Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008243.1 Hibiscus syriacus cultivar Beakdansim tig00110893_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: 10265705
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 49
Found at i:251 original size:63 final size:63
Alignment explanation
Indices: 183--342 Score: 209
Period size: 64 Copynumber: 2.5 Consensus size: 63
173 GGTGCACCAA
183 GTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAA-A-T-AGCATGAGCATCGATGCATGG
1 GTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATATTCAG-A-GAGCATCGATGCATGG
* * *
245 CTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGG
1 -GTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATATTCAGAGAGCATCGATGCATGG
* * *
310 GAGTGCATCGGTGCATGGAATGCATTCGATGTT
1 GTGTGCATCGATGCATGAAATGCATTCGATGTT
343 CAATTAATTC
Statistics
Matches: 85, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
63 31 0.36
64 34 0.40
65 16 0.19
66 2 0.02
67 2 0.02
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.30
Consensus pattern (63 bp):
GTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATATTCAGAGAGCATCGATGCATGG
Found at i:315 original size:18 final size:17
Alignment explanation
Indices: 292--340 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
282 AAAATATTCA
292 GAGTGCATCGATGCATGG
1 GAGTGCATCGATGCAT-G
*
310 GAGTGCATCGGTGCATG
1 GAGTGCATCGATGCATG
*
327 GAATGCATTCGATG
1 GAGTGCA-TCGATG
341 TTCAATTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 7 0.26
18 20 0.74
ACGTcount: A:0.22, C:0.16, G:0.37, T:0.24
Consensus pattern (17 bp):
GAGTGCATCGATGCATG
Found at i:8863 original size:19 final size:19
Alignment explanation
Indices: 8839--8889 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
8829 AATAGCCTGA
8839 TGCATCGATGCATGGCTTG
1 TGCATCGATGCATGGCTTG
*
8858 TGCATCGATGCGTGGCTTG
1 TGCATCGATGCATGGCTTG
8877 TGCATCGATGCAT
1 TGCATCGATGCAT
8890 CAAATGCATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.16, C:0.22, G:0.31, T:0.31
Consensus pattern (19 bp):
TGCATCGATGCATGGCTTG
Found at i:8968 original size:83 final size:82
Alignment explanation
Indices: 8794--8969 Score: 194
Period size: 83 Copynumber: 2.1 Consensus size: 82
8784 GCACCAAGTG
* * ***
8794 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTGATGCATCGATGCATGGCTTGT
1 TGCATCGATGCATCAAATGCATTCGATGTTTGAAAAATAGCCAGATGCATCGATGCATGGAGAGT
* **
8859 GCATCGATGCGTGGCTTG
66 GCATCGATGCATGGC-AA
** *
8877 TGCATCGATGCATCAAATGCATTCGATGTTTTG-AAAATATTCAGAGTGCATCGATGCATTGAGA
1 TGCATCGATGCATCAAATGCATTCGATG-TTTGAAAAATAGCCAGA-TGCATCGATGCATGGAGA
*
8941 GTGCATCGGTGCATGG-AA
64 GTGCATCGATGCATGGCAA
8959 TGCATTCGATG
1 TGCA-TCGATG
8970 TTCAATTAAT
Statistics
Matches: 78, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
82 4 0.05
83 42 0.54
84 32 0.41
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (82 bp):
TGCATCGATGCATCAAATGCATTCGATGTTTGAAAAATAGCCAGATGCATCGATGCATGGAGAGT
GCATCGATGCATGGCAA
Found at i:10255 original size:103 final size:103
Alignment explanation
Indices: 10131--10353 Score: 419
Period size: 103 Copynumber: 2.2 Consensus size: 103
10121 GTCGAGGGTC
10131 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
10196 TTGATCCCTAGTATATGTATATGATTCTTAAAGAGTGA
66 TTGATCCCTAGTATATGTATATGATTCTTAAAGAGTGA
10234 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* * *
10299 TTGATCTCTAGTATATGTATATGATTCTTAAGGAGTTA
66 TTGATCCCTAGTATATGTATATGATTCTTAAAGAGTGA
10337 TATGTGGTCCTTCGGGA
1 TATGTGGTCCTTCGGGA
10354 CATTATTATA
Statistics
Matches: 117, Mismatches: 3, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
103 117 1.00
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.38
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGTATATGTATATGATTCTTAAAGAGTGA
Found at i:10398 original size:23 final size:23
Alignment explanation
Indices: 10365--10427 Score: 108
Period size: 23 Copynumber: 2.7 Consensus size: 23
10355 ATTATTATAT
*
10365 GGCACTACGGTGCAATTCTACGC
1 GGCACTTCGGTGCAATTCTACGC
*
10388 GGCACTTCGGTGCAATTCTACGT
1 GGCACTTCGGTGCAATTCTACGC
10411 GGCACTTCGGTGCAATT
1 GGCACTTCGGTGCAATT
10428 ATATGAGCTG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTTCGGTGCAATTCTACGC
Found at i:15899 original size:20 final size:20
Alignment explanation
Indices: 15870--15927 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
15860 ATATGAAATT
15870 TGTCCTGAAGGACCTATGTA
1 TGTCCTGAAGGACCTATGTA
* *
15890 TGTCCCGAAGGACCTTTGTA
1 TGTCCTGAAGGACCTATGTA
15910 TGTCCTGAAGGACCTATG
1 TGTCCTGAAGGACCTATG
15928 AACCCTCAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.29
Consensus pattern (20 bp):
TGTCCTGAAGGACCTATGTA
Found at i:16738 original size:19 final size:19
Alignment explanation
Indices: 16714--16757 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
16704 CTTAGGGGGG
16714 GTATCGGTACACTACGGGT
1 GTATCGGTACACTACGGGT
16733 GTATCGGTACACTACGGGT
1 GTATCGGTACACTACGGGT
16752 GTATCG
1 GTATCG
16758 ATACCCAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.20, C:0.20, G:0.32, T:0.27
Consensus pattern (19 bp):
GTATCGGTACACTACGGGT
Found at i:16843 original size:34 final size:34
Alignment explanation
Indices: 16783--16849 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
16773 TCAAAATTCA
***
16783 CAGGTATCGATACCTTCCTGTGTGTATCGATACC
1 CAGGTATCGATACCTTCCTCAATGTATCGATACC
16817 CAGGTATCGATACAC-TCCTCAATGTATCGATAC
1 CAGGTATCGATAC-CTTCCTCAATGTATCGATAC
16850 ACCCTAGATC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 28 0.97
35 1 0.03
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (34 bp):
CAGGTATCGATACCTTCCTCAATGTATCGATACC
Found at i:30015 original size:20 final size:20
Alignment explanation
Indices: 29990--30028 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
29980 AAAGCTCCGC
*
29990 AAGTAATAAATCTTC-ATTTG
1 AAGTAACAAA-CTTCTATTTG
30010 AAGTAACAAACTTCTATTT
1 AAGTAACAAACTTCTATTT
30029 CTGCCATTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.41, C:0.13, G:0.08, T:0.38
Consensus pattern (20 bp):
AAGTAACAAACTTCTATTTG
Found at i:32588 original size:14 final size:14
Alignment explanation
Indices: 32551--32588 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
32541 GAGAACATAA
*
32551 ATAAACAAACGAAC
1 ATAAACGAACGAAC
32565 ATAAACGAACGAAC
1 ATAAACGAACGAAC
*
32579 ATAAATGAAC
1 ATAAACGAAC
32589 ATAAATGATC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.61, C:0.18, G:0.11, T:0.11
Consensus pattern (14 bp):
ATAAACGAACGAAC
Found at i:33160 original size:12 final size:12
Alignment explanation
Indices: 33145--33174 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
33135 TTTCTTTTTT
33145 GATTTCTGCCTA
1 GATTTCTGCCTA
33157 GATTTCTGCCTA
1 GATTTCTGCCTA
33169 GATTTC
1 GATTTC
33175 GCTTGCTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.43
Consensus pattern (12 bp):
GATTTCTGCCTA
Found at i:37285 original size:49 final size:49
Alignment explanation
Indices: 37208--37305 Score: 162
Period size: 49 Copynumber: 2.0 Consensus size: 49
37198 ACTTGACGTT
* *
37208 GGGATCAACTTACTACTCTACCTCTCCTA-CTCCATTGCATATGGGAATA
1 GGGAGCAACTTACTACTCTACCTCTCCTACCT-CATTGCATATGAGAATA
37257 GGGAGCAACTTACTACTCTACCTCTCCTACCTCATTGCATATGAGAATA
1 GGGAGCAACTTACTACTCTACCTCTCCTACCTCATTGCATATGAGAATA
37306 ATGTTGTATT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
49 44 0.96
50 2 0.04
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.30
Consensus pattern (49 bp):
GGGAGCAACTTACTACTCTACCTCTCCTACCTCATTGCATATGAGAATA
Found at i:40059 original size:2 final size:2
Alignment explanation
Indices: 40054--40090 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
40044 TGTGTGTGTG
40054 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
40091 GTATGTATGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:50538 original size:105 final size:105
Alignment explanation
Indices: 50344--51435 Score: 1844
Period size: 105 Copynumber: 10.4 Consensus size: 105
50334 GTATTGTTCC
* * * * * * * * *
50344 GAGTCCAATATCCTCCGCTGTGACGTTGAAACTGGTTCTGGAACTGGGAAATTGCTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAA-TGTTTGTTGACAA
*
50409 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
50450 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATGGAGAAATGTTTGGTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
50515 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
50555 GAGTCCAATATTCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATGGAGAAATGTTTGGTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
50620 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
50660 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
* *
50725 CAGCGGTCCCTTCGTCATGAAGTTGAACTTGTGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
50765 GAGTCCAATATCCTTCATTGTGAAGTTGAGATTGGCTCTG-AATTGGAGAAATGTTTGGTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATT-GAGAAATGTTTGTTGACAA
* *
50829 CCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
50870 AAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
* *
50935 CAGCGGTCCCTTCATCATGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
50975 GAGTCCAATATCCTTCGTTGCGAAGTTGAAATTGGCTCTGAAATTGAGAGATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
*
51040 CAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
51080 AAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
* *
51145 CAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTTTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
51185 GAGTCCAATATCCTTCGTTGCGAAGTTGAAATTGGCTCTGAAATTGAGAGATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
