Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 16962412
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 61 of 73
Found at i:14132485 original size:45 final size:45
Alignment explanation
Indices: 14132416--14132506 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
14132406 TAATTTTAAA
*
14132416 AAGAAAATAATCAGATGACTAAAACTAAAATGCTGGAATAAGTGG
1 AAGAAAATAATCAGATGACCAAAACTAAAATGCTGGAATAAGTGG
* * *
14132461 AAGAAAATAGTGAGATGACCAAAACTAAAATGTTGGAATAAGTGG
1 AAGAAAATAATCAGATGACCAAAACTAAAATGCTGGAATAAGTGG
14132506 A
1 A
14132507 TGACCAACTA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.51, C:0.08, G:0.22, T:0.20
Consensus pattern (45 bp):
AAGAAAATAATCAGATGACCAAAACTAAAATGCTGGAATAAGTGG
Found at i:14136261 original size:21 final size:21
Alignment explanation
Indices: 14136235--14136284 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
14136225 GAAGAGGTAG
14136235 GAAACTTTAAGGATTGAATCA
1 GAAACTTTAAGGATTGAATCA
14136256 GAAACTTTAAGGATTGAATCA
1 GAAACTTTAAGGATTGAATCA
14136277 GAAACTTT
1 GAAACTTT
14136285 TTAATAAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.42, C:0.10, G:0.18, T:0.30
Consensus pattern (21 bp):
GAAACTTTAAGGATTGAATCA
Found at i:14138765 original size:2 final size:2
Alignment explanation
Indices: 14138758--14138815 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
14138748 AGGATTCATA
14138758 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14138800 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
14138816 GACCAAAATG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14142706 original size:29 final size:29
Alignment explanation
Indices: 14142671--14142728 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
14142661 TTTTTTTTTA
* *
14142671 AAAAACCGACTCAATTGAATCGGGTCGAG
1 AAAAACCGACCCAATTGAATCAGGTCGAG
14142700 AAAAACCGACCCAATTGAATCAGGTCGAG
1 AAAAACCGACCCAATTGAATCAGGTCGAG
14142729 TCAAAACTCG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.40, C:0.22, G:0.22, T:0.16
Consensus pattern (29 bp):
AAAAACCGACCCAATTGAATCAGGTCGAG
Found at i:14142915 original size:20 final size:20
Alignment explanation
Indices: 14142866--14143151 Score: 220
Period size: 20 Copynumber: 13.9 Consensus size: 20
14142856 AAAATGATCA
*
14142866 ACAAAATCGCAACGCGATAT
1 ACAAAATCGCAACGCGATTT
*
14142886 -CAAAACCGCAACGCGATTT
1 ACAAAATCGCAACGCGATTT
* * * **
14142905 AGAAAAGCGCAACGTTGA-AA
1 ACAAAATCGCAACG-CGATTT
* *
14142925 AGAAGATCGCAACGCGATCTT
1 ACAAAATCGCAACGCGAT-TT
* * *
14142946 CCAAGAATCGCAATGCGATTC
1 ACAA-AATCGCAACGCGATTT
*
14142967 ATAAAATCGCAACGCGATCTT
1 ACAAAATCGCAACGCGAT-TT
*
14142988 CCAAGAATCGCAACGCGATCTT
1 ACAA-AATCGCAACGCGAT-TT
* *
14143010 CCAAGAATCGCAACGCGATTA
1 ACAA-AATCGCAACGCGATTT
*
14143031 AGAAAATCGCAACGCGA-TT
1 ACAAAATCGCAACGCGATTT
*
14143050 CCAAGAATCGCAACGCGATCTT
1 ACAA-AATCGCAACGCGAT-TT
* *
14143072 CCAATAATCGCAACGCGATTA
1 ACAA-AATCGCAACGCGATTT
* *
14143093 AGAAAACCGCAACGCGA-TT
1 ACAAAATCGCAACGCGATTT
* *
14143112 CCAAGAATCGCAACGCGATTA
1 ACAA-AATCGCAACGCGATTT
*
14143133 AGAAAATCGCAACGCGATT
1 ACAAAATCGCAACGCGATT
14143152 CCAATTCAAA
Statistics
Matches: 213, Mismatches: 41, Indels: 24
0.77 0.15 0.09
Matches are distributed among these distances:
19 25 0.12
20 101 0.47
21 19 0.09
22 68 0.32
ACGTcount: A:0.38, C:0.26, G:0.19, T:0.16
Consensus pattern (20 bp):
ACAAAATCGCAACGCGATTT
Found at i:14142958 original size:22 final size:21
Alignment explanation
Indices: 14142930--14143155 Score: 234
Period size: 20 Copynumber: 10.9 Consensus size: 21
14142920 TGAAAAGAAG
14142930 ATCGCAACGCGATCTTCCAAGA
1 ATCGCAACGCGAT-TTCCAAGA
* *
14142952 ATCGCAATGCGA-TT-CATAAA
1 ATCGCAACGCGATTTCCA-AGA
14142972 ATCGCAACGCGATCTTCCAAGA
1 ATCGCAACGCGAT-TTCCAAGA
14142994 ATCGCAACGCGATCTTCCAAGA
1 ATCGCAACGCGAT-TTCCAAGA
***
14143016 ATCGCAACGCGATTAAGAA-A
1 ATCGCAACGCGATTTCCAAGA
14143036 ATCGCAACGCGA-TTCCAAGA
1 ATCGCAACGCGATTTCCAAGA
*
14143056 ATCGCAACGCGATCTTCCAATA
1 ATCGCAACGCGAT-TTCCAAGA
***
14143078 ATCGCAACGCGATTAAGAA-A
1 ATCGCAACGCGATTTCCAAGA
*
14143098 ACCGCAACGCGA-TTCCAAGA
1 ATCGCAACGCGATTTCCAAGA
***
14143118 ATCGCAACGCGATTAAGAA-A
1 ATCGCAACGCGATTTCCAAGA
14143138 ATCGCAACGCGA-TTCCAA
1 ATCGCAACGCGATTTCCAA
14143156 TTCAAAAGCT
Statistics
Matches: 170, Mismatches: 25, Indels: 21
0.79 0.12 0.10
Matches are distributed among these distances:
19 11 0.06
20 78 0.46
21 9 0.05
22 70 0.41
23 2 0.01
ACGTcount: A:0.37, C:0.28, G:0.18, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGATTTCCAAGA
Found at i:14143107 original size:62 final size:61
Alignment explanation
Indices: 14142870--14143151 Score: 338
Period size: 62 Copynumber: 4.6 Consensus size: 61
14142860 TGATCAACAA
* * * * * ****
14142870 AATCGCAACGCGAT-AT-CAAAACCGCAACGCGATTTAGAAAAGCGCAACGTTGAAAAGAAG
1 AATCGCAACGCGATCTTCCAAAATCGCAACGCGATTAAGAAAATCGCAACG-CGATTCCAAG
* * *
14142930 -ATCGCAACGCGATCTTCCAAGAATCGCAATGCGATTCATAAAATCGCAACGCGATCTTCCAAG
1 AATCGCAACGCGATCTTCCAA-AATCGCAACGCGATTAAGAAAATCGCAACGCGA--TTCCAAG
14142993 AATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTAAGAAAATCGCAACGCGATTCCAAG
1 AATCGCAACGCGATCTTCCAA-AATCGCAACGCGATTAAGAAAATCGCAACGCGATTCCAAG
*
14143055 AATCGCAACGCGATCTTCCAATAATCGCAACGCGATTAAGAAAACCGCAACGCGATTCCAAG
1 AATCGCAACGCGATCTTCCAA-AATCGCAACGCGATTAAGAAAATCGCAACGCGATTCCAAG
***
14143117 AATCGCAACGCGAT-TAAGAAAATCGCAACGCGATT
1 AATCGCAACGCGATCTTCCAAAATCGCAACGCGATT
14143152 CCAATTCAAA
Statistics
Matches: 197, Mismatches: 19, Indels: 12
0.86 0.08 0.05
Matches are distributed among these distances:
59 13 0.07
60 16 0.08
61 8 0.04
62 106 0.54
63 3 0.02
64 51 0.26
ACGTcount: A:0.38, C:0.26, G:0.19, T:0.17
Consensus pattern (61 bp):
AATCGCAACGCGATCTTCCAAAATCGCAACGCGATTAAGAAAATCGCAACGCGATTCCAAG
Found at i:14143271 original size:10 final size:11
Alignment explanation
Indices: 14143240--14143273 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 11
14143230 GACACGTATT
14143240 ACCACGACCACG
1 ACCACGACC-CG
14143252 ACCACGACCCG
1 ACCACGACCCG
14143263 ACC-CGACCCG
1 ACCACGACCCG
14143273 A
1 A
14143274 GACGAGACGG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 8 0.36
11 5 0.23
12 9 0.41
ACGTcount: A:0.29, C:0.53, G:0.18, T:0.00
Consensus pattern (11 bp):
ACCACGACCCG
Found at i:14143778 original size:6 final size:6
Alignment explanation
Indices: 14143767--14143805 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
14143757 TCTCGTCTCG
14143767 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
14143806 AATACGTGTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.00, C:0.15, G:0.51, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:14148832 original size:14 final size:14
Alignment explanation
Indices: 14148813--14148846 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
14148803 ATTAACCGAA
14148813 AATATTAAATATAT
1 AATATTAAATATAT
*
14148827 AATATTATATATAT
1 AATATTAAATATAT
*
14148841 ATTATT
1 AATATT
14148847 TAGCTTTAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
AATATTAAATATAT
Found at i:14153065 original size:11 final size:11
Alignment explanation
Indices: 14153049--14153078 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
14153039 AGACTTTTCA
14153049 TTTTCATCATT
1 TTTTCATCATT
14153060 TTTTCATCATT
1 TTTTCATCATT
14153071 TTTTCATC
1 TTTTCATC
14153079 CTTGTCTCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.17, C:0.20, G:0.00, T:0.63
Consensus pattern (11 bp):
TTTTCATCATT
Found at i:14154873 original size:100 final size:99
Alignment explanation
Indices: 14154700--14154895 Score: 338
Period size: 100 Copynumber: 2.0 Consensus size: 99
14154690 ATATTATATA
14154700 TATACAATAAAACTTGAGTTTTCCCTCTAAAGCAATTAGTTAAACGCCCCGACTTTATGGATAAG
1 TATACAATAAAACTTGAGTTTTCCCTCTAAAGCAATTAGTTAAACGCCCCGACTTTATGGATAAG
14154765 ATTCAGCTAAGCCTGATAAAGGTGATTATAATGTC
66 ATTCAGCT-AGCCTGATAAAGGTGATTATAATGTC
* * * *
14154800 TATACAATAAAGCTTGAGTTTTCCCTCTAGAGCAATTGGTTAAACGCCCCGACTTTATGGATAAT
1 TATACAATAAAACTTGAGTTTTCCCTCTAAAGCAATTAGTTAAACGCCCCGACTTTATGGATAAG
*
14154865 ATTTAGCTAGCCTGATAAAGGTGATTATAAT
66 ATTCAGCTAGCCTGATAAAGGTGATTATAAT
14154896 AAAATGATAT
Statistics
Matches: 91, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
99 23 0.25
100 68 0.75
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (99 bp):
TATACAATAAAACTTGAGTTTTCCCTCTAAAGCAATTAGTTAAACGCCCCGACTTTATGGATAAG
ATTCAGCTAGCCTGATAAAGGTGATTATAATGTC
Found at i:14156789 original size:43 final size:43
Alignment explanation
Indices: 14156624--14156787 Score: 247
Period size: 43 Copynumber: 3.8 Consensus size: 43
14156614 TGAAGGGGCC
* * *
14156624 ATCCACGATTTCAACTCCGCGACGGAGGATATCGTACCTATAA
1 ATCCACGATTTCAACTCCACGACGAAGGATATCGTACCCATAA
* *
14156667 ATCCACGATTTCAACTCCATGACGGAGGATATCGTACCCATAA
1 ATCCACGATTTCAACTCCACGACGAAGGATATCGTACCCATAA
* * *
14156710 ATCCATGATTTCAACTCCACGACGAAGGATATCGTGCCCACAA
1 ATCCACGATTTCAACTCCACGACGAAGGATATCGTACCCATAA
*
14156753 ATCCACGATTTCAACTTCACGACGAAGGATATCGT
1 ATCCACGATTTCAACTCCACGACGAAGGATATCGT
14156788 GCTCATCTCT
Statistics
Matches: 111, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 111 1.00
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (43 bp):
ATCCACGATTTCAACTCCACGACGAAGGATATCGTACCCATAA
Found at i:14157526 original size:3 final size:3
Alignment explanation
Indices: 14157520--14157558 Score: 51
Period size: 3 Copynumber: 12.3 Consensus size: 3
14157510 TTTAAAAAAA
*
14157520 TAT TATT TAT TATT TAT TAT TAT TAT TAT TAT TAA TAT T
1 TAT TA-T TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT T
14157559 TTTTATTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
3 26 0.81
4 6 0.19
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:14157532 original size:7 final size:7
Alignment explanation
Indices: 14157520--14157573 Score: 60
Period size: 7 Copynumber: 8.1 Consensus size: 7
14157510 TTTAAAAAAA
14157520 TATTATT
1 TATTATT
14157527 TATTATT
1 TATTATT
14157534 TATTA-T
1 TATTATT
14157540 TATTA-T
1 TATTATT
14157546 TATTA-T
1 TATTATT
*
14157552 TAATATT
1 TATTATT
*
14157559 TTTTATT
1 TATTATT
*
14157566 TTTTATT
1 TATTATT
14157573 T
1 T
14157574 TTGTAGACCC
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
6 17 0.40
7 26 0.60
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TATTATT
Found at i:14161883 original size:17 final size:15
Alignment explanation
Indices: 14161863--14161898 Score: 54
Period size: 17 Copynumber: 2.3 Consensus size: 15
14161853 TTCAAAGATA
14161863 TATTTAATTTATAATT
1 TATTTAATTTA-AATT
14161879 CTATTTAATTTAAATT
1 -TATTTAATTTAAATT
14161895 TATT
1 TATT
14161899 ACTATAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.21
16 4 0.21
17 11 0.58
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (15 bp):
TATTTAATTTAAATT
Found at i:14162297 original size:14 final size:15
Alignment explanation
Indices: 14162267--14162299 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
14162257 AATAGAATAA
14162267 ATAAATAAATATTAT
1 ATAAATAAATATTAT
*
14162282 ATAAATATAT-TTAT
1 ATAAATAAATATTAT
14162296 ATAA
1 ATAA
14162300 CTTAATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAAATAAATATTAT
Found at i:14162378 original size:15 final size:14
Alignment explanation
Indices: 14162348--14162407 Score: 61
Period size: 15 Copynumber: 4.1 Consensus size: 14
14162338 TTAAACATGT
14162348 AATAATAAAA-TAA
1 AATAATAAAATTAA
14162361 AATAATAATAATTAA
1 AATAATAA-AATTAA
14162376 AATGAA-AGAAATTAA
1 AAT-AATA-AAATTAA
*
14162391 AAGTAATAATATTAA
1 AA-TAATAAAATTAA
14162406 AA
1 AA
14162408 ACTAATGGAT
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
13 8 0.20
14 2 0.05
15 25 0.62
16 5 0.12
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (14 bp):
AATAATAAAATTAA
Found at i:14163831 original size:3 final size:3
Alignment explanation
Indices: 14163823--14163893 Score: 115
