Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 423 of 438
Found at i:130909604 original size:30 final size:30
Alignment explanation
Indices: 130909542--130909596 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 30
130909532 ATATGTTATA
*
130909542 AAAAGAAAGAGAAAACCTAATCTAAAAATG
1 AAAAGAAAGAGAAAACCTAACCTAAAAATG
*
130909572 AAAAGAAA-AG-AAGCCTAACCTAAAA
1 AAAAGAAAGAGAAAACCTAACCTAAAA
130909597 CTATGAAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 13 0.57
29 2 0.09
30 8 0.35
ACGTcount: A:0.64, C:0.13, G:0.13, T:0.11
Consensus pattern (30 bp):
AAAAGAAAGAGAAAACCTAACCTAAAAATG
Found at i:130910731 original size:24 final size:26
Alignment explanation
Indices: 130910686--130910734 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
130910676 AATAAAAATT
*
130910686 TTTAAAAATATAATAAATCAAATATA
1 TTTAAAAACATAATAAATCAAATATA
130910712 TTTAAAAACATAA-AAA-CAAATAT
1 TTTAAAAACATAATAAATCAAATAT
130910735 TAAGACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (26 bp):
TTTAAAAACATAATAAATCAAATATA
Found at i:130911687 original size:23 final size:22
Alignment explanation
Indices: 130911635--130911687 Score: 65
Period size: 21 Copynumber: 2.4 Consensus size: 22
130911625 AATGTATTTA
130911635 TAACTTGAAAAATATACATATAT
1 TAACTT-AAAAATATACATATAT
130911658 TAA-TTAAAAAT-TACATTATATT
1 TAACTTAAAAATATACA-TATA-T
130911680 TAACTTAA
1 TAACTTAA
130911688 TATTATATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.15
21 10 0.37
22 6 0.22
23 7 0.26
ACGTcount: A:0.51, C:0.08, G:0.02, T:0.40
Consensus pattern (22 bp):
TAACTTAAAAATATACATATAT
Found at i:130913436 original size:16 final size:16
Alignment explanation
Indices: 130913394--130913436 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
130913384 TTATAATTGA
*
130913394 AGAGTTGTAATGAAAT
1 AGAGCTGTAATGAAAT
* * *
130913410 AGCGCTATAATGGAAT
1 AGAGCTGTAATGAAAT
130913426 AGAGCTGTAAT
1 AGAGCTGTAAT
130913437 TAATAATTCA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.40, C:0.07, G:0.26, T:0.28
Consensus pattern (16 bp):
AGAGCTGTAATGAAAT
Found at i:130916992 original size:47 final size:47
Alignment explanation
Indices: 130916883--130916993 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
130916873 CCGGGATAAG
* *
130916883 CACATAGTGCTTCATCGGAATAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
130916930 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
130916977 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
130916994 ACTCAATGTC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 1 0.02
47 52 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:130917765 original size:4 final size:4
Alignment explanation
Indices: 130917756--130917784 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
130917746 CTCTTTTCTA
130917756 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
130917785 CACGTTTACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:130923963 original size:21 final size:19
Alignment explanation
Indices: 130923922--130923964 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
130923912 TATTTGAAGG
*
130923922 ATTACTACAGTTAACTAAA
1 ATTACTACAGTTAAATAAA
130923941 ATTACTACAGTTCCAAATAAA
1 ATTACTACAGTT--AAATAAA
130923962 ATT
1 ATT
130923965 GAAGGATTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 12 0.57
21 9 0.43
ACGTcount: A:0.47, C:0.16, G:0.05, T:0.33
Consensus pattern (19 bp):
ATTACTACAGTTAAATAAA
Found at i:130924477 original size:12 final size:12
Alignment explanation
Indices: 130924462--130924491 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
130924452 AATAATTAAA
130924462 TAAATTAGAAAT
1 TAAATTAGAAAT
*
130924474 TAAATTGGAAAT
1 TAAATTAGAAAT
130924486 TAAATT
1 TAAATT
130924492 CGGATTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.37
Consensus pattern (12 bp):
TAAATTAGAAAT
Found at i:130925928 original size:16 final size:16
Alignment explanation
Indices: 130925884--130925938 Score: 67
Period size: 16 Copynumber: 3.4 Consensus size: 16
130925874 TGAATTACTG
130925884 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCA
* *
130925900 ATTATAACTCTATTCA
1 ATTACAGCTCTATTCA
*
130925916 ATTACAGCCCTATCTC-
1 ATTACAGCTCTAT-TCA
130925932 ATTACAG
1 ATTACAG
130925939 TGAACCAAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
16 31 0.94
17 2 0.06
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.36
Consensus pattern (16 bp):
ATTACAGCTCTATTCA
Found at i:130926461 original size:24 final size:25
Alignment explanation
Indices: 130926407--130926461 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 25
130926397 TCGACTTGAC
* *
130926407 TAGAATTCTATTTATTTAAAAAAAT
1 TAGAATTCAATTTAATTAAAAAAAT
* *
130926432 TA-AATTGAATTTAATTAATAAAA-
1 TAGAATTCAATTTAATTAAAAAAAT
130926455 TAGAATT
1 TAGAATT
130926462 TATCAATTCG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
23 2 0.08
24 21 0.84
25 2 0.08
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.42
Consensus pattern (25 bp):
TAGAATTCAATTTAATTAAAAAAAT
Found at i:130942463 original size:34 final size:36
Alignment explanation
Indices: 130942396--130942470 Score: 109
Period size: 35 Copynumber: 2.1 Consensus size: 36
130942386 ATGTCTCATG
130942396 AAAATGTATCCATTGAATAATAATTTATCACTTTC-
1 AAAATGTATCCATTGAATAATAATTTATCACTTTCT
** *
130942431 AAAATGTATTTATTGAATGATAA-TTATCACTTTCT
1 AAAATGTATCCATTGAATAATAATTTATCACTTTCT
130942466 AAAAT
1 AAAAT
130942471 TGAATAAGTG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
34 11 0.31
35 25 0.69
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (36 bp):
AAAATGTATCCATTGAATAATAATTTATCACTTTCT
Found at i:130943765 original size:21 final size:21
Alignment explanation
Indices: 130943715--130943765 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
130943705 ATTTGAAGAA
*
130943715 AATTATAAAAATATTGATTTTG
1 AATTA-AAAAATATTGAGTTTG
**
130943737 AAAGAAAAAA-AGTTGAGTTTG
1 AATTAAAAAATA-TTGAGTTTG
130943758 AATTAAAA
1 AATTAAAA
130943766 TTTGAAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
20 1 0.04
21 19 0.83
22 3 0.13
ACGTcount: A:0.53, C:0.00, G:0.14, T:0.33
Consensus pattern (21 bp):
AATTAAAAAATATTGAGTTTG
Found at i:130945543 original size:27 final size:27
Alignment explanation
Indices: 130945497--130945566 Score: 74
Period size: 27 Copynumber: 2.6 Consensus size: 27
130945487 TTTTTTTAAA
*
130945497 AATATTTATATTATATTATTT-TATTATTT
1 AATAATTATA-TATA-TATTTCT-TTATTT
130945526 AATAATTATATATATATTTCTTTATTT
1 AATAATTATATATATATTTCTTTATTT
*
130945553 AA-AATT-TTTATATA
1 AATAATTATATATATA
130945567 ATCATCTTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
25 7 0.18
26 4 0.11
27 13 0.34
28 5 0.13
29 9 0.24
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (27 bp):
AATAATTATATATATATTTCTTTATTT
Found at i:130946200 original size:15 final size:15
Alignment explanation
Indices: 130946182--130946227 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
130946172 TAATTGTTGG
130946182 AAATATATAGATATT
1 AAATATATAGATATT
*
130946197 AAATATATATGATA-C
1 AAATATATA-GATATT
130946212 AAATA-ATTAGATATT
1 AAATATA-TAGATATT
130946227 A
1 A
130946228 TTGGTAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
14 5 0.19
15 17 0.65
16 4 0.15
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.37
Consensus pattern (15 bp):
AAATATATAGATATT
Found at i:130947093 original size:20 final size:21
Alignment explanation
Indices: 130947068--130947119 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
130947058 TTTAATTAAA
130947068 CCCTTTACAAACCCATTT-AC
1 CCCTTTACAAACCCATTTGAC
*
130947088 CCCTTTTACAAACCCGTTTGAC
1 CCC-TTTACAAACCCATTTGAC
*
130947110 CCATTTACAA
1 CCCTTTACAA
130947120 CCATTAGCCC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 3 0.11
21 21 0.75
22 4 0.14
ACGTcount: A:0.29, C:0.37, G:0.04, T:0.31
Consensus pattern (21 bp):
CCCTTTACAAACCCATTTGAC
Found at i:130950379 original size:21 final size:20
Alignment explanation
Indices: 130950351--130950389 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
130950341 TTGAAATAAG
*
130950351 ATTAAAGGTTTGATAAATGT
1 ATTAAAGGTATGATAAATGT
*
130950371 ATTATAAGGTATGGTAAAT
1 ATTA-AAGGTATGATAAAT
130950390 TAAAAAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.21, T:0.38
Consensus pattern (20 bp):
ATTAAAGGTATGATAAATGT
Found at i:130950941 original size:39 final size:39
Alignment explanation
Indices: 130950892--130950969 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
130950882 ATTTTTTAAA
130950892 CTTAATCTCTCTACCTATGCTTTTAAGAATTTAGTTTTT
1 CTTAATCTCTCTACCTATGCTTTTAAGAATTTAGTTTTT
130950931 CTTAATCTCTCTACCTATGCTTTTAAGAATTTAGTTTTT
1 CTTAATCTCTCTACCTATGCTTTTAAGAATTTAGTTTTT
130950970 ATATTTCTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.23, C:0.18, G:0.08, T:0.51
Consensus pattern (39 bp):
CTTAATCTCTCTACCTATGCTTTTAAGAATTTAGTTTTT
Found at i:130957432 original size:43 final size:45
Alignment explanation
Indices: 130957341--130957462 Score: 135
Period size: 43 Copynumber: 2.8 Consensus size: 45
130957331 AACCCATATC
* * * *
130957341 GATGCCATTATCCCAGACAGGGTCTTACACG-AA-CTCGATTAAA
1 GATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCGAATAAA
* *
130957384 GATGCCAATGTCCCAGACATGTTCTTACACGTAATCTC-AATACA
1 GATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCGAATAAA
** *
130957428 -ATGCCAATGTCTTAGACATGGTCTTACATGTAATC
1 GATGCCAATGTCCCAGACATGGTCTTACACGTAATC
130957463 GCATCTCGGT
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
43 58 0.87
44 6 0.09
45 3 0.04
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (45 bp):
GATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCGAATAAA
Found at i:130970078 original size:16 final size:15
Alignment explanation
Indices: 130970057--130970095 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
130970047 AAAATTTATG
130970057 AAAATTATACATTTAA