51250 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
51290 GAGTCCAATATCCTTCGTTGCGAAGTTGAAATTGGCTCTGAAATTGAGAGATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
51355 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
51395 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
51436 GTAAAACCTG
Statistics
Matches: 939, Mismatches: 45, Indels: 5
0.95 0.05 0.01
Matches are distributed among these distances:
104 4 0.00
105 889 0.95
106 46 0.05
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:59791 original size:10 final size:10
Alignment explanation
Indices: 59778--59806 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
59768 TAAAATAGAG
59778 ATAAATAAAA
1 ATAAATAAAA
59788 ATAAATAAAA
1 ATAAATAAAA
59798 ATAAATAAA
1 ATAAATAAA
59807 TTGTAAAGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (10 bp):
ATAAATAAAA
Found at i:61256 original size:2 final size:2
Alignment explanation
Indices: 61251--61286 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
61241 AATATATACC
61251 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
61287 AATGTTAGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:63970 original size:2 final size:2
Alignment explanation
Indices: 63959--63996 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
63949 TACTTGACAC
63959 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
63997 TCAAAAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:64238 original size:21 final size:21
Alignment explanation
Indices: 64214--64258 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
64204 ATTATTCACA
* *
64214 TATAAATTATCATGTCAGCAT
1 TATAAACTATCACGTCAGCAT
*
64235 TATAAACTATCACGTCAGTAT
1 TATAAACTATCACGTCAGCAT
64256 TAT
1 TAT
64259 TAACGATTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (21 bp):
TATAAACTATCACGTCAGCAT
Found at i:64664 original size:40 final size:39
Alignment explanation
Indices: 64620--64725 Score: 133
Period size: 39 Copynumber: 2.7 Consensus size: 39
64610 ATACCTAAAG
* * *
64620 TTTAGTTTTCGTTTCATTTTATTA-TCCCACCATTAAAAAT
1 TTTAGTTTTGGTTTCATTTTAGTACT-CCACCATT-AAAAC
**
64660 TTTAGTTTTGGTTTCATTTTAGTACTCTTCCATTAAAAC
1 TTTAGTTTTGGTTTCATTTTAGTACTCCACCATTAAAAC
*
64699 TTTAGTTTTGGTTCCATTTTAGTACTC
1 TTTAGTTTTGGTTTCATTTTAGTACTC
64726 ACGTTCAAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
39 30 0.51
40 28 0.47
41 1 0.02
ACGTcount: A:0.23, C:0.16, G:0.09, T:0.52
Consensus pattern (39 bp):
TTTAGTTTTGGTTTCATTTTAGTACTCCACCATTAAAAC
Found at i:67114 original size:15 final size:15
Alignment explanation
Indices: 67096--67125 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
67086 CTGTTGACAA
67096 TTTTTCTTGTCTTTT
1 TTTTTCTTGTCTTTT
*
67111 TTTTTCTTTTCTTTT
1 TTTTTCTTGTCTTTT
67126 CTTACTTCCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.13, G:0.03, T:0.83
Consensus pattern (15 bp):
TTTTTCTTGTCTTTT
Found at i:67760 original size:11 final size:11
Alignment explanation
Indices: 67744--67775 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
67734 ATTATTAACG
67744 ATAATAATATA
1 ATAATAATATA
67755 ATAATAATATA
1 ATAATAATATA
67766 ATAATAATAT
1 ATAATAATAT
67776 CCCCGACAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
ATAATAATATA
Found at i:70310 original size:14 final size:14
Alignment explanation
Indices: 70291--70318 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
70281 ATGCAACAAT
70291 TATATAAAACTTAA
1 TATATAAAACTTAA
70305 TATATAAAACTTAA
1 TATATAAAACTTAA
70319 ACAACACTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (14 bp):
TATATAAAACTTAA
Found at i:72936 original size:30 final size:28
Alignment explanation
Indices: 72902--73001 Score: 102
Period size: 30 Copynumber: 3.6 Consensus size: 28
72892 TTGGTTCAAT
72902 TTTTTATTCTTATCTTAACTTAAAAATATA
1 TTTTTATT-TTATCTTAAC-TAAAAATATA
72932 TTTTTA---T-T-TTAACTAAAAATATA
1 TTTTTATTTTATCTTAACTAAAAATATA
*
72955 TTTTTTATTTTTATCTTAACTAAAAAAATA
1 -TTTTTA-TTTTATCTTAACTAAAAATATA
* *
72985 TTATAATTTTATCTTAA
1 TTTTTATTTTATCTTAA
73002 ATTTAAAATA
Statistics
Matches: 60, Mismatches: 3, Indels: 16
0.76 0.04 0.20
Matches are distributed among these distances:
23 10 0.17
24 11 0.18
25 1 0.02
26 1 0.02
28 12 0.20
29 5 0.08
30 20 0.33
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (28 bp):
TTTTTATTTTATCTTAACTAAAAATATA
Found at i:72938 original size:24 final size:23
Alignment explanation
Indices: 72906--72959 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
72896 TTCAATTTTT
*
72906 TATTCTTATCTTAACTTAAAAATA
1 TATTTTTATCTTAAC-TAAAAATA
*
72930 TATTTTTATTTTAACTAAAAATA
1 TATTTTTATCTTAACTAAAAATA
72953 TATTTTT
1 TATTTTT
72960 TATTTTTATC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
23 15 0.54
24 13 0.46
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (23 bp):
TATTTTTATCTTAACTAAAAATA
Found at i:72960 original size:24 final size:24
Alignment explanation
Indices: 72906--72965 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
72896 TTCAATTTTT
* *
72906 TATTCTTATCTTAACTTAAAAATA
1 TATTTTTATTTTAACTTAAAAATA
72930 TATTTTTATTTTAAC-TAAAAATA
1 TATTTTTATTTTAACTTAAAAATA
72953 TATTTTTTATTTT
1 TA-TTTTTATTTT
72966 TATCTTAACT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
23 10 0.30
24 23 0.70
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.57
Consensus pattern (24 bp):
TATTTTTATTTTAACTTAAAAATA
Found at i:73009 original size:28 final size:27
Alignment explanation
Indices: 72911--73015 Score: 72
Period size: 28 Copynumber: 3.9 Consensus size: 27
72901 TTTTTTATTC
* *
72911 TTATCTTAACTTAAAAATA-TAT--TT
1 TTATCTTAAATAAAAAATATTATAATT
* * * *
72935 TTATTTTAACTAAAAATATATTTTTTATTT
1 TTATCTTAAATAAAAA-ATA--TTATAATT
*
72965 TTATCTTAACTAAAAAAATATTATAATT
1 TTATCTTAAAT-AAAAAATATTATAATT
**
72993 TTATCTTAAATTTAAAATATTAT
1 TTATCTTAAATAAAAAATATTAT
73016 CAAAATAAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
24 14 0.22
25 3 0.05
27 10 0.15
28 18 0.28
30 15 0.23
31 5 0.08
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (27 bp):
TTATCTTAAATAAAAAATATTATAATT
Found at i:73072 original size:32 final size:31
Alignment explanation
Indices: 73034--73126 Score: 118
Period size: 32 Copynumber: 3.0 Consensus size: 31
73024 AATATAAATA
73034 TTTAATTTAAGATAAGAATAAATTATATTTTT
1 TTTAATTTAAGATAAGAATAAA-TATATTTTT
* *
73066 TTTAATTTAAGATAAGATTAAATATA--TAT
1 TTTAATTTAAGATAAGAATAAATATATTTTT
* *
73095 TTTAAATTAAAATAAGAATAAAATATATTTTT
1 TTTAATTTAAGATAAGAAT-AAATATATTTTT
73127 AGGTTATGAA
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
29 18 0.35
30 7 0.13
31 4 0.08
32 23 0.44
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.46
Consensus pattern (31 bp):
TTTAATTTAAGATAAGAATAAATATATTTTT
Found at i:73126 original size:29 final size:29
Alignment explanation
Indices: 73019--73151 Score: 119
Period size: 29 Copynumber: 4.5 Consensus size: 29
73009 ATATTATCAA
*
73019 AATAAAATATAAATATTTAATTTAAGATAAG
1 AATAAAATAT--ATTTTTAATTTAAGATAAG
*
73050 AATAAATTATATTTTTTTTAATTTAAGATAAG
1 AATAAA--ATA-TATTTTTAATTTAAGATAAG
* * *
73082 -ATTAAATATATATTTTAAATTAAAATAAG
1 AATAAAATATAT-TTTTAATTTAAGATAAG
** *
73111 AATAAAATATATTTTTAGGTTATGA-AA-
1 AATAAAATATATTTTTAATTTAAGATAAG
73138 AATAAAATATATTT
1 AATAAAATATATTT
73152 AATAAGTTAT
Statistics
Matches: 86, Mismatches: 11, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
27 14 0.16
28 4 0.05
29 27 0.31
30 10 0.12
31 10 0.12
32 17 0.20
33 3 0.03
34 1 0.01
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (29 bp):
AATAAAATATATTTTTAATTTAAGATAAG
Found at i:75672 original size:2 final size:2
Alignment explanation
Indices: 75667--75749 Score: 159
Period size: 2 Copynumber: 42.0 Consensus size: 2
75657 CACACACACA
75667 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
75709 AT AT -T 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
75750 CTTTAGTTTG
Statistics
Matches: 80, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
1 1 0.01
2 79 0.99
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:75864 original size:108 final size:109
Alignment explanation
Indices: 75736--75952 Score: 355
Period size: 109 Copynumber: 2.0 Consensus size: 109
75726 ATATATATAT
*
75736 ATATATATATATATCTTTAGTTTGACCCTTAAATTATAATTT-ATATTAATTTGATCTACATGCT
1 ATATATATATATATCCTTAGTTTGACCCTTAAATTATAATTTAATATTAATTTGATCTACATGCT
* *
75800 ACTTATTAATTGATTGAAATGATCATATTATTATAAGTTTAAAC
66 ACTTATTAATCGATTGAAATAATCATATTATTATAAGTTTAAAC
* * *
75844 ATATATATATATTTCCTTAGTTTGACCCTTAAATTATAATTTAATTTTAATTTGATCTACGTGCT
1 ATATATATATATATCCTTAGTTTGACCCTTAAATTATAATTTAATATTAATTTGATCTACATGCT
* *
75909 ACTTATTAATCGATTGCATTAATCATATTATTATAAGTTTAAAC
66 ACTTATTAATCGATTGAAATAATCATATTATTATAAGTTTAAAC
75953 TTGATTCGAG
Statistics
Matches: 100, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
108 40 0.40
109 60 0.60
ACGTcount: A:0.35, C:0.11, G:0.07, T:0.47
Consensus pattern (109 bp):
ATATATATATATATCCTTAGTTTGACCCTTAAATTATAATTTAATATTAATTTGATCTACATGCT
ACTTATTAATCGATTGAAATAATCATATTATTATAAGTTTAAAC
Found at i:89984 original size:22 final size:23
Alignment explanation
Indices: 89959--90002 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
89949 CACCACAGCT
*
89959 CGTATAATTGCA-CGAAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCG
*
89981 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAATTGCACCGAAGTGCC
90003 ATATAACAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.23
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCG
Found at i:90248 original size:147 final size:142
