Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 35 of 189
Found at i:10801634 original size:16 final size:17
Alignment explanation
Indices: 10801606--10801637 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
10801596 TTAACTTAAG
10801606 AATGGTATAAAAAATGA
1 AATGGTATAAAAAATGA
10801623 AATGGT-TAAAAAATG
1 AATGGTATAAAAAATG
10801638 GGTTAAAGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.56, C:0.00, G:0.19, T:0.25
Consensus pattern (17 bp):
AATGGTATAAAAAATGA
Found at i:10801971 original size:3 final size:3
Alignment explanation
Indices: 10801963--10802002 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
10801953 CACCTTGTTT
10801963 TTA TTA TTA TTA TTA TTA TTA TTA TTA TGT- TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA T
10802003 GTTTTATTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 1 0.03
3 33 0.94
4 1 0.03
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:10802003 original size:12 final size:12
Alignment explanation
Indices: 10801969--10802006 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
10801959 GTTTTTATTA
10801969 TTATTATTAT-T
1 TTATTATTATGT
10801980 ATTATTATTATGT
1 -TTATTATTATGT
10801993 TTATTATTATGT
1 TTATTATTATGT
10802005 TT
1 TT
10802007 TATTTGTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 24 0.96
13 1 0.04
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.68
Consensus pattern (12 bp):
TTATTATTATGT
Found at i:10802398 original size:28 final size:27
Alignment explanation
Indices: 10802356--10802410 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 27
10802346 GCCCCCGAAC
*
10802356 TTTTTTAAAATTACATTTTAACCCCTA
1 TTTTTTAAAATTACATCTTAACCCCTA
10802383 TTTTTTAAAATATACATCTTAACCCCTA
1 TTTTTTAAAAT-TACATCTTAACCCCTA
10802411 ATAATTTGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 11 0.42
28 15 0.58
ACGTcount: A:0.35, C:0.20, G:0.00, T:0.45
Consensus pattern (27 bp):
TTTTTTAAAATTACATCTTAACCCCTA
Found at i:10802437 original size:29 final size:29
Alignment explanation
Indices: 10802405--10802466 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 29
10802395 TACATCTTAA
*
10802405 CCCCTAATAATTTGT-AAATTACATTTGGG
1 CCCCTAA-AATTTCTAAAATTACATTTGGG
* *
10802434 CCCCTAAACTTTCTAGAAATTACATTTTGG
1 CCCCTAAAATTTCTA-AAATTACATTTGGG
10802464 CCC
1 CCC
10802467 ATATTTTCCT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 5 0.18
29 7 0.25
30 16 0.57
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.35
Consensus pattern (29 bp):
CCCCTAAAATTTCTAAAATTACATTTGGG
Found at i:10808086 original size:23 final size:21
Alignment explanation
Indices: 10808056--10808109 Score: 76
Period size: 22 Copynumber: 2.6 Consensus size: 21
10808046 TTAGGAAGTA
10808056 AAAAAAAGAAAAAAACAGCAAGG
1 AAAAAAAGAAAAAAACA--AAGG
10808079 AAAAAAAG-AAAAAACAAAGG
1 AAAAAAAGAAAAAAACAAAGG
10808099 -AAAAAAGAAAA
1 AAAAAAAGAAAA
10808110 GATAGGGGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.23
20 7 0.23
22 8 0.27
23 8 0.27
ACGTcount: A:0.80, C:0.06, G:0.15, T:0.00
Consensus pattern (21 bp):
AAAAAAAGAAAAAAACAAAGG
Found at i:10808090 original size:20 final size:19
Alignment explanation
Indices: 10808057--10808109 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 19
10808047 TAGGAAGTAA
10808057 AAAAAAGAAAAAAACAGCAAGG
1 AAAAAAG-AAAAAACA--AAGG
10808079 AAAAAAAGAAAAAACAAAGG
1 -AAAAAAGAAAAAACAAAGG
10808099 AAAAAAGAAAA
1 AAAAAAGAAAA
10808110 GATAGGGGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 11 0.37
20 4 0.13
22 8 0.27
23 7 0.23
ACGTcount: A:0.79, C:0.06, G:0.15, T:0.00
Consensus pattern (19 bp):
AAAAAAGAAAAAACAAAGG
Found at i:10808246 original size:23 final size:22
Alignment explanation
Indices: 10808205--10808252 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
10808195 AACGGGGAAG
10808205 AAAGAAAGAAAGAAAAAGAGAAA
1 AAAGAAAGAAAGAAAAAGA-AAA
*
10808228 AAAGAAAG-AAGAAGGAAGAAAA
1 AAAGAAAGAAAGAA-AAAGAAAA
10808250 AAA
1 AAA
10808253 TGAGATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 11 0.48
23 12 0.52
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (22 bp):
AAAGAAAGAAAGAAAAAGAAAA
Found at i:10808694 original size:16 final size:16
Alignment explanation
Indices: 10808654--10808696 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
10808644 TTTTAAGTAT
*
10808654 TTTTATTTTGTATTTA
1 TTTTATTTTTTATTTA
* *
10808670 TGTTCTTTTTTATTTA
1 TTTTATTTTTTATTTA
10808686 TTTTATTTTTT
1 TTTTATTTTTT
10808697 TAAATTCGAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.14, C:0.02, G:0.05, T:0.79
Consensus pattern (16 bp):
TTTTATTTTTTATTTA
Found at i:10809007 original size:17 final size:17
Alignment explanation
Indices: 10808987--10809306 Score: 189
Period size: 17 Copynumber: 17.6 Consensus size: 17
10808977 AAAAAAATCT
10808987 TGTTTCAAAAATTTTCG
1 TGTTTCAAAAATTTTCG
10809004 TGTTTTCAAAAAAATTTCTCG
1 TG-TTTC--AAAAATTT-TCG
*
10809025 TGTTTCAAAAAATTCCTT-A
1 TGTTTC-AAAAATT--TTCG
* * *
10809044 TTTTTAAAAAAAATTTCG
1 TGTTT-CAAAAATTTTCG
* *
10809062 TGTTTTCAAAAATTCTCA
1 TG-TTTCAAAAATTTTCG
*
10809080 TGTTTCAAAAATCTTCG
1 TGTTTCAAAAATTTTCG
*
10809097 TGTTTTC--AAATTTCCAG
1 TG-TTTCAAAAATTTTC-G
10809114 TGTTTCAAAAATTTTCG
1 TGTTTCAAAAATTTTCG
*
10809131 TGTTTTC-AAAATTTCCCG
1 TG-TTTCAAAAATTT-TCG
**
10809149 TGTTTTCAAAAATTCCCG
1 TG-TTTCAAAAATTTTCG
* *
10809167 TATTTCAAAAATTTTCT
1 TGTTTCAAAAATTTTCG
* *
10809184 TGTTTTCAAAAAAAAATTCCG
1 TG-TTTC---AAAAATTTTCG
* *
10809205 TGTTTCATAAATTTCCG
1 TGTTTCAAAAATTTTCG
*
10809222 TGTTTTAAAAAAATTTCTCG
1 TG-TTT-CAAAAATTT-TCG
*
10809242 TCTTTCAAAAATTTTCG
1 TGTTTCAAAAATTTTCG
**
10809259 TGTTTTCAAAAAATTGACCG
1 TG-TTTC-AAAAATT-TTCG
* *
10809279 TGTTTCATAAATTTTAG
1 TGTTTCAAAAATTTTCG
10809296 TGTTTCAAAAA
1 TGTTTCAAAAA
10809307 AAAATCCTCG
Statistics
Matches: 236, Mismatches: 41, Indels: 52
0.72 0.12 0.16
Matches are distributed among these distances:
16 10 0.04
17 70 0.30
18 68 0.29
19 48 0.20
20 24 0.10
21 16 0.07
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.44
Consensus pattern (17 bp):
TGTTTCAAAAATTTTCG
Found at i:10809010 original size:18 final size:18
Alignment explanation
Indices: 10808989--10809306 Score: 208
Period size: 18 Copynumber: 17.5 Consensus size: 18
10808979 AAAAATCTTG
10808989 TTTCAAAAATTTTCGTGT
1 TTTCAAAAATTTTCGTGT
10809007 TTTCAAAAAAATTTCTCGTG-
1 TTTC--AAAAATTT-TCGTGT
* * * *
10809027 TTTCAAAAAATTCCTTATT
1 TTTCAAAAATTTTCGT-GT
* *
10809046 TTTAAAAAAAATTTCGTGT
1 TTT-CAAAAATTTTCGTGT
* *
10809065 TTTCAAAAATTCTCATG-
1 TTTCAAAAATTTTCGTGT
*
10809082 TTTCAAAAATCTTCGTGT
1 TTTCAAAAATTTTCGTGT
*
10809100 TTTC--AAATTTCCAGTG-
1 TTTCAAAAATTTTC-GTGT
10809116 TTTCAAAAATTTTCGTGT
1 TTTCAAAAATTTTCGTGT
*
10809134 TTTC-AAAATTTCCCGTGT
1 TTTCAAAAATTT-TCGTGT
** *
10809152 TTTCAAAAATTCCCGT-A
1 TTTCAAAAATTTTCGTGT
*
10809169 TTTCAAAAATTTTCTTGT
1 TTTCAAAAATTTTCGTGT
* *
10809187 TTTCAAAAAAAAATTCCGTG-
1 TTTC---AAAAATTTTCGTGT
* *
10809207 TTTCATAAATTTCCGTGT
1 TTTCAAAAATTTTCGTGT
* *
10809225 TTTAAAAAAATTTCTCGT-C
1 TTT-CAAAAATTT-TCGTGT
10809244 TTTCAAAAATTTTCGTGT
1 TTTCAAAAATTTTCGTGT
**
10809262 TTTCAAAAAATTGACCGTG-
1 TTTC-AAAAATT-TTCGTGT
* *
10809281 TTTCATAAATTTTAGTG-
1 TTTCAAAAATTTTCGTGT
10809298 TTTCAAAAA
1 TTTCAAAAA
10809307 AAAATCCTCG
Statistics
Matches: 234, Mismatches: 43, Indels: 47
0.72 0.13 0.15
Matches are distributed among these distances:
16 10 0.04
17 68 0.29
18 74 0.32
19 34 0.15
20 33 0.14
21 15 0.06
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.44
Consensus pattern (18 bp):
TTTCAAAAATTTTCGTGT
Found at i:10809097 original size:35 final size:35
Alignment explanation
Indices: 10808989--10809270 Score: 152
Period size: 35 Copynumber: 7.8 Consensus size: 35
10808979 AAAAATCTTG
* *
10808989 TTTCAAAAATTTTCGTGTTTTCAAAAAAATTTC-TCGT
1 TTTCAAAAATTCTCATGTTTTC--AAAAATTTCGT-GT
* *
10809026 GTTTCAAAAAATTCCTTAT-TTTTAAAAAAAATTTCGTGT
1 -TTTC-AAAAATT-CTCATGTTTT--CAAAAATTTCGTGT
10809065 TTTCAAAAATTCTCATG-TTTCAAAAATCTTCGTGT
1 TTTCAAAAATTCTCATGTTTTCAAAAAT-TTCGTGT
*
10809100 TTTC-AAATTTC-CA-GTGTTTCAAAAATTTTCGTGT
1 TTTCAAAAATTCTCATGT-TTTCAAAAA-TTTCGTGT
* * * * *
10809134 TTTCAAAATTTCCCGTGTTTTCAAAAATTCCCGT-A
1 TTTCAAAAATTCTCATGTTTTCAAAAATT-TCGTGT
* * *
10809169 TTTCAAAAATTTTCTTGTTTTCAAAAAAAAATTCCGTG-
1 TTTCAAAAATTCTCATGTTTTC----AAAAATTTCGTGT
* * *
10809207 TTTCATAAATT-TCCGTGTTTTAAAAAAATTTC-TCGT
1 TTTCAAAAATTCT-CATGTTTT-CAAAAATTTCGT-GT
* *
10809243 CTTTCAAAAATTTTCGTGTTTTCAAAAA
1 -TTTCAAAAATTCTCATGTTTTCAAAAA
10809271 ATTGACCGTG
Statistics
Matches: 199, Mismatches: 20, Indels: 52
0.73 0.07 0.19
Matches are distributed among these distances:
32 1 0.01
33 2 0.01
34 33 0.17
35 48 0.24
36 25 0.13
37 28 0.14
38 30 0.15
39 29 0.15
40 3 0.02
ACGTcount: A:0.33, C:0.15, G:0.09, T:0.44
Consensus pattern (35 bp):
TTTCAAAAATTCTCATGTTTTCAAAAATTTCGTGT
Found at i:10809217 original size:74 final size:72
Alignment explanation
Indices: 10808987--10809308 Score: 223
Period size: 74 Copynumber: 4.4 Consensus size: 72
10808977 AAAAAAATCT
* * * * * * * * *
10808987 TGTTTCAAAAATTTTCGTGTTTTCAAAAAAATTTCTCGTGTTTCAAAAAATTCCTTATTTTTAAA
1 TGTTTCATAAATTTCCGTGTTTT-AAAAAAATTTCCCGTATTTCAAAAATTTTCGT-GTTTT-CA
*
10809052 AAAAATTTCG
63 AAAAATTCCG
* * * ** *
10809062 TGTTTTCA-AAAATTCTCATG-TTT-CAAAAATCTTCGTGT-TTTC--AAATTTCCAGTG-TTTC
1 TG-TTTCATAAATTTC-CGTGTTTTAAAAAAAT-TTCCCGTATTTCAAAAATTTTC-GTGTTTTC
* *
10809120 AAAAATTTTCG
62 AAAAAATTCCG
* *
10809131 TGTTTTCA-AAATTTCCCGTGTTTT-CAAAAA-TTCCCGTATTTCAAAAATTTTCTTGTTTTCAA
1 TG-TTTCATAAATTT-CCGTGTTTTAAAAAAATTTCCCGTATTTCAAAAATTTTCGTGTTTTC--
10809193 AAAAAAATTCCG
62 -AAAAAATTCCG
* *
10809205 TGTTTCATAAATTTCCGTGTTTTAAAAAAATTTCTCGTCTTTCAAAAATTTTCGTGTTTTCAAAA
1 TGTTTCATAAATTTCCGTGTTTTAAAAAAATTTCCCGTATTTCAAAAATTTTCGTGTTTTCAAAA
10809270 AATTGACCG
66 AATT--CCG
** *
10809279 TGTTTCATAAATTTTAGTGTTTCAAAAAAA
1 TGTTTCATAAATTTCCGTGTTTTAAAAAAA
10809309 AATCCTCGTG
Statistics
Matches: 203, Mismatches: 26, Indels: 37
0.76 0.10 0.14
Matches are distributed among these distances:
68 5 0.02
69 30 0.15
70 15 0.07
71 18 0.09
72 9 0.04
73 24 0.12
74 57 0.28
75 37 0.18
76 8 0.04
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.43
Consensus pattern (72 bp):
TGTTTCATAAATTTCCGTGTTTTAAAAAAATTTCCCGTATTTCAAAAATTTTCGTGTTTTCAAAA
AATTCCG
Found at i:10809239 original size:56 final size:57
Alignment explanation
Indices: 10809146--10809252 Score: 137
Period size: 56 Copynumber: 1.9 Consensus size: 57
10809136 TCAAAATTTC
* * *
10809146 CCGTGTTTTCAAAAATTCCCGTATTTCAAAAATTTTCTTGT-TTTCAAAAAAAAATT
1 CCGTGTTTTCAAAAATTCCCGTATTTAAAAAAATTTCTCGTCTTTCAAAAAAAAATT
* * *
10809202 CCGTG-TTTCATAAATTTCCGTGTTTTAAAAAAATTTCTCGTCTTTCAAAAA
1 CCGTGTTTTCAAAAATTCCCGT-ATTTAAAAAAATTTCTCGTCTTTCAAAAA
10809253 TTTTCGTGTT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
55 14 0.33
56 20 0.47
57 9 0.21
ACGTcount: A:0.34, C:0.17, G:0.08, T:0.41
Consensus pattern (57 bp):
CCGTGTTTTCAAAAATTCCCGTATTTAAAAAAATTTCTCGTCTTTCAAAAAAAAATT
Found at i:10809254 original size:37 final size:37
Alignment explanation
Indices: 10808987--10809322 Score: 225
Period size: 38 Copynumber: 9.2 Consensus size: 37
10808977 AAAAAAATCT
*
10808987 TGTTTCAAAAATTTTCGTGTTTTCAAAAAAATTTCTCG
1 TGTTTCAAAAATTTCCGTGTTTT-AAAAAAATTTCTCG
* * * *
10809025 TGTTTCAAAAAATTCCTTATTTTTAAAAAAAATT-TCG
1 TGTTTCAAAAATTTCCGT-GTTTTAAAAAAATTTCTCG
* * *
10809062 TGTTTTCAAAAA-TTCTCATG-TTT-CAAAAATCT-TCG
1 TG-TTTCAAAAATTTC-CGTGTTTTAAAAAAATTTCTCG
*
10809097 TGTTTTC--AAATTTCCAGTG-TTT-CAAAAATTT-TCG
1 TG-TTTCAAAAATTTCC-GTGTTTTAAAAAAATTTCTCG
* *
10809131 TGTTTTC-AAAATTTCCCGTGTTTT-CAAAAA-TTCCCG
1 TG-TTTCAAAAATTT-CCGTGTTTTAAAAAAATTTCTCG
* * * *
10809167 TATTTCAAAAATTTTCTTGTTTTCAAAAAAAAATTC-CG
1 TGTTTCAAAAATTTCCGTGTTTT--AAAAAAATTTCTCG
*
10809205 TGTTTCATAAATTTCCGTGTTTTAAAAAAATTTCTCG
1 TGTTTCAAAAATTTCCGTGTTTTAAAAAAATTTCTCG
* * * *
10809242 TCTTTCAAAAATTTTCGTGTTTTCAAAAAATTGAC-CG
1 TGTTTCAAAAATTTCCGTGTTTTAAAAAAATT-TCTCG
* ** * * *
10809279 TGTTTCATAAATTTTAGTGTTTCAAAAAAAAATCCTCG
1 TGTTTCAAAAATTTCCGTGTTT-TAAAAAAATTTCTCG
10809317 TGTTTC