1 AAAATTATA-ATTTAA
130970073 AAAATTATAATTTAA
1 AAAATTATAATTTAA
130970088 AGAAATTA
1 A-AAATTA
130970096 CAGTAATTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 7 0.32
16 15 0.68
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (15 bp):
AAAATTATAATTTAA
Found at i:130970265 original size:7 final size:7
Alignment explanation
Indices: 130970235--130970263 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
130970225 ATTTTCATCA
130970235 TTATAAT
1 TTATAAT
130970242 TTATAAT
1 TTATAAT
130970249 TTATAAT
1 TTATAAT
130970256 TT-TAAT
1 TTATAAT
130970262 TT
1 TT
130970264 TTTTTATGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (7 bp):
TTATAAT
Found at i:130970938 original size:2 final size:2
Alignment explanation
Indices: 130970931--130970969 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
130970921 TTAGTTAATC
130970931 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
130970970 AACAAGGTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:130972633 original size:25 final size:25
Alignment explanation
Indices: 130972591--130972684 Score: 70
Period size: 25 Copynumber: 3.8 Consensus size: 25
130972581 TTTATTTATC
* ** *
130972591 ATATATTATTTTCCTATATATATTT
1 ATATTTTATTTTATTATATATAATT
130972616 ATATTTTATTTTATTATATA-ACATT
1 ATATTTTATTTTATTATATATA-ATT
* *
130972641 -TATTATATTTTTATTATATATTACTT
1 ATATTTTA-TTTTATTATATA-TAATT
130972667 AT-TATTT-TTTTATTATAT
1 ATAT-TTTATTTTATTATAT
130972685 GTTATGTATA
Statistics
Matches: 56, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
24 7 0.12
25 42 0.75
26 3 0.05
27 4 0.07
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (25 bp):
ATATTTTATTTTATTATATATAATT
Found at i:130972653 original size:11 final size:11
Alignment explanation
Indices: 130972639--130972684 Score: 56
Period size: 11 Copynumber: 3.9 Consensus size: 11
130972629 TTATATAACA
130972639 TTTATTATATT
1 TTTATTATATT
130972650 TTTATTATATAT
1 TTTATTATAT-T
*
130972662 TACTTATTATTTT
1 T--TTATTATATT
130972675 TTTATTATAT
1 TTTATTATAT
130972685 GTTATGTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
11 18 0.60
12 2 0.07
13 2 0.07
14 8 0.27
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTATTATATT
Found at i:130972740 original size:12 final size:12
Alignment explanation
Indices: 130972725--130972749 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
130972715 TATTTATGTT
130972725 TTATATTATTCA
1 TTATATTATTCA
130972737 TTATATTATTCA
1 TTATATTATTCA
130972749 T
1 T
130972750 AATTTTAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (12 bp):
TTATATTATTCA
Found at i:130977170 original size:26 final size:26
Alignment explanation
Indices: 130977134--130977190 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
130977124 CAAGACTTTC
130977134 AAGACAATTTTGTAAATAACATTACA
1 AAGACAATTTTGTAAATAACATTACA
130977160 AAGACAATTTTGTAAATAACATTACA
1 AAGACAATTTTGTAAATAACATTACA
130977186 AAGAC
1 AAGAC
130977191 TTATTGGCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.51, C:0.12, G:0.09, T:0.28
Consensus pattern (26 bp):
AAGACAATTTTGTAAATAACATTACA
Found at i:130982759 original size:17 final size:18
Alignment explanation
Indices: 130982734--130982771 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
130982724 TTTACCTTTT
*
130982734 CTAAATTAA-AGTTAAAA
1 CTAAATTAAGAGGTAAAA
*
130982751 CTAAGTTAAGAGGTAAAA
1 CTAAATTAAGAGGTAAAA
130982769 CTA
1 CTA
130982772 CGTCATTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.53, C:0.08, G:0.13, T:0.26
Consensus pattern (18 bp):
CTAAATTAAGAGGTAAAA
Found at i:130983035 original size:5 final size:5
Alignment explanation
Indices: 130983025--130983049 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
130983015 TACTCGATTT
130983025 GACTC GACTC GACTC GACTC GACTC
1 GACTC GACTC GACTC GACTC GACTC
130983050 AATCAAATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.40, G:0.20, T:0.20
Consensus pattern (5 bp):
GACTC
Found at i:130986243 original size:18 final size:16
Alignment explanation
Indices: 130986227--130986257 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
130986217 TTTTAATTAA
130986227 ATTATTTAAAATAATT
1 ATTATTTAAAATAATT
*
130986243 ATTTTTTAAAATAAT
1 ATTATTTAAAATAAT
130986258 AAACAAACCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATTATTTAAAATAATT
Found at i:130989920 original size:31 final size:31
Alignment explanation
Indices: 130989882--130989941 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
130989872 AAACAAAACA
130989882 AAACTTAATGATGACTGAAATTCTAAAATCT
1 AAACTTAATGATGACTGAAATTCTAAAATCT
130989913 AAACTTAATGATGACTGAAATTCTAAAAT
1 AAACTTAATGATGACTGAAATTCTAAAAT
130989942 ATGAAAAGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.32
Consensus pattern (31 bp):
AAACTTAATGATGACTGAAATTCTAAAATCT
Found at i:130995761 original size:7 final size:7
Alignment explanation
Indices: 130995729--130995762 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
130995719 ATTGCAAATA
130995729 AAAATTG
1 AAAATTG
*
130995736 AAAACTG
1 AAAATTG
*
130995743 AAAACTG
1 AAAATTG
130995750 AAAATTG
1 AAAATTG
130995757 AAAATT
1 AAAATT
130995763 TGAATTTGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.59, C:0.06, G:0.12, T:0.24
Consensus pattern (7 bp):
AAAATTG
Found at i:130996324 original size:27 final size:27
Alignment explanation
Indices: 130996286--130996340 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
130996276 AAAAAATAAT
130996286 AAACATTACATTTATTTGTTAGTTTAC
1 AAACATTACATTTATTTGTTAGTTTAC
130996313 AAACATTACATTTATTTGTTAGTTTAC
1 AAACATTACATTTATTTGTTAGTTTAC
130996340 A
1 A
130996341 TAATTTATCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.35, C:0.11, G:0.07, T:0.47
Consensus pattern (27 bp):
AAACATTACATTTATTTGTTAGTTTAC
Found at i:130998158 original size:22 final size:22
Alignment explanation
Indices: 130998133--130998175 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
130998123 ATCCAAAAAA
130998133 ATAACAACAAAAT-AGTAGTAAT
1 ATAACAACAAAATGA-TAGTAAT
**
130998155 ATAATGACAAAATGATAGTAA
1 ATAACAACAAAATGATAGTAA
130998176 AACAACAGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.58, C:0.07, G:0.12, T:0.23
Consensus pattern (22 bp):
ATAACAACAAAATGATAGTAAT
Found at i:131001656 original size:26 final size:26
Alignment explanation
Indices: 131001620--131001675 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
131001610 CCTTGCTATC
*
131001620 TAGTTTTTACAGTACTTCTATACCTT
1 TAGTTTTTACAGTACTTATATACCTT
*
131001646 TAGTTTTTACAGTTCTTATATACCTT
1 TAGTTTTTACAGTACTTATATACCTT
131001672 TAGT
1 TAGT
131001676 CCCTTATCCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.23, C:0.16, G:0.09, T:0.52
Consensus pattern (26 bp):
TAGTTTTTACAGTACTTATATACCTT
Found at i:131004221 original size:30 final size:30
Alignment explanation
Indices: 131004185--131004245 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
131004175 CAGCTTTCAA
131004185 AGTGCAGGAGGCAATTACAAATATATTTTT
1 AGTGCAGGAGGCAATTACAAATATATTTTT
131004215 AGTGCAGGAGGCAATTACAAATATATTTTT
1 AGTGCAGGAGGCAATTACAAATATATTTTT
131004245 A
1 A
131004246 TCTTTTGTAT
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:0.38, C:0.10, G:0.20, T:0.33
Consensus pattern (30 bp):
AGTGCAGGAGGCAATTACAAATATATTTTT
Found at i:131007969 original size:216 final size:216
Alignment explanation
Indices: 131007655--131008740 Score: 1366
Period size: 216 Copynumber: 5.0 Consensus size: 216
131007645 ACTGCTAAGT
* * * * ** * * * *
131007655 CCATCTTAGATTCCATATTCAAAGTAATACTTTCAATTTTACCAATTCTCTCACCATTTTCCCCG
1 CCATCTTAGACTCCGTATTCAAAATAGTACACTCAATTTTACCAATTCCCTCACCTTTTTCCTCA
* * * * * *
131007720 GCACCACTATTTTCTTCCTCCTCCAGA-TTAACACTGTGAGAAACTTCGCTTTTGGAACT-AAGC
66 GCACCAGTATTTTCTTCCTCTTCCA-ACTTAACACTGTGGGGAACTTCACTTTTGGAACTGGA-C
* * * * * * * *
131007783 TCTAAAGAAGCTAATTCAGTTCTAGTTTCACTTCCACTAGCAGGAGCTTCCAATGGAGGAGAAGC
129 TCTGAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGCAGAAGCTTCCAGTGGAGGAGAAGC
**
131007848 CTTTTCTAAATCAGGAACTAAAG
194 CTTTTCTGTATCAGGAACTAAAG
* * * * **
131007871 CCATCTTAGACTCCATATTCGAAGTAGTACACTCAAATTTACCAATTCTTTCACCTTTTTCCTCA
1 CCATCTTAGACTCCGTATTCAAAATAGTACACTCAATTTTACCAATTCCCTCACCTTTTTCCTCA
* * * * * *
131007936 GCACTAGTGTCTTCTTCCTCTTCCAACTTAACACTCTGGGGATCTTCACTTTTGGAACCGGACTC
66 GCACCAGTATTTTCTTCCTCTTCCAACTTAACACTGTGGGGAACTTCACTTTTGGAACTGGACTC
* * *
131008001 TAAAGGAGCTGATTCAGTTGTAATTTCACTTTCAATGGCAGAAGCTTCCAGTGGAGGAGAAGCCT
131 TGAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGCAGAAGCTTCCAGTGGAGGAGAAGCCT
*
131008066 TTTCTGTATCAGTAACTAAAG
196 TTTCTGTATCAGGAACTAAAG
* * * *
131008087 CTATCTTAGACTCCGTATTCAAAATTGTAAACTCAATTTTACCAATTCCCTCACCTTCTTCCTCA
1 CCATCTTAGACTCCGTATTCAAAATAGTACACTCAATTTTACCAATTCCCTCACCTTTTTCCTCA
* * * *
131008152 GCACCAGTATTTTCTTCCTTTTCCAACTGAACACTCTGGGGAACTTTACTTTTGGAACTGGACTC
66 GCACCAGTATTTTCTTCCTCTTCCAACTTAACACTGTGGGGAACTTCACTTTTGGAACTGGACTC
* * *
131008217 TGAAGGAGCTAATGCAGTTGTAGTTTCACTTTCAATAGCAAAAGCTTCCAGTGGAGGAGAAGCCT
131 TGAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGCAGAAGCTTCCAGTGGAGGAGAAGCCT
131008282 TTTCTGTATCAGGAACTAAAG
196 TTTCTGTATCAGGAACTAAAG
* * *
131008303 CCATCTTAGACTCTGTATTCAAAATAGAACATTCAATTTTACCAATTCCCTCACCTTTTTCCTCA
1 CCATCTTAGACTCCGTATTCAAAATAGTACACTCAATTTTACCAATTCCCTCACCTTTTTCCTCA
* *
131008368 GCACCAGCATTTTCATCCTCTTCCAACTTAACACTGTGGGGAACTTCACTTTTGGAACTGGACTC
66 GCACCAGTATTTTCTTCCTCTTCCAACTTAACACTGTGGGGAACTTCACTTTTGGAACTGGACTC
* * * * *
131008433 TGAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGCAGAAACTTCAAGTGGAAGCGCAGCCT
131 TGAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGCAGAAGCTTCCAGTGGAGGAGAAGCCT
*
131008498 TTTCTGTATCAAGAACTAAAG
196 TTTCTGTATCAGGAACTAAAG
* ** *
131008519 CCATCTTAGACTCTGTATTCAAAATAGTACACTCAATTTTACCAAACCCCTCACCATTTTCCTCA
