Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-JGI_221_v2.0
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: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 86 of 204
Found at i:26381736 original size:14 final size:12
Alignment explanation
Indices: 26381686--26381734 Score: 55
Period size: 11 Copynumber: 3.9 Consensus size: 12
26381676 ATTTCACAAT
*
26381686 ATAATAATATTA
1 ATAATAATTTTA
26381698 ATAATAATAATTTA
1 ATAATAAT--TTTA
26381712 ATAATAA-TTTA
1 ATAATAATTTTA
26381723 ATAATATATTTT
1 ATAATA-ATTTT
26381735 TACACATAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
11 10 0.31
12 9 0.28
13 3 0.09
14 10 0.31
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
ATAATAATTTTA
Found at i:26387822 original size:23 final size:23
Alignment explanation
Indices: 26387796--26387894 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
26387786 ATAAGTGTGA
26387796 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
26387819 CACTGATACGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
26387842 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
26387865 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
26387888 CACTGAT
1 CACTGAT
26387895 CAATAACACT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 69 1.00
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.22
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:26390450 original size:11 final size:11
Alignment explanation
Indices: 26390430--26390459 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
26390420 AATCAATACA
26390430 TAAA-CATGTT
1 TAAATCATGTT
26390440 TAAATCATGTT
1 TAAATCATGTT
26390451 TAAATCATG
1 TAAATCATG
26390460 CCTAAACATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.21
11 15 0.79
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (11 bp):
TAAATCATGTT
Found at i:26392326 original size:16 final size:17
Alignment explanation
Indices: 26392296--26392328 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
26392286 TTGTTTATTA
*
26392296 TTTAATAAATGTAATAT
1 TTTAATAAATATAATAT
26392313 TTTAAT-AATATAATAT
1 TTTAATAAATATAATAT
26392329 AATAATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (17 bp):
TTTAATAAATATAATAT
Found at i:26393693 original size:9 final size:9
Alignment explanation
Indices: 26393679--26393709 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
26393669 CATAGTGATT
26393679 AATTTTTAC
1 AATTTTTAC
26393688 AATTTTTAC
1 AATTTTTAC
*
26393697 AATATTTAC
1 AATTTTTAC
26393706 AATT
1 AATT
26393710 AGTCTTTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.52
Consensus pattern (9 bp):
AATTTTTAC
Found at i:26395834 original size:12 final size:11
Alignment explanation
Indices: 26395813--26395860 Score: 55
Period size: 12 Copynumber: 4.4 Consensus size: 11
26395803 ACTTTTCAAA
26395813 ATTTGATTATT
1 ATTTGATTATT
26395824 ATTTGGATTATT
1 ATTT-GATTATT
26395836 A-TT-ATTATT
1 ATTTGATTATT
*
26395845 ATTATTATTATT
1 ATT-TGATTATT
26395857 ATTT
1 ATTT
26395861 TTATGTAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
9 7 0.21
10 1 0.03
11 8 0.24
12 17 0.52
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (11 bp):
ATTTGATTATT
Found at i:26395836 original size:3 final size:3
Alignment explanation
Indices: 26395830--26395864 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
26395820 TATTATTTGG
*
26395830 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT TTT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
26395865 GTAATATCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
ATT
Found at i:26398825 original size:2 final size:2
Alignment explanation
Indices: 26398814--26398842 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
26398804 CAAAATGAAG
26398814 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
26398843 AAAAGATCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:26405066 original size:17 final size:19
Alignment explanation
Indices: 26405030--26405068 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
26405020 AAAAAATAAT
26405030 AATAAATTATGAATTATTC
1 AATAAATTATGAATTATTC
*
26405049 AATAAATT-T-AATTTTTC
1 AATAAATTATGAATTATTC
26405066 AAT
1 AAT
26405069 GTTAGTGATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 10 0.53
18 1 0.05
19 8 0.42
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (19 bp):
AATAAATTATGAATTATTC
Found at i:26411424 original size:49 final size:49
Alignment explanation
Indices: 26411335--26411429 Score: 120
Period size: 49 Copynumber: 1.9 Consensus size: 49
26411325 CTATTTATAG
* * * * *
26411335 GTTGAAAAAACTTATTCTAATCATTGTCAAATAGATGAAGTGTAGTAAA
1 GTTGAAAAAACTGATTCTAATCAATGTCAAATAAAAGAAGTATAGTAAA
*
26411384 GTTGAAAAACCTGATTCTAATCAATGT-AAAGTAAAAGAAGTATAGT
1 GTTGAAAAAACTGATTCTAATCAATGTCAAA-TAAAAGAAGTATAGT
26411430 TCTATATGAA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
48 3 0.08
49 36 0.92
ACGTcount: A:0.44, C:0.08, G:0.17, T:0.31
Consensus pattern (49 bp):
GTTGAAAAAACTGATTCTAATCAATGTCAAATAAAAGAAGTATAGTAAA
Found at i:26417711 original size:28 final size:27
Alignment explanation
Indices: 26417670--26417772 Score: 88
Period size: 28 Copynumber: 3.9 Consensus size: 27
26417660 TTTTATTTTC
*
26417670 TTAAAAATACTTTTTAACATCAATAGTT
1 TTAAAAACACTTTTTAACATCAATA-TT
*** *
26417698 TTAAAAACA-TTTTTTTTATC--T-TC
1 TTAAAAACACTTTTTAACATCAATATT
*
26417721 TTAAAAATACTTTTTAACATCAATAATT
1 TTAAAAACACTTTTTAACATCAAT-ATT
* *
26417749 TTAAAAACATTTTTTAACCTCAAT
1 TTAAAAACACTTTTTAACATCAAT
26417773 GGTGTAATAG
Statistics
Matches: 57, Mismatches: 13, Indels: 10
0.71 0.16 0.12
Matches are distributed among these distances:
23 9 0.16
24 8 0.14
25 1 0.02
26 1 0.02
27 8 0.14
28 30 0.53
ACGTcount: A:0.41, C:0.13, G:0.01, T:0.46
Consensus pattern (27 bp):
TTAAAAACACTTTTTAACATCAATATT
Found at i:26417729 original size:51 final size:51
Alignment explanation
Indices: 26417660--26417763 Score: 190
Period size: 51 Copynumber: 2.0 Consensus size: 51
26417650 AAAATAGAAA
* *
26417660 TTTTATTTTCTTAAAAATACTTTTTAACATCAATAGTTTTAAAAACATTTT
1 TTTTATCTTCTTAAAAATACTTTTTAACATCAATAATTTTAAAAACATTTT
26417711 TTTTATCTTCTTAAAAATACTTTTTAACATCAATAATTTTAAAAACATTTT
1 TTTTATCTTCTTAAAAATACTTTTTAACATCAATAATTTTAAAAACATTTT
26417762 TT
1 TT
26417764 AACCTCAATG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.38, C:0.11, G:0.01, T:0.51
Consensus pattern (51 bp):
TTTTATCTTCTTAAAAATACTTTTTAACATCAATAATTTTAAAAACATTTT
Found at i:26418018 original size:3 final size:3
Alignment explanation
Indices: 26418010--26418047 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
26418000 AGTAGGTCTT
26418010 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
26418048 TAAGATATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:26418736 original size:31 final size:31
Alignment explanation
Indices: 26418698--26418757 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
26418688 CCTTATGTAA
26418698 AAAAAAAAAAAAACATGTTGTTGTAAGATGT
1 AAAAAAAAAAAAACATGTTGTTGTAAGATGT
*
26418729 AAAAAAAAAAAACCATGTTGTTGTAAGAT
1 AAAAAAAAAAAAACATGTTGTTGTAAGAT
26418758 ATGAATCATG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.55, C:0.05, G:0.15, T:0.25
Consensus pattern (31 bp):
AAAAAAAAAAAAACATGTTGTTGTAAGATGT
Found at i:26422923 original size:47 final size:49
Alignment explanation
Indices: 26422854--26422962 Score: 109
Period size: 50 Copynumber: 2.2 Consensus size: 49
26422844 AAGAGAAGGA
* *
26422854 AAAGAAAAGAAG-AGAAGAAGAAGAAGAAG-GAGAGGGCAGGAAGGGAAAAAG
1 AAAGAAAAAAAGAAGAAGAAGAAGAA-AAGAGAGAGGGAAGG-A--GAAAAAG
* *
26422905 AAAGAAAAAAA-AAG-AGAAGGAGAAAAGAGAGAGGGAAGGAGAAATAG
1 AAAGAAAAAAAGAAGAAGAAGAAGAAAAGAGAGAGGGAAGGAGAAAAAG
*
26422952 AAGGAAAAAAA
1 AAAGAAAAAAA
26422963 TAAAAAAGAA
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
47 16 0.31
49 4 0.08
50 19 0.37
51 12 0.24
ACGTcount: A:0.63, C:0.01, G:0.35, T:0.01
Consensus pattern (49 bp):
AAAGAAAAAAAGAAGAAGAAGAAGAAAAGAGAGAGGGAAGGAGAAAAAG
Found at i:26423550 original size:2 final size:2
Alignment explanation
Indices: 26423543--26423582 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
26423533 GACATGTTAT
26423543 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
26423583 TTTAAACCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:26425685 original size:33 final size:33
Alignment explanation
Indices: 26425648--26425710 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 33
26425638 TATCCACCGC
*
26425648 AGTACAGCACTCCTCTTGGCCCGTATCCACTAT
1 AGTACAGCACTCCTCCTGGCCCGTATCCACTAT
** **
26425681 AGTACTTCACTCCTCCTGGGTCGTATCCAC
1 AGTACAGCACTCCTCCTGGCCCGTATCCAC
26425711 CGTAATATGG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 25 1.00
ACGTcount: A:0.19, C:0.37, G:0.16, T:0.29
Consensus pattern (33 bp):
AGTACAGCACTCCTCCTGGCCCGTATCCACTAT
Found at i:26426152 original size:62 final size:63
Alignment explanation
Indices: 26425998--26426168 Score: 186
Period size: 62 Copynumber: 2.7 Consensus size: 63
26425988 AATTAGATTA
** *
26425998 ATTACAACATTAAAACTTGGAACAAACTTTGTGGTCATAAATTAGATTAATTGCAACATTACAAC
1 ATTACAACATTAAAACTTGGAACAAACTTTGTAAT-ATAAATTAGATTAATT-CAACATTAAAAC
* * * **
26426063 ATTAAAACACTAAAACTTGTAACAAACTTTGTAATATAAATTTTATT-ATAT-AA-ATTAAATAC
1 ATTACAACATTAAAACTTGGAACAAACTTTGTAATATAAATTAGATTAAT-TCAACATTAAA-AC
* * *
26426125 ATTACAACATTAAAAGTTGGAATAAACTTTGTAATATTAATTAG
1 ATTACAACATTAAAACTTGGAACAAACTTTGTAATATAAATTAG
26426169 GTAGATTGGA
Statistics
Matches: 88, Mismatches: 16, Indels: 7
0.79 0.14 0.06
Matches are distributed among these distances:
61 5 0.06
62 40 0.45
63 2 0.02
64 11 0.12
65 30 0.34
ACGTcount: A:0.46, C:0.11, G:0.08, T:0.35
Consensus pattern (63 bp):
ATTACAACATTAAAACTTGGAACAAACTTTGTAATATAAATTAGATTAATTCAACATTAAAAC
Found at i:26428651 original size:27 final size:27
Alignment explanation
Indices: 26428580--26428651 Score: 99
Period size: 27 Copynumber: 2.7 Consensus size: 27
26428570 ATATTAGGTG
* * * *
26428580 TGCCGCCTATCAAATAGACACCACCAG
1 TGCCGCCTATCAGATAGGCACAACCAA
*
26428607 TGCCGCCTATCAGATAGGCACAACTAA
1 TGCCGCCTATCAGATAGGCACAACCAA
26428634 TGCCGCCTATCAGATAGG
1 TGCCGCCTATCAGATAGG
26428652 GGTCGCTGGT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (27 bp):
TGCCGCCTATCAGATAGGCACAACCAA
Found at i:26433140 original size:2 final size:2
Alignment explanation
Indices: 26433133--26433164 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