1 TGTTTC
10809323 GTTTTTATCA
Statistics
Matches: 246, Mismatches: 34, Indels: 36
0.78 0.11 0.11
Matches are distributed among these distances:
33 4 0.02
34 26 0.11
35 38 0.15
36 34 0.14
37 60 0.24
38 77 0.31
39 7 0.03
ACGTcount: A:0.32, C:0.15, G:0.10, T:0.43
Consensus pattern (37 bp):
TGTTTCAAAAATTTCCGTGTTTTAAAAAAATTTCTCG
Found at i:10809317 original size:75 final size:73
Alignment explanation
Indices: 10808987--10809322 Score: 210
Period size: 75 Copynumber: 4.6 Consensus size: 73
10808977 AAAAAAATCT
* * * * * * * * *
10808987 TGTTTCAAAAATTTTC-GTGTTTTCAAAAAAATTTCTCGTGTTTCAAAAAATTCCTTATTTTTAA
1 TGTTTCATAAA-TTTCAGTG-TTTAAAAAAAATTCCTCGTATTTCAAAAATTTTCGT-GTTTTCA
*
10809051 AAAAAATTTCG
63 AAAAAATTCCG
* * ** * *
10809062 TGTTTTCAAAAATTCTCA-TGTTTCAAAAATCTTCGT-GT-TTTC--AAATTTCCAGTG-TTTC-
1 TG-TTTCATAAATT-TCAGTGTTTAAAAAAAATTCCTCGTATTTCAAAAATTTTC-GTGTTTTCA
* *
10809120 AAAAATTTTCG
63 AAAAAATTCCG
* ** *
10809131 TGTTTTCA-AAATTTCCCGTGTTT-TCAAAAATTCC-CGTATTTCAAAAATTTTCTTGTTTTCAA
1 TG-TTTCATAAATTT-CAGTGTTTAAAAAAAATTCCTCGTATTTCAAAAATTTTCGTGTTTTC--
10809193 AAAAAAATTCCG
62 AAAAAAATTCCG
* * * *
10809205 TGTTTCATAAATTTCCGTGTTTTAAAAAAATTTCTCGTCTTTCAAAAATTTTCGTGTTTTC-AAA
1 TGTTTCATAAATTTCAGTGTTTAAAAAAAATTCCTCGTATTTCAAAAATTTTCGTGTTTTCAAAA
10809269 AAATTGACCG
66 AAATT--CCG
* * *
10809279 TGTTTCATAAATTTTAGTGTTTCAAAAAAAAATCCTCGTGTTTC
1 TGTTTCATAAATTTCAGTGTTT-AAAAAAAATTCCTCGTATTTC
10809323 GTTTTTATCA
Statistics
Matches: 211, Mismatches: 30, Indels: 40
0.75 0.11 0.14
Matches are distributed among these distances:
67 1 0.00
68 14 0.07
69 27 0.13
70 5 0.02
71 18 0.09
72 9 0.04
73 17 0.08
74 50 0.24
75 57 0.27
76 13 0.06
ACGTcount: A:0.32, C:0.15, G:0.10, T:0.43
Consensus pattern (73 bp):
TGTTTCATAAATTTCAGTGTTTAAAAAAAATTCCTCGTATTTCAAAAATTTTCGTGTTTTCAAAA
AAATTCCG
Found at i:10809361 original size:21 final size:20
Alignment explanation
Indices: 10809332--10809373 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
10809322 CGTTTTTATC
*
10809332 AAAATTTTTATGTTTTCAAAA
1 AAAAATTTTATGTTTT-AAAA
*
10809353 AAAAATTTTGTGTTTTAAAA
1 AAAAATTTTATGTTTTAAAA
10809373 A
1 A
10809374 TTTTCGTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.45
Consensus pattern (20 bp):
AAAAATTTTATGTTTTAAAA
Found at i:10809374 original size:16 final size:17
Alignment explanation
Indices: 10809353--10809384 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
10809343 GTTTTCAAAA
10809353 AAAAATTTT-GTGTTTT
1 AAAAATTTTCGTGTTTT
10809369 AAAAATTTTCGTGTTT
1 AAAAATTTTCGTGTTT
10809385 CAACAAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.31, C:0.03, G:0.12, T:0.53
Consensus pattern (17 bp):
AAAAATTTTCGTGTTTT
Found at i:10809377 original size:38 final size:38
Alignment explanation
Indices: 10809332--10809411 Score: 92
Period size: 38 Copynumber: 2.1 Consensus size: 38
10809322 CGTTTTTATC
* *
10809332 AAAATTTTTATGTTTTCAA-AAAAAAATTTTGTGTTTT-A
1 AAAATTTTCATG-TTTCAACAAAAAAA-TTCGTGTTTTCA
* *
10809370 AAAATTTTCGTGTTTCAACAAGAAAATTCGTGTTTTCA
1 AAAATTTTCATGTTTCAACAAAAAAATTCGTGTTTTCA
10809408 AAAA
1 AAAA
10809412 AAAATTGTGT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
37 15 0.42
38 21 0.58
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.42
Consensus pattern (38 bp):
AAAATTTTCATGTTTCAACAAAAAAATTCGTGTTTTCA
Found at i:10809401 original size:20 final size:19
Alignment explanation
Indices: 10809345--10809426 Score: 71
Period size: 20 Copynumber: 4.3 Consensus size: 19
10809335 ATTTTTATGT
*
10809345 TTTCAAAAAAAAATTTTGTG
1 TTTCAAAAAAAAA-TTCGTG
* **
10809365 TTT--TAAAAATTTTCGTG
1 TTTCAAAAAAAAATTCGTG
*
10809382 TTTCAACAAGAAAATTCGTG
1 TTTCAA-AAAAAAATTCGTG
10809402 TTTTCAAAAAAAAATT-GTG
1 -TTTCAAAAAAAAATTCGTG
10809421 TTTCAA
1 TTTCAA
10809427 TAATTCTGGT
Statistics
Matches: 49, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
17 8 0.16
18 11 0.22
19 3 0.06
20 21 0.43
21 6 0.12
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (19 bp):
TTTCAAAAAAAAATTCGTG
Found at i:10809512 original size:36 final size:34
Alignment explanation
Indices: 10809456--10809546 Score: 105
Period size: 35 Copynumber: 2.6 Consensus size: 34
10809446 GGTACTTCTT
10809456 AAAAAAA-TCGTGTTTCAAAATTTTCATGT-TTTAA
1 AAAAAAATTCGTGTTTCAAAA--TTCATGTATTTAA
* * *
10809490 AAAAAAATTAGTGTTTCTAAAATTCTTGTATTTTA
1 AAAAAAATTCGTGTTTC-AAAATTCATGTATTTAA
10809525 AAAAAAATTCGTGTTTTCAAAA
1 AAAAAAATTCGTG-TTTCAAAA
10809547 AAAGAAAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
34 13 0.27
35 28 0.57
36 8 0.16
ACGTcount: A:0.43, C:0.08, G:0.09, T:0.41
Consensus pattern (34 bp):
AAAAAAATTCGTGTTTCAAAATTCATGTATTTAA
Found at i:10809533 original size:20 final size:19
Alignment explanation
Indices: 10809508--10809549 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
10809498 TAGTGTTTCT
* *
10809508 AAAATTCTTGTATTTTAAAA
1 AAAATTCGTGT-TTTCAAAA
10809528 AAAATTCGTGTTTTCAAAA
1 AAAATTCGTGTTTTCAAAA
10809547 AAA
1 AAA
10809550 GAAAAAATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.38
Consensus pattern (19 bp):
AAAATTCGTGTTTTCAAAA
Found at i:10813817 original size:9 final size:9
Alignment explanation
Indices: 10813803--10813833 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
10813793 GTTAAACGAA
10813803 TCGAGTTAT
1 TCGAGTTAT
*
10813812 TCGAGTTAA
1 TCGAGTTAT
10813821 TCGAGTTAT
1 TCGAGTTAT
10813830 TCGA
1 TCGA
10813834 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:10813916 original size:9 final size:9
Alignment explanation
Indices: 10813887--10813923 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
10813877 TGAGTTTTCG
10813887 AATTCGAAT
1 AATTCGAAT
*
10813896 AACTCGAAT
1 AATTCGAAT
10813905 AATTCGAAT
1 AATTCGAAT
*
10813914 AATTTGAAT
1 AATTCGAAT
10813923 A
1 A
10813924 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:10822868 original size:78 final size:78
Alignment explanation
Indices: 10822693--10823235 Score: 670
Period size: 78 Copynumber: 7.0 Consensus size: 78
10822683 TTTTAAAATC
* * * * *
10822693 AATCAACTCATAATGCAAGAGGTGAGTTGAGCCTCGGGTCGCATGCCGAGGTATTCTTTTCAATT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTA-T-TTTTCAATT
* **
10822758 TTTACTTTTCAAAAA
64 TCTGTTTTTCAAAAA
* **
10822773 AATCAACTCATATTGCGAGAGGTGAGTTGGGCCTCGGGTCGTACGCTGAGGTATTTTTCAATTTC
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTTCAATTTC
10822838 TGTTTTTCAAAAA
66 TGTTTTTCAAAAA
* * *
10822851 AATCAACTCATAATGCGAGAGTTGAGTTGAGCCTCGGATCACACGCTGAGGTATTTTTCAATTTC
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTTCAATTTC
10822916 TGTTTTTCAAAAA
66 TGTTTTTCAAAAA
* * *
10822929 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTTACACACTGAGGTATTTTTTAAATTT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTA-TTTTTCAATTT
*
10822994 TTGTTTTTC--AAA
65 CTGTTTTTCAAAAA
* * *
10823006 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCACACTGAGGTATTTCTTTTAAAT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTA--T-TTTTCAAT
10823071 TTCTG-TTTTC--AAA
63 TTCTGTTTTTCAAAAA
* *
10823084 AATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGT--CACG-TCGAGGTATTTTTCAATTT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCT-GAGGTATTTTTCAATTT
* *
10823146 TTGGTTTTCAAAAA
65 CTGTTTTTCAAAAA
* * * * * * *
10823160 AATCAACTTATATAGCGAGAGGTGAATTGAGCCTTGGGTCATATGCCGAGGTATTTTTCAATTTC
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTTCAATTTC
*
10823225 TATTTTTCAAA
66 TGTTTTTCAAA
10823236 GGTCAACTCA
Statistics
Matches: 411, Mismatches: 42, Indels: 22
0.87 0.09 0.05
Matches are distributed among these distances:
73 11 0.03
74 6 0.01
75 1 0.00
76 45 0.11
77 54 0.13
78 216 0.53
79 31 0.08
80 47 0.11
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.35
Consensus pattern (78 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTTCAATTTC
TGTTTTTCAAAAA
Found at i:10823094 original size:233 final size:230
Alignment explanation
Indices: 10822693--10823247 Score: 733
Period size: 233 Copynumber: 2.4 Consensus size: 230
10822683 TTTTAAAATC
* * *
10822693 AATCAACTCATAATGCAAGAGGTGAGTTGAGCCTCGGGTCGCATGCCGAGGTATTCTTTTCAATT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATT-TTTTCAATT
* * * *
10822758 TTTACTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGGGCCTCGGGTCGTACGCTGAG
65 TTTATTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCACACTGAG
* *
10822823 GTATTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCGAGAGTTGAGTTGAGCCTCG-
128 GTATTTTTAAATTTCTGTTTTTC-AAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGA
*
10822887 GATCACACG-CTGAGGTATTTTTCAATTTCTGTTTTTCAAAAA
192 G-T--CACGTC-GAGGTATTTTTCAATTTCTGGTTTTCAAAAA
* ** * *
10822929 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTTACACACTGAGGTATTTTTTAAATTT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTTCAATTT
*
10822994 TTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCACACTGAGGTA
66 TTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCACACTGAGGTA
* *
10823059 TTTCTTTTAAATTTCTG-TTTTC-AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAG
131 --T-TTTTAAATTTCTGTTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGAG
*
10823122 TCACGTCGAGGTATTTTTCAATTTTTGGTTTTCAAAAA
193 TCACGTCGAGGTATTTTTCAATTTCTGGTTTTCAAAAA
* * * * *
10823160 AATCAACTTATATAGCGAGAGGTGAATTGAGCCTTGGGTCATATGCCGAGGTA-TTTTTCAATTT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTTCAATTT
* **
10823224 CTATTTTTCAAAGGTCAACTCATA
66 TTATTTTTCAAAAATCAACTCATA
10823248 ATTTGAGAAG
Statistics
Matches: 281, Mismatches: 33, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
230 30 0.11
231 77 0.27
232 1 0.00
233 90 0.32
234 1 0.00
235 22 0.08
236 60 0.21
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.35
Consensus pattern (230 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTTCAATTT
TTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCACACTGAGGTA
TTTTTAAATTTCTGTTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGAGTCA
CGTCGAGGTATTTTTCAATTTCTGGTTTTCAAAAA
Found at i:10823103 original size:155 final size:153
Alignment explanation
Indices: 10822676--10823235 Score: 645
Period size: 155 Copynumber: 3.6 Consensus size: 153
10822666 TCAATTTCTG
* * * *
10822676 TTTTT-TTTTTTAAAATCAATCAACTCATAATGCAAGAGGTGAGTTGAGCCTCGGGTCGCATGCC
1 TTTTTGTTTTTCAAAA--AATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCT
* * *
10822740 GAGGTATTCTTTTCAATTTTTACTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGGGC
64 GAGGTATTCTTTTCAATTTCT-GTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
10822805 CTCGGG-TCGTACGCTGAGGTATTTTTCAA
127 CTCGGGTTC--AC-CTGAGGTATTTTTCAA
* * * *
10822834 TTTCTGTTTTTCAAAAAAATCAACTCATAATGCGAGAGTTGAGTTGAGCCTCGGATCACACGCTG
1 TTTTTGTTTTTC-AAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTG
10822899 AGGTA-T-TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
65 AGGTATTCTTTTCAATTTCTG-TTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
*
10822962 TCGGGTTACACACTGAGGTATTTTTTAAA
128 TCGGGTT-CAC-CTGAGGTA-TTTTTCAA
* *
10822991 TTTTTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCACACTGA
1 TTTTTGTTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGA
* *
10823055 GGTATTTCTTTTAAATTTCTGTTTTC-AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTC
66 GGTA-TTCTTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
* *
10823119 GAG-TCACGTCGAGGTATTTTTCAA
130 GGGTTCACCT-GAGGTATTTTTCAA
* * * * ** * *
10823143 TTTTTGGTTTTCAAAAAAATCAACTTAT-ATAGCGAGAGGTGAATTGAGCCTTGGGTCATATGCC
1 TTTTTGTTTTTC-AAAAAATCAACTCATAAT-GCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCT
*
10823207 GAGGTA-T-TTTTCAATTTCTATTTTTCAAA
64 GAGGTATTCTTTTCAATTTCT-GTTTTCAAA
10823236 GGTCAACTCA
Statistics
Matches: 351, Mismatches: 36, Indels: 35
0.83 0.09 0.08
Matches are distributed among these distances:
151 11 0.03
152 25 0.07
153 12 0.03
154 46 0.13
155 90 0.26
156 68 0.19
157 26 0.07
158 64 0.18
159 5 0.01
160 4 0.01
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.36
Consensus pattern (153 bp):
TTTTTGTTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGA
GGTATTCTTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
GGTTCACCTGAGGTATTTTTCAA
Found at i:10823324 original size:13 final size:13
Alignment explanation
Indices: 10823306--10823330 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10823296 TTTAGGCTTT
10823306 CAAAAAATATAAA
1 CAAAAAATATAAA
10823319 CAAAAAATATAA
1 CAAAAAATATAA
10823331 TAATTTTGGA
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:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (13 bp):
CAAAAAATATAAA
Found at i:10824228 original size:4 final size:4
Alignment explanation
Indices: 10824219--10824256 Score: 53
Period size: 4 Copynumber: 9.8 Consensus size: 4
10824209 GGCTGAACGG
10824219 GAAA GAAA GAAA GAAA GAAA -AAGA GAAA -AAA GAAA GAA
1 GAAA GAAA GAAA GAAA GAAA GAA-A GAAA GAAA GAAA GAA
10824257 GAAGGAAGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
3 5 0.16
4 24 0.77
5 2 0.06
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:10824275 original size:26 final size:26
Alignment explanation
Indices: 10824220--10824292 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 26
10824210 GCTGAACGGG
10824220 AAAGAAAGAAAGAAAGAAAAAGAGAAA
1 AAAGAAAG-AAGAAAGAAAAAGAGAAA
* *
10824247 AAAGAAAGAAGAAGGAAGAAG-GAAGA
1 AAAGAAAGAAGAAAGAAAAAGAGAA-A
* * *
10824273 AAAAAAAGGAGAAAAAAAAA
1 AAAGAAAGAAGAAAGAAAAA
10824293 CTAATAGTCC
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
25 3 0.08
26 27 0.71
27 8 0.21
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (26 bp):
AAAGAAAGAAGAAAGAAAAAGAGAAA
Found at i:10824287 original size:12 final size:13
Alignment explanation
Indices: 10824224--10824291 Score: 52
Period size: 12 Copynumber: 5.2 Consensus size: 13
10824214 AACGGGAAAG
*
10824224 AAAGAAAGAAAGAA
1 AAAGGAAGAAA-AA
10824238 AAA-G-AGAAAAA
1 AAAGGAAGAAAAA
* *
10824249 AGAAAGAAGAAGGAA
1 A-AAGGAAGAA-AAA
*
10824264 GAAGGAAGAAAAA
1 AAAGGAAGAAAAA
10824277 AAAGG-AGAAAAA
1 AAAGGAAGAAAAA
10824289 AAA
1 AAA
10824292 ACTAATAGTC
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
11 3 0.07
12 17 0.39
13 7 0.16
14 15 0.34
15 2 0.05
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (13 bp):
AAAGGAAGAAAAA
Found at i:10825033 original size:18 final size:18
Alignment explanation
Indices: 10825007--10825329 Score: 168
Period size: 17 Copynumber: 17.8 Consensus size: 18
10824997 TAAAAAAAAA
10825007 TCGTG-TTTCAAAAATTT
1 TCGTGTTTTCAAAAATTT
10825024 TCGTGTTTTCAAAATAATTT
1 TCGTGTTTTC-AAA-AATTT
10825044 CTCGTG-TTTCAAAAAATTCCT
1 -TCGTGTTTTC-AAAAATT--T
* * *
10825065 T-GTTTTTTAAAAAAATT
1 TCGTGTTTTCAAAAATTT
* *
10825082 TCGAGTTTTCAAAAATTC
1 TCGTGTTTTCAAAAATTT
* *
10825100 TCATG-TTTCAAAAATCT
1 TCGTGTTTTCAAAAATTT
10825117 TCGTGTTTTC-AAAA-TT
1 TCGTGTTTTCAAAAATTT
* *
10825133 CCAGTG-TGTCAAAAATTT
1 TC-GTGTTTTCAAAAATTT
* *
10825151 TTGTGTTTTC-AAGATTT
1 TCGTGTTTTCAAAAATTT
* * *
10825168 CCTGTGTTTTCAAATATTC
1 TC-GTGTTTTCAAAAATTT
* *
10825187 TCGTATTTT-GAAAATTT
1 TCGTGTTTTCAAAAATTT
* *
10825204 TCTTGTTTTAAAAAAAAATTT
1 TCGTGTTTT---CAAAAATTT
*
10825225 TCCGTG-TTTCATAAATTT
1 T-CGTGTTTTCAAAAATTT
* * *
10825243 CCGTGTTTTAAAAAAAATT
1 TCGTGTTTT-CAAAAATTT
*
10825262 TCGT-CTTTCAAAAATTT
1 TCGTGTTTTCAAAAATTT
* *
10825279 TCGTGTTTTTAAAAAATTGA
1 TCGTG-TTTTCAAAAATT-T
* * *
10825299 CCATG-TTTCATAAATTT
1 TCGTGTTTTCAAAAATTT
10825316 TCGTG-TTTCAAAAA
1 TCGTGTTTTCAAAAA
10825330 AAATCCTCGT
Statistics
Matches: 227, Mismatches: 54, Indels: 50
0.69 0.16 0.15
Matches are distributed among these distances:
16 5 0.02
17 79 0.35
18 63 0.28
19 40 0.18
20 20 0.09
21 17 0.07
22 3 0.01
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.46
Consensus pattern (18 bp):
TCGTGTTTTCAAAAATTT
Found at i:10825308 original size:37 final size:36
Alignment explanation
Indices: 10824996--10825344 Score: 153
Period size: 38 Copynumber: 9.6 Consensus size: 36
10824986 ACAGTACTTC
*
10824996 TTAAAAAAAAAT-CGTGTTTCAAAAATTTTCGTGTT
1 TTAAAAAAAATTCCGTGTTTCAAAAATTTTCGTGTT
* * * * *
10825031 TTCAAAATAATTTCTCGTGTTTCAAAAAATTCCTTGTTT
1 TT-AAAAAAAATTC-CGTGTTTCAAAAATTTTCGTG-TT
* * * * *
10825070 TTTAAAAAAATTTCGAGTTTTCAAAAATTCTCATG-T
1 TTAAAAAAAATTCCGTG-TTTCAAAAATTTTCGTGTT
* ** *
10825106 TTCAAAAATCTT-CGTGTTTTC-AAAA-TTCCAGTG-T
1 TTAAAAAAAATTCCGTG-TTTCAAAAATTTTC-GTGTT
* * * ** * *
10825140 GT-CAAAAATTTTTGTGTTTTC-AAGATTTCCTGTGTT
1 TTAAAAAAAATTCCGTG-TTTCAAAAATTTTC-GTGTT
* * * ** *
10825176 TT--CAAATATTCTCGTATTTTGAAAATTTTCTTGTT
1 TTAAAAAAAATTC-CGTGTTTCAAAAATTTTCGTGTT
* *
10825211 TTAAAAAAAAATTTTCCGTGTTTCATAAATTTCCGTGTT
1 TT-AAAAAAAA--TTCCGTGTTTCAAAAATTTTCGTGTT
* *
10825250 TTAAAAAAAATTTCGTCTTTCAAAAATTTTCGTGTT
1 TTAAAAAAAATTCCGTGTTTCAAAAATTTTCGTGTT
* * *
10825286 TT-TAAAAAATTGACCATGTTTCATAAATTTTCGTGTT
1 TTAAAAAAAATT--CCGTGTTTCAAAAATTTTCGTGTT
* *
10825323 TCAAAAAAAATCCTCGTGTTTC
1 TTAAAAAAAATTC-CGTGTTTC
10825345 GTTTTTTATC
Statistics
Matches: 233, Mismatches: 61, Indels: 38
0.70 0.18 0.11
Matches are distributed among these distances:
33 8 0.03
34 19 0.08
35 39 0.17
36 53 0.23
37 31 0.13
38 57 0.24
39 23 0.10
40 3 0.01
ACGTcount: A:0.32, C:0.13, G:0.10, T:0.44
Consensus pattern (36 bp):
TTAAAAAAAATTCCGTGTTTCAAAAATTTTCGTGTT
Found at i:10825381 original size:21 final size:20
Alignment explanation
Indices: 10825357--10825396 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
10825347 TTTTTATCAA
10825357 AAATTTTATGTTTTCAAAAAC
1 AAATTTTATGTTTT-AAAAAC
*
10825378 AAATTTTGTGTTTTAAAAA
1 AAATTTTATGTTTTAAAAA
10825397 TTTTCGTGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.45
Consensus pattern (20 bp):
AAATTTTATGTTTTAAAAAC
Found at i:10825438 original size:20 final size:19
Alignment explanation
Indices: 10825410--10825453 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
10825400 TCGTGTCTCG
*
10825410 AAAAGAAAATTCATGTTTTC
1 AAAAAAAAATTCATG-TTTC
*
10825430 AAAAAAAAATTCGTGTTTC
1 AAAAAAAAATTCATGTTTC
10825449 AAAAA
1 AAAAA
10825454 TTCTCGTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.52, C:0.09, G:0.09, T:0.30
Consensus pattern (19 bp):
AAAAAAAAATTCATGTTTC
Found at i:10825553 original size:35 final size:35
Alignment explanation
Indices: 10825475--10825572 Score: 112
Period size: 36 Copynumber: 2.7 Consensus size: 35
10825465 AATACGGTAC
* *
10825475 TTTTTAAAAAAA-TTGTGTTTCAAAATTTTCGTGT
1 TTTTAAAAAAAATTTGTGTTTCAAAATTTTCGTGA
10825509 TTTTAAAAAAAAATTTGTGTTTCTAAAATTCTT-GT-A
1 TTTT-AAAAAAAATTTGTGTTTC-AAAATT-TTCGTGA
10825545 TTTTAAAAAAAATTTCGTGTTTTCAAAA
1 TTTTAAAAAAAATTT-GTG-TTTCAAAA
10825573 AAAGAAAAAG
Statistics
Matches: 56, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
34 4 0.07
35 18 0.32
36 20 0.36
37 12 0.21
38 2 0.04
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (35 bp):
TTTTAAAAAAAATTTGTGTTTCAAAATTTTCGTGA
Found at i:10825572 original size:20 final size:20
Alignment explanation
Indices: 10825496--10825575 Score: 55
Period size: 20 Copynumber: 4.2 Consensus size: 20
10825486 ATTGTGTTTC
* *
10825496 AAAATTTTCGTGTTTTTAAAA
1 AAAAATTTCGTG-TTTTCAAA
10825517 AAAAATTT-GTG-TTTC---
1 AAAAATTTCGTGTTTTCAAA
* * *
10825532 TAAAA-TTCTTGTATTTTAAA
1 AAAAATTTCGTGT-TTTCAAA
10825552 AAAAATTTCGTGTTTTCAAA
1 AAAAATTTCGTGTTTTCAAA
10825572 AAAA
1 AAAA
10825576 GAAAAAGTTG
Statistics
Matches: 44, Mismatches: 8, Indels: 15
0.66 0.12 0.22
Matches are distributed among these distances:
14 2 0.05
15 6 0.14
17 3 0.07
18 3 0.07
20 17 0.39
21 13 0.30
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (20 bp):
AAAAATTTCGTGTTTTCAAA
Found at i:10826762 original size:40 final size:41
Alignment explanation
Indices: 10826678--10826763 Score: 104
Period size: 40 Copynumber: 2.1 Consensus size: 41
10826668 TTCAACTATA
* *
10826678 GATTTTTGCTAATTTGGTTGCATATAAATTGACGAACAATT
1 GATTTTTGCTAATTTGGTTGCATATAAATTGACAAACAACT
* * *
10826719 GATTTTTGCTAATTTTG-TGCATATAAGTTG-CTAAACTACT
1 GATTTTTGCTAATTTGGTTGCATATAAATTGAC-AAACAACT
10826759 GATTT
1 GATTT
10826764 CCCAGATAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
39 1 0.03
40 22 0.56
41 16 0.41
ACGTcount: A:0.29, C:0.10, G:0.16, T:0.44
Consensus pattern (41 bp):
GATTTTTGCTAATTTGGTTGCATATAAATTGACAAACAACT
Found at i:10839071 original size:17 final size:18
Alignment explanation
Indices: 10839034--10839073 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
10839024 TATTGTTTAA
**
10839034 AAAATATTATGAAAATTT
1 AAAATATTATGAAAAACT
10839052 AAAATATT-TGAAAAACT
1 AAAATATTATGAAAAACT
10839069 AAAAT
1 AAAAT
10839074 TAATTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.33
Consensus pattern (18 bp):
AAAATATTATGAAAAACT
Found at i:10840093 original size:9 final size:9
Alignment explanation
Indices: 10840079--10840115 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
10840069 TATAGTTTGA
10840079 TATTCGAAT
1 TATTCGAAT
10840088 TATTCGAAT
1 TATTCGAAT
*
10840097 TATTCGAGT
1 TATTCGAAT
10840106 TATTCGAAT
1 TATTCGAAT
10840115 T
1 T
10840116 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:10846369 original size:49 final size:51
Alignment explanation
Indices: 10846297--10846409 Score: 151
Period size: 49 Copynumber: 2.3 Consensus size: 51
10846287 GTACATGTAT
* * * *
10846297 GCTCATAAGAGCT-ATGAATCGGTATGCTTTCACGAGCAGTGAATCGG-AA
1 GCTCATACGAGCTGATGAATCGGTAAGCTCTCACGAGCAGTAAATCGGTAA
* *
10846346 GCTCATACGAGCTGA-GAATCGGTAAGCTCTCACGAGCTGTAAATTGGTAA
1 GCTCATACGAGCTGATGAATCGGTAAGCTCTCACGAGCAGTAAATCGGTAA
10846396 GCTCATACGAGCTG
1 GCTCATACGAGCTG
10846410 TGGTGTGTCC
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
49 39 0.70
50 17 0.30
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (51 bp):
GCTCATACGAGCTGATGAATCGGTAAGCTCTCACGAGCAGTAAATCGGTAA
Found at i:10846409 original size:25 final size:26
Alignment explanation
Indices: 10846297--10846410 Score: 107
Period size: 25 Copynumber: 4.6 Consensus size: 26
10846287 GTACATGTAT
* * *
10846297 GCTCATAAGAGCTAT-GAATCGGTAT
1 GCTCATACGAGCTGTAGAATCGGTAA
* *
10846322 GCT-TTCACGAGCAGT-GAATCGG-AA
1 GCTCAT-ACGAGCTGTAGAATCGGTAA
10846346 GCTCATACGAGCTG-AGAATCGGTAA
1 GCTCATACGAGCTGTAGAATCGGTAA
*
10846371 GCTC-TCACGAGCTGTA-AATTGGTAA
1 GCTCAT-ACGAGCTGTAGAATCGGTAA
10846396 GCTCATACGAGCTGT
1 GCTCATACGAGCTGT
10846411 GGTGTGTCCG
Statistics
Matches: 74, Mismatches: 8, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
24 20 0.27
25 52 0.70
26 2 0.03
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (26 bp):
GCTCATACGAGCTGTAGAATCGGTAA
Found at i:10850132 original size:41 final size:41
Alignment explanation
Indices: 10850087--10850231 Score: 202
Period size: 41 Copynumber: 3.5 Consensus size: 41
10850077 GGCTCGATGC
** * * * *
10850087 CTAGCAGATTTAATGCCGGTGAATTATTTCAGACTTTATGT
1 CTAGCAGGCTTAAGGCCGGTGAAATAATTCAGACTTTAAGT
* *
10850128 CTAGCAGGCTTAAGGTCGGTGAAAGAATTCAGACTTTAAGT
1 CTAGCAGGCTTAAGGCCGGTGAAATAATTCAGACTTTAAGT
10850169 CTAGCAGGCTTAAGGCCGGTGAAATAATTCAGACTTTAAGT
1 CTAGCAGGCTTAAGGCCGGTGAAATAATTCAGACTTTAAGT
10850210 CTAGCAGGC-TAAGTGCCGGTGA
1 CTAGCAGGCTTAAG-GCCGGTGA
10850232 TCTGAATCAG
Statistics
Matches: 93, Mismatches: 10, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
40 4 0.04
41 89 0.96
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.29
Consensus pattern (41 bp):
CTAGCAGGCTTAAGGCCGGTGAAATAATTCAGACTTTAAGT
Found at i:10850230 original size:82 final size:81
Alignment explanation
Indices: 10850086--10850314 Score: 223
Period size: 82 Copynumber: 2.8 Consensus size: 81
10850076 AGGCTCGATG
** * * * * *
10850086 CCTAGCAGATTTAATGCCGGTGAATTATTTCAGACTTTATGTCTAGCAGGCTTAAG-GTCGGTGA
1 CCTAGCAGGCTTAAGGCCGGTGAAATAATTCAGACTTTAAGTCTAGCAGGC-TAAGTGCCGGTGA
*
10850150 AAGAATTCAGACTT-TAAG
65 AAGAA-TCAG-CTTATAAA
*
10850168 TCTAGCAGGCTTAAGGCCGGTGAAATAATTCAGACTTTAAGTCTAGCAGGCTAAGTGCCGGTGAT
1 CCTAGCAGGCTTAAGGCCGGTGAAATAATTCAGACTTTAAGTCTAGCAGGCTAAGTGCCGGTGA-
** *
10850233 CTGAATCAGGTTATAAA
65 AAGAATCAGCTTATAAA
** * * *
10850250 CCTAGCAGGC-TAAGTGCCGGTGATCTGAA-TCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTG
1 CCTAGCAGGCTTAAG-GCCGGTGAAAT-AATTCAGACTTTAAGTCTAGCAGGCTAAGTGCCGGTG
10850313 AA
64 AA
