Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005530.1 Hibiscus syriacus cultivar Beakdansim tig00012787_pilon, whole genome shotgun sequence
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: 255786
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
File 1 of 2
Found at i:1653 original size:30 final size:30
Alignment explanation
Indices: 1591--1682 Score: 134
Period size: 30 Copynumber: 3.1 Consensus size: 30
1581 GAAGGACCTA
* * * *
1591 TCCAGAGGTCACACAGA-CC-CCGTAACTA
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1619 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1649 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1679 TCCA
1 TCCA
1683 TATGTTCCTT
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
28 15 0.26
29 2 0.03
30 41 0.71
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (30 bp):
TCCAGAGGTCATAAAGATCCTCGGTAACTG
Found at i:1759 original size:30 final size:30
Alignment explanation
Indices: 1674--1764 Score: 107
Period size: 29 Copynumber: 3.0 Consensus size: 30
1664 GATCCTCGGT
*
1674 AACTGTCCATATGTTCCTTAGAACATAGGT--
1 AACTGTCCATATG-TCCGTAG-ACATAGGTAA
*
1704 -ACTGTCCATATGTCTCGAAAGACATAGGTAA
1 AACTGTCCATATGTC-CG-TAGACATAGGTAA
1735 AACTGTCCATATGTCCGTAGACATAGGTAA
1 AACTGTCCATATGTCCGTAGACATAGGTAA
1765 CCCTCGACTC
Statistics
Matches: 53, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
28 2 0.04
29 21 0.40
30 14 0.26
31 2 0.04
32 14 0.26
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.29
Consensus pattern (30 bp):
AACTGTCCATATGTCCGTAGACATAGGTAA
Found at i:2586 original size:2 final size:2
Alignment explanation
Indices: 2579--2641 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
2569 ATACAATTCC
2579 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2621 TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
2642 CTAACTCATG
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3132 original size:21 final size:21
Alignment explanation
Indices: 3108--3152 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
3098 TGTTTGTTCG
* *
3108 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
3129 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
3150 TTG
1 TTG
3153 CCCAAAATCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:6451 original size:29 final size:30
Alignment explanation
Indices: 6373--6465 Score: 127
Period size: 29 Copynumber: 3.1 Consensus size: 30
6363 AAAGGACCTA
* * * *
6373 TCCAGAGGTCACACAGA-CCCCGGTAACTA
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
6402 TCCAGAGGTCATAAAGATCCTC-GTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
6431 TCCAGAGGTCATAAAGATCCTCGGTAAACTG
1 TCCAGAGGTCATAAAGATCCTCGGT-AACTG
6462 TCCA
1 TCCA
6466 TATGTTCCTT
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
29 43 0.75
30 5 0.09
31 9 0.16
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.20
Consensus pattern (30 bp):
TCCAGAGGTCATAAAGATCCTCGGTAACTG
Found at i:6493 original size:31 final size:31
Alignment explanation
Indices: 6453--6552 Score: 123
Period size: 31 Copynumber: 3.2 Consensus size: 31
6443 AAAGATCCTC
*
6453 GGTAAACTGTCCATATGTTCCTTAGAACATA
1 GGTAAACTGTCCATATGTTCCATAGAACATA
* * *
6484 GGTATACTGTCCATATGTCTCGAAAG-ACATA
1 GGTAAACTGTCCATATGT-TCCATAGAACATA
*
6515 GGTAAAACTGTCCATAT-TTCCGTAGAACATA
1 GGT-AAACTGTCCATATGTTCCATAGAACATA
6546 GGTAAAC
1 GGTAAAC
6553 CCTCGACTCT
Statistics
Matches: 58, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
30 8 0.14
31 34 0.59
32 16 0.28
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (31 bp):
GGTAAACTGTCCATATGTTCCATAGAACATA
Found at i:7898 original size:21 final size:19
Alignment explanation
Indices: 7856--7894 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
7846 TGTTGTTTCG
*
7856 TTGAAGGGTATCGATTCCC
1 TTGAAGGGTACCGATTCCC
7875 TTGAATGGGTACCGATTCCC
1 TTGAA-GGGTACCGATTCCC
7895 CTTGCCCAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.31
Consensus pattern (19 bp):
TTGAAGGGTACCGATTCCC
Found at i:10913 original size:19 final size:20
Alignment explanation
Indices: 10876--10913 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
10866 TTTTTTTATA
*
10876 TGGGGGAATCGGTTCCCCCC
1 TGGGGGAATCGATTCCCCCC
*
10896 TGGGGGTATCGATTCCCC
1 TGGGGGAATCGATTCCCC
10914 TCTAGCATTC
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:0.11, C:0.32, G:0.34, T:0.24
Consensus pattern (20 bp):
TGGGGGAATCGATTCCCCCC
Found at i:16929 original size:22 final size:22
Alignment explanation
Indices: 16912--16978 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
16902 CTCGTATAAA
16912 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
16934 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
16956 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
16978 T
1 T
16979 ATGTCCATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:17239 original size:30 final size:31
Alignment explanation
Indices: 17198--17257 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
17188 TAGCCATAGT
*
17198 ATTTTCATACCTTTAACACATAG-GCATATC
1 ATTTACATACCTTTAACACATAGTGCATATC
*
17228 ATTTACATACCTTTATCACATAGTGCATAT
1 ATTTACATACCTTTAACACATAGTGCATAT
17258 AACGTTTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 21 0.78
31 6 0.22
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.38
Consensus pattern (31 bp):
ATTTACATACCTTTAACACATAGTGCATATC
Found at i:17759 original size:67 final size:67
Alignment explanation
Indices: 17614--17764 Score: 198
Period size: 68 Copynumber: 2.2 Consensus size: 67
17604 TTTTCTCATG
* * *
17614 GGGGAATCGGTTCCCCCCCCTGGGGTATCGGTTCCCCTATAGCATTCTGGAATTTCTTATACGAT
1 GGGGTATCGGTT-CCCCCCCTGGGGTATCGATTCCCCTATAGCATTCTGGAAATTCTTATACGAT
*
17679 GAG
65 GAA
* * *
17682 GGGGTATCGGTTCCCCCCCTGGGGGTATCGATTCCCCTCTTGCATTCTGGAAATTCATT-T-CGT
1 GGGGTATCGGTTCCCCCCCT-GGGGTATCGATTCCCCTATAGCATTCTGGAAATTC-TTATACGA
17745 TGAA
64 TGAA
17749 GGGGTATCGGTTCCCC
1 GGGGTATCGGTTCCCC
17765 TTGAATGGGT
Statistics
Matches: 74, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
67 29 0.39
68 43 0.58
69 2 0.03
ACGTcount: A:0.15, C:0.27, G:0.27, T:0.30
Consensus pattern (67 bp):
GGGGTATCGGTTCCCCCCCTGGGGTATCGATTCCCCTATAGCATTCTGGAAATTCTTATACGATG
AA
Found at i:17774 original size:21 final size:21
Alignment explanation
Indices: 17744--17786 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
17734 ATTCATTTCG
* *
17744 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
17765 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
17786 T
1 T
17787 AGCCCGAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:23839 original size:22 final size:22
Alignment explanation
Indices: 23822--23888 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
23812 CTCGTATAAA
23822 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
23844 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
23866 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
23888 T
1 T
23889 ATGTCCATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:24149 original size:30 final size:31
Alignment explanation
Indices: 24108--24167 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
24098 TAGCCATAGT
*
24108 ATTTTCATACCTTTAACACATAG-GCATATC
1 ATTTACATACCTTTAACACATAGTGCATATC
*
24138 ATTTACATACCTTTATCACATAGTGCATAT
1 ATTTACATACCTTTAACACATAGTGCATAT
24168 AACGTTTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 21 0.78
31 6 0.22
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.38
Consensus pattern (31 bp):
ATTTACATACCTTTAACACATAGTGCATATC
Found at i:24687 original size:21 final size:21
Alignment explanation
Indices: 24657--24699 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
24647 ATTCATTTCG
* *
24657 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
24678 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
24699 T
1 T
24700 AGCCCCGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:24699 original size:67 final size:67
Alignment explanation
Indices: 24528--24677 Score: 189
Period size: 67 Copynumber: 2.2 Consensus size: 67
24518 TTTTCTCATG
* * *
24528 GGGGAATCGGTTCCCCCCCCT-GGGGTATCGGTTCCCCTATAGCATTCTGGAATTTCTTATACGA
1 GGGGTATCGGTT--CCCCCCTGGGGGTATCGATTCCCCTATAGCATTCTGGAAATTCTTATACGA
*
24592 TGAG
64 TGAA
* * *
24596 GGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCTCTTGCATTCTGGAAATTCATT-T-CGTT
1 GGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCTATAGCATTCTGGAAATTC-TTATACGAT
24659 GAA
65 GAA
24662 GGGGTATCGGTTCCCC
1 GGGGTATCGGTTCCCC
24678 TTGAATGGGT
Statistics
Matches: 73, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
66 28 0.38
67 32 0.44
68 13 0.18
ACGTcount: A:0.15, C:0.27, G:0.27, T:0.31
Consensus pattern (67 bp):
GGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCTATAGCATTCTGGAAATTCTTATACGATG
AA
Found at i:28392 original size:10 final size:10
Alignment explanation
Indices: 28377--28405 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
28367 TCTCTAAAAT
28377 TTTTAAATTA
1 TTTTAAATTA
28387 TTTTAAATTA
1 TTTTAAATTA
28397 TTTTAAATT
1 TTTTAAATT
28406 TTAGATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TTTTAAATTA
Found at i:30847 original size:3 final size:3
Alignment explanation
Indices: 30841--30872 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
30831 ATAATAATAA
30841 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
30873 ATAGGATATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (3 bp):
TAG
Found at i:31551 original size:30 final size:29
Alignment explanation
Indices: 31517--31575 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
31507 ACAAACTCTA
*
31517 AAGAGTGCTCCAGTATATTCTACAAAACAT
1 AAGAGTGCTCCAG-ATATTCTAAAAAACAT
* * *
31547 AAGAGTTCTCTAGCTATTCTAAAAAACAT
1 AAGAGTGCTCCAGATATTCTAAAAAACAT
31576 GCAACATTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 14 0.56
