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 137 of 189
Found at i:41589858 original size:18 final size:18
Alignment explanation
Indices: 41589811--41589863 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
41589801 TTTCAATTTC
* *
41589811 TTTTTCAATCTCTTTTTG
1 TTTTTAAATCTCATTTTG
* *
41589829 TTTTTCACTCTC-TTTTG
1 TTTTTAAATCTCATTTTG
41589846 TTTTTGAAATCTCATTTT
1 TTTTT-AAATCTCATTTT
41589864 CATATTTTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
17 10 0.33
18 16 0.53
19 4 0.13
ACGTcount: A:0.13, C:0.17, G:0.06, T:0.64
Consensus pattern (18 bp):
TTTTTAAATCTCATTTTG
Found at i:41600520 original size:14 final size:14
Alignment explanation
Indices: 41600501--41600527 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
41600491 TGCATCTCTC
41600501 CATGCATGAATCTA
1 CATGCATGAATCTA
41600515 CATGCATGAATCT
1 CATGCATGAATCT
41600528 GCCCAATGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (14 bp):
CATGCATGAATCTA
Found at i:41605346 original size:20 final size:20
Alignment explanation
Indices: 41605294--41605357 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
41605284 GCTCAAAGAA
* *
41605294 AGCTAAATTGAGCTCCAATG
1 AGCTGAATTGAGCTCAAATG
41605314 AGCTGAATTGAGCTCAAATG
1 AGCTGAATTGAGCTCAAATG
* * *
41605334 AGTTG-ATTGGAGCTGAAACG
1 AGCTGAATT-GAGCTCAAATG
41605354 AGCT
1 AGCT
41605358 AAAGGGGCTG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
19 3 0.08
20 34 0.92
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.25
Consensus pattern (20 bp):
AGCTGAATTGAGCTCAAATG
Found at i:41607449 original size:16 final size:17
Alignment explanation
Indices: 41607412--41607450 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
41607402 TTTTCTTTCG
41607412 TTTCTTTTTCATCATCTT
1 TTTCTTTTTCA-CATCTT
*
41607430 TTTCTTTTTCA-ATTTT
1 TTTCTTTTTCACATCTT
41607446 TTTCT
1 TTTCT
41607451 CAATCTCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 9 0.45
18 11 0.55
ACGTcount: A:0.10, C:0.18, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTCTTTTTCACATCTT
Found at i:41607459 original size:18 final size:18
Alignment explanation
Indices: 41607438--41607472 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
41607428 TTTTTCTTTT
41607438 TCAATTT-TTTTCTCAATC
1 TCAATTTATTTT-TCAATC
41607456 TCAATTTATTTTTCAAT
1 TCAATTTATTTTTCAAT
41607473 TTTCTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.26, C:0.17, G:0.00, T:0.57
Consensus pattern (18 bp):
TCAATTTATTTTTCAATC
Found at i:41607523 original size:18 final size:18
Alignment explanation
Indices: 41607502--41607543 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
41607492 TTTTCTCTCA
*
41607502 CTTTTTCGATTTCTTTTT
1 CTTTTTCAATTTCTTTTT
*
41607520 CTTTTGCAATTTCTTTTT
1 CTTTTTCAATTTCTTTTT
41607538 CTTTTT
1 CTTTTT
41607544 TTTTCACATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.07, C:0.17, G:0.05, T:0.71
Consensus pattern (18 bp):
CTTTTTCAATTTCTTTTT
Found at i:41607532 original size:24 final size:24
Alignment explanation
Indices: 41607482--41607547 Score: 62
Period size: 24 Copynumber: 2.8 Consensus size: 24
41607472 TTTTCTTTTC
* * **
41607482 TTCGATTTCTTTTTCTCTCACTTT
1 TTCGATTTCTTTTTCTTTTACAAT
*
41607506 TTCGATTTCTTTTTCTTTTGCAAT
1 TTCGATTTCTTTTTCTTTTACAAT
**
41607530 TTCTTTTTCTTTTT-TTTT
1 TTCGATTTCTTTTTCTTTT
41607548 CACATACTGT
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
23 4 0.11
24 31 0.89
ACGTcount: A:0.08, C:0.18, G:0.05, T:0.70
Consensus pattern (24 bp):
TTCGATTTCTTTTTCTTTTACAAT
Found at i:41609935 original size:20 final size:19
Alignment explanation
Indices: 41609907--41609960 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
41609897 GCTCAAAGAA
*
41609907 AGCTAAATTGAGCTCCAATG
1 AGCT-AATTGAGCTCAAATG
41609927 AGCTGAATTGAGCTCAAATG
1 AGCT-AATTGAGCTCAAATG
41609947 AGCTAATTGGAGCT
1 AGCTAATT-GAGCT
41609961 GAAACAAGCT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.13
20 27 0.87
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (19 bp):
AGCTAATTGAGCTCAAATG
Found at i:41615429 original size:28 final size:28
Alignment explanation
Indices: 41615397--41615479 Score: 89
Period size: 28 Copynumber: 3.0 Consensus size: 28
41615387 ATCGGCAGTA
*
41615397 GCTAGGACATAATAAAAATATGTTTTAG
1 GCTAGGACATAATAAAAATATGTATTAG
* *
41615425 TCTAGGACA-AATTAATAATATGTATTAG
1 GCTAGGACATAA-TAAAAATATGTATTAG
* *
41615453 GCTATGACATATTAAAAACT-TGTATTA
1 GCTAGGACATAATAAAAA-TATGTATTA
41615480 AAATAAGACA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
27 2 0.04
28 41 0.91
29 2 0.04
ACGTcount: A:0.42, C:0.08, G:0.14, T:0.35
Consensus pattern (28 bp):
GCTAGGACATAATAAAAATATGTATTAG
Found at i:41615489 original size:28 final size:29
Alignment explanation
Indices: 41615458--41615519 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 29
41615448 ATTAGGCTAT
* *
41615458 GACATATTAAAAACTT-GTATTAAAATAA
1 GACATATTAAAAACTTAATAATAAAATAA
* *
41615486 GACATATTAAACACTTAATAATAAAATCA
1 GACATATTAAAAACTTAATAATAAAATAA
41615515 GACAT
1 GACAT
41615520 TTTTTTTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 15 0.52
29 14 0.48
ACGTcount: A:0.53, C:0.11, G:0.06, T:0.29
Consensus pattern (29 bp):
GACATATTAAAAACTTAATAATAAAATAA
Found at i:41615889 original size:34 final size:34
Alignment explanation
Indices: 41615851--41615947 Score: 90
Period size: 29 Copynumber: 3.1 Consensus size: 34
41615841 TAAAGTCATG
41615851 CATTATGTAACTTTCATGTTAGTTAAGTTTGCAT
1 CATTATGTAACTTTCATGTTAGTTAAGTTTGCAT
* *
41615885 CATTA---AA--TT-AAGTCATGTT-AGTTT--A-
1 CATTATGTAACTTTCATGTTA-GTTAAGTTTGCAT
41615910 -ATTATGTAACTTTCATGTTAGTTAAGTTTGCAT
1 CATTATGTAACTTTCATGTTAGTTAAGTTTGCAT
41615943 CATTA
1 CATTA
41615948 AATTAAGTCA
Statistics
Matches: 47, Mismatches: 4, Indels: 24
0.63 0.05 0.32
Matches are distributed among these distances:
24 4 0.09
26 1 0.02
27 2 0.04
28 9 0.19
29 10 0.21
30 9 0.19
31 2 0.04
32 1 0.02
34 9 0.19
ACGTcount: A:0.30, C:0.10, G:0.13, T:0.46
Consensus pattern (34 bp):
CATTATGTAACTTTCATGTTAGTTAAGTTTGCAT
Found at i:41615901 original size:33 final size:33
Alignment explanation
Indices: 41615864--41615959 Score: 102
Period size: 33 Copynumber: 3.2 Consensus size: 33
41615854 TATGTAACTT
41615864 TCATGTTAGTTAAGTTTGCATCATTAAATTAAG
1 TCATGTTAGTTAAGTTTGCATCATTAAATTAAG
* *
41615897 TCATGTTAGTTTAA--TT--AT--GTAACTT---
1 TCATGTTAG-TTAAGTTTGCATCATTAAATTAAG
41615922 TCATGTTAGTTAAGTTTGCATCATTAAATTAAG
1 TCATGTTAGTTAAGTTTGCATCATTAAATTAAG
41615955 TCATG
1 TCATG
41615960 CATTAACTCA
Statistics
Matches: 49, Mismatches: 4, Indels: 20
0.67 0.05 0.27
Matches are distributed among these distances:
24 4 0.08
25 9 0.18
26 2 0.04
28 7 0.14
30 7 0.14
32 2 0.04
33 14 0.29
34 4 0.08
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (33 bp):
TCATGTTAGTTAAGTTTGCATCATTAAATTAAG
Found at i:41621376 original size:23 final size:23
Alignment explanation
Indices: 41621350--41621411 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
41621340 TTGAACCATA
**
41621350 ACCATTTCGTACCAAATCGTATT
1 ACCATTTCGTACCAAATCACATT
*
41621373 ACCATTTCGAACCAAATCACATT
1 ACCATTTCGTACCAAATCACATT
*
41621396 ACCATTTCGTAACAAA
1 ACCATTTCGTACCAAA
41621412 CCCAAAACTG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.29
Consensus pattern (23 bp):
ACCATTTCGTACCAAATCACATT
Found at i:41623943 original size:18 final size:18
Alignment explanation
Indices: 41623899--41623961 Score: 58
Period size: 18 Copynumber: 3.3 Consensus size: 18
41623889 TCAAATGAGA
41623899 GAAAAAGAAAAGAGCGAAAAT
1 GAAAAAGAAAAGA---AAAAT
41623920 -ACAAAAGAAAAGAAAAAT
1 GA-AAAAGAAAAGAAAAAT
*
41623938 GAAAAAAAGAAAG-AAAAT
1 GAAAAAGA-AAAGAAAAAT
41623956 GAAAAA
1 GAAAAA
41623962 AATGAAAATG
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
18 21 0.55
19 5 0.13
20 1 0.03
21 11 0.29
ACGTcount: A:0.75, C:0.03, G:0.17, T:0.05
Consensus pattern (18 bp):
GAAAAAGAAAAGAAAAAT
Found at i:41623947 original size:15 final size:15
Alignment explanation
Indices: 41623927--41623978 Score: 61
Period size: 15 Copynumber: 3.3 Consensus size: 15
41623917 AATACAAAAG
41623927 AAAAGAAAAATGAAA
1 AAAAGAAAAATGAAA
41623942 AAAAGAAAGAAAATGAAA
1 AAAAG--A-AAAATGAAA
41623960 AAAATG-AAAATGAAA
1 AAAA-GAAAAATGAAA
41623975 AAAA
1 AAAA
41623979 AGCGAGAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
15 18 0.55
17 1 0.03
18 13 0.39
19 1 0.03
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.08
Consensus pattern (15 bp):
AAAAGAAAAATGAAA
Found at i:41623962 original size:18 final size:19
Alignment explanation
Indices: 41623922--41623968 Score: 69
Period size: 18 Copynumber: 2.4 Consensus size: 19
41623912 GCGAAAATAC
41623922 AAAAGAAAAGAAAAATGAAA
1 AAAAG-AAAGAAAAATGAAA
41623942 AAAAGAAAG-AAAATGAAA
1 AAAAGAAAGAAAAATGAAA
41623960 AAAATGAAA
1 AAAA-GAAA
41623969 ATGAAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 13 0.50
19 8 0.31
20 5 0.19
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.06
Consensus pattern (19 bp):
AAAAGAAAGAAAAATGAAA
Found at i:41623970 original size:33 final size:32
Alignment explanation
Indices: 41623933--41624009 Score: 100
Period size: 33 Copynumber: 2.3 Consensus size: 32
41623923 AAAGAAAAGA
41623933 AAAATGAAAAAAAGAAAGAAAATGAAAAAAATG
1 AAAATGAAAAAAAGAAAGAAAA-GAAAAAAATG
** *
41623966 AAAATGAAAAAAAAGCGAGAAAAGAAAAAGATG
1 AAAATG-AAAAAAAGAAAGAAAAGAAAAAAATG
*
41623999 AAAAAGAAAAA
1 AAAATGAAAAA
41624010 GTGAGTGAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
32 5 0.13
33 20 0.51
34 14 0.36
ACGTcount: A:0.75, C:0.01, G:0.17, T:0.06
Consensus pattern (32 bp):
AAAATGAAAAAAAGAAAGAAAAGAAAAAAATG
Found at i:41623978 original size:9 final size:9
Alignment explanation
Indices: 41623932--41623969 Score: 60
Period size: 9 Copynumber: 4.2 Consensus size: 9
41623922 AAAAGAAAAG
41623932 AAAAATGAA
1 AAAAATGAA
41623941 AAAAA-GAA
1 AAAAATGAA
41623949 AGAAAATGAA
1 A-AAAATGAA
41623959 AAAAATGAA
1 AAAAATGAA
41623968 AA
1 AA
41623970 TGAAAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 4 0.15
9 19 0.70
10 4 0.15
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.08
Consensus pattern (9 bp):
AAAAATGAA
Found at i:41623978 original size:18 final size:17
Alignment explanation
Indices: 41623922--41623979 Score: 66
Period size: 18 Copynumber: 3.4 Consensus size: 17
41623912 GCGAAAATAC
*
41623922 AAAAGAAAAGAAAAATGA
1 AAAAAAAAAG-AAAATGA
41623940 AAAAAAGAAAGAAAATG-
1 AAAAAA-AAAGAAAATGA
*
41623957 -AAAAAAATGAAAATGA
1 AAAAAAAAAGAAAATGA
41623973 AAAAAAA
1 AAAAAAA
41623980 GCGAGAAAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
15 9 0.26
16 5 0.14
17 6 0.17
18 11 0.31
19 4 0.11
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.07
Consensus pattern (17 bp):
AAAAAAAAAGAAAATGA
Found at i:41627183 original size:18 final size:20
Alignment explanation
Indices: 41627148--41627184 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
41627138 CAAAAAGAAG
41627148 GGTAGGAAACAAGAGAAATC
