Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold39
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: 4724573
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 178835 characters in sequence are not A, C, G, or T
File 15 of 27
Found at i:2590133 original size:19 final size:19
Alignment explanation
Indices: 2590109--2590196 Score: 98
Period size: 19 Copynumber: 4.9 Consensus size: 19
2590099 TGTATCGATA
2590109 CATTGTATCGATACATGTT
1 CATTGTATCGATACATGTT
2590128 CATTGTATCGAT--A----
1 CATTGTATCGATACATGTT
*
2590141 CATTGTATCAATACATGTT
1 CATTGTATCGATACATGTT
**
2590160 CATTGTATCGATACATGCA
1 CATTGTATCGATACATGTT
2590179 CAATTGTATCGATACATG
1 C-ATTGTATCGATACATG
2590197 AAACTGGCAG
Statistics
Matches: 58, Mismatches: 4, Indels: 13
0.77 0.05 0.17
Matches are distributed among these distances:
13 11 0.19
15 1 0.02
17 1 0.02
19 29 0.50
20 16 0.28
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.38
Consensus pattern (19 bp):
CATTGTATCGATACATGTT
Found at i:2590135 original size:32 final size:32
Alignment explanation
Indices: 2590081--2590175 Score: 147
Period size: 32 Copynumber: 2.9 Consensus size: 32
2590071 CCCTTGTATA
*
2590081 TATCAATACAT-TATGCTTTGTATCGATACATTG
1 TATCAATACATGT-T-CATTGTATCGATACATTG
*
2590114 TATCGATACATGTTCATTGTATCGATACATTG
1 TATCAATACATGTTCATTGTATCGATACATTG
2590146 TATCAATACATGTTCATTGTATCGATACAT
1 TATCAATACATGTTCATTGTATCGATACAT
2590176 GCACAATTGT
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
32 46 0.79
33 11 0.19
34 1 0.02
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.41
Consensus pattern (32 bp):
TATCAATACATGTTCATTGTATCGATACATTG
Found at i:2590250 original size:20 final size:20
Alignment explanation
Indices: 2590225--2590290 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
2590215 CTACCACTGT
2590225 TTGTATCGATACATGGGACA
1 TTGTATCGATACATGGGACA
2590245 TTGTATCGATAC-----A-A
1 TTGTATCGATACATGGGACA
2590259 -TGTATCGATACATGGGACA
1 TTGTATCGATACATGGGACA
2590278 TTGTATCGATACA
1 TTGTATCGATACA
2590291 ATGTATCGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 11 0.28
14 1 0.03
15 1 0.03
18 1 0.03
19 1 0.03
20 24 0.62
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (20 bp):
TTGTATCGATACATGGGACA
Found at i:2590264 original size:13 final size:13
Alignment explanation
Indices: 2590246--2590303 Score: 56
Period size: 13 Copynumber: 4.9 Consensus size: 13
2590236 CATGGGACAT
2590246 TGTATCGATACAA
1 TGTATCGATACAA
2590259 TGTATCGATAC-A
1 TGTATCGATACAA
* *
2590271 TG----G-GACAT
1 TGTATCGATACAA
2590279 TGTATCGATACAA
1 TGTATCGATACAA
2590292 TGTATCGATACA
1 TGTATCGATACA
2590304 TGATGAATTG
Statistics
Matches: 35, Mismatches: 4, Indels: 12
0.69 0.08 0.24
Matches are distributed among these distances:
7 2 0.06
8 3 0.09
12 4 0.11
13 26 0.74
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2590316 original size:33 final size:33
Alignment explanation
Indices: 2590226--2590305 Score: 160
Period size: 33 Copynumber: 2.4 Consensus size: 33
2590216 TACCACTGTT
2590226 TGTATCGATACATGGGACATTGTATCGATACAA
1 TGTATCGATACATGGGACATTGTATCGATACAA
2590259 TGTATCGATACATGGGACATTGTATCGATACAA
1 TGTATCGATACATGGGACATTGTATCGATACAA
2590292 TGTATCGATACATG
1 TGTATCGATACATG
2590306 ATGAATTGTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (33 bp):
TGTATCGATACATGGGACATTGTATCGATACAA
Found at i:2596657 original size:21 final size:21
Alignment explanation
Indices: 2596633--2596680 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
2596623 TCAAATCTTT
* * *
2596633 TTCAAATTTCTTCTTTTTCAC
1 TTCAAAATACTTCATTTTCAC
2596654 TTCAAAATACTTCATTTTCA-
1 TTCAAAATACTTCATTTTCAC
2596674 -TCAAAAT
1 TTCAAAAT
2596681 TATCAACAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 7 0.29
21 17 0.71
ACGTcount: A:0.31, C:0.21, G:0.00, T:0.48
Consensus pattern (21 bp):
TTCAAAATACTTCATTTTCAC
Found at i:2602058 original size:52 final size:52
Alignment explanation
Indices: 2601973--2602118 Score: 224
Period size: 52 Copynumber: 2.8 Consensus size: 52
2601963 ATATGAAAAG
* *
2601973 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
2602025 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
2602077 TTGCCTGCATGTATCGATACA--AAGATCAATGTATCGATACAT
1 TTGCCTGCATGTATCGATACATTTA-AT-AATGTATCGATACAT
2602119 TTGAGTAATG
Statistics
Matches: 87, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 85 0.98
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:2602197 original size:33 final size:33
Alignment explanation
Indices: 2602160--2602224 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
2602150 TAGCTTAAAA
2602160 TGTATCGATACAAAAAAATATGTATCGATACAT
1 TGTATCGATACAAAAAAATATGTATCGATACAT
* ***
2602193 TGTATCGATACAACATTTTATGTATCGATACA
1 TGTATCGATACAAAAAAATATGTATCGATACA
2602225 AATTGTTGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (33 bp):
TGTATCGATACAAAAAAATATGTATCGATACAT
Found at i:2602198 original size:13 final size:13
Alignment explanation
Indices: 2602180--2602204 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2602170 CAAAAAAATA
2602180 TGTATCGATACAT
1 TGTATCGATACAT
2602193 TGTATCGATACA
1 TGTATCGATACA
2602205 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2603162 original size:55 final size:52
Alignment explanation
Indices: 2603078--2603307 Score: 157
Period size: 49 Copynumber: 4.6 Consensus size: 52
2603068 GCCAATATGT
* * * * * * *
2603078 TGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCAAGGTGC
1 TGATTCAAGGCCAGCTATATTGAGCTTAAAGATG-G-AAAAGG-TGCCAAGATAC
* *
2603133 TGATTCAAGGCCAGCTACATTGAGCTTAAAGATGGAAAAGGTGCCAATATAC
1 TGATTCAAGGCCAGCTATATTGAGCTTAAAGATGGAAAAGGTGCCAAGATAC
* *
2603185 TGATTCAAGGCCAGCTATATTG-G-----ACAT---AAAGGTGCCAATG-TGC
1 TGATTCAAGGCCAGCTATATTGAGCTTAAAGATGGAAAAGGTGCCAA-GATAC
* * * *
2603228 TGATTCAAGGCCAGCTACATTG-GACTTAAAGAT-G--AAGATGCCAATATGC
1 TGATTCAAGGCCAGCTATATTGAG-CTTAAAGATGGAAAAGGTGCCAAGATAC
*
2603277 TGATTCAAGGCCAGCGATATTG-GACTTAAAG
1 TGATTCAAGGCCAGCTATATTGAG-CTTAAAG
2603308 GTGCCAATGT
Statistics
Matches: 147, Mismatches: 19, Indels: 24
0.77 0.10 0.13
Matches are distributed among these distances:
43 35 0.24
46 3 0.02
49 44 0.30
51 1 0.01
52 28 0.19
53 6 0.04
54 1 0.01
55 29 0.20
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (52 bp):
TGATTCAAGGCCAGCTATATTGAGCTTAAAGATGGAAAAGGTGCCAAGATAC
Found at i:2603289 original size:49 final size:43
Alignment explanation
Indices: 2603169--2603434 Score: 334
Period size: 43 Copynumber: 5.9 Consensus size: 43
2603159 TAAAGATGGA
* * *
2603169 AAAGGTGCCAATATACTGATTCAAGGCCAGCTATATTGGACAT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
*
2603212 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
2603255 AAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 -AA-A-G--G-TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
*
2603304 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
2603347 AAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 -AA-A-G--G-TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
*
2603396 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGG
2603435 TCGAATCCTC
Statistics
Matches: 195, Mismatches: 16, Indels: 24
0.83 0.07 0.10
Matches are distributed among these distances:
43 105 0.54
44 6 0.03
45 2 0.01
46 4 0.02
47 2 0.01
48 6 0.03
49 70 0.36
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.25
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
Found at i:2603307 original size:92 final size:92
Alignment explanation
Indices: 2603129--2603434 Score: 533
Period size: 92 Copynumber: 3.3 Consensus size: 92
2603119 GGATGTCAAG
* *
2603129 GTGCTGATTCAAGGCCAGCTACATT-GAGCTTAAAGATGGAAAAGGTGCCAATATACTGATTCAA
1 GTGCTGATTCAAGGCCAGCTACATTGGA-CTTAAAGAT-G--AAGATGCCAATATGCTGATTCAA
* *
2603193 GGCCAGCTATATTGGACATAAAGGTGCCAAT
62 GGCCAGCGATATTGGACTTAAAGGTGCCAAT
2603224 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
2603289 AGCGATATTGGACTTAAAGGTGCCAAT
66 AGCGATATTGGACTTAAAGGTGCCAAT
2603316 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
2603381 AGCGATATTGGACTTAAAGGTGCCAAT
66 AGCGATATTGGACTTAAAGGTGCCAAT
2603408 GTGCTGATTCAAGGCCAGCTACATTGG
1 GTGCTGATTCAAGGCCAGCTACATTGG
2603435 TCGAATCCTC
Statistics
Matches: 206, Mismatches: 4, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
92 169 0.82
94 1 0.00
95 34 0.17
96 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (92 bp):
GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
AGCGATATTGGACTTAAAGGTGCCAAT
Found at i:2610396 original size:28 final size:28
Alignment explanation
Indices: 2610343--2611651 Score: 1311
Period size: 28 Copynumber: 46.3 Consensus size: 28
2610333 ATGGAGTGAT
*
2610343 AGCCCACAAGTCAGTGGCATCCTTTCAA
1 AGCCCACAAGTCAGTGGCATCTTTTCAA
* * * *
2610371 AGGCCGCACGTTAGTGGCATCTTTTCAA
1 AGCCCACAAGTCAGTGGCATCTTTTCAA
* ** *
2610399 TGCTTACAAGTCAGTGGCACCCTTTTCAA
1 AGCCCACAAGTCAGTGGCA-TCTTTTCAA
* * *
2610428 AGCCCATAAGTTAGTGGCATCCTTTCAA
1 AGCCCACAAGTCAGTGGCATCTTTTCAA
* * * *
2610456 ATCCCACAACTCTAGTGGCACCCTTTCAA
1 AGCCCACAAGTC-AGTGGCATCTTTTCAA
*
2610485 AGCCCACAAGTCAGTAGCA-CTCTTTCAA
1 AGCCCACAAGTCAGTGGCATCT-TTTCAA
* *
2610513 AGCCCACAAGTTAGTGGCACCATTTTCAA
1 AGCCCACAAGTCAGTGGCATC-TTTTCAA
* *
2610542 AGCCCACAAGTTAGTGGCATCCTTTCAA
1 AGCCCACAAGTCAGTGGCATCTTTTCAA
* * *
2610570 AGCCCACAAGTTAGTGTCATCCTTTCAA
1 AGCCCACAAGTCAGTGGCATCTTTTCAA
* *
2610598 AGCCCATAAGTCAGTGGCACCATTTTCAA
1 AGCCCACAAGTCAGTGGCATC-TTTTCAA
*
2610627 AGCCCACAAGTCAGTGGCATCCTTTCAA
1 AGCCCACAAGTCAGTGGCATCTTTTCAA
* * *
2610655 AGCCCACAAGTCAGTGACACCATTTCCAA
1 AGCCCACAAGTCAGTGGCATC-TTTTCAA
* *
2610684 AGCCCACAACTCAGTGGCATCCGTTT-AA
1 AGCCCACAAGTCAGTGGCAT-CTTTTCAA
* * *
2610712 AGCCCATAAGTCAGTGGTATCCTTTCAA
1 AGCCCACAAGTCAGTGGCATCTTTTCAA
* * *
2610740 AGCCCACAAGTTAATGGCACCTTTTTCAA
1 AGCCCACAAGTCAGTGGCATC-TTTTCAA
* *
2610769 AGCCCACAAGTCAGTGACACCCTTTTCAA
1 AGCCCACAAGTCAGTGGCA-TCTTTTCAA
* * * *
2610798 AGCCCACAAATCAGTGACACCTTTTCAT
1 AGCCCACAAGTCAGTGGCATCTTTTCAA
* *
2610826 AGCCCACAAGTTAGTGGCACCTTTTCAA
1 AGCCCACAAGTCAGTGGCATCTTTTCAA
2610854 AGCCCACAAGTCAGTGGCATTCTTTT-AA
1 AGCCCACAAGTCAGTGGCA-TCTTTTCAA
* * * *
2610882 TGCCTACAAGTTAGTGGCACCCTTTTCAA
1 AGCCCACAAGTCAGTGGCA-TCTTTTCAA
*
2610911 AGCCCACAAGTCAGTGGCATCCTTTCAA
1 AGCCCACAAGTCAGTGGCATCTTTTCAA
* *
2610939 TGCCCACAAGTCAGTGGCACCCTTTTCAA
1 AGCCCACAAGTCAGTGGCA-TCTTTTCAA
* * * * *
2610968 AGCCCATAAGTTAGTGGCACCTTTCCAT
1 AGCCCACAAGTCAGTGGCATCTTTTCAA
* * * *
2610996 AGCCCACAGGGCAGTGGCACCTTTGCAA
1 AGCCCACAAGTCAGTGGCATCTTTTCAA
*
2611024 AGACCACAAGTCAGTGGCAT-TCTTTCAA
1 AGCCCACAAGTCAGTGGCATCT-TTTCAA
* *
2611052 AACCCACAAGTCAGTGGCACCCTTTTCAA
1 AGCCCACAAGTCAGTGGCA-TCTTTTCAA
* *
2611081 AGCCCACAAGTCAATGGCATCCTTTCAA
1 AGCCCACAAGTCAGTGGCATCTTTTCAA
* *
2611109 AGCCCACAAGTCAGTGACGTCTTTTCAA
1 AGCCCACAAGTCAGTGGCATCTTTTCAA
* * *
2611137 AGCCCAGAAGTCAATGGCACCCTTTTCAA
1 AGCCCACAAGTCAGTGGCA-TCTTTTCAA
* * *
2611166 GGCCCACAAGTTAGTGGCATCCTTTCAA
1 AGCCCACAAGTCAGTGGCATCTTTTCAA
*
2611194 AGCCCACAAGTCAGTGGCATCATTTCAA
1 AGCCCACAAGTCAGTGGCATCTTTTCAA
* * *
2611222 AGCCCACAAGTTAGTGGCATCCTCTCAA
1 AGCCCACAAGTCAGTGGCATCTTTTCAA
*
2611250 AGCCCACAAGTTAGTGGCAT-TCTTTCAA
1 AGCCCACAAGTCAGTGGCATCT-TTTCAA
* *
2611278 AGACCACAAGTCAGTGGCACCTTTTTCAA
1 AGCCCACAAGTCAGTGGCATC-TTTTCAA
** * *
2611307 AGCGTACAAGTTAGTGGCAT-TGTTTCAT
1 AGCCCACAAGTCAGTGGCATCT-TTTCAA
* * * *
2611335 AGCTCATAAGTCAGTGACATCCTTTCAA
1 AGCCCACAAGTCAGTGGCATCTTTTCAA
* *
2611363 AGCCCACAAGTCAGTGACACCCTTTTCAA
1 AGCCCACAAGTCAGTGGCA-TCTTTTCAA
* *
2611392 AGCCCACAAGTCAGTGGCACCTTTTCAT
1 AGCCCACAAGTCAGTGGCATCTTTTCAA
* * * *
2611420 AGCCCACAAGTCAGTGGAACCTTTTTAT
1 AGCCCACAAGTCAGTGGCATCTTTTCAA
* * *
2611448 GGCCCACAAGTCATTGGCACCTTTTCAA
1 AGCCCACAAGTCAGTGGCATCTTTTCAA
* * * *
2611476 AGCTCATAAGTCAATGGCATCCTTTCAA
1 AGCCCACAAGTCAGTGGCATCTTTTCAA
*
2611504 AGCCCACAAGTCAGTGGCATCTCTTCAA
1 AGCCCACAAGTCAGTGGCATCTTTTCAA
* * *
2611532 AGCCCAC-AGTTTAGTGGGATCCTTTCAA
1 AGCCCACAAG-TCAGTGGCATCTTTTCAA
* * * *
2611560 AGCCAACAAATTAGTGGCATCTCTTCAA
1 AGCCCACAAGTCAGTGGCATCTTTTCAA
* *
2611588 AGCCCACAAGTCAGAGGCACCTTTTCAA
1 AGCCCACAAGTCAGTGGCATCTTTTCAA
* * *
2611616 AACCCATAAGTCAATGGCATCTTATT-AA
1 AGCCCACAAGTCAGTGGCATCTT-TTCAA
2611644 AGCCCACA
1 AGCCCACA
2611652 CAAGTCGGTG
Statistics
Matches: 1061, Mismatches: 193, Indels: 54
0.81 0.15 0.04
Matches are distributed among these distances:
27 9 0.01
28 735 0.69
29 311 0.29
30 6 0.01
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (28 bp):
AGCCCACAAGTCAGTGGCATCTTTTCAA
Found at i:2610447 original size:57 final size:57
Alignment explanation
Indices: 2610343--2611651 Score: 1373
Period size: 57 Copynumber: 23.1 Consensus size: 57
2610333 ATGGAGTGAT
* * * * *
2610343 AGCCCACAAGTCAGTGGCATCC-TTTCAAAGGCCGCACGTTAGTGGCATCTTTTCAA
1 AGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAA
* ** * * *
2610399 TGCTTACAAGTCAGTGGCACCCTTTTCAAAGCCCATAAGTTAGTGGCATCC-TTTCAA
1 AGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAA
* * * *
2610456 ATCCCACAACTCTAGTGGCA-CCCTTTCAAAGCCCACAAGTCAGTAGCA-CTCTTTCAA
1 AGCCCACAAGTC-AGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCACCT-TTTCAA
* *
2610513 AGCCCACAAGTTAGTGGCA-CCATTTTCAAAGCCCACAAGTTAGTGGCATCC-TTTCAA
1 AGCCCACAAGTCAGTGGCATCC-TTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAA
* * *
2610570 AGCCCACAAGTTAGTGTCATCC-TTTCAAAGCCCATAAGTCAGTGGCACCATTTTCAA
1 AGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCACC-TTTTCAA
* *
2610627 AGCCCACAAGTCAGTGGCATCC-TTTCAAAGCCCACAAGTCAGTGACACCATTTCCAA
1 AGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCACC-TTTTCAA
* * * *
2610684 AGCCCACAACTCAGTGGCATCCGTTT-AAAGCCCATAAGTCAGTGGTATCC-TTTCAA
1 AGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAA
* * *
2610740 AGCCCACAAGTTAATGGCA-CCTTTTTCAAAGCCCACAAGTCAGTGACACCCTTTTCAA
1 AGCCCACAAGTCAGTGGCATCC-TTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAA
* * * *
2610798 AGCCCACAAATCAGTGACA-CCTTTTCATAGCCCACAAGTTAGTGGCACCTTTTCAA
1 AGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAA
* * * *
2610854 AGCCCACAAGTCAGTGGCATTCTTTT-AATGCCTACAAGTTAGTGGCACCCTTTTCAA
1 AGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAA
*
2610911 AGCCCACAAGTCAGTGGCATCC-TTTCAATGCCCACAAGTCAGTGGCACCCTTTTCAA
1 AGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAA
* * * * * * *
2610968 AGCCCATAAGTTAGTGGCA-CCTTTCCATAGCCCACAGGGCAGTGGCACCTTTGCAA
1 AGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAA
* * *
2611024 AGACCACAAGTCAGTGGCATTC-TTTCAAAACCCACAAGTCAGTGGCACCCTTTTCAA
1 AGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAA
* * **
2611081 AGCCCACAAGTCAATGGCATCC-TTTCAAAGCCCACAAGTCAGTGACGTCTTTTCAA
1 AGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAA
* * * * *
2611137 AGCCCAGAAGTCAATGGCACCCTTTTCAAGGCCCACAAGTTAGTGGCATCC-TTTCAA
1 AGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAA
* * *
2611194 AGCCCACAAGTCAGTGGCAT-CATTTCAAAGCCCACAAGTTAGTGGCATCC-TCTCAA
1 AGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAA
* * *
2611250 AGCCCACAAGTTAGTGGCATTC-TTTCAAAGACCACAAGTCAGTGGCACCTTTTTCAA
1 AGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCACC-TTTTCAA
** * * * * *
2611307 AGCGTACAAGTTAGTGGCAT--TGTTTCATAGCTCATAAGTCAGTGACATCC-TTTCAA
1 AGCCCACAAGTCAGTGGCATCCT-TTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAA
* * *
2611363 AGCCCACAAGTCAGTGACACCCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAT
1 AGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAA
* * ** *
2611420 AGCCCACAAGTCAGTGG-AACCTTTTTATGGCCCACAAGTCATTGGCACCTTTTCAA
1 AGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAA
* * * * *
2611476 AGCTCATAAGTCAATGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCATCTCTTCAA
1 AGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAA
* * * * * * *
2611532 AGCCCAC-AGTTTAGTGGGATCC-TTTCAAAGCCAACAAATTAGTGGCATCTCTTCAA
1 AGCCCACAAG-TCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAA
* * * * *
2611588 AGCCCACAAGTCAGAGGCA-CCTTTTCAAAACCCATAAGTCAATGGCATCTTATT-AA
1 AGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCACCTT-TTCAA
2611644 AGCCCACA
1 AGCCCACA
2611652 CAAGTCGGTG
Statistics
Matches: 1060, Mismatches: 155, Indels: 76
0.82 0.12 0.06
Matches are distributed among these distances:
55 11 0.01
56 458 0.43
57 548 0.52
58 42 0.04
59 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (57 bp):
AGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAA
