Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 118 of 161
Found at i:37307902 original size:4 final size:4
Alignment explanation
Indices: 37307893--37307924 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
37307883 TTTAAAATAA
37307893 TAAT TAAT TAAT TAAT TAAT TAAT ATAAT TAA
1 TAAT TAAT TAAT TAAT TAAT TAAT -TAAT TAA
37307925 CCTTAATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (4 bp):
TAAT
Found at i:37314612 original size:54 final size:54
Alignment explanation
Indices: 37314490--37314613 Score: 140
Period size: 54 Copynumber: 2.3 Consensus size: 54
37314480 TCGAAATTGG
* *
37314490 GACACACGGCCGTGTCCCAACCCGTGTCTCTATCTATAAAACTCACTGACTTCA
1 GACACACGGCCGTGTCCCAACCCGTGTCTCTATCCATAAAACTCACTAACTTCA
* * * * ** * *
37314544 GACACACGGTCGTGTCCCAGCCCGTGTCTCTTTCCGTGTAACTTACTAACTTGA
1 GACACACGGCCGTGTCCCAACCCGTGTCTCTATCCATAAAACTCACTAACTTCA
* *
37314598 GTCACATGGCCGTGTC
1 GACACACGGCCGTGTC
37314614 GCAGGCTGAA
Statistics
Matches: 57, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.21, C:0.33, G:0.19, T:0.27
Consensus pattern (54 bp):
GACACACGGCCGTGTCCCAACCCGTGTCTCTATCCATAAAACTCACTAACTTCA
Found at i:37315734 original size:75 final size:75
Alignment explanation
Indices: 37315654--37315894 Score: 306
Period size: 75 Copynumber: 3.2 Consensus size: 75
37315644 GTTTTGCGCG
* *
37315654 CAGCACTAGTTGGATAGACTGACATATATAATGATGTGCCCAGCACTACTCAGTTAAACTGATGA
1 CAGCACTAGTCGGATAGACTGACATATATAATGATGTGCCCAGCACTAGTCAGTTAAACTGATGA
** *
37315719 CGGTTGCGCC
66 AAGTTGCACC
* * * *
37315729 CAGCACTAGTCGAATAGACTGACATACATAATGATGTGCCCAACACTAGTCAGTTAAACTAATGA
1 CAGCACTAGTCGGATAGACTGACATATATAATGATGTGCCCAGCACTAGTCAGTTAAACTGATGA
*
37315794 AAGTTGCAAC
66 AAGTTGCACC
* * * * *
37315804 CAGCTCTAGTCGGGTAAACCG--ATGAGTATAAAGATGTGCCCAGCACTAGTCAGTTAAACTGAT
1 CAGCACTAGTCGGATAGACTGACAT-A-TATAATGATGTGCCCAGCACTAGTCAGTTAAACTGAT
37315867 GAAAGTTGCACC
64 GAAAGTTGCACC
*
37315879 CAGCGCTAGTCGGATA
1 CAGCACTAGTCGGATA
37315895 AACCGACAAT
Statistics
Matches: 142, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
73 2 0.01
74 1 0.01
75 139 0.98
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.23
Consensus pattern (75 bp):
CAGCACTAGTCGGATAGACTGACATATATAATGATGTGCCCAGCACTAGTCAGTTAAACTGATGA
AAGTTGCACC
Found at i:37315897 original size:35 final size:35
Alignment explanation
Indices: 37315767--37315889 Score: 102
Period size: 35 Copynumber: 3.4 Consensus size: 35
37315757 TAATGATGTG
* *
37315767 CCCAACACTAGTCAGTTAAACTAATGAAAGTTGCA
1 CCCAGCACTAGTCAGTTAAACTGATGAAAGTTGCA
* * * * * * **
37315802 ACCAGCTCTAGTCGGGTAAACCGATGAGTATAAAGATGTG
1 CCCAGCACTAGTCAGTTAAA-C--TGA-T-GAAAGTTGCA
37315842 CCCAGCACTAGTCAGTTAAACTGATGAAAGTTGCA
1 CCCAGCACTAGTCAGTTAAACTGATGAAAGTTGCA
*
37315877 CCCAGCGCTAGTC
1 CCCAGCACTAGTC
37315890 GGATAAACCG
Statistics
Matches: 64, Mismatches: 19, Indels: 10
0.69 0.20 0.11
Matches are distributed among these distances:
35 33 0.52
36 2 0.03
37 3 0.05
38 2 0.03
39 2 0.03
40 22 0.34
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.22
Consensus pattern (35 bp):
CCCAGCACTAGTCAGTTAAACTGATGAAAGTTGCA
Found at i:37321617 original size:26 final size:26
Alignment explanation
Indices: 37321588--37321648 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
37321578 AAAAGAGCCA
* *
37321588 TAATCAGGAAGTTCACAAAGAAATTT
1 TAATCAGGAAGCTCACAAAGAAACTT
* **
37321614 TAATCAGGAAGCTCACGAAGAGCCTT
1 TAATCAGGAAGCTCACAAAGAAACTT
37321640 TAATCAGGA
1 TAATCAGGA
37321649 GCTTCGGATA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.23
Consensus pattern (26 bp):
TAATCAGGAAGCTCACAAAGAAACTT
Found at i:37326406 original size:27 final size:26
Alignment explanation
Indices: 37326374--37326425 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
37326364 TCTCATCCAT
*
37326374 TTCTCTTATTCTCTCTCTTCCCATTTG
1 TTCTCTTATTCTCCCT-TTCCCATTTG
*
37326401 TTCTCTTATTTTCCCTTTCCCATTT
1 TTCTCTTATTCTCCCTTTCCCATTT
37326426 TCGATTACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 9 0.39
27 14 0.61
ACGTcount: A:0.08, C:0.33, G:0.02, T:0.58
Consensus pattern (26 bp):
TTCTCTTATTCTCCCTTTCCCATTTG
Found at i:37331904 original size:28 final size:28
Alignment explanation
Indices: 37331836--37332075 Score: 349
Period size: 28 Copynumber: 8.5 Consensus size: 28
37331826 CATGAGATTG
* * *
37331836 GCACTAAGTGTGCGGGTTTAAAT-TGTTCA
1 GCACTAAGTGTGCGAGTTTGATTATG-T-A
37331865 GCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
*
37331893 GCACTAAGTGTGCAAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATGT-A
37331922 GCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
*
37331950 GCACTAAGTGTGCAAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATGT-A
37331979 GCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
*
37332007 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
* *
37332035 GCACTAATTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
*
37332062 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
37332076 GACTTAATAT
Statistics
Matches: 197, Mismatches: 11, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
27 23 0.12
28 97 0.49
29 75 0.38
30 2 0.01
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.35
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATGTA
Found at i:37331925 original size:57 final size:57
Alignment explanation
Indices: 37331864--37332074 Score: 363
Period size: 57 Copynumber: 3.7 Consensus size: 57
37331854 TAAATTGTTC
37331864 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCAAGTTTGATTATGTA
1 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCAAGTTTGATTATGTA
37331921 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCAAGTTTGATTATGTA
1 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCAAGTTTGATTATGTA
* *
37331978 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATAT-
1 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCAAGTTTGATTATGTA
* * *
37332034 AGCACTAATTGTGCGAG-TTGATTATATAGCACTGAGTGTGC
1 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGC
37332075 GGACTTAATA
Statistics
Matches: 149, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
55 22 0.15
56 16 0.11
57 111 0.74
ACGTcount: A:0.27, C:0.11, G:0.27, T:0.35
Consensus pattern (57 bp):
AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCAAGTTTGATTATGTA
Found at i:37345696 original size:9 final size:9
Alignment explanation
Indices: 37345682--37345706 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
37345672 GATGATTACA
37345682 AGGAAGAGG
1 AGGAAGAGG
37345691 AGGAAGAGG
1 AGGAAGAGG
37345700 AGGAAGA
1 AGGAAGA
37345707 TAGGGAGCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (9 bp):
AGGAAGAGG
Found at i:37351218 original size:108 final size:108
Alignment explanation
Indices: 37351029--37351260 Score: 464
Period size: 108 Copynumber: 2.1 Consensus size: 108
37351019 AATACGATCC
37351029 CTTTTAACTTGAAAAAATTGAATAATAAAACACTCTTATTTCAAAGAAATAAAATGACACACCCA
1 CTTTTAACTTGAAAAAATTGAATAATAAAACACTCTTATTTCAAAGAAATAAAATGACACACCCA
37351094 GTGAGTTAGGGCGCCACATTTTAATCTTCGAAATTAAGTTTAT
66 GTGAGTTAGGGCGCCACATTTTAATCTTCGAAATTAAGTTTAT
37351137 CTTTTAACTTGAAAAAATTGAATAATAAAACACTCTTATTTCAAAGAAATAAAATGACACACCCA
1 CTTTTAACTTGAAAAAATTGAATAATAAAACACTCTTATTTCAAAGAAATAAAATGACACACCCA
37351202 GTGAGTTAGGGCGCCACATTTTAATCTTCGAAATTAAGTTTAT
66 GTGAGTTAGGGCGCCACATTTTAATCTTCGAAATTAAGTTTAT
37351245 CTTTTAACTTGAAAAA
1 CTTTTAACTTGAAAAA
37351261 CCCATGCATT
Statistics
Matches: 124, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
108 124 1.00
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.32
Consensus pattern (108 bp):
CTTTTAACTTGAAAAAATTGAATAATAAAACACTCTTATTTCAAAGAAATAAAATGACACACCCA
GTGAGTTAGGGCGCCACATTTTAATCTTCGAAATTAAGTTTAT
Found at i:37351685 original size:28 final size:28
Alignment explanation
Indices: 37351645--37351700 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
37351635 AACTTTTTAA
37351645 GCGAATAAAGCGCGATGGAATTTCAATG
1 GCGAATAAAGCGCGATGGAATTTCAATG
37351673 GCGAATAAAGCGCGATGGAATTTCAATG
1 GCGAATAAAGCGCGATGGAATTTCAATG
37351701 TACAATGCGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.36, C:0.14, G:0.29, T:0.21
Consensus pattern (28 bp):
GCGAATAAAGCGCGATGGAATTTCAATG
Found at i:37352396 original size:147 final size:147
Alignment explanation
Indices: 37352222--37352515 Score: 579
Period size: 147 Copynumber: 2.0 Consensus size: 147
37352212 AATATGAAAG
37352222 TATCAACACATAAATTTTTACATTTGGATTAAATACTAATGTACTAAAATTTTATTTAAAAACGT
1 TATCAACACATAAATTTTTACATTTGGATTAAATACTAATGTACTAAAATTTTATTTAAAAACGT
37352287 TTAATGAATAGGAAAACTAATGTATGATGAATTTAGATAATATTAATAACAATTTTTAAAAAATA
66 TTAATGAATAGGAAAACTAATGTATGATGAATTTAGATAATATTAATAACAATTTTTAAAAAATA
37352352 TTATATTGTATTTTTAA
131 TTATATTGTATTTTTAA
*
37352369 TATCAATACATAAATTTTTACATTTGGATTAAATACTAATGTACTAAAATTTTATTTAAAAACGT
1 TATCAACACATAAATTTTTACATTTGGATTAAATACTAATGTACTAAAATTTTATTTAAAAACGT
37352434 TTAATGAATAGGAAAACTAATGTATGATGAATTTAGATAATATTAATAACAATTTTTAAAAAATA
66 TTAATGAATAGGAAAACTAATGTATGATGAATTTAGATAATATTAATAACAATTTTTAAAAAATA
37352499 TTATATTGTATTTTTAA
131 TTATATTGTATTTTTAA
37352516 AAGTTGTATT
Statistics
Matches: 146, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
147 146 1.00
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.41
Consensus pattern (147 bp):
TATCAACACATAAATTTTTACATTTGGATTAAATACTAATGTACTAAAATTTTATTTAAAAACGT
TTAATGAATAGGAAAACTAATGTATGATGAATTTAGATAATATTAATAACAATTTTTAAAAAATA
TTATATTGTATTTTTAA
Found at i:37354342 original size:44 final size:42
Alignment explanation
Indices: 37354280--37354676 Score: 154
Period size: 44 Copynumber: 8.6 Consensus size: 42
37354270 GATTTACTCT
*
37354280 ACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCC
1 ACTGTAATC-TCAGGGAGATAAGAT--TTTATTTTAATCCGCTCC
* * * * ** *
37354324 ACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATATGCTTC
1 ACTGTAATCTCAGGGAGATAAGATT-TTA-TTTTAATCCGCTCC
* * *
37354368 GCTGTAGTCTCAGGGAGATAAGATTTT-TGGCTTCAATCTGATGCGATCTACTC
1 ACTGTAATCTCAGGGAGATAAGATTTTAT---TTTAATC-----CG--CT-C-C
*
37354421 TACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCC
1 -ACTGTAATC-TCAGGGAGATAAGAT--TTTATTTTAATCCGCTCC
* * * * * *
37354466 ACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCT
1 ACTGTAATCTCAGGGAGATAAGATT-TTA-TTTTAATCCGCTCC
* * *
37354510 ACTGTAATCTCAAGGAGATAAGATTTTTGGCTTCAATCTAATGCGATCTACTC
1 ACTGTAATCTCAGGGAGATAAGA-TTTT--ATT---T-TAATCCG--CT-C-C
*
37354563 TACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCC
1 -ACTGTAATC-TCAGGGAGATAAGAT--TTTATTTTAATCCGCTCC
* * * * *
37354608 ACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCC
1 ACTGTAATCTCAGGGAGATAAGATT-TTA-TTTTAATCCGCTCC
*
37354652 GCTGTAATCTCAGGGAGATAAGATT
1 ACTGTAATCTCAGGGAGATAAGATT
37354677 ACTAGCTTTA
Statistics
Matches: 264, Mismatches: 48, Indels: 82
0.67 0.12 0.21
Matches are distributed among these distances:
42 3 0.01
43 7 0.03
44 163 0.62
45 8 0.03
46 2 0.01
47 4 0.02
48 1 0.00
49 13 0.05
50 1 0.00
51 4 0.02
52 1 0.00
53 6 0.02
54 44 0.17
55 3 0.01
56 3 0.01
57 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (42 bp):
ACTGTAATCTCAGGGAGATAAGATTTTATTTTAATCCGCTCC
Found at i:37354677 original size:44 final size:44
Alignment explanation
Indices: 37354598--37354690 Score: 150
Period size: 44 Copynumber: 2.1 Consensus size: 44
37354588 CCTTTATTTT
* *
37354598 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
* *
37354642 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTACTAGCTTT
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
37354686 AATCT
1 AATCT
37354691 TCTCTACTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
Found at i:37354690 original size:142 final size:142
Alignment explanation
Indices: 37354266--37354676 Score: 750
Period size: 142 Copynumber: 2.9 Consensus size: 142
37354256 ATAAGACCTG
*
37354266 ATGCGATTTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAA
1 ATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAA
* * *
37354331 TCTCAGGGAGATAGGATTACTAGCTTCAATATGCTTCGCTGTAGTCTCAGGGAGATAAGATTTTT
66 TCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTTT
*
37354396 GGCTTCAATCTG
131 GGCTTCAATCTA
37354408 ATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAA
1 ATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAA
** *
37354473 TCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCTACTGTAATCTCAAGGAGATAAGATTTTT
66 TCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTTT
37354538 GGCTTCAATCTA
131 GGCTTCAATCTA
37354550 ATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAA
1 ATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAA
37354615 TCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
66 TCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
37354677 ACTAGCTTTA
Statistics
Matches: 258, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
142 258 1.00
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.33
Consensus pattern (142 bp):
ATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAA
TCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTTT
GGCTTCAATCTA
Found at i:37355698 original size:7 final size:7
Alignment explanation
Indices: 37355686--37355721 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
37355676 TTTATTAGTC
37355686 CATTAAT
1 CATTAAT
37355693 CATTAAT
1 CATTAAT
*
37355700 CATTATT
1 CATTAAT
37355707 CCATTAAT
1 -CATTAAT
37355715 CATTAAT
1 CATTAAT
37355722 AACAATTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 20 0.77
8 6 0.23
ACGTcount: A:0.39, C:0.17, G:0.00, T:0.44
Consensus pattern (7 bp):
CATTAAT
Found at i:37355709 original size:22 final size:22
Alignment explanation
Indices: 37355679--37355721 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
37355669 TAAAAGTTTT
37355679 ATTAGTCCATTAATCATTAATC
1 ATTAGTCCATTAATCATTAATC
*
37355701 ATTATTCCATTAATCATTAAT
1 ATTAGTCCATTAATCATTAAT
37355722 AACAATTTTT
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:0.37, C:0.16, G:0.02, T:0.44
Consensus pattern (22 bp):
ATTAGTCCATTAATCATTAATC
Found at i:37356517 original size:17 final size:17
Alignment explanation
Indices: 37356485--37356518 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
37356475 AGAACAGATC
*
37356485 AAAGAAAACAAGGAAAA
1 AAAGAAAAAAAGGAAAA
*
37356502 AAAGAAAAAAATGAAAA
1 AAAGAAAAAAAGGAAAA
37356519 CAAACTTTGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.79, C:0.03, G:0.15, T:0.03
Consensus pattern (17 bp):
AAAGAAAAAAAGGAAAA
Found at i:37362465 original size:6 final size:6
Alignment explanation
Indices: 37362454--37362480 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
37362444 ATATTTAAGT
37362454 ATTTTA ATTTTA ATTTTA ATTTTA ATT
1 ATTTTA ATTTTA ATTTTA ATTTTA ATT
37362481 ATTATTTTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
ATTTTA
Found at i:37375160 original size:40 final size:40
Alignment explanation
Indices: 37375116--37375377 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
37375106 GCTCCTCGTT
* *
37375116 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
37375156 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
37375196 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
37375235 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
37375274 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
37375313 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
37375354 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
37375378 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:37377837 original size:27 final size:26
Alignment explanation
Indices: 37377806--37377862 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 26
37377796 AGTATTTACA
* * *
37377806 TTAAGTTGCTTTGTATATTATTTTATT
1 TTAAGTTACTTTATATATTA-CTTATT
*
37377833 TTAAGTTATTTTATATATTACTTATT
1 TTAAGTTACTTTATATATTACTTATT
37377859 TTAA
1 TTAA
37377863 AACTAACCTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 9 0.35
27 17 0.65
ACGTcount: A:0.28, C:0.04, G:0.07, T:0.61
Consensus pattern (26 bp):
TTAAGTTACTTTATATATTACTTATT
Found at i:37380653 original size:23 final size:24
Alignment explanation
Indices: 37380626--37380671 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
37380616 GATACAGAAT
* *
37380626 CAGATAC-AATTCATAAATAGATA
1 CAGATACGAATGCATAAACAGATA
37380649 CAGATACGAATGCATAAACAGAT
1 CAGATACGAATGCATAAACAGAT
37380672 CCTACCCATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.50, C:0.15, G:0.13, T:0.22
Consensus pattern (24 bp):
CAGATACGAATGCATAAACAGATA
Found at i:37389226 original size:24 final size:23
Alignment explanation
Indices: 37389181--37389226 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
37389171 GATACAAAAT
* *
37389181 CAGATACAATTCATAAATAGATA
1 CAGATACAATGCATAAACAGATA
37389204 CAGATACGAATGCATAAACAGAT
1 CAGATAC-AATGCATAAACAGAT
37389227 CCTACCCCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.50, C:0.15, G:0.13, T:0.22
Consensus pattern (23 bp):
CAGATACAATGCATAAACAGATA
Found at i:37392881 original size:50 final size:50
Alignment explanation
Indices: 37392813--37392951 Score: 170
Period size: 50 Copynumber: 2.8 Consensus size: 50
37392803 TACTGTCAAT
* * * ** * *
37392813 GCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCAT
1 GCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATATCGGTGCCAAC
* * ** *
37392863 GCCATGTCTCTAACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATATCGGTGCCAAC
37392913 GCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATA
1 GCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATA
37392952 ATCTCAATGA
Statistics
Matches: 72, Mismatches: 17, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 72 1.00
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (50 bp):
GCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATATCGGTGCCAAC
Found at i:37395753 original size:37 final size:37
Alignment explanation
Indices: 37395712--37395785 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
37395702 CATAGAGAGA
* *
37395712 AAATGTACTTGTAATCACATCAGTGGAGGATGCCTCT
1 AAATGTACTCGTAATCACATCAGTAGAGGATGCCTCT
37395749 AAATGTACTCGTAATCACATCAGTAGAGGATGCCTCT
1 AAATGTACTCGTAATCACATCAGTAGAGGATGCCTCT
37395786 TCACGAGCAC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.28
Consensus pattern (37 bp):
AAATGTACTCGTAATCACATCAGTAGAGGATGCCTCT
Found at i:37399980 original size:43 final size:43
Alignment explanation
Indices: 37399932--37400019 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
37399922 AGGATATTGT
37399932 TTCCCTTTAAAGGGGGTATACGGCATTTTGCATAAATTTTAAA
1 TTCCCTTTAAAGGGGGTATACGGCATTTTGCATAAATTTTAAA
37399975 TTCCCTTTAAAGGGGGTATACGGCATTTTGCATAAATTTTAAA
1 TTCCCTTTAAAGGGGGTATACGGCATTTTGCATAAATTTTAAA
37400018 TT
1 TT
37400020 ATGTTTCAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.39
Consensus pattern (43 bp):
TTCCCTTTAAAGGGGGTATACGGCATTTTGCATAAATTTTAAA
Found at i:37404302 original size:24 final size:26
Alignment explanation
Indices: 37404275--37404327 Score: 83
Period size: 24 Copynumber: 2.1 Consensus size: 26
37404265 TTTAATATGA
37404275 TTGGTGAATGATTTT-A-TGATTAAT
1 TTGGTGAATGATTTTAAGTGATTAAT
*
37404299 TTGGTGGATGATTTTAAGTGATTAAT
1 TTGGTGAATGATTTTAAGTGATTAAT
37404325 TTG
1 TTG
37404328 ATAAAAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 14 0.54
25 1 0.04
26 11 0.42
ACGTcount: A:0.26, C:0.00, G:0.25, T:0.49
Consensus pattern (26 bp):
TTGGTGAATGATTTTAAGTGATTAAT
Found at i:37408987 original size:41 final size:41
Alignment explanation
Indices: 37408971--37409091 Score: 197
Period size: 41 Copynumber: 3.0 Consensus size: 41
37408961 TCGAAATGTA
* * *
37408971 TCACCGGTATTAAGCCTGCTAGACGTAAAGTCTGAATTATT
1 TCACCGGCATCAAGCCTGCTAGACATAAAGTCTGAATTATT
37409012 TCACCGGCATCAAGCCTGCTAGACATAAAGTCTGAATTATT
1 TCACCGGCATCAAGCCTGCTAGACATAAAGTCTGAATTATT
* *
37409053 TCACCGGCATCAAGCCTGCTAGACGTAAAGTCTGTATTA
1 TCACCGGCATCAAGCCTGCTAGACATAAAGTCTGAATTA
37409092 CATTCGATCA
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 75 1.00
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (41 bp):
TCACCGGCATCAAGCCTGCTAGACATAAAGTCTGAATTATT
Found at i:37415857 original size:43 final size:43
Alignment explanation
Indices: 37415765--37415880 Score: 121
Period size: 43 Copynumber: 2.7 Consensus size: 43
37415755 AAATTGTTTT
* * * * *
37415765 CATGTAAGACCACGTCTGGGACGTTGGCATCGATTTGTGTTTT
1 CATGTAAGACCACGTCTAGGACGTTGGCATCAATCTGTGGTTA
*
37415808 CGTGTAAGACC-CTGTCTAGGACAG-TGGCATCAATCTGTGGTTA
1 CATGTAAGACCAC-GTCTAGGAC-GTTGGCATCAATCTGTGGTTA
*
37415851 CATGTAAAACCACGTCT-GAGACGTTGGCAT
1 CATGTAAGACCACGTCTAG-GACGTTGGCAT
37415881 TGTACAAGCC
Statistics
Matches: 60, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
42 3 0.05
43 55 0.92
44 2 0.03
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (43 bp):
CATGTAAGACCACGTCTAGGACGTTGGCATCAATCTGTGGTTA
Found at i:37420003 original size:45 final size:44
Alignment explanation
Indices: 37419928--37420127 Score: 179
Period size: 45 Copynumber: 4.5 Consensus size: 44
37419918 TACACGGTGG
* * *
37419928 ATCAGCACACAGC-ACCACCCTTATAGTCAATAGTACTTGGTGAA
1 ATCAGCACATAGCAACCACCTTTATACTCAATAGTA-TTGGTGAA
* * * **
37419972 ATCAGCACATAACAACTACCTTTATACTCAATGGTACCGGGTGAA
1 ATCAGCACATAGCAACCACCTTTATACTCAATAGTA-TTGGTGAA
* * * *
