Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 25 of 279
Found at i:8191948 original size:93 final size:93
Alignment explanation
Indices: 8191789--8191959 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
8191779 GGATGGTTGA
* *
8191789 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
8191854 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
8191882 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
8191947 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
8191960 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:8202356 original size:8 final size:8
Alignment explanation
Indices: 8202343--8202376 Score: 68
Period size: 8 Copynumber: 4.2 Consensus size: 8
8202333 GAGATTTGAT
8202343 TTCAAGAA
1 TTCAAGAA
8202351 TTCAAGAA
1 TTCAAGAA
8202359 TTCAAGAA
1 TTCAAGAA
8202367 TTCAAGAA
1 TTCAAGAA
8202375 TT
1 TT
8202377 ATCTAAGCGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.29
Consensus pattern (8 bp):
TTCAAGAA
Found at i:8203697 original size:18 final size:18
Alignment explanation
Indices: 8203674--8203708 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
8203664 ATATTTGAAA
8203674 TAATTTAATATAATATAT
1 TAATTTAATATAATATAT
*
8203692 TAATTTAATTTAATATA
1 TAATTTAATATAATATA
8203709 AAACATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TAATTTAATATAATATAT
Found at i:8203824 original size:26 final size:24
Alignment explanation
Indices: 8203770--8203893 Score: 110
Period size: 26 Copynumber: 4.9 Consensus size: 24
8203760 TTTAAGAATG
*
8203770 TTATTAAATTATA-TAATATTACTT
1 TTATTAAATTATATTAATAATA-TT
8203794 TTATTAAATTATATTTAATAATATT
1 TTATTAAATTATA-TTAATAATATT
* *
8203819 TATATTAAAATATGATTAA-ATTATTT
1 T-TATTAAATTAT-ATTAATAATA-TT
8203845 ATTATTAAATTATATTTAATAATAATT
1 -TTATTAAATTATA-TTAATAAT-ATT
*
8203872 TTATTGAAATT-TAATAATAATA
1 TTATT-AAATTATATTAATAATA
8203894 ACAATAATCA
Statistics
Matches: 84, Mismatches: 6, Indels: 20
0.76 0.05 0.18
Matches are distributed among these distances:
24 14 0.17
25 14 0.17
26 44 0.52
27 11 0.13
28 1 0.01
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.52
Consensus pattern (24 bp):
TTATTAAATTATATTAATAATATT
Found at i:8210168 original size:25 final size:23
Alignment explanation
Indices: 8210116--8210170 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
8210106 TATAAATAGT
8210116 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
8210139 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
8210164 AATAGTG
1 AATAGTG
8210171 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:8210251 original size:22 final size:22
Alignment explanation
Indices: 8210226--8210300 Score: 69
Period size: 22 Copynumber: 3.3 Consensus size: 22
8210216 TATGAAATAG
*
8210226 ATATAAAAAAAATATGTACATA
1 ATATAAAAAAAATATATACATA
* *
8210248 ATATAGTGTAAAAAATACATACATA
1 ATATA---AAAAAAATATATACATA
**
8210273 ATATAATTAAAATATATACATA
1 ATATAAAAAAAATATATACATA
*
8210295 AGATAA
1 ATATAA
8210301 CATGTAGAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
22 23 0.55
25 19 0.45
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.29
Consensus pattern (22 bp):
ATATAAAAAAAATATATACATA
Found at i:8210270 original size:25 final size:25
Alignment explanation
Indices: 8210232--8210378 Score: 88
Period size: 25 Copynumber: 5.9 Consensus size: 25
8210222 ATAGATATAA
*
8210232 AAAAAATATGTACATAATATAGTGT
1 AAAAAATATATACATAATATAGTGT
* *
8210257 AAAAAATACATACATAATATAAT-T
1 AAAAAATATATACATAATATAGTGT
* *
8210281 --AAAATATATACATAAGATAACATGTAGA
1 AAAAAATATATACAT-A-AT-ATA-GT-GT
* * *
8210309 AAAAAAAATATAAATAATATAGTAT
1 AAAAAATATATACATAATATAGTGT
* * *
8210334 TAAAGATATATACATAAAATA--GT
1 AAAAAATATATACATAATATAGTGT
* * *
8210357 ATAATATATATACGTAATATAG
1 AAAAAATATATACATAATATAG
8210379 AATTTAGAAT
Statistics
Matches: 90, Mismatches: 23, Indels: 19
0.68 0.17 0.14
Matches are distributed among these distances:
22 12 0.13
23 18 0.20
24 3 0.03
25 38 0.42
26 3 0.03
27 2 0.02
28 2 0.02
29 1 0.01
30 11 0.12
ACGTcount: A:0.58, C:0.05, G:0.07, T:0.30
Consensus pattern (25 bp):
AAAAAATATATACATAATATAGTGT
Found at i:8210342 original size:23 final size:23
Alignment explanation
Indices: 8210316--8210443 Score: 59
Period size: 23 Copynumber: 5.5 Consensus size: 23
8210306 AGAAAAAAAA
8210316 ATATAAATAATATAGTATTAAAG
1 ATATAAATAATATAGTATTAAAG
* *
8210339 ATATATACATAAAATAGTA-TAATAT
1 ATATA-A-ATAATATAGTATTAA-AG
** * *
8210364 ATATACGTAATATAGAATT-TAG
1 ATATAAATAATATAGTATTAAAG
** *
8210386 AATATACCTAATATA-T-TAAAAG
1 -ATATAAATAATATAGTATTAAAG
* *
8210408 AATATATATAATATAATATTAAA-
1 -ATATAAATAATATAGTATTAAAG
*
8210431 AAATATAATAATA
1 ATATA-AATAATA
8210444 ACAAAAAAAA
Statistics
Matches: 79, Mismatches: 17, Indels: 18
0.69 0.15 0.16
Matches are distributed among these distances:
21 1 0.01
22 20 0.25
23 33 0.42
24 9 0.11
25 16 0.20
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.35
Consensus pattern (23 bp):
ATATAAATAATATAGTATTAAAG
Found at i:8210941 original size:30 final size:30
Alignment explanation
Indices: 8210905--8211002 Score: 178
Period size: 30 Copynumber: 3.3 Consensus size: 30
8210895 AGGTACAAGT
*
8210905 GGTGGTGGAGCAAGTGTGGCTAATGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
8210935 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
*
8210965 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTT
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
8210995 GGTGGTGG
1 GGTGGTGG
8211003 CAAAGGCTAG
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 66 1.00
ACGTcount: A:0.18, C:0.06, G:0.51, T:0.24
Consensus pattern (30 bp):
GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
Found at i:8210962 original size:18 final size:18
Alignment explanation
Indices: 8210939--8210992 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
8210929 GGAGTAGGTG
8210939 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
*
8210957 GTGGAG-TAG-GT-G---
1 GTGGAGCAAGTGTGGCTA
8210969 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
8210987 GTGGAG
1 GTGGAG
8210993 TTGGTGGTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 6 0.21
13 2 0.07
14 2 0.07
15 2 0.07
16 2 0.07
17 2 0.07
18 12 0.43
ACGTcount: A:0.20, C:0.07, G:0.50, T:0.22
Consensus pattern (18 bp):
GTGGAGCAAGTGTGGCTA
Found at i:8211790 original size:87 final size:87
Alignment explanation
Indices: 8211639--8211844 Score: 236
Period size: 87 Copynumber: 2.4 Consensus size: 87
8211629 TCCTGAGCTT
* * *
8211639 AACTCATTTCTCGCAATATGAATTGACTCTTTAAAACTAAACATTAAAAACAGAAATTGAAAATA
1 AACTCACTTCTCGCAATATGAGTTGA-TTTTTAAAACTAAACATTAAAAACAGAAATTGAAAATA
* *
8211704 GCTCAGCACGTGAGCCAAGGCTC
65 CCTCAGCACGTGACCCAAGGCTC
* **
8211727 AACTCACTTCTCGCAATATGAGTTGATTTTTAAAAC-AAA-ATTTGTAAAACAGATTTTGAAAAT
1 AACTCACTTCTCGCAATATGAGTTGATTTTTAAAACTAAACA-TT-AAAAACAGAAATTGAAAAT
* * * *
8211790 ACCTCGGTATGTGACCCGAGGCTC
64 ACCTCAGCACGTGACCCAAGGCTC
* * *
8211814 AACTCACCTCTCGTAATATGAGTTAATTTTT
1 AACTCACTTCTCGCAATATGAGTTGATTTTT
8211845 GCAAAGCATA
Statistics
Matches: 101, Mismatches: 15, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
85 1 0.01
86 5 0.05
87 71 0.70
88 24 0.24
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.30
Consensus pattern (87 bp):
AACTCACTTCTCGCAATATGAGTTGATTTTTAAAACTAAACATTAAAAACAGAAATTGAAAATAC
CTCAGCACGTGACCCAAGGCTC
Found at i:8211958 original size:102 final size:102
Alignment explanation
Indices: 8211782--8211971 Score: 344
Period size: 102 Copynumber: 1.9 Consensus size: 102
8211772 AAAACAGATT
*
8211782 TTGAAAATACCTCGGTATGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTAATTTTTGC
1 TTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTAATTTTTGC
8211847 AAAGCATAAATTGAAAAAAAAAATAAAAAAAAATCAA
66 AAAGCATAAATTGAAAAAAAAAATAAAAAAAAATCAA
* * *
8211884 TTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGTAATATGAGTTAATTTTTGC
1 TTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTAATTTTTGC
8211949 AAAGCATAAATTGAAAAAAAAAA
66 AAAGCATAAATTGAAAAAAAAAA
8211972 AGAAATTGAA
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
102 84 1.00
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (102 bp):
TTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTAATTTTTGC
AAAGCATAAATTGAAAAAAAAAATAAAAAAAAATCAA
Found at i:8211966 original size:91 final size:92
Alignment explanation
Indices: 8211871--8212149 Score: 266
Period size: 91 Copynumber: 3.0 Consensus size: 92
8211861 AAAAAAAAAT
* *
8211871 AAAAAAAAATCAATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGTAATATG
1 AAAAAAAAAT-AATTGAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATG
* * *
8211936 AGTTAATTTTTG-CAAAGCATAAATTGAA
65 AGTTAATTTTTGAAAAAACAGAAATTG-A
* * * * *
8211964 AAAAAAAAAGAAATTGAAAATATCTCAGCGTGT--CCTGAGGCTGAACTCACCTCTCGCAATATC
1 AAAAAAAAA-TAATTGAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATG
* *
8212027 AGTTGATTTTTTGAAAAAACAGAATTTGA
65 AGTT-AATTTTTGAAAAAACAGAAATTGA
* * * * *
8212056 AAAACAGAAT--TTGAAAATACCTCAGCCTGTGAGTC-AAGGCTCAACTCACCACTCGCAATATG
1 AAAAAAAAATAATTGAAAATACCTCAGCGTGTGA-TCTGAGGCTCAACTCACCTCTCGCAATATG
* * *
8212118 AGCTGATTTTTTTG-AAAGACAGAAATTGA
65 AG-TTA-ATTTTTGAAAAAACAGAAATTGA
8212147 AAA
1 AAA
8212150 TACCTCAACG
Statistics
Matches: 153, Mismatches: 25, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
89 18 0.12
91 72 0.47
92 24 0.16
93 39 0.25
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (92 bp):
AAAAAAAAATAATTGAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTAATTTTTGAAAAAACAGAAATTGA
Found at i:8212056 original size:15 final size:15
Alignment explanation
Indices: 8212036--8212072 Score: 67
Period size: 14 Copynumber: 2.5 Consensus size: 15
8212026 CAGTTGATTT
8212036 TTTGAAAAAACAGAA
1 TTTGAAAAAACAGAA
8212051 TTTG-AAAAACAGAA
1 TTTGAAAAAACAGAA
8212065 TTTGAAAA
1 TTTGAAAA
8212073 TACCTCAGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 14 0.67
15 7 0.33
ACGTcount: A:0.57, C:0.05, G:0.14, T:0.24
Consensus pattern (15 bp):
TTTGAAAAAACAGAA
Found at i:8212309 original size:162 final size:162
Alignment explanation
Indices: 8211972--8213957 Score: 3213
Period size: 162 Copynumber: 12.4 Consensus size: 162
8211962 AAAAAAAAAA
* * * * * * *
8211972 AGAAATTGAAAATATCTCAGCGTGTCCTGAGGCTGAACTCACCTCTCGCAATATCAGTTGA-TTT
1 AGAAATTGAAAATACCTCAACGTGTCTTGAGGGTCAACTCACCTCTCGCAATATGAGCTGATTTT
* * * * * * * * * ** *
8212036 TTTGAAAAAACAGAATTTGAAAAACAGAATTTGAAAATACCTCAGCCTGTGAGTCAAGGCTCAAC
66 TTTG-AAACACAGAAATTGAAGAACATAAATGGAAAACACATCAG-C-GT--CTTGAGGTTCAAC
** * *
8212101 TCACCACTCGCAATATGAGCTGATTTTTTTGAAAGAC
126 TCACTTCTCGCAAGATGAGCAGATTTTTTTGAAAGAC
8212138 AGAAATTGAAAATACCTCAACGTGTCTTGAGGGTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 AGAAATTGAAAATACCTCAACGTGTCTTGAGGGTCAACTCACCTCTCGCAATATGAGCTGATTTT
8212203 TTTGAAACACAGAAATTGAAGAACATAAATGGAAAACACATCAGCGTCTTGAGGTTCAACTCACT
66 TTTGAAACACAGAAATTGAAGAACATAAATGGAAAACACATCAGCGTCTTGAGGTTCAACTCACT
8212268 TCTCGCAAGATGAGCAGATTTTTTTGAAAGAC
131 TCTCGCAAGATGAGCAGATTTTTTTGAAAGAC
8212300 AGAAATTGAAAATACCTCAACGTGTCTTGAGGGTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 AGAAATTGAAAATACCTCAACGTGTCTTGAGGGTCAACTCACCTCTCGCAATATGAGCTGATTTT
8212365 TTTGAAACACAGAAATTGAAGAACATAAATGGAAAACACATCAGCGTCTTGAGGTTCAACTCACT
66 TTTGAAACACAGAAATTGAAGAACATAAATGGAAAACACATCAGCGTCTTGAGGTTCAACTCACT
8212430 TCTCGCAAGATGAGCAGATTTTTTTGAAAGAC
131 TCTCGCAAGATGAGCAGATTTTTTTGAAAGAC
8212462 AGAAATTGAAAATACCTCAACGTGTCTTGAGGGTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 AGAAATTGAAAATACCTCAACGTGTCTTGAGGGTCAACTCACCTCTCGCAATATGAGCTGATTTT
8212527 TTTGAAACACAGAAATTGAAGAACATAAATGGAAAACACATCAGCGTCTTGAGGTTCAACTCACT
66 TTTGAAACACAGAAATTGAAGAACATAAATGGAAAACACATCAGCGTCTTGAGGTTCAACTCACT