10850315 TATGTTAAAT
Statistics
Matches: 123, Mismatches: 19, Indels: 11
0.80 0.12 0.07
Matches are distributed among these distances:
81 10 0.08
82 108 0.88
83 5 0.04
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (81 bp):
CCTAGCAGGCTTAAGGCCGGTGAAATAATTCAGACTTTAAGTCTAGCAGGCTAAGTGCCGGTGAA
AGAATCAGCTTATAAA
Found at i:10850255 original size:41 final size:41
Alignment explanation
Indices: 10850210--10850313 Score: 190
Period size: 41 Copynumber: 2.5 Consensus size: 41
10850200 GACTTTAAGT
*
10850210 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAAC
*
10850251 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAAC
10850292 CTAGCAGGCTAAGTGCCGGTGA
1 CTAGCAGGCTAAGTGCCGGTGA
10850314 ATATGTTAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 61 1.00
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAAC
Found at i:10852366 original size:23 final size:23
Alignment explanation
Indices: 10852336--10852402 Score: 116
Period size: 23 Copynumber: 2.9 Consensus size: 23
10852326 GAATAGGAAC
*
10852336 AAGTATTAGAAGATGCGGTGTAG
1 AAGTATTAGAAGATGCAGTGTAG
*
10852359 AAGTATTAGAAGATGCAGTATAG
1 AAGTATTAGAAGATGCAGTGTAG
10852382 AAGTATTAGAAGATGCAGTGT
1 AAGTATTAGAAGATGCAGTGT
10852403 TTTACAAGCT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.39, C:0.04, G:0.30, T:0.27
Consensus pattern (23 bp):
AAGTATTAGAAGATGCAGTGTAG
Found at i:10852647 original size:57 final size:57
Alignment explanation
Indices: 10852573--10852687 Score: 194
Period size: 57 Copynumber: 2.0 Consensus size: 57
10852563 GAACTATGCC
*
10852573 AGTGTGATTGGAAAGTACTTTTTAAATAAGTACCAAGAGAGGTGAACTCGACTACTG
1 AGTGTGATTGGAAAGTACTCTTTAAATAAGTACCAAGAGAGGTGAACTCGACTACTG
* * *
10852630 AGTGTGATTTGAAAGTACTCTTTAAATAAGTACTAAGAGAGGTGAACTGGACTACTG
1 AGTGTGATTGGAAAGTACTCTTTAAATAAGTACCAAGAGAGGTGAACTCGACTACTG
10852687 A
1 A
10852688 TATTTTAGCT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.29
Consensus pattern (57 bp):
AGTGTGATTGGAAAGTACTCTTTAAATAAGTACCAAGAGAGGTGAACTCGACTACTG
Found at i:10855463 original size:24 final size:24
Alignment explanation
Indices: 10855429--10855474 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
10855419 ATTACACATA
*
10855429 CCTGTATATTCTTCTTATCATCTT
1 CCTGTACATTCTTCTTATCATCTT
10855453 CCTGTACATTCTTCTTATCATC
1 CCTGTACATTCTTCTTATCATC
10855475 ATTTCCAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.17, C:0.28, G:0.04, T:0.50
Consensus pattern (24 bp):
CCTGTACATTCTTCTTATCATCTT
Found at i:10859391 original size:11 final size:10
Alignment explanation
Indices: 10859367--10859412 Score: 51
Period size: 9 Copynumber: 4.5 Consensus size: 10
10859357 ACTTCTTGTT
10859367 ATTTTT-TGA
1 ATTTTTATGA
10859376 ATTTTTATGAA
1 ATTTTTATG-A
10859387 ATTTTTAT-A
1 ATTTTTATGA
10859396 ATTTCTTATTGA
1 ATTT-TTA-TGA
10859408 ATTTT
1 ATTTT
10859413 ATTTTTTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
9 11 0.34
10 5 0.16
11 11 0.34
12 5 0.16
ACGTcount: A:0.28, C:0.02, G:0.07, T:0.63
Consensus pattern (10 bp):
ATTTTTATGA
Found at i:10859404 original size:21 final size:20
Alignment explanation
Indices: 10859367--10859412 Score: 51
Period size: 20 Copynumber: 2.2 Consensus size: 20
10859357 ACTTCTTGTT
10859367 ATTTTTTGAATTTTTA-TGAA
1 ATTTTTTGAATTTTTATTG-A
10859387 ATTTTTAT-AATTTCTTATTGA
1 ATTTTT-TGAATTT-TTATTGA
10859408 ATTTT
1 ATTTT
10859413 ATTTTTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
20 11 0.48
21 10 0.43
22 2 0.09
ACGTcount: A:0.28, C:0.02, G:0.07, T:0.63
Consensus pattern (20 bp):
ATTTTTTGAATTTTTATTGA
Found at i:10866911 original size:22 final size:23
Alignment explanation
Indices: 10866886--10866932 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
10866876 ATAAACAATT
* *
10866886 AAATTTATATTT-TTAAATTAAA
1 AAATTTAAATTTATTAAAATAAA
10866908 AAATTTAAATTTATTAAAATAAA
1 AAATTTAAATTTATTAAAATAAA
10866931 AA
1 AA
10866933 TAAAGTAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
AAATTTAAATTTATTAAAATAAA
Found at i:10869603 original size:42 final size:42
Alignment explanation
Indices: 10869557--10869663 Score: 160
Period size: 42 Copynumber: 2.5 Consensus size: 42
10869547 CGCGGTAAAC
*
10869557 CCACCATATCACCCTAAACCACCGAAGCCACCGGTGGTGAAG
1 CCACCATATCACCCTAAACCACCGAAGCCACCGGTGGTGAAA
* * *
10869599 CCACCGTATCACCCTAAACCACCTAAGCCTCCGGTGGTGAAA
1 CCACCATATCACCCTAAACCACCGAAGCCACCGGTGGTGAAA
* *
10869641 CCCCCATATCACCCTAAGCCACC
1 CCACCATATCACCCTAAACCACC
10869664 AAAACATCCC
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.29, C:0.42, G:0.15, T:0.14
Consensus pattern (42 bp):
CCACCATATCACCCTAAACCACCGAAGCCACCGGTGGTGAAA
Found at i:10869774 original size:36 final size:36
Alignment explanation
Indices: 10869729--10869972 Score: 416
Period size: 36 Copynumber: 6.8 Consensus size: 36
10869719 AAGCCACCTA
* * * *
10869729 TTGTAAAGCCTCCACCGTATACACCCAAACCACCGG
1 TTGTGAAGCCTCCGCCATATACACCCAAACCGCCGG
10869765 TTGTGAAGCCTCCGCCATATACACCCAAACCGCCGG
1 TTGTGAAGCCTCCGCCATATACACCCAAACCGCCGG
10869801 TTGTGAAGCCTCCGCCATATACACCCAAACCGCCGG
1 TTGTGAAGCCTCCGCCATATACACCCAAACCGCCGG
*
10869837 TTGTGAAGCCTCCGCCATATGCACCCAAACCGCCGG
1 TTGTGAAGCCTCCGCCATATACACCCAAACCGCCGG
*
10869873 TTGTGAAGCCTCCGCCATATGCACCCAAACCGCCGG
1 TTGTGAAGCCTCCGCCATATACACCCAAACCGCCGG
*
10869909 TTGTGAAGCCTCCGCCATATGCACCCAAACCGCCGG
1 TTGTGAAGCCTCCGCCATATACACCCAAACCGCCGG
*
10869945 TTGTGAAGCCTCCACCATATACACCCAA
1 TTGTGAAGCCTCCGCCATATACACCCAA
10869973 GCCACCTTAC
Statistics
Matches: 201, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 201 1.00
ACGTcount: A:0.25, C:0.39, G:0.19, T:0.17
Consensus pattern (36 bp):
TTGTGAAGCCTCCGCCATATACACCCAAACCGCCGG
Found at i:10869996 original size:144 final size:142
Alignment explanation
Indices: 10869729--10870165 Score: 426
Period size: 144 Copynumber: 3.0 Consensus size: 142
10869719 AAGCCACCTA
*
10869729 TTGTAAAGCCTCCACCGTATACACCCAAACCACCGGTTGTGAAGCCTCCGCCATATACACCCAAA
1 TTGTAAAGCCTCCGCC-TAT-CACCCAAACCACCGGTTGTGAAGCCTCCGCCATATACACCCAAA
* * * *
10869794 CCGCCGGTTGTGAAGCCTCCGCCATATACACCCAAACCGCCGGTT-GTGAAGCC--T-CCGCCAT
64 CCGCCGGTTGTGAAGCCTCCGCCATATACACCCAAGCCACC--TTACT--ATCCAATACCGCCAT
10869855 ATGCA-C-CCAA-ACCGCC
125 AT-CACCACCAACACCGCC
* * *
10869871 GGTTGTGAAGCCTCCGCCATATGCACCCAAACCGCCGGTTGTGAAGCCTCCGCCATATGCACCCA
1 --TTGTAAAGCCTCCGCC-TAT-CACCCAAACCACCGGTTGTGAAGCCTCCGCCATATACACCCA
*
10869936 AACCGCCGGTTGTGAAGCCTCCACCATATACACCCAAGCCACCTTACTATCCAATACCGCCGGTC
62 AACCGCCGGTTGTGAAGCCTCCGCCATATACACCCAAGCCACCTTACTATCCAATACCG-C---C
*
10870001 ATATCACCACCAACACTGCC
123 ATATCACCACCAACACCGCC
** * * ** ** * * *
10870021 -TCCAAAGCCACCAGTCTA-C-CCCAGTCCACCAATAGTGAACCCTCCACCATATACACCCAAAC
1 TTGTAAAGCCTCC-GCCTATCACCCAAACCACCGGTTGTGAAGCCTCCGCCATATACACCCAAAC
10870083 CGCCGGTTGTGAAGCCTCCGCCATATACACCCAAGCCACCTTACTATCCAATACCGCCGGTCATA
65 CGCCGGTTGTGAAGCCTCCGCCATATACACCCAAGCCACCTTACTATCCAATACCG-C---CATA
*
10870148 TCACCACCAACACTGCC
126 TCACCACCAACACCGCC
10870165 T
1 T
10870166 CCAAAGCCAC
Statistics
Matches: 253, Mismatches: 27, Indels: 25
0.83 0.09 0.08
Matches are distributed among these distances:
141 3 0.01
142 2 0.01
143 2 0.01
144 215 0.85
145 2 0.01
147 12 0.05
148 8 0.03
149 4 0.02
150 5 0.02
ACGTcount: A:0.27, C:0.40, G:0.16, T:0.17
Consensus pattern (142 bp):
TTGTAAAGCCTCCGCCTATCACCCAAACCACCGGTTGTGAAGCCTCCGCCATATACACCCAAACC
GCCGGTTGTGAAGCCTCCGCCATATACACCCAAGCCACCTTACTATCCAATACCGCCATATCACC
ACCAACACCGCC
Found at i:10870171 original size:144 final size:144
Alignment explanation
Indices: 10869911--10870206 Score: 556
Period size: 144 Copynumber: 2.1 Consensus size: 144
10869901 ACCGCCGGTT
* * *
10869911 GTGAAGCCTCCGCCATATGCACCCAAACCGCCGGTTGTGAAGCCTCCACCATATACACCCAAGCC
1 GTGAACCCTCCACCATATACACCCAAACCGCCGGTTGTGAAGCCTCCACCATATACACCCAAGCC
10869976 ACCTTACTATCCAATACCGCCGGTCATATCACCACCAACACTGCCTCCAAAGCCACCAGTCTACC
66 ACCTTACTATCCAATACCGCCGGTCATATCACCACCAACACTGCCTCCAAAGCCACCAGTCTACC
10870041 CCAGTCCACCAATA
131 CCAGTCCACCAATA
*
10870055 GTGAACCCTCCACCATATACACCCAAACCGCCGGTTGTGAAGCCTCCGCCATATACACCCAAGCC
1 GTGAACCCTCCACCATATACACCCAAACCGCCGGTTGTGAAGCCTCCACCATATACACCCAAGCC
10870120 ACCTTACTATCCAATACCGCCGGTCATATCACCACCAACACTGCCTCCAAAGCCACCAGTCTACC
66 ACCTTACTATCCAATACCGCCGGTCATATCACCACCAACACTGCCTCCAAAGCCACCAGTCTACC
10870185 CCAGTCCACCAATA
131 CCAGTCCACCAATA
10870199 GTGAACCC
1 GTGAACCC
10870207 ACCAACACCG
Statistics
Matches: 148, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
144 148 1.00
ACGTcount: A:0.29, C:0.42, G:0.13, T:0.17
Consensus pattern (144 bp):
GTGAACCCTCCACCATATACACCCAAACCGCCGGTTGTGAAGCCTCCACCATATACACCCAAGCC
ACCTTACTATCCAATACCGCCGGTCATATCACCACCAACACTGCCTCCAAAGCCACCAGTCTACC
CCAGTCCACCAATA
Found at i:10870895 original size:15 final size:15
Alignment explanation
Indices: 10870875--10870905 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
10870865 CTTCGCTTTA
10870875 TTTTTATTTTTATTT
1 TTTTTATTTTTATTT
10870890 TTTTTATTTTTATTT
1 TTTTTATTTTTATTT
10870905 T
1 T
10870906 GTATAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (15 bp):
TTTTTATTTTTATTT
Found at i:10873947 original size:20 final size:20
Alignment explanation
Indices: 10873922--10873960 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
10873912 CATTTCGGTT
10873922 CTGATGCAAGATGTTTCGAC
1 CTGATGCAAGATGTTTCGAC
10873942 CTGATGCAAGATGTTTCGA
1 CTGATGCAAGATGTTTCGA
10873961 AATCTCAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (20 bp):
CTGATGCAAGATGTTTCGAC
Found at i:10875645 original size:59 final size:57
Alignment explanation
Indices: 10875481--10875646 Score: 153
Period size: 64 Copynumber: 2.8 Consensus size: 57
10875471 ATTTAAAAGT
* *
10875481 ATTCATTTAAGAATATTTAATATTAAGAATTTTATTAAATTATA-TATTTTTATTAA
1 ATTCATATAAGAATATTTAATATTAAGATTTTTATTAAATTATATTATTTTTATTAA
* * *
10875537 ATT-ATATTTAATAATAATT-ATTTTAA-ATTATATT-TTATAGTATTATATATTATGATTTTAT
1 ATTCATA--TAAGAATATTTAATATTAAGATT-T-TTATTA-A--A-T-TATATTAT--TTTTAT
10875598 TAA
55 TAA
10875601 ATTCATATAAGAATATTTAATATTAAGATTTTTATTAAATTATATT
1 ATTCATATAAGAATATTTAATATTAAGATTTTTATTAAATTATATT
10875647 TAATAATAAT
Statistics
Matches: 86, Mismatches: 8, Indels: 29
0.70 0.07 0.24
Matches are distributed among these distances:
55 4 0.05
56 13 0.15
57 12 0.14
59 7 0.08
60 2 0.02
61 5 0.06
62 3 0.03
63 12 0.14
64 22 0.26
65 6 0.07
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (57 bp):
ATTCATATAAGAATATTTAATATTAAGATTTTTATTAAATTATATTATTTTTATTAA
Found at i:10878633 original size:3 final size:3
Alignment explanation
Indices: 10878620--10878654 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
10878610 CCAGAAAACA
*
10878620 TTG TT- TTG TTG TTG TTG TTG TTG TTG TTT TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
10878655 GTGTCTTTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.00, C:0.00, G:0.29, T:0.71
Consensus pattern (3 bp):
TTG
Found at i:10879727 original size:151 final size:152
Alignment explanation
Indices: 10879496--10879803 Score: 503
Period size: 151 Copynumber: 2.0 Consensus size: 152
10879486 CTTATTCTTG
10879496 AATTTGGTAATTTTTCATCTTAAATTTTAATTTTTTTATTACATTTTCTCAATTTAGTCATTAAA
1 AATTTGGTAATTTTTCATCTTAAATTTTAATTTTTTTATTACATTTTCTCAATTTAGTCATTAAA
* * *
10879561 TTTAGATTTAGTTAAAATGCGATCATGC-ATCACTTTGGTTGAAATTTAGAATATCACATTATCA
66 TTTAGATTTAGTTAAAATGCGATCATGCGA-CACTTTGGCTGAAATTTAGAACATCACATGATCA
* *
10879625 TATTTTTAATTATTGTTTGATTT
130 CATTTTTAATTATCGTTTGATTT
*
10879648 AATTTGGTAATTTTTCATCTTAACTTTTAA-TTTTTTATTACATTTTCTCAATTTAGTCATTAAA
1 AATTTGGTAATTTTTCATCTTAAATTTTAATTTTTTTATTACATTTTCTCAATTTAGTCATTAAA
* * * *
10879712 TTTAGATTTGGTTAAAATGTGATGATGCGAGACTTTGGCTGAAATTTAGAACATCACATGATCAC
66 TTTAGATTTAGTTAAAATGCGATCATGCGACACTTTGGCTGAAATTTAGAACATCACATGATCAC
10879777 ATTTTTAATTATCGTTTGATTT
131 ATTTTTAATTATCGTTTGATTT
10879799 AATTT
1 AATTT
10879804 ACCAGGTTTA
Statistics
Matches: 145, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
151 115 0.79
152 30 0.21
ACGTcount: A:0.31, C:0.10, G:0.11, T:0.49
Consensus pattern (152 bp):
AATTTGGTAATTTTTCATCTTAAATTTTAATTTTTTTATTACATTTTCTCAATTTAGTCATTAAA
