Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003202.1 Hibiscus syriacus cultivar Beakdansim tig00006741_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: 146877
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Found at i:774 original size:242 final size:242
Alignment explanation
Indices: 260--845 Score: 804
Period size: 242 Copynumber: 2.4 Consensus size: 242
250 TTTCTCGATG
* * * * *
260 AATAACTCCCTCGGGCCATCAGTAAGTCTTTCGAGCATGATTCTTAAATCCTTCAGGTCATCTAT
1 AATAAGTCCTTCGGGCCATTAGTAAGTCTTTCGAGCATGATGCCTAAATCCTTCAGGTCATCTAT
* * * *
325 AA-CTCTTTCGAGCAAGATGATAAATCCTTCGGGCCATCCATAAGACCTTCAGGCATGATATTTT
66 AAGC-CTTTCAAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACATTCAGGCAGGATATTTT
* *
389 CACATAATTTTCAAAAAAATGAGAAAGATATTTCCAAAGTTTATCATTTAAATCTTTTCTAAAAA
130 CACATAATTTTCAAAAAAATGAGAAAGAGATTTCCAAAGTTTATCATTTAAATATTTTCTAAAAA
* * *
454 TTAATTTTTTATGAAAAGTAAGAAAATAATTTCCAAATTTTCTTACGT
195 TTAATTTTTTATAAAAAGTAAGAAAACAATTTCCAAATTTTCTTACCT
* * * *
502 AATAAGTCCTTCGGG-CATTCAATGAGTCTTTCAAGCATGATGCCTAAATCCTTTAGGTCATCTA
1 AATAAGTCCTTCGGGCCATT-AGTAAGTCTTTCGAGCATGATGCCTAAATCCTTCAGGTCATCTA
* * * *
566 TAAGCCTTTCAAGCCAGATGATATGTCCTTCGGGCCATCCATAAGACATTCAGGGAGGATGTTTT
65 TAAGCCTTTCAAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACATTCAGGCAGGATATTTT
* * * *
631 CACATGATTTTC-GAAAAATGAGAAAGCGATTTCCAAAGTTTATCATTTAAATATTTTCTGAAAA
130 CACATAATTTTCAAAAAAATGAGAAAGAGATTTCCAAAGTTTATCATTTAAATATTTTCTAAAAA
* * *
695 TTGATTTTTTTTAAAAAGTAAGAAAACGATTTCC-AATGTTTCTTACCT
195 TTAATTTTTTATAAAAAGTAAGAAAACAATTTCCAAAT-TTTCTTACCT
* * *
743 AGTAAGTCCTTCGGGACCATTAGTAAGTCTTTCGAGCATGATGCCTAAATCCTTCGGGTCATTTA
1 AATAAGTCCTTCGGG-CCATTAGTAAGTCTTTCGAGCATGATGCCTAAATCCTTCAGGTCATCTA
808 TAAGCCTTT-AGAGCAAGATGATAAGTCCTTCGGGCCAT
65 TAAGCCTTTCA-AGCAAGATGATAAGTCCTTCGGGCCAT
846 ATGTAAGACC
Statistics
Matches: 300, Mismatches: 38, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
240 3 0.01
241 103 0.34
242 189 0.63
243 5 0.02
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (242 bp):
AATAAGTCCTTCGGGCCATTAGTAAGTCTTTCGAGCATGATGCCTAAATCCTTCAGGTCATCTAT
AAGCCTTTCAAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACATTCAGGCAGGATATTTTC
ACATAATTTTCAAAAAAATGAGAAAGAGATTTCCAAAGTTTATCATTTAAATATTTTCTAAAAAT
TAATTTTTTATAAAAAGTAAGAAAACAATTTCCAAATTTTCTTACCT
Found at i:858 original size:42 final size:41
Alignment explanation
Indices: 745--858 Score: 113
Period size: 42 Copynumber: 2.7 Consensus size: 41
735 TCTTACCTAG
* * * *
745 TAAGTCCTTCGGGACCATTAGTAAGTCTTTCGAGCATGATGCC
1 TAAGTCCTTCGGG-CCATT-GTAAGCCTTTAGAGCAAGATGCA
* * *
788 TAAATCCTTCGGGTCATTTATAAGCCTTTAGAGCAAGATG-A
1 TAAGTCCTTCGGGCCA-TTGTAAGCCTTTAGAGCAAGATGCA
829 TAAGTCCTTCGGGCCATATGTAAGACCTTT
1 TAAGTCCTTCGGGCCAT-TGTAAG-CCTTT
859 GGGCCGGATG
Statistics
Matches: 58, Mismatches: 10, Indels: 7
0.77 0.13 0.09
Matches are distributed among these distances:
40 1 0.02
41 19 0.33
42 24 0.41
43 14 0.24
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (41 bp):
TAAGTCCTTCGGGCCATTGTAAGCCTTTAGAGCAAGATGCA
Found at i:1409 original size:3 final size:3
Alignment explanation
Indices: 1401--1441 Score: 73
Period size: 3 Copynumber: 13.3 Consensus size: 3
1391 TTCATTTTAC
1401 TAT TAT TAT TAT TAT TAT TAT TAT TAT ATAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT T
1442 TTAAGTTACA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 34 0.92
4 3 0.08
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:3071 original size:20 final size:21
Alignment explanation
Indices: 3032--3071 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
3022 CACGCTGAAT
3032 GCTGAACGGTTCAGCATTCAGC
1 GCTGAACGGTTCA-CATTCAGC
*
3054 GCTGAATGGTTC-CATTCA
1 GCTGAACGGTTCACATTCA
3072 ACAGTAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
22 11 0.65
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.28
Consensus pattern (21 bp):
GCTGAACGGTTCACATTCAGC
Found at i:5190 original size:17 final size:18
Alignment explanation
Indices: 5168--5205 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
5158 TTAAATATAT
* *
5168 TAATTATAA-AATTTAAG
1 TAATTAAAATAATTAAAG
5185 TAATTAAAATAATTAAAG
1 TAATTAAAATAATTAAAG
5203 TAA
1 TAA
5206 AAGTTTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (18 bp):
TAATTAAAATAATTAAAG
Found at i:9054 original size:28 final size:29
Alignment explanation
Indices: 8995--9057 Score: 80
Period size: 27 Copynumber: 2.3 Consensus size: 29
8985 GAAAGGATTG
8995 GAATATC-TTGGATATGTAAAATGACCAA
1 GAATATCATTGGATATGTAAAATGACCAA
*
9023 -AATATCATTGGA-ATG-CAAATGACCCAA
1 GAATATCATTGGATATGTAAAATGA-CCAA
9050 GAATATCA
1 GAATATCA
9058 CCAAGCCTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
26 6 0.19
27 13 0.42
28 12 0.39
ACGTcount: A:0.44, C:0.14, G:0.16, T:0.25
Consensus pattern (29 bp):
GAATATCATTGGATATGTAAAATGACCAA
Found at i:10579 original size:20 final size:20
Alignment explanation
Indices: 10542--10580 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
10532 GATTTAATCA
* **
10542 TATAATTTTATATTTTTAAG
1 TATAATTTGATAGATTTAAG
10562 TATAATTTGATAGATTTAA
1 TATAATTTGATAGATTTAA
10581 TAATTTGAGC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (20 bp):
TATAATTTGATAGATTTAAG
Found at i:10753 original size:16 final size:17
Alignment explanation
Indices: 10732--10772 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
10722 TTTATGAAAA
10732 AATATTATAT-TTTTTT
1 AATATTATATATTTTTT
*
10748 AATATTTATTTATTTTTT
1 AATA-TTATATATTTTTT
10766 AATATTA
1 AATATTA
10773 AGAAAGAGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 4 0.18
17 8 0.36
18 10 0.45
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
AATATTATATATTTTTT
Found at i:19129 original size:64 final size:64
Alignment explanation
Indices: 19038--19197 Score: 193
Period size: 64 Copynumber: 2.5 Consensus size: 64
19028 TTCCCTTGAA
* * *
19038 GTGCATCGATGCACTACC--ATGCATCGATACACCAATCACCTTCGATGTTTTCA-TTTTAAGGG
1 GTGCATCGATGCACT-CCTTATGCATCGATACACCAATCACATTAGATGTTTCCATTTTTAA-GG
19100 G
64 G
* * ** *
19101 GTGCATCGATGCACTCCTTATGCATCGATGCACTAATTGCATTAGATGTTTCCATTTTTAATGG
1 GTGCATCGATGCACTCCTTATGCATCGATACACCAATCACATTAGATGTTTCCATTTTTAAGGG
19165 GTGCATCGATGCACTTCCTT-TGCATCGATACAC
1 GTGCATCGATGCAC-TCCTTATGCATCGATACAC
19198 ACTGAACAAT
Statistics
Matches: 84, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
62 2 0.02
63 15 0.18
64 56 0.67
65 11 0.13
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (64 bp):
GTGCATCGATGCACTCCTTATGCATCGATACACCAATCACATTAGATGTTTCCATTTTTAAGGG
Found at i:22650 original size:23 final size:23
Alignment explanation
Indices: 22598--22661 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
22588 CAGCTTGTAT
22598 AAATGCACCGAAGTGCCACGTAG
1 AAATGCACCGAAGTGCCACGTAG
* * * *
22621 AATTGCATCGTAGTGCCGCGTCA-
1 AAATGCACCGAAGTGCCACGT-AG
22644 AAATGCACCGAAGTGCCA
1 AAATGCACCGAAGTGCCA
22662 TATAAGGTTG
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
23 31 0.97
24 1 0.03
ACGTcount: A:0.31, C:0.27, G:0.25, T:0.17
Consensus pattern (23 bp):
AAATGCACCGAAGTGCCACGTAG
Found at i:23059 original size:2 final size:2
Alignment explanation
Indices: 23052--23119 Score: 127
Period size: 2 Copynumber: 34.0 Consensus size: 2
23042 ATGTCTTATC
23052 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
*
23094 AT AT AT AT AT AT AT AT AT AT AG AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
23120 TCACATATTC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (2 bp):
AT
Found at i:23188 original size:2 final size:2
Alignment explanation
Indices: 23181--23218 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
23171 ATTCATCTTC
*
23181 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23219 CATTTTTCCT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:29027 original size:123 final size:123
Alignment explanation
Indices: 28808--29094 Score: 448
Period size: 123 Copynumber: 2.3 Consensus size: 123
28798 CATAATGAGA
* * * * *
28808 AGGAATAAGAAGTTCATAATTAGAAGAACTCGTTCAACCTTTTGCTCGATTCTATCATAGAAGGA
1 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCACAGAAGGA
* **
28873 GATAGATCAGCATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAG
66 GATAGATCAACATCAACATTGCCAGAAAGAGTTCATAATGAGAAGAACTCATCTGAAG