8212592 TCTCGCAAGATGAGCAGATTTTTTTGAAAGAC
131 TCTCGCAAGATGAGCAGATTTTTTTGAAAGAC
8212624 AGAAATTGAAAATACCTCAACGTGTCTTGAGGGTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 AGAAATTGAAAATACCTCAACGTGTCTTGAGGGTCAACTCACCTCTCGCAATATGAGCTGATTTT
8212689 TTTGAAACACAGAAATTGAAGAACATAAATGGAAAACACATCAGCGTCTTGAGGTTCAACTCACT
66 TTTGAAACACAGAAATTGAAGAACATAAATGGAAAACACATCAGCGTCTTGAGGTTCAACTCACT
8212754 TCTCGCAAGATGAGCAGATTTTTTTGAAAGAC
131 TCTCGCAAGATGAGCAGATTTTTTTGAAAGAC
8212786 AGAAATTGAAAATACCTCAACGTGTCTTGAGGGTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 AGAAATTGAAAATACCTCAACGTGTCTTGAGGGTCAACTCACCTCTCGCAATATGAGCTGATTTT
8212851 TTTGAAACACAGAAATTGAAGAACATAAATGGAAAACACATCAGCGTCTTGAGGTTCAACTCACT
66 TTTGAAACACAGAAATTGAAGAACATAAATGGAAAACACATCAGCGTCTTGAGGTTCAACTCACT
8212916 TCTCGCAAGATGAGCAGATTTTTTTGAAAGAC
131 TCTCGCAAGATGAGCAGATTTTTTTGAAAGAC
8212948 AGAAATTGAAAATACCTCAACGTGTCTTGAGGGTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 AGAAATTGAAAATACCTCAACGTGTCTTGAGGGTCAACTCACCTCTCGCAATATGAGCTGATTTT
8213013 TTTGAAACACAGAAATTGAAGAACATAAATGGAAAACACATCAGCGTCTTGAGGTTCAACTCACT
66 TTTGAAACACAGAAATTGAAGAACATAAATGGAAAACACATCAGCGTCTTGAGGTTCAACTCACT
8213078 TCTCGCAAGATGAGCAGATTTTTTTGAAAGAC
131 TCTCGCAAGATGAGCAGATTTTTTTGAAAGAC
8213110 AGAAATTGAAAATACCTCAACGTGTCTTGAGGGTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 AGAAATTGAAAATACCTCAACGTGTCTTGAGGGTCAACTCACCTCTCGCAATATGAGCTGATTTT
8213175 TTTGAAACACAGAAATTGAAGAACATAAATGGAAAACACATCAGCGTCTTGAGGTTCAACTCACT
66 TTTGAAACACAGAAATTGAAGAACATAAATGGAAAACACATCAGCGTCTTGAGGTTCAACTCACT
8213240 TCTCGCAAGATGAGCAGATTTTTTTGAAAGAC
131 TCTCGCAAGATGAGCAGATTTTTTTGAAAGAC
8213272 AGAAATTGAAAATACCTCAACGTGTCTTGAGGGTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 AGAAATTGAAAATACCTCAACGTGTCTTGAGGGTCAACTCACCTCTCGCAATATGAGCTGATTTT
8213337 TTTGAAACACAGAAATTGAAGAACATAAATGGAAAACACATCAGCGTCTTGAGGTTCAACTCACT
66 TTTGAAACACAGAAATTGAAGAACATAAATGGAAAACACATCAGCGTCTTGAGGTTCAACTCACT
8213402 TCTCGCAAGATGAGCAGATTTTTTTGAAAGAC
131 TCTCGCAAGATGAGCAGATTTTTTTGAAAGAC
8213434 AGAAATTGAAAATACCTCAACGTGTCTTGAGGGTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 AGAAATTGAAAATACCTCAACGTGTCTTGAGGGTCAACTCACCTCTCGCAATATGAGCTGATTTT
8213499 TTTGAAACACAGAAATTGAAGAACATAAATGGAAAACACATCAGCGTCTTGAGGTTCAACTCACT
66 TTTGAAACACAGAAATTGAAGAACATAAATGGAAAACACATCAGCGTCTTGAGGTTCAACTCACT
8213564 TCTCGCAAGATGAGCAGATTTTTTTGAAAGAC
131 TCTCGCAAGATGAGCAGATTTTTTTGAAAGAC
*
8213596 AGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 AGAAATTGAAAATACCTCAACGTGTCTTGAGGGTCAACTCACCTCTCGCAATATGAGCTGATTTT
* * * * * * * *
8213661 TTTTAAAGACAGAAATT------CA-AAAT----ACCTCAAC-GTGTCTTGAGGGTCAACTCACC
66 TTTGAAACACAGAAATTGAAGAACATAAATGGAAAACACATCAGCGTCTTGAGGTTCAACTCACT
* **
8213714 TCTCGCAATATGAGTTGA--TTTTTGACAA-AC
131 TCTCGCAAGATGAGCAGATTTTTTTGA-AAGAC
* * * * *
8213744 AAAAATTGAAATTACCTCAGCGT-T-TTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AGAAATTGAAAATACCTCAACGTGTCTTGAGGGTCAACTCACCTCTCGCAATATGAGCTGATTTT
* ** * * * *
8213807 TTTGAAAAACAGAAATTG-A-AA-ATACCT------CA-A-C-GTGTCTTAAGGTTCAACGCACC
66 TTTGAAACACAGAAATTGAAGAACATAAATGGAAAACACATCAGCGTCTTGAGGTTCAACTCACT
* * * *
8213860 TCTTGCAATATGAGCTGATTTTTTTTAAAGAC
131 TCTCGCAAGATGAGCAGATTTTTTTGAAAGAC
* * * *
8213892 AGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACCCACCTCTCGCAATATGAGTTGATTTT
1 AGAAATTGAAAATACCTCAACGTGTCTTGAGGGTCAACTCACCTCTCGCAATATGAGCTGATTTT
8213957 T
66 T
8213958 GACAAAAAAA
Statistics
Matches: 1752, Mismatches: 56, Indels: 40
0.95 0.03 0.02
Matches are distributed among these distances:
146 89 0.05
147 4 0.00
148 57 0.03
149 4 0.00
150 74 0.04
151 5 0.00
155 4 0.00
156 2 0.00
162 1417 0.81
164 2 0.00
165 1 0.00
166 86 0.05
167 7 0.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (162 bp):
AGAAATTGAAAATACCTCAACGTGTCTTGAGGGTCAACTCACCTCTCGCAATATGAGCTGATTTT
TTTGAAACACAGAAATTGAAGAACATAAATGGAAAACACATCAGCGTCTTGAGGTTCAACTCACT
TCTCGCAAGATGAGCAGATTTTTTTGAAAGAC
Found at i:8213819 original size:146 final size:147
Alignment explanation
Indices: 8213544--8213957 Score: 571
Period size: 146 Copynumber: 2.8 Consensus size: 147
8213534 ACACATCAGC
* * *
8213544 GTCTTGAGGTTCAACTCACTTCTCGCAAGATGAGCAGATTTTTTTGAAAGACAGAAATTGAAAAT
1 GTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGA-TTTTTTGAAAGACAGAAATTGAAAAT
* * * *
8213609 ACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTTAAAGACAGA
65 ACCTCAGCGT-T-TTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGA
8213674 AATTCAAAATACCTCAACGT
128 AATTCAAAATACCTCAACGT
* * * *
8213694 GTCTTGAGGGTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGACAA-ACAAAAATTGAAATT
1 GTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTGA-AAGACAGAAATTGAAAAT
8213757 ACCTCAGCGTTTTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAA
65 ACCTCAGCGTTTTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAA
*
8213822 TTGAAAATACCTCAACGT
130 TTCAAAATACCTCAACGT
* * * *
8213840 GTCTTAAGGTTCAACGCACCTCTTGCAATATGAGCTGATTTTTTTTAAAGACAGAAATTGAAAAT
1 GTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGA-TTTTTTGAAAGACAGAAATTGAAAAT
* * * *
8213905 ACCTCAATGTGTCTTGAGGCTCAACCCACCTCTCGCAATATGAGTTGATTTTT
65 ACCTC-A-GCGTTTTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTT
8213958 GACAAAAAAA
Statistics
Matches: 234, Mismatches: 24, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
146 101 0.43
147 3 0.01
148 53 0.23
149 3 0.01
150 74 0.32
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.32
Consensus pattern (147 bp):
GTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTGAAAGACAGAAATTGAAAATA
CCTCAGCGTTTTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAAT
TCAAAATACCTCAACGT
Found at i:8213922 original size:221 final size:220
Alignment explanation
Indices: 8213539--8213968 Score: 734
Period size: 221 Copynumber: 1.9 Consensus size: 220
8213529 GGAAAACACA
* *
8213539 TCAGCGTCTTGAGGTTCAACTCACTTCTCGCAAGATGAGCAGATTTTTTTGAAAGACAGAAATTG
1 TCAGCGTCTTGAGGTTCAACTCACCTCTCGCAAGATGAGCAGATTTTTTTGAAAAACAGAAATTG
* *
8213604 AAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTTAAAG
66 AAAATACCTCAACGTGTCTTAAGGTTCAACGCACCTCTCGCAATATGAGCTGATTTTTTTTAAAG
* *
8213669 ACAGAAATTCAAAATACCTCAACGTGTCTTGAGGGTCAACTCACCTCTCGCAATATGAGTTGATT
131 ACAGAAATTCAAAATACCTCAACGTGTCTTGAGGCTCAACCCACCTCTCGCAATATGAGTTGATT
8213734 TTTGACAAACAAAAATTGAAATTACC
196 TTTGACAAA-AAAAATTGAAATTACC
* * **
8213760 TCAGCGTTTTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTG
1 TCAGCGTCTTGAGGTTCAACTCACCTCTCGCAAGATGAGCAGATTTTTTTGAAAAACAGAAATTG
*
8213825 AAAATACCTCAACGTGTCTTAAGGTTCAACGCACCTCTTGCAATATGAGCTGATTTTTTTTAAAG
66 AAAATACCTCAACGTGTCTTAAGGTTCAACGCACCTCTCGCAATATGAGCTGATTTTTTTTAAAG
* *
8213890 ACAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACCCACCTCTCGCAATATGAGTTGATT
131 ACAGAAATTCAAAATACCTCAACGTGTCTTGAGGCTCAACCCACCTCTCGCAATATGAGTTGATT
8213955 TTTGACAAAAAAAA
196 TTTGACAAAAAAAA
8213969 CTTCTCGCAA
Statistics
Matches: 196, Mismatches: 13, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
220 5 0.03
221 191 0.97
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.31
Consensus pattern (220 bp):
TCAGCGTCTTGAGGTTCAACTCACCTCTCGCAAGATGAGCAGATTTTTTTGAAAAACAGAAATTG
AAAATACCTCAACGTGTCTTAAGGTTCAACGCACCTCTCGCAATATGAGCTGATTTTTTTTAAAG
ACAGAAATTCAAAATACCTCAACGTGTCTTGAGGCTCAACCCACCTCTCGCAATATGAGTTGATT
TTTGACAAAAAAAATTGAAATTACC
Found at i:8214229 original size:13 final size:13
Alignment explanation
Indices: 8214183--8214227 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
8214173 TTGATTTTGG
8214183 AAAAACAGAAATT
1 AAAAACAGAAATT
*
8214196 AAAAGCAGAAATT
1 AAAAACAGAAATT
*
8214209 GAAAAATAGAAATT
1 -AAAAACAGAAATT
8214223 AAAAA
1 AAAAA
8214228 TACCTCGGCG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 17 0.61
14 11 0.39
ACGTcount: A:0.69, C:0.04, G:0.11, T:0.16
Consensus pattern (13 bp):
AAAAACAGAAATT
Found at i:8214242 original size:100 final size:100
Alignment explanation
Indices: 8214026--8214300 Score: 383
Period size: 100 Copynumber: 2.8 Consensus size: 100
8214016 CGAAAATTGG
* * *
8214026 AAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTCGA-TTTGAAAAGCAG
1 AAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAGCAG
* * * *
8214090 AATTTGTAAGGCAAAAATTGAAAAACAGAAATTGA
66 AAATTGAAAAGCAAAAATTGAAAAACAGAAATTAA
*
8214125 AAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGGAAAAACA
1 AAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT-GAAAAGCA
* *
8214190 GAAATT-AAAAGCAGAAATTGAAAAATAGAAATTAA
65 GAAATTGAAAAGCAAAAATTGAAAAACAGAAATTAA
* * * *
8214225 AAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTTTCGCAATATGAGTTGATTTTTGAAAAGCA
1 AAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAAAGCA
*
8214290 TAAATTGAAAA
65 GAAATTGAAAA
8214301 AACCTCAGCG
Statistics
Matches: 156, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
99 49 0.31
100 87 0.56
101 20 0.13
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (100 bp):
AAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAGCAG
AAATTGAAAAGCAAAAATTGAAAAACAGAAATTAA
Found at i:8214330 original size:73 final size:74
Alignment explanation
Indices: 8214218--8214377 Score: 252
Period size: 73 Copynumber: 2.2 Consensus size: 74
8214208 TGAAAAATAG
* * *
8214218 AAATT-AAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTTTCGCAATATGAGTTGA-TTTT
1 AAATTGAAAAA-ACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
8214281 TGAAAAGCAT
65 TGAAAAGCAT
* *
8214291 AAATTGAAAAAACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAAAACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
8214356 GAAAAGCAT
66 GAAAAGCAT
8214365 AAATTGAAAAAAC
1 AAATTGAAAAAAC
8214378 GAAAATTGAA
Statistics
Matches: 80, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
73 48 0.60
74 32 0.40
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.27
Consensus pattern (74 bp):
AAATTGAAAAAACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
GAAAAGCAT
Found at i:8226677 original size:16 final size:16
Alignment explanation
Indices: 8226639--8226677 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
8226629 TAGACCAAGA
*
8226639 AAAAACTAGCCTCTCC
1 AAAAACTAGCCTCTAC
*
8226655 AAAAACTAGCCTTTAC
1 AAAAACTAGCCTCTAC
*
8226671 AATAACT
1 AAAAACT
8226678 CTTCTCCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAAACTAGCCTCTAC
Found at i:8226854 original size:26 final size:26
Alignment explanation
Indices: 8226792--8226871 Score: 115
Period size: 30 Copynumber: 2.9 Consensus size: 26
8226782 TAGCCATTTA
*
8226792 CGTGGCTAGTGGAGTAGGTGGTGGAG
1 CGTGGCTAGTGGAGTTGGTGGTGGAG
8226818 CAAGTGTGGCTAGTGGAGTTGGTGGTGGAG
1 C----GTGGCTAGTGGAGTTGGTGGTGGAG
8226848 CGTGGCTAGTGGAGTTGGTGGTGG
1 CGTGGCTAGTGGAGTTGGTGGTGG
8226872 CAAAGGCTAG
Statistics
Matches: 49, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
26 24 0.49
30 25 0.51
ACGTcount: A:0.14, C:0.07, G:0.53, T:0.26
Consensus pattern (26 bp):
CGTGGCTAGTGGAGTTGGTGGTGGAG
Found at i:8231866 original size:101 final size:101
Alignment explanation
Indices: 8231691--8231885 Score: 266
Period size: 101 Copynumber: 1.9 Consensus size: 101
8231681 TGGATGTCAC
* * *
8231691 GACACCAATGCCTTTGCCATCAACCGAGGAGTTGGACTTCACCAAATTGCATATTTGAGTAGACT
1 GACACCAATGCCTTTGCCATCAACCAAGGAGTTGGACTTCACCAAATTGCATATCTAAGTAGACT
* **
8231756 AGCTCTGAAGTTGCCACACCAAGGTGTTGATGTCGT
66 AGATCTGAAGTCACCACACCAAGGTGTTGATGTCGT
* * *
8231792 GACACCAATGCCTTTGCCATCAATCAAGGAGTTGGACTTTACCAAATTGTATATCTAAGT-GAAC
1 GACACCAATGCCTTTGCCATCAACCAAGGAGTTGGACTTCACCAAATTGCATATCTAAGTAG-AC
* * *
8231856 TATATTTGAAGTCACCACACTAAGGTGTTG
65 TAGATCTGAAGTCACCACACCAAGGTGTTG
8231886 GTGCCGCGAC
