Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000555.1 Hibiscus syriacus cultivar Beakdansim tig00001082_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: 81447
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Found at i:1068 original size:19 final size:17
Alignment explanation
Indices: 1032--1064 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1022 AATAATTCAC
1032 TCAACCTTCTTTTCTCA
1 TCAACCTTCTTTTCTCA
*
1049 TCAACCTTCTCTTCTC
1 TCAACCTTCTTTTCTC
1065 TCATGTCAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.39, G:0.00, T:0.45
Consensus pattern (17 bp):
TCAACCTTCTTTTCTCA
Found at i:6511 original size:23 final size:23
Alignment explanation
Indices: 6477--6537 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
6467 CTCATATAAA
6477 TGCACCGA-AGTGCCACGTAGAAT
1 TGCACC-ATAGTGCCACGTAGAAT
*
6500 TGCACCATAGTGCCGCGTAGAAT
1 TGCACCATAGTGCCACGTAGAAT
*
6523 TGCACCGTAGTGCCA
1 TGCACCATAGTGCCA
6538 TATAATAATG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
22 1 0.03
23 33 0.97
ACGTcount: A:0.26, C:0.28, G:0.26, T:0.20
Consensus pattern (23 bp):
TGCACCATAGTGCCACGTAGAAT
Found at i:7761 original size:19 final size:19
Alignment explanation
Indices: 7737--7773 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
7727 TCTTTTATAT
7737 TCATATAATTTATATCATA
1 TCATATAATTTATATCATA
**
7756 TCATATGGTTTATATCAT
1 TCATATAATTTATATCAT
7774 CATAACATAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.11, G:0.05, T:0.49
Consensus pattern (19 bp):
TCATATAATTTATATCATA
Found at i:8235 original size:21 final size:21
Alignment explanation
Indices: 8209--8252 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
8199 ATTTTATTCG
* *
8209 CTTGAAGGGGTATCGGTTCCC
1 CTTGAAGGGGTACCGATTCCC
*
8230 CTTGAATGGGTACCGATTCCC
1 CTTGAAGGGGTACCGATTCCC
8251 CT
1 CT
8253 AGCTCAGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.27, G:0.27, T:0.30
Consensus pattern (21 bp):
CTTGAAGGGGTACCGATTCCC
Found at i:14331 original size:3 final size:3
Alignment explanation
Indices: 14323--14388 Score: 91
Period size: 3 Copynumber: 21.7 Consensus size: 3
14313 ATTTAGTTAT
14323 TAA TAA TAA -AA TTAA TAA TAA TAA TAA TAA TAA TAGA TTAA TAA TAA
1 TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TA-A -TAA TAA TAA
14370 TAA TAA TAA TAA -AA TAA TA
1 TAA TAA TAA TAA TAA TAA TA
14389 TTTTTGGTAG
Statistics
Matches: 58, Mismatches: 0, Indels: 10
0.85 0.00 0.15
Matches are distributed among these distances:
2 4 0.07
3 48 0.83
4 4 0.07
5 2 0.03
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:14820 original size:134 final size:133
Alignment explanation
Indices: 14588--15042 Score: 587
Period size: 134 Copynumber: 3.4 Consensus size: 133
14578 GGTCTGGTCG
* * * **
14588 TCTAAGGGTGACACGAGTCCTACGTGATGAGGAGATCTGGTCGGGGGATGACACAACTCATACAA
1 TCTAGGGGTGACACGACTCCTACGTGATGAGGAGATCTGGTCGGGGGATGACACAGCTCATACGT
*
14653 GATGAAGAGTTCTGGCCATCTTTAGGAAGGGTGATAACATGGTTCCTACGTAATAAGGAC-ATCT
66 GATGAAGAGTTCTGGCCATCTTTAGGAAGGGTGATAACA-GGTTCCTACGTGATAAGGACGA-CT
14717 GGTTA
129 GGTTA
* * *
14722 TCTAGGGGTGACAC-AGCTCCTACGTGATGAGGAGATATGGTCGGGGGATGACACAGTTTATACG
1 TCTAGGGGTGACACGA-CTCCTACGTGATGAGGAGATCTGGTCGGGGGATGACACAGCTCATACG
* * *
14786 TGATAAAGAGTTCTGGCCATCTTTAGGAAGGGTGATAGAACA-GTTCCTATGTGATAAGAACGAC
65 TGATGAAGAGTTCTGGCCATCTTTAGGAAGGGTGAT--AACAGGTTCCTACGTGATAAGGACGAC
14850 TGGTTA
128 TGGTTA
* * * * * *
14856 TCTAGGGGGTGACACGAATCCTACGTGATGAAGAGACCTCGTCGGGGAATGACA-TGACTCATAC
1 TCTA-GGGGTGACACGACTCCTACGTGATGAGGAGATCTGGTCGGGGGATGACACAG-CTCATAC
* * * *
14920 GTGTTGAAGAGTTCTGGCCATCTTTAGGAAGAGTGATAACACGGTTCTTACGTGATGAGGACGAC
64 GTGATGAAGAGTTCTGGCCATCTTTAGGAAGGGTGATAACA-GGTTCCTACGTGATAAGGACGAC
14985 TGGTTA
128 TGGTTA
* *
14991 TCTA-GGGTGACACGTCTCCTACGTGATGAGGGGATCTGGTCGGGGGATGACA
1 TCTAGGGGTGACACGACTCCTACGTGATGAGGAGATCTGGTCGGGGGATGACA
15043 TGGTTTCTAC
Statistics
Matches: 277, Mismatches: 35, Indels: 19
0.84 0.11 0.06
Matches are distributed among these distances:
133 46 0.17
134 117 0.42
135 109 0.39
136 5 0.02
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (133 bp):
TCTAGGGGTGACACGACTCCTACGTGATGAGGAGATCTGGTCGGGGGATGACACAGCTCATACGT
GATGAAGAGTTCTGGCCATCTTTAGGAAGGGTGATAACAGGTTCCTACGTGATAAGGACGACTGG
TTA
Found at i:15130 original size:29 final size:29
Alignment explanation
Indices: 15088--15145 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
15078 AGGGATAATG
* * *
15088 GTTTCAAGAGAAACCGATTCAAAGATGAT
1 GTTTCAAAAGAAACAGACTCAAAGATGAT
15117 GTTTCAAAAGAAACAGACTCAAAGATGAT
1 GTTTCAAAAGAAACAGACTCAAAGATGAT
15146 TTTGTTAAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.45, C:0.14, G:0.19, T:0.22
Consensus pattern (29 bp):
GTTTCAAAAGAAACAGACTCAAAGATGAT
Found at i:15741 original size:39 final size:39
Alignment explanation
Indices: 15688--15779 Score: 112
Period size: 39 Copynumber: 2.3 Consensus size: 39
15678 AGATAGAATT
*
15688 TGTTTTTAAGAGAAAGTTGTCTCCAACGAGACAAAATTTTG
1 TGTTTTTAAGA-AAA-TTGTCTCCAACGAGACAAAACTTTG
* * * *
15729 TGTTTTTAAGAAAATTGTCTCTAGCGAGACGACACTTTG
1 TGTTTTTAAGAAAATTGTCTCCAACGAGACAAAACTTTG
*
15768 TTTTTTTAAGAA
1 TGTTTTTAAGAA
15780 GATAATCTCA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
39 31 0.69
40 3 0.07
41 11 0.24
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (39 bp):
TGTTTTTAAGAAAATTGTCTCCAACGAGACAAAACTTTG
Found at i:16121 original size:14 final size:14
Alignment explanation
Indices: 16102--16137 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
16092 TTCATGTGTC
16102 ATGTATGTATATGT
1 ATGTATGTATATGT
16116 ATGTATGTATATGT
1 ATGTATGTATATGT
16130 -TG-ATGTAT
1 ATGTATGTAT
16138 GTTTTCTCGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 6 0.27
13 2 0.09
14 14 0.64
ACGTcount: A:0.28, C:0.00, G:0.22, T:0.50
Consensus pattern (14 bp):
ATGTATGTATATGT
Found at i:20280 original size:5 final size:5
