Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 47 of 295
Found at i:14069959 original size:16 final size:15
Alignment explanation
Indices: 14069932--14069985 Score: 90
Period size: 15 Copynumber: 3.5 Consensus size: 15
14069922 GATATCAAGT
14069932 TGAAAAAAAAATTCG
1 TGAAAAAAAAATTCG
14069947 TGAAAAGAAAAATTCG
1 TGAAAA-AAAAATTCG
*
14069963 TGAAAAAAAATTTCG
1 TGAAAAAAAAATTCG
14069978 TGAAAAAA
1 TGAAAAAA
14069986 GAAGAAGCTA
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
15 22 0.59
16 15 0.41
ACGTcount: A:0.59, C:0.06, G:0.15, T:0.20
Consensus pattern (15 bp):
TGAAAAAAAAATTCG
Found at i:14070169 original size:12 final size:13
Alignment explanation
Indices: 14070147--14070184 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
14070137 ATAGTAGTTT
14070147 CTCGAAAAAAAAA
1 CTCGAAAAAAAAA
14070160 CTCGAAAAAAAAA
1 CTCGAAAAAAAAA
*
14070173 TTC-AAAAAAAAA
1 CTCGAAAAAAAAA
14070185 ATTTGGTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 9 0.38
13 15 0.62
ACGTcount: A:0.71, C:0.13, G:0.05, T:0.11
Consensus pattern (13 bp):
CTCGAAAAAAAAA
Found at i:14081764 original size:18 final size:18
Alignment explanation
Indices: 14081743--14081781 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
14081733 GATTGAGAGT
* *
14081743 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
*
14081761 GAAAAGAAATTTGAAAAA
1 GAAAAGAAATGTGAAAAA
14081779 GAA
1 GAA
14081782 GTTGAAGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.23, T:0.13
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:14086459 original size:20 final size:20
Alignment explanation
Indices: 14086436--14086482 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
14086426 GGGTTAAGAT
*
14086436 TGAGCTGAATTGAGCTTGAA
1 TGAGCTGAATTGAGCTCGAA
* * *
14086456 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAA
14086476 TGAGCTG
1 TGAGCTG
14086483 GAAACGAGCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.13, G:0.34, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAA
Found at i:14089391 original size:12 final size:12
Alignment explanation
Indices: 14089376--14089411 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
14089366 TTTTGCTCGG
*
14089376 TTTTTTTTCACT
1 TTTTTTTTCAAT
*
14089388 TTTTTTTTGAAT
1 TTTTTTTTCAAT
14089400 TTTTTTTTCAAT
1 TTTTTTTTCAAT
14089412 CAAATTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.14, C:0.08, G:0.03, T:0.75
Consensus pattern (12 bp):
TTTTTTTTCAAT
Found at i:14089403 original size:13 final size:13
Alignment explanation
Indices: 14089387--14089446 Score: 52
Period size: 12 Copynumber: 4.5 Consensus size: 13
14089377 TTTTTTTCAC
14089387 TTTTTTTTTGAAT
1 TTTTTTTTTGAAT
*
14089400 TTTTTTTTCAATCAAAT
1 TTTTTTTT---T-GAAT
*
14089417 TTTTTTTTCGAA-
1 TTTTTTTTTGAAT
14089429 TTTTTTTTTG-AT
1 TTTTTTTTTGAAT
14089441 TTTTTT
1 TTTTTT
14089447 GTTACTCCAA
Statistics
Matches: 38, Mismatches: 4, Indels: 11
0.72 0.08 0.21
Matches are distributed among these distances:
11 1 0.03
12 15 0.39
13 10 0.26
16 1 0.03
17 11 0.29
ACGTcount: A:0.17, C:0.05, G:0.05, T:0.73
Consensus pattern (13 bp):
TTTTTTTTTGAAT
Found at i:14090964 original size:20 final size:20
Alignment explanation
Indices: 14090941--14090987 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
14090931 GGGTTAAGAT
*
14090941 TGAGCTGAATTGAGCTTGAA
1 TGAGCTGAATTGAGCTCGAA
* * *
14090961 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAA
14090981 TGAGCTG
1 TGAGCTG
14090988 GAAACGAGCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.13, G:0.34, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAA
Found at i:14093677 original size:45 final size:45
Alignment explanation
Indices: 14093628--14093905 Score: 493
Period size: 45 Copynumber: 6.2 Consensus size: 45
14093618 TCGGCCATGG
* * * *
14093628 TGCTTCCTCAATTTGTTCCATAAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
*
14093673 TGCTTCCTTAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
14093718 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
14093763 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
*
14093808 TGCTTCCTCAAATTCTCCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
*
14093853 TGCTTCCTCAAATTCTCCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
14093898 TGCTTCCT
1 TGCTTCCT
14093906 TAATTTCATG
Statistics
Matches: 226, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
45 226 1.00
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (45 bp):
TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
Found at i:14095390 original size:10 final size:10
Alignment explanation
Indices: 14095375--14095436 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
14095365 TTTGAACCAT
*
14095375 TACCAATTCG
1 TACCAATTCA
*
14095385 TACCAAATACCA
1 TACC-AAT-TCA
*
14095397 TACCATTTCA
1 TACCAATTCA
14095407 TACCAATTCCA
1 TACCAATT-CA
* *
14095418 TACCATTTCG
1 TACCAATTCA
14095428 TACCAATTC
1 TACCAATTC
14095437 CCAAATACCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 22 0.54
11 14 0.34
12 5 0.12
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.31
Consensus pattern (10 bp):
TACCAATTCA
Found at i:14095420 original size:21 final size:21
Alignment explanation
Indices: 14095375--14095437 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
14095365 TTTGAACCAT
* *
14095375 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
14095397 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
14095418 TACCATTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
14095438 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 25 0.68
22 12 0.32
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:14095768 original size:24 final size:24
Alignment explanation
Indices: 14095749--14095798 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
14095739 AAAAAAGGAG
14095749 TTCGAAAAAAAAAAGAAAAAAAAA
1 TTCGAAAAAAAAAAGAAAAAAAAA
*
14095773 TTTGAAAAAAAAAATTGAAAAAAAAA
1 TTCGAAAAAAAAAA--GAAAAAAAAA
14095799 ATTGCTTACG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 13 0.57
26 10 0.43
ACGTcount: A:0.76, C:0.02, G:0.08, T:0.14
Consensus pattern (24 bp):
TTCGAAAAAAAAAAGAAAAAAAAA
Found at i:14095769 original size:13 final size:13
Alignment explanation
Indices: 14095752--14095802 Score: 79
Period size: 13 Copynumber: 4.1 Consensus size: 13
14095742 AAAGGAGTTC
14095752 GAAAAAAAAAA--
1 GAAAAAAAAAATT
*
14095763 GAAAAAAAAATTT
1 GAAAAAAAAAATT
14095776 GAAAAAAAAAATT
1 GAAAAAAAAAATT
14095789 GAAAAAAAAAATT
1 GAAAAAAAAAATT
14095802 G
1 G
14095803 CTTACGGTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
11 10 0.28
13 26 0.72
ACGTcount: A:0.76, C:0.00, G:0.10, T:0.14
Consensus pattern (13 bp):
GAAAAAAAAAATT
Found at i:14098269 original size:18 final size:17
Alignment explanation
Indices: 14098246--14098283 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
14098236 GGAGTATCAC
14098246 AAAAAAAATCGAAAATAA
1 AAAAAAAATCGAAAA-AA
*
14098264 AAAAAAAATTGAAAAAA
1 AAAAAAAATCGAAAAAA
14098281 AAA
1 AAA
14098284 GAAGTGAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.82, C:0.03, G:0.05, T:0.11
Consensus pattern (17 bp):
AAAAAAAATCGAAAAAA
Found at i:14098303 original size:22 final size:20
Alignment explanation
Indices: 14098277--14098335 Score: 75
Period size: 19 Copynumber: 2.8 Consensus size: 20
14098267 AAAAATTGAA
14098277 AAAAAAAGAAGTGAGCAAAAAAG
1 AAAAAAA-AAGTGA--AAAAAAG
14098300 AAAAAAAAAGT-AAAAAAAG
1 AAAAAAAAAGTGAAAAAAAG
14098319 AAGAAAAAAAGTGAAAA
1 AA-AAAAAAAGTGAAAA
14098336 GTCTTGCGAG
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.26
20 9 0.26
21 5 0.15
22 4 0.12
23 7 0.21
ACGTcount: A:0.76, C:0.02, G:0.17, T:0.05
Consensus pattern (20 bp):
AAAAAAAAAGTGAAAAAAAG
Found at i:14098329 original size:11 final size:10
Alignment explanation
Indices: 14098293--14098328 Score: 54
Period size: 11 Copynumber: 3.4 Consensus size: 10
14098283 AGAAGTGAGC
14098293 AAAAAAGAAA
1 AAAAAAGAAA
14098303 AAAAAAGTAAA
1 AAAAAAG-AAA
14098314 AAAAGAAGAAA
1 AAAA-AAGAAA
14098325 AAAA
1 AAAA
14098329 GTGAAAAGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 7 0.29
11 14 0.58
12 3 0.12
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:14101174 original size:20 final size:20
Alignment explanation
Indices: 14101128--14101174 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
14101118 AGCTCGTTTC
* *
14101128 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCCCAAGT
* *
14101148 CAACTCACTCAAGCCCAATT
1 CAGCTCACTCAAGCCCAAGT
14101168 CAGCTCA
1 CAGCTCA
14101175 ATCTTAACCC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.38, G:0.13, T:0.19
Consensus pattern (20 bp):
CAGCTCACTCAAGCCCAAGT
Found at i:14106042 original size:17 final size:18
Alignment explanation
Indices: 14106003--14106044 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
14105993 AAGAAGAAAA
14106003 ACAAAA-AGATGAGTGAT
1 ACAAAAGAGATGAGTGAT
*
14106020 AAAAAAGAGA-GAGTGAT
1 ACAAAAGAGATGAGTGAT
*
14106037 TCAAAAGA
1 ACAAAAGA
14106045 AAAGAAACGA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 18 0.86
18 3 0.14
ACGTcount: A:0.57, C:0.05, G:0.24, T:0.14
Consensus pattern (18 bp):
ACAAAAGAGATGAGTGAT
Found at i:14106064 original size:22 final size:23
Alignment explanation
Indices: 14106022--14106076 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
14106012 TGAGTGATAA
*
14106022 AAAAGAGAGAGTGATTCAAAA-G
1 AAAAGAAAGAGTGATTCAAAATG
*
14106044 AAAAGAAACGAGTGA-TGAAAATG
1 AAAAGAAA-GAGTGATTCAAAATG
*
14106067 AAAAAAAAGA
1 AAAAGAAAGA
14106077 ATTTGTTGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.62, C:0.04, G:0.24, T:0.11
Consensus pattern (23 bp):
AAAAGAAAGAGTGATTCAAAATG
Found at i:14110850 original size:46 final size:42
Alignment explanation
Indices: 14110798--14110887 Score: 117
Period size: 46 Copynumber: 2.0 Consensus size: 42
14110788 ATAGTGTGGC
*
14110798 GTTCATCATAAACCAAGGTTCTTATCATCATTGATAGTGGGTCGAG
1 GTTCATCATAAACCAAGGTTCCTATCAT--TTGATAGT--GTCGAG
**
14110844 GTTCATCATATGCCAAGGTTCCTATCATTTGATAGTGTCGAG
1 GTTCATCATAAACCAAGGTTCCTATCATTTGATAGTGTCGAG
14110886 GT
1 GT
14110888 CTTTTCTTTG
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
42 8 0.20
44 8 0.20
46 25 0.61
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (42 bp):
GTTCATCATAAACCAAGGTTCCTATCATTTGATAGTGTCGAG
Found at i:14128749 original size:40 final size:41
Alignment explanation
Indices: 14128626--14128752 Score: 238
Period size: 41 Copynumber: 3.1 Consensus size: 41
14128616 NNNNNNNNNN
14128626 GCATTCGTGCGAGTTTTAAAATTCCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGAGTTTTAAAATTCCGGGTTAAGTCCCGAAG
14128667 GCATTCGTGCGAGTTTTAAAATTCCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGAGTTTTAAAATTCCGGGTTAAGTCCCGAAG
*
14128708 GCATTCGTGCGAGTTTTAAAA-TCCGGGTTAAGTCCCAAAG
1 GCATTCGTGCGAGTTTTAAAATTCCGGGTTAAGTCCCGAAG
14128748 GCATT
1 GCATT
14128753 GTATGAGTTA
Statistics
Matches: 85, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
40 23 0.27
41 62 0.73
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (41 bp):
GCATTCGTGCGAGTTTTAAAATTCCGGGTTAAGTCCCGAAG
Found at i:14142030 original size:22 final size:22
Alignment explanation
Indices: 14142005--14142049 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
14141995 TATGCATTTC
*
14142005 ATGC-ATTTTCATGCCATTAATA
1 ATGCAATTATCATG-CATTAATA
*
14142027 ATGCAATTATCATGCATTTATA
1 ATGCAATTATCATGCATTAATA
14142049 A
1 A
14142050 ATCATACAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.40
Consensus pattern (22 bp):
ATGCAATTATCATGCATTAATA
Found at i:14144479 original size:14 final size:15
Alignment explanation
Indices: 14144457--14144486 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
