Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 363 of 373
Found at i:120183564 original size:47 final size:47
Alignment explanation
Indices: 120183455--120183565 Score: 136
Period size: 47 Copynumber: 2.4 Consensus size: 47
120183445 CCGGGATAAG
* * *
120183455 CACATAGTGCTTCATCGGAATAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
* * *
120183502 CACAAAGTACTTCATCGGAACAAATCCGAAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTA-TAGTA
120183549 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
120183566 ACTCAATGTC
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
46 1 0.02
47 51 0.94
48 2 0.04
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
Found at i:120185100 original size:19 final size:20
Alignment explanation
Indices: 120185071--120185108 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
120185061 TCTTGGGCTT
120185071 ATATGATTATATATTATAAA
1 ATATGATTATATATTATAAA
*
120185091 ATAT-ATTATATTTTATAA
1 ATATGATTATATATTATAA
120185109 TAATTTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (20 bp):
ATATGATTATATATTATAAA
Found at i:120186989 original size:21 final size:22
Alignment explanation
Indices: 120186956--120187004 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
120186946 AACTTATAAA
120186956 TTTTTGACAAA-TTGTGTACTT
1 TTTTTGACAAATTTGTGTACTT
**
120186977 TTTTTGA-ATAATTTGTGTTTTT
1 TTTTTGACA-AATTTGTGTACTT
120186999 TTTTTG
1 TTTTTG
120187005 TCATGGTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 1 0.04
21 9 0.38
22 14 0.58
ACGTcount: A:0.18, C:0.04, G:0.14, T:0.63
Consensus pattern (22 bp):
TTTTTGACAAATTTGTGTACTT
Found at i:120187060 original size:27 final size:27
Alignment explanation
Indices: 120187030--120187088 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
120187020 TATTTACATC
* *
120187030 AAATTTAATATAGTAAAAA-ACTATAGT
1 AAATATAATATA-AAAAAAGACTATAGT
* *
120187057 AAATATATTTTAAAAAAAGACTATAGT
1 AAATATAATATAAAAAAAGACTATAGT
120187084 AAATA
1 AAATA
120187089 AATTTTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 5 0.19
27 22 0.81
ACGTcount: A:0.58, C:0.03, G:0.07, T:0.32
Consensus pattern (27 bp):
AAATATAATATAAAAAAAGACTATAGT
Found at i:120187093 original size:27 final size:26
Alignment explanation
Indices: 120187044--120187097 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 26
120187034 TTAATATAGT
*
120187044 AAAAAACTATAGTAAATATATTTTAA
1 AAAAAACTATAGTAAATAAATTTTAA
120187070 AAAAAGACTATAGTAAATAAATTTTAA
1 AAAAA-ACTATAGTAAATAAATTTTAA
120187097 A
1 A
120187098 TATATTCATG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 5 0.19
27 21 0.81
ACGTcount: A:0.59, C:0.04, G:0.06, T:0.31
Consensus pattern (26 bp):
AAAAAACTATAGTAAATAAATTTTAA
Found at i:120189692 original size:22 final size:22
Alignment explanation
Indices: 120189667--120189710 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
120189657 CATATTTGTG
120189667 AGGTTTACGTTATAGTATTATA
1 AGGTTTACGTTATAGTATTATA
*
120189689 AGGTTTATGTTATAGTATTATA
1 AGGTTTACGTTATAGTATTATA
120189711 TGTTATTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.02, G:0.18, T:0.48
Consensus pattern (22 bp):
AGGTTTACGTTATAGTATTATA
Found at i:120197443 original size:5 final size:5
Alignment explanation
Indices: 120197435--120197476 Score: 66
Period size: 5 Copynumber: 8.2 Consensus size: 5
120197425 TATTTTATTA
*
120197435 AATCT AATCT AATCT AATGT AATCT AATCT AATCTT AATCT A
1 AATCT AATCT AATCT AATCT AATCT AATCT AATC-T AATCT A
120197477 TTCCATATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
5 29 0.85
6 5 0.15
ACGTcount: A:0.40, C:0.17, G:0.02, T:0.40
Consensus pattern (5 bp):
AATCT
Found at i:120200282 original size:35 final size:35
Alignment explanation
Indices: 120200181--120200358 Score: 207
Period size: 35 Copynumber: 5.1 Consensus size: 35
120200171 CACGATTCAC
* * * * * *
120200181 AACTCAGTATGGTTAAAACCATACCTAAGTTTCAC
1 AACTCGGTATGGATAATACCATACCTACGTATCAT
* *
120200216 AA-TACGGTATGGAAAATA-CTTACCTACGTATCAT
1 AACT-CGGTATGGATAATACCATACCTACGTATCAT
*
120200250 ACCTCGGTATGGATAATACCATACCTACGTATCAT
1 AACTCGGTATGGATAATACCATACCTACGTATCAT
* *
120200285 AACTCGGTATGGATAATACCATACCTATGCATCAT
1 AACTCGGTATGGATAATACCATACCTACGTATCAT
** *
120200320 AACTCAATATGGATAATACCATACCTACGTGTCAT
1 AACTCGGTATGGATAATACCATACCTACGTATCAT
120200355 AACT
1 AACT
120200359 TTGCCATCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
34 27 0.22
35 94 0.78
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (35 bp):
AACTCGGTATGGATAATACCATACCTACGTATCAT
Found at i:120204770 original size:19 final size:19
Alignment explanation
Indices: 120204730--120204771 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
120204720 ACAAGTCAAT
* *
120204730 AAATAATTTAAAAATGATA
1 AAATAATTTAAAAATAAAA
*
120204749 AAATATTTTAAAAATAAAA
1 AAATAATTTAAAAATAAAA
120204768 AAAT
1 AAAT
120204772 TCAATTTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (19 bp):
AAATAATTTAAAAATAAAA
Found at i:120211892 original size:12 final size:12
Alignment explanation
Indices: 120211875--120211900 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
120211865 TCGCAGAAAA
120211875 TTGACAGTAGAC
1 TTGACAGTAGAC
120211887 TTGACAGTAGAC
1 TTGACAGTAGAC
120211899 TT
1 TT
120211901 AAATTGTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (12 bp):
TTGACAGTAGAC
Found at i:120214636 original size:30 final size:31
Alignment explanation
Indices: 120214602--120214660 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
120214592 TCATCCCAAT
*
120214602 GATTTAAAT-AAAACTTTCAAATAGTTCAGC
1 GATTTAAATAAAAACTTTCAAATAATTCAGC
120214632 GATTTAAATAAAAACTTTCAAATAATTCA
1 GATTTAAATAAAAACTTTCAAATAATTCA
120214661 ATGATTATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 9 0.33
31 18 0.67
ACGTcount: A:0.47, C:0.12, G:0.07, T:0.34
Consensus pattern (31 bp):
GATTTAAATAAAAACTTTCAAATAATTCAGC
Found at i:120217658 original size:29 final size:30
Alignment explanation
Indices: 120217590--120217663 Score: 71
Period size: 29 Copynumber: 2.5 Consensus size: 30
120217580 TATTCCCTTT
* *
120217590 AAATTGTTTTTTTATAATATCTACTTTTTT
1 AAATTGTTTTTTTATAACATCTACTTTTTA
* * *
120217620 AATTTATTTTTTTAT-GCAT-TACTTATTTA
1 AAATTGTTTTTTTATAACATCTACTT-TTTA
*
120217649 AAATTGTTTTGTTAT
1 AAATTGTTTTTTTAT
120217664 TTATTTTAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
28 5 0.14
29 17 0.49
30 13 0.37
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.62
Consensus pattern (30 bp):
AAATTGTTTTTTTATAACATCTACTTTTTA
Found at i:120217673 original size:23 final size:24
Alignment explanation
Indices: 120217642--120217693 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
120217632 TATGCATTAC
* *
120217642 TTATTTAAAATTG-TTT-TGTTAT
1 TTATTTTAAATGGCTTTATGTTAT
120217664 TTATTTTAAATGGCTTTATGTTAT
1 TTATTTTAAATGGCTTTATGTTAT
120217688 TTATTT
1 TTATTT
120217694 CATTCTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 11 0.42
23 3 0.12
24 12 0.46
ACGTcount: A:0.25, C:0.02, G:0.10, T:0.63
Consensus pattern (24 bp):
TTATTTTAAATGGCTTTATGTTAT
Found at i:120231826 original size:18 final size:18
Alignment explanation
Indices: 120231803--120231895 Score: 141
Period size: 18 Copynumber: 5.2 Consensus size: 18
120231793 CCCAACTACT
*
120231803 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
120231821 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
**
120231839 GTATACGTGAATAGTATT
1 GTATACGTGAATAGTACC
*
120231857 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
120231875 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
120231893 GTA
1 GTA
120231896 AACGGTCGTA
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 66 1.00
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:120231861 original size:36 final size:36
Alignment explanation
Indices: 120231803--120231895 Score: 159
Period size: 36 Copynumber: 2.6 Consensus size: 36
120231793 CCCAACTACT
*
120231803 GTATACGTGAACAGTACCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
**
120231839 GTATACGTGAATAGTATTGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
120231875 GTATACGTGAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
120231896 AACGGTCGTA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 52 1.00
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
Found at i:120243834 original size:18 final size:18
Alignment explanation
Indices: 120243811--120243868 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
120243801 TTTGTTTATT
120243811 GTTATTCAATAACAATCA
1 GTTATTCAATAACAATCA
* * *
120243829 GTTATTCAGTATCAAACA
1 GTTATTCAATAACAATCA
120243847 ---A-TCAATAACAATCA
1 GTTATTCAATAACAATCA
120243861 GTTATTCA
1 GTTATTCA
120243869 GTCCAATAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 8
0.68 0.14 0.18
Matches are distributed among these distances:
14 10 0.33
15 1 0.03
17 1 0.03
18 18 0.60
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (18 bp):
GTTATTCAATAACAATCA
Found at i:120245355 original size:14 final size:15
Alignment explanation
Indices: 120245337--120245374 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
120245327 TTTATTTTTA
120245337 ATAATAATCAT-AATT
1 ATAATAAT-ATAAATT
120245352 -TAATAATATAAATT
1 ATAATAATATAAATT
120245366 ATAATAATA
1 ATAATAATA
120245375 ATGAAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 2 0.10
14 11 0.52
15 8 0.38
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (15 bp):
ATAATAATATAAATT
Found at i:120246631 original size:58 final size:57
Alignment explanation
Indices: 120246499--120246633 Score: 173
Period size: 58 Copynumber: 2.3 Consensus size: 57