Alignment explanation
Indices: 20270--20295 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
20260 TTTTGCAATG
20270 ATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA A
20296 GTGAAAAGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:22268 original size:3 final size:3
Alignment explanation
Indices: 22260--22308 Score: 75
Period size: 3 Copynumber: 16.7 Consensus size: 3
22250 ATTTAGTTAT
22260 TAA TAA TAA -AA GTAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -AA
1 TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
22304 TAA TA
1 TAA TA
22309 TTTTTGATAG
Statistics
Matches: 43, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.09
3 37 0.86
4 2 0.05
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:23132 original size:26 final size:26
Alignment explanation
Indices: 23098--23150 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
23088 GAAAAAATTT
23098 GTTGCAAGGAGGAAGAAGAAGAAGAA
1 GTTGCAAGGAGGAAGAAGAAGAAGAA
* *
23124 GTTGTAAGGAGGAGGAAGAAGAAGAA
1 GTTGCAAGGAGGAAGAAGAAGAAGAA
23150 G
1 G
23151 AAAAGGGGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.47, C:0.02, G:0.42, T:0.09
Consensus pattern (26 bp):
GTTGCAAGGAGGAAGAAGAAGAAGAA
Found at i:25390 original size:19 final size:19
Alignment explanation
Indices: 25363--25400 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
25353 TGGTGACTCC
*
25363 AATTCAAAATTTTCAAATT
1 AATTCAAAATTGTCAAATT
*
25382 AATTTAAAATTGTCAAATT
1 AATTCAAAATTGTCAAATT
25401 TTTAAATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.42
Consensus pattern (19 bp):
AATTCAAAATTGTCAAATT
Found at i:31188 original size:41 final size:41
Alignment explanation
Indices: 31141--31333 Score: 154
Period size: 41 Copynumber: 4.5 Consensus size: 41
31131 ATTCGCGTTG
*
31141 CATTTCGCGTTGCGATAGTTGAAAATCGTGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
* ** **
31182 CATTTCGCGTTGCGAT-TTTTCATTTCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
* * *** ***
31222 AACTATCGCAACGCGAAATGGAAAATCGCTTGAAAATCGCAACGCGATTTTC
1 CA-TTTCGCGTTGCG--AT-----A--G-TTGAAAATCGCGTTGCGATTTTC
31274 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
31315 CATTTCGCGTTGCGATAGT
1 CATTTCGCGTTGCGATAGT
31334 CTACAGTTGT
Statistics
Matches: 113, Mismatches: 27, Indels: 24
0.69 0.16 0.15
Matches are distributed among these distances:
40 19 0.17
41 63 0.56
42 1 0.01
43 2 0.02
44 1 0.01
49 2 0.02
51 8 0.07
52 17 0.15
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
Found at i:31195 original size:20 final size:20
Alignment explanation
Indices: 31170--31221 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
31160 TGAAAATCGT
31170 GTTGCGATTTTCCATTTCGC
1 GTTGCGATTTTCCATTTCGC
*
31190 GTTGCGATTTTTCATTTCGC
1 GTTGCGATTTTCCATTTCGC
31210 GTTGCGATTTTC
1 GTTGCGATTTTC
31222 AACTATCGCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.10, C:0.21, G:0.21, T:0.48
Consensus pattern (20 bp):
GTTGCGATTTTCCATTTCGC
Found at i:31288 original size:20 final size:20
Alignment explanation
Indices: 31265--31330 Score: 78
Period size: 20 Copynumber: 3.2 Consensus size: 20
31255 AAATCGCAAC
31265 GCGATTTTCCATTTCGCGTT
1 GCGATTTTCCATTTCGCGTT
* ** **
31285 GCGATAGTTGAAAATCGCGTT
1 GCGAT-TTTCCATTTCGCGTT
31306 GCGATTTTCCATTTCGCGTT
1 GCGATTTTCCATTTCGCGTT
31326 GCGAT
1 GCGAT
31331 AGTCTACAGT
Statistics
Matches: 35, Mismatches: 10, Indels: 2
0.74 0.21 0.04
Matches are distributed among these distances:
20 20 0.57
21 15 0.43
ACGTcount: A:0.17, C:0.21, G:0.24, T:0.38
Consensus pattern (20 bp):
GCGATTTTCCATTTCGCGTT
Found at i:31350 original size:22 final size:22
Alignment explanation
Indices: 31322--31374 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
31312 TTCCATTTCG
*
31322 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTAT
*
31344 TGTTGCGATAGTCTACAGTTAT
1 CGTTGCGATAGTCTACAGTTAT
31366 CGTTGCGAT
1 CGTTGCGAT
31375 TTTCCAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.19, C:0.17, G:0.26, T:0.38
Consensus pattern (22 bp):
CGTTGCGATAGTCTACAGTTAT
Found at i:31483 original size:6 final size:6
Alignment explanation
Indices: 31472--31515 Score: 81
Period size: 6 Copynumber: 7.5 Consensus size: 6
31462 GACACGTATT
31472 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
31516 CGAGACAGAC
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.13
6 33 0.87
ACGTcount: A:0.32, C:0.52, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:32158 original size:41 final size:41
Alignment explanation
Indices: 32113--32229 Score: 164
Period size: 41 Copynumber: 2.9 Consensus size: 41
32103 ACAGCTGTAC
**
32113 ACTATCGCAACGCGAACTGGAAAATCGCT-TTGCGATTTTCA
1 ACTATCGCAACGCGAACTGGAAAATCG-TAACGCGATTTTCA
* *
32154 ACTATCGCAACGCGAAATGGAAAATTGTAACGCGATTTTCA
1 ACTATCGCAACGCGAACTGGAAAATCGTAACGCGATTTTCA
* *
32195 ACTATCGCAACGCGAACTGGAAAATTGCAACGCGA
1 ACTATCGCAACGCGAACTGGAAAATCGTAACGCGA
32230 AATGCAACGC
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
40 1 0.01
41 68 0.99
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.22
Consensus pattern (41 bp):
ACTATCGCAACGCGAACTGGAAAATCGTAACGCGATTTTCA
Found at i:32168 original size:21 final size:21
Alignment explanation
Indices: 32144--32209 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 21
32134 AAATCGCTTT
32144 GCGATTTTCAACTATCGCAAC
1 GCGATTTTCAACTATCGCAAC
** ** * * *
32165 GCGAAATGGAA-AATTGTAAC
1 GCGATTTTCAACTATCGCAAC
32185 GCGATTTTCAACTATCGCAAC
1 GCGATTTTCAACTATCGCAAC
32206 GCGA
1 GCGA
32210 ACTGGAAAAT
Statistics
Matches: 30, Mismatches: 14, Indels: 2
0.65 0.30 0.04
Matches are distributed among these distances:
20 13 0.43
21 17 0.57
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (21 bp):
GCGATTTTCAACTATCGCAAC
Found at i:32226 original size:20 final size:20
Alignment explanation
Indices: 32160--32233 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 20