14144447 GAATATTAAA
14144457 ACAAGAATTAAGAAC
1 ACAAGAATTAAGAAC
14144472 ACAA-AATTAAGAAC
1 ACAAGAATTAAGAAC
14144486 A
1 A
14144487 AGTCAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.63, C:0.13, G:0.10, T:0.13
Consensus pattern (15 bp):
ACAAGAATTAAGAAC
Found at i:14148890 original size:20 final size:18
Alignment explanation
Indices: 14148852--14148895 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 18
14148842 AAACCCTAAT
14148852 TTTCCC-TTTTCTTTTTC
1 TTTCCCTTTTTCTTTTTC
14148869 TTTCCCTTTTTCCTTCTTTC
1 TTTCCCTTTTT-CTT-TTTC
14148889 TTTCCCT
1 TTTCCCT
14148896 GCTAATCGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.25
18 4 0.17
19 3 0.12
20 11 0.46
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTCCCTTTTTCTTTTTC
Found at i:14150353 original size:46 final size:45
Alignment explanation
Indices: 14150288--14150409 Score: 147
Period size: 46 Copynumber: 2.7 Consensus size: 45
14150278 TTATCTTTGA
* * *
14150288 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTAT-
1 CATGATGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTC-ATC
* *
14150334 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGC
1 CATGATGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT-C
* *
14150380 CACGCTGCCATGGTATCTTTCAACCATGGT
1 CATGATGCCATGGTATCTTTCAACCATGGT
14150410 TGTAATATCC
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
44 2 0.03
45 4 0.06
46 61 0.91
ACGTcount: A:0.20, C:0.25, G:0.16, T:0.39
Consensus pattern (45 bp):
CATGATGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATC
Found at i:14160735 original size:46 final size:46
Alignment explanation
Indices: 14160661--14160822 Score: 243
Period size: 46 Copynumber: 3.5 Consensus size: 46
14160651 GGGCGTTACA
** ** *
14160661 ATGGTCTTATTCATTTCCCATCATGTTGCCATGGTATCTTTCAACC
1 ATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACC
* ** *
14160707 ATGATCTTATTCATTTCATATCGGGTTGCCATGGTATCTTTCAACC
1 ATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACC
14160753 ATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACC
1 ATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACC
14160799 ATGGTCTTACACATTTCATATCAG
1 ATGGTCTTACACATTTCATATCAG
14160823 AGAGCACACT
Statistics
Matches: 107, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 107 1.00
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.40
Consensus pattern (46 bp):
ATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACC
Found at i:14164379 original size:13 final size:13
Alignment explanation
Indices: 14164361--14164425 Score: 69
Period size: 13 Copynumber: 4.9 Consensus size: 13
14164351 AGTTTGGCAA
14164361 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
14164374 TGCTTTTGAAAAAG
1 TGCTTTTG-AAAAG
*
14164388 TGC-TGTGAAAAAG
1 TGCTTTTG-AAAAG
* * *
14164401 TGTTTTTTAGAAG
1 TGCTTTTGAAAAG
14164414 TGCTTTTGAAAA
1 TGCTTTTGAAAA
14164426 TTTTGATTTA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
13 32 0.76
14 10 0.24
ACGTcount: A:0.32, C:0.06, G:0.23, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:14168059 original size:23 final size:23
Alignment explanation
Indices: 14168029--14168074 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
14168019 CACTCAACTT
14168029 TAAAAAATTACAAAATGTCACTA
1 TAAAAAATTACAAAATGTCACTA
14168052 TAAAAAATTACAAAATGTCACTA
1 TAAAAAATTACAAAATGTCACTA
14168075 GATTATTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.57, C:0.13, G:0.04, T:0.26
Consensus pattern (23 bp):
TAAAAAATTACAAAATGTCACTA
Found at i:14169390 original size:25 final size:23
Alignment explanation
Indices: 14169346--14169393 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 23
14169336 CTTTACTAAA
14169346 AATTTTTTTTATCTCCTCTTTTT
1 AATTTTTTTTATCTCCTCTTTTT
*
14169369 AATTTTTCTTTCATCTCTTCTTTTT
1 AATTTTT-TTT-ATCTCCTCTTTTT
14169394 TTTCAATGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 7 0.32
24 3 0.14
25 12 0.55
ACGTcount: A:0.12, C:0.19, G:0.00, T:0.69
Consensus pattern (23 bp):
AATTTTTTTTATCTCCTCTTTTT
Found at i:14172041 original size:20 final size:20
Alignment explanation
Indices: 14172016--14172069 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
14172006 GCAACAAAAC
*
14172016 ACAACAATAAAATAGT-AGAA
1 ACAACAGTAAAATAGTGA-AA
*
14172036 ACAACAGCAAAATAGTGAAA
1 ACAACAGTAAAATAGTGAAA
*
14172056 ACAGCAGTAAAATA
1 ACAACAGTAAAATA
14172070 CAGCAGCAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 28 0.97
21 1 0.03
ACGTcount: A:0.61, C:0.13, G:0.13, T:0.13
Consensus pattern (20 bp):
ACAACAGTAAAATAGTGAAA
Found at i:14173264 original size:27 final size:27
Alignment explanation
Indices: 14173222--14173286 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
14173212 GAAGAAGGTG
14173222 ACAGGCGGCACAGGTGGAGGCCCTG-C
1 ACAGGCGGCACAGGTGGAGGCCCTGCC
** * *
14173248 ATCAGGCGGCATTGGTGGTGGGCCTGCC
1 A-CAGGCGGCACAGGTGGAGGCCCTGCC
14173276 ACAGGCGGCAC
1 ACAGGCGGCAC
14173287 CGATAGTGTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
26 1 0.03
27 29 0.91
28 2 0.06
ACGTcount: A:0.17, C:0.29, G:0.42, T:0.12
Consensus pattern (27 bp):
ACAGGCGGCACAGGTGGAGGCCCTGCC
Found at i:14173400 original size:3 final size:3
Alignment explanation
Indices: 14173380--14173426 Score: 53
Period size: 3 Copynumber: 16.0 Consensus size: 3
14173370 TTAATTTTGC
* *
14173380 GAA GAAA GAA GGA GAA GAA GAA -AA GAA G-A GAA GAA GAA GAA GGA
1 GAA G-AA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
14173424 GAA
1 GAA
14173427 AGAGGCGGCA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
2 4 0.11
3 30 0.81
4 3 0.08
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:14173401 original size:16 final size:16
Alignment explanation
Indices: 14173380--14173426 Score: 71
Period size: 16 Copynumber: 3.0 Consensus size: 16
14173370 TTAATTTTGC
14173380 GAAGAAAGAAGGAGAA
1 GAAGAAAGAAGGAGAA
14173396 GAAGAAAAGAA-GAGAA
1 GAAG-AAAGAAGGAGAA
14173412 GAAG-AAGAAGGAGAA
1 GAAGAAAGAAGGAGAA
14173427 AGAGGCGGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
14 5 0.17
15 5 0.17
16 13 0.45
17 6 0.21
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (16 bp):
GAAGAAAGAAGGAGAA
Found at i:14173412 original size:22 final size:21
Alignment explanation
Indices: 14173381--14173421 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
14173371 TAATTTTGCG
*
14173381 AAGAAAGAAGGAGAAGAAGAA
1 AAGAAAGAAGAAGAAGAAGAA
14173402 AAGAAGAGAAGAAGAAGAAG
1 AAGAA-AGAAGAAGAAGAAG
14173422 GAGAAAGAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (21 bp):
AAGAAAGAAGAAGAAGAAGAA
Found at i:14173414 original size:25 final size:24
Alignment explanation
Indices: 14173380--14173427 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
14173370 TTAATTTTGC
*
14173380 GAAGAAAGAAGGAGAAGAAGAAAA
1 GAAGAAAGAAGAAGAAGAAGAAAA
*
14173404 GAAGAGAAGAAGAAGAAGGAGAAA
1 GAAGA-AAGAAGAAGAAGAAGAAA
14173428 GAGGCGGCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (24 bp):
GAAGAAAGAAGAAGAAGAAGAAAA
Found at i:14173915 original size:18 final size:17
Alignment explanation
Indices: 14173892--14173926 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
14173882 ACCTTTTACA
14173892 AAAATAGTATAAAAAAAT
1 AAAATAGTA-AAAAAAAT
*
14173910 AAAATATTAAAAAAAAT
1 AAAATAGTAAAAAAAAT
14173927 TTTTAATGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (17 bp):
AAAATAGTAAAAAAAAT
Found at i:14173958 original size:17 final size:16
Alignment explanation
Indices: 14173935--14173976 Score: 75
Period size: 17 Copynumber: 2.6 Consensus size: 16
14173925 ATTTTTAATG
14173935 AAAAAATAAAATACGA
1 AAAAAATAAAATACGA
14173951 AAAGAAATAAAATACGA
1 AAA-AAATAAAATACGA
14173968 AAAAAATAA
1 AAAAAATAA
14173977 CTTTTTTGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 9 0.36
17 16 0.64
ACGTcount: A:0.76, C:0.05, G:0.07, T:0.12
Consensus pattern (16 bp):
AAAAAATAAAATACGA
Found at i:14174303 original size:149 final size:149
Alignment explanation
Indices: 14174012--14174696 Score: 1035
Period size: 149 Copynumber: 4.6 Consensus size: 149
14174002 GGGTTTTTTT
* *
14174012 TACTAAAATAATATAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTGAAAATTT
1 TACTAAAATAATATAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAA-TA
* * * * * *
14174077 AAAAAATACAAACAAAGGGCCAAGATCAGGGTTATTTACTAAATTAATATAAAAAATACTAAAAT
65 AAAAAATACCAACAAAGGGCCAAAATCAAGGTTATTTATTAAATTAATATAAAAAACACTTAAAT
14174142 AATACATTTGAAACATTATG
130 AATACATTTGAAACATTATG
* * *
14174162 TACGAAAATAATATAAAAATAAAATAAGAAAATAGTATATTTTAAAAAATAAAATCTGAAAATAA
1 TACTAAAATAATATAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATAA
* *
14174227 AAAAATACCAACAAAGTGCCAAAATCAAGGTTATTTTTTAAATTAATATAAAAAACACTTAAATA
66 AAAAATACCAACAAAGGGCCAAAATCAAGGTTATTTATTAAATTAATATAAAAAACACTTAAATA
14174292 ATACATTTGAAACATTATG
131 ATACATTTGAAACATTATG
* *
14174311 TACTAAAATAATATAAAAATAAAATACTAAAATAGTATATTTTAAAAATTAAAATCCGAAAATAA
1 TACTAAAATAATATAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATAA
* * * *
14174376 AAAAATACAAACAAAGGACCAAAATCAGGGTTATTTAATAAATTAAT-TAAAAAAACACTTAAAT
66 AAAAATACCAACAAAGGGCCAAAATCAAGGTTATTTATTAAATTAATAT-AAAAAACACTTAAAT
14174440 AATACATTTGAAACATTATG
130 AATACATTTGAAACATTATG
*
14174460 TACTAAAATAATAT---AA-AAAATACGAAAATAATATATTTTAAAAAATAAAATCCGAAAATAA
1 TACTAAAATAATATAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATAA
* * * *
14174521 AAAAATACCAACAAATGGCCAAAAT-AAGGGTTATTTATTCAATTAATAT-AAATATACTTAAAT
66 AAAAATACCAACAAAGGGCCAAAATCAA-GGTTATTTATTAAATTAATATAAAAAACACTTAAAT
14174584 AATACATTTGAAACATTATG
130 AATACATTTGAAACATTATG
*
14174604 TACTAAAATAATATAAAAATAAAATATGAAAATAGTATATTTTAAAAAATAAAATCAC-AAAATA
1 TACTAAAATAATATAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATC-CGAAAAT-
*
14174668 AAAAAAAAACCAACAAAGGGCCAAAATCA
64 AAAAAAATACCAACAAAGGGCCAAAATCA
14174697 CCGAACAAAA
Statistics
Matches: 488, Mismatches: 37, Indels: 20
0.90 0.07 0.04
Matches are distributed among these distances:
144 47 0.10
145 81 0.17
146 3 0.01
147 2 0.00
148 40 0.08
149 254 0.52
150 61 0.12
ACGTcount: A:0.58, C:0.09, G:0.07, T:0.27
Consensus pattern (149 bp):
TACTAAAATAATATAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATAA
AAAAATACCAACAAAGGGCCAAAATCAAGGTTATTTATTAAATTAATATAAAAAACACTTAAATA
ATACATTTGAAACATTATG
Found at i:14174442 original size:298 final size:293
Alignment explanation
Indices: 14174012--14174696 Score: 1056
Period size: 294 Copynumber: 2.3 Consensus size: 293
14174002 GGGTTTTTTT
* * *
14174012 TACTAAAATAATATAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTGAAAATTT
1 TACTAAAATAATATAAAAATAAAATACTAAAATAGTATATTTTAAAAAATAAAATCCGAAAA-TA
* * *
14174077 AAAAAATACAAACAAAGGGCCAAGATCAGGGTTATTTACTAAATTAATATAAAAAATACTAAAAT
65 AAAAAATACAAACAAAGGGCCAAAATCAGGGTTATTTAATAAATTAATATAAAAAACACTAAAAT
*
14174142 AATACATTTGAAACATTATGTACGAAAATAATATAAAAATAAAATAAGAAAATAGTATATTTTAA
130 AATACATTTGAAACATTATGTACGAAAATAATAT---AA-AAAATAAGAAAATAATATATTTTAA
* *
14174207 AAAATAAAATCTGAAAATAAAAAAATACCAACAAA-GTGCCAAAATCAA-GGTTATTTTTTAAAT
191 AAAATAAAATCCGAAAATAAAAAAATACCAACAAATG-GCCAAAAT-AAGGGTTATTTATTAAAT
14174270 TAATATAAAAAACACTTAAATAATACATTTGAAACATTATG
254 TAATAT-AAAAACACTTAAATAATACATTTGAAACATTATG
*
14174311 TACTAAAATAATATAAAAATAAAATACTAAAATAGTATATTTTAAAAATTAAAATCCGAAAATAA
1 TACTAAAATAATATAAAAATAAAATACTAAAATAGTATATTTTAAAAAATAAAATCCGAAAATAA
* *
14174376 AAAAATACAAACAAAGGACCAAAATCAGGGTTATTTAATAAATTAAT-TAAAAAAACACTTAAAT
66 AAAAATACAAACAAAGGGCCAAAATCAGGGTTATTTAATAAATTAATAT-AAAAAACACTAAAAT
* *
14174440 AATACATTTGAAACATTATGTACTAAAATAATATAAAAAATACGAAAATAATATATTTTAAAAAA
130 AATACATTTGAAACATTATGTACGAAAATAATATAAAAAATAAGAAAATAATATATTTTAAAAAA
*
