Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006260.1 Hibiscus syriacus cultivar Beakdansim tig00014935_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: 167683
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:11138 original size:14 final size:14
Alignment explanation
Indices: 11103--11132 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
11093 GATCGAAATG
11103 AAAAAT-AAAATAA
1 AAAAATAAAAATAA
11116 AAAAATAAAAATAA
1 AAAAATAAAAATAA
11130 AAA
1 AAA
11133 TGTAAAGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (14 bp):
AAAAATAAAAATAA
Found at i:24845 original size:15 final size:15
Alignment explanation
Indices: 24825--24867 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
24815 CATCACTTGA
24825 ATGCGTAGGCTCACT
1 ATGCGTAGGCTCACT
24840 ATGCGTAGGCTCACT
1 ATGCGTAGGCTCACT
* *
24855 ATGAGTAGCCTCA
1 ATGCGTAGGCTCA
24868 AGTTGAGCAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.26
Consensus pattern (15 bp):
ATGCGTAGGCTCACT
Found at i:44174 original size:14 final size:14
Alignment explanation
Indices: 44151--44188 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
44141 TCTGTCTATA
*
44151 TGCAGAGATTT-TT
1 TGCAGGGATTTATT
44164 TCGCAGGGATTTATT
1 T-GCAGGGATTTATT
44179 TGCAGGGATT
1 TGCAGGGATT
44189 ACTTCCCATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 1 0.05
14 18 0.82
15 3 0.14
ACGTcount: A:0.21, C:0.11, G:0.29, T:0.39
Consensus pattern (14 bp):
TGCAGGGATTTATT
Found at i:44459 original size:2 final size:2
Alignment explanation
Indices: 44452--44478 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
44442 TATATCTTAT
44452 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 T
44479 TTATTTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:44714 original size:4 final size:5
Alignment explanation
Indices: 44693--44730 Score: 51
Period size: 5 Copynumber: 7.4 Consensus size: 5
44683 TATTCATATA
44693 TTATT ATTATT ATTA-T TTATT TTATT TTATT TTATT TT
1 TTATT -TTATT -TTATT TTATT TTATT TTATT TTATT TT
44731 CCACCGAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
4 3 0.10
5 19 0.61
6 9 0.29
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (5 bp):
TTATT
Found at i:44998 original size:3 final size:3
Alignment explanation
Indices: 44990--45048 Score: 50
Period size: 3 Copynumber: 19.3 Consensus size: 3
44980 ATATATTCTT
* *
44990 TTA TTA TTA CTTA TT- TTGT TTA TT- TCA TTTA TTA TTA TTA TTA TTA
1 TTA TTA TTA -TTA TTA TT-A TTA TTA TTA TT-A TTA TTA TTA TTA TTA
*
45036 TTA TTA TTT TTA T
1 TTA TTA TTA TTA T
45049 GTTTTTGTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
2 3 0.07
3 35 0.76
4 8 0.17
ACGTcount: A:0.25, C:0.03, G:0.02, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:45852 original size:21 final size:21
Alignment explanation
Indices: 45806--45853 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
45796 GATTGGACGA
*
45806 AGAGGAAAAAACAAAGAAGAT
1 AGAGGAAAAAACAAACAAGAT
* *
45827 GGAGGAAAAAATCAAACAA-TT
1 AGAGGAAAAAA-CAAACAAGAT
45848 AGAGGA
1 AGAGGA
45854 CCAAATGAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.60, C:0.06, G:0.25, T:0.08
Consensus pattern (21 bp):
AGAGGAAAAAACAAACAAGAT
Found at i:48967 original size:85 final size:85
Alignment explanation
Indices: 48821--49564 Score: 868
Period size: 85 Copynumber: 8.7 Consensus size: 85
48811 ACTGGAAGCG
* * * * *
48821 TAGCTCAAGGCGAGAAGGGATATATGTCAACCAAGACCTTCGAGTTCAATTACACTCAGCTCAAA
1 TAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAA
*
48886 GGCATATCCAATTTACAGCA
66 GGCATATCAAATTTACAGCA
* * *
48906 TAACTCAAGGCGAGAAGGGTTATCTGTCAGCAAAGACCTTTGAGTTCGATTACATTCAGCTCAAA
1 TAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAA
* * *
48971 GGCACATCCAATTTACAACA
66 GGCATATCAAATTTACAGCA
* * * * * * *
48991 TAGCTCAAGGCGAAAAGGGCTATCTGTCAGCAATGTCCTTCGAGTTCGATTACACTCAACTCAAA
1 TAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAA
* *
49056 GGCACATGAAATTTACAGCA
66 GGCATATCAAATTTACAGCA
*
49076 TAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTGT-GAGTTTGATTACATTCAGCTCAA
1 TAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCT-TCGAGTTCGATTACATTCAGCTCAA
*
49140 AGGCATATCAAATTTACAACA
65 AGGCATATCAAATTTACAGCA
* * *
49161 TAACTCAAGGCGAGAAGGGTTATATGTCAACAAAAGACCTTCGAGTTCGATTACATTCAACTCAA
1 TAGCTCAAGGCGAGAAGGGTTATCTGTCAAC-AAAGACCTTCGAGTTCGATTACATTCAGCTCAA
* * *
49226 AGGTATATCCAGTTTACAGCA
65 AGGCATATCAAATTTACAGCA
* * * * *
49247 TAGCTCAAGGCGAGAAGGGCTAGT-TGTCATCAAAGACCTTCAAGTTTGATTACACTCAGCTCAA
1 TAGCTCAAGGCGAGAAGGGTTA-TCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAA
*
49311 AGGCATATCAAATTTACAGTA
65 AGGCATATCAAATTTACAGCA
* * *
49332 TAACTCAAGGCGAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTTGATTACATTCAGCTCAA
1 TAGCTCAAGGCGAGAAGGGTTATCTGTCAAC-AAAGACCTTCGAGTTCGATTACATTCAGCTCAA
* *
49397 AGGAATATCAAATTTACTGCA
65 AGGCATATCAAATTTACAGCA
* * ** * * * *
49418 TAGCTCAAGGCAAGAATGACTATCTGTCAACCAAGACCTACGAGTTCGATTACATTCAGCTGAAG
1 TAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAA
* *
49483 GGCATAT-AATATTCATAGCA
66 GGCATATCAA-ATTTACAGCA
* ** ** * * *
49503 TAGCTTAAGTTGAGAAAAGCTATCTGTCAACAAA-AGCTATCGAGTTCTATT-CGATTCAGCTC
1 TAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCT-TCGAGTTCGATTAC-ATTCAGCTC
49565 GACGACACAT
Statistics
Matches: 564, Mismatches: 86, Indels: 18
0.84 0.13 0.03
Matches are distributed among these distances:
84 7 0.01
85 409 0.73
86 147 0.26
87 1 0.00
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (85 bp):
TAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAA
GGCATATCAAATTTACAGCA
Found at i:49103 original size:170 final size:171
Alignment explanation
Indices: 48824--49489 Score: 865
Period size: 171 Copynumber: 3.9 Consensus size: 171
48814 GGAAGCGTAG
* * *
48824 CTCAAGGCGAGAAGGGATATATGTCAACC--AAGACCTTCGAGTTCAATTACACTCAGCTCAAAG
1 CTCAAGGCGAGAAGGGTTATATGTC-ACCAAAAGACCTTCGAGTTCGATTACACTCAACTCAAAG
* * * * *
48887 GCATATCCAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAGCAAAGACCTTTGAGTT
65 GCATATCAAATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTT
* * *
48952 CGATTACATTCAGCTCAAAGGCACATCCAATTTACAACATAG
130 CGATTACATTCAGCTCAAAGGCATATCAAATTTACAACATAA
* * * * * *
48994 CTCAAGGCGAAAAGGGCTATCTGTCAGC-AATGTCCTTCGAGTTCGATTACACTCAACTCAAAGG
1 CTCAAGGCGAGAAGGGTTATATGTCACCAAAAGACCTTCGAGTTCGATTACACTCAACTCAAAGG
* * *
49058 CACATGAAATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTGT-GAGTT
66 CATATCAAATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCT-TCGAGTT
*
49122 TGATTACATTCAGCTCAAAGGCATATCAAATTTACAACATAA
130 CGATTACATTCAGCTCAAAGGCATATCAAATTTACAACATAA
* *
49164 CTCAAGGCGAGAAGGGTTATATGTCAACAAAAGACCTTCGAGTTCGATTACATTCAACTCAAAGG
1 CTCAAGGCGAGAAGGGTTATATGTCACCAAAAGACCTTCGAGTTCGATTACACTCAACTCAAAGG
* * * * *
49229 TATATCCAGTTTACAGCATAGCTCAAGGCGAGAAGGGCTAGT-TGTCATCAAAGACCTTCAAGTT
66 CATATCAAATTTACAGCATAGCTCAAGGCGAGAAGGGCTA-TCTGTCAACAAAGACCTTCGAGTT
* * **
49293 TGATTACACTCAGCTCAAAGGCATATCAAATTTACAGTATAA
130 CGATTACATTCAGCTCAAAGGCATATCAAATTTACAACATAA
* * * *
49335 CTCAAGGCGAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTTGATTACATTCAGCTCAAAGG
1 CTCAAGGCGAGAAGGGTTATATGTCACCAAAAGACCTTCGAGTTCGATTACACTCAACTCAAAGG
* * * * * * *
49400 AATATCAAATTTACTGCATAGCTCAAGGCAAGAATGACTATCTGTCAACCAAGACCTACGAGTTC
66 CATATCAAATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTC
* *
49465 GATTACATTCAGCTGAAGGGCATAT
131 GATTACATTCAGCTCAAAGGCATAT
49490 AATATTCATA
Statistics
Matches: 436, Mismatches: 54, Indels: 11
0.87 0.11 0.02
Matches are distributed among these distances:
169 2 0.00
170 174 0.40
171 259 0.59
172 1 0.00
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (171 bp):
CTCAAGGCGAGAAGGGTTATATGTCACCAAAAGACCTTCGAGTTCGATTACACTCAACTCAAAGG
CATATCAAATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTC
GATTACATTCAGCTCAAAGGCATATCAAATTTACAACATAA
Found at i:49505 original size:256 final size:254
Alignment explanation
Indices: 48824--49507 Score: 894
Period size: 256 Copynumber: 2.7 Consensus size: 254
48814 GGAAGCGTAG
* * ** *
48824 CTCAAGGCGAGAAGGGATATATGTCAACC-AAGACCTTCGAGTTCAATTACACTCAGCTCAAAGG
1 CTCAAGGCGAGAAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTTGATTACATTCAGCTCAAAGG
* * *
48888 CATATCCAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAGCAAAGACCTTTGAGTTC
65 CATATCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTC
*
48953 GATTACATTCAGCTCAAAGGCACATCCAATTTACAA-CATAGCTCAAGGCGAAAAGGGCTATCTG
130 GATTACATTCAGCTCAAAGGCATAT-CAATTT-CAAGCATAGCTCAAGGCGAAAAGGGCTATCTG
* * * * *
49017 TCAGCAATGTCCTTCGAGTTCGATTACACTCAACTCAAAGGCACATGAAATTTACAGCATAG
193 TCAGCAAAGACCTTCAAGTTCGATTACACTCAACTCAAAGGCACATCAAATTTACAGCATAA
*
49079 CTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTGT-GAGTTTGATTACATTCAGCTCAAAGG
1 CTCAAGGCGAGAAGGGTTATCTGTCACCAAAGACCT-TCGAGTTTGATTACATTCAGCTCAAAGG
* *
49143 CATATCAAATTTACAACATAACTCAAGGCGAGAAGGGTTATATGTCAACAAAAGACCTTCGAGTT
65 CATATCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAAC-AAAGACCTTCGAGTT
* * * *
49208 CGATTACATTCAACTCAAAGGTATATCCAGTTT-ACAGCATAGCTCAAGGCGAGAAGGGCTAGT-
129 CGATTACATTCAGCTCAAAGGCATAT-CAATTTCA-AGCATAGCTCAAGGCGAAAAGGGCTA-TC
* * * * *
49271 TGTCATCAAAGACCTTCAAGTTTGATTACACTCAGCTCAAAGGCATATCAAATTTACAGTATAA
191 TGTCAGCAAAGACCTTCAAGTTCGATTACACTCAACTCAAAGGCACATCAAATTTACAGCATAA
49335 CTCAAGGCGAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTTGATTACATTCAGCTCAAAGG
1 CTCAAGGCGAGAAGGGTTATCTGTCACC-AAAGACCTTCGAGTTTGATTACATTCAGCTCAAAGG
* * * * * ** * *
49400 AATATCAAATTTACTGCATAGCTCAAGGCAAGAATGACTATCTGTCAACCAAGACCTACGAGTTC
65 CATATCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTC
* *
49465 GATTACATTCAGCTGAAGGGCATAT-AATATTCATAGCATAGCT
130 GATTACATTCAGCTCAAAGGCATATCAAT-TTCA-AGCATAGCT
49508 TAAGTTGAGA
Statistics
Matches: 375, Mismatches: 44, Indels: 19
0.86 0.10 0.04
Matches are distributed among these distances:
254 5 0.01
255 101 0.27
256 194 0.52
257 75 0.20
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (254 bp):
CTCAAGGCGAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTTGATTACATTCAGCTCAAAGGC
ATATCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCG
ATTACATTCAGCTCAAAGGCATATCAATTTCAAGCATAGCTCAAGGCGAAAAGGGCTATCTGTCA
GCAAAGACCTTCAAGTTCGATTACACTCAACTCAAAGGCACATCAAATTTACAGCATAA
Found at i:49923 original size:3 final size:3
Alignment explanation
Indices: 49911--49987 Score: 79
Period size: 3 Copynumber: 26.3 Consensus size: 3
49901 TTAAATTAAA
* * *
49911 ATT A-T ATT ATT A-T ATT ATT ATT ATT ATT ATA ACT ATT A-T ATT ATA
