Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 263 of 290
Found at i:84926605 original size:16 final size:17
Alignment explanation
Indices: 84926573--84926605 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
84926563 ATGTCAAAAA
*
84926573 AAAATTAAAAAATTTAT
1 AAAATTAAAAAAGTTAT
84926590 AAAATT-AAAAAGTTAT
1 AAAATTAAAAAAGTTAT
84926606 TTTAAATTTT
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:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (17 bp):
AAAATTAAAAAAGTTAT
Found at i:84928204 original size:3 final size:3
Alignment explanation
Indices: 84928196--84928673 Score: 132
Period size: 3 Copynumber: 160.0 Consensus size: 3
84928186 AACGATATGG
* * * * **
84928196 TAA TAA TAA TAG TAA TAGA GAA CAA CAA TACA TTAA TAA TAA TATA TGT
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TA-A -TAA TAA TAA TA-A TAA
* * * * *
84928245 TAA TAA CAA TAA TAA TAA TATG TAA -AA AAA GGGAA TAA TAA T-A TAG
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA --TAA TAA TAA TAA TAA
* * ** * * * *
84928291 TAA AAA TGA TAA TAA T-A TGT TAA TAA GAA TAA TAG TAG TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * *
84928338 TAA AAA GGTAA TAG TAA TAA AAA TAA AAA TAA AAA TAA TAG TAA TAA
1 TAA TAA --TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
84928385 TGA TAA TAA TAA TAA TAG TAA TAA -AA CAGA GAGA -AA TAA -AA GAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TA-A TAA TAA TAA TAA
* * * * *
84928429 -AA AAA AACA TAA CAA TAA -AA GTAA TAA TTA TAA TTA TAA TAA TAA
1 TAA TAA TA-A TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA
* * *
84928474 TAA TAA T-A TAA -AA TTAA TGA T-A TAA TAA T-G TAA TAA TAA TAG
1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
** * * * * *
84928516 GCA -AA TAA GT-A TAA AAA GAA -AA T-A TAA TCA TAG TAA TAA TAG
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
** * * * * *
84928558 TTG TAG TAA TAA TAA TAA TAG TAA GAA TAA TAA TGA TAA T-A TAA CAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
84928605 TAA TAG TAA T-A TAA TAG TAA TAG TCA TGA TAA TAA -ATA TAA GTAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA -TAA
*
84928650 TAG TAA -AA TAA TAA TAA TAGA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA
84928674 ACTAATTAAT
Statistics
Matches: 349, Mismatches: 89, Indels: 74
0.68 0.17 0.14
Matches are distributed among these distances:
2 35 0.10
3 282 0.81
4 26 0.07
5 6 0.02
ACGTcount: A:0.60, C:0.02, G:0.10, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:84928304 original size:23 final size:23
Alignment explanation
Indices: 84928229--84928307 Score: 72
Period size: 23 Copynumber: 3.3 Consensus size: 23
84928219 AACAATACAT
*
84928229 TAATAATAATATATGTTAATAACA-A
1 TAATAATAATATA-G-TAA-AAAAGA
*
84928254 TAATAATAATAT-GTAAAAAAAGG
1 TAATAATAATATAGT-AAAAAAGA
* *
84928277 GAATAATAATATAGTAAAAATGA
1 TAATAATAATATAGTAAAAAAGA
84928300 TAATAATA
1 TAATAATA
84928308 TGTTAATAAG
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
22 4 0.09
23 27 0.60
24 2 0.04
25 12 0.27
ACGTcount: A:0.59, C:0.01, G:0.09, T:0.30
Consensus pattern (23 bp):
TAATAATAATATAGTAAAAAAGA
Found at i:84928502 original size:11 final size:10
Alignment explanation
Indices: 84928458--84928514 Score: 55
Period size: 11 Copynumber: 5.6 Consensus size: 10
84928448 AGTAATAATT
84928458 ATAAT-TATA
1 ATAATATATA
84928467 ATAATA-ATA
1 ATAATATATA
*
84928476 ATAATATAAA
1 ATAATATATA
84928486 ATTAATGATATA
1 A-TAAT-ATATA
*
84928498 ATAATGTAATA
1 ATAATAT-ATA
84928509 ATAATA
1 ATAATA
84928515 GGCAAATAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 14 0.36
10 4 0.10
11 16 0.41
12 5 0.13
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (10 bp):
ATAATATATA
Found at i:84928507 original size:8 final size:8
Alignment explanation
Indices: 84928450--84928511 Score: 60
Period size: 8 Copynumber: 8.0 Consensus size: 8
84928440 ACAATAAAAG
84928450 TAATAAT-
1 TAATAATA
84928457 T-ATAATTA
1 TAATAA-TA
84928465 TAATAATAA
1 TAATAAT-A
84928474 TAATAATA
1 TAATAATA
84928482 TAA-AAT-
1 TAATAATA
*
84928488 TAATGATA
1 TAATAATA
*
84928496 TAATAATG
1 TAATAATA
84928504 TAATAATA
1 TAATAATA
84928512 ATAGGCAAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
6 7 0.16
7 7 0.16
8 19 0.42
9 12 0.27
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (8 bp):
TAATAATA
Found at i:84928608 original size:17 final size:17
Alignment explanation
Indices: 84928565--84928668 Score: 59
Period size: 17 Copynumber: 5.8 Consensus size: 17
84928555 TAGTTGTAGT
* *
84928565 AATAATAATAATAGTAAG
1 AATAATAGTAATA-TAAC
84928583 AATAATAATGATAATATAAC
1 AATAAT-A-G-TAATATAAC
*
84928603 AATAATAGTAATATAAT
1 AATAATAGTAATATAAC
* * *
84928620 AGTAATAGTCATGATAAT
1 AATAATAGTAAT-ATAAC
84928638 AA-ATATAAGTAATAGTAA-
1 AATA-AT-AGTAATA-TAAC
*
84928656 AATAATAATAATA
1 AATAATAGTAATA
84928669 GATAAACTAA
Statistics
Matches: 70, Mismatches: 8, Indels: 17
0.74 0.08 0.18
Matches are distributed among these distances:
17 25 0.36
18 20 0.29
19 11 0.16
20 9 0.13
21 5 0.07
ACGTcount: A:0.59, C:0.02, G:0.09, T:0.31
Consensus pattern (17 bp):
AATAATAGTAATATAAC
Found at i:84937574 original size:24 final size:24
Alignment explanation
Indices: 84937542--84937591 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
84937532 GTGAGACTCT
84937542 ACCAGGTAACTTGATTTCAAATTA
1 ACCAGGTAACTTGATTTCAAATTA
84937566 ACCAGGTAACTTGATTTCAAATTA
1 ACCAGGTAACTTGATTTCAAATTA
84937590 AC
1 AC
84937592 TTTTCCAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (24 bp):
ACCAGGTAACTTGATTTCAAATTA
Found at i:84938466 original size:11 final size:11
Alignment explanation
Indices: 84938450--84938483 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
84938440 ATTAACAAAT
84938450 AAAAAATTATA
1 AAAAAATTATA
84938461 AAAAAATTAT-
1 AAAAAATTATA
84938471 -AAAAATTATA
1 AAAAAATTATA
84938481 AAA
1 AAA
84938484 TTATAAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
9 9 0.43
11 12 0.57
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (11 bp):
AAAAAATTATA
Found at i:84938474 original size:9 final size:9
Alignment explanation
Indices: 84938451--84938490 Score: 55
Period size: 9 Copynumber: 4.3 Consensus size: 9
84938441 TTAACAAATA
84938451 AAAAATTAT
1 AAAAATTAT
84938460 AAAAAAATTAT
1 --AAAAATTAT
84938471 AAAAATTAT
1 AAAAATTAT
84938480 -AAAATTAT
1 AAAAATTAT
84938488 AAA
1 AAA
84938491 TATTTATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.29
9 11 0.39
11 9 0.32
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:84942894 original size:16 final size:16
Alignment explanation
Indices: 84942875--84942932 Score: 57
Period size: 16 Copynumber: 3.7 Consensus size: 16
84942865 GGGTTTGTAA
84942875 TTTTTTAGGTTTGATT
1 TTTTTTAGGTTTGATT
84942891 TTTTTTA--TTTGGATT
1 TTTTTTAGGTTT-GATT
* ** *
84942906 CTTTTTAAATTCGATT
1 TTTTTTAGGTTTGATT
84942922 TTTTTTAGGTT
1 TTTTTTAGGTT
84942933 GTGCTCTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 19 0.56
17 2 0.06
ACGTcount: A:0.16, C:0.03, G:0.14, T:0.67
Consensus pattern (16 bp):
TTTTTTAGGTTTGATT
Found at i:84942895 original size:15 final size:16
Alignment explanation
Indices: 84942856--84942887 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
84942846 TTAATTTTTT
*
84942856 TAATTTTTTGGGTTTG
1 TAATTTTTTAGGTTTG
84942872 TAATTTTTTAGGTTTG
1 TAATTTTTTAGGTTTG
84942888 ATTTTTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.22, T:0.62
Consensus pattern (16 bp):
TAATTTTTTAGGTTTG
Found at i:84945091 original size:46 final size:46
Alignment explanation
Indices: 84945019--84945121 Score: 152
Period size: 46 Copynumber: 2.2 Consensus size: 46
84945009 GTGTCAAAAG
* * *
84945019 AATTTTTTTTTTTTGGTCATGCCATTGATGTTGGTTACACCCATTT
1 AATTGTTTTTTTTTGGTCATGCCATTGATATTGGCTACACCCATTT
* *
84945065 AATTGTTTTTTTTTGGTCTTGCCATTGATATTGGCTGCACCCATTT
1 AATTGTTTTTTTTTGGTCATGCCATTGATATTGGCTACACCCATTT
*
84945111 AATTGTGTTTT
1 AATTGTTTTTT
84945122 GAATTTTTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 51 1.00
ACGTcount: A:0.17, C:0.15, G:0.17, T:0.52
Consensus pattern (46 bp):
AATTGTTTTTTTTTGGTCATGCCATTGATATTGGCTACACCCATTT
Found at i:84947659 original size:30 final size:30
Alignment explanation
Indices: 84947623--84947722 Score: 91
Period size: 30 Copynumber: 3.3 Consensus size: 30
84947613 CATCTAGTTG
84947623 GAGCTTTGCAATTTTGTCACGTTATATTGA
1 GAGCTTTGCAATTTTGTCACGTTATATTGA
* * *
84947653 GAGCTTTGTCGCA--CTG-CTCGTTCATCTAGTTG-
1 GAGCTTTG-C-AATTTTGTCACGTT-A--TA-TTGA
84947685 GAGCTTTGCAATTTTGTCACGTTATATTGA
1 GAGCTTTGCAATTTTGTCACGTTATATTGA
84947715 GAGCTTTG
1 GAGCTTTG
84947723 TCGTGCGACA
Statistics
Matches: 54, Mismatches: 6, Indels: 20
0.68 0.08 0.25
Matches are distributed among these distances:
29 8 0.15
30 22 0.41
31 2 0.04
32 14 0.26
33 8 0.15
ACGTcount: A:0.19, C:0.17, G:0.23, T:0.41
Consensus pattern (30 bp):
GAGCTTTGCAATTTTGTCACGTTATATTGA
Found at i:84947702 original size:62 final size:62
Alignment explanation
Indices: 84947605--84947725 Score: 242
Period size: 62 Copynumber: 2.0 Consensus size: 62
84947595 ATTTGGAGGT
84947605 TGCTCGTTCATCTAGTTGGAGCTTTGCAATTTTGTCACGTTATATTGAGAGCTTTGTCGCAC
1 TGCTCGTTCATCTAGTTGGAGCTTTGCAATTTTGTCACGTTATATTGAGAGCTTTGTCGCAC
84947667 TGCTCGTTCATCTAGTTGGAGCTTTGCAATTTTGTCACGTTATATTGAGAGCTTTGTCG
1 TGCTCGTTCATCTAGTTGGAGCTTTGCAATTTTGTCACGTTATATTGAGAGCTTTGTCG
