Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007962.1 Hibiscus syriacus cultivar Beakdansim tig00110391_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: 1774241
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 8
Found at i:922963 original size:85 final size:84
Alignment explanation
Indices: 922817--922987 Score: 238
Period size: 85 Copynumber: 2.0 Consensus size: 84
922807 GTTGAATCGG
* * * *
922817 GTGCTAGTTTTGTAAATATTTTAAAATAGTGCCTCATATGTAATTAATTTATGTTATGGTGATAT
1 GTGCTAGTTTTGTAAATATTTTAAAAGAGTGCCTAATATGTAATTAATTTATGTTAGGGTGATAA
922882 TTATGTAAAATC-GTTGACC
66 TTATGTAAAA-CAGTTGACC
* *
922901 GTGCTAGTTTTGTAAATATTTTTAAAAGGGTGCCTAATTTGTAATTAA-TTACTGTTAGGGTGAT
1 GTGCTAGTTTTGTAAATA-TTTTAAAAGAGTGCCTAATATGTAATTAATTTA-TGTTAGGGTGAT
*
922965 AATTGTGTAAAACAGTTGACC
64 AATTATGTAAAACAGTTGACC
922986 GT
1 GT
922988 TAACCGTAAT
Statistics
Matches: 77, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
84 22 0.29
85 55 0.71
ACGTcount: A:0.30, C:0.08, G:0.19, T:0.42
Consensus pattern (84 bp):
GTGCTAGTTTTGTAAATATTTTAAAAGAGTGCCTAATATGTAATTAATTTATGTTAGGGTGATAA
TTATGTAAAACAGTTGACC
Found at i:923954 original size:42 final size:42
Alignment explanation
Indices: 923909--924358 Score: 677
Period size: 42 Copynumber: 10.7 Consensus size: 42
923899 ATTCCAGTTC
* * * *
923909 CCTTTGTTGTGTGCAAGGGTAAGCCTTATAGTTTCTCAGGTC
1 CCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTT
* *
923951 CCTTTGCTATGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTC
1 CCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTT
* * *
923993 CCTTTGCTGTGTGCAAGGGTAAGACTTACAATTTCCCAGGTC
1 CCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTT
*
924035 CCTTTGTTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTT
1 CCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTT
924077 CCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTT
1 CCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTT
*
924119 CCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCTAGG-T
1 CCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTT
* *
924160 CATTTGCTGTGTGCAATGGTAAGCCTTACAGTTTCCCAGGTT
1 CCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTT
924202 CCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTT
1 CCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTT
* *
924244 CCTTTACTGTGTACAAGGGTAAGCCTTACAGTTTCCCAGGTT
1 CCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTT
* * *
924286 CCTTTGTTGTGTGCAAGGGTAAGCCTTACAGTTTTCCTAGGCT
1 CCTTTGCTGTGTGCAAGGGTAAGCCTTACAG-TTTCCCAGGTT
* * * *
924329 CCTCTGCTTTGTGCATATGTTAAGCCTTAC
1 CCTTTGCTGTGTGCA-AGGGTAAGCCTTAC
924359 TGGTGTACAG
Statistics
Matches: 375, Mismatches: 30, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
41 38 0.10
42 304 0.81
43 21 0.06
44 12 0.03
ACGTcount: A:0.18, C:0.23, G:0.24, T:0.35
Consensus pattern (42 bp):
CCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTT
Found at i:924240 original size:167 final size:167
Alignment explanation
Indices: 923909--924358 Score: 702
Period size: 167 Copynumber: 2.7 Consensus size: 167
923899 ATTCCAGTTC
* * * * *
923909 CCTTTGTTGTGTGCAAGGGTAAGCCTTATAGTTTCTCAGGTCCCTTTGCTATGTGCAAGGGTAAG
1 CCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAG
* * *
923974 CCTTACAGTTTCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGACTTACAATTTCCCAGGTCCCTT
66 CCTTACAGTTTCCTAGGT-CCTTTGCTGTGTGCAATGGTAAGCCTTACAATTTCCCAGGTCCCTT
*
924039 TGTTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTT
130 TGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTT
924077 CCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAG
1 CCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAG
* * *
924142 CCTTACAGTTTCCTAGGTCATTTGCTGTGTGCAATGGTAAGCCTTACAGTTTCCCAGGTTCCTTT
66 CCTTACAGTTTCCTAGGTCCTTTGCTGTGTGCAATGGTAAGCCTTACAATTTCCCAGGTCCCTTT
924207 GCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTT
131 GCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTT
* * *
924244 CCTTTACTGTGTACAAGGGTAAGCCTTACAGTTTCCCAGGTTCCTTTGTTGTGTGCAAGGGTAAG
1 CCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAG
* * *
924309 CCTTACAGTTTTCCTAGGCTCCTCTGCTTTGTGCATATGTTAAGCCTTAC
66 CCTTACAG-TTTCCTAGG-TCCTTTGCTGTGTGCA-ATGGTAAGCCTTAC
924359 TGGTGTACAG
Statistics
Matches: 260, Mismatches: 19, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
167 148 0.57
168 86 0.33
169 13 0.05
170 13 0.05
ACGTcount: A:0.18, C:0.23, G:0.24, T:0.35
Consensus pattern (167 bp):
CCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAG
CCTTACAGTTTCCTAGGTCCTTTGCTGTGTGCAATGGTAAGCCTTACAATTTCCCAGGTCCCTTT
GCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTT
Found at i:925607 original size:21 final size:21
Alignment explanation
Indices: 925501--925594 Score: 134
Period size: 21 Copynumber: 4.5 Consensus size: 21
925491 GTTGAGGGTT
*
925501 ATATATGGTCCTTCGGGACAA
1 ATATGTGGTCCTTCGGGACAA
* *
925522 ATATGTGATCCTTCGGGATAA
1 ATATGTGGTCCTTCGGGACAA
* *
925543 ATATGTGGTTCTTTGGGACAA
1 ATATGTGGTCCTTCGGGACAA
*
925564 ATATGTGGTCATTCGGGACAA
1 ATATGTGGTCCTTCGGGACAA
925585 ATATGTGGTC
1 ATATGTGGTC
925595 TTTCAGGATA
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 63 1.00
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.33
Consensus pattern (21 bp):
ATATGTGGTCCTTCGGGACAA
Found at i:928738 original size:54 final size:54
Alignment explanation
Indices: 928640--928742 Score: 143
Period size: 54 Copynumber: 1.9 Consensus size: 54
928630 GTCACTCAAT
* * * *
928640 ATTAATAGTCGTTACTGTGGGTGATGGAAAGCTATTGTGGCATGTTAATCTGAC
1 ATTAATAGTCGTTACTGTGGGAGATGAAAAGCTAGTGTGACATGTTAATCTGAC
* * *
928694 ATTAATAGTCGTTATTGTGGGAGATGAAAAGTTGGTGTGACATGTTAAT
1 ATTAATAGTCGTTACTGTGGGAGATGAAAAGCTAGTGTGACATGTTAAT
928743 TTGATTTTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 42 1.00
ACGTcount: A:0.28, C:0.08, G:0.28, T:0.36
Consensus pattern (54 bp):
ATTAATAGTCGTTACTGTGGGAGATGAAAAGCTAGTGTGACATGTTAATCTGAC
Found at i:932336 original size:87 final size:85
Alignment explanation
Indices: 932035--932381 Score: 430
Period size: 85 Copynumber: 4.1 Consensus size: 85
932025 GTTCCTCGCT
* * *
932035 CTGAATAG-AATCAAACTTGAAGGTTTTTGTTGACAAATAGCCCTTCTCGCCTT-AGCTATGGTA
1 CTGAAT-GTAATCAAACTCGAAGGTTTTTGTTGACATATAGCCCTTCTCGCCTTGAGCTATGCTA
*
932098 TAAATTTGATATGCCCTTTAG
65 TAAATTTGATATGCCCTTGAG
* * * * * *
932119 CTGAATGTAATCAAACTCGAAGGTTTTCGTTGACATGTAGCCCATCCCGCCTTAAGCTATGCTAC
1 CTGAATGTAATCAAACTCGAAGGTTTTTGTTGACATATAGCCCTTCTCGCCTTGAGCTATGCTAT
932184 AAATTTGATATGCCCTTGAG
66 AAATTTGATATGCCCTTGAG
* * * * * * * *
932204 CTGAATGGAATCGAACTCGAAGGTTTTTGTCGACAGATAGTCCTTCTTGCCTTGAGCTATACTGT
1 CTGAATGTAATCAAACTCGAAGGTTTTTGTTGACATATAGCCCTTCTCGCCTTGAGCTATGCTAT
* *
932269 AAATTTGATATTCCCCCCTGAG
66 AAATTTGATA-T-GCCCTTGAG
* * * *
932291 TTGAATGTAATCAAACTCGAAGGTTTTTATTGACATATAGCCCTTCTCGCCTTGAGCTATGTTGT
1 CTGAATGTAATCAAACTCGAAGGTTTTTGTTGACATATAGCCCTTCTCGCCTTGAGCTATGCTAT
932356 -AATTTGATATGCCCTTGAG
66 AAATTTGATATGCCCTTGAG
932375 CTGAATG
1 CTGAATG
932382 AAATAACCCT
Statistics
Matches: 221, Mismatches: 38, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
83 1 0.00
84 58 0.26
85 90 0.41
86 10 0.05
87 62 0.28
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.34
Consensus pattern (85 bp):
CTGAATGTAATCAAACTCGAAGGTTTTTGTTGACATATAGCCCTTCTCGCCTTGAGCTATGCTAT
AAATTTGATATGCCCTTGAG
Found at i:932495 original size:86 final size:85
Alignment explanation
Indices: 932388--932777 Score: 473
Period size: 85 Copynumber: 4.6 Consensus size: 85
932378 AATGAAATAA
* * * *
932388 CCCTTCTCGTCTTGAGCTATGCTGTAAATTTGATATGCCCTTGAGCTGAACAGAATTGAACTCGA
1 CCCTTCTCGCCTTGAGCTATACTGTAAATTTGATATGCCCTTGAGCTGAACGGAATCGAACTCGA
932453 AGGTTTTTGTTGACAGATAG
66 AGGTTTTTGTTGACAGATAG
* * * * * *
932473 TCCCTTCTTGCCTTGAACTATGCTATAAATTTGATATTCCCTTGAGCTGAATGGAATCGAACTCG
1 -CCCTTCTCGCCTTGAGCTATACTGTAAATTTGATATGCCCTTGAGCTGAACGGAATCGAACTCG
* **
932538 AAGGTTTATGTTGATGGATAG
65 AAGGTTTTTGTTGACAGATAG
* * * *
932559 TCTTTCTCGCCTTGAGTTATTA-TGTAAATTTG--ATGCCCTTGAGCTTAACGGAATCGAACTCG
1 CCCTTCTCGCCTTGAGCTA-TACTGTAAATTTGATATGCCCTTGAGCTGAACGGAATCGAACTCG
932621 AAGGTTTTTGTTGAC-GAATAG
65 AAGGTTTTTGTTGACAG-ATAG
* * * * * * * * *
932642 CCCTTATTGCCCTGAACTATAATGTAAATTAGATATGCCCTTAAACTGAATGGAATCGAACTCGA
1 CCCTTCTCGCCTTGAGCTATACTGTAAATTTGATATGCCCTTGAGCTGAACGGAATCGAACTCGA
932707 AGGTTTTTGTTGACAGATAG
66 AGGTTTTTGTTGACAGATAG
*
932727 CCCTTCTGGCCTTGAGCTATACTGTAAATTTGATATGCCCCTTGAGCTGAA
1 CCCTTCTCGCCTTGAGCTATACTGTAAATTTGATATG-CCCTTGAGCTGAA
932778 TGTAATCCCC
Statistics
Matches: 254, Mismatches: 43, Indels: 14
0.82 0.14 0.05
Matches are distributed among these distances:
82 3 0.01
83 65 0.26
85 99 0.39
86 87 0.34
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.35
Consensus pattern (85 bp):
CCCTTCTCGCCTTGAGCTATACTGTAAATTTGATATGCCCTTGAGCTGAACGGAATCGAACTCGA
AGGTTTTTGTTGACAGATAG
Found at i:932505 original size:144 final size:144
Alignment explanation
Indices: 932245--932525 Score: 370
Period size: 144 Copynumber: 2.0 Consensus size: 144
932235 GACAGATAGT
* * *
932245 CCTTCTTGCCTTGAGCTATACTGTAAATTTGATATTCCCCCCTGAGTTGAATGTAATCAAACTCG
1 CCTTCTCGCCTTGAGCTATACTGTAAATTTGATATTCCCCCCTGAGCTGAAAGTAATCAAACTCG
* * * *
932310 AAGGTTTTTATTGACATATAGCCCTTCTCGCCTTGAGCTATGTTGTAATTTGATATGCCCTTGAG
66 AAGGTTTTTATTGACAGATAGCCCTTCTCGCCTTGAACTATGCTATAATTTGATATGCCCTTGAG
932375 CTGAATGAAATAAC
131 CTGAATGAAATAAC
* * * * **
932389 CCTTCTCGTCTTGAGCTATGCTGTAAATTTGATA-T-GCCCTTGAGCTGAACAG-AATTGAACTC
1 CCTTCTCGCCTTGAGCTATACTGTAAATTTGATATTCCCCCCTGAGCTGAA-AGTAATCAAACTC
* * *
932451 GAAGGTTTTTGTTGACAGATAGTCCCTTCTTGCCTTGAACTATGCTATAAATTTGATATTCCCTT
65 GAAGGTTTTTATTGACAGATAG-CCCTTCTCGCCTTGAACTATGCTAT-AATTTGATATGCCCTT
932516 GAGCTGAATG
128 GAGCTGAATG
932526 GAATCGAACT
Statistics
Matches: 118, Mismatches: 16, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
142 39 0.33
143 23 0.19
144 56 0.47
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (144 bp):
CCTTCTCGCCTTGAGCTATACTGTAAATTTGATATTCCCCCCTGAGCTGAAAGTAATCAAACTCG
AAGGTTTTTATTGACAGATAGCCCTTCTCGCCTTGAACTATGCTATAATTTGATATGCCCTTGAG
CTGAATGAAATAAC
Found at i:932591 original size:229 final size:226
Alignment explanation
Indices: 932173--932603 Score: 605
Period size: 229 Copynumber: 1.9 Consensus size: 226
932163 TCCCGCCTTA
**
932173 AGCTATGCTACAAATTTGATATGCCCTTGAGCTGAATGGAATCGAACTCGAAGGTTTTTGTCGAC
1 AGCTATGCTACAAATTTGATATGCCCTTGAGCTGAACAGAATCGAACTCGAAGGTTTTTGTCGAC
* * * *
932238 AGATAGTCCTTCTTGCCTTGAGCTATACTGTAAATTTGATATTCCCCCCTGAGTTGAATGTAATC
66 AGATAGTCCTTCTTGCCTTGAACTATACTATAAATTTGATATT-CCCCCTGAGCTGAATGGAATC
* *
932303 AAACTCGAAGGTTTTTATTGACATATAGCCCTTCTCGCCTTGAGCTATGTTGTAATTTGATATGC
130 AAACTCGAAGGTTTATATTGACAGATAGCCCTTCTCGCCTTGAGCTATGTTGTAATTTG--ATGC
932368 CCTTGAGCTGAATGAAATAACCCTTCTCGTCTTG
193 CCTTGAGCTGAATGAAATAACCCTTCTCGTCTTG
** * *
932402 AGCTATGCTGTAAATTTGATATGCCCTTGAGCTGAACAGAATTGAACTCGAAGGTTTTTGTTGAC
1 AGCTATGCTACAAATTTGATATGCCCTTGAGCTGAACAGAATCGAACTCGAAGGTTTTTGTCGAC
* *
932467 AGATAGTCCCTTCTTGCCTTGAACTATGCTATAAATTTGATATT-CCCTTGAGCTGAATGGAATC
66 AGATAGT-CCTTCTTGCCTTGAACTATACTATAAATTTGATATTCCCCCTGAGCTGAATGGAATC
* * ** * * *
932531 GAACTCGAAGGTTTATGTTGATGGATAGTCTTTCTCGCCTTGAGTTAT-TATGTAAATTTGATGC
130 AAACTCGAAGGTTTATATTGACAGATAGCCCTTCTCGCCTTGAGCTATGT-TGT-AATTTGATGC
932595 CCTTGAGCT
193 CCTTGAGCT
932604 TAACGGAATC
Statistics
Matches: 178, Mismatches: 21, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
227 14 0.08
228 59 0.33
229 72 0.40
230 33 0.19
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (226 bp):
AGCTATGCTACAAATTTGATATGCCCTTGAGCTGAACAGAATCGAACTCGAAGGTTTTTGTCGAC
AGATAGTCCTTCTTGCCTTGAACTATACTATAAATTTGATATTCCCCCTGAGCTGAATGGAATCA
AACTCGAAGGTTTATATTGACAGATAGCCCTTCTCGCCTTGAGCTATGTTGTAATTTGATGCCCT
TGAGCTGAATGAAATAACCCTTCTCGTCTTG
Found at i:932741 original size:168 final size:170
Alignment explanation
Indices: 932388--932777 Score: 518
Period size: 168 Copynumber: 2.3 Consensus size: 170