26433123 AATTAAAAGG
26433133 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
26433165 TTGAAAGGTG
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26436425 original size:31 final size:31
Alignment explanation
Indices: 26436356--26436431 Score: 100
Period size: 30 Copynumber: 2.5 Consensus size: 31
26436346 TGTTGAAAAT
** *
26436356 TTTTCTTTACTTTTCATATTTTTAGATTAGG
1 TTTTCTTTTTTTTTCATATTTTTAAATTAGG
*
26436387 -TTTCTTTTTTTTTCTTATTTTTAAATTAGG
1 TTTTCTTTTTTTTTCATATTTTTAAATTAGG
26436417 TTTTCTTTTTCTTTT
1 TTTTCTTTTT-TTTT
26436432 TAGAATAGAC
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
30 26 0.67
31 9 0.23
32 4 0.10
ACGTcount: A:0.14, C:0.09, G:0.07, T:0.70
Consensus pattern (31 bp):
TTTTCTTTTTTTTTCATATTTTTAAATTAGG
Found at i:26438391 original size:16 final size:17
Alignment explanation
Indices: 26438352--26438393 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
26438342 TTTCAGTTTC
26438352 TGTTC-TTAGTAAATTT
1 TGTTCTTTAGTAAATTT
*
26438368 T-ATCTTTA-TAAATTT
1 TGTTCTTTAGTAAATTT
26438383 TGTTCTTTAGT
1 TGTTCTTTAGT
26438394 TTTAGTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 5
0.75 0.07 0.18
Matches are distributed among these distances:
15 10 0.48
16 10 0.48
17 1 0.05
ACGTcount: A:0.24, C:0.07, G:0.10, T:0.60
Consensus pattern (17 bp):
TGTTCTTTAGTAAATTT
Found at i:26449014 original size:21 final size:22
Alignment explanation
Indices: 26448985--26449028 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
26448975 GCATCTACTC
* *
26448985 AGGGCAATTATAATCCACAACA
1 AGGGCAATTACAATCAACAACA
26449007 AGGG-AATTACAATCAACAACA
1 AGGGCAATTACAATCAACAACA
26449028 A
1 A
26449029 AACTACAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.50, C:0.20, G:0.14, T:0.16
Consensus pattern (22 bp):
AGGGCAATTACAATCAACAACA
Found at i:26460701 original size:3 final size:3
Alignment explanation
Indices: 26460693--26460720 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
26460683 GACGTTAACA
26460693 ATG ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG A
26460721 GGAGGAAGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:26460725 original size:3 final size:3
Alignment explanation
Indices: 26460719--26460748 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
26460709 TGATGATGAT
*
26460719 GAG GAG GAA GAG GAG GAG GAG GAG GAG GAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
26460749 ACCCCTATCG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.37, C:0.00, G:0.63, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:26462010 original size:4 final size:4
Alignment explanation
Indices: 26461970--26462028 Score: 50
Period size: 4 Copynumber: 14.8 Consensus size: 4
26461960 TCCTGATTGG
* * *
26461970 TTTA TTGA TTTA TTTCA TTTT TTTA -TT- TTTC TTTA TTTA TTTA TTATA
1 TTTA TTTA TTTA TTT-A TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT-TA
*
26462018 GTTA TTTA TTT
1 TTTA TTTA TTT
26462029 GGTTTTACCT
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
3 4 0.09
4 33 0.75
5 7 0.16
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:26462442 original size:13 final size:13
Alignment explanation
Indices: 26462424--26462448 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26462414 AAGTTCTATG
26462424 TTTTTATTAATTA
1 TTTTTATTAATTA
26462437 TTTTTATTAATT
1 TTTTTATTAATT
26462449 TTTGTTTTGT
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:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTTATTAATTA
Found at i:26467329 original size:2 final size:2
Alignment explanation
Indices: 26467322--26467350 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
26467312 TAAGATTTAG
26467322 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
26467351 TTGTGTGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:26469564 original size:17 final size:17
Alignment explanation
Indices: 26469529--26469592 Score: 76
Period size: 17 Copynumber: 3.8 Consensus size: 17
26469519 TCCTAATTGG
* *
26469529 TTTATTGATTTATTTTA
1 TTTATTTATTTTTTTTA
26469546 TTT-TTTATTTTTCTTTA
1 TTTATTTATTTTT-TTTA
* *
26469563 TTTATTTCTTTTTGTTA
1 TTTATTTATTTTTTTTA
26469580 TTTATTTATTTTT
1 TTTATTTATTTTT
26469593 ATCTCTTCAC
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
16 7 0.17
17 25 0.62
18 8 0.20
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.78
Consensus pattern (17 bp):
TTTATTTATTTTTTTTA
Found at i:26469568 original size:21 final size:20
Alignment explanation
Indices: 26469536--26469592 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 20
26469526 TGGTTTATTG
*
26469536 ATTTATTTTATTTTTTATTTTT
1 ATTTA-TTTATTTTTT-TTGTT
*
26469558 CTTTATTTATTTCTTTTTGTT
1 ATTTATTTATTT-TTTTTGTT
26469579 ATTTATTTATTTTT
1 ATTTATTTATTTTT
26469593 ATCTCTTCAC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 2 0.06
21 22 0.71
22 7 0.23
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.79
Consensus pattern (20 bp):
ATTTATTTATTTTTTTTGTT
Found at i:26476050 original size:20 final size:20
Alignment explanation
Indices: 26476025--26476065 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
26476015 AATAAAAGAG
26476025 TGTTGAAATATCTATATATT
1 TGTTGAAATATCTATATATT
26476045 TGTTGAAATATCTATATATT
1 TGTTGAAATATCTATATATT
26476065 T
1 T
26476066 TAAAGTTTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.10, T:0.51
Consensus pattern (20 bp):
TGTTGAAATATCTATATATT
Found at i:26479963 original size:29 final size:29
Alignment explanation
Indices: 26479898--26480004 Score: 105
Period size: 29 Copynumber: 3.7 Consensus size: 29
26479888 TTACAGATTT
* *
26479898 GCCACAAAGGCATCCA-A-ACACATAAATA
1 GCCATAAAGGCATCCACATA-ACATTAATA
*
26479926 GCCATAAAGGCATCCACATAATAGTT-ATA
1 GCCATAAAGGCATCCACATAACA-TTAATA
* *
26479955 GCCAAAAAGGC-TCTCATATAACATTAGATA
1 GCCATAAAGGCATC-CACATAACATTA-ATA
26479985 GCCATAAAGGCATCCACATA
1 GCCATAAAGGCATCCACATA
26480005 TAACAAACTT
Statistics
Matches: 64, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
28 19 0.30
29 23 0.36
30 20 0.31
31 2 0.03
ACGTcount: A:0.44, C:0.24, G:0.13, T:0.19
Consensus pattern (29 bp):
GCCATAAAGGCATCCACATAACATTAATA
Found at i:26480382 original size:10 final size:10
Alignment explanation
Indices: 26480367--26480393 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
26480357 GGTCTTTACT
26480367 TGCCATATGA
1 TGCCATATGA
26480377 TGCCATATGA
1 TGCCATATGA
26480387 TGCCATA
1 TGCCATA
26480394 CTACTAAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (10 bp):
TGCCATATGA
Found at i:26491916 original size:141 final size:141
Alignment explanation
Indices: 26491662--26491947 Score: 482
Period size: 141 Copynumber: 2.0 Consensus size: 141
26491652 CTAATTCCGT
*
26491662 TAAAATCATAACGATTTTACCGTAAAAGAATCTATGAGAAATTATATTTAATATTTCTACATTAT
1 TAAAATCATAACGATTTTACCGTAAAAGAATCTATGAGAAAATATATTTAATATTTCTACATTAT
* *
26491727 AACATCTCGCCTAACGAAGCCCTAGTATTTGAGTGTTGTTTTAGAAGTAAGAATTTTGGAACGAG
66 AAAATCTCGCCTAACGAAGCCCTAGTATTCGAGTGTTGTTTTAGAAGTAAGAATTTTGGAACGAG
26491792 CCCTAGATAAG
131 CCCTAGATAAG
* * *
26491803 TAAAATCATAACGATTTTACCGTAAAATAATTTATGAGAAAATATATTTAATTTTTCTACATTAT
1 TAAAATCATAACGATTTTACCGTAAAAGAATCTATGAGAAAATATATTTAATATTTCTACATTAT
* *
26491868 AAAATCTCGCCTAGCGAAGCCTTAGTATTCGAGTGTTGTTTTAGAAGTAAGAATTTTGGAACGAG
66 AAAATCTCGCCTAACGAAGCCCTAGTATTCGAGTGTTGTTTTAGAAGTAAGAATTTTGGAACGAG
* *
26491933 CCTTGGATAAG
131 CCCTAGATAAG
26491944 TAAA
1 TAAA
26491948 GTGATGGATT
Statistics
Matches: 135, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
141 135 1.00
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.34
Consensus pattern (141 bp):
TAAAATCATAACGATTTTACCGTAAAAGAATCTATGAGAAAATATATTTAATATTTCTACATTAT
AAAATCTCGCCTAACGAAGCCCTAGTATTCGAGTGTTGTTTTAGAAGTAAGAATTTTGGAACGAG
CCCTAGATAAG
Found at i:26492967 original size:298 final size:298
Alignment explanation
Indices: 26492431--26493029 Score: 1144
Period size: 298 Copynumber: 2.0 Consensus size: 298
26492421 TGTTCTCTAA
*
26492431 CACACATATTCATGCATCGATTTTGACATTTCATATCAATGACAACTCTTTATCATCAATCAACT
1 CACACATATTCATGCATCGATTTTGACATTCCATATCAATGACAACTCTTTATCATCAATCAACT
26492496 ACATGTTAGTCTTAATGCATTATTTTTGTCCTATCCAACAATAATACTTGATTAAGGACCTTTTA
66 ACATGTTAGTCTTAATGCATTATTTTTGTCCTATCCAACAATAATACTTGATTAAGGACCTTTTA
26492561 AGAATAATCATATTACTCTCAAGACATTATTATAAAATAGTTTATTTATACATACAGAAAAGAAA
131 AGAATAATCATATTACTCTCAAGACATTATTATAAAATAGTTTATTTATACATACAGAAAAGAAA
26492626 TTGAAATAATAATGGTAACGCCTTATATCAATAAACATGATAAATCAAGTATGTTATTACAACCA
196 TTGAAATAATAATGGTAACGCCTTATATCAATAAACATGATAAATCAAGTATGTTATTACAACCA
26492691 TCTCATGATTGATCTTTGGGCATACTCTAACAATCTCC
261 TCTCATGATTGATCTTTGGGCATACTCTAACAATCTCC
26492729 CACACATATTCATGCATCGATTTTGACATTCCATATCAATGACAACTCTTTATCATCAATCAACT
1 CACACATATTCATGCATCGATTTTGACATTCCATATCAATGACAACTCTTTATCATCAATCAACT
*
26492794 ACATGTTAGTCTTAATGCATTATTTTTGTCCTATCCAACAATAATTCTTGATTAAGGACCTTTTA
66 ACATGTTAGTCTTAATGCATTATTTTTGTCCTATCCAACAATAATACTTGATTAAGGACCTTTTA
* *
26492859 AGAATAATCATATTACTCTCAGGATATTATTATAAAATAGTTTATTTATACATACAGAAAAGAAA
131 AGAATAATCATATTACTCTCAAGACATTATTATAAAATAGTTTATTTATACATACAGAAAAGAAA
* *
26492924 TTGAAATAATAATGGTAACGTCTTATATTAATAAACATGATAAATCAAGTATGTTATTACAACCA
196 TTGAAATAATAATGGTAACGCCTTATATCAATAAACATGATAAATCAAGTATGTTATTACAACCA
26492989 TCTCATGATTGATCTTTGGGCATACTCTAACAATCTCC
261 TCTCATGATTGATCTTTGGGCATACTCTAACAATCTCC
26493027 CAC
1 CAC
26493030 TAGCAGTAAG
Statistics
Matches: 295, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
298 295 1.00
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.36
Consensus pattern (298 bp):
CACACATATTCATGCATCGATTTTGACATTCCATATCAATGACAACTCTTTATCATCAATCAACT
ACATGTTAGTCTTAATGCATTATTTTTGTCCTATCCAACAATAATACTTGATTAAGGACCTTTTA
AGAATAATCATATTACTCTCAAGACATTATTATAAAATAGTTTATTTATACATACAGAAAAGAAA
TTGAAATAATAATGGTAACGCCTTATATCAATAAACATGATAAATCAAGTATGTTATTACAACCA
TCTCATGATTGATCTTTGGGCATACTCTAACAATCTCC
Found at i:26495145 original size:893 final size:891
Alignment explanation
Indices: 26493383--26495169 Score: 3484
Period size: 893 Copynumber: 2.0 Consensus size: 891
26493373 CACCCAGTTC
*
26493383 ACAATGAACGAAAGGAATCCCCAAAGCTGTTTTGGAAAAAAAACTTTTCTTTGACGACTGCTAGA
1 ACAATGAACGAAAGGAATCCCCAAAGCTGTTTTGGAAAAAAAACTTTGCTTTGACGACTGCTAGA
*
26493448 CCCCAAGCAAAGAAAAAATAGGATTTTTATATATATTTTTAGGGTTTCTAGAAATTAAATAAATA
66 CCCCAAGCAAAGAAAAAATAGGATTTTTATATATATTTTTAGGGTTTCTAAAAATTAAATAAATA
26493513 TAACTATGTTTTAAACCAAAAATTATAATTACATTAATTATAATATGATTTCGGTAAACTATATA
