Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 68 of 203
Found at i:21661732 original size:18 final size:18
Alignment explanation
Indices: 21661691--21661755 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 18
21661681 TCTTTTTTGC
* *
21661691 TTTTGACTTTGATTTTTT
1 TTTTGATTTTGATTTTTA
** *
21661709 TCTTTTCTTTTTATTTTTA
1 T-TTTGATTTTGATTTTTA
* *
21661728 TTTTTATTTTGATTTTGA
1 TTTTGATTTTGATTTTTA
21661746 TTTTGATTTT
1 TTTTGATTTT
21661756 TTTTGTTTTT
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
18 24 0.65
19 13 0.35
ACGTcount: A:0.12, C:0.05, G:0.08, T:0.75
Consensus pattern (18 bp):
TTTTGATTTTGATTTTTA
Found at i:21666108 original size:21 final size:24
Alignment explanation
Indices: 21666084--21666138 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 24
21666074 AAAATATATA
21666084 TAAAATAATACAT-TAT-GAAA-T
1 TAAAATAATACATATATAGAAACT
21666105 T-AAATAATA-ATATATAGGAAACT
1 TAAAATAATACATATATA-GAAACT
21666128 TAAAATAATAC
1 TAAAATAATAC
21666139 TACATAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
19 2 0.07
20 11 0.39
21 1 0.04
22 4 0.14
23 2 0.07
24 8 0.29
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.31
Consensus pattern (24 bp):
TAAAATAATACATATATAGAAACT
Found at i:21667288 original size:16 final size:17
Alignment explanation
Indices: 21667269--21667300 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
21667259 GGTCAGATTA
21667269 GGTTTGGGTT-TAATTG
1 GGTTTGGGTTATAATTG
21667285 GGTTTGGGTTATAATT
1 GGTTTGGGTTATAATT
21667301 TTGGGCTAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.16, C:0.00, G:0.34, T:0.50
Consensus pattern (17 bp):
GGTTTGGGTTATAATTG
Found at i:21684790 original size:38 final size:38
Alignment explanation
Indices: 21684746--21684828 Score: 148
Period size: 38 Copynumber: 2.2 Consensus size: 38
21684736 TATTGAAATT
* *
21684746 TTGCATACATATAGGATAGTATCATTTATTTTAATTAA
1 TTGCATACATATAGGATAGAATCATTTAGTTTAATTAA
21684784 TTGCATACATATAGGATAGAATCATTTAGTTTAATTAA
1 TTGCATACATATAGGATAGAATCATTTAGTTTAATTAA
21684822 TTGCATA
1 TTGCATA
21684829 AACCCCTTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.37, C:0.08, G:0.12, T:0.42
Consensus pattern (38 bp):
TTGCATACATATAGGATAGAATCATTTAGTTTAATTAA
Found at i:21687311 original size:27 final size:27
Alignment explanation
Indices: 21687259--21687322 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
21687249 CCTACCATTA
* **
21687259 TTTCAAAGTTTGCCACACATTTTATCC
1 TTTCAGAGTTTGCCACACATGCTATCC
*
21687286 TTTCAGAGTTTGCCATACATGCTATCC
1 TTTCAGAGTTTGCCACACATGCTATCC
*
21687313 ATTCAGAGTT
1 TTTCAGAGTT
21687323 CATCGAAGAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.39
Consensus pattern (27 bp):
TTTCAGAGTTTGCCACACATGCTATCC
Found at i:21687474 original size:28 final size:27
Alignment explanation
Indices: 21687442--21687541 Score: 119
Period size: 28 Copynumber: 3.6 Consensus size: 27
21687432 CATTTATCAT
* * *
21687442 AAAGGCCTTCATTTCCTTAGATTACCAG
1 AAAGG-CTTCATTTTCATAGATTACCAC
21687470 AAAGGCTTCCATTTTCATAGATTACCAC
1 AAAGGCTT-CATTTTCATAGATTACCAC
*
21687498 AAAGGCTTCTATTTTCATAGATTGCCAC
1 AAAGGCTTC-ATTTTCATAGATTACCAC
*
21687526 AAACGCTTACATTTTC
1 AAAGGCTT-CATTTTC
21687542 TACCATGTTC
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
27 4 0.06
28 59 0.92
29 1 0.02
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (27 bp):
AAAGGCTTCATTTTCATAGATTACCAC
Found at i:21691875 original size:15 final size:16
Alignment explanation
Indices: 21691846--21691875 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21691836 TGCATTTCAT
21691846 TTGCATTTAGGTTAAC
1 TTGCATTTAGGTTAAC
21691862 TTGCATTT-GGTTAA
1 TTGCATTTAGGTTAA
21691876 TTAATTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.23, C:0.10, G:0.20, T:0.47
Consensus pattern (16 bp):
TTGCATTTAGGTTAAC
Found at i:21693828 original size:233 final size:233
Alignment explanation
Indices: 21693419--21693877 Score: 810
Period size: 233 Copynumber: 2.0 Consensus size: 233
21693409 GCTTTCCTCT
*
21693419 TTGAAATTAGAATCTCATCACTAATCTTGATATAGCTTCCTCTTCTACTTCCAGTCGAGCTAACT
1 TTGAAATTAGAATCTCATCACTAATCTTGATATAGCTTCCTCTTCTACTCCCAGTCGAGCTAACT
* *
21693484 CTTTTACTGGTGATACATGACTTCCTTCTCACTCAAACCTTCATGACATGGACATCTCATCTATT
66 CTCTTACTGGTGATACATGACTTCCTTCTCACTCAAACCTTCATGACATAGACATCTCATCTATT
* *
21693549 CTAAAGAGAACTCGTGGCAAAGAGTTCACTACTACTTTAACCAAGAAATTAGTAGCAAAAAAAAC
131 CTAAAGAGAACTCGTGGCAAAGAGGTCACTACTACTTCAACCAAGAAATTAGTAGCAAAAAAAAC
21693614 AAGGAAGAGGGTTAGAGGGAAGAGAGCACTCGGGGGTC
196 AAGGAAGAGGGTTAGAGGGAAGAGAGCACTCGGGGGTC
* *
21693652 TTGAAATTAGAATCTCGTCACTAATCTTGATATAGCTTCCTCTTCTACTCCCAGTTGAGCTAACT
1 TTGAAATTAGAATCTCATCACTAATCTTGATATAGCTTCCTCTTCTACTCCCAGTCGAGCTAACT
* *
21693717 CTCTTATTGGTGATACATGACTTCCTTCTCACTCAAATCTTCATGACATAGACATCTCATCTATT
66 CTCTTACTGGTGATACATGACTTCCTTCTCACTCAAACCTTCATGACATAGACATCTCATCTATT
* *
21693782 CTAAAGAGAACTCGTGGCAAAGAGGTCACTACTACTTCATCCAAGAAATTAGTAGCAAAAAAAAT
131 CTAAAGAGAACTCGTGGCAAAGAGGTCACTACTACTTCAACCAAGAAATTAGTAGCAAAAAAAAC
*
21693847 AAGGAAGAGGGTTAGAGGGAAGAGAGTACTC
196 AAGGAAGAGGGTTAGAGGGAAGAGAGCACTC
21693878 AGGAGTCAGG
Statistics
Matches: 214, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
233 214 1.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (233 bp):
TTGAAATTAGAATCTCATCACTAATCTTGATATAGCTTCCTCTTCTACTCCCAGTCGAGCTAACT
CTCTTACTGGTGATACATGACTTCCTTCTCACTCAAACCTTCATGACATAGACATCTCATCTATT
CTAAAGAGAACTCGTGGCAAAGAGGTCACTACTACTTCAACCAAGAAATTAGTAGCAAAAAAAAC
AAGGAAGAGGGTTAGAGGGAAGAGAGCACTCGGGGGTC
Found at i:21701637 original size:8 final size:8
Alignment explanation
Indices: 21701624--21701649 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
21701614 TCCACGACGT
21701624 TTTCCATG
1 TTTCCATG
21701632 TTTCCATG
1 TTTCCATG
21701640 TTTCCATG
1 TTTCCATG
21701648 TT
1 TT
21701650 ATTGCTCCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.23, G:0.12, T:0.54
Consensus pattern (8 bp):
TTTCCATG
Found at i:21719901 original size:31 final size:32
Alignment explanation
Indices: 21719864--21719923 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
21719854 TAAAAAAGAT
* * *
21719864 AAAAAGATAGAAACGAAACA-GAAAGAAAAAG
1 AAAAAGAAAGAAAAGAAAAATGAAAGAAAAAG
21719895 AAAAAGAAAGAAAAGAAAAATGAAAGAAA
1 AAAAAGAAAGAAAAGAAAAATGAAAGAAA
21719924 TGAAGGAGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 17 0.68
32 8 0.32
ACGTcount: A:0.75, C:0.03, G:0.18, T:0.03
Consensus pattern (32 bp):
AAAAAGAAAGAAAAGAAAAATGAAAGAAAAAG
Found at i:21719908 original size:15 final size:15
Alignment explanation
Indices: 21719864--21719923 Score: 75
Period size: 16 Copynumber: 3.9 Consensus size: 15
21719854 TAAAAAAGAT
* *
21719864 AAAAAGATAGAAACG
1 AAAAAGAAAGAAAAG
*
21719879 AAACAGAAAGAAAAAG
1 AAAAAGAAAG-AAAAG
21719895 AAAAAGAAAGAAAAG
1 AAAAAGAAAGAAAAG
21719910 AAAAATGAAAGAAA
1 AAAAA-GAAAGAAA
21719924 TGAAGGAGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
15 18 0.46
16 21 0.54
ACGTcount: A:0.75, C:0.03, G:0.18, T:0.03
Consensus pattern (15 bp):
AAAAAGAAAGAAAAG
Found at i:21720622 original size:24 final size:24
Alignment explanation
Indices: 21720590--21720647 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 24
21720580 GTGTTTTTCA
21720590 ATTGAAATTGATTG-ATTTAGTATGTG
1 ATTG-AATTGATTGAATTTA-TAT-TG
*
21720616 A-TGAATTTATTGAATTTATATTG
1 ATTGAATTGATTGAATTTATATTG
21720639 ATTGAATTG
1 ATTGAATTG
21720648 GTATATATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
23 3 0.11
24 17 0.61
25 7 0.25
26 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (24 bp):
ATTGAATTGATTGAATTTATATTG
Found at i:21725977 original size:15 final size:13
Alignment explanation
Indices: 21725944--21725968 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21725934 TAAACGATAA
21725944 AAATTTTCACACG
1 AAATTTTCACACG
21725957 AAATTTTCACAC
1 AAATTTTCACAC
21725969 ATATAATTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:21738589 original size:13 final size:13
Alignment explanation
Indices: 21738571--21738602 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
21738561 TTTCCAGCAA
21738571 TTATGAATTTATT
1 TTATGAATTTATT
21738584 TTATGAATTTATT
1 TTATGAATTTATT
*
21738597 TGATGA
1 TTATGA
21738603 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:21746032 original size:13 final size:13
Alignment explanation
Indices: 21746014--21746040 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
21746004 TTTCCAGCAA
21746014 TTATGAATTTATT
1 TTATGAATTTATT
21746027 TTATGAATTTATT
1 TTATGAATTTATT
21746040 T
1 T
21746041 GATTATGATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:21746253 original size:50 final size:50
Alignment explanation
Indices: 21746140--21746381 Score: 304
Period size: 50 Copynumber: 4.7 Consensus size: 50
21746130 ATTCGGGTAA
* * *
21746140 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
21746196 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* *
21746246 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * * * *
21746296 AGAGGTCCCCTATAAGACCATGTCTAGGACATGGCATGGGCACCGACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
