Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001547.1 Hibiscus syriacus cultivar Beakdansim tig00003041_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: 10425128
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 24 of 51
Found at i:4720422 original size:44 final size:44
Alignment explanation
Indices: 4720372--4720558 Score: 124
Period size: 44 Copynumber: 4.2 Consensus size: 44
4720362 GTCGATCTGC
* *
4720372 CTCCTTCTGTGATAGAATCAAGCTAAAAGTTGACGTTGATCCAA
1 CTCCTTCTGTGATAGAATCAAGCGAAAAGTTAACGTTGATCCAA
* * * ** * * * * *
4720416 CTCCTTCTATGATGGATTTGAGCGAAAA-TAAAAATGTCGATCTAC
1 CTCCTTCTGTGATAGAATCAAGCGAAAAGT--TAACGTTGATCCAA
* * * * * * * *
4720461 CTCCTTCTGTGATGGAAATCAAACGATATGTCAATGTTGATCTAC
1 CTCCTTCTGTGATAG-AATCAAGCGAAAAGTTAACGTTGATCCAA
* * * *
4720506 CTCTTTCTGTGATAGAATCAAGCTAAAAGTTGACGTTGGTCCAA
1 CTCCTTCTGTGATAGAATCAAGCGAAAAGTTAACGTTGATCCAA
4720550 CTCCTTCTG
1 CTCCTTCTG
4720559 CGATGCATTT
Statistics
Matches: 105, Mismatches: 34, Indels: 8
0.71 0.23 0.05
Matches are distributed among these distances:
43 1 0.01
44 49 0.47
45 47 0.45
46 7 0.07
47 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.32
Consensus pattern (44 bp):
CTCCTTCTGTGATAGAATCAAGCGAAAAGTTAACGTTGATCCAA
Found at i:4720799 original size:133 final size:132
Alignment explanation
Indices: 4720335--4721594 Score: 1400
Period size: 133 Copynumber: 9.5 Consensus size: 132
4720325 CCATCTTGGA
* * * *
4720335 GTGATGGTAATCGAATGATATGTCGATG-TCGATCTGCCTCCTTCTGTGATAGAATCAAGCTAAA
1 GTGATGG-AATCGAACGATATGTCGGTGCT-GATCTACCTCCTTCTGTGATAGAATCAA-CAAAA
** *
4720399 AGTTGACGTTGATCCAACTCCTTCTATGATGGATTTGAGCGAAAATAAAAATGTCGATCTACCTC
63 AGTTGACGTTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAATAAAAATGTCGATCCACCTC
4720464 CTTCT
128 CTTCT
* ** * * *
4720469 GTGATGGAAATCAAACGATATGTCAATGTTGATCTACCTCTTTCTGTGATAGAATCAAGCTAAAA
1 GTGATGG-AATCGAACGATATGTCGGTGCTGATCTACCTCCTTCTGTGATAGAATCAA-CAAAAA
* * *
4720534 GTTGACGTTGGTCCAACTCCTTCTGCGATGCATTTGAGTGAAAATAAAAAATGTCGATCCACCTC
64 GTTGACGTTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAAT-AAAAATGTCGATCCACCTC
*
4720599 ATTCT
128 CTTCT
* * * * * * * * *
4720604 GTGATGGAATC-AAGCGAAATATTGGTGTTGATATACCTCATTATGTAATAGAATCGAGCAAAAA
1 GTGATGGAATCGAA-CGATATGTCGGTGCTGATCTACCTCCTTCTGTGATAGAATC-AACAAAAA
* * *
4720668 GTTGACGTTGATCCAACTCCTTCTACGATGGATTTGAGCGAAAATAAAAATGTCGAT-CATTCTT
64 GTTGACGTTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAATAAAAATGTCGATCCA-CCTC
*
4720732 ATTCT
128 CTTCT
* * *
4720737 GTGATGGAATCAAACGATATGTCGATGCTAATCTACCTCCTTCTGTGATAGAATCTAACAAAAAG
1 GTGATGGAATCGAACGATATGTCGGTGCTGATCTACCTCCTTCTGTGATAGAATC-AACAAAAAG
* * * *
4720802 TTGACGTTGATCCAACTCCTTCTGCGATGGATTTGAGCG---A-ACAAATGTAGATCCAGCTCTT
65 TTGACGTTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAATAAAAATGTCGATCCACCTCCT
4720863 TCT
130 TCT
* * *
4720866 GTGATGGAATCGAACGATATGTCGGTGCTGATCTATCTCCTTCTGTGATAGAATCGAGCTAAAAG
1 GTGATGGAATCGAACGATATGTCGGTGCTGATCTACCTCCTTCTGTGATAGAATC-AACAAAAAG
* * * * * * *
4720931 TTGACGCTGATCCAACTCATTTTGCGATGGATTTGAGAGAAAATAAAAAAGTCGATCAATCTCCT
65 TTGACGTTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAATAAAAATGTCGATCCACCTCCT
4720996 TCT
130 TCT
* * * *
4720999 GTGATGGAATCGAACG--ATGTCGATGTTGATCTACCTCATTCTGTGATAGAATCAAGCTAAAAG
1 GTGATGGAATCGAACGATATGTCGGTGCTGATCTACCTCCTTCTGTGATAGAATCAA-CAAAAAG
* * * **
4721062 TTGACGATGATCCAACTCCTTCTGCTATGGATTTAAGAAAAAATAAAAAAATGTCGATCCACCTC
65 TTGACGTTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAAT--AAAAATGTCGATCCACCTC
4721127 CTTCT
128 CTTCT
* * * * * * *
4721132 GTGTTGGAATCGAATGAAATGTTGGTGCAGATCTACCTCCTTCTGTGATAGAAACGAGCAAAAAG
1 GTGATGGAATCGAACGATATGTCGGTGCTGATCTACCTCCTTCTGTGATAGAATC-AACAAAAAG
* ** * * * * *
4721197 TTGATGCAGATCCAACTTCTTCTGTGATGGATTTGAGCG---A-ACAAATGTAGATCCATCTCCT
65 TTGACGTTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAATAAAAATGTCGATCCACCTCCT
4721258 TCT
130 TCT
** * * * *
4721261 GTGATGGAATTAAACGAAATGTTGGTGCTGATCTACCTCCTTTTGTGATAGAATCGAGCAAAAAG
1 GTGATGGAATCGAACGATATGTCGGTGCTGATCTACCTCCTTCTGTGATAGAATC-AACAAAAAG
* * *
4721326 TTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCG-AAATAAAAATGTTGATCCATCTCCT
65 TTGACGTTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAATAAAAATGTCGATCCACCTCCT
4721390 TCT
130 TCT
* * * * * *
4721393 GTGATGGAAACGAACGAGATGTTGGTACTGATCTACCTCCTTCTGTGATAAAATCATGCAAAAAG
1 GTGATGGAATCGAACGATATGTCGGTGCTGATCTACCTCCTTCTGTGATAGAATCA-ACAAAAAG
* * * *
4721458 TTGACGTTGATCCAACTCCTTATGGGATAGATTTGAGCGAAAATAAAAATGTCAATCCACCTCCT
65 TTGACGTTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAATAAAAATGTCGATCCACCTCCT
4721523 TCT
130 TCT
* *
4721526 GTGATGGAATCGAACGAGGTAT-T-GGTGCTGATCTACCTCTTTCTGTGATAGAATCAAGCTAAA
1 GTGATGGAATCGAACGA--TATGTCGGTGCTGATCTACCTCCTTCTGTGATAGAATCAA-CAAAA
4721589 AGTTGA
63 AGTTGA
4721595 ACAATTTCTT
Statistics
Matches: 966, Mismatches: 135, Indels: 51
0.84 0.12 0.04
Matches are distributed among these distances:
129 223 0.23
130 4 0.00
131 80 0.08
132 117 0.12
133 259 0.27
134 182 0.19
135 100 0.10
136 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (132 bp):
GTGATGGAATCGAACGATATGTCGGTGCTGATCTACCTCCTTCTGTGATAGAATCAACAAAAAGT
TGACGTTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAATAAAAATGTCGATCCACCTCCTT
CT
Found at i:4721199 original size:395 final size:393
Alignment explanation
Indices: 4720335--4721594 Score: 1582
Period size: 395 Copynumber: 3.2 Consensus size: 393
4720325 CCATCTTGGA
* * *
4720335 GTGATGGTAATCGAATGATATGTCGATGTC-GATCTGCCTCCTTCTGTGATAGAATCAAGCTAAA
1 GTGATGG-AATCGAACGATATGTCGATG-CAGATCTACCTCCTTCTGTGATAGAATCAAGCAAAA
* * * *
4720399 AGTTGACGTTGATCCAACTCCTTCTATGATGGATTTGAGCGAAAATAAAAATGTCGATCTACCTC
64 AGTTGACGTTGATCCAACTCCTTCTGTGATGGATTTGAGCG---A-ACAAATGTAGATCCACCTC
** * * *
4720464 CTTCTGTGATGGAAATCAAACGATATGTCAATGTTGATCTACCTCTTTCTGTGATAGAATCAAGC
125 CTTCTGTGATGG-AATCAAACGATATGTCGGTGCTGATCTACCTCCTTCTGTGATAGAATCGAGC
* * * *
4720529 TAAAAGTTGACGTTGGTCCAACTCCTTCTGCGATGCATTTGAGTGAAAATAAAAAATGTCGATCC
189 TAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGAGAAAATAAAAAA-GTCGATCC
* * * * * *
4720594 ACCTCATTCTGTGATGGAATC-AAGCGAAATATTGGTGTTGATATACCTCATTATGTAATAGAAT
253 ATCTCCTTCTGTGATGGAATCGAA-CG--ATGTTGGTGTTGATCTACCTCATTCTGTGATAGAAT
* *
4720658 CGAGCAAAAAGTTGACGTTGATCCAACTCCTTCTACGATGGATTTGAGCGAAAATAAAAATGTCG
315 CAAGCAAAAAGTTGACGTTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAATAAAAATGTCG
* **
4720723 AT-CATTCTTATTCT
380 ATCCA-CCTCCTTCT
*
4720737 GTGATGGAATCAAACGATATGTCGATGCTA-ATCTACCTCCTTCTGTGATAGAATCTAA-CAAAA
1 GTGATGGAATCGAACGATATGTCGATGC-AGATCTACCTCCTTCTGTGATAGAATC-AAGCAAAA
* * *
4720800 AGTTGACGTTGATCCAACTCCTTCTGCGATGGATTTGAGCGAACAAATGTAGATCCAGCTCTTTC
64 AGTTGACGTTGATCCAACTCCTTCTGTGATGGATTTGAGCGAACAAATGTAGATCCACCTCCTTC
* *
4720865 TGTGATGGAATCGAACGATATGTCGGTGCTGATCTATCTCCTTCTGTGATAGAATCGAGCTAAAA
129 TGTGATGGAATCAAACGATATGTCGGTGCTGATCTACCTCCTTCTGTGATAGAATCGAGCTAAAA
* * *
4720930 GTTGACGCTGATCCAACTCATTTTGCGATGGATTTGAGAGAAAATAAAAAAGTCGATCAATCTCC
194 GTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGAGAAAATAAAAAAGTCGATCCATCTCC
* * *
4720995 TTCTGTGATGGAATCGAACGATGTCGATGTTGATCTACCTCATTCTGTGATAGAATCAAGCTAAA
259 TTCTGTGATGGAATCGAACGATGTTGGTGTTGATCTACCTCATTCTGTGATAGAATCAAGCAAAA
* * * **
4721060 AGTTGACGATGATCCAACTCCTTCTGCTATGGATTTAAGAAAAAATAAAAAAATGTCGATCCACC
324 AGTTGACGTTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAAT--AAAAATGTCGATCCACC
4721125 TCCTTCT
387 TCCTTCT
* * * * * * *
4721132 GTGTTGGAATCGAATGAAATGTTGGTGCAGATCTACCTCCTTCTGTGATAGAAACGAGCAAAAAG
1 GTGATGGAATCGAACGATATGTCGATGCAGATCTACCTCCTTCTGTGATAGAATCAAGCAAAAAG
* ** * *
4721197 TTGATGCAGATCCAACTTCTTCTGTGATGGATTTGAGCGAACAAATGTAGATCCATCTCCTTCTG
66 TTGACGTTGATCCAACTCCTTCTGTGATGGATTTGAGCGAACAAATGTAGATCCACCTCCTTCTG
* * * * *
4721262 TGATGGAATTAAACGAAATGTTGGTGCTGATCTACCTCCTTTTGTGATAGAATCGAGCAAAAAGT
131 TGATGGAATCAAACGATATGTCGGTGCTGATCTACCTCCTTCTGTGATAGAATCGAGCTAAAAGT
* * *
4721327 TGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCG-AAATAAAAATGTTGATCCATCTCCTT
196 TGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGAGAAAATAAAAAAGTCGATCCATCTCCTT
* ** * * *
4721391 CTGTGATGGAAACGAACGAGATGTTGGTACTGATCTACCTCCTTCTGTGATAAAATCATGCAAAA
261 CTGTGATGGAATCGAAC--GATGTTGGTGTTGATCTACCTCATTCTGTGATAGAATCAAGCAAAA
* * * *
4721456 AGTTGACGTTGATCCAACTCCTTATGGGATAGATTTGAGCGAAAATAAAAATGTCAATCCACCTC
324 AGTTGACGTTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAATAAAAATGTCGATCCACCTC
4721521 CTTCT
389 CTTCT
* * * *
4721526 GTGATGGAATCGAACGAGGTAT-T-GGTGCTGATCTACCTCTTTCTGTGATAGAATCAAGCTAAA
1 GTGATGGAATCGAACGA--TATGTCGATGCAGATCTACCTCCTTCTGTGATAGAATCAAGCAAAA
4721589 AGTTGA
64 AGTTGA
4721595 ACAATTTCTT
Statistics
Matches: 747, Mismatches: 98, Indels: 34
0.85 0.11 0.04
Matches are distributed among these distances:
393 77 0.10
394 120 0.16
395 251 0.34
396 177 0.24
397 26 0.03
398 1 0.00
400 1 0.00
401 85 0.11
402 9 0.01
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (393 bp):
GTGATGGAATCGAACGATATGTCGATGCAGATCTACCTCCTTCTGTGATAGAATCAAGCAAAAAG
TTGACGTTGATCCAACTCCTTCTGTGATGGATTTGAGCGAACAAATGTAGATCCACCTCCTTCTG
TGATGGAATCAAACGATATGTCGGTGCTGATCTACCTCCTTCTGTGATAGAATCGAGCTAAAAGT
TGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGAGAAAATAAAAAAGTCGATCCATCTCCTT
CTGTGATGGAATCGAACGATGTTGGTGTTGATCTACCTCATTCTGTGATAGAATCAAGCAAAAAG
TTGACGTTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAATAAAAATGTCGATCCACCTCCT
TCT
Found at i:4721205 original size:44 final size:44
Alignment explanation
Indices: 4721117--4721349 Score: 152
Period size: 44 Copynumber: 5.4 Consensus size: 44
4721107 AAAAAATGTC
* * * *** * *
4721117 GATCCACCTCCTTCTGTGTTGGAATCGAATGAAATGTTGGTGCA
1 GATCCAACTCCTTCTGTGATAGAATCGAGCAAAAAGTTGATGCA
* * *
4721161 GATCTACCTCCTTCTGTGATAGAAACGAGCAAAAAGTTGATGCA
1 GATCCAACTCCTTCTGTGATAGAATCGAGCAAAAAGTTGATGCA
* * * *
4721205 GATCCAACTTCTTCTGTGATGGATTTGAGCGAACAAA--TG-T--A
1 GATCCAACTCCTTCTGTGATAGAATCGAGC-AA-AAAGTTGATGCA
* * ** * * * * *
4721246 GATCCATCTCCTTCTGTGATGGAATTAAACGAAATGTTGGTGCT
1 GATCCAACTCCTTCTGTGATAGAATCGAGCAAAAAGTTGATGCA
* * * * *
4721290 GATCTACCTCCTTTTGTGATAGAATCGAGCAAAAAGTTGACGCT
1 GATCCAACTCCTTCTGTGATAGAATCGAGCAAAAAGTTGATGCA
4721334 GATCCAACTCCTTCTG
1 GATCCAACTCCTTCTG
4721350 CGATGGATTT
Statistics
Matches: 144, Mismatches: 38, Indels: 14
0.73 0.19 0.07
Matches are distributed among these distances:
39 2 0.01
40 1 0.01
41 28 0.19
42 1 0.01
43 1 0.01
44 106 0.74
45 2 0.01
46 3 0.02
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.30
Consensus pattern (44 bp):
GATCCAACTCCTTCTGTGATAGAATCGAGCAAAAAGTTGATGCA
Found at i:4721948 original size:37 final size:36
Alignment explanation
Indices: 4721902--4722077 Score: 142
Period size: 37 Copynumber: 5.1 Consensus size: 36
4721892 TGTTTTGAGG
*
4721902 GAAACTGTCTCTAGAGAGACAAAACTTTGTTTCAAGA
1 GAAA-TGTCTCAAGAGAGACAAAACTTTGTTTCAAGA
* *
4721939 GAAATTGTCTCAAGAGAGACGAAA-TTTGTTTCAAGG
1 GAAA-TGTCTCAAGAGAGACAAAACTTTGTTTCAAGA
** * *
4721975 GAAA-----C-A-A-ATTCAAAGATTTTGTTTCAAGG
1 GAAATGTCTCAAGAGAGACAAA-ACTTTGTTTCAAGA
4722004 GAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAA-A
1 GAAA-TGTCTCAAGAGAGACAAAACTTTGTTTCAAGA
* * *
4722040 -AAATGTCTCAAGCGAGA-TAAACTTTGTTTCAAAA
1 GAAATGTCTCAAGAGAGACAAAACTTTGTTTCAAGA
4722074 GAAA
1 GAAA
4722078 CTGACTCAGG
Statistics
Matches: 113, Mismatches: 13, Indels: 28
0.73 0.08 0.18