*
28931 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGACTCTATCACAGAAGGA
1 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCACAGAAGGA
* *
28996 GATAGATCAACATCGACATTTCCAGAAAGAGTTCATAATGAGAAGAACTCATCTGAAG
66 GATAGATCAACATCAACATTGCCAGAAAGAGTTCATAATGAGAAGAACTCATCTGAAG
* * *
29054 AGGAGGAAGAAGTTCATAATGAGAAGAATTTGTTCGACCTT
1 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTT
29095 AACTTGATTC
Statistics
Matches: 150, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
123 150 1.00
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.25
Consensus pattern (123 bp):
AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCACAGAAGGA
GATAGATCAACATCAACATTGCCAGAAAGAGTTCATAATGAGAAGAACTCATCTGAAG
Found at i:29206 original size:39 final size:39
Alignment explanation
Indices: 29163--29262 Score: 164
Period size: 39 Copynumber: 2.6 Consensus size: 39
29153 ATTTCCGGAG
* *
29163 GAAGTTTATAATGAGAATAACTCATCTAAAGAGGAAGAA
1 GAAGTTTATAATGAGAATAACTCATATAAAGAGGAAAAA
*
29202 GAAGTTTATAATGAGAAGAACTCATATAAAGAGGAAAAA
1 GAAGTTTATAATGAGAATAACTCATATAAAGAGGAAAAA
*
29241 GAAGTTCATAATGAGAATAACT
1 GAAGTTTATAATGAGAATAACT
29263 TGTTCAACCT
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 56 1.00
ACGTcount: A:0.50, C:0.07, G:0.20, T:0.23
Consensus pattern (39 bp):
GAAGTTTATAATGAGAATAACTCATATAAAGAGGAAAAA
Found at i:29397 original size:176 final size:179
Alignment explanation
Indices: 29025--29397 Score: 470
Period size: 179 Copynumber: 2.1 Consensus size: 179
29015 TTCCAGAAAG
* * ** * *
29025 AGTTCATAATGAGAAGAACTCATCTGAAGAGGAGGAAGAAGTTCATAATGAGAAGAATTTGTTCG
1 AGTTCATAATGAGAAGAACTCATATAAAGAGGAAAAAGAAGTTCATAATGAGAAGAACTTGTTCA
* * * * *
29090 ACCTTAACTTGATTCGTCACCTATGTAGTTGAAGTAGAGAATAACCTCATTCGAGGAATCAACAT
66 ACCTTAACTTAATTCATCACATATGAAGCTGAAGTAGAGAATAACCTCATTCGAGGAATCAACAT
* * *
29155 TTCCGGAGGAAGTTTATAATGAGAATAACTCATCTAAAGAGGAAGAAGA
131 TTCCGGAGGAAGTTCATAACGAGAAGAACTCATCTAAAGAGGAAGAAGA
* *
29204 AGTTTATAATGAGAAGAACTCATATAAAGAGGAAAAAGAAGTTCATAATGAGAATAACTTGTTCA
1 AGTTCATAATGAGAAGAACTCATATAAAGAGGAAAAAGAAGTTCATAATGAGAAGAACTTGTTCA
** * * *
29269 ACCTTGCCTTAATTCATCACATATGAAGCTGAA-TCA-ATG-A-CACCTCTTTTGAGG-ATCAAC
66 ACCTTAACTTAATTCATCACATATGAAGCTGAAGT-AGA-GAATAACCTCATTCGAGGAATCAAC
* *
29329 ATTTCCAGTAGG-AGTTCATAACGAGAAGAACTCATCTGAAGAGGAAGAAGA
129 ATTTCC-GGAGGAAGTTCATAACGAGAAGAACTCATCTAAAGAGGAAGAAGA
29380 AGTTCATAATGAGAAGAA
1 AGTTCATAATGAGAAGAA
29398 ATTGTTCAAC
Statistics
Matches: 167, Mismatches: 24, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
176 64 0.38
177 15 0.09
178 3 0.02
179 85 0.51
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.25
Consensus pattern (179 bp):
AGTTCATAATGAGAAGAACTCATATAAAGAGGAAAAAGAAGTTCATAATGAGAAGAACTTGTTCA
ACCTTAACTTAATTCATCACATATGAAGCTGAAGTAGAGAATAACCTCATTCGAGGAATCAACAT
TTCCGGAGGAAGTTCATAACGAGAAGAACTCATCTAAAGAGGAAGAAGA
Found at i:30154 original size:21 final size:21
Alignment explanation
Indices: 30130--30169 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
30120 CCTGCAAAGG
30130 AAGA-AAAAACACACAACAAGC
1 AAGATAAAAAC-CACAACAAGC
*
30151 AAGATACAAACCACAACAA
1 AAGATAAAAACCACAACAA
30170 CCAAAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.65, C:0.25, G:0.07, T:0.03
Consensus pattern (21 bp):
AAGATAAAAACCACAACAAGC
Found at i:30969 original size:20 final size:20
Alignment explanation
Indices: 30932--30971 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
30922 AATTTAATCA
* * *
30932 TATAATTTTATTTTTTTAAT
1 TATAATTTGATATATTTAAT
30952 TATAATTTGATATATTTAAT
1 TATAATTTGATATATTTAAT
30972 AATGTGATGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (20 bp):
TATAATTTGATATATTTAAT
Found at i:31143 original size:17 final size:18
Alignment explanation
Indices: 31121--31161 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
31111 TTTGAGGAAA
31121 AATATTATATTT-TTATT
1 AATATTATATTTATTATT
*
31138 AATATT-TATTTATTTTT
1 AATATTATATTTATTATT
31155 AATATTA
1 AATATTA
31162 AGAAAGGGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
AATATTATATTTATTATT
Found at i:41988 original size:20 final size:20
Alignment explanation
Indices: 41960--42003 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
41950 AGTAAATGGG
41960 TCAGACTGGTTCGAGTTGAA
1 TCAGACTGGTTCGAGTTGAA
* * *
41980 TCAGGCTGGTTCGGGTTGAT
1 TCAGACTGGTTCGAGTTGAA
42000 TCAG
1 TCAG
42004 TTCGATTTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.34, T:0.32
Consensus pattern (20 bp):
TCAGACTGGTTCGAGTTGAA
Found at i:44809 original size:22 final size:23
Alignment explanation
Indices: 44781--44828 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
44771 TTAATTTCTG
44781 TTTGGGTG-CTATTTGTGTAAA-A
1 TTTGGGTGTCTATTTG-GTAAATA
*
44803 TTTGGGTGTTTATTTGGTAAATA
1 TTTGGGTGTCTATTTGGTAAATA
44826 TTT
1 TTT
44829 ACAGAATGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.21, C:0.02, G:0.25, T:0.52
Consensus pattern (23 bp):
TTTGGGTGTCTATTTGGTAAATA
Found at i:48170 original size:30 final size:30
Alignment explanation
Indices: 48087--48205 Score: 98
Period size: 31 Copynumber: 3.9 Consensus size: 30
48077 TAACCTAAGG
48087 GAACATCTTAGGGCCTG-AGAGCCTACCCAA
1 GAACATCTTAGGGCC-GCAGAGCCTACCCAA
* * ** * *
48117 GATAGAT-TTCGGGGCCGTGGGGCCTACCTAA
1 GA-ACATCTT-AGGGCCGCAGAGCCTACCCAA
* *
48148 GAACATCTTAGGGCCGCAGGGCCTACCCGA
1 GAACATCTTAGGGCCGCAGAGCCTACCCAA
* *
48178 GAATGATCTCAGGGCCGCAGAGCCTACC
1 GAA-CATCTTAGGGCCGCAGAGCCTACC
48206 TAAGTGTCAC
Statistics
Matches: 70, Mismatches: 14, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
30 27 0.39
31 43 0.61
ACGTcount: A:0.24, C:0.29, G:0.29, T:0.17
Consensus pattern (30 bp):
GAACATCTTAGGGCCGCAGAGCCTACCCAA
Found at i:48193 original size:61 final size:61
Alignment explanation
Indices: 48087--48209 Score: 151
Period size: 61 Copynumber: 2.0 Consensus size: 61
48077 TAACCTAAGG
* * ** *
48087 GAACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATTTCGGGGCCGTGGGGCCTACCTAA
1 GAACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAA
* *
48148 GAACATCTTAGGGCC-GCAGGGCCTACCCGAGA-ATGATCTCAGGGCCGCAGAGCCTACCTAA
1 GAACATCTTAGGGCCTG-AGAGCCTACCCAAGATA-GATCTCAGGGCCGCAGAGCCTACCTAA
48209 G
1 G
48210 TGTCACATTA
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
60 2 0.04
61 51 0.96
ACGTcount: A:0.25, C:0.28, G:0.29, T:0.17
Consensus pattern (61 bp):
GAACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAA
Found at i:49745 original size:18 final size:18
Alignment explanation
Indices: 49722--49756 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
49712 TTCCATCCGG
*
49722 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
49740 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
49757 GTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:52846 original size:32 final size:31
Alignment explanation
Indices: 52808--52883 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
52798 CGGGGTCGTG
*
52808 GGGCCTACCTAAGAACACATCTTAGGGCCGCA
1 GGGCCTACCTAAGAA-ACATCTCAGGGCCGCA
** **
52840 GGGCCTACCCGAGAATGATCTCAGGGCCGCA
1 GGGCCTACCTAAGAAACATCTCAGGGCCGCA
*
52871 GAGCCTACCTAAG
1 GGGCCTACCTAAG
52884 TGTCACATTA
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
31 23 0.64
32 13 0.36
ACGTcount: A:0.26, C:0.32, G:0.28, T:0.14
Consensus pattern (31 bp):
GGGCCTACCTAAGAAACATCTCAGGGCCGCA
Found at i:56473 original size:32 final size:31
Alignment explanation
Indices: 56398--56517 Score: 102
Period size: 31 Copynumber: 3.9 Consensus size: 31
56388 CTAATGTGAC
* * *
56398 TCTTAGGTAGGCTCTGCGGCCTTGAGATCTT
1 TCTTAGGTAGGCCCTGCGGCCCTAAGATCTT
** *
56429 TCTCGGGTAGGCCCTGCGGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCTGCGGCCCTAAGATCT-T
* * *
56461 TCTTAGGTAGGCCCTGTGGCCC--CGAACTT
1 TCTTAGGTAGGCCCTGCGGCCCTAAGATCTT
* *
56490 TCTTGGGTAGGCTCT-CAGGCCCTAAGAT
1 TCTTAGGTAGGCCCTGC-GGCCCTAAGAT
56518 GTTCCCTTAG
Statistics
Matches: 68, Mismatches: 17, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
29 19 0.28
30 3 0.04
31 26 0.38
32 20 0.29
ACGTcount: A:0.14, C:0.27, G:0.30, T:0.29
Consensus pattern (31 bp):
TCTTAGGTAGGCCCTGCGGCCCTAAGATCTT
Found at i:56499 original size:61 final size:63
Alignment explanation
Indices: 56398--56519 Score: 160