1 CCATCTTAGACTCCGTATTCAAAATAGTACACTCAATTTTACCAATTCCCTCACCTTTTTCCTCA
** * *** **
131008584 GCACCAGCGTTTTCTTCTTCTTCCAACTTAACACTGTGGGGAACTTCACTTTCCAAACCAGACTC
66 GCACCAGTATTTTCTTCCTCTTCCAACTTAACACTGTGGGGAACTTCACTTTTGGAACTGGACTC
** * * * * *
131008649 TGAAGGAGCCGATTCAGTTGTAATTTCACTTCCAATATCAGAAGCTCCCAGTGGGGGAGAAACCT
131 TGAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGCAGAAGCTTCCAGTGGAGGAGAAGCCT
* * *
131008714 TTTCTATATCAGGAGCTAAAT
196 TTTCTGTATCAGGAACTAAAG
131008735 CCATCT
1 CCATCT
131008741 CTGATACCAT
Statistics
Matches: 758, Mismatches: 110, Indels: 4
0.87 0.13 0.00
Matches are distributed among these distances:
215 1 0.00
216 756 1.00
217 1 0.00
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (216 bp):
CCATCTTAGACTCCGTATTCAAAATAGTACACTCAATTTTACCAATTCCCTCACCTTTTTCCTCA
GCACCAGTATTTTCTTCCTCTTCCAACTTAACACTGTGGGGAACTTCACTTTTGGAACTGGACTC
TGAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGCAGAAGCTTCCAGTGGAGGAGAAGCCT
TTTCTGTATCAGGAACTAAAG
Found at i:131008830 original size:432 final size:430
Alignment explanation
Indices: 131007799--131008858 Score: 1143
Period size: 432 Copynumber: 2.5 Consensus size: 430
131007789 GAAGCTAATT
* * * ** * * * *
131007799 CAGTTCTAGTTTCACTTCCACTAGCAGGAGCTTCCAATGGAGGAGAAGCCTTTTCTAAATCAGGA
1 CAGTTGTAATTTCACTTCCAATAGCAAAAGCTCCCAGTGGAGGAGAAACCTTTTCTATATCAGGA
* ** * * * **
131007864 ACTAAAGCCATCTTAGACTCCATATTCGAAGTAGTACACTCAAATTTACCAATTCTTTCACCTTT
66 ACTAAAGCCATCTTAGACTCCATATTCAAAACAGAACACTCAATTTTACCAATTC-CTCACCTAC
* * *** * * * * *
131007929 TTCCTCAGCACTAGTGTCTTCTTCCTCTTCCAACTTAACACTCTGGGGATCTTCACTTTTGGAAC
130 TTCCTCAGAACCACCATTTTCATCCTCGT-CAACTTAACACTATGGGGAACTTCACTTTTGGAAC
* * * * *
131007994 CGGACTCTAAAGGAGCTGATTCAGTTGTAATTTCACTTTCAATGGCAGAAGCTTCCAGTGGAGGA
194 CGGACTCTAAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGCAGAAACTTCAAGTGGAAGA
* *
131008059 GAAGCCTTTTCTGTATCAGTAACTAAAGCTATCTTAGACTCCGTATTCAAAATTGTAAACTCAAT
259 GAAGCCTTTTCTGTATCAGTAACTAAAGCCATCTTAGACTCCGTATTCAAAATAGTAAACTCAAT
** *
131008124 TTTACCAATTCCCTCACCTTCTTCCTCAGCACCAGTATTTTCTTCCTTTTCCAACTGAACACTCT
324 TTTACCAAACCCCTCACCTTCTTCCTCAGCACCAGCATTTTCTTCCTTTTCCAACTGAACACTCT
* *** ** *
131008189 GGGGAACTTTACTTTTGGAACTGGACTCTGAAGGAGCTAATG
389 GGGGAACTTCACTTTCCAAACCAGACTCTGAAGGAGCCAATG
* * * * *
131008231 CAGTTGTAGTTTCACTTTCAATAGCAAAAGCTTCCAGTGGAGGAGAAGCCTTTTCTGTATCAGGA
1 CAGTTGTAATTTCACTTCCAATAGCAAAAGCTCCCAGTGGAGGAGAAACCTTTTCTATATCAGGA
** * * **
131008296 ACTAAAGCCATCTTAGACTCTGTATTCAAAATAGAACATTCAATTTTACCAATTCCCTCACCTTT
66 ACTAAAGCCATCTTAGACTCCATATTCAAAACAGAACACTCAATTTTACCAATT-CCTCACCTAC
* * * *
131008361 TTCCTCAGCACCAGCATTTTCATCCTCTTCCAACTTAACACTGTGGGGAACTTCACTTTTGGAAC
130 TTCCTCAGAACCACCATTTTCATCCTCGT-CAACTTAACACTATGGGGAACTTCACTTTTGGAAC
* * *
131008426 TGGACTCTGAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGCAGAAACTTCAAGTGGAAGC
194 CGGACTCTAAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGCAGAAACTTCAAGTGGAAGA
* * *
131008491 GCAGCCTTTTCTGTATCAAG-AACTAAAGCCATCTTAGACTCTGTATTCAAAATAGTACACTCAA
259 GAAGCCTTTTCTGTATC-AGTAACTAAAGCCATCTTAGACTCCGTATTCAAAATAGTAAACTCAA
* *
131008555 TTTTACCAAACCCCTCACCATT-TTCCTCAGCACCAGCGTTTTCTT-CTTCTTCCAACTTAACAC
323 TTTTACCAAACCCCTCACC-TTCTTCCTCAGCACCAGCATTTTCTTCCTT-TTCCAACTGAACAC
* * *
131008618 TGTGGGGAACTTCACTTTCCAAACCAGACTCTGAAGGAGCCGATT
386 TCTGGGGAACTTCACTTTCCAAACCAGACTCTGAAGGAGCCAATG
* * *
131008663 CAGTTGTAATTTCACTTCCAATATCAGAAGCTCCCAGTGGGGGAGAAACCTTTTCTATATCAGGA
1 CAGTTGTAATTTCACTTCCAATAGCAAAAGCTCCCAGTGGAGGAGAAACCTTTTCTATATCAGGA
* * * * * *
131008728 GCTAAATCCATCTCT-GA-TACCATATTCAGAGCAGTATC-CTCAGTTTTACCATCATT-CTCAC
66 ACTAAAGCCATCT-TAGACT-CCATATTCAAAACAG-AACACTCAATTTTACCA--ATTCCTCAC
* * * *
131008789 C-ACTTCCTTCAGAACCACCCTTATTTGACTCCT-GT-AACTTAACACCATGGGGCACTTCAAC-
126 CTACTTCC-TCAGAACCA-CCAT-TTTCA-TCCTCGTCAACTTAACACTATGGGGAACTTC-ACT
131008850 TTTGGAACC
186 TTTGGAACC
131008859 CAACTCTGGT
Statistics
Matches: 534, Mismatches: 80, Indels: 28
0.83 0.12 0.04
Matches are distributed among these distances:
431 8 0.01
432 502 0.94
433 12 0.02
434 8 0.01
435 4 0.01
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.32
Consensus pattern (430 bp):
CAGTTGTAATTTCACTTCCAATAGCAAAAGCTCCCAGTGGAGGAGAAACCTTTTCTATATCAGGA
ACTAAAGCCATCTTAGACTCCATATTCAAAACAGAACACTCAATTTTACCAATTCCTCACCTACT
TCCTCAGAACCACCATTTTCATCCTCGTCAACTTAACACTATGGGGAACTTCACTTTTGGAACCG
GACTCTAAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGCAGAAACTTCAAGTGGAAGAGA
AGCCTTTTCTGTATCAGTAACTAAAGCCATCTTAGACTCCGTATTCAAAATAGTAAACTCAATTT
TACCAAACCCCTCACCTTCTTCCTCAGCACCAGCATTTTCTTCCTTTTCCAACTGAACACTCTGG
GGAACTTCACTTTCCAAACCAGACTCTGAAGGAGCCAATG
Found at i:131008890 original size:648 final size:646
Alignment explanation
Indices: 131007655--131008899 Score: 1440
Period size: 648 Copynumber: 1.9 Consensus size: 646
131007645 ACTGCTAAGT
* * * * *
131007655 CCATCTTAGATTCCATATTCAAAGTAATACTTTCAATTTTACCAATTCTCTCACCATTTTCCCCG
1 CCATCTTAGACTCCATATTCAAAATAATACATTCAATTTTACCAATTCCCTCACCATTTTCCCCA
* *
131007720 GCACCACTATTTTCTTCCTCCTCCAGATTAACACTGTGAGAAACTTCGCTTTTGGAACTAAGCTC
66 GCACCACTATTTTCATCCTCCTCCAGATTAACACTGTGAGAAACTTCACTTTTGGAACTAAGCTC
* * * * *
131007785 TAAAGAAGCTAATTCAGTTCTAGTTTCACTTCCACTAGCAGGAGCTTCCAATGGAGGAGAAGCCT
131 TAAAGAAGCTAATTCAGTTCTAATTTCACTTCCAATAGCAGAAACTTCCAATGGAAGAGAAGCCT
* * *
131007850 TTTCTAAATCAGGAACTAAAGCCATCTTAGACTCCATATTCGAAGTAGTACACTCAAATTTACCA
196 TTTCTAAATCAAGAACTAAAGCCATCTTAGACTCCATATTCAAAATAGTACACTCAAATTTACCA
** ** * * * *
131007915 ATTCTTTCACCTTTTTCCTCAGCACTAGTGTCTTCTTCCTCTTCCAACTTAACACTCTGGGGATC
261 AACCCCTCACCATTTTCCTCAGCACCAGCGTCTTCTTCCTCTTCCAACTTAACACTCTGGGGAAC
*** * * * *
131007980 TTCACTTTTGGAACCGGACTCTAAAGGAGCTGATTCAGTTGTAATTTCACTTTCAATGGCAGAAG
326 TTCACTTTCCAAACCAGACTCTAAAGGAGCCGATTCAGTTGTAATTTCACTTCCAATAGCAGAAG
* * * * * *
131008045 CTTCCAGTGGAGGAGAAGCCTTTTCTGTATCAGTAACTAAAGCTATCTTAGACTCCGTATTCAAA
391 CTCCCAGTGGAGGAGAAACCTTTTCTATATCAGGAACTAAAGCCATCTTAGACTCCATATTCAAA
** * * *
131008110 ATTGTAAACTCAATTTTACCAATTCCCTCACCTTCTTCCTCAGCACCAGTATTTTCTTCCTTTTC
456 ACAGTAAACTCAATTTTACCAATT-CCTCACCTACTTCCTCAGCACCAGTATTTACTTCCTTGT-
* *** * * *
131008175 CAACTGAACACTCTGGGGAACTTTACTTTTGGAACTGGACTCTGAAGGAGCTAATGCAGTTGTAG
519 CAACTGAACACTCTGGGGAACTTAACTTTTGGAACCCAACTCTGAAGAACCTAATGCAGTAGTAG
131008240 TTTCACTTTCAATAGCAAAAGCTTCCAGTGGAGGAGAAGCCTTTTCTGTATCAGGAACTAAAG
584 TTTCACTTTCAATAGCAAAAGCTTCCAGTGGAGGAGAAGCCTTTTCTGTATCAGGAACTAAAG
** * *
131008303 CCATCTTAGACTCTGTATTCAAAATAGA-ACATTCAATTTTACCAATTCCCTCACCTTTTTCCTC
1 CCATCTTAGACTCCATATTCAAAATA-ATACATTCAATTTTACCAATTCCCTCACCATTTTCCCC
* * * *
131008367 AGCACCAGC-ATTTTCATCCTCTTCCA-ACTTAACACTGTGGGGAACTTCACTTTTGGAACT-GG
65 AGCACCA-CTATTTTCATCCTCCTCCAGA-TTAACACTGTGAGAAACTTCACTTTTGGAACTAAG
* * * * * *
131008429 ACTCTGAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGCAGAAACTT-CAAGTGGAAGCGC
128 -CTCTAAAGAAGCTAATTCAGTTCTAATTTCACTTCCAATAGCAGAAACTTCCAA-TGGAAGAGA
** ** *
131008493 AGCCTTTTCTGTATCAAGAACTAAAGCCATCTTAGACTCTGTATTCAAAATAGTACACTCAATTT
191 AGCCTTTTCTAAATCAAGAACTAAAGCCATCTTAGACTCCATATTCAAAATAGTACACTCAAATT
* * *
131008558 TACCAAACCCCTCACCATTTTCCTCAGCACCAGCGTTTTCTTCTTCTTCCAACTTAACACTGTGG
256 TACCAAACCCCTCACCATTTTCCTCAGCACCAGCGTCTTCTTCCTCTTCCAACTTAACACTCTGG
* *
131008623 GGAACTTCACTTTCCAAACCAGACTCTGAAGGAGCCGATTCAGTTGTAATTTCACTTCCAATATC
321 GGAACTTCACTTTCCAAACCAGACTCTAAAGGAGCCGATTCAGTTGTAATTTCACTTCCAATAGC
* * *
131008688 AGAAGCTCCCAGTGGGGGAGAAACCTTTTCTATATCAGGAGCTAAATCCATCTCT-GA-TACCAT
386 AGAAGCTCCCAGTGGAGGAGAAACCTTTTCTATATCAGGAACTAAAGCCATCT-TAGACT-CCAT
* * ** * **
131008751 ATTCAGAGCAGTATCCTCAGTTTTACCATCATT-CTCACC-ACTTCCTTCAGAACCACCCTTATT
449 ATTCAAAACAGTAAACTCAATTTTACCA--ATTCCTCACCTACTTCC-TCAG---CACCAGTATT
* * **
131008814 TGAC-TCC-TGT-AACTTAACAC-CATGGGGCACTTCAAC-TTTGGAACCCAACTCTGGTGAACC
508 T-ACTTCCTTGTCAACTGAACACTC-TGGGGAACTT-AACTTTTGGAACCCAACTCTGAAGAACC
131008874 TAATAG-AGTAGTAGTTTCACTTTCAA
570 TAAT-GCAGTAGTAGTTTCACTTTCAA
131008900 CAACAGAAGC
Statistics
Matches: 494, Mismatches: 86, Indels: 34
0.80 0.14 0.06
Matches are distributed among these distances:
647 12 0.02
648 458 0.93
649 6 0.01
650 5 0.01
651 12 0.02
652 1 0.00
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.32
Consensus pattern (646 bp):
CCATCTTAGACTCCATATTCAAAATAATACATTCAATTTTACCAATTCCCTCACCATTTTCCCCA
GCACCACTATTTTCATCCTCCTCCAGATTAACACTGTGAGAAACTTCACTTTTGGAACTAAGCTC
TAAAGAAGCTAATTCAGTTCTAATTTCACTTCCAATAGCAGAAACTTCCAATGGAAGAGAAGCCT
TTTCTAAATCAAGAACTAAAGCCATCTTAGACTCCATATTCAAAATAGTACACTCAAATTTACCA
AACCCCTCACCATTTTCCTCAGCACCAGCGTCTTCTTCCTCTTCCAACTTAACACTCTGGGGAAC
TTCACTTTCCAAACCAGACTCTAAAGGAGCCGATTCAGTTGTAATTTCACTTCCAATAGCAGAAG
CTCCCAGTGGAGGAGAAACCTTTTCTATATCAGGAACTAAAGCCATCTTAGACTCCATATTCAAA
ACAGTAAACTCAATTTTACCAATTCCTCACCTACTTCCTCAGCACCAGTATTTACTTCCTTGTCA
ACTGAACACTCTGGGGAACTTAACTTTTGGAACCCAACTCTGAAGAACCTAATGCAGTAGTAGTT
TCACTTTCAATAGCAAAAGCTTCCAGTGGAGGAGAAGCCTTTTCTGTATCAGGAACTAAAG
Found at i:131014572 original size:31 final size:31
Alignment explanation
Indices: 131014500--131014572 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
131014490 TTACTTTAAT
*
131014500 TTTGTAAATTTTAGTTTATGTACTTTTCGAA
1 TTTGTAAATTTTAGTTTATGTACTTTTCAAA
* * * *
131014531 TTGGTCAATTTTAGTTTGTGTCCTTTTCAAAA
1 TTTGTAAATTTTAGTTTATGTACTTTTC-AAA
131014563 TTTG-AAATTT
1 TTTGTAAATTT
131014573 CAATCCTGAC
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
31 29 0.85
32 5 0.15
ACGTcount: A:0.25, C:0.08, G:0.14, T:0.53
Consensus pattern (31 bp):
TTTGTAAATTTTAGTTTATGTACTTTTCAAA
Found at i:131016689 original size:21 final size:22
Alignment explanation
Indices: 131016655--131016695 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
131016645 TTTGTGAATT
131016655 ATTATTATAATTATAATTAATG
1 ATTATTATAATTATAATTAATG
*
131016677 ATTATTA-AATTATATTTAA
1 ATTATTATAATTATAATTAA