14174505 TAAAATCCGAAAATAAAAAAATACCAACAAATGGCCAAAATAAGGGTTATTTATTCAATTAATAT
195 TAAAATCCGAAAATAAAAAAATACCAACAAATGGCCAAAATAAGGGTTATTTATTAAATTAATAT
* *
14174570 AAATATACTTAAATAATACATTTGAAACATTATG
260 AAAAACACTTAAATAATACATTTGAAACATTATG
14174604 TACTAAAATAATATAAAAATAAAATA-TGAAAATAGTATATTTTAAAAAATAAAATCAC-AAAAT
1 TACTAAAATAATATAAAAATAAAATACT-AAAATAGTATATTTTAAAAAATAAAATC-CGAAAAT
* *
14174667 AAAAAAAAAACCAACAAAGGGCCAAAATCA
64 -AAAAAAATACAAACAAAGGGCCAAAATCA
14174697 CCGAACAAAA
Statistics
Matches: 359, Mismatches: 21, Indels: 17
0.90 0.05 0.04
Matches are distributed among these distances:
292 1 0.00
293 92 0.26
294 111 0.31
295 3 0.01
297 1 0.00
298 92 0.26
299 59 0.16
ACGTcount: A:0.58, C:0.09, G:0.07, T:0.27
Consensus pattern (293 bp):
TACTAAAATAATATAAAAATAAAATACTAAAATAGTATATTTTAAAAAATAAAATCCGAAAATAA
AAAAATACAAACAAAGGGCCAAAATCAGGGTTATTTAATAAATTAATATAAAAAACACTAAAATA
ATACATTTGAAACATTATGTACGAAAATAATATAAAAAATAAGAAAATAATATATTTTAAAAAAT
AAAATCCGAAAATAAAAAAATACCAACAAATGGCCAAAATAAGGGTTATTTATTAAATTAATATA
AAAACACTTAAATAATACATTTGAAACATTATG
Found at i:14174683 original size:20 final size:20
Alignment explanation
Indices: 14174646--14174684 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
14174636 TAGTATATTT
*
14174646 TAAAAAATAAAATCACAAAA
1 TAAAAAATAAAACCACAAAA
14174666 TAAAAAA-AAAACCAACAAA
1 TAAAAAATAAAACC-ACAAA
14174685 GGGCCAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.77, C:0.13, G:0.00, T:0.10
Consensus pattern (20 bp):
TAAAAAATAAAACCACAAAA
Found at i:14175950 original size:42 final size:43
Alignment explanation
Indices: 14175869--14176003 Score: 134
Period size: 43 Copynumber: 3.2 Consensus size: 43
14175859 TCCCGGACGT
* * **
14175869 GGTCTTATATGTAATTCAATATCGATGCCTCTGTCCCAGACAG
1 GGTCTTATACGTAAATCAATATCGATGCCGATGTCCCAGACAG
* *
14175912 GGTCTTATACG-AAATCAGATA-CGATGCCGATGTTCCAGACAT
1 GGTCTTATACGTAAATCA-ATATCGATGCCGATGTCCCAGACAG
* * *
14175954 GGTCTTATACGTAAATCTCA-ATCGAGGCCTG-TGTCCCAGACAC
1 GGTCTTATACGTAAATC-AATATCGATGCC-GATGTCCCAGACAG
14175997 GGTCTTA
1 GGTCTTA
14176004 CATGATATCT
Statistics
Matches: 77, Mismatches: 10, Indels: 10
0.79 0.10 0.10
Matches are distributed among these distances:
42 34 0.44
43 42 0.55
44 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.29
Consensus pattern (43 bp):
GGTCTTATACGTAAATCAATATCGATGCCGATGTCCCAGACAG
Found at i:14183257 original size:43 final size:41
Alignment explanation
Indices: 14183143--14183257 Score: 117
Period size: 42 Copynumber: 2.7 Consensus size: 41
14183133 GTAATTCAAT
* *
14183143 ATCGATGCCTCTGTCCCAGACAGGGTCTTATACAAAATTAG
1 ATCGATGCCTGTGTCCCAGACACGGTCTTATACAAAATTAG
* *
14183184 ATACGATGCC-GATGTCCCAGACATGCTCTTATACATAAATCTCA-
1 AT-CGATGCCTG-TGTCCCAGACACGGTCTTATACA-AAAT-T-AG
* *
14183228 ATCGAGGCCTGTGTCCTAGACACGGTCTTA
1 ATCGATGCCTGTGTCCCAGACACGGTCTTA
14183258 CACGATATCT
Statistics
Matches: 61, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
41 2 0.03
42 28 0.46
43 26 0.43
44 4 0.07
45 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (41 bp):
ATCGATGCCTGTGTCCCAGACACGGTCTTATACAAAATTAG
Found at i:14188230 original size:21 final size:21
Alignment explanation
Indices: 14188206--14188268 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
14188196 TAAACTATTA
14188206 ATTTTCAAAAGAAAACAGAGG
1 ATTTTCAAAAGAAAACAGAGG
*
14188227 ATTTCCAAAAGAAAACAGAGG
1 ATTTTCAAAAGAAAACAGAGG
* * *
14188248 ATTTTTAATAGAAAACTGAGG
1 ATTTTCAAAAGAAAACAGAGG
14188269 CGTCTATAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.49, C:0.10, G:0.19, T:0.22
Consensus pattern (21 bp):
ATTTTCAAAAGAAAACAGAGG
Found at i:14197309 original size:29 final size:29
Alignment explanation
Indices: 14197277--14197349 Score: 119
Period size: 29 Copynumber: 2.5 Consensus size: 29
14197267 ATTTGAAGAT
*
14197277 ATCCATTTTCATATTTGATGGTCGTCACC
1 ATCCCTTTTCATATTTGATGGTCGTCACC
* *
14197306 ATCCCTTTTCATAGTTGATGGTTGTCACC
1 ATCCCTTTTCATATTTGATGGTCGTCACC
14197335 ATCCCTTTTCATATT
1 ATCCCTTTTCATATT
14197350 CGATAGCTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.19, C:0.25, G:0.12, T:0.44
Consensus pattern (29 bp):
ATCCCTTTTCATATTTGATGGTCGTCACC
Found at i:14197373 original size:87 final size:88
Alignment explanation
Indices: 14197190--14197375 Score: 198
Period size: 87 Copynumber: 2.1 Consensus size: 88
14197180 GTTGTAATCG
* *
14197190 TCCCTTTTCATATGAGATGGTTGAAACCATCCTTTTTCATTAATCGATGGTCTTCACCATCCCTT
1 TCCCTTTTCATATGAGATGGTCGAAACCATCCCTTTTCATTAATCGATGGTCTTCACCATCCCTT
* ** *
14197255 TTTATAATTAATATTTGAAGATA
66 TTCATAATTAATAGCTAAAGATA
* ** ** * *
14197278 TCCATTTTCATATTTGATGGTCGTCACCATCCCTTTTCA-TAGTTGATGGT-TGTCACCATCCCT
1 TCCCTTTTCATATGAGATGGTCGAAACCATCCCTTTTCATTAATCGATGGTCT-TCACCATCCCT
* *
14197341 TTTCAT-ATTCGATAGCTAAAGCTA
65 TTTCATAATT-AATAGCTAAAGATA
14197365 TCCCTTTTCAT
1 TCCCTTTTCAT
14197376 TGGTCGATGA
Statistics
Matches: 80, Mismatches: 16, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
86 4 0.05
87 44 0.55
88 32 0.40
ACGTcount: A:0.24, C:0.23, G:0.12, T:0.42
Consensus pattern (88 bp):
TCCCTTTTCATATGAGATGGTCGAAACCATCCCTTTTCATTAATCGATGGTCTTCACCATCCCTT
TTCATAATTAATAGCTAAAGATA
Found at i:14201668 original size:27 final size:27
Alignment explanation
Indices: 14201637--14201786 Score: 171
Period size: 27 Copynumber: 5.6 Consensus size: 27
14201627 ATAGTTTACC
* *
14201637 AAATTACTGAAATACCCTCAACTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
14201664 AAATTAC-CAAAGTACCCCCGATTTATA
1 AAATTACTGAAA-TACCCTCGATTTGTA
** *
14201691 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
14201718 AAATTA-TAGAAATACCCTC-AGTTTGCA
1 AAATTACT-GAAATACCCTCGA-TTTGTA
14201745 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
14201772 AAATTACTGAAATAC
1 AAATTACTGAAATAC
14201787 TCCTGTAAGA
Statistics
Matches: 104, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
26 4 0.04
27 94 0.90
28 6 0.06
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:14201785 original size:81 final size:82
Alignment explanation
Indices: 14201637--14201790 Score: 197
Period size: 81 Copynumber: 1.9 Consensus size: 82
14201627 ATAGTTTACC
*
14201637 AAATTACTGAAATACCCTCAACTTGTAAAATTACCAAAGTACCCCCGATTTATAAAATTACCCAA
1 AAATTACTGAAATACCCTCAACTTGCAAAATTACCAAAGTACCCCCGATTTATAAAATTACCCAA
14201702 ATA-TCCTCGATTTGTA
66 ATACTCCTCGATTTGTA
** * * * **
14201718 AAATTA-TAGAAATACCCTCAGTTTGCAAAATTACTGAAA-TACCCTCGATTTGTAAAATTACTG
1 AAATTACT-GAAATACCCTCAACTTGCAAAATTAC-CAAAGTACCCCCGATTTATAAAATTACCC
14201781 AAATACTCCT
64 AAATACTCCT
14201791 GTAAGATAGA
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
80 1 0.02
81 54 0.87
82 7 0.11
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (82 bp):
AAATTACTGAAATACCCTCAACTTGCAAAATTACCAAAGTACCCCCGATTTATAAAATTACCCAA
ATACTCCTCGATTTGTA
Found at i:14201804 original size:54 final size:52
Alignment explanation
Indices: 14201637--14201805 Score: 130
Period size: 54 Copynumber: 3.1 Consensus size: 52
14201627 ATAGTTTACC
* * * * *
14201637 AAATTACTGAAATACCCTCAACTTGTAAAATTAC-CAAAGTACCCCCG-ATTTAT
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACTGAAA-TA-CCCTGTA-TGAT
** * *
14201690 AAAATTACCCAAATATCCTCGATTTGTAAAATTA-TAGAAATACCCTCAGTTTGCA-
1 -AAATTACTGAAATACCCTCGATTTGTAAAATTACT-GAAATACCCT--GTATG-AT
*
14201745 AAATTACTGAAATACCCTCGATTTGTAAAATTACTGAAATACTCCTGTAAGAT
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACTGAAATAC-CCTGTATGAT
14201798 AGAATTAC
1 A-AATTAC
14201806 CATTTTACCT
Statistics
Matches: 91, Mismatches: 14, Indels: 20
0.73 0.11 0.16
Matches are distributed among these distances:
52 1 0.01
53 7 0.08
54 73 0.80
55 9 0.10
56 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.30
Consensus pattern (52 bp):
AAATTACTGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTGTATGAT
Found at i:14202049 original size:27 final size:27
Alignment explanation
Indices: 14201798--14202034 Score: 339
Period size: 27 Copynumber: 8.7 Consensus size: 27
14201788 CCTGTAAGAT
*
14201798 AGAATTACCATTTTACCTTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
* * *
14201825 AGAATTATCGTTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
* *
14201852 AGAATTACTATTTTTACCCTCGATTTAT
1 AGAATTACCA-TTTTACCCTCGATTTAC
* *
14201880 AGAATTACCGTTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
*
14201907 AGAATTACTATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
* *
14201934 AGAATTACCGTTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
*
14201961 AGAATTACTATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
* *
14201988 AGAATTACCGTCTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
14202015 AGAATTACCATTTTACCCTC
1 AGAATTACCATTTTACCCTC
14202035 AATGTAAAAA
Statistics
Matches: 186, Mismatches: 23, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
27 161 0.87
28 25 0.13
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.41
Consensus pattern (27 bp):
AGAATTACCATTTTACCCTCGATTTAC
Found at i:14202059 original size:81 final size:81
Alignment explanation
Indices: 14201796--14202077 Score: 334
Period size: 81 Copynumber: 3.5 Consensus size: 81
14201786 CTCCTGTAAG
* * * *
14201796 ATAGAATTAC-CATTTTACCTTCGATTTACAGAATTATCGTTTTACCCTCGATTTATAGAATTAC
1 ATAGAATTACTGA-TTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTAC
*
14201860 TATTTTTACCCTCGATTT
65 CA-TTTTACCCTCGATTT
* * * **
14201878 ATAGAATTACCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACC
1 ATAGAATTACTGATTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACC
*
14201943 GTTTTACCCTCGATTT
66 ATTTTACCCTCGATTT
*
14201959 ATAGAATTACT-ATTTTACCCTCGATTTACAGAATTACCGTCTTACCCTCGATTTACAGAATTAC
1 ATAGAATTACTGA-TTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTAC
* *
14202023 CATTTTACCCTCAATGT
65 CATTTTACCCTCGATTT
* * ** * * *
14202040 AAAAAATTACTGAAATACCCTTGGTTTACAAAATTACC
1 ATAGAATTACTGATTTACCCTCGATTTACAGAATTACC
14202078 AAAATACCCT
Statistics
Matches: 171, Mismatches: 26, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
81 115 0.67
82 56 0.33
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.39
Consensus pattern (81 bp):
ATAGAATTACTGATTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACC
ATTTTACCCTCGATTT
Found at i:14202060 original size:54 final size:54
Alignment explanation
Indices: 14201796--14202034 Score: 406
Period size: 54 Copynumber: 4.4 Consensus size: 54
14201786 CTCCTGTAAG
* * *
14201796 ATAGAATTACCATTTTACCTTCGATTTACAGAATTATCGTTTTACCCTCGATTT
1 ATAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTT
*
14201850 ATAGAATTACTATTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTT
1 ATAGAATTACTA-TTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTT
14201905 ATAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTT
1 ATAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTT
*
14201959 ATAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTCTTACCCTCGATTT
1 ATAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTT
* *
14202013 ACAGAATTACCATTTTACCCTC
1 ATAGAATTACTATTTTACCCTC
14202035 AATGTAAAAA
Statistics
Matches: 176, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
54 125 0.71
55 51 0.29
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.41
Consensus pattern (54 bp):
ATAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTT
Found at i:14202131 original size:27 final size:25
Alignment explanation
Indices: 14202042--14202136 Score: 84
Period size: 27 Copynumber: 3.7 Consensus size: 25
14202032 CTCAATGTAA
**
14202042 AAAATTACTGAAATACCCTTGGTTTAC
1 AAAATTACCAAAATA-CCTTGGTTT-C
* * *
14202069 AAAATTACCAAAATACCCTCG-ATC
1 AAAATTACCAAAATACCTTGGTTTC
* *
14202093 AAAAATACCAAAATACCATTGGTTTGT
1 AAAATTACCAAAATACC-TTGGTTT-C
14202120 AAAATTACCAAAATACC
1 AAAATTACCAAAATACC
