Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold13
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: 2744999
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.26
Warning! 506982 characters in sequence are not A, C, G, or T
File 14 of 15
Found at i:2578247 original size:3 final size:3
Alignment explanation
Indices: 2578241--2578268 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
2578231 TTATTATTAT
2578241 TAG TAG TAG TAG TAG TAG TAG TAG TAG T
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG T
2578269 GGTGGAAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (3 bp):
TAG
Found at i:2578424 original size:5 final size:5
Alignment explanation
Indices: 2578414--2578440 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
2578404 ATCATATATG
2578414 ATTAT ATTAT ATTAT ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT AT
2578441 AAATAATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:2579983 original size:2 final size:2
Alignment explanation
Indices: 2579976--2580023 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
2579966 TTGAAGAAAT
2579976 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
2580018 GA TA TA
1 TA TA TA
2580024 ATGATAGTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:2582372 original size:6 final size:6
Alignment explanation
Indices: 2582361--2582453 Score: 186
Period size: 6 Copynumber: 15.5 Consensus size: 6
2582351 AGCATCTTAT
2582361 TGTGCG TGTGCG TGTGCG TGTGCG TGTGCG TGTGCG TGTGCG TGTGCG
1 TGTGCG TGTGCG TGTGCG TGTGCG TGTGCG TGTGCG TGTGCG TGTGCG
2582409 TGTGCG TGTGCG TGTGCG TGTGCG TGTGCG TGTGCG TGTGCG TGT
1 TGTGCG TGTGCG TGTGCG TGTGCG TGTGCG TGTGCG TGTGCG TGT
2582454 TAAACTTTGG
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 87 1.00
ACGTcount: A:0.00, C:0.16, G:0.49, T:0.34
Consensus pattern (6 bp):
TGTGCG
Found at i:2587675 original size:13 final size:13
Alignment explanation
Indices: 2587657--2587689 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
2587647 TAAAAAAATT
2587657 AATATTTTTGATA
1 AATATTTTTGATA
*
2587670 AATATTTTTTATA
1 AATATTTTTGATA
2587683 AATATTT
1 AATATTT
2587690 AAAAAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (13 bp):
AATATTTTTGATA
Found at i:2587977 original size:18 final size:19
Alignment explanation
Indices: 2587955--2587996 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
2587945 ATATTTTATT
*
2587955 AAAAATTGATATT-ATTTA
1 AAAAATTAATATTAATTTA
*
2587973 AAAAA-TAATTTTAATTTA
1 AAAAATTAATATTAATTTA
2587991 AAAAAT
1 AAAAAT
2587997 AATTTAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (19 bp):
AAAAATTAATATTAATTTA
Found at i:2587997 original size:18 final size:18
Alignment explanation
Indices: 2587968--2588006 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
2587958 AATTGATATT
*
2587968 ATTTAAAAAATAATTTTA
1 ATTTAAAAAATAATTTAA
2587986 ATTTAAAAAATAATTTAA
1 ATTTAAAAAATAATTTAA
2588004 ATT
1 ATT
2588007 ATATATTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATTTAAAAAATAATTTAA
Found at i:2588101 original size:34 final size:36
Alignment explanation
Indices: 2588058--2588129 Score: 89
Period size: 34 Copynumber: 2.1 Consensus size: 36
2588048 AAAACTATAA
*
2588058 AATTATTTTAAA-ATTACAAAT-TTGAATATATA-ATT
1 AATTATTTTAAATA-TA-AAATATTAAATATATATATT
2588093 AATT-TTTTAAATATAAAATATTAAATATATATATT
1 AATTATTTTAAATATAAAATATTAAATATATATATT
2588128 AA
1 AA
2588130 AATATTTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
33 4 0.12
34 19 0.58
35 10 0.30
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (36 bp):
AATTATTTTAAATATAAAATATTAAATATATATATT
Found at i:2588153 original size:36 final size:33
Alignment explanation
Indices: 2588064--2588153 Score: 83
Period size: 37 Copynumber: 2.6 Consensus size: 33
2588054 ATAAAATTAT
* *
2588064 TTTAAAAT-TACAAATTTGAATATATAATTAATT
1 TTTAAAATATA-AAATTTAAATATATAATTAATA
*
2588097 TTTTAAATATAAAATATTAAATATATATATTAAAATA
1 TTTAAAATATAAAAT-TTAAATATATA-ATT--AATA
* *
2588134 TTTAAAATCTGAAATTTAAA
1 TTTAAAATATAAAATTTAAA
2588154 AAAATTAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
33 11 0.24
34 12 0.26
35 3 0.07
36 5 0.11
37 15 0.33
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (33 bp):
TTTAAAATATAAAATTTAAATATATAATTAATA
Found at i:2590018 original size:17 final size:15
Alignment explanation
Indices: 2589977--2590020 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 15
2589967 TTTCTAATAT
2589977 TTTTTAA-AATTTAA
1 TTTTTAATAATTTAA
2589991 TTTTTAATAATTTAA
1 TTTTTAATAATTTAA
*
2590006 TATGTTTATTAATTT
1 T-T-TTTAATAATTT
2590021 TTAGAATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 7 0.27
15 8 0.31
16 1 0.04
17 10 0.38
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (15 bp):
TTTTTAATAATTTAA
Found at i:2591371 original size:23 final size:24
Alignment explanation
Indices: 2591342--2591391 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 24
2591332 CATAAAGCCA
2591342 TTAAGC-AAACTTTTAACAT-AAAT
1 TTAAGCAAAAC-TTTAACATAAAAT
*
2591365 TTAAGCAAAACTTTAATATAAAAT
1 TTAAGCAAAACTTTAACATAAAAT
2591389 TTA
1 TTA
2591392 CTTAGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 13 0.54
24 11 0.46
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.36
Consensus pattern (24 bp):
TTAAGCAAAACTTTAACATAAAAT
Found at i:2593001 original size:15 final size:15
Alignment explanation
Indices: 2592963--2592993 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
2592953 TTATCACTTC
2592963 TAATAAATTCTTTCT
1 TAATAAATTCTTTCT
2592978 TAATAAATTCTTTCT
1 TAATAAATTCTTTCT
2592993 T
1 T
2592994 TATGAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.13, G:0.00, T:0.55
Consensus pattern (15 bp):
TAATAAATTCTTTCT
Found at i:2594529 original size:30 final size:29
Alignment explanation
Indices: 2594495--2594570 Score: 84
Period size: 27 Copynumber: 2.7 Consensus size: 29
2594485 CACATGGTGA
*
2594495 AACATATGACATAAAAATTTGATGTGATGT
1 AACATATGACA-AAAAATTTGACGTGATGT
* * *
2594525 AACATGT-A-ACAAAATTTGACGTGGTGT
1 AACATATGACAAAAAATTTGACGTGATGT
*
2594552 AACACATGACAAAAAATTT
1 AACATATGACAAAAAATTT
2594571 TGGTGTAACA
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
27 20 0.54
28 2 0.05
29 9 0.24
30 6 0.16
ACGTcount: A:0.45, C:0.11, G:0.16, T:0.29
Consensus pattern (29 bp):
AACATATGACAAAAAATTTGACGTGATGT
Found at i:2594700 original size:36 final size:36
Alignment explanation
Indices: 2594633--2594701 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 36
2594623 AGAATTTAAT
* * *
2594633 GTGATAAAAGATGCAATAAGAACATGGAAATCTGAA
1 GTGATAAAAGATGCAATAAGAAAAAGAAAATCTGAA
* *
2594669 GTGATGAAATATGCAATAAGAAAAAGAAAATCT
1 GTGATAAAAGATGCAATAAGAAAAAGAAAATCT
2594702 ATCGTAACAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.52, C:0.07, G:0.20, T:0.20
Consensus pattern (36 bp):
GTGATAAAAGATGCAATAAGAAAAAGAAAATCTGAA
Found at i:2596519 original size:20 final size:21
Alignment explanation
Indices: 2596475--2596519 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
2596465 GTTAACGGCC
2596475 CATG-TTCATGCATTTTGAGT
1 CATGTTTCATGCATTTTGAGT
* *
2596495 TATGTTTCATGCATTTTTA-T
1 CATGTTTCATGCATTTTGAGT
2596515 CATGT
1 CATGT
2596520 CCAACACCTC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.20, C:0.13, G:0.16, T:0.51
Consensus pattern (21 bp):
CATGTTTCATGCATTTTGAGT
Found at i:2602692 original size:13 final size:13
Alignment explanation
Indices: 2602673--2602707 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 13
2602663 TGAAGAAGTA
2602673 AAAAAAACAAAAAC
1 AAAAAAA-AAAAAC
2602687 AAAAAAAAAAAAC
1 AAAAAAAAAAAAC
2602700 AAACAAAA
1 AAA-AAAA
2602708 TCAAGAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAAC
Found at i:2602692 original size:17 final size:17
Alignment explanation
Indices: 2602672--2602707 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
2602662 GTGAAGAAGT
*
2602672 AAAAAAAACAA-AAACA
1 AAAAAAAAAAACAAACA
2602688 AAAAAAAAAAACAAACA
1 AAAAAAAAAAACAAACA
2602705 AAA
1 AAA
2602708 TCAAGAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAACAAACA
Found at i:2602703 original size:23 final size:22
Alignment explanation
Indices: 2602672--2602717 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
2602662 GTGAAGAAGT
2602672 AAAAAAAACAAAAACAAAAAAA
1 AAAAAAAACAAAAACAAAAAAA
* *
2602694 AAAAACAAACAAAATCAAGAAAA
1 AAAAA-AAACAAAAACAAAAAAA
2602717 A
1 A
2602718 GAGCAAAAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.85, C:0.11, G:0.02, T:0.02
Consensus pattern (22 bp):
AAAAAAAACAAAAACAAAAAAA
Found at i:2604054 original size:60 final size:60
Alignment explanation
Indices: 2603988--2604231 Score: 206
Period size: 62 Copynumber: 4.0 Consensus size: 60
2603978 TCCATGACTC
* *
2603988 AGTGGCATCTCTTCTCTAAGTCCACGACTTAGTGGCATCTCTTCTCCAAGTCCACAATTCT
1 AGTGGCATCTCTTCTTTAAGTCCACGACTTAGTGGCATCTCTTCTCCAAGTCCACAACT-T
* * ** *
2604049 A-TGGCATCTCTT-TTTCAAGTCCATGACTTAGTGGCATCCTTTTCTTTAAGTCCACCACTT
1 AGTGGCATCTCTTCTTT-AAGTCCACGACTTAGTGGCAT-CTCTTCTCCAAGTCCACAACTT
* * * * **
2604109 AGTGGCATCCTTTTCTTTAAGTCCACCACTTAGTGGCATCTTTTTCTTTCTAAGTCCATGACTT
1 AGTGGCAT-CTCTTCTTTAAGTCCACGACTTAGTGGCATC-TCTTC--TCCAAGTCCACAACTT
* * * * * *
2604173 AGTGGCATCGTTTTTTTTCCAAGTCCACAACTCAGT-GCATCTCCTCTTCAAGTCCACAA
1 AGTGGCATC-TCTTCTTT--AAGTCCACGACTTAGTGGCATCTCTTCTCCAAGTCCACAA
2604232 TTCCGTGGCA
Statistics
Matches: 150, Mismatches: 22, Indels: 21
0.78 0.11 0.11
Matches are distributed among these distances:
59 2 0.01
60 33 0.22
61 24 0.16
62 37 0.25
63 4 0.03
64 31 0.21
65 5 0.03
66 14 0.09
ACGTcount: A:0.21, C:0.28, G:0.14, T:0.37
Consensus pattern (60 bp):
AGTGGCATCTCTTCTTTAAGTCCACGACTTAGTGGCATCTCTTCTCCAAGTCCACAACTT
Found at i:2604102 original size:31 final size:31
Alignment explanation
Indices: 2603975--2604260 Score: 212
Period size: 30 Copynumber: 9.2 Consensus size: 31
2603965 ACCCTTCCCA
* * * *
2603975 AAGTCCATGACTCAGTGGCAT-CTCTTCTCT
1 AAGTCCACGACTTAGTGGCATCCTTTTCTTT
* **
2604005 AAGTCCACGACTTAGTGGCAT-CTCTTCTCC
1 AAGTCCACGACTTAGTGGCATCCTTTTCTTT
* * *
2604035 AAGTCCACAATTCTA-TGGCAT-CTCTTT-TTC
1 AAGTCCACGACT-TAGTGGCATCCT-TTTCTTT
*
2604065 AAGTCCATGACTTAGTGGCATCCTTTTCTTT
1 AAGTCCACGACTTAGTGGCATCCTTTTCTTT
*
2604096 AAGTCCACCACTTAGTGGCATCCTTTTCTTT
1 AAGTCCACGACTTAGTGGCATCCTTTTCTTT
* *
2604127 AAGTCCACCACTTAGTGGCATCTTTTTCTTTCT
1 AAGTCCACGACTTAGTGGCATCCTTTTC-TT-T
* * *
2604160 AAGTCCATGACTTAGTGGCATCGTTTTTTTT
1 AAGTCCACGACTTAGTGGCATCCTTTTCTTT
* * ** *
2604191 CCAAGTCCACAACTCAGT-GCAT-CTCCTCTTC
1 --AAGTCCACGACTTAGTGGCATCCTTTTCTTT
* *
2604222 AAGTCCAC-AATTCCGTGGCA-CCTTTTCCTTTT
1 AAGTCCACGACTT-AGTGGCATCCTTTT-C-TTT
2604254 AAGTCCA
1 AAGTCCA
2604261 TAACTCTGTG
Statistics
Matches: 210, Mismatches: 32, Indels: 26
0.78 0.12 0.10
Matches are distributed among these distances:
28 2 0.01
29 12 0.06
30 71 0.34
31 70 0.33
32 17 0.08
33 38 0.18
ACGTcount: A:0.21, C:0.29, G:0.14, T:0.37
Consensus pattern (31 bp):
AAGTCCACGACTTAGTGGCATCCTTTTCTTT
Found at i:2604181 original size:95 final size:94
Alignment explanation
Indices: 2603975--2604261 Score: 304
Period size: 95 Copynumber: 3.1 Consensus size: 94
2603965 ACCCTTCCCA
* * * * *
2603975 AAGTCCATGACTCAGTGGCAT-CTCTTCTCTAAGTCCACGACTTAGTGGCATCTCTTCTCCAAGT
1 AAGTCCATGACTTAGTGGCATCCTTTTCTTTAAGTCCACAACTTAGTGGCATCTCTTCTTCAAGT
*
2604039 CCA-CAATTCTA-TGGCATC-TCTT-TTTC-
66 CCACCAA-T-TAGTGGCATCTTTTTCTTTCT
* * *
2604065 AAGTCCATGACTTAGTGGCATCCTTTTCTTTAAGTCCACCACTTAGTGGCATCCTTTTCTTTAAG
1 AAGTCCATGACTTAGTGGCATCCTTTTCTTTAAGTCCACAACTTAGTGGCAT-CTCTTCTTCAAG
*
2604130 TCCACCACTTAGTGGCATCTTTTTCTTTCT
65 TCCACCAATTAGTGGCATCTTTTTCTTTCT
* * * *
2604160 AAGTCCATGACTTAGTGGCATCGTTTTTTTTCCAAGTCCACAACTCAGT-GCATCTCCTCTTCAA
1 AAGTCCATGACTTAGTGGCATCCTTTTCTTT--AAGTCCACAACTTAGTGGCATCTCTTCTTCAA
* * *
2604224 GTCCA-CAATTCCGTGGCACCTTTTCCTTT-T
64 GTCCACCAATT-AGTGGCATCTTTTTCTTTCT
2604254 AAGTCCAT
1 AAGTCCAT
2604262 AACTCTGTGG
Statistics
Matches: 167, Mismatches: 20, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
90 20 0.12
91 29 0.17
92 21 0.13
93 5 0.03
94 17 0.10
95 57 0.34
96 4 0.02
97 14 0.08
ACGTcount: A:0.21, C:0.29, G:0.14, T:0.37
Consensus pattern (94 bp):
AAGTCCATGACTTAGTGGCATCCTTTTCTTTAAGTCCACAACTTAGTGGCATCTCTTCTTCAAGT
CCACCAATTAGTGGCATCTTTTTCTTTCT
Found at i:2604326 original size:34 final size:33
Alignment explanation
Indices: 2604222--2604694 Score: 279
Period size: 34 Copynumber: 14.3 Consensus size: 33
2604212 TCTCCTCTTC
* *
2604222 AAGTCCACAATTCCGTGGCACC-TTTTCCTTTT
1 AAGTCCACAACTCTGTGGCACCTTTTTCCTTTT
* * * * **