Alignment explanation
Indices: 89978--90276 Score: 483
Period size: 147 Copynumber: 2.1 Consensus size: 142
89968 GCACGAAGTG
*
89978 CCGCGTAGAATTGCACCGTAGTGCCATATAACAATGTCCATAAGGACACATATTATTCTTAAGAA
1 CCGCGTAGAATTGCACCGTAGTGCCATATAACAATATCCATAAGGACACATATTATTCTTAAGAA
* *
90043 TCATACATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCTACAGAATAT-ATA
66 TCATACATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATAATA
90107 TATCCCGAAGGA
131 TATCCCGAAGGA
*
90119 CCGCGTAGAATTGCACCGTAGTGCCATATAATAATATCCATAAGGACCACATATTATTCCTTAAG
1 CCGCGTAGAATTGCACCGTAGTGCCATATAACAATATCCATAAGGA-CACATATTATT-CTTAAG
90184 AATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAAT
64 AATC--ATAC--ATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAAT
*
90249 ATACATATGTCCCGAAGGA
125 ATA-ATATATCCCGAAGGA
90268 CCGCGTAGA
1 CCGCGTAGA
90277 CCCTCGACTC
Statistics
Matches: 145, Mismatches: 5, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
141 44 0.30
142 11 0.08
143 10 0.07
145 4 0.03
147 53 0.37
149 23 0.16
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (142 bp):
CCGCGTAGAATTGCACCGTAGTGCCATATAACAATATCCATAAGGACACATATTATTCTTAAGAA
TCATACATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATAATA
TATCCCGAAGGA
Found at i:91109 original size:36 final size:37
Alignment explanation
Indices: 91069--91144 Score: 145
Period size: 36 Copynumber: 2.1 Consensus size: 37
91059 AATCTTCCCT
91069 ATATTACTTATGTATCTTTA-TTATGCCTTCGAATTC
1 ATATTACTTATGTATCTTTATTTATGCCTTCGAATTC
91105 ATATTACTTATGTATCTTTATTTATGCCTTCGAATTC
1 ATATTACTTATGTATCTTTATTTATGCCTTCGAATTC
91142 ATA
1 ATA
91145 CTATTCTCTT
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
36 20 0.51
37 19 0.49
ACGTcount: A:0.26, C:0.16, G:0.08, T:0.50
Consensus pattern (37 bp):
ATATTACTTATGTATCTTTATTTATGCCTTCGAATTC
Found at i:91785 original size:21 final size:21
Alignment explanation
Indices: 91761--91805 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
91751 TTTTGTTCGT
* *
91761 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
**
91782 TTGAATTGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
91803 TTG
1 TTG
91806 CCCAGAAATC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.24, G:0.27, T:0.33
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:95577 original size:2 final size:2
Alignment explanation
Indices: 95570--95597 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
95560 TTCCAAAATT
95570 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
95598 CTTTTAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:96127 original size:2 final size:2
Alignment explanation
Indices: 96116--96146 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
96106 TTAATTAAAA
96116 AT AT -T 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
96147 TATGTATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:96419 original size:31 final size:32
Alignment explanation
Indices: 96354--96421 Score: 102
Period size: 32 Copynumber: 2.2 Consensus size: 32
96344 ATTAACGTAT
*
96354 AGTGATCAAATCTTAATTAAATAAAAAATAAA
1 AGTGACCAAATCTTAATTAAATAAAAAATAAA
* *
96386 AGTGACCAAATCTTGATTAAAT-AAAAATGAA
1 AGTGACCAAATCTTAATTAAATAAAAAATAAA
96417 AGTGA
1 AGTGA
96422 TAAATTAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.54, C:0.07, G:0.12, T:0.26
Consensus pattern (32 bp):
AGTGACCAAATCTTAATTAAATAAAAAATAAA
Found at i:99245 original size:23 final size:23
Alignment explanation
Indices: 99218--99279 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
99208 AAATCTTCTA
*
99218 CATTTTTCACTATCTTATCTCTG
1 CATTTTTCACGATCTTATCTCTG
* * *
99241 TATTTTTCACGATATTCTCTCTG
1 CATTTTTCACGATCTTATCTCTG
99264 CATTTTTCACGATCTT
1 CATTTTTCACGATCTT
99280 CATTACTTCT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.18, C:0.24, G:0.06, T:0.52
Consensus pattern (23 bp):
CATTTTTCACGATCTTATCTCTG
Found at i:103093 original size:35 final size:35
Alignment explanation
Indices: 102989--103098 Score: 177
Period size: 35 Copynumber: 3.2 Consensus size: 35
102979 CGAGCACAGA
** *
102989 GTAAAACTGCGAATGTAGAACTAAGAACATAGACA
1 GTAAAACTGCGAATGTAGAACTCGGAACATAGACG
103024 GTAAAACTGCGAATGTAGAACTCGGAACATAGACG
1 GTAAAACTGCGAATGTAGAACTCGGAACATAGACG
*
103059 GTAAAACTGCGAATATAGAACTCGGAACATAGACG
1 GTAAAACTGCGAATGTAGAACTCGGAACATAGACG
103094 G-AAAA
1 GTAAAA
103099 TCGGATATGA
Statistics
Matches: 71, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
34 4 0.06
35 67 0.94
ACGTcount: A:0.45, C:0.15, G:0.23, T:0.16
Consensus pattern (35 bp):
GTAAAACTGCGAATGTAGAACTCGGAACATAGACG
Found at i:104719 original size:31 final size:31
Alignment explanation
Indices: 104684--104743 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
104674 TTTTCGTCAC
*
104684 CTAGAATTTTGCAAGTTCAAGTTCATCCCCT
1 CTAGAATTTTACAAGTTCAAGTTCATCCCCT
* * *
104715 CTAGAATTTTATAATTTCAAGTTCGTCCC
1 CTAGAATTTTACAAGTTCAAGTTCATCCC
104744 TCATAATATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.38
Consensus pattern (31 bp):
CTAGAATTTTACAAGTTCAAGTTCATCCCCT
Found at i:107087 original size:31 final size:31
Alignment explanation
Indices: 107021--107080 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
107011 CAATTTAAGG
*
107021 CAAAATAGTTTTTGGACTTGAATTGAATTTA
1 CAAAATAGTATTTGGACTTGAATTGAATTTA
107052 CAAAAT-GTATTTGGACTT-AATTGAATTTA
1 CAAAATAGTATTTGGACTTGAATTGAATTTA
107081 TTCAAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 11 0.39
31 6 0.21
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.42
Consensus pattern (31 bp):
CAAAATAGTATTTGGACTTGAATTGAATTTA
Found at i:107285 original size:21 final size:21
Alignment explanation
Indices: 107259--107300 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
107249 ATTTGAATAT
*
107259 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
107280 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
107301 CCCATTCTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:107362 original size:21 final size:21
Alignment explanation
Indices: 107329--107368 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
107319 TTTTTGCAGA
*
107329 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
107351 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
107369 AGATATGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:108934 original size:3 final size:3
Alignment explanation
Indices: 108891--108922 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
108881 AATAAATCAA
108891 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
108923 AAGTAAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:108988 original size:15 final size:15
Alignment explanation
Indices: 108879--109002 Score: 51
Period size: 12 Copynumber: 8.7 Consensus size: 15
108869 AAAAAGATAT
108879 TAAATAAATCAAAATAA
1 TAAATAAAT--AAATAA
108896 T-AAT-AAT-AATAA
1 TAAATAAATAAATAA
108908 T-AAT-AAT-AATAA
1 TAAATAAATAAATAA
*
108920 T-AA-AAGTAAATAA
1 TAAATAAATAAATAA
*
108933 T--ATAAA-AAACAA
1 TAAATAAATAAATAA
*
108945 TAAATCAAAGAAAT--
1 TAAAT-AAATAAATAA
108959 TAAATTAAAATTAAATAA
1 TAAA-T-AAA-TAAATAA
*
108977 -ATAATAAATAAATAC
1 TA-AATAAATAAATAA
108992 TAAATAAATAA
1 TAAATAAATAA
109003 GAAAAAATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 28
0.71 0.06 0.23
Matches are distributed among these distances:
12 29 0.33
13 8 0.09
14 6 0.07
15 25 0.29
16 14 0.16
17 3 0.03
18 2 0.02
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.27
Consensus pattern (15 bp):
TAAATAAATAAATAA
Found at i:110426 original size:26 final size:27
Alignment explanation
Indices: 110380--110430 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
110370 AAAAATAATA
110380 ATATATATATATAAACGTTTTCAAAAAC
1 ATATATATATATAAACGTTTT-AAAAAC
*
110408 ATATA-ATATATAAA-TTTTTAAAA
1 ATATATATATATAAACGTTTTAAAA
110431 TGTTTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 4 0.18
26 4 0.18
27 9 0.41
28 5 0.23
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (27 bp):
ATATATATATATAAACGTTTTAAAAAC
Found at i:110498 original size:36 final size:36
Alignment explanation
Indices: 110445--110571 Score: 129
Period size: 38 Copynumber: 3.5 Consensus size: 36
110435 TTTTTTTTAA
* *
110445 AAAAACTATATATTATATATGTTTTCGA-AATGGTTTTT
1 AAAAA-TATATATTATATATGTTTTC-ATAA-CGTTTTC
110483 AAAAAT-TATATTATATAAATGTTTTCATAACGTTTTC
1 AAAAATATATATTATAT--ATGTTTTCATAACGTTTTC
* *
110520 AAAAGTATATATTATATA--TTTT-AAAACGTTTTC
1 AAAAATATATATTATATATGTTTTCATAACGTTTTC
110553 AAAAACTATATATTATATA
1 AAAAA-TATATATTATATA
110572 ATTTTCAAAA
Statistics
Matches: 79, Mismatches: 5, Indels: 14
0.81 0.05 0.14
Matches are distributed among these distances:
33 14 0.18
34 17 0.22
36 11 0.14
37 12 0.15
38 25 0.32
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (36 bp):
AAAAATATATATTATATATGTTTTCATAACGTTTTC
Found at i:110531 original size:38 final size:35
Alignment explanation
Indices: 110446--110580 Score: 134
Period size: 34 Copynumber: 3.8 Consensus size: 35
110436 TTTTTTTAAA
* *
110446 AAAACTATATATTATATATGTTTTCGAAATGGTTTTT
1 AAAACTATATATTATATATGTTTTC-AAA-CGTTTTC
*
110483 AAAAAT-TATATTATATAAATGTTTTCATAACGTTTTC
1 AAAACTATATATTATAT--ATGTTTTCA-AACGTTTTC
* *
110520 AAAAGTATATATTATATA--TTTTAAAACGTTTTC
1 AAAACTATATATTATATATGTTTTCAAACGTTTTC
*
110553 AAAAACTATATATTATATA-ATTTTCAAA
1 -AAAACTATATATTATATATGTTTTCAAA
110581 AAATATATTT
Statistics
Matches: 85, Mismatches: 7, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
33 9 0.11
34 22 0.26
35 7 0.08
36 11 0.13
37 16 0.19
38 20 0.24
ACGTcount: A:0.42, C:0.07, G:0.06, T:0.45