84947726 TGCGACAAAG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.17, C:0.18, G:0.23, T:0.41
Consensus pattern (62 bp):
TGCTCGTTCATCTAGTTGGAGCTTTGCAATTTTGTCACGTTATATTGAGAGCTTTGTCGCAC
Found at i:84957248 original size:26 final size:26
Alignment explanation
Indices: 84957219--84957326 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
84957209 TGATACAAAT
84957219 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
84957245 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
84957271 TGATAATGGGTTAAGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
84957297 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
84957323 TGAT
1 TGAT
84957327 GGAAATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:84960485 original size:25 final size:25
Alignment explanation
Indices: 84960457--84960509 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 25
84960447 GATATTAAAA
84960457 ATATATACATA-AAAATATA-ATAGAT
1 ATATATA-ATATAAAATATACATA-AT
*
84960482 ATATATAATATAATATATACATAAT
1 ATATATAATATAAAATATACATAAT
84960507 ATA
1 ATA
84960510 GGATTAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 3 0.12
25 19 0.76
26 3 0.12
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (25 bp):
ATATATAATATAAAATATACATAAT
Found at i:84960493 original size:18 final size:16
Alignment explanation
Indices: 84960456--84960509 Score: 54
Period size: 16 Copynumber: 3.1 Consensus size: 16
84960446 TGATATTAAA
84960456 AATATATACATAAAAATAT
1 AATATATACAT---AATAT
*
84960475 AATAGATATATATAATAT
1 AAT--ATATACATAATAT
84960493 AATATATACATAATAT
1 AATATATACATAATAT
84960509 A
1 A
84960510 GGATTAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
16 13 0.42
18 8 0.26
19 3 0.10
21 7 0.23
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (16 bp):
AATATATACATAATAT
Found at i:84960881 original size:25 final size:24
Alignment explanation
Indices: 84960836--84960898 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 24
84960826 ACGATACAAT
*
84960836 ATAATAATAATGTAAAGAAAATAAA
1 ATAATAAT-ATGTAAAGAAAAGAAA
* *
84960861 ATAATAATATTTATAATAAAAGAAA
1 ATAATAATATGTA-AAGAAAAGAAA
84960886 ATAA-AATAGTGTA
1 ATAATAATA-TGTA
84960899 TTTAAAAGCA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 8 0.25
25 24 0.75
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (24 bp):
ATAATAATATGTAAAGAAAAGAAA
Found at i:84964677 original size:25 final size:25
Alignment explanation
Indices: 84964628--84964684 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 25
84964618 TTTTTTTTTC
84964628 ATATAGTTGTTTTTAAATTATTTAT
1 ATATAGTTGTTTTTAAATTATTTAT
*
84964653 ATATGAGTT-TTTTTAAATCTATTATGT
1 ATAT-AGTTGTTTTTAAAT-TATT-TAT
84964680 ATATA
1 ATATA
84964685 ACTTATTTCC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 13 0.46
26 9 0.32
27 6 0.21
ACGTcount: A:0.33, C:0.02, G:0.09, T:0.56
Consensus pattern (25 bp):
ATATAGTTGTTTTTAAATTATTTAT
Found at i:84965117 original size:24 final size:23
Alignment explanation
Indices: 84965090--84965134 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
84965080 TTAGTTATAC
*
84965090 TTAATTATTGGTTTTGTTAATTTG
1 TTAATTATTAG-TTTGTTAATTTG
84965114 TTAATTATTAGTTTGTTAATT
1 TTAATTATTAGTTTGTTAATT
84965135 GGTATTGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.24, C:0.00, G:0.13, T:0.62
Consensus pattern (23 bp):
TTAATTATTAGTTTGTTAATTTG
Found at i:84965145 original size:23 final size:23
Alignment explanation
Indices: 84965091--84965138 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
84965081 TAGTTATACT
* *
84965091 TAATTATTGGTTTTGTTAATTTGT
1 TAATTATTAG-TTTGTTAATTTGG
84965115 TAATTATTAGTTTGTTAA-TTGG
1 TAATTATTAGTTTGTTAATTTGG
84965137 TA
1 TA
84965139 TTGTATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 5 0.23
23 8 0.36
24 9 0.41
ACGTcount: A:0.25, C:0.00, G:0.17, T:0.58
Consensus pattern (23 bp):
TAATTATTAGTTTGTTAATTTGG
Found at i:84965458 original size:127 final size:127
Alignment explanation
Indices: 84965304--84965621 Score: 501
Period size: 127 Copynumber: 2.5 Consensus size: 127
84965294 TGAAAATTCC
* ** *
84965304 TTAAAACAAATGCAATGTTTGATGTTTGGAAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTTC
1 TTAAAAC-AAGGCAATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTC
* *
84965369 GATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCGTGTTTCCCAAATT
65 GATTTCCCGTTTGTTCAAAATAATCAAATATTCCTTTAGAATTTCACTCGTATTTCCCAAATT
84965432 TTAAAACAAGGCAATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCG
1 TTAAAACAAGGCAATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCG
* * * *
84965497 ATTTCCTGTTTGTTCAAAATAATCAAATATTCCTTTTGAATTTCACTCGTATTTTCTAAATT
66 ATTTCCCGTTTGTTCAAAATAATCAAATATTCCTTTAGAATTTCACTCGTATTTCCCAAATT
* * * *
84965559 CTAAAGCAAGGCAATGTTCAATGTTTGGAAATTCGAGGAATTGTGCCCTACCGTGCTGGGTTT
1 TTAAAACAAGGCAATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTT
84965622 TGGTTTTTCA
Statistics
Matches: 176, Mismatches: 14, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
127 169 0.96
128 7 0.04
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.37
Consensus pattern (127 bp):
TTAAAACAAGGCAATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCG
ATTTCCCGTTTGTTCAAAATAATCAAATATTCCTTTAGAATTTCACTCGTATTTCCCAAATT
Found at i:84966516 original size:25 final size:25
Alignment explanation
Indices: 84966478--84966525 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
84966468 TGAAAATTAC
*
84966478 ATTTTTTATTTTTTTA-AAATTTTAA
1 ATTTTTTA-TCTTTTACAAATTTTAA
84966503 ATTTTTTATCTTTTACAAATTTT
1 ATTTTTTATCTTTTACAAATTTT
84966526 TAATATAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (25 bp):
ATTTTTTATCTTTTACAAATTTTAA
Found at i:84967166 original size:21 final size:20
Alignment explanation
Indices: 84967124--84967168 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
84967114 CATTTGATGC
*
84967124 TATATAAAATTCTATTTTAT
1 TATATAAAATTCTATATTAT
84967144 TATATCAAATATT-TATATTAT
1 TATAT-AAA-ATTCTATATTAT
84967165 TATA
1 TATA
84967169 ATATGTTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 5 0.23
21 14 0.64
22 3 0.14
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.53
Consensus pattern (20 bp):
TATATAAAATTCTATATTAT
Found at i:84967465 original size:9 final size:9
Alignment explanation
Indices: 84967451--84967546 Score: 72
Period size: 9 Copynumber: 10.4 Consensus size: 9
84967441 TTTTTCACAA
84967451 AAAAATATT
1 AAAAATATT
84967460 AAAAATCA-T
1 AAAAAT-ATT
*
84967469 AAATATATAT
1 AAAAATAT-T
*
84967479 AAAATTATT
1 AAAAATATT
*
84967488 AAAAAAATT
1 AAAAATATT
*
84967497 AAAAACATT
1 AAAAATATT
*
84967506 AAATATTATT
1 AAA-AATATT
84967516 AAAAAATATAT
1 -AAAAATAT-T
84967527 AAAAA-A-T
1 AAAAATATT
*
84967534 AAAACTATT
1 AAAAATATT
84967543 AAAA
1 AAAA
84967547 TTTATACAAA
Statistics
Matches: 69, Mismatches: 10, Indels: 16
0.73 0.11 0.17
Matches are distributed among these distances:
7 5 0.07
8 2 0.03
9 37 0.54
10 21 0.30
11 4 0.06
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (9 bp):
AAAAATATT
Found at i:84967492 original size:37 final size:40
Alignment explanation
Indices: 84967450--84967534 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 40
84967440 TTTTTTCACA
*
84967450 AAAAAATATTAAAAATCA-TAAATA-TA-TATAAAAT-TATT
1 AAAAAATATTAAAAA-CATTAAATATTATTAAAAAATATA-T
84967488 AAAAAA-ATTAAAAACATTAAATATTATTAAAAAATATAT
1 AAAAAATATTAAAAACATTAAATATTATTAAAAAATATAT
84967527 AAAAAATA
1 AAAAAATA
84967535 AAACTATTAA
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
36 2 0.05
37 14 0.34
38 8 0.20
39 14 0.34
40 3 0.07
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (40 bp):
AAAAAATATTAAAAACATTAAATATTATTAAAAAATATAT
Found at i:84967499 original size:28 final size:26
Alignment explanation
Indices: 84967475--84967546 Score: 83
Period size: 28 Copynumber: 2.7 Consensus size: 26
84967465 TCATAAATAT
84967475 ATATAAAATTATTAAAAAAATTAAAA
1 ATATAAAATTATTAAAAAAATTAAAA
*
84967501 ACATTAAATATTATTAAAAAATATATAAAA
1 ATA-TAAA-ATTATTAAAAAA-AT-TAAAA
*
84967531 A-ATAAAACTATTAAAA
1 ATATAAAATTATTAAAA
84967547 TTTATACAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
26 2 0.05
27 13 0.32
28 16 0.40
29 3 0.08
30 6 0.15
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (26 bp):
ATATAAAATTATTAAAAAAATTAAAA
Found at i:84967572 original size:9 final size:9
Alignment explanation
Indices: 84967459--84967890 Score: 101
Period size: 10 Copynumber: 45.7 Consensus size: 9
84967449 AAAAAAATAT
*
84967459 TAAAAATCA
1 TAAAAATTA
*
84967468 TAAATATATA
1 TAAAAAT-TA
84967478 TAAAATTATTA
1 TAAAA--ATTA
*
84967489 AAAAAATTA
1 TAAAAATTA
84967498 -AAAACA-T-
1 TAAAA-ATTA
*
84967505 TAAATATTA
1 TAAAAATTA
84967514 TTAAAAAATATA
1 -T-AAAAAT-TA
84967526 TAAAAA--A
1 TAAAAATTA
*
84967533 T-AAAACTA
1 TAAAAATTA
*
84967541 TTAAAATTTA
1 -TAAAAATTA
*
84967551 TACAAACTTA
1 TA-AAAATTA
84967561 TAAAAATTA
1 TAAAAATTA
84967570 TAAAAAAAATTAA
1 T---AAAAATT-A
84967583 TAAAAATTA
1 TAAAAATTA
84967592 TAAAAA-TA
1 TAAAAATTA
*
84967600 TAAAAATTC
1 TAAAAATTA
* *
84967609 TAATGAATTC
1 TAA-AAATTA
** *
84967619 T-AATTTTT
1 TAAAAATTA
84967627 TATAAAATTAA
1 TA-AAAATT-A
84967638 TTAAACATATT-
1 -TAAA-A-ATTA
84967649 TAAAAATTTA
1 TAAAAA-TTA
*
84967659 TGAAGACA-TA
1 T-AA-AAATTA
*
84967669 TAAAAATTCT
1 TAAAAATT-A
84967679 TAAAAACTTA
1 TAAAAA-TTA
