Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 99 of 253
Found at i:30967984 original size:15 final size:15
Alignment explanation
Indices: 30967938--30967985 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
30967928 AAACCTACAA
*
30967938 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
30967953 AAAC-CCATCTACAT
1 AAACTTCATATCCAT
30967967 AAACTTCATATCCAT
1 AAACTTCATATCCAT
30967982 AAAC
1 AAAC
30967986 CTATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:30970424 original size:5 final size:5
Alignment explanation
Indices: 30970416--30970546 Score: 62
Period size: 5 Copynumber: 26.0 Consensus size: 5
30970406 TGCAATCAAA
*
30970416 CTTTT CTTTT CTTTTT CATTTT CATTTT CTTTTT CTTGT -TTTT CTTTT
1 CTTTT CTTTT C-TTTT C-TTTT C-TTTT C-TTTT CTTTT CTTTT CTTTT
* * * *
30970464 CTCGTT -TTCT CTTTT C-TTT CTTTT GCTATT -TTTG C-TTT CTTTT CTCATTT
1 CT-TTT CTTTT CTTTT CTTTT CTTTT -CTTTT CTTTT CTTTT CTTTT CT--TTT
* *
30970514 CTTTT -TTCT -TTTT CTTTT -TCTTT CCTTT CTTTT
1 CTTTT CTTTT CTTTT CTTTT CT-TTT CTTTT CTTTT
30970547 TCAACTTTGT
Statistics
Matches: 97, Mismatches: 16, Indels: 26
0.70 0.12 0.19
Matches are distributed among these distances:
4 20 0.21
5 45 0.46
6 27 0.28
7 5 0.05
ACGTcount: A:0.03, C:0.20, G:0.03, T:0.74
Consensus pattern (5 bp):
CTTTT
Found at i:30970445 original size:18 final size:17
Alignment explanation
Indices: 30970417--30970541 Score: 74
Period size: 19 Copynumber: 6.8 Consensus size: 17
30970407 GCAATCAAAC
30970417 TTTTCTTTTCTTTTTCA
1 TTTTCTTTTCTTTTTCA
*
30970434 TTTTCATTTTCTTTTTCTTGT
1 TTTTC-TTTTCTTTTTC---A
*
30970455 TTTTCTTTTCTCGTTTTCTC
1 TTTTCTTTTCT--TTTTC-A
*
30970475 TTTTC-TTTCTTTTGCTA
1 TTTTCTTTTCTTTTTC-A
30970492 TTTT-TGCTTTCTTTTCTCA
1 TTTTCT--TTTCTTTT-TCA
* *
30970511 TTTCTTTTTTCTTTTTCT
1 TTT-TCTTTTCTTTTTCA
*
30970529 TTTTCTTTCCTTT
1 TTTTCTTTTCTTT
30970542 CTTTTTCAAC
Statistics
Matches: 87, Mismatches: 9, Indels: 24
0.73 0.08 0.20
Matches are distributed among these distances:
17 22 0.25
18 16 0.18
19 25 0.29
20 13 0.15
21 6 0.07
22 5 0.06
ACGTcount: A:0.03, C:0.19, G:0.03, T:0.74
Consensus pattern (17 bp):
TTTTCTTTTCTTTTTCA
Found at i:30970449 original size:24 final size:23
Alignment explanation
Indices: 30970417--30970548 Score: 69
Period size: 23 Copynumber: 5.5 Consensus size: 23
30970407 GCAATCAAAC
30970417 TTTTC-TTTTCTTTTTCATTTTCA
1 TTTTCTTTTTCTTTTTC-TTTTCA
*
30970440 TTTTCTTTTTCTTGTTTTTCTTTTCTCG
1 TTTTCTTTTTC---TTTTTC-TTT-TCA
30970468 TTTTCTCTTTTC--TTTCTTTTGCTA
1 TTTTCT-TTTTCTTTTTCTTTT-C-A
* * *
30970492 TTTT-TGCTTTCTTTTCTCATTTCTT
1 TTTTCT-TTTTCTTTT-TCTTTTC-A
30970517 TTTTCTTTTTCTTTTTC-TTTC-
1 TTTTCTTTTTCTTTTTCTTTTCA
*
30970538 CTTTCTTTTTC
1 TTTTCTTTTTC
30970549 AACTTTGTTC
Statistics
Matches: 88, Mismatches: 9, Indels: 26
0.72 0.07 0.21
Matches are distributed among these distances:
21 10 0.11
22 1 0.01
23 18 0.20
24 15 0.17
25 16 0.18
26 6 0.07
27 9 0.10
28 8 0.09
29 5 0.06
ACGTcount: A:0.03, C:0.20, G:0.03, T:0.74
Consensus pattern (23 bp):
TTTTCTTTTTCTTTTTCTTTTCA
Found at i:30970479 original size:15 final size:15
Alignment explanation
Indices: 30970440--30970480 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
30970430 TTCATTTTCA
*
30970440 TTTTCT-TTTTCTTG
1 TTTTCTCTTTTCTCG
30970454 TTTT-TCTTTTCTCG
1 TTTTCTCTTTTCTCG
30970468 TTTTCTCTTTTCT
1 TTTTCTCTTTTCT
30970481 TTCTTTTGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 1 0.04
14 15 0.62
15 8 0.33
ACGTcount: A:0.00, C:0.20, G:0.05, T:0.76
Consensus pattern (15 bp):
TTTTCTCTTTTCTCG
Found at i:30970484 original size:33 final size:33
Alignment explanation
Indices: 30970422--30970544 Score: 79
Period size: 30 Copynumber: 3.9 Consensus size: 33
30970412 CAAACTTTTC
*
30970422 TTTTCTTTTTCATTTTCATTTTCTTTTTCTTGT
1 TTTTCTTTTTCATTTTCATTTTCTCTTTCTTGT
*
30970455 TTTTCTTTTCTCGTTTTC-TCTTT-TCTTTCTT-T
1 TTTTCTTTT-TCATTTTCAT-TTTCTCTTTCTTGT
** *
30970487 TGCTATTTTTGC--TTTC-TTTTCTCATTTC-T-T
1 TTTTCTTTTT-CATTTTCATTTTCTC-TTTCTTGT
*
30970517 TTTTCTTTTTCTTTTTC--TTTC-CTTTCTT
1 TTTTCTTTTTCATTTTCATTTTCTCTTTCTT
30970545 TTTCAACTTT
Statistics
Matches: 74, Mismatches: 8, Indels: 20
0.73 0.08 0.20
Matches are distributed among these distances:
28 4 0.05
29 6 0.08
30 20 0.27
31 9 0.12
32 8 0.11
33 17 0.23
34 10 0.14
ACGTcount: A:0.03, C:0.20, G:0.03, T:0.74
Consensus pattern (33 bp):
TTTTCTTTTTCATTTTCATTTTCTCTTTCTTGT
Found at i:30970548 original size:6 final size:6
Alignment explanation
Indices: 30970417--30970536 Score: 70
Period size: 6 Copynumber: 19.3 Consensus size: 6
30970407 GCAATCAAAC
* * *
30970417 TTTTC- TTTTCT TTTTCA TTTTCA TTTTCT TTTTCTTGT TTTTCT TTTCTCG
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTC---T TTTTCT TTT-TCT
* * *
30970468 TTTTCT CTTTTC- -TTTCT TTTGCT ATTTT-T GCTTTC- TTTTCT CATTTCTT
1 TTTTCT -TTTTCT TTTTCT TTTTCT -TTTTCT -TTTTCT TTTTCT -TTTTC-T
30970517 TTTTCT TTTTCT TTTTCT TT
1 TTTTCT TTTTCT TTTTCT TT
30970537 CCTTTCTTTT
Statistics
Matches: 91, Mismatches: 11, Indels: 25
0.72 0.09 0.20
Matches are distributed among these distances:
4 4 0.04
5 9 0.10
6 50 0.55
7 21 0.23
8 1 0.01
9 6 0.07
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.75
Consensus pattern (6 bp):
TTTTCT
Found at i:30975511 original size:53 final size:53
Alignment explanation
Indices: 30975337--30975540 Score: 201
Period size: 53 Copynumber: 3.8 Consensus size: 53
30975327 AGGGTTTAAG
* * * * * *
30975337 GATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGAAAA
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGCAAA
* * * * ** * *
30975391 GAAATCATGTAAGACCATGTCAAGACATGGCATTGACAAACTACAATAAGGCAAA
1 GATACCATGTAAGACCATGCCAAGACATGGCAATG-GTAAGTTC-ATAAGGCAAA
* * * * *
30975446 GATCCCATGTAAGACCTTGCCAAGGCATGGCAATGGTGAGTTCATAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAAA
*
30975499 GATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
30975541 TAAAAAGGAA
Statistics
Matches: 118, Mismatches: 30, Indels: 5
0.77 0.20 0.03
Matches are distributed among these distances:
53 46 0.39
54 34 0.29
55 38 0.32
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.21
Consensus pattern (53 bp):
GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAAA
Found at i:30977218 original size:39 final size:39
Alignment explanation
Indices: 30977164--30977239 Score: 143
Period size: 39 Copynumber: 1.9 Consensus size: 39
30977154 TTTAGCTTGT
30977164 GTCTTTAATTATGTCATAGTTTGAACATCATTAATATAA
1 GTCTTTAATTATGTCATAGTTTGAACATCATTAATATAA
*
30977203 GTCTTTAATTATGTCATAGTTTGAGCATCATTAATAT
1 GTCTTTAATTATGTCATAGTTTGAACATCATTAATAT
30977240 GTGTTCTGCA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.45
Consensus pattern (39 bp):
GTCTTTAATTATGTCATAGTTTGAACATCATTAATATAA
Found at i:30980279 original size:10 final size:10
Alignment explanation
Indices: 30980264--30980290 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
30980254 TACTCCTTCA
30980264 AGCTCAAATC
1 AGCTCAAATC
30980274 AGCTCAAATC
1 AGCTCAAATC
30980284 AGCTCAA
1 AGCTCAA
30980291 CTTCAACTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.30, G:0.11, T:0.19
Consensus pattern (10 bp):
AGCTCAAATC
Found at i:30980312 original size:10 final size:10
Alignment explanation
Indices: 30980264--30980312 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
30980254 TACTCCTTCA
*
30980264 AGCTCAAATC
1 AGCTCAACTC
*
30980274 AGCTCAAATC
1 AGCTCAACTC
30980284 AGCTCAACTTC
1 AGCTCAAC-TC
* *
30980295 AACTCAACTT
1 AGCTCAACTC
30980305 AGCTCAAC
1 AGCTCAAC
30980313 GAGCTCGTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
10 25 0.74
11 9 0.26
ACGTcount: A:0.37, C:0.33, G:0.08, T:0.22
Consensus pattern (10 bp):
AGCTCAACTC
Found at i:30984157 original size:65 final size:65
Alignment explanation
Indices: 30984054--30984176 Score: 210
Period size: 65 Copynumber: 1.9 Consensus size: 65
30984044 TATGCATCAG
* *
30984054 ATAATAATATGGCATGCAGTAAATAGTAACTGTCAAACATGCATTCAGGTCAACCTTATCAGATA
1 ATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTTATCAGATA
* *
30984119 ATAATAACATGGCATGCAGTAAATAGTAACAGTTAAACATGCATTCAGGTTAACCTTA
1 ATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTTA
30984177 ACCCTAGAGG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
65 54 1.00
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.28
Consensus pattern (65 bp):
ATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTTATCAGATA
Found at i:30999932 original size:57 final size:58
Alignment explanation
Indices: 30999862--30999974 Score: 142
Period size: 57 Copynumber: 2.0 Consensus size: 58
30999852 AATCCCTACA
* *
30999862 TACATGCATATGGCCCA-CTTGGCTCAATTTCAT-TT-ATATGGCCCATCAGGCCCAATT
1 TACATGCATATGGCCCATC-AGGCCCAA-TTCATATTCATATGGCCCATCAGGCCCAATT
* * *
30999919 TACATTCATATGGCCCATCAGGCCCAATTCATATTCATATGGCCCGTTAGGCCCAA
1 TACATGCATATGGCCCATCAGGCCCAATTCATATTCATATGGCCCATCAGGCCCAA
30999975 ATCACATGTA
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
56 5 0.10
57 24 0.50
58 19 0.40
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (58 bp):
TACATGCATATGGCCCATCAGGCCCAATTCATATTCATATGGCCCATCAGGCCCAATT
Found at i:30999934 original size:29 final size:29
Alignment explanation
Indices: 30999862--30999974 Score: 131
Period size: 29 Copynumber: 3.9 Consensus size: 29
30999852 AATCCCTACA
* * *
30999862 TACATGCATATGGCCCA-CTTGGCTCAATT
1 TACATTCATATGGCCCATC-AGGCCCAATT
*
30999891 T-CATTTATATGGCCCATCAGGCCCAATT
1 TACATTCATATGGCCCATCAGGCCCAATT
30999919 TACATTCATATGGCCCATCAGGCCCAATT
1 TACATTCATATGGCCCATCAGGCCCAATT
* * * *
30999948 CATATTCATATGGCCCGTTAGGCCCAA
1 TACATTCATATGGCCCATCAGGCCCAA
30999975 ATCACATGTA
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
28 22 0.30
29 51 0.70
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (29 bp):
TACATTCATATGGCCCATCAGGCCCAATT
Found at i:31000098 original size:19 final size:19
Alignment explanation
Indices: 31000060--31000098 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
31000050 CAATAGCCCA
*
31000060 TCGGCCCATTTAGCCTATT
1 TCGGCCCATTTAGCCAATT
*
31000079 TCGGCCCATTTGGCCAATT
1 TCGGCCCATTTAGCCAATT
31000098 T
1 T
31000099 GCAACCCAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.15, C:0.31, G:0.18, T:0.36
Consensus pattern (19 bp):
TCGGCCCATTTAGCCAATT
Found at i:31002149 original size:17 final size:17
Alignment explanation