TTTAGATTTAGTTAAAATGCGATCATGCGACACTTTGGCTGAAATTTAGAACATCACATGATCAC
ATTTTTAATTATCGTTTGATTT
Found at i:10900767 original size:33 final size:33
Alignment explanation
Indices: 10900718--10900782 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
10900708 GTAGAGGGAT
*
10900718 TAAATTCTTGAAAATAAAAGTATAGGGACTAAC
1 TAAATTCTTGAAAATAAAAGTATAAGGACTAAC
10900751 TAAATTCTT-AAGAATAAAAGTATAAGGACTAA
1 TAAATTCTTGAA-AATAAAAGTATAAGGACTAA
10900783 ATTCTAAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 2 0.07
33 28 0.93
ACGTcount: A:0.51, C:0.08, G:0.14, T:0.28
Consensus pattern (33 bp):
TAAATTCTTGAAAATAAAAGTATAAGGACTAAC
Found at i:10904216 original size:37 final size:37
Alignment explanation
Indices: 10904153--10904265 Score: 99
Period size: 37 Copynumber: 3.1 Consensus size: 37
10904143 TTTCTAAAAA
*
10904153 TAATATTATTTTAATAGTTTAATATTAAATTAA-ATT
1 TAATATTATCTTAATAGTTTAATATTAAATTAATATT
* *
10904189 TAATATTTATCTTAATAGTATT-TTATTAATTTAATATT
1 TAATA-TTATCTTAATAGT-TTAATATTAAATTAATATT
* * * *
10904227 AAAGTGATTATCTTAATA-TTAAAT-TTAATTTAATGTT
1 TAA-T-ATTATCTTAATAGTTTAATATTAAATTAATATT
10904264 TA
1 TA
10904266 TCTTGTAGAC
Statistics
Matches: 63, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
36 5 0.08
37 36 0.57
38 9 0.14
39 12 0.19
40 1 0.02
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (37 bp):
TAATATTATCTTAATAGTTTAATATTAAATTAATATT
Found at i:10904228 original size:11 final size:11
Alignment explanation
Indices: 10904153--10904228 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
10904143 TTTCTAAAAA
*
10904153 TAATATTATTT
1 TAATATTAATT
10904164 TAATAGTTTAATAT
1 TAATA--TTAAT-T
10904178 TAA-ATTAAATT
1 TAATATT-AATT
*
10904189 TAATATTTATCT
1 TAATATTAAT-T
*
10904201 TAATAGT-ATT
1 TAATATTAATT
10904211 T--TATTAATT
1 TAATATTAATT
10904220 TAATATTAA
1 TAATATTAA
10904229 AGTGATTATC
Statistics
Matches: 52, Mismatches: 4, Indels: 18
0.70 0.05 0.24
Matches are distributed among these distances:
8 3 0.06
9 4 0.08
10 2 0.04
11 21 0.40
12 13 0.25
13 5 0.10
14 4 0.08
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (11 bp):
TAATATTAATT
Found at i:10904255 original size:51 final size:48
Alignment explanation
Indices: 10904153--10904248 Score: 111
Period size: 48 Copynumber: 1.9 Consensus size: 48
10904143 TTTCTAAAAA
* * * *
10904153 TAATATTATTTTAATAGTTTAATATTAAATTAAATTTAATATTTATCT
1 TAATAGTATTTTAATAATTTAATATTAAATGAAATTTAATATTAATCT
* *
10904201 TAATAGTATTTTATTAATTTAATATTAAAGTGATTATCTTAATATTAA
1 TAATAGTATTTTAATAATTTAATATTAAA-TGA-AAT-TTAATATTAA
10904249 ATTTAATTTA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
48 26 0.67
49 2 0.05
50 2 0.05
51 9 0.23
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (48 bp):
TAATAGTATTTTAATAATTTAATATTAAATGAAATTTAATATTAATCT
Found at i:10907559 original size:16 final size:16
Alignment explanation
Indices: 10907538--10907568 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10907528 ATATACTAAA
10907538 TAAAATAATAAAATAC
1 TAAAATAATAAAATAC
*
10907554 TAAAATACTAAAATA
1 TAAAATAATAAAATA
10907569 TTATTTAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (16 bp):
TAAAATAATAAAATAC
Found at i:10909563 original size:22 final size:24
Alignment explanation
Indices: 10909511--10909564 Score: 67
Period size: 22 Copynumber: 2.3 Consensus size: 24
10909501 TTTTTGATGA
*
10909511 TTAAATTATTGTTATTAAATATGTT
1 TTAAATTATTGTTATT-AATATCTT
*
10909536 TGAAATTATTG-TATT-ATATCTT
1 TTAAATTATTGTTATTAATATCTT
10909558 TTAAATT
1 TTAAATT
10909565 GAATTTATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 12 0.46
24 4 0.15
25 10 0.38
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.56
Consensus pattern (24 bp):
TTAAATTATTGTTATTAATATCTT
Found at i:10931104 original size:47 final size:47
Alignment explanation
Indices: 10931035--10931129 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
10931025 CCGAAATATG
*
10931035 ATTGTTTTTTGAGTTTTTATTATTTGTAGTAATATTAATGGTGTATT
1 ATTGTTTTTTGAGTTTTTATTATTTGCAGTAATATTAATGGTGTATT
10931082 ATTGTTTTTTGAGTTTTTATTATTTGCAGTAATATTAATGGTGTATT
1 ATTGTTTTTTGAGTTTTTATTATTTGCAGTAATATTAATGGTGTATT
10931129 A
1 A
10931130 ATCAATTATG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.24, C:0.01, G:0.17, T:0.58
Consensus pattern (47 bp):
ATTGTTTTTTGAGTTTTTATTATTTGCAGTAATATTAATGGTGTATT
Found at i:10931465 original size:22 final size:22
Alignment explanation
Indices: 10931435--10931477 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
10931425 ACACCAAAAC
*
10931435 AGGCTTTTAGCGGCACTTTTTT
1 AGGCCTTTAGCGGCACTTTTTT
*
10931457 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGGCACTTTTT
10931478 AGCGCCGCAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.12, C:0.21, G:0.26, T:0.42
Consensus pattern (22 bp):
AGGCCTTTAGCGGCACTTTTTT
Found at i:10931622 original size:43 final size:42
Alignment explanation
Indices: 10931575--10931927 Score: 251
Period size: 43 Copynumber: 8.2 Consensus size: 42
10931565 AAAAAAATCA
* *
10931575 CCGCTAAAGACCCTGATCTTTAGTGGCGCTTCTAGCACAAACG
1 CCGCTAAAGACCCTGATCTTTAGCGGCGCTT-TACCACAAACG
* **** * * **** *
10931618 CCGCTGAAGACTAAAACCTTTAGTGGCGCTTTAGTGGAAGCG
1 CCGCTAAAGACCCTGATCTTTAGCGGCGCTTTACCACAAACG
* *** *
10931660 CCGCTAAAGACCCTGATCTTTAGCGGCGTTTTTGGGACAAGCG
1 CCGCTAAAGACCCTGATCTTTAGCGGCG-CTTTACCACAAACG
* *
10931703 CCGC-AATAGACCCTGATCTATAGCGGCACTTTGACCACAAACG
1 CCGCTAA-AGACCCTGATCTTTAGCGGCGCTTT-ACCACAAACG
* * * * * *
10931746 CCACGAAAGAACCTAATCTTTAGCGGCGCTTTCCCCTCAAACG
1 CCGCTAAAGACCCTGATCTTTAGCGGCGCTTT-ACCACAAACG
* * * * *
10931789 CCAC-AATAGACCCTGATCTATAGCAGCGCTTCGACAACAAAACG
1 CCGCTAA-AGACCCTGATCTTTAGCGGCGCTT-TACCAC-AAACG
* * * *
10931833 CCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCACAAACG
1 CCGCTAAAGACCCTGATCTTTAGCGGCGCTTT-ACCACAAACG
* *
10931876 CCGCTAAAGACCCTTATCTTTAGCGGCGCTTTGACCAAAAACG
1 CCGCTAAAGACCCTGATCTTTAGCGGCGCTTT-ACCACAAACG
*
10931919 CCACTAAAG
1 CCGCTAAAG
10931928 GCCAACACCT
Statistics
Matches: 242, Mismatches: 59, Indels: 18
0.76 0.18 0.06
Matches are distributed among these distances:
42 35 0.14
43 171 0.71
44 34 0.14
45 2 0.01
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (42 bp):
CCGCTAAAGACCCTGATCTTTAGCGGCGCTTTACCACAAACG
Found at i:10931859 original size:87 final size:87
Alignment explanation
Indices: 10931658--10931927 Score: 348
Period size: 86 Copynumber: 3.1 Consensus size: 87
10931648 TTAGTGGAAG
* * * * **** *
10931658 CGCCGCTAAAGACCCTGATCTTTAGCGGCGTTTTTGGGACAAGCGCCGCAATAGACCCTGATCTA
1 CGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCACAAACGCCGCAATAGACCCTGATCTA
*
10931723 TAGCGGCACTTTGACCAC-AAA
66 TAGCGGCGCTTTGACCACAAAA
* * *
10931744 CGCCACGAAAGAACCTAATCTTTAGCGGCGCTTTCCCCTCAAACGCCACAATAGACCCTGATCTA
1 CGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCACAAACGCCGCAATAGACCCTGATCTA
* * *
10931809 TAGCAGCGCTTCGACAACAAAA
66 TAGCGGCGCTTTGACCACAAAA
*
10931831 CGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCACAAACGCCGCTAA-AGACCCTTATCT
1 CGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCACAAACGCCGC-AATAGACCCTGATCT
*
10931895 TTAGCGGCGCTTTGACCA-AAAA
65 ATAGCGGCGCTTTGACCACAAAA
10931917 CGCCACTAAAG
1 CGCCACTAAAG
10931928 GCCAACACCT
Statistics
Matches: 158, Mismatches: 24, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
86 82 0.52
87 74 0.47
88 2 0.01
ACGTcount: A:0.29, C:0.32, G:0.19, T:0.20
Consensus pattern (87 bp):
CGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCACAAACGCCGCAATAGACCCTGATCTA
TAGCGGCGCTTTGACCACAAAA
Found at i:10932307 original size:21 final size:21
Alignment explanation
Indices: 10932281--10932368 Score: 86
Period size: 21 Copynumber: 4.2 Consensus size: 21
10932271 ACGCTGCTCG
10932281 GCTTCCCTCGCTGCAGCCTCT
1 GCTTCCCTCGCTGCAGCCTCT
*
10932302 GCTTCCCTCGCTGCAGCCTGT
1 GCTTCCCTCGCTGCAGCCTCT
* * * * *
10932323 ACTTCTCTCGCTACCGTCTCT
1 GCTTCCCTCGCTGCAGCCTCT
* * * *
10932344 GCTTCTCTTGCTGCCGCATCT
1 GCTTCCCTCGCTGCAGCCTCT
10932365 GCTT
1 GCTT
10932369 TAAGCTGCTA
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 55 1.00
ACGTcount: A:0.06, C:0.42, G:0.18, T:0.34
Consensus pattern (21 bp):
GCTTCCCTCGCTGCAGCCTCT
Found at i:10932429 original size:66 final size:66
Alignment explanation
Indices: 10932344--10932484 Score: 187
Period size: 66 Copynumber: 2.1 Consensus size: 66
10932334 TACCGTCTCT
* *
10932344 GCTTCTCTTGCTGCCGCATCTGCTTTAAGCTGCTA-CTAGAGTTCTTCATA-CTTTCGTTGAACC
1 GCTTCTCTCGCTACCGCATCTGCTTTAAGCTG-TAGCTAGAGTTCTTCATATCTTT-GTTGAACC
10932407 TCA
64 TCA
* * * * *
10932410 GCTTCTCTCGCTACTGCATCTGCTTTCAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGAACCTC
1 GCTTCTCTCGCTACCGCATCTGCTTTAAGCTGTAGCTAGAGTTCTTCATATCTTTGTTGAACCTC
10932475 A
66 A
10932476 GCTTCTCTC
1 GCTTCTCTC
10932485 TATGTTGCCT
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
65 2 0.03
66 60 0.91
67 4 0.06
ACGTcount: A:0.15, C:0.28, G:0.16, T:0.40
Consensus pattern (66 bp):
GCTTCTCTCGCTACCGCATCTGCTTTAAGCTGTAGCTAGAGTTCTTCATATCTTTGTTGAACCTC
A
Found at i:10932507 original size:66 final size:66
Alignment explanation
Indices: 10932382--10932508 Score: 157
Period size: 66 Copynumber: 1.9 Consensus size: 66
10932372 GCTGCTACTA
* ** *
10932382 GAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGCTACTGCATCTGCTTTCAGTTGTAGCT
1 GAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGATACTGCATCCACTTTAAGTTGTAGCT
10932447 G
66 G
* * ** *
10932448 GAGTTCTTCATATCTTT-TTTGAACCTCAGCTTCTCTCTATGTTGCCTCCACTTTAAGTTGT
1 GAGTTCTTCATA-CTTTCGTTGAACCTCAGCTTCTCTCGATACTGCATCCACTTTAAGTTGT
10932509 GTAATTTGCT
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
66 47 0.92
67 4 0.08
ACGTcount: A:0.16, C:0.26, G:0.16, T:0.43
Consensus pattern (66 bp):
GAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGATACTGCATCCACTTTAAGTTGTAGCT
G
Found at i:10937944 original size:9 final size:9
Alignment explanation
Indices: 10937930--10938334 Score: 131
Period size: 9 Copynumber: 46.9 Consensus size: 9
10937920 AAGATATACA
10937930 TTATGTAAG
1 TTATGTAAG
10937939 TTATGTAAG
1 TTATGTAAG
10937948 TTATGTAAG
1 TTATGTAAG
*
10937957 TTGTGTAAG
1 TTATGTAAG
**
10937966 TTGCGTAAG
1 TTATGTAAG
* *
10937975 ATGTGT-A-
1 TTATGTAAG
* *
10937982 TTATGAAAC
1 TTATGTAAG
10937991 TTATGTAAG
1 TTATGTAAG
*
10938000 TTATGT--C
1 TTATGTAAG
10938007 TTATGTAAG
1 TTATGTAAG
*
10938016 TTATGTAAA
1 TTATGTAAG
*
10938025 ATATGT-A-
1 TTATGTAAG
*
10938032 TTATTTACA-
1 TTATGTA-AG
*
10938041 -CATGTTAAG
1 TTATG-TAAG
*
10938050 TTATGT--C
1 TTATGTAAG
10938057 TTATGTAAG
1 TTATGTAAG
**
10938066 TTGCGTAAG
1 TTATGTAAG
* *
10938075 TTGTGT-AT
1 TTATGTAAG
*
10938083 TTATGAAAG
1 TTATGTAAG
*
10938092 TTATGT--C
1 TTATGTAAG
10938099 TTATGTAAG
1 TTATGTAAG
*
10938108 TTATGTAGG
1 TTATGTAAG
*
10938117 GTATGTATTA-
1 TTATGTA--AG
*
10938127 TTATGTAAC
1 TTATGTAAG
* *
10938136 TTATTTAAT
1 TTATGTAAG
*
10938145 TTATGTAAC
1 TTATGTAAG
* *
10938154 TTATTTAAT
1 TTATGTAAG
* *
10938163 TTATATAGG
1 TTATGTAAG
*
10938172 GTATGTATTA-
1 TTATGTA--AG
*
10938182 TTATGTAAC
1 TTATGTAAG
* *
10938191 TTATTTAAT
1 TTATGTAAG
*
10938200 TTATGTAGG
1 TTATGTAAG
*
10938209 GTATGTAAG
1 TTATGTAAG
10938218 TTATGTAAG
1 TTATGTAAG
* *
10938227 CTCTGT-A-
1 TTATGTAAG
* *
10938234 TTATTTACG
1 TTATGTAAG
*
10938243 -CATGTAAG
1 TTATGTAAG
*
10938251 TTGTGT-A-
1 TTATGTAAG
10938258 TTATGTATTA-
1 TTATGTA--AG
* *
10938268 TTACGTAAC
1 TTATGTAAG
*
10938277 TTATTTAAG
1 TTATGTAAG
*
10938286 TTATGCAAG
1 TTATGTAAG
*
10938295 TTATAT-A-
1 TTATGTAAG
* *
10938302 TTAAGTAGG
1 TTATGTAAG
10938311 TTATGTAAG
1 TTATGTAAG
10938320 TTATGT--G
1 TTATGTAAG
10938327 TTATGTAA
1 TTATGTAA
10938335 ATGAATATAT
Statistics
Matches: 285, Mismatches: 80, Indels: 62
0.67 0.19 0.15
Matches are distributed among these distances:
7 44 0.15
8 22 0.08
9 197 0.69
10 22 0.08
ACGTcount: A:0.30, C:0.04, G:0.19, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:10937998 original size:25 final size:25
Alignment explanation
Indices: 10937970--10938035 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
