Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 118 of 163
Found at i:38105470 original size:76 final size:76
Alignment explanation
Indices: 38105332--38105509 Score: 243
Period size: 76 Copynumber: 2.3 Consensus size: 76
38105322 ACCGTTAGAG
* *
38105332 TTTGCGCCCAGCGCTAGTCGGATAAACCGAAGAATGTATTTAGTGAACGCAGCTCTAATTGGATA
1 TTTGCACCCAGCGCTAGTTGGATAAACCGAAGAATGTATTTAGTGAACGCAGCTCTAATTGGATA
38105397 AACCAACGATA
66 AACCAACGATA
* * * * *
38105408 TTTGCACCTAGCGCTAGTTGGATGAACC-AACGAATGTATTTAGTGAGC-CAAGCTTTAGTTGGA
1 TTTGCACCCAGCGCTAGTTGGATAAACCGAA-GAATGTATTTAGTGAACGC-AGCTCTAATTGGA
38105471 TAAACCAACGATA
64 TAAACCAACGATA
**
38105484 TTTGCACCCAATGCTAGTTGGATAAA
1 TTTGCACCCAGCGCTAGTTGGATAAA
38105510 TTGACGAATG
Statistics
Matches: 89, Mismatches: 11, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
75 3 0.03
76 86 0.97
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (76 bp):
TTTGCACCCAGCGCTAGTTGGATAAACCGAAGAATGTATTTAGTGAACGCAGCTCTAATTGGATA
AACCAACGATA
Found at i:38108435 original size:29 final size:29
Alignment explanation
Indices: 38108393--38108451 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
38108383 TCTCTGAGTG
38108393 TACTGTTGGTTATATTCACTGGAAGGAAT
1 TACTGTTGGTTATATTCACTGGAAGGAAT
38108422 TACTGTTGGTTATATTCACTGGAAGGAAT
1 TACTGTTGGTTATATTCACTGGAAGGAAT
38108451 T
1 T
38108452 TCATCACCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.27, C:0.10, G:0.24, T:0.39
Consensus pattern (29 bp):
TACTGTTGGTTATATTCACTGGAAGGAAT
Found at i:38110688 original size:3 final size:3
Alignment explanation
Indices: 38110682--38110726 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
38110672 TTCTCCTCCC
38110682 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
38110727 ACCTAAACTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:38118312 original size:33 final size:33
Alignment explanation
Indices: 38118266--38118328 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
38118256 TCACAGGTCG
38118266 TGTGTCAGCCCGTGTGAAAACTACACCTATACT
1 TGTGTCAGCCCGTGTGAAAACTACACCTATACT
* *
38118299 TGTGTCAGTCCGTGTGGAAACTACACCTAT
1 TGTGTCAGCCCGTGTGAAAACTACACCTAT
38118329 CTATTTTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (33 bp):
TGTGTCAGCCCGTGTGAAAACTACACCTATACT
Found at i:38123028 original size:26 final size:27
Alignment explanation
Indices: 38122985--38123050 Score: 91
Period size: 29 Copynumber: 2.4 Consensus size: 27
38122975 TCAAAAGGTG
38122985 TTTTTTTTCTTTCTTTTAC-TCTTTTA
1 TTTTTTTTCTTTCTTTTACTTCTTTTA
38123011 TTTTTTTTCTGTTC-TTTACTTTTCTTTTA
1 TTTTTTTTCT-TTCTTTTAC--TTCTTTTA
38123040 TTTTTTTTCTT
1 TTTTTTTTCTT
38123051 GCATCTCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
26 15 0.42
27 3 0.08
28 1 0.03
29 17 0.47
ACGTcount: A:0.06, C:0.14, G:0.02, T:0.79
Consensus pattern (27 bp):
TTTTTTTTCTTTCTTTTACTTCTTTTA
Found at i:38123050 original size:24 final size:24
Alignment explanation
Indices: 38122985--38123043 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 24
38122975 TCAAAAGGTG
38122985 TTTTTTTTCT-TTCTTTTACTCTTTTA
1 TTTTTTTTCTGTTC-TTTA--CTTTTA
*
38123011 TTTTTTTTCTGTTCTTTACTTTTC
1 TTTTTTTTCTGTTCTTTACTTTTA
38123035 TTTTATTTT
1 TTTT-TTTT
38123044 TTTTCTTGCA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
24 9 0.30
25 4 0.13
26 14 0.47
27 3 0.10
ACGTcount: A:0.07, C:0.14, G:0.02, T:0.78
Consensus pattern (24 bp):
TTTTTTTTCTGTTCTTTACTTTTA
Found at i:38123856 original size:20 final size:19
Alignment explanation
Indices: 38123831--38123879 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
38123821 TATTTACTTT
* *
38123831 ATATTTTTTAGTTTATGTAC
1 ATATTTTTTA-TCTATATAC
*
38123851 ATATTTATATATCTATATAC
1 ATATTT-TTTATCTATATAC
38123871 ATATTTTTT
1 ATATTTTTT
38123880 TATTTCTTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.59
Consensus pattern (19 bp):
ATATTTTTTATCTATATAC
Found at i:38125507 original size:26 final size:27
Alignment explanation
Indices: 38125464--38125529 Score: 91
Period size: 29 Copynumber: 2.4 Consensus size: 27
38125454 TCAAAAGGTG
38125464 TTTTTTTTCTTTCTTTTAC-TCTTTTA
1 TTTTTTTTCTTTCTTTTACTTCTTTTA
38125490 TTTTTTTTCTGTTC-TTTACTTTTCTTTTA
1 TTTTTTTTCT-TTCTTTTAC--TTCTTTTA
38125519 TTTTTTTTCTT
1 TTTTTTTTCTT
38125530 GCATCTCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
26 15 0.42
27 3 0.08
28 1 0.03
29 17 0.47
ACGTcount: A:0.06, C:0.14, G:0.02, T:0.79
Consensus pattern (27 bp):
TTTTTTTTCTTTCTTTTACTTCTTTTA
Found at i:38125529 original size:24 final size:24
Alignment explanation
Indices: 38125464--38125522 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 24
38125454 TCAAAAGGTG
38125464 TTTTTTTTCT-TTCTTTTACTCTTTTA
1 TTTTTTTTCTGTTC-TTTA--CTTTTA
*
38125490 TTTTTTTTCTGTTCTTTACTTTTC
1 TTTTTTTTCTGTTCTTTACTTTTA
38125514 TTTTATTTT
1 TTTT-TTTT
38125523 TTTTCTTGCA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
24 9 0.30
25 4 0.13
26 14 0.47
27 3 0.10
ACGTcount: A:0.07, C:0.14, G:0.02, T:0.78
Consensus pattern (24 bp):
TTTTTTTTCTGTTCTTTACTTTTA
Found at i:38128451 original size:25 final size:25
Alignment explanation
Indices: 38128423--38128501 Score: 90
Period size: 25 Copynumber: 3.2 Consensus size: 25
38128413 ATGCTCATAC
*
38128423 GAGCATATAAACGGGAAGCTCTTTT
1 GAGCATATAAACGGGAAGCTCTTGT
* *
38128448 GAGCCATGT-AACGGGAAGCTCATGT
1 GAG-CATATAAACGGGAAGCTCTTGT
*
38128473 GAGC-TATATAACGGGAAGCTCTTGC
1 GAGCATATA-AACGGGAAGCTCTTGT
38128498 GAGC
1 GAGC
38128502 CAATTATTGG
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
23 2 0.04
24 1 0.02
25 38 0.84
26 4 0.09
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (25 bp):
GAGCATATAAACGGGAAGCTCTTGT
Found at i:38128486 original size:50 final size:49
Alignment explanation
Indices: 38128426--38128603 Score: 164
Period size: 50 Copynumber: 3.6 Consensus size: 49
38128416 CTCATACGAG
** *
38128426 CATATAAACGGGAAGCTCTTTTGAGCCATGTAACGGGAAGCTCATGTGAGC
1 CATAT-AACGGGAAGCTCTTGAGAGCCAT-TAACGGGAAGCTCATGAGAGC
* * ** *
38128477 TATATAACGGGAAGCTCTTGCGAGCCAATTATTGGGAAGCTCAT-ACAAGC
1 CATATAACGGGAAGCTCTTGAGAGCC-ATTAACGGGAAGCTCATGA-GAGC
* **
38128527 CATA-AACGAGAAGCTCAGGAGAGCCATTAATCGGGAAGCTCATGAGAGC
1 CATATAACGGGAAGCTCTTGAGAGCCATTAA-CGGGAAGCTCATGAGAGC
* *
38128576 CAAATATCGGGAAGCTCGTT-AGAGCCAT
1 CATATAACGGGAAGCTC-TTGAGAGCCAT
38128604 ATAGCGTGAT
Statistics
Matches: 101, Mismatches: 20, Indels: 13
0.75 0.15 0.10
Matches are distributed among these distances:
48 4 0.04
49 34 0.34
50 57 0.56
51 6 0.06
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.21
Consensus pattern (49 bp):
CATATAACGGGAAGCTCTTGAGAGCCATTAACGGGAAGCTCATGAGAGC
Found at i:38128567 original size:25 final size:25
Alignment explanation
Indices: 38128434--38128603 Score: 118
Period size: 25 Copynumber: 6.8 Consensus size: 25
38128424 AGCATATAAA
* **
38128434 CGGGAAGCTCTTTTGAGCCATGTAA-
1 CGGGAAGCTCATGAGAGCCAT-TAAT
* *
38128459 CGGGAAGCTCATGTGAGCTATATAA-
1 CGGGAAGCTCATGAGAGCCAT-TAAT
* *
38128484 CGGGAAGCTCTTGCGAGCCAATT-AT
1 CGGGAAGCTCATGAGAGCC-ATTAAT
* * *
38128509 TGGGAAGCTCAT-ACAAGCCA-TAAA
1 CGGGAAGCTCATGA-GAGCCATTAAT
* *
38128533 CGAGAAGCTCAGGAGAGCCATTAAT
1 CGGGAAGCTCATGAGAGCCATTAAT
*
38128558 CGGGAAGCTCATGAGAGCCA-AATAT
1 CGGGAAGCTCATGAGAGCCATTA-AT
* *
38128583 CGGGAAGCTCGTTAGAGCCAT
1 CGGGAAGCTCATGAGAGCCAT
38128604 ATAGCGTGAT
Statistics
Matches: 115, Mismatches: 22, Indels: 15
0.76 0.14 0.10
Matches are distributed among these distances:
23 1 0.01
24 18 0.16
25 94 0.82
26 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.28, T:0.21
Consensus pattern (25 bp):
CGGGAAGCTCATGAGAGCCATTAAT
Found at i:38128577 original size:49 final size:50
Alignment explanation
Indices: 38128448--38128592 Score: 136
Period size: 49 Copynumber: 2.9 Consensus size: 50
38128438 AAGCTCTTTT
* * * ** *
38128448 GAGCCATGTAA-CGGGAAGCTCATGTGAGCTATATAACGGGAAGCTCTTGC
1 GAGCCAT-TAATCGGGAAGCTCATGAGAGCCATATAACGAGAAGCTCAGGA
* *
38128498 GAGCCAATT-ATTGGGAAGCTCAT-ACAAGCCATA-AACGAGAAGCTCAGGA
1 GAGCC-ATTAATCGGGAAGCTCATGA-GAGCCATATAACGAGAAGCTCAGGA
* * *
38128547 GAGCCATTAATCGGGAAGCTCATGAGAGCCAAATATCGGGAAGCTC
1 GAGCCATTAATCGGGAAGCTCATGAGAGCCATATAACGAGAAGCTC
38128593 GTTAGAGCCA
Statistics
Matches: 76, Mismatches: 13, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
48 3 0.04
49 37 0.49
50 34 0.45
51 2 0.03
ACGTcount: A:0.33, C:0.21, G:0.28, T:0.19
Consensus pattern (50 bp):
GAGCCATTAATCGGGAAGCTCATGAGAGCCATATAACGAGAAGCTCAGGA
Found at i:38128602 original size:74 final size:73
Alignment explanation
Indices: 38128434--38128604 Score: 182
Period size: 74 Copynumber: 2.3 Consensus size: 73
38128424 AGCATATAAA
* * * * * * * *
38128434 CGGGAAGCTCTTTTGAGCCATGTAACGGGAAGCTCATGTGAGCTATATAACGGGAAGCTCTTGCG
1 CGGGAAGCTC-TTAGAGCCAT-AAACGAGAAGCTCAGGAGAGCCATATAACGGGAAGCTCATGAG
*
38128499 AGCCAATTAT
64 AGCCAAATAT
* * *
38128509 TGGGAAGCTCATACAAGCCATAAACGAGAAGCTCAGGAGAGCCAT-TAATCGGGAAGCTCATGAG
1 CGGGAAGCTCTTA-GAGCCATAAACGAGAAGCTCAGGAGAGCCATATAA-CGGGAAGCTCATGAG
38128573 AGCCAAATAT
64 AGCCAAATAT
38128583 CGGGAAGCTCGTTAGAGCCATA
1 CGGGAAGCTC-TTAGAGCCATA
38128605 TAGCGTGATG
Statistics
Matches: 78, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
73 3 0.04
74 58 0.74
75 17 0.22
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.20
Consensus pattern (73 bp):
CGGGAAGCTCTTAGAGCCATAAACGAGAAGCTCAGGAGAGCCATATAACGGGAAGCTCATGAGAG
CCAAATAT
Found at i:38132409 original size:21 final size:20
Alignment explanation
Indices: 38132379--38132437 Score: 66
Period size: 23 Copynumber: 2.8 Consensus size: 20
38132369 GGTTGGTGCT
38132379 TGTTAAATTATTAAATTATA
1 TGTTAAATTATTAAATTATA
38132399 TGTTATAATTATGTTAAATTATA
1 TGTTA-AATTA--TTAAATTATA
38132422 -GTTAAAATATATTAAA
1 TGTT-AAAT-TATTAAA
38132438 ACATAAAAGC
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
20 5 0.15
21 10 0.29
22 6 0.18
23 13 0.38
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.47
Consensus pattern (20 bp):
TGTTAAATTATTAAATTATA
Found at i:38132413 original size:11 final size:10
Alignment explanation
Indices: 38132379--38132437 Score: 50
Period size: 11 Copynumber: 5.7 Consensus size: 10
38132369 GGTTGGTGCT
38132379 TGTTAAATTA
1 TGTTAAATTA
38132389 --TTAAATTATA
1 TGTTAAA-T-TA
38132399 TGTTATAATTA
1 TGTTA-AATTA
38132410 TGTTAAATTA
1 TGTTAAATTA
*
38132420 TAGTTAAAATA
1 T-GTTAAATTA
*
38132431 TATTAAA
1 TGTTAAA
38132438 ACATAAAAGC
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
8 5 0.12
9 1 0.02
10 13 0.32
11 16 0.39
12 4 0.10
13 2 0.05
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.47
Consensus pattern (10 bp):
TGTTAAATTA
Found at i:38138971 original size:2 final size:2
Alignment explanation
Indices: 38138964--38138988 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
38138954 GGCTGATAAT
38138964 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
38138989 GCATGTCAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:38144265 original size:11 final size:11
Alignment explanation
Indices: 38144244--38144322 Score: 69
Period size: 11 Copynumber: 7.5 Consensus size: 11
38144234 ATAAATCCTT
38144244 TCTCTAATTTCC
1 TCTC-AATTTCC
38144256 TCTCAATTT-C
1 TCTCAATTTCC
38144266 TCTCAATTTCC
1 TCTCAATTTCC
*
38144277 TCTCAAATT-C