30 11 0.44
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.29
Consensus pattern (29 bp):
AAGAGTGCTCCAGATATTCTAAAAAACAT
Found at i:32789 original size:28 final size:29
Alignment explanation
Indices: 32720--32792 Score: 112
Period size: 29 Copynumber: 2.6 Consensus size: 29
32710 GCTTATGATT
*
32720 TTAATGTCCCTTTCTTATCCTCACAAAAA
1 TTAATGTCCCTTTCTTATCATCACAAAAA
* *
32749 TTAATGTCACTTTCTTATTATCACAAAAA
1 TTAATGTCCCTTTCTTATCATCACAAAAA
32778 -TAATGTCCCTTTCTT
1 TTAATGTCCCTTTCTT
32793 GCTTGGCATA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 14 0.35
29 26 0.65
ACGTcount: A:0.30, C:0.23, G:0.04, T:0.42
Consensus pattern (29 bp):
TTAATGTCCCTTTCTTATCATCACAAAAA
Found at i:37096 original size:21 final size:21
Alignment explanation
Indices: 37071--37111 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
37061 TATGGGTAAA
*
37071 GGGAATCGATACCCATTCAAG
1 GGGAACCGATACCCATTCAAG
*
37092 GGGAACCGATACCCCTTCAA
1 GGGAACCGATACCCATTCAA
37112 ACGAACAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.29, G:0.22, T:0.17
Consensus pattern (21 bp):
GGGAACCGATACCCATTCAAG
Found at i:37441 original size:173 final size:172
Alignment explanation
Indices: 37135--37479 Score: 681
Period size: 173 Copynumber: 2.0 Consensus size: 172
37125 TCCAGTATGT
37135 CATGGGGGAACCGATACCCCCATAGGGGGGAACCGATTCCCCCTAAAGGAAAATTGGGAATATGG
1 CATGGGGGAACCGATACCCCCATAGGGGGGAACCGATTCCCCCTAAAGGAAAATTGGGAATATGG
37200 GTTAATAAGTTCATTTAAGTTGCTAGTATCCAATTACAAGGTGTAGGTATCTAATGATTGTCTCG
66 GTTAATAAGTTCATTTAAGTTGCTAGTATCCAATTACAAGGTGTAGGTATCTAATGATTGTCTCG
37265 AAATGTACATTTATGTAGATTCTACGCATAAAGAAATTCCGG
131 AAATGTACATTTATGTAGATTCTACGCATAAAGAAATTCCGG
37307 CATGGGGGAACCGATACCCCCATAGGGGGGAACCGATTCCCCCTAAAGGAAAATTGGGAATATGG
1 CATGGGGGAACCGATACCCCCATAGGGGGGAACCGATTCCCCCTAAAGGAAAATTGGGAATATGG
37372 GTTTAATAAGTTCATTTAAGTTGCTAGTATCCAATTACAAGGTGTAGGTATCTAATGATTGTCTC
66 G-TTAATAAGTTCATTTAAGTTGCTAGTATCCAATTACAAGGTGTAGGTATCTAATGATTGTCTC
37437 GAAATGTACATTTATGTAGATTCTACGCATAAAGAAATTCCGG
130 GAAATGTACATTTATGTAGATTCTACGCATAAAGAAATTCCGG
37480 AACGTTTGGC
Statistics
Matches: 172, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
172 66 0.38
173 106 0.62
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (172 bp):
CATGGGGGAACCGATACCCCCATAGGGGGGAACCGATTCCCCCTAAAGGAAAATTGGGAATATGG
GTTAATAAGTTCATTTAAGTTGCTAGTATCCAATTACAAGGTGTAGGTATCTAATGATTGTCTCG
AAATGTACATTTATGTAGATTCTACGCATAAAGAAATTCCGG
Found at i:39158 original size:23 final size:23
Alignment explanation
Indices: 39114--39158 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
39104 ATCATTATAT
*
39114 GGCACTACGATGCAATTCTACGG
1 GGCACTACGATGCAATTATACGG
* * *
39137 GGCACTTCGGTGCATTTATACG
1 GGCACTACGATGCAATTATACG
39159 AGCTGTGGTG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGATGCAATTATACGG
Found at i:42126 original size:21 final size:21
Alignment explanation
Indices: 42100--42143 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
42090 TTTATGGGTA
* *
42100 AAGGGGAATCGGTACCCATTC
1 AAGGGGAACCGATACCCATTC
*
42121 AAGGGGAACCGATACCCCTTC
1 AAGGGGAACCGATACCCATTC
42142 AA
1 AA
42144 ACGAACAAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.32, C:0.27, G:0.25, T:0.16
Consensus pattern (21 bp):
AAGGGGAACCGATACCCATTC
Found at i:42827 original size:18 final size:18
Alignment explanation
Indices: 42804--42838 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
42794 CTAGGAGATT
42804 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
42822 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
42839 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:43038 original size:21 final size:20
Alignment explanation
Indices: 43011--43108 Score: 88
Period size: 20 Copynumber: 4.8 Consensus size: 20
43001 AATCAGTGTC
43011 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * **
43032 GAAAATCGCAATGCGATAGT
1 CAAAATCGCAACGCGATTTT
* **
43052 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
43072 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
43093 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
43109 ACACATAAAT
Statistics
Matches: 61, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
20 31 0.51
21 30 0.49
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:43061 original size:41 final size:41
Alignment explanation
Indices: 42952--43108 Score: 126
Period size: 41 Copynumber: 3.9 Consensus size: 41
42942 AAATGACCAA
* **
42952 CAAAATCGCAACGCGAA-ATAAAAATCGCAACGCGA-TCCC
1 CAAAATCGCAACGCGAATATCAAAATCGCAACGCGATTTTC
* ** * *
42991 CAGAATCGCAAATC-AGTGTCCAAAATCGCAACGCGATTCTT-
1 CAAAATCGCAACGCGAATAT-CAAAATCGCAACGCGATT-TTC
* * * **
43032 GAAAATCGCAATGCG-ATAGTCAAATTCGCATTGCGATTTTC
1 CAAAATCGCAACGCGAATA-TCAAAATCGCAACGCGATTTTC
*
43073 CAAAATCGCAACGCGAATATGAAAATCGCAACGCGA
1 CAAAATCGCAACGCGAATATCAAAATCGCAACGCGA
43109 ACACATAAAT
Statistics
Matches: 87, Mismatches: 23, Indels: 14
0.70 0.19 0.11
Matches are distributed among these distances:
38 1 0.01
39 12 0.14
40 17 0.20
41 53 0.61
42 4 0.05
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.18
Consensus pattern (41 bp):
CAAAATCGCAACGCGAATATCAAAATCGCAACGCGATTTTC
Found at i:43118 original size:20 final size:20
Alignment explanation
Indices: 43095--43268 Score: 118
Period size: 20 Copynumber: 8.7 Consensus size: 20
43085 GCGAATATGA
43095 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTAAC-CAT
* * *
43115 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* * *
43135 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTAACCAT
****
43155 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTAACCAT
* * *
43175 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* * **
43195 ATATCGCAACGCGTATCGGT
1 AAATCGCAACGCGTAACCAT
* *
43215 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGTAA-CCAT
* *
43235 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTAACCAT
43256 AAATCGCAACGCG
1 AAATCGCAACGCG
43269 ATATTTAAAG
Statistics
Matches: 126, Mismatches: 24, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
19 2 0.02
20 107 0.85
21 15 0.12
22 2 0.02
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTAACCAT
Found at i:43139 original size:40 final size:39
Alignment explanation
Indices: 43075--43269 Score: 183
Period size: 40 Copynumber: 4.9 Consensus size: 39
43065 CGATTTTCCA
* ** *
43075 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAAC-CAT
* * * *
43115 AAATCGCAATGCGTATCCGTAAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCAT
** * * *
43155 AAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCAT
* * ** *
43195 ATATCGCAACGCGTATCGGTAAATCGCAACGATAATACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAA-CCAT
43235 AAAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 -AAATCGCAACGCGTATCCGTAAATCGCAACGCGA
43270 TATTTAAAGC
Statistics
Matches: 127, Mismatches: 25, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
39 1 0.01
40 94 0.74
41 32 0.25
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.19
Consensus pattern (39 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACCAT
Found at i:43160 original size:60 final size:60
Alignment explanation
Indices: 43075--43268 Score: 244
Period size: 60 Copynumber: 3.2 Consensus size: 60
43065 CGATTTTCCA
* ** * *
43075 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAATGCGTATCCGT
* * ***
43135 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAATGCGTATCCGT
* * ** *
43195 ATATCGCAACGCGTATCGGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAATGCGTATCCGT
43256 AAATCGCAACGCG
1 AAATCGCAACGCG
43269 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.20
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAATGCGTATCCGT
Found at i:43688 original size:33 final size:33
Alignment explanation
Indices: 43649--43719 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
43639 TTCACTTAGA
43649 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
43682 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
43715 TTTCA
1 TTTCA
43720 AGTTAGTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:43842 original size:20 final size:19
Alignment explanation
Indices: 43798--43901 Score: 92
Period size: 19 Copynumber: 5.6 Consensus size: 19
43788 TGCAGAAGAG
*
43798 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAG--AAATGACAA
**
43819 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGA-AATGACAA
*
43839 TCGCAACGCGAAATGACAA
1 TCGCAACGAGAAATGACAA
43858 TCGCAACGAG--AT---AA
1 TCGCAACGAGAAATGACAA
* *
43872 TCGCAACGCGAAATGAAAA
1 TCGCAACGAGAAATGACAA
43891 TCGCAACGAGA
1 TCGCAACGAGA
43902 GAATCGCAAC
Statistics
Matches: 68, Mismatches: 9, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
14 11 0.16
16 2 0.03
17 2 0.03
19 28 0.41
20 15 0.22
21 10 0.15
ACGTcount: A:0.43, C:0.21, G:0.23, T:0.12
Consensus pattern (19 bp):
TCGCAACGAGAAATGACAA
Found at i:43875 original size:14 final size:14
Alignment explanation
Indices: 43856--43917 Score: 52
Period size: 14 Copynumber: 4.1 Consensus size: 14
43846 GCGAAATGAC
*
43856 AATCGCAACGAGAT
1 AATCGCAACGAGAA
43870 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAA
*
43889 AATCGCAACGAGAG
1 AATCGCAACGAGAA
*
43903 AATCGCAACGCGAA
1 AATCGCAACGAGAA
43917 A
1 A
43918 CCAAAATCGC
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
14 23 0.59
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 10 0.26
ACGTcount: A:0.45, C:0.23, G:0.23, T:0.10
Consensus pattern (14 bp):
AATCGCAACGAGAA
Found at i:43881 original size:33 final size:33
Alignment explanation
Indices: 43810--43928 Score: 148
Period size: 33 Copynumber: 3.4 Consensus size: 33
43800 GCAACGAGAT
43810 AAATGAAAATCGCAACGAGAGAATGACTGTCGCAACGCG
1 AAATGAAAATCGCAACGAGAG-A--A---TCGCAACGCG
* *
43849 AAATGACAATCGCAACGAGATAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