1 GGTAGGAAACAAGAGAAATC
*
41627168 GGTAGTAAA-AAG-GAAAT
1 GGTAGGAAACAAGAGAAAT
41627185 GAGGGAATCG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 5 0.31
19 3 0.19
20 8 0.50
ACGTcount: A:0.51, C:0.05, G:0.30, T:0.14
Consensus pattern (20 bp):
GGTAGGAAACAAGAGAAATC
Found at i:41630371 original size:5 final size:5
Alignment explanation
Indices: 41630361--41630405 Score: 54
Period size: 5 Copynumber: 8.4 Consensus size: 5
41630351 ATGCTCGTGA
*
41630361 AAAAG AAAAG AAAAG AAAAG AAAAAG AACAAA AAAAG AAGAAG AA
1 AAAAG AAAAG AAAAG AAAAG -AAAAG AA-AAG AAAAG AA-AAG AA
41630406 CATATGTACT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
5 21 0.60
6 14 0.40
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:41630385 original size:11 final size:12
Alignment explanation
Indices: 41630359--41630405 Score: 57
Period size: 11 Copynumber: 4.2 Consensus size: 12
41630349 AAATGCTCGT
41630359 GAAAAAGAA-AA
1 GAAAAAGAACAA
41630370 G-AAAAGAA-AA
1 GAAAAAGAACAA
41630380 GAAAAAGAACAA
1 GAAAAAGAACAA
*
41630392 -AAAAAGAAGAA
1 GAAAAAGAACAA
41630403 GAA
1 GAA
41630406 CATATGTACT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
10 10 0.31
11 18 0.56
12 4 0.12
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (12 bp):
GAAAAAGAACAA
Found at i:41634754 original size:20 final size:20
Alignment explanation
Indices: 41634726--41634780 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
41634716 ACGGGGTTTG
41634726 CACTTTGGTACCTCTATTTA
1 CACTTTGGTACCTCTATTTA
* * *
41634746 CAGTTTGGTGCCTCTATTTG
1 CACTTTGGTACCTCTATTTA
*
41634766 CACTTCGGTACCTCT
1 CACTTTGGTACCTCT
41634781 GACTCTTTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.15, C:0.27, G:0.16, T:0.42
Consensus pattern (20 bp):
CACTTTGGTACCTCTATTTA
Found at i:41637433 original size:21 final size:21
Alignment explanation
Indices: 41637409--41637474 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
41637399 CACATACGTG
41637409 CCCTTGTTTGTACTTCGGTAC
1 CCCTTGTTTGTACTTCGGTAC
* * ** *
41637430 CCC-TGAATTGTACATATGT-G
1 CCCTTG-TTTGTACTTCGGTAC
*
41637450 CCCTTGTTTGTACTTCGATAC
1 CCCTTGTTTGTACTTCGGTAC
41637471 CCCT
1 CCCT
41637475 GAATTGCACA
Statistics
Matches: 31, Mismatches: 11, Indels: 6
0.65 0.23 0.12
Matches are distributed among these distances:
20 13 0.42
21 18 0.58
ACGTcount: A:0.15, C:0.29, G:0.17, T:0.39
Consensus pattern (21 bp):
CCCTTGTTTGTACTTCGGTAC
Found at i:41637457 original size:41 final size:41
Alignment explanation
Indices: 41637396--41637511 Score: 187
Period size: 41 Copynumber: 2.8 Consensus size: 41
41637386 TAATGATGAT
*
41637396 TTGCACATACGTGCCCTTGTTTGTACTTCGGTACCCCTGAA
1 TTGCACATATGTGCCCTTGTTTGTACTTCGGTACCCCTGAA
* *
41637437 TTGTACATATGTGCCCTTGTTTGTACTTCGATACCCCTGAA
1 TTGCACATATGTGCCCTTGTTTGTACTTCGGTACCCCTGAA
* *
41637478 TTGCACATATGTGCCCCTGTTTGTACTTTGGTAC
1 TTGCACATATGTGCCCTTGTTTGTACTTCGGTAC
41637512 TCCTAGATGT
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 68 1.00
ACGTcount: A:0.17, C:0.26, G:0.19, T:0.38
Consensus pattern (41 bp):
TTGCACATATGTGCCCTTGTTTGTACTTCGGTACCCCTGAA
Found at i:41637460 original size:20 final size:20
Alignment explanation
Indices: 41637395--41637462 Score: 57
Period size: 20 Copynumber: 3.4 Consensus size: 20
41637385 ATAATGATGA
*
41637395 TTTGCACATACGTGCCCTTG
1 TTTGTACATACGTGCCCTTG
* * *
41637415 TTTGTAC-TTCGGTACCCCTG
1 TTTGTACATAC-GTGCCCTTG
* *
41637435 AATTGTACATATGTGCCCTTG
1 -TTTGTACATACGTGCCCTTG
41637456 TTTGTAC
1 TTTGTAC
41637463 TTCGATACCC
Statistics
Matches: 35, Mismatches: 10, Indels: 6
0.69 0.20 0.12
Matches are distributed among these distances:
19 2 0.06
20 19 0.54
21 13 0.37
22 1 0.03
ACGTcount: A:0.16, C:0.25, G:0.19, T:0.40
Consensus pattern (20 bp):
TTTGTACATACGTGCCCTTG
Found at i:41638522 original size:28 final size:28
Alignment explanation
Indices: 41638489--41638568 Score: 142
Period size: 28 Copynumber: 2.9 Consensus size: 28
41638479 AACAGTATAG
41638489 TGTGGGCCTTAGCCCAATACAGTAACAA
1 TGTGGGCCTTAGCCCAATACAGTAACAA
* *
41638517 TGTGGGTCTTAGCCTAATACAGTAACAA
1 TGTGGGCCTTAGCCCAATACAGTAACAA
41638545 TGTGGGCCTTAGCCCAATACAGTA
1 TGTGGGCCTTAGCCCAATACAGTA
41638569 TCGATACAGT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 48 1.00
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (28 bp):
TGTGGGCCTTAGCCCAATACAGTAACAA
Found at i:41638953 original size:27 final size:25
Alignment explanation
Indices: 41638933--41639099 Score: 165
Period size: 27 Copynumber: 6.3 Consensus size: 25
41638923 GGGTATAATA
*
41638933 GTCATTTTACCCTATGGGGGTATTTC
1 GTCATTTTACCCTGTGGGGGTA-TTC
* * *
41638959 GGTCATTTTA-CCTATAGGAGTAGTTC
1 -GTCATTTTACCCTGTGGGGGTA-TTC
*
41638985 GTTCATTTTACCTTGTGGGGGTAATTC
1 G-TCATTTTACCCTGTGGGGGT-ATTC
41639012 GGTCATTTTACCCTGTGGGGGTATTC
1 -GTCATTTTACCCTGTGGGGGTATTC
41639038 GATCATTTTACCCTGTGGGGGTAATTC
1 G-TCATTTTACCCTGTGGGGGT-ATTC
* *
41639065 GACCATTTTACCCTGTAGGGGTAATTC
1 G-TCATTTTACCCTGTGGGGGT-ATTC
41639092 GATCATTT
1 G-TCATTT
41639100 ATTGACCTCT
Statistics
Matches: 123, Mismatches: 11, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
25 2 0.02
26 45 0.37
27 74 0.60
28 2 0.02
ACGTcount: A:0.18, C:0.18, G:0.25, T:0.40
Consensus pattern (25 bp):
GTCATTTTACCCTGTGGGGGTATTC
Found at i:41638995 original size:53 final size:53
Alignment explanation
Indices: 41638934--41639099 Score: 226
Period size: 53 Copynumber: 3.1 Consensus size: 53
41638924 GGTATAATAG
* * * * *
41638934 TCATTTTACCCTATGGGGGTATTTCGGTCATTTTA-CCTATAGGAGTAGTTCGT
1 TCATTTTACCCTGTGGGGGTAATTCGGTCATTTTACCCTGTAGGGGTA-TTCGA
* *
41638987 TCATTTTACCTTGTGGGGGTAATTCGGTCATTTTACCCTGTGGGGGTATTCGA
1 TCATTTTACCCTGTGGGGGTAATTCGGTCATTTTACCCTGTAGGGGTATTCGA
**
41639040 TCATTTTACCCTGTGGGGGTAATTCGACCATTTTACCCTGTAGGGGTAATTCGA
1 TCATTTTACCCTGTGGGGGTAATTCGGTCATTTTACCCTGTAGGGGT-ATTCGA
41639094 TCATTT
1 TCATTT
41639100 ATTGACCTCT
Statistics
Matches: 100, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
53 79 0.79
54 21 0.21
ACGTcount: A:0.18, C:0.18, G:0.24, T:0.40
Consensus pattern (53 bp):
TCATTTTACCCTGTGGGGGTAATTCGGTCATTTTACCCTGTAGGGGTATTCGA
Found at i:41639072 original size:80 final size:80
Alignment explanation
Indices: 41638933--41639099 Score: 219
Period size: 80 Copynumber: 2.1 Consensus size: 80
41638923 GGGTATAATA
* * ** *
41638933 GTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCTATAGGAGTAGTTCGTTCATTTTACCT
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCTATAGGAGTAATTCGACCATTTTACCC
*
41638998 TGTGGGGGTAATTCG
66 TGTAGGGGTAATTCG
* * * *
41639013 GTCATTTTACCCTGTGGGGGTA-TTCGATCATTTTACCCTGTGGGGGTAATTCGACCATTTTACC
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTA-CCTATAGGAGTAATTCGACCATTTTACC
41639077 CTGTAGGGGTAATTCG
65 CTGTAGGGGTAATTCG
*
41639093 ATCATTT
1 GTCATTT
41639100 ATTGACCTCT
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
79 12 0.16
80 63 0.84
ACGTcount: A:0.18, C:0.18, G:0.25, T:0.40
Consensus pattern (80 bp):
GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCTATAGGAGTAATTCGACCATTTTACCC
TGTAGGGGTAATTCG
Found at i:41645415 original size:10 final size:10
Alignment explanation
Indices: 41645399--41645434 Score: 63
Period size: 10 Copynumber: 3.6 Consensus size: 10
41645389 TAACCTAAAT
41645399 TGAGCTCAAA
1 TGAGCTCAAA
*
41645409 CGAGCTCAAA
1 TGAGCTCAAA
41645419 TGAGCTCAAA
1 TGAGCTCAAA
41645429 TGAGCT
1 TGAGCT
41645435 GATTTGGGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.19
Consensus pattern (10 bp):
TGAGCTCAAA
Found at i:41648292 original size:27 final size:27
Alignment explanation
Indices: 41648251--41648541 Score: 330
Period size: 27 Copynumber: 10.8 Consensus size: 27
41648241 CTACACCAAG
* *
41648251 ACCCCCATAGAGTAAAATGACTAAAAT
1 ACCCCCATAGGGTAAAATGACCAAAAT
* *
41648278 ACCCCCATATGGTAAAATGATCAAAAT
1 ACCCCCATAGGGTAAAATGACCAAAAT
** * *
41648305 ACCCTTATAGGGTAAAATGATCGAAAT
1 ACCCCCATAGGGTAAAATGACCAAAAT
*
41648332 ACCCCCATAGGGTAAAGTGACCAAAAT
1 ACCCCCATAGGGTAAAATGACCAAAAT
* * *
41648359 ACCCTCGTTGGGTAAAATGACCAAAAT
1 ACCCCCATAGGGTAAAATGACCAAAAT
* *
41648386 ACCCTCATAAGGTAAAATGACCAAAAT
1 ACCCCCATAGGGTAAAATGACCAAAAT
* * * *
41648413 TCCCTCATAGAGTAAAATGACCAAAAG
1 ACCCCCATAGGGTAAAATGACCAAAAT
*
41648440 ACCCCCATAGGGTAAAATGACCGAAAT
1 ACCCCCATAGGGTAAAATGACCAAAAT
*** * *
41648467 ACCTTTATAGGGTAGAATGACCGAAAT
1 ACCCCCATAGGGTAAAATGACCAAAAT
* *
41648494 ACCCCTATAGGGTAAAATGATCAAAAT
1 ACCCCCATAGGGTAAAATGACCAAAAT
* *
41648521 ACCCCTATAAGGTAAAATGAC
1 ACCCCCATAGGGTAAAATGAC
41648542 TGTTATACCC
Statistics
Matches: 224, Mismatches: 40, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 224 1.00
ACGTcount: A:0.43, C:0.21, G:0.16, T:0.20
Consensus pattern (27 bp):
ACCCCCATAGGGTAAAATGACCAAAAT
Found at i:41648549 original size:27 final size:27
Alignment explanation
Indices: 41648492--41648574 Score: 78
Period size: 27 Copynumber: 3.1 Consensus size: 27
41648482 AATGACCGAA
* ***
41648492 ATACCCCTATAGGGTAAAATGA-TCAAA
1 ATACCCCTATAAGGTAAAATGACT-GTT
41648519 ATACCCCTATAAGGTAAAATGACTGTT
1 ATACCCCTATAAGGTAAAATGACTGTT
** * *
41648546 ATACCCCTAGGAGATAGAATGACTGTT
1 ATACCCCTATAAGGTAAAATGACTGTT
41648573 AT
1 AT
41648575 GGCCTTATGT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
27 46 0.98
28 1 0.02
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.27
Consensus pattern (27 bp):
ATACCCCTATAAGGTAAAATGACTGTT
Found at i:41648550 original size:81 final size:81
Alignment explanation
Indices: 41648251--41648541 Score: 375
Period size: 81 Copynumber: 3.6 Consensus size: 81
41648241 CTACACCAAG
* * *
41648251 ACCCCCATAGAGTAAAATGACTAAAATACCCCCATATGGTAAAATGATCAAAATACCCTTATAGG
1 ACCCCCATAGAGTAAAATGACCAAAATACCCCCATAGGGTAAAATGACCAAAATACCCTTATAGG
*
41648316 GTAAAATGATCGAAAT
66 GTAAAATGACCGAAAT
* * * * * * *
41648332 ACCCCCATAGGGTAAAGTGACCAAAATACCCTCGTTGGGTAAAATGACCAAAATACCCTCATAAG
1 ACCCCCATAGAGTAAAATGACCAAAATACCCCCATAGGGTAAAATGACCAAAATACCCTTATAGG
*
41648397 GTAAAATGACCAAAAT
66 GTAAAATGACCGAAAT
* * * * *
41648413 TCCCTCATAGAGTAAAATGACCAAAAGACCCCCATAGGGTAAAATGACCGAAATACCTTTATAGG
1 ACCCCCATAGAGTAAAATGACCAAAATACCCCCATAGGGTAAAATGACCAAAATACCCTTATAGG
*
41648478 GTAGAATGACCGAAAT
66 GTAAAATGACCGAAAT
* * * * *
41648494 ACCCCTATAGGGTAAAATGATCAAAATACCCCTATAAGGTAAAATGAC
1 ACCCCCATAGAGTAAAATGACCAAAATACCCCCATAGGGTAAAATGAC
41648542 TGTTATACCC
Statistics
Matches: 176, Mismatches: 34, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 176 1.00
ACGTcount: A:0.43, C:0.21, G:0.16, T:0.20
Consensus pattern (81 bp):
ACCCCCATAGAGTAAAATGACCAAAATACCCCCATAGGGTAAAATGACCAAAATACCCTTATAGG
GTAAAATGACCGAAAT
Found at i:41653697 original size:48 final size:48
Alignment explanation
Indices: 41653639--41653735 Score: 115
Period size: 48 Copynumber: 2.0 Consensus size: 48
41653629 AACAAGTGGG
* *
41653639 GAAAAAGAAAAAGGAGAAGAGAAAAATAAAAGTGAAA-AAGAAGAAAAT
1 GAAAAAGAAAAAGGAGAAAAGAAAAACAAAAGTGAAACAA-AAGAAAAT
* * * * *
41653687 GAAAATGAAAAAGGCGAAAAGGAAAGCGAAAGTGAAACAAAAGAAAAT
