Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-JGI_221_v2.0
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: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 191 of 198
Found at i:59150260 original size:9 final size:8
Alignment explanation
Indices: 59150246--59150306 Score: 52
Period size: 8 Copynumber: 7.5 Consensus size: 8
59150236 TTACTCTTCG
59150246 TTTTTTTC
1 TTTTTTTC
59150254 TTTTTTTC
1 TTTTTTTC
*
59150262 TTTTATTTA
1 TTTT-TTTC
* *
59150271 TTTGTTTG
1 TTTTTTTC
*
59150279 TTTTATTC
1 TTTTTTTC
59150287 TTTTTTT-
1 TTTTTTTC
*
59150294 TTTCCTTTC
1 TTT-TTTTC
59150303 TTTT
1 TTTT
59150307 GCAAATCTAT
Statistics
Matches: 41, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
7 3 0.07
8 29 0.71
9 9 0.22
ACGTcount: A:0.05, C:0.10, G:0.03, T:0.82
Consensus pattern (8 bp):
TTTTTTTC
Found at i:59151660 original size:15 final size:16
Alignment explanation
Indices: 59151629--59151661 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
59151619 ATATCCTTTT
*
59151629 AAATTTCAAACACATA
1 AAATTTCAAACAAATA
59151645 AAATTTCAAA-AAATA
1 AAATTTCAAACAAATA
59151660 AA
1 AA
59151662 GGCAATATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (16 bp):
AAATTTCAAACAAATA
Found at i:59153100 original size:10 final size:10
Alignment explanation
Indices: 59153056--59153136 Score: 84
Period size: 10 Copynumber: 8.5 Consensus size: 10
59153046 AAAAATTAAA
59153056 AAAATTATTTT
1 AAAA-TATTTT
59153067 AAAATTATTTT
1 AAAA-TATTTT
*
59153078 -AAA-A-TTA
1 AAAATATTTT
59153085 AAAATATTTT
1 AAAATATTTT
59153095 AAAATATTTT
1 AAAATATTTT
*
59153105 -AAA-A-TTA
1 AAAATATTTT
59153112 AAAATATTTT
1 AAAATATTTT
59153122 AAAATATTTT
1 AAAATATTTT
59153132 AAAAT
1 AAAAT
59153137 TAAAAATTTA
Statistics
Matches: 60, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
7 4 0.07
8 8 0.13
9 5 0.08
10 32 0.53
11 11 0.18
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
AAAATATTTT
Found at i:59153110 original size:27 final size:27
Alignment explanation
Indices: 59153040--59153143 Score: 163
Period size: 27 Copynumber: 3.7 Consensus size: 27
59153030 ACTAAAAATT
59153040 TATTTTAAAAATTAAAAAAATTATTTTAAAA
1 TATTTT-AAAATT--AAAAA-TATTTTAAAA
59153071 TTATTTTAAAATTAAAAATATTTTAAAA
1 -TATTTTAAAATTAAAAATATTTTAAAA
59153099 TATTTTAAAATTAAAAATATTTTAAAA
1 TATTTTAAAATTAAAAATATTTTAAAA
59153126 TATTTTAAAATTAAAAAT
1 TATTTTAAAATTAAAAAT
59153144 TTAAAAAATA
Statistics
Matches: 72, Mismatches: 0, Indels: 5
0.94 0.00 0.06
Matches are distributed among these distances:
27 45 0.62
28 10 0.14
29 5 0.07
31 6 0.08
32 6 0.08
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (27 bp):
TATTTTAAAATTAAAAATATTTTAAAA
Found at i:59153143 original size:17 final size:17
Alignment explanation
Indices: 59153065--59153126 Score: 66
Period size: 17 Copynumber: 4.1 Consensus size: 17
59153055 AAAAATTATT
*
59153065 TTAAAATTATTTTAAAA
1 TTAAAAATATTTTAAAA
59153082 TTAAAAATA--TT----
1 TTAAAAATATTTTAAAA
59153093 TT-AAAATATTTTAAAA
1 TTAAAAATATTTTAAAA
59153109 TTAAAAATATTTTAAAA
1 TTAAAAATATTTTAAAA
59153126 T
1 T
59153127 ATTTTAAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 14
0.71 0.02 0.27
Matches are distributed among these distances:
10 6 0.16
11 2 0.05
12 2 0.05
15 2 0.05
16 2 0.05
17 23 0.62
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TTAAAAATATTTTAAAA
Found at i:59153150 original size:15 final size:16
Alignment explanation
Indices: 59153065--59153163 Score: 58
Period size: 18 Copynumber: 5.8 Consensus size: 16
59153055 AAAAATTATT
*
59153065 TTAAAATTATTTTAAAA
1 TTAAAA-TATTTAAAAA
59153082 TTAAAAATATTTTAAAATA
1 TT-AAAATA-TTTAAAA-A
* *
59153101 TTTTAAA-ATTAAAAATA
1 -TTAAAATATTTAAAA-A
*
59153118 TTTTAAAATATTTTAAAA
1 --TTAAAATATTTAAAAA
59153136 TTAAAA-ATTTAAAAA
1 TTAAAATATTTAAAAA
*
59153151 ATAAATATATTTA
1 TTAAA-ATATTTA
59153164 TTATATCGAG
Statistics
Matches: 66, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
15 12 0.18
16 7 0.11
17 17 0.26
18 18 0.27
19 10 0.15
20 2 0.03
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TTAAAATATTTAAAAA
Found at i:59157357 original size:26 final size:26
Alignment explanation
Indices: 59157318--59157370 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
59157308 TATATATGTA
**
59157318 GAAAATGTTCCATTCATTTTCTAATT
1 GAAAATGTTCCATTCATCGTCTAATT
*
59157344 GAAAATGTTTCATTCATCGTCTAATT
1 GAAAATGTTCCATTCATCGTCTAATT
59157370 G
1 G
59157371 CTCTCTCCCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.43
Consensus pattern (26 bp):
GAAAATGTTCCATTCATCGTCTAATT
Found at i:59159276 original size:21 final size:20
Alignment explanation
Indices: 59159238--59159276 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
59159228 AAAATGCATA
* *
59159238 AATAATGTAATTTTAAATTT
1 AATAATGAAATTTAAAATTT
59159258 AATAATGAAAATTTAAAAT
1 AATAATG-AAATTTAAAAT
59159277 ATTATTTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (20 bp):
AATAATGAAATTTAAAATTT
Found at i:59161320 original size:24 final size:23
Alignment explanation
Indices: 59161270--59161325 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
59161260 AAATAATGTA
* *
59161270 ATTTCAAATTTAATAATTTTTAAT
1 ATTT-AAATTTAATAATATATAAT
*
59161294 ATTTAAATTTAATAATAATATATT
1 ATTTAAATTTAATAAT-ATATAAT
*
59161318 ATTCAAAT
1 ATTTAAAT
59161326 GTCTATGTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 12 0.44
24 15 0.56
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (23 bp):
ATTTAAATTTAATAATATATAAT
Found at i:59164227 original size:12 final size:12
Alignment explanation
Indices: 59164210--59164252 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
59164200 TCAAAGGAAA
59164210 AAAATAAATAAT
1 AAAATAAATAAT
59164222 AAAATAAATAA-
1 AAAATAAATAAT
59164233 ATAAAT-AATAAT
1 A-AAATAAATAAT
59164245 AATAATAA
1 AA-AATAA
59164253 TAGTGACAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
11 7 0.26
12 19 0.70
13 1 0.04
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (12 bp):
AAAATAAATAAT
Found at i:59164236 original size:20 final size:21
Alignment explanation
Indices: 59164211--59164249 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
59164201 CAAAGGAAAA
59164211 AAATAAATAATAA-AATAAAT
1 AAATAAATAATAATAATAAAT
59164231 AAATAAATAATAATAATAA
1 AAATAAATAATAATAATAA
59164250 TAATAGTGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (21 bp):
AAATAAATAATAATAATAAAT
Found at i:59164429 original size:18 final size:18
Alignment explanation
Indices: 59164406--59164453 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
59164396 GTGCAATTTG
*
59164406 TAATAA-AATAGATAATGA
1 TAATAATAATAGATAA-AA
59164424 TAATAATAATAGATAAAA
1 TAATAATAATAGATAAAA
59164442 TAATAATAATAG
1 TAATAATAATAG
59164454 TGAGGAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
18 19 0.68
19 9 0.32
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.29
Consensus pattern (18 bp):
TAATAATAATAGATAAAA
Found at i:59164431 original size:3 final size:3
Alignment explanation
Indices: 59164406--59164452 Score: 53
Period size: 3 Copynumber: 15.7 Consensus size: 3
59164396 GTGCAATTTG
*
59164406 TAA TAA -AA TAGA TAA TGA TAA TAA TAA TAGA TAA -AA TAA TAA TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA
59164451 TA
1 TA
59164453 GTGAGGAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
2 4 0.11
3 28 0.74
4 6 0.16
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:59164452 original size:21 final size:21
Alignment explanation
Indices: 59164406--59164450 Score: 60
Period size: 19 Copynumber: 2.3 Consensus size: 21
59164396 GTGCAATTTG
*
59164406 TAATAAAATAGATAATGATAA
1 TAATAAAATAGATAATAATAA
59164427 TAAT--AATAGATAA-AATAA
1 TAATAAAATAGATAATAATAA
59164445 TAATAA
1 TAATAA
59164451 TAGTGAGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
21 4 0.19
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (21 bp):
TAATAAAATAGATAATAATAA
Found at i:59192927 original size:21 final size:21
Alignment explanation
Indices: 59192901--59192941 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
59192891 TGTCCTTCAA
*
59192901 TATCAGCTCCCTTTTT-TTTCT
1 TATCAGC-ACCTTTTTATTTCT
59192922 TATCAGCACCTTTTTATTTC
1 TATCAGCACCTTTTTATTTC
59192942 CCCTATTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.15, C:0.27, G:0.05, T:0.54
Consensus pattern (21 bp):
TATCAGCACCTTTTTATTTCT
Found at i:59202755 original size:99 final size:99
Alignment explanation
Indices: 59202584--59202783 Score: 391
Period size: 99 Copynumber: 2.0 Consensus size: 99
59202574 TGGTGGACTT
59202584 TCTGTGCTTCCCCAGGTTAGCTCTTTTCCCGCTGTTCTCTGCTCGCACTTAAAAATCCCTGTGCA
1 TCTGTGCTTCCCCAGGTTAGCTCTTTTCCCGCTGTTCTCTGCTCGCACTTAAAAATCCCTGTGCA
*
59202649 CACACAAACTCGAACATGATATATTTACAGATCA
66 CACACAAACTCGAACAGGATATATTTACAGATCA
59202683 TCTGTGCTTCCCCAGGTTAGCTCTTTTCCCGCTGTTCTCTGCTCGCACTTAAAAATCCCTGTGCA
1 TCTGTGCTTCCCCAGGTTAGCTCTTTTCCCGCTGTTCTCTGCTCGCACTTAAAAATCCCTGTGCA
59202748 CACACAAACTCGAACAGGATATATTTACAGATCA
66 CACACAAACTCGAACAGGATATATTTACAGATCA
59202782 TC
1 TC
59202784 AAAATCTATG
Statistics
Matches: 100, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
99 100 1.00
ACGTcount: A:0.24, C:0.30, G:0.14, T:0.31
Consensus pattern (99 bp):
TCTGTGCTTCCCCAGGTTAGCTCTTTTCCCGCTGTTCTCTGCTCGCACTTAAAAATCCCTGTGCA
CACACAAACTCGAACAGGATATATTTACAGATCA
Found at i:59209343 original size:20 final size:19
Alignment explanation
Indices: 59209300--59209345 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