Indices: 31002127--31002159 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
31002117 ATTAGACCAT
31002127 TATACTAGTTTGGACAC
1 TATACTAGTTTGGACAC
31002144 TATACTAGTTTGGACA
1 TATACTAGTTTGGACA
31002160 AAAATACCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.36
Consensus pattern (17 bp):
TATACTAGTTTGGACAC
Found at i:31003245 original size:66 final size:66
Alignment explanation
Indices: 31003170--31003322 Score: 288
Period size: 66 Copynumber: 2.3 Consensus size: 66
31003160 CGAGATGTAT
31003170 ACCATGTAGACAAGAGAGCTACGGCATAAATGTAGCTAGGTCGCATGTGTGTTCTAGATGAAGGA
1 ACCATGTAGACAAGAGAGCTACGGCATAAATGTAGCTAGGTCGCATGTGTGTTCTAGATGAAGGA
31003235 C
66 C
* *
31003236 ACCATGTAGACAAAAGAGCTACGGGATAAATGTAGCTAGGTCGCATGTGTGTTCTAGATGAAGGA
1 ACCATGTAGACAAGAGAGCTACGGCATAAATGTAGCTAGGTCGCATGTGTGTTCTAGATGAAGGA
31003301 C
66 C
31003302 ACCATGTAGACAAGAGAGCTA
1 ACCATGTAGACAAGAGAGCTA
31003323 TGAGATAAAA
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 84 1.00
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.22
Consensus pattern (66 bp):
ACCATGTAGACAAGAGAGCTACGGCATAAATGTAGCTAGGTCGCATGTGTGTTCTAGATGAAGGA
C
Found at i:31003330 original size:66 final size:65
Alignment explanation
Indices: 31003170--31003352 Score: 280
Period size: 66 Copynumber: 2.8 Consensus size: 65
31003160 CGAGATGTAT
31003170 ACCATGTAGACAAGAGAGCTACGGCATAAATGTAGCTAGGTCGCATGTGTGTTCTAGATGAAGGA
1 ACCATGTAGACAAGAGAGCTACGG-ATAAATGTAGCTAGGTCGCATGTGTGTTCTAGATGAAGGA
31003235 C
65 C
*
31003236 ACCATGTAGACAAAAGAGCTACGGGATAAATGTAGCTAGGTCGCATGTGTGTTCTAGATGAAGGA
1 ACCATGTAGACAAGAGAGCTAC-GGATAAATGTAGCTAGGTCGCATGTGTGTTCTAGATGAAGGA
31003301 C
65 C
* * *
31003302 ACCATGTAGACAAGAGAGCTATGAGATAAAATG--GCTAGGTCACATGGGTGT
1 ACCATGTAGACAAGAGAGCTACG-GAT-AAATGTAGCTAGGTCGCATGTGTGT
31003353 ACTAAGTGTT
Statistics
Matches: 109, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
65 17 0.16
66 85 0.78
67 7 0.06
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.22
Consensus pattern (65 bp):
ACCATGTAGACAAGAGAGCTACGGATAAATGTAGCTAGGTCGCATGTGTGTTCTAGATGAAGGAC
Found at i:31008795 original size:16 final size:16
Alignment explanation
Indices: 31008774--31008822 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 16
31008764 ATAATATACT
31008774 TTTAAATATAA-ACATA
1 TTTAAATA-AATACATA
31008790 TTTAAATAAATACATA
1 TTTAAATAAATACATA
*
31008806 TAATAAACTAAATACAT
1 T-TTAAA-TAAATACAT
31008823 CCTGAGCAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 2 0.07
16 14 0.48
17 4 0.14
18 9 0.31
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (16 bp):
TTTAAATAAATACATA
Found at i:31010311 original size:41 final size:41
Alignment explanation
Indices: 31010243--31010426 Score: 237
Period size: 41 Copynumber: 4.5 Consensus size: 41
31010233 ACATAAAATT
* * * *
31010243 TGCTAGGC-ATAAAGCCT-AGTATTATACACCAGCACAGAGCC
1 TGCTAGGCAAT-AAGCCTGA-TATAATACACCGGCATAAAGCC
* * *
31010284 TGCTAGACAATAGGCATGATATAATACACCGGCATAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCATAAAGCC
** *
31010325 TGCTAGGCAATAAGCCTGATATAATACACCGATATAAAGCT
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCATAAAGCC
31010366 TGCTAGGCAATAAGCCTGATATAATACACCGGCATAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCATAAAGCC
31010407 TGCTAGGCAATGAAGCCTGA
1 TGCTAGGCAAT-AAGCCTGA
31010427 ATATCACTGA
Statistics
Matches: 124, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
41 113 0.91
42 11 0.09
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (41 bp):
TGCTAGGCAATAAGCCTGATATAATACACCGGCATAAAGCC
Found at i:31011371 original size:24 final size:25
Alignment explanation
Indices: 31011324--31011371 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
31011314 TTTTATTTTA
* *
31011324 ACATATATTAACCTTTAATCTAATT
1 ACATATATTAACCATTAATATAATT
*
31011349 ACATA-ATTAACCATTATTATAAT
1 ACATATATTAACCATTAATATAAT
31011372 ATTATTCTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.42
Consensus pattern (25 bp):
ACATATATTAACCATTAATATAATT
Found at i:31018612 original size:50 final size:49
Alignment explanation
Indices: 31018442--31018679 Score: 199
Period size: 49 Copynumber: 4.8 Consensus size: 49
31018432 ATTGTGAGTA
* * * * * *
31018442 CACGTGTTTAGTACTAAGTGAAGG-TACTACGTGTACCATACTGTTAAGT
1 CACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCA-AATGGTAGGT
* * * * * * *** * *
31018491 CGCATGTGTAGTACTAAGTGCAGGCTATTATGCGTACTCAATAACTTCGAT
1 CACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTA-TCAA-ATGGTAGGT
31018542 CACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAAATGGTGAGGT
1 CACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAAATGGT-AGGT
** * *
31018592 CACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCGGATTGTTGGT
1 CACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAAATGGTAGGT
* * * * *
31018641 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTATCA
1 CACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCA
31018680 GATAGCTTCG
Statistics
Matches: 150, Mismatches: 35, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
49 58 0.39
50 57 0.38
51 35 0.23
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.32
Consensus pattern (49 bp):
CACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAAATGGTAGGT
Found at i:31021546 original size:37 final size:38
Alignment explanation
Indices: 31021497--31021700 Score: 215
Period size: 39 Copynumber: 5.3 Consensus size: 38
31021487 GGACTAAGAT
31021497 CCGAAGGC-TTTGTGCGAGATACAATCCGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGATACAATCCGGGTTAAGTC
*
31021533 CCGAAGGCATTTGTGCGAGATATAATTCCGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGATACAA-TCCGGGTTAAGTC
*
31021571 CCGAAGGC-CTTGTGCGAG-TACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATAC--AATCCGGGTTAAGTC
*
31021609 CCGAAGGCATTCGTGCGAGTTATTA-AATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAG--A-TACAATCCGGGTTAAGTC
* * * * *
31021649 CCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGATAC--AATCCGGGTTAAGTC
31021688 CCGAAGGCATTTG
1 CCGAAGGCATTTG
31021701 AACGAGGAGC
Statistics
Matches: 143, Mismatches: 11, Indels: 24
0.80 0.06 0.13
Matches are distributed among these distances:
36 12 0.08
37 35 0.24
38 31 0.22
39 36 0.25
40 27 0.19
43 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (38 bp):
CCGAAGGCATTTGTGCGAGATACAATCCGGGTTAAGTC
Found at i:31021571 original size:38 final size:40
Alignment explanation
Indices: 31021444--31021700 Score: 259
Period size: 40 Copynumber: 6.7 Consensus size: 40
31021434 TTGAATGCTG
* * * *
31021444 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAA
**
31021484 TCCGGACTAAGAT-CCGAAGGC-TTTGTGCGAGATAC--AA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAA
*
31021521 TCCGGGTTAAG-CCCGAAGGCATTTGTGCGAGATA-TAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
*
31021559 TCCGGGTTAAG-CCCGAAGGC-CTTGTGCGAG-TACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* * *
31021596 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* *
31021636 TCCGGGTTAAGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* * *
31021675 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
31021701 AACGAGGAGC
Statistics
Matches: 188, Mismatches: 18, Indels: 22
0.82 0.08 0.10
Matches are distributed among these distances:
36 10 0.05
37 46 0.24
38 30 0.16
39 42 0.22
40 58 0.31
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:31021691 original size:79 final size:76
Alignment explanation
Indices: 31021445--31021698 Score: 248
Period size: 76 Copynumber: 3.3 Consensus size: 76
31021435 TGAATGCTGT
* * * ** * *
31021445 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAATATATCCGGACTAAGATCCGAAGGCTTT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGA-T--ATAAATCCGGGTTAAG-CCCGAAGGCATT
*
31021508 GTGCGAG-A-TACAAT
62 GTGCGAGTACTA-AAA
* * * *
31021522 CCGGGTTAAG-CCCGAAGGCATTTGTGCGAGATATAATTCCGGGTTAAGCCCGAAGGCCTTGTGC
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGATATAAATCCGGGTTAAGCCCGAAGGCATTGTGC
*
31021586 GAGTACTAAAT
66 GAGTACTAAAA
* *
31021597 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTGT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGATA-TAAATCCGGGTTAAG-CCCGAAGGCATTGT
*
31021662 GTGAGTTACTAAAA
64 GCGAG-TACTAAAA
*
31021676 CCGGGCTATGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
31021699 TGAACGAGGA
Statistics
Matches: 153, Mismatches: 16, Indels: 14
0.84 0.09 0.08
Matches are distributed among these distances:
74 17 0.11
75 26 0.17
76 32 0.21
77 32 0.21
78 18 0.12
79 28 0.18
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (76 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGATATAAATCCGGGTTAAGCCCGAAGGCATTGTGC
GAGTACTAAAA
Found at i:31021718 original size:79 final size:78
Alignment explanation
Indices: 31021445--31021733 Score: 211
Period size: 79 Copynumber: 3.8 Consensus size: 78
31021435 TGAATGCTGT
* ** * * * ** *
31021445 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCTTT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
*
31021508 GTGCGAG-A-TACAAT
64 GTGCGAGTACTA-AAA
* * ** * *
31021522 CCGGGTTAAG-CCCGAAGGCATTTGTGCGAGAT-A-TAATTCCGGGTTAAG-CCCGAAGGCCTTG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTG
*
31021583 TGCGAGTACTAAAT
65 TGCGAGTACTAAAA
* ** * *
31021597 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTGT
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTGT
*
31021662 GTGAGTTACTAAAA
66 GCGAG-TACTAAAA
* * * *
31021676 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
31021734 TACGTGATTT
Statistics
Matches: 180, Mismatches: 21, Indels: 21
0.81 0.09 0.09
Matches are distributed among these distances:
74 17 0.09
75 26 0.14
76 34 0.19
77 31 0.17
78 33 0.18
79 39 0.22
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.24
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTGT
GCGAGTACTAAAA
Found at i:31029440 original size:75 final size:75
Alignment explanation
Indices: 31029277--31029530 Score: 275
Period size: 75 Copynumber: 3.3 Consensus size: 75
31029267 TTGAATGCTG
* * * * * *
31029277 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCTTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTATTA-ATCCGGGTTAAG-TCCGAAGGCATT
31029341 GTGCGAG-ATACAA
63 GTGCGAGTATA-AA
*
31029354 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAATCCGGGTTAAG-CCGAA-GCATTCGT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAATCCGGGTTAAGTCCGAAGGCATT-GT