Consensus pattern (35 bp):
AAAACTATATATTATATATGTTTTCAAACGTTTTC
Found at i:110562 original size:25 final size:23
Alignment explanation
Indices: 110533--110597 Score: 67
Period size: 27 Copynumber: 2.6 Consensus size: 23
110523 AGTATATATT
110533 ATATATTTTAAAACGTTTTCAAAAA
1 ATATATTTTAAAA--TTTTCAAAAA
* *
110558 CTATATATTATATAATTTTCAAAAA
1 --ATATATTTTAAAATTTTCAAAAA
110583 ATATATTTTCAAAAT
1 ATATATTTT-AAAAT
110598 GGTTTTTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
23 8 0.24
24 4 0.12
25 10 0.30
27 11 0.33
ACGTcount: A:0.48, C:0.08, G:0.02, T:0.43
Consensus pattern (23 bp):
ATATATTTTAAAATTTTCAAAAA
Found at i:110592 original size:15 final size:16
Alignment explanation
Indices: 110567--110596 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
110557 ACTATATATT
110567 ATATAATTTTCAAAAA
1 ATATAATTTTCAAAAA
110583 ATAT-ATTTTCAAAA
1 ATATAATTTTCAAAA
110597 TGGTTTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (16 bp):
ATATAATTTTCAAAAA
Found at i:110640 original size:125 final size:125
Alignment explanation
Indices: 110461--110710 Score: 425
Period size: 125 Copynumber: 2.0 Consensus size: 125
110451 TATATATTAT
* *
110461 ATATGTTTTCGAAATGGTTTTTAAAAATTATATTATATAAATGTTTTCATAACGTTTTCAAAAGT
1 ATATATTTTCAAAATGGTTTTTAAAAATTATATTATATAAATGTTTTCATAACGTTTTCAAAAGT
110526 ATATA-T-TATATATTTT-AAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAA
66 ATATATTATATATATTTTAAAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAA
110583 ATATATTTTCAAAATGGTTTTTAAAAAATTATATATTATATAAATGTTTTCATAACGTTTTCAAA
1 ATATATTTTCAAAATGGTTTTT-AAAAA-T-TATATTATATAAATGTTTTCATAACGTTTTCAAA
*
110648 AGTATATATTATATATATTTTAAAAATGTTTTCAAAAACTATATATTATATAATTTTCAAAAA
63 AGTATATATTATATATATTTTAAAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAA
110711 TATTTTAAAA
Statistics
Matches: 119, Mismatches: 3, Indels: 6
0.93 0.02 0.05
Matches are distributed among these distances:
122 20 0.17
123 5 0.04
124 1 0.01
125 42 0.35
126 1 0.01
127 10 0.08
128 40 0.34
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (125 bp):
ATATATTTTCAAAATGGTTTTTAAAAATTATATTATATAAATGTTTTCATAACGTTTTCAAAAGT
ATATATTATATATATTTTAAAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAA
Found at i:110679 original size:36 final size:36
Alignment explanation
Indices: 110583--110779 Score: 179
Period size: 36 Copynumber: 5.4 Consensus size: 36
110573 TTTTCAAAAA
* *
110583 ATATATTTTCAAAATGGTTTTTAAAAAATTATATATTAT
1 ATATATTTTAAAAAT-G-TTTT-AAAAACTATATATTAT
* * * * * *
110622 ATAAATGTTTTCATAACGTTTTCAAAAGTATATATTAT
1 AT--ATATTTTAAAAATGTTTTAAAAACTATATATTAT
110660 ATATATTTTAAAAATGTTTTCAAAAACTATATATTAT
1 ATATATTTTAAAAATGTTTT-AAAAACTATATATTAT
* *
110697 ATA-ATTTTCAAAAATATTTTAAAAACTATATAATAT
1 ATATATTTT-AAAAATGTTTTAAAAACTATATATTAT
*
110733 ACATATTTTAAAAATGTTTT--AAAC--TATATTAT
1 ATATATTTTAAAAATGTTTTAAAAACTATATATTAT
*
110765 ATGTATTTTCAAAAA
1 ATATATTTT-AAAAA
110780 CAATTTGCAA
Statistics
Matches: 134, Mismatches: 18, Indels: 18
0.79 0.11 0.11
Matches are distributed among these distances:
32 14 0.10
33 5 0.04
34 4 0.03
36 46 0.34
37 32 0.24
38 16 0.12
39 6 0.04
40 1 0.01
41 10 0.07
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (36 bp):
ATATATTTTAAAAATGTTTTAAAAACTATATATTAT
Found at i:110743 original size:73 final size:73
Alignment explanation
Indices: 110585--110802 Score: 205
Period size: 73 Copynumber: 3.0 Consensus size: 73
110575 TTCAAAAAAT
* * * * *
110585 ATATTTTCAAAATGGTTTTTAAAAAATTATATATTATATAAATGTTTTC-ATAACGTTTTCAAAA
1 ATATTTTAAAAAT-G-TTTT-AAAAACTATATATTATATAAA--TTTTCAAAAACATTTTAAAAA
* * *
110649 GTATATATTATAT
61 CTATATAATATAC
*
110662 ATATTTTAAAAATGTTTTCAAAAACTATATATTATAT-AATTTTCAAAAATATTTTAAAAACTAT
1 ATATTTTAAAAATGTTTT-AAAAACTATATATTATATAAATTTTCAAAAACATTTTAAAAACTAT
110726 ATAATATAC
65 ATAATATAC
** * ** *
110735 ATATTTTAAAAATGTTTT--AAAC--TATATTATATGTATTTTCAAAAACAATTTGCAAACTGTA
1 ATATTTTAAAAATGTTTTAAAAACTATATATTATATAAATTTTCAAAAACATTTTAAAAACTATA
110796 TAATATA
66 TAATATA
110803 TATGTGTACA
Statistics
Matches: 123, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
68 10 0.08
69 29 0.24
70 4 0.03
72 5 0.04
73 39 0.32
74 2 0.02
75 21 0.17
76 1 0.01
77 12 0.10
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.44
Consensus pattern (73 bp):
ATATTTTAAAAATGTTTTAAAAACTATATATTATATAAATTTTCAAAAACATTTTAAAAACTATA
TAATATAC
Found at i:112074 original size:164 final size:165
Alignment explanation
Indices: 111410--112318 Score: 1534
Period size: 165 Copynumber: 5.5 Consensus size: 165
111400 CGAACTCGGA
* *
111410 GGTCTTTAGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
1 GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTAGGAGCTGAGC
*
111475 GTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATG
66 GTAGTCGAACTCAAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATG
* * * ***
111540 ATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGG
131 TTATGCCCTTGAAGCTGAGTGTAATCGAACTTAAG
111575 GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTAGGAGCTGAGC
1 GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTAGGAGCTGAGC
*
111640 GTAGTCGAACTCAACGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATG
66 GTAGTCGAACTCAAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATG
* * * ***
111705 ATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGG
131 TTATGCCCTTGAAGCTGAGTGTAATCGAACTTAAG
111740 GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTAGGAGCTGAGC
1 GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTAGGAGCTGAGC
* *
111805 GTAGTCAAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATG
66 GTAGTCGAACTCAAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATG
111870 TTATGCCCTTGAAGCTGAGTGTAATCGAACTTAAG
131 TTATGCCCTTGAAGCTGAGTGTAATCGAACTTAAG
* *
111905 GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATATGCCTAGGAGCTGAGC
1 GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTAGGAGCTGAGC
* *
111970 GTAGTCGAACTCAAAGGTC-TTTGCTAACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATG
66 GTAGTCGAACTCAAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATG
112034 TTATGCCCTTGAAGCTGAGTGTAATCGAACTTAAG
131 TTATGCCCTTGAAGCTGAGTGTAATCGAACTTAAG
* *
112069 GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCTGAGC
1 GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTAGGAGCTGAGC
* * *
112134 GTAGTCGAACTCAAAGGTC-TTTGCTAACAGATAACCCTTCTAGCCTTGAGTTATGATGTAAATG
66 GTAGTCGAACTCAAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATG
112198 TTATGCCCTTGAAGCTGAGTGTAATCGAACTTAAG
131 TTATGCCCTTGAAGCTGAGTGTAATCGAACTTAAG
* *
112233 GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCTGAGC
1 GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTAGGAGCTGAGC
*
112298 GTAGTCGAACTCGAAGGTCTT
66 GTAGTCGAACTCAAAGGTCTT
112319 GGTGGCAGGT
Statistics
Matches: 720, Mismatches: 23, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
164 322 0.45
165 398 0.55
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (165 bp):
GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTAGGAGCTGAGC
GTAGTCGAACTCAAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATG
TTATGCCCTTGAAGCTGAGTGTAATCGAACTTAAG
Found at i:117298 original size:3 final size:3
Alignment explanation
Indices: 117255--117286 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
117245 AATAAATCAA
117255 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
117287 AAGTAAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:117352 original size:15 final size:15
Alignment explanation
Indices: 117243--117366 Score: 51
Period size: 12 Copynumber: 8.7 Consensus size: 15
117233 AAAAAGATAT
117243 TAAATAAATCAAAATAA
1 TAAATAAAT--AAATAA
117260 T-AAT-AAT-AATAA
1 TAAATAAATAAATAA
117272 T-AAT-AAT-AATAA
1 TAAATAAATAAATAA
*
117284 T-AA-AAGTAAATAA
1 TAAATAAATAAATAA
*
117297 T--ATAAA-AAACAA
1 TAAATAAATAAATAA
*
117309 TAAATCAAAGAAAT--
1 TAAAT-AAATAAATAA
117323 TAAATTAAAATTAAATAA
1 TAAA-T-AAA-TAAATAA
*
117341 -ATAATAAATAAATAC
1 TA-AATAAATAAATAA
117356 TAAATAAATAA
1 TAAATAAATAA
117367 GAAAAAATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 28
0.71 0.06 0.23
Matches are distributed among these distances:
12 29 0.33
13 8 0.09
14 6 0.07
15 25 0.29
16 14 0.16
17 3 0.03
18 2 0.02
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.27
Consensus pattern (15 bp):
TAAATAAATAAATAA
Found at i:118748 original size:16 final size:17
Alignment explanation
Indices: 118711--118748 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
118701 AATGAGAAAT
118711 AAATAAATTAAAAATAA
1 AAATAAATTAAAAATAA
*
118728 AAATAAA-TAATAATAA
1 AAATAAATTAAAAATAA
*
118744 TAATA
1 AAATA
118749 TATATAAACG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
AAATAAATTAAAAATAA
Found at i:118860 original size:36 final size:36
Alignment explanation
Indices: 118807--118933 Score: 129
Period size: 38 Copynumber: 3.5 Consensus size: 36
118797 TTTTTTAAAA
* *
118807 AAAAACTATATATTATATATGTTTTCGA-AATGGTTTTT
1 AAAAA-TATATATTATATATGTTTTC-ATAA-CGTTTTC
118845 AAAAAT-TATATTATATAAATGTTTTCATAACGTTTTC
1 AAAAATATATATTATAT--ATGTTTTCATAACGTTTTC
* *
118882 AAAAGTATATATTATATA--TTTT-AAAACGTTTTC
1 AAAAATATATATTATATATGTTTTCATAACGTTTTC
118915 AAAAACTATATATTATATA
1 AAAAA-TATATATTATATA
118934 ATTTTCAAAA
Statistics
Matches: 79, Mismatches: 5, Indels: 14
0.81 0.05 0.14
Matches are distributed among these distances:
33 14 0.18
34 17 0.22
36 11 0.14
37 12 0.15
38 25 0.32
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (36 bp):
AAAAATATATATTATATATGTTTTCATAACGTTTTC
