Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002902.1 Hibiscus syriacus cultivar Beakdansim tig00005993_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: 128871
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:2928 original size:8 final size:8
Alignment explanation
Indices: 2917--2977 Score: 65
Period size: 7 Copynumber: 7.8 Consensus size: 8
2907 TTTTCTTTTT
2917 TTTTTTCC
1 TTTTTTCC
2925 -TTTTTCC
1 TTTTTTCC
*
2932 TTTTTTTCTT
1 -TTTTTTC-C
*
2942 TTTTTTTC
1 TTTTTTCC
2950 TTTTTTCC
1 TTTTTTCC
2958 -TTTTT-C
1 TTTTTTCC
2964 TTTTTTCC
1 TTTTTTCC
2972 TTTTTT
1 TTTTTT
2978 TTTCTTTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
6 1 0.02
7 17 0.39
8 14 0.32
9 12 0.27
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTTTTCC
Found at i:2943 original size:26 final size:26
Alignment explanation
Indices: 2906--2969 Score: 89
Period size: 26 Copynumber: 2.5 Consensus size: 26
2896 CTTGATTCAA
2906 TTTTTCTT-TTTTTTTTTCCTTTTTCC
1 TTTTT-TTCTTTTTTTTTCCTTTTTCC
*
2932 TTTTTTTCTTTTTTTTTCTTTTTTCC
1 TTTTTTTCTTTTTTTTTCCTTTTTCC
2958 --TTTTTCTTTTTT
1 TTTTTTTCTTTTTT
2970 CCTTTTTTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
24 12 0.33
25 2 0.06
26 22 0.61
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (26 bp):
TTTTTTTCTTTTTTTTTCCTTTTTCC
Found at i:2979 original size:26 final size:25
Alignment explanation
Indices: 2906--2987 Score: 96
Period size: 28 Copynumber: 3.2 Consensus size: 25
2896 CTTGATTCAA
2906 TTTTTCTTTTTTTTTTTCCTTTTTCCTT
1 TTTTTCTTTTTTTTTTT--TTTTTCC-T
*
2934 TTTTTCTTTTTTTTTCTTTTTTCC-
1 TTTTTCTTTTTTTTTTTTTTTTCCT
*
2958 TTTTTCTTTTTTCCTTTTTTTTT-CT
1 TTTTTCTTTTTT-TTTTTTTTTTCCT
2983 TTTTT
1 TTTTT
2988 ATGAGTATAG
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
24 13 0.27
25 13 0.27
26 7 0.14
28 16 0.33
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (25 bp):
TTTTTCTTTTTTTTTTTTTTTTCCT
Found at i:2987 original size:32 final size:33
Alignment explanation
Indices: 2906--2987 Score: 130
Period size: 32 Copynumber: 2.5 Consensus size: 33
2896 CTTGATTCAA
* *
2906 TTTTTCTTTTTTTTTTTCCTTTTTCCTTTTTTTC
1 TTTTT-TTTTCTTTTTTCCTTTTTCCTTTTTTCC
2940 TTTTTTTTTCTTTTTTCCTTTTT-CTTTTTTCC
1 TTTTTTTTTCTTTTTTCCTTTTTCCTTTTTTCC
2972 TTTTTTTTTCTTTTTT
1 TTTTTTTTTCTTTTTT
2988 ATGAGTATAG
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
32 24 0.52
33 17 0.37
34 5 0.11
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (33 bp):
TTTTTTTTTCTTTTTTCCTTTTTCCTTTTTTCC
Found at i:8463 original size:16 final size:15
Alignment explanation
Indices: 8425--8502 Score: 68
Period size: 16 Copynumber: 4.9 Consensus size: 15
8415 AAAAAATAAA
*
8425 TATTAATAAAACATT
1 TATTAATAAAAAATT
8440 TATCTAATAAAAAATT
1 TAT-TAATAAAAAATT
*
8456 TGATTAATATTAAAATT
1 T-ATTAATA-AAAAATT
* *
8473 TATAAAAGTAAAATATT
1 TAT-TAA-TAAAAAATT
8490 TATTAA-AAAAAAT
1 TATTAATAAAAAAT
8503 ATCAGAAAAT
Statistics
Matches: 51, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
14 6 0.12
15 3 0.06
16 21 0.41
17 19 0.37
18 2 0.04
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (15 bp):
TATTAATAAAAAATT
Found at i:8563 original size:138 final size:132
Alignment explanation
Indices: 8388--8708 Score: 380
Period size: 135 Copynumber: 2.4 Consensus size: 132
8378 CTTCTAGGTA
* * * *
8388 CTTTAAGACAGTTCATTTCTTAATATT-AAAAAATAAATAT-TAATAAAACATTTATCTAATAAA
1 CTTTAAGACTG-TCCTTTCTTAATATTGAAAAAATAAATATATAATAAAAAAATT-TC---T-AA
* *
8451 AAATTTGATTAATAT-TAAAATTTATAAAAGTAAAATATTTATTAAAAAAAATATCAGAAAATAG
60 AAA-TAGATTAATATATAAAATTTATAAAAATAAAATATTTATT--AAAAAATATCAGAAAATAG
8515 ACATCCAGTTG
122 ACATCCAGTTG
*
8526 CTTTAAGACTGTCCTTTCCTAATATTGAAAAAATAAATATATATTGATAAAAAAATTTCTAAAAA
1 CTTTAAGACTGTCCTTTCTTAATATTGAAAAAATAAATATATA---ATAAAAAAATTTCTAAAAA
* * * * *
8591 TAGATTAATATATATAATTTATAAAAATAAAATATTTATTTAAAAATATCATAAAATGGACATCT
63 TAGATTAATATATAAAATTTATAAAAATAAAATATTTATTAAAAAATATCAGAAAATAGACATCC
8656 AGTTG
128 AGTTG
* *
8661 CTTTAAGACTGCCCTTTCTTAATATTG-AAAAATAAATATATATTAAAA
1 CTTTAAGACTGTCCTTTCTTAATATTGAAAAAATAAATATATAATAAAA
8709 TATGATAAAA
Statistics
Matches: 162, Mismatches: 15, Indels: 19
0.83 0.08 0.10
Matches are distributed among these distances:
131 5 0.03
134 15 0.09
135 51 0.31
136 10 0.06
137 44 0.27
138 24 0.15
139 2 0.01
141 2 0.01
142 9 0.06
ACGTcount: A:0.49, C:0.08, G:0.06, T:0.36
Consensus pattern (132 bp):
CTTTAAGACTGTCCTTTCTTAATATTGAAAAAATAAATATATAATAAAAAAATTTCTAAAAATAG
ATTAATATATAAAATTTATAAAAATAAAATATTTATTAAAAAATATCAGAAAATAGACATCCAGT
TG
Found at i:8684 original size:135 final size:134
Alignment explanation
Indices: 8457--8704 Score: 390
Period size: 135 Copynumber: 1.8 Consensus size: 134
8447 TAAAAAATTT
*
8457 GATTAATATTAAAATTTATAAAAGTAAAATATTTATTAAAAAAAATATCAGAAAATAGACATCCA
1 GATTAATATTAAAATTTATAAAAATAAAATATTTATT-AAAAAAATATCAGAAAATAGACATCCA
*
8522 GTTGCTTTAAGACTGTCCTTTCCTAATATTGAAAAAATAAATATATATTGATAAAAAAATTTCTA
65 GTTGCTTTAAGACTGCCCTTTCCTAATATTG-AAAAATAAATATATATTGATAAAAAAATTTCTA
8587 AAAATA
129 AAAATA
* * * * *
8593 GATTAATATATATAATTTATAAAAATAAAATATTTATT-TAAAAATATCATAAAATGGACATCTA
1 GATTAATAT-TAAAATTTATAAAAATAAAATATTTATTAAAAAAATATCAGAAAATAGACATCCA
*
8657 GTTGCTTTAAGACTGCCCTTTCTTAATATTGAAAAATAAATATATATT
65 GTTGCTTTAAGACTGCCCTTTCCTAATATTGAAAAATAAATATATATT
8705 AAAATATGAT
Statistics
Matches: 103, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
134 17 0.17
135 51 0.50
136 9 0.09
137 26 0.25
ACGTcount: A:0.48, C:0.08, G:0.07, T:0.36
Consensus pattern (134 bp):
GATTAATATTAAAATTTATAAAAATAAAATATTTATTAAAAAAATATCAGAAAATAGACATCCAG
TTGCTTTAAGACTGCCCTTTCCTAATATTGAAAAATAAATATATATTGATAAAAAAATTTCTAAA
AATA
Found at i:8901 original size:23 final size:22
Alignment explanation
Indices: 8819--8903 Score: 59
Period size: 23 Copynumber: 3.7 Consensus size: 22
8809 GACTTAAGAT
*
8819 AATAATAAT-AAAATGATAATGAA
1 AATAATAATCAAAAT-AAAAT-AA
*
8842 AATAATAATTTAAACATATATAA-AA
1 AATAATAA-TCAAA-ATA-A-AATAA
*
8867 AATAGTAA-CAAAATAAAATAA
1 AATAATAATCAAAATAAAATAA
8888 TAATAATAATCAAAAT
1 -AATAATAATCAAAAT
8904 GAAAGAAATT
Statistics
Matches: 50, Mismatches: 4, Indels: 16
0.71 0.06 0.23
Matches are distributed among these distances:
20 2 0.04
21 3 0.06
22 10 0.20
23 17 0.34
24 1 0.02
25 13 0.26
26 2 0.04
27 2 0.04
ACGTcount: A:0.66, C:0.04, G:0.04, T:0.27
Consensus pattern (22 bp):
AATAATAATCAAAATAAAATAA
Found at i:8946 original size:17 final size:17
Alignment explanation
Indices: 8911--8958 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 17
8901 AATGAAAGAA
*
8911 ATTAAAA-GCAATA-AT
1 ATTAAAATGCAAAATAT
8926 ATTAAAATGCAAAATAT
1 ATTAAAATGCAAAATAT
*
8943 ATT-AAATGAAAAATAT
1 ATTAAAATGCAAAATAT
8959 CCAATATTAG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 7 0.24
16 17 0.59
17 5 0.17
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.29
Consensus pattern (17 bp):
ATTAAAATGCAAAATAT
Found at i:10172 original size:9 final size:9
Alignment explanation
Indices: 10154--10205 Score: 61
Period size: 9 Copynumber: 5.7 Consensus size: 9
10144 TTGTAATATT
10154 TAAT-TTAA
1 TAATATTAA
10162 TAATATTAA
1 TAATATTAA
10171 TAATATATATA
1 TAATAT-TA-A
*
10182 TAATAATAA
1 TAATATTAA
*
10191 TAATAATAA
1 TAATATTAA
10200 TAATAT
1 TAATAT
10206 AGTGAAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
8 4 0.10
9 25 0.64
10 4 0.10
11 6 0.15
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
TAATATTAA
Found at i:10174 original size:3 final size:3
Alignment explanation
Indices: 10159--10204 Score: 65
Period size: 3 Copynumber: 14.7 Consensus size: 3
10149 ATATTTAATT
*
10159 TAA TAA TAT TAA TAA TATA TATA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TA-A TA-A TAA TAA TAA TAA TAA TAA TAA TA
10205 TAGTGAAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
3 33 0.82
4 7 0.17
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:16486 original size:22 final size:21
Alignment explanation
Indices: 16445--16488 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
16435 TAAAAAAAAA
16445 AATTAAATTTTTATAGTTTTT
1 AATTAAATTTTTATAGTTTTT
16466 AATTAAAATTATTT-TA-TTTTT
1 AATT-AAATT-TTTATAGTTTTT
16487 AA
1 AA
16489 AATTTTATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 11 0.52
22 7 0.33
23 3 0.14
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (21 bp):
AATTAAATTTTTATAGTTTTT
Found at i:16517 original size:25 final size:24
Alignment explanation
Indices: 16485--16537 Score: 79
Period size: 25 Copynumber: 2.2 Consensus size: 24
16475 TATTTTATTT
*
16485 TTAAAATTTTATAAATTTATCCTCC
1 TTAAAATTTTATAAACTTATCCT-C
*
16510 TTAAAATTTTATAAACTTATTCTC
1 TTAAAATTTTATAAACTTATCCTC
16534 TTAA
1 TTAA
16538 CATAAAATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 5 0.19
25 21 0.81
ACGTcount: A:0.38, C:0.13, G:0.00, T:0.49
Consensus pattern (24 bp):
TTAAAATTTTATAAACTTATCCTC
Found at i:16658 original size:93 final size:94
Alignment explanation
Indices: 16560--16752 Score: 327
Period size: 94 Copynumber: 2.1 Consensus size: 94
16550 TATTTGTCCT
*
16560 ATATATTAACTAACATTTTCC-CTATAATTAGGTGAGGG-TTTAAAGCAATTTGGCGTGTTACTT
1 ATATATTAACTAACATTTTCCTC-ATAATTAGGTGAGGGATTTAAAGCAATTTGGCGTGGTACTT
16623 AAAACTCAGTTTAATACACATATAACTAAC
65 AAAACTCAGTTTAATACACATATAACTAAC
*
16653 ATATATTAACTAACATTTTCCTCATAATTAGGTGGGGGATTTAAAGCAATTTGGCGTGGTACTTA
1 ATATATTAACTAACATTTTCCTCATAATTAGGTGAGGGATTTAAAGCAATTTGGCGTGGTACTTA
**
16718 AAACTCAGTTTAATATGCATATAACTAAC
66 AAACTCAGTTTAATACACATATAACTAAC
16747 ATATAT
1 ATATAT
16753 GGCACTGAAG
Statistics
Matches: 94, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
93 35 0.37
94 59 0.63
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (94 bp):
ATATATTAACTAACATTTTCCTCATAATTAGGTGAGGGATTTAAAGCAATTTGGCGTGGTACTTA
AAACTCAGTTTAATACACATATAACTAAC
Found at i:17062 original size:32 final size:32
Alignment explanation
Indices: 17011--17097 Score: 86
Period size: 32 Copynumber: 2.7 Consensus size: 32
17001 ATCAAGTTGG
* **
17011 ATCAAAATCAGATTAGTTGATTTTCGGATCT-A
1 ATCAATATCAGATCGGTTGATTTTCGGAT-TGA
* * * *
17043 ATTAATATCAGATCGGTTGATTTTTGGGTTGG
1 ATCAATATCAGATCGGTTGATTTTCGGATTGA
*
17075 GTCAATATCAGATCGGTTGATTT
1 ATCAATATCAGATCGGTTGATTT
17098 CGGGTCGGAT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 1 0.02
32 44 0.98
ACGTcount: A:0.28, C:0.10, G:0.22, T:0.40
Consensus pattern (32 bp):
ATCAATATCAGATCGGTTGATTTTCGGATTGA
Found at i:17625 original size:13 final size:13
Alignment explanation
Indices: 17594--17626 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