59209290 ACCAAAGCTT
*
59209300 TATTTTAATATAATATTTA
1 TATTTTAATATAATATGTA
* *
59209319 CATTTTAATTATATTATGTA
1 TATTTTAA-TATAATATGTA
59209339 TATTTTA
1 TATTTTA
59209346 TCACCTTCAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (19 bp):
TATTTTAATATAATATGTA
Found at i:59211815 original size:16 final size:17
Alignment explanation
Indices: 59211778--59211815 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
59211768 TAGATAAGAA
59211778 TAAATATAGATAAAGTG
1 TAAATATAGATAAAGTG
* *
59211795 CAAATATAG-TAAAGTT
1 TAAATATAGATAAAGTG
59211811 TAAAT
1 TAAAT
59211816 CAGAATCAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.53, C:0.03, G:0.13, T:0.32
Consensus pattern (17 bp):
TAAATATAGATAAAGTG
Found at i:59212087 original size:17 final size:18
Alignment explanation
Indices: 59212065--59212101 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
59212055 TAATAAGAAT
*
59212065 ATAATTTATTTATTT-TA
1 ATAATTTATATATTTATA
59212082 ATAATTTATATATTTATA
1 ATAATTTATATATTTATA
59212100 AT
1 AT
59212102 TTTTAAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
ATAATTTATATATTTATA
Found at i:59214203 original size:13 final size:13
Alignment explanation
Indices: 59214172--59214200 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
59214162 CGAGTTAGGG
59214172 ATTTAATTTTTGT
1 ATTTAATTTTTGT
59214185 ATTTAATTTTT-T
1 ATTTAATTTTTGT
59214197 ATTT
1 ATTT
59214201 TAAAATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.31
13 11 0.69
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.72
Consensus pattern (13 bp):
ATTTAATTTTTGT
Found at i:59218926 original size:24 final size:25
Alignment explanation
Indices: 59218898--59218945 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
59218888 CTTGCTTAAT
59218898 TTTTTTATTTCGTCTCTTTCAATAA
1 TTTTTTATTTCGTCTCTTTCAATAA
59218923 TTTTTTATTTCGTCTCTTTCAAT
1 TTTTTTATTTCGTCTCTTTCAAT
59218946 TGATTACGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.17, C:0.17, G:0.04, T:0.62
Consensus pattern (25 bp):
TTTTTTATTTCGTCTCTTTCAATAA
Found at i:59226962 original size:860 final size:861
Alignment explanation
Indices: 59224827--59227835 Score: 5984
Period size: 862 Copynumber: 3.5 Consensus size: 861
59224817 TTACCGCCGC
59224827 TACTGTTCATTAGTCAACATACCCACTACTGTTCATCATCACTGCCCACCACATTGCTTAAGGTC
1 TACTGTTCATTAGTCAACATACCCACTACTGTTCATCATCACTGCCCACCACATTGCTTAAGGTC
59224892 CTGTTCAGCCACTAATATCTCCATACGCCTGAACCCGATAAAAATACTTCTCGTATTAAATATTA
66 CTGTTCAGCCACTAATATCTCCATACGCCTGAACCCGATAAAAATACTTCTCGTATTAAATATTA
59224957 AATGCAAATTGGTATTTTTTGTTAAAAAATTTATTTATTTATATTACTATAAATAATATGGTTGA
131 AATGCAAATTGGTATTTTTTGTTAAAAAATTTATTTATTTATATTACTATAAATAATATGGTTGA
59225022 TAAAATAACCAAATAATAAACGACATATGAAGACTAATTTTTAGTAGTAAAAGTGGATAAACATT
196 TAAAATAACCAAATAATAAACGACATATGAAGACTAATTTTTAGTAGTAAAAGTGGATAAACATT
59225087 TTAATAGAAGGATTAATTTATTTTTTATCTAACATATAAAAACTAATTTACAAAAGGGACTGTTG
261 TTAATAGAAGGATTAATTTATTTTTTATCTAACATATAAAAACTAATTTACAAAAGGGACTGTTG
59225152 ACACCATTTTTTGGATGAAAAACGGGGTCGACTTGGGCTTTGAAAATGAAAACGAAAACGGGAGT
326 ACACCATTTTTTGGATGAAAAACGGGGTCGACTTGGGCTTTGAAAATGAAAACGAAAACGGGAGT
59225217 CGCCACCAATCCTTTTTGATGAGGTGTGATTGGGTCACCTTGAAAAGATGGTTGTTTTTAATAAA
391 CGCCACCAATCCTTTTTGATGAGGTGTGATTGGGTCACCTTGAAAAGATGGTTGTTTTTAATAAA
59225282 CAATTTAATTTTATTAAAACAACAAGTTTGGTCCATGAAATTCAGAAAAATGGGTTCGGGAGTCG
456 CAATTTAATTTTATTAAAACAACAAGTTTGGTCCATGAAATTCAGAAAAATGGGTTCGGGAGTCG
59225347 GTTACGCACGAGGAAGGATTAGCACCCTCGATACGCCCAAAATTGGTACCTAGCTGATTACTTAA
521 GTTACGCACGAGGAAGGATTAGCACCCTCGATACGCCCAAAATTGGTACCTAGCTGATTACTTAA
59225412 TGTCTTAGTGTCAAAAAACTGAAAACTTTAAAGAAATTTAAAATACGATCCGAGAAAAAAACTCG
586 TGTCTTAGTGTCAAAAAACTGAAAACTTTAAAGAAATTTAAAATACGATCC-AGAAAAAAACTCG
59225477 AATGGCATGGATTAAAATTCAAGAGGATATTTGGCTATTCGGTCAATCGGGAAATCGAAACCCAG
650 AATGGCATGGATTAAAATTCAAGAGGATATTTGGCTATTCGGTCAATCGGGAAATCGAAACCCAG
59225542 CACATTAGGGCACGTTCCTTGAATTTTCGAATGCAAAATATTGCCTTATTTTAAAATTTTTGGAA
715 CACATTAGGGCACGTTCCTTGAATTTTCGAATGCAAAATATTGCCTTATTTTAAAATTTTTGGAA
59225607 GGATATTAAGCTATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCG
780 GGATATTAAGCTATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCG
59225672 AATTTCCAAACGCAAAA
845 AATTTCCAAACGCAAAA
59225689 TACTGTTCATTAGTCAACATACCCACTACTGTTCATCATCACTGCCCACCACATTGCTTAAGGTC
1 TACTGTTCATTAGTCAACATACCCACTACTGTTCATCATCACTGCCCACCACATTGCTTAAGGTC
59225754 CTGTTCAGCCACTAATATCTCCATACGCCTGAACCCGATAAAAATACTTCTCGTATTAAATATTA
66 CTGTTCAGCCACTAATATCTCCATACGCCTGAACCCGATAAAAATACTTCTCGTATTAAATATTA
59225819 AATGCAAATTGGTATTTTTTGTTAAAAAATTTATTTATTTATATTACTATAAATAATATGGTTGA
131 AATGCAAATTGGTATTTTTTGTTAAAAAATTTATTTATTTATATTACTATAAATAATATGGTTGA
59225884 TAAAATAACCAAATAATAAACGACATATGAAGACTAATTTTTAGTAGTAAAAGTGGATAAACATT
196 TAAAATAACCAAATAATAAACGACATATGAAGACTAATTTTTAGTAGTAAAAGTGGATAAACATT
59225949 TTAATAGAAGGATTAATTTATTTTTTATCTAACATATAAAAACTAATTTACAAAAGGGACTGTTG
261 TTAATAGAAGGATTAATTTATTTTTTATCTAACATATAAAAACTAATTTACAAAAGGGACTGTTG
59226014 ACACCATTTTTTGGATGAAAAACGGGGTCGACTTGGGCTTTGAAAATGAAAACGAAAACGGGAGT
326 ACACCATTTTTTGGATGAAAAACGGGGTCGACTTGGGCTTTGAAAATGAAAACGAAAACGGGAGT
59226079 CGCCACCAATCCTTTTTGATGAGGTGTGATTGGGTCACCTTGAAAAGATGGTTGTTTTTAATAAA
391 CGCCACCAATCCTTTTTGATGAGGTGTGATTGGGTCACCTTGAAAAGATGGTTGTTTTTAATAAA
59226144 CAATTTAATTTTATTAAAACAACAAGTTTGGTCCATGAAATTCAGAAAAATGGGTTCGGGAGTCG
456 CAATTTAATTTTATTAAAACAACAAGTTTGGTCCATGAAATTCAGAAAAATGGGTTCGGGAGTCG
59226209 GTTACGCACGAGGAAGGATTAGCACCCTCGATACGCCCAAAATTGGTACCTAGCTGATTACTTAA
521 GTTACGCACGAGGAAGGATTAGCACCCTCGATACGCCCAAAATTGGTACCTAGCTGATTACTTAA
59226274 TGTCTTAGTGTCAAAAAACTGAAAACTTTAAAGAAATTTAAAATACGATCC-GAAAAAAACTCGA
586 TGTCTTAGTGTCAAAAAACTGAAAACTTTAAAGAAATTTAAAATACGATCCAGAAAAAAACTCGA
59226338 ATGGCATGGATTAAAATTCAAGAGGATATTTGGCTATTCGGTCAATCGGGAAATCGAAACCCAGC
651 ATGGCATGGATTAAAATTCAAGAGGATATTTGGCTATTCGGTCAATCGGGAAATCGAAACCCAGC
59226403 ACATTAGGGCACGTTCCTTGAATTTTCGAATGCAAAATATTGCCTTATTTTAAAATTTTTGGAAG
716 ACATTAGGGCACGTTCCTTGAATTTTCGAATGCAAAATATTGCCTTATTTTAAAATTTTTGGAAG
59226468 GATATTAAGCTATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGA
781 GATATTAAGCTATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGA
59226533 ATTTCCAAACGCAAAA
846 ATTTCCAAACGCAAAA
59226549 TACTGTTCATTAGTCAACATACCCACTACTGTTCATCATCACTGCCCACCACATTGCTTAAGGTC
1 TACTGTTCATTAGTCAACATACCCACTACTGTTCATCATCACTGCCCACCACATTGCTTAAGGTC
59226614 CTGTTCAGCCACTAATATCTCCATACGCCTGAACCCGATAAAAATACTTCTCGTATTAAATATTA
66 CTGTTCAGCCACTAATATCTCCATACGCCTGAACCCGATAAAAATACTTCTCGTATTAAATATTA
59226679 AATGCAAATTGGTATTTTTTGTTAAAAAATTTATTTATTTATATTACTATAAATAATATGGTTGA
131 AATGCAAATTGGTATTTTTTGTTAAAAAATTTATTTATTTATATTACTATAAATAATATGGTTGA
59226744 TAAAATAACCAAATAATAAACGACATATGAAGACTAATTTTTAGTAGTAAAAGTGGATAAACATT
196 TAAAATAACCAAATAATAAACGACATATGAAGACTAATTTTTAGTAGTAAAAGTGGATAAACATT
59226809 TTAATAGAAGGATTAATTTATTTTTTATCTAACATATAAAAACTAATTTACAAAAGGGACTGTTG
261 TTAATAGAAGGATTAATTTATTTTTTATCTAACATATAAAAACTAATTTACAAAAGGGACTGTTG
59226874 ACACCATTTTTTGGATGAAAAACGGGGTCGACTTGGGCTTTGAAAATGAAAACGAAAACGGGAGT
326 ACACCATTTTTTGGATGAAAAACGGGGTCGACTTGGGCTTTGAAAATGAAAACGAAAACGGGAGT
59226939 CGCCACCAATCCTTTTTGATGAGGTGTGATTGGGTCACCTTGAAAAGATGGTTGTTTTTAATAAA
391 CGCCACCAATCCTTTTTGATGAGGTGTGATTGGGTCACCTTGAAAAGATGGTTGTTTTTAATAAA
59227004 CAATTTAATTTTATTAAAACAACAAGTTTGGTCCATGAAATTCAGAAAAATGGGTTCGGGAGTCG
456 CAATTTAATTTTATTAAAACAACAAGTTTGGTCCATGAAATTCAGAAAAATGGGTTCGGGAGTCG
59227069 GTTACGCACGAGGAAGGATTAGCACCCTCGATACGCCCAAAATTGGTACCTAGCTGATTACTTAA
521 GTTACGCACGAGGAAGGATTAGCACCCTCGATACGCCCAAAATTGGTACCTAGCTGATTACTTAA
59227134 TGTCTTAGTGTCAAAAAACTGAAAACTTTAAAGAAATTTAAAATACGATCCGAGAAAAAAACTCG
586 TGTCTTAGTGTCAAAAAACTGAAAACTTTAAAGAAATTTAAAATACGATCC-AGAAAAAAACTCG
59227199 AATGGCATGGATTAAAATTCAAGAGGATATTTGGCTATTCGGTCAATCGGGAAATCGAAACCCAG
650 AATGGCATGGATTAAAATTCAAGAGGATATTTGGCTATTCGGTCAATCGGGAAATCGAAACCCAG
59227264 CACATTAGGGCACGTTCCTTGAATTTTCGAATGCAAAATATTGCCTTATTTTAAAATTTTTGGAA
715 CACATTAGGGCACGTTCCTTGAATTTTCGAATGCAAAATATTGCCTTATTTTAAAATTTTTGGAA
*
59227329 GGATATTAAGCTATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGCTTTCTCG
780 GGATATTAAGCTATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCG
59227394 AATTTCCAAACGCAAAA
845 AATTTCCAAACGCAAAA
59227411 TACTGTTCATTAGTCAACATACCCACTACTGTTCATCATCACTGCCCACCACATTGCTTAAGGTC
1 TACTGTTCATTAGTCAACATACCCACTACTGTTCATCATCACTGCCCACCACATTGCTTAAGGTC
59227476 CTGTTCAGCCACTAATATCTCCATACGCCTGAACCCGATAAAAATACTTCTCGTATTAAATATTA
66 CTGTTCAGCCACTAATATCTCCATACGCCTGAACCCGATAAAAATACTTCTCGTATTAAATATTA
59227541 AATGCAAATTGGTATTTTTTGTTAAAAAATTTATTTATTTATATTACTATAAATAATATGGTTGA
131 AATGCAAATTGGTATTTTTTGTTAAAAAATTTATTTATTTATATTACTATAAATAATATGGTTGA
59227606 TAAAATAACCAAATAATAAACGACATATGAAGACTAATTTTTAGTAGTAAAAGTGGATAAACATT
196 TAAAATAACCAAATAATAAACGACATATGAAGACTAATTTTTAGTAGTAAAAGTGGATAAACATT
59227671 TTAATAGAAGGATTAATTTATTTTTTATCTAACATATAAAAACTAATTTACAAAAGGGACTGTTG
261 TTAATAGAAGGATTAATTTATTTTTTATCTAACATATAAAAACTAATTTACAAAAGGGACTGTTG
59227736 ACACCATTTTTTGGATGAAAAACGGGGTCGACTTGGGCTTTGAAAATGAAAACGAAAACGGGAGT
326 ACACCATTTTTTGGATGAAAAACGGGGTCGACTTGGGCTTTGAAAATGAAAACGAAAACGGGAGT
59227801 CGCCACCAATCCTTTTTGATGAGGTGTGATTGGGT
391 CGCCACCAATCCTTTTTGATGAGGTGTGATTGGGT
59227836 NNNNNNNNNN
Statistics
Matches: 2144, Mismatches: 1, Indels: 4
1.00 0.00 0.00
Matches are distributed among these distances:
860 860 0.40
862 1284 0.60