31029417 GCGAGTATTAAA
65 GCGAGTA-TAAA
* *
31029429 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTT-AGTCCCGAAGGCATTG
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATT-AATCCGGGTTAAGT-CCGAAGGCATTG
*
31029493 TGTGAGTTACTAAA
64 TGCGAG-TA-TAAA
* *
31029507 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
31029531 TGAACGAGGA
Statistics
Matches: 155, Mismatches: 13, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
73 4 0.03
74 12 0.08
75 41 0.26
76 23 0.15
77 37 0.24
78 38 0.25
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (75 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAATCCGGGTTAAGTCCGAAGGCATTGTG
CGAGTATAAA
Found at i:31029512 original size:38 final size:40
Alignment explanation
Indices: 31029277--31029530 Score: 253
Period size: 39 Copynumber: 6.6 Consensus size: 40
31029267 TTGAATGCTG
* * * * * *
31029277 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
* * *
31029317 TCCGGATTAAGAT-CCGAAGGC-TTTGTGCGAGATAC--AA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
31029354 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA-TTAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
*
31029393 TCCGGGTTAAG--CCGAA-GCATTCGTGCGAG-TATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
31029429 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
*
31029469 TCCGGGTT-AGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
31029507 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
31029531 TGAACGAGGA
Statistics
Matches: 185, Mismatches: 18, Indels: 23
0.82 0.08 0.10
Matches are distributed among these distances:
35 2 0.01
36 28 0.15
37 24 0.13
38 34 0.18
39 58 0.31
40 38 0.21
41 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:31036395 original size:50 final size:50
Alignment explanation
Indices: 31036310--31036596 Score: 244
Period size: 51 Copynumber: 5.7 Consensus size: 50
31036300 TGGCCCATTG
* *
31036310 TGAGTACACGTGTGTAGTACTCAGTGCAGGCTACTACGTGTACCATACTGT
1 TGAGT-CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGT
* ** * *
31036361 TAAGTTGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACT-T
1 TGAGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-C-AT-ACTGT
* * * **
31036413 CGA-TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCATACTCAATGACT-T
1 TGAGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-C-AT-ACTGT
* * * * *
31036464 CGA-TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGG
1 TGAGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGT
** ** *
31036512 TGAGGTCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTGT
1 TGA-GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGT
* *
31036563 TG-GTCGCATGTGTAGTACTAAGTGCAAGCTACTA
1 TGAGTCACATGTGTAGTACTAAGTGCAGGCTACTA
31036597 TGCGTATCAG
Statistics
Matches: 201, Mismatches: 28, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
47 1 0.00
48 3 0.01
49 29 0.14
50 71 0.35
51 90 0.45
52 4 0.02
53 3 0.01
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (50 bp):
TGAGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGT
Found at i:31036434 original size:51 final size:50
Alignment explanation
Indices: 31036370--31036615 Score: 259
Period size: 51 Copynumber: 4.9 Consensus size: 50
31036360 TTAAGTTGCA
31036370 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATG-CTTCGATCACG
*
31036421 TGTGTAGTACTAAGTGCAGGCTACTATGCATACTCAATGACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATG-CTTCGATCACG
* * * ** * *
31036472 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCAGATGGTGAGGTCATG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCA-ATGCTTCGATCACG
* * * * * *
31036522 TGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CGGATTG-TT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTC--AATGCTTCGATCACG
*
31036571 TGTGTAGTACTAAGTGCAAGCTACTATGCGTA-TCAGATAGCTTCG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCA-AT-GCTTCG
31036616 GCTATAAGTG
Statistics
Matches: 168, Mismatches: 18, Indels: 18
0.82 0.09 0.09
Matches are distributed among these distances:
47 1 0.01
48 1 0.01
49 35 0.21
50 45 0.27
51 85 0.51
52 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGCTTCGATCACG
Found at i:31036627 original size:152 final size:151
Alignment explanation
Indices: 31036319--31036599 Score: 356
Period size: 152 Copynumber: 1.9 Consensus size: 151
31036309 GTGAGTACAC
* * * *
31036319 GTGTGTAGTACTCAGTGCAGGCTACTACGTGTACCATACTGTTAAGTTGCATGTGTAGTACTAAG
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGGTAAGGTGCATGTGTAGTACTAAG
* * *
31036384 TGCAGGCTACTATGCGTACTCAATGACTTCGATCACGTGTGTAGTACTAAGTGCAGGCTACTATG
66 TGCAGGCTACTACGCGTACTCAATGA-TTCGATCACATGTGTAGTACTAAGTGCAAGCTACTATG
*
31036449 CATACTCAATGACTTCGATCAC
130 CATACTCAATGACTTCGATCAA
* *
31036471 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGGTGAGGT-CATGTGTGTAGTACTA
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGGTAAGGTGCA--TGTGTAGTACTA
* * * *
31036534 AGTGCAGGCTACTACGTGTAC-CGGATTG-TT-GGTCGCATGTGTAGTACTAAGTGCAAGCTACT
64 AGTGCAGGCTACTACGCGTACTC--AATGATTCGATCACATGTGTAGTACTAAGTGCAAGCTACT
31036596 ATGC
127 ATGC
31036600 GTATCAGATA
Statistics
Matches: 112, Mismatches: 13, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
150 34 0.30
151 9 0.08
152 66 0.59
153 3 0.03
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (151 bp):
GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGGTAAGGTGCATGTGTAGTACTAAG
TGCAGGCTACTACGCGTACTCAATGATTCGATCACATGTGTAGTACTAAGTGCAAGCTACTATGC
ATACTCAATGACTTCGATCAA
Found at i:31039362 original size:56 final size:55
Alignment explanation
Indices: 31039246--31039363 Score: 159
Period size: 55 Copynumber: 2.1 Consensus size: 55
31039236 TGCATGCTTT
* * * *
31039246 CATT-AATGCCGTCCATGCATGGTGAATATCTCATTTAATTCATGTTTTGCTTCC
1 CATTAAATGCCGTCCATACATGGTGAACATCTCATTTAATTCATGTTTTGCTGCA
*
31039300 CTTTAAATGCCGTTCCATACATGG-GAACATCTCATTTAATTCATGTCTTTGCTGCA
1 CATTAAATGCCG-TCCATACATGGTGAACATCTCATTTAATTCATGT-TTTGCTGCA
31039356 CATTAAAT
1 CATTAAAT
31039364 CAGCAAGCAG
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
54 3 0.05
55 28 0.51
56 24 0.44
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (55 bp):
CATTAAATGCCGTCCATACATGGTGAACATCTCATTTAATTCATGTTTTGCTGCA
Found at i:31039993 original size:19 final size:19
Alignment explanation
Indices: 31039971--31040014 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 19
31039961 AGATAATAAC
31039971 GAGCTCAACGAGTTAAATT
1 GAGCTCAACGAGTTAAATT
*
31039990 GAGCTTGAACGAGTTAAATT
1 GAGC-TCAACGAGTTAAATT
31040010 GAGCT
1 GAGCT
31040015 TGAATGAGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (19 bp):
GAGCTCAACGAGTTAAATT
Found at i:31040002 original size:20 final size:20
Alignment explanation
Indices: 31039977--31040018 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
31039967 TAACGAGCTC
31039977 AACGAGTTAAATTGAGCTTG
1 AACGAGTTAAATTGAGCTTG
31039997 AACGAGTTAAATTGAGCTTG
1 AACGAGTTAAATTGAGCTTG
31040017 AA
1 AA
31040019 TGAGCTGACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.29
Consensus pattern (20 bp):
AACGAGTTAAATTGAGCTTG
Found at i:31040031 original size:20 final size:20
Alignment explanation
Indices: 31039988--31040062 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
31039978 ACGAGTTAAA
* * * *
31039988 TTGAGCTTGAACGAGTTAAA
1 TTGAGCTCGAATGAGCTAAC
* *
31040008 TTGAGCTTGAATGAGCTGAC
1 TTGAGCTCGAATGAGCTAAC
*
31040028 TTGAGCACGAATGAGCTAAC
1 TTGAGCTCGAATGAGCTAAC
31040048 TTGAGCTCGAATGAG
1 TTGAGCTCGAATGAG
31040063 TTGAACCACA
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.27
Consensus pattern (20 bp):
TTGAGCTCGAATGAGCTAAC
Found at i:31040976 original size:16 final size:15
Alignment explanation
Indices: 31040950--31040979 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
31040940 TTTCAATCCA
31040950 TCATCCCAATCAAAG
1 TCATCCCAATCAAAG
31040965 TCATCACCAATCAAA
1 TCATC-CCAATCAAA
31040980 AATTGATACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.33, G:0.03, T:0.20
Consensus pattern (15 bp):
TCATCCCAATCAAAG
Found at i:31042526 original size:13 final size:14
Alignment explanation
Indices: 31042503--31042542 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
31042493 AAATTGAATA
31042503 CAAATTTTTTTTTT
1 CAAATTTTTTTTTT
**
31042517 TGAATTTTTTTTTT
1 CAAATTTTTTTTTT
31042531 CAAATTTTTTTT
1 CAAATTTTTTTT
31042543 CCTTTTTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.20, C:0.05, G:0.03, T:0.72
Consensus pattern (14 bp):
CAAATTTTTTTTTT
Found at i:31043716 original size:56 final size:55
Alignment explanation
Indices: 31043600--31043717 Score: 159
Period size: 55 Copynumber: 2.1 Consensus size: 55
31043590 TGCATGCTTT
* * * *
31043600 CATT-AATGCCGTCCATGCATGGTGAATATCTCATTTAATTCATGTTTTGCTTCC
1 CATTAAATGCCGTCCATACATGGTGAACATCTCATTTAATTCATGTTTTGCTGCA
*
31043654 CTTTAAATGCCGTTCCATACATGG-GAACATCTCATTTAATTCATGTCTTTGCTGCA
1 CATTAAATGCCG-TCCATACATGGTGAACATCTCATTTAATTCATGT-TTTGCTGCA
31043710 CATTAAAT
1 CATTAAAT
31043718 CAGCAAGCAG
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
54 3 0.05
55 28 0.51
56 24 0.44
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (55 bp):
CATTAAATGCCGTCCATACATGGTGAACATCTCATTTAATTCATGTTTTGCTGCA
Found at i:31044353 original size:20 final size:20
Alignment explanation
Indices: 31044328--31044382 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
31044318 ACGAGTTAAA
* *
31044328 TTGAGCTTGAATGAGCTGAC
1 TTGAGCTCGAATGAGCTAAC
*
31044348 TTGAGCACGAATGAGCTAAC
1 TTGAGCTCGAATGAGCTAAC
31044368 TTGAGCTCGAATGAG
1 TTGAGCTCGAATGAG
31044383 TTGAACCACA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.25
Consensus pattern (20 bp):
TTGAGCTCGAATGAGCTAAC
Found at i:31051228 original size:13 final size:14
Alignment explanation
Indices: 31051192--31051229 Score: 60
Period size: 13 Copynumber: 2.7 Consensus size: 14
31051182 TTTTTTCGGA
31051192 TTTTTTTTTTAAAAC
1 TTTTTTTTTT-AAAC
31051207 TTTTTTTTTT-AAC
1 TTTTTTTTTTAAAC
31051220 TTTTTTTTTT
1 TTTTTTTTTT
31051230 CGAAGCTACG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 13 0.57
15 10 0.43
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTTTTTTTAAAC
Found at i:31059248 original size:34 final size:34
Alignment explanation