43882 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
**
43915 AAACCAAAATCGCA
1 AAATGAAAATCGCA
43929 TTGCGATTTT
Statistics
Matches: 74, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
33 53 0.72
36 1 0.01
38 1 0.01
39 19 0.26
ACGTcount: A:0.45, C:0.23, G:0.22, T:0.11
Consensus pattern (33 bp):
AAATGAAAATCGCAACGAGAGAATCGCAACGCG
Found at i:43946 original size:19 final size:19
Alignment explanation
Indices: 43924--44005 Score: 88
Period size: 19 Copynumber: 4.7 Consensus size: 19
43914 GAAACCAAAA
* *
43924 TCGCATTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
43943 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
43962 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
43976 T--CGTTGCGATTGTCATT
1 TCGCGTTGCGATTTTCATT
43993 TCGCGTTGCGATT
1 TCGCGTTGCGATT
44006 CTCTCGTTGC
Statistics
Matches: 53, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
12 8 0.15
14 3 0.06
17 4 0.08
19 38 0.72
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:43984 original size:31 final size:33
Alignment explanation
Indices: 43946--44027 Score: 141
Period size: 31 Copynumber: 2.5 Consensus size: 33
43936 TTTTATTTCG
43946 CGTTGCGATTTTCATTTCGCGTTGCGA-T-TCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
*
43977 CGTTGCGATTGTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
44010 CGTTGCGATTTTCATTTC
1 CGTTGCGATTTTCATTTC
44028 AACCAAAAGA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
31 26 0.55
32 1 0.02
33 20 0.43
ACGTcount: A:0.10, C:0.23, G:0.22, T:0.45
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
Found at i:45874 original size:93 final size:93
Alignment explanation
Indices: 45715--46182 Score: 888
Period size: 93 Copynumber: 5.1 Consensus size: 93
45705 TAGATTGCTT
*
45715 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
45780 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
45808 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
45873 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
45901 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
45966 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
45994 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
46059 TTTGTC-TTGTTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTG-TTTTGTCTTTTGGTTGAA
*
46087 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTTTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
46152 TTTGTC-TTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
46178 AGTAA
1 AGTAA
46183 TGCAATCCAT
Statistics
Matches: 372, Mismatches: 2, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
91 6 0.02
92 19 0.05
93 347 0.93
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:46255 original size:20 final size:19
Alignment explanation
Indices: 46230--46358 Score: 107
Period size: 19 Copynumber: 7.3 Consensus size: 19
46220 TAGTTTACTT
* *
46230 TCGCAACACGAAAGTTAAAA
1 TCGCAACGCGAAA-TCAAAA
*
46250 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATCAAAA
*
46269 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATCAAAA
*
46288 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAATCAAAA
*
46302 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATCAAAA
*
46321 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAATCAAAA
*
46335 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATCAAAA
46354 TCGCA
1 TCGCA
46359 TTGCGATTTT
Statistics
Matches: 89, Mismatches: 10, Indels: 21
0.74 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.52
20 12 0.13
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAATCAAAA
Found at i:46270 original size:19 final size:19
Alignment explanation
Indices: 46246--46358 Score: 120
Period size: 19 Copynumber: 6.5 Consensus size: 19
46236 CACGAAAGTT
46246 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAACC
**
46265 AAAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAACC
46284 AAAATCGCAA--CG--A-C
1 AAAATCGCAACGCGAAACC
*
46298 AGAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAACC
46317 AAAATCGCAA--CG--A-C
1 AAAATCGCAACGCGAAACC
*
46331 AAGATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAACC
46350 AAAATCGCA
1 AAAATCGCA
46359 TTGCGATTTT
Statistics
Matches: 77, Mismatches: 7, Indels: 20
0.74 0.07 0.19
Matches are distributed among these distances:
14 19 0.25
15 2 0.03
16 4 0.05
17 4 0.05
18 2 0.03
19 46 0.60
ACGTcount: A:0.47, C:0.28, G:0.18, T:0.07
Consensus pattern (19 bp):
AAAATCGCAACGCGAAACC
Found at i:46309 original size:33 final size:32
Alignment explanation
Indices: 46266--46358 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
46256 CGCGAAACCA
**
46266 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
46298 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
46331 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
46359 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:46356 original size:52 final size:51
Alignment explanation
Indices: 46246--46358 Score: 131
Period size: 52 Copynumber: 2.2 Consensus size: 51
46236 CACGAAAGTT
* *
46246 AAAATCGCAACGCGAAACCAAAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAAATCGCAACGCGAAACCAAAATCGCAACGCGAAATGAAAAGCGAAAC-AC
* * *
46298 AGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGATCGCAACGCGAAAC-C
1 AAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-AT-GAAAAGCGAAACAC
46350 AAAATCGCA
1 AAAATCGCA
46359 TTGCGATTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
52 41 0.79
53 3 0.06
54 8 0.15
ACGTcount: A:0.47, C:0.28, G:0.18, T:0.07
Consensus pattern (51 bp):
AAAATCGCAACGCGAAACCAAAATCGCAACGCGAAATGAAAAGCGAAACAC
Found at i:46376 original size:19 final size:19
Alignment explanation
Indices: 46354--46487 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
46344 GAAACCAAAA
*
46354 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
46373 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
46389 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
46406 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
46422 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
46439 TCGCGTTGCGA-TTTGGTT
1 TCGCGTTGCGATTTTCATT
*
46457 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
46477 TCGTGTTGCGA
1 TCGCGTTGCGA
46488 AAGTAAACTA
Statistics
Matches: 93, Mismatches: 10, Indels: 23
0.74 0.08 0.18
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
18 16 0.17
19 28 0.30
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:46395 original size:14 final size:14
Alignment explanation
Indices: 46376--46432 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
46366 TTTCATTTCG
46376 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
46390 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
46407 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
46423 CGTTGCGATT
1 CGTTGCGATT
46433 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:46401 original size:33 final size:33
Alignment explanation
Indices: 46359--46487 Score: 168
Period size: 33 Copynumber: 3.8 Consensus size: 33
46349 CAAAATCGCA
46359 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
* *
46392 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
*
46425 TTGCGATTTTCATTTCGCGTTGCGATTTGGTTTCGCG
1 TTGCGATTTTCATTTCGCGTTGCGA-TT-CTTT--CG
* *
46462 TTGCGATTTTAAGTTTCGTGTTGCGA
1 TTGCGATTTTCA-TTTCGCGTTGCGA
46488 AAGTAAACTA
Statistics
Matches: 84, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
33 55 0.65
34 2 0.02
35 2 0.02
37 13 0.15
38 12 0.14
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
Found at i:48422 original size:14 final size:14
Alignment explanation
Indices: 48403--48434 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
48393 GTTTAATTGA
48403 TTGTAAAAGATGAT
1 TTGTAAAAGATGAT
*
48417 TTGTAAAAGTTGAT
1 TTGTAAAAGATGAT
48431 TTGT
1 TTGT
48435 GTAATTGATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TTGTAAAAGATGAT
Found at i:48556 original size:19 final size:19
Alignment explanation
Indices: 48540--48641 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
48530 AAAAATGACT
48540 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
48559 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
48578 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
48592 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
48611 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
48631 ATCGCAATGCG
1 ATCGCAATGCG
48642 TTTATAATTT
Statistics
Matches: 75, Mismatches: 2, Indels: 12
0.84 0.02 0.13
Matches are distributed among these distances:
14 10 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 40 0.53
20 19 0.25
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:48690 original size:33 final size:33
Alignment explanation
Indices: 48648--49008 Score: 199
Period size: 33 Copynumber: 10.5 Consensus size: 33
48638 TGCGTTTATA
48648 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
*
48681 ATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC
1 ATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTC
*
48717 -TTTCG--TTGCGATTTTCATTTCGCATTGCGA-TTTC
1 ATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTC
*
48751 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTGTC
1 ATTTCGCATTGCGA--TTC-TCTCG--TTGCGATT-T-TC
* * * * * *
48791 GTTGCG-ATTTTC-ATT-TCGCATTTCGATTTTC
1 ATTTCGCA-TTGCGATTCTCTCGTTGCGATTTTC
*
48822 ATTTCGCATTGCGATTCTGTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
* *
48855 ATTTCGCATTTCGATTTTCATTTCGCATTGCGATTCTCTC
1 ATTTCGCATTGCGA--TTC-TCTCG--TTGCGATT-T-TC
* * * * *
48895 GTTGCG-ATTTTC-ATT-TCGCATTGCGATTTTC
1 ATTTCGCA-TTGCGATTCTCTCGTTGCGATTTTC
48926 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
* *
48959 ATTTCCGCATTGCGATTTTCAT-GTTGGGATTTTC
1 ATTT-CGCATTGCGATTCTC-TCGTTGCGATTTTC
*
48993 ATTTCGCGTTGCGATT
