Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008105.1 Hibiscus syriacus cultivar Beakdansim tig00110637_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: 5962497
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 26 of 30
Found at i:4975939 original size:20 final size:21
Alignment explanation
Indices: 4975895--4975946 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
4975885 ATAGTTAGTA
*
4975895 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
**
4975916 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACAAAT
4975936 TCGCATTGCGA
1 TCGCATTGCGA
4975947 ATTGGGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Found at i:4975988 original size:21 final size:22
Alignment explanation
Indices: 4975936--4975988 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
4975926 ATTTACTTAT
4975936 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
**
4975957 TCGCAACGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTGGGAAAA
4975978 TCGCATTGCGA
1 TCGCATTGCGA
4975989 TAGTCATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:4980381 original size:16 final size:17
Alignment explanation
Indices: 4980338--4980384 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
4980328 TGAAACACCA
*
4980338 GGTACCCAGAATTTTAG
1 GGTACCCAAAATTTTAG
*
4980355 GGTACCCAAAATTTTTG
1 GGTACCCAAAATTTTAG
4980372 GGTA-CCAAAATTT
1 GGTACCCAAAATTT
4980385 CGATCTGTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
16 9 0.32
17 19 0.68
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (17 bp):
GGTACCCAAAATTTTAG
Found at i:4982923 original size:20 final size:19
Alignment explanation
Indices: 4982900--4982965 Score: 87
Period size: 20 Copynumber: 3.3 Consensus size: 19
4982890 AATTTGTAAA
*
4982900 TCGCAACACAGAAGTCAATT
1 TCGCAACGC-GAAGTCAATT
*
4982920 TCGCAACGCGATAGTCAAAT
1 TCGCAACGCGA-AGTCAATT
4982940 TCGCAACGCGAAAGTCAATT
1 TCGCAACGCG-AAGTCAATT
4982960 TCGCAA
1 TCGCAA
4982966 AGCGCGTTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
19 2 0.05
20 38 0.93
21 1 0.02
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.20
Consensus pattern (19 bp):
TCGCAACGCGAAGTCAATT
Found at i:4982923 original size:40 final size:40
Alignment explanation
Indices: 4982879--4982965 Score: 108
Period size: 40 Copynumber: 2.2 Consensus size: 40
4982869 AGTTTCCAAA
*
4982879 TTCGCAACGCGAATTTGT-AAA-TCGCAACAC-AGAAGTCAAT
1 TTCGCAACGCG-A-TAGTCAAATTCGCAACACGA-AAGTCAAT
*
4982919 TTCGCAACGCGATAGTCAAATTCGCAACGCGAAAGTCAAT
1 TTCGCAACGCGATAGTCAAATTCGCAACACGAAAGTCAAT
4982959 TTCGCAA
1 TTCGCAA
4982966 AGCGCGTTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
38 3 0.07
39 4 0.10
40 34 0.81
41 1 0.02
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.22
Consensus pattern (40 bp):
TTCGCAACGCGATAGTCAAATTCGCAACACGAAAGTCAAT
Found at i:4983049 original size:57 final size:57
Alignment explanation
Indices: 4982986--4983095 Score: 161
Period size: 57 Copynumber: 1.9 Consensus size: 57
4982976 TTTTCGCAAC
*
4982986 ACTGTTTATCTATATC-AGTAATTAGCATTGCGAATTTAAAAATCG-CGTTGCGATAGT
1 ACTGTTTACCTATATCGA-TAATTAGCATTGCGAATTTAAAAAT-GTCGTTGCGATAGT
* *
4983043 ACTGTTTACCTATATCGATAATTAGCGTTGCGAATTTGAAAATGTCGTTGCGA
1 ACTGTTTACCTATATCGATAATTAGCATTGCGAATTTAAAAATGTCGTTGCGA
4983096 ATTTGTAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
56 1 0.02
57 46 0.96
58 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (57 bp):
ACTGTTTACCTATATCGATAATTAGCATTGCGAATTTAAAAATGTCGTTGCGATAGT
Found at i:4983093 original size:20 final size:20
Alignment explanation
Indices: 4983067--4983115 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
4983057 TCGATAATTA
4983067 GCGTTGCGAATTTGAAAAT-
1 GCGTTGCGAATTTGAAAATC
*
4983086 GTCGTTGCGAATTTGTAAATC
1 G-CGTTGCGAATTTGAAAATC
4983107 GCGTTGCGA
1 GCGTTGCGA
4983116 TAGTACTGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 1 0.04
20 25 0.93
21 1 0.04
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.33
Consensus pattern (20 bp):
GCGTTGCGAATTTGAAAATC
Found at i:4983142 original size:77 final size:77
Alignment explanation
Indices: 4983013--4983177 Score: 285
Period size: 77 Copynumber: 2.1 Consensus size: 77
4983003 GTAATTAGCA
*
4983013 TTGCGAATTTAAAAATCGCGTTGCGATAGTACTGTTTACCTATATCGATAATTAGCGTTGCGAAT
1 TTGCGAATTTGAAAATCGCGTTGCGATAGTACTGTTTACCTATATCGATAATTAGCGTTGCGAAT
*
4983078 TTGAAAATGTCG
66 TTGAAAATCTCG
* * *
4983090 TTGCGAATTTGTAAATCGCGTTGCGATAGTACTGTTTACCTATATTGGTAATTAGCGTTGCGAAT
1 TTGCGAATTTGAAAATCGCGTTGCGATAGTACTGTTTACCTATATCGATAATTAGCGTTGCGAAT
4983155 TTGAAAATCTCG
66 TTGAAAATCTCG
4983167 TTGCGAATTTG
1 TTGCGAATTTG
4983178 CAAACTGTTT
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
77 83 1.00
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (77 bp):
TTGCGAATTTGAAAATCGCGTTGCGATAGTACTGTTTACCTATATCGATAATTAGCGTTGCGAAT
TTGAAAATCTCG
Found at i:4983149 original size:57 final size:59
Alignment explanation
Indices: 4983088--4983233 Score: 188
Period size: 61 Copynumber: 2.5 Consensus size: 59
4983078 TTGAAAATGT
* * * *
4983088 CGTTGCGAATTTGTAAATCGCGTTGCGA-TAG-TACTGTTTACCTATATTGGTAATTAG
1 CGTTGCGAATTTGAAAATCTCGTTGCGATTAGAAACTGTTTACCTATATCGGTAATTAG
*
4983145 CGTTGCGAATTTGAAAATCTCGTTGCGAATTTGCAAACTGTTTACCTATATCGGTAATTAG
1 CGTTGCGAATTTGAAAATCTCGTTGCG-ATTAG-AAACTGTTTACCTATATCGGTAATTAG
* * *
4983206 TGTTGCAAATTTGAAAATCTCATTGCGA
1 CGTTGCGAATTTGAAAATCTCGTTGCGA
4983234 ATTTGTAAAT
Statistics
Matches: 77, Mismatches: 8, Indels: 5
0.86 0.09 0.06
Matches are distributed among these distances:
57 25 0.32
58 1 0.01
59 2 0.03
60 1 0.01
61 48 0.62
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.37
Consensus pattern (59 bp):
CGTTGCGAATTTGAAAATCTCGTTGCGATTAGAAACTGTTTACCTATATCGGTAATTAG
Found at i:4983152 original size:37 final size:37
Alignment explanation
Indices: 4983030--4983152 Score: 97
Period size: 37 Copynumber: 3.2 Consensus size: 37
4983020 TTTAAAAATC
* *
4983030 GCGTTGCGATAGTACTGTTTACCTATATCGATAATTA
1 GCGTTGCGATAGTACTGTTTACCTATATTGGTAATTA
* * * * * * * *
4983067 GCGTTGCGAATTTGAAAATGTCGTT-GCGA-ATTTGTAAATC
1 GCGTTGCG-A-TAG-TACTGT--TTACCTATATTGGTAATTA
4983107 GCGTTGCGATAGTACTGTTTACCTATATTGGTAATTA
1 GCGTTGCGATAGTACTGTTTACCTATATTGGTAATTA
4983144 GCGTTGCGA
1 GCGTTGCGA
4983153 ATTTGAAAAT
Statistics
Matches: 61, Mismatches: 18, Indels: 14
0.66 0.19 0.15
Matches are distributed among these distances:
35 2 0.03
36 2 0.03
37 29 0.48
38 3 0.05
39 3 0.05
40 18 0.30
41 2 0.03
42 2 0.03
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.37
Consensus pattern (37 bp):
GCGTTGCGATAGTACTGTTTACCTATATTGGTAATTA
Found at i:4983211 original size:61 final size:61
Alignment explanation
Indices: 4983120--4983238 Score: 202
Period size: 61 Copynumber: 2.0 Consensus size: 61
4983110 TTGCGATAGT
* * *
4983120 ACTGTTTACCTATATTGGTAATTAGCGTTGCGAATTTGAAAATCTCGTTGCGAATTTGCAA
1 ACTGTTTACCTATATCGGTAATTAGCGTTGCAAATTTGAAAATCTCATTGCGAATTTGCAA
*
4983181 ACTGTTTACCTATATCGGTAATTAGTGTTGCAAATTTGAAAATCTCATTGCGAATTTG
1 ACTGTTTACCTATATCGGTAATTAGCGTTGCAAATTTGAAAATCTCATTGCGAATTTG
4983239 TAAATCGCGT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 54 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (61 bp):
ACTGTTTACCTATATCGGTAATTAGCGTTGCAAATTTGAAAATCTCATTGCGAATTTGCAA
Found at i:4983232 original size:138 final size:136
Alignment explanation
Indices: 4982986--4983315 Score: 502
Period size: 138 Copynumber: 2.4 Consensus size: 136
4982976 TTTTCGCAAC
* * * * * * *
4982986 ACTGTTTATCTATATCAGTAATTAGCATTGCGAATTTAAAAATCGCGTTGCG-A-TAGTACTGTT
1 ACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCTCGTTGCGAATTTGAACTGTT
* * *
4983049 TACCTATATCGATAATTAGCGTTGCGAATTTGAAAATGTCGTTGCGAATTTGTAAATCGCGTTGC
66 TACCTATATCGATAATTAGCGTTGCAAATTTGAAAATCTCATTGCGAATTTGTAAATCGCGTTGC
4983114 GATAGT
131 GATAGT
*
4983120 ACTGTTTACCTATATTGGTAATTAGCGTTGCGAATTTGAAAATCTCGTTGCGAATTTGCAAACTG
1 ACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCTCGTTGCGAATTTG--AACTG
* *
4983185 TTTACCTATATCGGTAATTAGTGTTGCAAATTTGAAAATCTCATTGCGAATTTGTAAATCGCGTT
64 TTTACCTATATCGATAATTAGCGTTGCAAATTTGAAAATCTCATTGCGAATTTGTAAATCGCGTT
4983250 GCGATAGT
129 GCGATAGT
*
4983258 ACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCTCGTTACGAATTTG
1 ACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCTCGTTGCGAATTTG
4983316 TAAATCGTGT
Statistics
Matches: 177, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
134 46 0.26
135 1 0.01
136 2 0.01
138 128 0.72
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (136 bp):
ACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCTCGTTGCGAATTTGAACTGTT
TACCTATATCGATAATTAGCGTTGCAAATTTGAAAATCTCATTGCGAATTTGTAAATCGCGTTGC
GATAGT
Found at i:4983251 original size:20 final size:20
Alignment explanation
Indices: 4983207--4983253 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
4983197 GGTAATTAGT
* *
4983207 GTTGCAAATTTGAAAATCTC
1 GTTGCGAATTTGAAAATCGC
* *
4983227 ATTGCGAATTTGTAAATCGC
1 GTTGCGAATTTGAAAATCGC
4983247 GTTGCGA
1 GTTGCGA
4983254 TAGTACTGTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (20 bp):
GTTGCGAATTTGAAAATCGC
Found at i:4983281 original size:77 final size:77
Alignment explanation
Indices: 4983145--4983407 Score: 382
Period size: 77 Copynumber: 3.4 Consensus size: 77
4983135 TGGTAATTAG
* * * * *
4983145 CGTTGCGAATTTGAAAATCTCGTTGCGAATTTGCAAACTGTTTACCTATATCGGTAATTAGTGTT
1 CGTTGCGAATTTGTAAATCGCGTTGCG-A-TAG--TACTGTTTACCTATATCGGTAATTAGCGTT
*
4983210 GCAAATTTGAAAATCT
62 GCGAATTTGAAAATCT
*
4983226 CATTGCGAATTTGTAAATCGCGTTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGA
1 CGTTGCGAATTTGTAAATCGCGTTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGA
4983291 ATTTGAAAATCT
66 ATTTGAAAATCT
* * *
4983303 CGTTACGAATTTGTAAATCGTGTTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGTGA
1 CGTTGCGAATTTGTAAATCGCGTTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGA
4983368 ATTTGAAAATCT
66 ATTTGAAAATCT
* *
4983380 CGTTGCGAATTTGAAAATCTCGTTGCGA
1 CGTTGCGAATTTGTAAATCGCGTTGCGA
4983408 ATTTGAAAAT
Statistics
Matches: 167, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
77 140 0.84
79 2 0.01
80 1 0.01
81 24 0.14
