Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 72 of 207
Found at i:20900288 original size:70 final size:70
Alignment explanation
Indices: 20900173--20900312 Score: 255
Period size: 70 Copynumber: 2.0 Consensus size: 70
20900163 GAAGTTTCAT
*
20900173 TAAAATTTATGAAGTGGTTTTAAAGTATTATATTTTTTTGGTAAATAATATCTCACTGAAATTTA
1 TAAAATTTATGAAGTGGTTTTAAAGTATTATATTTTTTTGATAAATAATATCTCACTGAAATTTA
20900238 TACGC
66 TACGC
20900243 TAAAATTTATGGAA-TGGTTTTAAAGTATTATATTTTTTTGATAAATAATATCTCACTGAAATTT
1 TAAAATTTAT-GAAGTGGTTTTAAAGTATTATATTTTTTTGATAAATAATATCTCACTGAAATTT
20900307 ATACGC
65 ATACGC
20900313 CATTTAACTT
Statistics
Matches: 68, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
70 65 0.96
71 3 0.04
ACGTcount: A:0.36, C:0.07, G:0.12, T:0.44
Consensus pattern (70 bp):
TAAAATTTATGAAGTGGTTTTAAAGTATTATATTTTTTTGATAAATAATATCTCACTGAAATTTA
TACGC
Found at i:20903021 original size:37 final size:37
Alignment explanation
Indices: 20902971--20903046 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
20902961 CTGAGAAAAG
20902971 TATATTTTCTGGGTCATGTTATCTATATTAATGGCAT
1 TATATTTTCTGGGTCATGTTATCTATATTAATGGCAT
20903008 TATATTTTCTGGGTCATGTTATCTATATTAATGGCAT
1 TATATTTTCTGGGTCATGTTATCTATATTAATGGCAT
20903045 TA
1 TA
20903047 AAGTAGATCC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.25, C:0.11, G:0.16, T:0.49
Consensus pattern (37 bp):
TATATTTTCTGGGTCATGTTATCTATATTAATGGCAT
Found at i:20904574 original size:16 final size:17
Alignment explanation
Indices: 20904511--20904592 Score: 61
Period size: 17 Copynumber: 5.0 Consensus size: 17
20904501 TATTCAAGTT
20904511 ATTATAAATATTATATCT-
1 ATTAT-AATATTATAT-TA
20904529 A-TATAATTATTATTATT-
1 ATTATAA-TATTA-TATTA
20904546 ATTAT--TATT-TATTA
1 ATTATAATATTATATTA
*
20904560 ATTGTAAT-TTATATTA
1 ATTATAATATTATATTA
*
20904576 ATTATATTATTATATTA
1 ATTATAATATTATATTA
20904593 TGGAATAAAG
Statistics
Matches: 53, Mismatches: 3, Indels: 17
0.73 0.04 0.23
Matches are distributed among these distances:
13 4 0.08
14 4 0.08
15 6 0.11
16 14 0.26
17 18 0.34
18 7 0.13
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (17 bp):
ATTATAATATTATATTA
Found at i:20905043 original size:10 final size:10
Alignment explanation
Indices: 20905028--20905073 Score: 62
Period size: 10 Copynumber: 4.8 Consensus size: 10
20905018 AACATAAAGT
20905028 AAATGAAATA
1 AAATGAAATA
20905038 AAATGAAATA
1 AAATGAAATA
20905048 AAA-GAAA-A
1 AAATGAAATA
20905056 CAAATGAAATA
1 -AAATGAAATA
20905067 AAA-GAAA
1 AAATGAAA
20905074 GAAAGAAACA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
8 1 0.03
9 11 0.33
10 20 0.61
11 1 0.03
ACGTcount: A:0.74, C:0.02, G:0.11, T:0.13
Consensus pattern (10 bp):
AAATGAAATA
Found at i:20905789 original size:3 final size:3
Alignment explanation
Indices: 20905781--20905815 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
20905771 GTGAGGTAAG
20905781 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
20905816 GTGAGAATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:20905981 original size:23 final size:22
Alignment explanation
Indices: 20905955--20906020 Score: 62
Period size: 23 Copynumber: 2.9 Consensus size: 22
20905945 TGTGAATTTG
* *
20905955 TGGATTAATTATTGATTGAAAGC
1 TGGATAAATTATTGATTGAAA-A
* *
20905978 TGGAAAAATGATTGAATTGAAAA
1 TGGATAAATTATTG-ATTGAAAA
20906001 TGTGATAAATTA-TGATTGAA
1 TG-GATAAATTATTGATTGAA
20906021 TTGGAGTTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
22 6 0.17
23 15 0.43
24 14 0.40
ACGTcount: A:0.42, C:0.02, G:0.21, T:0.35
Consensus pattern (22 bp):
TGGATAAATTATTGATTGAAAA
Found at i:20906218 original size:37 final size:38
Alignment explanation
Indices: 20906168--20906258 Score: 105
Period size: 37 Copynumber: 2.4 Consensus size: 38
20906158 CGGATAGTTT
* * *
20906168 CGATGAGGTACTGGGTACCAACTTT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTACCAACTTTGCTTCGAACTAT-C
* **
20906205 CGATGAGACACTGGGTGTCAACTTTGCTTCGAACTATC
1 CGATGAGGCACTGGGTACCAACTTTGCTTCGAACTATC
20906243 CGATGAGGCACTGGGT
1 CGATGAGGCACTGGGT
20906259 GCCATTCTGG
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
37 21 0.47
38 21 0.47
39 3 0.07
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.29
Consensus pattern (38 bp):
CGATGAGGCACTGGGTACCAACTTTGCTTCGAACTATC
Found at i:20906235 original size:38 final size:37
Alignment explanation
Indices: 20906168--20906262 Score: 111
Period size: 38 Copynumber: 2.5 Consensus size: 37
20906158 CGGATAGTTT
* * * *
20906168 CGATGAGGTACTGGGTACCAACTTTCTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTTTCTTCGAACTAT-C
* *
20906205 CGATGAGACACTGGGTGTCAACTTTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTTT-CTTCGAACTATC
20906243 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
20906263 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
37 21 0.44
38 24 0.50
39 3 0.06
ACGTcount: A:0.20, C:0.24, G:0.28, T:0.27
Consensus pattern (37 bp):
CGATGAGGCACTGGGTGCCAACTTTCTTCGAACTATC
Found at i:20909776 original size:20 final size:20
Alignment explanation
Indices: 20909736--20909779 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
20909726 GACGTGTTAC
* *
20909736 AATGAAAAAGAAGAGAAAAA
1 AATGAAAAAGAAAACAAAAA
*
20909756 AATGAAAAAGAAAACAGAAA
1 AATGAAAAAGAAAACAAAAA
20909776 AATG
1 AATG
20909780 GAGAGAGTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.73, C:0.02, G:0.18, T:0.07
Consensus pattern (20 bp):
AATGAAAAAGAAAACAAAAA
Found at i:20915015 original size:28 final size:27
Alignment explanation
Indices: 20914962--20915016 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 27
20914952 GTTCGACATC
*
20914962 AAAAGATATTTTTAATTAAAATTAAAT
1 AAAAGATATTTTTAATTAAAAGTAAAT
20914989 AAAA-ATATTTTTAAATTAAAAAGTAAAT
1 AAAAGATATTTTT-AATT-AAAAGTAAAT
20915017 CCAAGTTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 8 0.32
27 8 0.32
28 9 0.36
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (27 bp):
AAAAGATATTTTTAATTAAAAGTAAAT
Found at i:20917161 original size:16 final size:15
Alignment explanation
Indices: 20917138--20917171 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
20917128 CCCTAAGTGT
*
20917138 TGAAAATTTAAGTAC
1 TGAAAAATTAAGTAC
*
20917153 TGAAAAATTAAGTAT
1 TGAAAAATTAAGTAC
20917168 TGAA
1 TGAA
20917172 TTTAAGATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.03, G:0.15, T:0.32
Consensus pattern (15 bp):
TGAAAAATTAAGTAC
Found at i:20917730 original size:2 final size:2
Alignment explanation
Indices: 20917725--20917760 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
20917715 TTTTATTTGA
20917725 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
20917761 CTCCTAAACC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20921993 original size:41 final size:41
Alignment explanation
Indices: 20921934--20922012 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
20921924 GCCAGATGAC
* * *
20921934 TGTGTGCCAAACCGTGTGAGCCATAAGGGCGTGTGTCTGGT
1 TGTGTGCCAAACCATGTGAGACACAAGGGCGTGTGTCTGGT
* * *
20921975 TGTGTGTCAGACCATGTGAGACACACGGGCGTGTGTCT
1 TGTGTGCCAAACCATGTGAGACACAAGGGCGTGTGTCT
20922013 AGCTGCATGT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.18, C:0.20, G:0.35, T:0.27
Consensus pattern (41 bp):
TGTGTGCCAAACCATGTGAGACACAAGGGCGTGTGTCTGGT
Found at i:20922031 original size:41 final size:41
Alignment explanation
Indices: 20921960--20922043 Score: 98
Period size: 41 Copynumber: 2.0 Consensus size: 41
20921950 TGAGCCATAA
* * **
20921960 GGGCGTGTGTCTGGTTGTGTGTCAGACCATGTGAGACACAC
1 GGGCGTGTGTCTAGCTGCATGTCAGACCATGTGAGACACAC
* *
20922001 GGGCGTGTGTCTAGCTGCATGTCTAG-CCATGTGGGCCACAC
1 GGGCGTGTGTCTAGCTGCATGTC-AGACCATGTGAGACACAC
20922042 GG
1 GG
20922044 TCTAGACAGG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
41 34 0.94
42 2 0.06
ACGTcount: A:0.15, C:0.23, G:0.37, T:0.25
Consensus pattern (41 bp):
GGGCGTGTGTCTAGCTGCATGTCAGACCATGTGAGACACAC
Found at i:20929313 original size:27 final size:27
Alignment explanation
Indices: 20929274--20929326 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
20929264 CATGATAGTT
*
20929274 AAAGAACTGCCTTTGTGGCGAACTCTA
1 AAAGAACTACCTTTGTGGCGAACTCTA
*
20929301 AAAGAACTACCTTTGTGGTGAACTCT
1 AAAGAACTACCTTTGTGGCGAACTCT
20929327 GAATGAATGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (27 bp):
AAAGAACTACCTTTGTGGCGAACTCTA
Found at i:20931075 original size:16 final size:17
Alignment explanation
Indices: 20931045--20931078 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
20931035 TAATAATAAC
*
20931045 TCATCCAAGTAATTATT
1 TCATCCAACTAATTATT
20931062 TCATCCAACT-ATTATT
1 TCATCCAACTAATTATT
20931078 T
1 T
20931079 TTCTCCCCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.32, C:0.21, G:0.03, T:0.44
Consensus pattern (17 bp):
TCATCCAACTAATTATT
Found at i:20932477 original size:15 final size:15
Alignment explanation
Indices: 20932453--20932482 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
20932443 AACTTATAAT
*
20932453 GCTTAGTTTCAATGA
1 GCTTAATTTCAATGA
20932468 GCTTAATTTCAATGA
1 GCTTAATTTCAATGA
20932483 ATCCATTTCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (15 bp):
GCTTAATTTCAATGA
Found at i:20936696 original size:8 final size:9
Alignment explanation
Indices: 20936664--20936706 Score: 52
Period size: 9 Copynumber: 4.7 Consensus size: 9
20936654 TCTCTTGAGA
20936664 ATTTTTGTTC
1 ATTTTT-TTC
*
20936674 CTTTTTTTGC
1 ATTTTTTT-C
20936684 -TTTTTTTC
1 ATTTTTTTC
20936692 ATTTTTTTC
1 ATTTTTTTC
20936701 ATTTTT
1 ATTTTT
20936707 GGTGGTGAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
8 1 0.03
9 23 0.77
10 6 0.20
ACGTcount: A:0.07, C:0.12, G:0.05, T:0.77
Consensus pattern (9 bp):
ATTTTTTTC
Found at i:20936705 original size:18 final size:20
Alignment explanation
