Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 46 of 349
Found at i:13109827 original size:40 final size:40
Alignment explanation
Indices: 13109783--13109881 Score: 144
Period size: 40 Copynumber: 2.5 Consensus size: 40
13109773 CTAAAGCAAA
13109783 AATCGCACACTAAGTGCCATATATAGCCAAAGCTATGTCG
1 AATCGCACACTAAGTGCCATATATAGCCAAAGCTATGTCG
** * *
13109823 AATCGCACACTAAGTGTAATATATAGCTAAAGTTATGTCG
1 AATCGCACACTAAGTGCCATATATAGCCAAAGCTATGTCG
* *
13109863 TATCACACACTAAGTGCCA
1 AATCGCACACTAAGTGCCA
13109882 CAAATAATCG
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.25
Consensus pattern (40 bp):
AATCGCACACTAAGTGCCATATATAGCCAAAGCTATGTCG
Found at i:13113578 original size:26 final size:26
Alignment explanation
Indices: 13113542--13113600 Score: 109
Period size: 26 Copynumber: 2.3 Consensus size: 26
13113532 TATATTGATT
*
13113542 GTGCATATAGGACTCATACACAGAGA
1 GTGCATCTAGGACTCATACACAGAGA
13113568 GTGCATCTAGGACTCATACACAGAGA
1 GTGCATCTAGGACTCATACACAGAGA
13113594 GTGCATC
1 GTGCATC
13113601 AATTATAAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (26 bp):
GTGCATCTAGGACTCATACACAGAGA
Found at i:13115453 original size:62 final size:62
Alignment explanation
Indices: 13115384--13115500 Score: 189
Period size: 62 Copynumber: 1.9 Consensus size: 62
13115374 TCCCTGACCG
*
13115384 TGTGGTCTTATACCACAAACAGTGAGTTACACGGCCCAAACACACACCCGTGTCCTTGGCCA
1 TGTGGTCTTATACCACAAACAGTGAGTTACACGACCCAAACACACACCCGTGTCCTTGGCCA
* * **
13115446 TGTGGTCTTATACCATAAACAGTGAGTTACACGACCCAGACACATGCCCGTGTCC
1 TGTGGTCTTATACCACAAACAGTGAGTTACACGACCCAAACACACACCCGTGTCC
13115501 GTTGCCCGTC
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 50 1.00
ACGTcount: A:0.27, C:0.31, G:0.20, T:0.22
Consensus pattern (62 bp):
TGTGGTCTTATACCACAAACAGTGAGTTACACGACCCAAACACACACCCGTGTCCTTGGCCA
Found at i:13116173 original size:21 final size:20
Alignment explanation
Indices: 13116132--13116174 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
13116122 AAGAAAAACC
* *
13116132 AAAAAAAATAACAAACTTAG
1 AAAAAAAAGAACAAACATAG
*
13116152 AAAAAAAAGAAGAAACGATAG
1 AAAAAAAAGAACAAAC-ATAG
13116173 AA
1 AA
13116175 TTTCTTCAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.72, C:0.07, G:0.12, T:0.09
Consensus pattern (20 bp):
AAAAAAAAGAACAAACATAG
Found at i:13121087 original size:18 final size:17
Alignment explanation
Indices: 13121035--13121087 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 17
13121025 CCACACAGAC
13121035 TAGGCCAAGACGGGCATG
1 TAGGCCAA-ACGGGCATG
* *
13121053 T-GAGCCACACGGACATG
1 TAG-GCCAAACGGGCATG
13121070 TAGGCCCAAACGGGCATG
1 TAGG-CCAAACGGGCATG
13121088 CCACACGGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
17 11 0.39
18 17 0.61
ACGTcount: A:0.28, C:0.26, G:0.34, T:0.11
Consensus pattern (17 bp):
TAGGCCAAACGGGCATG
Found at i:13121156 original size:32 final size:32
Alignment explanation
Indices: 13121117--13121207 Score: 157
Period size: 32 Copynumber: 2.9 Consensus size: 32
13121107 ATTTGGGCCA
**
13121117 AGCCGTGTGATCCACACGGGCAAGGCCAAGCT
1 AGCCGTGTGGGCCACACGGGCAAGGCCAAGCT
13121149 AGCCGTGTGGGCCACACGGGCAAGGCCAAGCT
1 AGCCGTGTGGGCCACACGGGCAAGGCCAAGCT
13121181 AGCCGTGTGGGCCACACGGGC-AGGCCA
1 AGCCGTGTGGGCCACACGGGCAAGGCCA
13121208 TACAAGCATA
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
31 6 0.11
32 51 0.89
ACGTcount: A:0.22, C:0.32, G:0.36, T:0.10
Consensus pattern (32 bp):
AGCCGTGTGGGCCACACGGGCAAGGCCAAGCT
Found at i:13122581 original size:32 final size:33
Alignment explanation
Indices: 13122533--13122618 Score: 99
Period size: 32 Copynumber: 2.6 Consensus size: 33
13122523 TTTTCGTTCC
* *
13122533 TAAAAGTTCTAAGGATTCAATGATTT-GATTTG
1 TAAAAGTTTTAGGGATTCAATGATTTGGATTTG
13122565 TAAAAGTTTTAGGGATTTCAA-GATTTAGGGATTTG
1 TAAAAGTTTTAGGGA-TTCAATGATTT--GGATTTG
13122600 -AAAA-TTTTAGGGATTCAAT
1 TAAAAGTTTTAGGGATTCAAT
13122619 AAAGATTTTG
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
32 23 0.49
33 14 0.30
34 4 0.09
35 6 0.13
ACGTcount: A:0.35, C:0.05, G:0.21, T:0.40
Consensus pattern (33 bp):
TAAAAGTTTTAGGGATTCAATGATTTGGATTTG
Found at i:13122610 original size:17 final size:17
Alignment explanation
Indices: 13122559--13122614 Score: 69
Period size: 16 Copynumber: 3.2 Consensus size: 17
13122549 TCAATGATTT
13122559 GATTTGTAAAAGTTTTAGG
1 GATTTG-AAAA-TTTTAGG
* *
13122578 GATTTCAAGA-TTTAGG
1 GATTTGAAAATTTTAGG
13122594 GATTTGAAAATTTTAGG
1 GATTTGAAAATTTTAGG
13122611 GATT
1 GATT
13122615 CAATAAAGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 14 0.44
17 10 0.31
18 3 0.09
19 5 0.16
ACGTcount: A:0.32, C:0.02, G:0.25, T:0.41
Consensus pattern (17 bp):
GATTTGAAAATTTTAGG
Found at i:13127527 original size:28 final size:28
Alignment explanation
Indices: 13127489--13127547 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
13127479 TTTCACAATC
13127489 TTTTCACTACAATGTGAAATACATATAT
1 TTTTCACTACAATGTGAAATACATATAT
13127517 TTTTCACTACAATGTGAAATACATATAT
1 TTTTCACTACAATGTGAAATACATATAT
13127545 TTT
1 TTT
13127548 AACTATTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.37, C:0.14, G:0.07, T:0.42
Consensus pattern (28 bp):
TTTTCACTACAATGTGAAATACATATAT
Found at i:13129812 original size:23 final size:23
Alignment explanation
Indices: 13129795--13129840 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
13129785 AATTAATAAT
*
13129795 AATACAAAATATATATTATATTAA
1 AATA-AAAAAATATATTATATTAA
*
13129819 AATAAAAAAATATATCATATTA
1 AATAAAAAAATATATTATATTA
13129841 TGAGTATATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (23 bp):
AATAAAAAAATATATTATATTAA
Found at i:13129812 original size:27 final size:25
Alignment explanation
Indices: 13129782--13129833 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 25
13129772 ACGGATTTAA
13129782 ATTA-ATTAATAATAATACAAAATATAT
1 ATTATATTAA-AATAA-A-AAAATATAT
13129809 ATTATATTAAAATAAAAAAATATAT
1 ATTATATTAAAATAAAAAAATATAT
13129834 CATATTATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 9 0.38
26 1 0.04
27 9 0.38
28 5 0.21
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (25 bp):
ATTATATTAAAATAAAAAAATATAT
Found at i:13131930 original size:23 final size:22
Alignment explanation
Indices: 13131899--13131969 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
13131889 TCTTGGTTTC
13131899 AAGTGAAATTGTTTAAAAATAATT
1 AAGT-AAA-TGTTTAAAAATAATT
**
13131923 AAGTAAATACTTAAAATATAA--
1 AAGTAAATGTTTAAAA-ATAATT
*
13131944 AA-TAAA-GTTTAAAAAAAATT
1 AAGTAAATGTTTAAAAATAATT
13131964 AAGTAA
1 AAGTAA
13131970 TTAGTGAATA
Statistics
Matches: 38, Mismatches: 5, Indels: 11
0.70 0.09 0.20
Matches are distributed among these distances:
18 3 0.08
19 6 0.16
20 6 0.16
21 5 0.13
22 7 0.18
23 7 0.18
24 4 0.11
ACGTcount: A:0.59, C:0.01, G:0.08, T:0.31
Consensus pattern (22 bp):
AAGTAAATGTTTAAAAATAATT
Found at i:13132323 original size:77 final size:77
Alignment explanation
Indices: 13132016--13132366 Score: 295
Period size: 77 Copynumber: 4.5 Consensus size: 77
13132006 TGTTTCGAAA
* * * * * *
13132016 AATTACTTAAATTAAGGAATAATTACTTAATACATGAAATGTTGCTTAAAACATGAAAAGATTTT
1 AATT-CTTAAATTATGAAAGAATTACTTAATACATAAAATGTTACTTAAAACATGAAAAG--GTT
* *
13132081 TTTAA-AAGTTAAGT
63 TCTAAGAAATTAAGT
* * * ** * *
13132095 AATTCGTAAATTAT-AAACGAATCACTTAATACATGAAAT-TT--TTCTAACATAAAAAAGTTTC
1 AATTCTTAAATTATGAAA-GAATTACTTAATACATAAAATGTTACTTAAAACATGAAAAGGTTTC
*
13132156 TAAGAAATTAAAT
65 TAAGAAATTAAGT
* * * * * *
13132169 AATTCTTAAATCATGTAA-AATTACTTAAAACATAAACGAATATTACGTAAAACATGAAGTA-GT
1 AATTCTTAAATTATGAAAGAATTACTTAATACAT-AA--AATGTTACTTAAAACATGAA-AAGGT
13132232 TTCTAAGAAATTAAGT
62 TTCTAAGAAATTAAGT
* * *
13132248 TATTCTTAAATTATGAAAGAATTACTTAATACACAAAATGTTACTTAAAACATGAAAAGGTTTCC
1 AATTCTTAAATTATGAAAGAATTACTTAATACATAAAATGTTACTTAAAACATGAAAAGGTTTCT
13132313 AAGAAATTAAGT
66 AAGAAATTAAGT
* ** * *
13132325 AATTCATAAAATTA-GAAAGTGTTACTTAATATATAAACTGTT
1 AATTC-TTAAATTATGAAAGAATTACTTAATACATAAAATGTT
13132367 GGTTTTTAAA
Statistics
Matches: 218, Mismatches: 41, Indels: 28
0.76 0.14 0.10
Matches are distributed among these distances:
73 19 0.09
74 20 0.09
75 13 0.06
76 4 0.02
77 68 0.31
78 34 0.16
79 46 0.21
80 14 0.06
ACGTcount: A:0.47, C:0.09, G:0.10, T:0.34
Consensus pattern (77 bp):
AATTCTTAAATTATGAAAGAATTACTTAATACATAAAATGTTACTTAAAACATGAAAAGGTTTCT
AAGAAATTAAGT
Found at i:13132501 original size:19 final size:19
Alignment explanation
Indices: 13132464--13132501 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
13132454 TCATGGGATA
*
13132464 ATTACTTAATACATTAAAT
1 ATTACTTAATACATGAAAT
13132483 ATTACTTGAAT-CATGAAAT
1 ATTACTT-AATACATGAAAT
13132502 CGTGTCTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.45, C:0.11, G:0.05, T:0.39
Consensus pattern (19 bp):
ATTACTTAATACATGAAAT
Found at i:13142314 original size:9 final size:9
Alignment explanation
Indices: 13142300--13142335 Score: 72
Period size: 9 Copynumber: 4.0 Consensus size: 9
13142290 CATACTATAT
13142300 CCATTTCAA
1 CCATTTCAA
13142309 CCATTTCAA
1 CCATTTCAA
13142318 CCATTTCAA
1 CCATTTCAA
13142327 CCATTTCAA
1 CCATTTCAA
13142336 TACTCAATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (9 bp):
CCATTTCAA
Found at i:13143016 original size:28 final size:28
Alignment explanation
Indices: 13142982--13143054 Score: 110
Period size: 28 Copynumber: 2.6 Consensus size: 28
13142972 CAATGCCTTG
* *
13142982 CACACTAAGTGCCATACTTGATATCTCA
1 CACACTAAGTGCCACACTCGATATCTCA
* *
13143010 CATACTAAGTGCCACACTCGATATCTCG
1 CACACTAAGTGCCACACTCGATATCTCA
13143038 CACACTAAGTGCCACAC
1 CACACTAAGTGCCACAC
13143055 ATAGCCAAAG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.32, C:0.33, G:0.12, T:0.23
Consensus pattern (28 bp):
CACACTAAGTGCCACACTCGATATCTCA
Found at i:13143083 original size:40 final size:40
Alignment explanation
Indices: 13143038--13143213 Score: 228
Period size: 40 Copynumber: 4.4 Consensus size: 40
13143028 CGATATCTCG
* * * *
13143038 CACACTAAGTGCCACACATAGCCAAAGCTATCTCAAATCA
1 CACACTAAGTGCCATATATAGCCAAAGCTATGTCGAATCA
* *
13143078 CACACTAAGTGCCATATATAGCCGAAA-CTATGTTGAATCG
1 CACACTAAGTGCCATATATAGCC-AAAGCTATGTCGAATCA
**
13143118 CACACTAAGTGCCATATATAGCCAAAGCTATGTCGAATTG
1 CACACTAAGTGCCATATATAGCCAAAGCTATGTCGAATCA
* * *
13143158 CACACTAAGTGCCATATATAACTAAAGCTATGTCGTATCA
1 CACACTAAGTGCCATATATAGCCAAAGCTATGTCGAATCA
*
13143198 CACATTAAGTGCCATA
1 CACACTAAGTGCCATA
13143214 AATAATCGAT
Statistics
Matches: 120, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 3 0.03
40 114 0.95
41 3 0.03
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.24
Consensus pattern (40 bp):
CACACTAAGTGCCATATATAGCCAAAGCTATGTCGAATCA
Found at i:13146930 original size:26 final size:26
Alignment explanation
Indices: 13146894--13146952 Score: 109
Period size: 26 Copynumber: 2.3 Consensus size: 26
13146884 TATATTGATT
*
13146894 GTGCATATAGGACTCATACACAGAGA
1 GTGCATCTAGGACTCATACACAGAGA
13146920 GTGCATCTAGGACTCATACACAGAGA
1 GTGCATCTAGGACTCATACACAGAGA
13146946 GTGCATC
1 GTGCATC
13146953 AATTATAAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (26 bp):
GTGCATCTAGGACTCATACACAGAGA
Found at i:13148689 original size:226 final size:226
Alignment explanation
Indices: 13148295--13148940 Score: 1292
Period size: 226 Copynumber: 2.9 Consensus size: 226
13148285 GTGGGGTTAA
13148295 AAATACCCACCCATCCCTACACATCACATAGTGTCTATCTGACACGTGTACAAAAACATAGCTTA