Matches are distributed among these distances:
27 4 0.04
28 2 0.02
29 17 0.15
30 1 0.01
33 14 0.12
34 14 0.12
35 7 0.06
36 16 0.14
37 33 0.29
38 5 0.04
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.27
Consensus pattern (36 bp):
GAAATGTCTCAAGAGAGACAAAACTTTGTTTCAAGA
Found at i:4722067 original size:33 final size:34
Alignment explanation
Indices: 4722009--4722073 Score: 105
Period size: 33 Copynumber: 1.9 Consensus size: 34
4721999 CAAGGGAAAC
4722009 TGTCTCAAGAGAGACAAAACTTTGTTTCAAAAAA
1 TGTCTCAAGAGAGACAAAACTTTGTTTCAAAAAA
* *
4722043 TGTCTCAAGCGAGA-TAAACTTTGTTTCAAAA
1 TGTCTCAAGAGAGACAAAACTTTGTTTCAAAA
4722074 GAAACTGACT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 16 0.55
34 13 0.45
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.29
Consensus pattern (34 bp):
TGTCTCAAGAGAGACAAAACTTTGTTTCAAAAAA
Found at i:4722123 original size:98 final size:102
Alignment explanation
Indices: 4721890--4722151 Score: 295
Period size: 102 Copynumber: 2.6 Consensus size: 102
4721880 TCAACTGAGA
*
4721890 TTTGTTTTGAGGGAAACTGTCTCTAGAGAGACAAAACTTTGTTTCAAGAGAAATTGTCTCAAGAG
1 TTTGTTTTGAGGGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAATTGTCTCAAGAG
** *
4721955 AGACGAAATTTGTTTCAAGGGAAACAAATTCAAAGAT
66 AGACGAAATTTGTTTCAAAAGAAACAAACTCAAAGAT
** *
4721992 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAA-A-AAA-TGTCTCAAGCG
1 TTTGTTTTGAGGGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAATTGTCTCAAGAG
* ** * *
4722054 AGA-TAAACTTTGTTTCAAAAGAAACTGACTC-AGGCT
66 AGACGAAA-TTTGTTTCAAAAGAAACAAACTCAAAGAT
* * * * *
4722090 TTTGTTTTGAGAGAAATTGTCTCAAAAGAGACAAAA-TTTGCTTT-GAGTAAAAATTGTCTCAA
1 TTTGTTTTGAGGGAAACTGTCTCAAGAGAGACAAAACTTTG-TTTCAAG-AGAAATTGTCTCAA
4722152 ATTGTTTTTT
Statistics
Matches: 136, Mismatches: 18, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
97 5 0.04
98 40 0.29
99 32 0.24
100 6 0.04
101 9 0.07
102 44 0.32
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.31
Consensus pattern (102 bp):
TTTGTTTTGAGGGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAATTGTCTCAAGAG
AGACGAAATTTGTTTCAAAAGAAACAAACTCAAAGAT
Found at i:4722337 original size:90 final size:90
Alignment explanation
Indices: 4722192--4722468 Score: 407
Period size: 90 Copynumber: 3.1 Consensus size: 90
4722182 CATGAAAATC
* * *
4722192 AGGCTTAGTTTTTAAAA-CTCATTTGAAAACATCCTGC-CCGAGGGTCTTATGGATGGCCCGAAG
1 AGGCTTAGTTTCTAAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAG
*
4722255 GACTTACAAATCAAGAAACCCCTGA
66 GACTTACAAATCAAGAAACCCCCGA
* * ** *
4722280 AGGCTTAATTTCTAAAATCTCATATGAAAACATATTGCACTGAAGGTCTTATGGATGGCCCGGAG
1 AGGCTTAGTTTCTAAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAG
4722345 GACTTACAAATCAAGAAACCCCCGA
66 GACTTACAAATCAAGAAACCCCCGA
* *
4722370 AGGTTTAGTTTCTAAAATCTCATTTGAAAACATCCTGAACTGAAGGTCTTATGGATGGCCCGAAG
1 AGGCTTAGTTTCTAAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAG
**
4722435 GACTTA-AAATCAAGAAACCTTCGA
66 GACTTACAAATCAAGAAACCCCCGA
*
4722459 AGACTTAGTT
1 AGGCTTAGTT
4722469 CATTTGAAAA
Statistics
Matches: 167, Mismatches: 20, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
88 15 0.09
89 41 0.25
90 111 0.66
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.26
Consensus pattern (90 bp):
AGGCTTAGTTTCTAAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAG
GACTTACAAATCAAGAAACCCCCGA
Found at i:4722530 original size:79 final size:79
Alignment explanation
Indices: 4722389--4722547 Score: 230
Period size: 79 Copynumber: 2.0 Consensus size: 79
4722379 TTCTAAAATC
* *
4722389 TCATTTGAAAACATCCTGAACTGAAGGTCTTATGGATGGCCCGAAGGACTTAAAATCAAGAAACC
1 TCATTTGAAAACATCCTGAACTGAAGGTCTTATGAATGACCCGAAGGACTTAAAATCAAGAAACC
**
4722454 TTCGAAGACTTAGT
66 CCCGAAGACTTAGT
* * *
4722468 TCATTTGAAAACATCCTGCACTGAAGGTCTTAT-AATGACCCGAAGGACTTATGAATCGAGAAAC
1 TCATTTGAAAACATCCTGAACTGAAGGTCTTATGAATGACCCGAAGGACTTA-AAATCAAGAAAC
*
4722532 CCCCGAAGGCTTAGT
65 CCCCGAAGACTTAGT
4722547 T
1 T
4722548 TCCTGAAAAA
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
78 16 0.23
79 55 0.77
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (79 bp):
TCATTTGAAAACATCCTGAACTGAAGGTCTTATGAATGACCCGAAGGACTTAAAATCAAGAAACC
CCCGAAGACTTAGT
Found at i:4724553 original size:10 final size:9
Alignment explanation
Indices: 4724514--4724613 Score: 80
Period size: 9 Copynumber: 10.9 Consensus size: 9
4724504 TTTTTGTCTC
4724514 TCTTTTTTCT
1 TCTTTTTT-T
*
4724524 CTCTATTTTT
1 -TCTTTTTTT
*
4724534 TATTTATTTT
1 TCTTT-TTTT
4724544 TCCTTTTTTT
1 T-CTTTTTTT
4724554 TCTTTTTTT
1 TCTTTTTTT
4724563 TC-TTTTTT
1 TCTTTTTTT
4724571 TCTATTTTTT
1 TCT-TTTTTT
*
4724581 TCTTTTATT
1 TCTTTTTTT
*
4724590 T-TTTTTCT
1 TCTTTTTTT
* *
4724598 T-ATTTTCT
1 TCTTTTTTT
4724606 TCTTTTTT
1 TCTTTTTT
4724614 CTGCGTTATC
Statistics
Matches: 74, Mismatches: 10, Indels: 12
0.77 0.10 0.12
Matches are distributed among these distances:
8 21 0.28
9 23 0.31
10 20 0.27
11 10 0.14
ACGTcount: A:0.06, C:0.13, G:0.00, T:0.81
Consensus pattern (9 bp):
TCTTTTTTT
Found at i:4724553 original size:19 final size:18
Alignment explanation
Indices: 4724529--4724581 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
4724519 TTTCTCTCTA
4724529 TTTTTTATTTATTTTTCCTT
1 TTTTTTATTT-TTTTTCC-T
* *
4724549 TTTTTTCTTTTTTTTCTT
1 TTTTTTATTTTTTTTCCT
4724567 TTTTTCTATTTTTTT
1 TTTTT-TATTTTTTT
4724582 CTTTTATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 6 0.21
19 14 0.48
20 9 0.31
ACGTcount: A:0.06, C:0.09, G:0.00, T:0.85
Consensus pattern (18 bp):
TTTTTTATTTTTTTTCCT
Found at i:4724557 original size:52 final size:52
Alignment explanation
Indices: 4724483--4724615 Score: 132
Period size: 52 Copynumber: 2.6 Consensus size: 52
4724473 TGATTGATCG
* *
4724483 ATTTTCTTTCTT-CTTTCATTCTTTTTGTCTCTCTTTTTTCT-CTCTATT-TTTT
1 ATTTTTTTTCTTATTTTC-TTCTTTTT-TCTCT-TTTTTTCTACTCTATTCTTTT
* * * *
4724535 ATTTATTTTTCCTT-TTTT-TTCTTTTTTTTCTTTTTTTCTATTTTTTTCTTTT
1 ATTT-TTTTT-CTTATTTTCTTCTTTTTTCTCTTTTTTTCTACTCTATTCTTTT
4724587 ATTTTTTTTCTTATTTTCTTCTTTTTTCT
1 ATTTTTTTTCTTATTTTCTTCTTTTTTCT
4724616 GCGTTATCAA
Statistics
Matches: 68, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
50 11 0.16
51 17 0.25
52 30 0.44
53 4 0.06
54 6 0.09
ACGTcount: A:0.06, C:0.16, G:0.01, T:0.77
Consensus pattern (52 bp):
ATTTTTTTTCTTATTTTCTTCTTTTTTCTCTTTTTTTCTACTCTATTCTTTT
Found at i:4724559 original size:8 final size:8
Alignment explanation
Indices: 4724548--4724612 Score: 62
Period size: 8 Copynumber: 7.9 Consensus size: 8
4724538 TATTTTTCCT
4724548 TTTTTTTC
1 TTTTTTTC
4724556 TTTTTTTTC
1 -TTTTTTTC
4724565 TTTTTTTC
1 TTTTTTTC
4724573 TATTTTTT-
1 T-TTTTTTC
*
4724581 TCTTTTAT-
1 T-TTTTTTC
4724589 TTTTTTTC
1 TTTTTTTC
*
4724597 TTATTTTC
1 TTTTTTTC
4724605 TTCTTTTT
1 TT-TTTTT
4724613 TCTGCGTTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
7 5 0.10
8 25 0.52
9 18 0.38
ACGTcount: A:0.05, C:0.11, G:0.00, T:0.85
Consensus pattern (8 bp):
TTTTTTTC
Found at i:4724591 original size:22 final size:24
Alignment explanation
Indices: 4724551--4724611 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 24
4724541 TTTTCCTTTT
* *
4724551 TTTTCTTTTTTTTCTTTTTTTC-TA
1 TTTTC-TTCTTTTATTTTTTTCTTA
*
4724575 TTTTTTTCTTTTATTTTTTTTCTTA
1 TTTTCTTCTTTTA-TTTTTTTCTTA
4724600 TTTTCTTCTTTT
1 TTTTCTTCTTTT
4724612 TTCTGCGTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
23 6 0.19
24 12 0.39
25 13 0.42
ACGTcount: A:0.05, C:0.11, G:0.00, T:0.84
Consensus pattern (24 bp):
TTTTCTTCTTTTATTTTTTTCTTA
Found at i:4724597 original size:32 final size:32
Alignment explanation
Indices: 4724501--4724615 Score: 100
Period size: 32 Copynumber: 3.7 Consensus size: 32
4724491 TCTTCTTTCA
*
4724501 TTCTT-TTTGTCTCTCTTTTTTCTCTCTATTTTTT
1 TTCTTATTT-TCT-TCTTTTTTCT-TTTATTTTTT
* * *
4724535 AT-TTA-TTT-TTC-CTTTT-TTTTCTTTTTT
1 TTCTTATTTTCTTCTTTTTTCTTTTATTTTTT
*
4724562 TTCTTTTTTTCTAT-TTTTTTCTTTTATTTTTT
1 TTCTTATTTTCT-TCTTTTTTCTTTTATTTTTT
4724594 TTCTTATTTTCTTCTTTTTTCT
1 TTCTTATTTTCTTCTTTTTTCT
4724616 GCGTTATCAA
Statistics
Matches: 64, Mismatches: 9, Indels: 18
0.70 0.10 0.20
Matches are distributed among these distances:
27 9 0.14
28 3 0.05
29 7 0.11
30 3 0.05
31 7 0.11
32 30 0.47
33 4 0.06
34 1 0.02
ACGTcount: A:0.05, C:0.15, G:0.01, T:0.79
Consensus pattern (32 bp):
TTCTTATTTTCTTCTTTTTTCTTTTATTTTTT
Found at i:4724608 original size:11 final size:10
Alignment explanation
Indices: 4724484--4724615 Score: 85
Period size: 11 Copynumber: 12.6 Consensus size: 10
4724474 GATTGATCGA
4724484 TTTTCTTTCTT
1 TTTTC-TTCTT
*
4724495 CTTTCATTCTT
1 TTTTC-TTCTT
4724506 TTTGTCTCTCTT
1 TTT-TCT-TCTT
*
4724518 TTTTCTCTCTA
1 TTTTCT-TCTT
*
4724529 TTTT-TTATT
1 TTTTCTTCTT
4724538 TATTT-TTCCTT
1 T-TTTCTT-CTT
4724549 TTTT-TTCTT
1 TTTTCTTCTT
4724558 TTTT-TTCTTT
1 TTTTCTTC-TT
4724568 TTTTCTAT-TT
1 TTTTCT-TCTT
*
4724578 TTTTCTTTTAT
1 TTTTCTTCT-T
*
4724589 TTTTTTTCTT
1 TTTTCTTCTT
4724599 ATTTTCTTCTT
1 -TTTTCTTCTT
4724610 TTTTCT
1 TTTTCT
4724616 GCGTTATCAA
Statistics
Matches: 101, Mismatches: 10, Indels: 21
0.77 0.08 0.16
Matches are distributed among these distances:
9 14 0.14
10 33 0.33
11 44 0.44
12 10 0.10
ACGTcount: A:0.05, C:0.16, G:0.01, T:0.78
Consensus pattern (10 bp):
TTTTCTTCTT
Found at i:4724613 original size:18 final size:17
Alignment explanation
Indices: 4724489--4724615 Score: 77
Period size: 17 Copynumber: 7.3 Consensus size: 17
4724479 ATCGATTTTC
*
4724489 TTTCTTCTTTCATTCTTT
1 TTTCTTCTTT-TTTCTTT
4724507 TTGTCTCTCTTTTTTCTCTCT
1 TT-TCT-TCTTTTTTCT-T-T
* * *
4724528 ATT-TT-TTATTTATTT
1 TTTCTTCTTTTTTCTTT
*
4724543 TTCCTT-TTTTTTCTTT
1 TTTCTTCTTTTTTCTTT
4724559 TTT-TTCTTTTTTTCTATT
1 TTTCTTC-TTTTTTCT-TT
4724577 TTT-TTCTTTTATT-TTT
1 TTTCTTCTTTT-TTCTTT
*
4724593 TTTCTTATTTTCTTCTTT
1 TTTCTTCTTTT-TTCTTT
4724611 TTTCT
1 TTTCT
4724616 GCGTTATCAA
Statistics
Matches: 87, Mismatches: 11, Indels: 22
0.73 0.09 0.18
Matches are distributed among these distances:
15 4 0.05
16 18 0.21
17 27 0.31
18 21 0.24
19 8 0.09
20 7 0.08
21 2 0.02
ACGTcount: A:0.06, C:0.16, G:0.01, T:0.78
Consensus pattern (17 bp):
TTTCTTCTTTTTTCTTT
Found at i:4728040 original size:2 final size:2
Alignment explanation
Indices: 4728033--4728074 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
4728023 AAATAGTAAC
* *
4728033 AT AT AT AT AT AT AT AT GT AT GT 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
4728075 TAGCCATGCA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4728253 original size:2 final size:2
Alignment explanation
Indices: 4728246--4728279 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
4728236 CATAAATAAT
*
4728246 TA TA TA TA TA TA TA TA CA 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
4728280 CATTCAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:4728376 original size:31 final size:30
Alignment explanation
Indices: 4728306--4728377 Score: 74
Period size: 31 Copynumber: 2.3 Consensus size: 30
4728296 TTTAATAAAA
* * *
4728306 ATAATAATATGCGTAAATCATATATATATAT
1 ATAAT-ATATGCGTAAATAATAAAAATATAT
4728337 ATATATATATGCGTAAATTAATAAAAATA-ATT
1 ATA-ATATATGCGTAAA-TAATAAAAATATA-T
4728369 ATAATATAT
1 ATAATATAT
4728378 ACATAAAGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
31 21 0.60
32 14 0.40
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.39
Consensus pattern (30 bp):
ATAATATATGCGTAAATAATAAAAATATAT
Found at i:4730192 original size:35 final size:35
Alignment explanation
Indices: 4730150--4730258 Score: 100