120246489 TTTAATTCAT
* ** *
120246499 ATAATAATTATATTAAGAATTTTATTAAATTATATATTATTTTATTAAATTATATTTA
1 ATAATAATTATATTAA-AATCTGGTTAAACTATATATTATTTTATTAAATTATATTTA
* * *
120246557 ATAATAATTATGTTAAAATCTGGTTAAACTATTTATTATTTTTATTAAATTATTTTTA
1 ATAATAATTATATTAAAATCTGGTTAAACTATATATTA-TTTTATTAAATTATATTTA
120246615 ATAATAATCT-TATTAAAAT
1 ATAATAAT-TATATTAAAAT
120246634 TTAATAACAA
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
57 17 0.25
58 49 0.73
59 1 0.01
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (57 bp):
ATAATAATTATATTAAAATCTGGTTAAACTATATATTATTTTATTAAATTATATTTA
Found at i:120246734 original size:16 final size:16
Alignment explanation
Indices: 120246713--120246752 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
120246703 TCCTTATGCT
120246713 ATTACAG-CTCTATTCA
1 ATTACAGTC-CTATTCA
*
120246729 ATTACAGTCCTATTCC
1 ATTACAGTCCTATTCA
120246745 ATTACAGT
1 ATTACAGT
120246753 GAACCAAACG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 21 0.95
17 1 0.05
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (16 bp):
ATTACAGTCCTATTCA
Found at i:120259520 original size:11 final size:11
Alignment explanation
Indices: 120259474--120259548 Score: 53
Period size: 11 Copynumber: 6.9 Consensus size: 11
120259464 AATATTCCCT
*
120259474 TCAAAAATCTA
1 TCAAAATTCTA
*
120259485 TCAAATTTC-A
1 TCAAAATTCTA
** * *
120259495 TTGAAATTTTC
1 TCAAAATTCTA
*
120259506 TCAAAATTCAA
1 TCAAAATTCTA
**
120259517 TCAAGTTTCTA
1 TCAAAATTCTA
120259528 TCAAAATTCTA
1 TCAAAATTCTA
*
120259539 TCAAATTTCT
1 TCAAAATTCT
120259549 TTGTTTAAAA
Statistics
Matches: 45, Mismatches: 18, Indels: 2
0.69 0.28 0.03
Matches are distributed among these distances:
10 6 0.13
11 39 0.87
ACGTcount: A:0.40, C:0.17, G:0.03, T:0.40
Consensus pattern (11 bp):
TCAAAATTCTA
Found at i:120259531 original size:22 final size:22
Alignment explanation
Indices: 120259481--120259548 Score: 75
Period size: 22 Copynumber: 3.1 Consensus size: 22
120259471 CCTTCAAAAA
* * *
120259481 TCTATCAAATTTCATTGAAATT
1 TCTATCAAAATTCAATCAAATT
* *
120259503 T-TCTCAAAATTCAATCAAGTT
1 TCTATCAAAATTCAATCAAATT
*
120259524 TCTATCAAAATTCTATCAAATT
1 TCTATCAAAATTCAATCAAATT
120259546 TCT
1 TCT
120259549 TTGTTTAAAA
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
21 16 0.43
22 21 0.57
ACGTcount: A:0.37, C:0.18, G:0.03, T:0.43
Consensus pattern (22 bp):
TCTATCAAAATTCAATCAAATT
Found at i:120264912 original size:16 final size:17
Alignment explanation
Indices: 120264888--120264921 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
120264878 GTATTGATAT
120264888 TTGACTTGAAT-GAGAA
1 TTGACTTGAATGGAGAA
*
120264904 TTGAGTTGAATGGAGAA
1 TTGACTTGAATGGAGAA
120264921 T
1 T
120264922 GTGTGTGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.32
Consensus pattern (17 bp):
TTGACTTGAATGGAGAA
Found at i:120269426 original size:23 final size:23
Alignment explanation
Indices: 120269400--120269481 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 23
120269390 GCTTTTCTGA
120269400 TCAGGCACTTTGTGTGTCGTATT
1 TCAGGCACTTTGTGTGTCGTATT
* * *
120269423 TCAGGCACCTCGTGTGCCGTA--
1 TCAGGCACTTTGTGTGTCGTATT
120269444 TCAGGCACTTTGTGTGTC--ATT
1 TCAGGCACTTTGTGTGTCGTATT
* *
120269465 TTAGGCACTTTATGTGT
1 TCAGGCACTTTGTGTGT
120269482 TGTCTACTGA
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
19 1 0.02
21 30 0.61
23 18 0.37
ACGTcount: A:0.15, C:0.21, G:0.26, T:0.39
Consensus pattern (23 bp):
TCAGGCACTTTGTGTGTCGTATT
Found at i:120269458 original size:21 final size:21
Alignment explanation
Indices: 120269399--120269459 Score: 77
Period size: 23 Copynumber: 2.8 Consensus size: 21
120269389 GGCTTTTCTG
*
120269399 ATCAGGCACTTTGTGTGTCGT
1 ATCAGGCACTTTGTGTGCCGT
* *
120269420 ATTTCAGGCACCTCGTGTGCCGT
1 A--TCAGGCACTTTGTGTGCCGT
120269443 ATCAGGCACTTTGTGTG
1 ATCAGGCACTTTGTGTG
120269460 TCATTTTAGG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
21 15 0.45
23 18 0.55
ACGTcount: A:0.15, C:0.23, G:0.28, T:0.34
Consensus pattern (21 bp):
ATCAGGCACTTTGTGTGCCGT
Found at i:120272189 original size:126 final size:126
Alignment explanation
Indices: 120272041--120272295 Score: 449
Period size: 126 Copynumber: 2.0 Consensus size: 126
120272031 TTATAGCCTC
120272041 ATTTTTCTACGAACTATCGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTTCAAAAATTTTGCTG
1 ATTTTTCTACGAACTATCGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTTCAAAAATTTTGCTG
* *
120272106 ACAGTGCATCCTTCTTGAAGCATTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCATTTTCGACACTATTTGTTCAGAAACGTCTACTCAAAATT
* *
120272167 ATTTTTCTACGAACTA-CTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCT
1 ATTTTTCTACGAACTATC-GTAGCAAAAGAGCATCCACGTGGGAGCTTTTTTCAAAAATTTTGCT
*
120272231 GACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAAAATT
65 GACAGTGCATCCTGCTTGAAGCATTTTCGACACTATTTGTTCAGAAACGTCTACTCAAAATT
120272293 ATT
1 ATT
120272296 CTTACAGAAA
Statistics
Matches: 123, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
125 1 0.01
126 122 0.99
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (126 bp):
ATTTTTCTACGAACTATCGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTTCAAAAATTTTGCTG
ACAGTGCATCCTGCTTGAAGCATTTTCGACACTATTTGTTCAGAAACGTCTACTCAAAATT
Found at i:120272843 original size:20 final size:20
Alignment explanation
Indices: 120272808--120272865 Score: 93
Period size: 19 Copynumber: 3.0 Consensus size: 20
120272798 ATGAATTAAG
120272808 TAACCCTAAA-TTAATCAAT
1 TAACCCTAAATTTAATCAAT
*
120272827 TAACCGTAAATTTAATCAAT
1 TAACCCTAAATTTAATCAAT
120272847 TAACCCT-AATTTAATCAAT
1 TAACCCTAAATTTAATCAAT
120272866 CTCTAATTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
19 21 0.58
20 15 0.42
ACGTcount: A:0.45, C:0.19, G:0.02, T:0.34
Consensus pattern (20 bp):
TAACCCTAAATTTAATCAAT
Found at i:120273009 original size:16 final size:16
Alignment explanation
Indices: 120272984--120273023 Score: 64
Period size: 15 Copynumber: 2.6 Consensus size: 16
120272974 TTAAATTCTA
120272984 AACCTTAAAAAACCCT
1 AACCTTAAAAAACCCT
*
120273000 AA-CTTTAAAAACCCT
1 AACCTTAAAAAACCCT
120273015 AACCTTAAA
1 AACCTTAAA
120273024 TCCTAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.50, C:0.28, G:0.00, T:0.23
Consensus pattern (16 bp):
AACCTTAAAAAACCCT
Found at i:120285809 original size:21 final size:21
Alignment explanation
Indices: 120285783--120285823 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
120285773 AATAAAAAAA
*
120285783 ATATTTT-TTATTAATATTTAT
1 ATATTTTATAATTAAT-TTTAT
120285804 ATATTTTATAATTAATTTTA
1 ATATTTTATAATTAATTTTA
120285824 AATAAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
ATATTTTATAATTAATTTTAT
Found at i:120289178 original size:18 final size:19
Alignment explanation
Indices: 120289151--120289194 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
120289141 TATTTGTAAT
120289151 TAAT-ATAAAAATAAA-AA
1 TAATAATAAAAATAAATAA
*
120289168 TAATAATAAAATTAAATAA
1 TAATAATAAAAATAAATAA
120289187 T-ATAATAA
1 TAATAATAA
120289195 TACTATTACA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 4 0.17
18 17 0.71
19 3 0.12
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
TAATAATAAAAATAAATAA
Found at i:120289202 original size:21 final size:21
Alignment explanation
Indices: 120289167--120289212 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
120289157 AAAAATAAAA
*
120289167 ATAATAATAAAATTAAATAAT
1 ATAATAATAAAATTAAATAAG
** *
120289188 ATAATAATACTATTACATAAG
1 ATAATAATAAAATTAAATAAG
120289209 ATAA
1 ATAA
120289213 AAAATAAGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (21 bp):
ATAATAATAAAATTAAATAAG
Found at i:120291034 original size:30 final size:30
Alignment explanation
Indices: 120291000--120291107 Score: 76
Period size: 30 Copynumber: 3.3 Consensus size: 30
120290990 GAAGAAAAAG
120291000 GATAAAGAGAAAAAGAAGGAAAAGAAGACA
1 GATAAAGAGAAAAAGAAGGAAAAGAAGACA
120291030 GATAACGAGGATGAACAAAAGAAGGACAAGAAGAAGA-A
1 GATAA--A-GA-G-A-AAAAGAAGG--AA-AAGAAGACA
* * *
120291068 GGATAAGGAGAAAAAGGAA-GAAGAGAAGTCA
1 -GATAAAGAGAAAAA-GAAGGAAAAGAAGACA
120291099 GATAAAGAG
1 GATAAAGAG
120291108 GATGATGTAG
Statistics
Matches: 62, Mismatches: 4, Indels: 24
0.69 0.04 0.27
Matches are distributed among these distances:
30 18 0.29
31 3 0.05
32 1 0.02
33 7 0.11
34 5 0.08
35 2 0.03
36 11 0.18
38 3 0.05
39 12 0.19
ACGTcount: A:0.59, C:0.05, G:0.31, T:0.06
Consensus pattern (30 bp):
GATAAAGAGAAAAAGAAGGAAAAGAAGACA
Found at i:120291268 original size:27 final size:27
Alignment explanation
Indices: 120291229--120291284 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
120291219 GTCGAAGAGG
* *
120291229 AGGAGAAGAAGAAGAAGAAAGATAAGA
1 AGGAGAAGAAGAAAAAGAAAGAAAAGA
* *
120291256 AGGATAAGGAGAAAAAGAAAGAAAAGA
1 AGGAGAAGAAGAAAAAGAAAGAAAAGA
120291283 AG
1 AG
120291285 TCGGACGAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.32, T:0.04
Consensus pattern (27 bp):
AGGAGAAGAAGAAAAAGAAAGAAAAGA
Found at i:120291275 original size:93 final size:92
Alignment explanation
Indices: 120291063--120291598 Score: 617
Period size: 93 Copynumber: 5.8 Consensus size: 92
120291053 GGACAAGAAG
* * *
120291063 AAGAAGGATAAGGAGAAAAAGGAAGAAGAGAAGTCAGATAAAGAGGATGATGTAGAAGATGCCAA
1 AAGAAGGATAAGGAGAAAAAGAAAGAAAAGAAGT-GGATAAAGAGGATGATGTAGAAGATGCC-A
120291128 AGAGAAGGAGAAGAAGAAGAAGAAGAAAGAT
64 A-AG-AGGAGAAGAAGAAGAAGAAGAAAGAT
* ** * * * * *
120291159 AATAAGGATAAGGAGAAAAAGAAAGACCAGAAGTGTGATAAAGAGGATGAGGAAGAAAATGTCGA
1 AAGAAGGATAAGGAGAAAAAGAAAGAAAAGAAGTG-GATAAAGAGGATGATGTAGAAGATGCCAA
*
120291224 AGAGGAGGAGAAGAAGAAGAAGAAAGAT
65 AGAGGAGAAGAAGAAGAAGAAGAAAGAT