1 TCTCAATTTCC
**
38144287 -CT--ATTTAA
1 TCTCAATTTCC
*
38144295 TCTCAATTTGC
1 TCTCAATTTCC
38144306 TCTCAATTTCC
1 TCTCAATTTCC
*
38144317 TTTCAA
1 TCTCAA
38144323 ATCCCTATTT
Statistics
Matches: 55, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
7 3 0.05
9 4 0.07
10 11 0.20
11 33 0.60
12 4 0.07
ACGTcount: A:0.23, C:0.29, G:0.01, T:0.47
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:38144313 original size:40 final size:39
Alignment explanation
Indices: 38144256--38144334 Score: 131
Period size: 40 Copynumber: 2.0 Consensus size: 39
38144246 TCTAATTTCC
*
38144256 TCTCAATTTCTCTCAATTTCCTCTCAAATTCCTATTTAA
1 TCTCAATTTCTCTCAATTTCCTCTCAAATCCCTATTTAA
*
38144295 TCTCAATTTGCTCTCAATTTCCTTTCAAATCCCTATTTAA
1 TCTCAATTT-CTCTCAATTTCCTCTCAAATCCCTATTTAA
38144335 AAGAGCTTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
39 9 0.24
40 28 0.76
ACGTcount: A:0.25, C:0.28, G:0.01, T:0.46
Consensus pattern (39 bp):
TCTCAATTTCTCTCAATTTCCTCTCAAATCCCTATTTAA
Found at i:38144325 original size:29 final size:29
Alignment explanation
Indices: 38144266--38144325 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
38144256 TCTCAATTTC
*
38144266 TCTCAATTTCCTCTCAAATTCCTATTTAA
1 TCTCAATTTCCTCTCAAATTCCTATTAAA
* *
38144295 TCTCAATTTGCTCTCAATTTCCT-TTCAAA
1 TCTCAATTTCCTCTCAAATTCCTATT-AAA
38144324 TC
1 TC
38144326 CCTATTTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 2 0.07
29 25 0.93
ACGTcount: A:0.25, C:0.28, G:0.02, T:0.45
Consensus pattern (29 bp):
TCTCAATTTCCTCTCAAATTCCTATTAAA
Found at i:38146202 original size:18 final size:18
Alignment explanation
Indices: 38146166--38146208 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
38146156 TGCCAGGTGC
* * *
38146166 GTATCCTAGCCTTTTTAT
1 GTATCCTAACCCTTATAT
38146184 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
38146202 GTTTCCT
1 GTATCCT
38146209 TTTTCTAGTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.19, C:0.26, G:0.09, T:0.47
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:38149884 original size:47 final size:48
Alignment explanation
Indices: 38149813--38149909 Score: 178
Period size: 47 Copynumber: 2.0 Consensus size: 48
38149803 TAGCAAAAGC
38149813 ATGTCCACATTGATGCGAAAATCCCGGATCTAGACACAAGAGAAACACA
1 ATGTCCACATT-ATGCGAAAATCCCGGATCTAGACACAAGAGAAACACA
38149862 ATGTCCACATT-TGCGAAAATCCCGGATCTAGACACAAGAGAAACACA
1 ATGTCCACATTATGCGAAAATCCCGGATCTAGACACAAGAGAAACACA
38149909 A
1 A
38149910 ATTAGAAATA
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
47 37 0.77
49 11 0.23
ACGTcount: A:0.41, C:0.25, G:0.18, T:0.16
Consensus pattern (48 bp):
ATGTCCACATTATGCGAAAATCCCGGATCTAGACACAAGAGAAACACA
Found at i:38158448 original size:31 final size:31
Alignment explanation
Indices: 38158410--38158471 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
38158400 NNNNNNNNNN
38158410 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
38158441 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
38158472 AAAATTATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (31 bp):
CAAGAGTAATTGAATCCTAATAAAACTCTTT
Found at i:38158971 original size:126 final size:126
Alignment explanation
Indices: 38158809--38159077 Score: 414
Period size: 126 Copynumber: 2.1 Consensus size: 126
38158799 GCTCGTATCA
* *
38158809 CACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCTGCTTAAAGCGTTTCTAACATTG
1 CACGTGGGAGCTTCTTTCAGTACTTCTACTGACAAAGCATCCTGCTTAAAGCGTTTCTAACACTG
* * * *
38158874 TTTGCTCAGAAATGTCTACTCAAAATTATTATT-TCAGGAGCTATTGTAGCAAAAGCGCGTC
66 TTTGCTCAGAAACGTCTACTCAAAATTATT-TTCTCAAGAGCCACTGTAGCAAAAGCGCGTC
* * * *
38158935 CACGTGGAAGCTTTTTTCAGTACTTCTACTGACAAAGCATCCTGCTTAAAGCGTTTTTGACACTG
1 CACGTGGGAGCTTCTTTCAGTACTTCTACTGACAAAGCATCCTGCTTAAAGCGTTTCTAACACTG
* *
38159000 TTTGCTCAGAAACGTCTACTCGAAATTATTTTCTCAAGAGCCACTGTAGCAAAAGCGCTTC
66 TTTGCTCAGAAACGTCTACTCAAAATTATTTTCTCAAGAGCCACTGTAGCAAAAGCGCGTC
38159061 CACGTGGGAGCTTCTTT
1 CACGTGGGAGCTTCTTT
38159078 AAATTAACAA
Statistics
Matches: 128, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
125 2 0.02
126 126 0.98
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (126 bp):
CACGTGGGAGCTTCTTTCAGTACTTCTACTGACAAAGCATCCTGCTTAAAGCGTTTCTAACACTG
TTTGCTCAGAAACGTCTACTCAAAATTATTTTCTCAAGAGCCACTGTAGCAAAAGCGCGTC
Found at i:38161350 original size:17 final size:16
Alignment explanation
Indices: 38161314--38161351 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
38161304 AAAGTTAGTG
*
38161314 GATATTTTTAAAATAT
1 GATATATTTAAAATAT
38161330 -ATATATTTAAAATAAT
1 GATATATTTAAAAT-AT
38161346 GATATA
1 GATATA
38161352 AAAAAAGCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 12 0.63
16 2 0.11
17 5 0.26
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (16 bp):
GATATATTTAAAATAT
Found at i:38164674 original size:14 final size:13
Alignment explanation
Indices: 38164652--38164687 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 13
38164642 CCCCCTAAAA
38164652 GAAATTTTAGCCTC
1 GAAA-TTTAGCCTC
38164666 GAAACTTTAGCCTC
1 GAAA-TTTAGCCTC
38164680 GAAATTTA
1 GAAATTTA
38164688 CCTGCCTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 4 0.19
14 17 0.81
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (13 bp):
GAAATTTAGCCTC
Found at i:38171305 original size:18 final size:18
Alignment explanation
Indices: 38171269--38171321 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
38171259 GCTAGGTAAC
*
38171269 AAAATTAAATAAAGGAAA
1 AAAATTAAATAAAAGAAA
* *
38171287 AAAATTAATTAAAATAAA
1 AAAATTAAATAAAAGAAA
*
38171305 ATCAAATAAAATAAAAG
1 A--AAATTAAATAAAAG
38171322 GTTGAGTGAA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
18 16 0.59
20 11 0.41
ACGTcount: A:0.72, C:0.02, G:0.06, T:0.21
Consensus pattern (18 bp):
AAAATTAAATAAAAGAAA
Found at i:38171905 original size:17 final size:17
Alignment explanation
Indices: 38171872--38171905 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
38171862 AATCTCATTT
*
38171872 TTTTTAAAAATAGAAAA
1 TTTTTAAAAATAAAAAA
*
38171889 TTTTTAAAATTAAAAAA
1 TTTTTAAAAATAAAAAA
38171906 CCCATAAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
TTTTTAAAAATAAAAAA
Found at i:38176091 original size:32 final size:33
Alignment explanation
Indices: 38176029--38176092 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
38176019 CTTTTGTCCG
* *
38176029 AAAAAAAATCTCACTTTAGATTCGAGAAATCCT
1 AAAAAAAATCTCACTTTAGAGTCGACAAATCCT
* *
38176062 AAAAAAATTCTCATTTTA-AGTCGACAAATCC
1 AAAAAAAATCTCACTTTAGAGTCGACAAATCC
38176093 ACTTTCAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.45, C:0.19, G:0.08, T:0.28
Consensus pattern (33 bp):
AAAAAAAATCTCACTTTAGAGTCGACAAATCCT
Found at i:38181845 original size:244 final size:244
Alignment explanation
Indices: 38181416--38181903 Score: 895
Period size: 244 Copynumber: 2.0 Consensus size: 244
38181406 TTTATTTCTC
*
38181416 AATTTGATATATTATTGTAAAATTCATCATTTATCAATACACATTTTAATAGATTAGACATAATT
1 AATTTGATATATTATTATAAAATTCATCATTTATCAATACACATTTTAATAGATTAGACATAATT
* * *
38181481 TATATACTTTGATGTTTTATAATGTGAGTAAAATTATCGTTGCTACTTTATTTGTATTTATTTAT
66 TATATACTTTGATGTTGTATAATATGAGTAAAATTATCGTTGCTACTTTATTTGTATTTATTTAA
*
38181546 TGCATATTTCGCTACACCTTAGTTCAAGTTTGAATTATTATTCATTGTTTTACATTACCTACTCC
131 TGCATATTTCGCTACACCTTAGTTCAAGTTTGAATTATTATTCATCGTTTTACATTACCTACTCC
38181611 TTTTAAAATTTTGTACTTTTATCATTCTATTTCATATTAAAAAGGCCTA
196 TTTTAAAATTTTGTACTTTTATCATTCTATTTCATATTAAAAAGGCCTA
*
38181660 AATTTGATATATTATTATAAAATTCATCATTTATCAATGCACATTTTAATAGATTAGACATAATT
1 AATTTGATATATTATTATAAAATTCATCATTTATCAATACACATTTTAATAGATTAGACATAATT
* *
38181725 TATATATTTTGATGTTGTATAATATGAGTAGAATTATCGTTGCTACTTTATTTGTATTTATTTAA
66 TATATACTTTGATGTTGTATAATATGAGTAAAATTATCGTTGCTACTTTATTTGTATTTATTTAA
*
38181790 TGCATATTTGGCTACACCTTAGTTCAAGTTTGAATTATTATTCATCGTTTTACATTACCTACTCC
131 TGCATATTTCGCTACACCTTAGTTCAAGTTTGAATTATTATTCATCGTTTTACATTACCTACTCC
38181855 TTTTAAAATTTTGTACTTTTATCATTCTATTTCATATTAAAAAGGCCTA
196 TTTTAAAATTTTGTACTTTTATCATTCTATTTCATATTAAAAAGGCCTA
38181904 GCATTTATAA
Statistics
Matches: 235, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
244 235 1.00
ACGTcount: A:0.32, C:0.12, G:0.09, T:0.47
Consensus pattern (244 bp):
AATTTGATATATTATTATAAAATTCATCATTTATCAATACACATTTTAATAGATTAGACATAATT
TATATACTTTGATGTTGTATAATATGAGTAAAATTATCGTTGCTACTTTATTTGTATTTATTTAA
TGCATATTTCGCTACACCTTAGTTCAAGTTTGAATTATTATTCATCGTTTTACATTACCTACTCC
TTTTAAAATTTTGTACTTTTATCATTCTATTTCATATTAAAAAGGCCTA
Found at i:38182545 original size:9 final size:9
Alignment explanation
Indices: 38182533--38182563 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
38182523 TTTGAATTTA
38182533 AATAATTCG
1 AATAATTCG
*
38182542 AATAATTAG
1 AATAATTCG
38182551 AATAATTCG
1 AATAATTCG
38182560 AATA
1 AATA
38182564 TCAAACTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.52, C:0.06, G:0.10, T:0.32
Consensus pattern (9 bp):
AATAATTCG
Found at i:38182685 original size:31 final size:30
Alignment explanation
Indices: 38182622--38182696 Score: 132
Period size: 30 Copynumber: 2.5 Consensus size: 30
38182612 ACTTTTCCTT
38182622 CAAAACTTTTACTCCTTCCCACTTTCCCCC
1 CAAAACTTTTACTCCTTCCCACTTTCCCCC
38182652 CAAAACTTTTACTCCTTCCCACTTTCCCCC
1 CAAAACTTTTACTCCTTCCCACTTTCCCCC
* *
38182682 CCAAATTTTTACTCC
1 CAAAACTTTTACTCC
38182697 CCCCCCTCCC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.21, C:0.44, G:0.00, T:0.35
Consensus pattern (30 bp):
CAAAACTTTTACTCCTTCCCACTTTCCCCC
Found at i:38183390 original size:19 final size:19
Alignment explanation
Indices: 38183352--38183390 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
38183342 AAAGTTAATA
*
38183352 AAAAATTTGATTAAGGTGG
1 AAAAATTTGATTAAGATGG
* *
38183371 AAAAATTTTATTACGATGG
1 AAAAATTTGATTAAGATGG
38183390 A
1 A
38183391 TGACAATGGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.33
Consensus pattern (19 bp):
AAAAATTTGATTAAGATGG
Found at i:38185214 original size:59 final size:54
Alignment explanation
Indices: 38185141--38185274 Score: 146
Period size: 54 Copynumber: 2.4 Consensus size: 54
38185131 TAGGGGTTGA
* * *
38185141 ATTTAGCCTGGACTGGTAATTCAGATCCAA-GCTC-ATTAGAGTAATTGTCATTGCAGGGG
1 ATTTAGCCTGGACTGGTAATCCAGA--CAATACTCTA-T-GAGT--TTGT-ATTACAGGGG
* *
38185200 ATTTAGCCTGGACTGATAATCCCGACAATACTCTATGAGTTTGTATTACAGGGG
1 ATTTAGCCTGGACTGGTAATCCAGACAATACTCTATGAGTTTGTATTACAGGGG
38185254 ATTTAGCCTGGACTGGTAATC
1 ATTTAGCCTGGACTGGTAATC
38185275 TCGCTGTAAG
Statistics
Matches: 67, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
54 29 0.43
55 4 0.06
57 7 0.10
58 4 0.06
59 23 0.34
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (54 bp):
ATTTAGCCTGGACTGGTAATCCAGACAATACTCTATGAGTTTGTATTACAGGGG
Found at i:38188832 original size:24 final size:24
Alignment explanation
Indices: 38188765--38188873 Score: 71
Period size: 24 Copynumber: 4.5 Consensus size: 24
38188755 CTCGCTTAAA
* * *
38188765 CTTCCCGTTATATGCCTATTCGGTG
1 CTTCCCGTTATA-GGCTCTTCGGAG
*
38188790 CTTTCCGATTA-A-GCTTCTTCGGAG
1 CTTCCCG-TTATAGGC-TCTTCGGAG
*
38188814 CTTCCCGTTA-AGAGCTCTTCAGAG
1 CTTCCCGTTATAG-GCTCTTCGGAG
* * *
38188838 CTACCCGATATAGGCTCTTTGTGAG
1 CTTCCCGTTATAGGCTCTTCG-GAG
*
38188863 CTTCCTGTTAT
1 CTTCCCGTTAT
38188874 TAAGCCTGGA
Statistics
Matches: 65, Mismatches: 13, Indels: 12
