Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold96
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: 1013983
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Warning! 499 characters in sequence are not A, C, G, or T
File 7 of 8
Found at i:833413 original size:13 final size:13
Alignment explanation
Indices: 833395--833420 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
833385 CAATTTTTTG
833395 TGTATCGATACAT
1 TGTATCGATACAT
833408 TGTATCGATACAT
1 TGTATCGATACAT
833421 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:833485 original size:21 final size:21
Alignment explanation
Indices: 833459--833532 Score: 105
Period size: 21 Copynumber: 3.6 Consensus size: 21
833449 CTGCCAAGAA
833459 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
833480 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
833500 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
833521 ATGTATCGATAC
1 ATGTATCGATAC
833533 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 16 0.36
21 28 0.64
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:837995 original size:20 final size:20
Alignment explanation
Indices: 837970--838044 Score: 114
Period size: 20 Copynumber: 3.8 Consensus size: 20
837960 AAAAAAACAG
*
837970 AATGTATCGATACATTGAAA
1 AATGTATCGATACATTGATA
* *
837990 AATGTATTGATACATTCATA
1 AATGTATCGATACATTGATA
*
838010 CATGTATCGATACATTGATA
1 AATGTATCGATACATTGATA
838030 AATGTATCGATACAT
1 AATGTATCGATACAT
838045 CTAGGCAAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTGATA
Found at i:839270 original size:63 final size:63
Alignment explanation
Indices: 839118--839278 Score: 180
Period size: 63 Copynumber: 2.6 Consensus size: 63
839108 ACACACCCAT
* ** * * *
839118 ATGTATCGATACAATTCATAATGTATTGATACAATGCATTTGAAATGCTAGCTATTAGGCTCA
1 ATGTATCGATACAATCCACCATGTATCGATACAATGCATTTGAAATGATAACTATTAGGCTCA
* * * *
839181 ATGTATCGATACAATCCACCAGGTATCGAAACAATGCATTTGAAACT-ATAACTGTTGGGCTCA
1 ATGTATCGATACAATCCACCATGTATCGATACAATGCATTTGAAA-TGATAACTATTAGGCTCA
* ** *
839244 ATGTATTGATACAATTTACCTTGTATCGATACAAT
1 ATGTATCGATACAATCCACCATGTATCGATACAAT
839279 TCAATTATGA
Statistics
Matches: 81, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
63 80 0.99
64 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.33
Consensus pattern (63 bp):
ATGTATCGATACAATCCACCATGTATCGATACAATGCATTTGAAATGATAACTATTAGGCTCA
Found at i:839367 original size:19 final size:19
Alignment explanation
Indices: 839339--839388 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 19
839329 CATTTTATGG
* *
839339 TGTATAGATACAAATAACA
1 TGTATCGATACAAACAACA
* *
839358 TGTATCGATACCAAGCAATA
1 TGTATCGATA-CAAACAACA
839378 TGTATCGATAC
1 TGTATCGATAC
839389 TTCTGGGTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (19 bp):
TGTATCGATACAAACAACA
Found at i:839620 original size:91 final size:91
Alignment explanation
Indices: 839357--839602 Score: 411
Period size: 91 Copynumber: 2.7 Consensus size: 91
839347 TACAAATAAC
* * * * **
839357 ATGTATCGATACCAAGCAATATGTATCGATACTTCTGGGTTTGTATTGATACATTCAAGGGTTTT
1 ATGTATCTATACCAAGCAATATGTATCGATACATCTAGGTGTGTATCAATACATTCAAGGGTTTT
839422 GACCTTTTGTAGCTTAAGTCAACCTT
66 GACCTTTTGTAGCTTAAGTCAACCTT
* *
839448 ATGTATCTGTACCAAGCAATATGTATCGATACATCTAGGTGCGTATCAATACATTCAAGGGTTTT
1 ATGTATCTATACCAAGCAATATGTATCGATACATCTAGGTGTGTATCAATACATTCAAGGGTTTT
839513 GACCTTTTGTAGCTTAAGTCAACCTT
66 GACCTTTTGTAGCTTAAGTCAACCTT
*
839539 ATTTATCTATACCAAGCAATATGTATCGATACATCTAGGTGTGTATCAATACATTCAAGGGTTT
1 ATGTATCTATACCAAGCAATATGTATCGATACATCTAGGTGTGTATCAATACATTCAAGGGTTT
839603 AGGGTAAAGT
Statistics
Matches: 144, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
91 144 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (91 bp):
ATGTATCTATACCAAGCAATATGTATCGATACATCTAGGTGTGTATCAATACATTCAAGGGTTTT
GACCTTTTGTAGCTTAAGTCAACCTT
Found at i:839635 original size:91 final size:91
Alignment explanation
Indices: 839360--839635 Score: 272
Period size: 91 Copynumber: 3.0 Consensus size: 91
839350 AAATAACATG
* * * ** ** *
839360 TATCGATACCAAGCAATATGTATCGATACTTCTGGGTTTGTATTGATACATTCAAGGGTTTTGAC
1 TATCTATACCAAGCAATATGTATCGATACATCTAGGTGCGTATCAATACATTCAAGGGTTTGGAC
*** ** * *
839425 CTTTTGTAGCTTAAGTCAACCTTATG
66 AAGTTGTAGCTTAAGAAAACATTATT
* *
839451 TATCTGTACCAAGCAATATGTATCGATACATCTAGGTGCGTATCAATACATTCAAGGGTTTTGAC
1 TATCTATACCAAGCAATATGTATCGATACATCTAGGTGCGTATCAATACATTCAAGGGTTTGGAC
*** ** *
839516 CTTTTGTAGCTTAAGTCAACCTTATT
66 AAGTTGTAGCTTAAGAAAACATTATT
*
839542 TATCTATACCAAGCAATATGTATCGATACATCTAGGTGTGTATCAATACATTCAAGGGTTTAGGG
1 TATCTATACCAAGCAATATGTATCGATACATCTAGGTGCGTATCAATACATTCAAGGGTTT--GG
839607 TA-AAGTT-TA-CTTAA-AAAACATTAGTT
64 -ACAAGTTGTAGCTTAAGAAAACATTA-TT
839633 TAT
1 TAT
839636 TGTTTGAAAA
Statistics
Matches: 163, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
90 6 0.04
91 151 0.93
92 2 0.01
93 3 0.02
94 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (91 bp):
TATCTATACCAAGCAATATGTATCGATACATCTAGGTGCGTATCAATACATTCAAGGGTTTGGAC
AAGTTGTAGCTTAAGAAAACATTATT
Found at i:847582 original size:52 final size:53
Alignment explanation
Indices: 847497--847626 Score: 219
Period size: 52 Copynumber: 2.5 Consensus size: 53
847487 CGAAATATGA
847497 AAATTTGCCTGCATGTATCGATAC-ATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACAATTTCATAGTGTATCGATACATCTGGGC
**
847549 AAATTTGCCTATATGTATCGATACAATTT-ATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACAATTTCATAGTGTATCGATACATCTGGGC
*
847601 AAATTTTCCTGCATGTATCGATACAA
1 AAATTTGCCTGCATGTATCGATACAA
847627 AGATTAGTGT
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
52 68 0.94
53 4 0.06
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (53 bp):
AAATTTGCCTGCATGTATCGATACAATTTCATAGTGTATCGATACATCTGGGC
Found at i:847635 original size:52 final size:52
Alignment explanation
Indices: 847497--847642 Score: 188
Period size: 52 Copynumber: 2.8 Consensus size: 52
847487 CGAAATATGA
**
847497 AAATTTGCCTGCATGTATCGATACATTTCA-TAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-AACATTAGTGTATCGATACATCTGGGC
** **
847549 AAATTTGCCTATATGTATCGATAC-AATTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACAAACAT-TAGTGTATCGATACATCTGGGC
* *
847601 AAATTTTCCTGCATGTATCGATACAAAGATTAGTGTATCGAT
1 AAATTTGCCTGCATGTATCGATACAAACATTAGTGTATCGAT
847643 TCAATGTATC
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
52 77 0.96
53 3 0.04
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACAAACATTAGTGTATCGATACATCTGGGC
Found at i:847748 original size:19 final size:18
Alignment explanation
Indices: 847711--847761 Score: 75
Period size: 19 Copynumber: 2.8 Consensus size: 18
847701 AGCGATACAT
*
847711 TGTATAGATACAAACTTA
1 TGTATCGATACAAACTTA
847729 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
*
847748 TGTATCGAGACAAA
1 TGTATCGATACAAA
847762 TCGTTGAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 13 0.43
19 17 0.57
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.29
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:848211 original size:13 final size:13
Alignment explanation
Indices: 848193--848249 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
848183 CAGAAAGTGT
848193 TGTATCGATACAA
1 TGTATCGATACAA
848206 TGTATCGATACATAA
1 TGTATCGATAC--AA
848221 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
848238 TGTATCGATACA
1 TGTATCGATACA
848250 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:848228 original size:32 final size:32
Alignment explanation
Indices: 848173--848273 Score: 175
Period size: 32 Copynumber: 3.1 Consensus size: 32
848163 TTCAACGATT
*
848173 TGTATCGATACAGAAAGTGTTGTATCGATACAA
1 TGTATCGATACA-TAAGTGTTGTATCGATACAA
848206 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
848238 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
848270 TGTA
1 TGTA
848274 AGCTACTGCC
Statistics
Matches: 66, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
32 54 0.82
33 12 0.18
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:848230 original size:19 final size:17
Alignment explanation
Indices: 848171--848269 Score: 79
Period size: 19 Copynumber: 5.9 Consensus size: 17
848161 ATTTCAACGA
848171 TTTGTATCGATACAGAAAG
1 TTTGTATCGATAC--AAAG
848190 TGTTGTATCGATAC-AA-
1 T-TTGTATCGATACAAAG
848206 --TGTATCGATACATAAG
1 TTTGTATCGATACA-AAG
848222 TGTTGTATCGATAC-AA-
1 T-TTGTATCGATACAAAG
848238 --TGTATCGATACATAAG
1 TTTGTATCGATACA-AAG
848254 TTTTGTATCGATACAA
1 -TTTGTATCGATACAA
848270 TGTAAGCTAC
Statistics
Matches: 67, Mismatches: 0, Indels: 27
0.71 0.00 0.29
Matches are distributed among these distances:
13 22 0.33
15 4 0.06
17 4 0.06
18 1 0.01
19 24 0.36
20 12 0.18
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.35
Consensus pattern (17 bp):
TTTGTATCGATACAAAG
Found at i:848391 original size:52 final size:52
Alignment explanation
Indices: 848331--848459 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
848321 CACTGATCTT
*
848331 TGTATCGATACATGCAGGCAAATTTGCTCAGATATATCGATACACGATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATATATCGATACACGATAAAA
* * *
848383 TGTATCGATACATGTAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATATATCGATACACGATAAAA
848435 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
848460 TCATATTTTG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATATATCGATACACGATAAAA
Found at i:855421 original size:13 final size:12
Alignment explanation
Indices: 855397--855424 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
855387 ACACACAAAC
855397 AAAAGTAAAAAA
1 AAAAGTAAAAAA
855409 AAAAGTAAAAAA
1 AAAAGTAAAAAA
855421 AAAA
1 AAAA
855425 CAAAACAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.86, C:0.00, G:0.07, T:0.07
Consensus pattern (12 bp):
AAAAGTAAAAAA
Found at i:855424 original size:16 final size:16
Alignment explanation
Indices: 855393--855439 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 16
855383 GTAAACACAC
855393 AAACAAAAGTAAAAAA-A
1 AAACAAAA--AAAAAACA
*
855410 AAAGTAAAAAAAAAACA
1 AAA-CAAAAAAAAAACA
855427 AAACAAAAAAAAA
1 AAACAAAAAAAAA
855440 CACAGAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 15 0.58
17 7 0.27
18 4 0.15
ACGTcount: A:0.85, C:0.06, G:0.04, T:0.04
Consensus pattern (16 bp):
AAACAAAAAAAAAACA
Found at i:855449 original size:15 final size:14
Alignment explanation
Indices: 855403--855450 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 14
855393 AAACAAAAGT
855403 AAAAAAAA-AAGTAA
1 AAAAAAAACAAG-AA
*
855417 AAAAAAAACAAAACA
1 AAAAAAAACAAGA-A
855432 AAAAAAAACACAGAA
1 AAAAAAAACA-AGAA
855447 AAAA
1 AAAA
855451 GGTGCAAAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
14 9 0.31
15 18 0.62
16 2 0.07
ACGTcount: A:0.85, C:0.08, G:0.04, T:0.02
Consensus pattern (14 bp):
AAAAAAAACAAGAA
Found at i:856908 original size:34 final size:34
Alignment explanation
Indices: 856865--857471 Score: 406
Period size: 34 Copynumber: 18.3 Consensus size: 34
856855 CTCAGTGGCA
* *
856865 TCAAAGTCCATGACTCCGTTGCACCTTTTTCTTT
1 TCAAAGTCCACGACTCCGTGGCACCTTTTTCTTT
856899 TCAAAGTCCACGACTCCGTGGCACCTTTTTCTTT
1 TCAAAGTCCACGACTCCGTGGCACCTTTTTCTTT
856933 TCAAAGTCCACGACTCCGTGGCACC---TTCTTT
1 TCAAAGTCCACGACTCCGTGGCACCTTTTTCTTT
* * * *
856964 TCAAAGCCCACAACTCTGTGGCATCTTTTTCCTTT
1 TCAAAGTCCACGACTCCGTGGCACCTTTTT-CTTT
* * *
856999 TTAAAG-CACACAACTCCGTGGCACTCTTTTTC-CT
1 TCAAAGTC-CACGACTCCGTGGCAC-CTTTTTCTTT
* * *
857033 TCTAAGTCCACAACTCCGTGGCACC-----CGTT
1 TCAAAGTCCACGACTCCGTGGCACCTTTTTCTTT
* * *
857062 T--AAGCCCACAACTCCGTGGCACTCTTTTTC-CT
1 TCAAAGTCCACGACTCCGTGGCAC-CTTTTTCTTT
* *
857094 TCTAAGTCCACAACTCCGTGGCACC---TTCTTT
1 TCAAAGTCCACGACTCCGTGGCACCTTTTTCTTT
* *
857125 TCAAAG-CCAACAACTCCATGGCACTCTTTTTCCCTTT
1 TCAAAGTCC-ACGACTCCGTGGCAC-CTTTTT--CTTT
* *
857162 T-AAAGTCCAC-AGCTCCATGGCACCTTGTTCCTTT
1 TCAAAGTCCACGA-CTCCGTGGCACCTT-TTTCTTT
*
857196 T--AAGTCCACGACTCTGTGGCACC---TTCTTT
1 TCAAAGTCCACGACTCCGTGGCACCTTTTTCTTT
* * *
857225 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTT
1 TCAAAGTCCACGACTCCGTGGCAC-CTTTTT-CTTT
* * *
857261 TCAAAGCCCACAACTTCGTGGCACTCTTTTTCCCTTT
1 TCAAAGTCCACGACTCCGTGGCAC-CTTTTT--CTTT
* * *
857298 T-AAAGTCCACAACCCCGTGGCACCTTGTTCCTTT
1 TCAAAGTCCACGACTCCGTGGCACCTT-TTTCTTT
* * *
857332 T--AAGTCCATGACTCTGTGGCACC---TTCCTT
1 TCAAAGTCCACGACTCCGTGGCACCTTTTTCTTT
*
857361 TCAAAGTCCACGACTCTGTGGCACC---TTCTTT
1 TCAAAGTCCACGACTCCGTGGCACCTTTTTCTTT
* * *
857392 TCAAAGCCCACAACTCCGTGGCACTCGTTTTCCCTTT
1 TCAAAGTCCACGACTCCGTGGCAC-C-TTTT-TCTTT
* *
857429 T-AAAGCCCACAACTCCGTGGCA-CTTTATTCCTTT
1 TCAAAGTCCACGACTCCGTGGCACCTTT-TT-CTTT
857463 T--AAGTCCAC
1 TCAAAGTCCAC
857472 AACTTCATGG
Statistics
Matches: 479, Mismatches: 47, Indels: 95
0.77 0.08 0.15
Matches are distributed among these distances:
27 20 0.04
28 2 0.00
29 13 0.03
30 5 0.01
31 112 0.23
32 5 0.01
33 49 0.10
34 119 0.25
35 36 0.08
36 101 0.21
37 17 0.04
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.32
Consensus pattern (34 bp):
TCAAAGTCCACGACTCCGTGGCACCTTTTTCTTT
Found at i:857040 original size:100 final size:99
Alignment explanation
Indices: 856889--857451 Score: 464
Period size: 100 Copynumber: 5.7 Consensus size: 99
856879 TCCGTTGCAC
* * * *
856889 CTTTTT-CTTTTCAAAGTCCACGACTCCGTGGCACCTTTTTCTTTTCAAAGTCCACGACTCCGTG
1 CTTTTTCCTTTTTAAAGTCCACAACTCCGTGGCACCTTTTTC-CTTCAAAGTCCACAACTCCGTG
*
856953 GCACCTTCTTTTCAAAGCCCACAACTCTGTGGCAT
65 GCACCTTCCTTTCAAAGCCCACAACTCTGTGGCAT
*
856988 CTTTTTCCTTTTTAAAG-CACACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGT
1 CTTTTTCCTTTTTAAAGTC-CACAACTCCGTGGCAC-CTTTTTCCTTCAAAGTCCACAACTCCGT
* *
857052 GGCACC--CGTTT--AAGCCCACAACTCCGTGGCACT
64 GGCACCTTCCTTTCAAAGCCCACAACTCTGTGGCA-T
* * *
857085 CTTTTTCC-TTCT-AAGTCCACAACTCCGTGGCACCTTCTT--TTCAAAG-CCAACAACTCCATG
1 CTTTTTCCTTTTTAAAGTCCACAACTCCGTGGCACCTTTTTCCTTCAAAGTCC-ACAACTCCGTG
* * * ** *
857145 GCACTCTTTTTCCCTTTTAAAGTCCACAGCTCCATGGCAC
65 GCAC-C---TT-CCTTTCAAAGCCCACAACTCTGTGGCAT
* * * * *
857185 CTTGTTCC-TTTT-AAGTCCACGACTCTGTGGCACCTTCTT--TTCAAAGCCCACAACTCCGTGG
1 CTTTTTCCTTTTTAAAGTCCACAACTCCGTGGCACCTTTTTCCTTCAAAGTCCACAACTCCGTGG
857246 CACTCTTTTTCCCTTTCAAAGCCCACAACT-TCGTGGCACT
66 CAC-C---TT-CCTTTCAAAGCCCACAACTCT-GTGGCA-T
* * * ** ** *
857286 CTTTTTCCCTTTTAAAGTCCACAACCCCGTGGCACCTTGTTCCTTTTAAGTCCATGACTCTGTGG
1 CTTTTTCCTTTTTAAAGTCCACAACTCCGTGGCACCTTTTTCCTTCAAAGTCCACAACTCCGTGG
* *
857351 CACCTTCCTTTCAAAGTCCACGACTCTGTGGCA-