Period size: 36 Copynumber: 3.1 Consensus size: 35
4730140 TTCATTTTGG
4730150 TTGGTGGCCAAACTTTGAACATGGGAATTTCATAT
1 TTGGTGGCCAAACTTTGAACATGGGAATTTCATAT
* * *
4730185 TTGGTGG-CTAAC-TTGTACACATTGGAAAATTC-T-T
1 TTGGTGGCCAAACTTTG-A-ACA-TGGGAATTTCATAT
*
4730219 TGGTAGGTGGCCAAACTTTGAACATGGGAATTCCATAT
1 T--T-GGTGGCCAAACTTTGAACATGGGAATTTCATAT
4730257 TT
1 TT
4730259 AATCCATAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 19
0.69 0.08 0.23
Matches are distributed among these distances:
33 3 0.05
34 7 0.12
35 11 0.19
36 17 0.30
37 9 0.16
38 7 0.12
39 3 0.05
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.35
Consensus pattern (35 bp):
TTGGTGGCCAAACTTTGAACATGGGAATTTCATAT
Found at i:4741053 original size:12 final size:12
Alignment explanation
Indices: 4741021--4741045 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4741011 CAGTAAGTTA
4741021 GAAGTCTACATT
1 GAAGTCTACATT
4741033 GAAGTCTACATT
1 GAAGTCTACATT
4741045 G
1 G
4741046 CAATCTACGG
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:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (12 bp):
GAAGTCTACATT
Found at i:4741598 original size:35 final size:35
Alignment explanation
Indices: 4741556--4741665 Score: 102
Period size: 36 Copynumber: 3.1 Consensus size: 35
4741546 TTCATTTTGG
4741556 TTGGTGGCCAAACTTTGAACATGGGAATTTCATAT
1 TTGGTGGCCAAACTTTGAACATGGGAATTTCATAT
* * *
4741591 TTGGTGG-CTAAC-TTGTACACATTGGAAAATTC-T-T
1 TTGGTGGCCAAACTTTG-A-ACA-TGGGAATTTCATAT
*
4741625 TGGTAGGTGGCCAAACTTTGAACATGGGAATTCCATAT
1 T--T-GGTGGCCAAACTTTGAACATGGGAATTTCATAT
4741663 TTG
1 TTG
4741666 ATTCCTAAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 20
0.68 0.08 0.24
Matches are distributed among these distances:
33 3 0.05
34 7 0.12
35 12 0.21
36 17 0.29
37 9 0.16
38 7 0.12
39 3 0.05
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.35
Consensus pattern (35 bp):
TTGGTGGCCAAACTTTGAACATGGGAATTTCATAT
Found at i:4751144 original size:5 final size:5
Alignment explanation
Indices: 4751136--4751165 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
4751126 TTTGGGCATA
4751136 CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT
4751166 TTATCAAAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
CTTTT
Found at i:4759090 original size:167 final size:170
Alignment explanation
Indices: 4758808--4759144 Score: 653
Period size: 167 Copynumber: 2.0 Consensus size: 170
4758798 AAGGAACCTT
4758808 ATCATCCTCAAAGCCAAGCATATTGAGTCTAAATGCATTGTTTACACCCATTTTATTATCAGGCT
1 ATCATCCTCAAAGCCAAGCATATTGAGTCTAAATGCATTGTTTACACCCATTTTATTATCAGGCT
4758873 TAAAATTGTACTTATTTGCTGGAAAATCATCAGGTTTAGCTTCTAAAATCTCAGGTTCATCAGGC
66 TAAAATTGTACTTATTTGCTGGAAAATCATCAGGTTTAGCTTCTAAAATCTCAGGTTCATCAGGC
4758938 TTAT-A-AAAATCGGGACTTGTCTTTAATCACAGTGACCA
131 TTATAAGAAAATCGGGACTTGTCTTTAATCACAGTGACCA
4758976 ATCAT-CTCAAAGCCAAGCATATTGAGTCTAAATGCATTGTTTACACCCATTTTATTATCAGGCT
1 ATCATCCTCAAAGCCAAGCATATTGAGTCTAAATGCATTGTTTACACCCATTTTATTATCAGGCT
4759040 TAAAATTGTACTTATTTGCTGGAAAATCATCAGGTTTAGCTTCTAAAATCTCAGGTTCATCAGGC
66 TAAAATTGTACTTATTTGCTGGAAAATCATCAGGTTTAGCTTCTAAAATCTCAGGTTCATCAGGC
4759105 TTATAAGAAAATCGGGACTTGTCTTTAATCACAGTGACCA
131 TTATAAGAAAATCGGGACTTGTCTTTAATCACAGTGACCA
4759145 TAACAAGTTT
Statistics
Matches: 167, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
167 128 0.77
168 6 0.04
169 33 0.20
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (170 bp):
ATCATCCTCAAAGCCAAGCATATTGAGTCTAAATGCATTGTTTACACCCATTTTATTATCAGGCT
TAAAATTGTACTTATTTGCTGGAAAATCATCAGGTTTAGCTTCTAAAATCTCAGGTTCATCAGGC
TTATAAGAAAATCGGGACTTGTCTTTAATCACAGTGACCA
Found at i:4760463 original size:14 final size:14
Alignment explanation
Indices: 4760444--4760473 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
4760434 CTTATGTTAT
4760444 CCTTCAAGCTTCCA
1 CCTTCAAGCTTCCA
4760458 CCTTCAAGCTTCCA
1 CCTTCAAGCTTCCA
4760472 CC
1 CC
4760474 CATGGTTCCA
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:0.20, C:0.47, G:0.07, T:0.27
Consensus pattern (14 bp):
CCTTCAAGCTTCCA
Found at i:4768396 original size:158 final size:156
Alignment explanation
Indices: 4768124--4768595 Score: 728
Period size: 158 Copynumber: 3.0 Consensus size: 156
4768114 TATTATGAAT
* * *
4768124 CACTTATATAATAAAATAGGTTAATTATTTAATTTGTTATTACAGCATATTAGGTAAACGCCTAA
1 CACTTATATAATAAAATA-TTTAATTACTTAATTTGTTATTACAACATATTAGGTAAACGCCTAA
* *
4768189 AATGTTACTAAGGATAACATAACCGGTTAATTACTAGAGACATTATCAAGCATAATAACATATTA
65 AATGTTACCAAGGATAACATAACCGGTTAATTACTAGAAACATTATCAAGCATAATAACATATTA
4768254 GGTAACGTTTATATAACGTAATAGGTAG
130 GGTAA-GTTTATATAACGTAATAGGTAG
* *
4768282 CACTTATATAATAAAATATATTAATTACATAATTTGTTATTACAACATATTAGGTAAACGCTTAA
1 CACTTATATAATAAAATAT-TTAATTACTTAATTTGTTATTACAACATATTAGGTAAACGCCTAA
* * * *
4768347 AATGTTACCAAGGATAACATAACCGGTTATTTACTGGAAATATTATCAAGCACAATAACATATTA
65 AATGTTACCAAGGATAACATAACCGGTTAATTACTAGAAACATTATCAAGCATAATAACATATTA
*
4768412 GGTAGTGTTTATATAACGTAATAGGTAG
130 GGTA-AGTTTATATAACGTAATAGGTAG
* *
4768440 CGCTTATATAATAAAATAGTTTAATTACTTAATTTGTTATTACAACATATTAGGTAATCGCCTAA
1 CACTTATATAATAAAATA-TTTAATTACTTAATTTGTTATTACAACATATTAGGTAAACGCCTAA
* *
4768505 AATGTTACCAAGTATAACATAACCGGTTAATTACTTGAAACATTATCAAGCATAATAACATATTA
65 AATGTTACCAAGGATAACATAACCGGTTAATTACTAGAAACATTATCAAGCATAATAACATATTA
* *
4768570 GGTAGAGCTTATGTAACGTAATAGGT
130 GGTA-AGTTTATATAACGTAATAGGT
4768596 TGTGCATTAT
Statistics
Matches: 287, Mismatches: 24, Indels: 6
0.91 0.08 0.02
Matches are distributed among these distances:
158 286 1.00
159 1 0.00
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.34
Consensus pattern (156 bp):
CACTTATATAATAAAATATTTAATTACTTAATTTGTTATTACAACATATTAGGTAAACGCCTAAA
ATGTTACCAAGGATAACATAACCGGTTAATTACTAGAAACATTATCAAGCATAATAACATATTAG
GTAAGTTTATATAACGTAATAGGTAG
Found at i:4768436 original size:23 final size:23
Alignment explanation
Indices: 4768401--4768450 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
4768391 ATCAAGCACA
* * *
4768401 ATAACATATTAGGTAGTGTTTAT
1 ATAACATAATAGGTAGCGCTTAT
*
4768424 ATAACGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
4768447 ATAA
1 ATAA
4768451 TAAAATAGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.36
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:4771554 original size:198 final size:198
Alignment explanation
Indices: 4770806--4771682 Score: 1239
Period size: 198 Copynumber: 4.4 Consensus size: 198
4770796 CGTAATTTAA
* * * * *
4770806 AAAAAATATCGATACGAATTTAAAAAGTTTCGATACATTATGTTA-ACCTATTTTCTAATTAAAT
1 AAAAAGTATCGACACAAATTTAAAAAGTATCGATACATTATG-TAGACCTATTTTCTAA-TAAAC
*
4770870 CGGCATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATGTT
64 CGGTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATGTT
* *
4770935 TTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGCATTCATT
129 TTTGGGATCGATACATTT-ATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATT
4771000 CTGGAC
193 CTGGAC
* * *
4771006 AAAAAGTATCGACAC-AATTTAAAAATGTATTGATACATTATGTTGACCTATTTTCTAATTAACC
1 AAAAAGTATCGACACAAATTTAAAAA-GTATCGATACATTATGTAGACCTATTTTCTAATAAACC
*
4771070 GGTATATTTCTACCGGTTACATTGTAAATTTACCTATTATATTATAATTATGGGTTTCGATGTTT
65 GGTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTT
* * ** * *
4771135 TTTGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCA-CTCGTTTAGCGTTTATTC
130 TTGGGATCGATACATTT-ATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTC
4771199 TGGA-
194 TGGAC
* * * *
4771203 AAAAAGGTATCGACACAAA-TTAAAAAGTATCGATACATTATGTTGACATATTTTCTAATTAACA
1 AAAAA-GTATCGACACAAATTTAAAAAGTATCGATACATTATGTAGACCTATTTTCTAATAAACC
* * *
4771267 GGTATATTTCTATCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTTGATGTTT
65 GGTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTT
* *
4771332 TTGGGATCGATACAATTT-TAAATGTATCAACACTTTATGCGTGCACCTCGTTGGGCATTCATTA
130 TTGGGATCGATAC-ATTTATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTC
4771396 TGGAC
194 TGGAC
* * *
4771401 AAAAAATATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAACC
1 AAAAAGTATCGACACAAATTTAAAAAGTATCGATACATTATGTAGACCTATTTTCTAAT-AAACC
* *
4771466 GGTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATAGGTTTTGAT-TTT
65 GGTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTT
*
4771530 TTGGGATCGATACAATTT-TAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGTATTCATTC
130 TTGGGATCGATAC-ATTTATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTC
*
4771594 TAGAC
194 TGGAC
* ** * * *
4771599 AAAAAGTATCGACACAGATTTCGAAAGTGTCTATACATTATGTAGACCTATTTTCTCATAAAACC
1 AAAAAGTATCGACACAAATTTAAAAAGTATCGATACATTATGTAGACCTATTTTCTAAT-AAACC
*
4771664 GGTATATTTCTTCCGGTTA
65 GGTATATTTCTACCGGTTA
4771683 TGGATCGATA
Statistics
Matches: 621, Mismatches: 47, Indels: 20
0.90 0.07 0.03
Matches are distributed among these distances:
196 26 0.04
197 142 0.23
198 226 0.36
199 187 0.30
200 40 0.06
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (198 bp):
AAAAAGTATCGACACAAATTTAAAAAGTATCGATACATTATGTAGACCTATTTTCTAATAAACCG
GTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTT
TGGGATCGATACATTTATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTCTG
GAC
Found at i:4771986 original size:181 final size:181
Alignment explanation
Indices: 4771679--4772257 Score: 978
Period size: 181 Copynumber: 3.2 Consensus size: 181
4771669 ATTTCTTCCG
* * * *
4771679 GTTATGGATCGATACATTTTTATTTGTATGGACACTTTATTGGCGTTATTACTGCTTCTCTTTTA
1 GTTATGGATCGATACATTTTTATTTGTATCGATACTTTATAGGCGCTATTACTGCTTCTCTTTTA
* *
4771744 AATTCCAAAAGTATTGATACTTATTTCAATGGAATCAATACTTTCAACATATTATGTAGCACTTT
66 AATTCCAAAAGTATTGATACTTATTTCAATAGAATCAATACTTTCAACATATTAGGTAGCACTTT
4771809 ACCGATTTTGTCATAATGAAACCGGTTTGGTCATATTTTACCTGTTATATT
131 ACCGATTTTGTCATAATGAAACCGGTTTGGTCATATTTTACCTGTTATATT
4771860 GTTATGGATCGATACATTTTTATTTGTATCGATACTTTATAGGCGCTATTACTGCTTCTCTTTTA
1 GTTATGGATCGATACATTTTTATTTGTATCGATACTTTATAGGCGCTATTACTGCTTCTCTTTTA
* * * *
4771925 AATTCCAAAAGTGTTGATACTTATTTTAATTGAATCGATACTTTCAACATATTAGGTAGCACTTT
66 AATTCCAAAAGTATTGATACTTATTTCAATAGAATCAATACTTTCAACATATTAGGTAGCACTTT
* *
4771990 ACCGGTTTTGTCATAATGAAACCGGTTTGGTCATATTTTACATGTTATATT
131 ACCGATTTTGTCATAATGAAACCGGTTTGGTCATATTTTACCTGTTATATT
*
4772041 GTTATGGATCGATACATTTTTATTTGTATCGATACTTTATAGGCGCTATTACTACTTCTCTTTTA
1 GTTATGGATCGATACATTTTTATTTGTATCGATACTTTATAGGCGCTATTACTGCTTCTCTTTTA
* **
4772106 AATTCCAAAAGTATTGATACTTATTTCAATAGAATCAATACTTTCAACATATTAGGTATCGTTTT
66 AATTCCAAAAGTATTGATACTTATTTCAATAGAATCAATACTTTCAACATATTAGGTAGCACTTT
* *
4772171 ACCGATTTTGTCATAATGAAACCGATTTGATCATATTTTTACCTGTTATATT
131 ACCGATTTTGTCATAATGAAACCGGTTTGGTCATA-TTTTACCTGTTATATT
*
4772223 ATTATGGATCGATACATTTTTATTTGTATCGATAC
1 GTTATGGATCGATACATTTTTATTTGTATCGATAC
4772258 ATACCGACAA
Statistics
Matches: 373, Mismatches: 24, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
181 324 0.87
182 49 0.13
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.44
Consensus pattern (181 bp):
GTTATGGATCGATACATTTTTATTTGTATCGATACTTTATAGGCGCTATTACTGCTTCTCTTTTA
AATTCCAAAAGTATTGATACTTATTTCAATAGAATCAATACTTTCAACATATTAGGTAGCACTTT
ACCGATTTTGTCATAATGAAACCGGTTTGGTCATATTTTACCTGTTATATT
Found at i:4772904 original size:21 final size:21
Alignment explanation
Indices: 4772875--4772914 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4772865 TGGTAAAAAA
*
4772875 ATTTTTACTTAAAACATTATT
1 ATTTCTACTTAAAACATTATT
*
4772896 ATTTCTACTTAAAATATTA
1 ATTTCTACTTAAAACATTA
4772915 ATGTTTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (21 bp):
ATTTCTACTTAAAACATTATT
