Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006506.1 Hibiscus syriacus cultivar Beakdansim tig00015836_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: 245942
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:2580 original size:15 final size:15
Alignment explanation
Indices: 2560--2606 Score: 94
Period size: 15 Copynumber: 3.1 Consensus size: 15
2550 GTAGGACCAT
2560 TACATCCCGAAGGAC
1 TACATCCCGAAGGAC
2575 TACATCCCGAAGGAC
1 TACATCCCGAAGGAC
2590 TACATCCCGAAGGAC
1 TACATCCCGAAGGAC
2605 TA
1 TA
2607 TTATACCCTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.34, C:0.32, G:0.19, T:0.15
Consensus pattern (15 bp):
TACATCCCGAAGGAC
Found at i:2766 original size:12 final size:12
Alignment explanation
Indices: 2749--2795 Score: 76
Period size: 12 Copynumber: 3.9 Consensus size: 12
2739 TATCATGTTC
* *
2749 TCATATTACATG
1 TCATATCACATA
2761 TCATATCACATA
1 TCATATCACATA
2773 TCATATCACATA
1 TCATATCACATA
2785 TCATATCACAT
1 TCATATCACAT
2796 GAACATATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.38, C:0.23, G:0.02, T:0.36
Consensus pattern (12 bp):
TCATATCACATA
Found at i:3209 original size:64 final size:63
Alignment explanation
Indices: 3101--3277 Score: 212
Period size: 64 Copynumber: 2.8 Consensus size: 63
3091 TAATGAAGGT
* * * ** * * **
3101 ATGCATCGATGCACTACTGATGCATCGGTGCATCAAAGGTATTCGATGTAGT-ATTATTGTTGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCA-CGATTGCATTCGATGT-GTCACTATTAATGGG
* *
3165 ATGCATCGATGCACTCCTTATGCATCGATGCACCGATTGCATTCGATGTTTCACTATTAATGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCA-CGATTGCATTCGATGTGTCACTATTAATGGG
3229 ATGCATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGT
1 ATGCATCGATGCACTACTTATGCATCGATGCACG-ATTGCATTCGATGT
3278 CTTTATTTTA
Statistics
Matches: 98, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
63 3 0.03
64 95 0.97
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (63 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACGATTGCATTCGATGTGTCACTATTAATGGG
Found at i:3298 original size:64 final size:63
Alignment explanation
Indices: 3101--3325 Score: 206
Period size: 64 Copynumber: 3.5 Consensus size: 63
3091 TAATGAAGGT
* * * ** * * * ** *
3101 ATGCATCGATGCACTACTGATGCATCGGTGCATCAAAGGTATTCGATGTAGT-ATTATTGTTGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCA-CGATTGCATTCGATGT-TTCACTATTAATGAG
* *
3165 ATGCATCGATGCACTCCTTATGCATCGATGCACCGATTGCATTCGATGTTTCACTATTAATGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCA-CGATTGCATTCGATGTTTCACTATTAATGAG
* *
3229 ATGCATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGTCTTTA-TTTTAAAAT-
1 ATGCATCGATGCACTACTTATGCATCGATGCACG-ATTGCATTCGATGT-TTCACTATT--AATG
3292 AG
62 AG
**
3294 -TGCATCGATGCACTACCAATGCATCGATGCAC
1 ATGCATCGATGCACTACTTATGCATCGATGCAC
3326 ATTCATATAA
Statistics
Matches: 138, Mismatches: 18, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
63 3 0.02
64 128 0.93
65 4 0.03
66 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (63 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACGATTGCATTCGATGTTTCACTATTAATGAG
Found at i:10765 original size:43 final size:43
Alignment explanation
Indices: 10704--10786 Score: 166
Period size: 43 Copynumber: 1.9 Consensus size: 43
10694 ATGCTCTAGC
10704 CTTGTTTTTCGAGGTAATTCCCCTTCTTAAATTTGTCTTTAGT
1 CTTGTTTTTCGAGGTAATTCCCCTTCTTAAATTTGTCTTTAGT
10747 CTTGTTTTTCGAGGTAATTCCCCTTCTTAAATTTGTCTTT
1 CTTGTTTTTCGAGGTAATTCCCCTTCTTAAATTTGTCTTT
10787 GAAAATATAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.16, C:0.19, G:0.13, T:0.52
Consensus pattern (43 bp):
CTTGTTTTTCGAGGTAATTCCCCTTCTTAAATTTGTCTTTAGT
Found at i:19142 original size:18 final size:17
Alignment explanation
Indices: 19121--19154 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
19111 ATGTCCCATG
19121 TCAAAATAAAATACAAAC
1 TCAAAATAAAA-ACAAAC
*
19139 TCAATATAAAAACAAA
1 TCAAAATAAAAACAAA
19155 TGTGACCTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.68, C:0.15, G:0.00, T:0.18
Consensus pattern (17 bp):
TCAAAATAAAAACAAAC
Found at i:24560 original size:91 final size:92
Alignment explanation
Indices: 24395--24564 Score: 227
Period size: 91 Copynumber: 1.9 Consensus size: 92
24385 AACCTTTTAT
* * * * *
24395 GAACTTTAAAGCCATTTTCTAGAATTCCAATTTTTCCAAGGATTAAAATGTTAATTTTTTCTATT
1 GAACTTTAAAGCCAGTTTCTAGAATTCCAATTTTTCAAAGGATTAAAATGTTAATTTTCTATAAT
** *
24460 TTGAGAAATAGTTCTAAAAATTAATAAA
66 TAAAAAAATA-TTCTAAAAATTAATAAA
* *
24488 GAACTTTGAAGCCAGTTT-TAGAATTCCAATTTTT-AAAGGATTAAAGTGTTAATTTTCTATAAT
1 GAACTTTAAAGCCAGTTTCTAGAATTCCAATTTTTCAAAGGATTAAAATGTTAATTTTCTATAAT
24551 TAAAAAAATATTCT
66 TAAAAAAATATTCT
24565 TTTTCTTGTT
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
90 4 0.06
91 31 0.46
92 16 0.24
93 16 0.24
ACGTcount: A:0.39, C:0.10, G:0.11, T:0.41
Consensus pattern (92 bp):
GAACTTTAAAGCCAGTTTCTAGAATTCCAATTTTTCAAAGGATTAAAATGTTAATTTTCTATAAT
TAAAAAAATATTCTAAAAATTAATAAA
Found at i:38548 original size:19 final size:20
Alignment explanation
Indices: 38491--38548 Score: 82
Period size: 19 Copynumber: 2.9 Consensus size: 20
38481 CCGTTAGACA
38491 GGGGGAATCGGTACCCCCTGG
1 GGGGGAATCGGTA-CCCCTGG
* *
38512 GGGGGAATCTGTTCCCCT-G
1 GGGGGAATCGGTACCCCTGG
38531 GGGGGAATCGGTACCCCT
1 GGGGGAATCGGTACCCCT
38549 TTCCCCCTAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 17 0.52
20 5 0.15
21 11 0.33
ACGTcount: A:0.14, C:0.28, G:0.40, T:0.19
Consensus pattern (20 bp):
GGGGGAATCGGTACCCCTGG
Found at i:38576 original size:20 final size:21
Alignment explanation
Indices: 38551--38595 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
38541 GTACCCCTTT
38551 CCCCCTA-GGGGGAATCTGTA
1 CCCCCTAGGGGGGAATCTGTA
38571 CCCCCTAGGGGGGAATCTGTA
1 CCCCCTAGGGGGGAATCTGTA
38592 CCCC
1 CCCC
38596 TTGGATAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.18, C:0.36, G:0.29, T:0.18
Consensus pattern (21 bp):
CCCCCTAGGGGGGAATCTGTA
Found at i:40274 original size:29 final size:30
Alignment explanation
Indices: 40240--40307 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
40230 TTGGATCAAT
** *
40240 GACTAAAATAT-AACTTTTGAAAGTTTAGG
1 GACTAAAATATAAACTTTAAAAAGTGTAGG
* *
40269 GGCTAAAGTATAAACTTTAAAAAGTGTAGG
1 GACTAAAATATAAACTTTAAAAAGTGTAGG
40299 GACTAAAAT
1 GACTAAAAT
40308 TTGTAATTTT
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
29 9 0.29
30 22 0.71
ACGTcount: A:0.44, C:0.07, G:0.19, T:0.29
Consensus pattern (30 bp):
GACTAAAATATAAACTTTAAAAAGTGTAGG
Found at i:40681 original size:22 final size:23
Alignment explanation
Indices: 40656--40699 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
40646 TGGGAGTAGT
*
40656 AACG-AGGTAGAGCACGTACCCC
1 AACGCAGGGAGAGCACGTACCCC
*
40678 AACGTCAGGGAGAGCATGTACC
1 AACG-CAGGGAGAGCACGTACC
40700 TCACGAAGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.22
24 14 0.78
ACGTcount: A:0.32, C:0.27, G:0.30, T:0.11
Consensus pattern (23 bp):
AACGCAGGGAGAGCACGTACCCC
Found at i:40806 original size:3 final size:3
Alignment explanation
Indices: 40791--40820 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
40781 CACCTTCCCT
*
40791 TCC TCC ACC TCC TCC TCC TCC TCC TCC TCC
1 TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC
40821 AGTTCCGAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.03, C:0.67, G:0.00, T:0.30
Consensus pattern (3 bp):
TCC
Found at i:44296 original size:29 final size:28
Alignment explanation
Indices: 44243--44303 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 28
44233 ATTATAACAG
* *
44243 TGACCTAAATAGAAAAACTATAAATTAA
1 TGACCAAAATAGAAAAACTAAAAATTAA
44271 TGACCAAAATAAGAAAAA-TCAAAAATTAA
1 TGACCAAAAT-AGAAAAACT-AAAAATTAA
44300 -GACC
1 TGACC
44304 CCAAGCATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 14 0.48
29 15 0.52
ACGTcount: A:0.59, C:0.13, G:0.08, T:0.20
Consensus pattern (28 bp):
TGACCAAAATAGAAAAACTAAAAATTAA
Found at i:45735 original size:91 final size:91
Alignment explanation
Indices: 45574--45739 Score: 280
Period size: 91 Copynumber: 1.8 Consensus size: 91
45564 CATTGGATTG
* *
45574 AACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCGTTGGATGAGTTCTTCTCATTATGAAATCT
1 AACAAGTTCTTCTCATTATGAACTTATTCTTCCTCGTTAGATGAGTTCTTCTCATTATGAAATCT
*
45639 TCATTGGAAATACTGATGCGAGATCA
66 CCATTGGAAATACTGATGCGAGATCA
*
45665 AACAAGTTCTTCTCATTATGAACTTATT-TTCTCTCGTTAGATGAGTTCTTCTCATTATGAACTC
1 AACAAGTTCTTCTCATTATGAACTTATTCTTC-CTCGTTAGATGAGTTCTTCTCATTATGAAATC
45729 TCCATTGGAAA
65 TCCATTGGAAA
45740 CATTGATCCA
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
90 3 0.04
91 67 0.96
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.40
Consensus pattern (91 bp):
AACAAGTTCTTCTCATTATGAACTTATTCTTCCTCGTTAGATGAGTTCTTCTCATTATGAAATCT
CCATTGGAAATACTGATGCGAGATCA
Found at i:45831 original size:19 final size:17
Alignment explanation
Indices: 45779--45832 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
45769 TGAAAGGAAC
45779 AAGTTCTTCTCATTATG
1 AAGTTCTTCTCATTATG
* * *
45796 AACTTTTTC-CTTTATG
1 AAGTTCTTCTCATTATG
45812 ACGAGTTCTTCTCATTATG
1 A--AGTTCTTCTCATTATG
45831 AA
1 AA
45833 CTCTTCTGGA
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
16 7 0.25
17 8 0.29
18 6 0.21
19 7 0.25
ACGTcount: A:0.24, C:0.19, G:0.11, T:0.46
Consensus pattern (17 bp):
AAGTTCTTCTCATTATG
Found at i:45839 original size:19 final size:18
Alignment explanation
Indices: 45782--45839 Score: 50
Period size: 19 Copynumber: 3.2 Consensus size: 18
45772 AAGGAACAAG
45782 TTCTTCTCATTATGAACT
1 TTCTTCTCATTATGAACT
* *
45800 TT-TTC-CTTTATG-ACGAG
1 TTCTTCTCATTATGAAC--T
45817 TTCTTCTCATTATGAACT
1 TTCTTCTCATTATGAACT
45835 CTTCT
1 -TTCT
45840 GGAAATATCA
Statistics
Matches: 30, Mismatches: 4, Indels: 11
0.67 0.09 0.24
Matches are distributed among these distances:
15 2 0.07
16 6 0.20
17 5 0.17
18 5 0.17
19 10 0.33
20 2 0.07
ACGTcount: A:0.19, C:0.22, G:0.09, T:0.50
Consensus pattern (18 bp):
TTCTTCTCATTATGAACT
Found at i:46061 original size:91 final size:92
Alignment explanation
Indices: 45902--46078 Score: 302
Period size: 91 Copynumber: 1.9 Consensus size: 92
45892 GAGTGATAGG
*
45902 TCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTTTCGGATGAGTTCTTCTCATTATGAA
1 TCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCGTTCGGATGAGTTCTTCTCATTATGAA
45967 CTCTCCATTGGAAACACTGATGTGAGA
66 CTCTCCATTGGAAACACTGATGTGAGA
* * * *
45994 TCGAACAAGTTCTTCTCATTATGAACTTTTTTTCTCTCGTT-GGATGAGTTCTTCTCATTATGAA
1 TCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCGTTCGGATGAGTTCTTCTCATTATGAA
46058 CTCTCCATTGGAAACACTGAT
66 CTCTCCATTGGAAACACTGAT
46079 CCATCTCCTT
Statistics
Matches: 80, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
91 44 0.55
92 36 0.45
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.38
Consensus pattern (92 bp):
TCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCGTTCGGATGAGTTCTTCTCATTATGAA
CTCTCCATTGGAAACACTGATGTGAGA
Found at i:46795 original size:62 final size:65
Alignment explanation
Indices: 46691--46862 Score: 172