1 AAATACCCACCCATCCCTACACATCACATAGTGTCTATCTGACACGTGTACAAAAACATAGCTTA
13148360 GCTGCTAGATAGTAATATGGCGAAACGCCAGAATCAGAGTGAACATATGGTTGCTTAGCCACTAG
66 GCTGCTAGATAGTAATATGGCGAAACGCCAGAATCAGAGTGAACATATGGTTGCTTAGCCACTAG
13148425 ATTAGAACAGATCACTTCATTCTTCTTAATATCCCAACCCATACGTATGCATAGAACCAATATCC
131 ATTAGAACAGATCACTTCATTCTTCTTAATATCCCAACCCATACGTATGCATAGAACCAATATCC
13148490 ACAAGTAGATAGTACAACTCAATATCAAAAT
196 ACAAGTAGATAGTACAACTCAATATCAAAAT
13148521 AAATACCCACCCATCCCTACACATCACATAGTGTCTATCTGACACGTGTACAAAAACATAGCTTA
1 AAATACCCACCCATCCCTACACATCACATAGTGTCTATCTGACACGTGTACAAAAACATAGCTTA
13148586 GCTGCTAGATAGTAATATGGCGAAACGCCAGAATCAGAGTGAACATATGGTTGCTTAGCCACTAG
66 GCTGCTAGATAGTAATATGGCGAAACGCCAGAATCAGAGTGAACATATGGTTGCTTAGCCACTAG
13148651 ATTAGAACAGATCACTTCATTCTTCTTAATATCCCAACCCATACGTATGCATAGAACCAATATCC
131 ATTAGAACAGATCACTTCATTCTTCTTAATATCCCAACCCATACGTATGCATAGAACCAATATCC
13148716 ACAAGTAGATAGTACAACTCAATATCAAAAT
196 ACAAGTAGATAGTACAACTCAATATCAAAAT
13148747 AAATACCCACCCATCCCTACACATCACATAGTGTCTATCTGACACGTGTACAAAAACATAGCTTA
1 AAATACCCACCCATCCCTACACATCACATAGTGTCTATCTGACACGTGTACAAAAACATAGCTTA
13148812 GCTGCTAGATAGTAATATGGCGAAACGCCAGAATCAGAGTGAACATATGGTTGCTTAGCCACTAG
66 GCTGCTAGATAGTAATATGGCGAAACGCCAGAATCAGAGTGAACATATGGTTGCTTAGCCACTAG
13148877 ATTAGAACAGATCACTTCATTCTTCTTAATATCCCAACCCATACGTATGCATAGAACCAATATC
131 ATTAGAACAGATCACTTCATTCTTCTTAATATCCCAACCCATACGTATGCATAGAACCAATATC
13148941 AAAATAAATA
Statistics
Matches: 420, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
226 420 1.00
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.25
Consensus pattern (226 bp):
AAATACCCACCCATCCCTACACATCACATAGTGTCTATCTGACACGTGTACAAAAACATAGCTTA
GCTGCTAGATAGTAATATGGCGAAACGCCAGAATCAGAGTGAACATATGGTTGCTTAGCCACTAG
ATTAGAACAGATCACTTCATTCTTCTTAATATCCCAACCCATACGTATGCATAGAACCAATATCC
ACAAGTAGATAGTACAACTCAATATCAAAAT
Found at i:13149939 original size:17 final size:17
Alignment explanation
Indices: 13149901--13149939 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
13149891 CAAATATCGT
*
13149901 AAAAAGAAAAAAGAAAA
1 AAAAAGAAAAAACAAAA
* *
13149918 TAAAAGAAAAACCAAAA
1 AAAAAGAAAAAACAAAA
13149935 AAAAA
1 AAAAA
13149940 ACCAAACTTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.85, C:0.05, G:0.08, T:0.03
Consensus pattern (17 bp):
AAAAAGAAAAAACAAAA
Found at i:13151856 original size:22 final size:22
Alignment explanation
Indices: 13151828--13151871 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
13151818 CATCTTCAAC
* * *
13151828 TAAACTCAGGTGAGCTAACATT
1 TAAACTCAAGCGAGATAACATT
13151850 TAAACTCAAGCGAGATAACATT
1 TAAACTCAAGCGAGATAACATT
13151872 GCTCTCAGGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.25
Consensus pattern (22 bp):
TAAACTCAAGCGAGATAACATT
Found at i:13157626 original size:18 final size:18
Alignment explanation
Indices: 13157599--13157644 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
13157589 TCTCATTATC
*
13157599 AATCTTCTGTGCTTCAAT
1 AATCTGCTGTGCTTCAAT
13157617 AATCTGCTGTGCTTCAAT
1 AATCTGCTGTGCTTCAAT
13157635 AATCTGCTGT
1 AATCTGCTGT
13157645 AAGAATAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.41
Consensus pattern (18 bp):
AATCTGCTGTGCTTCAAT
Found at i:13166141 original size:62 final size:62
Alignment explanation
Indices: 13166044--13166202 Score: 212
Period size: 62 Copynumber: 2.6 Consensus size: 62
13166034 CCCATGTCTC
* * **
13166044 TGGTCGTGTGG-CTTTATACCACAAACAGTGAGTTACATGGCCTAGACACACACTTGTGTCCT
1 TGGTCGTGTGGTC-TTATACCACAAACAGTGAGTTACACGACCTAGACACACACCCGTGTCCT
* * * *
13166106 TGGTCGTGTGGTCTTATGCCATAAACAGTAAGTTACACGACCTAGACACACGCCCGTGTCCT
1 TGGTCGTGTGGTCTTATACCACAAACAGTGAGTTACACGACCTAGACACACACCCGTGTCCT
* *
13166168 TGGCCGTGTGGTCTTATACCACAAATAGTGAGTTA
1 TGGTCGTGTGGTCTTATACCACAAACAGTGAGTTA
13166203 TACAGCCTTG
Statistics
Matches: 83, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
62 82 0.99
63 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (62 bp):
TGGTCGTGTGGTCTTATACCACAAACAGTGAGTTACACGACCTAGACACACACCCGTGTCCT
Found at i:13168272 original size:131 final size:131
Alignment explanation
Indices: 13168038--13168307 Score: 307
Period size: 131 Copynumber: 2.1 Consensus size: 131
13168028 TAGAAAATAC
* * * *
13168038 GAGTGAAATCCCAAAGGGATCTTCGATTGCCTCGAACAAATGAAAATGCGCAACCCAGCATAATA
1 GAGTGAAAACCCAAAGGAATCTTCGATTGCCTCGAACAAATGAAAATGCACAACCCAGCACAATA
* *
13168103 GGGCACGATTCTCAAATTGCCGAACATCGAACATTGCCTTCGTTTTGAAAGG-TTTTTAATA-GA
66 GGGCACGATTCCCAAATTGCCGAACACCGAACATTGCCTTCGTTTT-AAAGGATTTTTAA-AGGA
13168166 CAT
129 CAT
* ** * * *
13168169 GAGTGAAAACCTAAAGGAATCTTCGATTGTTTTGAAC-AATCGAGAAAT-CACAACCCATCACGA
1 GAGTGAAAACCCAAAGGAATCTTCGATTGCCTCGAACAAAT-GA-AAATGCACAACCCAGCACAA
* * * *
13168232 TAGGGCATGCTTCCCGAATTGTCC-AACACCGAGCATTGCCTTCGTTTTAAAGGATTTTTAAAGG
64 TAGGGCACGATTCCCAAATTG-CCGAACACCGAACATTGCCTTCGTTTTAAAGGATTTTTAAAGG
*
13168296 ATAT
128 ACAT
13168300 GAGTGAAA
1 GAGTGAAA
13168308 TTTTGAAGGG
Statistics
Matches: 117, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
130 9 0.08
131 102 0.87
132 6 0.05
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (131 bp):
GAGTGAAAACCCAAAGGAATCTTCGATTGCCTCGAACAAATGAAAATGCACAACCCAGCACAATA
GGGCACGATTCCCAAATTGCCGAACACCGAACATTGCCTTCGTTTTAAAGGATTTTTAAAGGACA
T
Found at i:13168412 original size:131 final size:131
Alignment explanation
Indices: 13168272--13168554 Score: 334
Period size: 131 Copynumber: 2.2 Consensus size: 131
13168262 GAGCATTGCC
* * * * * * * *
13168272 TTCGTTTTAAAGGATTTTTAAAGGATATGAGTGAAATTTTGAAGGGATATTTGATTA-TTTCAAG
1 TTCG-TTTAAGGGATTTTTAAAAGACATGAGTGAAAATCTAAAGGGACATTCGATTACTTT-AAG
* ** * * * *
13168336 CAGACGAGGAATTGCAACCCAGCACGTTAGGGCACGATTCCGCGAATTTCCAAATATCGCACATC
64 CAAACGAAAAATTGCAACCCAACACGTTAGGGCACGATTCCACGAATTGCCAAATATCACACATC
*
13168401 TCA
129 ACA
* * * *
13168404 TTCGTTTAAGGGATCTTTAAAAGACATGGGTGAAAATCTAAAGGGACGTTCGATTACTTTGAGCA
1 TTCGTTTAAGGGATTTTTAAAAGACATGAGTGAAAATCTAAAGGGACATTCGATTACTTTAAGCA
* *
13168469 AACGAAAAATTGCAACCCAACACGTTAGGGCACGATTCCACGCATTGCCAAGTATCACACATCAC
66 AACGAAAAATTGCAACCCAACACGTTAGGGCACGATTCCACGAATTGCCAAATATCACACATCAC
*
13168534 C
131 A
13168535 TTCGTTTAAGGGATTTTTAA
1 TTCGTTTAAGGGATTTTTAA
13168555 TAGTTGTGAA
Statistics
Matches: 126, Mismatches: 24, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
131 119 0.94
132 7 0.06
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (131 bp):
TTCGTTTAAGGGATTTTTAAAAGACATGAGTGAAAATCTAAAGGGACATTCGATTACTTTAAGCA
AACGAAAAATTGCAACCCAACACGTTAGGGCACGATTCCACGAATTGCCAAATATCACACATCAC
A
Found at i:13172764 original size:21 final size:21
Alignment explanation
Indices: 13172721--13172954 Score: 186
Period size: 21 Copynumber: 11.2 Consensus size: 21
13172711 ACATCATTTT
* *
13172721 CAGAAGC-C-TAAAAGCTGAA
1 CAGAAGCTCATAAGAGCTAAA
* * *
13172740 CAGAAGCTTATGAGAGTTAAA
1 CAGAAGCTCATAAGAGCTAAA
13172761 CAGAAGCTCATAAGAGCTAAA
1 CAGAAGCTCATAAGAGCTAAA
* * * * *
13172782 CAGAAACCCTTAAGAGTTGAA
1 CAGAAGCTCATAAGAGCTAAA
*
13172803 TAGAAGCTCATAAGAGCTAAA
1 CAGAAGCTCATAAGAGCTAAA
* * * * *
13172824 CGGAAACTCATAAAAGTTGAA
1 CAGAAGCTCATAAGAGCTAAA
* * *
13172845 TAGAAGCTCGTAAGAGCTGAA
1 CAGAAGCTCATAAGAGCTAAA
* * *
13172866 CAGAAACTCCTAAGAGCTGAA
1 CAGAAGCTCATAAGAGCTAAA
* * *
13172887 CAGAAGCTCGTAAAAGCTGAA
1 CAGAAGCTCATAAGAGCTAAA
* *
13172908 CAGAAACTCATATGAGCTAAA
1 CAGAAGCTCATAAGAGCTAAA
*
13172929 CAGAAGCTTGA-AAGAGCTAAA
1 CAGAAGC-TCATAAGAGCTAAA
13172950 CAGAA
1 CAGAA
13172955 AGTAAAACAC
Statistics
Matches: 167, Mismatches: 45, Indels: 4
0.77 0.21 0.02
Matches are distributed among these distances:
19 7 0.04
21 158 0.95
22 2 0.01
ACGTcount: A:0.45, C:0.17, G:0.21, T:0.17
Consensus pattern (21 bp):
CAGAAGCTCATAAGAGCTAAA
Found at i:13172786 original size:42 final size:41
Alignment explanation
Indices: 13172721--13172955 Score: 206
Period size: 42 Copynumber: 5.7 Consensus size: 41
13172711 ACATCATTTT
* * * * *
13172721 CAGAAGC-C-TAAAAGCTGAACAGAAGCTTATGAGAGTTAAA
1 CAGAAGCTCATAAGAGCTAAACAGAAACTCAT-AGAGTTGAA
* *
13172761 CAGAAGCTCATAAGAGCTAAACAGAAACCCTTAAGAGTTGAA
1 CAGAAGCTCATAAGAGCTAAACAGAAACTCAT-AGAGTTGAA
* * *
13172803 TAGAAGCTCATAAGAGCTAAACGGAAACTCATAAAAGTTGAA
1 CAGAAGCTCATAAGAGCTAAACAGAAACTCAT-AGAGTTGAA
* * * * *
13172845 TAGAAGCTCGTAAGAGCTGAACAGAAACTCCTAAGAGCTGAA
1 CAGAAGCTCATAAGAGCTAAACAGAAACTCAT-AGAGTTGAA
* * * * *
13172887 CAGAAGCTCGTAAAAGCTGAACAGAAACTCATATGAGCTAAA
1 CAGAAGCTCATAAGAGCTAAACAGAAACTCATA-GAGTTGAA
*
13172929 CAGAAGCTTGA-AAGAGCTAAACAGAAA
1 CAGAAGC-TCATAAGAGCTAAACAGAAA
13172956 GTAAAACACA
Statistics
Matches: 164, Mismatches: 27, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
40 7 0.04
41 2 0.01
42 154 0.94
43 1 0.01
ACGTcount: A:0.46, C:0.17, G:0.21, T:0.17
Consensus pattern (41 bp):
CAGAAGCTCATAAGAGCTAAACAGAAACTCATAGAGTTGAA
Found at i:13172834 original size:63 final size:63
Alignment explanation
Indices: 13172733--13172954 Score: 221
Period size: 63 Copynumber: 3.5 Consensus size: 63
13172723 GAAGCCTAAA
* * * * * *
13172733 AGCTGAACAGAAGCTTATGAGAGTTAAACAGAAGCTCATAAGAGCTAAACAGAAACCCTTAAG
1 AGCTGAACAGAAGCTCATAAGAGCTAAACAGAAGCTCATAAAAGCTGAACAGAAACCCGTAAG
* * * * * * * *
13172796 AGTTGAATAGAAGCTCATAAGAGCTAAACGGAAACTCATAAAAGTTGAATAGAAGCTCGTAAG
1 AGCTGAACAGAAGCTCATAAGAGCTAAACAGAAGCTCATAAAAGCTGAACAGAAACCCGTAAG
* * * * * * *
13172859 AGCTGAACAGAAACTCCTAAGAGCTGAACAGAAGCTCGTAAAAGCTGAACAGAAACTCATATG
1 AGCTGAACAGAAGCTCATAAGAGCTAAACAGAAGCTCATAAAAGCTGAACAGAAACCCGTAAG
* *
13172922 AGCTAAACAGAAGCTTGA-AAGAGCTAAACAGAA
1 AGCTGAACAGAAGC-TCATAAGAGCTAAACAGAA
13172955 AGTAAAACAC
Statistics
Matches: 126, Mismatches: 32, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
63 125 0.99
64 1 0.01
ACGTcount: A:0.45, C:0.17, G:0.21, T:0.17
Consensus pattern (63 bp):
AGCTGAACAGAAGCTCATAAGAGCTAAACAGAAGCTCATAAAAGCTGAACAGAAACCCGTAAG
Found at i:13176138 original size:36 final size:36
Alignment explanation
Indices: 13176087--13176164 Score: 149
Period size: 36 Copynumber: 2.2 Consensus size: 36
13176077 TATTGATTGA
13176087 GTTT-GAAAAACTTTTGTAAAAGTTAGCGCATAATG
1 GTTTAGAAAAACTTTTGTAAAAGTTAGCGCATAATG
13176122 GTTTAGAAAAACTTTTGTAAAAGTTAGCGCATAATG
1 GTTTAGAAAAACTTTTGTAAAAGTTAGCGCATAATG
13176158 GTTTAGA
1 GTTTAGA
13176165 TAAATTATTA
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
35 4 0.10
36 38 0.90
ACGTcount: A:0.37, C:0.08, G:0.21, T:0.35
Consensus pattern (36 bp):
GTTTAGAAAAACTTTTGTAAAAGTTAGCGCATAATG
Found at i:13195866 original size:21 final size:21
Alignment explanation
Indices: 13195827--13195867 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
13195817 TCTCATAAGC
** *
13195827 TCGTGTGTCCACCAGACACGG
1 TCGTGTGTCCAAAACACACGG
13195848 TCGTGTGTCCAAAACACACG
1 TCGTGTGTCCAAAACACACG
13195868 CCCGTGTGGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.24, C:0.32, G:0.24, T:0.20
Consensus pattern (21 bp):
TCGTGTGTCCAAAACACACGG
Found at i:13201774 original size:32 final size:32
Alignment explanation
Indices: 13201738--13201802 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
13201728 TGTATGCATT
13201738 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
13201770 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
13201802 T
1 T
13201803 GGTAAGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:13203299 original size:26 final size:26