**
120291252 AAGAAGGATAAGGAGAAAAAGAAAGAAAAGAAGTCGGACGAAGAGGATGATGTAGAAGATGCCAA
1 AAGAAGGATAAGGAGAAAAAGAAAGAAAAGAAGT-GGATAAAGAGGATGATGTAGAAGATGCCAA
*
120291317 AGAGGCA-AAGGAGAAGAAGAAGAAAGAT
65 AGAGG-AGAAGAAGAAGAAGAAGAAAGAT
* *
120291345 AACAAGGATAAGGAGAAAAAGAAAGATAAGAAGTGCGATAAAGAGGATGATGTAGAAGATGCC--
1 AAGAAGGATAAGGAGAAAAAGAAAGAAAAGAAGTG-GATAAAGAGGATGATGTAGAAGATGCCAA
120291408 A-A--AG-AG--G-AGAAGAAGAAAGAT
65 AGAGGAGAAGAAGAAGAAGAAGAAAGAT
* * * *
120291429 AAGAAGGATAAGGAGAAGAAGAAAGATAAGAAGTCGGATGAAGAGGATGGA-GTAGAAGATGACA
1 AAGAAGGATAAGGAGAAAAAGAAAGAAAAGAAGT-GGATAAAGAGGAT-GATGTAGAAGATGCCA
* * *
120291493 AAGAGGAGAAAAAGAAGAAAAAGAAAGAG
64 AAGAGGAGAAGAAGAAGAAGAAGAAAGAT
* ** * * *
120291522 AAGAAGGATAAGGAGAAAAAGAAAGAACAGAAGTCCAATAAAGAGGATGATGTAAAAGATGACGA
1 AAGAAGGATAAGGAGAAAAAGAAAGAAAAGAAGT-GGATAAAGAGGATGATGTAGAAGATGCCAA
*
120291587 AGAGAAGAAGAA
65 AGAGGAGAAGAA
120291599 AGATAAGAAG
Statistics
Matches: 379, Mismatches: 44, Indels: 37
0.82 0.10 0.08
Matches are distributed among these distances:
84 68 0.18
85 4 0.01
86 1 0.00
87 4 0.01
89 2 0.01
90 2 0.01
91 1 0.00
92 4 0.01
93 235 0.62
94 4 0.01
95 1 0.00
96 53 0.14
ACGTcount: A:0.55, C:0.04, G:0.32, T:0.09
Consensus pattern (92 bp):
AAGAAGGATAAGGAGAAAAAGAAAGAAAAGAAGTGGATAAAGAGGATGATGTAGAAGATGCCAAA
GAGGAGAAGAAGAAGAAGAAGAAAGAT
Found at i:120291434 original size:12 final size:12
Alignment explanation
Indices: 120291417--120291461 Score: 54
Period size: 12 Copynumber: 3.5 Consensus size: 12
120291407 CAAAGAGGAG
120291417 AAGAAGAAAGAT
1 AAGAAGAAAGAT
*
120291429 AAGAAGGATAAGGAG
1 AAGAA-GA-AA-GAT
120291444 AAGAAGAAAGAT
1 AAGAAGAAAGAT
120291456 AAGAAG
1 AAGAAG
120291462 TCGGATGAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
12 13 0.46
13 4 0.14
14 4 0.14
15 7 0.25
ACGTcount: A:0.62, C:0.00, G:0.31, T:0.07
Consensus pattern (12 bp):
AAGAAGAAAGAT
Found at i:120291498 original size:177 final size:174
Alignment explanation
Indices: 120291063--120291634 Score: 711
Period size: 177 Copynumber: 3.2 Consensus size: 174
120291053 GGACAAGAAG
* * *
120291063 AAGAAGGATAAGGAGAAAAAGGAAGAAGAGAAGTCAGATAAAGAGGATGATGTAGAAGATGCCAA
1 AAGAAGGATAAGGAGAAAAAGAAAGAA-AGAAGTCGGATGAAGAGGATGATGTAGAAGATGCC-A
* *
120291128 AGAGAAGGAGAAGAAGAAGAAGAAGAAAGATAATAAGGATAAGGAGAAAAAGAAAGACCAGAAGT
64 A-AG-AGGAGAAGAAGAAGAAGAAGAAAGATAACAAGGATAAGGAGAAAAAGAAAGA-AAGAAGT
* * * *
120291193 GTGATAAAGAGGATGAGGAAGAAAATGTCGAAGAGGAGGAGAAGAAGAAGAAGAAAGAT
126 GCGATAAAGAGGATGATGTAGAAGATG-C--A-A--A-GAG--G-AGAAGAAGAAAGAT
*
120291252 AAGAAGGATAAGGAGAAAAAGAAAGAAAAGAAGTCGGACGAAGAGGATGATGTAGAAGATGCCAA
1 AAGAAGGATAAGGAGAAAAAGAAAG-AAAGAAGTCGGATGAAGAGGATGATGTAGAAGATGCCAA
*
120291317 AGAGGCA-AAGGAGAAGAAGAAGAAAGATAACAAGGATAAGGAGAAAAAGAAAGATAAGAAGTGC
65 AGAGG-AGAAGAAGAAGAAGAAGAAAGATAACAAGGATAAGGAGAAAAAGAAAGA-AAGAAGTGC
120291381 GATAAAGAGGATGATGTAGAAGATGCCAAAGAGGAGAAGAAGAAAGAT
128 GATAAAGAGGATGATGTAGAAGATG-CAAAGAGGAGAAGAAGAAAGAT
* *
120291429 AAGAAGGATAAGGAGAAGAAGAAAGATAAGAAGTCGGATGAAGAGGATGGA-GTAGAAGATGACA
1 AAGAAGGATAAGGAGAAAAAGAAAGA-AAGAAGTCGGATGAAGAGGAT-GATGTAGAAGATGCCA
* * * * *
120291493 AAGAGGAGAAAAAGAAGAAAAAGAAAGAGAAGAAGGATAAGGAGAAAAAGAAAGAACAGAAGTCC
64 AAGAGGAGAAGAAGAAGAAGAAGAAAGATAACAAGGATAAGGAGAAAAAGAAAGAA-AGAAGTGC
* * * *
120291558 AATAAAGAGGATGATGTAAAAGATG--ACGAAGAGAAGAAGAAAGAT
128 GATAAAGAGGATGATGTAGAAGATGCAAAGAGGAGAAGAAGAAAGAT
120291603 AAGAAGGATAAGGAGAAAAAGAAAGAGAAGAA
1 AAGAAGGATAAGGAGAAAAAGAAAGA-AAGAA
120291635 ACACGAGGAT
Statistics
Matches: 349, Mismatches: 28, Indels: 27
0.86 0.07 0.07
Matches are distributed among these distances:
174 48 0.14
176 3 0.01
177 148 0.42
178 3 0.01
180 3 0.01
181 1 0.00
183 1 0.00
184 1 0.00
186 78 0.22
187 3 0.01
188 2 0.01
189 56 0.16
190 2 0.01
ACGTcount: A:0.55, C:0.04, G:0.32, T:0.09
Consensus pattern (174 bp):
AAGAAGGATAAGGAGAAAAAGAAAGAAAGAAGTCGGATGAAGAGGATGATGTAGAAGATGCCAAA
GAGGAGAAGAAGAAGAAGAAGAAAGATAACAAGGATAAGGAGAAAAAGAAAGAAAGAAGTGCGAT
AAAGAGGATGATGTAGAAGATGCAAAGAGGAGAAGAAGAAAGAT
Found at i:120291601 original size:12 final size:12
Alignment explanation
Indices: 120291586--120291634 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
120291576 AAAGATGACG
120291586 AAGAGAAGAAGA
1 AAGAGAAGAAGA
*
120291598 AAGATAAGAAGGA
1 AAGAGAAGAA-GA
*
120291611 TAAGGAGAAAAAGA
1 -AA-GAGAAGAAGA
120291625 AAGAGAAGAA
1 AAGAGAAGAA
120291635 ACACGAGGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
12 16 0.53
13 4 0.13
14 4 0.13
15 6 0.20
ACGTcount: A:0.65, C:0.00, G:0.31, T:0.04
Consensus pattern (12 bp):
AAGAGAAGAAGA
Found at i:120298580 original size:34 final size:34
Alignment explanation
Indices: 120298541--120298613 Score: 137
Period size: 34 Copynumber: 2.1 Consensus size: 34
120298531 AATTAAAATA
*
120298541 AAAATTTATAAATATGATAGAAACCATTATCTAT
1 AAAATTTATAAATATGATAGAAACCACTATCTAT
120298575 AAAATTTATAAATATGATAGAAACCACTATCTAT
1 AAAATTTATAAATATGATAGAAACCACTATCTAT
120298609 AAAAT
1 AAAAT
120298614 ATTCGAAAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.52, C:0.10, G:0.05, T:0.33
Consensus pattern (34 bp):
AAAATTTATAAATATGATAGAAACCACTATCTAT
Found at i:120304554 original size:21 final size:21
Alignment explanation
Indices: 120304528--120304568 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
120304518 ATCTGCTCAA
* *
120304528 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
120304549 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
120304569 TCGCTTGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:120311120 original size:31 final size:29
Alignment explanation
Indices: 120311085--120311164 Score: 72
Period size: 31 Copynumber: 2.7 Consensus size: 29
120311075 TTAAAATTAA
120311085 AAAAGTATAAAGACTAAATTAGATCAATATG
1 AAAAGTATAAAGACTAAATT-GATCAA-ATG
* * * *
120311116 AAAAGTACAAATATTGAAATTGATCAAATT
1 AAAAGTATAAAGACT-AAATTGATCAAATG
**
120311146 AAAA-TATATGGACTAAATT
1 AAAAGTATAAAGACTAAATT
120311165 CAAAACTTAC
Statistics
Matches: 39, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
28 5 0.13
29 5 0.13
30 6 0.15
31 18 0.46
32 5 0.13
ACGTcount: A:0.54, C:0.06, G:0.11, T:0.29
Consensus pattern (29 bp):
AAAAGTATAAAGACTAAATTGATCAAATG
Found at i:120313981 original size:19 final size:19
Alignment explanation
Indices: 120313957--120313993 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
120313947 TATTATTAGT
*
120313957 ATATTTATAATTTTAATAA
1 ATATTTATAATTTAAATAA
*
120313976 ATATTTATTATTTAAATA
1 ATATTTATAATTTAAATA
120313994 TTAATATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATATTTATAATTTAAATAA
Found at i:120314097 original size:23 final size:23
Alignment explanation
Indices: 120314071--120314115 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
120314061 AAATATTAAA
*
120314071 TAATATATTAAAATAATAAATTT
1 TAATAAATTAAAATAATAAATTT
* *
120314094 TAATAAATTATATTAATAAATT
1 TAATAAATTAAAATAATAAATT
120314116 ATTATATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
TAATAAATTAAAATAATAAATTT
Found at i:120314109 original size:13 final size:13
Alignment explanation
Indices: 120314093--120314117 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
120314083 ATAATAAATT
120314093 TTAATAAATTATA
1 TTAATAAATTATA
120314106 TTAATAAATTAT
1 TTAATAAATTAT
120314118 TATATGATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TTAATAAATTATA
Found at i:120315100 original size:42 final size:43
Alignment explanation
Indices: 120315040--120315122 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 43
120315030 GAATTGAGTA
* **
120315040 CTTCATTTACTCGATGTCATAGTTCAACTATGGTCTTACACAT
1 CTTCATATACTCGATGTCATAGCCCAACTATGGTCTTACACAT
*
120315083 CTTCATATA-TCGATGTCATAGCCCAGCTATGGTCTTACAC
1 CTTCATATACTCGATGTCATAGCCCAACTATGGTCTTACAC
120315123 GTAATCACAT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 28 0.78
43 8 0.22
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.36
Consensus pattern (43 bp):
CTTCATATACTCGATGTCATAGCCCAACTATGGTCTTACACAT
Found at i:120315135 original size:42 final size:42
Alignment explanation
Indices: 120315050--120315183 Score: 126
Period size: 42 Copynumber: 3.0 Consensus size: 42
120315040 CTTCATTTAC
* * * ** *
120315050 TCGATGTCATAGTTCAACTATGGTCTTACACATCTTCATATA
1 TCGATGTCATAGTCCAGCTATGGTCTTACACGTAATCACATA
*
120315092 TCGATGTCATAGCCCAGCTATGGTCTTACACGTAATCACATA
1 TCGATGTCATAGTCCAGCTATGGTCTTACACGTAATCACATA
*
120315134 TCACATATCGATACCATAGTCCAGCTATGGTCTTACACG-AATCACATA
1 T--C-GAT-G-T--CATAGTCCAGCTATGGTCTTACACGTAATCACATA
120315182 TC
1 TC
120315184 TCACTGATGC
Statistics
Matches: 76, Mismatches: 9, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
42 36 0.47
44 1 0.01
45 2 0.03
46 2 0.03
47 1 0.01
48 10 0.13
49 24 0.32
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.31
Consensus pattern (42 bp):
TCGATGTCATAGTCCAGCTATGGTCTTACACGTAATCACATA
Found at i:120315152 original size:49 final size:48
Alignment explanation
Indices: 120315089--120315183 Score: 154
Period size: 49 Copynumber: 2.0 Consensus size: 48
120315079 ACATCTTCAT
**
120315089 ATATCGATGTCATAGCCCAGCTATGGTCTTACACGTAATCACATATCAC
1 ATATCGATACCATAGCCCAGCTATGGTCTTACACG-AATCACATATCAC
*
120315138 ATATCGATACCATAGTCCAGCTATGGTCTTACACGAATCACATATC
1 ATATCGATACCATAGCCCAGCTATGGTCTTACACGAATCACATATC
120315184 TCACTGATGC
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
48 11 0.26
49 32 0.74
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (48 bp):
ATATCGATACCATAGCCCAGCTATGGTCTTACACGAATCACATATCAC
Found at i:120315317 original size:31 final size:31
Alignment explanation
Indices: 120315282--120315488 Score: 251