**
21746346 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
21746382 TTTGGCATGT
Statistics
Matches: 168, Mismatches: 17, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
50 95 0.57
51 28 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:21746326 original size:100 final size:103
Alignment explanation
Indices: 21746140--21746389 Score: 371
Period size: 100 Copynumber: 2.4 Consensus size: 103
21746130 ATTCGGGTAA
21746140 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* * *
21746205 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
63 CTATAAGACCATGTCTAGGACATGGCATGGGCACCGACACG
* *
21746246 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
*
21746308 TAAGACCATGTCTAGGACATGGCATGGGCACCGACATG
66 TAAGACCATGTCTAGGACATGGCATGGGCACCGACACG
* *
21746346 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
21746390 GTTATTATCA
Statistics
Matches: 133, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
100 51 0.38
101 39 0.29
105 2 0.02
106 41 0.31
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTAGGACATGGCATGGGCACCGACACG
Found at i:21755761 original size:32 final size:32
Alignment explanation
Indices: 21755719--21755779 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
21755709 TTTTTTGAAA
21755719 AATAATTATAACTATTCAAAT-AAT-ATTATTTG
1 AATAATTATAA-TATT-AAATGAATAATTATTTG
*
21755751 AATAGTTATAATATTAAATGAATAATTAT
1 AATAATTATAATATTAAATGAATAATTAT
21755780 GTGTTTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 4 0.15
31 7 0.27
32 15 0.58
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.43
Consensus pattern (32 bp):
AATAATTATAATATTAAATGAATAATTATTTG
Found at i:21755772 original size:20 final size:20
Alignment explanation
Indices: 21755738--21755779 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
21755728 AACTATTCAA
** *
21755738 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
21755758 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
21755778 AT
1 AT
21755780 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:21762671 original size:36 final size:35
Alignment explanation
Indices: 21762620--21762699 Score: 126
Period size: 36 Copynumber: 2.3 Consensus size: 35
21762610 TTTACCGACG
*
21762620 GAACTTGATATTCAAATTAAGGTTTTTATGATGGT
1 GAACTTGATATTCAAATTAAAGTTTTTATGATGGT
21762655 GAACTTTGATATTCAAATTAAAGTTTTTATGATGGT
1 GAAC-TTGATATTCAAATTAAAGTTTTTATGATGGT
21762691 GTAA-TTGAT
1 G-AACTTGAT
21762700 GGTCTGTTGT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
35 9 0.21
36 31 0.74
37 2 0.05
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.44
Consensus pattern (35 bp):
GAACTTGATATTCAAATTAAAGTTTTTATGATGGT
Found at i:21769311 original size:5 final size:5
Alignment explanation
Indices: 21769301--21769326 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
21769291 GAACAAATAT
21769301 ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG A
21769327 ATTCCATCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (5 bp):
ATTCG
Found at i:21778791 original size:21 final size:21
Alignment explanation
Indices: 21778767--21778809 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
21778757 AGAAGAAAAC
*
21778767 TTTTAATATTTTTTTATAATT
1 TTTTAATATCTTTTTATAATT
*
21778788 TTTTAATGTCTTTTTATAATT
1 TTTTAATATCTTTTTATAATT
21778809 T
1 T
21778810 CAGAATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (21 bp):
TTTTAATATCTTTTTATAATT
Found at i:21780352 original size:24 final size:24
Alignment explanation
Indices: 21780325--21780376 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
21780315 TTAGTAAGTC
*
21780325 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
21780349 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
21780373 AAAT
1 AAAT
21780377 CTTCTAGAAA
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:21782322 original size:24 final size:24
Alignment explanation
Indices: 21782295--21782346 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
21782285 TTAGTAAGAC
*
21782295 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
21782319 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
21782343 AAAT
1 AAAT
21782347 CTTCTAGAAA
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:21807230 original size:35 final size:36
Alignment explanation
Indices: 21807158--21807232 Score: 125
Period size: 36 Copynumber: 2.1 Consensus size: 36
21807148 ACCGATGTTA
21807158 AATTACAAATGGTAAAAAAATATTATTAAATTATTT
1 AATTACAAATGGTAAAAAAATATTATTAAATTATTT
* *
21807194 AATTACAAATGGTTAAAAAATATTATT-AATTTTTT
1 AATTACAAATGGTAAAAAAATATTATTAAATTATTT
21807229 AATT
1 AATT
21807233 TTAAATAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
35 11 0.30
36 26 0.70
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.43
Consensus pattern (36 bp):
AATTACAAATGGTAAAAAAATATTATTAAATTATTT
Found at i:21807276 original size:25 final size:24
Alignment explanation
Indices: 21807215--21807280 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 24
21807205 GTTAAAAAAT
*
21807215 ATTATTAATTTTTTA--ATTTTAA
1 ATTATTAATTTTTTATGTTTTTAA
* * *
21807237 ATAATTAA-TTATTATGTTATTTAG
1 ATTATTAATTTTTTATGTT-TTTAA
21807261 ATTATTAATTTTTTATGTTT
1 ATTATTAATTTTTTATGTTT
21807281 ATATACTCAG
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
21 5 0.15
22 7 0.21
23 1 0.03
24 12 0.35
25 9 0.26
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (24 bp):
ATTATTAATTTTTTATGTTTTTAA
Found at i:21808838 original size:5 final size:5
Alignment explanation
Indices: 21808830--21808867 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
21808820 TTTACACAAG
21808830 CATCA CATCA CATCA CATCA CATCA CATCA CATCA CAT
1 CATCA CATCA CATCA CATCA CATCA CATCA CATCA CAT
21808868 ACAATCATTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.39, C:0.39, G:0.00, T:0.21
Consensus pattern (5 bp):
CATCA
Found at i:21811433 original size:67 final size:67
Alignment explanation
Indices: 21811325--21811454 Score: 188
Period size: 67 Copynumber: 1.9 Consensus size: 67
21811315 TAACCATGCG
** * *
21811325 TATGTAACTCATTTACTTTGATATAATTAGAGGCTCATGCTCTAAAGATGATCGAGCCCATAGTT
1 TATGTAACTCATTTACTTTGATATAAGCAGAGACTCATGCTCTAAAGATGATCGAACCCATAGTT
21811390 AA
66 AA
* * * *
21811392 TATGTAACTCATTTGCTTTGATATAAGCAGAGACTTATGCTCTCAAGATGATTGAACCCATAG
1 TATGTAACTCATTTACTTTGATATAAGCAGAGACTCATGCTCTAAAGATGATCGAACCCATAG
21811455 CTGGTATGTT
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
67 55 1.00
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (67 bp):
TATGTAACTCATTTACTTTGATATAAGCAGAGACTCATGCTCTAAAGATGATCGAACCCATAGTT
AA
Found at i:21812494 original size:6 final size:6
Alignment explanation
Indices: 21812483--21812509 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
21812473 ATTATTTTAA
21812483 TAAATT TAAATT TAAATT TAAATT TAA
1 TAAATT TAAATT TAAATT TAAATT TAA
21812510 TAATTGTCTT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
TAAATT
Found at i:21813551 original size:49 final size:49
Alignment explanation
Indices: 21813479--21813572 Score: 152
Period size: 49 Copynumber: 1.9 Consensus size: 49
21813469 TGCTATGCAA
21813479 TGCTAAAATTGATCTTCCACTGTCTACACTCTTATCACTATTTATACAT
1 TGCTAAAATTGATCTTCCACTGTCTACACTCTTATCACTATTTATACAT
* * * *
21813528 TGCTAAACTTGGTTTTCCACTGTCTACACTCTTATCATTATTTAT
1 TGCTAAAATTGATCTTCCACTGTCTACACTCTTATCACTATTTAT
21813573 TCCCTCTTGG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.26, C:0.23, G:0.07, T:0.44
Consensus pattern (49 bp):
TGCTAAAATTGATCTTCCACTGTCTACACTCTTATCACTATTTATACAT
Found at i:21813955 original size:42 final size:42
Alignment explanation
Indices: 21813898--21814008 Score: 132
Period size: 42 Copynumber: 2.6 Consensus size: 42
21813888 TCGAAATTAG
* * *
21813898 GACATACGATCGTGTCCCAGCCCGTGTAACTTACTAACTTGA
1 GACACACGACCGTGTCCCAGCCCGTGTAACTCACTAACTTGA
* * *
21813940 GACACACGACCGTGTCTCTGCCCGTGTAACTCACTAACTTGG
1 GACACACGACCGTGTCCCAGCCCGTGTAACTCACTAACTTGA
* * * *
21813982 GTCACATGACCGTATCCCAGGCCGTGT
1 GACACACGACCGTGTCCCAGCCCGTGT
21814009 GACAACCTGT
Statistics
Matches: 57, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 57 1.00
ACGTcount: A:0.23, C:0.32, G:0.22, T:0.24
Consensus pattern (42 bp):
GACACACGACCGTGTCCCAGCCCGTGTAACTCACTAACTTGA
Found at i:21814946 original size:18 final size:19
Alignment explanation
Indices: 21814904--21814951 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
21814894 GATTCACATC
*
21814904 TCATTTCATCATCCCATATT
1 TCATTTC-TCATACCATATT
*
21814924 TCATTTCTCATATCATA-T
1 TCATTTCTCATACCATATT
21814942 TCATTTCTCA
1 TCATTTCTCA
21814952 ACATTGCCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 11 0.42
19 8 0.31
20 7 0.27
ACGTcount: A:0.25, C:0.27, G:0.00, T:0.48
Consensus pattern (19 bp):
TCATTTCTCATACCATATT
Found at i:21821916 original size:20 final size:20
Alignment explanation
Indices: 21821878--21821916 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
21821868 AAATAATTAA
*
21821878 TTTTATATATTAGAGTGTTT
1 TTTTATATATTAGAATGTTT
* *
21821898 TTTTTTATATTATAATGTT
1 TTTTATATATTAGAATGTT