66 CACCTTCCTTTCAAAGCCCACAACTCTGTGGCAT
* * * * * *
857384 C--CTT-CTTTTCAAAGCCCACAACTCCGTGGCACTCGTTTTCCCTTTTAAAGCCCACAACTCCG
1 CTTTTTCCTTTTTAAAGTCCACAACTCCGTGGCAC-C-TTTTTCC-TTCAAAGTCCACAACTCCG
857446 TGGCAC
63 TGGCAC
857452 TTTATTCCTT
Statistics
Matches: 386, Mismatches: 52, Indels: 53
0.79 0.11 0.11
Matches are distributed among these distances:
91 2 0.01
92 20 0.05
93 1 0.00
94 5 0.01
95 43 0.11
96 26 0.07
97 14 0.04
98 25 0.06
99 11 0.03
100 156 0.40
101 36 0.09
102 4 0.01
103 23 0.06
104 1 0.00
105 19 0.05
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.32
Consensus pattern (99 bp):
CTTTTTCCTTTTTAAAGTCCACAACTCCGTGGCACCTTTTTCCTTCAAAGTCCACAACTCCGTGG
CACCTTCCTTTCAAAGCCCACAACTCTGTGGCAT
Found at i:857274 original size:136 final size:130
Alignment explanation
Indices: 856877--857471 Score: 679
Period size: 136 Copynumber: 4.5 Consensus size: 130
856867 AAAGTCCATG
* * *
856877 ACTCCGTTGCAC-CTTTTT--CTTTTCAAAGTCCACGACTCCGTGGCACCTTTTTCTTTTCAAAG
1 ACTCCGTGGCACTCTTTTTCCCTTTT-AAAGTCCACAACTCCGTGGCACCTTTTCCTTTT--AAG
* * *
856939 TCCACGACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCTGTGGCATCTTTTTCCTTTTTAAA
63 TCCACGACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCA-C--CTT-CTTTTCAAA
*
857004 GCACACA
124 GCCCACA
* * *
857011 ACTCCGTGGCACTCTTTTT-CCTTCT-AAGTCCACAACTCCGTGGCA-C----CCGTTTAAGCCC
1 ACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCACAACTCCGTGGCACCTTTTCCTTTTAAGTCC
* * * * *
857069 ACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCTTCTTTTCAAAGCCA
66 ACGACTCCGTGGCAC-CTTCTT--TTCAAAGCCCACAACTCCGTGGCACCTTCTTTTCAAAGCCC
857134 ACA
128 ACA
* * *
857137 ACTCCATGGCACTCTTTTTCCCTTTTAAAGTCCACAGCTCCATGGCACCTTGTTCCTTTTAAGTC
1 ACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCACAACTCCGTGGCACCTT-TTCCTTTTAAGTC
* *
857202 CACGACTCTGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTCAAAG
65 CACGACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCAC-C---TT-CTTTTCAAAG
857267 CCCACA
125 CCCACA
* *
857273 ACTTCGTGGCACTCTTTTTCCCTTTTAAAGTCCACAACCCCGTGGCACCTTGTTCCTTTTAAGTC
1 ACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCACAACTCCGTGGCACCTT-TTCCTTTTAAGTC
* * * * * *
857338 CATGACTCTGTGGCACCTTCCTTTCAAAGTCCACGACTCTGTGGCACCTTCTTTTCAAAGCCCAC
65 CACGACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTTTCAAAGCCCAC
857403 A
130 A
* * *
857404 ACTCCGTGGCACTCGTTTTCCCTTTTAAAGCCCACAACTCCGTGGCACTTTATTCCTTTTAAGTC
1 ACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCACAACTCCGTGGCACCTT-TTCCTTTTAAGTC
857469 CAC
65 CAC
857472 AACTTCATGG
Statistics
Matches: 397, Mismatches: 46, Indels: 39
0.82 0.10 0.08
Matches are distributed among these distances:
126 31 0.08
127 26 0.07
128 23 0.06
129 6 0.02
130 21 0.05
131 99 0.25
132 3 0.01
133 6 0.02
134 53 0.13
135 9 0.02
136 120 0.30
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.33
Consensus pattern (130 bp):
ACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCACAACTCCGTGGCACCTTTTCCTTTTAAGTCC
ACGACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTTTCAAAGCCCACA
Found at i:857361 original size:30 final size:30
Alignment explanation
Indices: 856902--857415 Score: 132
Period size: 31 Copynumber: 15.7 Consensus size: 30
856892 TTTCTTTTCA
* *
856902 AAGTCCACGACTCCGTGGCACCTTTTTCTTTT
1 AAGTCCACGACTCTGTGGCACC--TTCCTTTT
*
856934 CAAAGTCCACGACTCCGTGGCACCTT-CTTTT
1 --AAGTCCACGACTCTGTGGCACCTTCCTTTT
* * *
856965 CAAAGCCCACAACTCTGTGGCATCTTTTTCCTTTTT
1 --AAGTCCACGACTCTGTGGCA-C--CTTCC-TTTT
* * *
857001 AAAG-CACACAACTCCGTGGCACTCTTTTTCCTTCT
1 -AAGTC-CACGACTCTGTGGCAC-C---TTCCTTTT
* * *
857036 AAGTCCACAACTCCGTGGCA-C--CCGTTT
1 AAGTCCACGACTCTGTGGCACCTTCCTTTT
* * * *
857063 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT
1 AAGTCCACGACTCTGTGGCAC-C---TTCCTTTT
* *
857097 AAGTCCACAACTCCGTGGCACCTT-CTTTT
1 AAGTCCACGACTCTGTGGCACCTTCCTTTT
* **
857126 CAAAG-CCAACAACTCCATGGCACTCTTTTTCCCTTTT
1 --AAGTCC-ACGACTCTGTGGCAC-C---TT-CCTTTT
**
857163 AAAGTCCAC-AGCTCCATGGCACCTTGTTCCTTTT
1 -AAGTCCACGA-CTCTGTGGCACC---TTCCTTTT
857197 AAGTCCACGACTCTGTGGCACCTT-CTTTT
1 AAGTCCACGACTCTGTGGCACCTTCCTTTT
* * * *
857226 CAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTCA
1 --AAGTCCACGACTCTGTGGCAC-C---TT-CCTTT-T
* *
857264 AAGCCCACAACT-TCGTGGCACTCTTTTTCCCTTTT
1 AAGTCCACGACTCT-GTGGCAC-C---TT-CCTTTT
* * *
857299 AAAGTCCACAACCCCGTGGCACCTTGTTCCTTTT
1 -AAGTCCACGACTCTGTGGCACC---TTCCTTTT
* *
857333 AAGTCCATGACTCTGTGGCACCTTCCTTTCA
1 AAGTCCACGACTCTGTGGCACCTTCCTTT-T
857364 AAGTCCACGACTCTGTGGCACCTT-CTTTT
1 AAGTCCACGACTCTGTGGCACCTTCCTTTT
* * *
857393 CAAAGCCCACAACTCCGTGGCAC
1 --AAGTCCACGACTCTGTGGCAC
857416 TCGTTTTCCC
Statistics
Matches: 398, Mismatches: 38, Indels: 91
0.76 0.07 0.17
Matches are distributed among these distances:
27 23 0.06
29 10 0.03
30 17 0.04
31 100 0.25
32 6 0.02
33 38 0.10
34 81 0.20
35 38 0.10
36 74 0.19
37 11 0.03
ACGTcount: A:0.20, C:0.35, G:0.14, T:0.31
Consensus pattern (30 bp):
AAGTCCACGACTCTGTGGCACCTTCCTTTT
Found at i:857496 original size:34 final size:34
Alignment explanation
Indices: 857063--857508 Score: 176
Period size: 36 Copynumber: 13.3 Consensus size: 34
857053 GCACCCGTTT
* * * *
857063 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT-
1 AAGCCCACAACTCCATGGCACT-TTATCCCTTTTA
* * *
857097 AAGTCCACAACTCCGTGGCAC-CT-T--CTTTTCA
1 AAGCCCACAACTCCATGGCACTTTATCCCTTTT-A
* *
857128 AAGCCAACAACTCCATGGCACTCTTTTTCCCTTTTA
1 AAGCCCACAACTCCATGGCA--CTTTATCCCTTTTA
* * * * *
857164 AAGTCCACAGCTCCATGGCACCTTGTTCCTTTT-
1 AAGCCCACAACTCCATGGCACTTTATCCCTTTTA
* * ** *
857197 AAGTCCACGACTCTGTGGCAC-CT-T--CTTTTCA
1 AAGCCCACAACTCCATGGCACTTTATCCCTTTT-A
* * *
857228 AAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTCA
1 AAGCCCACAACTCCATGGCA--CTTTATCCCTTTTA
* * *
857264 AAGCCCACAACTTCGTGGCACTCTTTTTCCCTTTTA
1 AAGCCCACAACTCCATGGCA--CTTTATCCCTTTTA
* * * * * *
857300 AAGTCCACAACCCCGTGGCACCTTGTTCCTTTT-
1 AAGCCCACAACTCCATGGCACTTTATCCCTTTTA
* ** ** * *
857333 AAGTCCATGACTCTGTGGCAC-CT-T-CCTTTCA
1 AAGCCCACAACTCCATGGCACTTTATCCCTTTTA
* * ** *
857364 AAGTCCACGACTCTGTGGCAC-CT-T--CTTTTCA
1 AAGCCCACAACTCCATGGCACTTTATCCCTTTT-A
* *
857395 AAGCCCACAACTCCGTGGCACTCGTTTTCCCTTTTA
1 AAGCCCACAACTCCATGGCACT--TTATCCCTTTTA
* *
857431 AAGCCCACAACTCCGTGGCACTTTATTCCTTTT-
1 AAGCCCACAACTCCATGGCACTTTATCCCTTTTA
* *
857464 AAGTCCACAACTTCATGGCATCTTTCA-CCCTTTTTA
1 AAGCCCACAACTCCATGGCA-CTTT-ATCCC-TTTTA
857500 AAGCCCACA
1 AAGCCCACA
857509 CAAGTCGGTG
Statistics
Matches: 334, Mismatches: 50, Indels: 54
0.76 0.11 0.12
Matches are distributed among these distances:
29 9 0.03
30 9 0.03
31 79 0.24
32 3 0.01
33 53 0.16
34 58 0.17
35 8 0.02
36 101 0.30
37 14 0.04
ACGTcount: A:0.21, C:0.35, G:0.13, T:0.32
Consensus pattern (34 bp):
AAGCCCACAACTCCATGGCACTTTATCCCTTTTA
Found at i:857632 original size:33 final size:33
Alignment explanation
Indices: 857490--857658 Score: 256
Period size: 32 Copynumber: 5.2 Consensus size: 33
857480 GGCATCTTTC
*
857490 ACCCTT-TTTAAAGCCCACACAAGTCGGTGGCA
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
857522 ACCCTTCTC-AAAGCCCACACAAGTCGGTGGCA
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
* *
857554 ACCCTTCTC-AAAGCCCATACAAGTCGATGGCA
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
*
857586 ACCC-TCTCTAAAGCCCACACAAGTTGGTGGCA
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
* *
857618 ACCATTCTCTAAAGCCCACATAAGTCGGTGGCA
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
857651 ACCCTTCT
1 ACCCTTCT
857659 AAGCCCAATA
Statistics
Matches: 124, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
31 4 0.03
32 86 0.69
33 34 0.27
ACGTcount: A:0.28, C:0.34, G:0.17, T:0.20
Consensus pattern (33 bp):
ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
Found at i:857724 original size:49 final size:48
Alignment explanation
Indices: 857658--858090 Score: 421
Period size: 43 Copynumber: 9.1 Consensus size: 48
857648 GCAACCCTTC
*
857658 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTATCTT
* * * *
857707 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGTACC---TC--
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTT
* * * *
857750 CAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTA
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC-CTTATCTT
* * *
857799 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C---T-TT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTT
*
857842 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCCTCATCTTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CCTTATC-TT
* * *
857892 TAAG-CCTAATGTCGCTGGCCTTGAATTAGCACATTGGCA-C----CTT
1 TAAGTCC-AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTT
* *
857935 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCTTTTGTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC--CT-T-ATCTT
* * *
857987 TATGTCCAATATCACTGGCCTTGAATCAGCATATTGGCGTCTCTGTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC-AC-CT-T-ATCTT
* *
858039 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-ATCTT
858088 TAA
1 TAA
858091 CATTCCTAAG
Statistics
Matches: 322, Mismatches: 37, Indels: 50
0.79 0.09 0.12
Matches are distributed among these distances:
43 106 0.33
44 4 0.01
45 3 0.01
47 2 0.01
48 2 0.01
49 83 0.26
50 37 0.11
51 1 0.00
52 83 0.26
53 1 0.00
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (48 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTT
Found at i:857820 original size:92 final size:92
Alignment explanation
Indices: 857653--858090 Score: 529
Period size: 92 Copynumber: 4.6 Consensus size: 92
857643 CGGTGGCAAC
*
857653 CCTTCTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATG
1 CCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATG
*
857718 TAGCTGGCCTTGAATCAGCACATTGGTA
65 TAGCTGGCCTTGAATCAGCACATTGGCA
** * * *
857746 CCTCCAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTATAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
857811 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* * *
857838 CTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCCTCATCTTTTAAG-CCTAAT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATC-TTTAAGTCC-AAT
* *
857902 GTCGCTGGCCTTGAATTAGCACATTGGCA
64 GTAGCTGGCCTTGAATCAGCACATTGGCA
* * *
857931 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCTTTTGTCATCTTTATGTCCAA
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC-CTT-T-ATCTTTAAGTCCAA
* *
857996 TATCA-CTGGCCTTGAATCAGCATATTGGCGTCTCTGTCA
63 TGT-AGCTGGCCTTGAATCAGCACATT---G-----G-CA
* * * *
858035 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAA
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAA
858091 CATTCCTAAG
Statistics
Matches: 295, Mismatches: 34, Indels: 24
0.84 0.10 0.07
Matches are distributed among these distances:
92 128 0.43
93 80 0.27
94 1 0.00
95 28 0.09
96 5 0.02
98 1 0.00
101 7 0.02
103 3 0.01
104 42 0.14
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.33
Consensus pattern (92 bp):
CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGGCA
Found at i:858010 original size:52 final size:52
Alignment explanation
Indices: 857932--858076 Score: 229
Period size: 52 Copynumber: 2.8 Consensus size: 52
857922 ACATTGGCAC
*
857932 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCG-CTTTTGTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGTC-TCTGTCAT
* *
857984 CTTTATGTCCAATATCACTGGCCTTGAATCAGCATATTGGCGTCTCTGTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGTCTCTGTCAT
* *
858036 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGC
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC
858077 ACCTTCATCT
Statistics
Matches: 85, Mismatches: 7, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
52 84 0.99
53 1 0.01
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.34
Consensus pattern (52 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGTCTCTGTCAT
Found at i:858725 original size:19 final size:20
Alignment explanation
Indices: 858682--858726 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
858672 ATTTCAACGA
*
858682 TTTGTATCGATACATAAAGT
1 TTTGTAGCGATACATAAAGT
*
858702 GTTGTAGCGATACAT-AAGT
1 TTTGTAGCGATACATAAAGT
858721 TTTGTA
1 TTTGTA
858727 TCAATACAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (20 bp):
TTTGTAGCGATACATAAAGT
Found at i:858733 original size:19 final size:20
Alignment explanation
Indices: 858682--858734 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
858672 ATTTCAACGA
858682 TTTGTATCGATACATAAAGT
1 TTTGTATCGATACATAAAGT
* *
858702 GTTGTAGCGATACAT-AAGT
1 TTTGTATCGATACATAAAGT
*
858721 TTTGTATCAATACA
1 TTTGTATCGATACA
858735 ATATAAGCTA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (20 bp):
TTTGTATCGATACATAAAGT
Found at i:858795 original size:13 final size:13
Alignment explanation
Indices: 858777--858801 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
858767 ATTACTCAAA
858777 TGTATCGATACAT
1 TGTATCGATACAT
858790 TGTATCGATACA
1 TGTATCGATACA
858802 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:866242 original size:21 final size:21
Alignment explanation
Indices: 866201--866244 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
866191 CTCCCCTTTA
* *
866201 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
866222 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
866243 TC
1 TC
866245 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:868065 original size:13 final size:13
Alignment explanation
Indices: 868047--868085 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
868037 ATAATCACCC
*
868047 TGTATCGATACAT
1 TGTATCGATACAA
868060 TGTATCGATACAA
1 TGTATCGATACAA
868073 TGTATCGATACAA
1 TGTATCGATACAA
868086 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:870184 original size:15 final size:15
Alignment explanation
Indices: 870164--870194 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
870154 ATTTCGTTTG
*
870164 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
870179 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
870194 G
1 G
870195 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:872027 original size:21 final size:21
Alignment explanation
Indices: 871998--872042 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
871988 AAGTTTTCAT
*
871998 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