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.37
Consensus pattern (77 bp):
CGTTGCGAATTTGTAAATCGCGTTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGA
ATTTGAAAATCT
Found at i:4983286 original size:37 final size:37
Alignment explanation
Indices: 4983245--4983364 Score: 93
Period size: 37 Copynumber: 3.2 Consensus size: 37
4983235 TTTGTAAATC
4983245 GCGTTGCGATAGTACTGTTTACCTATATCGGTAATTA
1 GCGTTGCGATAGTACTGTTTACCTATATCGGTAATTA
** * ** * *
4983282 GCGTTGCGAATTTGAAAATCTCG-TTA-CGA-ATTTGTAAATC
1 GCGTTGCG-A--T-AGTA-CT-GTTTACCTATATCGGTAATTA
*
4983322 GTGTTGCGATAGTACTGTTTACCTATATCGGTAATTA
1 GCGTTGCGATAGTACTGTTTACCTATATCGGTAATTA
4983359 GCGTTG
1 GCGTTG
4983365 TGAATTTGAA
Statistics
Matches: 58, Mismatches: 16, Indels: 18
0.63 0.17 0.20
Matches are distributed among these distances:
34 1 0.02
35 5 0.09
36 4 0.07
37 21 0.36
38 1 0.02
39 1 0.02
40 15 0.26
41 4 0.07
42 5 0.09
43 1 0.02
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (37 bp):
GCGTTGCGATAGTACTGTTTACCTATATCGGTAATTA
Found at i:4983311 original size:20 final size:20
Alignment explanation
Indices: 4983283--4983321 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4983273 CGGTAATTAG
*
4983283 CGTTGCGAATTTGAAAATCT
1 CGTTACGAATTTGAAAATCT
*
4983303 CGTTACGAATTTGTAAATC
1 CGTTACGAATTTGAAAATC
4983322 GTGTTGCGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (20 bp):
CGTTACGAATTTGAAAATCT
Found at i:4983389 original size:20 final size:20
Alignment explanation
Indices: 4983360--4983427 Score: 118
Period size: 20 Copynumber: 3.4 Consensus size: 20
4983350 CGGTAATTAG
*
4983360 CGTTGTGAATTTGAAAATCT
1 CGTTGCGAATTTGAAAATCT
4983380 CGTTGCGAATTTGAAAATCT
1 CGTTGCGAATTTGAAAATCT
*
4983400 CGTTGCGAATTTGAAAATCG
1 CGTTGCGAATTTGAAAATCT
4983420 CGTTGCGA
1 CGTTGCGA
4983428 TAGTACTGTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.34
Consensus pattern (20 bp):
CGTTGCGAATTTGAAAATCT
Found at i:4983399 original size:97 final size:97
Alignment explanation
Indices: 4983277--4983526 Score: 301
Period size: 97 Copynumber: 2.6 Consensus size: 97
4983267 CTATATCGGT
* * *
4983277 AATTAGCGTTGCGAATTTGAAAATCTCGTTACGAATTTGTAAATCGTGTTGCGATAGTACTGTTT
1 AATTCGCGTTGCGAATTTGAAAATCTCGTTACGAATTTGAAAATCGCGTTGCGATAGTACTGTTT
* * * * *
4983342 ACCTATATCGGTAATTAGCGTTGTGAATTTGA-A
66 ACCTACATCGATAATCAGCATTGCG-ATTT-ACA
* *
4983375 AA-TCTCGTTGCGAATTTGAAAATCTCGTTGCGAATTTGAAAATCGCGTTGCGATAGTACTGTTT
1 AATTCGCGTTGCGAATTTGAAAATCTCGTTACGAATTTGAAAATCGCGTTGCGATAGTACTGTTT
4983439 ACCTACATCGATAATCAGCATTGCGATTTACA
66 ACCTACATCGATAATCAGCATTGCGATTTACA
* * * *
4983471 AATTCGCGTTGCGATTTTGGAAAACCGCGTTACG-ATTT-ACATATTCGCGTTGCGAT
1 AATTCGCGTTGCGAATTT-GAAAATCTCGTTACGAATTTGA-A-AATCGCGTTGCGAT
4983527 TTTGGAACCT
Statistics
Matches: 131, Mismatches: 16, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
95 1 0.01
96 8 0.06
97 95 0.73
98 27 0.21
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (97 bp):
AATTCGCGTTGCGAATTTGAAAATCTCGTTACGAATTTGAAAATCGCGTTGCGATAGTACTGTTT
ACCTACATCGATAATCAGCATTGCGATTTACA
Found at i:4983484 original size:20 final size:20
Alignment explanation
Indices: 4983459--4983528 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
4983449 ATAATCAGCA
4983459 TTGCGATTTACAAATTCGCG
1 TTGCGATTTACAAATTCGCG
** **
4983479 TTGCGATTTTGGAAAACCGCG
1 TTGCGA-TTTACAAATTCGCG
* *
4983500 TTACGATTTACATATTCGCG
1 TTGCGATTTACAAATTCGCG
4983520 TTGCGATTT
1 TTGCGATTT
4983529 TGGAACCTGT
Statistics
Matches: 38, Mismatches: 11, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
20 23 0.61
21 15 0.39
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (20 bp):
TTGCGATTTACAAATTCGCG
Found at i:4984499 original size:17 final size:18
Alignment explanation
Indices: 4984466--4984499 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
4984456 TTAATTGATA
*
4984466 TATTTTCTTTTTAATTTC
1 TATTTTCTTTATAATTTC
4984484 TATTTTC-TTATAATTT
1 TATTTTCTTTATAATTT
4984500 AGTCCTTTCT
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:0.21, C:0.09, G:0.00, T:0.71
Consensus pattern (18 bp):
TATTTTCTTTATAATTTC
Found at i:4986361 original size:64 final size:64
Alignment explanation
Indices: 4986236--4986361 Score: 152
Period size: 64 Copynumber: 2.0 Consensus size: 64
4986226 GGGTAAGAAA
* * * *
4986236 ATCTTATTTTTTGGGTTTTAGGGTAAACTTGGTTTGATCGAAAGATTGTAAGAGTATATTTAAC
1 ATCTTATTTTTTGGGTTTTAGGGTAAACTTGGTTTGATCGAAAGAATGGAAGACTACATTTAAC
4986300 ATCTTATTTTTATGGG-TTTAGGGTAAACATT-GTGTTGATCG-AAGAATGCGAAG-CTACATTT
1 ATCTTATTTTT-TGGGTTTTAGGGTAAAC-TTGGT-TTGATCGAAAGAATG-GAAGACTACATTT
4986361 A
62 A
4986362 TAGAGAATAA
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
64 38 0.70
65 16 0.30
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (64 bp):
ATCTTATTTTTTGGGTTTTAGGGTAAACTTGGTTTGATCGAAAGAATGGAAGACTACATTTAAC
Found at i:4986565 original size:2 final size:2
Alignment explanation
Indices: 4986558--4986591 Score: 50
Period size: 2 Copynumber: 16.0 Consensus size: 2
4986548 CTATATTAAA
4986558 AT AT AT AT AT AT AT AT AT ACT AT AT ACT AT AT AT
1 AT AT AT AT AT AT AT AT AT A-T AT AT A-T AT AT AT
4986592 GAGTTTACTA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 26 0.87
3 4 0.13
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:4987348 original size:30 final size:30
Alignment explanation
Indices: 4987314--4987520 Score: 204
Period size: 30 Copynumber: 6.9 Consensus size: 30
4987304 CACCGGGATA
* * *
4987314 AACCACCTGAACCTAAAATTAGTGATGTTG
1 AACCACCTGAACCTGAAATTAATGATGATG
* * * *
4987344 AACCACCTAAACATGAATTTAATGATGTTG
1 AACCACCTGAACCTGAAATTAATGATGATG
*
4987374 -ACCAACCTGAACCTGAAATTAATGATGGTG
1 AACC-ACCTGAACCTGAAATTAATGATGATG
* * *
4987404 AACCACCTGAATCTCAAAATTAGTGATGATG
1 AACCACCTGAACCT-GAAATTAATGATGATG
* * *
4987435 AATCACCTAAACCT-AAATTTAATGATGCT-
1 AACCACCTGAACCTGAAA-TTAATGATGATG
* *
4987464 AACCGACATGAACATGAAATTAATGATGATG
1 AACC-ACCTGAACCTGAAATTAATGATGATG
*
4987495 AACCACATGAACCTGAAATTAATGAT
1 AACCACCTGAACCTGAAATTAATGAT
4987521 ACTGAAATTG
Statistics
Matches: 146, Mismatches: 24, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
29 9 0.06
30 103 0.71
31 34 0.23
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (30 bp):
AACCACCTGAACCTGAAATTAATGATGATG
Found at i:4987445 original size:91 final size:90
Alignment explanation
Indices: 4987314--4987520 Score: 279
Period size: 91 Copynumber: 2.3 Consensus size: 90
4987304 CACCGGGATA
* * * *
4987314 AACCACCTGAACCTAAAATTAGTGATGTTGAACCACCTAAACATGAATTTAATGATGTTGACCAA
1 AACCACCTGAACCTAAAATTAGTGATGATGAACCACCTAAACATAAATTTAATGATGCTAACCAA
* * *
4987379 CCTGAACCTGAAATTAATGATGGTG
66 CATGAACATGAAATTAATGATGATG
* * * *
4987404 AACCACCTGAATCTCAAAATTAGTGATGATGAATCACCTAAACCTAAATTTAATGATGCTAACCG
1 AACCACCTGAACCT-AAAATTAGTGATGATGAACCACCTAAACATAAATTTAATGATGCTAACCA
4987469 ACATGAACATGAAATTAATGATGATG
65 ACATGAACATGAAATTAATGATGATG
* * *
4987495 AACCACATGAACCTGAAATTAATGAT
1 AACCACCTGAACCTAAAATTAGTGAT
4987521 ACTGAAATTG
Statistics
Matches: 101, Mismatches: 15, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
90 23 0.23
91 78 0.77
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (90 bp):
AACCACCTGAACCTAAAATTAGTGATGATGAACCACCTAAACATAAATTTAATGATGCTAACCAA
CATGAACATGAAATTAATGATGATG
Found at i:4988968 original size:20 final size:20
Alignment explanation
Indices: 4988939--4988986 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
4988929 TGTACTAAGC
4988939 TTGAAATTGATGTTAGAATG
1 TTGAAATTGATGTTAGAATG
*
4988959 TTGAATTTGATGTTAGAATG
1 TTGAAATTGATGTTAGAATG
4988979 -TGAAATTG
1 TTGAAATTG
4988987 GACTATTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 7 0.27
20 19 0.73
ACGTcount: A:0.33, C:0.00, G:0.25, T:0.42
Consensus pattern (20 bp):
TTGAAATTGATGTTAGAATG
Found at i:4990486 original size:23 final size:23
Alignment explanation
Indices: 4990458--4990504 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
4990448 AAGTTGAGTA
4990458 AAGTTCAAGTGAAGTTATGGTAC
1 AAGTTCAAGTGAAGTTATGGTAC
4990481 AAGTTCAAGTGAAGTTATGGTAC
1 AAGTTCAAGTGAAGTTATGGTAC
4990504 A
1 A
4990505 TTCGTGTACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.36, C:0.09, G:0.26, T:0.30
Consensus pattern (23 bp):
AAGTTCAAGTGAAGTTATGGTAC
Found at i:4992915 original size:2 final size:2
Alignment explanation
Indices: 4992908--4992941 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4992898 ATGTAATCTA
4992908 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
4992942 TTTTTGTCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4993208 original size:38 final size:40
Alignment explanation
Indices: 4993127--4993220 Score: 120
Period size: 38 Copynumber: 2.4 Consensus size: 40
4993117 CAAATATGTA
*
4993127 AACTTGTTAATTGCATACTATTAATGCTTATAAACTTGTGTG
1 AACTTGTT-ATTGCATACTATTAAT-CTTATAAACTTGGGTG
* *
4993169 AACTTGTTATTGCATATTGTTAAT-TT-TAAACTTGGGTG
1 AACTTGTTATTGCATACTATTAATCTTATAAACTTGGGTG
*
4993207 AAATTGTTATTGCA
1 AACTTGTTATTGCA
4993221 AACTTGGGTA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
38 24 0.50
39 2 0.04
41 14 0.29
42 8 0.17
ACGTcount: A:0.30, C:0.10, G:0.16, T:0.45
Consensus pattern (40 bp):
AACTTGTTATTGCATACTATTAATCTTATAAACTTGGGTG
Found at i:4993214 original size:25 final size:24
Alignment explanation
Indices: 4993184--4993244 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 24
4993174 GTTATTGCAT
**
4993184 ATTGTTAATTTTAAACTTGGGTGAA
1 ATTGTTAATTGCAAACTTGGGT-AA
4993209 ATTGTT-ATTGCAAACTTGGGTAA
1 ATTGTTAATTGCAAACTTGGGTAA
4993232 ACTTGTT-ATTGCA
1 A-TTGTTAATTGCA
4993245 TATTGTTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
23 3 0.09
24 24 0.73
25 6 0.18
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.43
Consensus pattern (24 bp):
ATTGTTAATTGCAAACTTGGGTAA
Found at i:4993226 original size:24 final size:24
Alignment explanation
Indices: 4993196--4993244 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 24
4993186 TGTTAATTTT
4993196 AAACTTGGGTGAAA-TTGTTATTGC
1 AAACTTGGGT-AAACTTGTTATTGC
4993220 AAACTTGGGTAAACTTGTTATTGC
1 AAACTTGGGTAAACTTGTTATTGC
4993244 A
1 A
4993245 TATTGTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 3 0.12
24 21 0.88