14202137 CCTGCTTTGT
Statistics
Matches: 54, Mismatches: 11, Indels: 6
0.76 0.15 0.08
Matches are distributed among these distances:
24 17 0.31
25 3 0.06
26 5 0.09
27 29 0.54
ACGTcount: A:0.45, C:0.21, G:0.07, T:0.26
Consensus pattern (25 bp):
AAAATTACCAAAATACCTTGGTTTC
Found at i:14202152 original size:27 final size:27
Alignment explanation
Indices: 14202042--14202166 Score: 76
Period size: 27 Copynumber: 4.7 Consensus size: 27
14202032 CTCAATGTAA
** * * **
14202042 AAAATTACTGAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCCTGCTTTGT
** *
14202069 AAAATTACCAAAATA-CCCT-CGAT-C
1 AAAATTACCAAAATACCCCTGCTTTGT
* ** *
14202093 AAAAATACCAAAATACCATTGGTTTGT
1 AAAATTACCAAAATACCCCTGCTTTGT
14202120 AAAATTACCAAAATACCCCTGCTTTGT
1 AAAATTACCAAAATACCCCTGCTTTGT
** * *
14202147 GTAATTATCGAAATACCCCT
1 AAAATTACCAAAATACCCCT
14202167 ATAGGGTAGA
Statistics
Matches: 74, Mismatches: 21, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
24 15 0.20
25 3 0.04
26 4 0.05
27 52 0.70
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGCTTTGT
Found at i:14202185 original size:27 final size:27
Alignment explanation
Indices: 14202149--14202722 Score: 797
Period size: 27 Copynumber: 21.3 Consensus size: 27
14202139 TGCTTTGTGT
* *
14202149 AATTATCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
14202176 AATGACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* **
14202203 AAATACTAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* **
14202230 AATTACTGAAATACCATTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
**
14202257 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
14202284 AATTACCGAAAGACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
14202311 AAATACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
14202338 AATTACCAAAATACCCTTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
*
14202365 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
14202392 AATAACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
14202419 GATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
14202446 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
14202473 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
**
14202500 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
14202527 AATAACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
14202554 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
14202581 AATAACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
14202608 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
14202635 AATGACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
14202662 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * * *
14202689 AATTACCGAGATACCCTTATGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
14202716 AATTACC
1 AATTACC
14202723 ATTTTGCCCC
Statistics
Matches: 488, Mismatches: 59, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 488 1.00
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.23
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:14203172 original size:25 final size:25
Alignment explanation
Indices: 14203127--14203191 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
14203117 CATTCACATT
* * *
14203127 CTGATTTTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTCACCTAATA
* *
14203152 CTGGTTCTGATTCTGTCACCTAATT
1 CTGATTCTGATTCTGTCACCTAATA
14203177 CTGATTCTGATTCTG
1 CTGATTCTGATTCTG
14203192 ATTCTAGTTC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (25 bp):
CTGATTCTGATTCTGTCACCTAATA
Found at i:14203183 original size:6 final size:6
Alignment explanation
Indices: 14203124--14203205 Score: 53
Period size: 6 Copynumber: 13.3 Consensus size: 6
14203114 TTGCATTCAC
* * * * *
14203124 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG GTTCTG ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
14203174 ATTCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
14203206 AATGTTTCTT
Statistics
Matches: 58, Mismatches: 10, Indels: 16
0.69 0.12 0.19
Matches are distributed among these distances:
5 4 0.07
6 46 0.79
7 6 0.10
8 2 0.03
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:14206999 original size:413 final size:413
Alignment explanation
Indices: 14206222--14207047 Score: 1253
Period size: 413 Copynumber: 2.0 Consensus size: 413
14206212 GCAACAATAT
* * *
14206222 TTTCGAAGATTGGTCTGAGATCTAGTTATTATCAATTGCGGGTTAAAGATTCGGATGTGCCAAAA
1 TTTCGAAGATTGATCTGAGATCTAGTTATTATCAATTGCGAGATAAAGATTCGGATGTGCCAAAA
*
14206287 AATGCGTTCAAAACCAGGTACGGGCATTATGAATTTCTTGTTTGCCATTTGGGTTAACTAACGCT
66 AATGCGTTCAAAACCAGGTACAGGCATTATGAATTTCTTGTTTGCCATTTGGGTTAACTAACGCT
* * * * * * *
14206352 CCTGTAGTTTTTATGGACTTAACGAATAGAATTTTTAGACTGCATTTAGATAGATTTGTAGTTGT
131 CCTGCAATTTCTATGGAATTAACGAATAGAATTTTCAGACTGCATTTAGACAAATTTGTAGTTGT
***
14206417 ATTCTTTGATGACATACTAATCTATTCTCGATACAAATCTGAGCATGTTGAGCATTTGAGGATTG
196 ATTCTTTGATGACATACTAATCTATTCTCGATACAAATCTGAGCATGCCAAGCATTTGAGGATTG
* *
14206482 TGTTACAAACGTTGAGAGATAAGCAACTATTTGCTAAATTTAGTAAATTCGAATTTTGGCTCTAG
261 TATTACAAACATTGAGAGATAAGCAACTATTTGCTAAATTTAGTAAATTCGAATTTTGGCTCTAG
** *
14206547 AAAGTTGGATTTTTGGGACACATTATTTCGGCGGAAGGCACCAGAGTTGATCCGAGCAAGATGTC
326 AAAGTTAAATTTTTGGGACACATTATTTCGGCAGAAGGCACCAGAGTTGATCCGAGCAAGATGTC
14206612 AGCGGTTGTTGACTGGAAAACAC
391 AGCGGTTGTTGACTGGAAAACAC
* * * * *
14206635 TTTCGAAGATTTATCTGAGATCTGGTTATTATCAATTGTGAGATAAAGATTCGGATGTGTCAGAA
1 TTTCGAAGATTGATCTGAGATCTAGTTATTATCAATTGCGAGATAAAGATTCGGATGTGCCAAAA
* * * *
14206700 ACTGCGTTCAAAACTAGGTACAGGTATTATGAATTTCTTGTTATGCCGTTTGGGTTAACTAACGC
66 AATGCGTTCAAAACCAGGTACAGGCATTATGAATTTCTTGTT-TGCCATTTGGGTTAACTAACGC
* *
14206765 TCTTGCAATTTCTATGGAATTAACG-ATAGAATTTTCAGACTGTATTTAGACAAATTTGTAGTTG
130 TCCTGCAATTTCTATGGAATTAACGAATAGAATTTTCAGACTGCATTTAGACAAATTTGTAGTTG
14206829 TATTCTTTGATGACATAC-AGATCTATTCTCGATACAAATCTGAGCATGCCAAGCATTTGAGGAT
195 TATTCTTTGATGACATACTA-ATCTATTCTCGATACAAATCTGAGCATGCCAAGCATTTGAGGAT
* *
14206893 TGTATTACAAACATTGAGAGATAAGCAGCTGTTTGCTAAATTTAGTAAATGT-GAATTTTGGCTC
259 TGTATTACAAACATTGAGAGATAAGCAACTATTTGCTAAATTTAGTAAAT-TCGAATTTTGGCTC
* * * ** *
14206957 TGGGAAGTTAAATTTTTGGGACACATTGTTTTTGCAGAAGGCATCAGAGTTGATCCGAGCAAGAT
323 TAGAAAGTTAAATTTTTGGGACACATTATTTCGGCAGAAGGCACCAGAGTTGATCCGAGCAAGAT
*
14207022 TTCAGCGGTTGTTGACTGGAAAACAC
388 GTCAGCGGTTGTTGACTGGAAAACAC
14207048 CAAGAAATGT
Statistics
Matches: 371, Mismatches: 39, Indels: 6
0.89 0.09 0.01
Matches are distributed among these distances:
412 1 0.00
413 328 0.88
414 42 0.11
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.35
Consensus pattern (413 bp):
TTTCGAAGATTGATCTGAGATCTAGTTATTATCAATTGCGAGATAAAGATTCGGATGTGCCAAAA
AATGCGTTCAAAACCAGGTACAGGCATTATGAATTTCTTGTTTGCCATTTGGGTTAACTAACGCT
CCTGCAATTTCTATGGAATTAACGAATAGAATTTTCAGACTGCATTTAGACAAATTTGTAGTTGT
ATTCTTTGATGACATACTAATCTATTCTCGATACAAATCTGAGCATGCCAAGCATTTGAGGATTG
TATTACAAACATTGAGAGATAAGCAACTATTTGCTAAATTTAGTAAATTCGAATTTTGGCTCTAG
AAAGTTAAATTTTTGGGACACATTATTTCGGCAGAAGGCACCAGAGTTGATCCGAGCAAGATGTC
AGCGGTTGTTGACTGGAAAACAC
Found at i:14209507 original size:27 final size:26
Alignment explanation
Indices: 14209463--14209514 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
14209453 CTCGCTGCAA
*
14209463 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
14209490 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
14209515 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:14209605 original size:27 final size:26
Alignment explanation
Indices: 14209553--14209611 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
14209543 CCACATATAT
*
14209553 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
14209579 ATATCTGTATCTGGTGACTTTGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
14209606 ATATCT
1 ATATCT
14209612 AGCAGCCTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:14215163 original size:20 final size:20
Alignment explanation
Indices: 14215118--14215157 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
14215108 AGATGACACA
14215118 AAAAGGAGTGTGGTGTAGTG
1 AAAAGGAGTGTGGTGTAGTG
14215138 AAAAGGAGTGTGGTGTAGTG
1 AAAAGGAGTGTGGTGTAGTG
14215158 GCAAGGTGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.45, T:0.25
Consensus pattern (20 bp):
AAAAGGAGTGTGGTGTAGTG
Found at i:14216522 original size:31 final size:32
Alignment explanation
Indices: 14216484--14216545 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
14216474 CTCGCTGCAA
* *
14216484 TCTGGTGGCTTCGCCAC-ATATATATATCTGT
1 TCTGGTGGCCTAGCCACAATATATATATCTGT
*
14216515 TCTGGTGGCCTAGCCACAATATCTATATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
14216546 GTGACTTCGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 15 0.56
32 12 0.44
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.35
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:14223933 original size:73 final size:73
Alignment explanation
Indices: 14223812--14223960 Score: 271
Period size: 73 Copynumber: 2.0 Consensus size: 73
14223802 CTAATTATAG
*
14223812 TAAGTAAAACTTGTTCATCACTAATTAAAATAGAAAATATTTACGTGGTTGTAATTTGGCCTTAC
1 TAAGTAAAACTTGGTCATCACTAATTAAAATAGAAAATATTTACGTGGTTGTAATTTGGCCTTAC
14223877 TCTCTTTA
66 TCTCTTTA
* *
14223885 TAAGTAAAACTTGGTCATCACTAATTAAAATAGAAAATATTTAGGTGGTTGTAATTTGGCCTTAT
1 TAAGTAAAACTTGGTCATCACTAATTAAAATAGAAAATATTTACGTGGTTGTAATTTGGCCTTAC
14223950 TCTCTTTA
66 TCTCTTTA
14223958 TAA
1 TAA
14223961 ATGAAGGTTT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.40
Consensus pattern (73 bp):
TAAGTAAAACTTGGTCATCACTAATTAAAATAGAAAATATTTACGTGGTTGTAATTTGGCCTTAC
TCTCTTTA
Found at i:14231063 original size:30 final size:30
Alignment explanation
Indices: 14231023--14231080 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
14231013 AAGACTATTT
* *
14231023 CCACATGGGCT-GAGCACACGCCCTTGTGAG
1 CCACACGGGCTGGA-CACACGCCCGTGTGAG
14231053 CCACACGGGCTGGACACACGCCCGTGTG
1 CCACACGGGCTGGACACACGCCCGTGTG
14231081 GCAATCCGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.92
31 2 0.08
ACGTcount: A:0.19, C:0.36, G:0.31, T:0.14
Consensus pattern (30 bp):
CCACACGGGCTGGACACACGCCCGTGTGAG
Found at i:14241080 original size:3 final size:3
Alignment explanation
Indices: 14241072--14241104 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
14241062 AATTATAAAT
14241072 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
14241105 ATTTCTATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:14243063 original size:21 final size:22
Alignment explanation
Indices: 14243004--14243064 Score: 58
Period size: 21 Copynumber: 2.9 Consensus size: 22
14242994 CTTGCACGGC
*
14243004 CTGATCACACGGCC--GTGCCT
1 CTGACCACACGGCCGTGTGCCT
*
14243024 CTGTACCACATAGG-CGTGTGCCT
1 CTG-ACCACA-CGGCCGTGTGCCT
14243047 CTG-CCACACGGCCGTGTG
1 CTGACCACACGGCCGTGTG
14243065 TTACTCTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
20 5 0.15
21 17 0.52
22 2 0.06
23 9 0.27
ACGTcount: A:0.15, C:0.36, G:0.28, T:0.21
Consensus pattern (22 bp):
CTGACCACACGGCCGTGTGCCT
Found at i:14253698 original size:42 final size:42
Alignment explanation
Indices: 14253595--14253754 Score: 126
Period size: 42 Copynumber: 3.7 Consensus size: 42
14253585 AAGCTCGTAC
* * ** * *
14253595 AATGCCAACGTCCTAGATGTGGTCTTACATGTAAAC-AAATATT
1 AATGCCAATGTCCCAGACATGGTCTTACACG-AAACTAAA-ATA
* * * *
14253638 GATGCCACTGTCTCAGACAGGGTCTTACACGAAA-TAAAATAA
1 AATGCCAATGTCCCAGACATGGTCTTACACGAAACTAAAAT-A
* * * *
14253680 AATGCCGATGTCCCAGACATGGTCTTACACTTAAATCTCAAATC
1 AATGCCAATGTCCCAGACATGGTCTTACAC-GAAA-CTAAAATA
*
14253724 GATGCCAATGTCCCAGACATGGTCTTACACG
1 AATGCCAATGTCCCAGACATGGTCTTACACG
14253755 GAATCACATA
Statistics
Matches: 91, Mismatches: 21, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