Period size: 31 Copynumber: 6.8 Consensus size: 31
120315272 CTTGTCACTT
*
120315282 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * * * *
120315313 GTAGCCGGAGTTACCATTTTTCATTGATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
120315344 GTAGTCGAAGCTACTATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * * *
120315375 GTAACAGAAGCTACCACTTTTCACTTATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
120315406 GTAGCAGAAGCTACCACTTTTCACTGATC--
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
120315435 --AGCCGAAGCTACCACTTTTCACTTATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
120315464 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
120315489 TGTCATTTGT
Statistics
Matches: 148, Mismatches: 24, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
27 25 0.17
31 123 0.83
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.30
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:120315573 original size:50 final size:51
Alignment explanation
Indices: 120315468--120315592 Score: 171
Period size: 50 Copynumber: 2.5 Consensus size: 51
120315458 TATCAGGTAG
* * * * *
120315468 CCGAAGCTACCACTTTTCACTTGTCATTTGTCTTTGATCAGATAAGTATAG
1 CCGAAGCTATCACTTATCACTTGTCACTTATCTTTGATCAGATAAGTATAA
* *
120315519 CCGAAGCTATTACTTATCACTT-TCACTTATCTTTGATCAGATAAGTGTAA
1 CCGAAGCTATCACTTATCACTTGTCACTTATCTTTGATCAGATAAGTATAA
*
120315569 CCGAAGTTATCACTTATCACTTGT
1 CCGAAGCTATCACTTATCACTTGT
120315593 TGCCATGGTC
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
50 44 0.69
51 20 0.31
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.38
Consensus pattern (51 bp):
CCGAAGCTATCACTTATCACTTGTCACTTATCTTTGATCAGATAAGTATAA
Found at i:120318801 original size:23 final size:22
Alignment explanation
Indices: 120318771--120318833 Score: 69
Period size: 21 Copynumber: 2.9 Consensus size: 22
120318761 ACATAAATAT
*
120318771 ATATATACCTATATATATTAAAA-
1 ATATATA-C-ATATATAATAAAAC
120318794 ATATATACATATATAATAAAAC
1 ATATATACATATATAATAAAAC
120318816 ATATACTA-ATAT-TAATAA
1 ATATA-TACATATATAATAA
120318834 TAATAAGGAT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
21 18 0.49
22 10 0.27
23 9 0.24
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.37
Consensus pattern (22 bp):
ATATATACATATATAATAAAAC
Found at i:120318819 original size:20 final size:21
Alignment explanation
Indices: 120318781--120318821 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
120318771 ATATATACCT
* *
120318781 ATATATATTAAAAATATATAC
1 ATATATAATAAAAACATATAC
120318802 ATATATAAT-AAAACATATAC
1 ATATATAATAAAAACATATAC
120318822 TAATATTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (21 bp):
ATATATAATAAAAACATATAC
Found at i:120318827 original size:20 final size:21
Alignment explanation
Indices: 120318783--120318833 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
120318773 ATATACCTAT
*
120318783 ATATATT-A-AAAATATATAC
1 ATATATTAATAAAACATATAC
120318802 ATATA-TAATAAAACATATAC
1 ATATATTAATAAAACATATAC
120318822 -TAATATTAATAA
1 AT-ATATTAATAA
120318834 TAATAAGGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 1 0.04
19 7 0.26
20 13 0.48
21 6 0.22
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (21 bp):
ATATATTAATAAAACATATAC
Found at i:120318923 original size:22 final size:21
Alignment explanation
Indices: 120318845--120318930 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
120318835 AATAAGGATA
120318845 ATATAAAAATATATACATGAAAC
1 ATATAAAAATATATACAT--AAC
120318868 AGTATAAAAAATATATATAACTAATAAC
1 A-TAT--AAAA-ATATAT-AC--ATAAC
120318896 AT-T-AAAATATATACATAAC
1 ATATAAAAATATATACATAAC
120318915 ATATATAAAATATATA
1 ATATA-AAAATATATA
120318931 ATTGATAATA
Statistics
Matches: 53, Mismatches: 0, Indels: 21
0.72 0.00 0.28
Matches are distributed among these distances:
19 7 0.13
20 1 0.02
21 2 0.04
22 16 0.30
23 4 0.08
24 3 0.06
26 5 0.09
27 7 0.13
28 6 0.11
30 2 0.04
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.30
Consensus pattern (21 bp):
ATATAAAAATATATACATAAC
Found at i:120319160 original size:20 final size:20
Alignment explanation
Indices: 120319135--120319174 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
120319125 ATAATAATGA
120319135 TATT-AATAAAATATAAATAG
1 TATTAAATAAAATA-AAATAG
120319155 TATTAAAATAAAATAAAATA
1 TATT-AAATAAAATAAAATA
120319175 CGTAAAAGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 5 0.28
22 9 0.50
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (20 bp):
TATTAAATAAAATAAAATAG
Found at i:120319547 original size:17 final size:17
Alignment explanation
Indices: 120319525--120319557 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
120319515 TTGTATAAAA
120319525 TTTATT-TTATTGTTAAT
1 TTTATTATTATT-TTAAT
120319542 TTTATTATTATTTTAA
1 TTTATTATTATTTTAA
120319558 AGGCATTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (17 bp):
TTTATTATTATTTTAAT
Found at i:120320949 original size:11 final size:11
Alignment explanation
Indices: 120320933--120320963 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
120320923 TAAAAGGGTT
120320933 TGAAATTGGGC
1 TGAAATTGGGC
120320944 TGAAATTGGGC
1 TGAAATTGGGC
*
120320955 TAAAATTGG
1 TGAAATTGG
120320964 CCTATAACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.32, C:0.06, G:0.32, T:0.29
Consensus pattern (11 bp):
TGAAATTGGGC
Found at i:120328840 original size:50 final size:50
Alignment explanation
Indices: 120328774--120328944 Score: 261
Period size: 50 Copynumber: 3.4 Consensus size: 50
120328764 CCATGACAAC
* *
120328774 AAGTGATAAGTGATAGCTTCGGCCACACTTATCCGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCAACACTTATCTGATCAAGGACAAATGA
* * *
120328824 AAGTGATAAGTAATAGCTTCGGCTACAATTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCAACACTTATCTGATCAAGGACAAATGA
*
120328874 AAGTGATAAGTGATAGCTTCGGCAACACTTATCTGATCAATGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCAACACTTATCTGATCAAGGACAAATGA
* *
120328924 CAAGTGAAAAGTGGTAGCTTC
1 -AAGTGATAAGTGATAGCTTC
120328945 AGCTACCTGA
Statistics
Matches: 110, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
50 92 0.84
51 18 0.16
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCAACACTTATCTGATCAAGGACAAATGA
Found at i:120328964 original size:31 final size:31
Alignment explanation
Indices: 120328926--120329043 Score: 191
Period size: 31 Copynumber: 3.8 Consensus size: 31
120328916 ACAAATGACA
120328926 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
* *
120328957 AGTGAAAAGTGGTAGCTTCTGCTACCTGATT
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
* *
120328988 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
*
120329019 AGTGAATAGTGGTAGCTTCAGCTAC
1 AGTGAAAAGTGGTAGCTTCAGCTAC
120329044 AAGTGACAAG
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 79 1.00
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
Found at i:120329241 original size:42 final size:42
Alignment explanation
Indices: 120329195--120329351 Score: 244
Period size: 42 Copynumber: 3.7 Consensus size: 42
120329185 ATGTGATTAC
120329195 GTGTAAGACCATAGCTGGGCTATGGCATCGATATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATATATGAATAT
120329237 GTGTAAGACCATAGCTGGGCTATGGCATCGATATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATATATGAATAT
* *
120329279 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAT
** **
120329321 GTGTAAGACCATAATTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
120329352 GAAAACGAAG
Statistics
Matches: 107, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
41 1 0.01
42 105 0.98
43 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATATATGAATAT
Found at i:120331210 original size:23 final size:24
Alignment explanation
Indices: 120331182--120331229 Score: 73
Period size: 23 Copynumber: 2.0 Consensus size: 24
120331172 AAAATTTTAA
120331182 TAAATTAAAAA-AATATTAAA-ATT
1 TAAATTAAAAATAATA-TAAATATT
120331205 TAAATTAAAAATAATATAAATATT
1 TAAATTAAAAATAATATAAATATT
120331229 T
1 T
120331230 TATTCAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
TAAATTAAAAATAATATAAATATT
Found at i:120335615 original size:25 final size:25
Alignment explanation
Indices: 120335587--120335636 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
120335577 TTGAATTATA
120335587 ATAATAAAA-ATGCAAAATCAAGCAC
1 ATAA-AAAATATGCAAAATCAAGCAC
120335612 ATAAAAAATATGCAAAATCAAGCAC
1 ATAAAAAATATGCAAAATCAAGCAC
120335637 TTAACATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 4 0.17
25 20 0.83
ACGTcount: A:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (25 bp):
ATAAAAAATATGCAAAATCAAGCAC
Found at i:120338263 original size:10 final size:10
Alignment explanation
Indices: 120338250--120338278 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
120338240 TCTTCAACAT
120338250 TCTTCTTTCC
1 TCTTCTTTCC
120338260 TCTTCTTTCC
1 TCTTCTTTCC
120338270 TCTTCTTTC
1 TCTTCTTTC
120338279 TTTGGTGCGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (10 bp):
TCTTCTTTCC
Found at i:120351640 original size:9 final size:9
Alignment explanation
Indices: 120351626--120351704 Score: 97
Period size: 9 Copynumber: 8.8 Consensus size: 9
120351616 TAAAATTAGT
120351626 CGAATTAAC
1 CGAATTAAC
*
120351635 CAAATTAAC
1 CGAATTAAC
120351644 CGAATTAAC
1 CGAATTAAC
* *
120351653 TGAATTACC
1 CGAATTAAC
120351662 CGAATT-AC
1 CGAATTAAC
*
120351670 TCAAATTAAC
1 -CGAATTAAC
120351680 CGAATTAAC
1 CGAATTAAC
*
120351689 TGAATTAAC
1 CGAATTAAC
120351698 CGAATTA
1 CGAATTA
120351705 TTTGTATAAA
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
8 1 0.02
9 55 0.95
10 2 0.03
ACGTcount: A:0.44, C:0.20, G:0.09, T:0.27
Consensus pattern (9 bp):