Period size: 3 Copynumber: 23.3 Consensus size: 3
14163813 TTTTATTACT
* *
14163823 TAA TAA TAA TAA TATA TAA TAA TAT TTA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
14163869 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
14163894 TTAAGTAAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
3 60 0.95
4 3 0.05
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:14164146 original size:76 final size:76
Alignment explanation
Indices: 14164047--14164760 Score: 1238
Period size: 76 Copynumber: 9.4 Consensus size: 76
14164037 GAGGTCTTAA
14164047 AAACATCATGCACTGC-AGAACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCG
1 AAACATCATGCACTGCAAG-ACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCG
14164111 AAGGCTTTTTGG
65 AAGGCTTTTTGG
*
14164123 AAACATCATGCACTGCAAGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAAGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
14164188 AGGCTTTTTGG
66 AGGCTTTTTGG
* * * *
14164199 AAATATCATGCACTTCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAAGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
14164264 AGGCTTTTTGG
66 AGGCTTTTTGG
*
14164275 AAACATCATGCACTGCAAGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAAGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
14164340 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
14164351 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAAGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
14164416 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
14164427 AAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAAGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
14164492 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
14164503 AAACATCATGCACTG-AAGGACTTACAGATGACCCGAAGGTTTTTAAAACATCAAAAAGCTCCCG
1 AAACATCATGCACTGCAA-GACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCG
14164567 AAGGCTTTTTGG
65 AAGGCTTTTTGG
14164579 AAACATCATGCACTG-AAGGACTTACAGATGA-CCTGAAGGTTTTGAAAACATCAAAAAGCTCCC
1 AAACATCATGCACTGCAA-GACTTACAGATGACCCT-AAGGTTTTGAAAACATCAAAAAGCTCCC
14164642 GAAGGCTTTTTGG
64 GAAGGCTTTTTGG
*
14164655 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAAGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
14164720 AGGCTTTTTGG
66 AGGCTTTTTGG
*
14164731 AAACATCATGCACTGCAGGACTTACAGATG
1 AAACATCATGCACTGCAAGACTTACAGATG
14164761 TGGGAAATAG
Statistics
Matches: 618, Mismatches: 15, Indels: 10
0.96 0.02 0.02
Matches are distributed among these distances:
75 3 0.00
76 609 0.99
77 6 0.01
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.23
Consensus pattern (76 bp):
AAACATCATGCACTGCAAGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGG
Found at i:14165638 original size:22 final size:22
Alignment explanation
Indices: 14165612--14165654 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
14165602 TTTATTTTTG
*
14165612 AAAAGATAATCTATCATCTTTA
1 AAAAGAGAATCTATCATCTTTA
14165634 AAAAGAGAATCTATCATCTTT
1 AAAAGAGAATCTATCATCTTT
14165655 GAAGAGTGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.35
Consensus pattern (22 bp):
AAAAGAGAATCTATCATCTTTA
Found at i:14171036 original size:31 final size:31
Alignment explanation
Indices: 14170963--14171093 Score: 133
Period size: 31 Copynumber: 4.2 Consensus size: 31
14170953 AGAGTCGAGG
* *
14170963 GTATACCTATGTTCTATGGAACATTTGGACC
1 GTATACCTATGTTCTATGGAACATATGGACA
* * *
14170994 GAATTACCTATG-TCTTTCGAGACATATGGACA
1 GTA-TACCTATGTTCTATGGA-ACATATGGACA
*
14171026 GTATACCTATGTTCTAAGGAACATATGGACA
1 GTATACCTATGTTCTATGGAACATATGGACA
* * *
14171057 GTTTACCTAGGTTCT-TCGGAACCTATGGACA
1 GTATACCTATGTTCTAT-GGAACATATGGACA
14171088 GT-TACC
1 GTATACC
14171094 AAGGATCTTT
Statistics
Matches: 83, Mismatches: 13, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
30 4 0.05
31 55 0.66
32 24 0.29
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (31 bp):
GTATACCTATGTTCTATGGAACATATGGACA
Found at i:14171121 original size:30 final size:30
Alignment explanation
Indices: 14171077--14171148 Score: 117
Period size: 30 Copynumber: 2.4 Consensus size: 30
14171067 GTTCTTCGGA
* *
14171077 ACCTATGGACAGTTACCAAGGATCTTTATG
1 ACCTCTGGATAGTTACCAAGGATCTTTATG
*
14171107 ACCTCTGGATAGTTACCGAGGATCTTTATG
1 ACCTCTGGATAGTTACCAAGGATCTTTATG
14171137 ACCTCTGGATAG
1 ACCTCTGGATAG
14171149 GTCCTTCGGG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (30 bp):
ACCTCTGGATAGTTACCAAGGATCTTTATG
Found at i:14176255 original size:90 final size:89
Alignment explanation
Indices: 14176097--14176273 Score: 318
Period size: 90 Copynumber: 2.0 Consensus size: 89
14176087 CTAAACACAC
14176097 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATA
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATA
* *
14176162 TTTAATTAATTTAAATTTAATAAT
66 TTTAATTAATTGAAATTAAATAAT
*
14176186 CCTTTTATATCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGG-TTTTATTATTTCAAATTAATTAAATCTAT
14176251 ATTTAATTAATTGAAATTAAATA
65 ATTTAATTAATTGAAATTAAATA
14176274 TTCAATATTT
Statistics
Matches: 84, Mismatches: 3, Indels: 1
0.95 0.03 0.01
Matches are distributed among these distances:
89 34 0.40
90 50 0.60
ACGTcount: A:0.38, C:0.11, G:0.06, T:0.45
Consensus pattern (89 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATA
TTTAATTAATTGAAATTAAATAAT
Found at i:14177323 original size:17 final size:14
Alignment explanation
Indices: 14177289--14177315 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14177279 AAATATATTA
14177289 ATTTTTATAAATAT
1 ATTTTTATAAATAT
14177303 ATTTTTATAAATA
1 ATTTTTATAAATA
14177316 AGATATTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
ATTTTTATAAATAT
Found at i:14177446 original size:26 final size:28
Alignment explanation
Indices: 14177389--14177454 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 28
14177379 TTCGATATTA
14177389 AAAATAAATAAATAACTAAAACATTTTCTT
1 AAAAT-AAT-AATAACTAAAACATTTTCTT
14177419 AAAATAATAATAA-TAAAA-ATTATT-TT
1 AAAATAATAATAACTAAAACATT-TTCTT
*
14177445 AATATAATAA
1 AAAATAATAA
14177455 GATATTTATT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
26 14 0.41
27 7 0.21
28 5 0.15
29 3 0.09
30 5 0.15
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.35
Consensus pattern (28 bp):
AAAATAATAATAACTAAAACATTTTCTT
Found at i:14177608 original size:138 final size:138
Alignment explanation
Indices: 14177312--14177592 Score: 363
Period size: 138 Copynumber: 2.0 Consensus size: 138
14177302 TATTTTTATA
* ** * * *
14177312 AATAAGATATTTATTTATTTAGAAATATCAGAAAAGGGCTTTTAGTTGCTTTAAGACAACTCTTT
1 AATAAGATATTAAGATATTTAAAAATATCAGAAAAGGACTTCTAGTTGCTTTAAGACAACTCTTT
*
14177377 TCTTCGATATTAAAAATAAATAAATAACTAAAACATTTTCTTAAAATAATAATAATAAAAATTAT
66 TCTTCGATATTAAAAATAAAAAAATAACTAAAACATTTTCTTAAAATAATAATAATAAAAATTAT
**
14177442 TTTAATAT
131 TAAAATAT
* ** *
14177450 AATAAGATATTTATTTATTTAAAAATATCAGAAAATGACTTCTAGTTGCTTTAAGACAACTCTTT
1 AATAAGATATTAAGATATTTAAAAATATCAGAAAAGGACTTCTAGTTGCTTTAAGACAACTCTTT
* *
14177515 TCTTCGAT-TTAAAAAAATAAAAAAATAACTAAAATATTTTCTTAAAATACTAATAA-AATAAA-
66 TCTTCGATATT--AAAAATAAAAAAATAACTAAAACATTTTCTTAAAATAATAATAATAA-AAAT
14177577 T-TTAAAATAT
128 TATTAAAATAT
14177587 ATATAA
1 A-ATAA
14177593 TTTATAAGGA
Statistics
Matches: 130, Mismatches: 9, Indels: 8
0.88 0.06 0.05
Matches are distributed among these distances:
137 10 0.08
138 76 0.58
139 44 0.34
ACGTcount: A:0.48, C:0.08, G:0.06, T:0.38
Consensus pattern (138 bp):
AATAAGATATTAAGATATTTAAAAATATCAGAAAAGGACTTCTAGTTGCTTTAAGACAACTCTTT
TCTTCGATATTAAAAATAAAAAAATAACTAAAACATTTTCTTAAAATAATAATAATAAAAATTAT
TAAAATAT
Found at i:14177668 original size:12 final size:11
Alignment explanation
Indices: 14177635--14177702 Score: 52
Period size: 11 Copynumber: 6.1 Consensus size: 11
14177625 TATTTATATG
*
14177635 AATAAGATAAT
1 AATAAAATAAT
14177646 AATAAAATAAT
1 AATAAAATAAT
*
14177657 -A-AAAGTAAT
1 AATAAAATAAT
*
14177666 AATTTAAAT-AT
1 AA-TAAAATAAT
14177677 ATATCAAAAGTAAT
1 A-AT-AAAA-TAAT
14177691 AATAAAATAAT
1 AATAAAATAAT
14177702 A
1 A
14177703 TTGCAAATGA
Statistics
Matches: 45, Mismatches: 5, Indels: 14
0.70 0.08 0.22
Matches are distributed among these distances:
9 7 0.16
10 2 0.04
11 19 0.42
12 11 0.24
13 3 0.07
14 3 0.07
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.29
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:14177709 original size:25 final size:24
Alignment explanation
Indices: 14177642--14177703 Score: 71
Period size: 25 Copynumber: 2.8 Consensus size: 24
14177632 ATGAATAAGA
14177642 TAATAAT-AAA-ATA-AT-AAAAG
1 TAATAATAAAATATATATCAAAAG
*
14177662 TAATAATTTAAATATATATCAAAAG
1 TAATAA-TAAAATATATATCAAAAG
14177687 TAATAATAAAATA-ATAT
1 TAATAATAAAATATATAT
14177704 TGCAAATGAA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
20 6 0.17
21 1 0.03
22 3 0.08
23 7 0.19
24 8 0.22
25 11 0.31
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (24 bp):
TAATAATAAAATATATATCAAAAG
Found at i:14179029 original size:3 final size:3
Alignment explanation
Indices: 14179023--14179070 Score: 71
Period size: 3 Copynumber: 16.0 Consensus size: 3
14179013 TTTTATTTAG
*
14179023 TAA TAA TAG T-A TATA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
14179068 TAA
1 TAA
14179071 AAGTAATCTA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
2 1 0.02
3 37 0.90
4 3 0.07
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:14179385 original size:77 final size:77
Alignment explanation
Indices: 14179244--14179442 Score: 317
Period size: 77 Copynumber: 2.6 Consensus size: 77
14179234 AAAGTATTAT
* * * * * * *
14179244 CATCTTGCATTGTAGGTCTTACAGATGACCCGGAGGCTTTAAAAAACATTAAAAAGCTCCTGAAG
1 CATCCTGCACTGTAGGGCTTACGGATGACCCAGAGGCTTTAAAAAACATCAAAAAGCTCATGAAG
14179309 GCTTTTTGAAAA
66 GCTTTTTGAAAA
*
14179321 CATCCTGCACTGTAGGGCTTACGGATGTCCCAGAGGCTTTAAAAAACATCAAAAAGCTCATGAAG
1 CATCCTGCACTGTAGGGCTTACGGATGACCCAGAGGCTTTAAAAAACATCAAAAAGCTCATGAAG
14179386 GCTTTTTGAAAA
66 GCTTTTTGAAAA
*
14179398 CATCCTGCACTGTAGGGCTTACGGATGACCCAGAGGTTTTAAAAA
1 CATCCTGCACTGTAGGGCTTACGGATGACCCAGAGGCTTTAAAAA
14179443 TATCATGCAC
Statistics
Matches: 112, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
77 112 1.00
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (77 bp):
CATCCTGCACTGTAGGGCTTACGGATGACCCAGAGGCTTTAAAAAACATCAAAAAGCTCATGAAG
GCTTTTTGAAAA
Found at i:14179470 original size:45 final size:45
Alignment explanation
Indices: 14179390--14179807 Score: 631
Period size: 45 Copynumber: 9.3 Consensus size: 45
14179380 ATGAAGGCTT
* * * *
14179390 TTTGAAAACATCCTGCACTGTAGGGCTTACGGATGACCC-AGAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGA-AGGC
* *
14179435 TTTAAAAATATCATGCACTGAAGGGCTTACAGATGACCCGAAGGC
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGC
* *
14179480 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCAAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGC
14179525 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGC
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGC
*
14179570 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGG
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGC
*
14179615 TTTGAAAGCATCATGCACTGAAGGGCTTACAGATGACCCGAAGGC
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGC
* **
14179660 TTTGAAAACATCATGCACTAAAGGGCTTACAGATGACTTGAAGGC
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGC
* * * * *
14179705 TTTGAATACATCATGCACTGATGGGCTTACAGATGTCCCAAAGGA
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGC
* *
14179750 TTTGAAAACATCATGCACTGAAGGGCTTACAAATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGC
*
14179795 TTTGAAAATATCA
1 TTTGAAAACATCA
14179808 AAAAGCTCCC
Statistics
Matches: 338, Mismatches: 34, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 337 1.00
46 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.23
Consensus pattern (45 bp):
TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGC
Found at i:14179614 original size:20 final size:20
Alignment explanation
Indices: 14179589--14179658 Score: 59
Period size: 20 Copynumber: 3.2 Consensus size: 20
14179579 ATCATGCACT
14179589 GAAGGGCTTACAGATGACCC
1 GAAGGGCTTACAGATGACCC
* * * *
14179609 GAAGGGTTTGAAAGCATCATGCACT
1 GAAGGGCTT-ACAG-ATGA--C-CC
14179634 GAAGGGCTTACAGATGACCC
1 GAAGGGCTTACAGATGACCC
14179654 GAAGG
1 GAAGG
14179659 CTTTGAAAAC
Statistics
Matches: 37, Mismatches: 8, Indels: 10
0.67 0.15 0.18
Matches are distributed among these distances:
20 14 0.38
21 4 0.11
22 3 0.08
23 3 0.08
24 4 0.11
25 9 0.24
ACGTcount: A:0.31, C:0.20, G:0.31, T:0.17
Consensus pattern (20 bp):
GAAGGGCTTACAGATGACCC
Found at i:14189707 original size:33 final size:30
Alignment explanation
Indices: 14189670--14189731 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 30
14189660 AAAAAAACAG
14189670 TAATAAAGAAGGATATATAAAATATTATGAAAA
1 TAAT-AAGAA-GATATATAAAATATT-TGAAAA
* *
14189703 TAATAAGTATATATATAAAATATTTGAAA
1 TAATAAGAAGATATATAAAATATTTGAAA
14189732 GGAATGAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 5 0.19
31 14 0.52
32 4 0.15
33 4 0.15
ACGTcount: A:0.58, C:0.00, G:0.10, T:0.32
Consensus pattern (30 bp):
TAATAAGAAGATATATAAAATATTTGAAAA
Found at i:14190161 original size:16 final size:18
Alignment explanation
Indices: 14190132--14190170 Score: 64
Period size: 16 Copynumber: 2.3 Consensus size: 18
14190122 AATTTCAAGA
14190132 AAATATATTAATTTTTAT
1 AAATATATTAATTTTTAT
14190150 AAATATA-T-ATTTTTAT
1 AAATATATTAATTTTTAT
14190166 AAATA
1 AAATA
14190171 AGATATTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 13 0.62
17 1 0.05
18 7 0.33
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
AAATATATTAATTTTTAT
Found at i:14190176 original size:17 final size:16
Alignment explanation
Indices: 14190142--14190178 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
14190132 AAATATATTA
*
14190142 ATTTTTATAAATATAT
1 ATTTTTATAAATAGAT
14190158 ATTTTTATAAATAAGAT
1 ATTTTTATAAAT-AGAT
14190175 ATTT
1 ATTT
14190179 ATTTATTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (16 bp):
ATTTTTATAAATAGAT
Found at i:14190342 original size:140 final size:141
Alignment explanation
Indices: 14190169--14190426 Score: 428
Period size: 140 Copynumber: 1.8 Consensus size: 141
14190159 TTTTTATAAA
* * * ** *
14190169 TAAGATATTTATTTATTTAGAACTATCAGAAAAGGGTTTCTAGTTGTTTTAAGATAACTCTTTTA
1 TAAGATATTTATTTATTTAAAAATATCAGAAAAGGGCTTCTAGTTACTTTAAGACAACTCTTTTA
14190234 TTCGATAT-TAAAAAATAAATAAATAACTAAAACATTTTCTTAAAATAATAATGATAAAAAATTA
66 TTCGATATATAAAAAATAAATAAATAACTAAAACATTTTCTTAAAATAATAATGATAAAAAATTA
14190298 TTTTAATATAG
131 TTTTAATATAG
*
14190309 TAAGATATTTATTTATTTAAAAATATCAGAAAAGGGCTTCTAGTTACTTTAAGACAACTCTTTTC
1 TAAGATATTTATTTATTTAAAAATATCAGAAAAGGGCTTCTAGTTACTTTAAGACAACTCTTTTA
* *
14190374 TTCGATTTATAAAAAATAAATAAATAACTAAAATATTTTCTTAAAATAATAAT
66 TTCGATATATAAAAAATAAATAAATAACTAAAACATTTTCTTAAAATAATAAT
14190427 AAAATAAATT
Statistics
Matches: 108, Mismatches: 9, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
140 65 0.60
141 43 0.40
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.40
Consensus pattern (141 bp):
TAAGATATTTATTTATTTAAAAATATCAGAAAAGGGCTTCTAGTTACTTTAAGACAACTCTTTTA
TTCGATATATAAAAAATAAATAAATAACTAAAACATTTTCTTAAAATAATAATGATAAAAAATTA
TTTTAATATAG
Found at i:14191786 original size:3 final size:3
Alignment explanation
Indices: 14191780--14191840 Score: 61
Period size: 3 Copynumber: 19.0 Consensus size: 3
14191770 TTTTATTTAG
*
14191780 TAA TAA TAG TATA TATA TATA TATA TATA TA- TAA TAA TAA TAA TAA
1 TAA TAA TAA TA-A TA-A TA-A TA-A TA-A TAA TAA TAA TAA TAA TAA
14191826 TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA
14191841 AAGTAATCTG
Statistics
Matches: 54, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
2 2 0.04
3 34 0.63
4 18 0.33
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:14201832 original size:4 final size:4
Alignment explanation
Indices: 14201823--14201862 Score: 57
Period size: 4 Copynumber: 10.5 Consensus size: 4
14201813 AAGGTTAGAT
*
14201823 AATA AATA AATA AATA ACT- AA-A AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AA
14201863 CCAAAAAGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
3 3 0.09
4 29 0.91
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:14201849 original size:18 final size:18
Alignment explanation
Indices: 14201821--14201862 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
14201811 AAAAGGTTAG
14201821 ATAATAAATAAATAAATAA
1 ATAA-AAATAAATAAATAA
*
14201840 CTAAAAATAAATAAATAA
1 ATAAAAATAAATAAATAA
14201858 ATAAA
1 ATAAA
14201863 CCAAAAAGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 18 0.86
19 3 0.14
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (18 bp):
ATAAAAATAAATAAATAA
Found at i:14202060 original size:31 final size:30
Alignment explanation
Indices: 14202014--14202075 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 30
14202004 ATCCTGCCTG
14202014 TCCATCTATTTTCAATCCATCTATTTTCAA
1 TCCATCTATTTTCAATCCATCTATTTTCAA
14202044 TCCATCTATTTTTCAATCCATCTATTTTCAA
1 TCCATCTA-TTTTCAATCCATCTATTTTCAA
14202075 T
1 T
14202076 TCCAAGAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 8 0.26
31 23 0.74
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.48
Consensus pattern (30 bp):
TCCATCTATTTTCAATCCATCTATTTTCAA
Found at i:14202079 original size:16 final size:15
Alignment explanation
Indices: 14202014--14202075 Score: 115
Period size: 15 Copynumber: 4.1 Consensus size: 15
14202004 ATCCTGCCTG
14202014 TCCATCTATTTTCAA
1 TCCATCTATTTTCAA
14202029 TCCATCTATTTTCAA
1 TCCATCTATTTTCAA
14202044 TCCATCTATTTTTCAA
1 TCCATCTA-TTTTCAA
14202060 TCCATCTATTTTCAA
1 TCCATCTATTTTCAA
14202075 T
1 T
14202076 TCCAAGAAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
15 31 0.67
16 15 0.33
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.48
Consensus pattern (15 bp):
TCCATCTATTTTCAA
Found at i:14203969 original size:83 final size:83
Alignment explanation
Indices: 14203843--14204001 Score: 228
Period size: 83 Copynumber: 1.9 Consensus size: 83
14203833 TTTATTGATA
* * * * * * *
14203843 GATAGCCCTTCTTGCCTCGAGCTATGTTGTAAATGATGTGCCTTGGAGCTGAACGTAGTCGAACT
1 GATAACCCTTCTAGCCTCGAGCTATGCTGCAAATGATGCGCCTTGGAGCTGAACGAAGTCCAACT
14203908 CGAAGGTCTTTGTTGGCG
66 CGAAGGTCTTTGTTGGCG
* * *
14203926 GATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGCGCCTTGGAGCTGAGCGAAGTCCAACT
1 GATAACCCTTCTAGCCTCGAGCTATGCTGCAAATGATGCGCCTTGGAGCTGAACGAAGTCCAACT
14203991 CGAAGGTCTTT
66 CGAAGGTCTTT
14204002 TGTGTTTCAA
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
83 66 1.00
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.30
Consensus pattern (83 bp):
GATAACCCTTCTAGCCTCGAGCTATGCTGCAAATGATGCGCCTTGGAGCTGAACGAAGTCCAACT
CGAAGGTCTTTGTTGGCG
Found at i:14204160 original size:36 final size:37
Alignment explanation
Indices: 14204072--14204183 Score: 163
Period size: 37 Copynumber: 3.1 Consensus size: 37
14204062 AAGGTTGGCA
* *
14204072 TTTCAAGAGAAACTATCTGAAGAGAGACAAAACTTAG
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAG
* * *
14204109 TTTCAAGGGAAACTGTCTCAAGAGAGATAAAA-TTTG
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAG
*
14204145 TTTTAAGAGAAACTGTCTCAAGAGAGACAAAACTTAG
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAG
14204182 TT
1 TT
14204184 CCAAAAGATT
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
36 32 0.49
37 33 0.51
ACGTcount: A:0.42, C:0.12, G:0.20, T:0.26
Consensus pattern (37 bp):
TTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAG
Found at i:14204166 original size:88 final size:88
Alignment explanation
Indices: 14204094--14204264 Score: 229
Period size: 88 Copynumber: 2.0 Consensus size: 88
14204084 CTATCTGAAG
* *
14204094 AGAGAC-AAA-ACTTAGTTTCAAGGGAAACTGTCTCAAGAGAGATAAAATTTGTTTTAAGAGAAA
1 AGAGACAAAAGACTTAGTTTCAAGGGAAAATGTCTCAAGAGAGATAAAATTTGTTTCAAGAGAAA
* *
14204157 CTGTCTCAAGAGAGACAAAACTT
66 CTGTCTCAAGAGAAACAAAACTA
*** * * *
14204180 AGTTCCAAAAGATTTTGTTTCAAGGGAAAATGTCTCAAGAGAGATAAAATTTGTTTCAAGGGAAA
1 AGAGACAAAAGACTTAGTTTCAAGGGAAAATGTCTCAAGAGAGATAAAATTTGTTTCAAGAGAAA
*
14204245 CTGTCTCAAGAGAGACAAAA
66 CTGTCTCAAGAGAAACAAAA
14204265 TTTGTTTCAA
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
86 3 0.04
87 3 0.04
88 69 0.92
ACGTcount: A:0.42, C:0.12, G:0.20, T:0.25
Consensus pattern (88 bp):
AGAGACAAAAGACTTAGTTTCAAGGGAAAATGTCTCAAGAGAGATAAAATTTGTTTCAAGAGAAA
CTGTCTCAAGAGAAACAAAACTA
Found at i:14204233 original size:36 final size:36
Alignment explanation
Indices: 14204193--14204585 Score: 365
Period size: 36 Copynumber: 11.2 Consensus size: 36
14204183 TCCAAAAGAT
* *
14204193 TTTGTTTCAAGGGAAAATGTCTCAAGAGAGATAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
14204229 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
*
14204265 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* ** * * *
14204301 CTTAG-TTCTAAAAGAAACTATCTTAAGGGAGACAAAA
1 -TTTGTTTC-AAGGGAAACTGTCTCAAGAGAGACAAAA
**
14204338 TTTGTTTCAAGGG-AA--G---C-A-A-ATTCAAAGA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAA-A
*
14204366 TTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAA
1 -TTTGTTTCAAGGGAAACTGTCTCAAGAGAGAC-AAAA
* * *
14204404 ATT-TTTCAAGGGAAACCGTCACAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* *
14204439 TTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
** * *
14204475 CTTTGTTTCAAAAGAAAATAGAT-TC-A-A-AG----AT
1 -TTTGTTTCAAGGGAAACT-G-TCTCAAGAGAGACAAAA
*
14204506 TTTGTTTCAAGGGAAACTTTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
*
14204542 TTTGTTTCAAGGGAAACTTTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
14204578 CTTTGTTT
1 -TTTGTTT
14204586 TGAGTAAATT
Statistics
Matches: 292, Mismatches: 37, Indels: 55
0.76 0.10 0.14
Matches are distributed among these distances:
27 5 0.02
28 2 0.01
29 15 0.05
30 18 0.06
31 2 0.01
32 3 0.01
35 11 0.04
36 170 0.58
37 57 0.20
38 5 0.02
39 4 0.01
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.27
Consensus pattern (36 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
Found at i:14204239 original size:21 final size:20
Alignment explanation
Indices: 14204214--14204278 Score: 59
Period size: 21 Copynumber: 3.4 Consensus size: 20
14204204 GGAAAATGTC
14204214 TCAAGAGAGATAAAATTTGTT
1 TCAAGAGAGA-AAAATTTGTT
* *
14204235 TCAAG-G-G--AAA-CTGTC
1 TCAAGAGAGAAAAATTTGTT
14204250 TCAAGAGAGACAAAATTTGTT
1 TCAAGAGAGA-AAAATTTGTT
14204271 TCAAGAGA
1 TCAAGAGA
14204279 AACTGTCTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
15 8 0.24
16 4 0.12
17 1 0.03
19 1 0.03
20 4 0.12
21 16 0.47
ACGTcount: A:0.42, C:0.11, G:0.22, T:0.26
Consensus pattern (20 bp):
TCAAGAGAGAAAAATTTGTT
Found at i:14204247 original size:124 final size:125
Alignment explanation
Indices: 14204072--14204315 Score: 400
Period size: 124 Copynumber: 2.0 Consensus size: 125
14204062 AAGGTTGGCA
* * *
14204072 TTTCAAGAGAAACTATCTGAAGAGAGACAAAACTTAGTTTCAAGGGAAACTGTCTCAAGAGAGAT
1 TTTCAAGAGAAAATATCTCAAGAGAGACAAAACTTAGTTTCAAGGGAAACTGTCTCAAGAGAGAC
*
14204137 AAAATTTGTTTTAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGATTTTG
66 AAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGATTTTG
* * * *
14204197 TTTCAAGGGAAAATGTCTCAAGAGAGATAAAA-TTTGTTTCAAGGGAAACTGTCTCAAGAGAGAC
1 TTTCAAGAGAAAATATCTCAAGAGAGACAAAACTTAGTTTCAAGGGAAACTGTCTCAAGAGAGAC
*
14204261 AAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCTAAAAGA
66 AAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGA
14204316 AACTATCTTA
Statistics
Matches: 110, Mismatches: 9, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
124 83 0.75
125 27 0.25
ACGTcount: A:0.42, C:0.13, G:0.20, T:0.26
Consensus pattern (125 bp):
TTTCAAGAGAAAATATCTCAAGAGAGACAAAACTTAGTTTCAAGGGAAACTGTCTCAAGAGAGAC
AAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGATTTTG
Found at i:14204329 original size:124 final size:132
Alignment explanation
Indices: 14204108--14204580 Score: 520
Period size: 124 Copynumber: 3.5 Consensus size: 132
14204098 ACAAAACTTA
* *
14204108 GTTTCAAGGGAAACTGTCTCAAGAGAGATAAAATTTGTTTTAAGAGAAACTGTCTCAAGAGAGAC
1 GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGAC
* *** * *
14204173 AAAACTTAGTTCCAAAAGATTTTGT-TTCAAGG-G-AAAA-TGTCTCAAG-AGAGA-T-AAA-A-
66 AAAACTTAGTTCTAAAAGAAACTATCTT-AAGGAGAAAAATTGTTTCAAGAAGAGATTCAAAGAT
14204229 TTT
130 TTT
14204232 GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGAC
1 GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGAC
*
14204297 AAAACTTAGTTCTAAAAGAAACTATCTTAAGGGAGACAAAATTTGTTTCAAGGGAAGCAAATTCA
66 AAAACTTAGTTCTAAAAGAAACTATCTTAA-GGAGA-AAAA-TTGTTTCAA--GAAG-AGATTCA
14204362 AAGATTTT
125 AAGATTTT
* * * * *
14204370 GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAAATT-TTTCAAGGGAAACCGTCACAAGAGAGA
1 GTTTCAAGGGAAACTGTCTCAAGAGAGAC-AAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGA
* * * *
14204434 CAAAA-TTTGTT-TCAAGAGAAACTATCTCAAGAGAGACAAAACTTTGTTTCAAAAGAAAATAGA
65 CAAAACTTAGTTCT-AAAAGAAACTATCTTAAG-GAGA-AAAA--TTGTTTC--AAG--AAGAGA
14204497 TTCAAAGATTTT
121 TTCAAAGATTTT
* * *
14204509 GTTTCAAGGGAAACTTTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTTTCTCAAGAGAGAC
1 GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGAC
14204574 AAAACTT
66 AAAACTT
14204581 TGTTTTGAGT
Statistics
Matches: 299, Mismatches: 25, Indels: 34
0.84 0.07 0.09
Matches are distributed among these distances:
124 85 0.28
125 4 0.01
126 1 0.00
128 4 0.01
130 7 0.02
132 1 0.00
133 2 0.01
134 2 0.01
135 1 0.00
136 5 0.02
137 30 0.10
138 75 0.25
139 76 0.25
140 6 0.02
ACGTcount: A:0.42, C:0.13, G:0.19, T:0.26
Consensus pattern (132 bp):
GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGAC
AAAACTTAGTTCTAAAAGAAACTATCTTAAGGAGAAAAATTGTTTCAAGAAGAGATTCAAAGATT
TT
Found at i:14204390 original size:138 final size:140
Alignment explanation
Indices: 14204229--14204585 Score: 510
Period size: 138 Copynumber: 2.6 Consensus size: 140
14204219 AGAGATAAAA
*
14204229 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGA
* * ** *
14204294 GACAAAACTTAG-TTCTAAAAGAAACTATCTTAAGGGAGACAAAA-TTTGTTTCAAGGGAAGCA-
66 GACAAAACTTAGTTTC-AAAAGAAACTATCTCAAGAGAGACAAAACTTTGTTTCAAAAGAA-AAT
14204356 A-ATTCAAAGAT
129 AGATTCAAAGAT
* * * *
14204367 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAAATT-TTTCAAGGGAAACCGTCACAAGAG
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGAC-AAAATTTGTTTCAAGGGAAACTGTCTCAAGAG
* *
14204431 AGACAAAA-TTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTTGTTTCAAAAGAAAATA
65 AGACAAAACTTAGTTTCAAAAGAAACTATCTCAAGAGAGACAAAACTTTGTTTCAAAAGAAAATA
14204495 GATTCAAAGAT
130 GATTCAAAGAT
* *
14204506 TTTGTTTCAAGGGAAACTTTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTTTCTCAAGAGA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGA
*
14204571 GACAAAACTTTGTTT
66 GACAAAACTTAGTTT
14204586 TGAGTAAATT
Statistics
Matches: 194, Mismatches: 18, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
137 29 0.15
138 83 0.43
139 75 0.39
140 7 0.04
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.27
Consensus pattern (140 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGA
GACAAAACTTAGTTTCAAAAGAAACTATCTCAAGAGAGACAAAACTTTGTTTCAAAAGAAAATAG
ATTCAAAGAT
Found at i:14204641 original size:139 final size:136
Alignment explanation
Indices: 14204229--14204642 Score: 494
Period size: 139 Copynumber: 3.0 Consensus size: 136
14204219 AGAGATAAAA
*
14204229 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGA
* * * * * *
14204294 GACAAAACTTAGTTCTAAAAGAAACTATCTTAAGGGAGACAAAA-TTTGTTTCAAGGGAAGCAAA
66 GACAAAACTTTGTT-TAAGAGAAACTATCTCAAGAGAGA-AAAACTTTGTTTCAAGAGAAAC-AA
14204358 TTCAAAGAT
128 TTCAAAGAT
* * * *
14204367 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAAATT-TTTCAAGGGAAACCGTCACAAGAG
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGAC-AAAATTTGTTTCAAGGGAAACTGTCTCAAGAG
* *
14204431 AGACAAAA-TTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTTGTTTCAAAAGAAAATA
65 AGACAAAACTTTGTTT-AAGAGAAACTATCTCAAGAGAGA-AAAACTTTGTTTCAAGAG-AAACA
14204495 GATTCAAAGAT
127 -ATTCAAAGAT
* *
14204506 TTTGTTTCAAGGGAAACTTTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTTTCTCAAGAGA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGA
* * * ** * *
14204571 GACAAAACTTTGTTT-TGAGTAAATTAGTCTCAAGCGAGATGACCTCTTGTTTCGAGAGAAACAA
66 GACAAAACTTTGTTTAAGAG-AAACTA-TCTCAAGAGAGAAAAACT-TTGTTTCAAGAGAAACAA
14204635 TCTCAAAG
128 T-TCAAAG
14204643 GTGATATGTT
Statistics
Matches: 237, Mismatches: 28, Indels: 21
0.83 0.10 0.07
Matches are distributed among these distances:
136 1 0.00
137 30 0.13
138 83 0.35
139 95 0.40
140 28 0.12
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.27
Consensus pattern (136 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGA
GACAAAACTTTGTTTAAGAGAAACTATCTCAAGAGAGAAAAACTTTGTTTCAAGAGAAACAATTC
AAAGAT
Found at i:14205240 original size:42 final size:43
Alignment explanation
Indices: 14205162--14205243 Score: 112
Period size: 42 Copynumber: 1.9 Consensus size: 43
14205152 CTTGAGTAAA
* * *
14205162 TGGGTACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATTTG
1 TGGGCACGATATCCTCCGTCGTGAAGTTAAAATCGTGGATTTG
* *
14205205 TGGGCACGATAT-CTCCGTCTTGGAGTTAAAATCGTGGAT
1 TGGGCACGATATCCTCCGTCGTGAAGTTAAAATCGTGGAT
14205244 GGCCCATTCG
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
42 23 0.68
43 11 0.32
ACGTcount: A:0.22, C:0.16, G:0.29, T:0.33
Consensus pattern (43 bp):
TGGGCACGATATCCTCCGTCGTGAAGTTAAAATCGTGGATTTG
Found at i:14211774 original size:15 final size:17
Alignment explanation
Indices: 14211743--14211774 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
14211733 ATGTATTTTT
14211743 ATCTATCTTGCAATTTA
1 ATCTATCTTGCAATTTA
14211760 ATCTA-CTTG-AATTTA
1 ATCTATCTTGCAATTTA
14211775 TTATATTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.31, C:0.16, G:0.06, T:0.47
Consensus pattern (17 bp):
ATCTATCTTGCAATTTA
Found at i:14211876 original size:29 final size:29
Alignment explanation
Indices: 14211839--14211906 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
14211829 AAGATAGAAT
* *
14211839 AAGAGAAAATAATATAACAAAGAAAAGGAA
1 AAGA-AAAATAAAATAACAAAAAAAAGGAA
* *
14211869 AAGAAAAAGAAAATAACAAAAAAAAGTAA
1 AAGAAAAATAAAATAACAAAAAAAAGGAA
*
14211898 AAAAAAAAT
1 AAGAAAAAT
14211907 CATAAATTAT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 28 0.88
30 4 0.12
ACGTcount: A:0.76, C:0.03, G:0.12, T:0.09
Consensus pattern (29 bp):
AAGAAAAATAAAATAACAAAAAAAAGGAA
Found at i:14213447 original size:21 final size:20
Alignment explanation
Indices: 14213420--14213463 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
14213410 CTAATTTTTT
14213420 TTTTAT-TTTTTATTAAATG
1 TTTTATATTTTTATTAAATG
* *
14213439 TTTTATATTTTTATTTAATT
1 TTTTATATTTTTATTAAATG
14213459 TTTTA
1 TTTTA
14213464 AATAATTATG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (20 bp):
TTTTATATTTTTATTAAATG
Found at i:14214281 original size:26 final size:27
Alignment explanation
Indices: 14214242--14214294 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
14214232 TTTTATAATA
14214242 ATAAATATTTTATA-ATTTAAAAAATT
1 ATAAATATTTTATATATTTAAAAAATT
*
14214268 ATAAAT-TTTATATATTTTTAAAAAATT
1 ATAAATATTT-TATATATTTAAAAAATT
14214295 TATTGCCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 3 0.12
26 10 0.42
27 11 0.46
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (27 bp):
ATAAATATTTTATATATTTAAAAAATT
Found at i:14214886 original size:342 final size:337
Alignment explanation
Indices: 14214239--14214961 Score: 1157
Period size: 342 Copynumber: 2.1 Consensus size: 337
14214229 ATTTTTTATA
*
14214239 ATAATAAATATTTTATAATTTAAAAAATTATAAATTTTATATATTTTTAAAAAATTTATTGCCTT
1 ATAATAAATATTTTATAATTTAAAAAATTATAAATTTCATATATTTTTAAAAAATTTATTGCCTT
* *
14214304 TTAAAATTAATTGTTTATAAATAGAAAAAAATATTAAAATAAACTTTTAATTACAATTGAGGGAT
66 TTAAAATTAATTGTTTAAAAATAGAAAAAAATATTAAAATAAACTTTTAATTACAATTGAGAGAT
* * *
14214369 TAAATGAATTATTATTCATTAATTTTTATTTTTTAACAACATTTAATCATATTTATTCATTTTTA
131 CAAATGAATTATTATTCATTAATTTTTATTTTTTAACAACAGTTAATAATATTTATTCATTTTTA
** * *
14214434 ATAAAATTATTTTGATTTTTGCATTAAAATTACACAATACGTATAATCTAGTATAAGAAAACTTT
196 ATAAAATTATTTAAATTTTTACATTAAAATTACACAATACATATAATCTAGTATAAGAAAACTTT
*
14214499 GAGGGTAAGTATTTTAAAATATGAATAATTTTATAAAAGTTTTATAACTAATATTTATTTTTTAC
261 GAGGGTAAATATTTTAAAATATGAATAATTTTATAAAAGTTTTATAACTAATA--T-TTTTTTAC
14214564 AAAATTATGATGATGATG
323 -AAA--ATGATGATGATG
* *
14214582 ATACTAATAAATATTTTATAATTT-AAAAATTATAAATTTCATATATTTTTTAAAATTTTATTGC
1 --A-TAATAAATATTTTATAATTTAAAAAATTATAAATTTCATATATTTTTAAAAAATTTATTGC
*
14214646 CTTTTAAAATTAATTGTTTAAAAATA-TAAAAAATATTAAAATAAACTTTTAATTACAATTGAGA
63 CTTTTAAAATTAATTGTTTAAAAATAGAAAAAAATATTAAAATAAACTTTTAATTACAATTGAGA
*
14214710 GATCAAATGAATTATTATTCATTAATTTTTA-TTTTTAACAACAGTTAATAATGTTTATTCATTT
128 GATCAAATGAATTATTATTCATTAATTTTTATTTTTTAACAACAGTTAATAATATTTATTCATTT
* *
14214774 TTAATAAAATTATTTAAATTTTTACA-TCAAATTACACAATACATATAATTTAGTATAAGAAAAC
193 TTAATAAAATTATTTAAATTTTTACATTAAAATTACACAATACATATAATCTAGTATAAGAAAAC
* *
14214838 TTTGAGGGTAAATATTTTAAATTATGAATAATTTTATAAAAGTTTTATAACTAGTATTTTTTTAC
258 TTTGAGGGTAAATATTTTAAAATATGAATAATTTTATAAAAGTTTTATAACTAATATTTTTTTAC
*
14214903 AAAATGATGATGGTG
323 AAAATGATGATGATG
14214918 ATAATAAATATTTTATAATTTAAAAAATTATAAATTTCATATAT
1 ATAATAAATATTTTATAATTTAAAAAATTATAAATTTCATATAT
14214962 AGAACATAAT
Statistics
Matches: 356, Mismatches: 20, Indels: 15
0.91 0.05 0.04
Matches are distributed among these distances:
333 20 0.06
334 23 0.06
336 11 0.03
338 3 0.01
339 8 0.02
340 1 0.00
342 88 0.25
343 53 0.15
344 66 0.19
345 63 0.18
346 20 0.06
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.45
Consensus pattern (337 bp):
ATAATAAATATTTTATAATTTAAAAAATTATAAATTTCATATATTTTTAAAAAATTTATTGCCTT
TTAAAATTAATTGTTTAAAAATAGAAAAAAATATTAAAATAAACTTTTAATTACAATTGAGAGAT
CAAATGAATTATTATTCATTAATTTTTATTTTTTAACAACAGTTAATAATATTTATTCATTTTTA
ATAAAATTATTTAAATTTTTACATTAAAATTACACAATACATATAATCTAGTATAAGAAAACTTT
GAGGGTAAATATTTTAAAATATGAATAATTTTATAAAAGTTTTATAACTAATATTTTTTTACAAA
ATGATGATGATG
Found at i:14215033 original size:2 final size:2
Alignment explanation
Indices: 14215028--14215069 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
14215018 TAATCATTAA
14215028 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14215070 CATGTAGACA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14215505 original size:2 final size:2
Alignment explanation
Indices: 14215498--14215527 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
14215488 TAATCATTAA
14215498 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14215528 CATGTAGACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14226644 original size:14 final size:14
Alignment explanation
Indices: 14226625--14226652 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
14226615 AGATTTAATA
14226625 AAAATTTGAAATTT
1 AAAATTTGAAATTT
14226639 AAAATTTGAAATTT
1 AAAATTTGAAATTT
14226653 TAAGATCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (14 bp):
AAAATTTGAAATTT
Found at i:14229491 original size:35 final size:35
Alignment explanation
Indices: 14229445--14229516 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
14229435 CCAAAAAAGA
14229445 AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
1 AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
14229480 AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
1 AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
14229515 AG
1 AG
14229517 GGGTTTTTAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.40, C:0.11, G:0.21, T:0.28