Statistics
Matches: 81, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
100 1 0.01
101 80 0.99
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (101 bp):
GACACCAATGCCTTTGCCATCAACCAAGGAGTTGGACTTCACCAAATTGCATATCTAAGTAGACT
AGATCTGAAGTCACCACACCAAGGTGTTGATGTCGT
Found at i:8233454 original size:19 final size:19
Alignment explanation
Indices: 8233383--8233456 Score: 62
Period size: 19 Copynumber: 3.8 Consensus size: 19
8233373 TGTCACCCTA
*
8233383 TATTTTGAAAT-TAAAAAAA
1 TATTTT-AAATATAAAAAAT
* *
8233402 TATGTTAAATGTAAAAAAT
1 TATTTTAAATATAAAAAAT
**
8233421 GTGATTTTTTA-ATAAAAAAT
1 -T-ATTTTAAATATAAAAAAT
8233441 TATTTTAAATATAAAA
1 TATTTTAAATATAAAA
8233457 TGTGAAATTG
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
18 10 0.23
19 19 0.44
20 9 0.21
21 5 0.12
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.41
Consensus pattern (19 bp):
TATTTTAAATATAAAAAAT
Found at i:8236453 original size:14 final size:15
Alignment explanation
Indices: 8236410--8236445 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
8236400 TTGATTTCTT
*
8236410 TTAATTGTTATTTAA
1 TTAATTGTAATTTAA
8236425 TTAATTGTAATTTAA
1 TTAATTGTAATTTAA
8236440 -TAATTG
1 TTAATTG
8236446 AAGTTTAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (15 bp):
TTAATTGTAATTTAA
Found at i:8236595 original size:13 final size:13
Alignment explanation
Indices: 8236577--8236608 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
8236567 ATAAATTTAT
8236577 TTAAATTAATTAA
1 TTAAATTAATTAA
*
8236590 TTAAATTAATTGA
1 TTAAATTAATTAA
8236603 TTAAAT
1 TTAAAT
8236609 AAATAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (13 bp):
TTAAATTAATTAA
Found at i:8236657 original size:17 final size:18
Alignment explanation
Indices: 8236635--8236671 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
8236625 AATTGAAAAT
*
8236635 AATTATTAG-GTTGGATA
1 AATTATAAGTGTTGGATA
8236652 AATTATAAGTGTTGGATA
1 AATTATAAGTGTTGGATA
8236670 AA
1 AA
8236672 AATTTGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.38
Consensus pattern (18 bp):
AATTATAAGTGTTGGATA
Found at i:8253528 original size:15 final size:16
Alignment explanation
Indices: 8253508--8253538 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
8253498 TATTTTTATC
8253508 AAAATAA-TACAAAAA
1 AAAATAATTACAAAAA
8253523 AAAATAATTACAAAAA
1 AAAATAATTACAAAAA
8253539 TGAGATAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.16
Consensus pattern (16 bp):
AAAATAATTACAAAAA
Found at i:8253606 original size:23 final size:23
Alignment explanation
Indices: 8253579--8253623 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
8253569 TTTTTTACAA
8253579 TATTATTGGGTGCTGCCAATGTT
1 TATTATTGGGTGCTGCCAATGTT
8253602 TATTATTGGGTGCTGCCAATGT
1 TATTATTGGGTGCTGCCAATGT
8253624 GTCACACAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.18, C:0.13, G:0.27, T:0.42
Consensus pattern (23 bp):
TATTATTGGGTGCTGCCAATGTT
Found at i:8254232 original size:24 final size:24
Alignment explanation
Indices: 8254205--8254255 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
8254195 AGATTTAATG
8254205 TTTAAGATTATAT-TATTATATATA
1 TTTAAGATTATATGT-TTATATATA
***
8254229 TTTATTTTTATATGTTTATATATA
1 TTTAAGATTATATGTTTATATATA
8254253 TTT
1 TTT
8254256 TTAATAAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 22 0.96
25 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (24 bp):
TTTAAGATTATATGTTTATATATA
Found at i:8255730 original size:2 final size:2
Alignment explanation
Indices: 8255723--8255747 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8255713 GATGGATGTT
8255723 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
8255748 CCACTTGGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8259992 original size:16 final size:15
Alignment explanation
Indices: 8259973--8260007 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
8259963 TTTCTTTTTC
*
8259973 TATTTCTTTTATTACT
1 TATTTATTTTATTA-T
8259989 TATTTATTTTATTAT
1 TATTTATTTTATTAT
8260004 TATT
1 TATT
8260008 ATATAATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (15 bp):
TATTTATTTTATTAT
Found at i:8266224 original size:17 final size:16
Alignment explanation
Indices: 8266202--8266233 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
8266192 TAGCCCTTCC
8266202 TTATTAATATTATTATG
1 TTATTAAT-TTATTATG
8266219 TTATTAATTTATTAT
1 TTATTAATTTATTAT
8266234 TTAGCATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (16 bp):
TTATTAATTTATTATG
Found at i:8266417 original size:3 final size:3
Alignment explanation
Indices: 8266411--8266442 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
8266401 TTTATTATTA
*
8266411 TTG TTG TTG TTG TTA TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
8266443 TATTGATGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.03, C:0.00, G:0.28, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:8266428 original size:15 final size:15
Alignment explanation
Indices: 8266408--8266439 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
8266398 TTATTTATTA
8266408 TTATTGTTGTTGTTG
1 TTATTGTTGTTGTTG
8266423 TTATTGTTGTTGTTG
1 TTATTGTTGTTGTTG
8266438 TT
1 TT
8266440 GTTTATTGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.06, C:0.00, G:0.25, T:0.69
Consensus pattern (15 bp):
TTATTGTTGTTGTTG
Found at i:8266472 original size:12 final size:12
Alignment explanation
Indices: 8266451--8266492 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
8266441 TTTATTGATG
*
8266451 ATTATTATTTAT
1 ATTATCATTTAT
8266463 ATTATCATTTAT
1 ATTATCATTTAT
8266475 ATTATCA-TTATT
1 ATTATCATTTA-T
8266487 ATTATC
1 ATTATC
8266493 CATGCATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
11 3 0.11
12 25 0.89
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (12 bp):
ATTATCATTTAT
Found at i:8278088 original size:44 final size:44
Alignment explanation
Indices: 8277846--8278093 Score: 136
Period size: 44 Copynumber: 5.7 Consensus size: 44
8277836 AAAGCCACAG
* * * * * * * *
8277846 ATCTTATTTCCCTAAAGTTACAATGGAGTAGATTGAAGATAACAA
1 ATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCT-ATAA
** *
8277891 ATCTTATCT-CTCTGAAGTTGCAGTAAAGCAGATTAAAGCTATAA
1 ATCTTATCTCCT-TGAAGTTGCAGTGGAGCAGATTGAAGCTATAA
* * * * * *
8277935 ACCTTATCT-TTCTAAAGTTGCAGTAGAGCAGGTTGAAGTTATAA
1 ATCTTATCTCCT-TGAAGTTGCAGTGGAGCAGATTGAAGCTATAA
* * * * * *
8277979 GTCTTATCTCCCTGAAGTCT-TAGTGGAGTAGACTGAAGAC-AGCAA
1 ATCTTATCTCCTTGAAGT-TGCAGTGGAGCAGATTGAAG-CTA-TAA
* * * *
8278024 ATCTCATCTCCCTGAA-----AGTGGAGCAGATTGAAGTTGTAA
1 ATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTATAA
8278063 ATCTTATCTCCTTGAAGTTGCAGTGGAGCAG
1 ATCTTATCTCCTTGAAGTTGCAGTGGAGCAG
8278094 GTCGAAGATA
Statistics
Matches: 153, Mismatches: 39, Indels: 23
0.71 0.18 0.11
Matches are distributed among these distances:
39 16 0.10
40 15 0.10
44 77 0.50
45 45 0.29
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.31
Consensus pattern (44 bp):
ATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTATAA
Found at i:8278478 original size:44 final size:44
Alignment explanation
Indices: 8278369--8278500 Score: 140
Period size: 44 Copynumber: 3.0 Consensus size: 44
8278359 ACAAGTTGCG
* * * * *
8278369 AACCTTATCTCCCTGAAGTTGTAGTGGAACAGACTGAAGATAGCA
1 AACCTTATCTTCTTGAAGTTGTAGTGGAGCAGATTGAAGCTA-CA
* * *
8278414 AATCTTATC-TCTCTGAAGTTGTAGTAGAGCAGATTAAAGCTACA
1 AACCTTATCTTCT-TGAAGTTGTAGTGGAGCAGATTGAAGCTACA
* * *
8278458 AACCTTATCTTCTTAAAGTTGTAATGGAGCATATTGAAGCTAC
1 AACCTTATCTTCTTGAAGTTGTAGTGGAGCAGATTGAAGCTAC
8278501 TTGAAGAGAA
Statistics
Matches: 71, Mismatches: 14, Indels: 5
0.79 0.16 0.06
Matches are distributed among these distances:
44 36 0.51
45 35 0.49
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.30
Consensus pattern (44 bp):
AACCTTATCTTCTTGAAGTTGTAGTGGAGCAGATTGAAGCTACA
Found at i:8279842 original size:8 final size:7
Alignment explanation
Indices: 8279829--8279886 Score: 50
Period size: 8 Copynumber: 8.3 Consensus size: 7
8279819 CTTATTAATA
8279829 TTATTAT
1 TTATTAT
8279836 GTTATTAAT
1 -TTATT-AT
8279845 TTATTAT
1 TTATTAT
**
8279852 TTAGCAT
1 TTATTAT
8279859 TTATTTAT
1 TTA-TTAT
8279867 TTATT-T
1 TTATTAT
8279873 TT-TTAT
1 TTATTAT
8279879 TT-TTAT
1 TTATTAT
8279885 TT
1 TT
8279887 TTTTATTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
5 2 0.05
6 12 0.28
7 12 0.28
8 15 0.35
9 2 0.05
ACGTcount: A:0.24, C:0.02, G:0.03, T:0.71
Consensus pattern (7 bp):
TTATTAT
Found at i:8279842 original size:17 final size:16
Alignment explanation
Indices: 8279820--8279851 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
8279810 TAGCCCTTCC
8279820 TTATTAATATTATTATG
1 TTATTAAT-TTATTATG
8279837 TTATTAATTTATTAT
1 TTATTAATTTATTAT
8279852 TTAGCATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (16 bp):
TTATTAATTTATTATG
Found at i:8279885 original size:14 final size:14
Alignment explanation
Indices: 8279866--8279896 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
8279856 CATTTATTTA
8279866 TTTATTTTTTTATT
1 TTTATTTTTTTATT
8279880 TTTATTTTTTTATT
1 TTTATTTTTTTATT
8279894 TTT
1 TTT
8279897 CACTACAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (14 bp):
TTTATTTTTTTATT
Found at i:8279889 original size:8 final size:8
Alignment explanation
Indices: 8279858--8279896 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
8279848 TTATTTAGCA
*
8279858 TTTATTTA
1 TTTATTTT
8279866 TTTATTTT
1 TTTATTTT
8279874 TTTA--TT
1 TTTATTTT
8279880 TTTATTTT
1 TTTATTTT
8279888 TTTATTTT
1 TTTATTTT
8279896 T
1 T
8279897 CACTACAACA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
6 6 0.21
8 22 0.79
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (8 bp):
TTTATTTT
Found at i:8280288 original size:36 final size:36
Alignment explanation
Indices: 8280112--8280780 Score: 371
Period size: 35 Copynumber: 18.3 Consensus size: 36
8280102 ATCAATAACG
* * *
8280112 ACCTTGAAAAGGGTTGGGATAGACCTAGTC-AAGACCA
1 ACCTT-AAAAAGGTTGGGATAGACCTTGTCTAAG-GCA
** * * * * * *
8280149 ACCTTTTCAAATGTTGTGAGAAACCTTG-CTACGGTA
1 ACC-TTAAAAAGGTTGGGATAGACCTTGTCTAAGGCA
* ** **
8280185 ACATTAAAAAGGTTGCTATAGTTCTTGTCTAAGGCA
1 ACCTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCA
* *
8280221 ACTTTTAAAAACTGTTGGGATAGATCC--GTCTAAGGCA
1 AC-CTTAAAAA-GGTTGGGATAGA-CCTTGTCTAAGGCA
* *
8280258 ACCTTAAAAAGGTTGGCATAGACCTTGTCTAAGACA
1 ACCTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCA
*
8280294 ACTTATAAAAAAAGGTTGGGATAGAGCC--GTCTAAGGCA
1 ACCT-T--AAAAAGGTTGGGATAGA-CCTTGTCTAAGGCA
*
8280332 ACCTTAAAAAGGTTGGGATAGACCTTGTCTAAGACA
1 ACCTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCA
* *
8280368 ACTTTTAAAAAAAAAGGTTGGGATAGACC-TATCTAAGGCA
1 AC-CTT----AAAAAGGTTGGGATAGACCTTGTCTAAGGCA
* *
8280408 ACCTTAAATAGGTTGGGATAGACCATGTCTAAGGCA
1 ACCTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCA
** **
8280444 ACCTTTAAAAAATATTGGGATAGACC-CATCTAAGGCA
1 ACC-TT-AAAAAGGTTGGGATAGACCTTGTCTAAGGCA
* * * *
8280481 ACATTAAAATGGTTGGGATGGACCTTGTCTAAGGAA
1 ACCTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCA
* * * * *
8280517 ACTTTTAAAAAAGGTTGGCATAGGTCCAT-T-TAAAGCA
1 AC-CTT-AAAAAGGTTGGGATA-GACCTTGTCTAAGGCA
** * ** * *
8280554 ACCTTGGAAAGGTTGGGATAAATATTGTCTAATGAA
1 ACCTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCA
* * ** *
8280590 ACCTTTAAAAAAGGTTGCGATAAACC-CATCTAAGGTA
1 ACC-TT-AAAAAGGTTGGGATAGACCTTGTCTAAGGCA
* * * *
8280627 ACCTTAAAAAGGTTGAGATAAATCTCGTCTAAGGCA
1 ACCTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCA
* * * * *
8280663 ACTTTTAGAAAAGGTTGGTATTGACC-TATCTAAGACA
1 AC-CTTA-AAAAGGTTGGGATAGACCTTGTCTAAGGCA
* **
8280700 ACGTTAAAAATTTTGGGATAGACCTAT-T-TACA-GCA
1 ACCTTAAAAAGGTTGGGATAGACCT-TGTCTA-AGGCA
* * * * *
8280735 ACATTAAAAAAGGTTAGGATAGACCTTTTCTAATGTA