Period size: 66 Copynumber: 2.7 Consensus size: 65
46681 AAGAAAAACC
* * * *
46691 ATCTTAAGAGAGACAAAACATTTTTTCAAGAGAAACTATCTCAAAA-ACT-TGTTTCAAAAGAAA
1 ATCTCAAGGGAGACAAAA-ATTATTTCAAGGGAAACTATCTCAAAATACTGTGTTTCAAAAGAAA
46754 -
65 T
* * * ** *
46754 CTGTCAAGGGAGACAAAAATCATTTCAAGGGAAACGT-TCTCAAAATTTTGTGTTTCAAGAGAAA
1 ATCTCAAGGGAGACAAAAATTATTTCAAGGGAAAC-TATCTCAAAATACTGTGTTTCAAAAGAAA
46818 TT
65 -T
* * *
46820 ATCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAA
1 ATCTCAAGGGAGACAAAAATTATTTCAAGGGAAACTATCTCAA
46863 GAGAGACAAA
Statistics
Matches: 88, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
62 22 0.25
63 16 0.18
64 13 0.15
65 1 0.01
66 36 0.41
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.27
Consensus pattern (65 bp):
ATCTCAAGGGAGACAAAAATTATTTCAAGGGAAACTATCTCAAAATACTGTGTTTCAAAAGAAAT
Found at i:46847 original size:36 final size:36
Alignment explanation
Indices: 46804--47088 Score: 408
Period size: 36 Copynumber: 7.8 Consensus size: 36
46794 CAAAATTTTG
* * *
46804 TGTTTCAAGAGAAATTATCTCAAGGGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
*
46840 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
* * *
46876 TGTTTCAACGGAAACTGTCTCAAGAGAGATAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
**
46912 TGTTTCAAGGGAAACTGTCTCAAGAAAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
* **
46948 TGTTTCATGGGAAACAATCTCAAGGGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
46984 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
* * *
47020 TGTTTCAAGGGAAACTATCTCAAGTGAGATAAAATCTTT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAA---TT
47059 TGTTTCAAGGGAAACTGTCTCAAGGGAGAC
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGAC
47089 TCAAGGGAAA
Statistics
Matches: 223, Mismatches: 23, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
36 194 0.87
39 29 0.13
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.27
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
Found at i:46993 original size:21 final size:21
Alignment explanation
Indices: 46967--47031 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 21
46957 GGAAACAATC
46967 TCAAGGGAGACAAAATTTGTT
1 TCAAGGGAGACAAAATTTGTT
* *
46988 TCAA-GG-G---AAA-CTGTC
1 TCAAGGGAGACAAAATTTGTT
47003 TCAAGGGAGACAAAATTTGTT
1 TCAAGGGAGACAAAATTTGTT
47024 TCAAGGGA
1 TCAAGGGA
47032 AACTATCTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
15 7 0.21
16 5 0.15
17 1 0.03
19 1 0.03
20 5 0.15
21 15 0.44
ACGTcount: A:0.37, C:0.12, G:0.26, T:0.25
Consensus pattern (21 bp):
TCAAGGGAGACAAAATTTGTT
Found at i:47105 original size:26 final size:26
Alignment explanation
Indices: 47063--47113 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
47053 ATCTTTTGTT
*
47063 TCAAGGGAAACTGTCTCAAGGGAGAC
1 TCAAGGGAAACTATCTCAAGGGAGAC
* *
47089 TCAAGGGAAATTATCTCAAGTGAGA
1 TCAAGGGAAACTATCTCAAGGGAGA
47114 TAAAATCTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.37, C:0.16, G:0.27, T:0.20
Consensus pattern (26 bp):
TCAAGGGAAACTATCTCAAGGGAGAC
Found at i:47151 original size:40 final size:40
Alignment explanation
Indices: 47107--47386 Score: 407
Period size: 40 Copynumber: 7.0 Consensus size: 40
47097 AATTATCTCA
* *
47107 AGTGAGATAAAATCTTTTGTTTCAAGAAAAAACAATCTTG
1 AGTGAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTG
*
47147 AGTGAGATAAAATCTTCTGTTTCAAGGAAAAACAATATTG
1 AGTGAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTG
* *
47187 AGTGAGATAAAATCTTATGTTTCAAGAAAAAACAATCTTG
1 AGTGAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTG
* *
47227 AGTGAGATTAAATCTTCTGTTTCAAAGAAAAACAATCTTG
1 AGTGAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTG
* * *
47267 AATGAGATAAAATATTTTGTTTCAAGGAAAAACAATCTTG
1 AGTGAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTG
* *
47307 AATGAGATTAAATCTTCTGTTTCAAGGAAAAACAATCTTG
1 AGTGAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTG
** * * *
47347 AGCAAAATAAAATATTATGTTTCAAGGAAAAACAATCTTG
1 AGTGAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTG
47387 TAAAATGAAA
Statistics
Matches: 215, Mismatches: 25, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 215 1.00
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.31
Consensus pattern (40 bp):
AGTGAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTG
Found at i:47729 original size:34 final size:34
Alignment explanation
Indices: 47686--47805 Score: 168
Period size: 34 Copynumber: 3.5 Consensus size: 34
47676 TCTCAGAGAA
*
47686 AAATTGTCTCAAACGAGACGAAATTTGTTTTGAG
1 AAATTGTCTCAAGCGAGACGAAATTTGTTTTGAG
* * *
47720 AAATTGTCTCAAGCGAGACGGAATTTGCTTTGAT
1 AAATTGTCTCAAGCGAGACGAAATTTGTTTTGAG
* *
47754 AAATTGTCTCAAGTGAGACAAAATTTGTTTTGAG
1 AAATTGTCTCAAGCGAGACGAAATTTGTTTTGAG
* *
47788 AAATTATCTCAAGTGAGA
1 AAATTGTCTCAAGCGAGA
47806 ATTTTTTTAA
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 76 1.00
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.33
Consensus pattern (34 bp):
AAATTGTCTCAAGCGAGACGAAATTTGTTTTGAG
Found at i:47969 original size:33 final size:32
Alignment explanation
Indices: 47910--48043 Score: 205
Period size: 32 Copynumber: 4.2 Consensus size: 32
47900 AAGATATTGA
* * * *
47910 ATGCCCCAATATTCGATCTTGAATCTCCAAGG
1 ATGCCCCAACATTTGATGTTGAATCTCCAAAG
47942 ATGCCCCAACATTTTGATGTTGAATCTCCAAAG
1 ATGCCCCAACA-TTTGATGTTGAATCTCCAAAG
*
47975 ATGCCCCAACATTTGATGTTGAATTTCCAAAG
1 ATGCCCCAACATTTGATGTTGAATCTCCAAAG
*
48007 ATGCCCCAACATTTGATGTTGAATCTTCAAAG
1 ATGCCCCAACATTTGATGTTGAATCTCCAAAG
48039 ATGCC
1 ATGCC
48044 TTCTATTGCT
Statistics
Matches: 94, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
32 65 0.69
33 29 0.31
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (32 bp):
ATGCCCCAACATTTGATGTTGAATCTCCAAAG
Found at i:48014 original size:65 final size:64
Alignment explanation
Indices: 47910--48043 Score: 205
Period size: 65 Copynumber: 2.1 Consensus size: 64
47900 AAGATATTGA
* *
47910 ATGCCCCAATATTCGATCTTGAATCTCCAAGGATGCCCCAACATTTTGATGTTGAATCTCCAAAG
1 ATGCCCCAACATTCGATCTTGAATCTCCAAAGATGCCCCAACA-TTTGATGTTGAATCTCCAAAG
* * * *
47975 ATGCCCCAACATTTGATGTTGAATTTCCAAAGATGCCCCAACATTTGATGTTGAATCTTCAAAG
1 ATGCCCCAACATTCGATCTTGAATCTCCAAAGATGCCCCAACATTTGATGTTGAATCTCCAAAG
48039 ATGCC
1 ATGCC
48044 TTCTATTGCT
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
64 25 0.40
65 38 0.60
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (64 bp):
ATGCCCCAACATTCGATCTTGAATCTCCAAAGATGCCCCAACATTTGATGTTGAATCTCCAAAG
Found at i:49108 original size:7 final size:7
Alignment explanation
Indices: 49096--49228 Score: 64
Period size: 7 Copynumber: 18.7 Consensus size: 7
49086 TTTTCTTTAC
49096 TTTTTCT
1 TTTTTCT
49103 TTTTTCTTT
1 TTTTTC--T
49112 TTTTTCT
1 TTTTTCT
49119 TTGTTTC-
1 TT-TTTCT
49126 TTTTTC-
1 TTTTTCT
49132 -TTTTCAT
1 TTTTTC-T
49139 TTTTGCTCT
1 TTTT--TCT
49148 TTTTT-T
1 TTTTTCT
* *
49154 ATTTGCT
1 TTTTTCT
49161 TTAATTT-T
1 TT--TTTCT
49169 TCTTTTCT
1 T-TTTTCT
*
49177 TTTCTCT
1 TTTTTCT
*
49184 TTTCTCT
1 TTTTTCT
*
49191 TTTCTCT
1 TTTTTCT
*
49198 TTTCTCT
1 TTTTTCT
*
49205 TTTCTC-
1 TTTTTCT
*
49211 TGTTTC-
1 TTTTTCT
49217 TTTTTCT
1 TTTTTCT
49224 TTTTT
1 TTTTT
49229 TTTCTTATTT
Statistics
Matches: 104, Mismatches: 8, Indels: 28
0.74 0.06 0.20
Matches are distributed among these distances:
5 5 0.05
6 17 0.16
7 54 0.52
8 11 0.11
9 15 0.14
10 2 0.02
ACGTcount: A:0.03, C:0.17, G:0.03, T:0.77
Consensus pattern (7 bp):
TTTTTCT
Found at i:49193 original size:14 final size:14
Alignment explanation
Indices: 49174--49227 Score: 85
Period size: 14 Copynumber: 3.9 Consensus size: 14
49164 ATTTTTCTTT
49174 TCTTTTCTCTTTTC
1 TCTTTTCTCTTTTC
49188 TCTTTTCTCTTTTC
1 TCTTTTCTCTTTTC
49202 TCTTTTCTCTGTTTC
1 TCTTTTCTCT-TTTC
49217 T-TTTTCT-TTTT
1 TCTTTTCTCTTTT
49228 TTTTCTTATT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
12 3 0.08
13 1 0.03
14 30 0.77
15 5 0.13
ACGTcount: A:0.00, C:0.24, G:0.02, T:0.74
Consensus pattern (14 bp):
TCTTTTCTCTTTTC
Found at i:49228 original size:21 final size:20
Alignment explanation
Indices: 49085--49228 Score: 106
Period size: 21 Copynumber: 7.2 Consensus size: 20
49075 TTATCGTCCC
*
49085 TTTT-TCTTTACTTTTTC-T
1 TTTTCTCTTTTCTTTTTCTT
49103 TTTT-TC-TTT-TTTTTCTT
1 TTTTCTCTTTTCTTTTTCTT
49120 TGTTTCT-TTTTC-TTTTCATT
1 T-TTTCTCTTTTCTTTTTC-TT
* *
49140 TTTGCTCTTTTTTTATTTGCTT
1 TTTTCTCTTTTCTT-TTT-CTT
* *
49162 TAATTTTTCTTTTC-TTTTCTC
1 T--TTTCTCTTTTCTTTTTCTT
*
49183 TTTTCTCTTTTCTCTTTTCTC
1 TTTTCTCTTTTCT-TTTTCTT
49204 TTTTCTCTGTTTCTTTTTCTT
1 TTTTCTCT-TTTCTTTTTCTT
49225 TTTT
1 TTTT
49229 TTTCTTATTT
Statistics
Matches: 102, Mismatches: 9, Indels: 27
0.74 0.07 0.20
Matches are distributed among these distances:
16 6 0.06
17 4 0.04
18 9 0.09
19 23 0.23
20 7 0.07
21 29 0.28
22 14 0.14
23 2 0.02
24 8 0.08
ACGTcount: A:0.03, C:0.17, G:0.03, T:0.76
Consensus pattern (20 bp):
TTTTCTCTTTTCTTTTTCTT
Found at i:49422 original size:2 final size:2
Alignment explanation
Indices: 49415--49519 Score: 210
Period size: 2 Copynumber: 52.5 Consensus size: 2
49405 ACAACAAGGG
49415 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
49457 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
49499 AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
49520 CGGATAAATG
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 103 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50520 original size:27 final size:27
Alignment explanation
Indices: 50490--50590 Score: 184
Period size: 27 Copynumber: 3.7 Consensus size: 27
50480 AATGAAATGC
*
50490 AAATGCAAATGCAAAATGCAAAGATGT
1 AAATGCAGATGCAAAATGCAAAGATGT
50517 AAATGCAGATGCAAAATGCAAAGATGT
1 AAATGCAGATGCAAAATGCAAAGATGT
50544 AAATGCAGATGCAAAATGCAAAGATGT
1 AAATGCAGATGCAAAATGCAAAGATGT
*
50571 AAATACAGATGCAAAATGCA
1 AAATGCAGATGCAAAATGCA
50591 GATGCAAAAT
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 72 1.00
ACGTcount: A:0.50, C:0.12, G:0.20, T:0.18
Consensus pattern (27 bp):
AAATGCAGATGCAAAATGCAAAGATGT
Found at i:50588 original size:67 final size:67
Alignment explanation
Indices: 50517--50698 Score: 264
Period size: 67 Copynumber: 2.7 Consensus size: 67
50507 GCAAAGATGT
* *
50517 AAATGCAGATGCAAAATGCAAAGATGTAAATGCAGATGCAAAATGCAAAGATGTAAATACAGATG
1 AAATGCAGATGCAAAATGCAAAGATGCAAATGCAGATGCAAAATGCAAAGATGCAAATACAGATG
50582 CA
66 CA
*
50584 AAATGCAGATGCAAAATGCAAAGATGCAAATGCAGATGCAAAATGCAAAGATGCAAATGCAGATG
1 AAATGCAGATGCAAAATGCAAAGATGCAAATGCAGATGCAAAATGCAAAGATGCAAATACAGATG
50649 CA
66 CA
50651 AAATGCAAAGATGC-AAATGC--AGATGCAAAATGCAAAGATGC-AAATGCA
1 AAATGC--AGATGCAAAATGCAAAGATGC-AAATGC--AGATGCAAAATGCA
50699 TATGCAAAAA
Statistics
Matches: 107, Mismatches: 3, Indels: 9
0.90 0.03 0.08
Matches are distributed among these distances:
66 6 0.06
67 76 0.71
68 13 0.12
69 12 0.11
ACGTcount: A:0.49, C:0.14, G:0.21, T:0.16
Consensus pattern (67 bp):
AAATGCAGATGCAAAATGCAAAGATGCAAATGCAGATGCAAAATGCAAAGATGCAAATACAGATG
CA
Found at i:50614 original size:27 final size:27
Alignment explanation