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (861 bp):
TACTGTTCATTAGTCAACATACCCACTACTGTTCATCATCACTGCCCACCACATTGCTTAAGGTC
CTGTTCAGCCACTAATATCTCCATACGCCTGAACCCGATAAAAATACTTCTCGTATTAAATATTA
AATGCAAATTGGTATTTTTTGTTAAAAAATTTATTTATTTATATTACTATAAATAATATGGTTGA
TAAAATAACCAAATAATAAACGACATATGAAGACTAATTTTTAGTAGTAAAAGTGGATAAACATT
TTAATAGAAGGATTAATTTATTTTTTATCTAACATATAAAAACTAATTTACAAAAGGGACTGTTG
ACACCATTTTTTGGATGAAAAACGGGGTCGACTTGGGCTTTGAAAATGAAAACGAAAACGGGAGT
CGCCACCAATCCTTTTTGATGAGGTGTGATTGGGTCACCTTGAAAAGATGGTTGTTTTTAATAAA
CAATTTAATTTTATTAAAACAACAAGTTTGGTCCATGAAATTCAGAAAAATGGGTTCGGGAGTCG
GTTACGCACGAGGAAGGATTAGCACCCTCGATACGCCCAAAATTGGTACCTAGCTGATTACTTAA
TGTCTTAGTGTCAAAAAACTGAAAACTTTAAAGAAATTTAAAATACGATCCAGAAAAAAACTCGA
ATGGCATGGATTAAAATTCAAGAGGATATTTGGCTATTCGGTCAATCGGGAAATCGAAACCCAGC
ACATTAGGGCACGTTCCTTGAATTTTCGAATGCAAAATATTGCCTTATTTTAAAATTTTTGGAAG
GATATTAAGCTATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGA
ATTTCCAAACGCAAAA
Found at i:59229055 original size:18 final size:18
Alignment explanation
Indices: 59229034--59229095 Score: 69
Period size: 18 Copynumber: 3.6 Consensus size: 18
59229024 ATATATAGAT
59229034 ATATATAATAAGATATAA
1 ATATATAATAAGATATAA
*
59229052 ATATATAATAAGATGATAT
1 ATATATAATAAGAT-ATAA
*
59229071 ATATA-AAT-AGTTAT-A
1 ATATATAATAAGATATAA
59229086 ATA-ATAATAA
1 ATATATAATAA
59229096 TAATAATAGG
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
14 1 0.03
15 6 0.16
16 3 0.08
17 3 0.08
18 17 0.45
19 8 0.21
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (18 bp):
ATATATAATAAGATATAA
Found at i:59229086 original size:35 final size:33
Alignment explanation
Indices: 59229031--59229095 Score: 87
Period size: 35 Copynumber: 1.9 Consensus size: 33
59229021 GAGATATATA
59229031 GATATATATAATAAGATATAAATATATAATAAGAT
1 GATATATATAATAAGATAT-AATA-ATAATAAGAT
*
59229066 GATATATATAA-ATAGTTATAATAATAATAA
1 GATATATATAATA-AGATATAATAATAATAA
59229096 TAATAATAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 7 0.25
34 5 0.18
35 16 0.57
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (33 bp):
GATATATATAATAAGATATAATAATAATAAGAT
Found at i:59231369 original size:17 final size:20
Alignment explanation
Indices: 59231344--59231382 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
59231334 AAAAAAATAT
59231344 AAATATATAAAT-TATT-TA
1 AAATATATAAATATATTATA
59231362 AAAT-TATAAATATATTATA
1 AAATATATAAATATATTATA
59231381 AA
1 AA
59231383 TATTCTTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.37
18 8 0.42
19 4 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
AAATATATAAATATATTATA
Found at i:59231383 original size:18 final size:18
Alignment explanation
Indices: 59231341--59231385 Score: 58
Period size: 17 Copynumber: 2.5 Consensus size: 18
59231331 TTTAAAAAAA
59231341 TATAAATATATAAATTAT
1 TATAAATATATAAATTAT
59231359 T-TAAA-ATTATAAATATAT
1 TATAAATA-TATAAAT-TAT
59231377 TATAAATAT
1 TATAAATAT
59231386 TCTTCAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
16 1 0.04
17 11 0.48
18 5 0.22
19 5 0.22
20 1 0.04
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TATAAATATATAAATTAT
Found at i:59231594 original size:31 final size:31
Alignment explanation
Indices: 59231521--59231596 Score: 80
Period size: 31 Copynumber: 2.5 Consensus size: 31
59231511 TGGTCCAATT
** **
59231521 TGGTACTCGAACTTGACACATTTTCCTAATT
1 TGGTACTTAAACTTGACACATTTTCCTAAGC
* * * *
59231552 TGATACCTAAACTTGACACTTTTTCTTAAGC
1 TGGTACTTAAACTTGACACATTTTCCTAAGC
59231583 TGGTACTTAAACTT
1 TGGTACTTAAACTT
59231597 TTTGGGGTTC
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.39
Consensus pattern (31 bp):
TGGTACTTAAACTTGACACATTTTCCTAAGC
Found at i:59232119 original size:63 final size:61
Alignment explanation
Indices: 59232027--59232144 Score: 148
Period size: 61 Copynumber: 1.9 Consensus size: 61
59232017 TAATATTTAA
* * *
59232027 TAAGTTTAAGTACCAAATTGAACCTAAAAAGAAGCTGAGGTACCAAATTAGGAAAAAAAATGC
1 TAAGTTCAAGTACCAAATTGAACC-CAAAA-AAGCTGAGGTACCAAATTAAGAAAAAAAATGC
* * *
59232090 TAAGTTCAAGTACCAAATT-AGGCCCAAAAAAGTTTAGGTACCAAATTAAGAAAAA
1 TAAGTTCAAGTACCAAATTGA-ACCCAAAAAAGCTGAGGTACCAAATTAAGAAAAA
59232145 GTGTCAAGTT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
61 23 0.48
62 5 0.10
63 20 0.42
ACGTcount: A:0.49, C:0.14, G:0.16, T:0.21
Consensus pattern (61 bp):
TAAGTTCAAGTACCAAATTGAACCCAAAAAAGCTGAGGTACCAAATTAAGAAAAAAAATGC
Found at i:59237385 original size:5 final size:5
Alignment explanation
Indices: 59237375--59237404 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
59237365 AGTTGAAATG
59237375 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT
59237405 CCAAAATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTCT
Found at i:59240524 original size:15 final size:15
Alignment explanation
Indices: 59240506--59240534 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
59240496 CAAACTCCAT
59240506 TAAAATCAACTACAA
1 TAAAATCAACTACAA
59240521 TAAAATCAACTACA
1 TAAAATCAACTACA
59240535 CAAAGCTTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.21, G:0.00, T:0.21
Consensus pattern (15 bp):
TAAAATCAACTACAA
Found at i:59240954 original size:6 final size:6
Alignment explanation
Indices: 59240943--59240972 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
59240933 CTGATGGATG
59240943 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
59240973 CTATTGGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
ATTTTT
Found at i:59246797 original size:21 final size:19
Alignment explanation
Indices: 59246764--59246815 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
59246754 GCAAAACATT
59246764 ATAAAATAATTTACAAAAAA
1 ATAAAATAATTTA-AAAAAA
* *
59246784 ATAAACATTATTTAAAAATA
1 ATAAA-ATAATTTAAAAAAA
59246804 ATAAAA-AATTTA
1 ATAAAATAATTTA
59246816 TATAAATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 5 0.18
19 1 0.04
20 15 0.54
21 7 0.25
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (19 bp):
ATAAAATAATTTAAAAAAA
Found at i:59247207 original size:28 final size:29
Alignment explanation
Indices: 59247173--59247230 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
59247163 TTTTTTATAA
*
59247173 TATATTTGC-AAT-TTTTTAAATAATTTTT
1 TATATTTCCTAATGTTTTTAAAT-ATTTTT
*
59247201 TATATTTCCTATTGTTTTTAAATATTTTT
1 TATATTTCCTAATGTTTTTAAATATTTTT
59247230 T
1 T
59247231 GTAATTTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 8 0.31
29 9 0.35
30 9 0.35
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64
Consensus pattern (29 bp):
TATATTTCCTAATGTTTTTAAATATTTTT
Found at i:59247247 original size:29 final size:30
Alignment explanation
Indices: 59247183--59247248 Score: 75
Period size: 29 Copynumber: 2.2 Consensus size: 30
59247173 TATATTTGCA
*
59247183 ATTTTTTAAATAATTTTTTATATTTCCTAT
1 ATTTTTTAAATAATTTTTTATATTTCATAT
*
59247213 -TGTTTTTAAAT-ATTTTTTGTAATTT-ATAT
1 AT-TTTTTAAATAATTTTTTAT-ATTTCATAT
59247242 ATTTTTT
1 ATTTTTT
59247249 TAGAATTTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
29 17 0.55
30 14 0.45
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (30 bp):
ATTTTTTAAATAATTTTTTATATTTCATAT
Found at i:59247249 original size:30 final size:30
Alignment explanation
Indices: 59247184--59247250 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 30
59247174 ATATTTGCAA
*
59247184 TTTTTTAAATAATTTTTTATATTTCCTATT
1 TTTTTTAAATAATTTTTTATATTTCATATT
* *
59247214 GTTTTTAAAT-ATTTTTTGTAATTT-ATATAT
1 TTTTTTAAATAATTTTTTAT-ATTTCATAT-T
59247244 TTTTTTA
1 TTTTTTA
59247251 GAATTTAGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
29 11 0.35
30 20 0.65
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (30 bp):
TTTTTTAAATAATTTTTTATATTTCATATT
Found at i:59247964 original size:2 final size:2
Alignment explanation
Indices: 59247957--59247991 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
59247947 TCACATTAGC
59247957 AT AT AT AT AT 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 AT AT AT AT AT A
59247992 CTAGTTTGGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:59258082 original size:10 final size:10
Alignment explanation
Indices: 59258067--59258095 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
59258057 CACCGTGCTT
59258067 TTTTTTTTTC
1 TTTTTTTTTC
59258077 TTTTTTTTTC
1 TTTTTTTTTC
59258087 TTTTTTTTT
1 TTTTTTTTT
59258096 TAAATTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:59259873 original size:21 final size:21
Alignment explanation
Indices: 59259841--59259884 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
59259831 CCGAATATAA
59259841 TAAATATATTTTTAAAATTTT
1 TAAATATATTTTTAAAATTTT
*
59259862 TAAA-ATACTTTTTCAAATTTT
1 TAAATATA-TTTTTAAAATTTT
59259883 TA
1 TA
59259885 TTTTTAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.55
Consensus pattern (21 bp):
TAAATATATTTTTAAAATTTT
Found at i:59259908 original size:27 final size:26
Alignment explanation
Indices: 59259857--59259919 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 26
59259847 TATTTTTAAA
*
59259857 ATTTTTAAAATACTTTTTCAAATTTTT
1 ATTTTTAAAATAATTTTTCAAA-TTTT
*
59259884 ATTTTTAAAATAATTTTT-AGTATTTT
1 ATTTTTAAAATAATTTTTCA-AATTTT
*
59259910 ATTTTAAAAA
1 ATTTTTAAAA
59259920 AATATGTCGG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 14 0.44
27 18 0.56
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (26 bp):
ATTTTTAAAATAATTTTTCAAATTTT
Found at i:59261405 original size:2 final size:2
Alignment explanation