1 ACCTT-AAAAAGGTTGGGATAGACCTTGTCTAAGGCA
8280772 A-CTTAAAAA
1 ACCTTAAAAA
8280781 AAGTTGGGTT
Statistics
Matches: 482, Mismatches: 110, Indels: 82
0.72 0.16 0.12
Matches are distributed among these distances:
34 5 0.01
35 133 0.28
36 116 0.24
37 95 0.20
38 78 0.16
39 23 0.05
40 13 0.03
41 19 0.04
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (36 bp):
ACCTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCA
Found at i:8280528 original size:73 final size:73
Alignment explanation
Indices: 8280188--8280724 Score: 547
Period size: 73 Copynumber: 7.3 Consensus size: 73
8280178 TACGGTAACA
** ** * ** * *
8280188 TTAAAAAGGTTGCTATAGTTCTTGTCTAAGGCAACTTTTAAAAACTGTTGGGATAGATCCGTCTA
1 TTAAAAAGGTTGGGATAGACCTTGTCTAAGGAAACTTTTAAAAAAGGTTGGGATAGACCCATCTA
8280253 AGGCAACC
66 AGGCAACC
* * * *
8280261 TTAAAAAGGTTGGCATAGACCTTGTCTAA-GACAACTTATAAAAAAAGGTTGGGATAGAGCCGTC
1 TTAAAAAGGTTGGGATAGACCTTGTCTAAGGA-AACTT-TTAAAAAAGGTTGGGATAGACCCATC
8280325 TAAGGCAACC
64 TAAGGCAACC
*
8280335 TTAAAAAGGTTGGGATAGACCTTGTCTAA-GACAACTTTTAAAAAAAAAGGTTGGGATAGACCTA
1 TTAAAAAGGTTGGGATAGACCTTGTCTAAGGA-AACTTTT---AAAAAAGGTTGGGATAGACCCA
8280399 TCTAAGGCAACC
62 TCTAAGGCAACC
* * * * **
8280411 TTAAATAGGTTGGGATAGACCATGTCTAAGGCAACCTTTAAAAAATATTGGGATAGACCCATCTA
1 TTAAAAAGGTTGGGATAGACCTTGTCTAAGGAAACTTTTAAAAAAGGTTGGGATAGACCCATCTA
*
8280476 AGGCAACA
66 AGGCAACC
* * * ** *
8280484 TTAAAATGGTTGGGATGGACCTTGTCTAAGGAAACTTTTAAAAAAGGTTGGCATAGGTCCATTTA
1 TTAAAAAGGTTGGGATAGACCTTGTCTAAGGAAACTTTTAAAAAAGGTTGGGATAGACCCATCTA
*
8280549 AAGCAACC
66 AGGCAACC
** * ** * * * *
8280557 TTGGAAAGGTTGGGATAAATATTGTCTAATGAAACCTTTAAAAAAGGTTGCGATAAACCCATCTA
1 TTAAAAAGGTTGGGATAGACCTTGTCTAAGGAAACTTTTAAAAAAGGTTGGGATAGACCCATCTA
*
8280622 AGGTAACC
66 AGGCAACC
* * * * * * * * *
8280630 TTAAAAAGGTTGAGATAAATCTCGTCTAAGGCAACTTTTAGAAAAGGTTGGTATTGACCTATCTA
1 TTAAAAAGGTTGGGATAGACCTTGTCTAAGGAAACTTTTAAAAAAGGTTGGGATAGACCCATCTA
* *
8280695 AGACAACG
66 AGGCAACC
**
8280703 TTAAAAATTTTGGGATAGACCT
1 TTAAAAAGGTTGGGATAGACCT
8280725 ATTTACAGCA
Statistics
Matches: 383, Mismatches: 75, Indels: 12
0.81 0.16 0.03
Matches are distributed among these distances:
72 1 0.00
73 249 0.65
74 68 0.18
76 64 0.17
77 1 0.00
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (73 bp):
TTAAAAAGGTTGGGATAGACCTTGTCTAAGGAAACTTTTAAAAAAGGTTGGGATAGACCCATCTA
AGGCAACC
Found at i:8281142 original size:45 final size:45
Alignment explanation
Indices: 8281078--8281164 Score: 129
Period size: 45 Copynumber: 1.9 Consensus size: 45
8281068 AACACGTTGC
* *
8281078 AAACATGTTGTCAACTTGATTCCCATGATATCAAAAAATTATACA
1 AAACATGTTGTCAACTTGATTCCCATGACACCAAAAAATTATACA
* * *
8281123 AAACATTTTGTCGACTTGATTCGCATGACACCAAAAAATTAT
1 AAACATGTTGTCAACTTGATTCCCATGACACCAAAAAATTAT
8281165 GAGACAACTA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.31
Consensus pattern (45 bp):
AAACATGTTGTCAACTTGATTCCCATGACACCAAAAAATTATACA
Found at i:8284450 original size:18 final size:18
Alignment explanation
Indices: 8284427--8284469 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
8284417 ACTCATAATT
*
8284427 AGAGAAAGAACAAGTACC
1 AGAGAAAGAACAAATACC
*
8284445 AGAGAAAGAATAAATACC
1 AGAGAAAGAACAAATACC
8284463 AGCAGAA
1 AG-AGAA
8284470 GGTAATAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.58, C:0.14, G:0.21, T:0.07
Consensus pattern (18 bp):
AGAGAAAGAACAAATACC
Found at i:8293661 original size:14 final size:15
Alignment explanation
Indices: 8293642--8293697 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 15
8293632 TCTTAGATGT
8293642 GATATG-CAATCTTA
1 GATATGACAATCTTA
8293656 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
8293673 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
8293691 GATATGA
1 GATATGA
8293698 TATGCAATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.17
15 1 0.03
17 14 0.39
18 15 0.42
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:8293691 original size:35 final size:37
Alignment explanation
Indices: 8293621--8293733 Score: 149
Period size: 35 Copynumber: 3.0 Consensus size: 37
8293611 ATAATCTTCA
*
8293621 ATGATATGCAATCTTAGATGTGATATGCAATCTTAGAT
1 ATGATA-GCAATCTTAGATATGATATGCAATCTTAGAT
8293659 ATGATA-CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
*
8293694 ATGATATGCAATCTTAGAAGATATGATATGAAATCTTAGA
1 ATGATA-GCAATCTT---AGATATGATATGCAATCTTAGA
8293734 AGATATGATT
Statistics
Matches: 67, Mismatches: 2, Indels: 9
0.86 0.03 0.12
Matches are distributed among these distances:
35 19 0.28
36 15 0.22
37 7 0.10
38 6 0.09
40 9 0.13
41 11 0.16
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
Found at i:8293718 original size:22 final size:19
Alignment explanation
Indices: 8293621--8293733 Score: 160
Period size: 19 Copynumber: 5.9 Consensus size: 19
8293611 ATAATCTTCA
8293621 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
8293640 GTGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
8293659 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
8293676 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
8293694 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTT---AGAT
*
8293716 ATGATATGAAATCTTAGA
1 ATGATATGCAATCTTAGA
8293734 AGATATGATT
Statistics
Matches: 85, Mismatches: 3, Indels: 12
0.85 0.03 0.12
Matches are distributed among these distances:
17 16 0.19
18 16 0.19
19 35 0.41
22 18 0.21
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:8293734 original size:22 final size:22
Alignment explanation
Indices: 8293690--8293756 Score: 98
Period size: 22 Copynumber: 3.0 Consensus size: 22
8293680 TTGCAATCTT
*
8293690 AGATATGATATGCAATCTTAGA
1 AGATATGATATGAAATCTTAGA
8293712 AGATATGATATGAAATCTTAGA
1 AGATATGATATGAAATCTTAGA
* *
8293734 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGAAATCTTAGA
8293757 CATTTAATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
22 29 0.71
23 12 0.29
ACGTcount: A:0.40, C:0.06, G:0.18, T:0.36
Consensus pattern (22 bp):
AGATATGATATGAAATCTTAGA
Found at i:8298946 original size:17 final size:16
Alignment explanation
Indices: 8298920--8298957 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
8298910 CTTCTATTTC
*
8298920 AAAAAAAAAAGAGAAA
1 AAAAAAAAAAAAGAAA
8298936 AAAATAAAAAAAAGAAA
1 AAAA-AAAAAAAAGAAA
8298953 AAAAA
1 AAAAA
8298958 TAGAGAGGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.89, C:0.00, G:0.08, T:0.03
Consensus pattern (16 bp):
AAAAAAAAAAAAGAAA
Found at i:8298957 original size:9 final size:9
Alignment explanation
Indices: 8298922--8298957 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
8298912 TCTATTTCAA
8298922 AAAAAAAAG
1 AAAAAAAAG
*
8298931 AGAAAAAAAT
1 A-AAAAAAAG
8298941 AAAAAAAAG
1 AAAAAAAAG
8298950 AAAAAAAA
1 AAAAAAAA
8298958 TAGAGAGGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 16 0.67
10 8 0.33
ACGTcount: A:0.89, C:0.00, G:0.08, T:0.03
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:8298957 original size:18 final size:19
Alignment explanation
Indices: 8298922--8298959 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
8298912 TCTATTTCAA
8298922 AAAAAAAAGAGAAAAAAAT
1 AAAAAAAAGAGAAAAAAAT
8298941 AAAAAAAAGA-AAAAAAAT
1 AAAAAAAAGAGAAAAAAAT
8298959 A
1 A
8298960 GAGAGGCCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.87, C:0.00, G:0.08, T:0.05
Consensus pattern (19 bp):
AAAAAAAAGAGAAAAAAAT
Found at i:8299957 original size:40 final size:41
Alignment explanation
Indices: 8299904--8300308 Score: 146
Period size: 44 Copynumber: 9.3 Consensus size: 41
8299894 TTTACCCTGA
* * *
8299904 AGCAGATCCAAGAT-GATTTGGCGTCTTTGTATTGTCAGGG
1 AGCAGATCGAAGATAGATTTGGCGTCTCTGTATTGGCAGGG
*
8299944 AGCAAATCGAAGATACCAGATTTGGCGTCTCTGTATTGGCAGGG
1 AGCAGATCGAAGAT---AGATTTGGCGTCTCTGTATTGGCAGGG
* * * ** *
8299988 AGCAGATCGAAGACATAGTTGATTTGGCTTTCACATGT-TTATG-TTGA
1 AGCAGATCGAAG--ATA---GATTTGGC-GTCTC-TGTATT-GGCAGGG
* * * * * *
8300035 AGAAAATCTAAGAT-GATTTAGCGTCTCTGTATTGGTAGAG
1 AGCAGATCGAAGATAGATTTGGCGTCTCTGTATTGGCAGGG
*
8300075 AGCAGATCGAAGATGACTGATTTGGCATCTCTGTATTCGGC-GGAG
1 AGCAGATCGAAGAT-A--GATTTGGCGTCTCTGTATT-GGCAGG-G
* * * *
8300120 AGCAGATCGAAGACATAGCTGATTTGGCTTTCATATGT-TT-AC-GTTGA
1 AGCAGATCGAAG--ATA---GATTTGGC-GTC-TCTGTATTGGCAG--GG
* * * * *
8300167 AGCAAATCTAAGAT-GATTTGGCATCTCTATATTGGCAGAG
1 AGCAGATCGAAGATAGATTTGGCGTCTCTGTATTGGCAGGG
* * * *
8300207 AGCAGATCGAGGATAACAAATTTGGCATCTCTGTATTGGCAGAG
1 AGCAGATCGAAGAT---AGATTTGGCGTCTCTGTATTGGCAGGG
* * *
8300251 AGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTCGG-TGGAG
1 AGCAGATCGAAGAT---AGATTTGGCGTCTCTGTATT-GGCAGG-G
8300296 AGCAGATCGAAGA
1 AGCAGATCGAAGA
8300309 CATAGCTGAT
Statistics
Matches: 276, Mismatches: 53, Indels: 67
0.70 0.13 0.17
Matches are distributed among these distances:
39 7 0.03
40 43 0.16
41 16 0.06
42 1 0.00
43 1 0.00
44 111 0.40
45 34 0.12
46 13 0.05
47 37 0.13
48 9 0.03
49 4 0.01
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (41 bp):
AGCAGATCGAAGATAGATTTGGCGTCTCTGTATTGGCAGGG
Found at i:8300111 original size:44 final size:45
Alignment explanation
Indices: 8300048--8300484 Score: 270
Period size: 44 Copynumber: 9.9 Consensus size: 45
8300038 AAATCTAAGA
* *
8300048 TGATTTAGCGTCTCTGTATT-GGTAGAGAGCAGATCGAAGATGAC
1 TGATTTGGCATCTCTGTATTCGGTAGAGAGCAGATCGAAGATGAC
**
8300092 TGATTTGGCATCTCTGTATTCGGCGGAGAGCAGATCGAAGACAT-AGC
1 TGATTTGGCATCTCTGTATTCGGTAGAGAGCAGATCGAAG--ATGA-C
* * * * *
8300139 TGATTTGGCTTTCATATGT-TTAC-GTTGA-AGCAAATC-TA-A-GA-
1 TGATTTGGC-ATC-TCTGTATT-CGGTAGAGAGCAGATCGAAGATGAC
* * * *
8300180 TGATTTGGCATCTCTATATT-GGCAGAGAGCAGATCGAGGATAAC
1 TGATTTGGCATCTCTGTATTCGGTAGAGAGCAGATCGAAGATGAC
** * *
8300224 AAATTTGGCATCTCTGTATT-GGCAGAGAGCAGATCAAAGATGAC
1 TGATTTGGCATCTCTGTATTCGGTAGAGAGCAGATCGAAGATGAC
* *
8300268 AGATTTGGCATCTCTGTATTCGGTGGAGAGCAGATCGAAGACAT-AGC
1 TGATTTGGCATCTCTGTATTCGGTAGAGAGCAGATCGAAG--ATGA-C
* * ** * *
8300315 TGATTTGGCTTCCACGTGT-TTATGTTGA-AGCA-AGTC-TA-A-GA-
1 TGATTTGGCAT-CTC-TGTATTCGGTAGAGAGCAGA-TCGAAGATGAC
* * *
8300356 TGATTTGGCATCTCTATATT-GGCAGAGAGTAGATCGAAGAT-AGC
1 TGATTTGGCATCTCTGTATTCGGTAGAGAGCAGATCGAAGATGA-C
* * * * *
8300400 AGATTTGACATCTTTGTATT-GGTAGAGAGCAGATCAAACATGAC
1 TGATTTGGCATCTCTGTATTCGGTAGAGAGCAGATCGAAGATGAC
* ** *
8300444 AGATTTGGCATCTCCATATTCGATAGAGAGCAGATCGAAGA
1 TGATTTGGCATCTCTGTATTCGGTAGAGAGCAGATCGAAGA
8300485 CATAGCAGAT
Statistics
Matches: 301, Mismatches: 59, Indels: 65
0.71 0.14 0.15
Matches are distributed among these distances:
39 11 0.04
40 20 0.07
41 21 0.07
42 3 0.01
43 5 0.02
44 125 0.42
45 51 0.17
46 5 0.02
47 37 0.12
48 15 0.05
49 8 0.03
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (45 bp):
TGATTTGGCATCTCTGTATTCGGTAGAGAGCAGATCGAAGATGAC
Found at i:8300177 original size:132 final size:130
Alignment explanation
Indices: 8299901--8300263 Score: 487
Period size: 132 Copynumber: 2.8 Consensus size: 130
8299891 GTATTTACCC
* * * * *
8299901 TGAAGCAGATCCAAGATGATTTGGCGTCTTTGTATT-GTCAGGGAGCAAATCGAAGATACCAGAT
1 TGAAGCAAATCTAAGATGATTTGGCGTCTCTGTATTGGT-AGAGAGCAGATCGAAGATA-CAGAT
* *
8299965 TTGGCGTCTCTGTATTGGCAGG-GAGCAGATCGAAGACATAGTTGATTTGGCTTTCACATGTTTA
64 TTGGCATCTCTGTATTGGC-GGAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACATGTTTA
*
8300029 TGT
128 CGT
* * *
8300032 TGAAGAAAATCTAAGATGATTTAGCGTCTCTGTATTGGTAGAGAGCAGATCGAAGATGACTGATT
1 TGAAGCAAATCTAAGATGATTTGGCGTCTCTGTATTGGTAGAGAGCAGATCGAAGAT-ACAGATT
*
8300097 TGGCATCTCTGTATTCGGCGGAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCATATGTTTAC
65 TGGCATCTCTGTATT-GGCGGAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACATGTTTAC
8300162 GT
129 GT
* * * * *
8300164 TGAAGCAAATCTAAGATGATTTGGCATCTCTATATTGGCAGAGAGCAGATCGAGGATAACAAATT
1 TGAAGCAAATCTAAGATGATTTGGCGTCTCTGTATTGGTAGAGAGCAGATCGAAGAT-ACAGATT