Indices: 31059205--31059307 Score: 125
Period size: 34 Copynumber: 2.9 Consensus size: 34
31059195 ATTTAATTAA
31059205 ACTCATTTTAGTTAATTGAGTTGCTGGAATAAAT
1 ACTCATTTTAGTTAATTGAGTTGCTGGAATAAAT
* *
31059239 ACTCATTTTAGTTATTAATTGAGTTACTAGAATAAAT
1 ACTCATTTTAG---TTAATTGAGTTGCTGGAATAAAT
* * * *
31059276 GCTTATCTTAGTTAATTTAGTTGCTGGAATAA
1 ACTCATTTTAGTTAATTGAGTTGCTGGAATAA
31059308 TGTATTGTTA
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
34 29 0.50
37 29 0.50
ACGTcount: A:0.33, C:0.09, G:0.16, T:0.43
Consensus pattern (34 bp):
ACTCATTTTAGTTAATTGAGTTGCTGGAATAAAT
Found at i:31059272 original size:37 final size:37
Alignment explanation
Indices: 31059205--31059289 Score: 104
Period size: 37 Copynumber: 2.4 Consensus size: 37
31059195 ATTTAATTAA
* *
31059205 ACTCATTTTAG---TTAATTGAGTTGCTGGAATAAAT
1 ACTCATTTTAGTTATTAATTGAGTTACTAGAATAAAT
31059239 ACTCATTTTAGTTATTAATTGAGTTACTAGAATAAAT
1 ACTCATTTTAGTTATTAATTGAGTTACTAGAATAAAT
* * *
31059276 GCTTATCTTAGTTA
1 ACTCATTTTAGTTA
31059290 ATTTAGTTGC
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
34 11 0.26
37 32 0.74
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.44
Consensus pattern (37 bp):
ACTCATTTTAGTTATTAATTGAGTTACTAGAATAAAT
Found at i:31059364 original size:9 final size:9
Alignment explanation
Indices: 31059352--31059392 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
31059342 AGTTAATTAA
31059352 GTTTAATGT
1 GTTTAATGT
*
31059361 GTTTAAAGT
1 GTTTAATGT
*
31059370 GTTTAATTT
1 GTTTAATGT
31059379 GTTTTAATGT
1 G-TTTAATGT
31059389 GTTT
1 GTTT
31059393 GTTAATGAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
9 19 0.70
10 8 0.30
ACGTcount: A:0.22, C:0.00, G:0.20, T:0.59
Consensus pattern (9 bp):
GTTTAATGT
Found at i:31059375 original size:18 final size:19
Alignment explanation
Indices: 31059352--31059392 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
31059342 AGTTAATTAA
31059352 GTTTAATGTG-TTTAAAGT
1 GTTTAATGTGTTTTAAAGT
* *
31059370 GTTTAATTTGTTTTAATGT
1 GTTTAATGTGTTTTAAAGT
31059389 GTTT
1 GTTT
31059393 GTTAATGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.22, C:0.00, G:0.20, T:0.59
Consensus pattern (19 bp):
GTTTAATGTGTTTTAAAGT
Found at i:31063000 original size:37 final size:34
Alignment explanation
Indices: 31062939--31063041 Score: 134
Period size: 34 Copynumber: 2.9 Consensus size: 34
31062929 TTTTAATTAA
31062939 ACTCATTTTAGTTAATTAAGTTGCTGGAATAAAT
1 ACTCATTTTAGTTAATTAAGTTGCTGGAATAAAT
* *
31062973 ACTCATTTTAGTTATTAATTGAGTTGCTAGAATAAAT
1 ACTCATTTTAG---TTAATTAAGTTGCTGGAATAAAT
* * *
31063010 ACTTATCTTAGTTAATTTAGTTGCTGGAATAA
1 ACTCATTTTAGTTAATTAAGTTGCTGGAATAA
31063042 TTTATTGTTA
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
34 30 0.50
37 30 0.50
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.43
Consensus pattern (34 bp):
ACTCATTTTAGTTAATTAAGTTGCTGGAATAAAT
Found at i:31063098 original size:9 final size:9
Alignment explanation
Indices: 31063086--31063144 Score: 82
Period size: 9 Copynumber: 6.4 Consensus size: 9
31063076 AGTTAATTAA
31063086 GTTTAATGT
1 GTTTAATGT
31063095 GTTTAATGT
1 GTTTAATGT
31063104 GTTTAATGT
1 GTTTAATGT
* *
31063113 GCTTAAAGT
1 GTTTAATGT
*
31063122 GTTTAATTT
1 GTTTAATGT
31063131 GTTTTAATGT
1 G-TTTAATGT
31063141 GTTT
1 GTTT
31063145 GTTAATGAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
9 35 0.81
10 8 0.19
ACGTcount: A:0.22, C:0.02, G:0.20, T:0.56
Consensus pattern (9 bp):
GTTTAATGT
Found at i:31065790 original size:26 final size:25
Alignment explanation
Indices: 31065761--31065809 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
31065751 AAATATTGTT
* *
31065761 AAAACTCTTCTAAAAGAAACTCAAGA
1 AAAACTCTT-AAAAAAAAACTCAAGA
*
31065787 AAAATTCTTAAAAAAAAACTCAA
1 AAAACTCTTAAAAAAAAACTCAA
31065810 ACAGAATTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 12 0.60
26 8 0.40
ACGTcount: A:0.59, C:0.16, G:0.04, T:0.20
Consensus pattern (25 bp):
AAAACTCTTAAAAAAAAACTCAAGA
Found at i:31066587 original size:46 final size:45
Alignment explanation
Indices: 31066494--31066579 Score: 120
Period size: 46 Copynumber: 1.9 Consensus size: 45
31066484 TACATCTCAC
* *
31066494 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTC-GACATGCGCAACCATAAGT
* *
31066540 GAACTCGGACTCAACTCAACGAGTTC-AGATGCTCAACCAT
1 GAACTCGGACTCAACTCAACGAGTTCGACATGCGCAACCAT
31066580 CCTAGTGACA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
44 10 0.28
46 26 0.72
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGACATGCGCAACCATAAGT
Found at i:31070869 original size:30 final size:28
Alignment explanation
Indices: 31070816--31070871 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
31070806 TTCTTCCACG
* *
31070816 CTTTCTTTTTGCTCACTCTCTTTTTCAA
1 CTTTCTTTTTGCACACACTCTTTTTCAA
31070844 CTTTACTTTCTTGCACACACTCTTTTTC
1 CTTT-CTTT-TTGCACACACTCTTTTTC
31070872 TTTTTGCTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.17
29 4 0.17
30 16 0.67
ACGTcount: A:0.12, C:0.30, G:0.04, T:0.54
Consensus pattern (28 bp):
CTTTCTTTTTGCACACACTCTTTTTCAA
Found at i:31076216 original size:23 final size:22
Alignment explanation
Indices: 31076165--31076216 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
31076155 CCTCGTCTTT
*
31076165 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
31076187 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
31076210 TTCTTTT
1 TTCTTTT
31076217 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:31080959 original size:42 final size:43
Alignment explanation
Indices: 31080834--31080973 Score: 169
Period size: 44 Copynumber: 3.3 Consensus size: 43
31080824 ATGTGTTATT
* *
31080834 GTGTAAGACCATGTTTGGGACATTGGCATCAAT-TTGTGATTTAT
1 GTGTAAGACCATGTTTGGGACATTGGCATCGATATT-TGATTT-C
*
31080878 GTGTAAGACCATGTTTGGGACATTGGCATCG-TATATGATTTC
1 GTGTAAGACCATGTTTGGGACATTGGCATCGATATTTGATTTC
* * * *
31080920 GTGTAAGACC-TATTTAGGACAGTGGCATCGATATTTGATTAC
1 GTGTAAGACCATGTTTGGGACATTGGCATCGATATTTGATTTC
*
31080962 ATGTAAGACCAT
1 GTGTAAGACCAT
31080974 CTGGGATGTT
Statistics
Matches: 84, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
41 17 0.20
42 28 0.33
43 8 0.10
44 31 0.37
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (43 bp):
GTGTAAGACCATGTTTGGGACATTGGCATCGATATTTGATTTC
Found at i:31087231 original size:36 final size:36
Alignment explanation
Indices: 31087184--31087256 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
31087174 AACATCAACA
31087184 AATCATCATACCACAATATGCTCATAACAATTTCAT
1 AATCATCATACCACAATATGCTCATAACAATTTCAT
31087220 AATCATCATACCACAATATGCTCATAACAATTTCAT
1 AATCATCATACCACAATATGCTCATAACAATTTCAT
31087256 A
1 A
31087257 GCTTGTTCTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.42, C:0.25, G:0.03, T:0.30
Consensus pattern (36 bp):
AATCATCATACCACAATATGCTCATAACAATTTCAT
Found at i:31089788 original size:13 final size:13
Alignment explanation
Indices: 31089772--31089800 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
31089762 CAATATTATT
31089772 ATAAAATATCATA
1 ATAAAATATCATA
31089785 ATAAAATATCATA
1 ATAAAATATCATA
31089798 ATA
1 ATA
31089801 CAAGTAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (13 bp):
ATAAAATATCATA
Found at i:31090377 original size:30 final size:30
Alignment explanation
Indices: 31090343--31090404 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
31090333 TCCTTAACTC
31090343 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
31090373 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
31090403 AA
1 AA
31090405 GCTCGGGAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.37
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:31091352 original size:46 final size:44
Alignment explanation
Indices: 31091252--31091385 Score: 162
Period size: 46 Copynumber: 3.0 Consensus size: 44
31091242 CATATCCCGA
*
31091252 GGCCGATGCATGTCCTAGACATGTCTTACACTAGCTCTCTTCTCAAT
1 GGCCGATGCATGTCCTAGACATGTCTTACACTAGCTCTC--AT-AAT
* *
31091299 -GCTGATGCATGTCCTAGAAATGTCTTACACTAGCTCTCATAATGT
1 GGCCGATGCATGTCCTAGACATGTCTTACACTAGCTCTCATAA--T
* * *
31091344 GGCCGATGCATGTCCAAGACATGTCTTACACTGGCTCACATA
1 GGCCGATGCATGTCCTAGACATGTCTTACACTAGCTCTCATA
31091386 CCACCCAATG
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
43 2 0.03
44 1 0.01
45 1 0.01
46 72 0.95
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.30
Consensus pattern (44 bp):
GGCCGATGCATGTCCTAGACATGTCTTACACTAGCTCTCATAAT
Found at i:31101331 original size:24 final size:25
Alignment explanation
Indices: 31101304--31101355 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
31101294 GCCTAGCCTC
31101304 TTTTAAT-AACTAGGGCAAAGCCCT
1 TTTTAATAAACTAGGGCAAAGCCCT
* *
31101328 TTTTGATAAACTGGGGCAAAGCCCT
1 TTTTAATAAACTAGGGCAAAGCCCT
31101353 TTT
1 TTT
31101356 CGGTAAACTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 6 0.24
25 19 0.76
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (25 bp):
TTTTAATAAACTAGGGCAAAGCCCT
Found at i:31101339 original size:25 final size:24
Alignment explanation
Indices: 31101311--31101380 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 24
31101301 CTCTTTTAAT
*
31101311 AACTAGGGCAAAGCCCTTTTTGATA
1 AACT-GGGCAAAGCCCTTTTCGATA
*
31101336 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACT-GGGCAAAGCCCTTTTCGATA
*
31101361 AACTGGGACATAGCCCTTTT
1 AACTGGG-CAAAGCCCTTTT
31101381 AGCACTTCCT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
24 3 0.08
25 37 0.93
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (24 bp):
AACTGGGCAAAGCCCTTTTCGATA
Found at i:31101882 original size:27 final size:27
Alignment explanation
Indices: 31101583--31101878 Score: 398
Period size: 27 Copynumber: 11.0 Consensus size: 27
31101573 GGGGCAAAAT
* * *
31101583 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
31101610 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
31101637 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
31101664 GGTAATTTTACCTTAC-AGCGGTATTTC
1 GGTAATTCTACCCTACAAG-GGTATTTC
*
31101691 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
31101718 GGTAGTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
31101745 GGTAGTTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
31101772 GATAATTCTACCCTAC-AGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
31101798 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
31101825 TGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