**
84967689 TAAAAAACA
1 TAAAAATTA
*
84967698 TAAAAA-AA
1 TAAAAATTA
*
84967706 TAAATA-T-
1 TAAAAATTA
84967713 TAAAAA-TA
1 TAAAAATTA
*
84967721 TTAAAATTGA
1 TAAAAATT-A
*
84967731 TATAAACTTA
1 TA-AAAATTA
84967741 TAAAAATTA
1 TAAAAATTA
* *
84967750 TAGGAAATCA
1 TA-AAAATTA
84967760 TAAAAATTA
1 TAAAAATTA
84967769 T-AAAA-TA
1 TAAAAATTA
** *
84967776 TAGTCACTTA
1 TA-AAAATTA
84967786 TAAAAAAATTA
1 T--AAAAATTA
84967797 T-AAAATTA
1 TAAAAATTA
84967805 -ATAAAATATA
1 TA-AAAAT-TA
*
84967815 TAAAATTTTA
1 TAAAA-ATTA
*
84967825 TGAAAACTTA
1 T-AAAAATTA
*
84967835 TGAAAATTCA
1 TAAAAATT-A
84967845 TAAAAACTTA
1 TAAAAA-TTA
84967855 TAAATAA-TA
1 TAAA-AATTA
84967864 TAATAAATTA
1 TAA-AAATTA
*
84967874 TTATAAATTA
1 -TAAAAATTA
84967884 TATAAAA
1 TA-AAAA
84967891 AATTATTTAA
Statistics
Matches: 316, Mismatches: 50, Indels: 113
0.66 0.10 0.24
Matches are distributed among these distances:
6 4 0.01
7 12 0.04
8 46 0.15
9 81 0.26
10 111 0.35
11 40 0.13
12 17 0.05
13 5 0.02
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (9 bp):
TAAAAATTA
Found at i:84967573 original size:37 final size:38
Alignment explanation
Indices: 84967490--84967574 Score: 92
Period size: 37 Copynumber: 2.3 Consensus size: 38
84967480 AAATTATTAA
84967490 AAAAATTA-AAAACATTAAATATTATTAAAAAATATAT
1 AAAAATTATAAAACATTAAATATTATTAAAAAATATAT
* *
84967527 AAAAA--ATAAAACTATTAAA-ATT-TATACAAACT-TAT
1 AAAAATTATAAAAC-ATTAAATATTAT-TAAAAAATATAT
84967562 AAAAATTATAAAA
1 AAAAATTATAAAA
84967575 AAAATTAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
35 10 0.24
36 14 0.34
37 17 0.41
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.31
Consensus pattern (38 bp):
AAAAATTATAAAACATTAAATATTATTAAAAAATATAT
Found at i:84967596 original size:31 final size:31
Alignment explanation
Indices: 84967543--84967605 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
84967533 TAAAACTATT
* *
84967543 AAAATTTATACAAACTTATAAAAATTATAAAA
1 AAAATTAATACAAAATTATAAAAA-TATAAAA
84967575 AAAATTAATA-AAAATTATAAAAATATAAAA
1 AAAATTAATACAAAATTATAAAAATATAAAA
84967605 A
1 A
84967606 TTCTAATGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 8 0.28
31 12 0.41
32 9 0.31
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (31 bp):
AAAATTAATACAAAATTATAAAAATATAAAA
Found at i:84967667 original size:22 final size:21
Alignment explanation
Indices: 84967625--84967676 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
84967615 ATTCTAATTT
*
84967625 TTTATAAAATTAATTAAACATA
1 TTTA-AAAATTAATGAAACATA
*
84967647 TTTAAAAATTTATGAAGACATA
1 TTTAAAAATTAATGAA-ACATA
84967669 --TAAAAATT
1 TTTAAAAATT
84967677 CTTAAAAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 8 0.30
21 10 0.37
22 9 0.33
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (21 bp):
TTTAAAAATTAATGAAACATA
Found at i:84967808 original size:20 final size:20
Alignment explanation
Indices: 84967783--84967896 Score: 94
Period size: 19 Copynumber: 5.8 Consensus size: 20
84967773 ATATAGTCAC
84967783 TTATA-AAAAAATTATAAAA
1 TTATATAAAAAATTATAAAA
*
84967802 TTA-ATAAAATA-TATAAAA
1 TTATATAAAAAATTATAAAA
* * *
84967820 TTTTATGAAAACTTATGAAAA
1 TTATATAAAAAATTAT-AAAA
* *
84967841 TT-CATAAAAACTTAT-AAA
1 TTATATAAAAAATTATAAAA
* *
84967859 TAATATAATAAATTATTATAAA
1 TTATATAAAAAATTA-TA-AAA
84967881 TTATATAAAAAATTAT
1 TTATATAAAAAATTAT
84967897 TTAAACCCCT
Statistics
Matches: 74, Mismatches: 13, Indels: 14
0.73 0.13 0.14
Matches are distributed among these distances:
18 14 0.19
19 22 0.30
20 15 0.20
21 7 0.09
22 16 0.22
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.37
Consensus pattern (20 bp):
TTATATAAAAAATTATAAAA
Found at i:84967877 original size:22 final size:22
Alignment explanation
Indices: 84967852--84967901 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
84967842 TCATAAAAAC
*
84967852 TTATAAATAATATAATAAATTA
1 TTATAAATAATATAAAAAATTA
*
84967874 TTATAAATTATATAAAAAATTA
1 TTATAAATAATATAAAAAATTA
84967896 TT-TAAA
1 TTATAAA
84967902 CCCCTAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 4 0.15
22 22 0.85
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
TTATAAATAATATAAAAAATTA
Found at i:84968496 original size:26 final size:25
Alignment explanation
Indices: 84968453--84968517 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 25
84968443 AAATTTATAA
* *
84968453 AAAATTTCATAATTTATTAGATTTTTT
1 AAAATTTTATAA-ATATT-GATTTTTT
* * *
84968480 AGATTTTTATAAATATTTATTTTTT
1 AAAATTTTATAAATATTGATTTTTT
84968505 AAAATTTTATAAA
1 AAAATTTTATAAA
84968518 CTTATATCAA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
25 18 0.58
26 4 0.13
27 9 0.29
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (25 bp):
AAAATTTTATAAATATTGATTTTTT
Found at i:84968513 original size:15 final size:17
Alignment explanation
Indices: 84968483--84968514 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
84968473 ATTTTTTAGA
84968483 TTTTTATAAATATTTAT
1 TTTTTATAAATATTTAT
84968500 TTTTTA-AAAT-TTTAT
1 TTTTTATAAATATTTAT
84968515 AAACTTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 4 0.27
17 6 0.40
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTTATAAATATTTAT
Found at i:84969991 original size:3 final size:3
Alignment explanation
Indices: 84969983--84970034 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
84969973 AAGAGATAGT
84969983 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
84970031 GAA G
1 GAA G
84970035 GAGATAGCGT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:84974199 original size:23 final size:23
Alignment explanation
Indices: 84974148--84974200 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
84974138 ACATGATTAG
* *
84974148 TAATTAGTTAAGTTAATTAAATA
1 TAATTAATTAAATTAATTAAATA
* *
84974171 TGATTAATTAAATTAATTAAATT
1 TAATTAATTAAATTAATTAAATA
84974194 TAATTAA
1 TAATTAA
84974201 CCTATAAATA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (23 bp):
TAATTAATTAAATTAATTAAATA
Found at i:84978468 original size:19 final size:19
Alignment explanation
Indices: 84978444--84978481 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
84978434 TTTCATGGTC
84978444 TAGCCTCTAGTAAGATGAA
1 TAGCCTCTAGTAAGATGAA
84978463 TAGCCTCTAGTAAGATGAA
1 TAGCCTCTAGTAAGATGAA
84978482 AACTAGATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (19 bp):
TAGCCTCTAGTAAGATGAA
Found at i:84978569 original size:23 final size:23
Alignment explanation
Indices: 84978543--84978587 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
84978533 GGACCCATGA
*
84978543 CATGATAT-GTCTATTGGAATATT
1 CATGATATAGCCT-TTGGAATATT
*
84978566 CATGGTATAGCCTTTGGAATAT
1 CATGATATAGCCTTTGGAATAT
84978588 CTAAATTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (23 bp):
CATGATATAGCCTTTGGAATATT
Found at i:84981094 original size:17 final size:16
Alignment explanation
Indices: 84981065--84981100 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
84981055 AATAGAAATT
84981065 AAAAACCAAAAATAAA
1 AAAAACCAAAAATAAA
*
84981081 AAAAACACACAAATAAA
1 AAAAAC-CAAAAATAAA
84981098 AAA
1 AAA
84981101 TCCAAATTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.81, C:0.14, G:0.00, T:0.06
Consensus pattern (16 bp):
AAAAACCAAAAATAAA
Found at i:84986571 original size:19 final size:19
Alignment explanation
Indices: 84986547--84986587 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
84986537 GATGCCTCCT
*
84986547 TTACATT-CATGCATTTGCA
1 TTACATTACAT-CATATGCA
84986566 TTACATTACATCATATGCA
1 TTACATTACATCATATGCA
84986585 TTA
1 TTA
84986588 AAGATCATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.32, C:0.20, G:0.07, T:0.41
Consensus pattern (19 bp):
TTACATTACATCATATGCA
Found at i:84993922 original size:53 final size:52
Alignment explanation
Indices: 84993839--84993995 Score: 181
Period size: 53 Copynumber: 3.0 Consensus size: 52
84993829 AGGGAAAGAA
* **
84993839 GCCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGACTTTTCAAAAA-AAAAAGG
1 GCCAAAGTGAAAACCCGCAAAGGGCACTTTGAGACTAAT-AAAAATAAAAAGG
* * **
84993891 GTCCAAAGTGTAAACCCGCAAAGGGCACTTTGAGACCAAATAAAAATGGAAAGG
1 G-CCAAAGTGAAAACCCGCAAAGGGCACTTTGAGA-CTAATAAAAATAAAAAGG
* * *
84993945 GCCGAAGTAAAAACCCGCAAAGGGCACTTTGAGACTCAATAATAATAAAAA
1 GCCAAAGTGAAAACCCGCAAAGGGCACTTTGAGACT-AATAAAAATAAAAA
84993996 AGGAAAAAGA
Statistics
Matches: 87, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
52 2 0.02
53 77 0.89
54 8 0.09
ACGTcount: A:0.44, C:0.19, G:0.22, T:0.15
Consensus pattern (52 bp):
GCCAAAGTGAAAACCCGCAAAGGGCACTTTGAGACTAATAAAAATAAAAAGG
Found at i:84995434 original size:163 final size:163
Alignment explanation
Indices: 84995164--84995459 Score: 416
Period size: 163 Copynumber: 1.8 Consensus size: 163
84995154 CAATGGAGCA
* *
84995164 GATTTTACCACCAGCCTCATCTCTCTGAGATAACAAGAGAGCAGGTTGAAGAATGAGTCTTATCT
1 GATTTTACCACCAGCCTCATCCCTCTGAGATAACAAGAGAGCAGGTTAAAGAATGAGTCTTATCT
*
84995229 TCCTGAGGTAGCAATGAAGCAGACTGAAGAGTGAAGATCTTATCTCCCAAAGCAGTAGCAGAGCA
66 TCCTGAGGAAGCAATGAAGCAGACTGAAGAGTGAAGATCTTATCTCCCAAAGCAGTAGCAGAGCA
84995294 GATTGAAAAAGGCGAATCTTATCTTCATGTATC
131 GATTGAAAAAGGCGAATCTTATCTTCATGTATC
* * * * *
84995327 GATTTTATCACTAGCCTTATCCCTCTGGGGTAACAAGAGAGCAGGTTAAAG-ATGGAGTCTTATC
1 GATTTTACCACCAGCCTCATCCCTCTGAGATAACAAGAGAGCAGGTTAAAGAAT-GAGTCTTATC
* ** * * * * *
84995391 TTTCTGAGGAAGCAA-GAAATTAGACTGAAGATTGAAGATCTTATTTTCCTAAGCAGTAGCGGAG