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
49956 ATAC ATT ATT ATT ATT ATT ATT ACT ATT ATT A
1 AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT A
49988 ATGTTACATA
Statistics
Matches: 61, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
2 6 0.10
3 53 0.87
4 2 0.03
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (3 bp):
ATT
Found at i:49964 original size:36 final size:34
Alignment explanation
Indices: 49911--49985 Score: 114
Period size: 36 Copynumber: 2.1 Consensus size: 34
49901 TTAAATTAAA
*
49911 ATTATATTATTATATTATTATTATTATTATAACT
1 ATTATATTATTACATTATTATTATTATTATAACT
*
49945 ATTATATTATAATACATTATTATTATTATTATTACT
1 ATTATATTAT--TACATTATTATTATTATTATAACT
49981 ATTAT
1 ATTAT
49986 TAATGTTACA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
34 10 0.27
36 27 0.73
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (34 bp):
ATTATATTATTACATTATTATTATTATTATAACT
Found at i:53938 original size:178 final size:178
Alignment explanation
Indices: 53638--54001 Score: 570
Period size: 178 Copynumber: 2.0 Consensus size: 178
53628 ATCCATGGAG
* * *
53638 AAGGACATCCGATGAATGAAGAAATCTGAAGCTATGGAAGAATTTTGTCAAATGTGTAAAGGCCA
1 AAGGACATCCGATGAATGAAGAAATCTGAAGCTATGGAAGAATTCTGTCAAAGGTGCAAAGGCCA
*
53703 AGATGTTGACTCAAGAGATAGATACAGTCATACCAAGGAAGAAAAAACCTTTCATAGAGACATGA
66 AGATGTTGACTCAAGAGATAGATACAGTCATACCAAGGAAGAAAAAACCCTTCATAGAGACATGA
* *
53768 AGACCGCTTCACATTGGAGGTAAGAATGGAGATC-TCAAGATACAATCT
131 AGACCACTTCACATTGGAGGTAAGAATAGAGATCGT-AAGATACAATCT
* *
53816 GAGGACATCCGATGAATGAAGAAATCTGAAGCTATTGAAGAATTCCT-TCAAAGGTGCAAAGGCC
1 AAGGACATCCGATGAATGAAGAAATCTGAAGCTATGGAAGAATT-CTGTCAAAGGTGCAAAGGCC
* * * * *
53880 AAGATGTTGACTCAAGAGATAGATACAGTCATATCAAGGACGAGAAGACCCTTCATAGAGATATG
65 AAGATGTTGACTCAAGAGATAGATACAGTCATACCAAGGAAGAAAAAACCCTTCATAGAGACATG
*
53945 AAGACCACTTCACATTGGAGGTAAGAATAGAGATCGTAAGATTCAATCT
130 AAGACCACTTCACATTGGAGGTAAGAATAGAGATCGTAAGATACAATCT
53994 AAGGACAT
1 AAGGACAT
54002 TTATCGTCAT
Statistics
Matches: 169, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
178 167 0.99
179 2 0.01
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.22
Consensus pattern (178 bp):
AAGGACATCCGATGAATGAAGAAATCTGAAGCTATGGAAGAATTCTGTCAAAGGTGCAAAGGCCA
AGATGTTGACTCAAGAGATAGATACAGTCATACCAAGGAAGAAAAAACCCTTCATAGAGACATGA
AGACCACTTCACATTGGAGGTAAGAATAGAGATCGTAAGATACAATCT
Found at i:58509 original size:6 final size:7
Alignment explanation
Indices: 58499--58550 Score: 59
Period size: 7 Copynumber: 6.7 Consensus size: 7
58489 AAAAATGAGA
58499 AAAAATG
1 AAAAATG
58506 AAAAATG
1 AAAAATG
58513 AAAAAAATG
1 --AAAAATG
58522 AAAAAAATG
1 --AAAAATG
58531 AAAAAATG
1 -AAAAATG
58539 AAAAATG
1 AAAAATG
58546 AAAAA
1 AAAAA
58551 AAATGAATAA
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
7 19 0.44
8 8 0.19
9 16 0.37
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.12
Consensus pattern (7 bp):
AAAAATG
Found at i:58509 original size:17 final size:17
Alignment explanation
Indices: 58489--58557 Score: 97
Period size: 17 Copynumber: 4.1 Consensus size: 17
58479 ATGAAAAGGA
58489 AAAAATGAGAAAAAATG
1 AAAAATGAGAAAAAATG
58506 AAAAATGA-AAAAAATG
1 AAAAATGAGAAAAAATG
*
58522 AAAAA-AATGAAAAAATG
1 AAAAATGA-GAAAAAATG
*
58539 AAAAATGAAAAAAAATG
1 AAAAATGAGAAAAAATG
58556 AA
1 AA
58558 TAAAAGGGGG
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
15 1 0.02
16 13 0.28
17 31 0.67
18 1 0.02
ACGTcount: A:0.75, C:0.00, G:0.13, T:0.12
Consensus pattern (17 bp):
AAAAATGAGAAAAAATG
Found at i:58510 original size:9 final size:9
Alignment explanation
Indices: 58488--58562 Score: 88
Period size: 10 Copynumber: 8.6 Consensus size: 9
58478 GATGAAAAGG
58488 AAAAAATGA
1 AAAAAATGA
58497 GAAAAAATG-
1 -AAAAAATGA
58506 -AAAAATGA
1 AAAAAATGA
58514 AAAAAATGA
1 AAAAAATGA
58523 AAAAAATG-
1 AAAAAATGA
58531 AAAAAATG-
1 AAAAAATGA
58539 -AAAAATGAA
1 AAAAAATG-A
58548 AAAAAATGA
1 AAAAAATGA
58557 ATAAAA
1 A-AAAA
58563 GGGGGTTCAA
Statistics
Matches: 59, Mismatches: 0, Indels: 12
0.83 0.00 0.17
Matches are distributed among these distances:
7 14 0.24
8 8 0.14
9 18 0.31
10 19 0.32
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (9 bp):
AAAAAATGA
Found at i:58515 original size:25 final size:24
Alignment explanation
Indices: 58482--58557 Score: 100
Period size: 25 Copynumber: 3.0 Consensus size: 24
58472 CTTGAAGATG
*
58482 AAAAGGAAAAAATGAGAAAAAATGA
1 AAAATGAAAAAATGA-AAAAAATGA
58507 AAAATGAAAAAAATGAAAAAAATGAA
1 AAAATG-AAAAAATGAAAAAAATG-A
58533 AAAATG-AAAAATGAAAAAAAATGA
1 AAAATGAAAAAATG-AAAAAAATGA
58557 A
1 A
58558 TAAAAGGGGG
Statistics
Matches: 47, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
24 9 0.19
25 22 0.47
26 16 0.34
ACGTcount: A:0.75, C:0.00, G:0.14, T:0.11
Consensus pattern (24 bp):
AAAATGAAAAAATGAAAAAAATGA
Found at i:58551 original size:8 final size:8
Alignment explanation
Indices: 58482--58551 Score: 81
Period size: 8 Copynumber: 8.5 Consensus size: 8
58472 CTTGAAGATG
*
58482 AAAAGGAA
1 AAAATGAA
58490 AAAATGAGAA
1 AAAAT--GAA
58500 AAAATG-A
1 AAAATGAA
58507 AAAATGAAA
1 AAAATG-AA
58516 AAAATGAAA
1 AAAATG-AA
58525 AAAATGAA
1 AAAATGAA
58533 AAAATG-A
1 AAAATGAA
58540 AAAATGAA
1 AAAATGAA
58548 AAAA
1 AAAA
58552 AATGAATAAA
Statistics
Matches: 56, Mismatches: 1, Indels: 10
0.84 0.01 0.15
Matches are distributed among these distances:
7 14 0.25
8 18 0.32
9 16 0.29
10 8 0.14
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.10
Consensus pattern (8 bp):
AAAATGAA
Found at i:59640 original size:55 final size:55
Alignment explanation
Indices: 59564--60142 Score: 698
Period size: 55 Copynumber: 10.7 Consensus size: 55
59554 TTGAAGCATC
* * * *
59564 AAGATTGTTCGAGTCTTATACTTTCTCAAGGAATAGGGAGCAGACACGATTGTTA
1 AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTGTTG
** *
59619 AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCTTACACGATTGTTG
1 AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTGTTG
*
59674 AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATATGGAGCAGACACGTTTGTTG
1 AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTGTTG
* * * * *
59729 AAGA---TT-GAGTCCTATACTCTCTGAAGGGATAGGGAGCGGATACGTTTGTTA
1 AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTGTTG
* *
59780 AAGATTGTTCGAGTGTTATACTCTCTGAAGAAATAGGGAGCAGACACGTTTGTTG
1 AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTGTTG
* * ** *
59835 AAGA---TT-GAGTCCTATACTCTCTGAAGGAATACGGAGTGGATACGTTTGTTG
1 AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTGTTG
*
59886 AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTG
1 AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTGTTG
*
59941 AAGATTGTTCGAGTCTTATAATCTCTGAAGGAATAGGGAGCAGACACGTTTGTTG
1 AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTGTTG
** * * *
59996 -A-A-TAAT-GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTGTCG
1 AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTGTTG
* * * * * *
60047 AAGGTTGTTCAAGTCCTATACTCTCTGAAGGAATAGAGAACAGACTCGTTT-TATG
1 AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTGT-TG
* * * * * * *
60102 AATATTGTTTGAGTTTTACACTCCCTGAAGCAAGAGGGAGC
1 AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGC
60143 GAACCCGCTG
Statistics
Matches: 447, Mismatches: 64, Indels: 26
0.83 0.12 0.05
Matches are distributed among these distances:
51 126 0.28
52 7 0.02
53 1 0.00
54 8 0.02
55 305 0.68
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (55 bp):
AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTGTTG
Found at i:59800 original size:106 final size:106
Alignment explanation
Indices: 59564--60142 Score: 664
Period size: 106 Copynumber: 5.4 Consensus size: 106
59554 TTGAAGCATC
* * * *
59564 AAGATTGTTCGAGTCTTATACTTTCTCAAGGAATAGGGAGCAGACACGATTGTTAAAGATTGTTC
1 AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTGTTGAAGA---TT-
* ** *
59629 GAGTCTTATACTCTCTGAAGGAATAGGGAGCTTACACGATTGTTG
62 GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTGTTG
*
59674 AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATATGGAGCAGACACGTTTGTTGAAGATTGAGT
1 AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTGTTGAAGATTGAGT
* * *
59739 CCTATACTCTCTGAAGGGATAGGGAGCGGATACGTTTGTTA
66 CCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTGTTG
* *
59780 AAGATTGTTCGAGTGTTATACTCTCTGAAGAAATAGGGAGCAGACACGTTTGTTGAAGATTGAGT
1 AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTGTTGAAGATTGAGT
* * *
59845 CCTATACTCTCTGAAGGAATACGGAGTGGATACGTTTGTTG
66 CCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTGTTG
*
59886 AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTGAAGATTGTTC
1 AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTGTTGAAGA---TT-
* * *
59951 GAGTCTTATAATCTCTGAAGGAATAGGGAGCAGACACGTTTGTTG
62 GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTGTTG
** * * * *
59996 -A-A-TAAT-GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTGTCGAAGGTTGTTC
1 AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTGTTGAAGATTG---
* * * *
60057 AAGTCCTATACTCTCTGAAGGAATAGAGAACAGACTCGTTT-TATG
63 -AGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTGT-TG
* * * * * * *
60102 AATATTGTTTGAGTTTTACACTCCCTGAAGCAAGAGGGAGC
1 AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGC
60143 GAACCCGCTG
Statistics
Matches: 408, Mismatches: 48, Indels: 26
0.85 0.10 0.05
Matches are distributed among these distances:
102 1 0.00
103 2 0.00
105 1 0.00
106 274 0.67
107 5 0.01
108 2 0.00
109 5 0.01
110 118 0.29
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (106 bp):
AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTGTTGAAGATTGAGT
CCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTGTTG
Found at i:59908 original size:161 final size:161
Alignment explanation
Indices: 59564--60091 Score: 740
Period size: 161 Copynumber: 3.3 Consensus size: 161
59554 TTGAAGCATC
* * *
59564 AAGATTGTTCGAGTCTTATACTTTCTCAAGGAATAGGGAGCAGACACGATTGTTAAAGATTGTTC
1 AAGATTGTTCGAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTAAAGATTGTTC
** * *
59629 GAGTCTTATACTCTCTGAAGGAATAGGGAGCTTACACGATTGTTGAAGATTGTTCGAGTCTTATA
66 GAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTGTTGAAGA---TT-GAGTCCTATA
* *
59694 CTCTCTGAAGGAATATGGAGCAGACACGTTTGTTG
127 CTCTCTGAAGGAATACGGAGCGGACACGTTTGTTG
* * * *
59729 AAGA---TT-GAGTCCTATACTCTCTGAAGGGATAGGGAGCGGATACGTTTGTTAAAGATTGTTC
1 AAGATTGTTCGAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTAAAGATTGTTC
* *
59790 GAGTGTTATACTCTCTGAAGAAATAGGGAGCAGACACGTTTGTTGAAGATTGAGTCCTATACTCT
66 GAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTGTTGAAGATTGAGTCCTATACTCT