Alignment explanation
Indices: 13203270--13203322 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
13203260 TTTACAGTTT
13203270 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
13203296 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
13203322 T
1 T
13203323 GGATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:13204925 original size:12 final size:12
Alignment explanation
Indices: 13204908--13204938 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
13204898 ACTCGGGGAA
13204908 GAGGCCGTGGTC
1 GAGGCCGTGGTC
13204920 GAGGCCGTGGTC
1 GAGGCCGTGGTC
13204932 GAGGCCG
1 GAGGCCG
13204939 AGGTAGTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.10, C:0.26, G:0.52, T:0.13
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:13209795 original size:32 final size:32
Alignment explanation
Indices: 13209759--13209823 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
13209749 TGTATGCATT
13209759 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
13209791 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
13209823 T
1 T
13209824 GGTAAGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:13211334 original size:26 final size:26
Alignment explanation
Indices: 13211305--13211357 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
13211295 TTTACAGTTT
13211305 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
13211331 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
13211357 T
1 T
13211358 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:13216133 original size:15 final size:16
Alignment explanation
Indices: 13216113--13216142 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
13216103 AAAAAATTGT
13216113 TTTTCTT-CTCTCTTC
1 TTTTCTTCCTCTCTTC
13216128 TTTTCTTCCTCTCTT
1 TTTTCTTCCTCTCTT
13216143 TGTAACAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTCTTCCTCTCTTC
Found at i:13217825 original size:30 final size:30
Alignment explanation
Indices: 13217779--13217836 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
13217769 CTGGGCATTT
*
13217779 CCACGCGGGCTGGCCACACGCCCATGTGAG
1 CCACACGGGCTGGCCACACGCCCATGTGAG
* *
13217809 CCACACGGGTTGGCCACATGCCCATGTG
1 CCACACGGGCTGGCCACACGCCCATGTG
13217837 CCAGTCCGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.17, C:0.38, G:0.31, T:0.14
Consensus pattern (30 bp):
CCACACGGGCTGGCCACACGCCCATGTGAG
Found at i:13221873 original size:30 final size:30
Alignment explanation
Indices: 13221837--13221894 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
13221827 TTTTTTTCCT
13221837 ACACGGCCTGGA-CACACGAGTGTGTGGAGC
1 ACACGGCCT-GACCACACGAGTGTGTGGAGC
*
13221867 ACACGGCCTGACCACACGGGTGTGTGGA
1 ACACGGCCTGACCACACGAGTGTGTGGA
13221895 ATCTCACATG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 2 0.08
30 24 0.92
ACGTcount: A:0.22, C:0.28, G:0.36, T:0.14
Consensus pattern (30 bp):
ACACGGCCTGACCACACGAGTGTGTGGAGC
Found at i:13222186 original size:12 final size:12
Alignment explanation
Indices: 13222169--13222285 Score: 50
Period size: 12 Copynumber: 9.7 Consensus size: 12
13222159 TTTGTTTTAT
13222169 TTAATTTTATTA
1 TTAATTTTATTA
13222181 TTAATTGTTA-TA
1 TTAATT-TTATTA
13222193 TT-A-TTTATT-
1 TTAATTTTATTA
* *
13222202 TTTATTTTACTAA
1 TTAATTTTA-TTA
*
13222215 TTAATTAATTAATTC
1 TTAATT--TT-ATTA
* *
13222230 TTATACTTATATTT
1 TTA-A-TTTTATTA
*
13222244 TTAATTTTTTTA
1 TTAATTTTATTA
13222256 -TATATTTTATTA
1 TTA-ATTTTATTA
*
13222268 TT-ATTTT-TTT
1 TTAATTTTATTA
13222278 TTAATTTT
1 TTAATTTT
13222286 GCTATTTCTA
Statistics
Matches: 80, Mismatches: 11, Indels: 29
0.67 0.09 0.24
Matches are distributed among these distances:
9 5 0.06
10 7 0.09
11 17 0.21
12 24 0.30
13 10 0.12
14 6 0.08
15 7 0.09
16 2 0.03
17 2 0.03
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.68
Consensus pattern (12 bp):
TTAATTTTATTA
Found at i:13222216 original size:42 final size:43
Alignment explanation
Indices: 13222170--13222270 Score: 102
Period size: 42 Copynumber: 2.3 Consensus size: 43
13222160 TTGTTTTATT
*
13222170 TAATTTTATTATTAATTGTTATA-TTAT-TTATTT-TTATTTTA
1 TAATTTTATTATTAATTCTTATACTTATATT-TTTATTATTTTA
* *
13222211 CTAA-TTAATTAATTAATTCTTATACTTATATTTTTAATTTTTTTA
1 -TAATTTTATT-ATTAATTCTTATACTTATATTTTT-ATTATTTTA
13222256 TATATTTTATTATTA
1 TA-ATTTTATTATTA
13222271 TTTTTTTTTA
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
41 5 0.10
42 15 0.31
43 7 0.15
44 4 0.08
45 12 0.25
46 5 0.10
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (43 bp):
TAATTTTATTATTAATTCTTATACTTATATTTTTATTATTTTA
Found at i:13222275 original size:24 final size:22
Alignment explanation
Indices: 13222239--13222285 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 22
13222229 CTTATACTTA
*
13222239 TATTTTTAATTTTTTTATATATTT
1 TATTATTAATTTTTTT-TA-ATTT
*
13222263 TATTATTATTTTTTTTTAATTT
1 TATTATTAATTTTTTTTAATTT
13222285 T
1 T
13222286 GCTATTTCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 5 0.24
23 2 0.10
24 14 0.67
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (22 bp):
TATTATTAATTTTTTTTAATTT
Found at i:13222291 original size:22 final size:23
Alignment explanation
Indices: 13222247--13222291 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
13222237 TATATTTTTA
*
13222247 ATTTTTTTATATATTTTATTATT
1 ATTTTTTTATATATTTTACTATT
* *
13222270 ATTTTTTTTTA-ATTTTGCTATT
1 ATTTTTTTATATATTTTACTATT
13222292 TCTATTTTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (23 bp):
ATTTTTTTATATATTTTACTATT
Found at i:13222305 original size:20 final size:20
Alignment explanation
Indices: 13222282--13222330 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
13222272 TTTTTTTTAA
*
13222282 TTTTGCTATTTC-TATTTTC
1 TTTTTCTATTTCGTATTTTC
*
13222301 TTTTTCTTTTTCGTATTTTC
1 TTTTTCTATTTCGTATTTTC
*
13222321 TTTTACTATT
1 TTTTTCTATT
13222331 ATCCTTACAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.10, C:0.14, G:0.04, T:0.71
Consensus pattern (20 bp):
TTTTTCTATTTCGTATTTTC
Found at i:13222393 original size:7 final size:7
Alignment explanation
Indices: 13222381--13222431 Score: 68
Period size: 7 Copynumber: 7.3 Consensus size: 7
13222371 TTATTACTAT
*
13222381 TTTTTTA
1 TTTTTTC
13222388 TTTTTT-
1 TTTTTTC
*
13222394 ATTTTTC
1 TTTTTTC
13222401 TTTTTTC
1 TTTTTTC
13222408 TTTTTTC
1 TTTTTTC
13222415 TTTTTTC
1 TTTTTTC
13222422 TTTTTATC
1 TTTTT-TC
13222430 TT
1 TT
13222432 CCTTTTTAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
6 5 0.12
7 31 0.77
8 4 0.10
ACGTcount: A:0.06, C:0.10, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTTC
Found at i:13222404 original size:21 final size:21
Alignment explanation
Indices: 13222381--13222431 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
13222371 TTATTACTAT
* *
13222381 TTTTTTATTTTTT-ATTTTTC
1 TTTTTTCTTTTTTCTTTTTTC
13222401 TTTTTTCTTTTTTCTTTTTTC
1 TTTTTTCTTTTTTCTTTTTTC
13222422 TTTTTATCTT
1 TTTTT-TCTT
13222432 CCTTTTTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 12 0.44
21 11 0.41
22 4 0.15
ACGTcount: A:0.06, C:0.10, G:0.00, T:0.84
Consensus pattern (21 bp):
TTTTTTCTTTTTTCTTTTTTC
Found at i:13222470 original size:13 final size:13
Alignment explanation
Indices: 13222378--13222476 Score: 67
Period size: 13 Copynumber: 7.5 Consensus size: 13
13222368 AGTTTATTAC
13222378 TATTTTTTTATTT
1 TATTTTTTTATTT
*
13222391 T-TTATTTTTCTTT
1 TATT-TTTTTATTT
* *
13222404 TTTCTTTTTTCTTT
1 TAT-TTTTTTATTT
*
13222418 T-TTCTTTTTATCT
1 TATT-TTTTTATTT
** *
13222431 TCCTTTTTAATTT
1 TATTTTTTTATTT
* *
13222444 TGTTTTAGTTATTT
1 TATTTT-TTTATTT
13222458 TATTTTTTTATTT
1 TATTTTTTTATTT
13222471 TATTTT
1 TATTTT
13222477 CTTCAACTTA
Statistics
Matches: 68, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
12 3 0.04
13 42 0.62
14 22 0.32
15 1 0.01
ACGTcount: A:0.11, C:0.07, G:0.02, T:0.80
Consensus pattern (13 bp):
TATTTTTTTATTT
Found at i:13223040 original size:26 final size:26
Alignment explanation
Indices: 13223011--13223092 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
13223001 TGATAAAAAT
*
13223011 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
13223037 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
13223063 TGATAATGGGTTAGGTGAATGTTCCG
1 TGATAATGGGTTAGGTAAATGTTCCA
13223089 TGAT
1 TGAT
13223093 GGGCATTTCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.29, C:0.07, G:0.28, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:13224096 original size:31 final size:31
Alignment explanation
Indices: 13224058--13224122 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
13224048 GACAAATTTG
13224058 TTAATGAGTTGCTTATTAATTTCTTATAAGC
1 TTAATGAGTTGCTTATTAATTTCTTATAAGC
*
13224089 TTAATGAGTTGCTTATTGATTTCTTATAAGC
1 TTAATGAGTTGCTTATTAATTTCTTATAAGC
13224120 TTA
1 TTA
13224123 CTCTGATCTG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.28, C:0.09, G:0.14, T:0.49
Consensus pattern (31 bp):
TTAATGAGTTGCTTATTAATTTCTTATAAGC
Found at i:13224769 original size:27 final size:27
Alignment explanation
Indices: 13224729--13224806 Score: 97
Period size: 27 Copynumber: 2.9 Consensus size: 27
13224719 AGGAAGCGTC
13224729 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTATGCCACAA-TATCTGTAT
*
13224756 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTATGCCACAATATCTGTAT
* *
13224783 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTAT-GCCACAATATCTG
13224807 GCAACCTCGC
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
26 7 0.15
27 39 0.85
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.33
Consensus pattern (27 bp):
CTGGTGGCTATGCCACAATATCTGTAT
Found at i:13229592 original size:26 final size:26
Alignment explanation
Indices: 13229563--13229644 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
13229553 TGATAAAAAT
*
13229563 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
13229589 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
13229615 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
13229641 TGAT
1 TGAT
13229645 GGGCATTTCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.32, C:0.07, G:0.26, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:13231272 original size:27 final size:27
Alignment explanation
Indices: 13231232--13231309 Score: 97
Period size: 27 Copynumber: 2.9 Consensus size: 27
13231222 AGGAAGCGTC
13231232 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTATGCCACAA-TATCTGTAT
*
13231259 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTATGCCACAATATCTGTAT
* *
13231286 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTAT-GCCACAATATCTG
13231310 GCAACCTCGC
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
26 7 0.15
27 39 0.85
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.33
Consensus pattern (27 bp):
CTGGTGGCTATGCCACAATATCTGTAT
Found at i:13232633 original size:19 final size:19
Alignment explanation
Indices: 13232608--13232706 Score: 141
Period size: 19 Copynumber: 5.3 Consensus size: 19
13232598 ATAATCTTCA
13232608 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
13232627 GTGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
13232646 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
13232663 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
13232681 ATGATATACAATCTTGAAGAT
1 ATGATATGCAATCTT--AGAT