Found at i:4773488 original size:21 final size:21
Alignment explanation
Indices: 4773462--4773621 Score: 172
Period size: 21 Copynumber: 7.7 Consensus size: 21
4773452 GTTTCCAGAT
*
4773462 TCGCAACGCGAACTTCGACTA
1 TCGCAATGCGAACTTCGACTA
4773483 TCGCAATGCGAACTTCGACTA
1 TCGCAATGCGAACTTCGACTA
*
4773504 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTCGACTA
* *
4773525 TCGCAATGC-AAATAT-GTA-AA
1 TCGCAATGCGAACT-TCG-ACTA
*
4773545 TCGCAATGCGAA-TAT-GTA-AA
1 TCGCAATGCGAACT-TCG-ACTA
*
4773565 TCGCAATGCGATA-GTCGACTA
1 TCGCAATGCGA-ACTTCGACTA
4773586 TCGCAATGCGAACTTCGACTA
1 TCGCAATGCGAACTTCGACTA
4773607 TCGCAATGCGAACTT
1 TCGCAATGCGAACTT
4773622 GCGAACTTGG
Statistics
Matches: 125, Mismatches: 7, Indels: 14
0.86 0.05 0.10
Matches are distributed among these distances:
20 36 0.29
21 89 0.71
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (21 bp):
TCGCAATGCGAACTTCGACTA
Found at i:4773574 original size:20 final size:20
Alignment explanation
Indices: 4773524--4773575 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
4773514 AACTTGGACT
*
4773524 ATCGCAATGCAAATATGTAA
1 ATCGCAATGCGAATATGTAA
4773544 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
4773564 ATCGCAATGCGA
1 ATCGCAATGCGA
4773576 TAGTCGACTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.23
Consensus pattern (20 bp):
ATCGCAATGCGAATATGTAA
Found at i:4773583 original size:82 final size:87
Alignment explanation
Indices: 4773482--4773673 Score: 252
Period size: 82 Copynumber: 2.2 Consensus size: 87
4773472 AACTTCGACT
* * *
4773482 ATCGCAATGCGA-ACTTCGACTATCGCAATGCGAACTTGGACTATCGCAATGC-AA-AT-A-TGT
1 ATCGCAATGCGATA-GTCGACTATCGCAATGCGAACTTCGACTATCGCAATGCGAACATGACTGG
4773542 A-AATCGCAATGCGAATATGTAA
65 ACAATCGCAATGCGAATATGTAA
*
4773564 ATCGCAATGCGATAGTCGACTATCGCAATGCGAACTTCGACTATCGCAATGCGAACTTGCGAACT
1 ATCGCAATGCGATAGTCGACTATCGCAATGCGAACTTCGACTATCGCAATGCGAACAT--G-AC-
*
4773629 TGGACTATCGCAATGCGAATATGTAA
62 TGGACAATCGCAATGCGAATATGTAA
4773655 ATCGCAATGCGATAGTCGA
1 ATCGCAATGCGATAGTCGA
4773674 AGTTCGCGTT
Statistics
Matches: 95, Mismatches: 5, Indels: 11
0.86 0.05 0.10
Matches are distributed among these distances:
82 48 0.51
83 3 0.03
84 1 0.01
88 1 0.01
90 3 0.03
91 39 0.41
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (87 bp):
ATCGCAATGCGATAGTCGACTATCGCAATGCGAACTTCGACTATCGCAATGCGAACATGACTGGA
CAATCGCAATGCGAATATGTAA
Found at i:4773634 original size:29 final size:29
Alignment explanation
Indices: 4773592--4773647 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
4773582 ACTATCGCAA
4773592 TGCGAACTTCGACTATCGCAATGCGAACT
1 TGCGAACTTCGACTATCGCAATGCGAACT
*
4773621 TGCGAACTTGGACTATCGCAATGCGAA
1 TGCGAACTTCGACTATCGCAATGCGAA
4773648 TATGTAAATC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (29 bp):
TGCGAACTTCGACTATCGCAATGCGAACT
Found at i:4773686 original size:21 final size:21
Alignment explanation
Indices: 4773656--4773730 Score: 98
Period size: 21 Copynumber: 3.6 Consensus size: 21
4773646 AATATGTAAA
*
4773656 TCGCAATGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCGAAGT
* *
4773677 TCGCGTTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCGAAGT
*
4773698 TCGCATTGCGATAGTCG-ACT
1 TCGCATTGCGATAGTCGAAGT
4773718 ATCGCATTGCGAT
1 -TCGCATTGCGAT
4773731 TTATTCCAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
20 2 0.04
21 45 0.96
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.28
Consensus pattern (21 bp):
TCGCATTGCGATAGTCGAAGT
Found at i:4773728 original size:42 final size:43
Alignment explanation
Indices: 4773656--4773755 Score: 109
Period size: 42 Copynumber: 2.4 Consensus size: 43
4773646 AATATGTAAA
* * * *
4773656 TCGCAATGCGATAGTCGAAGTTCGCGTTGCGA-TAGTCCAAGT
1 TCGCATTGCGATAGTCGAACTTCGCATTGCGATTAGTCCAAAT
*
4773698 TCGCATTGCGATAGTCG-ACTATCGCATTGCGATTTATTCCAAAT
1 TCGCATTGCGATAGTCGAACT-TCGCATTGCGA-TTAGTCCAAAT
4773742 TCG--TTGCGATAGTC
1 TCGCATTGCGATAGTC
4773756 CAAAATCGTA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
41 2 0.04
42 37 0.74
44 11 0.22
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (43 bp):
TCGCATTGCGATAGTCGAACTTCGCATTGCGATTAGTCCAAAT
Found at i:4773884 original size:5 final size:6
Alignment explanation
Indices: 4773854--4773893 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
4773844 TATTACCATT
4773854 ACCACG ACCACG ACCACG ACCACG A-CACG A-CACG A-CACG A
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG A
4773894 GACGGACGGC
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 15 0.44
6 19 0.56
ACGTcount: A:0.38, C:0.45, G:0.17, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:4779137 original size:180 final size:180
Alignment explanation
Indices: 4778833--4779190 Score: 653
Period size: 180 Copynumber: 2.0 Consensus size: 180
4778823 GAATTTTTAA
*
4778833 ATAATTTATTTTTTGGCATTGTATTTTTTTGTCACCACCAACAACCAATCACTTCCTATCACTGA
1 ATAATTTATTTTTTGGCATTGTATTTTTTTGTCACCACCAACAACCAATCACTTCCTATCACTAA
** *
4778898 TCATTTTTCGCAGTAAAATTGGTATTAAAACATTCACATTTCATTCCTCTTTCTTCTCCTAGGAT
66 TCATTTTTCGCAACAAAATTGATATTAAAACATTCACATTTCATTCCTCTTTCTTCTCCTAGGAT
*
4778963 TAGTTCTCCGCGAAACTCACAATATAATCCTAAAGCCATAAGTACTCACG
131 TAGTTCTCCACGAAACTCACAATATAATCCTAAAGCCATAAGTACTCACG
*
4779013 ATAATTTATTTTTTGGCATTGTATTTTTTTGTCACCACCAACAGCCAATCACTTCCTATCACTAA
1 ATAATTTATTTTTTGGCATTGTATTTTTTTGTCACCACCAACAACCAATCACTTCCTATCACTAA
*
4779078 TCATTTTTCGCAACAAAATTGATATTAAAACATTCACATTTCATTCCTCTTTTTTCTCCTAGGAT
66 TCATTTTTCGCAACAAAATTGATATTAAAACATTCACATTTCATTCCTCTTTCTTCTCCTAGGAT
4779143 TAGTTCTCCACGAAACTCACAATATAATCCTAAAGCCATAAGTACTCA
131 TAGTTCTCCACGAAACTCACAATATAATCCTAAAGCCATAAGTACTCA
4779191 TAGATATGAG
Statistics
Matches: 171, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
180 171 1.00
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.37
Consensus pattern (180 bp):
ATAATTTATTTTTTGGCATTGTATTTTTTTGTCACCACCAACAACCAATCACTTCCTATCACTAA
TCATTTTTCGCAACAAAATTGATATTAAAACATTCACATTTCATTCCTCTTTCTTCTCCTAGGAT
TAGTTCTCCACGAAACTCACAATATAATCCTAAAGCCATAAGTACTCACG
Found at i:4784315 original size:22 final size:23
Alignment explanation
Indices: 4784290--4784333 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
4784280 TTTTTTATTA
*
4784290 CAAAT-AAACTCTAATTTAATCT
1 CAAATAAAACTATAATTTAATCT
4784312 CAAATAAAACTATAATTTAATC
1 CAAATAAAACTATAATTTAATC
4784334 GTATAACCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (23 bp):
CAAATAAAACTATAATTTAATCT
Found at i:4784495 original size:31 final size:30
Alignment explanation
Indices: 4784446--4784522 Score: 95
Period size: 31 Copynumber: 2.6 Consensus size: 30
4784436 GTGACCAAAA
* **
4784446 TATAAATTTTG-AAAGTTTAGTGTTTAAAG
1 TATAAATTTTGAAAAGTTTAGGGACTAAAG
4784475 TATAAATTTTGGAAAAGTTTAGGGACTAAAG
1 TATAAATTTT-GAAAAGTTTAGGGACTAAAG
*
4784506 TAT-AATTTTAAAAAGTT
1 TATAAATTTTGAAAAGTT
4784523 ATGCAATCCG
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
29 17 0.40
30 7 0.17
31 18 0.43
ACGTcount: A:0.42, C:0.01, G:0.17, T:0.40
Consensus pattern (30 bp):
TATAAATTTTGAAAAGTTTAGGGACTAAAG
Found at i:4787019 original size:65 final size:64
Alignment explanation
Indices: 4786896--4787060 Score: 177
Period size: 65 Copynumber: 2.5 Consensus size: 64
4786886 TTTCAAAGAG
* * * ** * *
4786896 ATGTACCGATGCACTAGTCCATGCATCGATGCACTCTCAAATAAATTGAATTTTGAATGCATTTA
1 ATGTACCGATGCACTA-TCTATGCATCGATGCACTCTCAAACAAATAGAACATCGAATGCATTCA
* * * **
4786961 GTGTACCGATGCACTCTCTATGCATCAATGCACTCTTGAACAAATAGAAACATCGAATGCATTCA
1 ATGTACCGATGCACTATCTATGCATCGATGCACTCTCAAACAAATAG-AACATCGAATGCATTCA
* * *
4787026 ATGCACCGATGCACAAGCTATGCATCGATGCACTC
1 ATGTACCGATGCACTATCTATGCATCGATGCACTC
4787061 AGGCTATTTT
Statistics
Matches: 81, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
64 25 0.31
65 56 0.69
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.27
Consensus pattern (64 bp):
ATGTACCGATGCACTATCTATGCATCGATGCACTCTCAAACAAATAGAACATCGAATGCATTCA
Found at i:4791975 original size:20 final size:20
Alignment explanation
Indices: 4791950--4791997 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
4791940 GAGATGTACT
4791950 GATGCACTAGTCCATGCATC
1 GATGCACTAGTCCATGCATC
4791970 GATGCACTAGTCCATGCATC
1 GATGCACTAGTCCATGCATC
*
4791990 GATACACT
1 GATGCACT
4791998 CTCAATTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (20 bp):
GATGCACTAGTCCATGCATC
Found at i:4795401 original size:2 final size:2
Alignment explanation
Indices: 4795394--4795446 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
4795384 ACTTTAATAG
4795394 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4795436 TA TA TA TA TA T
1 TA TA TA TA TA T
4795447 GAGATAAGAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4802864 original size:24 final size:23
Alignment explanation
Indices: 4802837--4802883 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
4802827 TGGAGAAGTA
*
4802837 TATTAAATATCAATAACATCGGAT
1 TATTAAATAT-AACAACATCGGAT
* *
4802861 TATTAATTATAACCACATCGGAT
1 TATTAAATATAACAACATCGGAT
4802884 CGGTTCTTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.34
Consensus pattern (23 bp):
TATTAAATATAACAACATCGGAT
Found at i:4813335 original size:32 final size:32
Alignment explanation
Indices: 4813298--4813375 Score: 138
Period size: 33 Copynumber: 2.4 Consensus size: 32
4813288 TTTTGTTCAA
*
4813298 GTCGGGTTGGGTTTTTTAAGTGTGATATTCGG
1 GTCGGGTCGGGTTTTTTAAGTGTGATATTCGG
4813330 GTCGGGTCGGGGTTTTTTAAGTGTGATATTCGG
1 GTCGGGTC-GGGTTTTTTAAGTGTGATATTCGG
4813363 GTCGGGTCGGGTT
1 GTCGGGTCGGGTT
4813376 CGGGTTTAGG
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
32 12 0.27
33 32 0.73
ACGTcount: A:0.10, C:0.09, G:0.41, T:0.40
Consensus pattern (32 bp):
GTCGGGTCGGGTTTTTTAAGTGTGATATTCGG
Found at i:4814285 original size:19 final size:18
Alignment explanation
Indices: 4814262--4814306 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
4814252 TAAATAAAAA
*
4814262 ATAATATACAAAATCTAAT
1 ATAATATA-AAAATATAAT
*
4814281 TTAATTATAAAAATATAAT
1 ATAA-TATAAAAATATAAT
4814300 ATAATAT
1 ATAATAT
4814307 TTATTATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
18 3 0.14
19 15 0.68
20 4 0.18
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (18 bp):
ATAATATAAAAATATAAT
Found at i:4816088 original size:22 final size:22
Alignment explanation
Indices: 4816062--4816103 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
4816052 AATATTATTA
4816062 TTTCTACCTG-TTTTGTTATTTT
1 TTTCTA-CTGATTTTGTTATTTT
4816084 TTTCTACTGATTTTGTTATT
1 TTTCTACTGATTTTGTTATT
4816104 GTTTGGCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.12, C:0.12, G:0.10, T:0.67
Consensus pattern (22 bp):
TTTCTACTGATTTTGTTATTTT
Found at i:4816153 original size:21 final size:20
Alignment explanation
Indices: 4816129--4816171 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
4816119 GGAAATGTTA
*
4816129 AAAAACATTGATGTTTTAGGT
1 AAAAACA-TAATGTTTTAGGT
*
4816150 AAAAATATAATGTTTTAGGT
1 AAAAACATAATGTTTTAGGT
4816170 AA
1 AA
4816172 TTTTTTATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.44, C:0.02, G:0.16, T:0.37
Consensus pattern (20 bp):
AAAAACATAATGTTTTAGGT
Found at i:4819567 original size:21 final size:21
Alignment explanation
Indices: 4819516--4819568 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
4819506 AGTGACAGTG
* *
4819516 GGGGAATCGATTCTTGTAGCA
1 GGGGAATCGGTTCCTGTAGCA
4819537 GGGGAATCGGTTCCTGTAGCA
1 GGGGAATCGGTTCCTGTAGCA
4819558 GGGGAATCGGT
1 GGGGAATCGGT