932378 AATGAAATAA
* * *
932388 CCCTTCTCGTCTTGAGCTATGCTGTAAATTTGATATGCCCTTGAGCTGAACAGAATTGAACTCGA
1 CCCTTCTCGCCTTGAGCTATACTGTAAATTTGA-ATGCCCTTGAGCTGAACAGAATCGAACTCGA
* * ** * * *
932453 AGGTTTTTGTTGACAGATAGTCCCTTCTTGCCTTGAACTATGCTATAAATTTGATATTCCCTTGA
65 AGGTTTTTGTTGACAGATAGTCCCTTATTGCCCTGAACTATAATATAAATTAGATATGCCCTTAA
* **
932518 GCTGAATGGAATCGAACTCGAAGGTTTATGTTGATGGATAG
130 ACTGAATGGAATCGAACTCGAAGGTTTATGTTGACAGATAG
* * * * *
932559 TCTTTCTCGCCTTGAGTTATTA-TGTAAATTTG-ATGCCCTTGAGCTTAACGGAATCGAACTCGA
1 CCCTTCTCGCCTTGAGCTA-TACTGTAAATTTGAATGCCCTTGAGCTGAACAGAATCGAACTCGA
*
932622 AGGTTTTTGTTGAC-GAATAG-CCCTTATTGCCCTGAACTATAATGTAAATTAGATATGCCCTTA
65 AGGTTTTTGTTGACAG-ATAGTCCCTTATTGCCCTGAACTATAATATAAATTAGATATGCCCTTA
*
932685 AACTGAATGGAATCGAACTCGAAGGTTTTTGTTGACAGATAG
129 AACTGAATGGAATCGAACTCGAAGGTTTATGTTGACAGATAG
*
932727 CCCTTCTGGCCTTGAGCTATACTGTAAATTTGATATGCCCCTTGAGCTGAA
1 CCCTTCTCGCCTTGAGCTATACTGTAAATTTGA-ATG-CCCTTGAGCTGAA
932778 TGTAATCCCC
Statistics
Matches: 188, Mismatches: 25, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
167 2 0.01
168 99 0.53
169 46 0.24
170 3 0.02
171 37 0.20
172 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.35
Consensus pattern (170 bp):
CCCTTCTCGCCTTGAGCTATACTGTAAATTTGAATGCCCTTGAGCTGAACAGAATCGAACTCGAA
GGTTTTTGTTGACAGATAGTCCCTTATTGCCCTGAACTATAATATAAATTAGATATGCCCTTAAA
CTGAATGGAATCGAACTCGAAGGTTTATGTTGACAGATAG
Found at i:932789 original size:20 final size:20
Alignment explanation
Indices: 932764--932804 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
932754 ATTTGATATG
932764 CCCCTTGAGCTGAATGTAAT
1 CCCCTTGAGCTGAATGTAAT
932784 CCCCTTGAGCTGAATGTAAT
1 CCCCTTGAGCTGAATGTAAT
932804 C
1 C
932805 AAACTCGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (20 bp):
CCCCTTGAGCTGAATGTAAT
Found at i:933028 original size:34 final size:31
Alignment explanation
Indices: 932937--933028 Score: 85
Period size: 32 Copynumber: 2.8 Consensus size: 31
932927 GGGCACGATA
* *
932937 TCCTTCGTTGTGAAGTTGAAATCGTGGATGGC
1 TCCTTCGTTGTGAAGTTGAAAT-TTGAATGGC
* * **
932969 TCATTCGCTGTGAAGTTGAGCTTTGAATTGGAC
1 TCCTTCGTTGTGAAGTTGAAATTTGAA-TGG-C
*
933002 GTCCTTCGTTGTGAAGCTGAAATTTGA
1 -TCCTTCGTTGTGAAGTTGAAATTTGA
933029 CCTGAATGAA
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
31 3 0.07
32 21 0.46
33 1 0.02
34 21 0.46
ACGTcount: A:0.21, C:0.15, G:0.28, T:0.36
Consensus pattern (31 bp):
TCCTTCGTTGTGAAGTTGAAATTTGAATGGC
Found at i:935010 original size:99 final size:99
Alignment explanation
Indices: 934839--935018 Score: 256
Period size: 99 Copynumber: 1.8 Consensus size: 99
934829 CTATTGTCTG
* *
934839 GCTAGCTGAATCTTATCCATAAATCTGTGGCGTTTAACCAATTACTCTAGAAGGACAGCTCAAAC
1 GCTAGCAGAATCTTATCCATAAATCTGTGGCGTTTAACCAATTACTCTAGAAGGACAACTCAAAC
*
934904 TTTATTGTATAGATATTATAATCACCTTTATCAA
66 TTTATTGTATACATATTATAATCACCTTTATCAA
* * * *
934938 GCTAGCAGAATCTTATCCATAAAGTC-G-GGACGTTTAACCAATTGCTTTAGAGGGGCAACTCAA
1 GCTAGCAGAATCTTATCCATAAA-TCTGTGG-CGTTTAACCAATTACTCTAGAAGGACAACTCAA
*
935001 GCTTTATTGTATACATAT
64 ACTTTATTGTATACATAT
935019 AATATTATAA
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
98 2 0.03
99 67 0.94
100 2 0.03
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (99 bp):
GCTAGCAGAATCTTATCCATAAATCTGTGGCGTTTAACCAATTACTCTAGAAGGACAACTCAAAC
TTTATTGTATACATATTATAATCACCTTTATCAA
Found at i:943067 original size:18 final size:19
Alignment explanation
Indices: 943044--943080 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
943034 ATGTTTCTTA
943044 TTTTGAAT-TATTAATTTT
1 TTTTGAATATATTAATTTT
*
943062 TTTTGAATATTTTAATTTT
1 TTTTGAATATATTAATTTT
943081 AAACTAGGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (19 bp):
TTTTGAATATATTAATTTT
Found at i:943479 original size:41 final size:40
Alignment explanation
Indices: 943434--943737 Score: 179
Period size: 41 Copynumber: 7.5 Consensus size: 40
943424 ATTCACGTTG
* *
943434 CATTTCGCATTGCGATAGTTGAAAATCGCGTTGCGTTTTTC
1 CATTTCGCGTTGCGATAGTTG-AAATCGCGTTGCGATTTTC
*
943475 CATTTCGCGTTGCGATAGTTGGAGATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTT-GAAATCGCGTTGCGATTTTC
*** *
943516 CATTTCGCGTTGCGATAGTTGAAATCGCAACGCGA-TCTC
1 CATTTCGCGTTGCGATAGTTGAAATCGCGTTGCGATTTTC
* * * ** * *
943555 CATCATCGCAAATT-CG--CGTTGCATTTCGCGTTGCGATAGTTG
1 CAT-TTCGC--GTTGCGATAGTTG-AAATCGCGTTGCGAT-TTTC
* ** * * * * ** * *
943597 AAAATCGCGTTGTGGT-TTTCCATTTCGCGTTGCGATAGTTG
1 CATTTCGCGTTGCGATAGTT-GAAATCGCGTTGCGAT-TTTC
* ** * * **
943638 AAAATCGCGTTGCGAT-TTTCCATTTCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTT-GAAATCGCGTTGCGATTTTC
943678 CATTTCGCGTTGCGATAGTTGAAATTCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAA-TCGCGTTGCGATTTTC
943719 CATTTCGCGTTGCGATAGT
1 CATTTCGCGTTGCGATAGT
943738 CTACAGTTGT
Statistics
Matches: 214, Mismatches: 36, Indels: 26
0.78 0.13 0.09
Matches are distributed among these distances:
39 12 0.06
40 41 0.19
41 156 0.73
42 5 0.02
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.37
Consensus pattern (40 bp):
CATTTCGCGTTGCGATAGTTGAAATCGCGTTGCGATTTTC
Found at i:943530 original size:20 final size:20
Alignment explanation
Indices: 943459--943531 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
943449 TAGTTGAAAA
*
943459 TCGCGTTGCGTTTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* ** **
943479 TCGCGTTGCGATAGTTGGAGA
1 TCGCGTTGCGAT-TTTCCATT
943500 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
943520 TCGCGTTGCGAT
1 TCGCGTTGCGAT
943532 AGTTGAAATC
Statistics
Matches: 41, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
20 26 0.63
21 15 0.37
ACGTcount: A:0.11, C:0.22, G:0.27, T:0.40
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:943543 original size:20 final size:21
Alignment explanation
Indices: 943438--943543 Score: 67
Period size: 20 Copynumber: 5.2 Consensus size: 21
943428 ACGTTGCATT
*
943438 TCGCATTGCGATAGTT-GAAAA
1 TCGCGTTGCGATAGTTCG-AAA
** * **
943459 TCGCGTTGCG-TTTTTCCATT
1 TCGCGTTGCGATAGTTCGAAA
* *
943479 TCGCGTTGCGATAGTTGGAGA
1 TCGCGTTGCGATAGTTCGAAA
* * **
943500 TCGCGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTCGAAA
943520 TCGCGTTGCGATAGTT-GAAA
1 TCGCGTTGCGATAGTTCGAAA
943540 TCGC
1 TCGC
943544 AACGCGATCT
Statistics
Matches: 61, Mismatches: 21, Indels: 7
0.69 0.24 0.08
Matches are distributed among these distances:
20 34 0.56
21 27 0.44
ACGTcount: A:0.18, C:0.20, G:0.26, T:0.36
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTCGAAA
Found at i:943626 original size:20 final size:20
Alignment explanation
Indices: 943601--943734 Score: 151
Period size: 20 Copynumber: 6.6 Consensus size: 20
943591 TAGTTGAAAA
* *
943601 TCGCGTTGTGGTTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* ** **
943621 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCATT
943642 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
943662 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* ** *
943682 TCGCGTTGCGATAGTTGAAAT
1 TCGCGTTGCGAT-TTTCCATT
943703 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
943723 TCGCGTTGCGAT
1 TCGCGTTGCGAT
943735 AGTCTACAGT
Statistics
Matches: 92, Mismatches: 20, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
20 61 0.66
21 31 0.34
ACGTcount: A:0.14, C:0.21, G:0.25, T:0.40
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:943654 original size:142 final size:142
Alignment explanation
Indices: 943405--943673 Score: 468
Period size: 142 Copynumber: 1.9 Consensus size: 142
943395 AATTCGCATT
*
943405 GCGATCTCCACTATCGCAAATTCACGTTGCATTTCGCATTGCGATAGTTGAAAATCGCGTTGCGT
1 GCGATCTCCACTATCGCAAATTCACGTTGCATTTCGCATTGCGATAGTTGAAAATCGCGTTGCGG
* *
943470 TTTTCCATTTCGCGTTGCGATAGTTGGAGATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGT
66 TTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGT
943535 TGAAATCGCAAC
131 TGAAATCGCAAC
* * *
943547 GCGATCTCCA-TCATCGCAAATTCGCGTTGCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGTG
1 GCGATCTCCACT-ATCGCAAATTCACGTTGCATTTCGCATTGCGATAGTTGAAAATCGCGTTGCG
943611 GTTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGAT
65 GTTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGAT
943674 TTTCCATTTC
Statistics
Matches: 120, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
141 1 0.01
142 119 0.99
ACGTcount: A:0.19, C:0.22, G:0.24, T:0.35
Consensus pattern (142 bp):
GCGATCTCCACTATCGCAAATTCACGTTGCATTTCGCATTGCGATAGTTGAAAATCGCGTTGCGG
TTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGT
TGAAATCGCAAC
Found at i:943681 original size:61 final size:61
Alignment explanation
Indices: 943601--943734 Score: 241
Period size: 61 Copynumber: 2.2 Consensus size: 61
943591 TAGTTGAAAA
* *
943601 TCGCGTTGTGGTTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATT
*
943662 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAATTCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATT
943723 TCGCGTTGCGAT
1 TCGCGTTGCGAT
943735 AGTCTACAGT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
61 70 1.00
ACGTcount: A:0.14, C:0.21, G:0.25, T:0.40
Consensus pattern (61 bp):
TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATT
Found at i:943771 original size:41 final size:40
Alignment explanation
Indices: 943661--943779 Score: 136
Period size: 41 Copynumber: 2.9 Consensus size: 40
943651 GATTTTCCAT
943661 TTCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAA
1 TTCGCGTTGCGATTTTCCATTTC-CGTTGCGATAGTTGAAA
*
943702 TTCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCT-ACAG
1 TTCGCGTTGCGATTTTCCATTTC-CGTTGCGATAGT-TGA-AA
* *
943744 TT-GTCGTTGCGATTTTCCAAATT-CGTTGTGATAGTT
1 TTCG-CGTTGCGATTTTCC-ATTTCCGTTGCGATAGTT
943780 AAAAAAAAAG
Statistics
Matches: 71, Mismatches: 3, Indels: 9
0.86 0.04 0.11
Matches are distributed among these distances:
40 1 0.01
41 49 0.69
42 18 0.25
43 3 0.04
ACGTcount: A:0.16, C:0.19, G:0.24, T:0.41
Consensus pattern (40 bp):
TTCGCGTTGCGATTTTCCATTTCCGTTGCGATAGTTGAAA
Found at i:943771 original size:61 final size:60
Alignment explanation
Indices: 943620--943756 Score: 168
Period size: 61 Copynumber: 2.2 Consensus size: 60
943610 GGTTTTCCAT
* * * * *
943620 TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATTTTCCAT
1 TTCGCGTTGCGATAGTTCAAATTC-CGTTGCGATTTTCCATTTCGCGTTGCGATTCTACAG
*
943681 TTCGCGTTGCGATAGTTGAAATTCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAG
1 TTCGCGTTGCGATAGTTCAAATTC-CGTTGCGATTTTCCATTTCGCGTTGCGAT--TCTACAG
943744 TT-GTCGTTGCGAT
1 TTCG-CGTTGCGAT
943757 TTTCCAAATT
Statistics
Matches: 69, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
61 53 0.77
62 1 0.01
63 15 0.22
ACGTcount: A:0.16, C:0.20, G:0.25, T:0.39
Consensus pattern (60 bp):
TTCGCGTTGCGATAGTTCAAATTCCGTTGCGATTTTCCATTTCGCGTTGCGATTCTACAG
Found at i:943864 original size:6 final size:6
Alignment explanation
Indices: 943853--943877 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
943843 GAAGACACGT
943853 ATTACC ATTACC ATTACC ATTACC A
1 ATTACC ATTACC ATTACC ATTACC A
943878 CGACCACGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (6 bp):
ATTACC
Found at i:943883 original size:6 final size:6
Alignment explanation
Indices: 943874--943922 Score: 84
Period size: 6 Copynumber: 8.5 Consensus size: 6
943864 CATTACCATT
943874 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC-CG ACC-CG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
943920 ACC
1 ACC
943923 CGAGACGAGA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 10 0.23
6 33 0.77
ACGTcount: A:0.31, C:0.53, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:944446 original size:6 final size:6
Alignment explanation
Indices: 944420--944479 Score: 99
Period size: 6 Copynumber: 10.5 Consensus size: 6
944410 TCTCGTCTCG
944420 GGTCG- GGTCG- GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
944465 GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGT
944480 AATACGTGTC
Statistics
Matches: 54, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 15 0.28
6 39 0.72