Found at i:118893 original size:38 final size:35
Alignment explanation
Indices: 118808--118942 Score: 134
Period size: 34 Copynumber: 3.8 Consensus size: 35
118798 TTTTTAAAAA
* *
118808 AAAACTATATATTATATATGTTTTCGAAATGGTTTTT
1 AAAACTATATATTATATATGTTTTC-AAA-CGTTTTC
*
118845 AAAAAT-TATATTATATAAATGTTTTCATAACGTTTTC
1 AAAACTATATATTATAT--ATGTTTTCA-AACGTTTTC
* *
118882 AAAAGTATATATTATATA--TTTTAAAACGTTTTC
1 AAAACTATATATTATATATGTTTTCAAACGTTTTC
*
118915 AAAAACTATATATTATATA-ATTTTCAAA
1 -AAAACTATATATTATATATGTTTTCAAA
118943 AAATATATTT
Statistics
Matches: 85, Mismatches: 7, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
33 9 0.11
34 22 0.26
35 7 0.08
36 11 0.13
37 16 0.19
38 20 0.24
ACGTcount: A:0.42, C:0.07, G:0.06, T:0.45
Consensus pattern (35 bp):
AAAACTATATATTATATATGTTTTCAAACGTTTTC
Found at i:118924 original size:25 final size:23
Alignment explanation
Indices: 118895--118959 Score: 67
Period size: 27 Copynumber: 2.6 Consensus size: 23
118885 AGTATATATT
118895 ATATATTTTAAAACGTTTTCAAAAA
1 ATATATTTTAAAA--TTTTCAAAAA
* *
118920 CTATATATTATATAATTTTCAAAAA
1 --ATATATTTTAAAATTTTCAAAAA
118945 ATATATTTTCAAAAT
1 ATATATTTT-AAAAT
118960 GGTTTTTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
23 8 0.24
24 4 0.12
25 10 0.30
27 11 0.33
ACGTcount: A:0.48, C:0.08, G:0.02, T:0.43
Consensus pattern (23 bp):
ATATATTTTAAAATTTTCAAAAA
Found at i:118954 original size:15 final size:16
Alignment explanation
Indices: 118929--118958 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
118919 ACTATATATT
118929 ATATAATTTTCAAAAA
1 ATATAATTTTCAAAAA
118945 ATAT-ATTTTCAAAA
1 ATATAATTTTCAAAA
118959 TGGTTTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (16 bp):
ATATAATTTTCAAAAA
Found at i:119002 original size:125 final size:125
Alignment explanation
Indices: 118823--119072 Score: 425
Period size: 125 Copynumber: 2.0 Consensus size: 125
118813 TATATATTAT
* *
118823 ATATGTTTTCGAAATGGTTTTTAAAAATTATATTATATAAATGTTTTCATAACGTTTTCAAAAGT
1 ATATATTTTCAAAATGGTTTTTAAAAATTATATTATATAAATGTTTTCATAACGTTTTCAAAAGT
118888 ATATA-T-TATATATTTT-AAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAA
66 ATATATTATATATATTTTAAAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAA
118945 ATATATTTTCAAAATGGTTTTTAAAAAATTATATATTATATAAATGTTTTCATAACGTTTTCAAA
1 ATATATTTTCAAAATGGTTTTT-AAAAA-T-TATATTATATAAATGTTTTCATAACGTTTTCAAA
*
119010 AGTATATATTATATATATTTTAAAAATGTTTTCAAAAACTATATATTATATAATTTTCAAAAA
63 AGTATATATTATATATATTTTAAAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAA
119073 TATTTTAAAA
Statistics
Matches: 119, Mismatches: 3, Indels: 6
0.93 0.02 0.05
Matches are distributed among these distances:
122 20 0.17
123 5 0.04
124 1 0.01
125 42 0.35
126 1 0.01
127 10 0.08
128 40 0.34
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (125 bp):
ATATATTTTCAAAATGGTTTTTAAAAATTATATTATATAAATGTTTTCATAACGTTTTCAAAAGT
ATATATTATATATATTTTAAAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAA
Found at i:119061 original size:37 final size:36
Alignment explanation
Indices: 118945--119133 Score: 186
Period size: 37 Copynumber: 5.1 Consensus size: 36
118935 TTTTCAAAAA
* *
118945 ATATATTTTCAAAATGGTTTTTAAAAAATTATATATTAT
1 ATATATTTTAAAAAT-G-TTTT-AAAAACTATATATTAT
* * * * * *
118984 ATAAATGTTTTCATAACGTTTTCAAAAGTATATATTAT
1 AT--ATATTTTAAAAATGTTTTAAAAACTATATATTAT
119022 ATATATTTTAAAAATGTTTTCAAAAACTATATATTAT
1 ATATATTTTAAAAATGTTTT-AAAAACTATATATTAT
* *
119059 ATA-ATTTTCAAAAATATTTTAAAAACTATATAATAT
1 ATATATTTT-AAAAATGTTTTAAAAACTATATATTAT
*
119095 ACATATTTTTAAAAATGTTTT--AAACTATATATTAT
1 ATATA-TTTTAAAAATGTTTTAAAAACTATATATTAT
119130 ATAT
1 ATAT
119134 GTATTTTCAA
Statistics
Matches: 127, Mismatches: 17, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
35 16 0.13
36 36 0.28
37 38 0.30
38 20 0.16
39 6 0.05
40 1 0.01
41 10 0.08
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (36 bp):
ATATATTTTAAAAATGTTTTAAAAACTATATATTAT
Found at i:119159 original size:74 final size:71
Alignment explanation
Indices: 119007--119169 Score: 193
Period size: 74 Copynumber: 2.2 Consensus size: 71
118997 TAACGTTTTC
* * *
119007 AAAAGTATATATTATATATATTTTAAAAATGTTTTCAAAAACTATATATTATATAATTTTCAAAA
1 AAAACTATATAATATACATATTTTAAAAATGTTTT--AAAACTATATATTATATAATTTTCAAAA
* *
119072 ATATTTTA
64 ACAATTTA
119080 AAAACTATATAATATACATATTTTTAAAAATGTTTT-AAACTATATATTATATATGTATTTTCAA
1 AAAACTATATAATATACATA-TTTTAAAAATGTTTTAAAACTATATATTATATA---ATTTTCAA
*
119144 AAACAATTTG
62 AAACAATTTA
* *
119154 CAAACTGTATAATATA
1 AAAACTATATAATATA
119170 TATGTGTACA
Statistics
Matches: 78, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
71 17 0.22
73 17 0.22
74 44 0.56
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (71 bp):
AAAACTATATAATATACATATTTTAAAAATGTTTTAAAACTATATATTATATAATTTTCAAAAAC
AATTTA
Found at i:120311 original size:31 final size:31
Alignment explanation
Indices: 120276--120343 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
120266 GGATGACCAC
*
120276 ATCTTAATTAAATAAAAATAAAAATAACTAT
1 ATCTTAATTAAATAAAAACAAAAATAACTAT
* * *
120307 ATCTTAATTAAATAAAAACAAAATTGATTAT
1 ATCTTAATTAAATAAAAACAAAAATAACTAT
120338 ATCTTA
1 ATCTTA
120344 TAAAATTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.56, C:0.07, G:0.01, T:0.35
Consensus pattern (31 bp):
ATCTTAATTAAATAAAAACAAAAATAACTAT
Found at i:120773 original size:16 final size:16
Alignment explanation
Indices: 120731--120777 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
120721 TTACCCGACT
120731 TGTTTTCAACCTGACA
1 TGTTTTCAACCTGACA
** *
120747 TGTGATGAACCTGACA
1 TGTTTTCAACCTGACA
*
120763 TGTTTTTAACCTGAC
1 TGTTTTCAACCTGAC
120778 CTGTAAATGA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (16 bp):
TGTTTTCAACCTGACA
Found at i:120792 original size:16 final size:16
Alignment explanation
Indices: 120773--120808 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
120763 TGTTTTTAAC
120773 CTGACCTGTAAATGAT
1 CTGACCTGTAAATGAT
* *
120789 CTGACTTGTTAATGAT
1 CTGACCTGTAAATGAT
120805 CTGA
1 CTGA
120809 TATGATATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (16 bp):
CTGACCTGTAAATGAT
Found at i:120832 original size:16 final size:16
Alignment explanation
Indices: 120811--120854 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
120801 TGATCTGATA
120811 TGATATTTACCAGACT
1 TGATATTTACCAGACT
*
120827 TGATATTTACCTGACT
1 TGATATTTACCAGACT
120843 T-ATATATTACCA
1 TGATAT-TTACCA
120855 TGGACGAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 4 0.16
16 21 0.84
ACGTcount: A:0.32, C:0.18, G:0.09, T:0.41
Consensus pattern (16 bp):
TGATATTTACCAGACT
Found at i:121007 original size:13 final size:13
Alignment explanation
Indices: 120991--121017 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
120981 GACCTATTGT
120991 ATAAAATTATTTA
1 ATAAAATTATTTA
121004 ATAAAATTATTTA
1 ATAAAATTATTTA
121017 A
1 A
121018 ATGTAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATAAAATTATTTA
Found at i:121349 original size:14 final size:15
Alignment explanation
Indices: 121327--121384 Score: 61
Period size: 14 Copynumber: 4.1 Consensus size: 15
121317 GTCATTTACA
*
121327 TTAGTGTTT-GTGAT
1 TTAGGGTTTAGTGAT
*
121341 TTAGGGTTTAAT-AT
1 TTAGGGTTTAGTGAT
*
121355 TTAGGGTTTAG-GGT
1 TTAGGGTTTAGTGAT
121369 TTAGGGTTTAG-GAT
1 TTAGGGTTTAGTGAT
121383 TT
1 TT
121385 CTATAAACTA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
14 36 0.97
15 1 0.03
ACGTcount: A:0.19, C:0.00, G:0.31, T:0.50
Consensus pattern (15 bp):
TTAGGGTTTAGTGAT
Found at i:121364 original size:7 final size:7
Alignment explanation
Indices: 121340--121380 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
121330 GTGTTTGTGA
121340 TTTAGGG
1 TTTAGGG
***
121347 TTTAATA
1 TTTAGGG
121354 TTTAGGG
1 TTTAGGG
121361 TTTAGGG
1 TTTAGGG
121368 TTTAGGG
1 TTTAGGG
121375 TTTAGG
1 TTTAGG
121381 ATTTCTATAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.20, C:0.00, G:0.34, T:0.46
Consensus pattern (7 bp):
TTTAGGG
Found at i:121473 original size:2 final size:2
Alignment explanation
Indices: 121468--121524 Score: 62
Period size: 2 Copynumber: 28.0 Consensus size: 2
121458 TTATATAGTT
**
121468 TA TA TA TA TA TA TA TA TA TA TA TA TA GG T- 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
*
121509 GTT TA TA TA TA CTA TA
1 -TA TA TA TA TA -TA TA
121525 CATGGTTTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
1 1 0.02
2 43 0.91
3 3 0.06
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (2 bp):
TA
Found at i:121479 original size:15 final size:15
Alignment explanation
Indices: 121459--121524 Score: 98
Period size: 15 Copynumber: 4.4 Consensus size: 15
121449 TAATTTACTT
121459 TATATAGTTTATATA
1 TATATAGTTTATATA
*
121474 TATATA-TATATATA
1 TATATAGTTTATATA
*
121488 TATATAGGTTATATA
1 TATATAGTTTATATA
121503 TATATAGTTTATATA
1 TATATAGTTTATATA
121518 TACTATA
1 TA-TATA
121525 CATGGTTTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
14 13 0.29
15 28 0.62
16 4 0.09
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (15 bp):
TATATAGTTTATATA
Found at i:121901 original size:14 final size:14
Alignment explanation
Indices: 121871--121932 Score: 61
Period size: 14 Copynumber: 4.4 Consensus size: 14
121861 TTCATTTATA
* *
121871 TTAGGGTTTGTGGT
1 TTAGGGTTTATGAT
121885 TTAGGGTTTATGAT
1 TTAGGGTTTATGAT
** * *
121899 TTAAAGTTTAGGGT
1 TTAGGGTTTATGAT
*
121913 TTAGGTTTTATGAT
1 TTAGGGTTTATGAT
121927 TTAGGG
1 TTAGGG
121933 GTTTTATAAA
Statistics
Matches: 36, Mismatches: 12, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
14 36 1.00