32150 TTCAACTATC
32160 GCAACGCGAAATGGAAAATT
1 GCAACGCGAAATGGAAAATT
* ** ** * *
32180 GTAACGCGATTTTCAACTATC
1 GCAACGCGAAATGGAA-AATT
*
32201 GCAACGCGAACTGGAAAATT
1 GCAACGCGAAATGGAAAATT
32221 GCAACGCGAAATG
1 GCAACGCGAAATG
32234 CAACGCGAAT
Statistics
Matches: 38, Mismatches: 15, Indels: 2
0.69 0.27 0.04
Matches are distributed among these distances:
20 25 0.66
21 13 0.34
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.19
Consensus pattern (20 bp):
GCAACGCGAAATGGAAAATT
Found at i:35419 original size:2 final size:2
Alignment explanation
Indices: 35414--35446 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
35404 TCTCTCTCTC
35414 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 T
35447 TCTAAGCTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:35881 original size:20 final size:20
Alignment explanation
Indices: 35858--35910 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
35848 AACTATAATA
35858 TGTAAATCGCAACGCGAATT
1 TGTAAATCGCAACGCGAATT
*
35878 TGTAAATCGCAACGTGAATT
1 TGTAAATCGCAACGCGAATT
35898 TGTAAATCGCAAC
1 TGTAAATCGCAAC
35911 ACAGAAGCCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (20 bp):
TGTAAATCGCAACGCGAATT
Found at i:35883 original size:40 final size:40
Alignment explanation
Indices: 35824--35910 Score: 104
Period size: 40 Copynumber: 2.2 Consensus size: 40
35814 GGTTTCAAAT
* *
35824 TCGCAACTCGAATAGGTAAATCACAAC-TATAATATGTAAA
1 TCGCAACGCGAATAGGTAAATCACAACGT-GAATATGTAAA
** * *
35864 TCGCAACGCGAATTTGTAAATCGCAACGTGAATTTGTAAA
1 TCGCAACGCGAATAGGTAAATCACAACGTGAATATGTAAA
35904 TCGCAAC
1 TCGCAAC
35911 ACAGAAGCCA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
40 39 0.98
41 1 0.03
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (40 bp):
TCGCAACGCGAATAGGTAAATCACAACGTGAATATGTAAA
Found at i:38483 original size:298 final size:299
Alignment explanation
Indices: 37923--38523 Score: 970
Period size: 298 Copynumber: 2.0 Consensus size: 299
37913 GTATAGTTGC
*
37923 AATGATCATGCCTTAGAGATCGTTGGCGTGGGAACCATCAAATTGAAGATGTATGATGGAACAAT
1 AATGATCATGCCTTAGAGATCGTTGGCGTGAGAACCATCAAATTGAAGATGTATGATGGAACAAT
* * *
37988 TAAAGTTGTTCGAGATGTGCGGCACGTAAAAGGCCTGAAGAAAAATTTATTATCATACGGATTGT
66 TAAAGTTGTTCGAGATGTGCGGCACGTAAAAGGCCTGAAGAAAAAATTATTATCATACGAAATGT
* *
38053 TGGATAATAATGCAAGCAAGATTGAAACACAGAAATGAATCATAAAAGTGTTTCGTGGAGCGCTT
131 TGGATAATAATGCAAGCAAGATTGAAACACAGAAAGGAATCATAAAAGTGTTCCGTGGAGCGCTT
* *
38118 AAGGTGATGAAAGGCGAAAAGATAGCAACAAACTTATACATGCTAAAGGGAAAGACTTTGTTAGA
196 AAGGTGATGAAAGGCGAAAAGATAACAACAAACTTATACATGCTAAAGGGAAAGACTTTGCTAGA
*
38183 AGCAGAAGCCTCTGTTGCCTCATATAGTTCAGATTCTGT
261 AGCAGAAGCCTCTGTTGCCTCATATAGTTCAGATTCTAT
* *
38222 AATGATTATGTCTTAGAGATCGTTGGCGTGAGAACCATCAAATTGAAGATGTATGATGGAACAAT
1 AATGATCATGCCTTAGAGATCGTTGGCGTGAGAACCATCAAATTGAAGATGTATGATGGAACAAT
* * *
38287 TAAAGTTGTTCGAGATGTGTGGCATGTTAAAGGCCTGAA-AAAAAATTATTATCATACGAAATGT
66 TAAAGTTGTTCGAGATGTGCGGCACGTAAAAGGCCTGAAGAAAAAATTATTATCATACGAAATGT
* * *
38351 TGGATAATAATGCAAGCAAGATTGAAACACGGAAAGGAATCATGAAGGTGTTCCGTGGAGCGCTT
131 TGGATAATAATGCAAGCAAGATTGAAACACAGAAAGGAATCATAAAAGTGTTCCGTGGAGCGCTT
** * * * * *
38416 GTGGTGATGAAAGGTGAAAAGATAACAACAAACTTGTACATGCTGAAGGGAGAGATTTTGCTAGA
196 AAGGTGATGAAAGGCGAAAAGATAACAACAAACTTATACATGCTAAAGGGAAAGACTTTGCTAGA
*
38481 AGCAGAAGCCTCTGTTGCCTCATGTAGTTCAGATTCTAT
261 AGCAGAAGCCTCTGTTGCCTCATATAGTTCAGATTCTAT
38520 AATG
1 AATG
38524 CTATGGCATC
Statistics
Matches: 277, Mismatches: 25, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
298 179 0.65
299 98 0.35
ACGTcount: A:0.36, C:0.13, G:0.25, T:0.27
Consensus pattern (299 bp):
AATGATCATGCCTTAGAGATCGTTGGCGTGAGAACCATCAAATTGAAGATGTATGATGGAACAAT
TAAAGTTGTTCGAGATGTGCGGCACGTAAAAGGCCTGAAGAAAAAATTATTATCATACGAAATGT
TGGATAATAATGCAAGCAAGATTGAAACACAGAAAGGAATCATAAAAGTGTTCCGTGGAGCGCTT
AAGGTGATGAAAGGCGAAAAGATAACAACAAACTTATACATGCTAAAGGGAAAGACTTTGCTAGA
AGCAGAAGCCTCTGTTGCCTCATATAGTTCAGATTCTAT
Found at i:39490 original size:21 final size:21
Alignment explanation
Indices: 39466--39521 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
39456 GAGAATCTTC
*
39466 TGAAGCAGAACCAGCATATGA
1 TGAAGCAGAACCAGCACATGA
39487 TGAAGCAGAACCAGCACATGA
1 TGAAGCAGAACCAGCACATGA
39508 TGAA-CAAGAACCAG
1 TGAAGC-AGAACCAG
39522 AGAGTTCTGA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
20 1 0.03
21 32 0.97
ACGTcount: A:0.45, C:0.21, G:0.23, T:0.11
Consensus pattern (21 bp):
TGAAGCAGAACCAGCACATGA
Found at i:41353 original size:23 final size:23
Alignment explanation
Indices: 41326--41376 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
41316 ATACTTTAGG
*
41326 TGGTTGAAAGTTGGCAACC-ATAA
1 TGGTTCAAAGTTGGC-ACCAATAA
*
41349 TGGTTCATAGTTGGCACCAATAA
1 TGGTTCAAAGTTGGCACCAATAA
41372 TGGTT
1 TGGTT
41377 AAAAAGTGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 3 0.12
23 22 0.88
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.31
Consensus pattern (23 bp):
TGGTTCAAAGTTGGCACCAATAA
Found at i:43944 original size:25 final size:25
Alignment explanation
Indices: 43915--43964 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
43905 CCCTAGGGGA
43915 TTCATGTTTCCCTCACAACAAATCG
1 TTCATGTTTCCCTCACAACAAATCG
43940 TTCATGTTTCCCTCACAACAAATCG
1 TTCATGTTTCCCTCACAACAAATCG
43965 ATTTTCTCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.32, G:0.08, T:0.32
Consensus pattern (25 bp):
TTCATGTTTCCCTCACAACAAATCG
Found at i:44978 original size:2 final size:2
Alignment explanation
Indices: 44971--45002 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
44961 AATCTCCTTT
44971 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
45003 AGGTATTCTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:48653 original size:21 final size:22
Alignment explanation
Indices: 48629--48672 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
48619 AAACATTTTC