131 TAACTATGTTTTAAACCAAAAATTATAATTACATTAATTATAATATGATTTCGGTAAACTATATA
26493578 TTTATTTGAATTTATATACTAACCAAATTCATGTTCTCATTATGTGTACAACAACCTTGTACATA
196 TTTATTTGAATTTATATACTAACCAAATTCATGTTCTCATTATGTGTACAACAACCTTGTACATA
26493643 ATGTGTTCGATATTTGATTATCCAATTAAATTAATTCTATAATTAATTTAATTCAATCGATAACC
261 ATGTGTTCGATATTTGATTATCCAATTAAATTAATTCTATAATTAATTTAATTCAATCGATAACC
26493708 AAACACAATACCAACTATGTTTTATTCTGTTCATTTCAACTATAGGGTGTGACCCTGTAGGTTCT
326 AAACACAATACCAACTATGTTTTATTCTGTTCATTTCAACTATAGGGTGTGACCCTGTAGGTTCT
26493773 TGTAACGTTAGCAATAATACTAGAACGATTCCAATGTTACAAACAATGAGTGGCACCTAGCAATG
391 TGTAACGTTAGCAATAATACTAGAACGATTCCAATGTTACAAACAATGAGTGGCACCTAGCAATG
26493838 CATCATTGCTACCTAAGTCACAAGAAATAATGATTCAACATAACCTTTTTATGATTAACCTTTCA
456 CATCATTGCTACCTAAGTCACAAGAAATAATGATTCAACATAACCTTTTTATGATTAACCTTTCA
26493903 TGCAGTAATCCTTAAGTCATTTATCTCTGGATTGGACACAAGTCATGGAATAGTCACACTTGCAT
521 TGCAGTAATCCTTAAGTCATTTATCTCTGGATTGGACACAAGTCATGGAATAGTCACACTTGCAT
*
26493968 AGTCCATTCCATGTCCCTTGATATCTTAAATAGACTATGATATACAAATAAGTATGACATCTCAT
586 AGTCCATTCCATGTCCCTTAATATCTTAAATAGACTATGATATACAAATAAGTATGACATCTCAT
*
26494033 ATCAGCTTATTTGAGCATGGCCATGCATTTCTAGTCTCACTCAATCAAGTGGTCTAAGATATTAC
651 ATCAGCTTATTTGAGCATGGCCATGCATTTCTAGTCTCACTCAATCAAGTGGCCTAAGATATTAC
*
26494098 TCCCATTATGTAGAAGGGACTTATCTTATATCGATCAACCATATCCCTCTACATAGATTGTGGTA
716 TCCCATTATGTAGAAGGGACTTATCCTATATCGATCAACCATATCCCTCTACATAGATTGTGGTA
*
26494163 TATCCAACATCAGCCATTATAGAACAACCAGTTACGGTGTACATTTGACTGTATCAAACTATACA
781 TATCCAACATCAGCCATTATAGAACAACCAGTTACGGTGTACATTTGACTGTATCAAAATATACA
26494228 ACTCACGATGTTGGGATTATGATGATCTCAAGTCTGAGGATCATAT
846 ACTCACGATGTTGGGATTATGATGATCTCAAGTCTGAGGATCATAT
26494274 ACAATGAACGAAAGGAATCCCCAAAGCTGTTTTGGAAAAAAAAAACTTTGCTTTGACGACTGCTA
1 ACAATGAACGAAAGGAATCCCCAAAGCTGTTTTGG--AAAAAAAACTTTGCTTTGACGACTGCTA
*
26494339 GACCCCAAGCAAAGAAAAAATAGGATTTTTATATCTATTTTTAGGGTTTCTAAAAATTAAATAAA
64 GACCCCAAGCAAAGAAAAAATAGGATTTTTATATATATTTTTAGGGTTTCTAAAAATTAAATAAA
26494404 TATAACTATGTTTTAAACCAAAAATTATAATTACATTAATTATAATATGATTTCGGTAAACTATA
129 TATAACTATGTTTTAAACCAAAAATTATAATTACATTAATTATAATATGATTTCGGTAAACTATA
26494469 TATTTATTTGAATTTATATACTAACCAAATTCATGTTCTCATTATGTGTACAACAACCTTGTACA
194 TATTTATTTGAATTTATATACTAACCAAATTCATGTTCTCATTATGTGTACAACAACCTTGTACA
*
26494534 TAATGTGTTCGATATTTGATTATCCAATTAAATTAATTCTATAATTAATTTAATTTAATCGATAA
259 TAATGTGTTCGATATTTGATTATCCAATTAAATTAATTCTATAATTAATTTAATTCAATCGATAA
26494599 CCAAACACAATACCAACTATGTTTTATTCTGTTCATTTCAACTATAGGGTGTGACCCTGTAGGTT
324 CCAAACACAATACCAACTATGTTTTATTCTGTTCATTTCAACTATAGGGTGTGACCCTGTAGGTT
26494664 CTTGTAACGTTAGCAATAATACTAGAACGATTCCAATGTTACAAACAATGAGTGGCACCTAGCAA
389 CTTGTAACGTTAGCAATAATACTAGAACGATTCCAATGTTACAAACAATGAGTGGCACCTAGCAA
26494729 TGCATCATTGCTACCTAAGTCACAAGAAATAATGATTCAACATAACCTTTTTATGATTAACCTTT
454 TGCATCATTGCTACCTAAGTCACAAGAAATAATGATTCAACATAACCTTTTTATGATTAACCTTT
26494794 CATGCAGTAATCCTTAAGTCATTTATCTCTGGATTGGACACAAGTCATGGAATAGTCACACTTGC
519 CATGCAGTAATCCTTAAGTCATTTATCTCTGGATTGGACACAAGTCATGGAATAGTCACACTTGC
26494859 ATAGTCCATTCCATGTCCCTTAATATCTTAAATAGACTATGATATACAAATAAGTATGACATCTC
584 ATAGTCCATTCCATGTCCCTTAATATCTTAAATAGACTATGATATACAAATAAGTATGACATCTC
26494924 ATATCAGCTTATTTGAGCATGGCCATGCATTTCTAGTCTCACTCAATCAAGTGGCCTAAGATATT
649 ATATCAGCTTATTTGAGCATGGCCATGCATTTCTAGTCTCACTCAATCAAGTGGCCTAAGATATT
26494989 ACTCCCATTATGTAGAAGGGACTTATCCTATATCGATCAACCATATCCCTCTACATAGATTGTGG
714 ACTCCCATTATGTAGAAGGGACTTATCCTATATCGATCAACCATATCCCTCTACATAGATTGTGG
26495054 TATATCCAACATCAGCCATTATAGAACAACCAGTTACGGTGTACATTTGACTGTATCAAAATATA
779 TATATCCAACATCAGCCATTATAGAACAACCAGTTACGGTGTACATTTGACTGTATCAAAATATA
26495119 CAACTCACGATGTTGGGATTATGATGATCTCAAGTCTGAGGATCATAT
844 CAACTCACGATGTTGGGATTATGATGATCTCAAGTCTGAGGATCATAT
26495167 ACA
1 ACA
26495170 TATTAATCAC
Statistics
Matches: 886, Mismatches: 8, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
891 35 0.04
893 851 0.96
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.34
Consensus pattern (891 bp):
ACAATGAACGAAAGGAATCCCCAAAGCTGTTTTGGAAAAAAAACTTTGCTTTGACGACTGCTAGA
CCCCAAGCAAAGAAAAAATAGGATTTTTATATATATTTTTAGGGTTTCTAAAAATTAAATAAATA
TAACTATGTTTTAAACCAAAAATTATAATTACATTAATTATAATATGATTTCGGTAAACTATATA
TTTATTTGAATTTATATACTAACCAAATTCATGTTCTCATTATGTGTACAACAACCTTGTACATA
ATGTGTTCGATATTTGATTATCCAATTAAATTAATTCTATAATTAATTTAATTCAATCGATAACC
AAACACAATACCAACTATGTTTTATTCTGTTCATTTCAACTATAGGGTGTGACCCTGTAGGTTCT
TGTAACGTTAGCAATAATACTAGAACGATTCCAATGTTACAAACAATGAGTGGCACCTAGCAATG
CATCATTGCTACCTAAGTCACAAGAAATAATGATTCAACATAACCTTTTTATGATTAACCTTTCA
TGCAGTAATCCTTAAGTCATTTATCTCTGGATTGGACACAAGTCATGGAATAGTCACACTTGCAT
AGTCCATTCCATGTCCCTTAATATCTTAAATAGACTATGATATACAAATAAGTATGACATCTCAT
ATCAGCTTATTTGAGCATGGCCATGCATTTCTAGTCTCACTCAATCAAGTGGCCTAAGATATTAC
TCCCATTATGTAGAAGGGACTTATCCTATATCGATCAACCATATCCCTCTACATAGATTGTGGTA
TATCCAACATCAGCCATTATAGAACAACCAGTTACGGTGTACATTTGACTGTATCAAAATATACA
ACTCACGATGTTGGGATTATGATGATCTCAAGTCTGAGGATCATAT
Found at i:26497869 original size:42 final size:42
Alignment explanation
Indices: 26497809--26497939 Score: 147
Period size: 43 Copynumber: 3.1 Consensus size: 42
26497799 TAGGGTCCCG
* *
26497809 ATATGTGATTTACGTGTAAGACCATGTCTGGGACATTGGCAAC
1 ATATATGA-TTACGTGTAAGACCATGTCTGGGACATTGGCATC
* * *
26497852 ATATATGATTACGTGTAAGACCCTGTCTGGCACAGTGGCATC
1 ATATATGATTACGTGTAAGACCATGTCTGGGACATTGGCATC
* * * *
26497894 GTTATTTGATTACATGTAAGACCACGTCTGGGA-AGTTGGCATC
1 -ATATATGATTACGTGTAAGACCATGTCTGGGACA-TTGGCATC
26497937 ATA
1 ATA
26497940 CGGGCTTTTT
Statistics
Matches: 73, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
42 33 0.45
43 40 0.55
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (42 bp):
ATATATGATTACGTGTAAGACCATGTCTGGGACATTGGCATC
Found at i:26499751 original size:26 final size:27
Alignment explanation
Indices: 26499722--26499785 Score: 103
Period size: 26 Copynumber: 2.4 Consensus size: 27
26499712 CATATAAGTG
26499722 AGCCTTTGTGACTATCTCTA-AAAGGA
1 AGCCTTTGTGACTATCTCTATAAAGGA
*
26499748 AGCCTTTGTGACTGTCTCTATTAAAGGA
1 AGCCTTTGTGACTATCTCTA-TAAAGGA
26499776 AGCCTTTGTG
1 AGCCTTTGTG
26499786 GTGATCTTTG
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
26 19 0.54
28 16 0.46
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (27 bp):
AGCCTTTGTGACTATCTCTATAAAGGA
Found at i:26499782 original size:28 final size:29
Alignment explanation
Indices: 26499722--26499901 Score: 140
Period size: 29 Copynumber: 6.3 Consensus size: 29
26499712 CATATAAGTG
26499722 AGCCTTTGTGACT-ATCTCTA--AAAGGA
1 AGCCTTTGTGACTGATCTCTATTAAAGGA
26499748 AGCCTTTGTGACTG-TCTCTATTAAAGGA
1 AGCCTTTGTGACTGATCTCTATTAAAGGA
* * * *
26499776 AGCCTTTGTG-GTGATCTTTGTTAAATGAA
1 AGCCTTTGTGACTGATCTCTATTAAA-GGA
* **
26499805 AGCTTTTGTGACAAATCTCTATTATAAGGA
1 AGCCTTTGTGACTGATCTCTATTA-AAGGA
* * * * *
26499835 AGTCTTTGTGGC-GATCTTTGTTAAATGAA
1 AGCCTTTGTGACTGATCTCTATTAAA-GGA
* * *
26499864 AGTCTTTGTGGC-GATCTCTATTAAATGA
1 AGCCTTTGTGACTGATCTCTATTAAAGGA
26499892 ATGCCTTTGT
1 A-GCCTTTGT
26499902 TGTTGTTTTT
Statistics
Matches: 122, Mismatches: 23, Indels: 15
0.76 0.14 0.09
Matches are distributed among these distances:
26 19 0.16
27 2 0.02
28 29 0.24
29 51 0.42
30 19 0.16
31 2 0.02
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.38
Consensus pattern (29 bp):
AGCCTTTGTGACTGATCTCTATTAAAGGA
Found at i:26499842 original size:59 final size:57
Alignment explanation
Indices: 26499751--26499901 Score: 196
Period size: 59 Copynumber: 2.6 Consensus size: 57
26499741 AAAAGGAAGC
** *
26499751 CTTTGTGACTGTCTCTATTAAAGGAAGCCTTTGTGGTGATCTTTGTTAAATGAAAG-
1 CTTTGTGACAATCTCTATTAAAGGAAGCCTTTGTGGCGATCTTTGTTAAATGAAAGT
*
26499807 CTTTTGTGACAAATCTCTATTATAAGGAAGTCTTTGTGGCGATCTTTGTTAAATGAAAGT
1 C-TTTGTGAC-AATCTCTATTA-AAGGAAGCCTTTGTGGCGATCTTTGTTAAATGAAAGT
* * *
26499867 CTTTGTGGCGATCTCTATTAAATGAATGCCTTTGT
1 CTTTGTGACAATCTCTATTAAAGGAA-GCCTTTGT
26499902 TGTTGTTTTT
Statistics
Matches: 82, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
56 1 0.01
57 13 0.16
58 26 0.32
59 41 0.50
60 1 0.01
ACGTcount: A:0.25, C:0.13, G:0.21, T:0.40
Consensus pattern (57 bp):
CTTTGTGACAATCTCTATTAAAGGAAGCCTTTGTGGCGATCTTTGTTAAATGAAAGT
Found at i:26499957 original size:29 final size:28
Alignment explanation
Indices: 26499742--26499978 Score: 134
Period size: 29 Copynumber: 8.2 Consensus size: 28
26499732 ACTATCTCTA
* * * * *
26499742 AAAGGAAGCCTTTGTGACTGTCTCTATT
1 AAAGGAAGCCTTTGTGGCTATCTTTGTC
*
26499770 AAAGGAAGCCTTTGTGG-TGATCTTTGTT
1 AAAGGAAGCCTTTGTGGCT-ATCTTTGTC
* * * * * * *
26499798 AAATGAAAGCTTTTGTGACAAATCTCTATT
1 AAA-GGAAGCCTTTGTGGC-TATCTTTGTC
* * *
26499828 ATAAGGAAGTCTTTGTGGCGATCTTTGTT
1 A-AAGGAAGCCTTTGTGGCTATCTTTGTC
* * * * * *
26499857 AAATGAAAGTCTTTGTGGCGATCTCTATT
1 AAA-GGAAGCCTTTGTGGCTATCTTTGTC
* * * * *
26499886 AAATGAATGCCTTTGTTGTTGTTTTTGTC
1 AAAGGAA-GCCTTTGTGGCTATCTTTGTC
*
26499915 ATAGGAAGCCTTTGTGGCTATCTTTGTC
1 AAAGGAAGCCTTTGTGGCTATCTTTGTC
* *
26499943 AAAAGGATGCCTTTGTGGCTATCTTTGTT
1 -AAAGGAAGCCTTTGTGGCTATCTTTGTC
26499972 AAAGGAA
1 AAAGGAA
26499979 TGTCTTGTGG
Statistics
Matches: 160, Mismatches: 41, Indels: 16
0.74 0.19 0.07
Matches are distributed among these distances:
27 1 0.01
28 52 0.32
29 86 0.54
30 19 0.12
31 2 0.01
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.39
Consensus pattern (28 bp):
AAAGGAAGCCTTTGTGGCTATCTTTGTC
Found at i:26499978 original size:57 final size:57
Alignment explanation
Indices: 26499742--26500012 Score: 201
Period size: 57 Copynumber: 4.7 Consensus size: 57
26499732 ACTATCTCTA
*
26499742 AAAGGAAGCCTTTGTGACTGTCTCTATT-AAAGGAAGCCTTTGTGG-TGATCTTTGTT
1 AAAGGAAGCCTTTGTGACTATCTCTATTAAAAGGAAGCCTTTGTGGCT-ATCTTTGTT
* * * * * *
26499798 AAATGAAAGCTTTTGTGACAAATCTCTATTATAAGGAAGTCTTTGTGGCGATCTTTGTT
1 AAA-GGAAGCCTTTGTGAC-TATCTCTATTAAAAGGAAGCCTTTGTGGCTATCTTTGTT
* * * * * * * * * *
26499857 AAATGAAAGTCTTTGTGGCGATCTCTATT-AAATGAATGCCTTTGTTGTTGTTTTTGTC
1 AAA-GGAAGCCTTTGTGACTATCTCTATTAAAAGGAA-GCCTTTGTGGCTATCTTTGTT
* * * * * *
26499915 ATAGGAAGCCTTTGTGGCTATCTTTGTCAAAAGGATGCCTTTGTGGCTATCTTTGTT
1 AAAGGAAGCCTTTGTGACTATCTCTATTAAAAGGAAGCCTTTGTGGCTATCTTTGTT
* * * *
26499972 AAAGGAATGTC-TTGTGGCAAAT-TCTATTAAAAGGACGCCTT
1 AAAGGAA-GCCTTTGTGAC-TATCTCTATTAAAAGGAAGCCTT
26500013 GAAGACAACT
Statistics
Matches: 166, Mismatches: 41, Indels: 15
0.75 0.18 0.07
Matches are distributed among these distances:
56 3 0.02
57 81 0.49
58 42 0.25
