTTTGCATTTTGTTGTG
1 TTATAATATTTTTGCATTTTGTTGTG
100424724 TTAT
1 TTAT
100424728 GGTATATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
25 20 0.71
26 8 0.29
ACGTcount: A:0.18, C:0.04, G:0.15, T:0.64
Consensus pattern (26 bp):
TTATAATATTTTTGCATTTTGTTGTG
Found at i:100433670 original size:17 final size:18
Alignment explanation
Indices: 100433648--100433687 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
100433638 ATAATCTTAG
100433648 TTTTTTTAGATATGAT-T
1 TTTTTTTAGATATGATCT
* *
100433665 TTTTTTTAGCTATTATCT
1 TTTTTTTAGATATGATCT
100433683 TTTTT
1 TTTTT
100433688 CTTAATTAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.17, C:0.05, G:0.07, T:0.70
Consensus pattern (18 bp):
TTTTTTTAGATATGATCT
Found at i:100445578 original size:3 final size:3
Alignment explanation
Indices: 100445572--100445621 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
100445562 AATAGAAGAC
* *
100445572 AAT AAT AAT AAT -AT ATT AAT AAA AAT GAA- AAT AAT -AT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT
100445615 AAT AAT A
1 AAT AAT A
100445622 TAGAGAAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
2 6 0.15
3 31 0.79
4 2 0.05
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:100445777 original size:3 final size:3
Alignment explanation
Indices: 100445771--100445918 Score: 96
Period size: 3 Copynumber: 50.0 Consensus size: 3
100445761 TACCATGATG
* * *
100445771 ATA ATA ATA ATA ATA ATA ATA A-A ATA ATA A-A ATA ACA AT- ATG TTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
100445816 TTA ATA ATA ATA ATAA ATAA ATA ATG GTA ATAA ATA TATA A-A ATA ATA
1 ATA ATA ATA ATA AT-A AT-A ATA ATA ATA AT-A ATA -ATA ATA ATA ATA
* * *
100445864 GTA ACA GTA ATA A-A ATA A-A TATA AT- ATA ATA A-A TATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA -ATA ATA ATA
*
100445907 ATA ATA ACA ATA
1 ATA ATA ATA ATA
100445919 TTTAAAAATA
Statistics
Matches: 115, Mismatches: 17, Indels: 26
0.73 0.11 0.16
Matches are distributed among these distances:
2 14 0.12
3 86 0.75
4 15 0.13
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:100452953 original size:4 final size:4
Alignment explanation
Indices: 100452944--100452970 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
100452934 TTTCATACTT
100452944 GATA GATA GATA GATA GATA GATA GAT
1 GATA GATA GATA GATA GATA GATA GAT
100452971 GCTATTACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.26, T:0.26
Consensus pattern (4 bp):
GATA
Found at i:100453212 original size:16 final size:16
Alignment explanation
Indices: 100453182--100453218 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
100453172 TACCCGGAGC
*
100453182 GTATTG-TGTCCCATT
1 GTATTGATGACCCATT
100453197 GTATTGATGACCCATT
1 GTATTGATGACCCATT
100453213 GT-TTGA
1 GTATTGA
100453219 ACTGGTTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.19, C:0.16, G:0.22, T:0.43
Consensus pattern (16 bp):
GTATTGATGACCCATT
Found at i:100454642 original size:92 final size:93
Alignment explanation
Indices: 100454522--100454705 Score: 307
Period size: 92 Copynumber: 2.0 Consensus size: 93
100454512 TGTTTAATTT
* *
100454522 CTATACAACAGCAAAGAGATGTGCAGCAGCCAGTAAATGGCATTACAACAAAAGGGATGT-CAGA
1 CTATACAACAGCAAAGAGATGGGAAGCAGCCAGTAAATGGCATTACAACAAAAGGGATGTCCAGA
100454586 AGTTTAGATTATTAAAAAAAAAAAAAAA
66 AGTTTAGATTATTAAAAAAAAAAAAAAA
* *
100454614 CTATACAACAGCGAAGAGATGGGAAGCAGCCAGTAAATGGCATTGCAACAAAAGGGATGTCCAGA
1 CTATACAACAGCAAAGAGATGGGAAGCAGCCAGTAAATGGCATTACAACAAAAGGGATGTCCAGA
* *
100454679 AGTTTAGATTATTTAAATAAAAAAAAA
66 AGTTTAGATTATTAAAAAAAAAAAAAA
100454706 CTAACTGTGA
Statistics
Matches: 85, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
92 56 0.66
93 29 0.34
ACGTcount: A:0.48, C:0.13, G:0.20, T:0.19
Consensus pattern (93 bp):
CTATACAACAGCAAAGAGATGGGAAGCAGCCAGTAAATGGCATTACAACAAAAGGGATGTCCAGA
AGTTTAGATTATTAAAAAAAAAAAAAAA
Found at i:100465513 original size:14 final size:12
Alignment explanation
Indices: 100465485--100465518 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
100465475 CAGCCTGCTC
100465485 ATATTATTTTTT
1 ATATTATTTTTT
100465497 ATATTATTTTTT
1 ATATTATTTTTT
*
100465509 ATATAATTTT
1 ATATTATTTT
100465519 AAAATATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (12 bp):
ATATTATTTTTT
Done.