1 ATTTCGCATTGCGATT
49009 GTAATTTCCG
Statistics
Matches: 269, Mismatches: 30, Indels: 58
0.75 0.08 0.16
Matches are distributed among these distances:
31 18 0.07
32 10 0.04
33 108 0.40
34 32 0.12
35 21 0.08
36 11 0.04
37 29 0.11
38 15 0.06
39 6 0.02
40 19 0.07
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.47
Consensus pattern (33 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
Found at i:48694 original size:19 final size:19
Alignment explanation
Indices: 48670--49008 Score: 380
Period size: 19 Copynumber: 19.4 Consensus size: 19
48660 GATTCTCTCG
48670 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
48689 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
48708 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
48722 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
48741 TTGCGA-TTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
48759 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
48778 TTGCGA--TTC-TGTCG--
1 TTGCGATTTTCATTTCGCA
48792 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
48811 TTTCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
48830 TTGCGA--TTC-TGTCG--
1 TTGCGATTTTCATTTCGCA
48844 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
48863 TTTCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
48882 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
48896 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
48915 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
48934 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
48948 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
48968 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
48982 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
49001 TTGCGATT
1 TTGCGATT
49009 GTAATTTCCG
Statistics
Matches: 274, Mismatches: 14, Indels: 64
0.78 0.04 0.18
Matches are distributed among these distances:
14 41 0.15
16 38 0.14
17 35 0.13
18 21 0.08
19 127 0.46
20 12 0.04
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:48710 original size:52 final size:51
Alignment explanation
Indices: 48648--49008 Score: 275
Period size: 52 Copynumber: 6.9 Consensus size: 51
48638 TGCGTTTATA
* *
48648 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTTTCGTTGCGA-TTTCATTTCGCGTTGCGATTTTC
*
48700 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGA-TTTC
1 ATTTCGCATTGCGATTCTTTCGTTGCGA-TTTCATTTCGCGTTGCGATTTTC
*
48751 ATTTCGCATTGCGATTTTCATTTCGCATTGCGA-TTC-TGT--CGTTGCGATTTTC
1 ATTTCGCATTGCGA--TTC-TTTCG--TTGCGATTTCATTTCGCGTTGCGATTTTC
* *
48803 ATTTCGCATTTCGATTTTCATTTCGCATTGCGA-TTC-TGT--CGTTGCGATTTTC
1 ATTTCGCATTGCGA--TTC-TTTCG--TTGCGATTTCATTTCGCGTTGCGATTTTC
* * * * *
48855 ATTTCGCATTTCGA-T-TTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTTTCGTTGCG-ATTTC-ATT-TCGCGTTGCGATTTTC
* * * *
48907 ATTTCGCATTGCGA-T-TTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTTTCGTTGCG-ATTTC-ATT-TCGCGTTGCGATTTTC
*
48959 ATTTCCGCATTGCGA-T-TTTCATGTTGGGATTTTCATTTCGCGTTGCGATT
1 ATTT-CGCATTGCGATTCTTTC--GTTGCGA-TTTCATTTCGCGTTGCGATT
49009 GTAATTTCCG
Statistics
Matches: 278, Mismatches: 14, Indels: 33
0.86 0.04 0.10
Matches are distributed among these distances:
45 4 0.01
46 1 0.00
47 6 0.02
49 2 0.01
50 1 0.00
51 25 0.09
52 183 0.66
53 32 0.12
54 12 0.04
55 6 0.02
56 6 0.02
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.47
Consensus pattern (51 bp):
ATTTCGCATTGCGATTCTTTCGTTGCGATTTCATTTCGCGTTGCGATTTTC
Found at i:51520 original size:24 final size:24
Alignment explanation
Indices: 51486--51532 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
51476 CTGAAACATC
51486 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
51510 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
51533 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:52241 original size:20 final size:20
Alignment explanation
Indices: 52213--52422 Score: 172
Period size: 20 Copynumber: 10.5 Consensus size: 20
52203 AAATTTCAGT
* *
52213 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACAGATTCGC
* **
52233 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACAGATTCGC
*
52253 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACAGATTCGC
* **
52273 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACAGATTCGC
* * **
52293 GTTGCGATATACGGAAACGC
1 GTTGCGATTTACAGATTCGC
* *
52313 GTTGCGATTTAC-GAATACAC
1 GTTGCGATTTACAG-ATTCGC
* *
52333 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACAGATTCGC
* * *
52353 ATTGCGATTTA-TGTGTTCGC
1 GTTGCGATTTACAG-ATTCGC
* *
52373 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACAGATTCGC
* *
52393 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACAGATTCGC
52413 GTTGCGATTT
1 GTTGCGATTT
52423 TGGAAAATCG
Statistics
Matches: 161, Mismatches: 25, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
19 2 0.01
20 158 0.98
21 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.39
Consensus pattern (20 bp):
GTTGCGATTTACAGATTCGC
Found at i:52273 original size:40 final size:40
Alignment explanation
Indices: 52213--52402 Score: 195
Period size: 40 Copynumber: 4.8 Consensus size: 40
52203 AAATTTCAGT
* *
52213 GTTGTGATTTACAGATTCTCGTTGCGATTTACGGATTATC
1 GTTGCGATTTACAGATTCGCGTTGCGATTTACGGATTATC
*
52253 GTTGCGATTTACAGATTCTCGTTGCGATTTACGGATTATC
1 GTTGCGATTTACAGATTCGCGTTGCGATTTACGGATTATC
* * ** * *
52293 GTTGCGATATACGGAAACGCGTTGCGATTTAC-GAATACAC
1 GTTGCGATTTACAGATTCGCGTTGCGATTTACGGATTA-TC
* * * * **
52333 GTTGCGATTTACGGATACGCATTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACAGATTCGCGTTGCGATTTACG-GATTATC
* *
52373 GTTGCGATTTTCATATTCGCGTTGCGATTT
1 GTTGCGATTTACAGATTCGCGTTGCGATTT
52403 TCATATTCGC
Statistics
Matches: 127, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.03
40 121 0.95
41 1 0.01
42 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.24, T:0.38
Consensus pattern (40 bp):
GTTGCGATTTACAGATTCGCGTTGCGATTTACGGATTATC
Found at i:52439 original size:21 final size:20
Alignment explanation
Indices: 52369--52486 Score: 83
Period size: 20 Copynumber: 5.8 Consensus size: 20
52359 ATTTATGTGT
* * * *
52369 TCGCGTTGCGATTTTCATAT
1 TCGCATTGCGATTTTGAAAA
* * * *
52389 TCGCGTTGCGATTTTCATAT
1 TCGCATTGCGATTTTGAAAA
*
52409 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTT-GAAAA
* * **
52430 TCGCAATGCGAATTTGACTA
1 TCGCATTGCGATTTTGAAAA
*
52450 TCGCATTGCGATTTTCAAGAA
1 TCGCATTGCGATTTTGAA-AA
*
52471 TCGCGTTGCGATTTTG
1 TCGCATTGCGATTTTG
52487 GACACTGATT
Statistics
Matches: 81, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
20 52 0.64
21 29 0.36
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (20 bp):
TCGCATTGCGATTTTGAAAA
Found at i:52481 original size:41 final size:40
Alignment explanation
Indices: 52354--52544 Score: 138
Period size: 41 Copynumber: 4.8 Consensus size: 40
52344 CGGATACGCA
* * *
52354 TTGCGATTTATG-TGTTCGCGTTGCGATTTTCATATTCGCG
1 TTGCGATTT-TGATATTCGCGTTGCGATTTTCAAAATCGCG
* * *
52394 TTGCGATTTTCATATTCGCGTTGCGATTTTGGAAAATCGCA
1 TTGCGATTTTGATATTCGCGTTGCGATTTT-CAAAATCGCG
* * *
52435 ATGCGAATTTGACTA-TCGCATTGCGATTTTCAAGAATCGCG
1 TTGCGATTTTGA-TATTCGCGTTGCGATTTTCAA-AATCGCG
* * ** * ****
52476 TTGCGATTTTGGACACT-GATTTGCGATTCTGGGGATCGCG
1 TTGCGATTTT-GATATTCGCGTTGCGATTTTCAAAATCGCG
*
52516 TTGCGATTTTTAT-TTCGCGTTGCGATTTT
1 TTGCGATTTTGATATTCGCGTTGCGATTTT
52545 GTTGGTCATT
Statistics
Matches: 116, Mismatches: 28, Indels: 15
0.73 0.18 0.09
Matches are distributed among these distances:
38 1 0.01
39 12 0.10
40 44 0.38
41 54 0.47
42 5 0.04
ACGTcount: A:0.18, C:0.17, G:0.25, T:0.40
Consensus pattern (40 bp):
TTGCGATTTTGATATTCGCGTTGCGATTTTCAAAATCGCG
Found at i:53818 original size:23 final size:23
Alignment explanation
Indices: 53774--53818 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
53764 ATCATTATAT
*
53774 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
53797 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
53819 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:55745 original size:15 final size:14
Alignment explanation
Indices: 55725--55762 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
55715 CCTATGTTCC
55725 TTTAAAATTGTGCCA
1 TTTAAAATTGT-CCA
55740 TTT-AAATTGTCCA
1 TTTAAAATTGTCCA
55753 TTTGAAAATT
1 TTT-AAAATT
55763 TTAACAACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 6 0.29
14 7 0.33
15 8 0.38
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.45
Consensus pattern (14 bp):
TTTAAAATTGTCCA
Found at i:58326 original size:15 final size:17
Alignment explanation
Indices: 58306--58338 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
58296 CGGTTCTTTC
58306 TTCA-TTTCTAT-ATTT
1 TTCATTTTCTATGATTT
58321 TTCATTTTCTATGATTT
1 TTCATTTTCTATGATTT
58338 T
1 T
58339 ATCAATTCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 7 0.44
17 5 0.31
ACGTcount: A:0.18, C:0.12, G:0.03, T:0.67
Consensus pattern (17 bp):
TTCATTTTCTATGATTT
Found at i:58539 original size:15 final size:17
Alignment explanation
Indices: 58519--58551 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
58509 CGGTTCTTTC
58519 TTCA-TTTCTAT-ATTT
1 TTCATTTTCTATGATTT
58534 TTCATTTTCTATGATTT
1 TTCATTTTCTATGATTT
58551 T
1 T
58552 ATCAATTCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 7 0.44
17 5 0.31
ACGTcount: A:0.18, C:0.12, G:0.03, T:0.67
Consensus pattern (17 bp):
TTCATTTTCTATGATTT
Found at i:58642 original size:213 final size:216
Alignment explanation
Indices: 58275--58681 Score: 768
Period size: 213 Copynumber: 1.9 Consensus size: 216
58265 GATTTCAGTC
58275 TTCCACCATTCAACAAATTAACGGTTCTTTCTTCATTTCTATATTTTTCATTTTCTATGATTTTA
1 TTCCACCATTCAACAAATTAACGGTTCTTTCTTCATTTCTATATTTTTCATTTTCTATGATTTTA
58340 TCAATTCATTGTGGAATGCGGTTAGGTTTATTGTTTATCCTTTTAATTTTCATTATAGGGTTTAG
66 TCAATTCATTGTGGAATGCGGTTAGGTTTATTGTTTATCCTTTTAATTTTCATTATAGGGTTTAG
