Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 96 of 325
Found at i:31571074 original size:46 final size:46
Alignment explanation
Indices: 31571022--31571361 Score: 444
Period size: 46 Copynumber: 7.7 Consensus size: 46
31571012 ATGCATAGTG
* * * *
31571022 TCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGGTA
** * * *
31571068 TCTTTCAACCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
*
31571114 TCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
31571160 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
31571206 TCTTTCAACCATGGTCTT--ACA---C--A-CAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
31571244 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
* *
31571290 TCTTTCAATCATGGTCTT--ACA---C--A-CAGGTTGCCTTGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
31571328 TCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TCTTTCAACCATGGTCTTACACATTTCATATCAG
31571362 AGAGCACACT
Statistics
Matches: 263, Mismatches: 14, Indels: 34
0.85 0.05 0.11
Matches are distributed among these distances:
38 64 0.24
39 2 0.01
40 6 0.02
41 2 0.01
43 2 0.01
44 6 0.02
45 6 0.02
46 175 0.67
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
Found at i:31571130 original size:92 final size:88
Alignment explanation
Indices: 31571022--31571361 Score: 453
Period size: 84 Copynumber: 3.9 Consensus size: 88
31571012 ATGCATAGTG
* *
31571022 TCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTAC-CA--TTCT-TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTA
** * * *
31571087 TTCTTTTCATGTCACGTTGCCATGGTA
62 CACATTTCATATCAGGTTGCCATGGTA
31571114 TCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTAC-CAT-TC-T-TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTA
31571179 CACATTTCATATCAGGTTGCCATGGTA
62 CACATTTCATATCAGGTTGCCATGGTA
*
31571206 TCTTTCAACCATGGTCTTA-CA--C-ACAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 TCTTTCAACCATGGTCTTACCATTCTTCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
31571267 TTTCATATCAGGTTGCCATGGTA
66 TTTCATATCAGGTTGCCATGGTA
* * *
31571290 TCTTTCAATCATGGTCTTA-CA--C-ACAGGTTGCCTTGGTATCTTTCAACCATGGTCTTACACA
1 TCTTTCAACCATGGTCTTACCATTCTTCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
31571351 TTTCATATCAG
66 TTTCATATCAG
31571362 AGAGCACACT
Statistics
Matches: 234, Mismatches: 12, Indels: 12
0.91 0.05 0.05
Matches are distributed among these distances:
84 131 0.56
87 1 0.00
90 3 0.01
91 2 0.01
92 97 0.41
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.38
Consensus pattern (88 bp):
TCTTTCAACCATGGTCTTACCATTCTTCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
TTTCATATCAGGTTGCCATGGTA
Found at i:31571242 original size:38 final size:38
Alignment explanation
Indices: 31571191--31571350 Score: 230
Period size: 38 Copynumber: 4.0 Consensus size: 38
31571181 CATTTCATAT
31571191 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
31571229 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A
*
31571274 TCAGGTTGCCATGGTATCTTTCAATCATGGTCTTACACA
1 -CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
*
31571313 CAGGTTGCCTTGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
31571351 TTTCATATCA
Statistics
Matches: 111, Mismatches: 3, Indels: 16
0.85 0.02 0.12
Matches are distributed among these distances:
38 69 0.62
39 1 0.01
40 3 0.03
41 1 0.01
43 1 0.01
44 3 0.03
45 1 0.01
46 32 0.29
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.34
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:31576520 original size:46 final size:46
Alignment explanation
Indices: 31576460--31576809 Score: 464
Period size: 46 Copynumber: 8.0 Consensus size: 46
31576450 TTTGACGTGA
* * * * * *
31576460 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
31576506 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
31576552 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
31576598 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
31576644 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
31576682 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
31576728 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
31576766 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
31576810 AGAGCACACT
Statistics
Matches: 274, Mismatches: 13, Indels: 34
0.85 0.04 0.11
Matches are distributed among these distances:
38 66 0.24
39 2 0.01
40 6 0.02
41 2 0.01
43 2 0.01
44 6 0.02
45 6 0.02
46 184 0.67
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.37
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:31576576 original size:92 final size:84
Alignment explanation
Indices: 31576504--31576809 Score: 495
Period size: 84 Copynumber: 3.5 Consensus size: 84
31576494 TTTCTGTCAT
** * * *
31576504 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
31576569 ACCATGGTCTTACACATCTCATATCAG
66 ACCATGGTCTT--ACA---C--A-CAG
31576596 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
31576661 ACCATGGTCTTACACACAG
66 ACCATGGTCTTACACACAG
31576680 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
31576745 ACCATGGTCTTACACACAG
66 ACCATGGTCTTACACACAG
31576764 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
31576810 AGAGCACACT
Statistics
Matches: 209, Mismatches: 5, Indels: 8
0.94 0.02 0.04
Matches are distributed among these distances:
84 133 0.64
85 1 0.00
87 1 0.00
90 3 0.01
92 71 0.34
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (84 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
ACCATGGTCTTACACACAG
Found at i:31576690 original size:38 final size:38
Alignment explanation
Indices: 31576639--31576798 Score: 248
Period size: 38 Copynumber: 4.0 Consensus size: 38
31576629 CATTTCATAT
31576639 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
31576677 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A
31576722 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 -CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
31576761 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
31576799 TTTCATATCA
Statistics
Matches: 114, Mismatches: 0, Indels: 16
0.88 0.00 0.12
Matches are distributed among these distances:
38 71 0.62
39 1 0.01
40 3 0.03
41 1 0.01
43 1 0.01
44 3 0.03
45 1 0.01
46 33 0.29
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:31580491 original size:22 final size:21
Alignment explanation
Indices: 31580466--31580506 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
31580456 TCCCATGTTC
*
31580466 TTCTCTGTTTCGTTTTCTTTGT
1 TTCTCTGTTTC-ATTTCTTTGT
*
31580488 TTCTCTTTTTCATTTCTTT
1 TTCTCTGTTTCATTTCTTT
31580507 TATTTCATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.02, C:0.20, G:0.07, T:0.71
Consensus pattern (21 bp):
TTCTCTGTTTCATTTCTTTGT
Found at i:31585550 original size:18 final size:18
Alignment explanation
Indices: 31585527--31585577 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
31585517 TCAATAATAT
31585527 TCATTTATTCAGTATCAG
1 TCATTTATTCAGTATCAG
** *
31585545 TCATTTATTTTGTAACAG
1 TCATTTATTCAGTATCAG
*
31585563 TCAATTATTCAGTAT
1 TCATTTATTCAGTAT
31585578 TAGACAATCT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.29, C:0.14, G:0.10, T:0.47
Consensus pattern (18 bp):
TCATTTATTCAGTATCAG
Found at i:31586840 original size:22 final size:21
Alignment explanation
Indices: 31586815--31586855 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
31586805 TCCCCTGTTC
*
31586815 TTCTCTGTTTCGTTTTCTTTGT
1 TTCTCTGTTTC-ATTTCTTTGT
*
31586837 TTCTCTTTTTCATTTCTTT
1 TTCTCTGTTTCATTTCTTT
31586856 TATTTCATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.02, C:0.20, G:0.07, T:0.71
Consensus pattern (21 bp):
TTCTCTGTTTCATTTCTTTGT
Found at i:31586940 original size:22 final size:22
Alignment explanation
Indices: 31586898--31586949 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
31586888 ACTATTATAA
* *
31586898 TATTTATTATTTATACATGTAT
1 TATTTATTATATACACATGTAT
31586920 GTATTTATTA-ATACACATGTAT
1 -TATTTATTATATACACATGTAT
31586942 TCATTTAT
1 T-ATTTAT
31586950 CACCTCACAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 1 0.04
22 16 0.62
23 9 0.35
ACGTcount: A:0.33, C:0.08, G:0.06, T:0.54
Consensus pattern (22 bp):
TATTTATTATATACACATGTAT
Found at i:31590444 original size:3 final size:3
Alignment explanation
Indices: 31590436--31590490 Score: 58
Period size: 3 Copynumber: 17.7 Consensus size: 3
31590426 TATGTAAATA
* *
31590436 AAT AAT AAT AGAT AA- AAT AAT AAT AAT AAT GAT AGT AAT AAT AAAT
1 AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
31590482 AAT ATAT AA
1 AAT A-AT AA
31590491 GTAAAAGGAA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
2 2 0.05
3 33 0.75
4 9 0.20
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:31590453 original size:15 final size:14
Alignment explanation
Indices: 31590435--31590496 Score: 63
Period size: 15 Copynumber: 4.2 Consensus size: 14
31590425 ATATGTAAAT
31590435 AAATAATAATAGATA
1 AAATAATAATA-ATA
31590450 AAATAATAATAATA
1 AAATAATAATAATA
* *
31590464 ATGATAGTAATAAT-
1 A-AATAATAATAATA
31590478 AAATAATATATAAGTA
1 AAATAATA-ATAA-TA
31590494 AAA
1 AAA
31590497 GGAAGATAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
13 5 0.13
14 9 0.23
15 22 0.56
16 3 0.08
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (14 bp):
AAATAATAATAATA
Found at i:31591592 original size:17 final size:17
Alignment explanation
Indices: 31591546--31591600 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
31591536 TTCCTTGCAG
*
31591546 GTACAGAGGTTGACGTGGC
1 GTACAGAGG-TG-CGTGGA
* *
31591565 GTGCAGTGGTGCGTGGA
1 GTACAGAGGTGCGTGGA
31591582 GTACAGAGGTGCGCTGGA
1 GTACAGAGGTGCG-TGGA
31591600 G
1 G
31591601 GCCATACATG
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
17 16 0.53
18 7 0.23
19 7 0.23
ACGTcount: A:0.18, C:0.15, G:0.47, T:0.20
Consensus pattern (17 bp):
GTACAGAGGTGCGTGGA
Found at i:31594550 original size:10 final size:10
Alignment explanation
Indices: 31594535--31594584 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
31594525 TTTTTCAAAT
31594535 AATTATTAAA
1 AATTATTAAA
31594545 AATTA-TAGAA
1 AATTATTA-AA
*
31594555 AATTTTTAAA
1 AATTATTAAA
31594565 AATTATT-AA
1 AATTATTAAA
31594574 AATTAATTAAA
1 AATT-ATTAAA
31594585 GTTAAAATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
9 8 0.24
10 22 0.65
11 4 0.12
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (10 bp):
AATTATTAAA
Found at i:31594583 original size:20 final size:20
Alignment explanation
Indices: 31594535--31594584 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
31594525 TTTTTCAAAT
31594535 AATTATTAAAAATTATAGAA
1 AATTATTAAAAATTATAGAA
* *
31594555 AATTTTTAAAAATTAT-TAA
1 AATTATTAAAAATTATAGAA
31594574 AATTAATTAAA
1 AATT-ATTAAA
31594585 GTTAAAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 6 0.23
20 20 0.77
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (20 bp):
AATTATTAAAAATTATAGAA
Found at i:31599454 original size:43 final size:43
Alignment explanation
Indices: 31599390--31599571 Score: 208
Period size: 43 Copynumber: 4.2 Consensus size: 43
31599380 AGACTTTTAG
* * * * *
31599390 CGCTAAAGACCATGACTTTTAGCGGCATCTTTTT-TGCAAATGT
1 CGCTAAAAACCATGACCTTTAGCGGC-GCTTTTTCTGCAAACGC
*
31599433 CGCTAAAAACCATGACCTTTAGTGGCGCTTTTTCCT-CAAACGC
1 CGCTAAAAACCATGACCTTTAGCGGCGCTTTTT-CTGCAAACGC
* * **
31599476 CGCTAAAAATCATGACCTTTAGCAGCGCTTTTTAAGCAAACGC
1 CGCTAAAAACCATGACCTTTAGCGGCGCTTTTTCTGCAAACGC
* *
31599519 CGCTAAAAACCATAACCTTTAGCGGCGCTTTTT-TCACAAACGC
1 CGCTAAAAACCATGACCTTTAGCGGCGCTTTTTCT-GCAAACGC
31599562 CGCTAAAAAC
1 CGCTAAAAAC
31599572 AATAATCTTT
Statistics
Matches: 119, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
42 6 0.05
43 112 0.94
44 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (43 bp):
CGCTAAAAACCATGACCTTTAGCGGCGCTTTTTCTGCAAACGC
Found at i:31599616 original size:20 final size:20
Alignment explanation
Indices: 31599591--31599645 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 20
31599581 TAAAAATTAT
31599591 TTTATTTTAATTAAATAATA
1 TTTATTTTAATTAAATAATA
* *
31599611 TTTATTTCTATGTTAAATATTA
1 TTTATTT-TA-ATTAAATAATA
31599633 TATTATGTTTAAT
1 T-TTAT-TTTAAT
31599646 ATTTTGAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
20 7 0.25
21 2 0.07
22 11 0.39
23 6 0.21
24 2 0.07
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (20 bp):
TTTATTTTAATTAAATAATA
Found at i:31601233 original size:20 final size:20
Alignment explanation
Indices: 31601208--31601248 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
31601198 CAGGACAGAT
31601208 AGCAAAATTTTACCAATAAG
1 AGCAAAATTTTACCAATAAG
31601228 AGCAAAATTTTACCAATAAG
1 AGCAAAATTTTACCAATAAG
31601248 A
1 A
31601249 TTTATAGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.51, C:0.15, G:0.10, T:0.24
Consensus pattern (20 bp):
AGCAAAATTTTACCAATAAG
Found at i:31603884 original size:22 final size:21
Alignment explanation
Indices: 31603850--31603898 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