Period size: 61 Copynumber: 2.0 Consensus size: 63
56388 CTAATGTGAC
* **
56398 TCTTAGGTAGGCTCTGCGGCCTTGAGATCTTTCTCGGGTAGGCCCTGC-GGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCTGCGGCCCCGAGATCTTTCTCGGGTAGGCCCT-CAGGCCCTAAGATGTGT
* * *
56461 TCTTAGGTAGGCCCTGTGGCCCCGA-A-CTTTCTTGGGTAGGCTCTCAGGCCCTAAGATGT
1 TCTTAGGTAGGCCCTGCGGCCCCGAGATCTTTCTCGGGTAGGCCCTCAGGCCCTAAGATGT
56520 TCCCTTAGGT
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
60 1 0.02
61 29 0.56
62 1 0.02
63 21 0.40
ACGTcount: A:0.14, C:0.26, G:0.30, T:0.30
Consensus pattern (63 bp):
TCTTAGGTAGGCCCTGCGGCCCCGAGATCTTTCTCGGGTAGGCCCTCAGGCCCTAAGATGTGT
Found at i:57588 original size:80 final size:80
Alignment explanation
Indices: 57495--57656 Score: 297
Period size: 80 Copynumber: 2.0 Consensus size: 80
57485 TTATATTCTA
*
57495 AAAATAAAGGATTAAATTATAATGTTTTGAGATGGTATTGATTTTGTGTATAAGCAGGGACGAAG
1 AAAATAAAGGATTAAATTATAATGTTTTGAAATGGTATTGATTTTGTGTATAAGCAGGGACGAAG
*
57560 TCAGAACTAGTTTTT
66 TCAGAACTAGATTTT
*
57575 AAAATAAAGGATTAAATTATAATGTTTTGAAATGGTATTGATTTTGTGTATATGCAGGGACGAAG
1 AAAATAAAGGATTAAATTATAATGTTTTGAAATGGTATTGATTTTGTGTATAAGCAGGGACGAAG
57640 TCAGAACTAGATTTT
66 TCAGAACTAGATTTT
57655 AA
1 AA
57657 TAGAGGTCGA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 79 1.00
ACGTcount: A:0.38, C:0.05, G:0.22, T:0.36
Consensus pattern (80 bp):
AAAATAAAGGATTAAATTATAATGTTTTGAAATGGTATTGATTTTGTGTATAAGCAGGGACGAAG
TCAGAACTAGATTTT
Found at i:57805 original size:17 final size:18
Alignment explanation
Indices: 57780--57813 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
57770 TAAGAAATAA
*
57780 CAAATTAAA-AATAAAAT
1 CAAAGTAAATAATAAAAT
57797 CAAAGTAAATAATAAAA
1 CAAAGTAAATAATAAAA
57814 GTATGATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.71, C:0.06, G:0.03, T:0.21
Consensus pattern (18 bp):
CAAAGTAAATAATAAAAT
Found at i:62321 original size:2 final size:2
Alignment explanation
Indices: 62314--62344 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
62304 TAACAATTTA
62314 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
62345 TTTTAATATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:62700 original size:15 final size:15
Alignment explanation
Indices: 62676--62709 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
62666 GAACCCGAGT
*
62676 TGGACTTGGAAATTG
1 TGGACCTGGAAATTG
62691 TGGACCTGGAAATTG
1 TGGACCTGGAAATTG
62706 TGGA
1 TGGA
62710 TCTAAACCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.26, C:0.09, G:0.35, T:0.29
Consensus pattern (15 bp):
TGGACCTGGAAATTG
Found at i:63160 original size:8 final size:7
Alignment explanation
Indices: 63134--63268 Score: 52
Period size: 8 Copynumber: 18.9 Consensus size: 7
63124 ATACAGTTTA
63134 ATACTTT
1 ATACTTT
*
63141 ATA-TCAT
1 ATACT-TT
63148 ATACTTT
1 ATACTTT
63155 AGTACTTAT
1 A-TACTT-T
*
63164 GTACTTAT
1 ATACTT-T
63172 ATACTTT
1 ATACTTT
63179 ATA-TTT
1 ATACTTT
63185 AATAC-TT
1 -ATACTTT
*
63192 ATATTTAT
1 ATACTT-T
63200 ATACTTT
1 ATACTTT
63207 AATAC-TT
1 -ATACTTT
**
63214 ATA-TCC
1 ATACTTT
*
63220 AAACAGTTT
1 ATAC--TTT
*
63229 ACTGCTTT
1 A-TACTTT
63237 ATA-TTAT
1 ATACTT-T
63244 ATACTTT
1 ATACTTT
63251 ATAC-TT
1 ATACTTT
63257 ATAC-TT
1 ATACTTT
63263 ATACTT
1 ATACTT
63269 AGTTTATATA
Statistics
Matches: 97, Mismatches: 14, Indels: 34
0.67 0.10 0.23
Matches are distributed among these distances:
6 26 0.27
7 33 0.34
8 34 0.35
9 3 0.03
10 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.03, T:0.50
Consensus pattern (7 bp):
ATACTTT
Found at i:63173 original size:24 final size:22
Alignment explanation
Indices: 63071--63265 Score: 91
Period size: 22 Copynumber: 8.4 Consensus size: 22
63061 GATTATTAAT
63071 ATACTT-TATA-TTTAATACTT-
1 ATACTTATATACTTT-ATACTTA
* *
63091 ATATTTATATACTTTATATTTA
1 ATACTTATATACTTTATACTTA
* *
63113 ATGCTTACATTATACAGTTTAATACTTT
1 ATACTT--A-TATAC--TTT-ATACTTA
*
63141 ATA-TCATATACTTTAGTACTTA
1 ATACTTATATACTTTA-TACTTA
* *
63163 TGTACTTATATACTTTATATTTA
1 -ATACTTATATACTTTATACTTA
63186 ATACTTATAT--TTATATACTTTA
1 ATACTTATATACTT-TATAC-TTA
* *
63208 ATACTTATATCCAAACAGTTTACTGCTTT
1 ATACTTATAT----AC--TTTA-TACTTA
63237 ATA-TTATATACTTTATACTT-
1 ATACTTATATACTTTATACTTA
63257 ATACTTATA
1 ATACTTATA
63266 CTTAGTTTAT
Statistics
Matches: 134, Mismatches: 17, Indels: 47
0.68 0.09 0.24
Matches are distributed among these distances:
20 10 0.07
21 23 0.17
22 41 0.31
23 7 0.05
24 19 0.14
25 6 0.04
27 4 0.03
28 13 0.10
29 7 0.05
30 4 0.03
ACGTcount: A:0.34, C:0.12, G:0.03, T:0.51
Consensus pattern (22 bp):
ATACTTATATACTTTATACTTA
Found at i:63195 original size:13 final size:14
Alignment explanation
Indices: 63064--63205 Score: 89
Period size: 14 Copynumber: 9.9 Consensus size: 14
63054 TAATTATGAT
*
63064 TATTAATATACTTTA
1 TATTTATATAC-TTA
63079 TATTTA-ATACTTA
1 TATTTATATACTTA
63092 TATTTATATACTTTA
1 TATTTATATAC-TTA
*
63107 TATTTA-ATGCTTA
1 TATTTATATACTTA
* * *
63120 CA-TTATACAGTTTAA
1 TATTTATATA-CTT-A
*
63135 TACTTTATAT-CATA
1 TA-TTTATATACTTA
*
63149 TACTTTA-GTACTTA
1 TA-TTTATATACTTA
*
63163 TGTACTTATATACTTTA
1 --TATTTATATAC-TTA
63180 TATTTA-ATACTTA
1 TATTTATATACTTA
63193 TATTTATATACTT
1 TATTTATATACTT
63206 TAATACTTAT
Statistics
Matches: 99, Mismatches: 15, Indels: 27
0.70 0.11 0.19
Matches are distributed among these distances:
12 3 0.03
13 24 0.24
14 34 0.34
15 25 0.25
16 5 0.05
17 8 0.08
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (14 bp):
TATTTATATACTTA
Found at i:63868 original size:2 final size:2
Alignment explanation
Indices: 63814--63851 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
63804 CATTATACTT
63814 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
63852 CTTTATACTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:64428 original size:590 final size:588
Alignment explanation
Indices: 63271--64429 Score: 1736
Period size: 590 Copynumber: 2.0 Consensus size: 588
63261 TTATACTTAG
*
63271 TTTATATATGTATATAAAGTACCAAATTAAACAAACATGAAATTGGAAATAAAGAATTGAATAAA
1 TTTATATATGTACATAAAGTACCAAATTAAACAAACATGAAATTGGAAATAAAGAATTGAATAAA
*
63336 TTAAACAACACGCATTGACGAGGGATGAAATTGAATTAATTAAAAAATGTGAAGCTGATATTAAT
66 TTAAACAACACACATTGACGAGGGATGAAATTGAATTAATTAAAAAATGTGAAGCTGATATTAAT
*
63401 ATAAAAATGGACTAAATTGTATACATTTAAAAAGTTGGTGAACATAATTTGAAAAGAAATTTATT
131 ATAAAAATGGACTAAATTGCATACATTTAAAAAGTTGGTGAACATAATTTGAAAAGAAATTTATT
* * * *
63466 ATGTGATTTACATTTTATAGTGTTTTAAGTAAATTACAACAATATAATTAAGTATGGGTCAATTT
196 ATGTAATTTACATTTTATAGGGTTTTAAGTAAATTACAAAAATATAAATAAGTATGGGTCAATTT
* *
63531 CATATACAAATATAATTTGAAGGGCAAAATTGAACAAATATGAAATTACAAATTAAAATTTAAAT
261 CAGATACAAATATAATTTGAAGGACAAAATTGAACAAATATGAAATTACAAATTAAAATTTAAAT
*
63596 ACAATAAACAACATAAAAGGATCAAATAAAAAAATGTAAAATGTGAGGAAAAATTGTAAAATGGA
326 ACAATAAACAACATAAAAGGATCAAATAAAAAAATGTAAAATGCGAGGAAAAATTGTAAAATGGA
63661 CTGAATTGCATTAATTTCAAAAGTTAGGGAAAATTAAAACAATTATAATATATATATATATGTTT
391 CTGAATTGCATTAATTTCAAAAGTTAGGGAAAATTAAAACAATTATAATATATATATATATGTTT
* * * *
63726 GTATGTATGTATGTATGTATGCACATATAATATGTACAATGAATATTATGATAATATGATGCATG
456 GAATGTATGTATATATGTATGCACATATAATATGTACAATGAATATTATGATAATATAATACATG
* * * *
63791 TATATACAATGTACATTATACTTTATATATATATATATATATATATATATATATATATATACTTT
521 TATATACAATCTA-ATTATACTGTATATATATAGATACATATATATATATATATATATATACTTT
63856 ATAC
585 ATAC
* *
63860 TTTATATATGTACATAATGTACCAAATTGAAAACAAACGTGAAATTGGAAATAAA-AATTTGAAT
1 TTTATATATGTACATAAAGTACCAAATT--AAACAAACATGAAATTGGAAATAAAGAA-TTGAAT
* * *
63924 AAATTAACCAA-ACACATTGATGAGGGATGAAATTGAATTAATTATAAAATGTGAAGCTGATATT
63 AAATTAAACAACACACATTGACGAGGGATGAAATTGAATTAATTAAAAAATGTGAAGCTGATATT
63988 AATATAAAAATGGACTAAATTGCATACATTTAAAAAGTTGGTGAACATAATTTGAAAAGAAATTT
128 AATATAAAAATGGACTAAATTGCATACATTTAAAAAGTTGGTGAACATAATTTGAAAAGAAATTT
64053 ATTATGTAATTTACATTTTATAGGGTTTTAAGTAAATTACAAAAATATAAATAAGTATGGGTCAA
193 ATTATGTAATTTACATTTTATAGGGTTTTAAGTAAATTACAAAAATATAAATAAGTATGGGTCAA
* * * *
64118 TTTCAGATACAAATATAATTTGAAGGACTAAATTTAATAAATATGAAATTACAAGTTAAAATTTA
258 TTTCAGATACAAATATAATTTGAAGGACAAAATTGAACAAATATGAAATTACAAATTAAAATTTA
* *
64183 AATACAATAAACAACATAAAAGGATCAAATCAAAAAATTTGTAAAATGCGAGGAAAAATT-TTAA
323 AATACAATAAACAACATAAAAGGATCAAAT-AAAAAA-ATGTAAAATGCGAGGAAAAATTGTAAA
*