13232702 ATGAT
1 ATGAT
13232707 TTTGTAATCT
Statistics
Matches: 72, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
17 16 0.22
18 16 0.22
19 31 0.43
21 9 0.12
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:13232648 original size:14 final size:15
Alignment explanation
Indices: 13232629--13232684 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 15
13232619 TCTTAGATGT
13232629 GATATG-CAATCTTA
1 GATATGACAATCTTA
13232643 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
13232660 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
13232678 GATATGA
1 GATATGA
13232685 TATACAATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.17
15 1 0.03
17 14 0.39
18 15 0.42
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:13232678 original size:35 final size:36
Alignment explanation
Indices: 13232616--13232707 Score: 132
Period size: 35 Copynumber: 2.5 Consensus size: 36
13232606 CAATGATATG
*
13232616 CAATCTTAGATGTGATATGCAATCTTAGATATG-ATA
1 CAATCTTAGATATGAT-TGCAATCTTAGATATGAATA
13232652 CAATCTTAGATATGATTGCAATCTTAGATATGATATA
1 CAATCTTAGATATGATTGCAATCTTAGATATGA-ATA
13232689 CAATCTTGAAGATATGATT
1 CAATCTT--AGATATGATT
13232708 TTGTAATCTT
Statistics
Matches: 51, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
35 16 0.31
36 15 0.29
37 10 0.20
39 10 0.20
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (36 bp):
CAATCTTAGATATGATTGCAATCTTAGATATGAATA
Found at i:13233240 original size:17 final size:17
Alignment explanation
Indices: 13233175--13233240 Score: 59
Period size: 17 Copynumber: 3.9 Consensus size: 17
13233165 TCTAAACCAA
*
13233175 TATATTTTATATTTT-T
1 TATATATTATATTTTAT
13233191 TATATAATTATTATTCTTA-
1 TATAT-ATTA-TATT-TTAT
*
13233210 TAAATA-TAT-TTTTAT
1 TATATATTATATTTTAT
13233225 TATATATTATATTTTA
1 TATATATTATATTTTA
13233241 AATTTATTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 13
0.71 0.05 0.23
Matches are distributed among these distances:
14 3 0.08
15 7 0.17
16 9 0.22
17 10 0.25
18 5 0.12
19 6 0.15
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (17 bp):
TATATATTATATTTTAT
Found at i:13233264 original size:26 final size:25
Alignment explanation
Indices: 13233217--13233265 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
13233207 TTATAAATAT
* * *
13233217 ATTTTTATTATATATTATATTTTAA
1 ATTTTTATTAAATATCACATTTTAA
13233242 ATTTATTATTAAATATCACATTTT
1 ATTT-TTATTAAATATCACATTTT
13233266 TTTATATGCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 4 0.20
26 16 0.80
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (25 bp):
ATTTTTATTAAATATCACATTTTAA
Found at i:13234813 original size:19 final size:20
Alignment explanation
Indices: 13234785--13234823 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
13234775 TATGAACAAT
13234785 CACATAATAATTT-ATCATA
1 CACATAATAATTTAATCATA
*
13234804 CACATCATAATTTAATCATA
1 CACATAATAATTTAATCATA
13234824 ATGTCCCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.46, C:0.18, G:0.00, T:0.36
Consensus pattern (20 bp):
CACATAATAATTTAATCATA
Found at i:13234922 original size:20 final size:20
Alignment explanation
Indices: 13234897--13234964 Score: 109
Period size: 20 Copynumber: 3.4 Consensus size: 20
13234887 GAAGTTCAGG
13234897 AAATTTTTTGTGAAATTTCA
1 AAATTTTTTGTGAAATTTCA
*
13234917 AAATTTTTCGTGAAATTTCA
1 AAATTTTTTGTGAAATTTCA
* *
13234937 AAACTTTTTATGAAATTTCA
1 AAATTTTTTGTGAAATTTCA
13234957 AAATTTTT
1 AAATTTTT
13234965 CCTAAATAGA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.49
Consensus pattern (20 bp):
AAATTTTTTGTGAAATTTCA
Found at i:13240389 original size:13 final size:13
Alignment explanation
Indices: 13240371--13240422 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
13240361 TAAACCCTAA
13240371 TTTCTCTTTTTCTT
1 TTTCTCTTTTTC-T
13240385 TTCTCTCTTTTTCT
1 TT-TCTCTTTTTCT
* *
13240399 TTCCCCTTTTTCCT
1 TTTCTCTTTTT-CT
*
13240413 TTTCTATTTT
1 TTTCTCTTTT
13240423 GTTTTCAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
13 7 0.23
14 14 0.45
15 10 0.32
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTCTCTTTTTCT
Found at i:13240393 original size:15 final size:15
Alignment explanation
Indices: 13240373--13240417 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
13240363 AACCCTAATT
13240373 TCTCTTTTTCTTTTC
1 TCTCTTTTTCTTTTC
13240388 TCTCTTTTTC-TTTC
1 TCTCTTTTTCTTTTC
*
13240402 -CCCTTTTTCCTTTTC
1 TCTCTTTTT-CTTTTC
13240417 T
1 T
13240418 ATTTTGTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 7 0.27
14 5 0.19
15 14 0.54
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (15 bp):
TCTCTTTTTCTTTTC
Found at i:13245387 original size:35 final size:35
Alignment explanation
Indices: 13245341--13245410 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
13245331 GAGTATTAGA
13245341 TTAGTGGGGAAGTAGTTAGTTATGATTTGGATTGT
1 TTAGTGGGGAAGTAGTTAGTTATGATTTGGATTGT
13245376 TTAGTGGGGAAGTAGTTAGTTATGATTTGGATTGT
1 TTAGTGGGGAAGTAGTTAGTTATGATTTGGATTGT
13245411 ATTTTTATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.23, C:0.00, G:0.34, T:0.43
Consensus pattern (35 bp):
TTAGTGGGGAAGTAGTTAGTTATGATTTGGATTGT
Found at i:13246594 original size:24 final size:24
Alignment explanation
Indices: 13246539--13246595 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
13246529 AAACATATAC
*
13246539 ATTTTCATATACAGATTCAAACAT
1 ATTTTCATATACAAATTCAAACAT
* **
13246563 ATTCTCATATACAAATTCAAATGT
1 ATTTTCATATACAAATTCAAACAT
13246587 ATTTTCATA
1 ATTTTCATA
13246596 ATCAGATACA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.40, C:0.16, G:0.04, T:0.40
Consensus pattern (24 bp):
ATTTTCATATACAAATTCAAACAT
Found at i:13246607 original size:24 final size:24
Alignment explanation
Indices: 13246580--13246632 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
13246570 TATACAAATT
* * *
13246580 CAAATGTATTTTCATAATCAGATA
1 CAAATGCATATTCAGAATCAGATA
* *
13246604 CAAATGCGTATTCAGATTCAGATA
1 CAAATGCATATTCAGAATCAGATA
13246628 CAAAT
1 CAAAT
13246633 ACAGACACAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.32
Consensus pattern (24 bp):
CAAATGCATATTCAGAATCAGATA
Found at i:13246886 original size:27 final size:27
Alignment explanation
Indices: 13246848--13246902 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
13246838 TACCAAGCTC
13246848 ATCCCGATGCACATGCACAAATAAACT
1 ATCCCGATGCACATGCACAAATAAACT
* *
13246875 ATCCCGATGCACATGCATAACTAAACT
1 ATCCCGATGCACATGCACAAATAAACT
13246902 A
1 A
13246903 ACACATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.40, C:0.29, G:0.11, T:0.20
Consensus pattern (27 bp):
ATCCCGATGCACATGCACAAATAAACT
Found at i:13247220 original size:20 final size:20
Alignment explanation
Indices: 13247195--13247242 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
13247185 GCCCACACGG
13247195 CCTAACACATGCCTATGTGA
1 CCTAACACATGCCTATGTGA
13247215 CCTAACACATGCCTATGTGA
1 CCTAACACATGCCTATGTGA
13247235 CCT-ACACA
1 CCTAACACA
13247243 AGCCGCCACA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 5 0.18
20 23 0.82
ACGTcount: A:0.31, C:0.33, G:0.12, T:0.23
Consensus pattern (20 bp):
CCTAACACATGCCTATGTGA
Found at i:13254841 original size:21 final size:21
Alignment explanation
Indices: 13254809--13254849 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
13254799 GAACATTTGG
13254809 TGTATAGGCTAAGAA-AGGCCT
1 TGTATAGGCTAA-AACAGGCCT
13254830 TGTAT-GGCCTAAAACAGGCC
1 TGTATAGG-CTAAAACAGGCC
13254850 CCTCGAGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (21 bp):
TGTATAGGCTAAAACAGGCCT
Found at i:13265566 original size:30 final size:31
Alignment explanation
Indices: 13265530--13265607 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 31
13265520 CTCGAATTTC
** * *
13265530 TTTAAAAAAGATAAAATTA-TACTTTAATCT
1 TTTAAAAAAGATAAAAAAATTAATTTAATCA
*
13265560 TTTAAAAATGATAAAAAAATTAATTTAATCA
1 TTTAAAAAAGATAAAAAAATTAATTTAATCA
**
13265591 TTTAAAAATTATAAAAA
1 TTTAAAAAAGATAAAAA
13265608 TATAAACTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
30 16 0.39
31 25 0.61
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.37
Consensus pattern (31 bp):
TTTAAAAAAGATAAAAAAATTAATTTAATCA
Found at i:13265595 original size:31 final size:33
Alignment explanation
Indices: 13265542--13265607 Score: 100
Period size: 31 Copynumber: 2.1 Consensus size: 33
13265532 TAAAAAAGAT
*
13265542 AAAATTATACTTTAATCTTTTAAAAATGATAAA
1 AAAATTATACTTTAATCATTTAAAAATGATAAA
*
13265575 AAAATTA-A-TTTAATCATTTAAAAATTATAAA
1 AAAATTATACTTTAATCATTTAAAAATGATAAA
13265606 AA
1 AA
13265608 TATAAACTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 23 0.74
32 1 0.03
33 7 0.23
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.38
Consensus pattern (33 bp):
AAAATTATACTTTAATCATTTAAAAATGATAAA
Found at i:13273593 original size:24 final size:24
Alignment explanation
Indices: 13273565--13273616 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
13273555 TTAGCAAGTC
* * *
13273565 AAATAAACTATGCTAATAATTGCT
1 AAATAAACTATACTAATAAATACT
* *
13273589 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
13273613 AAAT
1 AAAT
13273617 CTTCTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:13276116 original size:20 final size:20
Alignment explanation
Indices: 13276087--13276124 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
13276077 GAACAAAATA
*
13276087 AATTACACAAAGTATTATCT
1 AATTACACAAACTATTATCT
*
13276107 AATTATACAAACTATTAT
1 AATTACACAAACTATTAT
13276125 AATCTTTTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.13, G:0.03, T:0.37
Consensus pattern (20 bp):
AATTACACAAACTATTATCT
Found at i:13279305 original size:30 final size:30
Alignment explanation
Indices: 13279252--13279308 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
13279242 ACGAACATGC
*
13279252 CACACGGGCGTGTGGCATGCCCGTGTGTTT
1 CACACGGGCGTGTGGCATACCCGTGTGTTT
* **
13279282 CACACGGGTGTGTGGTTTACCCGTGTG
1 CACACGGGCGTGTGGCATACCCGTGTG
13279309 AAAGTGCCTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.11, C:0.25, G:0.37, T:0.28
Consensus pattern (30 bp):
CACACGGGCGTGTGGCATACCCGTGTGTTT
Found at i:13281169 original size:6 final size:6
Alignment explanation
Indices: 13281149--13281224 Score: 84
Period size: 6 Copynumber: 12.3 Consensus size: 6
13281139 ACAAGTCTTT
*
13281149 AAAATA AACAT- AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
*
13281196 AAGCGA-A AAAATA AAAGATAA AAAATA AA
1 AA--AATA AAAATA AAA-AT-A AAAATA AA
13281225 TGGACTCAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
5 5 0.08
6 43 0.72
7 7 0.12
8 5 0.08
ACGTcount: A:0.79, C:0.03, G:0.04, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:13288735 original size:15 final size:15
Alignment explanation
Indices: 13288715--13288748 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
13288705 CGAGGAGCAG
13288715 GATTCTAATTCACTA
1 GATTCTAATTCACTA
* *
13288730 GATTCTGATTCACTT
1 GATTCTAATTCACTA
13288745 GATT
1 GATT
13288749 TGTGGCAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.26, C:0.18, G:0.12, T:0.44
Consensus pattern (15 bp):
GATTCTAATTCACTA
Found at i:13292433 original size:26 final size:26
Alignment explanation
Indices: 13292397--13292448 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
13292387 ACTCATCAAA
13292397 TTGGTGCCCAATAAAATCCCCTCTCT
1 TTGGTGCCCAATAAAATCCCCTCTCT
*