2604254 AAGTCCATAACTCTGTGGTACCATGTTCCCTTCA
1 AAGTCCACAACTCTGTGGCACC-TTTTTCCTTTT
*
2604288 AAGTCCACAACTCTGTGGCACCTTTTTCTTTTTT
1 AAGTCCACAACTCTGTGGCACCTTTTTC-CTTTT
*
2604322 AAGTCCACAACT-TCATGGCACTCTTTTTCCTTTT
1 AAGTCCACAACTCT-GTGGCAC-CTTTTTCCTTTT
* * *
2604356 AAGTCCACAACTCCGTGGCACTATTTTTTCTTTT
1 AAGTCCACAACTCTGTGGCAC-CTTTTTCCTTTT
* * * *
2604390 AAGTCCATAACTCTGTGACACTTTTTTCTTTTT
1 AAGTCCACAACTCTGTGGCACCTTTTTCCTTTT
* * * * *
2604423 CAAAG-CCTATAACTCAGTGGCATC-TCTT-C-TCT
1 --AAGTCC-ACAACTCTGTGGCACCTTTTTCCTTTT
* * * **
2604455 AAGTCCACGACTCAGTGGCATC-TTTTCCTTCA
1 AAGTCCACAACTCTGTGGCACCTTTTTCCTTTT
*
2604487 AAGTCCACAACTCTCTGGCA-CTTTGTTCCTTTT
1 AAGTCCACAACTCTGTGGCACCTTT-TTCCTTTT
* * * * *
2604520 GAGTTCACACCT-TCGTGACACCTTTTTCTTTTT
1 AAGTCCACAACTCT-GTGGCACCTTTTTCCTTTT
* ** * **
2604553 AAAGCCCACAACTCCATGGCATC-TTTTCCTTCA
1 -AAGTCCACAACTCTGTGGCACCTTTTTCCTTTT
* *
2604586 AAGTCCATAACTCTGTGGCACCTTATTCCTTTT
1 AAGTCCACAACTCTGTGGCACCTTTTTCCTTTT
* ** *
2604619 AAGTCCATAACT-TCGTGGCATTTTTTTCTTTTT
1 AAGTCCACAACTCT-GTGGCACCTTTTTCCTTTT
* * ** *
2604652 AAAG-CTCGCAACTTTAAGGCATCTTTTT-CTTTT
1 -AAGTC-CACAACTCTGTGGCACCTTTTTCCTTTT
2604685 AAGTCCACAA
1 AAGTCCACAA
2604695 TTCCATGGCA
Statistics
Matches: 338, Mismatches: 79, Indels: 48
0.73 0.17 0.10
Matches are distributed among these distances:
30 20 0.06
31 4 0.01
32 67 0.20
33 87 0.26
34 137 0.41
35 23 0.07
ACGTcount: A:0.22, C:0.28, G:0.12, T:0.39
Consensus pattern (33 bp):
AAGTCCACAACTCTGTGGCACCTTTTTCCTTTT
Found at i:2604506 original size:131 final size:132
Alignment explanation
Indices: 2604039--2604650 Score: 374
Period size: 131 Copynumber: 4.7 Consensus size: 132
2604029 TTCTCCAAGT
* * * ** *
2604039 CCACAATTCTATGGCATCTCTT-TTTC-AAGTCCATGACTTAGTGGCATCCTTTT-C-TTTAAGT
1 CCACAACTCCATGGCATCTCTTCCTTCTAAGTCCACAACTCAGTGGCAT-CTTTTCCTTTTAAGT
* * ** * * * * *
2604100 CCACCACT-TAGTGGCA-TCCTTTTC-TTTAAGTCCACCACTTAGTGGCATCTTTTTCTTTCT-A
65 CCACAACTCTCGTGGCACTTTTTTTCTTTTAAGTCCACAACTTCGTGACACCTTTTTCTTTTTAA
*
2604161 AGT
130 AGC
** * * ** * *
2604164 CCATGACT-TAGTGGCATCGTTTTTTTTCCAAGTCCACAACTCAGT-GCATC---TCCTCTTCAA
1 CCACAACTCCA-TGGCATC-TCTTCCTTCTAAGTCCACAACTCAGTGGCATCTTTTCCT-TTTAA
* * * * ** * * **
2604224 GTCCACAATTC-CGTGGCAC-CTTTTCCTTTTAAGTCCATAAC-TCTGTGGTACCATGTTCCCTT
63 GTCCACAACTCTCGTGGCACTTTTTTTCTTTTAAGTCCACAACTTC-GTGACACCTTTTTCTTTT
* *
2604286 CAAAGT
127 TAAAGC
** * * * *
2604292 CCACAACTCTGTGGCACCTTTTTCTTTTTTAAGTCCACAACTTCA-TGGCACTCTTTTTCCTTTT
1 CCACAACTCCATGGCATC-TCTTC-CTTCTAAGTCCACAAC-TCAGTGGCA-TC-TTTTCCTTTT
* *
2604356 AAGTCCACAACTC-CGTGGCACTATTTTTTCTTTTAAGTCCATAAC-TCTGTGACACTTTTTTCT
61 AAGTCCACAACTCTCGTGGCACT-TTTTTTCTTTTAAGTCCACAACTTC-GTGACACCTTTTTCT
2604419 TTTTCAAAGC
124 TTTT-AAAGC
* * * **
2604429 CTATAACT-CAGTGGCATCTCTT-C-TCTAAGTCCACGACTCAGTGGCATCTTTTCCTTCAAAGT
1 CCACAACTCCA-TGGCATCTCTTCCTTCTAAGTCCACAACTCAGTGGCATCTTTTCCTTTTAAGT
* * * * *
2604491 CCACAACTCTC-TGGCACTTTGTTCCTTTTGAGTTCACACCTTCGTGACACCTTTTTCTTTTTAA
65 CCACAACTCTCGTGGCACTTTTTTTCTTTTAAGTCCACAACTTCGTGACACCTTTTTCTTTTTAA
2604555 AGC
130 AGC
* * * * *
2604558 CCACAACTCCATGGCATCTTTTCCTTCAAAGTCCATAACTCTGTGGCACCTTATTCCTTTTAAGT
1 CCACAACTCCATGGCATCTCTTCCTTCTAAGTCCACAACTCAGTGGCATCTT-TTCCTTTTAAGT
*
2604623 CCATAACT-TCGTGGCA-TTTTTTTCTTTT
65 CCACAACTCTCGTGGCACTTTTTTTCTTTT
2604651 TAAAGCTCGC
Statistics
Matches: 378, Mismatches: 76, Indels: 60
0.74 0.15 0.12
Matches are distributed among these distances:
123 1 0.00
124 3 0.01
125 12 0.03
126 28 0.07
127 31 0.08
128 33 0.09
129 37 0.10
130 43 0.11
131 66 0.17
132 28 0.07
133 17 0.04
134 22 0.06
135 4 0.01
136 37 0.10
137 16 0.04
ACGTcount: A:0.20, C:0.28, G:0.12, T:0.39
Consensus pattern (132 bp):
CCACAACTCCATGGCATCTCTTCCTTCTAAGTCCACAACTCAGTGGCATCTTTTCCTTTTAAGTC
CACAACTCTCGTGGCACTTTTTTTCTTTTAAGTCCACAACTTCGTGACACCTTTTTCTTTTTAAA
GC
Found at i:2604582 original size:99 final size:99
Alignment explanation
Indices: 2604282--2604694 Score: 293
Period size: 99 Copynumber: 4.2 Consensus size: 99
2604272 TACCATGTTC
* * * * *
2604282 CCTTCAAAGTCCACAACTCTGTGGCACCTTTTTCTTTTTTAAGTCCACAACTTCATGGCACTCTT
1 CCTTCAAAGTCCACAACTCTCTGGCACCTTATTC-CTTTTAAGTCCACAACTTCGTGACAC-CTT
* * * *
2604347 TTTCCTTTT-AAGTCCACAACTCCGTGGCACTATTTTT
64 TTTCTTTTTAAAGCCCACAACTCCATGGCA-T-CTTTT
* ** * * * * * * * * *
2604384 TCTTTTAAGTCCATAACTCTGTGACACTTTTTTCTTTTTCAAAG-CCTATAAC-TCAGTGGCATC
1 CCTTCAAAGTCCACAACTCTCTGGCACCTTATTCCTTTT--AAGTCC-ACAACTTC-GTGACACC
* * * *
2604447 -TCTTC--TCT-AAGTCCACGACT-CAGTGGCATCTTTT
62 TTTTTCTTTTTAAAGCCCACAACTCCA-TGGCATCTTTT
* * * * *
2604481 CCTTCAAAGTCCACAACTCTCTGGCACTTTGTTCCTTTTGAGTTCACACCTTCGTGACACCTTTT
1 CCTTCAAAGTCCACAACTCTCTGGCACCTTATTCCTTTTAAGTCCACAACTTCGTGACACCTTTT
2604546 TCTTTTTAAAGCCCACAACTCCATGGCATCTTTT
66 TCTTTTTAAAGCCCACAACTCCATGGCATCTTTT
* * * * **
2604580 CCTTCAAAGTCCATAACTCTGTGGCACCTTATTCCTTTTAAGTCCATAACTTCGTGGCATTTTTT
1 CCTTCAAAGTCCACAACTCTCTGGCACCTTATTCCTTTTAAGTCCACAACTTCGTGACACCTTTT
* * ** *
2604645 TCTTTTTAAAGCTCGCAACTTTAAGGCATCTTTT
66 TCTTTTTAAAGCCCACAACTCCATGGCATCTTTT
* **
2604679 TCTTTTAAGTCCACAA
1 CCTTCAAAGTCCACAA
2604695 TTCCATGGCA
Statistics
Matches: 247, Mismatches: 52, Indels: 27
0.76 0.16 0.08
Matches are distributed among these distances:
95 11 0.04
96 7 0.03
97 35 0.14
98 4 0.02
99 134 0.54
100 2 0.01
101 9 0.04
102 33 0.13
103 12 0.05
ACGTcount: A:0.22, C:0.28, G:0.11, T:0.39
Consensus pattern (99 bp):
CCTTCAAAGTCCACAACTCTCTGGCACCTTATTCCTTTTAAGTCCACAACTTCGTGACACCTTTT
TCTTTTTAAAGCCCACAACTCCATGGCATCTTTT
Found at i:2604718 original size:27 final size:27
Alignment explanation
Indices: 2604680--2604759 Score: 97
Period size: 27 Copynumber: 3.0 Consensus size: 27
2604670 GCATCTTTTT
*
2604680 CTTTTAAGTCCACAATTCCATGGCACC
1 CTTTTAAGTCCACAACTCCATGGCACC
* * **
2604707 CTTTCAAGTCCACAACTCCGTGATACC
1 CTTTTAAGTCCACAACTCCATGGCACC
* *
2604734 CTTTTAAGTTCACAACTCTATGGCAC
1 CTTTTAAGTCCACAACTCCATGGCAC
2604760 TTTTTTTTTC
Statistics
Matches: 42, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.26, C:0.33, G:0.11, T:0.30
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCATGGCACC
Found at i:2605087 original size:32 final size:31
Alignment explanation
Indices: 2605005--2605396 Score: 313
Period size: 32 Copynumber: 12.4 Consensus size: 31
2604995 TTTAAAGCTG
* * * *
2605005 ACACAAGTCGGTGGCAACCCTTTCCAAAGGCT
1 ACACAAGTTGGTGGCAA-CCTTTTCAAAGCCC
* * *
2605037 ACATAAGCTGGTGACAACCTTCTTCAAAGCCC
1 ACACAAGTTGGTGGCAACCTT-TTCAAAGCCC
* *
2605069 ACACAAGTTGGTAGCAACCCTTTCTAAAGCCC
1 ACACAAGTTGGTGGCAACCTTTTC-AAAGCCC
* ** ** *
2605101 ATACAAGTCAGTGGCAACCCCTTCAAAGCTC
1 ACACAAGTTGGTGGCAACCTTTTCAAAGCCC
* * *
2605132 ACACAAGCTAGTGGTAACCTTCTTCAAAGCCC
1 ACACAAGTTGGTGGCAACCTT-TTCAAAGCCC
* *
2605164 ACACAAGTTGGTGGTAACCCTTTCTAAAGCCC
1 ACACAAGTTGGTGGCAACCTTTTC-AAAGCCC
* * * * * *
2605196 ACACAAGTTAGTAGCAACC-CTCCAAAGACT
1 ACACAAGTTGGTGGCAACCTTTTCAAAGCCC
* * * *
2605226 ATACGAGCTGGTGGTAACCTTCTTCAAAGCCC
1 ACACAAGTTGGTGGCAACCTT-TTCAAAGCCC
* * *
2605258 ACACAGGTTGGTGGTAACCCTTTTTAAAGCCC
1 ACACAAGTTGGTGGCAA-CCTTTTCAAAGCCC
* *
2605290 ACACAAGTCGGTGGTAATCC-TTTCAAAGCCC
1 ACACAAGTTGGTGGCAA-CCTTTTCAAAGCCC
* * *
2605321 ACACAAGCTGGTGGTAACCCTTTTTAAAGCCC
1 ACACAAGTTGGTGGCAA-CCTTTTCAAAGCCC
* *
2605353 ACACAAGTAT-GTGGCAACCCTTTCAAAGTCC
1 ACACAAGT-TGGTGGCAACCTTTTCAAAGCCC
2605384 ACACAAGTTGGTG
1 ACACAAGTTGGTG
2605397 ACATCTTCTT
Statistics
Matches: 287, Mismatches: 63, Indels: 21
0.77 0.17 0.06
Matches are distributed among these distances:
30 19 0.07
31 82 0.29
32 181 0.63
33 5 0.02
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.22
Consensus pattern (31 bp):
ACACAAGTTGGTGGCAACCTTTTCAAAGCCC
Found at i:2605089 original size:64 final size:64
Alignment explanation
Indices: 2604988--2605396 Score: 327
Period size: 63 Copynumber: 6.5 Consensus size: 64
2604978 TCAGTGAAGA
* ** * * * * *
2604988 AACCTTCTTTAAAGCTGACACAAGTCGGTGGCAACCCTTTCCAAAGGCTACATAAGCTGGTGAC
1 AACCTTCTTCAAAGCCCACACAAGTTGGTGGCAACCCTTTCCAAAGCCCACACAAGCTGGTGGC
* * * *
2605052 AACCTTCTTCAAAGCCCACACAAGTTGGTAGCAACCCTTTCTAAAGCCCATACAAG-TCAGTGGC
1 AACCTTCTTCAAAGCCCACACAAGTTGGTGGCAACCCTTTCCAAAGCCCACACAAGCT-GGTGGC
* * * * * * * *
2605116 AACC-CCTTCAAAGCTCACACAAGCTAGTGGTAA-CCTTCTTCAAAGCCCACACAAGTTGGTGGT
1 AACCTTCTTCAAAGCCCACACAAGTTGGTGGCAACCCTT-TCCAAAGCCCACACAAGCTGGTGGC
* * * * * * * *
2605179 AACCCT-TTCTAAAGCCCACACAAGTTAGTAGCAACCC--TCCAAAGACTATACGAGCTGGTGGT
1 AACCTTCTTC-AAAGCCCACACAAGTTGGTGGCAACCCTTTCCAAAGCCCACACAAGCTGGTGGC
* * ** *
2605241 AACCTTCTTCAAAGCCCACACAGGTTGGTGGTAACCCTTTTTAAAGCCCACACAAG-TCGGTGGT
1 AACCTTCTTCAAAGCCCACACAAGTTGGTGGCAACCCTTTCCAAAGCCCACACAAGCT-GGTGGC
* * ** *
2605305 AATCC-T-TTCAAAGCCCACACAAGCTGGTGGTAACCCTTTTTAAAGCCCACACAAG-TATGTGG
1 AA-CCTTCTTCAAAGCCCACACAAGTTGGTGGCAACCCTTTCCAAAGCCCACACAAGCT-GGTGG
2605367 C
64 C
* *
2605368 AACCCT-TTCAAAGTCCACACAAGTTGGTG
1 AACCTTCTTCAAAGCCCACACAAGTTGGTG
2605397 ACATCTTCTT
Statistics
Matches: 281, Mismatches: 52, Indels: 25
0.78 0.15 0.07
Matches are distributed among these distances:
62 53 0.19
63 129 0.46
64 95 0.34
65 4 0.01
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (64 bp):
AACCTTCTTCAAAGCCCACACAAGTTGGTGGCAACCCTTTCCAAAGCCCACACAAGCTGGTGGC
Found at i:2605161 original size:95 final size:94
Alignment explanation
Indices: 2605005--2605391 Score: 467
Period size: 95 Copynumber: 4.1 Consensus size: 94
2604995 TTTAAAGCTG
* * * **
2605005 ACACAAGTCGGTGGCAACCCTTTCCAAAGGCTACATAAGCTGGTGACAACCTTCTTCAAAGCCCA
1 ACACAAGTCAGTGGCAACCCCTT-CAAA-GCTACACAAGCTGGTGGTAACCTTCTTCAAAGCCCA
*
2605070 CACAAGTTGGTAGCAACCCTTTCTAAAGCCC
64 CACAAGTTGGTGGCAACCCTTTCTAAAGCCC
* *
2605101 ATACAAGTCAGTGGCAACCCCTTCAAAGCTCACACAAGCTAGTGGTAACCTTCTTCAAAGCCCAC
1 ACACAAGTCAGTGGCAACCCCTTCAAAGCT-ACACAAGCTGGTGGTAACCTTCTTCAAAGCCCAC
*
2605166 ACAAGTTGGTGGTAACCCTTTCTAAAGCCC
65 ACAAGTTGGTGGCAACCCTTTCTAAAGCCC
* * * * *
2605196 ACACAAGTTAGTAGCAA-CCCTCCAAAGACTATACGAGCTGGTGGTAACCTTCTTCAAAGCCCAC
1 ACACAAGTCAGTGGCAACCCCTTCAAAG-CTACACAAGCTGGTGGTAACCTTCTTCAAAGCCCAC
* * *
2605260 ACAGGTTGGTGGTAACCCTTTTTAAAGCCC
65 ACAAGTTGGTGGCAACCCTTTCTAAAGCCC
* * * * * *
2605290 ACACAAGTCGGTGGTAATCCTTTCAAAGCCCACACAAGCTGGTGGTAACCCTT-TTTAAAGCCCA
1 ACACAAGTCAGTGGCAACCCCTTCAAAG-CTACACAAGCTGGTGGTAA-CCTTCTTCAAAGCCCA
*
2605354 CACAAGTAT-GTGGCAACCCTTTC-AAAGTCC
64 CACAAGT-TGGTGGCAACCCTTTCTAAAGCCC
2605384 ACACAAGT
1 ACACAAGT
2605392 TGGTGACATC
Statistics
Matches: 253, Mismatches: 33, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
94 98 0.39
95 130 0.51
96 25 0.10
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.22
Consensus pattern (94 bp):
ACACAAGTCAGTGGCAACCCCTTCAAAGCTACACAAGCTGGTGGTAACCTTCTTCAAAGCCCACA
CAAGTTGGTGGCAACCCTTTCTAAAGCCC
Found at i:2605247 original size:189 final size:188
Alignment explanation
Indices: 2605042--2605392 Score: 517
Period size: 189 Copynumber: 1.9 Consensus size: 188
2605032 AGGCTACATA
*
2605042 AGCTGGTGACAACCTTCTTCAAAGCCCACACAAGTTGGTAGCAACCCTTTCTAAAGCCCATACAA
1 AGCTGGTGACAACCTTCTTCAAAGCCCACACAAGTTGGTAGCAACCCTTTCTAAAGCCCACACAA
*
2605107 GTCAGTGGCAACCCCTTCAAAGCTCACACAAGCTAGTGGTAA-CCTTCTTCAAAGCCCACACAAG
66 GTCAGTGGCAACCCCTTCAAAGCCCACACAAGCTAGTGGTAACCCTT-TTCAAAGCCCACACAAG
*
2605171 T-TGGTGGTAACCCTTTCTAAAGCCCACACAAGTTAGTAGCAACCCTCCAAAGACTATACG
130 TAT-GTGGCAACCCTTTC-AAAGCCCACACAAGTTAGTAGCAACCCTCCAAAGACTATACG
** * * * *
2605231 AGCTGGTGGTAACCTTCTTCAAAGCCCACACAGGTTGGTGGTAACCCTTTTTAAAGCCCACACAA
1 AGCTGGTGACAACCTTCTTCAAAGCCCACACAAGTTGGTAGCAACCCTTTCTAAAGCCCACACAA
* * * * * *
2605296 GTCGGTGGTAATCCTTTCAAAGCCCACACAAGCTGGTGGTAACCCTTTTTAAAGCCCACACAAGT
66 GTCAGTGGCAACCCCTTCAAAGCCCACACAAGCTAGTGGTAACCCTTTTCAAAGCCCACACAAGT
*
2605361 ATGTGGCAACCCTTTCAAAGTCCACACAAGTT
131 ATGTGGCAACCCTTTCAAAGCCCACACAAGTT
2605393 GGTGACATCT
Statistics
Matches: 144, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
188 15 0.10
189 124 0.86
190 5 0.03
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (188 bp):
AGCTGGTGACAACCTTCTTCAAAGCCCACACAAGTTGGTAGCAACCCTTTCTAAAGCCCACACAA
GTCAGTGGCAACCCCTTCAAAGCCCACACAAGCTAGTGGTAACCCTTTTCAAAGCCCACACAAGT
ATGTGGCAACCCTTTCAAAGCCCACACAAGTTAGTAGCAACCCTCCAAAGACTATACG
Found at i:2605474 original size:43 final size:43
Alignment explanation
Indices: 2605408--2605491 Score: 141
Period size: 43 Copynumber: 2.0 Consensus size: 43
2605398 CATCTTCTTC
*
2605408 TAAGCCCAATATCGTTGGCCTTGAATCAGCACATTGGCACTTT
1 TAAGCCCAATATCATTGGCCTTGAATCAGCACATTGGCACTTT
* *
2605451 TAAGTCCAATATCATTGGCCTTGAATCAGCATATTGGCACT
1 TAAGCCCAATATCATTGGCCTTGAATCAGCACATTGGCACT