131016696 ATAAAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
ATTATTATAATTATAATTAATG
Found at i:131016931 original size:14 final size:14
Alignment explanation
Indices: 131016912--131016968 Score: 64
Period size: 14 Copynumber: 4.1 Consensus size: 14
131016902 TTCACTCAAT
131016912 AATATATAAATTAC
1 AATATATAAATTAC
** *
131016926 AATATATTCATTAT
1 AATATATAAATTAC
131016940 AAT-TATAAATTAC
1 AATATATAAATTAC
131016953 AATATATTAAA-TAC
1 AATATA-TAAATTAC
131016967 AA
1 AA
131016969 ACATATATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
13 10 0.29
14 21 0.60
15 4 0.11
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (14 bp):
AATATATAAATTAC
Found at i:131018559 original size:20 final size:20
Alignment explanation
Indices: 131018536--131018574 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
131018526 AAATTTTGGC
131018536 AAAAAATAAAAAATAAAAAA
1 AAAAAATAAAAAATAAAAAA
* * *
131018556 AAAAACTTAGAAATAAAAA
1 AAAAAATAAAAAATAAAAA
131018575 TGTGTGCCAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.13
Consensus pattern (20 bp):
AAAAAATAAAAAATAAAAAA
Found at i:131020018 original size:24 final size:24
Alignment explanation
Indices: 131020004--131020053 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
131019994 AAGAGTAAAC
131020004 TTAAGATTGGCAAAAAAAAAAAAA
1 TTAAGATTGGCAAAAAAAAAAAAA
131020028 TTAAGATTGGCAAAAAAAAAAAAA
1 TTAAGATTGGCAAAAAAAAAAAAA
131020052 TT
1 TT
131020054 TTCTTTTGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.64, C:0.04, G:0.12, T:0.20
Consensus pattern (24 bp):
TTAAGATTGGCAAAAAAAAAAAAA
Found at i:131021545 original size:13 final size:13
Alignment explanation
Indices: 131021527--131021597 Score: 52
Period size: 13 Copynumber: 5.5 Consensus size: 13
131021517 CTTAAATTTT
131021527 TCAAAAACACTTC
1 TCAAAAACACTTC
** *
131021540 TCAAAAGTACTTT
1 TCAAAAACACTTC
* * *
131021553 TCAAAAATATTTT
1 TCAAAAACACTTC
* * *
131021566 TCTACAGCACTTC
1 TCAAAAACACTTC
131021579 TCAAAAACACTTC
1 TCAAAAACACTTC
*
131021592 TGAAAA
1 TCAAAA
131021598 GCATTCCCAG
Statistics
Matches: 43, Mismatches: 15, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
13 43 1.00
ACGTcount: A:0.42, C:0.23, G:0.04, T:0.31
Consensus pattern (13 bp):
TCAAAAACACTTC
Found at i:131021554 original size:26 final size:26
Alignment explanation
Indices: 131021524--131021600 Score: 82
Period size: 26 Copynumber: 3.0 Consensus size: 26
131021514 ACACTTAAAT
*
131021524 TTTTCAAAAACACTTCTCAAAAGTAC
1 TTTTCAAAAACACTTCTCAAAAGCAC
* * * * *
131021550 TTTTCAAAAATATTTTTCTACAGCAC
1 TTTTCAAAAACACTTCTCAAAAGCAC
* *
131021576 TTCTCAAAAACACTTCTGAAAAGCA
1 TTTTCAAAAACACTTCTCAAAAGCA
131021601 TTCCCAGCCC
Statistics
Matches: 38, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.40, C:0.22, G:0.05, T:0.32
Consensus pattern (26 bp):
TTTTCAAAAACACTTCTCAAAAGCAC
Found at i:131027809 original size:131 final size:129
Alignment explanation
Indices: 131027576--131027907 Score: 404
Period size: 131 Copynumber: 2.6 Consensus size: 129
131027566 TAATTGCTCA
* * * *
131027576 TTTAAAAATTCTTTAAAACGAAGGCAATGCTCGATGTTTGGCAATTCGA-AAATCATGCCCTATC
1 TTTAAAAATTC-TTAAAACGAAGGCAATGTTCGATGTTTGGAAATTCGAGGAATCATACCCTATC
* * * * * *
131027640 GTGTTGGGTTGCGATTTCCCGTTTGTTCAAAACAATCGAATATTCCTTTGGAATTTCACTCATGT
65 GTGCTGGGTTGCAATTTCCCGTTTATTCAAAACAATCGAATATCCCTTTAGAATTTCACTCACGT
* *
131027705 CTTTAAAAATTCTTCAAAACGAAGGTAATGTTCGATGTTTGGAAATTCGAGGAAT-AGTATCCTA
1 -TTTAAAAATTCTT-AAAACGAAGGCAATGTTCGATGTTTGGAAATTCGAGGAATCA-TACCCTA
*
131027769 TCGTGCTGGGTTGCAATTTCCCGTTTATTCAAAATAATCGAATATCCCTTTAGAATTTCACTCAC
63 TCGTGCTGGGTTGCAATTTCCCGTTTATTCAAAACAATCGAATATCCCTTTAGAATTTCACTCAC
131027834 GT
128 GT
** * * * * *
131027836 TTTCTAAATTC-TAAAAC-AAGGCAATGTTCAATGTCTAGAAATTCGAGGAATCGTGCCCTA-CT
1 TTTAAAAATTCTTAAAACGAAGGCAATGTTCGATGTTTGGAAATTCGAGGAATCATACCCTATC-
131027898 GTGCTGGGTT
65 GTGCTGGGTT
131027908 TCGGTTTTTT
Statistics
Matches: 175, Mismatches: 22, Indels: 13
0.83 0.10 0.06
Matches are distributed among these distances:
126 1 0.01
127 45 0.26
128 5 0.03
129 3 0.02
130 53 0.30
131 68 0.39
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (129 bp):
TTTAAAAATTCTTAAAACGAAGGCAATGTTCGATGTTTGGAAATTCGAGGAATCATACCCTATCG
TGCTGGGTTGCAATTTCCCGTTTATTCAAAACAATCGAATATCCCTTTAGAATTTCACTCACGT
Found at i:131028902 original size:21 final size:21
Alignment explanation
Indices: 131028878--131028917 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
131028868 TAAAACAACG
*
131028878 TAGTTTTGCCTTTTAACTTGA
1 TAGTTTTGACTTTTAACTTGA
*
131028899 TAGTTTTGACTTTTTACTT
1 TAGTTTTGACTTTTAACTT
131028918 TAAATCAGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.12, G:0.12, T:0.57
Consensus pattern (21 bp):
TAGTTTTGACTTTTAACTTGA
Found at i:131029154 original size:3 final size:3
Alignment explanation
Indices: 131029146--131029185 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
131029136 TTTTTAAAGC
131029146 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
131029186 GATGTTTTAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:131029325 original size:17 final size:18
Alignment explanation
Indices: 131029291--131029328 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
131029281 TACTTTTAGA
*
131029291 TTTTAAAAAAATATAATT
1 TTTTAAAAAAACATAATT
*
131029309 TTTTAAAAATACA-AATT
1 TTTTAAAAAAACATAATT
131029326 TTT
1 TTT
131029329 GAATTTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTTAAAAAAACATAATT
Found at i:131029355 original size:18 final size:21
Alignment explanation
Indices: 131029323--131029386 Score: 73
Period size: 20 Copynumber: 3.2 Consensus size: 21
131029313 AAAAATACAA
*
131029323 ATTTTTGAATTTTTATAAA-T
1 ATTTTTGAATTTTTAAAAATT
131029343 ATTTTT-AA-TTTTAAAAATT
1 ATTTTTGAATTTTTAAAAATT
**
131029362 A-TTTTGAAGATTTAAAAATT
1 ATTTTTGAATTTTTAAAAATT
131029382 ATTTT
1 ATTTT
131029387 ATTTTTTTGT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
18 12 0.32
19 6 0.16
20 17 0.45
21 3 0.08
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (21 bp):
ATTTTTGAATTTTTAAAAATT
Found at i:131030242 original size:36 final size:37
Alignment explanation
Indices: 131030188--131030258 Score: 126
Period size: 36 Copynumber: 1.9 Consensus size: 37
131030178 ATGAACTTTA
*
131030188 ATATTTTTGCTTAAAACCATTCTTTGAATTTATATTT
1 ATATTTTTGCCTAAAACCATTCTTTGAATTTATATTT
131030225 ATATTTTT-CCTAAAACCATTCTTTGAATTTATAT
1 ATATTTTTGCCTAAAACCATTCTTTGAATTTATAT
131030259 ATTTCTAAGA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
36 25 0.76
37 8 0.24
ACGTcount: A:0.31, C:0.13, G:0.04, T:0.52
Consensus pattern (37 bp):
ATATTTTTGCCTAAAACCATTCTTTGAATTTATATTT
Found at i:131033441 original size:90 final size:90
Alignment explanation
Indices: 131033319--131033483 Score: 231
Period size: 90 Copynumber: 1.8 Consensus size: 90
131033309 AGGCTTCTGA
* ** *
131033319 TTGAGCAGATGGGAGATTGAGATGATAAAACAAGTCTCTAGATGAGTTGATGGAAGCCTGATGAT
1 TTGAGCAGATGGAAGATTGAGACAATAAAACAAGTCTCTAGATGAGTTGATGGAAACCTGATGAT
131033384 AGAAAAAGGCACTGAACGCTTTTGG
66 AGAAAAAGGCACTGAACGCTTTTGG
* * * * *
131033409 TTGAGTAGATGGAAGATTGAGACAATACAACAAGTTTCTGGATGAGTTGATGGAAACTTGATGAT
1 TTGAGCAGATGGAAGATTGAGACAATAAAACAAGTCTCTAGATGAGTTGATGGAAACCTGATGAT
* *
131033474 GGAACAAGGC
66 AGAAAAAGGC
131033484 TTGCGGTTTA
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
90 64 1.00
ACGTcount: A:0.35, C:0.10, G:0.30, T:0.25
Consensus pattern (90 bp):
TTGAGCAGATGGAAGATTGAGACAATAAAACAAGTCTCTAGATGAGTTGATGGAAACCTGATGAT
AGAAAAAGGCACTGAACGCTTTTGG
Found at i:131033526 original size:19 final size:19
Alignment explanation
Indices: 131033502--131033539 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
131033492 TAGTAAAGAG
131033502 TTAATTGAAATAATAATGA
1 TTAATTGAAATAATAATGA
131033521 TTAATTGAAATAATAATGA
1 TTAATTGAAATAATAATGA
131033540 CAAAGTTGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.11, T:0.37
Consensus pattern (19 bp):
TTAATTGAAATAATAATGA
Found at i:131034573 original size:21 final size:21
Alignment explanation
Indices: 131034532--131034574 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
131034522 GGTTAAGTTG
* *
131034532 TAATTAAAAAATAAGTTGTGT
1 TAATTAAAAAATAAATCGTGT
131034553 TAATTAAAAAATAAATCGTGT
1 TAATTAAAAAATAAATCGTGT
131034574 T
1 T
131034575 TTATGTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.49, C:0.02, G:0.12, T:0.37
Consensus pattern (21 bp):
TAATTAAAAAATAAATCGTGT
Found at i:131040493 original size:25 final size:25
Alignment explanation
Indices: 131040462--131040537 Score: 84
Period size: 25 Copynumber: 3.0 Consensus size: 25
131040452 TAAATGAAAT
*
131040462 AAAGAAAAAGAAA-GAGAGAAAGTAA
1 AAAGAAAAAGAAAGGAAAGAAAG-AA
* *
131040487 AACGAAACAGAAAGGAAAGAAAGAA
1 AAAGAAAAAGAAAGGAAAGAAAGAA
*
131040512 AAAGAAAAAGAGAACG-AAGAAAGAA
1 AAAGAAAAAGA-AAGGAAAGAAAGAA
131040537 A
1 A
131040538 CAAATGCGAA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
25 32 0.74
26 11 0.26
ACGTcount: A:0.71, C:0.04, G:0.24, T:0.01
Consensus pattern (25 bp):
AAAGAAAAAGAAAGGAAAGAAAGAA
Found at i:131041500 original size:41 final size:40
Alignment explanation
Indices: 131041411--131041544 Score: 157
Period size: 41 Copynumber: 3.4 Consensus size: 40
131041401 ACTTCGAGTT
* * ** *
131041411 GATGAGGCACTGGGTGCCAA-TT--TACTTCGGTTTAACC
1 GATGAGACACTGGGTGTCAATTTACTACTTCGAATTATCC
* * *
131041448 GATGATACACTGGGTGTCAATTTATTACTTCGAATTTATTC
1 GATGAGACACTGGGTGTCAATTTACTACTTCGAA-TTATCC
131041489 GATGAGACACTGGGTGTCAATTTACTACTTCGAATTATCC
1 GATGAGACACTGGGTGTCAATTTACTACTTCGAATTATCC
*
131041529 GATGAGGCACTGGGTG
1 GATGAGACACTGGGTG
131041545 CCAAACTGGT
Statistics
Matches: 82, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
37 17 0.21
38 2 0.02
40 27 0.33
41 36 0.44
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.33
Consensus pattern (40 bp):
GATGAGACACTGGGTGTCAATTTACTACTTCGAATTATCC