ACGTcount: A:0.00, C:0.17, G:0.53, T:0.30
Consensus pattern (6 bp):
GGTCGT
Found at i:944619 original size:41 final size:41
Alignment explanation
Indices: 944572--944820 Score: 358
Period size: 41 Copynumber: 6.0 Consensus size: 41
944562 ATAACGAATT
* *
944572 TGGAAAATCGCAACGACAACTGT-AGACTATCGCAACGCGAAA
1 TGGAAAATCGCAACG-CGACTTTCA-ACTATCGCAACGCGAAA
* *
944614 TGAAAAATCGCAACGCGAATTTCAACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGCGACTTTCAACTATCGCAACGCGAAA
*
944655 TGGAAAATCGCAACGCGACTGT-AGACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGCGACTTTCA-ACTATCGCAACGCGAAA
* *
944696 TGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCAAAA
1 TGGAAAATCGCAACGCGACTTTCAACTATCGCAACGCGAAA
*
944737 TGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGCGACTTTCAACTATCGCAACGCGAAA
* * *
944778 TGGAAAAACGCAACGCGATTTTCAACTATCGCAATGCGAAA
1 TGGAAAATCGCAACGCGACTTTCAACTATCGCAACGCGAAA
944819 TG
1 TG
944821 CAACGTGAAT
Statistics
Matches: 191, Mismatches: 13, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
40 1 0.01
41 174 0.91
42 16 0.08
ACGTcount: A:0.39, C:0.24, G:0.20, T:0.18
Consensus pattern (41 bp):
TGGAAAATCGCAACGCGACTTTCAACTATCGCAACGCGAAA
Found at i:944679 original size:82 final size:82
Alignment explanation
Indices: 944572--944820 Score: 394
Period size: 82 Copynumber: 3.0 Consensus size: 82
944562 ATAACGAATT
* *
944572 TGGAAAATCGCAACGACAACTGTAGACTATCGCAACGCGAAATGAAAAATCGCAACGCGAATTTC
1 TGGAAAATCGCAACG-CGACTGTAGACTATCGCAACGCGAAATGAAAAATCGCAACGCGATTTTC
944637 AACTATCGCAACGCGAAA
65 AACTATCGCAACGCGAAA
*
944655 TGGAAAATCGCAACGCGACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
1 TGGAAAATCGCAACGCGACTGTAGACTATCGCAACGCGAAATGAAAAATCGCAACGCGATTTTCA
*
944720 ACTATCGCAACGCAAAA
66 ACTATCGCAACGCGAAA
* *
944737 TGGAAAATCGCAACGCGATTTTCA-ACTATCGCAACGCGAAATGGAAAAA-CGCAACGCGATTTT
1 TGGAAAATCGCAACGCGACTGT-AGACTATCGCAACGCGAAAT-GAAAAATCGCAACGCGATTTT
*
944800 CAACTATCGCAATGCGAAA
64 CAACTATCGCAACGCGAAA
944819 TG
1 TG
944821 CAACGTGAAT
Statistics
Matches: 155, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
82 134 0.86
83 21 0.14
ACGTcount: A:0.39, C:0.24, G:0.20, T:0.18
Consensus pattern (82 bp):
TGGAAAATCGCAACGCGACTGTAGACTATCGCAACGCGAAATGAAAAATCGCAACGCGATTTTCA
ACTATCGCAACGCGAAA
Found at i:949506 original size:20 final size:19
Alignment explanation
Indices: 949467--949512 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
949457 GAATCGAGAG
* *
949467 AAATTAAATATATTTGTTT
1 AAATTAAATATAATTATTT
949486 AAATATAAATATAATTATTT
1 AAAT-TAAATATAATTATTT
949506 ATAATTA
1 A-AATTA
949513 TATGATATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 4 0.17
20 16 0.70
21 3 0.13
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
AAATTAAATATAATTATTT
Found at i:949791 original size:2 final size:2
Alignment explanation
Indices: 949784--949812 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
949774 ATCACAACTC
949784 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
949813 CTTATTTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:962497 original size:21 final size:21
Alignment explanation
Indices: 962473--962542 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
962463 AAAAGAAGCA
962473 AAAAAGCAAAAAAAAAC-AAAG
1 AAAAAG-AAAAAAAAACAAAAG
* *
962494 AAAAAGAAACAAGAACAAAAG
1 AAAAAGAAAAAAAAACAAAAG
** *
962515 AAAAAAGAGCAAAAATCAAAAG
1 -AAAAAGAAAAAAAAACAAAAG
962537 AAAAAG
1 AAAAAG
962543 GGACAAAAGC
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
20 8 0.20
21 16 0.40
22 16 0.40
ACGTcount: A:0.77, C:0.09, G:0.13, T:0.01
Consensus pattern (21 bp):
AAAAAGAAAAAAAAACAAAAG
Found at i:962513 original size:15 final size:15
Alignment explanation
Indices: 962459--962528 Score: 51
Period size: 15 Copynumber: 4.7 Consensus size: 15
962449 CAAGAACAAC
962459 AAAGAA-AAGAAGCAAA
1 AAAGAACAA-AAG-AAA
962475 AAAGCAA-AAAA-AAA
1 AAAG-AACAAAAGAAA
962489 CAAAG-A-AAAAGAAA
1 -AAAGAACAAAAGAAA
*
962503 CAAGAACAAAAGAAA
1 AAAGAACAAAAGAAA
*
962518 AAAGAGCAAAA
1 AAAGAACAAAA
962529 ATCAAAAGAA
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
13 8 0.17
14 7 0.15
15 21 0.46
16 6 0.13
17 4 0.09
ACGTcount: A:0.77, C:0.09, G:0.14, T:0.00
Consensus pattern (15 bp):
AAAGAACAAAAGAAA
Found at i:962519 original size:31 final size:32
Alignment explanation
Indices: 962450--962519 Score: 83
Period size: 31 Copynumber: 2.2 Consensus size: 32
962440 AGATCCAATC
* *
962450 AAGAACAACAAAGAAAAGAAGCAAAAAAGCAA
1 AAGAAAAACAAAGAAAAGAAACAAAAAAGCAA
*
962482 AA-AAAAACAAAGAAAAAGAAAC-AAGAA-CAA
1 AAGAAAAACAAAG-AAAAGAAACAAAAAAGCAA
962512 AAGAAAAA
1 AAGAAAAA
962520 AGAGCAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
30 5 0.15
31 18 0.55
32 10 0.30
ACGTcount: A:0.77, C:0.10, G:0.13, T:0.00
Consensus pattern (32 bp):
AAGAAAAACAAAGAAAAGAAACAAAAAAGCAA
Found at i:962549 original size:22 final size:21
Alignment explanation
Indices: 962484--962550 Score: 75
Period size: 22 Copynumber: 3.2 Consensus size: 21
962474 AAAAGCAAAA
*
962484 AAAAAC-AAAGAAAAAGAAAC
1 AAAAACAAAAGAAAAAGAGAC
*
962504 AAGAACAAAAGAAAAA-AGAGC
1 AAAAACAAAAGAAAAAGAGA-C
*
962525 AAAAATCAAAAGAAAAAGGGAC
1 AAAAA-CAAAAGAAAAAGAGAC
962547 AAAA
1 AAAA
962551 GCACATGCAA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
20 7 0.18
21 14 0.36
22 16 0.41
23 2 0.05
ACGTcount: A:0.75, C:0.09, G:0.15, T:0.01
Consensus pattern (21 bp):
AAAAACAAAAGAAAAAGAGAC
Found at i:962550 original size:21 final size:20
Alignment explanation
Indices: 962485--962550 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 20
962475 AAAGCAAAAA
*
962485 AAAAC-AAAGAAAAAGAAAC
1 AAAACAAAAGAAAAAGAGAC
962504 AAGAACAAAAGAAAAA-AGAGC
1 AA-AACAAAAGAAAAAGAGA-C
*
962525 AAAAATCAAAAGAAAAAGGGAC
1 -AAAA-CAAAAGAAAAAGAGAC
962547 AAAA
1 AAAA
962551 GCACATGCAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
19 2 0.05
20 5 0.13
21 16 0.41
22 14 0.36
23 2 0.05
ACGTcount: A:0.74, C:0.09, G:0.15, T:0.02
Consensus pattern (20 bp):
AAAACAAAAGAAAAAGAGAC
Found at i:963198 original size:22 final size:22
Alignment explanation
Indices: 963170--963213 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
963160 AGCTACCCCA
963170 TCAAACC-TTTGAGCATCAAATG
1 TCAAACCATTT-AGCATCAAATG
963192 TCAAACCATTTAGCATCAAATG
1 TCAAACCATTTAGCATCAAATG
963214 AACAAAAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.39, C:0.23, G:0.11, T:0.27
Consensus pattern (22 bp):
TCAAACCATTTAGCATCAAATG
Found at i:964226 original size:36 final size:36
Alignment explanation
Indices: 964179--964299 Score: 197
Period size: 36 Copynumber: 3.3 Consensus size: 36
964169 ATTGAAAACA
* *
964179 TTTCCCTTGAAATAAATTTCGTCTCTCTTGAGATAG
1 TTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAG
*
964215 TTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAA-TAAATTTTGTCTCTCTTGAGACAG
*
964252 TTTCTCTTGAAATAAATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAG
964288 TTTCCCTTGAAA
1 TTTCCCTTGAAA
964300 CAAAATATTT
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
36 46 0.59
37 32 0.41
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.41
Consensus pattern (36 bp):
TTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAG
Found at i:964327 original size:102 final size:102
Alignment explanation
Indices: 964221--964409 Score: 290
Period size: 102 Copynumber: 1.9 Consensus size: 102
964211 ATAGTTTCCC
* *
964221 TTGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCTCTT-GAAATAAATTTTGTCTCTCTTGAGA
1 TTGAAAC-AAATTTCGTCTCCCTTGAGACAGTTTCTCTTGGAAATAAATTTTGTCTCTCTTGAGA
*
964285 CAGTTTCCCTTGAAACAAAATATTTGAATATGTTTTCT
65 CAGTTTCCCATGAAACAAAATATTTGAATATGTTTTCT
* * *
964323 TTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGAC
1 TTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGGAAATAAATTTTGTCTCTCTTGAGAC
* *
964388 AGTTTCTCATGAAACAACATAT
66 AGTTTCCCATGAAACAAAATAT
964410 ATCTTTGAGA
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
101 28 0.36
102 50 0.64
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (102 bp):
TTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGGAAATAAATTTTGTCTCTCTTGAGAC
AGTTTCCCATGAAACAAAATATTTGAATATGTTTTCT
Found at i:964379 original size:138 final size:138
Alignment explanation
Indices: 964123--964501 Score: 455
Period size: 138 Copynumber: 2.8 Consensus size: 138
964113 GTTTTTCTTA
* * * * *
964123 AAACAAGATTTGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAACA-TTGAAAACATTTCCCTT
1 AAACAACATTTGTCTCTCTTGAGACAGTTTCCCTTGAAACA-AAATATTTGAATATATTTCCCTT
* * *
964187 GAAATAAATTTCGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAG
65 GAAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAG
*
964252 TTTCTCTTG
130 TTTCTCATG
* * * *
964261 AAATAA-ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATATGTTTTCTTT
1 AAACAACA-TTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATATATTTCCCTT
** * * *
964325 GAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAG
65 GAAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAG
964390 TTTCTCATG
130 TTTCTCATG
* * * * *
964399 AAACAACA--TATATCT-TTGAGATCA-TTTCCCTTGAAACAAAATCTTTGAATTTATTTCCCCT
1 AAACAACATTTGTCTCTCTTGAGA-CAGTTTCCCTTGAAACAAAATATTTGAATATATTTCCCTT
* * *
964460 GAAACAAATTTTGTCTCCCTTGAGACAGTTACTCTTGAAACA
65 GAAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTTGAAACA
964502 CAAAATCTTT
Statistics
Matches: 206, Mismatches: 31, Indels: 11
0.83 0.12 0.04
Matches are distributed among these distances:
135 74 0.36
136 7 0.03
137 5 0.02
138 119 0.58
139 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (138 bp):
AAACAACATTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATATATTTCCCTTG
AAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAGT
TTCTCATG
Found at i:964443 original size:29 final size:29
Alignment explanation
Indices: 964410--964467 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
964400 AACAACATAT
*
964410 ATCTTTGAGA-TCATTTCCCTTGAAACAAA
1 ATCTTTGA-ATTCATTTCCCCTGAAACAAA
*
964439 ATCTTTGAATTTATTTCCCCTGAAACAAA
1 ATCTTTGAATTCATTTCCCCTGAAACAAA
964468 TTTTGTCTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 1 0.04
29 25 0.96
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.36
Consensus pattern (29 bp):
ATCTTTGAATTCATTTCCCCTGAAACAAA
Found at i:964517 original size:67 final size:68
Alignment explanation
Indices: 964434--964569 Score: 202
Period size: 68 Copynumber: 2.0 Consensus size: 68
964424 TTCCCTTGAA
* * *
964434 ACAAAATCTTTGAATTTATTTCCCCTGAAACA-AATTTTGTCTCCCTTGAGACAGTTACTCTTGA
1 ACAAAATCTTTAAATTTATTTCCCCTAAAACATAATTTTGTCTCCCTTGAGACAGTTACTCATGA
964498 AAC
66 AAC
* * * *
964501 ACAAAATCTTTAAATTTATTTCCCTTAAAACATAATTTTGTTTCCCTTGAGACTGTTTCTCATGA
1 ACAAAATCTTTAAATTTATTTCCCCTAAAACATAATTTTGTCTCCCTTGAGACAGTTACTCATGA
964566 AAC
66 AAC
964569 A
1 A
964570 ACATATATCT
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
67 29 0.48
68 32 0.52
ACGTcount: A:0.32, C:0.21, G:0.09, T:0.38
Consensus pattern (68 bp):
ACAAAATCTTTAAATTTATTTCCCCTAAAACATAATTTTGTCTCCCTTGAGACAGTTACTCATGA
AAC
Found at i:965335 original size:105 final size:105
Alignment explanation
Indices: 965174--965833 Score: 1003
Period size: 105 Copynumber: 6.3 Consensus size: 105
965164 GCCATCTGCG
* * *
965174 ATTTCAACTCCACGACGGAGGATATCGTGGCAC-TCGAGACAACGCAAGTTCAACTTCACGACGA
1 ATTTCAACTTCACAACGAAGGATAT--TGG-ACTTC-AGACAACGCAAGTTCAACTTCACGACGA
*
965238 AGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
62 AGGGACCGCTGCTTGTCAACAACAACTTCCCAATTTCAGAGCCA
965282 ATTTCAACTTCACAACGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
965347 ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATTTCAGAGCCA
965387 ATTTCAACTTCACAACGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
965452 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATTTCAGAGCCA
* *
965492 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
965557 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATTTCAGAGCCA
*
965597 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* **