59 40 0.24
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.39
Consensus pattern (57 bp):
AAAGGAAGCCTTTGTGACTATCTCTATTAAAAGGAAGCCTTTGTGGCTATCTTTGTT
Found at i:26504220 original size:2 final size:2
Alignment explanation
Indices: 26504215--26504254 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
26504205 TAATCGTTGA
26504215 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26504255 TGAGTATTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26508853 original size:23 final size:23
Alignment explanation
Indices: 26508809--26508859 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
26508799 TAATTTTTAA
* *
26508809 ATTTTAAATTATTTAATGATAAT
1 ATTTAAAATTATTTAAGGATAAT
26508832 ATTTAAAATTATTT-AGGAATAAT
1 ATTTAAAATTATTTAAGG-ATAAT
26508855 ATTTA
1 ATTTA
26508860 GGAAAAATCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 2 0.08
23 23 0.92
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (23 bp):
ATTTAAAATTATTTAAGGATAAT
Found at i:26510427 original size:17 final size:17
Alignment explanation
Indices: 26510405--26510438 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
26510395 CTGAAAGAGT
*
26510405 TCCACATGGTTTGTCTA
1 TCCACAGGGTTTGTCTA
26510422 TCCACAGGGTTTGTCTA
1 TCCACAGGGTTTGTCTA
26510439 AGCATGAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.38
Consensus pattern (17 bp):
TCCACAGGGTTTGTCTA
Found at i:26515464 original size:22 final size:22
Alignment explanation
Indices: 26515416--26515464 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
26515406 GGGAAACCAC
*
26515416 ATTTATTTTTATTTATTTATTT
1 ATTTATTTTTATATATTTATTT
26515438 ATTTATTTTTA-AT-TTTAGTTT
1 ATTTATTTTTATATATTTA-TTT
26515459 AGTTTA
1 A-TTTA
26515465 GGAATTAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 4 0.17
21 5 0.21
22 15 0.62
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.71
Consensus pattern (22 bp):
ATTTATTTTTATATATTTATTT
Found at i:26516947 original size:23 final size:23
Alignment explanation
Indices: 26516921--26516972 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
26516911 TGATTTTTAA
*
26516921 ATTTTGAATCATTTAGTGATAAT
1 ATTTAGAATCATTTAGTGATAAT
*
26516944 ATTTAGAATTATTTAGTGATAAT
1 ATTTAGAATCATTTAGTGATAAT
26516967 ATTTAG
1 ATTTAG
26516973 GAAAAATCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.37, C:0.02, G:0.13, T:0.48
Consensus pattern (23 bp):
ATTTAGAATCATTTAGTGATAAT
Found at i:26516949 original size:13 final size:13
Alignment explanation
Indices: 26516931--26516972 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
26516921 ATTTTGAATC
26516931 ATTTAGTGATAAT
1 ATTTAGTGATAAT
*
26516944 ATTTA--GA-ATT
1 ATTTAGTGATAAT
26516954 ATTTAGTGATAAT
1 ATTTAGTGATAAT
26516967 ATTTAG
1 ATTTAG
26516973 GAAAAATCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
10 7 0.29
11 2 0.08
12 2 0.08
13 13 0.54
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (13 bp):
ATTTAGTGATAAT
Found at i:26517837 original size:20 final size:20
Alignment explanation
Indices: 26517810--26517862 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
26517800 AAAAAAATAT
26517810 TTTA-TTTTATTTTCTT-AAA
1 TTTATTTTTATTTT-TTCAAA
* *
26517829 TTTATTTTTGTTTTTTCGAA
1 TTTATTTTTATTTTTTCAAA
*
26517849 TATATTTTTATTTT
1 TTTATTTTTATTTT
26517863 ATTTATTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 6 0.21
20 22 0.79
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.72
Consensus pattern (20 bp):
TTTATTTTTATTTTTTCAAA
Found at i:26518673 original size:17 final size:17
Alignment explanation
Indices: 26518651--26518707 Score: 84
Period size: 17 Copynumber: 3.5 Consensus size: 17
26518641 TAACAATAAT
26518651 ATTAAAAATTTCAAAAA
1 ATTAAAAATTTCAAAAA
*
26518668 ATTAAAAATATCAAAAA
1 ATTAAAAATTTCAAAAA
26518685 ATTAAAAA-TT--AAAA
1 ATTAAAAATTTCAAAAA
26518699 ATTAAAAAT
1 ATTAAAAAT
26518708 CATAAAATTC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
14 12 0.32
16 1 0.03
17 24 0.65
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (17 bp):
ATTAAAAATTTCAAAAA
Found at i:26518691 original size:6 final size:7
Alignment explanation
Indices: 26518664--26518707 Score: 61
Period size: 7 Copynumber: 5.9 Consensus size: 7
26518654 AAAAATTTCA
26518664 AAAAATT
1 AAAAATT
26518671 AAAAATAT
1 AAAAAT-T
26518679 CAAAAAATT
1 --AAAAATT
26518688 AAAAATT
1 AAAAATT
26518695 AAAAATT
1 AAAAATT
26518702 AAAAAT
1 AAAAAT
26518708 CATAAAATTC
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
7 26 0.76
8 1 0.03
9 1 0.03
10 6 0.18
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (7 bp):
AAAAATT
Found at i:26521760 original size:21 final size:20
Alignment explanation
Indices: 26521729--26521767 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
26521719 ATTTACTTAC
*
26521729 AAATATATTTTATTTTTTAT
1 AAATATATTTTATATTTTAT
26521749 AAATATATTTTTATATTTT
1 AAATATA-TTTTATATTTT
26521768 CAATTAGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
AAATATATTTTATATTTTAT
Found at i:26523442 original size:47 final size:47
Alignment explanation
Indices: 26523386--26523530 Score: 122
Period size: 47 Copynumber: 3.1 Consensus size: 47
26523376 ATAAGAACAT
*
26523386 TTTATTATTAAGAATTTTATGAAATTATAAATCATTATTAAATTATA
1 TTTAATATTAAGAATTTTATGAAATTATAAATCATTATTAAATTATA
** * *
26523433 TTTAATATTAATTATTTTA--AATTGTATAAATTCA-TA-TAAGA--AAA
1 TTTAATATTAAGAATTTTATGAAAT-TATAAA-TCATTATTAA-ATTATA
* * * * *
26523477 TTTATTATCAAGAATTTTGTGAAATTATATATTATTATTAAATTATA
1 TTTAATATTAAGAATTTTATGAAATTATAAATCATTATTAAATTATA
*
26523524 TGTAATA
1 TTTAATA
26523531 ATTATTAGTT
Statistics
Matches: 73, Mismatches: 16, Indels: 18
0.68 0.15 0.17
Matches are distributed among these distances:
44 18 0.25
45 14 0.19
46 15 0.21
47 26 0.36
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (47 bp):
TTTAATATTAAGAATTTTATGAAATTATAAATCATTATTAAATTATA
Found at i:26523494 original size:44 final size:44
Alignment explanation
Indices: 26523367--26523574 Score: 117
Period size: 44 Copynumber: 4.6 Consensus size: 44
26523357 TTGATTTTAG
*
26523367 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTA
1 TAAATTCATATAAGAA-AATTTATTATTAAGAATTTTA-GAAATTA
* * ** *
26523413 TAAA-TCATTATTAA-ATTATATTTAATATTAATTATTTTA-AATTGTA
1 TAAATTCA-TA-TAAGA--AAATTTATTATTAAGAATTTTAGAAAT-TA
* *
26523459 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTGTGAAATTA
1 TAAATTCATATAAGAAAATTTATTATTAAGAATTTT-AGAAATTA
* ** *
26523504 TATATT-AT-T-ATTAAA-TTA-TATGTAATAATTATTAGTTTAAATTA
1 TAAATTCATATAAGAAAATTTATTAT-TAAGAATT-TTAG---AAATTA
26523548 TACAAATTCATATAAGAAAATTTATTA
1 T--AAATTCATATAAGAAAATTTATTA
26523575 GTTATAATTA
Statistics
Matches: 119, Mismatches: 22, Indels: 37
0.67 0.12 0.21
Matches are distributed among these distances:
40 3 0.03
41 10 0.08
42 6 0.05
43 1 0.01
44 25 0.21
45 16 0.13
46 23 0.19
47 24 0.20
48 2 0.02
49 4 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (44 bp):
TAAATTCATATAAGAAAATTTATTATTAAGAATTTTAGAAATTA
Found at i:26523514 original size:91 final size:91
Alignment explanation
Indices: 26523367--26523574 Score: 310
Period size: 91 Copynumber: 2.3 Consensus size: 91
26523357 TTGATTTTAG
* *
26523367 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATAAATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATAAATCATTATTAAATTAT
* * *
26523432 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTAGTTTAAATTATA
* * *
26523459 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTGTGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATAAATCATTATTAAATTATA
26523524 TGTAATAATTATTAGTTTAAATTATA
66 TGTAATAATTATTAGTTTAAATTATA
*
26523550 CAAATTCATATAAGAAAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
26523575 GTTATAATTA
Statistics
Matches: 106, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
91 87 0.82
92 19 0.18
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATAAATCATTATTAAATTATA
TGTAATAATTATTAGTTTAAATTATA
Found at i:26523877 original size:21 final size:19
Alignment explanation
Indices: 26523839--26523878 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
26523829 GAATTTTATT
*
26523839 AAATTATTTATTTTAATTA
1 AAATTATTTATATTAATTA
26523858 AAATATATTTAATATTAATTA
1 AAAT-TATTT-ATATTAATTA
26523879 TTTCAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 5 0.28
21 9 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
AAATTATTTATATTAATTA
Found at i:26523997 original size:21 final size:19
Alignment explanation
Indices: 26523959--26523998 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
26523949 GAATTTTATT
*
26523959 AAATTATTTATTTTAATTA
1 AAATTATTTATATTAATTA
26523978 AAATATATTTAATATTAATTA
1 AAAT-TATTT-ATATTAATTA
26523999 TTTCAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 5 0.28
21 9 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
AAATTATTTATATTAATTA
Found at i:26524230 original size:15 final size:15
Alignment explanation
Indices: 26524195--26524246 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
26524185 TTAAGAATTT
*
26524195 TATTAAATTAT-ATA
1 TATTTAATTATAATA
26524209 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
26524223 TATTTAATAATAAT-
1 TATTTAATTATAATA
26524237 TATGTTAATT
1 TAT-TTAATT
26524247 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:26524345 original size:16 final size:16
Alignment explanation
Indices: 26524306--26524365 Score: 54
Period size: 16 Copynumber: 3.8 Consensus size: 16
26524296 TATTGATTAT
*
26524306 TAATA-ATTTTATTAAA
1 TAATATATTTTAAT-AA
* *
26524322 TTATATATTTTAATTA
1 TAATATATTTTAATAA
26524338 TAATATA-TTTAATAA
1 TAATATATTTTAATAA
26524353 TAAT-TATGTTTAA
1 TAATATAT-TTTAA
26524366 ATATGATTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
14 2 0.06
15 11 0.31
16 16 0.44
17 7 0.19
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
TAATATATTTTAATAA
Found at i:26524350 original size:15 final size:15
Alignment explanation
Indices: 26524315--26524356 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
26524305 TTAATAATTT
*
26524315 TATTAAATTAT-ATA
1 TATTTAATTATAATA
26524329 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
26524343 TATTTAATAATAAT
1 TATTTAATTATAAT
26524357 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:26524362 original size:120 final size:120
Alignment explanation
Indices: 26523593--26524359 Score: 1358
Period size: 120 Copynumber: 6.4 Consensus size: 120
26523583 TATTTTAAAA
* *