17584 TATTTTAATT
*
17594 TAAATTATAAATA
1 TAAATTATAAAAA
17607 -AAATTATAAAAA
1 TAAATTATAAAAA
17619 TAAATTAT
1 TAAATTAT
17627 TTATTAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
TAAATTATAAAAA
Found at i:19106 original size:17 final size:17
Alignment explanation
Indices: 19057--19106 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
19047 TTTTTCATGT
*
19057 TTTGGTTTCTATGAATG
1 TTTGATTTCTATGAATG
* *
19074 TTTGA---GTATCAATG
1 TTTGATTTCTATGAATG
19088 TTTGATTTCTATGAATG
1 TTTGATTTCTATGAATG
19105 TT
1 TT
19107 AGAAGAATTT
Statistics
Matches: 25, Mismatches: 5, Indels: 6
0.69 0.14 0.17
Matches are distributed among these distances:
14 12 0.48
17 13 0.52
ACGTcount: A:0.22, C:0.06, G:0.20, T:0.52
Consensus pattern (17 bp):
TTTGATTTCTATGAATG
Found at i:21592 original size:22 final size:22
Alignment explanation
Indices: 21567--21620 Score: 90
Period size: 22 Copynumber: 2.4 Consensus size: 22
21557 TCAAACCCTA
21567 GGCTATTTTGAGTTCATTTCAT
1 GGCTATTTTGAGTTCATTTCAT
21589 GGCTATTTTGAGTTCATTTCAT
1 GGCTATTTTGAGTTCATTTCAT
*
21611 GCCTTATTTT
1 GGC-TATTTT
21621 ATGTTCAAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 24 0.80
23 6 0.20
ACGTcount: A:0.17, C:0.15, G:0.17, T:0.52
Consensus pattern (22 bp):
GGCTATTTTGAGTTCATTTCAT
Found at i:23565 original size:71 final size:71
Alignment explanation
Indices: 23484--23627 Score: 279
Period size: 71 Copynumber: 2.0 Consensus size: 71
23474 GGCTAGCCAG
23484 ACAATGGTAAATTAAATCAAATTTATCAAAACAAGAAATTTTCGGTAATGATGGACTAAGGCAGT
1 ACAATGGTAAATTAAATCAAATTTATCAAAACAAGAAATTTTCGGTAATGATGGACTAAGGCAGT
23549 TAAGGA
66 TAAGGA
*
23555 ACAATGGTAAATTAAATCAAATTTATCTAAACAAGAAATTTTCGGTAATGATGGACTAAGGCAGT
1 ACAATGGTAAATTAAATCAAATTTATCAAAACAAGAAATTTTCGGTAATGATGGACTAAGGCAGT
23620 TAAGGA
66 TAAGGA
23626 AC
1 AC
23628 GCCTGTTATA
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.44, C:0.10, G:0.18, T:0.27
Consensus pattern (71 bp):
ACAATGGTAAATTAAATCAAATTTATCAAAACAAGAAATTTTCGGTAATGATGGACTAAGGCAGT
TAAGGA
Found at i:24667 original size:147 final size:146
Alignment explanation
Indices: 24468--24918 Score: 651
Period size: 147 Copynumber: 3.1 Consensus size: 146
24458 ATGGTGGTTG
* * * * *
24468 CTCAACTTCATAGTGTAGGAGCGTCTGTCAACAAACAACTTTCCAGTTTCATTCAGAGTTAATTT
1 CTCAACTTCACAGTGAAAGAGCATCTGTCAACAAACAACTTTCTAGTTTCATTCAGAGTTAATTT
*
24533 CAACTTCACAGCGAAGGATATTGGACTCAAAACAACACAAGATTGGATTTCAACTTCACAACGAA
66 CAACTTCACAGCGAAGGATATTGGACTCGAAACAACACAAGATTGGATTTCAACTTCACAACGAA
24598 GGATATCCAATTCAAAT
131 GGATATCCAATT-AAAT
*
24615 CACAACTTCACAGTGAAAGAGCATCTGTCAACAAACAACTTTCTAGTTTCATTCAGAGTTAATTT
1 CTCAACTTCACAGTGAAAGAGCATCTGTCAACAAACAACTTTCTAGTTTCATTCAGAGTTAATTT
* *
24680 CAACTTCACGGCGAAGGATATTGGACTCGAAACAACACAAGATTGAATTTCAACTTCACAACGAA
66 CAACTTCACAGCGAAGGATATTGGACTCGAAACAACACAAGATTGGATTTCAACTTCACAACGAA
* *
24745 TGATATCCAATTTAAT
131 GGATATCCAATTAAAT
* * *
24761 GTTCAACTTCACAAT-AAATGAGCATCTGTCAACAAAACAACTTT-TCAGTTTCATTCAGAGTCA
1 -CTCAACTTCACAGTGAAA-GAGCATCTGTCAAC-AAACAACTTTCT-AGTTTCATTCAGAGTTA
* * *
24824 ATTTCAACTTCACAGCGAAGGATATTAGACTTGAAAC-A-ACAAGATTAGATTTCAACTTCACAA
62 ATTTCAACTTCACAGCGAAGGATATTGGACTCGAAACAACACAAGATTGGATTTCAACTTCACAA
*
24887 CGAAGGA-ATCCAATTTAAAG
127 CGAAGGATATCCAA-TTAAAT
24907 CTCAACTTCACA
1 CTCAACTTCACA
24919 ACGAATGAGC
Statistics
Matches: 275, Mismatches: 24, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
145 17 0.06
146 39 0.14
147 159 0.58
148 60 0.22
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.27
Consensus pattern (146 bp):
CTCAACTTCACAGTGAAAGAGCATCTGTCAACAAACAACTTTCTAGTTTCATTCAGAGTTAATTT
CAACTTCACAGCGAAGGATATTGGACTCGAAACAACACAAGATTGGATTTCAACTTCACAACGAA
GGATATCCAATTAAAT
Found at i:25123 original size:122 final size:121
Alignment explanation
Indices: 24871--25331 Score: 710
Period size: 121 Copynumber: 3.8 Consensus size: 121
24861 AACAAGATTA
* *
24871 GATTTCAACTTCAC-AACGAAGGA-ATCCAATTTAAAGCTCAACTTCACAACGAATGAGCCACCC
1 GATTTCAACTTCACGAA-GAAGGATATCCAATTCAAAGCTCAACTTCACAACGAATGAGCCATCC
* * * * *
24934 ACGATTTCAACTTCACAACGAAGGATATCGTGCCCATAAGCAGTAATTCAACCCTTA
65 ACGATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGCAGCAATACAACCCTTG
*
24991 AATTTCAACTTCACGAAGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAATGAGCCATCCA
1 GATTTCAACTTCACGAAGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAATGAGCCATCCA
* *
25056 CGATTTCAATTTTCACGACGAAGGATATCGTGCCCACAAGCAGCAATGCAACCCTTG
66 CGATTTCAA-CTTCACGACGAAGGATATCGTGCCCACAAGCAGCAATACAACCCTTG
* * * *
25113 GATTTCAACTTCACGACGAAAGATATCCAATTCAAAGCTCAACTTCACAATGAAGGAGCCATCCA
1 GATTTCAACTTCACGAAGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAATGAGCCATCCA
* * *
25178 CGATTTCAACTTCACGATGAAGGATATCGTGTCCACAAGCAACAATACAACCCTTG
66 CGATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGCAGCAATACAACCCTTG
* * *
25234 GATTTCAACTTCACGACGAAGGATAACCAATTCAAAGCTCAACTTCATAACGAATGAGCCATCCA
1 GATTTCAACTTCACGAAGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAATGAGCCATCCA
25299 CGATTTCAACTTCACGACGAAGGATATCGTGCC
66 CGATTTCAACTTCACGACGAAGGATATCGTGCC
25332 TAACGGATCG
Statistics
Matches: 312, Mismatches: 26, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
120 19 0.06
121 183 0.59
122 110 0.35
ACGTcount: A:0.36, C:0.27, G:0.15, T:0.22
Consensus pattern (121 bp):
GATTTCAACTTCACGAAGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAATGAGCCATCCA
CGATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGCAGCAATACAACCCTTG
Found at i:25129 original size:55 final size:54
Alignment explanation
Indices: 25057--25258 Score: 143
Period size: 55 Copynumber: 3.5 Consensus size: 54
25047 AGCCATCCAC
*
25057 GATTTCAATTTTCACGACGAAGGATATCGTGCCCACAAGCAGCAATGCAACCCTTG
1 GATTTCAA-CTTCACGACGAAGGATATCGTGCCCACAAGCA-CAATGCAACCCTTG
* * * * * * * **
25113 GATTTCAACTTCACGACGAAAGATATCCAATTCAAAGCTCAACTTCACAATGAAGGAGCCATCCA
1 GATTTCAACTTCACGACGAAGGATAT-C-GTGC---CCACAA--GCACAATGCA--A-CC--CTT
*
25178 C
54 G
* * *
25179 GATTTCAACTTCACGATGAAGGATATCGTGTCCACAAGCAACAATACAACCCTTG
1 GATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGC-ACAATGCAACCCTTG
25234 GATTTCAACTTCACGACGAAGGATA
1 GATTTCAACTTCACGACGAAGGATA
25259 ACCAATTCAA
Statistics
Matches: 108, Mismatches: 25, Indels: 27
0.68 0.16 0.17
Matches are distributed among these distances:
55 41 0.38
56 9 0.08
57 4 0.04
58 1 0.01
59 1 0.01
60 10 0.09
61 10 0.09
62 2 0.02
63 1 0.01
64 3 0.03
65 1 0.01
66 25 0.23
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.23
Consensus pattern (54 bp):
GATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGCACAATGCAACCCTTG
Found at i:25181 original size:243 final size:241
Alignment explanation
Indices: 24871--25331 Score: 733
Period size: 243 Copynumber: 1.9 Consensus size: 241
24861 AACAAGATTA
* * *
24871 GATTTCAACTTCACAACGAAGGAATCCAATTTAAAGCTCAACTTCACAACGAATGAGCCACCCAC
1 GATTTCAACTTCACAACGAAAGAATCCAATTCAAAGCTCAACTTCACAACGAAGGAGCCACCCAC
* ** *
24936 GATTTCAACTTCACAACGAAGGATATCGTGCCCATAAGCAGTAATTCAACCCTTAAATTTCAACT
66 GATTTCAACTTCACAACGAAGGATATCGTGCCCACAAGCAACAATACAACCCTTAAATTTCAACT
*
25001 TCACGAAGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAATGAGCCATCCACGATTTCAAT
131 TCACGAAGAAGGATAACCAATTCAAAGCTCAACTTCACAACGAATGAGCCATCCACGATTTCAA-
*
25066 TTTCACGACGAAGGATATCGTGCCCACAAGCAGCAATGCAACCCTTG
195 CTTCACGACGAAGGATATCGTGCCCACAAGCAGCAATGCAACCCTTG
* * *
25113 GATTTCAACTTCACGACGAAAGATATCCAATTCAAAGCTCAACTTCACAATGAAGGAGCCATCCA
1 GATTTCAACTTCACAACGAAAGA-ATCCAATTCAAAGCTCAACTTCACAACGAAGGAGCCACCCA
* * * **
25178 CGATTTCAACTTCACGATGAAGGATATCGTGTCCACAAGCAACAATACAACCCTTGGATTTCAAC
65 CGATTTCAACTTCACAACGAAGGATATCGTGCCCACAAGCAACAATACAACCCTTAAATTTCAAC
* *
25243 TTCACGACGAAGGATAACCAATTCAAAGCTCAACTTCATAACGAATGAGCCATCCACGATTTCAA
130 TTCACGAAGAAGGATAACCAATTCAAAGCTCAACTTCACAACGAATGAGCCATCCACGATTTCAA
25308 CTTCACGACGAAGGATATCGTGCC
195 CTTCACGACGAAGGATATCGTGCC
25332 TAACGGATCG
Statistics
Matches: 199, Mismatches: 19, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
242 44 0.22
243 155 0.78
ACGTcount: A:0.36, C:0.27, G:0.15, T:0.22
Consensus pattern (241 bp):
GATTTCAACTTCACAACGAAAGAATCCAATTCAAAGCTCAACTTCACAACGAAGGAGCCACCCAC
GATTTCAACTTCACAACGAAGGATATCGTGCCCACAAGCAACAATACAACCCTTAAATTTCAACT
TCACGAAGAAGGATAACCAATTCAAAGCTCAACTTCACAACGAATGAGCCATCCACGATTTCAAC
TTCACGACGAAGGATATCGTGCCCACAAGCAGCAATGCAACCCTTG
Found at i:25190 original size:66 final size:65
Alignment explanation
Indices: 25113--25326 Score: 200
Period size: 66 Copynumber: 3.4 Consensus size: 65
25103 GCAACCCTTG
*
25113 GATTTCAACTTCACGACGAAAGATATCCAATTCAAAGCTCAACTTCACAATGAAGGAGCCATCCA
1 GATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACTTCACAATGAA-GAGCCATCCA
25178 C
65 C
* *** * *
25179 GATTTCAACTTCACGATGAAGGATATCGTGTCCACAAG--C-A----ACAAT-ACA-A-CC--CT
1 GATTTCAACTTCACGACGAAGGATATCCAATTCA-AAGCTCAACTTCACAATGA-AGAGCCATCC
**
25232 TG
64 AC
* * *
25234 GATTTCAACTTCACGACGAAGGATAACCAATTCAAAGCTCAACTTCATAACGAATGAGCCATCCA
1 GATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACTTCACAATGAA-GAGCCATCCA
25299 C
65 C
25300 GATTTCAACTTCACGACGAAGGATATC
1 GATTTCAACTTCACGACGAAGGATATC
25327 GTGCCTAACG
Statistics
Matches: 112, Mismatches: 21, Indels: 30
0.69 0.13 0.18
Matches are distributed among these distances:
54 3 0.03
55 29 0.26
56 1 0.01
57 3 0.03
58 1 0.01
59 1 0.01
60 6 0.05
61 4 0.04
62 1 0.01
63 1 0.01
64 3 0.03
65 1 0.01
66 55 0.49
67 3 0.03
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.22
Consensus pattern (65 bp):
GATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACTTCACAATGAAGAGCCATCCAC
Found at i:32582 original size:41 final size:41
Alignment explanation
Indices: 32532--32910 Score: 629
Period size: 41 Copynumber: 9.2 Consensus size: 41
32522 GTTGAAAATT
*
32532 GCGTTGCGATAGTTGAAAATTGCGTTGCGATTTTCCATTTC
1 GCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTC
*
32573 GCGTTGCGATAGATGAAAATCGCGTTGCGATTTTCCATTTC
1 GCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTC
32614 GCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTC
1 GCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTC
* *
32655 GCGTTGCGATAGTCT-ACAGTCGCGTTGCGATTTTCCATTTC
1 GCGTTGCGATAGT-TGAAAATCGCGTTGCGATTTTCCATTTC
32696 GCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTC
1 GCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTC
32737 GCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTC
1 GCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTC
* * *
32778 GCGTTGCGATAGTCT-ACAGTCGCGTTGCGATTTACCATTTC
1 GCGTTGCGATAGT-TGAAAATCGCGTTGCGATTTTCCATTTC
32819 GCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTC
1 GCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTC
* *
32860 GCGTTGCGATAGTCT-ACAGTCGCGTTGCGATTTTCCATTTC
1 GCGTTGCGATAGT-TGAAAATCGCGTTGCGATTTTCCATTTC
32901 GCGTTGCGAT
1 GCGTTGCGAT
32911 TTTCCATTTC
Statistics
Matches: 318, Mismatches: 15, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
40 2 0.01
41 313 0.98
42 3 0.01
ACGTcount: A:0.18, C:0.21, G:0.25, T:0.36
Consensus pattern (41 bp):
GCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTC
Found at i:32944 original size:41 final size:41
Alignment explanation
Indices: 32899--32999 Score: 159
Period size: 41 Copynumber: 2.4 Consensus size: 41
32889 ATTTTCCATT
32899 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGT-TGAAAA
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCT-AAAA
* *
32940 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAG
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTAAAA
32981 TCGTCGTTGCGATTTTCCA
1 TCG-CGTTGCGATTTTCCA
33000 AATTCGTTGT
Statistics
Matches: 56, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
41 40 0.71
42 16 0.29
ACGTcount: A:0.16, C:0.23, G:0.24, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTAAAA
Found at i:33008 original size:41 final size:40
Alignment explanation
Indices: 32899--33021 Score: 142
Period size: 41 Copynumber: 3.0 Consensus size: 40
32889 ATTTTCCATT
32899 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATTTTCCATTTC-CGTTGCGATAGTTGAAAA
* *
32940 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCT-ACAG
1 TCGCGTTGCGATTTTCCATTTC-CGTTGCGATAGT-TGAAAA
* * *
32981 TCGTCGTTGCGATTTTCCAAATT-CGTTGTGATAGTTAAAAA
1 TCG-CGTTGCGATTTTCC-ATTTCCGTTGCGATAGTTGAAAA
33022 AAAAAGATTT
Statistics
Matches: 72, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
40 1 0.01
41 53 0.74
42 15 0.21
43 3 0.04
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (40 bp):
TCGCGTTGCGATTTTCCATTTCCGTTGCGATAGTTGAAAA
Found at i:33105 original size:6 final size:6
Alignment explanation
Indices: 33094--33132 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
33084 GACACGTATT
33094 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
33133 CGAGACGAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.33, C:0.51, G:0.15, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:33646 original size:6 final size:6
Alignment explanation
Indices: 33635--33667 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
33625 TCTCGTCTCG
33635 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
33668 AATACGTGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.15, G:0.52, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:33786 original size:20 final size:20
Alignment explanation
Indices: 33761--33798 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
33751 ACAACGAATT
*
33761 TGGAAAATCGCAACGCGAAA
1 TGGAAAATCACAACGCGAAA
33781 TGGAAAATCACAACGCGA
1 TGGAAAATCACAACGCGA
33799 TTTTCAACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.11
Consensus pattern (20 bp):
TGGAAAATCACAACGCGAAA
Found at i:33827 original size:21 final size:21
Alignment explanation
Indices: 33766--33828 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
33756 GAATTTGGAA
*
33766 AATCGCAACGCGAAATGGAA-
1 AATCGCAACGCGAAATGCAAC
* ** *
33786 AATCACAACGCGATTTTCAAC
1 AATCGCAACGCGAAATGCAAC
*
33807 TATCGCAACGCGAAATGCAAC
1 AATCGCAACGCGAAATGCAAC
33828 A
1 A
33829 CGAATTTGCG
Statistics
Matches: 31, Mismatches: 11, Indels: 1
0.72 0.26 0.02
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.41, C:0.25, G:0.17, T:0.16
Consensus pattern (21 bp):
AATCGCAACGCGAAATGCAAC
Found at i:33879 original size:20 final size:20
Alignment explanation
Indices: 33856--33961 Score: 63
Period size: 20 Copynumber: 5.2 Consensus size: 20
33846 AGATCGCGTT
*
33856 GCGATTTCAACTATCGCAAC
1 GCGATTGCAACTATCGCAAC
* * *
33876 GCGAAATGGAA-AATCGCAAC
1 GCG-ATTGCAACTATCGCAAC
*
33896 GCGATCTCCAACTATCGCAAC
1 GCGAT-TGCAACTATCGCAAC
* * * *
33917 GCGAAATGGAA-AAACGCAAC
1 GCG-ATTGCAACTATCGCAAC
* *
33937 GCGATTTTCAACTATCGCAAT
1 GCGA-TTGCAACTATCGCAAC
33958 GCGA
1 GCGA
33962 AATGCAACGT
Statistics
Matches: 61, Mismatches: 19, Indels: 11
0.67 0.21 0.12
Matches are distributed among these distances:
19 2 0.03
20 30 0.49
21 28 0.46
22 1 0.02
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.18
Consensus pattern (20 bp):
GCGATTGCAACTATCGCAAC
Found at i:33913 original size:41 final size:41
Alignment explanation
Indices: 33863--33965 Score: 170
Period size: 41 Copynumber: 2.5 Consensus size: 41
33853 GTTGCGATTT
*
33863 CAACTATCGCAACGCGAAATGGAAAATCGCAACGCGATCTC
1 CAACTATCGCAACGCGAAATGGAAAAACGCAACGCGATCTC
* *
33904 CAACTATCGCAACGCGAAATGGAAAAACGCAACGCGATTTT
1 CAACTATCGCAACGCGAAATGGAAAAACGCAACGCGATCTC
*
33945 CAACTATCGCAATGCGAAATG
1 CAACTATCGCAACGCGAAATG
33966 CAACGTGAAT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 58 1.00
ACGTcount: A:0.38, C:0.26, G:0.19, T:0.17
Consensus pattern (41 bp):
CAACTATCGCAACGCGAAATGGAAAAACGCAACGCGATCTC
Found at i:33969 original size:21 final size:21
Alignment explanation
Indices: 33863--33969 Score: 92
Period size: 21 Copynumber: 5.2 Consensus size: 21
33853 GTTGCGATTT
33863 CAACTATCGCAACGCGAAATG
1 CAACTATCGCAACGCGAAATG
* * ** *
33884 GAA-AATCGCAACGCGATCTC
1 CAACTATCGCAACGCGAAATG
33904 CAACTATCGCAACGCGAAATG
1 CAACTATCGCAACGCGAAATG
* * * ** *
33925 GAA-AAACGCAACGCGATTTT
1 CAACTATCGCAACGCGAAATG
*
33945 CAACTATCGCAATGCGAAATG
1 CAACTATCGCAACGCGAAATG
33966 CAAC
1 CAAC
33970 GTGAATTTGC
Statistics
Matches: 61, Mismatches: 23, Indels: 4
0.69 0.26 0.05
Matches are distributed among these distances:
20 29 0.48
21 32 0.52
ACGTcount: A:0.38, C:0.27, G:0.19, T:0.16
Consensus pattern (21 bp):
CAACTATCGCAACGCGAAATG
Found at i:34880 original size:21 final size:21
Alignment explanation
Indices: 34834--34889 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
34824 GATTCTGACT
34834 ATCGCATTGCGA-TTTCCCAA
1 ATCGCATTGCGATTTTCCCAA
* *
34854 ATTCGCGTTGCGATTTTCCTAA
1 A-TCGCATTGCGATTTTCCCAA
*
34876 ATCGCAATGCGATT
1 ATCGCATTGCGATT
34890 ACGTAAATCG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 1 0.03
21 21 0.70
22 8 0.27
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (21 bp):
ATCGCATTGCGATTTTCCCAA
Found at i:35792 original size:24 final size:24
Alignment explanation
Indices: 35765--35818 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
35755 GTATTCGAAA
35765 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
35789 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
35813 TTTGAT
1 TTTGAT
35819 GATTTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:38352 original size:20 final size:19
Alignment explanation
Indices: 38324--38378 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
38314 CAATCATCTT
*
38324 AATGTCTATCGCAACGCGGA
1 AATGACTATCGCAACGC-GA
*
38344 AATGACTATCGCAATGCGA
1 AATGACTATCGCAACGCGA
**
38363 AATGAAAATCGCAACG
1 AATGACTATCGCAACG
38379 AGAGAATCGC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (19 bp):
AATGACTATCGCAACGCGA
Found at i:38393 original size:33 final size:33
Alignment explanation
Indices: 38351--38477 Score: 202
Period size: 33 Copynumber: 3.8 Consensus size: 33
38341 GGAAATGACT
38351 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
38384 ATCGCAATGCGAAATGAAAATCGCAACGA-ATGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGA-GA
*
38417 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
***
38450 ATCGCAAAATGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
38478 CGAATTTAGT
Statistics
Matches: 88, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
32 1 0.01
33 87 0.99
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:38421 original size:14 final size:14
Alignment explanation
Indices: 38369--38456 Score: 52
Period size: 14 Copynumber: 5.6 Consensus size: 14
38359 GCGAAATGAA
38369 AATCGCAACGAGA-G
1 AATCGCAACGA-ATG
38383 AATCGCAATGCGAAATG
1 AATCGCAA--CG-AATG
38400 AAAATCGCAACGAATG
1 --AATCGCAACGAATG
38416 AATCGCAATGCGAAATG
1 AATCGCAA--CG-AATG
**
38433 AAAATCGCAACGAGGG
1 --AATCGCAACGAATG
38449 AATCGCAA
1 AATCGCAA
38457 AATGAAATGA
Statistics
Matches: 61, Mismatches: 2, Indels: 22
0.72 0.02 0.26
Matches are distributed among these distances:
14 24 0.39
16 11 0.18
17 10 0.16
19 16 0.26
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.12
Consensus pattern (14 bp):
AATCGCAACGAATG
Found at i:38440 original size:19 final size:19
Alignment explanation
Indices: 38331--38442 Score: 109
Period size: 19 Copynumber: 6.4 Consensus size: 19
38321 CTTAATGTCT
* **
38331 ATCGCAACGCGGAAATGACT
1 ATCGCAATGC-GAAATGAAA
38351 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
38370 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
38384 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
38403 ATCGCAA--CG-AATG--A
1 ATCGCAATGCGAAATGAAA
38417 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
38436 ATCGCAA
1 ATCGCAA
38443 CGAGGGAATC
Statistics
Matches: 77, Mismatches: 5, Indels: 21
0.75 0.05 0.20
Matches are distributed among these distances:
14 18 0.23
15 1 0.01
16 8 0.10
17 8 0.10
18 1 0.01
19 32 0.42
20 9 0.12
ACGTcount: A:0.44, C:0.20, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:38546 original size:19 final size:19
Alignment explanation
Indices: 38487--38538 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
38477 GCGAATTTAG
38487 TTTCGCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCA
38506 TTTCGCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCA
*
38525 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
38539 AGTCATTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.12, C:0.21, G:0.21, T:0.46
Consensus pattern (19 bp):
TTTCGCGTTGCGATTTTCA
Found at i:38664 original size:14 final size:14
Alignment explanation
Indices: 38645--38681 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
38635 CATCAATTAA
*
38645 ACAAATTAACTTTT
1 ACAAATCAACTTTT
*
38659 ACAAATCATCTTTT
1 ACAAATCAACTTTT
38673 ACAAATCAA
1 ACAAATCAA
38682 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:40057 original size:21 final size:20
Alignment explanation
Indices: 40033--40093 Score: 59
Period size: 21 Copynumber: 3.0 Consensus size: 20
40023 GTGAATCGGG