64247 ATGGATTGAATTGCATTAATTTCAAAAGTTAGGGAAAATTAAAACAATTATAATATATATATAAT
386 ATGGACTGAATTGCATTAATTTCAAAAGTTAGGGAAAATTAAAACAATTATAATATATATAT-AT
** *
64312 ATGTATAATGAATGTTATG-ATAATATG-ATGCATGTATATATAATGTAC-AT-TATACTTATGC
450 ATGT-T--TGAATG-TATGTAT-ATATGTATGCACATATA-AT-ATGTACAATGAATA-TTATG-
* *
64373 ATAGAT-TAATACAT-TATATA-AA-CT-A-TA-AGGTGTATATATAT-GATACATGTATATATA
506 ATA-ATATAATACATGTATATACAATCTAATTATA-CTGTATATATATAGATACATATATATATA
64430 AAGTATAAAA
Statistics
Matches: 518, Mismatches: 35, Indels: 33
0.88 0.06 0.06
Matches are distributed among these distances:
589 26 0.05
590 280 0.54
591 122 0.24
592 27 0.05
593 1 0.00
594 1 0.00
595 21 0.04
596 23 0.04
597 15 0.03
598 2 0.00
ACGTcount: A:0.47, C:0.07, G:0.13, T:0.34
Consensus pattern (588 bp):
TTTATATATGTACATAAAGTACCAAATTAAACAAACATGAAATTGGAAATAAAGAATTGAATAAA
TTAAACAACACACATTGACGAGGGATGAAATTGAATTAATTAAAAAATGTGAAGCTGATATTAAT
ATAAAAATGGACTAAATTGCATACATTTAAAAAGTTGGTGAACATAATTTGAAAAGAAATTTATT
ATGTAATTTACATTTTATAGGGTTTTAAGTAAATTACAAAAATATAAATAAGTATGGGTCAATTT
CAGATACAAATATAATTTGAAGGACAAAATTGAACAAATATGAAATTACAAATTAAAATTTAAAT
ACAATAAACAACATAAAAGGATCAAATAAAAAAATGTAAAATGCGAGGAAAAATTGTAAAATGGA
CTGAATTGCATTAATTTCAAAAGTTAGGGAAAATTAAAACAATTATAATATATATATATATGTTT
GAATGTATGTATATATGTATGCACATATAATATGTACAATGAATATTATGATAATATAATACATG
TATATACAATCTAATTATACTGTATATATATAGATACATATATATATATATATATATATACTTTA
TAC
Found at i:64626 original size:2 final size:2
Alignment explanation
Indices: 64573--64609 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
64563 ACATTATAAC
64573 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
64610 TAGTATAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:64819 original size:9 final size:10
Alignment explanation
Indices: 64796--64903 Score: 62
Period size: 10 Copynumber: 10.9 Consensus size: 10
64786 TATTATAGGT
64796 ATATATATAA
1 ATATATATAA
64806 A-ATATA-AA
1 ATATATATAA
64814 ATATATAT-A
1 ATATATATAA
* *
64823 CTTTATACTAA
1 ATATATA-TAA
*
64834 A-ACTTTATATA
1 ATA-TATATA-A
* * *
64845 TTTTATATAC
1 ATATATATAA
* *
64855 TTATATATAT
1 ATATATATAA
*
64865 ATATATATAT
1 ATATATATAA
*
64875 ATATATATAT
1 ATATATATAA
*
64885 ATATATATAT
1 ATATATATAA
64895 ATATATATA
1 ATATATATA
64904 TATTTAAAGT
Statistics
Matches: 79, Mismatches: 12, Indels: 14
0.75 0.11 0.13
Matches are distributed among these distances:
8 3 0.04
9 16 0.20
10 50 0.63
11 10 0.13
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (10 bp):
ATATATATAA
Found at i:64853 original size:2 final size:2
Alignment explanation
Indices: 64839--64906 Score: 104
Period size: 2 Copynumber: 34.5 Consensus size: 2
64829 ACTAAAACTT
*
64839 TA TA TA T- TT TA TA TA CT- 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
64880 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
64907 TTAAAGTTTT
Statistics
Matches: 62, Mismatches: 1, Indels: 6
0.90 0.01 0.09
Matches are distributed among these distances:
1 2 0.03
2 59 0.95
3 1 0.02
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:64948 original size:26 final size:24
Alignment explanation
Indices: 64919--64978 Score: 77
Period size: 26 Copynumber: 2.5 Consensus size: 24
64909 AAAGTTTTAG
64919 TATAAAGTATACATACATATATATAA
1 TATAAAGTATACATACAT-TATAT-A
**
64945 TATAAAGTATATGTACATTATATA
1 TATAAAGTATACATACATTATATA
64969 TA-AAAGTATA
1 TATAAAGTATA
64979 ATTATAAAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
23 8 0.25
24 3 0.09
25 5 0.16
26 16 0.50
ACGTcount: A:0.52, C:0.05, G:0.07, T:0.37
Consensus pattern (24 bp):
TATAAAGTATACATACATTATATA
Found at i:65115 original size:13 final size:13
Alignment explanation
Indices: 65097--65141 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
65087 ATATAACGTA
65097 TATAAGTATTAAG
1 TATAAGTATTAAG
65110 TATAAGTATATAAG
1 TATAAGTAT-TAAG
* *
65124 TATTAAATATAAAG
1 TA-TAAGTATTAAG
65138 TATA
1 TATA
65142 TAAGTATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 11 0.39
14 11 0.39
15 6 0.21
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.38
Consensus pattern (13 bp):
TATAAGTATTAAG
Found at i:65120 original size:21 final size:21
Alignment explanation
Indices: 65086--65156 Score: 99
Period size: 21 Copynumber: 3.3 Consensus size: 21
65076 TGTATATAAT
65086 AATATAACGTATATAAGTATTA
1 AATATAA-GTATATAAGTATTA
*
65108 AGTATAAGTATATAAGTATTA
1 AATATAAGTATATAAGTATTA
65129 AATATAAAGTATATAAGTA-TA
1 AATAT-AAGTATATAAGTATTA
*
65150 TATATAA
1 AATATAA
65157 ACTATAAAGT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
20 2 0.04
21 24 0.53
22 19 0.42
ACGTcount: A:0.52, C:0.01, G:0.10, T:0.37
Consensus pattern (21 bp):
AATATAAGTATATAAGTATTA
Found at i:65121 original size:30 final size:29
Alignment explanation
Indices: 65079--65151 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 29
65069 GTATATATGT
* *
65079 ATATAA-TAATATAACGTATATAAGTATTAAG
1 ATATAAGT-ATATAA-GTAT-TAAATATAAAG
65110 -TATAAGTATATAAGTATTAAATATAAAG
1 ATATAAGTATATAAGTATTAAATATAAAG
65138 TATATAAGTATATA
1 -ATATAAGTATATA
65152 TATAAACTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
28 9 0.24
29 4 0.11
30 23 0.62
31 1 0.03
ACGTcount: A:0.52, C:0.01, G:0.10, T:0.37
Consensus pattern (29 bp):
ATATAAGTATATAAGTATTAAATATAAAG
Found at i:65139 original size:28 final size:28
Alignment explanation
Indices: 65087--65166 Score: 76
Period size: 28 Copynumber: 2.8 Consensus size: 28
65077 GTATATAATA
* *
65087 ATATAACGTATATAAGTATTAAGTATAAGT
1 ATATAA-GTAT-TAAATATAAAGTATAAGT
65117 ATATAAGTATTAAATATAAAGTATATAAGT
1 ATATAAGTATTAAATATAAAG--TATAAGT
65147 ATAT-A-TA-TAAACTATAAAGT
1 ATATAAGTATTAAA-TATAAAGT
65167 GTATATATAT
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
26 1 0.02
27 4 0.09
28 18 0.40
29 5 0.11
30 17 0.38
ACGTcount: A:0.51, C:0.03, G:0.10, T:0.36
Consensus pattern (28 bp):
ATATAAGTATTAAATATAAAGTATAAGT
Found at i:65171 original size:28 final size:27
Alignment explanation
Indices: 65109--65189 Score: 92
Period size: 28 Copynumber: 2.9 Consensus size: 27
65099 TAAGTATTAA
65109 GTATAAGTATATAAGTATTAAATATAAAGT
1 GTATAAGTATAT-A-TA-TAAATATAAAGT
*
65139 ATATAAGTATATATATAAACTATAAAGT
1 GTATAAGTATATATATAAA-TATAAAGT
*
65167 GTATATA-TATATATATATATATA
1 GTATA-AGTATATATATAAATATA
65190 TATATAAAGT
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
27 8 0.17
28 25 0.54
29 2 0.04
30 11 0.24
ACGTcount: A:0.51, C:0.01, G:0.09, T:0.40
Consensus pattern (27 bp):
GTATAAGTATATATATAAATATAAAGT
Found at i:65173 original size:2 final size:2
Alignment explanation
Indices: 65168--65195 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
65158 CTATAAAGTG
65168 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
65196 AAGTTTTGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:65266 original size:24 final size:24
Alignment explanation
Indices: 65239--65285 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
65229 ATACAATTAA
65239 TATAAAGTAT-AAGTATAAGTATAT
1 TATAAA-TATAAAGTATAAGTATAT
* *
65263 TATATATATAAAGTATAATTATA
1 TATAAATATAAAGTATAAGTATA
65286 AAGACTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (24 bp):
TATAAATATAAAGTATAAGTATAT
Found at i:65307 original size:20 final size:22
Alignment explanation
Indices: 65284--65327 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
65274 AGTATAATTA
*
65284 TAAAGACTA-AAA-TATATAAG
1 TAAAGAATACAAAGTATATAAG
*
65304 TAAATAATACAAAGTATATAAG
1 TAAAGAATACAAAGTATATAAG
65326 TA
1 TA
65328 TATAAAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 3 0.15
22 10 0.50
ACGTcount: A:0.59, C:0.05, G:0.09, T:0.27
Consensus pattern (22 bp):
TAAAGAATACAAAGTATATAAG
Found at i:65376 original size:27 final size:26
Alignment explanation
Indices: 65337--65585 Score: 77
Period size: 25 Copynumber: 9.6 Consensus size: 26
65327 ATATAAAATA
* *
65337 TATATACACATAAAGTACAAGTATAAG
1 TATATATATATAAAGTA-AAGTATAAG
* * *
65364 TATATATATATAATGTATA-TATGCA-
1 TATATATATATAAAGTAAAGTAT-AAG
65389 TATATAATAATATAAAGTATAAGTATAAG
1 TATAT-AT-ATATAAAGTA-AAGTATAAG
*
65418 TATAAGTATATTATATA-TATAA--A-AAG
1 TAT-A-TATA-TATAAAGTA-AAGTATAAG
*
65444 TACA-AT-TATAAAGACTAAAGTATATAAG
1 TATATATATATAAAG--TAAAG--TATAAG
* *
65472 TATATAAATATAAAGT--A-TATATG
1 TATATATATATAAAGTAAAGTATAAG
65495 TATATAATAATATAAAGT--A-TATAAG
1 TATAT-AT-ATATAAAGTAAAGTATAAG