ACGTcount: A:0.19, C:0.00, G:0.32, T:0.48
Consensus pattern (14 bp):
TTAGGGTTTATGAT
Found at i:121922 original size:21 final size:21
Alignment explanation
Indices: 121883--121922 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
121873 AGGGTTTGTG
*
121883 GTTTAGGGTTTATGATTTAAA
1 GTTTAGGGTTTAGGATTTAAA
*
121904 GTTTAGGGTTTAGGTTTTA
1 GTTTAGGGTTTAGGATTTA
121923 TGATTTAGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.50
Consensus pattern (21 bp):
GTTTAGGGTTTAGGATTTAAA
Found at i:122024 original size:2 final size:2
Alignment explanation
Indices: 122019--122093 Score: 141
Period size: 2 Copynumber: 37.0 Consensus size: 2
122009 TTATATAGTT
122019 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
122061 TA TA TA TA TA TA TA TA TA TA TA TA TA TA CTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
122094 CATGGGTTAT
Statistics
Matches: 72, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 70 0.97
3 2 0.03
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:122047 original size:544 final size:539
Alignment explanation
Indices: 121004--122070 Score: 1735
Period size: 544 Copynumber: 2.0 Consensus size: 539
120994 AAATTATTTA
121004 ATAAAATTATTTAAATGTAAATTAGATAAAACATGATTAATTAGGTGTTAAATAATTAATATGTC
1 ATAAAATTATTTAAATGTAAATTAGATAAAACATGATTAATTAGGTGTTAAATAATTAATATGTC
121069 ACATTGCATATTATATGGTTCATAAATAGTAGTACATGTAATATTAATTTCATTTGCATAATTAG
66 ACATTGCATATTATATGGTTCATAAATAGTAGTACATGTAATATTAATTTCATTTGCATAATTAG
* *
121134 TATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGTCCATTTATTTTTGTTGTTATGAATAAG
131 TATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTTATTGTTATGAATAAG
* *
121199 TAATAATAAAACCAAAAAATAAGTCCATTTGCTTTAGTGCTAGTCCATTTATATTAGTTTACATA
196 TAATAATAAAACCAAAAAATAAGTCCATTTGCATTAGTGCTAGTCCATTTACATTAGTTTACATA
*
121264 GGCCCAATACATAAACCCACTCTTTTATTACAAATATATATGCATTAGTGTTAGTCATTTACATT
261 GGCCCAATACATAAACCCACTCTTTTATTACAAATATATATGCATTAGTGCTAGTCATTTACATT
* *
121329 AGTGTTTGTGATTTAGGGTTTAATATTTAGGGTTTAGGGTTTAGGGTTTAGGATTTCTATAAACT
326 AGGGTTTGTGATTTAGGGTTTAATATTTAGGGTTTAGGGTTTAGGATTTAGGATTTCTATAAACT
*
121394 ATATAATATATTATTTTATATAGTTTATGCACAGTGTTTCTATAAACTATATAAGTAATTTACTT
391 ATATAATATATTACTTTATATAGTTTATGCACAGTGTTTCTATAAACTATATAAGTAATTTACTT
*
121459 TATATAGTTTATATATATATATATATATATATATAGGTTATATATATATAGTTTATATATACTAT
456 TATATAG-TTATATATATATATATATATATATATA-G-TATATATATATA-TATATATATA-TAT
121524 ACATGGTTTATACATACATATTAT
516 ACATGGTTTATACATACATATTAT
* *
121548 ATAAAATTATTTAAATGTAAATTATATAAAACATGATTAATTAGGTGTTAAATAATTAGTATGTC
1 ATAAAATTATTTAAATGTAAATTAGATAAAACATGATTAATTAGGTGTTAAATAATTAATATGTC
* *
121613 ACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTTATTTGCATAATTAG
66 ACATTGCATATTATATGGTTCATAAATAGTAGTACATGTAATATTAATTTCATTTGCATAATTAG
121678 TATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTA-TTTTATTGTTATGAATAAG
131 TATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTTATTGTTATGAATAAG
* * *
121742 TAATAATGAAACCCAAAAATAAGTCTATTTGCATTAGTGCTAGTCCATTTACATTAGTTTACATA
196 TAATAATAAAACCAAAAAATAAGTCCATTTGCATTAGTGCTAGTCCATTTACATTAGTTTACATA
* * *
121807 TGCTCAATACATAAACCCACTCTTTTATTACAAATATATATGCATTAGTGCTAGTTCATTTATAT
261 GGCCCAATACATAAACCCACTCTTTTATTACAAATATATATGCATTAGTGCTAG-TCATTTACAT
* * * *
121872 TAGGGTTTGTGGTTTAGGGTTTATGATTTAAAGTTTAGGGTTTAGGTTTTATGATTTAGGGGTTT
325 TAGGGTTTGTGATTTAGGGTTTA--A--T--A-TTTAGGGTTTAGGGTTTAGGATTTA-GGATTT
* * * *
121937 -TATAAACTATATATTTTATTACTTTATATAGTTTATGCATAGTGTTTCTATAAACTATATGAGT
382 CTATAAACTATATAATATATTACTTTATATAGTTTATGCACAGTGTTTCTATAAACTATATAAGT
122001 AATTTACTTTATATAGTTTATATATATATATATATATATATATA-TATATATATATATATATATA
447 AATTTACTTTATATAG-TTATATATATATATATATATATATATAGTATATATATATATATATATA
122065 TATATA
511 TATATA
122071 TATATATATA
Statistics
Matches: 487, Mismatches: 27, Indels: 16
0.92 0.05 0.03
Matches are distributed among these distances:
543 129 0.26
544 200 0.41
546 5 0.01
547 9 0.02
548 13 0.03
550 1 0.00
551 125 0.26
552 5 0.01
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.44
Consensus pattern (539 bp):
ATAAAATTATTTAAATGTAAATTAGATAAAACATGATTAATTAGGTGTTAAATAATTAATATGTC
ACATTGCATATTATATGGTTCATAAATAGTAGTACATGTAATATTAATTTCATTTGCATAATTAG
TATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTTATTGTTATGAATAAG
TAATAATAAAACCAAAAAATAAGTCCATTTGCATTAGTGCTAGTCCATTTACATTAGTTTACATA
GGCCCAATACATAAACCCACTCTTTTATTACAAATATATATGCATTAGTGCTAGTCATTTACATT
AGGGTTTGTGATTTAGGGTTTAATATTTAGGGTTTAGGGTTTAGGATTTAGGATTTCTATAAACT
ATATAATATATTACTTTATATAGTTTATGCACAGTGTTTCTATAAACTATATAAGTAATTTACTT
TATATAGTTATATATATATATATATATATATATAGTATATATATATATATATATATATATACATG
GTTTATACATACATATTAT
Found at i:122789 original size:17 final size:17
Alignment explanation
Indices: 122767--122800 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
122757 ATATAATTTT
*
122767 TATAGTTTATATATATA
1 TATAGTTTACATATATA
122784 TATAGTTTACATATATA
1 TATAGTTTACATATATA
122801 GTTCATATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (17 bp):
TATAGTTTACATATATA
Found at i:122808 original size:28 final size:28
Alignment explanation
Indices: 122776--122875 Score: 85
Period size: 28 Copynumber: 3.4 Consensus size: 28
122766 TTATAGTTTA
122776 TATATATATATAGTTTACATATATAG-T
1 TATATATATATAGTTTACATATATAGCT
* * *
122803 TCATATAAACATAATTTACATATATAGCT
1 T-ATATATATATAGTTTACATATATAGCT
* * **
122832 TATAATAATTATATAGTTTATAATATAAATAT
1 TAT-AT-A-TATATAGTTTA-CATATATAGCT
122864 TATATATATATA
1 TATATATATATA
122876 TATATATTAG
Statistics
Matches: 57, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
27 1 0.02
28 24 0.42
29 10 0.18
30 2 0.04
31 10 0.18
32 10 0.18
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (28 bp):
TATATATATATAGTTTACATATATAGCT
Found at i:123336 original size:213 final size:214
Alignment explanation
Indices: 122967--123661 Score: 1178
Period size: 213 Copynumber: 3.2 Consensus size: 214
122957 TCCCTTCGTA
* *
122967 TTGTTTAATTTACTTAAATTTTTATTTGTAATTTCAAATTTGTTCAATTTAGTCCTCCAAATTTT
1 TTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTT
* * *
123032 ATTTGCATCTAAAATTGACACATACTTATTACTTATTTCTTTTTTTTAATTGGTCCGTAACTTTT
66 ATTTGCATCTAAAATTGAC-CATACTTATTACTTATTTCTATTTTTTAATTGGCCCATAACTTTT
*
123097 TAAATGAGTATAATTTAGTACTTTTTGTATTAATTTCAACCTCACAATTTAAAATTATTTCGATT
130 TAAATGGGTATAATTTAGTACTTTTTGTATTAATTTCAACCTCACAATTTAAAATTATTTCGATT
*
123162 TGATCCCTCATCAATATGTG
195 TGATCCCTCATCAATGTGTG
*
123182 TTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATA-TTGTTCAATTTAGTCCCCCAAA-TTT
1 TTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTT
* *
123245 ATTTGCATCTGAAATTGATCCATACTTATTACTTATTTCTATTTTTAAATTGGCCCATAACTTTT
66 ATTTGCATCTAAAATTGA-CCATACTTATTACTTATTTCTATTTTTTAATTGGCCCATAACTTTT
123310 TAAATGGGTATAATTTAGTACTTTTTGTATTAATTTCAACCTCACAATTTAAAATTATTTCGATT
130 TAAATGGGTATAATTTAGTACTTTTTGTATTAATTTCAACCTCACAATTTAAAATTATTTCGATT
123375 TGATCCCTCATCAATGTGTG
195 TGATCCCTCATCAATGTGTG
* *
123395 TTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTATTCAATCTAGTCCTCCAAATTTT
1 TTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTT
123460 ATTTGCATCTAAAATTGACCCATACTTATTACTTATTTCTATTTTTTAATTGGCCCATAACTTTT
66 ATTTGCATCTAAAATTGA-CCATACTTATTACTTATTTCTATTTTTTAATTGGCCCATAACTTTT
* * * *
123525 TAAATGGGTATAATTTAGTATTTTTTTGTATTAAGTTCAACTTCACAATTTAAAATTATTTTGAT
130 TAAATGGGTATAATTTAGTA-CTTTTTGTATTAATTTCAACCTCACAATTTAAAATTATTTCGAT
*
123590 TTGATCCCTCATCAATGTGTA
194 TTGATCCCTCATCAATGTGTG
*
123611 TTGTTTAATTTATTTAAATTTTTATTTGTAATTCCATATTTGTTCAATTTA
1 TTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTA
123662 ATTCTTAAAT
Statistics
Matches: 452, Mismatches: 24, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
213 182 0.40
214 41 0.09
215 121 0.27
216 108 0.24
ACGTcount: A:0.29, C:0.13, G:0.08, T:0.50
Consensus pattern (214 bp):
TTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTT
ATTTGCATCTAAAATTGACCATACTTATTACTTATTTCTATTTTTTAATTGGCCCATAACTTTTT
AAATGGGTATAATTTAGTACTTTTTGTATTAATTTCAACCTCACAATTTAAAATTATTTCGATTT
GATCCCTCATCAATGTGTG
Found at i:124791 original size:30 final size:30
Alignment explanation
Indices: 124689--124791 Score: 84
Period size: 30 Copynumber: 3.3 Consensus size: 30
124679 AGGGGTAGCC
* * * *
124689 GGTGGAGTAGCTAGAGGAGGAGAAAC-AGGT
1 GGTGGAGTTGCTGGAGGAGGAG-AGCTAGGA
* * *
124719 GGTGGGGTTGCGGGAGGCGGAGAGCTAACGGGTA
1 GGTGGAGTTGCTGGAGGAGGAGAGCT-A--GG-A
124753 GG-GGAGTTGCTGGAGGAGGAGAGCTAGGA
1 GGTGGAGTTGCTGGAGGAGGAGAGCTAGGA
124782 GGTGGAGTTG
1 GGTGGAGTTG
124792 AAACTGGGGG
Statistics
Matches: 57, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
29 5 0.09
30 26 0.46
31 1 0.02
32 1 0.02
33 22 0.39
34 2 0.04
ACGTcount: A:0.23, C:0.08, G:0.53, T:0.16
Consensus pattern (30 bp):
GGTGGAGTTGCTGGAGGAGGAGAGCTAGGA
Found at i:125254 original size:19 final size:19
Alignment explanation
Indices: 125230--125266 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
125220 ATGGCCAACA
*
125230 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
125249 AAATCGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
125267 CAGTATCGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:125363 original size:21 final size:21
Alignment explanation
Indices: 125292--125386 Score: 59
Period size: 20 Copynumber: 4.6 Consensus size: 21
125282 GTTTCCAGAT
**
125292 TCGCAATGCGATTTTA-ACTA
1 TCGCAATGCGATTTTAGAAAA
* ** *
125312 TCGCATTGCGATTTTCCAAAT
1 TCGCAATGCGATTTTAGAAAA
* **
125333 TCACGTTGCGATTTTAGAAAA
1 TCGCAATGCGATTTTAGAAAA
* * *
125354 TCGCAATGCGAATAT-GTAAA
1 TCGCAATGCGATTTTAGAAAA
*