40033 CTCTTGAATGGTGAGAGGGAC
1 CTCTTGAATGGTGAGAGGG-C
* * * *
40054 CTCTTCAACGATGACAGTGGC
1 CTCTTGAATGGTGAGAG-GGC
*
40075 CTCTTGAATGGTGGGAGGG
1 CTCTTGAATGGTGAGAGGG
40094 GACTCTCGAG
Statistics
Matches: 30, Mismatches: 9, Indels: 3
0.71 0.21 0.07
Matches are distributed among these distances:
20 2 0.07
21 26 0.87
22 2 0.07
ACGTcount: A:0.21, C:0.18, G:0.36, T:0.25
Consensus pattern (20 bp):
CTCTTGAATGGTGAGAGGGC
Found at i:40598 original size:19 final size:19
Alignment explanation
Indices: 40552--40716 Score: 187
Period size: 19 Copynumber: 8.8 Consensus size: 19
40542 TCTGGAACTT
*
40552 AAAATCGCAACGTGAATAATG
1 AAAATCGCAACGCG-A-AATG
**
40573 ACTATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
*
40592 AAAATCGCAACGAGAGAATG
1 AAAATCGCAACGCGA-AATG
*
40612 AAAATCGCAACGCGAAACG
1 AAAATCGCAACGCGAAATG
*
40631 AAAATCGCAACGCGAAACG
1 AAAATCGCAACGCGAAATG
*
40650 AAAATCGTAACGCGAAATG
1 AAAATCGCAACGCGAAATG
40669 AAAATCGCAA--CG--A-G
1 AAAATCGCAACGCGAAATG
* *
40683 AGAATCGCAATGCGAAATG
1 AAAATCGCAACGCGAAATG
40702 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
40717 TTATAGTTTC
Statistics
Matches: 124, Mismatches: 14, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
14 10 0.08
15 1 0.01
16 2 0.02
17 2 0.02
18 1 0.01
19 78 0.63
20 19 0.15
21 11 0.09
ACGTcount: A:0.46, C:0.21, G:0.22, T:0.12
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATG
Found at i:40621 original size:39 final size:38
Alignment explanation
Indices: 40552--40713 Score: 183
Period size: 39 Copynumber: 4.3 Consensus size: 38
40542 TCTGGAACTT
* **
40552 AAAATCGCAACGTGAATAATGACTATCGCAACGCGAAATG
1 AAAATCGCAACG-G-AGAATGAAAATCGCAACGCGAAATG
*
40592 AAAATCGCAACGAGAGAATGAAAATCGCAACGCGAAACG
1 AAAATCGCAACG-GAGAATGAAAATCGCAACGCGAAATG
* *
40631 AAAATCGCAACGCGA-AACGAAAATCGTAACGCGAAATG
1 AAAATCGCAACG-GAGAATGAAAATCGCAACGCGAAATG
*
40669 AAAATCGCAAC-GAG-A-G--AATCGCAATGCGAAATG
1 AAAATCGCAACGGAGAATGAAAATCGCAACGCGAAATG
40702 AAAATCGCAACG
1 AAAATCGCAACG
40714 CGATTATAGT
Statistics
Matches: 109, Mismatches: 11, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
33 26 0.24
35 1 0.01
36 3 0.03
38 31 0.28
39 35 0.32
40 13 0.12
ACGTcount: A:0.46, C:0.20, G:0.22, T:0.12
Consensus pattern (38 bp):
AAAATCGCAACGGAGAATGAAAATCGCAACGCGAAATG
Found at i:40689 original size:33 final size:33
Alignment explanation
Indices: 40576--40713 Score: 141
Period size: 33 Copynumber: 3.8 Consensus size: 33
40566 AATAATGACT
40576 ATCGCAACGCGAAATGAAAATCGCAACGAGAGAATGAAA
1 ATCGCAACGCGAAATGAAAATCGCAAC--GAG-A-G--A
* *
40615 ATCGCAACGCGAAACGAAAATCGCAACGCGAAACGAAA
1 ATCGCAACGCGAAATGAAAATCGCAA--CG--A-GAGA
*
40653 ATCGTAACGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
*
40686 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAACGCGAAATGAAAATCGCAACG
40714 CGATTATAGT
Statistics
Matches: 87, Mismatches: 7, Indels: 16
0.79 0.06 0.15
Matches are distributed among these distances:
33 29 0.33
34 1 0.01
36 2 0.02
38 25 0.29
39 26 0.30
41 3 0.03
42 1 0.01
ACGTcount: A:0.46, C:0.21, G:0.22, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
Found at i:40764 original size:19 final size:19
Alignment explanation
Indices: 40722--40784 Score: 90
Period size: 19 Copynumber: 3.3 Consensus size: 19
40712 CGCGATTATA
* *
40722 GTTTCGCGTTGCAATTTTTT
1 GTTTCGCGTTGCGA-TTTTC
40742 GTTTCGCGTTGCGATTTTC
1 GTTTCGCGTTGCGATTTTC
40761 GTTTCGCGTTGCGATTTTC
1 GTTTCGCGTTGCGATTTTC
*
40780 ATTTC
1 GTTTC
40785 AACCAAAAGA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
19 27 0.68
20 13 0.32
ACGTcount: A:0.08, C:0.19, G:0.22, T:0.51
Consensus pattern (19 bp):
GTTTCGCGTTGCGATTTTC
Found at i:40987 original size:94 final size:94
Alignment explanation
Indices: 40875--41248 Score: 582
Period size: 94 Copynumber: 4.1 Consensus size: 94
40865 ATGGATTGCA
* *
40875 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCAGAGTATTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
40939 TTAGCAGAATTGGCAGCAAACGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
* *
40968 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACATTGTTAAAGAATACACAAT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
41033 TTAGCAGAATTGGCAGCAACCGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
41062 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
* *
41127 TTAGCAGAATTGGCAGCAACCAAATAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
* * *
41156 TTAC-TTCAACCAAAAGATAACA-AAAGACAAATACTAACTTCACAGTGTT----AATAAACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
* * *
41215 TTAGCAGTATTGGCAGTAACCGAATAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
41244 TTACT
1 TTACT
41249 AAGCAATCTA
Statistics
Matches: 264, Mismatches: 15, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
88 39 0.15
92 27 0.10
93 20 0.08
94 178 0.67
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.22
Consensus pattern (94 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
TTAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:42913 original size:19 final size:19
Alignment explanation
Indices: 42842--42940 Score: 135
Period size: 19 Copynumber: 5.1 Consensus size: 19
42832 TCTTTTGGTT
*
42842 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
42861 GAGAATGAAAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
42881 GGAAATGATTATCGCAACGC
1 -GAAATGAAAATCGCAACGC
*
42901 GAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
42920 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
42939 GA
1 GA
42941 TTTTGGTTTC
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
19 37 0.53
20 31 0.44
21 2 0.03
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:42984 original size:33 final size:33
Alignment explanation
Indices: 42938--43016 Score: 122
Period size: 33 Copynumber: 2.4 Consensus size: 33
42928 AATCGCAATG
**
42938 CGATTTTGGTTTCGCGTTGCGATTATATCGTTA
1 CGATTTTCATTTCGCGTTGCGATTATATCGTTA
* *
42971 CGATTTTCATTTCGCGTTGCGATTCTCTCGTTA
1 CGATTTTCATTTCGCGTTGCGATTATATCGTTA
43004 CGATTTTCATTTC
1 CGATTTTCATTTC
43017 TCTCGTTGCG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.14, C:0.20, G:0.19, T:0.47
Consensus pattern (33 bp):
CGATTTTCATTTCGCGTTGCGATTATATCGTTA
Found at i:43019 original size:21 final size:21
Alignment explanation
Indices: 42993--43072 Score: 85
Period size: 21 Copynumber: 3.9 Consensus size: 21
42983 CGCGTTGCGA
*
42993 TTCTCTCGTTACGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
**
43014 TTCTCTCGTTGCGATAGTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
43035 TTTTCGT-GTTGCGATTTTCAT
1 TTCTC-TCGTTGCGATTTTCAT
43056 TT-TCAT-GTTGCGATTTT
1 TTCTC-TCGTTGCGATTTT
43073 AAGTTTAGAA
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
20 14 0.27
21 36 0.71
22 1 0.02
ACGTcount: A:0.12, C:0.19, G:0.16, T:0.53
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:43673 original size:21 final size:20
Alignment explanation
Indices: 43623--43698 Score: 107
Period size: 20 Copynumber: 3.8 Consensus size: 20
43613 ATAGTCAGAT
*
43623 TCGCATTACGATTTACGTAA
1 TCGCATTGCGATTTACGTAA
* *
43643 TCGCATTGCGATTTTCCTAA
1 TCGCATTGCGATTTACGTAA
*
43663 TTCGTATTGCGATTTACGTAA
1 -TCGCATTGCGATTTACGTAA
43684 TCGCATTGCGATTTA
1 TCGCATTGCGATTTA
43699 GGAAAATCGC
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 31 0.65
21 17 0.35
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (20 bp):
TCGCATTGCGATTTACGTAA
Found at i:43708 original size:21 final size:20
Alignment explanation
Indices: 43623--43709 Score: 84
Period size: 20 Copynumber: 4.2 Consensus size: 20
43613 ATAGTCAGAT
* *
43623 TCGCATTACGATTTACGTAA
1 TCGCATTGCGATTTACGAAA
* * *
43643 TCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGA-TTTACGAAA
* *
43664 TCGTATTGCGATTTACGTAA
1 TCGCATTGCGATTTACGAAA
*
43684 TCGCATTGCGATTTAGGAAAA
1 TCGCATTGCGATTTACG-AAA
43705 TCGCA
1 TCGCA
43710 ACGCGAATTT
Statistics
Matches: 52, Mismatches: 13, Indels: 3
0.76 0.19 0.04
Matches are distributed among these distances:
20 30 0.58
21 22 0.42
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (20 bp):
TCGCATTGCGATTTACGAAA
Found at i:43715 original size:21 final size:20
Alignment explanation
Indices: 43682--43737 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 20
43672 CGATTTACGT
*
43682 AATCGCATTGCGATTTAGGAA
1 AATCGCAATGCGATTT-GGAA
*
43703 AATCGCAACGCGAATTTGGAA
1 AATCGCAATGCG-ATTTGGAA
43724 AATCGCAATGCGAT
1 AATCGCAATGCGAT
43738 AGTCAGAATC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 2 0.06
21 25 0.81
22 4 0.13
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (20 bp):
AATCGCAATGCGATTTGGAA
Found at i:45190 original size:25 final size:25
Alignment explanation
Indices: 45162--45214 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
45152 TGCACTTTGG
*
45162 GGGTACACATCATTTGAAAGTACTA
1 GGGTACACATCATTTGAAAGCACTA
45187 GGGTACACATCATTTGAAAGCACTA
1 GGGTACACATCATTTGAAAGCACTA
45212 GGG
1 GGG
45215 CATTAGTCAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.25
Consensus pattern (25 bp):
GGGTACACATCATTTGAAAGCACTA
Found at i:53220 original size:21 final size:21
Alignment explanation
Indices: 53194--53247 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
53184 GTTTCCAGAT
*
53194 TCGCAACGCGAACTTCGACTA
1 TCGCAATGCGAACTTCGACTA
*
53215 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTCGACTA
53236 TCGCAATGCGAA
1 TCGCAATGCGAA
53248 TATGTAAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.20
Consensus pattern (21 bp):
TCGCAATGCGAACTTCGACTA
Found at i:53304 original size:21 final size:21
Alignment explanation
Indices: 53280--53344 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 21
53270 TCGAAGTACG
53280 CGTTGCGATTTATTCCAAATT
1 CGTTGCGATTTATTCCAAATT
* *
53301 CGTTGCGA--TAGTT-GAAGTT
1 CGTTGCGATTTA-TTCCAAATT
53320 CGCGTTGCGATTTATTCCAAATT
1 --CGTTGCGATTTATTCCAAATT
53343 CG
1 CG
53345 CAACGACTGG
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
19 6 0.18
20 2 0.06
21 18 0.53
22 2 0.06
23 6 0.18
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (21 bp):
CGTTGCGATTTATTCCAAATT
Found at i:53309 original size:42 final size:42
Alignment explanation
Indices: 53262--53344 Score: 148
Period size: 42 Copynumber: 2.0 Consensus size: 42
53252 TAAATCGCAA
53262 TGCGATAGTCGAAGTACGCGTTGCGATTTATTCCAAATTCGT
1 TGCGATAGTCGAAGTACGCGTTGCGATTTATTCCAAATTCGT
* *
53304 TGCGATAGTTGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TGCGATAGTCGAAGTACGCGTTGCGATTTATTCCAAATTCG