31603840 CATAAACACT
*
31603850 AACCCTTGAACCTTTAACCCC
1 AACCCTTGAACCTTAAACCCC
*
31603871 AAACCCTT-ACACCTTAAACTCC
1 -AACCCTTGA-ACCTTAAACCCC
31603893 AACCCT
1 AACCCT
31603899 AACCCCTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.33, C:0.43, G:0.02, T:0.22
Consensus pattern (21 bp):
AACCCTTGAACCTTAAACCCC
Found at i:31603978 original size:21 final size:22
Alignment explanation
Indices: 31603954--31604034 Score: 76
Period size: 21 Copynumber: 3.6 Consensus size: 22
31603944 ACTCCTAAAC
31603954 CTTAAACCCTAAACT-ATATAT
1 CTTAAACCCTAAACTCATATAT
* * * * *
31603975 CTTAATCCATAGTTAATTCATAAAC
1 CTTAAACCCTA---AACTCATATAT
31604000 CTTAAACCCTAAA-TCATATAT
1 CTTAAACCCTAAACTCATATAT
31604021 CTTAAACCCTAAAC
1 CTTAAACCCTAAAC
31604035 CTTAAACTAT
Statistics
Matches: 46, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
21 28 0.61
22 2 0.04
24 3 0.07
25 13 0.28
ACGTcount: A:0.42, C:0.25, G:0.01, T:0.32
Consensus pattern (22 bp):
CTTAAACCCTAAACTCATATAT
Found at i:31604005 original size:46 final size:46
Alignment explanation
Indices: 31603938--31604025 Score: 142
Period size: 46 Copynumber: 1.9 Consensus size: 46
31603928 CTTCAAATAC
*
31603938 TAGTTAACTCCTAAACCTTAAACCCTAAA-CTATATATCTTAATCCA
1 TAGTTAACTCATAAACCTTAAACCCTAAATC-ATATATCTTAATCCA
*
31603984 TAGTTAATTCATAAACCTTAAACCCTAAATCATATATCTTAA
1 TAGTTAACTCATAAACCTTAAACCCTAAATCATATATCTTAA
31604026 ACCCTAAACC
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
46 38 0.97
47 1 0.03
ACGTcount: A:0.41, C:0.23, G:0.02, T:0.34
Consensus pattern (46 bp):
TAGTTAACTCATAAACCTTAAACCCTAAATCATATATCTTAATCCA
Found at i:31604085 original size:25 final size:25
Alignment explanation
Indices: 31604051--31604100 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
31604041 CTATAATGAT
31604051 AATTAATTCGATATTTTAAATTCAA
1 AATTAATTCGATATTTTAAATTCAA
31604076 AATTAATTCGATATTTTAAATTCAA
1 AATTAATTCGATATTTTAAATTCAA
31604101 TACTATCTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.44
Consensus pattern (25 bp):
AATTAATTCGATATTTTAAATTCAA
Found at i:31604322 original size:40 final size:40
Alignment explanation
Indices: 31604228--31604474 Score: 309
Period size: 40 Copynumber: 6.1 Consensus size: 40
31604218 GTTATATGAC
* * * *
31604228 TTTTAGTGGCGTTTTGTCGAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTATTGCTCT-GT
*
31604269 TTTTAGTGGCGTTTTGCCAAAAGCGCCGCTATTGCTCTGT
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTATTGCTCTGT
* * *
31604309 TTTTAGCGGCGTTTTTCTAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTATTGCTCT-GT
*
31604350 TTTTAGCGGCGTTTTGCCAAAAGCGCCGTTATTGCTCTGT
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTATTGCTCTGT
**
31604390 TTTTAGCGGCGTTTTTG-GTAAAGCGCCGCTATTGCTCTGT
1 TTTTAGCGGCG-TTTTGCCAAAAGCGCCGCTATTGCTCTGT
* **
31604430 TTTTAGCGGCATTTTTGGTAAAA-CGCCGCTATTGCTCTGT
1 TTTTAGCGGC-GTTTTGCCAAAAGCGCCGCTATTGCTCTGT
31604470 GTTTT
1 -TTTT
31604475 TCAATTTTTG
Statistics
Matches: 184, Mismatches: 17, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
40 101 0.55
41 83 0.45
ACGTcount: A:0.15, C:0.21, G:0.26, T:0.39
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTATTGCTCTGT
Found at i:31604363 original size:81 final size:80
Alignment explanation
Indices: 31604228--31604474 Score: 354
Period size: 81 Copynumber: 3.0 Consensus size: 80
31604218 GTTATATGAC
* * *
31604228 TTTTAGTGGCGTTTTGTCGAAAGCGCCGCTAATGCTCTGGTTTTTAGTGGCGTTTTGCCAAAAGC
1 TTTTAGCGGCGTTTT-TCTAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTGCCAAAAGC
31604293 GCCGCTATTGCTCTGT
65 GCCGCTATTGCTCTGT
31604309 TTTTAGCGGCGTTTTTCTAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTGCCAAAAGC
1 TTTTAGCGGCGTTTTTCT-AAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTGCCAAAAGC
*
31604374 GCCGTTATTGCTCTGT
65 GCCGCTATTGCTCTGT
* * * **
31604390 TTTTAGCGGCGTTTTTGGTAAAGCGCCGCTATTGCTCT-GTTTTTAGCGGCATTTTTGGTAAAA-
1 TTTTAGCGGCGTTTTT-CTAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGC-GTTTTGCCAAAAG
31604453 CGCCGCTATTGCTCTGT
64 CGCCGCTATTGCTCTGT
31604470 GTTTT
1 -TTTT
31604475 TCAATTTTTG
Statistics
Matches: 152, Mismatches: 10, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
80 30 0.20
81 121 0.80
82 1 0.01
ACGTcount: A:0.15, C:0.21, G:0.26, T:0.39
Consensus pattern (80 bp):
TTTTAGCGGCGTTTTTCTAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTGCCAAAAGCG
CCGCTATTGCTCTGT
Found at i:31606368 original size:3 final size:3
Alignment explanation
Indices: 31606362--31606406 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
31606352 TATACATTAT
31606362 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
31606407 ACAAAATTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:31609823 original size:43 final size:45
Alignment explanation
Indices: 31609760--31609854 Score: 122
Period size: 43 Copynumber: 2.2 Consensus size: 45
31609750 CTGCTTAGGG
* *
31609760 AGATAAGATCTTCAATCTTCAATCTGCTTTCTTACTACCTCAGAA
1 AGATAAGATCTTCAATCTTCAACCTGCTCTCTTACTACCTCAGAA
** * *
31609805 AGATAAGA-C-TCAATCTTCAACCTGCTCTCTTGTTACCTTAGAG
1 AGATAAGATCTTCAATCTTCAACCTGCTCTCTTACTACCTCAGAA
31609848 AGATAAG
1 AGATAAG
31609855 GCCTGAGGCT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
43 35 0.80
44 1 0.02
45 8 0.18
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.33
Consensus pattern (45 bp):
AGATAAGATCTTCAATCTTCAACCTGCTCTCTTACTACCTCAGAA
Found at i:31609828 original size:177 final size:177
Alignment explanation
Indices: 31609506--31610607 Score: 1084
Period size: 177 Copynumber: 6.2 Consensus size: 177
31609496 AATAGGACTG
* * *
31609506 GTGGCTCAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCCTCAATCTGCTCCAC
1 GTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTTCAATCTGCTCCAC
* * * * * * *
31609571 AATTGCTTAGGGA-A-ACAGATCTTCAATCTTCAATCTACTTCCTTGCTACCTTAGGAAGATAAA
66 TACTACTTAGGGAGATA-AGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAG
* * *
31609634 ACTACAAT-TGCCAACCTGCTCTTTTGCTACCTCAGAGAGATAAGACTTA
130 ACT-CAATCT-TCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTA
* * * * * *
31609683 GTGGCTAAAATCTACTCCATTGTCGGTACATGGAGATAAGATTCGCCATCTTCGATCTGCTCTAC
1 GTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTTCAATCTGCTCCAC
* * * * *
31609748 TACTGCTTAGGGAGATAAGATCTTCAATCTTCAATCTGCTTTCTTACTACCTCAGAAAGATAAGA
66 TACTACTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGA
* * *
31609813 CTCAATCTTCAACCTGCTCTCTTGTTACCTTAGAGAGATAAGGCCT-
131 CTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTA
* * * * * * * *
31609859 GAGGCTTAAATCTGCTCCATTGCTGGTACATGGAGATAAGATTCGCTATCTCCGATCTGCTCCAC
1 GTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTTCAATCTGCTCCAC
* * * *
31609924 TACTACTTGGGGAGATAAGATCTTTAATCGTCAGTCTGCTTCCTTGCTACCTTAGGAAGATAAGA
66 TACTACTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGA
** *
31609989 CAAAAAT-TACCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTA
131 C-TCAATCT-TCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTA
* * * * * *
31610037 GTGGCTAAAATCTGCTCCATTACATG-TACACGGAGATAAGATTCACCGTCTTCGATTTGCTCCA
1 GTGGCTAAAATCTGCTCCATTGC-CGATACATGGAGATAAGATTCACCATCTTCAATCTGCTCCA
* * *
31610101 CTACTGCTTAGGGAGATAAGATCTTCAATCTTTAGTCTGCTTCCTTGCTACCTCAGGAATATAAG
65 CTACTACTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAG
* * * ** *
31610166 ACTCATTCTTCAACTTGCTCTCTTGCTACCTTAGAGAGGCAAGGC-TG
130 ACTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTA
** ** * * **
31610213 GTGATTTGAATCTGCTCCATTGTCAATACATGGAGATAAGATTCACCATCTTCAATCTGCTCCGT
1 GTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTTCAATCTGCTCCAC
* * * * * **
31610278 TGCAACTTCAGGGAGATAAGATCTTCAAT-TTCTAGTTTGTTTTCTTGCTACC-CAAAAAGATAA
66 TACTACTT-AGGGAGATAAGATCTTCAATCTTC-AGTCTGCTTCCTTGCTACCTCAGGAAGATAA
* *
31610341 GACTCATTCTTCAACCTGCTCTCTTGC-ACCTCAGAGAGATAAGG-TTG
129 GACTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTA
* * * **
31610388 GTGG-TAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATATTCAATTTACTCTGC
1 GTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTTCAATCTGCTCCAC
* * * * * * *
31610452 TGCAACTTCAAGGAGATAAGATCTTCAAACTTCAGTCTAC-TCCACTG-TAACCTCAGGGAGATA
66 TACTACTT-AGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCC-TTGCT-ACCTCAGGAAGATA
** * * * * * * * *
31610515 AGACTTGTATATTGAGCCTGCTC-CACTGCAACTTCAGGGAGATAAGGC-TG
128 AGAC-TCAATCTTCAACCTGCTCTC-TTGCTACCTCAGAGAGATAAGGCTTA
* * *
31610565 GTGACTTAAATCTGCTCCATTGCCGGTACATGGAGATAAGATT
1 GTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATT
31610608 TGTTGTCTTT
Statistics
Matches: 775, Mismatches: 129, Indels: 41
0.82 0.14 0.04
Matches are distributed among these distances:
173 3 0.00
174 87 0.11
175 34 0.04
176 222 0.29
177 231 0.30
178 195 0.25
179 3 0.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (177 bp):
GTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTTCAATCTGCTCCAC
TACTACTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGA
CTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTA
Found at i:31610167 original size:354 final size:350
Alignment explanation
Indices: 31609503--31610607 Score: 1194
Period size: 354 Copynumber: 3.1 Consensus size: 350
31609493 GGAAATAGGA
* *
31609503 CTGGTGGCTCAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATC-CTCAATCTGCT
1 CTGGTGACTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTC-CAATCTGCT
* * * * *
31609567 CCACAATTGCTTAGGGA-A-ACAGATCTTCAATCTTCAATCTACTTCCTTGCTACCTTAGGAAGA
65 CCACTACTACTTAGGGAGATA-AGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTTAGGAAGA
* * * *
31609630 TAAAACTACAATTGCCAACCTGCTCTTTTGCTACCTCAGAGAGATAAGACTTAGTGGCTAAAATC
129 TAAGAC-AAAATT-CCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTAGTGGCTAAAATC
* * * * *
31609695 TACTCCATTGTCGGTACATGGAGATAAGATTCGCCATCTTCGATCTGCTCTACTACTGCTTAGGG
192 TGCTCCATT-ACCGTACATGGAGATAAGATTCACCATCTTCGATTTGCTCTACTACTGCTTAGGG
* * * *
31609760 AGATAAGATCTTCAATCTTCAATCTGCTTTCTTACTACCTCAGAAAGATAAGACTCAATCTTCAA
256 AGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCAATCTTCAA
31609825 CCTGCTCTCTTGTTACCTTAGAGAGATAAGG
321 CCTGCTCTCTTG-TACCTTAGAGAGATAAGG
* * * *
31609856 CCTGAG-G-CTTAAATCTGCTCCATTGCTGGTACATGGAGATAAGATTCGCTATCTCCGATCTGC
1 -CTG-GTGACTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTCCAATCTGC
* * *
31609919 TCCACTACTACTTGGGGAGATAAGATCTTTAATCGTCAGTCTGCTTCCTTGCTACCTTAGGAAGA
64 TCCACTACTACTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTTAGGAAGA
31609984 TAAGACAAAAATTACCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTAGTGGCTAAAATC
129 TAAGAC-AAAATT-CCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTAGTGGCTAAAATC
* * * *
31610049 TGCTCCATTACATGTACACGGAGATAAGATTCACCGTCTTCGATTTGCTCCACTACTGCTTAGGG
192 TGCTCCATTAC-CGTACATGGAGATAAGATTCACCATCTTCGATTTGCTCTACTACTGCTTAGGG
* * *
31610114 AGATAAGATCTTCAATCTTTAGTCTGCTTCCTTGCTACCTCAGGAATATAAGACTCATTCTTCAA
256 AGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCAATCTTCAA
* **
31610179 CTTGCTCTCTTGCTACCTTAGAGAGGCAAGG
321 CCTGCTCTCTTG-TACCTTAGAGAGATAAGG
* * * * * *
31610210 CTGGTGATTTGAATCTGCTCCATTGTCAATACATGGAGATAAGATTCACCATCTTCAATCTGCTC
1 CTGGTGACTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTCCAATCTGCTC
** * * * * * * **
31610275 CGTTGCAACTTCAGGGAGATAAGATCTTCAAT-TTCTAGTTTGTTTTCTTGCTACC-CAAAAAGA
66 CACTACTACTT-AGGGAGATAAGATCTTCAATCTTC-AGTCTGCTTCCTTGCTACCTTAGGAAGA
** *
31610338 TAAGAC-TCATTCTTCAACCTGCTCTCTTGC-ACCTCAGAGAGATAAGG-TTGGTGG-TAAAATC
129 TAAGACAAAATTC--CAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTAGTGGCTAAAATC
* * * * * * ** *
31610399 TGCTCCATTGCCGATACATGGAGATAAGATTCACCATATTCAATTTACTCTGCTGCAACTTCAAG
192 TGCTCCATTACCG-TACATGGAGATAAGATTCACCATCTTCGATTTGCTCTACTACTGCTT-AGG
* * * * ** *
31610464 GAGATAAGATCTTCAAACTTCAGTCTAC-TCCACTG-TAACCTCAGGGAGATAAGACTTGTATAT
255 GAGATAAGATCTTCAATCTTCAGTCTGCTTCC-TTGCT-ACCTCAGGAAGATAAGAC-TCAATCT
* * * * * *
31610527 TGAGCCTGCTC-CACTGCAACTTCAGGGAGATAAGG
317 TCAACCTGCTCTC-TTGTACCTT-AGAGAGATAAGG
*
31610562 CTGGTGACTTAAATCTGCTCCATTGCCGGTACATGGAGATAAGATT
1 CTGGTGACTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATT
31610608 TGTTGTCTTT
Statistics
Matches: 632, Mismatches: 101, Indels: 38
0.82 0.13 0.05
Matches are distributed among these distances:
349 1 0.00
350 58 0.09
351 57 0.09
352 84 0.13
353 84 0.13
354 312 0.49
355 36 0.06
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (350 bp):
CTGGTGACTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTCCAATCTGCTC
CACTACTACTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTTAGGAAGATA
AGACAAAATTCCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTAGTGGCTAAAATCTGCT
CCATTACCGTACATGGAGATAAGATTCACCATCTTCGATTTGCTCTACTACTGCTTAGGGAGATA
AGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCAATCTTCAACCTGC
TCTCTTGTACCTTAGAGAGATAAGG
Found at i:31610552 original size:44 final size:45
Alignment explanation