21821917 GCATAATCTA
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:0.26, C:0.00, G:0.10, T:0.64
Consensus pattern (20 bp):
TTTTATATATTAGAATGTTT
Found at i:21828050 original size:23 final size:23
Alignment explanation
Indices: 21828024--21828094 Score: 64
Period size: 23 Copynumber: 3.3 Consensus size: 23
21828014 GCACAAGGGA
*
21828024 AAGATGACTATGTGTGCAGATTG
1 AAGAAGACTATGTGTGCAGATTG
*
21828047 AAGAAGAGCT-TGTATG--GA---
1 AAGAAGA-CTATGTGTGCAGATTG
*
21828065 AAGAGGACTATGTGTGCAGATTG
1 AAGAAGACTATGTGTGCAGATTG
21828088 AAGAAGA
1 AAGAAGA
21828095 GCTTGTATGG
Statistics
Matches: 36, Mismatches: 5, Indels: 14
0.65 0.09 0.25
Matches are distributed among these distances:
17 2 0.06
18 11 0.31
20 2 0.06
21 2 0.06
23 17 0.47
24 2 0.06
ACGTcount: A:0.37, C:0.07, G:0.32, T:0.24
Consensus pattern (23 bp):
AAGAAGACTATGTGTGCAGATTG
Found at i:21828078 original size:41 final size:41
Alignment explanation
Indices: 21828021--21828104 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
21828011 GTTGCACAAG
*
21828021 GGAAAGATGACTATGTGTGCAGATTGAAGAAGAGCTTGTAT
1 GGAAAGAGGACTATGTGTGCAGATTGAAGAAGAGCTTGTAT
21828062 GGAAAGAGGACTATGTGTGCAGATTGAAGAAGAGCTTGTAT
1 GGAAAGAGGACTATGTGTGCAGATTGAAGAAGAGCTTGTAT
21828103 GG
1 GG
21828105 TTTGAAGCAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.33, C:0.07, G:0.35, T:0.25
Consensus pattern (41 bp):
GGAAAGAGGACTATGTGTGCAGATTGAAGAAGAGCTTGTAT
Found at i:21832871 original size:24 final size:24
Alignment explanation
Indices: 21832844--21832891 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
21832834 GTTGCACAAG
21832844 GGAAAGAGGACTATGTGTGCAGAT
1 GGAAAGAGGACTATGTGTGCAGAT
21832868 GGAAAGAGGACTATGTGTGCAGAT
1 GGAAAGAGGACTATGTGTGCAGAT
21832892 TGAAGAAGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.38, T:0.21
Consensus pattern (24 bp):
GGAAAGAGGACTATGTGTGCAGAT
Found at i:21832900 original size:26 final size:24
Alignment explanation
Indices: 21832846--21832901 Score: 85
Period size: 24 Copynumber: 2.2 Consensus size: 24
21832836 TGCACAAGGG
*
21832846 AAAGAGGACTATGTGTGCAGATGG
1 AAAGAGGACTATGTGTGCAGATGA
21832870 AAAGAGGACTATGTGTGCAGATTGA
1 AAAGAGGACTATGTGTGCAGA-TGA
21832895 AGAAGAG
1 A-AAGAG
21832902 CTTGTATGGT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 21 0.72
25 3 0.10
26 5 0.17
ACGTcount: A:0.38, C:0.07, G:0.36, T:0.20
Consensus pattern (24 bp):
AAAGAGGACTATGTGTGCAGATGA
Found at i:21837633 original size:19 final size:19
Alignment explanation
Indices: 21837599--21837649 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
21837589 TTTTTTAAAC
21837599 ATTTTTAAATTTATTATAATT
1 ATTTTT-AA-TTATTATAATT
*
21837620 ATTTTTAATTATTATATTT
1 ATTTTTAATTATTATAATT
*
21837639 AATTTT-ATTAT
1 ATTTTTAATTAT
21837650 AAATTAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 5 0.18
19 15 0.54
20 2 0.07
21 6 0.21
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
ATTTTTAATTATTATAATT
Found at i:21840812 original size:48 final size:48
Alignment explanation
Indices: 21840730--21840823 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
21840720 TTTCTTGGCT
* *
21840730 TAAAAACGCCTAAGTCAGCCTAACTTCCACCAATAATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
21840778 TAAAAACGCCTAAGTCAG-CTCAAC-TCGCAACAATAAAGGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-CAACAATAAAGGATTCAAC
21840824 AGAATTCTCT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 4 0.10
48 38 0.90
ACGTcount: A:0.40, C:0.28, G:0.13, T:0.19
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
Found at i:21845743 original size:14 final size:14
Alignment explanation
Indices: 21845726--21845756 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
21845716 TTTATTTTTA
*
21845726 TTATCATTATTGTT
1 TTATCATTATTATT
21845740 TTATCATTATTATT
1 TTATCATTATTATT
21845754 TTA
1 TTA
21845757 ATTTGTGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.26, C:0.06, G:0.03, T:0.65
Consensus pattern (14 bp):
TTATCATTATTATT
Found at i:21856104 original size:37 final size:37
Alignment explanation
Indices: 21856054--21856128 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
21856044 TTGACAATCC
21856054 AGCAGGAATAAAACAGGCGAAGGTAGAGTACCTAGAT
1 AGCAGGAATAAAACAGGCGAAGGTAGAGTACCTAGAT
21856091 AGCAGGAATAAAACAGGCGAAGGTAGAGTACCTAGAT
1 AGCAGGAATAAAACAGGCGAAGGTAGAGTACCTAGAT
21856128 A
1 A
21856129 CTGTAAAAGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.44, C:0.13, G:0.29, T:0.13
Consensus pattern (37 bp):
AGCAGGAATAAAACAGGCGAAGGTAGAGTACCTAGAT
Found at i:21859215 original size:44 final size:44
Alignment explanation
Indices: 21859167--21859398 Score: 139
Period size: 44 Copynumber: 5.3 Consensus size: 44
21859157 AATAGTAGAT
21859167 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGC
1 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGC
* **** * * ** * * * *
21859211 CTTGCCTCCCTGGGTTG-CAGCGGAGCAGGTTAAAAATAACAGAT
1 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAG-C
* * * *
21859255 ATTGCCTTCCTGCACCAATAACGAAGCAGATCGAAGACACCAGC
1 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGC
* **** ** * * * *
21859299 CTTGCCTACCTGGGTTG-CAGC-AGAGCA-AGTTAAAAATAGCAGAT
1 CTTGCCTTCCTGCACCGACAGCGA-AGCAGA-TCGAAGACACCAG-C
21859343 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGC
1 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGC
*
21859387 CTTGCCTCCCTG
1 CTTGCCTTCCTG
21859399 GGTTGCAGCG
Statistics
Matches: 123, Mismatches: 57, Indels: 16
0.63 0.29 0.08
Matches are distributed among these distances:
42 2 0.02
43 32 0.26
44 55 0.45
45 32 0.26
46 2 0.02
ACGTcount: A:0.28, C:0.31, G:0.23, T:0.19
Consensus pattern (44 bp):
CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGC
Found at i:21859224 original size:88 final size:88
Alignment explanation
Indices: 21859075--21859562 Score: 746
Period size: 88 Copynumber: 5.6 Consensus size: 88
21859065 GTGAAGATAA
* *
21859075 CAGATCTTTCCTTCCTG-ACCGACAGTGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* *
21859139 GCAGCAGAGTAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
*
21859162 TAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
21859227 GCAGCGGAGCAGGTTAAAAATAA
66 GCAGCGGAGCAGGTTAAAAATAG
* * * * *
21859250 CAGATATTGCCTTCCTGCACCAATAACGAAGCAGATCGAAGACACCAGCCTTGCCTACCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* *
21859315 GCAGCAGAGCAAGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
21859338 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
21859403 GCAGCGGAGCAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* * * * *
21859426 CAGATCTTGCCTTTCTGCACTGACAGCGAAGCAGATCAAAGACACCAACCTTACCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
21859491 ACAGCGGAGCAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* * * * *
21859514 TAGATTTTGCCTTCCTACACCGACAGTGAAGCAGATCGATGAC-CCAGCC
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCC
21859563 CTATCTCCCT
Statistics
Matches: 363, Mismatches: 37, Indels: 2
0.90 0.09 0.00
Matches are distributed among these distances:
87 20 0.06
88 343 0.94
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.20
Consensus pattern (88 bp):
CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
GCAGCGGAGCAGGTTAAAAATAG
Found at i:21859626 original size:44 final size:43
Alignment explanation
Indices: 21859562--21859683 Score: 172
Period size: 44 Copynumber: 2.8 Consensus size: 43
21859552 ATGACCCAGC
*
21859562 CCTATCTCCCTAGGCAGTAGTGGAATAGGCTGAAGATTGTGAAT
1 CCTATCTCCCT-GGCAGTAGTGGAATAGGTTGAAGATTGTGAAT
* *
21859606 TCTATCTCCCTGGTCAGTAGTGGAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGG-CAGTAGTGGAATAGGTTGAAGATTGTGAAT
* *
21859650 CCTGTCTCCCTGAGCAGTAGTGGAGTAGGTTGAA
1 CCTATCTCCCTG-GCAGTAGTGGAATAGGTTGAA
21859684 AATTACAGAT
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
43 2 0.03
44 66 0.96
45 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (43 bp):
CCTATCTCCCTGGCAGTAGTGGAATAGGTTGAAGATTGTGAAT
Found at i:21859877 original size:175 final size:174
Alignment explanation
Indices: 21859543--21859879 Score: 399
Period size: 175 Copynumber: 1.9 Consensus size: 174
21859533 CCGACAGTGA
* * * * *
21859543 AGCAGATCGATGACCCAGCCCTATCTCCCTAGGCAGTAGTGGAATAGGCTGAAGATTGTGAATTC
1 AGCAGATCGAAGACCCAGCCCTATCTCCCTAGGCAGCAGTGGAATAGGCTGAAGATTATAAATCC
* * * * *
21859608 TATCTCCCTGGTCAGTAGTGGAATAGGTTAAAGATTGTGAATCCTGTCTCCCTGAGCAGTAGTGG
66 TATCTCCCTGGTCAATAGGGGAATAGGTTAAAGATTGAGAATCCTATCTCCCTGAGCAGCAGTGG
* * * *
21859673 AGTAGGTTGAAAATTACAGATCTTATCTCCCTAAATAGTAGTAG
131 AGTAGATTGAAAATCACAAATCCTATCTCCCTAAATAGTAGTAG
* * * * *
21859717 AGCAGATCGAAGTCCCCAGCCTTATCTCCCTAGTCAGCGGTGGAATAGGTTGAAGATTATAAATC
1 AGCAGATCGAAG-ACCCAGCCCTATCTCCCTAGGCAGCAGTGGAATAGGCTGAAGATTATAAATC
** ** **
21859782 CTATCTCCCTGGTCAATAGGGGAATAGGTTGCAGATTGAGAATTTTATCTCCCTGAAGTTGCAGT
65 CTATCTCCCTGGTCAATAGGGGAATAGGTTAAAGATTGAGAATCCTATCTCCCTG-AGCAGCAGT
*
21859847 GGAGTAGATT-AAAGTCA-ATAATCCTATCTCCCT
129 GGAGTAGATTGAAAATCACA-AATCCTATCTCCCT
21859880 GAAGTTGCAG
Statistics