Indices: 50577--50707 Score: 244
Period size: 27 Copynumber: 4.8 Consensus size: 27
50567 ATGTAAATAC
50577 AGATGCAAAATGCAGATGCAAAATGCAA
1 AGATGC-AAATGCAGATGCAAAATGCAA
50605 AGATGCAAATGCAGATGCAAAATGCAA
1 AGATGCAAATGCAGATGCAAAATGCAA
50632 AGATGCAAATGCAGATGCAAAATGCAA
1 AGATGCAAATGCAGATGCAAAATGCAA
50659 AGATGCAAATGCAGATGCAAAATGCAA
1 AGATGCAAATGCAGATGCAAAATGCAA
*
50686 AGATGCAAATGCATATGCAAAA
1 AGATGCAAATGCAGATGCAAAA
50708 ATGTTGATCC
Statistics
Matches: 102, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
27 96 0.94
28 6 0.06
ACGTcount: A:0.49, C:0.15, G:0.21, T:0.15
Consensus pattern (27 bp):
AGATGCAAATGCAGATGCAAAATGCAA
Found at i:50623 original size:94 final size:94
Alignment explanation
Indices: 50486--50698 Score: 349
Period size: 94 Copynumber: 2.3 Consensus size: 94
50476 TAAAAATGAA
* * *
50486 ATGC-AAATGCAAATGCAAAATGCAAAGATGTAAATGCAGATGCAAAATGCAAAGATGTAAATGC
1 ATGCAAAATGCAGATGCAAAATGCAAAGATGCAAATGCAGATGCAAAATGCAAAGATGCAAATGC
*
50550 AGATGCAAAATGCAAAGATGTAAATACAG
66 AGATGCAAAATGCAAAGATGCAAATACAG
50579 ATGCAAAATGCAGATGCAAAATGCAAAGATGCAAATGCAGATGCAAAATGCAAAGATGCAAATGC
1 ATGCAAAATGCAGATGCAAAATGCAAAGATGCAAATGCAGATGCAAAATGCAAAGATGCAAATGC
*
50644 AGATGCAAAATGCAAAGATGCAAATGCAG
66 AGATGCAAAATGCAAAGATGCAAATACAG
50673 ATGCAAAATGCAAAGATGC-AAATGCA
1 ATGCAAAATGC--AGATGCAAAATGCA
50699 TATGCAAAAA
Statistics
Matches: 112, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
93 4 0.04
94 95 0.85
95 7 0.06
96 6 0.05
ACGTcount: A:0.49, C:0.14, G:0.21, T:0.16
Consensus pattern (94 bp):
ATGCAAAATGCAGATGCAAAATGCAAAGATGCAAATGCAGATGCAAAATGCAAAGATGCAAATGC
AGATGCAAAATGCAAAGATGCAAATACAG
Found at i:53585 original size:55 final size:55
Alignment explanation
Indices: 53427--53590 Score: 165
Period size: 55 Copynumber: 3.0 Consensus size: 55
53417 TTTAAAGGAA
* * * * *
53427 GTCTTCAATCGGCTTCAAATTTCTTCCTTCATTGGATGTCATTCTTCA-CAGATCT
1 GTCTTCAATCAGTTTCAAATTTCTTCATTCATCGGATGTCATTCTTCATGA-ATCT
* * * **
53482 GTCTTCAATCTGTTT-AAGATTTCTTCAATCATCGAATGTTTTTCTTCATGAAT-T
1 GTCTTCAATCAGTTTCAA-ATTTCTTCATTCATCGGATGTCATTCTTCATGAATCT
*
53536 GATCTTCAATCAGTTTCAAATTTCTTCATTCATCGGATGTCCAAT-TTCATGAATC
1 G-TCTTCAATCAGTTTCAAATTTCTTCATTCATCGGATGT-CATTCTTCATGAATC
53591 ATTTGAACAT
Statistics
Matches: 88, Mismatches: 15, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
54 4 0.05
55 80 0.91
56 4 0.05
ACGTcount: A:0.24, C:0.21, G:0.12, T:0.43
Consensus pattern (55 bp):
GTCTTCAATCAGTTTCAAATTTCTTCATTCATCGGATGTCATTCTTCATGAATCT
Found at i:55382 original size:27 final size:28
Alignment explanation
Indices: 55323--55382 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
55313 ATTATAACAG
* *
55323 TGACCTAAATAGAAAAACTATAAATTAA
1 TGACCAAAATAGAAAAACTAAAAATTAA
55351 TGACCAAAATAGAAAAA-TCAAAAATTAA
1 TGACCAAAATAGAAAAACT-AAAAATTAA
55379 -GACC
1 TGACC
55383 CCAAGCATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 5 0.17
28 24 0.83
ACGTcount: A:0.58, C:0.13, G:0.08, T:0.20
Consensus pattern (28 bp):
TGACCAAAATAGAAAAACTAAAAATTAA
Found at i:58296 original size:29 final size:29
Alignment explanation
Indices: 58262--58346 Score: 73
Period size: 30 Copynumber: 2.8 Consensus size: 29
58252 TGGACCAGTC
58262 ACTAAAATGTAACTTTTGAAAGTTTAGGG
1 ACTAAAATGTAACTTTTGAAAGTTTAGGG
* * * *
58291 GCTAAAGTATAAAC-TTTGAAAAGTATAGGG
1 ACTAAAATGT-AACTTTTG-AAAGTTTAGGG
* *
58321 ACTAAAATTTGTAATTTTTAAAAGTT
1 ACTAAAA--TGTAACTTTTGAAAGTT
58347 ATATGTTTTA
Statistics
Matches: 41, Mismatches: 10, Indels: 8
0.69 0.17 0.14
Matches are distributed among these distances:
29 11 0.27
30 18 0.44
31 7 0.17
32 5 0.12
ACGTcount: A:0.41, C:0.06, G:0.18, T:0.35
Consensus pattern (29 bp):
ACTAAAATGTAACTTTTGAAAGTTTAGGG
Found at i:64235 original size:12 final size:12
Alignment explanation
Indices: 64218--64242 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
64208 GGATCGACAC
64218 CATTTGCATTTT
1 CATTTGCATTTT
64230 CATTTGCATTTT
1 CATTTGCATTTT
64242 C
1 C
64243 CATCGGCATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.20, G:0.08, T:0.56
Consensus pattern (12 bp):
CATTTGCATTTT
Found at i:67259 original size:14 final size:15
Alignment explanation
Indices: 67224--67262 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
67214 TGAGAACCCT
*
67224 AATTTTTTCAATCCC
1 AATTTTTACAATCCC
67239 AATTTTTACAATCCC
1 AATTTTTACAATCCC
67254 AATTTTTAC
1 AATTTTTAC
67263 CTTTATAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (15 bp):
AATTTTTACAATCCC
Found at i:67355 original size:45 final size:45
Alignment explanation
Indices: 67241--67376 Score: 141
Period size: 45 Copynumber: 3.1 Consensus size: 45
67231 TCAATCCCAA
* * * * * **
67241 TTTTTACAATCCCAATTTTTACCTTTATAATCGAGATCCCTAA--
1 TTTTTTCAATCTCACTTTCTACCTTTATAATTGAGGCCCCTAATT
* * * * *
67284 TTTTTTCAATCTCTCTTTTTACCTTTATAATTGATGTCTCTAATT
1 TTTTTTCAATCTCACTTTCTACCTTTATAATTGAGGCCCCTAATT
*
67329 TTTTTTCAATCTCACTTTCTATCTTTATAATTGAGGCCCCTAATT
1 TTTTTTCAATCTCACTTTCTACCTTTATAATTGAGGCCCCTAATT
67374 TTT
1 TTT
67377 CACCTCACTT
Statistics
Matches: 77, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
43 35 0.45
45 42 0.55
ACGTcount: A:0.24, C:0.21, G:0.05, T:0.51
Consensus pattern (45 bp):
TTTTTTCAATCTCACTTTCTACCTTTATAATTGAGGCCCCTAATT
Found at i:67397 original size:41 final size:43
Alignment explanation
Indices: 67239--67414 Score: 169
Period size: 43 Copynumber: 4.1 Consensus size: 43
67229 TTTCAATCCC
* * * * **
67239 AATTTTTACAATCCCAATTTTTACCTTTATAATCGAGATCCCT
1 AATTTTTTCAATCTCACTTTTTACCTTTATAATTGAGGCCCCT
* * * *
67282 AATTTTTTCAATCTCTCTTTTTACCTTTATAATTGATGTCTCT
1 AATTTTTTCAATCTCACTTTTTACCTTTATAATTGAGGCCCCT
* *
67325 AATTTTTTTTCAATCTCACTTTCTATCTTTATAATTGAGGCCCCT
1 AA--TTTTTTCAATCTCACTTTTTACCTTTATAATTGAGGCCCCT
* * * *
67370 AA-TTTTTC-ACCTCACTTTTTACTTTTATAA-TCATGCCCCT
1 AATTTTTTCAATCTCACTTTTTACCTTTATAATTGAGGCCCCT
67410 AATTT
1 AATTT
67415 AATCATTTTC
Statistics
Matches: 110, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
40 10 0.09
41 20 0.18
42 6 0.05
43 37 0.34
45 37 0.34
ACGTcount: A:0.24, C:0.22, G:0.05, T:0.49
Consensus pattern (43 bp):
AATTTTTTCAATCTCACTTTTTACCTTTATAATTGAGGCCCCT
Found at i:68277 original size:21 final size:23
Alignment explanation
Indices: 68253--68304 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
68243 TGAAGTAAAC
68253 AATTCACTTCAA-G-TGGAGCTA
1 AATTCACTTCAAGGTTGGAGCTA
*
68274 AATTCACTTCAAGGTTTGAGCTA
1 AATTCACTTCAAGGTTGGAGCTA
68297 AATTCACT
1 AATTCACT
68305 CCAATGGCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
21 12 0.43
22 1 0.04
23 15 0.54
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (23 bp):
AATTCACTTCAAGGTTGGAGCTA
Found at i:73708 original size:13 final size:14
Alignment explanation
Indices: 73683--73722 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
73673 TCGATATATA
73683 TAAAAAAA-A-TAT
1 TAAAAAAATATTAT
*
73695 TAAAATAAT-TTAT
1 TAAAAAAATATTAT
73708 TAAAAAAATATTAT
1 TAAAAAAATATTAT
73722 T
1 T
73723 TATTATTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 7 0.30
13 11 0.48
14 5 0.22
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
TAAAAAAATATTAT
Found at i:73797 original size:20 final size:21
Alignment explanation
Indices: 73774--73820 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
73764 AAATTATTTA
73774 AATATATAA-ACAATTAAAAC
1 AATATATAATACAATTAAAAC
* *
73794 AATA-AAAATACAATTAGAAC
1 AATATATAATACAATTAAAAC
73814 AATATAT
1 AATATAT
73821 TTAAAAGTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 3 0.14
20 18 0.82
21 1 0.05
ACGTcount: A:0.64, C:0.09, G:0.02, T:0.26
Consensus pattern (21 bp):
AATATATAATACAATTAAAAC
Found at i:75235 original size:3 final size:3
Alignment explanation
Indices: 75227--75327 Score: 141
Period size: 3 Copynumber: 34.0 Consensus size: 3
75217 TTAATATATT
* *
75227 TAA TAA TAA -AA TAA TAA TAA TAA TAA TAA TAA AAA TAA TAT TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
75274 TGA TAA TAA TAA TAT TAA TAA TGA TAA TAA TAA TAT TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
75322 TAA TAA
1 TAA TAA
75328 AATGGATAAA
Statistics
Matches: 85, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
2 2 0.02
3 83 0.98
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:75265 original size:21 final size:21
Alignment explanation
Indices: 75218--75327 Score: 161
Period size: 21 Copynumber: 5.3 Consensus size: 21
75208 TATATGTATT
75218 TAAT-ATATTTAATAATAA-AA
1 TAATAATA-TTAATAATAATAA
*
75238 TAATAATAATAATAATAATAA
1 TAATAATATTAATAATAATAA
* *
75259 AAATAATATTAATAATGATAA
1 TAATAATATTAATAATAATAA
*
75280 TAATAATATTAATAATGATAA
1 TAATAATATTAATAATAATAA
75301 TAATAATATTAATAATAATAA
1 TAATAATATTAATAATAATAA
75322 TAATAA
1 TAATAA
75328 AATGGATAAA
Statistics
Matches: 82, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
20 13 0.16
21 69 0.84
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (21 bp):
TAATAATATTAATAATAATAA
Found at i:79214 original size:80 final size:77
Alignment explanation
Indices: 79078--79222 Score: 177
Period size: 80 Copynumber: 1.8 Consensus size: 77
79068 GTAAAATGTC
* * *
79078 CAATAATAATAAAATCAATAAAAAAAATATTTTAGATAATATTTTATCGAATATATTAATAAAAT
1 CAATAATAATAAAATCAATAAAAAAAATATTTTAAATAATATTTTATCGAAAATATTAAAAAAAT
79143 CGATAAGACGTA
66 CGATAAGACGTA
* * *
79155 CAATAATAATAAAATTGATATAAATAATAAAT-TTTTAAATAATTTTTTA-CTTAAAATATTAAA
1 CAATAATAATAAAA-TCA-ATAAA-AA-AAATATTTTAAATAATATTTTATC-GAAAATATTAAA
79218 AAAAT
61 AAAAT
79223 AATAACAAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
77 14 0.25
78 2 0.04
79 6 0.11
80 31 0.54
81 4 0.07
ACGTcount: A:0.55, C:0.05, G:0.04, T:0.36
Consensus pattern (77 bp):
CAATAATAATAAAATCAATAAAAAAAATATTTTAAATAATATTTTATCGAAAATATTAAAAAAAT
CGATAAGACGTA
Found at i:79578 original size:375 final size:368
Alignment explanation
Indices: 78896--79641 Score: 1379
Period size: 375 Copynumber: 2.0 Consensus size: 368
78886 GATTCAGGGG
78896 AGAAGTGTTGGGATTTGCTTTACATGTTTCTGTTTTTATTGTTAATGGTAGAGAGGGATGCTACG
1 AGAAGTGTTGGGATTTGCTTTACATGTTTCTGTTTTTATTGTTAATGGTAGAGAGGGATGCTACG
78961 ACAGTCTTAATATAATGCTAAAGAAAAGTATTATCAGTTTTGTTATTATTTTTTTAATATTTTAG
66 ACAGTCTTAATATAATGCTAAAGAAAAGTATTATCAGTTTTGTTATTATTTTTTTAATATTTTAG
79026 TAAAAAAAATATTTAAAATATTAATATTTTTTAATATTTTCGGTAAAATGTCCAATAATAATAAA
131 TAAAAAAAATATTTAAAATATTAATATTTTTTAATATTTTCGGTAAAATGTCCAATAATAATAAA
79091 ATCAATAAAAAAAATATTTTAGATAATATTTTATCGAATATATTAATAAAATCGATAAGACGTAC
196 ATCAATAAAAAAAATATTTTAGATAATATTTTATCGAATATATTAATAAAATCGATAAGACGTAC
79156 AATAATAATAAAATTGATATAAATAATAAATTTTTAAATAATTTTTTACTTAAAATATT-AAAAA
261 AATAATAATAAAATTGATATAAATAATAAATTTTTAAATAATTTTTTACTTAAAATATTAAAAAA
79220 AATAATAACAAAATTAATATCATTTTTATTTATCCGTATATTA
326 AATAATAACAAAATTAATATCATTTTTATTTATCCGTATATTA
79263 AGAAGTGTTGGGATTTGCTTTACATGTTTCTGTTTTTATTGTTAATGGTAGAGAGGGATGTTTTA
1 AGAAGTGTTGGGATTTGCTTTACATGTTTCTGTTTTTATTGTTAATGGTAGAGAGGGATG-----
79328 TCCTACGACAGTCTTAATATAATGCTAAAGAAAAGTATTATCAGTTTTGTTATTATTTTTTTAAT