1 GAAAAAGAAAAAGGAGAAAAGAAAAACAAAAGTGAAACAAAAGAAAAT
41653735 G
1 G
41653736 TGAATGAAGT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
48 39 0.95
49 2 0.05
ACGTcount: A:0.66, C:0.03, G:0.25, T:0.06
Consensus pattern (48 bp):
GAAAAAGAAAAAGGAGAAAAGAAAAACAAAAGTGAAACAAAAGAAAAT
Found at i:41653711 original size:21 final size:22
Alignment explanation
Indices: 41653666--41653711 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
41653656 AGAGAAAAAT
*
41653666 AAAAGTGAAAAAGAAGAAAATG
1 AAAAGTGAAAAAGAAGAAAAGG
**
41653688 AAAA-TGAAAAAGGCGAAAAGG
1 AAAAGTGAAAAAGAAGAAAAGG
41653709 AAA
1 AAA
41653712 GCGAAAGTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.67, C:0.02, G:0.24, T:0.07
Consensus pattern (22 bp):
AAAAGTGAAAAAGAAGAAAAGG
Found at i:41657209 original size:32 final size:31
Alignment explanation
Indices: 41657143--41657219 Score: 93
Period size: 32 Copynumber: 2.5 Consensus size: 31
41657133 TAGCTACTGC
* * *
41657143 TGTTCACACCAATGGACCGTCCAATTCTTGG
1 TGTTCACACCAAAGGACCGTCCAATCCATGG
*
41657174 TGTTCACACCCAAAGGACTGTCCAAGTCCAT-G
1 TGTTCACA-CCAAAGGACCGTCCAA-TCCATGG
41657206 TGTTCACACCAAAG
1 TGTTCACACCAAAG
41657220 ACTCTTCAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
31 14 0.35
32 23 0.57
33 3 0.08
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (31 bp):
TGTTCACACCAAAGGACCGTCCAATCCATGG
Found at i:41658314 original size:36 final size:36
Alignment explanation
Indices: 41658257--41658327 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
41658247 GTTGAATGTG
* *
41658257 TTTGTGCCTCAGTTGGTCATGTTGTTAATTAAAATA
1 TTTGTGCCTCAATTGGCCATGTTGTTAATTAAAATA
41658293 TTTGTGCCTCAATTGGCCATGTTGTTAATTAAAAT
1 TTTGTGCCTCAATTGGCCATGTTGTTAATTAAAAT
41658328 CAAGATGTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.25, C:0.13, G:0.18, T:0.44
Consensus pattern (36 bp):
TTTGTGCCTCAATTGGCCATGTTGTTAATTAAAATA
Found at i:41658866 original size:14 final size:14
Alignment explanation
Indices: 41658847--41658874 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
41658837 TCAATTTTGC
41658847 ATCTAGTTAAATTA
1 ATCTAGTTAAATTA
41658861 ATCTAGTTAAATTA
1 ATCTAGTTAAATTA
41658875 TCATCACTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (14 bp):
ATCTAGTTAAATTA
Found at i:41659194 original size:23 final size:23
Alignment explanation
Indices: 41659164--41659209 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
41659154 CTGTGGCACG
41659164 ACCCCCTACTATAC-CCTCTCTGT
1 ACCCCCTACTATACACC-CTCTGT
*
41659187 ACCCCCTACTGTACACCCTCTGT
1 ACCCCCTACTATACACCCTCTGT
41659210 GACCTCTATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 19 0.90
24 2 0.10
ACGTcount: A:0.17, C:0.48, G:0.07, T:0.28
Consensus pattern (23 bp):
ACCCCCTACTATACACCCTCTGT
Found at i:41662317 original size:27 final size:28
Alignment explanation
Indices: 41662258--41662311 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
41662248 AATATAACTA
*
41662258 AAATTAAATATTTTAATAATTTAAGTGC
1 AAATTAAATATTTTAATAATTAAAGTGC
*
41662286 AAATTAATTATTTTAA-AATTAAAGTG
1 AAATTAAATATTTTAATAATTAAAGTG
41662312 TGAATTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 9 0.38
28 15 0.62
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (28 bp):
AAATTAAATATTTTAATAATTAAAGTGC
Found at i:41668465 original size:194 final size:194
Alignment explanation
Indices: 41668129--41668513 Score: 653
Period size: 194 Copynumber: 2.0 Consensus size: 194
41668119 TATTCCAAGG
* * *
41668129 TGGAAGATGACTCTTTTTCAATAGGGGAGTCAACAAGGGAAATGGACAAGAAAAAGGGAAAAACA
1 TGGAAGATGACTCTTTTTCAAGAGGGAAATCAACAAGGGAAATGGACAAGAAAAAGGGAAAAACA
* *
41668194 AAGGAGAGAGAGTGAGTGAAAGAGAGAGAGATGTGTAGGAATGAAGGTGTGTTGAGTTAATAGGT
66 AAGGAGAGAAAGTGAGTGAAAGAGAGAGAGATGTATAGGAATGAAGGTGTGTTGAGTTAATAGGT
*
41668259 GAAAAAGGGTATTTATAGGTTGGAGTGGCTACTAAAAATAGAAAATAATTAGCATCCACACACT
131 GAAAAAGGGTATTTATAGGTTGGAGTGGCTACTAAAAATAGAAAATAATTAGCAACCACACACT
* *
41668323 TGGAAGCTGACTCTTTTTCAAGAGGGAAATCGACAAGGGAAATGGACAAGAAAAAGGGAAAAACA
1 TGGAAGATGACTCTTTTTCAAGAGGGAAATCAACAAGGGAAATGGACAAGAAAAAGGGAAAAACA
*
41668388 AAGGAGAGAAAGTGAGTGAAAGAGAGAGAGATGTATGGGAATGAAGGTGTGTTGAGTTAATAGGT
66 AAGGAGAGAAAGTGAGTGAAAGAGAGAGAGATGTATAGGAATGAAGGTGTGTTGAGTTAATAGGT
** * *
41668453 GAAGGAGGGTATTTATAGGTTGGATTGGCTACTAAAAATAGCAAATAATTAGCAACCACAC
131 GAAAAAGGGTATTTATAGGTTGGAGTGGCTACTAAAAATAGAAAATAATTAGCAACCACAC
41668514 TCCTCTTTTA
Statistics
Matches: 178, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
194 178 1.00
ACGTcount: A:0.41, C:0.08, G:0.30, T:0.21
Consensus pattern (194 bp):
TGGAAGATGACTCTTTTTCAAGAGGGAAATCAACAAGGGAAATGGACAAGAAAAAGGGAAAAACA
AAGGAGAGAAAGTGAGTGAAAGAGAGAGAGATGTATAGGAATGAAGGTGTGTTGAGTTAATAGGT
GAAAAAGGGTATTTATAGGTTGGAGTGGCTACTAAAAATAGAAAATAATTAGCAACCACACACT
Found at i:41671513 original size:23 final size:22
Alignment explanation
Indices: 41671461--41671513 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 22
41671451 TCCTTGTCTT
*
41671461 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
* *
41671483 CTTATTTTCTCTTCTTTCTTC-AA
1 TTTCTTTTCT-TTCTTT-TTCTAA
41671506 TTTCTTTT
1 TTTCTTTT
41671514 TCACTTTTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
22 7 0.29
23 14 0.58
24 3 0.12
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:41677843 original size:40 final size:40
Alignment explanation
Indices: 41677779--41677915 Score: 150
Period size: 40 Copynumber: 3.4 Consensus size: 40
41677769 CTATATTTTT
* * * * *
41677779 ACAAGGGCACCGAAGTTTTTACAAGGGAAAAATTGTGCAA
1 ACAAGGACACCAAAGTGTTGACAAGGGCAAAATTGTGCAA
* *
41677819 ACAAGGACATCAAAGTGTTGACAAGGGCACAATTGTGCAA
1 ACAAGGACACCAAAGTGTTGACAAGGGCAAAATTGTGCAA
* * * * *
41677859 ACAGGGACACCAAAGTGTTTACAGGGGCATAGTTGTGCAA
1 ACAAGGACACCAAAGTGTTGACAAGGGCAAAATTGTGCAA
41677899 AC-AGGACCACCAAAGTG
1 ACAAGGA-CACCAAAGTG
41677916 CAATCAAGGA
Statistics
Matches: 82, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
39 3 0.04
40 79 0.96
ACGTcount: A:0.38, C:0.18, G:0.26, T:0.18
Consensus pattern (40 bp):
ACAAGGACACCAAAGTGTTGACAAGGGCAAAATTGTGCAA
Found at i:41677943 original size:20 final size:20
Alignment explanation
Indices: 41677920--41677957 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
41677910 AAAGTGCAAT
41677920 CAAGGACATCGAAGTGTATA
1 CAAGGACATCGAAGTGTATA
* *
41677940 CAAGGGCATCGAGGTGTA
1 CAAGGACATCGAAGTGTA
41677958 ATGAAGGCAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.16, G:0.32, T:0.18
Consensus pattern (20 bp):
CAAGGACATCGAAGTGTATA
Found at i:41681227 original size:23 final size:23
Alignment explanation
Indices: 41681201--41681253 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
41681191 TAATACATGT
41681201 TTTTAATATGTC-AAGCTACAACA
1 TTTTAATATGTCTAAGCT-CAACA
* *
41681224 TTTTAATGTGTCTTAAGCTGAACA
1 TTTTAATATGTC-TAAGCTCAACA
41681248 TTTTAA
1 TTTTAA
41681254 GTGCAGGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 11 0.42
24 10 0.38
25 5 0.19
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.42
Consensus pattern (23 bp):
TTTTAATATGTCTAAGCTCAACA
Found at i:41681401 original size:13 final size:13
Alignment explanation
Indices: 41681383--41681407 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41681373 TCTAAAATAA
41681383 AATTTATTTGTTG
1 AATTTATTTGTTG
41681396 AATTTATTTGTT
1 AATTTATTTGTT
41681408 CCAGGTACAT
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:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (13 bp):
AATTTATTTGTTG
Found at i:41684922 original size:27 final size:27
Alignment explanation
Indices: 41684892--41685069 Score: 119
Period size: 27 Copynumber: 6.6 Consensus size: 27
41684882 ATATTGAGCC
* *
41684892 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
41684919 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
41684946 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*** ** *
41684974 CGCACACTTAGTGCCGTATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* * **
41685001 CGCACTCTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
41685028 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
41685055 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
41685070 GTACAATTTA
Statistics
Matches: 117, Mismatches: 29, Indels: 10
0.75 0.19 0.06
Matches are distributed among these distances:
26 2 0.02
27 93 0.79
28 22 0.19
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:41685004 original size:55 final size:54
Alignment explanation
Indices: 41684892--41685069 Score: 150
Period size: 54 Copynumber: 3.3 Consensus size: 54
41684882 ATATTGAGCC
* * *
41684892 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
* * * *
41684946 CGCACACTTAGTGCTACATAGTTAGACTCGCACACTTAGTG-C-CGTATGGTCAATT
1 CGCACACTTAGTGCTACATAATCA-ACTCGCACACTTAGTGCCACGTA--ATCAAAT
* * ** * *
41685001 CGCACTCTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAAC-AAAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCCACGTAA-TCA-AAT
41685055 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
41685070 GTACAATTTA
Statistics
Matches: 98, Mismatches: 17, Indels: 17
0.74 0.13 0.13
Matches are distributed among these distances:
53 5 0.05
54 52 0.53
55 40 0.41
56 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
Found at i:41692941 original size:27 final size:27
Alignment explanation
Indices: 41692911--41693088 Score: 119
Period size: 27 Copynumber: 6.6 Consensus size: 27
41692901 ATATTGAGCC
* *
41692911 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
41692938 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
41692965 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*** ** *
41692993 CGCACACTTAGTGCCGTATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* * **
41693020 CGCACTCTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
41693047 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
41693074 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
41693089 GTACAATTTA
Statistics
Matches: 117, Mismatches: 29, Indels: 10
0.75 0.19 0.06
Matches are distributed among these distances:
26 2 0.02
27 93 0.79
28 22 0.19
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:41693023 original size:55 final size:54
Alignment explanation
Indices: 41692911--41693088 Score: 150
Period size: 54 Copynumber: 3.3 Consensus size: 54
41692901 ATATTGAGCC
* * *
41692911 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
* * * *
41692965 CGCACACTTAGTGCTACATAGTTAGACTCGCACACTTAGTG-C-CGTATGGTCAATT
1 CGCACACTTAGTGCTACATAATCA-ACTCGCACACTTAGTGCCACGTA--ATCAAAT
* * ** * *
41693020 CGCACTCTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAAC-AAAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCCACGTAA-TCA-AAT
41693074 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
41693089 GTACAATTTA
Statistics
Matches: 98, Mismatches: 17, Indels: 17
0.74 0.13 0.13
Matches are distributed among these distances:
53 5 0.05
54 52 0.53