26523593 TTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTTATA
1 TTTATTAAATTATTTATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTTATA
26523658 GTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAAT
66 GTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAAT
*
26523713 TTTATTAAATTGTTTATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTTATA
1 TTTATTAAATTATTTATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTTATA
* *
26523778 GTATCATATATTATGATTTGAGTCAATTCATATAAAAATATTAATTATTAAGAAT
66 GTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAAT
26523833 TTTATTAAATTATTTATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTTATA
1 TTTATTAAATTATTTATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTTATA
26523898 GTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAAT
66 GTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAAT
26523953 TTTATTAAATTATTTATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTTATA
1 TTTATTAAATTATTTATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTTATA
26524018 GTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAAT
66 GTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAAT
*
26524073 TTTATTAAATTATTTATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATCTTTTAT
1 TTTATTAAATTATTTATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTTTAT
26524137 AGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAAT
65 AGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAAT
* * * * *
26524193 TTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AATTTATATTTTAT
1 TTTATTAAATTATTTATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTTTAT
* *
26524257 AGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAATAAT
65 AGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAAT
* * *
26524313 TTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTAT
1 TTTATTAAATTATTTATTTTAATTAAAATATATTTAATATTAATTAT
26524360 GTTTAAATAT
Statistics
Matches: 631, Mismatches: 15, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
120 629 1.00
121 2 0.00
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
TTTATTAAATTATTTATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTTATA
GTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAAT
Found at i:26526527 original size:13 final size:13
Alignment explanation
Indices: 26526509--26526548 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
26526499 AGTTTGGCAA
26526509 TACTTTTGAAAAG
1 TACTTTTGAAAAG
26526522 TACTTTTGAAAAG
1 TACTTTTGAAAAG
*
26526535 TGCTTTTGAAAAG
1 TACTTTTGAAAAG
26526548 T
1 T
26526549 TTGGTTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.40
Consensus pattern (13 bp):
TACTTTTGAAAAG
Found at i:26528248 original size:32 final size:32
Alignment explanation
Indices: 26528212--26528280 Score: 120
Period size: 32 Copynumber: 2.2 Consensus size: 32
26528202 TGATATTGCG
* *
26528212 ATGTCTTTGATATGTGAGGATGGGTGTTTGTA
1 ATGTCTTTGATATGTGAGGATAGGTGATTGTA
26528244 ATGTCTTTGATATGTGAGGATAGGTGATTGTA
1 ATGTCTTTGATATGTGAGGATAGGTGATTGTA
26528276 ATGTC
1 ATGTC
26528281 AGTTTGGTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.22, C:0.04, G:0.32, T:0.42
Consensus pattern (32 bp):
ATGTCTTTGATATGTGAGGATAGGTGATTGTA
Found at i:26533778 original size:14 final size:13
Alignment explanation
Indices: 26533750--26533782 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
26533740 TATATATAAA
26533750 TTGATG-AATTGG
1 TTGATGAAATTGG
26533762 TTGATGAAATGTGG
1 TTGATGAAAT-TGG
26533776 TTGATGA
1 TTGATGA
26533783 GTTATGAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.32
13 3 0.16
14 10 0.53
ACGTcount: A:0.27, C:0.00, G:0.33, T:0.39
Consensus pattern (13 bp):
TTGATGAAATTGG
Found at i:26535733 original size:18 final size:18
Alignment explanation
Indices: 26535710--26535759 Score: 73
Period size: 18 Copynumber: 2.7 Consensus size: 18
26535700 CCAAGCAAAG
*
26535710 GAAACAATTAATTTTTAT
1 GAAACAATTAATTTTCAT
*
26535728 GAAACAATCAATTTTCAT
1 GAAACAATTAATTTTCAT
26535746 GAAACAATCTAATT
1 GAAACAAT-TAATT
26535760 ACAATATTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.46, C:0.12, G:0.06, T:0.36
Consensus pattern (18 bp):
GAAACAATTAATTTTCAT
Found at i:26536700 original size:18 final size:18
Alignment explanation
Indices: 26536677--26536712 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
26536667 TTCCTACAAA
26536677 GTATAGTTTGTAATTTAT
1 GTATAGTTTGTAATTTAT
26536695 GTATAGTTTGTAATTTAT
1 GTATAGTTTGTAATTTAT
26536713 CCTTTTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.17, T:0.56
Consensus pattern (18 bp):
GTATAGTTTGTAATTTAT
Found at i:26539140 original size:16 final size:16
Alignment explanation
Indices: 26539119--26539152 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
26539109 TTGAGATAAC
26539119 ATAAAT-AAATAATTAA
1 ATAAATCAAA-AATTAA
26539135 ATAAATCAAAAATTAA
1 ATAAATCAAAAATTAA
26539151 AT
1 AT
26539153 TCAAATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.82
17 3 0.18
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (16 bp):
ATAAATCAAAAATTAA
Found at i:26541204 original size:12 final size:13
Alignment explanation
Indices: 26541179--26541209 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
26541169 TTCAAATGAA
26541179 TCATTTCTCATTT
1 TCATTTCTCATTT
26541192 TCATTTC-CATTT
1 TCATTTCTCATTT
26541204 TCATTT
1 TCATTT
26541210 TGAGAAAACC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.16, C:0.23, G:0.00, T:0.61
Consensus pattern (13 bp):
TCATTTCTCATTT
Found at i:26550722 original size:18 final size:19
Alignment explanation
Indices: 26550696--26550741 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
26550686 GTGGTCCCTG
*
26550696 GCGGTGGCGTGGC-TCGGC
1 GCGGAGGCGTGGCTTCGGC
* *
26550714 TCGGAGGCGTGGCTTTGGC
1 GCGGAGGCGTGGCTTCGGC
26550733 GCGGAGGCG
1 GCGGAGGCG
26550742 CCACACGCGC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.04, C:0.24, G:0.54, T:0.17
Consensus pattern (19 bp):
GCGGAGGCGTGGCTTCGGC
Found at i:26555622 original size:14 final size:15
Alignment explanation
Indices: 26555595--26555626 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
26555585 GTTTGAAGCC
26555595 ATTTAGTCATTTTTA
1 ATTTAGTCATTTTTA
26555610 ATTTAGT-ATTTTTA
1 ATTTAGTCATTTTTA
26555624 ATT
1 ATT
26555627 CTACAGCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.28, C:0.03, G:0.06, T:0.62
Consensus pattern (15 bp):
ATTTAGTCATTTTTA
Found at i:26558577 original size:16 final size:17
Alignment explanation
Indices: 26558546--26558578 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
26558536 AATCCCAAAC
*
26558546 CTCAAACAATACCTTTA
1 CTCAAACAAAACCTTTA
26558563 CTCAAA-AAAACCTTTA
1 CTCAAACAAAACCTTTA
26558579 AATCAAGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.27
Consensus pattern (17 bp):
CTCAAACAAAACCTTTA
Found at i:26558712 original size:12 final size:12
Alignment explanation
Indices: 26558685--26558731 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
26558675 AATTTAAAGC
26558685 ATATATACATAA-
1 ATATATACA-AAT
*
26558697 ATATTTACAAAT
1 ATATATACAAAT
*
26558709 ATATATACAAGT
1 ATATATACAAAT
26558721 ATAGTATACAA
1 ATA-TATACAA
26558732 GTAAACTTGC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
11 2 0.07
12 21 0.70
13 7 0.23
ACGTcount: A:0.53, C:0.09, G:0.04, T:0.34
Consensus pattern (12 bp):
ATATATACAAAT
Found at i:26560006 original size:10 final size:11
Alignment explanation
Indices: 26559982--26560011 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
26559972 ATTTTATACT
26559982 AAATAAAACGA
1 AAATAAAACGA
26559993 AAATAAAA-GA
1 AAATAAAACGA
26560003 AAATAAAAC
1 AAATAAAAC
26560012 ACGTGTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.77, C:0.07, G:0.07, T:0.10
Consensus pattern (11 bp):
AAATAAAACGA
Found at i:26561264 original size:45 final size:45
Alignment explanation
Indices: 26561104--26561563 Score: 251
Period size: 44 Copynumber: 10.2 Consensus size: 45
26561094 GTAATCTTCA
* * * * * * * *
26561104 ATCTATTTCACCGCCGGTATAGGAAGATAAAATATG-TATATTCG
1 ATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTATTTTCG
* * * * * * * *
26561148 ATCCACTTCGCTACCAATATAGGAAGACAGGACCTACTATCTTT-G
1 ATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTAT-TTTCG
* * *** *
26561193 ATCTATTTCA-CGCCAGTACATGAAGACAAGATTTGCTATTTTCG
1 ATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTATTTTCG
* * *
26561237 ATCTACTTCACCACCAGTATGGGAAGACAAGATTTGTTGACTTT-G
1 ATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCT-ATTTTCG
* * *** *
26561282 ATCTATTTCA-CGCC-GATACATGAAGACAAGATCTGCTTTCTTTCG
1 ATCTACTTCACCACCAG-TATGGGAAGACAAGATCTGCTAT-TTTCG
* * * * * *
26561327 ATCTGCTTCGCCACCAGTATGAGAAGGCGAGATCTG-TATATTCG
1 ATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTATTTTCG
* ***
26561371 ATCTACTTCA-CGCCAGTACATGAAGACAAGATCTG-TATTCCTTCG
1 ATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTATT--TTCG
* * * * * *
26561416 ATCTGCTTCGCCACCAGTATGGGAAGGCGAGATTTGTTATCTTT-G
1 ATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTAT-TTTCG
* * *** *
26561461 ATCTACTTCA-CGCCAATACATGAAGACAAAATCTGCTATTTCCTTCG
1 ATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTA-TT--TTCG
*
26561508 ATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTT-G
1 ATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTAT-TTTCG
26561553 ATCTACTTCAC
1 ATCTACTTCAC
26561564 GCCAATACAT
Statistics
Matches: 304, Mismatches: 91, Indels: 41
0.70 0.21 0.09
Matches are distributed among these distances:
43 26 0.09
44 106 0.35
45 86 0.28
46 47 0.15
47 15 0.05
48 24 0.08
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (45 bp):
ATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTATTTTCG
Found at i:26561549 original size:92 final size:91
Alignment explanation
Indices: 26561144--26561587 Score: 567
Period size: 89 Copynumber: 4.9 Consensus size: 91
26561134 AATATGTATA
* * * * * * * * *
26561144 TTCGATCCACTTCGCTACCAATATAGGAAGACAGGACCTACTATCTTTGATCTATTTCACGCCAG
1 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAA
*
26561209 TACATGAAGACAAGATTTGCTATT--
66 TACATGAAGACAAGATCTGCTATTCC
* * * * *
26561233 TTCGATCTACTTCACCACCAGTATGGGAAGACAAGATTTGTTGA-CTTTGATCTATTTCACGCCG
1 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCT-ATCTTTGATCTACTTCACGCCA
*
26561297 ATACATGAAGACAAGATCTGCT-TTCT
65 ATACATGAAGACAAGATCTGCTATTCC
* * * * * * *