Consensus pattern (35 bp):
AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
Found at i:14229918 original size:17 final size:18
Alignment explanation
Indices: 14229892--14229931 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
14229882 ATTATATGGA
14229892 TATT-TTATTCAT-TTAT
1 TATTATTATTCATGTTAT
*
14229908 TTTTATTATTCATGTTAT
1 TATTATTATTCATGTTAT
14229926 TATTAT
1 TATTAT
14229932 ACGTATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 3 0.15
17 8 0.40
18 9 0.45
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.68
Consensus pattern (18 bp):
TATTATTATTCATGTTAT
Found at i:14230009 original size:2 final size:2
Alignment explanation
Indices: 14230002--14230036 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
14229992 TTATTATTAT
14230002 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14230037 TTCTTTAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:14230066 original size:69 final size:67
Alignment explanation
Indices: 14229926--14230079 Score: 179
Period size: 67 Copynumber: 2.3 Consensus size: 67
14229916 TTCATGTTAT
* * *
14229926 TATTA-TACGTATATATATATATATATATATATTTTAAATTATTTTCATTTGATTTTTTACTATA
1 TATTATTAC-TATATATATATATATATATATATTATAAATTATTTTCATTTAATATTTTACTATA
* *
14229990 TTT
65 GTC
* *
14229993 TATTATTATTATATATATATATATATATATA-TATATATATATATTTC-TTTAATATTTTACTTA
1 TATTATTACTATATATATATATATATATATATTATAAAT-TAT-TTTCATTTAATATTTTAC-TA
14230056 TAAGTC
63 T-AGTC
14230062 TATTATTACTATATATAT
1 TATTATTACTATATATAT
14230080 TGTATTTATC
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
66 5 0.07
67 41 0.55
68 9 0.12
69 19 0.26
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (67 bp):
TATTATTACTATATATATATATATATATATATTATAAATTATTTTCATTTAATATTTTACTATAG
TC
Found at i:14230470 original size:9 final size:9
Alignment explanation
Indices: 14230458--14230527 Score: 56
Period size: 9 Copynumber: 7.9 Consensus size: 9
14230448 CCTTATCTTA
14230458 TTTATTTAT
1 TTTATTTAT
14230467 TTTATTTAT
1 TTTATTTAT
14230476 TTTATTT-T
1 TTTATTTAT
*
14230484 TCCCT-TTTAT
1 T--TTATTTAT
14230494 TTTA-TTAT
1 TTTATTTAT
* *
14230502 TCTCTTTAT
1 TTTATTTAT
*
14230511 CTTATTTAT
1 TTTATTTAT
*
14230520 TTTCTTTA
1 TTTATTTA
14230528 CCTTGTTTAT
Statistics
Matches: 47, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
8 9 0.19
9 35 0.74
10 3 0.06
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.73
Consensus pattern (9 bp):
TTTATTTAT
Found at i:14230479 original size:18 final size:18
Alignment explanation
Indices: 14230458--14230527 Score: 72
Period size: 18 Copynumber: 3.9 Consensus size: 18
14230448 CCTTATCTTA
* *
14230458 TTTATTTATTTTATTTAT
1 TTTATTTATTCTCTTTAT
*
14230476 TTTATTT-TTCCCTTTTAT
1 TTTATTTATTCTC-TTTAT
14230494 TTTA-TTATTCTCTTTAT
1 TTTATTTATTCTCTTTAT
* *
14230511 CTTATTTATTTTCTTTA
1 TTTATTTATTCTCTTTA
14230528 CCTTGTTTAT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
17 12 0.28
18 31 0.72
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTATTTATTCTCTTTAT
Found at i:14230536 original size:18 final size:18
Alignment explanation
Indices: 14230498--14230537 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
14230488 TTTTATTTTA
*
14230498 TTATTCTCTTTATCTTAT
1 TTATTCTCTTTACCTTAT
* *
14230516 TTATTTTCTTTACCTTGT
1 TTATTCTCTTTACCTTAT
14230534 TTAT
1 TTAT
14230538 CTAACACATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.15, C:0.15, G:0.03, T:0.68
Consensus pattern (18 bp):
TTATTCTCTTTACCTTAT
Found at i:14239506 original size:106 final size:106
Alignment explanation
Indices: 14239295--14239935 Score: 644
Period size: 106 Copynumber: 6.1 Consensus size: 106
14239285 CGCCACTCAA
* ** * **
14239295 GACAACACAAGTTCACCTAAACAACGAAGGGACGGCTGGTTGTCAAACAAACCACTTT-TTAATT
1 GACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTC-AACAAA-CAATTTCCCAA--
*
14239359 TCATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGG
62 T--TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCGG
*
14239406 GACAACACAAGTTCAACTTCACAATGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTC
1 GACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTC
* *
14239471 AGAGCCAATTTCAACTTCACATCGAAGGATGTTGGACTCGG
66 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCGG
* * * * * *
14239512 GAGAACAAAAGTTCAATTTCACAACGAAGGGACGGTTGGTTGTCAACAAATAATTTCTCAATTTC
1 GACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTC
* * **
14239577 AGAGTCAATTTCAACTTCACAACGAAGGATATTGAACTCAA
66 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCGG
* *
14239618 GACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATCTCCGAATTTC
1 GACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTC
* * *
14239683 AGAG-C-----CAA--T---AGCGAAAGATATTGGACTCGA
66 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCGG
* * * * *
14239713 GACGACACAAGTTCAACTTCACAATGAAGGGACGACTGGTTGTCAGCAAACGATTTCCCAATTTC
1 GACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTC
* * * ** **
14239778 AGGGTCAATTTCAACTTCACATCGAAGGATATTATACTCAA
66 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCGG
* * * * * * * * * * *
14239819 GACAGCACAAGCTCAACTTCACAGCGAAGGGGGCGGTTGGCTGTCAATAAATAATTTTCCAGTTC
1 GACAACACAAGTTCAACTTCACAACGAA-GGGACGGCTGGTTGTCAACAAACAATTTCCCAATTT
*
14239884 CAGAGCCAATTTCAACTT--CAAGGCAGAGGATATTGGACTCGG
65 CAGAGCCAATTTCAACTTCACAACG-A-AGGATATTGGACTCGG
* *
14239926 AACAATACAA
1 GACAACACAA
14239936 CCTACTTGGA
Statistics
Matches: 441, Mismatches: 74, Indels: 34
0.80 0.13 0.06
Matches are distributed among these distances:
95 78 0.18
96 1 0.00
98 1 0.00
100 3 0.01
101 3 0.01
103 1 0.00
105 4 0.01
106 236 0.54
107 60 0.14
108 1 0.00
109 5 0.01
110 8 0.02
111 40 0.09
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (106 bp):
GACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTC
AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCGG
Found at i:14239755 original size:201 final size:205
Alignment explanation
Indices: 14239362--14239849 Score: 619
Period size: 201 Copynumber: 2.4 Consensus size: 205
14239352 TTTAATTTCA
* * * **
14239362 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGGGACAACACAAGTTCAACTTCA
1 TTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGAACTCAAGACAACACAAGTTCAACTTCA
* *
14239427 CAATGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACA
66 CAACGAAGGGACGGCTGGTTGTCAACAAACAATCTCCCAATTTCAGAGCC----TCAAC-T--CA
* * * * * **
14239492 TCGAAGGATGTTGGACTCGGGAGAACAAAAGTTCAATTTCACAACGAAGGGACGGTTGGTTGTCA
124 GCGAAAGATATTGGACTCGAGAGAACAAAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCA
* *
14239557 ACAAATAATTTCTCAAT
189 ACAAACAATTTCCCAAT
14239574 TTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGAACTCAAGACAACACAAGTTCAACTTCA
1 TTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGAACTCAAGACAACACAAGTTCAACTTCA
*
14239639 CAACGAAGGGACGGCTGGTTGTCAACAAACAATCTCCGAATTTCAGAG-C-CAA-T-AGCGAAAG
66 CAACGAAGGGACGGCTGGTTGTCAACAAACAATCTCCCAATTTCAGAGCCTCAACTCAGCGAAAG
* * *
14239700 ATATTGGACTCGAGACG-ACACAAGTTCAACTTCACAATGAAGGGACGACTGGTTGTCAGCAAAC
131 ATATTGGACTCGAGA-GAACAAAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAAC
*
14239764 GATTTCCCAAT
195 AATTTCCCAAT
* * * *
14239775 TTCAGGGTCAATTTCAACTTCACATCGAAGGATATT-ATACTCAAGACAGCACAAGCTCAACTTC
1 TTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGA-ACTCAAGACAACACAAGTTCAACTTC
*
14239839 ACAGCGAAGGG
65 ACAACGAAGGG
14239850 GGCGGTTGGC
Statistics
Matches: 248, Mismatches: 26, Indels: 15
0.86 0.09 0.05
Matches are distributed among these distances:
200 1 0.00
201 136 0.55
202 1 0.00
204 1 0.00
206 3 0.01
211 1 0.00
212 105 0.42
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (205 bp):
TTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGAACTCAAGACAACACAAGTTCAACTTCA
CAACGAAGGGACGGCTGGTTGTCAACAAACAATCTCCCAATTTCAGAGCCTCAACTCAGCGAAAG
ATATTGGACTCGAGAGAACAAAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACA
ATTTCCCAAT
Found at i:14239776 original size:95 final size:95
Alignment explanation
Indices: 14239599--14239779 Score: 272
Period size: 95 Copynumber: 1.9 Consensus size: 95
14239589 AACTTCACAA
* *
14239599 CGAAGGATATTGAACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAA
1 CGAAAGATATTGAACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAA
*
14239664 CAAACAATCTCCGAATTTCAGAGCCAATAG
66 CAAACAATCTCCCAATTTCAGAGCCAATAG
* * * * *
14239694 CGAAAGATATTGGACTCGAGACGACACAAGTTCAACTTCACAATGAAGGGACGACTGGTTGTCAG
1 CGAAAGATATTGAACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAA
* *
14239759 CAAACGATTTCCCAATTTCAG
66 CAAACAATCTCCCAATTTCAG
14239780 GGTCAATTTC
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
95 76 1.00
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (95 bp):
CGAAAGATATTGAACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAA
CAAACAATCTCCCAATTTCAGAGCCAATAG
Found at i:14240500 original size:35 final size:35
Alignment explanation
Indices: 14240403--14240479 Score: 145
Period size: 35 Copynumber: 2.2 Consensus size: 35
14240393 TGTAACCAAA
*
14240403 AAAAAAGAGTTGGATTAGGACTCAAATACTAGTCT
1 AAAATAGAGTTGGATTAGGACTCAAATACTAGTCT
14240438 AAAATAGAGTTGGATTAGGACTCAAATACTAGTCT
1 AAAATAGAGTTGGATTAGGACTCAAATACTAGTCT
14240473 AAAATAG
1 AAAATAG
14240480 GGTTTTTTAG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.44, C:0.10, G:0.19, T:0.26
Consensus pattern (35 bp):
AAAATAGAGTTGGATTAGGACTCAAATACTAGTCT
Found at i:14240902 original size:2 final size:2
Alignment explanation
Indices: 14240890--14240926 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
14240880 TTGTTATTAT
*
14240890 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14240927 TTTAATTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:14241158 original size:2 final size:2
Alignment explanation
Indices: 14241151--14241180 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
14241141 CTTATAACTT
14241151 TA TA TA TA -A TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14241181 TATTTTATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14242003 original size:12 final size:12
Alignment explanation
Indices: 14241983--14242046 Score: 74
Period size: 12 Copynumber: 5.3 Consensus size: 12
14241973 TACGTAGTAT
14241983 CAATAACAATAG
1 CAATAACAATAG
* *
14241995 CAATTACAATAT
1 CAATAACAATAG
*
14242007 CAATAACAATAT
1 CAATAACAATAG
* *
14242019 CGATGACAATAG
1 CAATAACAATAG
*
14242031 TAATAACAATAG
1 CAATAACAATAG
14242043 CAAT
1 CAAT
14242047 GTCTATAATA
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 42 1.00
ACGTcount: A:0.53, C:0.16, G:0.08, T:0.23
Consensus pattern (12 bp):
CAATAACAATAG
Found at i:14242007 original size:24 final size:24
Alignment explanation
Indices: 14241980--14242047 Score: 93
Period size: 24 Copynumber: 2.8 Consensus size: 24
14241970 GACTACGTAG
*
14241980 TATCAATAACAATAGCAATTACAA
1 TATCAATAACAATAGCAATGACAA
* *
14242004 TATCAATAACAATATCGATGACAA
1 TATCAATAACAATAGCAATGACAA
14242028 TAGT-AATAACAATAGCAATG
1 TA-TCAATAACAATAGCAATG
14242048 TCTATAATAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
24 37 0.97
25 1 0.03
ACGTcount: A:0.51, C:0.15, G:0.09, T:0.25
Consensus pattern (24 bp):
TATCAATAACAATAGCAATGACAA
Found at i:14242058 original size:24 final size:24
Alignment explanation
Indices: 14241984--14242060 Score: 77
Period size: 24 Copynumber: 3.2 Consensus size: 24
14241974 ACGTAGTATC
14241984 AATAACAATAGCAAT-TACAAT-AT
1 AATAACAATAGCAATGT-CAATAAT
* * * *
14242007 CAATAACAATATCGATGACAATAGT
1 -AATAACAATAGCAATGTCAATAAT
*
14242032 AATAACAATAGCAATGTCTATAAT
1 AATAACAATAGCAATGTCAATAAT
14242056 AATAA
1 AATAA
14242061 AACTAATATT
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
24 41 0.98
25 1 0.02
ACGTcount: A:0.53, C:0.13, G:0.08, T:0.26
Consensus pattern (24 bp):
AATAACAATAGCAATGTCAATAAT