872018 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
872040 TTT
1 TTT
872043 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:875001 original size:21 final size:21
Alignment explanation
Indices: 874960--875003 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
874950 CTCCCCTTTA
* *
874960 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
874981 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
875002 TC
1 TC
875004 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:876798 original size:13 final size:13
Alignment explanation
Indices: 876780--876818 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
876770 ATAATCACCC
*
876780 TGTATCGATACAT
1 TGTATCGATACAA
876793 TGTATCGATACAA
1 TGTATCGATACAA
876806 TGTATCGATACAA
1 TGTATCGATACAA
876819 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:878916 original size:15 final size:15
Alignment explanation
Indices: 878896--878926 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
878886 ATTTCGTTTG
*
878896 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
878911 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
878926 G
1 G
878927 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:880758 original size:21 final size:21
Alignment explanation
Indices: 880729--880773 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
880719 AAGTTTTCAT
*
880729 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
880749 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
880771 TTT
1 TTT
880774 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:882992 original size:13 final size:13
Alignment explanation
Indices: 882974--882999 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
882964 CAATTTTTTG
882974 TGTATCGATACAT
1 TGTATCGATACAT
882987 TGTATCGATACAT
1 TGTATCGATACAT
883000 ACCTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:884460 original size:24 final size:24
Alignment explanation
Indices: 884446--884494 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
884436 AGTCAAAAGT
884446 AAACACAAAAAAAAAACAACAACA
1 AAACACAAAAAAAAAACAACAACA
*
884470 AAACACAAAAAAACAA-AACAA-A
1 AAACACAAAAAAAAAACAACAACA
884492 AAA
1 AAA
884495 GGTGCAAAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 4 0.17
23 5 0.21
24 15 0.62
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (24 bp):
AAACACAAAAAAAAAACAACAACA
Found at i:884462 original size:13 final size:12
Alignment explanation
Indices: 884446--884494 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 12
884436 AGTCAAAAGT
884446 AAACACAAAAAAA
1 AAACA-AAAAAAA
*
884459 AAACAACAACAAA
1 AAACAA-AAAAAA
*
884472 ACACAAAAAAACA
1 AAACAAAAAAA-A
884485 AAACAAAAAA
1 AAACAAAAAA
884495 GGTGCAAAGG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
12 5 0.17
13 25 0.83
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (12 bp):
AAACAAAAAAAA
Found at i:884837 original size:14 final size:14
Alignment explanation
Indices: 884818--884851 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
884808 TAATCTTCAC
*
884818 AAAAAAAGAAACAA
1 AAAAAAACAAACAA
*
884832 AAAAAAACACACAA
1 AAAAAAACAAACAA
884846 AAAAAA
1 AAAAAA
884852 GAGAGGAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.85, C:0.12, G:0.03, T:0.00
Consensus pattern (14 bp):
AAAAAAACAAACAA
Found at i:885904 original size:32 final size:31
Alignment explanation
Indices: 885799--885981 Score: 203
Period size: 32 Copynumber: 5.9 Consensus size: 31
885789 GTCAAATACC
*
885799 TTCTT-AAAGTCCACGACTCAGTGGCAATCTC
1 TTCTTCAAAGTCCACGACTCAGTGGC-ATCTT
* *
885830 TTC-TCAACGCCCACGACTCAGTGGCAT-TT
1 TTCTTCAAAGTCCACGACTCAGTGGCATCTT
*
885859 TGTC-TCAAAGTCCACGACTCAGTGGTATCCTT
1 T-TCTTCAAAGTCCACGACTCAGTGGCAT-CTT
885891 TTCTTCAAAGTCCACGACTCAGTGGCATCTT
1 TTCTTCAAAGTCCACGACTCAGTGGCATCTT
* * *
885922 TTGTCTCAAAGTCCACAACTTAGTGGCATCCTT
1 TTCT-TCAAAGTCCACGACTCAGTGGCAT-CTT
* * *
885955 TTCTGCAAAGTCCACAACTCCGTGGCA
1 TTCTTCAAAGTCCACGACTCAGTGGCA
885982 CCCTTTTAAG
Statistics
Matches: 131, Mismatches: 14, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
29 2 0.02
30 26 0.20
31 29 0.22
32 68 0.52
33 6 0.05
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.30
Consensus pattern (31 bp):
TTCTTCAAAGTCCACGACTCAGTGGCATCTT
Found at i:885933 original size:64 final size:62
Alignment explanation
Indices: 885804--885981 Score: 225
Period size: 64 Copynumber: 2.9 Consensus size: 62
885794 ATACCTTCTT
* * *
885804 AAAGTCCACGACTCAGTGGCAAT-CTCTTC-TCAACGCCCACGACTCAGTGGCATTTTGTCTC
1 AAAGTCCACGACTCAGTGG-AATCCTTTTCTTCAAAGTCCACGACTCAGTGGCATTTTGTCTC
*
885865 AAAGTCCACGACTCAGTGGTATCCTTTTCTTCAAAGTCCACGACTCAGTGGCATCTTTTGTCTC
1 AAAGTCCACGACTCAGTGGAATCCTTTTCTTCAAAGTCCACGACTCAGTGGCA--TTTTGTCTC
* * * * * *
885929 AAAGTCCACAACTTAGTGGCATCCTTTTCTGCAAAGTCCACAACTCCGTGGCA
1 AAAGTCCACGACTCAGTGGAATCCTTTTCTTCAAAGTCCACGACTCAGTGGCA
885982 CCCTTTTAAG
Statistics
Matches: 103, Mismatches: 10, Indels: 5
0.87 0.08 0.04
Matches are distributed among these distances:
60 2 0.02
61 24 0.23
62 21 0.20
64 56 0.54
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.28
Consensus pattern (62 bp):
AAAGTCCACGACTCAGTGGAATCCTTTTCTTCAAAGTCCACGACTCAGTGGCATTTTGTCTC
Found at i:886007 original size:27 final size:27
Alignment explanation
Indices: 885966--886069 Score: 118
Period size: 27 Copynumber: 3.6 Consensus size: 27
885956 TCTGCAAAGT
885966 CCACAACTCCGTGGCACCCTTTTAAGC
1 CCACAACTCCGTGGCACCCTTTTAAGC
* * *
885993 CCACAACTCCATGGCACTCTTTTTCCTTCTAAGT
1 CCACAACTCCGTGGCA--C-----CCTTTTAAGC
886027 CCACAACTCCGTGGCACCCTTTTAAGC
1 CCACAACTCCGTGGCACCCTTTTAAGC
886054 CCACAACTCCGTGGCA
1 CCACAACTCCGTGGCA
886070 TTCTTTTTCC
Statistics
Matches: 64, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
27 39 0.61
29 1 0.02
32 1 0.02
34 23 0.36
ACGTcount: A:0.22, C:0.39, G:0.13, T:0.25
Consensus pattern (27 bp):
CCACAACTCCGTGGCACCCTTTTAAGC
Found at i:886036 original size:34 final size:34
Alignment explanation
Indices: 885983--886506 Score: 454
Period size: 34 Copynumber: 16.0 Consensus size: 34
885973 TCCGTGGCAC
*
885983 CCTTTTAAGCCCACAACTCCATGGCACTCTTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
* *
886017 CCTTCTAAGTCCACAACTCCGTGGCA--C-----
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
*
886044 CCTTTTAAGCCCACAACTCCGTGGCATTCTTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
* *
886078 CCTTTTACGTCCACAACTCCGTGGCAC-CTTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
* * * *
886111 CTTTTTAAAGCCCACAAC-CTTGTGGCA-TCCTGTT
1 CCTTTT-AAGCCCACAACTC-CGTGGCACTCTTTTT
** *
886145 CCTTTTAAGTTCACAACTCCGTGGTACTCTTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
886179 CCCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 -CCTTTT-AAGCCCACAACTCCGTGGCACTCTTTTT
*
886215 CCTTTTAAGTCCACAACTCCGTGGCA--C-----
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
*
886242 CCTTTTAAGCCCACAACTCCGTGGCATTCTTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
* * *
886276 CCTTCTACGTCCACAACTCCGTGGCAC-CTTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
* ** * *
886309 CTTTTTAAAGCCCACAACTTGGTGGCA-TCCTGTT
1 CCTTTT-AAGCCCACAACTCCGTGGCACTCTTTTT
* *
886343 CCTTTTAAGTCCACAACTCCATGGCAC-C---TT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
* * * * *
886373 CCTTTCAAAGTCCGCGACTCCGTGGCAC-CTTCTT
1 CCTTT-TAAGCCCACAACTCCGTGGCACTCTTTTT
**
886407 --TTCAAAGCCCACAACTCCGTGGCACTCTTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
*
886439 CCCTTTTAAAGCCCACAACTCCGTGGCAC-CTTGTT
1 -CCTTTT-AAGCCCACAACTCCGTGGCACTCTTTTT
* * * *
886474 CCTTCTAAGTCCAAAACTCTGTGGCACTCTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTT
886507 AAGCCCACAA
Statistics
Matches: 396, Mismatches: 60, Indels: 68
0.76 0.11 0.13
Matches are distributed among these distances:
27 49 0.12
29 2 0.01
30 7 0.02
31 38 0.10
32 9 0.02
33 71 0.18
34 155 0.39
35 19 0.05
36 46 0.12
ACGTcount: A:0.19, C:0.34, G:0.13, T:0.34
Consensus pattern (34 bp):
CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
Found at i:886040 original size:61 final size:61
Alignment explanation
Indices: 885962--886533 Score: 483
Period size: 61 Copynumber: 8.9 Consensus size: 61
885952 CTTTTCTGCA
*
885962 AAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCATGGCACTCTTTTTCCTTCT
1 AAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT
* *
886023 AAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCATTCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT
* * * *
886084 ACGTCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAAC-CTTGTGGCA-TCCTGTTCC
1 AAGTCCACAACTCCGTGGCACC-----C-TTTT-AAGCCCACAACTC-CGTGGCACTCTTTTTCC
*
886147 TTTT
58 TTCT
* *
886151 AAGTTCACAACTCCGTGGTACTCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
1 AAGTCCACAACTCCGTGG----C----ACCCTTTT-AAGCCCACAACTCCGTGGCACTCTTTTTC
*
886216 CTTTT
57 CTTCT
*
886221 AAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCATTCTTTTTCCTTCT
1 AAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT
* ** * *
886282 ACGTCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTTGGTGGCA-TCCTGTTCCT
1 AAGTCCACAACTCCGTGGCACC-----C-TTTT-AAGCCCACAACTCCGTGGCACTCTTTTTCCT
*
886346 TTT
59 TCT
* * * * * * *
886349 AAGTCCACAACTCCATGGCACCTTCCTTTCAAAGTCCGCGACTCCGTGGCAC-CTTCTT--TTCA
1 AAGTCCACAACTCCGTGGCA-C--CCTTT-TAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT
* *
886411 AAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCAC-CTTGTTC
1 AAGTCCACAACTCCGTGGCA--------CCCTTTT-AAGCCCACAACTCCGTGGCACTCTTTTTC
886475 CTTCT
57 CTTCT
* * * *
886480 AAGTCCAAAACTCTGTGGCACTCTTTTAAGCCCACAACTCTGTGGCACTCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTCTTTT
886534 ACACTCTCTA
Statistics
Matches: 420, Mismatches: 50, Indels: 82
0.76 0.09 0.15
Matches are distributed among these distances:
60 20 0.05
61 142 0.34
62 27 0.06
64 22 0.05
65 1 0.00
66 3 0.01
67 92 0.22
68 36 0.09
69 43 0.10
70 31 0.07
71 1 0.00
75 2 0.00
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.33
Consensus pattern (61 bp):
AAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT
Found at i:886274 original size:27 final size:27
Alignment explanation
Indices: 886215--886267 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
886205 CACTCTTTTT
*
886215 CCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCAC
886242 CCTTTTAAGCCCACAACTCCGTGGCA
1 CCTTTTAAGCCCACAACTCCGTGGCA
886268 TTCTTTTTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.23, C:0.38, G:0.15, T:0.25
Consensus pattern (27 bp):
CCTTTTAAGCCCACAACTCCGTGGCAC
Found at i:886336 original size:198 final size:194
Alignment explanation
Indices: 885962--886506 Score: 707
Period size: 198 Copynumber: 2.8 Consensus size: 194
885952 CTTTTCTGCA
* *
885962 AAGTCCACAACTCCGTGGCA----CCCTTTT-AAGCCCACAACTCCATGGCACTCTTTTTCCTTC
1 AAGTCCACAACTCCATGGCACCTTCCCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTC
*
886022 TAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCATTCTTTTTCCTTTTACG
66 TAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCATTCTTTTTCCTTCTACG
886087 TCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACCTTGTGGCATCCTGTTCCTTTT
131 TCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACCTTGTGGCATCCTGTTCCTTTT
* * *
886151 AAGTTCACAACTCCGTGGTACTCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
1 AAGTCCACAACTCCATGGCAC-C---TTCCCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
*
886216 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCATTCTTTTTCCTTC
62 CTTCTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCATTCTTTTTCCTTC
886281 TACGTCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAA-CTTGGTGGCATCCTGTTCC
127 TACGTCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACCTT-GTGGCATCCTGTTCC
886345 TTTT
191 TTTT
* * * * *
886349 AAGTCCACAACTCCATGGCACCTT-CCTTTCAAAGTCCGCGACTCCGTGGCAC-CTTCTT--TTC
1 AAGTCCACAACTCCATGGCACCTTCCCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTC
* * * *
886410 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCA-CCTTGTT
66 TAAGTCCACAACTCCGTGGCA--------CCCTTTT-AAGCCCACAACTCCGTGGCATTCTTTTT
* * *
886474 CCTTCTAAGTCCAAAACTCTGTGGCACTCTTTT
122 CCTTCTACGTCCACAACTCCGTGGCAC-CTTTT
886507 AAGCCCACAA
Statistics
Matches: 315, Mismatches: 21, Indels: 30
0.86 0.06 0.08
Matches are distributed among these distances:
189 18 0.06
190 21 0.07
192 5 0.02
193 24 0.08
194 2 0.01
197 11 0.03
198 209 0.66
199 25 0.08
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.33
Consensus pattern (194 bp):
AAGTCCACAACTCCATGGCACCTTCCCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTC
TAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCATTCTTTTTCCTTCTACG
TCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACCTTGTGGCATCCTGTTCCTTTT
Found at i:886393 original size:31 final size:31
Alignment explanation
Indices: 885863--886470 Score: 218
Period size: 34 Copynumber: 18.9 Consensus size: 31
885853 GCATTTTGTC
* * * *
885863 TCAAAGTCCACGACTCAGTGGTATCCTT-TTCT
1 TCAAAGTCCACAACTCCGTGGCA-CCTTCCT-T
* * * *
885895 TCAAAGTCCACGACTCAGTGGCATCTT-TTGT
1 TCAAAGTCCACAACTCCGTGGCACCTTCCT-T
**
885926 CTCAAAGTCCACAACTTAGTGGCATCCTT--TT
1 -TCAAAGTCCACAACTCCGTGGCA-CCTTCCTT
885957 CTGCAAAGTCCACAACTCCGTGGCA-C--CCTT
1 -T-CAAAGTCCACAACTCCGTGGCACCTTCCTT
* * *
885987 T-TAAGCCCACAACTCCATGGCACTCTTTTTCC-T
1 TCAAAGTCCACAACTCCGTGGCAC-C---TTCCTT
*
886020 TCTAAGTCCACAACTCCGTGGCA-C--CCTT
1 TCAAAGTCCACAACTCCGTGGCACCTTCCTT
* * *
886048 T-TAAGCCCACAACTCCGTGGCATTCTTTTTCCTT
1 TCAAAGTCCACAACTCCGTGGCA--C--CTTCCTT
* * *
886082 T-TACGTCCACAACTCCGTGGCACCTTTTTCTTT
1 TCAAAGTCCACAACTCCGTGGCACC---TTCCTT
* * *
886115 TTAAAGCCCACAAC-CTTGTGGCATCCTGTTCCTT
1 TCAAAGTCCACAACTC-CGTGGCA-CC--TTCCTT
* * *
886149 T-TAAGTTCACAACTCCGTGGTACTCTTTTTCCCTT
1 TCAAAGTCCACAACTCCGTGGCAC-C---TT-CCTT
* *
886184 TTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTT
1 TCAAAGTCCACAACTCCGTGGCAC-C---TTCCTT
*
886219 T-TAAGTCCACAACTCCGTGGCA-C--CCTT
1 TCAAAGTCCACAACTCCGTGGCACCTTCCTT
* * *
886246 T-TAAGCCCACAACTCCGTGGCATTCTTTTTCC-T
1 TCAAAGTCCACAACTCCGTGGCA--C--CTTCCTT
* * *
886279 TCTACGTCCACAACTCCGTGGCACCTTTTTCTTT
1 TCAAAGTCCACAACTCCGTGGCACC---TTCCTT
* * **
886313 TTAAAGCCCACAACTTGGTGGCATCCTGTTCCTT
1 TCAAAGTCCACAACTCCGTGGCA-CC--TTCCTT
* *
886347 T-TAAGTCCACAACTCCATGGCACCTTCCTT