Indices: 59261398--59261428 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
59261388 AAATAAAAGT
59261398 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 T
59261429 TAGTAGTCNN
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:59262892 original size:25 final size:25
Alignment explanation
Indices: 59262847--59262902 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
59262837 ATTAGGGTAA
* * * *
59262847 TAATTATGTTTTTTTATAATATTAT
1 TAATTATATTTTTTAAAAATATGAT
*
59262872 TAATTATATTTTTTAAAAATATGCT
1 TAATTATATTTTTTAAAAATATGAT
59262897 TAATTA
1 TAATTA
59262903 ATAAAGTATA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.57
Consensus pattern (25 bp):
TAATTATATTTTTTAAAAATATGAT
Found at i:59266295 original size:21 final size:21
Alignment explanation
Indices: 59266271--59266310 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
59266261 TCTGGCACGC
*
59266271 TTTTAGGTTTTCTTGTTTTTT
1 TTTTAGGTCTTCTTGTTTTTT
59266292 TTTTAGGTCTTCTTGTTTT
1 TTTTAGGTCTTCTTGTTTT
59266311 GTCTTCTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.05, C:0.07, G:0.15, T:0.72
Consensus pattern (21 bp):
TTTTAGGTCTTCTTGTTTTTT
Found at i:59271953 original size:16 final size:16
Alignment explanation
Indices: 59271932--59271967 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
59271922 TTTGATTCGC
*
59271932 TGTATTGGATTAGAGG
1 TGTATTGAATTAGAGG
59271948 TGTATTGAATTAGAGG
1 TGTATTGAATTAGAGG
59271964 TGTA
1 TGTA
59271968 ATAGCAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.33, T:0.39
Consensus pattern (16 bp):
TGTATTGAATTAGAGG
Found at i:59272268 original size:61 final size:61
Alignment explanation
Indices: 59272203--59272380 Score: 186
Period size: 59 Copynumber: 3.0 Consensus size: 61
59272193 TTATTATTAA
**
59272203 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTTCTAAAATCATAAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTAATAAAATCATAAT
* * * * * ** * *
59272264 ATATAATACT-ATAAAA-T-ATAAT-TTAACATAATTATTAT-TAAATATAATTTAATAAAAAT
1 ATATAAT-TTAATAAAATTCTTAATATTAA-AT-ATTCTTATATGAATTTAATAAAATCATAAT
*
59272323 ATATAATTTAATACAATTCTTAATATTAAATATTCTTATATGAATTTAATAAAATCAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTAATAAAATCAT
59272381 GTAAAAAGAA
Statistics
Matches: 88, Mismatches: 21, Indels: 16
0.70 0.17 0.13
Matches are distributed among these distances:
58 5 0.06
59 31 0.35
60 16 0.18
61 31 0.35
62 5 0.06
ACGTcount: A:0.49, C:0.06, G:0.01, T:0.44
Consensus pattern (61 bp):
ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTAATAAAATCATAAT
Found at i:59275853 original size:17 final size:18
Alignment explanation
Indices: 59275824--59275857 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
59275814 TGTCAGATAT
59275824 TTTTATAAATTTCTTAAA
1 TTTTATAAATTTCTTAAA
59275842 TTTTAT-AATTTCTTAA
1 TTTTATAAATTTCTTAA
59275858 TAATTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTTATAAATTTCTTAAA
Found at i:59276257 original size:21 final size:22
Alignment explanation
Indices: 59276225--59276274 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 22
59276215 AAATATCAAA
59276225 TATATAATTTTAT-ATTAATATT
1 TATATAATTTTATAATTAA-ATT
59276247 TATAT-ATTTTATAATTAAATT
1 TATATAATTTTATAATTAAATT
*
59276268 TAAATAA
1 TATATAA
59276275 AAATATTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 14 0.56
22 11 0.44
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
TATATAATTTTATAATTAAATT
Found at i:59280480 original size:41 final size:37
Alignment explanation
Indices: 59280433--59280538 Score: 113
Period size: 37 Copynumber: 2.8 Consensus size: 37
59280423 TTCGACTTCG
59280433 AGTCGATGAGACACTGGGTGTCAATTTACTACTTCGGATTA
1 AGTCGATGAGACACTGGGTGTCAATTTACT--TT--GATTA
* * * * *
59280474 ATTCGATGAGGCACTGGATGCCAATTTACTTTGATTT
1 AGTCGATGAGACACTGGGTGTCAATTTACTTTGATTA
* *
59280511 AGCCAATGAGACACTGGGTGTCAATTTA
1 AGTCGATGAGACACTGGGTGTCAATTTA
59280539 TTTATTCAAA
Statistics
Matches: 54, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
37 26 0.48
39 2 0.04
41 26 0.48
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (37 bp):
AGTCGATGAGACACTGGGTGTCAATTTACTTTGATTA
Found at i:59280754 original size:20 final size:21
Alignment explanation
Indices: 59280729--59280779 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
59280719 GTGAAAAGCT
59280729 ATTTGAATAGAAAAT-ATGAG
1 ATTTGAATAGAAAATGATGAG
* *
59280749 ATTTGAAGTAGCAAGTGATGAG
1 ATTTGAA-TAGAAAATGATGAG
*
59280771 AATTGAATA
1 ATTTGAATA
59280780 TGTTATGAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 7 0.27
21 8 0.31
22 11 0.42
ACGTcount: A:0.45, C:0.02, G:0.24, T:0.29
Consensus pattern (21 bp):
ATTTGAATAGAAAATGATGAG
Found at i:59292244 original size:18 final size:18
Alignment explanation
Indices: 59292221--59292259 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
59292211 AGATTCATTT
59292221 AAACCAATACATAAATTA
1 AAACCAATACATAAATTA
*
59292239 AAACCAATATATAAATTA
1 AAACCAATACATAAATTA
59292257 AAA
1 AAA
59292260 GTTCTATACC
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:0.64, C:0.13, G:0.00, T:0.23
Consensus pattern (18 bp):
AAACCAATACATAAATTA
Found at i:59292871 original size:2 final size:2
Alignment explanation
Indices: 59292864--59292908 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
59292854 TAGTAATTTC
59292864 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
59292906 TA T
1 TA T
59292909 TTGTAAATAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:59293397 original size:11 final size:11
Alignment explanation
Indices: 59293369--59293406 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
59293359 GTTTGATTCG
59293369 ATTTTATT--A
1 ATTTTATTAAA
59293378 ATTTT-TTAAA
1 ATTTTATTAAA
59293388 ATTTTATTAAA
1 ATTTTATTAAA
59293399 ATTTTATT
1 ATTTTATT
59293407 TTGGTTTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 2 0.08
9 5 0.19
10 6 0.23
11 13 0.50
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
ATTTTATTAAA
Found at i:59294055 original size:7 final size:7
Alignment explanation
Indices: 59294043--59294068 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
59294033 TAGTTAAATC
59294043 AATTTTA
1 AATTTTA
59294050 AATTTTA
1 AATTTTA
59294057 AATTTTA
1 AATTTTA
59294064 AATTT
1 AATTT
59294069 AGGTAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
AATTTTA
Found at i:59295683 original size:2 final size:2
Alignment explanation
Indices: 59295676--59295706 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
59295666 AAACTAAGAC
59295676 AT AT AT 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 AT AT AT A
59295707 CAAAGAGACC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:59301859 original size:2 final size:2
Alignment explanation
Indices: 59301852--59301903 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
59301842 NNNNNNNNAG
59301852 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
*
59301894 TA TA TG TA TA
1 TA TA TA TA TA
59301904 AACTATAGAT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:59302606 original size:29 final size:30
Alignment explanation
Indices: 59302552--59302612 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 30
59302542 GACCTGAAAT
59302552 TTAAAAATTAAAAAATAAAGAAACTAAATTC
1 TTAAAAATTAAAAAATAAAG-AACTAAATTC
*
59302583 TTAAAAA-TAAAAATATATAG-ACTAAATTC
1 TTAAAAATTAAAAA-ATAAAGAACTAAATTC
59302612 T
1 T
59302613 AAATTTATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 10 0.36
30 6 0.21
31 12 0.43
ACGTcount: A:0.61, C:0.07, G:0.03, T:0.30
Consensus pattern (30 bp):
TTAAAAATTAAAAAATAAAGAACTAAATTC
Found at i:59304387 original size:15 final size:15
Alignment explanation
Indices: 59304364--59304394 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
59304354 CTGCGATCAT
*
59304364 CGCTTAATTCGAAGC
1 CGCTAAATTCGAAGC
59304379 CGCTAAATTCGAAGC
1 CGCTAAATTCGAAGC
59304394 C
1 C
59304395 TTCGATTGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (15 bp):
CGCTAAATTCGAAGC
Found at i:59312205 original size:2 final size:2
Alignment explanation
Indices: 59312198--59312223 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
59312188 TCTCCACCTG
59312198 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
59312224 GGCATTTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:59314344 original size:2 final size:2
Alignment explanation
Indices: 59314337--59314362 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
59314327 AGTATTACTA
59314337 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
59314363 ATATATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:59317313 original size:15 final size:15
Alignment explanation
Indices: 59317293--59317322 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
59317283 TCATTGTGAT
59317293 TGGTTTATACAAAGG
1 TGGTTTATACAAAGG
*
59317308 TGGTTTATAGAAAGG
1 TGGTTTATACAAAGG
59317323 AAGTTAACCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.03, G:0.30, T:0.33
Consensus pattern (15 bp):
TGGTTTATACAAAGG
Found at i:59329304 original size:55 final size:54
Alignment explanation
Indices: 59329189--59329309 Score: 126
Period size: 55 Copynumber: 2.2 Consensus size: 54
59329179 ATATTATTTT
* *
59329189 TTAT-ATATAATATAATTTATAACACATAAAAATTAAAATTAAATCTATAATAA
1 TTATAATATAATATAATTTATAACACATAAAAATTAAAATGAAATATATAATAA
* *
59329242 TATATAATACTAATATAATTTA-AACA-TTAAAAAATTAAAAATGATTATATATAA-AA
1 T-TATAATA-TAATATAATTTATAACACAT-AAAAATT-AAAATGA-AATATATAATAA