65 TTCCTGAGGAAGCAATG-AAGCAGACTGAAGAGTGAAGATCTTATCTCCCAAAGCAGTAGCAGAG
84995455 CAGAT
129 CAGAT
84995460 CAGAGATGAC
Statistics
Matches: 115, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
162 3 0.03
163 112 0.97
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (163 bp):
GATTTTACCACCAGCCTCATCCCTCTGAGATAACAAGAGAGCAGGTTAAAGAATGAGTCTTATCT
TCCTGAGGAAGCAATGAAGCAGACTGAAGAGTGAAGATCTTATCTCCCAAAGCAGTAGCAGAGCA
GATTGAAAAAGGCGAATCTTATCTTCATGTATC
Found at i:85008820 original size:21 final size:21
Alignment explanation
Indices: 85008781--85008820 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
85008771 TCGGTTTGTG
**
85008781 TAACACCCCTAACTTGTATTA
1 TAACACCCCTAACCCGTATTA
85008802 TAACACCCCTAACCCGTAT
1 TAACACCCCTAACCCGTAT
85008821 CTGTCGTTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.35, G:0.05, T:0.28
Consensus pattern (21 bp):
TAACACCCCTAACCCGTATTA
Found at i:85014670 original size:12 final size:12
Alignment explanation
Indices: 85014653--85014678 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
85014643 TCCATGGATT
85014653 CTAAGAAATATC
1 CTAAGAAATATC
85014665 CTAAGAAATATC
1 CTAAGAAATATC
85014677 CT
1 CT
85014679 GGAATGAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.19, G:0.08, T:0.27
Consensus pattern (12 bp):
CTAAGAAATATC
Found at i:85016160 original size:18 final size:19
Alignment explanation
Indices: 85016111--85016153 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
85016101 TAAATGGATA
*
85016111 ATTATCTAATT-AAT-TTT
1 ATTATTTAATTAAATATTT
85016128 ATTATTTAATTAAATATTT
1 ATTATTTAATTAAATATTT
85016147 ATT-TTTA
1 ATTATTTA
85016154 GATAAATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 10 0.43
18 7 0.30
19 6 0.26
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
ATTATTTAATTAAATATTT
Found at i:85016665 original size:11 final size:11
Alignment explanation
Indices: 85016651--85016680 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
85016641 AAAAGCAAGG
85016651 AAAAAGAAAAAA
1 AAAAAG-AAAAA
85016663 AAAAAGAAAAA
1 AAAAAGAAAAA
85016674 AAAAAGA
1 AAAAAGA
85016681 GACAAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.67
12 6 0.33
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:85016668 original size:12 final size:12
Alignment explanation
Indices: 85016651--85016678 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
85016641 AAAAGCAAGG
85016651 AAAAAGAAAAAA
1 AAAAAGAAAAAA
85016663 AAAAAGAAAAAA
1 AAAAAGAAAAAA
85016675 AAAA
1 AAAA
85016679 GAGACAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAAAA
Found at i:85019402 original size:15 final size:16
Alignment explanation
Indices: 85019384--85019414 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
85019374 TAAAAGTTTT
85019384 AAAATTAT-AAAATAA
1 AAAATTATGAAAATAA
85019399 AAAATTATGAAAATAA
1 AAAATTATGAAAATAA
85019415 TTTTTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (16 bp):
AAAATTATGAAAATAA
Found at i:85019964 original size:26 final size:24
Alignment explanation
Indices: 85019916--85019964 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
85019906 GAATTTTAGA
* *
85019916 ATTTTTATTTTTTGAATTTTAAAG
1 ATTTTTATTTTTAGAATTATAAAG
85019940 ATTTTTAATTTTTAAGAATTATAAA
1 ATTTTT-ATTTTT-AGAATTATAAA
85019965 TTTAAAAGTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.29
25 6 0.29
26 9 0.43
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (24 bp):
ATTTTTATTTTTAGAATTATAAAG
Found at i:85019967 original size:24 final size:22
Alignment explanation
Indices: 85019906--85019967 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 22
85019896 AAATAATATT
*
85019906 GAATTTTAGAATTTTTATTTTTT
1 GAATTTTA-AATTTTTATTTTTA
85019929 GAATTTTAAAGATTTTTAATTTTTAA
1 GAATTTT-AA-ATTTTT-ATTTTT-A
*
85019955 GAATTATAAATTT
1 GAATTTTAAATTT
85019968 AAAAGTCTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
23 8 0.24
24 11 0.33
25 8 0.24
26 6 0.18
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.56
Consensus pattern (22 bp):
GAATTTTAAATTTTTATTTTTA
Found at i:85021132 original size:31 final size:31
Alignment explanation
Indices: 85021089--85021152 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
85021079 CCTTTTCATA
*
85021089 TTTCATAATTCATAACACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTAGGCCGAAGCCT
* **
85021120 TTTCATATTTCATATTACTAGGCCGAAGCCT
1 TTTCATAATTCATAACACTAGGCCGAAGCCT
85021151 TT
1 TT
85021153 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (31 bp):
TTTCATAATTCATAACACTAGGCCGAAGCCT
Found at i:85021388 original size:25 final size:24
Alignment explanation
Indices: 85021347--85021561 Score: 217
Period size: 25 Copynumber: 8.9 Consensus size: 24
85021337 CTTTATCATA
*
85021347 TAACTGGAGGCCT-AGCCTCTTTTAG
1 TAACTGG-GGCATAAGCC-CTTTTAG
* *
85021372 TAACCGGGGCAAAAGCCCTTTTTA-
1 TAACTGGGGCATAAGCCC-TTTTAG
*
85021396 TAACTGGGGCATAAGCCCTTTATCG
1 TAACTGGGGCATAAGCCCTTT-TAG
* *
85021421 TAACTGGGGCATAAGCCCTTCATCG
1 TAACTGGGGCATAAGCCCTT-TTAG
*
85021446 TAACTGGGGCATAAGCCCTTCATCA-
1 TAACTGGGGCATAAGCCCTT--TTAG
*
85021471 TAACTGGGGCATAAGCCC-TTTAA
1 TAACTGGGGCATAAGCCCTTTTAG
*
85021494 TAACTGGGGCATAAGCCC-TTTAA
1 TAACTGGGGCATAAGCCCTTTTAG
* *
85021517 TAACTGGGGTATAAGCCC-TTTAA
1 TAACTGGGGCATAAGCCCTTTTAG
*
85021540 TAATTGGGGCATAAGCCCTTTT
1 TAACTGGGGCATAAGCCCTTTT
85021562 GCACTTCCTC
Statistics
Matches: 167, Mismatches: 15, Indels: 17
0.84 0.08 0.09
Matches are distributed among these distances:
22 2 0.01
23 64 0.38
24 25 0.15
25 76 0.46
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (24 bp):
TAACTGGGGCATAAGCCCTTTTAG
Found at i:85021464 original size:50 final size:48
Alignment explanation
Indices: 85021372--85021560 Score: 256
Period size: 50 Copynumber: 3.9 Consensus size: 48
85021362 CCTCTTTTAG
* * * *
85021372 TAACCGGGGCAAAAGCCCTTTTTATAACTGGGGCATAAGCCCTTTATCG
1 TAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTATCA
** *
85021421 TAACTGGGGCATAAGCCCTTCATCGTAACTGGGGCATAAGCCCTTCATCA
1 TAACTGGGGCATAAGCCCTT--TAATAACTGGGGCATAAGCCCTTTATCA
85021471 TAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTA--A
1 TAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTATCA
* *
85021517 TAACTGGGGTATAAGCCCTTTAATAATTGGGGCATAAGCCCTTT
1 TAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTT
85021561 TGCACTTCCT
Statistics
Matches: 127, Mismatches: 11, Indels: 7
0.88 0.08 0.05
Matches are distributed among these distances:
46 43 0.34
48 24 0.19
49 16 0.13
50 44 0.35
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (48 bp):
TAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTATCA
Found at i:85021500 original size:23 final size:23
Alignment explanation
Indices: 85021367--85021560 Score: 235
Period size: 23 Copynumber: 8.1 Consensus size: 23
85021357 CCTAGCCTCT
* * *
85021367 TTTAGTAACCGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
85021390 TTTTTATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
85021414 TTTATCGTAACTGGGGCATAAGCCC
1 TTTA--ATAACTGGGGCATAAGCCC
**
85021439 TTCATCGTAACTGGGGCATAAGCCC
1 TT--TAATAACTGGGGCATAAGCCC
*
85021464 TTCATCATAACTGGGGCATAAGCCC
1 TT--TAATAACTGGGGCATAAGCCC
85021489 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
85021512 TTTAATAACTGGGGTATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
85021535 TTTAATAATTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
85021558 TTT
1 TTT
85021561 TGCACTTCCT
Statistics
Matches: 154, Mismatches: 12, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
23 69 0.45
24 19 0.12
25 65 0.42
27 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:85021633 original size:9 final size:9
Alignment explanation
Indices: 85021619--85021675 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
85021609 ATCTCATGTG
85021619 CATATCATA
1 CATATCATA
*
85021628 CATATCATGTG
1 CATATCA--TA
85021639 CATATCATA
1 CATATCATA
* *
85021648 CATGTCATGTG
1 CATATCA--TA
85021659 CATATCATA
1 CATATCATA
85021668 CATATCAT
1 CATATCAT
85021676 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:85021635 original size:20 final size:20
Alignment explanation
Indices: 85021607--85021677 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
85021597 GCATTTATGA
*
85021607 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
85021627 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
85021647 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
85021667 ACATATCATGT
1 ACATATCATGT
85021678 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:85021642 original size:11 final size:11
Alignment explanation
Indices: 85021612--85021666 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
85021602 TATGAACATC
85021612 TCATGTGCATA
1 TCATGTGCATA
*
85021623 TCA--TACATA
1 TCATGTGCATA
85021632 TCATGTGCATA
1 TCATGTGCATA
* *
85021643 TCA--TACATG
1 TCATGTGCATA
85021652 TCATGTGCATA
1 TCATGTGCATA
85021663 TCAT
1 TCAT
85021667 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:85021742 original size:25 final size:25
Alignment explanation
Indices: 85021714--85021761 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
85021704 ATATATAAAC
* * *
85021714 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
85021739 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
85021762 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:85022950 original size:27 final size:27
Alignment explanation