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.37
Consensus pattern (24 bp):
AAACTTGGGTAAACTTGTTATTGC
Found at i:4993255 original size:62 final size:63
Alignment explanation
Indices: 4993158--4993285 Score: 186
Period size: 62 Copynumber: 2.0 Consensus size: 63
4993148 TAATGCTTAT
* * **
4993158 AAACTTGTGTGAACTTGTTATTGCATATTGTTAATTTTAAACTT-GGGTGAAATTGTTATTGC
1 AAACTTGGGTAAACTTGTTATTGCATATTGTTAATTGCAAACTTGGGGTGAAATTGTTATTGC
*
4993220 AAACTTGGGTAAACTTGTTATTGCATATTGTTAATTGCAAACTTGGGGGGTGAACTTGTTATTGC
1 AAACTTGGGTAAACTTGTTATTGCATATTGTTAATTGCAAACTT--GGGGTGAAATTGTTATTGC
4993285 A
1 A
4993286 TATAATTAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
62 40 0.69
65 18 0.31
ACGTcount: A:0.27, C:0.09, G:0.22, T:0.41
Consensus pattern (63 bp):
AAACTTGGGTAAACTTGTTATTGCATATTGTTAATTGCAAACTTGGGGTGAAATTGTTATTGC
Found at i:4993257 original size:38 final size:38
Alignment explanation
Indices: 4993209--4993288 Score: 117
Period size: 41 Copynumber: 2.1 Consensus size: 38
4993199 CTTGGGTGAA
4993209 ATTGTTATTGCAAACTT-GGGTAAACTTGTTATTGCAT
1 ATTGTTATTGCAAACTTGGGGTAAACTTGTTATTGCAT
*
4993246 ATTGTTAATTGCAAACTTGGGGGGTGAACTTGTTATTGCAT
1 ATTGTT-ATTGCAAACTT--GGGGTAAACTTGTTATTGCAT
4993287 AT
1 AT
4993289 AATTAATGCT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
37 6 0.16
38 11 0.29
41 21 0.55
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.41
Consensus pattern (38 bp):
ATTGTTATTGCAAACTTGGGGTAAACTTGTTATTGCAT
Found at i:4994140 original size:29 final size:29
Alignment explanation
Indices: 4994054--4994140 Score: 72
Period size: 29 Copynumber: 3.0 Consensus size: 29
4994044 TTTGGTTCGT
* * * *
4994054 GACTAAAATGTAAGTTTTAAAAGATTAAC
1 GACTAAAATATAACTTTTAAAATATTATC
*
4994083 GAC-AAAATATAAACTTTGTAAAAGT-TTATG
1 GACTAAAATAT-AACTTT-TAAAA-TATTATC
4994113 GACCTAAAATATAA-TTTTAAAATATTAT
1 GA-CTAAAATATAACTTTTAAAATATTAT
4994141 ATATTTTGAT
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
28 7 0.15
29 17 0.36
30 13 0.28
31 3 0.06
32 7 0.15
ACGTcount: A:0.48, C:0.07, G:0.10, T:0.34
Consensus pattern (29 bp):
GACTAAAATATAACTTTTAAAATATTATC
Found at i:4995710 original size:54 final size:54
Alignment explanation
Indices: 4995659--4996012 Score: 582
Period size: 54 Copynumber: 6.6 Consensus size: 54
4995649 TAAACATATT
* * * *
4995659 ATGAATCCCGTGAAATGCACACTTAGTGTCGATATGTTTATTCATCCACATAGG
1 ATGAATTCCGTGGAATGCACACTTAGTGCCGATACGTTTATTCATCCACATAGG
*
4995713 ATGAATTCCGTGGAATGCACACTTAGTGTCGATACGTTTATTCATCCACATAGG
1 ATGAATTCCGTGGAATGCACACTTAGTGCCGATACGTTTATTCATCCACATAGG
* *
4995767 ATGAATTCTGTGGAATGCACACTTAGTGCCGATACGTTTATTCATCTACATAGG
1 ATGAATTCCGTGGAATGCACACTTAGTGCCGATACGTTTATTCATCCACATAGG
* * *
4995821 ATGAATTTCGTGGAATGCACACTTAGTGTCGATATGTTTATTCATCCACATAGG
1 ATGAATTCCGTGGAATGCACACTTAGTGCCGATACGTTTATTCATCCACATAGG
* *
4995875 ATGAATTCCGTGGAATGCACACTTATTGCCGATACATTTATTCATCCACATAGG
1 ATGAATTCCGTGGAATGCACACTTAGTGCCGATACGTTTATTCATCCACATAGG
* *
4995929 ATGAATTCCGTGGAATGCACACTTAGTACCGATACGTTTATTTATCCACATAGG
1 ATGAATTCCGTGGAATGCACACTTAGTGCCGATACGTTTATTCATCCACATAGG
4995983 ATGAATTCCGTGGAATGCACACTTAGTGCC
1 ATGAATTCCGTGGAATGCACACTTAGTGCC
4996013 TATTTGGTAA
Statistics
Matches: 279, Mismatches: 21, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 279 1.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (54 bp):
ATGAATTCCGTGGAATGCACACTTAGTGCCGATACGTTTATTCATCCACATAGG
Found at i:4996560 original size:20 final size:20
Alignment explanation
Indices: 4996537--4996588 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
4996527 GTTTCAAAAT
**
4996537 GGTATCGATACTTTCCCTTC
1 GGTATCGATACTCCCCCTTC
4996557 GGTATCGATACTCCCCCTTC
1 GGTATCGATACTCCCCCTTC
4996577 GGTATCGATACT
1 GGTATCGATACT
4996589 GATTGAATCA
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:0.17, C:0.31, G:0.17, T:0.35
Consensus pattern (20 bp):
GGTATCGATACTCCCCCTTC
Found at i:5002768 original size:54 final size:54
Alignment explanation
Indices: 5002693--5003141 Score: 684
Period size: 54 Copynumber: 8.3 Consensus size: 54
5002683 ATCCCATTGA
* * * *
5002693 AATGCACACTTAGTGCTGATACGTTTATTCATCCACATAGGATGAAATCTGTAG
1 AATGCACACTTAGTGCCGATACGTTTATTCATCCACATAGGATGAATTCCGTGG
* *
5002747 AATGCACACTTAGTACCGATACGTTTATTCATCCATATAGGATGAATTCCGTGG
1 AATGCACACTTAGTGCCGATACGTTTATTCATCCACATAGGATGAATTCCGTGG
* * * *
5002801 AATGCACACTTAGTGCCAATACGTTTATTCATCTACGTAGGATTAATTCCGTGG
1 AATGCACACTTAGTGCCGATACGTTTATTCATCCACATAGGATGAATTCCGTGG
* * * **
5002855 AATGTACACTTAGTG-CGAATACGTTTATTCACCCACATAGAATGAATTAAGTGG
1 AATGCACACTTAGTGCCG-ATACGTTTATTCATCCACATAGGATGAATTCCGTGG
* *
5002909 AATGCACACTTAGTGCCTATACGTTTATTCATCGACATAGGATGAATTCCGTGG
1 AATGCACACTTAGTGCCGATACGTTTATTCATCCACATAGGATGAATTCCGTGG
* * *
5002963 AATGCACACTTAGTGTCGATACGTTTATTCATCCATATAGGATGAATTCAGTGG
1 AATGCACACTTAGTGCCGATACGTTTATTCATCCACATAGGATGAATTCCGTGG
5003017 AATGCACACTTAGTGCCGATACGTTTATTCATCCACATAGGATGAATTCCGTGG
1 AATGCACACTTAGTGCCGATACGTTTATTCATCCACATAGGATGAATTCCGTGG
*
5003071 AATGCACACTTAGTGTCGATACGTTTATTCATCCACATAGGATGAATTCCGTGG
1 AATGCACACTTAGTGCCGATACGTTTATTCATCCACATAGGATGAATTCCGTGG
*
5003125 AATGCATACTTAGTGCC
1 AATGCACACTTAGTGCC
5003142 TATTTGGTAA
Statistics
Matches: 354, Mismatches: 39, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
53 1 0.00
54 352 0.99
55 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (54 bp):
AATGCACACTTAGTGCCGATACGTTTATTCATCCACATAGGATGAATTCCGTGG
Found at i:5003487 original size:20 final size:22
Alignment explanation
Indices: 5003459--5003516 Score: 66
Period size: 20 Copynumber: 2.7 Consensus size: 22
5003449 ATTTCTGGCT
*
5003459 CCATAGTATCGATACCA-T-TA
1 CCATGGTATCGATACCACTATA
*
5003479 CCATGGTATCGATACTACTATA
1 CCATGGTATCGATACCACTATA
* *
5003501 CTATGGTACCGATACC
1 CCATGGTATCGATACC
5003517 CTCATATGGC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 15 0.48
21 1 0.03
22 15 0.48
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (22 bp):
CCATGGTATCGATACCACTATA
Found at i:5003690 original size:20 final size:20
Alignment explanation
Indices: 5003682--5003756 Score: 132
Period size: 20 Copynumber: 3.8 Consensus size: 20
5003672 ATACCTTTCC
5003682 TTCGGTATCGATACTCCCCA
1 TTCGGTATCGATACTCCCCA
*
5003702 TTCAGTATCGATACTCCCCA
1 TTCGGTATCGATACTCCCCA
5003722 TTCGGTATCGATACTCCCCA
1 TTCGGTATCGATACTCCCCA
*
5003742 TTCGATATCGATACT
1 TTCGGTATCGATACT
5003757 GATTGAATCA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 52 1.00
ACGTcount: A:0.23, C:0.32, G:0.13, T:0.32
Consensus pattern (20 bp):
TTCGGTATCGATACTCCCCA
Found at i:5008072 original size:2 final size:2
Alignment explanation
Indices: 5008065--5008105 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
5008055 ACATATTTTG
5008065 TA TA 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 TA TA T
5008106 CTTTCAATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:5012401 original size:17 final size:17
Alignment explanation
Indices: 5012381--5012420 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
5012371 TCCATAAATT
5012381 AAACTAGTTAATTCATC
1 AAACTAGTTAATTCATC
* * *
5012398 AAACTAGTTCATTTATT
1 AAACTAGTTAATTCATC
5012415 AAACTA
1 AAACTA
5012421 ATTCTTAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.42, C:0.15, G:0.05, T:0.38
Consensus pattern (17 bp):
AAACTAGTTAATTCATC
Found at i:5016275 original size:20 final size:20
Alignment explanation
Indices: 5016246--5016283 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
5016236 TTTCAAAGTG
5016246 ATGCACCGATGCACCAATCC
1 ATGCACCGATGCACCAATCC
*
5016266 ATGCATCGATGCACCAAT
1 ATGCACCGATGCACCAAT
5016284 TAATTTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.34, G:0.16, T:0.18
Consensus pattern (20 bp):
ATGCACCGATGCACCAATCC
Found at i:5024987 original size:20 final size:20
Alignment explanation
Indices: 5024958--5024995 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
5024948 TTTCAAAGTG
5024958 ATGCACCGATGCACCAATCC
1 ATGCACCGATGCACCAATCC
*
5024978 ATGCATCGATGCACCAAT
1 ATGCACCGATGCACCAAT
5024996 TAATTTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.34, G:0.16, T:0.18
Consensus pattern (20 bp):
ATGCACCGATGCACCAATCC
Found at i:5025047 original size:19 final size:20
Alignment explanation
Indices: 5025023--5025075 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
5025013 AATGCATTTT
*
5025023 ATGCATCGATGCAC-ATACC
1 ATGCATCGATGCACAAGACC
*
5025042 ATGCATCGATGCACAAGACT
1 ATGCATCGATGCACAAGACC
5025062 ATGCATCGATGCAC
1 ATGCATCGATGCAC
5025076 TCAGGCTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 14 0.45
20 17 0.55
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (20 bp):
ATGCATCGATGCACAAGACC
Found at i:5029551 original size:17 final size:17
Alignment explanation
Indices: 5029511--5029553 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
5029501 TGGTTCATAA
5029511 ATTAAACTAGTTAATTC
1 ATTAAACTAGTTAATTC
* *
5029528 ATCAAACTAGTTTATTTC
1 ATTAAACTAG-TTAATTC
5029546 -TTAAACTA
1 ATTAAACTA
5029554 ACTCTTAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 16 0.73
18 6 0.27
ACGTcount: A:0.40, C:0.14, G:0.05, T:0.42
Consensus pattern (17 bp):
ATTAAACTAGTTAATTC
Found at i:5029937 original size:30 final size:31
Alignment explanation
Indices: 5029885--5029944 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
5029875 TTTAGCTTTA
**
5029885 TATTATGTTTACATATGTTTTAGAT-TCATT
1 TATTATGTTTACATATCATTTAGATATCATT
* *
5029915 TATTATGTTTTCATTTCATTTAGATATCAT
1 TATTATGTTTACATATCATTTAGATATCAT
5029945 GGCAGTATGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.27, C:0.08, G:0.08, T:0.57
Consensus pattern (31 bp):
TATTATGTTTACATATCATTTAGATATCATT
Found at i:5034879 original size:20 final size:19
Alignment explanation
Indices: 5034845--5034891 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
5034835 AATGATTTGG
*
5034845 TTTTGAAAGCAAAATCTAA
1 TTTTGAAAGCAAAATCAAA
* *
5034864 TTTTGAGAATCAAAATGAAA
1 TTTTGA-AAGCAAAATCAAA
5034884 TTTTGAAA
1 TTTTGAAA
5034892 AAAATAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.47, C:0.06, G:0.13, T:0.34
Consensus pattern (19 bp):
TTTTGAAAGCAAAATCAAA
Found at i:5037679 original size:25 final size:22
Alignment explanation