53345 CAACGACTGG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (42 bp):
TGCGATAGTCGAAGTACGCGTTGCGATTTATTCCAAATTCGT
Found at i:54014 original size:21 final size:21
Alignment explanation
Indices: 53990--54061 Score: 85
Period size: 21 Copynumber: 3.4 Consensus size: 21
53980 ATGCAATACT
53990 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
* * *
54011 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAATTTGGAATAA
54032 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
54053 ATCGCAACG
1 ATCGCAACG
54062 CGAACTTCGA
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
19 9 0.22
21 23 0.56
23 9 0.22
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.21
Consensus pattern (21 bp):
ATCGCAACGAATTTGGAATAA
Found at i:54046 original size:42 final size:42
Alignment explanation
Indices: 53987--54080 Score: 188
Period size: 42 Copynumber: 2.2 Consensus size: 42
53977 CAAATGCAAT
53987 ACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCG
1 ACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCG
54029 ACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCG
1 ACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCG
54071 ACTATCGCAA
1 ACTATCGCAA
54081 TGCGAATATG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.21
Consensus pattern (42 bp):
ACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCG
Found at i:54077 original size:21 final size:21
Alignment explanation
Indices: 54011--54086 Score: 84
Period size: 21 Copynumber: 3.6 Consensus size: 21
54001 TTTGGAATAA
54011 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
* * *
54032 ATCGCAA--CGAATTTGGAAT
1 ATCGCAACGCGAACTTCGACT
54051 AAATCGCAACGCGAACTTCGACT
1 --ATCGCAACGCGAACTTCGACT
*
54074 ATCGCAATGCGAA
1 ATCGCAACGCGAA
54087 TATGTAAATC
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
19 9 0.20
21 26 0.59
23 9 0.20
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGAACTTCGACT
Found at i:54253 original size:21 final size:21
Alignment explanation
Indices: 54223--54297 Score: 123
Period size: 21 Copynumber: 3.6 Consensus size: 21
54213 GATTTACATA
*
54223 TTCGCATTGCGATAGTCCAAG
1 TTCGCCTTGCGATAGTCCAAG
54244 TTCGCCTTGCGATAGTCCAAG
1 TTCGCCTTGCGATAGTCCAAG
*
54265 TTCGCCTTGCGATAGTCGAAG
1 TTCGCCTTGCGATAGTCCAAG
*
54286 TTCGCGTTGCGA
1 TTCGCCTTGCGA
54298 ATCTGGAAAC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 51 1.00
ACGTcount: A:0.19, C:0.25, G:0.27, T:0.29
Consensus pattern (21 bp):
TTCGCCTTGCGATAGTCCAAG
Found at i:60495 original size:25 final size:25
Alignment explanation
Indices: 60467--60523 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
60457 CTTAATCCCT
**
60467 GGATGAAATTT-TAAAATTTTAAGAG
1 GGATGAAATTTATAAAATTCCAA-AG
60492 GGATG-AATTTATAAAATTCCAAAG
1 GGATGAAATTTATAAAATTCCAAAG
60516 GGATGAAA
1 GGATGAAA
60524 ATAGATTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 12 0.43
25 16 0.57
ACGTcount: A:0.46, C:0.04, G:0.21, T:0.30
Consensus pattern (25 bp):
GGATGAAATTTATAAAATTCCAAAG
Found at i:60517 original size:24 final size:24
Alignment explanation
Indices: 60467--60522 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
60457 CTTAATCCCT
**
60467 GGATGAAATTTTAAAATTTTAAGAG
1 GGATG-AATTTTAAAATTCCAAGAG
60492 GGATGAATTTATAAAATTCCAA-AG
1 GGATGAATTT-TAAAATTCCAAGAG
60516 GGATGAA
1 GGATGAA
60523 AATAGATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 14 0.50
25 14 0.50
ACGTcount: A:0.45, C:0.04, G:0.21, T:0.30
Consensus pattern (24 bp):
GGATGAATTTTAAAATTCCAAGAG
Found at i:63879 original size:32 final size:33
Alignment explanation
Indices: 63813--63906 Score: 93
Period size: 34 Copynumber: 2.8 Consensus size: 33
63803 TTTTTCCTAC
* *
63813 TTTATT-ATTCTTGTTATATATGCATATTAC-TT
1 TTTATTAATT-TTATTATATATGTATATTACTTT
**
63845 TTTATTAATTTTATTATATATGTATATATGTTTT
1 TTTATTAATTTTATTATATATGTATAT-TACTTT
* * *
63879 TTTATTAGTGTTATTATATATATATATT
1 TTTATTAATTTTATTATATATGTATATT
63907 TATTTATATA
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
32 21 0.40
33 5 0.10
34 26 0.50
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.62
Consensus pattern (33 bp):
TTTATTAATTTTATTATATATGTATATTACTTT
Found at i:64050 original size:16 final size:18
Alignment explanation
Indices: 64029--64063 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
64019 TTTACTCATT
64029 TATTTAT-CTAT-TTTTA
1 TATTTATCCTATATTTTA
64045 TATTTATCCTATATTTTA
1 TATTTATCCTATATTTTA
64063 T
1 T
64064 GTTTTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 4 0.24
18 6 0.35
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.66
Consensus pattern (18 bp):
TATTTATCCTATATTTTA
Found at i:67277 original size:16 final size:15
Alignment explanation
Indices: 67258--67307 Score: 59
Period size: 16 Copynumber: 3.3 Consensus size: 15
67248 GCGAAAATCA
67258 AAAAAAGAAAAGAAGC
1 AAAAAAGAAAAGAA-C
67274 AAAAAAGAAGAA-AAC
1 AAAAAAGAA-AAGAAC
*
67289 AAAAAA-TAAAGAAC
1 AAAAAAGAAAAGAAC
67303 AAAAA
1 AAAAA
67308 TTAAAAAGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
13 2 0.06
14 9 0.29
15 7 0.23
16 11 0.35
17 2 0.06
ACGTcount: A:0.80, C:0.06, G:0.12, T:0.02
Consensus pattern (15 bp):
AAAAAAGAAAAGAAC
Found at i:67959 original size:22 final size:22
Alignment explanation
Indices: 67934--67982 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
67924 CCATCAATCT
* *
67934 TTTGAGCATCCAATGTCAAACC
1 TTTGAGCATCAAATGCCAAACC
67956 TTTGAGCATCAAATGCCAAACC
1 TTTGAGCATCAAATGCCAAACC
67978 TTTGA
1 TTTGA
67983 CCAAACACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (22 bp):
TTTGAGCATCAAATGCCAAACC
Found at i:68420 original size:18 final size:18
Alignment explanation
Indices: 68397--68432 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
68387 TCAACATCAA
* *
68397 ATATTGGGGCATTTTTGG
1 ATATTGAGGCATCTTTGG
68415 ATATTGAGGCATCTTTGG
1 ATATTGAGGCATCTTTGG
68433 GGATTCAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.08, G:0.31, T:0.42
Consensus pattern (18 bp):
ATATTGAGGCATCTTTGG
Found at i:68900 original size:36 final size:35
Alignment explanation
Indices: 68866--69193 Score: 215
Period size: 36 Copynumber: 9.3 Consensus size: 35
68856 GATTGTTTTT
* * *
68866 CTTAAAACAAGATTTGTCTCGCTTGAGACCGTTTTCA
1 CTTAAAACAA-ATTTGTCTCTCTTGAGACAG-TTTCC
* * **
68903 C-TAGAAGAGTTTTGTCTCTCTTGAGACAGTTTCC
1 CTTAAAACAAATTTGTCTCTCTTGAGACAGTTTCC
* *
68937 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCT
1 CTTAAAACAAA-TTTGTCTCTCTTGAGACAGTTTCC
* *
68973 CTTGAAACAAATTTCGTCTATCTTGAGACAGTTTCC
1 CTTAAAACAAATTT-GTCTCTCTTGAGACAGTTTCC
* *
69009 CTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCC
1 CTTAAAACAAA-TTTGTCTCTCTTGAGACAGTTTCC
* * * *
69045 CTTAAAACAAA-----ATAT-TTGA-ATATGTTTTC
1 CTTAAAACAAATTTGTCTCTCTTGAGACA-GTTTCC
* * * * *
69074 TTTGAAACAAATTCCGTCTCCCTTGAGACAGTTTCT
1 CTTAAAACAAATT-TGTCTCTCTTGAGACAGTTTCC
* ** *
69110 TTTGGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCTC
1 CTTAAAAC-AA-ATTTGTCTCTCTTGAGACAGTTTC-C
* * * *
69148 C-TGAAACAATTTTCGTCTATCTGGAGACAGTTTCC
1 CTTAAAACAAATTT-GTCTCTCTTGAGACAGTTTCC
*
69183 CTTGAAACAAA
1 CTTAAAACAAA
69194 ACCTTTGAAT
Statistics
Matches: 232, Mismatches: 41, Indels: 37
0.75 0.13 0.12
Matches are distributed among these distances:
28 2 0.01
29 18 0.08
30 2 0.01
34 5 0.02
35 31 0.13
36 140 0.60
37 32 0.14
38 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (35 bp):
CTTAAAACAAATTTGTCTCTCTTGAGACAGTTTCC
Found at i:69014 original size:72 final size:71
Alignment explanation
Indices: 68913--69193 Score: 283
Period size: 72 Copynumber: 4.0 Consensus size: 71
68903 CTAGAAGAGT
* *
68913 TTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGA
1 TTTGTCTATCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGA
68978 AACAAA
66 AACAAA
* *
68984 TTTCGTCTATCTTGAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTA
1 TTT-GTCTATCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
69049 AAACAAA
65 AAACAAA
* * * * ** * **
69056 -----ATAT-TTGA-ATATGTTTTCTTTGAAACAAATTCCGTCTCCCTTGAGACAGTTTCTTTTG
1 TTTGTCTATCTTGAGACA-GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
* *
69114 GAACTAAGT
65 AAAC-AA-A
* * *
69123 TTTGTCTCTCTTGAGACAGTTTCTCC-TGAAAC-AATTTTCGTCTATCTGGAGACAGTTTCCCTT
1 TTTGTCTATCTTGAGACAGTTTC-CCTTGAAACAAATTTT-GTCTCTCTTGAGACAGTTTCCCTT
69186 GAAACAAA
64 GAAACAAA
69194 ACCTTTGAAT
Statistics
Matches: 166, Mismatches: 31, Indels: 26
0.74 0.14 0.12
Matches are distributed among these distances:
64 2 0.01
65 44 0.27
66 5 0.03
71 3 0.02
72 72 0.43
73 37 0.22
74 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.39
Consensus pattern (71 bp):
TTTGTCTATCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGA
AACAAA
Found at i:69191 original size:138 final size:137
Alignment explanation
Indices: 68932--69256 Score: 420
Period size: 138 Copynumber: 2.4 Consensus size: 137
68922 CTTGAGACAG
*
68932 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCTT
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCTT
* * *
68997 GAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTAAAACAAAATATTT
66 GAGACAGTTTCCCTTGAAATAAATTTTGTCTATCTGGAGACAGTTTCCCTTAAAACAAAACATTT
*
69062 GAATATG
131 GAATATA
* * ** * * * * *
69069 TTTTCTTTGAAACAAATTCCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCT
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAC-AAATTTCGTCTATCT
* * *
69134 TGAGACAGTTTCTCC-TGAAA-CAATTTTCGTCTATCTGGAGACAGTTTCCCTTGAAACAAAACC
65 TGAGACAGTTTC-CCTTGAAATAAATTTT-GTCTATCTGGAGACAGTTTCCCTTAAAACAAAACA
*
69197 TTTGAATTTA
128 TTTGAATATA
* * *
69207 TTTCCCCTAAAACAAATTTTGTCTCCCTTGAGACAGTTACTCTTGAAACA
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
69257 CAAAATCTTC
Statistics
Matches: 158, Mismatches: 27, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
137 49 0.31
138 107 0.68
139 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.38
Consensus pattern (137 bp):
TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCTT
GAGACAGTTTCCCTTGAAATAAATTTTGTCTATCTGGAGACAGTTTCCCTTAAAACAAAACATTT
GAATATA
Found at i:69286 original size:67 final size:67
Alignment explanation
Indices: 69171--69323 Score: 195
Period size: 67 Copynumber: 2.3 Consensus size: 67
69161 CGTCTATCTG
* ** *
69171 GAGACAGTTTCCCTTG-AA-ACAAAACCTTTGAATTTATTTCCCCTAAAACA-AATTTTGTCTCC
1 GAGACAGTTTCTCTTGAAACACAAAACCTTCAAATTTATTTCCCCTAAAACATAATTTTAT-TCC
69233 CTT
65 CTT
* * *
69236 GAGACAGTTACTCTTGAAACACAAAATCTTCAAATTTATTTCCCTTAAAACATAATTTTATTCCC