59329298 TTATAATA-AATA
1 TTATAATATAATA
59329310 AAAAATATAT
Statistics
Matches: 58, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
53 5 0.09
54 4 0.07
55 21 0.36
56 21 0.36
57 7 0.12
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.37
Consensus pattern (54 bp):
TTATAATATAATATAATTTATAACACATAAAAATTAAAATGAAATATATAATAA
Found at i:59329334 original size:15 final size:16
Alignment explanation
Indices: 59329316--59329349 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
59329306 AATAAAAAAT
59329316 ATATAAAATT-ATTAA
1 ATATAAAATTAATTAA
*
59329331 ATATTAAATTAATTAA
1 ATATAAAATTAATTAA
59329347 ATA
1 ATA
59329350 AATATTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
ATATAAAATTAATTAA
Found at i:59329338 original size:16 final size:17
Alignment explanation
Indices: 59329312--59329349 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
59329302 AATAAATAAA
59329312 AAATATATAAAATT-ATT
1 AAATATAT-AAATTAATT
59329329 AAATAT-TAAATTAATT
1 AAATATATAAATTAATT
59329345 AAATA
1 AAATA
59329350 AATATTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 5 0.25
16 9 0.45
17 6 0.30
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AAATATATAAATTAATT
Found at i:59329340 original size:41 final size:38
Alignment explanation
Indices: 59329269--59329351 Score: 103
Period size: 41 Copynumber: 2.1 Consensus size: 38
59329259 ATTTAAACAT
*
59329269 TAAAAAATTAAAAATGATTATATATAAAATTATAATAAA
1 TAAAAAATTAAAAATGATTAAATATAAAATTA-AATAAA
* * *
59329308 TAAAAAATATATAAAATTATTAAATATTAAATTAATTAAA
1 TAAAAAAT-TA-AAAATGATTAAATATAAAATTAAATAAA
59329348 TAAA
1 TAAA
59329352 TATTTTTAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
39 8 0.21
40 11 0.29
41 19 0.50
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (38 bp):
TAAAAAATTAAAAATGATTAAATATAAAATTAAATAAA
Found at i:59329561 original size:7 final size:7
Alignment explanation
Indices: 59329549--59329585 Score: 74
Period size: 7 Copynumber: 5.3 Consensus size: 7
59329539 GTTGTAATTA
59329549 ATTTTAT
1 ATTTTAT
59329556 ATTTTAT
1 ATTTTAT
59329563 ATTTTAT
1 ATTTTAT
59329570 ATTTTAT
1 ATTTTAT
59329577 ATTTTAT
1 ATTTTAT
59329584 AT
1 AT
59329586 ATATGGTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
ATTTTAT
Found at i:59335710 original size:33 final size:33
Alignment explanation
Indices: 59335667--59335731 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
59335657 GTAGTAACAT
* * *
59335667 AATAATAAAATGGTAACAAAACAGTAAGAAAAC
1 AATAAGAAAATAGTAACAAAACAGTAAAAAAAC
59335700 AATAAGAAAATAGTAACAAAACAGTAAAAAAA
1 AATAAGAAAATAGTAACAAAACAGTAAAAAAA
59335732 TAACAATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.68, C:0.08, G:0.11, T:0.14
Consensus pattern (33 bp):
AATAAGAAAATAGTAACAAAACAGTAAAAAAAC
Found at i:59335731 original size:11 final size:11
Alignment explanation
Indices: 59335679--59335730 Score: 61
Period size: 11 Copynumber: 4.8 Consensus size: 11
59335669 TAATAAAATG
59335679 GTAACAAAACA
1 GTAACAAAACA
*
59335690 GTAAGAAAACA
1 GTAACAAAACA
* * *
59335701 ATAAGAAAATA
1 GTAACAAAACA
59335712 GTAACAAAACA
1 GTAACAAAACA
59335723 GTAA-AAAA
1 GTAACAAAA
59335731 ATAACAATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
10 4 0.11
11 31 0.89
ACGTcount: A:0.67, C:0.10, G:0.12, T:0.12
Consensus pattern (11 bp):
GTAACAAAACA
Found at i:59364845 original size:21 final size:21
Alignment explanation
Indices: 59364821--59364873 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
59364811 AGCGGTGGCG
*
59364821 GTGAGATTAGTTACTGTAGCA
1 GTGAGATTAGATACTGTAGCA
* *
59364842 GTGAGATTGGATACTGTAGCG
1 GTGAGATTAGATACTGTAGCA
59364863 GTGAGATTAGA
1 GTGAGATTAGA
59364874 AACAATGGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.28, C:0.08, G:0.34, T:0.30
Consensus pattern (21 bp):
GTGAGATTAGATACTGTAGCA
Found at i:59381158 original size:18 final size:18
Alignment explanation
Indices: 59381126--59381161 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
59381116 CTTCTTACAT
59381126 ATATTAAAATCTATAAAA
1 ATATTAAAATCTATAAAA
59381144 ATATTGAAAAT-TATAAAA
1 ATATT-AAAATCTATAAAA
59381162 TAAATAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (18 bp):
ATATTAAAATCTATAAAA
Found at i:59383299 original size:18 final size:18
Alignment explanation
Indices: 59383267--59383302 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
59383257 CTTCTTACAT
59383267 ATATTAAAATCTATAAAA
1 ATATTAAAATCTATAAAA
59383285 ATATTGAAAAT-TATAAAA
1 ATATT-AAAATCTATAAAA
59383303 TAAATAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (18 bp):
ATATTAAAATCTATAAAA
Found at i:59385439 original size:18 final size:18
Alignment explanation
Indices: 59385407--59385442 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
59385397 CTTCTTACAT
59385407 ATATTAAAATCTATAAAA
1 ATATTAAAATCTATAAAA
59385425 ATATTGAAAAT-TATAAAA
1 ATATT-AAAATCTATAAAA
59385443 TAAATAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (18 bp):
ATATTAAAATCTATAAAA
Found at i:59387581 original size:18 final size:18
Alignment explanation
Indices: 59387549--59387584 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
59387539 CTTCTTACAT
59387549 ATATTAAAATCTATAAAA
1 ATATTAAAATCTATAAAA
59387567 ATATTGAAAAT-TATAAAA
1 ATATT-AAAATCTATAAAA
59387585 TAAATAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (18 bp):
ATATTAAAATCTATAAAA
Found at i:59389790 original size:18 final size:18
Alignment explanation
Indices: 59389758--59389793 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
59389748 CTTCTTACAT
59389758 ATATTAAAATCTATAAAA
1 ATATTAAAATCTATAAAA
59389776 ATATTGAAAAT-TATAAAA
1 ATATT-AAAATCTATAAAA
59389794 TAAATAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (18 bp):
ATATTAAAATCTATAAAA
Found at i:59394076 original size:18 final size:18
Alignment explanation
Indices: 59394044--59394079 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
59394034 CTTCTTACAT
59394044 ATATTAAAATCTATAAAA
1 ATATTAAAATCTATAAAA
59394062 ATATTGAAAAT-TATAAAA
1 ATATT-AAAATCTATAAAA
59394080 TAAATAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (18 bp):
ATATTAAAATCTATAAAA
Found at i:59396234 original size:18 final size:18
Alignment explanation
Indices: 59396202--59396237 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
59396192 CTTCTTACAT
59396202 ATATTAAAATCTATAAAA
1 ATATTAAAATCTATAAAA
59396220 ATATTGAAAAT-TATAAAA
1 ATATT-AAAATCTATAAAA
59396238 TAAATAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (18 bp):
ATATTAAAATCTATAAAA
Found at i:59398767 original size:24 final size:24
Alignment explanation
Indices: 59398735--59398783 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
59398725 CAATATTTAC
* *
59398735 TTTTCAAATTTAAAATAAATGATT
1 TTTTAAAATCTAAAATAAATGATT
* *
59398759 TTTTAAAATCTATAATAAATTATT
1 TTTTAAAATCTAAAATAAATGATT
59398783 T
1 T
59398784 AATTTCATAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (24 bp):
TTTTAAAATCTAAAATAAATGATT
Found at i:59399527 original size:15 final size:16
Alignment explanation
Indices: 59399507--59399536 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
59399497 TATATTAGGA
59399507 ATTTAAAT-TTTTTTC
1 ATTTAAATATTTTTTC
59399522 ATTTAAATATTTTTT
1 ATTTAAATATTTTTT
59399537 TTCTTATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (16 bp):
ATTTAAATATTTTTTC
Found at i:59406400 original size:18 final size:18
Alignment explanation
Indices: 59406374--59406408 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
59406364 GTATGTTTAT
*
59406374 ATATTTAATTTGTAATAA
1 ATATATAATTTGTAATAA
59406392 ATATATAATTTGTAATA
1 ATATATAATTTGTAATA
59406409 CATAAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (18 bp):
ATATATAATTTGTAATAA
Found at i:59407143 original size:13 final size:14
Alignment explanation
Indices: 59407113--59407143 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
59407103 CAATTTATTA
59407113 TTTTTCTGATTTGT
1 TTTTTCTGATTTGT
*
59407127 TTTTTTTGATTTGT
1 TTTTTCTGATTTGT
59407141 TTT
1 TTT
59407144 CAGATTCAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.06, C:0.03, G:0.13, T:0.77
Consensus pattern (14 bp):
TTTTTCTGATTTGT
Found at i:59429301 original size:50 final size:49
Alignment explanation
Indices: 59429238--59429332 Score: 163
Period size: 50 Copynumber: 1.9 Consensus size: 49
59429228 GAGAAAAATA
* *
59429238 GGAAAATATTGGTTCAGATTTATGAGATGGAAAAAAATAACATGATCAGG
1 GGAAAATAGTGGTTCAGATTTATGAGAT-GAAAAAAAAAACATGATCAGG
59429288 GGAAAATAGTGGTTCAGATTTATGAGATGAAAAAAAAAACATGAT
1 GGAAAATAGTGGTTCAGATTTATGAGATGAAAAAAAAAACATGAT
59429333 TAGAGATCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
49 16 0.37
50 27 0.63
ACGTcount: A:0.46, C:0.05, G:0.23, T:0.25
Consensus pattern (49 bp):
GGAAAATAGTGGTTCAGATTTATGAGATGAAAAAAAAAACATGATCAGG
Found at i:59431352 original size:2 final size:2
Alignment explanation
Indices: 59431300--59431334 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
59431290 AATACCAAAT
59431300 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 T
59431335 GGATCCAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:59437931 original size:16 final size:18
Alignment explanation
Indices: 59437897--59437931 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
59437887 TTAAACCCCG
59437897 AATTTTGTGCCTGATTTC
1 AATTTTGTGCCTGATTTC
59437915 AATTTTGT-CCT-ATTTC
1 AATTTTGTGCCTGATTTC
59437931 A
1 A
59437932 TTTAATTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 3 0.18
18 8 0.47