31101852 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
31101879 AGTATTTTAC
Statistics
Matches: 239, Mismatches: 27, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
26 25 0.10
27 212 0.89
28 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:31102000 original size:27 final size:27
Alignment explanation
Indices: 31101907--31102035 Score: 141
Period size: 27 Copynumber: 4.8 Consensus size: 27
31101897 GGTTTTTCGA
* * *
31101907 TAATTTCACAAATCAGGGGTATTTTGG
1 TAATTTTACAAACCAAGGGTATTTTGG
31101934 TAATTTTACAAACCAAGGGTATTTTGG
1 TAATTTTACAAACCAAGGGTATTTTGG
* *
31101961 TAATTTTACAAACTAGGGGTATTTTGG
1 TAATTTTACAAACCAAGGGTATTTTGG
** * ***
31101988 TAATTTTGTAAACCAATGGTAAAATGG
1 TAATTTTACAAACCAAGGGTATTTTGG
**
31102015 TAATTTTGTAAACCAAGGGTA
1 TAATTTTACAAACCAAGGGTA
31102036 AAATGGTAAT
Statistics
Matches: 88, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 88 1.00
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.36
Consensus pattern (27 bp):
TAATTTTACAAACCAAGGGTATTTTGG
Found at i:31102016 original size:54 final size:54
Alignment explanation
Indices: 31101907--31102075 Score: 160
Period size: 54 Copynumber: 3.1 Consensus size: 54
31101897 GGTTTTTCGA
* ** * ***
31101907 TAATTTCACAAA-TCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGG
1 TAATTTTACAAACT-AGGGGTATTTTGGTAATTTTGTAAACCAAAGGTAAAATGG
*
31101961 TAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAATGGTAAAATGG
1 TAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAAAGGTAAAATGG
** * * *** * * *
31102015 TAATTTTGTAAACCAAGGGTAAAATGGTAATTCTGTAAATCAAAGGTAAAACGG
1 TAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAAAGGTAAAATGG
31102069 TAATTTT
1 TAATTTT
31102076 GTAAATCGAG
Statistics
Matches: 96, Mismatches: 18, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
54 95 0.99
55 1 0.01
ACGTcount: A:0.36, C:0.09, G:0.20, T:0.36
Consensus pattern (54 bp):
TAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAAAGGTAAAATGG
Found at i:31102071 original size:81 final size:81
Alignment explanation
Indices: 31101986--31102217 Score: 311
Period size: 81 Copynumber: 2.9 Consensus size: 81
31101976 GGGGTATTTT
* * * * * *
31101986 GGTAATTTTGTAAACCAATGGTAAAATGGTAATTTTGTAAACCAAGGGTAAAATGGTAATTCTGT
1 GGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCAAGGGTAAAATGGTAATTCTAT
31102051 AAATCAAAGGTAAAAC
66 AAATCAAAGGTAAAAC
* * *
31102067 GGTAATTTTGTAAATCGAGGGTAAAATGATAATTCTATAAATCGAGGGTAAAATGGTAATTCTAT
1 GGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCAAGGGTAAAATGGTAATTCTAT
* *
31102132 AAATCGAGGGTAAAAC
66 AAATCAAAGGTAAAAC
* * * * * *
31102148 AGTAATTCTATAAATTGAGGGTAAAATGGTAATTCTGTAAATCAAGGGTAAAACGATAATTCTAT
1 GGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCAAGGGTAAAATGGTAATTCTAT
31102213 AAATC
66 AAATC
31102218 GGGGGTACTT
Statistics
Matches: 131, Mismatches: 20, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 131 1.00
ACGTcount: A:0.42, C:0.08, G:0.20, T:0.30
Consensus pattern (81 bp):
GGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCAAGGGTAAAATGGTAATTCTAT
AAATCAAAGGTAAAAC
Found at i:31102223 original size:27 final size:27
Alignment explanation
Indices: 31102005--31102224 Score: 269
Period size: 27 Copynumber: 8.1 Consensus size: 27
31101995 GTAAACCAAT
* * * *
31102005 GGTAAAATGGTAATTTTGTAAACCAAG
1 GGTAAAATGGTAATTCTATAAATCGAG
* * *
31102032 GGTAAAATGGTAATTCTGTAAATCAAA
1 GGTAAAATGGTAATTCTATAAATCGAG
* * *
31102059 GGTAAAACGGTAATTTTGTAAATCGAG
1 GGTAAAATGGTAATTCTATAAATCGAG
*
31102086 GGTAAAATGATAATTCTATAAATCGAG
1 GGTAAAATGGTAATTCTATAAATCGAG
31102113 GGTAAAATGGTAATTCTATAAATCGAG
1 GGTAAAATGGTAATTCTATAAATCGAG
** *
31102140 GGTAAAACAGTAATTCTATAAATTGAG
1 GGTAAAATGGTAATTCTATAAATCGAG
* *
31102167 GGTAAAATGGTAATTCTGTAAATCAAG
1 GGTAAAATGGTAATTCTATAAATCGAG
* * *
31102194 GGTAAAACGATAATTCTATAAATCGGG
1 GGTAAAATGGTAATTCTATAAATCGAG
31102221 GGTA
1 GGTA
31102225 CTTTGATAAT
Statistics
Matches: 168, Mismatches: 25, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 168 1.00
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
GGTAAAATGGTAATTCTATAAATCGAG
Found at i:31102249 original size:81 final size:81
Alignment explanation
Indices: 31102005--31102251 Score: 244
Period size: 81 Copynumber: 3.0 Consensus size: 81
31101995 GTAAACCAAT
* * * * * * * * * *
31102005 GGTAAAATGGTAATTTTGTAAACCAAGGGTAAAATGGTAATTCTGTAAATCAAAGGTAAAACGGT
1 GGTAAAATGGTAATTCTGTAAATCAAGGGTAAAACGATAATTCTATAAATCGAGGGTACAATGAT
**
31102070 AATTTTGTAAATCGAG
66 AATTTTACAAATCGAG
* * * * * **
31102086 GGTAAAATGATAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTA-AAACAG
1 GGTAAAATGGTAATTCTGTAAATCAAGGGTAAAACGATAATTCTATAAATCGAGGGTACAATGA-
* * *
31102150 TAATTCTATAAATTGAG
65 TAATTTTACAAATCGAG
* **
31102167 GGTAAAATGGTAATTCTGTAAATCAAGGGTAAAACGATAATTCTATAAATCGGGGGTACTTTGAT
1 GGTAAAATGGTAATTCTGTAAATCAAGGGTAAAACGATAATTCTATAAATCGAGGGTACAATGAT
*
31102232 AATTTTACAAGTCGAG
66 AATTTTACAAATCGAG
31102248 GGTA
1 GGTA
31102252 TTTTAGTAAT
Statistics
Matches: 136, Mismatches: 28, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
80 2 0.01
81 133 0.98
82 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.30
Consensus pattern (81 bp):
GGTAAAATGGTAATTCTGTAAATCAAGGGTAAAACGATAATTCTATAAATCGAGGGTACAATGAT
AATTTTACAAATCGAG
Found at i:31102250 original size:27 final size:25
Alignment explanation
Indices: 31102214--31102372 Score: 120
Period size: 27 Copynumber: 6.0 Consensus size: 25
31102204 TAATTCTATA
*
31102214 AATCGGGGGTACTTTGATAATTTTAC
1 AATCGAGGGTA-TTTGATAATTTTAC
*
31102240 AAGTCGAGGGTATTTTAGTAATTTTAC
1 AA-TCGAGGGTATTTGA-TAATTTTAC
* ** *
31102267 AATCAACAGTATTTCGATAATTTTAT
1 AATCGAGGGTATTT-GATAATTTTAC
* * *
31102293 AAACTGGGGGTACTTTGGTAATTTTAC
1 AATC-GAGGGTA-TTTGATAATTTTAC
* *
31102320 AAGTCGAAGGTATTTCAGTAATTTTAC
1 AA-TCGAGGGTATTTGA-TAATTTTAC
*
31102347 AAATCGAGGGTATTTCGGTAATTTTA
1 -AATCGAGGGTATTT-GATAATTTTA
31102373 GTAAACTAAA
Statistics
Matches: 102, Mismatches: 22, Indels: 17
0.72 0.16 0.12
Matches are distributed among these distances:
26 29 0.28
27 67 0.66
28 6 0.06
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (25 bp):
AATCGAGGGTATTTGATAATTTTAC
Found at i:31102250 original size:54 final size:52
Alignment explanation
Indices: 31102005--31102251 Score: 244
Period size: 54 Copynumber: 4.6 Consensus size: 52
31101995 GTAAACCAAT
* * * * * * *
31102005 GGTAAAATGGTAATTTTGTAAACCAAGGGTAAAATGGTAATTCTGTAAATCAAA
1 GGTAAAATGGTAA-TTT-TAAATCGAGGGTAAAACGATAATTCTATAAATCGAG
* *
31102059 GGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATGATAATTCTATAAATCGAG
1 GGTAAAATGGTAA-TTT-TAAATCGAGGGTAAAACGATAATTCTATAAATCGAG
*
31102113 GGTAAAATGGTAATTCTATAAATCGAGGGTAAAAC-AGTAATTCTATAAATTGAG
1 GGTAAAATGGTAATT-T-TAAATCGAGGGTAAAACGA-TAATTCTATAAATCGAG
* *
31102167 GGTAAAATGGTAATTCTGTAAATCAAGGGTAAAACGATAATTCTATAAATCGGG
1 GGTAAAATGGTAATT-T-TAAATCGAGGGTAAAACGATAATTCTATAAATCGAG
*** *
31102221 GGTACTTTGATAATTTTACAAGTCGAGGGTA
1 GGTAAAATGGTAATTTTA-AA-TCGAGGGTA
31102252 TTTTAGTAAT
Statistics
Matches: 168, Mismatches: 20, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
52 2 0.01
53 6 0.04
54 159 0.95
55 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.30
Consensus pattern (52 bp):
GGTAAAATGGTAATTTTAAATCGAGGGTAAAACGATAATTCTATAAATCGAG
Found at i:31102302 original size:80 final size:82
Alignment explanation
Indices: 31102201--31102379 Score: 256
Period size: 80 Copynumber: 2.2 Consensus size: 82
31102191 AAGGGTAAAA
* * *
31102201 CGATAATTCTATAAA-TCGGGGGTACTTTGATAATTTTACAAGTCGAGGGTATTTTAGTAATTTT
1 CGATAATTTTATAAACTCGGGGGTACTTTGATAATTTTACAAGTCGAAGGTATTTCAGTAATTTT
31102265 AC-AATCAACAGTATTT
66 ACAAATCAACAGTATTT
*
31102281 CGATAATTTTATAAACT-GGGGGTACTTTGGTAATTTTACAAGTCGAAGGTATTTCAGTAATTTT
1 CGATAATTTTATAAACTCGGGGGTACTTTGATAATTTTACAAGTCGAAGGTATTTCAGTAATTTT
* **
31102345 ACAAATCGAGGGTATTT
66 ACAAATCAACAGTATTT
*
31102362 CGGTAATTTTAGTAAACT
1 CGATAATTTTA-TAAACT
31102380 AAAGTATTCT
Statistics
Matches: 88, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
80 60 0.68
81 22 0.25
82 6 0.07
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.39
Consensus pattern (82 bp):
CGATAATTTTATAAACTCGGGGGTACTTTGATAATTTTACAAGTCGAAGGTATTTCAGTAATTTT
ACAAATCAACAGTATTT
Found at i:31102304 original size:53 final size:54
Alignment explanation
Indices: 31102231--31102372 Score: 166
Period size: 54 Copynumber: 2.6 Consensus size: 54
31102221 GGTACTTTGA
* *
31102231 TAATTTTACAAGTCGAGGGTATTTTAGTAATTTTACAA-TC-AACAGTATTTC-G
1 TAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAGTCGAA-AGTATTTCAG
* * * *
31102283 ATAATTTTATAAA-CTGGGGGTACTTTGGTAATTTTACAAGTCGAAGGTATTTCAG
1 -TAATTTTACAAATC-GAGGGTATTTTGGTAATTTTACAAGTCGAAAGTATTTCAG
*
31102338 TAATTTTACAAATCGAGGGTATTTCGGTAATTTTA
1 TAATTTTACAAATCGAGGGTATTTTGGTAATTTTA
31102373 GTAAACTAAA
Statistics
Matches: 74, Mismatches: 10, Indels: 9
0.80 0.11 0.10
Matches are distributed among these distances:
52 1 0.01
53 31 0.42
54 38 0.51
55 4 0.05
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (54 bp):
TAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAGTCGAAAGTATTTCAG
Found at i:31102358 original size:54 final size:52
Alignment explanation
Indices: 31102229--31102372 Score: 159
Period size: 53 Copynumber: 2.7 Consensus size: 52
31102219 GGGGTACTTT
* *
31102229 GATAATTTTACAAGTCGAGGGTATTTTAGTAATTTTACAATCAACAGTATTTC
1 GATAATTTTACAAATCGAGGGTA-TTTGGTAATTTTACAATCAACAGTATTTC
* * *
31102282 GATAATTTTATAAA-CTGGGGGTACTTTGGTAATTTTACAAGTCGAA-GGTATTTC
1 GATAATTTTACAAATC-GAGGGTA-TTTGGTAATTTTACAA-TC-AACAGTATTTC
31102336 -AGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTA
1 GA-TAATTTTACAAATCGAGGGTATTT-GGTAATTTTA
31102373 GTAAACTAAA
Statistics
Matches: 77, Mismatches: 8, Indels: 11
0.80 0.08 0.11
Matches are distributed among these distances:
52 1 0.01
53 37 0.48
54 36 0.47
55 3 0.04
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.40
Consensus pattern (52 bp):
GATAATTTTACAAATCGAGGGTATTTGGTAATTTTACAATCAACAGTATTTC
Found at i:31114414 original size:40 final size:40
Alignment explanation
Indices: 31114370--31114594 Score: 248
Period size: 40 Copynumber: 5.7 Consensus size: 40
31114360 GCTCCTCGTT
* *
31114370 CAAATGCCTTCGGGACATAGCCCAG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGT-ATCTCGCA
* *