2605492 GTCGTACCGT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (43 bp):
TAAGCCCAATATCATTGGCCTTGAATCAGCACATTGGCACTTT
Found at i:2605488 original size:19 final size:19
Alignment explanation
Indices: 2605422--2605488 Score: 53
Period size: 19 Copynumber: 3.3 Consensus size: 19
2605412 CCCAATATCG
*
2605422 TTGGCCTTGAATCAGCACA
1 TTGGCCTTGAATCAGCATA
* **
2605441 TTGGCACTTTTAAGTCCAATATCA
1 TTGGC-C-TTGAA-T-CAGCAT-A
2605465 TTGGCCTTGAATCAGCATA
1 TTGGCCTTGAATCAGCATA
2605484 TTGGC
1 TTGGC
2605489 ACTGTCGTAC
Statistics
Matches: 36, Mismatches: 7, Indels: 10
0.68 0.13 0.19
Matches are distributed among these distances:
19 11 0.31
20 5 0.14
21 5 0.14
22 5 0.14
23 4 0.11
24 6 0.17
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.33
Consensus pattern (19 bp):
TTGGCCTTGAATCAGCATA
Found at i:2607491 original size:20 final size:19
Alignment explanation
Indices: 2607465--2607538 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 19
2607455 GTTTACCCAG
2607465 ATGTATCGATACATTTTAC
1 ATGTATCGATACATTTTAC
2607484 ATTGTATCGATACATTGCTT--
1 A-TGTATCGATACATT--TTAC
2607504 ATGTATCGATACATTTTAC
1 ATGTATCGATACATTTTAC
*
2607523 AATGTCTCGATACATT
1 -ATGTATCGATACATT
2607539 CAGGCATTTT
Statistics
Matches: 48, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
17 2 0.04
19 15 0.31
20 29 0.60
22 2 0.04
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.42
Consensus pattern (19 bp):
ATGTATCGATACATTTTAC
Found at i:2610016 original size:28 final size:28
Alignment explanation
Indices: 2609982--2610054 Score: 96
Period size: 28 Copynumber: 2.6 Consensus size: 28
2609972 TCACAATTGG
2609982 GGGATACTCCAACCCCGTTA-TTTC-AT
1 GGGATACTCCAACCCCGTTATTTTCGAT
*
2610008 CGGTGATACTCCAACCCCATTATTTTCGAT
1 -GG-GATACTCCAACCCCGTTATTTTCGAT
*
2610038 GGGATACTCCAATCCCG
1 GGGATACTCCAACCCCG
2610055 ACTTTATATC
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
27 2 0.05
28 30 0.75
29 6 0.15
30 2 0.05
ACGTcount: A:0.23, C:0.32, G:0.16, T:0.29
Consensus pattern (28 bp):
GGGATACTCCAACCCCGTTATTTTCGAT
Found at i:2610125 original size:109 final size:107
Alignment explanation
Indices: 2609971--2610218 Score: 284
Period size: 109 Copynumber: 2.3 Consensus size: 107
2609961 ACACCAATTC
* *
2609971 TTCACAATTGGGGGATACTCCAACCCCGTTATTTCATCGGTGATACTCCAACCCCATTATTTTC-
1 TTCACAATCGGGGG-TACTCCAACCCCGTTATGTCATCGGTGATACTCCAACCCCATT-TTTTCT
* * **
2610035 GATGGGATACTCCAATCCCGACTTTATATCTAAAATATTGATTTTT
64 GAGGGGATACTCCAACCCCGACTTTATATCTAAAATA-CCA-TTTT
* ** **
2610081 TTCATAATCGGGGGTACTCCAACCCCGTTATGTCATCGAG-GATACTCCATTCCTGTTTTTTCTG
1 TTCACAATCGGGGGTACTCCAACCCCGTTATGTCATCG-GTGATACTCCAACCCCATTTTTTCTG
* * * *
2610145 AGGGGATACTCTAACCCCGATTTTATTTGTAAAATACCATTTT
65 AGGGGATACTCCAACCCCGACTTTATATCTAAAATACCATTTT
* *
2610188 CTCACAATCGGGGATACTCCAACCCCGTTAT
1 TTCACAATCGGGGGTACTCCAACCCCGTTAT
2610219 TTTCACGGGG
Statistics
Matches: 118, Mismatches: 18, Indels: 7
0.83 0.13 0.05
Matches are distributed among these distances:
107 32 0.27
108 6 0.05
109 67 0.57
110 13 0.11
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.34
Consensus pattern (107 bp):
TTCACAATCGGGGGTACTCCAACCCCGTTATGTCATCGGTGATACTCCAACCCCATTTTTTCTGA
GGGGATACTCCAACCCCGACTTTATATCTAAAATACCATTTT
Found at i:2612388 original size:21 final size:22
Alignment explanation
Indices: 2612364--2612404 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
2612354 GACATGCTGT
2612364 AAATGCATGAAACAT-AGCTCA
1 AAATGCATGAAACATGAGCTCA
*
2612385 AAATGCATGAATCATGAGCT
1 AAATGCATGAAACATGAGCT
2612405 GTTAACATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.44, C:0.17, G:0.17, T:0.22
Consensus pattern (22 bp):
AAATGCATGAAACATGAGCTCA
Found at i:2613308 original size:13 final size:13
Alignment explanation
Indices: 2613290--2613317 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2613280 ATACAAATAT
2613290 CAATGTATCGATA
1 CAATGTATCGATA
2613303 CAATGTATCGATA
1 CAATGTATCGATA
2613316 CA
1 CA
2613318 TTAAGTGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:2613393 original size:19 final size:19
Alignment explanation
Indices: 2613369--2613474 Score: 89
Period size: 19 Copynumber: 5.8 Consensus size: 19
2613359 TAGTGATACA
2613369 ATGTATCGATACAAAACTT
1 ATGTATCGATACAAAACTT
* *
2613388 ATGTATCGATACAACACCT
1 ATGTATCGATACAAAACTT
2613407 ATGTATCGATAC---A--T
1 ATGTATCGATACAAAACTT
* *
2613421 -TGTATTGATACAACACTT
1 ATGTATCGATACAAAACTT
**
2613439 ATGTATCGATACAGTTACTGT
1 ATGTATCGATACA-AAACT-T
*
2613460 TTGTATCGATACAAA
1 ATGTATCGATACAAA
2613475 TTGTTGAAAT
Statistics
Matches: 70, Mismatches: 9, Indels: 15
0.74 0.10 0.16
Matches are distributed among these distances:
13 10 0.14
14 1 0.01
16 2 0.03
18 1 0.01
19 40 0.57
20 3 0.04
21 13 0.19
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (19 bp):
ATGTATCGATACAAAACTT
Found at i:2613425 original size:32 final size:32
Alignment explanation
Indices: 2613389--2613451 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
2613379 ACAAAACTTA
2613389 TGTATCGATACAACACCTATGTATCGATACAT
1 TGTATCGATACAACACCTATGTATCGATACAT
* *
2613421 TGTATTGATACAACACTTATGTATCGATACA
1 TGTATCGATACAACACCTATGTATCGATACA
2613452 GTTACTGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (32 bp):
TGTATCGATACAACACCTATGTATCGATACAT
Found at i:2615248 original size:48 final size:48
Alignment explanation
Indices: 2615196--2615317 Score: 154
Period size: 48 Copynumber: 2.5 Consensus size: 48
2615186 CAATGTGCCA
* * *
2615196 ATTTAAGGCCAATGACATCGAGCTAAGGGAAATGTGGACAATGTATTG
1 ATTTAAGGCCAACGACATCGAGCTAAGGGAAAAGTGGACAATGTACTG
* * *
2615244 ATTTAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGACAATGTGCTG
1 ATTTAAGGCCAACGACATCGAGCTAAGGGAAAAGTGGACAATGTACTG
* * * *
2615292 ATTTAAGACCAGCAACATTGAGCTAA
1 ATTTAAGGCCAACGACATCGAGCTAA
2615318 TAAAGGTGTC
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 66 1.00
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.23
Consensus pattern (48 bp):
ATTTAAGGCCAACGACATCGAGCTAAGGGAAAAGTGGACAATGTACTG
Found at i:2615463 original size:30 final size:29
Alignment explanation
Indices: 2615429--2615497 Score: 79
Period size: 28 Copynumber: 2.4 Consensus size: 29
2615419 AAAAAAAAGG
2615429 TGCCACTAACTTATGTGAGCTTT-AAAGAAA
1 TGCCACTAACTT-TGTGAGCTTTAAAAG-AA
* * *
2615459 TGCCACTGAC-TTGTGGGCTTTAAAAGGA
1 TGCCACTAACTTTGTGAGCTTTAAAAGAA
2615487 TGCCACTAACT
1 TGCCACTAACT
2615498 CATGGGTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
28 19 0.58
29 5 0.15
30 9 0.27
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.29
Consensus pattern (29 bp):
TGCCACTAACTTTGTGAGCTTTAAAAGAA
Found at i:2615473 original size:28 final size:28
Alignment explanation
Indices: 2615442--2615677 Score: 201
Period size: 28 Copynumber: 8.4 Consensus size: 28
2615432 CACTAACTTA
*
2615442 TGTGAGCTTT-AAAGAAATGCCACTGACT
1 TGTGGGCTTTGAAA-AAATGCCACTGACT
* *
2615470 TGTGGGCTTT-AAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAA-AATGCCACTGACT
** * * **
2615498 CATGGGTTTTGGAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAAATGCCACTGACT
* * * *
2615526 AGGGGGCTTT-AAAAAGGTGCCACTAACT
1 TGTGGGCTTTGAAAAA-ATGCCACTGACT
*
2615554 TGTGGGCTTTGAAAAGATGCCA-TCGACT
1 TGTGGGCTTTGAAAAAATGCCACT-GACT
* * *
2615582 TGTAGGCTTTGAAAAAATACCACCGACT
1 TGTGGGCTTTGAAAAAATGCCACTGACT
* * **
2615610 TATGGACTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAAATGCCACTGACT
* *
2615638 TGTGGGCTTTGAAAAAATACCACCGACT
1 TGTGGGCTTTGAAAAAATGCCACTGACT
2615666 TGTGGGCTTTGA
1 TGTGGGCTTTGA
2615678 TATGGGTTGT
Statistics
Matches: 162, Mismatches: 40, Indels: 12
0.76 0.19 0.06
Matches are distributed among these distances:
27 4 0.02
28 152 0.94
29 6 0.04
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (28 bp):
TGTGGGCTTTGAAAAAATGCCACTGACT
Found at i:2615707 original size:32 final size:32
Alignment explanation
Indices: 2615666--2616043 Score: 475
Period size: 32 Copynumber: 12.1 Consensus size: 32
2615656 ACCACCGACT
* * *
2615666 TGTGGGCTTTGATATGGGTTGTCACCGACTTG
1 TGTGGGCTTTGAAATGGGTTGCCACCAACTTG
*
2615698 TGTGGGCTTTGAAATGGGTTGCCACCAACTTA
1 TGTGGGCTTTGAAATGGGTTGCCACCAACTTG
* * *
2615730 TGTAGGCTTTCAAATGGGTTGCCACCGACTTG
1 TGTGGGCTTTGAAATGGGTTGCCACCAACTTG
*
2615762 TGTGGGCTTTGAAAT--GATGCCACCAAC-T-
1 TGTGGGCTTTGAAATGGGTTGCCACCAACTTG
2615790 TGTGGGCTTTGAAATGGGTTGCCACCAACTTG
1 TGTGGGCTTTGAAATGGGTTGCCACCAACTTG
*
2615822 TGTGGGCTTTAAAATGGGTTGCCACCAACTTG
1 TGTGGGCTTTGAAATGGGTTGCCACCAACTTG
* * *
2615854 TGTGGGATTTAAAATGGATTGCCACCAACTTG
1 TGTGGGCTTTGAAATGGGTTGCCACCAACTTG
* * *
2615886 TGTGGGCTTTCAAATGAGTTGCCATCAACTTG
1 TGTGGGCTTTGAAATGGGTTGCCACCAACTTG
*
2615918 TGTGGGCTTTGAAATGGGTTCCCACCAACTTG
1 TGTGGGCTTTGAAATGGGTTGCCACCAACTTG
* **
2615950 TGTGGGCTTTGAAATGAGTTGCCACTGACTTG
1 TGTGGGCTTTGAAATGGGTTGCCACCAACTTG
* * **
2615982 TATGGGCTTTGAAAT--GATGCCACTGAC-T-
1 TGTGGGCTTTGAAATGGGTTGCCACCAACTTG
**
2616010 TGTGGGCTTTGAAATGGGTTGCCACTGACTTG
1 TGTGGGCTTTGAAATGGGTTGCCACCAACTTG
2616042 TG
1 TG
2616044 GGATTTAAAA
Statistics
Matches: 305, Mismatches: 33, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
28 29 0.10
29 2 0.01
30 43 0.14
31 2 0.01
32 229 0.75
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.33
Consensus pattern (32 bp):
TGTGGGCTTTGAAATGGGTTGCCACCAACTTG
Found at i:2615798 original size:124 final size:124
Alignment explanation
Indices: 2615638--2616025 Score: 496
Period size: 124 Copynumber: 3.1 Consensus size: 124
2615628 GCCACTGACT
** * * * * *
2615638 TGTGGGCTTTGAAAAAATACCACCGACTTGTGGGCTTTGATATGGGTTGTCACCGACTTGTGTGG
1 TGTGGGCTTTGAAATGATGCCACCAACTTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGG
* * *
2615703 GCTTTGAAATGGGTTGCCACCAACTTATGTAGGCTTTCAAATGGGTTGCCACCGACTTG
66 GCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTAAAATGGGTTGCCACCGACTTG
2615762 TGTGGGCTTTGAAATGATGCCACCAACTTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGG
1 TGTGGGCTTTGAAATGATGCCACCAACTTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGG
* * * *
2615827 GCTTTAAAATGGGTTGCCACCAACTTGTGTGGGATTTAAAATGGATTGCCACCAACTTG
66 GCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTAAAATGGGTTGCCACCGACTTG
* * *
2615886 TGTGGGCTTTCAAATGAGTTGCCATCAACTTGTGTGGGCTTTGAAATGGGTTCCCACCAACTTGT
1 TGTGGGCTTTGAAATGA--TGCCACCAAC-T-TGTGGGCTTTGAAATGGGTTGCCACCAACTTGT
* ** * * * *
2615951 GTGGGCTTTGAAATGAGTTGCCACTGACTTGTATGGGCTTTGAAAT--GATGCCACTGAC-T-
62 GTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTAAAATGGGTTGCCACCGACTTG
2616010 TGTGGGCTTTGAAATG
1 TGTGGGCTTTGAAATG
2616026 GGTTGCCACT
Statistics
Matches: 231, Mismatches: 29, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
124 141 0.61
125 1 0.00
126 17 0.07
127 1 0.00
128 71 0.31
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (124 bp):
TGTGGGCTTTGAAATGATGCCACCAACTTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGG
GCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTAAAATGGGTTGCCACCGACTTG
Found at i:2615802 original size:28 final size:28
Alignment explanation
Indices: 2615458--2616045 Score: 312
Period size: 32 Copynumber: 19.6 Consensus size: 28
2615448 CTTTAAAGAA
* * *
2615458 ATGCCACTGACTTGTGGGCTTTAAAAGG
1 ATGCCACCGACTTGTGGGCTTTGAAATG
** ** * * *
2615486 ATGCCACTAACTCATGGGTTTTGGAAGG
1 ATGCCACCGACTTGTGGGCTTTGAAATG
* * * * *
2615514 ATGCCACTGACTAGGGGGCTTTAAAAAG
1 ATGCCACCGACTTGTGGGCTTTGAAATG
* ** *
2615542 GTGCCACTAACTTGTGGGCTTTGAAAAG
1 ATGCCACCGACTTGTGGGCTTTGAAATG
* * **
2615570 ATGCCATCGACTTGTAGGCTTTGAAAAA
1 ATGCCACCGACTTGTGGGCTTTGAAATG
* * * *
2615598 ATACCACCGACTTATGGACTTTGAAAGG
1 ATGCCACCGACTTGTGGGCTTTGAAATG
* **
2615626 ATGCCACTGACTTGTGGGCTTTGAAAAA
1 ATGCCACCGACTTGTGGGCTTTGAAATG
* *
2615654 ATACCACCGACTTGTGGGCTTTGATATGGG
1 ATGCCACCGACTTGTGGGCTTTGAAAT--G
* *
2615684 TTGTCACCGACTTGTGTGGGCTTTGAAATGGG
1 ATGCCACCGAC-T-TGTGGGCTTTGAAAT--G
* * * *
2615716 TTGCCACCAACTTATGTAGGCTTTCAAATGGG
1 ATGCCACCGAC-T-TGTGGGCTTTGAAAT--G
*
2615748 TTGCCACCGACTTGTGTGGGCTTTGAAATG
1 ATGCCACCGAC-T-TGTGGGCTTTGAAATG
*
2615778 ATGCCACCAACTTGTGGGCTTTGAAATGGG
1 ATGCCACCGACTTGTGGGCTTTGAAAT--G
* * *
2615808 TTGCCACCAACTTGTGTGGGCTTTAAAATGGG
1 ATGCCACCGAC-T-TGTGGGCTTTGAAAT--G
* * * *
2615840 TTGCCACCAACTTGTGTGGGATTTAAAATGG
1 ATGCCACCGAC-T-TGTGGGCTTTGAAAT-G
* *
2615871 ATTGCCACCAACTTGTGTGGGCTTTCAAATG
1 A-TGCCACCGAC-T-TGTGGGCTTTGAAATG
* *
2615902 AGTTGCCATCAACTTGTGTGGGCTTTGAAATGGG
1 A--TGCCACCGAC-T-TGTGGGCTTTGAAAT--G
* * *
2615936 TTCCCACCAACTTGTGTGGGCTTTGAAATG
1 ATGCCACCGAC-T-TGTGGGCTTTGAAATG
*
2615966 AGTTGCCACTGACTTGTATGGGCTTTGAAATG
1 A--TGCCACCGACTTG--TGGGCTTTGAAATG
*
2615998 ATGCCACTGACTTGTGGGCTTTGAAATGGG