965662 ACCGCTGCTTGTCAATAA-AA-TT--C-A-TTCAGATTCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATTTCAGAGCCA
* *
965696 ATTTCAACTTCACAACGAAGGATATTGGAC-TCGAGACAACACAAGTTCAACTTCACAACGAAGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTTC-AGACAACGCAAGTTCAACTTCACGACGAAGG
* * * ** *
965760 GACGGCTGGTTGTCAACAAACAATTTCCCGGTTACAGAGCCA
65 GACCGCTGCTTGTCAAC-AACAACTTCCCAATTTCAGAGCCA
* *
965802 ATTTCAACTTCACGACGGAGGATATTGGACTT
1 ATTTCAACTTCACAACGAAGGATATTGGACTT
965834 GGAACAATGC
Statistics
Matches: 518, Mismatches: 24, Indels: 21
0.92 0.04 0.04
Matches are distributed among these distances:
98 1 0.00
99 80 0.15
100 3 0.01
101 3 0.01
102 2 0.00
103 2 0.00
104 3 0.01
105 361 0.70
106 40 0.08
107 1 0.00
108 22 0.04
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (105 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGCTTGTCAACAACAACTTCCCAATTTCAGAGCCA
Found at i:972096 original size:22 final size:21
Alignment explanation
Indices: 972071--972111 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
972061 TATAAAAAAT
972071 TATTTTTATTAAATATTTTTGG
1 TATTTTTATTAAAT-TTTTTGG
*
972093 TATTTTTATTTAATTTTTT
1 TATTTTTATTAAATTTTTT
972112 AAATAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (21 bp):
TATTTTTATTAAATTTTTTGG
Found at i:973192 original size:238 final size:245
Alignment explanation
Indices: 972548--973220 Score: 858
Period size: 238 Copynumber: 2.7 Consensus size: 245
972538 CCGCCCCGAA
*
972548 GAAATAA-AAAAAATTATTTTTATTCAATAAAAACAATGACTTAATTGAAAAA-ATATATATATA
1 GAAATAATAAAAAATTATTTTTATTCAAT-AAAACAGTGACTTAATTGAAAAATAT-TATATATA
*
972611 GA-GGGTATTATTGTAATTATTCCT-AATATATAGGTAAAATTATATATTTTTTGGGTCGGGTCG
64 GAGGGGTATTA---TAATTATTCCTAAATATA-AGGTAAAATTATATA-TATTT---TCGGGTCG
* * *
972674 GGTATTTTTCACCCGAAACCCGAAC-CGACCCGACCCAAATATCACTTAAAAAAACTGACCCGAA
121 GGTATTTTTCACCCTAAACCCGAACTCGACCCGACCCGAATATCACTT-AAAAAACCGACCCGAA
*
972738 CCGACCAAAATAAAGTTTCACCCGACCCAACCCGAATATATGAATTAGAAATCTGACCTACCCTA
185 CCGACCAAAATAAAGTTTCACCC-ACCCAACCCGAATATATGAATTAG-AA--T-A-C-ACCCGA
972803 CCC
243 CCC
*
972806 GAAATAATAAAAAAAATATTTTTATTCAATAAAA-ACGATGACTTAATTGAAAAATA-T-TATAT
1 GAAATAAT-AAAAAATTATTTTTATTCAATAAAACA-G-TGACTTAATTGAAAAATATTATATAT
* * *
972868 AGAGGGGTATAATTATAATTATTCCTAAATATAAGTTAAAA-T-TATATATTTCCGGGTCAGGTA
63 AGAGGGG--T-ATTATAATTATTCCTAAATATAAGGTAAAATTATATATATTTTCGGGTCGGGTA
*
972931 TTTTTCACCCTAAACCCGAACTCGACCCGAACCGAATATCACTTAAAAAACCGACCCG-ACCGAC
125 TTTTTCACCCTAAACCCGAACTCGACCCGACCCGAATATCACTTAAAAAACCGACCCGAACCGAC
*
972995 CAAAATAAAGTTTCA-CC-CCCAACCCTAATATATGAATTAG-A-A-ACCCGACCC
190 CAAAATAAAGTTTCACCCACCCAACCCGAATATATGAATTAGAATACACCCGACCC
**
973046 GAAATAATAAAATTTTATTTTTATTCAATAAAACAGTGACTTAATTGAAAAATATTATATATAGA
1 GAAATAATAAAAAATTATTTTTATTCAATAAAACAGTGACTTAATTGAAAAATATTATATATAGA
*
973111 GGGGTATT-TAATTATTCCTAAATATAAGGTAAAATTATATATATTTTCGGGTCGGGGATTTTTC
66 GGGGTATTATAATTATTCCTAAATATAAGGTAAAATTATATATATTTTCGGGTCGGGTATTTTTC
973175 ACCCTAAACCCGAACTCGACCCGACCCGAATATCACACTTAAAAAA
131 ACCCTAAACCCGAACTCGACCCGACCCGAATAT--CACTTAAAAAA
973221 AACGACGCGA
Statistics
Matches: 377, Mismatches: 20, Indels: 54
0.84 0.04 0.12
Matches are distributed among these distances:
236 25 0.07
237 4 0.01
238 75 0.20
239 24 0.06
240 40 0.11
243 1 0.00
247 1 0.00
249 22 0.06
251 2 0.01
252 21 0.06
253 43 0.11
254 20 0.05
256 4 0.01
257 4 0.01
258 17 0.05
259 26 0.07
260 42 0.11
261 2 0.01
262 4 0.01
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (245 bp):
GAAATAATAAAAAATTATTTTTATTCAATAAAACAGTGACTTAATTGAAAAATATTATATATAGA
GGGGTATTATAATTATTCCTAAATATAAGGTAAAATTATATATATTTTCGGGTCGGGTATTTTTC
ACCCTAAACCCGAACTCGACCCGACCCGAATATCACTTAAAAAACCGACCCGAACCGACCAAAAT
AAAGTTTCACCCACCCAACCCGAATATATGAATTAGAATACACCCGACCC
Found at i:973359 original size:22 final size:23
Alignment explanation
Indices: 973334--973384 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
973324 GATCAATTCA
*
973334 AATTCC-TCCAACAAGGGAATTG
1 AATTCCTTCCAACAAGGAAATTG
973356 AATTCCTTCCAACAAGGAAATTG
1 AATTCCTTCCAACAAGGAAATTG
973379 AATTCC
1 AATTCC
973385 ATCATAGAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 6 0.22
23 21 0.78
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.25
Consensus pattern (23 bp):
AATTCCTTCCAACAAGGAAATTG
Found at i:973893 original size:92 final size:92
Alignment explanation
Indices: 973770--973960 Score: 366
Period size: 92 Copynumber: 2.1 Consensus size: 92
973760 CAATTTTGGA
973770 AAAATAACGTTTTGATCACTTATATATCAAATTATCTTATTTTGATCATTGACTTGCTAACTTTA
1 AAAATAACGTTTTGATCACTTATATATCAAATTATCTTATTTTGATCATTGACTTGCTAACTTTA
973835 ATTAATTTAATAACATGATACGTTAAT
66 ATTAATTTAATAACATGATACGTTAAT
973862 AAAATAACG-TTTGATCACTTATATTATCAAATTATCTTATTTTGATCATTGACTTGCTAACTTT
1 AAAATAACGTTTTGATCACTTATA-TATCAAATTATCTTATTTTGATCATTGACTTGCTAACTTT
973926 AATTAATTTAATAACATGATACGTTAAT
65 AATTAATTTAATAACATGATACGTTAAT
973954 AAAATAA
1 AAAATAA
973961 TTTTTTATTT
Statistics
Matches: 98, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
91 14 0.14
92 84 0.86
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.42
Consensus pattern (92 bp):
AAAATAACGTTTTGATCACTTATATATCAAATTATCTTATTTTGATCATTGACTTGCTAACTTTA
ATTAATTTAATAACATGATACGTTAAT
Found at i:974105 original size:13 final size:13
Alignment explanation
Indices: 974087--974112 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
974077 GTCGTATCAG
974087 TTGTTTAAATCTC
1 TTGTTTAAATCTC
974100 TTGTTTAAATCTC
1 TTGTTTAAATCTC
974113 AACATCATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.08, T:0.54
Consensus pattern (13 bp):
TTGTTTAAATCTC
Found at i:974324 original size:17 final size:16
Alignment explanation
Indices: 974302--974336 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 16
974292 TTCGTGAAAC
974302 AACAAAGGAAGAAGGAA
1 AACAAAGGAAGAA-GAA
974319 AACAAAGGAAGAAGAA
1 AACAAAGGAAGAAGAA
974335 AA
1 AA
974337 GAATAGGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.69, C:0.06, G:0.26, T:0.00
Consensus pattern (16 bp):
AACAAAGGAAGAAGAA
Found at i:978883 original size:21 final size:21
Alignment explanation
Indices: 978859--978899 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
978849 GAGAAAAAAG
* *
978859 TTATTATTTGTGTTTATTATT
1 TTATTATTTCTATTTATTATT
*
978880 TTATTTTTTCTATTTATTAT
1 TTATTATTTCTATTTATTAT
978900 ACTGTTTATG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.73
Consensus pattern (21 bp):
TTATTATTTCTATTTATTATT
Found at i:982861 original size:16 final size:16
Alignment explanation
Indices: 982836--982879 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
982826 ATTATTTAAT
* *
982836 AATTTATTATTTTATTA
1 AATTT-TTATTATACTA
982853 AATTTTTATTATACTA
1 AATTTTTATTATACTA
*
982869 ATTTTTTATTA
1 AATTTTTATTA
982880 CTTTTTGCAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 19 0.79
17 5 0.21
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (16 bp):
AATTTTTATTATACTA
Found at i:990513 original size:18 final size:18
Alignment explanation
Indices: 990490--990524 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
990480 TTCCATCCGG
*
990490 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
990508 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
990525 GTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:991836 original size:12 final size:12
Alignment explanation
Indices: 991819--991845 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
991809 CTCCGGTCAA
991819 CGGTCAACGGGT
1 CGGTCAACGGGT
991831 CGGTCAACGGGT
1 CGGTCAACGGGT
991843 CGG
1 CGG
991846 GTCGGGTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.26, G:0.44, T:0.15
Consensus pattern (12 bp):
CGGTCAACGGGT
Found at i:991855 original size:18 final size:18
Alignment explanation
Indices: 991826--991901 Score: 101
Period size: 18 Copynumber: 4.6 Consensus size: 18
991816 CAACGGTCAA
991826 CGGGTC-GGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
991843 CGGGTCGGGTCAA-----
1 CGGGTCGGGTCAACGGGT
*
991856 CGGGTCGGGTAAACGGGT
1 CGGGTCGGGTCAACGGGT
991874 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
991892 CGGGTCGGGT
1 CGGGTCGGGT
991902 TGTGACCGGT
Statistics
Matches: 51, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
13 12 0.24
17 6 0.12
18 33 0.65
ACGTcount: A:0.12, C:0.21, G:0.50, T:0.17
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGGT
Found at i:991874 original size:31 final size:31
Alignment explanation
Indices: 991820--991896 Score: 138
Period size: 31 Copynumber: 2.5 Consensus size: 31
991810 TCCGGTCAAC
*
991820 GGTCAACGGGTC-GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTAAACGGGTCGGGTCG
991850 GGTCAACGGGTCGGGTAAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTAAACGGGTCGGGTCG
991881 GGTCAACGGGTCGGGT
1 GGTCAACGGGTCGGGT
991897 CGGGTTGTGA
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
30 12 0.27
31 33 0.73
ACGTcount: A:0.14, C:0.21, G:0.48, T:0.17
Consensus pattern (31 bp):
GGTCAACGGGTCGGGTAAACGGGTCGGGTCG
Found at i:991897 original size:13 final size:13
Alignment explanation
Indices: 991843--991879 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
991833 GTCAACGGGT
991843 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
*
991856 CGGGTCGGGTAAA
1 CGGGTCGGGTCAA
991869 CGGGTCGGGTC
1 CGGGTCGGGTC
991880 GGGTCAACGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.14, C:0.22, G:0.49, T:0.16
Consensus pattern (13 bp):
CGGGTCGGGTCAA
Found at i:995703 original size:18 final size:18
Alignment explanation
Indices: 995680--995714 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
995670 TTCCATCCGG
*
995680 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
995698 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
995715 GTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:997028 original size:12 final size:12
Alignment explanation
Indices: 997011--997037 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
997001 CTCCGGTCAA
997011 CGGTCAACGGGT
1 CGGTCAACGGGT
997023 CGGTCAACGGGT
1 CGGTCAACGGGT
997035 CGG
1 CGG
997038 GTCGGGTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.26, G:0.44, T:0.15
Consensus pattern (12 bp):
CGGTCAACGGGT
Found at i:997047 original size:18 final size:18
Alignment explanation
Indices: 997018--997093 Score: 101
Period size: 18 Copynumber: 4.6 Consensus size: 18
997008 CAACGGTCAA
997018 CGGGTC-GGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
997035 CGGGTCGGGTCAA-----
1 CGGGTCGGGTCAACGGGT
*
997048 CGGGTCGGGTAAACGGGT
1 CGGGTCGGGTCAACGGGT
997066 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
997084 CGGGTCGGGT
1 CGGGTCGGGT
997094 TGTGACCGGT
Statistics
Matches: 51, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
13 12 0.24
17 6 0.12
18 33 0.65
ACGTcount: A:0.12, C:0.21, G:0.50, T:0.17
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGGT
Found at i:997066 original size:31 final size:31
Alignment explanation
Indices: 997012--997088 Score: 138
Period size: 31 Copynumber: 2.5 Consensus size: 31
997002 TCCGGTCAAC
*
997012 GGTCAACGGGTC-GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTAAACGGGTCGGGTCG
997042 GGTCAACGGGTCGGGTAAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTAAACGGGTCGGGTCG
997073 GGTCAACGGGTCGGGT
1 GGTCAACGGGTCGGGT
997089 CGGGTTGTGA
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
30 12 0.27
31 33 0.73
ACGTcount: A:0.14, C:0.21, G:0.48, T:0.17
Consensus pattern (31 bp):
GGTCAACGGGTCGGGTAAACGGGTCGGGTCG
Found at i:997089 original size:13 final size:13
Alignment explanation
Indices: 997035--997071 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
997025 GTCAACGGGT
997035 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
*
997048 CGGGTCGGGTAAA
1 CGGGTCGGGTCAA
997061 CGGGTCGGGTC
1 CGGGTCGGGTC
997072 GGGTCAACGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.14, C:0.22, G:0.49, T:0.16
Consensus pattern (13 bp):
CGGGTCGGGTCAA
Found at i:1002476 original size:19 final size:19