0.72 0.14 0.13
Matches are distributed among these distances:
23 5 0.08
24 35 0.54
25 22 0.34
26 3 0.05
ACGTcount: A:0.17, C:0.27, G:0.20, T:0.37
Consensus pattern (24 bp):
CTTCCCGTTATAGGCTCTTCGGAG
Found at i:38192699 original size:23 final size:23
Alignment explanation
Indices: 38192662--38192705 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
38192652 TAAAATAGTG
38192662 TTTAATTGTTATTATTATTAAGT
1 TTTAATTGTTATTATTATTAAGT
* * *
38192685 TTTAATTTTTTTTATTTTTAA
1 TTTAATTGTTATTATTATTAA
38192706 TAAAATAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (23 bp):
TTTAATTGTTATTATTATTAAGT
Found at i:38195543 original size:44 final size:44
Alignment explanation
Indices: 38195491--38196027 Score: 238
Period size: 44 Copynumber: 12.5 Consensus size: 44
38195481 CTGCTCTCTT
* * *
38195491 CAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCACTGCACTG
1 CAACTTCAGAGAGATAAGATCTAAGGTTTTAATCTACTCCACTG
* * *
38195535 CAACTTCAG-GAAGATAGGAT-TATCGGCTTTAATCTACTCCACTG
1 CAACTTCAGAG-AGATAAGATCTA-AGGTTTTAATCTACTCCACTG
* * * *** * *
38195579 CAACTTTAGGGAGATAAGA-CTAA--ATACGATCTGCT-CTCTG
1 CAACTTCAGAGAGATAAGATCTAAGGTTTTAATCTACTCCACTG
* *
38195619 CAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCACTCCACTG
1 CAACTTCAGAGAGATAAGATCTAAGGTTTTAATCTACTCCACTG
* * *
38195663 CAACTTCAGAAAGATAGGAT-TATCA-GTTTTAATCTGCTCCACTG
1 CAACTTCAGAGAGATAAGATCTA--AGGTTTTAATCTACTCCACTG
* * **** * * * *
38195707 CAACTTCAGGGAGATAAGATTTGCCATCTTCAGTTTGC-CTCACTG
1 CAACTTCAGAGAGATAAGATCTAAGGT-TTTAATCTACTC-CACTG
* * * * *
38195752 CAACTTCAG-GAGGATAAGA-CT-TGCCTACTTAGTCTGCTCCACTG
1 CAACTTCAGAGA-GATAAGATCTAAG-GT-TTTAATCTACTCCACTG
* * *** *
38195796 CAACTTCAGGGAGATAAGA-CT-A-GATGCGATCTACT-CTCTG
1 CAACTTCAGAGAGATAAGATCTAAGGTTTTAATCTACTCCACTG
**
38195836 CAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCT-CACTG
1 CAACTTCAGAGAGATAAGATCTAAGGTTTTAATCTACTCCACTG
* * **** * *
38195879 CAACTTCAGCGAGATAAGATTTGCCATCTTCAATCT-CCCTCACTG
1 CAACTTCAGAGAGATAAGATCTAAGGT-TTTAATCTACTC-CACTG
* * *** * *
38195924 TAACTTCAG-GAGGATAAGA-CTAA--ATGGGATCTGCT-CTCTG
1 CAACTTCAGAGA-GATAAGATCTAAGGTTTTAATCTACTCCACTG
* * * **
38195964 CAACTTCAAAGAGATAAGATCCAAGGTTGTAATCCGCTCCACTG
1 CAACTTCAGAGAGATAAGATCTAAGGTTTTAATCTACTCCACTG
*
38196008 CAACTTCAGGGAGATAAGAT
1 CAACTTCAGAGAGATAAGAT
38196028 TTACCATCTT
Statistics
Matches: 368, Mismatches: 94, Indels: 62
0.70 0.18 0.12
Matches are distributed among these distances:
40 61 0.17
41 27 0.07
42 2 0.01
43 50 0.14
44 174 0.47
45 54 0.15
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (44 bp):
CAACTTCAGAGAGATAAGATCTAAGGTTTTAATCTACTCCACTG
Found at i:38195614 original size:128 final size:128
Alignment explanation
Indices: 38195451--38195725 Score: 487
Period size: 128 Copynumber: 2.1 Consensus size: 128
38195441 TGCTCCTGGT
*
38195451 CAACTTCAGGGAGATAAGACTAAATACGATCTGCTCTCTTCAACTTCAGAGAGATAAGATCCAAG
1 CAACTTCAGGGAGATAAGACTAAATACGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAG
* * *
38195516 GTTTTAATCCACTGCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAATCTACTCCACTG
66 GTTTTAATCCACTCCACTGCAACTTCAGAAAGATAGGATTATCAGCTTTAATCTACTCCACTG
*
38195579 CAACTTTAGGGAGATAAGACTAAATACGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAG
1 CAACTTCAGGGAGATAAGACTAAATACGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAG
* *
38195644 GTTTTAATCCACTCCACTGCAACTTCAGAAAGATAGGATTATCAGTTTTAATCTGCTCCACTG
66 GTTTTAATCCACTCCACTGCAACTTCAGAAAGATAGGATTATCAGCTTTAATCTACTCCACTG
38195707 CAACTTCAGGGAGATAAGA
1 CAACTTCAGGGAGATAAGA
38195726 TTTGCCATCT
Statistics
Matches: 139, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
128 139 1.00
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (128 bp):
CAACTTCAGGGAGATAAGACTAAATACGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAG
GTTTTAATCCACTCCACTGCAACTTCAGAAAGATAGGATTATCAGCTTTAATCTACTCCACTG
Found at i:38195791 original size:89 final size:87
Alignment explanation
Indices: 38195691--38195946 Score: 267
Period size: 89 Copynumber: 3.0 Consensus size: 87
38195681 ATTATCAGTT
*
38195691 TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTTTGCCTCACTGCAAC
1 TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCT-CCTCACTGCAAC
*
38195756 TTCAGGAGGATAAGACT-TGCCTAC
65 TTCAGGAGGATAAGACTAAG-CT-C
* * * * * *
38195780 TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAG--A--TGC-GATCTACTCTCTGCAAC
1 TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAG-TCTCCTCACTGCAAC
* *
38195840 TTCA-GAGAGATAAGATCTAAGGTT
65 TTCAGGAG-GATAAGA-CTAAGCTC
* * * *
38195864 TTAATCCGCT-CACTGCAACTTCAGCGAGATAAGATTTGCCATCTTCAATCTCCCTCACTGTAAC
1 TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCT-CCTCACTGCAAC
38195928 TTCAGGAGGATAAGACTAA
65 TTCAGGAGGATAAGACTAA
38195947 ATGGGATCTG
Statistics
Matches: 136, Mismatches: 20, Indels: 24
0.76 0.11 0.13
Matches are distributed among these distances:
83 28 0.21
84 30 0.22
85 8 0.06
86 1 0.01
87 10 0.07
88 20 0.15
89 39 0.29
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.28
Consensus pattern (87 bp):
TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTCCTCACTGCAACT
TCAGGAGGATAAGACTAAGCTC
Found at i:38196068 original size:129 final size:128
Alignment explanation
Indices: 38195745--38196073 Score: 461
Period size: 128 Copynumber: 2.6 Consensus size: 128
38195735 TTCAGTTTGC
*
38195745 CTCACTGCAACTTCA-GGAGGATAAGACTTGCC-TACTT-AGTCTG-CTCCACTGCAACTTCAGG
1 CTCACTGCAACTTCAGGGA-GATAAGATTTGCCAT-CTTCAGTCTGCCT-CACTGCAACTTCAGG
* * * *
38195806 -GAGATAAGACTAGATGCGATCTACTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATC
63 AG-GATAAGACTAAATGCGATCTACTCTCTGCAACTTCAAAGAGATAAGATCCAAGGTTGTAATC
38195870 CG
127 CG
* * * *
38195872 CTCACTGCAACTTCAGCGAGATAAGATTTGCCATCTTCAATCTCCCTCACTGTAACTTCAGGAGG
1 CTCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGG
* *
38195937 ATAAGACTAAATGGGATCTGCTCTCTGCAACTTCAAAGAGATAAGATCCAAGGTTGTAATCCG
66 ATAAGACTAAATGCGATCTACTCTCTGCAACTTCAAAGAGATAAGATCCAAGGTTGTAATCCG
* *
38196000 CTCCACTGCAACTTCAGGGAGATAAGATTTACCATCTTCAGTTTGCCTCACTGCAACTTCAGGAG
1 CT-CACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAG
38196065 GATAAGACT
65 GATAAGACT
38196074 TGCTTATTTA
Statistics
Matches: 179, Mismatches: 17, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
127 30 0.17
128 81 0.45
129 68 0.38
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.27
Consensus pattern (128 bp):
CTCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGG
ATAAGACTAAATGCGATCTACTCTCTGCAACTTCAAAGAGATAAGATCCAAGGTTGTAATCCG
Found at i:38196098 original size:345 final size:345
Alignment explanation
Indices: 38195435--38196117 Score: 892
Period size: 345 Copynumber: 2.0 Consensus size: 345
38195425 TCAACTTGAT
* *
38195435 TTAGTCTGCTCCTGGTCAACTTCAGGGAGATAAGACTAAATACGATCTGCTCTCTTCAACTTCAG
1 TTAGTCTGCTCCTGGTCAACTTCAGGGAGATAAGACTAAATACGATCTACTCTCTGCAACTTCAG
* *
38195500 AGAGATAAGATCCAAGGTTTTAATCCACTGCACTGCAACTTCAGGAAGATAGGATTATCGGCTTT
66 AGAGATAAGATCCAAGGTTTTAATCCACTGCACTGCAACTTCAGGAAGATAAGATTATCGCCTTT
* *
38195565 AATCTACTCCACTGCAACTTTAGGGAGATAAGACTAAATACGATCTGCTCTCTGCAACTTCAGAG
131 AATCTACTCCACTGCAACTTCAGGGAGATAAGACTAAATACGATCTGCTCTCTGCAACTTCAAAG
* * * *
38195630 AGATAAGATCCAAGGTTTTAATCCACTCCACTGCAACTTCAGAAAGATAGGATTATCAGTTTTAA
196 AGATAAGATCCAAGGTTGTAATCCACTCCACTGCAACTTCAGAAAGATAAGATTACCAGTTTCAA
* *
38195695 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTTTGCCTCACTGCAACTTCA
261 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTGCCTCACTGCAACTTCA
38195760 G-GAGGATAAGACTTGCCTAC
326 GAGA-GATAAGACTTGCCTAC
* *
38195780 TTAGTCTGCTCCACT-G-CAACTTCAGGGAGATAAGACTAGATGCGATCTACTCTCTGCAACTTC
1 TTAGTCTGCT-C-CTGGTCAACTTCAGGGAGATAAGACTAAATACGATCTACTCTCTGCAACTTC
* *
38195843 AGAGAGATAAGATCTAAGGTTTTAATCCGCT-CACTGCAACTTCAGCG-AGATAAGATT-T-GCC
64 AGAGAGATAAGATCCAAGGTTTTAATCCACTGCACTGCAACTTCAG-GAAGATAAGATTATCGCC
* * **
38195904 ATCTTCAATCT-CCCTCACTGTAACTTCA-GGAGGATAAGACTAAATGGGATCTGCTCTCTGCAA
128 -T-TT-AATCTACTC-CACTGCAACTTCAGGGA-GATAAGACTAAATACGATCTGCTCTCTGCAA
* **
38195967 CTTCAAAGAGATAAGATCCAAGGTTGTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTTAC
188 CTTCAAAGAGATAAGATCCAAGGTTGTAATCCACTCCACTGCAACTTCAGAAAGATAAGA-TTAC
* * *
38196032 CA-TCTTCAGTTTGC-CTCACTGCAACTTCA-GGAGGATAAGACTTGCTTAT-TT-AGTCTG-CT
252 CAGT-TTCAATCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGC-CATCTTCAGTCTGCCT
38196091 CCACTGCAACTTCAGAGAGATAAGACT
313 -CACTGCAACTTCAGAGAGATAAGACT
38196118 CGATCTGTTA
Statistics
Matches: 297, Mismatches: 26, Indels: 30
0.84 0.07 0.08
Matches are distributed among these distances:
342 2 0.01
343 2 0.01
344 32 0.11
345 215 0.72
346 42 0.14
347 4 0.01
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (345 bp):
TTAGTCTGCTCCTGGTCAACTTCAGGGAGATAAGACTAAATACGATCTACTCTCTGCAACTTCAG
AGAGATAAGATCCAAGGTTTTAATCCACTGCACTGCAACTTCAGGAAGATAAGATTATCGCCTTT
AATCTACTCCACTGCAACTTCAGGGAGATAAGACTAAATACGATCTGCTCTCTGCAACTTCAAAG
AGATAAGATCCAAGGTTGTAATCCACTCCACTGCAACTTCAGAAAGATAAGATTACCAGTTTCAA
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTGCCTCACTGCAACTTCA
GAGAGATAAGACTTGCCTAC
Found at i:38196113 original size:44 final size:43
Alignment explanation
Indices: 38195655--38196117 Score: 228
Period size: 44 Copynumber: 10.7 Consensus size: 43
38195645 TTTTAATCCA
* * ** *
38195655 CTCCACTGCAACTTCAGAAAGATAGGA-TTATCAGTTTTAATCTG
1 CTCCACTGCAACTTCAGAGAGATAAGACTTGCCA--TTTAGTCTG
* * *
38195699 CTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTTTG
1 CTCCACTGCAACTTCAGAGAGATAAGACTTGCCAT-TT-AGTCTG
*
38195744 C-CTCACTGCAACTTCAG-GAGGATAAGACTTGCCTACTTAGTCTG
1 CTC-CACTGCAACTTCAGAGA-GATAAGACTTGCC-ATTTAGTCTG
* * ** *
38195788 CTCCACTGCAACTTCAGGGAGATAAGACTAG--A-TGCGATCTA
1 CTCCACTGCAACTTCAGAGAGATAAGACTTGCCATTTAG-TCTG
* * ** * *
38195829 CT-CTCTGCAACTTCAGAGAGATAAGATCTAAG-GTTTTAATCCG
1 CTCCACTGCAACTTCAGAGAGATAAGA-CT-TGCCATTTAGTCTG
* * *
38195872 CT-CACTGCAACTTCAGCGAGATAAGATTTGCCATCTTCAATCT-
1 CTCCACTGCAACTTCAGAGAGATAAGACTTGCCAT-TT-AGTCTG
* * * * **
38195915 CCCTCACTGTAACTTCAG-GAGGATAAGAC-T--AAATGGGATCTG
1 CTC-CACTGCAACTTCAGAGA-GATAAGACTTGCCATTTAG-TCTG
* * * *
38195957 CT-CTCTGCAACTTCAAAGAGATAAGA--T-CCAAGGTTGTAATCCG
1 CTCCACTGCAACTTCAGAGAGATAAGACTTGCC-A--TT-TAGTCTG
* * * *
38196000 CTCCACTGCAACTTCAGGGAGATAAGATTTACCATCTTCAGTTTG
1 CTCCACTGCAACTTCAGAGAGATAAGACTTGCCAT-TT-AGTCTG
*
38196045 C-CTCACTGCAACTTCAG-GAGGATAAGACTTGCTTATTTAGTCTG
1 CTC-CACTGCAACTTCAGAGA-GATAAGACTTGC-CATTTAGTCTG
38196089 CTCCACTGCAACTTCAGAGAGATAAGACT
1 CTCCACTGCAACTTCAGAGAGATAAGACT
38196118 CGATCTGTTA
Statistics
Matches: 324, Mismatches: 57, Indels: 76
0.71 0.12 0.17
Matches are distributed among these distances:
39 1 0.00
40 42 0.13
41 16 0.05
42 6 0.02
43 36 0.11
44 122 0.38
45 94 0.29
46 5 0.02
47 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (43 bp):
CTCCACTGCAACTTCAGAGAGATAAGACTTGCCATTTAGTCTG
Found at i:38209484 original size:10 final size:10
Alignment explanation
Indices: 38209469--38209494 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
38209459 ATTTGGACCT
38209469 TTATTTATTA
1 TTATTTATTA
38209479 TTATTTATTA
1 TTATTTATTA
38209489 TTATTT
1 TTATTT
38209495 TTTCTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (10 bp):