41 2 0.02
42 31 0.34
43 25 0.27
44 28 0.31
45 5 0.05
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (42 bp):
AATGCCAATGTCCCAGACATGGTCTTACACGAAACTAAAATA
Found at i:14253779 original size:44 final size:44
Alignment explanation
Indices: 14253596--14253762 Score: 132
Period size: 43 Copynumber: 3.9 Consensus size: 44
14253586 AGCTCGTACA
* * ** *
14253596 ATGCCAACGTCCTAGATGTGGTCTTACA-TGTAAA-CA-AATATTG
1 ATGCCAATGTCCCAGACATGGTCTTACACTG-AAATCACAA-ATCG
* * * **
14253639 ATGCCACTGTCTCAGACAGGGTCTTACAC-GAAAT-A-AAATAAA
1 ATGCCAATGTCCCAGACATGGTCTTACACTGAAATCACAAAT-CG
* * *
14253681 ATGCCGATGTCCCAGACATGGTCTTACACTTAAATCTCAAATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACTGAAATCACAAATCG
*
14253725 ATGCCAATGTCCCAGACATGGTCTTACAC-GGAATCACA
1 ATGCCAATGTCCCAGACATGGTCTTACACTGAAATCACA
14253763 TATCAGAATC
Statistics
Matches: 97, Mismatches: 21, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
41 2 0.02
42 31 0.32
43 32 0.33
44 28 0.29
45 4 0.04
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (44 bp):
ATGCCAATGTCCCAGACATGGTCTTACACTGAAATCACAAATCG
Found at i:14254683 original size:17 final size:17
Alignment explanation
Indices: 14254658--14254692 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
14254648 AATAAACATT
*
14254658 TAAAGTTATAATAGATG
1 TAAACTTATAATAGATG
14254675 TAAACTTATAATAGATG
1 TAAACTTATAATAGATG
14254692 T
1 T
14254693 CCAACAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.46, C:0.03, G:0.14, T:0.37
Consensus pattern (17 bp):
TAAACTTATAATAGATG
Found at i:14259595 original size:101 final size:102
Alignment explanation
Indices: 14259400--14259841 Score: 314
Period size: 101 Copynumber: 4.4 Consensus size: 102
14259390 CGTTGTGAGA
* * *** *
14259400 ACACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGACAGTTTTAGGTCACGTGTGTAGT
1 ACACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGACAGTTTTAGATCACGTGTGTAGT
* *
14259465 ACTAAGTGCAGGCTACTACGTGTACCAGATTGTTATG
66 ACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGG
* * * *
14259502 ACGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGTTTT-GATCCCGTGTGTAGT
1 ACACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGACAGTTTTAGATCACGTGTGTAGT
* * *
14259566 ACTAAGTGTAGGCTACTATGTGTATCAGATGGTTAGG
66 ACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGG
* * * * * * * * *
14259603 TCACGTGTGTAGTACTAAGTGCATGCTACTACGCGTACC-G-GA-TTGATAGGTCGCATGTGTAG
1 ACACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGACAGTT-TTAGATCACGTGTGTAG
* * ** * **
14259665 TACTAAGTGCGGGCT--T-TGCCTACC-GTTAACTTCA--
65 TACTAAGTGCAGGCTACTACGTGTACCAGAT-GGTT-AGG
* * * * * * ** * *
14259699 ATCACGTGTGTAGTACTAAGTGCAAGCTACTACGAGTATCAGA-TGGATAAG-TCACATGTGTAG
1 A-CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGACAGTTTTAGATCACGTGTGTAG
* * * * *
14259762 TACTAAGTGCAGACTACTACATGTACCAGATTGATACG
65 TACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGG
* * * *
14259800 TCGCATGTGTAGTACTAAGTGCAAGCTACTATTCGTACCAGA
1 ACACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
14259842 GAGCTTCGGT
Statistics
Matches: 266, Mismatches: 60, Indels: 30
0.75 0.17 0.08
Matches are distributed among these distances:
96 2 0.01
97 66 0.25
98 7 0.03
99 4 0.02
100 65 0.24
101 81 0.30
102 41 0.15
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.30
Consensus pattern (102 bp):
ACACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGACAGTTTTAGATCACGTGTGTAGT
ACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGG
Found at i:14259779 original size:147 final size:149
Alignment explanation
Indices: 14259451--14259827 Score: 490
Period size: 147 Copynumber: 2.5 Consensus size: 149
14259441 ACAGTTTTAG
* * *
14259451 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTATGACGCATGTGTAGTA
1 GTCACGTGTGTAGTACTAAGTGCA-GCTACTACGTGTACCAGATTGATACGTCGCATGTGTAGTA
* ** ** * * *
14259516 CTAAGTGCAGGCTACTATGCGTACCCGATAGTTTTGATCCCGTGTGTAGTACTAAGTGTAGGCTA
65 CTAAGTGCAGGCTA-TATGCCTACCCGATAACTTCAATCACGTGTGTAGTACTAAGTGCAAGCTA
* * * *
14259581 CTATGTGTATCAGATGGTTAG
129 CTACGAGTATCAGATGGATAA
* * *
14259602 GTCACGTGTGTAGTACTAAGTGCATGCTACTACGCGTACCGGATTGATAGGTCGCATGTGTAGTA
1 GTCACGTGTGTAGTACTAAGTGCA-GCTACTACGTGTACCAGATTGATACGTCGCATGTGTAGTA
* *
14259667 CTAAGTGCGGGCT-T-TGCCTA-CCGTTAACTTCAATCACGTGTGTAGTACTAAGTGCAAGCTAC
65 CTAAGTGCAGGCTATATGCCTACCCGATAACTTCAATCACGTGTGTAGTACTAAGTGCAAGCTAC
14259729 TACGAGTATCAGATGGATAA
130 TACGAGTATCAGATGGATAA
* *
14259749 GTCACATGTGTAGTACTAAGTGCAGACTACTACATGTACCAGATTGATACGTCGCATGTGTAGTA
1 GTCACGTGTGTAGTACTAAGTGCAG-CTACTACGTGTACCAGATTGATACGTCGCATGTGTAGTA
*
14259814 CTAAGTGCAAGCTA
65 CTAAGTGCAGGCTA
14259828 CTATTCGTAC
Statistics
Matches: 197, Mismatches: 27, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
146 1 0.01
147 119 0.60
148 5 0.03
149 1 0.01
151 71 0.36
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (149 bp):
GTCACGTGTGTAGTACTAAGTGCAGCTACTACGTGTACCAGATTGATACGTCGCATGTGTAGTAC
TAAGTGCAGGCTATATGCCTACCCGATAACTTCAATCACGTGTGTAGTACTAAGTGCAAGCTACT
ACGAGTATCAGATGGATAA
Found at i:14259838 original size:50 final size:50
Alignment explanation
Indices: 14259401--14259841 Score: 320
Period size: 50 Copynumber: 8.8 Consensus size: 50
14259391 GTTGTGAGAA
* * * * *
14259401 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGACAG-TT-TTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCG--T-A-CCAGATTGATACGT
* * * * * *
14259453 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTATGA
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATTGATACGT
* * * * **
14259503 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGTTTTGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATTGATACG-T
* * * * * * * *
14259554 CCCGTGTGTAGTACTAAGTGTAGGCTACTATGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATTGATACGT
* * * * *
14259604 CACGTGTGTAGTACTAAGTGCATGCTACTACGCGTACCGGATTGATAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATTGATACGT
* * * * * *
14259654 CGCATGTGTAGTACTAAGTGCGGGCT--T-TGCCTACC-G-TTAACTTCAAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATTGA-TAC-GT
* * * * * * *
14259701 CACGTGTGTAGTACTAAGTGCAAGCTACTACGAGTATCAGATGGATAAGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATTGATACGT
* ***
14259751 CACATGTGTAGTACTAAGTGCAGACTACTACATGTACCAGATTGATACGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATTGATACGT
* * *
14259801 CGCATGTGTAGTACTAAGTGCAAGCTACTATTCGTACCAGA
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
14259842 GAGCTTCGGT
Statistics
Matches: 310, Mismatches: 69, Indels: 22
0.77 0.17 0.05
Matches are distributed among these distances:
45 3 0.01
46 2 0.01
47 29 0.09
48 4 0.01
49 4 0.01
50 193 0.62
51 42 0.14
52 33 0.11
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.30
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATTGATACGT
Found at i:14260062 original size:16 final size:16
Alignment explanation
Indices: 14260041--14260072 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14260031 AGAATGGAGT
14260041 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
14260057 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
14260073 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:14260436 original size:180 final size:180
Alignment explanation
Indices: 14260192--14260517 Score: 489
Period size: 180 Copynumber: 1.8 Consensus size: 180
14260182 AAAATCACTG
* * * *
14260192 AAATAATTTTTAGTGAAGAGAGGTCGGAATTGTCAGACAGTGAAACAGGGGTATTTTTAATGAAT
1 AAATAAATTTTAGTGAAGAGAGGTCAGAAATGTCAGACAGTGAAACAGGGGTATATTTAATGAAT
* * * *
14260257 AAACTGTACTAATTGGCTAAA-CTAAAAATTTTGAAAATTTTATGGTAAGAATATATGTGAGTTT
66 AAACTGTACTAATTGGCTAAATC-AAAAATTTTGAAAATTTTATGATAAGAAGATATATGAGTAT
*
14260321 AGGTTTTGGA-AAAATTAGTGGTTCTCAATTTGGAGTCCCGTACCATGAAAT
130 A-GTTTTAGATAAAATTAGTGGTTCTCAATTTGGAGTCCCGTACCATGAAAT
* *
14260372 AAATAAATTTTAGT-ACAGAGAGTTCAGAAATGTC-GAACAGTGAAATAGGGGTATATTTAATGA
1 AAATAAATTTTAGTGA-AGAGAGGTCAGAAATGTCAG-ACAGTGAAACAGGGGTATATTTAATGA
14260435 ATAAACTGTACTAATTGGCTAAATCAAAAATTTTGAAAATTTTATGATAAGAAGATATATGAGTA
64 ATAAACTGTACTAATTGGCTAAATCAAAAATTTTGAAAATTTTATGATAAGAAGATATATGAGTA
14260500 TAGTTTTAGATAAAATTA
129 TAGTTTTAGATAAAATTA
14260518 ACAGATCTTA
Statistics
Matches: 131, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
179 9 0.07
180 121 0.92
181 1 0.01
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (180 bp):
AAATAAATTTTAGTGAAGAGAGGTCAGAAATGTCAGACAGTGAAACAGGGGTATATTTAATGAAT
AAACTGTACTAATTGGCTAAATCAAAAATTTTGAAAATTTTATGATAAGAAGATATATGAGTATA
GTTTTAGATAAAATTAGTGGTTCTCAATTTGGAGTCCCGTACCATGAAAT
Found at i:14263321 original size:15 final size:14
Alignment explanation
Indices: 14263301--14263359 Score: 64
Period size: 15 Copynumber: 4.0 Consensus size: 14
14263291 TATGATATTA
14263301 TATCTTGGATTTTCT
1 TATCTTGGA-TTTCT
14263316 TATCTTGGATTTCT
1 TATCTTGGATTTCT
* *
14263330 CTATCTTAGACTTCT
1 -TATCTTGGATTTCT
*
14263345 TAATCTTGGTTTTCT
1 T-ATCTTGGATTTCT
14263360 AGTTATCTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
14 6 0.16
15 31 0.84
ACGTcount: A:0.15, C:0.17, G:0.12, T:0.56
Consensus pattern (14 bp):
TATCTTGGATTTCT
Found at i:14266448 original size:50 final size:50
Alignment explanation
Indices: 14266322--14266715 Score: 337
Period size: 50 Copynumber: 7.8 Consensus size: 50
14266312 TTGTGAGAAT
* *
14266322 ACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGACAG-TT-TTAGGTC
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGTG--T-A-CCAGATTGTTAGGTC
* * * * * *
14266374 ACGTGTGCAGTACTGAGTGCAGGCTACTACGTGTACCAAATTGTTAGGCC
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGTC
* * * * * *
14266424 GCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCA-ATAGTTTTGATC
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTA-CCAGATTG-TTAGGTC
* ** ** * *
14266475 ACGTGTGTAGTACTAAGTTTAGGCTACTACCTGTATCAGATGGTTAGGTC
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGTC
* * * *
14266525 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTGATAGGTC
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGTC
* * * * * * *
14266575 GCATGTGCAGTACTAAGTGCAGGCTACTATGCGTACTC-GTTTACTTCGATC
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTAC-CAGATT-GTTAGGTC
** * *
14266626 ATGTGTGTAGTACTAAGTGCGGGCTACTATGTGTACCAGATTGATAGGTC
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGTC
* * *
14266676 GCATGTGTAATACTAAGTGCAGGCTACTATGCGTACCAGA
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA
14266716 GAGCTTCGGT
Statistics
Matches: 271, Mismatches: 63, Indels: 18
0.77 0.18 0.05
Matches are distributed among these distances:
48 2 0.01
49 3 0.01
50 161 0.59
51 77 0.28
52 28 0.10
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (50 bp):
ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGTC
Found at i:14266561 original size:101 final size:103
Alignment explanation
Indices: 14266322--14266603 Score: 281
Period size: 101 Copynumber: 2.8 Consensus size: 103
14266312 TTGTGAGAAT
* ** *
14266322 ACATGTGTAGTACTATGTGCAGGCTACTATGTGT-TTAAGACAGTTTTAGGTCACGTGTGCAGTA
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAAGACAGTTTTAGATCACGTGTGCAGTA
* * *
14266386 CTGAGTGCAGGCTACTACGTGTACCAAATTGTTAGGCC
66 CTAAGTGCAGGCTACTACCTGTACCAAATGGTTAGGCC
* * * * * *
14266424 GCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCA-ATAGTTTT-GATCACGTGTGTAGTA
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAAGACAGTTTTAGATCACGTGTGCAGTA
** * * *
14266487 CTAAGTTTAGGCTACTACCTGTATCAGATGGTTAGGTC
66 CTAAGTGCAGGCTACTACCTGTACCAAATGGTTAGGCC
* * * * * * *
14266525 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACC--G-GA-TTGATAGGTCGCATGTGCAGT