Found at i:131041772 original size:16 final size:16
Alignment explanation
Indices: 131041721--131041773 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
131041711 GTTATATACT
*
131041721 CATGAATTGAGTATAG
1 CATGAATTGAGTATTG
* * *
131041737 TATGAAATAATGTATT-
1 CATGAATTGA-GTATTG
131041753 CATGAATTGAGTATTG
1 CATGAATTGAGTATTG
131041769 CATGA
1 CATGA
131041774 CTAATGCCAT
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
15 5 0.18
16 19 0.68
17 4 0.14
ACGTcount: A:0.38, C:0.06, G:0.21, T:0.36
Consensus pattern (16 bp):
CATGAATTGAGTATTG
Found at i:131046489 original size:25 final size:25
Alignment explanation
Indices: 131046461--131046512 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
131046451 TTAAATTTTA
131046461 ATAAATTAATTAAATACTGGCTAGC
1 ATAAATTAATTAAATACTGGCTAGC
*
131046486 ATAAATTAATTAAATACTGGCTGGC
1 ATAAATTAATTAAATACTGGCTAGC
131046511 AT
1 AT
131046513 GTCATCCACG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.33
Consensus pattern (25 bp):
ATAAATTAATTAAATACTGGCTAGC
Found at i:131049460 original size:14 final size:14
Alignment explanation
Indices: 131049418--131049460 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
131049408 TTTGATAATA
131049418 TGATAATATAAATTT
1 TGATAATATAAA-TT
* *
131049433 TGACAAT-TAGATT
1 TGATAATATAAATT
131049446 TGATAATATAAATT
1 TGATAATATAAATT
131049460 T
1 T
131049461 TTGTCCTTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
13 8 0.35
14 9 0.39
15 6 0.26
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.44
Consensus pattern (14 bp):
TGATAATATAAATT
Found at i:131057597 original size:16 final size:15
Alignment explanation
Indices: 131057572--131057619 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 15
131057562 CTATTTTAAG
131057572 TTTATTTTAATTTTA
1 TTTATTTTAATTTTA
131057587 TTTATTTTTAATTATTA
1 TTTA-TTTTAATT-TTA
131057604 -TTATTTTAGATTTTA
1 TTTATTTTA-ATTTTA
131057619 T
1 T
131057620 ATTAATTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 12 0.41
16 14 0.48
17 3 0.10
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (15 bp):
TTTATTTTAATTTTA
Found at i:131063400 original size:2 final size:2
Alignment explanation
Indices: 131063393--131063420 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
131063383 TTATTGTTAT
131063393 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
131063421 AAGTAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:131064630 original size:2 final size:2
Alignment explanation
Indices: 131064623--131064647 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
131064613 ATTTATTATT
131064623 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
131064648 GTAGTAGGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:131064736 original size:21 final size:21
Alignment explanation
Indices: 131064677--131064737 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
131064667 GATTATATGA
* * *
131064677 ATTGGATTGAATATTGATTAT
1 ATTGAATTGATTATTGAATAT
131064698 ATTGAATTGATT-TATGAATAT
1 ATTGAATTGATTAT-TGAATAT
131064719 ATGTGAATTG-TTATTGAAT
1 AT-TGAATTGATTATTGAAT
131064738 TGAAATTGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 1 0.03
21 25 0.74
22 8 0.24
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.48
Consensus pattern (21 bp):
ATTGAATTGATTATTGAATAT
Found at i:131065586 original size:45 final size:45
Alignment explanation
Indices: 131065531--131065770 Score: 345
Period size: 45 Copynumber: 5.3 Consensus size: 45
131065521 CTGTTACCGC
*
131065531 TACTACTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
1 TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
* *
131065576 TACTGCTACTGTTACTGATTCGGTACTTTGTGTGTCGAATATTGT
1 TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
* * *
131065621 TACTGCTACTGTTACCGATTCGACACTGTGTATGTCGAATATTGT
1 TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
*
131065666 TACTGCTACTGTTACCGATTCGGCACTTTATGTGTCGAATATTGT
1 TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
* * ** * * *
131065711 TACTGTTACCGTTACCGATTCAACACTTCGTGTGTTGAATACTGT
1 TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
*
131065756 TACTGTTACTGTTAC
1 TACTGCTACTGTTAC
131065771 TGTTCCGGAT
Statistics
Matches: 174, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 174 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (45 bp):
TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
Found at i:131065761 original size:6 final size:6
Alignment explanation
Indices: 131065750--131065774 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
131065740 GTGTGTTGAA
131065750 TACTGT TACTGT TACTGT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT T
131065775 CCGGATTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.52
Consensus pattern (6 bp):
TACTGT
Found at i:131065965 original size:18 final size:18
Alignment explanation
Indices: 131065938--131066220 Score: 162
Period size: 18 Copynumber: 15.3 Consensus size: 18
131065928 AAAGGTATAA
* *
131065938 AATAACTGATTATTACTG
1 AATAATTGATTGTTACTG
*
131065956 AATAATTGATTGTTACCG
1 AATAATTGATTGTTACTG
* *
131065974 GATAATTGACTGTTACT-
1 AATAATTGATTGTTACTG
*
131065991 AGAT-ATTAGACTGTTACTG
1 A-ATAATT-GATTGTTACTG
* * *
131066010 AATAACTGAATATTACTG
1 AATAATTGATTGTTACTG
** *
131066028 AATAATTGATCATTGCTG
1 AATAATTGATTGTTACTG
* *
131066046 AATAACTGATTGTCACTG
1 AATAATTGATTGTTACTG
*
131066064 AATGAA-TGATTGCTACTG
1 AAT-AATTGATTGTTACTG
* *
131066082 AATAACTTAATAGTTACTG
1 AATAA-TTGATTGTTACTG
131066101 AAT-ATCTGATT-TTACTG
1 AATAAT-TGATTGTTACTG
*
131066118 AATAATTGACTGTTACTGG
1 AATAATTGATTGTTACT-G
* * *
131066137 ATAACCGATCAATTGATCGATATTG
1 ---A---AT-AATTGATTGTTACTG
* * * *
131066162 AATAACTGGTTATTATTG
1 AATAATTGATTGTTACTG
*
131066180 AATAATTGATTGTTACCG
1 AATAATTGATTGTTACTG
* *
131066198 AATAACTGACTGTTACTG
1 AATAATTGATTGTTACTG
131066216 AATAA
1 AATAA
131066221 ATAATTATTC
Statistics
Matches: 203, Mismatches: 44, Indels: 36
0.72 0.16 0.13
Matches are distributed among these distances:
17 19 0.09
18 149 0.73
19 20 0.10
22 2 0.01
25 3 0.01
26 10 0.05
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (18 bp):
AATAATTGATTGTTACTG
Found at i:131066218 original size:36 final size:36
Alignment explanation
Indices: 131065938--131066220 Score: 189
Period size: 36 Copynumber: 7.6 Consensus size: 36
131065928 AAAGGTATAA
* * *
131065938 AATAACTGATTATTACTGAATAATTGATTGTTACCG
1 AATAACTGACTGTTACTGAATAATTGATTGTTACTG
* * *
131065974 GATAATTGACTGTTACT-AGAT-ATTAGACTGTTACTG
1 AATAACTGACTGTTACTGA-ATAATT-GATTGTTACTG
* * ** *
131066010 AATAACTGAATATTACTGAATAATTGATCATTGCTG
1 AATAACTGACTGTTACTGAATAATTGATTGTTACTG
* * *
131066046 AATAACTGATTGTCACTGAATGAA-TGATTGCTACTG
1 AATAACTGACTGTTACTGAAT-AATTGATTGTTACTG
* *
131066082 AATAACTTAATAGTTACTGAAT-ATCTGATT-TTACTG
1 AATAACTGACT-GTTACTGAATAAT-TGATTGTTACTG
* * * *
131066118 AATAATTGACTGTTACTGGATAACCGATCAATTGATCGATATTG
1 AATAACTGACTGTTACT-G---A---AT-AATTGATTGTTACTG
** * * *
131066162 AATAACTGGTTATTATTGAATAATTGATTGTTACCG
1 AATAACTGACTGTTACTGAATAATTGATTGTTACTG
131066198 AATAACTGACTGTTACTGAATAA
1 AATAACTGACTGTTACTGAATAA
131066221 ATAATTATTC
Statistics
Matches: 185, Mismatches: 44, Indels: 36
0.70 0.17 0.14
Matches are distributed among these distances:
35 11 0.06
36 125 0.68
37 22 0.12
39 1 0.01
40 1 0.01
42 2 0.01
43 5 0.03
44 18 0.10
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (36 bp):
AATAACTGACTGTTACTGAATAATTGATTGTTACTG
Found at i:131068129 original size:16 final size:16
Alignment explanation
Indices: 131068108--131068161 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
131068098 TTTGGTTCAG
131068108 TGTAATGGAATAGAAC
1 TGTAATGGAATAGAAC
**
131068124 TGTAATGGAATAGAGT
1 TGTAATGGAATAGAAC
*
131068140 TGTAATAGAATAGAAC
1 TGTAATGGAATAGAAC
131068156 TGTAAT
1 TGTAAT
131068162 AGCAATTCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.43, C:0.04, G:0.24, T:0.30
Consensus pattern (16 bp):
TGTAATGGAATAGAAC
Found at i:131068467 original size:22 final size:21
Alignment explanation
Indices: 131068430--131068475 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 21
131068420 AATTATTAAA
131068430 ATATAAATTAATAAAAATAAT
1 ATATAAATTAATAAAAATAAT
131068451 ATATAATATTACA-AAAAATAAT
1 ATATAA-ATTA-ATAAAAATAAT
131068473 ATA
1 ATA
131068476 CAACCTACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 6 0.26
22 16 0.70
23 1 0.04
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
ATATAAATTAATAAAAATAAT
Found at i:131068608 original size:12 final size:12
Alignment explanation
Indices: 131068578--131068612 Score: 61
Period size: 13 Copynumber: 2.8 Consensus size: 12
131068568 TCTATGTTAC
131068578 TTAAAGAATAAT
1 TTAAAGAATAAT
131068590 TTAAAAGAATAAT
1 TT-AAAGAATAAT
131068603 TTAAAGAATA
1 TTAAAGAATA
131068613 TATTGTCTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.31
Consensus pattern (12 bp):
TTAAAGAATAAT
Found at i:131069384 original size:5 final size:5
Alignment explanation
Indices: 131069377--131069408 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
131069367 ATACAAATCA
*
131069377 AAAAA AAAAG AAAAG AAAAG AAAAG AAAAG AA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AA
131069409 CATATATAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:131072672 original size:21 final size:22
Alignment explanation
Indices: 131072648--131072691 Score: 54
Period size: 24 Copynumber: 2.0 Consensus size: 22
131072638 TCCGTACCCA
131072648 ATAG-CCAAGTATCGATACCTT
1 ATAGACCAAGTATCGATACCTT
*
131072669 ATAGCAACCAAGTCTCGATACCT
1 ATAG--ACCAAGTATCGATACCT
131072692 CTCTTAGAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 4 0.21
24 15 0.79
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (22 bp):
ATAGACCAAGTATCGATACCTT
Found at i:131075190 original size:2 final size:2
Alignment explanation