1 TCAAAGTCCACAACTCCGTGGCACCTTCCTT
* * *
886377 TCAAAGTCCGCGACTCCGTGGCACCTTCTTT
1 TCAAAGTCCACAACTCCGTGGCACCTTCCTT
*
886408 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTT
1 TCAAAGTCCACAACTCCGTGGCAC-C---TT-CCTT
* *
886444 TTAAAGCCCACAACTCCGTGGCACCTT
1 TCAAAGTCCACAACTCCGTGGCACCTT
886471 GTTCCTTCTA
Statistics
Matches: 459, Mismatches: 66, Indels: 102
0.73 0.11 0.16
Matches are distributed among these distances:
27 65 0.14
28 2 0.00
29 2 0.00
30 10 0.02
31 54 0.12
32 74 0.16
33 48 0.10
34 136 0.30
35 17 0.04
36 51 0.11
ACGTcount: A:0.20, C:0.34, G:0.14, T:0.32
Consensus pattern (31 bp):
TCAAAGTCCACAACTCCGTGGCACCTTCCTT
Found at i:886455 original size:98 final size:97
Alignment explanation
Indices: 886241--886552 Score: 280
Period size: 98 Copynumber: 3.2 Consensus size: 97
886231 CTCCGTGGCA
* * * * *
886241 CCCTTTT-AAGCCCACAACTCCGTGGCATTCTTTTTCCTTCTACGTCCACAACTCCGTGGCACCT
1 CCCTTTTAAAGCCCACAACTCCATGGCA--C-CTTTCCTTCAAAGTCCAAAACTCCGTGGCACC-
** * *
886305 TTTTCTTTTTAAAGCCCACAACTTGGTGGCA-TCCTGTT
62 --TTC-TTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
* ***
886343 -CCTTTT-AAGTCCACAACTCCATGGCACC-TTCCTTTCAAAGTCCGCGACTCCGTGGCACCTTC
1 CCCTTTTAAAGCCCACAACTCCATGGCACCTTTCC-TTCAAAGTCCAAAACTCCGTGGCACCTTC
886405 TTTTCAAAGCCCACAACTCCGTGGCACTCTTTTT
65 TTTT-AAAGCCCACAACTCCGTGGCACTCTTTTT
* * *
886439 CCCTTTTAAAGCCCACAACTCCGTGGCACCTTGTTCCTTCTAAGTCCAAAACTCTGTGGCA-C-T
1 CCCTTTTAAAGCCCACAACTCCATGGCACC-T-TTCCTTCAAAGTCCAAAACTCCGTGGCACCTT
* *
886502 CTTTT-AAGCCCACAACTCTGTGGCACTCTTTTA
64 CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
* *
886535 CACTCTCTAAAGCCCACA
1 CCCT-TTTAAAGCCCACA
886553 CAAGTCGGTG
Statistics
Matches: 179, Mismatches: 22, Indels: 23
0.80 0.10 0.10
Matches are distributed among these distances:
94 4 0.02
95 22 0.12
96 34 0.19
97 22 0.12
98 48 0.27
99 2 0.01
100 19 0.11
101 28 0.16
ACGTcount: A:0.21, C:0.35, G:0.13, T:0.31
Consensus pattern (97 bp):
CCCTTTTAAAGCCCACAACTCCATGGCACCTTTCCTTCAAAGTCCAAAACTCCGTGGCACCTTCT
TTTAAAGCCCACAACTCCGTGGCACTCTTTTT
Found at i:886470 original size:27 final size:28
Alignment explanation
Indices: 886441--886534 Score: 91
Period size: 27 Copynumber: 3.2 Consensus size: 28
886431 CTCTTTTTCC
*
886441 CTTTTAAAGCCCACAACTCCGTGGCACCTT
1 CTTTTAAAGCCCACAACTCTGTGGCA-C-T
* * * *
886471 GTTCCTTCTAAGTCCAAAACTCTGTGGCACT
1 CTT--TT-AAAGCCCACAACTCTGTGGCACT
886502 CTTTT-AAGCCCACAACTCTGTGGCACT
1 CTTTTAAAGCCCACAACTCTGTGGCACT
886529 CTTTTA
1 CTTTTA
886535 CACTCTCTAA
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
27 25 0.48
29 2 0.04
30 2 0.04
31 3 0.06
32 3 0.06
33 17 0.33
ACGTcount: A:0.22, C:0.32, G:0.14, T:0.32
Consensus pattern (28 bp):
CTTTTAAAGCCCACAACTCTGTGGCACT
Found at i:886485 original size:259 final size:256
Alignment explanation
Indices: 885962--886533 Score: 762
Period size: 259 Copynumber: 2.2 Consensus size: 256
885952 CTTTTCTGCA
*
885962 AAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCATGGCACTCTTTTTCCTTCTAAGT
1 AAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGT
* * *
886027 CCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCATTCTTTTTCCTTTTACGTCCAC
66 CCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCATTCCTGTTCCTTTTAAGTCCAC
* * * * **
886092 AACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACCTTGTGGCATCCTGTTCCTTTTAAGTTC
131 AACTCCATGGCACC--TTTCCTTTCAAAGCCCACAACCTCGTGGCATCC-GTTCCTTTTAAGCCC
* * *
886157 ACAACTCCGTGGTACTCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT
193 ACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCACTCTTGTTCCTTCT
* *
886221 AAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCATTCTTTTTCCTTCTACGT
1 AAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGT
**
886286 CCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTTGGTGGCA-TCCTGTTCCTTTTA
66 CCACAACTCCGTGGCACC-----C-TTTT-AAGCCCACAACTCCGTGGCATTCCTGTTCCTTTTA
* * *
886350 AGTCCACAACTCCATGGCACC-TTCCTTTCAAAGTCCGCGA-CTCCGTGGCA-CC-TT-CTTTTC
124 AGTCCACAACTCCATGGCACCTTTCCTTTCAAAGCCCACAACCT-CGTGGCATCCGTTCCTTTT-
886410 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCAC-CTTGTT
187 -AAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCACTCTTGTT
886474 CCTTCT
251 CCTTCT
* * * *
886480 AAGTCCAAAACTCTGTGGCACTCTTTTAAGCCCACAACTCTGTGGCACTCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTCTTTT
886534 ACACTCTCTA
Statistics
Matches: 278, Mismatches: 25, Indels: 20
0.86 0.08 0.06
Matches are distributed among these distances:
258 5 0.02
259 141 0.51
260 54 0.19
261 4 0.01
262 20 0.07
264 1 0.00
265 35 0.13
266 18 0.06
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.33
Consensus pattern (256 bp):
AAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGT
CCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCATTCCTGTTCCTTTTAAGTCCAC
AACTCCATGGCACCTTTCCTTTCAAAGCCCACAACCTCGTGGCATCCGTTCCTTTTAAGCCCACA
ACTCCGTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCACTCTTGTTCCTTCT
Found at i:886584 original size:32 final size:33
Alignment explanation
Indices: 886538--886637 Score: 168
Period size: 32 Copynumber: 3.1 Consensus size: 33
886528 TCTTTTACAC
*
886538 TCTCTAAAGCCCACACAAGTCGGTGGCAACCCT
1 TCTCCAAAGCCCACACAAGTCGGTGGCAACCCT
886571 TC-CCAAAGCCCACACAAGTCGGTGGCAACCC-
1 TCTCCAAAGCCCACACAAGTCGGTGGCAACCCT
*
886602 TCTCTAAAGCCCACACAAGTCGGTGGCAACCCT
1 TCTCCAAAGCCCACACAAGTCGGTGGCAACCCT
886635 TCT
1 TCT
886638 AAGCCCAATA
Statistics
Matches: 63, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
31 2 0.03
32 56 0.89
33 5 0.08
ACGTcount: A:0.27, C:0.38, G:0.18, T:0.17
Consensus pattern (33 bp):
TCTCCAAAGCCCACACAAGTCGGTGGCAACCCT
Found at i:886748 original size:43 final size:43
Alignment explanation
Indices: 886683--888339 Score: 1757
Period size: 43 Copynumber: 36.1 Consensus size: 43
886673 GCACCTTCAT
*
886683 CTTTAAGTCCAATGTAGTTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
886726 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C
*
886773 TTCTTTAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTGGCAC
1 --CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
886818 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
* *
886861 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C
886908 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 --CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
886953 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACACCTTC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C
* *
887000 ATCTTTAAGTCCAATGTAGATGGCCTTGAATCATCACATTGGCAC
1 --CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
* *
887045 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C
*
887092 TTCTTTAAGTCCAATGTAGCTGGCCTTAAATCAGCACATTGGCAC
1 --CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
887137 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-------C
*
887187 ATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 --CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
* *
887232 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C
887279 TTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 --CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
887324 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-------C
* *
887374 ATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCATATTGGCAC
1 --CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
887419 CTTTAAGTCCAATATAGTTGGCCTTGAATCAGCATATTGGCACCTTC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C
887466 TTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 --CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
* * * *
887511 CTTTAAGTCCAATATAGCTGGCCCTGAATCAGCATATCGGCACCTTTCCC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-------C
* *
887561 ATCTTTAAGTTCAATGTAGCTAGCCTTGAATCAGCACATTGGCAC
1 --CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
* * * *
887606 CTTTAAGTCCAATATTGCTAGCCTTGAATCAGCATATTGGCACCTTC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C
* *
887653 TTCTTTAAGTCCAATGTAGCTGGCCTTGAGTCAGCACATTAGCAC
1 --CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
887698 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
887741 CTTTAGGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C
*
887785 TTTATCTTTAAGTCCAATGTAGCTGGCCTTGAGTCAGCACATTGGCAC
1 -----CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
*
887833 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAACACATTGGCAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
*
887876 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
887919 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-------C
* * *
887969 ATCTTTAAGTTCAATGTAGCTAGCCTTGAATCAGCATATTGGCAC
1 --CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
* *
888014 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C
888061 TTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 --CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
* * * *
888106 CTTTAAGTCCAATATAGCTGGCCTTGAATTAGCATATCGGCACCTTTTCC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-------C
* *
888156 ATCTTTAAGTTCAATGTAGCTAGCCTTGAATCAGCACATTGGCAC
1 --CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
* * * *
888201 CTTTAAGTCCAATATTGCTAGCCTTGAATCAGCATATTGGCACCTTC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C
*
888248 TTCTTTAAGTCCAATGTAGCTGGCCTTGAGTCAGCACATTGGCAC
1 --CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
* *
888293 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
888336 CTTT
1 CTTT
888340 TCCATCTTTA
Statistics
Matches: 1390, Mismatches: 119, Indels: 210
0.81 0.07 0.12
Matches are distributed among these distances:
43 789 0.57
44 1 0.00
45 14 0.01
47 9 0.01
48 1 0.00
49 384 0.28
50 5 0.00
52 187 0.13
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (43 bp):
CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:886799 original size:92 final size:87
Alignment explanation
Indices: 886683--888339 Score: 1811
Period size: 92 Copynumber: 18.0 Consensus size: 87
886673 GCACCTTCAT
* * * * *
886683 CTTTAAGTCCAATGTAGTTGGCCTTGAATCAGCACATTGGCA-CCTTTAAGTCCAATATCGCTGG
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCCTTTAAGTCCAATGTAGCTGG
*
886747 CCTTGAATCAGCATATTGGCACCTTC
66 CCTTGAATCAGCACATTGGCA----C
* * *
886773 TTCTTTAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTGGCA-CCTTTAAGTCCAATGTAGCT
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCCTTTAAGTCCAATGTAGCT
886837 GGCCTTGAATCAGCACATTGGCAC
64 GGCCTTGAATCAGCACATTGGCAC
886861 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA---TC--CTTTAAGTCCAATGTA
886926 GCTGGCCTTGAATCAGCACATTGGCAC
61 GCTGGCCTTGAATCAGCACATTGGCAC
*
886953 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACACCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA---TC--CTTTAAGTCCAATGTA
* *
887018 GATGGCCTTGAATCATCACATTGGCAC
61 GCTGGCCTTGAATCAGCACATTGGCAC
887045 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA---TC--CTTTAAGTCCAATGTA
*
887110 GCTGGCCTTAAATCAGCACATTGGCAC
61 GCTGGCCTTGAATCAGCACATTGGCAC
* *
887137 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-----T-C--CTTTAAGTCCAAT
887202 GTAGCTGGCCTTGAATCAGCACATTGGCAC
58 GTAGCTGGCCTTGAATCAGCACATTGGCAC
887232 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA---TC--CTTTAAGTCCAATGTA
887297 GCTGGCCTTGAATCAGCACATTGGCAC
61 GCTGGCCTTGAATCAGCACATTGGCAC
* *
887324 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-----T-C--CTTTAAGTCCAAT
*
887389 GTAGCTGGCCTTGAATCAGCATATTGGCAC
58 GTAGCTGGCCTTGAATCAGCACATTGGCAC
*
887419 CTTTAAGTCCAATATAGTTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA---TC--CTTTAAGTCCAATGTA
887484 GCTGGCCTTGAATCAGCACATTGGCAC
61 GCTGGCCTTGAATCAGCACATTGGCAC
* * *
887511 CTTTAAGTCCAATATAGCTGGCCCTGAATCAGCATATCGGCACCTTTCCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA----T--C--CTTTAAGTCCAAT
*
887576 GTAGCTAGCCTTGAATCAGCACATTGGCAC
58 GTAGCTGGCCTTGAATCAGCACATTGGCAC
* *
887606 CTTTAAGTCCAATATTGCTAGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA---TC--CTTTAAGTCCAATGTA
* *
887671 GCTGGCCTTGAGTCAGCACATTAGCAC
61 GCTGGCCTTGAATCAGCACATTGGCAC
* * * *
887698 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CCTTTAGGTCCAATATAGCTGG
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCCTTTAAGTCCAATGTAGCTGG
*
887762 CCTTGAATCAGCATATTGGCACC
66 CCTTGAATCAGCACATTGGCA-C
* * *
887785 TTTATCTTTAAGTCCAATGTAGCTGGCCTTGAGTCAGCACATTGGCA-CCTTTAAGTCCAATGTA
1 -----CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCCTTTAAGTCCAATGTA
*
887849 GCTGGCCTTGAATCAACACATTGGCAC
61 GCTGGCCTTGAATCAGCACATTGGCAC
* *
887876 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-CCTTTAAGTCCAATATAGCTGG
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCCTTTAAGTCCAATGTAGCTGG
* *
887940 CCTTGAATCAGCATATCGGCACCTTTTCC
66 CCTTGAATCAGCACATTGGCA-------C
* * * *
887969 ATCTTTAAGTTCAATGTAGCTAGCCTTGAATCAGCATATTGGCA-CCTTTAAGTCCAATATAGCT
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCCTTTAAGTCCAATGTAGCT
*
888033 GGCCTTGAATCAGCATATTGGCACCTTC
64 GGCCTTGAATCAGCACATTGGCA----C
* * *
888061 TTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CCTTTAAGTCCAATATAGCT
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCCTTTAAGTCCAATGTAGCT
* * *
888125 GGCCTTGAATTAGCATATCGGCACCTTTTCC
64 GGCCTTGAATCAGCACATTGGCA-------C
* * * * * *
888156 ATCTTTAAGTTCAATGTAGCTAGCCTTGAATCAGCACATTGGCA-CCTTTAAGTCCAATATTGCT
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCCTTTAAGTCCAATGTAGCT
* *
888220 AGCCTTGAATCAGCATATTGGCACCTTC
64 GGCCTTGAATCAGCACATTGGCA----C
* * * *
888248 TTCTTTAAGTCCAATGTAGCTGGCCTTGAGTCAGCACATTGGCA-CCTTTAAGTCCAATATAGCT
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCCTTTAAGTCCAATGTAGCT
*
888312 GGCCTTGAATCAGCATATTGGCAC
64 GGCCTTGAATCAGCACATTGGCAC
888336 CTTT
1 CTTT
888340 TCCATCTTTA
Statistics
Matches: 1422, Mismatches: 110, Indels: 72
0.89 0.07 0.04
Matches are distributed among these distances:
86 159 0.11
87 1 0.00
88 3 0.00
90 1 0.00
91 1 0.00
92 832 0.59
93 8 0.01
94 7 0.00
95 410 0.29
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (87 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCCTTTAAGTCCAATGTAGCTGG
CCTTGAATCAGCACATTGGCAC
Found at i:886863 original size:21 final size:21
Alignment explanation
Indices: 886796--886863 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