TTATTTATTA
Found at i:38210741 original size:24 final size:23
Alignment explanation
Indices: 38210709--38210758 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 23
38210699 CGAGTCTGAT
38210709 TTTCACGAACACAGTGCCCTAAAC
1 TTTCACGAACACAGTGCCCT-AAC
38210733 TTTCACGAACACAGTGCCCTAAC
1 TTTCACGAACACAGTGCCCTAAC
38210756 TTT
1 TTT
38210759 TTAAAACCTG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 6 0.23
24 20 0.77
ACGTcount: A:0.30, C:0.32, G:0.12, T:0.26
Consensus pattern (23 bp):
TTTCACGAACACAGTGCCCTAAC
Found at i:38218873 original size:7 final size:7
Alignment explanation
Indices: 38218861--38218888 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
38218851 CCATTGTTAG
38218861 CCCTAAA
1 CCCTAAA
38218868 CCCTAAA
1 CCCTAAA
38218875 CCCTAAA
1 CCCTAAA
38218882 CCCTAAA
1 CCCTAAA
38218889 TCCTCAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.43, G:0.00, T:0.14
Consensus pattern (7 bp):
CCCTAAA
Found at i:38221532 original size:62 final size:61
Alignment explanation
Indices: 38221434--38221601 Score: 162
Period size: 63 Copynumber: 2.7 Consensus size: 61
38221424 TTAGTATAAT
* * *
38221434 AACAAATTTAACATTCTAATATTTA-AACATTATATCAATTT-GATC-CTAAATATAAAAAATTC
1 AACAAATTTAGCCTTC-AATATTTACAAAATT-TATCAATTTAGATCACTAAA-A-AAAAAATTC
* * * *
38221496 AACAAATTTAGCCTTTCAATATTTACAAAATTTATCATTTTAGTTCAATTTAAAAAAAAAGTTC
1 AACAAATTTAGCC-TTCAATATTTACAAAATTTATCAATTTAGATC-A-CTAAAAAAAAAATTC
* * *
38221560 AATAAATTTAGCCCTCAACATTTACAAAATTTATCAATTTAG
1 AACAAATTTAGCCTTCAATATTTACAAAATTTATCAATTTAG
38221602 TTCTAATTTT
Statistics
Matches: 89, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
62 27 0.30
63 37 0.42
64 20 0.22
65 1 0.01
66 4 0.04
ACGTcount: A:0.45, C:0.14, G:0.04, T:0.38
Consensus pattern (61 bp):
AACAAATTTAGCCTTCAATATTTACAAAATTTATCAATTTAGATCACTAAAAAAAAAATTC
Found at i:38221592 original size:63 final size:64
Alignment explanation
Indices: 38221487--38221618 Score: 196
Period size: 63 Copynumber: 2.1 Consensus size: 64
38221477 TCCTAAATAT
* * *
38221487 AAAAAATTCAACAAATTTAGCCTTTCAATATTTACAAAATTTATCATTTTAGTTC-AATTTAAA
1 AAAAAATTCAACAAATTTAGCCTCTCAACATTTACAAAATTTATCAATTTAGTTCTAATTTAAA
* *
38221550 AAAAAAGTTCAATAAATTTAGCC-CTCAACATTTACAAAATTTATCAATTTAGTTCTAATTTTAA
1 AAAAAA-TTCAACAAATTTAGCCTCTCAACATTTACAAAATTTATCAATTTAGTTCTAATTTAAA
38221614 AAAAA
1 AAAAA
38221619 TTTAAAAATA
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
63 35 0.56
64 27 0.44
ACGTcount: A:0.46, C:0.13, G:0.04, T:0.37
Consensus pattern (64 bp):
AAAAAATTCAACAAATTTAGCCTCTCAACATTTACAAAATTTATCAATTTAGTTCTAATTTAAA
Found at i:38221640 original size:16 final size:17
Alignment explanation
Indices: 38221619--38221650 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
38221609 TTTAAAAAAA
38221619 TTTAAAAAT-ATTTTTT
1 TTTAAAAATCATTTTTT
38221635 TTTAAAAATCATTTTT
1 TTTAAAAATCATTTTT
38221651 AGTCCTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTAAAAATCATTTTTT
Found at i:38221835 original size:13 final size:14
Alignment explanation
Indices: 38221817--38221849 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
38221807 TTTGTTTGAT
*
38221817 TGAAAA-TGGTTTC
1 TGAAAATTGATTTC
38221830 TGAAAATTGATTTC
1 TGAAAATTGATTTC
38221844 TGAAAA
1 TGAAAA
38221850 ATGACTTACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.36
Consensus pattern (14 bp):
TGAAAATTGATTTC
Found at i:38222321 original size:19 final size:19
Alignment explanation
Indices: 38222293--38222333 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
38222283 TGTCCAAGTG
* *
38222293 CATAACTAGTATTACACTA
1 CATAACTAGTACTACACCA
*
38222312 CATAATTAGTACTACACCA
1 CATAACTAGTACTACACCA
38222331 CAT
1 CAT
38222334 TAAAACATCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.41, C:0.24, G:0.05, T:0.29
Consensus pattern (19 bp):
CATAACTAGTACTACACCA
Found at i:38235414 original size:24 final size:24
Alignment explanation
Indices: 38235390--38235436 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
38235380 ATAAACGAAT
*
38235390 TTAATTAAA-AGATAAATATCAAA
1 TTAATAAAATAGATAAATATCAAA
*
38235413 TTAATAAAATATATAAATATCAAA
1 TTAATAAAATAGATAAATATCAAA
38235437 ACTAAATTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (24 bp):
TTAATAAAATAGATAAATATCAAA
Found at i:38243575 original size:2 final size:2
Alignment explanation
Indices: 38243568--38243592 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
38243558 AGTCATAAGA
38243568 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
38243593 ACTATTTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:38244714 original size:62 final size:62
Alignment explanation
Indices: 38244648--38244767 Score: 197
Period size: 62 Copynumber: 1.9 Consensus size: 62
38244638 TTATTCATAT
*
38244648 AAAATAAAATGAATAGGTATAAATAAAAACATATATTAAACATAACAAA-TAATAAATTTATA
1 AAAATAAAATGAATAGGTACAAAT-AAAACATATATTAAACATAACAAACTAATAAATTTATA
* *
38244710 AAAATAAAATGAATAGGTACAAATAAAACATATATTAAGCATAACAAACTTATAAATT
1 AAAATAAAATGAATAGGTACAAATAAAACATATATTAAACATAACAAACTAATAAATT
38244768 CATGTTATTA
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
61 23 0.43
62 31 0.57
ACGTcount: A:0.61, C:0.07, G:0.06, T:0.27
Consensus pattern (62 bp):
AAAATAAAATGAATAGGTACAAATAAAACATATATTAAACATAACAAACTAATAAATTTATA
Found at i:38248651 original size:71 final size:71
Alignment explanation
Indices: 38248525--38248767 Score: 353
Period size: 71 Copynumber: 3.4 Consensus size: 71
38248515 ACAATAAGCA
* *
38248525 TTAGCGGCGTTTTTTAA-AAAGCGTCGCAAAAAACCTAAGCCCAACGACGTCGTTTTGTGAGCTT
1 TTAGCGGCG-TTTTTAAGAAAGCGCCGCAAAAAACCTAAG-CCAACGACGCCGTTTTGTGAGCTT
38248589 TCGGGGAT
64 TCGGGGAT
* * *
38248597 TTAACGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAACGACGCCGTTTTGTGAGCTTTT
1 TTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACCTAAGCCAACGACGCCGTTTTGTGAGCTTTC
38248662 GGGGAT
66 GGGGAT
* * *
38248668 TTAGCGGCATTTTTAAGAAAGCGCTGCAAAAAACCTAAGCCAAAACAACGCCGTTTTGTGAGCTT
1 TTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACCTAAGCC--AACGACGCCGTTTTGTGAGCTT
38248733 TCGGGGAT
64 TCGGGGAT
* *
38248741 TTAGCAGCGCTTTTAAGAAAGCGCCGC
1 TTAGCGGCGTTTTTAAGAAAGCGCCGC
38248768 TAATGCTCAG
Statistics
Matches: 153, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
71 73 0.48
72 29 0.19
73 51 0.33
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (71 bp):
TTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACCTAAGCCAACGACGCCGTTTTGTGAGCTTTC
GGGGAT
Found at i:38248813 original size:114 final size:114
Alignment explanation
Indices: 38248667--38248881 Score: 335
Period size: 114 Copynumber: 1.9 Consensus size: 114
38248657 CTTTTGGGGA
38248667 TTTAGCGGCATTTTTAAGAAAGCGCTGCAAAAAACCTAAGCCAAAACA-ACGCCGTTTTGTGAGC
1 TTTAGCGGCATTTTTAAGAAAGCGCTGCAAAAAACCTAAGCCAAAA-AGACGCCGTTTTGTGAGC
38248731 TTTCGGGGATTTAGCAGCGCTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
65 TTTCGGGGATTTAGCAGCGCTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
* * *
38248781 TTTAGCGGCGTTTTTGAGAAAGCGCCT-CAAAAAACCTAAGCCAAAAAGACGCTGTTTTGTGAGC
1 TTTAGCGGCATTTTTAAGAAAGCG-CTGCAAAAAACCTAAGCCAAAAAGACGCCGTTTTGTGAGC
* ** *
38248845 TTTCGGGGATTTAGCGGCTTTTTTGAGAAAGCGCCGC
65 TTTCGGGGATTTAGCAGCGCTTTTAAGAAAGCGCCGC
38248882 AAAAAACCTA
Statistics
Matches: 92, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
113 1 0.01
114 89 0.97
115 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (114 bp):
TTTAGCGGCATTTTTAAGAAAGCGCTGCAAAAAACCTAAGCCAAAAAGACGCCGTTTTGTGAGCT
TTCGGGGATTTAGCAGCGCTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
Found at i:38248905 original size:73 final size:73
Alignment explanation
Indices: 38248781--38248954 Score: 294
Period size: 73 Copynumber: 2.4 Consensus size: 73
38248771 TGCTCAGGGC
* *
38248781 TTTAGCGGCGTTTTTGAGAAAGCGCCTCAAAAAACCTAAGCCAAAAAGACGCTGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAAAGACGCCGTTTTGTGAGCT
38248846 TTCGGGGA
66 TTCGGGGA
* *
38248854 TTTAGCGGCTTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAAAGACGCCGTTTTGTGAGCT
38248919 TTCGGGGA
66 TTCGGGGA
* *
38248927 TTTAGCGGCGTTTTTAAGGAAGCGCCGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGC
38248955 TAATGCTTAG
Statistics
Matches: 94, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
73 94 1.00
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (73 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAAAGACGCCGTTTTGTGAGCT
TTCGGGGA
Found at i:38248914 original size:187 final size:185
Alignment explanation
Indices: 38248596--38249232 Score: 934
Period size: 187 Copynumber: 3.4 Consensus size: 185
38248586 CTTTCGGGGA
*
38248596 TTTAACGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCC-AACGACGCCGTTTTGTGAGCTT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAACGACGCCGTTTTGTGAGCTT
* * *
38248660 TTGGGGATTTAGCGGCATTTTTAAGAAAGCGCTGCAAAAAACCTAAGCCAAAACAACGCCGTTTT
66 TCGGGGATTTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACAACGCCGTTTT
* * *
38248725 GTGAGCTTTCGGGGATTTAGCAGCGCTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
131 GTGAGCTTTCGGGGATTTAGCGGCG-TTTTAAGGAAGCGCCGCTAATGCTTAGGGC
* * *
38248781 TTTAGCGGCGTTTTTGAGAAAGCGCCTCAAAAAACCTAAGCCAAAAAGACGCTGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCC-AAACGACGCCGTTTTGTGAGCT
* *
38248846 TTCGGGGATTTAGCGGCTTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGTTT
65 TTCGGGGATTTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACAACGCCGTTT
38248911 TGTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTTAGGGC
130 TGTGAGCTTTCGGGGATTTAGCGGCG-TTTTAAGGAAGCGCCGCTAATGCTTAGGGC
* * *
38248968 TTTAGCGGCGTTTTGGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACTATGCCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCC-AAACGACGCCGTTTTGTGAGCT
* ** * *
38249033 TTCGGGGATTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGTTAAAACTACGTCGTTT
65 TTCGGGGATTTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACAACGCCGTTT
* * * ** ** *
38249098 TGTGAGCTTTTGGCGATTCAATGGCGTTTATAAGGAAGCGCTACTAATGATTAGGGC
130 TGTGAGCTTTCGGGGATTTAGCGGCGTTT-TAAGGAAGCGCCGCTAATGCTTAGGGC
* * * *
38249155 TTTAGCGGCGCTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCTAACGACACCGTTTTCTGAGCTT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAACGACGCCGTTTTGTGAGCTT
38249220 TCGGGGATTTAGC
66 TCGGGGATTTAGC
38249233 ATCGTTTTTA
Statistics
Matches: 410, Mismatches: 39, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
185 40 0.10
186 34 0.08
187 336 0.82
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (185 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAACGACGCCGTTTTGTGAGCTT
TCGGGGATTTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACAACGCCGTTTT
GTGAGCTTTCGGGGATTTAGCGGCGTTTTAAGGAAGCGCCGCTAATGCTTAGGGC
Found at i:38248972 original size:114 final size:114
Alignment explanation
Indices: 38248854--38249068 Score: 376
Period size: 114 Copynumber: 1.9 Consensus size: 114
38248844 CTTTCGGGGA
* *
38248854 TTTAGCGGCTTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTGGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGTTTTGTGAGCT
*
38248919 TTCGGGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTTAGGGC
66 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTTAGGGC
* *
38248968 TTTAGCGGCGTTTTGGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACTATGCCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTGGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGTTTTGTGAGCT
*
38249033 TTCGGGGATTTAGCGGCGTTTTTGAGAAAGCGCCGC
66 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGC
38249069 AAAAAACCTA
Statistics
Matches: 95, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
114 95 1.00
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (114 bp):
TTTAGCGGCGTTTTGGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGTTTTGTGAGCT
TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTTAGGGC
Found at i:38249087 original size:73 final size:73
Alignment explanation
Indices: 38248968--38249107 Score: 235
Period size: 73 Copynumber: 1.9 Consensus size: 73
38248958 TGCTTAGGGC
*
38248968 TTTAGCGGCGTTTTGGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACTATGCCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTGGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACTACGCCGTTTTGTGAGCT
38249033 TTCGGGGA
66 TTCGGGGA
* ** *
38249041 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGTTAAAACTACGTCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTGGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACTACGCCGTTTTGTGAGCT
38249106 TT
66 TT
38249108 TGGCGATTCA
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
73 62 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (73 bp):
TTTAGCGGCGTTTTGGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACTACGCCGTTTTGTGAGCT
TTCGGGGA
Found at i:38249124 original size:73 final size:73
Alignment explanation
Indices: 38248973--38249126 Score: 218
Period size: 73 Copynumber: 2.1 Consensus size: 73
38248963 AGGGCTTTAG
*
38248973 CGGCGTTTTGGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACTATGCCGTTTTGTGAGCTTTCGG
1 CGGCGTTTTGGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACTACGCCGTTTTGTGAGCTTTCGG
* * *
38249038 GGATTTAG
66 CGATTCAA
* ** * *
38249046 CGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGTTAAAACTACGTCGTTTTGTGAGCTTTTGG
1 CGGCGTTTTGGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACTACGCCGTTTTGTGAGCTTTCGG
38249111 CGATTCAA
66 CGATTCAA
*
38249119 TGGCGTTT
1 CGGCGTTT
38249127 ATAAGGAAGC
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
73 71 1.00
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (73 bp):
CGGCGTTTTGGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACTACGCCGTTTTGTGAGCTTTCGG
CGATTCAA
Found at i:38249937 original size:21 final size:21
Alignment explanation
Indices: 38249913--38249953 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
38249903 GATTTAAGGT
38249913 TTAGGAGTT-AGTAGTTAGGGG
1 TTAGGAGTTAAG-AGTTAGGGG
*
38249934 TTAGGGGTTAAGAGTTAGGG
1 TTAGGAGTTAAGAGTTAGGG
38249954 ATTTATGGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.24, C:0.00, G:0.44, T:0.32
Consensus pattern (21 bp):
TTAGGAGTTAAGAGTTAGGGG
Found at i:38249973 original size:22 final size:21
Alignment explanation
Indices: 38249889--38249999 Score: 84
Period size: 22 Copynumber: 5.3 Consensus size: 21
38249879 TAGGGATTAT
* *
38249889 GGTTTAAGGGTTGGGATTTAA
1 GGTTTAAGGGTTAGGATTTAG
* *
38249910 GGTTT-AGGAGTTAGTAGTTAG
1 GGTTTAAGG-GTTAGGATTTAG
* * * *
38249931 GGGTTAGGGGTTAAGAGTTAG
1 GGTTTAAGGGTTAGGATTTAG
*
38249952 GGATTTATGGGTTAGGATTTAG
1 GG-TTTAAGGGTTAGGATTTAG
*
38249974 GGATTTAAGGGTCAGGA--TAG
1 GG-TTTAAGGGTTAGGATTTAG
38249994 GGTTTA
1 GGTTTA
38250000 GATTAATTAG
Statistics
Matches: 73, Mismatches: 14, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.05
20 8 0.11
21 29 0.40
22 32 0.44
ACGTcount: A:0.24, C:0.01, G:0.40, T:0.35
Consensus pattern (21 bp):
GGTTTAAGGGTTAGGATTTAG
Found at i:38254931 original size:43 final size:43
Alignment explanation
Indices: 38254878--38255008 Score: 154
Period size: 43 Copynumber: 3.0 Consensus size: 43
38254868 ATGACATATA
* * * *
38254878 GTGGTAAAAGTGCCGTTAAAAGTCATGATCTTTATCGGCGTTT
1 GTGGGAAAAGTGCCGCTAAAAGTCATGATCTATAGCGGCGTTT
* * *
38254921 GTGGGAAAAGTGCCGCTAAAGGTCTTGTTCTATAGCGGCGTTT
1 GTGGGAAAAGTGCCGCTAAAAGTCATGATCTATAGCGGCGTTT
** * * *
38254964 GTGGGAAAAGCACCGCTAAAGGTCTTGTTCTATAGCGGCGTTT
1 GTGGGAAAAGTGCCGCTAAAAGTCATGATCTATAGCGGCGTTT
38255007 GT
1 GT
38255009 TTCTAAAAAC
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 79 1.00
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.31
Consensus pattern (43 bp):
GTGGGAAAAGTGCCGCTAAAAGTCATGATCTATAGCGGCGTTT
Found at i:38255152 original size:82 final size:82
Alignment explanation
Indices: 38255015--38255178 Score: 328
Period size: 82 Copynumber: 2.0 Consensus size: 82
38255005 TTGTTTCTAA
38255015 AAACGCCGCAAAAGTTAGCGGCTGTTTCAATAGCGGCATTTTTTACGACGCTGCTGAAAGCGCCG
1 AAACGCCGCAAAAGTTAGCGGCTGTTTCAATAGCGGCATTTTTTACGACGCTGCTGAAAGCGCCG
38255080 CTAAAAGTATTTGCGGC
66 CTAAAAGTATTTGCGGC
38255097 AAACGCCGCAAAAGTTAGCGGCTGTTTCAATAGCGGCATTTTTTACGACGCTGCTGAAAGCGCCG
1 AAACGCCGCAAAAGTTAGCGGCTGTTTCAATAGCGGCATTTTTTACGACGCTGCTGAAAGCGCCG
38255162 CTAAAAGTATTTGCGGC
66 CTAAAAGTATTTGCGGC
38255179 GTTAAAAAGC
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 82 1.00
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (82 bp):
AAACGCCGCAAAAGTTAGCGGCTGTTTCAATAGCGGCATTTTTTACGACGCTGCTGAAAGCGCCG
CTAAAAGTATTTGCGGC
Found at i:38262979 original size:24 final size:24
Alignment explanation
Indices: 38262951--38263002 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
38262941 TTTCTAGAAG
* *
38262951 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
*
38262975 ATTTAGCATTTATTAGCATAATTT
1 ATTTAGCATTTATTAGCATAATAT
38262999 ATTT
1 ATTT
38263003 GACCTACGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.54
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:38263130 original size:14 final size:15
Alignment explanation
Indices: 38263111--38263144 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
38263101 TATGTTTTGA
38263111 GGGTTCGTTG-TTTT
1 GGGTTCGTTGTTTTT
*
38263125 GGGTTCTTTGTTTTT
1 GGGTTCGTTGTTTTT
38263140 GGGTT
1 GGGTT
38263145 TCGGAGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.00, C:0.06, G:0.35, T:0.59
Consensus pattern (15 bp):
GGGTTCGTTGTTTTT
Found at i:38263845 original size:10 final size:10
Alignment explanation
Indices: 38263830--38263856 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
38263820 TCTCCTTTCT
38263830 CTTCTTCAAC
1 CTTCTTCAAC
38263840 CTTCTTCAAC
1 CTTCTTCAAC
38263850 CTTCTTC
1 CTTCTTC
38263857 TATTATCTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.15, C:0.41, G:0.00, T:0.44
Consensus pattern (10 bp):
CTTCTTCAAC
Found at i:38266037 original size:358 final size:358
Alignment explanation
Indices: 38265380--38266094 Score: 1385
Period size: 358 Copynumber: 2.0 Consensus size: 358
38265370 TGCATTGTGT
38265380 TAATCTCTGATCATGATTAACTTCTTGTTTCAGGTCATTGGAGCAAATGGTTCTTGTTCATTATC
1 TAATCTCTGATCATGATTAACTTCTTGTTTCAGGTCATTGGAGCAAATGGTTCTTGTTCATTATC
38265445 GTGAAACAAAGGAGGTTGGTGTTTACTACAAACAAAAAACTTTGAGATACCATTCCCGAATAAAG
66 GTGAAACAAAGGAGGTTGGTGTTTACTACAAACAAAAAACTTTGAGATACCATTCCCGAATAAAG
* *
38265510 CAGTCTTTTATGTTTCTTCCTACTCAGAACCAGTTTGTGAATGATGTTTGTGGATTTGTGCTACA
131 CAGTCTTTTATGTTTCTTCCTACTCAGAACCAATTTGTGAATGATGTTTGTGGATTTGTGCGACA
38265575 AACAATTGCAGGTTTCACTAGCCACACATTCAAATTCAAGTTTGTTAACAGATCAGTCTACTCCT
196 AACAATTGCAGGTTTCACTAGCCACACATTCAAATTCAAGTTTGTTAACAGATCAGTCTACTCCT
38265640 TTGCTTGTTACAAAAGAGTTTGATTCTGGAATTGCTAATACATATTCTGAAGGTGAGAGGAGTCT
261 TTGCTTGTTACAAAAGAGTTTGATTCTGGAATTGCTAATACATATTCTGAAGGTGAGAGGAGTCT
38265705 AGGTGATGTTGAAATTTTCCAGAGATTAATCAG
326 AGGTGATGTTGAAATTTTCCAGAGATTAATCAG
* *
38265738 TAATCTCTTATCATGATTAACTTCTTGTTTCAGGTCTTTGGAGCAAATGGTTCTTGTTCATTATC
1 TAATCTCTGATCATGATTAACTTCTTGTTTCAGGTCATTGGAGCAAATGGTTCTTGTTCATTATC
38265803 GTGAAACAAAGGAGGTTGGTGTTTACTACAAACAAAAAACTTTGAGATACCATTCCCGAATAAAG
66 GTGAAACAAAGGAGGTTGGTGTTTACTACAAACAAAAAACTTTGAGATACCATTCCCGAATAAAG
*
38265868 CAGTCTTTTATGTTTCTTCCTACTCAGAACCAATTTGTGAATTATGTTTGTGGATTTGTGCGACA
131 CAGTCTTTTATGTTTCTTCCTACTCAGAACCAATTTGTGAATGATGTTTGTGGATTTGTGCGACA
38265933 AACAATTGCAGGTTTCACTAGCCACACATTCAAATTCAAGTTTGTTAACAGATCAGTCTACTCCT
196 AACAATTGCAGGTTTCACTAGCCACACATTCAAATTCAAGTTTGTTAACAGATCAGTCTACTCCT
38265998 TTGCTTGTTACAAAAGAGTTTGATTCTGGAATTGCTAATACATATTCTGAAGGTGAGAGGAGTCT
261 TTGCTTGTTACAAAAGAGTTTGATTCTGGAATTGCTAATACATATTCTGAAGGTGAGAGGAGTCT
38266063 AGGTGATGTTGAAATTTTCCAGAGATTAATCA
326 AGGTGATGTTGAAATTTTCCAGAGATTAATCA
38266095 TGTGAACAAA
Statistics
Matches: 352, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
358 352 1.00
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (358 bp):
TAATCTCTGATCATGATTAACTTCTTGTTTCAGGTCATTGGAGCAAATGGTTCTTGTTCATTATC
GTGAAACAAAGGAGGTTGGTGTTTACTACAAACAAAAAACTTTGAGATACCATTCCCGAATAAAG
CAGTCTTTTATGTTTCTTCCTACTCAGAACCAATTTGTGAATGATGTTTGTGGATTTGTGCGACA
AACAATTGCAGGTTTCACTAGCCACACATTCAAATTCAAGTTTGTTAACAGATCAGTCTACTCCT
TTGCTTGTTACAAAAGAGTTTGATTCTGGAATTGCTAATACATATTCTGAAGGTGAGAGGAGTCT
AGGTGATGTTGAAATTTTCCAGAGATTAATCAG
Found at i:38267964 original size:31 final size:31
Alignment explanation
Indices: 38267929--38268105 Score: 230
Period size: 31 Copynumber: 5.7 Consensus size: 31
38267919 GTATATGTTT
* *
38267929 TATACATTGCCGAATTTGATTCGTATATAGA
1 TATACATTGCCGAATTTGATTTGTATATGGA
* *
38267960 TATACATTGCCAAATTTGATTTGTATATGGT
1 TATACATTGCCGAATTTGATTTGTATATGGA
38267991 TATACATTGCCGAATTTGATTTGTATATGGA
1 TATACATTGCCGAATTTGATTTGTATATGGA
* * * *
38268022 TATTCATTGCTGATTTTGATTTGTATATAGA
1 TATACATTGCCGAATTTGATTTGTATATGGA
* **
38268053 TATACATTGCCAAATTTGATCCGTATATGGA
1 TATACATTGCCGAATTTGATTTGTATATGGA
* *
38268084 TATATATTGTCGAA-TTGATTTG
1 TATACATTGCCGAATTTGATTTG
38268106 AGCATTGGAT
Statistics
Matches: 124, Mismatches: 22, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
30 6 0.05
31 118 0.95
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.44
Consensus pattern (31 bp):
TATACATTGCCGAATTTGATTTGTATATGGA
Found at i:38268068 original size:93 final size:92
Alignment explanation
Indices: 38267933--38268105 Score: 265
Period size: 93 Copynumber: 1.9 Consensus size: 92
38267923 ATGTTTTATA
** *
38267933 CATTGCCGAATTTGATTCGTATATAGATATACATTGCCAAATTTGATTTGTATATGGTTATACAT
1 CATTGCCGAATTTGATTCGTATATAGATATACATTGCCAAATTTGATCCGTATATGGATATACAT
38267998 TGCCGAATTTGATTTGTATATGGATATT
66 TGCCGAA-TTGATTTGTATATGGATATT
* * * *
38268026 CATTGCTGATTTTGATTTGTATATAGATATACATTGCCAAATTTGATCCGTATATGGATATATAT
1 CATTGCCGAATTTGATTCGTATATAGATATACATTGCCAAATTTGATCCGTATATGGATATACAT
*
38268091 TGTCGAATTGATTTG
66 TGCCGAATTGATTTG
38268106 AGCATTGGAT
Statistics
Matches: 72, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
92 8 0.11
93 64 0.89
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.43
Consensus pattern (92 bp):
CATTGCCGAATTTGATTCGTATATAGATATACATTGCCAAATTTGATCCGTATATGGATATACAT
TGCCGAATTGATTTGTATATGGATATT
Found at i:38270476 original size:24 final size:24
Alignment explanation
Indices: 38270448--38270499 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
38270438 TTTCTAGAAG
* *
38270448 ATTTAGTATTTATTAATATAATAT
1 ATTTAGCATTTATTAACATAATAT
*