Indices: 131075183--131075220 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
131075173 TGTTGTATTC
131075183 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
131075221 CCAAAATTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:131079207 original size:44 final size:46
Alignment explanation
Indices: 131079086--131079208 Score: 119
Period size: 48 Copynumber: 2.7 Consensus size: 46
131079076 CATGATATAC
* * * * *
131079086 ATAACATATATAA-AAATAAATAAATATTATATAATAAAATGTAAT
1 ATAATATATATAATTAATAAATATATAATATAAAATAAAATGTAAT
* * *
131079131 ATAAATATATAAGAATT-ATAATAGATATAATATAAAATAACATGTAA-
1 AT-AATATAT-ATAATTAATAA-ATATATAATATAAAATAAAATGTAAT
131079178 AT-ATATATATAATTAATAAATATATAATATA
1 ATAATATATATAATTAATAAATATATAATATA
131079209 TGTGAAAAAT
Statistics
Matches: 63, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
44 16 0.25
45 12 0.19
46 6 0.10
47 9 0.14
48 20 0.32
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (46 bp):
ATAATATATATAATTAATAAATATATAATATAAAATAAAATGTAAT
Found at i:131079222 original size:18 final size:18
Alignment explanation
Indices: 131079134--131079237 Score: 63
Period size: 18 Copynumber: 5.8 Consensus size: 18
131079124 ATGTAATATA
*
131079134 AATATATAAGAAT-T-AT
1 AATATATAAAAATATAAT
* * *
131079150 AATAGATATAATATAAAAT
1 AATATATA-AAAATATAAT
* * *
131079169 AACATGTAAATATATATAT
1 AATATATAAAAATATA-AT
*
131079188 AAT-TAATAAATATATAAT
1 AATAT-ATAAAAATATAAT
*
131079206 -ATATGTGAAAAATATAAT
1 AATATAT-AAAAATATAAT
131079224 AATATATAAAAATA
1 AATATATAAAAATA
131079238 GTGATAATTT
Statistics
Matches: 67, Mismatches: 13, Indels: 14
0.71 0.14 0.15
Matches are distributed among these distances:
16 7 0.10
17 6 0.09
18 28 0.42
19 26 0.39
ACGTcount: A:0.60, C:0.01, G:0.05, T:0.35
Consensus pattern (18 bp):
AATATATAAAAATATAAT
Found at i:131081881 original size:21 final size:21
Alignment explanation
Indices: 131081847--131081886 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
131081837 TTAGAAAAAT
* *
131081847 TTTAAACTTCTTTATATATTC
1 TTTAAAATTCTTTAAATATTC
*
131081868 TTTAAAATTTTTTAAATAT
1 TTTAAAATTCTTTAAATAT
131081887 ATATATATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTAAAATTCTTTAAATATTC
Found at i:131081891 original size:29 final size:30
Alignment explanation
Indices: 131081859--131081916 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
131081849 TAAACTTCTT
131081859 TATATATTCTTTAAAATTTTT-TAAATATA
1 TATATATTCTTTAAAATTTTTATAAATATA
* *
131081888 TATATATTTTTTCAAATTTTTATAAATAT
1 TATATATTCTTTAAAATTTTTATAAATAT
131081917 TTTAAATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 19 0.73
30 7 0.27
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (30 bp):
TATATATTCTTTAAAATTTTTATAAATATA
Found at i:131081908 original size:10 final size:9
Alignment explanation
Indices: 131081872--131081955 Score: 53
Period size: 10 Copynumber: 8.9 Consensus size: 9
131081862 ATATTCTTTA
131081872 AAATTTTTT
1 AAATTTTTT
* *
131081881 AAATATATAT
1 AAAT-TTTTT
*
131081891 ATATTTTTT
1 AAATTTTTT
131081900 CAAATTTTTAT
1 -AAATTTTT-T
*
131081911 AAATATTTT
1 AAATTTTTT
**
131081920 AAATTTTAA
1 AAATTTTTT
131081929 AAATTATTTT
1 AAATT-TTTT
*
131081939 -ATTTTTTT
1 AAATTTTTT
131081947 ATAATTTTT
1 A-AATTTTT
131081956 GTTGAGAGTG
Statistics
Matches: 55, Mismatches: 14, Indels: 11
0.69 0.17 0.14
Matches are distributed among these distances:
8 4 0.07
9 22 0.40
10 28 0.51
11 1 0.02
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (9 bp):
AAATTTTTT
Found at i:131081911 original size:20 final size:19
Alignment explanation
Indices: 131081868--131081955 Score: 74
Period size: 19 Copynumber: 4.7 Consensus size: 19
131081858 TTATATATTC
*
131081868 TTTA-AAATTTTTTAAATA
1 TTTATAAATTTTTTAAATT
* *
131081886 TATATATATTTTTTCAAATT
1 TTTATAAATTTTTT-AAATT
*
131081906 TTTATAAATATTTTAAA-T
1 TTTATAAATTTTTTAAATT
* **
131081924 TTTAAAAATTATTTTATTTT
1 TTTATAAATT-TTTTAAATT
131081944 TTTAT-AATTTTT
1 TTTATAAATTTTT
131081956 GTTGAGAGTG
Statistics
Matches: 55, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
18 15 0.27
19 20 0.36
20 20 0.36
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTATAAATTTTTTAAATT
Found at i:131081925 original size:19 final size:19
Alignment explanation
Indices: 131081868--131081950 Score: 62
Period size: 20 Copynumber: 4.4 Consensus size: 19
131081858 TTATATATTC
* *
131081868 TTTA-AAATTTTTTAAATA
1 TTTATAAATATTTTAAATT
* * *
131081886 TATATATATTTTTTCAAATT
1 TTTATAAATATTTT-AAATT
131081906 TTTATAAATATTTTAAA-T
1 TTTATAAATATTTTAAATT
* **
131081924 TTTAAAAATTATTTTATTTT
1 TTTATAAA-TATTTTAAATT
131081944 TTTATAA
1 TTTATAA
131081951 TTTTTGTTGA
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
18 11 0.22
19 18 0.35
20 22 0.43
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTATAAATATTTTAAATT
Found at i:131081944 original size:18 final size:18
Alignment explanation
Indices: 131081902--131081944 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
131081892 TATTTTTTCA
*
131081902 AATTTTTATAAATATTTT
1 AATTTTTAAAAATATTTT
*
131081920 AAATTTTAAAAATTATTTT
1 AATTTTTAAAAA-TATTTT
131081939 -ATTTTT
1 AATTTTT
131081945 TTATAATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
AATTTTTAAAAATATTTT
Found at i:131089383 original size:25 final size:26
Alignment explanation
Indices: 131089351--131089403 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
131089341 AAACTCTTCT
*
131089351 AAAAG-AAACTC-AAGAGAAATTTTTA
1 AAAAGAAAACTCAAAGAG-AATTTATA
131089376 AAAAGAAAACTCAAAGAGAATTTATA
1 AAAAGAAAACTCAAAGAGAATTTATA
131089402 AA
1 AA
131089404 CTCAAAAGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 5 0.20
26 15 0.60
27 5 0.20
ACGTcount: A:0.60, C:0.08, G:0.11, T:0.21
Consensus pattern (26 bp):
AAAAGAAAACTCAAAGAGAATTTATA
Found at i:131090225 original size:31 final size:31
Alignment explanation
Indices: 131090180--131090254 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
131090170 ATTTCTTTAA
* *
131090180 ATGTATGTAATTGAATCAAAATGAAAATTTC
1 ATGTATATAATTGAATCAAAATCAAAATTTC
* * *
131090211 ATGTATATATTTGAATCACAATCAAAGTTTC
1 ATGTATATAATTGAATCAAAATCAAAATTTC
*
131090242 ATGTGTATAATTG
1 ATGTATATAATTG
131090255 CACCAAATTA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.39
Consensus pattern (31 bp):
ATGTATATAATTGAATCAAAATCAAAATTTC
Found at i:131093694 original size:17 final size:18
Alignment explanation
Indices: 131093650--131093709 Score: 72
Period size: 17 Copynumber: 3.4 Consensus size: 18
131093640 AATATGATAG
131093650 TAGTAAT-AATAACAATAA
1 TAGTAATAAATAA-AATAA
*
131093668 TAGTAA-AAATAAAATAT
1 TAGTAATAAATAAAATAA
131093685 TA-TAATAAATAAAATAA
1 TAGTAATAAATAAAATAA
*
131093702 TAATAATA
1 TAGTAATA
131093710 GCAATAAAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
16 3 0.08
17 18 0.49
18 16 0.43
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (18 bp):
TAGTAATAAATAAAATAA
Found at i:131093718 original size:20 final size:17
Alignment explanation
Indices: 131093653--131093709 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 17
131093643 ATGATAGTAG
*
131093653 TAAT-AATAACAATAATAG
1 TAATAAATAA-AAT-ATAA
*
131093671 TAA-AAATAAAATATTA
1 TAATAAATAAAATATAA
131093687 TAATAAATAAAATAATAA
1 TAATAAATAAAAT-ATAA
131093705 TAATA
1 TAATA
131093710 GCAATAAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
16 5 0.15
17 12 0.36
18 16 0.48
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (17 bp):
TAATAAATAAAATATAA
Found at i:131094310 original size:2 final size:2
Alignment explanation
Indices: 131094305--131094348 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
131094295 TATATAGAGA
*
131094305 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
131094347 AT
1 AT
131094349 GGTATTAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:131095250 original size:19 final size:20
Alignment explanation
Indices: 131095212--131095252 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
131095202 TTTGGGGTAA
*
131095212 TTTTTTCTTTTTCTTATTAT
1 TTTTTTATTTTTCTTATTAT
*
131095232 TTTTTTATTTTT-TTTTTAT
1 TTTTTTATTTTTCTTATTAT
131095251 TT
1 TT
131095253 ATGTATAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.10, C:0.05, G:0.00, T:0.85
Consensus pattern (20 bp):
TTTTTTATTTTTCTTATTAT
Found at i:131095252 original size:11 final size:11
Alignment explanation
Indices: 131095219--131095252 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
131095209 TAATTTTTTC
*
131095219 TTTTTCTTATT
1 TTTTTTTTATT
*
131095230 ATTTTTTTATT
1 TTTTTTTTATT
131095241 TTTTTTTTATT
1 TTTTTTTTATT
131095252 T
1 T
131095253 ATGTATAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTTTTATT
Found at i:131096087 original size:42 final size:42
Alignment explanation
Indices: 131095983--131096079 Score: 149
Period size: 42 Copynumber: 2.3 Consensus size: 42
131095973 ATCTACTCCA
*
131095983 CTACTGCTCAGGGAGATAAGATCTGCAATTTAACCTGTTACC
1 CTACTGCTTAGGGAGATAAGATCTGCAATTTAACCTGTTACC
*** *
131096025 CTACTGCTTAGGGAGATAAGATCTGCAATTTGGTCTGTTTCC
1 CTACTGCTTAGGGAGATAAGATCTGCAATTTAACCTGTTACC
131096067 CTACTGCTTAGGG
1 CTACTGCTTAGGG
131096080 GTTTAAGACC
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.32
Consensus pattern (42 bp):
CTACTGCTTAGGGAGATAAGATCTGCAATTTAACCTGTTACC
Found at i:131096581 original size:44 final size:44
Alignment explanation
Indices: 131096459--131096581 Score: 123
Period size: 42 Copynumber: 2.9 Consensus size: 44
131096449 TTTCAGCCTA
* * *
131096459 TTACCCTACTACTTAGGGGGTTAAGGTCTGTAAA--TTGGCTTG
1 TTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTGGATTG
* *
131096501 TTACCCTACTGCTTAGGGGGTTAAAGCTCAT-T--ATCTTTGATCTG
1 TTACCCTACTGCTTAGGGGGTT-AAGATC-TGTAAATCTTGGAT-TG
*
131096545 TTTCCCTACTGCTTAGGGGG-TAAGATCTGTAAATCTT
1 TTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTT
131096582 CAATCTGCTT
Statistics
Matches: 67, Mismatches: 6, Indels: 14