31114410 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
*
31114450 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
*
31114489 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTATCTCGCA
* * * *
31114529 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-ATC-TCGCA
*
31114570 CAAA-GCCTTTGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
31114595 CATCATTCAA
Statistics
Matches: 164, Mismatches: 14, Indels: 14
0.85 0.07 0.07
Matches are distributed among these distances:
38 2 0.01
39 34 0.21
40 114 0.70
41 14 0.09
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
Found at i:31114481 original size:79 final size:79
Alignment explanation
Indices: 31114370--31114594 Score: 260
Period size: 79 Copynumber: 2.8 Consensus size: 79
31114360 GCTCCTCGTT
* * * *
31114370 CAAATGCCTTCGGGACATAGCCCAGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGGATATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
31114435 ATTTAGTAACTCGCA
65 ATTTAGTAACTCGCA
*
31114450 CAAATGCCTTCGGGCTTAGCCCGGA-ATTAGT-ATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGCTTAGCCCGGATA-TAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAGCCC
*
31114512 GGATTTAGTATCTCGCA
63 GGATTTAGTAACTCGCA
* * * * * *
31114529 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTTGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGGATATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
31114593 GA
64 GA
31114595 CATCATTCAA
Statistics
Matches: 124, Mismatches: 13, Indels: 16
0.81 0.08 0.10
Matches are distributed among these distances:
78 6 0.05
79 63 0.51
80 42 0.34
81 12 0.10
82 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGA
TTTAGTAACTCGCA
Found at i:31117460 original size:30 final size:31
Alignment explanation
Indices: 31117424--31117520 Score: 92
Period size: 30 Copynumber: 3.2 Consensus size: 31
31117414 AACTCACTCC
31117424 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTTCAACTCACGAGCTAAACCT
* * * * * *
31117454 TAGCTCAAC-TTCAACTTAGGAGTTTAGCCA
1 TAGCTCAACTTTCAACTCACGAGCTAAACCT
* * *
31117484 CAGCTCAACTTT-AGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTCAACTCACGAGCTAAACCT
31117514 TAGCTCA
1 TAGCTCA
31117521 TTTTAGTTTA
Statistics
Matches: 49, Mismatches: 16, Indels: 4
0.71 0.23 0.06
Matches are distributed among these distances:
30 45 0.92
31 4 0.08
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (31 bp):
TAGCTCAACTTTCAACTCACGAGCTAAACCT
Found at i:31124030 original size:11 final size:12
Alignment explanation
Indices: 31124002--31124058 Score: 78
Period size: 12 Copynumber: 4.6 Consensus size: 12
31123992 TAAAAGTCAA
*
31124002 AAAAAAAAATTTG
1 AAAAAAAAA-TTC
31124015 AAAAAAAAATTC
1 AAAAAAAAATTC
31124027 AAAAAAAAATTC
1 AAAAAAAAATTC
*
31124039 AAAAAAAAATCTG
1 AAAAAAAAAT-TC
31124052 AAAAAAA
1 AAAAAAA
31124059 GTGTTTAATG
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
12 24 0.59
13 17 0.41
ACGTcount: A:0.75, C:0.05, G:0.04, T:0.16
Consensus pattern (12 bp):
AAAAAAAAATTC
Found at i:31124981 original size:5 final size:5
Alignment explanation
Indices: 31124971--31125027 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
31124961 AAGAGAAAAT
*
31124971 AAAGA AAAGA AAAGAA AAAGA AAA-A GAAGAA AAAGAA AAAGA AATA-A
1 AAAGA AAAGA AAAG-A AAAGA AAAGA AAAG-A AAAG-A AAAGA AA-AGA
31125018 AAAGA AAAGA
1 AAAGA AAAGA
31125028 GAGGCAAGAG
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
4 4 0.09
5 25 0.56
6 16 0.36
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.02
Consensus pattern (5 bp):
AAAGA
Found at i:31125000 original size:25 final size:25
Alignment explanation
Indices: 31124975--31125023 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
31124965 GAAAATAAAG
31124975 AAAAGAAAAGAAAAAGAAAAAGAAGA
1 AAAAGAAAA-AAAAAGAAAAAGAAGA
* *
31125001 AAAAGAAAAAGAAATAAAAAGAA
1 AAAAGAAAAAAAAAGAAAAAGAA
31125024 AAGAGAGGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (25 bp):
AAAAGAAAAAAAAAGAAAAAGAAGA
Found at i:31125002 original size:15 final size:15
Alignment explanation
Indices: 31124971--31125025 Score: 74
Period size: 16 Copynumber: 3.5 Consensus size: 15
31124961 AAGAGAAAAT
*
31124971 AAAGAAAAGAAAAGAA
1 AAAGAAAA-AGAAGAA
31124987 AAAGAAAAAGAAGAA
1 AAAGAAAAAGAAGAA
*
31125002 AAAGAAAAAGAAATAA
1 AAAGAAAAAG-AAGAA
31125018 AAAGAAAA
1 AAAGAAAA
31125026 GAGAGGCAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
15 16 0.44
16 20 0.56
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (15 bp):
AAAGAAAAAGAAGAA
Found at i:31125025 original size:6 final size:6
Alignment explanation
Indices: 31124971--31125014 Score: 53
Period size: 6 Copynumber: 8.2 Consensus size: 6
31124961 AAGAGAAAAT
31124971 AAAG-A AAAG-A AAAGAA AAAGAA AAAG-- -AAGAA AAAGAA AAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
31125014 A
1 A
31125015 TAAAAAGAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
3 3 0.09
5 9 0.26
6 23 0.66
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:31125026 original size:21 final size:20
Alignment explanation
Indices: 31124960--31125027 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 20
31124950 ACATTCTTGT
* *
31124960 AAAGAGAAAATAAAGAAAAGA
1 AAAGA-AAAAGAAAAAAAAGA
*
31124981 AAAGAAAAAGAAAAAGAAGAA
1 AAAGAAAAAGAAAAAAAAG-A
31125002 AAAGAAAAAGAAATAAAAAGA
1 AAAGAAAAAGAAA-AAAAAGA
31125023 AAAGA
1 AAAGA
31125028 GAGGCAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
20 11 0.27
21 25 0.61
22 5 0.12
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (20 bp):
AAAGAAAAAGAAAAAAAAGA
Found at i:31125104 original size:12 final size:12
Alignment explanation
Indices: 31125096--31125120 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
31125086 TTTGAAAAGA
31125096 AAAAAGAAAATG
1 AAAAAGAAAATG
31125108 AAAAAGAAAATG
1 AAAAAGAAAATG
31125120 A
1 A
31125121 GATTGAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:31125128 original size:24 final size:24
Alignment explanation
Indices: 31125101--31125152 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
31125091 AAAGAAAAAA
* * *
31125101 GAAAATGAAAAAGAAAATGAGATT
1 GAAAAAGAAAAAGAAAAAGAAATT
* *
31125125 GAAAAAGAAGATGAAAAAGAAATT
1 GAAAAAGAAAAAGAAAAAGAAATT
31125149 GAAA
1 GAAA
31125153 CAAAAGAAAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.21, T:0.13
Consensus pattern (24 bp):
GAAAAAGAAAAAGAAAAAGAAATT
Found at i:31125146 original size:18 final size:18
Alignment explanation
Indices: 31125090--31125146 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
31125080 AAAGCCTTTG
*
31125090 AAAAGAAAAAAGAAAATGA
1 AAAAG-AAAATGAAAATGA
* *
31125109 AAAAGAAAATGAGATTGA
1 AAAAGAAAATGAAAATGA
* *
31125127 AAAAGAAGATGAAAAAGA
1 AAAAGAAAATGAAAATGA
31125145 AA
1 AA
31125147 TTGAAACAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
18 26 0.84
19 5 0.16
ACGTcount: A:0.72, C:0.00, G:0.19, T:0.09
Consensus pattern (18 bp):
AAAAGAAAATGAAAATGA
Found at i:31133434 original size:18 final size:18
Alignment explanation
Indices: 31133383--31133446 Score: 55
Period size: 18 Copynumber: 3.7 Consensus size: 18
31133373 ACAAAGAAAT
31133383 GAAAGAAAAAGAGGAA-GA
1 GAAAGAAAAAGA-GAATGA
* *
31133401 G-AGGAAACA-A-AATGA
1 GAAAGAAAAAGAGAATGA
**
31133416 GATTGAAAAAGAGAATGA
1 GAAAGAAAAAGAGAATGA
31133434 GAAAGAAAAAGAG
1 GAAAGAAAAAGAG
31133447 TTTGATCAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 8
0.70 0.14 0.16
Matches are distributed among these distances:
14 2 0.06
15 3 0.09
16 6 0.17
17 7 0.20
18 17 0.49
ACGTcount: A:0.62, C:0.02, G:0.30, T:0.06
Consensus pattern (18 bp):
GAAAGAAAAAGAGAATGA
Found at i:31139302 original size:13 final size:13
Alignment explanation
Indices: 31139284--31139308 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31139274 TAACCTACAA
31139284 AATTAAATAACAT
1 AATTAAATAACAT
31139297 AATTAAATAACA
1 AATTAAATAACA
31139309 CACAACTATT
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:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (13 bp):
AATTAAATAACAT
Found at i:31139566 original size:10 final size:10
Alignment explanation
Indices: 31139533--31139580 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
31139523 AAAAAGGAAT
*
31139533 GAGCTGAAAC
1 GAGCTCAAAC
31139543 GAGCT-AAATTC
1 GAGCTCAAA--C
31139554 GAGCTCAAAC
1 GAGCTCAAAC
*
31139564 GAGCTAAAAC
1 GAGCTCAAAC
31139574 GAGCTCA
1 GAGCTCA
31139581 TGTGAGCTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 3 0.09
10 21 0.64
11 6 0.18
12 3 0.09
ACGTcount: A:0.40, C:0.23, G:0.23, T:0.15
Consensus pattern (10 bp):
GAGCTCAAAC
Found at i:31141956 original size:23 final size:23
Alignment explanation
Indices: 31141885--31141957 Score: 80
Period size: 23 Copynumber: 3.2 Consensus size: 23
31141875 AGTTGAGAGA
31141885 AAAAAAGCAAAAAGAAAAG--AGTG
1 AAAAAAG-AAAAAGAAAAGAAAG-G
* **
31141908 -AAAATGAAAAAGAAAAGAAATC
1 AAAAAAGAAAAAGAAAAGAAAGG
31141930 AAAAAAGAAAAAGAAAAGAAAGG
1 AAAAAAGAAAAAGAAAAGAAAGG
31141953 AAAAA
1 AAAAA
31141958 CAAGAGAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
21 11 0.27
22 5 0.12
23 25 0.61
ACGTcount: A:0.75, C:0.03, G:0.18, T:0.04
Consensus pattern (23 bp):
AAAAAAGAAAAAGAAAAGAAAGG
Found at i:31145243 original size:16 final size:16
Alignment explanation
Indices: 31145222--31145253 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
31145212 TTAGCTAGAC
31145222 ACATGAAATTATTCCA
1 ACATGAAATTATTCCA
*
31145238 ACATGAAATTGTTCCA
1 ACATGAAATTATTCCA
31145254 GAAAAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (16 bp):
ACATGAAATTATTCCA
Found at i:31147507 original size:22 final size:22
Alignment explanation
Indices: 31147479--31147522 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
31147469 CGTAACTTAG
31147479 ATAAAAACAACCAAATATCAAA
1 ATAAAAACAACCAAATATCAAA
31147501 ATAAAAACAACCAAATATCAAA
1 ATAAAAACAACCAAATATCAAA
31147523 TACCATCTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.68, C:0.18, G:0.00, T:0.14
Consensus pattern (22 bp):
ATAAAAACAACCAAATATCAAA
Found at i:31151480 original size:39 final size:39
Alignment explanation
Indices: 31151437--31151642 Score: 333
Period size: 39 Copynumber: 5.3 Consensus size: 39
31151427 GTGTGAGATA
* *
31151437 TATATCCGGGCTAATTCCCGAAGGCGTTTGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTGGTGT
* *
31151476 TATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTGGTGT
* *