Found at i:2610511 original size:85 final size:86
Alignment explanation
Indices: 2610343--2611651 Score: 1302
Period size: 85 Copynumber: 15.4 Consensus size: 86
2610333 ATGGAGTGAT
* * * * * **
2610343 AGCCCACAAGTCAGTGGCATCC-TTTCAAAGGCCGCACGT-TAGTGGCATCTTTTCAATGCTTAC
1 AGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCTAGTGGCATCCTTTCAAAGCCCAC
*
2610406 AAGTCAGTGGCACCCTTTTCAA
66 AAGTCAGTGGCACTC-TTTCAA
* * * * *
2610428 AGCCCATAAGTTAGTGGCATCC-TTTCAAATCCCACAACTCTAGTGGCACCCTTTCAAAGCCCAC
1 AGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCTAGTGGCATCCTTTCAAAGCCCAC
*
2610492 AAGTCAGTAGCACTCTTTCAA
66 AAGTCAGTGGCACTCTTTCAA
*
2610513 AGCCCACAAGTTAGTGGCA-CCATTTTCAAAGCCCACAAGT-TAGTGGCATCCTTTCAAAGCCCA
1 AGCCCACAAGTCAGTGGCATCC-TTTTCAAAGCCCACAAGTCTAGTGGCATCCTTTCAAAGCCCA
* *
2610576 CAAGTTAGTGTCA-TCCTTTCAA
65 CAAGTCAGTGGCACT-CTTTCAA
*
2610598 AGCCCATAAGTCAGTGGCA-CCATTTTCAAAGCCCACAAGTC-AGTGGCATCCTTTCAAAGCCCA
1 AGCCCACAAGTCAGTGGCATCC-TTTTCAAAGCCCACAAGTCTAGTGGCATCCTTTCAAAGCCCA
*
2610661 CAAGTCAGTGACAC-CATTTCCAA
65 CAAGTCAGTGGCACTC-TTT-CAA
* * * *
2610684 AGCCCACAACTCAGTGGCATCCGTTT-AAAGCCCATAAGTC-AGTGGTATCCTTTCAAAGCCCAC
1 AGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCTAGTGGCATCCTTTCAAAGCCCAC
* * *
2610747 AAGTTAATGGCACCTTTTTCAA
66 AAGTCAGTGGCA-CTCTTTCAA
* * * * *
2610769 AGCCCACAAGTCAGTGACACCCTTTTCAAAGCCCACAAATC-AGTGACA-CCTTTTCATAGCCCA
1 AGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCTAGTGGCATCC-TTTCAAAGCCCA
*
2610832 CAAGTTAGTGGCAC-CTTTTCAA
65 CAAGTCAGTGGCACTC-TTTCAA
* * * *
2610854 AGCCCACAAGTCAGTGGCATTCTTTT-AATGCCTACAAGT-TAGTGGCACCCTTTTCAAAGCCCA
1 AGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCTAGTGGCATCC-TTTCAAAGCCCA
2610917 CAAGTCAGTGGCA-TCCTTTCAA
65 CAAGTCAGTGGCACT-CTTTCAA
* * * *
2610939 TGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCATAAGT-TAGTGGCA-CCTTTCCATAGCCCA
1 AGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCTAGTGGCATCCTTT-CAAAGCCCA
* *
2611002 CAGGGCAGTGGCAC-CTTTGCAA
65 CAAGTCAGTGGCACTCTTT-CAA
* * * *
2611024 AGACCACAAGTCAGTGGCATTC-TTTCAAAACCCACAAGTC-AGTGGCACCCTTTTCAAAGCCCA
1 AGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCTAGTGGCATCC-TTTCAAAGCCCA
*
2611087 CAAGTCAATGGCA-TCCTTTCAA
65 CAAGTCAGTGGCACT-CTTTCAA
* * * * * *
2611109 AGCCCACAAGTCAGTGACGT-CTTTTCAAAGCCCAGAAGTC-AATGGCACCCTTTTCAAGGCCCA
1 AGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCTAGTGGCATCC-TTTCAAAGCCCA
*
2611172 CAAGTTAGTGGCA-TCCTTTCAA
65 CAAGTCAGTGGCACT-CTTTCAA
* *
2611194 AGCCCACAAGTCAGTGGCAT-CATTTCAAAGCCCACAAGT-TAGTGGCATCCTCTCAAAGCCCAC
1 AGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCTAGTGGCATCCTTTCAAAGCCCAC
* *
2611257 AAGTTAGTGGCATTCTTTCAA
66 AAGTCAGTGGCACTCTTTCAA
* ** ** * *
2611278 AGACCACAAGTCAGTGGCA-CCTTTTTCAAAGCGTACAAGT-TAGTGGCATTGTTTCATAGCTCA
1 AGCCCACAAGTCAGTGGCATCC-TTTTCAAAGCCCACAAGTCTAGTGGCATCCTTTCAAAGCCCA
* *
2611341 TAAGTCAGTGACA-TCCTTTCAA
65 CAAGTCAGTGGCACT-CTTTCAA
* * *
2611363 AGCCCACAAGTCAGTGACACCCTTTTCAAAGCCCACAAGTC-AGTGGCA-CCTTTTCATAGCCCA
1 AGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCTAGTGGCATCC-TTTCAAAGCCCA
* * *
2611426 CAAGTCAGTGGAAC-CTTTTTAT
65 CAAGTCAGTGGCACTC-TTTCAA
* * * * *
2611448 GGCCCACAAGTCATTGGCA-CCTTTTCAAAGCTCATAAGTC-AATGGCATCCTTTCAAAGCCCAC
1 AGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCTAGTGGCATCCTTTCAAAGCCCAC
2611511 AAGTCAGTGGCA-TCTCTTCAA
66 AAGTCAGTGGCACTCT-TTCAA
* * * *
2611532 AGCCCAC-AGTTTAGTGGGATCC-TTTCAAAGCCAACAAAT-TAGTGGCAT-CTCTTCAAAGCCC
1 AGCCCACAAG-TCAGTGGCATCCTTTTCAAAGCCCACAAGTCTAGTGGCATCCT-TTCAAAGCCC
*
2611593 ACAAGTCAGAGGCAC-CTTTTCAA
64 ACAAGTCAGTGGCACTC-TTTCAA
* * *
2611616 AACCCATAAGTCAATGGCAT-CTTATT-AAAGCCCACA
1 AGCCCACAAGTCAGTGGCATCCTT-TTCAAAGCCCACA
2611652 CAAGTCGGTG
Statistics
Matches: 1034, Mismatches: 140, Indels: 101
0.81 0.11 0.08
Matches are distributed among these distances:
83 6 0.01
84 236 0.23
85 648 0.63
86 142 0.14
87 2 0.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (86 bp):
AGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCTAGTGGCATCCTTTCAAAGCCCAC
AAGTCAGTGGCACTCTTTCAA
Found at i:2612077 original size:10 final size:11
Alignment explanation
Indices: 2612061--2612085 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2612051 TGAAAAATAC
2612061 AAAAAAAAGAA
1 AAAAAAAAGAA
2612072 AAAAAAAAGAA
1 AAAAAAAAGAA
2612083 AAA
1 AAA
2612086 GGGGGGTGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:2616252 original size:20 final size:20
Alignment explanation
Indices: 2616227--2616348 Score: 95
Period size: 20 Copynumber: 5.7 Consensus size: 20
2616217 TTTTCACAGT
2616227 TTGTATCGATACATTATTCA
1 TTGTATCGATACATTATTCA
*
2616247 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTATTCA
* *
2616267 TTGTATTGATACATTCTGGGTTTACCCAA
1 TTGTATCGATACA-T-T---ATT---C-A
*
2616296 ATGTATCGATACATT-TTGCA
1 TTGTATCGATACATTATT-CA
2616316 TTGTATCGATACATTACTT-A
1 TTGTATCGATACATTA-TTCA
2616336 TTGTATCGATACA
1 TTGTATCGATACA
2616349 GTGTATCGAT
Statistics
Matches: 84, Mismatches: 7, Indels: 22
0.74 0.06 0.19
Matches are distributed among these distances:
20 60 0.71
21 2 0.02
22 3 0.04
23 2 0.02
25 2 0.02
27 1 0.01
28 2 0.02
29 12 0.14
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.43
Consensus pattern (20 bp):
TTGTATCGATACATTATTCA
Found at i:2616364 original size:33 final size:33
Alignment explanation
Indices: 2616317--2616381 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
2616307 CATTTTGCAT
*
2616317 TGTATCGATACATTACTTATTGTATCGATACAG
1 TGTATCGATACATTACTCATTGTATCGATACAG
*
2616350 TGTATCGATGCATTACTCATTGTATCGATACA
1 TGTATCGATACATTACTCATTGTATCGATACA
2616382 TTTAATAATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.38
Consensus pattern (33 bp):
TGTATCGATACATTACTCATTGTATCGATACAG
Found at i:2616371 original size:53 final size:53
Alignment explanation
Indices: 2616297--2616401 Score: 142
Period size: 53 Copynumber: 2.0 Consensus size: 53
2616287 TTTACCCAAA
* * *
2616297 TGTATCGATACATTTTGCATTGTATCGATACA-TTACTTATTGTATCGATACAG
1 TGTATCGATACATTCTGCATTGTATCGATACATTTA-ATAATGTATCGATACAG
*
2616350 TGTATCGATGCATTACT-CATTGTATCGATACATTTAATAATGTATCGATACA
1 TGTATCGATACATT-CTGCATTGTATCGATACATTTAATAATGTATCGATACA
2616402 TTCAGGCATT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
53 42 0.91
54 4 0.09
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.40
Consensus pattern (53 bp):
TGTATCGATACATTCTGCATTGTATCGATACATTTAATAATGTATCGATACAG
Found at i:2618802 original size:52 final size:51
Alignment explanation
Indices: 2618687--2618805 Score: 175
Period size: 51 Copynumber: 2.3 Consensus size: 51
2618677 ATTTTTTCGA
* *
2618687 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTCTCCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTCTCCACAATC
* ** *
2618738 GGAGATACTCCAACTTCGATTTTATTTCCAAAACACCAATTTTTCCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAA-TTCTCCACAATC
2618790 GGGGATACTCCAACCC
1 GGGGATACTCCAACCC
2618806 TGTTATTTCA
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
51 34 0.59
52 24 0.41
ACGTcount: A:0.30, C:0.30, G:0.12, T:0.28
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTCTCCACAATC
Found at i:2618819 original size:28 final size:28
Alignment explanation
Indices: 2618787--2618863 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
2618777 TTTTTCCACA
*
2618787 ATCGGGGATACTCCAACCCTGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATTTC
2618815 ATCGGGGATACTCCAACCCCGTTATTT-
1 ATCGGGGATACTCCAACCCCGTTATTTC
*
2618842 -TCGAGGGGATACTTCAACCCCG
1 ATC--GGGGATACTCCAACCCCG
2618864 GCTTTATTTC
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
26 2 0.04
28 43 0.96
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATTTC
Found at i:2618910 original size:51 final size:51
Alignment explanation
Indices: 2618846--2618965 Score: 168
Period size: 51 Copynumber: 2.4 Consensus size: 51
2618836 TTATTTTCGA
* *
2618846 GGGGATACTTCAACCCCGGCTTTATTTCCAAAATATTGATTGCTCATAATC
1 GGGGATACTTCAACCCCGGCCTTATTTCCAAAATATTGATTGCTCACAATC
* * * *
2618897 GGGGATACTTCAACCCTGTCCTTATTTCTAAAATATTGATTTCTCACAATC
1 GGGGATACTTCAACCCCGGCCTTATTTCCAAAATATTGATTGCTCACAATC
* *
2618948 GGAGATACTCCAACCCCG
1 GGGGATACTTCAACCCCG
2618966 TTATTTCATC
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.32
Consensus pattern (51 bp):
GGGGATACTTCAACCCCGGCCTTATTTCCAAAATATTGATTGCTCACAATC
Found at i:2618965 original size:130 final size:128
Alignment explanation
Indices: 2618815--2619172 Score: 479
Period size: 130 Copynumber: 2.8 Consensus size: 128
2618805 CTGTTATTTC
*
2618815 ATCGGGGATACTCCAACCCCGTTATTTTCGA-GGGGATACTTCAACCCCGGCTTTATTTCCAAAA
1 ATCGGGGATACTCCAACCCCGTTATTTTC-ATGGGGATACTCCAACCCCGGCTTTATTTCCAAAA
2618879 TATTGATTGCTCATAATCGGGGATACTTCAACCCTGTCCTTATTTCTAAAATATTGATTTCTCAC
65 TATTGATT-CTCATAATCGGGGATACTTCAACCCTG-CCTTATTTCTAAAATATTGATTTCTCAC
2618944 A
128 A
* *
2618945 ATCGGAGATACTCCAACCCCGTTA-TTTCATCGGGGATACTCCAACCCTGGCTTTATTTCCAAAA
1 ATCGGGGATACTCCAACCCCGTTATTTTCAT-GGGGATACTCCAACCCCGGCTTTATTTCCAAAA
* * * *
2619009 TGTTGATTTCTCACAATCAGGGATACTTCAACCCCAGCCTTATTTCTAAAATATTGATTTCTCAC
65 TATTGA-TTCTCATAATCGGGGATACTTCAA-CCCTGCCTTATTTCTAAAATATTGATTTCTCAC
2619074 A
128 A
* * * * * * *
2619075 ATCGGGGATACTCCAACCCCATTATTTTCATGAGGATACTCCAATCTC-GATTTATTTTCAAAAC
1 ATCGGGGATACTCCAACCCCGTTATTTTCATGGGGATACTCCAACCCCGGCTTTATTTCCAAAAT
* * *
2619139 ATCGATTTTCTATAATCGGGGATACTCCAACCCT
66 ATTGATTCTC-ATAATCGGGGATACTTCAACCCT
2619173 ATTATTTCCG
Statistics
Matches: 199, Mismatches: 23, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
128 8 0.04
129 36 0.18
130 143 0.72
131 12 0.06
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (128 bp):
ATCGGGGATACTCCAACCCCGTTATTTTCATGGGGATACTCCAACCCCGGCTTTATTTCCAAAAT
ATTGATTCTCATAATCGGGGATACTTCAACCCTGCCTTATTTCTAAAATATTGATTTCTCACA
Found at i:2618977 original size:79 final size:79
Alignment explanation
Indices: 2618894--2619043 Score: 230
Period size: 79 Copynumber: 1.9 Consensus size: 79
2618884 ATTGCTCATA
* * *
2618894 ATCGGGGATACTTCAACCCTGTCCTTATTTCTAAAATATTGATTTCTCACAATC-GGAGATACTC
1 ATCGGGGATACTCCAACCCTGGCCTTATTTCCAAAATATTGATTTCTCACAATCAGG-GATACTC
2618958 CAACCCCGTTATTTC
65 CAACCCCGTTATTTC
* * *
2618973 ATCGGGGATACTCCAACCCTGGCTTTATTTCCAAAATGTTGATTTCTCACAATCAGGGATACTTC
1 ATCGGGGATACTCCAACCCTGGCCTTATTTCCAAAATATTGATTTCTCACAATCAGGGATACTCC
2619038 AACCCC
66 AACCCC
2619044 AGCCTTATTT
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
79 62 0.97
80 2 0.03
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCTGGCCTTATTTCCAAAATATTGATTTCTCACAATCAGGGATACTCC
AACCCCGTTATTTC
Found at i:2619041 original size:51 final size:51
Alignment explanation
Indices: 2618977--2619095 Score: 175
Period size: 51 Copynumber: 2.3 Consensus size: 51
2618967 TATTTCATCG
** * *
2618977 GGGATACTCCAACCCTGGCTTTATTTCCAAAATGTTGATTTCTCACAATCA
1 GGGATACTCCAACCCCAGCCTTATTTCCAAAATATTGATTTCTCACAATCA
* * *
2619028 GGGATACTTCAACCCCAGCCTTATTTCTAAAATATTGATTTCTCACAATCG
1 GGGATACTCCAACCCCAGCCTTATTTCCAAAATATTGATTTCTCACAATCA
2619079 GGGATACTCCAACCCCA
1 GGGATACTCCAACCCCA
2619096 TTATTTTCAT
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.29, C:0.28, G:0.13, T:0.30
Consensus pattern (51 bp):
GGGATACTCCAACCCCAGCCTTATTTCCAAAATATTGATTTCTCACAATCA
Found at i:2619156 original size:78 final size:80
Alignment explanation
Indices: 2619049--2619252 Score: 245
Period size: 78 Copynumber: 2.6 Consensus size: 80
2619039 ACCCCAGCCT
* * * * *
2619049 TATTTCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACCCCATTATTTTC-ATGAGGATA
1 TATTTCTAAAACATCGATTTTTCATAATCGGGGATACTCCAACCCCATTATTTCCGA-GAGGATA
* *
2619113 CTCCAATCTCGATTTA
65 CTCCAACCCCGATTTA
* *
2619129 T-TTTC-AAAACATCGA-TTTTCTATAATCGGGGATACTCCAACCCTATTATTTCCGAGGGGATA
1 TATTTCTAAAACATCGATTTTTC-ATAATCGGGGATACTCCAACCCCATTATTTCCGAGAGGATA
* *
2619191 CTCTAACCCCGATTTT
65 CTCCAACCCCGATTTA
* *
2619207 TATTTCTAGAACATCGATTTTTCATAATCGGGGATACTCCAGCCCC
1 TATTTCTAAAACATCGATTTTTCATAATCGGGGATACTCCAACCCC
2619253 GTTGTTATCT
Statistics
Matches: 105, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
77 4 0.04
78 56 0.53
79 9 0.09
80 31 0.30
81 5 0.05
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (80 bp):
TATTTCTAAAACATCGATTTTTCATAATCGGGGATACTCCAACCCCATTATTTCCGAGAGGATAC
TCCAACCCCGATTTA
Found at i:2625058 original size:52 final size:53
Alignment explanation
Indices: 2624993--2625121 Score: 217
Period size: 52 Copynumber: 2.5 Consensus size: 53
2624983 CGAAATATGA
*
2624993 AAATTTGCATGCATGTATCGATACATTTCAT-AGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAAGTGTATCGATACATCTGGGC
* *
2625045 AATTTTGCCTGCATGTATCGATACATTTTATAAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAAGTGTATCGATACATCTGGGC
2625098 AAATTTG-CTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
2625122 AAGATCAGTG
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
52 45 0.62
53 27 0.38
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (53 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAAGTGTATCGATACATCTGGGC
Found at i:2625148 original size:13 final size:13
Alignment explanation
Indices: 2625130--2625154 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2625120 CAAAGATCAG
2625130 TGTATCGATACAA
1 TGTATCGATACAA
2625143 TGTATCGATACA
1 TGTATCGATACA
2625155 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2625233 original size:32 final size:32
Alignment explanation
Indices: 2625192--2625294 Score: 179
Period size: 32 Copynumber: 3.2 Consensus size: 32
2625182 GGCAGTACCT
* *
2625192 TACATTGTATCGATACAAAACTTATGTATTGA
1 TACATTGTATCGATACAACACTTATGTATCGA
2625224 TACATTGTATCGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
2625256 TACATTGTATCGATACAACACTTTATGTATCGA
1 TACATTGTATCGATACAACAC-TTATGTATCGA
2625289 TACATT
1 TACATT
2625295 ACAAACTTAT
Statistics
Matches: 68, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
32 51 0.75
33 17 0.25
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.37
Consensus pattern (32 bp):
TACATTGTATCGATACAACACTTATGTATCGA
Found at i:2625238 original size:13 final size:13
Alignment explanation
Indices: 2625216--2625272 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
2625206 ACAAAACTTA
*
2625216 TGTATTGATACAT
1 TGTATCGATACAT
2625229 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
2625247 ATGTATCGATACAT
1 -TGTATCGATACAT
2625261 TGTATCGATACA
1 TGTATCGATACA
2625273 ACACTTTATG
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 20 0.54
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2625253 original size:19 final size:19
Alignment explanation
Indices: 2625197--2625313 Score: 87
Period size: 19 Copynumber: 6.5 Consensus size: 19
2625187 TACCTTACAT
*
2625197 TGTATCGATACAAAACTTA
1 TGTATCGATACAACACTTA
*
2625216 TGTATTGAT---ACA--T-
1 TGTATCGATACAACACTTA
2625229 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
2625248 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
2625261 TGTATCGATACAACACTTTA
1 TGTATCGATACAACAC-TTA
2625281 TGTATCGATACATTACAAACTTA
1 TGTATCGATACA--AC--ACTTA
2625304 TGTATCGATA
1 TGTATCGATA
2625314 ATCATGAAAT
Statistics
Matches: 78, Mismatches: 3, Indels: 30
0.70 0.03 0.27
Matches are distributed among these distances:
13 17 0.22
14 2 0.03
16 11 0.14
18 1 0.01
19 18 0.23
20 12 0.15
22 2 0.03
23 13 0.17
24 2 0.03
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:2633697 original size:33 final size:33
Alignment explanation
Indices: 2633660--2633726 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
2633650 TGTTTGGCAG
2633660 CCTTGGCATCCATGGAAGCCAATGAATTTGGAC
1 CCTTGGCATCCATGGAAGCCAATGAATTTGGAC
*
2633693 CCTTGGCATCCATGGCAGCCAATGAATTTGGAC
1 CCTTGGCATCCATGGAAGCCAATGAATTTGGAC
2633726 C
1 C
2633727 ATATGGTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (33 bp):
CCTTGGCATCCATGGAAGCCAATGAATTTGGAC
Found at i:2637080 original size:20 final size:21
Alignment explanation
Indices: 2637055--2637110 Score: 71
Period size: 22 Copynumber: 2.7 Consensus size: 21
2637045 TTTGCGTGCC
2637055 TGTATCGATACATT-GA-ATAA
1 TGTATCGATACATTAGATA-AA
*
2637075 TGTATCGATACATCTAGGTAAA
1 TGTATCGATACAT-TAGATAAA
2637097 TGTATCGATACATT
1 TGTATCGATACATT
2637111 TCCTTAGGCA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
20 13 0.41
21 2 0.06
22 16 0.50
23 1 0.03
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTAGATAAA
Found at i:2637436 original size:19 final size:19