48629 TTAAGATAATAA-AAATTTATT
1 TTAAGATAATAAGAAATTTATT
* * *
48650 TTAATATAGTAAGATATTTATT
1 TTAAGATAATAAGAAATTTATT
48672 T
1 T
48673 ATTCAAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (22 bp):
TTAAGATAATAAGAAATTTATT
Found at i:49906 original size:18 final size:19
Alignment explanation
Indices: 49864--49907 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
49854 TCTTCTTTTT
*
49864 TTGTTTTGTGGTTTGCTGC
1 TTGTTGTGTGGTTTGCTGC
* *
49883 TGGTTGTGTGG-TTGTTGC
1 TTGTTGTGTGGTTTGCTGC
49901 TTGTTGT
1 TTGTTGT
49908 TTTTTTTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.00, C:0.07, G:0.36, T:0.57
Consensus pattern (19 bp):
TTGTTGTGTGGTTTGCTGC
Found at i:50464 original size:12 final size:11
Alignment explanation
Indices: 50447--50514 Score: 72
Period size: 12 Copynumber: 6.3 Consensus size: 11
50437 CTTGGGCTTG
50447 TAATAATATATT
1 TAATAATA-ATT
50459 TAATAATAA--
1 TAATAATAATT
50468 TAATAAT-ATT
1 TAATAATAATT
*
50478 T-ATAATAATAA
1 TAATAATAAT-T
50489 TAATAATAATTT
1 TAATAATAA-TT
50501 TAATAATAATT
1 TAATAATAATT
50512 TAA
1 TAA
50515 GTAAAATGAA
Statistics
Matches: 48, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
8 1 0.02
9 12 0.25
10 3 0.06
11 7 0.15
12 24 0.50
13 1 0.02
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
TAATAATAATT
Found at i:50465 original size:3 final size:3
Alignment explanation
Indices: 50459--50510 Score: 68
Period size: 3 Copynumber: 17.3 Consensus size: 3
50449 ATAATATATT
* * **
50459 TAA TAA TAA TAA TAA TAT TTA TAA TAA TAA TAA TAA TAA TTT TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
50507 TAA T
1 TAA T
50511 TTAAGTAAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (3 bp):
TAA
Found at i:50473 original size:21 final size:21
Alignment explanation
Indices: 50447--50510 Score: 96
Period size: 21 Copynumber: 3.0 Consensus size: 21
50437 CTTGGGCTTG
50447 TAATAATATATTTAATAATAA
1 TAATAATATATTTAATAATAA
50468 TAATAATAT-TTATAATAATAA
1 TAATAATATATT-TAATAATAA
50489 TAATAATA-ATTTTAATAATAA
1 TAATAATATA-TTTAATAATAA
50510 T
1 T
50511 TTAAGTAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
20 2 0.05
21 36 0.90
22 2 0.05
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TAATAATATATTTAATAATAA
Found at i:50764 original size:76 final size:76
Alignment explanation
Indices: 50664--51150 Score: 850
Period size: 76 Copynumber: 6.4 Consensus size: 76
50654 GAGGTCTTTA
* *
50664 AAACATCATGCACTGAAGGGCTTACAGATGACCCTAAGGCTTTGAAAACATCAGAAAA-CTCCCG
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCA-AAAAGCTCCCG
50728 AAGGCTTTTTGG
65 AAGGCTTTTTGG
*
50740 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
50805 AGGCTTTTTGG
66 AGGCTTTTTGG
* * *
50816 AAATATCATGCATTGCAGGACTTACAGATGACCCTAAAGCTTTTGAAAACATCAAAAAGCTCCCG
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGC-TTTGAAAACATCAAAAAGCTCCCG
50881 AAGGCTTTTTGG
65 AAGGCTTTTTGG
* * *
50893 AAACATCATGCACTACAGGACTTACATATGACCCTAAGGCTTTGAAACCATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
50958 AGGCTTTTTGG
66 AGGCTTTTTGG
50969 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
51034 AGGCTTTTTGG
66 AGGCTTTTTGG
**
51045 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAATATCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
51110 AGGCTTTTTGG
66 AGGCTTTTTGG
51121 AAACATCATGCACTGCAGGACTTACAGATG
1 AAACATCATGCACTGCAGGACTTACAGATG
51151 TGGGAAATAG
Statistics
Matches: 392, Mismatches: 17, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
75 4 0.01
76 317 0.81
77 71 0.18
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (76 bp):
AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGG
Found at i:51065 original size:229 final size:228
Alignment explanation
Indices: 50664--51150 Score: 843
Period size: 229 Copynumber: 2.1 Consensus size: 228
50654 GAGGTCTTTA
*
50664 AAACATCATGCACTGA-AGGGCTTACAGATGACCCTAAGGCTTTGAAAACATCAGAAAACTCCCG
1 AAACATCATGCACT-ACAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAGAAAACTCCCG
*
50728 AAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCA
65 AAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCA
* *
50793 AAAAGCTCCCGAAGGCTTTTTGGAAATATCATGCATTGCAGGACTTACAGATGACCCTAAAGCTT
130 AAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAAGC-T
*
50858 TTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
194 TTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGG
* *
50893 AAACATCATGCACTACAGGACTTACATATGACCCTAAGGCTTTGAAACCATCA-AAAAGCTCCCG
1 AAACATCATGCACTACAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAGAAAA-CTCCCG
50957 AAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCA
65 AAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCA
*
51022 AAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTT
130 AAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAAGCTT
*
51087 TGAAAACATCAAAAATATCCCGAAGGCTTTTTGG
195 TGAAAACATCAAAAAGATCCCGAAGGCTTTTTGG
*
51121 AAACATCATGCACTGCAGGACTTACAGATG
1 AAACATCATGCACTACAGGACTTACAGATG
51151 TGGGAAATAG
Statistics
Matches: 245, Mismatches: 11, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
228 67 0.27
229 178 0.73
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (228 bp):
AAACATCATGCACTACAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAGAAAACTCCCGA
AGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
AAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAAGCTTT
GAAAACATCAAAAAGATCCCGAAGGCTTTTTGG
Found at i:51403 original size:185 final size:184
Alignment explanation
Indices: 51091--51460 Score: 713
Period size: 185 Copynumber: 2.0 Consensus size: 184
51081 AGGCTTTGAA
*
51091 AACATCAAAAATATCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGTGGGA
1 AACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGTGGGA
51156 AATAGTTTACTAAGTAAAAAAACTAAGGAAATCGTTTTCTTACTTTTCAACAATTTCATTTTTAG