55 40 0.41
56 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
Found at i:41696378 original size:53 final size:53
Alignment explanation
Indices: 41696298--41696402 Score: 201
Period size: 53 Copynumber: 2.0 Consensus size: 53
41696288 TTTCCCGAAC
*
41696298 GCTTTATGTTTCTGTTTTGACGTCAATGATGGGCCTTTTTATCCATTGTGAAT
1 GCTTTATGTTTCTGTTTTGACATCAATGATGGGCCTTTTTATCCATTGTGAAT
41696351 GCTTTATGTTTCTGTTTTGACATCAATGATGGGCCTTTTTATCCATTGTGAA
1 GCTTTATGTTTCTGTTTTGACATCAATGATGGGCCTTTTTATCCATTGTGAA
41696403 ACGGTGGAAC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.18, C:0.15, G:0.20, T:0.47
Consensus pattern (53 bp):
GCTTTATGTTTCTGTTTTGACATCAATGATGGGCCTTTTTATCCATTGTGAAT
Found at i:41700620 original size:19 final size:20
Alignment explanation
Indices: 41700584--41700624 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
41700574 GAACGTTGAA
*
41700584 TTAGTTCGATTCCAGCTCGT
1 TTAGTTCAATTCCAGCTCGT
41700604 TTAGTTCAATT-CAGCTCGT
1 TTAGTTCAATTCCAGCTCGT
41700623 TT
1 TT
41700625 CCAGCTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.17, C:0.22, G:0.17, T:0.44
Consensus pattern (20 bp):
TTAGTTCAATTCCAGCTCGT
Found at i:41702167 original size:13 final size:13
Alignment explanation
Indices: 41702149--41702176 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
41702139 TTTAGTAGTT
41702149 AAAAAAATTTGAA
1 AAAAAAATTTGAA
41702162 AAAAAAATTTGAA
1 AAAAAAATTTGAA
41702175 AA
1 AA
41702177 GTTAGTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.21
Consensus pattern (13 bp):
AAAAAAATTTGAA
Found at i:41702201 original size:80 final size:80
Alignment explanation
Indices: 41702079--41702247 Score: 293
Period size: 80 Copynumber: 2.1 Consensus size: 80
41702069 AAATTTAAAA
41702079 AAAAAAGAAATTCGAAAAAATAGTTTATTTTGGATTCAAATTTTCCTTTTGCATTTAGCATTTAG
1 AAAAAA-AAATTCGAAAAAATAGTTTATTTTGGATTCAAATTTTCCTTTTGCATTTAGCATTTAG
41702144 TAGTTAAAAAAATTTG
65 TAGTTAAAAAAATTTG
* ** *
41702160 AAAAAAAAATTTGAAAAGTTAGTTTATTTTGGATTCAAATTTTCCTTTTGTATTTAGCATTTAGT
1 AAAAAAAAATTCGAAAAAATAGTTTATTTTGGATTCAAATTTTCCTTTTGCATTTAGCATTTAGT
41702225 AGTTAAAAAAATTTG
66 AGTTAAAAAAATTTG
41702240 AAAAAAAA
1 AAAAAAAA
41702248 GGAAAGTGAT
Statistics
Matches: 84, Mismatches: 4, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
80 78 0.93
81 6 0.07
ACGTcount: A:0.43, C:0.06, G:0.12, T:0.40
Consensus pattern (80 bp):
AAAAAAAAATTCGAAAAAATAGTTTATTTTGGATTCAAATTTTCCTTTTGCATTTAGCATTTAGT
AGTTAAAAAAATTTG
Found at i:41703310 original size:12 final size:12
Alignment explanation
Indices: 41703239--41703284 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
41703229 GACAAGAAGA
*
41703239 GAAAAATGAAAGT
1 GAAAAA-GAAATT
*
41703252 GAAAAAGAGATT
1 GAAAAAGAAATT
41703264 GAAAAAGAAATT
1 GAAAAAGAAATT
*
41703276 GCAAAAGAA
1 GAAAAAGAA
41703285 GAAAAAGCGA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
12 23 0.79
13 6 0.21
ACGTcount: A:0.63, C:0.02, G:0.22, T:0.13
Consensus pattern (12 bp):
GAAAAAGAAATT
Found at i:41714181 original size:19 final size:19
Alignment explanation
Indices: 41714151--41714195 Score: 81
Period size: 19 Copynumber: 2.3 Consensus size: 19
41714141 AAGCTCATTT
41714151 TTTAATTATTTAATATATTA
1 TTTAA-TATTTAATATATTA
41714171 TTTAATATTTAATATATTA
1 TTTAATATTTAATATATTA
41714190 TTTAAT
1 TTTAAT
41714196 TTACATCACA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 20 0.80
20 5 0.20
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTAATATTTAATATATTA
Found at i:41717439 original size:22 final size:24
Alignment explanation
Indices: 41717396--41717439 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
41717386 TAACTAAGCT
41717396 TACTTACTTTTCTAGCTTAATTCA
1 TACTTACTTTTCTAGCTTAATTCA
41717420 TACTT-CTTTTCTA-CTTAATT
1 TACTTACTTTTCTAGCTTAATT
41717440 TCTTACCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 8 0.40
24 5 0.25
ACGTcount: A:0.23, C:0.20, G:0.02, T:0.55
Consensus pattern (24 bp):
TACTTACTTTTCTAGCTTAATTCA
Found at i:41717830 original size:22 final size:22
Alignment explanation
Indices: 41717797--41717844 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
41717787 TCTTCCCCTG
*
41717797 TTTTCGTCTCTTTCTCCGTTTC
1 TTTTCGTCTCTTCCTCCGTTTC
**
41717819 TTTTCTGT-TCTTCCTTTGTTTC
1 TTTTC-GTCTCTTCCTCCGTTTC
41717841 TTTT
1 TTTT
41717845 TCTTTTGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 20 0.91
23 2 0.09
ACGTcount: A:0.00, C:0.25, G:0.08, T:0.67
Consensus pattern (22 bp):
TTTTCGTCTCTTCCTCCGTTTC
Found at i:41718055 original size:5 final size:5
Alignment explanation
Indices: 41718036--41718094 Score: 61
Period size: 5 Copynumber: 11.6 Consensus size: 5
41718026 TTAGTTTATT
41718036 TAATA T-ATAA TAATA TAATA TAATA TAATAA TTAATA TAATA -AA-A
1 TAATA TAAT-A TAATA TAATA TAATA TAAT-A -TAATA TAATA TAATA
41718081 TAATA TATATA TAA
1 TAATA TA-ATA TAA
41718095 AACATAAAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 14
0.77 0.00 0.23
Matches are distributed among these distances:
3 1 0.02
4 6 0.13
5 27 0.57
6 9 0.19
7 4 0.09
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
TAATA
Found at i:41719096 original size:22 final size:22
Alignment explanation
Indices: 41719068--41719119 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
41719058 CCAAAATTAC
* *
41719068 ATTCAAACATACCAATTTGGTT
1 ATTCAAAAATACAAATTTGGTT
41719090 ATTCAAAAATACAAATTTGGTT
1 ATTCAAAAATACAAATTTGGTT
41719112 ATTCAAAA
1 ATTCAAAA
41719120 CACAACTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.44, C:0.13, G:0.08, T:0.35
Consensus pattern (22 bp):
ATTCAAAAATACAAATTTGGTT
Found at i:41719124 original size:21 final size:22
Alignment explanation
Indices: 41719081--41719124 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
41719071 CAAACATACC
*
41719081 AATTTGGTTATTCAAAAATACA
1 AATTTGGTTATTCAAAAACACA
41719103 AATTTGGTTATTC-AAAACACA
1 AATTTGGTTATTCAAAAACACA
41719124 A
1 A
41719125 CTTCAAATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.34
Consensus pattern (22 bp):
AATTTGGTTATTCAAAAACACA
Found at i:41722214 original size:20 final size:21
Alignment explanation
Indices: 41722189--41722228 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
41722179 TAAAAAAGAG
41722189 AAAGAAAAGAAAAA-TGAGAA
1 AAAGAAAAGAAAAAGTGAGAA
*
41722209 AAAGAAAGGAAAAAGTGAGA
1 AAAGAAAAGAAAAAGTGAGA
41722229 GAGTTGAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.70, C:0.00, G:0.25, T:0.05
Consensus pattern (21 bp):
AAAGAAAAGAAAAAGTGAGAA
Found at i:41724235 original size:45 final size:45
Alignment explanation
Indices: 41724171--41724319 Score: 201
Period size: 45 Copynumber: 3.3 Consensus size: 45
41724161 CTACTAGTGT
* **
41724171 ACCGGGTACCATTGATTATAAAGGTGGTTGCTGTGTATTGATTCC
1 ACCGGGTATCATTGATTATAAAGGTGGTTGCTGTGTGCTGATTCC
*
41724216 ACCGGGTATCATTGATTATAAAGGTGGTTGCAGTGTGCTGATTCC
1 ACCGGGTATCATTGATTATAAAGGTGGTTGCTGTGTGCTGATTCC
* * *
41724261 ACCGGGTA-CTATTAATTATGAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGGGTATC-ATTGATTATAAAGGTGGTTGCTGTGTGCTGATTCC
* *
41724306 ATCGAGTATCATTG
1 ACCGGGTATCATTG
41724320 CCTATAAGAG
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
44 1 0.01
45 89 0.98
46 1 0.01
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.35
Consensus pattern (45 bp):
ACCGGGTATCATTGATTATAAAGGTGGTTGCTGTGTGCTGATTCC
Found at i:41724333 original size:45 final size:45
Alignment explanation
Indices: 41724171--41724351 Score: 178
Period size: 45 Copynumber: 4.1 Consensus size: 45
41724161 CTACTAGTGT
* * **
41724171 ACCGGGTACCATTGATTATAA-AGGTGGTTGCTGTGTATTGATTCC
1 ACCGGGTATCATTGATTATAAGA-GTGGTTGCTATGTGCTGATTCC
41724216 ACCGGGTATCATTGATTATAA-AGGTGGTTGC-AGTGTGCTGATTCC
1 ACCGGGTATCATTGATTATAAGA-GTGGTTGCTA-TGTGCTGATTCC
*
41724261 ACCGGGTA-CTATTAATTATGAAG-GTGGTTGCTATGTGCTGATTCC
1 ACCGGGTATC-ATTGATTAT-AAGAGTGGTTGCTATGTGCTGATTCC
* * ** *
41724306 ATCGAGTATCATTGCCTATAAGAGTGG-TGCTATGTGTTGA-TCC
1 ACCGGGTATCATTGATTATAAGAGTGGTTGCTATGTGCTGATTCC
41724349 ACC
1 ACC
41724352 ATGTATCTGT
Statistics
Matches: 117, Mismatches: 12, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
43 5 0.04
44 16 0.14
45 92 0.79
46 4 0.03
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.34
Consensus pattern (45 bp):
ACCGGGTATCATTGATTATAAGAGTGGTTGCTATGTGCTGATTCC
Found at i:41733811 original size:9 final size:9
Alignment explanation
Indices: 41733769--41733863 Score: 60
Period size: 9 Copynumber: 11.2 Consensus size: 9
41733759 TTTTTTGTAT
41733769 TATATATAA
1 TATATATAA
* *
41733778 TGTATACAA
1 TATATATAA
* * *
41733787 AAAATAGAA
1 TATATATAA
41733796 T-TA-ATAA
1 TATATATAA
41733803 TATATATAA
1 TATATATAA
41733812 TAATATATAA
1 T-ATATATAA
41733822 -A-A-ATAA
1 TATATATAA
*
41733828 TATA-AAAA
1 TATATATAA
*
41733836 TATATAAAA
1 TATATATAA
*
41733845 TAT-TAGAA
1 TATATATAA
41733853 TATATATAA
1 TATATATAA
41733862 TA
1 TA
41733864 AAATAGATAT
Statistics
Matches: 67, Mismatches: 12, Indels: 14
0.72 0.13 0.15
Matches are distributed among these distances:
6 4 0.06
7 6 0.09
8 19 0.28
9 30 0.45
10 8 0.12
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (9 bp):
TATATATAA
Found at i:41733830 original size:21 final size:21
Alignment explanation
Indices: 41733801--41733883 Score: 82
Period size: 21 Copynumber: 4.0 Consensus size: 21
41733791 TAGAATTAAT
*
41733801 AATATATATAATAATATATAAA
1 AATA-ATAGAATAATATATAAA
* *
41733823 AATAATATAAAAATATAT-AA
1 AATAATAGAATAATATATAAA
* *
41733843 AATATTAGAAT-ATATATAAT
1 AATAATAGAATAATATATAAA
41733863 AA-AATAGATATAATATATAAA
1 AATAATAGA-ATAATATATAAA
41733884 TAAATTGATT
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
19 11 0.22
20 15 0.29
21 21 0.41
22 4 0.08
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (21 bp):
AATAATAGAATAATATATAAA
Found at i:41733837 original size:8 final size:9
Alignment explanation
Indices: 41733799--41733883 Score: 63
Period size: 9 Copynumber: 9.6 Consensus size: 9
41733789 AATAGAATTA
*
41733799 ATAATATAT
1 ATAAAATAT
41733808 ATAATAATAT
1 ATAA-AATAT
41733818 ATAAAAATAAT
1 AT-AAAAT-AT
41733829 ATAAAAATAT
1 AT-AAAATAT
41733839 ATAAAATAT
1 ATAAAATAT
*
41733848 -TAGAATAT
1 ATAAAATAT
41733856 AT---ATA-
1 ATAAAATAT
*
41733861 ATAAAATAG
1 ATAAAATAT
*
41733870 ATATAATAT
1 ATAAAATAT
41733879 ATAAA
1 ATAAA
41733884 TAAATTGATT
Statistics
Matches: 63, Mismatches: 5, Indels: 16
0.75 0.06 0.19
Matches are distributed among these distances:
5 2 0.03
6 3 0.05
8 10 0.16
9 23 0.37
10 13 0.21
11 12 0.19
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (9 bp):
ATAAAATAT
Found at i:41733857 original size:19 final size:19
Alignment explanation
Indices: 41733813--41733883 Score: 58
Period size: 19 Copynumber: 3.6 Consensus size: 19
41733803 TATATATAAT
41733813 AATATATA-AAAATAATATA-
1 AATATATATAAAAT-AT-TAG
*
41733832 AAAATATATAAAATATTAG
1 AATATATATAAAATATTAG
*
41733851 AATATATATAATAA-AATAG
1 AATATATATAA-AATATTAG
41733870 ATATAATATATAAA
1 A-AT-ATATATAAA
41733884 TAAATTGATT