ACGTcount: A:0.20, C:0.17, G:0.11, T:0.51
Consensus pattern (18 bp):
AATTTTGTGCCTGATTTC
Found at i:59440544 original size:2 final size:2
Alignment explanation
Indices: 59440539--59440567 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
59440529 AAAATTAATG
59440539 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 T
59440568 CATTCGTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:59443534 original size:21 final size:22
Alignment explanation
Indices: 59443480--59443536 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
59443470 AGGTGTGGTA
* *
59443480 AATATTATATTTATAAATTCAT
1 AATATAATATTTATAAAATCAT
* * *
59443502 AATAAAAAATTTA-AAAATCTT
1 AATATAATATTTATAAAATCAT
59443523 AATATAATATTTAT
1 AATATAATATTTAT
59443537 CGAAATTCTA
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
21 17 0.63
22 10 0.37
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (22 bp):
AATATAATATTTATAAAATCAT
Found at i:59446092 original size:21 final size:22
Alignment explanation
Indices: 59446068--59446108 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
59446058 TTCGGGATTT
59446068 AGGGTTCGGGCTCA-ATGTTCA
1 AGGGTTCGGGCTCACATGTTCA
*
59446089 AGGGTTCGGGGTCACATGTT
1 AGGGTTCGGGCTCACATGTT
59446109 ACTAGTTTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.17, C:0.17, G:0.37, T:0.29
Consensus pattern (22 bp):
AGGGTTCGGGCTCACATGTTCA
Found at i:59446711 original size:20 final size:20
Alignment explanation
Indices: 59446682--59446719 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
59446672 ATGTACTTTA
59446682 ATTTGATCAATTTTAGTCCC
1 ATTTGATCAATTTTAGTCCC
*
59446702 ATTTGGTCAATTTTAGTC
1 ATTTGATCAATTTTAGTC
59446720 TTGACTCAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.16, G:0.13, T:0.47
Consensus pattern (20 bp):
ATTTGATCAATTTTAGTCCC
Found at i:59452975 original size:34 final size:33
Alignment explanation
Indices: 59452861--59452980 Score: 141
Period size: 34 Copynumber: 3.6 Consensus size: 33
59452851 AACAAATAAA
* *
59452861 GGTTTAGAGCTTTAAAAAAATTAATTAAATTAG
1 GGTTTAGAGTTTTTAAAAAATTAATTAAATTAG
* * *
59452894 GTTTTAGGGGTTTTAAATAAATTAATTAAATTAG
1 GGTTTAGAGTTTTTAAA-AAATTAATTAAATTAG
* *
59452928 GGTTTAAAGTTTTTAAGAAAATTAGTTAAATTAG
1 GGTTTAGAGTTTTTAA-AAAATTAATTAAATTAG
**
59452962 GGTTTAGTTTTTTTAAAAA
1 GGTTTAGAGTTTTTAAAAA
59452981 TAATTTTGTG
Statistics
Matches: 73, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
33 16 0.22
34 56 0.77
35 1 0.01
ACGTcount: A:0.40, C:0.01, G:0.17, T:0.42
Consensus pattern (33 bp):
GGTTTAGAGTTTTTAAAAAATTAATTAAATTAG
Found at i:59453177 original size:126 final size:126
Alignment explanation
Indices: 59453041--59453934 Score: 1073
Period size: 126 Copynumber: 7.1 Consensus size: 126
59453031 GATTTTATTT
* * *
59453041 TTTTTCTACAGTAGTTTCAGAAAAATTAATTTTGAGAAAACGATTCTGAAAAGATAATGTCAAAA
1 TTTTTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAAACGATTCTGAAAAAATAATGTCAAAA
* * *
59453106 ATGCTTCAAGCAGGATGAACTGTCAGCAAAATTACTGAAAAAAGCTCTCACGTGGATGCTC
66 ATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * * *
59453167 TTTTTTTACAGTAG-TTCTTGAAAAAATAATTTTGA-AAAGACGATTCT-ATAAAAATAGTTTTA
1 TTTTTCTACAGTAGTTTC-TGAAAAAATAATTTTGAGAAA-ACGATTCTGA-AAAAATAATGTCA
** * *
59453229 AAAACACTTCAACCAGGATGCA-TGTCAGCAAAATTACTGAAAAAAGCTCCCACTTGGACGCTC
63 AAAATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * *
59453292 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGAAAG-TTTTGAAAAAA-AATCGTTTC
1 TTTTTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAA-AACGATTCTGAAAAAATAAT-G--TC
* * * * *
59453355 AAAAATGTTTCAAGCAGGATGAACTTTCAGCAAAATTACTGAAAAAAGCTCCCACGGGGATGCTC
62 AAAAATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * * *
59453420 TTTTTCTACAGAAATTCCTGAAAAAATAATTTTGAGAAGAA-GATTCT-AAAAAA-AATGTAAAA
1 TTTTTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAA-AACGATTCTGAAAAAATAATGTCAAA
*
59453482 AATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAACTCCCACGTGGACGCTC
65 AATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * *
59453544 TTTTTCTATAGTAG-TTCTCGAAAAAATAATTTTGAGAAGACCATTCTGAAAAAATAATGTCAAA
1 TTTTTCTACAGTAGTTTCT-GAAAAAATAATTTTGAGAAAACGATTCTGAAAAAATAATGTCAAA
* * *
59453608 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAA-CTCTCACGTCGACGCTC
65 AATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * * * * *
59453669 TTTTTCTAAAGTAGTTTCTGAAAAAA-CA-CTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAAACGATTCTGAAAAAATAATGTCAAAA
* * * *
59453732 ACT-CTTCAAGCAGAATGCATTGTCAGTAAAATTACTGAAAAAAGCTCCCACGTGGATGCTC
66 A-TGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * * *
59453793 TTTCTCTACAGTAG-TTCTTGAAAAAATAATTTTGAGAAGAAAG-TTCTAAAAAAATAGTGTCAA
1 TTTTTCTACAGTAGTTTC-TGAAAAAATAATTTTGAGAA-AACGATTCTGAAAAAATAATGTCAA
* * * * * * * *
59453856 AAACGCTTCAAGCAAGATACGCTGTCAACAAAATTACTAAAAAAAGCTCCCACATGAACGCTC
64 AAATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
59453919 TTTTTCTACAGTAGTT
1 TTTTTCTACAGTAGTT
59453935 CTTGTTTGGC
Statistics
Matches: 660, Mismatches: 83, Indels: 49
0.83 0.10 0.06
Matches are distributed among these distances:
123 76 0.12
124 132 0.20
125 125 0.19
126 215 0.33
127 33 0.05
128 79 0.12
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAAACGATTCTGAAAAAATAATGTCAAAA
ATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
Found at i:59453785 original size:249 final size:250
Alignment explanation
Indices: 59453041--59453934 Score: 1139
Period size: 249 Copynumber: 3.6 Consensus size: 250
59453031 GATTTTATTT
* * *
59453041 TTTTTCTACAGTAGTT-TCAGAAAAATTAATTTTGAGAA-AACGATTCTGAAAAGATAATGTCAA
1 TTTTTCTACAGTAGTTCTCAGAAAAAATAATTTTGAGAAGAAAG-TTCTGAAAAAATAATGTCAA
* * *
59453104 AAATGCTTCAAGCAGGATGAACTGTCAGCAAAATTACTGAAAAAAGCTCTCACGTGGATGCTCTT
65 AAACGCTTCAAGCAGGATGAACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTT
* * *
59453169 TTTTTACAGTAG-TTCTTGAAAAAATAATTTTGAAAAGACGATTCTATAAAAATAGTTTTAAAAA
130 TTTCTACAGTAGTTTC-TGAAAAAATAATTTTGAGAAGACGATTCTA-AAAAATAG-TGTAAAAA
* * *
59453233 CACTTCAACCAGGATGCATGTCAGCAAAATTACTGAAAAAAGCTCCCACTTGGACGCTC
192 CTCTTCAAGCAGGATGCATGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* *
59453292 TTTTTCTACAGTAGTTC-CTGAAAAAATAATTTTGAGAAGAAAGTTTTGAAAAAA-AATCGTTTC
1 TTTTTCTACAGTAGTTCTCAGAAAAAATAATTTTGAGAAGAAAGTTCTGAAAAAATAAT-G--TC
* * * * *
59453355 AAAAATGTTTCAAGCAGGATGAACTTTCAGCAAAATTACTGAAAAAAGCTCCCACGGGGATGCTC
63 AAAAACGCTTCAAGCAGGATGAACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * * * * *
59453420 TTTTTCTACAGAAATTCCTGAAAAAATAATTTTGAGAAGAAGATTCTAAAAAA-AATGTAAAAAA
128 TTTTTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGACGATTCTAAAAAATAGTGTAAAAAC
*
59453484 TGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAACTCCCACGTGGACGCTC
193 T-CTTCAAGCAGGATGCA-TGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* *
59453544 TTTTTCTATAGTAGTTCTC-GAAAAAATAATTTTGAGAAGACCA-TTCTGAAAAAATAATGTCAA
1 TTTTTCTACAGTAGTTCTCAGAAAAAATAATTTTGAGAAGA-AAGTTCTGAAAAAATAATGTCAA
* * *
59453607 AAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAA-CTCTCACGTCGACGCTCTT
65 AAACGCTTCAAGCAGGATGAACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTT
* * * *
59453671 TTTCTAAAGTAGTTTCTGAAAAAA-CA-CTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAAAC
130 TTTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGACGATTCT-AAAAAATAGTGT-AAAAAC
* * *
59453734 TCTTCAAGCAGAATGCATTGTCAGTAAAATTACTGAAAAAAGCTCCCACGTGGATGCTC
193 TCTTCAAGCAGGATGCA-TGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * * *
59453793 TTTCTCTACAGTAGTTCT-TGAAAAAATAATTTTGAGAAGAAAGTTCTAAAAAAATAGTGTCAAA
1 TTTTTCTACAGTAGTTCTCAGAAAAAATAATTTTGAGAAGAAAGTTCTGAAAAAATAATGTCAAA
* * * * * *
59453857 AACGCTTCAAGCAAGAT-ACGCTGTCAACAAAATTACTAAAAAAAGCTCCCACATGAACGCTCTT
66 AACGCTTCAAGCAGGATGA-ACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTT
59453921 TTTCTACAGTAGTT
130 TTTCTACAGTAGTT
59453935 CTTGTTTGGC
Statistics
Matches: 562, Mismatches: 63, Indels: 37
0.85 0.10 0.06
Matches are distributed among these distances:
247 14 0.02
248 8 0.01
249 186 0.33
250 89 0.16
251 61 0.11
252 95 0.17
253 107 0.19
254 2 0.00
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (250 bp):
TTTTTCTACAGTAGTTCTCAGAAAAAATAATTTTGAGAAGAAAGTTCTGAAAAAATAATGTCAAA
AACGCTTCAAGCAGGATGAACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTT
TTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGACGATTCTAAAAAATAGTGTAAAAACTCT
TCAAGCAGGATGCATGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
Found at i:59456456 original size:18 final size:18
Alignment explanation
Indices: 59456435--59456469 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
59456425 GAAAAGGAAA
*
59456435 CATATAAGGGTTAGGATG
1 CATATAAGGGCTAGGATG
59456453 CATATAAGGGCTAGGAT
1 CATATAAGGGCTAGGAT
59456470 ACGCACCTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (18 bp):
CATATAAGGGCTAGGATG
Found at i:59457276 original size:20 final size:19
Alignment explanation
Indices: 59457235--59457277 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
59457225 ATAAAATTAT
*
59457235 ATTTTAAATCTATGTAATA
1 ATTTTAAATCTATATAATA
59457254 ATTTTAAAATCTAATATAA-A
1 ATTTT-AAATCT-ATATAATA
59457274 ATTT
1 ATTT
59457278 ACCTCGTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 5 0.24
20 11 0.52
21 5 0.24
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (19 bp):
ATTTTAAATCTATATAATA
Found at i:59458671 original size:31 final size:32