26561323 TTCGATCTGCTTCGCCACCAGTATGAGAAGGCGAGATCTG-TATATTCGATCTACTTCACGCCAG
1 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAA
26561387 TACATGAAGACAAGATCTG-TATTCC
66 TACATGAAGACAAGATCTGCTATTCC
* * * * *
26561412 TTCGATCTGCTTCGCCACCAGTATGGGAAGGCGAGATTTGTTATCTTTGATCTACTTCACGCCAA
1 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAA
*
26561477 TACATGAAGACAAAATCTGCTATTTCC
66 TACATGAAGACAAGATCTGCTA-TTCC
26561504 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAA
1 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAA
26561569 TACATGAAGACAAGATCTG
66 TACATGAAGACAAGATCTG
26561588 AAATCTACAA
Statistics
Matches: 310, Mismatches: 37, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
88 4 0.01
89 148 0.48
90 74 0.24
91 2 0.01
92 82 0.26
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (91 bp):
TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAA
TACATGAAGACAAGATCTGCTATTCC
Found at i:26561820 original size:133 final size:132
Alignment explanation
Indices: 26561574--26561825 Score: 398
Period size: 133 Copynumber: 1.9 Consensus size: 132
26561564 GCCAATACAT
*
26561574 GAAGACAAGATCTGAAATCTACAATATATTCCATTGCTGCCAGGGAAGTAGAATTTCTGGCTTCA
1 GAAGACAAGATCTGAAATCTACAATATATTCCACTGCTGCCAGGGAAGTAGAATTTCTGGCTTCA
*
26561639 ATGTACTCCACTGCAACTTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCGCTGTCTATGC
66 ATGTACTCCACTGCAACTTCAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCGCTGTCTATGC
26561704 AG
131 AG
* ** *
26561706 GAAGGCAAGATCTGAAATCTTTAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTAT-TGGCTT
1 GAAGACAAGATCTGAAATCTACAATATATTCCACTGCTG-CCAGGGAAGTAGAATT-TCTGGCTT
* * *
26561770 CAATGTACTCCACTGTAACTTCATGGAGGTAAAATCCGCCATCTTCGATCTGCTCC
64 CAATGTACTCCACTGCAACTTCAGGGAGGTAAAATCCACCATCTTCGATCTGCTCC
26561826 ACTACTGCTT
Statistics
Matches: 109, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
132 34 0.31
133 74 0.68
134 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (132 bp):
GAAGACAAGATCTGAAATCTACAATATATTCCACTGCTGCCAGGGAAGTAGAATTTCTGGCTTCA
ATGTACTCCACTGCAACTTCAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCGCTGTCTATGC
AG
Found at i:26568586 original size:15 final size:15
Alignment explanation
Indices: 26568567--26568598 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
26568557 TAGTGTTTTA
26568567 AAAAATAAATAAAAAT
1 AAAAA-AAATAAAAAT
26568583 AAAAAAAATAAAAAT
1 AAAAAAAATAAAAAT
26568598 A
1 A
26568599 GCCCCAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (15 bp):
AAAAAAAATAAAAAT
Found at i:26568589 original size:9 final size:9
Alignment explanation
Indices: 26568566--26568596 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
26568556 ATAGTGTTTT
26568566 AAAAAATAA
1 AAAAAATAA
26568575 ATAAAAATAA
1 A-AAAAATAA
26568585 AAAAAATAA
1 AAAAAATAA
26568594 AAA
1 AAA
26568597 TAGCCCCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (9 bp):
AAAAAATAA
Found at i:26573405 original size:2 final size:2
Alignment explanation
Indices: 26573398--26573430 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
26573388 TTTAAACATA
26573398 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
26573431 AACTCTATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:26584801 original size:50 final size:49
Alignment explanation
Indices: 26584677--26584825 Score: 156
Period size: 50 Copynumber: 3.0 Consensus size: 49
26584667 NNNNNNNNNN
*
26584677 CCCTGATATTGCAATTTAAAAGATTGAAGCCACGACGGCGAATCTTACT
1 CCCTGATATTGCAATTTAAAAGATTGAAGCCACGACGGCGGATCTTACT
* * * * * ** * * *
26584726 TCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGT-GT
1 CCCTGA-TATTGCAATTTAAAAGATTGAAGCCACGACGGCGGATCT--TACT
*
26584777 CCCTGATATTGCAATTTAAAAGATTGAAGCCACAACGGCGGATCTTACT
1 CCCTGATATTGCAATTTAAAAGATTGAAGCCACGACGGCGGATCTTACT
26584826 TCCTTAGCAG
Statistics
Matches: 74, Mismatches: 22, Indels: 8
0.71 0.21 0.08
Matches are distributed among these distances:
48 1 0.01
49 5 0.07
50 62 0.84
51 5 0.07
52 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (49 bp):
CCCTGATATTGCAATTTAAAAGATTGAAGCCACGACGGCGGATCTTACT
Found at i:26585928 original size:20 final size:21
Alignment explanation
Indices: 26585903--26585944 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
26585893 ACATGGCAGG
**
26585903 AAATGTTTTTTTTATAA-AAA
1 AAATGTTGATTTTATAACAAA
26585923 AAATGTTGATTTTATAACAAA
1 AAATGTTGATTTTATAACAAA
26585944 A
1 A
26585945 TTAAAACGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (21 bp):
AAATGTTGATTTTATAACAAA
Found at i:26588488 original size:19 final size:20
Alignment explanation
Indices: 26588448--26588490 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
26588438 TATTTTTGGA
*
26588448 AATTAATTTTCAAGTCAGAC
1 AATTAATTTTCAAGTCAAAC
*
26588468 AATTAA-TTTCAAGTTAAAC
1 AATTAATTTTCAAGTCAAAC
26588487 AATT
1 AATT
26588491 GAACCAATAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.37
Consensus pattern (20 bp):
AATTAATTTTCAAGTCAAAC
Found at i:26590616 original size:34 final size:34
Alignment explanation
Indices: 26590578--26590645 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 34
26590568 AAACATGAAA
26590578 TATTTGTT-AATCATTGGATAACCTAAGGAAGTGG
1 TATTT-TTCAATCATTGGATAACCTAAGGAAGTGG
* *
26590612 TATTTTTCTATCATTGGATAACCTAAGGTAGTGG
1 TATTTTTCAATCATTGGATAACCTAAGGAAGTGG
26590646 CAGTACCTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 2 0.06
34 29 0.94
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.38
Consensus pattern (34 bp):
TATTTTTCAATCATTGGATAACCTAAGGAAGTGG
Found at i:26599011 original size:2 final size:2
Alignment explanation
Indices: 26599004--26599033 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
26598994 TTGTATAGTA
26599004 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
26599034 GAAAAGAATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26603692 original size:18 final size:17
Alignment explanation
Indices: 26603635--26603692 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 17
26603625 ATGTGAGAAG
26603635 TAAAAGTTTAGGGGAAAAA
1 TAAAAGTTTA-GGG-AAAA
* *
26603654 TAAAAAGTTT-TGGAGAA
1 T-AAAAGTTTAGGGAAAA
26603671 TAAAAGTTTGAGGGAAAA
1 TAAAAGTTT-AGGGAAAA
26603689 TAAA
1 TAAA
26603693 TAGGGGGAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
16 8 0.25
17 4 0.12
18 11 0.34
19 1 0.03
20 8 0.25
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (17 bp):
TAAAAGTTTAGGGAAAA
Found at i:26604025 original size:9 final size:9
Alignment explanation
Indices: 26604011--26604035 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
26604001 TATAGTTTGA
26604011 TATTCGAAT
1 TATTCGAAT
26604020 TATTCGAAT
1 TATTCGAAT
26604029 TATTCGA
1 TATTCGA
26604036 GTATTTCGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (9 bp):
TATTCGAAT
Found at i:26604119 original size:9 final size:9
Alignment explanation
Indices: 26604102--26604132 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
26604092 TCGAGTTGAT
26604102 TCGAATAAC
1 TCGAATAAC
*
26604111 TCGATTAAC
1 TCGAATAAC
26604120 TCGAATAAC
1 TCGAATAAC
26604129 TCGA
1 TCGA
26604133 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:26608707 original size:2 final size:2
Alignment explanation
Indices: 26608702--26608727 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
26608692 TACATTTTTT
26608702 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
26608728 CTTCTATGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:26609024 original size:22 final size:24
Alignment explanation
Indices: 26608981--26609024 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
26608971 ATGCATACTT
*
26608981 ATATATATACTTTTATATATTAAA
1 ATATATATACTTTTATACATTAAA
*
26609005 ATATGTATA-TTTT-TACATTA
1 ATATATATACTTTTATACATTA
26609025 TATATATTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 6 0.33
23 4 0.22
24 8 0.44
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.52
Consensus pattern (24 bp):
ATATATATACTTTTATACATTAAA
Found at i:26617013 original size:20 final size:21
Alignment explanation
Indices: 26616984--26617040 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 21
26616974 TATAGGATTT
*
26616984 CACTTTGGTGCCTCTGTT-TG
1 CACTTCGGTGCCTCTGTTATG
26617004 CACTTCGGTGCCTCTGTTATG
1 CACTTCGGTGCCTCTGTTATG
* *
26617025 CATCTACGATGCCTCT
1 CA-CTTCGGTGCCTCT
26617041 AGTGTGGTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
20 17 0.53
21 4 0.12
22 11 0.34
ACGTcount: A:0.11, C:0.30, G:0.21, T:0.39
Consensus pattern (21 bp):
CACTTCGGTGCCTCTGTTATG
Found at i:26617040 original size:22 final size:20
Alignment explanation
Indices: 26616992--26617040 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 20
26616982 TTCACTTTGG
* *
26616992 TGCCTCTGTTTGCACTTCGG
1 TGCCTCTGTTTGCACTACGA
26617012 TGCCTCTGTTATGCATCTACGA
1 TGCCTCTGTT-TGCA-CTACGA
26617034 TGCCTCT
1 TGCCTCT
26617041 AGTGTGGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.40
21 4 0.16
22 11 0.44
ACGTcount: A:0.10, C:0.31, G:0.20, T:0.39
Consensus pattern (20 bp):
TGCCTCTGTTTGCACTACGA
Found at i:26620706 original size:25 final size:24
Alignment explanation
Indices: 26620677--26620742 Score: 71
Period size: 24 Copynumber: 2.7 Consensus size: 24
26620667 TCCTATACAT
*
26620677 GTATGCTTATACGAGTTATGAATCG
1 GTATGCTTATACGAGCTAT-AATCG
*
26620702 GTATGCTCT-TACGAGCTGTAATCG
1 GTATGCT-TATACGAGCTATAATCG
* *
26620726 GTAAGCTCATACGAGCT
1 GTATGCTTATACGAGCT
26620743 GAGTAACAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
24 19 0.54
25 15 0.43
26 1 0.03
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (24 bp):
GTATGCTTATACGAGCTATAATCG
Found at i:26620733 original size:24 final size:24
Alignment explanation
Indices: 26620697--26620769 Score: 94
Period size: 24 Copynumber: 3.0 Consensus size: 24
26620687 ACGAGTTATG
* *
26620697 AATCGGTATGCTCTTACGAGCTGT
1 AATCGGTAAGCTCATACGAGCTGT
26620721 AATCGGTAAGCTCATACGAGCTGAGT
1 AATCGGTAAGCTCATACGAGCT--GT
*
26620747 AA-CAGTAAGCTCATACGAGCTGT
1 AATCGGTAAGCTCATACGAGCTGT
26620770 GGTGTGTCCT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
23 2 0.05
24 20 0.45
25 18 0.41
26 4 0.09
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.26
Consensus pattern (24 bp):
AATCGGTAAGCTCATACGAGCTGT
Found at i:26624817 original size:19 final size:20
Alignment explanation
Indices: 26624793--26624830 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
26624783 TAATTTTTGA