58405 TTTTTGTCATTGGTGAAATGCAAG-TT-TTGAGTTGTTCTTGCCATTTTA-TTGCTTACGTGACT
131 TTTTTGTCATTGGTGAAATGCAAGTTTATTGAGTTGTTCTTGCCATTTTATTTGCTTACGTGACT
58467 TAACTTTTCATTTCTTTTCAG
196 TAACTTTTCATTTCTTTTCAG
58488 TTCCACCATTCAACAAATTAACGGTTCTTTCTTCATTTCTATATTTTTCATTTTCTATGATTTTA
1 TTCCACCATTCAACAAATTAACGGTTCTTTCTTCATTTCTATATTTTTCATTTTCTATGATTTTA
58553 TCAATTCATTGTGGAATGCGGTTAGG-TTATTGTTTATCCTTTTAATTTTTCATTATAGGGTTTA
66 TCAATTCATTGTGGAATGCGGTTAGGTTTATTGTTTATCCTTTTAA-TTTTCATTATAGGGTTTA
58617 GTTTTTGTCATTGGTGAAATGCAAGTTTGATTGAGTTGTTCTTGCCATTTTATTTGCTTACGTGA
130 GTTTTTGTCATTGGTGAAATGCAAGTTT-ATTGAGTTGTTCTTGCCATTTTATTTGCTTACGTGA
58682 TATTTTGCTT
Statistics
Matches: 189, Mismatches: 0, Indels: 6
0.97 0.00 0.03
Matches are distributed among these distances:
212 19 0.10
213 134 0.71
214 2 0.01
216 22 0.12
217 12 0.06
ACGTcount: A:0.21, C:0.14, G:0.15, T:0.50
Consensus pattern (216 bp):
TTCCACCATTCAACAAATTAACGGTTCTTTCTTCATTTCTATATTTTTCATTTTCTATGATTTTA
TCAATTCATTGTGGAATGCGGTTAGGTTTATTGTTTATCCTTTTAATTTTCATTATAGGGTTTAG
TTTTTGTCATTGGTGAAATGCAAGTTTATTGAGTTGTTCTTGCCATTTTATTTGCTTACGTGACT
TAACTTTTCATTTCTTTTCAG
Found at i:70486 original size:28 final size:29
Alignment explanation
Indices: 70446--70515 Score: 124
Period size: 28 Copynumber: 2.4 Consensus size: 29
70436 ACCGTTGATC
70446 AGGGGGAATCGGTACCCCCTT-GGGGGGG
1 AGGGGGAATCGGTACCCCCTTGGGGGGGG
*
70474 AGGGGGAATCGGTTCCCCCTTGGGGGGGG
1 AGGGGGAATCGGTACCCCCTTGGGGGGGG
70503 AGGGGGAATCGGT
1 AGGGGGAATCGGT
70516 TCCCTCTAGA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
28 20 0.50
29 20 0.50
ACGTcount: A:0.14, C:0.19, G:0.51, T:0.16
Consensus pattern (29 bp):
AGGGGGAATCGGTACCCCCTTGGGGGGGG
Found at i:70499 original size:29 final size:28
Alignment explanation
Indices: 70446--70519 Score: 130
Period size: 29 Copynumber: 2.6 Consensus size: 28
70436 ACCGTTGATC
*
70446 AGGGGGAATCGGTACCCCCTTGGGGGGG
1 AGGGGGAATCGGTTCCCCCTTGGGGGGG
70474 AGGGGGAATCGGTTCCCCCTTGGGGGGGG
1 AGGGGGAATCGGTTCCCCCTT-GGGGGGG
70503 AGGGGGAATCGGTTCCC
1 AGGGGGAATCGGTTCCC
70520 TCTAGACAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
28 20 0.45
29 24 0.55
ACGTcount: A:0.14, C:0.22, G:0.49, T:0.16
Consensus pattern (28 bp):
AGGGGGAATCGGTTCCCCCTTGGGGGGG
Found at i:78684 original size:51 final size:51
Alignment explanation
Indices: 78459--78975 Score: 615
Period size: 51 Copynumber: 9.9 Consensus size: 51
78449 TGACGAGTCT
* * * * **
78459 GCTCCCTATTCGTTCAGGGAGTATAAGACTCGAACAATCTTCAGCAAACGTGTAT
1 GCTCCCTATTCCTTCAGAGAGTATAGGACT----CAATCTTCAACAAACGTGTCC
* * * *
78514 GCTCCCTATTCATTCAGGGAGTATAGAACTCGAACAATCTTCATA-AAACGGGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAGGACT----CAATCTTCA-ACAAACGTGTCC
* * *
78569 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATA-AAACGGGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAGGACT----CAATCTTCA-ACAAACGTGTCC
* * * * * *
78624 GATCTCTATTCCTTCAGAGAGTATAGAACTCGATCTTCAATAAACGTGTCT
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACAAACGTGTCC
* * *
78675 GCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCT
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACAAACGTGTCC
* * *
78726 GCTCCCTATTCTTTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACAAACGTGTCC
* *
78777 GCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACAAACGTGTCC
* *
78828 GCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACAAACGTGTCC
* *
78879 GCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACAAACGTGTCC
78930 GCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACAAACG
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACAAACG
78976 AGTTTGCTTC
Statistics
Matches: 434, Mismatches: 26, Indels: 8
0.93 0.06 0.02
Matches are distributed among these distances:
50 1 0.00
51 305 0.70
55 128 0.29
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (51 bp):
GCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACAAACGTGTCC
Found at i:80132 original size:14 final size:14
Alignment explanation
Indices: 80113--80147 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
80103 CCACTATGCG
80113 CAAATTCTGAATTT
1 CAAATTCTGAATTT
80127 CAAATTCTGAATTT
1 CAAATTCTGAATTT
80141 CAAATTC
1 CAAATTC
80148 AACTCAAGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.37, C:0.17, G:0.06, T:0.40
Consensus pattern (14 bp):
CAAATTCTGAATTT
Found at i:80283 original size:16 final size:15
Alignment explanation
Indices: 80247--80285 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
80237 TATTTCTCTT
80247 TTTTTTTCATTTTTC
1 TTTTTTTCATTTTTC
80262 TCTTTTTTCATTTTTC
1 T-TTTTTTCATTTTTC
*
80278 ATTTTTTC
1 TTTTTTTC
80286 TTCCCTTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTTTTCATTTTTC
Found at i:80364 original size:25 final size:24
Alignment explanation
Indices: 80249--80371 Score: 60
Period size: 26 Copynumber: 4.9 Consensus size: 24
80239 TTTCTCTTTT
*
80249 TTTTTCATTTTTCTCTT-TTTTC-A
1 TTTTTCATTTTT-TCTTCTTTTCTT
*
80272 TTTTTCATTTTTTCTTCCCTTTTCCAT
1 TTTTTCATTTTTTCTT--CTTTT-CTT
*
80299 TTTTTC-TTCTTTTTTTCCTTTTCGTT
1 TTTTTCATT-TTTTCTT-CTTTTC-TT
*
80325 TTTTCCATCATTTTTCTT-TTTTCTCAT
1 TTTTTCAT--TTTTTCTTCTTTTCT--T
80352 TTTTTC-TTCTTTTC-TCTTTT
1 TTTTTCATT-TTTTCTTCTTTT
80372 ATTTCTTCTT
Statistics
Matches: 80, Mismatches: 6, Indels: 26
0.71 0.05 0.23
Matches are distributed among these distances:
22 4 0.05
23 12 0.15
24 2 0.03
25 15 0.19
26 21 0.26
27 19 0.24
28 6 0.08
29 1 0.01
ACGTcount: A:0.06, C:0.21, G:0.01, T:0.72
Consensus pattern (24 bp):
TTTTTCATTTTTTCTTCTTTTCTT
Found at i:80376 original size:19 final size:18
Alignment explanation
Indices: 80239--80381 Score: 85
Period size: 19 Copynumber: 8.1 Consensus size: 18
80229 CCTCCTTTTA
*
80239 TTTCTC-TTTTTTTTTCATT
1 TTTCTCATTTTTTCTTC--T
*
80258 TTTCTC-TTTTTTC--AT
1 TTTCTCATTTTTTCTTCT
80273 TTT-TCATTTTTTCTTCCCT
1 TTTCTCATTTTTTCTT--CT
80292 TTTC-CATTTTTTCTTCT
1 TTTCTCATTTTTTCTTCT
80309 TTT-T--TTCCTTTTCGTT-T
1 TTTCTCATT--TTTTC-TTCT
80326 TTTC-CATCATTTTTCTT-T
1 TTTCTCAT--TTTTTCTTCT
80344 TTTCTCATTTTTTCTTCT
1 TTTCTCATTTTTTCTTCT
*
80362 TTTCTCTTTTATTTCTTCT
1 TTTCTCATTT-TTTCTTCT
80381 T
1 T
80382 CAAGCAAAAT
Statistics
Matches: 102, Mismatches: 4, Indels: 36
0.72 0.03 0.25
Matches are distributed among these distances:
14 2 0.02
15 13 0.13
17 22 0.22
18 19 0.19
19 45 0.44
21 1 0.01
ACGTcount: A:0.06, C:0.21, G:0.01, T:0.73
Consensus pattern (18 bp):
TTTCTCATTTTTTCTTCT
Found at i:89908 original size:44 final size:45
Alignment explanation
Indices: 89845--89987 Score: 207
Period size: 45 Copynumber: 3.1 Consensus size: 45
89835 TGTTATCCAC
* *
89845 AAAAAGAAATCCTAACCGCATGATATCTAATTCGCATGCTTATTC-
1 AAAAATAAA-CCTAACCGCATGATATCTAGTTCGCATGCTTATTCG
* *
89890 AAAAATAAACCTAACCGCATGATATCTAGTTCGCATACTTGTTCG
1 AAAAATAAACCTAACCGCATGATATCTAGTTCGCATGCTTATTCG
*
89935 AAAAATAAACCTAACCGCATGATATCTAGTTCGCAAGCATTTATTCG
1 AAAAATAAACCTAACCGCATGATATCTAGTTCGCATGC--TTATTCG
89982 AAAAAT
1 AAAAAT
89988 GAAAATAAAT
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
44 32 0.36
45 44 0.50
47 12 0.14
ACGTcount: A:0.39, C:0.21, G:0.12, T:0.28
Consensus pattern (45 bp):
AAAAATAAACCTAACCGCATGATATCTAGTTCGCATGCTTATTCG
Found at i:119902 original size:123 final size:123
Alignment explanation
Indices: 119769--120015 Score: 494
Period size: 123 Copynumber: 2.0 Consensus size: 123
119759 AATAGAAAAC
119769 TGCTTCAAATTATAAATTGACCAATCCCATTGTAATGAGAAAAAAGATAAAATAAAATATAAAAT
1 TGCTTCAAATTATAAATTGACCAATCCCATTGTAATGAGAAAAAAGATAAAATAAAATATAAAAT
119834 AAAAATAACATGAGTGATTCACCCAAATTATCCCAAGTATGAATTTAAATACATTAAT
66 AAAAATAACATGAGTGATTCACCCAAATTATCCCAAGTATGAATTTAAATACATTAAT
119892 TGCTTCAAATTATAAATTGACCAATCCCATTGTAATGAGAAAAAAGATAAAATAAAATATAAAAT
1 TGCTTCAAATTATAAATTGACCAATCCCATTGTAATGAGAAAAAAGATAAAATAAAATATAAAAT
119957 AAAAATAACATGAGTGATTCACCCAAATTATCCCAAGTATGAATTTAAATACATTAAT
66 AAAAATAACATGAGTGATTCACCCAAATTATCCCAAGTATGAATTTAAATACATTAAT
120015 T
1 T
120016 ATTTGTCTAA
Statistics
Matches: 124, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
123 124 1.00
ACGTcount: A:0.49, C:0.13, G:0.09, T:0.29
Consensus pattern (123 bp):
TGCTTCAAATTATAAATTGACCAATCCCATTGTAATGAGAAAAAAGATAAAATAAAATATAAAAT
AAAAATAACATGAGTGATTCACCCAAATTATCCCAAGTATGAATTTAAATACATTAAT
Found at i:125364 original size:25 final size:26
Alignment explanation
Indices: 125334--125383 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
125324 TATTTTTTAT
* *
125334 TTAATTTATTTTTATAATA-TAAAAA
1 TTAATTTATATTTAAAATAGTAAAAA
*
125359 TTAATTTGTATTTAAAATAGTAAAA
1 TTAATTTATATTTAAAATAGTAAAA
125384 TAAAACTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (26 bp):
TTAATTTATATTTAAAATAGTAAAAA
Found at i:125662 original size:27 final size:27
Alignment explanation
Indices: 125631--125684 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
125621 GTCTAAACAT
125631 CAACATACCGATATAATACTTAAATTA
1 CAACATACCGATATAATACTTAAATTA
125658 CAACATACCGATATAATACTTAAATTA
1 CAACATACCGATATAATACTTAAATTA
125685 TTCGTAGTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.48, C:0.19, G:0.04, T:0.30
Consensus pattern (27 bp):
CAACATACCGATATAATACTTAAATTA
Found at i:130265 original size:30 final size:30
Alignment explanation
Indices: 130231--130453 Score: 392
Period size: 30 Copynumber: 7.4 Consensus size: 30
130221 GGTTCTTCGG
* *
130231 GACCTATGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
130261 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
130291 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
*
130321 GACATCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
*
130351 GACCTCTGGGTAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
130381 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
* *
130411 GACCTTTGGATAGTTACTGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
130441 GACCTCTGGATAG
1 GACCTCTGGATAG
130454 GTCCTTCGGA