Alignment explanation
Indices: 2637412--2637474 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
2637402 AACAAGTAAC
2637412 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
2637431 TGTATCGATAC--AA----
1 TGTATCGATACATAAGTGT
2637444 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
2637463 TGTATCGATACA
1 TGTATCGATACA
2637475 ATGTATCGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 23 0.61
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:2637449 original size:13 final size:13
Alignment explanation
Indices: 2637431--2637455 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2637421 ACATAAGTGT
2637431 TGTATCGATACAA
1 TGTATCGATACAA
2637444 TGTATCGATACA
1 TGTATCGATACA
2637456 TAAGTGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2637453 original size:32 final size:32
Alignment explanation
Indices: 2637412--2637482 Score: 142
Period size: 32 Copynumber: 2.2 Consensus size: 32
2637402 AACAAGTAAC
2637412 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
2637444 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
2637476 TGTATCG
1 TGTATCG
2637483 CTATGAAACT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:2637545 original size:13 final size:13
Alignment explanation
Indices: 2637527--2637554 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2637517 ATTACTCAAA
2637527 TGTATCGATACAT
1 TGTATCGATACAT
2637540 TGTATCGATACAT
1 TGTATCGATACAT
2637553 TG
1 TG
2637555 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2644575 original size:35 final size:35
Alignment explanation
Indices: 2644517--2645053 Score: 627
Period size: 35 Copynumber: 15.7 Consensus size: 35
2644507 TTCTCCAAGT
* *
2644517 CCACGACTCCGTGGCAC-CTTTTTCTTTTTAAAGC
1 CCACAACTCTGTGGCACTCTTTTTCTTTTTAAAGC
* *
2644551 CCATAACTCGGTGGCACTCTTTTTCTTTTTAAAGC
1 CCACAACTCTGTGGCACTCTTTTTCTTTTTAAAGC
* * *
2644586 CCACGACTCCGTGGCAC-CTTTTTCTTTTTCAAGC
1 CCACAACTCTGTGGCACTCTTTTTCTTTTTAAAGC
*
2644620 CCACAACTCTGTGGCATTCTTTTTCTTTTTAAAGC
1 CCACAACTCTGTGGCACTCTTTTTCTTTTTAAAGC
* *
2644655 CCACGACTCTGTGGCAC-CTTTTTCTTTTTCAAGC
1 CCACAACTCTGTGGCACTCTTTTTCTTTTTAAAGC
*
2644689 CCACAACTCTGTGGCATTCTTTTTCTTTTTAAAGC
1 CCACAACTCTGTGGCACTCTTTTTCTTTTTAAAGC
2644724 CCACAACTCTGTGGCACTCTTTTTCTTTTTAAAGC
1 CCACAACTCTGTGGCACTCTTTTTCTTTTTAAAGC
* *
2644759 CCACGACTCCGTGGCAC-CTTTTTCTTTTTAAAGC
1 CCACAACTCTGTGGCACTCTTTTTCTTTTTAAAGC
2644793 CCACAACTCTGTGGCACTCTTTTTCTTTTTAAAGC
1 CCACAACTCTGTGGCACTCTTTTTCTTTTTAAAGC
*
2644828 CCACAACTCTGTCGCACTCTTTTTCTTTTTAAAGC
1 CCACAACTCTGTGGCACTCTTTTTCTTTTTAAAGC
*
2644863 CCACAACTCTGTGGCACTCTTTTTCTTTTTAAAAC
1 CCACAACTCTGTGGCACTCTTTTTCTTTTTAAAGC
* * * * * *
2644898 CTACAACTCAGTGGCATCCCTTTTTC-CTGT-AAGT
1 CCACAACTCTGTGGCA-CTCTTTTTCTTTTTAAAGC
* * *
2644932 CCACAAGTCAGTGGCA-TC----TCTTTTCT-AAGT
1 CCACAACTCTGTGGCACTCTTTTTCTTTT-TAAAGC
* * * *
2644962 CCACGACTCCGTGGCAC-CTTTTTCTCTTTAAACC
1 CCACAACTCTGTGGCACTCTTTTTCTTTTTAAAGC
** * *
2644996 CCACAACTCCATGGCACTCTTTTTTCCTTTT-AAGT
1 CCACAACTCTGTGGCACTC-TTTTTCTTTTTAAAGC
* *
2645031 CCATAACT-TCGTGGCACCCTTTT
1 CCACAACTCT-GTGGCACTCTTTT
2645054 AAGCCCACAA
Statistics
Matches: 434, Mismatches: 53, Indels: 32
0.84 0.10 0.06
Matches are distributed among these distances:
28 2 0.00
29 1 0.00
30 19 0.04
32 1 0.00
33 1 0.00
34 149 0.34
35 244 0.56
36 17 0.04
ACGTcount: A:0.19, C:0.30, G:0.12, T:0.38
Consensus pattern (35 bp):
CCACAACTCTGTGGCACTCTTTTTCTTTTTAAAGC
Found at i:2644609 original size:69 final size:70
Alignment explanation
Indices: 2644517--2645053 Score: 627
Period size: 69 Copynumber: 7.8 Consensus size: 70
2644507 TTCTCCAAGT
* * * *
2644517 CCACGACTCCGTGGCAC-CTTTTTCTTTTTAAAGCCCATAACTCGGTGGCACTCTTTTTCTTTTT
1 CCACAACTCTGTGGCACTCTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCTTTTT
2644581 AAAGC
66 AAAGC
* * * *
2644586 CCACGACTCCGTGGCAC-CTTTTTCTTTTTCAAGCCCACAACTCTGTGGCATTCTTTTTCTTTTT
1 CCACAACTCTGTGGCACTCTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCTTTTT
2644650 AAAGC
66 AAAGC
* * *
2644655 CCACGACTCTGTGGCAC-CTTTTTCTTTTTCAAGCCCACAACTCTGTGGCATTCTTTTTCTTTTT
1 CCACAACTCTGTGGCACTCTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCTTTTT
2644719 AAAGC
66 AAAGC
* *
2644724 CCACAACTCTGTGGCACTCTTTTTCTTTTTAAAGCCCACGACTCCGTGGCAC-CTTTTTCTTTTT
1 CCACAACTCTGTGGCACTCTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCTTTTT
2644788 AAAGC
66 AAAGC
*
2644793 CCACAACTCTGTGGCACTCTTTTTCTTTTTAAAGCCCACAACTCTGTCGCACTCTTTTTCTTTTT
1 CCACAACTCTGTGGCACTCTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCTTTTT
2644858 AAAGC
66 AAAGC
* * * * * *
2644863 CCACAACTCTGTGGCACTCTTTTTCTTTTTAAAACCTACAACTCAGTGGCATCCCTTTTTC-CTG
1 CCACAACTCTGTGGCACTCTTTTTCTTTTTAAAGCCCACAACTCTGTGGCA-CTCTTTTTCTTTT
*
2644927 T-AAGT
65 TAAAGC
* * * * * *
2644932 CCACAAGTCAGTGGCA-TC----TCTTTTCT-AAGTCCACGACTCCGTGGCAC-CTTTTTCTCTT
1 CCACAACTCTGTGGCACTCTTTTTCTTTT-TAAAGCCCACAACTCTGTGGCACTCTTTTTCTTTT
*
2644990 TAAACC
65 TAAAGC
** * * * *
2644996 CCACAACTCCATGGCACTCTTTTTTCCTTTT-AAGTCCATAACT-TCGTGGCACCCTTTT
1 CCACAACTCTGTGGCACTC-TTTTTCTTTTTAAAGCCCACAACTCT-GTGGCACTCTTTT
2645054 AAGCCCACAA
Statistics
Matches: 416, Mismatches: 38, Indels: 27
0.86 0.08 0.06
Matches are distributed among these distances:
62 7 0.02
63 4 0.01
64 36 0.09
65 3 0.01
68 2 0.00
69 250 0.60
70 106 0.25
71 8 0.02
ACGTcount: A:0.19, C:0.30, G:0.12, T:0.38
Consensus pattern (70 bp):
CCACAACTCTGTGGCACTCTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCTTTTT
AAAGC
Found at i:2644711 original size:104 final size:103
Alignment explanation
Indices: 2644517--2645028 Score: 626
Period size: 104 Copynumber: 5.0 Consensus size: 103
2644507 TTCTCCAAGT
* * * ** *
2644517 CCACGACTCCGTGGCACCTTTTTCTTTTTAAAGCCCATAACTCGGTGGCACTCTTTTTCTTTTTA
1 CCACAACTCTGTGGCATCTTTTTCTTTTTAAAGCCCACGACTCCGTGGCAC-CTTTTTCTTTTTA
* *
2644582 AAGCCCACGACTCCGTGGCAC-CTTTTTCTTTTTCAAGC
65 AAGCCCACAACTCCGTGGCACTCTTTTTCTTTTTAAAGC
* *
2644620 CCACAACTCTGTGGCATTCTTTTTCTTTTTAAAGCCCACGACTCTGTGGCACCTTTTTCTTTTTC
1 CCACAACTCTGTGGCA-TCTTTTTCTTTTTAAAGCCCACGACTCCGTGGCACCTTTTTCTTTTTA
* *
2644685 AAGCCCACAACTCTGTGGCATTCTTTTTCTTTTTAAAGC
65 AAGCCCACAACTCCGTGGCACTCTTTTTCTTTTTAAAGC
2644724 CCACAACTCTGTGGCACTCTTTTTCTTTTTAAAGCCCACGACTCCGTGGCACCTTTTTCTTTTTA
1 CCACAACTCTGTGGCA-TCTTTTTCTTTTTAAAGCCCACGACTCCGTGGCACCTTTTTCTTTTTA
*
2644789 AAGCCCACAACTCTGTGGCACTCTTTTTCTTTTTAAAGC
65 AAGCCCACAACTCCGTGGCACTCTTTTTCTTTTTAAAGC
* * *
2644828 CCACAACTCTGTCGCACTCTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCTTTTT
1 CCACAACTCTGTGGCA-TCTTTTTCTTTTTAAAGCCCACGACTCCGTGGCAC-CTTTTTCTTTTT
* * * * * * *
2644893 AAAACCTACAACTCAGTGGCATCCCTTTTTC-CTGT-AAGT
64 AAAGCCCACAACTCCGTGGCA-CTCTTTTTCTTTTTAAAGC
* * * *
2644932 CCACAAGTCAGTGGCATC----TCTTTTCT-AAGTCCACGACTCCGTGGCACCTTTTTCTCTTTA
1 CCACAACTCTGTGGCATCTTTTTCTTTT-TAAAGCCCACGACTCCGTGGCACCTTTTTCTTTTTA
* * *
2644992 AACCCCACAACTCCATGGCACTCTTTTTTCCTTTTAA
65 AAGCCCACAACTCCGTGGCACTC-TTTTTCTTTTTAA
2645029 GTCCATAACT
Statistics
Matches: 362, Mismatches: 39, Indels: 19
0.86 0.09 0.05
Matches are distributed among these distances:
97 2 0.01
98 34 0.09
99 26 0.07
100 2 0.01
103 46 0.13
104 212 0.59
105 32 0.09
106 8 0.02
ACGTcount: A:0.19, C:0.30, G:0.12, T:0.38
Consensus pattern (103 bp):
CCACAACTCTGTGGCATCTTTTTCTTTTTAAAGCCCACGACTCCGTGGCACCTTTTTCTTTTTAA
AGCCCACAACTCCGTGGCACTCTTTTTCTTTTTAAAGC
Found at i:2644961 original size:30 final size:33
Alignment explanation
Indices: 2644900--2644985 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 33
2644890 TTTAAAACCT
2644900 ACAACTCAGTGGCATCCCTTTTTCCTGTAAGTCC
1 ACAACTCAGTGGCATCCCTTTTTCC-GTAAGTCC
* *
2644934 ACAAGTCAGTGGCATCTC-TTTT-C-TAAGTCC
1 ACAACTCAGTGGCATCCCTTTTTCCGTAAGTCC
* *
2644964 ACGACTCCGTGGCA--CCTTTTTC
1 ACAACTCAGTGGCATCCCTTTTTC
2644986 TCTTTAAACC
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
28 1 0.02
29 4 0.09
30 18 0.41
32 1 0.02
33 4 0.09
34 16 0.36
ACGTcount: A:0.20, C:0.31, G:0.16, T:0.33
Consensus pattern (33 bp):
ACAACTCAGTGGCATCCCTTTTTCCGTAAGTCC
Found at i:2645051 original size:27 final size:27
Alignment explanation
Indices: 2645021--2645078 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
2645011 ACTCTTTTTT
* * *
2645021 CCTTTTAAGTCCATAACTTCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCAC
*
2645048 CCTTTTAAGCCCACAACTCCGTGGCAT
1 CCTTTTAAGCCCACAACTCCGTGGCAC
2645075 CCTT
1 CCTT
2645079 CTCCTTTTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.21, C:0.34, G:0.14, T:0.31
Consensus pattern (27 bp):
CCTTTTAAGCCCACAACTCCGTGGCAC
Found at i:2645267 original size:49 final size:49
Alignment explanation
Indices: 2645135--2647489 Score: 1899
Period size: 49 Copynumber: 49.1 Consensus size: 49
2645125 CAAAAGTCGG
* * *
2645135 TGGCATTTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
1 TGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * *
2645184 TGGCACCTTTGTCATCTTTAAGTCCAATTTCGCTGGCCTTGAATCAGCATAT
1 TGGCA--TCT-TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
*
2645236 TGGCATCTTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACAT
1 TGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * *
2645285 TGGCA----C--CTTTAA-TCCCAATATCGCTGGCCTTGAATCAACATAT
1 TGGCATCTTCATCTTTAAGT-CCAATGTCGCTGGCCTTGAATCAGCACAT
* * * *
2645328 TGGCACCTTCATCTTTAAATCCAATATCGCTGGCCTTGAATCAGCATAT
1 TGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* ** * * *
2645377 TGGCACCTTTGTCATCTTTAAAACCCAATGTTGTTGGCCTTGAATCAGTACAT
1 TGGCA--TCT-TCATCTTT-AAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * * *
2645430 TGGAACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
1 TGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * *
2645479 TGGCGCCTTTGTCATCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACAT
1 T-G-GCATCT-TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
*
2645531 TGGCATCTTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACAT
1 TGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * * *
2645580 TGGCA-----A-CTTTAAG-CCTAATATCGTTGGCCTTGAATCAACATAT
1 TGGCATCTTCATCTTTAAGTCC-AATGTCGCTGGCCTTGAATCAGCACAT
* * * * * *
2645623 TGGCACCGTCATCTTTAAGTCCAATATCGCTGGCCTTAAATCAGAATAT
1 TGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * * *
2645672 TGGCGCCTTTGTCATCTTTAAGTCTAATGTCGCTGGCCTTGAATCAGTACAT
1 T-G-GCATCT-TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * * * *
2645724 TGGAACCATCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
1 TGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * * ** *
2645773 TGGCGTCTTTGTCTTCTTTAAGTCCAATATCGCTGGCCTTGAATCAAAATAT
1 TGGCATC--T-TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * * *
2645825 TGGCGCCTTTGTCATCTTTAAGTCTAATGTCGCTGGCCTTGAATCAGTACAT
1 T-G-GCATCT-TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * * *
2645877 TGGCACCTTCATCTTTCAGTCCAATATCGCTGGCCTTGAATCAGCATAT
1 TGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * *
2645926 TGGCGCCTTCTTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAACACAT
1 T-G-G-CATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * * *
2645978 TGGCACCTTCATCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATAT
1 TGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* ** * *
2646027 TGGCACCTTTGTCATCTTTAAGAGCAATGTTGTTGGCCTTGAATCAGCACAT
1 TGGCA--TCT-TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
** * * *
2646079 TGGCA----C--CTTTAAGTCCAACATCGTTGGCCTTGAATCATCATAT
1 TGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * * * *
2646122 TGGCACCTT-GTCTTTAAGACCAATGTCGATGGCTTTGAATCAGCACAT
1 TGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * *
2646170 TGG------CA----TAAGCCCAATATCGCTGGCCTTGAATCAGCATAT
1 TGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * *
2646209 TGGCATCTTTGTCATCTTTAAGACCAATGTCGCTGGCCTTGAATTAACACAT
1 TGGCATC--T-TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * * *
2646261 TGGCA----C--CTTCAAGTCCAATATCGTTGGCCTTGAATCAGCATAT
1 TGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * * * *
2646304 TGGCA-CCTCATCTTTAAGACCAATGTCGTTGGCCTTGAATCAACGCAT
1 TGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
*
2646352 TGG------CA----TAAGCCCAATGTCGCTGGCCTTGAATCAGCACAT
1 TGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
*** * * * *
2646391 TGGCATCTTCATCTTTAAGTCTGGTATTGCTTGCCTTGAATCAGCATAT
1 TGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * * *
2646440 TGGCACCTTCTTCATCTTTAAGACTAATGTCGCTAGCCTCGAATCAGCACAT
1 TGGCA---TCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* *
2646492 TGGCATCTTCATCTTTAAGACCAATGTCGTTGGCCTTGAATCAGCACAT
1 TGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * * *
2646541 TGG-----T-ACCTTCAAGTCCAATATCGTTGGCCTTGAATCAGCACAT
1 TGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * * *
2646584 TGG------CA----TAAGCCCAATATTGCTGGCCTTGAATCAGCATAT
1 TGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * * * *
2646623 TGGCA-CCTCATCTTTAAGACCAATGTCGTTGGCCTTGAATCAACGCAT
1 TGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
*
2646671 TGG------CA----TAAGCCCAATGTCGCTGGCCTTGAATCAGCACAT
1 TGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
*** * * * * *
2646710 TGGCATCTTCATCTTTAAGTCTGGTATTGCTTGCCTTGAATCAACATAT
1 TGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * * *
2646759 TGGCACCTTCTTCATCTTTAAGACTAATGTCGCTAGCCTCGAATCAGCACAT
1 TGGCA---TCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
*
2646811 TGGCATCTTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACAT
1 TGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * *
2646860 TGGCA----C--CTTCAAGTCCAATATTGCTGGCCTTGAATCAGCACAT
1 TGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * * * *
2646903 TGG------CA----TAAGCCCAATATCGTTGGCCTTGAATCTGCATAT
1 TGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * * *
2646942 TGGCA-CCTCATCTTTAAGACCAATGTCGTTGGCCTTGAATCAACACAT
1 TGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
*
2646990 TGG---------C-TTAAGCCCAATGTCGCTGGCCTTGAATCAGCACAT
1 TGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
*** * *
2647029 TGGCATCTTCATCTTTAAGTCTGGTATCGCTGGCCTTGAATCAGCATAGT
1 TGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACA-T
* * * *
2647079 GGCGCCTTCTTCATCTTTAAGACCAATGTCGCTGGCCTTAAATCAGCACAT
1 TG-G-CATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
*
2647130 TGGCATCTTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACAT
1 TGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
2647179 TGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
1 TGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * * *
2647228 TGGCACCTTCATCTTTAAGTCTAATATCGCTGGCCTTGAATCAGCATAT
1 TGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * * *
2647277 TGGTGCCTTCGTCATCTTTAAGTCCAATGTCACTAGCCTTGAATCAGCACAT
1 T-G-G-CATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * *
2647329 TGGCATCTTCATCTTTAAATCCAATATCGCTGGCCTTGAATCAGCATAT
1 TGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * ** *
2647378 TGGTGTCTTCGTCATCTTTAAAACCCAATGTCGTTGGCCTTGAATCAGCACAT
1 T-G-G-CATCTTCATCTTT-AAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * * * *
2647431 TGGCATTCTTCTCATCTTCAAGTCTAATGTCGCTGACCGTGAATCAGCACGT
1 TGGCA-TC-T-TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
*
2647483 TGACATC
1 TGGCATC
2647490 CTTTTTCTTA
Statistics
Matches: 1885, Mismatches: 287, Indels: 266
0.77 0.12 0.11
Matches are distributed among these distances:
39 196 0.10
40 1 0.00
41 1 0.00
42 2 0.00
43 221 0.12
44 6 0.00
45 8 0.00
46 1 0.00
47 1 0.00
48 133 0.07
49 667 0.35
50 32 0.02
51 26 0.01
52 518 0.27
53 69 0.04
54 3 0.00
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.32
Consensus pattern (49 bp):
TGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
Found at i:2645561 original size:101 final size:99
Alignment explanation
Indices: 2645142--2646355 Score: 1179
Period size: 101 Copynumber: 12.5 Consensus size: 99
2645132 CGGTGGCATT
* * * *
2645142 TTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGT
1 TTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCGCC--TGTCATCTTTAAGT
* *
2645207 CCAATTTCGCTGGCCTTGAATCAGCATATTGGCATC
64 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACC
*
2645243 TTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATT---G---G-CACCTTTAA-TCC
1 TTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCGCCTGTCATCTTTAAGT-C
*