4819569 ACCCCTTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.21, C:0.15, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGAATCGGTTCCTGTAGCA
Found at i:4819634 original size:12 final size:12
Alignment explanation
Indices: 4819617--4819653 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
4819607 AATTGTTCAT
*
4819617 TGCTACAGTAAC
1 TGCTACAATAAC
4819629 TGCTACAATAAC
1 TGCTACAATAAC
*
4819641 TACTACAATAAC
1 TGCTACAATAAC
4819653 T
1 T
4819654 TTCGAAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.41, C:0.24, G:0.08, T:0.27
Consensus pattern (12 bp):
TGCTACAATAAC
Found at i:4820102 original size:46 final size:45
Alignment explanation
Indices: 4820039--4820239 Score: 276
Period size: 46 Copynumber: 4.4 Consensus size: 45
4820029 TATAAAATCT
* * *
4820039 CTTACCCTTTATCCCATAAGCTCGTAAGCTTATTTTACCAAAATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
* *
4820084 CTTACCATTTAATACCATAAGCTCGTAAGCTTATTTTATCAATATA
1 CTTACCATTT-ATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
*
4820130 CTTACCATTTATTCCATAAGCTCTTAAGCTTATTTGTACCAATATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTT-TACCAATATA
* * *
4820176 CTTACCATTTATTCAATAAGCTCGTAAGCTTATTTTACCAGTACA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
* * *
4820221 CTTGCCATTTTTTTCATAA
1 CTTACCATTTATTCCATAA
4820240 CCATATACCA
Statistics
Matches: 139, Mismatches: 15, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
45 55 0.40
46 84 0.60
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.40
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
Found at i:4820148 original size:91 final size:91
Alignment explanation
Indices: 4820039--4820239 Score: 278
Period size: 91 Copynumber: 2.2 Consensus size: 91
4820029 TATAAAATCT
* * *
4820039 CTTACCCTTTATCCCATAAGCTCGTAAGCTTATTT-TACCAAAATACTTACCATTTAATACCATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTGTACCAAAATACTTACCATTT-ATACAATA
* *
4820103 AGCTCGTAAGCTTATTTTATCAATATA
65 AGCTCGTAAGCTTATTTTACCAATACA
* * *
4820130 CTTACCATTTATTCCATAAGCTCTTAAGCTTATTTGTACCAATATACTTACCATTTATTCAATAA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTGTACCAAAATACTTACCATTTATACAATAA
*
4820195 GCTCGTAAGCTTATTTTACCAGTACA
66 GCTCGTAAGCTTATTTTACCAATACA
* * *
4820221 CTTGCCATTTTTTTCATAA
1 CTTACCATTTATTCCATAA
4820240 CCATATACCA
Statistics
Matches: 97, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
91 78 0.80
92 19 0.20
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.40
Consensus pattern (91 bp):
CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTGTACCAAAATACTTACCATTTATACAATAA
GCTCGTAAGCTTATTTTACCAATACA
Found at i:4820625 original size:21 final size:22
Alignment explanation
Indices: 4820587--4820627 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
4820577 CGAAATAACA
4820587 TTCATGATAAAAATCATATATG
1 TTCATGATAAAAATCATATATG
*
4820609 TTCATGAT-AACATCATATA
1 TTCATGATAAAAATCATATA
4820628 CAAAAATCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.37
Consensus pattern (22 bp):
TTCATGATAAAAATCATATATG
Found at i:4821387 original size:29 final size:30
Alignment explanation
Indices: 4821320--4821387 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
4821310 AACAACCCAT
* * *
4821320 CAATTTTCCAGAATTTACGAATTGATCTCC
1 CAATTTTTCAAAATTTACGAAATGATCTCC
* *
4821350 CAACTTTTCAAAATTTACGAAATGGTC-CC
1 CAATTTTTCAAAATTTACGAAATGATCTCC
4821379 CAATTTTTC
1 CAATTTTTC
4821388 TAAGACTTGT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 10 0.31
30 22 0.69
ACGTcount: A:0.31, C:0.24, G:0.09, T:0.37
Consensus pattern (30 bp):
CAATTTTTCAAAATTTACGAAATGATCTCC
Found at i:4823871 original size:28 final size:26
Alignment explanation
Indices: 4823839--4823951 Score: 115
Period size: 27 Copynumber: 4.3 Consensus size: 26
4823829 TCATCTCTCA
*
4823839 TTTTTTTTCTCTTTTTTTCTTTTCCT
1 TTTTTTTTCTCTTTTTTTCTTTTCTT
* * *
4823865 TTCTTTTTCTATTTTTTTTTTTTTCTT
1 TTTTTTTTCT-CTTTTTTTCTTTTCTT
*
4823892 TTTCTTTT-TCTTTTTTTCTTTT-TT
1 TTTTTTTTCTCTTTTTTTCTTTTCTT
4823916 TCTTTTTCTTCT-TTCTTTTTCTGTTTCTT
1 T-TTTTT-TTCTCTT-TTTTTCT-TTTCTT
4823945 TTTTTTT
1 TTTTTTT
4823952 CTTATATTAT
Statistics
Matches: 71, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
24 3 0.04
25 15 0.21
26 14 0.20
27 28 0.39
28 8 0.11
29 3 0.04
ACGTcount: A:0.01, C:0.15, G:0.01, T:0.83
Consensus pattern (26 bp):
TTTTTTTTCTCTTTTTTTCTTTTCTT
Found at i:4823873 original size:6 final size:6
Alignment explanation
Indices: 4823852--4823951 Score: 106
Period size: 6 Copynumber: 17.7 Consensus size: 6
4823842 TTTTTCTCTT
* *
4823852 TTTTTC -TTTTC -CTTTC TTTTTC TATTT- TTTTT- TTTTTC TTTTTC
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
* *
4823896 TTTTTC TTTTT- TTCTT- TTTTTC TTTTTC TTCTTTC TTTTTC TGTTTC
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TT-TTTC TTTTTC TTTTTC
4823943 TTTTT- TTTT
1 TTTTTC TTTT
4823952 CTTATATTAT
Statistics
Matches: 82, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
5 30 0.37
6 46 0.56
7 6 0.07
ACGTcount: A:0.01, C:0.15, G:0.01, T:0.83
Consensus pattern (6 bp):
TTTTTC
Found at i:4823968 original size:1 final size:1
Alignment explanation
Indices: 4823839--4823951 Score: 55
Period size: 1 Copynumber: 113.0 Consensus size: 1
4823829 TCATCTCTCA
* * * ** * * * * * *
4823839 TTTTTTTTCTCTTTTTTTCTTTTCCTTTCTTTTTCTATTTTTTTTTTTTTCTTTTTCTTTTTCTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * * * *
4823904 TTTTTCTTTTTTTCTTTTTCTTCTTTCTTTTTCTGTTTCTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
4823952 CTTATATTAT
Statistics
Matches: 76, Mismatches: 36, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
1 76 1.00
ACGTcount: A:0.01, C:0.15, G:0.01, T:0.83
Consensus pattern (1 bp):
T
Found at i:4836248 original size:12 final size:12
Alignment explanation
Indices: 4836189--4836261 Score: 74
Period size: 12 Copynumber: 6.1 Consensus size: 12
4836179 AACTGTTCAT
4836189 TGCTACAATAAC
1 TGCTACAATAAC
* * *
4836201 TGTTATAGTAAC
1 TGCTACAATAAC
**
4836213 TGCTACTGTAAC
1 TGCTACAATAAC
**
4836225 TGCTACTGTAAC
1 TGCTACAATAAC
4836237 TGCTACAATAAC
1 TGCTACAATAAC
*
4836249 TACTACAATAAC
1 TGCTACAATAAC
4836261 T
1 T
4836262 TTCGAAAATA
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 52 1.00
ACGTcount: A:0.36, C:0.22, G:0.11, T:0.32
Consensus pattern (12 bp):
TGCTACAATAAC
Found at i:4836260 original size:24 final size:24
Alignment explanation
Indices: 4836189--4836261 Score: 83
Period size: 24 Copynumber: 3.0 Consensus size: 24
4836179 AACTGTTCAT
* *
4836189 TGCTACAATAACTGTTATAGTAAC
1 TGCTACAATAACTGCTACAGTAAC
** *
4836213 TGCTACTGTAACTGCTACTGTAAC
1 TGCTACAATAACTGCTACAGTAAC
* *
4836237 TGCTACAATAACTACTACAATAAC
1 TGCTACAATAACTGCTACAGTAAC
4836261 T
1 T
4836262 TTCGAAAATA
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.36, C:0.22, G:0.11, T:0.32
Consensus pattern (24 bp):
TGCTACAATAACTGCTACAGTAAC
Found at i:4836710 original size:46 final size:45
Alignment explanation
Indices: 4836647--4836838 Score: 276
Period size: 46 Copynumber: 4.2 Consensus size: 45
4836637 TATAAAATCT
* * *
4836647 CTTACCCTTTATCCCATAAGCTCGTAAGCTTATTTTACCAAAATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
* * * * *
4836692 CTTACCATTTAATACCATAACCTTGTAAACTTATTTTATCAATATA
1 CTTACCATTT-ATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
4836738 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTGTACCAATATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTT-TACCAATATA
*
4836784 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATACA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
*
4836829 CTTGCCATTT
1 CTTACCATTT
4836839 TTTTTATAAC
Statistics
Matches: 131, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
45 48 0.37
46 83 0.63
ACGTcount: A:0.31, C:0.23, G:0.06, T:0.39
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
Found at i:4836802 original size:91 final size:91
Alignment explanation
Indices: 4836647--4836838 Score: 278
Period size: 91 Copynumber: 2.1 Consensus size: 91
4836637 TATAAAATCT
*
4836647 CTTACCCTTTATCCCATAAGCTCGTAAGCTTATTTTACCAAAATACTTACCATTTAATACCATAA
1 CTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAAAATACTTACCATTTAATACCATAA
* * *
4836712 CCTTGTAAACTTATTTTATCAATATA
66 CCTCGTAAACTTATTTTACCAATACA
* * *
4836738 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTGTACCAATATACTTACCATTT-ATTCCATA
1 CTTACCATTTATCCCATAAGCTCGTAAGCTTATTT-TACCAAAATACTTACCATTTAATACCATA
* *
4836802 AGCTCGTAAGCTTATTTTACCAATACA
65 ACCTCGTAAACTTATTTTACCAATACA
*
4836829 CTTGCCATTT
1 CTTACCATTT
4836839 TTTTTATAAC
Statistics
Matches: 90, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
91 71 0.79
92 19 0.21
ACGTcount: A:0.31, C:0.23, G:0.06, T:0.39
Consensus pattern (91 bp):
CTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAAAATACTTACCATTTAATACCATAA
CCTCGTAAACTTATTTTACCAATACA
Found at i:4836818 original size:25 final size:25
Alignment explanation
Indices: 4836744--4836818 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
4836734 TATACTTACC
4836744 ATTTATTCCATAAGCTCGTAAGCTT
1 ATTTATTCCATAAGCTCGTAAGCTT
* * *
4836769 ATTTGTACCAATATA-CT--T-A-C-C
1 ATTTATTCC-ATA-AGCTCGTAAGCTT
4836790 ATTTATTCCATAAGCTCGTAAGCTT
1 ATTTATTCCATAAGCTCGTAAGCTT
4836815 ATTT
1 ATTT
4836819 TACCAATACA
Statistics
Matches: 36, Mismatches: 6, Indels: 16
0.62 0.10 0.28
Matches are distributed among these distances:
19 1 0.03
20 5 0.14
21 7 0.19
22 2 0.06
23 2 0.06
24 2 0.06
25 11 0.31
26 5 0.14
27 1 0.03
ACGTcount: A:0.29, C:0.20, G:0.09, T:0.41
Consensus pattern (25 bp):
ATTTATTCCATAAGCTCGTAAGCTT
Found at i:4837998 original size:29 final size:30
Alignment explanation
Indices: 4837931--4837998 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
4837921 AACAACCCAT
* * *
4837931 CAATTTTACAGAATTTATGAATTGATCTCC
1 CAATTTTTCAAAATTTATGAAATGATCTCC
* *
4837961 CAACTTTTCAAAATTTATGAAATGGTC-CC
1 CAATTTTTCAAAATTTATGAAATGATCTCC
4837990 CAATTTTTC
1 CAATTTTTC
4837999 TAAGACTTGT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 10 0.31
30 22 0.69
ACGTcount: A:0.32, C:0.19, G:0.09, T:0.40
Consensus pattern (30 bp):
CAATTTTTCAAAATTTATGAAATGATCTCC
Found at i:4839940 original size:2 final size:2
Alignment explanation
Indices: 4839933--4839964 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4839923 ACGTGGAATC
4839933 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
4839965 CCTCTCTCAA
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):
AT
Found at i:4844789 original size:32 final size:32
Alignment explanation
Indices: 4844748--4844820 Score: 94
Period size: 32 Copynumber: 2.3 Consensus size: 32
4844738 TTTTAATACT
*
4844748 ATTTAAGGTACATA-AAGTTTCATTATATTATC
1 ATTTAAGGTACATATAA-TTTCATTATATTATA
* * *
4844780 ATTTAAGGTACTTATAATTTCATTTTGTTATA
1 ATTTAAGGTACATATAATTTCATTATATTATA
4844812 ATTTAAGGT
1 ATTTAAGGT
4844821 TACTCGTTCC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
32 34 0.94
33 2 0.06
ACGTcount: A:0.34, C:0.07, G:0.11, T:0.48
Consensus pattern (32 bp):
ATTTAAGGTACATATAATTTCATTATATTATA
Found at i:4846482 original size:22 final size:20
Alignment explanation
Indices: 4846454--4846495 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
4846444 ACTTAAAATA
4846454 TTTTTTATTAAACTAATATGTG
1 TTTTTTA-TAAA-TAATATGTG
*
4846476 TTTTTTATGAATAATATGTG
1 TTTTTTATAAATAATATGTG
4846496 CTTTAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 3 0.16
22 7 0.37
ACGTcount: A:0.31, C:0.02, G:0.12, T:0.55
Consensus pattern (20 bp):