* *
8300229 TGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGA
65 TGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGA
8300264 TGACAGATTT
Statistics
Matches: 205, Mismatches: 23, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
131 86 0.42
132 119 0.58
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.29
Consensus pattern (130 bp):
TGAAGCAAATCTAAGATGATTTGGCGTCTCTGTATTGGTAGAGAGCAGATCGAAGATACAGATTT
GGCATCTCTGTATTGGCGGAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACATGTTTACGT
Found at i:8300240 original size:176 final size:176
Alignment explanation
Indices: 8300058--8300490 Score: 686
Period size: 176 Copynumber: 2.5 Consensus size: 176
8300048 TGATTTAGCG
* * *
8300058 TCTCTGTATTGGTAGAGAGCAGATCGAAGATGACTGATTTGGCATCTCTGTATTCGGCGGAGAGC
1 TCTCTGTATTGGTAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTCGGTGGAGAGC
* *
8300123 AGATCGAAGACATAGCTGATTTGGCTTTCATATGTTTACGTTGAAGCAAATCTAAGATGATTTGG
66 AGATCGAAGACATAGCTGATTTGGCTTCCACATGTTTACGTTGAAGCAAATCTAAGATGATTTGG
* *
8300188 CATCTCTATATTGGCAGAGAGCAGATCGAGGATAACAAATTTGGCA
131 CATCTCTATATTGGCAGAGAGCAGATCGAAGATAACAAATTTGACA
*
8300234 TCTCTGTATTGGCAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTCGGTGGAGAGC
1 TCTCTGTATTGGTAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTCGGTGGAGAGC
* * *
8300299 AGATCGAAGACATAGCTGATTTGGCTTCCACGTGTTTATGTTGAAGCAAGTCTAAGATGATTTGG
66 AGATCGAAGACATAGCTGATTTGGCTTCCACATGTTTACGTTGAAGCAAATCTAAGATGATTTGG
* * *
8300364 CATCTCTATATTGGCAGAGAGTAGATCGAAGATAGCAGATTTGACA
131 CATCTCTATATTGGCAGAGAGCAGATCGAAGATAACAAATTTGACA
* * ** * *
8300410 TCTTTGTATTGGTAGAGAGCAGATCAAACATGACAGATTTGGCATCTCCATATTCGATAGAGAGC
1 TCTCTGTATTGGTAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTCGGTGGAGAGC
8300475 AGATCGAAGACATAGC
66 AGATCGAAGACATAGC
8300491 AGATCTAACC
Statistics
Matches: 236, Mismatches: 21, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
176 236 1.00
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.29
Consensus pattern (176 bp):
TCTCTGTATTGGTAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTCGGTGGAGAGC
AGATCGAAGACATAGCTGATTTGGCTTCCACATGTTTACGTTGAAGCAAATCTAAGATGATTTGG
CATCTCTATATTGGCAGAGAGCAGATCGAAGATAACAAATTTGACA
Found at i:8300600 original size:89 final size:87
Alignment explanation
Indices: 8300471--8300632 Score: 209
Period size: 89 Copynumber: 1.8 Consensus size: 87
8300461 ATTCGATAGA
* *
8300471 GAGCAGATCGAAGACATAGCAGATCTAACCTTCGAATGTTTTCACATCGAAGTAGATCCAAGATG
1 GAGCAGATCGAAGACATAGCAGATCTAACCTTCGAATGTTTACAC-T-GAAGCAGATCCAAGATG
8300536 ATTTGGCATCCTTGCGTTTACAAG
64 ATTTGGCATCCTTGCGTTTACAAG
* ** * * * *
8300560 GAGCAGATCGAAGACATAGCAGATTTGGCTTTC-ACGTGTTTACGCTGAAGCAGATCTAAGATGA
1 GAGCAGATCGAAGACATAGCAGATCTAACCTTCGA-ATGTTTACACTGAAGCAGATCCAAGATGA
8300624 TTTGGCATC
65 TTTGGCATC
8300633 TCTGTACTGT
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
87 25 0.40
88 2 0.03
89 36 0.57
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.27
Consensus pattern (87 bp):
GAGCAGATCGAAGACATAGCAGATCTAACCTTCGAATGTTTACACTGAAGCAGATCCAAGATGAT
TTGGCATCCTTGCGTTTACAAG
Found at i:8300819 original size:121 final size:121
Alignment explanation
Indices: 8300605--8300967 Score: 717
Period size: 121 Copynumber: 3.0 Consensus size: 121
8300595 GTGTTTACGC
*
8300605 TGAAGCAGATCTAAGATGATTTGGCATCTCTGTACTGTCAGAGAACAAATCGAAGAAACAGATTT
1 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTACTGTCAGAGAACAAATCGAAGAAACAGATTT
8300670 GGCATCTCCATATTCGATGGAAAGCATATCGAAGACATAGCAGATCTGACCTTCAT
66 GGCATCTCCATATTCGATGGAAAGCATATCGAAGACATAGCAGATCTGACCTTCAT
8300726 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTACTGTCAGAGAACAAATCGAAGAAACAGATTT
1 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTACTGTCAGAGAACAAATCGAAGAAACAGATTT
8300791 GGCATCTCCATATTCGATGGAAAGCATATCGAAGACATAGCAGATCTGACCTTCAT
66 GGCATCTCCATATTCGATGGAAAGCATATCGAAGACATAGCAGATCTGACCTTCAT
8300847 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTACTGTCAGAGAACAAATCGAAGAAACAGATTT
1 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTACTGTCAGAGAACAAATCGAAGAAACAGATTT
8300912 GGCATCTCCATATTCGATGGAAAGCATATCGAAGACATAGCAGATCTGACCTTCAT
66 GGCATCTCCATATTCGATGGAAAGCATATCGAAGACATAGCAGATCTGACCTTCAT
8300968 GTGTTTACAT
Statistics
Matches: 241, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
121 241 1.00
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.25
Consensus pattern (121 bp):
TGAAGCAGATCCAAGATGATTTGGCATCTCTGTACTGTCAGAGAACAAATCGAAGAAACAGATTT
GGCATCTCCATATTCGATGGAAAGCATATCGAAGACATAGCAGATCTGACCTTCAT
Found at i:8301102 original size:44 final size:45
Alignment explanation
Indices: 8300981--8301180 Score: 222
Period size: 45 Copynumber: 4.5 Consensus size: 45
8300971 TTTACATCGA
* * * * *
8300981 AGCAAATCCAAGATGACAGATTTGGCATCTCTATATTAGACGGGG
1 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACGGGG
* * * * * * *
8301026 AGCAAATCGGATATAACAGATTTGACATCTCTGTATTATACGGGA
1 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACGGGG
* **
8301071 AGCAGATTGAAGA-AGTAGATTTGGCGTCTCTGTATTAGACGGGG
1 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACGGGG
* *
8301115 AGCAGATCGAAGATAACAAATTTGGCGTCTATGTATTAGACGGGG
1 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACGGGG
* *
8301160 AGCAGATCAAAGATAGCAGAT
1 AGCAGATCGAAGATAACAGAT
8301181 ATTGCCTTCC
Statistics
Matches: 128, Mismatches: 26, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
44 37 0.29
45 91 0.71
ACGTcount: A:0.34, C:0.14, G:0.27, T:0.25
Consensus pattern (45 bp):
AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACGGGG
Found at i:8301107 original size:89 final size:89
Alignment explanation
Indices: 8300998--8301166 Score: 239
Period size: 89 Copynumber: 1.9 Consensus size: 89
8300988 CCAAGATGAC
* * * *
8300998 AGATTTGGCATCTCTATATTAGACGGGGAGCAAATCGGATATAACAGATTTGACATCTCTGTATT
1 AGATTTGGCATCTCTATATTAGACGGGGAGCAAATCGAAGATAACAAATTTGACATCTATGTATT
*
8301063 ATACGGGAAGCAGATTGAAGAAGT
66 AGACGGGAAGCAGATTGAAGAAGT
* * * * *
8301087 AGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACAAATTTGGCGTCTATGTATT
1 AGATTTGGCATCTCTATATTAGACGGGGAGCAAATCGAAGATAACAAATTTGACATCTATGTATT
*
8301152 AGACGGGGAGCAGAT
66 AGACGGGAAGCAGAT
8301167 CAAAGATAGC
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
89 69 1.00
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.27
Consensus pattern (89 bp):
AGATTTGGCATCTCTATATTAGACGGGGAGCAAATCGAAGATAACAAATTTGACATCTATGTATT
AGACGGGAAGCAGATTGAAGAAGT
Found at i:8301556 original size:19 final size:19
Alignment explanation
Indices: 8301531--8301603 Score: 114
Period size: 19 Copynumber: 3.9 Consensus size: 19
8301521 ATAATCTTCA
8301531 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
8301550 GTGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
8301569 ATCATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
8301586 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
8301604 AGATATGATT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
17 16 0.33
19 32 0.67
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:8301629 original size:22 final size:22
Alignment explanation
Indices: 8301531--8301629 Score: 60
Period size: 19 Copynumber: 5.0 Consensus size: 22
8301521 ATAATCTTCA
8301531 ATGATATGCAATC-T--TAGAT
1 ATGATATGCAATCTTAGTAGAT
*
8301550 GTGATATGCAATC-T--TAGAT
1 ATGATATGCAATCTTAGTAGAT
*
8301569 ATCATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGTAGAT
*
8301586 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGTAGAT
* *
8301608 ATGATTTTGTAATCTTA-TAGAT
1 ATGA-TATGCAATCTTAGTAGAT
8301630 TTAATTTGTA
Statistics
Matches: 66, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
17 14 0.21
18 1 0.02
19 29 0.44
22 12 0.18
23 10 0.15
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGTAGAT
Found at i:8304501 original size:21 final size:21
Alignment explanation
Indices: 8304476--8304523 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
8304466 ACCCTAACTG
*
8304476 AACCCCACAACC-TAAATCCTA
1 AACCCCA-AACCATAAACCCTA
* *
8304497 AACCCTAAACCATACACCCTA
1 AACCCCAAACCATAAACCCTA
8304518 AACCCC
1 AACCCC
8304524 TTATATATGC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.42, C:0.46, G:0.00, T:0.12
Consensus pattern (21 bp):
AACCCCAAACCATAAACCCTA
Found at i:8304958 original size:141 final size:140
Alignment explanation
Indices: 8304641--8305468 Score: 930
Period size: 141 Copynumber: 5.9 Consensus size: 140
8304631 AGTGTTGGAT
* * ** * *
8304641 AAAGCCGACTCTTATTTAAGTTTTGCCTTAAGCATACATATCCCAACCCTTATACAAAAAGTTGA
1 AAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTG-
* * * * * * *
8304706 CC-AAAGCGT-ATGTCAGAAAGTCTATCCCAACACTTAGGAATA-TAT----A-TATA-TATCGT
65 CCTAAAGCGTAAT-T-GGCATGTCTATCCCAACACTTAAGAA-AGTGTCGCCACAATAGTGTCGT
**
8304762 CTTAGGACTGGAC-
127 CTTAGGACTACACA
* * * * * *
8304775 AAATCCAACTATTATTTAAGCGTTGACTTAGGTATACATATTCCAACCCTTATACAAAGAGTTAG
1 AAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTT-G
* * *
8304840 -CTAAAACATAAGTTGGCAAGTCTATCCCAACACTTAAGAAAGTGTCGCCACAATAGTGTCGTCT
65 CCTAAAGCGTAA-TTGGCATGTCTATCCCAACACTTAAGAAAGTGTCGCCACAATAGTGTCGTCT
8304904 TAGGACTACACA
129 TAGGACTACACA
*
8304916 AAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATACATATTCCAACCCTTATACAAAGAGTTGC
1 AAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGC
*
8304981 CTAAAGCGTATATTGGCATGTATATCCCAACACTTAAGAAAGTGTCGCCACAATAGTGTCGTCTT
66 CTAAAGCGTA-ATTGGCATGTCTATCCCAACACTTAAGAAAGTGTCGCCACAATAGTGTCGTCTT
8305046 AGGACTACACA
130 AGGACTACACA
8305057 AAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGC
1 AAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGC
* *
8305122 CTAAAGCGTATATTGGCATGTCTATCCCAACACATAAGAAAGTGTCGCCAAAATAGTGTCGTCTT
66 CTAAAGCGTA-ATTGGCATGTCTATCCCAACACTTAAGAAAGTGTCGCCACAATAGTGTCGTCTT
8305187 AGGACTACACA
130 AGGACTACACA
* *
8305198 AAAACCAACTCTTATTCAAGCGTTGCTTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGC
1 AAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGC
* * * * * * * *
8305263 CGAAAGCATATCTTGGCATGTCTATCGCAACATTTAAAAAAGCGTCGCCATAATAGTGTCGTCTT
66 CTAAAGCGTA-ATTGGCATGTCTATCCCAACACTTAAGAAAGTGTCGCCACAATAGTGTCGTCTT
* *
8305328 AGGGCTAGAC-
130 AGGACTACACA
* * * * * * * * * *
8305338 AACGTCAACTCTTATTTAAGCGTTGCTTTAAGCATGCATATCCCAACTCTTATACAAAAAATTGG
1 AAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGC
* * * * * * *
8305403 C-GAAGCGTATGTTGGCCA-GTCTATTCCAACACTTAAGAAAATGTTGCCCCACA-AGTGTCGTA
66 CTAAAGCGTA-ATTGG-CATGTCTATCCCAACACTTAAGAAAGTGTCGCCACA-ATAGTGTCGTC
8305465 TTAG
128 TTAG
8305469 CACTGTTTTG
Statistics
Matches: 609, Mismatches: 69, Indels: 27
0.86 0.10 0.04
Matches are distributed among these distances:
133 2 0.00
134 83 0.14
135 3 0.00
136 1 0.00
138 1 0.00
139 50 0.08
140 76 0.12
141 392 0.64
142 1 0.00
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (140 bp):
AAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGC
CTAAAGCGTAATTGGCATGTCTATCCCAACACTTAAGAAAGTGTCGCCACAATAGTGTCGTCTTA
GGACTACACA
Found at i:8305647 original size:3 final size:3
Alignment explanation
Indices: 8305639--8305695 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
8305629 CAAAGTTTAG
8305639 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
8305687 ATT ATT ATT
1 ATT ATT ATT
8305696 GTTGTTGTTG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:8309314 original size:29 final size:29
Alignment explanation
Indices: 8309282--8309339 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
8309272 ATAAAATACA
* *
8309282 TTAATAGTA-ATGTATTAGATTGAACATTT
1 TTAA-AGTATATGTATCACATTGAACATTT
*
8309311 TTAAAGTATATGTATCACATTGGACATTT
1 TTAAAGTATATGTATCACATTGAACATTT