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
18 2 0.05
19 24 0.55
20 10 0.23
21 8 0.18
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (19 bp):
AATATATATAAAATATTAG
Found at i:41733888 original size:21 final size:20
Alignment explanation
Indices: 41733801--41733906 Score: 65
Period size: 22 Copynumber: 5.0 Consensus size: 20
41733791 TAGAATTAAT
41733801 AATATATATAATAATATATAA-A
1 AATA-ATATAAT-ATATA-AATA
* *
41733823 AATAATATAA-AAATATATAA
1 AATAATATAATATATAAAT-A
* *
41733843 AATATTAGAATATATATAATAA
1 AATAATATAATATATA-AAT-A
41733865 AATAGATATAATATATAAATA
1 AATA-ATATAATATATAAATA
*
41733886 AATTGATTATAATAT-TAAATA
1 AA-T-AATATAATATATAAATA
41733907 TGTAAATAAA
Statistics
Matches: 68, Mismatches: 9, Indels: 15
0.74 0.10 0.16
Matches are distributed among these distances:
18 1 0.01
19 4 0.06
20 9 0.13
21 19 0.28
22 24 0.35
23 11 0.16
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (20 bp):
AATAATATAATATATAAATA
Found at i:41734450 original size:15 final size:15
Alignment explanation
Indices: 41734430--41734458 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
41734420 TAATGTTGAT
41734430 AGAATATAATAATTA
1 AGAATATAATAATTA
41734445 AGAATATAATAATT
1 AGAATATAATAATT
41734459 CTATTTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (15 bp):
AGAATATAATAATTA
Found at i:41734600 original size:17 final size:17
Alignment explanation
Indices: 41734578--41734616 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
41734568 CTGACTCCAT
*
41734578 TTTTAT-TTTCTAGTTTA
1 TTTTATATTT-TAGTATA
41734595 TTTTATATTTTAGTATA
1 TTTTATATTTTAGTATA
41734612 TTTTA
1 TTTTA
41734617 CATCTAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (17 bp):
TTTTATATTTTAGTATA
Found at i:41737694 original size:26 final size:26
Alignment explanation
Indices: 41737658--41737740 Score: 112
Period size: 26 Copynumber: 3.2 Consensus size: 26
41737648 CACGCCCGTA
*
41737658 CTGTGAAATGAGTATGCTCACACGAG
1 CTGTGAAATGAGTATGCTCACACGAC
* *
41737684 CTGTGAAATGAGTATGCTCATACGAT
1 CTGTGAAATGAGTATGCTCACACGAC
* **
41737710 CTGTGAAATGGGCCTGCTCACACGAC
1 CTGTGAAATGAGTATGCTCACACGAC
41737736 CTGTG
1 CTGTG
41737741 GGTTTGAATG
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 50 1.00
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (26 bp):
CTGTGAAATGAGTATGCTCACACGAC
Found at i:41750417 original size:39 final size:39
Alignment explanation
Indices: 41750360--41750761 Score: 378
Period size: 39 Copynumber: 10.3 Consensus size: 39
41750350 CACGACACAA
* * ** **
41750360 AAGTGCTATC-AGGAGTACTGCAGTGTAATAGGGGCATAT
1 AAGTGCGATCAAGG-GTACTGAAGTAAAATAGGGGCACGT
*
41750399 AAGTGCGATCAAGGGTACTGAAGTACAATAGGGGCACGT
1 AAGTGCGATCAAGGGTACTGAAGTAAAATAGGGGCACGT
* *
41750438 AAGTGCGATCAGGGGTACCGAAGTAAAATAGGGGCACGT
1 AAGTGCGATCAAGGGTACTGAAGTAAAATAGGGGCACGT
* **
41750477 AAGTGCGATCAGGGGTACCAAAGTAAAATAGGGGCACGT
1 AAGTGCGATCAAGGGTACTGAAGTAAAATAGGGGCACGT
* * * * *
41750516 AAGTGTGATCAGGGGTACCGAAGTACAACAGGGGCACGT
1 AAGTGCGATCAAGGGTACTGAAGTAAAATAGGGGCACGT
* * * * * * * *
41750555 AAGTACGATTAGGGGTGCTGAAGTACAACAAGGGAACGT
1 AAGTGCGATCAAGGGTACTGAAGTAAAATAGGGGCACGT
* * * * * *
41750594 AAGTGTGATCAGGGGTACAGAAATACAATAGGGGCTCGT
1 AAGTGCGATCAAGGGTACTGAAGTAAAATAGGGGCACGT
* * * *
41750633 AAGTGCGATTAGGGGTACTGTAA-TACAACAGGGGCACGT
1 AAGTGCGATCAAGGGTACTG-AAGTAAAATAGGGGCACGT
* * *
41750672 AAGTGCGATCAGGGGTACCGAAGTACAATAGGGGCACGT
1 AAGTGCGATCAAGGGTACTGAAGTAAAATAGGGGCACGT
* * * *
41750711 AAGTGCGATCAGGGGTACCT-AAGTACAACAGGGGCATGT
1 AAGTGCGATCAAGGGTA-CTGAAGTAAAATAGGGGCACGT
41750750 AAGTGCGATCAA
1 AAGTGCGATCAA
41750762 AGAGAGAGCA
Statistics
Matches: 316, Mismatches: 43, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
38 2 0.01
39 308 0.97
40 6 0.02
ACGTcount: A:0.33, C:0.15, G:0.34, T:0.18
Consensus pattern (39 bp):
AAGTGCGATCAAGGGTACTGAAGTAAAATAGGGGCACGT
Found at i:41750480 original size:19 final size:19
Alignment explanation
Indices: 41750419--41750753 Score: 142
Period size: 19 Copynumber: 17.2 Consensus size: 19
41750409 AAGGGTACTG
41750419 AAGTACAATAGGGGCACGT
1 AAGTACAATAGGGGCACGT
* * *
41750438 AAGTGCGATCAGGGGTACCG-
1 AAGTACAAT-AGGGGCA-CGT
*
41750458 AAGTAAAATAGGGGCACGT
1 AAGTACAATAGGGGCACGT
* * * **
41750477 AAGTGCGATCAGGGGTACCA
1 AAGTACAAT-AGGGGCACGT
*
41750497 AAGTAAAATAGGGGCACGT
1 AAGTACAATAGGGGCACGT
*** *
41750516 AAGTGTGATCAGGGGTACCG-
1 AAGTACAAT-AGGGGCA-CGT
*
41750536 AAGTACAACAGGGGCACGT
1 AAGTACAATAGGGGCACGT
* **
41750555 AAGTACGATTAGGGGTGC-T
1 AAGTAC-AATAGGGGCACGT
* * *
41750574 GAAGTACAACAAGGGAACGT
1 -AAGTACAATAGGGGCACGT
*** *
41750594 AAGTGTGATCAGGGGTACAG-
1 AAGTACAAT-AGGGGCAC-GT
* *
41750614 AAATACAATAGGGGCTCGT
1 AAGTACAATAGGGGCACGT
* * *
41750633 AAGTGCGATTAGGGGTACTGT
1 AAGTAC-AATAGGGGCAC-GT
*
41750654 AA-TACAACAGGGGCACGT
1 AAGTACAATAGGGGCACGT
* * *
41750672 AAGTGCGATCAGGGGTACCG-
1 AAGTACAAT-AGGGGCA-CGT
41750692 AAGTACAATAGGGGCACGT
1 AAGTACAATAGGGGCACGT
* * * *
41750711 AAGTGCGATCAGGGGTACCT
1 AAGTACAAT-AGGGGCACGT
* *
41750731 AAGTACAACAGGGGCATGT
1 AAGTACAATAGGGGCACGT
41750750 AAGT
1 AAGT
41750754 GCGATCAAAG
Statistics
Matches: 221, Mismatches: 75, Indels: 40
0.66 0.22 0.12
Matches are distributed among these distances:
18 11 0.05
19 101 0.46
20 98 0.44
21 11 0.05
ACGTcount: A:0.33, C:0.16, G:0.34, T:0.17
Consensus pattern (19 bp):
AAGTACAATAGGGGCACGT
Found at i:41750493 original size:78 final size:78
Alignment explanation
Indices: 41750386--41750760 Score: 520
Period size: 78 Copynumber: 4.8 Consensus size: 78
41750376 ACTGCAGTGT
** * *
41750386 AATAGGGGCATATAAGTGCGATCAAGGGTACTGAAGTACAATAGGGGCACGTAAGTGCGATCAGG
1 AATAGGGGCACGTAAGTGCGATCAGGGGTACTGAAGTACAACAGGGGCACGTAAGTGCGATCAGG
*
41750451 GGTACCGAAGTAA
66 GGTACCGAAGTAC
** * * *
41750464 AATAGGGGCACGTAAGTGCGATCAGGGGTACCAAAGTAAAATAGGGGCACGTAAGTGTGATCAGG
1 AATAGGGGCACGTAAGTGCGATCAGGGGTACTGAAGTACAACAGGGGCACGTAAGTGCGATCAGG
41750529 GGTACCGAAGTAC
66 GGTACCGAAGTAC
* * * * * * *
41750542 AACAGGGGCACGTAAGTACGATTAGGGGTGCTGAAGTACAACAAGGGAACGTAAGTGTGATCAGG
1 AATAGGGGCACGTAAGTGCGATCAGGGGTACTGAAGTACAACAGGGGCACGTAAGTGCGATCAGG
* *
41750607 GGTACAGAAATAC
66 GGTACCGAAGTAC
* *
41750620 AATAGGGGCTCGTAAGTGCGATTAGGGGTACTGTAA-TACAACAGGGGCACGTAAGTGCGATCAG
1 AATAGGGGCACGTAAGTGCGATCAGGGGTACTG-AAGTACAACAGGGGCACGTAAGTGCGATCAG
41750684 GGGTACCGAAGTAC
65 GGGTACCGAAGTAC
*
41750698 AATAGGGGCACGTAAGTGCGATCAGGGGTACCT-AAGTACAACAGGGGCATGTAAGTGCGATCA
1 AATAGGGGCACGTAAGTGCGATCAGGGGTA-CTGAAGTACAACAGGGGCACGTAAGTGCGATCA
41750761 AAGAGAGAGC
Statistics
Matches: 262, Mismatches: 32, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
77 2 0.01
78 256 0.98
79 4 0.02
ACGTcount: A:0.33, C:0.15, G:0.34, T:0.18
Consensus pattern (78 bp):
AATAGGGGCACGTAAGTGCGATCAGGGGTACTGAAGTACAACAGGGGCACGTAAGTGCGATCAGG
GGTACCGAAGTAC
Found at i:41750542 original size:117 final size:117
Alignment explanation
Indices: 41750386--41750760 Score: 520
Period size: 117 Copynumber: 3.2 Consensus size: 117
41750376 ACTGCAGTGT
** * *
41750386 AATAGGGGCATATAAGTGCGATCAAGGGTACTGAAGTACAATAGGGGCACGTAAGTGCGATCAGG
1 AATAGGGGCACGTAAGTGCGATCAGGGGTACTGAAGTACAACAGGGGCACGTAAGTGCGATCAGG
* *
41750451 GGTACCGAAGTAAAATAGGGGCACGTAAGTGCGATCAGGGGTACCAAAGTAA
66 GGTACCGAAGTACAATAGGGGCACGTAAGTGCGATCAGGGGTACCAAAGTAC
* * * *
41750503 AATAGGGGCACGTAAGTGTGATCAGGGGTACCGAAGTACAACAGGGGCACGTAAGTACGATTAGG
1 AATAGGGGCACGTAAGTGCGATCAGGGGTACTGAAGTACAACAGGGGCACGTAAGTGCGATCAGG
* * * * * * *
41750568 GGTGCTGAAGTACAACAAGGGAACGTAAGTGTGATCAGGGGTA-CAGAAATAC
66 GGTACCGAAGTACAATAGGGGCACGTAAGTGCGATCAGGGGTACCA-AAGTAC
* *
41750620 AATAGGGGCTCGTAAGTGCGATTAGGGGTACTGTAA-TACAACAGGGGCACGTAAGTGCGATCAG
1 AATAGGGGCACGTAAGTGCGATCAGGGGTACTG-AAGTACAACAGGGGCACGTAAGTGCGATCAG
*
41750684 GGGTACCGAAGTACAATAGGGGCACGTAAGTGCGATCAGGGGTACCTAAGTAC
65 GGGTACCGAAGTACAATAGGGGCACGTAAGTGCGATCAGGGGTACCAAAGTAC
* *
41750737 AACAGGGGCATGTAAGTGCGATCA
1 AATAGGGGCACGTAAGTGCGATCA
41750761 AAGAGAGAGC
Statistics
Matches: 220, Mismatches: 35, Indels: 6
0.84 0.13 0.02
Matches are distributed among these distances:
116 2 0.01
117 215 0.98
118 3 0.01
ACGTcount: A:0.33, C:0.15, G:0.34, T:0.18
Consensus pattern (117 bp):
AATAGGGGCACGTAAGTGCGATCAGGGGTACTGAAGTACAACAGGGGCACGTAAGTGCGATCAGG
GGTACCGAAGTACAATAGGGGCACGTAAGTGCGATCAGGGGTACCAAAGTAC
Found at i:41756405 original size:50 final size:50
Alignment explanation
Indices: 41756325--41756504 Score: 225
Period size: 50 Copynumber: 3.6 Consensus size: 50
41756315 TTAATGGAAT
* *
41756325 GAGGTCCCATGTAAGACCTTGTCTGAGACATGGCGTTGGCACCGAGATAA
1 GAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATAA
* *
41756375 GAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGA
1 GAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATAA
** * * * *
41756425 GAGGTCCCCCGTAAGACCATGTCTTGGACATGGCATGGGCACCGATATAA
1 GAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATAA
** *
41756475 GAAACATCCCATGTAAGACCATATCTGGGA
1 G--AGGTCCCATGTAAGACCATGTCTGGGA
41756505 TATGACATTA
Statistics
Matches: 110, Mismatches: 18, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
50 89 0.81
52 21 0.19
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.21
Consensus pattern (50 bp):
GAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATAA
Found at i:41759571 original size:38 final size:37
Alignment explanation
Indices: 41759464--41759591 Score: 123
Period size: 38 Copynumber: 3.3 Consensus size: 37
41759454 TCTAAACTAG
* * * * *
41759464 GACATATTTAAAACATATATTTAAGATGTCCTAAACTAT
1 GACATAATTAAAAC-CATATTAAAGATGTTC-AAATTAT
* * *
41759503 AACATAATTCAAAAACCTTATTAAAGATGTTCAGATTAT
1 GACATAATT--AAAACCATATTAAAGATGTTCAAATTAT
41759542 GACATAATTAAAACTCATATTAATA-ATGTTCAAATTAT
1 GACATAATTAAAAC-CATATTAA-AGATGTTCAAATTAT
41759580 GACATAATTAAA
1 GACATAATTAAA
41759592 GACTTAAACT
Statistics
Matches: 74, Mismatches: 11, Indels: 9
0.79 0.12 0.10
Matches are distributed among these distances:
37 5 0.07
38 31 0.42
39 21 0.28
40 12 0.16
41 5 0.07
ACGTcount: A:0.47, C:0.12, G:0.07, T:0.34
Consensus pattern (37 bp):
GACATAATTAAAACCATATTAAAGATGTTCAAATTAT
Found at i:41761587 original size:38 final size:38
Alignment explanation
Indices: 41761539--41761615 Score: 109
Period size: 38 Copynumber: 2.0 Consensus size: 38
41761529 GATAACTCCA
* *
41761539 CAATCCCATATATTCCTCTTAAAATCACTCTAACACTC
1 CAATCCCATATATTCCTCCTAAAATCACTCCAACACTC
* * *
41761577 CAATCTCATATTTTCTTCCTAAAATCACTCCAACACTC
1 CAATCCCATATATTCCTCCTAAAATCACTCCAACACTC
41761615 C
1 C
41761616 CCCACCACGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.32, C:0.35, G:0.00, T:0.32
Consensus pattern (38 bp):
CAATCCCATATATTCCTCCTAAAATCACTCCAACACTC
Found at i:41762464 original size:14 final size:14
Alignment explanation
Indices: 41762438--41762475 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
41762428 TATTTCTGTG
41762438 TTTATTATGTGTGAA
1 TTTATT-TGTGTGAA
41762453 TTTATTTGTGTGAA
1 TTTATTTGTGTGAA
*
41762467 ATT-TTTGTG