2645300 CAATATCGCTGGCCTTGAATCAACATATTGGCACC
65 CAATATCGCTGGCCTTGAATCAGCATATTGGCACC
* * *
2645335 TTCATCTTTAA-ATCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAA
1 TTCATCTTTAAGA-CCAATGTCGCTGGCCTTGAATCAGCACATTGGCGCC--TGTCATCTTT-AA
** * * * * * *
2645399 ACCCAATGTTGTTGGCCTTGAATCAGTACATTGGAACC
62 GTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC
* * *
2645437 TTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGT
1 TTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCGCC--TGTCATCTTTAAGT
* * * *
2645502 CCAATGTCACTGGCCTTGAATCAGCACATTGGCATC
64 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACC
*
2645538 TTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATT---G---G-CAACTTTAAG-CC
1 TTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCGCCTGTCATCTTTAAGTCC
* *
2645595 TAATATCGTTGGCCTTGAATCAACATATTGGCACC
66 -AATATCGCTGGCCTTGAATCAGCATATTGGCACC
* * * * * *
2645630 GTCATCTTTAAGTCCAATATCGCTGGCCTTAAATCAGAATATTGGCGCCTTTGTCATCTTTAAGT
1 TTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCGCC--TGTCATCTTTAAGT
* * * * *
2645695 CTAATGTCGCTGGCCTTGAATCAGTACATTGGAACC
64 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACC
* * * * * *
2645731 ATCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGTCTTTGTCTTCTTTAAGT
1 TTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCG-C-CTGTCATCTTTAAGT
** *
2645796 CCAATATCGCTGGCCTTGAATCAAAATATTGGCGCC
64 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACC
* * * * *
2645832 TTTGTCATCTTTAAGTCTAATGTCGCTGGCCTTGAATCAGTACATTGGCACCT-TCATCTTTCAG
1 --T-TCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCGCCTGTCATCTTTAAG
*
2645896 TCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTC
63 TCCAATATCGCTGGCCTTGAATCAGCATATTGGC-AC--C
* *
2645936 TTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAACACATTGGCACCT-TCATCTTTAAGTCC
1 TTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCGCCTGTCATCTTTAAGTCC
*
2646000 AATATCGCTAGCCTTGAATCAGCATATTGGCACC
66 AATATCGCTGGCCTTGAATCAGCATATTGGCACC
* * * *
2646034 TTTGTCATCTTTAAGAGCAATGTTGTTGGCCTTGAATCAGCACATT---G---G-CACCTTTAAG
1 --T-TCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCGCCTGTCATCTTTAAG
* * *
2646092 TCCAACATCGTTGGCCTTGAATCATCATATTGGCACC
63 TCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC
* * * *
2646129 TT-GTCTTTAAGACCAATGTCGATGGCTTTGAATCAGCACATT---G---G-CA----TAAGCCC
1 TTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCGCCTGTCATCTTTAAGTCC
*
2646182 AATATCGCTGGCCTTGAATCAGCATATTGGCATCTT
66 AATATCGCTGGCCTTGAATCAGCATATTGGCA-C-C
* * *
2646218 TGTCATCTTTAAGACCAATGTCGCTGGCCTTGAATTAACACATTGGCACC--T--TC---AAGTC
1 T-TCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCGCCTGTCATCTTTAAGTC
*
2646276 CAATATCGTTGGCCTTGAATCAGCATATTGGCACC
65 CAATATCGCTGGCCTTGAATCAGCATATTGGCACC
* * *
2646311 -TCATCTTTAAGACCAATGTCGTTGGCCTTGAATCAACGCATTGGC
1 TTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGC
2646356 ATAAGCCCAA
Statistics
Matches: 947, Mismatches: 117, Indels: 108
0.81 0.10 0.09
Matches are distributed among these distances:
87 35 0.04
88 1 0.00
89 1 0.00
90 1 0.00
91 120 0.13
92 155 0.16
93 3 0.00
94 1 0.00
95 79 0.08
98 2 0.00
100 4 0.00
101 408 0.43
102 94 0.10
103 1 0.00
104 42 0.04
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.33
Consensus pattern (99 bp):
TTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCGCCTGTCATCTTTAAGTCC
AATATCGCTGGCCTTGAATCAGCATATTGGCACC
Found at i:2646131 original size:21 final size:21
Alignment explanation
Indices: 2646063--2646131 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
2646053 ATGTTGTTGG
* *
2646063 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAACATATTGGCA
* *
2646084 CCTTTAAGTCCAACATCGTTGG--
1 CCTTGAA-T-CAACAT-ATTGGCA
*
2646106 CCTTGAATCATCATATTGGCA
1 CCTTGAATCAACATATTGGCA
2646127 CCTTG
1 CCTTG
2646132 TCTTTAAGAC
Statistics
Matches: 36, Mismatches: 7, Indels: 10
0.68 0.13 0.19
Matches are distributed among these distances:
19 4 0.11
20 5 0.14
21 12 0.33
22 7 0.19
23 4 0.11
24 4 0.11
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (21 bp):
CCTTGAATCAACATATTGGCA
Found at i:2646199 original size:39 final size:39
Alignment explanation
Indices: 2646136--2646214 Score: 113
Period size: 39 Copynumber: 2.0 Consensus size: 39
2646126 ACCTTGTCTT
* *
2646136 TAAGACCAATGTCGATGGCTTTGAATCAGCACATTGGCA
1 TAAGACCAATATCGATGGCCTTGAATCAGCACATTGGCA
* * *
2646175 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
1 TAAGACCAATATCGATGGCCTTGAATCAGCACATTGGCA
2646214 T
1 T
2646215 CTTTGTCATC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.27
Consensus pattern (39 bp):
TAAGACCAATATCGATGGCCTTGAATCAGCACATTGGCA
Found at i:2646227 original size:91 final size:91
Alignment explanation
Indices: 2645993--2647279 Score: 546
Period size: 101 Copynumber: 14.0 Consensus size: 91
2645983 CCTTCATCTT
* * *
2645993 TAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGAGCAATGTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CTTTGTCATCTTTAAGACCAATGTC
*
2646058 GTTGGCCTTGAATCAGCACATTGGCACC
65 GTTGGCCTTGAATCAACACATTGGCA-C
* * * *
2646086 TTTAAGTCCAACATCGTTGGCCTTGAATCATCATATTGGCACCTTG---TCTTTAAGACCAATGT
1 --TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTGTCATCTTTAAGACCAATGT
* * *
2646148 CGATGGCTTTGAATCAGCACATTGGCA-
64 CGTTGGCCTTGAATCAACACATTGGCAC
*
2646175 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTGTCATCTTTAAGACCAATGTC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CTTTGTCATCTTTAAGACCAATGTC
* *
2646240 GCTGGCCTTGAATTAACACATTGGCACC
65 GTTGGCCTTGAATCAACACATTGGCA-C
* *
2646268 TTCAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCAC---CTCATCTTTAAGACCAATGT
1 -T-AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTGTCATCTTTAAGACCAATGT
*
2646330 CGTTGGCCTTGAATCAACGCATTGGCA-
64 CGTTGGCCTTGAATCAACACATTGGCAC
* * * * * *** * *
2646357 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-TCT-TCATCTTTAAGTCTGGTATTG
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTGTCATCTTTAAGACCAATGTCG
* *
2646420 CTT-GCCTTGAATCAGCATATTGGCACCTTCTTCATC
66 -TTGGCCTTGAATCAACACATTGG---------CA-C
* * * * * * *
2646456 TTTAAGACTAATGTCGCTAGCCTCGAATCAGCACATTGGCA-TCT-TCATCTTTAAGACCAATGT
1 --TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTGTCATCTTTAAGACCAATGT
* *
2646519 CGTTGGCCTTGAATCAGCACATTGGTACC
64 CGTTGGCCTTGAATCAACACATTGGCA-C
* * * *
2646548 TTCAAGTCCAATATCGTTGGCCTTGAATCAGC--A----CA--TTGGCA----TAAGCCCAATAT
1 -T-AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTGTCATCTTTAAGACCAATGT
* * * *
2646601 TGCTGGCCTTGAATCAGCATATTGGCACCTCATC
64 CGTTGGCCTTGAATCAACACATTGG-----CA-C
* * * * * *
2646635 TTTAAGACCAATGTCGTTGGCCTTGAAT---CA-A--CGCA--TTGGCA--T--AAGCCCAATGT
1 --TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTGTCATCTTTAAGACCAATGT
* *
2646688 CGCTGGCCTTGAATCAGCACATTGGCATCTTCATC
64 CGTTGGCCTTGAATCAACACATTGG------CA-C
*** * * * *
2646723 TTTAAGTCTGGTATTGCTTGCCTTGAATCAACATATTGGCACCTTCT-TCATCTTTAAGACTAAT
1 --TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CTT-TGTCATCTTTAAGACCAAT
* * * *
2646787 GTCGCTAGCCTCGAATCAGCACATTGGCATCTTCATC
62 GTCGTTGGCCTTGAATCAACACATTGG------CA-C
* * * * * *
2646824 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA------C--CTTCAAGTCCAATAT
1 --TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTGTCATCTTTAAGACCAATGT
* * *
2646881 TGCTGGCCTTGAATCAGCACATTGGCA-
64 CGTTGGCCTTGAATCAACACATTGGCAC
* * * *
2646908 TAAGCCCAATATCGTTGGCCTTGAATCTGCATATTGGCAC---CTCATCTTTAAGACCAATGTCG
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTGTCATCTTTAAGACCAATGTCG
*
2646970 TTGGCCTTGAATCAACACATTGGC-T
66 TTGGCCTTGAATCAACACATTGGCAC
* * * * * *** *
2646995 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-TCT-TCATCTTTAAGTCTGGTATCG
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTGTCATCTTTAAGACCAATGTCG
* * * *
2647058 CTGGCCTTGAATCAGCATAGTGGCGCCTTCTTCATC
66 TTGGCCTTGAATCAACACA-TTG-G-------CA-C
* * * * *
2647094 TTTAAGACCAATGTCGCTGGCCTTAAATCAGCACATTGGCA-TCT-TCATCTTTAAGACCAATGT
1 --TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTGTCATCTTTAAGACCAATGT
* *
2647157 CGCTGGCCTTGAATCAGCACATTGGCATCTTCATC
64 CGTTGGCCTTGAATCAACACATTGG------CA-C
* * * * * *
2647192 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC-CT-TCATCTTTAAGTCTAATAT
1 --TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTGTCATCTTTAAGACCAATGT
* * *
2647255 CGCTGGCCTTGAATCAGCATATTGG
64 CGTTGGCCTTGAATCAACACATTGG
2647280 TGCCTTCGTC
Statistics
Matches: 972, Mismatches: 144, Indels: 149
0.77 0.11 0.12
Matches are distributed among these distances:
82 66 0.07
84 1 0.00
85 3 0.00
86 6 0.01
87 205 0.21
88 97 0.10
89 4 0.00
90 2 0.00
91 125 0.13
92 59 0.06
94 10 0.01
95 71 0.07
97 6 0.01
98 91 0.09
99 2 0.00
100 4 0.00
101 220 0.23
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (91 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTGTCATCTTTAAGACCAATGTCG
TTGGCCTTGAATCAACACATTGGCAC
Found at i:2646377 original size:39 final size:39
Alignment explanation
Indices: 2646318--2646396 Score: 122
Period size: 39 Copynumber: 2.0 Consensus size: 39
2646308 ACCTCATCTT
* *
2646318 TAAGACCAATGTCGTTGGCCTTGAATCAACGCATTGGCA
1 TAAGACCAATGTCGCTGGCCTTGAATCAACACATTGGCA
* *
2646357 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
1 TAAGACCAATGTCGCTGGCCTTGAATCAACACATTGGCA
2646396 T
1 T
2646397 CTTCATCTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (39 bp):
TAAGACCAATGTCGCTGGCCTTGAATCAACACATTGGCA
Found at i:2646459 original size:231 final size:227
Alignment explanation
Indices: 2645411--2646640 Score: 662
Period size: 254 Copynumber: 5.2 Consensus size: 227
2645401 CCAATGTTGT
* * *** * *
2645411 TGGCCTTGAATCAGTACATTGGAACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCA
1 TGGCCTTGAATCAGCACATTGGCACC-TCATCTTTAAGTCTGGTATTGCTTGCCTTGAATCAGCA
* * * * * *
2645476 TATTGGCGCCTTTGTCATCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCATCTTC
65 TATTGGCACCTTTGTCATCTTTAAGACCAATGTCGCTAGCCTCGAATCAACACATTGGCA---TC
* * * * *
2645541 ATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCAACTTTAAG-CCTAATATCGTT
127 A-CTTCAAGACCAATATCGTTGGCCTTGAATCAGCACATTGGCACCTTCAAGACC-AATATCGTT
* *
2645605 GGCCTTGAATCAACATATTGGCACCGTCATCTTTAAGTCCAATATCGC
190 GGCCTTGAATCAACACATT-G----G-CA----TAAGCCCAATATCGC
* * * * ** * * *
2645653 TGGCCTTAAATCAGAATATTGGCGCCTTTGTCATCTTTAAGTCTAATGTCGCTGGCCTTGAATCA
1 TGGCCTTGAATCAGCACATTGGCACC----TCATCTTTAAGTCTGGTATTGCTTGCCTTGAATCA
* * * * * * * * * * *
2645718 GTACATTGGAACC---ATCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGTC
62 GCATATTGGCACCTTTGTCATCTTTAAGACCAATGTCGCTAGCCTCGAATCAACACATTGGCATC
* * * ** * *
2645780 TTTGTCTTCTTTAAGTCCAATATCGCTGGCCTTGAATCAAAATATTGGCGCCTTTGTCATCTTTA
127 ----ACTTC---AAGACCAATATCGTTGGCCTTGAATCAGCACATTGGCACC----T--TC---A
* * * * ** *
2645845 AGTCTAATGTCGCTGGCCTTGAATCAGTACATTGGCACCTTCATCTTTCAGTCCAATATCGC
176 AGACCAATATCGTTGGCCTTGAATCAACACATTGGCA---T-A------AGCCCAATATCGC
* * * *** * * *
2645907 TGGCCTTGAATCAGCATATTGGCGCCTTCTTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCA
1 TGGCCTTGAATCAGCACATTGGC-AC--C-TCATCTTTAAGTCTGGTATTGCTTGCCTTGAATCA
* * * * * * *
2645972 ACACATTGGCACC--T-TCATCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACC
62 GCATATTGGCACCTTTGTCATCTTTAAGACCAATGTCGCTAGCCTCGAATCAACACATTGGCA--
* * * * * * *
2646034 TTTGTCATCTTTAAGAGCAATGTTGTTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAACA
125 ----TCA-CTTCAAGACCAATATCGTTGGCCTTGAATCAGCACATTGGCACCTTCAAGACCAATA
* * * * *
2646099 TCGTTGGCCTTGAATCATCATATTGGCACCTTGTCTTTAAGACCAATGTCGA
185 TCGTTGGCCTTGAATCAACACATTGGCA---------TAAGCCCAATATCGC
* * *** * *
2646151 TGGCTTTGAATCAGCACATTGG-----CA----TAAGCCCAATATCGCTGGCCTTGAATCAGCAT
1 TGGCCTTGAATCAGCACATTGGCACCTCATCTTTAAGTCTGGTATTGCTTGCCTTGAATCAGCAT
* * * *
2646207 ATTGGCATCTTTGTCATCTTTAAGACCAATGTCGCTGGCCTTGAATTAACACATTGGCA-C-CTT
66 ATTGGCACCTTTGTCATCTTTAAGACCAATGTCGCTAGCCTCGAATCAACACATTGGCATCACTT
* * *
2646270 CAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTCATCTTTAAGACCAATGTCGTTG
131 CAAGACCAATATCGTTGGCCTTGAATCAGCACATTGGCACCT--TC---AAGACCAATATCGTTG
* *
2646335 GCCTTGAATCAACGCATTGGCATAAGCCCAATGTCGC
191 GCCTTGAATCAACACATTGGCATAAGCCCAATATCGC
*
2646372 TGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCTGGTATTGCTTGCCTTGAATCAGCA
1 TGGCCTTGAATCAGCACATTGGCA-CCTCATCTTTAAGTCTGGTATTGCTTGCCTTGAATCAGCA
* *
2646437 TATTGGCACCTTCT-TCATCTTTAAGACTAATGTCGCTAGCCTCGAATCAGCACATTGGCATCTT
65 TATTGGCACCTT-TGTCATCTTTAAGACCAATGTCGCTAGCCTCGAATCAACACATTGGCA---T
* * * *
2646501 CATCTTTAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGTACCTTCAAGTCCAATATCGTT
126 CA-CTTCAAGACCAATATCGTTGGCCTTGAATCAGCACATTGGCACCTTCAAGACCAATATCGTT
* *
2646566 GGCCTTGAATCAGCACATTGGCATAAGCCCAATATTGC
190 GGCCTTGAATCAACACATTGGCATAAGCCCAATATCGC
*
2646604 TGGCCTTGAATCAGCATATTGGCACCTCATCTTTAAG
1 TGGCCTTGAATCAGCACATTGGCACCTCATCTTTAAG
2646641 ACCAATGTCG
Statistics
Matches: 797, Mismatches: 122, Indels: 149
0.75 0.11 0.14
Matches are distributed among these distances:
221 34 0.04
225 39 0.05
227 4 0.01
230 32 0.04
231 125 0.16
232 71 0.09
233 1 0.00
234 40 0.05
235 5 0.01
237 40 0.05
239 2 0.00
242 66 0.08
244 30 0.04
245 106 0.13
247 3 0.00
248 4 0.01
249 2 0.00
250 2 0.00
251 4 0.01
253 1 0.00
254 178 0.22
255 2 0.00
257 4 0.01
260 2 0.00
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (227 bp):
TGGCCTTGAATCAGCACATTGGCACCTCATCTTTAAGTCTGGTATTGCTTGCCTTGAATCAGCAT
ATTGGCACCTTTGTCATCTTTAAGACCAATGTCGCTAGCCTCGAATCAACACATTGGCATCACTT
CAAGACCAATATCGTTGGCCTTGAATCAGCACATTGGCACCTTCAAGACCAATATCGTTGGCCTT
GAATCAACACATTGGCATAAGCCCAATATCGC
Found at i:2646543 original size:101 final size:99
Alignment explanation
Indices: 2646357--2647480 Score: 925
Period size: 101 Copynumber: 11.8 Consensus size: 99
2646347 CGCATTGGCA
* * *** *
2646357 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCTGGTATTGCT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGACCAATATCGCT
* *
2646422 TGCCTTGAATCAGCATATTGGCACCTTCTTCATCTT
66 GGCCTTGAATCAGCACATTGGCA-C-TCTTCATCTT
* * * * *
2646458 TAAGACTAATGTCGCTAGCCTCGAATCAGCACATTGGCATCTTCATCTTTAAGACCAATGTCGTT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGACCAATATCGCT
*
2646523 GGCCTTGAATCAGCACATTGGTAC-C-T--TC--
66 GGCCTTGAATCAGCACATTGGCACTCTTCATCTT
* * * * *
2646551 -AAGTCCAATATCGTTGGCCTTGAATCAGCACATTGG------CA----TAAGCCCAATATTGCT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGACCAATATCGCT
*
2646605 GGCCTTGAATCAGCATATTGGCAC-C-TCATCTT
66 GGCCTTGAATCAGCACATTGGCACTCTTCATCTT
* * * * *
2646637 TAAGACCAATGTCGTTGGCCTTGAATCAACGCATTGG------CA----TAAGCCCAATGTCGCT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGACCAATATCGCT
2646692 GGCCTTGAATCAGCACATTGGCA-TCTTCATCTT
66 GGCCTTGAATCAGCACATTGGCACTCTTCATCTT
* *** * * * * * * *
2646725 TAAGTCTGGTATTGCTTGCCTTGAATCAACATATTGGCACCTTCTTCATCTTTAAGACTAATGTC
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA---TCTTCATCTTTAAGACCAATATC
* *
2646790 GCTAGCCTCGAATCAGCACATTGGCA-TCTTCATCTT
63 GCTGGCCTTGAATCAGCACATTGGCACTCTTCATCTT
* * *
2646826 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA----C--CTTCAAGTCCAATATTGCT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGACCAATATCGCT
2646885 GGCCTTGAATCAGCACATTGG-------CA----
66 GGCCTTGAATCAGCACATTGGCACTCTTCATCTT
* * * * * * * *
2646908 TAAGCCCAATATCGTTGGCCTTGAATCTGCATATTGGCA-CCTCATCTTTAAGACCAATGTCGTT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGACCAATATCGCT
*
2646972 GGCCTTGAATCAACACATTGG----------C-T
66 GGCCTTGAATCAGCACATTGGCACTCTTCATCTT
* * ***
2646995 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCTGGTATCGCT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGACCAATATCGCT
* * *
2647060 GGCCTTGAATCAGCATAGTGGCGCCTTCTTCATCTT
66 GGCCTTGAATCAGCACATTGGC-AC-TCTTCATCTT
* *
2647096 TAAGACCAATGTCGCTGGCCTTAAATCAGCACATTGGCATCTTCATCTTTAAGACCAATGTCGCT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGACCAATATCGCT
2647161 GGCCTTGAATCAGCACATTGGCA-TCTTCATCTT
66 GGCCTTGAATCAGCACATTGGCACTCTTCATCTT
* * * *
2647194 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCTAATATCGCT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGACCAATATCGCT
* *
2647259 GGCCTTGAATCAGCATATTGGTGC-CTTCGTCATCTT
66 GGCCTTGAATCAGCACATT-G-GCAC-TCTTCATCTT
* * *
2647295 TAAGTCCAATGTCACTAGCCTTGAATCAGCACATTGGCATCTTCATCTTTAA-ATCCAATATCGC