Matches: 134, Mismatches: 26, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
174 12 0.09
175 107 0.80
176 15 0.11
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.28
Consensus pattern (174 bp):
AGCAGATCGAAGACCCAGCCCTATCTCCCTAGGCAGCAGTGGAATAGGCTGAAGATTATAAATCC
TATCTCCCTGGTCAATAGGGGAATAGGTTAAAGATTGAGAATCCTATCTCCCTGAGCAGCAGTGG
AGTAGATTGAAAATCACAAATCCTATCTCCCTAAATAGTAGTAG
Found at i:21860061 original size:44 final size:44
Alignment explanation
Indices: 21859956--21860067 Score: 120
Period size: 44 Copynumber: 2.5 Consensus size: 44
21859946 CATCTGGTCT
* * * * * *
21859956 TATCTCCCTAAAGTTGCAGCGGAGCAGACTGAGTAAGAAAGTCT
1 TATCTCCCTAAAGTTGTAGTGGAGCAGACTAAATAACAAAGTCC
* *
21860000 TATCCCCCTGAAA-TTGTAGTGGGGCAGACTAAATGAACAAA-TCC
1 TATCTCCCT-AAAGTTGTAGTGGAGCAGACTAAAT-AACAAAGTCC
21860044 TATCTCCCTAAAGTTGTAGTGGAG
1 TATCTCCCTAAAGTTGTAGTGGAG
21860068 TGGATTAGAA
Statistics
Matches: 55, Mismatches: 10, Indels: 6
0.77 0.14 0.08
Matches are distributed among these distances:
43 3 0.05
44 44 0.80
45 8 0.15
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (44 bp):
TATCTCCCTAAAGTTGTAGTGGAGCAGACTAAATAACAAAGTCC
Found at i:21863947 original size:15 final size:17
Alignment explanation
Indices: 21863917--21863948 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
21863907 CCCATGCATT
21863917 TTTTTAATAGATATATG
1 TTTTTAATAGATATATG
21863934 TTTTT-ATA-ATATATG
1 TTTTTAATAGATATATG
21863949 AATATTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.56
Consensus pattern (17 bp):
TTTTTAATAGATATATG
Found at i:21864568 original size:21 final size:22
Alignment explanation
Indices: 21864544--21864587 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
21864534 TTCATCAATG
* *
21864544 TTTTTTTGATTTAAAG-ATTTT
1 TTTTTTTGAATAAAAGCATTTT
21864565 TTTTTTTGAATAAAAGCATTTT
1 TTTTTTTGAATAAAAGCATTTT
21864587 T
1 T
21864588 GGAGGTTTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.27, C:0.02, G:0.09, T:0.61
Consensus pattern (22 bp):
TTTTTTTGAATAAAAGCATTTT
Found at i:21867926 original size:31 final size:31
Alignment explanation
Indices: 21867858--21867919 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
21867848 TTGGTCATTG
* * *
21867858 AACTATTCAAAAGTTTTCATTTAAGTTAGTA
1 AACTATTCAAAAGTTTTCATCTAAGTAACTA
*
21867889 AACTATTCAAAAGTTTTTATCTAAGTAACTA
1 AACTATTCAAAAGTTTTCATCTAAGTAACTA
21867920 GGCTATTAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.40
Consensus pattern (31 bp):
AACTATTCAAAAGTTTTCATCTAAGTAACTA
Found at i:21870795 original size:21 final size:21
Alignment explanation
Indices: 21870758--21870798 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
21870748 TTAATCCAAA
21870758 TACAAAATAAAATTAAATAAT
1 TACAAAATAAAATTAAATAAT
*
21870779 TACAAGATATAAA-TAAATAA
1 TACAAAATA-AAATTAAATAA
21870799 ATAATGGAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (21 bp):
TACAAAATAAAATTAAATAAT
Found at i:21874312 original size:31 final size:29
Alignment explanation
Indices: 21874261--21874333 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 29
21874251 AATATCAACA
*
21874261 TTTTATTAATTTTTTAAAATTTAAAAATATT
1 TTTTA-TAATTTTTAAAAATTTAAAAAT-TT
**
21874292 TTTTATAATTTTTAATAAATTTAATGATTT
1 TTTTATAATTTTTAA-AAATTTAAAAATTT
21874322 TTTTA-AATTTTT
1 TTTTATAATTTTT
21874334 TTGAATTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 7 0.18
30 16 0.42
31 15 0.39
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (29 bp):
TTTTATAATTTTTAAAAATTTAAAAATTT
Found at i:21883842 original size:2 final size:2
Alignment explanation
Indices: 21883835--21883869 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
21883825 GTCACTTCTG
21883835 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
21883870 TCCGAAGTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:21885872 original size:59 final size:59
Alignment explanation
Indices: 21885780--21885895 Score: 223
Period size: 59 Copynumber: 2.0 Consensus size: 59
21885770 AGGAAAGAGT
21885780 GATAAATTTCAGACAGTGCAATAAGCATCTTCATGTGTATGTTATTGCTGTGCTCATGA
1 GATAAATTTCAGACAGTGCAATAAGCATCTTCATGTGTATGTTATTGCTGTGCTCATGA
*
21885839 GATAAATTTCATACAGTGCAATAAGCATCTTCATGTGTATGTTATTGCTGTGCTCAT
1 GATAAATTTCAGACAGTGCAATAAGCATCTTCATGTGTATGTTATTGCTGTGCTCAT
21885896 TGTCTAATAT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (59 bp):
GATAAATTTCAGACAGTGCAATAAGCATCTTCATGTGTATGTTATTGCTGTGCTCATGA
Found at i:21893543 original size:22 final size:22
Alignment explanation
Indices: 21893518--21893586 Score: 93
Period size: 22 Copynumber: 3.1 Consensus size: 22
21893508 ACAAATCCCA
* *
21893518 TCTCAATTTCATTCAAAAAATC
1 TCTCAATTTCCTTCAAAAATTC
*
21893540 TCTCAAATTCCTTCAAAAATTC
1 TCTCAATTTCCTTCAAAAATTC
* *
21893562 TCTCGATTTCCTTCCAAAATTC
1 TCTCAATTTCCTTCAAAAATTC
21893584 TCT
1 TCT
21893587 TAAACTCTCA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.32, C:0.28, G:0.01, T:0.39
Consensus pattern (22 bp):
TCTCAATTTCCTTCAAAAATTC
Found at i:21893625 original size:52 final size:52
Alignment explanation
Indices: 21893539--21893638 Score: 137
Period size: 52 Copynumber: 1.9 Consensus size: 52
21893529 TTCAAAAAAT
* * * * * *
21893539 CTCTCAAATTCCTTCAAAAATTCTCTCGATTTCCTTCCAAAATTCTCTTAAA
1 CTCTCAAATTCCTTCAAAAATCCTCGCAAATTCCTTCAAAAAATCTCTTAAA
*
21893591 CTCTCAAATTCCTTCCAAAATCCTCGCAAATTCCTTCAAAAAATCTCT
1 CTCTCAAATTCCTTCAAAAATCCTCGCAAATTCCTTCAAAAAATCTCT
21893639 CAACTCCATA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
52 41 1.00
ACGTcount: A:0.32, C:0.31, G:0.02, T:0.35
Consensus pattern (52 bp):
CTCTCAAATTCCTTCAAAAATCCTCGCAAATTCCTTCAAAAAATCTCTTAAA
Found at i:21893740 original size:33 final size:34
Alignment explanation
Indices: 21893670--21893734 Score: 93
Period size: 31 Copynumber: 2.0 Consensus size: 34
21893660 TTTCCATTCA
21893670 ATTTCATTTTTTAAAGAAAATTTTAAATATTTTT
1 ATTTCATTTTTTAAAGAAAATTTTAAATATTTTT
*
21893704 ATTT-ATTTTTT-AA-ATAATTTTAAA-ATTTTT
1 ATTTCATTTTTTAAAGAAAATTTTAAATATTTTT
21893734 A
1 A
21893735 ATATTTTCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 7 0.23
31 10 0.33
32 2 0.07
33 7 0.23
34 4 0.13
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (34 bp):
ATTTCATTTTTTAAAGAAAATTTTAAATATTTTT
Found at i:21893861 original size:14 final size:15
Alignment explanation
Indices: 21893832--21893865 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
21893822 AAATTTTAAA
21893832 TTTTATTTAAGATAT
1 TTTTATTTAAGATAT
*
21893847 TTTTATTTATG-TAT
1 TTTTATTTAAGATAT
21893861 TTTTA
1 TTTTA
21893866 GATAAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTATTTAAGATAT
Found at i:21896475 original size:125 final size:126
Alignment explanation
Indices: 21896253--21896533 Score: 403
Period size: 125 Copynumber: 2.3 Consensus size: 126
21896243 CACGAGGGCA
* * * *
21896253 CGATTTGACACTATTTGCTCAG-AAACGTCAAAAAATAATTATTTCTTACATGACCAACTGTAGC
1 CGATTTTATACTATTTGCTCAGAAAACGTCAAAAAATAATAATTTCTGACATGACCAACTGTAGC
* **
21896317 GAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAT-ATAGAATCCTGGTATCAG
66 GAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTC-TGATAGAATCCTGGTAGAAG
21896378 CGATTTTATACTATTTGCTCAGAAAACGTCAAAAAA-AATAATTTCTGACATGACCAACTGT-GC
1 CGATTTTATACTATTTGCTCAGAAAACGTCAAAAAATAATAATTTCTGACATGACCAACTGTAG-
* * *
21896441 CGAAATGGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCTGATAGCATCTTGGTAGAAG
65 CGAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCTGATAGAATCCTGGTAGAAG
21896503 CGATTTTATACTATTTGAC-CA-AAAACGTCAA
1 CGATTTTATACTATTTG-CTCAGAAAACGTCAA
21896534 CTCGAAATAA
Statistics
Matches: 142, Mismatches: 10, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
124 12 0.08
125 116 0.82
126 14 0.10
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (126 bp):
CGATTTTATACTATTTGCTCAGAAAACGTCAAAAAATAATAATTTCTGACATGACCAACTGTAGC
GAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCTGATAGAATCCTGGTAGAAG
Found at i:21900096 original size:5 final size:5
Alignment explanation
Indices: 21900086--21900126 Score: 82
Period size: 5 Copynumber: 8.2 Consensus size: 5
21900076 CTCATGACAA
21900086 AGATG AGATG AGATG AGATG AGATG AGATG AGATG AGATG A
1 AGATG AGATG AGATG AGATG AGATG AGATG AGATG AGATG A
21900127 TATGTCAAGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.41, C:0.00, G:0.39, T:0.20
Consensus pattern (5 bp):
AGATG
Found at i:21903757 original size:32 final size:32
Alignment explanation
Indices: 21903676--21903759 Score: 125
Period size: 32 Copynumber: 2.6 Consensus size: 32
21903666 TATTGAAATT
*
21903676 AACTTGTTGGATTTTAAAATTATTATGTTTTA
1 AACTTGTTGGATTTTGAAATTATTATGTTTTA
*
21903708 AACTTGTTGGATTTTGAATTTATTATGTTTTA
1 AACTTGTTGGATTTTGAAATTATTATGTTTTA
*
21903740 AGA-TTGTTGGATATTGAAAT
1 A-ACTTGTTGGATTTTGAAAT
21903760 GATTGACAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
32 46 0.98
33 1 0.02
ACGTcount: A:0.30, C:0.02, G:0.17, T:0.51
Consensus pattern (32 bp):
AACTTGTTGGATTTTGAAATTATTATGTTTTA
Found at i:21908473 original size:16 final size:16
Alignment explanation
Indices: 21908452--21908506 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