* *
65520 TGTATA-ATGTAAAGT--A-TATAAG
1 TATATATATATAAAGTAAAGTATAAG
* * *
65542 CATATATATATATA-TAAACTATAAGGTG
1 TATATATATATAAAGTAAAGTATAA---G
65570 TATATATATATAAAGT
1 TATATATATATAAAGT
65586 TTTAGTATAA
Statistics
Matches: 169, Mismatches: 24, Indels: 56
0.68 0.10 0.22
Matches are distributed among these distances:
21 5 0.03
22 20 0.12
23 19 0.11
24 5 0.03
25 33 0.20
26 10 0.06
27 25 0.15
28 22 0.13
29 14 0.08
30 15 0.09
31 1 0.01
ACGTcount: A:0.51, C:0.03, G:0.10, T:0.36
Consensus pattern (26 bp):
TATATATATATAAAGTAAAGTATAAG
Found at i:65414 original size:6 final size:6
Alignment explanation
Indices: 65403--65427 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
65393 TAATAATATA
65403 AAGTAT AAGTAT AAGTAT AAGTAT A
1 AAGTAT AAGTAT AAGTAT AAGTAT A
65428 TTATATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (6 bp):
AAGTAT
Found at i:65634 original size:27 final size:27
Alignment explanation
Indices: 65591--65648 Score: 91
Period size: 27 Copynumber: 2.1 Consensus size: 27
65581 AAAGTTTTAG
*
65591 TATAAATTATATATACATATATAATAA
1 TATAAAGTATATATACATATATAATAA
65618 TATAAAGTATA-AGTACATATATAATAA
1 TATAAAGTATATA-TACATATATAATAA
65645 TATA
1 TATA
65649 TATACTTATA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 1 0.03
27 28 0.97
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.38
Consensus pattern (27 bp):
TATAAAGTATATATACATATATAATAA
Found at i:65718 original size:17 final size:17
Alignment explanation
Indices: 65678--65730 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 17
65668 TTTAAACTAT
*
65678 ATAATTTATACATAGTATAT
1 ATAATTTATA-AT--TATAC
65698 ATAATTTATAATTATAC
1 ATAATTTATAATTATAC
* *
65715 ATAATATATAAATATA
1 ATAATTTATAATTATA
65731 AGTTGTATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
17 18 0.60
19 2 0.07
20 10 0.33
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (17 bp):
ATAATTTATAATTATAC
Found at i:65760 original size:21 final size:22
Alignment explanation
Indices: 65714--65762 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
65704 TATAATTATA
65714 CATA-ATATATAAATATAAGTT
1 CATATATATATAAATATAAGTT
* *
65735 -GTATATATTTAAATATAA-TT
1 CATATATATATAAATATAAGTT
65755 CATATATA
1 CATATATA
65763 ATTTGCATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (22 bp):
CATATATATATAAATATAAGTT
Found at i:65796 original size:22 final size:22
Alignment explanation
Indices: 65771--65812 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
65761 TAATTTGCAT
*
65771 ATAAACTATATAATTTATATTA
1 ATAAACTACATAATTTATATTA
*
65793 ATAAACTACATAGTTTATAT
1 ATAAACTACATAATTTATAT
65813 AGTTCAATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (22 bp):
ATAAACTACATAATTTATATTA
Found at i:65861 original size:2 final size:2
Alignment explanation
Indices: 65854--65946 Score: 59
Period size: 2 Copynumber: 46.0 Consensus size: 2
65844 TTATACATGG
* *
65854 TA TA TA TA GTT TA TA CA TA -A TA TA TA TA TA TA GTA TA TA -A TA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
* * * *
65896 -A TA TA AA TA TA AA CTA TA TA GTT TA TA TA TA TA GTT TA TA T-
1 TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA -TA TA TA TA
65937 TA TA TA TA TA
1 TA TA TA TA TA
65947 CACTTATACT
Statistics
Matches: 70, Mismatches: 12, Indels: 18
0.70 0.12 0.18
Matches are distributed among these distances:
1 4 0.06
2 60 0.86
3 6 0.09
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.46
Consensus pattern (2 bp):
TA
Found at i:65861 original size:20 final size:20
Alignment explanation
Indices: 65838--65881 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
65828 ATATAAATTC
**
65838 TATAGTTTATACATGGTATA
1 TATAGTTTATACATAATATA
65858 TATAGTTTATACATAATATA
1 TATAGTTTATACATAATATA
65878 TATA
1 TATA
65882 TATAGTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (20 bp):
TATAGTTTATACATAATATA
Found at i:65868 original size:11 final size:11
Alignment explanation
Indices: 65854--65946 Score: 52
Period size: 11 Copynumber: 8.5 Consensus size: 11
65844 TTATACATGG
* *
65854 TATATATAGTT
1 TATATATAATA
*
65865 TATACATAATA
1 TATATATAATA
65876 TATATAT-ATA
1 TATATATAATA
65886 GTATATAATAATA
1 -TATAT-ATAATA
*
65899 TAAATATAA-A
1 TATATATAATA
*
65909 CTATATAGT-TTA
1 -TATATA-TAATA
*
65921 TATATATAGT-
1 TATATATAATA
*
65931 T-TATATTATA
1 TATATATAATA
65941 TATATA
1 TATATA
65947 CACTTATACT
Statistics
Matches: 63, Mismatches: 10, Indels: 18
0.69 0.11 0.20
Matches are distributed among these distances:
9 6 0.10
10 7 0.11
11 39 0.62
12 8 0.13
13 3 0.05
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.46
Consensus pattern (11 bp):
TATATATAATA
Found at i:65971 original size:17 final size:17
Alignment explanation
Indices: 65951--65993 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
65941 TATATACACT
**
65951 TATACTTTATATGTTTA
1 TATACTTTATATACTTA
65968 TATACTTTATATACTTA
1 TATACTTTATATACTTA
65985 TATACTTTA
1 TATACTTTA
65994 GCAGGGGCGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.33, C:0.09, G:0.02, T:0.56
Consensus pattern (17 bp):
TATACTTTATATACTTA
Found at i:65978 original size:9 final size:9
Alignment explanation
Indices: 65951--65993 Score: 63
Period size: 8 Copynumber: 5.0 Consensus size: 9
65941 TATATACACT
65951 TATACTTTA
1 TATACTTTA
*
65960 TAT-GTTTA
1 TATACTTTA
65968 TATACTTTA
1 TATACTTTA
65977 TATAC-TTA
1 TATACTTTA
65985 TATACTTTA
1 TATACTTTA
65994 GCAGGGGCGG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
8 15 0.50
9 15 0.50
ACGTcount: A:0.33, C:0.09, G:0.02, T:0.56
Consensus pattern (9 bp):
TATACTTTA
Found at i:66202 original size:6 final size:6
Alignment explanation
Indices: 66191--66286 Score: 50
Period size: 6 Copynumber: 14.7 Consensus size: 6
66181 TACTTTAGTC
* * *
66191 TTTATA TTTATA CTTTATA TATA-A TATATA CTTATA CTTTATA TATATATA
1 TTTATA TTTATA -TTTATA TTTATA TTTATA TTTATA -TTTATA T-T-TATA
* * *
66242 TATATAA TTTATA GTTTATA TATATA CTCATATA CTTTATA TTTA
1 TTTAT-A TTTATA -TTTATA TTTATA -T-TTATA -TTTATA TTTA
66287 AACTATATAA
Statistics
Matches: 73, Mismatches: 8, Indels: 18
0.74 0.08 0.18
Matches are distributed among these distances:
5 5 0.07
6 28 0.38
7 28 0.38
8 12 0.16
ACGTcount: A:0.39, C:0.06, G:0.01, T:0.54
Consensus pattern (6 bp):
TTTATA
Found at i:66213 original size:2 final size:2
Alignment explanation
Indices: 66206--66678 Score: 90
Period size: 2 Copynumber: 237.0 Consensus size: 2
66196 ATTTATACTT
*
66206 TA TA TA TA -A TA TA TA CT- TA TA CTT 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
* * * * *
66248 -A TT TA TA GTT TA TA TA TA TA CTCA TA TA CTT TA TA TT TA AA CTA
1 TA TA TA TA -TA TA TA TA TA TA -T-A TA TA -TA TA TA TA TA TA -TA
* * * *
66292 TA TA -A TT TA TA CA TA GTA TA TA TA -A TT TA TA -A T- TA TA CA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
66331 TA GTA TA TA AA TA TA -A GT- TG TA TA TA TT TA AA TA TA GT- TCA
1 TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA T-A
* * * *
66372 TA TA TA T- TT TA TA TA AA AA T- TA TA TA -A TT TA TA T- TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
66409 TA AA T- TA TT TA -A TT TA TA TA TA GTG TA TA T- TA -A TA AA CTA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA
* * *
66449 TA TA GTT TA TA CA TA CTA TA TA TA GTT TA TA TA TA GTA TA TA -A
1 TA TA -TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA -TA TA TA TA
* * * * *
66492 TA -A TA TA AA TA TA AA CTA TA TA GTT TA TA TA CA TA GTT TA TA
1 TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA -TA TA TA
* * *
66534 TA TA TA -A TA TA TA TA CA CTA TA TA TA CA CTA TA TA GTT TA TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA -TA TA TA
* * *
66576 TA TA GTT TA TA T- TA -A TCA -A CTA TA TA GTT TA TA CA TA -A TA
1 TA TA -TA TA TA TA TA TA T-A TA -TA TA TA -TA TA TA TA TA TA TA
* * *
66616 TA TA TA -A TT TA TA TA TA GA -A TA TA -A TA -A TA TA AA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
66654 AA CTA TA TA GTA TA TA TA TA T- TA TA
1 TA -TA TA TA -TA TA TA TA TA TA TA TA
66679 ATTGTTTCAA
Statistics
Matches: 333, Mismatches: 77, Indels: 122
0.63 0.14 0.23
Matches are distributed among these distances:
1 31 0.09
2 267 0.80
3 34 0.10
4 1 0.00
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (2 bp):