1 TTTATTTGTG
41762476 CTTTAATTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 6 0.27
14 10 0.45
15 6 0.27
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.58
Consensus pattern (14 bp):
TTTATTTGTGTGAA
Found at i:41763447 original size:14 final size:15
Alignment explanation
Indices: 41763426--41763468 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
41763416 TTAGAGTGTA
41763426 TATGAATTTTATATG
1 TATGAATTTTATATG
*
41763441 T-TGAATTTAAT-TG
1 TATGAATTTTATATG
41763454 TATGAATTTTCATAT
1 TATGAATTTT-ATAT
41763469 AAATAGTCGA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
13 3 0.13
14 16 0.70
15 3 0.13
16 1 0.04
ACGTcount: A:0.33, C:0.02, G:0.12, T:0.53
Consensus pattern (15 bp):
TATGAATTTTATATG
Found at i:41763696 original size:41 final size:41
Alignment explanation
Indices: 41763635--41763752 Score: 191
Period size: 41 Copynumber: 2.9 Consensus size: 41
41763625 GCTCTGTGCT
41763635 TAGCAGGCTTCGTGCCGGTGTACCATATCAGGCTTTATGCC
1 TAGCAGGCTTCGTGCCGGTGTACCATATCAGGCTTTATGCC
* *
41763676 TAGTAGGCTTCATGCCGGTGTACCATATCAGGCTTTATGCC
1 TAGCAGGCTTCGTGCCGGTGTACCATATCAGGCTTTATGCC
* * *
41763717 TAGCAGGCTTTGTGCCGGTGTATCATATCTGGCTTT
1 TAGCAGGCTTCGTGCCGGTGTACCATATCAGGCTTT
41763753 GTTCCTAAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 70 1.00
ACGTcount: A:0.17, C:0.24, G:0.26, T:0.33
Consensus pattern (41 bp):
TAGCAGGCTTCGTGCCGGTGTACCATATCAGGCTTTATGCC
Found at i:41763766 original size:41 final size:41
Alignment explanation
Indices: 41763639--41763773 Score: 171
Period size: 41 Copynumber: 3.3 Consensus size: 41
41763629 TGTGCTTAGC
* *
41763639 AGGCTTCGTGCCGGTGTACCATATCAGGCTTTATGCCTAGT
1 AGGCTTCATGCCGGTGTACCATATCAGGCTTTATGCCTAGA
*
41763680 AGGCTTCATGCCGGTGTACCATATCAGGCTTTATGCCTAGC
1 AGGCTTCATGCCGGTGTACCATATCAGGCTTTATGCCTAGA
** * * * * *
41763721 AGGCTTTGTGCCGGTGTATCATATCTGGCTTTGTTCCTAAA
1 AGGCTTCATGCCGGTGTACCATATCAGGCTTTATGCCTAGA
*
41763762 AGGCTTTATGCC
1 AGGCTTCATGCC
41763774 TAGCAAGCTT
Statistics
Matches: 83, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 83 1.00
ACGTcount: A:0.18, C:0.24, G:0.25, T:0.33
Consensus pattern (41 bp):
AGGCTTCATGCCGGTGTACCATATCAGGCTTTATGCCTAGA
Found at i:41763771 original size:57 final size:57
Alignment explanation
Indices: 41763705--41763830 Score: 198
Period size: 57 Copynumber: 2.2 Consensus size: 57
41763695 GTACCATATC
* * *
41763705 AGGCTTTATGCCTAGCAGGCTTTGTGCCGGTGTATCATATCTGGCTTTGTTCCTAAA
1 AGGCTTTATGCCTAGCAAGCTTCGTGCCGGTGTATCATATCTGGCTTTGTCCCTAAA
* * *
41763762 AGGCTTTATGCCTAGCAAGCTTCGTGTCGGTGTATCATATTTGGCTTTGTCCCTAGA
1 AGGCTTTATGCCTAGCAAGCTTCGTGCCGGTGTATCATATCTGGCTTTGTCCCTAAA
41763819 AGGCTTTATGCC
1 AGGCTTTATGCC
41763831 GGTGTATTTT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 63 1.00
ACGTcount: A:0.17, C:0.21, G:0.25, T:0.37
Consensus pattern (57 bp):
AGGCTTTATGCCTAGCAAGCTTCGTGCCGGTGTATCATATCTGGCTTTGTCCCTAAA
Found at i:41768866 original size:119 final size:120
Alignment explanation
Indices: 41768690--41768912 Score: 301
Period size: 119 Copynumber: 1.9 Consensus size: 120
41768680 TACTCGTTCA
* * * *
41768690 AATGTCTTCGGGACATAGCCCGGTTATAGTGACTCGCACAAATGCCTTCGGGACTTAGCCCGGTT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
*
41768755 ATAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* *
41768810 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCGG
* * *
41768872 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
41768913 CTTCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 4 0.04
119 67 0.74
120 19 0.21
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:41768912 original size:40 final size:40
Alignment explanation
Indices: 41768669--41768912 Score: 291
Period size: 40 Copynumber: 6.1 Consensus size: 40
41768659 CGGAATTTAA
** * *
41768669 CCGGATATAGCT-ACTCGTTCAAATGTCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
41768709 CCGGTTATAGTGACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
41768749 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
41768789 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
41768828 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
41768868 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
41768908 CCGGA
1 CCGGA
41768913 CTTCATTCAA
Statistics
Matches: 179, Mismatches: 18, Indels: 14
0.85 0.09 0.07
Matches are distributed among these distances:
38 2 0.01
39 33 0.18
40 132 0.74
41 12 0.07
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:41776922 original size:72 final size:72
Alignment explanation
Indices: 41776801--41776976 Score: 219
Period size: 72 Copynumber: 2.4 Consensus size: 72
41776791 TCAGCTTAGA
* * * *
41776801 AAAAATGCATTAGCAGCCTCCTCTTTTAATGCCATCCCAAGTCCCATGCACACATTAAA-TTCAG
1 AAAAATGCACTAGCAACCTTCTCTTTAAATGCCATCCCAAGTCCCATGCACACATTAAAGTT-AG
* *
41776865 TAGCTTGG
65 CAACTTGG
* * * *
41776873 AAAGATGCAGTAGCAACCTTCTCTTTAAATGCCGTCCCAAGTCCCATGCACACATTAAAGTTGGC
1 AAAAATGCACTAGCAACCTTCTCTTTAAATGCCATCCCAAGTCCCATGCACACATTAAAGTTAGC
41776938 AACTTGG
66 AACTTGG
* *
41776945 AAAAATGTACCAGCAACCTTTCTCTTTAAATG
1 AAAAATGCACTAGCAACC-TTCTCTTTAAATG
41776977 TGGTGCATGT
Statistics
Matches: 89, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
72 74 0.83
73 15 0.17
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (72 bp):
AAAAATGCACTAGCAACCTTCTCTTTAAATGCCATCCCAAGTCCCATGCACACATTAAAGTTAGC
AACTTGG
Found at i:41783794 original size:72 final size:72
Alignment explanation
Indices: 41783665--41783844 Score: 236
Period size: 72 Copynumber: 2.5 Consensus size: 72
41783655 AATTAGCTTA
* * *
41783665 GAAAAATTGCATCAGCAACCTCCTCTTTTAATGCCGTCCCAAGTCCCATGCACACATTAAATTC-
1 GAAAAA-TGCAGCAGCAACCTTCTCTTTAAATGCCGTCCCAAGTCCCATGCACACATTAAATTCA
*
41783729 GATATATTG
65 G-TAGATTG
* * *
41783738 GAAAAATGTAGCAGCAACCTTCTCTCTAAATGCCGTCCCAAGTCCCATTCACACATTAAATTCAG
1 GAAAAATGCAGCAGCAACCTTCTCTTTAAATGCCGTCCCAAGTCCCATGCACACATTAAATTCAG
*
41783803 TAGCTTG
66 TAGATTG
* *
41783810 GAAAAATGCAGCAACAACGTTTCTCTTTAAATGCC
1 GAAAAATGCAGCAGCAAC-CTTCTCTTTAAATGCC
41783845 ATCCATGTAC
Statistics
Matches: 93, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
72 72 0.77
73 21 0.23
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (72 bp):
GAAAAATGCAGCAGCAACCTTCTCTTTAAATGCCGTCCCAAGTCCCATGCACACATTAAATTCAG
TAGATTG
Found at i:41784495 original size:74 final size:74
Alignment explanation
Indices: 41784374--41784521 Score: 278
Period size: 74 Copynumber: 2.0 Consensus size: 74
41784364 TCAGCCAAGG
41784374 TTGCAGCCCACACTTGCTGTACTAAGGCCAAAATGGCCTCTTTGATTTGTTTGGCCCTGGCCCGT
1 TTGCAGCCCACACTTGCTGTACTAAGGCCAAAATGGCCTCTTTGATTTGTTTGGCCCTGGCCCGT
41784439 GTGATTGGC
66 GTGATTGGC
* *
41784448 TTGCAGCCCACACTTGTTGTACTAAGGCCAAAATGGCCTCTTTGATTTGTTTGGCCTTGGCCCGT
1 TTGCAGCCCACACTTGCTGTACTAAGGCCAAAATGGCCTCTTTGATTTGTTTGGCCCTGGCCCGT
41784513 GTGATTGGC
66 GTGATTGGC
41784522 CCTTGTGGAA
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 72 1.00
ACGTcount: A:0.16, C:0.26, G:0.26, T:0.32
Consensus pattern (74 bp):
TTGCAGCCCACACTTGCTGTACTAAGGCCAAAATGGCCTCTTTGATTTGTTTGGCCCTGGCCCGT
GTGATTGGC
Found at i:41791359 original size:33 final size:33
Alignment explanation
Indices: 41791322--41791397 Score: 143
Period size: 33 Copynumber: 2.3 Consensus size: 33
41791312 ATAACCTGGT
41791322 TATGGTCTTATCATTAGAATGCCATAGCCCAGC
1 TATGGTCTTATCATTAGAATGCCATAGCCCAGC
*
41791355 TATGGTCTTATCATTAGAATGTCATAGCCCAGC
1 TATGGTCTTATCATTAGAATGCCATAGCCCAGC
41791388 TATGGTCTTA
1 TATGGTCTTA
41791398 CATATATATA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.34
Consensus pattern (33 bp):
TATGGTCTTATCATTAGAATGCCATAGCCCAGC
Found at i:41796835 original size:23 final size:22
Alignment explanation
Indices: 41796783--41796835 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
41796773 TCCACATCTT
*
41796783 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
41796805 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
41796828 TTTCTTTT
1 TTTCTTTT
41796836 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:41799199 original size:4 final size:4
Alignment explanation
Indices: 41799190--41799224 Score: 63
Period size: 4 Copynumber: 9.0 Consensus size: 4
41799180 TTAAACTAAG
41799190 TAAA TAAA TAAA TAAA TAAA TAAA TAAA T-AA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
41799225 AAAAATAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.10
4 27 0.90
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:41811037 original size:45 final size:44
Alignment explanation
Indices: 41810968--41811126 Score: 171
Period size: 45 Copynumber: 3.6 Consensus size: 44
41810958 TACACGGTGG
* *
41810968 ATCAGCACACAGC-ACCACCCTTATAGTCAATAGTACTCGGTGAA
1 ATCAGCACATAGCAACCACCTTTATA-TCAATAGTACTCGGTGAA
*
41811012 ATCAGCACATAGCAACCACCTTTATACTCAATGGTAC-CGGGTGAA
1 ATCAGCACATAGCAACCACCTTTATA-TCAATAGTACTC-GGTGAA
* * * *
41811057 ATCAGCACATAGCAACCACCTATATAACCATTGCTA-TCCGGTGAA
1 ATCAGCACATAGCAACCACCTTTATATCAATAG-TACT-CGGTGAA
* *
41811102 ATTAGCACATAGAAACCACCTTTAT
1 ATCAGCACATAGCAACCACCTTTAT
41811127 TTTCATTAAT
Statistics
Matches: 99, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
44 17 0.17
45 81 0.82
46 1 0.01
ACGTcount: A:0.35, C:0.28, G:0.14, T:0.23
Consensus pattern (44 bp):
ATCAGCACATAGCAACCACCTTTATATCAATAGTACTCGGTGAA
Found at i:41818385 original size:56 final size:56
Alignment explanation
Indices: 41818299--41818419 Score: 233
Period size: 56 Copynumber: 2.2 Consensus size: 56
41818289 ACAAGGGATG
41818299 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
41818355 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
41818411 ATGGGCAAA
1 ATGGGCAAA
41818420 TAAACTAATA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 64 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.22
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:41854016 original size:16 final size:16
Alignment explanation
Indices: 41853993--41854047 Score: 69
Period size: 16 Copynumber: 3.6 Consensus size: 16
41853983 TAGCTTCTTC
41853993 TTTTTTTCACGAAATT
1 TTTTTTTCACGAAATT
* *
41854009 TGTTTTTC-C-TAATT
1 TTTTTTTCACGAAATT
*
41854023 TTTTTTTCACGAATTT
1 TTTTTTTCACGAAATT
41854039 TTTTTTTCA
1 TTTTTTTCA
41854048 ACTTGATATC
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
14 11 0.34
15 2 0.06
16 19 0.59
ACGTcount: A:0.18, C:0.13, G:0.05, T:0.64
Consensus pattern (16 bp):
TTTTTTTCACGAAATT
Found at i:41854029 original size:15 final size:15
Alignment explanation
Indices: 41853993--41854044 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
41853983 TAGCTTCTTC
41853993 TTTTTTTCACGAAATT
1 TTTTTTTCACG-AATT
* *
41854009 TGTTTTTC-CTAATT
1 TTTTTTTCACGAATT
41854023 TTTTTTTCACGAATT
1 TTTTTTTCACGAATT
41854038 TTTTTTT
1 TTTTTTT
41854045 TCAACTTGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
14 11 0.35
15 13 0.42
16 7 0.23
ACGTcount: A:0.17, C:0.12, G:0.06, T:0.65
Consensus pattern (15 bp):