1 ATGCCACCGACTTGTGGGCTTTGAAAT--G
* *
2616028 TTGCCACTGACTTGTGGG
1 ATGCCACCGACTTGTGGG
2616046 ATTTAAAAAG
Statistics
Matches: 468, Mismatches: 74, Indels: 34
0.81 0.13 0.06
Matches are distributed among these distances:
28 181 0.39
29 1 0.00
30 63 0.13
31 7 0.01
32 215 0.46
34 1 0.00
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (28 bp):
ATGCCACCGACTTGTGGGCTTTGAAATG
Found at i:2616159 original size:27 final size:28
Alignment explanation
Indices: 2616098--2616170 Score: 96
Period size: 27 Copynumber: 2.6 Consensus size: 28
2616088 GCCACGAAGC
2616098 GTGCCACGAAG-TGATGGACTTTAAAAGG
1 GTGCCACGAAGTTG-TGGACTTTAAAAGG
* *
2616126 GTACCACGGAGTTGTGGACTTT-AAAGG
1 GTGCCACGAAGTTGTGGACTTTAAAAGG
*
2616153 GTGCCACGAAGTTATGGA
1 GTGCCACGAAGTTGTGGA
2616171 TGCCACGGAG
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
27 20 0.51
28 17 0.44
29 2 0.05
ACGTcount: A:0.29, C:0.15, G:0.33, T:0.23
Consensus pattern (28 bp):
GTGCCACGAAGTTGTGGACTTTAAAAGG
Found at i:2616176 original size:17 final size:17
Alignment explanation
Indices: 2616154--2616187 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2616144 CTTTAAAGGG
2616154 TGCCACGAAGTTATGGA
1 TGCCACGAAGTTATGGA
* *
2616171 TGCCACGGAGTTGTGGA
1 TGCCACGAAGTTATGGA
2616188 CTTTGAAAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.18, G:0.35, T:0.24
Consensus pattern (17 bp):
TGCCACGAAGTTATGGA
Found at i:2616209 original size:72 final size:73
Alignment explanation
Indices: 2616066--2616243 Score: 212
Period size: 72 Copynumber: 2.5 Consensus size: 73
2616056 GTGCTGTCAT
* *
2616066 GGAGTTGTGGAC-TTAAAAAGATGCCACGAAG----CG-TGCCACGAAGTGATGGACTTTAAAAG
1 GGAGTTGTGGACTTTAAAAGGATGCCACGAAGTTATGGATGCCACGAAGTGATGGACTTTAAAAG
2616125 GGTACCAC
66 GGTACCAC
* *
2616133 GGAGTTGTGGACTTT-AAAGGGTGCCACGAAGTTATGGATGCCACGGAGTTG-TGGACTTTGAAA
1 GGAGTTGTGGACTTTAAAAGGATGCCACGAAGTTATGGATGCCACGAAG-TGATGGACTTT-AAA
*
2616196 A-GGTGCCAC
64 AGGGTACCAC
* *
2616205 GGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTTTGGA
1 GGAGTTGTGGACTTTAAAAGGATGCCACGAAGTTATGGA
2616244 CTTAAAAAGA
Statistics
Matches: 94, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
67 26 0.28
68 2 0.02
71 1 0.01
72 39 0.41
73 26 0.28
ACGTcount: A:0.28, C:0.15, G:0.33, T:0.24
Consensus pattern (73 bp):
GGAGTTGTGGACTTTAAAAGGATGCCACGAAGTTATGGATGCCACGAAGTGATGGACTTTAAAAG
GGTACCAC
Found at i:2616248 original size:27 final size:28
Alignment explanation
Indices: 2616168--2616278 Score: 163
Period size: 28 Copynumber: 4.0 Consensus size: 28
2616158 ACGAAGTTAT
2616168 GGATGCCACGGAGTTGTGGACTTTGAAAA
1 GGATGCCACGGAGTTGTGGACTTT-AAAA
2616197 GG-TGCCACGGAGTTGTGGACTTTAAAA
1 GGATGCCACGGAGTTGTGGACTTTAAAA
*
2616224 GGATGCCACGGAGTTTTGGAC-TTAAAA
1 GGATGCCACGGAGTTGTGGACTTTAAAA
* **
2616251 AGATGCCACAAAGTTGTGGACTTTAAAA
1 GGATGCCACGGAGTTGTGGACTTTAAAA
2616279 AGAAATGCCA
Statistics
Matches: 75, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
27 29 0.39
28 44 0.59
29 2 0.03
ACGTcount: A:0.31, C:0.14, G:0.30, T:0.25
Consensus pattern (28 bp):
GGATGCCACGGAGTTGTGGACTTTAAAA
Found at i:2616280 original size:56 final size:56
Alignment explanation
Indices: 2616168--2616278 Score: 170
Period size: 55 Copynumber: 2.0 Consensus size: 56
2616158 ACGAAGTTAT
* * **
2616168 GGATGCCACGGAGTTGTGGACTTTGAAAAGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGATGCCACGGAGTTGTGGACTTTAAAAAGATGCCACAAAGTTGTGGACTTTAAAA
*
2616224 GGATGCCACGGAGTTTTGGAC-TTAAAAAGATGCCACAAAGTTGTGGACTTTAAAA
1 GGATGCCACGGAGTTGTGGACTTTAAAAAGATGCCACAAAGTTGTGGACTTTAAAA
2616279 AGAAATGCCA
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
55 30 0.60
56 20 0.40
ACGTcount: A:0.31, C:0.14, G:0.30, T:0.25
Consensus pattern (56 bp):
GGATGCCACGGAGTTGTGGACTTTAAAAAGATGCCACAAAGTTGTGGACTTTAAAA
Found at i:2617586 original size:22 final size:22
Alignment explanation
Indices: 2617561--2617632 Score: 60
Period size: 23 Copynumber: 3.2 Consensus size: 22
2617551 TGTTGTTCCC
2617561 TTTTTATTTTGCTTTTGCACTTT
1 TTTTTATTTTGCTTTTGCAC-TT
* *
2617584 TTTTTGTTTTTCTTTT-CA-TAT
1 TTTTTATTTTGCTTTTGCACT-T
*
2617605 TTTGTACTTTTGCTTTTG-ACCTT
1 TTTTTA-TTTTGCTTTTGCA-CTT
2617628 TTTTT
1 TTTTT
2617633 GTCCTTTTGA
Statistics
Matches: 38, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
20 1 0.03
21 5 0.13
22 12 0.32
23 19 0.50
24 1 0.03
ACGTcount: A:0.08, C:0.12, G:0.08, T:0.71
Consensus pattern (22 bp):
TTTTTATTTTGCTTTTGCACTT
Found at i:2625182 original size:52 final size:52
Alignment explanation
Indices: 2625097--2625215 Score: 150
Period size: 52 Copynumber: 2.3 Consensus size: 52
2625087 CTGTTGGTCT
* * *
2625097 TGAATCAACACATTGGCATTCTTCTCATCTTTAAATCTAATGTCGCTAGCCG
1 TGAATCAACACATTGACATTCTTCTCATATTTAAATCTAATGTCACTAGCCG
* * **
2625149 TGAATCAACACATTGACATTCTTCGT-ATATTTAAGTCTAATGTCACTGGCTT
1 TGAATCAACACATTGACATTCTTC-TCATATTTAAATCTAATGTCACTAGCCG
*
2625201 TGAATCAGCACATTG
1 TGAATCAACACATTG
2625216 GTACCTTTTG
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
52 57 0.98
53 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (52 bp):
TGAATCAACACATTGACATTCTTCTCATATTTAAATCTAATGTCACTAGCCG
Found at i:2625441 original size:42 final size:42
Alignment explanation
Indices: 2625394--2625476 Score: 166
Period size: 42 Copynumber: 2.0 Consensus size: 42
2625384 GCACTTTAGC
2625394 ACTCTTCTCATCTTTATCATCTTTAGGTCCAGTATTGTAGGT
1 ACTCTTCTCATCTTTATCATCTTTAGGTCCAGTATTGTAGGT
2625436 ACTCTTCTCATCTTTATCATCTTTAGGTCCAGTATTGTAGG
1 ACTCTTCTCATCTTTATCATCTTTAGGTCCAGTATTGTAGG
2625477 CCTTGAATCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.19, C:0.22, G:0.14, T:0.45
Consensus pattern (42 bp):
ACTCTTCTCATCTTTATCATCTTTAGGTCCAGTATTGTAGGT
Found at i:2626206 original size:102 final size:102
Alignment explanation
Indices: 2626030--2626248 Score: 420
Period size: 102 Copynumber: 2.1 Consensus size: 102
2626020 TTTATTTAAA
* *
2626030 TGTATCGATACATTTCTTGAATGTATCGATACAAGGTCCCAACGGTCAAAAATTTTAAATTTTTA
1 TGTATCGATACATTTCTTGAATGTATCGATACAAGGTCCCAACGATCAAAAATTTAAAATTTTTA
2626095 CAAATTATATCGATACAATGTATCGATATATAAGTTT
66 CAAATTATATCGATACAATGTATCGATATATAAGTTT
2626132 TGTATCGATACATTTCTTGAATGTATCGATACAAGGTCCCAACGATCAAAAATTTAAAATTTTTA
1 TGTATCGATACATTTCTTGAATGTATCGATACAAGGTCCCAACGATCAAAAATTTAAAATTTTTA
2626197 CAAATTATATCGATACAATGTATCGATATATAAGTTT
66 CAAATTATATCGATACAATGTATCGATATATAAGTTT
2626234 TGTATCGATACATTT
1 TGTATCGATACATTT
2626249 ATCATTGTAA
Statistics
Matches: 115, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
102 115 1.00
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (102 bp):
TGTATCGATACATTTCTTGAATGTATCGATACAAGGTCCCAACGATCAAAAATTTAAAATTTTTA
CAAATTATATCGATACAATGTATCGATATATAAGTTT
Found at i:2629993 original size:20 final size:19
Alignment explanation
Indices: 2629957--2629995 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
2629947 TACCAGATAA
*
2629957 ATTTTTAATTTATTGAAAT
1 ATTTTTAATTTAATGAAAT
*
2629976 ATTTTTTATTTGAATGAAAT
1 ATTTTTAATTT-AATGAAAT
2629996 TAAGTTTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (19 bp):
ATTTTTAATTTAATGAAAT
Found at i:2631229 original size:64 final size:63
Alignment explanation
Indices: 2631150--2631361 Score: 186
Period size: 64 Copynumber: 3.3 Consensus size: 63
2631140 TTTTCTCTCA
2631150 TTTATT-AATTTTAATAACTATTTAAACAAAAAAATATATGTATAGTTTTTTCTTTTATTAATG
1 TTTATTGAA-TTTAATAACTATTTAAACAAAAAAATATATGTATAGTTTTTTCTTTTATTAATG
* * * * * *
2631213 TTTATTCGAATGTAATAAAAACTCTTTAATC-AAATAATGA-AGGT-TAGGATTTATTTTATTTT
1 TTTATT-GAAT-T--TAATAACTATTTAAACAAAAAAAT-ATATGTATA-G--TT-TTTTCTTTT
* *
2631275 CTCTCA--
57 AT-TAATG
2631281 TTTATT-AATTTTAATAACTATTTAAACAAAAAAATATATGTATAGTTTTTTCTTTTATTAATG
1 TTTATTGAA-TTTAATAACTATTTAAACAAAAAAATATATGTATAGTTTTTTCTTTTATTAATG
2631344 TTTATTTGAATTTAATAA
1 TTTA-TTGAATTTAATAA
2631362 AAACCGTAAT
Statistics
Matches: 114, Mismatches: 16, Indels: 37
0.68 0.10 0.22
Matches are distributed among these distances:
61 2 0.02
62 9 0.08
63 12 0.11
64 25 0.22
65 17 0.15
66 15 0.13
67 15 0.13
68 8 0.07
69 9 0.08
70 2 0.02
ACGTcount: A:0.38, C:0.06, G:0.07, T:0.49
Consensus pattern (63 bp):
TTTATTGAATTTAATAACTATTTAAACAAAAAAATATATGTATAGTTTTTTCTTTTATTAATG
Found at i:2631264 original size:131 final size:131
Alignment explanation
Indices: 2631102--2631365 Score: 492
Period size: 131 Copynumber: 2.0 Consensus size: 131
2631092 TTTTTCTTTT
* *
2631102 ACTCTTTAATTAGATAATGAAGGTTAGGATTTATTTTATTTTCTCTCATTTATTAATTTTAATAA
1 ACTCTTTAATCAAATAATGAAGGTTAGGATTTATTTTATTTTCTCTCATTTATTAATTTTAATAA
2631167 CTATTTAAACAAAAAAATATATGTATAGTTTTTTCTTTTATTAATGTTTATTCGAATGTAATAAA
66 CTATTTAAACAAAAAAATATATGTATAGTTTTTTCTTTTATTAATGTTTATTCGAATGTAATAAA
2631232 A
131 A
2631233 ACTCTTTAATCAAATAATGAAGGTTAGGATTTATTTTATTTTCTCTCATTTATTAATTTTAATAA
1 ACTCTTTAATCAAATAATGAAGGTTAGGATTTATTTTATTTTCTCTCATTTATTAATTTTAATAA
* *
2631298 CTATTTAAACAAAAAAATATATGTATAGTTTTTTCTTTTATTAATGTTTATTTGAATTTAATAAA
66 CTATTTAAACAAAAAAATATATGTATAGTTTTTTCTTTTATTAATGTTTATTCGAATGTAATAAA
2631363 A
131 A
2631364 AC
1 AC
2631366 CGTAATTTCA
Statistics
Matches: 129, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
131 129 1.00
ACGTcount: A:0.37, C:0.07, G:0.08, T:0.48
Consensus pattern (131 bp):
ACTCTTTAATCAAATAATGAAGGTTAGGATTTATTTTATTTTCTCTCATTTATTAATTTTAATAA
CTATTTAAACAAAAAAATATATGTATAGTTTTTTCTTTTATTAATGTTTATTCGAATGTAATAAA
A
Found at i:2631296 original size:67 final size:66
Alignment explanation
Indices: 2631102--2631297 Score: 167
Period size: 66 Copynumber: 3.0 Consensus size: 66
2631092 TTTTTCTTTT
* *
2631102 ACTCTTTAATTAGATAATGAAGGTTAGGATTTATTTTATTTTCTCTCATTTATTAATTTTAAT--
1 ACTCTTTAATCAAATAATGAAGGTTAGGATTTATTTTATTTTCTCTCATTTATTAATTTTAATAA
2631165 A
66 A
* * * * * * *
2631166 ACTATTTAAACAAAAAAAT-ATATGTATA-G--TT-TTTTCTTTTAT-TAATGTTTATTCGAA-T
1 ACTCTTTAATC-AAATAATGA-AGGT-TAGGATTTATTTTATTTTCTCTCA--TTTATT--AATT
*
2631224 GTAATAAAA
59 TTAAT-AAA
2631233 ACTCTTTAATCAAATAATGAAGGTTAGGATTTATTTTATTTTCTCTCATTTATTAATTTTAATAA
1 ACTCTTTAATCAAATAATGAAGGTTAGGATTTATTTTATTTTCTCTCATTTATTAATTTTAATAA
2631298 CTATTTAAAC
Statistics
Matches: 97, Mismatches: 18, Indels: 32
0.66 0.12 0.22
Matches are distributed among these distances:
61 2 0.02
62 9 0.09
63 8 0.08
64 14 0.14
65 13 0.13
66 16 0.16
67 16 0.16
68 8 0.08
69 9 0.09
70 2 0.02
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.48
Consensus pattern (66 bp):
ACTCTTTAATCAAATAATGAAGGTTAGGATTTATTTTATTTTCTCTCATTTATTAATTTTAATAA
A
Found at i:2631337 original size:67 final size:67
Alignment explanation
Indices: 2631135--2631339 Score: 201
Period size: 67 Copynumber: 3.1 Consensus size: 67
2631125 TTAGGATTTA
2631135 TTTTATTTTCTCTCATTTATTAATTTTAATAACTATTTAAACAAAAAAATATATGTATAGTTTTT
1 TTTTATTTTCTCTCATTTATTAATTTTAATAACTATTTAAACAAAAAAATATATGTATAGTTTTT
2631200 TC
66 TC
** * * * * * * *
2631202 TTTTA--TT-AAT-GTTTATTCGAATGTAATAAAAACTCTTTAATC-AAATAATGA-AGGT-TAG
1 TTTTATTTTCTCTCATTTATT--AAT-T-TTAATAACTATTTAAACAAAAAAAT-ATATGTATAG
** *
2631260 -GATTTA
61 TTTTTTC
2631266 TTTTATTTTCTCTCATTTATTAATTTTAATAACTATTTAAACAAAAAAATATATGTATAGTTTTT
1 TTTTATTTTCTCTCATTTATTAATTTTAATAACTATTTAAACAAAAAAATATATGTATAGTTTTT
2631331 TC
66 TC
2631333 TTTTATT
1 TTTTATT
2631340 AATGTTTATT
Statistics
Matches: 101, Mismatches: 24, Indels: 26
0.67 0.16 0.17
Matches are distributed among these distances:
63 6 0.06
64 23 0.23
65 18 0.18
66 18 0.18
67 30 0.30
68 6 0.06
ACGTcount: A:0.36, C:0.08, G:0.06, T:0.50
Consensus pattern (67 bp):
TTTTATTTTCTCTCATTTATTAATTTTAATAACTATTTAAACAAAAAAATATATGTATAGTTTTT
TC
Found at i:2636168 original size:6 final size:7
Alignment explanation
Indices: 2636151--2636175 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
2636141 AAAGCTCAAT
2636151 TTTTTTA
1 TTTTTTA
2636158 TTTTTTA
1 TTTTTTA
2636165 TTTTTTA
1 TTTTTTA
2636172 TTTT
1 TTTT
2636176 AGCTACATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Found at i:2638426 original size:16 final size:16
Alignment explanation
Indices: 2638401--2638483 Score: 52
Period size: 16 Copynumber: 5.3 Consensus size: 16
2638391 ATCTTAAAAA
2638401 TTTA-TATATTTATAT
1 TTTATTATATTTATAT
2638416 TTTATTATA-TTATAAT
1 TTTATTATATTTAT-AT
* **
2638432 TATATT-TA-AAATAT
1 TTTATTATATTTATAT
2638446 TTTA-TAT-TTATATAATT
1 TTTATTATATT-TAT-A-T
*
2638463 TTTATTATATTAATAT
1 TTTATTATATTTATAT
2638479 TTTAT
1 TTTAT
2638484 ATTATATAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 17
0.68 0.09 0.22
Matches are distributed among these distances:
13 1 0.02
14 6 0.12
15 14 0.27
16 18 0.35
17 6 0.12
18 5 0.10
19 2 0.04