66 AATAGTTTACTAAGTAAAAAAACTAAGGAAATCGTTTTCTTACTTTTCAACAATTTCATTTTTAG
51221 AAAAGATTGAATGAGAAACTATGGAAATCGTTTTCTCATTATTTTTCAAAATAAC
131 AAAAGATTGAATGAGAAACTATGGAAATCGTTTTCTCATT-TTTTTCAAAATAAC
*
51276 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGTGGGA
1 AACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGTGGGA
51341 AATAGTTTACTAAGTAAAAAAACTAAGGAAATCGTTTTCTTACTTTTCAACAATTTCATTTTTAG
66 AATAGTTTACTAAGTAAAAAAACTAAGGAAATCGTTTTCTTACTTTTCAACAATTTCATTTTTAG
51406 AAAAGATTGAATGAGAAACTATGGAAATCGTTTTCTCATTTTTTTCAAAATAAC
131 AAAAGATTGAATGAGAAACTATGGAAATCGTTTTCTCATTTTTTTCAAAATAAC
51460 A
1 A
51461 TGTTGATTGG
Statistics
Matches: 183, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
184 15 0.08
185 168 0.92
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (184 bp):
AACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGTGGGA
AATAGTTTACTAAGTAAAAAAACTAAGGAAATCGTTTTCTTACTTTTCAACAATTTCATTTTTAG
AAAAGATTGAATGAGAAACTATGGAAATCGTTTTCTCATTTTTTTCAAAATAAC
Found at i:52037 original size:22 final size:22
Alignment explanation
Indices: 52009--52063 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
51999 GATAAAGCTT
*
52009 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTGAAAAGAGAATCTA
* *
52031 TCATCTTTAAAAAGGGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
52053 TCATCTTTGAA
1 TCATCTTTGAA
52064 GAGTGTAGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:52513 original size:54 final size:54
Alignment explanation
Indices: 52431--52586 Score: 231
Period size: 54 Copynumber: 2.9 Consensus size: 54
52421 AGAATAGCAG
* *
52431 GTTCGTAAAACATTTGACAGCGCATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
* *
52485 GTTCGTAAAACATTTGATAACACATTCATCCTTTCCTGTGGTTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
*** * *
52539 GTTCGTAAAGTGTTTGACAACACATTCGTCCTTTTCTGTGGCTTCTGC
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGC
52587 CAAGATTTCT
Statistics
Matches: 91, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 91 1.00
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.38
Consensus pattern (54 bp):
GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
Found at i:55055 original size:114 final size:114
Alignment explanation
Indices: 54746--55078 Score: 533
Period size: 113 Copynumber: 2.9 Consensus size: 114
54736 ATACAGTTCT
* * * * * *
54746 TCTTTCAATTCCAATGATTGGTTCTGGGGTTCCTACCGAACCAGATCAGATAACTCAAAGAACAC
1 TCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGAATAC
*
54811 TTCCAGAAGATGCTATTGGGGCTCCTTATTTCTACTATGAACAAATTCA
66 TTCCAGAAGATGCTATTGGGGCTCCTTATTTCTACTATGAGCAAATTCA
*
54860 TCTTTCAAATCCAATG-TTGGTTTTGGGATTCATACCAAATCAGATCAGATAACTCAAAGAATAC
1 TCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGAATAC
* * *
54924 TTCCAGAAGATGCTATTGGGTCTTCTTATTTCTATTATGAGCAAATTCA
66 TTCCAGAAGATGCTATTGGGGCTCCTTATTTCTACTATGAGCAAATTCA
*
54973 TCTTTTAAATCCAATGATTGGTTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGAATAC
1 TCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGAATAC
* *
55038 TTCCAGAATATGTTATTGGGGCTCCTTATTTCTACTATGAG
66 TTCCAGAAGATGCTATTGGGGCTCCTTATTTCTACTATGAG
55079 AACATGACAC
Statistics
Matches: 200, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
113 102 0.51
114 98 0.49
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (114 bp):
TCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGAATAC
TTCCAGAAGATGCTATTGGGGCTCCTTATTTCTACTATGAGCAAATTCA
Found at i:57260 original size:24 final size:23
Alignment explanation
Indices: 57233--57317 Score: 75
Period size: 24 Copynumber: 3.5 Consensus size: 23
57223 ATTTCTCCCC
57233 TTTTTCTTTTTCCTTTTTTCC-TT
1 TTTTTCTTTTTCC-TTTTTCCTTT
57256 TTTTTCATTTTTCCTTTTTCATCTTT
1 TTTTTC-TTTTTCCTTTTTC--CTTT
*
57282 TTTTCCTTTTTCTCATTTTT-CTTT
1 TTTTTCTTTTTC-C-TTTTTCCTTT
*
57306 TTTCATCTTTTT
1 TTT-TTCTTTTT
57318 TTTTCTTTTT
Statistics
Matches: 52, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
23 12 0.23
24 14 0.27
25 13 0.25
26 8 0.15
27 5 0.10
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.75
Consensus pattern (23 bp):
TTTTTCTTTTTCCTTTTTCCTTT
Found at i:57266 original size:16 final size:16
Alignment explanation
Indices: 57247--57308 Score: 72
Period size: 16 Copynumber: 3.8 Consensus size: 16
57237 TCTTTTTCCT
57247 TTTTTCCTTTTTTTCA
1 TTTTTCCTTTTTTTCA
* *
57263 TTTTTCCTTTTTCATCTT
1 TTTTTCCTTTTT-TTC-A
*
57281 TTTTTCCTTTTTCTCA
1 TTTTTCCTTTTTTTCA
57297 TTTTT-CTTTTTT
1 TTTTTCCTTTTTT
57309 CATCTTTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
15 6 0.15
16 17 0.44
17 4 0.10
18 12 0.31
ACGTcount: A:0.05, C:0.19, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTCCTTTTTTTCA
Found at i:57267 original size:18 final size:18
Alignment explanation
Indices: 57246--57327 Score: 66
Period size: 18 Copynumber: 4.7 Consensus size: 18
57236 TTCTTTTTCC
*
57246 TTTTTTCCTTTTTTTCA-
1 TTTTTTCCTTTTTATCAT
57263 -TTTTTCCTTTTTCATC-T
1 TTTTTTCCTTTTT-ATCAT
*
57280 TTTTTTCCTTTTTCTCAT
1 TTTTTTCCTTTTTATCAT
* *
57298 TTTTCTT--TTTTCATCTT
1 TTTT-TTCCTTTTTATCAT
*
57315 TTTTTTTCTTTTT
1 TTTTTTCCTTTTT
57328 TCTTTCTTTG
Statistics
Matches: 52, Mismatches: 6, Indels: 13
0.73 0.08 0.18
Matches are distributed among these distances:
16 14 0.27
17 15 0.29
18 21 0.40
19 2 0.04
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTTTTCCTTTTTATCAT
Found at i:57287 original size:34 final size:35
Alignment explanation
Indices: 57246--57328 Score: 132
Period size: 34 Copynumber: 2.4 Consensus size: 35
57236 TTCTTTTTCC
57246 TTTTTTCCTTTTTTTCATTTTTCCTTTTTCATC-T
1 TTTTTTCCTTTTTTTCATTTTTCCTTTTTCATCTT
* *
57280 TTTTTTCCTTTTTCTCATTTTTCTTTTTTCATCTT
1 TTTTTTCCTTTTTTTCATTTTTCCTTTTTCATCTT
*
57315 TTTTTTTCTTTTTT
1 TTTTTTCCTTTTTT
57329 CTTTCTTTGC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
34 31 0.70
35 13 0.30
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (35 bp):