Indices: 5037619--5037698 Score: 102
Period size: 21 Copynumber: 3.9 Consensus size: 22
5037609 TTTTACTTAA
5037619 ATTATTATTAAA-ATTATTATT
1 ATTATTATTAAATATTATTATT
5037640 ATTATTATTAAATATTATTATT
1 ATTATTATTAAATATTATTATT
5037662 A-TATTA-T--ATA-TATTA-T
1 ATTATTATTAAATATTATTATT
5037678 ATTATTATTAAATAATTATTA
1 ATTATTATTAAAT-ATTATTA
5037699 CAAGCCCAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 13
0.80 0.00 0.20
Matches are distributed among these distances:
16 2 0.04
17 10 0.19
18 4 0.08
20 3 0.06
21 18 0.35
22 15 0.29
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
ATTATTATTAAATATTATTATT
Found at i:5037698 original size:3 final size:3
Alignment explanation
Indices: 5037619--5037687 Score: 72
Period size: 3 Copynumber: 23.3 Consensus size: 3
5037609 TTTTACTTAA
** *
5037619 ATT ATT ATT AAA ATT ATT ATT ATT ATT ATT AAAT ATT ATT ATT A-T
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT
5037664 ATT A-T ATAT ATT A-T ATT ATT ATT A
1 ATT ATT AT-T ATT ATT ATT ATT ATT A
5037688 AATAATTATT
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
2 6 0.11
3 44 0.80
4 5 0.09
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:5039091 original size:16 final size:16
Alignment explanation
Indices: 5039070--5039102 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
5039060 TTACTTTTAA
5039070 ATTTATTT-TAAATATT
1 ATTTATTTAT-AATATT
5039086 ATTTATTTATAATATT
1 ATTTATTTATAATATT
5039102 A
1 A
5039103 ATTTGTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 15 0.94
17 1 0.06
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
ATTTATTTATAATATT
Found at i:5039130 original size:17 final size:17
Alignment explanation
Indices: 5039108--5039141 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
5039098 TATTAATTTG
5039108 TTATTACTTTAATATTA
1 TTATTACTTTAATATTA
* *
5039125 TTATTATTTTCATATTA
1 TTATTACTTTAATATTA
5039142 GTCACACACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (17 bp):
TTATTACTTTAATATTA
Found at i:5039151 original size:2 final size:2
Alignment explanation
Indices: 5039144--5039173 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
5039134 TCATATTAGT
5039144 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
5039174 TATATATATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:5040125 original size:20 final size:18
Alignment explanation
Indices: 5040067--5040130 Score: 65
Period size: 20 Copynumber: 3.4 Consensus size: 18
5040057 TCTTTCAAAT
* *
5040067 TTTTATTACTTTTATATTA
1 TTTTATTAATATTAT-TTA
* *
5040086 TTTTATTAATTTTTTTTA
1 TTTTATTAATATTATTTA
5040104 TTTTATTCAGATATTATTTA
1 TTTTATT-A-ATATTATTTA
5040124 TTTTATT
1 TTTTATT
5040131 TGTCTGTTAG
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
18 10 0.26
19 14 0.36
20 15 0.38
ACGTcount: A:0.25, C:0.03, G:0.02, T:0.70
Consensus pattern (18 bp):
TTTTATTAATATTATTTA
Found at i:5040131 original size:9 final size:9
Alignment explanation
Indices: 5040067--5040131 Score: 51
Period size: 9 Copynumber: 6.9 Consensus size: 9
5040057 TCTTTCAAAT
5040067 TTTTA-TTA
1 TTTTATTTA
5040075 CTTTTATATTA
1 -TTTTAT-TTA
*
5040086 TTTTATTAA
1 TTTTATTTA
*
5040095 TTTTTTTTA
1 TTTTATTTA
*
5040104 TTTTATTCAGA
1 TTTTATT--TA
*
5040115 TATTATTTA
1 TTTTATTTA
5040124 TTTTATTT
1 TTTTATTT
5040132 GTCTGTTAGA
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
9 28 0.64
10 6 0.14
11 10 0.23
ACGTcount: A:0.25, C:0.03, G:0.02, T:0.71
Consensus pattern (9 bp):
TTTTATTTA
Found at i:5045068 original size:26 final size:26
Alignment explanation
Indices: 5045032--5045108 Score: 95
Period size: 26 Copynumber: 3.0 Consensus size: 26
5045022 TCTTATACTC
*
5045032 ATCCAACAAAGAAAGAAAAAAGGAAA
1 ATCCAACAAAGAAAGAAAAAAGAAAA
*
5045058 ATCCAACAAAGAAAGAAGAAAGAAAA
1 ATCCAACAAAGAAAGAAAAAAGAAAA
** *
5045084 A-AAAAGAAA-AAAGAAAAAAGAAAA
1 ATCCAACAAAGAAAGAAAAAAGAAAA
5045108 A
1 A
5045109 AAAAGAAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
24 15 0.33
25 5 0.11
26 25 0.56
ACGTcount: A:0.75, C:0.08, G:0.14, T:0.03
Consensus pattern (26 bp):
ATCCAACAAAGAAAGAAAAAAGAAAA
Found at i:5045076 original size:7 final size:7
Alignment explanation
Indices: 5045065--5045126 Score: 69
Period size: 7 Copynumber: 9.3 Consensus size: 7
5045055 AAAATCCAAC
5045065 AAAGAAA
1 AAAGAAA
*
5045072 GAAGAAA
1 AAAGAAA
5045079 GAAA-AAA
1 -AAAGAAA
5045086 AAAGAAA
1 AAAGAAA
5045093 AAAGAAA
1 AAAGAAA
5045100 AAAG-AA
1 AAAGAAA
5045106 AAA-AAA
1 AAAGAAA
*
5045112 AGA-AAA
1 AAAGAAA
5045118 AAAGAAA
1 AAAGAAA
5045125 AA
1 AA
5045127 TGGGAGAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
6 17 0.36
7 28 0.60
8 2 0.04
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (7 bp):
AAAGAAA
Found at i:5045091 original size:17 final size:17
Alignment explanation
Indices: 5045065--5045126 Score: 81
Period size: 17 Copynumber: 3.5 Consensus size: 17
5045055 AAAATCCAAC
*
5045065 AAAGAAAGAAGAAAGAAA
1 AAAGAAA-AAAAAAGAAA
5045083 AAA-AAAGAAAAAAGAAA
1 AAAGAAA-AAAAAAGAAA
5045100 AAAGAAAAAAAAAGAAAA
1 AAAGAAAAAAAAAG-AAA
5045118 AAAGAAAAA
1 AAAGAAAAA
5045127 TGGGAGAAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
17 23 0.56
18 18 0.44
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (17 bp):
AAAGAAAAAAAAAGAAA
Found at i:5045103 original size:24 final size:25
Alignment explanation
Indices: 5045069--5045126 Score: 100
Period size: 24 Copynumber: 2.4 Consensus size: 25
5045059 TCCAACAAAG
*
5045069 AAAGAAGAAAGAAAAAAAAAG-AAA
1 AAAGAAAAAAGAAAAAAAAAGAAAA
5045093 AAAGAAAAAAGAAAAAAAAAGAAAA
1 AAAGAAAAAAGAAAAAAAAAGAAAA
5045118 AAAGAAAAA
1 AAAGAAAAA
5045127 TGGGAGAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 20 0.62
25 12 0.38
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (25 bp):
AAAGAAAAAAGAAAAAAAAAGAAAA
Found at i:5047383 original size:114 final size:114
Alignment explanation
Indices: 5047183--5047404 Score: 336
Period size: 114 Copynumber: 1.9 Consensus size: 114
5047173 CACGTTCTCG
*
5047183 TAGCAGAAATAAGGAAACCCAATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGATCTGATTT
1 TAGCAGAAATAAGGAAACCCAATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGATCTGATTC
* * * *
5047248 GGTATGAACCCTAAAACCAATCATTGGATTTAAAAGATGAATTTGCTCA
66 GGTAGGAACCCCAAAACCAATCATTAGAATTAAAAGATGAATTTGCTCA
* * * * *
5047297 TAGCAGAAATAAGGAGACCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGGTTC
1 TAGCAGAAATAAGGAAACCCAATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGATCTGATTC
* *
5047362 GGTAGGAACCCCAGAACCAATCATTAGAATTGAAAGATGAATT
66 GGTAGGAACCCCAAAACCAATCATTAGAATTAAAAGATGAATT
5047405 GCATGATTGT
Statistics
Matches: 96, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
114 96 1.00
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (114 bp):
TAGCAGAAATAAGGAAACCCAATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGATCTGATTC
GGTAGGAACCCCAAAACCAATCATTAGAATTAAAAGATGAATTTGCTCA
Found at i:5048418 original size:74 final size:76
Alignment explanation
Indices: 5048337--5048509 Score: 199
Period size: 74 Copynumber: 2.3 Consensus size: 76
5048327 CAGATTAACA
* **
5048337 AGCAAATGTTGGGGCATGCTGAAAACCCTTTTCAATCCGAATCAGAAATGTTGAAATA-TTCTGA
1 AGCAAATGTTGGGGCATGCTGAAAACCCATTTCAATCAAAATCAGAAATGTTGAAATATTTCTGA
*
5048401 ATA-TT-TATC
66 ACACTTGTATC
* * * * ** *
5048410 AGCAAAATGCTGGGGCATGCTGAAAGCCCATTTCAATCAAAATTAGAACTGTTGATGTATTTTTG
1 AGC-AAATGTTGGGGCATGCTGAAAACCCATTTCAATCAAAATCAGAAATGTTGAAATATTTCTG
*
5048475 AACACTTGTATT
65 AACACTTGTATC
*
5048487 AGCTAATGTTGGGGCATGCTGAA
1 AGCAAATGTTGGGGCATGCTGAA
5048510 GGCCCACAAC
Statistics
Matches: 82, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
73 3 0.04
74 46 0.56
75 7 0.09
76 20 0.24
77 6 0.07
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (76 bp):
AGCAAATGTTGGGGCATGCTGAAAACCCATTTCAATCAAAATCAGAAATGTTGAAATATTTCTGA
ACACTTGTATC
Found at i:5049475 original size:54 final size:55
Alignment explanation
Indices: 5049393--5049547 Score: 251
Period size: 54 Copynumber: 2.9 Consensus size: 55
5049383 GAAATCTTGG
*
5049393 CAGAAGCCATAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGA-A
1 CAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGAGA
* *
5049447 CAGAAACCACAGGAAATGATGAATGTGTTGTCAAATGTTTTACGAACATCTGAGA
1 CAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGAGA
* *
5049502 -AGAAGCCACAGGAAAGGATGAATGCGCTGTCAAATGTTTTACGAAC
1 CAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAAC
5049548 CTGCTATTCT
Statistics
Matches: 93, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
54 92 0.99
55 1 0.01
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (55 bp):
CAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGAGA
Found at i:5049967 original size:22 final size:22
Alignment explanation
Indices: 5049914--5049968 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
5049904 ATCTACACTC
*
5049914 TTCAAAGATAATAAGTTCTCTT
1 TTCAAAGATGATAAGTTCTCTT
*
5049936 TTTAAAGATGAT-AGATTCTCTT
1 TTCAAAGATGATAAG-TTCTCTT
5049958 TTCAAAGATGA
1 TTCAAAGATGA
5049969 AAGCTTTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 2 0.07
22 27 0.93
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAAGTTCTCTT
Found at i:5050778 original size:76 final size:76
Alignment explanation
Indices: 5050643--5051015 Score: 719
Period size: 76 Copynumber: 4.9 Consensus size: 76
5050633 CTATTTCCTA
*
5050643 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTCTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
5050708 AGCCTTAGGGT
66 AGCCTTAGGGT
*
5050719 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTTATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
5050784 AGCCTTAGGGT
66 AGCCTTAGGGT
5050795 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
5050860 AGCCTTAGGGT
66 AGCCTTAGGGT
5050871 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
5050936 AGCCTTAGGGT
66 AGCCTTAGGGT
*
5050947 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
5051012 AGCC
66 AGCC
5051016 CTTCAGTGCA
Statistics
Matches: 293, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 293 1.00
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (76 bp):
CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:5051248 original size:25 final size:22
Alignment explanation
Indices: 5051188--5051267 Score: 102
Period size: 21 Copynumber: 3.9 Consensus size: 22
5051178 TTTTACTTAA
5051188 ATTATTATTAAA-ATTATTATT
1 ATTATTATTAAATATTATTATT
5051209 ATTATTATTAAATATTATTATT
1 ATTATTATTAAATATTATTATT
5051231 A-TATTA-T--ATA-TATTA-T
1 ATTATTATTAAATATTATTATT
5051247 ATTATTATTAAATAATTATTA
1 ATTATTATTAAAT-ATTATTA
5051268 CAAGCCCAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 13
0.80 0.00 0.20
Matches are distributed among these distances:
16 2 0.04
17 10 0.19
18 4 0.08
20 3 0.06
21 18 0.35
22 15 0.29
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
ATTATTATTAAATATTATTATT
Found at i:5051267 original size:3 final size:3
Alignment explanation
Indices: 5051188--5051256 Score: 72
Period size: 3 Copynumber: 23.3 Consensus size: 3
5051178 TTTTACTTAA
** *
5051188 ATT ATT ATT AAA ATT ATT ATT ATT ATT ATT AAAT ATT ATT ATT A-T
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT
5051233 ATT A-T ATAT ATT A-T ATT ATT ATT A
1 ATT ATT AT-T ATT ATT ATT ATT ATT A
5051257 AATAATTATT
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
2 6 0.11
3 44 0.80
4 5 0.09
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:5052699 original size:20 final size:16
Alignment explanation
Indices: 5052657--5052689 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
5052647 TCACTTTTAA
5052657 ATTTATTTTAAATATT
1 ATTTATTTTAAATATT
5052673 ATTTATTTTAAATATT
1 ATTTATTTTAAATATT
5052689 A
1 A
5052690 ATTTTTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
ATTTATTTTAAATATT
Found at i:5052717 original size:17 final size:17
Alignment explanation
Indices: 5052695--5052728 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
5052685 TATTAATTTT
5052695 TTATTACTTTT-ATATTA
1 TTATTA-TTTTCATATTA
5052712 TTATTATTTTCATATTA
1 TTATTATTTTCATATTA
5052729 GTCACATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATTATTTTCATATTA
Found at i:5052749 original size:2 final size:2
Alignment explanation
Indices: 5052742--5052787 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
5052732 ACATAAATAA
5052742 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
5052784 AT AT
1 AT AT
5052788 TTTAAATAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5052940 original size:33 final size:32
Alignment explanation
Indices: 5052875--5052945 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 32
5052865 ATTTTAAATA
5052875 ATTAAACATTATAAAAATTATAATTTAGTTTT
1 ATTAAACATTATAAAAATTATAATTTAGTTTT
* * *
5052907 ATTAAA-ATTATTAAAATTTTAATATTTATTTTT
1 ATTAAACATTATAAAAATTAT-A-ATTTAGTTTT
5052940 ATTAAA
1 ATTAAA
5052946 GAAAAGAGCT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
31 12 0.35
32 7 0.21
33 15 0.44
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (32 bp):
ATTAAACATTATAAAAATTATAATTTAGTTTT
Found at i:5057666 original size:21 final size:21
Alignment explanation
Indices: 5057640--5057698 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
5057630 ATTTACCGTG
5057640 ATTGCGGCCGTCGCGGGCGCT
1 ATTGCGGCCGTCGCGGGCGCT
** *
5057661 ATTGCGGCCGTCGCGAACGTT
1 ATTGCGGCCGTCGCGGGCGCT
* *
5057682 ATTGTGGCCGTCTCGGG
1 ATTGCGGCCGTCGCGGG
5057699 TAACTCGGAC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.08, C:0.29, G:0.39, T:0.24
Consensus pattern (21 bp):
ATTGCGGCCGTCGCGGGCGCT
Found at i:5058957 original size:2 final size:2
Alignment explanation
Indices: 5058952--5058976 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5058942 AAAAAAGATG
5058952 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
5058977 TATATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:5070653 original size:12 final size:12
Alignment explanation
Indices: 5070627--5070705 Score: 106
Period size: 12 Copynumber: 6.7 Consensus size: 12
5070617 ATATACAAAT
5070627 ACCTAACTC-TC
1 ACCTAACTCTTC
5070638 ACCTAACTCTTC
1 ACCTAACTCTTC
*
5070650 ACCTAATTCTTC
1 ACCTAACTCTTC
5070662 ACCTAACTCTTC
1 ACCTAACTCTTC
* **
5070674 TCCTATTTCTTC
1 ACCTAACTCTTC
*
5070686 ACCTAAATCTTC
1 ACCTAACTCTTC
5070698 ACCTAACT
1 ACCTAACT
5070706 AAATTGATGT
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
11 9 0.16
12 49 0.84
ACGTcount: A:0.25, C:0.38, G:0.00, T:0.37
Consensus pattern (12 bp):
ACCTAACTCTTC
Found at i:5073498 original size:2 final size:2
Alignment explanation
Indices: 5073491--5073527 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
5073481 CGACCCTTAT
5073491 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
5073528 TATTACTTAA
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:5073708 original size:29 final size:29
Alignment explanation
Indices: 5073672--5073731 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
5073662 TATGTAAATG
*
5073672 TATTATTATTTTTTATT-TACTACGTTTTT
1 TATTATTATATTTTATTCTA-TACGTTTTT
* *
5073701 TATTATTATATTTTGTTCTATATGTTTTT
1 TATTATTATATTTTATTCTATACGTTTTT
5073730 TA
1 TA
5073732 ACTTTATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 25 0.93
30 2 0.07
ACGTcount: A:0.22, C:0.05, G:0.05, T:0.68
Consensus pattern (29 bp):
TATTATTATATTTTATTCTATACGTTTTT
Found at i:5074845 original size:16 final size:16
Alignment explanation
Indices: 5074824--5074857 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
5074814 TCCTTTGCCA
*
5074824 TTTATTTATTTTTATT
1 TTTATTTATTTTCATT
5074840 TTTATTTATTTTCATT
1 TTTATTTATTTTCATT
5074856 TT
1 TT
5074858 ACTAACTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTATTTATTTTCATT
Found at i:5078821 original size:2 final size:2
Alignment explanation
Indices: 5078814--5078842 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
5078804 CGACCCTTAT
5078814 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 T
5078843 TATTACTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5078944 original size:12 final size:12
Alignment explanation
Indices: 5078927--5078977 Score: 52
Period size: 12 Copynumber: 4.2 Consensus size: 12
5078917 TTACCTTTGT
5078927 TATTATTATTTA
1 TATTATTATTTA
5078939 TATTA-TATTT-
1 TATTATTATTTA
5078949 TATTATATATTTCA
1 TATTAT-TATTT-A
* *
5078963 TGTCATTATTTA
1 TATTATTATTTA
5078975 TAT
1 TAT
5078978 ATAGGTATGT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
10 5 0.16
11 5 0.16
12 13 0.41
13 5 0.16
14 4 0.12
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (12 bp):
TATTATTATTTA
Found at i:5080315 original size:19 final size:20
Alignment explanation
Indices: 5080273--5080318 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 20
5080263 GCAAAGTTCC
5080273 AAAAGGGA-TGATCCTTTTT
1 AAAAGGGATTGATCCTTTTT
*
5080292 -TAAGGGATTGAT-CTTTTT
1 AAAAGGGATTGATCCTTTTT
5080310 AAAAGGGAT
1 AAAAGGGAT
5080319 CCATTTGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 12 0.52
19 11 0.48
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.37
Consensus pattern (20 bp):
AAAAGGGATTGATCCTTTTT
Found at i:5083839 original size:4 final size:4
Alignment explanation
Indices: 5083832--5083887 Score: 57
Period size: 4 Copynumber: 14.5 Consensus size: 4
5083822 AAAAAACAAA
*
5083832 AAAT AAAT AAA- AAAG ATAAT -AAT AAAT AAAT AAAAT AAAT AAA- AAAT
1 AAAT AAAT AAAT AAAT A-AAT AAAT AAAT AAAT -AAAT AAAT AAAT AAAT
5083879 AAA- AAAT AA
1 AAAT AAAT AA
5083888 TCCAATATAA
Statistics
Matches: 45, Mismatches: 1, Indels: 12
0.78 0.02 0.21
Matches are distributed among these distances:
3 12 0.27
4 27 0.60
5 6 0.13
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.20
Consensus pattern (4 bp):
AAAT
Found at i:5083843 original size:19 final size:18
Alignment explanation
Indices: 5083821--5083884 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 18
5083811 CCAAATTACA
5083821 AAAAAAACAAAAAATAAAT
1 AAAAAAA-AAAAAATAAAT
* *
5083840 AAAAAAGATAATAATAAAT
1 AAAAAA-AAAAAAATAAAT
5083859 AAATAAAATAAATAAA-AAAT
1 AAA-AAAA-AAA-AAATAAAT
5083879 AAAAAA
1 AAAAAA
5083885 TAATCCAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
19 22 0.59
20 13 0.35
21 2 0.05
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.16
Consensus pattern (18 bp):
AAAAAAAAAAAAATAAAT
Found at i:5083878 original size:7 final size:7
Alignment explanation
Indices: 5083822--5083887 Score: 55
Period size: 7 Copynumber: 9.3 Consensus size: 7
5083812 CAAATTACAA
*
5083822 AAAAAAC
1 AAAAAAT
5083829 AAAAAAT
1 AAAAAAT
5083836 AAATAAA-
1 AAA-AAAT
5083843 AAAGATAAT
1 AAA-A-AAT
*
5083852 AATAAAT
1 AAAAAAT
*
5083859 AAATAA-
1 AAAAAAT
*
5083865 AATAAAT
1 AAAAAAT
5083872 AAAAAAT
1 AAAAAAT
5083879 AAAAAAT
1 AAAAAAT
5083886 AA
1 AA
5083888 TCCAATATAA
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
6 4 0.09
7 35 0.74
8 6 0.13
9 2 0.04
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.17
Consensus pattern (7 bp):
AAAAAAT
Found at i:5083885 original size:23 final size:23
Alignment explanation
Indices: 5083832--5083887 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 23
5083822 AAAAAACAAA
*
5083832 AAATAAATAAAAAAGATAATAAT
1 AAATAAATAAAAAAGATAAAAAT
5083855 AAATAAATAAAATAA-ATAAAAAAT
1 AAATAAATAAAA-AAGAT-AAAAAT
5083879 AAA-AAATAA
1 AAATAAATAA
5083888 TCCAATATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 20 0.67
24 10 0.33
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.20
Consensus pattern (23 bp):
AAATAAATAAAAAAGATAAAAAT
Found at i:5084014 original size:2 final size:2
Alignment explanation
Indices: 5084002--5084050 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
5083992 TTTTAAAAAC
*
5084002 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5084044 TA TA TA T
1 TA TA TA T
5084051 TCAAAATGCT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:5084051 original size:133 final size:129
Alignment explanation
Indices: 5083892--5084151 Score: 296
Period size: 133 Copynumber: 2.0 Consensus size: 129
5083882 AAATAATCCA
* *
5083892 ATATAATACTATACTATAATAAATATT-AT-TTTCAAGAAACTATAATATATTTTCAAAAGTGTT
1 ATATAATACTATACTATAATAAATATTAATCTTTCAA-AAACTATAATATA-TAT--AAA-TATT
5083955 TTCAAAAACTATATATTATATATAGGTTTTCAAAAT-ATTTTAAAAACTATACATATATATATAT
61 TTC-AAAACTATATATTATATATAGGTTTTCAAAATGATTTTAAAAACTATACAT-TATATATAT