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TTTATTATATTTATAT
Found at i:2638450 original size:27 final size:30
Alignment explanation
Indices: 2638420--2638489 Score: 74
Period size: 33 Copynumber: 2.3 Consensus size: 30
2638410 TTATATTTTA
2638420 TTATATTATAA-TTATATT-TA-AAATATT
1 TTATATTATAATTTATATTATATAAATATT
* *
2638447 TTATATTTATATAATTTTTATTATATTAATATT
1 TTATA--T-TATAATTTATATTATATAAATATT
2638480 TTATATTATA
1 TTATATTATA
2638490 TAAATTTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
27 5 0.14
29 1 0.03
30 9 0.26
31 7 0.20
32 2 0.06
33 11 0.31
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (30 bp):
TTATATTATAATTTATATTATATAAATATT
Found at i:2638472 original size:20 final size:19
Alignment explanation
Indices: 2638400--2638490 Score: 66
Period size: 22 Copynumber: 4.7 Consensus size: 19
2638390 AATCTTAAAA
*
2638400 ATTTATATATTTATATTTTATT
1 ATTT-TATA-TTATA-TTTAAT
*
2638422 ATATTATAATTATATTTAAAAT
1 ATTTTAT-ATTATATTT--AAT
*
2638444 ATTTTATATT-TATAT-A-
1 ATTTTATATTATATTTAAT
2638460 ATTTT-TATTATA-TTAAT
1 ATTTTATATTATATTTAAT
2638477 ATTTTATATTATAT
1 ATTTTATATTATAT
2638491 AAATTTTAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 19
0.70 0.06 0.24
Matches are distributed among these distances:
15 5 0.09
16 8 0.14
17 6 0.11
18 7 0.12
20 7 0.12
21 11 0.20
22 12 0.21
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
ATTTTATATTATATTTAAT
Found at i:2638496 original size:16 final size:16
Alignment explanation
Indices: 2638431--2638498 Score: 70
Period size: 16 Copynumber: 4.2 Consensus size: 16
2638421 TATATTATAA
*
2638431 TTATATTTAAAATATT
1 TTATATTTATAATATT
2638447 TTATATTTAT-ATAATT
1 TTATATTTATAAT-ATT
2638463 TT-TATTATATTAATATT
1 TTATATT-TA-TAATATT
2638480 TTATATTATATAA-ATT
1 TTATATT-TATAATATT
2638496 TTA
1 TTA
2638499 AAAATATATT
Statistics
Matches: 46, Mismatches: 1, Indels: 10
0.81 0.02 0.18
Matches are distributed among these distances:
15 6 0.13
16 22 0.48
17 9 0.20
18 9 0.20
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TTATATTTATAATATT
Found at i:2638504 original size:27 final size:29
Alignment explanation
Indices: 2638438--2638510 Score: 78
Period size: 32 Copynumber: 2.4 Consensus size: 29
2638428 TAATTATATT
*
2638438 TAAAATATTTTATATTTATATAATTTTTA
1 TAAAATATTTTATATTTATATAAATTTTA
2638467 TTATATTAATATTTTATA-TTATATAAATTTTA
1 -TA-A--AATATTTTATATTTATATAAATTTTA
2638499 -AAAATATATTTA
1 TAAAATAT-TTTA
2638511 AATCAGATAA
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
27 5 0.13
28 4 0.11
29 1 0.03
30 3 0.08
31 1 0.03
32 13 0.34
33 11 0.29
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (29 bp):
TAAAATATTTTATATTTATATAAATTTTA
Found at i:2639568 original size:28 final size:27
Alignment explanation
Indices: 2639507--2639568 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 27
2639497 TTATCATGCT
* *
2639507 AAATTAAATTTTTTATATTTTAATTTA
1 AAATTAAATTTTTTATATTTTAAATAA
* *
2639534 TACTTAAATATATTTT-TATTTTAAATAA
1 AAATTAAAT-T-TTTTATATTTTAAATAA
2639562 AAATTAA
1 AAATTAA
2639569 TTTAAGTTTA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
27 7 0.26
28 16 0.59
29 4 0.15
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (27 bp):
AAATTAAATTTTTTATATTTTAAATAA
Found at i:2643546 original size:2 final size:2
Alignment explanation
Indices: 2643539--2643578 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
2643529 ACTATGCAGA
2643539 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2643579 GCACTTCACC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2645050 original size:8 final size:8
Alignment explanation
Indices: 2645037--2645072 Score: 65
Period size: 8 Copynumber: 4.6 Consensus size: 8
2645027 CGCATAAGCA
2645037 AAAAAAAG
1 AAAAAAAG
2645045 AAAAAAAG
1 AAAAAAAG
2645053 AAAAAAA-
1 AAAAAAAG
2645060 AAAAAAAG
1 AAAAAAAG
2645068 AAAAA
1 AAAAA
2645073 GGCTGCCAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 7 0.26
8 20 0.74
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:2645058 original size:15 final size:15
Alignment explanation
Indices: 2645037--2645072 Score: 63
Period size: 15 Copynumber: 2.3 Consensus size: 15
2645027 CGCATAAGCA
2645037 AAAAAAAGAAAAAAAG
1 AAAAAAA-AAAAAAAG
2645053 AAAAAAAAAAAAAAG
1 AAAAAAAAAAAAAAG
2645068 AAAAA
1 AAAAA
2645073 GGCTGCCAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAAAAG
Found at i:2646635 original size:21 final size:23
Alignment explanation
Indices: 2646611--2646659 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 23
2646601 CACACCCTTT
2646611 TTTTGTATTTCATT-A-ATTAAA
1 TTTTGTATTTCATTAAGATTAAA
*
2646632 -TTT-TATTTGATTAAGATTAAA
1 TTTTGTATTTCATTAAGATTAAA
2646653 TTTTGTA
1 TTTTGTA
2646660 AAAACTCTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
19 8 0.35
20 4 0.17
21 6 0.26
22 3 0.13
23 2 0.09
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.57
Consensus pattern (23 bp):
TTTTGTATTTCATTAAGATTAAA
Found at i:2646644 original size:19 final size:21
Alignment explanation
Indices: 2646616--2646656 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2646606 CCTTTTTTTG
2646616 TATTTCATT-A-ATTAAATTT
1 TATTTCATTAAGATTAAATTT
*
2646635 TATTTGATTAAGATTAAATTT
1 TATTTCATTAAGATTAAATTT
2646656 T
1 T
2646657 GTAAAAACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 1 0.05
21 10 0.53
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (21 bp):
TATTTCATTAAGATTAAATTT
Found at i:2648839 original size:31 final size:33
Alignment explanation
Indices: 2648777--2648849 Score: 100
Period size: 31 Copynumber: 2.3 Consensus size: 33
2648767 AACTTGTTGA
2648777 ATTAAAT-TATGCAATTAAAATATAAATTAAAT
1 ATTAAATATATGCAATTAAAATATAAATTAAAT
*
2648809 ATTAAATATATG-ATATTAATAT-TAAA-TAAAT
1 ATTAAATATATGCA-ATTAAAATATAAATTAAAT
2648840 ATTAAATATA
1 ATTAAATATA
2648850 ACAGTTAATA
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
31 15 0.39
32 12 0.32
33 11 0.29
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (33 bp):
ATTAAATATATGCAATTAAAATATAAATTAAAT
Found at i:2651400 original size:79 final size:79
Alignment explanation
Indices: 2651305--2651497 Score: 273
Period size: 79 Copynumber: 2.4 Consensus size: 79
2651295 TATTTTGGAG
*
2651305 ATAAAAATGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAA
1 ATAAAACTGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAA
*
2651370 -TCGATGTTTAGGAA
66 CT-GATGTTTAGAAA
* * * *
2651384 ATAAAACTAGGGTTGGAGTATTCCCTC-AGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAA
1 ATAAAACTGGGGTTGGAGTATCCCCTCGA-AAATAACGGGGTTGGAGTATCCCCAATTATGAAAA
* *
2651448 ACTGGTGTTTTGAAA
65 ACTGATGTTTAGAAA
*
2651463 ATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAA
1 ATAAAACTGGGGTTGGAGTATCCCCTCGAAAATAA
2651498 AAACATGAAG
Statistics
Matches: 100, Mismatches: 11, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
78 1 0.01
79 97 0.97
80 2 0.02
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.25
Consensus pattern (79 bp):
ATAAAACTGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAA
CTGATGTTTAGAAA
Found at i:2653017 original size:21 final size:21
Alignment explanation
Indices: 2652988--2653045 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
2652978 AAACCAAGGA
* *
2652988 ACAA-CAAAGTCATAAGCACC
1 ACAACCAAAGCCACAAGCACC
2653008 ACAACCAAAGCCACAAGCACC
1 ACAACCAAAGCCACAAGCACC
2653029 ACAACCAAAGCCACAAG
1 ACAACCAAAGCCACAAG
2653046 AATGCATGGG
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
20 4 0.11
21 31 0.89
ACGTcount: A:0.50, C:0.36, G:0.10, T:0.03
Consensus pattern (21 bp):
ACAACCAAAGCCACAAGCACC
Found at i:2657098 original size:29 final size:29
Alignment explanation
Indices: 2657046--2657107 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
2657036 TATAAGTACC
* *
2657046 TTTGACACAGATATTTTTGTACAAATACT
1 TTTGACACAGATATTTTAGCACAAATACT
* *
2657075 TTTGACACA-ATTATTTTAGCACAAGTATT
1 TTTGACACAGA-TATTTTAGCACAAATACT
2657104 TTTG
1 TTTG
2657108 TGTAGCTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 1 0.04
29 27 0.96
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.44
Consensus pattern (29 bp):
TTTGACACAGATATTTTAGCACAAATACT
Found at i:2660010 original size:13 final size:13
Alignment explanation
Indices: 2659992--2660017 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2659982 TACACAAAGT
2659992 ATGTATCGATACA
1 ATGTATCGATACA
2660005 ATGTATCGATACA
1 ATGTATCGATACA
2660018 CCAAAAAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2660015 original size:32 final size:33
Alignment explanation
Indices: 2659974--2660037 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
2659964 TAGCCAAACT
**
2659974 TGTATCGATACA-CAAAGTATGTATCGATACAA
1 TGTATCGATACACCAAAAAATGTATCGATACAA
2660006 TGTATCGATACACCAAAAAATGTATCGATACA
1 TGTATCGATACACCAAAAAATGTATCGATACA
2660038 TTAGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (33 bp):
TGTATCGATACACCAAAAAATGTATCGATACAA
Found at i:2663955 original size:33 final size:33
Alignment explanation
Indices: 2663918--2663984 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2663908 TTCAACGATT
2663918 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
2663951 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
2663984 T
1 T
2663985 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:2663956 original size:13 final size:13
Alignment explanation
Indices: 2663938--2663962 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2663928 CATAAAATGT
2663938 TGTATCGATACAA
1 TGTATCGATACAA
2663951 TGTATCGATACA
1 TGTATCGATACA
2663963 TATTTTTTTG
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:2664043 original size:13 final size:13
Alignment explanation
Indices: 2664025--2664049 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2664015 ATTACTCAAA
2664025 TGTATCGATACAT
1 TGTATCGATACAT
2664038 TGTATCGATACA
1 TGTATCGATACA
2664050 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:2671319 original size:16 final size:16
Alignment explanation
Indices: 2671298--2671333 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
2671288 TCCAAACACA
*
2671298 AAAAAAAAGAAAAAAG
1 AAAAAAAACAAAAAAG
*
2671314 AAAAAAAACAAAACAG
1 AAAAAAAACAAAAAAG
2671330 AAAA
1 AAAA
2671334 TCTCGGTGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.86, C:0.06, G:0.08, T:0.00
Consensus pattern (16 bp):
AAAAAAAACAAAAAAG
Found at i:2672639 original size:99 final size:99
Alignment explanation
Indices: 2672467--2672932 Score: 596
Period size: 99 Copynumber: 4.6 Consensus size: 99
2672457 GCATTTTTTC
2672467 TTCAAAGCCCACAACTCCGTGGCACCTT-TTACTTTAAAGCCCACAACTCCGTGGCACCTTCTTC
1 TTCAAAGCCCACAACTCCGTGGCACCTTCTT--TTTAAAGCCCACAACTCCGTGGCACCTTCTTC
*
2672531 TTTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTT
64 TTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTT
2672567 TTCAAAGCCCACAACTCCGTGGCACCTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTT
1 TTCAAAGCCCACAACTCCGTGGCACCTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTT
*
2672632 TTCAAAGCCCACAACTCCGTGGCACCTTCTTTTT
66 TTCAAAGCCCACAACTCCGTGGCACCTTCTTCTT
*
2672666 TTCAAAGCCCACAACTCCGTGGGACCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTCTT
1 TTCAAAGCCCACAACTCCGTGGCACCTTC-T-TTTT-AAAGCCCACAACTCCGTGGCACCTTCTT
** *
2672731 CTTTT-AAAGCCCACAACTTTGTGGCACTCTTTTTCCCTT
63 CTTTTCAAAGCCCACAACTCCGTGGCAC-CTTCTT--CTT
* * * *
2672770 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTAGCACTCTTTT
1 TTCAAAGCCCACAACTCCGTGGCACC---TTCTTTTTAAAGCCCACAACTCCGTGGCAC-CTTCT
* * *
2672835 TCCCTTTGCAAAGCCCACAACTCCGTGGCACTTTTTTCTT
62 T--CTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTT
* * * *
2672875 TT-AAAGCCCACAACTCCATGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCA
1 TTCAAAGCCCACAACTCCGTGGCAC-CTTCTT---TTTAAAGCCCACAACTCCGTGGCA
2672933 TCTTTCTCCC
Statistics
Matches: 326, Mismatches: 22, Indels: 31
0.86 0.06 0.08
Matches are distributed among these distances:
99 94 0.29
100 29 0.09
101 26 0.08
102 41 0.13
104 68 0.21
105 35 0.11
106 1 0.00
107 12 0.04
108 20 0.06
ACGTcount: A:0.21, C:0.35, G:0.12, T:0.31
Consensus pattern (99 bp):
TTCAAAGCCCACAACTCCGTGGCACCTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTT
TTCAAAGCCCACAACTCCGTGGCACCTTCTTCTT
Found at i:2672937 original size:34 final size:33
Alignment explanation
Indices: 2672341--2672937 Score: 603
Period size: 34 Copynumber: 17.9 Consensus size: 33
2672331 TCAAATACCT
* * *
2672341 TTTTAAAGTCCACGACTCAGTGGCATCC-TTTTC
1 TTTTAAAGCCCACAACTCCGTGGCA-CCTTTTTC
* * **
2672374 -TTTAAAGTCCACGACTTAGTGGCATCC-TTTTC