Indices: 20936664--20936707 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 20
20936654 TCTCTTGAGA
*
20936664 ATTTTTGTTCCTTTTTTTGC
1 ATTTTTGTTCATTTTTTTGC
20936684 -TTTTT-TTCATTTTTTT-C
1 ATTTTTGTTCATTTTTTTGC
20936701 ATTTTTG
1 ATTTTTG
20936708 GTGGTGAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
17 1 0.05
18 15 0.71
19 5 0.24
ACGTcount: A:0.07, C:0.11, G:0.07, T:0.75
Consensus pattern (20 bp):
ATTTTTGTTCATTTTTTTGC
Found at i:20938241 original size:44 final size:44
Alignment explanation
Indices: 20938173--20938304 Score: 210
Period size: 44 Copynumber: 3.0 Consensus size: 44
20938163 CCTCATTAAT
*
20938173 ATTAGCTCTTCTAGAGTTTTCAACTAATTTTGTACTACCAAATA
1 ATTAGCTCTTCTAGAGCTTTCAACTAATTTTGTACTACCAAATA
* * * *
20938217 ATTAACTCTTCTAGAGCTTTCAACTAATTTTATGCTGCCAAATA
1 ATTAGCTCTTCTAGAGCTTTCAACTAATTTTGTACTACCAAATA
*
20938261 ATTAGCTCTTCTAGAGCTTTCAACTAATTTTGAACTACCAAATA
1 ATTAGCTCTTCTAGAGCTTTCAACTAATTTTGTACTACCAAATA
20938305 TTACATTAAT
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 78 1.00
ACGTcount: A:0.33, C:0.20, G:0.09, T:0.39
Consensus pattern (44 bp):
ATTAGCTCTTCTAGAGCTTTCAACTAATTTTGTACTACCAAATA
Found at i:20939138 original size:2 final size:2
Alignment explanation
Indices: 20939131--20939162 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
20939121 AAATTGAGAG
20939131 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
20939163 TTTGCTTGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:20940679 original size:22 final size:23
Alignment explanation
Indices: 20940644--20940693 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
20940634 CATGGATGTA
* *
20940644 TTATGT-C-AATATAATTGATTG
1 TTATGTGCTAATATAAATGAATG
20940665 TT-TGTGCTAATATAAATGAATG
1 TTATGTGCTAATATAAATGAATG
20940687 TTATGTG
1 TTATGTG
20940694 TTAAAAGATG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 3 0.12
21 3 0.12
22 14 0.58
23 4 0.17
ACGTcount: A:0.32, C:0.04, G:0.18, T:0.46
Consensus pattern (23 bp):
TTATGTGCTAATATAAATGAATG
Found at i:20948421 original size:27 final size:28
Alignment explanation
Indices: 20948391--20948493 Score: 117
Period size: 27 Copynumber: 3.7 Consensus size: 28
20948381 TATTTCATTA
* *
20948391 AAATTATTAAAATTTATAAAAA-CTTAT
1 AAATTATTAAAATATATAAAAATCTAAT
20948418 AAA-TATTAAAAATATATAAAAATCTAAT
1 AAATTATT-AAAATATATAAAAATCTAAT
20948446 AAATTA-TAAAATATAT-AAAAT-TAAT
1 AAATTATTAAAATATATAAAAATCTAAT
20948471 AAAACTTATTTAAAATATATAAA
1 -AAA-TTA-TTAAAATATATAAA
20948494 TTTAAAAAAA
Statistics
Matches: 66, Mismatches: 2, Indels: 13
0.81 0.02 0.16
Matches are distributed among these distances:
25 4 0.06
26 12 0.18
27 28 0.42
28 8 0.12
29 12 0.18
30 2 0.03
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (28 bp):
AAATTATTAAAATATATAAAAATCTAAT
Found at i:20948447 original size:11 final size:10
Alignment explanation
Indices: 20948390--20948493 Score: 57
Period size: 10 Copynumber: 11.2 Consensus size: 10
20948380 TTATTTCATT
*
20948390 AAAAT-TATT
1 AAAATATATA
*
20948399 AAAATTTATA
1 AAAATATATA
20948409 AAAACT-TAT-
1 AAAA-TATATA
20948418 -AAATAT-TA
1 AAAATATATA
20948426 AAAATATATA
1 AAAATATATA
*
20948436 AAAATCTA-A
1 AAAATATATA
*
20948445 TAAAT-TAT-
1 AAAATATATA
20948453 AAAATATATA
1 AAAATATATA
*
20948463 AAATTA-ATA
1 AAAATATATA
* *
20948472 AAACT-TATTT
1 AAAATATA-TA
20948482 AAAATATATA
1 AAAATATATA
20948492 AA
1 AA
20948494 TTTAAAAAAA
Statistics
Matches: 74, Mismatches: 9, Indels: 23
0.70 0.08 0.22
Matches are distributed among these distances:
7 2 0.03
8 10 0.14
9 27 0.36
10 32 0.43
11 3 0.04
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (10 bp):
AAAATATATA
Found at i:20948484 original size:29 final size:28
Alignment explanation
Indices: 20948389--20948503 Score: 100
Period size: 27 Copynumber: 4.2 Consensus size: 28
20948379 ATTATTTCAT
*
20948389 TAAAATTA-TTAAAATTTATAAAAACTT-A
1 TAAAATTATTTAAAATATAT-AAAA-TTAA
*
20948417 T-AAA-TATTAAAAATATATAAAAATCTAA
1 TAAAATTATTTAAAATATAT-AAAAT-TAA
20948445 T-AAATTA--TAAAATATATAAAATTAA
1 TAAAATTATTTAAAATATATAAAATTAA
*
20948470 TAAAACTTATTTAAAATATATAAATTTAA
1 TAAAA-TTATTTAAAATATATAAAATTAA
*
20948499 AAAAA
1 TAAAA
20948504 ATAAAATTCT
Statistics
Matches: 74, Mismatches: 5, Indels: 15
0.79 0.05 0.16
Matches are distributed among these distances:
25 4 0.05
26 11 0.15
27 30 0.41
28 6 0.08
29 23 0.31
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (28 bp):
TAAAATTATTTAAAATATATAAAATTAA
Found at i:20948532 original size:21 final size:21
Alignment explanation
Indices: 20948506--20948550 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
20948496 TAAAAAAAAT
*
20948506 AAAATTCTTAAAAACTAATAA
1 AAAATTCTAAAAAACTAATAA
* * *
20948527 AAAATTGTAAAAAAGTATTAA
1 AAAATTCTAAAAAACTAATAA
20948548 AAA
1 AAA
20948551 TATTAAAATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.27
Consensus pattern (21 bp):
AAAATTCTAAAAAACTAATAA
Found at i:20948549 original size:10 final size:9
Alignment explanation
Indices: 20948387--20948558 Score: 63
Period size: 9 Copynumber: 18.8 Consensus size: 9
20948377 ATATTATTTC
*
20948387 ATTAAAATT
1 ATTAAAAAT
20948396 ATT-AAAAT
1 ATTAAAAAT
20948404 -TTATAAAA-
1 ATTA-AAAAT
*
20948412 ACTTATAAAT
1 A-TTAAAAAT
20948422 ATTAAAAAT
1 ATTAAAAAT
20948431 ATATAAAAAT
1 AT-TAAAAAT
* *
20948441 -CTAATAA-
1 ATTAAAAAT
20948448 ATTATAAAAT
1 ATTA-AAAAT
*
20948458 ATATAAAATT
1 AT-TAAAAAT
* *
20948468 AATAAAACTT
1 ATTAAAA-AT
*
20948478 ATTTAAAAT
1 ATTAAAAAT
*
20948487 A-TATAAAT
1 ATTAAAAAT
*
20948495 -TTAAAAAA
1 ATTAAAAAT
* *
20948503 AATAAAATT
1 ATTAAAAAT
*
20948512 CTTAAAAACT
1 ATTAAAAA-T
*
20948522 AATAAAAA-
1 ATTAAAAAT
20948530 ATTGTAAAAAAGT
1 A-T-T-AAAAA-T
20948543 ATTAAAAAT
1 ATTAAAAAT
20948552 ATTAAAA
1 ATTAAAA
20948559 TTGATATAAA
Statistics
Matches: 119, Mismatches: 25, Indels: 38
0.65 0.14 0.21
Matches are distributed among these distances:
7 2 0.02
8 22 0.18
9 47 0.39
10 38 0.32
11 8 0.07
12 1 0.01
13 1 0.01
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (9 bp):
ATTAAAAAT
Found at i:20948594 original size:19 final size:19
Alignment explanation
Indices: 20948390--20948594 Score: 69
Period size: 19 Copynumber: 11.1 Consensus size: 19
20948380 TTATTTCATT
*
20948390 AAAATTAT-TAAAATTTATA
1 AAAATTATATAAAA-ATATA
* *
20948409 AAAACT-TATAAATAT-TA
1 AAAATTATATAAAAATATA
*
20948426 AAAA-TATATAAAAATCTA
1 AAAATTATATAAAAATATA
*
20948444 ATAAATTATA-AAATATAT-
1 A-AAATTATATAAAAATATA
* *
20948462 AAAATTA-ATAAAACTTATTT
1 AAAATTATATAAAA-ATA-TA
*
20948482 AAAA-TATAT--AAATTTA
1 AAAATTATATAAAAATATA
* * *
20948498 AAAA--AAATAAAATTCTTA
1 AAAATTATATAAAAAT-ATA
* *
20948516 AAAACTA-ATAAAAAATTGTAA
1 AAAATTATAT-AAAAA-TAT-A
* *
20948537 AAAAGTAT-TAAAAATATT
1 AAAATTATATAAAAATATA
**
20948555 AAAATTGATATAAACTTATA
1 AAAATT-ATATAAAAATATA
*
20948575 AAAATTATATAAAAAAATA
1 AAAATTATATAAAAATATA
20948594 A
1 A
20948595 TACAAACTTG
Statistics
Matches: 140, Mismatches: 25, Indels: 42
0.68 0.12 0.20
Matches are distributed among these distances:
15 3 0.02
16 7 0.05
17 27 0.19
18 22 0.16
19 38 0.27
20 34 0.24
21 9 0.06
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.33
Consensus pattern (19 bp):
AAAATTATATAAAAATATA
Found at i:20948983 original size:9 final size:9
Alignment explanation
Indices: 20948971--20949214 Score: 76
Period size: 9 Copynumber: 26.6 Consensus size: 9
20948961 TGATTTTCTA
*
20948971 ATAACTTTT
1 ATAATTTTT
*
20948980 ATAAGTTTAT
1 ATAA-TTTTT
* *
20948990 ATCAGTTTTA
1 AT-AATTTTT
*
20949000 ATATTTTTT
1 ATAATTTTT
20949009 ATAATTTTT
1 ATAATTTTT
*
20949018 ATTATTTTT
1 ATAATTTTT
*
20949027 ATAGAATTTTA
1 AT--AATTTTT
*
20949038 ATATGTTTTT
1 ATA-ATTTTT
*
20949048 ATAAAATTTT
1 AT-AATTTTT
* *
20949058 AAACATTTTA
1 ATA-ATTTTT
20949068 ACT-ATGTTTT
1 A-TAAT-TTTT
20949078 ATCAA-TTTT
1 AT-AATTTTT
20949087 ATAA--TTT
1 ATAATTTTT
20949094 -T--TTTTT
1 ATAATTTTT
20949100 ATAATTTATT
1 ATAATTT-TT
*
20949110 AGAATTTTT
1 ATAATTTTT
20949119 AT-ATTTTT
1 ATAATTTTT
*
20949127 ATAATATTT
1 ATAATTTTT
*
20949136 ACAATTTTTT
1 ATAA-TTTTT
**
20949146 ATAAGTTCAT
1 ATAA-TTTTT
20949156 ATAGATTTTT
1 ATA-ATTTTT
*
20949166 ATATTTTTT
1 ATAATTTTT
* *
20949175 AAAATATTTA
1 ATAAT-TTTT
*
20949185 ATAA-ATTT
1 ATAATTTTT
*
20949193 AT-TTTTTT
1 ATAATTTTT
* *
20949201 GTGATTTTT
1 ATAATTTTT
20949210 ATAAT
1 ATAAT
20949215 AATTTTAATG
Statistics
Matches: 168, Mismatches: 44, Indels: 46
0.65 0.17 0.18
Matches are distributed among these distances:
6 4 0.02
7 4 0.02
8 18 0.11
9 68 0.40
10 63 0.38
11 11 0.07
ACGTcount: A:0.34, C:0.03, G:0.04, T:0.59
Consensus pattern (9 bp):
ATAATTTTT
Found at i:20949017 original size:19 final size:19
Alignment explanation
Indices: 20948995--20949059 Score: 78
Period size: 19 Copynumber: 3.3 Consensus size: 19
20948985 TTTATATCAG
*
20948995 TTTTAATATTTTTTATAAT
1 TTTTAATATTTTTTATAAA
*
20949014 TTTTATTA-TTTTTATAGAA
1 TTTTAATATTTTTTATA-AA
20949033 TTTTAATATGTTTTTATAAAA
1 TTTTAATAT-TTTTTAT-AAA
20949054 TTTTAA
1 TTTTAA
20949060 ACATTTTAAC
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
18 8 0.21
19 15 0.38
21 15 0.38
22 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (19 bp):
TTTTAATATTTTTTATAAA
Found at i:20949119 original size:19 final size:18
Alignment explanation
Indices: 20949095--20949144 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
20949085 TTATAATTTT
20949095 TTTTTATAATTTATTAGAA
1 TTTTTATAATTT-TTAGAA
*
20949114 TTTTTAT-ATTTTTATAA
1 TTTTTATAATTTTTAGAA
* *
20949131 TATTTACAATTTTT
1 TTTTTATAATTTTT
20949145 TATAAGTTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 10 0.37
18 10 0.37
19 7 0.26
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (18 bp):
TTTTTATAATTTTTAGAA
Found at i:20949181 original size:48 final size:46
Alignment explanation
Indices: 20949094--20949184 Score: 130