Indices: 31610451--31610560 Score: 125
Period size: 44 Copynumber: 2.5 Consensus size: 45
31610441 ATTTACTCTG
* *
31610451 CTGCAACTTCAAGGAGATAAGATCTTCAAACTTCAGTCTACTCCA
1 CTGCAACTTCAGGGAGATAAGATCTTCAAACTTCAGCCTACTCCA
* * * * * *
31610496 CTGTAACCTCAGGGAGATAAGA-CTTGTATA-TTGAGCCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGATCTT-CAAACTTCAGCCTACTCCA
31610540 CTGCAACTTCAGGGAGATAAG
1 CTGCAACTTCAGGGAGATAAG
31610561 GCTGGTGACT
Statistics
Matches: 54, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
44 33 0.61
45 21 0.39
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (45 bp):
CTGCAACTTCAGGGAGATAAGATCTTCAAACTTCAGCCTACTCCA
Found at i:31610948 original size:129 final size:129
Alignment explanation
Indices: 31610717--31611039 Score: 524
Period size: 129 Copynumber: 2.5 Consensus size: 129
31610707 TTCATGTATC
*
31610717 ATGCTTATG-CAAAATAATTAGGATGCTATGATAAAAAAATAAATCAAATACTCCTAACTAGATG
1 ATGCTTATGTC-AAATAATTAGGATGCTATGAT-CAAAAATAAATCAAATACTCCTAACTAGATG
* *
31610781 TGACGCTGATGACAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGT
64 TGACGCTGATGACAAATAATTAGGACGCTATGATCGAAATGAATCAAATGCTCCTAACTAAATGT
31610846 G
129 G
31610847 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAAATAAATCAAATACTCCTAACTAGATGTG
1 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAAATAAATCAAATACTCCTAACTAGATGTG
* *
31610912 ATGCTGATGTCAAATAATTAGGACGCTATGATCGAAATGAATCAAATGCTCCTAACTAAATGTG
66 ACGCTGATGACAAATAATTAGGACGCTATGATCGAAATGAATCAAATGCTCCTAACTAAATGTG
* * * * *
31610976 TTGCTTATGTCAAATAATTAGGATGCTATGATC-GAAATGAATCAAATGCTCCTAAATAGATGTG
1 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAAATAAATCAAATACTCCTAACTAGATGTG
31611040 TTATGAATAA
Statistics
Matches: 182, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
128 27 0.15
129 124 0.68
130 30 0.16
131 1 0.01
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (129 bp):
ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAAATAAATCAAATACTCCTAACTAGATGTG
ACGCTGATGACAAATAATTAGGACGCTATGATCGAAATGAATCAAATGCTCCTAACTAAATGTG
Found at i:31611041 original size:64 final size:64
Alignment explanation
Indices: 31610717--31611039 Score: 468
Period size: 64 Copynumber: 5.0 Consensus size: 64
31610707 TTCATGTATC
** * *
31610717 ATGCTTATG-CAAAATAATTAGGATGCTATGATAAAAAAATAAATCAAATACTCCTAACTAGATG
1 ATGCTTATGTC-AAATAATTAGGATGCTATGAT--CGAAATGAATCAAATGCTCCTAACTAGATG
31610781 TG
63 TG
* * *
31610783 ACGCTGATGACAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
1 ATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
* * *
31610847 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAAATAAATCAAATACTCCTAACTAGATGTG
1 ATGCTTATGTCAAATAATTAGGATGCTATGATC-GAAATGAATCAAATGCTCCTAACTAGATGTG
* * *
31610912 ATGCTGATGTCAAATAATTAGGACGCTATGATCGAAATGAATCAAATGCTCCTAACTAAATGTG
1 ATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
* *
31610976 TTGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAAATAGATGTG
1 ATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
31611040 TTATGAATAA
Statistics
Matches: 232, Mismatches: 23, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
64 144 0.62
65 59 0.25
66 28 0.12
67 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (64 bp):
ATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
Found at i:31620758 original size:46 final size:46
Alignment explanation
Indices: 31620698--31620906 Score: 183
Period size: 46 Copynumber: 4.6 Consensus size: 46
31620688 AATTTCAACT
*
31620698 TGCTTCACTGCAACTTCAGGGAGATAAGGTTTGTGTATTTTTATCC
1 TGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGTATTTTTATCC
* * * * * **
31620744 TGCTCTACTGCAACTTCAGAGAGATAAGGATTATG-GTTTCGAT-C
1 TGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGTATTTTTATCC
* * ** * * * *
31620788 TGCTCCACTGAAACTTCAAGGAGATAAGACTTG-CTA-CTTCAACC
1 TGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGTATTTTTATCC
* * **
31620832 TACTCCACTGCAACTTTAGGGAGATAAGGTTTGTGTATTTTTATTA
1 TGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGTATTTTTATCC
* * *
31620878 TGCTCTACTGCAACTTTAGAGAGATAAGG
1 TGCTCCACTGCAACTTCAGGGAGATAAGG
31620907 ATCATGATTT
Statistics
Matches: 123, Mismatches: 36, Indels: 8
0.74 0.22 0.05
Matches are distributed among these distances:
43 2 0.02
44 55 0.45
45 7 0.06
46 59 0.48
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (46 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGTATTTTTATCC
Found at i:31620887 original size:134 final size:135
Alignment explanation
Indices: 31620646--31620925 Score: 400
Period size: 134 Copynumber: 2.1 Consensus size: 135
31620636 GATTTGTAGC
* * * * * * * *
31620646 TTCGATCTACTCCGCTGGAACTTAAAGGAGATAAAAATTGGTAATTTCAACTTGCTTCACTGCAA
1 TTCGATCTGCTCCACTGAAACTTAAAGGAGATAAAAATTGCTAACTTCAACCTACTCCACTGCAA
* *
31620711 CTTCAGGGAGATAAGGTTTGTGTATTTTTATCCTGCTCTACTGCAACTTCAGAGAGATAAGGATT
66 CTTCAGGGAGATAAGGTTTGTGTATTTTTATCATGCTCTACTGCAACTTCAGAGAGATAAGGATC
*
31620776 ATGGT
131 ATGAT
* * *
31620781 TTCGATCTGCTCCACTGAAACTTCAAGGAGATAAGACTTGCT-ACTTCAACCTACTCCACTGCAA
1 TTCGATCTGCTCCACTGAAACTTAAAGGAGATAAAAATTGCTAACTTCAACCTACTCCACTGCAA
* * *
31620845 CTTTAGGGAGATAAGGTTTGTGTATTTTTATTATGCTCTACTGCAACTTTAGAGAGATAAGGATC
66 CTTCAGGGAGATAAGGTTTGTGTATTTTTATCATGCTCTACTGCAACTTCAGAGAGATAAGGATC
31620910 ATGAT
131 ATGAT
31620915 TTCGATCTGCT
1 TTCGATCTGCT
31620926 TGATGTACTC
Statistics
Matches: 128, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
134 93 0.73
135 35 0.27
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.34
Consensus pattern (135 bp):
TTCGATCTGCTCCACTGAAACTTAAAGGAGATAAAAATTGCTAACTTCAACCTACTCCACTGCAA
CTTCAGGGAGATAAGGTTTGTGTATTTTTATCATGCTCTACTGCAACTTCAGAGAGATAAGGATC
ATGAT
Found at i:31621131 original size:35 final size:35
Alignment explanation
Indices: 31621081--31621151 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
31621071 TTTTTTCTTT
31621081 TTATTCTGTCACGGCTGGAGTCGTGGGCACGACGC
1 TTATTCTGTCACGGCTGGAGTCGTGGGCACGACGC
*
31621116 TTATTCTGTCGCGGCTGGAGTCGTGGGCACGACGC
1 TTATTCTGTCACGGCTGGAGTCGTGGGCACGACGC
31621151 T
1 T
31621152 GGGCACAACG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.13, C:0.25, G:0.35, T:0.27
Consensus pattern (35 bp):
TTATTCTGTCACGGCTGGAGTCGTGGGCACGACGC
Found at i:31628569 original size:8 final size:8
Alignment explanation
Indices: 31628556--31628604 Score: 53
Period size: 8 Copynumber: 6.0 Consensus size: 8
31628546 TAATTCGAAA
31628556 AAAAAAAG
1 AAAAAAAG
31628564 AAAAAAGAG
1 AAAAAA-AG
31628573 AAAAAAAG
1 AAAAAAAG
** *
31628581 TTAAAAAC
1 AAAAAAAG
*
31628589 AAAAAAAT
1 AAAAAAAG
31628597 AAAAAAAG
1 AAAAAAAG
31628605 TTTGATGATT
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
8 25 0.76
9 8 0.24
ACGTcount: A:0.82, C:0.02, G:0.10, T:0.06
Consensus pattern (8 bp):
AAAAAAAG
Found at i:31629379 original size:35 final size:35
Alignment explanation
Indices: 31629329--31629399 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
31629319 TTTTTTCTTT
*
31629329 TTATTTTGTCACGGCTGGAGTCGTGGGCACGACGC
1 TTATTCTGTCACGGCTGGAGTCGTGGGCACGACGC
*
31629364 TTATTCTGTCGCGGCTGGAGTCGTGGGCACGACGC
1 TTATTCTGTCACGGCTGGAGTCGTGGGCACGACGC
31629399 T
1 T
31629400 GGGCACGACG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.13, C:0.24, G:0.35, T:0.28
Consensus pattern (35 bp):
TTATTCTGTCACGGCTGGAGTCGTGGGCACGACGC
Found at i:31629412 original size:35 final size:35
Alignment explanation
Indices: 31629340--31629412 Score: 85
Period size: 35 Copynumber: 2.1 Consensus size: 35
31629330 TATTTTGTCA
** * *
31629340 CGGCTGGAGTCGTGGGCACGACGCTTATTCTGTCG
1 CGGCTGGAGTCGTGGGCACGACGCTTAGGCCGACG
*
31629375 CGGCTGGAGTCGTGGGCACGACGC-TGGGCACGACG
1 CGGCTGGAGTCGTGGGCACGACGCTTAGGC-CGACG
31629410 CGG
1 CGG
31629413 ATCTGACGTG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
34 2 0.06
35 30 0.94
ACGTcount: A:0.12, C:0.27, G:0.42, T:0.18
Consensus pattern (35 bp):
CGGCTGGAGTCGTGGGCACGACGCTTAGGCCGACG
Found at i:31630627 original size:44 final size:44
Alignment explanation
Indices: 31630562--31631172 Score: 359
Period size: 44 Copynumber: 13.7 Consensus size: 44
31630552 CTTGTCACTA
* *
31630562 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTACTTCAACCTG
1 CTCCACTGCAACTTCAAGGAGATAAGACTTGCTACTTCAATCTG
* * * ** *
31630606 CTCCACTGCAACTTCAAGGAGATAAGATTTGTGTATTTTTATCCTA
1 CTCCACTGCAACTTCAAGGAGATAAGACTTG-CTACTTCAAT-CTG
* * * *
31630652 CTCTACTACAACTTC-AGAGAGATAAGGATCATGGT--TTCAATCTG
1 CTCCACTGCAACTTCAAG-GAGATAA-GA-CTTGCTACTTCAATCTG
* * *
31630696 TTCCACTGCAACTTCAGGGAGATAAGA-TCTGCTATCTTCAGTCTG
1 CTCCACTGCAACTTCAAGGAGATAAGACT-TGCTA-CTTCAATCTG
* * * *
31630741 CTCCATTGTAACTTC-AGAGAGATAAGACTTGTTACTTCAACCTG
1 CTCCACTGCAACTTCAAG-GAGATAAGACTTGCTACTTCAATCTG
** * * ** *
31630785 CTCCACTGCAACTTCAAGGAGATAAGGTTTGTGTATTTTTATCCTA
1 CTCCACTGCAACTTCAAGGAGATAAGACTTG-CTACTTCAAT-CTG
* * * * * *
31630831 CTCTACTGCAACTT-TAGAGAGATAAGGATCATGGT--TTTAACCTG
1 CTCCACTGCAACTTCAAG-GAGATAA-GA-CTTGCTACTTCAATCTG
* * *
31630875 CTCCACTGCAACTTCAGGGAGATAAGA-TATGTTATCTTCAGTCTG
1 CTCCACTGCAACTTCAAGGAGATAAGACT-TGCTA-CTTCAATCTG
* * * *
31630920 TTCCACTGCAACTTCAGGGAGATAAGACTTGCTATCTTCAGTCTA
1 CTCCACTGCAACTTCAAGGAGATAAGACTTGCTA-CTTCAATCTG
* ** *
31630965 CTTCACTGCAACTTCTGGGAGATAAGACTTGCTACTTCAACCTG
1 CTCCACTGCAACTTCAAGGAGATAAGACTTGCTACTTCAATCTG
* * * * * *
31631009 TTCCACTGCAACTT-TAGGAAGATAAGA-TCCGCCATTTGCAATCTA
1 CTCCACTGCAACTTCAAGG-AGATAAGACT-TGCTACTT-CAATCTG
* ** * * * * *
31631054 CTCCACTGCAACTTCAAGGAAATGGGA-TTACTGTCTTTAGTCTA
1 CTCCACTGCAACTTCAAGGAGATAAGACTTGCT-ACTTCAATCTG
* * * *
31631098 CTCCACT-CAACTTTAGGGAGATAAGACTTG-TGGCTTCAATCTA
1 CTCCACTGCAACTTCAAGGAGATAAGACTTGCT-ACTTCAATCTG
* * *
31631141 CTCCACTGTAACTTCAGGGAGATAAGATTTGC
1 CTCCACTGCAACTTCAAGGAGATAAGACTTGC
31631173 CATGATAATT
Statistics
Matches: 439, Mismatches: 96, Indels: 63
0.73 0.16 0.11
Matches are distributed among these distances:
42 6 0.01
43 39 0.09
44 172 0.39
45 162 0.37
46 49 0.11
47 7 0.02
48 4 0.01
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (44 bp):
CTCCACTGCAACTTCAAGGAGATAAGACTTGCTACTTCAATCTG
Found at i:31630717 original size:90 final size:90
Alignment explanation
Indices: 31630559--31630945 Score: 403
Period size: 90 Copynumber: 4.3 Consensus size: 90
31630549 ACGCTTGTCA
* * * *
31630559 CTACTCCACTGCAACTTCAGGGAGATAA-GA-CTTGCTACTTCAACCTGCTCCACTGCAACTTCA
1 CTACTCTACTGCAACTTCAGAGAGATAAGGATCATGGT--TTCAACCTGCTCCACTGCAACTTCA
31630622 AGGAGATAAGATTTGTGTATTTTTATC
64 AGGAGATAAGATTTGTGTATTTTTATC
* * * *
31630649 CTACTCTACTACAACTTCAGAGAGATAAGGATCATGGTTTCAATCTGTTCCACTGCAACTTCAGG
1 CTACTCTACTGCAACTTCAGAGAGATAAGGATCATGGTTTCAACCTGCTCCACTGCAACTTCAAG
* * * *
31630714 GAGATAAGATCTG-CTATCTTCAGT-
66 GAGATAAGATTTGTGTATTTTTA-TC
* * * * * *
31630738 CTGCTCCATTGTAACTTCAGAGAGATAA-GA-CTTGTTACTTCAACCTGCTCCACTGCAACTTCA
1 CTACTCTACTGCAACTTCAGAGAGATAAGGATCATGGT--TTCAACCTGCTCCACTGCAACTTCA
*
31630801 AGGAGATAAGGTTTGTGTATTTTTATC
64 AGGAGATAAGATTTGTGTATTTTTATC
* * *
31630828 CTACTCTACTGCAACTTTAGAGAGATAAGGATCATGGTTTTAACCTGCTCCACTGCAACTTCAGG
1 CTACTCTACTGCAACTTCAGAGAGATAAGGATCATGGTTTCAACCTGCTCCACTGCAACTTCAAG
* * *
31630893 GAGATAAGATATGT-TATCTTCAGT-
66 GAGATAAGATTTGTGTATTTTTA-TC
** * *
31630917 CTGTTCCACTGCAACTTCAGGGAGATAAG
1 CTACTCTACTGCAACTTCAGAGAGATAAG
31630946 ACTTGCTATC
Statistics
Matches: 242, Mismatches: 45, Indels: 21
0.79 0.15 0.07
Matches are distributed among these distances:
87 4 0.02
88 2 0.01
89 95 0.39
90 129 0.53
91 4 0.02
92 8 0.03
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.31
Consensus pattern (90 bp):
CTACTCTACTGCAACTTCAGAGAGATAAGGATCATGGTTTCAACCTGCTCCACTGCAACTTCAAG
GAGATAAGATTTGTGTATTTTTATC
Found at i:31630790 original size:89 final size:89
Alignment explanation
Indices: 31630559--31631168 Score: 472
Period size: 89 Copynumber: 6.8 Consensus size: 89
31630549 ACGCTTGTCA
* * *
31630559 CTACTCCACTGCAACTTCAGGGAGATAAGACTTGCTACTTCAACCTGCTCCACTGCAACTTCAAG
1 CTACTCCACTGCAACTTCAGAGAGATAAGACTTGCTACTTCAATCTGCTCCACTGCAACTTCAGG
* * * *
31630624 GAGATAAGATTTGTGTATTTTTA-T
66 GAGATAAGATCTG-CTATCTTCAGT
* * * * *
31630648 CCTACTCTACTACAACTTCAGAGAGATAAGGATCATGGT--TTCAATCTGTTCCACTGCAACTTC
1 -CTACTCCACTGCAACTTCAGAGAGATAA-GA-CTTGCTACTTCAATCTGCTCCACTGCAACTTC
31630711 AGGGAGATAAGATCTGCTATCTTCAGT
63 AGGGAGATAAGATCTGCTATCTTCAGT
* * * * * *
31630738 CTGCTCCATTGTAACTTCAGAGAGATAAGACTTGTTACTTCAACCTGCTCCACTGCAACTTCAAG
1 CTACTCCACTGCAACTTCAGAGAGATAAGACTTGCTACTTCAATCTGCTCCACTGCAACTTCAGG
* * * * *
31630803 GAGATAAGGTTTGTGTATTTTTA-T
66 GAGATAAGATCTG-CTATCTTCAGT
* * * * * *
31630827 CCTACTCTACTGCAACTTTAGAGAGATAAGGATCATGGT--TTTAACCTGCTCCACTGCAACTTC
1 -CTACTCCACTGCAACTTCAGAGAGATAA-GA-CTTGCTACTTCAATCTGCTCCACTGCAACTTC
* *
31630890 AGGGAGATAAGATATGTTATCTTCAGT
63 AGGGAGATAAGATCTGCTATCTTCAGT
** * * * * *
31630917 CTGTTCCACTGCAACTTCAGGGAGATAAGACTTGCTATCTTCAGTCTACTTCACTGCAACTTCTG
1 CTACTCCACTGCAACTTCAGAGAGATAAGACTTGCTA-CTTCAATCTGCTCCACTGCAACTTCAG
**
31630982 GGAGATAAGA-CTTGCTA-CTTCAAC