TTTTTTCCTTTTTTTCATTTTTCCTTTTTCATCTT
Found at i:57300 original size:9 final size:8
Alignment explanation
Indices: 57232--57317 Score: 65
Period size: 9 Copynumber: 10.8 Consensus size: 8
57222 AATTTCTCCC
57232 CTTTTTCT
1 CTTTTTCT
*
57240 -TTTTCCT
1 CTTTTTCT
57247 -TTTTTC-
1 CTTTTTCT
*
57253 CTTTTTTT
1 CTTTTTCT
57261 CATTTTTC-
1 C-TTTTTCT
57269 CTTTTTCAT
1 CTTTTTC-T
*
57278 CTTTTTTT
1 CTTTTTCT
57286 CCTTTTTCT
1 -CTTTTTCT
57295 CATTTTTCT
1 C-TTTTTCT
57304 -TTTTTCAT
1 CTTTTTC-T
57312 CTTTTT
1 CTTTTT
57318 TTTTCTTTTT
Statistics
Matches: 63, Mismatches: 6, Indels: 17
0.73 0.07 0.20
Matches are distributed among these distances:
7 28 0.44
8 5 0.08
9 30 0.48
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (8 bp):
CTTTTTCT
Found at i:57326 original size:7 final size:7
Alignment explanation
Indices: 57233--57332 Score: 76
Period size: 7 Copynumber: 13.3 Consensus size: 7
57223 ATTTCTCCCC
57233 TTTTTCT
1 TTTTTCT
*
57240 TTTTCCT
1 TTTTTCT
57247 TTTTTCCTT
1 TTTTT-C-T
57256 TTTTTCAT
1 TTTTTC-T
*
57264 TTTTCCT
1 TTTTTCT
57271 TTTTCATCTT
1 TTTT--TC-T
57281 TTTTTCCT
1 TTTTT-CT
*
57289 TTTTCTCA
1 TTTT-TCT
57297 TTTTTCT
1 TTTTTCT
*
57304 TTTTTCA
1 TTTTTCT
*
57311 TCTTT-T
1 TTTTTCT
57317 TTTTTCT
1 TTTTTCT
57324 TTTTTCT
1 TTTTTCT
57331 TT
1 TT
57333 CTTTGCTGGA
Statistics
Matches: 74, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
6 4 0.05
7 37 0.50
8 19 0.26
9 9 0.12
10 5 0.07
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTTCT
Found at i:57333 original size:11 final size:11
Alignment explanation
Indices: 57299--57336 Score: 53
Period size: 10 Copynumber: 3.6 Consensus size: 11
57289 TTTTCTCATT
57299 TTTCTTTTTTC
1 TTTCTTTTTTC
*
57310 -ATCTTTTTT-
1 TTTCTTTTTTC
57319 TTTCTTTTTTC
1 TTTCTTTTTTC
57330 TTTCTTT
1 TTTCTTT
57337 GCTGGATGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
10 16 0.70
11 7 0.30
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTCTTTTTTC
Found at i:61616 original size:17 final size:15
Alignment explanation
Indices: 61594--61631 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
61584 AGACAAATAA
61594 AATAAAAAAAATATCTT
1 AATAAAAAAAATA--TT
61611 AAT-AAAAAAATATT
1 AATAAAAAAAATATT
61625 AATAAAA
1 AATAAAA
61632 TAATAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 5 0.25
15 3 0.15
16 9 0.45
17 3 0.15
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (15 bp):
AATAAAAAAAATATT
Found at i:61619 original size:16 final size:14
Alignment explanation
Indices: 61598--61636 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
61588 AAATAAAATA
61598 AAAAAAATATCTTAAT
1 AAAAAAATA--TTAAT
61614 AAAAAAATATTAAT
1 AAAAAAATATTAAT
*
61628 AAAATAATA
1 AAAAAAATA
61637 AAAATAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.59
16 9 0.41
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (14 bp):
AAAAAAATATTAAT
Found at i:62299 original size:21 final size:22
Alignment explanation
Indices: 62275--62318 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
62265 AAACATTTTC
62275 TTAAGATAATAA-AAATTTATT
1 TTAAGATAATAAGAAATTTATT
* * *
62296 TTAATATAGTAAGATATTTATT
1 TTAAGATAATAAGAAATTTATT
62318 T
1 T
62319 ATTCAAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (22 bp):
TTAAGATAATAAGAAATTTATT
Found at i:63586 original size:18 final size:19
Alignment explanation
Indices: 63544--63587 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
63534 TCTTCTTTTT
*
63544 TTGTTTTGTGGTTTGCTGC
1 TTGTTGTGTGGTTTGCTGC
* *
63563 TGGTTGTGTGG-TTGTTGC
1 TTGTTGTGTGGTTTGCTGC
63581 TTGTTGT
1 TTGTTGT
63588 TTTTTTTGTG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.00, C:0.07, G:0.36, T:0.57
Consensus pattern (19 bp):
TTGTTGTGTGGTTTGCTGC
Found at i:64143 original size:12 final size:11
Alignment explanation
Indices: 64126--64220 Score: 95
Period size: 12 Copynumber: 8.3 Consensus size: 11
64116 CTTGGGTTTG
64126 TAATAATATATT
1 TAATAATA-ATT
*
64138 TAATAATAATAA
1 TAATAATAAT-T
*
64150 TAATAATAATAA
1 TAATAATAAT-T
64162 TAATAATAATAT
1 TAATAATAAT-T
*
64174 TTATAATAA--
1 TAATAATAATT
64183 TAATAATAATTT
1 TAATAATAA-TT
64195 TAATAATAATTT
1 TAATAATAA-TT
64207 TAATAATAATT
1 TAATAATAATT
64218 TAA
1 TAA
64221 GTAAAATGAA
Statistics
Matches: 75, Mismatches: 4, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
9 8 0.11
11 7 0.09
12 60 0.80
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
TAATAATAATT
Found at i:64144 original size:3 final size:3
Alignment explanation
Indices: 64138--64216 Score: 104
Period size: 3 Copynumber: 26.3 Consensus size: 3
64128 ATAATATATT
* *
64138 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAT TTA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
** **
64186 TAA TAA TTT TAA TAA TAA TTT TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
64217 TTAAGTAAAA
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (3 bp):
TAA
Found at i:64210 original size:18 final size:19
Alignment explanation
Indices: 64126--64204 Score: 110
Period size: 18 Copynumber: 4.2 Consensus size: 19
64116 CTTGGGTTTG
64126 TAATAATATATTTAATAATAA
1 TAATAATA-ATTT-ATAATAA
*
64147 TAATAATAA-TAATAATAA
1 TAATAATAATTTATAATAA
64165 TAATAAT-ATTTATAATAA
1 TAATAATAATTTATAATAA
64183 TAATAATAATTT-TAATAA
1 TAATAATAATTTATAATAA
64201 TAAT
1 TAAT
64205 TTTAATAATA
Statistics
Matches: 54, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
17 1 0.02
18 39 0.72
19 5 0.09
20 1 0.02
21 8 0.15
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TAATAATAATTTATAATAA
Found at i:64851 original size:23 final size:23
Alignment explanation
Indices: 64808--64852 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
64798 ACATATTAAG
**
64808 TAACGCTTATATAATGTAATAGA
1 TAACGCTTATATAATAAAATAGA
64831 TAACGCTTATATAATAAAATAG
1 TAACGCTTATATAATAAAATAG