8309340 AATGAAAGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 4 0.16
29 21 0.84
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (29 bp):
TTAAAGTATATGTATCACATTGAACATTT
Found at i:8313174 original size:47 final size:48
Alignment explanation
Indices: 8313059--8313189 Score: 140
Period size: 47 Copynumber: 2.8 Consensus size: 48
8313049 TAGTTGGCAG
* * * **
8313059 TTCATCTACTTGACCAGTGGTTTATCCACAATATATTCTAGTTGGCAA
1 TTCATCTGCTAGACCAGTGGTTTATCCACAATGTATTCTAGTCAGCAA
* * * *
8313107 TT-ATTTGCTAGACCAATGGTTTATCCACAACGTATTTTAGTCAGC-A
1 TTCATCTGCTAGACCAGTGGTTTATCCACAATGTATTCTAGTCAGCAA
* * *
8313153 TTCATCTGCTCGATCAGTGGTTTATCCATAATGTATT
1 TTCATCTGCTAGACCAGTGGTTTATCCACAATGTATT
8313190 AGTAGCTTTT
Statistics
Matches: 67, Mismatches: 15, Indels: 3
0.79 0.18 0.04
Matches are distributed among these distances:
46 3 0.04
47 62 0.93
48 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (48 bp):
TTCATCTGCTAGACCAGTGGTTTATCCACAATGTATTCTAGTCAGCAA
Found at i:8314395 original size:29 final size:29
Alignment explanation
Indices: 8314318--8314398 Score: 101
Period size: 29 Copynumber: 2.8 Consensus size: 29
8314308 GCAAAGGTTA
*
8314318 TATGACA-TTTTGAAAAGACACTTATTGT
1 TATGACATTTTTGAAAAGACACTTAATGT
* * *
8314346 TATGACCTTTCTGAAATGACACTTAATGT
1 TATGACATTTTTGAAAAGACACTTAATGT
* *
8314375 TATGACATTTTTTAAACGACACTT
1 TATGACATTTTTGAAAAGACACTT
8314399 TATCACATTT
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
28 6 0.14
29 38 0.86
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (29 bp):
TATGACATTTTTGAAAAGACACTTAATGT
Found at i:8327010 original size:30 final size:30
Alignment explanation
Indices: 8326919--8327036 Score: 90
Period size: 30 Copynumber: 4.1 Consensus size: 30
8326909 TTAAGTTGTA
* *
8326919 TATTTTTATAAGAGTTAAAATATAATTTTAT
1 TATTTTTAAAAGA-TTAAATTATAATTTTAT
*
8326950 TA-TTTT-AATGA-T---TTAT-ATTTTAT
1 TATTTTTAAAAGATTAAATTATAATTTTAT
*
8326973 AATTTTTTAAAAGATTAAATTATAATTTTAT
1 TA-TTTTTAAAAGATTAAATTATAATTTTAT
* * *
8327004 TATTTTTAGAAG-TTGAAAGTAAAATTTTAT
1 TATTTTTAAAAGATT-AAATTATAATTTTAT
8327034 TAT
1 TAT
8327037 GTACAATTTT
Statistics
Matches: 69, Mismatches: 9, Indels: 19
0.71 0.09 0.20
Matches are distributed among these distances:
23 8 0.12
24 3 0.04
25 4 0.06
26 4 0.06
27 2 0.03
29 5 0.07
30 33 0.48
31 10 0.14
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (30 bp):
TATTTTTAAAAGATTAAATTATAATTTTAT
Found at i:8344958 original size:30 final size:31
Alignment explanation
Indices: 8344918--8344983 Score: 82
Period size: 34 Copynumber: 2.1 Consensus size: 31
8344908 TTTGACATTA
8344918 TTTTTTTAAGC-A-TTAAATTGAAAATGAAT
1 TTTTTTTAAGCAACTTAAATTGAAAATGAAT
*
8344947 TTTTTTATAAGCGAAGCTTGAATTGAAAATGAAT
1 TTTTTT-TAAGC-AA-CTTAAATTGAAAATGAAT
8344981 TTT
1 TTT
8344984 ATTAAGAGGG
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
29 6 0.19
30 5 0.16
32 1 0.03
34 19 0.61
ACGTcount: A:0.38, C:0.05, G:0.14, T:0.44
Consensus pattern (31 bp):
TTTTTTTAAGCAACTTAAATTGAAAATGAAT
Found at i:8345123 original size:22 final size:24
Alignment explanation
Indices: 8345080--8345123 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
8345070 TGATAATATG
8345080 TTTTGATATAACAAATTAAAGTGT
1 TTTTGATATAACAAATTAAAGTGT
*
8345104 TTTTGA-ATAA-AAGTTAAAGT
1 TTTTGATATAACAAATTAAAGT
8345124 TGAACAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.43, C:0.02, G:0.14, T:0.41
Consensus pattern (24 bp):
TTTTGATATAACAAATTAAAGTGT
Found at i:8345360 original size:21 final size:21
Alignment explanation
Indices: 8345334--8345374 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
8345324 CAATGATTTA
8345334 CAAAAAGTATCAATACCTTTC
1 CAAAAAGTATCAATACCTTTC
*
8345355 CAAAAAGTATCGATACCTTT
1 CAAAAAGTATCAATACCTTT
8345375 TACCAGGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.29
Consensus pattern (21 bp):
CAAAAAGTATCAATACCTTTC
Found at i:8348237 original size:46 final size:45
Alignment explanation
Indices: 8348184--8348305 Score: 217
Period size: 46 Copynumber: 2.7 Consensus size: 45
8348174 TCATTTATGT
8348184 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCAT-GGCATTGAGACGAGA
8348230 GCTAGTGTAAGACATGTCTGGGACATGCAATGGCATTGAGACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGC-ATGGCATTGAGACGAGA
*
8348276 GCTAGTATAAGACATGTCTGGGACATGCAT
1 GCTAGTGTAAGACATGTCTGGGACATGCAT
8348306 TAGCCTCGCG
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
45 2 0.03
46 70 0.95
47 2 0.03
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.23
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATGGCATTGAGACGAGA
Found at i:8355889 original size:46 final size:47
Alignment explanation
Indices: 8355839--8355965 Score: 213
Period size: 46 Copynumber: 2.7 Consensus size: 47
8355829 ACCACAATAT
*
8355839 GAGAGCCAGTGTAAGACATGTCTGGGACATGCATT-GGCATTGAGAC
1 GAGAGCTAGTGTAAGACATGTCTGGGACATGCATTCGGCATTGAGAC
*
8355885 GAGAGCTAGTGTAAGACATGTCTAGGACATGC-TTCGGCATTGAGAC
1 GAGAGCTAGTGTAAGACATGTCTGGGACATGCATTCGGCATTGAGAC
*
8355931 GAGAGCTAGTGTAAGACATGTATGGGACATGCATT
1 GAGAGCTAGTGTAAGACATGTCTGGGACATGCATT
8355966 AGCCTCGCGA
Statistics
Matches: 75, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
45 2 0.03
46 71 0.95
47 2 0.03
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (47 bp):
GAGAGCTAGTGTAAGACATGTCTGGGACATGCATTCGGCATTGAGAC
Found at i:8361672 original size:33 final size:32
Alignment explanation
Indices: 8361599--8361676 Score: 84
Period size: 33 Copynumber: 2.4 Consensus size: 32
8361589 CAGTATTTAT
* * * **
8361599 ATGTAAGACCATAGCTGGGCTATGGCATTGTG
1 ATGTAAGACCATAACTGGGCTATAGCACTACG
*
8361631 ATGATAAGACCATAACTGGGTTATAGCACTACG
1 ATG-TAAGACCATAACTGGGCTATAGCACTACG
8361664 AATGTAAGACCAT
1 -ATGTAAGACCAT
8361677 GGCAGAGTCA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
32 3 0.08
33 32 0.84
34 3 0.08
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (32 bp):
ATGTAAGACCATAACTGGGCTATAGCACTACG
Found at i:8365650 original size:20 final size:19
Alignment explanation
Indices: 8365616--8365656 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
8365606 AGAATAACAG
*
8365616 ATTAAAAAATTATATCTTA
1 ATTAAAAAATCATATCTTA
*
8365635 ATTAAAAAATCCATATTTTA
1 ATTAAAAAAT-CATATCTTA
8365655 AT
1 AT
8365657 CACTATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTAAAAAATCATATCTTA
Found at i:8365717 original size:19 final size:19
Alignment explanation
Indices: 8365693--8365737 Score: 72
Period size: 19 Copynumber: 2.3 Consensus size: 19
8365683 TTTTCTTTCC
8365693 TATTTTAAATAATTTTTAT
1 TATTTTAAATAATTTTTAT
*
8365712 TATTTTTAATAATTTTTAT
1 TATTTTAAATAATTTTTAT
8365731 TACTTTT
1 TA-TTTT
8365738 CATTCACATA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 20 0.83
20 4 0.17
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (19 bp):
TATTTTAAATAATTTTTAT
Found at i:8366846 original size:17 final size:15
Alignment explanation
Indices: 8366815--8366848 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
8366805 TAATTGAAAA
8366815 TAATAATTATTTAAT
1 TAATAATTATTTAAT
8366830 TAATAAATTATTTTAAT
1 TAAT-AATTA-TTTAAT
8366847 TA
1 TA
8366849 TTATTTGTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 5 0.29
17 8 0.47
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TAATAATTATTTAAT
Found at i:8367883 original size:20 final size:20
Alignment explanation
Indices: 8367828--8367869 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
8367818 CCATTATTTT
*
8367828 TTAATTAAA-AGAGAAATGAA
1 TTAATCAAATAGA-AAATGAA
8367848 TTAATCAAATAGAAAATGAA
1 TTAATCAAATAGAAAATGAA
8367868 TT
1 TT
8367870 GATAAATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 17 0.85
21 3 0.15
ACGTcount: A:0.57, C:0.02, G:0.12, T:0.29
Consensus pattern (20 bp):
TTAATCAAATAGAAAATGAA
Found at i:8368813 original size:26 final size:27
Alignment explanation
Indices: 8368784--8368845 Score: 92
Period size: 26 Copynumber: 2.3 Consensus size: 27
8368774 TATCGAAACT
8368784 TATAAAATA-TATAAAAAT-ATTTAAAA
1 TATAAAATATTA-AAAAATAATTTAAAA
8368810 TATAAAATATTAAAAAATAATTTAAAA
1 TATAAAATATTAAAAAATAATTTAAAA
8368837 TATTAAAAT
1 TA-TAAAAT
8368846 CCTATATCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
26 15 0.45
27 12 0.36
28 6 0.18
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (27 bp):
TATAAAATATTAAAAAATAATTTAAAA
Found at i:8368814 original size:17 final size:16
Alignment explanation
Indices: 8368792--8368829 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
8368782 CTTATAAAAT
8368792 ATATAAAAATATTTAAA
1 ATATAAAAATA-TTAAA
8368809 ATAT-AAAATATTAAA
1 ATATAAAAATATTAAA
*
8368824 AAATAA
1 ATATAA
8368830 TTTAAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 8 0.42
16 7 0.37
17 4 0.21
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
ATATAAAAATATTAAA
Found at i:8371787 original size:27 final size:27
Alignment explanation
Indices: 8371757--8371822 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
8371747 TGGAAAAATT
*
8371757 TGAAAGAATAGTACGTATAGTGAACTC
1 TGAAAGAATAGTACGTATAGCGAACTC
* * *
8371784 TGAAGGAATAATACGTATGGCGAACTC
1 TGAAAGAATAGTACGTATAGCGAACTC
8371811 T-AAAGAAATAGT
1 TGAAAG-AATAGT
8371823 TCCATAGAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
26 3 0.09
27 29 0.91
ACGTcount: A:0.42, C:0.11, G:0.23, T:0.24
Consensus pattern (27 bp):
TGAAAGAATAGTACGTATAGCGAACTC
Found at i:8373297 original size:15 final size:15
Alignment explanation
Indices: 8373277--8373311 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
8373267 TACGAAACCT
8373277 AGTACATACCATTCC
1 AGTACATACCATTCC
8373292 AGTACATACCATTCC
1 AGTACATACCATTCC
8373307 AGTAC
1 AGTAC
8373312 CTGACACCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.34, C:0.31, G:0.09, T:0.26
Consensus pattern (15 bp):
AGTACATACCATTCC
Found at i:8375426 original size:64 final size:64
Alignment explanation
Indices: 8375203--8375432 Score: 198
Period size: 64 Copynumber: 3.6 Consensus size: 64
8375193 CCATGTTATG
* * * * * * * *
8375203 CTTATTTTGTAATCAGTGAATTACACGACCTGGACACACGTTC-GTGTCCTT-AGCCCGTATAAT
1 CTTATTTTGTAATCAGTGAGTTACATGGCCTGCACACA-ATCCAGTGTCCTTGA-CCCATATGAT
8375266 C
64 C
* * * *
8375267 CGTATTTTGTAATCAGTGAGTTACATGGCCTGCACACACTCCTGTGTCCTTGACCCGTATGAT-
1 CTTATTTTGTAATCAGTGAGTTACATGGCCTGCACACAATCCAGTGTCCTTGACCCATATGATC
* * ** * * * *
8375330 CTATATTTTATAATCAATGAGTTACACAGCCTGTACA-AATGCCAGTGTCCTTGGCCTATGTGAT
1 CT-TATTTTGTAATCAGTGAGTTACATGGCCTGCACACAAT-CCAGTGTCCTTGACCCATATGAT
8375394 C
64 C
* *
8375395 CTTATTTTGTAATCAGTCAGTTACATGGCCTGGACACA
1 CTTATTTTGTAATCAGTGAGTTACATGGCCTGCACACA
8375433 TGTCCGTGTG
Statistics
Matches: 134, Mismatches: 26, Indels: 11
0.78 0.15 0.06
Matches are distributed among these distances:
63 5 0.04
64 125 0.93
65 4 0.03
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.33
Consensus pattern (64 bp):
CTTATTTTGTAATCAGTGAGTTACATGGCCTGCACACAATCCAGTGTCCTTGACCCATATGATC
Found at i:8377707 original size:6 final size:6
Alignment explanation
Indices: 8377693--8377731 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
8377683 AAGTTACACA
*
8377693 GTTAAG GTTAGG GTTAGG GTTAGG GTTAGG GTTAGG GTT
1 GTTAGG GTTAGG GTTAGG GTTAGG GTTAGG GTTAGG GTT
8377732 GAAAATGGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.18, C:0.00, G:0.46, T:0.36
Consensus pattern (6 bp):
GTTAGG
Found at i:8380524 original size:28 final size:28
Alignment explanation
Indices: 8380492--8380550 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
8380482 TTATTTTTTT
8380492 ATTAGCTTAGAAGAGGCATAAATTAGGG
1 ATTAGCTTAGAAGAGGCATAAATTAGGG
8380520 ATTAGCTTAGAAGAGGCATAAATTAGGG
1 ATTAGCTTAGAAGAGGCATAAATTAGGG
8380548 ATT
1 ATT
8380551 TTCTTTAACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.39, C:0.07, G:0.27, T:0.27