37420017 ATCAGCACATAGCAACCACCTATATAAC-CATTGGTATCCGGTGAA
1 ATCAGCACATAGCAACCACCTTTAT-ACTCAATAGTAT-TGGTGAA
** * * *
37420062 ATCAGCACATAGCAACCACCTTTATTTTCATTAATATTGGGTGGA
1 ATCAGCACATAGCAACCACCTTTATACTCAATAGTATT-GGTGAA
*
37420107 ATCAGCACATAGCATCCACCT
1 ATCAGCACATAGCAACCACCT
37420128 ATATTTCCAA
Statistics
Matches: 129, Mismatches: 22, Indels: 9
0.81 0.14 0.06
Matches are distributed among these distances:
44 11 0.09
45 116 0.90
46 2 0.02
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (44 bp):
ATCAGCACATAGCAACCACCTTTATACTCAATAGTATTGGTGAA
Found at i:37420083 original size:90 final size:90
Alignment explanation
Indices: 37419966--37420147 Score: 238
Period size: 90 Copynumber: 2.0 Consensus size: 90
37419956 AATAGTACTT
* **
37419966 GGTGAAATCAGCACATAACAACTACCTTTATACTCAATGGTACCGGGTGAAATCAGCACATAGCA
1 GGTGAAATCAGCACATAACAACCACCTTTATACTCAATAATACCGGGTGAAATCAGCACATAGCA
*
37420031 ACCACCTATATAACCATTGGTATCC
66 ACCACCTATATAACCAATGGTATCC
* ** * ** *
37420056 GGTGAAATCAGCACATAGCAACCACCTTTATTTTCATTAATATTGGGTGGAATCAGCACATAGCA
1 GGTGAAATCAGCACATAACAACCACCTTTATACTCAATAATACCGGGTGAAATCAGCACATAGCA
* **
37420121 TCCACCTATATTTCCAATGGTATCC
66 ACCACCTATATAACCAATGGTATCC
37420146 GG
1 GG
37420148 CCCATTCCAA
Statistics
Matches: 78, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
90 78 1.00
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.26
Consensus pattern (90 bp):
GGTGAAATCAGCACATAACAACCACCTTTATACTCAATAATACCGGGTGAAATCAGCACATAGCA
ACCACCTATATAACCAATGGTATCC
Found at i:37423825 original size:59 final size:59
Alignment explanation
Indices: 37423733--37423858 Score: 234
Period size: 59 Copynumber: 2.1 Consensus size: 59
37423723 GAGTAATTAA
* *
37423733 TATAAGTTGATAAGAAAATGTGTATTAGTCCTAGTAAATTTGCTGAGAATAAGTTTATG
1 TATAATTTGATAAGAAAATGTGTATTAGTCCTAGTAAATTTGCTGAGAATAAGTTTAGG
37423792 TATAATTTGATAAGAAAATGTGTATTAGTCCTAGTAAATTTGCTGAGAATAAGTTTAGG
1 TATAATTTGATAAGAAAATGTGTATTAGTCCTAGTAAATTTGCTGAGAATAAGTTTAGG
37423851 TATAATTT
1 TATAATTT
37423859 ACATTACAAT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 65 1.00
ACGTcount: A:0.37, C:0.05, G:0.19, T:0.39
Consensus pattern (59 bp):
TATAATTTGATAAGAAAATGTGTATTAGTCCTAGTAAATTTGCTGAGAATAAGTTTAGG
Found at i:37425113 original size:107 final size:107
Alignment explanation
Indices: 37424922--37425133 Score: 379
Period size: 107 Copynumber: 2.0 Consensus size: 107
37424912 CTTTGAAGTT
* * *
37424922 TTAAGAGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTT
1 TTAAAAGGATACTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTC
*
37424987 CTCGATTTTCCAAACGCGAAATATTGCCTTATTTAGAAAATC
66 CTCGATTTTCCAAACGCGAAATATTACCTTATTTAGAAAATC
*
37425029 TTAAAAGGATACTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTC
1 TTAAAAGGATACTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTC
37425094 CTCGATTTTCCAAACGCGAAATATTACCTTATTTAGAAAA
66 CTCGATTTTCCAAACGCGAAATATTACCTTATTTAGAAAA
37425134 ACCTTCCTTT
Statistics
Matches: 100, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
107 100 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (107 bp):
TTAAAAGGATACTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTC
CTCGATTTTCCAAACGCGAAATATTACCTTATTTAGAAAATC
Found at i:37427475 original size:44 final size:44
Alignment explanation
Indices: 37427417--37427811 Score: 355
Period size: 44 Copynumber: 9.0 Consensus size: 44
37427407 AGATCTGTGG
* * *
37427417 TCTTCAATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGC-A
1 TCTTCGATCTACTTC-CCACCAATATAGGAAGACAAGATCTGCTA
* * * *
37427461 TCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTA
1 TCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCTGCTA
* * * * * * *
37427505 TCTTTGATCAACTTCACGCCAATAAATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCTGCTA
* * *
37427549 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTTC-A
1 TCTTCGATCTACTTC-CCACCAATATAGGAAGACAAGATCTGCTA
* * * * *
37427593 TCGTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTA
1 TCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCTGCTA
* * * * * * *
37427637 TCTTTGATCTACTTCACGCCAATAAATGAAGATAAGATCTGCTT
1 TCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCTGCTA
* * *
37427681 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACCAGATCTGC-A
1 TCTTCGATCTACTTC-CCACCAATATAGGAAGACAAGATCTGCTA
* * * * * *
37427725 TCGTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGTTA
1 TCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCTGCTA
* * * * *
37427769 TCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCT
1 TCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCTGCT
37427812 TTAATGACTT
Statistics
Matches: 269, Mismatches: 77, Indels: 10
0.76 0.22 0.03
Matches are distributed among these distances:
43 63 0.23
44 167 0.62
45 39 0.14
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (44 bp):
TCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCTGCTA
Found at i:37427643 original size:132 final size:132
Alignment explanation
Indices: 37427417--37427813 Score: 722
Period size: 132 Copynumber: 3.0 Consensus size: 132
37427407 AGATCTGTGG
* *
37427417 TCTTCAATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCA
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCA
*
37427482 ATATAGGAAGACAGGACCTGCTATCTTTGATCAACTTCACGCCAATAAATGAAGACAAGATCTGC
66 ATATAGGAAGACAGGACCTGCTATCTTTGATCTACTTCACGCCAATAAATGAAGACAAGATCTGC
37427547 TT
131 TT
*
37427549 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTTCATCGTCGATCCACTTCCTACCA
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCA
*
37427614 ATATAGGAAGACAGGACCTGCTATCTTTGATCTACTTCACGCCAATAAATGAAGATAAGATCTGC
66 ATATAGGAAGACAGGACCTGCTATCTTTGATCTACTTCACGCCAATAAATGAAGACAAGATCTGC
37427679 TT
131 TT
*
37427681 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACCAGATCTGCATCGTCGATCCACTTCCTACCA
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCA
* *
37427746 ATATAGGAAGACAGGACCTGTTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
66 ATATAGGAAGACAGGACCTGCTATCTTTGATCTACTTCACGCCAATAAATGAAGACAAGATCTGC
37427811 TT
131 TT
37427813 T
1 T
37427814 AATGACTTCA
Statistics
Matches: 255, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
132 255 1.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.27
Consensus pattern (132 bp):
TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCA
ATATAGGAAGACAGGACCTGCTATCTTTGATCTACTTCACGCCAATAAATGAAGACAAGATCTGC
TT
Found at i:37436193 original size:107 final size:107
Alignment explanation
Indices: 37436002--37436213 Score: 379
Period size: 107 Copynumber: 2.0 Consensus size: 107
37435992 CTTTGAAGTT
* * *
37436002 TTAAGAGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTT
1 TTAAAAGGATACTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTC
*
37436067 CTCGATTTTCCAAACGCGAAATATTGCCTTATTTAGAAAATC
66 CTCGATTTTCCAAACGCGAAATATTACCTTATTTAGAAAATC
*
37436109 TTAAAAGGATACTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTC
1 TTAAAAGGATACTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTC
37436174 CTCGATTTTCCAAACGCGAAATATTACCTTATTTAGAAAA
66 CTCGATTTTCCAAACGCGAAATATTACCTTATTTAGAAAA
37436214 ACCTTCCTTT
Statistics
Matches: 100, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
107 100 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (107 bp):
TTAAAAGGATACTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTC
CTCGATTTTCCAAACGCGAAATATTACCTTATTTAGAAAATC
Found at i:37441605 original size:23 final size:23
Alignment explanation
Indices: 37441579--37441625 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
37441569 TTAATGACTT
*
37441579 AAATAAAAACTTTT-GAATAATTC
1 AAATAAAAA-TTTTAAAATAATTC
37441602 AAATAAAAATTTTAAAATAATTC
1 AAATAAAAATTTTAAAATAATTC
37441625 A
1 A
37441626 TTCATCAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.34
Consensus pattern (23 bp):
AAATAAAAATTTTAAAATAATTC
Found at i:37448638 original size:80 final size:80
Alignment explanation
Indices: 37448505--37448665 Score: 313
Period size: 80 Copynumber: 2.0 Consensus size: 80
37448495 AAGCCATTTA
37448505 ACTTTGTCATTGACGTCCTTTCCACTCCAAACCTATTGAATTAAAAGTAAATTGATTAATTATAA
1 ACTTTGTCATTGACGTCCTTTCCACTCCAAACCTATTGAATTAAAAGTAAATTGATTAATTATAA
37448570 ATGTTATACGAAAAT
66 ATGTTATACGAAAAT
37448585 ACTTTGTCATTGACGTCCTTTCCACTCCAAACCTATTGAATTAAAAGTAAATTGATTAATTATAA
1 ACTTTGTCATTGACGTCCTTTCCACTCCAAACCTATTGAATTAAAAGTAAATTGATTAATTATAA
*
37448650 ATGTTATATGAAAAT
66 ATGTTATACGAAAAT
37448665 A
1 A
37448666 TTATTATTTG
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 80 1.00
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.37
Consensus pattern (80 bp):
ACTTTGTCATTGACGTCCTTTCCACTCCAAACCTATTGAATTAAAAGTAAATTGATTAATTATAA
ATGTTATACGAAAAT
Found at i:37453071 original size:27 final size:27
Alignment explanation
Indices: 37453010--37453077 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
37453000 CATAGTTTGT
* * **
37453010 CATGCATATCGTTCATTCAAAGTTCTC
1 CATGAATATCATTCATTCAAAGTTCGA
*
37453037 CATAAATATCATTCATTCAAAGTTCGA
1 CATGAATATCATTCATTCAAAGTTCGA
37453064 CATGAATATCATTC
1 CATGAATATCATTC
37453078 CTTTAGGTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.34, C:0.22, G:0.09, T:0.35
Consensus pattern (27 bp):
CATGAATATCATTCATTCAAAGTTCGA
Found at i:37462792 original size:32 final size:31
Alignment explanation
Indices: 37462747--37462842 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
37462737 CTTAGATAAT
37462747 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
37462778 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
37462810 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
37462841 TT
1 TT
37462843 GTAATTTGAC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:37465066 original size:16 final size:16
Alignment explanation
Indices: 37465045--37465076 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
37465035 CGTGTGAGAG
*
37465045 TTTGAGATTGACTAAA
1 TTTGAGATCGACTAAA
37465061 TTTGAGATCGACTAAA
1 TTTGAGATCGACTAAA
37465077 ATTCTAAGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.34
Consensus pattern (16 bp):
TTTGAGATCGACTAAA
Found at i:37466406 original size:27 final size:26
Alignment explanation
Indices: 37466344--37466546 Score: 203
Period size: 27 Copynumber: 7.6 Consensus size: 26
37466334 ACCTTTAAAC
37466344 TGTTATAAAATGACTATTATGCCCTCA
1 TGTTATAAAATGACTATTATGCCCT-A
* ** *
37466371 CGTGGTAAAATAACTATTATGCTCCTA
1 TGTTATAAAATGACTATTATGC-CCTA
*
37466398 TGTTATAAAATGACTATCATGTCCCTA
1 TGTTATAAAATGACTATTATG-CCCTA
**
37466425 TGTTATAAAATGGA-GGTTATGCCTCTA
1 TGTTATAAAAT-GACTATTATGCC-CTA
*
37466452 TGTTATAAAATGACGATTATGCCCTTA