Indices: 85022920--85023003 Score: 80
Period size: 27 Copynumber: 3.1 Consensus size: 27
85022910 GGGCATATTC
* *
85022920 GTCATTTTACCATACAAGGGTATTACG
1 GTCACTTTACCATACAAGGGTATTACA
* ***
85022947 GTCACTTTACCCTATTGGGGCT-TTACA
1 GTCACTTTACCATACAAGGG-TATTACA
* *
85022974 GTCACTTTACCTTACAAGGGCATTACA
1 GTCACTTTACCATACAAGGGTATTACA
85023001 GTC
1 GTC
85023004 TTTTTACCTA
Statistics
Matches: 44, Mismatches: 11, Indels: 4
0.75 0.19 0.07
Matches are distributed among these distances:
27 43 0.98
28 1 0.02
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (27 bp):
GTCACTTTACCATACAAGGGTATTACA
Found at i:85023095 original size:27 final size:27
Alignment explanation
Indices: 85023062--85023401 Score: 197
Period size: 27 Copynumber: 12.6 Consensus size: 27
85023052 TTGGTAAATC
*
85023062 TACAAACCAAGGGTATTTCAGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
** * * *
85023089 TGTAAACCAATGATATTTCTA-TAATTTT
1 TACAAATCAAGGGTATTTC-AGTAA-TTT
* * *
85023117 TAGAAAGTCAAGGGTATTTCTGTAACTT
1 TACAAA-TCAAGGGTATTTCAGTAATTT
** * * **
85023145 TGTAAATTAGGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
*
85023172 TACAAATTAAGGGTATTTC-GATAATTT
1 TACAAATCAAGGGTATTTCAG-TAATTT
* * **
85023199 CACAAA-CCAGTGGTATTTTGGTAATTT
1 TACAAATCAAG-GGTATTTCAGTAATTT
* **
85023226 TACAAA-CTAGGGGTATTTTGGTAATTT
1 TACAAATC-AAGGGTATTTCAGTAATTT
** *
85023253 TACAAATTGAGGGTATTTCTGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
* *
85023280 TACAAACCAAGGGTATTTTAGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
* * *
85023307 TACAGA-CTAGGGTATTTTAGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
* * *** *
85023333 TATAAATCGAGGGTAAAACAGTAATTC
1 TACAAATCAAGGGTATTTCAGTAATTT
** **
85023360 TGTAAATCAAGGGTAAAAT-AGTAATTT
1 TACAAATCAAGGGT-ATTTCAGTAATTT
*
85023387 TATAAATCAAGGGTA
1 TACAAATCAAGGGTA
85023402 AAACGGTACT
Statistics
Matches: 248, Mismatches: 54, Indels: 23
0.76 0.17 0.07
Matches are distributed among these distances:
26 27 0.11
27 189 0.76
28 19 0.08
29 13 0.05
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (27 bp):
TACAAATCAAGGGTATTTCAGTAATTT
Found at i:85023246 original size:81 final size:81
Alignment explanation
Indices: 85023125--85023339 Score: 285
Period size: 81 Copynumber: 2.7 Consensus size: 81
85023115 TTTAGAAAGT
* ** *
85023125 CAAGGGTATTTCT-GTAACTTTGTAAATTAGGGGTATTTTGGTAATTTTACAAATTAAGGGTATT
1 CAAGGGTATTT-TAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATTAAGGGTATT
85023189 TC-GATAATTTCACAAAC
65 TCTG-TAATTTCACAAAC
* *
85023206 C-AGTGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATT
1 CAAG-GGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATTAAGGGTATT
*
85023270 TCTGTAATTTTACAAAC
65 TCTGTAATTTCACAAAC
* * *
85023287 CAAGGGTATTTTAGTAATTTTACAGACTA-GGGTATTTTAGTAATTTTATAAAT
1 CAAGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAAT
85023340 CGAGGGTAAA
Statistics
Matches: 120, Mismatches: 10, Indels: 9
0.86 0.07 0.06
Matches are distributed among these distances:
80 25 0.21
81 92 0.77
82 3 0.03
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (81 bp):
CAAGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTT
CTGTAATTTCACAAAC
Found at i:85023454 original size:27 final size:27
Alignment explanation
Indices: 85023325--85023455 Score: 154
Period size: 27 Copynumber: 4.9 Consensus size: 27
85023315 AGGGTATTTT
*
85023325 AGTAATTTTATAAATCGAGGGTAAAAC
1 AGTAATTTTGTAAATCGAGGGTAAAAC
* * *
85023352 AGTAATTCTGTAAATCAAGGGTAAAAT
1 AGTAATTTTGTAAATCGAGGGTAAAAC
* *
85023379 AGTAATTTTATAAATCAAGGGTAAAAC
1 AGTAATTTTGTAAATCGAGGGTAAAAC
* * *
85023406 GGTACTTTTGTAAATTGAGGGTAAAAC
1 AGTAATTTTGTAAATCGAGGGTAAAAC
* * *
85023433 GGTAATTATGTAAATCGGGGGTA
1 AGTAATTTTGTAAATCGAGGGTA
85023456 CTTTGGTAAT
Statistics
Matches: 88, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 88 1.00
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.31
Consensus pattern (27 bp):
AGTAATTTTGTAAATCGAGGGTAAAAC
Found at i:85027979 original size:23 final size:23
Alignment explanation
Indices: 85027949--85028006 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
85027939 ATATCTTTAT
*
85027949 TTTCACTTGATTGTTCTGCTATG
1 TTTCACTTGATTGTTCTACTATG
*
85027972 TTTCACTTGATTGTTCTACTGTG
1 TTTCACTTGATTGTTCTACTATG
*
85027995 TTCCACTTGATT
1 TTTCACTTGATT
85028007 TCTAAAATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.14, C:0.19, G:0.16, T:0.52
Consensus pattern (23 bp):
TTTCACTTGATTGTTCTACTATG
Found at i:85028806 original size:19 final size:18
Alignment explanation
Indices: 85028784--85028841 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
85028774 TCTAGTATAC
85028784 ATTAAATATGTGAATACAT
1 ATTAAATATGTGAATA-AT
*
85028803 ATTATATA-GT-AA-AAT
1 ATTAAATATGTGAATAAT
*
85028818 AATAAATATGTGAATATAT
1 ATTAAATATGTGAATA-AT
85028837 ATTAA
1 ATTAA
85028842 GATTATGTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
15 8 0.26
16 3 0.10
17 4 0.13
18 3 0.10
19 13 0.42
ACGTcount: A:0.52, C:0.02, G:0.09, T:0.38
Consensus pattern (18 bp):
ATTAAATATGTGAATAAT
Found at i:85030582 original size:16 final size:17
Alignment explanation
Indices: 85030561--85030593 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
85030551 AGGGAAGGAT
*
85030561 AAAAAATTTTA-AATAA
1 AAAAAAGTTTACAATAA
85030577 AAAAAAGTTTACAATAA
1 AAAAAAGTTTACAATAA
85030594 CTCAATATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.27
Consensus pattern (17 bp):
AAAAAAGTTTACAATAA
Found at i:85033573 original size:159 final size:158
Alignment explanation
Indices: 85033294--85033590 Score: 386
Period size: 159 Copynumber: 1.9 Consensus size: 158
85033284 AATTTTAAAT
* * * *
85033294 TAAATAAAATCTGTTTAGGGATTTATTCCCGCCGTTCAGCATATTTTATTCTCTATTTTGTTTTT
1 TAAATAAAATCTATTTAGGGATTTATTCCCACCGTTCAACAGATTTTATTCTCTATTTTGTTTTT
* * *
85033359 ATTTCCAAACAAATATTAAAATTAAATAAAAATTGTTTTGGGTTTTATTCTTGTCGTTTAACAGA
66 ATTTCCAAACAAATATTAAAATTAAAT-AAAATTCTTTTGGGATTTATTCTTGTCGTTCAACAGA
85033424 TTTTATTCGATTTTGTTTCAAATTAAAAG
130 TTTTATTCGATTTTGTTTCAAATTAAAAG
* * *
85033453 TAAATAAAATCTATTTCGGGATTTATTCCCACCGTTCAACGGATTTTATTC-C-ATTTTTTATTT
1 TAAATAAAATCTATTTAGGGATTTATTCCCACCGTTCAACAGATTTTATTCTCTATTTTGT-TTT
* * *
85033516 TATTTCTAAACGGGAA-ATTAAAGTTAAAT-AAATTCCCTTTTGGGATTTATTCTTGTCGTTCAA
65 TATTTCCAAAC--AAATATTAAAATTAAATAAAATT--CTTTTGGGATTTATTCTTGTCGTTCAA
*
85033579 TAGATTTTATTC
126 CAGATTTTATTC
85033591 CAATTTTGAT
Statistics
Matches: 119, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
157 11 0.09
158 14 0.12
159 92 0.77
160 2 0.02
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.46
Consensus pattern (158 bp):
TAAATAAAATCTATTTAGGGATTTATTCCCACCGTTCAACAGATTTTATTCTCTATTTTGTTTTT
ATTTCCAAACAAATATTAAAATTAAATAAAATTCTTTTGGGATTTATTCTTGTCGTTCAACAGAT
TTTATTCGATTTTGTTTCAAATTAAAAG
Found at i:85033645 original size:87 final size:86
Alignment explanation
Indices: 85033443--85033651 Score: 199
Period size: 87 Copynumber: 2.4 Consensus size: 86
85033433 ATTTTGTTTC
* * * *
85033443 AAATTAAAAGTAAATAAAATCTATTTCGGGATTTATTCCCACCGTTCAACGGATTTTATTCCATT
1 AAATTAAAATTAAATAAAAT-TTTTTCGGGATTTATTCCCACCGTTCAACAGATTTTATTCCAAT
* * *
85033508 TTTTATTTTATTTCTAAACGGG
65 TTTGATTTTATTTCCAAACGAG
* **** *
85033530 AAATTAAAGTTAAAT-AAATTCCCTTTT-GGGATTTATTCTTGTCGTTCAATAGATTTTATTCCA
1 AAATTAAAATTAAATAAAATT---TTTTCGGGATTTATTCCCACCGTTCAACAGATTTTATTCCA
85033593 ATTTTGATTTTATTTCCACAACGAG
63 ATTTTGATTTTATTTCCA-AACGAG
* *
85033618 -CATTAAAATTAAAATAAAATTTGTTTGGGGATTT
1 AAATTAAAATT-AAATAAAATTT-TTTCGGGATTT
85033652 CGCTTCTCCG
Statistics
Matches: 99, Mismatches: 15, Indels: 15
0.77 0.12 0.12
Matches are distributed among these distances:
85 1 0.01
86 5 0.05
87 69 0.70
88 19 0.19
89 5 0.05
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (86 bp):
AAATTAAAATTAAATAAAATTTTTTCGGGATTTATTCCCACCGTTCAACAGATTTTATTCCAATT
TTGATTTTATTTCCAAACGAG
Found at i:85037100 original size:5 final size:5
Alignment explanation
Indices: 85037090--85037142 Score: 65
Period size: 5 Copynumber: 10.8 Consensus size: 5
85037080 GCAACCCAAT
* *
85037090 TTTTA TTTTA TTTTA TTTTA GTTTA TTTTA TTTT- TATTTA TTTT- TCTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T-TTTA TTTTA TTTTA
85037139 TTTT
1 TTTT
85037143 TCTTATTATT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
4 4 0.10
5 36 0.88
6 1 0.02
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:85037114 original size:15 final size:15
Alignment explanation
Indices: 85037088--85037161 Score: 68
Period size: 15 Copynumber: 5.0 Consensus size: 15
85037078 AGGCAACCCA
85037088 ATTTTTATTTTATTTT
1 ATTTTTA-TTTATTTT
85037104 A-TTTTAGTTTATTTT
1 ATTTTTA-TTTATTTT
85037119 ATTTTTATTTA-TTT
1 ATTTTTATTTATTTT
*
85037133 -TTCTTATTT-TTCTT
1 ATTTTTATTTATT-TT
85037147 ATTATTTA-TTATTTT
1 ATT-TTTATTTATTTT
85037162 TAGATATTAA
Statistics
Matches: 49, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
13 9 0.18
14 5 0.10
15 24 0.49
16 11 0.22
ACGTcount: A:0.19, C:0.03, G:0.01, T:0.77
Consensus pattern (15 bp):
ATTTTTATTTATTTT
Found at i:85037141 original size:19 final size:20
Alignment explanation
Indices: 85037117--85037163 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
85037107 TTAGTTTATT
* *
85037117 TTATTTTTATTTATT-TTTC
1 TTATTTTTACTTATTATTTA
85037136 TTATTTTT-CTTATTATTTA
1 TTATTTTTACTTATTATTTA
85037155 TTATTTTTA