Period size: 48 Copynumber: 1.9 Consensus size: 46
20949084 TTTATAATTT
* *
20949094 TTTTTTATAATTTATTAGAATTTTTATATTTTTATAATATTTACAA
1 TTTTTTATAATTCATTAGAATTTTTATATTTTTAAAATATTTACAA
20949140 TTTTTTATAAGTTCATATAG-ATTTTTATATTTTTTAAAATATTTA
1 TTTTTTATAA-TTCAT-TAGAATTTTTATA-TTTTTAAAATATTTA
20949185 ATAAATTTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
46 10 0.25
47 13 0.32
48 17 0.43
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.60
Consensus pattern (46 bp):
TTTTTTATAATTCATTAGAATTTTTATATTTTTAAAATATTTACAA
Found at i:20956728 original size:3 final size:3
Alignment explanation
Indices: 20956720--20956750 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
20956710 CCCACCATTA
20956720 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
20956751 AGAATTGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:20957336 original size:16 final size:18
Alignment explanation
Indices: 20957310--20957346 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
20957300 GTCATTGTGG
20957310 AAATAATAGCACAT-ATC
1 AAATAATAGCACATAATC
*
20957327 AAAT-ATAGCATATAATC
1 AAATAATAGCACATAATC
20957344 AAA
1 AAA
20957347 CTCAACTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.57, C:0.14, G:0.05, T:0.24
Consensus pattern (18 bp):
AAATAATAGCACATAATC
Found at i:20960774 original size:29 final size:28
Alignment explanation
Indices: 20960725--20960791 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 28
20960715 GATGGAGAAG
20960725 AAGTATAAACATATTGAGCCATTTACGCAAA
1 AAGTA-AAA-ATATTGAGCCATTTACG-AAA
*
20960756 AAGTAAAAATATT-AGGCCATTTATGAAA
1 AAGTAAAAATATTGA-GCCATTTACGAAA
20960784 AA-TAAAAA
1 AAGTAAAAA
20960792 AAAGGACAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
27 6 0.18
28 6 0.18
29 14 0.41
30 3 0.09
31 5 0.15
ACGTcount: A:0.52, C:0.10, G:0.12, T:0.25
Consensus pattern (28 bp):
AAGTAAAAATATTGAGCCATTTACGAAA
Found at i:20960957 original size:31 final size:31
Alignment explanation
Indices: 20960919--20960997 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
20960909 TTAATGAGTG
20960919 ACTGATTTGTTACTTTTCGATAACATTAGAA
1 ACTGATTTGTTACTTTTCGATAACATTAGAA
* * **
20960950 ACTGATTTGTCACTTTTCGATAACGTTAGTG
1 ACTGATTTGTTACTTTTCGATAACATTAGAA
*
20960981 ACTGATTTGTTATTTTT
1 ACTGATTTGTTACTTTT
20960998 TTAAAGTTGA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.25, C:0.13, G:0.15, T:0.47
Consensus pattern (31 bp):
ACTGATTTGTTACTTTTCGATAACATTAGAA
Found at i:20968508 original size:83 final size:84
Alignment explanation
Indices: 20968376--20968584 Score: 251
Period size: 83 Copynumber: 2.5 Consensus size: 84
20968366 CAATACATAA
* * * * * *** *
20968376 AACTACTCATAACCCTTCTCTAACCGATAAATAATAACATAATGTGCTTCAGCGCACTCAAACCC
1 AACTACTCATTACCCCTCCCCAACCGATAAATAGTAACATAACACGCTTCAGCACACTCAAACCC
*
20968441 -TTTTTACACAATGCTTAG
66 TTTTTTACAAAATGCTTAG
* *
20968459 AACTACTCATT-CTCCCTCCCCAACCGATAAATAGTAAGATAACACGCTTCAGCACACTCGAACC
1 AACTACTCATTAC-CCCTCCCCAACCGATAAATAGTAACATAACACGCTTCAGCACACTCAAACC
*
20968523 CTTTTTTACAAAATGCTTCG
65 CTTTTTTACAAAATGCTTAG
* **
20968543 AACTACTCGTTACCCCTCCCCAACTAATAAATAGTAACATAA
1 AACTACTCATTACCCCTCCCCAACCGATAAATAGTAACATAA
20968585 TGTGTTTCAG
Statistics
Matches: 106, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
82 1 0.01
83 52 0.49
84 52 0.49
85 1 0.01
ACGTcount: A:0.35, C:0.30, G:0.08, T:0.27
Consensus pattern (84 bp):
AACTACTCATTACCCCTCCCCAACCGATAAATAGTAACATAACACGCTTCAGCACACTCAAACCC
TTTTTTACAAAATGCTTAG
Found at i:20968594 original size:84 final size:83
Alignment explanation
Indices: 20968397--20968602 Score: 261
Period size: 84 Copynumber: 2.5 Consensus size: 83
20968387 ACCCTTCTCT
* * * *
20968397 AACCGATAAATAATAACATAATGTGCTTCAGCGCACTCAAACCCTTTTTACACAATGCTTAGAAC
1 AACCAATAAATAGTAACATAATGTGCTTCAGCGCACTCGAACCCTTTTTACAAAATGCTTAGAAC
20968462 TACTCATTCTCCCTCCCC
66 TACTCATTCTCCCTCCCC
* * *** * *
20968480 AACCGATAAATAGTAAGATAACACGCTTCAGCACACTCGAACCCTTTTTTACAAAATGCTTCGAA
1 AACCAATAAATAGTAACATAATGTGCTTCAGCGCACTCGAACCC-TTTTTACAAAATGCTTAGAA
*
20968545 CTACTCGTTAC-CCCTCCCC
65 CTACTCATT-CTCCCTCCCC
* *
20968564 AACTAATAAATAGTAACATAATGTGTTTCAGCGCACTCG
1 AACCAATAAATAGTAACATAATGTGCTTCAGCGCACTCG
20968603 GACACTTGGG
Statistics
Matches: 103, Mismatches: 18, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
83 37 0.36
84 65 0.63
85 1 0.01
ACGTcount: A:0.33, C:0.29, G:0.11, T:0.27
Consensus pattern (83 bp):
AACCAATAAATAGTAACATAATGTGCTTCAGCGCACTCGAACCCTTTTTACAAAATGCTTAGAAC
TACTCATTCTCCCTCCCC
Found at i:20969784 original size:19 final size:19
Alignment explanation
Indices: 20969757--20969801 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
20969747 ATTAATTAAC
20969757 TTTTT-ATAATTTTATAT-A
1 TTTTTAATAATTTTA-ATGA
20969775 TTTTTAATAATTTTAATGA
1 TTTTTAATAATTTTAATGA
20969794 TTTTTAAT
1 TTTTTAAT
20969802 TTTTTAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.28
19 18 0.72
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
TTTTTAATAATTTTAATGA
Found at i:20969806 original size:9 final size:9
Alignment explanation
Indices: 20969757--20969808 Score: 54
Period size: 10 Copynumber: 5.8 Consensus size: 9
20969747 ATTAATTAAC
20969757 TTTTT-ATA
1 TTTTTAATA
*
20969765 ATTTTATATA
1 TTTTTA-ATA
20969775 TTTTTAATA
1 TTTTTAATA
*
20969784 ATTTTAATGA
1 TTTTTAAT-A
20969794 TTTTTAAT-
1 TTTTTAATA
20969802 TTTTTAA
1 TTTTTAA
20969809 AAATTAATCA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
8 11 0.30
9 10 0.27
10 16 0.43
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (9 bp):
TTTTTAATA
Found at i:20970241 original size:59 final size:59
Alignment explanation
Indices: 20970165--20970331 Score: 201
Period size: 59 Copynumber: 2.8 Consensus size: 59
20970155 ATTGTTCCGT
***
20970165 TTTTTTAGTCACCCAACTATCAATTCTTTTAATTTGGTCATTTAACTATTGC-AATTTTC
1 TTTTTTAGTCA-CCAACTATCAATTCTTTTAATTTGGTCACCCAACTATTGCTAATTTTC
* * **
20970224 TTTTTTAATCACTCAACTATCAGTTCTTTTAATTTGGTCACCCAACTATTGCTCTTTTTC
1 TTTTTTAGTCAC-CAACTATCAATTCTTTTAATTTGGTCACCCAACTATTGCTAATTTTC
* * * *
20970284 TTTTTTTGTCACCTAACTATCATTTTTTTTAATTTGATCACCCAACTA
1 TTTTTTAGTCACC-AACTATCAATTCTTTTAATTTGGTCACCCAACTA
20970332 ATCAAAATTG
Statistics
Matches: 93, Mismatches: 12, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
58 1 0.01
59 46 0.49
60 46 0.49
ACGTcount: A:0.24, C:0.21, G:0.06, T:0.49
Consensus pattern (59 bp):
TTTTTTAGTCACCAACTATCAATTCTTTTAATTTGGTCACCCAACTATTGCTAATTTTC
Found at i:20970314 original size:60 final size:59
Alignment explanation
Indices: 20970164--20970331 Score: 194
Period size: 60 Copynumber: 2.8 Consensus size: 59
20970154 TATTGTTCCG
* ***
20970164 TTTTTTTAGTCACCCAACTATCAATTCTTTTAATTTGGTCATTTAACTATTGCAATTTTC
1 TTTTTTT-GTCACCTAACTATCAATTCTTTTAATTTGGTCACCCAACTATTGCAATTTTC
** * **
20970224 TTTTTTAATCA-CTCAACTATCAGTTCTTTTAATTTGGTCACCCAACTATTGCTCTTTTTC
1 TTTTTTTGTCACCT-AACTATCAATTCTTTTAATTTGGTCACCCAACTATTGC-AATTTTC
* * *
20970284 TTTTTTTGTCACCTAACTATCATTTTTTTTAATTTGATCACCCAACTA
1 TTTTTTTGTCACCTAACTATCAATTCTTTTAATTTGGTCACCCAACTA
20970332 ATCAAAATTG
Statistics
Matches: 91, Mismatches: 14, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
58 1 0.01
59 37 0.41
60 51 0.56
61 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.06, T:0.49
Consensus pattern (59 bp):
TTTTTTTGTCACCTAACTATCAATTCTTTTAATTTGGTCACCCAACTATTGCAATTTTC
Found at i:20970324 original size:29 final size:29
Alignment explanation
Indices: 20970173--20970331 Score: 92
Period size: 29 Copynumber: 5.4 Consensus size: 29
20970163 GTTTTTTTAG
* * *
20970173 TCACCCAACTATCAATTCTTTTAATTTGG
1 TCACCCAACTATCATTTTTTTTAATTTGA
*** * *
20970202 TCATTTAACTATTGCAATTTTCTTT--TTTAA
1 TCACCCAACTA-T-C-ATTTTTTTTAATTTGA
* * * *
20970232 TCACTCAACTATCAGTTCTTTTAATTTGG
1 TCACCCAACTATCATTTTTTTTAATTTGA
**
20970261 TCACCCAACTATTGC-TCTTTTTCTTTTTTTG-
1 TCACCCAACTA-T-CAT-TTTTT-TTAATTTGA
*
20970292 TCACCTAACTATCATTTTTTTTAATTTGA
1 TCACCCAACTATCATTTTTTTTAATTTGA
20970321 TCACCCAACTA
1 TCACCCAACTA
20970332 ATCAAAATTG
Statistics
Matches: 95, Mismatches: 24, Indels: 22
0.67 0.17 0.16
Matches are distributed among these distances:
27 6 0.06
28 7 0.07
29 38 0.40
30 16 0.17
31 16 0.17
32 12 0.13
ACGTcount: A:0.25, C:0.22, G:0.06, T:0.48
Consensus pattern (29 bp):
TCACCCAACTATCATTTTTTTTAATTTGA
Found at i:20983892 original size:10 final size:10
Alignment explanation
Indices: 20983877--20983936 Score: 57
Period size: 10 Copynumber: 5.7 Consensus size: 10
20983867 CAGTGGGGGC
*
20983877 AAAAAAAGTA
1 AAAAAAAGCA
*
20983887 AAAAAAAGTA
1 AAAAAAAGCA
*
20983897 AAAAAACGAGAA
1 AAAAAA--AGCA
20983909 AATAAAAAGCA
1 AA-AAAAAGCA
*
20983920 AAAAAAAACA
1 AAAAAAAGCA
20983930 AAAAAAA
1 AAAAAAA
20983937 ACCAAATAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
10 30 0.68
11 5 0.11
12 5 0.11
13 4 0.09
ACGTcount: A:0.82, C:0.05, G:0.08, T:0.05
Consensus pattern (10 bp):
AAAAAAAGCA
Found at i:20983893 original size:11 final size:11
Alignment explanation
Indices: 20983877--20983947 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
20983867 CAGTGGGGGC
*
20983877 AAAAAAAG-TA
1 AAAAAAAGCAA
*
20983887 AAAAAAAGTAA
1 AAAAAAAGCAA
*
20983898 AAAAACGAG-AA
1 AAAAA-AAGCAA
20983909 AATAAAAAGCAA
1 AA-AAAAAGCAA
20983921 AAAAAAA-CAA
1 AAAAAAAGCAA
*
20983931 AAAAAAACCAA
1 AAAAAAAGCAA
20983942 ATAAAA
1 A-AAAA
20983948 GAAAAACCTC
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
10 18 0.35
11 21 0.40
12 13 0.25
ACGTcount: A:0.80, C:0.07, G:0.07, T:0.06
Consensus pattern (11 bp):
AAAAAAAGCAA
Found at i:20984398 original size:15 final size:14
Alignment explanation
Indices: 20984378--20984435 Score: 62
Period size: 15 Copynumber: 3.9 Consensus size: 14
20984368 ATACTTCACT
20984378 TGAAAAAAAACAAAA
1 TGAAAAAAAA-AAAA
*
20984393 TGAAAAATGAAAAAA
1 TGAAAAA-AAAAAAA