5084019 ATATAT
124 ATATAT
* * *
5084025 ATATATATA-TATA-TATATATATATATTCAAAATGCTTTCAAAAACTATATTATATATATATAT
1 ATATA-ATACTATACTATA-ATAAATATT---AAT-CTTTCAAAAACTATAATATATATAAATAT
* * *
5084088 TTTCAAAACTATATATTATATATATGTTTTCAAAATGTTTTTAAAAACTATATATTATATATAT
60 TTTCAAAACTATATATTATATATAGGTTTTCAAAATGATTTTAAAAACTATACATTATATATAT
5084152 TTTTAAAATA
Statistics
Matches: 110, Mismatches: 8, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
132 4 0.04
133 57 0.52
134 25 0.23
135 2 0.02
137 4 0.04
138 12 0.11
139 6 0.05
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.44
Consensus pattern (129 bp):
ATATAATACTATACTATAATAAATATTAATCTTTCAAAAACTATAATATATATAAATATTTTCAA
AACTATATATTATATATAGGTTTTCAAAATGATTTTAAAAACTATACATTATATATATATATAT
Found at i:5084086 original size:37 final size:37
Alignment explanation
Indices: 5083932--5084341 Score: 253
Period size: 37 Copynumber: 11.3 Consensus size: 37
5083922 TTCAAGAAAC
*
5083932 TATA-ATATATTTTCAAAAGTGTTTTCAAAAACTATA-
1 TATATATATATTTTCAAAA-TATTTTCAAAAACTATAT
5083968 TATTATATATAGGTTTTCAAAATATTTT-AAAAACTATA-
1 TA-TATATATA--TTTTCAAAATATTTTCAAAAACTATAT
* * * * * *
5084006 CATATATATA-TAT--ATATA-TAT-ATATA-TATAT
1 TATATATATATTTTCAAAATATTTTCAAAAACTATAT
* **
5084037 ATATATATATATATTCAAAATGCTTTCAAAAACTATA-
1 -TATATATATATTTTCAAAATATTTTCAAAAACTATAT
5084074 T-TATATATA---T----ATATTTTC-AAAACTATATAT
1 TATATATATATTTTCAAAATATTTTCAAAAAC--TATAT
* * *
5084104 TATATATATGTTTTCAAAATGTTTTTAAAAACTATA-
1 TATATATATATTTTCAAAATATTTTCAAAAACTATAT
* *
5084140 TATTATATATATTTTTAAAATATTTTCGAAAACTATA-
1 TA-TATATATATTTTCAAAATATTTTCAAAAACTATAT
*
5084177 TATTATATATATTTTCAAAATATTTTCAAGAACTATAT
1 TA-TATATATATTTTCAAAATATTTTCAAAAACTATAT
* *
5084215 T-TATATATGTTTTCAAAATATTTTTAAAAACTATATAT
1 TATATATATATTTTCAAAATATTTTCAAAAAC--TATAT
* * * * *
5084253 TTTATATATTTTTTCAAATTGTTTTCAGAAACTATA-
1 TATATATATATTTTCAAAATATTTTCAAAAACTATAT
*
5084289 TAT-TATGCATATGTTATCGAAAAAATATTTTCCAAAACTATA-
1 TATATAT--ATAT-TT-TC---AAAATATTTTCAAAAACTATAT
5084331 TAT-TATATATT
1 TATATATATATT
5084342 ATATATATAC
Statistics
Matches: 296, Mismatches: 42, Indels: 69
0.73 0.10 0.17
Matches are distributed among these distances:
27 5 0.02
28 6 0.02
29 4 0.01
30 5 0.02
31 12 0.04
32 14 0.05
33 1 0.00
34 3 0.01
35 14 0.05
36 36 0.12
37 87 0.29
38 35 0.12
39 38 0.13
40 13 0.04
42 23 0.08
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (37 bp):
TATATATATATTTTCAAAATATTTTCAAAAACTATAT
Found at i:5084107 original size:27 final size:27
Alignment explanation
Indices: 5084060--5084122 Score: 92
Period size: 27 Copynumber: 2.3 Consensus size: 27
5084050 TTCAAAATGC
5084060 TTTCAAAAACTATATTATATATATATAT
1 TTTC-AAAACTATATTATATATATATAT
*
5084088 TTTCAAAACTATA-TATTATATATATGT
1 TTTCAAAACTATATTA-TATATATATAT
5084115 TTTCAAAA
1 TTTCAAAA
5084123 TGTTTTTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
26 2 0.06
27 27 0.82
28 4 0.12
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.46
Consensus pattern (27 bp):
TTTCAAAACTATATTATATATATATAT
Found at i:5089324 original size:35 final size:35
Alignment explanation
Indices: 5089270--5089338 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 35
5089260 ATGAAAGAAG
* *
5089270 GTACTGAACGAAATAAAATTGAATTCAAAAGAAAA
1 GTACGGAACGAAAGAAAATTGAATTCAAAAGAAAA
*
5089305 GTACGGAATGAAAGAAAATTGAATTCAAAAGAAA
1 GTACGGAACGAAAGAAAATTGAATTCAAAAGAAA
5089339 TGAAATAAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.57, C:0.07, G:0.17, T:0.19
Consensus pattern (35 bp):
GTACGGAACGAAAGAAAATTGAATTCAAAAGAAAA
Found at i:5089337 original size:17 final size:17
Alignment explanation
Indices: 5089284--5089338 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
5089274 TGAACGAAAT
5089284 AAAATTGAATTCAAAAG
1 AAAATTGAATTCAAAAG
* *
5089301 AAAAGTACGGAA-T-GAAAG
1 AAAA-T--TGAATTCAAAAG
5089319 AAAATTGAATTCAAAAG
1 AAAATTGAATTCAAAAG
5089336 AAA
1 AAA
5089339 TGAAATAAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 10
0.67 0.09 0.23
Matches are distributed among these distances:
15 3 0.10
16 1 0.03
17 12 0.41
18 9 0.31
19 1 0.03
20 3 0.10
ACGTcount: A:0.60, C:0.05, G:0.16, T:0.18
Consensus pattern (17 bp):
AAAATTGAATTCAAAAG
Found at i:5095637 original size:95 final size:95
Alignment explanation
Indices: 5095417--5095617 Score: 244
Period size: 95 Copynumber: 2.1 Consensus size: 95
5095407 CCAATGAGGT
* * * * * *
5095417 AGTATCAATACCATGGTAAGGGTATTGATACCAAGCAACATCGAATCTAAATTTGGTATCGATAA
1 AGTATCAATACCACGGTAAAGGTATCGATACCAAGAAACATCAAACCTAAATTTGGTATCGATAA
* *
5095482 CCAAAGGGGGCATCGACACCATAATATTGT
66 CCAAAGAGGGCATCGACACCATAATATTGA
*
5095512 AGTATCAATACCACGGTAAAGGTATCGATACCAGGAAACATCAAACCTAAATTTGGTATCGAT-A
1 AGTATCAATACCACGGTAAAGGTATCGATACCAAGAAACATCAAACCTAAATTTGGTATCGATAA
* * * *
5095576 CCGGAATAGGGTATCG-CTACCATAGTATTGA
66 CC-AAAGAGGGCATCGAC-ACCATAATATTGA
*
5095607 AGTATCGATAC
1 AGTATCAATAC
5095618 TCGGGTAGTA
Statistics
Matches: 90, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
94 4 0.04
95 86 0.96
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (95 bp):
AGTATCAATACCACGGTAAAGGTATCGATACCAAGAAACATCAAACCTAAATTTGGTATCGATAA
CCAAAGAGGGCATCGACACCATAATATTGA
Found at i:5096019 original size:54 final size:54
Alignment explanation
Indices: 5095957--5096248 Score: 381
Period size: 54 Copynumber: 5.4 Consensus size: 54
5095947 GATTACCATG
** *
5095957 TCGGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATGACCGTT
1 TCGGCACTAAGTGTGCATTTCACAAAATTCATCCTATGTGGATGAATAACCGTT
* * * *
5096011 TCGACACTAAGTGTGCATTTCAAAAAATTCATCATATAG-GGATGAATGACCGTT
1 TCGGCACTAAGTGTGCATTTCACAAAATTCATCCTAT-GTGGATGAATAACCGTT
* ***
5096065 TCGGCTCTAAGTGTGCATTTCATGGAATTCATCCTATGTGGATGAATAACCGTT
1 TCGGCACTAAGTGTGCATTTCACAAAATTCATCCTATGTGGATGAATAACCGTT
* * **
5096119 TCGGCACTAAGTGTGCATTTCACAAAATTCATCCTGTATGGATGAATAACTATT
1 TCGGCACTAAGTGTGCATTTCACAAAATTCATCCTATGTGGATGAATAACCGTT
* * * *
5096173 TCGACACTAAGTGTGCATTTCAAAAAATTCATCTTATGTGGATG-ATAACCATT
1 TCGGCACTAAGTGTGCATTTCACAAAATTCATCCTATGTGGATGAATAACCGTT
*
5096226 TTGGCACTAAGTGTGCATTTCAC
1 TCGGCACTAAGTGTGCATTTCAC
5096249 GGGATTCATA
Statistics
Matches: 207, Mismatches: 29, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
53 29 0.14
54 177 0.86
55 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (54 bp):
TCGGCACTAAGTGTGCATTTCACAAAATTCATCCTATGTGGATGAATAACCGTT
Found at i:5103065 original size:54 final size:54
Alignment explanation
Indices: 5102649--5103058 Score: 532
Period size: 54 Copynumber: 7.6 Consensus size: 54
5102639 GATTACCAAG
* *
5102649 TCGGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATGACCGTT
1 TCGGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCATT
* * * *
5102703 TCGGCACTAAGTGTGCATTTCACGAAATTCATCATATGGGGATGAATGACCATT
1 TCGGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCATT
* * *
5102757 TCGGCTCTAAGTGTGCATTTCATGGAATTCATCCTATGTGGTTGAATAACCATT
1 TCGGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCATT
* * **
5102811 TCGGCACTAAGTGTGCATTTCACGAAATTCATCTTATGTGGATGAATAACTGTT
1 TCGGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCATT
* * ** * **
5102865 TCGACACTAAGTGTGCAATTCACATAATTTATCCTATGTGGATGAATAACTGTT
1 TCGGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCATT
* * *
5102919 TCGACACTAAGTTTGCATTCCACGGAATTCATCCTATGTGGATGAATAACCATT
1 TCGGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCATT
* * * * * * *
5102973 TTGACACTAAATGTGCATTTCACCGAATGCGTCCTATGTGGATGAATAACTATT
1 TCGGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCATT
* *
5103027 TCGGCACTAAGTGTGCATTTCTCGGGATTCAT
1 TCGGCACTAAGTGTGCATTTCACGGAATTCAT
5103059 AATATGTTAT
Statistics
Matches: 308, Mismatches: 48, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 308 1.00
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.33
Consensus pattern (54 bp):
TCGGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCATT
Found at i:5105151 original size:16 final size:15
Alignment explanation
Indices: 5105116--5105152 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
5105106 CACATATATT
*
5105116 GAAAACATAAAGTAA
1 GAAAAAATAAAGTAA
*
5105131 GAAAAAATAATGTAA
1 GAAAAAATAAAGTAA
5105146 GAAAAAA
1 GAAAAAA
5105153 GGTCTATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.70, C:0.03, G:0.14, T:0.14
Consensus pattern (15 bp):
GAAAAAATAAAGTAA
Found at i:5106460 original size:16 final size:15
Alignment explanation
Indices: 5106434--5106464 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
5106424 CAAATTACAC
5106434 AAAAAGAAATAAATA
1 AAAAAGAAATAAATA
5106449 AAAAAGATAATAAATA
1 AAAAAGA-AATAAATA
5106465 GTAAATAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.16
Consensus pattern (15 bp):
AAAAAGAAATAAATA
Found at i:5106471 original size:7 final size:7
Alignment explanation
Indices: 5106441--5106487 Score: 58
Period size: 7 Copynumber: 6.4 Consensus size: 7
5106431 CACAAAAAGA
5106441 AATAAAT
1 AATAAAT
*
5106448 AAAAAAGAT
1 -AATAA-AT
5106457 AATAAAT
1 AATAAAT
*
5106464 AGTAAAT
1 AATAAAT
5106471 AATAAAT
1 AATAAAT
5106478 AATAAAT
1 AATAAAT
5106485 AAT
1 AAT
5106488 CCAATATACT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
7 24 0.71
8 8 0.24
9 2 0.06
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (7 bp):
AATAAAT
Found at i:5106526 original size:16 final size:18
Alignment explanation
Indices: 5106505--5106552 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 18
5106495 ACTATACTAT
*
5106505 AAGAAA-TATTAT-TTTC
1 AAGAAACTATAATATTTC
5106521 AAGAAACTATAATATTTC
1 AAGAAACTATAATATTTC
5106539 -A-AAACTATATATAT
1 AAGAAACTATA-ATAT
5106553 ATATAGGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 14 0.50
17 10 0.36
18 4 0.14
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (18 bp):
AAGAAACTATAATATTTC
Found at i:5106557 original size:26 final size:27
Alignment explanation
Indices: 5106528--5106606 Score: 67
Period size: 26 Copynumber: 3.0 Consensus size: 27
5106518 TTCAAGAAAC
5106528 TATA-ATATTTCAAAACTA-TATATATA
1 TATAGATATTTCAAAA-TATTATATATA
* *
5106554 TATAGGT-TTTCAAAATATTTTATATA
1 TATAGATATTTCAAAATATTATATATA
* * *
5106580 TATATATATAT-ATATATATTATATATA
1 TATAGATATTTCA-AAATATTATATATA