1 GAGACAGTTTCTCTTGAAACACAAAACCTTCAAATTTATTTCCCCTAAAACATAATTTTATTCCC
69301 TT
66 TT
* *
69303 GAGACCGTTTCTCATGAAACA
1 GAGACAGTTTCTCTTGAAACA
69324 ACAGATATCT
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
65 14 0.19
66 2 0.03
67 52 0.69
68 7 0.09
ACGTcount: A:0.33, C:0.23, G:0.09, T:0.35
Consensus pattern (67 bp):
GAGACAGTTTCTCTTGAAACACAAAACCTTCAAATTTATTTCCCCTAAAACATAATTTTATTCCC
TT
Found at i:70147 original size:105 final size:105
Alignment explanation
Indices: 69967--70588 Score: 905
Period size: 105 Copynumber: 6.0 Consensus size: 105
69957 GCACTCGAGG
* * * * *
69967 CAACACAAGTTCAACTCCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCTCAATTTCAG
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCTCAATTTCAG
*
70032 AGCCAATTTCAACTTCACAACGAAGGATATTTGACTCCAGA
65 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
*
70073 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCCTGTCAACAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
*
70138 GCCAATTTCAACTTCACAACGAAGGATATTGGACTTCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* *
70178 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
*
70243 GCCAATTTCAACTTCACAATGAAGGATATTGGACTCCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* * *
70283 CAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
70348 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* *
70388 CAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAA-AA-TT-T-TA-TTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
** * *
70448 TTCAATTTTAACTTCACAACGAAGGATATTGGACTCGAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* * * * * ***
70488 CAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTC-CCGGTTCTA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCTCAATTTC-A
* *
70552 GAGCCAATTTCAACTTCACGACGGAGGATATTGGACT
64 GAGCCAATTTCAACTTCACAACGAAGGATATTGGACT
70589 TGGAACAATG
Statistics
Matches: 475, Mismatches: 34, Indels: 14
0.91 0.07 0.03
Matches are distributed among these distances:
100 81 0.17
101 3 0.01
102 2 0.00
103 4 0.01
104 2 0.00
105 311 0.65
106 72 0.15
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.23
Consensus pattern (105 bp):
CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
Found at i:71180 original size:34 final size:34
Alignment explanation
Indices: 71137--71206 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
71127 TTCGTCCTAC
71137 TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
1 TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
* *
71171 TAGGATTCAAACTCCTAAAGATATGATAGAATTT
1 TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
71205 TA
1 TA
71207 CTAGGATTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.31
Consensus pattern (34 bp):
TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
Found at i:71660 original size:32 final size:31
Alignment explanation
Indices: 71594--71722 Score: 91
Period size: 34 Copynumber: 3.9 Consensus size: 31
71584 TTTTTCCTAC
* * *
71594 TTTATT-ATTCTTGTTATATATGCATATTACTT
1 TTTATTAATT-TTATTATATATGTATA-TATTT
71626 TTTATTAATTTTATTATATATGTATATATGTTTT
1 TTTATTAATTTTATTATATATGTATATA---TTT
* * *
71660 TTTATTAGTGTTATTATATATATATATATTT
1 TTTATTAATTTTATTATATATGTATATATTT
* *
71691 ATTTA-TATATTTCCTATTTTGTATGTATATAT
1 -TTTATTA-ATTT--TATTATATATGTATATAT
71723 ACGTATATTA
Statistics
Matches: 78, Mismatches: 11, Indels: 14
0.76 0.11 0.14
Matches are distributed among these distances:
31 7 0.09
32 26 0.33
33 3 0.04
34 42 0.54
ACGTcount: A:0.29, C:0.04, G:0.06, T:0.61
Consensus pattern (31 bp):
TTTATTAATTTTATTATATATGTATATATTT
Found at i:71662 original size:34 final size:34
Alignment explanation
Indices: 71624--71688 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
71614 TGCATATTAC
* *
71624 TTTTTATTAATTTTATTATATATGTATATATGTT
1 TTTTTATTAATGTTATTATATATATATATATGTT
*
71658 TTTTTATTAGTGTTATTATATATATATATAT
1 TTTTTATTAATGTTATTATATATATATATAT
71689 TTATTTATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (34 bp):
TTTTTATTAATGTTATTATATATATATATATGTT
Found at i:71830 original size:16 final size:18
Alignment explanation
Indices: 71809--71843 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
71799 TTTACTCATT
71809 TATTTAT-CTAT-TTTTA
1 TATTTATCCTATATTTTA
71825 TATTTATCCTATATTTTA
1 TATTTATCCTATATTTTA
71843 T
1 T
71844 GTTTTATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 4 0.24
18 6 0.35
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.66
Consensus pattern (18 bp):
TATTTATCCTATATTTTA
Found at i:77941 original size:16 final size:16
Alignment explanation
Indices: 77916--77951 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
77906 GGTTATAATC
* *
77916 TTTAATTGTTGTATAA
1 TTTAAATGTTGAATAA
77932 TTTAAATGTTGAATAA
1 TTTAAATGTTGAATAA
77948 TTTA
1 TTTA
77952 TAAGTTTTAT
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:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (16 bp):
TTTAAATGTTGAATAA
Found at i:78660 original size:30 final size:31
Alignment explanation
Indices: 78611--78670 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
78601 TAATTGAACC
* * *
78611 CCTCTCATAATTTGGAAAAATTTTCATTAGG
1 CCTCTCATAATTTGAAAAAAATTTAATTAGG
*
78642 CCTCTCA-AATTTTAAAAAAATTTAATTAG
1 CCTCTCATAATTTGAAAAAAATTTAATTAG
78671 ACACAACTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 18 0.72
31 7 0.28
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (31 bp):
CCTCTCATAATTTGAAAAAAATTTAATTAGG
Found at i:78875 original size:17 final size:15
Alignment explanation
Indices: 78846--78880 Score: 52
Period size: 17 Copynumber: 2.2 Consensus size: 15
78836 TATTATATTT
78846 ATAAAAAACTTAAAA
1 ATAAAAAACTTAAAA
78861 ATAATAAAACATTAAAA
1 ATAA-AAAAC-TTAAAA
78878 ATA
1 ATA
78881 TTCAAAACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.22
16 5 0.28
17 9 0.50
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (15 bp):
ATAAAAAACTTAAAA
Found at i:79220 original size:17 final size:17
Alignment explanation
Indices: 79185--79220 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
79175 TGTATTAGGG
* *
79185 TTAGGGATTTAGGATTT
1 TTAGGGATTTAAGACTT
79202 TTAGGGATTTAAGACTT
1 TTAGGGATTTAAGACTT
79219 TT
1 TT
79221 TTTATAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.25, C:0.03, G:0.25, T:0.47
Consensus pattern (17 bp):
TTAGGGATTTAAGACTT
Found at i:79460 original size:237 final size:237
Alignment explanation
Indices: 79009--79480 Score: 687
Period size: 237 Copynumber: 2.0 Consensus size: 237
78999 GAACAGGAGT
* *
79009 CAATCAAAGGTCAATCGACGTGTGTACCCTGACGAACCTCGACACTACAAATCGCGACCCCCAAG
1 CAATCAAAGGCCAATCGACGTGTGTACCCTGACGAACCTCGACACTACAAATCGCGACCACCAAG
* * ** * * * *
79074 CGATCCCGAAGTCAATTGTCGATAAGGTTGATGACGTCTAACTAGGAAGATGGCAAGGACAACGT
66 CAATCCCGAAGTCAATCGAAGACAAGGTTAACGACGTCTAACTAGGAAGATGGAAAGGACAACGT
** *
79139 CGGCGCCATGGTCACAACCGAAAAAGATAACATCGATGTATTAGGGTTAGGGATTTAGGATTTTT
131 CGGCGCCATGGTCACAACCGAAAAAGATAACATCGACATATTAGGGTTAGGAATTTAGGATTTTT
79204 AGGGATTTAAGACTTTTTTTATAATTTAAGAGAAATTATGAC
196 AGGGATTTAAGACTTTTTTTATAATTTAAGAGAAATTATGAC
* * * **
79246 CAATCAAAGGCCAATTGACGTGTGTACCCTGATGAACCTCGACACTACAAATCGCGA-TATTAAG
1 CAATCAAAGGCCAATCGACGTGTGTACCCTGACGAACCTCGACACTACAAATCGCGACCACCAAG
* *
79310 CAATCTCGAAGGTCAATCGAAGACAAGGTTAACGACGTCTAACTAGGAAGATGGAAAGGACGACG
66 CAATCCCGAA-GTCAATCGAAGACAAGGTTAACGACGTCTAACTAGGAAGATGGAAAGGACAACG
* * * *
79375 TCGGCGACCATGGTCGCTACTGAAAAGGATAACATCGACATATTAGGGTTAGGAATTTAGGATTT
130 TCGGCG-CCATGGTCACAACCGAAAAAGATAACATCGACATATTAGGGTTAGGAATTTAGGATTT
*
79440 TTAGGGATTTGAGA-TTTTTTTATAATTTAAGAGAAATTATG
194 TTAGGGATTTAAGACTTTTTTTATAATTTAAGAGAAATTATG
79481 GTTATTTTTT
Statistics
Matches: 208, Mismatches: 25, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
236 11 0.05
237 133 0.64
238 64 0.31
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (237 bp):
CAATCAAAGGCCAATCGACGTGTGTACCCTGACGAACCTCGACACTACAAATCGCGACCACCAAG
CAATCCCGAAGTCAATCGAAGACAAGGTTAACGACGTCTAACTAGGAAGATGGAAAGGACAACGT
CGGCGCCATGGTCACAACCGAAAAAGATAACATCGACATATTAGGGTTAGGAATTTAGGATTTTT
AGGGATTTAAGACTTTTTTTATAATTTAAGAGAAATTATGAC
Found at i:82079 original size:22 final size:22
Alignment explanation
Indices: 82051--82128 Score: 93
Period size: 22 Copynumber: 3.5 Consensus size: 22
82041 GACATGTGAA
* *
82051 ATGTGTCTCGAAGGACCTATGC
1 ATGTGTCCCGAAAGACCTATGC
*
82073 ATGTGTCCCGAATGACCTATGC
1 ATGTGTCCCGAAAGACCTATGC
* *
82095 ATATGTCCCGAAAGACCTATCC
1 ATGTGTCCCGAAAGACCTATGC
* *
82117 ATATGTTCCGAA
1 ATGTGTCCCGAA
82129 GAACATAGGT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.27
Consensus pattern (22 bp):
ATGTGTCCCGAAAGACCTATGC
Found at i:82148 original size:30 final size:30
Alignment explanation
Indices: 82109--82169 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
82099 GTCCCGAAAG
*
82109 ACCTATCCATATGTTCCGAAGAACATAGGT
1 ACCTATCCATATGTCCCGAAGAACATAGGT
* *
82139 ACCTGTCCATATGTCCCGAAGGACATAGGT
1 ACCTATCCATATGTCCCGAAGAACATAGGT
82169 A
1 A
82170 ACCCTTGACT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.25
Consensus pattern (30 bp):
ACCTATCCATATGTCCCGAAGAACATAGGT
Found at i:83961 original size:31 final size:31
Alignment explanation
Indices: 83923--83981 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
83913 TGGTGACCAC
*
83923 ATCTTAATTAAATAAAAATGAAAGTGATCAT
1 ATCTTAATTAAATAAAAACGAAAGTGATCAT
* *
83954 ATCTTAATTAACTAAAAACGGAAGTGAT
1 ATCTTAATTAAATAAAAACGAAAGTGAT
83982 TGTATATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.49, C:0.08, G:0.12, T:0.31
Consensus pattern (31 bp):
ATCTTAATTAAATAAAAACGAAAGTGATCAT
Found at i:84256 original size:69 final size:69
Alignment explanation
Indices: 84145--84288 Score: 288
Period size: 69 Copynumber: 2.1 Consensus size: 69
84135 ATTAAAAGAA
84145 TTTGTTATCTCCTTAATATCTTCTTTACAATGTTATGAAACTATTATTTTTTAATTTTCATTTAA
1 TTTGTTATCTCCTTAATATCTTCTTTACAATGTTATGAAACTATTATTTTTTAATTTTCATTTAA
84210 TATT
66 TATT
84214 TTTGTTATCTCCTTAATATCTTCTTTACAATGTTATGAAACTATTATTTTTTAATTTTCATTTAA
1 TTTGTTATCTCCTTAATATCTTCTTTACAATGTTATGAAACTATTATTTTTTAATTTTCATTTAA
84279 TATT
66 TATT
84283 TTTGTT
1 TTTGTT
84289 CAAACAACTT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 75 1.00
ACGTcount: A:0.26, C:0.11, G:0.05, T:0.58
Consensus pattern (69 bp):
TTTGTTATCTCCTTAATATCTTCTTTACAATGTTATGAAACTATTATTTTTTAATTTTCATTTAA
TATT
Found at i:85341 original size:24 final size:24
Alignment explanation
Indices: 85314--85414 Score: 159