20984408 TGAAAAAAGAAAAAA
1 TGAAAAAA-AAAAAA
*
20984423 AGAAAAAGAAAAA
1 TGAAAAA-AAAAA
20984436 TGAGAGGCCA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
15 34 0.92
16 3 0.08
ACGTcount: A:0.79, C:0.02, G:0.12, T:0.07
Consensus pattern (14 bp):
TGAAAAAAAAAAAA
Found at i:20984399 original size:7 final size:7
Alignment explanation
Indices: 20984389--20984438 Score: 57
Period size: 7 Copynumber: 7.0 Consensus size: 7
20984379 GAAAAAAAAC
20984389 AAAATGA
1 AAAATGA
20984396 AAAATGAA
1 AAAATG-A
20984404 AAAATGA
1 AAAATGA
*
20984411 AAAAAGAA
1 AAAATG-A
*
20984419 AAAAAGA
1 AAAATGA
20984426 AAAA-GA
1 AAAATGA
20984432 AAAATGA
1 AAAATGA
20984439 GAGGCCAAGG
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
6 6 0.15
7 19 0.49
8 14 0.36
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.08
Consensus pattern (7 bp):
AAAATGA
Found at i:20984406 original size:8 final size:8
Alignment explanation
Indices: 20984389--20984429 Score: 59
Period size: 8 Copynumber: 5.4 Consensus size: 8
20984379 GAAAAAAAAC
20984389 AAAATG-A
1 AAAATGAA
20984396 AAAATGAA
1 AAAATGAA
20984404 AAAATGAA
1 AAAATGAA
20984412 AAAA-GAA
1 AAAATGAA
*
20984419 AAAAAGAA
1 AAAATGAA
20984427 AAA
1 AAA
20984430 GAAAAATGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
7 13 0.41
8 19 0.59
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.07
Consensus pattern (8 bp):
AAAATGAA
Found at i:20984961 original size:108 final size:108
Alignment explanation
Indices: 20984772--20984967 Score: 320
Period size: 108 Copynumber: 1.8 Consensus size: 108
20984762 TTTGTATTCT
*
20984772 AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAACAAATTTTCATCTT
1 AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAACAAAATTTCATCTT
20984837 ATCCATTGTGATAATCTTTTTCATCTTATTCATCTCGTATCTC
66 ATCCATTGTGATAATCTTTTTCATCTTATTCATCTCGTATCTC
* * ** *
20984880 AGCAAAATTTTCTATCTTGATTGATTTGTTTGTTTAGAGCTTTGCTCTCAACAAAATTTCATTTT
1 AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAACAAAATTTCATCTT
* *
20984945 GTCCATTTTGATAATCTTTTTCA
66 ATCCATTGTGATAATCTTTTTCA
20984968 AGCATTTTTC
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
108 80 1.00
ACGTcount: A:0.25, C:0.17, G:0.10, T:0.47
Consensus pattern (108 bp):
AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAACAAAATTTCATCTT
ATCCATTGTGATAATCTTTTTCATCTTATTCATCTCGTATCTC
Found at i:20985579 original size:132 final size:132
Alignment explanation
Indices: 20985342--20986231 Score: 1530
Period size: 132 Copynumber: 6.7 Consensus size: 132
20985332 AGGCGTAAAT
*
20985342 AGGTCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGG
1 AGGTCCTATCTTCCTATATTGATAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGG
20985407 TGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTA
66 TGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTA
20985472 GC
131 GC
*
20985474 AGGTCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGG
1 AGGTCCTATCTTCCTATATTGATAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGG
*
20985539 TGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTA
66 TGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTA
20985604 GC
131 GC
* * *
20985606 AGATCCTATCTTCCTATATTGTTAGGAAGTGGGTCGAAGATGCAGATCTTGTCTTCCCATATTGG
1 AGGTCCTATCTTCCTATATTGATAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGG
* *
20985671 TGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATA
66 TGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTA
*
20985736 GT
131 GC
* **
20985738 AGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATATAGATCTTGTCTTCCCATATTGG
1 AGGTCCTATCTTCCTATATTGATAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGG
*
20985803 TGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTA
66 TGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTA
20985868 GC
131 GC
* * **
20985870 AGATCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATATAGATCTTGTCTTCCCATATTGG
1 AGGTCCTATCTTCCTATATTGATAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGG
20985935 TGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTA
66 TGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTA
20986000 GC
131 GC
* *
20986002 AGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGG
1 AGGTCCTATCTTCCTATATTGATAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGG
* *
20986067 TGGCGAAGTAAATC-ACAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAT
66 TGGCGAAGTAGATCGA-AGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGT
20986131 AGC
130 AGC
* * *
20986134 AGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATACAGATCTTGTCTTCCCATACTGG
1 AGGTCCTATCTTCCTATATTGATAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGG
* *
20986199 TGGTGAAGTAGATCGAAGAAAGTAGATCTTGTC
66 TGGCGAAGTAGATCGAAGAAAGCAGATCTTGTC
20986232 CCTGTATTTG
Statistics
Matches: 722, Mismatches: 34, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
131 1 0.00
132 720 1.00
133 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (132 bp):
AGGTCCTATCTTCCTATATTGATAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGG
TGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTA
GC
Found at i:20986487 original size:130 final size:130
Alignment explanation
Indices: 20986295--20986562 Score: 421
Period size: 130 Copynumber: 2.1 Consensus size: 130
20986285 TTGGCAGCGA
*
20986295 AGCAGATCGACGATGGCGGATTTTACCTCCCCGATTACGGTGGAGTACATTAAAGCCAGTAGTTC
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCCGATTACGGTGGAGTACATTAAAGCCAGTAGTTC
* ** *
20986360 TATCTCCCTGGGCAACAGTGGAATAGAGTGAAGATTACAGATCTTATCTCCCTAAGTAATAGTGG
66 TATCTCCCGGGGCAACAGTGGAATAGAGTGAAGAGCACAGATCTTATCTCCCTAAGCAATAGTGG
* * **
20986425 AGCAGGTCGAAGATGGCGGATTTTACCTCCCTGATTACGGTGGAGTACA-TAGAAGCTGGTAGTT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCCGATTACGGTGGAGTACATTA-AAGCCAGTAGTT
* *
20986489 CTATCTCTCGGGGCAACAGTGGAATAGAGTGAAGAGCACAGATCTTATCTCCCTAAGCAGTAGTG
65 CTATCTCCCGGGGCAACAGTGGAATAGAGTGAAGAGCACAGATCTTATCTCCCTAAGCAATAGTG
20986554 G
130 G
20986555 AGCAGATC
1 AGCAGATC
20986563 ACATCCAGTC
Statistics
Matches: 125, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
129 2 0.02
130 123 0.98
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (130 bp):
AGCAGATCGAAGATGGCGGATTTTACCTCCCCGATTACGGTGGAGTACATTAAAGCCAGTAGTTC
TATCTCCCGGGGCAACAGTGGAATAGAGTGAAGAGCACAGATCTTATCTCCCTAAGCAATAGTGG
Found at i:20994932 original size:44 final size:44
Alignment explanation
Indices: 20994869--20994956 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
20994859 ATGCCAAGGC
20994869 ACGAGCAACAACCCGGGGTGACAAGCTTGTGTATCCATTCTTAG
1 ACGAGCAACAACCCGGGGTGACAAGCTTGTGTATCCATTCTTAG
20994913 ACGAGCAACAACCCGGGGTGACAAGCTTGTGTATCCATTCTTAG
1 ACGAGCAACAACCCGGGGTGACAAGCTTGTGTATCCATTCTTAG
20994957 TCTGTGTCTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23
Consensus pattern (44 bp):
ACGAGCAACAACCCGGGGTGACAAGCTTGTGTATCCATTCTTAG
Found at i:20996868 original size:14 final size:14
Alignment explanation
Indices: 20996851--20997048 Score: 148
Period size: 14 Copynumber: 14.1 Consensus size: 14
20996841 ATAAACCTGT
*
20996851 ATCTATGAATCCAC
1 ATCTATGAATCTAC
*
20996865 ATCTATGAATCTAT
1 ATCTATGAATCTAC
*
20996879 ATCTATGAATCTGC
1 ATCTATGAATCTAC
*
20996893 ATCTATGAATCCAC
1 ATCTATGAATCTAC
***
20996907 ATCTATGAATCCGT
1 ATCTATGAATCTAC
* * *
20996921 ATATAAGAATCTGC
1 ATCTATGAATCTAC
**
20996935 ATCTATGAATCTGT
1 ATCTATGAATCTAC
20996949 ATCTATGAATCTAC
1 ATCTATGAATCTAC
** *
20996963 ATGGATAAATCTAC
1 ATCTATGAATCTAC
*
20996977 ATCTATGAATCCAC
1 ATCTATGAATCTAC
* * *
20996991 ATGTATGGAT-TCGC
1 ATCTATGAATCT-AC
*
20997005 ATCTATGAATCTGC
1 ATCTATGAATCTAC
* *
20997019 ATGTATAGATTC-AC
1 ATCTAT-GAATCTAC
* *
20997033 ATTTATAAATCTAC
1 ATCTATGAATCTAC
20997047 AT
1 AT
20997049 GTAAGAGTCT
Statistics
Matches: 144, Mismatches: 36, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
13 3 0.02
14 136 0.94
15 5 0.03
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.35
Consensus pattern (14 bp):
ATCTATGAATCTAC
Found at i:20997016 original size:42 final size:42
Alignment explanation
Indices: 20996837--20997048 Score: 185
Period size: 42 Copynumber: 5.0 Consensus size: 42
20996827 GACATTCTGT
* * * *
20996837 ATCTATAAACCTGTATCTATGAATCCACATCTATGAATCTAT
1 ATCTATGAATCTGCATCTATGAATCCACATCTATGAATCTAC
***
20996879 ATCTATGAATCTGCATCTATGAATCCACATCTATGAATCCGT
1 ATCTATGAATCTGCATCTATGAATCCACATCTATGAATCTAC
* * ***
20996921 ATATAAGAATCTGCATCTATGAATCTGTATCTATGAATCTAC
1 ATCTATGAATCTGCATCTATGAATCCACATCTATGAATCTAC
** * * * * *
20996963 ATGGATAAATCTACATCTATGAATCCACATGTATGGAT-TCGC
1 ATCTATGAATCTGCATCTATGAATCCACATCTATGAATCT-AC
* * * *
20997005 ATCTATGAATCTGCATGTAT-AGATTCACATTTATAAATCTAC
1 ATCTATGAATCTGCATCTATGA-ATCCACATCTATGAATCTAC
20997047 AT
1 AT
20997049 GTAAGAGTCT
Statistics
Matches: 133, Mismatches: 34, Indels: 6
0.77 0.20 0.03
Matches are distributed among these distances:
41 2 0.02
42 130 0.98
43 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.35
Consensus pattern (42 bp):
ATCTATGAATCTGCATCTATGAATCCACATCTATGAATCTAC
Found at i:21010844 original size:20 final size:20
Alignment explanation
Indices: 21010821--21010924 Score: 73
Period size: 20 Copynumber: 5.2 Consensus size: 20
21010811 AGTACTAGCA
21010821 GCTTGTCTGCAATACTGGTG
1 GCTTGTCTGCAATACTGGTG
*** **
21010841 GCTTGTCCATAATACTGGCA
1 GCTTGTCTGCAATACTGGTG
* * *
21010861 GTTTGTCTGTAATACTAGTG
1 GCTTGTCTGCAATACTGGTG
* * * **
21010881 GCTTATCTACAATACTAGCA
1 GCTTGTCTGCAATACTGGTG
* *
21010901 GTTTATCTGCAATACTGGTG
1 GCTTGTCTGCAATACTGGTG
21010921 GCTT
1 GCTT
21010925 ATCCACAAAT
Statistics
Matches: 61, Mismatches: 23, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (20 bp):
GCTTGTCTGCAATACTGGTG