10937960 TGTAAGTTGC
*
10937970 GTAAGATGTGTATTATGAAACTTAT
1 GTAAGATATGTATTATGAAACTTAT
* * * *
10937995 GTAAGTTATGTCTTATGTAAGTTAT
1 GTAAGATATGTATTATGAAACTTAT
*
10938020 GTAAAATATGTATTAT
1 GTAAGATATGTATTAT
10938036 TTACACATGT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.35, C:0.03, G:0.18, T:0.44
Consensus pattern (25 bp):
GTAAGATATGTATTATGAAACTTAT
Found at i:10938009 original size:16 final size:16
Alignment explanation
Indices: 10937990--10938113 Score: 68
Period size: 16 Copynumber: 8.0 Consensus size: 16
10937980 TATTATGAAA
10937990 CTTATGTAAGTTATGT
1 CTTATGTAAGTTATGT
10938006 CTTATGTAAGTTATGT
1 CTTATGTAAGTTATGT
** *
10938022 AAAATATGT-A-TTATTT
1 --CTTATGTAAGTTATGT
**
10938038 ACACATGTTAAGTTATGT
1 -CTTATG-TAAGTTATGT
10938056 CTTATGTAAG-T-TG-
1 CTTATGTAAGTTATGT
*
10938069 C----GTAAGTTGTGT
1 CTTATGTAAGTTATGT
* *
10938081 ATTTATGAAAGTTATGT
1 -CTTATGTAAGTTATGT
10938098 CTTATGTAAGTTATGT
1 CTTATGTAAGTTATGT
10938114 AGGGTATGTA
Statistics
Matches: 82, Mismatches: 13, Indels: 26
0.68 0.11 0.21
Matches are distributed among these distances:
9 5 0.06
10 1 0.01
11 2 0.02
13 1 0.01
14 2 0.02
15 6 0.07
16 40 0.49
17 15 0.18
18 10 0.12
ACGTcount: A:0.29, C:0.06, G:0.19, T:0.47
Consensus pattern (16 bp):
CTTATGTAAGTTATGT
Found at i:10938082 original size:50 final size:49
Alignment explanation
Indices: 10937940--10938090 Score: 160
Period size: 50 Copynumber: 3.0 Consensus size: 49
10937930 TTATGTAAGT
* *
10937940 TATGTAAGTTATGTAAGTTGTGTAAGTTGCGTAAGATGTGTATTATGAAAC
1 TATGTAAGTTATGT--CTTATGTAAGTTGCGTAAGATGTGTATTATGAAAC
** * * * *
10937991 TTATGTAAGTTATGTCTTATGTAAGTTATGTAAAATATGTATTATTTACAC
1 -TATGTAAGTTATGTCTTATGTAAGTTGCGTAAGATGTGTATTA-TGAAAC
*
10938042 -ATGTTAAGTTATGTCTTATGTAAGTTGCGTAAGTTGTGTATTTATGAAA
1 TATG-TAAGTTATGTCTTATGTAAGTTGCGTAAGATGTGTA-TTATGAAA
10938091 GTTATGTCTT
Statistics
Matches: 81, Mismatches: 15, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
49 3 0.04
50 57 0.70
51 7 0.09
52 14 0.17
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.44
Consensus pattern (49 bp):
TATGTAAGTTATGTCTTATGTAAGTTGCGTAAGATGTGTATTATGAAAC
Found at i:10938186 original size:37 final size:37
Alignment explanation
Indices: 10938145--10938215 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
10938135 CTTATTTAAT
10938145 TTATGTAACTTATTTAATTTATATAGGGTATGTATTA
1 TTATGTAACTTATTTAATTTATATAGGGTATGTATTA
*
10938182 TTATGTAACTTATTTAATTTATGTAGGGTATGTA
1 TTATGTAACTTATTTAATTTATATAGGGTATGTA
10938216 AGTTATGTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.31, C:0.03, G:0.15, T:0.51
Consensus pattern (37 bp):
TTATGTAACTTATTTAATTTATATAGGGTATGTATTA
Found at i:10938234 original size:55 final size:55
Alignment explanation
Indices: 10938100--10938238 Score: 197
Period size: 55 Copynumber: 2.5 Consensus size: 55
10938090 AGTTATGTCT
*
10938100 TATGTAAGTTATGTAGGGTATGTATTATTATGTAACTTATTTAATTTATGTAACT
1 TATGTAAGTTATGTAGGGTATGTATTATTATGTAACTTATTTAATTTATGTAACG
* * * **
10938155 TATTTAATTTATATAGGGTATGTATTATTATGTAACTTATTTAATTTATGTAGGG
1 TATGTAAGTTATGTAGGGTATGTATTATTATGTAACTTATTTAATTTATGTAACG
* * *
10938210 TATGTAAGTTATGTAAGCTCTGTATTATT
1 TATGTAAGTTATGTAGGGTATGTATTATT
10938239 TACGCATGTA
Statistics
Matches: 72, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
55 72 1.00
ACGTcount: A:0.30, C:0.04, G:0.17, T:0.50
Consensus pattern (55 bp):
TATGTAAGTTATGTAGGGTATGTATTATTATGTAACTTATTTAATTTATGTAACG
Found at i:10938432 original size:92 final size:92
Alignment explanation
Indices: 10938331--10938803 Score: 885
Period size: 92 Copynumber: 5.1 Consensus size: 92
10938321 TATGTGTTAT
10938331 GTAAATGAATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATT
1 GTAAATGAATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATT
*
10938396 ATTAAAATTTAAATATAGCTTACATAC
66 AATAAAATTTAAATATAGCTTACATAC
10938423 GTAAATGAATATATGTATAATATTAAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTAT
1 GTAAATGAATATATGTATAATATT-AAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTAT
10938488 TAATAAAATTTAAATATAGCTTACATAC
65 TAATAAAATTTAAATATAGCTTACATAC
10938516 GTAAATGAATATATGTATAATATT-AAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATT
1 GTAAATGAATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATT
10938580 AATAAAATTTAAATATAGCTTACATAC
66 AATAAAATTTAAATATAGCTTACATAC
10938607 GTAAATGAATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATT
1 GTAAATGAATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATT
10938672 AATAAAATTTAAATATAGCTTACATAC
66 AATAAAATTTAAATATAGCTTACATAC
*
10938699 GTAAATGAATATATGTATAATATTAAAAAAAAATAGTAAATACTTCTTTAAGTTATAAATTTATT
1 GTAAATGAATATATGTATAATATT--AAAAAAATAGT-AATACTTATTTAAGTTATAAATTTATT
10938764 ATTAATAAAATTTAAATATAGCTTACATAC
63 ATTAATAAAATTTAAATATAGCTTACATAC
10938794 GTAAATGAAT
1 GTAAATGAAT
10938804 GCTTTTAAAC
Statistics
Matches: 374, Mismatches: 2, Indels: 7
0.98 0.01 0.02
Matches are distributed among these distances:
91 91 0.24
92 115 0.31
93 91 0.24
94 11 0.03
95 66 0.18
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.40
Consensus pattern (92 bp):
GTAAATGAATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATT
AATAAAATTTAAATATAGCTTACATAC
Found at i:10938727 original size:183 final size:185
Alignment explanation
Indices: 10938331--10938803 Score: 887
Period size: 183 Copynumber: 2.6 Consensus size: 185
10938321 TATGTGTTAT
10938331 GTAAATGAATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATT
1 GTAAATGAATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATT
*
10938396 ATTAAAATTTAAATATAGCTTACATACGTAAATGAATATATGTATAATATTAAAAAAAATAGTAA
66 AATAAAATTTAAATATAGCTTACATACGTAAATGAATATATGTATAATATTAAAAAAAATAGTAA
10938461 TACTTATTTAAGTTATAAATTTATTATTAATAAAATTTAAATATAGCTTACATAC
131 TACTTATTTAAGTTATAAATTTATTATTAATAAAATTTAAATATAGCTTACATAC
10938516 GTAAATGAATATATGTATAATATT-AAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATT
1 GTAAATGAATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATT
10938580 AATAAAATTTAAATATAGCTTACATACGTAAATGAATATATGTATAATATT-AAAAAAATAGTAA
66 AATAAAATTTAAATATAGCTTACATACGTAAATGAATATATGTATAATATTAAAAAAAATAGTAA
10938644 TACTTATTTAAGTTATAAATTTATTATTAATAAAATTTAAATATAGCTTACATAC
131 TACTTATTTAAGTTATAAATTTATTATTAATAAAATTTAAATATAGCTTACATAC
*
10938699 GTAAATGAATATATGTATAATATTAAAAAAAAATAGTAAATACTTCTTTAAGTTATAAATTTATT
1 GTAAATGAATATATGTATAATATT--AAAAAAATAGT-AATACTTATTTAAGTTATAAATTTATT
10938764 ATTAATAAAATTTAAATATAGCTTACATACGTAAATGAAT
63 ATTAATAAAATTTAAATATAGCTTACATACGTAAATGAAT
10938804 GCTTTTAAAC
Statistics
Matches: 282, Mismatches: 2, Indels: 6
0.97 0.01 0.02
Matches are distributed among these distances:
183 92 0.33
184 90 0.32
185 24 0.09
186 10 0.04
187 66 0.23
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.40
Consensus pattern (185 bp):
GTAAATGAATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATT
AATAAAATTTAAATATAGCTTACATACGTAAATGAATATATGTATAATATTAAAAAAAATAGTAA
TACTTATTTAAGTTATAAATTTATTATTAATAAAATTTAAATATAGCTTACATAC
Found at i:10940810 original size:23 final size:23
Alignment explanation
Indices: 10940780--10940824 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
10940770 CAATATTAAT
*
10940780 ATATATAT-GTTTCATAATATATA
1 ATATATATCGTTGCAT-ATATATA
10940803 ATATATATCGTTGCATATATAT
1 ATATATATCGTTGCATATATAT
10940825 CTTTTTCTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (23 bp):
ATATATATCGTTGCATATATATA
Found at i:10943726 original size:20 final size:20
Alignment explanation
Indices: 10943697--10943742 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
10943687 TAGTTGATAC
*
10943697 AAATTCAAAAAAAA-TTCAAT
1 AAATTTAAAAAAAAGTT-AAT
10943717 AAATTTAAAAAAAAGTTAAT
1 AAATTTAAAAAAAAGTTAAT
10943737 AAATTT
1 AAATTT
10943743 TTTTAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 22 0.92
21 2 0.08
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.30
Consensus pattern (20 bp):
AAATTTAAAAAAAAGTTAAT
Found at i:10944487 original size:42 final size:42
Alignment explanation
Indices: 10944414--10944504 Score: 119
Period size: 42 Copynumber: 2.2 Consensus size: 42
10944404 AGCACTTAGC
* *
10944414 AGCTTTCCATTTCCAATGGCGGCGAACCCTCCAAACACCGTT
1 AGCTTTCCATTTCCAATGACGCCGAACCCTCCAAACACCGTT
* * ** *
10944456 AGCTTTCCATTTTCGATGACGCCGAGGCCTCCAACCACCGTT
1 AGCTTTCCATTTCCAATGACGCCGAACCCTCCAAACACCGTT
10944498 AGCTTTC
1 AGCTTTC
10944505 GATTGGATCA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.21, C:0.35, G:0.18, T:0.26
Consensus pattern (42 bp):
AGCTTTCCATTTCCAATGACGCCGAACCCTCCAAACACCGTT
Found at i:10945071 original size:6 final size:6
Alignment explanation
Indices: 10945060--10945108 Score: 98
Period size: 6 Copynumber: 8.2 Consensus size: 6
10945050 AGTTCTTTAA
10945060 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
10945108 A
1 A
10945109 TATAATATAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.51, C:0.33, G:0.00, T:0.16
Consensus pattern (6 bp):
ACATAC
Found at i:10953669 original size:24 final size:24
Alignment explanation
Indices: 10953637--10953688 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
10953627 TTTCTAGAAG
*
10953637 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGTATTTATGAGCATAATAT
* *
10953661 ATTTAGTATTTATTAGCATAATGT
1 ATTTAGTATTTATGAGCATAATAT
10953685 ATTT
1 ATTT
10953689 GACTTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.52
Consensus pattern (24 bp):
ATTTAGTATTTATGAGCATAATAT
Found at i:10957612 original size:24 final size:24
Alignment explanation
Indices: 10957549--10957600 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
10957539 TTTTTAGAAG
* *
10957549 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGTATTTATTAGCATAATAT
10957573 ATTTAGTATTTATTAGCATAATAT
1 ATTTAGTATTTATTAGCATAATAT
10957597 ATTT
1 ATTT
10957601 GACTTTGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.37, C:0.02, G:0.10, T:0.52
Consensus pattern (24 bp):
ATTTAGTATTTATTAGCATAATAT
Found at i:10959629 original size:20 final size:20
Alignment explanation
Indices: 10959604--10959719 Score: 62
Period size: 22 Copynumber: 5.8 Consensus size: 20
10959594 CTAGTGCTTT
10959604 TCATTTTCCAGATTTTGAAG
1 TCATTTTCCAGATTTTGAAG
* *
10959624 TCATTTT-AATATATTTGAAG
1 TCATTTTCCAGAT-TTTGAAG
*** *
10959644 TCATTTT---GAAGGT-AAT
1 TCATTTTCCAGATTTTGAAG
* * *
10959660 TCGTTTTCCAGACTTTGGCATG
1 TCATTTTCCAGA-TTTTG-AAG
*
10959682 TCATTTTCCAGATTTTGGCATG
1 TCATTTTCCAGATTTT-G-AAG
10959704 TCATTTTCCAGATTTT
1 TCATTTTCCAGATTTT
10959720 ATTTTATTTC
Statistics
Matches: 72, Mismatches: 16, Indels: 14
0.71 0.16 0.14
Matches are distributed among these distances:
16 8 0.11
17 1 0.01
18 1 0.01
19 5 0.07
20 21 0.29
21 3 0.04
22 33 0.46
ACGTcount: A:0.23, C:0.15, G:0.16, T:0.47
Consensus pattern (20 bp):
TCATTTTCCAGATTTTGAAG
Found at i:10959653 original size:11 final size:11
Alignment explanation
Indices: 10959615--10959654 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
10959605 CATTTTCCAG
10959615 ATTTTGAAGTC
1 ATTTTGAAGTC
10959626 ATTTT-AA-T-
1 ATTTTGAAGTC
10959634 ATATTTGAAGTC
1 AT-TTTGAAGTC
10959646 ATTTTGAAG
1 ATTTTGAAG
10959655 GTAATTCGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
8 2 0.08
9 4 0.16
10 4 0.16
11 13 0.52
12 2 0.08
ACGTcount: A:0.33, C:0.05, G:0.15, T:0.47
Consensus pattern (11 bp):
ATTTTGAAGTC
Found at i:10959716 original size:22 final size:22
Alignment explanation
Indices: 10959663--10959719 Score: 105
Period size: 22 Copynumber: 2.6 Consensus size: 22
10959653 AGGTAATTCG
*
10959663 TTTTCCAGACTTTGGCATGTCA
1 TTTTCCAGATTTTGGCATGTCA
10959685 TTTTCCAGATTTTGGCATGTCA
1 TTTTCCAGATTTTGGCATGTCA
10959707 TTTTCCAGATTTT
1 TTTTCCAGATTTT
10959720 ATTTTATTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.18, C:0.19, G:0.16, T:0.47
Consensus pattern (22 bp):
TTTTCCAGATTTTGGCATGTCA
Found at i:10962980 original size:74 final size:74
Alignment explanation
Indices: 10962859--10963007 Score: 289
Period size: 74 Copynumber: 2.0 Consensus size: 74
10962849 TCATTCTCAT
10962859 TTGAAGAATGAATCAATTGTTGTGGCTATAATTGTCTTGAAATAGAATTAAATCTATTTTCATAA