1 TTATTTTTA
85037164 GATATTAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.77
Consensus pattern (20 bp):
TTATTTTTACTTATTATTTA
Found at i:85037143 original size:25 final size:25
Alignment explanation
Indices: 85037088--85037156 Score: 72
Period size: 25 Copynumber: 2.8 Consensus size: 25
85037078 AGGCAACCCA
85037088 ATTTTTA-TTTTATTTTATTTTAGTTT
1 ATTTTTATTTTTA-TTTATTTTA-TTT
85037114 A-TTTTATTTTTATTTATTTT-TCTT
1 ATTTTTATTTTTATTTATTTTAT-TT
* *
85037138 ATTTTTCTTATTATTTATT
1 ATTTTTATTTTTATTTATT
85037157 ATTTTTAGAT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
23 1 0.03
24 3 0.08
25 28 0.74
26 6 0.16
ACGTcount: A:0.19, C:0.03, G:0.01, T:0.77
Consensus pattern (25 bp):
ATTTTTATTTTTATTTATTTTATTT
Found at i:85037163 original size:9 final size:9
Alignment explanation
Indices: 85037117--85037163 Score: 58
Period size: 9 Copynumber: 5.0 Consensus size: 9
85037107 TTAGTTTATT
85037117 TTATTTTTA
1 TTATTTTTA
*
85037126 TTTATTTTTC
1 -TTATTTTTA
*
85037136 TTATTTTTC
1 TTATTTTTA
85037145 TTATTATTTA
1 TTATT-TTTA
85037155 TTATTTTTA
1 TTATTTTTA
85037164 GATATTAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
9 18 0.53
10 16 0.47
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.77
Consensus pattern (9 bp):
TTATTTTTA
Found at i:85037997 original size:20 final size:20
Alignment explanation
Indices: 85037972--85038011 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
85037962 TAATTTTAGG
85037972 ATTTATTT-TCATTTATCTTT
1 ATTTATTTGT-ATTTATCTTT
85037992 ATTTATTTGTATTTATCTTT
1 ATTTATTTGTATTTATCTTT
85038012 TAGAATTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.20, C:0.07, G:0.03, T:0.70
Consensus pattern (20 bp):
ATTTATTTGTATTTATCTTT
Found at i:85042292 original size:20 final size:21
Alignment explanation
Indices: 85042267--85042308 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
85042257 TATATCCTGA
85042267 TTTATTTGATTCTAAT-AAAT
1 TTTATTTGATTCTAATCAAAT
*
85042287 TTTATTTGATTTTAATCAAAT
1 TTTATTTGATTCTAATCAAAT
85042308 T
1 T
85042309 AATTCAATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (21 bp):
TTTATTTGATTCTAATCAAAT
Found at i:85043979 original size:46 final size:45
Alignment explanation
Indices: 85043878--85043971 Score: 136
Period size: 46 Copynumber: 2.1 Consensus size: 45
85043868 TGTAACCCGC
* * *
85043878 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-ATGCGCAA
*
85043924 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG-ATGCTCAA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAA
85043968 CCAT
1 CCAT
85043972 CCTAGTGACA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 9 0.20
46 35 0.80
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.20
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAA
Found at i:85049180 original size:48 final size:48
Alignment explanation
Indices: 85049120--85049310 Score: 292
Period size: 48 Copynumber: 4.0 Consensus size: 48
85049110 CGGCCACAAT
* * *
85049120 ATATACACATCTCATACATATTTCACATTAGCCATACGGCTTTACTAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
**
85049168 ATATACATATCTCATACATATTTCATGTTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* **
85049216 ATATATATATCTCATACATATTTCATGTTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* *
85049264 ATATACATATCTCATACATTTTTCACATTAGCCATTCGGATTTACCA
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCA
85049311 GACATATATA
Statistics
Matches: 132, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 132 1.00
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.37
Consensus pattern (48 bp):
ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
Found at i:85063027 original size:25 final size:25
Alignment explanation
Indices: 85062955--85063027 Score: 76
Period size: 25 Copynumber: 2.9 Consensus size: 25
85062945 AAGTGTGTAC
* *
85062955 ATAGTATTAAAAATATATACATAAT
1 ATAGTATTAAAAATACATATATAAT
** * *
85062980 ATAGCGTTAAAATTACATGTATAAT
1 ATAGTATTAAAAATACATATATAAT
85063005 ATAGTTATTAAAAATA-ATATATA
1 ATAG-TATTAAAAATACATATATA
85063028 TTCATAAGAT
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
25 29 0.78
26 8 0.22
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.37
Consensus pattern (25 bp):
ATAGTATTAAAAATACATATATAAT
Found at i:85063257 original size:21 final size:21
Alignment explanation
Indices: 85063233--85063273 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
85063223 TTACATAAAT
85063233 ATACACATAT-ATATTAAAAAA
1 ATACACA-ATGATATTAAAAAA
*
85063254 ATACATAATGATATTAAAAA
1 ATACACAATGATATTAAAAA
85063274 TGCGTACATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.29
Consensus pattern (21 bp):
ATACACAATGATATTAAAAAA
Found at i:85063637 original size:26 final size:26
Alignment explanation
Indices: 85063608--85063666 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
85063598 ACTATGTACA
85063608 AAAATATATACA-TA-TACATATATAAT
1 AAAATATATACACTATTA-ATA-ATAAT
*
85063634 AAAAAATATACACTATTAATAATAAT
1 AAAATATATACACTATTAATAATAAT
85063660 -AAATATA
1 AAAATATA
85063667 GTAATAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
25 6 0.21
26 16 0.55
27 5 0.17
28 2 0.07
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (26 bp):
AAAATATATACACTATTAATAATAAT
Found at i:85063758 original size:47 final size:45
Alignment explanation
Indices: 85063562--85063759 Score: 107
Period size: 47 Copynumber: 4.2 Consensus size: 45
85063552 AACATAATAT
* * *
85063562 AATAAAAATATTAAAATAAAGTAATTAGAAAATAATACTATGTACAAA
1 AATAAATATATTAAAATAAA-TAATTA-AAAATAAAACTAT-TATAAA
* * * * * * *
85063610 AATATATACA-TATACATATATAATAAAAAATATACACTATTAATAAT
1 AATAAATATATTA-AAATAAATAATTAAAAATA-AAACTATT-ATAAA
* * ** * **
85063657 AATAAATATAGTAATAATATTAATAA-CAAAAAGCAAA-TATAAT-GT
1 AATAAATATATTAA-AATA--AATAATTAAAAATAAAACTATTATAAA
85063702 AATAAATATATTAAAATAAAGTAATTAAAAATAAAACTATGTATAAA
1 AATAAATATATTAAAATAAA-TAATTAAAAATAAAACTAT-TATAAA
*
85063749 AATATATATAT
1 AATAAATATAT
85063760 ACATATATAA
Statistics
Matches: 111, Mismatches: 27, Indels: 25
0.68 0.17 0.15
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 12 0.11
45 17 0.15
46 11 0.10
47 38 0.34
48 19 0.17
49 5 0.05
50 4 0.04
ACGTcount: A:0.61, C:0.05, G:0.04, T:0.31
Consensus pattern (45 bp):
AATAAATATATTAAAATAAATAATTAAAAATAAAACTATTATAAA
Found at i:85063801 original size:3 final size:3
Alignment explanation
Indices: 85063793--85063986 Score: 91
Period size: 3 Copynumber: 65.0 Consensus size: 3
85063783 AATATTATAT
* * *
85063793 ATA ATA ATA ATA CTA GA-A ATA ATA ATA GCTA GTA ATA ATA ATA CATTA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA -ATA ATA ATA ATA ATA -A-TA
* * *
85063841 A-A A-A ATA ATA ATA ATG ATA CT- ATA TTA ATA A-A ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * * * *
85063885 A-A AGGA ATA AAA ACA ATG TTA ATA ACA AGA ATA TTA ATA ATA GTA
1 ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
85063930 ATA AT- ATAA ATA AT- ATAA ATA ATA ATA TTA ATA ATA TTA GA-A ATG
1 ATA ATA AT-A ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA -ATA ATA
85063975 ATA ATA ATA ATA
1 ATA ATA ATA ATA
85063987 TTTAATAAAA
Statistics
Matches: 143, Mismatches: 32, Indels: 32
0.69 0.15 0.15
Matches are distributed among these distances:
2 15 0.10
3 116 0.81
4 10 0.07
5 2 0.01
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:85063817 original size:135 final size:139
Alignment explanation
Indices: 85063555--85063819 Score: 374
Period size: 140 Copynumber: 1.9 Consensus size: 139
85063545 ATACGTAAAC
*
85063555 ATAATATAATAAAAATATTAAAATAAAGTAATTAGAAAATAATACTATGTACAAAAATATATACA
1 ATAATATAATAAAAATATTAAAATAAAGTAATTAGAAAATAAAACTATGTACAAAAATATATA-A
* * *
85063620 TATACATATATAATAAAAAATATACACTATTAATAATAATAAATATAGTAATAATATTAATAACA
65 TATACATATATAATAAAAAATACACAATATTAATAATAATAAATATAGTAATAATAATAATAACA
85063685 AAAAGCAAAT
130 AAAAGCAAAT
* * *
85063695 ATAATGTAATAAATATATTAAAATAAAGTAATTA-AAAATAAAACTATGTATAAAAATATAT-AT
1 ATAATATAATAAAAATATTAAAATAAAGTAATTAGAAAATAAAACTATGTACAAAAATATATAAT
* *
85063758 ATACATATATAATAAAACATACACTAATATT-ATATATAATAATAATACTAGAAATAATAATA
66 ATACATATATAATAAAAAATACAC-AATATTAATA-ATAAT-A-AATA-TAGTAATAATAATA
85063820 GCTAGTAATA
Statistics
Matches: 111, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
137 27 0.24
138 10 0.09
139 26 0.23
140 36 0.32
141 12 0.11
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.31
Consensus pattern (139 bp):
ATAATATAATAAAAATATTAAAATAAAGTAATTAGAAAATAAAACTATGTACAAAAATATATAAT
ATACATATATAATAAAAAATACACAATATTAATAATAATAAATATAGTAATAATAATAATAACAA
AAAGCAAAT
Found at i:85064556 original size:16 final size:16
Alignment explanation
Indices: 85064535--85064568 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
85064525 TGGTGGAGCA
*
85064535 GGTGGCAGTGGGTGGT
1 GGTGGCAGAGGGTGGT
85064551 GGTGGCAGAGGGTGGT
1 GGTGGCAGAGGGTGGT
85064567 GG
1 GG
85064569 CAGACCATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.09, C:0.06, G:0.65, T:0.21
Consensus pattern (16 bp):
GGTGGCAGAGGGTGGT
Found at i:85064564 original size:13 final size:13
Alignment explanation
Indices: 85064548--85064572 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
85064538 GGCAGTGGGT
85064548 GGTGGTGGCAGAG
1 GGTGGTGGCAGAG
85064561 GGTGGTGGCAGA
1 GGTGGTGGCAGA
85064573 CCATAGGGCA
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:0.16, C:0.08, G:0.60, T:0.16