64853 GTATTTAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.47, C:0.09, G:0.11, T:0.33
Consensus pattern (23 bp):
TAACGCTTATATAATAAAATAGA
Found at i:64913 original size:87 final size:87
Alignment explanation
Indices: 64767--64929 Score: 265
Period size: 87 Copynumber: 1.9 Consensus size: 87
64757 TATGTTATAT
64767 TATTTAACTGAAAATATTATCAAGTACAATAACATATTAAGTAACGCTTATATAATGTAATAGAT
1 TATTTAACTGAAAATATTATCAAGTACAATAACATATTAAGTAACGCTTATATAATGTAATAGAT
64832 AACGCTTATATAATAAAATAGG
66 AACGCTTATATAATAAAATAGG
* * * *
64854 TATTTAACT-AGAAATATTATCAAGTACAATAACATATTAGGTAGCTCTTATATAATGTAATAGG
1 TATTTAACTGA-AAATATTATCAAGTACAATAACATATTAAGTAACGCTTATATAATGTAATAGA
*
64918 TAGCGCTTATAT
65 TAACGCTTATAT
64930 TGACCTATTT
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
86 1 0.01
87 69 0.99
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.35
Consensus pattern (87 bp):
TATTTAACTGAAAATATTATCAAGTACAATAACATATTAAGTAACGCTTATATAATGTAATAGAT
AACGCTTATATAATAAAATAGG
Found at i:65371 original size:182 final size:182
Alignment explanation
Indices: 65064--65597 Score: 951
Period size: 182 Copynumber: 2.9 Consensus size: 182
65054 TGCGTTCACC
** * * * *
65064 TTTTGTCATTTATAGACCGGTTTTATCATATTTTTACATATTATATTATTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
* *
65129 TTTATAAAGTATCGACACTTTATTGACGCTATAACTTATTCTCTTTTAAATTCCAAAAGTGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
65194 TACTTATAATAAATTATCGACACTTTCAACATATCCGGTAGCGCTTTACCTG
131 TACTTATAATAAATTATCGACACTTTCAACATATCCGGTAGCGCTTTACCTG
*
65246 TTTTGTCATTTCGAGATCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
65311 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
*
65376 TACTTATAATAAATTATTGACACTTTCAACATATCCGGTAGCGCTTTACCTG
131 TACTTATAATAAATTATCGACACTTTCAACATATCCGGTAGCGCTTTACCTG
*
65428 TTTTGTCATTTCGAGACCAGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
*
65493 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAACTGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
*
65558 TACTTATAATAAATTATCGACACTTTCAACATATCAGGTA
131 TACTTATAATAAATTATCGACACTTTCAACATATCCGGTA
65598 ACATTATGAT
Statistics
Matches: 337, Mismatches: 15, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
182 337 1.00
ACGTcount: A:0.28, C:0.17, G:0.12, T:0.43
Consensus pattern (182 bp):
TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
TACTTATAATAAATTATCGACACTTTCAACATATCCGGTAGCGCTTTACCTG
Found at i:66734 original size:257 final size:257
Alignment explanation
Indices: 66272--66914 Score: 1196
Period size: 257 Copynumber: 2.5 Consensus size: 257
66262 GTGTTTCATG
* *
66272 TTTTCCACCTACAATATTAATTTAATAATTTCATTTATACAAAAAATTATTTGATTGTTTTGATA
1 TTTTTCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATA
66337 TTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTA
66 TTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTA
66402 ATATATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAACATAAAAAATAAATCATTA
131 ATATATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAACATAAAAAATAAATCATTA
*
66467 GACGCATATAATTACTAAATTGATATCTTAAAACTCACTCAAAACATAACCTTAAATTAATA
196 GACGCATATAATAACTAAATTGATATCTTAAAACTCACTCAAAACATAACCTTAAATTAATA
*
66529 TTTTTCACCTACAATATTAATTTAATAATTTCATTTACAAAAAAAATTATTTGATTGTTTTGATA
1 TTTTTCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATA
66594 TTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTA
66 TTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTA
*
66659 ATATATATGTTTATTGTTTTTAATTTAATAGTAATATATACCGTAACATAAAAAATAAATCATTA
131 ATATATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAACATAAAAAATAAATCATTA
* * *
66724 GACTCATATAATAACTAAATTGATATCTTAAAACTCACTCAAAACATAATCTTAAATTAATG
196 GACGCATATAATAACTAAATTGATATCTTAAAACTCACTCAAAACATAACCTTAAATTAATA
*
66786 TTTTTCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTAATA
1 TTTTTCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATA
*
66851 TTTTATAAAATATTATTTATAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGT
66 TTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGT
66915 TTTCCACAGT
Statistics
Matches: 375, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
257 375 1.00
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.42
Consensus pattern (257 bp):
TTTTTCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATA
TTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTA
ATATATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAACATAAAAAATAAATCATTA
GACGCATATAATAACTAAATTGATATCTTAAAACTCACTCAAAACATAACCTTAAATTAATA
Found at i:68887 original size:6 final size:6
Alignment explanation
Indices: 68876--68905 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
68866 CTTGATTACG
68876 AAAATT AAAATT AAAATT AAAATT AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT
68906 TAAAGACTCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AAAATT
Found at i:72676 original size:10 final size:11
Alignment explanation
Indices: 72656--72693 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
72646 GAATTTTTTT
*
72656 AAAATGTAAAA
1 AAAAAGTAAAA
72667 AAAAAG-AAAA
1 AAAAAGTAAAA
72677 AAAAAGTAAAGA
1 AAAAAGTAAA-A
72689 AAAAA
1 AAAAA
72694 ACAAGCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
10 10 0.42
11 8 0.33
12 6 0.25
ACGTcount: A:0.82, C:0.00, G:0.11, T:0.08
Consensus pattern (11 bp):
AAAAAGTAAAA
Found at i:74006 original size:32 final size:32
Alignment explanation
Indices: 73969--74045 Score: 84
Period size: 33 Copynumber: 2.4 Consensus size: 32
73959 TTTTTTTTAA
** *
73969 AAAACTATATATAAAT-TTTTGAAAATGTTTTT
1 AAAACTATATATAAATATTTCAAAAACG-TTTT
* *
74001 GAAACTATAGTATATATATTTCAAAAACGTTTT
1 AAAACTATA-TATAAATATTTCAAAAACGTTTT
74034 AAAACTATATAT
1 AAAACTATATAT
74046 TCTCTATATA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
32 11 0.30
33 18 0.49
34 8 0.22
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.42