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGA-CCAATATCGC
* ** *
2647359 TGGCCTTGAATCAGCATATTGGTGTCTTCGTCATCTT
65 TGGCCTTGAATCAGCACATTGG-CAC-TCTTCATCTT
* * * * * *
2647396 TAAAACCCAATGTCGTTGGCCTTGAATCAGCACATTGGCATTCTTCTCATCTTCAAGTCTAATGT
1 TAAGA-CCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-TC-T-TCATCTTTAAGACCAATAT
* *
2647461 CGCTGACCGTGAATCAGCAC
62 CGCTGGCCTTGAATCAGCAC
2647481 GTTGACATCC
Statistics
Matches: 846, Mismatches: 124, Indels: 102
0.79 0.12 0.10
Matches are distributed among these distances:
82 70 0.08
84 2 0.00
85 1 0.00
86 4 0.00
87 140 0.17
88 70 0.08
92 63 0.07
94 1 0.00
95 2 0.00
97 3 0.00
98 88 0.10
99 2 0.00
100 5 0.01
101 330 0.39
102 31 0.04
103 2 0.00
104 1 0.00
105 31 0.04
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (99 bp):
TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGACCAATATCGCT
GGCCTTGAATCAGCACATTGGCACTCTTCATCTT
Found at i:2646609 original size:39 final size:39
Alignment explanation
Indices: 2646507--2646715 Score: 175
Period size: 39 Copynumber: 5.0 Consensus size: 39
2646497 TCTTCATCTT
* * * *
2646507 TAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGTACCT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGG---CA
* *
2646549 TCAAGTCCAATATCGTTGGCCTTGAATCAGCACATTGGCA
1 T-AAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* *
2646589 TAAGCCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTCA
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGG-----CA
* * * * *
2646633 TCTTTAAGACCAATGTCGTTGGCCTTGAATCAACGCATTGGCA
1 ----TAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
*
2646676 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
2646715 T
1 T
2646716 CTTCATCTTT
Statistics
Matches: 139, Mismatches: 18, Indels: 23
0.77 0.10 0.13
Matches are distributed among these distances:
39 68 0.49
40 2 0.01
42 1 0.01
43 36 0.26
44 2 0.01
48 30 0.22
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (39 bp):
TAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
Found at i:2646631 original size:319 final size:319
Alignment explanation
Indices: 2646232--2647232 Score: 1687
Period size: 319 Copynumber: 3.1 Consensus size: 319
2646222 ATCTTTAAGA
* * * *
2646232 CCAATGTCGCTGGCCTTGAATTAACACATTGGCACCTTCAAGTCCAATATCGTTGGCCTTGAATC
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCA---T-AAGCCCAATATCGTTGGCCTTGAATC
2646297 AGCATATTGGCACCTCATCTTTAAGACCAATGTCGTTGGCCTTGAATCAACGCATTGGCATAAGC
62 AGCATATTGGCACCTCATCTTTAAGACCAATGTCGTTGGCCTTGAATCAACGCATTGGCATAAGC
2646362 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCTGGTATTGCTTGCCT
127 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCTGGTATTGCTTGCCT
2646427 TGAATCAGCATATTGGCACCTTCTTCATCTTTAAGACTAATGTCGCTAGCCTCGAATCAGCACAT
192 TGAATCAGCATATTGGCACCTTCTTCATCTTTAAGACTAATGTCGCTAGCCTCGAATCAGCACAT
*
2646492 TGGCATCTTCATCTTTAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGTACCTTCAAGT
257 TGGCATCTTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGTACCTTCAAGT
* * *
2646555 CCAATATCGTTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATTGCTGGCCTTGAATCAGCA
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGTTGGCCTTGAATCAGCA
2646620 TATTGGCACCTCATCTTTAAGACCAATGTCGTTGGCCTTGAATCAACGCATTGGCATAAGCCCAA
66 TATTGGCACCTCATCTTTAAGACCAATGTCGTTGGCCTTGAATCAACGCATTGGCATAAGCCCAA
2646685 TGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCTGGTATTGCTTGCCTTGAA
131 TGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCTGGTATTGCTTGCCTTGAA
*
2646750 TCAACATATTGGCACCTTCTTCATCTTTAAGACTAATGTCGCTAGCCTCGAATCAGCACATTGGC
196 TCAGCATATTGGCACCTTCTTCATCTTTAAGACTAATGTCGCTAGCCTCGAATCAGCACATTGGC
*
2646815 ATCTTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCAAGT
261 ATCTTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGTACCTTCAAGT
* *
2646874 CCAATATTGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGTTGGCCTTGAATCTGCA
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGTTGGCCTTGAATCAGCA
* *
2646939 TATTGGCACCTCATCTTTAAGACCAATGTCGTTGGCCTTGAATCAACACATTGGCTTAAGCCCAA
66 TATTGGCACCTCATCTTTAAGACCAATGTCGTTGGCCTTGAATCAACGCATTGGCATAAGCCCAA
* *
2647004 TGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCTGGTATCGCTGGCCTTGAA
131 TGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCTGGTATTGCTTGCCTTGAA
* * * * **
2647069 TCAGCATAGTGGCGCCTTCTTCATCTTTAAGACCAATGTCGCTGGCCTTAAATCAGCACATTGGC
196 TCAGCATATTGGCACCTTCTTCATCTTTAAGACTAATGTCGCTAGCCTCGAATCAGCACATTGGC
* *
2647134 ATCTTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGT
261 ATCTTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG-----T-ACCTTCAAGT
*
2647199 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCA
2647233 CCTTCATCTT
Statistics
Matches: 641, Mismatches: 31, Indels: 10
0.94 0.05 0.01
Matches are distributed among these distances:
319 570 0.89
320 1 0.00
323 30 0.05
325 40 0.06
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (319 bp):
CCAATATCGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGTTGGCCTTGAATCAGCA
TATTGGCACCTCATCTTTAAGACCAATGTCGTTGGCCTTGAATCAACGCATTGGCATAAGCCCAA
TGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCTGGTATTGCTTGCCTTGAA
TCAGCATATTGGCACCTTCTTCATCTTTAAGACTAATGTCGCTAGCCTCGAATCAGCACATTGGC
ATCTTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGTACCTTCAAGT
Found at i:2646672 original size:87 final size:87
Alignment explanation
Indices: 2646507--2646763 Score: 292
Period size: 87 Copynumber: 3.0 Consensus size: 87
2646497 TCTTCATCTT
* * * * *
2646507 TAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGTACCT--TC---AAGTCCAATATCGTTG
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTCATCTTTAAGACCAATATCGTTG
*
2646567 GCCTTGAATCAGCACATTGGCA
66 GCCTTGAATCAACACATTGGCA
* * *
2646589 TAAGCCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTCATCTTTAAGACCAATGTCGTTG
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTCATCTTTAAGACCAATATCGTTG
*
2646654 GCCTTGAATCAACGCATTGGCA
66 GCCTTGAATCAACACATTGGCA
* * * *** *
2646676 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCTGGTATTGCT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCA-CCTCATCTTTAAGACCAATATCG-T
*
2646741 T-GCCTTGAATCAACATATTGGCA
64 TGGCCTTGAATCAACACATTGGCA
2646764 CCTTCTTCAT
Statistics
Matches: 146, Mismatches: 22, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
82 36 0.25
84 2 0.01
87 70 0.48
88 36 0.25
89 2 0.01
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.30
Consensus pattern (87 bp):
TAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTCATCTTTAAGACCAATATCGTTG
GCCTTGAATCAACACATTGGCA
Found at i:2646928 original size:39 final size:39
Alignment explanation
Indices: 2646826--2647034 Score: 193
Period size: 39 Copynumber: 5.0 Consensus size: 39
2646816 TCTTCATCTT
2646826 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
* * *
2646865 CCTTCAAGTCCAATATTGCTGGCCTTGAATCAGCACATTGGCA
1 ---T-AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
* * * * *
2646908 TAAGCCCAATATCGTTGGCCTTGAATCTGCATATTGGCACCTCA
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG-----CA
* * *
2646952 TCTTTAAGACCAATGTCGTTGGCCTTGAATCAACACATTGGCT
1 ----TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
*
2646995 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
2647034 T
1 T
2647035 CTTCATCTTT
Statistics
Matches: 139, Mismatches: 18, Indels: 23
0.77 0.10 0.13
Matches are distributed among these distances:
39 67 0.48
40 1 0.01
42 1 0.01
43 36 0.26
44 2 0.01
48 32 0.23
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (39 bp):
TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
Found at i:2646993 original size:87 final size:87
Alignment explanation
Indices: 2646826--2647071 Score: 304
Period size: 87 Copynumber: 2.9 Consensus size: 87
2646816 TCTTCATCTT
* * *
2646826 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCT--TC---AAGTCCAATATTGCTG
1 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTCATCTTTAAGACCAATATCGCTG
*
2646886 GCCTTGAATCAGCACATTGGCA
66 GCCTTGAATCAACACATTGGCA
* * * * * *
2646908 TAAGCCCAATATCGTTGGCCTTGAATCTGCATATTGGCACCTCATCTTTAAGACCAATGTCGTTG
1 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTCATCTTTAAGACCAATATCGCTG
*
2646973 GCCTTGAATCAACACATTGGCT
66 GCCTTGAATCAACACATTGGCA
* * ***
2646995 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCTGGTATCGCT
1 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CCTCATCTTTAAGACCAATATCGCT
2647060 GGCCTTGAATCA
65 GGCCTTGAATCA
2647072 GCATAGTGGC
Statistics
Matches: 136, Mismatches: 22, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
82 37 0.27
84 2 0.01
87 67 0.49
88 30 0.22
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (87 bp):
TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTCATCTTTAAGACCAATATCGCTG
GCCTTGAATCAACACATTGGCA
Found at i:2647292 original size:150 final size:149
Alignment explanation
Indices: 2646994--2647489 Score: 591
Period size: 150 Copynumber: 3.3 Consensus size: 149
2646984 ACACATTGGC
* ***
2646994 TTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCTGGTATCGC
1 TTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATATCGC
* * *
2647059 TGGCCTTGAATCAGCATAGTGGCGCCTTCTTCATCTTTAAGACCAATGTCGCTGGCCTTAAATCA
66 TGGCCTTGAATCAGCATATTGGCGAC-TCTTCATCTTTAAGACCAATATCGCTGGCCTTAAATCA
*
2647124 GCACATTGGCATCTTCATCT
130 GCACATTGGCATCGTCATCT
*
2647144 TTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATGTCGC
1 TTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATATCGC
* * * *
2647209 TGGCCTTGAATCAGCACATTGGC-AC-CTTCATCTTTAAGTCTAATATCGCTGGCCTTGAATCAG
66 TGGCCTTGAATCAGCATATTGGCGACTCTTCATCTTTAAGACCAATATCGCTGGCCTTAAATCAG
* *
2647272 CATATTGGTGCCTTCGTCATCT
131 CACATT-G-G-CATCGTCATCT
* * * *
2647294 TTAAGTCCAATGTCACTAGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAATCCAATATCGC
1 TTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATATCGC
* * * * * * *
2647359 TGGCCTTGAATCAGCATATTGGTGTCTTCGTCATCTTTAAAACCCAATGTCGTTGGCCTTGAATC
66 TGGCCTTGAATCAGCATATTGGCGAC-TCTTCATCTTTAAGA-CCAATATCGCTGGCCTTAAATC
*
2647424 AGCACATTGGCATTCTTCTCATCT
129 AGCACATTGGCA-TC--GTCATCT
* * * * * * *
2647448 TCAAGTCTAATGTCGCTGACCGTGAATCAGCACGTTGACATC
1 TTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATC
2647490 CTTTTTCTTA
Statistics
Matches: 296, Mismatches: 40, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
147 39 0.13
148 1 0.00
149 2 0.01
150 171 0.58
151 2 0.01
152 3 0.01
153 12 0.04
154 66 0.22
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.32
Consensus pattern (149 bp):
TTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATATCGC
TGGCCTTGAATCAGCATATTGGCGACTCTTCATCTTTAAGACCAATATCGCTGGCCTTAAATCAG
CACATTGGCATCGTCATCT
Found at i:2648209 original size:19 final size:19
Alignment explanation
Indices: 2648185--2648245 Score: 80
Period size: 19 Copynumber: 3.5 Consensus size: 19
2648175 CAAGTAACTA
2648185 TATCGATACATAAGTGTTG
1 TATCGATACATAAGTGTTG
2648204 TATCGATAC--AA----TG
1 TATCGATACATAAGTGTTG
2648217 TATCGATACATAAGTGTTG
1 TATCGATACATAAGTGTTG
2648236 TATCGATACA
1 TATCGATACA
2648246 ATGTATCGCT
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
13 11 0.31
15 2 0.06
17 2 0.06
19 21 0.58
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.34
Consensus pattern (19 bp):
TATCGATACATAAGTGTTG
Found at i:2648220 original size:13 final size:13
Alignment explanation
Indices: 2648202--2648226 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2648192 ACATAAGTGT
2648202 TGTATCGATACAA
1 TGTATCGATACAA
2648215 TGTATCGATACA
1 TGTATCGATACA
2648227 TAAGTGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2648226 original size:32 final size:32
Alignment explanation
Indices: 2648185--2648253 Score: 138
Period size: 32 Copynumber: 2.2 Consensus size: 32
2648175 CAAGTAACTA
2648185 TATCGATACATAAGTGTTGTATCGATACAATG
1 TATCGATACATAAGTGTTGTATCGATACAATG
2648217 TATCGATACATAAGTGTTGTATCGATACAATG
1 TATCGATACATAAGTGTTGTATCGATACAATG
2648249 TATCG
1 TATCG
2648254 CTACGAAGCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (32 bp):
TATCGATACATAAGTGTTGTATCGATACAATG
Found at i:2652363 original size:49 final size:49
Alignment explanation
Indices: 2652215--2652804 Score: 400
Period size: 49 Copynumber: 12.4 Consensus size: 49
2652205 CGAAGAATGA
* * * * * * *
2652215 CAATATGCTAATTCATGGCCAGCGACATTAGACTTGAAGAAGAA--TGC
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* * ** * * * * *
2652262 TAATGTGTTGAGACAAGACCAGCGATATTGGGCTTAGGAATGTTAAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTA--AA-GATGAAGGTGC
* * * *
2652314 CAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* * * * ** *
2652363 CAATGTACTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAATTAC
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* * * *
2652412 CAATATACTGATTCAAGGCCAGTGATATTGGACTTAAAGATGGTTGAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT-G--AAGGTGC
* * * * * *
2652464 CGATGTGCTGATTCAAGGCCAACGACATCGGTCTTCAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* * ** * *
2652513 CAATATGCTGATTCAAGACCAGTAATATTGG-------GCT---CGTGC
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* *
2652552 CAATGTGCTGATTCAAGGCTAGCGATATTGGGC-T-----T----GTGC
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* * ** * *
2652591 CAATGTGCTGATTCAAGGCCAGCGACATTAGTTTTAGAGA-CAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* * * *
2652639 TAATATGCTGATTCAAGGCTAGCGATATTGGATTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* * * * *
2652688 CAATGTGCTGATTCAGAGTCGA-CGACATTGGTCTTAAAGATGAAGGTGT
1 CAATGTGCTGATTCA-AGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
*
2652737 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
2652786 CAATGTGCTGATTCAAGGC
1 CAATGTGCTGATTCAAGGC
2652805 TGGCGACATT
Statistics
Matches: 421, Mismatches: 98, Indels: 46
0.75 0.17 0.08
Matches are distributed among these distances:
39 62 0.15
40 2 0.00
42 2 0.00
47 24 0.06
48 41 0.10
49 215 0.51
50 9 0.02
51 1 0.00
52 65 0.15
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
Found at i:2652516 original size:101 final size:98
Alignment explanation
Indices: 2652306--2652543 Score: 287
Period size: 101 Copynumber: 2.4 Consensus size: 98
2652296 TAGGAATGTT
** *
2652306 AAAGATGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGATGAAGATGCCAATGTAC
1 AAAG-TGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAGATGCCAATGTAC
* *
2652371 TGATTCAAGGCCAGCGACATTGGTCTTAAAGATA
65 TGATTCAAGGCCAACGACATCGGTCTTAAAGATA
* * * * * *
2652405 AAATTACCAATATACTGATTCAAGGCCAGTGATATTGGACTTAAAGATGGTTGAGGTGCCGATGT
1 AAAGTGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGAT-G--AAGATGCCAATGT
* * *
2652470 GCTGATTCAAGGCCAACGACATCGGTCTTCAAGATG
63 ACTGATTCAAGGCCAACGACATCGGTCTTAAAGATA
* * *
2652506 AAGGTGCCAATATGCTGATTCAAGACCAGTAATATTGG
1 AAAGTGCCAATATGCTGATTCAAGGCCAGTGATATTGG
2652544 GCTCGTGCCA
Statistics
Matches: 116, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
98 39 0.34
99 4 0.03
101 73 0.63
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.25
Consensus pattern (98 bp):
AAAGTGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAGATGCCAATGTACT
GATTCAAGGCCAACGACATCGGTCTTAAAGATA
Found at i:2652615 original size:39 final size:39
Alignment explanation
Indices: 2652509--2652615 Score: 160
Period size: 39 Copynumber: 2.7 Consensus size: 39
2652499 CAAGATGAAG
* * **
2652509 GTGCCAATATGCTGATTCAAGACCAGTAATATTGGGCTC
1 GTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTC
* *
2652548 GTGCCAATGTGCTGATTCAAGGCTAGCGATATTGGGCTT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTC
2652587 GTGCCAATGTGCTGATTCAAGGCCAGCGA
1 GTGCCAATGTGCTGATTCAAGGCCAGCGA
2652616 CATTAGTTTT
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 61 1.00
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTC
Found at i:2652955 original size:66 final size:66
Alignment explanation
Indices: 2652849--2652974 Score: 182
Period size: 66 Copynumber: 1.9 Consensus size: 66
2652839 AGGGCTAGCG
* *
2652849 ACGGAGGTGTGGGCTTAAAAGGGAAAAGGGTGCCACGGAGTCGTGGACTTAAAAAGAAAAGGTGC
1 ACGGAGGTGTGGGCTTAAAAGAGAAAAAGGTGCCACGGAGTCGTGGACTTAAAAAGAAAAGGTGC
2652914 C
66 C
* * * *
2652915 ACGGAGTTGTGGGCTTTAAAA-AGAAAAAGGTGCCATGGAGTTGTGGACTTAAAAGGAAAA
1 ACGGAGGTGTGGGC-TTAAAAGAGAAAAAGGTGCCACGGAGTCGTGGACTTAAAAAGAAAA
2652975 ACATGCCATA
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