886786 ATGTAGCTAG
886796 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCACATTGGCA
* * *
886817 CCTTTAAGTC--CA-ATGTAGCTGG
1 CCTTGAA-TCAGCACAT-TGGC--A
886839 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCACATTGGCA
886860 CCTT
1 CCTT
886864 TAAGTCCAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 12 0.35
22 8 0.24
23 5 0.15
24 2 0.06
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (21 bp):
CCTTGAATCAGCACATTGGCA
Found at i:887275 original size:187 final size:183
Alignment explanation
Indices: 886650--888339 Score: 1903
Period size: 187 Copynumber: 9.2 Consensus size: 183
886640 GCCCAATATC
* * *
886650 GCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGTTGGCCTTGAATCAG
1 GCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAG
* * * *
886715 CACATTGGCA----C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCT
60 CATATTGGCACCTTCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C-
* *
886774 TCTTTAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTGGCA---C--CTTTAAGTCCAATGTA
120 -CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTCATCTTTAAGTCCAATGTA
886834 GCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATT
1 GCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATT
*
886899 GGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCA
66 GGCACCTTCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCA
* *
886964 ATATAGCTGGCCTTGAATCAGCATATTGACACCTTCATCTTTAAGTCCAATGTA
131 ATATAGCTGGCCTTGAATCAGCACATTGGCACC-TCATCTTTAAGTCCAATGTA
* *
887018 GATGGCCTTGAATCATCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATT
1 GCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATT
*
887083 GGCACCTTCTTCTTTAAGTCCAATGTAGCTGGCCTTAAATCAGCACATTGGCACCTTTAAGTCCA
66 GGCACCTTCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCA
* * *
887148 ATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTTTAAGTTCAATGTA
131 ATATAGCTGGCCTTGAATCAGCACATTGGCACC---T-CATCTTTAAGTCCAATGTA
887205 GCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATT
1 GCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATT
887270 GGCACCTTCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCA
66 GGCACCTTCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCA
* * *
887335 ATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTTTAAGTTCAATGTA
131 ATATAGCTGGCCTTGAATCAGCACATTGGCACC---T-CATCTTTAAGTCCAATGTA
* *
887392 GCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATATAGTTGGCCTTGAATCAGCATATT
1 GCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATT
887457 GGCACCTTCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCA
66 GGCACCTTCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCA
* * * *
887522 ATATAGCTGGCCCTGAATCAGCATATCGGCACCTTTCCCATCTTTAAGTTCAATGTA
131 ATATAGCTGGCCTTGAATCAGCACATTGGCACC--T--CATCTTTAAGTCCAATGTA
* * *
887579 GCTAGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATTGCTAGCCTTGAATCAGCATATT
1 GCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATT
* *
887644 GGCACCTTCTTCTTTAAGTCCAATGTAGCTGGCCTTGAGTCAGCACATTAGCACCTTTAAGTCCA
66 GGCACCTTCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCA
* * *
887709 ATGTAGCTGGCCTTGAATCAGCACATTGGCA---C--CTTTAGGTCCAATATA
131 ATATAGCTGGCCTTGAATCAGCACATTGGCACCTCATCTTTAAGTCCAATGTA
* * *
887757 GCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGAGTCAG
1 GCTGGCCTTGAATCAGCACATTGGCA-C-----CTTTAAGTCCAATATAGCTGGCCTTGAATCAG
* *
887822 CACATTGGCA----C--CTTTAAGTCCAATGTAGCTGGCCTTGAATCAACACATTGGCACCTTTA
60 CATATTGGCACCTTCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTA
*
887881 AGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA---C--CTTTAAGTCCAATATA
125 AGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTCATCTTTAAGTCCAATGTA
* * * * *
887935 GCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTTTAAGTTCAATGTAGCTAGCCTTGAAT
1 GCTGGCCTTGAATCAGCACATTGGCA-------C--CTTTAAGTCCAATATAGCTGGCCTTGAAT
* *
888000 CAGCATATTGGCA----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCT
57 CAGCATATTGGCACCTTCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA---
*
888059 TCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA---C--CTTTAAGTCCAAT
119 -C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTCATCTTTAAGTCCAAT
*
888119 ATA
181 GTA
* * * * * *
888122 GCTGGCCTTGAATTAGCATATCGGCACCTTTTCCATCTTTAAGTTCAATGTAGCTAGCCTTGAAT
1 GCTGGCCTTGAATCAGCACATTGGCA-------C--CTTTAAGTCCAATATAGCTGGCCTTGAAT
* * * * *
888187 CAGCACATTGGCA----C--CTTTAAGTCCAATATTGCTAGCCTTGAATCAGCATATTGGCACCT
57 CAGCATATTGGCACCTTCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA---
* *
888246 TCTTCTTTAAGTCCAATGTAGCTGGCCTTGAGTCAGCACATTGGCA---C--CTTTAAGTCCAAT
119 -C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTCATCTTTAAGTCCAAT
*
888306 ATA
181 GTA
*
888309 GCTGGCCTTGAATCAGCATATTGGCACCTTT
1 GCTGGCCTTGAATCAGCACATTGGCACCTTT
888340 TCCATCTTTA
Statistics
Matches: 1406, Mismatches: 66, Indels: 74
0.91 0.04 0.05
Matches are distributed among these distances:
178 240 0.17
179 1 0.00
180 5 0.00
181 80 0.06
182 2 0.00
184 276 0.20
185 1 0.00
186 5 0.00
187 796 0.57
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (183 bp):
GCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATT
GGCACCTTCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCA
ATATAGCTGGCCTTGAATCAGCACATTGGCACCTCATCTTTAAGTCCAATGTA
Found at i:887421 original size:21 final size:21
Alignment explanation
Indices: 887397--887464 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
887387 ATGTAGCTGG
887397 CCTTGAATCAGCATATTGGCA
1 CCTTGAATCAGCATATTGGCA
* **
887418 CCTTTAAGTCCAATATAGTTGG--
1 CCTTGAA-T-CAGCATA-TTGGCA
887440 CCTTGAATCAGCATATTGGCA
1 CCTTGAATCAGCATATTGGCA
887461 CCTT
1 CCTT
887465 CTTCTTTAAG
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
19 4 0.11
20 5 0.14
21 11 0.31
22 7 0.19
23 5 0.14
24 4 0.11
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (21 bp):
CCTTGAATCAGCATATTGGCA
Found at i:887642 original size:22 final size:22
Alignment explanation
Indices: 887579--887644 Score: 59
Period size: 22 Copynumber: 3.0 Consensus size: 22
887569 GTTCAATGTA
*
887579 GCTAGCCTTGAATCAGCACATT
1 GCTAGCCTTGAATCAGCATATT
*
887601 GGC-A-CCTTTAAGTC--CAATATT
1 -GCTAGCCTTGAA-TCAGC-ATATT
887622 GCTAGCCTTGAATCAGCATATT
1 GCTAGCCTTGAATCAGCATATT
887644 G
1 G
887645 GCACCTTCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 13
0.68 0.06 0.26
Matches are distributed among these distances:
20 3 0.09
21 13 0.38
22 15 0.44
23 3 0.09
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.30
Consensus pattern (22 bp):
GCTAGCCTTGAATCAGCATATT
Found at i:887722 original size:22 final size:22
Alignment explanation
Indices: 887655--887722 Score: 63
Period size: 22 Copynumber: 3.1 Consensus size: 22
887645 GCACCTTCTT
887655 CTTTAAGTCCAATGTAGCTGGC
1 CTTTAAGTCCAATGTAGCTGGC
* *
887677 C-TTGAGTCAGCACAT-TAGC--AC
1 CTTTAAGTC--CA-ATGTAGCTGGC
887698 CTTTAAGTCCAATGTAGCTGGC
1 CTTTAAGTCCAATGTAGCTGGC
887720 CTT
1 CTT
887723 GAATCAGCAC
Statistics
Matches: 35, Mismatches: 4, Indels: 14
0.66 0.08 0.26
Matches are distributed among these distances:
19 2 0.06
20 6 0.17
21 8 0.23
22 11 0.31
23 6 0.17
24 2 0.06
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.31
Consensus pattern (22 bp):
CTTTAAGTCCAATGTAGCTGGC
Found at i:887857 original size:22 final size:22
Alignment explanation
Indices: 887790--887857 Score: 54
Period size: 22 Copynumber: 3.1 Consensus size: 22
887780 GCACCTTTAT
887790 CTTTAAGTCCAATGTAGCTGGC
1 CTTTAAGTCCAATGTAGCTGGC
* * *
887812 C-TTGAGTCAGCACAT-TGGC--AC
1 CTTTAAGTC--CA-ATGTAGCTGGC
887833 CTTTAAGTCCAATGTAGCTGGC
1 CTTTAAGTCCAATGTAGCTGGC
887855 CTT
1 CTT
887858 GAATCAACAC
Statistics
Matches: 33, Mismatches: 6, Indels: 14
0.62 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 8 0.24
22 11 0.33
23 5 0.15
24 2 0.06
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.31
Consensus pattern (22 bp):
CTTTAAGTCCAATGTAGCTGGC
Found at i:887878 original size:21 final size:21
Alignment explanation
Indices: 887854--887921 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
887844 ATGTAGCTGG
887854 CCTTGAATCAACACATTGGCA
1 CCTTGAATCAACACATTGGCA
* * * *
887875 CCTTTAAGTCCAATATAGCTGG--
1 CCTTGAA-T-CAACACA-TTGGCA
*
887897 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAACACATTGGCA
887918 CCTT
1 CCTT
887922 TAAGTCCAAT
Statistics
Matches: 33, Mismatches: 9, Indels: 10
0.63 0.17 0.19
Matches are distributed among these distances:
19 3 0.09
20 4 0.12
21 11 0.33
22 7 0.21
23 5 0.15
24 3 0.09
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (21 bp):
CCTTGAATCAACACATTGGCA
Found at i:887900 original size:22 final size:22
Alignment explanation
Indices: 887832--887943 Score: 58
Period size: 22 Copynumber: 5.2 Consensus size: 22
887822 CACATTGGCA
*
887832 CCTTTAAGTCCAATGTAGCTGG
1 CCTTTAAGTCCAATATAGCTGG
* * * *
887854 CCTTGAA-T-CAACACA-TTGG
1 CCTTTAAGTCCAATATAGCTGG
887873 CACCTTTAAGTCCAATATAGCTGG
1 --CCTTTAAGTCCAATATAGCTGG
* * *
887897 CCTTGAA-TCAGCACAT-TGGC--A
1 CCTTTAAGTC--CA-ATATAGCTGG
887918 CCTTTAAGTCCAATATAGCTGG
1 CCTTTAAGTCCAATATAGCTGG
887940 CCTT
1 CCTT
887944 GAATCAGCAT
Statistics
Matches: 63, Mismatches: 15, Indels: 24
0.62 0.15 0.24
Matches are distributed among these distances:
19 5 0.08
20 9 0.14
21 15 0.24
22 19 0.30
23 10 0.16
24 5 0.08
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (22 bp):
CCTTTAAGTCCAATATAGCTGG
Found at i:888039 original size:95 final size:95
Alignment explanation
Indices: 887876--888383 Score: 839
Period size: 95 Copynumber: 5.4 Consensus size: 95
887866 ACATTGGCAC
*
887876 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGC
*
887941 CTTGAATCAGCATATCGGCACCTTTTCCAT
66 CTTGAATCAGCATATTGGCACCTTTTCCAT
* * *
887971 CTTTAAGTTCAATGTAGCTAGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATATAGCTGGC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGC
*
888036 CTTGAATCAGCATATTGGCACC--TT-CTT
66 CTTGAATCAGCATATTGGCACCTTTTCCAT
888063 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGC
* *
888128 CTTGAATTAGCATATCGGCACCTTTTCCAT
66 CTTGAATCAGCATATTGGCACCTTTTCCAT
* * * *
888158 CTTTAAGTTCAATGTAGCTAGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATTGCTAGC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGC
*
888223 CTTGAATCAGCATATTGGCACC--TT-CTT
66 CTTGAATCAGCATATTGGCACCTTTTCCAT
*
888250 CTTTAAGTCCAATGTAGCTGGCCTTGAGTCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGC
888315 CTTGAATCAGCATATTGGCACCTTTTCCAT
66 CTTGAATCAGCATATTGGCACCTTTTCCAT
*
888345 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
888384 ACATCTTTTT
Statistics
Matches: 380, Mismatches: 27, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
92 168 0.44
93 4 0.01
94 4 0.01
95 204 0.54
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (95 bp):
CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGC
CTTGAATCAGCATATTGGCACCTTTTCCAT
Found at i:888237 original size:22 final size:22
Alignment explanation
Indices: 888174--888239 Score: 59
Period size: 22 Copynumber: 3.0 Consensus size: 22
888164 GTTCAATGTA
*
888174 GCTAGCCTTGAATCAGCACATT
1 GCTAGCCTTGAATCAGCATATT
*
888196 GGC-A-CCTTTAAGTC--CAATATT
1 -GCTAGCCTTGAA-TCAGC-ATATT
888217 GCTAGCCTTGAATCAGCATATT
1 GCTAGCCTTGAATCAGCATATT
888239 G
1 G
888240 GCACCTTCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 13
0.68 0.06 0.26
Matches are distributed among these distances:
20 3 0.09
21 13 0.38
22 15 0.44
23 3 0.09
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.30
Consensus pattern (22 bp):
GCTAGCCTTGAATCAGCATATT
Found at i:888392 original size:52 final size:53
Alignment explanation
Indices: 888293--888446 Score: 184
Period size: 52 Copynumber: 2.9 Consensus size: 53
888283 ACATTGGCAC
* *
888293 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTC-CAT
1 CTTTAAGTTCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTTTCTCAT
* * *
888345 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCTTTTTTCTCAT
1 CTTTAAGTTCAATATAGCTGGCCTTGAATCAGCATATTGGCATC--TTTTCTCAT
* * * * * *
888400 TTTTAAGCTCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTT
1 CTTTAAGTTCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTT
888447 ATCACTTTTC
Statistics
Matches: 85, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
52 39 0.46
53 3 0.04
54 5 0.06
55 38 0.45
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (53 bp):
CTTTAAGTTCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTTTCTCAT
Found at i:888430 original size:55 final size:53
Alignment explanation
Indices: 888293--888446 Score: 177
Period size: 55 Copynumber: 2.9 Consensus size: 53
888283 ACATTGGCAC
*
888293 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-C-CTTTTCCAT
1 CTTTAAGT-CAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTTTTTCCAT
* * *
888345 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCTTTTTTCTCAT
1 CTTTAAG-TCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTTTTTC-CAT
* * * * *
888400 TTTTAAGCTCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTT
1 CTTTAAG-TCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTT
888447 ATCACTTTTC
Statistics
Matches: 85, Mismatches: 13, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
52 37 0.44
53 2 0.02
54 5 0.06
55 41 0.48
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (53 bp):
CTTTAAGTCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTTTTTCCAT
Found at i:888533 original size:49 final size:49
Alignment explanation
Indices: 888461--888577 Score: 225
Period size: 49 Copynumber: 2.4 Consensus size: 49
888451 CTTTTCTCAT
888461 CTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
888510 CTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
*
888559 CTTTATCTTTAAGTCCAAT
1 CTTCATCTTTAAGTCCAAT
888578 ATTGCTAGCT
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
49 67 1.00
ACGTcount: A:0.23, C:0.27, G:0.16, T:0.33
Consensus pattern (49 bp):
CTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:890275 original size:19 final size:20
Alignment explanation
Indices: 890230--890282 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
890220 ATTTCAACGA
890230 TTTGTATCGATACATAAGGT
1 TTTGTATCGATACATAAGGT
*
890250 GTTGTATCGATACATAA-GT