31151515 TATATCTGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTGGTGT
31151554 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTGGTGT
* *
31151593 TATATCTGGGCTAAGTCCCGAAGGC-TTTGTGCTGGTAT
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTGGTGT
31151631 TATATCCGGGCT
1 TATATCCGGGCT
31151643 TAAAGTCTCG
Statistics
Matches: 156, Mismatches: 11, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
38 23 0.15
39 133 0.85
ACGTcount: A:0.17, C:0.20, G:0.30, T:0.32
Consensus pattern (39 bp):
TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTGGTGT
Found at i:31156314 original size:27 final size:27
Alignment explanation
Indices: 31156284--31156461 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
31156274 ATATTAAGTC
* * *
31156284 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
** *
31156311 CGCACACTTAGTGCCGCATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
31156339 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
** * *
31156366 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
31156393 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* *
31156420 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
31156447 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31156462 GTACAATTTA
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 104 0.81
28 25 0.19
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:31156368 original size:55 final size:54
Alignment explanation
Indices: 31156284--31156461 Score: 232
Period size: 54 Copynumber: 3.3 Consensus size: 54
31156274 ATATTAAGTC
* * *
31156284 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCGCATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCGCATAGTCAAA-T
* * *
31156339 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCGCATAGTCAAAT
* ** **
31156393 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCCGCATAGTCAAAT
31156447 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31156462 GTACAATTTA
Statistics
Matches: 108, Mismatches: 13, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
53 1 0.01
54 60 0.56
55 47 0.44
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCGCATAGTCAAAT
Found at i:31156450 original size:81 final size:82
Alignment explanation
Indices: 31156305--31156460 Score: 233
Period size: 81 Copynumber: 1.9 Consensus size: 82
31156295 TGCTATATAA
* * *
31156305 TCAACTCGCACACTTAGTGCCGCATAATCAAACTCGCACACTTAGTGCTACATAGTCAACTCGCA
1 TCAACTCGCACACTTAGTGCAGCATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
31156370 CACTTAGTGCCGCATGG
66 CACTTAGTGCCGCATGG
* * * **
31156387 TCAATTCGCACACTTAGTGCATCATATTC-ATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCAGCATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
31156451 CACTTAGTGC
66 CACTTAGTGC
31156461 TGTACAATTT
Statistics
Matches: 66, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
81 41 0.62
82 25 0.38
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (82 bp):
TCAACTCGCACACTTAGTGCAGCATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
CACTTAGTGCCGCATGG
Found at i:31164432 original size:27 final size:27
Alignment explanation
Indices: 31164402--31164579 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
31164392 ATATTAAGTC
* *
31164402 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
**
31164429 CGCACACTTAGTGCCGCATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
*
31164457 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
** ** *
31164484 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* * **
31164511 TGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
31164538 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
31164565 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31164580 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 102 0.80
28 25 0.20
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:31164541 original size:54 final size:54
Alignment explanation
Indices: 31164402--31164579 Score: 223
Period size: 54 Copynumber: 3.3 Consensus size: 54
31164392 ATATTAAGTC
* * * *
31164402 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCGCATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATAGTCAAA-T
* *
31164457 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATAGTCAAAT
* * ** **
31164511 TGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAGTCAACTCGCACACTTAGTGCCGCATAGTCAAAT
31164565 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31164580 GTACAATTTA
Statistics
Matches: 106, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 58 0.55
55 47 0.44
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATAGTCAAAT
Found at i:31174052 original size:27 final size:26
Alignment explanation
Indices: 31174022--31174146 Score: 99
Period size: 27 Copynumber: 4.7 Consensus size: 26
31174012 TTAGTTTACC
*
31174022 AAATTACTGAAATATCCCCCAGTTGTA
1 AAATTACCGAAATA-CCCCCAGTTGTA
* *
31174049 AAATTACC-AAAGTACCCCCGATTTATA
1 AAATTACCGAAA-TACCCCC-AGTTGTA
* ** * *
31174076 AAATTACCCAAATATCATCGATTTGTA
1 AAATTACCGAAATA-CCCCCAGTTGTA
* *
31174103 AAATTACCGAAATACCCTCAGTTTGCA
1 AAATTACCGAAATACCCCCAG-TTGTA
*
31174130 AAATTACTGAAATACCC
1 AAATTACCGAAATACCC
31174147 TCGACATGTA
Statistics
Matches: 78, Mismatches: 15, Indels: 10
0.76 0.15 0.10
Matches are distributed among these distances:
26 10 0.13
27 63 0.81
28 5 0.06
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.28
Consensus pattern (26 bp):
AAATTACCGAAATACCCCCAGTTGTA
Found at i:31174143 original size:54 final size:54
Alignment explanation
Indices: 31174016--31174168 Score: 148
Period size: 54 Copynumber: 2.8 Consensus size: 54
31174006 AATACTTTAG
* * * * *
31174016 TTTACCAAATTACTGAAATATCCCCCAGTTGTAAAATTACCAAAGTACCCCCGA
1 TTTACAAAATTACTGAAATATCCTCGACTTGTAAAATTACCAAAGTACCCCAGA
* ** * *
31174070 TTTATAAAATTACCCAAATATCATCGATTTGTAAAATTACCGAAA-TACCCTCAG-
1 TTTACAAAATTACTGAAATATCCTCGACTTGTAAAATTACC-AAAGTACCC-CAGA
* * * *
31174124 TTTGCAAAATTACTGAAATACCCTCGACATGTAAAATTATCAAAG
1 TTTACAAAATTACTGAAATATCCTCGACTTGTAAAATTACCAAAG
31174169 GACCTTCGAA
Statistics
Matches: 78, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
53 3 0.04
54 70 0.90
55 5 0.06
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (54 bp):
TTTACAAAATTACTGAAATATCCTCGACTTGTAAAATTACCAAAGTACCCCAGA
Found at i:31174159 original size:27 final size:27
Alignment explanation
Indices: 31174099--31174162 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
31174089 ATCATCGATT
**
31174099 TGTAAAATTACCGAAATACCCTCAGTT
1 TGTAAAATTACCGAAATACCCTCAGCA
* *
31174126 TGCAAAATTACTGAAATACCCTC-GACA
1 TGTAAAATTACCGAAATACCCTCAG-CA
31174153 TGTAAAATTA
1 TGTAAAATTA
31174163 TCAAAGGACC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 1 0.03
27 30 0.97
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.28
Consensus pattern (27 bp):
TGTAAAATTACCGAAATACCCTCAGCA
Found at i:31174221 original size:27 final size:27
Alignment explanation
Indices: 31174174--31174497 Score: 436
Period size: 27 Copynumber: 12.0 Consensus size: 27
31174164 CAAAGGACCT
* *
31174174 TCGAATTACAAAAATTACTATTTTACCC
1 TCGATTTAC-AAAATTACTGTTTTACCC
* *
31174202 TCGATTTACAGAATTACTATTTTACCC
1 TCGATTTACAAAATTACTGTTTTACCC
* *
31174229 TCGATTTATAAAATTACCGTTTTACCC
1 TCGATTTACAAAATTACTGTTTTACCC
31174256 TCGATTTACAAAATTACTGTTTTACCC
1 TCGATTTACAAAATTACTGTTTTACCC
* * *
31174283 TCGATTTATAAAATTATTATTTTACCC
1 TCGATTTACAAAATTACTGTTTTACCC
*
31174310 TCGATTTACAGAATTA-TCGTTTTACCC
1 TCGATTTACAAAATTACT-GTTTTACCC
*
31174337 TTGATTTACAAAATTACTGTTTTACCC
1 TCGATTTACAAAATTACTGTTTTACCC
31174364 TCGATTTACAAAATTACTGTTTTACCC
1 TCGATTTACAAAATTACTGTTTTACCC
*
31174391 TCGATTGACAAAATTACTGTTTTACCC
1 TCGATTTACAAAATTACTGTTTTACCC
* * *
31174418 TCGATTTACAAAATTATTATTTTACCT
1 TCGATTTACAAAATTACTGTTTTACCC
*
31174445 TCGATTTACAGAATTA-TCGTTTTACCC
1 TCGATTTACAAAATTACT-GTTTTACCC
* **
31174472 TCGATTTATAAAATTACCATTTTACC
1 TCGATTTACAAAATTACTGTTTTACC
31174498 TTTAGGGTGT
Statistics
Matches: 263, Mismatches: 29, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
26 2 0.01
27 252 0.96
28 9 0.03
ACGTcount: A:0.31, C:0.20, G:0.07, T:0.42
Consensus pattern (27 bp):
TCGATTTACAAAATTACTGTTTTACCC
Found at i:31174777 original size:27 final size:26
Alignment explanation
Indices: 31174733--31174784 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
31174723 CTCGCTGCAA
*
31174733 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
31174760 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
31174785 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:31175030 original size:6 final size:6
Alignment explanation
Indices: 31174999--31175086 Score: 83
Period size: 6 Copynumber: 14.3 Consensus size: 6
31174989 TTGCATCCAC
* *
31174999 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
31175048 -TCACGTG ATTCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
31175087 AATGTTTCTT
Statistics
Matches: 68, Mismatches: 6, Indels: 16
0.76 0.07 0.18
Matches are distributed among these distances:
5 4 0.06
6 55 0.81
7 7 0.10
8 2 0.03
ACGTcount: A:0.18, C:0.17, G:0.17, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:31175034 original size:31 final size:31
Alignment explanation
Indices: 31174999--31175077 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
31174989 TTGCATCCAC
* *
31174999 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
* *
31175030 ATTCTGATTCTGATTCTGTCACGTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
31175061 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
31175078 AGTTCTGATA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTG
Found at i:31179423 original size:46 final size:46
Alignment explanation
Indices: 31179356--31179477 Score: 199
Period size: 46 Copynumber: 2.7 Consensus size: 46
31179346 CGCCCCTAAG
* * *
31179356 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
* *
31179402 TGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
31179448 TGAACTCGGACTCAACTCAACGAGTTCGGA
1 TGAACTCGGACTCAACTCAACGAGTTCGGA
31179478 TGCTCAACCA
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 71 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
Found at i:31179495 original size:46 final size:45
Alignment explanation
Indices: 31179353--31179496 Score: 143
Period size: 46 Copynumber: 3.1 Consensus size: 45