66 47 0.89
67 6 0.11
ACGTcount: A:0.36, C:0.11, G:0.35, T:0.18
Consensus pattern (66 bp):
ACGGAGGTGTGGGCTTAAAAGAGAAAAAGGTGCCACGGAGTCGTGGACTTAAAAAGAAAAGGTGC
C
Found at i:2652983 original size:33 final size:33
Alignment explanation
Indices: 2652849--2652975 Score: 157
Period size: 34 Copynumber: 3.8 Consensus size: 33
2652839 AGGGCTAGCG
* * * *
2652849 ACGGAGGTGTGGGCTTAAAAGGGAAAAGGGTGCC
1 ACGGAGTTGTGGACTTAAAA-AGAAAAAGGTGCC
*
2652883 ACGGAGTCGTGGACTTAAAAAG-AAAAGGTGCC
1 ACGGAGTTGTGGACTTAAAAAGAAAAAGGTGCC
*
2652915 ACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCC
1 ACGGAGTTGTGGAC-TTAAAAAGAAAAAGGTGCC
* *
2652949 ATGGAGTTGTGGACTTAAAAGGAAAAA
1 ACGGAGTTGTGGACTTAAAAAGAAAAA
2652976 CATGCCATAG
Statistics
Matches: 81, Mismatches: 10, Indels: 5
0.84 0.10 0.05
Matches are distributed among these distances:
32 21 0.26
33 21 0.26
34 39 0.48
ACGTcount: A:0.36, C:0.11, G:0.35, T:0.18
Consensus pattern (33 bp):
ACGGAGTTGTGGACTTAAAAAGAAAAAGGTGCC
Found at i:2652992 original size:33 final size:34
Alignment explanation
Indices: 2652891--2652998 Score: 87
Period size: 33 Copynumber: 3.3 Consensus size: 34
2652881 CCACGGAGTC
** ** *
2652891 GTGGAC-TTAAAAAG-AAAAGGTGCCACGGAGTT
1 GTGGACTTTAAAAAGAAAAACATGCCATAGACTT
* ** * *
2652923 GTGGGCTTTAAAAAGAAAAAGGTGCCATGGAGTT
1 GTGGACTTTAAAAAGAAAAACATGCCATAGACTT
*
2652957 GTGGAC-TTAAAAGGAAAAACATGCCATAGACTT
1 GTGGACTTTAAAAAGAAAAACATGCCATAGACTT
*
2652990 GTGGGCTTT
1 GTGGACTTT
2652999 TGAAGGTTGC
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
32 5 0.08
33 35 0.55
34 24 0.38
ACGTcount: A:0.35, C:0.12, G:0.30, T:0.23
Consensus pattern (34 bp):
GTGGACTTTAAAAAGAAAAACATGCCATAGACTT
Found at i:2653010 original size:28 final size:28
Alignment explanation
Indices: 2652985--2653117 Score: 203
Period size: 28 Copynumber: 4.7 Consensus size: 28
2652975 ACATGCCATA
2652985 GACTTGTGGGCTTTTGAAGGTTGCCACT
1 GACTTGTGGGCTTTTGAAGGTTGCCACT
*
2653013 GACTTGTAGGCTTTTGAAGGTTGCCACT
1 GACTTGTGGGCTTTTGAAGGTTGCCACT
*
2653041 GACTTGTGGGCTTTTGAAGTTTGCCACT
1 GACTTGTGGGCTTTTGAAGGTTGCCACT
* * * *
2653069 AACTTGTGGGCTTTGGAAAAGATGCCACT
1 GACTTGTGGGCTTTTG-AAGGTTGCCACT
2653098 GACTTGTGGGCTTTTGAAGG
1 GACTTGTGGGCTTTTGAAGG
2653118 GTGAGGAATG
Statistics
Matches: 93, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
28 70 0.75
29 23 0.25
ACGTcount: A:0.18, C:0.17, G:0.31, T:0.35
Consensus pattern (28 bp):
GACTTGTGGGCTTTTGAAGGTTGCCACT
Found at i:2654563 original size:8 final size:8
Alignment explanation
Indices: 2654549--2654608 Score: 54
Period size: 8 Copynumber: 7.6 Consensus size: 8
2654539 ATTCGGACCC
2654549 TTTTTTT-
1 TTTTTTTG
*
2654556 TGTTTTT-
1 TTTTTTTG
2654563 TTTTTTTG
1 TTTTTTTG
*
2654571 TTTTGTTG
1 TTTTTTTG
*
2654579 TTTTGTTG
1 TTTTTTTG
2654587 TTTTGTTTTG
1 -TTT-TTTTG
2654597 TTTTTTT-
1 TTTTTTTG
2654604 TTTTT
1 TTTTT
2654609 GCGGAGGACG
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
7 17 0.37
8 19 0.41
9 6 0.13
10 4 0.09
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (8 bp):
TTTTTTTG
Found at i:2654567 original size:13 final size:13
Alignment explanation
Indices: 2654549--2654609 Score: 86
Period size: 13 Copynumber: 4.7 Consensus size: 13
2654539 ATTCGGACCC
2654549 TTTTTTTTGTTTT
1 TTTTTTTTGTTTT
2654562 TTTTTTTTGTTTT
1 TTTTTTTTGTTTT
* * *
2654575 GTTGTTTTGTTGT
1 TTTTTTTTGTTTT
*
2654588 TTTGTTTTGTTTT
1 TTTTTTTTGTTTT
2654601 TTTTTTTTG
1 TTTTTTTTG
2654610 CGGAGGACGC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 42 1.00
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (13 bp):
TTTTTTTTGTTTT
Found at i:2669066 original size:52 final size:49
Alignment explanation
Indices: 2668945--2669675 Score: 424
Period size: 49 Copynumber: 15.8 Consensus size: 49
2668935 CTCGAAGAAG
* * * * * * *
2668945 AATGACAATGTGCTAATTCAAGGCCAGTGACATTAGATTTAAAGA--AG
1 AATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAA
* * *** * **
2668992 AATTCCAATGTGCTGGGACAAGGCCAGCGACATTGGGCTTAGGGATGTTAAA
1 AATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AA
** * *
2669044 AATGCCAATATGCTGATTCAAGGCCAATGATATCGGACTTAAAGATGAA
1 AATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAA
* * * * * *
2669093 GATGCCAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTAATGATGAC
1 AATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAA
** * * * * * *
2669142 GGTGCCAATATGGTGATTCAAGGCTAGTGATATCGAACTTAAAGATGAA
1 AATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAA
** * * *
2669191 GGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGGC-T-----TG--
1 AATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAA
* * *
2669232 --TGCTAATATGCTGATTCAAGGCCAGTGACATTGGTCTTAAAG--GCAA
1 AATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG-AA
** * * * *
2669278 GGTGCCAATATGCCGATTCAAAGCCAGCGATATTGGGC-T-----T---
1 AATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAA
** * * * **
2669318 -ATGCTTATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAAAGATGCT
1 AATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAA
** * * ** *
2669366 GGTGCCAATATGCTGATTCAAGGCTAGCGATACCGAACTTAAAGATGAA
1 AATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAA
* * * * *
2669415 GATGCCAATGTGTTGATTCAAGGTCGGCGACATTGGACTTAAA-A-G--
1 AATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAA
2669460 --TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAG--G--
1 AATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAA
2669503 --TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAA
1 AATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAA
* * * *
2669550 GATGCCAATGTGCTGATTCAAGCCCAGTGACATTGGACTTAAAG--G--
1 AATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAA
* * *
2669595 --TGCCCACATGCTGATTCAAGGCCAACGACATTGGACTTAAAG--G--
1 AATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAA
*
2669638 --TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 AATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT
2669676 CGAAAAAGAT
Statistics
Matches: 538, Mismatches: 113, Indels: 70
0.75 0.16 0.10
Matches are distributed among these distances:
39 59 0.11
40 2 0.00
43 154 0.29
45 2 0.00
47 36 0.07
48 32 0.06
49 217 0.40
52 36 0.07
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (49 bp):
AATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAA
Found at i:2669251 original size:39 final size:39
Alignment explanation
Indices: 2669192--2669352 Score: 124
Period size: 39 Copynumber: 3.9 Consensus size: 39
2669182 AAAGATGAAG
*
2669192 GTGCCAATATGCTGATTCAAGGCCAGCAATATTGGGCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCAACATTGGGCTT
* ** *
2669231 GTGCTAATATGCTGATTCAAGGCCAGTGACATTGGTCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCAACATTGGGCTT
* * * *
2669270 AAAGGCAAGGTGCCAATATGCCGATTCAAAGCCAGCGATATTGGGCTT
1 ---------GTGCCAATATGCTGATTCAAGGCCAGCAACATTGGGCTT
* ** *
2669318 ATGCTTATGTGCTGATTCAAGGCCAGCAACATTGG
1 GTGCCAATATGCTGATTCAAGGCCAGCAACATTGG
2669353 TCTTAAAGAT
Statistics
Matches: 94, Mismatches: 19, Indels: 18
0.72 0.15 0.14
Matches are distributed among these distances:
39 61 0.65
48 33 0.35
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (39 bp):
GTGCCAATATGCTGATTCAAGGCCAGCAACATTGGGCTT
Found at i:2669478 original size:43 final size:43
Alignment explanation
Indices: 2669046--2669675 Score: 430
Period size: 49 Copynumber: 13.9 Consensus size: 43
2669036 ATGTTAAAAA
** * *
2669046 TGCCAATATGCTGATTCAAGGCCAATGATATCGGACTTAAAGATGAAG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT-AA-A-G--G
* * *
2669094 ATGCCAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTAATGATGACGG
1 -TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT-A--A--A-GG
* * * * * *
2669144 TGCCAATATGGTGATTCAAGGCTAGTGATATCGAACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT----A--AAGG
* * *
2669193 TGCCAATATGCTGATTCAAGGCCAGCAATATTGGGCTT----G
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGG
* * *
2669232 TGCTAATATGCTGATTCAAGGCCAGTGACATTGGTCTTAAAGGCAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT--A---AAGG
* * * *
2669280 TGCCAATATGCCGATTCAAAGCCAGCGATATTGGGCTT--A--
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGG
** * * *
2669319 TGCTTATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAAAGATGCTGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT-AA-A----GG
* * ** *
2669368 TGCCAATATGCTGATTCAAGGCTAGCGATACCGAACTTAAAGATGAAG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT-AA-A-G--G
* * * * *
2669416 ATGCCAATGTGTTGATTCAAGGTCGGCGACATTGGACTTAAAAG
1 -TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGG
2669460 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGG
2669503 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT-AA-A-G--G
* * *
2669551 ATGCCAATGTGCTGATTCAAGCCCAGTGACATTGGACTTAAAGG
1 -TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGG
* * *
2669595 TGCCCACATGCTGATTCAAGGCCAACGACATTGGACTTAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGG
*
2669638 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT
2669676 CGAAAAAGAT
Statistics
Matches: 466, Mismatches: 81, Indels: 74
0.75 0.13 0.12
Matches are distributed among these distances:
39 64 0.14
41 1 0.00
43 148 0.32
44 4 0.01
45 1 0.00
46 4 0.01
47 2 0.00
48 39 0.08
49 193 0.41
50 2 0.00
51 1 0.00
52 7 0.02
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (43 bp):
TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGG
Found at i:2669487 original size:92 final size:86
Alignment explanation
Indices: 2669046--2669675 Score: 430
Period size: 92 Copynumber: 6.9 Consensus size: 86
2669036 ATGTTAAAAA
** * * * *
2669046 TGCCAATATGCTGATTCAAGGCCAATGATATCGGACTTAAAGATGAAGATGCCAATGTGTTGATT
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT--A-A--AAG-TGCCAATATGCTGATT
*
2669111 CAAGGCCAGCGACATTGGTCTTAATGATGACGG
60 CAAGGCCAGCGACATTGGACTT-A--A--A-GG
* * * * * *
2669144 TGCCAATATGGTGATTCAAGGCTAGTGATATCGAACTTAAAGATGAAGGTGCCAATATGCTGATT
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT--A-A--AA-GTGCCAATATGCTGATT
* * *
2669209 CAAGGCCAGCAATATTGGGCTT----G
60 CAAGGCCAGCGACATTGGACTTAAAGG
* * * *
2669232 TGCTAATATGCTGATTCAAGGCCAGTGACATTGGTCTTAAAGGCAAGGTGCCAATATGCCGATTC
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT-AA---AA-GTGCCAATATGCTGATTC
* * *
2669297 AAAGCCAGCGATATTGGGCTT--A--
61 AAGGCCAGCGACATTGGACTTAAAGG
** * * *
2669319 TGCTTATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAAAGATGCTGGTGCCAATATGCTGATT
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAA-A-----GTGCCAATATGCTGATT
* * ** *
2669384 CAAGGCTAGCGATACCGAACTTAAAGATGAAG
60 CAAGGCCAGCGACATTGGACTT-AA-A-G--G
* * * *
2669416 ATGCCAATGTGTTGATTCAAGGTCGGCGACATTGGACTTAAAAGTGCCAATATGCTGATTCAAGG
1 -TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAAGTGCCAATATGCTGATTCAAGG
2669481 CCAGCGACATTGGACTTAAAGG
65 CCAGCGACATTGGACTTAAAGG
*
2669503 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGCCAATGTGCTGATT
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT--A-A--AAG-TGCCAATATGCTGATT
* *
2669568 CAAGCCCAGTGACATTGGACTTAAAGG
60 CAAGGCCAGCGACATTGGACTTAAAGG
* * * *
2669595 TGCCCACATGCTGATTCAAGGCCAACGACATTGGACTTAAAGGTGCCAATATGCTGATTCAAGGC
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAAGTGCCAATATGCTGATTCAAGGC
*
2669660 CAGCGATATTGGACTT
66 CAGCGACATTGGACTT
2669676 CGAAAAAGAT
Statistics
Matches: 449, Mismatches: 59, Indels: 60
0.79 0.10 0.11
Matches are distributed among these distances:
83 1 0.00
84 1 0.00
86 71 0.16
87 78 0.17
88 66 0.15
89 3 0.01
90 2 0.00
91 5 0.01
92 110 0.24
97 1 0.00
98 110 0.24
99 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (86 bp):
TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAAGTGCCAATATGCTGATTCAAGGC
CAGCGACATTGGACTTAAAGG
Found at i:2669502 original size:22 final size:22
Alignment explanation
Indices: 2669477--2669544 Score: 54
Period size: 22 Copynumber: 3.1 Consensus size: 22
2669467 ATGCTGATTC
2669477 AAGGCCAGCGACATTGGACTTA
1 AAGGCCAGCGACATTGGACTTA
* * *
2669499 AAGG--TGCCA-ATATGCTGA-TTC
1 AAGGCCAGCGACAT-TG--GACTTA
2669520 AAGGCCAGCGACATTGGACTTA
1 AAGGCCAGCGACATTGGACTTA
2669542 AAG
1 AAG
2669545 ATGAAGATGC
Statistics
Matches: 33, Mismatches: 6, Indels: 14
0.62 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 8 0.24
22 11 0.33
23 5 0.15
24 2 0.06
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.21
Consensus pattern (22 bp):
AAGGCCAGCGACATTGGACTTA
Found at i:2669541 original size:135 final size:135
Alignment explanation
Indices: 2669039--2669675 Score: 583
Period size: 135 Copynumber: 4.7 Consensus size: 135
2669029 CTTAGGGATG
* ** * * *
2669039 TTAAAAATGCCAATATGCTGATTCAAGGCCAATGATATCGGACTTAAAGATGAAGATGCCAATGT
1 TTAAAAGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT-AA-A-G--G-TGCCAATAT
* * * * * * *
2669104 GTTGATTCAAGGCCAGCGACATTGGTCTTAATGATGACGGTGCCAATATGGTGATTCAAGGCTAG
60 GCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAG
* * * *
2669169 TGATATCGAAC
125 CGACATTGGAC
* * * *
2669180 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGGCTT----GTGCTAATAT
1 TT--A-A--AA-GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGGTGCCAATAT
* * * * *
2669241 GCTGATTCAAGGCCAGTGACATTGGTCTTAAAG--GCAAGGTGCCAATATGCCGATTCAAAGCCA
60 GCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG-AAGATGCCAATATGCTGATTCAAGGCCA
* *
2669304 GCGATATTGGGC
124 GCGACATTGGAC
** * * *
2669316 TT---A-TGCTTATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAAAGATGCTGGTGCCAATAT
1 TTAAAAGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT-AA-A----GGTGCCAATAT
* * ** * * * * *
2669377 GCTGATTCAAGGCTAGCGATACCGAACTTAAAGATGAAGATGCCAATGTGTTGATTCAAGGTCGG
60 GCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAG
2669442 CGACATTGGAC
125 CGACATTGGAC
2669453 TTAAAAGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGGTGCCAATATGCTGAT
1 TTAAAAGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGGTGCCAATATGCTGAT
* * *
2669518 TCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGCCCAGTGACAT
66 TCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGACAT
2669583 TGGAC
131 TGGAC
* * * *
2669588 TTAAAGGTGCCCACATGCTGATTCAAGGCCAACGACATTGGACTTAAAGGTGCCAATATGCTGAT
1 TTAAAAGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGGTGCCAATATGCTGAT
*
2669653 TCAAGGCCAGCGATATTGGACTT
66 TCAAGGCCAGCGACATTGGACTT
2669676 CGAAAAAGAT
Statistics
Matches: 411, Mismatches: 62, Indels: 52
0.78 0.12 0.10
Matches are distributed among these distances:
126 33 0.08
128 1 0.00
135 161 0.39
136 68 0.17
137 70 0.17
138 2 0.00
139 1 0.00
140 3 0.01
141 35 0.09
143 1 0.00
144 1 0.00
146 2 0.00
147 33 0.08
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (135 bp):
TTAAAAGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGGTGCCAATATGCTGAT
TCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGACAT
TGGAC
Found at i:2669757 original size:29 final size:29
Alignment explanation
Indices: 2669698--2670397 Score: 628
Period size: 29 Copynumber: 24.3 Consensus size: 29
2669688 CACCAACTTG
* *
2669698 TGTGGGCTTTTG--AAGGTTGCCACTGATT
1 TGTGGGC-TTTGAAAAGGGTGCCACTGACT
* * * *
2669726 TGTGGGCTTTTAAAAAGATGCCACTAACT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACT
* *
2669755 TGTGGGCTTTGAAAAGGGTACCACTAACT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACT
* *
2669784 TGTGGGCTTTGAAAGGGGTGCCACCGACT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACT
* *
2669813 TGTGGGCTTTGAAAGGGGTGCCACAGACT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACT
* * *
2669842 TGTGGGCTTTGGAAAA-GATGCCATTGAGT
1 TGTGGGCTTT-GAAAAGGGTGCCACTGACT
* *
2669871 TGTGGGCTTTGAAAGGGGTGCCACCGACT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACT
* *
2669900 TGTGGGCTTTGAAAGGGGTGCCACCGACT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACT
*
2669929 TGTGGGCTTTTG--AAGGTTGCCACTGACT
1 TGTGGGC-TTTGAAAAGGGTGCCACTGACT
**
2669957 TGTGGGCTTTTG--AAGTTTGCCACTGACT
1 TGTGGGC-TTTGAAAAGGGTGCCACTGACT
* *
2669985 TGTGGGCTTTGGAAAA-GATGCCACTAACT
1 TGTGGGCTTT-GAAAAGGGTGCCACTGACT
* *
2670014 TGTGGGCTTT-AAAAGGGGTGTCACCGACT
1 TGTGGGCTTTGAAAA-GGGTGCCACTGACT
* *
2670043 TGTGGGCTTTGGAAAA-GATGCCACTGAGT
1 TGTGGGCTTT-GAAAAGGGTGCCACTGACT
* *
2670072 TGTGGGCTTTGAAAGGGGTGCCACCGACT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACT
*
2670101 TGTGGGCTTCTG--AAGGTTGCCACTGACT