CGAATTAAC
Found at i:120351666 original size:36 final size:37
Alignment explanation
Indices: 120351626--120351704 Score: 135
Period size: 36 Copynumber: 2.2 Consensus size: 37
120351616 TAAAATTAGT
*
120351626 CGAATTAAC-CAAATTAACCGAATTAACTGAATTACC
1 CGAATTAACTCAAATTAACCGAATTAACTGAATTAAC
120351662 CGAATT-ACTCAAATTAACCGAATTAACTGAATTAAC
1 CGAATTAACTCAAATTAACCGAATTAACTGAATTAAC
120351698 CGAATTA
1 CGAATTA
120351705 TTTGTATAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
35 2 0.05
36 38 0.95
ACGTcount: A:0.44, C:0.20, G:0.09, T:0.27
Consensus pattern (37 bp):
CGAATTAACTCAAATTAACCGAATTAACTGAATTAAC
Found at i:120351738 original size:6 final size:6
Alignment explanation
Indices: 120351727--120351765 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
120351717 TATATGTTTC
*
120351727 TTTATT TTTATT TTTAGTT TTAGATT TTTATT TTTATT T
1 TTTATT TTTATT TTTA-TT TT-TATT TTTATT TTTATT T
120351766 ATTAAATTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 20 0.69
7 8 0.28
8 1 0.03
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (6 bp):
TTTATT
Found at i:120369907 original size:30 final size:30
Alignment explanation
Indices: 120369838--120369911 Score: 89
Period size: 29 Copynumber: 2.5 Consensus size: 30
120369828 ATTGAGCTAA
* *
120369838 AAACTTTTATAAAAATGCTCAAATAAAGATG
1 AAACTTTT-TTAAAATGATCAAATAAAGATG
*
120369869 AAAC-TTTTTAAAATGATCAAATAAGAGCT-
1 AAACTTTTTTAAAATGATCAAATAA-AGATG
120369898 AAACTTTTTTAAAA
1 AAACTTTTTTAAAA
120369912 GCACTTGAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
29 19 0.50
30 15 0.39
31 4 0.11
ACGTcount: A:0.50, C:0.09, G:0.08, T:0.32
Consensus pattern (30 bp):
AAACTTTTTTAAAATGATCAAATAAAGATG
Found at i:120383266 original size:17 final size:17
Alignment explanation
Indices: 120383244--120383277 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
120383234 ATCCACTAAT
*
120383244 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
120383261 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
120383278 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:120387905 original size:17 final size:17
Alignment explanation
Indices: 120387883--120387916 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
120387873 ATCCACTAAT
*
120387883 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
120387900 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
120387917 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:120388213 original size:17 final size:18
Alignment explanation
Indices: 120388166--120388202 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
120388156 TTATTTTTAA
*
120388166 AAAATAATATAATATAAT
1 AAAATCATATAATATAAT
120388184 AAAATCATATAAT-TAAT
1 AAAATCATATAATATAAT
120388201 AA
1 AA
120388203 TTATATATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAATCATATAATATAAT
Found at i:120388229 original size:30 final size:30
Alignment explanation
Indices: 120388168--120388245 Score: 79
Period size: 30 Copynumber: 2.6 Consensus size: 30
120388158 ATTTTTAAAA
* *
120388168 AATAATATAATATAATAAAATCATATAATT
1 AATAATATAATATAATAAAAGCAAATAATT
120388198 AATAAT-TATATATAATAAAAGCAAA-ATATT
1 AATAATATA-ATATAATAAAAGCAAATA-ATT
* *
120388228 AATATATTTAATAAAATA
1 AATA-ATATAATATAATA
120388246 TTTAATTTCT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
29 3 0.07
30 27 0.66
31 9 0.22
32 2 0.05
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (30 bp):
AATAATATAATATAATAAAAGCAAATAATT
Found at i:120391315 original size:16 final size:17
Alignment explanation
Indices: 120391294--120391328 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
120391284 TTAGCACTCA
120391294 TTTAA-TATAAAATATT
1 TTTAATTATAAAATATT
*
120391310 TTTAATTATTAAATATT
1 TTTAATTATAAAATATT
120391327 TT
1 TT
120391329 ATGTAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTAATTATAAAATATT
Found at i:120403938 original size:18 final size:20
Alignment explanation
Indices: 120403919--120403955 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
120403909 TTTTTTCATA
120403919 TTAATTTTTAAAT-TTGTAT
1 TTAATTTTTAAATATTGTAT
*
120403938 TTCATTTTTAAATATTGT
1 TTAATTTTTAAATATTGT
120403956 TAAAAGGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (20 bp):
TTAATTTTTAAATATTGTAT
Found at i:120421435 original size:23 final size:21
Alignment explanation
Indices: 120421403--120421447 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
120421393 TTAAGAGATT
*
120421403 ATTATGTGTTCTATTTATTTTTA
1 ATTATGTGTT-T-TTAATTTTTA
*
120421426 ATTATTTGTTTTTAATTTTTA
1 ATTATGTGTTTTTAATTTTTA
120421447 A
1 A
120421448 ATTCACAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 10 0.50
22 1 0.05
23 9 0.45
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.67
Consensus pattern (21 bp):
ATTATGTGTTTTTAATTTTTA
Found at i:120421437 original size:14 final size:14
Alignment explanation
Indices: 120421414--120421446 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
120421404 TTATGTGTTC
120421414 TATTTATTTTTAAT
1 TATTTATTTTTAAT
*
120421428 TATTTGTTTTTAAT
1 TATTTATTTTTAAT
120421442 T-TTTA
1 TATTTA
120421447 AATTCACAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 3 0.18
14 14 0.82
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (14 bp):
TATTTATTTTTAAT
Found at i:120428880 original size:63 final size:63
Alignment explanation
Indices: 120428761--120428881 Score: 165
Period size: 63 Copynumber: 1.9 Consensus size: 63
120428751 GCACTTCTTC
* ** *
120428761 CATGTCCTGCTTGTTGAATGCATTTGAAAGGGAGTGCACTTGGTCCTGTCTCTATAATGTTGT
1 CATGTCCTGCTTGTTGAATGCATTTGAAAGGGAGTGCACTTGGTACTGAATATATAATGTTGT
*
120428824 CATGTCCTGCTTGTTGAATGCATTTGAAAGGGAGTG-AC-TGGTTAGTGAAATATATAAT
1 CATGTCCTGCTTGTTGAATGCATTTGAAAGGGAGTGCACTTGG-TACTG-AATATATAAT
120428882 TTCAACCTCT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
61 3 0.06
62 5 0.10
63 43 0.84
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.36
Consensus pattern (63 bp):
CATGTCCTGCTTGTTGAATGCATTTGAAAGGGAGTGCACTTGGTACTGAATATATAATGTTGT
Found at i:120432707 original size:59 final size:58
Alignment explanation
Indices: 120432527--120432810 Score: 150
Period size: 59 Copynumber: 4.7 Consensus size: 58
120432517 ATGATAAATT
* ** * *
120432527 ATATATTTTTATTAACTTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATT
1 ATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAATTATATTTTATAGTATC
* * * * * * * *
120432586 ATATATTATGATTTTAGAA-A-A-TTCATATAAGAATATTTAATATTAAGAATTTTATTA-AATC
1 ATATATT-TTA-ATTAAAATATATTTAATATTA-ATTATTTAA-ATT-A-TATTTTA-TAGTATC
120432647 ATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGTATC
1 ATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTATATTTTATAGTATC
* * ** * * * *
120432706 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATT-T-TATTATA-AAT
1 ATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTA-AATTATATTTTATAGTAT
*
120432768 T
58 C
*
120432769 ATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
1 ATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAA
120432811 ATATGATTAA
Statistics
Matches: 167, Mismatches: 37, Indels: 45
0.67 0.15 0.18
Matches are distributed among these distances:
56 12 0.07
57 6 0.04
58 13 0.08
59 39 0.23
60 11 0.07
61 30 0.18
62 15 0.09
63 12 0.07
64 7 0.04
65 6 0.04
66 16 0.10
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (58 bp):
ATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTATATTTTATAGTATC
Found at i:120432734 original size:120 final size:122
Alignment explanation
Indices: 120432520--120432810 Score: 462
Period size: 120 Copynumber: 2.4 Consensus size: 122
120432510 TAGTATGATG
* **
120432520 ATAAATTATATATTTTTATTAACTTATATTTAATAATAATTATGTTAAATTATATTTTATAGTAT
1 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTAT
* * *
120432585 TATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTA-T
66 CATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTATT
* *
120432641 -TAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATATTTTATAGTA
1 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTTTATAGTA
* *
120432704 TCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATT
65 TCATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTATT
120432762 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
1 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
120432811 ATATGATTAA
Statistics
Matches: 154, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
119 2 0.01
120 106 0.69
121 1 0.01
122 43 0.28
123 2 0.01
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (122 bp):
ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTAT
CATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTATT
Found at i:120432789 original size:18 final size:19
Alignment explanation
Indices: 120432754--120432790 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
120432744 ATTATTAAGA
120432754 ATTTTATTATAAATTATAT
1 ATTTTATTATAAATTATAT
120432773 ATTTTAATTA-AAA-TATAT
1 ATTTT-ATTATAAATTATAT
120432791 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.29
19 8 0.47
20 4 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTTATTATAAATTATAT
Found at i:120433020 original size:44 final size:45
Alignment explanation
Indices: 120432955--120433045 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
120432945 ACCTCTATTC
* * *
120432955 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
120432999 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
120433044 CA
1 CA
120433046 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:120433047 original size:16 final size:16