Found at i:21010882 original size:40 final size:40
Alignment explanation
Indices: 21010813--21010932 Score: 168
Period size: 40 Copynumber: 3.0 Consensus size: 40
21010803 AAGGAGGAAG
* * *
21010813 TACTAGCAGCTTGTCTGCAATACTGGTGGCTTGTCCATAA
1 TACTAGCAGTTTGTCTGCAATACTGGTGGCTTATCCACAA
* * * *
21010853 TACTGGCAGTTTGTCTGTAATACTAGTGGCTTATCTACAA
1 TACTAGCAGTTTGTCTGCAATACTGGTGGCTTATCCACAA
*
21010893 TACTAGCAGTTTATCTGCAATACTGGTGGCTTATCCACAA
1 TACTAGCAGTTTGTCTGCAATACTGGTGGCTTATCCACAA
21010933 ATTGGTATGT
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 68 1.00
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (40 bp):
TACTAGCAGTTTGTCTGCAATACTGGTGGCTTATCCACAA
Found at i:21015381 original size:26 final size:26
Alignment explanation
Indices: 21015345--21015397 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
21015335 TAGTCCTAAG
*
21015345 TCCGTTTAGTCAAACAAGGGTTTTAA
1 TCCGTTTAGTCAAACAAAGGTTTTAA
21015371 TCCGTTTAGTCAAACAAAGGTTTTAA
1 TCCGTTTAGTCAAACAAAGGTTTTAA
21015397 T
1 T
21015398 AAGAAATTGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (26 bp):
TCCGTTTAGTCAAACAAAGGTTTTAA
Found at i:21016738 original size:20 final size:21
Alignment explanation
Indices: 21016700--21016739 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
21016690 AATATTTACT
*
21016700 AACATGACATAATGAGGCATC
1 AACATGACAAAATGAGGCATC
*
21016721 AACATGA-AAAATGTGGCAT
1 AACATGACAAAATGAGGCAT
21016740 GCCACATGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.45, C:0.15, G:0.20, T:0.20
Consensus pattern (21 bp):
AACATGACAAAATGAGGCATC
Found at i:21020294 original size:59 final size:58
Alignment explanation
Indices: 21020183--21020305 Score: 135
Period size: 59 Copynumber: 2.1 Consensus size: 58
21020173 ATTTTTTAGA
* **
21020183 ATTTTTAGTATTAGAACTAAACTAACAAATTTTGTAATGTTGATGACCAAATTTATTG
1 ATTTTTAGAATTAGAACTAAACTAACAAATTTTGTAACATTGATGACCAAATTTATTG
* * *
21020241 CATTTTTAGAATTAGAACTAATA-TGAC-AATTTTGTAAACATTGATGGA-TAAATTTGTTG
1 -ATTTTTAGAATTAGAACTAA-ACTAACAAATTTTGT-AACATTGAT-GACCAAATTTATTG
21020300 ATTTTT
1 ATTTTT
21020306 TTAGCTATAA
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
58 14 0.25
59 38 0.69
60 3 0.05
ACGTcount: A:0.37, C:0.07, G:0.13, T:0.43
Consensus pattern (58 bp):
ATTTTTAGAATTAGAACTAAACTAACAAATTTTGTAACATTGATGACCAAATTTATTG
Found at i:21024681 original size:23 final size:23
Alignment explanation
Indices: 21024655--21024707 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
21024645 ATAAGTGCCA
21024655 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
21024678 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
21024701 CACTGAT
1 CACTGAT
21024708 CAATAACACT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:21024807 original size:8 final size:8
Alignment explanation
Indices: 21024794--21024822 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
21024784 ACCCGGGACT
21024794 CACTGTAA
1 CACTGTAA
21024802 CACTGTAA
1 CACTGTAA
21024810 CACTGTAA
1 CACTGTAA
21024818 CACTG
1 CACTG
21024823 GTCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:21024953 original size:18 final size:17
Alignment explanation
Indices: 21024927--21024965 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
21024917 ATTTTCCTTC
21024927 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
21024944 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
21024962 CACA
1 CACA
21024966 ATTTATACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:21030632 original size:23 final size:23
Alignment explanation
Indices: 21030606--21030658 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
21030596 ATAAGTGCCA
21030606 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
21030629 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
21030652 CACTGAT
1 CACTGAT
21030659 CAATAACACT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:21030758 original size:8 final size:8
Alignment explanation
Indices: 21030745--21030773 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
21030735 ACCCGGGACT
21030745 CACTGTAA
1 CACTGTAA
21030753 CACTGTAA
1 CACTGTAA
21030761 CACTGTAA
1 CACTGTAA
21030769 CACTG
1 CACTG
21030774 GTCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:21030904 original size:18 final size:17
Alignment explanation
Indices: 21030878--21030916 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
21030868 ATTTTCCTTC
21030878 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
21030895 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
21030913 CACA
1 CACA
21030917 ATTTATACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:21033938 original size:26 final size:25
Alignment explanation
Indices: 21033900--21033950 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
21033890 TAAAAATGTT
* *
21033900 TTTTTGCAAAAATAATATTATATTA
1 TTTTTGAAAAAATAATATGATATTA
*
21033925 TTTTTGAAAGAAATATTATGATATTA
1 TTTTTGAAA-AAATAATATGATATTA
21033951 AACTATTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.43, C:0.02, G:0.08, T:0.47
Consensus pattern (25 bp):
TTTTTGAAAAAATAATATGATATTA
Found at i:21043180 original size:25 final size:24
Alignment explanation
Indices: 21043147--21043193 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
21043137 ATTTTGTTAT
21043147 TAATATTTATATTTATTATTTTTTG
1 TAATATTTATATTTATT-TTTTTTG
* *
21043172 TAATTTTTATTTTTATTTTTTT
1 TAATATTTATATTTATTTTTTT
21043194 GAGTTAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (24 bp):
TAATATTTATATTTATTTTTTTTG
Found at i:21047474 original size:45 final size:45
Alignment explanation
Indices: 21047407--21047493 Score: 111
Period size: 45 Copynumber: 1.9 Consensus size: 45
21047397 ATGATGTTAC
* * * * *
21047407 GTATTTAATATATTTTTGAAAAATGGAATGTTGCTAAATTATTAT
1 GTATTTAACATATTGTTAAAAAATGAAATATTGCTAAATTATTAT
* *
21047452 GTATTTAGCATATTGTTAAAAAATGAAATATTGTTAAATTAT
1 GTATTTAACATATTGTTAAAAAATGAAATATTGCTAAATTAT
21047494 GAATTGAAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 35 1.00
ACGTcount: A:0.40, C:0.02, G:0.13, T:0.45
Consensus pattern (45 bp):
GTATTTAACATATTGTTAAAAAATGAAATATTGCTAAATTATTAT
Found at i:21047586 original size:24 final size:24
Alignment explanation
Indices: 21047554--21047599 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
21047544 GTTCTGTGGT
*
21047554 AAAGGATGAATTGACGGCAAATGC
1 AAAGGATGAACTGACGGCAAATGC
21047578 AAAGGATGAACTGACGGCAAAT
1 AAAGGATGAACTGACGGCAAAT
21047600 TATCCAAGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.43, C:0.13, G:0.28, T:0.15
Consensus pattern (24 bp):
AAAGGATGAACTGACGGCAAATGC
Found at i:21047752 original size:21 final size:21
Alignment explanation
Indices: 21047683--21047753 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 21
21047673 CTATTAACTC
21047683 ATGAGTTTTAGTTTAACCCTT
1 ATGAGTTTTAGTTTAACCCTT
* ** * * *
21047704 ATGGGTTTCCGTTCAGCTCTT
1 ATGAGTTTTAGTTTAACCCTT
* *
21047725 TTAAGTTTTAGTTTAACCCTT
1 ATGAGTTTTAGTTTAACCCTT
21047746 ATGAGTTT
1 ATGAGTTT
21047754 CCGTTCAGCT
Statistics
Matches: 34, Mismatches: 16, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.20, C:0.15, G:0.17, T:0.48
Consensus pattern (21 bp):
ATGAGTTTTAGTTTAACCCTT
Found at i:21047815 original size:42 final size:42
Alignment explanation
Indices: 21047692--21047834 Score: 178
Period size: 42 Copynumber: 3.4 Consensus size: 42
21047682 CATGAGTTTT
* * *
21047692 AGTTTAACCCTTATGGGTTTCCGTTCAGCTCTTTTAAGTTTT
1 AGTTTAACCCTTATGGGTTTCCGTTCAGCTCTTTTGAGCTTC
* *
21047734 AGTTTAACCCTTATGAGTTTCCGTTCAGCTTTTTTGAGCTTC
1 AGTTTAACCCTTATGGGTTTCCGTTCAGCTCTTTTGAGCTTC
* ** * **
21047776 AATTTAACCCTTATGGGTTTTTGTTTAGCTCTTACGAGCTTC
1 AGTTTAACCCTTATGGGTTTCCGTTCAGCTCTTTTGAGCTTC
*
21047818 CGTTTAACCCTTATGGG
1 AGTTTAACCCTTATGGG
21047835 GTTCTGCTTA
Statistics
Matches: 86, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 86 1.00
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.45
Consensus pattern (42 bp):
AGTTTAACCCTTATGGGTTTCCGTTCAGCTCTTTTGAGCTTC
Found at i:21047859 original size:42 final size:42
Alignment explanation
Indices: 21047769--21047851 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
21047759 CAGCTTTTTT
** * * * *
21047769 GAGCTTCAATTTAACCCTTATGGGTTTTTGTTTAGCTCTTAC
1 GAGCTTCCGTTTAACCCTTATGGGGTTCTGCTTAGCACTTAC
*
21047811 GAGCTTCCGTTTAACCCTTATGGGGTTCTGCTTATCACTTA
1 GAGCTTCCGTTTAACCCTTATGGGGTTCTGCTTAGCACTTA
21047852 TGTGCTTCTG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.18, C:0.22, G:0.18, T:0.42
Consensus pattern (42 bp):
GAGCTTCCGTTTAACCCTTATGGGGTTCTGCTTAGCACTTAC
Found at i:21050879 original size:20 final size:19
Alignment explanation
Indices: 21050851--21050900 Score: 66
Period size: 18 Copynumber: 2.6 Consensus size: 19
21050841 CCACTCTCAA
21050851 TCTCTTTTTTCTCTTTTTCAT
1 TCTC-TTTTTCT-TTTTTCAT
*
21050872 TCTCTTTTTCTTTTTTGAT
1 TCTCTTTTTCTTTTTTCAT
21050891 T-TCTTTTTCT
1 TCTCTTTTTCT
21050901 GTCTTTCTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 9 0.32
19 8 0.29
20 7 0.25
21 4 0.14
ACGTcount: A:0.04, C:0.20, G:0.02, T:0.74
Consensus pattern (19 bp):
TCTCTTTTTCTTTTTTCAT
Found at i:21050885 original size:18 final size:17
Alignment explanation
Indices: 21050857--21050900 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 17
21050847 TCAATCTCTT
21050857 TTTTCTCTTTTTCATTCTC
1 TTTT-TCTTTTTCATT-TC
*
21050876 TTTTTCTTTTTTGATTTC
1 TTTTTC-TTTTTCATTTC
21050894 TTTTTCT
1 TTTTTCT
21050901 GTCTTTCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 1 0.04
18 10 0.43
19 12 0.52
ACGTcount: A:0.05, C:0.18, G:0.02, T:0.75
Consensus pattern (17 bp):
TTTTTCTTTTTCATTTC
Found at i:21058415 original size:17 final size:18
Alignment explanation
Indices: 21058393--21058426 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
21058383 AAATAAATTC
21058393 TTAAAAAATA-AAAAATA