21908442 GTTTGGTTCA
*
21908452 CTATAATGGAATAGGG
1 CTATAATGGAATAGAG
*
21908468 CTATAATTGAATAGAG
1 CTATAATGGAATAGAG
* * *
21908484 TTGTAATGGAATATAG
1 CTATAATGGAATAGAG
21908500 CTATAAT
1 CTATAAT
21908507 CAGTAATTCA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.40, C:0.05, G:0.22, T:0.33
Consensus pattern (16 bp):
CTATAATGGAATAGAG
Found at i:21908688 original size:25 final size:26
Alignment explanation
Indices: 21908654--21908705 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
21908644 TATGTAGATG
*
21908654 ATTATTGTTA-TTAAATTTTAATAAA
1 ATTATTGTTACATAAATTTTAATAAA
*
21908679 ATTATTGTTACATATATTTTAATAAA
1 ATTATTGTTACATAAATTTTAATAAA
21908705 A
1 A
21908706 ACAATAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 10 0.42
26 14 0.58
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (26 bp):
ATTATTGTTACATAAATTTTAATAAA
Found at i:21909737 original size:57 final size:55
Alignment explanation
Indices: 21909600--21909737 Score: 204
Period size: 56 Copynumber: 2.5 Consensus size: 55
21909590 TAAATCGAAA
*
21909600 AAAAAATTAAAAGTCAATACATAATATAACCAATTAAAACTTCTCTGAAACCGAG
1 AAAAAATTAAAAGTCAATCCATAATATAACCAATTAAAACTTCTCTGAAACCGAG
* * * *
21909655 AAAAAACTTAGAAGTCAATCCATAATATAACCAATTAAAATACTTTTGTTAAACCGAG
1 AAAAAA-TTAAAAGTCAATCCATAATATAACCAATT-AAA-ACTTCTCTGAAACCGAG
21909713 AAAAAATTAAAAGTCAATCCATAAT
1 AAAAAATTAAAAGTCAATCCATAAT
21909738 TGCGACAGTG
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
55 6 0.08
56 27 0.36
57 21 0.28
58 20 0.27
ACGTcount: A:0.52, C:0.15, G:0.07, T:0.25
Consensus pattern (55 bp):
AAAAAATTAAAAGTCAATCCATAATATAACCAATTAAAACTTCTCTGAAACCGAG
Found at i:21923885 original size:18 final size:18
Alignment explanation
Indices: 21923842--21923886 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
21923832 TTTTATTGCA
*
21923842 TTTTATTTTTATTCTTAG
1 TTTTATTTTTATTCTAAG
* * *
21923860 TTTAATTTTTTTTCTAAT
1 TTTTATTTTTATTCTAAG
21923878 TTTTATTTT
1 TTTTATTTT
21923887 ATTTGCTTCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (18 bp):
TTTTATTTTTATTCTAAG
Found at i:21926408 original size:9 final size:9
Alignment explanation
Indices: 21926391--21926427 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
21926381 TGAGTTTTCG
21926391 AATTCGAAT
1 AATTCGAAT
*
21926400 AACTCGAAT
1 AATTCGAAT
21926409 AATTCGAAT
1 AATTCGAAT
21926418 AATTCGAAT
1 AATTCGAAT
21926427 A
1 A
21926428 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:21928382 original size:21 final size:21
Alignment explanation
Indices: 21928351--21928404 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
21928341 TTTTGAGGAT
**
21928351 TTTTATATTTTAAAATTTTTTA
1 TTTT-TATTTTAAAATTTTAAA
**
21928373 TTTTTATTTTTGAATTTTAAA
1 TTTTTATTTTAAAATTTTAAA
21928394 TTTTTATTTTA
1 TTTTTATTTTA
21928405 TTTTTTAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (21 bp):
TTTTTATTTTAAAATTTTAAA
Found at i:21928383 original size:13 final size:13
Alignment explanation
Indices: 21928365--21928411 Score: 51
Period size: 12 Copynumber: 3.6 Consensus size: 13
21928355 ATATTTTAAA
21928365 ATTTTTTATTTTT
1 ATTTTTTATTTTT
* *
21928378 ATTTTTGAATTTTA
1 ATTTTT-TATTTTT
*
21928392 AATTTTTA-TTTT
1 ATTTTTTATTTTT
21928404 ATTTTTTA
1 ATTTTTTA
21928412 AAAAAAGTAT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
12 10 0.37
13 7 0.26
14 10 0.37
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (13 bp):
ATTTTTTATTTTT
Found at i:21947462 original size:19 final size:19
Alignment explanation
Indices: 21947438--21947477 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
21947428 TTTGGTTAGT
*
21947438 AATTAATTAATCTTAATTA
1 AATTAATTAAACTTAATTA
21947457 AATTAATTAAACTTAATTA
1 AATTAATTAAACTTAATTA
21947476 AA
1 AA
21947478 ACTAAACATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (19 bp):
AATTAATTAAACTTAATTA
Found at i:21947477 original size:10 final size:10
Alignment explanation
Indices: 21947440--21947477 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
21947430 TGGTTAGTAA
*
21947440 TTAATTAATC
1 TTAATTAAAC
21947450 TTAATTAAA-
1 TTAATTAAAC
21947459 TTAATTAAAC
1 TTAATTAAAC
21947469 TTAATTAAA
1 TTAATTAAA
21947478 ACTAAACATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
9 9 0.35
10 17 0.65
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (10 bp):
TTAATTAAAC
Found at i:21952018 original size:24 final size:24
Alignment explanation
Indices: 21952003--21952054 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
21951993 AATCAAAGTC
21952003 AAATATATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATGCT
* * *
21952027 AAATATATTATACTCATAAATACT
1 AAATATATTATGCTAATAAATGCT
21952051 AAAT
1 AAAT
21952055 CTTCTAGAAA
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:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATGCT
Found at i:21956751 original size:19 final size:19
Alignment explanation
Indices: 21956714--21956752 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
21956704 TTAAGTAATG
*
21956714 AATATATAAAATATATTAT
1 AATATATAAAAAATATTAT
21956733 AATATATAAAAGAAT-TTAT
1 AATATATAAAA-AATATTAT
21956752 A
1 A
21956753 GTAAAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 16 0.89
20 2 0.11
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (19 bp):
AATATATAAAAAATATTAT
Found at i:21959617 original size:24 final size:24
Alignment explanation
Indices: 21959589--21959779 Score: 144
Period size: 24 Copynumber: 8.1 Consensus size: 24
21959579 TGTTTAAGCT
21959589 TAATATTATTTTTAAATTTATCAT-
1 TAATATTA-TTTTAAATTTATCATG
*
21959613 CAATATTATTTT-AATTTA-CAATG
1 TAATATTATTTTAAATTTATC-ATG
*
21959636 TATTATTATTTTAAATTTATCAT-
1 TAATATTATTTTAAATTTATCATG
*
21959659 TAACATTA-TTTAAATTTATCATG
1 TAATATTATTTTAAATTTATCATG
* * *
21959682 TATTATTATTTTAAGTTTATCACG
1 TAATATTATTTTAAATTTATCATG
* * * *
21959706 T-ATTTTCATTTTGAATCTATCAAG
1 TAATATT-ATTTTAAATTTATCATG
* * * *
21959730 TATTATTATTTTTTAACTTATCATT
1 TAATATTA-TTTTAAATTTATCATG
* * *
21959755 TATTATTA-TTTAAAGTTACCATG
1 TAATATTATTTTAAATTTATCATG
21959778 TA
1 TA
21959780 TCGTTTTATA
Statistics
Matches: 132, Mismatches: 26, Indels: 19
0.75 0.15 0.11
Matches are distributed among these distances:
21 1 0.01
22 22 0.17
23 42 0.32
24 44 0.33
25 23 0.17
ACGTcount: A:0.34, C:0.08, G:0.04, T:0.54
Consensus pattern (24 bp):
TAATATTATTTTAAATTTATCATG
Found at i:21959642 original size:23 final size:23
Alignment explanation
Indices: 21959592--21959780 Score: 154
Period size: 23 Copynumber: 8.1 Consensus size: 23
21959582 TTAAGCTTAA
*
21959592 TATTATT-TTTAAATTTATCAT-
1 TATTATTATTTTAATTTATCATG
* *
21959613 CAATATTATTTTAATTTA-CAATG
1 TATTATTATTTTAATTTATC-ATG
21959636 TATTATTATTTTAAATTTATCAT-
1 TATTATTATTTT-AATTTATCATG
** *
21959659 TAACATTATTTAAATTTATCATG
1 TATTATTATTTTAATTTATCATG
*
21959682 TATTATTATTTTAAGTTTATCACG
1 TATTATTATTTTAA-TTTATCATG
* *
21959706 TATT-TTCATTTTGAATCTATCAAG
1 TATTATT-ATTTT-AATTTATCATG
* *
21959730 TATTATTATTTTTTAACTTATCATT
1 TATTATTA--TTTTAATTTATCATG
* * *
21959755 TATTATTATTTAAAGTTACCATG
1 TATTATTATTTTAATTTATCATG
21959778 TAT
1 TAT
21959781 CGTTTTATAC
Statistics
Matches: 134, Mismatches: 22, Indels: 22
0.75 0.12 0.12
Matches are distributed among these distances:
21 6 0.04
22 21 0.16
23 46 0.34
24 37 0.28
25 20 0.15
26 4 0.03
ACGTcount: A:0.33, C:0.08, G:0.04, T:0.54
Consensus pattern (23 bp):
TATTATTATTTTAATTTATCATG
Found at i:21960477 original size:18 final size:17
Alignment explanation
Indices: 21960456--21960495 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
21960446 GATTATTGCT
21960456 CTTATGTGTATTATATTG
1 CTTATGTGTATT-TATTG
*
21960474 CTTATTTGTATTTATTG
1 CTTATGTGTATTTATTG
*
21960491 ATTAT
1 CTTAT
21960496 TTGTCGCTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.23, C:0.05, G:0.12, T:0.60
Consensus pattern (17 bp):
CTTATGTGTATTTATTG
Found at i:21960495 original size:17 final size:18
Alignment explanation
Indices: 21960457--21960499 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
21960447 ATTATTGCTC
* *
21960457 TTATGTGTATTATATTGC
1 TTATTTGTATTATATTGA
21960475 TTATTTGTATT-TATTGA
1 TTATTTGTATTATATTGA
21960492 TTATTTGT
1 TTATTTGT
21960500 CGCTCATTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.21, C:0.02, G:0.14, T:0.63
Consensus pattern (18 bp):
TTATTTGTATTATATTGA
Found at i:21962253 original size:24 final size:24
Alignment explanation
Indices: 21962226--21962277 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
21962216 AATCGAAGTC
* *
21962226 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATACT
*
21962250 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
21962274 AAAT
1 AAAT
21962278 CTTCTAGAAA
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:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:21970116 original size:20 final size:21
Alignment explanation
Indices: 21970088--21970128 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
21970078 ATACACACTA
*
21970088 TTAAAAAAAAGAATCA-CATT
1 TTAAAAAAAAAAATCATCATT
*
21970108 TTAAGAAAAAAAATCATCATT
1 TTAAAAAAAAAAATCATCATT