Alignment explanation
Indices: 120433026--120433094 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
120433016 GATTAGCTAT
120433026 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
120433042 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
120433059 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
120433075 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
120433091 TACA
1 TACA
120433095 GCGAACCAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:120433068 original size:33 final size:32
Alignment explanation
Indices: 120433026--120433094 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
120433016 GATTAGCTAT
120433026 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
120433059 TACACCTCTAATCCAATACACCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
120433091 TACA
1 TACA
120433095 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 8 0.22
33 28 0.78
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:120433405 original size:16 final size:16
Alignment explanation
Indices: 120433384--120433435 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
120433374 TTTGGTTCGC
120433384 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
120433400 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
120433416 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
120433432 TGTA
1 TGTA
120433436 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.29, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:120433482 original size:45 final size:44
Alignment explanation
Indices: 120433416--120433510 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
120433406 GGATTAGAGG
* *
120433416 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
120433461 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
120433505 TGTAAT
1 TGTAAT
120433511 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:120433680 original size:25 final size:25
Alignment explanation
Indices: 120433648--120433702 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
120433638 TAATTTAATC
*
120433648 ATAT-TTAAACATAATTATTATT-AA
1 ATATATTAAACAT-ATTATAATTAAA
*
120433672 ATATATTAAATATATTATAATTAAA
1 ATATATTAAACATATTATAATTAAA
120433697 ATATAT
1 ATATAT
120433703 AATTTAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 12 0.44
25 15 0.56
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
ATATATTAAACATATTATAATTAAA
Found at i:120433884 original size:47 final size:46
Alignment explanation
Indices: 120433833--120433993 Score: 140
Period size: 47 Copynumber: 3.6 Consensus size: 46
120433823 GATTTAATAA
120433833 AATTTAAAATAATTATAACTAATAAATTATCTTATATGAATTTGTAT
1 AATTTAAAATAATTATAA-TAATAAATTATCTTATATGAATTTGTAT
* * * * *
120433880 AATTTAAAATAATTATTATTACATATAAT-TTA-AT-AA---GATAT
1 AATTTAAAATAATTATAATAATAAATTATCTTATATGAATTTG-TAT
* * * *
120433921 AATTTCATAA-AATTATTGATAATAAATTTTCTTATATGAATTTATAT
1 AATTT-AAAATAATTA-TAATAATAAATTATCTTATATGAATTTGTAT
120433968 AATTTAAAATAATT-TATATAATAAAT
1 AATTTAAAATAATTATA-ATAATAAAT
120433994 CTATTGTATA
Statistics
Matches: 88, Mismatches: 15, Indels: 23
0.70 0.12 0.18
Matches are distributed among these distances:
40 1 0.01
41 13 0.15
42 11 0.12
43 5 0.06
44 4 0.05
45 6 0.07
46 19 0.22
47 29 0.33
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (46 bp):
AATTTAAAATAATTATAATAATAAATTATCTTATATGAATTTGTAT
Found at i:120440276 original size:17 final size:18
Alignment explanation
Indices: 120440243--120440276 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
120440233 TAGTCCTCAT
*
120440243 TTTAATTTTTGCCATTTA
1 TTTAATTTTTGCAATTTA
120440261 TTTAATTTTT-CAATTT
1 TTTAATTTTTGCAATTT
120440277 CAATTCACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.24, C:0.09, G:0.03, T:0.65
Consensus pattern (18 bp):
TTTAATTTTTGCAATTTA
Found at i:120443829 original size:19 final size:21
Alignment explanation
Indices: 120443783--120443830 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
120443773 TTATATGAAG
120443783 ATAAAAAAATTATTAAAAATT
1 ATAAAAAAATTATTAAAAATT
*
120443804 A-ATAAAATATT-TT-AAAATT
1 ATA-AAAAAATTATTAAAAATT
120443823 ATAAAAAA
1 ATAAAAAA
120443831 TCACGTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
19 11 0.48
20 4 0.17
21 8 0.35
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
ATAAAAAAATTATTAAAAATT
Found at i:120444258 original size:16 final size:16
Alignment explanation
Indices: 120444237--120444270 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
120444227 TTTAAGAATA
120444237 AATAATTAATATCAAT
1 AATAATTAATATCAAT
120444253 AATAATTAATATCAAT
1 AATAATTAATATCAAT
120444269 AA
1 AA
120444271 ATTATTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (16 bp):
AATAATTAATATCAAT
Found at i:120445266 original size:5 final size:5
Alignment explanation
Indices: 120445256--120445280 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
120445246 CCATTAAGCC
120445256 ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA
120445281 TTACAAACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:120451186 original size:22 final size:23
Alignment explanation
Indices: 120451152--120451196 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
120451142 ATACACGCAG
120451152 AATAATATGGAAACAA-TAATAA
1 AATAATATGGAAACAATTAATAA
120451174 AATATATAT-GAAACAATTAATAA
1 AATA-ATATGGAAACAATTAATAA
120451197 CGTTGTCCGC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.62, C:0.04, G:0.07, T:0.27
Consensus pattern (23 bp):
AATAATATGGAAACAATTAATAA
Found at i:120453305 original size:44 final size:43
Alignment explanation
Indices: 120453257--120453401 Score: 136
Period size: 44 Copynumber: 3.3 Consensus size: 43
120453247 ATCTGCTCCA
120453257 CTATTGCTTAGGGAGATAAGATCTGTAATCTTCAGTTTGTTACC
1 CTATTGCTTAGGGAGATAAGATCTGTAAT-TTCAGTTTGTTACC
* * * **
120453301 CTATTGCTTAGGGAGTTAAAGCCTGCTGT--TTTCTA-TCTG-CCCC
1 CTATTGCTTAGGGAGAT-AAG-AT-CTGTAATTTC-AGTTTGTTACC
*
120453344 ACTATTGCTTAGGGAGATAAGATCTGTAATTTTCAGCTTGTTACC
1 -CTATTGCTTAGGGAGATAAGATCTGTAA-TTTCAGTTTGTTACC
*
120453389 CTATTACTTAGGG
1 CTATTGCTTAGGG
120453402 GGTTAAAGCC
Statistics
Matches: 79, Mismatches: 12, Indels: 20
0.71 0.11 0.18
Matches are distributed among these distances:
41 4 0.05
42 1 0.01
43 6 0.08
44 56 0.71
45 7 0.09
46 1 0.01
47 4 0.05
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.38
Consensus pattern (43 bp):
CTATTGCTTAGGGAGATAAGATCTGTAATTTCAGTTTGTTACC
Found at i:120453309 original size:87 final size:87
Alignment explanation
Indices: 120453189--120453412 Score: 272
Period size: 88 Copynumber: 2.6 Consensus size: 87
120453179 GGAGAGCTAG
* * * * * ** *
120453189 GATCTATAAACTTTAGCCTGTTACCCTACTGCTTATGGGGTTACGGCTTG-TATCTTT-GATCTG
1 GATCTGTAATCTTCAGCTTGTTACCCTATTGCTTA-GGGGTTAAAGCCTGCTAT-TTTCGATCTG
*
120453252 CTCCACTATTGCTTAGGGAGATAA
64 CCCCACTATTGCTTAGGGAGATAA
* * *
120453276 GATCTGTAATCTTCAGTTTGTTACCCTATTGCTTAGGGAGTTAAAGCCTGCTGTTTTCTATCTGC
1 GATCTGTAATCTTCAGCTTGTTACCCTATTGCTTAGGG-GTTAAAGCCTGCTATTTTCGATCTGC
120453341 CCCACTATTGCTTAGGGAGATAA
65 CCCACTATTGCTTAGGGAGATAA
* *
120453364 GATCTGTAATTTTCAGCTTGTTACCCTATTACTTAGGGGGTTAAAGCCT
1 GATCTGTAATCTTCAGCTTGTTACCCTATTGCTTA-GGGGTTAAAGCCT
120453413 ACTAAAATTT
Statistics
Matches: 118, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
86 3 0.03
87 40 0.34
88 72 0.61
89 3 0.03
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.38
Consensus pattern (87 bp):
GATCTGTAATCTTCAGCTTGTTACCCTATTGCTTAGGGGTTAAAGCCTGCTATTTTCGATCTGCC
CCACTATTGCTTAGGGAGATAA
Found at i:120453356 original size:88 final size:88
Alignment explanation
Indices: 120453247--120453412 Score: 287
Period size: 88 Copynumber: 1.9 Consensus size: 88
120453237 TGTATCTTTG
* * *
120453247 ATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAATCTTCAGTTTGTTACCCTATTGCTTAG
1 ATCTGCCCCACTATTGCTTAGGGAGATAAGATCTGTAATCTTCAGCTTGTTACCCTATTACTTAG
120453312 GGAGTTAAAGCCTGCTGTTTTCT
66 GGAGTTAAAGCCTGCTGTTTTCT
*
120453335 ATCTGCCCCACTATTGCTTAGGGAGATAAGATCTGTAATTTTCAGCTTGTTACCCTATTACTTAG
1 ATCTGCCCCACTATTGCTTAGGGAGATAAGATCTGTAATCTTCAGCTTGTTACCCTATTACTTAG
*
120453400 GGGGTTAAAGCCT
66 GGAGTTAAAGCCT
120453413 ACTAAAATTT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 73 1.00
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (88 bp):
ATCTGCCCCACTATTGCTTAGGGAGATAAGATCTGTAATCTTCAGCTTGTTACCCTATTACTTAG
GGAGTTAAAGCCTGCTGTTTTCT
Found at i:120459624 original size:51 final size:51
Alignment explanation
Indices: 120459472--120459627 Score: 249
Period size: 51 Copynumber: 3.1 Consensus size: 51
120459462 ATCACATTTA
* *
120459472 TCACTTGTCACTGATCAGATTAGTGTAGCTAAAGCTACCACTTATCACTTA
1 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
* *
120459523 TCGCTTGTCACTAATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
1 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
* * *
120459574 TCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCACTTG
1 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
120459625 TCA
1 TCA
120459628 TTGATCAGAA
Statistics
Matches: 96, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 96 1.00
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (51 bp):
TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
Found at i:120463236 original size:58 final size:57
Alignment explanation
Indices: 120463169--120463291 Score: 159
Period size: 51 Copynumber: 2.2 Consensus size: 57
120463159 ATCTGATCAG
*
120463169 TGATAAGTGACAAGCGACAAGCGATAAGTGATAAGTGCTAGCTTTAGCTACACTTATC
1 TGATCAGTGACAAG-GACAAGCGATAAGTGATAAGTGCTAGCTTTAGCTACACTTATC
* * *