Found at i:14242163 original size:14 final size:15
Alignment explanation
Indices: 14242122--14242166 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 15
14242112 AATTACTGGA
14242122 ACTGGAAAATGAATT
1 ACTGGAAAATGAATT
**
14242137 ACTGGAATTTGAATT
1 ACTGGAAAATGAATT
14242152 -CTGGAAAATGAATT
1 ACTGGAAAATGAATT
14242166 A
1 A
14242167 TATTTCTTGA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
14 12 0.48
15 13 0.52
ACGTcount: A:0.42, C:0.07, G:0.20, T:0.31
Consensus pattern (15 bp):
ACTGGAAAATGAATT
Found at i:14242562 original size:29 final size:28
Alignment explanation
Indices: 14242529--14242632 Score: 88
Period size: 29 Copynumber: 3.6 Consensus size: 28
14242519 TTTATTAAAA
14242529 TATTATTAAAATATATAAATAATATTCT
1 TATTATTAAAATATATAAATAATATTCT
* *
14242557 TCATTATT-AAATATATAAAAAATTTATTAT
1 T-ATTATTAAAATATATAAATAA--TATTCT
*
14242587 ATATTATTAAAATA-AAAATATAATA-TCTT
1 -TATTATTAAAATATATAA-ATAATATTC-T
*
14242616 ATATTATTATAATATAT
1 -TATTATTAAAATATAT
14242633 TTGATTATTT
Statistics
Matches: 61, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
28 15 0.25
29 22 0.36
30 15 0.25
31 9 0.15
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATTATTAAAATATATAAATAATATTCT
Found at i:14242594 original size:59 final size:61
Alignment explanation
Indices: 14242519--14242632 Score: 155
Period size: 59 Copynumber: 1.9 Consensus size: 61
14242509 TTTAAATATC
*
14242519 TTTATTAAAATATTATTAAAATATATAA-ATAATATTCTT-CATTATTA-AATATATAAAAAA
1 TTTATTAAAATATTATTAAAATA-AAAATATAATA-TCTTACATTATTATAATATATAAAAAA
* *
14242579 TTTATT-ATATATTATTAAAATAAAAATATAATATCTTATATTATTATAATATAT
1 TTTATTAAAATATTATTAAAATAAAAATATAATATCTTACATTATTATAATATAT
14242633 TTGATTATTT
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
58 7 0.15
59 28 0.58
60 13 0.27
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (61 bp):
TTTATTAAAATATTATTAAAATAAAAATATAATATCTTACATTATTATAATATATAAAAAA
Found at i:14242639 original size:18 final size:18
Alignment explanation
Indices: 14242605--14242685 Score: 57
Period size: 18 Copynumber: 4.7 Consensus size: 18
14242595 AAAATAAAAA
*
14242605 TATAATATCTTATATTAT
1 TATAATATATTATATTAT
14242623 TATAATATATT-TGATTAT
1 TATAATATATTAT-ATTAT
*
14242641 T-T--TATATAATATTA-
1 TATAATATATTATATTAT
* *
14242655 AAAATATAATATTATATTAT
1 TATA-AT-ATATTATATTAT
14242675 TATAA-ATATTA
1 TATAATATATTA
14242686 ATAAATAAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 17
0.67 0.10 0.24
Matches are distributed among these distances:
15 9 0.19
16 1 0.02
17 8 0.17
18 17 0.35
19 11 0.23
20 2 0.04
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (18 bp):
TATAATATATTATATTAT
Found at i:14242662 original size:31 final size:32
Alignment explanation
Indices: 14242638--14242696 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
14242628 TATATTTGAT
14242638 TATT-TTATATAATATTAA-AAATATAATATTA
1 TATTATTATA-AATATTAATAAATATAATATTA
14242669 TATTATTATAAATATTAATAAATA-AATA
1 TATTATTATAAATATTAATAAATATAATA
14242697 AATCATATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
31 16 0.62
32 10 0.38
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (32 bp):
TATTATTATAAATATTAATAAATATAATATTA
Found at i:14242670 original size:22 final size:23
Alignment explanation
Indices: 14242645--14242688 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
14242635 GATTATTTTA
14242645 TATAATATTAAAAATA-TAATAT
1 TATAATATTAAAAATATTAATAT
* *
14242667 TATATTATTATAAATATTAATA
1 TATAATATTAAAAATATTAATA
14242689 AATAAATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TATAATATTAAAAATATTAATAT
Found at i:14242937 original size:42 final size:42
Alignment explanation
Indices: 14242882--14242994 Score: 208
Period size: 42 Copynumber: 2.7 Consensus size: 42
14242872 AATTACATTT
*
14242882 CGGAAAACCAATTACGTGAAACAAACACGGGAAAACATTTTC
1 CGGAAAACGAATTACGTGAAACAAACACGGGAAAACATTTTC
14242924 CGGAAAACGAATTACGTGAAACAAACACGGGAAAACATTTTC
1 CGGAAAACGAATTACGTGAAACAAACACGGGAAAACATTTTC
*
14242966 CGGAAAACGAATTACGTAAAACAAACACG
1 CGGAAAACGAATTACGTGAAACAAACACG
14242995 AGAATTCGGG
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 69 1.00
ACGTcount: A:0.47, C:0.20, G:0.18, T:0.15
Consensus pattern (42 bp):
CGGAAAACGAATTACGTGAAACAAACACGGGAAAACATTTTC
Found at i:14245917 original size:84 final size:86
Alignment explanation
Indices: 14245756--14245961 Score: 258
Period size: 84 Copynumber: 2.4 Consensus size: 86
14245746 ATTCTCAATT
* * *
14245756 AAAAAATAATATATAATTTAAATTTGTTTAGAAGTAATTATTTTAGAATTTTTTTAAAAGATAAA
1 AAAAAAAAATATATAATTTAAATTTGTTTAGAAGTAATTATTTTACAATTTTTTCAAAAGATAAA
* * *
14245821 TGAATAACAAACATTGTAAGA
66 TGAATAAAAAACATCGAAAGA
* * * *
14245842 AAGAAAAAATATGTAATTT-AATTTTTTTA-AA-TAATTATTTTACAATTATTTTCAAATGATAA
1 AAAAAAAAATATATAATTTAAATTTGTTTAGAAGTAATTATTTTACAATT-TTTTCAAAAGATAA
14245904 ATGAATAAAAAACATCGAAAGA
65 ATGAATAAAAAACATCGAAAGA
* * *
14245926 AAAAAAAAATA-ATAATTCAAACTTGTTTAAAAGTAA
1 AAAAAAAAATATATAATTTAAATTTGTTTAGAAGTAA
14245962 CTCTATAAAA
Statistics
Matches: 101, Mismatches: 15, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
83 20 0.20
84 51 0.50
85 11 0.11
86 19 0.19
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.36
Consensus pattern (86 bp):
AAAAAAAAATATATAATTTAAATTTGTTTAGAAGTAATTATTTTACAATTTTTTCAAAAGATAAA
TGAATAAAAAACATCGAAAGA
Found at i:14247333 original size:109 final size:109
Alignment explanation
Indices: 14247159--14247391 Score: 373
Period size: 109 Copynumber: 2.1 Consensus size: 109
14247149 ACTATAAGGG
*
14247159 TGGTATCGATACCCTTAAAACATCGAATGCCAAATTGGTATCGGTACCTTGAAGAGGTATCGATA
1 TGGTATCGATACCCTTAAAACATCAAATGCCAAATTGGTATCGGTACCTTGAAGAGGTATCGATA
14247224 CCCTTGAAACATCGAATGCTATTTTGCTATCGATACCTGATGGA
66 CCCTTGAAACATCGAATGCTATTTTGCTATCGATACCTGATGGA
*
14247268 TGGTATCGATATCCTTAAAACATCAAATGCCAAATTGGTATCGGTACCTTGAAGAGGTATCGATA
1 TGGTATCGATACCCTTAAAACATCAAATGCCAAATTGGTATCGGTACCTTGAAGAGGTATCGATA
* * *
14247333 CCCTTGAAACATCGAATGTTATTTCGGTATCTG-TACCATGA-GGA
66 CCCTTGAAACATCGAATGCTATTTTGCTATC-GATACC-TGATGGA
*
14247377 -GGTATCAATACCCTT
1 TGGTATCGATACCCTT
14247392 GAAGGGTAGT
Statistics
Matches: 115, Mismatches: 7, Indels: 5
0.91 0.06 0.04
Matches are distributed among these distances:
108 13 0.11
109 98 0.85
110 4 0.03
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (109 bp):
TGGTATCGATACCCTTAAAACATCAAATGCCAAATTGGTATCGGTACCTTGAAGAGGTATCGATA
CCCTTGAAACATCGAATGCTATTTTGCTATCGATACCTGATGGA
Found at i:14247392 original size:54 final size:54
Alignment explanation
Indices: 14247160--14247394 Score: 276
Period size: 54 Copynumber: 4.3 Consensus size: 54
14247150 CTATAAGGGT
*
14247160 GGTATCGATACCCTTAAAACATCGAATGCCAAATTGGTATCGGTACCTTGAAGA
1 GGTATCGATACCCTTGAAACATCGAATGCCAAATTGGTATCGGTACCTTGAAGA
* ** * * *
14247214 GGTATCGATACCCTTGAAACATCGAATGCTATTTTGCTATCGATACC-TGATGGA
1 GGTATCGATACCCTTGAAACATCGAATGCCAAATTGGTATCGGTACCTTGA-AGA
* * *
14247268 TGGTATCGATATCCTTAAAACATCAAATGCCAAATTGGTATCGGTACCTTGAAGA
1 -GGTATCGATACCCTTGAAACATCGAATGCCAAATTGGTATCGGTACCTTGAAGA
** * * * *
14247323 GGTATCGATACCCTTGAAACATCGAATG-TTATTTCGGTATCTGTACCATGAGGA
1 GGTATCGATACCCTTGAAACATCGAATGCCAAATT-GGTATCGGTACCTTGAAGA
*
14247377 GGTATCAATACCCTTGAA
1 GGTATCGATACCCTTGAA
14247395 GGGTAGTATC
Statistics
Matches: 151, Mismatches: 26, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
53 6 0.04
54 101 0.67
55 41 0.27
56 3 0.02
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (54 bp):
GGTATCGATACCCTTGAAACATCGAATGCCAAATTGGTATCGGTACCTTGAAGA
Found at i:14247827 original size:23 final size:23
Alignment explanation
Indices: 14247800--14247865 Score: 59
Period size: 23 Copynumber: 3.0 Consensus size: 23
14247790 TCTGGACAAT
14247800 TATGTGGCACTTCGGTGCAAACC
1 TATGTGGCACTTCGGTGCAAACC
* *
14247823 TATGTAGTCA-TTCGG-G-ATAA-T
1 TATGT-GGCACTTCGGTGCA-AACC
*
14247844 TATGTGGCACTTCGATGCAAAC
1 TATGTGGCACTTCGGTGCAAAC
14247866 TACGAGCTGT
Statistics
Matches: 33, Mismatches: 4, Indels: 12
0.67 0.08 0.24
Matches are distributed among these distances:
20 3 0.09
21 10 0.30
22 6 0.18
23 11 0.33
24 3 0.09
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (23 bp):
TATGTGGCACTTCGGTGCAAACC
Found at i:14247857 original size:21 final size:20
Alignment explanation
Indices: 14247778--14247857 Score: 54
Period size: 21 Copynumber: 3.8 Consensus size: 20
14247768 GGCAAGGGTT
** *
14247778 TTATGTGGTTCTTCTGGACAA
1 TTATGTGGCACTTCGGGA-AA
14247799 TTATGTGGCACTTCGGTGCAAA
1 TTATGTGGCACTTCGG-G-AAA
* *
14247821 CCTATGTAGTCA-TTCGGGATAA
1 -TTATGT-GGCACTTCGGGA-AA
14247843 TTATGTGGCACTTCG
1 TTATGTGGCACTTCG
14247858 ATGCAAACTA
Statistics
Matches: 46, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
20 3 0.07
21 23 0.50
22 6 0.13
23 11 0.24
24 3 0.07
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.36
Consensus pattern (20 bp):
TTATGTGGCACTTCGGGAAA
Found at i:14252374 original size:20 final size:21
Alignment explanation
Indices: 14252333--14252385 Score: 81
Period size: 20 Copynumber: 2.5 Consensus size: 21
14252323 CAATGAGGAG
*
14252333 GTATCGATACCCTTGAAGGGTA
1 GTATCGATACCATT-AAGGGTA
14252355 GTATCGATACCATT-AGGGTA
1 GTATCGATACCATTAAGGGTA
14252375 GTATCGATACC
1 GTATCGATACC
14252386 TTCAAGCATG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 17 0.57
22 13 0.43
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (21 bp):
GTATCGATACCATTAAGGGTA
Found at i:14253972 original size:20 final size:19
Alignment explanation
Indices: 14253928--14253972 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
14253918 AAGTTCCTTA
* *
14253928 TGGTTTTGAAACCCCTTGC
1 TGGTTTTGAAACCCATAGC
*
14253947 TGGTTTTGAAACGCCATAGT
1 TGGTTTTGAAAC-CCATAGC
14253967 TGGTTT
1 TGGTTT
14253973 CTAAATCATC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.18, C:0.18, G:0.24, T:0.40
Consensus pattern (19 bp):
TGGTTTTGAAACCCATAGC
Found at i:14254017 original size:20 final size:21
Alignment explanation
Indices: 14253967--14254022 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
14253957 ACGCCATAGT
* *
14253967 TGGTTTCTAAATCATCGTACA
1 TGGTTTCTAAACCCTCGTACA
* *
14253988 TGGATTCTAAACCCTC-TACC
1 TGGTTTCTAAACCCTCGTACA
14254008 TGGTTTCTAAACCCT
1 TGGTTTCTAAACCCT
14254023 ATGTTCTAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.25, C:0.27, G:0.12, T:0.36
Consensus pattern (21 bp):
TGGTTTCTAAACCCTCGTACA
Found at i:14258126 original size:170 final size:171
Alignment explanation
Indices: 14257832--14258159 Score: 633
Period size: 170 Copynumber: 1.9 Consensus size: 171
14257822 TGAATGTGTG
14257832 TCTCTTTCTTGTCCCCTCTCCACACACACATTACTATCATTTTAAGCTTGCAATGAAAAAAAAAA
1 TCTCTTTCTTGTCCCCTCTCCACACACACATTACTATCATTTTAAGCTTGCAATGAAAAAAAAAA
14257897 AAAAGCCATTCCAAAAGTAAAAGATAAGAAAAAGAGGGGAAATGATATTGACATTCTTTAGGCAT
66 AAAAGCCATTCCAAAAGTAAAAGATAAGAAAAAGAGGGGAAATGATATTGACATTCTTTAGGCAT
14257962 TTTC-TGCAGCGATCTCGAGAAAGAAAATCCATTGTTTTGT
131 TTTCTTGCAGCGATCTCGAGAAAGAAAATCCATTGTTTTGT
14258002 TCTCTTTCTTGTCCCCTCTCCACACACACATTACTATCATTTTAAGCTTGCAATG-AAAAAAAAA
1 TCTCTTTCTTGTCCCCTCTCCACACACACATTACTATCATTTTAAGCTTGCAATGAAAAAAAAAA
14258066 AAAAGCCATTCCAAAAGTAAAAGATAAGAAAAAGAGGGGAAATGATATTGACATTTCTTTAGGCA
66 AAAAGCCATTCCAAAAGTAAAAGATAAGAAAAAGAGGGGAAATGATATTGACA-TTCTTTAGGCA
14258131 TTTTCTTGCAGCGATCTCGAGAAAGAAAA
130 TTTTCTTGCAGCGATCTCGAGAAAGAAAA
14258160 GGATCCATTG
Statistics
Matches: 156, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
169 62 0.40
170 71 0.46
171 23 0.15
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (171 bp):
TCTCTTTCTTGTCCCCTCTCCACACACACATTACTATCATTTTAAGCTTGCAATGAAAAAAAAAA
AAAAGCCATTCCAAAAGTAAAAGATAAGAAAAAGAGGGGAAATGATATTGACATTCTTTAGGCAT
TTTCTTGCAGCGATCTCGAGAAAGAAAATCCATTGTTTTGT
Found at i:14259946 original size:21 final size:21
Alignment explanation
Indices: 14259918--14259966 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
14259908 ACAGATCACA