61 --CTACGACAGTCTTAATATAATGCTAAAGAAAAGTATTATCAGTTTTGTTATTATTTTTTTAAT
79393 ATTTTTAGTAAAAAAAAATATTTAAAATATTAATATTTTTTAATATTTTCGGTAAAATGTCCAAT
124 A-TTTTAGT-AAAAAAAATATTTAAAATATTAATATTTTTTAATATTTTCGGTAAAATGTCCAAT
79458 AATAATAAAATCAAT-AAAAAAATATTTTAGATAATATTTTATCGAATATATTAATAAAATCGAT
187 AATAATAAAATCAATAAAAAAAATATTTTAGATAATATTTTATCGAATATATTAATAAAATCGAT
*
79522 AAGACGTACAATAATAATAAAATTGATATAAATAATAATTTTTTAAATAATTTTTTACTTAAAAT
252 AAGACGTACAATAATAATAAAATTGATATAAATAATAAATTTTTAAATAATTTTTTACTTAAAAT
*
79587 ATTAAAAAAAATAATAATAAAATTAATATCATTTTTATTTATCCGTATATTA
317 ATTAAAAAAAATAATAACAAAATTAATATCATTTTTATTTATCCGTATATTA
79639 AGA
1 AGA
79642 CTGTCGCTGA
Statistics
Matches: 367, Mismatches: 2, Indels: 11
0.97 0.01 0.03
Matches are distributed among these distances:
367 60 0.16
374 64 0.17
375 123 0.34
376 120 0.33
ACGTcount: A:0.43, C:0.06, G:0.10, T:0.42
Consensus pattern (368 bp):
AGAAGTGTTGGGATTTGCTTTACATGTTTCTGTTTTTATTGTTAATGGTAGAGAGGGATGCTACG
ACAGTCTTAATATAATGCTAAAGAAAAGTATTATCAGTTTTGTTATTATTTTTTTAATATTTTAG
TAAAAAAAATATTTAAAATATTAATATTTTTTAATATTTTCGGTAAAATGTCCAATAATAATAAA
ATCAATAAAAAAAATATTTTAGATAATATTTTATCGAATATATTAATAAAATCGATAAGACGTAC
AATAATAATAAAATTGATATAAATAATAAATTTTTAAATAATTTTTTACTTAAAATATTAAAAAA
AATAATAACAAAATTAATATCATTTTTATTTATCCGTATATTA
Found at i:82675 original size:3 final size:3
Alignment explanation
Indices: 82667--82701 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
82657 CTAATATAAA
82667 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
82702 ATCAATAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:87929 original size:3 final size:3
Alignment explanation
Indices: 87921--87945 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
87911 TCTCCTGTGT
87921 TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC T
87946 ATCTCCCTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:93171 original size:56 final size:56
Alignment explanation
Indices: 93034--93321 Score: 451
Period size: 56 Copynumber: 5.2 Consensus size: 56
93024 ATAAGGAAGG
* *****
93034 AGGAGGAGGAGGGGAGCTAAATGTTCATGTTGTGAAACAGTCAA----A-AGGAGG
1 AGGAGGAGGAGGAGAGCTAAATGTTCATGTTGTGAAACAGTCAACTTTATACTTTA
93085 AGGAGGAGGAGGAGAGCTAAATGTTCATGTTGTGAAACAGTCAACTTTATACTTTA
1 AGGAGGAGGAGGAGAGCTAAATGTTCATGTTGTGAAACAGTCAACTTTATACTTTA
* * *
93141 AGGAGGAGGAGGACAGCTAAATGTTCATGTTGTGAAACAGTCAACTTTACACTTTG
1 AGGAGGAGGAGGAGAGCTAAATGTTCATGTTGTGAAACAGTCAACTTTATACTTTA
93197 AGGAGGAGGAGGAGAGCTAAATGTTCATGTTGTGAAACAGTCAACTTTATACTTTA
1 AGGAGGAGGAGGAGAGCTAAATGTTCATGTTGTGAAACAGTCAACTTTATACTTTA
*
93253 AGGAGGAGGAGGAGAGCTAAATGTTCATATTGTGAAACAGTCAACTTTATACTTTA
1 AGGAGGAGGAGGAGAGCTAAATGTTCATGTTGTGAAACAGTCAACTTTATACTTTA
93309 AGGAGGAGGAGGA
1 AGGAGGAGGAGGA
93322 TTAACTGATT
Statistics
Matches: 219, Mismatches: 13, Indels: 5
0.92 0.05 0.02
Matches are distributed among these distances:
51 43 0.20
55 1 0.00
56 175 0.80
ACGTcount: A:0.34, C:0.10, G:0.30, T:0.25
Consensus pattern (56 bp):
AGGAGGAGGAGGAGAGCTAAATGTTCATGTTGTGAAACAGTCAACTTTATACTTTA
Found at i:97985 original size:21 final size:21
Alignment explanation
Indices: 97961--98003 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
97951 AGTCCAGACC
* *
97961 TAGAATCGGAAAAGAATCACT
1 TAGAATCAGAAAAGAACCACT
97982 TAGAATCAGAAAAGAACCACT
1 TAGAATCAGAAAAGAACCACT
98003 T
1 T
98004 GCTAGAAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.19
Consensus pattern (21 bp):
TAGAATCAGAAAAGAACCACT
Found at i:99992 original size:2 final size:2
Alignment explanation
Indices: 99985--100009 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
99975 CAACAACTCC
99985 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
100010 ATCCATTCAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:103065 original size:4 final size:4
Alignment explanation
Indices: 103038--103112 Score: 114
Period size: 4 Copynumber: 18.8 Consensus size: 4
103028 TCACTTGCCA
* * * *
103038 ATAT ATAC ATAC ATAC ATAC ATAT ATAT ATAT ATAT ATAT ATAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
103086 ATAT ATAT ATAT ATAT ATAT ATAT ATA
1 ATAT ATAT ATAT ATAT ATAT ATAT ATA
103113 AATGAGAAAG
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
4 69 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (4 bp):
ATAT
Found at i:106144 original size:18 final size:17
Alignment explanation
Indices: 106123--106158 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
106113 TAAAACACTC
106123 AATAATAATATTTTTAAT
1 AATAATAATA-TTTTAAT
106141 AATAATAATATTTTAAT
1 AATAATAATATTTTAAT
106158 A
1 A
106159 GTCTTTTACC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AATAATAATATTTTAAT
Found at i:111455 original size:22 final size:22
Alignment explanation
Indices: 111430--111474 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
111420 ATGGCAGTCA
111430 TATGAGTTGAATGTTAACATGC
1 TATGAGTTGAATGTTAACATGC
111452 TATGAGTTGAATGTTAACATGC
1 TATGAGTTGAATGTTAACATGC
111474 T
1 T
111475 GATTGATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.38
Consensus pattern (22 bp):
TATGAGTTGAATGTTAACATGC
Found at i:114827 original size:21 final size:22
Alignment explanation
Indices: 114798--114839 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
114788 TTCATCGTTC
*
114798 AAACTCCGATATAAAGATCGAA
1 AAACTCCGATATAAAAATCGAA
114820 AAAC-CCGATATAAAAATCGA
1 AAACTCCGATATAAAAATCGA
114840 GACTTTCGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.52, C:0.19, G:0.12, T:0.17
Consensus pattern (22 bp):
AAACTCCGATATAAAAATCGAA
Found at i:118420 original size:6 final size:6
Alignment explanation
Indices: 118413--118774 Score: 215
Period size: 6 Copynumber: 60.7 Consensus size: 6
118403 CATACATATA
* *
118413 TGTATA TGTATA TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
* * * *
118461 TGTATG TGTATG TGTATG TGTATG CGTATG CGTATG CGTATG CGTATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
** * * * ** * * * * ***
118509 CATATG CGTATG CGTATG CGTATG CATATA CGCATG CGTATG CACATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
* * ** * * * * **
118557 CGTATG CGTATG CATATG CGTATG CGTATG CGTATG CGTATG CATATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
* * * * ** * ** * * *
118605 CGTATG CGTATG CGTATG CGTATG CATATA CATATG CGTATG AGCATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
* * * * * * * * * *
118653 CGTATG CGCATA CGTATG CGTATA CGTATG CGTA-- TGTATG TATATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
* * *
118699 TGTATA TATATG TGTATG TGTATG TGTATG TATATG TGTATG TGTATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
118747 TGTATG TGTATG TGTATG TGTATG TGTA
1 TGTATG TGTATG TGTATG TGTATG TGTA
118775 CTTACTGTTC
Statistics
Matches: 313, Mismatches: 41, Indels: 4
0.87 0.11 0.01
Matches are distributed among these distances:
4 3 0.01
6 310 0.99
ACGTcount: A:0.22, C:0.10, G:0.28, T:0.40
Consensus pattern (6 bp):
TGTATG
Found at i:119054 original size:97 final size:97
Alignment explanation
Indices: 118888--119070 Score: 366
Period size: 97 Copynumber: 1.9 Consensus size: 97
118878 TTCAATCCTC
118888 GAGGATTCGTGATATATTACTACAATATATATATATATATATAACAGAACACAGTCGAGTTTTTG
1 GAGGATTCGTGATATATTACTACAATATATATATATATATATAACAGAACACAGTCGAGTTTTTG
118953 TTCAGAAACTGGTAATGTGTGTGTGTGTGTGT
66 TTCAGAAACTGGTAATGTGTGTGTGTGTGTGT
118985 GAGGATTCGTGATATATTACTACAATATATATATATATATATAACAGAACACAGTCGAGTTTTTG
1 GAGGATTCGTGATATATTACTACAATATATATATATATATATAACAGAACACAGTCGAGTTTTTG
119050 TTCAGAAACTGGTAATGTGTG
66 TTCAGAAACTGGTAATGTGTG
119071 CGCGCGCGCG
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
97 86 1.00
ACGTcount: A:0.34, C:0.10, G:0.20, T:0.36
Consensus pattern (97 bp):
GAGGATTCGTGATATATTACTACAATATATATATATATATATAACAGAACACAGTCGAGTTTTTG
TTCAGAAACTGGTAATGTGTGTGTGTGTGTGT
Found at i:119117 original size:10 final size:10
Alignment explanation
Indices: 119086--119154 Score: 66
Period size: 10 Copynumber: 6.7 Consensus size: 10
119076 GCGCGCGCAT
119086 GCGTGTGTGC
1 GCGTGTGTGC
*
119096 GTGTGCGTGTGC
1 GCGT--GTGTGC
* * *
119108 GTGCGCGTGC
1 GCGTGTGTGC
* *
119118 GCGTGTTTGT
1 GCGTGTGTGC
119128 GCGTGTGTGC
1 GCGTGTGTGC
119138 GCGTGTGTGC
1 GCGTGTGTGC
119148 GCGTGTG
1 GCGTGTG
119155 ATCACTAACC
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
10 38 0.81
12 9 0.19
ACGTcount: A:0.00, C:0.19, G:0.49, T:0.32
Consensus pattern (10 bp):
GCGTGTGTGC
Found at i:119134 original size:6 final size:6
Alignment explanation
Indices: 119090--119123 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
119080 GCGCATGCGT
* *
119090 GTGTGC GTGTGC GTGTGC GTGCGC GTGCGC GTGT
1 GTGTGC GTGTGC GTGTGC GTGTGC GTGTGC GTGT
119124 TTGTGCGTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.21, G:0.50, T:0.29
Consensus pattern (6 bp):
GTGTGC
Found at i:119201 original size:27 final size:27
Alignment explanation
Indices: 119163--119217 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
119153 TGATCACTAA
119163 CCTCTTCATATCGAACAGTTCCGTTTT
1 CCTCTTCATATCGAACAGTTCCGTTTT
119190 CCTCTTCATATCGAACAGTTCCGTTTT
1 CCTCTTCATATCGAACAGTTCCGTTTT
119217 C
1 C
119218 AAGATCCTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.18, C:0.31, G:0.11, T:0.40
Consensus pattern (27 bp):
CCTCTTCATATCGAACAGTTCCGTTTT
Found at i:119447 original size:2 final size:2
Alignment explanation
Indices: 119440--119464 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
119430 TTGTAATCTA
119440 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
119465 GGGAGAGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:120228 original size:17 final size:17
Alignment explanation
Indices: 120206--120270 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 17
120196 CGTATAAATG
120206 TCCCGAAGGACCTATCA
1 TCCCGAAGGACCTATCA
**
120223 TCCCGAAGGATGTCATCTA
1 TCCCGAAGGACCT-ATC-A
*
120242 TGTCCCGAAGGACCTGTCA
1 --TCCCGAAGGACCTATCA
120261 TCCCGAAGGA
1 TCCCGAAGGA
120271 TGTAATCTGT
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
17 21 0.54
18 3 0.08
19 2 0.05
20 2 0.05
21 11 0.28
ACGTcount: A:0.26, C:0.31, G:0.23, T:0.20
Consensus pattern (17 bp):
TCCCGAAGGACCTATCA
Found at i:120254 original size:38 final size:38
Alignment explanation
Indices: 120203--120299 Score: 158
Period size: 38 Copynumber: 2.6 Consensus size: 38
120193 GCTCGTATAA
*
120203 ATGTCCCGAAGGACCTATCATCCCGAAGGATGTCATCT
1 ATGTCCCGAAGGACCTATCATCCCGAAGGATGTAATCT
*
120241 ATGTCCCGAAGGACCTGTCATCCCGAAGGATGTAATCT
1 ATGTCCCGAAGGACCTATCATCCCGAAGGATGTAATCT
* *
120279 GTGTCCCGTAGGACCTATCAT
1 ATGTCCCGAAGGACCTATCAT
120300 ATGTCTTATA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 54 1.00
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (38 bp):
ATGTCCCGAAGGACCTATCATCCCGAAGGATGTAATCT
Found at i:120514 original size:46 final size:44
Alignment explanation
Indices: 120447--120539 Score: 123
Period size: 46 Copynumber: 2.1 Consensus size: 44
120437 TATGTGTAAC
* *
120447 CATGTATCACATATTAAATATTCGTATGTCATTTCATATCATATCA
1 CATGTATCACATATTAAATATTCATATATCATTTCATAT-A-ATCA
* **