125374 TCGCAACGCGATT
1 TCGCAATGCGATT
125387 CTGACTACCG
Statistics
Matches: 56, Mismatches: 18, Indels: 2
0.74 0.24 0.03
Matches are distributed among these distances:
20 29 0.52
21 27 0.48
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.32
Consensus pattern (21 bp):
TCGCAATGCGATTTTAGAAAA
Found at i:125417 original size:41 final size:41
Alignment explanation
Indices: 125372--125467 Score: 165
Period size: 41 Copynumber: 2.3 Consensus size: 41
125362 CGAATATGTA
* *
125372 AATCGCAACGCGATTCTGACTACCGTAACGCGATAATACAT
1 AATCGCAACGCGATTCTGACTACCGCAACACGATAATACAT
*
125413 AATCGCAACGCGATTCTGACTATCGCAACACGATAATACAT
1 AATCGCAACGCGATTCTGACTACCGCAACACGATAATACAT
125454 AATCGCAACGCGAT
1 AATCGCAACGCGAT
125468 AATACAGAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.21
Consensus pattern (41 bp):
AATCGCAACGCGATTCTGACTACCGCAACACGATAATACAT
Found at i:125424 original size:21 final size:21
Alignment explanation
Indices: 125398--125488 Score: 114
Period size: 21 Copynumber: 4.4 Consensus size: 21
125388 TGACTACCGT
125398 AACGCGATAATACATAATCGC
1 AACGCGATAATACATAATCGC
**
125419 AACGCGATTCTGAC-T-ATCGC
1 AACGCGATAAT-ACATAATCGC
*
125439 AACACGATAATACATAATCGC
1 AACGCGATAATACATAATCGC
*
125460 AACGCGATAATACAGAATCGC
1 AACGCGATAATACATAATCGC
*
125481 AATGCGAT
1 AACGCGAT
125489 TTTCAAAGCG
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
19 2 0.03
20 14 0.24
21 41 0.69
22 2 0.03
ACGTcount: A:0.40, C:0.24, G:0.16, T:0.20
Consensus pattern (21 bp):
AACGCGATAATACATAATCGC
Found at i:125439 original size:20 final size:20
Alignment explanation
Indices: 125373--125446 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 20
125363 GAATATGTAA
125373 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
* * **
125393 ACCGTAACGCGATAAT-ACAT
1 ATCGCAACGCGATTCTGAC-T
125413 AATCGCAACGCGATTCTGACT
1 -ATCGCAACGCGATTCTGACT
*
125434 ATCGCAACACGAT
1 ATCGCAACGCGAT
125447 AATACATAAT
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
19 2 0.05
20 25 0.60
21 13 0.31
22 2 0.05
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:126102 original size:20 final size:20
Alignment explanation
Indices: 126052--126102 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
126042 TCAAATTTGC
**
126052 GTTGCGATAGTCATTTTCGT
1 GTTGCGATTTTCATTTTCGT
126072 GTTGCGATTTTCATTTTCGT
1 GTTGCGATTTTCATTTTCGT
*
126092 GTTGCGCTTTT
1 GTTGCGATTTT
126103 AAGTTTCAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.10, C:0.16, G:0.24, T:0.51
Consensus pattern (20 bp):
GTTGCGATTTTCATTTTCGT
Found at i:126109 original size:20 final size:20
Alignment explanation
Indices: 126066--126109 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
126056 CGATAGTCAT
* *
126066 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTTAAG
*
126086 TTTCGTGTTGCGCTTTTAAG
1 TTTCGTGTTGCGATTTTAAG
126106 TTTC
1 TTTC
126110 AGAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.09, C:0.16, G:0.20, T:0.55
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTAAG
Found at i:128039 original size:20 final size:20
Alignment explanation
Indices: 127996--128060 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 20
127986 AGAAGAATAG
* * *
127996 TCGCAACACGAAACTTA-AA
1 TCGCAACACGAAAATGACTA
*
128015 TCGCAACATGAAAATGACTA
1 TCGCAACACGAAAATGACTA
** *
128035 TCGCAATGCGGAAATGACTA
1 TCGCAACACGAAAATGACTA
128055 TCGCAA
1 TCGCAA
128061 AATTGTGACA
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
19 14 0.38
20 23 0.62
ACGTcount: A:0.42, C:0.23, G:0.17, T:0.18
Consensus pattern (20 bp):
TCGCAACACGAAAATGACTA
Found at i:129929 original size:19 final size:19
Alignment explanation
Indices: 129905--129941 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
129895 TGCGATACTG
* *
129905 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCAATTTA
129924 GAGATCGCATTGCAATTT
1 GAGATCGCATTGCAATTT
129942 TGTTGGTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTGCAATTTA
Found at i:132266 original size:24 final size:24
Alignment explanation
Indices: 132221--132266 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
132211 ATGAGAAATT
*
132221 ATATAAAAATAAATATAGTTTAAA
1 ATATAAAAATAAATAAAGTTTAAA
*
132245 ATATAAAAA-AAATTAAATTTTA
1 ATATAAAAATAAA-TAAAGTTTA
132267 CTTTTTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 3 0.16
24 16 0.84
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (24 bp):
ATATAAAAATAAATAAAGTTTAAA
Found at i:132672 original size:2 final size:2
Alignment explanation
Indices: 132665--132689 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
132655 TGTCTGGACG
132665 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
132690 AAATTTAAGG
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:138107 original size:17 final size:16
Alignment explanation
Indices: 138073--138122 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
138063 TTAATAAAAA
*
138073 TATTAATTATTAAATTT
1 TATTAATTA-TAATTTT
138090 TATTAATTGATAATTTT
1 TATTAATT-ATAATTTT
138107 TA-TAA-TATAATATTT
1 TATTAATTATAAT-TTT
138122 T
1 T
138123 TATTTTAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
14 5 0.17
15 5 0.17
16 3 0.10
17 16 0.53
18 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (16 bp):
TATTAATTATAATTTT
Found at i:138200 original size:13 final size:14
Alignment explanation
Indices: 138182--138220 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
138172 AATTTCATAA
138182 AAAATA-AATATTT
1 AAAATATAATATTT
* *
138195 AAAATATATTCTTT
1 AAAATATAATATTT
138209 AAAATATAATAT
1 AAAATATAATAT
138221 AATATTCTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 6 0.29
14 15 0.71
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (14 bp):
AAAATATAATATTT
Found at i:143220 original size:42 final size:42
Alignment explanation
Indices: 143133--143222 Score: 110
Period size: 42 Copynumber: 2.1 Consensus size: 42
143123 AGTTTACTAA
* * * *
143133 TATTATTATTTTAATAAGTAATTAATATACTTAATGATATAT
1 TATTTTTATTTTAATAAATAATTAATATAATTAATAATATAT
* *
143175 TATTTTTATTTTAATAAATATTTAATATAATT-ATAATACTTT
1 TATTTTTATTTTAATAAATAATTAATATAATTAATAATA-TAT
143217 TATTTT
1 TATTTT
143223 AATAAAATAT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
41 5 0.12
42 36 0.88
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (42 bp):
TATTTTTATTTTAATAAATAATTAATATAATTAATAATATAT
Found at i:143245 original size:27 final size:25
Alignment explanation
Indices: 143195--143281 Score: 77
Period size: 27 Copynumber: 3.3 Consensus size: 25
143185 TTAATAAATA
*
143195 TTTAATATAATTATAATACTTTTAT
1 TTTAATAAAATTATAATACTTTTAT
*
143220 TTTAATAAAATATAATAATATTTTTATT
1 TTTAATAAAAT-T-ATAATACTTTTA-T
* **
143248 TTTATTTAAAATTATAGATA-TAATAT
1 TTTA-ATAAAATTATA-ATACTTTTAT
143274 TTTAATAA
1 TTTAATAA
143282 TAATATTGAC
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
25 13 0.25
26 6 0.12
27 17 0.33
28 9 0.18
29 6 0.12
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (25 bp):
TTTAATAAAATTATAATACTTTTAT
Found at i:143508 original size:14 final size:14
Alignment explanation
Indices: 143489--143519 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
143479 TAGGAAATGT
*
143489 AATTCATTTTTTAG
1 AATTCATTTTCTAG
143503 AATTCATTTTCTAG
1 AATTCATTTTCTAG
143517 AAT
1 AAT
143520 CTGTTTTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.10, G:0.06, T:0.52
Consensus pattern (14 bp):
AATTCATTTTCTAG
Found at i:147927 original size:17 final size:16
Alignment explanation
Indices: 147880--147931 Score: 79
Period size: 15 Copynumber: 3.2 Consensus size: 16
147870 GTGTAAATTC
*
147880 GGGTATCCGAATTTTT
1 GGGTATTCGAATTTTT
147896 GGGTATTCG-ATTTTT
1 GGGTATTCGAATTTTT
147911 GGGTATTCGGAATTTTT
1 GGGTATTC-GAATTTTT
147928 GGGT
1 GGGT
147932 CGACGATTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
15 14 0.42
16 9 0.27
17 10 0.30
ACGTcount: A:0.15, C:0.08, G:0.31, T:0.46
Consensus pattern (16 bp):
GGGTATTCGAATTTTT
Found at i:147939 original size:32 final size:31
Alignment explanation
Indices: 147880--147942 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 31
147870 GTGTAAATTC
**
147880 GGGTATCCGAATTTTTGGGTATTCGATTTTT
1 GGGTATCCGAATTTTTGGGTAGACGATTTTT
* *
147911 GGGTATTCGGAATTTTTGGGTCGACGATTTTT
1 GGGTA-TCCGAATTTTTGGGTAGACGATTTTT
147943 CGGCTTGTGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
31 5 0.19
32 22 0.81
ACGTcount: A:0.16, C:0.10, G:0.29, T:0.46
Consensus pattern (31 bp):
GGGTATCCGAATTTTTGGGTAGACGATTTTT
Found at i:149418 original size:25 final size:27
Alignment explanation
Indices: 149385--149448 Score: 69
Period size: 25 Copynumber: 2.4 Consensus size: 27
149375 TTTAAATAAA
*
149385 TTATGTAATTTCACATCCCTTGAA-AT
1 TTATATAATTTCACATCCCTTGAATAT
** *
149411 TT-TATAATTTCGTATCTCTTGAATAT
1 TTATATAATTTCACATCCCTTGAATAT
149437 TTAATATAATTT
1 TT-ATATAATTT
149449 TTTAAGTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
25 17 0.55
26 6 0.19
28 8 0.26
ACGTcount: A:0.31, C:0.12, G:0.06, T:0.50
Consensus pattern (27 bp):
TTATATAATTTCACATCCCTTGAATAT
Found at i:158519 original size:35 final size:35
Alignment explanation
Indices: 158480--158549 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
158470 AAACAATATC
158480 ATTTCTTACCTTCCAAACAGTCCAAATAACAACGG
1 ATTTCTTACCTTCCAAACAGTCCAAATAACAACGG
158515 ATTTCTTACCTTCCAAACAGTCCAAATAACAACGG
1 ATTTCTTACCTTCCAAACAGTCCAAATAACAACGG
158550 CAGGAATGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.37, C:0.29, G:0.09, T:0.26
Consensus pattern (35 bp):
ATTTCTTACCTTCCAAACAGTCCAAATAACAACGG
Found at i:160672 original size:40 final size:40