Statistics
Matches: 184, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 184 1.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (30 bp):
GACCTCTGGATAGTTACCGAGGATCTTTAT
Found at i:133880 original size:20 final size:20
Alignment explanation
Indices: 133855--133892 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
133845 GAATGCTAGA
*
133855 GGGGAATCGATACCCCCAGG
1 GGGGAACCGATACCCCCAGG
*
133875 GGGGAACCGATTCCCCCA
1 GGGGAACCGATACCCCCA
133893 TAATGAAAAA
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:0.24, C:0.34, G:0.32, T:0.11
Consensus pattern (20 bp):
GGGGAACCGATACCCCCAGG
Found at i:135046 original size:30 final size:30
Alignment explanation
Indices: 135012--135185 Score: 321
Period size: 30 Copynumber: 5.8 Consensus size: 30
135002 TCGGGGCCTA
135012 TGGATAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
135042 TGGATAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
*
135072 TGGATAGTTACCGAGGATCTTTATGACATC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
135102 TGGATAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
*
135132 TGGATAGTTACCGAGGATATTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
*
135162 TGGATAGTTACTGAGGATCTTTAT
1 TGGATAGTTACCGAGGATCTTTAT
135186 TGTAACACCC
Statistics
Matches: 139, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 139 1.00
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (30 bp):
TGGATAGTTACCGAGGATCTTTATGACCTC
Found at i:136011 original size:10 final size:9
Alignment explanation
Indices: 135976--136074 Score: 81
Period size: 10 Copynumber: 10.3 Consensus size: 9
135966 GCTGCTGGAA
*
135976 ACCGGTTTA
1 ACCGGTTTG
*
135985 ACCGGTTTTCA
1 ACCGG-TTT-G
135996 ACCGGTTCTG
1 ACCGGTT-TG
136006 ACCGGTTTG
1 ACCGGTTTG
*
136015 ACCGGTTTCA
1 ACCGGTTT-G
*
136025 ACCGGTTCG
1 ACCGGTTTG
136034 AACCGGTTTG
1 -ACCGGTTTG
*
136044 ACCGGTCTG
1 ACCGGTTTG
*
136053 AATCGGTTTG
1 -ACCGGTTTG
*
136063 ACCGGTCTG
1 ACCGGTTTG
136072 ACC
1 ACC
136075 CGACCCGACC
Statistics
Matches: 74, Mismatches: 10, Indels: 12
0.77 0.10 0.12
Matches are distributed among these distances:
9 33 0.45
10 34 0.46
11 7 0.09
ACGTcount: A:0.16, C:0.27, G:0.27, T:0.29
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:136020 original size:19 final size:19
Alignment explanation
Indices: 135977--136074 Score: 78
Period size: 19 Copynumber: 5.1 Consensus size: 19
135967 CTGCTGGAAA
* * *
135977 CCGGTTTAACCGGTTTTCAA
1 CCGGTTTGACCGGTTCT-GA
135997 CCGGTTCTGACCGGTT-TGA
1 CCGGTT-TGACCGGTTCTGA
*
136016 CCGGTTTCAACCGGTTC-GAA
1 CCGGTTT-GACCGGTTCTG-A
136036 CCGGTTTGACCGG-TCTGAA
1 CCGGTTTGACCGGTTCTG-A
*
136055 TCGGTTTGACCGG-TCTGA
1 CCGGTTTGACCGGTTCTGA
136073 CC
1 CC
136075 CGACCCGACC
Statistics
Matches: 67, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
18 5 0.07
19 39 0.58
20 15 0.22
21 8 0.12
ACGTcount: A:0.15, C:0.28, G:0.28, T:0.30
Consensus pattern (19 bp):
CCGGTTTGACCGGTTCTGA
Found at i:136038 original size:29 final size:30
Alignment explanation
Indices: 135975--136074 Score: 118
Period size: 29 Copynumber: 3.4 Consensus size: 30
135965 GGCTGCTGGA
*
135975 AACCGGTTTAACCGGTTTTCAACCGGTTCTG
1 AACCGGTTTGACCGG-TTTCAACCGGTTCTG
136006 -ACCGGTTTGACCGGTTTCAACCGGTTC-G
1 AACCGGTTTGACCGGTTTCAACCGGTTCTG
* * *
136034 AACCGGTTTGACCGGTCTGAATCGGTT-TG
1 AACCGGTTTGACCGGTTTCAACCGGTTCTG
*
136063 -ACCGGTCTGACC
1 AACCGGTTTGACC
136075 CGACCCGACC
Statistics
Matches: 62, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
28 12 0.19
29 37 0.60
30 13 0.21
ACGTcount: A:0.17, C:0.27, G:0.27, T:0.29
Consensus pattern (30 bp):
AACCGGTTTGACCGGTTTCAACCGGTTCTG
Found at i:136081 original size:5 final size:5
Alignment explanation
Indices: 136071--136150 Score: 70
Period size: 5 Copynumber: 14.8 Consensus size: 5
136061 TGACCGGTCT
* * *
136071 GACCC GACCC GACCGTT GACCC GACCC GACCC GACCGTT GACCC GACCT
1 GACCC GACCC GACC--C GACCC GACCC GACCC GACC--C GACCC GACCC
*
136120 GACCC GACCGTT GACCC GACCC GACCC GACC
1 GACCC GACC--C GACCC GACCC GACCC GACC
136151 GTTGACCGTT
Statistics
Matches: 61, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
5 49 0.80
7 12 0.20
ACGTcount: A:0.19, C:0.50, G:0.23, T:0.09
Consensus pattern (5 bp):
GACCC
Found at i:136097 original size:22 final size:22
Alignment explanation
Indices: 136071--136157 Score: 165
Period size: 22 Copynumber: 4.0 Consensus size: 22
136061 TGACCGGTCT
136071 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
136093 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
*
136115 GACCTGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
136137 GACCCGACCCGACCGTTGACC
1 GACCCGACCCGACCGTTGACC
136158 GTTGACCGTT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 63 1.00
ACGTcount: A:0.18, C:0.48, G:0.23, T:0.10
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCC
Found at i:136159 original size:7 final size:7
Alignment explanation
Indices: 136147--136177 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
136137 GACCCGACCC
136147 GACCGTT
1 GACCGTT
136154 GACCGTT
1 GACCGTT
136161 GACCGTT
1 GACCGTT
*
136168 GACCATT
1 GACCGTT
136175 GAC
1 GAC
136178 TTTCTTTGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.19, C:0.29, G:0.26, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:143348 original size:11 final size:10
Alignment explanation
Indices: 143323--143399 Score: 61
Period size: 10 Copynumber: 7.9 Consensus size: 10
143313 GGCTGCTGGA
143323 AACCGG-TTT
1 AACCGGTTTT
143332 AACCGGTTTT
1 AACCGGTTTT
*
143342 CAACCGGTTCT
1 -AACCGGTTTT
*
143353 GACCGG-TTT
1 AACCGGTTTT
*
143362 GACCGG-TTT
1 AACCGGTTTT
* *
143371 GACCGGTTTC
1 AACCGGTTTT
**
143381 AACCGGTTCG
1 AACCGGTTTT
143391 AACCGGTTT
1 AACCGGTTT
143400 GACCGGTCTG
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
9 23 0.40
10 25 0.44
11 9 0.16
ACGTcount: A:0.17, C:0.26, G:0.26, T:0.31
Consensus pattern (10 bp):
AACCGGTTTT
Found at i:143368 original size:19 final size:19
Alignment explanation
Indices: 143344--143431 Score: 103
Period size: 19 Copynumber: 4.7 Consensus size: 19
143334 CCGGTTTTCA
143344 ACCGGTTCTGACCGGTTTG
1 ACCGGTTCTGACCGGTTTG
*
143363 ACCGGTT-TGACCGGTTTCA
1 ACCGGTTCTGACCGGTTT-G
143382 ACCGGTTC-GAACCGGTTTG
1 ACCGGTTCTG-ACCGGTTTG
*
143401 ACCGG-TCTGAATCGGTTTG
1 ACCGGTTCTG-ACCGGTTTG
143420 ACCGG-TCTGACC
1 ACCGGTTCTGACC
143432 CGACCCGACC
Statistics
Matches: 61, Mismatches: 4, Indels: 9
0.82 0.05 0.12
Matches are distributed among these distances:
18 14 0.23
19 39 0.64
20 8 0.13
ACGTcount: A:0.15, C:0.27, G:0.30, T:0.28
Consensus pattern (19 bp):
ACCGGTTCTGACCGGTTTG
Found at i:143396 original size:38 final size:39
Alignment explanation
Indices: 143324--143406 Score: 134
Period size: 38 Copynumber: 2.2 Consensus size: 39
143314 GCTGCTGGAA
143324 ACCGGTTTAACCGGTTTTCAACCGGTTCTGACCGGTTTG
1 ACCGGTTTAACCGGTTTTCAACCGGTTCTGACCGGTTTG
*
143363 ACCGGTTTGACCGG-TTTCAACCGGTTC-GAACCGGTTTG
1 ACCGGTTTAACCGGTTTTCAACCGGTTCTG-ACCGGTTTG
143401 ACCGGT
1 ACCGGT
143407 CTGAATCGGT
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
37 1 0.02
38 28 0.67
39 13 0.31
ACGTcount: A:0.16, C:0.27, G:0.28, T:0.30
Consensus pattern (39 bp):
ACCGGTTTAACCGGTTTTCAACCGGTTCTGACCGGTTTG
Found at i:143416 original size:29 final size:28
Alignment explanation
Indices: 143354--143431 Score: 93
Period size: 29 Copynumber: 2.8 Consensus size: 28
143344 ACCGGTTCTG
* *
143354 ACCGGTTTGACCGGTTTGACCGGTTTCA
1 ACCGGTTCGACCGGTTTGACCGGTCTCA
*
143382 ACCGGTTCGAACCGGTTTGACCGGTCTGA
1 ACCGGTTCG-ACCGGTTTGACCGGTCTCA
* * *
143411 ATCGGTTTGACCGGTCTGACC
1 ACCGGTTCGACCGGTTTGACC
143432 CGACCCGACC
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
28 19 0.44
29 24 0.56
ACGTcount: A:0.15, C:0.27, G:0.29, T:0.28
Consensus pattern (28 bp):
ACCGGTTCGACCGGTTTGACCGGTCTCA
Found at i:143424 original size:38 final size:38
Alignment explanation
Indices: 143324--143431 Score: 123
Period size: 38 Copynumber: 2.8 Consensus size: 38
143314 GCTGCTGGAA
* *
143324 ACCGGTTTAACCGGTTTTCAACCGGTTCTGACCGGTTTG
1 ACCGGTCTGACCGG-TTTCAACCGGTTCTGACCGGTTTG
*
143363 ACCGGTTTGACCGGTTTCAACCGGTTC-GAACCGGTTTG
1 ACCGGTCTGACCGGTTTCAACCGGTTCTG-ACCGGTTTG
* *
143401 ACCGGTCTGAATCGGTTT-GACCGG-TCTGACC
1 ACCGGTCTG-ACCGGTTTCAACCGGTTCTGACC
143432 CGACCCGACC
Statistics
Matches: 62, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
37 6 0.10
38 36 0.58
39 20 0.32
ACGTcount: A:0.16, C:0.27, G:0.28, T:0.30
Consensus pattern (38 bp):
ACCGGTCTGACCGGTTTCAACCGGTTCTGACCGGTTTG
Found at i:143430 original size:9 final size:9
Alignment explanation
Indices: 143324--143431 Score: 99
Period size: 9 Copynumber: 11.3 Consensus size: 9
143314 GCTGCTGGAA
*
143324 ACCGGTTTA
1 ACCGGTTTG
*
143333 ACCGGTTTTCA
1 ACCGG-TTT-G
143344 ACCGGTTCTG
1 ACCGGTT-TG
143354 ACCGGTTTG
1 ACCGGTTTG
143363 ACCGGTTTG
1 ACCGGTTTG
*
143372 ACCGGTTTCA
1 ACCGGTTT-G
*
143382 ACCGGTTCG
1 ACCGGTTTG
143391 AACCGGTTTG
1 -ACCGGTTTG
*
143401 ACCGGTCTG
1 ACCGGTTTG
*
143410 AATCGGTTTG
1 -ACCGGTTTG
*
143420 ACCGGTCTG
1 ACCGGTTTG
143429 ACC
1 ACC
143432 CGACCCGACC
Statistics
Matches: 83, Mismatches: 10, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
9 42 0.51
10 34 0.41
11 7 0.08
ACGTcount: A:0.16, C:0.27, G:0.28, T:0.30
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:143438 original size:5 final size:5
Alignment explanation
Indices: 143428--143490 Score: 72
Period size: 5 Copynumber: 11.8 Consensus size: 5
143418 TGACCGGTCT
* *
143428 GACCC GACCC GACCGTT GACCC GACCC GACCC GACCC GACCGTT GACCC
1 GACCC GACCC GACC--C GACCC GACCC GACCC GACCC GACC--C GACCC
143477 GACCC GACCC GACC
1 GACCC GACCC GACC
143491 GTTGACCGTT
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
5 42 0.84
7 8 0.16
ACGTcount: A:0.19, C:0.52, G:0.22, T:0.06
Consensus pattern (5 bp):
GACCC
Found at i:143454 original size:22 final size:22