0.77 0.07 0.16
Matches are distributed among these distances:
41 2 0.03
42 27 0.40
43 11 0.16
44 27 0.40
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (44 bp):
TTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTGGATTG
Found at i:131096618 original size:220 final size:219
Alignment explanation
Indices: 131096145--131096877 Score: 1211
Period size: 219 Copynumber: 3.3 Consensus size: 219
131096135 TGATGGTTTG
* * * * * *
131096145 AATCTGCTTCACTGCAAC-TCTAGG-AGGCAAGATTCGATGTATTTGATCTGCTCCTCTGCAACT
1 AATCTGCTTCACTGCAACTTC-AGGAAGACAAGATTCGCTGGATTCGATCTGTTCCACTGCAACT
*** * * *
131096208 TCAGGGAGGTGAGATCTGTGATTTTCAGCCTATTACCCTACTACTTAGGGGGTTAAAGTCTGTAA
65 TCAGGGAGACAAAATCTGTAATTTTCAGCCTATTACCCTACTACTTAGGGGGTTAAGGTCTGTAA
131096273 ATTGGCTTGTTACCCTACTGCTTAGGGGTTAAAGCTCATTATCTTTGATCTGTTTCCCTACTGCT
130 ATTGGCTTGTTACCCTACTGCTTAGGGGTTAAAGCTCATTATCTTTGATCTGTTTCCCTACTGCT
131096338 TAGGGGGTAAGATCTGTAAATCTTC
195 TAGGGGGTAAGATCTGTAAATCTTC
* * *
131096363 AATCTGCTTCACTGTAACTTCAGGAAGACAAGATTCGCTGGATTTGATCTGTTCCATTGCAACTT
1 AATCTGCTTCACTGCAACTTCAGGAAGACAAGATTCGCTGGATTCGATCTGTTCCACTGCAACTT
131096428 CAGGGAGACAAAATCTGTAATTTTCAGCCTATTACCCTACTACTTAGGGGGTTAAGGTCTGTAAA
66 CAGGGAGACAAAATCTGTAATTTTCAGCCTATTACCCTACTACTTAGGGGGTTAAGGTCTGTAAA
131096493 TTGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCTCATTATCTTTGATCTGTTTCCCTACTGCT
131 TTGGCTTGTTACCCTACTGCTTA-GGGGTTAAAGCTCATTATCTTTGATCTGTTTCCCTACTGCT
131096558 TAGGGGGTAAGATCTGTAAATCTTC
195 TAGGGGGTAAGATCTGTAAATCTTC
*
131096583 AATCTGCTTCACTGCAACTTCAGGAAGACAAGATTCGCTGGATTCAATCTGTTCCACTGCAACTT
1 AATCTGCTTCACTGCAACTTCAGGAAGACAAGATTCGCTGGATTCGATCTGTTCCACTGCAACTT
*
131096648 CAGGGAGAC-AAATCTGTAATTTTCAGCCTATTACCCTACTACTTAAGGGGTTAAGGTCTGTAAA
66 CAGGGAGACAAAATCTGTAATTTTCAGCCTATTACCCTACTACTTAGGGGGTTAAGGTCTGTAAA
* * *
131096712 TTTGGCTTGCTACCCTACTGCTTAGGGGTCAAAGCTCATTATCTTCGATCTGTTTCCCTACTGCT
131 -TTGGCTTGTTACCCTACTGCTTAGGGGTTAAAGCTCATTATCTTTGATCTGTTTCCCTACTGCT
*
131096777 TAGAGGGTAAGATCTGTAAATCTTC
195 TAGGGGGTAAGATCTGTAAATCTTC
* *
131096802 AATCTGCTTCACTGTAACTACAGGAAGACAAGATTCGCTGGATTCGATCTGTTCCACTGCAACTT
1 AATCTGCTTCACTGCAACTTCAGGAAGACAAGATTCGCTGGATTCGATCTGTTCCACTGCAACTT
131096867 CAGGGAGACAA
66 CAGGGAGACAA
131096878 GATCCATGAA
Statistics
Matches: 485, Mismatches: 25, Indels: 8
0.94 0.05 0.02
Matches are distributed among these distances:
218 20 0.04
219 306 0.63
220 159 0.33
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (219 bp):
AATCTGCTTCACTGCAACTTCAGGAAGACAAGATTCGCTGGATTCGATCTGTTCCACTGCAACTT
CAGGGAGACAAAATCTGTAATTTTCAGCCTATTACCCTACTACTTAGGGGGTTAAGGTCTGTAAA
TTGGCTTGTTACCCTACTGCTTAGGGGTTAAAGCTCATTATCTTTGATCTGTTTCCCTACTGCTT
AGGGGGTAAGATCTGTAAATCTTC
Found at i:131108886 original size:17 final size:18
Alignment explanation
Indices: 131108813--131108901 Score: 78
Period size: 17 Copynumber: 5.0 Consensus size: 18
131108803 TAAGGAAGAT
131108813 AATAAAATAATGAGCTAAT-
1 AATAAAATAAT-AG-TAATA
** *
131108832 AATATGATAGTAGTAAT-
1 AATAAAATAATAGTAATA
131108849 AATAACAATAATAGTAA-A
1 AATAA-AATAATAGTAATA
*
131108867 AATAAAATATTA-TAATA
1 AATAAAATAATAGTAATA
*
131108884 AATAAAATAATAATAATA
1 AATAAAATAATAGTAATA
131108902 GCAATAAAAG
Statistics
Matches: 58, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
16 3 0.05
17 26 0.45
18 21 0.36
19 8 0.14
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (18 bp):
AATAAAATAATAGTAATA
Found at i:131108910 original size:20 final size:17
Alignment explanation
Indices: 131108845--131108901 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 17
131108835 ATGATAGTAG
*
131108845 TAAT-AATAACAATAATAG
1 TAATAAATAA-AAT-ATAA
*
131108863 TAA-AAATAAAATATTA
1 TAATAAATAAAATATAA
131108879 TAATAAATAAAATAATAA
1 TAATAAATAAAAT-ATAA
131108897 TAATA
1 TAATA
131108902 GCAATAAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
16 5 0.15
17 12 0.36
18 16 0.48
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (17 bp):
TAATAAATAAAATATAA
Found at i:131109241 original size:3 final size:3
Alignment explanation
Indices: 131109233--131109259 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
131109223 TATACTAGGG
131109233 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
131109260 CTATATAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:131109505 original size:2 final size:2
Alignment explanation
Indices: 131109500--131109533 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
131109490 ATATAAGAGA
*
131109500 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
131109534 GGTATTAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:131112700 original size:24 final size:24
Alignment explanation
Indices: 131112673--131112724 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
131112663 TTAGCAAGTC
*
131112673 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
131112697 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
131112721 AAAT
1 AAAT
131112725 CCTTTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:131116481 original size:14 final size:13
Alignment explanation
Indices: 131116444--131116480 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
131116434 CAAGTTTTAT
131116444 GAACTAAAAAACA
1 GAACTAAAAAACA
131116457 GAACTAAAAAACA
1 GAACTAAAAAACA
*
131116470 GTACTAAAAAA
1 GAACTAAAAAA
131116481 ATTTATCCCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.68, C:0.14, G:0.08, T:0.11
Consensus pattern (13 bp):
GAACTAAAAAACA
Found at i:131132577 original size:84 final size:85
Alignment explanation
Indices: 131132431--131132594 Score: 242
Period size: 84 Copynumber: 1.9 Consensus size: 85
131132421 AATTTTCACA
* * *
131132431 GAGACTTTAATTATGATTAAAGACAATTTTAACAAGATAAACTCTTAAATAATTTTACATTCAAT
1 GAGACTTTAATTATAATTAAAGACAATTTTAACAAGAGAAACTCCTAAATAATTTTACATTCAAT
* * *
131132496 GCACAAGAGAACAAACATGT
66 GAAAAAGACAACAAACATGT
*
131132516 GAGACTTT-ATTCATAATTAAAGACAA-TTTAACAAGAGAAACTCCTAAATAATTTTATATTCAA
1 GAGACTTTAATT-ATAATTAAAGACAATTTTAACAAGAGAAACTCCTAAATAATTTTACATTCAA
131132579 TGAAAAAGACAACAAA
65 TGAAAAAGACAACAAA
131132595 TAAAAACTCA
Statistics
Matches: 71, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
84 50 0.70
85 21 0.30
ACGTcount: A:0.48, C:0.13, G:0.10, T:0.29
Consensus pattern (85 bp):
GAGACTTTAATTATAATTAAAGACAATTTTAACAAGAGAAACTCCTAAATAATTTTACATTCAAT
GAAAAAGACAACAAACATGT
Found at i:131138140 original size:24 final size:24
Alignment explanation
Indices: 131138072--131138158 Score: 70
Period size: 24 Copynumber: 3.6 Consensus size: 24
131138062 CAAATAAAAT
* *
131138072 TATACATAAAAATATATAT-AGAT
1 TATACATAAAAATATACATAAGAG
* * *
131138095 TCATTAGAAAAAAACATACATAATGA-
1 T-A-TACATAAAAATATACATAA-GAG
*
131138121 TATACATAAAAATATCCATAAGAG
1 TATACATAAAAATATACATAAGAG
*
131138145 TGTACATAAAAATA
1 TATACATAAAAATA
131138159 CATATGACAA
Statistics
Matches: 50, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
23 3 0.06
24 29 0.58
25 14 0.28
26 2 0.04
27 2 0.04
ACGTcount: A:0.56, C:0.09, G:0.07, T:0.28
Consensus pattern (24 bp):
TATACATAAAAATATACATAAGAG
Found at i:131139636 original size:21 final size:21
Alignment explanation
Indices: 131139612--131139654 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
131139602 AATTTTTTAA
*
131139612 AATTTCTTACTTAACTTGGTT
1 AATTTCTTACTTAACCTGGTT
131139633 AATTTCTTACTTAACCTGGTT
1 AATTTCTTACTTAACCTGGTT
131139654 A
1 A
131139655 CTATCTCTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.26, C:0.16, G:0.09, T:0.49
Consensus pattern (21 bp):
AATTTCTTACTTAACCTGGTT
Found at i:131139669 original size:23 final size:21
Alignment explanation
Indices: 131139620--131139669 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
131139610 AAAATTTCTT
* * *
131139620 ACTTAACTTGGTTAATTTCTT
1 ACTTAACCTGGTTAATCTCTA
131139641 ACTTAACCTGGTTACTATCTCTA
1 ACTTAACCTGGTTA--ATCTCTA
131139664 ACTTAA
1 ACTTAA
131139670 AAAAAACTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 13 0.54
23 11 0.46
ACGTcount: A:0.28, C:0.20, G:0.08, T:0.44
Consensus pattern (21 bp):
ACTTAACCTGGTTAATCTCTA
Found at i:131145551 original size:45 final size:45
Alignment explanation
Indices: 131145470--131145559 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 45
131145460 CGCTTAAGAG
*
131145470 AAAGTGGTAGGTACCTTTCCACATTCTTTTTACTTTTCAGTAGAT
1 AAAGTGGTAGATACCTTTCCACATTCTTTTTACTTTTCAGTAGAT
* * *
131145515 AAAGTGGTAGATACCTTTTCATATT-TCTTTTGCTTTTCAGTAGAT
1 AAAGTGGTAGATACCTTTCCACATTCT-TTTTACTTTTCAGTAGAT
131145560 TGTTAATAGT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 1 0.03
45 39 0.98
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (45 bp):
AAAGTGGTAGATACCTTTCCACATTCTTTTTACTTTTCAGTAGAT
Found at i:131146916 original size:15 final size:15
Alignment explanation
Indices: 131146896--131146925 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
131146886 AAACATGGTA
131146896 AATTTGACTATTTAG
1 AATTTGACTATTTAG
131146911 AATTTGACTATTTAG
1 AATTTGACTATTTAG
131146926 GATTGAATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.47
Consensus pattern (15 bp):
AATTTGACTATTTAG
Found at i:131154721 original size:6 final size:6
Alignment explanation
Indices: 131154710--131154736 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
131154700 CATCACTGCA
131154710 ACCGCC ACCGCC ACCGCC ACCGCC ACC
1 ACCGCC ACCGCC ACCGCC ACCGCC ACC
131154737 CTATGCTGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.67, G:0.15, T:0.00
Consensus pattern (6 bp):
ACCGCC
Found at i:131159089 original size:16 final size:18
Alignment explanation
Indices: 131159059--131159099 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
131159049 ATATATTTTT
*
131159059 AAAAATATAATACA-TAA
1 AAAAATATAAAACATTAA
131159076 AAAAAT-TAAAACATTAA
1 AAAAATATAAAACATTAA
131159093 AATAAAT
1 AA-AAAT
131159100 GTTTCCCAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 6 0.29