* *
59855 CTGAAGGAATACGGAGTGGATACGTTTGTTG
131 CTGAAGGAATACGGAGCGGACACGTTTGTTG
* *
59886 AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTGAAGATTGTTC
1 AAGATTGTTCGAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTAAAGATTGTTC
* * *
59951 GAGTCTTATAATCTCTGAAGGAATAGGGAGCAGACACGTTTGTTGAATAATGAGTCCTATACTCT
66 GAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTGTTGAAGATTGAGTCCTATACTCT
* *
60016 CTGAAGGAATAGGGAGCGGACACGTTTGTCG
131 CTGAAGGAATACGGAGCGGACACGTTTGTTG
* * * *
60047 AAGGTTGTTCAAGTCCTATACTCTCTGAAGGAATAGAGAACAGAC
1 AAGATTGTTCGAGTCCTATACTCTCTGAAGGAATAGGGAGCAGAC
60092 TCGTTTTATG
Statistics
Matches: 322, Mismatches: 37, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
157 44 0.14
158 2 0.01
160 2 0.01
161 268 0.83
162 2 0.01
165 4 0.01
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (161 bp):
AAGATTGTTCGAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTAAAGATTGTTC
GAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTGTTGAAGATTGAGTCCTATACTCT
CTGAAGGAATACGGAGCGGACACGTTTGTTG
Found at i:60339 original size:11 final size:12
Alignment explanation
Indices: 60318--60373 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 12
60308 GTCCGGGTTA
60318 TAAATATTATAT
1 TAAATATTATAT
60330 TAAA-ATTATAT
1 TAAATATTATAT
*
60341 T-ATTATTATTAT
1 TAAATATTA-TAT
60353 TATAACTATTATAT
1 TA-AA-TATTATAT
60367 TATAATA
1 TA-AATA
60374 CATTATTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
10 1 0.03
11 12 0.32
12 8 0.22
13 2 0.05
14 9 0.24
15 5 0.14
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (12 bp):
TAAATATTATAT
Found at i:60346 original size:3 final size:3
Alignment explanation
Indices: 60334--60414 Score: 103
Period size: 3 Copynumber: 27.3 Consensus size: 3
60324 TTATATTAAA
* * * *
60334 ATT A-T ATT ATT ATT ATT ATT ATA ACT ATT A-T ATT ATA ATAC ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT
60378 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
60415 ATGTTACATA
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
2 4 0.06
3 62 0.91
4 2 0.03
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:64695 original size:11 final size:11
Alignment explanation
Indices: 64679--64809 Score: 59
Period size: 12 Copynumber: 11.0 Consensus size: 11
64669 CCTTTTCTAA
64679 ATTTTATTTTT
1 ATTTTATTTTT
64690 ATTTTATTTTTT
1 ATTTTA-TTTTT
* **
64702 ATTTAATATTAC
1 ATTTTAT-TTTT
*
64714 ATTATATTATTT
1 ATTTTATT-TTT
64726 ATGTATATATTTTAT
1 AT-T-T-TATTTT-T
* *
64741 ATTGTTCTTTAAT
1 ATT-TTATTT-TT
*
64754 ATTTTCTTTTT
1 ATTTTATTTTT
*
64765 ATTTT-GTTTT
1 ATTTTATTTTT
64775 ATTTTATTTTGT
1 ATTTTATTTT-T
*
64787 -TTTTCTTTTCT
1 ATTTTATTTT-T
64798 ATTTTAGTTTTT
1 ATTTTA-TTTTT
64810 CTTTCCAAAT
Statistics
Matches: 91, Mismatches: 17, Indels: 23
0.69 0.13 0.18
Matches are distributed among these distances:
10 9 0.10
11 26 0.29
12 32 0.35
13 13 0.14
14 4 0.04
15 7 0.08
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.72
Consensus pattern (11 bp):
ATTTTATTTTT
Found at i:64781 original size:15 final size:15
Alignment explanation
Indices: 64761--64789 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
64751 AATATTTTCT
64761 TTTTATTTTGTTTTA
1 TTTTATTTTGTTTTA
64776 TTTTATTTTGTTTT
1 TTTTATTTTGTTTT
64790 TCTTTTCTAT
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:0.10, C:0.00, G:0.07, T:0.83
Consensus pattern (15 bp):
TTTTATTTTGTTTTA
Found at i:65391 original size:9 final size:8
Alignment explanation
Indices: 65364--65442 Score: 58
Period size: 9 Copynumber: 10.0 Consensus size: 8
65354 TTATTTAATA
65364 TATTTTTT
1 TATTTTTT
*
65372 TA-TTATT
1 TATTTTTT
65379 TATTTTGTT
1 TATTTT-TT
*
65388 TATTTCATT
1 TATTT-TTT
65397 TATTTTTAT
1 TATTTTT-T
*
65406 TATTATTT
1 TATTTTTT
65414 TA--TTTT
1 TATTTTTT
*
65420 TATGTTTT
1 TATTTTTT
*
65428 TA-TTTAT
1 TATTTTTT
65435 TATTTTTT
1 TATTTTTT
65443 ATCTAACATT
Statistics
Matches: 55, Mismatches: 9, Indels: 14
0.71 0.12 0.18
Matches are distributed among these distances:
6 5 0.09
7 11 0.20
8 18 0.33
9 21 0.38
ACGTcount: A:0.19, C:0.01, G:0.03, T:0.77
Consensus pattern (8 bp):
TATTTTTT
Found at i:65406 original size:6 final size:6
Alignment explanation
Indices: 65395--65441 Score: 51
Period size: 6 Copynumber: 7.5 Consensus size: 6
65385 GTTTATTTCA
*
65395 TTTATT TTTATT ATTA-T TTTATT TTTATGTT TTTATT TATTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTTA--TT TTTATT T-TTATT TTT
65442 TATCTAACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
5 4 0.11
6 19 0.54
7 6 0.17
8 6 0.17
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:65418 original size:26 final size:24
Alignment explanation
Indices: 65367--65440 Score: 71
Period size: 26 Copynumber: 3.0 Consensus size: 24
65357 TTTAATATAT
*
65367 TTTTTTATTATTTATT-TT-GTTTA
1 TTTTTTATT-TTTATTATTATTTTA
65390 TTTCATTTATTTTTATTATTATTTTA
1 TTT--TTTATTTTTATTATTATTTTA
*
65416 TTTTTATGTTTTTATTTATTATTTT
1 TTTTT-TATTTTTA-TTATTATTTT
65441 TTATCTAACA
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
23 3 0.07
24 8 0.19
25 15 0.35
26 17 0.40
ACGTcount: A:0.19, C:0.01, G:0.03, T:0.77
Consensus pattern (24 bp):
TTTTTTATTTTTATTATTATTTTA
Found at i:65428 original size:14 final size:14
Alignment explanation
Indices: 65353--65444 Score: 73
Period size: 14 Copynumber: 6.4 Consensus size: 14
65343 TCTTCTTTGA
* *
65353 TTTATTTAATATAT
1 TTTATTTATTATTT
65367 TTT-TTTATTATTTAT
1 TTTATTTATTA-TT-T
*
65382 TTTGTTTATTTCATTT
1 TTTATTTA-TT-ATTT
*
65398 ATT-TTTATTATTAT
1 TTTATTTATTATT-T
65412 TTTATTT-TTATGTT
1 TTTATTTATTAT-TT
65426 TTTATTTATTATTT
1 TTTATTTATTATTT
65440 TTTAT
1 TTTAT
65445 CTAACATTTT
Statistics
Matches: 65, Mismatches: 4, Indels: 18
0.75 0.05 0.21
Matches are distributed among these distances:
13 9 0.14
14 28 0.43
15 16 0.25
16 7 0.11
17 4 0.06
18 1 0.02
ACGTcount: A:0.22, C:0.01, G:0.02, T:0.75
Consensus pattern (14 bp):
TTTATTTATTATTT
Found at i:65444 original size:39 final size:42
Alignment explanation
Indices: 65364--65441 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 42
65354 TTATTTAATA
* *
65364 TATTTTTTTATTATTTATTTTGTTTATTTCATTTATTTTTAT
1 TATTATTTTATTATTTATGTTGTTTATTTCATTTATTTTTAT
65406 TATTATTTTATT-TTTATGTT-TTTATTT-A-TTATTTTT
1 TATTATTTTATTATTTATGTTGTTTATTTCATTTATTTTT
65442 TATCTAACAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
38 8 0.24
39 1 0.03
40 7 0.21
41 7 0.21
42 11 0.32
ACGTcount: A:0.19, C:0.01, G:0.03, T:0.77
Consensus pattern (42 bp):
TATTATTTTATTATTTATGTTGTTTATTTCATTTATTTTTAT
Found at i:66753 original size:22 final size:21
Alignment explanation
Indices: 66727--66773 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
66717 TTAATAATGC
66727 TATTACTT-TATGTCATTATTAT
1 TATTACTTCTAT-TCATTA-TAT
*
66749 TATTATTTCTATTCATTATAT
1 TATTACTTCTATTCATTATAT
66770 TATT
1 TATT
66774 TTATTTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 7 0.30
22 13 0.57
23 3 0.13
ACGTcount: A:0.28, C:0.09, G:0.02, T:0.62
Consensus pattern (21 bp):
TATTACTTCTATTCATTATAT
Found at i:68271 original size:137 final size:136
Alignment explanation
Indices: 68067--68463 Score: 580
Period size: 137 Copynumber: 2.9 Consensus size: 136
68057 CAACTGGTGT
* * * *
68067 ATGACATTGTTCCTTCATGATGAGGACGTTTGGCCATCTTTGAAGATATTTGAGATAACACGGTT
1 ATGACATTGTTCCTTCGTGATGAGGACGTCTGGACATCTTTAAAGATATTTGAGATAACACGGTT
* *
68132 CCTTCGTGATGAGGATATCTGGCTATCTAAGAATGACTTGGCTCCTACGTGATGAGGAGTTCTGA
66 CCTTCGTGATGAGGACATCTGGCTATCTAAGAATGA-TTGGCTCCTTCGTGATGAGGAGTTCTGA
68197 TCGGTAG
130 TCGGTAG
* * * *
68204 ATGACAATGTTCCTTCGTGATAAGGACGTCTGGACAACTTTAAAGATATTTGAGATAACATGGTT
1 ATGACATTGTTCCTTCGTGATGAGGACGTCTGGACATCTTTAAAGATATTTGAGATAACACGGTT
* *
68269 CCTTCTTGATGAGGACATCTGACTATCTAAGAATGA-TGCTGCTCCTTCGTGATGAGGAGTTCTG
66 CCTTCGTGATGAGGACATCTGGCTATCTAAGAATGATTG--GCTCCTTCGTGATGAGGAGTTCTG
*
68333 ATCGGTGG
129 ATCGGTAG
* * * *
68341 ATGACATTGCTCCTTTGTGATGAGGACGTCTGGACATTTTTAAAGATATTTGAGATAACACGATT
1 ATGACATTGTTCCTTCGTGATGAGGACGTCTGGACATCTTTAAAGATATTTGAGATAACACGGTT
* *
68406 CCTTCGTGATGAGGACATCTGGCTATCTAAGAATGATGTTGCTCATTCGTGATGAGGA
66 CCTTCGTGATGAGGACATCTGGCTATCTAAGAATGAT-TGGCTCCTTCGTGATGAGGA
68464 CATCTGGCCA
Statistics
Matches: 231, Mismatches: 25, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
135 2 0.01
137 228 0.99
139 1 0.00
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (136 bp):
ATGACATTGTTCCTTCGTGATGAGGACGTCTGGACATCTTTAAAGATATTTGAGATAACACGGTT
CCTTCGTGATGAGGACATCTGGCTATCTAAGAATGATTGGCTCCTTCGTGATGAGGAGTTCTGAT
CGGTAG
Found at i:68456 original size:43 final size:43
Alignment explanation
Indices: 68405--68560 Score: 168
Period size: 43 Copynumber: 3.4 Consensus size: 43
68395 ATAACACGAT
68405 TCCTTCGTGATGAGGACATCTGGCTATCTAAGAATGATGTTGC
1 TCCTTCGTGATGAGGACATCTGGCTATCTAAGAATGATGTTGC
* * * *
68448 TCATTCGTGATGAGGACATCTGGCCATCTTTAAAGATATTTGAGATAACATTGT
1 TCCTTCGTGATGAGGACATCTGGCTATC--T-AAGA-A--T--GAT---GTTGC
68502 TCCTTCGTGATGAGGACATCTGGCTATCTAAGAATGATGTTGC
1 TCCTTCGTGATGAGGACATCTGGCTATCTAAGAATGATGTTGC
*
68545 TCCTTCGTGATAAGGA
1 TCCTTCGTGATGAGGA
68561 GTTCTGATCA
Statistics
Matches: 93, Mismatches: 9, Indels: 22
0.75 0.07 0.18
Matches are distributed among these distances:
43 44 0.47
45 1 0.01
46 7 0.08
47 1 0.01
48 1 0.01
49 1 0.01
50 1 0.01
51 7 0.08
52 1 0.01
54 29 0.31
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (43 bp):
TCCTTCGTGATGAGGACATCTGGCTATCTAAGAATGATGTTGC
Found at i:68463 original size:97 final size:97
Alignment explanation
Indices: 68347--68560 Score: 349
Period size: 97 Copynumber: 2.2 Consensus size: 97
68337 GTGGATGACA
* * *
68347 TTGCTCCTTTGTGATGAGGACGTCTGGACATTTTTAAAGATATTTGAGATAACA-CGATTCCTTC
1 TTGCTCCTTCGTGATGAGGACATCTGGACATCTTTAAAGATATTTGAGATAACATCG-TTCCTTC
68411 GTGATGAGGACATCTGGCTATCTAAGAATGATG
65 GTGATGAGGACATCTGGCTATCTAAGAATGATG
* * *
68444 TTGCTCATTCGTGATGAGGACATCTGGCCATCTTTAAAGATATTTGAGATAACATTGTTCCTTCG
1 TTGCTCCTTCGTGATGAGGACATCTGGACATCTTTAAAGATATTTGAGATAACATCGTTCCTTCG
68509 TGATGAGGACATCTGGCTATCTAAGAATGATG
66 TGATGAGGACATCTGGCTATCTAAGAATGATG
*
68541 TTGCTCCTTCGTGATAAGGA
1 TTGCTCCTTCGTGATGAGGA
68561 GTTCTGATCA
Statistics
Matches: 108, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
97 107 0.99
98 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.34
Consensus pattern (97 bp):
TTGCTCCTTCGTGATGAGGACATCTGGACATCTTTAAAGATATTTGAGATAACATCGTTCCTTCG
TGATGAGGACATCTGGCTATCTAAGAATGATG
Found at i:68519 original size:234 final size:234
Alignment explanation
Indices: 68217--68680 Score: 721
Period size: 234 Copynumber: 2.0 Consensus size: 234
68207 ACAATGTTCC
* *