1 TTTGTATCGATACATAAGGT
890269 TTTGTATCGATACA
1 TTTGTATCGATACA
890283 ATATAAGCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.40
Consensus pattern (20 bp):
TTTGTATCGATACATAAGGT
Found at i:890343 original size:13 final size:13
Alignment explanation
Indices: 890325--890349 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
890315 ATTACTCAAA
890325 TGTATCGATACAT
1 TGTATCGATACAT
890338 TGTATCGATACA
1 TGTATCGATACA
890350 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:890426 original size:51 final size:52
Alignment explanation
Indices: 890358--890487 Score: 217
Period size: 51 Copynumber: 2.5 Consensus size: 52
890348 CACTGATCTT
* *
890358 TGTATCGATACACGCAGGCAAATTTTCCTAGATGTACCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTACCGATACACTATAAAA
* *
890410 TG-ATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTACCGATACACTATAAAA
890461 TGTATCGATACATGCAGGCAAATTTTC
1 TGTATCGATACATGCAGGCAAATTTTC
890488 GTATTTTGGG
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
51 47 0.65
52 25 0.35
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTTCCCAGATGTACCGATACACTATAAAA
Found at i:891929 original size:19 final size:19
Alignment explanation
Indices: 891871--891936 Score: 72
Period size: 19 Copynumber: 3.7 Consensus size: 19
891861 TTTCAACGAT
*
891871 TTGTATCGATACAGAAAGTG
1 TTGTATCGATACA-TAAGTG
891891 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
891905 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
891923 TTGTATCGATACAT
1 TTGTATCGATACAT
891937 GTATCGATAC
Statistics
Matches: 40, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 11 0.28
15 2 0.05
17 2 0.05
19 13 0.32
20 12 0.30
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:891941 original size:12 final size:12
Alignment explanation
Indices: 891924--891948 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
891914 ACATAAGTGT
891924 TGTATCGATACA
1 TGTATCGATACA
891936 TGTATCGATACA
1 TGTATCGATACA
891948 T
1 T
891949 AAGTTTTGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (12 bp):
TGTATCGATACA
Found at i:891942 original size:31 final size:32
Alignment explanation
Indices: 891872--891971 Score: 157
Period size: 31 Copynumber: 3.1 Consensus size: 32
891862 TTCAACGATT
*
891872 TGTATCGATACAGAAAGTGTTGTATCGATACAA
1 TGTATCGATACA-TAAGTGTTGTATCGATACAA
891905 TGTATCGATACATAAGTGTTGTATCGATAC-A
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* *
891936 TGTATCGATACATAAGTTTTGCATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
891968 TGTA
1 TGTA
891972 AGCTACTACC
Statistics
Matches: 63, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
31 29 0.46
32 22 0.35
33 12 0.19
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:892027 original size:13 final size:13
Alignment explanation
Indices: 892009--892033 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
891999 ATTACTCAAA
892009 TGTATCGATACAT
1 TGTATCGATACAT
892022 TGTATCGATACA
1 TGTATCGATACA
892034 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:892086 original size:52 final size:53
Alignment explanation
Indices: 892022--892172 Score: 236
Period size: 52 Copynumber: 2.9 Consensus size: 53
892012 ATCGATACAT
***
892022 TGTATCGATACACTGAT-CTTTGTATCGATACATGCAGGCAAATTTTCCCAGA
1 TGTATCGATACACTGATAAAATGTATCGATACATGCAGGCAAATTTTCCCAGA
*
892074 TGTATCGATACAC-GATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACTGATAAAATGTATCGATACATGCAGGCAAATTTTCCCAGA
*
892126 TGTATCGATACA-TTATAAAATGTATCGATACATGCAGGCAAATTTTC
1 TGTATCGATACACTGATAAAATGTATCGATACATGCAGGCAAATTTTC
892173 ATATTTCGAG
Statistics
Matches: 91, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
51 3 0.03
52 88 0.97
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (53 bp):
TGTATCGATACACTGATAAAATGTATCGATACATGCAGGCAAATTTTCCCAGA
Found at i:898680 original size:63 final size:63
Alignment explanation
Indices: 898581--898740 Score: 275
Period size: 63 Copynumber: 2.5 Consensus size: 63
898571 CACGCTCCTT
** *
898581 TGTATCGATACAATTCATAATGTATCGATACAATGCATTTGAAATTCTAGCCATTGGGCTCAA
1 TGTATCGATACAATTCACCATGTATCGATACAATGCATTTGAAATTATAGCCATTGGGCTCAA
*
898644 TGTATCGATACAATTCACCATGTATCGATACAATGCATTTGAAATTATAGCCGTTGGGCTCAA
1 TGTATCGATACAATTCACCATGTATCGATACAATGCATTTGAAATTATAGCCATTGGGCTCAA
*
898707 TGTATCGATACAATTTACCATGTATCGATACAAT
1 TGTATCGATACAATTCACCATGTATCGATACAAT
898741 TCAATTATGA
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 92 1.00
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (63 bp):
TGTATCGATACAATTCACCATGTATCGATACAATGCATTTGAAATTATAGCCATTGGGCTCAA
Found at i:902279 original size:62 final size:63
Alignment explanation
Indices: 902182--902334 Score: 186
Period size: 62 Copynumber: 2.4 Consensus size: 63
902172 CAACACTAGC
*
902182 TTTCAAGGCTAAGATAGAAACCTCCATATCCTTTCACGA-GCTAAGATAGAACC-TCTCTATC-T
1 TTTCAAGGCTAAGATAG-AACCTCCATATCCTTTCA-GAGGCTAAGATAGAACCTTCCCTATCTT
* * *
902244 TTTCACAGGCTAAGATAGAACCTCCTTATCTTTTCATAGGCTAAGATAGAACCTTTGTCCCTATC
1 TTTCA-AGGCTAAGATAGAACCTCCATATCCTTTCAGAGGCTAAGATAGAACC--T-TCCCTATC
902309 TT
62 TT
902311 TTTCAAAGGCTAAGATAGAACCTC
1 TTTC-AAGGCTAAGATAGAACCTC
902335 TCAATCACTT
Statistics
Matches: 79, Mismatches: 4, Indels: 11
0.84 0.04 0.12
Matches are distributed among these distances:
61 1 0.01
62 35 0.44
63 12 0.15
66 7 0.09
67 23 0.29
68 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (63 bp):
TTTCAAGGCTAAGATAGAACCTCCATATCCTTTCAGAGGCTAAGATAGAACCTTCCCTATCTT
Found at i:902321 original size:36 final size:32
Alignment explanation
Indices: 902182--902333 Score: 152
Period size: 31 Copynumber: 4.7 Consensus size: 32
902172 CAACACTAGC
* *
902182 TTTC-AAGGCTAAGATAGAAACC-TCCATATCC
1 TTTCAAAGGCTAAGATAG-AACCTTCCCTATCT
* *
902213 TTTC-ACGAGCTAAGATAGAACC-TCTCTATCT
1 TTTCAAAG-GCTAAGATAGAACCTTCCCTATCT
* *
902244 TTTCACAGGCTAAGATAGAACC-TCCTTATCT
1 TTTCAAAGGCTAAGATAGAACCTTCCCTATCT
*
902275 TTTCATAGGCTAAGATAGAACCTTTGTCCCTATCTT
1 TTTCAAAGGCTAAGATAGAACC--T-TCCCTATC-T
902311 TTTCAAAGGCTAAGATAGAACCT
1 TTTCAAAGGCTAAGATAGAACCT
902334 CTCAATCACT
Statistics
Matches: 103, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
31 62 0.60
32 11 0.11
34 1 0.01
35 7 0.07
36 22 0.21
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.32
Consensus pattern (32 bp):
TTTCAAAGGCTAAGATAGAACCTTCCCTATCT
Found at i:902794 original size:20 final size:20
Alignment explanation
Indices: 902769--902806 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
902759 GGACTCAATG
902769 TAATGTATAGATACAATTCA
1 TAATGTATAGATACAATTCA
*
902789 TAATGTATCGATACAATT
1 TAATGTATAGATACAATT
902807 ATAGTCGTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.37
Consensus pattern (20 bp):
TAATGTATAGATACAATTCA
Found at i:902914 original size:20 final size:20
Alignment explanation
Indices: 902889--902937 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
902879 AGTTTTATCG
902889 ATCGATACATTTCACGATGT
1 ATCGATACATTTCACGATGT
*
902909 ATCGATACATTTCACGGTGT
1 ATCGATACATTTCACGATGT
902929 ATCGATACA
1 ATCGATACA
902938 AAAAACATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (20 bp):
ATCGATACATTTCACGATGT
Found at i:902973 original size:20 final size:19
Alignment explanation
Indices: 902926--902976 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
902916 CATTTCACGG
902926 TGTATCGATACAAAAAACA
1 TGTATCGATACAAAAAACA
* ** *
902945 TGGATCGATACTAAGCAATA
1 TGTATCGATAC-AAAAAACA
902965 TGTATCGATACA
1 TGTATCGATACA
902977 TCTGGGTGTG
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 11 0.42
20 15 0.58
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.25
Consensus pattern (19 bp):
TGTATCGATACAAAAAACA
Found at i:909883 original size:52 final size:52
Alignment explanation
Indices: 909735--909863 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
909725 CAAAATATGA
*
909735 AAATTTGCCTGCATCTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* * * *
909787 AAATTTGCCTGTATGTATCAATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
909839 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
909864 AAGATCAGTG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:909890 original size:13 final size:13
Alignment explanation
Indices: 909872--909896 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
909862 CAAAGATCAG
909872 TGTATCGATACAA
1 TGTATCGATACAA
909885 TGTATCGATACA
1 TGTATCGATACA
909897 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:909979 original size:31 final size:32
Alignment explanation
Indices: 909941--910010 Score: 115
Period size: 31 Copynumber: 2.2 Consensus size: 32
909931 AGCTTCGTAG
909941 CGATACATTATATCGATACAA-ACTTATGTAT
1 CGATACATTATATCGATACAACACTTATGTAT
*
909972 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTATATCGATACAACACTTATGTAT
*
910004 CAATACA
1 CGATACA
910011 ACATTTTTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
31 20 0.56
32 16 0.44
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.33
Consensus pattern (32 bp):
CGATACATTATATCGATACAACACTTATGTAT
Found at i:910004 original size:19 final size:19
Alignment explanation
Indices: 909951--910026 Score: 76
Period size: 19 Copynumber: 4.4 Consensus size: 19
909941 CGATACATTA
909951 TATCGATACAA-ACTTATG
1 TATCGATACAACACTTATG
909969 TATCGAT---ACA--T-TG
1 TATCGATACAACACTTATG
909982 TATCGATACAACACTTATG
1 TATCGATACAACACTTATG
* * *
910001 TATCAATACAACATTTTTG
1 TATCGATACAACACTTATG
910020 TATCGAT
1 TATCGAT
910027 TCAAATCGTT
Statistics
Matches: 47, Mismatches: 4, Indels: 13
0.73 0.06 0.20
Matches are distributed among these distances:
13 9 0.19
14 1 0.02
15 1 0.02
16 4 0.09
18 8 0.17
19 24 0.51
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.37
Consensus pattern (19 bp):
TATCGATACAACACTTATG
Found at i:910852 original size:53 final size:51
Alignment explanation
Indices: 910767--911427 Score: 201
Period size: 53 Copynumber: 13.6 Consensus size: 51
910757 AGAGAAGAAT
* * *
910767 GCCAATGTGCTGATTAAAGGCCAACGACATTGGGTTTTAAAAATGATGAAAGC
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGG--TTAAAAATGATGAAAGC
* * * * *
910820 GCCAATATGCTGATTCAAGGCTAGCGATATT-GG-----ACT--TGAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGGTTAAAAATGATGAAAGC
* * *
910863 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGGCTTAAAAAATGA-CAAAGGC
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGG-TT-AAAAATGATGAAA-GC
* * * * *
910916 GCCAATATGCTGATTCAAGGCCAGCGATATT-GG-----ACT--TGGAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGGTTAAAAATGATGAAAGC
* * *
910959 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT-AAAA-GATGACACAGGC
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGG-GTTAAAAATGATGA-A-A-GC
* * * * * *
911012 GCCAATATGCTGATTCAAGGCCAGTGATATT-GG-----ACT--TGGAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGGTTAAAAATGATGAAAGC
* * * *
911055 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAGATGACG-AAGTC
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGG-GTTAAAA-ATGATGAAAG-C
* * * * *
911108 GCCAATATGCTGATTCAAGGCCAGCGATATT-GG-----ACT--TGGAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGGTTAAAAATGATGAAAGC
* * * *
911151 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAGATGACG-AAGTC
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGG-GTTAAAA-ATGATGAAAG-C
* * * *
911204 GCCAATATGCTGATTCAGGGCCAGCGATATT-GGTCT-----TG--G-AGGT
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGGT-TAAAAATGATGAAAGC
* * * * *
911247 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGA-CAAAGGC
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGG-GTTAAAAATGATGAAA-GC
* * * * * * *
911299 GCCAATATGCTAATTTAAGGCCAGCG--A-T--ATT-AGACT--TGAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGGTTAAAAATGATGAAAGC
* * * * *
911342 GCCAATTTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAGATGA-CAAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGG-GTTAAAA-ATGATGAAA-GC
*
911395 GCCAATATGCTGATTCAAGGCCAGCGATATTGG
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGG
911428 ACTTGGAGGT
Statistics
Matches: 434, Mismatches: 104, Indels: 140
0.64 0.15 0.21
Matches are distributed among these distances:
43 168 0.39
44 15 0.03
45 10 0.02
46 8 0.02
47 1 0.00
49 6 0.01
50 7 0.02
51 8 0.02
52 39 0.09
53 172 0.40
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.24
Consensus pattern (51 bp):
GCCAATATGCTGATTCAAGGCCAGCGACATTGGGTTAAAAATGATGAAAGC
Found at i:910881 original size:43 final size:43
Alignment explanation
Indices: 910820--911988 Score: 684
Period size: 43 Copynumber: 24.8 Consensus size: 43
910810 TGATGAAAGC
*
910820 GCCAATATGCTGATTCAAGGCTAGCGATATTGGACTTGAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAGGT
* * * * *
910863 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGGCTTAAAAAATGACAAAGGC
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T------TG---AAGGT
*
910916 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGGAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAGGT
* * * *
910959 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAGATGACACAGGC
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T------TG--A-AGGT
* *
911012 GCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTGGAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAGGT
* * *
911055 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAGATGACGAAGT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----GA--A-G--GT
*
911107 CGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGGAGGT
1 -GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAGGT
* * *
911151 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAGATGACGAAGT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----GA--A-G--GT
* * *
911203 CGCCAATATGCTGATTCAGGGCCAGCGATATTGGTCTTGGAGGT
1 -GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAGGT
* * * *
911247 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGACAAAGGC
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----TG---AAGGT
* * *
911299 GCCAATATGCTAATTTAAGGCCAGCGATATTAGACTTGAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAGGT
* * *
911342 GCCAATTTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAGATGACAAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T------TG---AAGGT
*
911395 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGGAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAGGT
* * * * * *
911438 GCCAATGTGCTGATTCAAGGCTAGCTACATTGGACTTAAAGATGACAAAG
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAG--G-----T
* * **
911488 GCACTAATATGTTGATTCAAGCCCAGCGATATTGGACTTGGTGGT
1 GC-C-AATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAGGT
* * * * * *
911533 GCCAATGTGCTAATTCAAGGCCAACTACATTGGACTTAAAAGATGACAAAGGC
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T------TG---AAGGT
* * *
911586 GCCAATATG-TGATTCAGGGCCAGCGATATTGGTCTTGGAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAGGT
* * * *
911628 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGACAAAGGC
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----TG---AAGGT
* * *
911680 GCCAATATGCTAATTTAAGGCCAGCGATATTAGACTTGAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAGGT
* *
911723 GCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAGGT
* * * * *
911766 GTCAATGTGCTGATTCGAGGCCAGCTACATTGGACTTAAAGATAAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT---G---AAGGT
* *
911815 GCCAATATGCTGATTCAAGGCCAACGATATTGGACTTGGAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAGGT
* * * *
911858 GCCAATGTGCTGATTCAAGGCCAACTACATTGGACTTAAAGATGATGGT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT---GA--A-GGT
* * * *
911907 GCCAATATGCTAATCCAAGGCCAGTGATATTGGACTTAAAGGTGAAGAT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----TGAAGGT
*
911956 GCCAATATGCAGATTCAAGGCCAGCGATATTGG
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGG
911989 GCTTAAAAGA
Statistics
Matches: 869, Mismatches: 151, Indels: 206
0.71 0.12 0.17
Matches are distributed among these distances:
42 11 0.01
43 394 0.45
44 11 0.01
45 5 0.01
46 14 0.02
47 4 0.00
48 1 0.00
49 106 0.12
50 15 0.02
51 4 0.00
52 121 0.14
53 182 0.21
55 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (43 bp):
GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAGGT
Found at i:910930 original size:96 final size:96
Alignment explanation
Indices: 910766--911762 Score: 1558
Period size: 96 Copynumber: 10.4 Consensus size: 96
910756 AAGAGAAGAA
* * * ** *
910766 TGCCAATGTGCTGATTAAAGGCCAACGACATTGGGTTTTAAAA-ATGATGAAA-GCGCCAATATG
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATT-GGACTTAAAAGATGA-CAAAGGCGCCAATATG
* *
910829 CTGATTCAAGGCTAGCGATATTGGACTTGAAGG
64 CTGATTCAAGGCCAGCGATATTGGACTTGGAGG
* *
910862 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGGCTTAAAAAATGACAAAGGCGCCAATATGCT
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAGATGACAAAGGCGCCAATATGCT
910927 GATTCAAGGCCAGCGATATTGGACTTGGAGG
66 GATTCAAGGCCAGCGATATTGGACTTGGAGG
*
910958 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAGATGACACAGGCGCCAATATGCT
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAGATGACAAAGGCGCCAATATGCT
*
911023 GATTCAAGGCCAGTGATATTGGACTTGGAGG
66 GATTCAAGGCCAGCGATATTGGACTTGGAGG
* *
911054 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAGATGACGAAGTCGCCAATATGCT
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAGATGACAAAGGCGCCAATATGCT
911119 GATTCAAGGCCAGCGATATTGGACTTGGAGG
66 GATTCAAGGCCAGCGATATTGGACTTGGAGG
* *
911150 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAGATGACGAAGTCGCCAATATGCT
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAGATGACAAAGGCGCCAATATGCT
* *
911215 GATTCAGGGCCAGCGATATTGGTCTTGGAGG
66 GATTCAAGGCCAGCGATATTGGACTTGGAGG
911246 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT-AAAGATGACAAAGGCGCCAATATGCT
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAGATGACAAAGGCGCCAATATGCT
* * * *
911310 AATTTAAGGCCAGCGATATTAGACTTGAAGG
66 GATTCAAGGCCAGCGATATTGGACTTGGAGG
* *
911341 TGCCAATTTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAGATGACAAAGGTGCCAATATGCT
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAGATGACAAAGGCGCCAATATGCT
911406 GATTCAAGGCCAGCGATATTGGACTTGGAGG
66 GATTCAAGGCCAGCGATATTGGACTTGGAGG
* * * *
911437 TGCCAATGTGCTGATTCAAGGCTAGCTACATTGGACTT-AAAGATGACAAAGGCACTAATATGTT
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAGATGACAAAGGCGCCAATATGCT
* *
911501 GATTCAAGCCCAGCGATATTGGACTTGGTGG
66 GATTCAAGGCCAGCGATATTGGACTTGGAGG
* *
911532 TGCCAATGTGCTAATTCAAGGCCAACTACATTGGACTTAAAAGATGACAAAGGCGCCAATATG-T
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAGATGACAAAGGCGCCAATATGCT
* *
911596 GATTCAGGGCCAGCGATATTGGTCTTGGAGG
66 GATTCAAGGCCAGCGATATTGGACTTGGAGG
911627 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT-AAAGATGACAAAGGCGCCAATATGCT
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAGATGACAAAGGCGCCAATATGCT
* * * *
911691 AATTTAAGGCCAGCGATATTAGACTTGAAGG
66 GATTCAAGGCCAGCGATATTGGACTTGGAGG
* *
911722 TGCCAATATGCTGATTCAAGGCCAG-TGATATTGGACTTAAA
1 TGCCAATGTGCTGATTCAAGGCCAGCT-ACATTGGACTTAAA
911763 GGTGTCAATG
Statistics
Matches: 835, Mismatches: 59, Indels: 14
0.92 0.06 0.02
Matches are distributed among these distances:
94 25 0.03
95 307 0.37
96 503 0.60
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (96 bp):
TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAGATGACAAAGGCGCCAATATGCT
GATTCAAGGCCAGCGATATTGGACTTGGAGG
Found at i:911095 original size:192 final size:190
Alignment explanation
Indices: 910766--911762 Score: 1543
Period size: 191 Copynumber: 5.2 Consensus size: 190
910756 AAGAGAAGAA
* * * **
910766 TGCCAATGTGCTGATTAAAGGCCAACGACATTGGGTTTTAAAAATGATGA-AA-GCGCCAATATG
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATT-GGACTT-AAAA-GATGACAAGGCGCCAATATG
* *
910829 CTGATTCAAGGCTAGCGATATTGGACTTGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATT
63 CTGATTCAAGGCCAGCGATATTGGACTTGGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATT
* *
910894 GGGCTTAAAAAATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGGAGG
128 GGACTT-AAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGGAGG
910958 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAGATGACACAGGCGCCAATATGCT
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAGATGACA-AGGCGCCAATATGCT
*
911023 GATTCAAGGCCAGTGATATTGGACTTGGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGG
65 GATTCAAGGCCAGCGATATTGGACTTGGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGG
* *
911088 ACTTAAAAGATGACGAAGTCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGGAGG
130 ACTT-AAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGGAGG
*
911150 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAGATGACGAAGTCGCCAATATGCT
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAGATGAC-AAGGCGCCAATATGCT
* *
911215 GATTCAGGGCCAGCGATATTGGTCTTGGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGG
65 GATTCAAGGCCAGCGATATTGGACTTGGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGG
* * * *
911280 ACTTAAAGATGACAAAGGCGCCAATATGCTAATTTAAGGCCAGCGATATTAGACTTGAAGG
130 ACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGGAGG
* *
911341 TGCCAATTTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAGATGACAAAGGTGCCAATATGCT
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAGATGAC-AAGGCGCCAATATGCT
*
911406 GATTCAAGGCCAGCGATATTGGACTTGGAGGTGCCAATGTGCTGATTCAAGGCTAGCTACATTGG
65 GATTCAAGGCCAGCGATATTGGACTTGGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGG
* * * * *
911471 ACTTAAAGATGACAAAGGCACTAATATGTTGATTCAAGCCCAGCGATATTGGACTTGGTGG
130 ACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGGAGG
* *
911532 TGCCAATGTGCTAATTCAAGGCCAACTACATTGGACTTAAAAGATGACAAAGGCGCCAATATG-T
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAGATGAC-AAGGCGCCAATATGCT
* *
911596 GATTCAGGGCCAGCGATATTGGTCTTGGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGG
65 GATTCAAGGCCAGCGATATTGGACTTGGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGG
* * * *
911661 ACTTAAAGATGACAAAGGCGCCAATATGCTAATTTAAGGCCAGCGATATTAGACTTGAAGG
130 ACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGGAGG
* *
911722 TGCCAATATGCTGATTCAAGGCCAG-TGATATTGGACTTAAA
1 TGCCAATGTGCTGATTCAAGGCCAGCT-ACATTGGACTTAAA
911763 GGTGTCAATG
Statistics
Matches: 742, Mismatches: 58, Indels: 12
0.91 0.07 0.01
Matches are distributed among these distances:
189 6 0.01
190 155 0.21
191 290 0.39
192 290 0.39
193 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (190 bp):
TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAGATGACAAGGCGCCAATATGCTG
ATTCAAGGCCAGCGATATTGGACTTGGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGA
CTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGGAGG
Found at i:911844 original size:92 final size:92
Alignment explanation
Indices: 911718--911950 Score: 367
Period size: 92 Copynumber: 2.5 Consensus size: 92
911708 ATTAGACTTG
* *
911718 AAGGTGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGGTGTCAATGTGCTGATTCG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGGTGCCAATGTGCTGATTCA
*
911783 AGGCCAGCTACATTGGACTTAAAGATA
66 AGGCCAACTACATTGGACTTAAAGATA
** **
911810 AAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTGGAGGTGCCAATGTGCTGATTCA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGGTGCCAATGTGCTGATTCA
*
911875 AGGCCAACTACATTGGACTTAAAGATG
66 AGGCCAACTACATTGGACTTAAAGATA
* * *
911902 ATGGTGCCAATATGCTAATCCAAGGCCAGTGATATTGGACTTAAAGGTG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGGTG
911951 AAGATGCCAA
Statistics
Matches: 126, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
92 126 1.00
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (92 bp):
AAGGTGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGGTGCCAATGTGCTGATTCA
AGGCCAACTACATTGGACTTAAAGATA
Found at i:912047 original size:33 final size:33
Alignment explanation
Indices: 912009--912189 Score: 209
Period size: 32 Copynumber: 5.7 Consensus size: 33
911999 AGATGCCACA
*
912009 ACTTGTGTAGGCTTTTGAAGAAGGTTGCCACCG
1 ACTTGTGTGGGCTTTTGAAGAAGGTTGCCACCG
* * *
912042 ACTTGTGTGGGCTTTAGAAG-GGGTTGCCACCA
1 ACTTGTGTGGGCTTTTGAAGAAGGTTGCCACCG
* * *
912074 ACTTGTGTGGGCTTTAGAAAAAGGTTTCCACCG
1 ACTTGTGTGGGCTTTTGAAGAAGGTTGCCACCG
*
912107 ACTTGTGTGGGC-TTTGAA-AAGGGTTGCCATCG
1 ACTTGTGTGGGCTTTTGAAGAA-GGTTGCCACCG
*
912139 ACTTGTGTGGGCTTTT---GAAGGTTGCCACTG
1 ACTTGTGTGGGCTTTTGAAGAAGGTTGCCACCG
912169 AC-T-TGTGGGCTTTTGAA-AAGG
1 ACTTGTGTGGGCTTTTGAAGAAGG
912190 AGAAAGATGC
Statistics
Matches: 128, Mismatches: 13, Indels: 17
0.81 0.08 0.11
Matches are distributed among these distances:
28 11 0.09
29 1 0.01
30 15 0.12
31 4 0.03
32 55 0.43
33 42 0.33
ACGTcount: A:0.20, C:0.17, G:0.32, T:0.31
Consensus pattern (33 bp):
ACTTGTGTGGGCTTTTGAAGAAGGTTGCCACCG
Found at i:912088 original size:65 final size:64
Alignment explanation
Indices: 912002--912189 Score: 235
Period size: 65 Copynumber: 3.0 Consensus size: 64
911992 TAAAAGAAGA
* *
912002 TGCCACAACTTGTGTAGGCTTTTGAAGAAGGTTGCCACCGACTTGTGTGGGCTTT-AGAAGGGGT
1 TGCCACAACTTGTGTGGGCTTTTGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTGA-AAAGGGT
* * *
912066 TGCCACCAACTTGTGTGGGCTTTAGAAAAAGGTTTCCACCGACTTGTGTGGGCTTTGAAAAGGGT
1 TGCCA-CAACTTGTGTGGGCTTTTGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTGAAAAGGGT
* *
912131 TGCCATCGACTTGTGTGGGCTTTT---GAAGGTTGCCACTGAC-T-TGTGGGCTTTTGAAAAGG
1 TGCCA-CAACTTGTGTGGGCTTTTGAAGAAGGTTGCCACCGACTTGTGTGGGC-TTTGAAAAGG
912190 AGAAAGATGC
Statistics
Matches: 110, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
60 7 0.06
61 11 0.10
62 13 0.12
64 5 0.05
65 73 0.66
66 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.31, T:0.31
Consensus pattern (64 bp):
TGCCACAACTTGTGTGGGCTTTTGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTGAAAAGGGT
Found at i:912269 original size:61 final size:61
Alignment explanation
Indices: 912186--912411 Score: 283
Period size: 61 Copynumber: 3.6 Consensus size: 61
912176 GGCTTTTGAA
* * *
912186 AAGGAGAAAGA-TGCCACGGAGTTGTGGACGTAAAAGGGTGCCACGGAGTTGTGGACTTAG
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAG
* * *
912246 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAAGAGAAAGGTTCCATGAAGTTGTGGACTT
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT--AAA-AG---GGTGCCACGGAGTTGTGGACTT
912311 AG
60 AG
* * * *
912313 AAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTAAACGGGTGCCACAGAGTTGTGCACTTAG
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAG
* *
912374 AAGGAAAAATAGTGCCACGGAGTTGTGGGCTTAGAAGG
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGG
912412 AAAAAGAGTG
Statistics
Matches: 142, Mismatches: 17, Indels: 13
0.83 0.10 0.08
Matches are distributed among these distances:
60 10 0.07
61 71 0.50
63 3 0.02
64 3 0.02
65 3 0.02
67 52 0.37
ACGTcount: A:0.33, C:0.13, G:0.35, T:0.19
Consensus pattern (61 bp):
AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAG
Found at i:912415 original size:95 final size:97
Alignment explanation
Indices: 912299--912523 Score: 341
Period size: 95 Copynumber: 2.3 Consensus size: 97
912289 GGTTCCATGA
* *
912299 AGTTGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTAAACGGGTGCCACAGAGTT
1 AGTTGTGGGCTTAGAAGGAAAAAGAGTGCCACAGAGTTATGGGCTTAAACGGGTGCCACAGAGTT
*
912364 GT-GCACTTAGAAGGAAAAATA-G-TGCCACGG
66 GTAG-ACTTAGAAGGAAAAAGAGGCTGCCACGG
*
912394 AGTTGTGGGCTTAGAAGGAAAAAGAGTGCCACGGAGTTATGGGCTTAAACGGGTGCCACAGAGTT
1 AGTTGTGGGCTTAGAAGGAAAAAGAGTGCCACAGAGTTATGGGCTTAAACGGGTGCCACAGAGTT
912459 GTAGACTTAGAAGGAAAAAGAGTGCTGCCACGG
66 GTAGACTTAGAAGGAAAAAGAG-GCTGCCACGG
* *
912492 AGTTGTGGGCTCTAAAAAGAAAAAG-GTGCCAC
1 AGTTGTGGGCT-TAGAAGGAAAAAGAGTGCCAC
912524 GGAGACGTGG
Statistics
Matches: 119, Mismatches: 6, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
95 80 0.67
96 1 0.01
97 1 0.01
98 26 0.22
99 11 0.09
ACGTcount: A:0.33, C:0.15, G:0.33, T:0.20
Consensus pattern (97 bp):
AGTTGTGGGCTTAGAAGGAAAAAGAGTGCCACAGAGTTATGGGCTTAAACGGGTGCCACAGAGTT
GTAGACTTAGAAGGAAAAAGAGGCTGCCACGG
Found at i:912450 original size:61 final size:64
Alignment explanation
Indices: 912385--912507 Score: 180
Period size: 61 Copynumber: 2.0 Consensus size: 64
912375 AGGAAAAATA
* * *
912385 GTGCCACGGAGTTGTGGGCTTAGAAGGAAAAAGA-G-TGCCACGGAGTTATGGGCT-TAAACGG
1 GTGCCACAGAGTTGTAGACTTAGAAGGAAAAAGAGGCTGCCACGGAGTTATGGGCTCTAAACGG
*
912446 GTGCCACAGAGTTGTAGACTTAGAAGGAAAAAGAGTGCTGCCACGGAGTTGTGGGCTCTAAA
1 GTGCCACAGAGTTGTAGACTTAGAAGGAAAAAGAG-GCTGCCACGGAGTTATGGGCTCTAAA
912508 AAGAAAAAGG
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
61 31 0.57
63 1 0.02
64 18 0.33
65 4 0.07
ACGTcount: A:0.29, C:0.15, G:0.35, T:0.20