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAAGACAGTT-TTAGATCACGTGTGCAGT
14266586 ACTAAGTGCAGGCTACTA
65 ACTAAGTGCAGGCTACTA
14266604 TGCGTACTCG
Statistics
Matches: 145, Mismatches: 31, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
98 2 0.01
99 2 0.01
100 27 0.19
101 76 0.52
102 37 0.26
103 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.31
Consensus pattern (103 bp):
ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAAGACAGTTTTAGATCACGTGTGCAGTA
CTAAGTGCAGGCTACTACCTGTACCAAATGGTTAGGCC
Found at i:14266632 original size:101 final size:101
Alignment explanation
Indices: 14266527--14266711 Score: 325
Period size: 101 Copynumber: 1.8 Consensus size: 101
14266517 GTTAGGTCAC
* *
14266527 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTGATAGGTCGCATGTGCAGTACTAAG
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGCAATACTAAG
14266592 TGCAGGCTACTATGCGTACTCGTTTACTTCGATCAT
66 TGCAGGCTACTATGCGTACTCGTTTACTTCGATCAT
* * *
14266628 GTGTGTAGTACTAAGTGCGGGCTACTATGTGTACCAGATTGATAGGTCGCATGTGTAATACTAAG
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGCAATACTAAG
14266693 TGCAGGCTACTATGCGTAC
66 TGCAGGCTACTATGCGTAC
14266712 CAGAGAGCTT
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
101 79 1.00
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (101 bp):
GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGCAATACTAAG
TGCAGGCTACTATGCGTACTCGTTTACTTCGATCAT
Found at i:14266641 original size:151 final size:151
Alignment explanation
Indices: 14266367--14266713 Score: 435
Period size: 151 Copynumber: 2.3 Consensus size: 151
14266357 TAAGACAGTT
* * * *
14266367 TTAGGTCACGTGTGCAGTACTGAGTGCAGGCTACTACGTGTACCAAATTGTTAGGCCGCATGTGT
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGATAGGCCGCATGTGC
* * * **
14266432 AGTACTAAGTGTAGGCTACTATGCGTACCCAATAGTTTTGATCACGTGTGTAGTACTAAGTTTAG
66 AGTACTAAGTGCAGGCTACTATGCGTACCCAATAGCTTCGATCACGTGTGTAGTACTAAGTGCAG
*
14266497 GCTACTACCTGTATCAGATGG
131 GCTACTACCTGTACCAGATGG
** *
14266518 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTGATAGGTCGCATGTGC
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGATAGGCCGCATGTGC
*** * *
14266583 AGTACTAAGTGCAGGCTACTATGCGTACTCGTTTA-CTTCGATCATGTGTGTAGTACTAAGTGCG
66 AGTACTAAGTGCAGGCTACTATGCGTAC-CCAATAGCTTCGATCACGTGTGTAGTACTAAGTGCA
** *
14266647 GGCTACTATGTGTACCAGATTG
130 GGCTACTACCTGTACCAGATGG
* * * * * *
14266669 ATAGGTCGCATGTGTAATACTAAGTGCAGGCTACTATGCGTACCA
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
14266714 GAGAGCTTCG
Statistics
Matches: 167, Mismatches: 28, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
151 164 0.98
152 3 0.02
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.31
Consensus pattern (151 bp):
TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGATAGGCCGCATGTGC
AGTACTAAGTGCAGGCTACTATGCGTACCCAATAGCTTCGATCACGTGTGTAGTACTAAGTGCAG
GCTACTACCTGTACCAGATGG
Found at i:14266936 original size:16 final size:16
Alignment explanation
Indices: 14266915--14266946 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14266905 AGAATGGAGT
14266915 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
14266931 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
14266947 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:14267576 original size:180 final size:180
Alignment explanation
Indices: 14267274--14267630 Score: 547
Period size: 180 Copynumber: 2.0 Consensus size: 180
14267264 TTCAAGAGCT
* * * * * * * *
14267274 GTACCATGAGATAAATAATTTTTAGTGAAGAGAGGTCGGATCTGTTGGATAGTGAAACATGGGTA
1 GTACCATGAAATAAATAATTTTTAGTGAAGAGAAGTCGGAACTATTGGAGACTAAAACAGGGGTA
14267339 TTTTTAATGAATAAACTGTACTAATTGGCTAAACTAAAAATTCTGAAAATTTTATGGTAAGAATA
66 TTTTTAATGAATAAACTGTACTAATTGGCTAAACTAAAAATTCTGAAAATTTTATGGTAAGAATA
* * * *
14267404 TATGTTAGTCAAGTTTCTAG-GAAAATTAGT-GATTCTTAATTTGGAGTCCC
131 TATATGAGTCAAGTTTC-AGAAAAAATTAATGGA-TCTTAATTTGGAGTCCC
*
14267454 GTACCATGAAATAAATAATTTTTAGTGAAGAGAAGTCGGAACTATTGGAGACTAAAATAGGGGTA
1 GTACCATGAAATAAATAATTTTTAGTGAAGAGAAGTCGGAACTATTGGAGACTAAAACAGGGGTA
*
14267519 TTTTTAATGAATAAACTGTACTAATTGGCTAAACTAAAAATTTTGAAAATTTTATGGTAAGAATA
66 TTTTTAATGAATAAACTGTACTAATTGGCTAAACTAAAAATTCTGAAAATTTTATGGTAAGAATA
*
14267584 TATATGAGTCTAGTTTCAGAAAAAATTAATGGATCTTAATTTGGAGT
131 TATATGAGTCAAGTTTCAGAAAAAATTAATGGATCTTAATTTGGAGT
14267631 TTCATAGCTT
Statistics
Matches: 160, Mismatches: 15, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
179 2 0.01
180 156 0.98
181 2 0.01
ACGTcount: A:0.38, C:0.08, G:0.20, T:0.34
Consensus pattern (180 bp):
GTACCATGAAATAAATAATTTTTAGTGAAGAGAAGTCGGAACTATTGGAGACTAAAACAGGGGTA
TTTTTAATGAATAAACTGTACTAATTGGCTAAACTAAAAATTCTGAAAATTTTATGGTAAGAATA
TATATGAGTCAAGTTTCAGAAAAAATTAATGGATCTTAATTTGGAGTCCC
Found at i:14269346 original size:6 final size:6
Alignment explanation
Indices: 14269325--14269434 Score: 82
Period size: 6 Copynumber: 17.8 Consensus size: 6
14269315 TATGAGAACT
* * * * *
14269325 AGAATC AAAATG AGAATC AGAATC AG-GTGAC AGAATC AAAATC AAAATC
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* *
14269374 AGAATC AGAATT AGGTAA-C AGAATC AGAATC AGTATC AGGTAA-C AGAATC
1 AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC A-G-AATC AGAATC
14269424 AGAATC AGAAT
1 AGAATC AGAAT
14269435 GTGAATGCAA
Statistics
Matches: 83, Mismatches: 12, Indels: 18
0.73 0.11 0.16
Matches are distributed among these distances:
5 5 0.06
6 66 0.80
7 8 0.10
8 4 0.05
ACGTcount: A:0.50, C:0.14, G:0.18, T:0.18
Consensus pattern (6 bp):
AGAATC
Found at i:14269361 original size:19 final size:19
Alignment explanation
Indices: 14269337--14269406 Score: 81
Period size: 19 Copynumber: 3.7 Consensus size: 19
14269327 AATCAAAATG
*
14269337 AGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGGTAAC
* *
14269356 AGAATCAAAATCA--AAATC
1 AGAATCAGAATCAGGTAA-C
*
14269374 AGAATCAGAATTAGGTAAC
1 AGAATCAGAATCAGGTAAC
14269393 AGAATCAGAATCAG
1 AGAATCAGAATCAG
14269407 TATCAGGTAA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
17 1 0.02
18 12 0.29
19 26 0.63
20 2 0.05
ACGTcount: A:0.50, C:0.14, G:0.19, T:0.17
Consensus pattern (19 bp):
AGAATCAGAATCAGGTAAC
Found at i:14269398 original size:25 final size:25
Alignment explanation
Indices: 14269370--14269434 Score: 112
Period size: 25 Copynumber: 2.6 Consensus size: 25
14269360 TCAAAATCAA
*
14269370 AATCAGAATCAGAATTAGGTAACAG
1 AATCAGAATCAGAATCAGGTAACAG
*
14269395 AATCAGAATCAGTATCAGGTAACAG
1 AATCAGAATCAGAATCAGGTAACAG
14269420 AATCAGAATCAGAAT
1 AATCAGAATCAGAAT
14269435 GTGAATGCAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (25 bp):
AATCAGAATCAGAATCAGGTAACAG
Found at i:14269399 original size:31 final size:31
Alignment explanation
Indices: 14269325--14269434 Score: 109
Period size: 31 Copynumber: 3.5 Consensus size: 31
14269315 TATGAGAACT
* *
14269325 AGAATCAAAATGAGAATCAGAATCAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGGTAAC
* *
14269356 AGAATCAAAATCAAAATCAGAATCA-G-AATT
1 AGAATCAAAATCAGAATCAGAATCAGGTAA-C
* *
14269386 AGGTAA-CAGAATCAGAATCAGTATCAGGTAAC
1 A-G-AATCAAAATCAGAATCAGAATCAGGTAAC
*
14269418 AGAATCAGAATCAGAAT
1 AGAATCAAAATCAGAAT
14269435 GTGAATGCAA
Statistics
Matches: 65, Mismatches: 8, Indels: 12
0.76 0.09 0.14
Matches are distributed among these distances:
29 1 0.02
30 4 0.06
31 54 0.83
32 4 0.06
33 2 0.03
ACGTcount: A:0.50, C:0.14, G:0.18, T:0.18
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGAATCAGGTAAC
Found at i:14269412 original size:37 final size:37
Alignment explanation
Indices: 14269327--14269405 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
14269317 TGAGAACTAG
* *
14269327 AATCAAAATGAGAATCAGAATCAGGTGACAGAATCAA
1 AATCAAAATCAGAATCAGAATCAGGTAACAGAATCAA
* *
14269364 AATCAAAATCAGAATCAGAATTAGGTAACAGAATCAG
1 AATCAAAATCAGAATCAGAATCAGGTAACAGAATCAA
14269401 AATCA
1 AATCA
14269406 GTATCAGGTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.52, C:0.14, G:0.16, T:0.18
Consensus pattern (37 bp):
AATCAAAATCAGAATCAGAATCAGGTAACAGAATCAA
Found at i:14269601 original size:27 final size:26
Alignment explanation
Indices: 14269553--14269612 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
14269543 GCGAGGCTGC
*
14269553 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
14269580 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
14269606 CAGATAT
1 CAGATAT
14269613 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:14269657 original size:71 final size:67
Alignment explanation
Indices: 14269580--14269721 Score: 176
Period size: 67 Copynumber: 2.1 Consensus size: 67
14269570 TCACCAGATA
* * * *
14269580 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGCGAAGCCACCAAATTGTAGCGA
1 CAGATATTGTGACGAAGCCACCAGAACAG----ATATATGTGGCGAAGCCACCAAATTGCAGCGA
14269645 GCCTGC
62 GCCTGC
* * * *
14269651 CAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCT
1 CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAAATTGCAGCGAGCCT
14269716 GC
66 GC
14269718 CAGA
1 CAGA
14269722 ACGCTTCCTC
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
67 38 0.60
71 25 0.40
ACGTcount: A:0.31, C:0.23, G:0.27, T:0.19
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAAATTGCAGCGAGCCT
GC
Found at i:14269699 original size:27 final size:26
Alignment explanation
Indices: 14269651--14269702 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
14269641 GCGAGCCTGC
*
14269651 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
14269677 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
14269703 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:14269976 original size:27 final size:26
Alignment explanation
Indices: 14269946--14270225 Score: 212
Period size: 27 Copynumber: 10.4 Consensus size: 26
14269936 AGGGGTAAAA
*
14269946 TGGTAATTTTACCCCACAAGGGTATCT
1 TGGTAATTTTACCCTACAAGGGTAT-T
*
14269973 TGGTAATTCTACCCTAC-AGAGGTATTT
1 TGGTAATTTTACCCTACAAG-GGTA-TT
** * * *
14270000 TAATAATTCTATCCTACAGGGGTATT
1 TGGTAATTTTACCCTACAAGGGTATT
14270026 TCGGT-ATTTCTACCCTACAAGGGTATT
1 T-GGTAATTT-TACCCTACAAGGGTATT
* * *
14270053 TCGGTAATTCTACCCTATAGGGGTATTT
1 T-GGTAATTTTACCCTACAAGGGTA-TT
* * *
14270081 TAGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTTTACCCTACAAGGGTA-TT
*
14270108 TGGT-ATTTCTACCCTACAGGGGTATTT
1 TGGTAATTT-TACCCTACAAGGGTA-TT
*
14270135 TGGT-ATTTCTACCCTATAAGGGTATT
1 TGGTAATTT-TACCCTACAAGGGTATT
* *
14270161 TCGGT-ATTTCTACCCTATAAAGGTATT
1 T-GGTAATTT-TACCCTACAAGGGTATT
*
14270188 TCAGT-ATTTCTACCCTACAAGGGTATT
1 T-GGTAATTT-TACCCTACAAGGGTATT
14270215 TCGGTAATTTT
1 T-GGTAATTTT
14270226 GTAAATCGAG
Statistics
Matches: 218, Mismatches: 25, Indels: 20
0.83 0.10 0.08
Matches are distributed among these distances:
26 14 0.06
27 192 0.88
28 12 0.06
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.39
Consensus pattern (26 bp):
TGGTAATTTTACCCTACAAGGGTATT
Found at i:14270007 original size:54 final size:54
Alignment explanation
Indices: 14269946--14270223 Score: 283
Period size: 54 Copynumber: 5.1 Consensus size: 54
14269936 AGGGGTAAAA
* * * *
14269946 TGGTAATTTTACCCCACAAGGGTATCTTGGTAATTCTACCCTACAGAGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCTACAGAGGTATTT
** * * *
14270000 TAATAATTCTATCCTACAGGGGTATTTCGGTATTTCTACCCTACA-AGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCTACAGA-GGTATTT
* * * *
14270054 CGGTAATTCTACCCTATAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCTACAGAGGTATTT
* * *
14270108 TGGTATTTCTACCCTACAGGGGTATTTTGGTATTTCTACCCTATA-AGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCTACAGA-GGTATTT
* * * ** ** *
14270162 CGGTATTTCTACCCTATAAAGGTATTTCAGTATTTCTACCCTACA-AGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCTACAGA-GGTATTT
*
14270216 CGGTAATT
1 TGGTAATT