68217 TTCGTGATAAGGACGTCTGGACAACTTTAAAGATATTTGAGATAACATGGTTCCTTCTTGATGAG
1 TTCGTGATAAGGACATCTGGACAACTTTAAAGATATTTGAGATAACATGGTTCCTTCGTGATGAG
* *
68282 GACATCTGACTATCTAAGAATGATGCTGCTCCTTCGTGATGAGGAGTTCTGATCGGTGGATGACA
66 GACATCTGACTATCTAAGAATGATGCTGCTCCTTCGTGATAAGGAGTTCTGATCAGTGGATGACA
* ** * * *
68347 TTGCTCCTTTGTGATGAGGACGTCTGGACATTTTTAAAGATATTTGAGATAACACGATTCCTTCG
131 TTGCTCATTCATGATGAGGACGTCTGGACATCTTTAAAGATATTTGAGATAACACGATTCATTCA
*
68412 TGATGAGGACATCTGGCTATCTAAGAATGATGTTGCTCA
196 TGATGAGGACATCTGGCCATCTAAGAATGATGTTGCTCA
* * * *
68451 TTCGTGATGAGGACATCTGGCCATCTTTAAAGATATTTGAGATAACATTGTTCCTTCGTGATGAG
1 TTCGTGATAAGGACATCTGGACAACTTTAAAGATATTTGAGATAACATGGTTCCTTCGTGATGAG
* *
68516 GACATCTGGCTATCTAAGAATGATGTTGCTCCTTCGTGATAAGGAGTTCTGATCAGTGGATGACA
66 GACATCTGACTATCTAAGAATGATGCTGCTCCTTCGTGATAAGGAGTTCTGATCAGTGGATGACA
* * * *
68581 TTGTTCATTCATGATGAGGACGTCTGGCCATCTTTAAAGATATTTGAGATAACACGGTTTATTCA
131 TTGCTCATTCATGATGAGGACGTCTGGACATCTTTAAAGATATTTGAGATAACACGATTCATTCA
* *
68646 TGATGAGGACATTTGGCCATCTAAGGATGATGTTG
196 TGATGAGGACATCTGGCCATCTAAGAATGATGTTG
68681 ATCGACATGA
Statistics
Matches: 207, Mismatches: 23, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
234 207 1.00
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (234 bp):
TTCGTGATAAGGACATCTGGACAACTTTAAAGATATTTGAGATAACATGGTTCCTTCGTGATGAG
GACATCTGACTATCTAAGAATGATGCTGCTCCTTCGTGATAAGGAGTTCTGATCAGTGGATGACA
TTGCTCATTCATGATGAGGACGTCTGGACATCTTTAAAGATATTTGAGATAACACGATTCATTCA
TGATGAGGACATCTGGCCATCTAAGAATGATGTTGCTCA
Found at i:68881 original size:25 final size:25
Alignment explanation
Indices: 68822--68881 Score: 104
Period size: 25 Copynumber: 2.4 Consensus size: 25
68812 TCCTTCACTG
*
68822 TGAA-GTTGCAATCCAATCTAAAGA
1 TGAATGTTGCTATCCAATCTAAAGA
68846 TGAATGTTGCTATCCAATCTAAAGA
1 TGAATGTTGCTATCCAATCTAAAGA
68871 TGAATGTTGCT
1 TGAATGTTGCT
68882 GGTGGAAACG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 4 0.12
25 30 0.88
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (25 bp):
TGAATGTTGCTATCCAATCTAAAGA
Found at i:69078 original size:108 final size:108
Alignment explanation
Indices: 68889--69356 Score: 814
Period size: 108 Copynumber: 4.3 Consensus size: 108
68879 GCTGGTGGAA
* * * *
68889 ACGATATCCTTCATCGTGAAGTTGACATCGTGGATGGCCCTTTCGTCATGAAGTTAAGCCTCGAA
1 ACGATATCCTTCATCGTGAAGTTGAAATCGTGGATGGCCCTTTCGTCGTGAAGTTGAGCCTTGAA
*
68954 TTGGATATCCTTCGTTGTGAAGTTGAAATCCATTGTTGCTGAC
66 TTGGATATCCTTCGTTGTGAAGTTGAAATCCAATGTTGCTGAC
68997 ACGATATCCTTCATCGTGAAGTTGAAATCGTGGATGGCCCCTTT-GTCGTGAAGTTGAGCCTTGA
1 ACGATATCCTTCATCGTGAAGTTGAAATCGTGGATGG-CCCTTTCGTCGTGAAGTTGAGCCTTGA
69061 ATTGGATATCCTTCGTTGTGAAGTTGAAATCCAATGTTGCTGAC
65 ATTGGATATCCTTCGTTGTGAAGTTGAAATCCAATGTTGCTGAC
*
69105 ACGATATCCTTCATCGTGAAGTTGAAATCATGGATGGACCC-TTCGTCGTGAAGTTGAGCCTTGA
1 ACGATATCCTTCATCGTGAAGTTGAAATCGTGGATGG-CCCTTTCGTCGTGAAGTTGAGCCTTGA
*
69169 ATTGGATATCCTTTGTTGTGAAGTTGAAATCCAATGTTGCTGAC
65 ATTGGATATCCTTCGTTGTGAAGTTGAAATCCAATGTTGCTGAC
* *
69213 ACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCTTTCGTCGTGAAGTTGAGCCTTGAA
1 ACGATATCCTTCATCGTGAAGTTGAAATCGTGGATGGCCCTTTCGTCGTGAAGTTGAGCCTTGAA
69278 TTGGATATCCTTCGTTGTGAAGTTGAAATCCAATGTTGCTGAC
66 TTGGATATCCTTCGTTGTGAAGTTGAAATCCAATGTTGCTGAC
*
69321 ACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATG
1 ACGATATCCTTCATCGTGAAGTTGAAATCGTGGATG
69357 TGTGGGCACG
Statistics
Matches: 345, Mismatches: 12, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
107 4 0.01
108 335 0.97
109 6 0.02
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (108 bp):
ACGATATCCTTCATCGTGAAGTTGAAATCGTGGATGGCCCTTTCGTCGTGAAGTTGAGCCTTGAA
TTGGATATCCTTCGTTGTGAAGTTGAAATCCAATGTTGCTGAC
Found at i:69376 original size:43 final size:42
Alignment explanation
Indices: 69281--69399 Score: 134
Period size: 43 Copynumber: 2.8 Consensus size: 42
69271 CCTTGAATTG
* **
69281 GATATCCTTCGTTGTGAAGTTGAAATC-CAATGTTGCTGACAC
1 GATATCCTTCGTCGTGAAGTTGAAATCTGGATGTTGC-GACAC
*
69323 GATATCCTTCGTCGTGAAGTTGAAATCGTGGATGTGTG-GGCAC
1 GATATCCTTCGTCGTGAAGTTGAAATC-TGGATGT-TGCGACAC
* *
69366 GATATCCTTCGTCGTGGAGTTAAAATCATGGATG
1 GATATCCTTCGTCGTGAAGTTGAAATC-TGGATG
69400 GCTCTTTCGT
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
42 26 0.39
43 35 0.52
44 4 0.06
45 2 0.03
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (42 bp):
GATATCCTTCGTCGTGAAGTTGAAATCTGGATGTTGCGACAC
Found at i:69561 original size:103 final size:103
Alignment explanation
Indices: 69423--69628 Score: 313
Period size: 103 Copynumber: 2.0 Consensus size: 103
69413 GAAGTTGAGC
* * * *
69423 TTTGAATTAGATATCCTTGGTCATGAAGTTGAAATCCAATCTTTGATTGTGTTGTTTTAAGTTCA
1 TTTGAATTAGATATCCTTCGTCATGAAGTTAAAATCCAATCTTTGATTGTATTGCTTTAAGTTCA
69488 ATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGA
66 ATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGA
* ** * *
69526 TTTGAATTGGATATCCTTCGTTGTGAAGTTAAAATCCAATCTTTGGTTGTATTGCTTTGAGTTCA
1 TTTGAATTAGATATCCTTCGTCATGAAGTTAAAATCCAATCTTTGATTGTATTGCTTTAAGTTCA
* *
69591 ATATCCTTCGTTTTGAAGTTGAAATTGACTCTGAATGA
66 ATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGA
69629 AACTAAAAAG
Statistics
Matches: 92, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
103 92 1.00
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.42
Consensus pattern (103 bp):
TTTGAATTAGATATCCTTCGTCATGAAGTTAAAATCCAATCTTTGATTGTATTGCTTTAAGTTCA
ATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGA
Found at i:69705 original size:58 final size:58
Alignment explanation
Indices: 69610--69734 Score: 214
Period size: 58 Copynumber: 2.2 Consensus size: 58
69600 GTTTTGAAGT
*
69610 TGAAATTGACTCTGAATGAAACTAAAAAGTTGTTTGTTGAGTCCAATAGCCTTCGCTG
1 TGAAGTTGACTCTGAATGAAACTAAAAAGTTGTTTGTTGAGTCCAATAGCCTTCGCTG
* * *
69668 TGAAGTTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGAGTCCAATATCCTTCGTTG
1 TGAAGTTGACTCTGAATGAAACTAAAAAGTTGTTTGTTGAGTCCAATAGCCTTCGCTG
69726 TGAAGTTGA
1 TGAAGTTGA
69735 AATTGACTCT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
58 63 1.00
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (58 bp):
TGAAGTTGACTCTGAATGAAACTAAAAAGTTGTTTGTTGAGTCCAATAGCCTTCGCTG
Found at i:71230 original size:51 final size:51
Alignment explanation
Indices: 71138--71283 Score: 197
Period size: 51 Copynumber: 2.8 Consensus size: 51
71128 ATATCCCAAC
* * * *
71138 CTTTTTATGTTGGTGTGAGCCTTCAAGATGCCTCACATGGATTACTT-CTGT
1 CTTTTTATGCTGATGTGAGCCTTCAAGATACCTCACATGGATAACTTGC-GT
*
71189 CTTTTTCATGCTGATGTGAGCCTTTAAGATACC-CACATGGATAACTTGCGT
1 CTTTTT-ATGCTGATGTGAGCCTTCAAGATACCTCACATGGATAACTTGCGT
*
71240 CTTTTTTATGCTGATGTGAGCCTTCAAGATACCTCATATGGATA
1 C-TTTTTATGCTGATGTGAGCCTTCAAGATACCTCACATGGATA
71284 GTATGGACCT
Statistics
Matches: 84, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
51 47 0.56
52 37 0.44
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (51 bp):
CTTTTTATGCTGATGTGAGCCTTCAAGATACCTCACATGGATAACTTGCGT
Found at i:72673 original size:1 final size:1
Alignment explanation
Indices: 72667--72798 Score: 102
Period size: 1 Copynumber: 132.0 Consensus size: 1
72657 CCTGATTCAA
* * * * * * * * *
72667 TTTTTTTTTCTTTTCTCTTTTTTTCTTTTTCTTTTTCTTTTTTTTCTTTTTTTCTTTTTTCTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* ** * * * * * *
72732 TTATTTTTTTAATTTTTTATTTTTTTATTTTTTTATTTTTTTATTTTTTTATTTTTTTTATTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
72797 TT
1 TT
72799 CTGATGGATG
Statistics
Matches: 97, Mismatches: 34, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 97 1.00
ACGTcount: A:0.07, C:0.07, G:0.00, T:0.86
Consensus pattern (1 bp):
T
Found at i:72688 original size:8 final size:8
Alignment explanation
Indices: 72669--72800 Score: 114
Period size: 8 Copynumber: 17.1 Consensus size: 8
72659 TGATTCAATT
72669 TTTTTTTC
1 TTTTTTTC
*
72677 -TTTTCTC
1 TTTTTTTC
72684 TTTTTTTC
1 TTTTTTTC
72692 --TTTTTC
1 TTTTTTTC
*
72698 TTTTTCT-
1 TTTTTTTC
72705 TTTTTTTC
1 TTTTTTTC
72713 TTTTTTTC
1 TTTTTTTC
72721 -TTTTTTC
1 TTTTTTTC
*
72728 -TTTTTTA
1 TTTTTTTC
*
72735 TTTTTTTA
1 TTTTTTTC
* *
72743 ATTTTTTA
1 TTTTTTTC
*
72751 TTTTTTTA
1 TTTTTTTC
*
72759 TTTTTTTA
1 TTTTTTTC
*
72767 TTTTTTTA
1 TTTTTTTC
*
72775 TTTTTTTAT
1 TTTTTTT-C
*
72784 TTTTTTTA
1 TTTTTTTC
72792 TTTTTTTC
1 TTTTTTTC
72800 T
1 T
72801 GATGGATGAG
Statistics
Matches: 108, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
6 6 0.06
7 25 0.23
8 70 0.65
9 7 0.06
ACGTcount: A:0.07, C:0.08, G:0.00, T:0.86
Consensus pattern (8 bp):
TTTTTTTC
Found at i:72689 original size:15 final size:15
Alignment explanation
Indices: 72669--72788 Score: 113
Period size: 15 Copynumber: 7.9 Consensus size: 15
72659 TGATTCAATT
*
72669 TTTTTTTCTTTTCTC
1 TTTTTTTCTTTTTTC
72684 TTTTTTTC-TTTTTC
1 TTTTTTTCTTTTTTC
72698 TTTTTCTT-TTTTTTC
1 TTTTT-TTCTTTTTTC
72713 TTTTTTTCTTTTTTC
1 TTTTTTTCTTTTTTC
*
72728 TTTTTTAT-TTTTTTAA
1 TTTTTT-TCTTTTTT-C
*
72744 TTTTTTAT-TTTTTTA
1 TTTTTT-TCTTTTTTC
* *
72759 TTTTTTTATTTTTTTA
1 TTTTTTT-CTTTTTTC
*
72775 TTTTTTTATTTTTT
1 TTTTTTTCTTTTTT
72789 TTATTTTTTT
Statistics
Matches: 95, Mismatches: 3, Indels: 14
0.85 0.03 0.12
Matches are distributed among these distances:
14 13 0.14
15 53 0.56
16 29 0.31
ACGTcount: A:0.07, C:0.07, G:0.00, T:0.86
Consensus pattern (15 bp):
TTTTTTTCTTTTTTC
Found at i:72740 original size:16 final size:16
Alignment explanation
Indices: 72667--72797 Score: 130
Period size: 16 Copynumber: 8.4 Consensus size: 16
72657 CCTGATTCAA
*
72667 TTTTTT-TTTCTTTTC
1 TTTTTTATTTTTTTTC
*
72682 TCTTTTT-TTCTTTTTC
1 T-TTTTTATTTTTTTTC
*
72698 -TTTTTCTTTTTTTTC
1 TTTTTTATTTTTTTTC
*
72713 TTTTTT-TCTTTTTTC
1 TTTTTTATTTTTTTTC
**
72728 TTTTTTATTTTTTTAA
1 TTTTTTATTTTTTTTC
72744 TTTTTTATTTTTTTAT-
1 TTTTTTATTTTTTT-TC
72760 TTTTTTATTTTTTTAT-
1 TTTTTTATTTTTTT-TC
*
72776 TTTTTTATTTTTTTTA
1 TTTTTTATTTTTTTTC
72792 TTTTTT
1 TTTTTT
72798 TCTGATGGAT
Statistics
Matches: 102, Mismatches: 8, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
14 5 0.05
15 24 0.24
16 73 0.72
ACGTcount: A:0.07, C:0.07, G:0.00, T:0.86
Consensus pattern (16 bp):
TTTTTTATTTTTTTTC
Found at i:75266 original size:20 final size:19
Alignment explanation
Indices: 75212--75288 Score: 68
Period size: 20 Copynumber: 3.9 Consensus size: 19
75202 TACAAACGTG
*
75212 AAGATGTGAATGTAAAATGA
1 AAGATGTGAATGCAAAAT-A
* *
75232 AA-ATGTAAATACAAACATA
1 AAGATGTGAATGCAAA-ATA
75251 AAGATGTGAATGC-AAATGCA
1 AAGATGTGAATGCAAAAT--A
*
75271 AAGATGTGAATGTAAAAT
1 AAGATGTGAATGCAAAAT
75289 GAATATAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
18 2 0.04
19 15 0.33
20 25 0.54
21 4 0.09