1 TTAAAAAATATAAAAATA
*
21058410 TTAAAAATTATAAAAAT
1 TTAAAAAATATAAAAAT
21058427 CATATCAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
TTAAAAAATATAAAAATA
Found at i:21073440 original size:18 final size:17
Alignment explanation
Indices: 21073407--21073441 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
21073397 ATTTAAGTTA
*
21073407 TGATAAAAACATATTAT
1 TGATAAAAAAATATTAT
21073424 TGATAAAAAAATAATTAT
1 TGATAAAAAAAT-ATTAT
21073442 GTTGGATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.34
Consensus pattern (17 bp):
TGATAAAAAAATATTAT
Found at i:21073830 original size:12 final size:12
Alignment explanation
Indices: 21073815--21073844 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
21073805 CGCCTCCCTT
21073815 TCCCCTTCCCCC
1 TCCCCTTCCCCC
*
21073827 TCCCCCTCCCCC
1 TCCCCTTCCCCC
21073839 TCCCCT
1 TCCCCT
21073845 CATCTTTCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.00, C:0.77, G:0.00, T:0.23
Consensus pattern (12 bp):
TCCCCTTCCCCC
Found at i:21076475 original size:23 final size:23
Alignment explanation
Indices: 21076419--21076475 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
21076409 AGGTTTAACC
* *
21076419 GCATATCTACTAGTAGTTTATCT
1 GCATATCTACTAGCAGTTCATCT
* *
21076442 GTA-ACTTTACTAGCAGTTCATCT
1 GCATA-TCTACTAGCAGTTCATCT
21076465 GCATATCTACT
1 GCATATCTACT
21076476 GGTGGTATAT
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
22 1 0.04
23 24 0.92
24 1 0.04
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.40
Consensus pattern (23 bp):
GCATATCTACTAGCAGTTCATCT
Found at i:21079925 original size:67 final size:67
Alignment explanation
Indices: 21079817--21079947 Score: 235
Period size: 67 Copynumber: 2.0 Consensus size: 67
21079807 GTAATTGTCA
21079817 TTGCAGAGGATTTAGCCTAGACTGGTAATCCCGCTGTAAGAAATGAGGTTCGCGGGAGTGTGCTC
1 TTGCAGAGGATTTAGCCTAGACTGGTAATCCCGCTGTAAGAAATGAGGTTCGCGGGAGTGTGCTC
21079882 TC
66 TC
* * *
21079884 TTGCAGGGGATTTAGCCTGGACTGGTAATCCCGCTGTAAGAAATGAGGTTTGCGGGAGTGTGCT
1 TTGCAGAGGATTTAGCCTAGACTGGTAATCCCGCTGTAAGAAATGAGGTTCGCGGGAGTGTGCT
21079948 TTTTGAATTG
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 61 1.00
ACGTcount: A:0.21, C:0.18, G:0.34, T:0.27
Consensus pattern (67 bp):
TTGCAGAGGATTTAGCCTAGACTGGTAATCCCGCTGTAAGAAATGAGGTTCGCGGGAGTGTGCTC
TC
Found at i:21093270 original size:263 final size:265
Alignment explanation
Indices: 21092798--21093326 Score: 776
Period size: 263 Copynumber: 2.0 Consensus size: 265
21092788 CACCTTTTCT
* * *
21092798 TATGAACAGAATTACTATCACGGTAATAGTCGTGCCCACGACTCGTGACAAGCTTGCTGAAAAAA
1 TATGAACAGAATTACTATCACAGTAATAGTCCTACCCACGACTCGTGACAAGCTTGCTG-AAAAA
* ** *
21092863 AAAAGAAGTAAAATAAATAATGAGGGAATGAAAATGTTTGGGAAGTCAATAAAATGTAATAGCAG
65 AAAAGAAATAAAATAAATAATGAGGGAATGAAAATGTTTGAAAAGTAAATAAAATGTAATAGCAG
* * * *
21092928 CAAATAAAAATTATATTAATCGTAAATAAAAAAAGTAAATGGAGTTTAACTTCATAAGCAATAAT
130 CAAATAAAAATTATATTAATCGAAAACAAAAAAAGTAAATAGAGTTGAACTTCATAAGCAATAAT
*
21092993 ATAAAGTCTTAGCCTTAAACTAGGTTAATTTTAGTTCTAAATCGATCATTGAAAATGAGTTTTCT
195 ATAAAGTCTTAGCCTTAAACTAGGTTAATTCTAGTTCTAAATCGATCATTGAAAATGAGTTTTCT
21093058 CCTCCA
260 CCTCCA
* *
21093064 TATGAACAGAATTACTGTCGCAGTAATAGTCCTACCCACGACTCGTG-CTAAGCTTGCTG-AAAA
1 TATGAACAGAATTACTATCACAGTAATAGTCCTACCCACGACTCGTGAC-AAGCTTGCTGAAAAA
* *
21093127 AAAAGAAATAAAATAAATAA-GGGGGAATGAAAATGTTTGAAAAGTAAATAAAATGTAATAGTAG
65 AAAAGAAATAAAATAAATAATGAGGGAATGAAAATGTTTGAAAAGTAAATAAAATGTAATAGCAG
* * * *
21093191 CAAATAACAATTATATTAATCGAAAACAAAATAAGTAAATAGAGTTGGACTTCGTAAGCAATAAT
130 CAAATAAAAATTATATTAATCGAAAACAAAAAAAGTAAATAGAGTTGAACTTCATAAGCAATAAT
* * * * * *
21093256 ATAAAGTTTTAGCCTTAGACTCGGTTAATTCTGGTTCTGAATCGATCCTTGAAAATGAGTTTTCT
195 ATAAAGTCTTAGCCTTAAACTAGGTTAATTCTAGTTCTAAATCGATCATTGAAAATGAGTTTTCT
*
21093321 CTTCCA
260 CCTCCA
21093327 CACCATAAGT
Statistics
Matches: 235, Mismatches: 27, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
263 159 0.68
264 23 0.10
265 1 0.00
266 52 0.22
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (265 bp):
TATGAACAGAATTACTATCACAGTAATAGTCCTACCCACGACTCGTGACAAGCTTGCTGAAAAAA
AAAGAAATAAAATAAATAATGAGGGAATGAAAATGTTTGAAAAGTAAATAAAATGTAATAGCAGC
AAATAAAAATTATATTAATCGAAAACAAAAAAAGTAAATAGAGTTGAACTTCATAAGCAATAATA
TAAAGTCTTAGCCTTAAACTAGGTTAATTCTAGTTCTAAATCGATCATTGAAAATGAGTTTTCTC
CTCCA
Found at i:21097541 original size:26 final size:25
Alignment explanation
Indices: 21097512--21097574 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 25
21097502 TCTTGTATAC
*
21097512 ATTAATATTATTAAGATAAGTATTAA
1 ATTAATATTATTAAGA-AACTATTAA
**
21097538 ATTAA-ATTTATTATTAAACTATTAA
1 ATTAATA-TTATTAAGAAACTATTAA
*
21097563 AATAATATTATT
1 ATTAATATTATT
21097575 TTTGGAATAG
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
25 18 0.58
26 13 0.42
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (25 bp):
ATTAATATTATTAAGAAACTATTAA
Found at i:21098675 original size:23 final size:23
Alignment explanation
Indices: 21098649--21098695 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
21098639 AGGATATCAT
*
21098649 TAACTCTTTAATTGAGCTATGAA
1 TAACTCTTTAATTGAACTATGAA
21098672 TAACTCTTTAATTGAACTATGAA
1 TAACTCTTTAATTGAACTATGAA
21098695 T
1 T
21098696 TCCACTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (23 bp):
TAACTCTTTAATTGAACTATGAA
Found at i:21108056 original size:22 final size:22
Alignment explanation
Indices: 21108029--21108072 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
21108019 AAAGATAAAA
21108029 AAATATATATTATTCTTTTATC
1 AAATATATATTATTCTTTTATC
21108051 AAATATATATTATTCTTTTATC
1 AAATATATATTATTCTTTTATC
21108073 CAACTATGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (22 bp):
AAATATATATTATTCTTTTATC
Found at i:21108685 original size:52 final size:52
Alignment explanation
Indices: 21108623--21108737 Score: 131
Period size: 52 Copynumber: 2.2 Consensus size: 52
21108613 GTGTATGTCA
* * * *
21108623 CGACACTGACCTTACTGTTGATCCGTGTTGCGACCACAATAAGTGCTCGTTG
1 CGACATTGACCTTACTGTTGATCCATGTTACGACCACAACAAGTGCTCGTTG
* * * * * *
21108675 TGACATTGACCTTATTGTTGGTCTATGTTATGACCACAACAAGTGCTTGTTG
1 CGACATTGACCTTACTGTTGATCCATGTTACGACCACAACAAGTGCTCGTTG
*
21108727 CAACATTGACC
1 CGACATTGACC
21108738 CCATTGAGTC
Statistics
Matches: 51, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.32
Consensus pattern (52 bp):
CGACATTGACCTTACTGTTGATCCATGTTACGACCACAACAAGTGCTCGTTG
Found at i:21113054 original size:16 final size:16
Alignment explanation
Indices: 21113029--21113113 Score: 143
Period size: 16 Copynumber: 5.3 Consensus size: 16
21113019 TTGGTTTGCT
*
21113029 GTAATAGAATAGAGGC
1 GTAATGGAATAGAGGC
*
21113045 GTAATGGAATAGAGAC
1 GTAATGGAATAGAGGC
*
21113061 GTAATGGTATAGAGGC
1 GTAATGGAATAGAGGC
21113077 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
21113093 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
21113109 GTAAT
1 GTAAT
21113114 AGCAATTCAA
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 64 1.00
ACGTcount: A:0.39, C:0.06, G:0.34, T:0.21
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:21113281 original size:21 final size:21
Alignment explanation
Indices: 21113257--21113344 Score: 57
Period size: 20 Copynumber: 4.5 Consensus size: 21
21113247 AATAAGATTA
21113257 TTAATATAAATAATAAATAAT
1 TTAATATAAATAATAAATAAT
* *
21113278 TTAATATTAAT-TTAAAATAA-
1 TTAATATAAATAAT-AAATAAT
* *
21113298 TT-AT-T-ATTAA-ATATAAT
1 TTAATATAAATAATAAATAAT
* *
21113315 TTAATA-AAAAAATATATAAT
1 TTAATATAAATAATAAATAAT
21113335 TTAATA-AAAT
1 TTAATATAAAT
21113345 TCTTAATATA
Statistics
Matches: 52, Mismatches: 8, Indels: 15
0.69 0.11 0.20
Matches are distributed among these distances:
16 5 0.10
17 4 0.08
18 3 0.06
19 5 0.10
20 19 0.37
21 16 0.31
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TTAATATAAATAATAAATAAT
Found at i:21113372 original size:57 final size:57
Alignment explanation
Indices: 21113257--21113402 Score: 147
Period size: 57 Copynumber: 2.5 Consensus size: 57
21113247 AATAAGATTA
* * *
21113257 TTAATATAAATAATAAATAATTTAATATTAATTTAAAATAATTATTATTAAATATAAT
1 TTAATA-AAAAAATATATAATTTAATATAAATTTAAAATAATTATTATTAAATATAAT
* * *
21113315 TTAATAAAAAAATATATAATTTAATA-AAATTCTTAATATAATTATTCTTATAT-TAAT
1 TTAATAAAAAAATATATAATTTAATATAAA-T-TTAAAATAATTATTATTAAATATAAT
*
21113372 TTACTAAAATCATAATATATAA--TAATATAAA
1 TTAATAAAA--A-AATATATAATTTAATATAAA
21113403 AAAATATTTA
Statistics
Matches: 75, Mismatches: 7, Indels: 11
0.81 0.08 0.12
Matches are distributed among these distances:
56 2 0.03
57 31 0.41
58 29 0.39
59 4 0.05
60 9 0.12
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (57 bp):
TTAATAAAAAAATATATAATTTAATATAAATTTAAAATAATTATTATTAAATATAAT
Found at i:21113398 original size:58 final size:57
Alignment explanation
Indices: 21113289--21113398 Score: 134
Period size: 58 Copynumber: 1.9 Consensus size: 57
21113279 TAATATTAAT
21113289 TTAAAATAATTATTATTAAATATAATTTAATAAAAAAATATATAATTTAATAAAATTC
1 TTAAAATAATTATTATTAAATATAATTTAATAAAAAAATATATAA-TTAATAAAATTC
* * * *
21113347 TTAATATAATTATTCTTATAT-TAATTTACTAAAATCATAATATATAA-TAATA
1 TTAAAATAATTATTATTAAATATAATTTAATAAAA--A-AATATATAATTAATA
21113399 TAAAAAAATA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
57 12 0.27
58 23 0.51
59 1 0.02
60 9 0.20
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (57 bp):
TTAAAATAATTATTATTAAATATAATTTAATAAAAAAATATATAATTAATAAAATTC
Found at i:21113806 original size:77 final size:77
Alignment explanation
Indices: 21113679--21113840 Score: 306
Period size: 77 Copynumber: 2.1 Consensus size: 77
21113669 ATTTTTTGTC
*
21113679 CACTTTAATAATTGAACTTGACAATTAGATATATTTTAATCTTTGAACTTGAAATATATAAAATT
1 CACTTTAATAACTGAACTTGACAATTAGATATATTTTAATCTTTGAACTTGAAATATATAAAATT
21113744 TTATTGACATAA
66 TTATTGACATAA
*
21113756 CACTTTAATAACTGAACTTGACACTTAGATATATTTTAATCTTTGAACTTGAAATATATAAAATT