Consensus pattern (32 bp):
AAAACTATATATAAATATTTCAAAAACGTTTT
Found at i:74054 original size:37 final size:39
Alignment explanation
Indices: 74011--74163 Score: 183
Period size: 39 Copynumber: 4.0 Consensus size: 39
74001 GAAACTATAG
*
74011 TATATATATTTC-AAAAACGTTTT-AAAACTATATATTC
1 TATATATATTTCAAAAAATGTTTTCAAAACTATATATTC
* * *
74048 TCTATATATTTCGAAAAAA-GTTTTCAAAATTATATATTA
1 TATATATATTTC-AAAAAATGTTTTCAAAACTATATATTC
* *
74087 TATATATTTTTTC-AAAAATGTCTTCAAAACTATATA--C
1 TATATA-TATTTCAAAAAATGTTTTCAAAACTATATATTC
74124 TATATATATTTTCAAAAAATGTTTTCAAAACTATATATTC
1 TATATATA-TTTCAAAAAATGTTTTCAAAACTATATATTC
74164 AAAAATGTTT
Statistics
Matches: 97, Mismatches: 10, Indels: 15
0.80 0.08 0.12
Matches are distributed among these distances:
36 1 0.01
37 21 0.22
38 32 0.33
39 37 0.38
40 6 0.06
ACGTcount: A:0.42, C:0.10, G:0.03, T:0.44
Consensus pattern (39 bp):
TATATATATTTCAAAAAATGTTTTCAAAACTATATATTC
Found at i:74054 original size:39 final size:41
Alignment explanation
Indices: 74011--74163 Score: 173
Period size: 38 Copynumber: 4.0 Consensus size: 41
74001 GAAACTATAG
*
74011 TATATATATTTC-AAAAACGTTTT-AAAACTATATATTC--
1 TATATATATTTCAAAAAATGTTTTCAAAACTATATATTCTA
* * *
74048 TCTATATATTTCGAAAAAA-GTTTTCAAAATTATATATTATA
1 TATATATATTTC-AAAAAATGTTTTCAAAACTATATATTCTA
* *
74089 TATAT-TTTTTC-AAAAATGTCTTCAAAACTATATA--CTA
1 TATATATATTTCAAAAAATGTTTTCAAAACTATATATTCTA
74126 TATATAT-TTTCAAAAAATGTTTTCAAAACTATATATTC
1 TATATATATTTCAAAAAATGTTTTCAAAACTATATATTC
74164 AAAAATGTTT
Statistics
Matches: 97, Mismatches: 9, Indels: 17
0.79 0.07 0.14
Matches are distributed among these distances:
37 22 0.23
38 33 0.34
39 32 0.33
40 6 0.06
41 4 0.04
ACGTcount: A:0.42, C:0.10, G:0.03, T:0.44
Consensus pattern (41 bp):
TATATATATTTCAAAAAATGTTTTCAAAACTATATATTCTA
Found at i:74165 original size:64 final size:63
Alignment explanation
Indices: 74097--74225 Score: 240
Period size: 64 Copynumber: 2.0 Consensus size: 63
74087 TATATATTTT
74097 TTCAAAAATGTCTTCAAAACTATATACTATATATATTTTCAAAAAATGTTTTCAAAACTATATA
1 TTCAAAAATGTCTTCAAAACTATATACTATATATATTTTC-AAAAATGTTTTCAAAACTATATA
*
74161 TTCAAAAATGTTTTCAAAACTATATACTATATATATTTTCAAAAATGTTTTCAAAACTATATA
1 TTCAAAAATGTCTTCAAAACTATATACTATATATATTTTCAAAAATGTTTTCAAAACTATATA
74224 TT
1 TT
74226 ATATATATTT
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
63 25 0.39
64 39 0.61
ACGTcount: A:0.44, C:0.12, G:0.03, T:0.41
Consensus pattern (63 bp):
TTCAAAAATGTCTTCAAAACTATATACTATATATATTTTCAAAAATGTTTTCAAAACTATATA
Found at i:74174 original size:26 final size:27
Alignment explanation
Indices: 74128--74186 Score: 102
Period size: 26 Copynumber: 2.2 Consensus size: 27
74118 ATATACTATA
*
74128 TATATTTTCAAAAAATGTTTTCAAAAC
1 TATATATTCAAAAAATGTTTTCAAAAC
74155 TATATATTC-AAAAATGTTTTCAAAAC
1 TATATATTCAAAAAATGTTTTCAAAAC
74181 TATATA
1 TATATA
74187 CTATATATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 23 0.74
27 8 0.26
ACGTcount: A:0.46, C:0.10, G:0.03, T:0.41
Consensus pattern (27 bp):
TATATATTCAAAAAATGTTTTCAAAAC
Found at i:74205 original size:26 final size:26
Alignment explanation
Indices: 74138--74204 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 26
74128 TATATTTTCA
* *
74138 AAAAATGTTTTCAAAACTATATATTC
1 AAAAATATTTTCAAAACTATATACTC
*
74164 AAAAATGTTTTCAAAACTATATACT-
1 AAAAATATTTTCAAAACTATATACTC
* *
74189 ATATATATTTTCAAAA
1 AAAAATATTTTCAAAA
74205 ATGTTTTCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
25 13 0.35
26 24 0.65
ACGTcount: A:0.48, C:0.10, G:0.03, T:0.39
Consensus pattern (26 bp):
AAAAATATTTTCAAAACTATATACTC
Found at i:74229 original size:101 final size:101
Alignment explanation
Indices: 74049--74261 Score: 322
Period size: 101 Copynumber: 2.1 Consensus size: 101
74039 TATATATTCT
* *
74049 CTATATATTTCGAAAAAAGTTTTCAAAATTATATATTATATATATTTTTTCAAAAATGTCTTCAA
1 CTATATA-TTCGAAAAAAGTTTTCAAAACTATATACTATATATA-TTTTTCAAAAATGTCTTCAA
*
74114 AACTATATACTATATATATTTTCAAAAAATGTTTTCAAAA
64 AACTATATACTATATATATTTTC-AAAAAT-TTCTCAAAA
* *
74154 CTATATATTC-AAAAATGTTTTCAAAACTATATACTATATATA-TTTTCAAAAATGTTTTCAAAA
1 CTATATATTCGAAAAAAGTTTTCAAAACTATATACTATATATATTTTTCAAAAATGTCTTCAAAA
*
74217 CTATATATTATATATATTTTCAAAAATTTCTCAAAA
66 CTATATACTATATATATTTTCAAAAATTTCTCAAAA
74253 CTATATATT
1 CTATATATT
74262 ATATATATTT
Statistics
Matches: 102, Mismatches: 6, Indels: 6
0.89 0.05 0.05
Matches are distributed among these distances:
99 17 0.17
100 6 0.06
101 40 0.39
103 29 0.28
104 3 0.03
105 7 0.07
ACGTcount: A:0.44, C:0.10, G:0.03, T:0.43
Consensus pattern (101 bp):
CTATATATTCGAAAAAAGTTTTCAAAACTATATACTATATATATTTTTCAAAAATGTCTTCAAAA
CTATATACTATATATATTTTCAAAAATTTCTCAAAA
Found at i:74258 original size:36 final size:37
Alignment explanation
Indices: 74155--74306 Score: 207
Period size: 37 Copynumber: 4.1 Consensus size: 37
74145 TTTTCAAAAC
* *
74155 TATATATTCAAAAATGTTTTCAAAACTATATACTATA
1 TATATTTTCAAAAATGTTTTCAAAACTATATATTATA
74192 TATATTTTCAAAAATGTTTTCAAAACTATATATTATA
1 TATATTTTCAAAAATGTTTTCAAAACTATATATTATA
*
74229 TATATTTTCAAAAAT-TTCTCAAAACTATATATTATA
1 TATATTTTCAAAAATGTTTTCAAAACTATATATTATA
* * * *
74265 TATATTTTTGAAAAAAATGCTATCAACACTATATATTATA
1 TATA-TTTT--CAAAAATGTTTTCAAAACTATATATTATA
74305 TA
1 TA
74307 CACTATACGT
Statistics
Matches: 104, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
36 24 0.23
37 54 0.52
39 6 0.06
40 20 0.19
ACGTcount: A:0.45, C:0.10, G:0.03, T:0.43
Consensus pattern (37 bp):
TATATTTTCAAAAATGTTTTCAAAACTATATATTATA
Found at i:79465 original size:14 final size:13
Alignment explanation
Indices: 79446--79480 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
79436 AACTGTAATT
79446 TATTTTACAAAAAA
1 TATTTT-CAAAAAA
*
79460 TATTTTCCAAAAA
1 TATTTTCAAAAAA
79473 TATTTTCA
1 TATTTTCA
79481 GTGAAACAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (13 bp):
TATTTTCAAAAAA
Done.