Alignment explanation
Indices: 1002452--1002505 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
1002442 TTGGAATATG
*
1002452 TATGTGGTCTTTCGAGACA
1 TATGTGGTCATTCGAGACA
*
1002471 TATGTGGTCATTCGGGACA
1 TATGTGGTCATTCGAGACA
*
1002490 TCTATGAGGTCATTCG
1 --TATGTGGTCATTCG
1002506 GGATAAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 17 0.57
21 13 0.43
ACGTcount: A:0.20, C:0.17, G:0.28, T:0.35
Consensus pattern (19 bp):
TATGTGGTCATTCGAGACA
Found at i:1003364 original size:17 final size:17
Alignment explanation
Indices: 1003342--1003376 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
1003332 ATAGTGTTAG
1003342 AGGATTTCCACTATTCC
1 AGGATTTCCACTATTCC
* *
1003359 AGGATTTTCACTGTTCC
1 AGGATTTCCACTATTCC
1003376 A
1 A
1003377 AAGTGGAGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.23, C:0.26, G:0.14, T:0.37
Consensus pattern (17 bp):
AGGATTTCCACTATTCC
Found at i:1011222 original size:21 final size:23
Alignment explanation
Indices: 1011174--1011239 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
1011164 GTCGTTGGTT
*
1011174 CTATGTGGTCCTTCGGGACAAAA
1 CTATGTGGTCATTCGGGACAAAA
1011197 CTATGTGGTCATTCGGGA-AAAA
1 CTATGTGGTCATTCGGGACAAAA
*
1011219 -TATGTGG-CACTTCGGTACAAA
1 CTATGTGGTCA-TTCGGGACAAA
1011240 TTTTATGAGC
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
20 2 0.05
21 13 0.33
22 7 0.18
23 17 0.44
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (23 bp):
CTATGTGGTCATTCGGGACAAAA
Found at i:1011240 original size:21 final size:22
Alignment explanation
Indices: 1011175--1011240 Score: 75
Period size: 21 Copynumber: 3.0 Consensus size: 22
1011165 TCGTTGGTTC
1011175 TATGTGGTC-CTTCGGGACAAAA
1 TATGTGGTCACTTCGGGAC-AAA
*
1011197 CTATGTGGTCA-TTCGGGAAAAA
1 -TATGTGGTCACTTCGGGACAAA
*
1011219 TATGTGG-CACTTCGGTACAAA
1 TATGTGGTCACTTCGGGACAAA
1011240 T
1 T
1011241 TTTATGAGCA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
20 2 0.05
21 17 0.45
22 3 0.08
23 16 0.42
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.29
Consensus pattern (22 bp):
TATGTGGTCACTTCGGGACAAA
Found at i:1014418 original size:46 final size:46
Alignment explanation
Indices: 1014144--1014417 Score: 442
Period size: 46 Copynumber: 6.0 Consensus size: 46
1014134 CATCCATTTA
** *
1014144 CATCCTTTCATGTTTTAATGCATCATTTCATGCATTTTAGTTATGG
1 CATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAATTATGG
*
1014190 CATAC-TTCATGCCTTAATGCATCATTTCATGCATTTTAATTATGG
1 CATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAATTATGG
*
1014235 CATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAATTATGG
1 CATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAATTATGG
* ** *
1014281 CATCCTTTCATACCTTAATTTATCCTTTCATGCATTTTAATTATGG
1 CATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAATTATGG
*
1014327 CATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAATTATGA
1 CATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAATTATGG
*
1014373 CATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAATTATG
1 CATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAATTATG
1014418 AATATGATTT
Statistics
Matches: 212, Mismatches: 15, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
45 41 0.19
46 171 0.81
ACGTcount: A:0.24, C:0.22, G:0.10, T:0.45
Consensus pattern (46 bp):
CATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAATTATGG
Found at i:1020322 original size:20 final size:20
Alignment explanation
Indices: 1020299--1020344 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
1020289 TATGGCATTC
1020299 TTTCATGCCTCAATGCATCA
1 TTTCATGCCTCAATGCATCA
*
1020319 TTTCATGCCTCAATGCATCT
1 TTTCATGCCTCAATGCATCA
1020339 TTTCAT
1 TTTCAT
1020345 ACATTTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.22, C:0.28, G:0.09, T:0.41
Consensus pattern (20 bp):
TTTCATGCCTCAATGCATCA
Found at i:1020384 original size:20 final size:20
Alignment explanation
Indices: 1020359--1020455 Score: 104
Period size: 20 Copynumber: 4.5 Consensus size: 20
1020349 TTTATTTATG
*
1020359 GCATCCTTTCTTGCCTTAAT
1 GCATCCTTTCATGCCTTAAT
*
1020379 GCATCCTTTCATGCATTCTAATTAT
1 GCATCCTTTCATGC---CT--TAAT
*
1020404 GGTATCCTTTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
1020425 GCATCCTTTCATGCCTTAAT
1 GCATCCTTTCATGCCTTAAT
*
1020445 GCATCATTTCA
1 GCATCCTTTCA
1020456 AGCATTTTAA
Statistics
Matches: 65, Mismatches: 6, Indels: 12
0.78 0.07 0.14
Matches are distributed among these distances:
20 42 0.65
21 3 0.05
23 4 0.06
25 3 0.05
26 13 0.20
ACGTcount: A:0.21, C:0.27, G:0.10, T:0.42
Consensus pattern (20 bp):
GCATCCTTTCATGCCTTAAT
Found at i:1020427 original size:112 final size:112
Alignment explanation
Indices: 1020286--1020516 Score: 338
Period size: 112 Copynumber: 2.1 Consensus size: 112
1020276 TATACGTTTA
* *
1020286 AATTATGGCATTCTTTCATGCCTCAATGCATCATTTCATGCCTCAATGCATCTTTTCATA-CATT
1 AATTATGGCATCCTTTCATGCCTCAATGCATCATTTCATGCCTCAATGCATCATTTCA-AGCATT
* * * * *
1020350 TTATTTATGGCATCCTTTCTTGCCTTAATGCATCCTTTCATGCATTCT
65 TTAATTATGGCATCCTTTCATACCTTAATGCATACTCTCATGCATTCT
* * * *
1020398 AATTATGGTATCCTTTCATGCCTTAATGCATCCTTTCATGCCTTAATGCATCATTTCAAGCATTT
1 AATTATGGCATCCTTTCATGCCTCAATGCATCATTTCATGCCTCAATGCATCATTTCAAGCATTT
*
1020463 TAATTATGGCATCCTTTCATACCTTAATGCATACTCTCATGCATTTT
66 TAATTATGGCATCCTTTCATACCTTAATGCATACTCTCATGCATTCT
1020510 AATTATG
1 AATTATG
1020517 AATCATATTT
Statistics
Matches: 106, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
111 1 0.01
112 105 0.99
ACGTcount: A:0.24, C:0.23, G:0.10, T:0.43
Consensus pattern (112 bp):
AATTATGGCATCCTTTCATGCCTCAATGCATCATTTCATGCCTCAATGCATCATTTCAAGCATTT
TAATTATGGCATCCTTTCATACCTTAATGCATACTCTCATGCATTCT
Found at i:1020429 original size:66 final size:66
Alignment explanation
Indices: 1020359--1020504 Score: 220
Period size: 66 Copynumber: 2.2 Consensus size: 66
1020349 TTTATTTATG
* * * * *
1020359 GCATCCTTTCTTGCCTTAATGCATCCTTTCATGCATTCTAATTATGGTATCCTTTCATGCCTTAA
1 GCATCCTTTCATGCCTTAATGCATCATTTCAAGCATTCTAATTATGGCATCCTTTCATACCTTAA
1020424 T
66 T
*
1020425 GCATCCTTTCATGCCTTAATGCATCATTTCAAGCATTTTAATTATGGCATCCTTTCATACCTTAA
1 GCATCCTTTCATGCCTTAATGCATCATTTCAAGCATTCTAATTATGGCATCCTTTCATACCTTAA
1020490 T
66 T
* *
1020491 GCATACTCTCATGC
1 GCATCCTTTCATGC
1020505 ATTTTAATTA
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 72 1.00
ACGTcount: A:0.23, C:0.26, G:0.10, T:0.41
Consensus pattern (66 bp):
GCATCCTTTCATGCCTTAATGCATCATTTCAAGCATTCTAATTATGGCATCCTTTCATACCTTAA
T
Found at i:1020437 original size:46 final size:46
Alignment explanation
Indices: 1020313--1020438 Score: 180
Period size: 46 Copynumber: 2.7 Consensus size: 46
1020303 ATGCCTCAAT
* * * * * *
1020313 GCATCATTTCATGCCTCAATGCATCTTTTCATACATTTTATTTATG
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTCTAATTATG
*
1020359 GCATCCTTTCTTGCCTTAATGCATCCTTTCATGCATTCTAATTATG
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTCTAATTATG
*
1020405 GTATCCTTTCATGCCTTAATGCATCCTTTCATGC
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGC
1020439 CTTAATGCAT
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 71 1.00
ACGTcount: A:0.21, C:0.25, G:0.10, T:0.44
Consensus pattern (46 bp):
GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTCTAATTATG
Found at i:1020475 original size:46 final size:46
Alignment explanation
Indices: 1020425--1020516 Score: 141
Period size: 46 Copynumber: 2.0 Consensus size: 46
1020415 ATGCCTTAAT
* *
1020425 GCATCCTTTCATGCCTTAATGCAT-CATTTCAAGCATTTTAATTATG
1 GCATCCTTTCATACCTTAATGCATAC-TCTCAAGCATTTTAATTATG
*
1020471 GCATCCTTTCATACCTTAATGCATACTCTCATGCATTTTAATTATG
1 GCATCCTTTCATACCTTAATGCATACTCTCAAGCATTTTAATTATG
1020517 AATCATATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
46 41 0.98
47 1 0.02
ACGTcount: A:0.26, C:0.23, G:0.10, T:0.41
Consensus pattern (46 bp):
GCATCCTTTCATACCTTAATGCATACTCTCAAGCATTTTAATTATG
Found at i:1023501 original size:53 final size:54
Alignment explanation
Indices: 1023405--1023524 Score: 163
Period size: 53 Copynumber: 2.2 Consensus size: 54
1023395 TACCTCTAGG
* *
1023405 GGGTATCGGTACCCATTGGGCATTATGTTTTTCTCGGAGCCAAAATTAACACAA
1 GGGTATCGGTACCCATTGGGCATTATGTTGTTCTCGGAGCCAAAATCAACACAA
* * *
1023459 GGGTATCGGTACCCGCTT-GG-ATTCTGTTGTTCTCGGAGCCAAAATCAACATAA
1 GGGTATCGGTACCC-ATTGGGCATTATGTTGTTCTCGGAGCCAAAATCAACACAA
*
1023512 GGGTATCGATACC
1 GGGTATCGGTACC
1023525 TATGACTTAG
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
53 41 0.69
54 16 0.27
55 2 0.03
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (54 bp):
GGGTATCGGTACCCATTGGGCATTATGTTGTTCTCGGAGCCAAAATCAACACAA
Found at i:1025547 original size:15 final size:15
Alignment explanation
Indices: 1025522--1025556 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
1025512 TTTTAAGAAA
*
1025522 ATATA-TTAATATCT
1 ATATATTTAATATAT
1025536 ATATATTTAATATAT
1 ATATATTTAATATAT
1025551 ATATAT
1 ATATAT
1025557 ATATATTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (15 bp):
ATATATTTAATATAT
Found at i:1025766 original size:139 final size:148
Alignment explanation
Indices: 1025683--1025953 Score: 277
Period size: 148 Copynumber: 1.8 Consensus size: 148
1025673 CTAAAAATAA
* * * *
1025683 TAAATTAA-AT-TA-ATATATATAATTTATAAAAGTA-GATATTTATTTATTTAAAAATATCATA
1 TAAATTAATATATATATATATAT-ATATATATAAGCATGATATTTATTTATTTAAAAATATCAAA
* *** *
1025744 AAGGACATCCAGTTATTTTAAGACTGTC-ATCTTAATA-TAAAAAATAAATAAATATTAAAAATA
65 AAGGACATCTAGTTATTTTAAGACCCCCTTTCTTAATATTAAAAAATAAAT-AATATTAAAAATA
*
1025807 ATTAAAATAATTTATAAAAT
129 ATTAAAATAATTAATAAAAT
* * *
1025827 TAAATTAAATATATATATATATATATATATATAAGCATGATATTTA-TTATTTTTAAGATACCAG
1 TAAATT-AATATATATATATATATATATATATAAGCATGATATTTATTTA-TTTAAAAATATCA-
* * *
1025891 AATAGGACATCTAGTTATTTTAAGACTGCCCTTTCTTAATATTTTAAAAATAAATAAATATTA
63 AAAAGGACATCTAGTTATTTTAAGAC-CCCCTTTCTTAATA-TTAAAAAATAAAT-AATATTA
1025954 TTAACTTATA
Statistics
Matches: 102, Mismatches: 14, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
144 6 0.06
145 2 0.02
146 2 0.02
147 15 0.15
148 26 0.25
149 23 0.23
150 1 0.01
151 8 0.08
153 19 0.19
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.40
Consensus pattern (148 bp):
TAAATTAATATATATATATATATATATATATAAGCATGATATTTATTTATTTAAAAATATCAAAA
AGGACATCTAGTTATTTTAAGACCCCCTTTCTTAATATTAAAAAATAAATAATATTAAAAATAAT
TAAAATAATTAATAAAAT
Found at i:1025803 original size:17 final size:17
Alignment explanation
Indices: 1025777--1025816 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
1025767 CTGTCATCTT
1025777 AATATAAAAAATAAATA
1 AATATAAAAAATAAATA
* *
1025794 AATATTAAAAATAATTA
1 AATATAAAAAATAAATA
1025811 AA-ATAA
1 AATATAA
1025817 TTTATAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (17 bp):
AATATAAAAAATAAATA
Found at i:1025842 original size:2 final size:2
Alignment explanation
Indices: 1025835--1025859 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1025825 ATTAAATTAA
1025835 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1025860 AGCATGATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1025845 original size:23 final size:22
Alignment explanation
Indices: 1025788--1025845 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 22
1025778 ATATAAAAAA
*
1025788 TAAATAAATAT-TAAAAATAAT
1 TAAATATATATATAAAAATAAT
* *
1025809 TAAA-ATAATTTATAAAATTAAAT
1 TAAATAT-ATATATAAAAAT-AAT
1025832 TAAATATATATATA
1 TAAATATATATATA
1025846 TATATATATA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
20 1 0.03
21 7 0.24
22 6 0.21
23 13 0.45
24 2 0.07
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
TAAATATATATATAAAAATAAT
Found at i:1025914 original size:149 final size:147
Alignment explanation
Indices: 1025683--1025953 Score: 352
Period size: 149 Copynumber: 1.8 Consensus size: 147
1025673 CTAAAAATAA
* * * *
1025683 TAAATTAAATTAATATATATAATTTATAAAAGTAGATATTTATTTATTTAAAAATATCATAAAGG
1 TAAATTAAATTAATATATATAATATATAAAAGCAGATATTTATTTATTTAAAAATACCAGAAAGG
*
1025748 ACATCCAGTTATTTTAAGACTG-TC-ATCTTAATA-TAAAAAATAAATAAATATTAAAAATAATT
66 ACATCCAGTTATTTTAAGACTGCCCTATCTTAATATTAAAAAATAAATAAATATTAAAAATAATT