* * *
14259918 TATTCCGTGTTCTGGTTCTGT
1 TATTCCGTCTTCTAGTTCTAT
*
14259939 TGTTCCGTCTTCTAGTTCTAT
1 TATTCCGTCTTCTAGTTCTAT
14259960 TATTCCG
1 TATTCCG
14259967 GTTAGTTCAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.08, C:0.22, G:0.18, T:0.51
Consensus pattern (21 bp):
TATTCCGTCTTCTAGTTCTAT
Found at i:14262212 original size:21 final size:20
Alignment explanation
Indices: 14262170--14262225 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
14262160 CCTTAGACAT
* *
14262170 GGGGAATTGGGACCCCCTGG
1 GGGGAATCGGTACCCCCTGG
14262190 GGGGAATCGGTACCCCCTGGG
1 GGGGAATCGGTACCCCCT-GG
*
14262211 GGGGAATCTGTACCC
1 GGGGAATCGGTACCC
14262226 GTGGACATTC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 16 0.50
21 16 0.50
ACGTcount: A:0.16, C:0.27, G:0.41, T:0.16
Consensus pattern (20 bp):
GGGGAATCGGTACCCCCTGG
Found at i:14263749 original size:19 final size:21
Alignment explanation
Indices: 14263702--14263749 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
14263692 TCTAAATCCT
*
14263702 TTTTCAAAATTTCATTTTGGC
1 TTTTCAAAATATCATTTTGGC
*
14263723 TTTT-AAAATAT-ATTTTTG-
1 TTTTCAAAATATCATTTTGGC
14263741 TTTTCAAAA
1 TTTTCAAAA
14263750 GAAAATCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 4 0.17
19 10 0.42
20 6 0.25
21 4 0.17
ACGTcount: A:0.31, C:0.08, G:0.06, T:0.54
Consensus pattern (21 bp):
TTTTCAAAATATCATTTTGGC
Found at i:14265051 original size:20 final size:20
Alignment explanation
Indices: 14265026--14265088 Score: 90
Period size: 20 Copynumber: 3.1 Consensus size: 20
14265016 CCGTTAGACA
14265026 GGGGGGAATCGGTACCCCCT
1 GGGGGGAATCGGTACCCCCT
*
14265046 GGGGGGGAATCGGTACCACCT
1 -GGGGGGAATCGGTACCCCCT
* *
14265067 GGGGGGAATCTGCACCCCCT
1 GGGGGGAATCGGTACCCCCT
14265087 GG
1 GG
14265089 ACATTCTATT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
20 19 0.50
21 19 0.50
ACGTcount: A:0.16, C:0.29, G:0.41, T:0.14
Consensus pattern (20 bp):
GGGGGGAATCGGTACCCCCT
Found at i:14265052 original size:21 final size:21
Alignment explanation
Indices: 14265026--14265088 Score: 92
Period size: 21 Copynumber: 3.0 Consensus size: 21
14265016 CCGTTAGACA
14265026 GGGGGGAATCGGTACCCCCTG
1 GGGGGGAATCGGTACCCCCTG
*
14265047 GGGGGGAATCGGTACCACCT-
1 GGGGGGAATCGGTACCCCCTG
* *
14265067 GGGGGGAATCTGCACCCCCTG
1 GGGGGGAATCGGTACCCCCTG
14265088 G
1 G
14265089 ACATTCTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.16, C:0.29, G:0.41, T:0.14
Consensus pattern (21 bp):
GGGGGGAATCGGTACCCCCTG
Found at i:14267095 original size:39 final size:39
Alignment explanation
Indices: 14267032--14267106 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
14267022 GAATTTACTT
***
14267032 TTGAGGAATAATACTCTGTTGTTAATACCA-AAGTTGTTA
1 TTGAGGAATAATACTCTAACGTTAAT-CCAGAAGTTGTTA
*
14267071 TTGAGGAATAATCCTCTAACGTTAATCCAGAAGTTG
1 TTGAGGAATAATACTCTAACGTTAATCCAGAAGTTG
14267107 CTGCTATGGA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 3 0.10
39 28 0.90
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (39 bp):
TTGAGGAATAATACTCTAACGTTAATCCAGAAGTTGTTA
Found at i:14279646 original size:29 final size:29
Alignment explanation
Indices: 14279592--14279720 Score: 177
Period size: 29 Copynumber: 4.4 Consensus size: 29
14279582 ATATATATTA
* **
14279592 TTTATTTTTATCTTAACTTGTTAAATATAT
1 TTTATTCTTATCTTAACTT-AAAAATATAT
14279622 TTTATTCTTATCTTAACTTAAAAATATAT
1 TTTATTCTTATCTTAACTTAAAAATATAT
*
14279651 TTTATTCTTATTTTAACTTAAAAATATAT
1 TTTATTCTTATCTTAACTTAAAAATATAT
**
14279680 TTTATTCTTATCTTAACTTAAATTTATATT
1 TTTATTCTTATCTTAACTTAAAAATATA-T
*
14279710 TTTTTTCTTAT
1 TTTATTCTTAT
14279721 AATATATTAA
Statistics
Matches: 90, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
29 61 0.68
30 29 0.32
ACGTcount: A:0.32, C:0.09, G:0.01, T:0.59
Consensus pattern (29 bp):
TTTATTCTTATCTTAACTTAAAAATATAT
Found at i:14279733 original size:58 final size:58
Alignment explanation
Indices: 14279614--14279732 Score: 168
Period size: 58 Copynumber: 2.0 Consensus size: 58
14279604 TTAACTTGTT
**
14279614 AAATATATTTTATTCTTATCTTAACTTAAAAATATATTTTATTCTTATTTTAACTTAA
1 AAATATATTTTATTCTTATCTTAACTTAAAAATATATTTTATTCTTATAATAACTTAA
** *
14279672 AAATATATTTTATTCTTATCTTAACTTAAATTTATATTTTTTTTCTTATAATATA-TTAA
1 AAATATATTTTATTCTTATCTTAACTTAAAAATATA-TTTTATTCTTATAATA-ACTTAA
14279731 AA
1 AA
14279733 TTAAGATAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
58 34 0.63
59 19 0.35
60 1 0.02
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.55
Consensus pattern (58 bp):
AAATATATTTTATTCTTATCTTAACTTAAAAATATATTTTATTCTTATAATAACTTAA
Found at i:14279820 original size:31 final size:30
Alignment explanation
Indices: 14279784--14279949 Score: 157
Period size: 31 Copynumber: 5.5 Consensus size: 30
14279774 AATTTTTTTT
14279784 AAATAAAAGTTATATATTTTTAAATAAAATA
1 AAATAAAA-TTATATATTTTTAAATAAAATA
14279815 AAATAAAA-TATATA-TTTTAAATAAAATA
1 AAATAAAATTATATATTTTTAAATAAAATA
* * *
14279843 AGAGTAATATATATATATTTTTAAGTTAAAATA
1 A-AATAAAAT-TATATATTTTTAA-ATAAAATA
* *
14279876 TAAAT-AAA--CTATATTTTTAATTAAAGATA
1 -AAATAAAATTATATATTTTTAAATAAA-ATA
14279905 AAGAT-AAATTATATATTTTTAAATTAAAATA
1 AA-ATAAAATTATATATTTTTAAA-TAAAATA
14279936 AGAATAAAA-TATAT
1 A-AATAAAATTATAT
14279950 TTAATAAGTT
Statistics
Matches: 114, Mismatches: 8, Indels: 26
0.77 0.05 0.18
Matches are distributed among these distances:
28 22 0.19
29 30 0.26
31 36 0.32
32 16 0.14
33 9 0.08
34 1 0.01
ACGTcount: A:0.56, C:0.01, G:0.04, T:0.39
Consensus pattern (30 bp):
AAATAAAATTATATATTTTTAAATAAAATA
Found at i:14279851 original size:27 final size:26
Alignment explanation
Indices: 14279784--14279856 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 26
14279774 AATTTTTTTT
*
14279784 AAATAAAAGTTATATAT-TTTTAAATA
1 AAAT-AAAGTAATATATATTTTAAATA
*
14279810 AAATAAAATAAAATATATATTTTAAATA
1 AAATAAAGT--AATATATATTTTAAATA
14279838 AAATAAGAGTAATATATAT
1 AAATAA-AGTAATATATAT
14279857 ATATTTTTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
25 4 0.10
26 4 0.10
27 15 0.38
28 15 0.38
29 2 0.05
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (26 bp):
AAATAAAGTAATATATATTTTAAATA
Found at i:14279854 original size:29 final size:27
Alignment explanation
Indices: 14279794--14279951 Score: 131
Period size: 29 Copynumber: 5.3 Consensus size: 27
14279784 AAATAAAAGT
14279794 TATATATTTTTAAATAAAATAAAATAAAA
1 TATATA-TTTTAAATAAAATAAAAT-AAA
*
14279823 TATATATTTTAAATAAAATAAGAGTAATATA
1 TATATATTTTAAATAAAAT-A-A--AATAAA
*
14279854 TATATATTTTTAAGTTAAAATATAAATAAA
1 TATATA-TTTTAA-ATAAAATA-AAATAAA
*
14279884 CTATAT-TTTTAATTAAAGATAAAGATAAA
1 -TATATATTTTAAATAAA-ATAAA-ATAAA
14279913 TTATATATTTTTAAATTAAAATAAGAATAAA
1 -TATATA-TTTTAAA-TAAAATAA-AATAAA
14279944 -ATATATTT
1 TATATATTT
14279952 AATAAGTTAA
Statistics
Matches: 110, Mismatches: 6, Indels: 27
0.77 0.04 0.19
Matches are distributed among these distances:
28 23 0.21
29 31 0.28
30 6 0.05
31 28 0.25
32 16 0.15
33 6 0.05
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.41
Consensus pattern (27 bp):
TATATATTTTAAATAAAATAAAATAAA
Found at i:14279889 original size:60 final size:57
Alignment explanation
Indices: 14279793--14279951 Score: 187
Period size: 60 Copynumber: 2.6 Consensus size: 57
14279783 TAAATAAAAG
*
14279793 TTATATATTTTTAAATAAAATAAAATAAAATATATATTTTAAATAAA-AT-AAGAGTAATA
1 TTATATATTTTTAATTAAAATAAAAT-AAA-ATATATTTTAAATAAAGATAAAGA-TAA-A
* *
14279852 TATATATATTTTTAAGTTAAAATATAAATAAACTATATTTTTAATTAAAGATAAAGATAAA
1 T-TATATATTTTTAA-TTAAAATA-AAATAAAATATA-TTTTAAATAAAGATAAAGATAAA
14279913 TTATATATTTTTAAATTAAAATAAGAATAAAATATATTT
1 TTATATATTTTT-AATTAAAATAA-AATAAAATATATTT
14279952 AATAAGTTAA
Statistics
Matches: 88, Mismatches: 4, Indels: 16
0.81 0.04 0.15
Matches are distributed among these distances:
59 5 0.06
60 46 0.52
61 24 0.27
62 9 0.10
63 4 0.05
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.42
Consensus pattern (57 bp):
TTATATATTTTTAATTAAAATAAAATAAAATATATTTTAAATAAAGATAAAGATAAA
Found at i:14280884 original size:13 final size:13
Alignment explanation
Indices: 14280824--14280886 Score: 51
Period size: 13 Copynumber: 4.8 Consensus size: 13
14280814 AGAAAATAAC
14280824 GTAACAAAAAAAA
1 GTAACAAAAAAAA
* *
14280837 GGAA-AAGAAAAA
1 GTAACAAAAAAAA
14280849 G-AA-AATAACAAAA
1 GTAACAA-AA-AAAA
*
14280862 GAAACTAAAAAAAA
1 GTAAC-AAAAAAAA
14280876 GTAACAAAAAA
1 GTAACAAAAAA
14280887 CCAAAAATCA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
11 4 0.10
12 9 0.22
13 14 0.34
14 10 0.24
15 2 0.05
16 2 0.05
ACGTcount: A:0.76, C:0.06, G:0.11, T:0.06
Consensus pattern (13 bp):
GTAACAAAAAAAA
Found at i:14283200 original size:25 final size:26
Alignment explanation
Indices: 14283151--14283200 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
14283141 TTAAAAATTA
* * *
14283151 AAAATTATTTTAATTTTTATCTTTTT
1 AAAATTATTTAAATTTTAATATTTTT
14283177 AAAA-TATTTAAATTTTAATATTTT
1 AAAATTATTTAAATTTTAATATTTT
14283201 ATTTTGAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (26 bp):
AAAATTATTTAAATTTTAATATTTTT
Found at i:14294451 original size:17 final size:17
Alignment explanation
Indices: 14294431--14294523 Score: 141
Period size: 17 Copynumber: 5.5 Consensus size: 17
14294421 GGCATTTGGT
* *
14294431 AGGGGATGGGCAACAGC
1 AGGGTATGGGCAGCAGC
*
14294448 AGGGTATGGGCAGCAAC
1 AGGGTATGGGCAGCAGC
*
14294465 AGGGTATGAGCAGCAGC
1 AGGGTATGGGCAGCAGC
14294482 AGGGTATGGGCAGCAGC
1 AGGGTATGGGCAGCAGC
*
14294499 AGGGTATGGGCAGTAGC
1 AGGGTATGGGCAGCAGC
14294516 AGGGTATG
1 AGGGTATG
14294524 TGCGGTTGGT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 69 1.00
ACGTcount: A:0.27, C:0.15, G:0.45, T:0.13
Consensus pattern (17 bp):
AGGGTATGGGCAGCAGC
Found at i:14295287 original size:133 final size:132
Alignment explanation
Indices: 14294933--14295586 Score: 782
Period size: 133 Copynumber: 5.0 Consensus size: 132
14294923 TGTTGATGAT
* * * * * *
14294933 GCTGATCCAACTCCGTATGCGATGGATTTTAGC--AAA-AAAATGTCGATCCATCTCCTTCTGTG
1 GCTGATCCAACTCCTTCTGTGATGGATTTGAGCGAAAATAAAATGTCGATCCACCTCATTCTGTG
* * * *
14294995 ATGGAATCAAACGAGATGTCGGTGTTGATCTACCTTC-TTCTGTGATAGAATCGAGCAAAAAATT
66 ATGGAATCGAACGAGATGTTGGTGTTGATCTACC-TCATTCTGTGATAGAATCGAGCTAAAAGTT
*
14295059 GAT
130 GAC
* * * * * * * *
14295062 GTTGATCCAACACATTCTATGATGGATTTGA--GAGAA-CAAATGTCGATCCACCTCTTTCTATG
1 GCTGATCCAACTCCTTCTGTGATGGATTTGAGCGAAAATAAAATGTCGATCCACCTCATTCTGTG
* * * * *
14295124 ATGGAATCGAACTAGATGTCGGTGCTGATCTACCTCATTCTGTGATAGAACCAAGCTAAAAGTTG
66 ATGGAATCGAACGAGATGTTGGTGTTGATCTACCTCATTCTGTGATAGAATCGAGCTAAAAGTTG
14295189 AC
131 AC
*
14295191 GCTGATCCAACTCCTTCTGTGATGGATTTGAGCGAAAATTAAAATGTCGATTCACCTCATTCTGT
1 GCTGATCCAACTCCTTCTGTGATGGATTTGAGCGAAAA-TAAAATGTCGATCCACCTCATTCTGT
* *
14295256 GATGGAATCGAACGAGATATTGGTGTTGATCTGCCTCATTCTGTGATAGAATCGAGCTAAAAGTT
65 GATGGAATCGAACGAGATGTTGGTGTTGATCTACCTCATTCTGTGATAGAATCGAGCTAAAAGTT
14295321 GAC
130 GAC
* * * * * * *
14295324 GATGATCAAACTCCTTCTGCGATGGATTTGAGTGAAAATAAAAATGTTGATCCATCTCCTTCTGT
1 GCTGATCCAACTCCTTCTGTGATGGATTTGAGCGAAAAT-AAAATGTCGATCCACCTCATTCTGT
* * * *
14295389 GATGGAATCGAATGAGATGTTGGTGCTGATCTACCTCCTTCTGTGATAGAAACGAGCTAAAAGTT
65 GATGGAATCGAACGAGATGTTGGTGTTGATCTACCTCATTCTGTGATAGAATCGAGCTAAAAGTT
14295454 GAC
130 GAC
* ** * *
14295457 GCTGATCCAACTCCTTCTGTGATGGATTTTAATGAAAATAAAAATGTCGATCTACCTTATTCTGT
1 GCTGATCCAACTCCTTCTGTGATGGATTTGAGCGAAAAT-AAAATGTCGATCCACCTCATTCTGT
* * * * * *
14295522 GATGGAACCGAACGAGATGTTGATATTGATTTACCTCATTCTGTGATAGAATTGAGCAAAAAGTT
65 GATGGAATCGAACGAGATGTTGGTGTTGATCTACCTCATTCTGTGATAGAATCGAGCTAAAAGTT
14295587 AAACAAATTC
Statistics
Matches: 446, Mismatches: 71, Indels: 12
0.84 0.13 0.02
Matches are distributed among these distances:
128 2 0.00
129 130 0.29
131 4 0.01
132 1 0.00
133 309 0.69
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (132 bp):
GCTGATCCAACTCCTTCTGTGATGGATTTGAGCGAAAATAAAATGTCGATCCACCTCATTCTGTG