65 GGAGATAAGATC-TGCTATCTTCAGT
** * * * * *
31631006 CTGTTCCACTGCAACTTTAG-GAAGATAAGA-TCCGCCATTTGCAATCTACTCCACTGCAACTTC
1 CTACTCCACTGCAACTTCAGAG-AGATAAGACT-TGCTACTT-CAATCTGCTCCACTGCAACTTC
* * ** * * *
31631069 AAGGAAATGGGAT-TACTGTCTTTAGT
63 AGGGAGATAAGATCTGCTATCTTCAGT
* * * * *
31631095 CTACTCCACT-CAACTTTAGGGAGATAAGACTTG-TGGCTTCAATCTACTCCACTGTAACTTCAG
1 CTACTCCACTGCAACTTCAGAGAGATAAGACTTGCT-ACTTCAATCTGCTCCACTGCAACTTCAG
31631158 GGAGATAAGAT
65 GGAGATAAGAT
31631169 TTGCCATGAT
Statistics
Matches: 413, Mismatches: 85, Indels: 47
0.76 0.16 0.09
Matches are distributed among these distances:
87 38 0.09
88 31 0.08
89 170 0.41
90 162 0.39
91 4 0.01
92 8 0.02
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (89 bp):
CTACTCCACTGCAACTTCAGAGAGATAAGACTTGCTACTTCAATCTGCTCCACTGCAACTTCAGG
GAGATAAGATCTGCTATCTTCAGT
Found at i:31630882 original size:179 final size:179
Alignment explanation
Indices: 31630562--31631171 Score: 687
Period size: 179 Copynumber: 3.4 Consensus size: 179
31630552 CTTGTCACTA
31630562 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTACTTCAACCTGCTCCACTGCAACTTCAAGGAG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTACTTCAACCTGCTCCACTGCAACTTCAAGGAG
31630627 ATAAGATTTGTGTATTTTTATCCTACTCTACTACAACTTCAGAGAGATAAGGATCATGGTTTCAA
66 ATAAGATTTGTGTATTTTTATCCTACTCTACTACAACTTCAGAGAGATAAGGATCATGGTTTCAA
* * *
31630692 TCTGTTCCACTGCAACTTCAGGGAGATAAGATCTGCTATCTTCAGTCTG
131 CCTGCTCCACTGCAACTTCAGGGAGATAAGATATGCTATCTTCAGTCTG
* * * *
31630741 CTCCATTGTAACTTCAGAGAGATAAGACTTGTTACTTCAACCTGCTCCACTGCAACTTCAAGGAG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTACTTCAACCTGCTCCACTGCAACTTCAAGGAG
* * * *
31630806 ATAAGGTTTGTGTATTTTTATCCTACTCTACTGCAACTTTAGAGAGATAAGGATCATGGTTTTAA
66 ATAAGATTTGTGTATTTTTATCCTACTCTACTACAACTTCAGAGAGATAAGGATCATGGTTTCAA
*
31630871 CCTGCTCCACTGCAACTTCAGGGAGATAAGATATGTTATCTTCAGTCTG
131 CCTGCTCCACTGCAACTTCAGGGAGATAAGATATGCTATCTTCAGTCTG
* ** * * **
31630920 TTCCACTGCAACTTCAGGGAGATAAGACTTGCTATCTTCAGTCTACTTCACTGCAACTTCTGGGA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTA-CTTCAACCTGCTCCACTGCAACTTCAAGGA
* * * * * ** * * * * *
31630985 GATAAGACTTG-CTA-CTTCAACCTGTTCCACTGCAACTTTAG-GAAGATAA-GATC-CGCCATT
65 GATAAGATTTGTGTATTTTTATCCTACTCTACTACAACTTCAGAG-AGATAAGGATCATG--GTT
* * * * ** * * * *
31631045 TGCAATCTACTCCACTGCAACTTCAAGGAAATGGGAT-TACTGTCTTTAGTCTA
127 T-CAACCTGCTCCACTGCAACTTCAGGGAGATAAGATATGCTATCTTCAGTCTG
* * * * * *
31631098 CTCCACT-CAACTTTAGGGAGATAAGACTTG-TGGCTTCAATCTACTCCACTGTAACTTCAGGGA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCT-ACTTCAACCTGCTCCACTGCAACTTCAAGGA
31631161 GATAAGATTTG
65 GATAAGATTTG
31631172 CCATGATAAT
Statistics
Matches: 371, Mismatches: 54, Indels: 15
0.84 0.12 0.03
Matches are distributed among these distances:
176 38 0.10
177 27 0.07
178 47 0.13
179 226 0.61
180 33 0.09
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (179 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGCTACTTCAACCTGCTCCACTGCAACTTCAAGGAG
ATAAGATTTGTGTATTTTTATCCTACTCTACTACAACTTCAGAGAGATAAGGATCATGGTTTCAA
CCTGCTCCACTGCAACTTCAGGGAGATAAGATATGCTATCTTCAGTCTG
Found at i:31631154 original size:132 final size:134
Alignment explanation
Indices: 31630559--31631168 Score: 349
Period size: 134 Copynumber: 4.6 Consensus size: 134
31630549 ACGCTTGTCA
* *
31630559 CTACTCCACTGCAACTTCAGGGAGATAAGACTTGCTACTTCAACCTGCTCCACTGCAACTTCAAG
1 CTACTCCACTGCAACTTCTGGGAGATAAGACTTGCTACTTCAACCTACTCCACTGCAACTTC-AG
** ** ** * * * *
31630624 G-AGATAAGATTTGTGTATTT-TTATCCTACTCTACTACAACTTC-AGAGAGATAAGGA-TCA-T
65 GAAGATAAGATCCG-CCATTTGCAAT-CTACTCCACTGCAACTTCAAG-GAAATAA-GACTTACT
* *
31630684 GGT-TTCAAT
126 -ATCTTCAGT
** * ** * * *
31630693 CTGTTCCACTGCAACTTCAGGGAGATAAGA-TCTGCTATCTTCAGTCTGCTCCATTGTAACTTCA
1 CTACTCCACTGCAACTTCTGGGAGATAAGACT-TGCTA-CTTCAACCTACTCCACTGCAACTTCA
* ** * * * * ** **
31630757 -GAGAGATAAGA-CTTGTTACTT-CAACCTGCTCCACTGCAACTTCAAGGAGATAAGGTTTGTGT
64 GGA-AGATAAGATC-CGCCATTTGCAATCTACTCCACTGCAACTTCAAGGAAATAAGACTT-ACT
* *
31630819 ATTTTTA-T
126 ATCTTCAGT
* * * * * *
31630827 CCTACTCTACTGCAACTT-TAGAGAGATAAGGATCATGGT--TTTAACCTGCTCCACTGCAACTT
1 -CTACTCCACTGCAACTTCT-GGGAGATAA-GA-CTTGCTACTTCAACCTACTCCACTGCAACTT
* ** ** * ** * * *
31630889 CAGGGAGATAAGATATGTTATCTT-CAGTCTGTTCCACTGCAACTTCAGGGAGATAAGACTTGCT
62 CAGGAAGATAAGATCCGCCAT-TTGCAATCTACTCCACTGCAACTTCAAGGAAATAAGACTTACT
31630953 ATCTTCAGT
126 ATCTTCAGT
* ** *
31630962 CTACTTCACTGCAACTTCTGGGAGATAAGACTTGCTACTTCAACCTGTTCCACTGCAACTTTAGG
1 CTACTCCACTGCAACTTCTGGGAGATAAGACTTGCTACTTCAACCTACTCCACTGCAACTTCAGG
** *
31631027 AAGATAAGATCCGCCATTTGCAATCTACTCCACTGCAACTTCAAGGAAATGGGA-TTACTGTCTT
66 AAGATAAGATCCGCCATTTGCAATCTACTCCACTGCAACTTCAAGGAAATAAGACTTACTATCTT
*
31631091 TAGT
131 CAGT
* * *
31631095 CTACTCCACT-CAACTT-TAGGGAGATAAGACTTG-TGGCTTCAATCTACTCCACTGTAACTTCA
1 CTACTCCACTGCAACTTCT-GGGAGATAAGACTTGCT-ACTTCAACCTACTCCACTGCAACTTCA
*
31631157 GGGAGATAAGAT
64 GGAAGATAAGAT
31631169 TTGCCATGAT
Statistics
Matches: 375, Mismatches: 76, Indels: 52
0.75 0.15 0.10
Matches are distributed among these distances:
131 2 0.01
132 58 0.15
133 49 0.13
134 168 0.45
135 93 0.25
136 2 0.01
137 3 0.01
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (134 bp):
CTACTCCACTGCAACTTCTGGGAGATAAGACTTGCTACTTCAACCTACTCCACTGCAACTTCAGG
AAGATAAGATCCGCCATTTGCAATCTACTCCACTGCAACTTCAAGGAAATAAGACTTACTATCTT
CAGT
Found at i:31634845 original size:13 final size:13
Alignment explanation
Indices: 31634827--31634852 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31634817 GGTGCTTCCC
31634827 AACATATGAGTGA
1 AACATATGAGTGA
31634840 AACATATGAGTGA
1 AACATATGAGTGA
31634853 TGAATAGAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.23, T:0.23
Consensus pattern (13 bp):
AACATATGAGTGA
Found at i:31635943 original size:19 final size:20
Alignment explanation
Indices: 31635919--31635963 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
31635909 TTGTGACATT
*
31635919 CAATGCATATG-ATGAAATG
1 CAATGCAGATGCATGAAATG
31635938 CAATGCAGATGCATGAAATG
1 CAATGCAGATGCATGAAATG
31635958 -AATGCA
1 CAATGCA
31635964 AAAAGAGACG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.42, C:0.13, G:0.22, T:0.22
Consensus pattern (20 bp):
CAATGCAGATGCATGAAATG
Found at i:31637900 original size:3 final size:3
Alignment explanation
Indices: 31637892--31637920 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
31637882 TATATACATA
31637892 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
31637921 GCAAAATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:31639546 original size:9 final size:9
Alignment explanation
Indices: 31639532--31639621 Score: 85
Period size: 9 Copynumber: 10.1 Consensus size: 9
31639522 TTTGGTTAAA
31639532 AATTAACCG
1 AATTAACCG
*
31639541 AATTAAACG
1 AATTAACCG
31639550 AATT-ACCTG
1 AATTAACC-G
31639559 AATTAACCG
1 AATTAACCG
31639568 AATTAACCG
1 AATTAACCG
* *
31639577 -ATTACCCA
1 AATTAACCG
* *
31639585 AATTACCCA
1 AATTAACCG
*
31639594 AATTACCCG
1 AATTAACCG
*
31639603 AATTACCCG
1 AATTAACCG
*
31639612 AATTACCCG
1 AATTAACCG
31639621 A
1 A
31639622 TTTGAATCAC
Statistics
Matches: 73, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
8 8 0.11
9 62 0.85
10 3 0.04
ACGTcount: A:0.41, C:0.27, G:0.09, T:0.23
Consensus pattern (9 bp):
AATTAACCG
Found at i:31639620 original size:18 final size:18
Alignment explanation
Indices: 31639532--31639621 Score: 101
Period size: 18 Copynumber: 5.1 Consensus size: 18
31639522 TTTGGTTAAA
* **
31639532 AATTAACCGAATTAAACG
1 AATTACCCGAATTACCCG
* *
31639550 AATTACCTGAATTAACCG
1 AATTACCCGAATTACCCG
* *
31639568 AATTAACCG-ATTACCCA
1 AATTACCCGAATTACCCG
*
31639585 AATTACCCAAATTACCCG
1 AATTACCCGAATTACCCG
31639603 AATTACCCGAATTACCCG
1 AATTACCCGAATTACCCG
31639621 A
1 A
31639622 TTTGAATCAC
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
17 13 0.22
18 47 0.78
ACGTcount: A:0.41, C:0.27, G:0.09, T:0.23
Consensus pattern (18 bp):
AATTACCCGAATTACCCG
Found at i:31639691 original size:17 final size:17
Alignment explanation
Indices: 31639669--31639766 Score: 52
Period size: 17 Copynumber: 5.4 Consensus size: 17
31639659 TTTGAATCAC
31639669 TACATAATTAAAAATAT
1 TACATAATTAAAAATAT
** *
31639686 TACATAAGTATATGAATCAC
1 TACATAA-T-TAAAAAT-AT
* *
31639706 TGCATAATTAAAAACAT
1 TACATAATTAAAAATAT
*** *
31639723 TACATAAGTCTTTGAATCAC
1 TACATAA-T-TAAAAAT-AT
*
31639743 TACATAATTAAAAACAT
1 TACATAATTAAAAATAT
31639760 TACATAA
1 TACATAA
31639767 ATCTTGAAAT
Statistics
Matches: 56, Mismatches: 19, Indels: 12
0.64 0.22 0.14
Matches are distributed among these distances:
17 22 0.39
18 9 0.16
19 10 0.18
20 15 0.27
ACGTcount: A:0.50, C:0.13, G:0.05, T:0.32
Consensus pattern (17 bp):
TACATAATTAAAAATAT
Found at i:31639748 original size:20 final size:19
Alignment explanation
Indices: 31639622--31639749 Score: 52
Period size: 20 Copynumber: 6.9 Consensus size: 19
31639612 AATTACCCGA
31639622 TTTGAATCACTACATAA--
1 TTTGAATCACTACATAAGT
** * * *
31639639 TTAAAAACATTAAATAAGT
1 TTTGAATCACTACATAAGT
31639658 CTTTGAATCACTACATAA-T
1 -TTTGAATCACTACATAAGT
*** *
31639677 TAAAAAT-ATTACATAAGT
1 TTTGAATCACTACATAAGT
* *
31639695 ATATGAATCACTGCATAA--
1 -TTTGAATCACTACATAAGT
** * *
31639713 TTAAAAACATTACATAAGT
1 TTTGAATCACTACATAAGT
31639732 CTTTGAATCACTACATAA
1 -TTTGAATCACTACATAA
31639750 TTAAAAACAT
Statistics
Matches: 74, Mismatches: 28, Indels: 15
0.63 0.24 0.13
Matches are distributed among these distances:
17 31 0.42
18 5 0.07
19 6 0.08
20 32 0.43
ACGTcount: A:0.47, C:0.14, G:0.06, T:0.33
Consensus pattern (19 bp):
TTTGAATCACTACATAAGT
Found at i:31639788 original size:37 final size:37
Alignment explanation
Indices: 31639622--31639771 Score: 246
Period size: 37 Copynumber: 4.1 Consensus size: 37
31639612 AATTACCCGA
*
31639622 TTTGAATCACTACATAATTAAAAACATTAAATAAGTC
1 TTTGAATCACTACATAATTAAAAACATTACATAAGTC
* *
31639659 TTTGAATCACTACATAATTAAAAATATTACATAAGTA
1 TTTGAATCACTACATAATTAAAAACATTACATAAGTC
* *
31639696 TATGAATCACTGCATAATTAAAAACATTACATAAGTC
1 TTTGAATCACTACATAATTAAAAACATTACATAAGTC
*
31639733 TTTGAATCACTACATAATTAAAAACATTACATAAATC
1 TTTGAATCACTACATAATTAAAAACATTACATAAGTC
31639770 TT
1 TT
31639772 GAAATTAACA
Statistics
Matches: 103, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 103 1.00
ACGTcount: A:0.47, C:0.14, G:0.05, T:0.33
Consensus pattern (37 bp):
TTTGAATCACTACATAATTAAAAACATTACATAAGTC
Found at i:31640939 original size:28 final size:26
Alignment explanation
Indices: 31640899--31640956 Score: 80
Period size: 28 Copynumber: 2.2 Consensus size: 26
31640889 GCTATGATAC
* *
31640899 TTTTGAAGGTTTTGGGAGATTTTGAAGA
1 TTTTAAAGGTTTTGAGAGA-TTTGAA-A
31640927 TTTTAAAGGTTTTGAGAGATTTGAAA
1 TTTTAAAGGTTTTGAGAGATTTGAAA
31640953 TTTT
1 TTTT
31640957 CAATTAGGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 5 0.18
27 6 0.21
28 17 0.61
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.47
Consensus pattern (26 bp):
TTTTAAAGGTTTTGAGAGATTTGAAA
Found at i:31641127 original size:13 final size:13
Alignment explanation
Indices: 31641109--31641142 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
31641099 ATTTGTATTG
*
31641109 GGTTGGGTAATTA
1 GGTTGGGTAAATA
*
31641122 GGTTGGGTAAATG
1 GGTTGGGTAAATA
31641135 GGTTGGGT
1 GGTTGGGT
31641143 TGGGTTGGCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.18, C:0.00, G:0.47, T:0.35
Consensus pattern (13 bp):
GGTTGGGTAAATA
Found at i:31643088 original size:14 final size:14
Alignment explanation
Indices: 31643071--31643099 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
31643061 AAAGGAGAGT
31643071 TTACTGGGGAGGAG
1 TTACTGGGGAGGAG
31643085 TTACTGGGGAGGAG
1 TTACTGGGGAGGAG
31643099 T
1 T
31643100 AAGAAGATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.48, T:0.24
Consensus pattern (14 bp):
TTACTGGGGAGGAG
Found at i:31644046 original size:126 final size:126
Alignment explanation
Indices: 31643894--31644150 Score: 514
Period size: 126 Copynumber: 2.0 Consensus size: 126
31643884 AGGAAGGTTT
31643894 AATGTGTGTATTGTTTCTGTAAGCAATCAAGAGAGTTTCTTGAGTTGCAAAGATAAGCTTTTGAG
1 AATGTGTGTATTGTTTCTGTAAGCAATCAAGAGAGTTTCTTGAGTTGCAAAGATAAGCTTTTGAG
31643959 GGGCAAGCTTAATGGGAGAGTGATATAGTCTTTGTACAACAGCGAGCTCGCTAAATTGGTG
66 GGGCAAGCTTAATGGGAGAGTGATATAGTCTTTGTACAACAGCGAGCTCGCTAAATTGGTG
31644020 AATGTGTGTATTGTTTCTGTAAGCAATCAAGAGAGTTTCTTGAGTTGCAAAGATAAGCTTTTGAG
1 AATGTGTGTATTGTTTCTGTAAGCAATCAAGAGAGTTTCTTGAGTTGCAAAGATAAGCTTTTGAG
31644085 GGGCAAGCTTAATGGGAGAGTGATATAGTCTTTGTACAACAGCGAGCTCGCTAAATTGGTG
66 GGGCAAGCTTAATGGGAGAGTGATATAGTCTTTGTACAACAGCGAGCTCGCTAAATTGGTG
31644146 AATGT
1 AATGT
31644151 TAGATCCGTG
Statistics
Matches: 131, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
126 131 1.00
ACGTcount: A:0.29, C:0.12, G:0.28, T:0.32
Consensus pattern (126 bp):
AATGTGTGTATTGTTTCTGTAAGCAATCAAGAGAGTTTCTTGAGTTGCAAAGATAAGCTTTTGAG
GGGCAAGCTTAATGGGAGAGTGATATAGTCTTTGTACAACAGCGAGCTCGCTAAATTGGTG
Found at i:31659110 original size:26 final size:26