Consensus pattern (13 bp):
GGTGGTGGCAGAG
Found at i:85064623 original size:13 final size:13
Alignment explanation
Indices: 85064605--85064629 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
85064595 GGCTAGGGTT
85064605 TTTTTTTGTTTTG
1 TTTTTTTGTTTTG
85064618 TTTTTTTGTTTT
1 TTTTTTTGTTTT
85064630 AGATATTGGG
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:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (13 bp):
TTTTTTTGTTTTG
Found at i:85065358 original size:86 final size:87
Alignment explanation
Indices: 85065200--85065359 Score: 241
Period size: 86 Copynumber: 1.8 Consensus size: 87
85065190 AACAGTCATT
* *
85065200 AAAAACAGAACTTGAAAATACCTCAGCATATGACCCGAGGCTCAACTCACCTCTCGCAATATAAG
1 AAAAACAAAAATTGAAAATACCTCAGCA-ATGACCCGAGGCTCAACTCACCTCTCGCAATATAAG
*
85065265 TTTATTTTTAAAAACAGAATTTG
65 TTGATTTTTAAAAACAGAATTTG
* * * *
85065288 AAAAACAAAAATTGAAAATACCTCAGC-GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAACAAAAATTGAAAATACCTCAGCAATGACCCGAGGCTCAACTCACCTCTCGCAATATAAGT
85065352 TGATTTTT
66 TGATTTTT
85065360 TGAAAAGCAG
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
86 40 0.62
88 25 0.38
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.27
Consensus pattern (87 bp):
AAAAACAAAAATTGAAAATACCTCAGCAATGACCCGAGGCTCAACTCACCTCTCGCAATATAAGT
TGATTTTTAAAAACAGAATTTG
Found at i:85065475 original size:73 final size:72
Alignment explanation
Indices: 85065284--85065666 Score: 570
Period size: 73 Copynumber: 5.2 Consensus size: 72
85065274 AAAAACAGAA
* *
85065284 TTTGAAAAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTTG-AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTTAACTCACCTCTCGCAATATG
85065349 AGTTGATTT
65 AGTTGA-TT
* *
85065358 TTTGAAAAGCAGAAATTAAAAATACCTCAGCGTGTCCCGAGGCTTAACTCACCTCTCGCAATATG
1 TTTGAAAA-CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTTAACTCACCTCTCGCAATATG
85065423 AGTTGATT
65 AGTTGATT
* * *
85065431 TTTGACAAACAGAAATTGAAATTACCTCAGCTTGTCCCGAGGCTTAACTCACCTCTCGCAATATG
1 TTTGA-AAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTTAACTCACCTCTCGCAATATG
85065496 AGTTGATT
65 AGTTGATT
* *
85065504 TTTAACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGG-TTCAACTCACCTCTCGCAATAT
1 TTTGA-AAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTT-AACTCACCTCTCGCAATAT
85065568 GAGTTGATTTT
64 GAGTTGA--TT
* * *
85065579 TTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTTAACTCACCTCTCGCAATATA
1 TTTGAAA-ACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTTAACTCACCTCTCGCAATATG
85065644 AGTTGATT
65 AGTTGATT
85065652 TTTGAAAACAGAAAT
1 TTTGAAAACAGAAAT
85065667 AAAAATATCA
Statistics
Matches: 287, Mismatches: 15, Indels: 16
0.90 0.05 0.05
Matches are distributed among these distances:
72 10 0.03
73 146 0.51
74 67 0.23
75 62 0.22
76 2 0.01
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (72 bp):
TTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTTAACTCACCTCTCGCAATATGA
GTTGATT
Found at i:85065580 original size:147 final size:145
Alignment explanation
Indices: 85065284--85065673 Score: 570
Period size: 147 Copynumber: 2.7 Consensus size: 145
85065274 AAAAACAGAA
* *
85065284 TTTGAAAAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTTG-AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTTAACTCACCTCTCGCAATATG
*
85065349 AGTTGATTTTTTGAAAAGCAGAAATTAAAAATACCTCAGCGTGTCCCGAGGCTTAACTCACCTCT
65 AGTTGA-TTTTT-AAAAACAGAAATTAAAAATACCTCAGCGTGTCCCGAGGCTTAACTCACCTCT
85065414 CGCAATATGAGTTGA-TT
128 CGCAATATGAGTTGATTT
* * *
85065431 TTTGACAAACAGAAATTGAAATTACCTCAGCTTGTCCCGAGGCTTAACTCACCTCTCGCAATATG
1 TTTGA-AAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTTAACTCACCTCTCGCAATATG
* * *
85065496 AGTTGATTTTTAACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGG-TTCAACTCACCTCT
65 AGTTGATTTTTAA-AAACAGAAATTAAAAATACCTCAGCGTGTCCCGAGGCTT-AACTCACCTCT
85065560 CGCAATATGAGTTGATTTT
128 CGCAATATGAGTTGA-TTT
* * *
85065579 TTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTTAACTCACCTCTCGCAATATA
1 TTTGAAA-ACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTTAACTCACCTCTCGCAATATG
*
85065644 AGTTGATTTTTGAAAACAGAAA-TAAAAATA
65 AGTTGATTTTTAAAAACAGAAATTAAAAATA
85065674 TCAGAATACC
Statistics
Matches: 219, Mismatches: 18, Indels: 13
0.88 0.07 0.05
Matches are distributed among these distances:
145 4 0.02
146 70 0.32
147 75 0.34
148 70 0.32
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (145 bp):
TTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTTAACTCACCTCTCGCAATATGA
GTTGATTTTTAAAAACAGAAATTAAAAATACCTCAGCGTGTCCCGAGGCTTAACTCACCTCTCGC
AATATGAGTTGATTT
Found at i:85066487 original size:44 final size:44
Alignment explanation
Indices: 85066431--85066537 Score: 198
Period size: 44 Copynumber: 2.5 Consensus size: 44
85066421 CTTCATTAGA
85066431 ACGCCC-TTTCGGGTTTTCATCCTAATCTTTTGTGTTAATCAAG
1 ACGCCCTTTTCGGGTTTTCATCCTAATCTTTTGTGTTAATCAAG
*
85066474 ACGCCTTTTTCGGGTTTTCATCCTAATCTTTTGTGTTAATCAAG
1 ACGCCCTTTTCGGGTTTTCATCCTAATCTTTTGTGTTAATCAAG
85066518 ACGCCCTTTTCGGGTTTTCA
1 ACGCCCTTTTCGGGTTTTCA
85066538 CTTTAATTTT
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
43 5 0.08
44 56 0.92
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.43
Consensus pattern (44 bp):
ACGCCCTTTTCGGGTTTTCATCCTAATCTTTTGTGTTAATCAAG
Found at i:85074012 original size:22 final size:22
Alignment explanation
Indices: 85073987--85074031 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
85073977 ATGCAATAAA
*
85073987 TGAATGAATGACAAATGAATGT
1 TGAATAAATGACAAATGAATGT
*
85074009 TGAATAAATGACGAATGAATGT
1 TGAATAAATGACAAATGAATGT
85074031 T
1 T
85074032 AGTCATGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.29
Consensus pattern (22 bp):
TGAATAAATGACAAATGAATGT
Found at i:85078276 original size:23 final size:19
Alignment explanation
Indices: 85078227--85078280 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 19
85078217 ATAAATATAC
85078227 ACATATATATATTAAAAAAT
1 ACATA-ATATATTAAAAAAT
85078247 ACATAATGATATTAAAAATACGT
1 ACATAAT-ATATTAAAAA-A--T
85078270 ACATAATATAT
1 ACATAATATAT
85078281 ATATACATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
19 2 0.07
20 15 0.50
21 1 0.03
22 4 0.13
23 8 0.27
ACGTcount: A:0.56, C:0.07, G:0.04, T:0.33
Consensus pattern (19 bp):
ACATAATATATTAAAAAAT
Found at i:85078278 original size:20 final size:20
Alignment explanation
Indices: 85078176--85078278 Score: 66
Period size: 23 Copynumber: 4.8 Consensus size: 20
85078166 CACATATTAG
*
85078176 AAATA-ATAATAATGTTAAA
1 AAATACATAATAATATTAAA
*
85078195 AAACAACTATTAATAATATTACATA
1 AAA-TAC-A-TAATAATATTA-A-A
*
85078220 AATATACACATATATATATTAAA
1 AA-ATACATA-ATA-ATATTAAA
*
85078243 AAATACATAATGATATT-AA
1 AAATACATAATAATATTAAA
*
85078262 AAATACGTACATAATAT
1 AAATACATA-ATAATAT
85078279 ATATATACAT
Statistics
Matches: 66, Mismatches: 8, Indels: 19
0.71 0.09 0.20
Matches are distributed among these distances:
19 13 0.20
20 12 0.18
21 2 0.03
22 7 0.11
23 14 0.21
24 6 0.09
25 11 0.17
26 1 0.02
ACGTcount: A:0.57, C:0.08, G:0.03, T:0.32
Consensus pattern (20 bp):
AAATACATAATAATATTAAA
Found at i:85078370 original size:15 final size:15
Alignment explanation
Indices: 85078347--85078377 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
85078337 TGCACAATAT
*
85078347 ATATGGTATTAAAAA
1 ATATAGTATTAAAAA
85078362 ATATAGTATTAAAAA
1 ATATAGTATTAAAAA
85078377 A
1 A
85078378 AACATAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.10, T:0.32
Consensus pattern (15 bp):
ATATAGTATTAAAAA
Found at i:85078634 original size:19 final size:19
Alignment explanation
Indices: 85078610--85078650 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
85078600 AAATACATAC
85078610 ATATACA-TATATAATAAAA
1 ATATACACTAT-TAATAAAA
*
85078629 ATATACACTATTAATAATA
1 ATATACACTATTAATAAAA
85078648 ATA
1 ATA
85078651 ATAATAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (19 bp):
ATATACACTATTAATAAAA
Found at i:85078648 original size:3 final size:3
Alignment explanation
Indices: 85078640--85078677 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
85078630 TATACACTAT
* *
85078640 TAA TAA TAA TAA TAA TAA T-A TAG TAA TAA TAT TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
85078678 CAAAAAGCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:85078655 original size:143 final size:139
Alignment explanation
Indices: 85078543--85078809 Score: 362
Period size: 143 Copynumber: 1.9 Consensus size: 139
85078533 ATATATACGT
*
85078543 AAACATAATATAATAAAAATATTAAAATAAAGTAATTAGAAAATAATACTATGTACAAAATACAT
1 AAACATAATATAATAAAAATATTAAAATAAAGTAATTA-AAAATAAAACTATGTA-AAAAT--AT
*
85078608 ACATATACATATATAATAAAAATATACACT-AT-TAATAATAATAATAATAATATAGTAATAATA
62 ACATATACATATATAAT-AAAACATACACTAATATAATAATAATAATAATAATATAG-AATAATA
85078671 TTAATAACAAAAAGC
125 TTAATAACAAAAAGC
* * * * *
85078686 AAATATAATGTAATAAATATATTAAAATAAAGTAATTAAAAATAAAACTATGTATAAATATATAT
1 AAACATAATATAATAAAAATATTAAAATAAAGTAATTAAAAATAAAACTATGTAAAAATATACAT
*
85078751 ATACATATATAATAAAACATACACTAATATTAT-AT-ATAATAATAATACTAGAAATAATA
66 ATACATATATAATAAAACATACACTAATATAATAATAATAATAATAATA-TAG-AATAATA
85078810 ATAACTAGTA
Statistics
Matches: 112, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
138 23 0.21
139 32 0.29
140 3 0.03
141 4 0.04
142 15 0.13
143 35 0.31