1 TTTTAAAGCCCACAACTCCGTGGCA-CCTTTTTC
* * **
2672406 -TTTAAAGTCCACGACTCAATGGCA--TTTTGTC
1 TTTTAAAGCCCACAACTCCGTGGCACCTTTT-TC
* * * * *
2672437 --TCAAAGTCCACGACTCAGTGGCA-TTTTTTC
1 TTTTAAAGCCCACAACTCCGTGGCACCTTTTTC
* *
2672467 -TTCAAAGCCCACAACTCCGTGGCACCTTTTAC
1 TTTTAAAGCCCACAACTCCGTGGCACCTTTTTC
*
2672499 -TTTAAAGCCCACAACTCCGTGGCACCTTCTTC
1 TTTTAAAGCCCACAACTCCGTGGCACCTTTTTC
*
2672531 TTTTTAAAGCCCACAACTCCGTGGCACCTTCTTC
1 -TTTTAAAGCCCACAACTCCGTGGCACCTTTTTC
*
2672565 TTTTCAAAGCCCACAACTCCGTGGCACC-TTCT-
1 TTTT-AAAGCCCACAACTCCGTGGCACCTTTTTC
*
2672597 TTTTAAAGCCCACAACTCCGTGGCACCTTCTTC
1 TTTTAAAGCCCACAACTCCGTGGCACCTTTTTC
2672630 TTTTCAAAGCCCACAACTCCGTGGCACCTTCTTT-
1 TTTT-AAAGCCCACAACTCCGTGGCACCTT-TTTC
* *
2672664 TTTTCAAAGCCCACAACTCCGTGGGACCTTCTTC
1 TTTT-AAAGCCCACAACTCCGTGGCACCTTTTTC
*
2672698 TTTTCAAAGCCCACAACTCCGTGGCACCTTCTTC
1 TTTT-AAAGCCCACAACTCCGTGGCACCTTTTTC
**
2672732 TTTTAAAGCCCACAACTTTGTGGCACTCTTTTTCCC
1 TTTTAAAGCCCACAACTCCGTGGCAC-CTTTTT--C
2672768 TTTTTAAAGCCCACAACTCCGTGGCACCTTTTTC
1 -TTTTAAAGCCCACAACTCCGTGGCACCTTTTTC
*
2672802 TGTTTAAAGCCCACAACTCCGTAGCACTCTTTTTCCC
1 T-TTTAAAGCCCACAACTCCGTGGCAC-CTTTTT--C
* *
2672839 TTTGCAAAGCCCACAACTCCGTGGCACTTTTTTC
1 TTT-TAAAGCCCACAACTCCGTGGCACCTTTTTC
*
2672873 TTTTAAAGCCCACAACTCCATGGCACTCTTTTTCCC
1 TTTTAAAGCCCACAACTCCGTGGCAC-CTTTTT--C
* *
2672909 TTTT-AAGTCCACAACTCCGTGGCATCTTT
1 TTTTAAAGCCCACAACTCCGTGGCACCTTT
2672938 CTCCCTTCCT
Statistics
Matches: 503, Mismatches: 36, Indels: 49
0.86 0.06 0.08
Matches are distributed among these distances:
30 26 0.05
31 49 0.10
32 93 0.18
33 54 0.11
34 189 0.38
35 26 0.05
36 19 0.04
37 47 0.09
ACGTcount: A:0.22, C:0.33, G:0.13, T:0.33
Consensus pattern (33 bp):
TTTTAAAGCCCACAACTCCGTGGCACCTTTTTC
Found at i:2672985 original size:33 final size:35
Alignment explanation
Indices: 2672942--2673011 Score: 126
Period size: 33 Copynumber: 2.1 Consensus size: 35
2672932 ATCTTTCTCC
2672942 CTTCCTAAAGCCCACACAAGTCGGTGGCAA-CCTT
1 CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
2672976 CTTCC-AAAGCCCACACAAGTCGGTGGCAACCCTT
1 CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
2673010 CT
1 CT
2673012 AAGCCCAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
33 24 0.69
34 11 0.31
ACGTcount: A:0.26, C:0.37, G:0.17, T:0.20
Consensus pattern (35 bp):
CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
Found at i:2673129 original size:49 final size:49
Alignment explanation
Indices: 2673011--2674350 Score: 1884
Period size: 49 Copynumber: 27.7 Consensus size: 49
2673001 GCAACCCTTC
* *
2673011 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* *
2673063 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
2673112 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
2673155 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
2673204 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
2673253 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * **
2673302 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTGCATCAC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
2673351 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
2673400 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
2673449 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
2673498 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTGCATCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
2673547 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
2673596 TAAGTCCAATGTAGCTGGCCTTGAATCAACACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
2673639 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
2673688 TAAGTTCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
2673737 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
2673786 TAAGTCCAATGTAGCTGGCCTAGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
2673829 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
2673878 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
2673927 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
2673976 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
2674019 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
2674068 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
2674117 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
2674166 TAAGTCC-ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
2674214 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
2674263 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* *
2674315 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTG
2674351 ACATCTTTTT
Statistics
Matches: 1144, Mismatches: 116, Indels: 56
0.87 0.09 0.04
Matches are distributed among these distances:
43 155 0.14
45 4 0.00
48 48 0.04
49 858 0.75
50 2 0.00
51 2 0.00
52 75 0.07
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:2673276 original size:190 final size:193
Alignment explanation
Indices: 2673011--2674350 Score: 2018
Period size: 190 Copynumber: 6.9 Consensus size: 193
2673001 GCAACCCTTC
* * * *
2673011 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATC-TTAAGTCCAATATA
* * *
2673076 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
62 GCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAG
*
2673141 CACATTGGCA-C-C-T-TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
127 CACATTGGCACCTCATATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
2673202 TT
192 TT
*
2673204 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCATTAAGTCCAATATAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATC-TTAAGTCCAATATAGCT
2673269 GGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCAC
65 GGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCAC
* *
2673334 ATTGGCACCTGCATCACTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCT
130 ATTGGCACCT-CAT-ATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCT
2673399 T
193 T
*
2673400 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCATTAAGTCCAATATAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATC-TTAAGTCCAATATAGCT
2673465 GGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCAC
65 GGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCAC
2673530 ATTGGCACCTGCATCATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCT
130 ATTGGCACCT-CAT-ATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCT
2673595 T
193 T
* *
2673596 TAAGTCCAATGTAGCTGGCCTTGAATCAACACATTGGCA-C--C-T-TTAAGTCCAATATCGCTG
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTAAGTCCAATATAGCTG
* *
2673656 GCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTTCAATGTAGCTGGCCTTGACTCAGCACA
66 GCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACA
2673721 TTGGCACCTTCATCATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
131 TTGGCACC-TCAT-ATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
2673786 TAAGTCCAATGTAGCTGGCCTAGAATCAGCACATTGGCA-C--C-T-TTAAGTCCAATATCGCTG
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTAAGTCCAATATAGCTG
*
2673846 GCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACA
66 GCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACA
2673911 TTGGCACCTTCATCATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
131 TTGGCACC-TCAT-ATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
*
2673976 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C--C-T-TTAAGTCCAATATCGCTG
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTAAGTCCAATATAGCTG
*
2674036 GCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACA
66 GCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACA
*
2674101 TTGGCACCTTCATCATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
131 TTGGCACC-TCAT-ATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * *
2674166 TAAGTCC-ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATC-TTAAGTCCAATATAGCT
* * * * *
2674230 GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
65 GGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCAC
* * * * *
2674295 ATCGGCACCTTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
130 ATTGGCACC---T-CAT-ATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTG
2674351 ACATCTTTTT
Statistics
Matches: 1093, Mismatches: 38, Indels: 27
0.94 0.03 0.02
Matches are distributed among these distances:
189 29 0.03
190 615 0.56
191 4 0.00
192 1 0.00
193 40 0.04
194 1 0.00
195 83 0.08
196 280 0.26
197 2 0.00
198 38 0.03
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (193 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTAAGTCCAATATAGCTG
GCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACA
TTGGCACCTCATATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
Found at i:2674390 original size:56 final size:55
Alignment explanation
Indices: 2674016--2674475 Score: 340
Period size: 49 Copynumber: 8.7 Consensus size: 55
2674006 ACATTGGCAC
* *
2674016 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-C---CTT-T-AT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTTTTTCTCAT
* * * *
2674065 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-C----CT-TCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTTTTTCTCAT
* *
2674114 CATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-C---CTT-T-AT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTTTTTCTCAT
*
2674163 CTTTAAGTCC-ATATAGCTGGCCTTGAATCAGCATATTGGCA-C---CTT-T-AT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTTTTTCTCAT
* * * *
2674211 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-C----CT-TCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTTTTTCTCAT
* *
2674260 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCA-C-CTTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTTTTTCTCAT
* * * *
2674312 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCTTTTTTCATCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTTTTTC-TCAT
* * * * *
2674368 CTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCATC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG---C---AT--CTTTT-T--TC-TC
2674433 AT
54 AT
*
2674435 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGC
2674476 TTATCATCTC
Statistics
Matches: 348, Mismatches: 40, Indels: 31
0.83 0.10 0.07
Matches are distributed among these distances:
48 52 0.15
49 161 0.46
50 2 0.01
52 41 0.12
53 1 0.00
54 5 0.01
56 34 0.10
59 1 0.00
62 2 0.01
64 6 0.02
65 1 0.00
67 42 0.12
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (55 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTTTTTCTCAT
Found at i:2675294 original size:33 final size:33
Alignment explanation
Indices: 2675257--2675323 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2675247 TTCAACGATT
2675257 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
2675290 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
2675323 T
1 T
2675324 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:2675295 original size:13 final size:13
Alignment explanation
Indices: 2675277--2675301 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2675267 CATAAAATGT
2675277 TGTATCGATACAA
1 TGTATCGATACAA
2675290 TGTATCGATACA
1 TGTATCGATACA
2675302 TATTTTTTTG
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:2675382 original size:13 final size:13
Alignment explanation
Indices: 2675364--2675388 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2675354 ATTACTCAAA
2675364 TGTATCGATACAT
1 TGTATCGATACAT
2675377 TGTATCGATACA
1 TGTATCGATACA
2675389 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:2681017 original size:21 final size:20
Alignment explanation
Indices: 2680993--2681039 Score: 51
Period size: 22 Copynumber: 2.3 Consensus size: 20
2680983 AAATCTTTTG
*
2680993 CAAAATAC-TTGTTTTTCACT
1 CAAAATACATCGTTTTTCA-T
*
2681013 ACAAATTACATCGTTTTTCAT
1 -CAAAATACATCGTTTTTCAT
2681034 CAAAAT
1 CAAAAT
2681040 CACCTTCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 5 0.23
21 8 0.36
22 9 0.41
ACGTcount: A:0.36, C:0.19, G:0.04, T:0.40
Consensus pattern (20 bp):
CAAAATACATCGTTTTTCAT
Found at i:2682786 original size:22 final size:22
Alignment explanation
Indices: 2682740--2682780 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
2682730 AAATTTGTTA
2682740 AAATTATCTTATTAAGGGGGAG
1 AAATTATCTTATTAAGGGGGAG
2682762 AAATTAT-TT-TTAAGGGGGA
1 AAATTATCTTATTAAGGGGGA
2682781 AAGAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.53
21 2 0.11
22 7 0.37
ACGTcount: A:0.37, C:0.02, G:0.27, T:0.34
Consensus pattern (22 bp):
AAATTATCTTATTAAGGGGGAG
Found at i:2683440 original size:13 final size:13