5106607 ATTATATATA
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
25 2 0.05
26 25 0.60
27 15 0.36
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.48
Consensus pattern (27 bp):
TATAGATATTTCAAAATATTATATATA
Found at i:5106581 original size:2 final size:2
Alignment explanation
Indices: 5106574--5106621 Score: 75
Period size: 2 Copynumber: 25.5 Consensus size: 2
5106564 CAAAATATTT
5106574 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA -A T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5106613 TA TA TA TA T
1 TA TA TA TA T
5106622 TCAAAATGTT
Statistics
Matches: 43, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
1 3 0.07
2 40 0.93
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5106602 original size:25 final size:23
Alignment explanation
Indices: 5106568--5106622 Score: 83
Period size: 23 Copynumber: 2.3 Consensus size: 23
5106558 GGTTTTCAAA
*
5106568 ATATTTTATATATATATATATATAT
1 ATATATTATATATA-AT-TATATAT
5106593 ATATATTATATATAATTATATAT
1 ATATATTATATATAATTATATAT
5106616 ATATATT
1 ATATATT
5106623 CAAAATGTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 14 0.48
24 2 0.07
25 13 0.45
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
ATATATTATATATAATTATATAT
Found at i:5106648 original size:37 final size:37
Alignment explanation
Indices: 5106601--5106913 Score: 341
Period size: 38 Copynumber: 8.4 Consensus size: 37
5106591 ATATATATTA
*
5106601 TATATAATTATATATATATATTCAAAATGTTTTCAAAAAC
1 TATAT-ATTATATATAT-T-TTCAAAATATTTTCAAAAAC
* *
5106641 TATAT-TATATATATATATTC-AAATGTTTTC-AAAAC
1 TATATAT-TATATATATTTTCAAAATATTTTCAAAAAC
* *
5106676 TATATATTATATATATTTTC-AAATACTTTCGAAAAC
1 TATATATTATATATATTTTCAAAATATTTTCAAAAAC
*
5106712 TATATATTATATATATTTTCAAAATATTTTCAAGAAC
1 TATATATTATATATATTTTCAAAATATTTTCAAAAAC
**
5106749 TATATATTATATATATGTTTCAAAATATTTTTTAAAAC
1 TATATATTATATATAT-TTTCAAAATATTTTCAAAAAC
* *
5106787 TATATATTATATATTGTTTTCAAAATATTTTCAAAAAA
1 TATATATTATATA-TATTTTCAAAATATTTTCAAAAAC
*
5106825 TATATATTATACATATGTTTTCAAAATATTTTC-AAAAC
1 TATATATTAT--ATATATTTTCAAAATATTTTCAAAAAC
* * **** *
5106863 TATATATCATATGTTATCGAAAAAATATTTTC-CAAAC
1 TATATATTATAT-ATATTTTCAAAATATTTTCAAAAAC
5106900 TATATATTATATAT
1 TATATATTATATAT
5106914 TATATATACT
Statistics
Matches: 239, Mismatches: 25, Indels: 22
0.84 0.09 0.08
Matches are distributed among these distances:
35 30 0.13
36 39 0.16
37 60 0.25
38 73 0.31
39 29 0.12
40 8 0.03
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.45
Consensus pattern (37 bp):
TATATATTATATATATTTTCAAAATATTTTCAAAAAC
Found at i:5108619 original size:593 final size:592
Alignment explanation
Indices: 5107553--5108737 Score: 2184
Period size: 594 Copynumber: 2.0 Consensus size: 592
5107543 AATATATATG
5107553 GTACTTTAGTTGGTACAAGCTAATCAACTAATGTGTTTTCCTGACGACGGCTAGGGATTCTCTTT
1 GTACTTTAGTTGGTACAAGCTAATCAACTAATGTGTTTTCCTGACGACGGCTAGGGATTCTCTTT
5107618 GGGATTTGCTTTGACATATTAATTAGATTCTAACTATATGACTAATTGATAGTTATGCACCATTA
66 GGGATTTGCTTTGACATATTAATTAGATTCTAACTATATGACTAATTGATAGTTATGCACCATTA
*
5107683 TTGTTTAGTTGAGTGTTACGATTGAATTGAAGTATATTACTTGTGTTTTTATATGGATCTTTTGT
131 TTGTTTAGTTGAGTGTTACGATTGAATTGAAGTATATTACTTGTGTTTTAATATGGATCTTTTGT
5107748 TTGTATTTTAATTATTCATATAGGAAAACAAGCCTCGTGCACAATGTCTTTTCTTTTAATTTTAA
196 TTGTATTTTAATTATTCATATAGGAAAACAAGCCTCGTGCACAATGTCTTTTCTTTTAATTTTAA
*
5107813 TTTTTGGATTTGAGTTATTTTATTATCAAAGTGAGCCTAACCCTTCGTTCAATGTTCACTTTGAG
261 -TTTTGGATTTGAGTTATTTTATTATCAAAGTGAGCCTAACCCTTCGTTCAATGTTCAATTTGAG
*
5107878 AATAGTTGGACAAATTTAGCTGCCTAATTATGAGAGGATCTCAATTCTTGGAACTGTAGCGTAAA
325 AATAGTTGGACAAATTTAGCTGCCTAATTATGAGAGGATCTCAATTCTTGCAACTGTAGCGTAAA
*
5107943 TTAGATTGTGTGGCGTCGTTGGATCTTGAATCCAACATTCTTTAAGGGAATCAGGTGACTTCTTT
390 TTAGATTGTGTGGCGTCGTTGGATCTTGAATCCAACATTCTTTAAGGGAATCAGGTGACATCTTT
5108008 CTGACTTTAAGATGCATTTGTTGATTTTA-TTTTTAATCTTCAATGTCTATGAGTTACTCCAGAG
455 CTGACTTTAAGATGCATTTGTTGATTTTATTTTTTAATCTTCAATGTCTATGAGTTACTCCAGAG
*
5108072 ATTATTACTTTAATAAGTTGCTTAACGGGTTGCCTGTGTTGCTTATGAT-ATAAGTTATTTTTTT
520 ATTATTACTTTAATAAGTTGC-TAACGGGTTGCC--TGTTGCTTATGATAATAAGTTATTTATTT
5108136 GGTTTTAATTC
582 GGTTTTAATTC
5108147 GTACTTTAGTTGGTACAAGCTAATCAACTAATGTGTTTTCCTGACGACGGCTAGGGATTCTCTTT
1 GTACTTTAGTTGGTACAAGCTAATCAACTAATGTGTTTTCCTGACGACGGCTAGGGATTCTCTTT
*
5108212 GGGGTTTGCTTTGACATATTAATTAGATTCTAACTATATGACTAATTG-TAGTTATGCACCATTA
66 GGGATTTGCTTTGACATATTAATTAGATTCTAACTATATGACTAATTGATAGTTATGCACCATTA
5108276 TTGTTTAGTTGAGTGTTACGATTGAATTGAAGTATATTACTTGTGTTTTAATATGGATCTTTTGT
131 TTGTTTAGTTGAGTGTTACGATTGAATTGAAGTATATTACTTGTGTTTTAATATGGATCTTTTGT
5108341 TTGTATTTTAATTATTCATATAGG-AAACAAGCCTCGTGCACAATGTCTTTTCTTTTAATTTTAA
196 TTGTATTTTAATTATTCATATAGGAAAACAAGCCTCGTGCACAATGTCTTTTCTTTTAATTTTAA
5108405 -TTTGGA-TTGAGTTATTTTATTATCAAAGTGAGCCTAACCCTTCGTTCAATGTTCAATTTGAGA
261 TTTTGGATTTGAGTTATTTTATTATCAAAGTGAGCCTAACCCTTCGTTCAATGTTCAATTTGAGA
5108468 ATATGTTGGACAAATTTAGCTGCCTAATTATTGAGAGGATCTCAATTCTTGCAACTGTAGCGTAA
326 ATA-GTTGGACAAATTTAGCTGCCTAATTA-TGAGAGGATCTCAATTCTTGCAACTGTAGCGTAA
5108533 ATTAGATTGTGTGGCGTCGTTGGATCTTGAATCCAACAATTCTTTAAGGGAATCAGGTGACATCT
389 ATTAGATTGTGTGGCGTCGTTGGATCTTGAATCCAAC-ATTCTTTAAGGGAATCAGGTGACATCT
5108598 TTCTGACTTTAAGATTGCATTTGTTGATTTTATTTTTTAATCTTCAATGTCTATGAGTTACTCCA
453 TTCTGACTTTAAGA-TGCATTTGTTGATTTTATTTTTTAATCTTCAATGTCTATGAGTTACTCCA
* *
5108663 TATATTATTACTTTAATAAGTTGCTAACGGGTTGCCTGTTGCTTATGATAATAAGTTATTTATTT
517 GAGATTATTACTTTAATAAGTTGCTAACGGGTTGCCTGTTGCTTATGATAATAAGTTATTTATTT
5108728 GGTTTTAATT
582 GGTTTTAATT
5108738 TTTTGTGTCA
Statistics
Matches: 577, Mismatches: 8, Indels: 14
0.96 0.01 0.02
Matches are distributed among these distances:
589 59 0.10
590 32 0.06
591 83 0.14
592 104 0.18
593 133 0.23
594 166 0.29
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.43
Consensus pattern (592 bp):
GTACTTTAGTTGGTACAAGCTAATCAACTAATGTGTTTTCCTGACGACGGCTAGGGATTCTCTTT
GGGATTTGCTTTGACATATTAATTAGATTCTAACTATATGACTAATTGATAGTTATGCACCATTA
TTGTTTAGTTGAGTGTTACGATTGAATTGAAGTATATTACTTGTGTTTTAATATGGATCTTTTGT
TTGTATTTTAATTATTCATATAGGAAAACAAGCCTCGTGCACAATGTCTTTTCTTTTAATTTTAA
TTTTGGATTTGAGTTATTTTATTATCAAAGTGAGCCTAACCCTTCGTTCAATGTTCAATTTGAGA
ATAGTTGGACAAATTTAGCTGCCTAATTATGAGAGGATCTCAATTCTTGCAACTGTAGCGTAAAT
TAGATTGTGTGGCGTCGTTGGATCTTGAATCCAACATTCTTTAAGGGAATCAGGTGACATCTTTC
TGACTTTAAGATGCATTTGTTGATTTTATTTTTTAATCTTCAATGTCTATGAGTTACTCCAGAGA
TTATTACTTTAATAAGTTGCTAACGGGTTGCCTGTTGCTTATGATAATAAGTTATTTATTTGGTT
TTAATTC
Found at i:5114786 original size:53 final size:53
Alignment explanation
Indices: 5114751--5114859 Score: 200
Period size: 53 Copynumber: 2.1 Consensus size: 53
5114741 GCATTTTGAA
*
5114751 ACCCATCACATAGTAGCTTAAGTTCGAATATAATATAGTACTACAAACCAAAT
1 ACCCATCACATAGTAGCTTAAGTTCGAATATAATATAGTAATACAAACCAAAT
*
5114804 ACCCATCACATAGTAGCTTAAGTTCGAATATAATATAGTACTACAAACCAAAT
1 ACCCATCACATAGTAGCTTAAGTTCGAATATAATATAGTAATACAAACCAAAT
5114857 ACC
1 ACC
5114860 ATATGTCCTA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 56 1.00
ACGTcount: A:0.43, C:0.22, G:0.09, T:0.26
Consensus pattern (53 bp):
ACCCATCACATAGTAGCTTAAGTTCGAATATAATATAGTAATACAAACCAAAT
Found at i:5115841 original size:13 final size:14
Alignment explanation
Indices: 5115823--5115851 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
5115813 CTCACCTAGC
5115823 ATGCCTTACT-ATT
1 ATGCCTTACTCATT
5115836 ATGCCTTACTCATT
1 ATGCCTTACTCATT
5115850 AT
1 AT
5115852 CCGATTACTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.24, C:0.24, G:0.07, T:0.45
Consensus pattern (14 bp):
ATGCCTTACTCATT
Found at i:5116912 original size:21 final size:22
Alignment explanation
Indices: 5116887--5116932 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
5116877 AAATAAATGG
5116887 TTTCATG-AAATTTATCCTTA-A
1 TTTCATGTAAATTTA-CCTTATA
*
5116908 TTTCATGTTAATTTACCTTATA
1 TTTCATGTAAATTTACCTTATA
5116930 TTT
1 TTT
5116933 AAGCTTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.28, C:0.13, G:0.04, T:0.54
Consensus pattern (22 bp):
TTTCATGTAAATTTACCTTATA
Found at i:5119508 original size:33 final size:33
Alignment explanation
Indices: 5119462--5119531 Score: 133
Period size: 33 Copynumber: 2.2 Consensus size: 33
5119452 TGAACTTGGA
5119462 TTAA-ATGGAATTTGAATGGTCAATTGGAAGTG
1 TTAAGATGGAATTTGAATGGTCAATTGGAAGTG
5119494 TTAAGATGGAATTTGAATGGTCAATTGGAAGTG
1 TTAAGATGGAATTTGAATGGTCAATTGGAAGTG
5119527 TTAAG
1 TTAAG
5119532 GTCAACATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 4 0.11
33 33 0.89
ACGTcount: A:0.34, C:0.03, G:0.29, T:0.34
Consensus pattern (33 bp):
TTAAGATGGAATTTGAATGGTCAATTGGAAGTG
Found at i:5124123 original size:14 final size:14
Alignment explanation
Indices: 5124104--5124133 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
5124094 TGCAAGGAGC
5124104 CGGGATATATGAAG
1 CGGGATATATGAAG
5124118 CGGGATATATGAAG
1 CGGGATATATGAAG
5124132 CG
1 CG
5124134 AGACTGTCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.10, G:0.37, T:0.20
Consensus pattern (14 bp):
CGGGATATATGAAG
Found at i:5144418 original size:18 final size:18
Alignment explanation
Indices: 5144395--5144438 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
5144385 GTCTCGTCGC
5144395 CCGTCCCCTCCACGATCT
1 CCGTCCCCTCCACGATCT
5144413 CCGTCCCCTCCACGATCT
1 CCGTCCCCTCCACGATCT
5144431 CCGTCCCC
1 CCGTCCCC
5144439 GTCGTTTCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.09, C:0.59, G:0.11, T:0.20
Consensus pattern (18 bp):
CCGTCCCCTCCACGATCT
Found at i:5144988 original size:12 final size:12
Alignment explanation
Indices: 5144971--5144995 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5144961 TTTTCCGATG
5144971 ATTAACTGTGGA
1 ATTAACTGTGGA
5144983 ATTAACTGTGGA
1 ATTAACTGTGGA
5144995 A
1 A
5144996 CGTTTTATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.08, G:0.24, T:0.32
Consensus pattern (12 bp):
ATTAACTGTGGA
Found at i:5156951 original size:12 final size:12
Alignment explanation
Indices: 5156936--5156964 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
5156926 TTATTATTAA
5156936 ATTTTTTATTTT
1 ATTTTTTATTTT
5156948 ATTTTTTATTTT
1 ATTTTTTATTTT
5156960 ATTTT
1 ATTTT
5156965 AATGGATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (12 bp):