1 TGTTATAAAATGACTATTATGCCC-TA
*
37466479 TGTTATAAAATAACTATTATGCCCCTA
1 TGTTATAAAATGACTATTATG-CCCTA
* **
37466506 TGTTATAAAATGATTATTACACCCCTA
1 TGTTATAAAATGACTATTA-TGCCCTA
*
37466533 AGTTA-AAAATGACT
1 TGTTATAAAATGACT
37466547 GTATGCTTAA
Statistics
Matches: 147, Mismatches: 21, Indels: 17
0.79 0.11 0.09
Matches are distributed among these distances:
26 13 0.09
27 125 0.85
28 9 0.06
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (26 bp):
TGTTATAAAATGACTATTATGCCCTA
Found at i:37466867 original size:34 final size:34
Alignment explanation
Indices: 37466819--37466885 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
37466809 GCATGTCTGA
* * *
37466819 ACTGTTACTGTCACTGTAATGGGCTAAGGCCCAT
1 ACTGATACTGTCACTATAATAGGCTAAGGCCCAT
*
37466853 ACTGATACTGTCACTATAATAGGTTAAGGCCCA
1 ACTGATACTGTCACTATAATAGGCTAAGGCCCA
37466886 ATTAAATTGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.28
Consensus pattern (34 bp):
ACTGATACTGTCACTATAATAGGCTAAGGCCCAT
Found at i:37470096 original size:43 final size:43
Alignment explanation
Indices: 37469939--37470125 Score: 198
Period size: 43 Copynumber: 4.3 Consensus size: 43
37469929 GGTCATGATC
* ** *
37469939 TTTAGCTGCGCTTTTTACAGAAATGCCGCTATAGACCATGA-T
1 TTTAGCGGCGCTTTTCCCAAAAATGCCGCTATAGACCATGACT
* * * *
37469981 CTTTAGCGGTGCTTTTCCC-ACAATCACCGCTATAGACCATGACC
1 -TTTAGCGGCGCTTTTCCCAAAAAT-GCCGCTATAGACCATGACT
* * * *
37470025 TTTAGCGGTGCTTTTCCCACAAACGCCGCTATATACCATGACT
1 TTTAGCGGCGCTTTTCCCAAAAATGCCGCTATAGACCATGACT
* * *
37470068 TTTAGCGGCGCTTTTCCCAAAAATGCCGCAAAAGGCCATGACT
1 TTTAGCGGCGCTTTTCCCAAAAATGCCGCTATAGACCATGACT
*
37470111 TTTAGCGACGCTTTT
1 TTTAGCGGCGCTTTT
37470126 TTAAAAAATG
Statistics
Matches: 119, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
42 3 0.03
43 114 0.96
44 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGCTTTTCCCAAAAATGCCGCTATAGACCATGACT
Found at i:37470107 original size:86 final size:86
Alignment explanation
Indices: 37469919--37470125 Score: 229
Period size: 86 Copynumber: 2.4 Consensus size: 86
37469909 TCTCCACAAA
* * * * * *
37469919 CGCCGCTAAAGGTCATGATCTTTAGCTGCGCTTTTTACAGAAATGCCGCTATAGACCATGATCTT
1 CGCCGCTAAAGGCCATGACCTTTAGCGGCGCTTTTCACACAAACGCCGCTATAGACCATGATCTT
* *
37469984 TAGCGGTGCTTTTCCCACAAT
66 TAGCGGCGCTTTTCCCAAAAT
* * * * * *
37470005 CACCGCTATAGACCATGACCTTTAGCGGTGCTTTTCCCACAAACGCCGCTATATACCATGA-CTT
1 CGCCGCTAAAGGCCATGACCTTTAGCGGCGCTTTTCACACAAACGCCGCTATAGACCATGATC-T
37470069 TTAGCGGCGCTTTTCCCAAAAAT
65 TTAGCGGCGCTTTTCCC-AAAAT
* * *
37470092 -GCCGCAAAAGGCCATGACTTTTAGCGACGCTTTT
1 CGCCGCTAAAGGCCATGACCTTTAGCGGCGCTTTT
37470126 TTAAAAAATG
Statistics
Matches: 98, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
85 1 0.01
86 93 0.95
87 4 0.04
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (86 bp):
CGCCGCTAAAGGCCATGACCTTTAGCGGCGCTTTTCACACAAACGCCGCTATAGACCATGATCTT
TAGCGGCGCTTTTCCCAAAAT
Found at i:37470493 original size:21 final size:21
Alignment explanation
Indices: 37470448--37470496 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
37470438 TCTGCTCTGC
* * *
37470448 TCTGCTTCCCTCGCTGCTGCC
1 TCTGCTTCCCTCGCTACCGCA
*
37470469 TCTGCTTCCCTCGCTACCGTA
1 TCTGCTTCCCTCGCTACCGCA
37470490 TCTGCTT
1 TCTGCTT
37470497 TAAGCTGCAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.04, C:0.43, G:0.16, T:0.37
Consensus pattern (21 bp):
TCTGCTTCCCTCGCTACCGCA
Found at i:37470630 original size:66 final size:66
Alignment explanation
Indices: 37470493--37470636 Score: 191
Period size: 66 Copynumber: 2.2 Consensus size: 66
37470483 TACCGTATCT
* * *
37470493 GCTTTAAGCTGCAGCTGGAGTTCTTCATACTTCCTTTGAACCTCAGCTTCTCTCGCTGCTGCATC
1 GCTTTAAGTTGTAGCTGGAGTTCTTCATACTTCCTTTGAACCTCAGCTTCTCTCGATGCTGCATC
*
37470558 T
66 C
* * * * *
37470559 ACTTTAAGTTGTAGCTGGAGTTTTTCATATCTT-TTTTGAACCTCAGCTTCTTTCGATGCTGCCT
1 GCTTTAAGTTGTAGCTGGAGTTCTTCATA-CTTCCTTTGAACCTCAGCTTCTCTCGATGCTGCAT
37470623 CC
65 CC
37470625 GCTTTAAGTTGT
1 GCTTTAAGTTGT
37470637 GTAATTTTCT
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
66 64 0.96
67 3 0.04
ACGTcount: A:0.16, C:0.25, G:0.18, T:0.41
Consensus pattern (66 bp):
GCTTTAAGTTGTAGCTGGAGTTCTTCATACTTCCTTTGAACCTCAGCTTCTCTCGATGCTGCATC
C
Found at i:37472315 original size:14 final size:14
Alignment explanation
Indices: 37472272--37472315 Score: 56
Period size: 13 Copynumber: 3.1 Consensus size: 14
37472262 TTATTTGCAA
37472272 CAGAAAATTTACC-TT
1 CAGAAAA-TT-CCATT
37472287 CAGAAAATT-CATT
1 CAGAAAATTCCATT
37472300 CAGAAAATTCCATT
1 CAGAAAATTCCATT
37472314 CA
1 CA
37472316 TTCAATCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 1 0.04
13 11 0.41
14 8 0.30
15 7 0.26
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (14 bp):
CAGAAAATTCCATT
Found at i:37474004 original size:47 final size:48
Alignment explanation
Indices: 37473946--37474044 Score: 137
Period size: 47 Copynumber: 2.1 Consensus size: 48
37473936 CATACTTTTG
* * * ** *
37473946 TTTAGGTAATATTTATAAAATTTAGATAAAATTATCAATTTTAGT-TT
1 TTTAAGTAATATTTATAAAAATTAGACAAAATTAAAAATTCTAGTGTT
37473993 TTTAAGTAATATTTATAAAAATTAGACAAAATTAAAAATTCTAGTGTT
1 TTTAAGTAATATTTATAAAAATTAGACAAAATTAAAAATTCTAGTGTT
37474041 TTTA
1 TTTA
37474045 TTTCATTTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
47 39 0.87
48 6 0.13
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.45
Consensus pattern (48 bp):
TTTAAGTAATATTTATAAAAATTAGACAAAATTAAAAATTCTAGTGTT
Found at i:37474815 original size:14 final size:14
Alignment explanation
Indices: 37474796--37474829 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
37474786 AACCCCAAAT
37474796 CCCTAAC-TCTTAAC
1 CCCTAACGTC-TAAC
37474810 CCCTAACGTCTAAC
1 CCCTAACGTCTAAC
37474824 CCCTAA
1 CCCTAA
37474830 ACCCCTAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 17 0.89
15 2 0.11
ACGTcount: A:0.29, C:0.44, G:0.03, T:0.24
Consensus pattern (14 bp):
CCCTAACGTCTAAC
Found at i:37474852 original size:22 final size:22
Alignment explanation
Indices: 37474807--37474852 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
37474797 CCTAACTCTT
** *
37474807 AACCCCTAACGTCTAACCCCTA
1 AACCCCTAACACCTAAACCCTA
*
37474829 AACCCCTAACACCTAAACCTTA
1 AACCCCTAACACCTAAACCCTA
37474851 AA
1 AA
37474853 TCCCAACCCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.39, C:0.41, G:0.02, T:0.17
Consensus pattern (22 bp):
AACCCCTAACACCTAAACCCTA
Found at i:37475639 original size:41 final size:41
Alignment explanation
Indices: 37475606--37475988 Score: 471
Period size: 41 Copynumber: 9.4 Consensus size: 41
37475596 GCGCTTTAAC
*
37475606 AAAAACGCCGCTAAAACCCAGACCATTAGCGGCGCTTTTAA
1 AAAAACGCCGCTAAAACCCAGACCATTAGCGGCGCTTTTTA
* * * * *
37475647 AAAAATGCCGTTAAAACCAAGACCATTAGCGACTCTTTTTA
1 AAAAACGCCGCTAAAACCCAGACCATTAGCGGCGCTTTTTA
* * * *
37475688 AAACACG-TGGTAAAACCCAGACCATTAGCGCCGCTTTTTA
1 AAAAACGCCGCTAAAACCCAGACCATTAGCGGCGCTTTTTA
* * *
37475728 AAAAACGCCGCTAAAACTCAGACCATTAGCGGCTCTTTTAA
1 AAAAACGCCGCTAAAACCCAGACCATTAGCGGCGCTTTTTA
* * * *
37475769 AAAAACGCCGCTACAACCAAGACCATTAGTGGTGCTTTTTA
1 AAAAACGCCGCTAAAACCCAGACCATTAGCGGCGCTTTTTA
** * *
37475810 AAAAACGTTGCTAAAACCCAGAGCATTAGAGGCGCTTTTTA
1 AAAAACGCCGCTAAAACCCAGACCATTAGCGGCGCTTTTTA
* * *
37475851 AAAAACGCAGCTAAAACCCAGAGCATTAGCGACGCTTTTTA
1 AAAAACGCCGCTAAAACCCAGACCATTAGCGGCGCTTTTTA
* *
37475892 AAAAACGCCGCTAAAACCCAGACCATTAGCAGCGCTTTTAA
1 AAAAACGCCGCTAAAACCCAGACCATTAGCGGCGCTTTTTA
* * * *
37475933 AAAAATGCCGCTAAAACCCAGAGCATTAGCGGCGCTTTCTC
1 AAAAACGCCGCTAAAACCCAGACCATTAGCGGCGCTTTTTA
* *
37475974 ATAAACGCCACTAAA
1 AAAAACGCCGCTAAA
37475989 GCCACCGAAT
Statistics
Matches: 289, Mismatches: 52, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
40 34 0.12
41 255 0.88
ACGTcount: A:0.37, C:0.26, G:0.16, T:0.21
Consensus pattern (41 bp):
AAAAACGCCGCTAAAACCCAGACCATTAGCGGCGCTTTTTA
Found at i:37481099 original size:24 final size:22
Alignment explanation
Indices: 37481072--37481126 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 22
37481062 CTTTCTAGCC
37481072 TTAATTTATTGTTTCTTGTTTATT
1 TTAATTTATTG-TTCTTG-TTATT
*
37481096 TTAATTTA--GTTCTTGTTGTT
1 TTAATTTATTGTTCTTGTTATT
*
37481116 TTGATTTATTG
1 TTAATTTATTG
37481127 ATTTTATTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
20 11 0.41
21 6 0.22
22 2 0.07
24 8 0.30
ACGTcount: A:0.16, C:0.04, G:0.13, T:0.67
Consensus pattern (22 bp):
TTAATTTATTGTTCTTGTTATT
Found at i:37498448 original size:47 final size:47
Alignment explanation
Indices: 37498385--37498654 Score: 504
Period size: 47 Copynumber: 5.7 Consensus size: 47
37498375 ATGATAGTAT
37498385 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
37498432 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
37498479 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
37498526 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
37498573 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
37498622 GGCCTAATGGCCGATGTGATGAATGTGATAAGT
1 GGCCTAATGGCCGATGTGATGAATGTGA-AAGT
37498655 CCCGAAGGGC
Statistics
Matches: 219, Mismatches: 1, Indels: 3
0.98 0.00 0.01
Matches are distributed among these distances:
47 174 0.79
49 41 0.19
50 4 0.02
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.30
Consensus pattern (47 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
Found at i:37498829 original size:37 final size:37
Alignment explanation
Indices: 37498773--37498851 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
37498763 CTGAGCTCTA
* * *
37498773 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
37498810 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
37498847 AAGAC
1 AAGAC
37498852 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:37502032 original size:134 final size:135
Alignment explanation
Indices: 37501715--37502129 Score: 645
Period size: 138 Copynumber: 3.0 Consensus size: 135
37501705 TAGAAAAATG
* *
37501715 AATTATATTCTTTCCAAAAGAGTATTAATTTCCATATCTTTTATATTTTGACCAAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTTCATATCTTTTATATTTTGACC--AA-TAATTAA
* *
37501780 TATAACTATTTATATTAATAAATTTAGTAAAATATATACAATTAATATTTTGTATGACTCAAATT
63 TATAACTATTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
37501845 CATATATT
128 CATATATT
* *
37501853 AATTATATTCTTTCCAAAAGAATATTAATTCTCATTTCTTTTATATTTTGACCAA-AATTAATAT
1 AATTATATTCTTTCCAAAAGAATATTAATTTTCATATCTTTTATATTTTGACCAATAATTAATAT
* *
37501917 AACTTTTTATATTAATAAATTCGGTAAAATATATACAATTAAATATTTTGTATGAATCAAATTCA
66 AACTATTTATATTAATAAATTTGGTAAAATATATACAATT-AATATTTTGTATGAATCAAATTCA
37501982 TATATT
130 TATATT
* *
37501988 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGT-TTTTATATTTTGATCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTTCATATCTTTTATATTTTGA-C-CAA-TAATTAA