1025810 AAAATAATTTATAAAAT
131 AAAATAATTTATAAAAT
* * *
1025827 TAAATTAAATATATATATATATATATATATATAAGCATGATATTTA-TTATTTTTAAGATACCAG
1 TAAATTAAAT-TA-ATATATATA-ATATATAAAAGCA-GATATTTATTTA-TTTAAAAATACCAG
* * *
1025891 AATAGGACATCTAGTTATTTTAAGACTGCCCTTTCTTAATATTTTAAAAATAAATAAATATTA
61 AA-AGGACATCCAGTTATTTTAAGACTGCCCTATCTTAATA-TTAAAAAATAAATAAATATTA
1025954 TTAACTTATA
Statistics
Matches: 106, Mismatches: 11, Indels: 11
0.83 0.09 0.09
Matches are distributed among these distances:
144 10 0.09
145 2 0.02
146 9 0.08
147 13 0.12
148 20 0.19
149 24 0.23
150 1 0.01
151 8 0.08
153 19 0.18
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.40
Consensus pattern (147 bp):
TAAATTAAATTAATATATATAATATATAAAAGCAGATATTTATTTATTTAAAAATACCAGAAAGG
ACATCCAGTTATTTTAAGACTGCCCTATCTTAATATTAAAAAATAAATAAATATTAAAAATAATT
AAAATAATTTATAAAAT
Found at i:1026039 original size:12 final size:13
Alignment explanation
Indices: 1025992--1026094 Score: 64
Period size: 13 Copynumber: 7.2 Consensus size: 13
1025982 ATATTATATG
1025992 ATTAAAATA-AATA
1 ATTAAAATATAA-A
**
1026005 ATTAAAATATTGA
1 ATTAAAATATAAA
1026018 ATTAAAATATAAA
1 ATTAAAATATAAA
1026031 ATTAAATATAACTAAA
1 ATTAAA-AT-A-TAAA
1026047 CATACTAAAATAAATAAA
1 -AT--TAAAAT--ATAAA
**
1026065 ATTAAAAACTATAGT
1 ATT-AAAA-TATAAA
1026080 ATTAAAATATAAA
1 ATTAAAATATAAA
1026093 AT
1 AT
1026095 GAAAGTATTT
Statistics
Matches: 72, Mismatches: 8, Indels: 20
0.72 0.08 0.20
Matches are distributed among these distances:
13 33 0.46
14 6 0.08
15 8 0.11
16 8 0.11
17 5 0.07
18 6 0.08
19 6 0.08
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (13 bp):
ATTAAAATATAAA
Found at i:1026070 original size:24 final size:23
Alignment explanation
Indices: 1026017--1026071 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
1026007 TAAAATATTG
*
1026017 AATTAAAATATAAAATTAAATAT
1 AATTAAAATATAAAATTAAATAA
*
1026040 AACTAAACATACTAAAA-TAAATAA
1 AATTAAA-ATA-TAAAATTAAATAA
1026064 AATTAAAA
1 AATTAAAA
1026072 ACTATAGTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 7 0.26
24 15 0.56
25 5 0.19
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.27
Consensus pattern (23 bp):
AATTAAAATATAAAATTAAATAA
Found at i:1027299 original size:3 final size:3
Alignment explanation
Indices: 1027291--1027345 Score: 89
Period size: 3 Copynumber: 19.3 Consensus size: 3
1027281 CTGAAATGTA
1027291 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT AAT -AT AAT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1027336 AAT AAT AAT A
1 AAT AAT AAT A
1027346 TACTAAAATA
Statistics
Matches: 49, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
2 6 0.12
3 43 0.88
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:1027323 original size:8 final size:8
Alignment explanation
Indices: 1027292--1027342 Score: 84
Period size: 8 Copynumber: 6.1 Consensus size: 8
1027282 TGAAATGTAA
1027292 ATAATAAT
1 ATAATAAT
1027300 AATAATAAT
1 -ATAATAAT
1027309 AATAATAAT
1 -ATAATAAT
1027318 ATAATAAT
1 ATAATAAT
1027326 ATAATAAT
1 ATAATAAT
1027334 ATAATAAT
1 ATAATAAT
1027342 A
1 A
1027343 ATATACTAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
8 25 0.60
9 17 0.40
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (8 bp):
ATAATAAT
Found at i:1027988 original size:235 final size:238
Alignment explanation
Indices: 1027713--1028391 Score: 770
Period size: 236 Copynumber: 2.8 Consensus size: 238
1027703 GAATTAAGGC
* *
1027713 AGGTTGAACAAATTATTATCATTATGAACTTCTTCTTCCTCTTCAGATGAGTATTCTCATTATGA
1 AGGTTGAACAAATTCTTATCATTATGAACTTCTTCTTCCTCTTCAGATGAGTCTTCTCATTAT-A
* *
1027778 CAC-T-TCTGGAAATGTTTATCTGATCTATCTCCTTCTGTGATAGCGTCATGCAAAAGGTTGAAC
65 AACTTCTCTGGAAATGTTTAT-TGATCTATCTCCTTCTGTGATAGAGTCATGCAAAAGGTTGAAC
1027841 AAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTT-TCATTATGACACT-TCTGG
129 AAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTTCTCATTATGA-ACTCTCTGG
1027904 AAATGTTGATGCTGATCTATCTCATTCTGTGATTA-A-TCGA-GCAAA
193 AAATGTTGATGCTGATCTATCTCATTCTGTGA-TAGAGTC-ATGCAAA
* ** * *
1027949 AGGTTGAAGAGGTTCTTATTATTATGAAC-TCTTCTTCCTCTTCAGATGATTTCTTCTCATTATA
1 AGGTTGAACAAATTCTTATCATTATGAACTTCTTCTTCCTCTTCAGATGA-GTCTTCTCATTATA
* * * * *
1028013 AACTTCCTCTGGAAATGTTGGTGTTGATTTATCTCCTTCTG-GATAGAATCAAGCAAAAGGTTAA
65 AACTT-CTCTGGAAATGTT--TATTGATCTATCTCCTTCTGTGATAGAGTCATGCAAAAGGTTGA
*
1028077 ACAAGTTCTTCTCA-T-T--A----TTCTTCCTCTTCATATGAGTTCTTCTCATTATGAACTCCC
127 ACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAG-T-TTCTCATTATGAACT--C
* *
1028134 TCTGGAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAGTCATGCAAC
188 TCTGGAAATGTTGATGCTGATCTATCTCATTCTGTGATAGAGTCATGCAAA
* * * * *
1028185 AGGTTGAACAAATTCTTCTCATTATAAACTTATTCTT-CTCTTCAGATAAGTTCTTCTTATTATA
1 AGGTTGAACAAATTCTTATCATTATGAACTTCTTCTTCCTCTTCAGATGAG-TCTTCTCATTATA
* * *
1028249 AACTTTCTCTGGCAAA-GTGTATGATGATCTATCTCC-T-TGTGATATAGTAATGCAAAAGGTTG
65 AAC-TTCTCTGG-AAATGTTTAT--TGATCTATCTCCTTCTGTGATAGAGTCATGCAAAAGGTTG
*
1028311 AACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTCC
126 AACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAG-T-TTCTCATTATGAACT--
*
1028376 CTCTGGAAATATTGAT
187 CTCTGGAAATGTTGAT
1028392 CCATTGAGTG
Statistics
Matches: 375, Mismatches: 38, Indels: 53
0.80 0.08 0.11
Matches are distributed among these distances:
230 18 0.05
231 1 0.00
232 5 0.01
233 9 0.02
234 7 0.02
235 93 0.25
236 112 0.30
237 13 0.03
238 45 0.12
239 17 0.05
240 2 0.01
243 53 0.14
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.40
Consensus pattern (238 bp):
AGGTTGAACAAATTCTTATCATTATGAACTTCTTCTTCCTCTTCAGATGAGTCTTCTCATTATAA
ACTTCTCTGGAAATGTTTATTGATCTATCTCCTTCTGTGATAGAGTCATGCAAAAGGTTGAACAA
GTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTTCTCATTATGAACTCTCTGGAAA
TGTTGATGCTGATCTATCTCATTCTGTGATAGAGTCATGCAAA
Found at i:1029945 original size:75 final size:75
Alignment explanation
Indices: 1029815--1029981 Score: 183
Period size: 75 Copynumber: 2.2 Consensus size: 75
1029805 AAGATGATAT
* * * * *
1029815 GGGCCTTCAGCATGCCCCAATATTTGCTGATACAGACATTCAAAATGCACCAATATTCCTGA-TT
1 GGGCTTTCAGCATGCCCCAACATTTACTGATACAAACATTCAAAATGCACCAATATT-CTAATTT
1029879 CTGATTGAAAG
65 CTGATTGAAAG
* ** ***
1029890 GGGCTTTCAGCATGCCCCAACATTTACTGATATAAATGTTCAAAATGCGTTAATATTCTAATTTC
1 GGGCTTTCAGCATGCCCCAACATTTACTGATACAAACATTCAAAATGCACCAATATTCTAATTTC
*
1029955 TGATTGAAAT
66 TGATTGAAAG
* * *
1029965 GAGTTTTCAACATGCCC
1 GGGCTTTCAGCATGCCC
1029982 TAGCATTTGT
Statistics
Matches: 76, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
74 3 0.04
75 73 0.96
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.32
Consensus pattern (75 bp):
GGGCTTTCAGCATGCCCCAACATTTACTGATACAAACATTCAAAATGCACCAATATTCTAATTTC
TGATTGAAAG
Found at i:1032511 original size:65 final size:63
Alignment explanation
Indices: 1032392--1032601 Score: 212
Period size: 65 Copynumber: 3.3 Consensus size: 63
1032382 ATTTTCAGAG
* *
1032392 TGATGCACCGATGCACTAATCCATGCATCGATGCAC-CATGA-ATTAAATTG-AACATCGAATGC
1 TGATGCATCGATGCAC-AA-CCATGCATCGATGCACTCAGGATATT---TTGAAACATCGAATGC
1032454 ATT
61 ATT
* *
1032457 TCATGCATCGATGCACATACCATGCATCGATGCACTGAGGAT-TTTATGAAAACATCGAATGCAT
1 TGATGCATCGATGCACA-ACCATGCATCGATGCACTCAGGATATTT-TG-AAACATCGAATGCAT
1032521 T
63 T
* * * * * *
1032522 TGATGTATCGATGCACCAGCCATGCATCGATGCACTCTGGCTATTTTGAAACATCTAATGCACT
1 TGATGCATCGATGCA-CAACCATGCATCGATGCACTCAGGATATTTTGAAACATCGAATGCATT
*
1032586 TGATGCATCAATGCAC
1 TGATGCATCGATGCAC
1032602 TCTTAGTGCA
Statistics
Matches: 123, Mismatches: 14, Indels: 18
0.79 0.09 0.12
Matches are distributed among these distances:
62 1 0.01
63 3 0.02
64 44 0.36
65 70 0.57
66 5 0.04
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (63 bp):
TGATGCATCGATGCACAACCATGCATCGATGCACTCAGGATATTTTGAAACATCGAATGCATT
Found at i:1038352 original size:20 final size:21
Alignment explanation
Indices: 1038327--1038444 Score: 96
Period size: 23 Copynumber: 5.4 Consensus size: 21
1038317 TTGTGCTTCA
1038327 TGCATCGATACACC-T-AACAG
1 TGCATCGATACACCTTGAA-AG
* *
1038347 TGCATCGATGCATCCTTGAATG
1 TGCATCGATACA-CCTTGAAAG
* *
1038369 TGCATCGATACACCATGAATG
1 TGCATCGATACACCTTGAAAG
* *
1038390 TGCATCGATGCACGCCTTGAATG
1 TGCATCGAT--ACACCTTGAAAG
* *
1038413 TGCATCGATGCACGCCTTGAATG
1 TGCATCGAT--ACACCTTGAAAG
1038436 TGCATCGAT
1 TGCATCGAT
1038445 GCACAAGGCC
Statistics
Matches: 87, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
20 11 0.13
21 19 0.22
22 13 0.15
23 44 0.51
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.26
Consensus pattern (21 bp):
TGCATCGATACACCTTGAAAG
Found at i:1038414 original size:23 final size:23
Alignment explanation
Indices: 1038346--1038448 Score: 158
Period size: 23 Copynumber: 4.6 Consensus size: 23
1038336 ACACCTAACA
*
1038346 GTGCATCGATGCA-TCCTTGAAT
1 GTGCATCGATGCACGCCTTGAAT
* *
1038368 GTGCATCGAT--ACACCATGAAT
1 GTGCATCGATGCACGCCTTGAAT
1038389 GTGCATCGATGCACGCCTTGAAT
1 GTGCATCGATGCACGCCTTGAAT
1038412 GTGCATCGATGCACGCCTTGAAT
1 GTGCATCGATGCACGCCTTGAAT
1038435 GTGCATCGATGCAC
1 GTGCATCGATGCAC
1038449 AAGGCCATGC
Statistics
Matches: 74, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
20 1 0.01
21 17 0.23
22 10 0.14
23 46 0.62
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.26
Consensus pattern (23 bp):
GTGCATCGATGCACGCCTTGAAT
Found at i:1038447 original size:46 final size:44
Alignment explanation
Indices: 1038327--1038448 Score: 160
Period size: 46 Copynumber: 2.8 Consensus size: 44
1038317 TTGTGCTTCA
* *
1038327 TGCATCGATACACC-T-AACAGTGCATCGATGCA-TCCTTGAATG
1 TGCATCGATACACCATGAA-TGTGCATCGATGCACGCCTTGAATG
1038369 TGCATCGATACACCATGAATGTGCATCGATGCACGCCTTGAATG
1 TGCATCGATACACCATGAATGTGCATCGATGCACGCCTTGAATG
* *
1038413 TGCATCGATGCACGCCTTGAATGTGCATCGATGCAC
1 TGCATCGAT--ACACCATGAATGTGCATCGATGCAC
1038449 AAGGCCATGC
Statistics
Matches: 71, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
42 14 0.20
43 14 0.20
44 20 0.28
46 23 0.32
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (44 bp):
TGCATCGATACACCATGAATGTGCATCGATGCACGCCTTGAATG
Found at i:1041226 original size:46 final size:45
Alignment explanation
Indices: 1041175--1041278 Score: 120
Period size: 45 Copynumber: 2.3 Consensus size: 45
1041165 ACATACCATG
* * *
1041175 CATCGATGCACTGAGGAT-TTTATGAAAACATCGAATGCATTTGATC
1 CATCGATGCACTCAGGATATTT-TGAAAA-AGCGAATGCACTTGATC
* * *
1041221 CATCGATGCACTCTGGCTATTTTGAAAAAGCGAATGCACTTGATG
1 CATCGATGCACTCAGGATATTTTGAAAAAGCGAATGCACTTGATC
*
1041266 CATCAATGCACTC
1 CATCGATGCACTC
1041279 TTAGTGCACC
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
45 26 0.52
46 21 0.42
47 3 0.06
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (45 bp):
CATCGATGCACTCAGGATATTTTGAAAAAGCGAATGCACTTGATC
Found at i:1042171 original size:63 final size:63
Alignment explanation
Indices: 1042060--1042220 Score: 189
Period size: 63 Copynumber: 2.5 Consensus size: 63
1042050 TTCCTTTGAA
* * *
1042060 GTGCATCGATGCACTACCCATGCATCGATACACAAATCACCTTCGATGTTT-TCATTTTAAGGG
1 GTGCATCGATGCACT-CCTATGCATCGATACACAAATCACATTCGATGTTTCCCATTTTAAGGG
* * ** * * *
1042123 GTGCATCGATGCACTCCTTATGCATCGATGCACTAATTGCATTTGATGTTTCCCTTTTTAATGG
1 GTGCATCGATGCACTCC-TATGCATCGATACACAAATCACATTCGATGTTTCCCATTTTAAGGG
*
1042187 GTGCATCGATGCACTTCCTGTGCATCGATACACA
1 GTGCATCGATGCAC-TCCTATGCATCGATACACA
1042221 CTAAACAATT
Statistics
Matches: 82, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
62 2 0.02
63 41 0.50
64 36 0.44
65 3 0.04
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.33
Consensus pattern (63 bp):
GTGCATCGATGCACTCCTATGCATCGATACACAAATCACATTCGATGTTTCCCATTTTAAGGG
Found at i:1048661 original size:2 final size:2
Alignment explanation
Indices: 1048654--1048692 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
1048644 ATAACAAAGG
1048654 AT AT AT AT AT AT AT AT AT AT -T 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
1048693 TTGAAAGGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:1048679 original size:17 final size:17
Alignment explanation