120493 CATGTATCACGTATTGCATATTCATATATCATTTCATATAATCA
1 CATGTATCACATATTAAATATTCATATATCATTTCATATAATCA
120537 CAT
1 CAT
120540 AGCTTATCTC
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 7 0.17
45 1 0.02
46 34 0.81
ACGTcount: A:0.34, C:0.18, G:0.06, T:0.41
Consensus pattern (44 bp):
CATGTATCACATATTAAATATTCATATATCATTTCATATAATCA
Found at i:122233 original size:18 final size:19
Alignment explanation
Indices: 122198--122233 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
122188 TATTTCAATT
*
122198 TTTTTAAATATAATTTTAA
1 TTTTTAAATATAAATTTAA
122217 TTTTTAAATA-AAATTTA
1 TTTTTAAATATAAATTTA
122234 CAAATTTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTTTAAATATAAATTTAA
Found at i:124591 original size:60 final size:61
Alignment explanation
Indices: 124402--124621 Score: 247
Period size: 59 Copynumber: 3.7 Consensus size: 61
124392 GGAATATTTA
** * * * * * *
124402 AAAAGTTTTGGGACCAATTTAGAAA-GAGGGTCATAGTTTAGGGATGAAAT-TAAAATATTC
1 AAAAGTTTAAGGACTAATTTA-AAATGAAGGTCATATTTTGGGGATGGAATATGAAATATTC
* *
124462 -AAAGTGTAAGGACTAATTTAAAATG-AGAGTCATAGTTT-GGGATGGAATATG-AATATTC
1 AAAAGTTTAAGGACTAATTTAAAATGAAG-GTCATATTTTGGGGATGGAATATGAAATATTC
* *
124520 AAAAGTTTAAGGATTAATTTAAAATGAAGGTCATATTTTGGGGTTGGAATA-GAAATATTC
1 AAAAGTTTAAGGACTAATTTAAAATGAAGGTCATATTTTGGGGATGGAATATGAAATATTC
* *
124580 AAAAGTTTAAGGACCAATTTAAAATGATGGTCATATTTTGGG
1 AAAAGTTTAAGGACTAATTTAAAATGAAGGTCATATTTTGGG
124622 ACATATGATG
Statistics
Matches: 139, Mismatches: 14, Indels: 14
0.83 0.08 0.08
Matches are distributed among these distances:
58 20 0.14
59 61 0.44
60 58 0.42
ACGTcount: A:0.40, C:0.05, G:0.23, T:0.32
Consensus pattern (61 bp):
AAAAGTTTAAGGACTAATTTAAAATGAAGGTCATATTTTGGGGATGGAATATGAAATATTC
Found at i:124983 original size:29 final size:29
Alignment explanation
Indices: 124939--124997 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
124929 AGATTTTCAA
*
124939 AAAAATGACCGGAAACAATATTAGGCGCT
1 AAAAATGACCGAAAACAATATTAGGCGCT
* * *
124968 AAAAATGATCGAAAACATTGTTAGGCGCT
1 AAAAATGACCGAAAACAATATTAGGCGCT
124997 A
1 A
124998 CCCATTTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.44, C:0.15, G:0.20, T:0.20
Consensus pattern (29 bp):
AAAAATGACCGAAAACAATATTAGGCGCT
Found at i:129900 original size:16 final size:16
Alignment explanation
Indices: 129881--129916 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
129871 AGTTTGACTT
129881 GAAATGAATTTGATTC
1 GAAATGAATTTGATTC
*
129897 GAAATGAGTTTGATTC
1 GAAATGAATTTGATTC
129913 GAAA
1 GAAA
129917 AATTTAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.39, C:0.06, G:0.22, T:0.33
Consensus pattern (16 bp):
GAAATGAATTTGATTC
Found at i:130244 original size:51 final size:50
Alignment explanation
Indices: 130188--130288 Score: 132
Period size: 50 Copynumber: 2.0 Consensus size: 50
130178 TTTAAATATA
* *
130188 TTAATTATTTTACT-AAACGTACCAAAAGATTAGTGTAATGATTATATTTTT
1 TTAATTATTTTACTAAAAC--ACCAAAAGATTAATATAATGATTATATTTTT
* * *
130239 TTAATTTTTTTATTAAAACACCAAAAGATTAATATAATGATTATGTTTTT
1 TTAATTATTTTACTAAAACACCAAAAGATTAATATAATGATTATATTTTT
130289 CCCTTTTTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
50 28 0.64
51 12 0.27
52 4 0.09
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.47
Consensus pattern (50 bp):
TTAATTATTTTACTAAAACACCAAAAGATTAATATAATGATTATATTTTT
Found at i:130297 original size:50 final size:49
Alignment explanation
Indices: 130208--130304 Score: 131
Period size: 50 Copynumber: 2.0 Consensus size: 49
130198 TACTAAACGT
* * **
130208 ACCAAAAGATTAGTGTAATGATTATATTTTTTTAATTTTTTTATTAAAAC
1 ACCAAAAGATTAATATAATGATTATA-TTTTTCCATTTTTTTATTAAAAC
* *
130258 ACCAAAAGATTAATATAATGATTATGTTTTTCCCTTTTTTTATTAAA
1 ACCAAAAGATTAATATAATGATTATATTTTTCCATTTTTTTATTAAA
130305 GCTTTTTATC
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
49 18 0.44
50 23 0.56
ACGTcount: A:0.37, C:0.08, G:0.07, T:0.47
Consensus pattern (49 bp):
ACCAAAAGATTAATATAATGATTATATTTTTCCATTTTTTTATTAAAAC
Found at i:130404 original size:31 final size:31
Alignment explanation
Indices: 130345--130408 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
130335 TTTTTATTTT
** *
130345 TTATTAAAATTTTCTATTAAGGTTTTTTTCA
1 TTATTAAAATTTTCTATTAAAATATTTTTCA
*
130376 TTATTAAAGTTTTCTATTAAAATATTTTTCA
1 TTATTAAAATTTTCTATTAAAATATTTTTCA
130407 TT
1 TT
130409 TATTTCTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.31, C:0.06, G:0.05, T:0.58
Consensus pattern (31 bp):
TTATTAAAATTTTCTATTAAAATATTTTTCA
Found at i:131019 original size:53 final size:52
Alignment explanation
Indices: 130957--131056 Score: 157
Period size: 53 Copynumber: 1.9 Consensus size: 52
130947 GATAAAAAAA
* *
130957 TTAATAAAAAAACAAAAAAAAAACATAATCATTACATTAATCTTTTGGTGTT
1 TTAATAAAAAAACAAAAAAAAAACACAATCATTACATCAATCTTTTGGTGTT
131009 TTAATAAAAAAA-ATGAAAAAAAAACACAATCATTACATCAATCTTTTG
1 TTAATAAAAAAACA--AAAAAAAAACACAATCATTACATCAATCTTTTG
131057 ATAGATTTAG
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
51 1 0.02
52 12 0.27
53 31 0.70
ACGTcount: A:0.54, C:0.11, G:0.05, T:0.30
Consensus pattern (52 bp):
TTAATAAAAAAACAAAAAAAAAACACAATCATTACATCAATCTTTTGGTGTT
Found at i:131071 original size:54 final size:53
Alignment explanation
Indices: 130957--131071 Score: 151
Period size: 53 Copynumber: 2.2 Consensus size: 53
130947 GATAAAAAAA
* * * *
130957 TTAAT-AAAAAAACAAAAAAAAAACATAATCATTACATTAATCTTTTGGTGTT
1 TTAATAAAAAAAACAAAAAAAAAACACAATCATTACATCAATCTTTTGATGAT
**
131009 TTAATAAAAAAAATGAAAAAAAAACACAATCATTACATCAATCTTTTGATAGAT
1 TTAATAAAAAAAACAAAAAAAAAACACAATCATTACATCAATCTTTTGAT-GAT
*
131063 TTAGTAAAA
1 TTAATAAAA
131072 TAATTGGTAT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
52 5 0.09
53 39 0.72
54 10 0.19
ACGTcount: A:0.54, C:0.10, G:0.06, T:0.30
Consensus pattern (53 bp):
TTAATAAAAAAAACAAAAAAAAAACACAATCATTACATCAATCTTTTGATGAT
Found at i:131489 original size:33 final size:31
Alignment explanation
Indices: 131452--131538 Score: 106
Period size: 33 Copynumber: 2.7 Consensus size: 31
131442 TAAATTAGTA
131452 TTAAAATATAAA-AAATTAAATTATATATTATTT
1 TTAAAATATAAATAAATT--ATTATA-ATTATTT
*
131485 TTAAAAT-TAAATTAATTATTATAATTATTT
1 TTAAAATATAAATAAATTATTATAATTATTT
131515 TTAAAATATATAAGTAAATTATTA
1 TTAAAATATA-AA-TAAATTATTA
131539 ATAAAAAATA
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
30 14 0.29
31 8 0.17
32 6 0.12
33 20 0.42
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (31 bp):
TTAAAATATAAATAAATTATTATAATTATTT
Found at i:131507 original size:29 final size:30
Alignment explanation
Indices: 131464--131540 Score: 97
Period size: 30 Copynumber: 2.6 Consensus size: 30
131454 AAAATATAAA
131464 AAATTAAATTATAT-ATTATTTTTAAAATT
1 AAATTAAATTATATAATTATTTTTAAAATT
131493 AAATT-AATTATTATAATTATTTTTAAAATAT
1 AAATTAAATTA-TATAATTATTTTTAAAAT-T
*
131524 ATAAGTAAATTAT-TAAT
1 A-AATTAAATTATATAAT
131541 AAAAAATAGA
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
28 5 0.12
29 8 0.19
30 14 0.33
31 6 0.14
32 4 0.10
33 5 0.12
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (30 bp):
AAATTAAATTATATAATTATTTTTAAAATT
Found at i:131661 original size:29 final size:29
Alignment explanation
Indices: 131581--131663 Score: 76
Period size: 29 Copynumber: 2.9 Consensus size: 29
131571 AAATATAAAA
* ** *
131581 AATTTAAACTATGCATTAATTTTTAAATT
1 AATTTAAATTATTTATTAATTTTTAAATG
* * ** *
131610 AATTTAATTTTTTTACCATTTTTTAAATG
1 AATTTAAATTATTTATTAATTTTTAAATG
*
131639 AGTTTAAATTATTTATTAATTTTTA
1 AATTTAAATTATTTATTAATTTTTA
131664 TATATTAATT
Statistics
Matches: 39, Mismatches: 15, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.36, C:0.05, G:0.04, T:0.55
Consensus pattern (29 bp):
AATTTAAATTATTTATTAATTTTTAAATG
Found at i:131669 original size:14 final size:14
Alignment explanation
Indices: 131647--131687 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
131637 TGAGTTTAAA
*
131647 TTATTTATTAATTT
1 TTATATATTAATTT
*
131661 TTATATATTAATTA
1 TTATATATTAATTT
131675 TTATA-ATT-ATTT
1 TTATATATTAATTT
131687 T
1 T
131688 AAAAAAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 4 0.17
13 3 0.12
14 17 0.71
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TTATATATTAATTT
Found at i:131685 original size:172 final size:172
Alignment explanation
Indices: 131495--131837 Score: 623
Period size: 172 Copynumber: 2.0 Consensus size: 172
131485 TTAAAATTAA
* * *
131495 ATTAATTATTATAATTATTTTTAAAATATATAAGTAAATTATTAATAAAAAATAGAAAAAAATTA
1 ATTAATTATTATAATTATTTTAAAAAAATATAAGCAAATTATTAATAAAAAATAGAAAAAAATTA
* *
131560 ATTTAATTTTAAAATATAAAAAATTTAAACTATGCATTAATTTTTAAATTAATTTAATTTTTTTA
66 ATTTAATTTTAAAATATAAAAAATTTAAACTATACATTAATTTTTAAATTAAATTAATTTTTTTA
131625 CCATTTTTTAAATGAGTTTAAATTATTTATTAATTTTTATAT
131 CCATTTTTTAAATGAGTTTAAATTATTTATTAATTTTTATAT
**
131667 ATTAATTATTATAATTATTTTAAAAAAATATAAGCAAATTATTAATGGAAAATAGAAAAAAATTA
1 ATTAATTATTATAATTATTTTAAAAAAATATAAGCAAATTATTAATAAAAAATAGAAAAAAATTA
131732 ATTTAATTTTAAAATATAAAAAATTTAAACTATACATTAATTTTTAAATTAAATTAATTTTTTTA
66 ATTTAATTTTAAAATATAAAAAATTTAAACTATACATTAATTTTTAAATTAAATTAATTTTTTTA
131797 CCATTTTTTAAATGAGTTTAAATTATTTATTAATTTTTATA
131 CCATTTTTTAAATGAGTTTAAATTATTTATTAATTTTTATA
131838 CGAAGTTTTT
Statistics
Matches: 164, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
172 164 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (172 bp):
ATTAATTATTATAATTATTTTAAAAAAATATAAGCAAATTATTAATAAAAAATAGAAAAAAATTA
ATTTAATTTTAAAATATAAAAAATTTAAACTATACATTAATTTTTAAATTAAATTAATTTTTTTA
CCATTTTTTAAATGAGTTTAAATTATTTATTAATTTTTATAT
Found at i:133931 original size:2 final size:2
Alignment explanation
Indices: 133924--133966 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
133914 TTTAAGAAAT
133924 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
133966 T
1 T
133967 TAATGATTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:138036 original size:59 final size:59
Alignment explanation
Indices: 137959--138072 Score: 149
Period size: 59 Copynumber: 1.9 Consensus size: 59
137949 AACAAAATAA
* * * * * *
137959 CGTCTTATAGTCGGAGGACTATTTTGTAACTTTTAATAGTTGAAA-ACTCAACAAAGCAT
1 CGTCCTATAGTCGAAGGACCATTTTATAACTTTAAATAG-TAAAAGACTCAACAAAGCAT
*
138018 CGTCCTATAGTTGAAGGACCATTTTATAACTTTAAATAGTAAAAGACTCAACAAA
1 CGTCCTATAGTCGAAGGACCATTTTATAACTTTAAATAGTAAAAGACTCAACAAA
138073 ATTGTATTTT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
58 4 0.09
59 43 0.91
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.32
Consensus pattern (59 bp):
CGTCCTATAGTCGAAGGACCATTTTATAACTTTAAATAGTAAAAGACTCAACAAAGCAT
Found at i:142515 original size:15 final size:15
Alignment explanation
Indices: 142495--142523 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
142485 TCTTTCTTCC
142495 CGAACATCCAGTAGT
1 CGAACATCCAGTAGT
142510 CGAACATCCAGTAG
1 CGAACATCCAGTAG
142524 CCAATGAGAT
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:0.34, C:0.28, G:0.21, T:0.17
Consensus pattern (15 bp):
CGAACATCCAGTAGT
Found at i:153755 original size:130 final size:130
Alignment explanation