120463227 TGATCAGT------GACAAGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATC
1 TGATCAGTGACAAGGACAAGCGATAAGTGATAAGTGCTAGCTTTAGCTACACTTATC
120463278 TGATCAGTGACAAG
1 TGATCAGTGACAAG
120463292 TGATAAATGT
Statistics
Matches: 55, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
51 48 0.87
58 7 0.13
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (57 bp):
TGATCAGTGACAAGGACAAGCGATAAGTGATAAGTGCTAGCTTTAGCTACACTTATC
Found at i:120463266 original size:51 final size:51
Alignment explanation
Indices: 120463184--120463297 Score: 201
Period size: 51 Copynumber: 2.2 Consensus size: 51
120463174 AGTGACAAGC
*
120463184 GACAAGCGATAAGTGATAAGTGCTAGCTTTAGCTACACTTATCTGATCAGT
1 GACAAGTGATAAGTGATAAGTGCTAGCTTTAGCTACACTTATCTGATCAGT
* *
120463235 GACAAGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGT
1 GACAAGTGATAAGTGATAAGTGCTAGCTTTAGCTACACTTATCTGATCAGT
120463286 GACAAGTGATAA
1 GACAAGTGATAA
120463298 ATGTGATCAG
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (51 bp):
GACAAGTGATAAGTGATAAGTGCTAGCTTTAGCTACACTTATCTGATCAGT
Found at i:120469710 original size:22 final size:23
Alignment explanation
Indices: 120469676--120469720 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
120469666 ATACACGTAG
120469676 AATAATATGGAAACAA-TAATAA
1 AATAATATGGAAACAATTAATAA
120469698 AATATATAT-GAAACAATTAATAA
1 AATA-ATATGGAAACAATTAATAA
120469721 CATTGTGCGC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.62, C:0.04, G:0.07, T:0.27
Consensus pattern (23 bp):
AATAATATGGAAACAATTAATAA
Found at i:120475531 original size:22 final size:22
Alignment explanation
Indices: 120475506--120475548 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
120475496 TTAGCATATT
120475506 ATTTATTAATTAT-TTTCTTTTA
1 ATTTATTAATTATATTT-TTTTA
* *
120475528 ATTTTTTATTTATATTTTTTT
1 ATTTATTAATTATATTTTTTT
120475549 GTAAATATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (22 bp):
ATTTATTAATTATATTTTTTTA
Found at i:120475572 original size:12 final size:12
Alignment explanation
Indices: 120475555--120475595 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
120475545 TTTTGTAAAT
120475555 ATATTAAATTAA
1 ATATTAAATTAA
120475567 ATATT-AATATAA
1 ATATTAAAT-TAA
120475579 ATA-TAAATTAA
1 ATATTAAATTAA
120475590 TATATT
1 -ATATT
120475596 TTATTCATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
11 7 0.28
12 17 0.68
13 1 0.04
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
ATATTAAATTAA
Found at i:120476200 original size:84 final size:83
Alignment explanation
Indices: 120476039--120476254 Score: 263
Period size: 85 Copynumber: 2.6 Consensus size: 83
120476029 AAGCAAGGGA
* *
120476039 CTTGGT-CCCTTGGTTTGGTAAAATTCCTCTTTTAGTCCTCTAAATTTATAAGCTTGTCAGTTAA
1 CTTGGTCCCCTTGGTTTGGTAAAATTCCTC-TTTAGTCCTCAAAATTTATAAGCTTGTCAGCTAA
*
120476103 TTAAATGGTAAAAATAAAC
65 TTAAATGGAAAAAATAAAC
* * * *
120476122 TTTGGTCCCCTTGATTTGGTAAAATTCCTCATTTAGGTCCTCAAAATTTGTAATCTTGTCAGCTA
1 CTTGGTCCCCTTGGTTTGGTAAAATTCCTC-TTTA-GTCCTCAAAATTTATAAGCTTGTCAGCTA
* **
120476187 ATTCAATGGAAAAAATGTAC
64 ATTAAATGGAAAAAATAAAC
** *
120476207 CTTGAACCCATTGGTTTGGTAAAATTCCTCTTGTAGTCCTCCAAAATT
1 CTTGGTCCCCTTGGTTTGGTAAAATTCCTCTT-TAGTCCT-CAAAATT
120476255 GTTAACTTGA
Statistics
Matches: 113, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
83 5 0.04
84 33 0.29
85 75 0.66
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (83 bp):
CTTGGTCCCCTTGGTTTGGTAAAATTCCTCTTTAGTCCTCAAAATTTATAAGCTTGTCAGCTAAT
TAAATGGAAAAAATAAAC
Found at i:120477396 original size:29 final size:29
Alignment explanation
Indices: 120477364--120477426 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
120477354 TTGAATCAAT
*
120477364 TTTATA-ATTTTTTT-AATAATTTTAAATTG
1 TTTATACATTTTTTTAAAT-ATTTT-AATTA
120477393 TTTATACATTTTTTTAAATATTTTAATTA
1 TTTATACATTTTTTTAAATATTTTAATTA
120477422 TTTAT
1 TTTAT
120477427 GTAATTATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 15 0.48
30 13 0.42
31 3 0.10
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (29 bp):
TTTATACATTTTTTTAAATATTTTAATTA
Found at i:120483448 original size:17 final size:17
Alignment explanation
Indices: 120483426--120483461 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
120483416 ACATCATCAC
120483426 TTAAAAAATTATATAAT
1 TTAAAAAATTATATAAT
120483443 TTAAAAAATTATATAAT
1 TTAAAAAATTATATAAT
120483460 TT
1 TT
120483462 TTTAAGTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TTAAAAAATTATATAAT
Found at i:120489987 original size:21 final size:21
Alignment explanation
Indices: 120489963--120490007 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
120489953 AACTTTTGAT
120489963 ATTAAATATGATT-ATAGAAAA
1 ATTAAA-ATGATTAATAGAAAA
* *
120489984 ATTAAAATGGTTAATATAAAA
1 ATTAAAATGATTAATAGAAAA
120490005 ATT
1 ATT
120490008 TTAAAAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.36
Consensus pattern (21 bp):
ATTAAAATGATTAATAGAAAA
Found at i:120490883 original size:10 final size:10
Alignment explanation
Indices: 120490868--120490905 Score: 58
Period size: 10 Copynumber: 3.6 Consensus size: 10
120490858 CTTCGGCCAC
120490868 AAAAAAGAAA
1 AAAAAAGAAA
120490878 AAAAAAGAAA
1 AAAAAAGAAA
120490888 AAAAAAGGGAAA
1 AAAAAA--GAAA
120490900 AAAAAA
1 AAAAAA
120490906 CCTTTGTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 16 0.62
12 10 0.38
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:120496272 original size:3 final size:3
Alignment explanation
Indices: 120496257--120496290 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
120496247 ATTCAATCGG
*
120496257 TTA TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
120496291 AAAAAAACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:120500416 original size:188 final size:188
Alignment explanation
Indices: 120500083--120500432 Score: 585
Period size: 188 Copynumber: 1.9 Consensus size: 188
120500073 TCCAGTAAGG
* * *
120500083 AATCTGAAAGAACAACCTTTAGACAACTTAACCTCCGATTTGAGGAATAAAAGTAGAAGTCTATG
1 AATCTAAAAGAACAACCTTTAGACAACTTAACCTCCAATTCGAGGAATAAAAGTAGAAGTCTATG
* * *
120500148 ATCTAACTTGACCCTCAAGAGGTAAGTGACTGAGCAATACGGAAAAGGCCTTATCCAAGCATCGT
66 ATCTAACTTGACCCTAAAGAGGTAAGTGACTGAGCAATACAGAAAAGGCCTCATCCAAGCATCGT
*
120500213 TACCAATTGCCCTATCAAGTCTTTCATAAAGCCCGGGTATTCAATTCAGCCAATTAGA
131 TACCAATTGCCCTATCAAGTCATTCATAAAGCCCGGGTATTCAATTCAGCCAATTAGA
* *
120500271 AATCTAAAAGGAA-AACCTTTAGACAACTTAACCTCCAATTCGAGGGATAAAAGTAGAGGTCTAT
1 AATCTAAAA-GAACAACCTTTAGACAACTTAACCTCCAATTCGAGGAATAAAAGTAGAAGTCTAT
*
120500335 GATCTAACTTGACCCTAAAGAGGTAAGTGACTGAGCAATATAGAAAAGGCCTCATCCAAGCATCG
65 GATCTAACTTGACCCTAAAGAGGTAAGTGACTGAGCAATACAGAAAAGGCCTCATCCAAGCATCG
*
120500400 TTACCAATTTCCCTATCAAGTCATTCATAAAGC
130 TTACCAATTGCCCTATCAAGTCATTCATAAAGC
120500433 TCACCTCGAT
Statistics
Matches: 150, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
188 147 0.98
189 3 0.02
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (188 bp):
AATCTAAAAGAACAACCTTTAGACAACTTAACCTCCAATTCGAGGAATAAAAGTAGAAGTCTATG
ATCTAACTTGACCCTAAAGAGGTAAGTGACTGAGCAATACAGAAAAGGCCTCATCCAAGCATCGT
TACCAATTGCCCTATCAAGTCATTCATAAAGCCCGGGTATTCAATTCAGCCAATTAGA
Found at i:120502838 original size:47 final size:45
Alignment explanation
Indices: 120502734--120502946 Score: 184
Period size: 47 Copynumber: 4.6 Consensus size: 45
120502724 TACACGTGCT
** * * *
120502734 GATGCATGTCCCAGACATATCTTACACTAGCACAACTCT-TAG-TC
1 GATGCATGTCCCAGACACGTCTTACACTGGC-TATCTCTGTAGATC
* *
120502778 GATGCGTGTCCCAGACACGTCTTACACTGGCTATCTCTGTCAAGACC
1 GATGCATGTCCCAGACACGTCTTACACTGGCTATCTCTGT--AGATC
* *
120502825 GATGCATGTCCCAGACATGTCTTACATTGGCACTCATCTCTGT-G-TC
1 GATGCATGTCCCAGACACGTCTTACACTGG--CT-ATCTCTGTAGATC
* * * *
120502871 GATACCATGTCCCAGACATGGTCTTACACTGGCTATCAT-AGTATGATT
1 GAT-GCATGTCCCAGACA-CGTCTTACACTGGCTATC-TCTGTA-GATC
120502919 GATGCATGTCCCAGACACGTCTTACACT
1 GATGCATGTCCCAGACACGTCTTACACT
120502947 AACCCTCGTC
Statistics
Matches: 138, Mismatches: 18, Indels: 24
0.77 0.10 0.13
Matches are distributed among these distances:
43 5 0.04
44 28 0.20
45 5 0.04
46 19 0.14
47 56 0.41
48 15 0.11
49 2 0.01
50 8 0.06
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (45 bp):
GATGCATGTCCCAGACACGTCTTACACTGGCTATCTCTGTAGATC
Found at i:120502932 original size:94 final size:94
Alignment explanation
Indices: 120502690--120503040 Score: 326
Period size: 94 Copynumber: 3.8 Consensus size: 94
120502680 TGTTGATGCT
* * *
120502690 ATGTCCCAGACATGGTCTTACACTGGCTCTCATA-TACACGTG-CTGATGCATGTCCCAGACATA
1 ATGTCCCAGACATGGTCTTACACTGGCTATCATAGT-CA--TGACCGATGCATGTCCCAGACATG
* *
120502753 TCTTACACTAGCA--CAACTCT-TAGTCGATGC
63 TCTTACACTAGCACTCATCTCTGT-GTCGATCC
* * * *
120502783 GTGTCCCAGACA-CGTCTTACACTGGCTATC-TCTGTCAAGACCGATGCATGTCCCAGACATGTC
1 ATGTCCCAGACATGGTCTTACACTGGCTATCAT-AGTCATGACCGATGCATGTCCCAGACATGTC
* *
120502846 TTACATTGGCACTCATCTCTGTGTCGATACC
65 TTACACTAGCACTCATCTCTGTGTCGAT-CC
** *
120502877 ATGTCCCAGACATGGTCTTACACTGGCTATCATAGT-ATGATTGATGCATGTCCCAGACACGTCT
1 ATGTCCCAGACATGGTCTTACACTGGCTATCATAGTCATGACCGATGCATGTCCCAGACATGTCT
* * * *
120502941 TACACTAACCCTCGTCT-GGATGTCGATGCC
66 TACACTAGCACTCATCTCTG-TGTCGAT-CC
* * * * * * * *
120502971 ACGTCCCAAACATGGTCTTACGCTGGCTCTCATAAT-GTGGCCGAAGCATGTCCCAGACATGTCT
1 ATGTCCCAGACATGGTCTTACACTGGCTATCATAGTCATGACCGATGCATGTCCCAGACATGTCT
120503035 TACACT
66 TACACT
120503041 GGCGCACAAA
Statistics
Matches: 212, Mismatches: 36, Indels: 19
0.79 0.13 0.07
Matches are distributed among these distances:
90 1 0.00
91 31 0.15
92 18 0.08
93 25 0.12
94 117 0.55
95 19 0.09
96 1 0.00
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (94 bp):