TTTTTTATAAATAATATGTG
Found at i:4853255 original size:40 final size:39
Alignment explanation
Indices: 4853166--4853255 Score: 99
Period size: 40 Copynumber: 2.3 Consensus size: 39
4853156 AGAAATCGAT
* * **
4853166 AAATCATGAAGTCTTCCTGGTTGGCCTGAAGACGTTGAG
1 AAATCGTGGAGTCTTCCTGGTTGGCCTGAAGACGCCGAG
* *
4853205 AAATCTTGGAGTCTTCCTGGTTTTGCCTGAAGACGCCGAG
1 AAATCGTGGAGTCTTCCTGG-TTGGCCTGAAGACGCCGAG
**
4853245 ATTTCGTGGAG
1 AAATCGTGGAG
4853256 ACTTTAGCCT
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
39 18 0.43
40 24 0.57
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (39 bp):
AAATCGTGGAGTCTTCCTGGTTGGCCTGAAGACGCCGAG
Found at i:4854130 original size:2 final size:2
Alignment explanation
Indices: 4854123--4854176 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
4854113 TTTTATTTGG
4854123 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
4854165 AT AT AT AT AT AT
1 AT AT AT AT AT AT
4854177 TCCATTTTGT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4866381 original size:49 final size:49
Alignment explanation
Indices: 4866319--4866488 Score: 241
Period size: 49 Copynumber: 3.6 Consensus size: 49
4866309 TAAGCAAGGG
4866319 CTATTGGTGTAGTAAGGATAGATAGGTAGTATAAATGTATAATCTATGA
1 CTATTGGTGTAGTAAGGATAGATAGGTAGTATAAATGTATAATCTATGA
*
4866368 CTATTGGTTTAGTAAGGATAGATAGGTAGTATAAATGTATAATCTATGA
1 CTATTGGTGTAGTAAGGATAGATAGGTAGTATAAATGTATAATCTATGA
* *
4866417 CTATTGGTGTAGTAAGGATAGATA---AG--T--A-GCACAATCTATGA
1 CTATTGGTGTAGTAAGGATAGATAGGTAGTATAAATGTATAATCTATGA
4866458 CTATTGGTGTAGTAAGGAT-GTATAGGTAGTA
1 CTATTGGTGTAGTAAGGATAG-ATAGGTAGTA
4866489 CTATAATCTA
Statistics
Matches: 111, Mismatches: 4, Indels: 15
0.85 0.03 0.12
Matches are distributed among these distances:
40 1 0.01
41 33 0.30
42 1 0.01
44 3 0.03
46 2 0.02
49 71 0.64
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.34
Consensus pattern (49 bp):
CTATTGGTGTAGTAAGGATAGATAGGTAGTATAAATGTATAATCTATGA
Found at i:4866400 original size:41 final size:41
Alignment explanation
Indices: 4866355--4866488 Score: 144
Period size: 41 Copynumber: 3.1 Consensus size: 41
4866345 TAGTATAAAT
*
4866355 GTATAATCTATGACTATTGGTTTAGTAAGGATAGATAGGTAGTATAAA
1 GTATAATCTATGACTATTGGTGTAGTAAGGATAGATA-G--G--T--A
*
4866403 TGTATAATCTATGACTATTGGTGTAGTAAGGATAGATAAGTA
1 -GTATAATCTATGACTATTGGTGTAGTAAGGATAGATAGGTA
* *
4866445 GCACAATCTATGACTATTGGTGTAGTAAGGAT-GTATAGGTA
1 GTATAATCTATGACTATTGGTGTAGTAAGGATAG-ATAGGTA
4866486 GTA
1 GTA
4866489 CTATAATCTA
Statistics
Matches: 78, Mismatches: 6, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
40 1 0.01
41 38 0.49
42 1 0.01
44 1 0.01
46 1 0.01
49 36 0.46
ACGTcount: A:0.35, C:0.06, G:0.25, T:0.34
Consensus pattern (41 bp):
GTATAATCTATGACTATTGGTGTAGTAAGGATAGATAGGTA
Found at i:4874198 original size:20 final size:20
Alignment explanation
Indices: 4874171--4874227 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
4874161 CGCGAATTTG
4874171 TAAA-TCGCAACACAGAAGT
1 TAAATTCGCAACACAGAAGT
*
4874190 TAAATTCGCAACACAAAAGT
1 TAAATTCGCAACACAGAAGT
* *
4874210 CAAATTCGCAATACAGAA
1 TAAATTCGCAACACAGAA
4874228 TTCGAGTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 4 0.12
20 29 0.88
ACGTcount: A:0.49, C:0.21, G:0.12, T:0.18
Consensus pattern (20 bp):
TAAATTCGCAACACAGAAGT
Found at i:4874288 original size:24 final size:24
Alignment explanation
Indices: 4874228--4874280 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
4874218 CAATACAGAA
4874228 TTCGAGTATTGACCAAGATCAAAG
1 TTCGAGTATTGACCAAGATCAAAG
* * *
4874252 TCCGGGTATTGACCAAGATCAAAT
1 TTCGAGTATTGACCAAGATCAAAG
4874276 TTCGA
1 TTCGA
4874281 ATACTGACTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (24 bp):
TTCGAGTATTGACCAAGATCAAAG
Found at i:4875264 original size:20 final size:20
Alignment explanation
Indices: 4875220--4875350 Score: 153
Period size: 19 Copynumber: 6.7 Consensus size: 20
4875210 ACTAAAACCT
* *
4875220 GTTGCGAAATT-AAATTCGT
1 GTTGCGAATTTGAAATTCGA
** *
4875239 GTTGCGAATTCAAAAATCGA
1 GTTGCGAATTTGAAATTCGA
4875259 GTTGCGAATTTGAAATTC-A
1 GTTGCGAATTTGAAATTCGA
4875278 GTTGCGAATTTGAAATTC-A
1 GTTGCGAATTTGAAATTCGA
*
4875297 GTTGCGAATTTGAAATTCAGT
1 GTTGCGAATTTGAAATTC-GA
*
4875318 GTTGCGAATTTGGAAA-TCGC
1 GTTGCGAATTT-GAAATTCGA
4875338 GTTGCGAATTTGA
1 GTTGCGAATTTGA
4875351 CTTCTGTGTT
Statistics
Matches: 99, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
19 49 0.49
20 33 0.33
21 13 0.13
22 4 0.04
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.34
Consensus pattern (20 bp):
GTTGCGAATTTGAAATTCGA
Found at i:4875360 original size:40 final size:40
Alignment explanation
Indices: 4875220--4875389 Score: 163
Period size: 40 Copynumber: 4.3 Consensus size: 40
4875210 ACTAAAACCT
* * *
4875220 GTTGCGAAATT-AAATTCGTGTTGCGAATTCAAAAATCGA
1 GTTGCGAATTTGAAATTCGTGTTGCGAATTTAGAAATCGA
*
4875259 GTTGCGAATTTGAAATTC-AGTTGCGAATTT-GAAATTC-A
1 GTTGCGAATTTGAAATTCGTGTTGCGAATTTAGAAA-TCGA
* *
4875297 GTTGCGAATTTGAAATTCAGTGTTGCGAATTTGGAAATCGC
1 GTTGCGAATTTGAAATTC-GTGTTGCGAATTTAGAAATCGA
* * * * *
4875338 GTTGCGAATTTG-ACTTCTGTGTTACG-ATTTACATATTCGC
1 GTTGCGAATTTGAAATTC-GTGTTGCGAATTTAGA-AATCGA
4875378 GTTGCGAATTTG
1 GTTGCGAATTTG
4875390 GAAACTGGGT
Statistics
Matches: 112, Mismatches: 12, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
38 22 0.20
39 27 0.24
40 47 0.42
41 16 0.14
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (40 bp):
GTTGCGAATTTGAAATTCGTGTTGCGAATTTAGAAATCGA
Found at i:4877710 original size:13 final size:13
Alignment explanation
Indices: 4877692--4877718 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4877682 TTACAGACGA
4877692 GCATATGAAGACT
1 GCATATGAAGACT
4877705 GCATATGAAGACT
1 GCATATGAAGACT
4877718 G
1 G
4877719 TTTCAACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (13 bp):
GCATATGAAGACT
Found at i:4877877 original size:3 final size:3
Alignment explanation
Indices: 4877869--4877897 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
4877859 GAATAGGGTT
4877869 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
4877898 TTAGCTCTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:4883793 original size:3 final size:3
Alignment explanation
Indices: 4883785--4883834 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
4883775 ATAAGAATCC
4883785 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
4883833 AT
1 AT
4883835 CCTATTATCT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:4893337 original size:149 final size:149
Alignment explanation
Indices: 4893150--4893613 Score: 831
Period size: 149 Copynumber: 3.1 Consensus size: 149
4893140 GAGTCGAGGG
* * * * *
4893150 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAATATGTGTAAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
4893215 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
4893280 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
*
4893299 TCTACGCGGTCTTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
4893364 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
*
4893429 TATGGCACTACGGTTCAAT
131 TATGGCACTACGGTGCAAT
4893448 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
*
4893513 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATATGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
*
4893578 TATGGCACTACGGTGTAAT
131 TATGGCACTACGGTGCAAT
4893597 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
4893614 TGCAATTATA
Statistics
Matches: 303, Mismatches: 11, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
148 1 0.00
149 302 1.00
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.35
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
TATGGCACTACGGTGCAAT
Found at i:4893614 original size:23 final size:23
Alignment explanation
Indices: 4893581--4893625 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
4893571 ATTATTATAT
* *
4893581 GGCACTACGGTGTAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
*
4893604 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTATACG
4893626 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:4896804 original size:63 final size:63
Alignment explanation
Indices: 4896731--4896870 Score: 208
Period size: 63 Copynumber: 2.2 Consensus size: 63
4896721 TTTGTTGAAG
** * * *
4896731 GTGCATCGATGCATTACTTTTAATACAAACATCGAATGTCGTCAGTGCATCGATGCATAAGGA
1 GTGCATCGATGCATTACTAATAAAACAAACATCGAATGCCCTCAGTGCATCGATGCATAAGGA
* * *
4896794 GTGCATCGATGCATTTCTAATAAAATAAACATCGAATGCCCTCAGTGCATCGATGCATCAGGA
1 GTGCATCGATGCATTACTAATAAAACAAACATCGAATGCCCTCAGTGCATCGATGCATAAGGA
4896857 GTGCATCGATGCAT
1 GTGCATCGATGCAT
4896871 GCCTCCATTA
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
63 69 1.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (63 bp):
GTGCATCGATGCATTACTAATAAAACAAACATCGAATGCCCTCAGTGCATCGATGCATAAGGA
Found at i:4898732 original size:23 final size:23
Alignment explanation
Indices: 4898699--4898743 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
4898689 ATTATTATAT
*
4898699 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
*
4898722 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTATACG
4898744 AGCTGTGGTG
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:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:4898751 original size:149 final size:149
Alignment explanation
Indices: 4898268--4898731 Score: 849
Period size: 149 Copynumber: 3.1 Consensus size: 149
4898258 GAGTCGAGGG
* * *
4898268 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAATATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAATATGTGTGAAGTCTTGAAAGACACAT
4898333 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
4898398 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
* * *
4898417 TCTACGCGGTCTTTCGGGATATATATATATTCTGTGGAACATGTGTGATGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAATATGTGTGAAGTCTTGAAAGACACAT
4898482 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
4898547 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
*
4898566 TCTAAGCGGTCCTTCGGGATATATATATATTCTGTGGAATATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAATATGTGTGAAGTCTTGAAAGACACAT
4898631 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
4898696 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
4898715 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
4898732 TGCAATTATA
Statistics
Matches: 303, Mismatches: 11, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
148 1 0.00
149 302 1.00
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAATATGTGTGAAGTCTTGAAAGACACAT
ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
TATGGCACTACGGTGCAAT
Found at i:4901097 original size:42 final size:42
Alignment explanation
Indices: 4901041--4901137 Score: 106
Period size: 42 Copynumber: 2.3 Consensus size: 42
4901031 AAATTTAAAC
*
4901041 ATTTAATAAGTTTTTATTTT-TTAAAAGATAAATAATTTAATTTA
1 ATTTAAT-A-TTTTTATTTTCCTAAAA-ATAAATAATTTAATTTA
* * * *
4901085 TTTTAATATTTTTATTTTCCTGAAATTATATAATTTAATTTA
1 ATTTAATATTTTTATTTTCCTAAAAATAAATAATTTAATTTA
*
4901127 AATTAATATTT
1 ATTTAATATTT
4901138 GATAATAGTT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
42 34 0.76
43 5 0.11
44 6 0.13
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (42 bp):
ATTTAATATTTTTATTTTCCTAAAAATAAATAATTTAATTTA
Found at i:4908631 original size:19 final size:18
Alignment explanation
Indices: 4908587--4908631 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
4908577 TCTCGAAAAA
4908587 AGTCAACGATCGGTCAAC