ACGTcount: A:0.52, C:0.05, G:0.19, T:0.23
Consensus pattern (19 bp):
AAGATGTGAATGCAAAATA
Found at i:77144 original size:22 final size:21
Alignment explanation
Indices: 77116--77162 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 21
77106 TTAATAATGC
77116 TATTATTT-TATGTCATTATTAT
1 TATTATTTCTAT-TCATTA-TAT
77138 TATTATTTCTATTCATTATAT
1 TATTATTTCTATTCATTATAT
77159 TATT
1 TATT
77163 TTATTTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 7 0.29
22 14 0.58
23 3 0.12
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.64
Consensus pattern (21 bp):
TATTATTTCTATTCATTATAT
Found at i:78758 original size:18 final size:18
Alignment explanation
Indices: 78735--78770 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
78725 TTAGTATATA
*
78735 TGTTAAATAGCACTGATT
1 TGTTAAATAGCACCGATT
78753 TGTTAAATAGCACCGATT
1 TGTTAAATAGCACCGATT
78771 AAGTATATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (18 bp):
TGTTAAATAGCACCGATT
Found at i:82268 original size:16 final size:16
Alignment explanation
Indices: 82247--82281 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
82237 TGTTGCTCGA
*
82247 CTCGTTGTTCATTAAG
1 CTCGTTGCTCATTAAG
82263 CTCGTTGCTCATTAAG
1 CTCGTTGCTCATTAAG
82279 CTC
1 CTC
82282 ACTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.17, C:0.26, G:0.17, T:0.40
Consensus pattern (16 bp):
CTCGTTGCTCATTAAG
Found at i:83844 original size:2 final size:2
Alignment explanation
Indices: 83832--83878 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
83822 ATCTTGAACG
*
83832 TA TA AA 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
83874 TA TA T
1 TA TA T
83879 TAACAAATAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:85860 original size:13 final size:13
Alignment explanation
Indices: 85842--85866 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
85832 GTGTTTTTAA
85842 TTAATTTAATTAT
1 TTAATTTAATTAT
85855 TTAATTTAATTA
1 TTAATTTAATTA
85867 ATTTTCTCAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTAATTTAATTAT
Found at i:90610 original size:19 final size:19
Alignment explanation
Indices: 90586--90628 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
90576 CCGGCCAGTG
90586 AACCTTCTAAAAGTAACTA
1 AACCTTCTAAAAGTAACTA
*
90605 AACCTTCTAAAAGTAAGTA
1 AACCTTCTAAAAGTAACTA
90624 AACCT
1 AACCT
90629 GACCTATTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.47, C:0.21, G:0.07, T:0.26
Consensus pattern (19 bp):
AACCTTCTAAAAGTAACTA
Found at i:94296 original size:22 final size:22
Alignment explanation
Indices: 94270--94327 Score: 62
Period size: 25 Copynumber: 2.5 Consensus size: 22
94260 TTCATTTCCT
*
94270 TTTTAATTTTTTAAAAAATAAAA
1 TTTTAATTTTTGAAAAAA-AAAA
*
94293 TTTATAAATTTTTGAAAAAAAATA
1 TTT-T-AATTTTTGAAAAAAAAAA
*
94317 TATTAATTTTT
1 TTTTAATTTTT
94328 AATACTTTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 7 0.23
23 4 0.13
24 6 0.20
25 13 0.43
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
TTTTAATTTTTGAAAAAAAAAA
Found at i:94310 original size:23 final size:22
Alignment explanation
Indices: 94284--94327 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
94274 AATTTTTTAA
*
94284 AAAATAAAATTTATAAATTTTTG
1 AAAA-AAAATATATAAATTTTTG
*
94307 AAAAAAAATATATTAATTTTT
1 AAAAAAAATATATAAATTTTT
94328 AATACTTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
AAAAAAAATATATAAATTTTTG
Found at i:95988 original size:186 final size:186
Alignment explanation
Indices: 95670--96045 Score: 709
Period size: 186 Copynumber: 2.0 Consensus size: 186
95660 AATACCATCG
95670 CACCAAACTCATCATTATGTTAAAAAAAAAAAGCAAACTTGAGTACTTGACTGTTATTGGATCCT
1 CACCAAACTCATCATTATGTTAAAAAAAAAAAGCAAACTTGAGTACTTGACTGTTATTGGATCCT
*
95735 ATTTATTTTCTTGGGTAAACTACCTATTTAATCATTCACCTATTACTTAGTTTCTATTTGGGTCA
66 ATTTATTTTCTTGGGTAAACTACCTATTTAATCATTCACCTATTACATAGTTTCTATTTGGGTCA
95800 CCCAATTA-TTTTTTTTCAAAATCATATCTAAGTTACGTTTTGGTTCTATTTTATT
131 CCCAATTATTTTTTTTTCAAAATCATATCTAAGTTACGTTTTGGTTCTATTTTATT
95855 CACCTAAACTCATCATTATGTTAAAAAAAAAAAGCAAACTTGAGTACTTGACTGTTATTGGATCC
1 CACC-AAACTCATCATTATGTTAAAAAAAAAAAGCAAACTTGAGTACTTGACTGTTATTGGATCC
* *
95920 TATTTGTTTTCTTGGGTAAACTACCTATTTAATCATTCACCTGTTACATAGTTTCTATTTGGGTC
65 TATTTATTTTCTTGGGTAAACTACCTATTTAATCATTCACCTATTACATAGTTTCTATTTGGGTC
95985 ACCCAATTATTTTTTTTTCAAAATCATATCTAAGTTACGTTTTGGTTCTATTTTATT
130 ACCCAATTATTTTTTTTTCAAAATCATATCTAAGTTACGTTTTGGTTCTATTTTATT
96042 CACC
1 CACC
96046 CATCGTTAAA
Statistics
Matches: 186, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
185 4 0.02
186 131 0.70
187 51 0.27
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.42
Consensus pattern (186 bp):
CACCAAACTCATCATTATGTTAAAAAAAAAAAGCAAACTTGAGTACTTGACTGTTATTGGATCCT
ATTTATTTTCTTGGGTAAACTACCTATTTAATCATTCACCTATTACATAGTTTCTATTTGGGTCA
CCCAATTATTTTTTTTTCAAAATCATATCTAAGTTACGTTTTGGTTCTATTTTATT
Found at i:98579 original size:125 final size:127
Alignment explanation
Indices: 98423--98656 Score: 321
Period size: 125 Copynumber: 1.9 Consensus size: 127
98413 CTAAAAATGA
* *
98423 AGGCTCTAATATTAACCCTAATAAATTATTGAATCGAGTAATCGAAATGGACCATCGAGCAATAA
1 AGGCTCTAATATTAACCCT-ATAAATTATTGAATCGAATAATCAAAATGGACCATCGAGCAATAA
** *
98488 GGTTAGGG-TGAAATTGAATTATCCCCTAATTAAAGGAATAAAGTGAAATTAAGGCTAAAGTGG
65 GGCGAGGGCT-AAATCGAATTATCCCCTAATTAAAGGAATAAAGTGAAATTAAGGCTAAAGTGG
* * * * * *
98551 AGGCTCTAATATTAA-CCT-TAAATTATTGAGTGGAATAATCAAAATGGATCATTGGGCATTAAG
1 AGGCTCTAATATTAACCCTATAAATTATTGAATCGAATAATCAAAATGGACCATCGAGCAATAAG
*
98614 GCGAGGGCTAAATCGAATTATCCCCTAATTAAAGGACTAAAGT
66 GCGAGGGCTAAATCGAATTATCCCCTAATTAAAGGAATAAAGT
98657 TGATTATTAT
Statistics
Matches: 93, Mismatches: 12, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
125 74 0.80
126 1 0.01
127 3 0.03
128 15 0.16
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.27
Consensus pattern (127 bp):
AGGCTCTAATATTAACCCTATAAATTATTGAATCGAATAATCAAAATGGACCATCGAGCAATAAG
GCGAGGGCTAAATCGAATTATCCCCTAATTAAAGGAATAAAGTGAAATTAAGGCTAAAGTGG
Found at i:100412 original size:31 final size:29
Alignment explanation
Indices: 100327--100414 Score: 104
Period size: 31 Copynumber: 2.9 Consensus size: 29
100317 TAAAAATTTA
*
100327 GGTACTCAAATGAAACAAAAAGTTAACAATG
1 GGTACTAAAATGAAACAAAAAG-TAA-AATG
* *
100358 GGTACTAAAATGAAATAAAAAGTAAATGTCG
1 GGTACTAAAATGAAACAAAAAGTAAA-AT-G
*
100389 GGTACTAAAATGAAACAATAAGTAAA
1 GGTACTAAAATGAAACAAAAAGTAAA
100415 CTTTAGGCAT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
29 1 0.02
30 4 0.08
31 45 0.90
ACGTcount: A:0.53, C:0.09, G:0.17, T:0.20
Consensus pattern (29 bp):
GGTACTAAAATGAAACAAAAAGTAAAATG
Found at i:100551 original size:27 final size:29
Alignment explanation
Indices: 100520--100580 Score: 92
Period size: 27 Copynumber: 2.2 Consensus size: 29
100510 TTTAGTCATG
100520 CAATATAGTTACAA-CTACCACAT-G-AAA
1 CAATATAGTTACAAGC-ACCACATGGAAAA
100547 CAATATAGTTACAAGCACCACATGGAAAA
1 CAATATAGTTACAAGCACCACATGGAAAA
100576 CAATA
1 CAATA
100581 AAAAAACATA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
27 21 0.68
28 2 0.06
29 8 0.26
ACGTcount: A:0.49, C:0.21, G:0.10, T:0.20
Consensus pattern (29 bp):
CAATATAGTTACAAGCACCACATGGAAAA
Found at i:101523 original size:52 final size:52
Alignment explanation
Indices: 101386--101532 Score: 177
Period size: 52 Copynumber: 2.8 Consensus size: 52
101376 CCTGATAGTC
* * * *
101386 GTTATTATTAGCGAATTTTGCTAGTGACAAATAATATTCTCAAATAATAATT
1 GTTATTATAAGCGAATTTAGCTAGTGACAAATAATGTTCCCAAATAATAATT
* * * **
101438 GTTATTATAAGCAAATTTAGCTAGTAACGAATAATGTTCCCACCTAATAATT
1 GTTATTATAAGCGAATTTAGCTAGTGACAAATAATGTTCCCAAATAATAATT
* * * *
101490 GTTATTATAAGCGAATTTAACTAATGGCAAATAATGTTACCAA
1 GTTATTATAAGCGAATTTAGCTAGTGACAAATAATGTTCCCAA
101533 CTGCTTTGGA
Statistics
Matches: 78, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
52 78 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (52 bp):
GTTATTATAAGCGAATTTAGCTAGTGACAAATAATGTTCCCAAATAATAATT
Found at i:101945 original size:43 final size:43
Alignment explanation
Indices: 101884--101985 Score: 158
Period size: 39 Copynumber: 2.5 Consensus size: 43
101874 CATGATATGC
101884 CCTAGCCAAATCTACAATATATATGACACTAATATCTACATGA
1 CCTAGCCAAATCTACAATATATATGACACTAATATCTACATGA
*
101927 CCTAGCCAAATCTAC---A-ATATGACATTAATATCTACATGA
1 CCTAGCCAAATCTACAATATATATGACACTAATATCTACATGA
*
101966 CCTAGCCAAATCTGCAATAT
1 CCTAGCCAAATCTACAATAT
101986 GACCTTGCCA
Statistics
Matches: 53, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
39 36 0.68
40 1 0.02
42 1 0.02
43 15 0.28
ACGTcount: A:0.40, C:0.25, G:0.08, T:0.27
Consensus pattern (43 bp):
CCTAGCCAAATCTACAATATATATGACACTAATATCTACATGA
Found at i:108925 original size:60 final size:60
Alignment explanation
Indices: 108715--108926 Score: 241
Period size: 60 Copynumber: 3.5 Consensus size: 60
108705 GGCTCATTCA
* ** * *
108715 CTTTGTGCATAGGGTAAGTCCTTATGGACCCGGGGGAACTCCCATCAGGTGGCTCCTTTGT
1 CTTTGTGCATTGGGTAAGTCCTTATGGACATGAGGGAACTCCCCTCAGGTGGCTCCTTT-T
* * * ** *
108776 -TTTGTGCATTGGGTATGTCCTTATGGAGC-T-AGAGACACTCACCTCTTGTGGCTCCTTTG
1 CTTTGTGCATTGGGTAAGTCCTTATGGA-CATGAGGGA-ACTCCCCTCAGGTGGCTCCTTTT
* ** *
108835 CTTTGTGCATTGGGTTAGTCCTTATGGACATGAGGGAACTCCCCTCAGGTGATTGCTTTT
1 CTTTGTGCATTGGGTAAGTCCTTATGGACATGAGGGAACTCCCCTCAGGTGGCTCCTTTT
108895 CTTTGTGCATTGGGTAAGTCCTTATGGACATG
1 CTTTGTGCATTGGGTAAGTCCTTATGGACATG
108927 GGGGTACTTC
Statistics
Matches: 125, Mismatches: 21, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
59 4 0.03
60 116 0.93
61 5 0.04
ACGTcount: A:0.17, C:0.21, G:0.27, T:0.35
Consensus pattern (60 bp):
CTTTGTGCATTGGGTAAGTCCTTATGGACATGAGGGAACTCCCCTCAGGTGGCTCCTTTT
Found at i:108951 original size:120 final size:120
Alignment explanation
Indices: 108715--108981 Score: 276
Period size: 120 Copynumber: 2.2 Consensus size: 120
108705 GGCTCATTCA
* * *
108715 CTTTGTGCATAGGGTAAGTCCTTATGGACCCGGGGGAACTCCCATCAGGTGGCTCCTTTGTTTTG
1 CTTTGTGCATAGGGTAAGTCCTTATGGACACGAGGGAACTCCCATCAGGTGACTCCTTTGTTTTG
* ** **
108780 TGCATTGGGTATGTCCTTATGGAGCTAGAGACACTCACCTCTTGTGGCTCCTTTG
66 TGCATTGGGTAAGTCCTTATGGAGCTAGAGACACTCACCTCTTGTCACTCCTACG
* * * * * *
108835 CTTTGTGCATTGGGTTAGTCCTTATGGACATGAGGGAACTCCCCTCAGGTGATTGCTTT-TCTTT
1 CTTTGTGCATAGGGTAAGTCCTTATGGACACGAGGGAACTCCCATCAGGTGACTCCTTTGT-TTT
* * ** *
108899 GTGCATTGGGTAAGTCCTTATGGA-CATGGGGGTACT-TCCT-TTAGGTCACTCCTACG
65 GTGCATTGGGTAAGTCCTTATGGAGC-TAGAGACACTCACCTCTT--GTCACTCCTACG
*
108955 CTTCG-GC-TAGGGTAAGTCCTTATGGAC
1 CTTTGTGCATAGGGTAAGTCCTTATGGAC
108982 CCAAGGTGCT
Statistics
Matches: 121, Mismatches: 22, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
118 20 0.17
119 7 0.06
120 94 0.78
ACGTcount: A:0.16, C:0.22, G:0.27, T:0.34