14270224 TTGTAAATCG
Statistics
Matches: 188, Mismatches: 33, Indels: 6
0.83 0.15 0.03
Matches are distributed among these distances:
53 1 0.01
54 187 0.99
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.38
Consensus pattern (54 bp):
TGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCTACAGAGGTATTT
Found at i:14270078 original size:81 final size:81
Alignment explanation
Indices: 14269951--14270223 Score: 370
Period size: 81 Copynumber: 3.4 Consensus size: 81
14269941 TAAAATGGTA
* * * * *
14269951 ATTT-TACCCCACAAGGGTATCTT-GGTAATTCTACCCTACAGAGGTATTTTAATAATTCTATCC
1 ATTTCTACCCTACAAGGGTAT-TTCGGTAATTCTACCCTATAGGGGTATTTTAGTAATTCTACCC
14270014 TACAGGGGTATTTCGGT
65 TACAGGGGTATTTCGGT
14270031 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTTAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTTAGTAATTCTACCCT
*
14270096 ACAGGGGTATTTTGGT
66 ACAGGGGTATTTCGGT
* * * * ** *
14270112 ATTTCTACCCTACAGGGGTATTTTGGTATTTCTACCCTATAAGGGTATTTCGGTATTTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTTAGTAATTCTACCCT
* ** *
14270177 ATAAAGGTATTTCAGT
66 ACAGGGGTATTTCGGT
14270193 ATTTCTACCCTACAAGGGTATTTCGGTAATT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATT
14270224 TTGTAAATCG
Statistics
Matches: 170, Mismatches: 21, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
80 6 0.04
81 164 0.96
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (81 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTTAGTAATTCTACCCT
ACAGGGGTATTTCGGT
Found at i:14270637 original size:27 final size:27
Alignment explanation
Indices: 14270263--14270630 Score: 430
Period size: 27 Copynumber: 13.6 Consensus size: 27
14270253 GTAAATCAGT
* ** *
14270263 GGTACTTTGGTAATTTTACAAGTCGAG
1 GGTATTTTGGTAATTTTACAAACCAAG
*** * * *
14270290 GGTATTTCAATAATTTCACAAATCAGG
1 GGTATTTTGGTAATTTTACAAACCAAG
* * *
14270317 GGTATTTTGGTAATTTTATAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCAAG
* *
14270344 GGTATTTTGATAATTTTACAAACTAAG
1 GGTATTTTGGTAATTTTACAAACCAAG
* *
14270371 GGTATTTTGATAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTACAAACCAAG
**
14270398 GGTATTTTGGTAATTTTGTAAACCAAG
1 GGTATTTTGGTAATTTTACAAACCAAG
*
14270425 GGTATTTTGGTAATTTTACAAACCAGGG
1 GGTATTTTGGTAATTTTACAAACCA-AG
* *
14270453 GGTATTTTGGTGATTTTATAAACCAAG
1 GGTATTTTGGTAATTTTACAAACCAAG
* *
14270480 GGTATTCTAGTAATTTTACAAACCAAG
1 GGTATTTTGGTAATTTTACAAACCAAG
**
14270507 GGTATTTTGGTAATTTTGTAAACCAAG
1 GGTATTTTGGTAATTTTACAAACCAAG
* *
14270534 TGTATTTTGGTAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTACAAACCAAG
* *
14270561 GGTATTTTGGTGATTTTATAAACCAAG
1 GGTATTTTGGTAATTTTACAAACCAAG
* * *
14270588 GGTTTTTTAGTAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTACAAACCAAG
14270615 GGTATTTTGGTAATTT
1 GGTATTTTGGTAATTT
14270631 GGTAAACTAA
Statistics
Matches: 287, Mismatches: 53, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
27 263 0.92
28 24 0.08
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTACAAACCAAG
Found at i:14270637 original size:54 final size:54
Alignment explanation
Indices: 14270263--14270630 Score: 477
Period size: 54 Copynumber: 6.8 Consensus size: 54
14270253 GTAAATCAGT
* ** *** * * * *
14270263 GGTACTTTGGTAATTTTACAAGTC-GAGGGTATTTCAATAATTTCACAAATCAGG
1 GGTATTTTGGTAATTTTACAAACCAG-GGGTATTTTGGTAATTTTATAAACCAAG
* * * * *
14270317 GGTATTTTGGTAATTTTATAAACTAGGGGTATTTTGATAATTTTACAAACTAAG
1 GGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAAG
* *
14270371 GGTATTTTGATAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAG
1 GGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAAG
*
14270425 GGTATTTTGGTAATTTTACAAACCAGGGGGTATTTTGGTGATTTTATAAACCAAG
1 GGTATTTTGGTAATTTTACAAACCA-GGGGTATTTTGGTAATTTTATAAACCAAG
* * * *
14270480 GGTATTCTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTGTAAACCAAG
1 GGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAAG
* *
14270534 TGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAAG
1 GGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAAG
* *
14270588 GGTTTTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTT
1 GGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTT
14270631 GGTAAACTAA
Statistics
Matches: 276, Mismatches: 36, Indels: 4
0.87 0.11 0.01
Matches are distributed among these distances:
54 225 0.82
55 51 0.18
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (54 bp):
GGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAAG
Found at i:14278280 original size:78 final size:78
Alignment explanation
Indices: 14278178--14278321 Score: 191
Period size: 78 Copynumber: 1.8 Consensus size: 78
14278168 TTCAGTGATG
* * * * * *
14278178 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTAGAATTATATCCGGACTTAAGGT-CCACAGG
1 TATAACCGGACTTAAGGTCAGCAGGCCACGTGCTAGAAATATATCCGGAC-TAAAGTCCCACAGG
14278242 CTATGTGCTGGAAT
65 CTATGTGCTGGAAT
* * *
14278256 TATAACCGGACTTAAGGTCAGCAGGCCACGTGCTGGAAATATGTCCGGGCTAAAGTCCCACAGGC
1 TATAACCGGACTTAAGGTCAGCAGGCCACGTGCTAGAAATATATCCGGACTAAAGTCCCACAGGC
14278321 T
66 T
14278322 TCGAGCTGGT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
77 5 0.09
78 51 0.91
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (78 bp):
TATAACCGGACTTAAGGTCAGCAGGCCACGTGCTAGAAATATATCCGGACTAAAGTCCCACAGGC
TATGTGCTGGAAT
Found at i:14278289 original size:39 final size:39
Alignment explanation
Indices: 14278178--14278303 Score: 173
Period size: 39 Copynumber: 3.2 Consensus size: 39
14278168 TTCAGTGATG
* *
14278178 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTAGAAT
1 TATATCCGGACTTAAGGTCAGCAGGCTATGTGCTGGAAT
14278217 TATATCCGGACTTAAGGTCCA-CAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGT-CAGCAGGCTATGTGCTGGAAT
* * * *
14278256 TATAACCGGACTTAAGGTCAGCAGGCCACGTGCTGGAAA
1 TATATCCGGACTTAAGGTCAGCAGGCTATGTGCTGGAAT
*
14278295 TATGTCCGG
1 TATATCCGG
14278304 GCTAAAGTCC
Statistics
Matches: 77, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
38 2 0.03
39 74 0.96
40 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCAGCAGGCTATGTGCTGGAAT
Found at i:14283556 original size:14 final size:15
Alignment explanation
Indices: 14283532--14283561 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
14283522 GAATATTAAA
14283532 ACAATAATTAAGAAC
1 ACAATAATTAAGAAC
14283547 ACAA-AATTAAGAAC
1 ACAATAATTAAGAAC
14283561 A
1 A
14283562 AGCCAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.63, C:0.13, G:0.07, T:0.17
Consensus pattern (15 bp):
ACAATAATTAAGAAC
Found at i:14287827 original size:17 final size:18
Alignment explanation
Indices: 14287795--14287829 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
14287785 CTGTGTGGTT
14287795 CACCCGTATGGGCCCACA
1 CACCCGTATGGGCCCACA
*
14287813 CACCCGTGT-GGCCCACA
1 CACCCGTATGGGCCCACA
14287830 TGACCCAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.20, C:0.46, G:0.23, T:0.11
Consensus pattern (18 bp):
CACCCGTATGGGCCCACA
Found at i:14305142 original size:40 final size:40
Alignment explanation
Indices: 14304912--14305136 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
14304902 TTGAATGATG
* * * * *
14304912 TCCGGGCTAAGTCCCAAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
14304952 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
14304992 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
14305031 TCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
14305071 TCTGGGTTAAGTCCCGAAGGCATTTGTACGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
14305112 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
14305137 AACGAGGAGC
Statistics
Matches: 159, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
39 33 0.21
40 116 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:14308179 original size:49 final size:48
Alignment explanation
Indices: 14308123--14308467 Score: 359
Period size: 49 Copynumber: 6.9 Consensus size: 48
14308113 TAGCCGAAGC
*
14308123 TATCTGGTATGCAC-AGTAGCCTGCACTTAGTACTACACATGTGACCAAT
1 TATCTGGTA--CACGAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* *
14308172 TATCTGGTACACGTCGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACG-AGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* * * *
14308222 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACAAACGTGATCGAAGT
1 TATCTGGTACACG-AGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-T
* * * * * * *
14308273 TATCAGGTACGCATAGTAGCCTGCACTCAGTACTACACATGCGACCAAC
1 TATCTGGTACAC-GAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* *
14308322 AATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCATAGT
1 TATCTGGTACACG-AGTAGCCTGCACTTAGTACTACACACGTGACCA-A-T
* * * * * *
14308373 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACAC-GAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
*
14308422 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TATCTGGTACACG-AGTAGCCTGCACTTAGTACTACACACGTGACC
14308468 TCACAATAGT
Statistics
Matches: 242, Mismatches: 43, Indels: 22
0.79 0.14 0.07
Matches are distributed among these distances:
47 3 0.01
49 117 0.48
50 49 0.20
51 73 0.30
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (48 bp):
TATCTGGTACACGAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:14308356 original size:100 final size:99
Alignment explanation
Indices: 14308137--14308465 Score: 471
Period size: 100 Copynumber: 3.3 Consensus size: 99
14308127 TGGTATGCAC
* * * * * *
14308137 AGTAGCCTGCACTTAGTACTACACATGTGACCAA-TTATCTGGTACACGTCGTAGCCTGCACTTA
1 AGTAGCCTGCACTTAGTACTACACACGTGATCAAGTTATCAGGTACGCATAGTAGCCTGCACTTA
* * * *
14308201 GTACTACACACGTGACCTAACCATCTGATACACGT
66 GTACTACACATGCGACC-AACAATCTGGTACACGT
* *
14308236 AGTAGCCTGCACTTAGTACTACAAACGTGATCGAAGTTATCAGGTACGCATAGTAGCCTGCACTC
1 AGTAGCCTGCACTTAGTACTACACACGTGATC-AAGTTATCAGGTACGCATAGTAGCCTGCACTT
14308301 AGTACTACACATGCGACCAACAATCTGGTACACGT
65 AGTACTACACATGCGACCAACAATCTGGTACACGT
* *
14308336 AGTAGCCTGCACTTAGTACTACACACGTGATCATAGTTTTCGGGTACGCATAGTAGCCTGCACTT
1 AGTAGCCTGCACTTAGTACTACACACGTGATCA-AGTTATCAGGTACGCATAGTAGCCTGCACTT
** *
14308401 AGTACTACACATGCGACCAATTATCCGGTACACGT
65 AGTACTACACATGCGACCAACAATCTGGTACACGT
14308436 AGTAGCCTGCACTTAGTACTACACACGTGA
1 AGTAGCCTGCACTTAGTACTACACACGTGA
14308466 CCTCACAATA
Statistics
Matches: 208, Mismatches: 19, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
99 30 0.14
100 138 0.66
101 40 0.19
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (99 bp):
AGTAGCCTGCACTTAGTACTACACACGTGATCAAGTTATCAGGTACGCATAGTAGCCTGCACTTA
GTACTACACATGCGACCAACAATCTGGTACACGT
Found at i:14321791 original size:23 final size:23
Alignment explanation
Indices: 14321765--14321874 Score: 98
Period size: 23 Copynumber: 4.8 Consensus size: 23
14321755 GACTCACCAT
14321765 AGCTCATTGGAGCTTACCAATTC
1 AGCTCATTGGAGCTTACCAATTC
** * * * *
14321788 AGCTCATAAGACCTTACTATTTT
1 AGCTCATTGGAGCTTACCAATTC
* * *
14321811 AGCTCATTGGAGGTAACCGATTC
1 AGCTCATTGGAGCTTACCAATTC
* *
14321834 AGCTCGA-TAGAGCTTA-CTATTC
1 AGCTC-ATTGGAGCTTACCAATTC
14321856 AGCTCATTGGAGCTTACCA
1 AGCTCATTGGAGCTTACCA
14321875 TTTTAGCTAG
Statistics
Matches: 63, Mismatches: 21, Indels: 6
0.70 0.23 0.07
Matches are distributed among these distances:
21 1 0.02
22 18 0.29
23 43 0.68
24 1 0.02
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (23 bp):
AGCTCATTGGAGCTTACCAATTC
Found at i:14321834 original size:46 final size:45
Alignment explanation
Indices: 14321764--14321874 Score: 143
Period size: 46 Copynumber: 2.4 Consensus size: 45
14321754 AGACTCACCA
*
14321764 TAGCTCATTGGAGCTTACCAATTCAGCTC-ATAAGACCTTACTATTT
1 TAGCTCATTGGAGCTAACCAATTCAGCTCGAT-AGACCTTACTA-TT
* * *
14321810 TAGCTCATTGGAGGTAACCGATTCAGCTCGATAGAGCTTACTATT
1 TAGCTCATTGGAGCTAACCAATTCAGCTCGATAGACCTTACTATT