26624793 AGTTTATT-CAATTTAGTCT
1 AGTTTATTGCAATTTAGTCT
26624812 AGTTTATTGCAATTTAGTC
1 AGTTTATTGCAATTTAGTC
26624831 ACTGACCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.26, C:0.11, G:0.13, T:0.50
Consensus pattern (20 bp):
AGTTTATTGCAATTTAGTCT
Found at i:26625282 original size:20 final size:21
Alignment explanation
Indices: 26625257--26625295 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
26625247 ATGAAAGAAA
26625257 AACCT-AAACTAAAGCTTTCT
1 AACCTAAAACTAAAGCTTTCT
*
26625277 AACCTAAAACTACAGCTTT
1 AACCTAAAACTAAAGCTTT
26625296 TTTTCTTCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.41, C:0.26, G:0.05, T:0.28
Consensus pattern (21 bp):
AACCTAAAACTAAAGCTTTCT
Found at i:26636013 original size:2 final size:2
Alignment explanation
Indices: 26636002--26636042 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
26635992 AACAACATGC
* *
26636002 AT AT AT -T AT AT AT GT AT AT AA AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26636043 GAATTAAGTC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:26638476 original size:25 final size:25
Alignment explanation
Indices: 26638440--26638526 Score: 72
Period size: 25 Copynumber: 3.5 Consensus size: 25
26638430 AAATTGGTGC
26638440 TTAATTGCTGTCCATTTTTTAGCATA
1 TTAA-TGCTGTCCATTTTTTAGCATA
* **
26638466 TTAATGCTGTCCAAATTAGT-GC-T-
1 TTAATGCTGTCC-ATTTTTTAGCATA
* *
26638489 TAAATGCTTTCCATTTTTTAGCATA
1 TTAATGCTGTCCATTTTTTAGCATA
* *
26638514 TTAGTGCTATCCA
1 TTAATGCTGTCCA
26638527 AATTAGTGCT
Statistics
Matches: 46, Mismatches: 11, Indels: 9
0.70 0.17 0.14
Matches are distributed among these distances:
22 4 0.09
23 12 0.26
24 2 0.04
25 20 0.43
26 8 0.17
ACGTcount: A:0.25, C:0.17, G:0.13, T:0.45
Consensus pattern (25 bp):
TTAATGCTGTCCATTTTTTAGCATA
Found at i:26638494 original size:23 final size:23
Alignment explanation
Indices: 26638421--26638501 Score: 65
Period size: 23 Copynumber: 3.4 Consensus size: 23
26638411 TGATGATAAG
*
26638421 ATGCTGTCCAAATTGGTGCTTAA
1 ATGCTGTCCAAATTAGTGCTTAA
* * ** *
26638444 TTGCTGTCC-ATTTTTTAGCATATTA
1 ATGCTGTCCAAATTAGT-GC-T-TAA
26638469 ATGCTGTCCAAATTAGTGCTTAA
1 ATGCTGTCCAAATTAGTGCTTAA
*
26638492 ATGCTTTCCA
1 ATGCTGTCCA
26638502 TTTTTTAGCA
Statistics
Matches: 43, Mismatches: 11, Indels: 8
0.69 0.18 0.13
Matches are distributed among these distances:
22 4 0.09
23 21 0.49
24 2 0.05
25 12 0.28
26 4 0.09
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.41
Consensus pattern (23 bp):
ATGCTGTCCAAATTAGTGCTTAA
Found at i:26638502 original size:48 final size:48
Alignment explanation
Indices: 26638421--26638649 Score: 289
Period size: 48 Copynumber: 4.7 Consensus size: 48
26638411 TGATGATAAG
* *
26638421 ATGCTGTCCAAATTGGTGCTTAATTGCTGTCCATTTTTTAGCATATTA
1 ATGCTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTTAGCATATTA
*
26638469 ATGCTGTCCAAATTAGTGCTTAAATGCTTTCCATTTTTTAGCATATTA
1 ATGCTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTTAGCATATTA
* * *
26638517 GTGCTATCCAAATTAGTGCTGAAATGCTGTCCATTTTTTTTTGAGCATATTA
1 ATGCTGTCCAAATTAGTGCTTAAATGCTGTCCA---TTTTTT-AGCATATTA
* * * *
26638569 ATGCTATCCAAATT-GATGCTTAATTGCTGTCCATTTTTGAGTATATTA
1 ATGCTGTCCAAATTAG-TGCTTAAATGCTGTCCATTTTTTAGCATATTA
* * *
26638617 ATGCTGTCCAAATTGGTACTTAAATGTTGTCCA
1 ATGCTGTCCAAATTAGTGCTTAAATGCTGTCCA
26638650 AATATTTGTG
Statistics
Matches: 159, Mismatches: 16, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
48 109 0.69
49 6 0.04
51 7 0.04
52 37 0.23
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.42
Consensus pattern (48 bp):
ATGCTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTTAGCATATTA
Found at i:26638602 original size:100 final size:96
Alignment explanation
Indices: 26638421--26638649 Score: 298
Period size: 100 Copynumber: 2.3 Consensus size: 96
26638411 TGATGATAAG
* *
26638421 ATGCTGTCCAAATTGGTGCTTAATTGCTGTCCATTTTTTAGCATATTAATGCTGTCCAAATTAGT
1 ATGCTGTCCAAATTGGTGCTTAAATGCTGTCCATTTTTTAGCATATTAATGCTATCCAAATTAGT
* *
26638486 GCTTAAATGCTTTCCATTTTTTAGCATATTA
66 GCTTAAATGCTGTCCATTTTTGAGCATATTA
* * * *
26638517 GTGCTATCCAAATTAGTGCTGAAATGCTGTCCATTTTTTTTTGAGCATATTAATGCTATCCAAAT
1 ATGCTGTCCAAATTGGTGCTTAAATGCTGTCCA---TTTTTT-AGCATATTAATGCTATCCAAAT
* *
26638582 T-GATGCTTAATTGCTGTCCATTTTTGAGTATATTA
62 TAG-TGCTTAAATGCTGTCCATTTTTGAGCATATTA
* *
26638617 ATGCTGTCCAAATTGGTACTTAAATGTTGTCCA
1 ATGCTGTCCAAATTGGTGCTTAAATGCTGTCCA
26638650 AATATTTGTG
Statistics
Matches: 112, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
96 28 0.25
99 7 0.06
100 77 0.69
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.42
Consensus pattern (96 bp):
ATGCTGTCCAAATTGGTGCTTAAATGCTGTCCATTTTTTAGCATATTAATGCTATCCAAATTAGT
GCTTAAATGCTGTCCATTTTTGAGCATATTA
Found at i:26656210 original size:27 final size:27
Alignment explanation
Indices: 26656170--26656285 Score: 117
Period size: 27 Copynumber: 4.3 Consensus size: 27
26656160 GTAATGGACC
* * *
26656170 TAAAATAACTGAAATACCCCCGAAGGG
1 TAAAATGACCGAAATACCCCCAAAGGG
* * ** *
26656197 TAAAATGATCGAAATACCTCTGAGGGG
1 TAAAATGACCGAAATACCCCCAAAGGG
* ** *
26656224 TAAAATGACCTAAATACCCTTAAAGGA
1 TAAAATGACCGAAATACCCCCAAAGGG
26656251 TAAAATGACCG-AATACCCCCAAAGGG
1 TAAAATGACCGAAATACCCCCAAAGGG
26656277 TAAAATGAC
1 TAAAATGAC
26656286 TGTTATACCC
Statistics
Matches: 72, Mismatches: 17, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
26 21 0.29
27 51 0.71
ACGTcount: A:0.44, C:0.20, G:0.18, T:0.18
Consensus pattern (27 bp):
TAAAATGACCGAAATACCCCCAAAGGG
Found at i:26656489 original size:26 final size:26
Alignment explanation
Indices: 26656434--26656533 Score: 94
Period size: 26 Copynumber: 3.8 Consensus size: 26
26656424 AGGGGAAGTA
** **
26656434 TACTG-TACTGGTGGCTTTGCCACAT
1 TACTGTTACTGGCAGCTTTGCTGCAT
* *
26656459 ATACTGTTACTGGTAGCTTTGCTGCGT
1 -TACTGTTACTGGCAGCTTTGCTGCAT
*
26656486 TACTGTTATTGGCAGCTTTGCTGCAT
1 TACTGTTACTGGCAGCTTTGCTGCAT
* * *
26656512 CACTATTACTAGCAGCTTTGCT
1 TACTGTTACTGGCAGCTTTGCT
26656534 ACAATATTGG
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
26 46 0.74
27 16 0.26
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.39
Consensus pattern (26 bp):
TACTGTTACTGGCAGCTTTGCTGCAT
Found at i:26656691 original size:28 final size:28
Alignment explanation
Indices: 26656647--26656703 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
26656637 ATTGTATTGA
* *
26656647 TTACTGTATTGGGCTAAGGCCCACACTG
1 TTACTGTAATGGACTAAGGCCCACACTG
*
26656675 TTACTGTAATGGACTAAGGCCCACGCTG
1 TTACTGTAATGGACTAAGGCCCACACTG
26656703 T
1 T
26656704 ATTGATATTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.28
Consensus pattern (28 bp):
TTACTGTAATGGACTAAGGCCCACACTG
Found at i:26659966 original size:7 final size:7
Alignment explanation
Indices: 26659954--26660001 Score: 87
Period size: 7 Copynumber: 6.9 Consensus size: 7
26659944 AAGATATTTG
26659954 TAAATGT
1 TAAATGT
26659961 TAAATGT
1 TAAATGT
26659968 TAAATGT
1 TAAATGT
26659975 TAAATGT
1 TAAATGT
26659982 TAAATGT
1 TAAATGT
26659989 TAAATGT
1 TAAATGT
*
26659996 TCAATG
1 TAAATG
26660002 AATTACTTGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.42, C:0.02, G:0.15, T:0.42
Consensus pattern (7 bp):
TAAATGT
Found at i:26660912 original size:9 final size:9
Alignment explanation
Indices: 26660895--26660931 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
26660885 TGAGTTTTCG
26660895 AATTCGAAT
1 AATTCGAAT
*
26660904 AACTCGAAT
1 AATTCGAAT
26660913 AATTCGAAT
1 AATTCGAAT
26660922 AATTCGAAT
1 AATTCGAAT
26660931 A
1 A
26660932 TCAAGCTATA
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:26661919 original size:5 final size:5
Alignment explanation
Indices: 26661909--26661954 Score: 92
Period size: 5 Copynumber: 9.2 Consensus size: 5
26661899 GAACAAATAT
26661909 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG A
26661955 ATTCCATCTC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 41 1.00
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.39
Consensus pattern (5 bp):
ATTCG
Found at i:26662054 original size:5 final size:5
Alignment explanation
Indices: 26662044--26662069 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
26662034 CTCGAAAATT
26662044 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
26662070 CGAATGCTCA
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:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:26666978 original size:21 final size:21
Alignment explanation
Indices: 26666949--26666988 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
26666939 CCCTGTAAAT
26666949 TTTTAACGATTTTACCCCCGA
1 TTTTAACGATTTTACCCCCGA
*
26666970 TTTTGACGATTTTACCCCC
1 TTTTAACGATTTTACCCCC
26666989 AATAAAATTT
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:0.20, C:0.30, G:0.10, T:0.40
Consensus pattern (21 bp):
TTTTAACGATTTTACCCCCGA
Found at i:26684300 original size:88 final size:86
Alignment explanation
Indices: 26684183--26684421 Score: 259
Period size: 87 Copynumber: 2.7 Consensus size: 86
26684173 CTTCCCTCCG
* *
26684183 TTCAATGAATTTTATTCCAATTTTGATTTTATTTCCAAAACGAG-TATTAAAATTAAAATAAAAT
1 TTCAATGGATTTTATT-C-ATTTTGATTTTATTTCCAAAACGAGAAATTAAAATT-AAATAAAAT
*
26684247 CCGTTTCAAGATTTATTCCTA-TCA
63 CCGTTTCAAGATTTATTCCCACT-A
* * * *
26684271 TTCAATGGATTTTATTCTTTTTTTTATTTTATTTCC-AAATGAGAAATTAAAGTTAAATAAAATC
1 TTCAATGGATTTTATTC--ATTTTGATTTTATTTCCAAAACGAGAAATTAAAATTAAATAAAATC
* ** *
26684335 TGTTTCGGGATTTATTCCCACTG
64 CGTTTCAAGATTTATTCCCACTA
* * * *
26684358 TTCAACGGATTTTATTACATTTTGATTTTGTTGCCAAAACAAGAAATTAAAATTAAATAAAATC
1 TTCAATGGATTTTATT-CATTTTGATTTTATTTCCAAAACGAGAAATTAAAATTAAATAAAATC
26684422 AAATCTGGGT
Statistics
Matches: 126, Mismatches: 20, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
86 13 0.10
87 73 0.58
88 40 0.32
ACGTcount: A:0.36, C:0.12, G:0.09, T:0.43
Consensus pattern (86 bp):
TTCAATGGATTTTATTCATTTTGATTTTATTTCCAAAACGAGAAATTAAAATTAAATAAAATCCG
TTTCAAGATTTATTCCCACTA
Found at i:26684368 original size:87 final size:83
Alignment explanation
Indices: 26684151--26684730 Score: 441
Period size: 84 Copynumber: 6.8 Consensus size: 83
26684141 ATTAAAAGTG
* * * * * *
26684151 AATAAAATTTGTTTCGGGATTTCTTCCCTCCGTTCAATGAATTTTATTCCAATTTTGATTTTATT
1 AATAAAATCTGTTTCGGGATTTATTCCCACCGTTCAACGGATTTTATT-CAATTTT-ATTTTGTT
** *
26684216 TCCAAAACGAGTATTAAAATTAA
64 TCC-AAATTAGAATT-AAATT-A
* ** * * * * ** *
26684239 AATAAAATCCGTTTCAAGATTTATTCCTATCATTCAATGGATTTTATTCTTTTTTTTATTTTATT