1 AGTCAACGATCGGTCAAC
* *
4908605 AGTTAACGATTGGGTCAAC
1 AGTCAACGA-TCGGTCAAC
*
4908624 GGTCAACG
1 AGTCAACG
4908632 GCCAACGGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.31, C:0.22, G:0.27, T:0.20
Consensus pattern (18 bp):
AGTCAACGATCGGTCAAC
Found at i:4909403 original size:10 final size:10
Alignment explanation
Indices: 4909388--4909412 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
4909378 CTTAGCTATA
4909388 TTTTTTTCAT
1 TTTTTTTCAT
4909398 TTTTTTTCAT
1 TTTTTTTCAT
4909408 TTTTT
1 TTTTT
4909413 CTCTACTGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTTTCAT
Found at i:4912320 original size:12 final size:12
Alignment explanation
Indices: 4912299--4912328 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
4912289 AAAAAGTATC
4912299 TTTT-AAAATAA
1 TTTTAAAAATAA
4912310 TTTTAAAAATAA
1 TTTTAAAAATAA
4912322 TTTTAAA
1 TTTTAAA
4912329 GACAAAAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.22
12 14 0.78
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
TTTTAAAAATAA
Found at i:4913156 original size:15 final size:15
Alignment explanation
Indices: 4913136--4913167 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
4913126 ATTTTAAAAT
4913136 ATGAACACTATTTCC
1 ATGAACACTATTTCC
4913151 ATGAACACTATTTCC
1 ATGAACACTATTTCC
4913166 AT
1 AT
4913168 TTAATCACTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.25, G:0.06, T:0.34
Consensus pattern (15 bp):
ATGAACACTATTTCC
Found at i:4913349 original size:29 final size:29
Alignment explanation
Indices: 4913306--4913483 Score: 103
Period size: 29 Copynumber: 6.2 Consensus size: 29
4913296 AATCACTACG
*
4913306 AAAATAGCACAATTTTGAAATTAATTACC
1 AAAATAGCACAATTTTGAAAATAATTACC
* *
4913335 AAAATAGCATC-ATTTTTAAAATAATTACT
1 AAAATAGCA-CAATTTTGAAAATAATTACC
* **
4913364 AAAATATCACTCTTTT-AAAA-AATTTA-C
1 AAAATAGCACAATTTTGAAAATAA-TTACC
* ** * * * *
4913391 AAAATTGTCACTTTTTTAAAAAAAAATACA
1 AAAATAG-CACAATTTTGAAAATAATTACC
* ** *
4913421 AAAATAACACCCTTTTTAAAATAATTACC
1 AAAATAGCACAATTTTGAAAATAATTACC
* * ***
4913450 AGAATAGCACCATTTCCCAAATAATTACC
1 AAAATAGCACAATTTTGAAAATAATTACC
4913479 AAAAT
1 AAAAT
4913484 GTCACCCGGT
Statistics
Matches: 116, Mismatches: 26, Indels: 14
0.74 0.17 0.09
Matches are distributed among these distances:
27 7 0.06
28 16 0.14
29 85 0.73
30 8 0.07
ACGTcount: A:0.49, C:0.16, G:0.03, T:0.32
Consensus pattern (29 bp):
AAAATAGCACAATTTTGAAAATAATTACC
Found at i:4913395 original size:27 final size:28
Alignment explanation
Indices: 4913348--4913413 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
4913338 ATAGCATCAT
4913348 TTTTAAAATAATTACTAAAA-TATCACTC
1 TTTTAAAA-AATTACTAAAATTATCACTC
* *
4913376 TTTTAAAAAATTTAC-AAAATTGTCACTT
1 TTTTAAAAAA-TTACTAAAATTATCACTC
4913404 TTTTAAAAAA
1 TTTTAAAAAA
4913414 AAATACAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 6 0.18
28 28 0.82
ACGTcount: A:0.47, C:0.11, G:0.02, T:0.41
Consensus pattern (28 bp):
TTTTAAAAAATTACTAAAATTATCACTC
Found at i:4913528 original size:18 final size:18
Alignment explanation
Indices: 4913505--4913541 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
4913495 AACTGTCAAC
4913505 GGTCAACGGGTCAGGTCG
1 GGTCAACGGGTCAGGTCG
*
4913523 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCAGGTCG
4913541 G
1 G
4913542 AAACTAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.14, C:0.22, G:0.49, T:0.16
Consensus pattern (18 bp):
GGTCAACGGGTCAGGTCG
Found at i:4919215 original size:117 final size:116
Alignment explanation
Indices: 4919037--4919335 Score: 499
Period size: 117 Copynumber: 2.6 Consensus size: 116
4919027 TGTATATTTT
* * * * * *
4919037 CCAGAAACATACACCCACCAGCACACCAGTAAGGGCTTACCCTAAGCACAAAGCCATGGAGCCTG
1 CCAG-AACATACACCCACCTGCACACCAGTAAGGACTTACCCTGAGCACACAGCAAAGGAGCCTG
4919102 CAGTAATAACTTCCCCATCCAGTCACTCCAATCACTACAATGTGTAGGTTCC
65 CAGTAATAACTTCCCCATCCAGTCACTCCAATCACTACAATGTGTAGGTTCC
4919154 CCAGAACTATACACCCACCTGCACACCAGTAAGGACTTACCCTGAGCACACAGCAAAGGAGCCTG
1 CCAGAAC-ATACACCCACCTGCACACCAGTAAGGACTTACCCTGAGCACACAGCAAAGGAGCCTG
*
4919219 CAGTAATAACTTCCCCATCCAGTCACTCCAATCACTACACTGTGTAGGTTCC
65 CAGTAATAACTTCCCCATCCAGTCACTCCAATCACTACAATGTGTAGGTTCC
*
4919271 CCAGAACCATACACCCACCTACACACCAGTAAGGACTTACCCTGAGCACACAGCAAAGGAGCCTG
1 CCAGAA-CATACACCCACCTGCACACCAGTAAGGACTTACCCTGAGCACACAGCAAAGGAGCCTG
4919336 AAATACTTCC
Statistics
Matches: 172, Mismatches: 8, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
116 3 0.02
117 168 0.98
118 1 0.01
ACGTcount: A:0.32, C:0.35, G:0.16, T:0.17
Consensus pattern (116 bp):
CCAGAACATACACCCACCTGCACACCAGTAAGGACTTACCCTGAGCACACAGCAAAGGAGCCTGC
AGTAATAACTTCCCCATCCAGTCACTCCAATCACTACAATGTGTAGGTTCC
Found at i:4920298 original size:29 final size:29
Alignment explanation
Indices: 4920264--4920448 Score: 137
Period size: 29 Copynumber: 6.4 Consensus size: 29
4920254 CATTTTTTTA
* *
4920264 AATTACAAAAATAGCACCATTTTGAAATT
1 AATTACAAAAATAGCACCATTTTTAAAAT
* * *
4920293 AATTACCAAAATAGCATCATTTTCAAAAT
1 AATTACAAAAATAGCACCATTTTTAAAAT
* *
4920322 AATTACTAAAATATCACTC-TTTTTAAAA-
1 AATTACAAAAATAGCAC-CATTTTTAAAAT
* * *
4920350 AATTTA-AAAAATTGTCA--TTTTTTAAAAAA
1 AA-TTACAAAAATAG-CACCATTTTT-AAAAT
* *
4920379 AAATACAAAAATAGCACTATTTTTAAAAT
1 AATTACAAAAATAGCACCATTTTTAAAAT
* * ***
4920408 AATTACCAGAATAGCACCATTTCCCAAAT
1 AATTACAAAAATAGCACCATTTTTAAAAT
*
4920437 AATTACCAAAAT
1 AATTACAAAAAT
4920449 GTCACTCGGT
Statistics
Matches: 124, Mismatches: 23, Indels: 18
0.75 0.14 0.11
Matches are distributed among these distances:
27 5 0.04
28 15 0.12
29 98 0.79
30 6 0.05
ACGTcount: A:0.49, C:0.15, G:0.04, T:0.32
Consensus pattern (29 bp):
AATTACAAAAATAGCACCATTTTTAAAAT
Found at i:4926194 original size:117 final size:117
Alignment explanation
Indices: 4926024--4926315 Score: 530
Period size: 117 Copynumber: 2.5 Consensus size: 117
4926014 TTTCTTGAAA
* **
4926024 CATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACAAAGCCGAGGAGCCTGCAGTAAT
1 CATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACACAGCAAAGGAGCCTGCAGTAAT
4926089 AACTTCCCCATCCAGTCACTCCAATCACTACAATGTGTACGTTCCCCAGAAC
66 AACTTCCCCATCCAGTCACTCCAATCACTACAATGTGTACGTTCCCCAGAAC
4926141 CATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACACAGCAAAGGAGCCTGCAGTAAT
1 CATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACACAGCAAAGGAGCCTGCAGTAAT
*
4926206 AACTTCCCCATCCAGTCACTCCAATCACTACAATGTGTAGGTTCCCCAGAAC
66 AACTTCCCCATCCAGTCACTCCAATCACTACAATGTGTACGTTCCCCAGAAC
* *
4926258 CATACACCCACCTGCACACCAGTAAGAACTTACCCTGAGCACACAGCAAAGGAGCCTG
1 CATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACACAGCAAAGGAGCCTG
4926316 AAATACTTCC
Statistics
Matches: 169, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
117 169 1.00
ACGTcount: A:0.33, C:0.36, G:0.15, T:0.17
Consensus pattern (117 bp):
CATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACACAGCAAAGGAGCCTGCAGTAAT
AACTTCCCCATCCAGTCACTCCAATCACTACAATGTGTACGTTCCCCAGAAC
Found at i:4927268 original size:23 final size:24
Alignment explanation
Indices: 4927237--4927283 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
4927227 ACCATTTTAA
* *
4927237 GAAATTAACA-TTTTTTAAATTAC
1 GAAAATAACACTTTTTGAAATTAC
4927260 GAAAATAACACCTTTTTGAAATTA
1 GAAAATAACA-CTTTTTGAAATTA
4927284 ATTACCAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
25 11 0.55
ACGTcount: A:0.45, C:0.11, G:0.06, T:0.38
Consensus pattern (24 bp):
GAAAATAACACTTTTTGAAATTAC
Found at i:4927287 original size:29 final size:29
Alignment explanation
Indices: 4927254--4927437 Score: 122
Period size: 29 Copynumber: 6.4 Consensus size: 29
4927244 ACATTTTTTA
* * *
4927254 AATTACGAAAATAACACCTTTTTGAAATT
1 AATTACCAAAATAACACCTTTTTCAAAAT
* * *
4927283 AATTACCAAAATAGCATCATTTTCAAAAT
1 AATTACCAAAATAACACCTTTTTCAAAAT
* * *
4927312 AATTACTAAAATATCA-CTCTTTTAAAAAT
1 AATTACCAAAATAACACCT-TTTTCAAAAT
* * * ** * *
4927341 -TTTACGAAATTGTCA-CTTTTTTAAAAA
1 AATTACCAAAATAACACCTTTTTCAAAAT
* * *
4927368 AATTACAAAAATAGCACCATTTTCAAAAT
1 AATTACCAAAATAACACCTTTTTCAAAAT
* * * * *
4927397 AATTACCATAATAGCACCATTTCCCAAAT
1 AATTACCAAAATAACACCTTTTTCAAAAT
4927426 AATTACCAAAAT
1 AATTACCAAAAT
4927438 GTTACCCGGT
Statistics
Matches: 123, Mismatches: 29, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
27 8 0.07
28 24 0.20
29 91 0.74
ACGTcount: A:0.46, C:0.17, G:0.04, T:0.33
Consensus pattern (29 bp):
AATTACCAAAATAACACCTTTTTCAAAAT
Found at i:4927373 original size:28 final size:28
Alignment explanation
Indices: 4927253--4927380 Score: 94
Period size: 28 Copynumber: 4.5 Consensus size: 28
4927243 AACATTTTTT
* * *
4927253 AAATTACGAAAATAACACCTTTTTGAAAT
1 AAATTACGAAAATATCA-CTTTTTTAAAA
* * * * *
4927282 TAATTACCAAAATAGCATCATTTTCAAAA
1 AAATTACGAAAATATCA-CTTTTTTAAAA
* * *
4927311 TAATTACTAAAATATCACTCTTTTAAAA
1 AAATTACGAAAATATCACTTTTTTAAAA
** * *
4927339 ATTTTACGAAATTGTCACTTTTTTAAAA
1 AAATTACGAAAATATCACTTTTTTAAAA
*
4927367 AAATTACAAAAATA
1 AAATTACGAAAATA
4927381 GCACCATTTT
Statistics
Matches: 75, Mismatches: 24, Indels: 1
0.75 0.24 0.01
Matches are distributed among these distances:
28 38 0.51
29 37 0.49
ACGTcount: A:0.48, C:0.13, G:0.04, T:0.35
Consensus pattern (28 bp):
AAATTACGAAAATATCACTTTTTTAAAA
Found at i:4927476 original size:18 final size:18
Alignment explanation
Indices: 4927453--4927493 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
4927443 CCGGTCAACG
4927453 GTCAACGAGTCGGGTCGA
1 GTCAACGAGTCGGGTCGA
*
4927471 GTCAACGGGTCGGGTCGA
1 GTCAACGAGTCGGGTCGA
4927489 GTCAA
1 GTCAA
4927494 AAACTGGTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.22, C:0.22, G:0.39, T:0.17
Consensus pattern (18 bp):
GTCAACGAGTCGGGTCGA
Found at i:4928500 original size:15 final size:18
Alignment explanation
Indices: 4928476--4928516 Score: 61
Period size: 15 Copynumber: 2.4 Consensus size: 18
4928466 AATAATGATG
4928476 AAAAATAAATATG-A-AT
1 AAAAATAAATATGTATAT
4928492 AAAAA-AAATATGTATAT
1 AAAAATAAATATGTATAT
4928509 AAAAATAA
1 AAAAATAA
4928517 TTTATGCATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 7 0.32
16 6 0.27
17 7 0.32
18 2 0.09
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (18 bp):
AAAAATAAATATGTATAT
Found at i:4932138 original size:17 final size:16
Alignment explanation
Indices: 4932116--4932148 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
4932106 AAACTAATCC
4932116 AAAAAACCGATAACCGA
1 AAAAAACCGA-AACCGA
4932133 AAAAAACCGAAACCGA
1 AAAAAACCGAAACCGA
4932149 TTTAGTGTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.61, C:0.24, G:0.12, T:0.03
Consensus pattern (16 bp):
AAAAAACCGAAACCGA
Found at i:4934206 original size:15 final size:15
Alignment explanation
Indices: 4934186--4934218 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
4934176 ATAATAATAA
4934186 ATAGATTTTACAAAG
1 ATAGATTTTACAAAG
*
4934201 ATAGATTTTACAAGG
1 ATAGATTTTACAAAG
4934216 ATA
1 ATA
4934219 AAGAACCGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.45, C:0.06, G:0.15, T:0.33
Consensus pattern (15 bp):
ATAGATTTTACAAAG
Found at i:4939736 original size:23 final size:22
Alignment explanation
Indices: 4939709--4939879 Score: 158
Period size: 23 Copynumber: 7.8 Consensus size: 22
4939699 ATTGTGATAG
4939709 TCCAAGTTCGCGTTGCGATTTAT
1 TCCAAGTTC-CGTTGCGATTTAT
* *
4939732 TCCAAGTT-CATTGCGA--TAG
1 TCCAAGTTCCGTTGCGATTTAT
*
4939751 TCGAAGTTCACGTTGCGATTTAT
1 TCCAAGTTC-CGTTGCGATTTAT
* *
4939774 TCCAAATT-CGTTGCGA--TAG
1 TCCAAGTTCCGTTGCGATTTAT
*
4939793 TCCAAGTTCGCGTTACGATTTAT
1 TCCAAGTTC-CGTTGCGATTTAT