Indices: 153441--153781 Score: 440
Period size: 131 Copynumber: 2.6 Consensus size: 130
153431 ATTAATTCCA
* * *
153441 TTATTTATTTATTGTTA--TTAGTTTTCGAATTATTATACGACCTTGTGGTGACCTGATTCAGGG
1 TTATTTATTTATT-TTATTTTA-TTTTCGAATTATTATACGACCTTGTGGTGACCCGATCCGGGG
* * * * *
153504 TACGATTCATATT-TTAATGGTCTGAACTCTTTTAACATCTAACCGCTAACTTTTAACCACTAAC
64 TATGA-TCACATTATT-ATGGTCAGAACTATGTTAACATCTAACCGCTAACTTTTAACCACTAAC
153568 TTTT
127 TTTT
* * *
153572 TTATTTATGTATTTTATTTTATGTTCGAATAATTATACGACCTTGTGGTGACCCGATCCGGGGTA
1 TTATTTATTTATTTTATTTTATTTTCGAATTATTATACGACCTTGTGGTGACCCGATCCGGGGTA
* * *
153637 TGGTCAACATTATTATGGTTCAG-ACTATGTTAATATCTAACCGCTAACTTTTAACCATTAAC-T
66 TGATC-ACATTATTATGG-TCAGAACTATGTTAACATCTAACCGCTAACTTTTAACCACTAACTT
153700 TT
129 TT
*
153702 TTATTTATTTATTTTATTTTATTTTTGAATTATTATACGACCTTGTGGTGACCCGATCCGGGGTA
1 TTATTTATTTATTTTATTTTATTTTCGAATTATTATACGACCTTGTGGTGACCCGATCCGGGGTA
*
153767 TAATCCACATTATTA
66 TGAT-CACATTATTA
153782 CGATCCAAAC
Statistics
Matches: 184, Mismatches: 20, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
130 80 0.43
131 96 0.52
132 8 0.04
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.44
Consensus pattern (130 bp):
TTATTTATTTATTTTATTTTATTTTCGAATTATTATACGACCTTGTGGTGACCCGATCCGGGGTA
TGATCACATTATTATGGTCAGAACTATGTTAACATCTAACCGCTAACTTTTAACCACTAACTTTT
Found at i:154081 original size:7 final size:7
Alignment explanation
Indices: 154062--154093 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
154052 TTTAACTTAC
154062 TATTTAT
1 TATTTAT
154069 TA-TTAT
1 TATTTAT
154075 TATTTAT
1 TATTTAT
154082 TATTTAT
1 TATTTAT
154089 T-TTTA
1 TATTTA
154094 CCCTTCATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 10 0.42
7 14 0.58
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TATTTAT
Found at i:156695 original size:42 final size:42
Alignment explanation
Indices: 156603--156708 Score: 122
Period size: 42 Copynumber: 2.5 Consensus size: 42
156593 AAGATGATCG
* * * **
156603 GAACTCCGAAAACTTTCTTGAGGCGGATGCTTTTGTTGAGTA
1 GAACTCTGATAACTTTCTTGAGGCGGATGCTGTTGTTGAACA
* * * *
156645 GAACTCTGATCACTTTTTTGAGGTGGATGCTGTTGTTGAACG
1 GAACTCTGATAACTTTCTTGAGGCGGATGCTGTTGTTGAACA
*
156687 GAATTCTGATAACTTTCTTGAG
1 GAACTCTGATAACTTTCTTGAG
156709 ACTGATACTG
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.23, C:0.15, G:0.25, T:0.37
Consensus pattern (42 bp):
GAACTCTGATAACTTTCTTGAGGCGGATGCTGTTGTTGAACA
Found at i:157428 original size:48 final size:48
Alignment explanation
Indices: 156452--157433 Score: 768
Period size: 48 Copynumber: 20.8 Consensus size: 48
156442 CAATTGAACC
* * * * ** *
156452 ATCAAAACCCTGATAACTTTCTTGAGGAAT-ATGCTGACGCTGAAGATG
1 ATCAGAACTCTGATAACTTTCCTGAGG-CTGATGCTGTTGTTGAAGATG
* *
156500 ATCAGAACCCTGATACCTTT-CTCGAGGCTGATGCTGTTGTTGAAGATG
1 ATCAGAACTCTGATAACTTTCCT-GAGGCTGATGCTGTTGTTGAAGATG
* *** * * **
156548 ATTAGAACTCTGATCGTTTTCCTGAGGATCCTGGTTCCATTGTTGAAGATG
1 ATCAGAACTCTGATAACTTTCCTGAGG---CTGATGCTGTTGTTGAAGATG
* * * * * *
156599 ATCGGAACTCCGAAAACTTTCTTGAGGCGGATGCTTTTGTT---GA-G
1 ATCAGAACTCTGATAACTTTCCTGAGGCTGATGCTGTTGTTGAAGATG
* **
156643 -T-AGAACTCTGATCACTTTTTTGAGG-TGGATGCTGTTGTT---GA--
1 ATCAGAACTCTGATAACTTTCCTGAGGCT-GATGCTGTTGTTGAAGATG
* * * * * * *
156684 A-CGGAATTCTGATAACTTTCTTGAGACTGATACTGTTCTTGTAGATG
1 ATCAGAACTCTGATAACTTTCCTGAGGCTGATGCTGTTGTTGAAGATG
* * * * * * *
156731 ATCAGAATTTTGACAACTTTCCTTAGG-TCGATGTTTTTGTTGAAGATT
1 ATCAGAACTCTGATAACTTTCCTGAGGCT-GATGCTGTTGTTGAAGATG
* * * *
156779 ATCAGAACTTTGATAACTGTCCTTG-GGTTGATGCTTTTGTTGAAGATG
1 ATCAGAACTCTGATAACTTTCC-TGAGGCTGATGCTGTTGTTGAAGATG
* * * * *
156827 ATCAGAATTCTGGTAACTTTCTTGAGACTGATGTTGTTGTTGAAGATG
1 ATCAGAACTCTGATAACTTTCCTGAGGCTGATGCTGTTGTTGAAGATG
* * * *
156875 GTCGGAACTCTGATAACTTTCCTTAGGTTGATGCTGTTGTTGAAGATG
1 ATCAGAACTCTGATAACTTTCCTGAGGCTGATGCTGTTGTTGAAGATG
*
156923 ATCAGAACTCTGATAACTTTCCTCAGGCCT-ATGCTGTTGTTGAAGATG
1 ATCAGAACTCTGATAACTTTCCTGAGG-CTGATGCTGTTGTTGAAGATG
** *
156971 ATCAGAACTCTGATAACTTTCCCAAGGTTGATGCTGTTGTTGAAGATG
1 ATCAGAACTCTGATAACTTTCCTGAGGCTGATGCTGTTGTTGAAGATG
* *
157019 ATCAGAACTCTGATAACTTTCCCGAGGCTGATGCTGTTGTTGAAGATT
1 ATCAGAACTCTGATAACTTTCCTGAGGCTGATGCTGTTGTTGAAGATG
*
157067 ATCGGAACTCTGATAACTTTCCTGAGGCTGATGCTGTTGTTGAAGATG
1 ATCAGAACTCTGATAACTTTCCTGAGGCTGATGCTGTTGTTGAAGATG
* * * * * *
157115 AAT-GGAACTTTGATAATTTTCCTGAGGCTGAGGCTGTAGTTTAAGATG
1 -ATCAGAACTCTGATAACTTTCCTGAGGCTGATGCTGTTGTTGAAGATG
* * * *
157163 ATCA-AAGCTCTGATAACTTTTCTGAGTCTGA---TGTTGTTGACGTTG
1 ATCAGAA-CTCTGATAACTTTCCTGAGGCTGATGCTGTTGTTGAAGATG
* * *
157208 ATCAGAACTCTGATAACTTCCCTGAGAACCCCGATGCTGTTGTT---GA--
1 ATCAGAACTCTGATAACTTTCCTGAG---GCTGATGCTGTTGTTGAAGATG
* * * * * * * *
157254 A-CGGAACTGTGATGAC-CTACTCGAGCCCT-ATGATCTTGTTGAAGATG
1 ATCAGAACTCTGATAACTTTCCT-GAG-GCTGATGCTGTTGTTGAAGATG
* * * * * *
157301 ATCGGAACGCTGATAACTCTCCTTAGG-TAGATGCTTTTGTTGAAGATT
1 ATCAGAACTCTGATAACTTTCCTGAGGCT-GATGCTGTTGTTGAAGATG
* * *
157349 ATCCGAACTCTGATAACTTTCTTGAGTCTGATGCTGTTGTTGAAGATG
1 ATCAGAACTCTGATAACTTTCCTGAGGCTGATGCTGTTGTTGAAGATG
*
157397 ATCAGAACTCTGATAACTTTCCCGAGGCTGATGCTGT
1 ATCAGAACTCTGATAACTTTCCTGAGGCTGATGCTGT
157434 CGGCTCTTGA
Statistics
Matches: 750, Mismatches: 141, Indels: 86
0.77 0.14 0.09
Matches are distributed among these distances:
42 70 0.09
43 5 0.01
44 3 0.00
45 52 0.07
46 4 0.01
47 12 0.02
48 549 0.73
49 12 0.02
51 43 0.06
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (48 bp):
ATCAGAACTCTGATAACTTTCCTGAGGCTGATGCTGTTGTTGAAGATG
Found at i:159357 original size:42 final size:42
Alignment explanation
Indices: 159265--159386 Score: 127
Period size: 42 Copynumber: 2.9 Consensus size: 42
159255 AAGATGATCG
* * * * **
159265 GAACTCCGAAAACTTTCTTAAGGCGGATGCTTTTGTTGAGTA
1 GAACTCTGATAACTTTCTTGAGGCGGATGCTGTTGTTGAACA
* * *
159307 GAACTCTGATCACTTTTTTGAGGCGGATGCTGTTGTTGAACG
1 GAACTCTGATAACTTTCTTGAGGCGGATGCTGTTGTTGAACA
* * * *
159349 GAATTCTGATAACTTTCTTGAGACTGATACTGTTGTTG
1 GAACTCTGATAACTTTCTTGAGGCGGATGCTGTTGTTG
159387 TAGATGATCA
Statistics
Matches: 65, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 65 1.00
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.37
Consensus pattern (42 bp):
GAACTCTGATAACTTTCTTGAGGCGGATGCTGTTGTTGAACA
Found at i:159488 original size:96 final size:96
Alignment explanation
Indices: 159154--159799 Score: 510
Period size: 96 Copynumber: 6.8 Consensus size: 96
159144 ATGCTGATGC
* * * * * * *
159154 TGAAGATGATCAGAACCCTGATACCTTT-CTCGAGGCTGATGCTGTTGTTGAAGATGATTAGAAC
1 TGAAGATGGTCGGAACTCTGATAACTTTCCT-TAGGCTGATGCTTTTGTTGAAGATGATCAGAAC
*** *
159218 TCTGATCGTTTTCCTGAGGAGCCTG--GTTCCATTGT
65 TCTGATAACTTTCCT-AGGA--CTGATGTT--GTTGT
* * * *
159253 TGAAGATGATCGGAACTCCGAAAACTTT-CTTAAGGCGGATGCTTTTGTT---GA-G-T-AGAAC
1 TGAAGATGGTCGGAACTCTGATAACTTTCCTT-AGGCTGATGCTTTTGTTGAAGATGATCAGAAC
* ** * *
159311 TCTGATCACTTTTTTGAGG-CGGATGCTGTTGT
65 TCTGATAACTTTCCT-AGGACTGATGTTGTTGT
* * * * * *
159343 TG-A-A----CGGAATTCTGATAACTTT-CTTGAGACTGATACTGTTGTTGTAGATGATCAGAAT
1 TGAAGATGGTCGGAACTCTGATAACTTTCCTT-AGGCTGATGCTTTTGTTGAAGATGATCAGAAC
* * *
159401 TTTGATAACTTTCCTTAGGTC-GATGTTTTTGT
65 TCTGATAACTTTCC-TAGGACTGATGTTGTTGT
** * * * * *
159433 TGAAGATTATCAGAACTTTGATAACTTCCCTTAGGTTGATGCTTTTGTTGAAGATGATCAGAATT
1 TGAAGATGGTCGGAACTCTGATAACTTTCCTTAGGCTGATGCTTTTGTTGAAGATGATCAGAACT
* *
159498 CTGGTAACTTT-CTCGAGACTGATGTTGTTGT
66 CTGATAACTTTCCTAG-GACTGATGTTGTTGT
* *
159529 TGAAGATGGTCGGAACTCTGATAACTTTCCTTAGGTTGATGCTTTTGTTGAAGATTATCAGAACT
1 TGAAGATGGTCGGAACTCTGATAACTTTCCTTAGGCTGATGCTTTTGTTGAAGATGATCAGAACT
* *
159594 CTGATAACTTTCC-CGAGACTGATGCTGTTGT
66 CTGATAACTTTCCTAG-GACTGATGTTGTTGT
* * *
159625 TGAAGATGGTCGGAACTCTGGTAACTTTCCTTAGGCCGATGCTTTTGTTCAAGATGATCAGAACT
1 TGAAGATGGTCGGAACTCTGATAACTTTCCTTAGGCTGATGCTTTTGTTGAAGATGATCAGAACT
* * *
159690 CAGGTAACTTT-CTCGAGACTGATGTTGTTGT
66 CTGATAACTTTCCTAG-GACTGATGTTGTTGT
* * * * * **
159721 TGAAGATGGTCGGAACTCTGATCACTTT-CTCGAGACTGATGCTGTTGTTGAAGATGGTTGGAAC
1 TGAAGATGGTCGGAACTCTGATAACTTTCCT-TAGGCTGATGCTTTTGTTGAAGATGATCAGAAC
159785 TCTGATAACTTTCCT
65 TCTGATAACTTTCCT
159800 TAGGTCGATG
Statistics
Matches: 450, Mismatches: 73, Indels: 50
0.79 0.13 0.09
Matches are distributed among these distances:
84 31 0.07
87 2 0.00
88 2 0.00
89 2 0.00
90 36 0.08
91 3 0.01
92 3 0.01
93 20 0.04
94 3 0.01
95 7 0.02
96 295 0.66
97 6 0.01
99 40 0.09
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (96 bp):
TGAAGATGGTCGGAACTCTGATAACTTTCCTTAGGCTGATGCTTTTGTTGAAGATGATCAGAACT
CTGATAACTTTCCTAGGACTGATGTTGTTGT
Found at i:159560 original size:144 final size:144
Alignment explanation
Indices: 159154--159776 Score: 476
Period size: 144 Copynumber: 4.4 Consensus size: 144
159144 ATGCTGATGC
* * * * * * *
159154 TGAAGATGATCAGAACCCTGATACCTTTCTCGAGGCTGATGCTGTTGTTGAAGATGATTAGAACT
1 TGAAGATTATCAGAACTCTGATAACTTTCCCGAGACTGATGCTGTTGTTGAAGATGATCAGAATT
* *** * * ** * * *
159219 CTGATCGTTTTC-CTGAGGAGCCTGGTTCCATTGTTGAAGATGATCGGAACTCCGAAAACTTT-C
66 CTGGTAACTTTCTC-GA-GA--CTGATACTGTTGTTGAAGATGATCAGAACTCTGATAACTTTCC
159282 TTAAGG-CGGATGCTTTTGT
127 TT-AGGTC-GATGCTTTTGT
* *** * * *
159301 TG-AG----T-AGAACTCTGATCACTTTTTTGAGGCGGATGCTGTTGTT---GA--A-CGGAATT
1 TGAAGATTATCAGAACTCTGATAACTTTCCCGAGACTGATGCTGTTGTTGAAGATGATCAGAATT
* * * * *
159354 CTGATAACTTTCTTGAGACTGATACTGTTGTTGTAGATGATCAGAATTTTGATAACTTTCCTTAG
66 CTGGTAACTTTCTCGAGACTGATACTGTTGTTGAAGATGATCAGAACTCTGATAACTTTCCTTAG
*
159419 GTCGATGTTTTTGT
131 GTCGATGCTTTTGT
* * ** *
159433 TGAAGATTATCAGAACTTTGATAAC-TTCCCTTAGGTTGATGCTTTTGTTGAAGATGATCAGAAT
1 TGAAGATTATCAGAACTCTGATAACTTTCCC-GAGACTGATGCTGTTGTTGAAGATGATCAGAAT
** * *
159497 TCTGGTAACTTTCTCGAGACTGATGTTGTTGTTGAAGATGGTCGGAACTCTGATAACTTTCCTTA
65 TCTGGTAACTTTCTCGAGACTGATACTGTTGTTGAAGATGATCAGAACTCTGATAACTTTCCTTA
*
159562 GGTTGATGCTTTTGT
130 GGTCGATGCTTTTGT
* * *
159577 TGAAGATTATCAGAACTCTGATAACTTTCCCGAGACTGATGCTGTTGTTGAAGATGGTCGGAACT
1 TGAAGATTATCAGAACTCTGATAACTTTCCCGAGACTGATGCTGTTGTTGAAGATGATCAGAATT
* * * * * * * * *
159642 CTGGTAACTTTC-CTTAGGCCGATGCTTTTGTTCAAGATGATCAGAACTCAGGTAACTTT-C-TC
66 CTGGTAACTTTCTC-GAGACTGATACTGTTGTTGAAGATGATCAGAACTCTGATAACTTTCCTTA
*
159704 GAGACTGATG-TTGTTGT
130 G-GTC-GATGCTT-TTGT
** * * *
159721 TGAAGATGGTCGGAACTCTGATCACTTTCTCGAGACTGATGCTGTTGTTGAAGATG
1 TGAAGATTATCAGAACTCTGATAACTTTCCCGAGACTGATGCTGTTGTTGAAGATG
159777 GTTGGAACTC
Statistics
Matches: 384, Mismatches: 71, Indels: 45
0.77 0.14 0.09
Matches are distributed among these distances:
132 46 0.12
133 6 0.02
134 2 0.01
135 15 0.04
136 1 0.00
137 3 0.01
138 28 0.07
141 34 0.09
142 3 0.01
143 6 0.02
144 231 0.60
145 5 0.01
146 2 0.01
147 2 0.01
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (144 bp):
TGAAGATTATCAGAACTCTGATAACTTTCCCGAGACTGATGCTGTTGTTGAAGATGATCAGAATT
CTGGTAACTTTCTCGAGACTGATACTGTTGTTGAAGATGATCAGAACTCTGATAACTTTCCTTAG
GTCGATGCTTTTGT
Found at i:159777 original size:144 final size:144
Alignment explanation
Indices: 159422--159899 Score: 466
Period size: 144 Copynumber: 3.3 Consensus size: 144
159412 TCCTTAGGTC
* * * * * * ** *