21970129 ACTTAATAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.59, C:0.10, G:0.05, T:0.27
Consensus pattern (21 bp):
TTAAAAAAAAAAATCATCATT
Found at i:21970134 original size:23 final size:20
Alignment explanation
Indices: 21970088--21970128 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
21970078 ATACACACTA
21970088 TTAAAAAAAAGAATCACATT
1 TTAAAAAAAAGAATCACATT
21970108 TTAAGAAAAAA-AATCATCATT
1 TTAA-AAAAAAGAATCA-CATT
21970129 ACTTAATAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.59, C:0.10, G:0.05, T:0.27
Consensus pattern (20 bp):
TTAAAAAAAAGAATCACATT
Found at i:21971158 original size:84 final size:84
Alignment explanation
Indices: 21971037--21971205 Score: 320
Period size: 84 Copynumber: 2.0 Consensus size: 84
21971027 AAGTTTATAT
21971037 ATGCTAGTTTTTAATTATTACGTACTTGTAGTGTCAGCCCTCTTTAAAATGGAAATTATCACATT
1 ATGCTAGTTTTTAATTATTACGTACTTGTAGTGTCAGCCCTCTTTAAAATGGAAATTATCACATT
21971102 CACCTCTATATTTTATAAA
66 CACCTCTATATTTTATAAA
* *
21971121 ATGCTAGTTTTTAATTATTACGTATTTGTAGTGTCAGCCCTCTTTAAAATGGAAATTATCACCTT
1 ATGCTAGTTTTTAATTATTACGTACTTGTAGTGTCAGCCCTCTTTAAAATGGAAATTATCACATT
21971186 CACCTCTATATTTTATAAA
66 CACCTCTATATTTTATAAA
21971205 A
1 A
21971206 ATTATAAATG
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
84 83 1.00
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.42
Consensus pattern (84 bp):
ATGCTAGTTTTTAATTATTACGTACTTGTAGTGTCAGCCCTCTTTAAAATGGAAATTATCACATT
CACCTCTATATTTTATAAA
Found at i:21984001 original size:18 final size:18
Alignment explanation
Indices: 21983967--21984001 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21983957 CAAAAAGGAA
**
21983967 CAAAATTAAAATTACAAC
1 CAAAATTAAAAGAACAAC
21983985 CAAAATTAAAAGAACAA
1 CAAAATTAAAAGAACAA
21984002 AACAAAATCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.66, C:0.14, G:0.03, T:0.17
Consensus pattern (18 bp):
CAAAATTAAAAGAACAAC
Found at i:21988093 original size:31 final size:32
Alignment explanation
Indices: 21988058--21988131 Score: 102
Period size: 30 Copynumber: 2.4 Consensus size: 32
21988048 AGTTTAATTG
*
21988058 TAATTTTTAAAAATTTTCAAA-GGCTTAA-TAA
1 TAATTTTTAAAAATTTT-AAAGGGCCTAACTAA
21988089 TAATTTTT-AAAATTTTAAAGGGCCTAACTAA
1 TAATTTTTAAAAATTTTAAAGGGCCTAACTAA
21988120 -AATTTTTAAAAA
1 TAATTTTTAAAAA
21988132 AACTTAAAGA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
29 3 0.08
30 21 0.54
31 15 0.38
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.41
Consensus pattern (32 bp):
TAATTTTTAAAAATTTTAAAGGGCCTAACTAA
Found at i:21988223 original size:13 final size:13
Alignment explanation
Indices: 21988205--21988229 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21988195 TGTCTAACAT
21988205 AATGACTTTGACA
1 AATGACTTTGACA
21988218 AATGACTTTGAC
1 AATGACTTTGAC
21988230 TACCTCTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
AATGACTTTGACA
Found at i:21997588 original size:43 final size:43
Alignment explanation
Indices: 21997526--21997608 Score: 139
Period size: 43 Copynumber: 1.9 Consensus size: 43
21997516 AATTTATGTG
* *
21997526 ATTGATATGGCAAATATGAGAAATGCATATGAGATGAGAAAAT
1 ATTGAAATGGCAAAGATGAGAAATGCATATGAGATGAGAAAAT
*
21997569 ATTGAAATGGCAAAGATGAGAAATGTATATGAGATGAGAA
1 ATTGAAATGGCAAAGATGAGAAATGCATATGAGATGAGAA
21997609 GTGAAATATG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.47, C:0.04, G:0.25, T:0.24
Consensus pattern (43 bp):
ATTGAAATGGCAAAGATGAGAAATGCATATGAGATGAGAAAAT
Found at i:21997605 original size:18 final size:19
Alignment explanation
Indices: 21997582--21997632 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
21997572 GAAATGGCAA
*
21997582 AGATGAGAAATG-TATATG
1 AGATGAGAAATGAAATATG
*
21997600 AGATGAGAAGTGAAATATG
1 AGATGAGAAATGAAATATG
*
21997619 AAATGATGAAATGA
1 AGATGA-GAAATGA
21997633 GATGTGAAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 11 0.41
19 10 0.37
20 6 0.22
ACGTcount: A:0.49, C:0.00, G:0.27, T:0.24
Consensus pattern (19 bp):
AGATGAGAAATGAAATATG
Found at i:21997632 original size:27 final size:27
Alignment explanation
Indices: 21997597--21997651 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
21997587 AGAAATGTAT
*
21997597 ATGAGATGAGAAGTGAAA-TATGAAATG
1 ATGAAATGAGAAGTGAAACT-TGAAATG
*
21997624 ATGAAATGAGATGTGAAACTTGAAATG
1 ATGAAATGAGAAGTGAAACTTGAAATG
21997651 A
1 A
21997652 ATCCAAGTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 24 0.96
28 1 0.04
ACGTcount: A:0.47, C:0.02, G:0.27, T:0.24
Consensus pattern (27 bp):
ATGAAATGAGAAGTGAAACTTGAAATG
Found at i:21998143 original size:23 final size:23
Alignment explanation
Indices: 21998123--21998167 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 23
21998113 TAGTTTAGGC
21998123 AATG-TTGGTATGGTAGCTTAGCCT
1 AATGCTTGGTAT-GT-GCTTAGCCT
21998147 AATGCTTGGTATGTGCTTAGC
1 AATGCTTGGTATGTGCTTAGC
21998168 TTCAAATTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 7 0.35
24 6 0.30
25 7 0.35
ACGTcount: A:0.20, C:0.13, G:0.29, T:0.38
Consensus pattern (23 bp):
AATGCTTGGTATGTGCTTAGCCT
Found at i:21999501 original size:25 final size:25
Alignment explanation
Indices: 21999467--21999520 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
21999457 AGGGTCACAC
*
21999467 GGCCGTGTCACACACCCGTGTGCCA
1 GGCCGTGTCACACACCCATGTGCCA
**
21999492 GGCCGTGTCATGCACCCATGTGCCA
1 GGCCGTGTCACACACCCATGTGCCA
21999517 GGCC
1 GGCC
21999521 ATGTAGCTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.15, C:0.39, G:0.30, T:0.17
Consensus pattern (25 bp):
GGCCGTGTCACACACCCATGTGCCA
Found at i:22002880 original size:18 final size:19
Alignment explanation
Indices: 22002843--22002881 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
22002833 TAGGATTTGA
* *
22002843 TACTGTATATCTGTTACTG
1 TACTGAATATCTGATACTG
22002862 TACTGAATAT-TGATACTG
1 TACTGAATATCTGATACTG
22002880 TA
1 TA
22002882 ATGGGCCAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.44
Consensus pattern (19 bp):
TACTGAATATCTGATACTG
Found at i:22003377 original size:18 final size:18
Alignment explanation
Indices: 22003342--22003379 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
22003332 GCAATAAGTG
*
22003342 ACGTTTTGAAAATTAATA
1 ACGTTTTGAAAATGAATA
22003360 ACGTTTTGAAAGA-GAATA
1 ACGTTTTGAAA-ATGAATA
22003378 AC
1 AC
22003380 ATTTGAATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 17 0.94
19 1 0.06
ACGTcount: A:0.45, C:0.08, G:0.16, T:0.32
Consensus pattern (18 bp):
ACGTTTTGAAAATGAATA
Found at i:22012651 original size:14 final size:14
Alignment explanation
Indices: 22012601--22012654 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
22012591 TTTTGATGCC
*
22012601 AAAAAAATTATATA
1 AAAAAAATAATATA
*
22012615 AAAACAATTTAACTATA
1 AAAA-AA-ATAA-TATA
22012632 AAAAAAATAATATA
1 AAAAAAATAATATA
*
22012646 ATAAAAATA
1 AAAAAAATA
22012655 TATCATCAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
14 16 0.48
15 5 0.15
16 4 0.12
17 8 0.24
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (14 bp):
AAAAAAATAATATA
Found at i:22026511 original size:40 final size:40
Alignment explanation
Indices: 22026422--22026685 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
22026412 TTGAATGATG
* *
22026422 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
22026461 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
22026501 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
22026540 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
22026580 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
22026620 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
22026661 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
22026686 AACGAGGAGC
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
39 53 0.26
40 143 0.69
41 10 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:22026703 original size:120 final size:118
Alignment explanation
Indices: 22026422--22026718 Score: 338
Period size: 119 Copynumber: 2.5 Consensus size: 118
22026412 TTGAATGATG
* *
22026422 TCCGGGCTAAGTCCCGAAGGC-TTGTG--CTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGCATT-TGAAC-GAGTGACTAA-ATCCGG-TTAA-ATCCCGAAGGC
* *
22026482 ATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
61 ATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
* ** * *
22026540 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTT
* *
22026605 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
65 GTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAATTACTA-AA
* * *
22026661 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
22026719 TACGTGATTT
Statistics
Matches: 153, Mismatches: 17, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
118 23 0.15
119 64 0.42
120 64 0.42
121 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (118 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTG
TGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
Found at i:22034529 original size:39 final size:40
Alignment explanation
Indices: 22034434--22034695 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
22034424 TTGAATGATG
*
22034434 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