Alignment explanation
Indices: 2683422--2683447 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2683412 TACACAAAGT
2683422 ATGTATCGATACA
1 ATGTATCGATACA
2683435 ATGTATCGATACA
1 ATGTATCGATACA
2683448 CCAAAAAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2683445 original size:32 final size:33
Alignment explanation
Indices: 2683404--2683467 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
2683394 TAACCAAACT
**
2683404 TGTATCGATACA-CAAAGTATGTATCGATACAA
1 TGTATCGATACACCAAAAAATGTATCGATACAA
2683436 TGTATCGATACACCAAAAAATGTATCGATACA
1 TGTATCGATACACCAAAAAATGTATCGATACA
2683468 TTAGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (33 bp):
TGTATCGATACACCAAAAAATGTATCGATACAA
Found at i:2686942 original size:2 final size:2
Alignment explanation
Indices: 2686935--2686963 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
2686925 ATTGCTTATT
2686935 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2686964 GATTTACAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2687602 original size:21 final size:20
Alignment explanation
Indices: 2687572--2687619 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
2687562 AATTTAGATT
2687572 AAATAATTTTAAATATTAAAA
1 AAATAATTTT-AATATTAAAA
* *
2687593 AAATATTTTTAATATTAAAT
1 AAATAATTTTAATATTAAAA
2687613 AAATAAT
1 AAATAAT
2687620 AAATATAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 15 0.62
21 9 0.38
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
AAATAATTTTAATATTAAAA
Found at i:2688087 original size:2 final size:2
Alignment explanation
Indices: 2688080--2688116 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
2688070 GAATTACGAC
2688080 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2688117 GCTGCAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2688693 original size:6 final size:6
Alignment explanation
Indices: 2688659--2688692 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
2688649 GTAGTTAAAA
*
2688659 GAAGA- GAAGAC GAAGAC GAAGAC GAAGAT GAAGA
1 GAAGAC GAAGAC GAAGAC GAAGAC GAAGAC GAAGA
2688693 TAAAGATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.53, C:0.09, G:0.35, T:0.03
Consensus pattern (6 bp):
GAAGAC
Found at i:2690391 original size:2 final size:2
Alignment explanation
Indices: 2690384--2690415 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2690374 TTTTGAGGGA
2690384 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
2690416 CGCAATAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2691915 original size:2 final size:2
Alignment explanation
Indices: 2691908--2691932 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2691898 CTCAGATAAA
2691908 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
2691933 GATTGTATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2692052 original size:20 final size:21
Alignment explanation
Indices: 2692029--2692080 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
2692019 AAATAGAGTA
*
2692029 AAATAAAATAA-AATAATAAG
1 AAATAAAATAAGAAGAATAAG
*
2692049 AAATAAAAATAAGAAGAATAAT
1 AAAT-AAAATAAGAAGAATAAG
2692071 AAA-AAAATAA
1 AAATAAAATAA
2692081 TAAAATTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 11 0.39
21 7 0.25
22 10 0.36
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (21 bp):
AAATAAAATAAGAAGAATAAG
Found at i:2692059 original size:16 final size:17
Alignment explanation
Indices: 2692033--2692092 Score: 63
Period size: 17 Copynumber: 3.6 Consensus size: 17
2692023 AGAGTAAAAT
2692033 AAAAT-AAAATAATAAG
1 AAAATAAAAATAATAAG
*
2692049 -AAATAAAAATAAGAAG
1 AAAATAAAAATAATAAG
*
2692065 AATAATAAAAA-AATAAT
1 AA-AATAAAAATAATAAG
2692082 AAAATTAAAAA
1 AAAA-TAAAAA
2692093 AATTTAGTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
15 4 0.11
16 12 0.32
17 13 0.35
18 8 0.22
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (17 bp):
AAAATAAAAATAATAAG
Found at i:2692093 original size:36 final size:36
Alignment explanation
Indices: 2692017--2692092 Score: 95
Period size: 36 Copynumber: 2.1 Consensus size: 36
2692007 GGTTTATTTG
*
2692017 AAAAATAGAGTAAAATAAAATAAAATAATAAGAAAT
1 AAAAATAGAGTAAAATAAAAAAAAATAATAAGAAAT
*
2692053 AAAAATA-AG-AAGAATAATAAAAAAATAATAA-AATT
1 AAAAATAGAGTAA-AATAA-AAAAAAATAATAAGAAAT
2692088 AAAAA
1 AAAAA
2692093 AATTTAGTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
34 2 0.06
35 15 0.42
36 19 0.53
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.18
Consensus pattern (36 bp):
AAAAATAGAGTAAAATAAAAAAAAATAATAAGAAAT
Found at i:2692094 original size:20 final size:20
Alignment explanation
Indices: 2692028--2692094 Score: 57
Period size: 20 Copynumber: 3.4 Consensus size: 20
2692018 AAAATAGAGT
* *
2692028 AAAATAAAATAA-AATAATA
1 AAAAAAAAATAAGAAGAATA
2692047 AGAAATAAAAATAAGAAGAATA
1 A-AAA-AAAAATAAGAAGAATA
* * *
2692069 ATAAAAAAATAATAA-AATT
1 AAAAAAAAATAAGAAGAATA
2692088 AAAAAAA
1 AAAAAAA
2692095 TTTAGTTAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
19 10 0.26
20 13 0.33
21 9 0.23
22 7 0.18
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (20 bp):
AAAAAAAAATAAGAAGAATA
Found at i:2692613 original size:15 final size:16
Alignment explanation
Indices: 2692593--2692623 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
2692583 GACAACAATT
2692593 AAGCAATTAAG-AAAA
1 AAGCAATTAAGCAAAA
2692608 AAGCAATTAAGCAAAA
1 AAGCAATTAAGCAAAA
2692624 CGGCAAAGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.65, C:0.10, G:0.13, T:0.13
Consensus pattern (16 bp):
AAGCAATTAAGCAAAA
Found at i:2692778 original size:15 final size:15
Alignment explanation
Indices: 2692760--2692803 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
2692750 GAACAAATGA
2692760 AACAGCAACAGCAGC
1 AACAGCAACAGCAGC
* *
2692775 AACAACAATAGCAGC
1 AACAGCAACAGCAGC
* *
2692790 AGCCGCAACAGCAG
1 AACAGCAACAGCAG
2692804 TAGCACAGCA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.45, C:0.32, G:0.20, T:0.02
Consensus pattern (15 bp):
AACAGCAACAGCAGC
Found at i:2692855 original size:15 final size:16
Alignment explanation
Indices: 2692817--2692872 Score: 69
Period size: 16 Copynumber: 3.6 Consensus size: 16
2692807 CACAGCAACG
*
2692817 ACAACAACAGCAGCAA
1 ACAACAGCAGCAGCAA
* **
2692833 ACATCAGCAGTGGC-A
1 ACAACAGCAGCAGCAA
2692848 ACAACAGCAGCAGCAA
1 ACAACAGCAGCAGCAA
2692864 ACAACAGCA
1 ACAACAGCA
2692873 ATAAGCAAAC
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
15 12 0.38
16 20 0.62
ACGTcount: A:0.48, C:0.30, G:0.18, T:0.04
Consensus pattern (16 bp):
ACAACAGCAGCAGCAA
Found at i:2692898 original size:20 final size:20
Alignment explanation
Indices: 2692875--2692937 Score: 66
Period size: 20 Copynumber: 3.5 Consensus size: 20
2692865 CAACAGCAAT
*
2692875 AAGCAAACAGCGAAAACAGC
1 AAGCAAACAGCGAAAACAAC
2692895 AAGCAAAC-G-G----CAAC
1 AAGCAAACAGCGAAAACAAC
*
2692909 AAGCAAACAGCAAAAACAAC
1 AAGCAAACAGCGAAAACAAC
2692929 AAGCAAACA
1 AAGCAAACA
2692938 CCAGCAAACA
Statistics
Matches: 35, Mismatches: 2, Indels: 12
0.71 0.04 0.24
Matches are distributed among these distances:
14 11 0.31
15 1 0.03
18 1 0.03
19 1 0.03
20 21 0.60
ACGTcount: A:0.59, C:0.25, G:0.16, T:0.00
Consensus pattern (20 bp):
AAGCAAACAGCGAAAACAAC
Found at i:2692913 original size:14 final size:14
Alignment explanation
Indices: 2692894--2692954 Score: 54
Period size: 14 Copynumber: 4.2 Consensus size: 14
2692884 GCGAAAACAG
*
2692894 CAAGCAAACGGCAA
1 CAAGCAAACAGCAA
2692908 CAAGCAAACAGCAA
1 CAAGCAAACAGCAA
*
2692922 -AAAC-AACAAGCAAA
1 CAAGCAAAC-AGC-AA
2692936 CACCAGCAAACAGCAA
1 CA--AGCAAACAGCAA
2692952 CAA
1 CAA
2692955 AAAAAAAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 12
0.72 0.06 0.23
Matches are distributed among these distances:
12 3 0.08
13 6 0.16
14 16 0.42
15 1 0.03
16 4 0.11
17 5 0.13
18 3 0.08
ACGTcount: A:0.57, C:0.30, G:0.13, T:0.00
Consensus pattern (14 bp):
CAAGCAAACAGCAA
Found at i:2692915 original size:34 final size:34
Alignment explanation
Indices: 2692870--2692936 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
2692860 GCAAACAACA
* * *
2692870 GCAATAAGCAAACAGCGAAAACAGCAAGCAAACG
1 GCAACAAGCAAACAGCAAAAACAACAAGCAAACG
2692904 GCAACAAGCAAACAGCAAAAACAACAAGCAAAC
1 GCAACAAGCAAACAGCAAAAACAACAAGCAAAC
2692937 ACCAGCAAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.57, C:0.25, G:0.16, T:0.01
Consensus pattern (34 bp):
GCAACAAGCAAACAGCAAAAACAACAAGCAAACG
Found at i:2692955 original size:20 final size:20
Alignment explanation
Indices: 2692876--2692955 Score: 54
Period size: 20 Copynumber: 3.8 Consensus size: 20
2692866 AACAGCAATA
* *
2692876 AGCAAACAGCGA-AAACAGCA
1 AGCAAACAGCAACAAACA-CC
* * *
2692896 AGCAAACGGCAACAAGCAAAC
1 AGCAAACAGCAACAAAC-ACC
*
2692917 AGCAAAAACAACAAGCAAACACC
1 AGC--AAACAGCAA-CAAACACC
2692940 AGCAAACAGCAACAAA
1 AGCAAACAGCAACAAA
2692956 AAAAAAAAAG
Statistics
Matches: 45, Mismatches: 10, Indels: 10
0.69 0.15 0.15
Matches are distributed among these distances:
20 14 0.31
21 14 0.31
22 1 0.02
23 12 0.27
24 4 0.09
ACGTcount: A:0.57, C:0.28, G:0.15, T:0.00
Consensus pattern (20 bp):
AGCAAACAGCAACAAACACC
Found at i:2696293 original size:48 final size:49
Alignment explanation
Indices: 2696169--2696296 Score: 161
Period size: 49 Copynumber: 2.6 Consensus size: 49
2696159 GAGAGGAGTG
** * **
2696169 CCAATGTGCCAATTCAAGGCCAACGACATTAGGTTAAGGGAAAAGTAGA
1 CCAATGTGCTGATTCAAGGCCAACGACATTGGGCCAAGGGAAAAGTAGA
* * *
2696218 CCAATGTGCTGATTTAAGGCCAGCGACATTGGGCC-AGAGGAAAAGTGGA
1 CCAATGTGCTGATTCAAGGCCAACGACATTGGGCCAAG-GGAAAAGTAGA
2696267 -CAATGTGCTGATTCAAGGCCAACGACATTG
1 CCAATGTGCTGATTCAAGGCCAACGACATTG
2696297 AACTAATAAA
Statistics
Matches: 68, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
48 30 0.44
49 38 0.56
ACGTcount: A:0.34, C:0.20, G:0.27, T:0.20
Consensus pattern (49 bp):
CCAATGTGCTGATTCAAGGCCAACGACATTGGGCCAAGGGAAAAGTAGA
Found at i:2696457 original size:28 final size:28
Alignment explanation
Indices: 2696408--2697192 Score: 721
Period size: 28 Copynumber: 27.0 Consensus size: 28
2696398 CTTTTAAAAA
*
2696408 AAAGG-TGCCACTAACTTATGTGGGCTTTG
1 AAAGGATGCCACTGAC-T-TGTGGGCTTTG
* *
2696437 AAGGGATACCACTGACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* *
2696465 AAAGGATGCCACTGACCTGTGGGCTTTA
1 AAAGGATGCCACTGACTTGTGGGCTTTG
**
2696493 AAAAAATGCCACTGACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
*
2696521 AAAAGATGCCACTGACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* *
2696549 AAAAGATGCCACTGACTTGTGGGTTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* *
2696577 AAAAGATGCCACTGACTTGTGGGTTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* * * *
2696605 AAAGAATACCACTGACTTGTGAGCTTTA
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* * * *
2696633 AAAAGATGCCACTAATTTGTGTAAGCTTTG
1 AAAGGATGCCACTGACTTGTG--GGCTTTG
* *
2696663 AGCAGGATGCCACTGACTTATGGGCTTTG
1 A-AAGGATGCCACTGACTTGTGGGCTTTG
* * * *
2696692 AGAAGGATACCATTGACTTATGGACTTTG
1 A-AAGGATGCCACTGACTTGTGGGCTTTG
*
2696721 AGAAGGATGCCACTGACTTGTGGGCTATG
1 A-AAGGATGCCACTGACTTGTGGGCTTTG
*
2696750 AAAGGATGCCACTGACTTGTAGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* * *
2696778 AAATGGGTTGCCACCGACTTGTGTGGGCTTTCA
1 AAA--GGATGCCACTGAC-T-TGTGGGCTTT-G
* * ** *
2696811 AATAAGTTGCCACCAACTTGTGTGGGCTTTAA
1 AA-AGGATGCCACTGAC-T-TGTGGGCTTT-G
*
2696843 AAAGGATGCCACTGACTTGTGCGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* * *
2696871 AGAAGGATGCTACTAACTTGTGCGCTTTG
1 A-AAGGATGCCACTGACTTGTGGGCTTTG
*
2696900 AGAAGGATGCCACTGACTTATGGGCTTTG
1 A-AAGGATGCCACTGACTTGTGGGCTTTG
*
2696929 AGAAGGATGCCATTGACTTGTGGGCTTTG
1 A-AAGGATGCCACTGACTTGTGGGCTTTG
* *
2696958 AAAGGATGCCACTGACTTATAGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* *
2696986 AAATGAGTTGCCACCGACTTGTGTGTGCTTTG
1 AAA-G-GATGCCACTGACTTGTG-G-GCTTTG
* * *
2697018 AAATGGGTTGCCACCGACTTGTGTGGGCTTTC
1 AAA--GGATGCCACTGAC-T-TGTGGGCTTTG
* *
2697050 AAATGAGTTGCCACCGACTTGTGTGGGCTTTG
1 AAA-G-GATGCCACTGAC-T-TGTGGGCTTTG
* *
2697082 AAATGATGCCACTGACTTATGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* *
2697110 AAATGATGCTACTGACTTGTAGGG-TTT-
1 AAAGGATGCCACTGACTTGT-GGGCTTTG
*
2697137 AAATGGATGCCACTGACTTGTGGGCCTTG
1 AAA-GGATGCCACTGACTTGTGGGCTTTG
* * *
2697166 AAATGATGCCACTAACTTGTGCGCTTT
1 AAAGGATGCCACTGACTTGTGGGCTTT
2697193 AAAAAGGTGC
Statistics
Matches: 646, Mismatches: 87, Indels: 47
0.83 0.11 0.06
Matches are distributed among these distances:
27 6 0.01
28 303 0.47
29 156 0.24
30 50 0.08
31 28 0.04
32 93 0.14
33 5 0.01
34 5 0.01
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (28 bp):