1 TGTGGGCTT-TGAAAAGGGTGCCACTGACT
* *
2670129 TGTGGGCTTTGGAAAA-GATGCCACTGAGT
1 TGTGGGCTTT-GAAAAGGGTGCCACTGACT
* * *
2670158 TGTGAGCTTTGAAAGGGGTGCCACCGACT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACT
* *
2670187 TGTGGGCTTTTG--AAGGTTGCCACGGACT
1 TGTGGGC-TTTGAAAAGGGTGCCACTGACT
* *
2670215 TGTGGGCTTTTG--AAGGTTGCCATTGACT
1 TGTGGGC-TTTGAAAAGGGTGCCACTGACT
* *
2670243 TGTGGGCTTTGGAAAA-GATGCCACTGAGT
1 TGTGGGCTTT-GAAAAGGGTGCCACTGACT
* * *
2670272 TGTGGGCTTTGAAAGGGGTGCCACCGAAT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACT
** * *
2670301 TGTGACCTTTGAAAGGGGTGCCACCGACT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACT
* * *
2670330 TGTGGGCTTTAGAAAA-GATGCCACTAAGT
1 TGTGGGCTTT-GAAAAGGGTGCCACTGACT
* * ** *
2670359 TATGGGCTTTGAAAGGGGTGTGATTGACT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACT
*
2670388 TATGGGCTTT
1 TGTGGGCTTT
2670398 TGAAGGGTGA
Statistics
Matches: 563, Mismatches: 84, Indels: 49
0.81 0.12 0.07
Matches are distributed among these distances:
27 14 0.02
28 145 0.26
29 376 0.67
30 24 0.04
31 4 0.01
ACGTcount: A:0.20, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGTGGGCTTTGAAAAGGGTGCCACTGACT
Found at i:2670224 original size:258 final size:259
Alignment explanation
Indices: 2669698--2670344 Score: 944
Period size: 258 Copynumber: 2.5 Consensus size: 259
2669688 CACCAACTTG
* **
2669698 TGTGGGCTTTTGAAGGTTGCCACTGATTTGTGGGCTTTTAAAAAGATGCCACTAACTTGTGGGCT
1 TGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTAACTTGTGGGCT
* **
2669763 TTGAAAA-GGGTACCACTAACTTGTGGGCTTTGAAAGGGGTGCCACCGACTTGTGGGCTTTGAAA
66 TT-AAAAGGGGTGCCACCGACTTGTGGGCTTTGAAAGGGGTGCCACCGACTTGTGGGCTTTGAAA
* * * *
2669827 GGGGTGCCACAGACTTGTGGGCTTTGGAAAAGATGCCATTGAGTTGTGGGCTTTGAAAGGGGTGC
130 GGGGTGCCACAGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTGAAAGAGATGC
* *
2669892 CACCGACTTGTGGGCTTTGAAAGGGGTGCCACCGACTTGTGGGCTTTTGAAGGTTGCCACTGACT
195 CACCGACTTGTGAGCTTTGAAAGGGGTGCCACCGACTTGTGGGCTTTTGAAGGTTGCCACGGACT
*
2669957 TGTGGGCTTTTGAAGTTTGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTAACTTGTGGGCT
1 TGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTAACTTGTGGGCT
* * * * *
2670022 TTAAAAGGGGTGTCACCGACTTGTGGGCTTTGGAAA-AGATGCCACTGAGTTGTGGGCTTTGAAA
66 TTAAAAGGGGTGCCACCGACTTGTGGGCTTT-GAAAGGGGTGCCACCGACTTGTGGGCTTTGAAA
* * *
2670086 GGGGTGCCACCGACTTGTGGGCTTCT-G-AAGGTTGCCACTGACTTGTGGGCTTTGGAAA-AGAT
130 GGGGTGCCACAGACTTGTGGGCTT-TGGAAAAGATGCCACTGACTTGTGGGCTTT-GAAAGAGAT
* *
2670148 GCCACTGAGTTGTGAGCTTTGAAAGGGGTGCCACCGACTTGTGGGCTTTTGAAGGTTGCCACGGA
193 GCCACCGACTTGTGAGCTTTGAAAGGGGTGCCACCGACTTGTGGGCTTTTGAAGGTTGCCACGGA
2670213 CT
258 CT
* * *
2670215 TGTGGGCTTTTGAAGGTTGCCATTGACTTGTGGGCTTTGGAAAAGATGCCACTGAGTTGTGGGCT
1 TGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTAACTTGTGGGCT
* * **
2670280 TTGAAAGGGGTGCCACCGAATTGTGACCTTTGAAAGGGGTGCCACCGACTTGTGGGCTTTAGAAA
66 TTAAAAGGGGTGCCACCGACTTGTGGGCTTTGAAAGGGGTGCCACCGACTTGTGGGCTTT-GAAA
2670345 AGATGCCACT
Statistics
Matches: 346, Mismatches: 36, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
257 4 0.01
258 198 0.57
259 139 0.40
260 5 0.01
ACGTcount: A:0.20, C:0.17, G:0.33, T:0.29
Consensus pattern (259 bp):
TGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTAACTTGTGGGCT
TTAAAAGGGGTGCCACCGACTTGTGGGCTTTGAAAGGGGTGCCACCGACTTGTGGGCTTTGAAAG
GGGTGCCACAGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTGAAAGAGATGCC
ACCGACTTGTGAGCTTTGAAAGGGGTGCCACCGACTTGTGGGCTTTTGAAGGTTGCCACGGACT
Found at i:2670403 original size:201 final size:203
Alignment explanation
Indices: 2669698--2670401 Score: 883
Period size: 201 Copynumber: 3.5 Consensus size: 203
2669688 CACCAACTTG
* * *
2669698 TGTGGGCTTTTG-AA-GGTTGCCACTGATTTGTGGGCTTTTA-AAAAGATGCCACTAACTTGTGG
1 TGTGGGC-TTTGAAAGGGGTGCCACCGACTTGTGGGC-TTTAGAAAAGATGCCACTAACTTGTGG
* * * *
2669760 GCTTTGAAAAGGGTACCACTAACTTGTGGGC-TTTGAAAGGGGTGCCACCGACTTGTGGGC-TTT
64 GCTTTGAAAGGGGTGCCACTGACTTGTGGGCTTTTGAAA-GGATGCCACCGACTTGTGGGCTTTT
*
2669823 GAAAGGGGTGCCACAGACTTGTGGGCTTTGGAAAAGATGCCATTGAGTTGTGGGCTTTGAAAGGG
128 G-AAGGGGTGCCACAGACTTGTGGGCTTTGGAAAAGATGCCACTGAGTTGTGGGCTTTGAAAGGG
2669888 GTGCCACCGACT
192 GTGCCACCGACT
* * * *
2669900 TGTGGGCTTTGAAAGGGGTGCCACCGACTTGTGGGCTTTTG-AAGGTTGCCACTGACTTGTGGGC
1 TGTGGGCTTTGAAAGGGGTGCCACCGACTTGTGGGCTTTAGAAAAGATGCCACTAACTTGTGGGC
** * * ** **
2669964 TTTTG-AA-GTTTGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTAACTTGTGGGCTTTAAA
66 -TTTGAAAGGGGTGCCACTGACTTGTGGGCTTTTGAAAGGATGCCACCGACTTGTGGGCTTTTGA
* *
2670027 AGGGGTGTCACCGACTTGTGGGCTTTGGAAAAGATGCCACTGAGTTGTGGGCTTTGAAAGGGGTG
130 AGGGGTGCCACAGACTTGTGGGCTTTGGAAAAGATGCCACTGAGTTGTGGGCTTTGAAAGGGGTG
2670092 CCACCGACT
195 CCACCGACT
* * * * * *
2670101 TGTGGGCTTCTG-AA-GGTTGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGAGTTGTGAG
1 TGTGGGCTT-TGAAAGGGGTGCCACCGACTTGTGGGCTTTAGAAAAGATGCCACTAACTTGTGGG
* * *
2670164 CTTTGAAAGGGGTGCCACCGACTTGTGGGCTTTTG-AAGGTTGCCACGGACTTGTGGGCTTTTGA
65 CTTTGAAAGGGGTGCCACTGACTTGTGGGCTTTTGAAAGGATGCCACCGACTTGTGGGCTTTTGA
* **
2670228 A-GGTTGCCATTGACTTGTGGGCTTTGGAAAAGATGCCACTGAGTTGTGGGCTTTGAAAGGGGTG
130 AGGGGTGCCACAGACTTGTGGGCTTTGGAAAAGATGCCACTGAGTTGTGGGCTTTGAAAGGGGTG
*
2670292 CCACCGAAT
195 CCACCGACT
** * *
2670301 TGTGACCTTTGAAAGGGGTGCCACCGACTTGTGGGCTTTAGAAAAGATGCCACTAAGTTATGGGC
1 TGTGGGCTTTGAAAGGGGTGCCACCGACTTGTGGGCTTTAGAAAAGATGCCACTAACTTGTGGGC
** * *
2670366 TTTGAAAGGGGTGTGATTGACTTATGGGCTTTTGAA
66 TTTGAAAGGGGTGCCACTGACTTGTGGGCTTTTGAA
2670402 GGGTGAGGAA
Statistics
Matches: 433, Mismatches: 56, Indels: 26
0.84 0.11 0.05
Matches are distributed among these distances:
199 2 0.00
200 103 0.24
201 239 0.55
202 67 0.15
203 22 0.05
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (203 bp):
TGTGGGCTTTGAAAGGGGTGCCACCGACTTGTGGGCTTTAGAAAAGATGCCACTAACTTGTGGGC
TTTGAAAGGGGTGCCACTGACTTGTGGGCTTTTGAAAGGATGCCACCGACTTGTGGGCTTTTGAA
GGGGTGCCACAGACTTGTGGGCTTTGGAAAAGATGCCACTGAGTTGTGGGCTTTGAAAGGGGTGC
CACCGACT
Found at i:2671840 original size:21 final size:23
Alignment explanation
Indices: 2671814--2671865 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
2671804 CATCCGGACC
2671814 CTTTTTGTTG-TTGTTTT-TTTT
1 CTTTTTGTTGTTTGTTTTGTTTT
2671835 CTTTTT-TTGTTTTGTTTTGTTTT
1 CTTTTTGTTG-TTTGTTTTGTTTT
*
2671858 TTTTTTGT
1 CTTTTTGT
2671866 CTCTCTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 3 0.12
21 6 0.23
22 7 0.27
23 9 0.35
24 1 0.04
ACGTcount: A:0.00, C:0.04, G:0.13, T:0.83
Consensus pattern (23 bp):
CTTTTTGTTGTTTGTTTTGTTTT
Found at i:2671846 original size:17 final size:18
Alignment explanation
Indices: 2671824--2671877 Score: 60
Period size: 17 Copynumber: 3.1 Consensus size: 18
2671814 CTTTTTGTTG
2671824 TTGTTTT-TTTTCTTTTT
1 TTGTTTTGTTTTCTTTTT
*
2671841 TTGTTTTGTTTT-GTTTT
1 TTGTTTTGTTTTCTTTTT
*
2671858 TT-TTTTGTCTCTCTTTTT
1 TTGTTTTGT-TTTCTTTTT
2671876 TT
1 TT
2671878 TAAATTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 6 0.19
17 15 0.48
18 10 0.32
ACGTcount: A:0.00, C:0.07, G:0.09, T:0.83
Consensus pattern (18 bp):
TTGTTTTGTTTTCTTTTT
Found at i:2671849 original size:22 final size:22
Alignment explanation
Indices: 2671815--2671865 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 22
2671805 ATCCGGACCC
*
2671815 TTTTTGTTGTTGTTTTTTTTCTT
1 TTTTTGTTGTTGTTTTGTTT-TT
2671838 TTTTTGTT-TTGTTTTGTTTTT
1 TTTTTGTTGTTGTTTTGTTTTT
2671859 TTTTTGT
1 TTTTTGT
2671866 CTCTCTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 9 0.33
22 10 0.37
23 8 0.30
ACGTcount: A:0.00, C:0.02, G:0.14, T:0.84
Consensus pattern (22 bp):
TTTTTGTTGTTGTTTTGTTTTT
Found at i:2685934 original size:21 final size:20
Alignment explanation
Indices: 2685908--2685946 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
2685898 GTTGGGACCT
2685908 TGTATCGATACATTCTAGAAA
1 TGTATCGATACATT-TAGAAA
2685929 TGTATCGATACATTTAGA
1 TGTATCGATACATTTAGA
2685947 CAAAAATGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATTTAGAAA
Found at i:2686158 original size:16 final size:15
Alignment explanation
Indices: 2686137--2686166 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
2686127 CAACAACAAC
2686137 AACAAAAAAGAAAAAA
1 AACAAAAAA-AAAAAA
2686153 AACAAAAAAAAAAA
1 AACAAAAAAAAAAA
2686167 GAAAAAAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.90, C:0.07, G:0.03, T:0.00
Consensus pattern (15 bp):
AACAAAAAAAAAAAA
Found at i:2686162 original size:19 final size:19
Alignment explanation
Indices: 2686134--2686173 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
2686124 CTACAACAAC
*
2686134 AACAACAAAAAAGAA-AAAA
1 AACAA-AAAAAAAAAGAAAA
2686153 AACAAAAAAAAAAAGAAAA
1 AACAAAAAAAAAAAGAAAA
2686172 AA
1 AA
2686174 GAGAACAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.88, C:0.07, G:0.05, T:0.00
Consensus pattern (19 bp):
AACAAAAAAAAAAAGAAAA
Found at i:2686166 original size:21 final size:22
Alignment explanation
Indices: 2686131--2686182 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
2686121 TGTCTACAAC
*
2686131 AACAACAACAAAAAAGAAAAAA
1 AACAACAAAAAAAAAGAAAAAA
2686153 AACAA-AAAAAAAAAGAAAAAA
1 AACAACAAAAAAAAAGAAAAAA
* *
2686174 GAGAACAAA
1 AACAACAAA
2686183 CTTATGTTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 18 0.69
22 8 0.31
ACGTcount: A:0.83, C:0.10, G:0.08, T:0.00
Consensus pattern (22 bp):
AACAACAAAAAAAAAGAAAAAA
Found at i:2687351 original size:72 final size:72
Alignment explanation
Indices: 2687251--2687797 Score: 576
Period size: 72 Copynumber: 7.6 Consensus size: 72
2687241 TTTCTCTTTC
* * * *
2687251 AAAGCCCATACAAGCTGGTGGCACCCTTTTTATCCTTTTAGTCCTTAAAGAGCAGGACACTTTCC
1 AAAGCCCACACAAGTTGGTGGCACCCTTTTTATCCTTTTAGTCCTCAAAGAGCAGGACGCTTTCC
2687316 TTTTTTA
66 TTTTTTA
*
2687323 AAAGCCCACACAAGTTGGTGGCACCCTTTTTATCCTTTTAGTCCTCAAAGAGTAGGACGCTTTCC
1 AAAGCCCACACAAGTTGGTGGCACCCTTTTTATCCTTTTAGTCCTCAAAGAGCAGGACGCTTTCC
2687388 TTTTTTA
66 TTTTTTA
* * * * * *
2687395 AAAGCCCACACAAGTAGGTGGTACCCCTTTTATCCTTTCAATCCTCAAAGAGCAAGACGTCTTT-
1 AAAGCCCACACAAGTTGGTGGCACCCTTTTTATCCTTTTAGTCCTCAAAGAGCAGGACG-CTTTC
*
2687459 TTCTTTTTA
65 CT-TTTTTA
* * *
2687468 AAAGCCCACACAAGTTGGTAGCACCAC-TTTTATCCTTTTAGTCCTCAAAGAGAAGGATGCTTTC
1 AAAGCCCACACAAGTTGGTGGCACC-CTTTTTATCCTTTTAGTCCTCAAAGAGCAGGACGCTTTC
2687532 CTTTTTTA
65 CTTTTTTA
* * * * * * *
2687540 AAAGCTCACACAAGTTGGTGGCATCCC-TTTTATCTTTTTAATCTTTAAAGAGCAAGAC-ATTT-
1 AAAGCCCACACAAGTTGGTGGCA-CCCTTTTTATCCTTTTAGTCCTCAAAGAGCAGGACGCTTTC
2687602 -TTTTTTA
65 CTTTTTTA
* * * * * *
2687609 AAAGCTCACACAAGTTGGTAGCACCCTTTTTATCCTTTTAATCCTAAAAGAGCATGACGTTTTCC
1 AAAGCCCACACAAGTTGGTGGCACCCTTTTTATCCTTTTAGTCCTCAAAGAGCAGGACGCTTTCC
*
2687674 TTTTTAAAA
66 TTTTT--TA
* * * * * * *
2687683 AAAGCCCACATAAGCTAGTGACACCCCTTTTATCCTTTTTAGTCCTCAAGGAGCAGGATG-TTT-
1 AAAGCCCACACAAGTTGGTGGCACCCTTTTTATCC-TTTTAGTCCTCAAAGAGCAGGACGCTTTC
* *
2687746 TTTTCTTTT
65 CTTT-TTTA
* *
2687755 AAAGCCCACACAAGCTGGT-G-ACACTTTTTATCTCTTTT-GTCCT
1 AAAGCCCACACAAGTTGGTGGCACCCTTTTTATC-CTTTTAGTCCT
2687798 TGATCATTAC
Statistics
Matches: 402, Mismatches: 59, Indels: 31
0.82 0.12 0.06
Matches are distributed among these distances:
68 3 0.01
69 61 0.15
70 17 0.04
71 4 0.01
72 198 0.49
73 65 0.16
74 35 0.09
75 19 0.05
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (72 bp):
AAAGCCCACACAAGTTGGTGGCACCCTTTTTATCCTTTTAGTCCTCAAAGAGCAGGACGCTTTCC
TTTTTTA
Found at i:2687423 original size:145 final size:144
Alignment explanation
Indices: 2687251--2687797 Score: 621
Period size: 145 Copynumber: 3.8 Consensus size: 144
2687241 TTTCTCTTTC
* * * * *
2687251 AAAGCCCATACAAGCT-GGTGGCACCCTTTTTATCCTTTTAGTCCTTAAAGAGCAGGACACTTTC
1 AAAGCCCACACAAGCTAGGTGGCACCCCTTTTATCCTTTTAATCCTCAAAGAGCAAGACACTTT-
* * *
2687315 CTTTTTTAAAAGCCCACACAAGTTGGTGGCACCCTTTTTATCCTTTTAGTCCTCAAAGAGTAGGA
65 TTTTTTTAAAAGCCCACACAAGTTGGTAGCACCCTTTTTATCCTTTTAGTCCTCAAAGAGAAGGA
2687380 CGCTTTCCTTTTTTA
130 CGCTTTCCTTTTTTA
* * *
2687395 AAAGCCCACACAAG-TAGGTGGTACCCCTTTTATCCTTTCAATCCTCAAAGAGCAAGACGTCTTT
1 AAAGCCCACACAAGCTAGGTGGCACCCCTTTTATCCTTTTAATCCTCAAAGAGCAAGAC-ACTTT
2687459 TTCTTTTTAAAAGCCCACACAAGTTGGTAGCACCAC-TTTTATCCTTTTAGTCCTCAAAGAGAAG
65 TT-TTTTTAAAAGCCCACACAAGTTGGTAGCACC-CTTTTTATCCTTTTAGTCCTCAAAGAGAAG
*
2687523 GATGCTTTCCTTTTTTA
128 GACGCTTTCCTTTTTTA
* * * * * *
2687540 AAAGCTCACACAAG-TTGGTGGCATCCCTTTTATCTTTTTAATCTTTAAAGAGCAAGACA--TTT
1 AAAGCCCACACAAGCTAGGTGGCACCCCTTTTATCCTTTTAATCCTCAAAGAGCAAGACACTTTT
* * * * *
2687602 TTTTTTAAAAGCTCACACAAGTTGGTAGCACCCTTTTTATCCTTTTAATCCTAAAAGAGCATGAC
66 TTTTTTAAAAGCCCACACAAGTTGGTAGCACCCTTTTTATCCTTTTAGTCCTCAAAGAGAAGGAC
* *
2687667 GTTTTCCTTTTTAAAA
131 GCTTTCCTTTTT--TA
* * * * * **
2687683 AAAGCCCACATAAGCTA-GTGACACCCCTTTTATCCTTTTTAGTCCTCAAGGAGCAGGA-TGTTT
1 AAAGCCCACACAAGCTAGGTGGCACCCCTTTTATCC-TTTTAATCCTCAAAGAGCAAGACACTTT
* * *
2687746 TTTTCTTTTAAAGCCCACACAAGCTGGT-G-ACACTTTTTATCTCTTTT-GTCCT
65 TTTT-TTTAAAAGCCCACACAAGTTGGTAGCACCCTTTTTATC-CTTTTAGTCCT
2687798 TGATCATTAC
Statistics
Matches: 344, Mismatches: 46, Indels: 26
0.83 0.11 0.06
Matches are distributed among these distances:
140 1 0.00
141 67 0.19
142 4 0.01
143 29 0.08
144 83 0.24
145 139 0.40
146 21 0.06
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (144 bp):
AAAGCCCACACAAGCTAGGTGGCACCCCTTTTATCCTTTTAATCCTCAAAGAGCAAGACACTTTT
TTTTTTAAAAGCCCACACAAGTTGGTAGCACCCTTTTTATCCTTTTAGTCCTCAAAGAGAAGGAC
GCTTTCCTTTTTTA
Found at i:2687533 original size:217 final size:210
Alignment explanation
Indices: 2687238--2687797 Score: 628
Period size: 217 Copynumber: 2.6 Consensus size: 210
2687228 AACACTTTTT
* * * *
2687238 GTTTTTCTCTTTCAAAGCCCATACAAGCTGGTGGCACCCTTTTTATCCTTTTAGTCCTTAAAGAG
1 GTTTTTCTTTTTAAAAGCCCACACAAGCTGGT-GCACCC-TTTTATCCTTTTAGTCCTCAAAGAG
**
2687303 CAGGACACTTTCCTTTTTTAAAAGCCCACACAAGTTGGTGGCACCCTTTTTATCCTTTTAGTCCT
64 CAGGATGCTTTCCTTTTTTAAAAGCCCACACAAGTTGGTGGCACCCTTTTTATCCTTTTAGTCCT
* * * * *
2687368 CAAAGAGTAGGACGCTTTCCTTTTTTAAAAGCCCACACAAGTAGGTGGTACCCCTTTTATCCTTT
129 CAAAGAGCAAGAC-ATTT--TTTTTTAAAAGCCCACACAAGTAGGTAGCACCCCTTTTATCCTTT
*
2687433 CAATCCTCAAAGAGCAAGAC
191 CAATCCTAAAAGAGCAAGAC
*
2687453 GTCTTTTTCTTTTTAAAAGCCCACACAAGTTGGTAGCACCACTTTTATCCTTTTAGTCCTCAAAG
1 G--TTTTTCTTTTTAAAAGCCCACACAAGCTGGT-GCACC-CTTTTATCCTTTTAGTCCTCAAAG
* * * *
2687518 AGAAGGATGCTTTCCTTTTTTAAAAGCTCACACAAGTTGGTGGCATCCC-TTTTATCTTTTTAAT
62 AGCAGGATGCTTTCCTTTTTTAAAAGCCCACACAAGTTGGTGGCA-CCCTTTTTATCCTTTTAGT
* * * * *
2687582 CTTTAAAGAGCAAGACATTTTTTTTTAAAAGCTCACACAAGTTGGTAGCACCCTTTTTATCCTTT
126 CCTCAAAGAGCAAGACATTTTTTTTTAAAAGCCCACACAAGTAGGTAGCACCCCTTTTATCCTTT
* *
2687647 TAATCCTAAAAGAGCATGAC
191 CAATCCTAAAAGAGCAAGAC
* * *
2687667 GTTTTCCTTTTTAAAAAAAGCCCACATAAGCTAGTGACACCCCTTTTATCCTTTTTAGTCCTCAA
1 GTTTTTCTTTTT---AAAAGCCCACACAAGCTGGTG-CA-CCCTTTTATCC-TTTTAGTCCTCAA
* * * * *
2687732 GGAGCAGGATG-TTT-TTTTCTTTTAAAGCCCACACAAGCTGGT-G-ACACTTTTTATCTCTTTT
60 AGAGCAGGATGCTTTCCTTT-TTTAAAAGCCCACACAAGTTGGTGGCACCCTTTTTATC-CTTTT
2687793 -GTCCT
123 AGTCCT
2687798 TGATCATTAC
Statistics
Matches: 293, Mismatches: 39, Indels: 28
0.81 0.11 0.08
Matches are distributed among these distances:
212 12 0.04
213 11 0.04
214 67 0.23
215 52 0.18
216 27 0.09
217 120 0.41
218 4 0.01
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (210 bp):
GTTTTTCTTTTTAAAAGCCCACACAAGCTGGTGCACCCTTTTATCCTTTTAGTCCTCAAAGAGCA
GGATGCTTTCCTTTTTTAAAAGCCCACACAAGTTGGTGGCACCCTTTTTATCCTTTTAGTCCTCA
AAGAGCAAGACATTTTTTTTTAAAAGCCCACACAAGTAGGTAGCACCCCTTTTATCCTTTCAATC
CTAAAAGAGCAAGAC
Found at i:2690017 original size:20 final size:20
Alignment explanation
Indices: 2689980--2690033 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
2689970 TTCTACAATT
*
2689980 TGTATTGATACAATAAGTGAA
1 TGTATTGATAC-ATAAGTAAA
*
2690001 TGTATCGATACATAAGTAAA
1 TGTATTGATACATAAGTAAA
2690021 TGTATTGATACAT
1 TGTATTGATACAT
2690034 GTCTGAAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 20 0.67
21 10 0.33
ACGTcount: A:0.41, C:0.07, G:0.17, T:0.35
Consensus pattern (20 bp):
TGTATTGATACATAAGTAAA
Found at i:2692312 original size:80 final size:79
Alignment explanation
Indices: 2692054--2692388 Score: 256
Period size: 80 Copynumber: 4.2 Consensus size: 79
2692044 TTTCAGCCCA
* * * **
2692054 TCAAACACCTAAATTTTCATCTCAGGGGATACTCCAA-CCTTATCA-TTTTGAGGCAATACTCCA
1 TCAAACACC-AAATTTTCATCTCAGGGGATATTCCAACCCCT-CCATTTTTGAGGGGATACTCCA
2692117 ACCCCA-TTTTATTTTC
64 ACCCCATTTTTA-TTTC
* ** * * * * *
2692133 TAAAACATTGAATTTCTTCATTTCTGGGGATACTT-CAACCCCACCATTTCTGAGGGGATACTCC
1 TCAAACA-CCAAATT-TTCATCTCAGGGGATA-TTCCAACCCCTCCATTTTTGAGGGGATACTCC