22034472 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
22034513 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
22034552 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
22034591 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
22034630 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
22034669 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
22034696 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:22042323 original size:6 final size:7
Alignment explanation
Indices: 22042307--22042335 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
22042297 TTATCATCTC
22042307 TTTTTAT
1 TTTTTAT
22042314 TTTTTAT
1 TTTTTAT
22042321 TTTTTAT
1 TTTTTAT
22042328 TTTTTAT
1 TTTTTAT
22042335 T
1 T
22042336 ATGATTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTAT
Found at i:22042323 original size:13 final size:13
Alignment explanation
Indices: 22042307--22042347 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
22042297 TTATCATCTC
22042307 TTTTTATTTTTTA
1 TTTTTATTTTTTA
22042320 TTTTTTATTTTTTA
1 -TTTTTATTTTTTA
* *
22042334 TTATGATTTTTTA
1 TTTTTATTTTTTA
22042347 T
1 T
22042348 AATTATTAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 12 0.48
14 13 0.52
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.80
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:22042803 original size:21 final size:21
Alignment explanation
Indices: 22042779--22042818 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
22042769 ATTCAATCCA
22042779 TATTTCACTTTTA-ATTTTTTC
1 TATTT-ACTTTTATATTTTTTC
*
22042800 TATTTATTTTTATATTTTT
1 TATTTACTTTTATATTTTT
22042819 ATTTTTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.72
Consensus pattern (21 bp):
TATTTACTTTTATATTTTTTC
Found at i:22042829 original size:14 final size:14
Alignment explanation
Indices: 22042802--22042831 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
22042792 ATTTTTTCTA
22042802 TTTATTTTTATATT
1 TTTATTTTTATATT
22042816 TTTATTTTTATATT
1 TTTATTTTTATATT
22042830 TT
1 TT
22042832 CTTTGTTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTATTTTTATATT
Found at i:22046360 original size:129 final size:129
Alignment explanation
Indices: 22046199--22046461 Score: 499
Period size: 129 Copynumber: 2.0 Consensus size: 129
22046189 GAATACACAA
*
22046199 TCAACATCACCTTTTACAATTTCACCATAAAAAAGAATGTACACTAAAAACACTGAGTTATTCAT
1 TCAACATCACCTTTTACAATTTCACCATAAAAAAGAATGTACACTAAAAACAATGAGTTATTCAT
*
22046264 CTTCACCAGAATTTTTGAGCTGTCCTACTAAACACAACAATTTCTCTCTTTTCTTCTCTTCAAT
66 CTTCACCAGAATTTTTGAGCTCTCCTACTAAACACAACAATTTCTCTCTTTTCTTCTCTTCAAT
22046328 TCAACATCACCTTTTACAATTTCACCATAAAAAAGAATGTACACTAAAAACAATGAGTTATTCAT
1 TCAACATCACCTTTTACAATTTCACCATAAAAAAGAATGTACACTAAAAACAATGAGTTATTCAT
*
22046393 CTTCACCAGAATTTTTGAGCTCTCCTACTAAACACAACAATTTCTCTCTTTTCTTCTCTTCAGT
66 CTTCACCAGAATTTTTGAGCTCTCCTACTAAACACAACAATTTCTCTCTTTTCTTCTCTTCAAT
22046457 TCAAC
1 TCAAC
22046462 TGTTACAAAA
Statistics
Matches: 131, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
129 131 1.00
ACGTcount: A:0.34, C:0.25, G:0.06, T:0.35
Consensus pattern (129 bp):
TCAACATCACCTTTTACAATTTCACCATAAAAAAGAATGTACACTAAAAACAATGAGTTATTCAT
CTTCACCAGAATTTTTGAGCTCTCCTACTAAACACAACAATTTCTCTCTTTTCTTCTCTTCAAT
Found at i:22049568 original size:69 final size:69
Alignment explanation
Indices: 22049455--22049594 Score: 237
Period size: 69 Copynumber: 2.0 Consensus size: 69
22049445 TACATTGGTA
* *
22049455 GACTTTAGGTTGAATTTAGTATAACAATTGCTCTTCTCGTTGAGAGAAAAATTATAAAGTGACTT
1 GACTTTAGGTTAAATTTAGTATAACAATTGCTCTTCTCGTTGAGAGAAAAATCATAAAGTGACTT
22049520 TCCT
66 TCCT
22049524 GACTTTAGGTTAAATTTAGTATAACAATTGCTCTTCTCAG-TGAGAGAAAAATCATAAAGTGACT
1 GACTTTAGGTTAAATTTAGTATAACAATTGCTCTTCTC-GTTGAGAGAAAAATCATAAAGTGACT
*
22049588 TTTCT
65 TTCCT
22049593 GA
1 GA
22049595 GACAATGATA
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
69 66 0.99
70 1 0.01
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (69 bp):
GACTTTAGGTTAAATTTAGTATAACAATTGCTCTTCTCGTTGAGAGAAAAATCATAAAGTGACTT
TCCT
Found at i:22058557 original size:17 final size:17
Alignment explanation
Indices: 22058535--22058569 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
22058525 ACGGATTAGG
22058535 TGATATGTTTTATGAAA
1 TGATATGTTTTATGAAA
22058552 TGATATGTTTTATGAAA
1 TGATATGTTTTATGAAA
22058569 T
1 T
22058570 TTTATTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.17, T:0.49
Consensus pattern (17 bp):
TGATATGTTTTATGAAA
Found at i:22061725 original size:26 final size:27
Alignment explanation
Indices: 22061662--22061725 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
22061652 TTTATTGAGG
*
22061662 TTATTAGTTTATCGCTAAATGAATATT
1 TTATTAGTTTATCGATAAATGAATATT
*
22061689 TTATTAGTTTATCGATAAATTAATA-T
1 TTATTAGTTTATCGATAAATGAATATT
*
22061715 TTATTAATTTA
1 TTATTAGTTTA
22061726 AAGAATATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 11 0.32
27 23 0.68
ACGTcount: A:0.36, C:0.05, G:0.08, T:0.52
Consensus pattern (27 bp):
TTATTAGTTTATCGATAAATGAATATT
Found at i:22064434 original size:42 final size:42
Alignment explanation
Indices: 22064364--22064473 Score: 141
Period size: 42 Copynumber: 2.6 Consensus size: 42
22064354 GTCTTAAATT
* * * *
22064364 GTGTAACTCACTGACTTAGAT-CACACGGCCGTGTGCCAGACC
1 GTGTGACTCACTGACTT-GATACACACGGCCGTATACCAAACC
* *
22064406 GTGTGGCTCACTGACTTGATACAGACGGCCGTATACCAAACC
1 GTGTGACTCACTGACTTGATACACACGGCCGTATACCAAACC
*
22064448 GTGTGACTCACTAACTTGATACACAC
1 GTGTGACTCACTGACTTGATACACAC
22064474 AGTTGTGTCA
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
41 3 0.05
42 55 0.95
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (42 bp):
GTGTGACTCACTGACTTGATACACACGGCCGTATACCAAACC
Found at i:22072578 original size:45 final size:44
Alignment explanation
Indices: 22072516--22072769 Score: 262
Period size: 45 Copynumber: 5.6 Consensus size: 44
22072506 GAAATACGAG
* *
22072516 TAAGACCATAGTTGAAAGACACTATAGCACTATACCAGAAATGAA
1 TAAGA-CATAATTGAAAGACACTATGGCACTATACCAGAAATGAA
* *
22072561 TAAGACGATAATCGAAAGACACTATGGCACTATACCAAAAATGAA
1 TAAGAC-ATAATTGAAAGACACTATGGCACTATACCAGAAATGAA
*
22072606 TAAGATCATAATTGAAAGACACTATGGCACTATACCGGAAATGAA
1 TAAGA-CATAATTGAAAGACACTATGGCACTATACCAGAAATGAA
* *
22072651 TAAGACCATAGTTGAAAGACACTAGGGCACTATACCAG-AATCGAA
1 TAAGA-CATAATTGAAAGACACTATGGCACTATACCAGAAAT-GAA
* * * * * * **
22072696 TAAGACCACAGTTGAAAAACATTGTGGCAATATGA-TGGAAATGAA
1 TAAGA-CATAATTGAAAGACACTATGGCACTAT-ACCAGAAATGAA
*
22072741 TAAGACCATAGTTGAAA-AGCACTATGGCA
1 TAAGA-CATAATTGAAAGA-CACTATGGCA
22072770 TCATGTCAAA
Statistics
Matches: 181, Mismatches: 22, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
44 5 0.03
45 171 0.94
46 5 0.03
ACGTcount: A:0.45, C:0.17, G:0.19, T:0.20
Consensus pattern (44 bp):
TAAGACATAATTGAAAGACACTATGGCACTATACCAGAAATGAA
Found at i:22072669 original size:90 final size:90
Alignment explanation
Indices: 22072507--22072769 Score: 325
Period size: 90 Copynumber: 2.9 Consensus size: 90
22072497 TTATTGGTTG
* * * * *
22072507 AAATACGAGTAAGACCATAGTTGAAAGACACTATAGCACTATACCAGAAATGAATAAGACGATAA
1 AAAT-CGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCGGAAATGAATAAGACCATAG
*
22072572 TCGAAAGACACTATGGCACTATACCAA
65 TTGAAAGACACTATGGCACTATACC-A
* *
22072599 AAAT-GAATAAGATCATAATTGAAAGACACTATGGCACTATACCGGAAATGAATAAGACCATAGT
1 AAATCGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCGGAAATGAATAAGACCATAGT
*
22072663 TGAAAGACACTAGGGCACTATACCA
66 TGAAAGACACTATGGCACTATACCA
* * * * * * *
22072688 GAATCGAATAAGACCACAGTTGAAAAACATTGTGGCAATATGA-TGGAAATGAATAAGACCATAG
1 AAATCGAATAAGACCATAGTTGAAAGACACTATGGCACTAT-ACCGGAAATGAATAAGACCATAG
22072752 TTGAAA-AGCACTATGGCA
65 TTGAAAGA-CACTATGGCA
22072770 TCATGTCAAA
Statistics
Matches: 149, Mismatches: 19, Indels: 8
0.85 0.11 0.05
Matches are distributed among these distances:
89 5 0.03
90 139 0.93
91 1 0.01
92 4 0.03
ACGTcount: A:0.45, C:0.16, G:0.19, T:0.20
Consensus pattern (90 bp):
AAATCGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCGGAAATGAATAAGACCATAGT
TGAAAGACACTATGGCACTATACCA
Found at i:22072764 original size:135 final size:135
Alignment explanation
Indices: 22072516--22072769 Score: 325
Period size: 135 Copynumber: 1.9 Consensus size: 135
22072506 GAAATACGAG
* * * *
22072516 TAAGACCATAGTTGAAAGACACTATAGCACTATACCAGAAATGAATAAGACGATAATCGAAAGAC
1 TAAGACCATAGTTGAAAGACACTAGAGCACTATACCAGAAATGAATAAGACCACAATCGAAAAAC
* *
22072581 ACTATGGCACTATACCAAAAATGAATAAGATCATAATTGAAAGACACTATGGCACTATACCGGAA
66 ACTATGGCAATATACCAAAAATGAATAAGACCATAATTGAAAGACACTATGGCACTATACCGGAA
22072646 ATGAA
131 ATGAA
* * *
22072651 TAAGACCATAGTTGAAAGACACTAGGGCACTATACCAG-AATCGAATAAGACCACAGTTGAAAAA
1 TAAGACCATAGTTGAAAGACACTAGAGCACTATACCAGAAAT-GAATAAGACCACAATCGAAAAA
* * *** *
22072715 CATTGTGGCAATATGA-TGGAAATGAATAAGACCATAGTTGAAA-AGCACTATGGCA
65 CACTATGGCAATAT-ACCAAAAATGAATAAGACCATAATTGAAAGA-CACTATGGCA
22072770 TCATGTCAAA
Statistics
Matches: 101, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
134 4 0.04
135 96 0.95
136 1 0.01