38270472 ATTTAGCATTTATTAACATAATTT
1 ATTTAGCATTTATTAACATAATAT
38270496 ATTT
1 ATTT
38270500 GACCTACAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (24 bp):
ATTTAGCATTTATTAACATAATAT
Found at i:38272388 original size:50 final size:49
Alignment explanation
Indices: 38272314--38272420 Score: 205
Period size: 50 Copynumber: 2.2 Consensus size: 49
38272304 AATGAGACCC
38272314 CTATAACAATAATCAATTGAGCTTAGCTAGGTTAAACAACAATAGTCTA
1 CTATAACAATAATCAATTGAGCTTAGCTAGGTTAAACAACAATAGTCTA
38272363 CTATAATCAATAATCAATTGAGCTTAGCTAGGTTAAACAACAATAGTCTA
1 CTATAA-CAATAATCAATTGAGCTTAGCTAGGTTAAACAACAATAGTCTA
38272413 CTATAACA
1 CTATAACA
38272421 TTATTAAGTT
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
49 8 0.14
50 49 0.86
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.29
Consensus pattern (49 bp):
CTATAACAATAATCAATTGAGCTTAGCTAGGTTAAACAACAATAGTCTA
Found at i:38276925 original size:18 final size:17
Alignment explanation
Indices: 38276895--38276930 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
38276885 AAAATCATTA
38276895 ATTAAATTCTTGAAAAT
1 ATTAAATTCTTGAAAAT
*
38276912 ATTATAATTTTTGAAAAT
1 ATTA-AATTCTTGAAAAT
38276930 A
1 A
38276931 AAAATTAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (17 bp):
ATTAAATTCTTGAAAAT
Found at i:38279109 original size:91 final size:91
Alignment explanation
Indices: 38278938--38279110 Score: 222
Period size: 91 Copynumber: 1.9 Consensus size: 91
38278928 TTTCTAAAAC
* **
38278938 TTTACCAATATTTCTAAGGCTCCACCAAAGATTTCCTTAGTGTCCCAAACCCAATTAACTCAACA
1 TTTACCAATATTTCTAAGGCTCCACCAAAGATTTCCTTAATGTCCCAAACCCAACCAACTCAACA
* * **
38279003 TTTTGCCATTTCAAAATGCATATGGA
66 TTATGACATACCAAAATGCATATGGA
* ** * *
38279029 TTTACCAATATTTTTAAGAG-TTTACCAAAGATTTCCTTAATGTGCCAAACCCGACCAACTCAAC
1 TTTACCAATATTTCTAAG-GCTCCACCAAAGATTTCCTTAATGTCCCAAACCCAACCAACTCAAC
38279093 ATTATGACATACCAAAAT
65 ATTATGACATACCAAAAT
38279111 TTCTAAGGAT
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
91 68 0.99
92 1 0.01
ACGTcount: A:0.35, C:0.24, G:0.09, T:0.31
Consensus pattern (91 bp):
TTTACCAATATTTCTAAGGCTCCACCAAAGATTTCCTTAATGTCCCAAACCCAACCAACTCAACA
TTATGACATACCAAAATGCATATGGA
Found at i:38279131 original size:20 final size:20
Alignment explanation
Indices: 38279106--38279282 Score: 96
Period size: 20 Copynumber: 8.9 Consensus size: 20
38279096 ATGACATACC
38279106 AAAATTTCTAAGGATTTACT
1 AAAATTTCTAAGGATTTACT
* *
38279126 AAAATTTGTAAAGATTTA-T
1 AAAATTTCTAAGGATTTACT
*
38279145 AAAAATATT-TGAGGATTTA-T
1 -AAAAT-TTCTAAGGATTTACT
* *
38279165 CAAAATTTCTTA-GTTTATACT
1 -AAAATTTCTAAGGATT-TACT
* *
38279186 AAAATATCTAAGGATTTACC
1 AAAATTTCTAAGGATTTACT
* * * * *
38279206 ATAATTTGTAAAGA-TCACC
1 AAAATTTCTAAGGATTTACT
* *
38279225 AAAAATTCTAAGGATTTACC
1 AAAATTTCTAAGGATTTACT
* * *
38279245 ATAATTTATTAGG-TTATACT
1 AAAATTTCTAAGGATT-TACT
* *
38279265 AAAATATCTAAAGATTTA
1 AAAATTTCTAAGGATTTA
38279283 ACTATAAGGT
Statistics
Matches: 117, Mismatches: 31, Indels: 18
0.70 0.19 0.11
Matches are distributed among these distances:
19 22 0.19
20 87 0.74
21 8 0.07
ACGTcount: A:0.43, C:0.09, G:0.10, T:0.38
Consensus pattern (20 bp):
AAAATTTCTAAGGATTTACT
Found at i:38279161 original size:40 final size:41
Alignment explanation
Indices: 38279105--38279220 Score: 123
Period size: 40 Copynumber: 2.9 Consensus size: 41
38279095 TATGACATAC
*
38279105 CAAAATTTCTAAGGATTTACTAAAATTTGTAAAGATTTATA
1 CAAAATATCTAAGGATTTACTAAAATTTGTAAAGATTTATA
* * * *
38279146 -AAAATATTTGAGGATTTA-TCAAAATTTCT-TAG-TTTATA
1 CAAAATATCTAAGGATTTACT-AAAATTTGTAAAGATTTATA
* *
38279184 CTAAAATATCTAAGGATTTACCATAATTTGTAAAGAT
1 C-AAAATATCTAAGGATTTACTAAAATTTGTAAAGAT
38279221 CACCAAAAAT
Statistics
Matches: 58, Mismatches: 11, Indels: 11
0.73 0.14 0.14
Matches are distributed among these distances:
38 6 0.10
39 3 0.05
40 46 0.79
41 2 0.03
42 1 0.02
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (41 bp):
CAAAATATCTAAGGATTTACTAAAATTTGTAAAGATTTATA
Found at i:38279212 original size:80 final size:79
Alignment explanation
Indices: 38279101--38279282 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 79
38279091 ACATTATGAC
* * * * * * * *
38279101 ATACCAAAATTTCTAAGGATTTACTAAAATTTGTAAAGATTTA-TAAAAATATTTGAGGATTTAT
1 ATACTAAAATATCTAAGGATTTACCAAAATTTGTAAAGA-TCACCAAAAAT-TCTAAGGATTTAC
* *
38279165 CAAAATTTCTTAGTTT
64 CAAAATTTATTAGGTT
*
38279181 ATACTAAAATATCTAAGGATTTACCATAATTTGTAAAGATCACCAAAAATTCTAAGGATTTACCA
1 ATACTAAAATATCTAAGGATTTACCAAAATTTGTAAAGATCACCAAAAATTCTAAGGATTTACCA
*
38279246 TAATTTATTAGGTT
66 AAATTTATTAGGTT
*
38279260 ATACTAAAATATCTAAAGATTTA
1 ATACTAAAATATCTAAGGATTTA
38279283 ACTATAAGGT
Statistics
Matches: 88, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
79 47 0.53
80 41 0.47
ACGTcount: A:0.43, C:0.10, G:0.09, T:0.38
Consensus pattern (79 bp):
ATACTAAAATATCTAAGGATTTACCAAAATTTGTAAAGATCACCAAAAATTCTAAGGATTTACCA
AAATTTATTAGGTT
Found at i:38279269 original size:39 final size:40
Alignment explanation
Indices: 38279146--38279318 Score: 148
Period size: 40 Copynumber: 4.5 Consensus size: 40
38279136 AAGATTTATA
* * * * * *
38279146 AAAATATTTGAGGATTTATCAAAATTTCTTAGTTTATACT
1 AAAATATCTAAGGATTTACCATAATTTATTAGGTTATACT
* * * *
38279186 AAAATATCTAAGGATTTACCATAATTTGTAAAG--ATCACC
1 AAAATATCTAAGGATTTACCATAATTTATTAGGTTAT-ACT
38279225 AAAA-ATTCTAAGGATTTACCATAATTTATTAGGTTATACT
1 AAAATA-TCTAAGGATTTACCATAATTTATTAGGTTATACT
* *
38279265 AAAATATCTAAAGATTTAAC-T-A--TA--AGGTTATACT
1 AAAATATCTAAGGATTTACCATAATTTATTAGGTTATACT
*
38279299 AAAATATTTAAGGATTTACC
1 AAAATATCTAAGGATTTACC
38279319 TGAATTTTTA
Statistics
Matches: 110, Mismatches: 18, Indels: 16
0.76 0.12 0.11
Matches are distributed among these distances:
34 27 0.25
36 2 0.02
38 4 0.04
39 31 0.28
40 43 0.39
41 3 0.03
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (40 bp):
AAAATATCTAAGGATTTACCATAATTTATTAGGTTATACT
Found at i:38279453 original size:20 final size:20
Alignment explanation
Indices: 38279430--38279508 Score: 81
Period size: 20 Copynumber: 4.0 Consensus size: 20
38279420 TTTTTAAGGA
38279430 TTTACCAAAATTTATAAGAT
1 TTTACCAAAATTTATAAGAT
38279450 TTTACCAAAAATTT-TAAAGA-
1 TTTACC-AAAATTTAT-AAGAT
* * *
38279470 TTTATCAAAAATTATAAGGT
1 TTTACCAAAATTTATAAGAT
* *
38279490 TATACCAAAATATATAAGA
1 TTTACCAAAATTTATAAGA
38279509 GTATCAAAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
19 9 0.19
20 27 0.57
21 11 0.23
ACGTcount: A:0.49, C:0.09, G:0.06, T:0.35
Consensus pattern (20 bp):
TTTACCAAAATTTATAAGAT
Found at i:38279465 original size:40 final size:40
Alignment explanation
Indices: 38279421--38279499 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 40
38279411 ATACTAATCT
* * *
38279421 TTTTAAGGATTTACCAAAATTTATAAGATTTTACCAAAAA
1 TTTTAAAGATTTACCAAAAATTATAAGATTATACCAAAAA
* *
38279461 TTTTAAAGATTTATCAAAAATTATAAGGTTATACCAAAA
1 TTTTAAAGATTTACCAAAAATTATAAGATTATACCAAAA
38279500 TATATAAGAG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.47, C:0.09, G:0.08, T:0.37
Consensus pattern (40 bp):
TTTTAAAGATTTACCAAAAATTATAAGATTATACCAAAAA
Found at i:38279538 original size:20 final size:21
Alignment explanation
Indices: 38279513--38279565 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
38279503 ATAAGAGTAT
38279513 CAAAATTTCTAAA-GCCTTAC
1 CAAAATTTCTAAAGGCCTTAC
* **
38279533 CAAAATCTC-AAAGGGTTTAC
1 CAAAATTTCTAAAGGCCTTAC
38279553 CAAAATTTCTAAA
1 CAAAATTTCTAAA
38279566 AATTTCCTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 3 0.11
20 21 0.78
21 3 0.11
ACGTcount: A:0.43, C:0.21, G:0.08, T:0.28
Consensus pattern (21 bp):
CAAAATTTCTAAAGGCCTTAC
Found at i:38279635 original size:20 final size:20
Alignment explanation
Indices: 38279610--38279650 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
38279600 CATCTTGGCA
38279610 TACCAAAA-TTGCTAAAGATT
1 TACCAAAACTT-CTAAAGATT
*
38279630 TACCAAAACTTTTAAAGATT
1 TACCAAAACTTCTAAAGATT
38279650 T
1 T
38279651 CCTTAATGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.44, C:0.15, G:0.07, T:0.34
Consensus pattern (20 bp):
TACCAAAACTTCTAAAGATT
Found at i:38279768 original size:20 final size:20
Alignment explanation
Indices: 38279719--38279847 Score: 74
Period size: 20 Copynumber: 6.5 Consensus size: 20
38279709 AAGATGTACC
*
38279719 AAAATTTCTAAGGTTTTAC-
1 AAAATTTCTAAGGATTTACA
* *
38279738 -TAATATCTAAGGATTTACA
1 AAAATTTCTAAGGATTTACA
38279757 AAAATTTCTAA-GATTATA-A
1 AAAATTTCTAAGGATT-TACA
* *
38279776 CAAAATATCTAAGTATTTATC-
1 -AAAATTTCTAAGGATTTA-CA
* * * *
38279797 AATATTTCGAAAGCA-TTACC
1 AAAATTTC-TAAGGATTTACA
38279817 AAAATTTCTAAGGATTTA-A
1 AAAATTTCTAAGGATTTACA
*
38279836 CAATATTTCTAA
1 -AAAATTTCTAA
38279848 AAGTTTACCG
Statistics
Matches: 83, Mismatches: 16, Indels: 21
0.69 0.13 0.17
Matches are distributed among these distances:
18 15 0.18
19 10 0.12
20 51 0.61
21 7 0.08
ACGTcount: A:0.43, C:0.12, G:0.08, T:0.37
Consensus pattern (20 bp):
AAAATTTCTAAGGATTTACA
Found at i:38279856 original size:40 final size:40
Alignment explanation
Indices: 38279739--38279856 Score: 116
Period size: 40 Copynumber: 3.0 Consensus size: 40
38279729 AGGTTTTACT
* * *
38279739 AATATCTAAGGATTT-ACAAAAATTTCTAAGA-TTATAACAA
1 AATATCTAAGGATTTAAC-AATATTTCTAAAAGTT-TACCAA
* * * *
38279779 AATATCTAAGTATTTATCAATATTTC-GAAAGCATTACCAA
1 AATATCTAAGGATTTAACAATATTTCTAAAAG-TTTACCAA
*
38279819 AATTTCTAAGGATTTAACAATATTTCTAAAAGTTTACC
1 AATATCTAAGGATTTAACAATATTTCTAAAAGTTTACC
38279857 GATGTTTCTA
Statistics
Matches: 62, Mismatches: 12, Indels: 8
0.76 0.15 0.10
Matches are distributed among these distances:
39 2 0.03
40 54 0.87
41 6 0.10
ACGTcount: A:0.44, C:0.13, G:0.08, T:0.36
Consensus pattern (40 bp):
AATATCTAAGGATTTAACAATATTTCTAAAAGTTTACCAA
Found at i:38280048 original size:40 final size:40
Alignment explanation
Indices: 38280004--38280150 Score: 169
Period size: 40 Copynumber: 3.8 Consensus size: 40
38279994 ACCAAAATGC
* * * * *
38280004 CCTTAG-AATTTTTGGTAAATCCCTAGATATTTTGATTCAA
1 CCTTAGAAATTTTTGGTAAATCCTTATAAATTTTG-GTAAA
*
38280044 CCTTAGAAATTTTTTG-AAATCCTTATAAATTTTGGTAAA
1 CCTTAGAAATTTTTGGTAAATCCTTATAAATTTTGGTAAA
* *
38280083 GCCTTAGAAATTTTTTGAAAATCCTTATAAATTTTGGTAAA
1 -CCTTAGAAATTTTTGGTAAATCCTTATAAATTTTGGTAAA
38280124 CCTTAGAAA-TTTTGGTAAA-CCTT-TAAA
1 CCTTAGAAATTTTTGGTAAATCCTTATAAA
38280151 AATATCGGTA
Statistics
Matches: 96, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
37 4 0.04
38 4 0.04
39 11 0.11
40 46 0.48
41 31 0.32
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (40 bp):
CCTTAGAAATTTTTGGTAAATCCTTATAAATTTTGGTAAA
Found at i:38280110 original size:41 final size:39
Alignment explanation
Indices: 38280042--38280136 Score: 172
Period size: 40 Copynumber: 2.4 Consensus size: 39
38280032 ATTTTGATTC
38280042 AACCTTAGAAATTTTTTGAAATCCTTATAAATTTTGGTA
1 AACCTTAGAAATTTTTTGAAATCCTTATAAATTTTGGTA
38280081 AAGCCTTAGAAATTTTTTGAAAATCCTTATAAATTTTGGTA
1 AA-CCTTAGAAATTTTTTG-AAATCCTTATAAATTTTGGTA
38280122 AACCTTAGAAATTTT
1 AACCTTAGAAATTTT
38280137 GGTAAACCTT
Statistics
Matches: 54, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
39 2 0.04
40 29 0.54
41 23 0.43
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.42
Consensus pattern (39 bp):
AACCTTAGAAATTTTTTGAAATCCTTATAAATTTTGGTA
Found at i:38280127 original size:19 final size:20