* *
14321855 CAGCTCATTGGAGCTTACCA
1 TAGCTCATTGGAGCTAACCA
14321875 TTTTAGCTAG
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
45 18 0.32
46 36 0.64
47 2 0.04
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (45 bp):
TAGCTCATTGGAGCTAACCAATTCAGCTCGATAGACCTTACTATT
Found at i:14321856 original size:22 final size:22
Alignment explanation
Indices: 14321830--14321896 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
14321820 GAGGTAACCG
14321830 ATTCAGCTCGATAGAGCTTACT
1 ATTCAGCTCGATAGAGCTTACT
* *
14321852 ATTCAGCTC-ATTGGAGCTTACC
1 ATTCAGCTCGA-TAGAGCTTACT
* * *
14321874 ATTTTAGCTAGTTAGAGCTTACT
1 A-TTCAGCTCGATAGAGCTTACT
14321897 GTCCATCAAC
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
21 1 0.03
22 19 0.54
23 15 0.43
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (22 bp):
ATTCAGCTCGATAGAGCTTACT
Found at i:14335783 original size:50 final size:49
Alignment explanation
Indices: 14335673--14335848 Score: 190
Period size: 50 Copynumber: 3.5 Consensus size: 49
14335663 CTGGTATGCA
* * * ** *
14335673 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCCGATACACG
*
14335722 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AACCATCCGATACACG
**** * * * *
14335772 TAGTAGCCTGCACTTAGTACTACACACGTGATCACATTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAACCATCCGATACACG
14335823 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
14335849 TGCAACCTCA
Statistics
Matches: 109, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
49 30 0.28
50 43 0.39
51 35 0.32
52 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCCGATACACG
Found at i:14337518 original size:10 final size:10
Alignment explanation
Indices: 14337503--14337531 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
14337493 CATTCCTTTC
14337503 GCTCTCCTAT
1 GCTCTCCTAT
14337513 GCTCTCCTAT
1 GCTCTCCTAT
14337523 GCTCTCCTA
1 GCTCTCCTA
14337532 AATATAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.10, C:0.41, G:0.10, T:0.38
Consensus pattern (10 bp):
GCTCTCCTAT
Found at i:14339735 original size:18 final size:17
Alignment explanation
Indices: 14339714--14339747 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
14339704 TTGCATTTTC
14339714 TTTATTTATTATTATTTA
1 TTTATTTATT-TTATTTA
14339732 TTTATTTATTTTATTT
1 TTTATTTATTTTATTT
14339748 CAGATTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTATTTATTTTATTTA
Found at i:14341439 original size:22 final size:19
Alignment explanation
Indices: 14341409--14341478 Score: 68
Period size: 20 Copynumber: 3.4 Consensus size: 19
14341399 CTTTCAGTCC
*
14341409 TTTTATTTTATTATCATTATTA
1 TTTTTTTTTATT-T-ATT-TTA
*
14341431 TTTTTTTTTATTTTTTTTA
1 TTTTTTTTTATTTATTTTA
*
14341450 TTTTTTTTATTTTTATTTTA
1 TTTTTTTT-TATTTATTTTA
14341470 TTTATTTTT
1 TTT-TTTTT
14341479 GAAGACTTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
19 11 0.26
20 14 0.33
21 6 0.14
22 11 0.26
ACGTcount: A:0.17, C:0.01, G:0.00, T:0.81
Consensus pattern (19 bp):
TTTTTTTTTATTTATTTTA
Found at i:14341441 original size:19 final size:19
Alignment explanation
Indices: 14341414--14341457 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
14341404 AGTCCTTTTA
*
14341414 TTTTATTATCATTATTATT
1 TTTTTTTATCATTATTATT
** *
14341433 TTTTTTTATTTTTTTTATT
1 TTTTTTTATCATTATTATT
14341452 TTTTTT
1 TTTTTT
14341458 ATTTTTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.82
Consensus pattern (19 bp):
TTTTTTTATCATTATTATT
Found at i:14341444 original size:9 final size:9
Alignment explanation
Indices: 14341432--14341478 Score: 67
Period size: 9 Copynumber: 4.9 Consensus size: 9
14341422 TCATTATTAT
14341432 TTTTTTTTA
1 TTTTTTTTA
14341441 TTTTTTTTA
1 TTTTTTTTA
14341450 TTTTTTTTA
1 TTTTTTTTA
14341459 TTTTTATTTTA
1 -TTTT-TTTTA
14341470 TTTATTTTT
1 TTT-TTTTT
14341479 GAAGACTTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
9 18 0.51
10 11 0.31
11 6 0.17
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:14341462 original size:15 final size:15
Alignment explanation
Indices: 14341428--14341478 Score: 79
Period size: 15 Copynumber: 3.5 Consensus size: 15
14341418 ATTATCATTA
14341428 TTATTTTT-TTTTAT
1 TTATTTTTATTTTAT
*
14341442 TT-TTTTTATTTTTT
1 TTATTTTTATTTTAT
14341456 TTATTTTTATTTTAT
1 TTATTTTTATTTTAT
14341471 TTATTTTT
1 TTATTTTT
14341479 GAAGACTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
13 5 0.15
14 9 0.27
15 19 0.58
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (15 bp):
TTATTTTTATTTTAT
Found at i:14341467 original size:24 final size:23
Alignment explanation
Indices: 14341409--14341478 Score: 86
Period size: 24 Copynumber: 2.8 Consensus size: 23
14341399 CTTTCAGTCC
14341409 TTTTATTTTATTATCATTATTATTTTT
1 TTTTATTTTATT-T-ATT-TT-TTTTT
*
14341436 TTTTATTTTTTTTATTTTTTTTAT
1 TTTTATTTTATTTATTTTTTTT-T
14341460 TTTTATTTTATTTATTTTT
1 TTTTATTTTATTTATTTTT
14341479 GAAGACTTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
23 4 0.10
24 21 0.52
25 3 0.08
26 1 0.03
27 11 0.28
ACGTcount: A:0.17, C:0.01, G:0.00, T:0.81
Consensus pattern (23 bp):
TTTTATTTTATTTATTTTTTTTT
Found at i:14355663 original size:23 final size:23
Alignment explanation
Indices: 14355633--14355756 Score: 124
Period size: 23 Copynumber: 5.4 Consensus size: 23
14355623 TATCTTATTG
* *
14355633 GAGCTTACTGATTTAGCTCGTAA
1 GAGCTTACTGATTCAGCTCGTTA
* * *
14355656 GAGCTTACTAATTCAGCTCATTG
1 GAGCTTACTGATTCAGCTCGTTA
* *
14355679 GAGCTTACCGATTCAGCTCGATA
1 GAGCTTACTGATTCAGCTCGTTA
* * *
14355702 GAACTTACTG-TTCAGCTCATTG
1 GAGCTTACTGATTCAGCTCGTTA
* * *
14355724 GAGCATACCGTTTCAGCTCGTTA
1 GAGCTTACTGATTCAGCTCGTTA
14355747 GAGCTTACTG
1 GAGCTTACTG
14355757 TCCATCAACT
Statistics
Matches: 78, Mismatches: 22, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
22 16 0.21
23 62 0.79
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.32
Consensus pattern (23 bp):
GAGCTTACTGATTCAGCTCGTTA
Found at i:14355733 original size:45 final size:44
Alignment explanation
Indices: 14355629--14355757 Score: 168
Period size: 45 Copynumber: 2.8 Consensus size: 44
14355619 ACCATATCTT
* * *
14355629 ATTGGAGCTTACTGATTTAGCTCGTAAGAGCTTACTAATTCAGCTC
1 ATTGGAGCTTACCGATTCAGCTCGT-AGAGCTTACT-GTTCAGCTC
*
14355675 ATTGGAGCTTACCGATTCAGCTCGATAGAACTTACTGTTCAGCTC
1 ATTGGAGCTTACCGATTCAGCTCG-TAGAGCTTACTGTTCAGCTC
* *
14355720 ATTGGAGCATACCGTTTCAGCTCGTTAGAGCTTACTGT
1 ATTGGAGCTTACCGATTCAGCTCG-TAGAGCTTACTGT
14355758 CCATCAACTC
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
45 42 0.57
46 31 0.42
47 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (44 bp):
ATTGGAGCTTACCGATTCAGCTCGTAGAGCTTACTGTTCAGCTC
Found at i:14360350 original size:23 final size:23
Alignment explanation
Indices: 14360324--14360434 Score: 109
Period size: 23 Copynumber: 4.9 Consensus size: 23
14360314 ATACTCACCA
* *
14360324 CAGCTCATTGGAGCTTACCAATT
1 CAGCTCATTAGAGCTTACCGATT
* * *
14360347 CAGCTCATAAGAGCTTACTGTTT
1 CAGCTCATTAGAGCTTACCGATT
* * *
14360370 TAGCTCATTAGTGCTAACCGATT
1 CAGCTCATTAGAGCTTACCGATT
*
14360393 CAGCTCGA-TAGAGCTTACTG-TT
1 CAGCTC-ATTAGAGCTTACCGATT
*
14360415 CAGCTCATTGGAGCTTACCG
1 CAGCTCATTAGAGCTTACCG
14360435 TTTTAGCTAG
Statistics
Matches: 69, Mismatches: 17, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
21 1 0.01
22 18 0.26
23 49 0.71
24 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (23 bp):
CAGCTCATTAGAGCTTACCGATT
Found at i:14360394 original size:46 final size:45
Alignment explanation
Indices: 14360324--14360429 Score: 133
Period size: 46 Copynumber: 2.3 Consensus size: 45
14360314 ATACTCACCA
* *
14360324 CAGCTCATTGGAGCTTACCAATTCAGCTC-ATAAGAGCTTACTGTTT
1 CAGCTCATTAGAGCTAACCAATTCAGCTCGAT-AGAGCTTACTG-TT
* * *
14360370 TAGCTCATTAGTGCTAACCGATTCAGCTCGATAGAGCTTACTGTT
1 CAGCTCATTAGAGCTAACCAATTCAGCTCGATAGAGCTTACTGTT
*
14360415 CAGCTCATTGGAGCT
1 CAGCTCATTAGAGCT
14360430 TACCGTTTTA
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
45 14 0.27
46 35 0.69
47 2 0.04
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.32
Consensus pattern (45 bp):
CAGCTCATTAGAGCTAACCAATTCAGCTCGATAGAGCTTACTGTT
Found at i:14371917 original size:14 final size:14
Alignment explanation
Indices: 14371898--14371927 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
14371888 ATCGAAGCAC
14371898 GACTCACACAGGTA
1 GACTCACACAGGTA
*
14371912 GACTCACACGGGTA
1 GACTCACACAGGTA
14371926 GA
1 GA
14371928 ACACACGCCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.33, C:0.27, G:0.27, T:0.13
Consensus pattern (14 bp):
GACTCACACAGGTA
Found at i:14374815 original size:28 final size:28
Alignment explanation
Indices: 14374748--14374901 Score: 238
Period size: 28 Copynumber: 5.5 Consensus size: 28
14374738 ATATTAAGTC
* *
14374748 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
14374775 CGCACACTCAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
14374803 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
*
14374831 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
*
14374859 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
14374887 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
14374902 GTACAATTTA
Statistics
Matches: 123, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
27 23 0.19
28 100 0.81
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:14374844 original size:56 final size:56
Alignment explanation
Indices: 14374748--14374926 Score: 261
Period size: 56 Copynumber: 3.2 Consensus size: 56
14374738 ATATTAAGTC
* * *
14374748 CGCACACTCAGTGCTATATAATCAA-CTCGCACACTCAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAGCTCGCACACTTAGTGCTATATAATCAAACT
* *
14374803 CGCACACTTAGTGCTACATAATCAAGCTCGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAGCTCGCACACTTAGTGCTATATAATCAAACT
* * * *
14374859 CGCACACTTAGTGCTACATAATCAAGCTCGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTACATAATCAAGCTCGCACACTTAGTGCTATATAA-TCAAACT
14374916 CGCACACTTAG
1 CGCACACTTAG
14374927 CGCCAATCTC
Statistics
Matches: 111, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
55 23 0.21
56 73 0.66
57 15 0.14
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.25
Consensus pattern (56 bp):
CGCACACTTAGTGCTACATAATCAAGCTCGCACACTTAGTGCTATATAATCAAACT
Found at i:14380434 original size:16 final size:17
Alignment explanation
Indices: 14380409--14380440 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
14380399 ATTCAGTCCC
14380409 AAATTCATACTTTTGCA
1 AAATTCATACTTTTGCA
14380426 AAATT-ATACTTTTGC
1 AAATTCATACTTTTGC
14380441 CCTTAGTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.34, C:0.16, G:0.06, T:0.44
Consensus pattern (17 bp):
AAATTCATACTTTTGCA
Found at i:14382262 original size:28 final size:28
Alignment explanation
Indices: 14382231--14382290 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 28
14382221 GAATTCAAGA
14382231 GATTAAAAAGTAAGAATAAATCAAATTT
1 GATTAAAAAGTAAGAATAAATCAAATTT
***
14382259 GATT-ATGGGTAAGAATAAATCAAATTT
1 GATTAAAAAGTAAGAATAAATCAAATTT
*
14382286 TATTA
1 GATTA
14382291 TGGGTGATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 23 0.85
28 4 0.15
ACGTcount: A:0.50, C:0.03, G:0.13, T:0.33
Consensus pattern (28 bp):
GATTAAAAAGTAAGAATAAATCAAATTT
Found at i:14382275 original size:27 final size:27
Alignment explanation
Indices: 14382240--14382295 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
14382230 AGATTAAAAA
14382240 GTAAGAATAAATCAAATTTGATTATGG
1 GTAAGAATAAATCAAATTTGATTATGG
*
14382267 GTAAGAATAAATCAAATTTTATTATGG
1 GTAAGAATAAATCAAATTTGATTATGG
14382294 GT
1 GT
14382296 GATTAGTTCG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.43, C:0.04, G:0.18, T:0.36
Consensus pattern (27 bp):
GTAAGAATAAATCAAATTTGATTATGG
Done.