ACGTcount: A:0.45, C:0.17, G:0.19, T:0.20
Consensus pattern (135 bp):
TAAGACCATAGTTGAAAGACACTAGAGCACTATACCAGAAATGAATAAGACCACAATCGAAAAAC
ACTATGGCAATATACCAAAAATGAATAAGACCATAATTGAAAGACACTATGGCACTATACCGGAA
ATGAA
Found at i:22077033 original size:19 final size:19
Alignment explanation
Indices: 22077009--22077049 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
22076999 AAAAGTACCT
*
22077009 AAAAAAATACTATGACAAG
1 AAAAAAATACTACGACAAG
22077028 AAAAAAATACTACGACAAG
1 AAAAAAATACTACGACAAG
22077047 AAA
1 AAA
22077050 TATGAAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.66, C:0.12, G:0.10, T:0.12
Consensus pattern (19 bp):
AAAAAAATACTACGACAAG
Found at i:22079243 original size:13 final size:14
Alignment explanation
Indices: 22079210--22079250 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
22079200 TAAATAATGT
22079210 TAAAGAAAGAGATA
1 TAAAGAAAGAGATA
22079224 TAAAGAATAGA-ATA
1 TAAAGAA-AGAGATA
22079238 -AAAGAAAAGAGAT
1 TAAAG-AAAGAGAT
22079251 GCTCATGGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
13 7 0.29
14 14 0.58
15 3 0.12
ACGTcount: A:0.66, C:0.00, G:0.20, T:0.15
Consensus pattern (14 bp):
TAAAGAAAGAGATA
Found at i:22085792 original size:63 final size:64
Alignment explanation
Indices: 22085723--22085848 Score: 173
Period size: 63 Copynumber: 2.0 Consensus size: 64
22085713 TGTTTAGTCT
* * * *
22085723 GGTTCATCTGATGATAAAGGTTTGTATATTTCTA-TAATGAAACCAAGTTTTGTTTGAATGTCC
1 GGTTCATCTAATGACAAAGATTTGTATATTTCAATTAATGAAACCAAGTTTTGTTTGAATGTCC
* * * *
22085786 GGTTCATCTAATGACAAAGATTTTTATGTTTCAATTGATGAAACTAAGTTTTGTTTGAATGTC
1 GGTTCATCTAATGACAAAGATTTGTATATTTCAATTAATGAAACCAAGTTTTGTTTGAATGTC
22085849 TGGATTGTAG
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
63 28 0.52
64 26 0.48
ACGTcount: A:0.29, C:0.10, G:0.18, T:0.42
Consensus pattern (64 bp):
GGTTCATCTAATGACAAAGATTTGTATATTTCAATTAATGAAACCAAGTTTTGTTTGAATGTCC
Found at i:22091529 original size:27 final size:28
Alignment explanation
Indices: 22091436--22091588 Score: 95
Period size: 27 Copynumber: 5.7 Consensus size: 28
22091426 AACATGTCAA
22091436 GAAAGGAAAGCCTTTGT-GACACAATAT
1 GAAAGGAAAGCCTTTGTGGACACAATAT
* * ** *
22091463 GAAAGTAAAGCATTTGTGGTGA-ATTAT
1 GAAAGGAAAGCCTTTGTGGACACAATAT
** * * *
22091490 GAAAATAACGCCTTTCTAG-CACAATAT
1 GAAAGGAAAGCCTTTGTGGACACAATAT
* *
22091517 GAAAGGAAAGCCTTTATGG-CGCAATAT
1 GAAAGGAAAGCCTTTGTGGACACAATAT
* * *
22091544 AAAAGGAACGCTTTTGTGG-CA-AATCAT
1 GAAAGGAAAGCCTTTGTGGACACAAT-AT
* *
22091571 GAAGGGATAG-CTTTGTGG
1 GAAAGGAAAGCCTTTGTGG
22091589 CAAACCCTGC
Statistics
Matches: 95, Mismatches: 28, Indels: 7
0.73 0.22 0.05
Matches are distributed among these distances:
26 11 0.12
27 82 0.86
28 2 0.02
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.26
Consensus pattern (28 bp):
GAAAGGAAAGCCTTTGTGGACACAATAT
Found at i:22091554 original size:54 final size:55
Alignment explanation
Indices: 22091437--22091554 Score: 127
Period size: 54 Copynumber: 2.2 Consensus size: 55
22091427 ACATGTCAAG
* * * * *
22091437 AAAGGAAAGCCTTTGTGACACAATATGAAAGTAAAGCATTTGTGGTGAATTATGA
1 AAAGGAACGCCTTTCTGACACAATATGAAAGGAAAGCATTTATGGCGAATTATGA
* *
22091492 AAA-TAACGCCTTTCT-AGCACAATATGAAAGGAAAGCCTTTATGGCGCAA-TAT-A
1 AAAGGAACGCCTTTCTGA-CACAATATGAAAGGAAAGCATTTATGGCG-AATTATGA
22091545 AAAGGAACGC
1 AAAGGAACGC
22091555 TTTTGTGGCA
Statistics
Matches: 52, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
53 5 0.10
54 42 0.81
55 5 0.10
ACGTcount: A:0.41, C:0.14, G:0.21, T:0.24
Consensus pattern (55 bp):
AAAGGAACGCCTTTCTGACACAATATGAAAGGAAAGCATTTATGGCGAATTATGA
Found at i:22094301 original size:14 final size:14
Alignment explanation
Indices: 22094284--22094331 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 14
22094274 AGCAAAAAAA
22094284 ATAATATAATATTT
1 ATAATATAATATTT
*
22094298 ATAATATTTAACATTT
1 ATAATA--TAATATTT
22094314 ATAA-ATAATATTTT
1 ATAATATAATA-TTT
22094328 ATAA
1 ATAA
22094332 GTTATCCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
13 4 0.14
14 13 0.45
15 1 0.03
16 11 0.38
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (14 bp):
ATAATATAATATTT
Found at i:22094773 original size:14 final size:14
Alignment explanation
Indices: 22094737--22094766 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
22094727 ATGTTTATGC
*
22094737 TTATAATATAATTT
1 TTATAAAATAATTT
22094751 TTATAAAATAATTT
1 TTATAAAATAATTT
22094765 TT
1 TT
22094767 TTTAAATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TTATAAAATAATTT
Found at i:22094989 original size:53 final size:50
Alignment explanation
Indices: 22094840--22095020 Score: 157
Period size: 50 Copynumber: 3.6 Consensus size: 50
22094830 CAAACACTAC
* * * * * * * * *
22094840 TTATGAAAATAAGTAATTG-TTAAAAAAGTTATTTTTCAGATTCTTTTAG
1 TTATGAAAATTAGTATTTGCTAAAAAAAATTATCTTTCAAATCCATTTAA
* * *
22094889 TTATGAAAATTAGTATTTTCTAAAAATAATTATCTTTCAAATTCATTTAA
1 TTATGAAAATTAGTATTTGCTAAAAAAAATTATCTTTCAAATCCATTTAA
* * *
22094939 TTATAAAAATTTGTATTTGCTAAAAAAAATGGTCATCTTTCAAATCCATTTCA
1 TTATGAAAATTAGTATTTGCTAAAAAAAAT--T-ATCTTTCAAATCCATTTAA
* ** *
22094992 TTATGAAAGTCGGCATTTGCTAAAAAAAA
1 TTATGAAAATTAGTATTTGCTAAAAAAAA
22095021 GAGTTGCTTA
Statistics
Matches: 107, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
49 16 0.15
50 49 0.46
52 1 0.01
53 41 0.38
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (50 bp):
TTATGAAAATTAGTATTTGCTAAAAAAAATTATCTTTCAAATCCATTTAA
Found at i:22100236 original size:29 final size:29
Alignment explanation
Indices: 22100171--22100250 Score: 99
Period size: 31 Copynumber: 2.7 Consensus size: 29
22100161 ATCTCAAAAT
*
22100171 TATACATGAACTTTGATTTAATGTGCATTT
1 TATACATGAACTTTGATTTAA-GTGCATTA
22100201 TGATACATGAACTTTGATTTAA-TGCAATTA
1 T-ATACATGAACTTTGATTTAAGTGC-ATTA
*
22100231 TATACATGAAACTTTAATTT
1 TATACATG-AACTTTGATTT
22100251 TGATTAAATC
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
29 10 0.22
30 15 0.33
31 20 0.44
ACGTcount: A:0.35, C:0.10, G:0.11, T:0.44
Consensus pattern (29 bp):
TATACATGAACTTTGATTTAAGTGCATTA
Found at i:22101326 original size:29 final size:29
Alignment explanation
Indices: 22101281--22101338 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
22101271 TATTCCCTAA
22101281 CGAATTTCTATCAAAATCACAATTTTAGT
1 CGAATTTCTATCAAAATCACAATTTTAGT
*
22101310 CGAATTTCTATCGAAATCACAATTTTAGT
1 CGAATTTCTATCAAAATCACAATTTTAGT
22101339 TAATTCAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.36, C:0.17, G:0.09, T:0.38
Consensus pattern (29 bp):
CGAATTTCTATCAAAATCACAATTTTAGT
Found at i:22102323 original size:18 final size:18
Alignment explanation
Indices: 22102282--22102329 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
22102272 AGCAATTCAG
22102282 GTTGAGCTCGCATCTTTT
1 GTTGAGCTCGCATCTTTT
22102300 -TATGAGCTCGCA-CTTTT
1 GT-TGAGCTCGCATCTTTT
*
22102317 AGTTGAGCACGCA
1 -GTTGAGCTCGCA
22102330 AATGTAGAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 6 0.23
18 19 0.73
19 1 0.04
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (18 bp):
GTTGAGCTCGCATCTTTT
Found at i:22108562 original size:18 final size:18
Alignment explanation
Indices: 22108539--22108599 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
22108529 CAATTTAAGT
22108539 TGAGCTCGCATCTTTTTA-
1 TGAGCTCGCA-CTTTTTAG
22108557 TGAGCTCGCAC-TTTTAG
1 TGAGCTCGCACTTTTTAG
*
22108574 TTGAGCTCGCAAC-TTTTGG
1 -TGAGCTCGC-ACTTTTTAG
22108593 TGAGCTC
1 TGAGCTC
22108600 ACAAATGTAG
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
16 5 0.13
17 1 0.03
18 26 0.67
19 7 0.18
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (18 bp):
TGAGCTCGCACTTTTTAG
Found at i:22114738 original size:1 final size:1
Alignment explanation
Indices: 22114727--22114763 Score: 56
Period size: 1 Copynumber: 37.0 Consensus size: 1
22114717 AAGATGGAAG
* *
22114727 TTTTTTGTTTTTGTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
22114764 CGAATGTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.05, T:0.95
Consensus pattern (1 bp):
T
Found at i:22116840 original size:24 final size:24
Alignment explanation
Indices: 22116790--22116841 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
22116780 TTCGTAGGTC
**
22116790 AAATAAATTATATCAATAAATGTT
1 AAATAAATTATATCAATAAATACT
*
22116814 AAATATATTATA-CTAATAAATACT
1 AAATAAATTATATC-AATAAATACT
22116838 AAAT
1 AAAT
22116842 CTTCTCAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 1 0.04
24 23 0.96
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.37
Consensus pattern (24 bp):
AAATAAATTATATCAATAAATACT
Found at i:22124753 original size:13 final size:13
Alignment explanation
Indices: 22124737--22124792 Score: 96
Period size: 13 Copynumber: 4.3 Consensus size: 13
22124727 TTAAAATTAA
22124737 CAAAACACTTTTC
1 CAAAACACTTTTC
22124750 CAAAACACTTTTC
1 CAAAACACTTTTC
22124763 CAAAACACTTTT-
1 CAAAACACTTTTC
22124775 CAAAAGCACTTTTC
1 CAAAA-CACTTTTC
22124789 CAAA
1 CAAA
22124793 CCAAGCTTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
12 5 0.12
13 32 0.78
14 4 0.10
ACGTcount: A:0.41, C:0.29, G:0.02, T:0.29
Consensus pattern (13 bp):
CAAAACACTTTTC
Done.