Consensus pattern (120 bp):
CTTTGTGCATAGGGTAAGTCCTTATGGACACGAGGGAACTCCCATCAGGTGACTCCTTTGTTTTG
TGCATTGGGTAAGTCCTTATGGAGCTAGAGACACTCACCTCTTGTCACTCCTACG
Found at i:109450 original size:16 final size:16
Alignment explanation
Indices: 109429--109468 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
109419 AAGAATCAAT
109429 CATCAGCAGATATCGA
1 CATCAGCAGATATCGA
109445 CATCAGCAGATATCGA
1 CATCAGCAGATATCGA
109461 CATCAGCA
1 CATCAGCA
109469 ATGGGAATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.38, C:0.28, G:0.17, T:0.17
Consensus pattern (16 bp):
CATCAGCAGATATCGA
Found at i:110068 original size:43 final size:44
Alignment explanation
Indices: 110019--110102 Score: 134
Period size: 43 Copynumber: 1.9 Consensus size: 44
110009 CTTGATTTCA
110019 AATTTAAATAAATTAATAAAATTATATCTCAAT-TTTTATTTTT
1 AATTTAAATAAATTAATAAAATTATATCTCAATATTTTATTTTT
* * *
110062 AATTTAAATAAATTAATAAATTTATTTTTCAATATTTTATT
1 AATTTAAATAAATTAATAAAATTATATCTCAATATTTTATT
110103 AATTTTTACG
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
43 30 0.81
44 7 0.19
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (44 bp):
AATTTAAATAAATTAATAAAATTATATCTCAATATTTTATTTTT
Found at i:114642 original size:2 final size:2
Alignment explanation
Indices: 114635--114680 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
114625 AGTGCTATTA
114635 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
114677 AT AT
1 AT AT
114681 TTATTTATTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:117132 original size:31 final size:30
Alignment explanation
Indices: 117072--117145 Score: 87
Period size: 32 Copynumber: 2.4 Consensus size: 30
117062 GGGGCCTGCG
*
117072 AGCCTACCCAAGATAATTCACGGGGCCACAA
1 AGCCTACCCAAGAAAATTCAC-GGGCCACAA
* *
117103 AGGCTTACCCAAGAAAATCTCA-GGGCCACAG
1 A-GCCTACCCAAGAAAAT-TCACGGGCCACAA
117134 AGCCTACCCAAG
1 AGCCTACCCAAG
117146 GCTCGACTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
30 10 0.27
31 10 0.27
32 14 0.38
33 3 0.08
ACGTcount: A:0.35, C:0.32, G:0.20, T:0.12
Consensus pattern (30 bp):
AGCCTACCCAAGAAAATTCACGGGCCACAA
Found at i:118394 original size:29 final size:28
Alignment explanation
Indices: 118160--118382 Score: 313
Period size: 28 Copynumber: 7.9 Consensus size: 28
118150 ACATTTTTTT
* *
118160 ATAATTACGAAAATATCACCTTTTTCGAA
1 ATAATTACCAAAATATCA-CTTTTTTGAA
118189 ATAATTACCAAAATATCACTTTTTTGAA
1 ATAATTACCAAAATATCACTTTTTTGAA
118217 ATAATTACCAAAATATCACTTTTTTGAA
1 ATAATTACCAAAATATCACTTTTTTGAA
* *
118245 ATAATTACCAAATTGTCACTTTTTTTGAA
1 ATAATTACCAAAATATCAC-TTTTTTGAA
*
118274 ATAATTACCAAAAAATCA-TTTTTTGAA
1 ATAATTACCAAAATATCACTTTTTTGAA
* * *
118301 ATATTTTCCAAAATATCACTTTTTCGAA
1 ATAATTACCAAAATATCACTTTTTTGAA
*
118329 ATAATTACCAAAATATCATTTTTTTCGAA
1 ATAATTACCAAAATATCACTTTTTT-GAA
* *
118358 ATAATTACCAAAATATAATTTTTTT
1 ATAATTACCAAAATATCACTTTTTT
118383 TAAAATATTT
Statistics
Matches: 175, Mismatches: 16, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
27 24 0.14
28 83 0.47
29 68 0.39
ACGTcount: A:0.41, C:0.14, G:0.04, T:0.41
Consensus pattern (28 bp):
ATAATTACCAAAATATCACTTTTTTGAA
Found at i:118451 original size:30 final size:29
Alignment explanation
Indices: 118377--118481 Score: 142
Period size: 30 Copynumber: 3.7 Consensus size: 29
118367 AAAATATAAT
118377 TTTTTTTAA-AATATTTACGAAACTAACA
1 TTTTTTTAATAATATTTACGAAACTAACA
** * *
118405 CCTTCTTAATAGTATTTACGAAACTAACA
1 TTTTTTTAATAATATTTACGAAACTAACA
118434 TTTTTTTTAATAATATTTACGAAACTAACA
1 -TTTTTTTAATAATATTTACGAAACTAACA
*
118464 -TTTTTTAACAATATTTAC
1 TTTTTTTAATAATATTTAC
118482 AAAAATACCA
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
28 23 0.35
29 18 0.27
30 25 0.38
ACGTcount: A:0.39, C:0.13, G:0.04, T:0.44
Consensus pattern (29 bp):
TTTTTTTAATAATATTTACGAAACTAACA
Found at i:123655 original size:10 final size:10
Alignment explanation
Indices: 123640--123666 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
123630 ATCTCAAGGT
123640 TCCAAATTGA
1 TCCAAATTGA
123650 TCCAAATTGA
1 TCCAAATTGA
123660 TCCAAAT
1 TCCAAAT
123667 CATATAGTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.30
Consensus pattern (10 bp):
TCCAAATTGA
Found at i:126889 original size:22 final size:21
Alignment explanation
Indices: 126847--126886 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
126837 GAGTTTATTT
*
126847 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
126868 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
126887 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:128786 original size:21 final size:21
Alignment explanation
Indices: 128760--128801 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
128750 GGTTCCTAAG
128760 TGTAAAATTCAAATATTTCGA
1 TGTAAAATTCAAATATTTCGA
128781 TGTAAAATTCAAATATTTCGA
1 TGTAAAATTCAAATATTTCGA
128802 CCGTTGAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.38
Consensus pattern (21 bp):
TGTAAAATTCAAATATTTCGA
Found at i:128921 original size:19 final size:21
Alignment explanation
Indices: 128883--128941 Score: 86
Period size: 20 Copynumber: 2.9 Consensus size: 21
128873 AAACCATTCA
128883 GGGGGAATCGTACCCTCTT-G
1 GGGGGAATCGTACCCTCTTGG
128903 GGGGGAATCGTACCC-CTTGG
1 GGGGGAATCGTACCCTCTTGG
*
128923 GGGGGAATCGGTTCCCTCT
1 GGGGGAATC-GTACCCTCT
128942 GAGCATCTGG
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
19 3 0.09
20 25 0.71
21 5 0.14
22 2 0.06
ACGTcount: A:0.14, C:0.25, G:0.37, T:0.24
Consensus pattern (21 bp):
GGGGGAATCGTACCCTCTTGG
Found at i:138734 original size:77 final size:77
Alignment explanation
Indices: 138607--138761 Score: 267
Period size: 77 Copynumber: 2.0 Consensus size: 77
138597 ACACTCATTA
* *
138607 GAGAGATTTTAAACTCCAAATTAAGTTGGATGGCTTAAGGGATAATTGTCCCAAATAGGGTATT-
1 GAGAGATTTTAAACTCCAAATTAAGTTGGATGACTAAAGGGATAATTGTCCCAAATAGGGT-TTA
138671 ATGGTAGATTTTT
65 ATGGTAGATTTTT
*
138684 GAGAGATTTTGAACTCCAAATTAAGTTGGATGACTAAAGGGATAATTGTCCCAAATAGGGTTTAA
1 GAGAGATTTTAAACTCCAAATTAAGTTGGATGACTAAAGGGATAATTGTCCCAAATAGGGTTTAA
138749 TGGTAGATTTTT
66 TGGTAGATTTTT
138761 G
1 G
138762 GCAAAAAGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
76 2 0.03
77 72 0.97
ACGTcount: A:0.33, C:0.09, G:0.24, T:0.34
Consensus pattern (77 bp):
GAGAGATTTTAAACTCCAAATTAAGTTGGATGACTAAAGGGATAATTGTCCCAAATAGGGTTTAA
TGGTAGATTTTT
Found at i:139073 original size:35 final size:35
Alignment explanation
Indices: 139027--139097 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
139017 TGTCTCGTTT
* *
139027 AAAGGGGTTTTAGTGTTTGATCTAGGGGTTAGATG
1 AAAGGGGTTTTAGTGTTCGATCTAGGCGTTAGATG
*
139062 AAAGGGGTTTTAGTGTTCGATCTAGGCGTTATATG
1 AAAGGGGTTTTAGTGTTCGATCTAGGCGTTAGATG
139097 A
1 A
139098 GGAGACGAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.24, C:0.06, G:0.34, T:0.37
Consensus pattern (35 bp):
AAAGGGGTTTTAGTGTTCGATCTAGGCGTTAGATG
Found at i:140678 original size:18 final size:18
Alignment explanation
Indices: 140655--140691 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
140645 ACCGGTCATA
140655 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
*
140673 ACCCGACCCGACTCGTTG
1 ACCCGACCCGACCCGTTG
140691 A
1 A
140692 TCGTTGATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.19, C:0.46, G:0.22, T:0.14
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:143238 original size:12 final size:12
Alignment explanation
Indices: 143201--143263 Score: 51
Period size: 12 Copynumber: 5.2 Consensus size: 12
143191 ATCTGATACT
143201 TGACATGGATTC
1 TGACATGGATTC
143213 TGATC-T-GATATC
1 TGA-CATGGAT-TC
143225 TGACATGGATTC
1 TGACATGGATTC
* *
143237 TGATAT-GATAC
1 TGACATGGATTC
*
143248 TTGACTTGGATTC
1 -TGACATGGATTC
143261 TGA
1 TGA
143264 TCTGTTACTT
Statistics
Matches: 40, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
11 8 0.20
12 24 0.60
13 8 0.20
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.38
Consensus pattern (12 bp):
TGACATGGATTC
Found at i:143307 original size:24 final size:24
Alignment explanation
Indices: 143185--143300 Score: 155
Period size: 24 Copynumber: 4.8 Consensus size: 24
143175 TTCGATTTGA
143185 ATTCTGATCTGATACTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
143209 ATTCTGATCTGATA-TCTGACATGG
1 ATTCTGATCTGATACT-TGACATGG
* *
143233 ATTCTGATATGATACTTGACTTGG
1 ATTCTGATCTGATACTTGACATGG
* *
143257 ATTCTGATCTGTTACTTGACCT-G
1 ATTCTGATCTGATACTTGACATGG
*
143280 ATTTCTGATATGATACTTGAC
1 A-TTCTGATCTGATACTTGAC
143301 CTGATTTATG
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
23 3 0.04
24 78 0.95
25 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.41
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:143323 original size:24 final size:24
Alignment explanation
Indices: 143237--143310 Score: 87
Period size: 24 Copynumber: 3.1 Consensus size: 24
143227 ACATGGATTC
* *
143237 TGATATGATACTTGACTTGGA-TTC
1 TGATATGATACTTGACCT-GATTTA
* * *
143261 TGATCTGTTACTTGACCTGATTTC
1 TGATATGATACTTGACCTGATTTA
143285 TGATATGATACTTGACCTGATTTA
1 TGATATGATACTTGACCTGATTTA
143309 TG
1 TG
143311 TTTTGATTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
23 2 0.05
24 41 0.95
ACGTcount: A:0.23, C:0.15, G:0.19, T:0.43
Consensus pattern (24 bp):
TGATATGATACTTGACCTGATTTA
Found at i:145405 original size:13 final size:13
Alignment explanation
Indices: 145387--145414 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
145377 ACCGGTCATA
145387 ACCCGACCCGTTG
1 ACCCGACCCGTTG
145400 ACCCGACCCGTTG
1 ACCCGACCCGTTG
145413 AC
1 AC
145415 TGTTGACCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.18, C:0.46, G:0.21, T:0.14
Consensus pattern (13 bp):
ACCCGACCCGTTG
Found at i:145428 original size:15 final size:15
Alignment explanation
Indices: 145404--145437 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
145394 CCGTTGACCC
* *
145404 GACCCGTTGACTGTT
1 GACCCATTGACCGTT
145419 GACCCATTGACCGTT
1 GACCCATTGACCGTT
145434 GACC
1 GACC
145438 GGCGTTGACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.32, G:0.24, T:0.26
Consensus pattern (15 bp):
GACCCATTGACCGTT
Found at i:147974 original size:12 final size:12
Alignment explanation
Indices: 147937--147999 Score: 58
Period size: 12 Copynumber: 5.2 Consensus size: 12
147927 ATATGATACT
147937 TGACATGGATTC
1 TGACATGGATTC
*
147949 TGATAT-GATATC
1 TGACATGGAT-TC
147961 TGACATGGATTC
1 TGACATGGATTC
* *
147973 TGATAT-GATAC
1 TGACATGGATTC
*
147984 TTGACTTGGATTC
1 -TGACATGGATTC
147997 TGA
1 TGA
148000 TCTGTTACTT
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
11 7 0.17
12 26 0.65
13 7 0.17
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.38
Consensus pattern (12 bp):