13292423 TTGGTGCCCAATAAAATCTCCTCTCT
1 TTGGTGCCCAATAAAATCCCCTCTCT
13292449 ATCTTACTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.23, C:0.33, G:0.12, T:0.33
Consensus pattern (26 bp):
TTGGTGCCCAATAAAATCCCCTCTCT
Found at i:13298554 original size:21 final size:21
Alignment explanation
Indices: 13298514--13298554 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
13298504 CTTAAAAGTT
* *
13298514 AAATTACAAAGCAACCAAATC
1 AAATTACAAAGAAACAAAATC
*
13298535 AAATTACAAATAAACAAAAT
1 AAATTACAAAGAAACAAAAT
13298555 GATTCTGCTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.63, C:0.17, G:0.02, T:0.17
Consensus pattern (21 bp):
AAATTACAAAGAAACAAAATC
Found at i:13300721 original size:74 final size:73
Alignment explanation
Indices: 13300479--13300721 Score: 211
Period size: 74 Copynumber: 3.3 Consensus size: 73
13300469 TTTTAAGTTC
* * * * * ** * *
13300479 CACAAATTTGCCCTCACTTAATTAATAAAGCCAAGTCCCTCAGGGGATGCAATC-AAGTCAACAA
1 CACAAACTTGCTCTCACTTAATTAGTAAAGCCAAATCCCTTAAAGGATGCAATCAAATTAAACAA
13300543 TTTGATTT
66 TTTGATTT
** * * * * *
13300551 CAGCTGACTTGCTCTCA-TTCAATTGGTAAAGCCAAATCTCTTAAAAGATGCAATCAAGTCAAAC
1 CA-CAAACTTGCTCTCACTT-AATTAGTAAAGCCAAATCCCTTAAAGGATGCAATCAAATTAAAC
*
13300615 ATTTTGATTTT
64 AATTTGA-TTT
* * * * * * * *
13300626 CACATAGTTTCTCCCATTTAATTAGTAAAGCCAAATCCCTTAAAGGCTGTAATCAAATTAAACAC
1 CACAAACTTGCTCTCACTTAATTAGTAAAGCCAAATCCCTTAAAGGATGCAATCAAATTAAACAA
13300691 TTTGACTTT
66 TTTGA-TTT
13300700 CACAAACTTGCTCTCACTTAAT
1 CACAAACTTGCTCTCACTTAAT
13300722 CGATAGAGCT
Statistics
Matches: 130, Mismatches: 36, Indels: 8
0.75 0.21 0.05
Matches are distributed among these distances:
72 4 0.03
73 37 0.28
74 82 0.63
75 7 0.05
ACGTcount: A:0.34, C:0.23, G:0.12, T:0.32
Consensus pattern (73 bp):
CACAAACTTGCTCTCACTTAATTAGTAAAGCCAAATCCCTTAAAGGATGCAATCAAATTAAACAA
TTTGATTT
Found at i:13306391 original size:18 final size:18
Alignment explanation
Indices: 13306358--13306431 Score: 57
Period size: 18 Copynumber: 4.2 Consensus size: 18
13306348 AATAATTTTT
*
13306358 AAAATTAAAAATATTTATA
1 AAAATTTAAAA-ATTTATA
*
13306377 AAAATTTCAAAATTTAT-
1 AAAATTTAAAAATTTATA
*
13306394 ---ATTTAAAAAATTATA
1 AAAATTTAAAAATTTATA
* *
13306409 AAAATTTTAAAATATATA
1 AAAATTTAAAAATTTATA
13306427 CAAAA
1 -AAAA
13306432 AAGTTAAAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 10
0.72 0.12 0.17
Matches are distributed among these distances:
14 12 0.28
18 18 0.42
19 13 0.30
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAATTTAAAAATTTATA
Found at i:13306397 original size:24 final size:24
Alignment explanation
Indices: 13306368--13306415 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
13306358 AAAATTAAAA
* *
13306368 ATATTTATAAAAA-TTTCAAAATTT
1 ATATTTA-AAAAATTATAAAAATTT
13306392 ATATTTAAAAAATTATAAAAATTT
1 ATATTTAAAAAATTATAAAAATTT
13306416 TAAAATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (24 bp):
ATATTTAAAAAATTATAAAAATTT
Found at i:13306413 original size:32 final size:34
Alignment explanation
Indices: 13306362--13306426 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 34
13306352 ATTTTTAAAA
*
13306362 TTAAAAATATTTATAAAAATTTCAAAATTTATAT
1 TTAAAAATATTTATAAAAATTTCAAAATATATAT
*
13306396 TTAAAAA-A-TTATAAAAATTTTAAAATATATA
1 TTAAAAATATTTATAAAAATTTCAAAATATATA
13306427 CAAAAAAGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 21 0.72
33 1 0.03
34 7 0.24
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (34 bp):
TTAAAAATATTTATAAAAATTTCAAAATATATAT
Found at i:13306459 original size:28 final size:30
Alignment explanation
Indices: 13306373--13306459 Score: 81
Period size: 28 Copynumber: 2.9 Consensus size: 30
13306363 TAAAAATATT
* * *
13306373 TATAAAAATTTCAAAATTTATATTTAAAAAAT
1 TATAAAAATTTTAAAATTT-T-TCTAAAAAAG
* *
13306405 TATAAAAATTTTAAAATATATAC-AAAAAAG
1 TATAAAAATTTTAAAAT-TTTTCTAAAAAAG
13306435 T-T-AAAATTTTAAAATTTTTCTAAAA
1 TATAAAAATTTTAAAATTTTTCTAAAA
13306460 TAATAATTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
27 3 0.07
28 17 0.37
29 1 0.02
30 7 0.15
32 17 0.37
33 1 0.02
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.39
Consensus pattern (30 bp):
TATAAAAATTTTAAAATTTTTCTAAAAAAG
Found at i:13309488 original size:12 final size:12
Alignment explanation
Indices: 13309471--13309498 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
13309461 GTTGTTAATC
13309471 GTTTATTTGCTT
1 GTTTATTTGCTT
13309483 GTTTATTTGCTT
1 GTTTATTTGCTT
13309495 GTTT
1 GTTT
13309499 TGTTCTTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.07, G:0.18, T:0.68
Consensus pattern (12 bp):
GTTTATTTGCTT
Found at i:13311337 original size:27 final size:28
Alignment explanation
Indices: 13311299--13311351 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
13311289 TTCTGTTTCT
* *
13311299 TTTTGAAAAAAACAATAGA-AAAATGAA
1 TTTTGAAAAAAAAAAAAGATAAAATGAA
*
13311326 TTTTGCAAAAAAAAAAAGATAAAATG
1 TTTTGAAAAAAAAAAAAGATAAAATG
13311352 GGTTTTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 16 0.73
28 6 0.27
ACGTcount: A:0.62, C:0.04, G:0.11, T:0.23
Consensus pattern (28 bp):
TTTTGAAAAAAAAAAAAGATAAAATGAA
Found at i:13311357 original size:28 final size:27
Alignment explanation
Indices: 13311299--13311351 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 27
13311289 TTCTGTTTCT
*
13311299 TTTTGAAAAAAACAATAGAAAAATGAA
1 TTTTGAAAAAAACAAAAGAAAAATGAA
13311326 TTTTGCAAAAAAA-AAAAGATAAAATG
1 TTTTG-AAAAAAACAAAAGA-AAAATG
13311352 GGTTTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.62, C:0.04, G:0.11, T:0.23
Consensus pattern (27 bp):
TTTTGAAAAAAACAAAAGAAAAATGAA
Found at i:13323063 original size:64 final size:64
Alignment explanation
Indices: 13322980--13323106 Score: 184
Period size: 64 Copynumber: 2.0 Consensus size: 64
13322970 CATTCATAAT
* * * *
13322980 ACATCTAGTTATGAGCACTT-GATTCATTTTGATCATAGCATCCTAATTATTTGACATAAGCATC
1 ACATCTAGCTAGGAACACTTGGATT-ATTTCGATCATAGCATCCTAATTATTTGACATAAGCATC
* *
13323044 ACATCTAGCTAGGAACACTTGGATTATTTCGATCATAGCATCCTAGTTATTTGGCATAAGCAT
1 ACATCTAGCTAGGAACACTTGGATTATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
13323107 AGATATATGA
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
64 52 0.93
65 4 0.07
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (64 bp):
ACATCTAGCTAGGAACACTTGGATTATTTCGATCATAGCATCCTAATTATTTGACATAAGCATC
Found at i:13323238 original size:45 final size:45
Alignment explanation
Indices: 13323174--13323281 Score: 130
Period size: 45 Copynumber: 2.4 Consensus size: 45
13323164 TGAAGGCAGA
* *
13323174 TCTTATTTCCTTGAAGTTGCAGCGGAATAGA-TCGAAGATTA-CAAG
1 TCTTATCTCCTTGAAGTTGCAGCGGAACAGACT-GAAGA-TAGCAAG
* * *
13323219 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAG
1 TCTTATCTCCTTGAAGTTGCAGCGGAACAGACTGAAGATAGCAAG
*
13323264 TCTTATCTTCTTGAAGTT
1 TCTTATCTCCTTGAAGTT
13323282 TCAGGAAGAA
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
44 2 0.04
45 51 0.94
46 1 0.02
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (45 bp):
TCTTATCTCCTTGAAGTTGCAGCGGAACAGACTGAAGATAGCAAG
Found at i:13323435 original size:130 final size:132
Alignment explanation
Indices: 13323202--13323783 Score: 728
Period size: 134 Copynumber: 4.4 Consensus size: 132
13323192 GCAGCGGAAT
* *
13323202 AGATCGAAGAT-TACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGTC
1 AGATCGAAAATGT-CAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACT-AA-ATAGCAAGTC
* * * * * *
13323266 TTATCTTCTTGAAGTTTCAGGAAGAAGACTGAAAGTTACAGATCTTATCTCCATGTATCGACTAT
63 TTATCTTCCTGAAGTTGCAGGAAGCAGACTAAAAATTACAGATCTTATCTCCATGTATCGGCTAT
*
13323331 GGAAC
128 GGAGC
* * * * * **
13323336 AGATC-AGAAATGGCAAGTCTTATCTCCATGTA-TCGGTTA-TAGAGCAGA-T-TTTAGCAAGTC
1 AGATCGA-AAATGTCAAGTCTTATCTCCCTGAAGT-TG-TAGTGGAGCAGACTAAATAGCAAGTC
* *
13323396 TTATCTTCCTAAAGTTGCAGGAAGCAGACTAAAAATTACAGATCTTATCTCTATGTATCGGCTAT
63 TTATCTTCCTGAAGTTGCAGGAAGCAGACTAAAAATTACAGATCTTATCTCCATGTATCGGCTAT
*
13323461 GGAGT
128 GGAGC
* * *
13323466 AGATCGAAAATGACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGATATCAAATCT
1 AGATCGAAAATGTCAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACT-AA-ATAGCAAGTCT
* * * * *
13323531 TATCTTCCTGAAGTTGTAGGAGGCAGACTGAAAATTTACAGATCTTATCTCCATATATCTGCTAT
64 TATCTTCCTGAAGTTGCAGGAAGCAGACT-AAAAATTACAGATCTTATCTCCATGTATCGGCTAT
13323596 GGAGC
128 GGAGC
13323601 AGATCGAAAATGTCAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAAATAGCAAGTCT
1 AGATCGAAAATGTCAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACT--AAATAGCAAGTCT
* *
13323666 TATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCTATGTATCGGCTATG
64 TATCTTCCTGAAGTTGCAGGAAGCAGACTAAAAATTACAGATCTTATCTCCATGTATCGGCTATG
13323731 GAGC
129 GAGC
* * *
13323735 AGATCGAAAATGTCAAGTCTTATCTTCCTGAAGTTGCAG-GAAGCAGACT
1 AGATCGAAAATGTCAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACT
13323784 GAAAATTTAT
Statistics
Matches: 385, Mismatches: 50, Indels: 27
0.83 0.11 0.06
Matches are distributed among these distances:
129 2 0.01
130 105 0.27
131 3 0.01
133 12 0.03
134 140 0.36
135 121 0.31
136 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (132 bp):
AGATCGAAAATGTCAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAATAGCAAGTCTTA
TCTTCCTGAAGTTGCAGGAAGCAGACTAAAAATTACAGATCTTATCTCCATGTATCGGCTATGGA
GC
Found at i:13323509 original size:45 final size:45
Alignment explanation
Indices: 13323471--13324208 Score: 378
Period size: 45 Copynumber: 16.5 Consensus size: 45
13323461 GGAGTAGATC
13323471 GAAAATGACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACT
1 GAAAATGACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACT
* * *
13323516 GAAGAT-ATCAAATCTTATCTTCCTGAAGTTGTA--GGAGGCAGACT
1 GAAAATGA-CAAGTCTTATCTCCCTGAAGTTGTAGTGGA-GCAGACT
* *
13323560 GAAAATTTAC-AGATCTTATCTCCAT-ATA-TCTGCTA-TGGAGCAGA-T
1 GAAAA-TGACAAG-TCTTATCTCCCTGA-AGT-TG-TAGTGGAGCAGACT
*
13323605 CGAAAATGTCAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACT
1 -GAAAATGACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACT
* * *
13323651 GAAAAT-AGCAAGTCTTATCTTCCTGAAGTTGCAG-GAAGCAGACT
1 GAAAATGA-CAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACT
* ** * *
13323695 GAAAATTAC-AGATCTTATCTCTATGTA-TCGGCTA-TGGAGCAGA-T
1 GAAAATGACAAG-TCTTATCTCCCTGAAGT-TG-TAGTGGAGCAGACT
* * * *
13323739 CGAAAATGTCAAGTCTTATCTTCCTGAAGTTGCAG-GAAGCAGACT
1 -GAAAATGACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACT
* * * * *
13323784 GAAAATTTA-TAGATCTTATCTCCATGTA-TCGGCTA-TGGAGCAGA-T
1 GAAAA-TGACAAG-TCTTATCTCCCTGAAGT-TG-TAGTGGAGCAGACT
*
13323829 CGAAAATGACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT
1 -GAAAATGACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACT
* * *
13323875 -AAAGAT-AGCAAGTCTTATCTTCCTGAAGTTGCAG-GAAGCAGACT
1 GAAA-ATGA-CAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACT
* * * * * *
13323919 GAAAATTAC-AGATCTTATCTCCATGTA-TCGGCTA-TAGAGTAGA-T
1 GAAAATGACAAG-TCTTATCTCCCTGAAGT-TG-TAGTGGAGCAGACT
* * * * * * *
13323963 AAAAAATGGCGAGTCCTATCTCCATGTA-TCGACTA-TGGAGCAGA-T
1 -GAAAATGACAAGTCTTATCTCCCTGAAGTTG--TAGTGGAGCAGACT
*** *** * * * *
13324008 TTCAGCCACCAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAAACT
1 GAAAATGACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACT
* * * *
13324053 -AAAGAT-ACTAAGTCTTGTCTCTCTGAAGTTGTAGTAGAGCAAACT