Period size: 24 Copynumber: 4.2 Consensus size: 24
85304 GAAGTGCCAT
85314 GTAGAATTTGTCCCGAAGGACCGC
1 GTAGAATTTGTCCCGAAGGACCGC
*
85338 GTAGAATTTGTCCCGAAGGACAGC
1 GTAGAATTTGTCCCGAAGGACCGC
*
85362 GTAGAATTTGTCCCGAAGGACCAC
1 GTAGAATTTGTCCCGAAGGACCGC
* *
85386 ATAGAA-TTGTCCCGAATGACCGC
1 GTAGAATTTGTCCCGAAGGACCGC
85409 GTAGAA
1 GTAGAA
85415 CCCTCGACTC
Statistics
Matches: 70, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
23 20 0.29
24 50 0.71
ACGTcount: A:0.30, C:0.23, G:0.27, T:0.21
Consensus pattern (24 bp):
GTAGAATTTGTCCCGAAGGACCGC
Found at i:89795 original size:3 final size:3
Alignment explanation
Indices: 89787--89828 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
89777 ACTTGTAATT
* * *
89787 TAA TAA TAA GAA TAA TAA TAG TAA TAA TAA TTA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
89829 CAAAAATAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:90391 original size:127 final size:126
Alignment explanation
Indices: 90030--90408 Score: 533
Period size: 126 Copynumber: 3.0 Consensus size: 126
90020 GTCTTCTAAG
* * *
90030 GGTGACACGGGC-C-TACGTGATGAGGAAATCTGGTCAGGAGATGACACTGCTCATACGTGATGA
1 GGTGACAC-GGCTCATACGTGATGA-GAGATCTGGTC-GGGGATGACACGGCTCATACGTGATGA
* *
90093 AG-GTTCTAGCC-TCTTTAGGAATGGTGATAACTCGGTTCCTACGTGATGAGGACGGCTGG-TAT
63 AGAGTTCTGGCCATC--TA--AA-GGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTAT
90155 CTAT
123 CTAT
90159 GGTGACACGGCTCATACGTGATGAAGAGATCTGGTCGGGGAATGACACGGCTCATACGTGATGAA
1 GGTGACACGGCTCATACGTGATG-AGAGATCTGGTCGGGG-ATGACACGGCTCATACGTGATGAA
*
90224 GAGTTC-GGCCAT-TAAAGGTGATAACACGGTTCCTAGGTGATGAGGACGGCTGGTTATCTAT
64 GAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTAT
90285 GGTTGACACGGCTCATACGTGATGAGAGATCTGGTCTGGGGATGACACGGCTCATACGTGATGAA
1 GG-TGACACGGCTCATACGTGATGAGAGATCTGGTC-GGGGATGACACGGCTCATACGTGATGAA
90350 GAGTTCTGGCCATCTAAAGG-GATAACACGGTTCCTACGTGATGAGGACGG-TGGTTATCT
64 GAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCT
90409 CTAGGGATAA
Statistics
Matches: 232, Mismatches: 7, Indels: 25
0.88 0.03 0.09
Matches are distributed among these distances:
125 35 0.15
126 62 0.27
127 60 0.26
128 11 0.05
129 12 0.05
130 46 0.20
131 6 0.03
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (126 bp):
GGTGACACGGCTCATACGTGATGAGAGATCTGGTCGGGGATGACACGGCTCATACGTGATGAAGA
GTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTAT
Found at i:90696 original size:63 final size:62
Alignment explanation
Indices: 90587--90760 Score: 154
Period size: 63 Copynumber: 2.8 Consensus size: 62
90577 CCAAAGCAAC
* * * * * * *
90587 TGTCTCGAAAGAGACAAGATTCGTTTCAAAGGAAAC-AACCCAAAGATGGCATTTAAAGGGAAT
1 TGTCTC-AACGAGACAAAATTCATTTCAAGGGAAACGATCTCAAAGATGGC-GTTAAAGGGAAT
* ** * * * * *
90650 TGTCTTAAGCGAGACAAAATTGTTTTTAAGGGAAACGTTCTC-AAGATCAGCGTTCATGGGAAT
1 TGTCTCAA-CGAGACAAAATTCATTTCAAGGGAAACGATCTCAAAGAT-GGCGTTAAAGGGAAT
*
90713 TGTCTCAATGAGACAAAATTCATTTCAAGGGAAACGATCTCAAAGATG
1 TGTCTCAACGAGACAAAATTCATTTCAAGGGAAACGATCTCAAAGATG
90761 TTTTGTTTCA
Statistics
Matches: 86, Mismatches: 21, Indels: 9
0.74 0.18 0.08
Matches are distributed among these distances:
62 30 0.35
63 52 0.60
64 4 0.05
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (62 bp):
TGTCTCAACGAGACAAAATTCATTTCAAGGGAAACGATCTCAAAGATGGCGTTAAAGGGAAT
Found at i:90822 original size:34 final size:35
Alignment explanation
Indices: 90735--90861 Score: 194
Period size: 34 Copynumber: 3.7 Consensus size: 35
90725 ACAAAATTCA
90735 TTTCAAGGGAAAC-GATCTCAAAGA----TGTTTTG
1 TTTCAAGGGAAACAGAT-TCAAAGATGTTTGTTTTG
90766 TTTCAAGGGAAACAGATTCAAAGATGTTTGTTTTG
1 TTTCAAGGGAAACAGATTCAAAGATGTTTGTTTTG
90801 TTTCAAGGGAAA-AGATTCAAAGATGTTTGTTTTG
1 TTTCAAGGGAAACAGATTCAAAGATGTTTGTTTTG
90835 TTTCAAGGGAAAACAGATTCAAAGATG
1 TTTCAAGGG-AAACAGATTCAAAGATG
90862 GTAAATTTTG
Statistics
Matches: 89, Mismatches: 0, Indels: 9
0.91 0.00 0.09
Matches are distributed among these distances:
31 20 0.22
32 3 0.03
34 31 0.35
35 22 0.25
36 13 0.15
ACGTcount: A:0.35, C:0.09, G:0.23, T:0.33
Consensus pattern (35 bp):
TTTCAAGGGAAACAGATTCAAAGATGTTTGTTTTG
Found at i:90941 original size:31 final size:28
Alignment explanation
Indices: 90868--90941 Score: 73
Period size: 31 Copynumber: 2.6 Consensus size: 28
90858 GATGGTAAAT
*
90868 TTTGTTTCCAAAGAAACCAAATCAAAGA
1 TTTGTTTCCAAAGAAACCAAAACAAAGA
90896 -TT-TTTCTCAAAGAAACTCGAGAGAACAAA-A
1 TTTGTTTC-CAAAGAAAC-C-A-A-AACAAAGA
90926 TTTGTTTCCAAAGAAA
1 TTTGTTTCCAAAGAAA
90942 AGATTCAATT
Statistics
Matches: 38, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
26 4 0.11
27 11 0.29
28 1 0.03
29 1 0.03
30 2 0.05
31 15 0.39
32 4 0.11
ACGTcount: A:0.45, C:0.16, G:0.12, T:0.27
Consensus pattern (28 bp):
TTTGTTTCCAAAGAAACCAAAACAAAGA
Found at i:91154 original size:15 final size:16
Alignment explanation
Indices: 91129--91177 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 16
91119 AAAGATGTTC
*
91129 TTGTTTGAAGGGAAAA
1 TTGTTTCAAGGGAAAA
91145 -TGTTTCAAGGGACAAAA
1 TTGTTTCAAGGG--AAAA
91162 TTTGTTTCAAGGGAAA
1 -TTGTTTCAAGGGAAA
91178 CGACTCAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
15 10 0.36
17 7 0.25
19 11 0.39
ACGTcount: A:0.37, C:0.06, G:0.27, T:0.31
Consensus pattern (16 bp):
TTGTTTCAAGGGAAAA
Found at i:91665 original size:65 final size:66
Alignment explanation
Indices: 91557--91721 Score: 167
Period size: 65 Copynumber: 2.5 Consensus size: 66
91547 AAACTCAAAT
** *** * * **
91557 ATTCAAAGAT-TTACTTCAAAAGAAACGGTCTCAAGAGATACAAAAT-TCATTTTTAAGAGAAAC
1 ATTCAAAGATCTTGTTTCAAAAGAAATTATCTTAAGAGAGACAAAATGTCATTTCCAA-AGAAAC
*
91620 AG
65 AA
* **
91622 ATTC-AAGATTTTTGTTTC-AAAGAAATTATCTTAAGAGAGACAAAATGTTGTTTCCAAAGAAAC
1 ATTCAAAGA-TCTTGTTTCAAAAGAAATTATCTTAAGAGAGACAAAATGTCATTTCCAAAGAAAC
91685 AA
65 AA
91687 ATTCAAAGATCTTGTTTCAAAAGAAATTATCTTAA
1 ATTCAAAGATCTTGTTTCAAAAGAAATTATCTTAA
91722 AAATTTTTCA
Statistics
Matches: 82, Mismatches: 13, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
64 4 0.05
65 47 0.57
66 31 0.38
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.31
Consensus pattern (66 bp):
ATTCAAAGATCTTGTTTCAAAAGAAATTATCTTAAGAGAGACAAAATGTCATTTCCAAAGAAACA
A
Found at i:91941 original size:56 final size:55
Alignment explanation
Indices: 91835--91957 Score: 180
Period size: 56 Copynumber: 2.2 Consensus size: 55
91825 AAATAAATAG
91835 ACTCAAAGA-TTTTTTCAAAGAAACAACTCAAAGATTTTTATTCAAAAGGAACAA
1 ACTCAAAGATTTTTTTCAAAGAAACAACTCAAAGATTTTTATTCAAAAGGAACAA
* *
91889 ACTCAAAGATTTTTATTCAAAAGGAACAAACTCAAAGA-TTTT-TTCAAGAGGAACAA
1 ACTCAAAGATTTTT-TTC-AAAGAAAC-AACTCAAAGATTTTTATTCAAAAGGAACAA
91945 ACTCAAAGATTTT
1 ACTCAAAGATTTT
91958 CCTCAAAAGA
Statistics
Matches: 63, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
54 9 0.14
55 4 0.06
56 29 0.46
57 11 0.17
58 10 0.16
ACGTcount: A:0.46, C:0.15, G:0.11, T:0.28
Consensus pattern (55 bp):
ACTCAAAGATTTTTTTCAAAGAAACAACTCAAAGATTTTTATTCAAAAGGAACAA
Found at i:91942 original size:27 final size:28
Alignment explanation
Indices: 91835--91966 Score: 182
Period size: 29 Copynumber: 4.8 Consensus size: 28
91825 AAATAAATAG
*
91835 ACTCAAAGATTTT-TTC-AAAGAAAC-A
1 ACTCAAAGATTTTATTCAAAAGGAACAA
91860 ACTCAAAGATTTTTATTCAAAAGGAACAA
1 ACTCAAAGA-TTTTATTCAAAAGGAACAA
91889 ACTCAAAGATTTTTATTCAAAAGGAACAA
1 ACTCAAAGA-TTTTATTCAAAAGGAACAA
*
91918 ACTCAAAGATTTT-TTCAAGAGGAACAA
1 ACTCAAAGATTTTATTCAAAAGGAACAA
**
91945 ACTCAAAGATTTTCCTCAAAAG
1 ACTCAAAGATTTTATTCAAAAG
91967 AAATTGTCTT
Statistics
Matches: 98, Mismatches: 4, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
25 9 0.09
26 4 0.04
27 29 0.30
28 17 0.17
29 39 0.40
ACGTcount: A:0.46, C:0.16, G:0.11, T:0.27
Consensus pattern (28 bp):
ACTCAAAGATTTTATTCAAAAGGAACAA
Found at i:92288 original size:37 final size:35
Alignment explanation
Indices: 92204--92300 Score: 97
Period size: 37 Copynumber: 2.7 Consensus size: 35
92194 AGACAATGAC
* ** *
92204 GTCTCAAGCGAGACAAA-ATTTGCTTTAAGATATA
1 GTCTCAAGCGAGACAAAGTTTTTTTTTAAGAAATA
** *
92238 GTCTCAAATGAGACAAATGTTTTTTTTTAGAGAAATT
1 GTCTCAAGCGAGACAAA-GTTTTTTTTTA-AGAAATA
*
92275 GTCTCAAGCGAGACAAAGTTTGTTTT
1 GTCTCAAGCGAGACAAAGTTTTTTTT
92301 GAGAAAACGA
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
34 15 0.30
36 15 0.30
37 20 0.40
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.35
Consensus pattern (35 bp):
GTCTCAAGCGAGACAAAGTTTTTTTTTAAGAAATA
Found at i:92396 original size:99 final size:100
Alignment explanation
Indices: 92275--92499 Score: 246
Period size: 99 Copynumber: 2.3 Consensus size: 100
92265 TAGAGAAATT
* *
92275 GTCTCAAGCGAGACAAAGTTTGTTTTG-AG-AA-AACGATCTCAAGTGAGATCAACTTTGTTTAA
1 GTCTCAAGCGAGACAAAATTTGTTTTGAAGAAACAACAATCT-AAG-GAGATCAACTTTGTTTAA
* *
92337 TGTGAAACAAA-TCTAAATTTGGATCTCAAAGGGAAAGG
64 -GTGAAACAAATTC-AAATTTGGATCTCAAAGGAAAAAG
* * * *
92375 GTCTC-AGCGAGACAAAATTTG-TTTGAAAGAAACAACAATCTAAGGTGATTAATTTTGTTTTAG
1 GTCTCAAGCGAGACAAAATTTGTTTTG-AAGAAACAACAATCTAAGGAGATCAACTTTGTTTAAG
* * *
92438 TGAATCAAATTCAAATTTGTATCTCAAAGGAAAAAT
65 TGAAACAAATTCAAATTTGGATCTCAAAGGAAAAAG
**
92474 GTCTCAAGCGAGACGCAATTTGTTTT
1 GTCTCAAGCGAGACAAAATTTGTTTT
92500 AAATTCTCAA
Statistics
Matches: 105, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
98 4 0.04
99 49 0.47
100 37 0.35
101 8 0.08
102 7 0.07
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.31
Consensus pattern (100 bp):
GTCTCAAGCGAGACAAAATTTGTTTTGAAGAAACAACAATCTAAGGAGATCAACTTTGTTTAAGT
GAAACAAATTCAAATTTGGATCTCAAAGGAAAAAG
Found at i:92951 original size:4 final size:4
Alignment explanation
Indices: 92942--93065 Score: 225
Period size: 4 Copynumber: 31.5 Consensus size: 4
92932 TTTATGTATC
92942 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG- ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
92989 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG- ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
93036 ATGT ATGT ATGT ATGT GTGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
93066 ATACTTCTCG
Statistics
Matches: 116, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
3 6 0.05
4 110 0.95
ACGTcount: A:0.25, C:0.00, G:0.26, T:0.49
Consensus pattern (4 bp):
ATGT
Found at i:92985 original size:39 final size:40
Alignment explanation
Indices: 92942--93065 Score: 225
Period size: 39 Copynumber: 3.1 Consensus size: 40
92932 TTTATGTATC
92942 ATGTATGTATGTATGTATGTATGTATGTATGTATGTATG-
1 ATGTATGTATGTATGTATGTATGTATGTATGTATGTATGT
92981 ATGTATGTATGTATGTATGTATGTATGTATGTATGTATGT
1 ATGTATGTATGTATGTATGTATGTATGTATGTATGTATGT