Consensus pattern (28 bp):
ATTAGCTTAGAAGAGGCATAAATTAGGG
Found at i:8383862 original size:41 final size:38
Alignment explanation
Indices: 8383818--8383949 Score: 131
Period size: 40 Copynumber: 3.4 Consensus size: 38
8383808 GACTTCAAGT
*
8383818 CGATGAGACACTGGGTGTCAATTTACTACTTCGGATTAATT
1 CGATGAGACACTGGGTGTCAA-TTA-TACTTCGGATT-ATC
* * * * *
8383859 CGATGAGGCACTGAGTGCCAATT-TACTTCGGTTTAGC
1 CGATGAGACACTGGGTGTCAATTATACTTCGGATTATC
* *
8383896 CGATGAGACATTGGGTGTCAAATTATTACTTCGAATTATC
1 CGATGAGACACTGGGTGTC-AATTA-TACTTCGGATTATC
*
8383936 CGATGAGGCACTGG
1 CGATGAGACACTGG
8383950 TGCCAAACTA
Statistics
Matches: 73, Mismatches: 15, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
37 16 0.22
38 14 0.19
40 25 0.34
41 18 0.25
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (38 bp):
CGATGAGACACTGGGTGTCAATTATACTTCGGATTATC
Found at i:8387037 original size:38 final size:38
Alignment explanation
Indices: 8386989--8387094 Score: 149
Period size: 38 Copynumber: 2.8 Consensus size: 38
8386979 CTAGGATTTG
*
8386989 TTGCAAATTCTCGGGTAACATAACGAGATCTAGCCTTA
1 TTGCAAATTCTCGAGTAACATAACGAGATCTAGCCTTA
* * * *
8387027 TTGCAGATTCTCGAGTAACCTAACAAGATCTAGCCTTG
1 TTGCAAATTCTCGAGTAACATAACGAGATCTAGCCTTA
* *
8387065 TTGCAAATTCTTGAGTAATATAACGAGATC
1 TTGCAAATTCTCGAGTAACATAACGAGATC
8387095 CAACCTTTTT
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 58 1.00
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (38 bp):
TTGCAAATTCTCGAGTAACATAACGAGATCTAGCCTTA
Found at i:8388515 original size:20 final size:19
Alignment explanation
Indices: 8388486--8388523 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
8388476 ATGTTGAATC
8388486 AAATGAATAGAAATAGATAG
1 AAATGAATAGAAAT-GATAG
*
8388506 AAATGGATAGAAATGATA
1 AAATGAATAGAAATGATA
8388524 AAGTTAGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.58, C:0.00, G:0.21, T:0.21
Consensus pattern (19 bp):
AAATGAATAGAAATGATAG
Found at i:8401389 original size:19 final size:20
Alignment explanation
Indices: 8401367--8401405 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
8401357 TTTACAAAAA
* *
8401367 AAATTCTATTTTAA-TCTTT
1 AAATTATATTCTAATTCTTT
8401386 AAATTATATTCTAATTCTTT
1 AAATTATATTCTAATTCTTT
8401406 TTTAAGAGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.56
Consensus pattern (20 bp):
AAATTATATTCTAATTCTTT
Found at i:8402403 original size:20 final size:20
Alignment explanation
Indices: 8402373--8402412 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
8402363 TCATGTCATC
8402373 AAATATTTAAAAATTATAAAA
1 AAATATTTAAAAATT-TAAAA
8402394 AAAT-TTTAAAAATTTAAAA
1 AAATATTTAAAAATTTAAAA
8402413 TTCAAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.26
20 10 0.53
21 4 0.21
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
AAATATTTAAAAATTTAAAA
Found at i:8402532 original size:22 final size:24
Alignment explanation
Indices: 8402507--8402552 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
8402497 GATGTATTTA
8402507 CATA-TTTAAAT-CTCTTTTTATT
1 CATATTTTAAATACTCTTTTTATT
*
8402529 CATATTTTAAATACTTTTTTTATT
1 CATATTTTAAATACTCTTTTTATT
8402553 ATGATTTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 4 0.19
23 7 0.33
24 10 0.48
ACGTcount: A:0.28, C:0.11, G:0.00, T:0.61
Consensus pattern (24 bp):
CATATTTTAAATACTCTTTTTATT
Found at i:8403644 original size:16 final size:18
Alignment explanation
Indices: 8403591--8403665 Score: 59
Period size: 18 Copynumber: 4.4 Consensus size: 18
8403581 TACCAACATT
* *
8403591 CTCTCTCCCTCCCTCTCC
1 CTCTCTCTCTACCTCTCC
* * ** *
8403609 CTCTCCCTTTATGTCCCC
1 CTCTCTCTCTACCTCTCC
8403627 CTCTCTCTCT-CC-CTCC
1 CTCTCTCTCTACCTCTCC
8403643 CTC-C-CTCTACCTCTCC
1 CTCTCTCTCTACCTCTCC
8403659 CTCTCTC
1 CTCTCTC
8403666 ACACTCTCTC
Statistics
Matches: 41, Mismatches: 12, Indels: 8
0.67 0.20 0.13
Matches are distributed among these distances:
14 4 0.10
15 3 0.07
16 13 0.32
17 1 0.02
18 20 0.49
ACGTcount: A:0.03, C:0.60, G:0.01, T:0.36
Consensus pattern (18 bp):
CTCTCTCTCTACCTCTCC
Found at i:8403672 original size:16 final size:15
Alignment explanation
Indices: 8403629--8403679 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
8403619 ATGTCCCCCT
*
8403629 CTCTCTCTCC-CTCC
1 CTCTCTCACCTCTCC
*
8403643 CTCCCTCTACCTCTCC
1 CTCTCTC-ACCTCTCC
*
8403659 CTCTCTCACACTCTCT
1 CTCTCTCAC-CTCTCC
8403675 CTCTC
1 CTCTC
8403680 CCTTTCTCTC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
14 6 0.20
15 4 0.13
16 20 0.67
ACGTcount: A:0.06, C:0.59, G:0.00, T:0.35
Consensus pattern (15 bp):
CTCTCTCACCTCTCC
Found at i:8403675 original size:44 final size:44
Alignment explanation
Indices: 8403590--8403682 Score: 109
Period size: 44 Copynumber: 2.2 Consensus size: 44
8403580 TTACCAACAT
* * * ** *
8403590 TCTCTCTCCCTCCCTCTCCCTCTCCCTTTATGTCCCCCTCTCTC
1 TCTCCCTCCCTCCCTCTACCTCTCCCTCTATCACACCCTCTCTC
*
8403634 TCTCCCTCCCTCCCTCTACCTCTCCCTCTCTCACA--CTCTCTC
1 TCTCCCTCCCTCCCTCTACCTCTCCCTCTATCACACCCTCTCTC
8403676 TCTCCCT
1 TCTCCCT
8403683 TTCTCTCTCT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
42 14 0.33
44 28 0.67
ACGTcount: A:0.04, C:0.58, G:0.01, T:0.37
Consensus pattern (44 bp):
TCTCCCTCCCTCCCTCTACCTCTCCCTCTATCACACCCTCTCTC
Found at i:8403688 original size:24 final size:20
Alignment explanation
Indices: 8403625--8403692 Score: 75
Period size: 20 Copynumber: 3.3 Consensus size: 20
8403615 CTTTATGTCC
*
8403625 CCCTCTCTCTCTCCCTCCCT
1 CCCTCTCTCTCTCCCTCTCT
8403645 CCCTCTAC-CTCTCCCTCTCT
1 CCCTCT-CTCTCTCCCTCTCT
*
8403665 CACACTCTCTCTCTCCCTTTCT
1 C-C-CTCTCTCTCTCCCTCTCT
*
8403687 CTCTCT
1 CCCTCT
8403693 TTTTAAAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
20 22 0.54
21 3 0.07
22 16 0.39
ACGTcount: A:0.04, C:0.57, G:0.00, T:0.38
Consensus pattern (20 bp):
CCCTCTCTCTCTCCCTCTCT
Found at i:8407590 original size:31 final size:31
Alignment explanation
Indices: 8407555--8407659 Score: 124
Period size: 31 Copynumber: 3.4 Consensus size: 31
8407545 TTATTCACAT
8407555 AATATTAAATTAATAAAATACTATCAAGATA
1 AATATTAAATTAATAAAATACTATCAAGATA
* ** * * *
8407586 AATATTAAATCACATTTAATA-TCTC-ACATT
1 AATATTAAATTA-ATAAAATACTATCAAGATA
8407616 AATATTAAATTAATAAAATACTATCAAGATA
1 AATATTAAATTAATAAAATACTATCAAGATA
*
8407647 AATATTTAATTAA
1 AATATTAAATTAA
8407660 ATTTAATGTT
Statistics
Matches: 58, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
29 6 0.10
30 17 0.29
31 29 0.50
32 6 0.10
ACGTcount: A:0.53, C:0.09, G:0.02, T:0.36
Consensus pattern (31 bp):
AATATTAAATTAATAAAATACTATCAAGATA
Found at i:8407649 original size:61 final size:60
Alignment explanation
Indices: 8407549--8407666 Score: 200
Period size: 61 Copynumber: 1.9 Consensus size: 60
8407539 TTGAAATTAT
*
8407549 TCACATAATATTAAATTAATAAAATACTATCAAGATAAATATTAAATCACATTTAATATC
1 TCACATAATATTAAATTAATAAAATACTATCAAGATAAATATTAAATCAAATTTAATATC
* *
8407609 TCACATTAATATTAAATTAATAAAATACTATCAAGATAAATATTTAATTAAATTTAAT
1 TCACA-TAATATTAAATTAATAAAATACTATCAAGATAAATATTAAATCAAATTTAAT
8407667 GTTAAATTTG
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
60 5 0.09
61 49 0.91
ACGTcount: A:0.52, C:0.09, G:0.02, T:0.37
Consensus pattern (60 bp):
TCACATAATATTAAATTAATAAAATACTATCAAGATAAATATTAAATCAAATTTAATATC
Found at i:8409106 original size:21 final size:22
Alignment explanation
Indices: 8409079--8409145 Score: 66
Period size: 21 Copynumber: 3.0 Consensus size: 22
8409069 AATGGGTGAA
*
8409079 TATTTGGCACTTGTGTGCATTT
1 TATTTGGCACTTGTATGCATTT
8409101 TA-TTGGCGA-TTGTATGCATTT
1 TATTTGGC-ACTTGTATGCATTT
* * *
8409122 ATATTTGGAACTTTTTTGCATTT
1 -TATTTGGCACTTGTATGCATTT
8409145 T
1 T
8409146 TGAAGAGTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
21 16 0.43
22 7 0.19
23 14 0.38
ACGTcount: A:0.18, C:0.10, G:0.19, T:0.52
Consensus pattern (22 bp):
TATTTGGCACTTGTATGCATTT
Found at i:8412520 original size:29 final size:29
Alignment explanation
Indices: 8412479--8412641 Score: 272
Period size: 29 Copynumber: 5.6 Consensus size: 29
8412469 TACCTGATTA
* * *
8412479 GTGAATAGTGATAGCTTCAGCTATCGAAT
1 GTGAAAAGGGATAGCTTCGGCTATCGAAT
8412508 GTGAAAAGGGATAGCTTCGGCTATCGAAT
1 GTGAAAAGGGATAGCTTCGGCTATCGAAT
*
8412537 GTGAAAAGGGATATCTTCGGCTATCGAAT
1 GTGAAAAGGGATAGCTTCGGCTATCGAAT
8412566 GTGAAAAGGGATAGCTTCGGCTATCGAAT
1 GTGAAAAGGGATAGCTTCGGCTATCGAAT
* *
8412595 GTGAAAAGGGATAGCTTTGGCTATCAAAT
1 GTGAAAAGGGATAGCTTCGGCTATCGAAT
8412624 GTGAAAAGGGATAGCTTC
1 GTGAAAAGGGATAGCTTC
8412642 AAAGGAAAGG
Statistics
Matches: 126, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 126 1.00
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.26
Consensus pattern (29 bp):
GTGAAAAGGGATAGCTTCGGCTATCGAAT
Found at i:8419129 original size:25 final size:24
Alignment explanation
Indices: 8419101--8419160 Score: 66
Period size: 25 Copynumber: 2.5 Consensus size: 24
8419091 TCTTCTACTC
* *
8419101 TGTTCTGTTCTACTCTGCTTTGCTT
1 TGTTCTGTTCTACTCTG-ATTGATT
* *
8419126 TGTTCGGTTCTATTCTGATTGATT
1 TGTTCTGTTCTACTCTGATTGATT
*
8419150 TGTTATGTTCT
1 TGTTCTGTTCT
8419161 GCTTCATTCT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
24 14 0.48
25 15 0.52
ACGTcount: A:0.08, C:0.17, G:0.18, T:0.57
Consensus pattern (24 bp):
TGTTCTGTTCTACTCTGATTGATT
Found at i:8420832 original size:50 final size:50
Alignment explanation
Indices: 8420709--8420957 Score: 268
Period size: 50 Copynumber: 4.8 Consensus size: 50
8420699 GATAATAACA
* ** * *
8420709 TGCCAAAT-CCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCC-AATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
8420760 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * * *
8420810 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCTG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
8420860 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
8420915 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
8420958 TTACCCAAAT
Statistics
Matches: 168, Mismatches: 22, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
49 1 0.01
50 93 0.55
51 31 0.18
53 2 0.01
54 1 0.01
55 1 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.23, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:8420887 original size:100 final size:104
Alignment explanation
Indices: 8420708--8420957 Score: 339
Period size: 100 Copynumber: 2.4 Consensus size: 104
8420698 TGATAATAAC
** **
8420708 ATGCCAAATCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
8420773 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
8420810 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCTGTGCCCATGCCATG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
8420873 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
8420915 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
8420958 TTACCCAAAT
Statistics
Matches: 131, Mismatches: 10, Indels: 10
0.87 0.07 0.07
Matches are distributed among these distances:
99 1 0.01
100 49 0.37
101 35 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.31
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (104 bp):
ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:8421400 original size:19 final size:20
Alignment explanation
Indices: 8421378--8421418 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
8421368 TTCTATTCTG
*
8421378 TTTCTTTTCTTTCTTTT-TT
1 TTTCTATTCTTTCTTTTGTT
8421397 TTTCTATTCTTTCTTTTGTT
1 TTTCTATTCTTTCTTTTGTT
8421417 TT
1 TT
8421419 ATGTATATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.02, C:0.15, G:0.02, T:0.80
Consensus pattern (20 bp):
TTTCTATTCTTTCTTTTGTT
Found at i:8421406 original size:15 final size:15
Alignment explanation
Indices: 8421368--8421413 Score: 58
Period size: 15 Copynumber: 3.0 Consensus size: 15
8421358 GTTTCGTCTC
*
8421368 TTCTATTCTGTTTCTT
1 TTCTATTCT-TTTTTT