Alignment explanation
Indices: 31659076--31659127 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
31659066 AAACTCTTCT
* *
31659076 AAAAC-AAAATTCAAGAGAAATTTTTA
1 AAAACAAAAACTCAA-AGAAAATTTTA
*
31659102 AAAAGAAAAACTCAAAGAAAATTTTA
1 AAAACAAAAACTCAAAGAAAATTTTA
31659128 TTAACTTAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 14 0.64
27 8 0.36
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.23
Consensus pattern (26 bp):
AAAACAAAAACTCAAAGAAAATTTTA
Found at i:31659672 original size:14 final size:15
Alignment explanation
Indices: 31659653--31659692 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
31659643 AACATTATAT
31659653 ATTAATTTT-AATTA
1 ATTAATTTTCAATTA
31659667 ATTAATTTTTCAATTA
1 ATTAA-TTTTCAATTA
*
31659683 AATAATTTTC
1 ATTAATTTTC
31659693 TCAACTCGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 5 0.22
15 9 0.39
16 9 0.39
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTAATTTTCAATTA
Found at i:31659683 original size:16 final size:16
Alignment explanation
Indices: 31659653--31659696 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
31659643 AACATTATAT
31659653 ATTAA-TTTT-AATTA
1 ATTAATTTTTCAATTA
31659667 ATTAATTTTTCAATTA
1 ATTAATTTTTCAATTA
*
31659683 AATAATTTTCTCAA
1 ATTAATTTT-TCAA
31659697 CTCGATTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 5 0.19
15 4 0.15
16 13 0.50
17 4 0.15
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (16 bp):
ATTAATTTTTCAATTA
Found at i:31660320 original size:105 final size:105
Alignment explanation
Indices: 31660138--31660332 Score: 282
Period size: 105 Copynumber: 1.9 Consensus size: 105
31660128 GACATACCAT
* ** *
31660138 TACGAAAGCTACTTGATCACTACTCATCCAATGACCTTGTCAAAAGTGTGTTACCTTCATAGAAT
1 TACGAAAGCTACTCGATCACTACTCATCCAATGACCTTACCAAAAGTGTGTTACCTTCATAGAAC
31660203 ATCCTTAATCTCTTTGGGATAAATCTATTCTCCCGAATGA
66 ATCCTTAATCTCTTTGGGATAAATCTATTCTCCCGAATGA
* * ** * *
31660243 TACGAAAGTTACTCGATCAGTACTTGTCCAATGACCTTACCATAAGTTTGTTACCTTCATAGAAC
1 TACGAAAGCTACTCGATCACTACTCATCCAATGACCTTACCAAAAGTGTGTTACCTTCATAGAAC
* *
31660308 ATCTTTAATCTCTTTTGGATAAATC
66 ATCCTTAATCTCTTTGGGATAAATC
31660333 CGTTCTCCTA
Statistics
Matches: 78, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
105 78 1.00
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (105 bp):
TACGAAAGCTACTCGATCACTACTCATCCAATGACCTTACCAAAAGTGTGTTACCTTCATAGAAC
ATCCTTAATCTCTTTGGGATAAATCTATTCTCCCGAATGA
Found at i:31661425 original size:22 final size:23
Alignment explanation
Indices: 31661400--31661444 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
31661390 CCTTAAAGTT
31661400 TAATT-AATT-AAAATATTTAAAA
1 TAATTGAATTCAAAAT-TTTAAAA
*
31661422 TAATTGAGTTCAAAATTTTAAAA
1 TAATTGAATTCAAAATTTTAAAA
31661445 AAAAAATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 5 0.25
23 10 0.50
24 5 0.25
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.40
Consensus pattern (23 bp):
TAATTGAATTCAAAATTTTAAAA
Found at i:31663196 original size:11 final size:11
Alignment explanation
Indices: 31663165--31663196 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
31663155 TGAAATTTTC
31663165 TCAAAATTCTA
1 TCAAAATTCTA
*
31663176 TCAAATTTCTA
1 TCAAAATTCTA
31663187 TCAAAATTCT
1 TCAAAATTCT
31663197 TTGTTTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (11 bp):
TCAAAATTCTA
Found at i:31663225 original size:15 final size:15
Alignment explanation
Indices: 31663205--31663236 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
31663195 CTTTGTTTAA
*
31663205 AATTTTTTTAAATTT
1 AATTTTTTTAAAATT
31663220 AATTTTTTTAAAATT
1 AATTTTTTTAAAATT
31663235 AA
1 AA
31663237 AAAAATCCGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTTTTTTAAAATT
Found at i:31663395 original size:48 final size:47
Alignment explanation
Indices: 31663331--31663442 Score: 138
Period size: 48 Copynumber: 2.3 Consensus size: 47
31663321 AGTGATAATT
31663331 TTAAATTTTCAATACTATTCGATATTATT-TTAATTTATGCAAATT-TAA
1 TTAAA-TTTCAATACTATTCGATATT-TTATTAATTTATGC-AATTATAA
* *
31663379 TTAAATTTGCAATACTATTTGATATTTTATTCATTTATGCAATTATAA
1 TTAAATTT-CAATACTATTCGATATTTTATTAATTTATGCAATTATAA
*
31663427 TCACAATTTCAATACT
1 TTA-AATTTCAATACT
31663443 GCTTGATTTT
Statistics
Matches: 57, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
47 9 0.16
48 43 0.75
49 5 0.09
ACGTcount: A:0.37, C:0.11, G:0.04, T:0.48
Consensus pattern (47 bp):
TTAAATTTCAATACTATTCGATATTTTATTAATTTATGCAATTATAA
Found at i:31663449 original size:48 final size:45
Alignment explanation
Indices: 31663337--31663464 Score: 132
Period size: 48 Copynumber: 2.7 Consensus size: 45
31663327 AATTTTAAAT
* *
31663337 TTTCAATACTATTCGATATTATTTTAATTTATGCAAATTTAATTAAA
1 TTTCAATACTATT-GATATT-TTTTCATTTATGCAAATTTAATCAAA
31663384 TTTGCAATACTATTTGATATTTTATTCATTTATGC-AATTATAATCACAA
1 TTT-CAATACTA-TTGATATTTT-TTCATTTATGCAAATT-TAATCA-AA
* *
31663433 TTTCAATACTGCTTGATTTTTTTTTCATTTAT
1 TTTCAATACT-ATTGA-TATTTTTTCATTTAT
31663465 AATGTTTGCA
Statistics
Matches: 70, Mismatches: 4, Indels: 13
0.80 0.05 0.15
Matches are distributed among these distances:
47 9 0.13
48 49 0.70
49 12 0.17
ACGTcount: A:0.32, C:0.11, G:0.05, T:0.52
Consensus pattern (45 bp):
TTTCAATACTATTGATATTTTTTCATTTATGCAAATTTAATCAAA
Found at i:31665455 original size:16 final size:16
Alignment explanation
Indices: 31665427--31665469 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
31665417 ATAAGCAAAT
*
31665427 TATAAA-CATATAAAA
1 TATAAATCAAATAAAA
31665442 TATAAATCAAATAAAA
1 TATAAATCAAATAAAA
*
31665458 TAAAAAT-AAATA
1 TATAAATCAAATA
31665470 TATTTAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 11 0.44
16 14 0.56
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.26
Consensus pattern (16 bp):
TATAAATCAAATAAAA
Found at i:31665750 original size:21 final size:20
Alignment explanation
Indices: 31665725--31665793 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 20
31665715 TAATAAAATT
31665725 TATAAACAAAATATATAATGA
1 TATAAACAAAATATATAAT-A
*
31665746 TATAAACAATATGATAGATAATA
1 TATAAACAA-A--ATATATAATA
*
31665769 TATAAA-ATAATATAT-ATA
1 TATAAACAAAATATATAATA
31665787 TAGTAAA
1 TA-TAAA
31665794 ATGTATGTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
18 5 0.12
19 9 0.22
21 10 0.24
22 2 0.05
23 7 0.17
24 8 0.20
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (20 bp):
TATAAACAAAATATATAATA
Found at i:31665824 original size:10 final size:10
Alignment explanation
Indices: 31665734--31665844 Score: 61
Period size: 10 Copynumber: 10.6 Consensus size: 10
31665724 TTATAAACAA
31665734 AATATATAAT
1 AATATATAAT
* *
31665744 GATATA-AAC
1 AATATATAAT
31665753 AATATGATAGAT
1 AATAT-ATA-AT
31665765 AATATATAA-
1 AATATATAAT
31665774 AATA-AT-AT
1 AATATATAAT
31665782 ATATATAGTAA-
1 A-ATATA-TAAT
*
31665793 AATGTATGTAATAT
1 AA--TATAT-A-AT
31665807 AATATATAAT
1 AATATATAAT
*
31665817 AATGTATAAT
1 AATATATAAT
31665827 AATATAATAAAT
1 AATAT-AT-AAT
31665839 AATATA
1 AATATA
31665845 CAAAGATTAA
Statistics
Matches: 78, Mismatches: 8, Indels: 29
0.68 0.07 0.25
Matches are distributed among these distances:
7 1 0.01
8 3 0.04
9 13 0.17
10 24 0.31
11 11 0.14
12 23 0.29
13 1 0.01
14 2 0.03
ACGTcount: A:0.57, C:0.01, G:0.06, T:0.36
Consensus pattern (10 bp):
AATATATAAT
Found at i:31671563 original size:126 final size:126
Alignment explanation
Indices: 31671338--31671706 Score: 576
Period size: 126 Copynumber: 2.9 Consensus size: 126
31671328 CTATAGTCTC
31671338 ATTTTTCTACAAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTG
1 ATTTTTCTACAAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTG
* * * *
31671403 ACAGTTCATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCATAAACGTCTACTCAAAATT
66 ACAGTGCATCCTGCTTGAAGCATTTTCGACACTATTTGTTCAGAAACGTCTACTCAAAATT
* * * * *
31671464 ATTTTTTTACGAACTACTGTAGCGAAAGAACGTCCACGTGGGAGCTTTTTCCAGAAATTTTGTTG
1 ATTTTTCTACAAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTG
* * * *
31671529 ACAGTGCATCCTGCTTAAAGCATTTTCAACACTATTTGTTCAGAAACATCTACTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCATTTTCGACACTATTTGTTCAGAAACGTCTACTCAAAATT
* * *
31671590 ATTTTTCTACAAAATACTGTAGCAAAATAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTACTG
1 ATTTTTCTACAAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTG
*
31671655 ACAGTGCATCCTGCTTGAAGCATTTTCTGACACTATTTGTCCAGAAACGTCT
66 ACAGTGCATCCTGCTTGAAGCATTTTC-GACACTATTTGTTCAGAAACGTCT
31671707 GCTTAGAATT
Statistics
Matches: 217, Mismatches: 25, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
126 196 0.90
127 21 0.10
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (126 bp):
ATTTTTCTACAAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTG
ACAGTGCATCCTGCTTGAAGCATTTTCGACACTATTTGTTCAGAAACGTCTACTCAAAATT
Found at i:31671991 original size:20 final size:20
Alignment explanation
Indices: 31671966--31672038 Score: 73
Period size: 20 Copynumber: 3.8 Consensus size: 20
31671956 TCGTGTATGT
31671966 ATCAATTAACCCTAAATTTA
1 ATCAATTAACCCTAAATTTA
* *
31671986 ATCAATTAACCCTAAACCCTAA
1 ATCAATTAACCCTAAA--TTTA
*
31672008 ATCAA-T--CCAT-AATTTA
1 ATCAATTAACCCTAAATTTA
31672024 ATCAATTAACCCTAA
1 ATCAATTAACCCTAA
31672039 TACCCTAAAC
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
16 7 0.17
17 1 0.02
18 2 0.05
19 6 0.15
20 17 0.41
21 1 0.02
22 7 0.17
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.30
Consensus pattern (20 bp):
ATCAATTAACCCTAAATTTA
Found at i:31672182 original size:22 final size:23
Alignment explanation
Indices: 31672147--31672197 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 23
31672137 CTTAAAAAAA
31672147 CCTAAACTCTTAAAAACCATAAC
1 CCTAAACTCTTAAAAACCATAAC
* *
31672170 TCTAAAC-CTTAAAAACCCTAAC
1 CCTAAACTCTTAAAAACCATAAC
31672192 CCTAAA
1 CCTAAA
31672198 TTAATTAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 19 0.76
23 6 0.24
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (23 bp):
CCTAAACTCTTAAAAACCATAAC
Found at i:31673812 original size:45 final size:41
Alignment explanation
Indices: 31673753--31673862 Score: 107
Period size: 45 Copynumber: 2.6 Consensus size: 41
31673743 TTTGGTTCGC
* *
31673753 TGTATTGGATTAGAGGTGTAATAGCAAATCAACTGTTTGGTT
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGG-T
* * ***
31673795 GAATGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGT
1 ---TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGT
31673838 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
31673863 TAATGGAAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
39 20 0.36
40 2 0.04
43 1 0.02
44 11 0.20
45 21 0.38
ACGTcount: A:0.32, C:0.05, G:0.29, T:0.34
Consensus pattern (41 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGT
Found at i:31674028 original size:16 final size:16
Alignment explanation
Indices: 31673988--31674042 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
31673978 TTAATCATAT
*
31673988 TTAAACATA-ATTTTTA
1 TTAAA-ATATATTTTAA
31674004 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
31674019 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
31674037 -TAAAAT
1 TTAAAAT
31674043 TCTTAATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:31674035 original size:18 final size:17
Alignment explanation
Indices: 31674008--31674042 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
31673998 TTTTTATTAA
*
31674008 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
31674026 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
31674043 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:31674152 original size:120 final size:116
Alignment explanation
Indices: 31673956--31674643 Score: 634
Period size: 120 Copynumber: 5.8 Consensus size: 116
31673946 TAATAAGATT
* * * *
31673956 ATTATTATCAATAATAAATAATTT--AATCAT-ATTTAAACATAATTTTTATTAAATATATTTTA
1 ATTATTATTAACAATAAATAATTTAAAAT-ATAATTTAAA-ATAATTATTATTAAATATAATTTA
* * *
31674018 ATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAGAAATT-TGT-TTTGGTAA
64 ATAAAAATATATAATTTAATAAAATTCTTAATAATTA--A-ATATTCT-TATAT-G-AA
* *
31674075 ATTATTATTAACAATAAATAATTTAAAAGATAATTTAACATAATTATTATTAAATATAATTTAAT
1 ATTATTATTAACAATAAATAATTTAAAATATAATTTAAAATAATTATTATTAAATATAATTTAAT
31674140 AAAAATATATAATTTAATAAAATTCTTAAT-ATTAAATATTCTTATATGAA
66 AAAAATATATAATTTAATAAAATTCTTAATAATTAAATATTCTTATATGAA
* * * *
31674190 TTTAATAAAATTATA-ATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAATATAA
1 ATT-AT--TATTA-ACA-ATA-AATAATTTAAAATATAATTTAAAATAATTATTATTAAATATAA
* * *
31674254 TTTAATAGAAATATATAATTTAATAAAATTCTTAATATTTAAATATTCTTAAATGAA
60 TTTAATAAAAATATATAATTTAATAAAATTCTTAATAATTAAATATTCTTATATGAA
* * * * *
31674311 TTTACTA-AAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTGTTAAATATAA
1 ATTATTATTAA-C--AATAAATAAT--T-TAAAATATAATTTAAAATAATTATTATTAAATATAA
* *
31674375 TTTAACAAAAATATATAATTTAATAAAATTCTTAAT-ATTAAATATTCTTAAATGAA
60 TTTAATAAAAATATATAATTTAATAAAATTCTTAATAATTAAATATTCTTATATGAA
* * *
31674431 TTTACTA-AAATC-ATAATGTATAATACTATAAAATATAATTTAAAATAATTATTATTAAAAATA