Consensus pattern (64 bp):
GTGCCACAGAGTTGTAGACTTAGAAGGAAAAAGAGGCTGCCACGGAGTTATGGGCTCTAAACGG
Found at i:912554 original size:32 final size:31
Alignment explanation
Indices: 912509--912854 Score: 385
Period size: 32 Copynumber: 11.1 Consensus size: 31
912499 GGCTCTAAAA
** * *
912509 AGAAAAAGGTGCCACGGAGACGTGGACTTTG
1 AGAAAAAAATGCCACTGAGTCGTGGACTTTG
912540 AGACAAAAAATGCCACTGAGTCGTGGACTTTG
1 AGA-AAAAAATGCCACTGAGTCGTGGACTTTG
** *
912572 AAGAAAATGATGCCACTGAGTCATGGACTTTG
1 -AGAAAAAAATGCCACTGAGTCGTGGACTTTG
* *
912604 AG-ACAAAATGCCACTGAGTCGTGCACTTTG
1 AGAAAAAAATGCCACTGAGTCGTGGACTTTG
**
912634 AAGAAAAGGATGCCACTGAGTCGTGGACTTTG
1 -AGAAAAAAATGCCACTGAGTCGTGGACTTTG
* *
912666 AG-ACAAAACGCCACTGAGTCGTGGACTTTG
1 AGAAAAAAATGCCACTGAGTCGTGGACTTTG
**
912696 AAGAAAAGGATGCCACTGAGTCGTGGACTTTG
1 -AGAAAAAAATGCCACTGAGTCGTGGACTTTG
* *
912728 AG-ACAAAACGCCACTGAGTCGTGGACTTTG
1 AGAAAAAAATGCCACTGAGTCGTGGACTTTG
** *
912758 AAGAAAATGATGCCACTGAGTTGTGGACTTTG
1 -AGAAAAAAATGCCACTGAGTCGTGGACTTTG
* *
912790 AG-ACAAAATGCCACTGAGTCGTGGGCTTTG
1 AGAAAAAAATGCCACTGAGTCGTGGACTTTG
* * * *
912820 AGAAGAGATTGCCACTGAGTCGTGGACTTTA
1 AGAAAAAAATGCCACTGAGTCGTGGACTTTG
912851 AGAA
1 AGAA
912855 GGTATTTGAA
Statistics
Matches: 263, Mismatches: 43, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
30 96 0.37
31 44 0.17
32 120 0.46
33 3 0.01
ACGTcount: A:0.32, C:0.18, G:0.28, T:0.22
Consensus pattern (31 bp):
AGAAAAAAATGCCACTGAGTCGTGGACTTTG
Found at i:912638 original size:62 final size:62
Alignment explanation
Indices: 912512--912849 Score: 529
Period size: 62 Copynumber: 5.5 Consensus size: 62
912502 TCTAAAAAGA
* *
912512 AAAAGG-TGCCACGGAGACGTGGACTTTGAGACAAAAAATGCCACTGAGTCGTGGACTTTGAAG
1 AAAAGGATGCCACTGAGTCGTGGACTTTGAGAC--AAAATGCCACTGAGTCGTGGACTTTGAAG
* * *
912575 AAAATGATGCCACTGAGTCATGGACTTTGAGACAAAATGCCACTGAGTCGTGCACTTTGAAG
1 AAAAGGATGCCACTGAGTCGTGGACTTTGAGACAAAATGCCACTGAGTCGTGGACTTTGAAG
*
912637 AAAAGGATGCCACTGAGTCGTGGACTTTGAGACAAAACGCCACTGAGTCGTGGACTTTGAAG
1 AAAAGGATGCCACTGAGTCGTGGACTTTGAGACAAAATGCCACTGAGTCGTGGACTTTGAAG
*
912699 AAAAGGATGCCACTGAGTCGTGGACTTTGAGACAAAACGCCACTGAGTCGTGGACTTTGAAG
1 AAAAGGATGCCACTGAGTCGTGGACTTTGAGACAAAATGCCACTGAGTCGTGGACTTTGAAG
* * *
912761 AAAATGATGCCACTGAGTTGTGGACTTTGAGACAAAATGCCACTGAGTCGTGGGCTTTG-AG
1 AAAAGGATGCCACTGAGTCGTGGACTTTGAGACAAAATGCCACTGAGTCGTGGACTTTGAAG
*
912822 AAGA-GATTGCCACTGAGTCGTGGACTTT
1 AAAAGGA-TGCCACTGAGTCGTGGACTTT
912850 AAGAAGGTAT
Statistics
Matches: 258, Mismatches: 15, Indels: 6
0.92 0.05 0.02
Matches are distributed among these distances:
60 2 0.01
61 25 0.10
62 203 0.79
63 5 0.02
64 23 0.09
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.23
Consensus pattern (62 bp):
AAAAGGATGCCACTGAGTCGTGGACTTTGAGACAAAATGCCACTGAGTCGTGGACTTTGAAG
Found at i:914148 original size:16 final size:15
Alignment explanation
Indices: 914129--914186 Score: 62
Period size: 16 Copynumber: 3.7 Consensus size: 15
914119 GCCTTTGCAC
* *
914129 TTTTTTTGTGTGTGT
1 TTTTTTTTTGTTTGT
*
914144 TTTTTGTTTTGTTTAT
1 TTTTT-TTTTGTTTGT
914160 TTTTTTTTTGTTTTGT
1 TTTTTTTTTG-TTTGT
*
914176 TTTGTTTTTGT
1 TTTTTTTTTGT
914187 GTTTACTTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
15 11 0.31
16 25 0.69
ACGTcount: A:0.02, C:0.00, G:0.17, T:0.81
Consensus pattern (15 bp):
TTTTTTTTTGTTTGT
Found at i:914155 original size:5 final size:5
Alignment explanation
Indices: 914145--914183 Score: 53
Period size: 5 Copynumber: 7.8 Consensus size: 5
914135 TGTGTGTGTT
*
914145 TTTTG TTTTG TTTAT- TTTTT TTTTG TTTTG TTTTG TTTT
1 TTTTG TTTTG TTT-TG TTTTG TTTTG TTTTG TTTTG TTTT
914184 TGTGTTTACT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
4 1 0.03
5 29 0.94
6 1 0.03
ACGTcount: A:0.03, C:0.00, G:0.13, T:0.85
Consensus pattern (5 bp):
TTTTG
Found at i:914191 original size:33 final size:33
Alignment explanation
Indices: 914129--914196 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
914119 GCCTTTGCAC
*
914129 TTTTTTTGTGTGTGTTTTTTGTTTTGTTTATTT
1 TTTTTTTGTGTGTGTTTTTTGTTTTGTTTACTT
*
914162 TTTTTTTGT-TTTGTTTTGTT-TTTGTGTTTACTT
1 TTTTTTTGTGTGTGTTTT-TTGTTT-TGTTTACTT
914195 TT
1 TT
914197 GACTTTCTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
32 10 0.32
33 21 0.68
ACGTcount: A:0.03, C:0.01, G:0.16, T:0.79
Consensus pattern (33 bp):
TTTTTTTGTGTGTGTTTTTTGTTTTGTTTACTT
Found at i:920243 original size:21 final size:20
Alignment explanation
Indices: 920209--920255 Score: 67
Period size: 21 Copynumber: 2.3 Consensus size: 20
920199 GGAGGTGCTG
*
920209 AACATGCTGTAAATGCATGA
1 AACATGCTGAAAATGCATGA
920229 AACATAGCTGAAAATGCATGA
1 AACAT-GCTGAAAATGCATGA
*
920250 ATCATG
1 AACATG
920256 GGCTGTTAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.43, C:0.15, G:0.19, T:0.23
Consensus pattern (20 bp):
AACATGCTGAAAATGCATGA
Found at i:921148 original size:10 final size:10
Alignment explanation
Indices: 921133--921185 Score: 67
Period size: 10 Copynumber: 5.6 Consensus size: 10
921123 GGGGAAATGG
921133 TTTTTGACAA
1 TTTTTGACAA
921143 TTTTTGACAA
1 TTTTTGACAA
921153 ---TTGACAA
1 TTTTTGACAA
**
921160 TTGATGACAA
1 TTTTTGACAA
921170 TTTTTGACAA
1 TTTTTGACAA
921180 TTTTTG
1 TTTTTG
921186 CCCGGCGAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
7 7 0.19
10 30 0.81
ACGTcount: A:0.30, C:0.09, G:0.13, T:0.47
Consensus pattern (10 bp):
TTTTTGACAA
Found at i:921158 original size:17 final size:18
Alignment explanation
Indices: 921135--921185 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 18
921125 GGAAATGGTT
921135 TTTGACAATTTTTGACAA
1 TTTGACAATTTTTGACAA
**
921153 -TTGACAATTGATGACAA
1 TTTGACAATTTTTGACAA
921170 TTTTTGACAATTTTTG
1 --TTTGACAATTTTTG
921186 CCCGGCGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 15 0.58
20 11 0.42
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.45
Consensus pattern (18 bp):
TTTGACAATTTTTGACAA
Found at i:921476 original size:13 final size:13
Alignment explanation
Indices: 921458--921483 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
921448 ATTACTCAAA
921458 TGTATCGATACAT
1 TGTATCGATACAT
921471 TGTATCGATACAT
1 TGTATCGATACAT
921484 GCAGGCAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:921511 original size:32 final size:32
Alignment explanation
Indices: 921470--921546 Score: 136
Period size: 32 Copynumber: 2.4 Consensus size: 32
921460 TATCGATACA
*
921470 TTGTATCGATACATGCAGGCAAATTTGCCTAG
1 TTGTATCGATACATGCAGGCAAATTTGCCCAG
921502 TTGTATCGATACATGCAGGCAAATTTGCCCAG
1 TTGTATCGATACATGCAGGCAAATTTGCCCAG
*
921534 ATGTATCGATACA
1 TTGTATCGATACA
921547 CTATAAAATG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (32 bp):
TTGTATCGATACATGCAGGCAAATTTGCCCAG
Found at i:921581 original size:52 final size:52
Alignment explanation
Indices: 921503--921631 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
921493 TTTGCCTAGT
921503 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
921555 TGTATCGATACATGCAGGCAAATTTGCCTAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
921607 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
921632 TCATATTTTG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:924838 original size:52 final size:51
Alignment explanation
Indices: 924750--924900 Score: 194
Period size: 52 Copynumber: 2.9 Consensus size: 51
924740 CTCGAAATAT
* *
924750 GAAAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGG
1 GAAAATTTGCCTGCATGTATCGATAAATTT-TTAGTGTATCGATACATCTGG
* *
924802 GAAAATTTGCCTGTATGTATCGATAAATTTTGTAGTGTATCGATACATTTGG
1 GAAAATTTGCCTGCATGTATCGATAAATTTT-TAGTGTATCGATACATCTGG
* * ***
924854 GCAAATTTGCATGCATGTATCGATACAAAGATTAGTGTATCGATACA
1 GAAAATTTGCCTGCATGTATCGATA-AATTTTTAGTGTATCGATACA
924901 ATGTATCGAT
Statistics
Matches: 87, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
52 84 0.97
53 3 0.03
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35
Consensus pattern (51 bp):
GAAAATTTGCCTGCATGTATCGATAAATTTTTAGTGTATCGATACATCTGG
Found at i:924842 original size:20 final size:19
Alignment explanation
Indices: 924813--924851 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
924803 AAAATTTGCC
924813 TGTATGTATCGATAAATTT
1 TGTATGTATCGATAAATTT
*
924832 TGTAGTGTATCGATACATTT
1 TGTA-TGTATCGATAAATTT
924852 GGGCAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.28, C:0.08, G:0.18, T:0.46
Consensus pattern (19 bp):
TGTATGTATCGATAAATTT
Found at i:924907 original size:13 final size:13
Alignment explanation
Indices: 924889--924913 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
924879 CAAAGATTAG
924889 TGTATCGATACAA
1 TGTATCGATACAA
924902 TGTATCGATACA
1 TGTATCGATACA
924914 TTTGGGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:924975 original size:13 final size:13
Alignment explanation
Indices: 924957--925036 Score: 61
Period size: 13 Copynumber: 5.4 Consensus size: 13
924947 AGCTTCGTAG
924957 CGATACATTGTAT
1 CGATACATTGTAT
924970 CGATACAAACTTATGTAT
1 CGATAC--A--T-TGTAT
924988 CGATACATTGTAT
1 CGATACATTGTAT
*
925001 CGGTACAAACTTATGTAT
1 CGATAC--A--T-TGTAT
925019 CGATACATTGTAT
1 CGATACATTGTAT
925032 CGATA
1 CGATA
925037 TAACATTTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 20
0.71 0.03 0.26
Matches are distributed among these distances:
13 26 0.47
14 2 0.04
15 2 0.04
16 2 0.04
17 2 0.04
18 21 0.38
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:924988 original size:18 final size:18
Alignment explanation
Indices: 924965--925025 Score: 78
Period size: 18 Copynumber: 3.7 Consensus size: 18
924955 AGCGATACAT
924965 TGTATCGATACAAACTTA
1 TGTATCGATACAAACTTA
924983 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
*
924996 TGTATCGGTACAAACTTA
1 TGTATCGATACAAACTTA
925014 TGTATCGATACA
1 TGTATCGATACA
925026 TTGTATCGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
13 10 0.28
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
18 22 0.61
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.34
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:924995 original size:31 final size:31
Alignment explanation
Indices: 924957--925036 Score: 151
Period size: 31 Copynumber: 2.6 Consensus size: 31
924947 AGCTTCGTAG
924957 CGATACATTGTATCGATACAAACTTATGTAT
1 CGATACATTGTATCGATACAAACTTATGTAT
*
924988 CGATACATTGTATCGGTACAAACTTATGTAT
1 CGATACATTGTATCGATACAAACTTATGTAT
925019 CGATACATTGTATCGATA
1 CGATACATTGTATCGATA
925037 TAACATTTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (31 bp):
CGATACATTGTATCGATACAAACTTATGTAT
Found at i:926351 original size:28 final size:28
Alignment explanation
Indices: 926319--926403 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
926309 CGATACATTA
926319 AAATTATATTGATATAATATATCGATAT
1 AAATTATATTGATATAATATATCGATAT
**
926347 AAATT-TGATTG-TAT-CGATA-C-AT-T
1 AAATTAT-ATTGATATAATATATCGATAT
*
926370 AAAATTATATTAATATAATATATCGATAT
1 -AAATTATATTGATATAATATATCGATAT
926399 AAATT
1 AAATT
926404 TGATTGTATC
Statistics
Matches: 44, Mismatches: 5, Indels: 16
0.68 0.08 0.25
Matches are distributed among these distances:
23 1 0.02
24 10 0.23
25 5 0.11
26 6 0.14
27 5 0.11
28 16 0.36
29 1 0.02
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.42
Consensus pattern (28 bp):
AAATTATATTGATATAATATATCGATAT
Found at i:926368 original size:52 final size:52
Alignment explanation
Indices: 926306--926419 Score: 219
Period size: 52 Copynumber: 2.2 Consensus size: 52
926296 CAAAGCAATA
*
926306 TATCGATACATTAAAATTATATTGATATAATATATCGATATAAATTTGATTG
1 TATCGATACATTAAAATTATATTAATATAATATATCGATATAAATTTGATTG
926358 TATCGATACATTAAAATTATATTAATATAATATATCGATATAAATTTGATTG
1 TATCGATACATTAAAATTATATTAATATAATATATCGATATAAATTTGATTG
926410 TATCGATACA
1 TATCGATACA
926420 ATTTGGAAAA
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 61 1.00
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.41
Consensus pattern (52 bp):
TATCGATACATTAAAATTATATTAATATAATATATCGATATAAATTTGATTG
Found at i:928105 original size:21 final size:21
Alignment explanation
Indices: 928074--928128 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
928064 TAGTTGCAAC
*
928074 TCATTTCTTTTCTCTTCTAAT
1 TCATTTATTTTCTCTTCTAAT
*
928095 GT-ATTTATTTTCTTTTCTAAT
1 -TCATTTATTTTCTCTTCTAAT
*
928116 TCATTTAATTTCT
1 TCATTTATTTTCT
928129 TTTCAAGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 1 0.03
21 27 0.93
22 1 0.03
ACGTcount: A:0.18, C:0.16, G:0.02, T:0.64
Consensus pattern (21 bp):
TCATTTATTTTCTCTTCTAAT
Found at i:928129 original size:21 final size:21
Alignment explanation
Indices: 928082--928132 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
928072 ACTCATTTCT
* *
928082 TTTCTCTTCTAATGTATTTAT
1 TTTCTTTTCTAATGTATTTAA
928103 TTTCTTTTCTAAT-TCATTTAA
1 TTTCTTTTCTAATGT-ATTTAA
928124 TTTCTTTTC
1 TTTCTTTTC
928133 AAGAAAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 1 0.04
21 26 0.96
ACGTcount: A:0.18, C:0.16, G:0.02, T:0.65
Consensus pattern (21 bp):
TTTCTTTTCTAATGTATTTAA
Found at i:930308 original size:21 final size:19
Alignment explanation
Indices: 930283--930325 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 19
930273 CACCATAATG
930283 AAAATCAACATAAATACAACA
1 AAAATCAA-ATAAAT-CAACA
*
930304 AAAATCAAATAAATCATCA
1 AAAATCAAATAAATCAACA
930323 AAA
1 AAA
930326 TCCATAAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.33
20 6 0.29
21 8 0.38
ACGTcount: A:0.67, C:0.16, G:0.00, T:0.16
Consensus pattern (19 bp):
AAAATCAAATAAATCAACA
Found at i:935410 original size:27 final size:27
Alignment explanation
Indices: 935372--935437 Score: 132
Period size: 27 Copynumber: 2.4 Consensus size: 27
935362 GGTTGAAAAC
935372 GGGTTGGAGTGTCCCCTCGGAAGAATG
1 GGGTTGGAGTGTCCCCTCGGAAGAATG
935399 GGGTTGGAGTGTCCCCTCGGAAGAATG
1 GGGTTGGAGTGTCCCCTCGGAAGAATG
935426 GGGTTGGAGTGT
1 GGGTTGGAGTGT
935438 TTCCGATGAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.17, C:0.15, G:0.44, T:0.24
Consensus pattern (27 bp):
GGGTTGGAGTGTCCCCTCGGAAGAATG
Found at i:937618 original size:52 final size:52
Alignment explanation
Indices: 937540--937668 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
937530 CGAAATATGA
937540 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
** * * *
937592 AAATTTGTTTGCATGTTTCGATACATTTTATAGTGTATCGATACATTTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
937644 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
937669 AAGATTAGTG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Done.