* *
37502052 TATAACTATTTATATTAATAAATTTGGTAAAATATATACAACTAATATTTTGTATGAATCTAATT
63 TATAACTATTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
37502117 CATATATT
128 CATATATT
37502125 AATTA
1 AATTA
37502130 AATCTATGTT
Statistics
Matches: 257, Mismatches: 15, Indels: 11
0.91 0.05 0.04
Matches are distributed among these distances:
134 59 0.23
135 65 0.25
136 4 0.02
137 34 0.13
138 95 0.37
ACGTcount: A:0.41, C:0.09, G:0.05, T:0.46
Consensus pattern (135 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTTCATATCTTTTATATTTTGACCAATAATTAATAT
AACTATTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCAT
ATATT
Found at i:37502214 original size:17 final size:17
Alignment explanation
Indices: 37502192--37502224 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
37502182 TTGTCTATCA
37502192 AATTAAATTAATTCAAC
1 AATTAAATTAATTCAAC
*
37502209 AATTAATTTAATTCAA
1 AATTAAATTAATTCAA
37502225 GTGACAACTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (17 bp):
AATTAAATTAATTCAAC
Found at i:37504053 original size:17 final size:17
Alignment explanation
Indices: 37504031--37504063 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
37504021 TCCCAGATTT
37504031 TGATACCCATATCTTTC
1 TGATACCCATATCTTTC
37504048 TGATACCCATATCTTT
1 TGATACCCATATCTTT
37504064 GACTTTCTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.27, G:0.06, T:0.42
Consensus pattern (17 bp):
TGATACCCATATCTTTC
Found at i:37507138 original size:17 final size:17
Alignment explanation
Indices: 37507113--37507165 Score: 79
Period size: 17 Copynumber: 3.1 Consensus size: 17
37507103 AAATCCCAGA
37507113 TTTTGATACCCATATCT
1 TTTTGATACCCATATCT
* *
37507130 TTTTTATACTCATATCT
1 TTTTGATACCCATATCT
*
37507147 TTCTGATACCCATATCT
1 TTTTGATACCCATATCT
37507164 TT
1 TT
37507166 GACTTTCTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.04, T:0.51
Consensus pattern (17 bp):
TTTTGATACCCATATCT
Found at i:37522652 original size:35 final size:35
Alignment explanation
Indices: 37522624--37522695 Score: 101
Period size: 35 Copynumber: 2.1 Consensus size: 35
37522614 ACAACATCGT
*
37522624 TACTTTATTCATGTAACGTC-CTGCCACAACACCAA
1 TACTTCATTCATGTAACGTCTC-GCCACAACACCAA
* *
37522659 TACTTCATTCATTTAACGTCTCGCCACAACGCCAA
1 TACTTCATTCATGTAACGTCTCGCCACAACACCAA
37522694 TA
1 TA
37522696 TTTTCACAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 32 0.97
36 1 0.03
ACGTcount: A:0.31, C:0.32, G:0.08, T:0.29
Consensus pattern (35 bp):
TACTTCATTCATGTAACGTCTCGCCACAACACCAA
Found at i:37527587 original size:16 final size:17
Alignment explanation
Indices: 37527566--37527598 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
37527556 AAGAAATAAA
37527566 GAATTGG-CTTATGTTT
1 GAATTGGTCTTATGTTT
*
37527582 GAATTGGTGTTATGTTT
1 GAATTGGTCTTATGTTT
37527599 AGCTTGAGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.18, C:0.03, G:0.27, T:0.52
Consensus pattern (17 bp):
GAATTGGTCTTATGTTT
Found at i:37528120 original size:14 final size:14
Alignment explanation
Indices: 37528084--37528126 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
37528074 GCTCTTTCCT
*
37528084 TTTTCAAGTCTCATC
1 TTTTCAAG-CTCACC
* *
37528099 TCTCCAAGCTCACC
1 TTTTCAAGCTCACC
37528113 TTTTCAAGCTCACC
1 TTTTCAAGCTCACC
37528127 AACAATAATT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
14 17 0.74
15 6 0.26
ACGTcount: A:0.21, C:0.37, G:0.07, T:0.35
Consensus pattern (14 bp):
TTTTCAAGCTCACC
Found at i:37533118 original size:35 final size:35
Alignment explanation
Indices: 37533079--37533199 Score: 106
Period size: 35 Copynumber: 3.4 Consensus size: 35
37533069 TTATGATATT
37533079 AATTCATTTAATAAAGTTTTTTTTGACAAAATCTA
1 AATTCATTTAATAAAGTTTTTTTTGACAAAATCTA
* ** *
37533114 AATTCTAATTT-AT-AAGTTTTTATGTATTATGATAT-T-
1 AATTC--ATTTAATAAAGTTTTT-T-T-TGACAAAATCTA
* * *
37533150 TATTCATTCAATAAAGTTTTTATTGACAAAATCTA
1 AATTCATTTAATAAAGTTTTTTTTGACAAAATCTA
37533185 AATTCATTTAATAAA
1 AATTCATTTAATAAA
37533200 TTTAATTAAA
Statistics
Matches: 64, Mismatches: 13, Indels: 18
0.67 0.14 0.19
Matches are distributed among these distances:
33 5 0.08
34 5 0.08
35 28 0.44
36 15 0.23
37 6 0.09
38 5 0.08
ACGTcount: A:0.40, C:0.07, G:0.06, T:0.47
Consensus pattern (35 bp):
AATTCATTTAATAAAGTTTTTTTTGACAAAATCTA
Found at i:37534705 original size:24 final size:24
Alignment explanation
Indices: 37534678--37534731 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
37534668 ACTTTTCATT
*
37534678 TTTCATCTTTCTTAATTCTTTCTC
1 TTTCATCTTTCTTAATTCTTTATC
*
37534702 TTTCATTTTTCTTAATTCTTTATC
1 TTTCATCTTTCTTAATTCTTTATC
37534726 TTTCAT
1 TTTCAT
37534732 ATTCTTATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.15, C:0.20, G:0.00, T:0.65
Consensus pattern (24 bp):
TTTCATCTTTCTTAATTCTTTATC
Found at i:37534721 original size:31 final size:30
Alignment explanation
Indices: 37534671--37534729 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
37534661 ATAATCAACT
**
37534671 TTTCATTTTTCATCTTTCTTAATTCTTTCTC
1 TTTCATTTTTCATAATTCTTAA-TCTTTCTC
* *
37534702 TTTCATTTTTCTTAATTCTTTATCTTTC
1 TTTCATTTTTCATAATTCTTAATCTTTC
37534730 ATATTCTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 6 0.25
31 18 0.75
ACGTcount: A:0.14, C:0.20, G:0.00, T:0.66
Consensus pattern (30 bp):
TTTCATTTTTCATAATTCTTAATCTTTCTC
Found at i:37538230 original size:21 final size:21
Alignment explanation
Indices: 37538204--37538244 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
37538194 TGTACTAAGC
*
37538204 AAATGAGACGGGTAAGAAAAT
1 AAATGAAACGGGTAAGAAAAT
37538225 AAATGAAACGGGTAAGAAAA
1 AAATGAAACGGGTAAGAAAA
37538245 GGATTGGAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.56, C:0.05, G:0.27, T:0.12
Consensus pattern (21 bp):
AAATGAAACGGGTAAGAAAAT
Found at i:37541472 original size:43 final size:43
Alignment explanation
Indices: 37541418--37541638 Score: 309
Period size: 43 Copynumber: 5.2 Consensus size: 43
37541408 TTATGTGAAG
**
37541418 AAACGCCGCTAAAGGCCATGACCTTTAGCGGCGCTTTTATCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCAC
* *
37541461 AAACGCTGCTAAAGAACATGACCTTTAGCGGCGCTTTTGTCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCAC
37541504 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCAC
* * * * *
37541547 TAACGCTGCTAAAGAACATGACCTTTAGCGACGCTTTTATTAT
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCAC
* * * * *
37541590 AAACGCCGCTAAAGAACA-AACCTTTAGCGACGCTTCTCTCAA
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCAC
37541632 AAACGCC
1 AAACGCC
37541639 ACAAAAAAAC
Statistics
Matches: 160, Mismatches: 18, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
42 26 0.16
43 134 0.84
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCAC
Found at i:37545804 original size:18 final size:18
Alignment explanation
Indices: 37545781--37545816 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
37545771 AAATCCTAAA
37545781 CGGCTTATTAAATTCCAC
1 CGGCTTATTAAATTCCAC
37545799 CGGCTTATTAAATTCCAC
1 CGGCTTATTAAATTCCAC
37545817 TGTTCTGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.11, T:0.33
Consensus pattern (18 bp):
CGGCTTATTAAATTCCAC
Found at i:37547094 original size:23 final size:23
Alignment explanation
Indices: 37547041--37547095 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
37547031 ACCCTTGAAA
* *
37547041 CCCTAAATC-CCTAACTCTTAAC
1 CCCTAAACCTCCTAACTCCTAAC
37547063 CCC-ATAACCTCCTAACTCCTAAC
1 CCCTA-AACCTCCTAACTCCTAAC
37547086 CCCTAAACCT
1 CCCTAAACCT
37547096 TAAATCCCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
21 1 0.04
22 6 0.21
23 20 0.71
24 1 0.04
ACGTcount: A:0.31, C:0.45, G:0.00, T:0.24
Consensus pattern (23 bp):
CCCTAAACCTCCTAACTCCTAAC
Found at i:37547335 original size:25 final size:25
Alignment explanation
Indices: 37547289--37547336 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
37547279 TATATGAAAT
* **
37547289 TATTTAATATATAAATTTAAAAACA
1 TATTTAAAATATAAATAAAAAAACA
37547314 TATTTAAAATATAAATAAAAAAA
1 TATTTAAAATATAAATAAAAAAA
37547337 TTAATCTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (25 bp):
TATTTAAAATATAAATAAAAAAACA
Found at i:37547440 original size:30 final size:30
Alignment explanation
Indices: 37547375--37547450 Score: 77
Period size: 30 Copynumber: 2.6 Consensus size: 30
37547365 CCCATGAAAT
* *
37547375 CCTAAA-CTCTAAATCCTTAACTCTTAACC
1 CCTAAACCCCTAAATCCTTAACTCCTAACC
37547404 CCTAAACCCCTAAA-CCTCTAACTCCTAACC
1 CCTAAACCCCTAAATCCT-TAACTCCTAACC
** *
37547434 TTTAAA-CCTTAAATCCT
1 CCTAAACCCCTAAATCCT
37547451 AACCCGATCC
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
29 15 0.38
30 24 0.62
ACGTcount: A:0.34, C:0.37, G:0.00, T:0.29
Consensus pattern (30 bp):
CCTAAACCCCTAAATCCTTAACTCCTAACC
Found at i:37547452 original size:21 final size:22
Alignment explanation
Indices: 37547414--37547454 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
37547404 CCTAAACCCC
*
37547414 TAAACCTCTAACTCCTAACCTT
1 TAAACCTCTAAATCCTAACCTT
37547436 TAAACCT-TAAATCCTAACC
1 TAAACCTCTAAATCCTAACC
37547455 CGATCCTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.37, C:0.34, G:0.00, T:0.29
Consensus pattern (22 bp):
TAAACCTCTAAATCCTAACCTT
Found at i:37547598 original size:15 final size:16
Alignment explanation
Indices: 37547572--37547603 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
37547562 CCTAAGATCT
37547572 AACCCTTAAATCCATA
1 AACCCTTAAATCCATA
37547588 AACCC-TAAATCCATA
1 AACCCTTAAATCCATA
37547603 A
1 A
37547604 TTGATCTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (16 bp):
AACCCTTAAATCCATA
Found at i:37548436 original size:41 final size:41
Alignment explanation
Indices: 37548374--37548460 Score: 156
Period size: 41 Copynumber: 2.1 Consensus size: 41
37548364 TTTTATTATT
*
37548374 ATTAGCGGCGCTTTTTTAAAAACGCCGCTAAAGGCCAGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCAGAGC
*
37548415 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCAGAGC
37548456 ATTAG
1 ATTAG
37548461 ATATATTTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.22
Consensus pattern (41 bp):
ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCAGAGC
Found at i:37548542 original size:109 final size:109
Alignment explanation
Indices: 37548351--37548569 Score: 429
Period size: 109 Copynumber: 2.0 Consensus size: 109
37548341 ATCAAAGAAT
37548351 GATATATTTTAGATTTTATTATTATTAGCGGCGCTTTTTTAAAAACGCCGCTAAAGGCCAGAGCA
1 GATATATTTTAGATTTTATTATTATTAGCGGCGCTTTTTTAAAAACGCCGCTAAAGGCCAGAGCA
*
37548416 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGCATTA
66 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCAGAGCATTA
37548460 GATATATTTTAGATTTTATTATTATTAGCGGCGCTTTTTTAAAAACGCCGCTAAAGGCCAGAGCA
1 GATATATTTTAGATTTTATTATTATTAGCGGCGCTTTTTTAAAAACGCCGCTAAAGGCCAGAGCA
37548525 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCAGAGCATTA
66 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCAGAGCATTA
37548569 G
1 G
37548570 CTGCGCTTCT
Statistics
Matches: 109, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
109 109 1.00
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.30
Consensus pattern (109 bp):
GATATATTTTAGATTTTATTATTATTAGCGGCGCTTTTTTAAAAACGCCGCTAAAGGCCAGAGCA
TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCAGAGCATTA
Found at i:37548545 original size:41 final size:41
Alignment explanation
Indices: 37548483--37548641 Score: 273
Period size: 41 Copynumber: 3.9 Consensus size: 41
37548473 TTTTATTATT
* *
37548483 ATTAGCGGCGCTTTTTTAAAAACGCCGCTAAAGGCCAGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
*
37548524 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCAGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
* *
37548565 ATTAGCTGCGCTTCTTCAAAAACGCTGCTAAAGGCCAGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
37548606 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCC
37548642 CCAAAAACTC
Statistics
Matches: 112, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 112 1.00
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.21
Consensus pattern (41 bp):
ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
Found at i:37549799 original size:24 final size:24
Alignment explanation
Indices: 37549770--37550019 Score: 164
Period size: 24 Copynumber: 10.7 Consensus size: 24
37549760 GTTTATTGTA
*
37549770 TATTATTATTTTAGATTTATCATG
1 TATTATTATTTTAAATTTATCATG
* *
37549794 TTTTATTATTTGT-AATTTATCA-A
1 TATTATTATTT-TAAATTTATCATG
*
37549817 TATTATTATTTTAAATTCATCAT-
1 TATTATTATTTTAAATTTATCATG
**
37549840 TAACATTATTTTAAATTTATCATG
1 TATTATTATTTTAAATTTATCATG
*
37549864 TA-TATTTATTTCAAATTTATCAT-
1 TATTA-TTATTTTAAATTTATCATG
* * *
37549887 TAATA-T-TTTTAAATTTATTATA
1 TATTATTATTTTAAATTTATCATG
* ** *
37549909 TACTATTATTTTGGATTTATCACG
1 TATTATTATTTTAAATTTATCATG
* *
37549933 TATGATTATTCTAGAA-TTATCAT-
1 TATTATTATTTTA-AATTTATCATG
* * *
37549956 CA-AAAT-TTTTAAATTTTAT-ATG
1 TATTATTATTTTAAA-TTTATCATG
* * *
37549978 TATTATTATTTCAAATTTATTATA
1 TATTATTATTTTAAATTTATCATG
*
37550002 TATTATTTATTGTAAATT
1 TATTA-TTATTTTAAATT
37550020 ATCCAATTCA
Statistics
Matches: 174, Mismatches: 35, Indels: 33
0.72 0.14 0.14
Matches are distributed among these distances:
20 2 0.01
21 19 0.11
22 13 0.07
23 50 0.29
24 78 0.45
25 12 0.07
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.55
Consensus pattern (24 bp):
TATTATTATTTTAAATTTATCATG
Found at i:37549848 original size:70 final size:69
Alignment explanation
Indices: 37549768--37549935 Score: 180
Period size: 70 Copynumber: 2.4 Consensus size: 69
37549758 AAGTTTATTG
* * ** *
37549768 TATATTATTATTTTAGATTTATCATGT-TTTATTATTTGTAATTTATCAATATTATTATTTTAAA
1 TATACTATTATTTTAGATTTATCATGTATAT-TTATTTCAAATTTATCAATAATA-T-TTTTAAA
37549832 TTCATCA
63 TTCATCA
* *
37549839 T-TAAC-ATTATTTTAAATTTATCATGTATATTTATTTCAAATTTATCATTAATATTTTTAAATT
1 TAT-ACTATTATTTTAGATTTATCATGTATATTTATTTCAAATTTATCAATAATATTTTTAAATT
* *
37549902 TATTA
65 CATCA
* *
37549907 TATACTATTATTTTGGATTTATCACGTAT
1 TATACTATTATTTTAGATTTATCATGTAT
37549936 GATTATTCTA
Statistics
Matches: 81, Mismatches: 12, Indels: 10
0.79 0.12 0.10
Matches are distributed among these distances:
68 15 0.19
69 22 0.27
70 40 0.49
71 4 0.05
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (69 bp):
TATACTATTATTTTAGATTTATCATGTATATTTATTTCAAATTTATCAATAATATTTTTAAATTC
ATCA
Found at i:37549873 original size:47 final size:46
Alignment explanation
Indices: 37549798--37549919 Score: 126
Period size: 45 Copynumber: 2.7 Consensus size: 46
37549788 ATCATGTTTT
*
37549798 ATTATTTGT-AATTTATCAATATTATTATTTTAAATTCATCATTAAC
1 ATTATTT-TAAATTTATCAATATTATTATTTCAAATTCATCATTAAC
* * *
37549844 ATTATTTTAAATTTATC-ATGTATATTTATTTCAAATTTATCATTAAT
1 ATTATTTTAAATTTATCAATAT-TA-TTATTTCAAATTCATCATTAAC
* *
37549891 A-T-TTTTAAATTTATTATATACTATTATTT
1 ATTATTTTAAATTTATCA-ATATTATTATTT
37549920 TGGATTTATC
Statistics
Matches: 64, Mismatches: 7, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
45 22 0.34
46 20 0.31
47 22 0.34
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.56
Consensus pattern (46 bp):
ATTATTTTAAATTTATCAATATTATTATTTCAAATTCATCATTAAC
Found at i:37549942 original size:69 final size:68
Alignment explanation
Indices: 37549736--37550009 Score: 202
Period size: 69 Copynumber: 4.0 Consensus size: 68
37549726 TATTATCATT
* * * * * * *
37549736 AAATTAATCGTTAATATTATCTAAGTTTATTGTATATTATTATTTTAGATTTATCATGTTTTATT
1 AAATTTATCATTAATATT-TTTAAATTTATTATATACTATTATTTTAGATTTATCATG-TATATT
*
37549801 ATTTG
64 ATTTC
* * * * * *
37549806 TAATTTATCAATATTATTATTTTAAATTCATCAT-TAAC-ATTATTTTAAATTTATCATGTATAT
1 AAATTTATCATTAATA-T-TTTTAAATTTATTATAT-ACTATTATTTTAGATTTATCATGTATA-
37549869 TTATTTC
62 TTATTTC
* *
37549876 AAATTTATCATTAATATTTTTAAATTTATTATATACTATTATTTTGGATTTATCACGTATGATTA
1 AAATTTATCATTAATATTTTTAAATTTATTATATACTATTATTTTAGATTTATCATGTAT-ATTA
37549941 -TTC
65 TTTC
* * * * * * *
37549944 TAGAA-TTATCATCAAAATTTTTAAATTT-TATATGTATTATTATTTCAAATTTAT--TATATAT
1 -A-AATTTATCATTAATATTTTTAAATTTAT-TATATACTATTATTTTAGATTTATCATGTATAT
37550005 TATTT
63 TATTT
37550010 ATTGTAAATT
Statistics
Matches: 162, Mismatches: 31, Indels: 25
0.74 0.14 0.11
Matches are distributed among these distances:
66 4 0.02
67 5 0.03
68 19 0.12
69 69 0.43
70 53 0.33
71 11 0.07
72 1 0.01
ACGTcount: A:0.35, C:0.06, G:0.05, T:0.54
Consensus pattern (68 bp):
AAATTTATCATTAATATTTTTAAATTTATTATATACTATTATTTTAGATTTATCATGTATATTAT
TTC
Found at i:37556567 original size:46 final size:46
Alignment explanation
Indices: 37556525--37556644 Score: 125
Period size: 46 Copynumber: 2.6 Consensus size: 46
37556515 ACAGAATTTA
* **
37556525 CCACAAATGCATTGTAGAATATGCCACAAAAGCATTGTAGAATACT
1 CCACAAACGCATTACAGAATATGCCACAAAAGCATTGTAGAATACT
* * * * ** *
37556571 CCACAAACGTATTACAGAATATGCCATAAAGGCATTGCAGTGTACG
1 CCACAAACGCATTACAGAATATGCCACAAAAGCATTGTAGAATACT
*
37556617 ACACAAA-GACATTACAGAATATGCCACA
1 CCACAAACG-CATTACAGAATATGCCACA
37556645 CATACATTAC
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
45 1 0.02
46 59 0.98
ACGTcount: A:0.42, C:0.22, G:0.16, T:0.21
Consensus pattern (46 bp):
CCACAAACGCATTACAGAATATGCCACAAAAGCATTGTAGAATACT
Found at i:37556644 original size:23 final size:23
Alignment explanation
Indices: 37556514--37556675 Score: 89
Period size: 23 Copynumber: 7.0 Consensus size: 23
37556504 ACTTAGGCTA
* *
37556514 TACAGAATTTACCACAAATG-CAT
1 TACAGAATATGCCACAAA-GACAT
**
37556537 TGTAGAATATGCCACAAA-AGCAT
1 TACAGAATATGCCACAAAGA-CAT
** *
37556560 TGTAGAATACT-CCACAAACG-TAT
1 TACAGAATA-TGCCACAAA-GACAT
* *
37556583 TACAGAATATGCCATAAAGGCAT
1 TACAGAATATGCCACAAAGACAT
* ** * *
37556606 TGCAGTGTACGACACAAAGACAT
1 TACAGAATATGCCACAAAGACAT
* *
37556629 TACAGAATATGCCACACATACAT
1 TACAGAATATGCCACAAAGACAT
* * *
37556652 TACAAAAGATGCCACAAAGTCAT
1 TACAGAATATGCCACAAAGACAT
37556675 T
1 T
37556676 GCAAGTAACT
Statistics
Matches: 104, Mismatches: 28, Indels: 14
0.71 0.19 0.10
Matches are distributed among these distances:
22 2 0.02
23 101 0.97
24 1 0.01
ACGTcount: A:0.43, C:0.21, G:0.14, T:0.22
Consensus pattern (23 bp):
TACAGAATATGCCACAAAGACAT
Found at i:37560721 original size:18 final size:18
Alignment explanation
Indices: 37560698--37560733 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
37560688 TAGGCTAGCT
*
37560698 TAAAAATACAAAATGAAA
1 TAAAAATACAAAAAGAAA
*
37560716 TAAAAATCCAAAAAGAAA
1 TAAAAATACAAAAAGAAA
37560734 GTCCAACAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.72, C:0.08, G:0.06, T:0.14
Consensus pattern (18 bp):
TAAAAATACAAAAAGAAA
Found at i:37560951 original size:19 final size:20
Alignment explanation
Indices: 37560913--37560951 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
37560903 GAGAAATAAG
*
37560913 TAAGGTGAGAGAAGGAGAAA
1 TAAGGTGAGAGAACGAGAAA
*
37560933 TAAGGTG-GTGAACGAGAAA
1 TAAGGTGAGAGAACGAGAAA
37560952 GGGTCACTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.46, C:0.03, G:0.38, T:0.13
Consensus pattern (20 bp):
TAAGGTGAGAGAACGAGAAA
Found at i:37576895 original size:32 final size:32
Alignment explanation
Indices: 37576846--37576919 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 32
37576836 TGCTCGTATG
** * * *
37576846 GGCCCACACGCTGAAATTGGCCTTGCCTGTGT
1 GGCCCACACGCCCAAATTAGCCTAGCCCGTGT
37576878 GGCCCACACGCCCAAATTAGCCTAGCCCGTGT
1 GGCCCACACGCCCAAATTAGCCTAGCCCGTGT
* *
37576910 GACTCACACG
1 GGCCCACACG
37576920 GCCACACACT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.20, C:0.36, G:0.24, T:0.19
Consensus pattern (32 bp):
GGCCCACACGCCCAAATTAGCCTAGCCCGTGT
Found at i:37582647 original size:22 final size:22
Alignment explanation
Indices: 37582622--37582666 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
37582612 AATTTATGTG
*
37582622 TTAATTCATAGTATAAT-TAATT
1 TTAATTCATA-TACAATCTAATT
*
37582644 TTAATTTATATACAATCTAATT
1 TTAATTCATATACAATCTAATT
37582666 T
1 T
37582667 GGCTTAATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.51
Consensus pattern (22 bp):
TTAATTCATATACAATCTAATT
Found at i:37583075 original size:18 final size:19
Alignment explanation
Indices: 37583047--37583083 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
37583037 GCATTCACAT
37583047 CTTTCCTCTCTTCTCTCCA
1 CTTTCCTCTCTTCTCTCCA
*
37583066 CTTT-CTCTCTTCTTTCCA
1 CTTTCCTCTCTTCTCTCCA
37583084 TTCAAATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.05, C:0.43, G:0.00, T:0.51
Consensus pattern (19 bp):
CTTTCCTCTCTTCTCTCCA
Found at i:37600617 original size:21 final size:21
Alignment explanation
Indices: 37600593--37600661 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
37600583 CAGAATTAAG
37600593 TAAAATTTACATGAAATGGAA
1 TAAAATTTACATGAAATGGAA
* ** ** *
37600614 TAAAAAATTATTTTTAAT-TAA
1 T-AAAATTTACATGAAATGGAA
37600635 GTAAAATTTACATGAAATGGAA
1 -TAAAATTTACATGAAATGGAA
37600657 TAAAA
1 TAAAA
37600662 AATTATTTTT
Statistics
Matches: 33, Mismatches: 12, Indels: 6
0.65 0.24 0.12
Matches are distributed among these distances:
21 19 0.58
22 14 0.42
ACGTcount: A:0.54, C:0.03, G:0.10, T:0.33
Consensus pattern (21 bp):
TAAAATTTACATGAAATGGAA
Found at i:37600633 original size:43 final size:43
Alignment explanation
Indices: 37600586--37600673 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
37600576 AATAACACAG
37600586 AATTAAGTAAAATTTACATGAAATGGAATAAAAAATTATTTTT
1 AATTAAGTAAAATTTACATGAAATGGAATAAAAAATTATTTTT