TTTTTTTCACGAATT
Found at i:41854103 original size:11 final size:11
Alignment explanation
Indices: 41854087--41854127 Score: 73
Period size: 11 Copynumber: 3.7 Consensus size: 11
41854077 GGAAACAAAT
41854087 TTTTTTTTGAA
1 TTTTTTTTGAA
41854098 TTTTTTTTGAA
1 TTTTTTTTGAA
*
41854109 TTTTTTTAGAA
1 TTTTTTTTGAA
41854120 TTTTTTTT
1 TTTTTTTT
41854128 TTGAAGAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.76
Consensus pattern (11 bp):
TTTTTTTTGAA
Found at i:41857193 original size:40 final size:40
Alignment explanation
Indices: 41857112--41857498 Score: 638
Period size: 40 Copynumber: 9.7 Consensus size: 40
41857102 GTTTAGCACA
*
41857112 GATATATCACT-GCACGAATG-TCTTCGGAACTTAGTCCG
1 GATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCG
* *
41857150 GATACATCACTAGCACGAATGCTCTTCGGGATTTAG-CCTG
1 GATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCC-G
*
41857190 GATATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCG
1 GATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCG
* * *
41857230 GATACATCACTAGCACGAATGCTCTTCGGGATTTAGCCCG
1 GATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCG
41857270 GATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCG
1 GATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCG
* *
41857310 GATACATCACTAGCACGAATGCTCTTCTGG-ATTTAGCCCG
1 GATACATCACTAGCACGAATGCTCTTC-GGAACTTAGTCCG
41857350 GATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCG
1 GATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCG
41857390 GATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCG
1 GATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCG
*
41857430 GATACATCACTAGCACGAATGCTCTTTGGAACTTAGTCCG
1 GATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCG
41857470 GATACATCACTAGCACGAATGCTCTTCGG
1 GATACATCACTAGCACGAATGCTCTTCGG
41857499 GATTTAGCCC
Statistics
Matches: 324, Mismatches: 19, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
38 10 0.03
39 13 0.04
40 297 0.92
41 4 0.01
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (40 bp):
GATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCG
Found at i:41857520 original size:40 final size:40
Alignment explanation
Indices: 41857055--41857511 Score: 629
Period size: 40 Copynumber: 11.5 Consensus size: 40
41857045 AGCATGATTA
* * *
41857055 CTCTTCGGGACCTAGCCCGGAATA-A-CACCAGCACGAATG
1 CTCTTCGGAACTTAGCCCGG-ATACATCACTAGCACGAATG
* ** * * *
41857094 CTCTTTGG-GTTTAGCACAGATATATCACT-GCACGAATG
1 CTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATG
*
41857132 -TCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATG
1 CTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATG
* * * *
41857171 CTCTTCGGGATTTAGCCTGGATATATCACTAGCACGAATG
1 CTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATG
*
41857211 CTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATG
1 CTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATG
* *
41857251 CTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAATG
1 CTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATG
*
41857291 CTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATG
1 CTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATG
*
41857331 CTCTTCTGG-ATTTAGCCCGGATACATCACTAGCACGAATG
1 CTCTTC-GGAACTTAGCCCGGATACATCACTAGCACGAATG
*
41857371 CTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATG
1 CTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATG
*
41857411 CTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATG
1 CTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATG
* *
41857451 CTCTTTGGAACTTAGTCCGGATACATCACTAGCACGAATG
1 CTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATG
* *
41857491 CTCTTCGGGATTTAGCCCGGA
1 CTCTTCGGAACTTAGCCCGGA
41857512 CATTTCACTC
Statistics
Matches: 372, Mismatches: 39, Indels: 13
0.88 0.09 0.03
Matches are distributed among these distances:
37 9 0.02
38 31 0.08
39 21 0.06
40 309 0.83
41 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATG
Found at i:41857520 original size:80 final size:80
Alignment explanation
Indices: 41857084--41857511 Score: 736
Period size: 80 Copynumber: 5.4 Consensus size: 80
41857074 GAATAACACC
* * * *
41857084 AGCACGAATGCTCTTTGGG-TTTAGCACAGATATATCACT-GCACGAATG-TCTTCGGAACTTAG
1 AGCACGAATGCTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAG
41857146 TCCGGATACATCACT
66 TCCGGATACATCACT
* *
41857161 AGCACGAATGCTCTTCGGGATTTAGCCTGGATATATCACTAGCACGAATGCTCTTCGGAACTTAG
1 AGCACGAATGCTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAG
41857226 TCCGGATACATCACT
66 TCCGGATACATCACT
41857241 AGCACGAATGCTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAG
1 AGCACGAATGCTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAG
41857306 TCCGGATACATCACT
66 TCCGGATACATCACT
*
41857321 AGCACGAATGCTCTTCTGGATTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAG
1 AGCACGAATGCTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAG
41857386 TCCGGATACATCACT
66 TCCGGATACATCACT
* * * *
41857401 AGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTTGGAACTTAG
1 AGCACGAATGCTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAG
41857466 TCCGGATACATCACT
66 TCCGGATACATCACT
41857481 AGCACGAATGCTCTTCGGGATTTAGCCCGGA
1 AGCACGAATGCTCTTCGGGATTTAGCCCGGA
41857512 CATTTCACTC
Statistics
Matches: 333, Mismatches: 15, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
77 18 0.05
78 17 0.05
79 9 0.03
80 289 0.87
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (80 bp):
AGCACGAATGCTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAG
TCCGGATACATCACT
Found at i:41858844 original size:37 final size:37
Alignment explanation
Indices: 41858785--41858886 Score: 177
Period size: 37 Copynumber: 2.8 Consensus size: 37
41858775 AGCTCAGACG
* *
41858785 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
41858822 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
41858859 TAATCTCCACACGTAGTCATCGGGTCTT
1 AAATCTCCACACGTAGTCATCGGGTCTT
41858887 TAGCGCTCGG
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:41859083 original size:47 final size:47
Alignment explanation
Indices: 41859005--41860048 Score: 1827
Period size: 47 Copynumber: 22.6 Consensus size: 47
41858995 CCCTTCGGGA
* * * * * *
41859005 CTTATCACATTTATACACTTTCACATCCATCACCTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41859052 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41859099 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41859146 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41859193 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41859240 CTTATCACATATATACACTTTCACATTCATCACAT----C----GGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41859279 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41859326 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41859373 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41859420 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41859467 CTTATCACA-ATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41859513 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41859560 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41859607 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41859654 CTTATCACATATATACACTTTCACATTCATCACAT----C----GGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41859693 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41859740 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41859787 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41859834 CTTATCACA-ATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41859880 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41859927 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41859976 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41860023 CTTATCACATATATACACTTTCACAT
1 CTTATCACATATATACACTTTCACAT
41860049 ATACACACTG
Statistics
Matches: 957, Mismatches: 20, Indels: 40
0.94 0.02 0.04
Matches are distributed among these distances:
39 76 0.08
43 2 0.00
46 89 0.09
47 743 0.78
49 47 0.05
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:41859696 original size:367 final size:368
Alignment explanation
Indices: 41859005--41860048 Score: 1827
Period size: 367 Copynumber: 2.8 Consensus size: 368
41858995 CCCTTCGGGA
* * * * * * * *
41859005 CTTATCACATTTATACACTTTCACATCCATCACCTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
41859070 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACA-ATATACACTTTCACATTCATCACATC
41859135 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
130 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
*
41859200 CATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACA
195 CATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACA
41859265 TTCATCACAT---C----GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
260 TTCATCACATCGGCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT---CC---A
41859323 GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
319 GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41859373 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
41859438 TTTCACATTCATCACATCGGCTATTAGACCTTATCACAATATACACTTTCACATTCATCACATCG
66 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACAATATACACTTTCACATTCATCACATCG
41859503 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
131 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
41859568 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
196 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
41859633 TCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT-C-GGCCTT
261 TCATCACATCGGC-ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCCAGGCCTT
41859696 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
325 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41859740 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
41859805 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACAATATACACTTTCACATTCATCACATCG
66 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACAATATACACTTTCACATTCATCACATCG
41859870 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
131 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
41859935 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCAC
196 --ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCAC
41860000 ATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
259 ATTCATCACATCGG-CATTAGGCCTTATCACATATATACACTTTCACAT
41860049 ATACACACTG
Statistics
Matches: 653, Mismatches: 12, Indels: 21
0.95 0.02 0.03
Matches are distributed among these distances:
367 409 0.63
368 93 0.14
369 110 0.17
370 2 0.00
371 1 0.00
375 38 0.06
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (368 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCTATTAGGCCTTATCACAATATACACTTTCACATTCATCACATCG
GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
TCATCACATCGGCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCCAGGCCTTA
TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:41859958 original size:96 final size:94
Alignment explanation
Indices: 41859690--41860048 Score: 684
Period size: 96 Copynumber: 3.8 Consensus size: 94
41859680 TCATCACATC
41859690 GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
41859755 CACTTTCACATTCATCACATCGGCCATTA
66 CACTTTCACATTCATCACATCGGCCATTA
*
41859784 GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACA-ATATA
1 GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
41859848 CACTTTCACATTCATCACATCGGCCATTA
66 CACTTTCACATTCATCACATCGGCCATTA
41859877 GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATA
41859942 TACACTTTCACATTCATCACATCGGCCATTA
64 TACACTTTCACATTCATCACATCGGCCATTA
41859973 GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
41860038 CACTTTCACAT
66 CACTTTCACAT
41860049 ATACACACTG
Statistics
Matches: 260, Mismatches: 2, Indels: 6
0.97 0.01 0.02
Matches are distributed among these distances:
93 91 0.35
94 76 0.29
95 1 0.00
96 92 0.35
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.32
Consensus pattern (94 bp):
GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
CACTTTCACATTCATCACATCGGCCATTA
Found at i:41860048 original size:16 final size:16
Alignment explanation
Indices: 41860027--41860057 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
41860017 TTAGGCCTTA
*
41860027 TCACATATATACACTT
1 TCACATATACACACTT
41860043 TCACATATACACACT
1 TCACATATACACACT
41860058 GTCTTGGCTG
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:0.39, C:0.29, G:0.00, T:0.32
Consensus pattern (16 bp):
TCACATATACACACTT
Found at i:41865815 original size:51 final size:51
Alignment explanation
Indices: 41865672--41865854 Score: 160
Period size: 51 Copynumber: 3.6 Consensus size: 51
41865662 AAAGTGATGG
* * *
41865672 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-ATGATAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACATGTACCGGATATGATAGA
* * * *
41865722 TCGCATGTGTAGTACTATGTGCAGGCTAC--CATGCGTACCGGATA-GTTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACAT--GTACCGGATATG-ATAGA
* * * * *
41865773 TCACGTGTGTAGTACTATGTGCGGGCTACTACATGTATCGGATGGTAAT-GG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACATGTACCGGAT-ATGATAGA
** *
41865824 TCATATGTGTAGTACTATGTGTAGGCTACTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTA
41865855 TGTGAACCGA
Statistics
Matches: 106, Mismatches: 19, Indels: 15
0.76 0.14 0.11
Matches are distributed among these distances:
48 2 0.02
50 35 0.33
51 65 0.61
52 1 0.01
53 3 0.03
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.31
Consensus pattern (51 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACATGTACCGGATATGATAGA
Found at i:41865844 original size:12 final size:14
Alignment explanation
Indices: 41865827--41865858 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
41865817 GTAATGGTCA
41865827 TATGTGTA-G-TAC
1 TATGTGTAGGCTAC
41865839 TATGTGTAGGCTAC
1 TATGTGTAGGCTAC
41865853 TATGTG
1 TATGTG
41865859 AACCGAACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 8 0.44
13 1 0.06
14 9 0.50
ACGTcount: A:0.22, C:0.09, G:0.28, T:0.41
Consensus pattern (14 bp):
TATGTGTAGGCTAC
Found at i:41865916 original size:45 final size:45
Alignment explanation
Indices: 41865860--41865952 Score: 159
Period size: 45 Copynumber: 2.1 Consensus size: 45
41865850 TACTATGTGA
* *
41865860 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
*
41865905 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
41865950 ACC
1 ACC
41865953 AAATATCTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
Found at i:41869446 original size:4 final size:4
Alignment explanation
Indices: 41869432--41869464 Score: 57
Period size: 4 Copynumber: 8.0 Consensus size: 4
41869422 TATAAAAATT
41869432 TAAA CTAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA TAAA TAAA TAAA TAAA TAAA TAAA
41869465 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 24 0.86
5 4 0.14
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:41870868 original size:23 final size:22
Alignment explanation
Indices: 41870817--41870879 Score: 58
Period size: 23 Copynumber: 2.7 Consensus size: 22
41870807 CCTCGTCTTT
*
41870817 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
41870839 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
41870862 TTCTTTTCAATTTCTTTT
1 TTCTTTTC--TTTCTTTT
41870880 CTGTTTCACA
Statistics
Matches: 34, Mismatches: 1, Indels: 11
0.74 0.02 0.24
Matches are distributed among these distances:
21 2 0.06
22 5 0.15
23 15 0.44
24 11 0.32
25 1 0.03
ACGTcount: A:0.11, C:0.22, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:41873257 original size:22 final size:23
Alignment explanation
Indices: 41873232--41873291 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
41873222 TGGACTGAAT
41873232 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
41873254 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
41873276 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
41873292 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:41873259 original size:4 final size:4
Alignment explanation
Indices: 41873241--41873274 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
41873231 TATAAAAATT
41873241 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
41873275 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:41883493 original size:15 final size:14
Alignment explanation
Indices: 41883473--41883503 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
41883463 TGTCGAATCC
41883473 TCCCTTTTCTCTCTT
1 TCCCTTTTCTCT-TT
41883488 TCCCTTTTCTCTTT
1 TCCCTTTTCTCTTT
41883502 TC
1 TC
41883504 TACTAGCCGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (14 bp):
TCCCTTTTCTCTTT
Found at i:41884224 original size:27 final size:27
Alignment explanation
Indices: 41884186--41884424 Score: 234
Period size: 27 Copynumber: 8.9 Consensus size: 27
41884176 AGGATAAAAT
* *
41884186 TACCCTCAAAGGTTAAAATGACCGAAA
1 TACCCTCGAAGGGTAAAATGACCGAAA
41884213 TACCCTCGAAGGGTAAAATGACCGAAA
1 TACCCTCGAAGGGTAAAATGACCGAAA
* *
41884240 TACCCCCGAAGGGTAAAATGATCGAAA
1 TACCCTCGAAGGGTAAAATGACCGAAA
* *
41884267 TACCC-CTAGAGGGTAAAATGACCAAAA
1 TACCCTCGA-AGGGTAAAATGACCGAAA
* * * *
41884294 TAACTTTGAAGGGTAAAATGACCAAAA
1 TACCCTCGAAGGGTAAAATGACCGAAA
* * * *
41884321 TAGCC-CGAGAGGGTAAAATAATCAAAA
1 TACCCTCGA-AGGGTAAAATGACCGAAA
* * *
41884348 TACCATCGAACGGTAAAATGATCGAAA
1 TACCCTCGAAGGGTAAAATGACCGAAA
* * **
41884375 TACCCCCAAAGGGTAAAATGACTAAAA
1 TACCCTCGAAGGGTAAAATGACCGAAA
41884402 TACCC-C-ATAGGGTAAAATGACCG
1 TACCCTCGA-AGGGTAAAATGACCG
41884425 TTAAACCCCT
Statistics
Matches: 177, Mismatches: 30, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
25 1 0.01
26 18 0.10
27 154 0.87
28 4 0.02
ACGTcount: A:0.44, C:0.20, G:0.19, T:0.17
Consensus pattern (27 bp):
TACCCTCGAAGGGTAAAATGACCGAAA
Found at i:41884322 original size:81 final size:81
Alignment explanation
Indices: 41884199--41884421 Score: 263
Period size: 81 Copynumber: 2.8 Consensus size: 81
41884189 CCTCAAAGGT
*
41884199 TAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCCGA-AGGGTAAAATGATC
1 TAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCAAAATA-CCCCGAGAGGGTAAAATGATC
* * *
41884263 GAAATACCCCTAG-AGGG
65 AAAATA-CCATAGAACGG
* * * * * *
41884280 TAAAATGACCAAAATAACTTTGAAGGGTAAAATGACCAAAATAGCCCGAGAGGGTAAAATAATCA
1 TAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCAAAATACCCCGAGAGGGTAAAATGATCA
*
41884345 AAATACCATCGAACGG
66 AAATACCATAGAACGG
* * * * *
41884361 TAAAATGATCGAAATACCCCCAAAGGGTAAAATGACTAAAATACCCC-ATAGGGTAAAATGA
1 TAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCAAAATACCCCGAGAGGGTAAAATGA
41884422 CCGTTAAACC
Statistics
Matches: 118, Mismatches: 22, Indels: 5
0.81 0.15 0.03
Matches are distributed among these distances:
80 21 0.18
81 97 0.82
ACGTcount: A:0.45, C:0.19, G:0.19, T:0.17
Consensus pattern (81 bp):
TAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCAAAATACCCCGAGAGGGTAAAATGATCA
AAATACCATAGAACGG
Found at i:41884784 original size:28 final size:28
Alignment explanation
Indices: 41884744--41884831 Score: 122
Period size: 28 Copynumber: 3.1 Consensus size: 28
41884734 TACTGCACTG
* **
41884744 CACTGTTACTGTATTGGTTTAAGGCCCA
1 CACTGCTACTGTATTGGGCTAAGGCCCA
*
41884772 CACTGCTACTGTATTGGGCTAAGGCTCA
1 CACTGCTACTGTATTGGGCTAAGGCCCA
* *
41884800 CACTACTACTTTATTGGGCTAAGGCCCA
1 CACTGCTACTGTATTGGGCTAAGGCCCA
41884828 CACT
1 CACT
41884832 AATACTTCTT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 53 1.00
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (28 bp):
CACTGCTACTGTATTGGGCTAAGGCCCA
Found at i:41884846 original size:28 final size:26
Alignment explanation
Indices: 41884763--41884853 Score: 92
Period size: 28 Copynumber: 3.3 Consensus size: 26
41884753 TGTATTGGTT
*
41884763 TAAGGCCCACACTGCTACTGTATTGGGC
1 TAAGGCCCACACTACTACT-T-TTGGGC
*
41884791 TAAGGCTCACACTACTACTTTATTGGGC
1 TAAGGCCCACACTACTAC-TT-TTGGGC
*
41884819 TAAGGCCCACACTAATACTTCTTAGGGC
1 TAAGGCCCACACTACTACTT-TT-GGGC
*
41884847 TCAGGCC
1 TAAGGCC
41884854 TAGACTGTTA
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
27 4 0.07
28 50 0.91
29 1 0.02
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (26 bp):
TAAGGCCCACACTACTACTTTTGGGC
Found at i:41889569 original size:13 final size:13
Alignment explanation
Indices: 41889551--41889578 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
41889541 TAAGGTGTTG
41889551 TGTAATGGATTTT
1 TGTAATGGATTTT
41889564 TGTAATGGATTTT
1 TGTAATGGATTTT
41889577 TG
1 TG
41889579 AGGCAACTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.25, T:0.54
Consensus pattern (13 bp):
TGTAATGGATTTT
Found at i:41890908 original size:27 final size:27
Alignment explanation
Indices: 41890870--41891097 Score: 212
Period size: 27 Copynumber: 8.4 Consensus size: 27
41890860 TACGATTCAT
*
41890870 GGGTAAAATGACTGAAATACCCTCAAA
1 GGGTAAAATGACCGAAATACCCTCAAA
* *
41890897 GGGTAAAATGACAGAAATACCCTCGAA
1 GGGTAAAATGACCGAAATACCCTCAAA
* * **
41890924 GGATAAAATGACCGGAATACCCCTGTAA
1 GGGTAAAATGACCGAAATA-CCCTCAAA
* *
41890952 -GGTAAAATGACCGTAATACCCTCGAA
1 GGGTAAAATGACCGAAATACCCTCAAA
** * *
41890978 GGGTAAAATGACTTAAATACCCCCGACA
1 GGGTAAAATGACCGAAATACCCTC-AAA
* * *
41891006 -GGTAAAATAACTGAAATACCCT-AGA
1 GGGTAAAATGACCGAAATACCCTCAAA
* *
41891031 GGGTAAAATAACCGAAATATCCTCAAA
1 GGGTAAAATGACCGAAATACCCTCAAA
* *
41891058 GGGTAAAATGACCAAAATATCCC-CTATA
1 GGGTAAAATGACCGAAATA-CCCTC-AAA
41891086 GGGTAAAATGAC
1 GGGTAAAATGAC
41891098 TGTTATACCC
Statistics
Matches: 166, Mismatches: 28, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
25 2 0.01
26 26 0.16
27 115 0.69
28 23 0.14
ACGTcount: A:0.43, C:0.20, G:0.19, T:0.18
Consensus pattern (27 bp):
GGGTAAAATGACCGAAATACCCTCAAA
Done.