1 CACTTTAATAACTGAACTTGACAATTAGATATATTTTAATCTTTGAACTTGAAATATATAAAATT
21113821 TTATTGACATAA
66 TTATTGACATAA
21113833 CACTTTAA
1 CACTTTAA
21113841 GATTGTCTCA
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
77 83 1.00
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (77 bp):
CACTTTAATAACTGAACTTGACAATTAGATATATTTTAATCTTTGAACTTGAAATATATAAAATT
TTATTGACATAA
Found at i:21115181 original size:11 final size:12
Alignment explanation
Indices: 21115141--21115173 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
21115131 TATTTTTTAA
21115141 TTTTAAAATACT
1 TTTTAAAATACT
21115153 TTTTAAAATACT
1 TTTTAAAATACT
21115165 TTTTAAAAT
1 TTTTAAAAT
21115174 TTTTTTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTTAAAATACT
Found at i:21115194 original size:23 final size:24
Alignment explanation
Indices: 21115170--21115218 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 24
21115160 ATACTTTTTA
21115170 AAATTTTTT-TAATT-TTAAAAAT
1 AAATTTTTTGTAATTATTAAAAAT
*
21115192 AAATTTTTTGTATTTATTAAAAA-
1 AAATTTTTTGTAATTATTAAAAAT
21115215 AAAT
1 AAAT
21115219 GGGCCGGGCC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 9 0.38
23 8 0.33
24 7 0.29
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (24 bp):
AAATTTTTTGTAATTATTAAAAAT
Found at i:21116142 original size:31 final size:31
Alignment explanation
Indices: 21116104--21116165 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
21116094 AGTTCCTTCA
21116104 AACAACACCCTTAGCAACAAAAATTAAGTTT
1 AACAACACCCTTAGCAACAAAAATTAAGTTT
21116135 AACAACACCCTTAGCAACAAAAATTAAGTTT
1 AACAACACCCTTAGCAACAAAAATTAAGTTT
21116166 TCTTTTTTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.48, C:0.23, G:0.06, T:0.23
Consensus pattern (31 bp):
AACAACACCCTTAGCAACAAAAATTAAGTTT
Found at i:21116841 original size:15 final size:15
Alignment explanation
Indices: 21116821--21116849 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
21116811 ATGAAGGAAA
21116821 AAAGGGAAATAAGAT
1 AAAGGGAAATAAGAT
21116836 AAAGGGAAATAAGA
1 AAAGGGAAATAAGA
21116850 AGGAAAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.28, T:0.10
Consensus pattern (15 bp):
AAAGGGAAATAAGAT
Found at i:21121455 original size:11 final size:10
Alignment explanation
Indices: 21121394--21121463 Score: 56
Period size: 11 Copynumber: 7.0 Consensus size: 10
21121384 TATTATAATA
21121394 AAAG-AAAAG
1 AAAGAAAAAG
*
21121403 AAA-TAAAA-
1 AAAGAAAAAG
*
21121411 AAATAAAAAG
1 AAAGAAAAAG
*
21121421 AAAGAAAGAAC
1 AAAGAAA-AAG
*
21121432 AAACGAAACAG
1 AAA-GAAAAAG
21121443 AAAGGAAAAAG
1 AAA-GAAAAAG
21121454 AAAGAAAAAG
1 AAAGAAAAAG
21121464 GAATAAAAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
8 3 0.06
9 11 0.22
10 13 0.27
11 18 0.37
12 4 0.08
ACGTcount: A:0.76, C:0.04, G:0.17, T:0.03
Consensus pattern (10 bp):
AAAGAAAAAG
Found at i:21121463 original size:17 final size:18
Alignment explanation
Indices: 21121443--21121481 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
21121433 AACGAAACAG
21121443 AAAGGAA-AAAGAAA-GAA
1 AAAGGAATAAA-AAAGGAA
21121460 AAAGGAATAAAAAAGGAA
1 AAAGGAATAAAAAAGGAA
21121478 AAAG
1 AAAG
21121482 ACCAAATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.03
Consensus pattern (18 bp):
AAAGGAATAAAAAAGGAA
Found at i:21121480 original size:28 final size:29
Alignment explanation
Indices: 21121421--21121482 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 29
21121411 AAATAAAAAG
*
21121421 AAAGAAAGAACAAACGAAACAGAAAGGAA
1 AAAGAAAGAACAAACGAAACAAAAAGGAA
*
21121450 AAAGAAAGAA-AAAGGAATA-AAAAAGGAA
1 AAAGAAAGAACAAACGAA-ACAAAAAGGAA
21121478 AAAGA
1 AAAGA
21121483 CCAAATTTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 19 0.63
29 11 0.37
ACGTcount: A:0.73, C:0.05, G:0.21, T:0.02
Consensus pattern (29 bp):
AAAGAAAGAACAAACGAAACAAAAAGGAA
Found at i:21121835 original size:40 final size:40
Alignment explanation
Indices: 21121789--21121867 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 40
21121779 AGGTGCCAAT
**
21121789 TTACTTTGGTTTAGCCGATGAGACACTGGGTGTCAAACTA
1 TTACTTTGAATTAGCCGATGAGACACTGGGTGTCAAACTA
* * *
21121829 TTACTTTGAATTATCCGATGAGGCATTGGGTGTCAAACT
1 TTACTTTGAATTAGCCGATGAGACACTGGGTGTCAAACT
21121868 GGTGTGTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.34
Consensus pattern (40 bp):
TTACTTTGAATTAGCCGATGAGACACTGGGTGTCAAACTA
Found at i:21134772 original size:40 final size:40
Alignment explanation
Indices: 21134668--21134960 Score: 218
Period size: 40 Copynumber: 7.3 Consensus size: 40
21134658 ACTAGCATTT
* *
21134668 AGCCTACTAAGCACTAA--TTGATAAATTCACCAGCACAA
1 AGCCTGCTAAGCACTAAGCTTGATAAATACACCAGCACAA
* * ** * * *
21134706 AGCCCTGCTAGGCACAAAGCCCGATAACTACACCGGCAGAA
1 AG-CCTGCTAAGCACTAAGCTTGATAAATACACCAGCACAA
* * * *
21134747 AGCCTGCTAAACACTAAGCTTGATAAATTCATCAACACAA
1 AGCCTGCTAAGCACTAAGCTTGATAAATACACCAGCACAA
* * * *
21134787 AGCCTGCTAGGCACAAAGCCTT-ATAACTACACCATCACAA
1 AGCCTGCTAAGCACTAAG-CTTGATAAATACACCAGCACAA
* * * * *
21134827 AGCTTGCTAAACATTAAGCTTGATAAATTCACCAGCACGA
1 AGCCTGCTAAGCACTAAGCTTGATAAATACACCAGCACAA
* ** *
21134867 AGCCTGGTGGGCAC-AGAGCTTGATAACTACACC-GACACAA
1 AGCCTGCTAAGCACTA-AGCTTGATAAATACACCAG-CACAA
* * * * *
21134907 AGCTTGTTAAGCACTAAGCTTGATAAATTCATCGGCACAA
1 AGCCTGCTAAGCACTAAGCTTGATAAATACACCAGCACAA
* *
21134947 AACCTGCTAGGCAC
1 AGCCTGCTAAGCAC
21134961 AAAGTCCGAT
Statistics
Matches: 190, Mismatches: 56, Indels: 16
0.73 0.21 0.06
Matches are distributed among these distances:
38 2 0.01
39 17 0.09
40 149 0.78
41 22 0.12
ACGTcount: A:0.37, C:0.27, G:0.16, T:0.19
Consensus pattern (40 bp):
AGCCTGCTAAGCACTAAGCTTGATAAATACACCAGCACAA
Found at i:21134972 original size:80 final size:79
Alignment explanation
Indices: 21134685--21134972 Score: 362
Period size: 80 Copynumber: 3.6 Consensus size: 79
21134675 TAAGCACTAA
* *
21134685 TTGATAAATTCACCAGCACAAAGCCCTGCTAGGCACAAAGCCCGATAACTACACCGGCAGAAAGC
1 TTGATAAATTCACCAGCACAAAG-CCTGCTAGGCACAAAG-CCGATAACTACACCGACACAAAGC
*
21134750 CTGCTAAACACTAAGC
64 TTGCTAAACACTAAGC
* * *
21134766 TTGATAAATTCATCAACACAAAGCCTGCTAGGCACAAAGCCTTATAACTACACC-ATCACAAAGC
1 TTGATAAATTCACCAGCACAAAGCCTGCTAGGCACAAAGCC-GATAACTACACCGA-CACAAAGC
*
21134830 TTGCTAAACATTAAGC
64 TTGCTAAACACTAAGC
* * * * *
21134846 TTGATAAATTCACCAGCACGAAGCCTGGTGGGCACAGAGCTTGATAACTACACCGACACAAAGCT
1 TTGATAAATTCACCAGCACAAAGCCTGCTAGGCACAAAGC-CGATAACTACACCGACACAAAGCT
* *
21134911 TGTTAAGCACTAAGC
65 TGCTAAACACTAAGC
* * *
21134926 TTGATAAATTCATCGGCACAAAACCTGCTAGGCACAAAGTCCGATAA
1 TTGATAAATTCACCAGCACAAAGCCTGCTAGGCACAAAG-CCGATAA
21134973 TTTCATAACA
Statistics
Matches: 176, Mismatches: 26, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
79 2 0.01
80 151 0.86
81 23 0.13
ACGTcount: A:0.37, C:0.27, G:0.17, T:0.19
Consensus pattern (79 bp):
TTGATAAATTCACCAGCACAAAGCCTGCTAGGCACAAAGCCGATAACTACACCGACACAAAGCTT
GCTAAACACTAAGC
Found at i:21136183 original size:15 final size:14
Alignment explanation
Indices: 21136159--21136201 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
21136149 GTCACATCCC
21136159 AAAATCTGGGTTAGTA
1 AAAAT-TGGGTTA-TA
21136175 AAAATTGGGTTCATA
1 AAAATTGGGTT-ATA
*
21136190 AAAATTAGGTTA
1 AAAATTGGGTTA
21136202 ATGAACCGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 1 0.04
15 18 0.72
16 6 0.24
ACGTcount: A:0.42, C:0.05, G:0.21, T:0.33
Consensus pattern (14 bp):
AAAATTGGGTTATA
Found at i:21138115 original size:24 final size:24
Alignment explanation
Indices: 21138035--21138109 Score: 114
Period size: 24 Copynumber: 3.1 Consensus size: 24
21138025 GAGGAAAAAT
*
21138035 TGGTGGCTTCATCCACAACCTACG
1 TGGTGGCTTCATCCACAACCTACA
* *
21138059 TGGTGGCTTCCTCCACGACCTACA
1 TGGTGGCTTCATCCACAACCTACA
*
21138083 TGGTGGCTTCGTCCACAACCTACA
1 TGGTGGCTTCATCCACAACCTACA
21138107 TGG
1 TGG
21138110 CAGCTTATCT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.19, C:0.33, G:0.23, T:0.25
Consensus pattern (24 bp):
TGGTGGCTTCATCCACAACCTACA
Found at i:21139807 original size:24 final size:24
Alignment explanation
Indices: 21139779--21139853 Score: 105
Period size: 24 Copynumber: 3.1 Consensus size: 24
21139769 GAAGAAGAAT
* *
21139779 TGGTGGCTTTGTCCACAACCTACG
1 TGGTGGCTTCGTCCACAACCTACA
* *
21139803 TGGTGGCTTCCTCCACGACCTACA
1 TGGTGGCTTCGTCCACAACCTACA
*
21139827 TGGTGGCTTCGTTCACAACCTACA
1 TGGTGGCTTCGTCCACAACCTACA
21139851 TGG
1 TGG
21139854 CAGCTTATTT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.17, C:0.31, G:0.24, T:0.28
Consensus pattern (24 bp):
TGGTGGCTTCGTCCACAACCTACA
Found at i:21141230 original size:17 final size:17
Alignment explanation
Indices: 21141209--21141303 Score: 79
Period size: 17 Copynumber: 5.4 Consensus size: 17
21141199 TTTTTTTATT
21141209 TTTTTAATTTTAAAATA
1 TTTTTAATTTTAAAATA
*
21141226 CTTTTT--TTTT-AAATT
1 -TTTTTAATTTTAAAATA
21141241 TTTTTAATTTTAAAATA
1 TTTTTAATTTTAAAATA
** *
21141258 TTTTTAAAATACATTTTTAATT
1 TTTTT--AAT---TTTAAAATA
21141280 TTTTTAATTTTAAAATA
1 TTTTTAATTTTAAAATA
21141297 TTTTTAA
1 TTTTTAA
21141304 AATAATTTTT
Statistics
Matches: 61, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
14 5 0.08
15 4 0.07
16 8 0.13
17 22 0.36
18 5 0.08
19 3 0.05
20 3 0.05
22 11 0.18
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTTAATTTTAAAATA
Found at i:21141242 original size:32 final size:31
Alignment explanation
Indices: 21141188--21141262 Score: 105
Period size: 32 Copynumber: 2.3 Consensus size: 31
21141178 AGAATATAAT
**
21141188 AAATATTTTTATTTTTTTATTTTTTTAATTTTA
1 AAATA-TTTT-TTTTTAAATTTTTTTAATTTTA
21141221 AAATACTTTTTTTTTAAATTTTTTTAATTTTA
1 AAATA-TTTTTTTTTAAATTTTTTTAATTTTA
21141253 AAATATTTTT
1 AAATATTTTT
21141263 AAAATACATT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
31 5 0.13
32 25 0.64
33 9 0.23
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (31 bp):