1 GAAA-ATGAC-AAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACT
* *
13324098 -AAAGAT-AGTAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT
1 GAAA-ATGA-CAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACT
* * * * *
13324143 GAAGAT-AGCAGGTCTTATCTTCCTGAAGTTGCAG-GAAGCAGACT
1 GAAAATGA-CAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACT
*
13324187 GAAAATTAC-AGATCTTATCTCC
1 GAAAATGACAAG-TCTTATCTCC
13324209 ATATATCAAC
Statistics
Matches: 536, Mismatches: 101, Indels: 113
0.71 0.13 0.15
Matches are distributed among these distances:
43 11 0.02
44 144 0.27
45 336 0.63
46 42 0.08
47 3 0.01
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.28
Consensus pattern (45 bp):
GAAAATGACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACT
Found at i:13323667 original size:90 final size:89
Alignment explanation
Indices: 13323505--13324303 Score: 218
Period size: 90 Copynumber: 8.9 Consensus size: 89
13323495 GAAGTTGTAG
* *
13323505 TGGAGCAGACTGAAGATATCAAATCTTATCTTCCTGAAGTTGTAGGAGGCAGACTGAAAATTTAC
1 TGGAGCAGACTGAAAATATCAAATCTTATCTCCCTGAAGTTGTAGGAGGCAGACTGAAAA-TTAC
13323570 AGATCTTATCTCCATATATCTGCTA
65 AGATCTTATCTCCATATATCTGCTA
* *
13323595 TGGAGCAGA-TCGAAAATGTCAAGTCTTATCTCCCTGAAGTTGTAGTG-GAGCAGACTGAAAA-T
1 TGGAGCAGACT-GAAAATATCAAATCTTATCTCCCTGAAGTTGTAG-GAG-GCAGACTGAAAATT
13323657 AGCA-AGTCTTATCTTCC-TGA-AGT-TGC-A
63 A-CAGA-TCTTATC-TCCAT-ATA-TCTGCTA
* ** * *
13323684 -GGAAGCAGACTGAAAAT-TACAGATCTTATCTCTATGTA-TCGGCTATGGA-GCAGA-TCGAAA
1 TGG-AGCAGACTGAAAATAT-CAAATCTTATCTCCCTGAAGT-TG-TA-GGAGGCAGACT-GAAA
13323744 ATGT-CA-AGTCTTATCTTCC-TGA-AGT-TGC-A
60 AT-TACAGA-TCTTATC-TCCAT-ATA-TCTGCTA
* * * *
13323773 -GGAAGCAGACTGAAAATTTAT-AGATCTTATCTCCATGTA-TCGGCTATGGA-GCAGA-TCGAA
1 TGG-AGCAGACTGAAAA--TATCAAATCTTATCTCCCTGAAGT-TG-TA-GGAGGCAGACT-GAA
* *
13323833 AATGACA-AGTCTTATCTCCCTGA-AGT-TGC-A
59 AATTACAGA-TCTTATCTCCAT-ATA-TCTGCTA
* * * * *
13323863 GTGGAGCAGACT-AAAGATAGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTA
1 -TGGAGCAGACTGAAA-ATATCAAATCTTATCTCCCTGAAGTTGTAGGAGGCAGACTGAAAATTA
* *
13323927 CAGATCTTATCTCCATGTATCGGCTA
64 CAGATCTTATCTCCATATATCTGCTA
* * * * * * * * * *** *
13323953 TAGAGTAGA-T-AAAAAATGGCGAGTCCTATCTCCATGTA-TCGACTATGGA-GCAGA-TTTCAG
1 TGGAGCAGACTGAAAATAT--CAAATCTTATCTCCCTGAAGTTG--TA-GGAGGCAGACTGAAAA
** * *
13324013 CCACCAG-CCTTATCTCCCTGA-AGT-TGC-A
61 TTA-CAGATCTTATCTCCAT-ATA-TCTGCTA
* * * * * *
13324041 GTGGAGCAAACT-AAAGATA-CTAAGTCTTGTCTCTCTGAAGTTGTAGTAGAGCAAACT-AAAGA
1 -TGGAGCAGACTGAAA-ATATC-AAATCTTATCTCCCTGAAGTTGTAGGAG-GCAGACTGAAA-A
*
13324103 TAGTA-AG-TCTTATCTCCCTGA-AGT-TGC-A
61 T--TACAGATCTTATCTCCAT-ATA-TCTGCTA
* * ** * * *
13324131 GTGGAGCAGACTGAAGATAGCAGGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTAC
1 -TGGAGCAGACTGAAAATATCAAATCTTATCTCCCTGAAGTTGTAGGAGGCAGACTGAAAATTAC
**
13324196 AGATCTTATCTCCATATATCAACTA
65 AGATCTTATCTCCATATATCTGCTA
* * ** * * * * *
13324221 TGGAGTAGATCT-CAGTTA-CTAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTAC
1 TGGAGCAGA-CTGAAAATATCAAATCTTATCTCCCTGAAGTTGTAGGAGGCAGACTGAAAATTAC
*
13324284 AGATCTTATCTCCATGTATC
65 AGATCTTATCTCCATATATC
13324304 GACAATGGAA
Statistics
Matches: 564, Mismatches: 83, Indels: 126
0.73 0.11 0.16
Matches are distributed among these distances:
87 6 0.01
88 85 0.15
89 210 0.37
90 220 0.39
91 39 0.07
92 4 0.01
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.29
Consensus pattern (89 bp):
TGGAGCAGACTGAAAATATCAAATCTTATCTCCCTGAAGTTGTAGGAGGCAGACTGAAAATTACA
GATCTTATCTCCATATATCTGCTA
Found at i:13323758 original size:224 final size:225
Alignment explanation
Indices: 13323505--13323962 Score: 769
Period size: 224 Copynumber: 2.0 Consensus size: 225
13323495 GAAGTTGTAG
* * *
13323505 TGGAGCAGA-CTGAAGATATCAAATCTTATCTTCCTGAAGTTGTAGGAGGCAGACTGAAAATTTA
1 TGGAGCAGATCTGAAAATATCAAATCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTTA
* *
13323569 CAGATCTTATCTCCATATATCTGCTATGGAGCAGATCGAAAATGTCAAGTCTTATCTCCCTGAAG
66 CAGATCTTATCTCCATATATCGGCTATGGAGCAGATCGAAAATGACAAGTCTTATCTCCCTGAAG
*
13323634 TTGTAGTGGAGCAGACTGAAA-ATAGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAA
131 TTGCAGTGGAGCAGACT-AAAGATAGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAA
*
13323698 AATTACAGATCTTATCTCTATGTATCGGCTA
195 AATTACAGATCTTATCTCCATGTATCGGCTA
* *
13323729 TGGAGCAGATC-GAAAATGTCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTTA
1 TGGAGCAGATCTGAAAATATCAAATCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTTA
* *
13323793 TAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGACAAGTCTTATCTCCCTGAAG
66 CAGATCTTATCTCCATATATCGGCTATGGAGCAGATCGAAAATGACAAGTCTTATCTCCCTGAAG
13323858 TTGCAGTGGAGCAGACTAAAGATAGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAA
131 TTGCAGTGGAGCAGACTAAAGATAGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAA
13323923 ATTACAGATCTTATCTCCATGTATCGGCTA
196 ATTACAGATCTTATCTCCATGTATCGGCTA
* *
13323953 TAGAGTAGAT
1 TGGAGCAGAT
13323963 AAAAAATGGC
Statistics
Matches: 219, Mismatches: 13, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
223 3 0.01
224 215 0.98
225 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.29
Consensus pattern (225 bp):
TGGAGCAGATCTGAAAATATCAAATCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTTA
CAGATCTTATCTCCATATATCGGCTATGGAGCAGATCGAAAATGACAAGTCTTATCTCCCTGAAG
TTGCAGTGGAGCAGACTAAAGATAGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAA
ATTACAGATCTTATCTCCATGTATCGGCTA
Found at i:13324141 original size:224 final size:224
Alignment explanation
Indices: 13323531--13324162 Score: 669
Period size: 224 Copynumber: 2.8 Consensus size: 224
13323521 TATCAAATCT
* * * *** * *
13323531 TATCTTCCTGAAGTTGTAGGAGGCAGACTGAAAATTTACAGATCTTATCTCCAT-ATATCTGCTA
1 TATCTTCCTGAAGTCGCAGGAAGCAGACTGAAAAGCCACAGACCTTATCTCCATGA-ATCGGCTA
* *
13323595 TGGAGCAGATCGAAAATGTCAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAA-ATAG
65 TGGAGCAGAACGAAAATGACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACT-AAAGATAG
*
13323659 CAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCTATGTATC
129 CAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATC
* ** * *
13323724 GGCTATGGAGCAGATCGAAAATGTCAAGTCT
194 GGCTATAGAGCAGATAAAAAATGGCAAGTCC
* *** * * *
13323755 TATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTTATAGATCTTATCTCCATGTATCGGCTAT
1 TATCTTCCTGAAGTCGCAGGAAGCAGACTGAAAAGCCACAGACCTTATCTCCATGAATCGGCTAT
* *
13323820 GGAGCAGATCGAAAATGACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCA
66 GGAGCAGAACGAAAATGACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAAGATAGCA
13323885 AGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGG
131 AGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGG
* *
13323950 CTATAGAGTAGATAAAAAATGGCGAGTCC
196 CTATAGAGCAGATAAAAAATGGCAAGTCC
* *** *
13323979 TATC-TCCATGTA-TCGACTATGG-AGCAGA-T-TTCAGCCACCAG-CCTTATCTCCCTGAAGT-
1 TATCTTCC-TGAAGTCG-C-A-GGAAGCAGACTGAAAAGCCA-CAGACCTTATCTCCATGAA-TC
* * * * * *
13324037 TGC-AGTGGAGCA-AACTAAAGAT-ACTAAGTCTTGTCTCTCTGAAGTTGTAGTAGAGCAAACTA
60 GGCTA-TGGAGCAGAACGAAA-ATGAC-AAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTA
* * * * *
13324099 AAGATAGTAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGA-TAGCAGGTCTTATCT
122 AAGATAGCAAGTCTTATCTTCCTGAAGTTGCAG-GAAGCAGACTGAAAATTA-CAGATCTTATCT
13324163 TCCTGAAGTT
Statistics
Matches: 355, Mismatches: 40, Indels: 26
0.84 0.10 0.06
Matches are distributed among these distances:
222 8 0.02
223 98 0.28
224 240 0.68
225 7 0.02
226 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (224 bp):
TATCTTCCTGAAGTCGCAGGAAGCAGACTGAAAAGCCACAGACCTTATCTCCATGAATCGGCTAT
GGAGCAGAACGAAAATGACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAAGATAGCA
AGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGG
CTATAGAGCAGATAAAAAATGGCAAGTCC
Found at i:13324203 original size:44 final size:44
Alignment explanation
Indices: 13324110--13324294 Score: 152
Period size: 44 Copynumber: 4.2 Consensus size: 44
13324100 AGATAGTAAG
* * * *
13324110 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGA-TAGCAGG
1 TCTTATCTTCCTGAAGTTGCAG-GAAGCAGACTGAAAATTA-CAGA
13324155 TCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGA
1 TCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGA
** * * *
13324199 TCTTATC-TCCAT-ATA-TCAACTATGG-AGTAGATCT--CAGTTACTAG-
1 TCTTATCTTCC-TGA-AGT-TGC-A-GGAAGCAGA-CTGAAAATTAC-AGA
13324243 TCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGA
1 TCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGA
13324287 TCTTATCT
1 TCTTATCT
13324295 CCATGTATCG
Statistics
Matches: 111, Mismatches: 14, Indels: 31
0.71 0.09 0.20
Matches are distributed among these distances:
42 4 0.04
43 13 0.12
44 54 0.49
45 36 0.32
46 4 0.04
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.30
Consensus pattern (44 bp):
TCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGA
Found at i:13324208 original size:223 final size:223
Alignment explanation
Indices: 13323615--13324264 Score: 512
Period size: 224 Copynumber: 2.9 Consensus size: 223
13323605 CGAAAATGTC
* * * *
13323615 AAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAA-ATAGCAAGTCTTATCTTCCTGAAG
1 AAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAAACT-AAAGATAGCAAGTCTTATCTCCCTGAAG
* * **
13323679 TTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCTATGTATCGGCTATG-GAGCAGATCGAA
65 TTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGAATCGGCTA-GAGAGCAGATAAAA
* * * ** * ** ** *
13323743 AATGTCAAGTCTTATCTTCC-TGA-AGT-TGC-A-GGAAGCAGA-CTGA-AAATTTATAGATCTT
129 AATGACGAGTCCTATC-TCCAT-ATA-TCAACTATGG-AGCAGATCTCAGCCA---CCAG-CCTT
* * * * *
13323801 ATCTCCATGTA-TCGGCTA-TGGAGCAGATCGAAA-ATGAC-
186 ATCTCCCTGAAGT-TGC-AGTGGAGCA-AACTAAAGAT-ACT
* * *
13323839 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAGTCTTATCTTCCTGAAGT
1 AAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAAACTAAAGATAGCAAGTCTTATCTCCCTGAAGT
* * *
13323904 TGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATAGAGTAGATAAAAAA
66 TGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGAATCGGCTAGAGAGCAGATAAAAAA
* * * *
13323969 TGGCGAGTCCTATCTCCATGTATCGACTATGGAGCAGATTTCAGCCACCAGCCTTATCTCCCTGA
131 TGACGAGTCCTATCTCCATATATCAACTATGGAGCAGATCTCAGCCACCAGCCTTATCTCCCTGA
13324034 AGTTGCAGTGGAGCAAACTAAAGATACT
196 AGTTGCAGTGGAGCAAACTAAAGATACT
* * * *
13324062 AAGTCTTGTCTCTCTGAAGTTGTAGTAGAGCAAACTAAAGATAGTAAGTCTTATCTCCCTGAAGT
1 AAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAAACTAAAGATAGCAAGTCTTATCTCCCTGAAGT
* * * *
13324127 TGCAGTGGAGCAGACTGAAGA-TAGCAGGTCTTATCTTCC-TGAAGT-TGC-AG-GAAGCAGACT
66 TGCAG-GAAGCAGACTGAAAATTA-CAGATCTTATC-TCCATGAA-TCGGCTAGAG-AGCAGA-T
* * * * ** * *
13324187 -GAAAATTAC-AGATCTTATCTCCATATATCAACTATGGAGTAGATCTCAGTTACTAGTCTTATC
125 AAAAAATGACGAG-TCCTATCTCCATATATCAACTATGGAGCAGATCTCAGCCACCAGCCTTATC
*
13324250 TTCCTGAAGTTGCAG
189 TCCCTGAAGTTGCAG
13324265 GAAGCAGACT
Statistics
Matches: 355, Mismatches: 51, Indels: 41
0.79 0.11 0.09
Matches are distributed among these distances:
222 11 0.03
223 163 0.46
224 165 0.46
225 11 0.03
226 4 0.01
227 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.28
Consensus pattern (223 bp):
AAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAAACTAAAGATAGCAAGTCTTATCTCCCTGAAGT
TGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGAATCGGCTAGAGAGCAGATAAAAAA
TGACGAGTCCTATCTCCATATATCAACTATGGAGCAGATCTCAGCCACCAGCCTTATCTCCCTGA
AGTTGCAGTGGAGCAAACTAAAGATACT
Found at i:13324319 original size:88 final size:88
Alignment explanation
Indices: 13324154--13324319 Score: 287
Period size: 88 Copynumber: 1.9 Consensus size: 88
13324144 AAGATAGCAG
13324154 GTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATATATCAAC
1 GTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATATATCAAC
* **
13324219 TATGGAGTAGATCTCAGTTACTA
66 AATGGAACAGATCTCAGTTACTA
* *
13324242 GTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGAC
1 GTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATATATCAAC
13324307 AATGGAACAGATC
66 AATGGAACAGATC
13324320 AGAAATGACG
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 73 1.00
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (88 bp):
GTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATATATCAAC
AATGGAACAGATCTCAGTTACTA
Found at i:13325275 original size:20 final size:21
Alignment explanation
Indices: 13325250--13325292 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
13325240 AAAACAATAG
13325250 AAAAATGAGT-TTTTCAAAAA
1 AAAAATGAGTCTTTTCAAAAA
* *
13325270 AAAAATGGGTCTTTTTAAAAA
1 AAAAATGAGTCTTTTCAAAAA
13325291 AA
1 AA
13325293 TGGCAGAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.53, C:0.05, G:0.12, T:0.30
Consensus pattern (21 bp):
AAAAATGAGTCTTTTCAAAAA
Found at i:13326861 original size:127 final size:125
Alignment explanation
Indices: 13326604--13326925 Score: 378
Period size: 127 Copynumber: 2.6 Consensus size: 125
13326594 TTCGAGGGGT
* * * * * * * *
13326604 CGTGCCCGATCGTGCTGGGTTTCGATTTTTCGTTC-AGCTAAAATACAAAATATCCTTTGGAAAT
1 CGTGCCCAATCGTGCTAGGCTTCAATTTTCCATTCGA-CTAAAATACAGAATATCCTTTTGAAAT
** ** * * * *
13326668 TTTGTCCATGTTTTTTTTAAATTAAAACGAGGCAATACTTCATGTTTGGAAGTTTGGGAGGC
65 TTCATCCA-CATGTTCTTAAAATAAAACGAGGCAATACTTCATGTTTGGAAGTTTGGGAAGC
* *
13326730 CGTGCCCAATCGTGCTAGGCTTCAATTTTCTATTCGACTAAAATA-TGAAATATCCTTTTTTGAA
1 CGTGCCCAATCGTGCTAGGCTTCAATTTTCCATTCGACTAAAATACAG-AATATCC--TTTTGAA
* * *
13326794 ATTTCATCCACATGTTCTTAAAATAAAACGAGGCAATATTTCGTGTTTGGAAGTTTGGGAAGT
63 ATTTCATCCACATGTTCTTAAAATAAAACGAGGCAATACTTCATGTTTGGAAGTTTGGGAAGC
* *
13326857 CGTGCCCAATTGTGCTGGGCTTCAATTTTCCATTCGACTAAAATACAGAATATCCTTTTGAAATT
1 CGTGCCCAATCGTGCTAGGCTTCAATTTTCCATTCGACTAAAATACAGAATATCCTTTTGAAATT
13326922 TCAT
66 TCAT
13326926 ACGTGTTTTC
Statistics
Matches: 166, Mismatches: 25, Indels: 11
0.82 0.12 0.05
Matches are distributed among these distances:
125 14 0.08
126 43 0.26
127 94 0.57
128 15 0.09
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (125 bp):
CGTGCCCAATCGTGCTAGGCTTCAATTTTCCATTCGACTAAAATACAGAATATCCTTTTGAAATT
TCATCCACATGTTCTTAAAATAAAACGAGGCAATACTTCATGTTTGGAAGTTTGGGAAGC
Found at i:13343018 original size:5 final size:6
Alignment explanation
Indices: 13343000--13343025 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
13342990 AATATTTAAA
13343000 TTATTT TTATTT TTATTT TTATTT TT
1 TTATTT TTATTT TTATTT TTATTT TT
13343026 CAATCATGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTATTT
Found at i:13343721 original size:26 final size:24
Alignment explanation
Indices: 13343690--13343738 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
13343680 AATAAAAAAT
*
13343690 TTTAAAAATATAATAAATCAAATATA
1 TTTAAAAACATAA-AAAT-AAATATA
13343716 TTTAAAAACATAAAAATAAATAT
1 TTTAAAAACATAAAAATAAATAT
13343739 TAAAACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.27
25 4 0.18
26 12 0.55
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (24 bp):
TTTAAAAACATAAAAATAAATATA
Found at i:13343750 original size:22 final size:20
Alignment explanation
Indices: 13343709--13343757 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 20
13343699 ATAATAAATC
* *
13343709 AAATATATTTAAAAACATAA
1 AAATAAATTTAAAAAAATAA
13343729 AAATAAATATTAAAACAAATAA
1 AAATAAAT-TTAAAA-AAATAA
13343751 AAATAAA
1 AAATAAA
13343758 CTAAAACAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 7 0.28
21 6 0.24
22 12 0.48
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.24
Consensus pattern (20 bp):
AAATAAATTTAAAAAAATAA
Found at i:13348878 original size:20 final size:20
Alignment explanation
Indices: 13348853--13348892 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
13348843 TTCTTGTCTC
*
13348853 ACTTAACAGATATTATTTAT
1 ACTTAACAGAGATTATTTAT
* *
13348873 ACTTAATATAGATTATTTAT
1 ACTTAACAGAGATTATTTAT
13348893 TACGTGGGTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.47
Consensus pattern (20 bp):
ACTTAACAGAGATTATTTAT
Found at i:13351444 original size:22 final size:23
Alignment explanation
Indices: 13351419--13351472 Score: 83
Period size: 25 Copynumber: 2.3 Consensus size: 23
13351409 TTGGTCAGAC
13351419 ATTTAA-ATGATGCAGTTCATCA
1 ATTTAATATGATGCAGTTCATCA
13351441 ATTTAATTTATGATGCAGTTCATCA
1 ATTTAA--TATGATGCAGTTCATCA
13351466 ATTTAAT
1 ATTTAAT
13351473 TTATGATCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
22 6 0.21
23 1 0.03
25 22 0.76
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.43
Consensus pattern (23 bp):
ATTTAATATGATGCAGTTCATCA
Found at i:13351455 original size:25 final size:25
Alignment explanation
Indices: 13351425--13351479 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
13351415 AGACATTTAA
13351425 ATGATGCAGTTCATCAATTTAATTT
1 ATGATGCAGTTCATCAATTTAATTT
13351450 ATGATGCAGTTCATCAATTTAATTT
1 ATGATGCAGTTCATCAATTTAATTT
13351475 ATGAT
1 ATGAT
13351480 CTTCATCAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.44
Consensus pattern (25 bp):
ATGATGCAGTTCATCAATTTAATTT
Found at i:13351487 original size:22 final size:24
Alignment explanation
Indices: 13351425--13351487 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 24
13351415 AGACATTTAA
13351425 ATGATGCAGTTCATCAATTTAATTT
1 ATGATGCA-TTCATCAATTTAATTT
13351450 ATGATGCAGTTCATCAATTTAATTT
1 ATGATGCA-TTCATCAATTTAATTT
13351475 ATGAT-C-TTCATCA
1 ATGATGCATTCATCA
13351488 GAAAATGGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
22 7 0.18
24 1 0.03
25 30 0.79
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (24 bp):
ATGATGCATTCATCAATTTAATTT
Found at i:13354157 original size:13 final size:13
Alignment explanation
Indices: 13354139--13354163 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13354129 AAAACCCACA
13354139 TTTTAAATAAGAT
1 TTTTAAATAAGAT
13354152 TTTTAAATAAGA
1 TTTTAAATAAGA
13354164 CTTACTGTAA
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:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (13 bp):
TTTTAAATAAGAT
Found at i:13354896 original size:57 final size:57
Alignment explanation
Indices: 13354831--13354946 Score: 182
Period size: 57 Copynumber: 2.0 Consensus size: 57
13354821 ATAAATTTAA
**
13354831 TTCTCTAATATTTATAAATTCTA-CTAATTT-GATTTTAATTCTAAAAAATAAATAAAT
1 TTCTCTAATATTTATAAATTCTATC-AATTTAG-TCCTAATTCTAAAAAATAAATAAAT
13354888 TTCTCTAATATTTATAAATTCTATCAATTTAGTCCTAATTCTAAAAAATAAATAAAT
1 TTCTCTAATATTTATAAATTCTATCAATTTAGTCCTAATTCTAAAAAATAAATAAAT
13354945 TT
1 TT
13354947 AACCCTCAAC
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
57 53 0.96
58 2 0.04
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.45
Consensus pattern (57 bp):
TTCTCTAATATTTATAAATTCTATCAATTTAGTCCTAATTCTAAAAAATAAATAAAT
Found at i:13354946 original size:29 final size:28
Alignment explanation
Indices: 13354866--13354947 Score: 76
Period size: 29 Copynumber: 2.9 Consensus size: 28
13354856 AATTTGATTT
13354866 TAATTCTAAAAAATAAATAAATTT-CTC
1 TAATTCTAAAAAATAAATAAATTTACTC
* * * ** * *
13354893 TAATATTTATAAATTCTATCAATTTAGTCC
1 TAAT-TCTAAAAAATAAATAAATTTACT-C
13354923 TAATTCTAAAAAATAAATAAATTTA
1 TAATTCTAAAAAATAAATAAATTTA
13354948 ACCCTCAACG
Statistics
Matches: 39, Mismatches: 13, Indels: 4
0.70 0.23 0.07
Matches are distributed among these distances:
27 4 0.10
28 14 0.36
29 16 0.41
30 5 0.13
ACGTcount: A:0.49, C:0.10, G:0.01, T:0.40
Consensus pattern (28 bp):
TAATTCTAAAAAATAAATAAATTTACTC
Found at i:13358746 original size:20 final size:19
Alignment explanation
Indices: 13358723--13358769 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
13358713 TATTTCTTAA
13358723 AATTAAAACTCAATTCTACC
1 AATTAAAACTCAATTC-ACC
* *
13358743 AATTCAAAACTCCATTCAGC
1 AATT-AAAACTCAATTCACC
13358763 AATTAAA
1 AATTAAA
13358770 CATGAATTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 3 0.12
20 10 0.42
21 11 0.46
ACGTcount: A:0.47, C:0.23, G:0.02, T:0.28
Consensus pattern (19 bp):
AATTAAAACTCAATTCACC
Found at i:13371636 original size:5 final size:5
Alignment explanation
Indices: 13371626--13371653 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
13371616 AATGAGATAG
13371626 ATATA ATATA ATATA ATATA ATATA ATA
1 ATATA ATATA ATATA ATATA ATATA ATA
13371654 AATTAAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:13371822 original size:20 final size:21
Alignment explanation
Indices: 13371786--13371830 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
13371776 AGCTTAAATT
* *
13371786 AAAT-GAATCAAAGTTGTTAC
1 AAATGGAATCAAAATTGTTAA
13371806 AAATGGAAT-AAAATTGTTAA
1 AAATGGAATCAAAATTGTTAA
13371826 AAATG
1 AAATG
13371831 TCAATGTAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.51, C:0.04, G:0.16, T:0.29
Consensus pattern (21 bp):
AAATGGAATCAAAATTGTTAA
Found at i:13377105 original size:7 final size:7
Alignment explanation
Indices: 13377095--13377127 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
13377085 AACAAGTTAC
13377095 AGCAACT
1 AGCAACT
13377102 AGCAACT
1 AGCAACT
13377109 AGCAACT
1 AGCAACT
13377116 AGCAACT
1 AGCAACT
13377123 AGCAA
1 AGCAA
13377128 TTAGTTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.45, C:0.27, G:0.15, T:0.12
Consensus pattern (7 bp):
AGCAACT
Found at i:13377930 original size:21 final size:21
Alignment explanation
Indices: 13377906--13377948 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
13377896 AAAATGATCA
13377906 TCTAACTATTTAATTTTATCT
1 TCTAACTATTTAATTTTATCT
13377927 TCTAACTATTTAATTTTATCT
1 TCTAACTATTTAATTTTATCT
13377948 T
1 T
13377949 TTTTGGTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.14, G:0.00, T:0.58
Consensus pattern (21 bp):
TCTAACTATTTAATTTTATCT
Found at i:13378842 original size:28 final size:28
Alignment explanation
Indices: 13378805--13378877 Score: 121
Period size: 27 Copynumber: 2.6 Consensus size: 28
13378795 ATAAAAAATC
13378805 AAAAAAATATTTTTTTATGAAATTTTAT
1 AAAAAAATATTTTTTTATGAAATTTTAT
13378833 AAAAAAATA-TTTTTTATGAAATTTTAT
1 AAAAAAATATTTTTTTATGAAATTTTAT
13378860 AAAAAAATAATTTCTTTT
1 AAAAAAAT-ATTT-TTTT
13378878 TTTATAAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
27 26 0.62
28 10 0.24
29 2 0.05
30 4 0.10
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (28 bp):
AAAAAAATATTTTTTTATGAAATTTTAT
Found at i:13379010 original size:40 final size:41
Alignment explanation
Indices: 13378964--13379053 Score: 103
Period size: 40 Copynumber: 2.2 Consensus size: 41
13378954 TAAATTACTT
* * *
13378964 TTATAAAATTCTATG-ATTTTTAATTAATTTCTAATAATTA
1 TTATAAAATTCTAAGAAATTTTAATGAATTTCTAATAATTA
* * * *
13379004 TTAT-AAATTTTAAGAAATTTTAATGATTTTCTTATAATTT
1 TTATAAAATTCTAAGAAATTTTAATGAATTTCTAATAATTA