Indices: 1048657--1048690 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
1048647 ACAAAGGATA
1048657 TATATATATATATATAT
1 TATATATATATATATAT
1048674 TATATATATATATATAT
1 TATATATATATATATAT
1048691 ATTTGAAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TATATATATATATATAT
Found at i:1048679 original size:19 final size:19
Alignment explanation
Indices: 1048655--1048693 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
1048645 TAACAAAGGA
1048655 TATATATATATATATATAT
1 TATATATATATATATATAT
1048674 TATATATATATATATATAT
1 TATATATATATATATATAT
1048693 T
1 T
1048694 TGAAAGGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TATATATATATATATATAT
Found at i:1053396 original size:148 final size:145
Alignment explanation
Indices: 1053200--1053573 Score: 377
Period size: 145 Copynumber: 2.6 Consensus size: 145
1053190 TTATAAACAA
* * * * **
1053200 AATATTTATTTACTTAGAAATATCAGAAAATGACTTCTAGTTGCTTTAAGACATCCCCTTTTCTT
1 AATATTTATTTATTTAAAAATATCAGAAAACGACATCTAGTTATTTTAAGAC-T-CCCTTTTCTT
* *
1053265 AATATTAAAAAATAAATAAATATTAATAAAACATTTATCTAAAAATAATAAATTAAATTA-ATAT
64 AATATTAAAAAATAAATAAATA-T--TAAAACA-TAAT-T-AAAATAATAAATAAAATTATATAT
*
1053329 ATATA-AT-T-TATAAAAGTA-G
123 ATATATATATATATAAAAGCATG
* * * *
1053348 AATATTTATTTATTTAAAAATATCAAAAAACGACATCCAGTTATTTTAAGACTGTCC-TGTCTTA
1 AATATTTATTTATTTAAAAATATCAGAAAACGACATCTAGTTATTTTAAGACT-CCCTTTTCTTA
**
1053412 ATATTTAAAAAATAAATAAATATTAAAACATAATTAAAATAATTTATAAAATTATATATATATAT
65 ATA-TTAAAAAATAAATAAATATTAAAACATAATTAAAATAATAAATAAAATTATATATATATAT
*
1053477 ATATATATATAAGCATG
129 ATATATATAAAAGCATG
* * * * * * *
1053494 -ATATTTA-TTATTTTTAAGATACCAGAATAGGACATCTAGTTATTTTAGGACTGCCTTTTCTTA
1 AATATTTATTTA-TTTAAAAATATCAGAAAACGACATCTAGTTATTTTAAGACTCCCTTTTCTTA
*
1053557 ATATTTAAAAATAAATA
65 ATATTAAAAAATAAATA
1053574 TTATTAACTT
Statistics
Matches: 190, Mismatches: 28, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
141 16 0.08
142 10 0.05
143 5 0.03
144 26 0.14
145 57 0.30
146 11 0.06
147 21 0.11
148 44 0.23
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.39
Consensus pattern (145 bp):
AATATTTATTTATTTAAAAATATCAGAAAACGACATCTAGTTATTTTAAGACTCCCTTTTCTTAA
TATTAAAAAATAAATAAATATTAAAACATAATTAAAATAATAAATAAAATTATATATATATATAT
ATATATAAAAGCATG
Found at i:1053439 original size:18 final size:19
Alignment explanation
Indices: 1053411--1053463 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 19
1053401 GTCCTGTCTT
1053411 AATATTTAAAAAATAAATA
1 AATATTTAAAAAATAAATA
* *
1053430 AATA-TTAAAACATAATTAA
1 AATATTTAAAAAATAAAT-A
*
1053449 AATAATTTATAAAAT
1 AAT-ATTTAAAAAAT
1053464 TATATATATA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
18 11 0.41
19 8 0.30
20 1 0.04
21 7 0.26
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (19 bp):
AATATTTAAAAAATAAATA
Found at i:1053648 original size:14 final size:13
Alignment explanation
Indices: 1053611--1053718 Score: 64
Period size: 14 Copynumber: 8.2 Consensus size: 13
1053601 TATTAATTTG
*
1053611 ATTAAAATAAAATA
1 ATTAAAATATAA-A
**
1053625 ATTAAAATATTGA
1 ATTAAAATATAAA
1053638 ATTAAACATATAAA
1 ATTAAA-ATATAAA
1053652 ATTAAAATAT--A
1 ATTAAAATATAAA
*
1053663 ACTAAACATGGACTAAA
1 ATTAAA-AT--A-TAAA
1053680 A-T-AAA-ATAAA
1 ATTAAAATATAAA
**
1053690 ATTAAAACTATAGT
1 ATTAAAA-TATAAA
1053704 ATTAAAATATAAA
1 ATTAAAATATAAA
1053717 AT
1 AT
1053719 GAAAGTATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 23
0.69 0.09 0.22
Matches are distributed among these distances:
10 5 0.07
11 8 0.11
12 5 0.07
13 17 0.23
14 32 0.44
15 3 0.04
16 1 0.01
17 2 0.03
ACGTcount: A:0.62, C:0.05, G:0.04, T:0.30
Consensus pattern (13 bp):
ATTAAAATATAAA
Found at i:1055145 original size:18 final size:19
Alignment explanation
Indices: 1055110--1055146 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
1055100 CACGGAATGT
1055110 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
1055130 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
1055147 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:1055368 original size:36 final size:36
Alignment explanation
Indices: 1055297--1055369 Score: 96
Period size: 36 Copynumber: 2.0 Consensus size: 36
1055287 GTTTGAAAAT
* *
1055297 ATTTATATATTTTCTTTAAAAATTTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAATTAAAAATCATAAA
1055333 ATTTATATAATTTT-TTTACAAAATTAAAAAT-ATAAA
1 ATTTATAT-ATTTTCTTTA-AAAATTAAAAATCATAAA
1055369 A
1 A
1055370 AGGTTTAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 18 0.55
37 15 0.45
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (36 bp):
ATTTATATATTTTCTTTAAAAATTAAAAATCATAAA
Found at i:1057780 original size:32 final size:32
Alignment explanation
Indices: 1057744--1057817 Score: 148
Period size: 32 Copynumber: 2.3 Consensus size: 32
1057734 ATCCTTATGC
1057744 ATGTACATTATTTGTCATAGGGACATATAAGA
1 ATGTACATTATTTGTCATAGGGACATATAAGA
1057776 ATGTACATTATTTGTCATAGGGACATATAAGA
1 ATGTACATTATTTGTCATAGGGACATATAAGA
1057808 ATGTACATTA
1 ATGTACATTA
1057818 CAAGTCTTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.35
Consensus pattern (32 bp):
ATGTACATTATTTGTCATAGGGACATATAAGA
Found at i:1058047 original size:20 final size:18
Alignment explanation
Indices: 1058012--1058046 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
1058002 TTCTTTAAAA
1058012 ATTCTCAACAATATATAG
1 ATTCTCAACAATATATAG
1058030 ATTCTCAACAATATATA
1 ATTCTCAACAATATATA
1058047 TTCCTTAGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.17, G:0.03, T:0.34
Consensus pattern (18 bp):
ATTCTCAACAATATATAG
Found at i:1059942 original size:19 final size:19
Alignment explanation
Indices: 1059909--1059945 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1059899 ATGACCAACA
*
1059909 AAATCGCAATACGATCTCT
1 AAATCGCAACACGATCTCT
*
1059928 AAATCGCAACGCGATCTC
1 AAATCGCAACACGATCTC
1059946 CAGTATCGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.30, G:0.14, T:0.22
Consensus pattern (19 bp):
AAATCGCAACACGATCTCT
Found at i:1060078 original size:20 final size:20
Alignment explanation
Indices: 1059978--1060070 Score: 125
Period size: 20 Copynumber: 4.6 Consensus size: 20
1059968 GATTCGTAAT
*
1059978 GCGATTTTGACTATCGCAAC
1 GCGATTCTGACTATCGCAAC
*
1059998 GCGATTCTGACTTTCGCAAC
1 GCGATTCTGACTATCGCAAC
**
1060018 GCGATAAT-ACATAATCGCAAC
1 GCGATTCTGAC-T-ATCGCAAC
1060039 GCGATTCTGACTATCGCAAC
1 GCGATTCTGACTATCGCAAC
1060059 GCGATTCTGACT
1 GCGATTCTGACT
1060071 GTCACAACAC
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
19 2 0.03
20 45 0.71
21 14 0.22
22 2 0.03
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (20 bp):
GCGATTCTGACTATCGCAAC
Found at i:1060915 original size:24 final size:24
Alignment explanation
Indices: 1060883--1060936 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
1060873 GTATTCGAAA
1060883 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
1060907 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
1060931 TTTGAT
1 TTTGAT
1060937 GATGTTTCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:1062582 original size:24 final size:24
Alignment explanation
Indices: 1062548--1062601 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
1062538 CTGAAACATC
1062548 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
1062572 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
1062596 ATCAAA
1 ATCAAA
1062602 TTTTTAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:1063476 original size:41 final size:41
Alignment explanation
Indices: 1063419--1063529 Score: 150
Period size: 41 Copynumber: 2.7 Consensus size: 41
1063409 GAAATTCAGT
* *
1063419 GTTGCGACAGTCAGAATCGCGTTGTGATTATGTATTATCAC
1 GTTGCGATAGTCAGAATCGCGTTGCGATTATGTATTATCAC
* ** *
1063460 GTTGCGATAATCAGAATTACGTTGCGATTATGTATTATCGC
1 GTTGCGATAGTCAGAATCGCGTTGCGATTATGTATTATCAC
* *
1063501 GTTGCGATAGTCAGAATCGCATTACGATT
1 GTTGCGATAGTCAGAATCGCGTTGCGATT
1063530 TACATATGCG
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 59 1.00
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.34
Consensus pattern (41 bp):
GTTGCGATAGTCAGAATCGCGTTGCGATTATGTATTATCAC
Found at i:1063505 original size:21 final size:21
Alignment explanation
Indices: 1063434--1063508 Score: 75
Period size: 21 Copynumber: 3.6 Consensus size: 21
1063424 GACAGTCAGA
*
1063434 ATCGCGTTGTGATTATGTATT
1 ATCGCGTTGCGATTATGTATT
* * *
1063455 ATCACGTTGCGATAATCAGAATT
1 ATCGCGTTGCGATTAT--GTATT
1063478 A---CGTTGCGATTATGTATT
1 ATCGCGTTGCGATTATGTATT
1063496 ATCGCGTTGCGAT
1 ATCGCGTTGCGAT
1063509 AGTCAGAATC
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
18 5 0.12
20 11 0.26
21 22 0.51
23 5 0.12
ACGTcount: A:0.24, C:0.15, G:0.23, T:0.39
Consensus pattern (21 bp):
ATCGCGTTGCGATTATGTATT
Found at i:1063565 original size:20 final size:20
Alignment explanation
Indices: 1063496--1063567 Score: 58
Period size: 20 Copynumber: 3.6 Consensus size: 20
1063486 ATTATGTATT
* * *
1063496 ATCGCGTTGCGATAGTCAGA
1 ATCGCATTGCGATAGTTAAA
* *
1063516 ATCGCATTACGAT--TTACAT
1 ATCGCATTGCGATAGTTA-AA
1063535 ATGCGCATTGCGATAGTTAAA
1 AT-CGCATTGCGATAGTTAAA
*
1063556 ATCGCGTTGCGA
1 ATCGCATTGCGA
1063568 ATCTGGAAAC
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
18 2 0.05
19 2 0.05
20 30 0.75
21 3 0.08
22 3 0.08
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (20 bp):
ATCGCATTGCGATAGTTAAA
Found at i:1068474 original size:30 final size:31
Alignment explanation
Indices: 1068416--1068513 Score: 82
Period size: 30 Copynumber: 3.3 Consensus size: 31
1068406 ATATAAAATA
1068416 TTAATTATTATAATTAAATTAATAAATATA-T
1 TTAA-TATTATAATTAAATTAATAAATATACT
* *
1068447 TTAATATTATAATTATGATT-ATTAATATACT
1 TTAATATTATAATTA-AATTAATAAATATACT
* **
1068478 TT-ATATT-TAA-T-ACTTATATCTATATACT
1 TTAATATTATAATTAAATTA-ATAAATATACT
1068506 TTAATATT
1 TTAATATT
1068514 TTGTCACATC
Statistics
Matches: 56, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
26 2 0.04
28 12 0.21
29 8 0.14
30 24 0.43
31 10 0.18
ACGTcount: A:0.43, C:0.04, G:0.01, T:0.52
Consensus pattern (31 bp):
TTAATATTATAATTAAATTAATAAATATACT
Found at i:1068492 original size:14 final size:15
Alignment explanation
Indices: 1068466--1068514 Score: 57
Period size: 13 Copynumber: 3.3 Consensus size: 15
1068456 TAATTATGAT
*
1068466 TATTAATATACTTTA
1 TATTTATATACTTTA
1068481 TATTTA-ATAC-TTA
1 TATTTATATACTTTA
*
1068494 TATCTATATACTTTAA
1 TATTTATATACTTT-A
1068510 TATTT
1 TATTT
1068515 TGTCACATCC
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
13 8 0.29
14 8 0.29
15 7 0.25
16 5 0.18
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (15 bp):
TATTTATATACTTTA
Found at i:1069477 original size:51 final size:51
Alignment explanation
Indices: 1069401--1069504 Score: 208
Period size: 51 Copynumber: 2.0 Consensus size: 51
1069391 GGTTTTAGAA
1069401 TATGTGATAAAGTGAGAAGGGGAAATTACAAGGTGAGTCATCCAAGTTTGG
1 TATGTGATAAAGTGAGAAGGGGAAATTACAAGGTGAGTCATCCAAGTTTGG
1069452 TATGTGATAAAGTGAGAAGGGGAAATTACAAGGTGAGTCATCCAAGTTTGG
1 TATGTGATAAAGTGAGAAGGGGAAATTACAAGGTGAGTCATCCAAGTTTGG
1069503 TA
1 TA
1069505 AAAGATTAAC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.36, C:0.08, G:0.31, T:0.26
Consensus pattern (51 bp):
TATGTGATAAAGTGAGAAGGGGAAATTACAAGGTGAGTCATCCAAGTTTGG
Found at i:1069935 original size:2 final size:2
Alignment explanation
Indices: 1069923--1070040 Score: 96
Period size: 2 Copynumber: 59.0 Consensus size: 2
1069913 CATTATACTT
* * * **
1069923 TA TA CA TA TA TA TA TA TA TA TA TA TA TA CA TA TA TG TA TA CG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
1069965 TG TA TG TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
1070007 TA TA CT- TA TA T- TT TA TA GTT TA TA TA TG TA TA TA
1 TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
1070041 AAGTACCAAA
Statistics
Matches: 93, Mismatches: 19, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
1 2 0.02
2 89 0.96
3 2 0.02
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1071006 original size:2 final size:2
Alignment explanation
Indices: 1071001--1071341 Score: 74
Period size: 2 Copynumber: 171.0 Consensus size: 2