*
93021 ATGTATGTATG-ATGTATGTATGTATGTATGTGTGTATGT
1 ATGTATGTATGTATGTATGTATGTATGTATGTATGTATGT
93060 ATGTAT
1 ATGTAT
93066 ATACTTCTCG
Statistics
Matches: 83, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
39 72 0.87
40 11 0.13
ACGTcount: A:0.25, C:0.00, G:0.26, T:0.49
Consensus pattern (40 bp):
ATGTATGTATGTATGTATGTATGTATGTATGTATGTATGT
Found at i:94217 original size:17 final size:17
Alignment explanation
Indices: 94197--94242 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
94187 TTTGTCCTCT
**
94197 TTTGTTCTTTGCTTTTC
1 TTTGTTCTTTGCTTTGA
94214 TTTGATT-TTTGCTTTGA
1 TTTG-TTCTTTGCTTTGA
94231 TTT-TTCTTTGCT
1 TTTGTTCTTTGCT
94243 CTTTGCTCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
15 2 0.08
16 6 0.24
17 15 0.60
18 2 0.08
ACGTcount: A:0.04, C:0.13, G:0.13, T:0.70
Consensus pattern (17 bp):
TTTGTTCTTTGCTTTGA
Found at i:94222 original size:23 final size:23
Alignment explanation
Indices: 94203--94249 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
94193 CTCTTTTGTT
94203 CTTTG-CTTTTCTTTGATTTTTG
1 CTTTGACTTTTCTTTGATTTTTG
* * *
94225 CTTTGATTTTTCTTTGCTCTTTG
1 CTTTGACTTTTCTTTGATTTTTG
94248 CT
1 CT
94250 CTTCTTTTCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.04, C:0.17, G:0.13, T:0.66
Consensus pattern (23 bp):
CTTTGACTTTTCTTTGATTTTTG
Found at i:94230 original size:12 final size:11
Alignment explanation
Indices: 94209--94240 Score: 55
Period size: 12 Copynumber: 2.8 Consensus size: 11
94199 TGTTCTTTGC
94209 TTTTCTTTGAT
1 TTTTCTTTGAT
94220 TTTTGCTTTGAT
1 TTTT-CTTTGAT
94232 TTTTCTTTG
1 TTTTCTTTG
94241 CTCTTTGCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.06, C:0.09, G:0.12, T:0.72
Consensus pattern (11 bp):
TTTTCTTTGAT
Found at i:95072 original size:180 final size:176
Alignment explanation
Indices: 94774--95130 Score: 678
Period size: 180 Copynumber: 2.0 Consensus size: 176
94764 TGACTTTATT
94774 GGCTCAAAGAAGGTACGGGTATGACTTTTGTGTCTCAAAAAAAATAATACAGTGTTTCAAAGTGG
1 GGCTCAAAGAAGGTACGGGTATGACTTTTGTGTCTCAAAAAAAATAATACAGTGTTTCAAAGTGG
94839 AAAGAATGTCAAGGTCTCAAAGAGATAGAATGTCAAAAATTGGTTATTTGGTAGTGACCAGGAAT
66 AAAGAATGTCAAGGTCTCAAAGAGATAGAATGTCAAAAATTGGTTATTTGGTAGTGACCAGGAAT
94904 TATTTCGGGTAAAAATTGAGATATTTTATTTTAGGGTTTTAGACAG
131 TATTTCGGGTAAAAATTGAGATATTTTATTTTAGGGTTTTAGACAG
94950 GGCTCAAAGAAAGGTACGGGTATGACTTTTGTGTCTCAAAAAAAATAAATACAGTGTTTCAAAGT
1 GGCTCAAAG-AAGGTACGGGTATGACTTTTGTGTCTCAAAAAAAAT-AATACAGTGTTTCAAAGT
95015 GGAAAGAATGTTTCAAGGTCTCAAAGAGATAGAATGTCAAAAATTGGTTATTTGGTAGTGACCAG
64 GGAAAGAATG--TCAAGGTCTCAAAGAGATAGAATGTCAAAAATTGGTTATTTGGTAGTGACCAG
95080 GAATTATTTCGGGTAAAAATTGAGATATTTTATTTTAGGGTTTTAGACAG
127 GAATTATTTCGGGTAAAAATTGAGATATTTTATTTTAGGGTTTTAGACAG
95130 G
1 G
95131 ATAAAATAGG
Statistics
Matches: 177, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
176 9 0.05
177 36 0.20
178 28 0.16
180 104 0.59
ACGTcount: A:0.36, C:0.09, G:0.24, T:0.31
Consensus pattern (176 bp):
GGCTCAAAGAAGGTACGGGTATGACTTTTGTGTCTCAAAAAAAATAATACAGTGTTTCAAAGTGG
AAAGAATGTCAAGGTCTCAAAGAGATAGAATGTCAAAAATTGGTTATTTGGTAGTGACCAGGAAT
TATTTCGGGTAAAAATTGAGATATTTTATTTTAGGGTTTTAGACAG
Found at i:97536 original size:31 final size:32
Alignment explanation
Indices: 97480--97541 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
97470 TGACAAAATG
97480 ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
1 ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
97512 ACACAAACAAAAGAGAA-AAATAAGTTAGTA
1 ACACAAACAAAAGAGAAGAAATAAGTTAGTA
97542 CATGTAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.61, C:0.10, G:0.15, T:0.15
Consensus pattern (32 bp):
ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
Found at i:97700 original size:19 final size:21
Alignment explanation
Indices: 97666--97706 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
97656 CTATCTACCC
97666 AAAATGATCTATTTTCA-AGA
1 AAAATGATCTATTTTCAGAGA
97686 AAAATGATCTA-TTTCAGAGA
1 AAAATGATCTATTTTCAGAGA
97706 A
1 A
97707 TTGGTCCAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.32
Consensus pattern (21 bp):
AAAATGATCTATTTTCAGAGA
Found at i:100981 original size:3 final size:3
Alignment explanation
Indices: 100973--101019 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
100963 ACTTGTAATT
* * *
100973 TAA TAA TAA GAA TAA TAA -AA TAA TAG TAA TAA TAA TTA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
101020 CAAAAATAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:100994 original size:17 final size:17
Alignment explanation
Indices: 100974--101007 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
100964 CTTGTAATTT
100974 AATAATAAG-AATAATAA
1 AATAAT-AGTAATAATAA
100991 AATAATAGTAATAATAA
1 AATAATAGTAATAATAA
101008 TTATAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 14 0.88
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (17 bp):
AATAATAGTAATAATAA
Found at i:101863 original size:23 final size:25
Alignment explanation
Indices: 101808--101863 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 25
101798 TTAATTTATC
*
101808 TTATTTAATTTTAAATTTAATCAAA
1 TTATTTTATTTTAAATTTAATCAAA
* * *
101833 TAAATTTA-TTTAAA-TTATTCAAA
1 TTATTTTATTTTAAATTTAATCAAA
101856 TTATTTTA
1 TTATTTTA
101864 CATAGTTCAA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
23 14 0.56
24 6 0.24
25 5 0.20
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.54
Consensus pattern (25 bp):
TTATTTTATTTTAAATTTAATCAAA
Found at i:108991 original size:59 final size:59
Alignment explanation
Indices: 108919--109031 Score: 208
Period size: 59 Copynumber: 1.9 Consensus size: 59
108909 CCCTTGCATC
108919 ACTTGGGTTAGAGTGGAATTGGTAAGTGTTAGATTTTGGAATTTTACCAATATGGTCTG
1 ACTTGGGTTAGAGTGGAATTGGTAAGTGTTAGATTTTGGAATTTTACCAATATGGTCTG
* *
108978 ACTTGGGTTAGAGTGGAATTGGTAAGTGTTTGATTTTGGAATTTTACGAATATG
1 ACTTGGGTTAGAGTGGAATTGGTAAGTGTTAGATTTTGGAATTTTACCAATATG
109032 AGCTGATGTA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
59 52 1.00
ACGTcount: A:0.26, C:0.05, G:0.29, T:0.40
Consensus pattern (59 bp):
ACTTGGGTTAGAGTGGAATTGGTAAGTGTTAGATTTTGGAATTTTACCAATATGGTCTG
Found at i:109359 original size:42 final size:42
Alignment explanation
Indices: 109297--109377 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
109287 AACCATTGTA
** * * *
109297 TAAAGAACAACTCATTCAACGTTTGCCTTTCATGGAATATAC
1 TAAAGAACAACTCACCCAACGTATGCCTTCCATAGAATATAC
109339 TAAAGAACAACTCACCCAACGTATGCCTTCCATAGAATA
1 TAAAGAACAACTCACCCAACGTATGCCTTCCATAGAATA
109378 CATGCCGTGT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.38, C:0.25, G:0.11, T:0.26
Consensus pattern (42 bp):
TAAAGAACAACTCACCCAACGTATGCCTTCCATAGAATATAC
Found at i:113661 original size:138 final size:135
Alignment explanation
Indices: 113402--113677 Score: 396
Period size: 138 Copynumber: 2.0 Consensus size: 135
113392 AGAAGCACAG
*
113402 ATGAATCTCAACACACATTTATTTATCCCAGATTTTGATTGAACATAAAGCATGTGTGGATACTC
1 ATGAATCTCAACACACATTTATTCATCCCAGATTTTGATTGAACATAAAGCATGTGTGGATACTC
*
113467 AACAAAGAAAGATACAAAATGATTATTCAGCAAAACCAAAAGATATGTGCATA-TTTTACCAATT
66 AACAAAGAAAGATACAAAATGATTATTCAGCAAAACAAAAAGATATGT-CATATTTTTACCAATT
113531 CAACAT
130 CAACAT
* * *
113537 ATGAATCTCAAGACACATTTATTCATCCC-GAATTTTGATTGAACAACATGAAGCATGTGTGGGT
1 ATGAATCTCAACACACATTTATTCATCCCAG-ATTTTGATTG---AACATAAAGCATGTGTGGAT
* * *
113601 ACTCAACAAAGAAAGATACAAAATGATTATTTAGGAAAACAAAAAAGATATGT-ATAATTTTTTC
62 ACTCAACAAAGAAAGATACAAAATGATTATTCAGCAAAAC-AAAAAGATATGTCAT-ATTTTTAC
113665 CAATTCAACAT
125 CAATTCAACAT
113676 AT
1 AT
113678 TTTCCCATGG
Statistics
Matches: 126, Mismatches: 8, Indels: 10
0.88 0.06 0.07
Matches are distributed among these distances:
134 1 0.01
135 37 0.29
137 2 0.02
138 57 0.45
139 29 0.23
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (135 bp):
ATGAATCTCAACACACATTTATTCATCCCAGATTTTGATTGAACATAAAGCATGTGTGGATACTC
AACAAAGAAAGATACAAAATGATTATTCAGCAAAACAAAAAGATATGTCATATTTTTACCAATTC
AACAT
Found at i:117454 original size:18 final size:18
Alignment explanation
Indices: 117431--117483 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
117421 AGGGATTATC
*
117431 AGTGGTCCTTCGGGATAT
1 AGTGGTCCTTCGGGACAT
* *
117449 AGTGGTCTTTCGGGGCAT
1 AGTGGTCCTTCGGGACAT
117467 AGTGGTCCTTCGGGACA
1 AGTGGTCCTTCGGGACA
117484 AATATTCAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.15, C:0.19, G:0.36, T:0.30
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:121384 original size:18 final size:18
Alignment explanation
Indices: 121361--121400 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
121351 AGGGATTATC
*
121361 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGAGACAT
121379 AGTGGTCCTTCGAGACAT
1 AGTGGTCCTTCGAGACAT
121397 AGTG
1 AGTG
121401 ATCTTCAGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.20, C:0.20, G:0.33, T:0.28
Consensus pattern (18 bp):
AGTGGTCCTTCGAGACAT
Found at i:124014 original size:34 final size:34
Alignment explanation
Indices: 123970--124054 Score: 127
Period size: 34 Copynumber: 2.5 Consensus size: 34
123960 AATTAAATTT
*
123970 GACACTAATGGTGGTGTCATCGTGCCTTCCATGA
1 GACACCAATGGTGGTGTCATCGTGCCTTCCATGA
** *
124004 GACACCAATGGTGGTGTTGTCGTGCCTTCCATGT
1 GACACCAATGGTGGTGTCATCGTGCCTTCCATGA
124038 GACACCAA-GGTGGTGTC
1 GACACCAATGGTGGTGTC
124055 GCCAAGCCTT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 8 0.17
34 38 0.83
ACGTcount: A:0.19, C:0.24, G:0.29, T:0.28
Consensus pattern (34 bp):
GACACCAATGGTGGTGTCATCGTGCCTTCCATGA
Found at i:124064 original size:33 final size:34
Alignment explanation
Indices: 123970--124064 Score: 93
Period size: 34 Copynumber: 2.8 Consensus size: 34
123960 AATTAAATTT
* ** **
123970 GACACTAATGGTGGTGTCATCGTGCCTTCCATGA
1 GACACCAATGGTGGTGTCGCCAAGCCTTCCATGA
* * ** *
124004 GACACCAATGGTGGTGTTGTCGTGCCTTCCATGT
1 GACACCAATGGTGGTGTCGCCAAGCCTTCCATGA
124038 GACACCAA-GGTGGTGTCGCCAAGCCTT
1 GACACCAATGGTGGTGTCGCCAAGCCTT
124065 TCAAGCGTCT
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
33 15 0.28
34 38 0.72
ACGTcount: A:0.19, C:0.25, G:0.28, T:0.27
Consensus pattern (34 bp):
GACACCAATGGTGGTGTCGCCAAGCCTTCCATGA
Found at i:124553 original size:17 final size:17
Alignment explanation
Indices: 124531--124571 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
124521 AATTCCCATG
*
124531 TGCACAAGTTGGTC-ACT
1 TGCACAACTT-GTCAACT
124548 TGCACAACTTGTCAACT
1 TGCACAACTTGTCAACT
124565 TGC-CAAC
1 TGCACAAC
124572 CAAGGATGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (17 bp):
TGCACAACTTGTCAACT
Done.