Alignment explanation
Indices: 38280004--38280146 Score: 132
Period size: 20 Copynumber: 7.2 Consensus size: 20
38279994 ACCAAAATGC
*
38280004 CCTTAGAATTTTTGGTAAAT
1 CCTTAGAAATTTTGGTAAAT
* * * *
38280024 CCCTAGATATTTTGATTCAA-
1 CCTTAGAAATTTTG-GTAAAT
*
38280044 CCTTAGAAATTTT-TTGAAAT
1 CCTTAGAAATTTTGGT-AAAT
* *
38280064 CCTTATAAATTTTGGTAAAG
1 CCTTAGAAATTTTGGTAAAT
* *
38280084 CCTTAGAAATTTTTTGAAAAT
1 CCTTAGAAA-TTTTGGTAAAT
*
38280105 CCTTATAAATTTTGGTAAA-
1 CCTTAGAAATTTTGGTAAAT
38280124 CCTTAGAAATTTTGGTAAA-
1 CCTTAGAAATTTTGGTAAAT
38280143 CCTT
1 CCTT
38280147 TAAAAATATC
Statistics
Matches: 99, Mismatches: 19, Indels: 11
0.77 0.15 0.09
Matches are distributed among these distances:
18 2 0.02
19 24 0.24
20 53 0.54
21 20 0.20
ACGTcount: A:0.34, C:0.13, G:0.12, T:0.42
Consensus pattern (20 bp):
CCTTAGAAATTTTGGTAAAT
Found at i:38280160 original size:20 final size:20
Alignment explanation
Indices: 38280118--38280172 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
38280108 TATAAATTTT
* * *
38280118 GGTAAACC-TTAGAAATTTT
1 GGTAAACCTTTAAAAATATC
38280137 GGTAAACCTTTAAAAATATC
1 GGTAAACCTTTAAAAATATC
**
38280157 GGTAAATATTTAAAAA
1 GGTAAACCTTTAAAAA
38280173 ATTTGGTATG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 8 0.27
20 22 0.73
ACGTcount: A:0.45, C:0.09, G:0.13, T:0.33
Consensus pattern (20 bp):
GGTAAACCTTTAAAAATATC
Found at i:38280180 original size:20 final size:19
Alignment explanation
Indices: 38280115--38280180 Score: 53
Period size: 20 Copynumber: 3.4 Consensus size: 19
38280105 CCTTATAAAT
* *
38280115 TTTGGTAAAC-CTTAGAAAT
1 TTTGGTAAACATTTA-AAAA
*
38280134 TTTGGTAAACCTTTAAAAA
1 TTTGGTAAACATTTAAAAA
* *
38280153 TATCGGTAAATATTTAAAAAA
1 T-TTGGTAAACATTT-AAAAA
38280174 TTTGGTA
1 TTTGGTA
38280181 TGCCAAAATG
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
19 14 0.37
20 18 0.47
21 6 0.16
ACGTcount: A:0.41, C:0.08, G:0.14, T:0.38
Consensus pattern (19 bp):
TTTGGTAAACATTTAAAAA
Found at i:38288883 original size:18 final size:19
Alignment explanation
Indices: 38288860--38288901 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
38288850 TAGCAAAAAT
38288860 AATTTTAA-AATTAATAAA
1 AATTTTAAGAATTAATAAA
* *
38288878 AATTTTAAGAATTATTTAA
1 AATTTTAAGAATTAATAAA
38288897 AATTT
1 AATTT
38288902 GATATCACTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
AATTTTAAGAATTAATAAA
Found at i:38288991 original size:20 final size:21
Alignment explanation
Indices: 38288949--38288991 Score: 54
Period size: 19 Copynumber: 2.1 Consensus size: 21
38288939 TCATACCAAC
*
38288949 TAAAAAATTATTTAAAAATTA
1 TAAAAAATTATTTAAAAAATA
38288970 TAAAAAA-TA-TTAAAAACATA
1 TAAAAAATTATTTAAAAA-ATA
38288990 TA
1 TA
38288992 GTAAGTGGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 7 0.35
20 6 0.30
21 7 0.35
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
TAAAAAATTATTTAAAAAATA
Found at i:38289499 original size:15 final size:17
Alignment explanation
Indices: 38289479--38289511 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
38289469 TATTTGGATG
38289479 ATTAAATT-TT-TTATT
1 ATTAAATTATTGTTATT
38289494 ATTAAATTATTGTTATT
1 ATTAAATTATTGTTATT
38289511 A
1 A
38289512 AATATGCTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 2 0.12
17 6 0.38
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
ATTAAATTATTGTTATT
Found at i:38289547 original size:22 final size:24
Alignment explanation
Indices: 38289495--38289548 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 24
38289485 TTTTTTATTA
38289495 TTAAATTATTGTTATTAAATATGCT
1 TTAAATTATTGTTATT-AATATGCT
*
38289520 TAAAATTATTG-TATT-ATAT-CTT
1 TTAAATTATTGTTATTAATATGC-T
38289542 TTAAATT
1 TTAAATT
38289549 GAATTTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 1 0.04
22 11 0.42
24 4 0.15
25 10 0.38
ACGTcount: A:0.37, C:0.04, G:0.06, T:0.54
Consensus pattern (24 bp):
TTAAATTATTGTTATTAATATGCT
Found at i:38292018 original size:29 final size:29
Alignment explanation
Indices: 38291985--38292044 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
38291975 TCGCTGATCT
38291985 CATTCGGTATATAATATAACATTCAATAA
1 CATTCGGTATATAATATAACATTCAATAA
*
38292014 CATTCGGTATATAATATAACATTTAATAA
1 CATTCGGTATATAATATAACATTCAATAA
38292043 CA
1 CA
38292045 GTATATTAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.45, C:0.13, G:0.07, T:0.35
Consensus pattern (29 bp):
CATTCGGTATATAATATAACATTCAATAA
Found at i:38292477 original size:22 final size:23
Alignment explanation
Indices: 38292424--38292476 Score: 106
Period size: 23 Copynumber: 2.3 Consensus size: 23
38292414 GTCCTTTTTG
38292424 ACATTTTTACAAAAATGCCTCCA
1 ACATTTTTACAAAAATGCCTCCA
38292447 ACATTTTTACAAAAATGCCTCCA
1 ACATTTTTACAAAAATGCCTCCA
38292470 ACATTTT
1 ACATTTT
38292477 ATTTTTATTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.38, C:0.25, G:0.04, T:0.34
Consensus pattern (23 bp):
ACATTTTTACAAAAATGCCTCCA
Found at i:38295028 original size:43 final size:43
Alignment explanation
Indices: 38294981--38295103 Score: 219
Period size: 43 Copynumber: 2.8 Consensus size: 43
38294971 TATGATTTCA
38294981 TGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTTTG
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTTTG
*
38295024 TGTAAGACCATGTCTGGGACATTGGCATCAATATGAGATTTTG
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTTTG
*
38295067 TGTAAGACCATGTCTGGGACATTGGCATTGTATATGA
1 TGTAAGACCATGTCTGGGACATTGGCATCG-ATATGA
38295104 TTATAACATG
Statistics
Matches: 76, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
43 70 0.92
44 6 0.08
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.33
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTTTG
Found at i:38299170 original size:23 final size:24
Alignment explanation
Indices: 38299144--38299195 Score: 74
Period size: 23 Copynumber: 2.2 Consensus size: 24
38299134 CCAAAAAATA
38299144 TTAAATATAT-ATA-TTTTTTATTT
1 TTAAATATATAATAGTTTTTTA-TT
38299167 TTAAA-ATATAATAGTTTTTTATT
1 TTAAATATATAATAGTTTTTTATT
38299190 TTAAAT
1 TTAAAT
38299196 TTATTTACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
22 4 0.15
23 15 0.58
24 7 0.27
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (24 bp):
TTAAATATATAATAGTTTTTTATT
Found at i:38299175 original size:24 final size:24
Alignment explanation
Indices: 38299146--38299191 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
38299136 AAAAAATATT
38299146 AAATATATATA-TTTTTTATTTTTA
1 AAATATA-ATAGTTTTTTATTTTTA
38299170 AAATATAATAGTTTTTTATTTT
1 AAATATAATAGTTTTTTATTTT
38299192 AAATTTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 3 0.14
24 18 0.86
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AAATATAATAGTTTTTTATTTTTA
Found at i:38299338 original size:29 final size:30
Alignment explanation
Indices: 38299258--38299338 Score: 69
Period size: 29 Copynumber: 2.8 Consensus size: 30
38299248 TCAAGTTTGT
*
38299258 TTTACTAATCAAATGTTAGATTTGTTACAA
1 TTTACTAATCAAATGTTAGATTTGATACAA
** * * **
38299288 -CAATTAATACAATTAATA-ATTTGATA-AA
1 TTTACTAAT-CAAATGTTAGATTTGATACAA
38299316 TTTACTAATCAAATGTTAGATTT
1 TTTACTAATCAAATGTTAGATTT
38299339 TATTACAACA
Statistics
Matches: 35, Mismatches: 13, Indels: 7
0.64 0.24 0.13
Matches are distributed among these distances:
28 8 0.23
29 21 0.60
30 6 0.17
ACGTcount: A:0.42, C:0.09, G:0.07, T:0.42
Consensus pattern (30 bp):
TTTACTAATCAAATGTTAGATTTGATACAA
Found at i:38299833 original size:32 final size:30
Alignment explanation
Indices: 38299785--38299847 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 30
38299775 AGTTTAGTAT
* *
38299785 TATTTCTAAAAAATATTTTTGAGATAAAAA
1 TATTGCTAAAAAATATTTTTGAGACAAAAA
*
38299815 TATTGCTAAACAAGATATTTTTGGGACAAAAA
1 TATTGCTAAA-AA-ATATTTTTGAGACAAAAA
38299847 T
1 T
38299848 GCGATGCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 9 0.32
31 2 0.07
32 17 0.61
ACGTcount: A:0.46, C:0.06, G:0.11, T:0.37
Consensus pattern (30 bp):
TATTGCTAAAAAATATTTTTGAGACAAAAA
Found at i:38301369 original size:27 final size:29
Alignment explanation
Indices: 38301339--38301398 Score: 97
Period size: 27 Copynumber: 2.1 Consensus size: 29
38301329 TGTGTCATTT
38301339 GGTTAGGGTTTTGG-GTTATT-GGTTTAG
1 GGTTAGGGTTTTGGTGTTATTAGGTTTAG
*
38301366 GGTTAGGGTTTTGGTGTTTTTAGGTTTAG
1 GGTTAGGGTTTTGGTGTTATTAGGTTTAG
38301395 GGTT
1 GGTT
38301399 TAGAGAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 14 0.47
28 5 0.17
29 11 0.37
ACGTcount: A:0.10, C:0.00, G:0.40, T:0.50
Consensus pattern (29 bp):
GGTTAGGGTTTTGGTGTTATTAGGTTTAG
Found at i:38301692 original size:7 final size:7
Alignment explanation
Indices: 38301670--38301705 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
38301660 AAAAATTAGA
38301670 TTAGGGT
1 TTAGGGT
* *
38301677 TTTGTGT
1 TTAGGGT
38301684 TTAGGGT
1 TTAGGGT
38301691 TTAGGGT
1 TTAGGGT
38301698 TTAGGGT
1 TTAGGGT
38301705 T
1 T
38301706 GCTTAATTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.11, C:0.00, G:0.39, T:0.50
Consensus pattern (7 bp):
TTAGGGT
Found at i:38301692 original size:96 final size:96
Alignment explanation
Indices: 38301448--38301692 Score: 298
Period size: 96 Copynumber: 2.6 Consensus size: 96
38301438 GTTTGTCAAT
** * * * *
38301448 TAAATTAATTAT-AAATTTTTCAAAATTGGATTA-GGTTTCGTGTTTATTGTTTTTTAAGAAAAA
1 TAAATTAATTATAAAATTTTAAAAAATTAGATTAGGGTTTAGTGTTTA-AGGTTTTTAAGAAAAA
* * *
38301511 ATCAATTGAATTAGGGTTTAGGGTTACTTGAG
65 ATCAAATAAATTAGGGTTTAGAGTTACTTGAG
* * * * *
38301543 TAATTTAATTA-AAATTTTTAAAAAAATTAGATTAGGGTTTAGAGTTAAAGGTTTTTACGAAAAA
1 TAAATTAATTATAAAATTTT-AAAAAATTAGATTAGGGTTTAGTGTTTAAGGTTTTTAAGAAAAA
*
38301607 ATTAAATAAATTAGGGTTTAGAGTTACTTGAG
65 ATCAAATAAATTAGGGTTTAGAGTTACTTGAG
* *
38301639 TAAATTAATTATAAAATTTTAAAAAATTAGATTAGGGTTTTGTGTTTAGGGTTT
1 TAAATTAATTATAAAATTTTAAAAAATTAGATTAGGGTTTAGTGTTTAAGGTTT
38301693 AGGGTTTAGG
Statistics
Matches: 125, Mismatches: 21, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
95 16 0.13
96 92 0.74
97 17 0.14
ACGTcount: A:0.38, C:0.02, G:0.17, T:0.42
Consensus pattern (96 bp):
TAAATTAATTATAAAATTTTAAAAAATTAGATTAGGGTTTAGTGTTTAAGGTTTTTAAGAAAAAA
TCAAATAAATTAGGGTTTAGAGTTACTTGAG
Found at i:38301930 original size:126 final size:126
Alignment explanation
Indices: 38301731--38302143 Score: 691
Period size: 126 Copynumber: 3.3 Consensus size: 126
38301721 TAATTTAAAT
* * *
38301731 AAGCTCTCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGATGTTT
1 AAGCTCCCACGTGGACGCACTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTT
*
38301796 CTGAGCAAATGGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAATAGTACTGAAAG
66 CTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAATAGTACTGAAAG
* *
38301857 AAGCTCCCACGTGGATGCACTTTTGTTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTT
1 AAGCTCCCACGTGGACGCACTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTT
* *
38301922 CTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAATAGCATTGAAAG
66 CTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAATAGTACTGAAAG
* *
38301983 AAGCTCCCACGTGGACGCACTTTTGTTACAGTAGCTCCTGAAAAAATAATTTCGAATAGACGTTT
1 AAGCTCCCACGTGGACGCACTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTT
* * *
38302048 CTGAGAAAATAGTGTCAAAAATGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTGAAAG
66 CTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAATAGTACTGAAAG
* *
38302109 AAGCTCCCACGTAGACGCGCTTTTGCTACAGTAGC
1 AAGCTCCCACGTGGACGCACTTTTGCTACAGTAGC
38302144 GCATGTTTGG
Statistics
Matches: 269, Mismatches: 18, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
126 269 1.00
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (126 bp):
AAGCTCCCACGTGGACGCACTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTT
CTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAATAGTACTGAAAG
Found at i:38305328 original size:21 final size:21
Alignment explanation
Indices: 38305285--38305343 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
38305275 GTCCAGCTTT
* *
38305285 CGGCAGGGGTTGTGGTTACTC
1 CGGCAGGGATTCTGGTTACTC
38305306 CGGCAGGGATTCTGGTT-CTTC
1 CGGCAGGGATTCTGGTTAC-TC
*
38305327 CGGTAGAGGA-TCTGGTT
1 CGGCAG-GGATTCTGGTT
38305344 GTCGGTGTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 1 0.03
21 29 0.88
22 3 0.09
ACGTcount: A:0.12, C:0.19, G:0.39, T:0.31
Consensus pattern (21 bp):
CGGCAGGGATTCTGGTTACTC
Found at i:38305611 original size:18 final size:18
Alignment explanation
Indices: 38305585--38305627 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
38305575 GACTAGAAAA
* * *
38305585 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
38305603 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
38305621 AGGATAC
1 AGGATAC
38305628 GCACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:38305722 original size:30 final size:30
Alignment explanation
Indices: 38305688--38305746 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
38305678 TGCTGGGTTG
* * * *
38305688 GGTGACTGTATTGGTGCTGTTGCTGGGCCT
1 GGTGACTGTATGGGTACTGATGATGGGCCT
*
38305718 GGTGATTGTATGGGTACTGATGATGGGCC
1 GGTGACTGTATGGGTACTGATGATGGGCC
38305747 GGGTAATTGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.12, C:0.14, G:0.41, T:0.34
Consensus pattern (30 bp):
GGTGACTGTATGGGTACTGATGATGGGCCT
Found at i:38306291 original size:7 final size:7
Alignment explanation
Indices: 38306281--38306313 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
38306271 CATAATACAT
38306281 AATACTA
1 AATACTA
38306288 AATACTA
1 AATACTA
38306295 AATACTA
1 AATACTA
38306302 AATACTA
1 AATACTA
38306309 AATAC
1 AATAC
38306314 CAATCGACTA
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:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:38309348 original size:46 final size:45
Alignment explanation
Indices: 38309199--38309349 Score: 124
Period size: 46 Copynumber: 3.1 Consensus size: 45
38309189 CCTGTACAGA
*
38309199 AAAAAAATTCGAGTTTTGGTCTGTCAATGGTCGGCACCAGAGTACG
1 AAAAAAATTCGAG-TTTGGTCTGTCAATGGCCGGCACCAGAGTACG
* * * * * *
38309245 AAAAAAAATTTTTTTTTGGGTGTTGGCCTGTCAATGGCCGACACCCA-TGTACA
1 -AAAAAAA------TTCGAGT-TTGGTCTGTCAATGGCCGGCA-CCAGAGTACG
*
38309298 AAAAAAATTCGAGTTTCGGTCTGTAAATGGCCGGCACCAGAGTACG
1 AAAAAAATTCGAGTTT-GGTCTGTCAATGGCCGGCACCAGAGTACG
38309344 AAAAAA
1 AAAAAA
38309350 GAAAAAAAAA
Statistics
Matches: 80, Mismatches: 14, Indels: 21
0.70 0.12 0.18
Matches are distributed among these distances:
45 5 0.06
46 31 0.39
47 7 0.09
52 8 0.10
53 26 0.32
54 3 0.04
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (45 bp):
AAAAAAATTCGAGTTTGGTCTGTCAATGGCCGGCACCAGAGTACG
Found at i:38309434 original size:107 final size:104
Alignment explanation
Indices: 38309257--38309463 Score: 308
Period size: 107 Copynumber: 2.0 Consensus size: 104
38309247 AAAAAATTTT
*
38309257 TTTTTGGGTGTTGGCCTGTCAATGGCCGACACCCATGTACAAAAAAAATTCGAGTTTCGGTCTGT
1 TTTTTGGGTGCTGGCCTGTCAATGGCCGACACCCATGTACAAAAAAAATTCGAGTTTCGGTCTGT
*
38309322 AAATGGCCGGCACCAGAGTACGAAAAAAGAAAAAAAAAA
66 AAATGGCCGGAACCAGAGTACGAAAAAAGAAAAAAAAAA
** *
38309361 TTTTTGGGTGCTGGCCTGTCAATGGCCGGTACCC-TGTACAGTAAAAAAAAATTCGAGTTTTGGT
1 TTTTTGGGTGCTGGCCTGTCAATGGCCGACACCCATGTAC----AAAAAAAATTCGAGTTTCGGT
* *
38309425 CTGTCAATGGCCGGAACCAGAGTACGAAAAAAGTAAAAA
62 CTGTAAATGGCCGGAACCAGAGTACGAAAAAAGAAAAAA
38309464 TTTTTTTGGT
Statistics
Matches: 92, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
103 5 0.05
104 31 0.34
107 56 0.61
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (104 bp):
TTTTTGGGTGCTGGCCTGTCAATGGCCGACACCCATGTACAAAAAAAATTCGAGTTTCGGTCTGT
AAATGGCCGGAACCAGAGTACGAAAAAAGAAAAAAAAAA
Found at i:38309469 original size:104 final size:101
Alignment explanation
Indices: 38309157--38309491 Score: 417
Period size: 104 Copynumber: 3.3 Consensus size: 101
38309147 GAAAAAAAAA
38309157 TTTTGGGTGCTGGCCTGTCAATGGCCGGCATA-CCTGTACAGAAAAAAAATTCGAGTTTTGGTCT
1 TTTTGGGTGCTGGCCTGTCAATGGCCGG--TACCCTGTACAGAAAAAAAATTCGAGTTTTGGTCT
* ***
38309221 GTCAATGGTCGGCACCAGAGTACGAAAAAA-AATTTTT
64 GTCAATGGCCGGCACCAGAGTACGAAAAAAGAAAAATT
* ** *
38309258 TTTTGGGTGTTGGCCTGTCAATGGCCGACACCCATGTAC--AAAAAAAATTCGAGTTTCGGTCTG
1 TTTTGGGTGCTGGCCTGTCAATGGCCGGTACCC-TGTACAGAAAAAAAATTCGAGTTTTGGTCTG
* *
38309321 TAAATGGCCGGCACCAGAGTACGAAAAAAGAAAAAAAAAAT
65 TCAATGGCCGGCACCAGAGTACGAAAAAAG----AAAAATT
38309362 TTTTGGGTGCTGGCCTGTCAATGGCCGGTACCCTGTACAGTAAAAAAAAATTCGAGTTTTGGTCT
1 TTTTGGGTGCTGGCCTGTCAATGGCCGGTACCCTGTACAG--AAAAAAAATTCGAGTTTTGGTCT
*
38309427 GTCAATGGCCGGAACCAGAGTACGAAAAAAGTAAAAATT
64 GTCAATGGCCGGCACCAGAGTACGAAAAAAG-AAAAATT
* * * *
38309466 TTTTTGGTGGTGGTCTGCCAATGGCC
1 TTTTGGGTGCTGGCCTGTCAATGGCC
38309492 AGCACCACCT
Statistics
Matches: 201, Mismatches: 22, Indels: 19
0.83 0.09 0.08
Matches are distributed among these distances:
99 51 0.25
100 2 0.01
101 31 0.15
103 5 0.02
104 61 0.30
107 51 0.25
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (101 bp):
TTTTGGGTGCTGGCCTGTCAATGGCCGGTACCCTGTACAGAAAAAAAATTCGAGTTTTGGTCTGT
CAATGGCCGGCACCAGAGTACGAAAAAAGAAAAATT
Found at i:38316754 original size:22 final size:22
Alignment explanation
Indices: 38316723--38316774 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
38316713 GAATGATGGG
38316723 TAAGAACTCTT-AATAAAAAAAA
1 TAAGAACTCTTCAA-AAAAAAAA
* *
38316745 TAAGATCTCTTCAAAATAAAAA
1 TAAGAACTCTTCAAAAAAAAAA
*
38316767 TAAAAACT
1 TAAGAACT
38316775 TTTTCTCTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
22 23 0.92
23 2 0.08
ACGTcount: A:0.60, C:0.12, G:0.04, T:0.25
Consensus pattern (22 bp):
TAAGAACTCTTCAAAAAAAAAA
Found at i:38321008 original size:35 final size:34
Alignment explanation
Indices: 38320925--38321089 Score: 163
Period size: 35 Copynumber: 4.8 Consensus size: 34
38320915 AATCTAACCA
* * *
38320925 AAACACACCAGATGCTCACAAGAGCCAATTCATCCG
1 AAACACACCA-ATGCTCATAAGAGCTAATCCAT-CG
* * *
38320961 --ACACAACAATGCTCATAAGAGTTAATCCATCT
1 AAACACACCAATGCTCATAAGAGCTAATCCATCG
* *
38320993 AAAGCACACCAATGCTCATAAAAGCTAATTCCTTCG
1 AAA-CACACCAATGCTCATAAGAGCTAA-TCCATCG
* * *
38321029 AAACATACCAATGCTCATAAGAGCTAGTCCCTCCG
1 AAACACACCAATGCTCATAAGAGCTAATCCAT-CG
*
38321064 AAACACACCAATACTCATAAGAGCTA
1 AAACACACCAATGCTCATAAGAGCTA
38321090 GTCTAACCTA
Statistics
Matches: 107, Mismatches: 17, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
32 1 0.01
33 18 0.17
34 12 0.11
35 68 0.64
36 8 0.07
ACGTcount: A:0.40, C:0.29, G:0.12, T:0.19
Consensus pattern (34 bp):
AAACACACCAATGCTCATAAGAGCTAATCCATCG
Found at i:38321023 original size:68 final size:70
Alignment explanation
Indices: 38320925--38321089 Score: 192
Period size: 70 Copynumber: 2.4 Consensus size: 70
38320915 AATCTAACCA
* * * *
38320925 AAACACACCAGATGCTCACAAGAGCCAATTCATCCGACACA-A-CAATGCTCATAAGAGTTAATC
1 AAACACACCA-ATGCTCATAAGAGCTAATTCATCCGAAACATACCAATGCTCATAAGAGCTAATC
*
38320988 CAT-CT
65 CATCCG
* * * *
38320993 AAAGCACACCAATGCTCATAAAAGCTAATTCCTTCGAAACATACCAATGCTCATAAGAGCTAGTC
1 AAA-CACACCAATGCTCATAAGAGCTAATTCATCCGAAACATACCAATGCTCATAAGAGCTAATC
*
38321058 CCTCCG
65 CATCCG
*
38321064 AAACACACCAATACTCATAAGAGCTA
1 AAACACACCAATGCTCATAAGAGCTA
38321090 GTCTAACCTA
Statistics
Matches: 81, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
68 27 0.33
69 8 0.10
70 42 0.52
71 4 0.05
ACGTcount: A:0.40, C:0.29, G:0.12, T:0.19
Consensus pattern (70 bp):
AAACACACCAATGCTCATAAGAGCTAATTCATCCGAAACATACCAATGCTCATAAGAGCTAATCC
ATCCG
Found at i:38328539 original size:35 final size:35
Alignment explanation
Indices: 38328372--38328535 Score: 165
Period size: 35 Copynumber: 4.7 Consensus size: 35
38328362 AATCCAACCA
* * * *
38328372 AAACACACCAGATGCTTACAAGAGCCAATCCGTCCT
1 AAACACACCA-ATGCTCATAAGAGCTAATCCCTCCT
* * *
38328408 --ACACATC-ATGCTGATAAGAGTTAATCCCT-CT
1 AAACACACCAATGCTCATAAGAGCTAATCCCTCCT
* * *
38328439 AAAACACACCAATGCTAATAACAACTAATCCCTCCT
1 -AAACACACCAATGCTCATAAGAGCTAATCCCTCCT
* *
38328475 GAACACACCAATGCTCATAAGAGCTAGTCCCTCCT
1 AAACACACCAATGCTCATAAGAGCTAATCCCTCCT
*
38328510 AAACACACCAATACTCATAAGAGCTA
1 AAACACACCAATGCTCATAAGAGCTA
38328536 GTCCAATCGA
Statistics
Matches: 105, Mismatches: 18, Indels: 11
0.78 0.13 0.08
Matches are distributed among these distances:
31 2 0.02
32 17 0.16
34 12 0.11
35 72 0.69
36 2 0.02
ACGTcount: A:0.38, C:0.31, G:0.10, T:0.20
Consensus pattern (35 bp):
AAACACACCAATGCTCATAAGAGCTAATCCCTCCT
Found at i:38329502 original size:12 final size:12
Alignment explanation
Indices: 38329485--38329509 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
38329475 ATCAAACCAA
38329485 TTTTCTTTAAAT
1 TTTTCTTTAAAT
38329497 TTTTCTTTAAAT
1 TTTTCTTTAAAT
38329509 T
1 T
38329510 CTTTATTGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTTCTTTAAAT
Found at i:38333132 original size:25 final size:26
Alignment explanation
Indices: 38333072--38333125 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 26
38333062 GCTTCTTTTC
*
38333072 TTTT-TCTTTTCATTTTTAGATTAGG
1 TTTTCTCTTTTCATTTTTAGATTAGA
*
38333097 TTTTCTCTTTTC-TTTTTAGGTTAGA
1 TTTTCTCTTTTCATTTTTAGATTAGA
38333122 TTTT
1 TTTT
38333126 AGTTTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 19 0.73
26 7 0.27
ACGTcount: A:0.13, C:0.09, G:0.11, T:0.67
Consensus pattern (26 bp):
TTTTCTCTTTTCATTTTTAGATTAGA
Found at i:38340248 original size:5 final size:5
Alignment explanation
Indices: 38340222--38340261 Score: 55
Period size: 5 Copynumber: 7.8 Consensus size: 5
38340212 AAATGGGAAA
38340222 AAAAG TAAAAG AGAAA- AAAAG AAAAG AAAAG AAAAG AAAA
1 AAAAG -AAAAG A-AAAG AAAAG AAAAG AAAAG AAAAG AAAA
38340262 AAATAGTCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
4 3 0.09
5 21 0.66
6 8 0.25
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (5 bp):
AAAAG
Found at i:38340576 original size:6 final size:6
Alignment explanation
Indices: 38340567--38340599 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
38340557 ATGTTGGAGT
38340567 AGGTGA AGGTGA AGGTGA AGGTGA AGGTGA AGG
1 AGGTGA AGGTGA AGGTGA AGGTGA AGGTGA AGG
38340600 CGTGATTCGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.52, T:0.15
Consensus pattern (6 bp):
AGGTGA
Found at i:38343167 original size:7 final size:7
Alignment explanation
Indices: 38343155--38343193 Score: 69
Period size: 7 Copynumber: 5.6 Consensus size: 7
38343145 TGGTTAGTTC
*
38343155 AAAATTT
1 AAAATTG
38343162 AAAATTG
1 AAAATTG
38343169 AAAATTG
1 AAAATTG
38343176 AAAATTG
1 AAAATTG
38343183 AAAATTG
1 AAAATTG
38343190 AAAA
1 AAAA
38343194 ATTAATTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (7 bp):
AAAATTG
Done.