ATGTCCCAGACATGGTCTTACACTGGCTATCATAGTCATGACCGATGCATGTCCCAGACATGTCT
TACACTAGCACTCATCTCTGTGTCGATCC
Found at i:120511381 original size:93 final size:92
Alignment explanation
Indices: 120511251--120511445 Score: 277
Period size: 93 Copynumber: 2.1 Consensus size: 92
120511241 TTGATTTTAG
* * *
120511251 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTA-TATAATTA
1 TAAATTCATATAAGAAAATTCTATTATCAAGAATTTTATGAAATTATATATCACTATTA-AATTA
* *
120511315 TATTTAAT-ATTAATTATTTTAAATTGTA
65 TATGTAATAATT-ATTATTTTAAATTATA
* *
120511343 TAAATTCATATAAGAAAATTGCTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTA
1 TAAATTCATATAAGAAAATT-CTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTA
120511408 TATGTAATAATTATTATTTTAAATTATA
65 TATGTAATAATTATTATTTTAAATTATA
*
120511436 CAAATTCATA
1 TAAATTCATA
120511446 AACTATAATC
Statistics
Matches: 92, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
92 19 0.21
93 68 0.74
94 5 0.05
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.46
Consensus pattern (92 bp):
TAAATTCATATAAGAAAATTCTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
ATGTAATAATTATTATTTTAAATTATA
Found at i:120511503 original size:17 final size:17
Alignment explanation
Indices: 120511478--120511511 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
120511468 ATAATTTTAA
*
120511478 ATTTTATTAAATCATAT
1 ATTTAATTAAATCATAT
120511495 ATTTAATTAAATCATAT
1 ATTTAATTAAATCATAT
120511512 TTAATATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAATCATAT
Found at i:120511513 original size:15 final size:16
Alignment explanation
Indices: 120511478--120511516 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
120511468 ATAATTTTAA
*
120511478 ATTTTATTAAATCATAT
1 ATTTAATTAAATCA-AT
120511495 ATTTAATTAAATC-AT
1 ATTTAATTAAATCAAT
120511510 ATTTAAT
1 ATTTAAT
120511517 ATTAATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.43
17 12 0.57
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (16 bp):
ATTTAATTAAATCAAT
Found at i:120511520 original size:17 final size:18
Alignment explanation
Indices: 120511482--120511521 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
120511472 TTTTAAATTT
*
120511482 TATTAAATCATATATTTA
1 TATTAAATCATATATTAA
120511500 -ATTAAATCATAT-TTAA
1 TATTAAATCATATATTAA
120511516 TATTAA
1 TATTAA
120511522 TTATTTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTAAATCATATATTAA
Found at i:120511636 original size:15 final size:15
Alignment explanation
Indices: 120511601--120511652 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
120511591 TTAAGAATTT
*
120511601 TATTAAATTAT-ATA
1 TATTTAATTATAATA
120511615 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
120511629 TATTTAATAATAAT-
1 TATTTAATTATAATA
120511643 TATGTTAATT
1 TAT-TTAATT
120511653 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:120511643 original size:120 final size:120
Alignment explanation
Indices: 120511477--120511768 Score: 450
Period size: 120 Copynumber: 2.4 Consensus size: 120
120511467 AATAATTTTA
* * *
120511477 AATTTTATTAAATCATATA-TTTAATTA-AATCATATTTAATATTAATTAT-TTGAAATTT-TCT
1 AATTTTATTAAATTATATATTTTAATTATAAT-ATATTTAATAATAATTATGTT--AATTTATAT
* *
120511538 TTTATAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAAT-TTTATTTATTAAG
63 TTTACAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATATTAATTT-TTAAG
120511596 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
*
120511661 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTTTTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATATTAATTTTTAAG
*
120511716 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAGTTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
120511769 TAAATATGAT
Statistics
Matches: 161, Mismatches: 7, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
119 23 0.14
120 127 0.79
121 11 0.07
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.51
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATATTAATTTTTAAG
Found at i:120511733 original size:59 final size:59
Alignment explanation
Indices: 120511550--120511733 Score: 148
Period size: 59 Copynumber: 3.1 Consensus size: 59
120511540 TATAGTATCA
* *
120511550 TATATTATGATTTGAGTAAATTCATAGAAGAATTTTATTTATTAAGAATTTTATTAAAT
1 TATATTATGATTTGAGTAAATTCATATAAGAATATTATTTATTAAGAATTTTATTAAAT
* * * * * * * *
120511609 TATA-TAT--TTTAATTATAATAT-ATTTAATAATAATTATGTTAATTTA-TATTTTA-CAGTAT
1 TATATTATGATTTGAGTA-AAT-TCATATAAGAAT-ATTAT-TT-ATTAAGAATTTTATTA-AAT
120511668 CATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTT-TTAAGAATTTTATTAAAT
1 --TATATTATGATTTGAGTAAATTCATATAAGAATATT-ATTTATTAAGAATTTTATTAAAT
120511729 TATAT
1 TATAT
120511734 ATTTTAATTA
Statistics
Matches: 92, Mismatches: 18, Indels: 30
0.66 0.13 0.21
Matches are distributed among these distances:
56 6 0.07
57 10 0.11
58 9 0.10
59 19 0.21
60 7 0.08
61 12 0.13
62 10 0.11
63 13 0.14
64 6 0.07
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.49
Consensus pattern (59 bp):
TATATTATGATTTGAGTAAATTCATATAAGAATATTATTTATTAAGAATTTTATTAAAT
Found at i:120511899 original size:18 final size:17
Alignment explanation
Indices: 120511871--120511905 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
120511861 ATTATTAAGA
*
120511871 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
120511888 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
120511906 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:120511939 original size:75 final size:75
Alignment explanation
Indices: 120511706--120511941 Score: 194
Period size: 75 Copynumber: 3.1 Consensus size: 75
120511696 TAAGAATATT
* * *
120511706 AATTTTTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAGTTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
120511771 AATATGATTA
66 AATATGATTA
* ** * * * * * * *
120511781 AATTATTTATTATTGATATTAATCTTATTAAAATTTAAATAACAATA-A--CAATAATAATT-TA
1 AATTATTAAGAATT-TTATTAA-ATTA-TATATTTTAATTAA-AATATATTTAATAATAATTATG
*** * *
120511842 CCAAAACA-AATTTA
62 TTTAAATATGA-TTA
120511856 TGCTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG
1 ----AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG
120511921 TTTAAATATGATTA
62 TTTAAATATGATTA
120511935 AATTATT
1 AATTATT
120511942 TATTATTGAT
Statistics
Matches: 114, Mismatches: 33, Indels: 28
0.65 0.19 0.16
Matches are distributed among these distances:
74 1 0.01
75 29 0.25
76 27 0.24
77 6 0.05
78 27 0.24
79 23 0.20
80 1 0.01
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (75 bp):
AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
AATATGATTA
Found at i:120511991 original size:154 final size:154
Alignment explanation
Indices: 120511705--120512018 Score: 524
Period size: 154 Copynumber: 2.0 Consensus size: 154
120511695 ATAAGAATAT
* * *
120511705 TAATTTTTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAGTTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
120511770 AAATATGATTAAATTATTTATTATTGATATTAATCTTATTAAAATTTAAATAACAATAAC-AATA
66 AAATATGATTAAATTATTTATTATTGATATTAATCTTATTAAAATTTAAATAACAATAACAAATA
*
120511834 ATAATTTACCAAAACAAATTTATGC
131 A-CATTTACCAAAACAAATTTATGC
120511859 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
120511924 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAAC-A
66 AAATATGATTAAATTATTTATTATTGAT-AT--TAATCTTATTAAAATTTAAATAACAATAACAA
*
120511988 ATAATCATTTACCAAAACAAATTTCTGC
128 ATAA-CATTTACCAAAACAAATTTATGC
120512016 TAA
1 TAA
120512019 GGGTATTCTA
Statistics
Matches: 152, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
154 90 0.59
155 2 0.01
157 60 0.39
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (154 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATATTAATCTTATTAAAATTTAAATAACAATAACAAATA
ACATTTACCAAAACAAATTTATGC
Found at i:120512159 original size:16 final size:16
Alignment explanation
Indices: 120512138--120512176 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
120512128 TTGATTTGCT
*
120512138 ATTACACAGCTTTTCC
1 ATTACACAGCTATTCC
**
120512154 ATTACACCTCTATTCC
1 ATTACACAGCTATTCC
120512170 ATTACAC
1 ATTACAC
120512177 CTCTAATCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.33, G:0.03, T:0.36
Consensus pattern (16 bp):
ATTACACAGCTATTCC
Found at i:120512177 original size:16 final size:16
Alignment explanation
Indices: 120512151--120512207 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
120512141 ACACAGCTTT
* *
120512151 TCCATTACACCTCTAT
1 TCCAATACACCTCTAA
*
120512167 TCCATTACACCTCTAA
1 TCCAATACACCTCTAA
120512183 TCCAATACACCTCTAA
1 TCCAATACACCTCTAA
120512199 TCCAATACA
1 TCCAATACA
120512208 GCGAACCAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (16 bp):
TCCAATACACCTCTAA
Found at i:120515484 original size:14 final size:14
Alignment explanation
Indices: 120515447--120515486 Score: 55
Period size: 14 Copynumber: 2.8 Consensus size: 14
120515437 TTATTTTTTA
120515447 TATTTTAATT-TTG
1 TATTTTAATTATTG
120515460 TCATGTTTAATTATTG
1 T-AT-TTTAATTATTG
120515476 TATTTTAATTA
1 TATTTTAATTA
120515487 ATTTTTAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 1 0.04
14 10 0.42
15 9 0.38
16 4 0.17
ACGTcount: A:0.28, C:0.03, G:0.07, T:0.62
Consensus pattern (14 bp):
TATTTTAATTATTG
Found at i:120521462 original size:18 final size:18
Alignment explanation
Indices: 120521441--120521480 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
120521431 CATAAAAATT
*
120521441 ATAAAAAGTTAT-TTAATA
1 ATAAAAA-TTATAATAATA
120521459 ATAAAAATTATAATAATA
1 ATAAAAATTATAATAATA
120521477 ATAA
1 ATAA
120521481 TCTATAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (18 bp):
ATAAAAATTATAATAATA
Done.