AAATATTTTTTTTTAAATTTTTTTAATTTTA
Found at i:21141243 original size:31 final size:30
Alignment explanation
Indices: 21141199--21141328 Score: 109
Period size: 32 Copynumber: 3.9 Consensus size: 30
21141189 AATATTTTTA
21141199 TTTTTTT-ATTTTTTTAATTTTAAAATACTT
1 TTTTTTTAATTTTTTTAATTTTAAAATA-TT
21141229 TTTTTTTAAATTTTTTTAATTTTAAAATATTTT
1 TTTTTTT-AATTTTTTTAATTTTAAAATA--TT
21141262 TAAAATACATTTTTAATTTTTTTAATTTTAAAATATT
1 T----T---TTTTTAATTTTTTTAATTTTAAAATATT
***
21141299 TTTAAAATAATTTTTTTAATTTTTAAAATA
1 TTT-TTTTAATTTTTTTAA-TTTTAAAATA
21141329 AATTTTTGGT
Statistics
Matches: 84, Mismatches: 4, Indels: 22
0.76 0.04 0.20
Matches are distributed among these distances:
30 8 0.10
31 12 0.14
32 30 0.36
33 4 0.05
37 4 0.05
39 21 0.25
40 5 0.06
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (30 bp):
TTTTTTTAATTTTTTTAATTTTAAAATATT
Found at i:21141280 original size:39 final size:39
Alignment explanation
Indices: 21141230--21141322 Score: 152
Period size: 39 Copynumber: 2.3 Consensus size: 39
21141220 AAAATACTTT
21141230 TTTTTTAAATTTTTTTAATTTTAAAATATTTTTAAAATACA
1 TTTTTT-AATTTTTTTAATTTTAAAATATTTTTAAAATA-A
21141271 -TTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATAA
1 TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATAA
21141309 TTTTTTTAATTTTT
1 -TTTTTTAATTTTT
21141323 AAAATAAATT
Statistics
Matches: 50, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
38 1 0.02
39 32 0.64
40 17 0.34
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.63
Consensus pattern (39 bp):
TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATAA
Found at i:21141322 original size:21 final size:21
Alignment explanation
Indices: 21141296--21141335 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
21141286 ATTTTAAAAT
*
21141296 ATTTTTAAAATAATTTTTTTA
1 ATTTTTAAAATAAATTTTTTA
21141317 ATTTTTAAAATAAATTTTT
1 ATTTTTAAAATAAATTTTT
21141336 GGTATTTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTTAAAATAAATTTTTTA
Found at i:21141342 original size:22 final size:20
Alignment explanation
Indices: 21141295--21141342 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 20
21141285 AATTTTAAAA
*
21141295 TATTTTTAAAATAATTTTTT
1 TATTTTTAAAATAATTTTTG
21141315 TAATTTTTAAAATAAATTTTTGG
1 T-ATTTTTAAAAT-AATTTTT-G
21141338 TATTT
1 TATTT
21141343 GTTTAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 1 0.04
21 11 0.46
22 11 0.46
23 1 0.04
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.60
Consensus pattern (20 bp):
TATTTTTAAAATAATTTTTG
Found at i:21141348 original size:71 final size:68
Alignment explanation
Indices: 21141185--21141335 Score: 157
Period size: 71 Copynumber: 2.2 Consensus size: 68
21141175 GCCAGAATAT
* ***
21141185 AATAAATATTTTTATTTTTTTATTTTTTTAATTTTAAAATACTTTTTTTTTAAATTTTTTTAATT
1 AATAAAT-TTTTTATTTTTTAATTTTTTTAATTTTAAAATACTTTTTAAATAAATTTTTTTAATT
21141250 TTAA
65 TTAA
*
21141254 AAT--ATTTTTAAAATACATTTTTAATTTTTTTAATTTTAAAATA-TTTTTAAA-ATAATTTTTT
1 AATAAATTTTT----TA-TTTTTTAATTTTTTTAATTTTAAAATACTTTTTAAATA-AATTTTTT
21141315 TAATTTTTAA
60 TAA-TTTTAA
21141325 AATAAATTTTT
1 AATAAATTTTT
21141336 GGTATTTGTT
Statistics
Matches: 68, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
66 4 0.06
67 2 0.03
69 4 0.06
70 18 0.26
71 34 0.50
73 6 0.09
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.62
Consensus pattern (68 bp):
AATAAATTTTTTATTTTTTAATTTTTTTAATTTTAAAATACTTTTTAAATAAATTTTTTTAATTT
TAA
Found at i:21147671 original size:57 final size:56
Alignment explanation
Indices: 21147602--21147713 Score: 188
Period size: 57 Copynumber: 2.0 Consensus size: 56
21147592 AATGTTGTTT
21147602 CTGGTTAAGTGTAATTGACTCCATTTTCTTTCTACAAAAAAAAAAAAAGATTCAAAA
1 CTGGTTAAGTGTAATTGACTCCATTTTCTTTCTAC-AAAAAAAAAAAAGATTCAAAA
* * *
21147659 CTGGTTAAGTGTAATTGACTCTATTTTCTTTCTACCAAAAAGAAAAAGATTCAAA
1 CTGGTTAAGTGTAATTGACTCCATTTTCTTTCTACAAAAAAAAAAAAGATTCAAA
21147714 TCTTGTTATT
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
56 18 0.35
57 34 0.65
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (56 bp):
CTGGTTAAGTGTAATTGACTCCATTTTCTTTCTACAAAAAAAAAAAAGATTCAAAA
Found at i:21150202 original size:21 final size:20
Alignment explanation
Indices: 21150176--21150237 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
21150166 TTTTGTGGAT
21150176 CCTAAATCCTAAATCTTAAAC
1 CCTAAA-CCTAAATCTTAAAC
*
21150197 CCTAAACCCTAAACCTTAAAC
1 CCTAAA-CCTAAATCTTAAAC
* *
21150218 TCTAAACCTTAATCCTTAAA
1 CCTAAACCTAAAT-CTTAAA
21150238 ACCCCTTTCT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
20 5 0.14
21 30 0.86
ACGTcount: A:0.42, C:0.31, G:0.00, T:0.27
Consensus pattern (20 bp):
CCTAAACCTAAATCTTAAAC
Found at i:21150210 original size:7 final size:7
Alignment explanation
Indices: 21150176--21150225 Score: 55
Period size: 7 Copynumber: 7.1 Consensus size: 7
21150166 TTTTGTGGAT
*
21150176 CCTAAAT
1 CCTAAAC
*
21150183 CCTAAAT
1 CCTAAAC
*
21150190 CTTAAAC
1 CCTAAAC
21150197 CCTAAAC
1 CCTAAAC
21150204 CCTAAAC
1 CCTAAAC
*
21150211 CTTAAAC
1 CCTAAAC
*
21150218 TCTAAAC
1 CCTAAAC
21150225 C
1 C
21150226 TTAATCCTTA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.42, C:0.34, G:0.00, T:0.24
Consensus pattern (7 bp):
CCTAAAC
Found at i:21150226 original size:14 final size:14
Alignment explanation
Indices: 21150192--21150229 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
21150182 TCCTAAATCT
*
21150192 TAAACCCTAAACCC
1 TAAACCTTAAACCC
*
21150206 TAAACCTTAAACTC
1 TAAACCTTAAACCC
21150220 TAAACCTTAA
1 TAAACCTTAA
21150230 TCCTTAAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.45, C:0.32, G:0.00, T:0.24
Consensus pattern (14 bp):
TAAACCTTAAACCC
Found at i:21150478 original size:10 final size:10
Alignment explanation
Indices: 21150460--21150501 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
21150450 ATTTTTTAAC
21150460 TTAATTTAAAT
1 TTAA-TTAAAT
21150471 TTAATTAAA-
1 TTAATTAAAT
*
21150480 TTATTTAAAAT
1 TTAATT-AAAT
21150491 TTAATTAAAT
1 TTAATTAAAT
21150501 T
1 T
21150502 ATTTAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
9 5 0.19
10 13 0.48
11 9 0.33
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
TTAATTAAAT
Found at i:21150490 original size:20 final size:20
Alignment explanation
Indices: 21150463--21150510 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
21150453 TTTTAACTTA
21150463 ATTT-AAATTTAATTAAATT
1 ATTTAAAATTTAATTAAATT
21150482 ATTTAAAATTTAATTAAATT
1 ATTTAAAATTTAATTAAATT
21150502 ATTTAAAAT
1 ATTTAAAAT
21150511 AATTAATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 4 0.14
20 24 0.86
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATTTAAAATTTAATTAAATT
Found at i:21150548 original size:22 final size:22
Alignment explanation
Indices: 21150499--21150553 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
21150489 ATTTAATTAA
*
21150499 ATTATTTA-AAATAATTAATTT
1 ATTATTTATAAATAAATAATTT
* *
21150520 ATAATTTATAAATAAATATTTT
1 ATTATTTATAAATAAATAATTT
*
21150542 TTTATTTTATAA
1 ATTA-TTTATAA
21150554 TTTTTAATCA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 7 0.26
22 13 0.48
23 7 0.26
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
ATTATTTATAAATAAATAATTT
Found at i:21155744 original size:81 final size:81
Alignment explanation
Indices: 21155609--21155773 Score: 285
Period size: 81 Copynumber: 2.0 Consensus size: 81
21155599 AAATAAGTAA
* * * *
21155609 TTTTAATCAATTAACCACTTTTAGTGTTCAATTTAATCCACATTTCATATTTATGTAAAATTACC
1 TTTTAATCAATTAACCACTTCTAGTATTCAATTTAATCAACATTTCATATTTATGCAAAATTACC
*
21155674 AATTTACCCCTAATAT
66 AATTTACCCCAAATAT
21155690 TTTTAATCAATTAACCACTTCTAGTATTCAATTTAATCAACATTTCATATTTATGCAAAATTACC
1 TTTTAATCAATTAACCACTTCTAGTATTCAATTTAATCAACATTTCATATTTATGCAAAATTACC
21155755 AATTTACCCCAAATAT
66 AATTTACCCCAAATAT
21155771 TTT
1 TTT
21155774 AACTTTTTCA
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
81 79 1.00
ACGTcount: A:0.36, C:0.19, G:0.03, T:0.42
Consensus pattern (81 bp):
TTTTAATCAATTAACCACTTCTAGTATTCAATTTAATCAACATTTCATATTTATGCAAAATTACC
AATTTACCCCAAATAT
Found at i:21156459 original size:18 final size:17
Alignment explanation
Indices: 21156427--21156461 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
21156417 CACTTTTTCA
*
21156427 CTTTTTACTATTTAATC
1 CTTTTTACTAATTAATC
21156444 CTTTTTACTTAATTAATC
1 CTTTTTAC-TAATTAATC
21156462 ATTCAAACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.26, C:0.17, G:0.00, T:0.57
Consensus pattern (17 bp):
CTTTTTACTAATTAATC
Found at i:21157432 original size:59 final size:61
Alignment explanation
Indices: 21157361--21157477 Score: 150
Period size: 62 Copynumber: 1.9 Consensus size: 61
21157351 ATCACTTTAA
* * *
21157361 TATTAAATTAATATAATATTTA-T-CAACATAAATATTAGA-TTAAGTTTAATATTAAATCT
1 TATTAAAATAATAGAATATTTACTACAACATAAATATTAAATTTAA-TTTAATATTAAATCT
* *
21157420 TATTAAAATAATAGAATGTTTATCTACAAGATAAATATTAAATTTAATTTAATATTAA
1 TATTAAAATAATAGAATATTTA-CTACAACATAAATATTAAATTTAATTTAATATTAA
21157478 GATAATCAGT
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
59 19 0.39
61 1 0.02
62 25 0.51
63 4 0.08
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (61 bp):
TATTAAAATAATAGAATATTTACTACAACATAAATATTAAATTTAATTTAATATTAAATCT
Found at i:21172590 original size:44 final size:44
Alignment explanation
Indices: 21172527--21172613 Score: 147
Period size: 44 Copynumber: 2.0 Consensus size: 44
21172517 AAGACAATTG
*
21172527 GTTAATGCGTCTAACCTTCCTCTATCAAGTGACTAGATTTTTTA
1 GTTAATGCGTCTAACCTTCCCCTATCAAGTGACTAGATTTTTTA
* *
21172571 GTTAATGCGTTTAACCTTCCCCTATCAAGTGACTGGATTTTTT
1 GTTAATGCGTCTAACCTTCCCCTATCAAGTGACTAGATTTTTT
21172614 TACACACTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.23, C:0.21, G:0.15, T:0.41
Consensus pattern (44 bp):
GTTAATGCGTCTAACCTTCCCCTATCAAGTGACTAGATTTTTTA
Done.