159422 GATGTTTTTGTTGAAGATTATCAGAACTTTGATAAC-TTCCCTTAGGTTGATGCTTTTGTTGAAG
1 GATGTTGTTGTTGAAGATCATCGGAACTCTGATAACTTTCTC-GAGACTGATGCTGTTGTTGAAG
* * * * * * * * * *
159486 ATGATCAGAATTCTGGTAACTTT-CTCGAGACTGATG-TTGTTGTTGAAGATGGTCGGAACTCTG
65 ATGGTCGGAACTCTGGTAACTTTCCT-TAGGCCGATGCTT-TTGTTCAAGATGATCAGAACTCAG
* **
159549 ATAACTTTC-CTTAGGTT
128 ATAACTTTCTC-GAGACT
* * *
159566 GATGCTT-TTGTTGAAGATTATCAGAACTCTGATAACTTTCCCGAGACTGATGCTGTTGTTGAAG
1 GATG-TTGTTGTTGAAGATCATCGGAACTCTGATAACTTTCTCGAGACTGATGCTGTTGTTGAAG
*
159630 ATGGTCGGAACTCTGGTAACTTTCCTTAGGCCGATGCTTTTGTTCAAGATGATCAGAACTCAGGT
65 ATGGTCGGAACTCTGGTAACTTTCCTTAGGCCGATGCTTTTGTTCAAGATGATCAGAACTCAGAT
159695 AACTTTCTCGAGACT
130 AACTTTCTCGAGACT
** *
159710 GATGTTGTTGTTGAAGATGGTCGGAACTCTGATCACTTTCTCGAGACTGATGCTGTTGTTGAAGA
1 GATGTTGTTGTTGAAGATCATCGGAACTCTGATAACTTTCTCGAGACTGATGCTGTTGTTGAAGA
* * * * * * *
159775 TGGTTGGAACTCTGATAACTTTCCTTAGGTCGATGCTTTTGTTCAACATTATTAAAACT-A-ATC
66 TGGTCGGAACTCTGGTAACTTTCCTTAGGCCGATGCTTTTGTTCAAGATGATCAGAACTCAGAT-
*
159838 AAACTTTCTTGAGACT
130 -AACTTTCTCGAGACT
* * * * *
159854 GATGCTGCTGTTGATGATCATCGGAGCTCTGATAACTTCCTCGAGA
1 GATGTTGTTGTTGAAGATCATCGGAACTCTGATAACTTTCTCGAGA
159900 AGGCCGATGC
Statistics
Matches: 285, Mismatches: 41, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
142 1 0.00
143 3 0.01
144 269 0.94
145 12 0.04
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.37
Consensus pattern (144 bp):
GATGTTGTTGTTGAAGATCATCGGAACTCTGATAACTTTCTCGAGACTGATGCTGTTGTTGAAGA
TGGTCGGAACTCTGGTAACTTTCCTTAGGCCGATGCTTTTGTTCAAGATGATCAGAACTCAGATA
ACTTTCTCGAGACT
Found at i:159810 original size:48 final size:48
Alignment explanation
Indices: 159154--159817 Score: 398
Period size: 48 Copynumber: 14.0 Consensus size: 48
159144 ATGCTGATGC
* * * *
159154 TGAAGATGATCAGAACCCTGATACCTTT-CTCGAGG-CTGATGCTGTTGT
1 TGAAGATGATCAGAACTCTGATAACTTTCCT-TAGGAC-GATGCTTTTGT
* *** * * *
159202 TGAAGATGATTAGAACTCTGATCGTTTTCCTGAGGA-GCCTGGTTCCATTGT
1 TGAAGATGATCAGAACTCTGATAACTTTCCTTAGGACG-ATGCTT---TTGT
* * *
159253 TGAAGATGATCGGAACTCCGAAAACTTT-CTTAAGG-CGGATGCTTTTGT
1 TGAAGATGATCAGAACTCTGATAACTTTCCTT-AGGAC-GATGCTTTTGT
* * *
159301 T---GA-G-T-AGAACTCTGATCACTTT-TTTGAGG-CGGATGCTGTTGT
1 TGAAGATGATCAGAACTCTGATAACTTTCCTT-AGGAC-GATGCTTTTGT
* * * *
159343 T---GA--A-CGGAATTCTGATAACTTT-CTT-GAGACTGATACTGTTGT
1 TGAAGATGATCAGAACTCTGATAACTTTCCTTAG-GAC-GATGCTTTTGT
* * * * *
159385 TGTAGATGATCAGAATTTTGATAACTTTCCTTAGGTCGATGTTTTTGT
1 TGAAGATGATCAGAACTCTGATAACTTTCCTTAGGACGATGCTTTTGT
* * * **
159433 TGAAGATTATCAGAACTTTGATAACTTCCCTTAGGTTGATGCTTTTGT
1 TGAAGATGATCAGAACTCTGATAACTTTCCTTAGGACGATGCTTTTGT
* * *
159481 TGAAGATGATCAGAATTCTGGTAACTTT-C-TCGAGACTGATG-TTGTTGT
1 TGAAGATGATCAGAACTCTGATAACTTTCCTTAG-GAC-GATGCTT-TTGT
* * **
159529 TGAAGATGGTCGGAACTCTGATAACTTTCCTTAGGTTGATGCTTTTGT
1 TGAAGATGATCAGAACTCTGATAACTTTCCTTAGGACGATGCTTTTGT
* ** *
159577 TGAAGATTATCAGAACTCTGATAACTTTCCCGA-GACTGATGCTGTTGT
1 TGAAGATGATCAGAACTCTGATAACTTTCCTTAGGAC-GATGCTTTTGT
* * * *
159625 TGAAGATGGTCGGAACTCTGGTAACTTTCCTTAGGCCGATGCTTTTGT
1 TGAAGATGATCAGAACTCTGATAACTTTCCTTAGGACGATGCTTTTGT
* * * *
159673 TCAAGATGATCAGAACTCAGGTAACTTT-C-TCGAGACTGATG-TTGTTGT
1 TGAAGATGATCAGAACTCTGATAACTTTCCTTAG-GAC-GATGCTT-TTGT
* * * * *
159721 TGAAGATGGTCGGAACTCTGATCACTTT-C-TCGAGACTGATGCTGTTGT
1 TGAAGATGATCAGAACTCTGATAACTTTCCTTAG-GAC-GATGCTTTTGT
* ** *
159769 TGAAGATGGTTGGAACTCTGATAACTTTCCTTAGGTCGATGCTTTTGT
1 TGAAGATGATCAGAACTCTGATAACTTTCCTTAGGACGATGCTTTTGT
159817 T
1 T
159818 CAACATTATT
Statistics
Matches: 489, Mismatches: 92, Indels: 70
0.75 0.14 0.11
Matches are distributed among these distances:
40 1 0.00
41 1 0.00
42 61 0.12
43 1 0.00
44 1 0.00
45 4 0.01
46 4 0.01
47 12 0.02
48 347 0.71
49 17 0.03
50 7 0.01
51 32 0.07
52 1 0.00
ACGTcount: A:0.23, C:0.16, G:0.24, T:0.37
Consensus pattern (48 bp):
TGAAGATGATCAGAACTCTGATAACTTTCCTTAGGACGATGCTTTTGT
Found at i:160498 original size:16 final size:16
Alignment explanation
Indices: 160477--160509 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
160467 TCGAGCTTAA
160477 ACCGAGCTCAAAATCG
1 ACCGAGCTCAAAATCG
*
160493 ACCGAGGTCAAAATCG
1 ACCGAGCTCAAAATCG
160509 A
1 A
160510 GCTTCAATCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.27, G:0.21, T:0.12
Consensus pattern (16 bp):
ACCGAGCTCAAAATCG
Found at i:162270 original size:66 final size:66
Alignment explanation
Indices: 162164--162361 Score: 315
Period size: 66 Copynumber: 3.0 Consensus size: 66
162154 TTTTTGTTCC
* * *
162164 TCGCTTCAGTCGAATCACTCGCTTTACTCTCAGCTTCATCCGAGGCAACTCTGTTAGAGGCTATC
1 TCGCTTCAGTCGAATCACCCGCTTTACTCTCAGTTTCATCCGAGGCAACTCTGTTAGAGGCCATC
162229 A
66 A
* *
162230 TCGCTTCAGTCGAATCACCCGCTTTACTCTCAGTTTCATCCGAGGCAACTCGGTTAGAGGCGATC
1 TCGCTTCAGTCGAATCACCCGCTTTACTCTCAGTTTCATCCGAGGCAACTCTGTTAGAGGCCATC
162295 A
66 A
* * * *
162296 TCGCTTCAGTCGAATCACCCGCTTTGCTTTCGGTTTCATCCGAGGCAACTTTGTTAGAGGCCATC
1 TCGCTTCAGTCGAATCACCCGCTTTACTCTCAGTTTCATCCGAGGCAACTCTGTTAGAGGCCATC
162361 A
66 A
162362 GAGCCTGCTG
Statistics
Matches: 122, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
66 122 1.00
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (66 bp):
TCGCTTCAGTCGAATCACCCGCTTTACTCTCAGTTTCATCCGAGGCAACTCTGTTAGAGGCCATC
A
Found at i:167066 original size:23 final size:22
Alignment explanation
Indices: 167040--167145 Score: 86
Period size: 23 Copynumber: 4.6 Consensus size: 22
167030 CCCTTCAAAT
167040 AAATAAATAAATTCAAAACAAAC
1 AAATAAATAAATTCAAAA-AAAC
** *
167063 AAATAAATAAATTTGAAATAAC
1 AAATAAATAAATTCAAAAAAAC
* *
167085 TAAATAAATGATTTCGAAAAAAAC
1 -AAATAAATAAATTC-AAAAAAAC
* * * **
167109 AAATTAATAAATTTGAAATAATT
1 AAATAAATAAA-TTCAAAAAAAC
167132 AAATAAATAAATTC
1 AAATAAATAAATTC
167146 GAGTGGAATA
Statistics
Matches: 63, Mismatches: 17, Indels: 7
0.72 0.20 0.08
Matches are distributed among these distances:
22 5 0.08
23 50 0.79
24 8 0.13
ACGTcount: A:0.62, C:0.07, G:0.04, T:0.27
Consensus pattern (22 bp):
AAATAAATAAATTCAAAAAAAC
Found at i:167147 original size:46 final size:47
Alignment explanation
Indices: 167039--167147 Score: 168
Period size: 46 Copynumber: 2.4 Consensus size: 47
167029 TCCCTTCAAA
167039 TAAATAAATAAATTC-AAAACAAACAAATAAATAAATTTGAAATAAC
1 TAAATAAATAAATTCGAAAACAAACAAATAAATAAATTTGAAATAAC
* * * *
167085 TAAATAAATGATTTCGAAAA-AAACAAATTAATAAATTTGAAATAAT
1 TAAATAAATAAATTCGAAAACAAACAAATAAATAAATTTGAAATAAC
167131 TAAATAAATAAATTCGA
1 TAAATAAATAAATTCGA
167148 GTGGAATAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
46 52 0.93
47 4 0.07
ACGTcount: A:0.61, C:0.06, G:0.05, T:0.28
Consensus pattern (47 bp):
TAAATAAATAAATTCGAAAACAAACAAATAAATAAATTTGAAATAAC
Found at i:167157 original size:23 final size:23
Alignment explanation
Indices: 167131--167188 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
167121 TTGAAATAAT
* *
167131 TAAATAAATAAATTCGAGTGGAA
1 TAAATAAATAAATACGAGTAGAA
*
167154 TAAATAAATAAATACGATTAGAA
1 TAAATAAATAAATACGAGTAGAA
167177 TAAATAAATAAA
1 TAAATAAATAAA
167189 CAAACAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.60, C:0.03, G:0.10, T:0.26
Consensus pattern (23 bp):
TAAATAAATAAATACGAGTAGAA
Found at i:184276 original size:31 final size:31
Alignment explanation
Indices: 184241--184309 Score: 129
Period size: 31 Copynumber: 2.2 Consensus size: 31
184231 AATAGGATTA
184241 AAACAACGCAAGAGAACATAATATAAAAGAG
1 AAACAACGCAAGAGAACATAATATAAAAGAG
184272 AAACAACGCAAGAGAACATAATATAAAAGAG
1 AAACAACGCAAGAGAACATAATATAAAAGAG
*
184303 AAGCAAC
1 AAACAAC
184310 ACCTACAACC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.61, C:0.14, G:0.16, T:0.09
Consensus pattern (31 bp):
AAACAACGCAAGAGAACATAATATAAAAGAG
Found at i:184372 original size:69 final size:69
Alignment explanation
Indices: 184290--184431 Score: 275
Period size: 69 Copynumber: 2.1 Consensus size: 69
184280 CAAGAGAACA
184290 TAATATAAAAGAGAAGCAACACCTACAACCATATAAACTAAATCAAACCACAATTGGAGAGACAA
1 TAATATAAAAGAGAAGCAACACCTACAACCATATAAACTAAATCAAACCACAATTGGAGAGACAA
184355 GATC
66 GATC
*
184359 TAATATAAAAGAGAAGCAACACCTACAACCATATAAACTAAATCAAACCACAATTGGAGAGACGA
1 TAATATAAAAGAGAAGCAACACCTACAACCATATAAACTAAATCAAACCACAATTGGAGAGACAA
184424 GATC
66 GATC
184428 TAAT
1 TAAT
184432 GAGATTCGTC
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 72 1.00
ACGTcount: A:0.51, C:0.20, G:0.12, T:0.17
Consensus pattern (69 bp):
TAATATAAAAGAGAAGCAACACCTACAACCATATAAACTAAATCAAACCACAATTGGAGAGACAA
GATC
Found at i:190310 original size:15 final size:15
Alignment explanation
Indices: 190292--190334 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
190282 ACAAACGATG
190292 AGGAAACGAACGGCA
1 AGGAAACGAACGGCA
* * *
190307 AGGACACGAATGACA
1 AGGAAACGAACGGCA
*
190322 AGGAAACAAACGG
1 AGGAAACGAACGG
190335 AACCGAAGGT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.49, C:0.19, G:0.30, T:0.02
Consensus pattern (15 bp):
AGGAAACGAACGGCA
Found at i:191607 original size:2 final size:2
Alignment explanation
Indices: 191600--191624 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
191590 ATGAAGATCT
191600 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 T
191625 TCAGATTGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:199902 original size:31 final size:30
Alignment explanation
Indices: 199849--199953 Score: 126
Period size: 31 Copynumber: 3.6 Consensus size: 30
199839 CTTTTTCATT
*
199849 TAAGTACATAAAGTA-TTTTTTGGTCAAAA
1 TAAGTACCTAAAGTATTTTTTTGGTCAAAA
*
199878 TAAGTACCTAAAGTTATTTTTTTGGTAAAAA
1 TAAGTACCTAAAG-TATTTTTTTGGTCAAAA
* *
199909 TAATTACCTAAAGTATTTTATT--TCAAAA
1 TAAGTACCTAAAGTATTTTTTTGGTCAAAA
* *
199937 TAAGTATCTAAACTATT
1 TAAGTACCTAAAGTATT
199954 CAAAAAAATT
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
28 19 0.29
29 12 0.18
30 10 0.15
31 25 0.38
ACGTcount: A:0.41, C:0.09, G:0.10, T:0.41
Consensus pattern (30 bp):
TAAGTACCTAAAGTATTTTTTTGGTCAAAA
Found at i:200118 original size:31 final size:29
Alignment explanation
Indices: 200042--200118 Score: 95
Period size: 29 Copynumber: 2.6 Consensus size: 29
200032 ATTGAATACT
*
200042 TTTA-GTACCTATTTTGACCAAAAAATAA
1 TTTAGGTACTTATTTTGACCAAAAAATAA
*
200070 TTTAGGTA-TCTAATTTGACCAAAAAGATAA
1 TTTAGGTACT-TATTTTGACCAAAAA-ATAA
200100 CTTTAGGTACTTATTTTGA
1 -TTTAGGTACTTATTTTGA
200119 TAAAAAAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
28 4 0.10
29 17 0.41
30 4 0.10
31 15 0.37
32 1 0.02
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.39
Consensus pattern (29 bp):
TTTAGGTACTTATTTTGACCAAAAAATAA
Found at i:200125 original size:31 final size:31
Alignment explanation
Indices: 200037--200177 Score: 96
Period size: 31 Copynumber: 4.6 Consensus size: 31
200027 AAAAAATTGA
* *
200037 ATACTTTTA-GTACCTATTTTGACCAAAAAAT
1 ATAC-TTTAGGTACTTATTTTGACAAAAAAAT
* *
200068 A-A-TTTAGGTA-TCTAATTTGACCAAAAAGAT
1 ATACTTTAGGTACT-TATTTTGA-CAAAAAAAT
* *
200098 A-ACTTTAGGTACTTATTTTGATAAAAAAAA
1 ATACTTTAGGTACTTATTTTGACAAAAAAAT
* * ** *
200128 ATACTTTAGATATTTA-AATGATAAAAATAAT
1 ATACTTTAGGTACTTATTTTGACAAAAA-AAT