37600629 AATTAAGTAAAATTTACATGAAATGGAATAAAAAATTATTTTT
1 AATTAAGTAAAATTTACATGAAATGGAATAAAAAATTATTTTT
37600672 AA
1 AA
37600674 CATAAATTAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.52, C:0.02, G:0.09, T:0.36
Consensus pattern (43 bp):
AATTAAGTAAAATTTACATGAAATGGAATAAAAAATTATTTTT
Found at i:37610775 original size:102 final size:102
Alignment explanation
Indices: 37610598--37610788 Score: 364
Period size: 102 Copynumber: 1.9 Consensus size: 102
37610588 TACTGCTATG
37610598 GTTGTTGTCAATAGTTGTAGTATAATATGCAGTATATATCTAATAATTTGTGTTTTGGTAGGTTC
1 GTTGTTGTCAATAGTTGTAGTATAATATGCAGTATATATCTAATAATTTGTGTTTTGGTAGGTTC
*
37610663 ATACAGACATATGGAACACACATAATAGGCTGGTGTT
66 ATACAAACATATGGAACACACATAATAGGCTGGTGTT
*
37610700 GTTGTTGTCAATAGTTGTAGTATAATATGCAGTGTATATCTAATAATTTGTGTTTTGGTAGGTTC
1 GTTGTTGTCAATAGTTGTAGTATAATATGCAGTATATATCTAATAATTTGTGTTTTGGTAGGTTC
37610765 ATACAAACATATGGAACACACATA
66 ATACAAACATATGGAACACACATA
37610789 TTTTTGTTAA
Statistics
Matches: 87, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
102 87 1.00
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.38
Consensus pattern (102 bp):
GTTGTTGTCAATAGTTGTAGTATAATATGCAGTATATATCTAATAATTTGTGTTTTGGTAGGTTC
ATACAAACATATGGAACACACATAATAGGCTGGTGTT
Found at i:37610845 original size:15 final size:15
Alignment explanation
Indices: 37610799--37610854 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
37610789 TTTTTGTTAA
*
37610799 ATTATATATAATAAT
1 ATTATATATTATAAT
*
37610814 A--AT-TATTTTAA-
1 ATTATATATTATAAT
*
37610825 ATTATATTTTATAAT
1 ATTATATATTATAAT
37610840 ATTATATATTATAAT
1 ATTATATATTATAAT
37610855 TTTAGTAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
11 1 0.03
12 6 0.19
13 4 0.12
14 6 0.19
15 15 0.47
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATTATATATTATAAT
Found at i:37610846 original size:41 final size:43
Alignment explanation
Indices: 37610786--37610907 Score: 125
Period size: 41 Copynumber: 3.0 Consensus size: 43
37610776 TGGAACACAC
*
37610786 ATAT-TTTTGTTAAATTATATATAATAATAATTATTTTAAA-T
1 ATATATTTTATTAAATTATATATAATAATAATTATTTTAAATT
*
37610827 -TATATTTTA-TAATATTATATAT--T-ATAATT-TTAGTAAATT
1 ATATATTTTATTAA-ATTATATATAATAATAATTATT-TTAAATT
* *
37610866 CATATATTTTATTAAATTATATTTAATAATAATTATGTTAAA
1 -ATATATTTTATTAAATTATATATAATAATAATTATTTTAAA
37610908 ATATGATTAA
Statistics
Matches: 65, Mismatches: 5, Indels: 19
0.73 0.06 0.21
Matches are distributed among these distances:
37 2 0.03
38 10 0.15
39 2 0.03
40 6 0.09
41 30 0.46
42 3 0.05
43 1 0.02
44 10 0.15
45 1 0.02
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.53
Consensus pattern (43 bp):
ATATATTTTATTAAATTATATATAATAATAATTATTTTAAATT
Found at i:37610876 original size:18 final size:17
Alignment explanation
Indices: 37610847--37610887 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
37610837 AATATTATAT
37610847 ATTATA-ATTTTAGTAA
1 ATTATATATTTTAGTAA
*
37610863 ATTCATATATTTTATTAA
1 ATT-ATATATTTTAGTAA
37610881 ATTATAT
1 ATTATAT
37610888 TTAATAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 3 0.14
17 7 0.32
18 12 0.55
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (17 bp):
ATTATATATTTTAGTAA
Found at i:37611107 original size:44 final size:45
Alignment explanation
Indices: 37611044--37611140 Score: 126
Period size: 45 Copynumber: 2.2 Consensus size: 45
37611034 GTATTACACC
* *
37611044 TCCATTCCATTCAACCAAACACA-AGA-TTACTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACA-ATAGATTTACTATTACACCTCTAT
* *
37611088 TCCATTACATTCAACCAAACAATTGATTTGCTATTACACCTCTAT
1 TCCATTACATTCAACCAAACAATAGATTTACTATTACACCTCTAT
*
37611133 TCTATTAC
1 TCCATTAC
37611141 GCCTCTATTC
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
43 1 0.02
44 22 0.48
45 23 0.50
ACGTcount: A:0.33, C:0.29, G:0.04, T:0.34
Consensus pattern (45 bp):
TCCATTACATTCAACCAAACAATAGATTTACTATTACACCTCTAT
Found at i:37611139 original size:16 final size:16
Alignment explanation
Indices: 37611118--37611150 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
37611108 AATTGATTTG
37611118 CTATTACACCTCTATT
1 CTATTACACCTCTATT
*
37611134 CTATTACGCCTCTATT
1 CTATTACACCTCTATT
37611150 C
1 C
37611151 CAATACAGCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.33, G:0.03, T:0.42
Consensus pattern (16 bp):
CTATTACACCTCTATT
Found at i:37611680 original size:174 final size:174
Alignment explanation
Indices: 37611386--37611729 Score: 548
Period size: 174 Copynumber: 2.0 Consensus size: 174
37611376 ACCAAAAGCA
* *
37611386 CTTTTGAGAAGTAATGCTAAACTAAGCCTTAAATGAGAACGATAACATAAGTGCATCTAGTGTTA
1 CTTTTGAGAAGTAATGCTAAACTAAGCCTTAAATGAGAACGATAAAATAAG-G-ATCTACTGTTA
*
37611451 TAGTGCATTTAAGGAGTAAGAAAAAAGGGATTGAGACAGAATTTTGGAATCAACAATAACGAAAA
64 TAGTGCATTTAAGGAGTAAGAAAAAAAGGATTGAGACAGAATTTTGGAATCAACAATAACG--AA
* * *
37611516 AAAGAAGGAAGGCTCAAAGCGAATCAGTGCAAAAGTGAAGAAAGTCAC
127 AAAGAAGAAAGGCTCAAAGAGAATCAGTGCAAAAATGAAGAAAGTCAC
* *
37611564 CTTTTGAGAAGTAATGCTAAACTAAGTCTTAAATGAGAACGATAAAATAA-G-TCTACTGTTATG
1 CTTTTGAGAAGTAATGCTAAACTAAGCCTTAAATGAGAACGATAAAATAAGGATCTACTGTTATA
* *
37611627 GTGCATTTAAGGAGTAAGAAAAAAATGATTGAGATAGAATTTTGGAATCAACAATAACGAAAAAG
66 GTGCATTTAAGGAGTAAGAAAAAAAGGATTGAGACAGAATTTTGGAATCAACAATAACGAAAAAG
37611692 AAGAAAGGCTCAAAGAGAATCAGTGCAAAAATGAAGAA
131 AAGAAAGGCTCAAAGAGAATCAGTGCAAAAATGAAGAA
37611730 GCCCTTCACT
Statistics
Matches: 156, Mismatches: 10, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
172 41 0.26
174 66 0.42
176 1 0.01
178 48 0.31
ACGTcount: A:0.46, C:0.10, G:0.22, T:0.22
Consensus pattern (174 bp):
CTTTTGAGAAGTAATGCTAAACTAAGCCTTAAATGAGAACGATAAAATAAGGATCTACTGTTATA
GTGCATTTAAGGAGTAAGAAAAAAAGGATTGAGACAGAATTTTGGAATCAACAATAACGAAAAAG
AAGAAAGGCTCAAAGAGAATCAGTGCAAAAATGAAGAAAGTCAC
Found at i:37619217 original size:48 final size:48
Alignment explanation
Indices: 37619160--37619403 Score: 278
Period size: 49 Copynumber: 5.0 Consensus size: 48
37619150 ATGTACCTAT
* * *
37619160 TTTATATTACTAAGTTTGTAT-CAAGTTTTAATGTTGTAA-TATATTTAA
1 TTTATATTACAAAGTTTGT-TCCAAGTTTTAATGTTGCAATTA-ATCTAA
* * * * *
37619208 TTTATATTACAAATTTTGTTCCAAGCTTTAATGTTGTAGTGT-ATTTAA
1 TTTATATTACAAAGTTTGTTCCAAGTTTTAATGTTGCAAT-TAATCTAA
* * *
37619256 ATTATATTACAAATTTTGCTCCAAGTTTTAATGTTGCAATTAATCTAA
1 TTTATATTACAAAGTTTGTTCCAAGTTTTAATGTTGCAATTAATCTAA
* *
37619304 TTTATGATCATAAAGTTTGTTCCAAGTTTTAATGTTGCAATTAATCTAA
1 TTTAT-ATTACAAAGTTTGTTCCAAGTTTTAATGTTGCAATTAATCTAA
** *
37619353 TTTATGACCACAAAGTTTGTTCCAAGTTTTAATGTTGCAATTAATATAA
1 TTTAT-ATTACAAAGTTTGTTCCAAGTTTTAATGTTGCAATTAATCTAA
37619402 TT
1 TT
37619404 AAATAAATAC
Statistics
Matches: 173, Mismatches: 18, Indels: 9
0.87 0.09 0.05
Matches are distributed among these distances:
47 2 0.01
48 83 0.48
49 87 0.50
50 1 0.01
ACGTcount: A:0.33, C:0.09, G:0.11, T:0.47
Consensus pattern (48 bp):
TTTATATTACAAAGTTTGTTCCAAGTTTTAATGTTGCAATTAATCTAA
Found at i:37621825 original size:15 final size:17
Alignment explanation
Indices: 37621790--37621833 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 17
37621780 TTATTATTAA
37621790 TTTAAAATGATAATAAG
1 TTTAAAATGATAATAAG
37621807 --TAAAATG-T-ATAAG
1 TTTAAAATGATAATAAG
37621820 TTTAAAAT-ATAATA
1 TTTAAAATGATAATA
37621834 TATATTAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 9
0.72 0.00 0.28
Matches are distributed among these distances:
13 5 0.22
14 1 0.04
15 14 0.61
16 3 0.13
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (17 bp):
TTTAAAATGATAATAAG
Found at i:37622478 original size:12 final size:12
Alignment explanation
Indices: 37622461--37622487 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
37622451 CTAAACACAA
37622461 TTTCTCCTTCCC
1 TTTCTCCTTCCC
37622473 TTTCTCCTTCCC
1 TTTCTCCTTCCC
37622485 TTT
1 TTT
37622488 TCTATTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (12 bp):
TTTCTCCTTCCC
Found at i:37625022 original size:21 final size:21
Alignment explanation
Indices: 37624990--37625054 Score: 87
Period size: 20 Copynumber: 3.1 Consensus size: 21
37624980 TTTCTATTAA
* *
37624990 TTTAATATTTTTTATTTTTATT
1 TTTAA-ATTTTTAAATTTTATT
37625012 TTTAAATTTTTAAATTTTA-T
1 TTTAAATTTTTAAATTTTATT
*
37625032 TTTAAATTTCTAAATTTTATT
1 TTTAAATTTTTAAATTTTATT
37625053 TT
1 TT
37625055 GATTTATTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
20 19 0.49
21 15 0.38
22 5 0.13
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTAAATTTTTAAATTTTATT
Found at i:37626889 original size:38 final size:38
Alignment explanation
Indices: 37626847--37626921 Score: 87
Period size: 38 Copynumber: 2.0 Consensus size: 38
37626837 GAGGACAAGG
* * *
37626847 TTTAACCTTACAACTCCCTTAATATTTATACCCAAACT
1 TTTAACATTACAACTACCTTAAGATTTATACCCAAACT
* * * *
37626885 TTTAATATTGCAACTACCTTAAGGTTTCTACCCAAAC
1 TTTAACATTACAACTACCTTAAGATTTATACCCAAAC
37626922 CTTAATACTC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
38 30 1.00
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.36
Consensus pattern (38 bp):
TTTAACATTACAACTACCTTAAGATTTATACCCAAACT
Found at i:37627633 original size:22 final size:24
Alignment explanation
Indices: 37627607--37627650 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
37627597 TTTATGTTCA
37627607 ACTTTAACTT-TTAT-TCAAAAAT
1 ACTTTAACTTGTTATATCAAAAAT
*
37627629 ACTTTAATTTGTTATATCAAAA
1 ACTTTAACTTGTTATATCAAAA
37627651 CATATTATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.41, C:0.11, G:0.02, T:0.45
Consensus pattern (24 bp):
ACTTTAACTTGTTATATCAAAAAT
Found at i:37627772 original size:33 final size:33
Alignment explanation
Indices: 37627735--37627800 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
37627725 TGAATAATTT
37627735 CTCCCCCT-TAATAAAATTCATTTTCAATTTAAG
1 CTCCCCCTAT-ATAAAATTCATTTTCAATTTAAG
37627768 CTCCCCCTATATAAAATTCATTTTCAATTTAAG
1 CTCCCCCTATATAAAATTCATTTTCAATTTAAG
37627801 GCTTAAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 31 0.97
34 1 0.03
ACGTcount: A:0.33, C:0.24, G:0.03, T:0.39
Consensus pattern (33 bp):
CTCCCCCTATATAAAATTCATTTTCAATTTAAG
Found at i:37631555 original size:391 final size:395
Alignment explanation
Indices: 37630829--37631619 Score: 1340
Period size: 391 Copynumber: 2.0 Consensus size: 395
37630819 TTCTATAATC
37630829 CAAATTAAATTATAAATTATTACATTTTGAATTGTTTGCATATGGTAAGTAATTGAGGTGAGAAC
1 CAAATTAAATTATAAATTATTACATTTTGAATTGTTTGCATATGGTAAGTAATTGAGGTGAGAAC
* *
37630894 TCTTGTACTTTGGGCCAAATTGAATTAATTAATGATTACAATGAACAAATTATGTGTATCGAGAA
66 TCTTGTACTTCGGGCCAAATTGAATCAATTAATGATTACAATGAACAAATTATGTGTATCGAGAA
*
37630959 ATGTGGTATTCTTATGAACATGTGTATTGAGAAATTATAGTTATTATCAATTTTAATATATACTT
131 ATGTGGTATTCTTATGAACATGTGTATTGAGAAATTATAGTTATTATCAAATTTAATATATAC-T
* *