**
2692197 AACCCTGTTTTTATTTC
63 AACCCCATTTTTATTTC
* * *
2692214 TCAAACACTGAAATTTTCATCTCAGGGGGTATTCCAACCCCTCCATTTTTGAGGGGATACTCTAA
1 TCAAACAC-CAAATTTTCATCTCAGGGGATATTCCAACCCCTCCATTTTTGAGGGGATACTCCAA
2692279 CCCCATTTTTATTTC
65 CCCCATTTTTATTTC
* * * * * * *
2692294 CCAAACACCAAATCTTTCA-CTTCTA-AGAATACTCTAA-CCTTACCATTTTCGAGGGGATA-TC
1 TCAAACACCAAAT-TTTCATC-TC-AGGGGATATTCCAACCCCT-CCATTTTTGAGGGGATACTC
* *
2692355 CAACCTCATTTTTACTTC
62 CAACCCCATTTTTATTTC
2692373 -CAAAACACCAAATTTT
1 TC-AAACACCAAATTTT
2692389 AAATCTTTGG
Statistics
Matches: 205, Mismatches: 38, Indels: 27
0.76 0.14 0.10
Matches are distributed among these distances:
78 4 0.02
79 48 0.23
80 110 0.54
81 38 0.19
82 5 0.02
ACGTcount: A:0.28, C:0.27, G:0.10, T:0.34
Consensus pattern (79 bp):
TCAAACACCAAATTTTCATCTCAGGGGATATTCCAACCCCTCCATTTTTGAGGGGATACTCCAAC
CCCATTTTTATTTC
Found at i:2710004 original size:13 final size:13
Alignment explanation
Indices: 2709986--2710011 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2709976 TACAGCAAGT
2709986 ATGTATCGATACA
1 ATGTATCGATACA
2709999 ATGTATCGATACA
1 ATGTATCGATACA
2710012 CAAAAAAATT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2712218 original size:21 final size:21
Alignment explanation
Indices: 2712185--2712229 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2712175 TTGCAAGTTG
*
2712185 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
2712207 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
2712227 AAA
1 AAA
2712230 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:2714053 original size:15 final size:15
Alignment explanation
Indices: 2714033--2714063 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2714023 TAAAAATGTC
*
2714033 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
2714048 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
2714063 C
1 C
2714064 CAAACAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:2716151 original size:20 final size:20
Alignment explanation
Indices: 2716072--2716151 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
2716062 AATGTCCAAA
*
2716072 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* *
2716092 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
2716117 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
2716137 TTGTATCGATACATT
1 ATGTATCGATACATT
2716152 GTATCGATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 31 0.63
24 1 0.02
25 17 0.35
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:2716176 original size:13 final size:13
Alignment explanation
Indices: 2716138--2716176 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
2716128 CATTTTTCTT
*
2716138 TGTATCGATACAT
1 TGTATCGATACAG
2716151 TGTATCGATACAG
1 TGTATCGATACAG
2716164 TGTATCGATACAG
1 TGTATCGATACAG
2716177 GGTGATTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:2718735 original size:13 final size:13
Alignment explanation
Indices: 2718717--2718742 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2718707 TACAGCAAGT
2718717 ATGTATCGATACA
1 ATGTATCGATACA
2718730 ATGTATCGATACA
1 ATGTATCGATACA
2718743 CAAAAAAATT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2723129 original size:28 final size:28
Alignment explanation
Indices: 2723093--2723160 Score: 100
Period size: 28 Copynumber: 2.4 Consensus size: 28
2723083 TTTATGTCGT
*
2723093 ATCCCTAGTGGAGTCTAGACAACCTACA
1 ATCCCTAGTGGAGCCTAGACAACCTACA
* *
2723121 ATCCTTAGTGGAGCCTGGACAACCTACA
1 ATCCCTAGTGGAGCCTAGACAACCTACA
*
2723149 ATCCCCAGTGGA
1 ATCCCTAGTGGA
2723161 ATCAAGAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (28 bp):
ATCCCTAGTGGAGCCTAGACAACCTACA
Found at i:2723556 original size:25 final size:25
Alignment explanation
Indices: 2723527--2723584 Score: 84
Period size: 25 Copynumber: 2.3 Consensus size: 25
2723517 AACTATCGTC
2723527 AAGAACTTTTATCGAGAATGTTTGTT
1 AAGAACTTTTATCGAGAAT-TTTGTT
2723553 -AGAAAC-TTTATCGAGAATTTTGTT
1 AAG-AACTTTTATCGAGAATTTTGTT
2723577 AAGAACTT
1 AAGAACTT
2723585 ATGTCAAGAC
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
24 9 0.31
25 17 0.59
26 3 0.10
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (25 bp):
AAGAACTTTTATCGAGAATTTTGTT
Found at i:2724036 original size:27 final size:27
Alignment explanation
Indices: 2724006--2724069 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 27
2723996 AGGCCATAAG
*
2724006 TTAGTGGCACCTCTTTAAAGTCAACAA
1 TTAGTGGCACCTCTTCAAAGTCAACAA
* *
2724033 TTAGTGGTACCTCTTCAAAGTCTACAA
1 TTAGTGGCACCTCTTCAAAGTCAACAA
*
2724060 TCAGTGGCAC
1 TTAGTGGCAC
2724070 TTACCATATT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (27 bp):
TTAGTGGCACCTCTTCAAAGTCAACAA
Found at i:2724619 original size:81 final size:81
Alignment explanation
Indices: 2724493--2724641 Score: 228
Period size: 81 Copynumber: 1.8 Consensus size: 81
2724483 TGGCCTTGAA
**
2724493 TCAGCACATTGGCACCTTGCCCTAAGTCATATGGCATCTATCAAATCTTCTTCAATAAAGCCCAA
1 TCAGCACATTGGCACCTTGCCCTAAGTCATACAGCATCTATCAAATCTTCTTCAATAAAGCCCAA
2724558 TGTAGCTAGCCATAAC
66 TGTAGCTAGCCATAAC
* * * *
2724574 TCAGCACATTGGCACCTT-CCCTAAGTCATGCAGCATCTGTCCAAATCTTTTTCACTAAAGCCCA
1 TCAGCACATTGGCACCTTGCCCTAAGTCATACAGCATCTAT-CAAATCTTCTTCAATAAAGCCCA
2724638 ATGT
65 ATGT
2724642 TGTGGGCCTT
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
80 18 0.30
81 43 0.70
ACGTcount: A:0.29, C:0.30, G:0.13, T:0.28
Consensus pattern (81 bp):
TCAGCACATTGGCACCTTGCCCTAAGTCATACAGCATCTATCAAATCTTCTTCAATAAAGCCCAA
TGTAGCTAGCCATAAC
Found at i:2724664 original size:81 final size:81
Alignment explanation
Indices: 2724483--2724657 Score: 221
Period size: 81 Copynumber: 2.2 Consensus size: 81
2724473 CCGTGGTCAG
**
2724483 TGGCCTTGAATCAGCACATTGGCACCTTGCCCTAAGTCATATGGCATCTATCAAATCTTCTTCAA
1 TGGCCTTGAATCAGCACATTGGCACCTTGCCCTAAGTCATACAGCATCTATCAAATCTTCTTCAA
2724548 TAAAGCCCAATGTAGC
66 TAAAGCCCAATGTAGC
* * * * *
2724564 TAGCCAT-AACTCAGCACATTGGCACCTT-CCCTAAGTCATGCAGCATCTGTCCAAATCTTTTTC
1 TGGCCTTGAA-TCAGCACATTGGCACCTTGCCCTAAGTCATACAGCATCTAT-CAAATCTTCTTC
* *
2724627 ACTAAAGCCCAATGTTG-
64 AATAAAGCCCAATGTAGC
2724644 TGGGCCTTGAATCA
1 T-GGCCTTGAATCA
2724658 ATACATTAGC
Statistics
Matches: 79, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
80 21 0.27
81 56 0.71
82 2 0.03
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (81 bp):
TGGCCTTGAATCAGCACATTGGCACCTTGCCCTAAGTCATACAGCATCTATCAAATCTTCTTCAA
TAAAGCCCAATGTAGC
Found at i:2725586 original size:11 final size:11
Alignment explanation
Indices: 2725570--2725594 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2725560 TTTAGACCCA
2725570 AATGTATCGAT
1 AATGTATCGAT
2725581 AATGTATCGAT
1 AATGTATCGAT
2725592 AAT
1 AAT
2725595 ACAAGTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (11 bp):
AATGTATCGAT
Found at i:2729430 original size:27 final size:27
Alignment explanation
Indices: 2729399--2729459 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
2729389 ATTTTTGGTC
*
2729399 AAAAAAAGAGGATGGAGTATCCTCATG
1 AAAAAAAGAGGATGGAGTATCCCCATG
* * *
2729426 AAAAAATGGGGTTGGAGTATCCCCATG
1 AAAAAAAGAGGATGGAGTATCCCCATG
*
2729453 AATAAAA
1 AAAAAAA
2729460 TTTTGATACT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.44, C:0.11, G:0.25, T:0.20
Consensus pattern (27 bp):
AAAAAAAGAGGATGGAGTATCCCCATG
Found at i:2731893 original size:52 final size:52
Alignment explanation
Indices: 2731810--2731939 Score: 156
Period size: 52 Copynumber: 2.5 Consensus size: 52
2731800 ATTTAACTAG
* * ** *
2731810 ATGTATAGATACATTGAAGAATGTATTGATACATTT-GAGTTAAAAACTTATA
1 ATGTATAGATACAATGAAGAATGTATCGATACATTTGGA-TTAAAAACCCAGA
* *
2731862 ATGTATCGATACAATGAAGAATGTATCGATACTTTTGGATTAAAAACCCAGA
1 ATGTATAGATACAATGAAGAATGTATCGATACATTTGGATTAAAAACCCAGA
* *
2731914 ATGTATTGATACAAT-AAAAATGTATC
1 ATGTATAGATACAATGAAGAATGTATC
2731940 TGTTAGGATC
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
51 10 0.15
52 56 0.82
53 2 0.03
ACGTcount: A:0.42, C:0.09, G:0.15, T:0.33
Consensus pattern (52 bp):
ATGTATAGATACAATGAAGAATGTATCGATACATTTGGATTAAAAACCCAGA
Found at i:2732265 original size:13 final size:13
Alignment explanation
Indices: 2732247--2732273 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2732237 ACATTATGCT
2732247 TTGTATCGATACA
1 TTGTATCGATACA
2732260 TTGTATCGATACA
1 TTGTATCGATACA
2732273 T
1 T
2732274 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2732303 original size:20 final size:19
Alignment explanation
Indices: 2732257--2732313 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
2732247 TTGTATCGAT
*
2732257 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
*
2732276 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
*
2732295 ACAATTGTATCTATACATG
1 AC-ATTGTATCGATACATG
2732314 AAACATGCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:2732384 original size:20 final size:20
Alignment explanation
Indices: 2732342--2732395 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
2732332 CTACCACTGT
* *
2732342 TTGTATCAATACATGGTACA
1 TTGTATCGATACATGATACA
2732362 TTGTATCGATACATGATGA-A
1 TTGTATCGATACATGAT-ACA
*
2732382 TTGTATGGATACAT
1 TTGTATCGATACAT
2732396 TGCTTGTAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATGATACA
Found at i:2733995 original size:21 final size:20
Alignment explanation
Indices: 2733961--2734003 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
2733951 TATTAAAAAG
*
2733961 TTAGCTAATGAAAATAATGAA
1 TTAGCTAATGAAAACAA-GAA
2733982 TTAGCTAA-GAAAAACAAGAA
1 TTAGCTAATG-AAAACAAGAA
2734002 TT
1 TT
2734004 TGCATGATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.53, C:0.07, G:0.14, T:0.26
Consensus pattern (20 bp):
TTAGCTAATGAAAACAAGAA
Found at i:2734002 original size:20 final size:21
Alignment explanation
Indices: 2733961--2734003 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
2733951 TATTAAAAAG
*
2733961 TTAGCTAATGAAAATAATGAA
1 TTAGCTAATGAAAATAAAGAA
2733982 TTAGCTAA-GAAAA-ACAAGAA
1 TTAGCTAATGAAAATA-AAGAA
2734002 TT
1 TT
2734004 TGCATGATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 11 0.55
21 8 0.40
ACGTcount: A:0.53, C:0.07, G:0.14, T:0.26
Consensus pattern (21 bp):
TTAGCTAATGAAAATAAAGAA
Found at i:2739809 original size:22 final size:22
Alignment explanation
Indices: 2739784--2739830 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
2739774 TTTTTTAAGA
2739784 TTTGACAAAGGGGGAGAAATGC
1 TTTGACAAAGGGGGAGAAATGC
** *
2739806 TTTGAGTAAGGGGGAGAAATTC
1 TTTGACAAAGGGGGAGAAATGC
2739828 TTT
1 TTT
2739831 AATTAAGGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.06, G:0.34, T:0.28
Consensus pattern (22 bp):
TTTGACAAAGGGGGAGAAATGC
Found at i:2739837 original size:22 final size:22
Alignment explanation
Indices: 2739791--2739846 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
2739781 AGATTTGACA
*
2739791 AAGGGGGAGAAATGCTTTGAGT
1 AAGGGGGAGAAATGCTTTAAGT
* *
2739813 AAGGGGGAGAAATTCTTTAATT
1 AAGGGGGAGAAATGCTTTAAGT
*
2739835 AAGGAGGAGAAA
1 AAGGGGGAGAAA
2739847 AACGAAAACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.39, C:0.04, G:0.36, T:0.21
Consensus pattern (22 bp):
AAGGGGGAGAAATGCTTTAAGT
Found at i:2740447 original size:20 final size:19
Alignment explanation
Indices: 2740401--2740456 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
2740391 TTGTATCGAT
* *
2740401 ACATTGTATCGAAACATGT
1 ACATTGTATCGATACATGG
*
2740420 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
*
2740439 ACAATTGTATCAATACAT
1 AC-ATTGTATCGATACAT
2740457 AAAACTGGCA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:2740520 original size:13 final size:13
Alignment explanation
Indices: 2740502--2740529 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2740492 CGATACATGG
2740502 TACATTGTATCGA
1 TACATTGTATCGA
2740515 TACATTGTATCGA
1 TACATTGTATCGA
2740528 TA
1 TA
2740530 AATGATGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:2740528 original size:33 final size:33
Alignment explanation
Indices: 2740486--2740554 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
2740476 CTACCACTGT
* *
2740486 TTGTATCGATACATGGT-ACATTGTATCGATACA
1 TTGTATCGATAAATGATGA-ATTGTATCGATACA
*
2740519 TTGTATCGATAAATGATGAATTGTATTGATACA
1 TTGTATCGATAAATGATGAATTGTATCGATACA
2740552 TTG
1 TTG
2740555 CTTGTAACGG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
33 31 0.97
34 1 0.03
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (33 bp):
TTGTATCGATAAATGATGAATTGTATCGATACA
Found at i:2741398 original size:21 final size:21
Alignment explanation
Indices: 2741347--2741400 Score: 76
Period size: 20 Copynumber: 2.6 Consensus size: 21
2741337 CATTTTAAGC
2741347 TTGTATCGATACATTCACTTA
1 TTGTATCGATACATTCACTTA
2741368 -TGTATCGATACATTGC-CTTA
1 TTGTATCGATACATT-CACTTA
*
2741388 TTGTGTCGATACA
1 TTGTATCGATACA
2741401 AATTGCTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 18 0.60
21 12 0.40
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.41
Consensus pattern (21 bp):
TTGTATCGATACATTCACTTA
Found at i:2746056 original size:9 final size:9
Alignment explanation
Indices: 2746042--2746079 Score: 53
Period size: 8 Copynumber: 4.4 Consensus size: 9
2746032 TAATTGAAAG
2746042 ATAAATGTC
1 ATAAATGTC
2746051 ATAAATGTC
1 ATAAATGTC
*
2746060 AT-AATGTA
1 ATAAATGTC
2746068 AT-AATGTC
1 ATAAATGTC
2746076 ATAA
1 ATAA
2746080 CTTATCATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
8 14 0.54
9 12 0.46
ACGTcount: A:0.47, C:0.08, G:0.11, T:0.34
Consensus pattern (9 bp):
ATAAATGTC
Found at i:2746816 original size:13 final size:13
Alignment explanation
Indices: 2746798--2746886 Score: 70
Period size: 13 Copynumber: 5.9 Consensus size: 13
2746788 CATAAAGTGT
2746798 TGTATCGATACAA
1 TGTATCGATACAA
2746811 TGTATCGATACATAA
1 TGTATCGATAC--AA
2746826 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
2746843 TGTATCGATACATAA
1 TGTATCGATAC--AA
2746858 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
2746875 TGTATCGATACA
1 TGTATCGATACA
2746887 TAAGTTTTGT
Statistics
Matches: 64, Mismatches: 0, Indels: 24
0.73 0.00 0.27
Matches are distributed among these distances:
13 34 0.53
15 4 0.06
17 4 0.06
19 22 0.34
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2746833 original size:32 final size:32
Alignment explanation
Indices: 2746778--2746907 Score: 233
Period size: 32 Copynumber: 4.0 Consensus size: 32
2746768 TTCAACGATT
2746778 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
2746811 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
2746843 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* *
2746875 TGTATCGATACATAAGTTTTGTATCGATGCAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
2746907 T
1 T
2746908 TTAAGCTACT
Statistics
Matches: 95, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
32 82 0.86
33 13 0.14
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:2746966 original size:13 final size:13
Alignment explanation
Indices: 2746948--2746972 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2746938 ATTACTCAAA
2746948 TGTATCGATACAT
1 TGTATCGATACAT
2746961 TGTATCGATACA
1 TGTATCGATACA
2746973 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2747024 original size:52 final size:50
Alignment explanation
Indices: 2746961--2747105 Score: 191
Period size: 52 Copynumber: 2.8 Consensus size: 50
2746951 ATCGATACAT
*
2746961 TGTATCGATACACTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACT-AT-TATGTATCGATACATGCAGGCAAATTTGCCCAGA
* * * *
2747013 TGTATCGATACATTATAAAAAGTATCGATATATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACTAT--TATGTATCGATACATGCAGGCAAATTTGCCCAGA
2747065 TGTATCGATACACTATTAAATGTATCGATACATGCAGGCAA
1 TGTATCGATACACTATT--ATGTATCGATACATGCAGGCAA
2747106 CTTTTCATAT
Statistics
Matches: 80, Mismatches: 10, Indels: 6
0.83 0.10 0.06
Matches are distributed among these distances:
51 2 0.03
52 78 0.98
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (50 bp):
TGTATCGATACACTATTATGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:2757849 original size:21 final size:21
Alignment explanation
Indices: 2757823--2757876 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
2757813 TTCCTAGATG
*
2757823 TATCGATATATTCTACAAATA
1 TATCGATACATTCTACAAATA
*
2757844 TATCGATACATTCTACAAATG
1 TATCGATACATTCTACAAATA
2757865 TATCGATACATT
1 TATCGATACATT
2757877 TTCTTGGCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.39, C:0.17, G:0.07, T:0.37
Consensus pattern (21 bp):
TATCGATACATTCTACAAATA
Done.