17 11 0.52
18 4 0.19
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (18 bp):
AAAAATATAAAACATTAA
Found at i:131159283 original size:11 final size:11
Alignment explanation
Indices: 131159245--131159298 Score: 56
Period size: 11 Copynumber: 4.9 Consensus size: 11
131159235 ATAATAACAA
131159245 TAAAATAATAG
1 TAAAATAATAG
*
131159256 TAACATAATAG
1 TAAAATAATAG
* *
131159267 TGAAATGATAG
1 TAAAATAATAG
*
131159278 TAAAATATTGAG
1 TAAAATAAT-AG
131159290 -AAAATAATA
1 TAAAATAATA
131159299 ACAAAATAAC
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
10 1 0.03
11 31 0.91
12 2 0.06
ACGTcount: A:0.57, C:0.02, G:0.13, T:0.28
Consensus pattern (11 bp):
TAAAATAATAG
Found at i:131166815 original size:137 final size:137
Alignment explanation
Indices: 131166581--131166855 Score: 523
Period size: 137 Copynumber: 2.0 Consensus size: 137
131166571 GCCCATTCAA
* *
131166581 GTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGTCTTAGCCCCTTATTC
1 GTAACAGTGGTACTAGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTC
131166646 AGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGCC
66 AGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGCC
131166711 CATTTGG
131 CATTTGG
*
131166718 GTAACAGTGGTACTAGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGTCCCTTATTC
1 GTAACAGTGGTACTAGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTC
131166783 AGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGCC
66 AGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGCC
131166848 CATTTGG
131 CATTTGG
131166855 G
1 G
131166856 GAGACTACTC
Statistics
Matches: 135, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
137 135 1.00
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (137 bp):
GTAACAGTGGTACTAGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTC
AGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGCC
CATTTGG
Found at i:131167437 original size:8 final size:8
Alignment explanation
Indices: 131167426--131167452 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
131167416 GTTTTCGGCA
131167426 TTTCGACT
1 TTTCGACT
131167434 TTTCGACT
1 TTTCGACT
131167442 TTTCGACT
1 TTTCGACT
131167450 TTT
1 TTT
131167453 GCCGATCCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.11, C:0.22, G:0.11, T:0.56
Consensus pattern (8 bp):
TTTCGACT
Found at i:131167438 original size:16 final size:16
Alignment explanation
Indices: 131167417--131167452 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
131167407 AAAATACCGG
*
131167417 TTTTCGGCATTTCGAC
1 TTTTCGACATTTCGAC
*
131167433 TTTTCGACTTTTCGAC
1 TTTTCGACATTTCGAC
131167449 TTTT
1 TTTT
131167453 GCCGATCCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.11, C:0.22, G:0.14, T:0.53
Consensus pattern (16 bp):
TTTTCGACATTTCGAC
Found at i:131168669 original size:26 final size:26
Alignment explanation
Indices: 131168633--131168742 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
131168623 CATGAAATTC
131168633 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
131168659 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
131168685 TTGTCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
131168711 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
131168737 TTATCA
1 TTATCA
131168743 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:131169769 original size:82 final size:83
Alignment explanation
Indices: 131169604--131169769 Score: 282
Period size: 83 Copynumber: 2.0 Consensus size: 83
131169594 GACCATCTGG
*
131169604 TGTCATTAGTCAAAAATAAAACTTTATTAAAATTTATTATTAACCGACCAACTAAATAAAAATTA
1 TGTCATTAGTCAAAAATAAAACTTTATTAAAATTTATTATCAACCGACCAACTAAATAAAAATTA
131169669 AAATTCAACACAAGTGTA
66 AAATTCAACACAAGTGTA
*
131169687 TGTCATTAGTCAAAATTAAAACTTTATTAAAATTTATTATCAATCC-ACCAACTAAAT-AAAATT
1 TGTCATTAGTCAAAAATAAAACTTTATTAAAATTTATTATCAA-CCGACCAACTAAATAAAAATT
*
131169750 AAAATTCAACACAATTGTA
65 AAAATTCAACACAAGTGTA
131169769 T
1 T
131169770 TTAGGGTAAA
Statistics
Matches: 79, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
82 25 0.32
83 52 0.66
84 2 0.03
ACGTcount: A:0.48, C:0.14, G:0.05, T:0.33
Consensus pattern (83 bp):
TGTCATTAGTCAAAAATAAAACTTTATTAAAATTTATTATCAACCGACCAACTAAATAAAAATTA
AAATTCAACACAAGTGTA
Found at i:131170788 original size:15 final size:16
Alignment explanation
Indices: 131170749--131170793 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
131170739 TAACTTTATG
131170749 ATATTAAAATTAATAA
1 ATATTAAAATTAATAA
*
131170765 ATATT-AAATTATTAA
1 ATATTAAAATTAATAA
131170780 AT-TTAAAATATAAT
1 ATATTAAAAT-TAAT
131170794 TTTTTTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 2 0.08
15 15 0.60
16 8 0.32
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATTAAAATTAATAA
Found at i:131172733 original size:15 final size:15
Alignment explanation
Indices: 131172696--131172737 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
131172686 TTAGGTCATT
131172696 TTAAAATTTATAAAAA
1 TTAAAA-TTATAAAAA
*
131172712 TTTAAATTAGTAAAAA
1 TTAAAATTA-TAAAAA
131172728 -TAAAATTATA
1 TTAAAATTATA
131172738 CTTTGACCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 2 0.09
15 10 0.43
16 11 0.48
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (15 bp):
TTAAAATTATAAAAA
Found at i:131172761 original size:83 final size:82
Alignment explanation
Indices: 131172667--131172820 Score: 195
Period size: 82 Copynumber: 1.8 Consensus size: 82
131172657 CTTGACAATT
* * * *
131172667 AAAATGAAAAAATTTCCATTTAGGTCATTTTAAAATTTATAAAAATTTAAATTAGTAAAA-A-TA
1 AAAATGAAAAAAATT-AATTTA-GTC-TTTTAAAAATTATAAAAATATAAA-TAGTAAAATAGTA
131172730 AAATTATACTTTGACCCATTA
62 AAATTATACTTTGACCCATTA
* *
131172751 AAAATGAAAAAAAATTAATTTAGTCTTTTAAAAATTATAAATATATAAATATTAAAATAGTAAAA
1 AAAATG-AAAAAAATTAATTTAGTCTTTTAAAAATTATAAAAATATAAATAGTAAAATAGTAAAA
131172816 TTATA
65 TTATA
131172821 TTTTTACTAT
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
81 7 0.11
82 22 0.36
83 13 0.21
84 11 0.18
85 8 0.13
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.36
Consensus pattern (82 bp):
AAAATGAAAAAAATTAATTTAGTCTTTTAAAAATTATAAAAATATAAATAGTAAAATAGTAAAAT
TATACTTTGACCCATTA
Found at i:131181626 original size:22 final size:23
Alignment explanation
Indices: 131181601--131181653 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 23
131181591 GTTCATCGGT
*
131181601 TTTTAAATTTTACCAT-TCTGAA
1 TTTTAAATGTTACCATATCTGAA
* *
131181623 TTTT-ACTGTTACCATATCTGCA
1 TTTTAAATGTTACCATATCTGAA
131181645 TTGTTAAAT
1 TT-TTAAAT
131181654 CTACCGAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
21 9 0.38
22 11 0.46
23 2 0.08
24 2 0.08
ACGTcount: A:0.28, C:0.15, G:0.08, T:0.49
Consensus pattern (23 bp):
TTTTAAATGTTACCATATCTGAA
Found at i:131186845 original size:19 final size:19
Alignment explanation
Indices: 131186806--131186845 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
131186796 TATTTTAAAC
* *
131186806 AAACTTATTTTTTTAGCTT
1 AAACTCATTTTTTAAGCTT
*
131186825 AAACTCATTTTTTAAGTTT
1 AAACTCATTTTTTAAGCTT
131186844 AA
1 AA
131186846 TATTTTTGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.33, C:0.10, G:0.05, T:0.53
Consensus pattern (19 bp):
AAACTCATTTTTTAAGCTT
Found at i:131191764 original size:25 final size:25
Alignment explanation
Indices: 131191723--131191770 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
131191713 TAGAGGATGT
131191723 TTTATTGTTCTATTTATTTTTTATA
1 TTTATTGTTCTATTTATTTTTTATA
*
131191748 TTTACTTGTTTTA-TTATTTTTTA
1 TTTA-TTGTTCTATTTATTTTTTA
131191771 CTTTGTATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.19, C:0.04, G:0.04, T:0.73
Consensus pattern (25 bp):
TTTATTGTTCTATTTATTTTTTATA
Found at i:131192846 original size:19 final size:19
Alignment explanation
Indices: 131192802--131192846 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 19
131192792 TATATATAAT
131192802 TTTTAATTATTTAATTTGA
1 TTTTAATTATTTAATTTGA
*
131192821 ---TAA-TATTTATTTTGA
1 TTTTAATTATTTAATTTGA
131192836 TTTTAATTATT
1 TTTTAATTATT
131192847 ACTTATCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 8
0.70 0.03 0.27
Matches are distributed among these distances:
15 11 0.52
16 3 0.14
18 3 0.14
19 4 0.19
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.64
Consensus pattern (19 bp):
TTTTAATTATTTAATTTGA
Found at i:131213882 original size:21 final size:20
Alignment explanation
Indices: 131213834--131213884 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
131213824 TAAAACAAAA
*
131213834 TAAAAGAAA-GAAAAAGAAT
1 TAAAAGAAACAAAAAAGAAT
*
131213853 TAAAAGAAACAAAAAAGAGT
1 TAAAAGAAACAAAAAAGAAT
131213873 TAAAACGAAACA
1 TAAAA-GAAACA
131213885 GAGAATAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 9 0.32
20 13 0.46
21 6 0.21
ACGTcount: A:0.71, C:0.06, G:0.14, T:0.10
Consensus pattern (20 bp):
TAAAAGAAACAAAAAAGAAT
Found at i:131214660 original size:27 final size:28
Alignment explanation
Indices: 131214610--131214664 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
131214600 TGAATGTATA
131214610 TGAATTGAATATATGTTGATTATTTGAAT
1 TGAATTGAATATATGTTGA-TATTTGAAT
131214639 TGAATTGAATAT-TGGTTG-TATTTGAA
1 TGAATTGAATATAT-GTTGATATTTGAA
131214665 AAGTGAAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 8 0.32
28 1 0.04
29 16 0.64
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (28 bp):
TGAATTGAATATATGTTGATATTTGAAT
Found at i:131219034 original size:41 final size:41
Alignment explanation
Indices: 131218989--131219106 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
131218979 TGAAAGATAA
131218989 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
131219030 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
131219060 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
131219101 ATGTAG
1 ATGTAG
131219107 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Done.