1 AATAAAATCTGTTTCGGGATTTATTCCCACCGTTCAACGGATTTTATTC--AATTTTATTTTGTT
*
26684304 TCCAAATGAGAAATTAAAGTTA
64 TCCAAATTAG-AATTAAA-TTA
*
26684326 AATAAAATCTGTTTCGGGATTTATTCCCACTGTTCAACGGATTTTATT-ACATTTTGATTTTGTT
1 AATAAAATCTGTTTCGGGATTTATTCCCACCGTTCAACGGATTTTATTCA-ATTTT-ATTTTGTT
* **
26684390 GCCAAAACAAGAAATTAAAATTA
64 TCC-AAATTAG-AATT-AAATTA
*** ** * * * *
26684413 AATAAAATC-AAATCTGGG-TTTATTCCTGCCATTTAACAAGATTTTATTCGATTTTATTTTGTT
1 AATAAAATCTGTTTC-GGGATTTATTCCCACCGTTCAAC-GGATTTTATTCAATTTTATTTTGTT
*
26684476 TCTAAATTAGAATTAAATTA
64 TCCAAATTAGAATTAAATTA
* * * * *
26684496 AATTAAATCTGTTTCAGGATTTATTCCCGCCGTTTAACAAGATTTTATTCAATTTTATTTTGTTT
1 AATAAAATCTGTTTCGGGATTTATTCCCACCGTTCAAC-GGATTTTATTCAATTTTATTTTGTTT
26684561 CCAAATTAGAATTAAATTA
65 CCAAATTAGAATTAAATTA
* * * ** * * **
26684580 AATAAAATTTGTTTCGAGATTTATTCACGTCGTTTAAC-AATTTT-TTTTATTTTATTTTGTTTC
1 AATAAAATCTGTTTCGGGATTTATTCCCACCGTTCAACGGATTTTATTCAATTTTATTTTGTTTC
26684643 CAAATTAGAATTAAATTA
66 CAAATTAGAATTAAATTA
* * * ** * * * * *
26684661 AATAAAATTTGTTTCAGGATTTATTACTGCCGTTTAACAAGATTTTATTCGATATTGTTTTGTTT
1 AATAAAATCTGTTTCGGGATTTATTCCCACCGTTCAAC-GGATTTTATTCAATTTTATTTTGTTT
26684726 CCAAA
65 CCAAA
26684731 CAAAGACTTA
Statistics
Matches: 405, Mismatches: 71, Indels: 36
0.79 0.14 0.07
Matches are distributed among these distances:
81 67 0.17
82 5 0.01
83 21 0.05
84 118 0.29
85 9 0.02
86 34 0.08
87 90 0.22
88 57 0.14
89 4 0.01
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (83 bp):
AATAAAATCTGTTTCGGGATTTATTCCCACCGTTCAACGGATTTTATTCAATTTTATTTTGTTTC
CAAATTAGAATTAAATTA
Found at i:26684533 original size:84 final size:84
Alignment explanation
Indices: 26684292--26684730 Score: 478
Period size: 84 Copynumber: 5.2 Consensus size: 84
26684282 TTATTCTTTT
* * * * * *
26684292 TTTTATTTTATTTCCAAATGAGAAATTAAAGTTAAATAAAATCTGTTTCGGGATTTATTCCCACT
1 TTTTATTTTGTTTCCAAATTAG-AATTAAA-TTAAATAAAATTTGTTTCAGGATTTATTCCCGCC
* *
26684357 GTTCAAC-GGATTTTATTAC-A
64 GTTTAACAAGATTTTATT-CGA
* ** **** * * *
26684377 TTTTGATTTTGTTGCCAAAACAAGAAATTAAAATTAAATAAAA-TCAAATCTGGGTTTATTCCTG
1 TTTT-ATTTTGTTTCC-AAATTAG-AATT-AAATTAAATAAAATTTGTTTCAGGATTTATTCCCG
*
26684441 CCATTTAACAAGATTTTATTCGA
62 CCGTTTAACAAGATTTTATTCGA
* * *
26684464 TTTTATTTTGTTTCTAAATTAGAATTAAATTAAATTAAATCTGTTTCAGGATTTATTCCCGCCGT
1 TTTTATTTTGTTTCCAAATTAGAATTAAATTAAATAAAATTTGTTTCAGGATTTATTCCCGCCGT
*
26684529 TTAACAAGATTTTATTCAA
66 TTAACAAGATTTTATTCGA
* *
26684548 TTTTATTTTGTTTCCAAATTAGAATTAAATTAAATAAAATTTGTTTC-GAGATTTATTCACGTCG
1 TTTTATTTTGTTTCCAAATTAGAATTAAATTAAATAAAATTTGTTTCAG-GATTTATTCCCGCCG
**
26684612 TTTAAC-A-ATTTT-TTTTA
65 TTTAACAAGATTTTATTCGA
* *
26684629 TTTTATTTTGTTTCCAAATTAGAATTAAATTAAATAAAATTTGTTTCAGGATTTATTACTGCCGT
1 TTTTATTTTGTTTCCAAATTAGAATTAAATTAAATAAAATTTGTTTCAGGATTTATTCCCGCCGT
26684694 TTAACAAGATTTTATTCGA
66 TTAACAAGATTTTATTCGA
* *
26684713 TATTGTTTTGTTTCCAAA
1 TTTTATTTTGTTTCCAAA
26684731 CAAAGACTTA
Statistics
Matches: 296, Mismatches: 47, Indels: 23
0.81 0.13 0.06
Matches are distributed among these distances:
81 67 0.23
82 7 0.02
83 19 0.06
84 120 0.41
85 9 0.03
86 37 0.12
87 34 0.11
88 3 0.01
ACGTcount: A:0.33, C:0.11, G:0.10, T:0.45
Consensus pattern (84 bp):
TTTTATTTTGTTTCCAAATTAGAATTAAATTAAATAAAATTTGTTTCAGGATTTATTCCCGCCGT
TTAACAAGATTTTATTCGA
Found at i:26684680 original size:165 final size:168
Alignment explanation
Indices: 26683982--26684730 Score: 576
Period size: 165 Copynumber: 4.5 Consensus size: 168
26683972 AAATAAATTT
* * * **
26683982 TTAAATTAAAATAAAATCTATTTC-GAGATTAATTTCCGCCGTTCAACAA-ATTTTATTTTTTAT
1 TTAAATT-AAATAAAATCTGTTTCAG-GATTTATTCCCGCCGTTCAACAAGATTTTA--TTCAAT
* * * * *
26684045 TTTGTTTTTATTT-CTAAACGAA-TATTAAAATTAAATAAAA-TCTGTTTCGAGCTTTACTTCC-
62 TTTGATTTTGTTTCCAAAAC-AAGAATTAAAATTAAATAAAATTC-GTTTCGAGATTTA-TTCCT
* * ** *
26684106 ATCGTTTAACAGA---TTTTT-TTCGATTTTGTTTCTAAATT---A
124 GTCATTTAACA-ATTTTTTTTATTTTATTTTGTTTCCAAATTAGAA
* * * * * * **
26684145 --AAAGTGAATAAAATTTGTTTCGGGATTTCTTCCCTCCGTTCAATGA-ATTTTATTCCAATTTT
1 TTAAATTAAATAAAATCTGTTTCAGGATTTATTCCCGCCGTTCAACAAGATTTTATT-CAATTTT
* * * * * *
26684207 GATTTTATTTCCAAAACGAGTATTAAAATTAAAATAAAATCCGTTTCAAGATTTATTCCTATCAT
65 GATTTTGTTTCCAAAACAAGAATTAAAATT-AAATAAAATTCGTTTCGAGATTTATTCCTGTCAT
* * * * * *
26684272 TCAATGGATTTTATTCTTTTTTTTATTTTATTTCCAAATGAGAAA
129 TTAA--CAATTT-TT-TTTATTTTATTTTGTTTCCAAATTAG-AA
* * * *
26684317 TTAAAGTTAAATAAAATCTGTTTCGGGATTTATTCCCACTGTTCAAC-GGATTTTATT-ACATTT
1 TTAAA-TTAAATAAAATCTGTTTCAGGATTTATTCCCGCCGTTCAACAAGATTTTATTCA-ATTT
* *** * *
26684380 TGATTTTGTTGCCAAAACAAGAAATTAAAATTAAATAAAA-TCAAATCTG-GGTTTATTCCTGCC
64 TGATTTTGTTTCCAAAACAAG-AATTAAAATTAAATAAAATTCGTTTC-GAGATTTATTCCTGTC
** *
26684443 ATTTAACAAGATTTTATTCGATTTTATTTTGTTTCTAAATTAGAA
127 ATTTAAC-A-ATTTT-TTTTATTTTATTTTGTTTCCAAATTAGAA
* *
26684488 TTAAATTAAATTAAATCTGTTTCAGGATTTATTCCCGCCGTTTAACAAGATTTTATTCAATTTT-
1 TTAAATTAAATAAAATCTGTTTCAGGATTTATTCCCGCCGTTCAACAAGATTTTATTCAATTTTG
** * *
26684552 ATTTTGTTTCC-AAATTAGAATT-AAATTAAATAAAATTTGTTTCGAGATTTATTCAC-GTCGTT
66 ATTTTGTTTCCAAAACAAGAATTAAAATTAAATAAAATTCGTTTCGAGATTTATTC-CTGTCATT
26684614 TAACAATTTTTTTTATTTTATTTTGTTTCCAAATTAGAA
130 TAACAATTTTTTTTATTTTATTTTGTTTCCAAATTAGAA
* * * * * *
26684653 TTAAATTAAATAAAATTTGTTTCAGGATTTATTACTGCCGTTTAACAAGATTTTATTCGATATTG
1 TTAAATTAAATAAAATCTGTTTCAGGATTTATTCCCGCCGTTCAACAAGATTTTATTCAATTTTG
26684718 -TTTTGTTTCCAAA
66 ATTTTGTTTCCAAA
26684731 CAAAGACTTA
Statistics
Matches: 469, Mismatches: 81, Indels: 69
0.76 0.13 0.11
Matches are distributed among these distances:
158 2 0.00
159 15 0.03
160 55 0.12
161 31 0.07
162 1 0.00
163 1 0.00
165 94 0.20
166 9 0.02
167 18 0.04
168 38 0.08
169 6 0.01
170 46 0.10
171 21 0.04
172 24 0.05
173 24 0.05
174 33 0.07
175 51 0.11
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (168 bp):
TTAAATTAAATAAAATCTGTTTCAGGATTTATTCCCGCCGTTCAACAAGATTTTATTCAATTTTG
ATTTTGTTTCCAAAACAAGAATTAAAATTAAATAAAATTCGTTTCGAGATTTATTCCTGTCATTT
AACAATTTTTTTTATTTTATTTTGTTTCCAAATTAGAA
Found at i:26684821 original size:59 final size:59
Alignment explanation
Indices: 26684746--26684872 Score: 148
Period size: 59 Copynumber: 2.2 Consensus size: 59
26684736 ACTTAATCAA
* * *
26684746 ATAATTCTATTTCGGGATATATTCCCGTCATTTAACATATTCT-ATTTTGATTTGGTTAT
1 ATAATTTTATTTCGGGATATAATCCCGTCATTTAACAAATT-TGATTTTGATTTGGTTAT
* * * * * *
26684805 ATAATTTTGTTTCGGGATTTAATCCTGTCGTTTAACAAATTTGATTTTGATTTTGTTTT
1 ATAATTTTATTTCGGGATATAATCCCGTCATTTAACAAATTTGATTTTGATTTGGTTAT
*
26684864 AGAATTTTA
1 ATAATTTTA
26684873 ATTCTACCGT
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
58 1 0.02
59 55 0.98
ACGTcount: A:0.25, C:0.10, G:0.13, T:0.51
Consensus pattern (59 bp):
ATAATTTTATTTCGGGATATAATCCCGTCATTTAACAAATTTGATTTTGATTTGGTTAT
Found at i:26687576 original size:10 final size:10
Alignment explanation
Indices: 26687561--26687596 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
26687551 AGATAAAAAA
26687561 ATAGATATAG
1 ATAGATATAG
26687571 ATAGATATAG
1 ATAGATATAG
*
26687581 ATAGATGAGAG
1 ATAGAT-ATAG
26687592 ATAGA
1 ATAGA
26687597 AGAGAAAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 16 0.67
11 8 0.33
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (10 bp):
ATAGATATAG
Found at i:26690974 original size:22 final size:24
Alignment explanation
Indices: 26690924--26690974 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
26690914 TTACAATGCT
26690924 TTTATATTTTAATAATTGAGTATTA
1 TTTATATTTTAAT-ATTGAGTATTA
26690949 -TTATATATTTAAT-TTGA-T-TTA
1 TTTATAT-TTTAATATTGAGTATTA
26690970 TTTAT
1 TTTAT
26690975 TTATAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
21 3 0.12
22 5 0.21
23 4 0.17
24 6 0.25
25 6 0.25
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (24 bp):
TTTATATTTTAATATTGAGTATTA
Found at i:26691163 original size:14 final size:14
Alignment explanation
Indices: 26691132--26691169 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
26691122 AAACACCAGA
26691132 AAATATTTTCTAGT
1 AAATATTTTCTAGT
26691146 AAATCATTTTCTAG-
1 AAAT-ATTTTCTAGT
26691160 AAATTATTTT
1 AAA-TATTTT
26691170 ACGGAAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.50
Consensus pattern (14 bp):
AAATATTTTCTAGT
Found at i:26691924 original size:30 final size:30
Alignment explanation
Indices: 26691885--26691941 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
26691875 TTTTATAAAT
26691885 AATTAATATTT-AT-TACTTAAAAATATTTAA
1 AATTAATATTTCATATA-TT-AAAATATTTAA
*
26691915 AATTTATATTTCATATATTAAAATATT
1 AATTAATATTTCATATATTAAAATATT
26691942 AACAAGTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.75
31 4 0.17
32 2 0.08
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (30 bp):
AATTAATATTTCATATATTAAAATATTTAA
Found at i:26692129 original size:13 final size:13
Alignment explanation
Indices: 26692113--26692178 Score: 89
Period size: 13 Copynumber: 5.1 Consensus size: 13
26692103 TTTAAACTAA
26692113 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
26692126 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
*
26692139 ACTTTTCCATAA-C
1 ACTTTT-CAAAAGC
*
26692152 ATTTTTCAAAAGC
1 ACTTTTCAAAAGC
26692165 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
26692178 A
1 A
26692179 ATGAAGAACT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
12 4 0.09
13 37 0.82
14 4 0.09
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.32
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:26712946 original size:14 final size:15
Alignment explanation
Indices: 26712924--26713000 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
26712914 CAATCAAACA
26712924 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
26712938 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
26712953 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
26712973 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
26712987 ACGGAAAA-CATTTT
1 CCAGAAAATCATTTT
26713001 ACTGGCTATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 22 0.44
15 14 0.28
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:26712965 original size:20 final size:20
Alignment explanation
Indices: 26712940--26712979 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
26712930 AATATTTTCC
*
26712940 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
26712960 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
26712980 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Done.