8421384 TTCT-TTCTTTTTTT
1 TTCTATTCTTTTTTT
8421398 TTCTATTCTTTCTTTT
1 TTCTATTCTTT-TTTT
8421414 GTTTTATGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
14 9 0.33
15 10 0.37
16 8 0.30
ACGTcount: A:0.04, C:0.17, G:0.02, T:0.76
Consensus pattern (15 bp):
TTCTATTCTTTTTTT
Found at i:8421431 original size:5 final size:5
Alignment explanation
Indices: 8421423--8421494 Score: 71
Period size: 5 Copynumber: 14.6 Consensus size: 5
8421413 TGTTTTATGT
8421423 ATATA ATATA ATATA ATATA ATAT- AT-TA ATAATA ATATA ATATA A-A-A
1 ATATA ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA ATATA ATATA
* *
8421470 ACATA ATCATTA CTATA ATATA ATA
1 ATATA AT-A-TA ATATA ATATA ATA
8421495 ATATTTTTTT
Statistics
Matches: 57, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
3 3 0.05
4 6 0.11
5 39 0.68
6 6 0.11
7 3 0.05
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (5 bp):
ATATA
Found at i:8421459 original size:19 final size:18
Alignment explanation
Indices: 8421431--8421466 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
8421421 GTATATAATA
8421431 TAATATAATATAATATAT
1 TAATATAATATAATATAT
8421449 TAATAATAATATAATATA
1 TAAT-ATAATATAATATA
8421467 AAAACATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAATATAATATAATATAT
Found at i:8421476 original size:24 final size:24
Alignment explanation
Indices: 8421425--8421495 Score: 74
Period size: 24 Copynumber: 3.0 Consensus size: 24
8421415 TTTTATGTAT
*
8421425 ATAAT-ATAATATAATATAATATA
1 ATAATAATAATATAATATAATAAA
*
8421448 TTAATAATAATATAATATAA-AAA
1 ATAATAATAATATAATATAATAAA
* *
8421471 CATAATCATTACTATAATATAATAA
1 -ATAAT-AATAATATAATATAATAA
8421496 TATTTTTTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
23 6 0.15
24 18 0.46
25 13 0.33
26 2 0.05
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (24 bp):
ATAATAATAATATAATATAATAAA
Found at i:8426098 original size:27 final size:32
Alignment explanation
Indices: 8426041--8426103 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 32
8426031 TTTATCACTG
8426041 AATTTTCAATTATCTTTTGTTCAAATATTTAT
1 AATTTTCAATTATCTTTTGTTCAAATATTTAT
*
8426073 AATTTT-AATT-T-TTTT-TTCAAA-GTTTAT
1 AATTTTCAATTATCTTTTGTTCAAATATTTAT
8426100 AATT
1 AATT
8426104 GGATTTGCAG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
27 9 0.30
28 6 0.20
29 4 0.13
30 1 0.03
31 4 0.13
32 6 0.20
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (32 bp):
AATTTTCAATTATCTTTTGTTCAAATATTTAT
Found at i:8440970 original size:21 final size:21
Alignment explanation
Indices: 8440945--8441046 Score: 105
Period size: 21 Copynumber: 4.9 Consensus size: 21
8440935 AAAAACCCTA
*
8440945 TTATACCATATGCGAACCATG
1 TTATACTATATGCGAACCATG
* * * *
8440966 CTATATTATATGCGAAACTTG
1 TTATACTATATGCGAACCATG
* * * *
8440987 TTATACTATATGAGATCCTTA
1 TTATACTATATGCGAACCATG
8441008 TTATACTATATGCGAACCATG
1 TTATACTATATGCGAACCATG
* *
8441029 TTATACTATGTGCAAACC
1 TTATACTATATGCGAACC
8441047 CATGCTATTA
Statistics
Matches: 64, Mismatches: 17, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 64 1.00
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (21 bp):
TTATACTATATGCGAACCATG
Found at i:8441220 original size:17 final size:17
Alignment explanation
Indices: 8441200--8441237 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
8441190 CGAGCTCTGC
8441200 TATATTGCGAACCCTAT
1 TATATTGCGAACCCTAT
* *
8441217 TATATTGTGAGCCCTAT
1 TATATTGCGAACCCTAT
8441234 TATA
1 TATA
8441238 CTATGAATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.39
Consensus pattern (17 bp):
TATATTGCGAACCCTAT
Found at i:8442447 original size:27 final size:27
Alignment explanation
Indices: 8442402--8442467 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
8442392 AATAAGAGAT
** *
8442402 CGTAGGGTAAATTGAGAACTAGCG-ATT
1 CGTAGGGTAGGTTGAGAACTAG-GTATC
* *
8442429 TGTAGGGTAGGTTGTGAACTAGGTATC
1 CGTAGGGTAGGTTGAGAACTAGGTATC
8442456 CGTAGGGTAGGT
1 CGTAGGGTAGGT
8442468 CTCGAGCTAG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
26 1 0.03
27 31 0.97
ACGTcount: A:0.26, C:0.09, G:0.36, T:0.29
Consensus pattern (27 bp):
CGTAGGGTAGGTTGAGAACTAGGTATC
Found at i:8443151 original size:3 final size:3
Alignment explanation
Indices: 8443143--8443198 Score: 51
Period size: 3 Copynumber: 18.7 Consensus size: 3
8443133 ATACAAGCAA
* * * * *
8443143 ATG ATG ATG ATG GTG GT- AGTG GTG ATG ATG ACG ATG ATG ATG GTG
1 ATG ATG ATG ATG ATG ATG A-TG ATG ATG ATG ATG ATG ATG ATG ATG
8443188 ATG ATG ATG AT
1 ATG ATG ATG AT
8443199 TCTAAAATGT
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.27, C:0.02, G:0.39, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:8446516 original size:31 final size:31
Alignment explanation
Indices: 8446454--8446516 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
8446444 TTAGGCCTAA
* *
8446454 AATTTGACAATTATTTTCACATTAGGGTTTG
1 AATTTGACAATTATTCTCACATTAGGATTTG
*
8446485 AATTTGACAATTATTCTCATATT-GAGATTTG
1 AATTTGACAATTATTCTCACATTAG-GATTTG
8446516 A
1 A
8446517 TTTTTAGGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 1 0.04
31 27 0.96
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.44
Consensus pattern (31 bp):
AATTTGACAATTATTCTCACATTAGGATTTG
Found at i:8447773 original size:17 final size:18
Alignment explanation
Indices: 8447720--8447880 Score: 229
Period size: 18 Copynumber: 8.9 Consensus size: 18
8447710 AATCATATCT
8447720 TCTAAGATTGTCTATCATA
1 TCTAAGATTG-CTATCATA
*
8447739 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
8447757 TCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
* *
8447774 TCTAAGATTGCAATTATA
1 TCTAAGATTGCTATCATA
8447792 TCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
*
8447809 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
8447827 TCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
*
8447844 TCTAAGATTGCATATCACA
1 TCTAAGATTGC-TATCATA
8447863 TCTAAGATTGCATATCAT
1 TCTAAGATTGC-TATCAT
8447881 TGAAGATTAT
Statistics
Matches: 128, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
17 47 0.37
18 48 0.38
19 33 0.26
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (18 bp):
TCTAAGATTGCTATCATA
Found at i:8447777 original size:35 final size:35
Alignment explanation
Indices: 8447720--8447872 Score: 261
Period size: 35 Copynumber: 4.3 Consensus size: 35
8447710 AATCATATCT
8447720 TCTAAGATTGTCTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
*
8447757 TCTAAGATTGTATCATATCTAAGATTGCAATTATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
8447792 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
*
8447827 TCTAAGATTGTATCATATCTAAGATTGCATATCACA
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCATA
8447863 TCTAAGATTG
1 TCTAAGATTG
8447873 CATATCATTG
Statistics
Matches: 112, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
35 87 0.78
36 15 0.13
37 10 0.09
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:8448626 original size:206 final size:206
Alignment explanation
Indices: 8448267--8448717 Score: 803
Period size: 206 Copynumber: 2.2 Consensus size: 206
8448257 AAATCTGCTT
* * * * *
8448267 CTTCAATTTGTTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
1 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
8448332 GCGAAAGCCAAATCAGCTATGTCTTCGATTTCCTCCTTGTAAGCATAAGGATACCAAACCATCTT
66 GCGAAAGCCAAATCAGCTATGTCTTCGATTTCCTCCTTGTAAGCATAAGGATACCAAACCATCTT
8448397 GGATCTGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATATGTTTGTCCTCCGTTGAATATG
131 GGATCTGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATATGTTTGTCCTCCGTTGAATATG
8448462 GAGACGCCAAA
196 GAGACGCCAAA
*
8448473 CTTCGATTTGTTTTCTAACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
*
8448538 GTGAAAGCCAAATCAGCTATGTCTTCGATTTCCTCCTTGTAAGCATAAGGATACCAAACCATCTT
66 GCGAAAGCCAAATCAGCTATGTCTTCGATTTCCTCCTTGTAAGCATAAGGATACCAAACCATCTT
8448603 GGATCTGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATATGTTTGTCCTCCGTTGAATATG
131 GGATCTGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATATGTTTGTCCTCCGTTGAATATG
8448668 GAGACGCCAAA
196 GAGACGCCAAA
* * * *
8448679 CTTTGATTTGTTCTCTGACAATACAAAGATGCCGAATCA
1 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCA
8448718 GCTGTGTCTT
Statistics
Matches: 233, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
206 233 1.00
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (206 bp):
CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
GCGAAAGCCAAATCAGCTATGTCTTCGATTTCCTCCTTGTAAGCATAAGGATACCAAACCATCTT
GGATCTGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATATGTTTGTCCTCCGTTGAATATG
GAGACGCCAAA
Found at i:8448847 original size:166 final size:165
Alignment explanation
Indices: 8448548--8448876 Score: 469
Period size: 166 Copynumber: 2.0 Consensus size: 165
8448538 GTGAAAGCCA
*
8448548 AATCAGCTATGTCTTCGATTTCCTCCTTGTAAGCATAAGGATACCAAACCATCTTGGATCTGCTT
1 AATCAGCTATGTCTTCGATTTCCTCCTTGTAAGCACAAGGATACCAAACCATCTTGGATCTGCTT
* * ** * * * *
8448613 CAGTCTAATCATCTGAAGGTTAGATCTGCTATATGTTTGTCCTCCGTTGAATATGGAGACGCCAA
66 CAGTATAAACATCTGAAGGCCAGATCTGCTATATGTCTGCCCTCCATCGAATATGGAGACGCCAA
* *
8448678 ACTTTGATTTGTTCTCTGACAATACAAAGATGCCG
131 ACTTCGATTTATTCTCTGACAATACAAAGATGCCG
* ** *
8448713 AATCAGCTGTGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTTGCT
1 AATCAGCTATGTCTTCGATTTCCTCCTTGTAAGCACAAGGATACCAAACCATCTTGGATC-TGCT
* * *
8448778 TCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCTATCGAATATGGAGATGCCA
65 TCAGTATAAACATCTGAAGGCCAGATCTGCTATATGTCTGCCCTCCATCGAATATGGAGACGCCA
* *
8448843 AACTTCGATTTATTCTTTGACAATACAGAGATGC
130 AACTTCGATTTATTCTCTGACAATACAAAGATGC
8448877 TAAATCATCT
Statistics
Matches: 143, Mismatches: 20, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
165 55 0.38
166 88 0.62
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.33
Consensus pattern (165 bp):
AATCAGCTATGTCTTCGATTTCCTCCTTGTAAGCACAAGGATACCAAACCATCTTGGATCTGCTT
CAGTATAAACATCTGAAGGCCAGATCTGCTATATGTCTGCCCTCCATCGAATATGGAGACGCCAA
ACTTCGATTTATTCTCTGACAATACAAAGATGCCG
Found at i:8449073 original size:207 final size:207
Alignment explanation
Indices: 8448713--8449148 Score: 746
Period size: 207 Copynumber: 2.1 Consensus size: 207
8448703 AAAGATGCCG
*
8448713 AATCAGCTGTGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTTGCT
1 AATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTTGCT
* * *
8448778 TCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCTATCGAATATGGAGATGCCA
66 TCAGTATAAACATCTAAAGGCCAGATCTGCTATGTGTCTGCCCTCCATCGAATATGGAGACGCCA
** *
8448843 AACTTCGATTTATTCTTTGACAATACAGAGATGCTAAATCATCTTAGACTTGCTTCAACGTAAAC
131 AACTTCGATTTATTCACTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAAC
*
8448908 ACGTGAAAGCCA
196 ACATGAAAGCCA
8448920 AATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTTGCT
1 AATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTTGCT
* *
8448985 TCAGTATAAACATCTAAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGCCGCCA
66 TCAGTATAAACATCTAAAGGCCAGATCTGCTATGTGTCTGCCCTCCATCGAATATGGAGACGCCA
* * * *
8449050 AACTTCGATTTGTTCACTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGC
131 AACTTCGATTTATTCACTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAAC
8449115 ACATGAAAGCCA
196 ACATGAAAGCCA
8449127 AATCAGCTATGTCTTCGATTTG
1 AATCAGCTATGTCTTCGATTTG
8449149 CTCTCCGTCG
Statistics
Matches: 215, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
207 215 1.00
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.30
Consensus pattern (207 bp):
AATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTTGCT
TCAGTATAAACATCTAAAGGCCAGATCTGCTATGTGTCTGCCCTCCATCGAATATGGAGACGCCA
AACTTCGATTTATTCACTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAAC
ACATGAAAGCCA
Done.