13379044 TTATAAAATT
1 TTATAAAATT
13379054 TTTATACTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
39 8 0.20
40 28 0.68
41 5 0.12
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.53
Consensus pattern (41 bp):
TTATAAAATTCTAAGAAATTTTAATGAATTTCTAATAATTA
Found at i:13384647 original size:47 final size:47
Alignment explanation
Indices: 13384595--13385045 Score: 735
Period size: 47 Copynumber: 9.6 Consensus size: 47
13384585 GATAATTGTG
* *
13384595 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
13384642 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
13384689 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
13384736 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
13384785 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
13384832 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
13384879 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
13384928 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAG-CGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
13384974 ATGTGAAAGTGTATATATGTGA-CAGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
13385020 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
13385046 TCCCGAAGGG
Statistics
Matches: 380, Mismatches: 18, Indels: 12
0.93 0.04 0.03
Matches are distributed among these distances:
45 8 0.02
46 62 0.16
47 218 0.57
49 92 0.24
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:13384702 original size:96 final size:94
Alignment explanation
Indices: 13384595--13385045 Score: 735
Period size: 96 Copynumber: 4.8 Consensus size: 94
13384585 GATAATTGTG
* *
13384595 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
13384660 GTGATAAGGCCTAATGGCCGATGTGATGA
66 GTGATAAGGCCTAATGGCCGATGTGATGA
* *
13384689 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
13384754 ATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
*
13384785 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
13384850 GTGATAAGGCCTAATGGCCGATGTGATGA
66 GTGATAAGGCCTAATGGCCGATGTGATGA
13384879 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
13384944 ATGTGATAAGGCCTAATAG-CGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
13384974 ATGTGAAAGTGTATATATGTGA-CAGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
13385038 GTGATAAG
66 GTGATAAG
13385046 TCCCGAAGGG
Statistics
Matches: 337, Mismatches: 16, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
92 43 0.13
93 11 0.03
94 101 0.30
95 22 0.07
96 160 0.47
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (94 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:13384758 original size:143 final size:143
Alignment explanation
Indices: 13384595--13385045 Score: 797
Period size: 143 Copynumber: 3.2 Consensus size: 143
13384585 GATAATTGTG
13384595 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
13384658 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
66 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
13384723 GCCAATGTGATGA
131 GCCAATGTGATGA
13384736 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
13384801 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
66 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
*
13384866 GCCGATGTGATGA
131 GCCAATGTGATGA
13384879 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* *
13384944 ATGTGATAAGGCCTAATAG-CGATGTGATGAATGTGAAAGTGTATATATGTGA-CAGGCCGAGTG
66 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
* *
13385007 GCCAACGTGATGG
131 GCCAATGTGATGA
13385020 ATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
13385046 TCCCGAAGGG
Statistics
Matches: 299, Mismatches: 9, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
139 10 0.03
140 1 0.00
141 38 0.13
142 35 0.12
143 215 0.72
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (143 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
GCCAATGTGATGA
Found at i:13387360 original size:40 final size:40
Alignment explanation
Indices: 13387297--13388093 Score: 1130
Period size: 40 Copynumber: 20.4 Consensus size: 40
13387287 AGGTCTCGAC
*
13387297 GATG-ATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
13387336 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
13387376 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
13387416 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
13387456 GATGTACCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
13387496 GATGTACCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
13387536 GATGTACCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
13387576 GATGTACCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
13387616 GATGTACCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
13387656 GATGTACCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
13387696 GATGTACCCGGGCTAAGTCCCGAAGAGCATTCGTGCTA--
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
13387734 G-TG-AT----G-T-A-TCCCGAAGAGCA-TCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
13387764 GATGTACCCGGGCTAAGT-CCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
13387803 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
13387843 GATG--TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
13387881 GATGTACCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
13387921 GATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
13387961 GATGTATCCGGACTAAGTTCCG-AGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * ** *
13388000 GATATATCCGTGCTAAACCCCGAAGAGCATT--TGCCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTG-CTAGT
* * * * *
13388039 GTTATATCCGGGCTAGGT-CCGAAGAGCAATCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
13388078 GACGTGTATTCGGGCT
1 GA--TGTATCCGGGCT
13388094 TCGTGCCTAG
Statistics
Matches: 702, Mismatches: 34, Indels: 42
0.90 0.04 0.05
Matches are distributed among these distances:
28 7 0.01
29 12 0.02
30 2 0.00
31 3 0.00
32 2 0.00
36 2 0.00
37 3 0.00
38 63 0.09
39 87 0.12
40 511 0.73
41 10 0.01
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
Found at i:13387769 original size:28 final size:29
Alignment explanation
Indices: 13387713--13387773 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 29
13387703 CCGGGCTAAG
*
13387713 TCCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCCGAAGAGCATTCATGCTAGTGATGTA
13387742 TCCCGAAGAGCA-TCATGCTAGTGATGTA
1 TCCCGAAGAGCATTCATGCTAGTGATGTA
13387770 -CCCG
1 TCCCG
13387774 GGCTAAGTCC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 4 0.13
28 15 0.48
29 12 0.39
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.25
Consensus pattern (29 bp):
TCCCGAAGAGCATTCATGCTAGTGATGTA
Found at i:13387871 original size:78 final size:78
Alignment explanation
Indices: 13387742--13388079 Score: 427
Period size: 78 Copynumber: 4.3 Consensus size: 78
13387732 TAGTGATGTA
13387742 TCCCGAAGAGCA-TCATGCTAGTGATGTACCCGGGCTAAGT-CCGAAGAGCATTCATGCTAGTGA
1 TCCCGAAGAGCATTCATGCTAGTGATGT--CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
13387805 TGTATCCGGGCTAAG
64 TGTATCCGGGCTAAG
13387820 TCCCGAAGAGCATTCATGCTAGTGATGTCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATG
1 TCCCGAAGAGCATTCATGCTAGTGATGTCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATG
*
13387885 TACCCGGGCTAAG
66 TATCCGGGCTAAG
* * *
13387898 TCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGA
1 TCCCGAAGAGCATTCATGCTAGTGATG--TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
*
13387963 TGTATCCGGACTAAG
64 TGTATCCGGGCTAAG
* * * * ** *
13387978 TTCCG-AGAGCATTCGTGCTAGTGATATATCCGTGCTAAACCCCGAAGAGCATT--TGCCTGGTG
1 TCCCGAAGAGCATTCATGCTAGTG--ATGTCCGGGCTAAGTCCCGAAGAGCATTCATG-CTAGTG
* * *
13388040 TTATATCCGGGCTAGG
63 ATGTATCCGGGCTAAG
*
13388056 T-CCGAAGAGCAATCATGCTAGTGA
1 TCCCGAAGAGCATTCATGCTAGTGA
13388080 CGTGTATTCG
Statistics
Matches: 233, Mismatches: 19, Indels: 18
0.86 0.07 0.07
Matches are distributed among these distances:
76 1 0.00
77 16 0.07
78 109 0.47
79 54 0.23
80 51 0.22
81 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (78 bp):
TCCCGAAGAGCATTCATGCTAGTGATGTCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATG
TATCCGGGCTAAG
Found at i:13387923 original size:225 final size:228
Alignment explanation
Indices: 13387515--13387969 Score: 817
Period size: 225 Copynumber: 2.0 Consensus size: 228
13387505 GGGCTAAGTT
* *
13387515 CCGAAGAGCATTCGTGCTAGTGATGTACCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
1 CCGAAGAGCATTCATGCTAGTGATGTACCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATG
*
13387580 TACCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTACCCGGGCTAAGTCCCGAAGAGCA
66 TACCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA-CCGGGCTAAGTCCCGAAGAGCA
*
13387645 TTCGTGCTAGTGATGTACCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTACCCGGGCT
130 TTCATGCTAGTGATGTACCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTACCCGGGCT
13387710 AAGTCCCGAAGAGCATTCGTGCTAGTGATGTATC
195 AAGTCCCGAAGAGCATTCGTGCTAGTGATGTATC
13387744 CCGAAGAGCA-TCATGCTAGTGATGTACCCGGGCTAAG-TCCGAAGAGCATTCATGCTAGTGATG
1 CCGAAGAGCATTCATGCTAGTGATGTACCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATG
*
13387807 TATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT-CCGGGCTAAGTCCCGAAGAGCAT
66 TACCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTACCGGGCTAAGTCCCGAAGAGCAT
*
13387871 TCATGCTAGTGATGTACCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTA
131 TCATGCTAGTGATGTACCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTACCCGGGCTA
*
13387936 AGTCTCGAAGAGCATTCGTGCTAGTGATGTATC
196 AGTCCCGAAGAGCATTCGTGCTAGTGATGTATC
13387969 C
1 C
13387970 GGACTAAGTT
Statistics
Matches: 219, Mismatches: 7, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
225 119 0.54
227 64 0.29
228 26 0.12
229 10 0.05
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.24
Consensus pattern (228 bp):
CCGAAGAGCATTCATGCTAGTGATGTACCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATG
TACCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTACCGGGCTAAGTCCCGAAGAGCAT
TCATGCTAGTGATGTACCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTACCCGGGCTA
AGTCCCGAAGAGCATTCGTGCTAGTGATGTATC
Found at i:13391552 original size:47 final size:47
Alignment explanation
Indices: 13391500--13391951 Score: 735
Period size: 47 Copynumber: 9.6 Consensus size: 47
13391490 GATAATTGTG
* *
13391500 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
13391547 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
13391594 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCC-ATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
13391640 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
13391689 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
13391736 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
13391783 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
13391832 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
13391879 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
13391926 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
13391952 TCCCGAAGGG
Statistics
Matches: 380, Mismatches: 20, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
46 20 0.05
47 269 0.71
48 25 0.07
49 66 0.17
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Done.