1 TTGAAGAATGAATCAATTGTTGTGGCTATAATTGTCTTGAAATAGAATTAAATCTATTTTCATAA
10962924 AAAATAGCA
66 AAAATAGCA
*
10962933 TTGAAGAATGAATCAATTGTTGTGGCTATAATTGTCTTGGAATAGAATTAAATCTATTTTCATAA
1 TTGAAGAATGAATCAATTGTTGTGGCTATAATTGTCTTGAAATAGAATTAAATCTATTTTCATAA
10962998 AAAATAGCA
66 AAAATAGCA
10963007 T
1 T
10963008 CTCTTGATTC
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.40, C:0.08, G:0.15, T:0.37
Consensus pattern (74 bp):
TTGAAGAATGAATCAATTGTTGTGGCTATAATTGTCTTGAAATAGAATTAAATCTATTTTCATAA
AAAATAGCA
Found at i:10979697 original size:14 final size:14
Alignment explanation
Indices: 10979655--10979698 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
10979645 TTTATTTTAT
10979655 TTTAGTCACTCTAA
1 TTTAGTCACTCTAA
* *
10979669 TTT-TTCCCTCTTAA
1 TTTAGTCACTC-TAA
10979683 TTTAGTCACTCTAA
1 TTTAGTCACTCTAA
10979697 TT
1 TT
10979699 AATCATTACA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
13 5 0.21
14 14 0.58
15 5 0.21
ACGTcount: A:0.23, C:0.23, G:0.05, T:0.50
Consensus pattern (14 bp):
TTTAGTCACTCTAA
Found at i:10979996 original size:22 final size:22
Alignment explanation
Indices: 10979971--10980013 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
10979961 ACACCAAAAC
10979971 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCTTTTAGCGGCGCTTTTTT
10979993 AGGCTTTTAGCGGCGCTTTTT
1 AGGCTTTTAGCGGCGCTTTTT
10980014 AGCGCCGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.09, C:0.19, G:0.28, T:0.44
Consensus pattern (22 bp):
AGGCTTTTAGCGGCGCTTTTTT
Found at i:10980259 original size:43 final size:43
Alignment explanation
Indices: 10980198--10980290 Score: 132
Period size: 43 Copynumber: 2.2 Consensus size: 43
10980188 GTGGAAGCGT
* * *
10980198 CGCTAAAGACCCTGATCTTTAGCGGCGCTTTCCCCACAAACGC
1 CGCTAAAGACCCTGATCTTTAGCAGCGCTTTCACCAAAAACGC
* *
10980241 CGCTAAAGACCCTTATCTTTAGCAGCGCTTTGACCAAAAACGC
1 CGCTAAAGACCCTGATCTTTAGCAGCGCTTTCACCAAAAACGC
*
10980284 CACTAAA
1 CGCTAAA
10980291 TTTGGCAGAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.29, C:0.33, G:0.16, T:0.22
Consensus pattern (43 bp):
CGCTAAAGACCCTGATCTTTAGCAGCGCTTTCACCAAAAACGC
Found at i:10980624 original size:21 final size:21
Alignment explanation
Indices: 10980598--10980699 Score: 116
Period size: 21 Copynumber: 4.9 Consensus size: 21
10980588 TTTGACGCTG
10980598 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
**
10980619 CTCTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGCAGC
10980640 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* * * *
10980661 TTGTACTTCTCTCGCTGTC-GC
1 CTCTGCTTCCCTCGCTG-CAGC
* *
10980682 CTCTGCTTCTCTTGCTGC
1 CTCTGCTTCCCTCGCTGC
10980700 CGCATCTACT
Statistics
Matches: 68, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
20 1 0.01
21 66 0.97
22 1 0.01
ACGTcount: A:0.04, C:0.42, G:0.18, T:0.36
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:10980657 original size:42 final size:42
Alignment explanation
Indices: 10980598--10980710 Score: 136
Period size: 42 Copynumber: 2.7 Consensus size: 42
10980588 TTTGACGCTG
* *
10980598 CTCTGCTTCCCTCGCTGCAGCCTCTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGCAGCCTCTACTTCCCTCGCTGTAGC
* * * *
10980640 CTCTGCTTCCCTCGCTGCAGCTTGTACTTCTCTCGCTGTCGC
1 CTCTGCTTCCCTCGCTGCAGCCTCTACTTCCCTCGCTGTAGC
* * * *
10980682 CTCTGCTTCTCTTGCTGCCGCATCTACTT
1 CTCTGCTTCCCTCGCTGCAGCCTCTACTT
10980711 TAAGCTGCTG
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 60 1.00
ACGTcount: A:0.05, C:0.42, G:0.17, T:0.36
Consensus pattern (42 bp):
CTCTGCTTCCCTCGCTGCAGCCTCTACTTCCCTCGCTGTAGC
Found at i:10980770 original size:17 final size:17
Alignment explanation
Indices: 10980748--10980783 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
10980738 TTCGTTGAAC
10980748 CTCAGCTTCTCTCGCTG
1 CTCAGCTTCTCTCGCTG
10980765 CTCAGCTTCTCTCGCTG
1 CTCAGCTTCTCTCGCTG
10980782 CT
1 CT
10980784 GCATCTGCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.06, C:0.42, G:0.17, T:0.36
Consensus pattern (17 bp):
CTCAGCTTCTCTCGCTG
Found at i:10980782 original size:83 final size:83
Alignment explanation
Indices: 10980686--10980844 Score: 223
Period size: 83 Copynumber: 1.9 Consensus size: 83
10980676 TGTCGCCTCT
*
10980686 GCTTCTCTTGCTGCCGCATCTACTTTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTTGAACC
1 GCTTCTCTCGCTGCCGCATCTACTTTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-GTTGAACC
*
10980749 TCAGCTTCTCTCGCTGCTCA
64 CCAGCTTCTCTCGCTGCTCA
* * * * *
10980769 GCTTCTCTCGCTGCTGCATCTGCTTTCAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGAACCCC
1 GCTTCTCTCGCTGCCGCATCTACTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGAACCCC
10980834 AGCTTCTCTCG
66 AGCTTCTCTCG
10980845 ATGTTGCCTC
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
82 1 0.01
83 62 0.93
84 4 0.06
ACGTcount: A:0.13, C:0.30, G:0.18, T:0.39
Consensus pattern (83 bp):
GCTTCTCTCGCTGCCGCATCTACTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGAACCCC
AGCTTCTCTCGCTGCTCA
Found at i:10986310 original size:9 final size:9
Alignment explanation
Indices: 10986276--10986560 Score: 112
Period size: 9 Copynumber: 33.1 Consensus size: 9
10986266 TTATGCATTG
*
10986276 TGTAAGCTA
1 TGTAAGTTA
*
10986285 TGTAAGTTG
1 TGTAAGTTA
10986294 TGT-A-TTA
1 TGTAAGTTA
10986301 TGTAAGTTA
1 TGTAAGTTA
10986310 T-T-A-TTA
1 TGTAAGTTA
10986316 TGCTTTAAGTTA
1 TG---TAAGTTA
*
10986328 TGTAAGTAA
1 TGTAAGTTA
10986337 TGT-A-TTA
1 TGTAAGTTA
10986344 TGTAAGTTA
1 TGTAAGTTA
*
10986353 TTTAAGTTA
1 TGTAAGTTA
*
10986362 GTTATCAAAGTTA
1 --TGT--AAGTTA
10986375 TGT-A-TTA
1 TGTAAGTTA
10986382 TGTAAGTTA
1 TGTAAGTTA
*
10986391 TTTAAGTTA
1 TGTAAGTTA
*
10986400 TGTAA--CA
1 TGTAAGTTA
*
10986407 TGTAAATTA
1 TGTAAGTTA
10986416 TGTAAGTTA
1 TGTAAGTTA
* *
10986425 TGTAGGCTA
1 TGTAAGTTA
*
10986434 TGTATGTTA
1 TGTAAGTTA
* *
10986443 AGTAAGTAA
1 TGTAAGTTA
10986452 TGT-A-TTA
1 TGTAAGTTA
*
10986459 TGTAAGTTG
1 TGTAAGTTA
* *
10986468 TCT-A-TAA
1 TGTAAGTTA
*
10986475 TGTTAGTTA
1 TGTAAGTTA
**
10986484 TCAAAGTTA
1 TGTAAGTTA
*
10986493 TAT-A-TTA
1 TGTAAGTTA
10986500 TGT--GTTTCAA
1 TGTAAG-TT--A
*
10986510 TTTAAGTTA
1 TGTAAGTTA
*
10986519 TGTAAGTTG
1 TGTAAGTTA
10986528 TGT-A-TTA
1 TGTAAGTTA
*
10986535 TGTAAGTTG
1 TGTAAGTTA
10986544 TGT-A-TTA
1 TGTAAGTTA
10986551 TGTAAGTTA
1 TGTAAGTTA
10986560 T
1 T
10986561 TAAAAATTGA
Statistics
Matches: 204, Mismatches: 40, Indels: 64
0.66 0.13 0.21
Matches are distributed among these distances:
6 4 0.02
7 46 0.23
8 18 0.09
9 113 0.55
10 4 0.02
11 7 0.03
12 6 0.03
13 6 0.03
ACGTcount: A:0.32, C:0.03, G:0.19, T:0.47
Consensus pattern (9 bp):
TGTAAGTTA
Found at i:10986334 original size:43 final size:40
Alignment explanation
Indices: 10986278--10986542 Score: 146
Period size: 38 Copynumber: 6.8 Consensus size: 40
10986268 ATGCATTGTG
* * *
10986278 TAAGCTATGTAAGTTGTGTATTATGTAAGTTATTATTATGCTT
1 TAAGTTATGTAAGTTATGTATTATGTAAGTTATT-TTAAG--T
*
10986321 TAAGTTATGTAAGTAATGTATTATGTAAGTTA-TTTAAGT
1 TAAGTTATGTAAGTTATGTATTATGTAAGTTATTTTAAGT
**
10986360 T-AGTTATCAAAGTTATGTATTATGTAAGTTA-TTTAAGT
1 TAAGTTATGTAAGTTATGTATTATGTAAGTTATTTTAAGT
* * * * *
10986398 TATGTAACATGTAAATTATGTAAGTTATGTAGGCTA---T--G-
1 TAAGT--TATGTAAGTTATGT-A-TTATGTAAGTTATTTTAAGT
* * * * *
10986436 TATGTTAAGTAAGTAATGTATTATGTAAGTTGTCTATAATGT
1 TAAGTTATGTAAGTTATGTATTATGTAAGTTAT-TTTAA-GT
** * * *
10986478 T-AGTTATCAAAGTTATATATTATGT--G---TTTCAATT
1 TAAGTTATGTAAGTTATGTATTATGTAAGTTATTTTAAGT
*
10986512 TAAGTTATGTAAGTTGTGTATTATGTAAGTT
1 TAAGTTATGTAAGTTATGTATTATGTAAGTT
10986543 GTGTATTATG
Statistics
Matches: 170, Mismatches: 34, Indels: 40
0.70 0.14 0.16
Matches are distributed among these distances:
34 11 0.06
35 24 0.14
36 11 0.06
37 1 0.01
38 41 0.24
39 6 0.04
41 34 0.20
42 3 0.02
43 39 0.23
ACGTcount: A:0.32, C:0.03, G:0.18, T:0.46
Consensus pattern (40 bp):
TAAGTTATGTAAGTTATGTATTATGTAAGTTATTTTAAGT
Found at i:10986388 original size:16 final size:16
Alignment explanation
Indices: 10986283--10986560 Score: 86
Period size: 16 Copynumber: 17.8 Consensus size: 16
10986273 TTGTGTAAGC
*
10986283 TATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAT
10986299 TATGTAAGTTAT-TAT
1 TATGTAAGTTATGTAT
*
10986314 TATGCT---TTAAG--T
1 TATG-TAAGTTATGTAT
*
10986326 TATGTAAGTAATGTAT
1 TATGTAAGTTATGTAT
10986342 TATGTAAGTTA--T-T
1 TATGTAAGTTATGTAT
* * **
10986355 TAAGTTAGTTATCAAAGT
1 TATGTAAGTTAT-GTA-T
10986373 TATGT-A-TTATGTAAGT
1 TATGTAAGTTATGT-A-T
* *
10986389 TATTTAAGTTATGTAA
1 TATGTAAGTTATGTAT
* *
10986405 CATGTAAATTATGTAAGT
1 TATGTAAGTTATGT-A-T
* *
10986423 TATGTAGGCTATGTATGT
1 TATGTAAGTTATGTA--T
* *
10986441 TAAGTAAGTAATGTAT
1 TATGTAAGTTATGTAT
* *
10986457 TATGTAAGTTGTCTAT
1 TATGTAAGTTATGTAT
* * **
10986473 AATGTTAGTTATCAAAGT
1 TATGTAAGTTAT-GTA-T
* *
10986491 TATAT-A-TTATGTGT
1 TATGTAAGTTATGTAT
* * *
10986505 T-T-CAATTTAAG--T
1 TATGTAAGTTATGTAT
*
10986517 TATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAT
*
10986533 TATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAT
10986549 TATGTAAGTTAT
1 TATGTAAGTTAT
10986561 TAAAAATTGA
Statistics
Matches: 190, Mismatches: 46, Indels: 52
0.66 0.16 0.18
Matches are distributed among these distances:
11 1 0.01
12 7 0.04
13 16 0.08
14 15 0.08
15 7 0.04
16 99 0.52
17 7 0.04
18 38 0.20
ACGTcount: A:0.32, C:0.03, G:0.18, T:0.47
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:10986397 original size:25 final size:25
Alignment explanation
Indices: 10986369--10986466 Score: 106
Period size: 25 Copynumber: 3.8 Consensus size: 25
10986359 TTAGTTATCA
*
10986369 AAGTTATGTATTATGTAAGTTATTT
1 AAGTTATGTATTATGTAAGTTATGT
** *
10986394 AAGTTATGTAACATGTAAATTATGT
1 AAGTTATGTATTATGTAAGTTATGT
* * *
10986419 AAGTTATGTAGGCTATGTATGTTAAGT
1 AAGTTATGTA--TTATGTAAGTTATGT
*
10986446 AAGTAATGTATTATGTAAGTT
1 AAGTTATGTATTATGTAAGTT
10986467 GTCTATAATG
Statistics
Matches: 59, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
25 40 0.68
27 19 0.32
ACGTcount: A:0.35, C:0.02, G:0.19, T:0.44
Consensus pattern (25 bp):
AAGTTATGTATTATGTAAGTTATGT
Found at i:10986692 original size:121 final size:121
Alignment explanation
Indices: 10986563--10986894 Score: 574
Period size: 121 Copynumber: 2.7 Consensus size: 121
10986553 TAAGTTATTA
* *
10986563 AAAATTGAAATGTAGGATATATATCCATACCATATATGGGGTGATATATTAAAAATATAGGTTTT
1 AAAATTGAAATATAGGTTATATATCCATACCATATATGGGGTGATATATTAAAAATATAGGTTTT
*
10986628 AATATTTAAAAATAACATTTACATTTATTTTTAAAATTATAAAATTCATTTCTAAT
66 AATATTTAAAAATAACATTTACAATTATTTTTAAAATTATAAAATTCATTTCTAAT
* *
10986684 AAAATTGAAATATAGGTTATATATCCATACCACATATGGGGTGATACATTAAAAATATAGGTTTT
1 AAAATTGAAATATAGGTTATATATCCATACCATATATGGGGTGATATATTAAAAATATAGGTTTT
* *
10986749 ATTATTTAAAAATAACATTTACAATTATTTTTAAAATTATAAAATTTATTTCTAAT
66 AATATTTAAAAATAACATTTACAATTATTTTTAAAATTATAAAATTCATTTCTAAT
* * *
10986805 AAAATTGAAATATAGGTTATACATCCATACCATATATGGGGTGATATATTAGAAATATAAGTTTT
1 AAAATTGAAATATAGGTTATATATCCATACCATATATGGGGTGATATATTAAAAATATAGGTTTT
10986870 AATATTTAAAAATAACATTTACAAT
66 AATATTTAAAAATAACATTTACAAT
10986895 ATCTAGAATA
Statistics
Matches: 198, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
121 198 1.00
ACGTcount: A:0.44, C:0.07, G:0.09, T:0.39
Consensus pattern (121 bp):
AAAATTGAAATATAGGTTATATATCCATACCATATATGGGGTGATATATTAAAAATATAGGTTTT
AATATTTAAAAATAACATTTACAATTATTTTTAAAATTATAAAATTCATTTCTAAT
Found at i:10992764 original size:18 final size:18
Alignment explanation
Indices: 10992741--10992829 Score: 101
Period size: 18 Copynumber: 4.8 Consensus size: 18
10992731 ATATATAAAG
10992741 TTTAAGTAATGTAATATA
1 TTTAAGTAATGTAATATA
10992759 TTTAAGTAATGTAAGTTATAAA
1 TTTAAGTAATGTAA--TAT--A
**
10992781 TTTTTGTAA-GTAATATA
1 TTTAAGTAATGTAATATA
10992798 TTTAAGTAATGTAATATA
1 TTTAAGTAATGTAATATA
*
10992816 TTTTAGTAA-GTAAT
1 TTTAAGTAATGTAAT
10992830 GTAAGTAATG
Statistics
Matches: 61, Mismatches: 5, Indels: 11
0.79 0.06 0.14
Matches are distributed among these distances:
17 13 0.21
18 30 0.49
19 3 0.05
20 3 0.05
21 4 0.07
22 8 0.13
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (18 bp):