Alignment explanation
Indices: 143450--143497 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
143440 CCGTTGACCC
143450 GACCCGACCCGACCCGACCGTT
1 GACCCGACCCGACCCGACCGTT
143472 GACCCGACCCGACCCGACCGTT
1 GACCCGACCCGACCCGACCGTT
143494 GACC
1 GACC
143498 GTTGACCGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.19, C:0.50, G:0.23, T:0.08
Consensus pattern (22 bp):
GACCCGACCCGACCCGACCGTT
Found at i:143460 original size:27 final size:27
Alignment explanation
Indices: 143428--143504 Score: 127
Period size: 27 Copynumber: 2.8 Consensus size: 27
143418 TGACCGGTCT
143428 GACCCGACCCGACCGTTGACCCGACCC
1 GACCCGACCCGACCGTTGACCCGACCC
143455 GACCCGACCCGACCGTTGACCCGACCC
1 GACCCGACCCGACCGTTGACCCGACCC
*
143482 GACCCGACCGTTGACCGTTGACC
1 GACCCGACC--CGACCGTTGACC
143505 GTTGACCATT
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
27 36 0.77
29 11 0.23
ACGTcount: A:0.18, C:0.48, G:0.23, T:0.10
Consensus pattern (27 bp):
GACCCGACCCGACCGTTGACCCGACCC
Found at i:143497 original size:17 final size:17
Alignment explanation
Indices: 143427--143485 Score: 69
Period size: 17 Copynumber: 3.9 Consensus size: 17
143417 TTGACCGGTC
143427 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
143444 TGACCCGA--C--CC--
1 TGACCCGACCCGACCGT
143455 -GACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
143471 TGACCCGACCCGACC
1 TGACCCGACCCGACC
143486 CGACCGTTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 14
0.71 0.00 0.29
Matches are distributed among these distances:
10 7 0.20
12 1 0.03
13 2 0.06
14 2 0.06
15 1 0.03
17 22 0.63
ACGTcount: A:0.19, C:0.51, G:0.22, T:0.08
Consensus pattern (17 bp):
TGACCCGACCCGACCGT
Found at i:143499 original size:7 final size:7
Alignment explanation
Indices: 143487--143517 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
143477 GACCCGACCC
143487 GACCGTT
1 GACCGTT
143494 GACCGTT
1 GACCGTT
143501 GACCGTT
1 GACCGTT
*
143508 GACCATT
1 GACCGTT
143515 GAC
1 GAC
143518 TTTCTTTGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.19, C:0.29, G:0.26, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:146068 original size:21 final size:21
Alignment explanation
Indices: 146026--146068 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
146016 TTTTCGGGCT
* * *
146026 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
146047 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
146068 A
1 A
146069 CGAATATGAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:146798 original size:147 final size:149
Alignment explanation
Indices: 146607--146898 Score: 507
Period size: 148 Copynumber: 2.0 Consensus size: 149
146597 GGGTAGAGGG
* *
146607 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTT-GAAAGACACA
1 TCTACGCGGTCCTTCGGGA-ATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
* * * *
146671 TGCTTGATCCTTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
65 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTATATGTGATCCTTATGGACATCATT
146736 ATATGGCACTACGGTGCAAT
130 ATATGGCACTACGGTGCAAT
146756 TCTACGCGGTCCTTCGGG-ATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACAT
1 TCTACGCGGTCCTTCGGGAATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACAT
146820 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTATATGTGATCCTTATGGACATCATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTATATGTGATCCTTATGGACATCATTA
146885 TATGGCACTACGGT
131 TATGGCACTACGGT
146899 TAGGGATGGC
Statistics
Matches: 136, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
147 32 0.24
148 86 0.63
149 18 0.13
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.35
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGAATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACAT
ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTATATGTGATCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:149649 original size:17 final size:16
Alignment explanation
Indices: 149627--149668 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
149617 AATCGCAGTA
149627 AATTCATACATACACAT
1 AATTCAT-CATACACAT
*
149644 AATTCATCATTCACAT
1 AATTCATCATACACAT
149660 -ATT-ATCATA
1 AATTCATCATA
149669 TAATCACATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 5 0.22
15 3 0.13
16 8 0.35
17 7 0.30
ACGTcount: A:0.43, C:0.21, G:0.00, T:0.36
Consensus pattern (16 bp):
AATTCATCATACACAT
Found at i:149867 original size:22 final size:22
Alignment explanation
Indices: 149850--149916 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
149840 CTCGTATAAA
149850 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
149872 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
149894 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
149916 T
1 T
149917 ATGTCCATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:150617 original size:2 final size:2
Alignment explanation
Indices: 150610--150646 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
150600 CATATCTATC
150610 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
150647 CCTCAAGATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:151603 original size:21 final size:21
Alignment explanation
Indices: 151579--151623 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
151569 TCTTGTTCGT
* *
151579 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
151600 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
151621 TTG
1 TTG
151624 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:152913 original size:7 final size:7
Alignment explanation
Indices: 152901--152925 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
152891 TTTCATTTCT
152901 TTATTCC
1 TTATTCC
152908 TTATTCC
1 TTATTCC
152915 TTATTCC
1 TTATTCC
152922 TTAT
1 TTAT
152926 ACATTAATCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.60
Consensus pattern (7 bp):
TTATTCC
Found at i:154695 original size:17 final size:16
Alignment explanation
Indices: 154673--154714 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
154663 AATCGCAGTA
154673 AATTCATACATACACAT
1 AATTCAT-CATACACAT
*
154690 AATTCATCATTCACAT
1 AATTCATCATACACAT
154706 -ATT-ATCATA
1 AATTCATCATA
154715 TAATCACATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 5 0.22
15 3 0.13
16 8 0.35
17 7 0.30
ACGTcount: A:0.43, C:0.21, G:0.00, T:0.36
Consensus pattern (16 bp):
AATTCATCATACACAT
Found at i:154913 original size:22 final size:22
Alignment explanation
Indices: 154896--154962 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
154886 CTCGTATAAA
154896 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
154918 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
154940 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
154962 T
1 T
154963 ATGTCCATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:155669 original size:2 final size:2
Alignment explanation
Indices: 155662--155698 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
155652 TCTATCTATC
155662 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
155699 CCTCAAGATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:156645 original size:21 final size:21
Alignment explanation
Indices: 156621--156665 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
156611 TCTTGTTCGT
* *
156621 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
156642 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
156663 TTG
1 TTG
156666 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:161662 original size:21 final size:21
Alignment explanation
Indices: 161620--161662 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
161610 TTTTCGGGCT
* * *
161620 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
161641 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
161662 A
1 A
161663 CGAATATGAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:162393 original size:147 final size:149
Alignment explanation
Indices: 162202--162487 Score: 522
Period size: 148 Copynumber: 1.9 Consensus size: 149
162192 GGGTAGAGGG
* *
162202 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTT-GAAAGACACA
1 TCTACGCGGTCCTTCGGGA-ATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
*
162266 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
65 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTATATGTGGTCCTTATGGACATCATT
162331 ATATGGCACTACGGTGCAAT
130 ATATGGCACTACGGTGCAAT
162351 TCTACGCGGTCCTTCGGG-ATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACAT
1 TCTACGCGGTCCTTCGGGAATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACAT
162415 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTATATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTATATGTGGTCCTTATGGACATCATTA
162480 TATGGCAC
131 TATGGCAC
162488 ATACTTCGGT
Statistics
Matches: 133, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
147 32 0.24
148 83 0.62
149 18 0.14
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGAATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACAT
ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTATATGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:163346 original size:23 final size:23
Alignment explanation
Indices: 163320--163364 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
163310 CACCACAGCT
*
163320 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
* *
163343 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
163365 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:163532 original size:150 final size:149
Alignment explanation
Indices: 163332--163647 Score: 571
Period size: 150 Copynumber: 2.1 Consensus size: 149
163322 TATAAATGCA
*
163332 CCGAAGTG-CCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAA
1 CCGAAG-GACCGCGTAGAATTGCACCGTAGTGCCATATAATGATATCCATAAGGACCACATAGAA
163396 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCCAAGACTTCACACATGT
65 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTT-CAAGACTTCACACATGT
* *
163461 TCCACAGAATATATATATATC
129 TCCAAAGAATATACATATATC
163482 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATATCCATAAGGACCACATAGAAT
1 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATATCCATAAGGACCACATAGAAT
163547 TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
66 TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
*
163612 CAAAGAATATACATATGTC
131 CAAAGAATATACATATATC
163631 CCGAAGGACCGCGTAGA
1 CCGAAGGACCGCGTAGA
163648 CCCTCTACCC
Statistics
Matches: 161, Mismatches: 4, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
149 53 0.33
150 108 0.67
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (149 bp):
CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATATCCATAAGGACCACATAGAAT
TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
CAAAGAATATACATATATC
Found at i:164712 original size:17 final size:19
Alignment explanation
Indices: 164690--164724 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
164680 ACGTTTGGAG
164690 AAGGAAG-AG-AAGAAGAT
1 AAGGAAGAAGCAAGAAGAT
164707 AAGGAAGAAGCAAGAAGA
1 AAGGAAGAAGCAAGAAGA
164725 AATGAGAGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 2 0.12
19 7 0.44
ACGTcount: A:0.60, C:0.03, G:0.34, T:0.03
Consensus pattern (19 bp):
AAGGAAGAAGCAAGAAGAT
Found at i:170217 original size:23 final size:23
Alignment explanation
Indices: 170191--170235 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
170181 CACCACAGCT
*
170191 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
* *
170214 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
170236 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:170402 original size:150 final size:149
Alignment explanation
Indices: 170203--170518 Score: 580
Period size: 150 Copynumber: 2.1 Consensus size: 149
170193 TATAAATGCA
170203 CCGAAGTG-CCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAA
1 CCGAAG-GACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAA
170267 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCCAAGACTTCACACATGT
65 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTT-CAAGACTTCACACATGT
* *
170332 TCCACAGAATATATATATATC
129 TCCAAAGAATATACATATATC
170353 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAAT
1 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAAT
170418 TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
66 TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
*
170483 CAAAGAATATACATATGTC
131 CAAAGAATATACATATATC
170502 CCGAAGGACCGCGTAGA
1 CCGAAGGACCGCGTAGA
170519 CCCTCTACCC
Statistics
Matches: 162, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
149 53 0.33
150 109 0.67
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (149 bp):
CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAAT
TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
CAAAGAATATACATATATC
Found at i:173600 original size:42 final size:42
Alignment explanation
Indices: 173554--173636 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 42
173544 GCCTAAGCTT
*
173554 GTAGTTGCAGATGTACCACCAAAGATATCATTGCCTGTGCTG
1 GTAGTTGCAGACGTACCACCAAAGATATCATTGCCTGTGCTG
* *
173596 GTAGTTGCAGACGTACCACCGAAGATATTATTGCCTGTGCT
1 GTAGTTGCAGACGTACCACCAAAGATATCATTGCCTGTGCT
173637 TGTCACTGTG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (42 bp):
GTAGTTGCAGACGTACCACCAAAGATATCATTGCCTGTGCTG
Found at i:174570 original size:69 final size:70
Alignment explanation
Indices: 174459--174597 Score: 244
Period size: 69 Copynumber: 2.0 Consensus size: 70
174449 GTCAAATGGG
* *
174459 CAACATACTCCAATAAGATTATGACCCATCATTTATTTGACTAATAGTTGACG-CTTGGGTGCAA
1 CAACATACTCCAATAAGATTATGACACATCATTTATTTGACTAACAGTTGACGTCTTGGGTGCAA
174523 ACAGA
66 ACAGA
*
174528 CAACATACTCTAATAAGATTATGACACATCATTTATTTGACTAACAGTTGACGTCTTGGGTGCAA
1 CAACATACTCCAATAAGATTATGACACATCATTTATTTGACTAACAGTTGACGTCTTGGGTGCAA
174593 ACAGA
66 ACAGA
174598 TAGATGACGA
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
69 50 0.76
70 16 0.24
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.29
Consensus pattern (70 bp):
CAACATACTCCAATAAGATTATGACACATCATTTATTTGACTAACAGTTGACGTCTTGGGTGCAA
ACAGA
Found at i:174894 original size:32 final size:32
Alignment explanation
Indices: 174856--174919 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
174846 AGCTTTAATC
174856 AATCTATGAAGAAAGTTCTCCCACTCTTTTTT
1 AATCTATGAAGAAAGTTCTCCCACTCTTTTTT
174888 AATCTATGAAGAAAGTTCTCCCACTCTTTTTT
1 AATCTATGAAGAAAGTTCTCCCACTCTTTTTT
174920 CTTCCAAACC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (32 bp):
AATCTATGAAGAAAGTTCTCCCACTCTTTTTT
Found at i:175159 original size:19 final size:19
Alignment explanation
Indices: 175135--175174 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
175125 TGTACACTAG
175135 ACCATAATCA-GTAGGATTA
1 ACCATAATCAGGT-GGATTA
175154 ACCATAATCAGGTGGATTA
1 ACCATAATCAGGTGGATTA
175173 AC
1 AC
175175 AGAATTAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 18 0.90
20 2 0.10
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.25
Consensus pattern (19 bp):
ACCATAATCAGGTGGATTA
Found at i:179796 original size:78 final size:78
Alignment explanation
Indices: 179667--179825 Score: 257
Period size: 78 Copynumber: 2.0 Consensus size: 78
179657 GATATACTAA
* **
179667 AAGGTTTTCAAGAAAGGAAAAAAGGTAATAAAAACGCTACAAGATAACTAAAAGGTTTACC-ATA
1 AAGGTTTTCAAGAAAGGAAAAAAGGTAATAAAAACGCTACAAGAAAACTAAAAGGAATACCAAT-
179731 AATGGAAATGTATT
65 AATGGAAATGTATT
* *
179745 AAGGTTTTCAAGAAAGTAAAAAAGGTAATTAAAACGCTACAAGAAAACTAAAAGGAATACCAATA
1 AAGGTTTTCAAGAAAGGAAAAAAGGTAATAAAAACGCTACAAGAAAACTAAAAGGAATACCAATA
179810 ATGGAAATGTATT
66 ATGGAAATGTATT
179823 AAG
1 AAG
179826 CCAAAAAAAT
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
78 73 0.97
79 2 0.03
ACGTcount: A:0.52, C:0.09, G:0.18, T:0.22
Consensus pattern (78 bp):
AAGGTTTTCAAGAAAGGAAAAAAGGTAATAAAAACGCTACAAGAAAACTAAAAGGAATACCAATA
ATGGAAATGTATT
Found at i:186044 original size:23 final size:23
Alignment explanation
Indices: 186013--186078 Score: 105
Period size: 23 Copynumber: 2.9 Consensus size: 23
186003 TATTATATGA
*
186013 CACTACGGTGCAATTCTACGCGG
1 CACTCCGGTGCAATTCTACGCGG
*
186036 CACTCCGGTGCAATTCTACGTGG
1 CACTCCGGTGCAATTCTACGCGG
*
186059 CACTCCGGTGCAATTATACG
1 CACTCCGGTGCAATTCTACG
186079 AGCTGTGGTG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.21, C:0.30, G:0.24, T:0.24
Consensus pattern (23 bp):
CACTCCGGTGCAATTCTACGCGG
Found at i:186459 original size:16 final size:16
Alignment explanation
Indices: 186408--186460 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
186398 TGTATGTGAT
186408 ATATGTATATGATGTGTG
1 ATATG-ATAT-ATGTGTG
* * **
186426 ATATGATGTGTGCATG
1 ATATGATATATGTGTG
186442 ATATGATATATGTGTG
1 ATATGATATATGTGTG
186458 ATA
1 ATA
186461 GGGGTTATGG
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
16 19 0.70
17 3 0.11
18 5 0.19
ACGTcount: A:0.30, C:0.02, G:0.26, T:0.42
Consensus pattern (16 bp):
ATATGATATATGTGTG
Found at i:206959 original size:21 final size:21
Alignment explanation
Indices: 206933--207007 Score: 71
Period size: 21 Copynumber: 3.5 Consensus size: 21
206923 AGGGAATCAA
206933 TCCCCCCCTGAGGGAACCGAT
1 TCCCCCCCTGAGGGAACCGAT
**
206954 TCCCCCTTTGAAGGGGAACCGAT
1 TCCCCCCCTG-A-GGGAACCGAT
* *
206977 TCCCCCCACAG-GGGAATCGAT
1 TCCCCCC-CTGAGGGAACCGAT
*
206998 ACCCCCCCTG
1 TCCCCCCCTG
207008 GGGTTCTGTT
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
20 2 0.05
21 23 0.53
22 1 0.02
23 16 0.37
24 1 0.02
ACGTcount: A:0.20, C:0.41, G:0.23, T:0.16
Consensus pattern (21 bp):
TCCCCCCCTGAGGGAACCGAT
Found at i:210607 original size:21 final size:21
Alignment explanation
Indices: 210581--210648 Score: 100
Period size: 21 Copynumber: 3.2 Consensus size: 21
210571 TCTCCGTCGT
*
210581 CGTCCGTCGCTTGCCATCCAC
1 CGTCCGTCGCTTGCCGTCCAC
*
210602 CGTCCGTCGCTTTCCGTCCAC
1 CGTCCGTCGCTTGCCGTCCAC
* *
210623 CATCCGTCGCTTGCCGTCCGC
1 CGTCCGTCGCTTGCCGTCCAC
210644 CGTCC
1 CGTCC
210649 TCCGTACTCC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.06, C:0.49, G:0.21, T:0.25
Consensus pattern (21 bp):
CGTCCGTCGCTTGCCGTCCAC
Found at i:210665 original size:42 final size:42
Alignment explanation
Indices: 210583--210670 Score: 99
Period size: 42 Copynumber: 2.1 Consensus size: 42
210573 TCCGTCGTCG
* *
210583 TCCGTCGCTTGCCATCCACCGTCCGTCGCTTTCCGTCCACCA
1 TCCGTCGCTTGCCATCCACCGTCCGTCGCTCTCCGACCACCA
* * *
210625 TCCGTCGCTTGCCGTCCGCCGTCC-TC-CGTACTCCGACCACCG
1 TCCGTCGCTTGCCATCCACCGTCCGTCGC-T-CTCCGACCACCA
210667 TCCG
1 TCCG
210671 CCGCCGCACA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
40 1 0.03
41 3 0.08
42 35 0.90
ACGTcount: A:0.08, C:0.49, G:0.19, T:0.24
Consensus pattern (42 bp):
TCCGTCGCTTGCCATCCACCGTCCGTCGCTCTCCGACCACCA
Found at i:216565 original size:16 final size:16
Alignment explanation
Indices: 216550--216595 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 16
216540 CAAAATTAAT
216550 ATATT-TTAT-TTATA
1 ATATTATTATATTATA
216564 ATATTATTATATTATA
1 ATATTATTATATTATA
*
216580 AT-TT-TTAAATTATA
1 ATATTATTATATTATA
216594 AT
1 AT
216596 TACTTTATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 16 0.55
15 6 0.21
16 7 0.24
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
ATATTATTATATTATA
Found at i:216591 original size:22 final size:21
Alignment explanation
Indices: 216542--216592 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
216532 AATCATAACA
* *
216542 AAATTAATATATTTTATTTAT
1 AAATTATTATATTTAATTTAT
*
216563 AATATTATTATATTATAATTTTT
1 AA-ATTATTATATT-TAATTTAT
216586 AAATTAT
1 AAATTAT
216593 AATTACTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 2 0.08
22 15 0.60
23 8 0.32
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
AAATTATTATATTTAATTTAT
Done.