37631024 ATATGTGTGGTGATGTACATATGTGAAATTGGAACATTGGATGTATTGAAAGTGAAATGAAACCC
195 ATATGTGTGATGATGTACATA-GTGAAATTGGAACATTGGATGCATTGAAAGTGAAATGAAACCC
* * *
37631089 TATTAACTGTTTCGGGCTAAGTCGGATATAGATGCCATGCTATAGGATAGAAAGAGTTTAGGGAT
259 TATTAACTGTTTCGGGCTAAGCCGGATATAGATGCCATGCTATAGGATAGAAAGAGTTCAAGGAT
*
37631154 TTCTTCAACCTCGAGTTGATGAGGCATTGGGTG-CCAATTTGCTTCGATTTAACCGATGAGACAC
324 TTCTTCAACCTCGAGTTGATGAGGCATTGGGTGACAAATTTGCTTCGATTTAACCGATGAGACAC
37631218 TGGGTGT
389 TGGGTGT
37631225 CAAATTAAATTATAAATTATTACATTTTGAATTGTTTGCATATGGTAAGTAATTGAGGTGAGAAC
1 CAAATTAAATTATAAATTATTACATTTTGAATTGTTTGCATATGGTAAGTAATTGAGGTGAGAAC
* *
37631290 TCTTGTACTTCGGGCCAAATTGAATCAATTGATGATTACAATGAAC-AATTATGTGTATCGATAA
66 TCTTGTACTTCGGGCCAAATTGAATCAATTAATGATTACAATGAACAAATTATGTGTATCGAGAA
* *
37631354 ATGTGGTATTCTTATGAATATTTGTATTGAGAAATTATAGTTATTATCAAATTTAATATATAC-A
131 ATGTGGTATTCTTATGAACATGTGTATTGAGAAATTATAGTTATTATCAAATTTAATATATACTA
37631418 TATGTGTGATGATGTACATA-TGAAATTGGAACATTGGATGCATTGAAAGTGAAATGAAACCCTA
196 TATGTGTGATGATGTACATAGTGAAATTGGAACATTGGATGCATTGAAAGTGAAATGAAACCCTA
* * *
37631482 TTAATTGTTTCGGGCTAAGCCGGATATAGATGGCATGCTATAGGATA-AGAAGAGTTCAATGATT
261 TTAACTGTTTCGGGCTAAGCCGGATATAGATGCCATGCTATAGGATAGA-AAGAGTTCAAGGATT
* * * *
37631546 TCTTCAACCTCGAGTTGATGAGGCATTGGGTGATAAATTTTCTTCGGTTTAACCGATGAGACATT
325 TCTTCAACCTCGAGTTGATGAGGCATTGGGTGACAAATTTGCTTCGATTTAACCGATGAGACACT
37631611 GGGTGT
390 GGGTGT
37631617 CAA
1 CAA
37631620 CTTATATAGC
Statistics
Matches: 373, Mismatches: 20, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
390 1 0.00
391 131 0.35
392 36 0.10
393 20 0.05
395 77 0.21
396 108 0.29
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (395 bp):
CAAATTAAATTATAAATTATTACATTTTGAATTGTTTGCATATGGTAAGTAATTGAGGTGAGAAC
TCTTGTACTTCGGGCCAAATTGAATCAATTAATGATTACAATGAACAAATTATGTGTATCGAGAA
ATGTGGTATTCTTATGAACATGTGTATTGAGAAATTATAGTTATTATCAAATTTAATATATACTA
TATGTGTGATGATGTACATAGTGAAATTGGAACATTGGATGCATTGAAAGTGAAATGAAACCCTA
TTAACTGTTTCGGGCTAAGCCGGATATAGATGCCATGCTATAGGATAGAAAGAGTTCAAGGATTT
CTTCAACCTCGAGTTGATGAGGCATTGGGTGACAAATTTGCTTCGATTTAACCGATGAGACACTG
GGTGT
Found at i:37632358 original size:23 final size:25
Alignment explanation
Indices: 37632311--37632368 Score: 84
Period size: 23 Copynumber: 2.4 Consensus size: 25
37632301 GGTTGAGGCT
37632311 ATGTTTGGTATGATAGCTTAGCTTA
1 ATGTTTGGTATGATAGCTTAGCTTA
*
37632336 ATGTTTGGTATG-T-GTTTAGCTTA
1 ATGTTTGGTATGATAGCTTAGCTTA
*
37632359 AAGTTTGGTA
1 ATGTTTGGTA
37632369 ACCTAAGTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
23 18 0.58
24 1 0.03
25 12 0.39
ACGTcount: A:0.22, C:0.05, G:0.26, T:0.47
Consensus pattern (25 bp):
ATGTTTGGTATGATAGCTTAGCTTA
Found at i:37634718 original size:17 final size:17
Alignment explanation
Indices: 37634692--37634725 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
37634682 TCAAAACAAC
37634692 ATAATAAACATAAAAAT
1 ATAATAAACATAAAAAT
*
37634709 ATAATTAACATAAAAAT
1 ATAATAAACATAAAAAT
37634726 GATTACGATT
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:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (17 bp):
ATAATAAACATAAAAAT
Found at i:37641921 original size:21 final size:21
Alignment explanation
Indices: 37641879--37641921 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
37641869 CACATGGGTG
**
37641879 TGTGGGTACGTGACACGGGCA
1 TGTGGGTACGTGACACAAGCA
*
37641900 TGTGGGTATGTGACACAAGCA
1 TGTGGGTACGTGACACAAGCA
37641921 T
1 T
37641922 ATAGAAACTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.23, C:0.16, G:0.37, T:0.23
Consensus pattern (21 bp):
TGTGGGTACGTGACACAAGCA
Found at i:37648312 original size:23 final size:23
Alignment explanation
Indices: 37648267--37648345 Score: 113
Period size: 23 Copynumber: 3.3 Consensus size: 23
37648257 TTGAGGTTAT
*
37648267 GTTTGGTATGATAGCTTAGCTTAAA
1 GTTTGGTATG-T-GTTTAGCTTAAA
37648292 GTTTGGTATGTGTTTAGCTTAAA
1 GTTTGGTATGTGTTTAGCTTAAA
**
37648315 GTTTGGTATGCATTTAGCTTAAA
1 GTTTGGTATGTGTTTAGCTTAAA
37648338 GTTTGGTA
1 GTTTGGTA
37648346 ACCTAAGTAG
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
23 40 0.78
24 1 0.02
25 10 0.20
ACGTcount: A:0.24, C:0.06, G:0.25, T:0.44
Consensus pattern (23 bp):
GTTTGGTATGTGTTTAGCTTAAA
Found at i:37648720 original size:52 final size:52
Alignment explanation
Indices: 37648638--37648739 Score: 145
Period size: 52 Copynumber: 2.0 Consensus size: 52
37648628 CCGTGTGACC
* * *
37648638 CAAGTCAGTGAGTTACACAGGGGGAGACACGGGCTGGGACAC-GACCGTGTCT
1 CAAGTCAGTGAGTTACACAGGGAGAAACACGGGCTAGGACACAG-CCGTGTCT
37648690 CAAGTCAGTGAGTTACA-AGGGTAGAAACACGGGCTAGGACACAGCCGTGT
1 CAAGTCAGTGAGTTACACAGGG-AGAAACACGGGCTAGGACACAGCCGTGT
37648740 GTCCCAACTC
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
51 4 0.09
52 40 0.89
53 1 0.02
ACGTcount: A:0.28, C:0.22, G:0.34, T:0.16
Consensus pattern (52 bp):
CAAGTCAGTGAGTTACACAGGGAGAAACACGGGCTAGGACACAGCCGTGTCT
Found at i:37649694 original size:21 final size:21
Alignment explanation
Indices: 37649668--37649727 Score: 102
Period size: 21 Copynumber: 2.9 Consensus size: 21
37649658 TATTTGGTAG
*
37649668 AAGGTATCGATACTTTTTGTA
1 AAGGTATCAATACTTTTTGTA
37649689 AAGGTATCAATACTTTTTGTA
1 AAGGTATCAATACTTTTTGTA
*
37649710 AATGTATCAATACTTTTT
1 AAGGTATCAATACTTTTT
37649728 TGTGAAAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.32, C:0.10, G:0.13, T:0.45
Consensus pattern (21 bp):
AAGGTATCAATACTTTTTGTA
Found at i:37649888 original size:19 final size:19
Alignment explanation
Indices: 37649863--37649914 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
37649853 TTAAATACAT
37649863 TTTTAACATGATTGAAA-A
1 TTTTAACATGATTGAAACA
*
37649881 TATTTAAC-TCAATTGAAACCA
1 T-TTTAACAT-GATTGAAA-CA
37649902 TTTTAACATGATT
1 TTTTAACATGATT
37649915 TTATCAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
18 2 0.07
19 13 0.48
20 9 0.33
21 3 0.11
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (19 bp):
TTTTAACATGATTGAAACA
Found at i:37649969 original size:22 final size:24
Alignment explanation
Indices: 37649941--37649984 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
37649931 ATTTTGTTCA
37649941 ACTTTAACTT-TTAT-TCAAAAAC
1 ACTTTAACTTGTTATATCAAAAAC
*
37649963 ACTTTAATTTGTTATATCAAAA
1 ACTTTAACTTGTTATATCAAAA
37649985 CATATTATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.41, C:0.14, G:0.02, T:0.43
Consensus pattern (24 bp):
ACTTTAACTTGTTATATCAAAAAC
Found at i:37650748 original size:21 final size:19
Alignment explanation
Indices: 37650706--37650744 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
37650696 ATTGTGTATT
* *
37650706 TGAATAAAAATAAATAGAA
1 TGAATAAAAAAAAAAAGAA
37650725 TGAATAGAAAAAAAAAAGAA
1 TGAATA-AAAAAAAAAAGAA
37650745 ATGAGAAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.72, C:0.00, G:0.13, T:0.15
Consensus pattern (19 bp):
TGAATAAAAAAAAAAAGAA
Found at i:37651807 original size:59 final size:58
Alignment explanation
Indices: 37651681--37651801 Score: 176
Period size: 59 Copynumber: 2.1 Consensus size: 58
37651671 TTTTAAATGG
* *
37651681 ATTATTATTAAAAATAATTTAATAAAAAATAATAAATAATTTAATCATATTTTAATATG
1 ATTATTATTAAAAATAATTTAATAAAAAATAAT-AATAATTTAATAATATTTTAATATA
*
37651740 ATTATTATTAAATATAATTTAAT-AAAAAT-AT-ATAATTTAATAATATTTTTAATATA
1 ATTATTATTAAAAATAATTTAATAAAAAATAATAATAATTTAATAATA-TTTTAATATA
37651796 ATTATT
1 ATTATT
37651802 TTTATTTTAA
Statistics
Matches: 58, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
55 13 0.22
56 15 0.26
57 2 0.03
58 6 0.10
59 22 0.38
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (58 bp):
ATTATTATTAAAAATAATTTAATAAAAAATAATAATAATTTAATAATATTTTAATATA
Found at i:37651838 original size:33 final size:32
Alignment explanation
Indices: 37651796--37651908 Score: 93
Period size: 33 Copynumber: 3.4 Consensus size: 32
37651786 TTTTAATATA
37651796 ATTATTTTTATTTTAAATTATATTAAAATATTT
1 ATTA-TTTTATTTTAAATTATATTAAAATATTT
* * * ** *
37651829 TTTAGTTTTACTTTAAATTGTATTTTGAA-ATTA
1 ATTA-TTTTATTTTAAATTATA-TTAAAATATTT
* *
37651862 ATTATTTTATATTAAATTATATTCAAATATTT
1 ATTATTTTATTTTAAATTATATTAAAATATTT
*
37651894 CAAATATTTTATTTT
1 --ATTATTTTATTTT
37651909 TATATTTTCT
Statistics
Matches: 60, Mismatches: 16, Indels: 7
0.72 0.19 0.08
Matches are distributed among these distances:
31 4 0.07
32 17 0.28
33 24 0.40
34 15 0.25
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (32 bp):
ATTATTTTATTTTAAATTATATTAAAATATTT
Found at i:37653352 original size:18 final size:18
Alignment explanation
Indices: 37653329--37653368 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
37653319 AAAGTTCTAC
37653329 AAAATTAAGAAAATA-ATA
1 AAAATTAA-AAAATATATA
37653347 AAAATTAAAAAATATATA
1 AAAATTAAAAAATATATA
37653365 AAAA
1 AAAA
37653369 ATCAAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (18 bp):
AAAATTAAAAAATATATA
Found at i:37653375 original size:19 final size:17
Alignment explanation
Indices: 37653338--37653389 Score: 50
Period size: 19 Copynumber: 2.9 Consensus size: 17
37653328 CAAAATTAAG
*
37653338 AAAATAATAAAAATTAA
1 AAAATAATAAAAATCAA
37653355 AAAATATATAAAAAATCAA
1 AAAATA-AT-AAAAATCAA
**
37653374 AATTTTAATAAAAATC
1 AA-AATAATAAAAATC
37653390 TAACATTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 6 0.21
18 9 0.31
19 12 0.41
20 2 0.07
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (17 bp):
AAAATAATAAAAATCAA
Found at i:37653854 original size:7 final size:7
Alignment explanation
Indices: 37653838--37653875 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
37653828 AAATAAGGGA
37653838 TTAAGGT
1 TTAAGGT
*
37653845 TTAGGGT
1 TTAAGGT
*
37653852 TTAGGGT
1 TTAAGGT
37653859 TTAAGGT
1 TTAAGGT
37653866 TTAAGGT
1 TTAAGGT
37653873 TTA
1 TTA
37653876 CGACAGATCC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.24, C:0.00, G:0.32, T:0.45
Consensus pattern (7 bp):
TTAAGGT
Found at i:37653862 original size:21 final size:21
Alignment explanation
Indices: 37653833--37653875 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
37653823 TAAATAAATA
*
37653833 AGGGATTAAGGTTTAGGGTTT
1 AGGGATTAAGGTTTAAGGTTT
*
37653854 AGGGTTTAAGGTTTAAGGTTT
1 AGGGATTAAGGTTTAAGGTTT
37653875 A
1 A
37653876 CGACAGATCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.35, T:0.40
Consensus pattern (21 bp):
AGGGATTAAGGTTTAAGGTTT
Found at i:37659856 original size:16 final size:16
Alignment explanation
Indices: 37659835--37659865 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
37659825 TGTCATCAAC
37659835 ATAAAAGAGTAAATAT
1 ATAAAAGAGTAAATAT
37659851 ATAAAAGAGTAAATA
1 ATAAAAGAGTAAATA
37659866 CACAAAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.13, T:0.23
Consensus pattern (16 bp):
ATAAAAGAGTAAATAT
Done.