TA
Found at i:66220 original size:11 final size:11
Alignment explanation
Indices: 66206--66680 Score: 72
Period size: 11 Copynumber: 42.9 Consensus size: 11
66196 ATTTATACTT
66206 TATATATAATA
1 TATATATAATA
* *
66217 TATACTTATACTT
1 TATA--TATAATA
66230 TATATAT-ATA
1 TATATATAATA
*
66240 TATATATAATT
1 TATATATAATA
*
66251 TATAGT-TTATA
1 TATA-TATAATA
*
66262 TATATACTCATA
1 TATATA-TAATA
* *
66274 TACTTTATATTTA
1 TA-TATATA-ATA
*
66287 AACTATATAAT-
1 TA-TATATAATA
*
66298 T-TATA-CATA
1 TATATATAATA
66307 GTATATATAAT-
1 -TATATATAATA
*
66318 T-TATA-ATTA
1 TATATATAATA
*
66327 TACATAGT-ATA
1 TATATA-TAATA
*
66338 TAAATATAAGT-
1 TATATATAA-TA
* *
66349 TGTATAT-ATT
1 TATATATAATA
* *
66359 TAAATATAGT-
1 TATATATAATA
* *
66369 TCATATATATTT
1 T-ATATATAATA
*
66381 TATATA-AAAA
1 TATATATAATA
*
66391 T-TATATAATT
1 TATATATAATA
66401 TATAT-TAATA
1 TATATATAATA
* * *
66411 AATTATTTAATT
1 TA-TATATAATA
* *
66423 TATATATAGTG
1 TATATATAATA
66434 TATAT-TAATA
1 TATATATAATA
* *
66444 AACTATATAGT-
1 TA-TATATAATA
*
66455 T-TATA-CATA
1 TATATATAATA
* *
66464 CTATATATAGTT
1 -TATATATAATA
*
66476 TATATATAGTA
1 TATATATAATA
66487 TATA-ATAATA
1 TATATATAATA
*
66497 TAAATATAA-A
1 TATATATAATA
*
66507 CTATATAGT-TTA
1 -TATATA-TAATA
* *
66519 TATACATAGTTTA
1 TATATATA--ATA
66532 TATATATAATA
1 TATATATAATA
* *
66543 TATATACACTA
1 TATATATAATA
* *
66554 TATATACACTA
1 TATATATAATA
*
66565 TATAGT-TTATA
1 TATA-TATAATA
*
66576 TATAGT-TTATA
1 TATA-TATAATA
66587 T-TA-ATCAACTA
1 TATATAT-AA-TA
66598 TATAGTTTATACATAA
1 TATA---TATA-AT-A
*
66614 TATATATAATT
1 TATATATAATA
66625 TATATATAGA-A
1 TATATATA-ATA
66636 TATA-ATAATA
1 TATATATAATA
*
66646 TAAATATAA-A
1 TATATATAATA
66656 CTATATAGTATATA
1 -TATATA-TA-ATA
66670 TATATTATAAT
1 TATA-TATAAT
66681 TGTTTCAATT
Statistics
Matches: 338, Mismatches: 68, Indels: 115
0.65 0.13 0.22
Matches are distributed among these distances:
8 5 0.01
9 20 0.06
10 58 0.17
11 166 0.49
12 34 0.10
13 42 0.12
14 3 0.01
15 2 0.01
16 8 0.02
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (11 bp):
TATATATAATA
Found at i:66253 original size:28 final size:26
Alignment explanation
Indices: 66193--66302 Score: 109
Period size: 28 Copynumber: 4.2 Consensus size: 26
66183 CTTTAGTCTT
66193 TATATTTATAC-TT-TATATATAATA
1 TATATTTATACTTTATATATATAATA
*
66217 TATACTTATACTTTATATATATATATA
1 TATATTTATACTTTATATATATA-ATA
* *
66244 TATAATTTATAGTTTATATATATACTCA
1 TAT-ATTTATACTTTATATATATAAT-A
* *
66272 TATACTTTATA-TTTAAACTATATAATT
1 TATA-TTTATACTTTATA-TATATAATA
66299 TATA
1 TATA
66303 CATAGTATAT
Statistics
Matches: 72, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
24 10 0.14
25 2 0.03
26 8 0.11
27 17 0.24
28 35 0.49
ACGTcount: A:0.41, C:0.06, G:0.01, T:0.52
Consensus pattern (26 bp):
TATATTTATACTTTATATATATAATA
Found at i:66363 original size:21 final size:21
Alignment explanation
Indices: 66338--66380 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
66328 ACATAGTATA
*
66338 TAAATATAAGTT-GTATATATT
1 TAAATAT-AGTTCATATATATT
66359 TAAATATAGTTCATATATATT
1 TAAATATAGTTCATATATATT
66380 T
1 T
66381 TATATAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (21 bp):
TAAATATAGTTCATATATATT
Found at i:66438 original size:33 final size:33
Alignment explanation
Indices: 66392--66459 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 33
66382 ATATAAAAAT
* * *
66392 TATATAATTTATATTAATAAATTATTTAATTTA
1 TATATAATGTATATTAATAAACTATATAATTTA
* *
66425 TATATAGTGTATATTAATAAACTATATAGTTTA
1 TATATAATGTATATTAATAAACTATATAATTTA
66458 TA
1 TA
66460 CATACTATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.50
Consensus pattern (33 bp):
TATATAATGTATATTAATAAACTATATAATTTA
Found at i:66545 original size:9 final size:9
Alignment explanation
Indices: 66465--66678 Score: 60
Period size: 9 Copynumber: 23.4 Consensus size: 9
66455 TTATACATAC
*
66465 TATATATAG
1 TATATATAA
*
66474 TTTATAT-A
1 TATATATAA
66482 TAGTATATAA
1 TA-TATATAA
66492 TA-ATATAA
1 TATATATAA
66500 -ATATA-AA
1 TATATATAA
* *
66507 -CTATATAG
1 TATATATAA
*
66515 TTTATATACA
1 TATATATA-A
66525 TAGT-T-T-A
1 TA-TATATAA
66532 TATATATAA
1 TATATATAA
66541 TATATATACA
1 TATATATA-A
66551 CTATATATACA
1 -TATATATA-A
*
66562 CTATATAGT-T
1 -TATATA-TAA
*
66572 TATATATAG
1 TATATATAA
*
66581 TTTATATTAA
1 TATATA-TAA
*
66591 TCAACTATATAGTT
1 T--A-TATATA--A
*
66605 TATACATAA
1 TATATATAA
66614 TATATATAA
1 TATATATAA
*
66623 TTTATAT-A
1 TATATATAA
*
66631 TAGAATATAA
1 TA-TATATAA
66641 TA-ATATAA
1 TATATATAA
66649 -ATATA-AA
1 TATATATAA
66656 CTATATAGT-A
1 -TATATA-TAA
*
66666 TATATATAT
1 TATATATAA
66675 TATA
1 TATA
66679 ATTGTTTCAA
Statistics
Matches: 156, Mismatches: 21, Indels: 56
0.67 0.09 0.24
Matches are distributed among these distances:
6 1 0.01
7 14 0.09
8 25 0.16
9 71 0.46
10 13 0.08
11 23 0.15
12 4 0.03
13 4 0.03
14 1 0.01
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (9 bp):
TATATATAA
Found at i:66579 original size:13 final size:13
Alignment explanation
Indices: 66508--66587 Score: 58
Period size: 13 Copynumber: 6.1 Consensus size: 13
66498 AAATATAAAC
66508 TATATAGTTTATA
1 TATATAGTTTATA
*
66521 TACATAGTTTATA
1 TATATAGTTTATA
*
66534 TATATAATATATATA
1 TATATAGT-T-TATA
* * *
66549 CACTATA-TATACA
1 TA-TATAGTTTATA
66562 CTATATAG-TT-TA
1 -TATATAGTTTATA
66574 TATATAGTTTATA
1 TATATAGTTTATA
66587 T
1 T
66588 TAATCAACTA
Statistics
Matches: 51, Mismatches: 9, Indels: 14
0.69 0.12 0.19
Matches are distributed among these distances:
11 7 0.14
12 3 0.06
13 29 0.57
14 2 0.04
15 6 0.12
16 4 0.08
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.47
Consensus pattern (13 bp):
TATATAGTTTATA
Found at i:68213 original size:21 final size:21
Alignment explanation
Indices: 68144--68234 Score: 85
Period size: 21 Copynumber: 4.3 Consensus size: 21
68134 AAGAGTTAAG
* *
68144 ACCTTTCGATAAAAGGAATTA
1 ACCTTTTGATAAAAGGACTTA
*
68165 ACCTTTCT-ATTAAAGGACTTA
1 ACCTTT-TGATAAAAGGACTTA
* *
68186 TCCTTTTGATAAAAGGGCTTA
1 ACCTTTTGATAAAAGGACTTA
* * *
68207 ACCTTTTTATGAAAGGATTTA
1 ACCTTTTGATAAAAGGACTTA
*
68228 ATCTTTT
1 ACCTTTT
68235 CATGAAGAGA
Statistics
Matches: 56, Mismatches: 12, Indels: 4
0.78 0.17 0.06
Matches are distributed among these distances:
20 1 0.02
21 55 0.98
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.40
Consensus pattern (21 bp):
ACCTTTTGATAAAAGGACTTA
Found at i:71900 original size:57 final size:57
Alignment explanation
Indices: 71839--71948 Score: 184
Period size: 57 Copynumber: 1.9 Consensus size: 57
71829 TTTTTGGACT
* * *
71839 CATTTTGTGGCATTGGACATTGGTTTATTTTATTTGTATTTGTGTATTCACTTGCCC
1 CATTTTGTGGCATTGGACATTGGATTATTTCATTTGTATTTGGGTATTCACTTGCCC
*
71896 CATTTTGTGGCATTTGACATTGGATTATTTCATTTGTATTTGGGTATTCACTT
1 CATTTTGTGGCATTGGACATTGGATTATTTCATTTGTATTTGGGTATTCACTT
71949 AACATACTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 49 1.00
ACGTcount: A:0.17, C:0.13, G:0.19, T:0.51
Consensus pattern (57 bp):
CATTTTGTGGCATTGGACATTGGATTATTTCATTTGTATTTGGGTATTCACTTGCCC
Found at i:72298 original size:18 final size:18
Alignment explanation
Indices: 72277--72337 Score: 65
Period size: 18 Copynumber: 3.5 Consensus size: 18
72267 AAAGATTAGA
72277 ATAAAATAAAAGATAAAG
1 ATAAAATAAAAGATAAAG
* *
72295 ATAAAATAATTA-AT-TA-
1 ATAAAATAA-AAGATAAAG
*
72311 ATTAAATAAAAGATAAAG
1 ATAAAATAAAAGATAAAG
72329 ATAAAATAA
1 ATAAAATAA
72338 TTAATTAATT
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
15 1 0.03
16 10 0.30
17 2 0.06
18 19 0.58
19 1 0.03
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.25
Consensus pattern (18 bp):
ATAAAATAAAAGATAAAG
Found at i:72318 original size:34 final size:34
Alignment explanation
Indices: 72280--72351 Score: 144
Period size: 34 Copynumber: 2.1 Consensus size: 34
72270 GATTAGAATA
72280 AAATAAAAGATAAAGATAAAATAATTAATTAATT
1 AAATAAAAGATAAAGATAAAATAATTAATTAATT
72314 AAATAAAAGATAAAGATAAAATAATTAATTAATT
1 AAATAAAAGATAAAGATAAAATAATTAATTAATT
72348 AAAT
1 AAAT
72352 TTAAAGTAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (34 bp):
AAATAAAAGATAAAGATAAAATAATTAATTAATT
Found at i:85181 original size:18 final size:18
Alignment explanation
Indices: 85125--85171 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
85115 AATTTTTTTT