ATTTTTTATTTT
Found at i:5164179 original size:59 final size:59
Alignment explanation
Indices: 5164026--5164196 Score: 242
Period size: 56 Copynumber: 2.9 Consensus size: 59
5164016 ATTGAGGATA
* * * *
5164026 GCACTAAAGTATAACTAGTGCATATGGTGGGTACGACCTTATATGTCATACTTGGGATT
1 GCACTAAAGTATAACTAGTGCATATGGTGGGCACGACCTTATGTGTCATACTCGGGACT
*
5164085 TCACTAAAGTAT---TAGTGCATATGGTGGGCACGACCTTATGTGTCATA-TCCGGGACT
1 GCACTAAAGTATAACTAGTGCATATGGTGGGCACGACCTTATGTGTCATACT-CGGGACT
* *
5164141 GCACTAAAGTATAACTAGTGCATATGGTGAGCACGACCTTATGTGTCAAACTCGGG
1 GCACTAAAGTATAACTAGTGCATATGGTGGGCACGACCTTATGTGTCATACTCGGG
5164197 TTAGCACTAC
Statistics
Matches: 99, Mismatches: 8, Indels: 10
0.85 0.07 0.09
Matches are distributed among these distances:
55 1 0.01
56 49 0.49
59 48 0.48
60 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (59 bp):
GCACTAAAGTATAACTAGTGCATATGGTGGGCACGACCTTATGTGTCATACTCGGGACT
Found at i:5164204 original size:59 final size:59
Alignment explanation
Indices: 5164021--5164205 Score: 245
Period size: 59 Copynumber: 3.2 Consensus size: 59
5164011 TGTATATTGA
* * * *
5164021 GGATAGCACTAAAGTATAACTAGTGCATATGGTGGGTACGACCTTATATGTCATACTTG
1 GGATTGCACTAAAGTATAACTAGTGCATATGGTGGGCACGACCTTATGTGTCATACTCG
*
5164080 GGATTTCACTAAAGTAT---TAGTGCATATGGTGGGCACGACCTTATGTGTCATA-TCCG
1 GGATTGCACTAAAGTATAACTAGTGCATATGGTGGGCACGACCTTATGTGTCATACT-CG
* * *
5164136 GGACTGCACTAAAGTATAACTAGTGCATATGGTGAGCACGACCTTATGTGTCAAACTCG
1 GGATTGCACTAAAGTATAACTAGTGCATATGGTGGGCACGACCTTATGTGTCATACTCG
5164195 GG-TTAGCACTA
1 GGATT-GCACTA
5164206 CGGTGAATAT
Statistics
Matches: 110, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
55 1 0.01
56 49 0.45
58 1 0.01
59 58 0.53
60 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (59 bp):
GGATTGCACTAAAGTATAACTAGTGCATATGGTGGGCACGACCTTATGTGTCATACTCG
Found at i:5164597 original size:36 final size:36
Alignment explanation
Indices: 5164557--5164631 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
5164547 CTTGGCATCA
5164557 ATCACAAAGGAAGTATTTACAAGTCACAATGATGAC
1 ATCACAAAGGAAGTATTTACAAGTCACAATGATGAC
5164593 ATCACAAAGGAAGTATTTACAAGTCACAATGATGAC
1 ATCACAAAGGAAGTATTTACAAGTCACAATGATGAC
5164629 ATC
1 ATC
5164632 TTACTGTGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.44, C:0.17, G:0.16, T:0.23
Consensus pattern (36 bp):
ATCACAAAGGAAGTATTTACAAGTCACAATGATGAC
Found at i:5175802 original size:14 final size:15
Alignment explanation
Indices: 5175783--5175811 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5175773 AGCAGAAAGA
5175783 AAATC-GGGAAAAAT
1 AAATCGGGGAAAAAT
5175797 AAATCGGGGAAAAAT
1 AAATCGGGGAAAAAT
5175812 GATTTGGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.55, C:0.07, G:0.24, T:0.14
Consensus pattern (15 bp):
AAATCGGGGAAAAAT
Found at i:5176002 original size:22 final size:22
Alignment explanation
Indices: 5175975--5176026 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
5175965 TTTAATAAAA
5175975 TATTAATAAAATAAATTTGAGT
1 TATTAATAAAATAAATTTGAGT
5175997 TATTAATAAAATAAATTTGAGT
1 TATTAATAAAATAAATTTGAGT
5176019 TATTAATA
1 TATTAATA
5176027 GATGACATGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (22 bp):
TATTAATAAAATAAATTTGAGT
Found at i:5178412 original size:20 final size:20
Alignment explanation
Indices: 5178364--5178418 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
5178354 GTGTCGGTAT
*
5178364 TGTAAGAACAATATCGATAA
1 TGTAAGAACAATACCGATAA
* * *
5178384 TTTATGAACAATACCGATAC
1 TGTAAGAACAATACCGATAA
*
5178404 TGTAAGAACAGTACC
1 TGTAAGAACAATACC
5178419 AATATTGTTC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.25
Consensus pattern (20 bp):
TGTAAGAACAATACCGATAA
Found at i:5182420 original size:24 final size:24
Alignment explanation
Indices: 5182339--5182410 Score: 135
Period size: 24 Copynumber: 3.0 Consensus size: 24
5182329 ATTGTTTTCA
5182339 ATCTTAATTTATGTTTCCTTTTAT
1 ATCTTAATTTATGTTTCCTTTTAT
*
5182363 ATCTTAATTTTTGTTTCCTTTTAT
1 ATCTTAATTTATGTTTCCTTTTAT
5182387 ATCTTAATTTATGTTTCCTTTTAT
1 ATCTTAATTTATGTTTCCTTTTAT
5182411 TTTACAATTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.19, C:0.12, G:0.04, T:0.64
Consensus pattern (24 bp):
ATCTTAATTTATGTTTCCTTTTAT
Found at i:5191541 original size:134 final size:134
Alignment explanation
Indices: 5191301--5191548 Score: 354
Period size: 134 Copynumber: 1.9 Consensus size: 134
5191291 GTTGGGGACA
* * * * * *
5191301 ACACTGTTCATGCGTGATGAAGAGTTCGGGTCGTCTTTAGGAAGGGTGATAACTCGGTTCCTACA
1 ACACTGCTCATACGCGATGAAGAGTTCGAGCCATCTTTAGGAAGGGTGATAACTCGGTTCCTACA
* *
5191366 CGATGAGGATGACTGGTTATCTATGGGTGGCACGACTCCTACGTGATGACGAGGTCTGGTTGAGG
66 CGATGAGGATGACTGGTTATCTAAGGGTGACACGACTCCTACGTGATGACGAGGTCTGGTTGAGG
5191431 GATG
131 GATG
* *
5191435 ACACTGCTCATACGCGATGAAGAGTTCTAGCCATCTTTAGGAAGGGTGATAACTCGGTTCCTACG
1 ACACTGCTCATACGCGATGAAGAGTTCGAGCCATCTTTAGGAAGGGTGATAACTCGGTTCCTACA
* * * *
5191500 TGATGAGGACT-ACTGGTTATCTAAGGTTGACGCGGCTCCTACGTGATGA
66 CGATGAGGA-TGACTGGTTATCTAAGGGTGACACGACTCCTACGTGATGA
5191549 GGAGATCTTG
Statistics
Matches: 99, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
134 98 0.99
135 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (134 bp):
ACACTGCTCATACGCGATGAAGAGTTCGAGCCATCTTTAGGAAGGGTGATAACTCGGTTCCTACA
CGATGAGGATGACTGGTTATCTAAGGGTGACACGACTCCTACGTGATGACGAGGTCTGGTTGAGG
GATG
Found at i:5191588 original size:134 final size:134
Alignment explanation
Indices: 5191308--5191588 Score: 350
Period size: 134 Copynumber: 2.1 Consensus size: 134
5191298 ACAACACTGT
* * * *
5191308 TCATGCGTGATGAAGAGTTCGGGTCGTCTTTAGGAAGGGTGATAACTCGGTTCCTACACGATGAG
1 TCATACGTGATGAAGAGTTCGAGCCATCTTTAGGAAGGGTGATAACTCGGTTCCTACACGATGAG
* * * *
5191373 GATGACTGGTTATCTATGGGTGGCACGACTCCTACGTGATGACGAGGTCTGGTTGAGGGATGACA
66 GATGACTGGTTATCTAAGGGTGACACGACTCCTACGTGATGACGAGATCTGGTAGAGGGATGACA
*
5191438 CTGC
131 CGGC
* * **
5191442 TCATACGCGATGAAGAGTTCTAGCCATCTTTAGGAAGGGTGATAACTCGGTTCCTACGTGATGAG
1 TCATACGTGATGAAGAGTTCGAGCCATCTTTAGGAAGGGTGATAACTCGGTTCCTACACGATGAG
* * * * *
5191507 GACT-ACTGGTTATCTAAGGTTGACGCGGCTCCTACGTGATGAGGAGATCTTGTCAG-GGGATGA
66 GA-TGACTGGTTATCTAAGGGTGACACGACTCCTACGTGATGACGAGATCTGGT-AGAGGGATGA
*
5191570 CACGGT
129 CACGGC
*
5191576 TCCTACGTGATGA
1 TCATACGTGATGA
5191589 GGACGGCTGG
Statistics
Matches: 124, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
134 122 0.98
135 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.27
Consensus pattern (134 bp):
TCATACGTGATGAAGAGTTCGAGCCATCTTTAGGAAGGGTGATAACTCGGTTCCTACACGATGAG
GATGACTGGTTATCTAAGGGTGACACGACTCCTACGTGATGACGAGATCTGGTAGAGGGATGACA
CGGC
Found at i:5192033 original size:29 final size:29
Alignment explanation
Indices: 5191968--5192033 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 29
5191958 ATTTGCTTTT
* * *
5191968 AAAGAAATAAACTCAAAGTTGATTTTGTTA
1 AAAGAAACAAACTCAAAGTT-ATTTTCTCA
*
5191998 ATAGAAACAAACTCAAAGATT-TTTTCTCA
1 AAAGAAACAAACTCAAAG-TTATTTTCTCA
5192027 AAAGAAA
1 AAAGAAA
5192034 TTGTCTCAAG
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
29 12 0.40
30 16 0.53
31 2 0.07
ACGTcount: A:0.50, C:0.11, G:0.11, T:0.29
Consensus pattern (29 bp):
AAAGAAACAAACTCAAAGTTATTTTCTCA
Found at i:5192117 original size:30 final size:30
Alignment explanation
Indices: 5192054--5192121 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
5192044 AGAGACAAAA
* *
5192054 TTTTGTTTCCAAAGAAACATACTTAAAGAT
1 TTTTGTTTCAAAAGAAACATACTCAAAGAT
* *
5192084 TTTTGTTTCAAAAGAAAC-TACTCGAATAT
1 TTTTGTTTCAAAAGAAACATACTCAAAGAT
5192113 TTTT-TTTCA
1 TTTTGTTTCA
5192122 CGAAATTTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 5 0.15
29 12 0.35
30 17 0.50
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.43
Consensus pattern (30 bp):
TTTTGTTTCAAAAGAAACATACTCAAAGAT
Found at i:5192210 original size:93 final size:92
Alignment explanation
Indices: 5192000--5192324 Score: 222
Period size: 108 Copynumber: 3.3 Consensus size: 92
5191990 TTTTGTTAAT
*
5192000 AGAAACAAACTCAAAGATTTTTTCTCAAAAGAAATTGTCTCAAGAGAGACAAAATTTTGTTTCCA
1 AGAAAC-AACTCAAAGATTTTTT-TC--AAGAAATTGTCTCAAGAGAGACAAAATTTTGTTTCAA
* * * **
5192065 AAGAAACATACTTAAAGATTTTTGTTTCAAA
62 AAGAAACAGACTAAAAAATTTTTGCCTCAAA
* * * * * *
5192096 AGAAACTACTCGAATATTTTTTTTCACGAAATTTTCTCAAGAGAGACAAAATTTTGTTTCAAAAT
1 AGAAACAACTCAAAGA-TTTTTTTCAAGAAATTGTCTCAAGAGAGACAAAATTTTGTTTCAAAAG
* *
5192161 AAATAGACTCAAAAAACTTTTT-CCTCACA
65 AAACAGACT-AAAAAA-TTTTTGCCTCAAA
* *
5192190 ATAAACAACTCAAAGATTTTTATTCAAAAGGAACAGACTCAAAGATTGTTTCAAGAGAGACAAAA
1 AGAAACAACTCAAAGATTTTT-TTC-------A-AG----A-A-ATTGTCTCAAGAGAGACAAAA
* * * *
5192255 CTTTGTTTCAAAAGAAATAGACTCAAAAAACTTTTT-TCTCACA
51 TTTTGTTTCAAAAGAAACAGACT-AAAAAA-TTTTTGCCTCAAA
*
5192298 ATAAACAACTCAAAGATTTTTATTCAA
1 AGAAACAACTCAAAGATTTTT-TTCAA
5192325 AAGGAACAGA
Statistics
Matches: 187, Mismatches: 24, Indels: 32
0.77 0.10 0.13
Matches are distributed among these distances:
93 48 0.26
94 23 0.12
95 14 0.07
96 12 0.06
100 1 0.01
101 2 0.01
102 1 0.01
106 1 0.01
107 1 0.01
108 84 0.45
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (92 bp):
AGAAACAACTCAAAGATTTTTTTCAAGAAATTGTCTCAAGAGAGACAAAATTTTGTTTCAAAAGA
AACAGACTAAAAAATTTTTGCCTCAAA
Found at i:5192230 original size:29 final size:28
Alignment explanation
Indices: 5192193--5192344 Score: 99
Period size: 29 Copynumber: 5.6 Consensus size: 28
5192183 CCTCACAATA
5192193 AACA-ACTCAAAGATTTTTATTCAAAAGG
1 AACAGACTCAAAGATTTTT-TTCAAAAGG
*
5192221 AACAGACTCAAAGA-TTGTTTC--AA-G
1 AACAGACTCAAAGATTTTTTTCAAAAGG
* * *
5192245 -AGAGA--CAAA-ACTTTGTTTCAAAAGA
1 AACAGACTCAAAGA-TTTTTTTCAAAAGG
* * * **
5192270 AATAGACTCAAAAAACTTTTTTCTCACAATA
1 AACAGACTC-AAAGA-TTTTTT-TCAAAAGG
5192301 AACA-ACTCAAAGATTTTTATTCAAAAGG
1 AACAGACTCAAAGATTTTT-TTCAAAAGG
5192329 AACAGACTCAAAGATT
1 AACAGACTCAAAGATT
5192345 GTTTCAAGAG
Statistics
Matches: 98, Mismatches: 12, Indels: 27
0.72 0.09 0.20
Matches are distributed among these distances:
20 1 0.01
21 4 0.04
22 7 0.07
23 4 0.04
24 3 0.03
25 2 0.02
26 4 0.04
27 3 0.03
28 22 0.22
29 28 0.29
30 11 0.11
31 9 0.09
ACGTcount: A:0.46, C:0.16, G:0.11, T:0.27
Consensus pattern (28 bp):
AACAGACTCAAAGATTTTTTTCAAAAGG
Done.