Alignment explanation
Indices: 160612--160694 Score: 150
Period size: 40 Copynumber: 2.1 Consensus size: 40
160602 TGAAGAAGCC
160612 CATATTAAACCATCCGGGGCCGGGAGCTTTGTTGCTATCA
1 CATATTAAACCATCCGGGGCCGGGAGCTTTGTTGCTATCA
160652 CATATTAAAACCATCC-GGGCCGGGAGCTTTGTTGCTATCA
1 CATATT-AAACCATCCGGGGCCGGGAGCTTTGTTGCTATCA
160692 CAT
1 CAT
160695 GATTGTAGAG
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
40 33 0.79
41 9 0.21
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.28
Consensus pattern (40 bp):
CATATTAAACCATCCGGGGCCGGGAGCTTTGTTGCTATCA
Found at i:167582 original size:19 final size:19
Alignment explanation
Indices: 167554--167595 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
167544 CATATCATGC
167554 TGAAAAGATTTAAATTGTT
1 TGAAAAGATTTAAATTGTT
*
167573 TGAAATGATTTAAATTGTT
1 TGAAAAGATTTAAATTGTT
167592 TGAA
1 TGAA
167596 GTTACATACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.43
Consensus pattern (19 bp):
TGAAAAGATTTAAATTGTT
Found at i:172061 original size:17 final size:17
Alignment explanation
Indices: 172035--172072 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
172025 ATGAGATGGG
172035 ATATCATTGGCACCATC
1 ATATCATTGGCACCATC
* *
172052 ATATCGTTGGCCCCATC
1 ATATCATTGGCACCATC
172069 ATAT
1 ATAT
172073 TGGTAATGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.26, C:0.29, G:0.13, T:0.32
Consensus pattern (17 bp):
ATATCATTGGCACCATC
Found at i:178955 original size:12 final size:12
Alignment explanation
Indices: 178935--178982 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
178925 GATACATAAC
178935 CTGAATTCTGTT
1 CTGAATTCTGTT
* *
178947 CTGATTTCTGAT
1 CTGAATTCTGTT
* *
178959 ATGGATTCTGTT
1 CTGAATTCTGTT
178971 CTGAATTCTGTT
1 CTGAATTCTGTT
178983 TTGATTTTCT
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.17, C:0.15, G:0.19, T:0.50
Consensus pattern (12 bp):
CTGAATTCTGTT
Found at i:183903 original size:24 final size:24
Alignment explanation
Indices: 183875--183927 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
183865 GAATGTTTTA
183875 TCTGATTTCCGA-CTTGAATTCTGT
1 TCTGATTTCCGATC-TGAATTCTGT
* *
183899 TCTGATTTCTGATCTGGATTCTGT
1 TCTGATTTCCGATCTGAATTCTGT
183923 TCTGA
1 TCTGA
183928 ATTCTGTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 25 0.96
25 1 0.04
ACGTcount: A:0.15, C:0.19, G:0.19, T:0.47
Consensus pattern (24 bp):
TCTGATTTCCGATCTGAATTCTGT
Found at i:183934 original size:12 final size:12
Alignment explanation
Indices: 183889--183935 Score: 67
Period size: 12 Copynumber: 3.9 Consensus size: 12
183879 ATTTCCGACT
183889 TGAATTCTGTTC
1 TGAATTCTGTTC
* *
183901 TGATTTCTGATC
1 TGAATTCTGTTC
*
183913 TGGATTCTGTTC
1 TGAATTCTGTTC
183925 TGAATTCTGTT
1 TGAATTCTGTT
183936 TTGATTTTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.15, C:0.15, G:0.19, T:0.51
Consensus pattern (12 bp):
TGAATTCTGTTC
Found at i:184117 original size:2 final size:2
Alignment explanation
Indices: 184110--184165 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
184100 AAGGATGGGG
184110 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
184152 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
184166 GTTTTAAAAG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:185058 original size:64 final size:64
Alignment explanation
Indices: 184972--185161 Score: 181
Period size: 65 Copynumber: 3.0 Consensus size: 64
184962 TGGACCCTTA
* * * *
184972 GTGCAGCGGTGCATCAAGTGCATTCGATGTTTCAAAATAACCAGAGTGCATCGATGCATGG-CT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATAACCAGAGTGCATCGATGCATGGTAT
* * * **
185035 GATGCATTGATGGATCAAATGCATTCGATGTTTTCATAAA-ATCCTCAGTGCATCGATGCATGGT
1 G-TGCATCGATGCATCAAATGCATTCGATG-TTTCA-AAATAACCAGAGTGCATCGATGCATGGT
185099 AT
63 AT
* * ** *
185101 GTGTATCGATGCATGAAATGCATTCGATG-TTCAATTTAATTCATG-GTGCATCGATGCATGG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATAA-CCA-GAGTGCATCGATGCATGG
185162 ATTGGTGTAT
Statistics
Matches: 101, Mismatches: 19, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
62 1 0.01
63 6 0.06
64 40 0.40
65 49 0.49
66 5 0.05
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.31
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATAACCAGAGTGCATCGATGCATGGTAT
Found at i:185094 original size:65 final size:65
Alignment explanation
Indices: 184972--185131 Score: 182
Period size: 65 Copynumber: 2.5 Consensus size: 65
184962 TGGACCCTTA
* * * * *
184972 GTGCAGCGGTGCATCAAGTGCATTCGATG-TTTCAAAATAACCAGAGTGCATCGATGCATGG-CT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATAACCACAGTGCATCGATGCATGGTAT
* * * *
185035 GATGCATTGATGGATCAAATGCATTCGATGTTTTCATAAA-ATCCTCAGTGCATCGATGCATGGT
1 G-TGCATCGATGCATCAAATGCATTCGATGTTTTCA-AAATAACCACAGTGCATCGATGCATGGT
185099 AT
64 AT
* *
185101 GTGTATCGATGCATGAAATGCATTCGATGTT
1 GTGCATCGATGCATCAAATGCATTCGATGTT
185132 CAATTTAATT
Statistics
Matches: 80, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
63 1 0.01
64 23 0.29
65 51 0.64
66 5 0.06
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATAACCACAGTGCATCGATGCATGGTAT
Found at i:185639 original size:2 final size:2
Alignment explanation
Indices: 185632--185664 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
185622 AATTGATTAA
185632 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
185665 GCTTAAGCTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:186000 original size:15 final size:15
Alignment explanation
Indices: 185980--186008 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
185970 TAATCCATAG
185980 GAGGGTCGGGAGGAA
1 GAGGGTCGGGAGGAA
185995 GAGGGTCGGGAGGA
1 GAGGGTCGGGAGGA
186009 GGATGATAAT
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:0.24, C:0.07, G:0.62, T:0.07
Consensus pattern (15 bp):
GAGGGTCGGGAGGAA
Found at i:187872 original size:23 final size:22
Alignment explanation
Indices: 187841--187916 Score: 91
Period size: 22 Copynumber: 3.5 Consensus size: 22
187831 GACCCTGGGC
*
187841 ATCGATGCATATTCAAGGCGTGT
1 ATCGATGCACATTCAAGG-GTGT
* * *
187864 ATCGGTGCACCTTC-ATGGTGT
1 ATCGATGCACATTCAAGGGTGT
*
187885 ATCGATGCACATTCAAGGATGT
1 ATCGATGCACATTCAAGGGTGT
187907 ATCGATGCAC
1 ATCGATGCAC
187917 TGTTAGGTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
21 16 0.36
22 17 0.39
23 11 0.25
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (22 bp):
ATCGATGCACATTCAAGGGTGT
Found at i:187929 original size:20 final size:21
Alignment explanation
Indices: 187841--187935 Score: 95
Period size: 21 Copynumber: 4.4 Consensus size: 21
187831 GACCCTGGGC
*
187841 ATCGATGCATATTCAAGGCGTGT
1 ATCGATGCACATTCAA-G-GTGT
* * *
187864 ATCGGTGCACCTTCATGGTGT
1 ATCGATGCACATTCAAGGTGT
187885 ATCGATGCACATTCAAGGATGT
1 ATCGATGCACATTCAAGG-TGT
*
187907 ATCGATGCAC-TGT-TAGGTGT
1 ATCGATGCACAT-TCAAGGTGT
187927 ATCGATGCA
1 ATCGATGCA
187936 TGAAGCACAA
Statistics
Matches: 62, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
20 12 0.19
21 23 0.37
22 15 0.24
23 12 0.19
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (21 bp):
ATCGATGCACATTCAAGGTGT
Found at i:191790 original size:22 final size:21
Alignment explanation
Indices: 191748--191787 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
191738 GAGTTTATTT
*
191748 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
191769 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
191788 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:213937 original size:2 final size:2
Alignment explanation
Indices: 213926--213962 Score: 65
Period size: 2 Copynumber: 18.0 Consensus size: 2
213916 TATCACACAG
213926 TA TA TGA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
213963 AACCCAAGAG
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 32 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:215465 original size:14 final size:14
Alignment explanation
Indices: 215443--215531 Score: 52
Period size: 14 Copynumber: 6.9 Consensus size: 14
215433 TCAGTAATAT
*
215443 GTTCGTTTATGTTC
1 GTTCATTTATGTTC
215457 GTTCATTTATG-T-
1 GTTCATTTATGTTC
*
215469 -TT-GTTTATGTTC
1 GTTCATTTATGTTC
* *
215481 GTTCGTCTATGTTC
1 GTTCATTTATGTTC
*
215495 GTTTATGTT-TGTTC
1 GTTCAT-TTATGTTC
*
215509 G-TC-TATATG--C
1 GTTCATTTATGTTC
215519 GTTCATTTATGTT
1 GTTCATTTATGTT
215532 TAGCCCAATC
Statistics
Matches: 56, Mismatches: 9, Indels: 20
0.66 0.11 0.24
Matches are distributed among these distances:
10 8 0.14
11 6 0.11
12 8 0.14
13 4 0.07
14 29 0.52
15 1 0.02
ACGTcount: A:0.11, C:0.12, G:0.19, T:0.57
Consensus pattern (14 bp):
GTTCATTTATGTTC
Found at i:215469 original size:24 final size:24
Alignment explanation
Indices: 215440--215514 Score: 105
Period size: 24 Copynumber: 3.1 Consensus size: 24
215430 CGTTCAGTAA
*
215440 TATGTTCGTTTATGTTCGTTCATT
1 TATGTTCGTTTATGTTCGTTCATC
* *
215464 TATGTTTGTTTATGTTCGTTCGTC
1 TATGTTCGTTTATGTTCGTTCATC
* *
215488 TATGTTCGTTTATGTTTGTTCGTC
1 TATGTTCGTTTATGTTCGTTCATC
215512 TAT
1 TAT
215515 ATGCGTTCAT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.11, C:0.12, G:0.19, T:0.59
Consensus pattern (24 bp):
TATGTTCGTTTATGTTCGTTCATC
Found at i:215531 original size:24 final size:24
Alignment explanation
Indices: 215475--215524 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
215465 ATGTTTGTTT
* * * *
215475 ATGTTCGTTCGTCTATGTTCGTTT
1 ATGTTTGTTCGTCTATATGCGTTC
215499 ATGTTTGTTCGTCTATATGCGTTC
1 ATGTTTGTTCGTCTATATGCGTTC
215523 AT
1 AT
215525 TTATGTTTAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.12, C:0.16, G:0.20, T:0.52
Consensus pattern (24 bp):
ATGTTTGTTCGTCTATATGCGTTC
Done.