TGACATGGATTC
Found at i:148043 original size:24 final size:24
Alignment explanation
Indices: 147921--148036 Score: 164
Period size: 24 Copynumber: 4.8 Consensus size: 24
147911 TTCGATTTGA
147921 ATTCTGATATGATACTTGACATGG
1 ATTCTGATATGATACTTGACATGG
147945 ATTCTGATATGATA-TCTGACATGG
1 ATTCTGATATGATACT-TGACATGG
*
147969 ATTCTGATATGATACTTGACTTGG
1 ATTCTGATATGATACTTGACATGG
* * *
147993 ATTCTGATCTGTTACTTGACCT-G
1 ATTCTGATATGATACTTGACATGG
148016 ATTTCTGATATGATACTTGAC
1 A-TTCTGATATGATACTTGAC
148037 CTGATTTATG
Statistics
Matches: 83, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
23 3 0.04
24 79 0.95
25 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.41
Consensus pattern (24 bp):
ATTCTGATATGATACTTGACATGG
Found at i:149625 original size:3 final size:3
Alignment explanation
Indices: 149613--149686 Score: 123
Period size: 3 Copynumber: 25.0 Consensus size: 3
149603 CATCTTACTT
149613 TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
149660 TAT TAA TAA TAT TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
149687 GAGTAGTTAG
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
2 2 0.03
3 64 0.97
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:158288 original size:16 final size:17
Alignment explanation
Indices: 158256--158296 Score: 66
Period size: 16 Copynumber: 2.5 Consensus size: 17
158246 ATCAAAGGTC
*
158256 CGGTCAACGGTGGTCAA
1 CGGTCAACGGCGGTCAA
158273 CGGTCAAC-GCGGTCAA
1 CGGTCAACGGCGGTCAA
158289 CGGTCAAC
1 CGGTCAAC
158297 AGTGATCAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 15 0.65
17 8 0.35
ACGTcount: A:0.24, C:0.29, G:0.32, T:0.15
Consensus pattern (17 bp):
CGGTCAACGGCGGTCAA
Found at i:162208 original size:17 final size:17
Alignment explanation
Indices: 162186--162224 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
162176 TAATAAACTA
*
162186 ATGATAATTAAATTATT
1 ATGATAATTAAATTAAT
162203 ATGATAATTAAATTAAT
1 ATGATAATTAAATTAAT
162220 ATGAT
1 ATGAT
162225 TACTTTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.44
Consensus pattern (17 bp):
ATGATAATTAAATTAAT
Found at i:162252 original size:51 final size:51
Alignment explanation
Indices: 162194--162290 Score: 185
Period size: 51 Copynumber: 1.9 Consensus size: 51
162184 TAATGATAAT
*
162194 TAAATTATTATGATAATTAAATTAATATGATTACTTTTTAAAATTTTATCA
1 TAAATTATTACGATAATTAAATTAATATGATTACTTTTTAAAATTTTATCA
162245 TAAATTATTACGATAATTAAATTAATATGATTACTTTTTAAAATTT
1 TAAATTATTACGATAATTAAATTAATATGATTACTTTTTAAAATTT
162291 AGTTTTATAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.48
Consensus pattern (51 bp):
TAAATTATTACGATAATTAAATTAATATGATTACTTTTTAAAATTTTATCA
Found at i:163163 original size:18 final size:18
Alignment explanation
Indices: 163140--163175 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
163130 AAATTATACA
*
163140 TAATTAAAATGAATGCAT
1 TAATTAAAATAAATGCAT
163158 TAATTAAAATAAATGCAT
1 TAATTAAAATAAATGCAT
163176 AGACCAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.53, C:0.06, G:0.08, T:0.33
Consensus pattern (18 bp):
TAATTAAAATAAATGCAT
Found at i:165908 original size:61 final size:61
Alignment explanation
Indices: 165772--165913 Score: 158
Period size: 61 Copynumber: 2.3 Consensus size: 61
165762 TTTTAATTTT
* ** * *
165772 AAATTTATTTAATTTAATTCAAATATAATGATGTAATATATTAATTTAAGATTCATATTTC
1 AAATTTATTTAATTTAATCCAAATATAATGATACAATATATTAATTTAAGATTCATAATTA
* * * * * *
165833 AACTTTTTTTAATTTAATCCAAATTTAATGTTACAATTTATTAATTTAAGCTTCATAATTA
1 AAATTTATTTAATTTAATCCAAATATAATGATACAATATATTAATTTAAGATTCATAATTA
* * *
165894 AAATTTGTTCAATTTGATCC
1 AAATTTATTTAATTTAATCC
165914 TTATATATTT
Statistics
Matches: 66, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
61 66 1.00
ACGTcount: A:0.39, C:0.08, G:0.05, T:0.48
Consensus pattern (61 bp):
AAATTTATTTAATTTAATCCAAATATAATGATACAATATATTAATTTAAGATTCATAATTA
Found at i:166016 original size:60 final size:59
Alignment explanation
Indices: 165944--166140 Score: 182
Period size: 58 Copynumber: 3.2 Consensus size: 59
165934 TCAATTAAAA
*
165944 TATATGTTTATAT-TAATAAATTAATATATAGTTTATATATACTAATGAACTATATAATA
1 TATA-GTTTATATATAATAAATTAATATATAGTTTATATATACTAATGAACTATATAATG
* ** * * *
166003 TATAGTTTGTATATACCATA-TACTATATAGGTTATATATACTAATGAACTATATATAATG
1 TATAGTTTATATATAATAAATTAATATATAGTTTATATATACTAATGAAC--TATATAATG
* *
166063 TATAGTTTATATATACCATATAGTCTATATATGTTATATAGTTTATATATACTAATAAACTATAT
1 TATAGTTTATATATA--ATA-A----AT-TA--ATATATAGTTTATATATACTAATGAACTATAT
166128 AATG
56 AATG
166132 TATAGTTTA
1 TATAGTTTA
166141 GGGTTTAAGA
Statistics
Matches: 110, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
58 34 0.31
59 8 0.07
60 22 0.20
62 1 0.01
67 1 0.01
69 20 0.18
71 24 0.22
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.45
Consensus pattern (59 bp):
TATAGTTTATATATAATAAATTAATATATAGTTTATATATACTAATGAACTATATAATG
Found at i:166029 original size:25 final size:25
Alignment explanation
Indices: 165995--166043 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
165985 CTAATGAACT
* *
165995 ATATAATATATAGTTTGTATATACC
1 ATATAATATATAGGTTATATATACC
*
166020 ATATACTATATAGGTTATATATAC
1 ATATAATATATAGGTTATATATAC
166044 TAATGAACTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.43
Consensus pattern (25 bp):
ATATAATATATAGGTTATATATACC
Found at i:166041 original size:18 final size:18
Alignment explanation
Indices: 166020--166116 Score: 74
Period size: 18 Copynumber: 5.4 Consensus size: 18
166010 TGTATATACC
166020 ATATACTATATAGGTTAT
1 ATATACTATATAGGTTAT
**
166038 ATATACTA-AT-GAACTAT
1 ATATACTATATAG-GTTAT
* * *
166055 ATATAATGTATAGTTTAT
1 ATATACTATATAGGTTAT
*
166073 ATATACCATATA-GTCTAT
1 ATATACTATATAGGT-TAT
** *
166091 ATATGTTATATAGTTTAT
1 ATATACTATATAGGTTAT
166109 ATATACTA
1 ATATACTA
166117 ATAAACTATA
Statistics
Matches: 58, Mismatches: 16, Indels: 10
0.69 0.19 0.12
Matches are distributed among these distances:
16 1 0.02
17 12 0.21
18 43 0.74
19 2 0.03
ACGTcount: A:0.40, C:0.07, G:0.08, T:0.44
Consensus pattern (18 bp):
ATATACTATATAGGTTAT
Found at i:166041 original size:58 final size:60
Alignment explanation
Indices: 165968--166102 Score: 202
Period size: 60 Copynumber: 2.2 Consensus size: 60
165958 AATAAATTAA
* *
165968 TATATAGTTTATATATACTAATGAAC-TATATAATATATAGTTTGTATATACCATATA-C
1 TATATAGGTTATATATACTAATGAACATATATAATATATAGTTTATATATACCATATAGC
*
166026 TATATAGGTTATATATACTAATGAACTATATATAATGTATAGTTTATATATACCATATAGTC
1 TATATAGGTTATATATACTAATGAAC-ATATATAATATATAGTTTATATATACCATATAG-C
*
166088 TATATATGTTATATA
1 TATATAGGTTATATA
166103 GTTTATATAT
Statistics
Matches: 69, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
58 25 0.36
60 29 0.42
62 15 0.22
ACGTcount: A:0.41, C:0.07, G:0.08, T:0.44
Consensus pattern (60 bp):
TATATAGGTTATATATACTAATGAACATATATAATATATAGTTTATATATACCATATAGC
Found at i:166314 original size:27 final size:27
Alignment explanation
Indices: 166284--166339 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
166274 AAATATCAAC
166284 TATAGTATATAGGTCATATGTAAACTA
1 TATAGTATATAGGTCATATGTAAACTA
* *
166311 TATATTATATAGTTCATATGTAAACTA
1 TATAGTATATAGGTCATATGTAAACTA
166338 TA
1 TA
166340 GTTTATGTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (27 bp):
TATAGTATATAGGTCATATGTAAACTA
Found at i:166339 original size:18 final size:18
Alignment explanation
Indices: 166318--166407 Score: 85
Period size: 18 Copynumber: 4.8 Consensus size: 18
166308 CTATATATTA
*
166318 TATAGTTCATATGTAAAC
1 TATAGTTTATATGTAAAC
* *
166336 TATAGTTTATGTAAATATTAAC
1 TATAGTTTA--T--ATGTAAAC
166358 TATAGTTTATATGT-AAC
1 TATAGTTTATATGTAAAC
*
166375 TATAG-TTAGTATATAAAC
1 TATAGTTTA-TATGTAAAC
166393 TATAGTTTATATGTA
1 TATAGTTTATATGTA
166408 CTATATTCCA
Statistics
Matches: 59, Mismatches: 6, Indels: 14
0.75 0.08 0.18
Matches are distributed among these distances:
16 3 0.05
17 12 0.20
18 24 0.41
19 3 0.05
20 2 0.03
22 15 0.25
ACGTcount: A:0.39, C:0.06, G:0.11, T:0.44
Consensus pattern (18 bp):
TATAGTTTATATGTAAAC
Found at i:166345 original size:27 final size:27
Alignment explanation
Indices: 166281--166345 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
166271 TATAAATATC
166281 AACTATAG--TATATAGGTCATATGTA
1 AACTATAGTTTATATAGGTCATATGTA
*
166306 AACTATA-TATTATATAGTTCATATGTA
1 AACTATAGT-TTATATAGGTCATATGTA
166333 AACTATAGTTTAT
1 AACTATAGTTTAT
166346 GTAAATATTA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
25 7 0.20
27 27 0.77
28 1 0.03
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.42
Consensus pattern (27 bp):
AACTATAGTTTATATAGGTCATATGTA
Found at i:166399 original size:35 final size:38
Alignment explanation
Indices: 166318--166412 Score: 126
Period size: 35 Copynumber: 2.6 Consensus size: 38
166308 CTATATATTA
* *
166318 TATAGTTCATATGTAAACTATAGTTTATGTAAATATTAAC
1 TATAGTTTATATGT-AACTATAGTTTATGT-AATATAAAC
166358 TATAGTTTATATGTAACTATAG-TTA-GT-ATATAAAC
1 TATAGTTTATATGTAACTATAGTTTATGTAATATAAAC
166393 TATAGTTTATATGT-ACTATA
1 TATAGTTTATATGTAACTATA
166413 TTCCATATAT
Statistics
Matches: 53, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
34 6 0.11
35 21 0.40
37 2 0.04
38 3 0.06
39 8 0.15
40 13 0.25
ACGTcount: A:0.39, C:0.06, G:0.11, T:0.44
Consensus pattern (38 bp):
TATAGTTTATATGTAACTATAGTTTATGTAATATAAAC
Found at i:166500 original size:6 final size:6
Alignment explanation
Indices: 166489--167683 Score: 1566
Period size: 6 Copynumber: 205.5 Consensus size: 6
166479 ATTATATAGT
* * * * *
166489 ATATAA ATATAA ACTATAG TTATAT ATAT-A GTATAAA ATATAGT ATATAA
1 ATATAA ATATAA A-TATAA ATATAA ATATAA ATAT-AA ATATA-A ATATAA
* * * * *
166539 ATATAA TTATAGT ATGTAG TTATATAA ATATAA ATATAA ATAT-A ATATAA
1 ATATAA ATATA-A ATATAA ATATA--A ATATAA ATATAA ATATAA ATATAA
166589 ATAT-- ATATAA ATATAA ATATAA ATATAA ATATAA ATA-AA ATATAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
166634 ATAT-A ATAT-A ATATAA ATATAA ATAT-A ATATAA ATATAA A-ATAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
166678 ATATAA ATATAA ATATAA ATATAA ATATAA ATA-AA ATATAA ATATAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
166725 CTATAATAA ATATAA AT-TAA ATAT-A A-AT-A ATATAA ATATAA ATATAA
1 --AT-ATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
166772 ATAT-A A-ATAA ATAT-A A-ATAA ATAT-A ATATAA ATATAA ATATAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
*
166815 ATATAA ATATAA ATATAATA AAATAA ATATAA A-AT-A A-ATAA ATATAA
1 ATATAA ATATAA ATAT-A-A ATATAA ATATAA ATATAA ATATAA ATATAA
* *
166862 ATATAA ATATATA TAAATAA ATA-AA ATATAA ATAGAA ATATAA ATATAA
1 ATATAA ATATA-A -ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