85125 AAATAAAAGATTAGAATA
1 AAATAAAAGATTAGAATA
*
85143 AAATAAAAGATTGGAATA
1 AAATAAAAGATTAGAATA
85161 AAATAAAAGAT
1 AAATAAAAGAT
85172 AAAGATAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.66, C:0.00, G:0.13, T:0.21
Consensus pattern (18 bp):
AAATAAAAGATTAGAATA
Found at i:85851 original size:6 final size:6
Alignment explanation
Indices: 85840--85875 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
85830 TTAGCATCTT
85840 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
85876 CAAATAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
TAAAAA
Found at i:86028 original size:24 final size:21
Alignment explanation
Indices: 85996--86045 Score: 66
Period size: 20 Copynumber: 2.3 Consensus size: 21
85986 CATTCAAAAA
85996 TCCTAAAAACATGGAAAAGATAAT
1 TCCTAAAAA-AT--AAAAGATAAT
86020 TCCT-AAAAATAAAAGATAAT
1 TCCTAAAAAATAAAAGATAAT
86040 TCCTAA
1 TCCTAA
86046 CGATAGTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
20 14 0.56
21 1 0.04
22 2 0.08
23 4 0.16
24 4 0.16
ACGTcount: A:0.54, C:0.14, G:0.08, T:0.24
Consensus pattern (21 bp):
TCCTAAAAAATAAAAGATAAT
Found at i:87300 original size:16 final size:17
Alignment explanation
Indices: 87264--87305 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
87254 ATTGAGTCAT
87264 TTAATCAAATATAAAAC
1 TTAATCAAATATAAAAC
87281 TTAA-CAAATTATAAAA-
1 TTAATCAAA-TATAAAAC
87297 TTAAATCAA
1 TT-AATCAA
87306 GATAAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 6 0.27
17 13 0.59
18 3 0.14
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.31
Consensus pattern (17 bp):
TTAATCAAATATAAAAC
Found at i:87649 original size:9 final size:9
Alignment explanation
Indices: 87635--87664 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
87625 AAGTTGAACG
87635 AAACAATAA
1 AAACAATAA
87644 AAACAATAA
1 AAACAATAA
*
87653 AAAAAATAA
1 AAACAATAA
87662 AAA
1 AAA
87665 ATAATAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.83, C:0.07, G:0.00, T:0.10
Consensus pattern (9 bp):
AAACAATAA
Found at i:89513 original size:243 final size:244
Alignment explanation
Indices: 89044--89569 Score: 585
Period size: 243 Copynumber: 2.2 Consensus size: 244
89034 CATTGTGGTT
* * * * * *
89044 ACTCATTCGTTGTGAAGTTGAGTCGATTTTGGATAACTTGAGCGTGATATCATTCGTCATGAAGT
1 ACTCATTCGTCGTGAAGTTGAGTCGATCTTGGATGACTTGAGCATGATATCATTCATCATGAACT
* * * * *
89109 TGAAATCTAGCTCGAAATCTAGAGTGGGAAATAGCTCCTCATTGTTGAGTTAAGCTAAATCTTAG
66 TGAAATCTAGATAGAAATCTAGACTAGGAAATAGCTCCTCATTGTTGAGTTAAGCTAAATCATAG
* * * * *
89174 TTGATTTTAATTTTTCTTTTAGTCCAATATCCTTCATCGTGAAGTTTAAATTCAACTTGAAGACC
131 TTCATTTTAAGTCTTCTTCTAGTCCAATATCCTTCATCGTGAAGTTGAAATTCAACTTGAAGACC
* * ***
89239 TTAGTTGAAATATAGCTCCTCGTTGTTGAGTT-ACGCTAAATTATGGATG
196 TTAGTTGAAATATACCTCATCGCCATTGAGTTGA-GCTAAATTATGGATG
* * * * *
89288 ATTCATTCGTCGTGAAGTTGAATCAATCTTGGATGACTTGAG-ATGGTAT-ACTTCATCGTGAAC
1 ACTCATTCGTCGTGAAGTTGAGTCGATCTTGGATGACTTGAGCATGATATCA-TTCATCATGAAC
* * **
89351 TTGAAATCTAGATAGAAATTTAGACTAGGAAGTAGCTCCTCATTGTTTTGTTAAGCTAAATCATA
65 TTGAAATCTAGATAGAAATCTAGACTAGGAAATAGCTCCTCATTGTTGAGTTAAGCTAAATCATA
** * * ** *
89416 GTTCATTTTGGGTCTTCTTCTAGTCCAATATCCTTCGTTGTGAAGTTGAAATTTGACTTTAAGAC
130 GTTCATTTTAAGTCTTCTTCTAGTCCAATATCCTTCATCGTGAAGTTGAAATTCAACTTGAAGAC
* * ** *
89481 CTTGGTTTTG-AA-ATACCTCATTGCCATTGAGTTGAGCTATGTTGTGGATG
195 CTTAG--TTGAAATATACCTCATCGCCATTGAGTTGAGCTAAATTATGGATG
**
89531 ACTCATTCGTCGTGAAGTTGAGTCGATCTCAGATGACTT
1 ACTCATTCGTCGTGAAGTTGAGTCGATCTTGGATGACTT
89570 ACGTTCAATA
Statistics
Matches: 231, Mismatches: 47, Indels: 9
0.80 0.16 0.03
Matches are distributed among these distances:
242 1 0.00
243 188 0.81
244 39 0.17
245 3 0.01
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.38
Consensus pattern (244 bp):
ACTCATTCGTCGTGAAGTTGAGTCGATCTTGGATGACTTGAGCATGATATCATTCATCATGAACT
TGAAATCTAGATAGAAATCTAGACTAGGAAATAGCTCCTCATTGTTGAGTTAAGCTAAATCATAG
TTCATTTTAAGTCTTCTTCTAGTCCAATATCCTTCATCGTGAAGTTGAAATTCAACTTGAAGACC
TTAGTTGAAATATACCTCATCGCCATTGAGTTGAGCTAAATTATGGATG
Found at i:90971 original size:162 final size:162
Alignment explanation
Indices: 90701--90996 Score: 538
Period size: 162 Copynumber: 1.8 Consensus size: 162
90691 ATTCATCTTA
*
90701 ACACAAGGCCTTTATCCCGACGGTTGTCGAGTGTTCCATTAGTGTCATAATCTGAATGTAATCCT
1 ACACAAGGCCTTTATCCCGACGGTTGTCGAGTGATCCATTAGTGTCATAATCTGAATGTAATCCT
*
90766 ATTCATAAAGTTAGGGCTCTCATAATTACATCTTTGCTCCATTACTTTAACAAAATACCTTTAAT
66 ATTCATAAAGTTAGGGCTCTCACAATTACATCTTTGCTCCATTACTTTAACAAAATACCTTTAAT
90831 TAGAGGATTCAAGAGCCAAAAAATTTATCTCG
131 TAGAGGATTCAAGAGCCAAAAAATTTATCTCG
*
90863 ACACAAGGCCTTTATCCCGACGGTTGTCGAGTGATCTATTAGTGTCATAATCTGAATGTAATCCT
1 ACACAAGGCCTTTATCCCGACGGTTGTCGAGTGATCCATTAGTGTCATAATCTGAATGTAATCCT
* * *
90928 ATTCATAAAGTTAGGGCTCTCACAATTACATCTTTGGTCCATTACTTTAGCAGAATACCTTTAAT
66 ATTCATAAAGTTAGGGCTCTCACAATTACATCTTTGCTCCATTACTTTAACAAAATACCTTTAAT
90993 TAGA
131 TAGA
90997 CCATTCTATT
Statistics
Matches: 128, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
162 128 1.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (162 bp):
ACACAAGGCCTTTATCCCGACGGTTGTCGAGTGATCCATTAGTGTCATAATCTGAATGTAATCCT
ATTCATAAAGTTAGGGCTCTCACAATTACATCTTTGCTCCATTACTTTAACAAAATACCTTTAAT
TAGAGGATTCAAGAGCCAAAAAATTTATCTCG
Found at i:100034 original size:17 final size:17
Alignment explanation
Indices: 100012--100056 Score: 90
Period size: 17 Copynumber: 2.6 Consensus size: 17
100002 AATTAAAGGA
100012 CTAAAGTGAATTTATGC
1 CTAAAGTGAATTTATGC
100029 CTAAAGTGAATTTATGC
1 CTAAAGTGAATTTATGC
100046 CTAAAGTGAAT
1 CTAAAGTGAAT
100057 GCTCAAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.33
Consensus pattern (17 bp):
CTAAAGTGAATTTATGC
Found at i:100638 original size:29 final size:29
Alignment explanation
Indices: 100598--100671 Score: 130
Period size: 29 Copynumber: 2.6 Consensus size: 29
100588 TAAAGGATTG
100598 AATTAAAACAAATAAAAATAATAGGCTGA
1 AATTAAAACAAATAAAAATAATAGGCTGA
*
100627 AATTAAAACAAATCAAAATAATAGGCTGA
1 AATTAAAACAAATAAAAATAATAGGCTGA
*
100656 AATTAAAAGAAATAAA
1 AATTAAAACAAATAAA
100672 GTTTTAAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.64, C:0.07, G:0.09, T:0.20
Consensus pattern (29 bp):
AATTAAAACAAATAAAAATAATAGGCTGA
Found at i:101028 original size:14 final size:14
Alignment explanation
Indices: 100988--101030 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
100978 GTTGGAGTAA
*
100988 TAAATACTAAAAAT
1 TAAATACTAAAAGT
* *
101002 TAAAATGCCAAAAGT
1 T-AAATACTAAAAGT
101017 TAAATACTAAAAGT
1 TAAATACTAAAAGT
101031 AAACAATATA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.58, C:0.09, G:0.07, T:0.26
Consensus pattern (14 bp):
TAAATACTAAAAGT
Found at i:101042 original size:22 final size:24
Alignment explanation
Indices: 101017--101073 Score: 59
Period size: 22 Copynumber: 2.5 Consensus size: 24
101007 TGCCAAAAGT
* *
101017 TAAATACTAAAA-GTA-AACAATA
1 TAAATACTAAAAGGGACAAAAATA
101039 TAAA-A-TAAAAGGGACAAAAATA
1 TAAATACTAAAAGGGACAAAAATA
101061 TAAATACCTAAAA
1 TAAATA-CTAAAA
101074 CATAAAAGAC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 5 0.18
21 3 0.11
22 14 0.50
23 1 0.04
25 5 0.18
ACGTcount: A:0.65, C:0.09, G:0.07, T:0.19
Consensus pattern (24 bp):
TAAATACTAAAAGGGACAAAAATA
Found at i:101103 original size:30 final size:30
Alignment explanation
Indices: 101069--101191 Score: 78
Period size: 29 Copynumber: 4.1 Consensus size: 30
101059 TATAAATACC
*
101069 TAAAACATAAAAGACTGAAATGTAAA-TAAA
1 TAAAA-ATAAAAGACTAAAATGTAAAGTAAA
* * **
101099 T-AAAATAAAA-ATGCTAAAATTTAAATTGCA
1 TAAAAATAAAAGA--CTAAAATGTAAAGTAAA
* *
101129 T-AAAATAAATACACTAAAATGTAAAGTATA
1 TAAAAATAAA-AGACTAAAATGTAAAGTAAA
* *
101159 TAAAAAT-AAAGGCTGAAATGTAAA-TAAAA
1 TAAAAATAAAAGACTAAAATGTAAAGT-AAA
101188 TAAA
1 TAAA
101192 CATGCTCAAA
Statistics
Matches: 74, Mismatches: 12, Indels: 15
0.73 0.12 0.15
Matches are distributed among these distances:
27 1 0.01
28 7 0.09
29 31 0.42
30 28 0.38
31 6 0.08
32 1 0.01
ACGTcount: A:0.61, C:0.06, G:0.09, T:0.24
Consensus pattern (30 bp):
TAAAAATAAAAGACTAAAATGTAAAGTAAA
Found at i:101123 original size:29 final size:30
Alignment explanation
Indices: 101086--101191 Score: 83
Period size: 30 Copynumber: 3.6 Consensus size: 30
101076 TAAAAGACTG
*
101086 AAATGTAAA-TAAATAAAATAAAAATGCTA