Alignment explanation
Indices: 59458628--59458687 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
59458618 ATTAAGAAAA
*
59458628 AAAATTCAAATACCTAATTA-ATTATTAATAAT
1 AAAATTCAAATACCAAATTATA-TATTAATAAT
59458660 AAAATT-AAATACCAAATTATATATTAAT
1 AAAATTCAAATACCAAATTATATATTAAT
59458688 CCTAAATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 19 0.73
32 7 0.27
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (32 bp):
AAAATTCAAATACCAAATTATATATTAATAAT
Found at i:59472967 original size:10 final size:11
Alignment explanation
Indices: 59472943--59472970 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
59472933 AGAATACTCT
59472943 AAAACAGATCA
1 AAAACAGATCA
59472954 AAAACAGATCA
1 AAAACAGATCA
59472965 AAAACA
1 AAAACA
59472971 TACCCACACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.68, C:0.18, G:0.07, T:0.07
Consensus pattern (11 bp):
AAAACAGATCA
Found at i:59475245 original size:23 final size:24
Alignment explanation
Indices: 59475200--59475246 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
59475190 GGTTCGCTTA
59475200 ATGTTCACAAACATATAAATGAAC
1 ATGTTCACAAACATATAAATGAAC
59475224 ATGTTCACAAACAT-TAAATGAAC
1 ATGTTCACAAACATATAAATGAAC
59475247 CAAGCCTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 9 0.39
24 14 0.61
ACGTcount: A:0.49, C:0.17, G:0.09, T:0.26
Consensus pattern (24 bp):
ATGTTCACAAACATATAAATGAAC
Found at i:59477841 original size:5 final size:6
Alignment explanation
Indices: 59477825--59477849 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
59477815 TTAGAGAATG
59477825 ATTTTT ATTTTT ATTTTT ATTTTT A
1 ATTTTT ATTTTT ATTTTT ATTTTT A
59477850 AAGAGACGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
ATTTTT
Found at i:59478385 original size:59 final size:57
Alignment explanation
Indices: 59478299--59478418 Score: 179
Period size: 57 Copynumber: 2.1 Consensus size: 57
59478289 ACCTTTTTCA
59478299 TATTAAAAGTTTATATAAAAATTAAATGAATTTTTTATTAAAATGATAGAATTAAATGTT
1 TATTAAAAGTTTATATAAAAATTAAATG-ATTTTTTATT-AAATGATAGAATTAAAT-TT
* * *
59478359 TATTAAAATTTTAT-TAAAAATTAAATGATTTTTTATTAAATGGTATAATTAAATTT
1 TATTAAAAGTTTATATAAAAATTAAATGATTTTTTATTAAATGATAGAATTAAATTT
59478415 TATT
1 TATT
59478419 GTTCTAAAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
56 6 0.11
57 15 0.26
58 10 0.18
59 13 0.23
60 13 0.23
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.47
Consensus pattern (57 bp):
TATTAAAAGTTTATATAAAAATTAAATGATTTTTTATTAAATGATAGAATTAAATTT
Found at i:59487209 original size:84 final size:83
Alignment explanation
Indices: 59487069--59487236 Score: 318
Period size: 84 Copynumber: 2.0 Consensus size: 83
59487059 GTGGCTTTCT
*
59487069 TCTTAAGAAAGGTTTTTTTTTCTTCTTGCAATGATTTGTATACTTCACCTGTAAAGATATGTACT
1 TCTTAAGAAAGGTTTTTTTTTCTTCTTGCAATGATTTGTATACTTCACCTGTAAAGATATCTACT
59487134 AGGTGCTTTTATCTTGTA
66 AGGTGCTTTTATCTTGTA
59487152 TCTTAAGAAAGGTTTTTTTTTTCTTCTTGCAATGATTTGTATACTTCACCTGTAAAGATATCTAC
1 TCTTAAGAAAGG-TTTTTTTTTCTTCTTGCAATGATTTGTATACTTCACCTGTAAAGATATCTAC
59487217 TAGGTGCTTTTATCTTGTA
65 TAGGTGCTTTTATCTTGTA
59487236 T
1 T
59487237 AAAGATGCCT
Statistics
Matches: 83, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
83 12 0.14
84 71 0.86
ACGTcount: A:0.24, C:0.14, G:0.15, T:0.48
Consensus pattern (83 bp):
TCTTAAGAAAGGTTTTTTTTTCTTCTTGCAATGATTTGTATACTTCACCTGTAAAGATATCTACT
AGGTGCTTTTATCTTGTA
Found at i:59495952 original size:63 final size:63
Alignment explanation
Indices: 59495874--59496073 Score: 339
Period size: 63 Copynumber: 3.2 Consensus size: 63
59495864 ATTGTAGTTT
* *
59495874 GAAAGGAAGATCATAAATTTTATTTGAATTCTGCAAGTATTTACATTTATAATGATCTTGATA
1 GAAAGGAAGATCATAAATTTTAGTTGAATTCTGCAAGTATTTACATTTATAATGTTCTTGATA
* *
59495937 GAAAGGAAGATCATAAATTTTAGTTGAATTCTGCCAGTATTTACATTTATAGTGTTGC-TGATA
1 GAAAGGAAGATCATAAATTTTAGTTGAATTCTGCAAGTATTTACATTTATAATGTT-CTTGATA
*
59496000 GAAAGGAAGATCATAAATTTTAGTTGAATTCTGCAAGTATTTACATTTATAATGTTGTTGATA
1 GAAAGGAAGATCATAAATTTTAGTTGAATTCTGCAAGTATTTACATTTATAATGTTCTTGATA
59496063 GAAAGGAAGAT
1 GAAAGGAAGAT
59496074 AATCCCAAAT
Statistics
Matches: 128, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
63 127 0.99
64 1 0.01
ACGTcount: A:0.37, C:0.07, G:0.18, T:0.38
Consensus pattern (63 bp):
GAAAGGAAGATCATAAATTTTAGTTGAATTCTGCAAGTATTTACATTTATAATGTTCTTGATA
Found at i:59499538 original size:25 final size:25
Alignment explanation
Indices: 59499509--59499593 Score: 66
Period size: 25 Copynumber: 3.2 Consensus size: 25
59499499 GAAACAATAT
59499509 AAAAGTAATTTGTATAAAAATATTC
1 AAAAGTAATTTGTATAAAAATATTC
* *
59499534 AAAAGAACTATTTATTAAATGAAACAATA-T-
1 AAAAGTA--ATTT-GT--AT-AAA-AATATTC
*
59499564 AAAAATAATTTGTATAAAAATATTC
1 AAAAGTAATTTGTATAAAAATATTC
59499589 AAAAG
1 AAAAG
59499594 AACTATTTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 18
0.65 0.09 0.26
Matches are distributed among these distances:
23 4 0.09
24 4 0.09
25 12 0.27
27 5 0.11
28 5 0.11
30 7 0.16
31 4 0.09
32 4 0.09
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (25 bp):
AAAAGTAATTTGTATAAAAATATTC
Found at i:59499563 original size:55 final size:55
Alignment explanation
Indices: 59499493--59499627 Score: 261
Period size: 55 Copynumber: 2.5 Consensus size: 55
59499483 TTCTATTTTG
*
59499493 TTAAATGAAACAATATAAAAGTAATTTGTATAAAAATATTCAAAAGAACTATTTA
1 TTAAATGAAACAATATAAAAATAATTTGTATAAAAATATTCAAAAGAACTATTTA
59499548 TTAAATGAAACAATATAAAAATAATTTGTATAAAAATATTCAAAAGAACTATTTA
1 TTAAATGAAACAATATAAAAATAATTTGTATAAAAATATTCAAAAGAACTATTTA
59499603 TTAAATGAAACAATATAAAAATAAT
1 TTAAATGAAACAATATAAAAATAAT
59499628 CAATGCATGT
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
55 79 1.00
ACGTcount: A:0.57, C:0.05, G:0.06, T:0.32
Consensus pattern (55 bp):
TTAAATGAAACAATATAAAAATAATTTGTATAAAAATATTCAAAAGAACTATTTA
Found at i:59501532 original size:12 final size:12
Alignment explanation
Indices: 59501511--59501543 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
59501501 TCTACATGCT
59501511 ATTA-TAAAAAA
1 ATTATTAAAAAA
59501522 ATTATTAAAAAA
1 ATTATTAAAAAA
59501534 ATTAATTAAA
1 ATT-ATTAAA
59501544 TTATAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 4 0.20
12 10 0.50
13 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
ATTATTAAAAAA
Found at i:59501553 original size:17 final size:18
Alignment explanation
Indices: 59501524--59501575 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
59501514 ATAAAAAAAT
*
59501524 TATTAAAAAAATTAATTAA
1 TATT-AAAAAATTAAATAA
*
59501543 -ATTATAAAATTAAATAA
1 TATTAAAAAATTAAATAA
*
59501560 TATTAAAAAATAAAAT
1 TATTAAAAAATTAAAT
59501576 TAACCCTTAC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
17 12 0.43
18 16 0.57
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
TATTAAAAAATTAAATAA
Found at i:59507448 original size:12 final size:12
Alignment explanation
Indices: 59507431--59507456 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
59507421 AACCATACAA
59507431 GTGATTAAACCG
1 GTGATTAAACCG
59507443 GTGATTAAACCG
1 GTGATTAAACCG
59507455 GT
1 GT
59507457 CAAGTCACCA
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:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (12 bp):
GTGATTAAACCG
Found at i:59512524 original size:14 final size:14
Alignment explanation
Indices: 59512505--59512534 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
59512495 CTTGTTTTTC
*
59512505 TTTTTCCTTTTCCT
1 TTTTTCCTTTACCT
59512519 TTTTTCCTTTACCT
1 TTTTTCCTTTACCT
59512533 TT
1 TT
59512535 AATCTTCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.03, C:0.27, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTTTCCTTTACCT
Found at i:59512850 original size:3 final size:3
Alignment explanation
Indices: 59512835--59512950 Score: 97
Period size: 3 Copynumber: 38.7 Consensus size: 3
59512825 AAAACACCAG
* * * * *
59512835 TCT TCT GCT TCT TCT TCT TCT TCT TCT TCT TCT TCT CCT CCT CCT CCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
* * * * * * * * * *
59512883 CCT CCT CCT CCT CCT CCT CCT CCT TCT TTT TCT TTT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
59512931 TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TC
59512951 CACTATCTGC
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 105 1.00
ACGTcount: A:0.00, C:0.42, G:0.01, T:0.57
Consensus pattern (3 bp):
TCT
Found at i:59525723 original size:2 final size:2
Alignment explanation
Indices: 59525716--59525748 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
59525706 TTTTAAATGA
59525716 AT AT AT AT 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 AT AT AT AT A
59525749 NNNNNNNNNN
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:59536203 original size:16 final size:16
Alignment explanation
Indices: 59536178--59536211 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
59536168 CCTAGAAAAT
*
59536178 TTGAATGTTACGATCC
1 TTGAAGGTTACGATCC
*
59536194 TTGAAGGTTATGATCC
1 TTGAAGGTTACGATCC
59536210 TT
1 TT
59536212 ATCAGTTGCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.15, G:0.21, T:0.41
Consensus pattern (16 bp):
TTGAAGGTTACGATCC
Found at i:59538801 original size:42 final size:42
Alignment explanation
Indices: 59538727--59538896 Score: 234
Period size: 42 Copynumber: 4.0 Consensus size: 42
59538717 TTCAGGTGCA
* **
59538727 TCTTCGGAAACAGCAGCATCATTGGT-TCCATCAGCTGCCAAT
1 TCTTCAGAAACAGCAGCATCATTGGTCT-CATCAGCCACCAAT
* *
59538769 TCTTGAGAAACAGCAGCATCATAGGTCTCATCAGCCACCAAT