1070991 ATTAAAAAAT
* *
1071001 TA TA TA TA TA TA TA TA TA TA T- TA -A TA TA -A AA GTA TA TA CA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
* * * * *
1071041 TA TA -A GTA TA TA AA TA TA TA TA CA CT- TA TT TA AA TA TA CA TA
1 TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
* * * * *
1071083 TT TA -A AA AA AA GTA TA -A T- TA TA TA TA TA TA TA TA TA TA AA
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * *
1071123 GTG TA AA T- TA TA AA GTG TA AA CTA TA AA GTA TA -A 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
* * *
1071165 TA TA TA TA TG TA AA GTA TA -A GTA TA T- TA TA AA 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
* * * * *
1071207 AA GTA TA AA GTA TA TA TA CTT TA TA CTA -A AA T- TT 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
* *
1071249 T- TA TA TA CTT TA TA T- TA TA TA CTT TA -A 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
* * * * *
1071290 AA GT- TT TA GTA TA AA GTA TA TA TA CA TA TA TA -A GA -A TA TA
1 TA -TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
1071330 TA TA TA TA TA TA
1 TA TA TA TA TA TA
1071342 AAGTTTTAGT
Statistics
Matches: 245, Mismatches: 55, Indels: 78
0.65 0.15 0.21
Matches are distributed among these distances:
1 20 0.08
2 208 0.85
3 17 0.07
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (2 bp):
TA
Found at i:1071014 original size:543 final size:540
Alignment explanation
Indices: 1070009--1071029 Score: 1633
Period size: 543 Copynumber: 1.9 Consensus size: 540
1069999 TATATGTATA
*
1070009 TACTTATATTTTATAGTTTATATATGTATATAAAGTACCAAATTGAACAAACATGAAATTGGAAA
1 TACTTATACTTTATAGTTTATATATGTATATAAAGTACCAAATTGAACAAACATGAAATTGGAAA
*
1070074 TAAAAAATTGAATAAATTAAGAAACACACATTGATGAGGGATGAAATTGAATTAATTATAAAATG
66 TAAAAAATTGAATAAATTAAGAAACACACACTGATGAGGGATGAAATTGAATTAATTATAAAATG
* *
1070139 TAAAGATGATATTAATATAAAAATGGACTAAATTGCATACATTTAAAAAGTTGGTGAATATAATT
131 TAAAGATGATATTAATATAAAAATGGACTAAATTACATACATTTAAAAAGTTGGTGAACATAATT
* * * *
1070204 TGAAAATAAATTTATTATGTGATTTATATTTTATAGGGTTTGTTTTAAGTAAATTACAAAAATAT
196 TGAAAAGAAATTTACTATGTGATTTACATATTATAGGG--TGTTTTAAGTAAATTACAAAAATAT
* * *
1070269 AAATAAGTATATCTCAATTTCATATACAAATATAATTTGAAAGATTAAATTAAACATATATGAAA
259 AAATAAG-ATATCTCAATTTCATATACAAATATAATTTGAAAGACTAAATTAAACAAATATAAAA
* *
1070334 TTACAAATTAAAATTTAATACAATAAACAACATAAAATAATCAAATCAAAAAATGTAAAATGTGA
323 TTACAAATTAAAATTTAATACAATAAACAACATAAAAGAATCAAATCAAAAAATGTAAAATGTAA
* * * *
1070399 GGAAAATTTGTAAAATGGATTGAATTGCATTAATTTTAAAAGTTGGGGAAAATTAAAACAATTAT
388 GGAAAAATTGTAAAATGGACTGAATTGAATTAATTTTAAAAGTTGGAGAAAATTAAAACAATTAT
1070464 AATATATATATATA-TATATATAATTAATGTTATGATAATATGATGCATGTATATATAATGTACA
453 AATATATATATATATTA-ATATAATTAATGTTATGATAATATGATGCATGTATATATAATGTACA
1070528 TTATACTTTATACATATACATATG
517 TTATACTTTATACATATACATATG
*
1070552 TACTTATACTTTATAGTTTATATATGTATATAAAGTACTAAATTGAACAAACATGAAATTGGAAA
1 TACTTATACTTTATAGTTTATATATGTATATAAAGTACCAAATTGAACAAACATGAAATTGGAAA
*
1070617 TAAAAAATTGAATAAATTAAGCAACACACACTGATGAGGGATGAAATTGAATTAATTATAAAATG
66 TAAAAAATTGAATAAATTAAGAAACACACACTGATGAGGGATGAAATTGAATTAATTATAAAATG
*
1070682 TGAAGATGATATTAATATAAAAATGGACTAAATTACATACATTTAAAAAGTTGGTGAACATAATT
131 TAAAGATGATATTAATATAAAAATGGACTAAATTACATACATTTAAAAAGTTGGTGAACATAATT
1070747 TGAAAAGAAATTTACTATGTGATTTACATATTA-A-GG-GTTTTAAGTAAATTACAAAAAATATA
196 TGAAAAGAAATTTACTATGTGATTTACATATTATAGGGTGTTTTAAGTAAATTAC-AAAAATATA
* *
1070809 AATAA-ATATGCGTCAATTTCATATACAAATATAATTTGAATGACTAAATTGAACAAATATAAAA
260 AATAAGATAT-C-TCAATTTCATATACAAATATAATTTGAAAGACTAAATTAAACAAATATAAAA
* * * *
1070873 TTATAAATTTAAATTTAAATACAATAAACAACAT-AAAGGATCACATCAAAAAAATGTAAAATGT
323 TTACAAATTAAAATTT-AATACAATAAACAACATAAAAGAATCAAATC-AAAAAATGTAAAATGT
*
1070937 AAGGAAAAATTGTAAAATTGACTGAATTGAATTAAATTTTAAAAGTTGGAGAAAATTAAAA-AAT
386 AAGGAAAAATTGTAAAATGGACTGAATTGAATT-AATTTTAAAAGTTGGAGAAAATTAAAACAA-
1071001 TATATATATATATATATATATTAATATAA
449 T-TATA-ATATATATATATATTAATATAA
1071030 AAGTATATAC
Statistics
Matches: 441, Mismatches: 27, Indels: 20
0.90 0.06 0.04
Matches are distributed among these distances:
537 4 0.01
538 17 0.04
539 85 0.19
540 63 0.14
541 29 0.07
542 5 0.01
543 236 0.54
544 2 0.00
ACGTcount: A:0.49, C:0.06, G:0.11, T:0.34
Consensus pattern (540 bp):
TACTTATACTTTATAGTTTATATATGTATATAAAGTACCAAATTGAACAAACATGAAATTGGAAA
TAAAAAATTGAATAAATTAAGAAACACACACTGATGAGGGATGAAATTGAATTAATTATAAAATG
TAAAGATGATATTAATATAAAAATGGACTAAATTACATACATTTAAAAAGTTGGTGAACATAATT
TGAAAAGAAATTTACTATGTGATTTACATATTATAGGGTGTTTTAAGTAAATTACAAAAATATAA
ATAAGATATCTCAATTTCATATACAAATATAATTTGAAAGACTAAATTAAACAAATATAAAATTA
CAAATTAAAATTTAATACAATAAACAACATAAAAGAATCAAATCAAAAAATGTAAAATGTAAGGA
AAAATTGTAAAATGGACTGAATTGAATTAATTTTAAAAGTTGGAGAAAATTAAAACAATTATAAT
ATATATATATATTAATATAATTAATGTTATGATAATATGATGCATGTATATATAATGTACATTAT
ACTTTATACATATACATATG
Found at i:1071183 original size:17 final size:17
Alignment explanation
Indices: 1071152--1071206 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
1071142 AACTATAAAG
* *
1071152 TATAATATATATATATA
1 TATATTATAAATATATA
*
1071169 TATATGTA-AAGTATA-A
1 TATAT-TATAAATATATA
1071185 GTATATTATAAATATATA
1 -TATATTATAAATATATA
1071203 TATA
1 TATA
1071207 AAGTATAAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
16 3 0.10
17 24 0.80
18 3 0.10
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (17 bp):
TATATTATAAATATATA
Found at i:1071200 original size:34 final size:35
Alignment explanation
Indices: 1071138--1071206 Score: 104
Period size: 34 Copynumber: 2.0 Consensus size: 35
1071128 AATTATAAAG
*
1071138 TGTAAACTATAAAGTATAATATATATATATATATA
1 TGTAAACTATAAAGTATAATATAAATATATATATA
* *
1071173 TGTAAAGTAT-AAGTATATTATAAATATATATATA
1 TGTAAACTATAAAGTATAATATAAATATATATATA
1071207 AAGTATAAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
34 22 0.71
35 9 0.29
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.41
Consensus pattern (35 bp):
TGTAAACTATAAAGTATAATATAAATATATATATA
Found at i:1071207 original size:58 final size:56
Alignment explanation
Indices: 1071102--1071224 Score: 144
Period size: 56 Copynumber: 2.2 Consensus size: 56
1071092 AAGTATAATT
*
1071102 ATATATATATATATATATAAAGTGTAAATTATAAAGTGTAAACTATAAAGTATAAT
1 ATATATATATATATATATAAAGTGTAAATTATAAAGTATAAACTATAAAGTATAAT
* * *
1071158 ATATATATATATATATGTAAAGTATAAGTATATTATAAA-TATATA-TATAAAGTATAA-
1 ATATATATATATATATATAAAG--T--GTAAATTATAAAGTATAAACTATAAAGTATAAT
1071215 AGTATATATA
1 A-TATATATA
1071225 CTTTATACTA
Statistics
Matches: 58, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
56 21 0.36
57 1 0.02
58 21 0.36
59 4 0.07
60 11 0.19
ACGTcount: A:0.52, C:0.01, G:0.08, T:0.39
Consensus pattern (56 bp):
ATATATATATATATATATAAAGTGTAAATTATAAAGTATAAACTATAAAGTATAAT
Found at i:1071246 original size:86 final size:84
Alignment explanation
Indices: 1071091--1071255 Score: 199
Period size: 86 Copynumber: 1.9 Consensus size: 84
1071081 TATTTAAAAA
* * * *
1071091 AAAGTATAATTATATATATATATATATATAAAGTGTAAATTATAAAGTGTAAACTATAAAGTATA
1 AAAGTATAAGTATATATAAATATATATATAAAGTATAAATTATAAACTGTAAACTATAAAGTATA
1071156 ATATATATATATATATATGT
66 ATATATAT-TATATATATGT
* * *
1071176 AAAGTATAAGTATATTATAAATATATATATAAAGTATAAAGTATATATACTTTATACTA-AAA-T
1 AAAGTATAAGTATA-TATAAATATATATATAAAGTATAAA-T-TATAAACTGTAAACTATAAAGT
* *
1071239 TTTATATATATTATATA
63 ATAATATATATTATATA
1071256 CTTTATATTA
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
85 19 0.28
86 33 0.49
87 4 0.06
88 12 0.18
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.41
Consensus pattern (84 bp):
AAAGTATAAGTATATATAAATATATATATAAAGTATAAATTATAAACTGTAAACTATAAAGTATA
ATATATATTATATATATGT
Found at i:1071257 original size:31 final size:34
Alignment explanation
Indices: 1071217--1071289 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 34
1071207 AAGTATAAAG
*
1071217 TATATATACTTTATACTA-A-AATTTTATATATA
1 TATATATACTTTATACTATATAATTTAATATATA
* *
1071249 T-TATATACTTTATATTATATACTTTAATATATA
1 TATATATACTTTATACTATATAATTTAATATATA
1071282 TATATATA
1 TATATATA
1071290 AAGTTTTAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
31 15 0.43
32 2 0.06
33 12 0.34
34 6 0.17
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.52
Consensus pattern (34 bp):
TATATATACTTTATACTATATAATTTAATATATA
Found at i:1071341 original size:52 final size:52
Alignment explanation
Indices: 1071275--1071381 Score: 169
Period size: 52 Copynumber: 2.1 Consensus size: 52
1071265 ATATACTTTA
*
1071275 ATATATATATATATAAAGTTTTAGTATAAAGTATATATACATATATAAGAAT
1 ATATATATATATATAAAGTTTTAGTATAAAATATATATACATATATAAGAAT
* ** *
1071327 ATATATATATATATAAAGTTTTAGTATAAAATGTATATAGGTATATAATAAT
1 ATATATATATATATAAAGTTTTAGTATAAAATATATATACATATATAAGAAT
1071379 ATA
1 ATA
1071382 AAGTGTAACA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.50, C:0.01, G:0.08, T:0.41
Consensus pattern (52 bp):
ATATATATATATATAAAGTTTTAGTATAAAATATATATACATATATAAGAAT
Found at i:1072353 original size:59 final size:59
Alignment explanation
Indices: 1072261--1072389 Score: 195
Period size: 59 Copynumber: 2.2 Consensus size: 59
1072251 CGTAGTGTTA
* * *
1072261 TCCCGAATATGACACATAAGGTCGTGTCCACCATCTATACTAGGTATCCTTAAGTACAG
1 TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTACAG
* ** *
1072320 TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTTAGTGTAT
1 TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTACAG
1072379 TCCCGAATATG
1 TCCCGAATATG
1072390 CAGCCTGCTG
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
59 63 1.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (59 bp):
TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTACAG
Found at i:1074177 original size:8 final size:8
Alignment explanation
Indices: 1074164--1074623 Score: 118
Period size: 8 Copynumber: 62.1 Consensus size: 8
1074154 GTATTACATA
1074164 AAGTATAT
1 AAGTATAT
1074172 AAGTATAT
1 AAGTATAT
1074180 AAAGTATAT
1 -AAGTATAT
*
1074189 ATA-CATAT
1 A-AGTATAT
*
1074197 AA--AGTAC
1 AAGTA-TAT
1074204 AAGTATAT
1 AAGTATAT
1074212 -A-TATAT
1 AAGTATAT
1074218 -A-TATAT
1 AAGTATAT
1074224 -A-TATAT
1 AAGTATAT
1074230 ATA-TATAT
1 A-AGTATAT
1074238 AAAGT-T-T
1 -AAGTATAT
*
1074245 TAGTATA-
1 AAGTATAT
1074252 AAGTATAT
1 AAGTATAT
*
1074260 ATACATATAT
1 A-A-GTATAT
1074270 AA-TAATAT
1 AAGT-ATAT
1074278 AA--AGTAT
1 AAGTA-TAT
1074285 AAGTATATT
1 AAGTATA-T
1074294 ATA-TATAT
1 A-AGTATAT
**
1074302 AAAAAGTAT
1 AAGTA-TAT
*
1074311 AATTATA-
1 AAGTATAT
1074318 AAG-ACTA-
1 AAGTA-TAT
1074325 AAGTATAT
1 AAGTATAT
1074333 AAGTATAT
1 AAGTATAT
1074341 AA-TATA-
1 AAGTATAT
*
1074347 AAATATAT
1 AAGTATAT
*
1074355 AAGCAT-T
1 AAGTATAT
*
1074362 AAATATA-
1 AAGTATAT
1074369 AAGTATAT
1 AAGTATAT
*
1074377 AACTATAT
1 AAGTATAT
*
1074385 AACTATAT
1 AAGTATAT
*
1074393 ATA-AACTAT
1 A-AGTA-TAT
*
1074402 AAACTATA-
1 -AAGTATAT
*
1074410 AAGTGTAT
1 AAGTATAT
1074418 ATA-TATAT
1 A-AGTATAT
1074426 ATA-TATAT
1 A-AGTATAT
1074434 AAAGT-T-T
1 -AAGTATAT
* *
1074441 TAGTGTA-
1 AAGTATAT
1074448 AAGTATAT
1 AAGTATAT
**
1074456 ATAACATAT
1 A-AGTATAT
1074465 AA-TAATAT
1 AAGT-ATAT
*
1074473 AAAT-TAT
1 AAGTATAT
1074480 AAGTATAT
1 AAGTATAT
1074488 -A-TATAT
1 AAGTATAT
1074494 AA-TATA-
1 AAGTATAT
*
1074500 AAG--TAC
1 AAGTATAT
1074506 AAGTATAT
1 AAGTATAT
1074514 AA-TATA-
1 AAGTATAT
*
1074520 AAGTATAC
1 AAGTATAT
1074528 AAGTAT-T
1 AAGTATAT
*
1074535 AAATATA-
1 AAGTATAT
1074542 AAGTATAT
1 AAGTATAT
1074550 AA--ATAT
1 AAGTATAT
1074556 AA-TATA-
1 AAGTATAT
1074562 AAGTATAT
1 AAGTATAT
1074570 AAGTAT-T
1 AAGTATAT
1074577 AA--ATAT
1 AAGTATAT
1074583 AAGTATA-
1 AAGTATAT
1074590 AA-TA-A-
1 AAGTATAT
1074595 AA-TATA-
1 AAGTATAT
1074601 AAG--TAT
1 AAGTATAT
1074607 AAGTATAT
1 AAGTATAT
1074615 AAGTATAT
1 AAGTATAT
1074623 A
1 A
1074624 TATATATATA
Statistics
Matches: 356, Mismatches: 32, Indels: 128
0.69 0.06 0.25
Matches are distributed among these distances:
5 11 0.03
6 59 0.17
7 104 0.29
8 129 0.36
9 44 0.12
10 9 0.03
ACGTcount: A:0.53, C:0.03, G:0.07, T:0.37
Consensus pattern (8 bp):
AAGTATAT
Done.