166911 ATA-AA ATATAA ATATAA ATATAA ATATATA ATAT-A A-ATAA ATATAA
1 ATATAA ATATAA ATATAA ATATAA ATATA-A ATATAA ATATAA ATATAA
166957 ATATAA ATATAA ATATAA ATATAA ATAT-- A-ATAA ATATAA ATATTAAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATA-T-AA
167004 ATATAA ATATAA ATAT-A ATATAA AT-T-A ATATAA ATATATA ATAT--
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATA-A ATATAA
167048 ATATAA ATAATATA ATATAA ATATAA ATATAA ATATAA ATATAA ATAT-A
1 ATATAA AT-ATA-A ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
167097 A-ATAA ATATAA ATATAA ATATAA ATAT-A ATAT-A ATATAA ATATAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
167142 ATATAA ATATAA ATATAA ATATAA ATATAA ATA-AA ATATAA ATATAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
167189 ATATAA ATATAA ATATAA ATATAA ATATATA ATA-AA ATATATA A-ATAA
1 ATATAA ATATAA ATATAA ATATAA ATATA-A ATATAA ATATA-A ATATAA
167237 ATATAA ATATAA ATATAA ATATAA ATAT-- A-ATAA ATATAA ATATAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
167282 ATATAA ATATAA ATAT-A ATATAA AT-TAA ATATAA ATATAA ATATAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
167328 ATA-AA TATAATAA ATA-AA ATATAA ATA-AA ATATAA ATATAA ATATAA
1 ATATAA -AT-ATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
167375 ATA-AA ATAAATAA ATATAA ATA-AA ATATAA ATATAA ATATAAA ATATAA
1 ATATAA AT--ATAA ATATAA ATATAA ATATAA ATATAA ATAT-AA ATATAA
167424 ATATAA ATAT-A ATATAA ATATAA ATAT-A ATATAA ATATAA ATATAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
*
167470 ATA-GA A-ATAA ATAT-A ATATAA ATAT-A A-ATAA ATAT-A ATATAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
167512 ATATAA ATATAA ATAT-A ATATAA ATATAA ATATAA ATAT-A ATATAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
167558 ATATAA ATATAA ATATAA ATATAAA ATATAA ATATAA ATAT-A ATATAA
1 ATATAA ATATAA ATATAA ATAT-AA ATATAA ATATAA ATATAA ATATAA
167606 ATATAA ATATAA ATAT-A ATATAA ATATAA ATATAA ATATAA ATATAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
167653 ATATAA ATATAA ATA-AA ATATAA ATA-AA ATA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATA
Statistics
Matches: 1076, Mismatches: 26, Indels: 175
0.84 0.02 0.14
Matches are distributed among these distances:
3 4 0.00
4 32 0.03
5 201 0.19
6 745 0.69
7 62 0.06
8 28 0.03
9 4 0.00
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (6 bp):
ATATAA
Found at i:166505 original size:32 final size:31
Alignment explanation
Indices: 166442--166530 Score: 105
Period size: 32 Copynumber: 2.9 Consensus size: 31
166432 CCTTAGTATA
* *
166442 TATATTTATATATATAGTCAT---ATGTAAAC
1 TATAGTTATATATATAGT-ATAAAATATAAAC
166471 TATAGTTCAT-TATATAGTATATAAATATAAAC
1 TATAGTT-ATATATATAGTATA-AAATATAAAC
166503 TATAGTTATATATATAGTATAAAATATA
1 TATAGTTATATATATAGTATAAAATATA
166531 GTATATAAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
28 2 0.04
29 14 0.27
30 2 0.04
31 9 0.17
32 25 0.48
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (31 bp):
TATAGTTATATATATAGTATAAAATATAAAC
Found at i:166573 original size:33 final size:32
Alignment explanation
Indices: 166488--167678 Score: 713
Period size: 29 Copynumber: 38.7 Consensus size: 32
166478 CATTATATAG
**
166488 TATATAAATATAAACTATAGTTATATATATAGTA
1 TATATAAATATAAA-TATAAATATATAT-TAGTA
* *
166522 TAAAATATAGTATATAAATATAATTATAGTATGTAGT-
1 T---ATATA-AATATAAATATAAATATA-TAT-TAGTA
* *
166559 TATATAAATATAAATATAAATATAATATAAATA
1 TATATAAATATAAATATAAATAT-ATATTAGTA
*
166592 TATATAAATATAAATATAAATATA-AATA-TA
1 TATATAAATATAAATATAAATATATATTAGTA
* * *
166622 AATA-AAATATAAATAT-AATATAATATAAATA
1 TATATAAATATAAATATAAATAT-ATATTAGTA
* *
166653 TAAATATAATATAAATATAAA-ATA-AATA-TA
1 TATATA-AATATAAATATAAATATATATTAGTA
* *
166683 AATATAAATATAAATATAAATATA-AATA--A
1 TATATAAATATAAATATAAATATATATTAGTA
* * *
166712 AATATAAATATAACTATAATAAATATAAATTA-AA
1 TATATAAATATAA--AT-ATAAATATATATTAGTA
*
166746 TATAAATAATATAAATATAAATATA-A--A-TA
1 TATATA-AATATAAATATAAATATATATTAGTA
*
166775 TAAATAAATAT-AA-ATAAATATA-A-TA-TA
1 TATATAAATATAAATATAAATATATATTAGTA
* * *
166802 AATATAAATATAAATATAAATATAAATATAATA
1 TATATAAATATAAATATAAATATATAT-TAGTA
* * * *
166835 -AAATAAATATAAA-ATAAATAAATATAAATA
1 TATATAAATATAAATATAAATATATATTAGTA
* * *
166865 TAAATATATATAAATAAATAAA-ATATAAATAG-A
1 TATATAAATATAAAT--ATAAATATAT-ATTAGTA
* *
166898 AATATAAATATAAATA-AAATATA-AATA-TA
1 TATATAAATATAAATATAAATATATATTAGTA
*
166927 AATATAAATATATAATATAAATA-A-A-TA-TA
1 TATATAAATATA-AATATAAATATATATTAGTA
* * *
166956 AATATAAATATAAATATAAATATAAATATAATA
1 TATATAAATATAAATATAAATATATAT-TAGTA
* *
166989 AATATAAATATTAAAATATAAATATA-AATA-TA
1 TATATAAATA-T-AAATATAAATATATATTAGTA
167021 -ATATAAAT-T-AATATAAATATATA--A-TA
1 TATATAAATATAAATATAAATATATATTAGTA
*
167047 TATATAAATAATATAATATAAATATA-AATA-TA
1 TATATAAAT-ATA-AATATAAATATATATTAGTA
*
167079 AATATAAATATAAATATAAATA-A-A-TA-TA
1 TATATAAATATAAATATAAATATATATTAGTA
*
167107 AATATAAATATAAATAT-AATATA-A-TA-TA
1 TATATAAATATAAATATAAATATATATTAGTA
* *
167135 AATATAAATATAAATATAAATATA-AATA-TA
1 TATATAAATATAAATATAAATATATATTAGTA
* *
167165 AATATAAATA-AAATATAAATATA-AATA-TA
1 TATATAAATATAAATATAAATATATATTAGTA
* * *
167194 AATATAAATATAAATATAAATATATAATAAAATA
1 TATATAAATATAAATATAAATATAT-AT-TAGTA
* *
167228 TATAAATAAATATAAATATAAATATAAATATA-AA
1 TAT--ATAAATATAAATATAAATATATAT-TAGTA
*
167262 TATAATAAATATAAATATAAATATA-AATA-TA
1 TAT-ATAAATATAAATATAAATATATATTAGTA
* *
167293 AATAT-AATATAAAT-TAAATATA-AATA-TA
1 TATATAAATATAAATATAAATATATATTAGTA
* *
167321 AATATAAATA-AATATAATAAATA-A-AATA-TA
1 TATATAAATATAA-AT-ATAAATATATATTAGTA
* * **
167351 AATA-AAATATAAATATAAATATA-AATAAAA
1 TATATAAATATAAATATAAATATATATTAGTA
* *
167381 TAAATAAATATAAATA-AAATATA-AATA-TA
1 TATATAAATATAAATATAAATATATATTAGTA
* * *
167410 AATATAAAATATAAATATAAATATAATATAAATA
1 TATAT-AAATATAAATATAAATAT-ATATTAGTA
* *
167444 TAAATATAATATAAATATAAATATA-AATAG-A
1 TATATA-AATATAAATATAAATATATATTAGTA
* * *
167475 -A-ATAAATAT-AATATAAATATAAATAAATA
1 TATATAAATATAAATATAAATATATATTAGTA
167504 TAATATAAATATAAATATAAATATA-A-TA-TA
1 T-ATATAAATATAAATATAAATATATATTAGTA
* *
167534 AATATAAATATAAATAT-AATATA-AATA-TA
1 TATATAAATATAAATATAAATATATATTAGTA
* * *
167563 AATATAAATATAAATATAAAATATAAATATAAATA
1 TATATAAATATAAATAT-AAATAT--ATATTAGTA
167598 TAATATAAATATAAATATAAATATA-A-TA-TA
1 T-ATATAAATATAAATATAAATATATATTAGTA
* *
167628 AATATAAATATAAATATAAATATA-AATA-TA
1 TATATAAATATAAATATAAATATATATTAGTA
*
167658 AATATAAATA-AAATATAAATA
1 TATATAAATATAAATATAAATA
167679 AAATA
Statistics
Matches: 995, Mismatches: 72, Indels: 185
0.79 0.06 0.15
Matches are distributed among these distances:
26 13 0.01
27 50 0.05
28 109 0.11
29 237 0.24
30 132 0.13
31 102 0.10
32 67 0.07
33 132 0.13
34 55 0.06
35 32 0.03
36 37 0.04
37 15 0.02
38 14 0.01
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.34
Consensus pattern (32 bp):
TATATAAATATAAATATAAATATATATTAGTA
Found at i:166586 original size:23 final size:23
Alignment explanation
Indices: 166489--167683 Score: 1389
Period size: 23 Copynumber: 51.9 Consensus size: 23
166479 ATTATATAGT
* *
166489 ATATAAATATAAACTATAGT-TAT
1 ATATAAATATAAA-TATAATATAA
*
166512 ATATATAGTATAAAATATAGTATATAA
1 ATATA-AATAT-AAATATA--ATATAA
** *
166539 ATATAATTATAGTATGTAGTTATATAA
1 ATATAA--ATA-TAAATA-TAATATAA
166566 ATATAAATATAAATATAATATAA
1 ATATAAATATAAATATAATATAA
166589 ATAT--ATATAAATATAAATATAA
1 ATATAAATATAAATAT-AATATAA
*
166611 ATATAAATATAAATAAAATATAA
1 ATATAAATATAAATATAATATAA
166634 ATAT-AATAT-AATATAAATATAA
1 ATATAAATATAAATAT-AATATAA
*
166656 ATAT-AATATAAATATAAAATAA
1 ATATAAATATAAATATAATATAA
166678 ATATAAATATAAATATAAATATAA
1 ATATAAATATAAATAT-AATATAA
166702 ATATAAATA-AAATATAAATATAA
1 ATATAAATATAAATAT-AATATAA
166725 CTATAATAAATATAAAT-TAA-ATATA
1 --AT-ATAAATATAAATATAATATA-A
166750 A-AT-AATATAAATATAAATATAA
1 ATATAAATATAAATAT-AATATAA
166772 ATAT-AA-ATAAATATAA-ATAA
1 ATATAAATATAAATATAATATAA
166792 ATAT-AATATAAATATAAATATAA
1 ATATAAATATAAATAT-AATATAA
166815 ATATAAATATAAATAT-A-ATAA
1 ATATAAATATAAATATAATATAA
166836 A-ATAAATATAAA-ATAA-ATAA
1 ATATAAATATAAATATAATATAA
166856 ATATAAATATAAATAT-ATATAA
1 ATATAAATATAAATATAATATAA
*
166878 ATAAATAAAATATAAATAGAAATATAA
1 AT--AT-AAATATAAATA-TAATATAA
166905 ATATAAATA-AAATATAAATATAA
1 ATATAAATATAAATAT-AATATAA
166928 ATATAAATATATAATATAA-ATAA
1 ATATAAATATA-AATATAATATAA
166951 ATATAAATATAAATATAAATATAA
1 ATATAAATATAAATAT-AATATAA
166975 ATATAAATAT-AATA-AATATAA
1 ATATAAATATAAATATAATATAA
166996 ATAT---TA-AAATATAAATATAA
1 ATATAAATATAAATAT-AATATAA
167016 ATAT-AATATAAAT-TAATATAA
1 ATATAAATATAAATATAATATAA
*
167037 ATATATAATATATATA-AATAATATA
1 ATATA-AATATAAATATAAT-ATA-A
167062 ATATAAATATAAATATAAATATAA
1 ATATAAATATAAATAT-AATATAA
167086 ATATAAATATAAATA-AATATAA
1 ATATAAATATAAATATAATATAA
167108 ATATAAATATAAATATAATAT-A
1 ATATAAATATAAATATAATATAA
167130 ATATAAATATAAATATAAATATAA
1 ATATAAATATAAATAT-AATATAA
167154 ATATAAATATAAATATAA-ATAAA
1 ATATAAATATAAATATAATAT-AA
167177 ATATAAATATAAATATAAATATAA
1 ATATAAATATAAATAT-AATATAA
167201 ATATAAATATAAATAT-ATAATAAA
1 ATATAAATATAAATATAAT-AT-AA
167225 ATATATAA-ATAAATATAAATATAA
1 ATATA-AATATAAATAT-AATATAA
167249 ATATAAATATAAATAT-A-ATAA
1 ATATAAATATAAATATAATATAA
167270 ATATAAATATAAATATAAATATAA
1 ATATAAATATAAATAT-AATATAA
167294 ATAT-AATATAAAT-TAAATATAA
1 ATATAAATATAAATAT-AATATAA
167316 ATATAAATATAAATA-AATATAA
1 ATATAAATATAAATATAATATAA
* *
167338 TAAATAAAATATAAATAAAATATAA
1 -ATAT-AAATATAAATATAATATAA
*
167363 ATATAAATATAAATAAAATAAATAA
1 ATATAAATATAAATATAAT--ATAA
167388 ATATAAATA-AAATATAAATATAA
1 ATATAAATATAAATAT-AATATAA
167411 ATATAAAATATAAATATAA-ATATA
1 ATAT-AAATATAAATATAATATA-A
167435 ATATAAATATAAATATAATATAA
1 ATATAAATATAAATATAATATAA
*
167458 ATATAAATATAAATAGAA-ATAA
1 ATATAAATATAAATATAATATAA
167480 ATAT-AATATAAATATAA-ATAA
1 ATATAAATATAAATATAATATAA
167501 ATAT-AATATAAATATAAATATAA
1 ATATAAATATAAATAT-AATATAA
167524 ATAT-AATATAAATATAAATATAA
1 ATATAAATATAAATAT-AATATAA
167547 ATAT-AATATAAATATAAATATAA
1 ATATAAATATAAATAT-AATATAA
167570 ATATAAATATAAAATATAAATATAA
1 ATATAAATAT-AAATAT-AATATAA
167595 ATAT-AATATAAATATAAATATAA
1 ATATAAATATAAATAT-AATATAA
167618 ATAT-AATATAAATATAAATATAA
1 ATATAAATATAAATAT-AATATAA
167641 ATATAAATATAAATATAAATATAA
1 ATATAAATATAAATAT-AATATAA
*
167665 ATA-AAATATAAATAAAATA
1 ATATAAATATAAATATAATA
Statistics
Matches: 1060, Mismatches: 24, Indels: 177
0.84 0.02 0.14
Matches are distributed among these distances:
18 6 0.01
19 2 0.00
20 47 0.04
21 117 0.11
22 151 0.14
23 350 0.33
24 243 0.23
25 91 0.09
26 15 0.01
27 31 0.03
28 5 0.00
29 2 0.00
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (23 bp):
ATATAAATATAAATATAATATAA
Done.