TTTAAGTAATGTAATATA
Found at i:10992819 original size:35 final size:37
Alignment explanation
Indices: 10992745--10992978 Score: 177
Period size: 39 Copynumber: 6.0 Consensus size: 37
10992735 ATAAAGTTTA
10992745 AGTAATGTAATATATTTAAGTAATGTAAGTTATAAATTTT
1 AGTAA-GTAATATATTTAAGTAATGTAAG-TAT-AATTTT
*
10992785 TGTAAGTAATATATTTAAGTAATGTAA-TAT-ATTTT
1 AGTAAGTAATATATTTAAGTAATGTAAGTATAATTTT
* ** * * *
10992820 AGTAAGTAATGTAAGTAATGTAATATATACTTTAATTTT
1 AGTAAGTAATATATTTAA-GTAATGTA-AGTATAATTTT
* * * ** *
10992859 AGTAAGTTATGTATTTAAGTAATATATTTAATCCAATTCT
1 AGTAAGTAATATATTTAAGTAATGTAAGT-AT--AATTTT
* *
10992899 AGTAAGTAATGTATTTAAGTAATATATTTAAGTA-AATTTT
1 AGTAAGTAATATATTTAAG---TA-ATGTAAGTATAATTTT
*
10992939 AGTAATTAATATATTTAAGTAATGTAAGTTATAAATTTT
1 AGTAAGTAATATATTTAAGTAATGTAAG-TAT-AATTTT
10992978 A
1 A
10992979 AAAATATATA
Statistics
Matches: 158, Mismatches: 22, Indels: 29
0.76 0.11 0.14
Matches are distributed among these distances:
35 19 0.12
36 13 0.08
37 9 0.06
38 11 0.07
39 49 0.31
40 49 0.31
43 3 0.02
44 5 0.03
ACGTcount: A:0.41, C:0.02, G:0.12, T:0.45
Consensus pattern (37 bp):
AGTAAGTAATATATTTAAGTAATGTAAGTATAATTTT
Found at i:10992824 original size:31 final size:31
Alignment explanation
Indices: 10992743--10992847 Score: 100
Period size: 31 Copynumber: 3.5 Consensus size: 31
10992733 ATATAAAGTT
10992743 TAAGTAATGTAATATA--TT--TAAGTAATG
1 TAAGTAATGTAATATATTTTAGTAAGTAATG
* * *
10992770 TAAGT--TATAA-ATTTTTGTAAGTAA-TATATT
1 TAAGTAATGTAATATATTT-T-AGTAAGTA-ATG
10992800 TAAGTAATGTAATATATTTTAGTAAGTAATG
1 TAAGTAATGTAATATATTTTAGTAAGTAATG
10992831 TAAGTAATGTAATATAT
1 TAAGTAATGTAATATAT
10992848 ACTTTAATTT
Statistics
Matches: 61, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
24 2 0.03
25 4 0.07
26 1 0.02
27 6 0.10
29 2 0.03
30 10 0.16
31 24 0.39
32 7 0.11
33 5 0.08
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.44
Consensus pattern (31 bp):
TAAGTAATGTAATATATTTTAGTAAGTAATG
Found at i:10992886 original size:13 final size:13
Alignment explanation
Indices: 10992870--10992961 Score: 73
Period size: 13 Copynumber: 6.9 Consensus size: 13
10992860 GTAAGTTATG
10992870 TATTTAAGTAATA
1 TATTTAAGTAATA
10992883 TATTTAA-TCCAAT-
1 TATTTAAGT--AATA
* * *
10992896 TCTAGTAAGTAATG
1 TAT-TTAAGTAATA
10992910 TATTTAAGTAATA
1 TATTTAAGTAATA
10992923 TATTTAAGTAA-A
1 TATTTAAGTAATA
* *
10992935 TTTTAGTAATTAATA
1 TATT--TAAGTAATA
10992950 TATTTAAGTAAT
1 TATTTAAGTAAT
10992962 GTAAGTTATA
Statistics
Matches: 62, Mismatches: 9, Indels: 16
0.71 0.10 0.18
Matches are distributed among these distances:
12 5 0.08
13 38 0.61
14 14 0.23
15 5 0.08
ACGTcount: A:0.42, C:0.03, G:0.09, T:0.46
Consensus pattern (13 bp):
TATTTAAGTAATA
Found at i:10992911 original size:40 final size:39
Alignment explanation
Indices: 10992855--10992978 Score: 151
Period size: 40 Copynumber: 3.1 Consensus size: 39
10992845 TATACTTTAA
* *
10992855 TTTTAGTAAGTTATGTATTTAAGTAATATATTTAATCCAA
1 TTTTAGTAAGTAATGTATTTAAGTAATATATTTAAT-AAA
*
10992895 TTCTAGTAAGTAATGTATTTAAGTAATATATTTAAGTAAA
1 TTTTAGTAAGTAATGTATTTAAGTAATATATTTAA-TAAA
* * * *
10992935 TTTTAGTAATTAATATATTTAAGTAATGTAAGTT-ATAAA
1 TTTTAGTAAGTAATGTATTTAAGTAATAT-ATTTAATAAA
10992974 TTTTA
1 TTTTA
10992979 AAAATATATA
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
39 9 0.12
40 61 0.82
41 4 0.05
ACGTcount: A:0.40, C:0.02, G:0.10, T:0.47
Consensus pattern (39 bp):
TTTTAGTAAGTAATGTATTTAAGTAATATATTTAATAAA
Found at i:10995728 original size:41 final size:40
Alignment explanation
Indices: 10995683--10995784 Score: 150
Period size: 41 Copynumber: 2.5 Consensus size: 40
10995673 TGATTCAGTA
10995683 CACCGGCACTTAGCCTGCTAGACATATAGTCTGAAATATTT
1 CACCGGCA-TTAGCCTGCTAGACATATAGTCTGAAATATTT
* *
10995724 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAGTGTTT
1 CACCGGCATT-AGCCTGCTAGACATATAGTCTGAAATATTT
*
10995765 CACCGGCAATAAGCCTGCTA
1 CACCGGC-ATTAGCCTGCTA
10995785 AGCGCTATGC
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
40 2 0.04
41 52 0.93
42 2 0.04
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.26
Consensus pattern (40 bp):
CACCGGCATTAGCCTGCTAGACATATAGTCTGAAATATTT
Found at i:10999420 original size:15 final size:15
Alignment explanation
Indices: 10999399--10999493 Score: 51
Period size: 14 Copynumber: 6.5 Consensus size: 15
10999389 ATTAATTGAC
10999399 ACCCTAAA-CCCTAA
1 ACCCTAAATCCCTAA
*
10999413 ATCCCT-AACCCCT-A
1 A-CCCTAAATCCCTAA
*
10999427 ACCCTTAAATTCCTTAA
1 ACCC-TAAA-TCCCTAA
*
10999444 CCCCTAAATCCCT-A
1 ACCCTAAATCCCTAA
10999458 ACCC-ATAA-CCCATAA
1 ACCCTA-AATCCC-TAA
* *
10999473 ACCTTATATCCC-AA
1 ACCCTAAATCCCTAA
10999487 ACCCTAA
1 ACCCTAA
10999494 TAATCATATA
Statistics
Matches: 61, Mismatches: 9, Indels: 22
0.66 0.10 0.24
Matches are distributed among these distances:
13 7 0.11
14 20 0.33
15 19 0.31
16 11 0.18
17 4 0.07
ACGTcount: A:0.37, C:0.41, G:0.00, T:0.22
Consensus pattern (15 bp):
ACCCTAAATCCCTAA
Found at i:10999446 original size:16 final size:15
Alignment explanation
Indices: 10999400--10999461 Score: 56
Period size: 15 Copynumber: 4.1 Consensus size: 15
10999390 TTAATTGACA
*
10999400 CCCTAAA-CCCTAAAT
1 CCCTAAATCCCT-AAC
*
10999415 CCCT-AACCCCTAAC
1 CCCTAAATCCCTAAC
* *
10999429 CCTTAAATTCCTTAAC
1 CCCTAAA-TCCCTAAC
10999445 CCCTAAATCCCTAAC
1 CCCTAAATCCCTAAC
10999460 CC
1 CC
10999462 ATAACCCATA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
14 7 0.18
15 19 0.50
16 12 0.32
ACGTcount: A:0.32, C:0.45, G:0.00, T:0.23
Consensus pattern (15 bp):
CCCTAAATCCCTAAC
Found at i:11000189 original size:19 final size:20
Alignment explanation
Indices: 11000165--11000209 Score: 67
Period size: 18 Copynumber: 2.4 Consensus size: 20
11000155 GAAAAATTAT
11000165 ATTTTTTATTTTT-TATTTC
1 ATTTTTTATTTTTGTATTTC
*
11000184 A-TTTTTATTTTTGTATTTT
1 ATTTTTTATTTTTGTATTTC
11000203 ATTTTTT
1 ATTTTTT
11000210 CTTATAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 11 0.48
19 7 0.30
20 5 0.22
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.80
Consensus pattern (20 bp):
ATTTTTTATTTTTGTATTTC
Found at i:11000631 original size:20 final size:20
Alignment explanation
Indices: 11000594--11000633 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
11000584 CTAACTCCTA
*
11000594 ACCCCTAAACCTTAAATCCC
1 ACCCCTAAACCATAAATCCC
11000614 ACCCCTTAAACCAT-AATCCC
1 ACCCC-TAAACCATAAATCCC
11000634 TAAATCCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.35, C:0.45, G:0.00, T:0.20
Consensus pattern (20 bp):
ACCCCTAAACCATAAATCCC
Found at i:11001628 original size:41 final size:41
Alignment explanation
Indices: 11001540--11001777 Score: 297
Period size: 41 Copynumber: 5.8 Consensus size: 41
11001530 TTATTATTAC
* * * *
11001540 TAGCGGCGCTTTTTTAAAAACG-CACTAAAGGCCATAGCAA
1 TAGCGGCGCTTCTTTAAAAACGCCGCTAAAGGCCAGAGCAT
* ** *
11001580 TACCGGCGCTTCTTTAAAAACGCCGCTAAAGATCTGAGCAT
1 TAGCGGCGCTTCTTTAAAAACGCCGCTAAAGGCCAGAGCAT
* * *
11001621 TAGCGGCGCTTCTTCAAAAACGCCGCTAAAAGACAGAGCAT
1 TAGCGGCGCTTCTTTAAAAACGCCGCTAAAGGCCAGAGCAT
11001662 TAGCGGCGCTT-TTTCAAAAACGCCGCTAAAGGCCAGAGCAT
1 TAGCGGCGCTTCTTT-AAAAACGCCGCTAAAGGCCAGAGCAT
*
11001703 TAGCGGCGCTTAC-TCAAAAACGCCGCTAAAGGCCAGAGCAT
1 TAGCGGCGCTT-CTTTAAAAACGCCGCTAAAGGCCAGAGCAT
11001744 TAGCGGCG-TT-TTTGAATAAACGCCGCTAAAGGCC
1 TAGCGGCGCTTCTTT-AA-AAACGCCGCTAAAGGCC
11001778 CCAAAAACTC
Statistics
Matches: 172, Mismatches: 19, Indels: 13
0.84 0.09 0.06
Matches are distributed among these distances:
39 1 0.01
40 26 0.15
41 144 0.84
42 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.23, T:0.20
Consensus pattern (41 bp):
TAGCGGCGCTTCTTTAAAAACGCCGCTAAAGGCCAGAGCAT
Found at i:11001765 original size:123 final size:122
Alignment explanation
Indices: 11001540--11001773 Score: 328
Period size: 123 Copynumber: 1.9 Consensus size: 122
11001530 TTATTATTAC
* * *
11001540 TAGCGGCGCTTTTTTAAAAACGCACTAAAGGCCATAGCAATACCGGCGCTTCTTTAAAAACGCCG
1 TAGCGGCGCTTTTTCAAAAACGCACTAAAGGCCAGAGCAATACCGGCGCTTCTTCAAAAACGCCG
* *
11001605 CTAAAGATCTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAAGACAGAGCAT
66 CTAAAGACCAGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAAGACAGAGCAT
* * *
11001662 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCAGAGCATTAGCGGCGCTTAC-TCAAAAACGC
1 TAGCGGCGCTTTTTCAAAAACG-CACTAAAGGCCAGAGCAATACCGGCGCTT-CTTCAAAAACGC
* * *
11001726 CGCTAAAGGCCAGAGCATTAGCGGCG-TTTTTGAATAAACGCCGCTAAA
64 CGCTAAAGACCAGAGCATTAGCGGCGCTTCTTCAA-AAACGCCGCTAAA
11001774 GGCCCCAAAA
Statistics
Matches: 98, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
122 27 0.28
123 70 0.71
124 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.22, T:0.21
Consensus pattern (122 bp):
TAGCGGCGCTTTTTCAAAAACGCACTAAAGGCCAGAGCAATACCGGCGCTTCTTCAAAAACGCCG
CTAAAGACCAGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAAGACAGAGCAT
Found at i:11001938 original size:40 final size:40
Alignment explanation
Indices: 11001832--11001950 Score: 134
Period size: 40 Copynumber: 3.0 Consensus size: 40
11001822 TCGCTTTTCA
* * *
11001832 GAAAA-CGCCACTAATGCT-TATTTTTATCGGCGTTTTTG
1 GAAAAGCGCCGCTAATGCTCTATTTTTAGCGGCGTTTTTT
* * **
11001870 GATAAGCGCCGCTAATGTTCTACCTTTAGCGGCGTTTTTT
1 GAAAAGCGCCGCTAATGCTCTATTTTTAGCGGCGTTTTTT
* * *
11001910 TAAAAGCGCCGCTAATGCTCGATTTTTAGTGGCGTTTTTT
1 GAAAAGCGCCGCTAATGCTCTATTTTTAGCGGCGTTTTTT
11001950 G
1 G
11001951 TCCAAACGCC
Statistics
Matches: 64, Mismatches: 15, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
38 4 0.06
39 11 0.17
40 49 0.77
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.39
Consensus pattern (40 bp):
GAAAAGCGCCGCTAATGCTCTATTTTTAGCGGCGTTTTTT
Found at i:11001961 original size:41 final size:39
Alignment explanation
Indices: 11001834--11001965 Score: 117
Period size: 40 Copynumber: 3.3 Consensus size: 39
11001824 GCTTTTCAGA
* *
11001834 AAACGCCACTAATGCT-TATTTTTA-TCGGCGTTTTTGGAT
1 AAACGCCGCTAATGCTCTATTTTTAGT-GGCGTTTTTTG-T
* * ** *
11001873 AAGCGCCGCTAATGTTCTACCTTTAGCGGCGTTTTTT-T
1 AAACGCCGCTAATGCTCTATTTTTAGTGGCGTTTTTTGT
*
11001911 AAAAGCGCCGCTAATGCTCGATTTTTAGTGGCGTTTTTTGT
1 -AAA-CGCCGCTAATGCTCTATTTTTAGTGGCGTTTTTTGT
11001952 CCAAACGCCGCTAA
1 --AAACGCCGCTAA
11001966 AAGCCTGTTT
Statistics
Matches: 73, Mismatches: 14, Indels: 10
0.75 0.14 0.10
Matches are distributed among these distances:
38 1 0.01
39 15 0.21
40 44 0.60
41 10 0.14
42 3 0.04
ACGTcount: A:0.21, C:0.22, G:0.20, T:0.36
Consensus pattern (39 bp):
AAACGCCGCTAATGCTCTATTTTTAGTGGCGTTTTTTGT
Found at i:11006538 original size:12 final size:12
Alignment explanation
Indices: 11006521--11006545 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11006511 ACTTTCCATC
11006521 ACAATCATCAGA
1 ACAATCATCAGA
11006533 ACAATCATCAGA
1 ACAATCATCAGA
11006545 A
1 A
11006546 ACTCTCTCAG
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:0.52, C:0.24, G:0.08, T:0.16
Consensus pattern (12 bp):
ACAATCATCAGA
Found at i:11014417 original size:16 final size:16
Alignment explanation
Indices: 11014396--11014431 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
11014386 TGGTTCGCTT
11014396 TAATGGAATAGAGGCG
1 TAATGGAATAGAGGCG
11014412 TAATGGAATAGAGGCG
1 TAATGGAATAGAGGCG
11014428 TAAT
1 TAAT
11014432 AGCAATTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.06, G:0.33, T:0.22
Consensus pattern (16 bp):
TAATGGAATAGAGGCG
Found at i:11014515 original size:39 final size:43
Alignment explanation
Indices: 11014411--11014519 Score: 129
Period size: 45 Copynumber: 2.6 Consensus size: 43
11014401 GAATAGAGGC
11014411 GTAATGGAATAGAGGCGTAATAGCAATTCAATTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGCAATTCAATTGTTTGGTT--AT
* * *
11014456 GTAATGGAATAGAGGTGTAATAG-TATTC-TTGTGTTTGG-T-T
1 GTAATGGAATAGAGGCGTAATAGCAATTCAAT-TGTTTGGTTAT
11014496 G-AATGGAATAGAGGCGTAATAGCA
1 GTAATGGAATAGAGGCGTAATAGCA
11014520 GAAGAAAAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
39 20 0.35
40 2 0.04
43 2 0.04
44 11 0.19
45 22 0.39
ACGTcount: A:0.32, C:0.06, G:0.29, T:0.33
Consensus pattern (43 bp):
GTAATGGAATAGAGGCGTAATAGCAATTCAATTGTTTGGTTAT
Done.