*
200159 ATACTTTAGGTATTTATTT
1 ATACTTTAGGTACTTATTT
200178 GTTATAAACC
Statistics
Matches: 86, Mismatches: 16, Indels: 15
0.74 0.14 0.13
Matches are distributed among these distances:
28 4 0.05
29 10 0.12
30 26 0.30
31 45 0.52
32 1 0.01
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.40
Consensus pattern (31 bp):
ATACTTTAGGTACTTATTTTGACAAAAAAAT
Found at i:201948 original size:60 final size:61
Alignment explanation
Indices: 201876--202006 Score: 167
Period size: 60 Copynumber: 2.2 Consensus size: 61
201866 CGCAAATTAT
* *
201876 CTTCTGACTATAGGGTATTGCTTTATTAAGTCACTCAACTATTAAAAGTTACAGAATGGTC
1 CTTCTGACTATAGAGTATTGCTTTATTAAGTCACTCAACTATTAAAAGTTACAAAATGGTC
* * * * * *
201937 CTTC-GACTATAGATTATTGTTTTATTGAGTCTCTCAACTATTAAATGTTATAAAATGGT-
1 CTTCTGACTATAGAGTATTGCTTTATTAAGTCACTCAACTATTAAAAGTTACAAAATGGTC
*
201996 CGTCTGACTAT
1 CTTCTGACTAT
202007 TTATGTTTAA
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
59 3 0.05
60 53 0.88
61 4 0.07
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (61 bp):
CTTCTGACTATAGAGTATTGCTTTATTAAGTCACTCAACTATTAAAAGTTACAAAATGGTC
Found at i:202382 original size:90 final size:90
Alignment explanation
Indices: 202215--202498 Score: 424
Period size: 90 Copynumber: 3.1 Consensus size: 90
202205 CAGGTGATCA
*
202215 ATAGTCGAGGGACTCAACAAAGCAACACTCCCTAGTCGAATGACCATTTTGTAACTTTTAATAGT
1 ATAGTCG-GGGACTTAACAAAGCAACACTCCCTAGTCGAATGACCATTTTGTAACTTTTAATAGT
* *
202280 CGATAGACTTAATAAAGTAATATCCT
65 CGAGAGACTTAATAAAGTAATACCCT
* * * *
202306 ATAGTTGGGGACTTAACAAAGCAACACTCCTTAGTCGAAGGACCATTTTGTAACTTTTAATCGTC
1 ATAGTCGGGGACTTAACAAAGCAACACTCCCTAGTCGAATGACCATTTTGTAACTTTTAATAGTC
*
202371 GAGAGATTTAATAAAGTAATACCCT
66 GAGAGACTTAATAAAGTAATACCCT
* * * * *
202396 ATAGTCGGAGACTTAACAAAGCAACACTCCCTAGTCGAATAATCATTTTGTAACTTTTAATAATT
1 ATAGTCGGGGACTTAACAAAGCAACACTCCCTAGTCGAATGACCATTTTGTAACTTTTAATAGTC
202461 GAGAGACTTAATAAAGTAATACCCT
66 GAGAGACTTAATAAAGTAATACCCT
* *
202486 ATAATCAGGGACT
1 ATAGTCGGGGACT
202499 ATTTTTGTTC
Statistics
Matches: 172, Mismatches: 21, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
90 166 0.97
91 6 0.03
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (90 bp):
ATAGTCGGGGACTTAACAAAGCAACACTCCCTAGTCGAATGACCATTTTGTAACTTTTAATAGTC
GAGAGACTTAATAAAGTAATACCCT
Found at i:204119 original size:20 final size:22
Alignment explanation
Indices: 204087--204127 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
204077 TTATTTAAGG
204087 ATTTAGATCTTAAATT-TAAAA
1 ATTTAGATCTTAAATTATAAAA
204108 ATTTAG-TCTTAAATTATAAA
1 ATTTAGATCTTAAATTATAAA
204128 TAATACATGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (22 bp):
ATTTAGATCTTAAATTATAAAA
Found at i:204534 original size:17 final size:17
Alignment explanation
Indices: 204512--204547 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
204502 TATATATATA
204512 TATATATAATAATCT-TT
1 TATATAT-ATAATCTCTT
204529 TATATATATAATCTCTT
1 TATATATATAATCTCTT
204546 TA
1 TA
204548 AATTATTGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (17 bp):
TATATATATAATCTCTT
Found at i:208128 original size:9 final size:9
Alignment explanation
Indices: 208114--208138 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
208104 AGAGAATGCT
208114 GCGGCGGAA
1 GCGGCGGAA
208123 GCGGCGGAA
1 GCGGCGGAA
208132 GCGGCGG
1 GCGGCGG
208139 CGTTCGGCGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.16, C:0.24, G:0.60, T:0.00
Consensus pattern (9 bp):
GCGGCGGAA
Found at i:208408 original size:2 final size:2
Alignment explanation
Indices: 208401--208426 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
208391 ATGTACGTTC
208401 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
208427 CAAATAATCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:211319 original size:14 final size:14
Alignment explanation
Indices: 211300--211333 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
211290 ATATTTCTAT
211300 GGTTTATAGGATTA
1 GGTTTATAGGATTA
*
211314 GGTTTATAGGATTC
1 GGTTTATAGGATTA
211328 GGTTTA
1 GGTTTA
211334 AGTGACAGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.24, C:0.03, G:0.29, T:0.44
Consensus pattern (14 bp):
GGTTTATAGGATTA
Found at i:215363 original size:16 final size:17
Alignment explanation
Indices: 215313--215364 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 17
215303 AAGAAAAATA
215313 AATTTGAAAGTTAGAGT
1 AATTTGAAAGTTAGAGT
*
215330 GA-TT-AAA-TTAGGAGT
1 AATTTGAAAGTTA-GAGT
215345 AATTTGAAAGTTA-AGT
1 AATTTGAAAGTTAGAGT
215361 AATT
1 AATT
215365 AAATTAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
14 3 0.10
15 8 0.28
16 11 0.38
17 4 0.14
18 3 0.10
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.37
Consensus pattern (17 bp):
AATTTGAAAGTTAGAGT
Found at i:217652 original size:5 final size:5
Alignment explanation
Indices: 217550--217648 Score: 162
Period size: 5 Copynumber: 19.8 Consensus size: 5
217540 CGAACATATA
* *
217550 TTATA TTATA TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG
1 TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG
* *
217600 TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATA TTATA TTAT
1 TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTAT
217649 ATTAACTCTA
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
5 92 1.00
ACGTcount: A:0.24, C:0.00, G:0.15, T:0.61
Consensus pattern (5 bp):
TTATG
Found at i:218368 original size:2 final size:2
Alignment explanation
Indices: 218361--218408 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
218351 GTAATATAAT
218361 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
218403 TA TA TA
1 TA TA TA
218409 GACATAATTG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:221760 original size:2 final size:2
Alignment explanation
Indices: 221753--221813 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
221743 ATTATCAATA
221753 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
221795 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
221814 AATTACATAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:228854 original size:59 final size:57
Alignment explanation
Indices: 228719--228880 Score: 245
Period size: 59 Copynumber: 2.8 Consensus size: 57
228709 GGTCAAAGGG
* * * *
228719 CCACATTGAATTTATTTTATGAGTGAGAGGGTCACATTAAGAGAAAAATAACGAGGT
1 CCACGTTGAGTTTATTTTATGAGTGGGAGGGTCACATTAAGAAAAAAATAACGAGGT
*
228776 CCACGTTGGGTTTATTTTATGAGTGGGAGGGTCACATTGAGAGAAAAAAATAACGAGGT
1 CCACGTTGAGTTTATTTTATGAGTGGGAGGGTCACATT-A-AGAAAAAAATAACGAGGT
*
228835 CCACGTTGAGTTTATTTTATGAGTGGGAGGGCCACATTAA-AAAAAA
1 CCACGTTGAGTTTATTTTATGAGTGGGAGGGTCACATTAAGAAAAAA
228881 TATGAGGGTC
Statistics
Matches: 96, Mismatches: 7, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 6 0.06
57 35 0.36
58 2 0.02
59 53 0.55
ACGTcount: A:0.35, C:0.11, G:0.26, T:0.28
Consensus pattern (57 bp):
CCACGTTGAGTTTATTTTATGAGTGGGAGGGTCACATTAAGAAAAAAATAACGAGGT
Found at i:231311 original size:202 final size:202
Alignment explanation
Indices: 230965--231374 Score: 622
Period size: 202 Copynumber: 2.0 Consensus size: 202
230955 AACGAGATTT
* *
230965 TTTTTAATTAATCACTTATATATGGTCTATCAACCGACTAATCTAAATCTAGTACTATAAAGACG
1 TTTTTAATTAATCACTGATATATGGTCTATCAACCGACTAATCCAAATCTAGTACTATAAAGACG
* ** *** * *
231030 AGGACGACTCTCCCAACCCAATTTGATCCGTTCGTAAATGTTAGGATTCGAACCCCTGACCTTAC
66 AGGACGACCCTCCCAACCCAATTTGATCCGTTCACAAACACTAGGATTCGAACACATGACCTTAC
* *
231095 GTAAGTGACCTAGTGCCTCATTCCATTAGACCAAACCAGACTTTAAAAGTAAAACTTAAGTAATT
131 GTAAGTGACCTAGTGCCTCATCCCATTAGACCAAACCAGACTTTAAAAGTAAAACTTAAATAATT
231160 AGTTGAG
196 AGTTGAG
*
231167 TTTTTAATTAATCACTGATATATGGTCTATCAACCGACTAATCCAGATCTAGTACTATAAAGACG
1 TTTTTAATTAATCACTGATATATGGTCTATCAACCGACTAATCCAAATCTAGTACTATAAAGACG
* * * * *
231232 AGGACGACCCTCCCAACCTAGTTTGCTCTGTTCACAAACACTAGGATTCGAACACATGACCTTGC
66 AGGACGACCCTCCCAACCCAATTTGATCCGTTCACAAACACTAGGATTCGAACACATGACCTTAC
* * **
231297 TTAAGTGACCTAGTGCCTCATCCCATTAGATCAAACCATTCTTTAAAAGTAAAACTTAAATAATT
131 GTAAGTGACCTAGTGCCTCATCCCATTAGACCAAACCAGACTTTAAAAGTAAAACTTAAATAATT
231362 AGTTGAG
196 AGTTGAG
231369 TTTTTA
1 TTTTTA
231375 GCCTAACTTG
Statistics
Matches: 186, Mismatches: 22, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
202 186 1.00
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (202 bp):
TTTTTAATTAATCACTGATATATGGTCTATCAACCGACTAATCCAAATCTAGTACTATAAAGACG
AGGACGACCCTCCCAACCCAATTTGATCCGTTCACAAACACTAGGATTCGAACACATGACCTTAC
GTAAGTGACCTAGTGCCTCATCCCATTAGACCAAACCAGACTTTAAAAGTAAAACTTAAATAATT
AGTTGAG
Found at i:232762 original size:23 final size:23
Alignment explanation
Indices: 232732--232838 Score: 160
Period size: 23 Copynumber: 4.7 Consensus size: 23
232722 CTCATATAAA
*
232732 TGCACCGAAGTGCCACGTAGGAT
1 TGCACCGAAGTGCCACGTAGAAT
*
232755 TGCACCGAAGTGCCACGTAGGAT
1 TGCACCGAAGTGCCACGTAGAAT
*
232778 TGCACCGAAGTGCCGCGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
* *
232801 TGCACCGTAGTGCCGCGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
*
232824 TGCACCGTAGTGCCA
1 TGCACCGAAGTGCCA
232839 TTTAAGATGT
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 80 1.00
ACGTcount: A:0.24, C:0.27, G:0.30, T:0.19
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:233295 original size:15 final size:15
Alignment explanation
Indices: 233277--233321 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
233267 TGATCATATA
*
233277 ATCATATAACTTATT
1 ATCACATAACTTATT
* *
233292 ATCACATATCTTATA
1 ATCACATAACTTATT
*
233307 ATCACATACCTTATT
1 ATCACATAACTTATT
233322 TCATTTCTCC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.38, C:0.20, G:0.00, T:0.42
Consensus pattern (15 bp):
ATCACATAACTTATT
Found at i:234097 original size:38 final size:38
Alignment explanation
Indices: 234039--234134 Score: 120
Period size: 38 Copynumber: 2.5 Consensus size: 38
234029 CTCGTATAAA
* * * * *
234039 TGTCCCAAAGGACCTATCATCCCGAAGGATGTCATCTG
1 TGTCCCGAAGGACCTGTCATCCCGAAGGATATAACCTG
* *
234077 TGTCCCGAAGGACTTGTCATCTCGAAGGATATAACCTG
1 TGTCCCGAAGGACCTGTCATCCCGAAGGATATAACCTG
*
234115 TGTCCCGTAGGACCTGTCAT
1 TGTCCCGAAGGACCTGTCAT
234135 ATGTCTTATA
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 49 1.00
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (38 bp):
TGTCCCGAAGGACCTGTCATCCCGAAGGATATAACCTG
Found at i:234354 original size:46 final size:46
Alignment explanation
Indices: 234283--234395 Score: 178
Period size: 46 Copynumber: 2.5 Consensus size: 46
234273 ATGTGTAACC
*
234283 ATGT-ATTTCATATCATATCATATGTATCACGTATTACATATTCAT
1 ATGTCATTTCATATCATATCACATGTATCACGTATTACATATTCAT
*
234328 ATGTCATTTCATATCATATCACATGTATCACGTATTGCATATTCAT
1 ATGTCATTTCATATCATATCACATGTATCACGTATTACATATTCAT
*
234374 ATATCATTTCATAT-A-ATCACAT
1 ATGTCATTTCATATCATATCACAT
234396 AGCTTATCTC
Statistics
Matches: 64, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
44 7 0.11
45 5 0.08
46 52 0.81
ACGTcount: A:0.34, C:0.18, G:0.06, T:0.42
Consensus pattern (46 bp):
ATGTCATTTCATATCATATCACATGTATCACGTATTACATATTCAT
Done.