1 TCTTCAGAAACAGCAGCATCATTGGTCTCATCAGCCACCAAT
* * *
59538811 TCTTCAGTAACAACAGCATCGTTGGTCTCATCAGCCACCAAT
1 TCTTCAGAAACAGCAGCATCATTGGTCTCATCAGCCACCAAT
* *
59538853 TCTTCAGATACAGCAGCATCATTGGTCTCATCAGCTACCAAT
1 TCTTCAGAAACAGCAGCATCATTGGTCTCATCAGCCACCAAT
59538895 TC
1 TC
59538897 CTCATTCGGC
Statistics
Matches: 112, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
42 111 0.99
43 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (42 bp):
TCTTCAGAAACAGCAGCATCATTGGTCTCATCAGCCACCAAT
Found at i:59544459 original size:51 final size:49
Alignment explanation
Indices: 59544400--59544519 Score: 125
Period size: 51 Copynumber: 2.4 Consensus size: 49
59544390 ATCAGCCTTA
* * **
59544400 TTAAAATTTTAAAAATTCAAAAAA-AATATAAAATTTGTTTTTAAAATTT
1 TTAAAATTTTAAAAATT-AAAAAATAATAAAAAAATACTTTTTAAAATTT
* * * *
59544449 TTAAATAATTTAAATTATTAAAAAATATTAAAAAAATACTTTTTAATATTT
1 TTAAA-ATTTTAAA-AATTAAAAAATAATAAAAAAATACTTTTTAAAATTT
59544500 TTAAAATTTTAAAAAATTAA
1 TTAAAATTTT-AAAAATTAA
59544520 TTAAATGCTA
Statistics
Matches: 57, Mismatches: 10, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
49 5 0.09
50 22 0.39
51 30 0.53
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (49 bp):
TTAAAATTTTAAAAATTAAAAAATAATAAAAAAATACTTTTTAAAATTT
Found at i:59544469 original size:17 final size:18
Alignment explanation
Indices: 59544443--59544480 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
59544433 TTTGTTTTTA
* *
59544443 AAATTTTTAAATAAT-TT
1 AAATTATTAAAAAATATT
59544460 AAATTATTAAAAAATATT
1 AAATTATTAAAAAATATT
59544478 AAA
1 AAA
59544481 AAAATACTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
AAATTATTAAAAAATATT
Found at i:59552008 original size:23 final size:25
Alignment explanation
Indices: 59551953--59552006 Score: 101
Period size: 25 Copynumber: 2.2 Consensus size: 25
59551943 CAAATTCGTC
59551953 AAAGGGAATAATTATATTCATTAAA
1 AAAGGGAATAATTATATTCATTAAA
59551978 AAAGGGAATAATTATATTC-TTAAA
1 AAAGGGAATAATTATATTCATTAAA
59552002 AAAGG
1 AAAGG
59552007 AAAAAGTGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 10 0.34
25 19 0.66
ACGTcount: A:0.52, C:0.04, G:0.15, T:0.30
Consensus pattern (25 bp):
AAAGGGAATAATTATATTCATTAAA
Found at i:59555304 original size:18 final size:16
Alignment explanation
Indices: 59555281--59555315 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
59555271 AATGACTTTG
59555281 AAAAGTATATTATAAAAT
1 AAAAGT-TATTA-AAAAT
59555299 AAAAGTTATTAAAAAT
1 AAAAGTTATTAAAAAT
59555315 A
1 A
59555316 TGTTATATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 5 0.29
18 6 0.35
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (16 bp):
AAAAGTTATTAAAAAT
Found at i:59559243 original size:23 final size:23
Alignment explanation
Indices: 59559209--59559272 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
59559199 AAGGTCAAAA
*
59559209 TATAATTTTATCATTTATTAATT
1 TATAATTTTATCATTTATTAACT
*
59559232 TATGATTTTATCAGTTT-TTAACT
1 TATAATTTTATCA-TTTATTAACT
* *
59559255 TATAATTTCATTATTTAT
1 TATAATTTTATCATTTAT
59559273 GAAAGGACTA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
22 3 0.09
23 28 0.82
24 3 0.09
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.59
Consensus pattern (23 bp):
TATAATTTTATCATTTATTAACT
Found at i:59561391 original size:40 final size:39
Alignment explanation
Indices: 59561299--59561392 Score: 100
Period size: 40 Copynumber: 2.4 Consensus size: 39
59561289 GATTATATCC
* * *
59561299 AAACGCCGCAAAAGGTAAGCAATAGCGGCGCTTCTCCTA
1 AAACGCCGCAAAAGATAAGCAATACCGGCGCTTCTCCGA
* * *
59561338 AAACGCCGTAAAAGATCAAGCATTACCGGCGCTT-TCGGGA
1 AAACGCCGCAAAAGAT-AAGCAATACCGGCGCTTCTC-CGA
*
59561378 AAAGGCCGCAAAAGA
1 AAACGCCGCAAAAGA
59561393 GTTAAGGAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
39 16 0.36
40 29 0.64
ACGTcount: A:0.36, C:0.26, G:0.24, T:0.14
Consensus pattern (39 bp):
AAACGCCGCAAAAGATAAGCAATACCGGCGCTTCTCCGA
Found at i:59561947 original size:230 final size:229
Alignment explanation
Indices: 59561654--59562274 Score: 911
Period size: 229 Copynumber: 2.7 Consensus size: 229
59561644 ATTGAGAAAT
*
59561654 GCCGCAAATAAGTTAAGCAAAACAACGTTGTTTTCTGTTGAGGTATAGGGACATTAGCGGCGCTT
1 GCCGCTAATAAGTTAAGCAAAACAACGTTGTTTTCTGTTGAGGTATAGGGACATTAGCGGCGCTT
* * * * * * * *
59561719 TCTATAAAACGCCACTAAATGTTAGGTAATAGCGGCGCACGTAAACAAACGCCGCAAAAAAGTTG
66 TTTGTAAAACGCCGCTAAAGGTTAGGTGATAGCGGCACATGTAAACAAACGCTGCAAAAAAGTTG
* * * *
59561784 ATCAAAACGGCAGCGTTTTGTTTCTTCGCTTTACTTGATTTAGTGGCGTTTTTTTAAAAACGCCT
131 ATCAAAACGGCAGCGTTTTATTTCTTCGCTTTACTTGATTTAATGGCG-ATTTTTAAAAACGCCG
59561849 CAACTTTCAGTCTTTACCGGCGCTTTTCCAAAAGC
195 CAACTTTCAGTCTTTACCGGCGCTTTTCCAAAAGC
* *
59561884 GCCGCTAGTAAGTTAAGCAAAACAACGTTGTTTTCTGTTGATGTATAGGGACATTAGCGGCGCTT
1 GCCGCTAATAAGTTAAGCAAAACAACGTTGTTTTCTGTTGAGGTATAGGGACATTAGCGGCGCTT
* * * * *
59561949 TTTGTAAAACACCGCTAACGGTTAGGTGATAGCGGCAAATGTAAACAAACGCTG-TATAAAGTTG
66 TTTGTAAAACGCCGCTAAAGGTTAGGTGATAGCGGCACATGTAAACAAACGCTGCAAAAAAGTTG
* *
59562013 ATCAAAAACGGCAGCGTTCTATTTCTTCGCTTTGCTTGATTTAATGGCGATTTTTAAAAACGCCG
131 ATC-AAAACGGCAGCGTTTTATTTCTTCGCTTTACTTGATTTAATGGCGATTTTTAAAAACGCCG
* *
59562078 CAACTTTCGGTCTTTACCGGCGCTTTTCCATAAGC
195 CAACTTTCAGTCTTTACCGGCGCTTTTCCAAAAGC
* *
59562113 GCCGTTAATAAGTTAAGCAAAACGACGTTGTTTTCTGTTGAGGTATAGGGACATTAGCGGCGCTT
1 GCCGCTAATAAGTTAAGCAAAACAACGTTGTTTTCTGTTGAGGTATAGGGACATTAGCGGCGCTT
* * * * * * *
59562178 TTTGTAAAACGTCGCTAAAGGTTAGGTGTTAGCGGTACATATAAACAAACGTTGCAAATATGTTG
66 TTTGTAAAACGCCGCTAAAGGTTAGGTGATAGCGGCACATGTAAACAAACGCTGCAAAAAAGTTG
*
59562243 ATCAAAATGGCAGCGTTTTATTTCTTCGCTTT
131 ATCAAAACGGCAGCGTTTTATTTCTTCGCTTT
59562275 GCTAATAAGT
Statistics
Matches: 347, Mismatches: 42, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
229 192 0.55
230 155 0.45
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (229 bp):
GCCGCTAATAAGTTAAGCAAAACAACGTTGTTTTCTGTTGAGGTATAGGGACATTAGCGGCGCTT
TTTGTAAAACGCCGCTAAAGGTTAGGTGATAGCGGCACATGTAAACAAACGCTGCAAAAAAGTTG
ATCAAAACGGCAGCGTTTTATTTCTTCGCTTTACTTGATTTAATGGCGATTTTTAAAAACGCCGC
AACTTTCAGTCTTTACCGGCGCTTTTCCAAAAGC
Found at i:59562760 original size:21 final size:20
Alignment explanation
Indices: 59562735--59562790 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 20
59562725 CAAGGGTTGG
*
59562735 GGTTTAAGGTTA-AGTGTTTA
1 GGTTTAAGGTTAGAGT-TTAA
59562755 GTGTTTAATGGTTAGAGTTTAA
1 G-GTTTAA-GGTTAGAGTTTAA
59562777 GGTTTAGAGGTTAG
1 GGTTTA-AGGTTAG
59562791 GGATTAAGGG
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
20 1 0.03
21 17 0.55
22 10 0.32
23 3 0.10
ACGTcount: A:0.25, C:0.00, G:0.32, T:0.43
Consensus pattern (20 bp):
GGTTTAAGGTTAGAGTTTAA
Found at i:59562905 original size:7 final size:7
Alignment explanation
Indices: 59562852--59562909 Score: 50
Period size: 7 Copynumber: 8.3 Consensus size: 7
59562842 GTTTGTGGAC
*
59562852 TAGGGAT
1 TAGGGTT
59562859 TATGGGTT
1 TA-GGGTT
*
59562867 TAGGGAT
1 TAGGGTT
59562874 T-GGTGTT
1 TAGG-GTT
59562881 TAAGGG-T
1 T-AGGGTT
59562888 TAGGG-T
1 TAGGGTT
59562894 TAGGGTT
1 TAGGGTT
59562901 TAGGGTT
1 TAGGGTT
59562908 TA
1 TA
59562910 AGTGTTTAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
6 12 0.28
7 22 0.51
8 7 0.16
9 2 0.05
ACGTcount: A:0.19, C:0.00, G:0.41, T:0.40
Consensus pattern (7 bp):
TAGGGTT
Found at i:59562905 original size:13 final size:14
Alignment explanation
Indices: 59562852--59562909 Score: 59
Period size: 15 Copynumber: 4.1 Consensus size: 14
59562842 GTTTGTGGAC
59562852 TAGGGATTATGGGTT
1 TAGGGATTA-GGGTT
59562867 TAGGGATT-GGTGTT
1 TAGGGATTAGG-GTT
59562881 TAAGGG-TTAGGG-T
1 T-AGGGATTAGGGTT
*
59562894 TAGGGTTTAGGGTT
1 TAGGGATTAGGGTT
59562908 TA
1 TA
59562910 AGTGTTTAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
12 4 0.11
13 10 0.26
14 10 0.26
15 14 0.37
ACGTcount: A:0.19, C:0.00, G:0.41, T:0.40
Consensus pattern (14 bp):
TAGGGATTAGGGTT
Found at i:59567545 original size:28 final size:28
Alignment explanation
Indices: 59567505--59567561 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
59567495 CCAACTACAA
59567505 CTTAAAGCAGATGCAACAGCGAGAGAAG
1 CTTAAAGCAGATGCAACAGCGAGAGAAG
** *
59567533 CTTAAAGCAGATGCGGCAGCGAGGGAAG
1 CTTAAAGCAGATGCAACAGCGAGAGAAG
59567561 C
1 C
59567562 AGAGGCAGCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.37, C:0.19, G:0.33, T:0.11
Consensus pattern (28 bp):
CTTAAAGCAGATGCAACAGCGAGAGAAG
Found at i:59567563 original size:21 final size:21
Alignment explanation
Indices: 59567537--59567607 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
59567527 GAGAAGCTTA
* *
59567537 AAGCAGATGCGGCAGCGAGGG
1 AAGCAGAGGCAGCAGCGAGGG
* *
59567558 AAGCAGAGGCAGCAACGAGAG
1 AAGCAGAGGCAGCAGCGAGGG
* *
59567579 AAGCAAAGGCTGCAGCGAGGG
1 AAGCAGAGGCAGCAGCGAGGG
*
59567600 AAGTAGAG
1 AAGCAGAG
59567608 CAGAGTAGAA
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.37, C:0.17, G:0.42, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCAGCAGCGAGGG
Found at i:59567987 original size:31 final size:31
Alignment explanation
Indices: 59567952--59568014 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
59567942 AAAGTCATGA
*
59567952 TCTATAGCGGCGTTTGTGGAAAAAGCGTCGC
1 TCTATAGCGGCGTTTGTGGAAAAAGCGCCGC
59567983 TCTATAGCGGCGTTTGTGGAAAAAGCGCCGC
1 TCTATAGCGGCGTTTGTGGAAAAAGCGCCGC
59568014 T
1 T
59568015 AAAGGTCATG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.22, C:0.21, G:0.32, T:0.25
Consensus pattern (31 bp):
TCTATAGCGGCGTTTGTGGAAAAAGCGCCGC
Done.