1 ATTATTATTAA-CAATAA---ATAAT--T-TAAAATATAATTTAAAATAATTATTATT--AAATA
*
31674494 TAATTTAGTAAAAATATATAATTTAATAAAATTCTTTAAT-ATTAAATATTC-T-TA-GAA
57 TAATTTAATAAAAATATATAATTTAATAAAATTC-TTAATAATTAAATATTCTTATATGAA
* * * * * *
31674551 TTTACTA-AAATCATAATATATAATACTATAAAATATAATTTAAATTAATTATTTTTAAATATAA
1 ATTATTATTAA-C--AATAAATAAT--T-TAAAATATAATTTAAAATAATTATTATTAAATATAA
*
31674615 TTTAATAAAAATATATAATTTAATCAAAT
60 TTTAATAAAAATATATAATTTAATAAAAT
31674644 CATTATATTC
Statistics
Matches: 503, Mismatches: 38, Indels: 57
0.84 0.06 0.10
Matches are distributed among these distances:
115 4 0.01
116 9 0.02
117 8 0.02
118 45 0.09
119 33 0.07
120 248 0.49
121 99 0.20
122 38 0.08
123 19 0.04
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (116 bp):
ATTATTATTAACAATAAATAATTTAAAATATAATTTAAAATAATTATTATTAAATATAATTTAAT
AAAAATATATAATTTAATAAAATTCTTAATAATTAAATATTCTTATATGAA
Found at i:31674203 original size:19 final size:18
Alignment explanation
Indices: 31674128--31674283 Score: 77
Period size: 18 Copynumber: 8.0 Consensus size: 18
31674118 TTATTATTAA
*
31674128 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAATT
31674146 ATATAATTTAATAAAATT
1 ATATAATTTAATAAAATT
* ***
31674164 CT-TAATATTAAATATTCTT
1 ATATAAT-TT-AATAAAATT
31674183 ATATGAATTTAATAAAATT
1 ATAT-AATTTAATAAAATT
* *
31674202 ATA-ATATATAATACTATAA-A
1 ATATA-ATTTAATA--A-AATT
31674222 ATATAATTTAAAATAATTATTATT
1 ATATAATTT--AATAA--A--ATT
31674246 AAATATAATTTAATAGAAA-T
1 --ATATAATTTAATA-AAATT
31674266 ATATAATTTAATAAAATT
1 ATATAATTTAATAAAATT
31674284 CTTAATATTT
Statistics
Matches: 106, Mismatches: 13, Indels: 38
0.68 0.08 0.24
Matches are distributed among these distances:
17 8 0.08
18 41 0.39
19 16 0.15
20 12 0.11
21 9 0.08
22 4 0.04
23 2 0.02
24 4 0.04
25 1 0.01
26 9 0.08
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (18 bp):
ATATAATTTAATAAAATT
Found at i:31674236 original size:22 final size:23
Alignment explanation
Indices: 31674194--31674236 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
31674184 TATGAATTTA
*
31674194 ATAAAATTATAATATATAATACT
1 ATAAAATTATAATATAAAATACT
*
31674217 ATAAAA-TATAATTTAAAATA
1 ATAAAATTATAATATAAAATA
31674237 ATTATTATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (23 bp):
ATAAAATTATAATATAAAATACT
Found at i:31674409 original size:241 final size:239
Alignment explanation
Indices: 31674098--31674643 Score: 916
Period size: 241 Copynumber: 2.3 Consensus size: 239
31674088 ATAAATAATT
* *
31674098 TAAAAGATAATTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAAT
1 TAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAAT
* *
31674163 TCTTAATATTAAATATTCTTATATGAATTTAATAAAATTATAATATATAATACTATAAAATATAA
66 TCTTAATATTAAATATTCTTAAATGAATTTAATAAAATCATAATATATAATACTATAAAATATAA
*
31674228 TTTAAAATAATTATTATT-AAATATAATTTAATAGAAATATATAATTTAATAAAATTC-TTAATA
131 TTTAAAATAATTATTATTAAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTTAATA
31674291 TTTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTA
196 -TTAAATATTCTT--A-GAATTTACTAAAATCATAATATATAATACTA
* *
31674339 TAAAATATAATTTAAAATAATTATTGTTAAATATAATTTAACAAAAATATATAATTTAATAAAAT
1 TAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAAT
* *
31674404 TCTTAATATTAAATATTCTTAAATGAATTTACTAAAATCATAATGTATAATACTATAAAATATAA
66 TCTTAATATTAAATATTCTTAAATGAATTTAATAAAATCATAATATATAATACTATAAAATATAA
*
31674469 TTTAAAATAATTATTATTAAAAATATAATTTAGTAAAAATATATAATTTAATAAAATTCTTTAAT
131 TTTAAAATAATTATTATT-AAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTTAAT
31674534 ATTAAATATTCTTAGAATTTACTAAAATCATAATATATAATACTA
195 ATTAAATATTCTTAGAATTTACTAAAATCATAATATATAATACTA
* * *
31674579 TAAAATATAATTTAAATTAATTATTTTTAAATATAATTTAATAAAAATATATAATTTAATCAAAT
1 TAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAAT
31674644 CATTATATTC
Statistics
Matches: 288, Mismatches: 14, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
240 92 0.32
241 141 0.49
243 49 0.17
244 6 0.02
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (239 bp):
TAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAAT
TCTTAATATTAAATATTCTTAAATGAATTTAATAAAATCATAATATATAATACTATAAAATATAA
TTTAAAATAATTATTATTAAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTTAATA
TTAAATATTCTTAGAATTTACTAAAATCATAATATATAATACTA
Found at i:31674506 original size:15 final size:16
Alignment explanation
Indices: 31674460--31674524 Score: 57
Period size: 18 Copynumber: 4.2 Consensus size: 16
31674450 ATAATACTAT
31674460 AAAATATAATTTAA-A
1 AAAATATAATTTAATA
* *
31674475 ATAAT-T-A-TTATTA
1 AAAATATAATTTAATA
*
31674488 AAAATATAATTTAGTAA
1 AAAATATAATTTAAT-A
31674505 AAATATATAATTTAATA
1 AAA-ATATAATTTAATA
31674522 AAA
1 AAA
31674525 TTCTTTAATA
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
12 3 0.08
13 6 0.15
14 2 0.05
15 5 0.13
16 4 0.10
17 8 0.21
18 11 0.28
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (16 bp):
AAAATATAATTTAATA
Found at i:31674512 original size:18 final size:17
Alignment explanation
Indices: 31674487--31674524 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
31674477 AATTATTATT
*
31674487 AAAAATATAATTTAGTA
1 AAAAATATAATTTAATA
31674504 AAAATATATAATTTAATA
1 AAAA-ATATAATTTAATA
31674522 AAA
1 AAA
31674525 TTCTTTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (17 bp):
AAAAATATAATTTAATA
Found at i:31684676 original size:75 final size:75
Alignment explanation
Indices: 31684591--31684740 Score: 291
Period size: 75 Copynumber: 2.0 Consensus size: 75
31684581 TAGTAGTAAT
31684591 TGTAGTCTTTGAGGAAACGATATCTGTCCTCACCATAGCTATACTATTAATTGATAGTTGCATTT
1 TGTAGTCTTTGAGGAAACGATATCTGTCCTCACCATAGCTATACTATTAATTGATAGTTGCATTT
31684656 GTCTTGGCTA
66 GTCTTGGCTA
*
31684666 TGTAGTCTTTGAGGAAACGATATCTGTCCTCACCATAGCTATACTATTAATTGATAGTTGTATTT
1 TGTAGTCTTTGAGGAAACGATATCTGTCCTCACCATAGCTATACTATTAATTGATAGTTGCATTT
31684731 GTCTTGGCTA
66 GTCTTGGCTA
31684741 ATTTATTAAT
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (75 bp):
TGTAGTCTTTGAGGAAACGATATCTGTCCTCACCATAGCTATACTATTAATTGATAGTTGCATTT
GTCTTGGCTA
Found at i:31689295 original size:18 final size:18
Alignment explanation
Indices: 31689265--31689331 Score: 74
Period size: 18 Copynumber: 4.1 Consensus size: 18
31689255 CAATTTGGGC
*
31689265 CGTGTGGG-TTACACGGG
1 CGTGTGGGCCTACACGGG
31689282 CGTGTGGGCCTACACGGG
1 CGTGTGGGCCTACACGGG
*
31689300 C----AGGCC-ACACGGG
1 CGTGTGGGCCTACACGGG
31689313 CGTGTGGGCCTACACGGG
1 CGTGTGGGCCTACACGGG
31689331 C
1 C
31689332 AGGCCACATG
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
13 8 0.20
14 4 0.10
17 12 0.29
18 17 0.41
ACGTcount: A:0.13, C:0.28, G:0.43, T:0.15
Consensus pattern (18 bp):
CGTGTGGGCCTACACGGG
Found at i:31689310 original size:31 final size:31
Alignment explanation
Indices: 31689275--31689349 Score: 141
Period size: 31 Copynumber: 2.4 Consensus size: 31
31689265 CGTGTGGGTT
31689275 ACACGGGCGTGTGGGCCTACACGGGCAGGCC
1 ACACGGGCGTGTGGGCCTACACGGGCAGGCC
31689306 ACACGGGCGTGTGGGCCTACACGGGCAGGCC
1 ACACGGGCGTGTGGGCCTACACGGGCAGGCC
*
31689337 ACATGGGCGTGTG
1 ACACGGGCGTGTG
31689350 AGCCCATTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.16, C:0.29, G:0.43, T:0.12
Consensus pattern (31 bp):
ACACGGGCGTGTGGGCCTACACGGGCAGGCC
Found at i:31689829 original size:34 final size:35
Alignment explanation
Indices: 31689791--31689860 Score: 90
Period size: 34 Copynumber: 2.0 Consensus size: 35
31689781 ACATGACTGA
*
31689791 TACTGATACT-AAGATGAGCTAAGGCCCAA-ACTAT
1 TACTGATACTGAA-AGGAGCTAAGGCCCAAGACTAT
* *
31689825 TACTGATACTGAAAGGGGCTTAGGCCCAAGACTAT
1 TACTGATACTGAAAGGAGCTAAGGCCCAAGACTAT
31689860 T
1 T
31689861 TGACTGTGCA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
34 23 0.74
35 8 0.26
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.24
Consensus pattern (35 bp):
TACTGATACTGAAAGGAGCTAAGGCCCAAGACTAT
Found at i:31693982 original size:24 final size:24
Alignment explanation
Indices: 31693955--31694006 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
31693945 TTAGCAAGTC
* *
31693955 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
31693979 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
31694003 AAAT
1 AAAT
31694007 CTTCTAAAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:31701263 original size:46 final size:43
Alignment explanation
Indices: 31701122--31701266 Score: 128
Period size: 46 Copynumber: 3.2 Consensus size: 43
31701112 CATGTAACCG
* * * *
31701122 TGCCAATGTATGTCCCAAACATGTCTTACACTAGGACATCTCA
1 TGCCGATGCATGTCCTAAACATGTCTTACACTAGCACATCTCA
* * * * *
31701165 TAGCCGACGCATGTCCTAGACATGTCTGACATTGGCTAACATCTCGA
1 T-GCCGATGCATGTCCTAAACATGTCTTACACTAGC--ACATCTC-A
* *
31701212 GGCCGATGCATGTCCTAAACATGTCTTACACTAGCACTCGTCTCAA
1 TGCCGATGCATGTCCTAAACATGTCTTACACTAGCA--CATCTC-A
31701258 TGCCGATGC
1 TGCCGATGC
31701267 CATGCCCCAG
Statistics
Matches: 78, Mismatches: 18, Indels: 9
0.74 0.17 0.09
Matches are distributed among these distances:
43 1 0.01
44 26 0.33
46 50 0.64
47 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (43 bp):
TGCCGATGCATGTCCTAAACATGTCTTACACTAGCACATCTCA
Found at i:31705460 original size:24 final size:24
Alignment explanation
Indices: 31705432--31705483 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
31705422 TTAGCAAGTC
* *
31705432 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
31705456 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
31705480 AAAT
1 AAAT
31705484 CTTCTAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:31706010 original size:19 final size:19
Alignment explanation
Indices: 31705984--31706046 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
31705974 TATTTTTTAT
31705984 TCCCTCATATTTTTGGTA-
1 TCCCTCATATTTTTGGTAC
*
31706002 TCTCCTCATAATTTTTTGTAC
1 TC-CCTCAT-ATTTTTGGTAC
* *
31706023 TCCCTCGTATTTTAGGTAC
1 TCCCTCATATTTTTGGTAC
*
31706042 ACCCT
1 TCCCT
31706047 TGATATCCCC
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
18 2 0.05
19 19 0.51
20 14 0.38
21 2 0.05
ACGTcount: A:0.17, C:0.27, G:0.10, T:0.46
Consensus pattern (19 bp):
TCCCTCATATTTTTGGTAC
Found at i:31706085 original size:20 final size:19
Alignment explanation
Indices: 31706059--31706132 Score: 87
Period size: 21 Copynumber: 3.7 Consensus size: 19
31706049 ATATCCCCTT
31706059 ATATTTTTTAGTATTT-CTC
1 ATATTTTTTA-TATTTCCTC
31706078 ATTATTTTTTTATATTTCCTC
1 A-TA-TTTTTTATATTTCCTC
*
31706099 ATATTTTTTATTTTATCCTC
1 ATATTTTTTATATT-TCCTC
31706119 ATAATTTTTTATAT
1 AT-ATTTTTTATAT
31706133 AATTTCAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
19 11 0.23
20 16 0.33
21 21 0.44
ACGTcount: A:0.23, C:0.11, G:0.01, T:0.65
Consensus pattern (19 bp):
ATATTTTTTATATTTCCTC
Found at i:31706088 original size:21 final size:21
Alignment explanation
Indices: 31706057--31706138 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 21
31706047 TGATATCCCC
31706057 TTATATTTTTTAGTATTT-CTCA
1 TTAT-TTTTTTA-TATTTCCTCA
31706079 TTATTTTTTTATATTTCCTCA
1 TTATTTTTTTATATTTCCTCA
*
31706100 -TA-TTTTTTATTTTATCCTCA
1 TTATTTTTTTATATT-TCCTCA
*
31706120 TAATTTTTTATATAATTTC
1 TTATTTTTT-TAT-ATTTC
31706139 AAAATGAGGA
Statistics
Matches: 51, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
19 10 0.20
20 13 0.25
21 12 0.24
22 9 0.18
23 5 0.10
24 2 0.04
ACGTcount: A:0.23, C:0.11, G:0.01, T:0.65
Consensus pattern (21 bp):
TTATTTTTTTATATTTCCTCA
Found at i:31706827 original size:21 final size:20
Alignment explanation
Indices: 31706781--31706828 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
31706771 AAAATTTTTA
*
31706781 AAAAATACAAAAAAATTACG
1 AAAAATACAAAAAAATAACG
31706801 AGAAAATACCAAAAAAAATAAC-
1 A-AAAATA-C-AAAAAAATAACG
31706823 AAAAAT
1 AAAAAT
31706829 TATGAGGGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 1 0.04
21 11 0.46
22 2 0.08
23 10 0.42
ACGTcount: A:0.73, C:0.10, G:0.04, T:0.12
Consensus pattern (20 bp):
AAAAATACAAAAAAATAACG
Found at i:31721299 original size:44 final size:45
Alignment explanation
Indices: 31721248--31721453 Score: 159
Period size: 44 Copynumber: 4.5 Consensus size: 45
31721238 TCAGTTTGCT
* *
31721248 CCACTGCAACTTTAGGGAGATAAGACTTGTAACTTCAACT-TGTC
1 CCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACTCTGCC
* * *
31721292 CCACTGCAACTTCGGGGAGATAAGGTTTGTGATTTGTAGCTTCAA-TCTGCC
1 CCACTGCAACTTCAGGGAGATAA-------GACTTGTAACTTCAACTCTGCC
* *
31721343 CCACTGTAACTTCAGGGAGATAAGACTTGTAACTTCAAC-CTGCT
1 CCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACTCTGCC
** * * * ** ** * *
31721387 CCACTGTGATTTCCGGGAGATAAGGCTAATGGCTTCGA-TCTGCT
1 CCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACTCTGCC
31721431 CCACTGCAACTTCAGGGAGATAA
1 CCACTGCAACTTCAGGGAGATAA
31721454 AATTGGTATC
Statistics
Matches: 129, Mismatches: 23, Indels: 20
0.75 0.13 0.12
Matches are distributed among these distances:
44 91 0.71
50 1 0.01
51 37 0.29
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.28
Consensus pattern (45 bp):
CCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACTCTGCC
Found at i:31721513 original size:88 final size:87
Alignment explanation
Indices: 31721421--31721977 Score: 617
Period size: 88 Copynumber: 6.4 Consensus size: 87
31721411 GCTAATGGCT
* * * * *
31721421 TCGATCTGCTCCACTGCAACTTCAGGGAGATA-AAAT-TGGTATCTTC-AGTCTGCTCCAATGCC
1 TCGATCTACTCCGCTGAAACTTCAAGGAGATATAAATGTGG---CTTCGAG-CAGCTCCAATGCC
* *
31721483 ATTTTAGGGGGAAGAGATTTGTAGCC
62 ATTTCAGGGAGAAGAGATTTGTAGCC
* * * * ** * * *
31721509 TCGATCTACTCCGCTGAAACTTCAAGAAGATATGAACTATGGCTTCGAGCCGCTCTTACGCTATC
1 TCGATCTACTCCGCTGAAACTTCAAGGAGATAT-AAATGTGGCTTCGAGCAGCTCCAATGCCATT
*
31721574 TCAGGGAGAAGAGATTTGCAGCC
65 TCAGGGAGAAGAGATTTGTAGCC
* * *
31721597 TCGATCTACTCTGCTGAAACTTCAAGGAGATCT-ACTGTGGCTTCGAGCCA-CT-CACATGCCAT
1 TCGATCTACTCCGCTGAAACTTCAAGGAGATATAAATGTGGCTTCGAG-CAGCTCCA-ATGCCAT
31721659 TTCAGGGAGAAGAGATTTGTAGCC
64 TTCAGGGAGAAGAGATTTGTAGCC
* * * * * *
31721683 TCGATCTACTCCGCTGAAACTTTAAAGAGGTATGAACTGTGGCTTCGAGCAGCTCCTACGCCATT
1 TCGATCTACTCCGCTGAAACTTCAAGGAGATAT-AAATGTGGCTTCGAGCAGCTCCAATGCCATT
* *
31721748 TGAGGGGGGAAGAGATTTGTAGCC
65 TCA-GGGAGAAGAGATTTGTAGCC
* * *
31721772 TCGATCTACTCCGCTGAAACTTTAAGGAGATACGAACTGTGGCTTCGAGCAGCTCCAATGCCATT
1 TCGATCTACTCCGCTGAAACTTCAAGGAGATA-TAAATGTGGCTTCGAGCAGCTCCAATGCCATT
*
31721837 TCAGGGGGAAGAGATTTGTAGCC
65 TCAGGGAGAAGAGATTTGTAGCC
* * **
31721860 TCGATCTACTCCGCTGAAACTTTAAGGAGATCT-GCTGTGGCTTCGAGTC-GCTCCAATGCCATT
1 TCGATCTACTCCGCTGAAACTTCAAGGAGATATAAATGTGGCTTCGAG-CAGCTCCAATGCCATT
*
31721923 TTAGGGAGAAGAGATTTGTAGCC
65 TCAGGGAGAAGAGATTTGTAGCC
*
31721946 TCGATCTACTCCACTGAAACTTCAAGGAGATA
1 TCGATCTACTCCGCTGAAACTTCAAGGAGATA
31721978 CGAACTGTTG
Statistics
Matches: 407, Mismatches: 49, Indels: 28
0.84 0.10 0.06
Matches are distributed among these distances:
86 147 0.36
87 4 0.01
88 167 0.41
89 83 0.20
90 3 0.01
91 3 0.01
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (87 bp):
TCGATCTACTCCGCTGAAACTTCAAGGAGATATAAATGTGGCTTCGAGCAGCTCCAATGCCATTT
CAGGGAGAAGAGATTTGTAGCC
Found at i:31721683 original size:86 final size:85
Alignment explanation
Indices: 31721473--31721976 Score: 623
Period size: 86 Copynumber: 5.8 Consensus size: 85
31721463 CTTCAGTCTG
* * *
31721473 CTCCAATGCCATTTTAGGGGGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGAAG
1 CTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGGAG
* * *
31721538 ATATGAACTATGGCTTCGAGCCG
66 ATCT--ACTGTGGCTTCGAG-CA
** * * * * *
31721561 CTCTTACGCTATCTCAGGGAGAAGAGATTTGCAGCCTCGATCTACTCTGCTGAAACTTCAAGGAG
1 CTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGGAG
31721626 ATCTACTGTGGCTTCGAGCCA
66 ATCTACTGTGGCTTCGAG-CA
* *
31721647 CT-CACATGCCATTTCAGGGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTTAAAGA
1 CTCCA-ATGCCATTTCAGGGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGGA
**
31721711 GGTATGAACTGTGGCTTCGAGCA
65 -G-ATCTACTGTGGCTTCGAGCA
* * * * *
31721734 GCTCCTACGCCATTTGAGGGGGGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTTAAGG
1 -CTCCAATGCCATTTCA-GGGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGG
*
31721799 AGATACGAACTGTGGCTTCGAGCA
64 AGAT-C-TACTGTGGCTTCGAGCA
* *
31721823 GCTCCAATGCCATTTCAGGGGGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTTAAGGA
1 -CTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGGA
* *
31721888 GATCTGCTGTGGCTTCGAGTCG
65 GATCTACTGTGGCTTCGAG-CA
* *
31721910 CTCCAATGCCATTTTAGGGAGAAGAGATTTGTAGCCTCGATCTACTCCACTGAAACTTCAAGGAG
1 CTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGGAG
31721975 AT
66 AT
31721977 ACGAACTGTT
Statistics
Matches: 367, Mismatches: 40, Indels: 20
0.86 0.09 0.05
Matches are distributed among these distances:
86 145 0.40
87 7 0.02
88 137 0.37
89 78 0.21
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (85 bp):
CTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGGAG
ATCTACTGTGGCTTCGAGCA
Found at i:31721956 original size:263 final size:262
Alignment explanation
Indices: 31721480--31721985 Score: 771
Period size: 263 Copynumber: 1.9 Consensus size: 262
31721470 CTGCTCCAAT
* *
31721480 GCCATTTTAGGGGGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGAAGATATGAA
1 GCCATTTGAGGGGGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGAAGATACGAA
* ** * *
31721545 CTATGGCTTCGAGCCGCTCTTACGCTATCTCAGGGAGAAGAGATTTGCAGCCTCGATCTACTCTG
66 CTATGGCTTCGAGCAGCTCCAACGCCATCTCAGGGAGAAGAGATTTGCAGCCTCGATCTACTCCG
31721610 CTGAAACTTCAAGGAGATCTACTGTGGCTTCGAGCCACTCACATGCCATTTCAGGGAGAAGAGAT
131 CTGAAACTTCAAGGAGATCTACTGTGGCTTCGAGCCACTCACATGCCATTTCAGGGAGAAGAGAT
* * * *
31721675 TTGTAGCCTCGATCTACTCCGCTGAAACTTTAAAGAGGTATGAACTGTGGCTTCGAGCAGCTCCT
196 TTGTAGCCTCGATCTACTCCACTGAAACTTCAAAGAGATACGAACTGTGGCTTCGAGCAGCTCCT
31721740 AC
261 AC
* *
31721742 GCCATTTGAGGGGGGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTTAAGGAGATACGA
1 GCCATTTGA-GGGGGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGAAGATACGA
* * * * *
31721807 ACTGTGGCTTCGAGCAGCTCCAATGCCATTTCAGGGGGAAGAGATTTGTAGCCTCGATCTACTCC
65 ACTATGGCTTCGAGCAGCTCCAACGCCATCTCAGGGAGAAGAGATTTGCAGCCTCGATCTACTCC
* * * * *
31721872 GCTGAAACTTTAAGGAGATCTGCTGTGGCTTCGAGTCGCTC-CAATGCCATTTTAGGGAGAAGAG
130 GCTGAAACTTCAAGGAGATCTACTGTGGCTTCGAGCCACTCAC-ATGCCATTTCAGGGAGAAGAG
*
31721936 ATTTGTAGCCTCGATCTACTCCACTGAAACTTCAAGGAGATACGAACTGT
194 ATTTGTAGCCTCGATCTACTCCACTGAAACTTCAAAGAGATACGAACTGT
31721986 TGATTTCAAC
Statistics
Matches: 218, Mismatches: 24, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
262 9 0.04
263 209 0.96
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (262 bp):
GCCATTTGAGGGGGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGAAGATACGAA
CTATGGCTTCGAGCAGCTCCAACGCCATCTCAGGGAGAAGAGATTTGCAGCCTCGATCTACTCCG
CTGAAACTTCAAGGAGATCTACTGTGGCTTCGAGCCACTCACATGCCATTTCAGGGAGAAGAGAT
TTGTAGCCTCGATCTACTCCACTGAAACTTCAAAGAGATACGAACTGTGGCTTCGAGCAGCTCCT
AC
Found at i:31722239 original size:131 final size:131
Alignment explanation
Indices: 31721990--31722353 Score: 482
Period size: 131 Copynumber: 2.8 Consensus size: 131
31721980 AACTGTTGAT
* * * * *
31721990 TTCAACCTGCTCCACTACTACTTAGGGAGATAGGATGGTGGCTTAAATCTT-CTCCA--ATTGCT
1 TTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAAT-TTGCTCCACTACTGGT
* * * * *
31722052 TAGGGAGACAAGATTCACCGTCTTTGATCTGTTCCACTGCAACTTCAGATAAACAAGCTCTACAA
65 TAGGGAGACAAGATTCGCCGTCTTCGATCTGTTCCACTACAACTTCAGAGAAACAAGATCTACAA
31722117 TC
130 TC
* *
31722119 TTCAGCCTACTCCACTACTGCTTAAGGAGATAGGATGGTGGCTTAAATTTGTTCCACTACTGGTT
1 TTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATTTGCTCCACTACTGGTT
* * * * **
31722184 CGGGAGACAAGATTCGCCGTCTTCGATCTGTTTCACTACAACTTCAGGGAGACAAGATCTGTAAT
66 AGGGAGACAAGATTCGCCGTCTTCGATCTGTTCCACTACAACTTCAGAGAAACAAGATCTACAAT
31722249 C
131 C
* * *
31722250 TTCAGCCTACTCCACTACTGCTTAGGGAGATAAGATGGTGACTTAAATCTGCTCCACTACTGGTT
1 TTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATTTGCTCCACTACTGGTT
* * *
31722315 AGGAAGACAAGATTTGCCGTCTTCGATCTGCTCCACTAC
66 AGGGAGACAAGATTCGCCGTCTTCGATCTGTTCCACTAC
31722354 TGCTTAGGGA
Statistics
Matches: 204, Mismatches: 28, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
128 2 0.01
129 48 0.24
131 154 0.75
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.29
Consensus pattern (131 bp):
TTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATTTGCTCCACTACTGGTT
AGGGAGACAAGATTCGCCGTCTTCGATCTGTTCCACTACAACTTCAGAGAAACAAGATCTACAAT
C
Found at i:31722353 original size:44 final size:44
Alignment explanation
Indices: 31722171--31722371 Score: 165
Period size: 44 Copynumber: 4.6 Consensus size: 44
31722161 TTAAATTTGT
* * * *
31722171 TCCACTACTGGTTCGGGAGACAAGATTCGCCGTCTTCGATCTGT
1 TCCACTACTGCTTAGGGAGACAAGATTTGCCGTCTTCGATCTGC
* ** * *** * *
31722215 TTCACTACAACTTCAGGGAGACAAGATCTGTAATCTTC-AGCCTAC
1 TCCACTACTGCTT-AGGGAGACAAGATTTGCCGTCTTCGA-TCTGC
* ** * **
31722260 TCCACTACTGCTTAGGGAGATAAGA--TGGTGACTTAAATCTGC
1 TCCACTACTGCTTAGGGAGACAAGATTTGCCGTCTTCGATCTGC
* *
31722302 TCCACTACTGGTTAGGAAGACAAGATTTGCCGTCTTCGATCTGC
1 TCCACTACTGCTTAGGGAGACAAGATTTGCCGTCTTCGATCTGC
*
31722346 TCCACTACTGCTTAGGGAGATAAGAT
1 TCCACTACTGCTTAGGGAGACAAGAT
31722372 CTGTGATTTC
Statistics
Matches: 117, Mismatches: 35, Indels: 10
0.72 0.22 0.06
Matches are distributed among these distances:
42 30 0.26
43 1 0.01
44 56 0.48
45 30 0.26
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (44 bp):
TCCACTACTGCTTAGGGAGACAAGATTTGCCGTCTTCGATCTGC
Found at i:31722546 original size:87 final size:87
Alignment explanation
Indices: 31722331--31722555 Score: 317
Period size: 88 Copynumber: 2.6 Consensus size: 87
31722321 ACAAGATTTG
*
31722331 CCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGATTTCCAACCTGTTACCCT
1 CCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTT-CAACCTGTTACCCT
*
31722396 ACTTCTTAAGGGGTTAAGGCTTA
65 ACTGCTTAAGGGGTTAAGGCTTA
* * * * *
31722419 CCGTCTTCGATGTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAGCTTGTTAGCCT
1 CCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT-TTCAACCTGTTACCCT
*
31722484 ACTGCTT-GGGGGTTAAGGCTTA
65 ACTGCTTAAGGGGTTAAGGCTTA
* * * *
31722506 CTGTTTTTGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATTT
1 CCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTT
31722556 TCAATCTACT
Statistics
Matches: 122, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
86 2 0.02
87 56 0.46
88 62 0.51
89 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (87 bp):
CCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCAACCTGTTACCCTA
CTGCTTAAGGGGTTAAGGCTTA
Found at i:31722806 original size:64 final size:64
Alignment explanation
Indices: 31722705--31722832 Score: 220
Period size: 64 Copynumber: 2.0 Consensus size: 64
31722695 TCATGTACCT
*
31722705 ATGCTTATGCCAAATGATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
1 ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
* * *
31722769 ATGCTTATGTCAAATAATTAGGTTGCTATGATCGAAATGAATCAGATGCTCCTAACTAGATGTG
1 ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
31722833 TTATGAATGA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
Found at i:31723600 original size:53 final size:53
Alignment explanation
Indices: 31723501--31723601 Score: 159
Period size: 53 Copynumber: 1.9 Consensus size: 53
31723491 GTATAGTTCG
* *
31723501 AAATGAATAAATTATTCAAAGATTGCAAATGCAATAAGAAGGAATTTAACTCA
1 AAATGAATAAATTAATCAAAGATAGCAAATGCAATAAGAAGGAATTTAACTCA
*
31723554 AAATGAATAAGTTAATCAAAGATAGC-AATGCAATAAGAAGGAAATTTA
1 AAATGAATAAATTAATCAAAGATAGCAAATGCAATAAGAAGG-AATTTA
31723602 TTGGGACATA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
52 15 0.34
53 29 0.66
ACGTcount: A:0.52, C:0.08, G:0.15, T:0.25
Consensus pattern (53 bp):
AAATGAATAAATTAATCAAAGATAGCAAATGCAATAAGAAGGAATTTAACTCA
Found at i:31731775 original size:42 final size:42
Alignment explanation
Indices: 31731714--31731874 Score: 162
Period size: 42 Copynumber: 3.7 Consensus size: 42
31731704 TCGTTTTCTC
** *
31731714 GATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAAT
1 GATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATAAT
* * *
31731756 GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATATT
1 GATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATAAT
* *
31731798 GATACCATGGCCCAGCTATGGTCTTACACGTAATCACATATCACAT-AT
1 GATGCCATAGCCCAGCTATGGTCTTACAC---AT--C-T-TCACATAAT
*
31731846 CGATGCCATAGCCCAGCAATGGTCTTACA
1 -GATGCCATAGCCCAGCTATGGTCTTACA
31731875 TGAATCACAT
Statistics
Matches: 97, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
42 63 0.65
45 2 0.02
48 2 0.02
49 30 0.31
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (42 bp):
GATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATAAT
Found at i:31731862 original size:49 final size:47
Alignment explanation
Indices: 31731782--31731918 Score: 141
Period size: 49 Copynumber: 2.9 Consensus size: 47
31731772 TATGGTCTTA
* * *
31731782 CACATATTCATATATTGATACCATGGCCCAGCTATGGTCTTACACGTAAT
1 CACATA-TCACATA-TGATGCCATAGCCCAGCTATGGTCTTACACG-AAT
* *
31731832 CACATATCACATATCGATGCCATAGCCCAGCAATGGTCTTACATGAAT
1 CACATATCACATAT-GATGCCATAGCCCAGCTATGGTCTTACACGAAT
* * * * *
31731880 CACATATCTCA-CTGATGTCATATCCCAGATATGGTCTTA
1 CACATATCACATATGATGCCATAGCCCAGCTATGGTCTTA
31731919 TATAGTAGCA
Statistics
Matches: 75, Mismatches: 11, Indels: 6
0.82 0.12 0.07
Matches are distributed among these distances:
46 22 0.29
47 1 0.01
48 14 0.19
49 32 0.43
50 6 0.08
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.30
Consensus pattern (47 bp):
CACATATCACATATGATGCCATAGCCCAGCTATGGTCTTACACGAAT
Found at i:31731915 original size:46 final size:47
Alignment explanation
Indices: 31731808--31731965 Score: 135
Period size: 47 Copynumber: 3.3 Consensus size: 47
31731798 GATACCATGG
* * * * *
31731808 CCCAGCTATGGTCTTACA-CGTAATCACATATCACATATCGATGCCATAG
1 CCCAGATATGGTCTTACATAG-AAGCACATAT--CATACCGATGCCATAT
* * *
31731857 CCCAGCA-ATGGTCTTACAT-GAATCACATATC-TCACTGATGTCATAT
1 CCCAG-ATATGGTCTTACATAGAAGCACATATCAT-ACCGATGCCATAT
* * *