1 AAATGTAAAGTAAATAAAATAAAAACGCTA
* * ** * *
101115 AAATTTAAATTGCATAAAATAAATACACTA
1 AAATGTAAAGTAAATAAAATAAAAACGCTA
* * * *
101145 AAATGTAAAGTATATAAAA-ATAAAGGCTG
1 AAATGTAAAGTAAATAAAATAAAAACGCTA
101174 AAATGTAAA-TAAAATAAA
1 AAATGTAAAGT-AAATAAA
101192 CATGCTCAAA
Statistics
Matches: 59, Mismatches: 16, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
28 1 0.02
29 28 0.47
30 30 0.51
ACGTcount: A:0.61, C:0.05, G:0.08, T:0.25
Consensus pattern (30 bp):
AAATGTAAAGTAAATAAAATAAAAACGCTA
Found at i:103756 original size:17 final size:17
Alignment explanation
Indices: 103709--103769 Score: 54
Period size: 17 Copynumber: 3.6 Consensus size: 17
103699 GTGGAATAAA
*
103709 TTAAAGAATAAAAAAAT
1 TTAAAGAATGAAAAAAT
**
103726 AGAAA-AAT-AGAAAAAT
1 TTAAAGAATGA-AAAAAT
103742 TTAAAGAATGAAAAAAT
1 TTAAAGAATGAAAAAAT
* *
103759 GTATAGAATGA
1 TTAAAGAATGA
103770 TTTCCACTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
15 1 0.03
16 12 0.34
17 21 0.60
18 1 0.03
ACGTcount: A:0.66, C:0.00, G:0.13, T:0.21
Consensus pattern (17 bp):
TTAAAGAATGAAAAAAT
Found at i:106116 original size:47 final size:47
Alignment explanation
Indices: 106047--106148 Score: 204
Period size: 47 Copynumber: 2.2 Consensus size: 47
106037 TGTTATCCAG
106047 TTCTCATGCTTATTCAGAAAAATAAACCTATTAGCATTCTTTTCTAA
1 TTCTCATGCTTATTCAGAAAAATAAACCTATTAGCATTCTTTTCTAA
106094 TTCTCATGCTTATTCAGAAAAATAAACCTATTAGCATTCTTTTCTAA
1 TTCTCATGCTTATTCAGAAAAATAAACCTATTAGCATTCTTTTCTAA
106141 TTCTCATG
1 TTCTCATG
106149 ATTTATTTGA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 55 1.00
ACGTcount: A:0.32, C:0.20, G:0.07, T:0.41
Consensus pattern (47 bp):
TTCTCATGCTTATTCAGAAAAATAAACCTATTAGCATTCTTTTCTAA
Found at i:108886 original size:19 final size:20
Alignment explanation
Indices: 108840--108886 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
108830 ATTAATTCTC
* * *
108840 TTTTGAAAGCAAAAATGGAG
1 TTTTAAAAGCAAAAATGAAA
*
108860 TTTGAAAAGC-AAAATGAAA
1 TTTTAAAAGCAAAAATGAAA
108879 TTTTAAAA
1 TTTTAAAA
108887 AAAAAGATAT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.51, C:0.04, G:0.17, T:0.28
Consensus pattern (20 bp):
TTTTAAAAGCAAAAATGAAA
Found at i:112167 original size:21 final size:22
Alignment explanation
Indices: 112129--112171 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
112119 ATTTAAATAT
*
112129 ATTAAAGGAAGTATCGATACTC
1 ATTAAAGGAAGTACCGATACTC
*
112151 ATTAATGG-AGTACCGATACTC
1 ATTAAAGGAAGTACCGATACTC
112172 CCTGTCCTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.28
Consensus pattern (22 bp):
ATTAAAGGAAGTACCGATACTC
Found at i:112223 original size:21 final size:20
Alignment explanation
Indices: 112199--112244 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
112189 ATTTTTGCAG
*
112199 AGAAAAAATCCCCAATCGGTT
1 AGAAAAAATCCCCAA-CGGCT
**
112220 AGAAATCATCCCCAACGGCT
1 AGAAAAAATCCCCAACGGCT
112240 AGAAA
1 AGAAA
112245 CGACCACAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.43, C:0.26, G:0.15, T:0.15
Consensus pattern (20 bp):
AGAAAAAATCCCCAACGGCT
Found at i:112244 original size:20 final size:21
Alignment explanation
Indices: 112206--112244 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
112196 CAGAGAAAAA
*
112206 ATCCCCAATCGGTTAGAAATC
1 ATCCCCAATCGGCTAGAAATC
112227 ATCCCCAA-CGGCTAGAAA
1 ATCCCCAATCGGCTAGAAA
112245 CGACCACAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.36, C:0.31, G:0.15, T:0.18
Consensus pattern (21 bp):
ATCCCCAATCGGCTAGAAATC
Found at i:115110 original size:43 final size:44
Alignment explanation
Indices: 115063--115147 Score: 102
Period size: 43 Copynumber: 2.0 Consensus size: 44
115053 CTGGAGTAAG
* * *
115063 AAACACTA-AAAATTAAAATGCCAAAAATGTAAATA-CTAAAAGT
1 AAACAATATAAAA-TAAAAGGCCAAAAATATAAATACCTAAAAGT
* *
115106 AAACAATATAAAATAAAAGGGCAGAAATATAAATACCTAAAA
1 AAACAATATAAAATAAAAGGCCAAAAATATAAATACCTAAAA
115148 CATAAAAGAC
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
43 25 0.71
44 10 0.29
ACGTcount: A:0.62, C:0.11, G:0.08, T:0.19
Consensus pattern (44 bp):
AAACAATATAAAATAAAAGGCCAAAAATATAAATACCTAAAAGT
Found at i:118242 original size:12 final size:12
Alignment explanation
Indices: 118221--118254 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
118211 GATGTTTTCC
118221 CTGATTTCTGTT
1 CTGATTTCTGTT
*
118233 CTGATCTCTGTT
1 CTGATTTCTGTT
*
118245 ATGATTTCTG
1 CTGATTTCTG
118255 ATATCTCTGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.12, C:0.18, G:0.18, T:0.53
Consensus pattern (12 bp):
CTGATTTCTGTT
Found at i:121966 original size:15 final size:15
Alignment explanation
Indices: 121944--121977 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
121934 ACATAATACA
*
121944 AGTTAAAAAA-ATAT
1 AGTTAAAAAAGAAAT
121958 AGTTAAAAAAGAAAT
1 AGTTAAAAAAGAAAT
121973 AGTTA
1 AGTTA
121978 CAGTACAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.26
Consensus pattern (15 bp):
AGTTAAAAAAGAAAT
Found at i:122007 original size:23 final size:23
Alignment explanation
Indices: 121962--122007 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
121952 AAATATAGTT
*
121962 AAAAAAGAAATAGTTACAGTACA
1 AAAAAAGAAATAGTTAAAGTACA
* * *
121985 AAAAAATACATAGTTAAATTACA
1 AAAAAAGAAATAGTTAAAGTACA
122008 TAATATTTTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.61, C:0.09, G:0.09, T:0.22
Consensus pattern (23 bp):
AAAAAAGAAATAGTTAAAGTACA
Found at i:122488 original size:22 final size:23
Alignment explanation
Indices: 122460--122506 Score: 87
Period size: 22 Copynumber: 2.1 Consensus size: 23
122450 TTTTGAGGAA
122460 AAAGAGTAACCTTACAAA-CCTC
1 AAAGAGTAACCTTACAAACCCTC
122482 AAAGAGTAACCTTACAAACCCTC
1 AAAGAGTAACCTTACAAACCCTC
122505 AA
1 AA
122507 GAATTATACC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.47, C:0.28, G:0.09, T:0.17
Consensus pattern (23 bp):
AAAGAGTAACCTTACAAACCCTC
Found at i:124080 original size:18 final size:18
Alignment explanation
Indices: 124057--124102 Score: 67
Period size: 18 Copynumber: 2.5 Consensus size: 18
124047 AGGCATTTGA
124057 TCCTCTGGC-TGTGCTTGT
1 TCCTCT-GCTTGTGCTTGT
124075 TCCTCTGCTTGTGCTTGT
1 TCCTCTGCTTGTGCTTGT
124093 TCCTCCTGCT
1 TCCT-CTGCT
124103 GTTATGGTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 2 0.08
18 19 0.73
19 5 0.19
ACGTcount: A:0.00, C:0.33, G:0.22, T:0.46
Consensus pattern (18 bp):
TCCTCTGCTTGTGCTTGT
Found at i:125742 original size:22 final size:23
Alignment explanation
Indices: 125679--125741 Score: 92
Period size: 23 Copynumber: 2.7 Consensus size: 23
125669 CAGAACCCTC
125679 AGGGGGTATCGATTCCCCTTCAA
1 AGGGGGTATCGATTCCCCTTCAA
* *
125702 AGGGGGAATCGGTTCCCCTTC-A
1 AGGGGGTATCGATTCCCCTTCAA
125724 AGGGGTGTATCGATTCCC
1 AGGGG-GTATCGATTCCC
125742 TCTGCACTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 6 0.17
23 29 0.83
ACGTcount: A:0.19, C:0.25, G:0.30, T:0.25
Consensus pattern (23 bp):
AGGGGGTATCGATTCCCCTTCAA
Found at i:137319 original size:20 final size:20
Alignment explanation
Indices: 137282--137320 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
137272 AGAGCACATA
*
137282 TAGGATCATCTAGATGCATT
1 TAGGATCATATAGATGCATT
* *
137302 TAGGATCTTATAGGTGCAT
1 TAGGATCATATAGATGCAT
137321 GTGGTGGAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (20 bp):
TAGGATCATATAGATGCATT
Found at i:139058 original size:12 final size:12
Alignment explanation
Indices: 139001--139052 Score: 52
Period size: 12 Copynumber: 4.1 Consensus size: 12
138991 ATAGCATTTT
*
139001 TTATTTTACTTC
1 TTATTTTACTTG
139013 TTCATTTT-CTTTG
1 TT-ATTTTAC-TTG
139026 TATAGTTTTACTTG
1 T-TA-TTTTACTTG
139040 TTATTTTACTTG
1 TTATTTTACTTG
139052 T
1 T
139053 CTTTTTCAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
12 13 0.38
13 11 0.32
14 9 0.26
15 1 0.03
ACGTcount: A:0.15, C:0.12, G:0.08, T:0.65
Consensus pattern (12 bp):
TTATTTTACTTG
Found at i:143133 original size:20 final size:20
Alignment explanation
Indices: 143096--143134 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
143086 ATAGCCCATA
*
143096 TAGGATCATGTAGATGCATT
1 TAGGAGCATGTAGATGCATT
* *
143116 TAGGAGCATTTAGTTGCAT
1 TAGGAGCATGTAGATGCAT
143135 ATGGTGGAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.28, C:0.10, G:0.26, T:0.36
Consensus pattern (20 bp):
TAGGAGCATGTAGATGCATT
Done.