ATGGAATCGAACGAGATGTTGGTGTTGATCTACCTCATTCTGTGATAGAATCGAGCTAAAAGTTG
AC
Found at i:14295342 original size:44 final size:45
Alignment explanation
Indices: 14295294--14295479 Score: 139
Period size: 44 Copynumber: 4.2 Consensus size: 45
14295284 ATCTGCCTCA
* *
14295294 TTCTGTGATAGAATCGAGCT-AAAAGTTGACGATGATCAAACTCC
1 TTCTGTGATAGAATCGAGCTGAAAAGTTGACGCTGATCCAACTCC
* * * * ** * * *
14295338 TTCTGCGATGGATTTGAG-TGAAAA-TAAAAATGTTGATCCATCTCC
1 TTCTGTGATAGAATCGAGCTGAAAAGT--TGACGCTGATCCAACTCC
* * * * ** * *
14295383 TTCTGTGATGGAATCGA-ATGAGATGTTGGTGCTGATCTACCTCC
1 TTCTGTGATAGAATCGAGCTGAAAAGTTGACGCTGATCCAACTCC
*
14295427 TTCTGTGATAGAAACGAGCT-AAAAGTTGACGCTGATCCAACTCC
1 TTCTGTGATAGAATCGAGCTGAAAAGTTGACGCTGATCCAACTCC
14295471 TTCTGTGAT
1 TTCTGTGAT
14295480 GGATTTTAAT
Statistics
Matches: 106, Mismatches: 30, Indels: 12
0.72 0.20 0.08
Matches are distributed among these distances:
43 2 0.02
44 72 0.68
45 31 0.29
46 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.31
Consensus pattern (45 bp):
TTCTGTGATAGAATCGAGCTGAAAAGTTGACGCTGATCCAACTCC
Found at i:14295977 original size:36 final size:35
Alignment explanation
Indices: 14295937--14296220 Score: 226
Period size: 31 Copynumber: 8.7 Consensus size: 35
14295927 CTCAAGAGAC
14295937 TTTGTTTCAAGAGAAACTGTCTCAAGGGAGACGAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGGGAGAC-AAA
*
14295973 TTTGTTTCAAGGGAAA-TGTCTCAA--GAGA-AAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAA
* *
14296004 TTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAA
14296039 CTTTGTTTCAAG-GAAACT-TCTCAAGGGAGACGAAA
1 -TTTGTTTCAAGAGAAACTGTCTCAAGGGAGAC-AAA
* **
14296074 TTTGTTTCAAGGGAAACTGTCTCAA--GAG--ATT
1 TTTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAA
* *
14296105 TTTGTTTCAACAGAAAC--TCTC-A--GAGAGAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAA
*
14296135 TTTGTTTCAAG-GAAACAT-T-TCAA---AG----T
1 TTTGTTTCAAGAGAAAC-TGTCTCAAGGGAGACAAA
*
14296161 TTATGTTTCAAGAGAAACTGTCTCAA-GAAGACAAA
1 TT-TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAA
**
14296196 -TTGTTTCAAGAGAAACAATCTCAAG
1 TTTGTTTCAAGAGAAACTGTCTCAAG
14296221 TTTTCAGTTT
Statistics
Matches: 209, Mismatches: 15, Indels: 50
0.76 0.05 0.18
Matches are distributed among these distances:
26 2 0.01
27 10 0.05
28 10 0.05
29 13 0.06
30 15 0.07
31 38 0.18
32 7 0.03
33 25 0.12
34 31 0.15
35 26 0.12
36 32 0.15
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.29
Consensus pattern (35 bp):
TTTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAA
Found at i:14296015 original size:17 final size:17
Alignment explanation
Indices: 14295970--14296019 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
14295960 AAGGGAGACG
*
14295970 AAATTTGTTTCAAG-GG
1 AAATTTGTTTCAAGAGA
*
14295986 AAA--TGTCTCAAGAGA
1 AAATTTGTTTCAAGAGA
14296001 AAATTTGTTTCAAGAGA
1 AAATTTGTTTCAAGAGA
14296018 AA
1 AA
14296020 CTATCTCAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 8 0.29
15 4 0.14
16 3 0.11
17 13 0.46
ACGTcount: A:0.42, C:0.08, G:0.20, T:0.30
Consensus pattern (17 bp):
AAATTTGTTTCAAGAGA
Found at i:14296035 original size:67 final size:67
Alignment explanation
Indices: 14295925--14296102 Score: 231
Period size: 67 Copynumber: 2.6 Consensus size: 67
14295915 GTTCAGAGAA
* *
14295925 GTCTCAAGAG--ACTTTGTTTCAAGAGAAACTGTCTCAAGGGAGACGAAA-TTTGTTTCAAGGGA
1 GTCTCAAGAGAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAACTTTGTTTCAA-GGA
14295987 AA-T
64 AACT
*
14295990 GTCTCAAGAGAAAATTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAACTTTGTTTCAAGGAAA
1 GTCTCAAGAGAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAACTTTGTTTCAAGGAAA
14296055 CT
66 CT
*
14296057 -TCTCAAGGGAGACGAAATTTGTTTCAAGGGAAACTGTCTCAAGAGA
1 GTCTCAA--GAGA--AAATTTGTTTCAAGAGAAACTGTCTCAAGAGA
14296103 TTTTTGTTTC
Statistics
Matches: 100, Mismatches: 5, Indels: 11
0.86 0.04 0.09
Matches are distributed among these distances:
65 10 0.10
66 14 0.14
67 42 0.42
68 4 0.04
70 30 0.30
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (67 bp):
GTCTCAAGAGAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAACTTTGTTTCAAGGAAA
CT
Found at i:14296073 original size:101 final size:97
Alignment explanation
Indices: 14295935--14296150 Score: 321
Period size: 101 Copynumber: 2.2 Consensus size: 97
14295925 GTCTCAAGAG
14295935 ACTTTGTTTCAAGAGAAACTGTCTCAAGGGAGACGAAATTTGTTTCAAGGGAAA-TGTCTCAAGA
1 ACTTTGTTTCAAG-GAAACTGTCTCAAGGGAGACGAAATTTGTTTCAAGGGAAACTGTCTCAAGA
*
14295999 GAAAATTTGTTTCAAGAGAAACTATCTCAAGAGAGACAA
65 G-AAATTTGTTTCAACAGAAAC--TCTC-AGAGAG--AA
14296038 ACTTTGTTTCAAGGAAACT-TCTCAAGGGAGACGAAATTTGTTTCAAGGGAAACTGTCTCAAGAG
1 ACTTTGTTTCAAGGAAACTGTCTCAAGGGAGACGAAATTTGTTTCAAGGGAAACTGTCTCAAGAG
**
14296102 ATTTTTGTTTCAACAGAAACTCTCAGAGAGAA
66 AAATTTGTTTCAACAGAAACTCTCAGAGAGAA
14296134 A-TTTGTTTCAAGGAAAC
1 ACTTTGTTTCAAGGAAAC
14296151 ATTTCAAAGT
Statistics
Matches: 109, Mismatches: 3, Indels: 10
0.89 0.02 0.08
Matches are distributed among these distances:
95 16 0.15
96 3 0.03
98 6 0.06
99 4 0.04
101 50 0.46
102 17 0.16
103 13 0.12
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (97 bp):
ACTTTGTTTCAAGGAAACTGTCTCAAGGGAGACGAAATTTGTTTCAAGGGAAACTGTCTCAAGAG
AAATTTGTTTCAACAGAAACTCTCAGAGAGAA
Found at i:14296145 original size:61 final size:60
Alignment explanation
Indices: 14296065--14296220 Score: 160
Period size: 61 Copynumber: 2.5 Consensus size: 60
14296055 CTTCTCAAGG
*
14296065 GAGACGAAATTTGTTTCAAGGGAAACTGTCTCAAGAGATTTTTGTTTCAACAGAAAC-TCTCA
1 GAGA-GAAATTTGTTTCAAGGGAAACT-TCTCAAGAG-TTTATGTTTCAACAGAAACGTCTCA
*
14296127 GAGAGAAATTTGTTTCAA-GGAAACATT-TCAA-AGTTTATGTTTCAAGAGAAACTGTCTCA
1 GAGAGAAATTTGTTTCAAGGGAAAC-TTCTCAAGAGTTTATGTTTCAACAGAAAC-GTCTCA
* * *
14296186 -AGAAGACAAATTGTTTCAAGAGAAACAATCTCAAG
1 GAG-AGA-AATTTGTTTCAAGGGAAAC-TTCTCAAG
14296221 TTTTCAGTTT
Statistics
Matches: 81, Mismatches: 5, Indels: 15
0.80 0.05 0.15
Matches are distributed among these distances:
57 17 0.21
58 4 0.05
59 12 0.15
60 18 0.22
61 22 0.27
62 8 0.10
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (60 bp):
GAGAGAAATTTGTTTCAAGGGAAACTTCTCAAGAGTTTATGTTTCAACAGAAACGTCTCA
Found at i:14296222 original size:61 final size:59
Alignment explanation
Indices: 14296042--14296223 Score: 176
Period size: 60 Copynumber: 3.0 Consensus size: 59
14296032 AGACAAACTT
* *
14296042 TGTTTCAAG-GAAACTTCTCAAGGGAGACGAAATTTGTTTCAAGGGAAACTGTCTCAAGAGATTT
1 TGTTTCAAGAGAAACTTCTCAA-GAAGAC-AAA-TTGTTTCAA-GGAAAC-ATCTCAA-AG-TTT
*
14296106 T
59 A
* * *
14296107 TGTTTCAACAGAAAC-TCTC-AGAGAGA-AATTTGTTTCAAGGAAACATTTCAAAGTTTA
1 TGTTTCAAGAGAAACTTCTCAAGA-AGACAAATTGTTTCAAGGAAACATCTCAAAGTTTA
14296164 TGTTTCAAGAGAAACTGTCTCAAGAAGACAAATTGTTTCAAGAGAAACAATCTC-AAGTTT
1 TGTTTCAAGAGAAACT-TCTCAAGAAGACAAATTGTTTCAAG-GAAAC-ATCTCAAAGTTT
14296224 TCAGTTTTGT
Statistics
Matches: 100, Mismatches: 9, Indels: 20
0.78 0.07 0.16
Matches are distributed among these distances:
57 17 0.17
58 2 0.02
59 12 0.12
60 21 0.21
61 20 0.20
62 6 0.06
63 1 0.01
64 4 0.04
65 12 0.12
66 5 0.05
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (59 bp):
TGTTTCAAGAGAAACTTCTCAAGAAGACAAATTGTTTCAAGGAAACATCTCAAAGTTTA
Found at i:14301538 original size:394 final size:393
Alignment explanation
Indices: 14300811--14301599 Score: 1416
Period size: 394 Copynumber: 2.0 Consensus size: 393
14300801 AGCTTTCATT
*
14300811 TAGGTCCCCCAACTTTTAAAACTTGTAATACAATCCCCAAACATTTAGTCCTTTTGCAATATGGT
1 TAGGTCCCCCAACTTTTAAAACTTGCAATACAATCCCCAAACATTTAGTCCTTTTGCAATATGGT
* * *
14300876 CCCCCAATAGTTATGTCAGGGACCATATTACAAATAGATTAAATGTTGAGGGACCATATTGTAAA
66 CCCCCAATAGTTATGTCAGAGACCATATTACAAATAGACTAAATGTTGAGGGACCATATTGCAAA
14300941 TAGACTATATGTCGGGGGATTGTATTGCAAGTTTTAAAAGTTGGGGGACCTAAATGAAAGCTTTA
131 TAGACTATATGTCGGGGGATTGTATTGCAAGTTTTAAAAGTTGGGGGACCTAAATGAAAGCTTTA
*
14301006 GAAAAGTTCAGTGACCATCCCCATACTTTATCCTAAAATTTATATTACAATAATTCCCTAACAAT
196 GAAAAGTTCAATGACCATCCCCATACTTTATCCTAAAATTTATATTACAATAATTCCCTAACAAT
*
14301071 ATTTTTTAAAGATACAACATTATTTTACTTTAAATGTTTGATGTAGTGACAAAATCACCATAAAT
261 ATTTTTTAAAGATACAACATTATTTTACTTAAAATGTTTGATGTAGTGACAAAATCACCATAAAT
14301136 AGAAGTAAATATATTTCAAGACTTTAACGAAGTAATTGGCTAATATTACTATAATTTTATACTTT
326 AGAAGTAAATATATTTCAAGACTTTAACGAAGTAATTGGCTAATATTACTATAATTTTATACTTT
14301201 ACA
391 ACA
* * *
14301204 TAGGTCCCCCAGCTTTTAAAACTTGCAATACAATCCCCCAATATTTAGTCCTTTTGCAATATGGT
1 TAGGTCCCCCAACTTTTAAAACTTGCAATACAATCCCCAAACATTTAGTCCTTTTGCAATATGGT
* *
14301269 CCCCCAATAGTTATGTCAGAGACCATATTGCAAATGGACTAAATGTTGAGGGACCATATTGCAAA
66 CCCCCAATAGTTATGTCAGAGACCATATTACAAATAGACTAAATGTTGAGGGACCATATTGCAAA
* * *
14301334 TAGACTATATGTCGGGGGAATTGTATTGTAAGTTTTAAAAGTTGGGGTACCTAAATGAAAGGTTT
131 TAGACTATATGTCGGGGG-ATTGTATTGCAAGTTTTAAAAGTTGGGGGACCTAAATGAAAGCTTT
* *
14301399 AGAAAATTTCAATGACCATCCCTATACTTTATCCTAAAATTTATATTACAATAATTCCCTAACAA
195 AGAAAAGTTCAATGACCATCCCCATACTTTATCCTAAAATTTATATTACAATAATTCCCTAACAA
*
14301464 TCTTTTTTAAAGATACAACATTATTTTACTTAAAATGTTTGATGTAGTGACAAAATCACCATAAA
260 TATTTTTTAAAGATACAACATTATTTTACTTAAAATGTTTGATGTAGTGACAAAATCACCATAAA
14301529 TAGAAGTAAATATATTTCAAGACTTTAACGAAGTAATTGGCTAATATTACTATAATTTTATACTT
325 TAGAAGTAAATATATTTCAAGACTTTAACGAAGTAATTGGCTAATATTACTATAATTTTATACTT
14301594 TACA
390 TACA
14301598 TA
1 TA
14301600 AACATTATCT
Statistics
Matches: 378, Mismatches: 17, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
393 139 0.37
394 239 0.63
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (393 bp):
TAGGTCCCCCAACTTTTAAAACTTGCAATACAATCCCCAAACATTTAGTCCTTTTGCAATATGGT
CCCCCAATAGTTATGTCAGAGACCATATTACAAATAGACTAAATGTTGAGGGACCATATTGCAAA
TAGACTATATGTCGGGGGATTGTATTGCAAGTTTTAAAAGTTGGGGGACCTAAATGAAAGCTTTA
GAAAAGTTCAATGACCATCCCCATACTTTATCCTAAAATTTATATTACAATAATTCCCTAACAAT
ATTTTTTAAAGATACAACATTATTTTACTTAAAATGTTTGATGTAGTGACAAAATCACCATAAAT
AGAAGTAAATATATTTCAAGACTTTAACGAAGTAATTGGCTAATATTACTATAATTTTATACTTT
ACA
Found at i:14302777 original size:31 final size:31
Alignment explanation
Indices: 14302742--14302810 Score: 129
Period size: 31 Copynumber: 2.2 Consensus size: 31
14302732 ATGGTCACCG
*
14302742 AACTTTTCTAAAGCTTTCATTTAGGTCCTCC
1 AACTTTTCTAAAGCTTTCATTTAGGTCCCCC
14302773 AACTTTTCTAAAGCTTTCATTTAGGTCCCCC
1 AACTTTTCTAAAGCTTTCATTTAGGTCCCCC
14302804 AACTTTT
1 AACTTTT
14302811 AAAATTGCAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.23, C:0.26, G:0.09, T:0.42
Consensus pattern (31 bp):
AACTTTTCTAAAGCTTTCATTTAGGTCCCCC
Found at i:14302853 original size:31 final size:31
Alignment explanation
Indices: 14302815--14302884 Score: 113
Period size: 31 Copynumber: 2.3 Consensus size: 31
14302805 ACTTTTAAAA
14302815 TTGCAATACAATCCCTCAACATTTAGTCTAT
1 TTGCAATACAATCCCTCAACATTTAGTCTAT
***
14302846 TTGCAATATGGTCCCTCAACATTTAGTCTAT
1 TTGCAATACAATCCCTCAACATTTAGTCTAT
14302877 TTGCAATA
1 TTGCAATA
14302885 TGGTCCCTGA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.37
Consensus pattern (31 bp):
TTGCAATACAATCCCTCAACATTTAGTCTAT
Found at i:14302885 original size:31 final size:31
Alignment explanation
Indices: 14302826--14302892 Score: 134
Period size: 31 Copynumber: 2.2 Consensus size: 31
14302816 TGCAATACAA
14302826 TCCCTCAACATTTAGTCTATTTGCAATATGG
1 TCCCTCAACATTTAGTCTATTTGCAATATGG
14302857 TCCCTCAACATTTAGTCTATTTGCAATATGG
1 TCCCTCAACATTTAGTCTATTTGCAATATGG
14302888 TCCCT
1 TCCCT
14302893 GACGTAACTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.24, C:0.25, G:0.12, T:0.39
Consensus pattern (31 bp):
TCCCTCAACATTTAGTCTATTTGCAATATGG
Found at i:14306471 original size:2 final size:2
Alignment explanation
Indices: 14306459--14306491 Score: 57
Period size: 2 Copynumber: 16.0 Consensus size: 2
14306449 GTCGTTTTGA
14306459 AT AT CAT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14306492 TCTTTCTCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 28 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.