31179343 ACCCGCCCCT
* ** *
31179353 AAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-GCATCC
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCACCATCC
*
31179397 ATAAATGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT--
1 --AAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGTT-CA-CCATCC
*
31179445 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCC
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTC-ACCATCC
31179491 AAGTGA
1 AAGTGA
31179497 CATGTCACTT
Statistics
Matches: 82, Mismatches: 7, Indels: 18
0.77 0.07 0.17
Matches are distributed among these distances:
44 7 0.09
45 2 0.02
46 67 0.82
47 2 0.02
48 1 0.01
50 3 0.04
ACGTcount: A:0.31, C:0.28, G:0.21, T:0.21
Consensus pattern (45 bp):
AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCACCATCC
Found at i:31181859 original size:27 final size:27
Alignment explanation
Indices: 31181828--31182005 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
31181818 TAAATTGTAC
31181828 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
31181855 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
31181881 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
31181909 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
31181937 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
31181964 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
31181991 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
31182006 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:31181942 original size:82 final size:81
Alignment explanation
Indices: 31181829--31181984 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
31181819 AAATTGTACA
* *
31181829 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
31181893 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
31181910 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
31181975 TGCGAGTTGA
65 TGCGAATTGA
31181985 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:31181996 original size:82 final size:81
Alignment explanation
Indices: 31181825--31182005 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
31181815 GATTAAATTG
* *
31181825 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
31181890 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
31181906 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
31181970 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
31181988 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
31182006 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:31190800 original size:12 final size:11
Alignment explanation
Indices: 31190759--31190790 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
31190749 GTTATACAAG
31190759 TCAAAAAAAAT
1 TCAAAAAAAAT
31190770 TCAAAAAAAAT
1 TCAAAAAAAAT
31190781 TCAAAAAAAA
1 TCAAAAAAAA
31190791 ATTTCGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.75, C:0.09, G:0.00, T:0.16
Consensus pattern (11 bp):
TCAAAAAAAAT
Found at i:31190818 original size:18 final size:18
Alignment explanation
Indices: 31190784--31190821 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
31190774 AAAAAATTCA
*
31190784 AAAAAAAATTTCGAAAAG
1 AAAAAAAATCTCGAAAAG
31190802 AAAAAAAATCT-GAAAA-
1 AAAAAAAATCTCGAAAAG
31190818 AAAA
1 AAAA
31190822 GTGTTTAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 4 0.21
17 5 0.26
18 10 0.53
ACGTcount: A:0.74, C:0.05, G:0.08, T:0.13
Consensus pattern (18 bp):
AAAAAAAATCTCGAAAAG
Found at i:31191862 original size:11 final size:12
Alignment explanation
Indices: 31191830--31191860 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
31191820 TTGAGAGAAC
31191830 TTGAAAAAGCCT
1 TTGAAAAAGCCT
31191842 TTGAAAAAGCCT
1 TTGAAAAAGCCT
31191854 TTGAAAA
1 TTGAAAA
31191861 GCAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:31191897 original size:30 final size:31
Alignment explanation
Indices: 31191863--31191944 Score: 96
Period size: 30 Copynumber: 2.7 Consensus size: 31
31191853 TTTGAAAAGC
*
31191863 AAAAAGAAAATGAAAAAGAAA-ATAAGATTG
1 AAAAAGAAAATGAAAAAGAAATATAAGAGTG
* * * *
31191893 AAAAAGAGAACG-AAAAGAAATTTGAGAGTG
1 AAAAAGAAAATGAAAAAGAAATATAAGAGTG
*
31191923 AAAAAGAAGATGAAAAAGAAAT
1 AAAAAGAAAATGAAAAAGAAAT
31191945 TGAAACAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
29 8 0.19
30 25 0.60
31 9 0.21
ACGTcount: A:0.66, C:0.01, G:0.21, T:0.12
Consensus pattern (31 bp):
AAAAAGAAAATGAAAAAGAAATATAAGAGTG
Found at i:31194947 original size:12 final size:12
Alignment explanation
Indices: 31194915--31194940 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
31194905 AAATCGAGTT
31194915 AAAAGAAAAAAA
1 AAAAGAAAAAAA
31194927 AAAAGAAAAAAA
1 AAAAGAAAAAAA
31194939 AA
1 AA
31194941 GTGAAAAGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAGAAAAAAA
Found at i:31195841 original size:18 final size:18
Alignment explanation
Indices: 31195820--31195854 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
31195810 AGAAAAGAAA
31195820 ATTGA-AAAAGAAATTGAG
1 ATTGAGAAAA-AAATTGAG
31195838 ATTGAGAAAAAAATTGA
1 ATTGAGAAAAAAATTGA
31195855 AAAAGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.57, C:0.00, G:0.20, T:0.23
Consensus pattern (18 bp):
ATTGAGAAAAAAATTGAG
Found at i:31204312 original size:43 final size:43
Alignment explanation
Indices: 31204246--31204332 Score: 106
Period size: 43 Copynumber: 2.0 Consensus size: 43
31204236 AATTCATAAA
* * **
31204246 ATGCCAACGTCCCAGACATGGTCTTACAT-GTAGTCACATATCG
1 ATGCCAACGTCCAAGACAGGGTCTTAC-TCGTAAACACATATCG
31204289 ATGCC-ACTGTCCAAGACAGGGTCTTACTCGTAAACACATATCG
1 ATGCCAAC-GTCCAAGACAGGGTCTTACTCGTAAACACATATCG
31204332 A
1 A
31204333 AATCACATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
42 3 0.08
43 35 0.92
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCAAGACAGGGTCTTACTCGTAAACACATATCG
Found at i:31218062 original size:23 final size:24
Alignment explanation
Indices: 31218036--31218080 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
31218026 TATTAAGTGC
* *
31218036 AGAATTTTCT-TTGGGTTTTCTCA
1 AGAATTCTCTCTTGAGTTTTCTCA
31218059 AGAATTCTCTCTTGAGTTTTCT
1 AGAATTCTCTCTTGAGTTTTCT
31218081 TTAGAAGTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.18, C:0.16, G:0.16, T:0.51
Consensus pattern (24 bp):
AGAATTCTCTCTTGAGTTTTCTCA
Found at i:31218985 original size:21 final size:20
Alignment explanation
Indices: 31218957--31218996 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
31218947 AGGTATAATA
31218957 GCCAAGCTTA-ATCATATTCG
1 GCCAAGCTTATAT-ATATTCG
31218977 GCCATAGCTTATATATATTC
1 GCCA-AGCTTATATATATTC
31218997 ACACATTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 12 0.67
22 2 0.11
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (20 bp):
GCCAAGCTTATATATATTCG
Found at i:31220032 original size:11 final size:11
Alignment explanation
Indices: 31220018--31220051 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
31220008 AATAAACACA
31220018 TAAAATATTTT
1 TAAAATATTTT
31220029 TAAAATATTTT
1 TAAAATATTTT
31220040 TAAAATATTTT
1 TAAAATATTTT
31220051 T
1 T
31220052 CTGACTCGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TAAAATATTTT
Found at i:31222824 original size:30 final size:30
Alignment explanation
Indices: 31222738--31222825 Score: 104
Period size: 30 Copynumber: 2.9 Consensus size: 30
31222728 TTATCTCATA
31222738 TTTAGCTCACGAGCTAAACCTTAGCTCAAC
1 TTTAGCTCACGAGCTAAACCTTAGCTCAAC
* * * * * * *
31222768 TTCAGCTTAGGAGTTTAGCCTCAGCTCAAC
1 TTTAGCTCACGAGCTAAACCTTAGCTCAAC
*
31222798 TTTAGCTCACGAGCTAAAACTTAGCTCA
1 TTTAGCTCACGAGCTAAACCTTAGCTCA
31222826 TTTTAGTTTA
Statistics
Matches: 43, Mismatches: 15, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.28
Consensus pattern (30 bp):
TTTAGCTCACGAGCTAAACCTTAGCTCAAC
Found at i:31224538 original size:10 final size:10
Alignment explanation
Indices: 31224523--31224562 Score: 62
Period size: 10 Copynumber: 3.9 Consensus size: 10
31224513 GAAATTCGAA
31224523 AAAAAAAATT
1 AAAAAAAATT
*
31224533 AAAAAAAATCG
1 AAAAAAAAT-T
31224544 AAAAAAAATT
1 AAAAAAAATT
31224554 AAAAAAAAT
1 AAAAAAAAT
31224563 CGAAGTATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
10 18 0.67
11 9 0.33
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.15
Consensus pattern (10 bp):
AAAAAAAATT
Found at i:31224538 original size:11 final size:11
Alignment explanation
Indices: 31224522--31224561 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
31224512 GGAAATTCGA
31224522 AAAAAAAAATT
1 AAAAAAAAATT
*
31224533 -AAAAAAAATC
1 AAAAAAAAATT
*
31224543 GAAAAAAAATT
1 AAAAAAAAATT
31224554 AAAAAAAA
1 AAAAAAAA
31224562 TCGAAGTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 9 0.36
11 16 0.64
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.12
Consensus pattern (11 bp):
AAAAAAAAATT
Found at i:31224547 original size:21 final size:21
Alignment explanation
Indices: 31224523--31224566 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
31224513 GAAATTCGAA
31224523 AAAAAAAATTAAAAAAAATCG
1 AAAAAAAATTAAAAAAAATCG
31224544 AAAAAAAATTAAAAAAAATCG
1 AAAAAAAATTAAAAAAAATCG
31224565 AA
1 AA
31224567 GTATATAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.77, C:0.05, G:0.05, T:0.14
Consensus pattern (21 bp):
AAAAAAAATTAAAAAAAATCG
Found at i:31225472 original size:37 final size:37
Alignment explanation
Indices: 31225421--31225491 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
31225411 CATTCTTGTA
31225421 AAGAGAAAACAAAGAAAA-GAAAAGAAAAAGAAAAAGC
1 AAGAGAAAACAAAGAAAATG-AAAGAAAAAGAAAAAGC
*
31225458 AAGAGAAGAA-AAAGAAAATGAAATAAAAAGAAAA
1 AAGAGAA-AACAAAGAAAATGAAAGAAAAAGAAAA
31225492 GAGAGGCAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 28 0.90
38 3 0.10
ACGTcount: A:0.76, C:0.03, G:0.18, T:0.03
Consensus pattern (37 bp):
AAGAGAAAACAAAGAAAATGAAAGAAAAAGAAAAAGC
Found at i:31225491 original size:6 final size:6
Alignment explanation
Indices: 31225431--31225480 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
31225421 AAGAGAAAAC
*
31225431 AAAG-A AAAG-A AAAGAA AAAGAA AAAGCAA GAGAAGAA AAAGAA AATGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAG-AA -A-AAGAA AAAGAA AAAGAA
31225480 A
1 A
31225481 TAAAAAGAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
5 9 0.22
6 22 0.55
7 3 0.08
8 3 0.08
9 3 0.08
ACGTcount: A:0.76, C:0.02, G:0.20, T:0.02
Consensus pattern (6 bp):
AAAGAA
Done.