31731903 CCCAGATATGGTCTTATATAGTAGCATATATCATACCGATGCCATAT
1 CCCAGATATGGTCTTACATAGAAGCACATATCATACCGATGCCATAT
*
31731950 CCTAGATATGGTCTTA
1 CCCAGATATGGTCTTA
31731966 TACGGAAATC
Statistics
Matches: 91, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
45 2 0.02
46 26 0.29
47 35 0.38
48 11 0.12
49 17 0.19
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (47 bp):
CCCAGATATGGTCTTACATAGAAGCACATATCATACCGATGCCATAT
Found at i:31732022 original size:31 final size:31
Alignment explanation
Indices: 31731987--31732135 Score: 228
Period size: 31 Copynumber: 4.8 Consensus size: 31
31731977 CTTGTCACTT
*
31731987 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
31732018 GTAGCC-AGAGCTACCACTTTTCACTGATCAA
1 GTAGCCGA-AGCTACCACTTTTCACTGATCAG
*
31732049 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
** *
31732080 GTAGTAGAAGCTACCACTTTTCACTGCTCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
31732111 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
31732136 TGTCATTTTT
Statistics
Matches: 106, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
30 1 0.01
31 105 0.99
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:31732222 original size:50 final size:50
Alignment explanation
Indices: 31732111--31732287 Score: 282
Period size: 50 Copynumber: 3.5 Consensus size: 50
31732101 CACTGCTCAG
* * *
31732111 GTAGCCGAAGCTACCACTTTTCACTTGTCATTTTTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
*
31732162 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* *
31732212 GTAGCTGAAGCTATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
*
31732262 GTAGCCAAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
31732288 GTTGCCATGG
Statistics
Matches: 116, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
50 92 0.79
51 24 0.21
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:31733174 original size:17 final size:17
Alignment explanation
Indices: 31733152--31733191 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
31733142 CATTTCTTCT
31733152 ATAAGAAACTAGACTCA
1 ATAAGAAACTAGACTCA
31733169 ATAAGAAACTAGACTCA
1 ATAAGAAACTAGACTCA
31733186 ATAAGA
1 ATAAGA
31733192 TTTAATTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.55, C:0.15, G:0.12, T:0.17
Consensus pattern (17 bp):
ATAAGAAACTAGACTCA
Found at i:31734950 original size:30 final size:30
Alignment explanation
Indices: 31734916--31734976 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
31734906 CTTCATTTTG
31734916 TCACAAAACGGATGATGCTACACATGTGGC
1 TCACAAAACGGATGATGCTACACATGTGGC
31734946 TCACAAAACGGATGATGCTACACATGTGGC
1 TCACAAAACGGATGATGCTACACATGTGGC
31734976 T
1 T
31734977 GACTTATTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (30 bp):
TCACAAAACGGATGATGCTACACATGTGGC
Found at i:31735226 original size:41 final size:40
Alignment explanation
Indices: 31735181--31735358 Score: 167
Period size: 41 Copynumber: 4.4 Consensus size: 40
31735171 AGTTTTACCA
* * *
31735181 AAAACGCTGCTAAAAACGGAGCAATACCGGTGTTTTTTGTT
1 AAAACGCCGCTAAAAACAGAGAAATACCGGTGTTTTTTG-T
*
31735222 AAAACGCCGCTAAAAACAGAGAAATAGCGGTGTTTTTTGT
1 AAAACGCCGCTAAAAACAGAGAAATACCGGTGTTTTTTGT
* * * * * *
31735262 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAA-CAGAGAAATACCGGTGTTTTTTGT
* * * * ***
31735303 AAAACGCCGATAAAAACCAGAGTATTAGCGGCACTTTTTGT
1 AAAACGCCGCTAAAAA-CAGAGAAATACCGGTGTTTTTTGT
*
31735344 AAAACACCGCTAAAA
1 AAAACGCCGCTAAAA
31735359 GTCATATAAC
Statistics
Matches: 121, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
40 17 0.14
41 104 0.86
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.23
Consensus pattern (40 bp):
AAAACGCCGCTAAAAACAGAGAAATACCGGTGTTTTTTGT
Found at i:31735300 original size:40 final size:40
Alignment explanation
Indices: 31735215--31735358 Score: 173
Period size: 41 Copynumber: 3.5 Consensus size: 40
31735205 TACCGGTGTT
* * *
31735215 TTTTGTTAAAACGCCGCTAAAAA-CAGAGAAATAGCGGTGTT
1 TTTTG-TAAAACGCCGCTAAAAACCAGAGAATTAGCGGCG-C
*
31735256 TTTTGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGC
1 TTTTGTAAAACGCCGCTAAAAACCAGAGAATTAGCGGCGC
* * *
31735296 TTTTGGTAAAACGCCGATAAAAACCAGAGTATTAGCGGCAC
1 TTTT-GTAAAACGCCGCTAAAAACCAGAGAATTAGCGGCGC
*
31735337 TTTTTGTAAAACACCGCTAAAA
1 -TTTTGTAAAACGCCGCTAAAA
31735359 GTCATATAAC
Statistics
Matches: 91, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
40 21 0.23
41 66 0.73
42 4 0.04
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.24
Consensus pattern (40 bp):
TTTTGTAAAACGCCGCTAAAAACCAGAGAATTAGCGGCGC
Found at i:31735939 original size:21 final size:21
Alignment explanation
Indices: 31735913--31735964 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
31735903 GTTTAAGTGT
31735913 GGTTTAAGGGCT-GGGGTTTAA
1 GGTTTAAGGGCTAGGGG-TTAA
*
31735934 GGTTT-AGGTGTTAGGGGTTAA
1 GGTTTAAGG-GCTAGGGGTTAA
*
31735955 GGGTTAAGGG
1 GGTTTAAGGG
31735965 TTTCTGATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 3 0.12
21 16 0.62
22 7 0.27
ACGTcount: A:0.19, C:0.02, G:0.46, T:0.33
Consensus pattern (21 bp):
GGTTTAAGGGCTAGGGGTTAA
Found at i:31736945 original size:3 final size:3
Alignment explanation
Indices: 31736850--31736925 Score: 102
Period size: 3 Copynumber: 25.7 Consensus size: 3
31736840 AATAGATATT
* *
31736850 GAA G-A GAA GGA GAA CGAG GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA -GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
*
31736895 GAA GAA GAA GAA GAA GAA GAG GAA G-A GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
31736926 GGGGGGAGGA
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
2 4 0.06
3 58 0.91
4 2 0.03
ACGTcount: A:0.61, C:0.01, G:0.38, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:31737255 original size:16 final size:16
Alignment explanation
Indices: 31737234--31737268 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
31737224 ATAGCTCCAC
31737234 TTAACGATGGGATTAA
1 TTAACGATGGGATTAA
31737250 TTAACGATGGGATTAA
1 TTAACGATGGGATTAA
31737266 TTA
1 TTA
31737269 CAGTTGCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.37, C:0.06, G:0.23, T:0.34
Consensus pattern (16 bp):
TTAACGATGGGATTAA
Found at i:31742098 original size:32 final size:32
Alignment explanation
Indices: 31742062--31742132 Score: 97
Period size: 32 Copynumber: 2.2 Consensus size: 32
31742052 TTGTTCGATT
*
31742062 TTGAAATTATTATGTTTTAAATTTGTTAGACA
1 TTGAAATTATTATGTTTTAAACTTGTTAGACA
* * * *
31742094 TTGAATTTATTATGTTTTAAGCTTGTTGGATA
1 TTGAAATTATTATGTTTTAAACTTGTTAGACA
31742126 TTGAAAT
1 TTGAAAT
31742133 GATTGACAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.03, G:0.15, T:0.51
Consensus pattern (32 bp):
TTGAAATTATTATGTTTTAAACTTGTTAGACA
Found at i:31743575 original size:15 final size:14
Alignment explanation
Indices: 31743545--31743582 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
31743535 CCAGAAAAGT
*
31743545 AAATCATTTTTCAA
1 AAATTATTTTTCAA
31743559 AAATTATTTTTCAA
1 AAATTATTTTTCAA
*
31743573 AAAATATTTT
1 AAATTATTTT
31743583 ACTGACAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
AAATTATTTTTCAA
Found at i:31749693 original size:39 final size:39
Alignment explanation
Indices: 31749628--31749820 Score: 262
Period size: 39 Copynumber: 4.9 Consensus size: 39
31749618 CCACACATTT
31749628 CCAACAC-AATTGCCTTCGGGACTTAGCCCGGATATAACA
1 CCAACACGAA-TGCCTTCGGGACTTAGCCCGGATATAACA
* * *
31749667 CCAGCACGAATGCCTTTGGGATTTAGCCCGGATATAACA
1 CCAACACGAATGCCTTCGGGACTTAGCCCGGATATAACA
* *
31749706 CCAACAAGAATGCCTTCGGGACATAGCCCGGATATAACA
1 CCAACACGAATGCCTTCGGGACTTAGCCCGGATATAACA
* * * *
31749745 CCAGCACGAATGCCTTTGGGACTTAACCCGAATATAACA
1 CCAACACGAATGCCTTCGGGACTTAGCCCGGATATAACA
* * *
31749784 TCAAAATGAATGCCTTCGGGACTTAGCCCGGATATAA
1 CCAACACGAATGCCTTCGGGACTTAGCCCGGATATAA
31749821 ATCTCACACA
Statistics
Matches: 132, Mismatches: 21, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
39 130 0.98
40 2 0.02
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.21
Consensus pattern (39 bp):
CCAACACGAATGCCTTCGGGACTTAGCCCGGATATAACA
Found at i:31749757 original size:78 final size:78
Alignment explanation
Indices: 31749638--31749820 Score: 305
Period size: 78 Copynumber: 2.3 Consensus size: 78
31749628 CCAACACAAT
* * *
31749638 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTTGGGATTTAGCCCGGATATA
1 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTTGGGACTTAACCCGAATATA
31749703 ACACCAACAA-GAA
66 ACACCAA-AATGAA
*
31749716 TGCCTTCGGGACATAGCCCGGATATAACACCAGCACGAATGCCTTTGGGACTTAACCCGAATATA
1 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTTGGGACTTAACCCGAATATA
*
31749781 ACATCAAAATGAA
66 ACACCAAAATGAA
31749794 TGCCTTCGGGACTTAGCCCGGATATAA
1 TGCCTTCGGGACTTAGCCCGGATATAA
31749821 ATCTCACACA
Statistics
Matches: 98, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
77 2 0.02
78 96 0.98
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.21
Consensus pattern (78 bp):
TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTTGGGACTTAACCCGAATATA
ACACCAAAATGAA
Found at i:31751680 original size:2 final size:2
Alignment explanation
Indices: 31751675--31751707 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
31751665 AATATATATA
31751675 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
31751708 TCTATTGTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:31753111 original size:118 final size:117
Alignment explanation
Indices: 31752904--31753139 Score: 454
Period size: 118 Copynumber: 2.0 Consensus size: 117
31752894 CCATTAAATT
31752904 TGGGTTAAATAATTTATTTTTAATTAATTATGAAGAAAGGGTCCAGTTGAACCGCACCGATCAAG
1 TGGGTTAAATAATTTATTTTTAATTAATTATGAAGAAAGGGTCCAGTTGAACCGCACCGATCAAG
31752969 CCATATTGAGTGAACCGAACCAGCCACTAAATGGGCAGCCCAGAACCATCCA
66 CCATATTGAGTGAACCGAACCAGCCACTAAATGGGCAGCCCAGAACCATCCA
*
31753021 TGGGTTAAATAATTTATTTTTAATTATTTTATGAAGAAAGGGTCCAGTTGAACCGCACCGATCAA
1 TGGGTTAAATAATTTATTTTTAATTA-ATTATGAAGAAAGGGTCCAGTTGAACCGCACCGATCAA
31753086 GCCATATTGAGTGAACCGAACCAGCCACTAAATGGGCAGCCCAGAACCATCCA
65 GCCATATTGAGTGAACCGAACCAGCCACTAAATGGGCAGCCCAGAACCATCCA
31753139 T
1 T
31753140 AGGCTGACCC
Statistics
Matches: 117, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
117 26 0.22
118 91 0.78
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.25
Consensus pattern (117 bp):
TGGGTTAAATAATTTATTTTTAATTAATTATGAAGAAAGGGTCCAGTTGAACCGCACCGATCAAG
CCATATTGAGTGAACCGAACCAGCCACTAAATGGGCAGCCCAGAACCATCCA
Found at i:31754993 original size:39 final size:39
Alignment explanation
Indices: 31754939--31755017 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
31754929 ATTTAACGAT
31754939 CTTAATTCAGGTATTAGAAGACCCAAAATCGAGGCGTAA
1 CTTAATTCAGGTATTAGAAGACCCAAAATCGAGGCGTAA
31754978 CTTAATTCAGGTATTAGAAGACCCAAAATCGAGGCGTAA
1 CTTAATTCAGGTATTAGAAGACCCAAAATCGAGGCGTAA
31755017 C
1 C
31755018 AATTCGAGCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.23
Consensus pattern (39 bp):
CTTAATTCAGGTATTAGAAGACCCAAAATCGAGGCGTAA
Found at i:31759745 original size:42 final size:42
Alignment explanation
Indices: 31759698--31759783 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
31759688 GTCCAAAAGG
31759698 CTGGACGATGCTTTATGAGCTTACCGAACAACATAAAGACGC
1 CTGGACGATGCTTTATGAGCTTACCGAACAACATAAAGACGC
31759740 CTGGACGATGCTTTATGAGCTTACCGAACAACATAAAGACGC
1 CTGGACGATGCTTTATGAGCTTACCGAACAACATAAAGACGC
31759782 CT
1 CT
31759784 TTAGGGATGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.22
Consensus pattern (42 bp):
CTGGACGATGCTTTATGAGCTTACCGAACAACATAAAGACGC
Found at i:31760790 original size:22 final size:23
Alignment explanation
Indices: 31760742--31760793 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
31760732 ATGATAATCT
*
31760742 TTAATATATAATTATATCTATTA
1 TTAATTTATAATTATATCTATTA
31760765 -TAATTTATATATTA-ATCT-TTA
1 TTAATTTATA-ATTATATCTATTA
31760786 TTAATTTA
1 TTAATTTA
31760794 GCATAGAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 3 0.12
22 19 0.73
23 4 0.15
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (23 bp):
TTAATTTATAATTATATCTATTA
Found at i:31760818 original size:96 final size:96
Alignment explanation
Indices: 31760638--31760815 Score: 211
Period size: 96 Copynumber: 1.8 Consensus size: 96
31760628 TAAAATAAAA
* *
31760638 GATAATTATTAATATATAATTATATCCATTATAATATATATTAATTATTATCAAATTTTAGTATT
1 GATAATTATTAATATATAATTATATCCATTATAATATATATTAATTATTATCAAATTTTAGCATA
** *
31760703 TTATTTGATAAGTTTTTAATAATAATAAGAT
66 GAATTGGATAAGTTTTTAATAATAATAAGAT
* *
31760734 GATAATCT-TTAATATATAATTATATCTATTATAATTTATATATTAATCT-TTAT-TAA-TTTAG
1 GATAAT-TATTAATATATAATTATATCCATTATAA--TATATATTAAT-TATTATCAAATTTTAG
*
31760795 CATAGAATTAGGATTAGTTTT
62 CATAGAATT-GGATAAGTTTT
31760816 AATCATATTT
Statistics
Matches: 69, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
96 41 0.59
97 12 0.17
98 15 0.22
99 1 0.01
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.49
Consensus pattern (96 bp):
GATAATTATTAATATATAATTATATCCATTATAATATATATTAATTATTATCAAATTTTAGCATA
GAATTGGATAAGTTTTTAATAATAATAAGAT
Done.