4939816 TCCAAGTTCTCGTTGCGATTTAT
1 TCCAAGTTC-CGTTGCGATTTAT
* *
4939839 TCCAAATTCGTTGTTGCGATTTAT
1 TCCAAGTTC--CGTTGCGATTTAT
*
4939863 TCCAAATT-CGTTGCGAT
1 TCCAAGTTCCGTTGCGAT
4939880 AATCCAAAAG
Statistics
Matches: 123, Mismatches: 16, Indels: 20
0.77 0.10 0.13
Matches are distributed among these distances:
19 18 0.15
21 37 0.30
23 47 0.38
24 21 0.17
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (22 bp):
TCCAAGTTCCGTTGCGATTTAT
Found at i:4939750 original size:42 final size:42
Alignment explanation
Indices: 4939704--4939886 Score: 231
Period size: 42 Copynumber: 4.2 Consensus size: 42
4939694 TTCGCATTGT
* *
4939704 GATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCATTGC
1 GATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGC
* *
4939746 GATAGTCGAAGTTCACGTTGCGATTTATTCCAAATTCGTTGC
1 GATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGC
* *
4939788 GATAGTCCAAGTTCGCGTTACGATTTATTCCAAGTTCTCGTTGC
1 GATAGTCCAAGTTCGCGTTGCGATTTATTCCAA-AT-TCGTTGC
* * *
4939832 GATTTATTCCAAATTCGTTGTTGCGATTTATTCCAAATTCGTTGC
1 GA--TAGTCCAAGTTCG-CGTTGCGATTTATTCCAAATTCGTTGC
*
4939877 GATAATCCAA
1 GATAGTCCAA
4939887 AAGCGCAACA
Statistics
Matches: 122, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
42 68 0.56
43 8 0.07
44 9 0.07
45 9 0.07
46 12 0.10
47 16 0.13
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.37
Consensus pattern (42 bp):
GATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGC
Found at i:4939759 original size:19 final size:19
Alignment explanation
Indices: 4939698--4939801 Score: 73
Period size: 21 Copynumber: 5.1 Consensus size: 19
4939688 TACATATTCG
*
4939698 CATTGTGATAGTCCAAGTT
1 CATTGCGATAGTCCAAGTT
* *
4939717 CGCGTTGCGATTTATTCCAAGTT
1 --CATTGCGA--TAGTCCAAGTT
*
4939740 CATTGCGATAGTCGAAGTT
1 CATTGCGATAGTCCAAGTT
* *
4939759 CACGTTGCGATTTATTCCAAATT
1 CA--TTGCGA--TAGTCCAAGTT
*
4939782 CGTTGCGATAGTCCAAGTT
1 CATTGCGATAGTCCAAGTT
4939801 C
1 C
4939802 GCGTTACGAT
Statistics
Matches: 65, Mismatches: 12, Indels: 14
0.71 0.13 0.15
Matches are distributed among these distances:
19 21 0.32
21 25 0.38
23 19 0.29
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (19 bp):
CATTGCGATAGTCCAAGTT
Found at i:4940497 original size:6 final size:6
Alignment explanation
Indices: 4940488--4940526 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
4940478 GTCCGTCTCG
4940488 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
4940527 AATACGTGTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.00, C:0.15, G:0.51, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:4940678 original size:42 final size:43
Alignment explanation
Indices: 4940619--4940846 Score: 188
Period size: 42 Copynumber: 5.2 Consensus size: 43
4940609 TGCGATTTTG
4940619 GACTATCGCAA-CGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAAGCGAATTTGGAATAAATCGCAACGCGAACTTC
* *
4940661 GACTATCGCAA-CGAATTTGGAATAAATCGCAATGCGAACTTG
1 GACTATCGCAAGCGAATTTGGAATAAATCGCAACGCGAACTTC
* *
4940703 GACTATCGCAATGCGAATAT-G--TAAATCGCAATGCGATAGTCGAAGTTC
1 GACTATCGCAA-GCGAATTTGGAATAAATCGCAA--C----G-CGAACTTC
4940751 G-CGT-T-GCGATAGTCGAATTTGGAATAAATCGCAACGCGAACTTC
1 GAC-TATCGC-A-AG-CGAATTTGGAATAAATCGCAACGCGAACTTC
* * * * *
4940795 GACTATCGCAATGCCAAGTTGGACT--ATCGTAATGCGAACTTC
1 GACTATCGCAA-GCGAATTTGGAATAAATCGCAACGCGAACTTC
4940837 GACTATCGCA
1 GACTATCGCA
4940847 TTGCGATTTA
Statistics
Matches: 153, Mismatches: 13, Indels: 40
0.74 0.06 0.19
Matches are distributed among these distances:
41 10 0.07
42 76 0.50
43 1 0.01
44 25 0.16
45 5 0.03
46 4 0.03
47 5 0.03
48 15 0.10
49 2 0.01
51 10 0.07
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.24
Consensus pattern (43 bp):
GACTATCGCAAGCGAATTTGGAATAAATCGCAACGCGAACTTC
Found at i:4940710 original size:21 final size:20
Alignment explanation
Indices: 4940616--4940719 Score: 86
Period size: 21 Copynumber: 5.0 Consensus size: 20
4940606 CGTTGCGATT
*
4940616 TTGGACTATCGCAA-CGAAT
1 TTGGACTATCGCAAGCGAAC
*
4940635 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAA-GCGAAC
* *
4940658 TTCGACTATCGCAA-CGAAT
1 TTGGACTATCGCAAGCGAAC
*
4940677 TTGGAATAAATCGCAATGCGAAC
1 TTGGACT--ATCGCAA-GCGAAC
4940700 TTGGACTATCGCAATGCGAA
1 TTGGACTATCGCAA-GCGAA
4940720 TATGTAAATC
Statistics
Matches: 68, Mismatches: 9, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
19 15 0.22
21 34 0.50
23 19 0.28
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (20 bp):
TTGGACTATCGCAAGCGAAC
Found at i:4940732 original size:20 final size:20
Alignment explanation
Indices: 4940683--4940738 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
4940673 GAATTTGGAA
4940683 TAAATCGCAATGCGAACTTG
1 TAAATCGCAATGCGAACTTG
* *
4940703 GACTATCGCAATGCGAA-TATG
1 TA-AATCGCAATGCGAACT-TG
4940724 TAAATCGCAATGCGA
1 TAAATCGCAATGCGA
4940739 TAGTCGAAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
20 14 0.47
21 16 0.53
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (20 bp):
TAAATCGCAATGCGAACTTG
Found at i:4940802 original size:21 final size:21
Alignment explanation
Indices: 4940778--4940852 Score: 96
Period size: 21 Copynumber: 3.6 Consensus size: 21
4940768 TTTGGAATAA
*
4940778 ATCGCAACGCGAACTTCGACT
1 ATCGCAATGCGAACTTCGACT
* * *
4940799 ATCGCAATGCCAAGTTGGACT
1 ATCGCAATGCGAACTTCGACT
*
4940820 ATCGTAATGCGAACTTCGACT
1 ATCGCAATGCGAACTTCGACT
*
4940841 ATCGCATTGCGA
1 ATCGCAATGCGA
4940853 TTTACATATT
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (21 bp):
ATCGCAATGCGAACTTCGACT
Found at i:4940872 original size:134 final size:133
Alignment explanation
Indices: 4940630--4940898 Score: 375
Period size: 134 Copynumber: 2.0 Consensus size: 133
4940620 ACTATCGCAA
* *
4940630 CGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAAATCGCAATG
1 CGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACCAAGTTGGAAT-AATCGCAATG
* * *
4940695 CGAACTTGGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGAAGTTCGCGTTGCGA
65 CGAACTTCGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCCAAGTTCGCATTGCGA
4940760 TAGT
130 TAGT
* *
4940764 CGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAATGCCAAGTTGGACT-ATCGTAAT
1 CGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAA--CCAAGTTGGAATAATCGCAAT
* *
4940828 GCGAACTTCGACTATCGCATTGCG-AT-T-TACATATTCGCATTGCGATAGTCCAAGTTCGCATT
64 GCGAACTTCGACTATCGCAATGCGAATATGTA-A-A-TCGCAATGCGATAGTCCAAGTTCGCATT
4940890 GCGATAGT
126 GCGATAGT
4940898 C
1 C
4940899 AAAGTTCGCG
Statistics
Matches: 121, Mismatches: 9, Indels: 10
0.86 0.06 0.07
Matches are distributed among these distances:
131 2 0.02
132 2 0.02
133 3 0.02
134 105 0.87
136 9 0.07
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.26
Consensus pattern (133 bp):
CGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACCAAGTTGGAATAATCGCAATGC
GAACTTCGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCCAAGTTCGCATTGCGAT
AGT
Found at i:4940887 original size:21 final size:21
Alignment explanation
Indices: 4940861--4940914 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
4940851 GATTTACATA
*
4940861 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCAAAG
4940882 TTCGCATTGCGATAGTCAAAG
1 TTCGCATTGCGATAGTCAAAG
*
4940903 TTCGCGTTGCGA
1 TTCGCATTGCGA
4940915 ATCTGGAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (21 bp):
TTCGCATTGCGATAGTCAAAG
Found at i:4941489 original size:5 final size:5
Alignment explanation
Indices: 4941479--4941503 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
4941469 TTGTATACTT
4941479 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
4941504 ATTTGCGAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:4946577 original size:30 final size:30
Alignment explanation
Indices: 4946543--4946611 Score: 111
Period size: 30 Copynumber: 2.3 Consensus size: 30
4946533 TTATATGAGT
* *
4946543 TATGTGATAAAGGTATGGAAATGATATGTC
1 TATGTGATAAAGGTATGAAAATAATATGTC
4946573 TATGTGATAAAGGTATGAAAATAATATGTC
1 TATGTGATAAAGGTATGAAAATAATATGTC
*
4946603 TACGTGATA
1 TATGTGATA
4946612 CAAATTATGT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.39, C:0.04, G:0.23, T:0.33
Consensus pattern (30 bp):
TATGTGATAAAGGTATGAAAATAATATGTC
Found at i:4946887 original size:23 final size:22
Alignment explanation
Indices: 4946829--4946897 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 22
4946819 CATTATTATA
*
4946829 TGGCATTACGGTGCAATTCTACAA
1 TGGCATT-CGGTGCAATTCTAC-G
*
4946853 T-GCAATTTGGTGCAATTCTACG
1 TGGC-ATTCGGTGCAATTCTACG
*
4946875 TGGCACTTCGGTGCAATTATACG
1 TGGCA-TTCGGTGCAATTCTACG
4946898 AGCTGTGGTG
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
22 2 0.05
23 32 0.84
24 4 0.11
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (22 bp):
TGGCATTCGGTGCAATTCTACG
Found at i:4952454 original size:3 final size:3
Alignment explanation
Indices: 4952446--4952482 Score: 56
Period size: 3 Copynumber: 11.7 Consensus size: 3
4952436 TTCAGATTTC
4952446 TCT TCT TCT TCTT TCT TCT TCT TCTT TCT TCT TCT TC
1 TCT TCT TCT TC-T TCT TCT TCT TC-T TCT TCT TCT TC
4952483 CCCGTGAAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 26 0.81
4 6 0.19
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:4952463 original size:10 final size:10
Alignment explanation
Indices: 4952442--4952481 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
4952432 AGTTTTCAGA
4952442 TTTC-TCTTC
1 TTTCTTCTTC
4952451 -TTCTTCTT-
1 TTTCTTCTTC
4952459 TCTTCTTCTTC
1 T-TTCTTCTTC
4952470 TTTCTTCTTC
1 TTTCTTCTTC
4952480 TT
1 TT
4952482 CCCCGTGAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
8 3 0.11
9 4 0.15
10 19 0.70
11 1 0.04
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTCTTCTTC
Found at i:4952464 original size:13 final size:13
Alignment explanation
Indices: 4952446--4952482 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
4952436 TTCAGATTTC
4952446 TCTTCTTCTTCTT
1 TCTTCTTCTTCTT
4952459 TCTTCTTCTTCTT
1 TCTTCTTCTTCTT
4952472 TCTTCTTCTTC
1 TCTTCTTCTTC
4952483 CCCGTGAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (13 bp):
TCTTCTTCTTCTT
Found at i:4953531 original size:30 final size:30
Alignment explanation
Indices: 4953495--4953563 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
4953485 TTATATGAGT
*
4953495 TATGTGATAAAGGTATGAAAATGATATGTC
1 TATGTGATAAAGGTATGAAAATAATATGTC
4953525 TATGTGATAAAGGTATGAAAATAATATGTC
1 TATGTGATAAAGGTATGAAAATAATATGTC
*
4953555 TACGTGATA
1 TATGTGATA
4953564 CAAATTATGT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.41, C:0.04, G:0.22, T:0.33
Consensus pattern (30 bp):
TATGTGATAAAGGTATGAAAATAATATGTC
Found at i:4953802 original size:23 final size:23
Alignment explanation
Indices: 4953774--4953841 Score: 109
Period size: 23 Copynumber: 3.0 Consensus size: 23
4953764 ATTATTATAT
4953774 GGCACTCCGGTGCAATTATACGC
1 GGCACTCCGGTGCAATTATACGC
* *
4953797 GGCACTCCGGTGCAATTCTACGT
1 GGCACTCCGGTGCAATTATACGC
*
4953820 GGCACTTCGGTGCAATTATACG
1 GGCACTCCGGTGCAATTATACG
4953842 AGCTGTGGTG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.21, C:0.28, G:0.26, T:0.25
Consensus pattern (23 bp):
GGCACTCCGGTGCAATTATACGC
Found at i:4956522 original size:16 final size:16
Alignment explanation
Indices: 4956492--4956521 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4956482 TAAAACACTT
4956492 AAAAATATTATTTTTA
1 AAAAATATTATTTTTA
4956508 AAAAATATT-TTTTT
1 AAAAATATTATTTTT
4956522 TGAATCATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
AAAAATATTATTTTTA
Done.