AAAGGATGCCACTGACTTGTGGGCTTTG
Found at i:2696505 original size:56 final size:56
Alignment explanation
Indices: 2696408--2697481 Score: 686
Period size: 56 Copynumber: 18.7 Consensus size: 56
2696398 CTTTTAAAAA
* * * *
2696408 AAAGG-TGCCACTAACTTATGTGGGCTTTGAAGGGATACCACTGACTTGTGGGCTTTG
1 AAAGGATGCCACTGAC-T-TGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTTG
* **
2696465 AAAGGATGCCACTGACCTGTGGGCTTTAAAAAAATGCCACTGACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTTG
* *
2696521 AAAAGATGCCACTGACTTGTGGGCTTTGAAAA-GATGCCACTGACTTGTGGGTTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTT-AAAAGGATGCCACTGACTTGTGGGCTTTG
* * * * * * *
2696577 AAAAGATGCCACTGACTTGTGGGTTTTGAAAGAATACCACTGACTTGTGAGCTTTA
1 AAAGGATGCCACTGACTTGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTTG
* * * * ** *
2696633 AAAAGATGCCACTAATTTGTGTAAGCTTTGAGCAGGATGCCACTGACTTATGGGCTTTG
1 AAAGGATGCCACTGACTTGTG--GGCTTT-AAAAGGATGCCACTGACTTGTGGGCTTTG
* * * * * *
2696692 AGAAGGATACCATTGACTTATGGACTTTGAGAAGGATGCCACTGACTTGTGGGCTATG
1 A-AAGGATGCCACTGACTTGTGGGCTTT-AAAAGGATGCCACTGACTTGTGGGCTTTG
* * * * *
2696750 AAAGGATGCCACTGACTTGTAGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTCA
1 AAAGGATGCCACTGACTTGTGGGCTTT-AAA-AGGATGCCACTGAC-T-TGTGGGCTTT-G
* * ** *
2696811 AATAAGTTGCCACCAACTTGTGTGGGCTTTAAAAAGGATGCCACTGACTTGTGCGCTTTG
1 AA-AGGATGCCACTGAC-T-TGTGGGCTTT-AAAAGGATGCCACTGACTTGTGGGCTTTG
* * * * *
2696871 AGAAGGATGCTACTAACTTGTGCGCTTTGAGAAGGATGCCACTGACTTATGGGCTTTG
1 A-AAGGATGCCACTGACTTGTGGGCTTT-AAAAGGATGCCACTGACTTGTGGGCTTTG
* * * *
2696929 AGAAGGATGCCATTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTATAGGCTTTG
1 A-AAGGATGCCACTGACTTGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTTG
* * * * * *
2696986 AAATGAGTTGCCACCGACTTGTGTGTGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTC
1 AAA-G-GATGCCACTGACTTGTG-G-GCTTT-AAA-AGGATGCCACTGAC-T-TGTGGGCTTTG
* * * * *
2697050 AAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATGATGCCACTGACTTATGGGCTTTG
1 AAA-G-GATGCCACTGAC-T-TGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTTG
* * * *
2697110 AAATGATGCTACTGACTTGTAGGG-TTTAAATGGATGCCACTGACTTGTGGGCCTTG
1 AAAGGATGCCACTGACTTGT-GGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTTG
* * * * * * * *
2697166 AAATGATGCCACTAACTTGTGCGCTTTAAAAAGG-TGCTATCACGGAGTTGTTGAC-TTA
1 AAAGGATGCCACTGACTTGTGGGCTTT-AAAAGGATGC---CACTGACTTGTGGGCTTTG
* * ** * * *
2697224 AAAGGATGCCACGGAGTTGT-GAATTTAAAAGGATGTCA-TAGAGTTGTGGACTTT-
1 AAAGGATGCCACTGACTTGTGGGCTTTAAAAGGATGCCACT-GACTTGTGGGCTTTG
* * * * * * * *
2697278 AAAAGATGCCAC-GAAGTTGTTGACTTT-AAAGGATGCCAC-GAAGTTGTTGAC-TTA
1 AAAGGATGCCACTG-ACTTGTGGGCTTTAAAAGGATGCCACTG-ACTTGTGGGCTTTG
* * * * * * *
2697332 AAAGGGTGCCACGGAGTTGTGGACTTTAAAAAGG-TGCCACAGAGTTGTGGACTTT-
1 AAAGGATGCCACTGACTTGTGGGCTTT-AAAAGGATGCCACTGACTTGTGGGCTTTG
* * * * * * * * * * *
2697387 AAAGGGTGCCACAGAGTTGTAGAC-TTAAAATGATGCTACAGAATTGTGGACTTTAA
1 AAAGGATGCCACTGACTTGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTT-G
* * * *
2697443 AAAGG-TGCCACGGAGTTGTGGACTTTTAAAGGATGCCAC
1 AAAGGATGCCACTGACTTGTGGGCTTTAAAAGGATGCCAC
2697482 GGAGTTATGT
Statistics
Matches: 827, Mismatches: 142, Indels: 97
0.78 0.13 0.09
Matches are distributed among these distances:
53 9 0.01
54 91 0.11
55 66 0.08
56 232 0.28
57 75 0.09
58 156 0.19
59 36 0.04
60 51 0.06
61 15 0.02
62 32 0.04
63 15 0.02
64 43 0.05
65 2 0.00
66 4 0.00
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (56 bp):
AAAGGATGCCACTGACTTGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTTG
Found at i:2696820 original size:32 final size:31
Alignment explanation
Indices: 2696783--2697080 Score: 170
Period size: 29 Copynumber: 9.8 Consensus size: 31
2696773 CTTTGAAATG
2696783 GGTTGCCACCGACTTGTGTGGGCTTTCAAATAA
1 GGTTGCCACCGACTTGTGTGGGCTTT-AAA-AA
*
2696816 -GTTGCCACCAACTTGTGTGGGCTTTAAAAA
1 GGTTGCCACCGACTTGTGTGGGCTTTAAAAA
* * * * *
2696846 GGATGCCACTGAC-T-TGTGCGCTTTGAGAA
1 GGTTGCCACCGACTTGTGTGGGCTTTAAAAA
* * ** * * *
2696875 GGATGCTACTAAC-T-TGTGCGCTTTGAGAA
1 GGTTGCCACCGACTTGTGTGGGCTTTAAAAA
* * * * *
2696904 GGATGCCACTGAC-T-TATGGGCTTTGAGAA
1 GGTTGCCACCGACTTGTGTGGGCTTTAAAAA
* ** *
2696933 GGATGCCATTGAC-T-TGTGGGCTTT-GAAA
1 GGTTGCCACCGACTTGTGTGGGCTTTAAAAA
* * * * * *
2696961 GGATGCCACTGAC-T-TATAGGCTTTGAAAT
1 GGTTGCCACCGACTTGTGTGGGCTTTAAAAA
* **
2696990 GAGTTGCCACCGACTTGTGTGTGCTTTGAAATG
1 G-GTTGCCACCGACTTGTGTGGGCTTT-AAAAA
* *
2697023 GGTTGCCACCGACTTGTGTGGGCTTTCAAAT
1 GGTTGCCACCGACTTGTGTGGGCTTTAAAAA
2697054 GAGTTGCCACCGACTTGTGTGGGCTTT
1 G-GTTGCCACCGACTTGTGTGGGCTTT
2697081 GAAATGATGC
Statistics
Matches: 224, Mismatches: 34, Indels: 15
0.82 0.12 0.05
Matches are distributed among these distances:
28 23 0.10
29 89 0.40
30 13 0.06
31 16 0.07
32 80 0.36
33 3 0.01
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (31 bp):
GGTTGCCACCGACTTGTGTGGGCTTTAAAAA
Found at i:2696930 original size:208 final size:206
Alignment explanation
Indices: 2696367--2697185 Score: 874
Period size: 208 Copynumber: 4.0 Consensus size: 206
2696357 AAAGTGGTGA
* * * * * * * *
2696367 TTTGAAAAGAGTTGCCATCGACTTGTGTGAGCTTTTAAAAAAAAGGTGCCACTAACTTATGTGGG
1 TTTGAAATGAGTTGCCACCGACTTGTGTGGGC-TTT-GAAATAAGTTGCCACCAACTTGTGTGGG
* * * * * *
2696432 CTTT-GAAGGGATACCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACCTGTGGGCTTT-AAA
64 CTTTAAAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTATGGGCTTTGAGA
** * * *
2696495 AAAATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCA
129 AGGATGCCACTGACTTATGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCA
* *
2696560 CTGACTTGTGGGT
194 CTGACTTGTAGGC
* * * * * ** *
2696573 TTTGAAA--AGATGCCACTGAC-T-TGTGGGTTTTGAAAGAA--TACCACTGAC-T-TGTGAGCT
1 TTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATAAGTTGCCACCAACTTGTGTGGGCT
* * * *
2696630 TTAAAAA-GATGCCACTAATTTGTGTAAGCTTTGAGCAGGATGCCACTGACTTATGGGCTTTGAG
66 TTAAAAAGGATGCCACTGACTTGTG--GGCTTTGA-AAGGATGCCACTGACTTATGGGCTTTGAG
* * * *
2696694 AAGGATACCATTGACTTATGGACTTTGAGAAGGATGCCACTGACTTGTGGGCTATGAAAGGATGC
128 AAGGATGCCACTGACTTATGGGCTTTGA-AAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGC
2696759 CACTGACTTGTAGGC
192 CACTGACTTGTAGGC
* *
2696774 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTCAAATAAGTTGCCACCAACTTGTGTGGGCT
1 TTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATAAGTTGCCACCAACTTGTGTGGGCT
* * * * *
2696839 TTAAAAAGGATGCCACTGACTTGTGCGCTTTGAGAAGGATGCTACTAACTTGTGCGCTTTGAGAA
66 TTAAAAAGGATGCCACTGACTTGTGGGCTTTGA-AAGGATGCCACTGACTTATGGGCTTTGAGAA
*
2696904 GGATGCCACTGACTTATGGGCTTTGAGAAGGATGCCATTGACTTGTGGGCTTTGAAAGGATGCCA
130 GGATGCCACTGACTTATGGGCTTTGA-AAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCA
*
2696969 CTGACTTATAGGC
194 CTGACTTGTAGGC
* ** *
2696982 TTTGAAATGAGTTGCCACCGACTTGTGTGTGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCT
1 TTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATAAGTTGCCACCAACTTGTGTGGGCT
* * * * *
2697047 TTCAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATGATGCCACTGACTTATGGGCTTTGA-
66 TTAAAAAG-GATGCCACTGAC-T-TGTGGGCTTTGAAAGGATGCCACTGACTTATGGGCTTTGAG
* * * * *
2697111 AATGATGCTACTGACTTGTAGGG-TTT-AAATGGATGCCACTGACTTGTGGGCCTTGAAATGATG
128 AAGGATGCCACTGACTTAT-GGGCTTTGAAA-GGATGCCACTGACTTGTGGGCTTTGAAAGGATG
*
2697174 CCACTAACTTGT
191 CCACTGACTTGT
2697186 GCGCTTTAAA
Statistics
Matches: 514, Mismatches: 79, Indels: 38
0.81 0.13 0.06
Matches are distributed among these distances:
196 23 0.04
197 3 0.01
198 15 0.03
199 23 0.04
200 28 0.05
201 56 0.11
202 5 0.01
203 11 0.02
204 11 0.02
205 14 0.03
206 7 0.01
207 9 0.02
208 213 0.41
209 43 0.08
210 42 0.08
211 11 0.02
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.30
Consensus pattern (206 bp):
TTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATAAGTTGCCACCAACTTGTGTGGGCT
TTAAAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTATGGGCTTTGAGAAG
GATGCCACTGACTTATGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACT
GACTTGTAGGC
Found at i:2697238 original size:27 final size:27
Alignment explanation
Indices: 2697206--2697511 Score: 303
Period size: 27 Copynumber: 11.2 Consensus size: 27
2697196 AAGGTGCTAT
*
2697206 CACGGAGTTGTTGACTTAAAAGGATGC
1 CACGGAGTTGTGGACTTAAAAGGATGC
* * *
2697233 CACGGAGTTGTGAATTTAAAAGGATGT
1 CACGGAGTTGTGGACTTAAAAGGATGC
**
2697260 CATAGAGTTGTGGACTTTAAAA-GATGC
1 CACGGAGTTGTGGAC-TTAAAAGGATGC
* * *
2697287 CACGAAGTTGTTGACTTTAAAGGATGC
1 CACGGAGTTGTGGACTTAAAAGGATGC
* * *
2697314 CACGAAGTTGTTGACTTAAAAGGGTGC
1 CACGGAGTTGTGGACTTAAAAGGATGC
2697341 CACGGAGTTGTGGACTTTAAAAAGG-TGC
1 CACGGAGTTGTGGAC-TT-AAAAGGATGC
* * *
2697369 CACAGAGTTGTGGACTTTAAAGGGTGC
1 CACGGAGTTGTGGACTTAAAAGGATGC
* * *
2697396 CACAGAGTTGTAGACTTAAAATGATGC
1 CACGGAGTTGTGGACTTAAAAGGATGC
* * *
2697423 TACAGAATTGTGGACTTTAAAAAGG-TGC
1 CACGGAGTTGTGGAC-TT-AAAAGGATGC
*
2697451 CACGGAGTTGTGGACTTTTAAAGGATGC
1 CACGGAGTTGTGGAC-TTAAAAGGATGC
* * * *
2697479 CACGGAGTTATGTATTTAAAAGGATAC
1 CACGGAGTTGTGGACTTAAAAGGATGC
2697506 CACGGA
1 CACGGA
2697512 ATCGTGGATT
Statistics
Matches: 234, Mismatches: 37, Indels: 16
0.82 0.13 0.06
Matches are distributed among these distances:
26 10 0.04
27 153 0.65
28 60 0.26
29 11 0.05
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.27
Consensus pattern (27 bp):
CACGGAGTTGTGGACTTAAAAGGATGC
Found at i:2697388 original size:82 final size:82
Alignment explanation
Indices: 2697189--2697487 Score: 361
Period size: 82 Copynumber: 3.6 Consensus size: 82
2697179 AACTTGTGCG
* * * *
2697189 CTTTAAAAAGGTGCTATCACGGAGTTGTTGACTTAAAAGGATGCCACGGAGTTG-TGAATTTAAA
1 CTTTAAAAAGGTGC---CACGGAGTTGTGGACTTTAAAGGATGCCACGAAGTTGTTG-ACTTAAA
* *
2697253 AGGATGTCATAGAGTTGTGGA
62 AGGATGCCACAGAGTTGTGGA
* * * *
2697274 CTTT-AAAAGATGCCACGAAGTTGTTGACTTTAAAGGATGCCACGAAGTTGTTGACTTAAAAGGG
1 CTTTAAAAAGGTGCCACGGAGTTGTGGACTTTAAAGGATGCCACGAAGTTGTTGACTTAAAAGGA
*
2697338 TGCCACGGAGTTGTGGA
66 TGCCACAGAGTTGTGGA
* * * *
2697355 CTTTAAAAAGGTGCCACAGAGTTGTGGACTTTAAAGGGTGCCAC-AGAGTTGTAGACTTAAAATG
1 CTTTAAAAAGGTGCCACGGAGTTGTGGACTTTAAAGGATGCCACGA-AGTTGTTGACTTAAAAGG
* *
2697419 ATGCTACAGAATTGTGGA
65 ATGCCACAGAGTTGTGGA
*
2697437 CTTTAAAAAGGTGCCACGGAGTTGTGGACTTTTAAAGGATGCCACGGAGTT
1 CTTTAAAAAGGTGCCACGGAGTTGTGGAC-TTTAAAGGATGCCACGAAGTT
2697488 ATGTATTTAA
Statistics
Matches: 186, Mismatches: 23, Indels: 12
0.84 0.10 0.05
Matches are distributed among these distances:
81 62 0.33
82 94 0.51
83 18 0.10
84 8 0.04
85 4 0.02
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.28
Consensus pattern (82 bp):
CTTTAAAAAGGTGCCACGGAGTTGTGGACTTTAAAGGATGCCACGAAGTTGTTGACTTAAAAGGA
TGCCACAGAGTTGTGGA
Found at i:2697544 original size:30 final size:30
Alignment explanation
Indices: 2697505--2697586 Score: 110
Period size: 30 Copynumber: 2.7 Consensus size: 30
2697495 TAAAAGGATA
* *
2697505 CCACGGAATCGTGGATTTTGAAAAAAAATG
1 CCACTGAATCGTGGACTTTGAAAAAAAATG
* *
2697535 CCACTGAATCGTGAACTTTGAAAAGAAATG
1 CCACTGAATCGTGGACTTTGAAAAAAAATG
* *
2697565 CCACTAAATCGTAGACTTTGAA
1 CCACTGAATCGTGGACTTTGAA
2697587 GAGGTCACAG
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (30 bp):
CCACTGAATCGTGGACTTTGAAAAAAAATG
Found at i:2698875 original size:24 final size:24
Alignment explanation
Indices: 2698837--2698884 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
2698827 TGTTGTTCTC
2698837 TTTTTATTTTGCTTTTGCACATTTT
1 TTTTTATTTTGCTTTT-CACATTTT
* *
2698862 TTTTTGTTTT-CTTTTCATATTTT
1 TTTTTATTTTGCTTTTCACATTTT
2698885 GTACTTTTGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 7 0.33
24 5 0.24
25 9 0.43
ACGTcount: A:0.10, C:0.10, G:0.06, T:0.73
Consensus pattern (24 bp):
TTTTTATTTTGCTTTTCACATTTT
Found at i:2704631 original size:91 final size:91
Alignment explanation
Indices: 2704487--2704668 Score: 346
Period size: 91 Copynumber: 2.0 Consensus size: 91
2704477 AAAAATATAC
* *
2704487 CAACAAGATAGAAATTTAACTTTTGGTTTGAACAAGTAATATAACTTGTTTAACACCTTTGTGTG
1 CAACAAGATAGAAATCTAACTTTTGGTTTGAACAAGCAATATAACTTGTTTAACACCTTTGTGTG
2704552 GCTGAAAACAAGTTGAAAAATGATGA
66 GCTGAAAACAAGTTGAAAAATGATGA
2704578 CAACAAGATAGAAATCTAACTTTTGGTTTGAACAAGCAATATAACTTGTTTAACACCTTTGTGTG
1 CAACAAGATAGAAATCTAACTTTTGGTTTGAACAAGCAATATAACTTGTTTAACACCTTTGTGTG
2704643 GCTGAAAACAAGTTGAAAAATGATGA
66 GCTGAAAACAAGTTGAAAAATGATGA
2704669 AAAAGTGGAT
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
91 89 1.00
ACGTcount: A:0.40, C:0.12, G:0.18, T:0.31
Consensus pattern (91 bp):
CAACAAGATAGAAATCTAACTTTTGGTTTGAACAAGCAATATAACTTGTTTAACACCTTTGTGTG
GCTGAAAACAAGTTGAAAAATGATGA
Done.