ACGTcount: A:0.60, C:0.06, G:0.03, T:0.31
Consensus pattern (139 bp):
AAACATAATATAATAAAAATATTAAAATAAAGTAATTAAAAATAAAACTATGTAAAAATATACAT
ATACATATATAATAAAACATACACTAATATAATAATAATAATAATAATATAGAATAATATTAATA
ACAAAAAGC
Found at i:85078794 original size:3 final size:3
Alignment explanation
Indices: 85078786--85078965 Score: 116
Period size: 3 Copynumber: 59.0 Consensus size: 3
85078776 AATATTATAT
* *
85078786 ATA ATA ATA ATA CTA GA-A ATA ATA ATA ACTA GTA ATA ATA ATA CATTA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA A-TA ATA ATA ATA ATA -A-TA
* * * * * *
85078834 AAA ATA ATA ATA ATA ATA ATA ATA A-A AGGA ATA AAA ACA ATG TTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA
* * * * * *
85078879 ATA ACA AGA ATA GTA ATA ATA GTA ATA ATA ACA ATA AT- ATAA AGA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA
* * *
85078924 ATA ATA TTA ATA ATA TTA GA-A ATG ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
85078966 TTTATTAAAA
Statistics
Matches: 135, Mismatches: 31, Indels: 22
0.72 0.16 0.12
Matches are distributed among these distances:
2 6 0.04
3 120 0.89
4 7 0.05
5 2 0.01
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:85080481 original size:26 final size:26
Alignment explanation
Indices: 85080452--85080519 Score: 90
Period size: 26 Copynumber: 2.7 Consensus size: 26
85080442 TCCTTTCTCA
85080452 AGCCATATAACAGGAAGCTCACAAAG
1 AGCCATATAACAGGAAGCTCACAAAG
*
85080478 AGCCAT-TAATCGGGAAGCTCACAAAG
1 AGCCATATAA-CAGGAAGCTCACAAAG
85080504 AGCC-TAT--CAGGAAGCT
1 AGCCATATAACAGGAAGCT
85080520 TATTCGGGCT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
23 8 0.21
25 4 0.11
26 26 0.68
ACGTcount: A:0.40, C:0.24, G:0.22, T:0.15
Consensus pattern (26 bp):
AGCCATATAACAGGAAGCTCACAAAG
Found at i:85083305 original size:12 final size:11
Alignment explanation
Indices: 85083277--85083310 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 11
85083267 ATATATATTT
85083277 TAAAATT-ATA
1 TAAAATTAATA
85083287 TAAAATTAATA
1 TAAAATTAATA
85083298 TAAAAATTAATA
1 T-AAAATTAATA
85083310 T
1 T
85083311 GGGCGGGTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 7 0.32
11 4 0.18
12 11 0.50
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
TAAAATTAATA
Found at i:85085231 original size:32 final size:33
Alignment explanation
Indices: 85085188--85085267 Score: 96
Period size: 31 Copynumber: 2.5 Consensus size: 33
85085178 TCCTTCTAAC
*
85085188 CCCAAATACAACCTCTTAACTTTTTT-TC-AAA
1 CCCAAACACAACCTCTTAACTTTTTTCTCAAAA
* *
85085219 CCTTAAACACAACC-C-TAATTTTTTTCTCAAAA
1 CC-CAAACACAACCTCTTAACTTTTTTCTCAAAA
85085251 CCCAAACACAACCTCTT
1 CCCAAACACAACCTCTT
85085268 CTCCTTCCCT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
30 9 0.22
31 15 0.38
32 15 0.38
33 1 0.03
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.31
Consensus pattern (33 bp):
CCCAAACACAACCTCTTAACTTTTTTCTCAAAA
Found at i:85088411 original size:6 final size:6
Alignment explanation
Indices: 85088402--85088437 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
85088392 GAGAGAGACT
85088402 AGGCAC AGGCAC AGGCAC AGGCAC AGGCAC AGGCAC
1 AGGCAC AGGCAC AGGCAC AGGCAC AGGCAC AGGCAC
85088438 TATAGAGAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.33, C:0.33, G:0.33, T:0.00
Consensus pattern (6 bp):
AGGCAC
Found at i:85098195 original size:18 final size:18
Alignment explanation
Indices: 85098172--85098210 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
85098162 CACGGGTAGG
* *
85098172 CCACATTGGCGTGTGGAC
1 CCACATGGGCATGTGGAC
*
85098190 CCACATGGGCATGTGGGC
1 CCACATGGGCATGTGGAC
85098208 CCA
1 CCA
85098211 TTATATTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.18, C:0.31, G:0.33, T:0.18
Consensus pattern (18 bp):
CCACATGGGCATGTGGAC
Found at i:85106635 original size:18 final size:17
Alignment explanation
Indices: 85106604--85106638 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
85106594 ATGTCTAATG
85106604 TGTGATGAATTATGATA
1 TGTGATGAATTATGATA
85106621 TGTGATGATATTATGATA
1 TGTGATGA-ATTATGATA
85106639 GGTAATATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.34, C:0.00, G:0.23, T:0.43
Consensus pattern (17 bp):
TGTGATGAATTATGATA
Found at i:85110472 original size:3 final size:3
Alignment explanation
Indices: 85110464--85110489 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
85110454 GTATTGTACT
85110464 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
85110490 TATCAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:85111161 original size:20 final size:21
Alignment explanation
Indices: 85111147--85111222 Score: 68
Period size: 22 Copynumber: 3.6 Consensus size: 21
85111137 AAAAAATCAT
85111147 AATATATATATAAAATCTAAAA
1 AATATATATA-AAAATCTAAAA
85111169 AATATATAT--AAAT-TATAAA
1 AATATATATAAAAATCTA-AAA
* * *
85111188 AATATAAAAATAAAATTTAAAA
1 AATATATATA-AAAATCTAAAA
*
85111210 AATATATCTAAAA
1 AATATATATAAAA
85111223 GAAATTAGTT
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
18 2 0.05
19 14 0.32
21 3 0.07
22 23 0.52
23 2 0.05
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (21 bp):
AATATATATAAAAATCTAAAA
Found at i:85111167 original size:28 final size:28
Alignment explanation
Indices: 85111131--85111197 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
85111121 AAATAGAAGT
*
85111131 AAATATAAAAAATCATA-ATATA-TATATA
1 AAATATAAAAAAT-ATATATAAATTATA-A
*
85111159 AAATCTAAAAAATATATATAAATTATAA
1 AAATATAAAAAATATATATAAATTATAA
85111187 AAATATAAAAA
1 AAATATAAAAA
85111198 TAAAATTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 3 0.09
28 27 0.79
29 4 0.12
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (28 bp):
AAATATAAAAAATATATATAAATTATAA
Found at i:85111175 original size:22 final size:21
Alignment explanation
Indices: 85111147--85111216 Score: 74
Period size: 20 Copynumber: 3.3 Consensus size: 21
85111137 AAAAAATCAT
85111147 AATATATATATAAAATCT-AAA
1 AATATATATATAAAAT-TAAAA
85111168 AA-ATATATAT-AAATTATAAA
1 AATATATATATAAAATTA-AAA
* *
85111188 AATATAAAAATAAAATTTAAAA
1 AATATATATATAAAA-TTAAAA
85111210 AATATAT
1 AATATAT
85111217 CTAAAAGAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
18 1 0.02
19 4 0.10
20 13 0.32
21 8 0.20
22 12 0.29
23 3 0.07
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (21 bp):
AATATATATATAAAATTAAAA
Found at i:85111185 original size:9 final size:10
Alignment explanation
Indices: 85111133--85111197 Score: 50
Period size: 9 Copynumber: 6.8 Consensus size: 10
85111123 ATAGAAGTAA
85111133 ATATAAAAA-
1 ATATAAAAAT
*
85111142 ATCAT-AATAT
1 AT-ATAAAAAT
85111152 ATATATAAAAT
1 ATATA-AAAAT
*
85111163 CTA-AAAAAT
1 ATATAAAAAT
*
85111172 ATATATAAAT
1 ATATAAAAAT
85111182 -TATAAAAAT
1 ATATAAAAAT
85111191 ATA-AAAA
1 ATATAAAA
85111198 TAAAATTTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
9 26 0.59
10 12 0.27
11 6 0.14
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (10 bp):
ATATAAAAAT
Found at i:85111198 original size:27 final size:29
Alignment explanation
Indices: 85111131--85111199 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 29
85111121 AAATAGAAGT
*
85111131 AAATATAAAAA-ATCATAATATATATATA
1 AAATATAAAAATATCATAAAATATATATA
*
85111159 AAATCTAAAAAATAT-ATATAAAT-TATA-A
1 AAATAT-AAAAATATCATA-AAATATATATA
85111187 AAATATAAAAATA
1 AAATATAAAAATA
85111200 AAATTTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
27 7 0.20
28 11 0.31
29 12 0.34
30 5 0.14
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (29 bp):
AAATATAAAAATATCATAAAATATATATA
Found at i:85111284 original size:23 final size:21
Alignment explanation
Indices: 85111251--85111298 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
85111241 TAATATTACT
85111251 AAAAAAATGTACAA-AAATTATA
1 AAAAAAATGTA-AATAAATT-TA
85111273 AAAAAAATTGTAAATAAATTTA
1 AAAAAAA-TGTAAATAAATTTA
85111295 AAAA
1 AAAA
85111299 TTTTTAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 15 0.62
23 9 0.38
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.25
Consensus pattern (21 bp):
AAAAAAATGTAAATAAATTTA
Found at i:85111311 original size:20 final size:20
Alignment explanation
Indices: 85111275--85111335 Score: 58
Period size: 19 Copynumber: 3.2 Consensus size: 20
85111265 AAATTATAAA
85111275 AAAAATTGTAAATAAATT-T
1 AAAAATTGTAAATAAATTCT
* *
85111294 AAAAATTTTTAATAAAATTCT
1 AAAAATTGTAAAT-AAATTCT
*
85111315 -AAAA-TATAAAT-AATTCT
1 AAAAATTGTAAATAAATTCT
85111332 AAAA
1 AAAA
85111336 TTTTAAAAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
17 6 0.17
18 3 0.09
19 16 0.46
20 9 0.26
21 1 0.03
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (20 bp):
AAAAATTGTAAATAAATTCT
Found at i:85118942 original size:30 final size:30
Alignment explanation
Indices: 85118906--85118965 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
85118896 TATAACCTTA
* *
85118906 AAGGGTTTTAGCTGATCCACAAAAACTAAG
1 AAGGGTTCTAGCTGAACCACAAAAACTAAG
* * *
85118936 AAGGGTTCTAGTTTAACCATAAAAACTAAG
1 AAGGGTTCTAGCTGAACCACAAAAACTAAG
85118966 GGGTGGTTCT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.42, C:0.15, G:0.18, T:0.25
Consensus pattern (30 bp):
AAGGGTTCTAGCTGAACCACAAAAACTAAG
Found at i:85121824 original size:21 final size:21
Alignment explanation
Indices: 85121800--85121846 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
85121790 AGGCATACAG
*
85121800 CCGTGT-GACTAAGGCACATGC
1 CCGTGTAGACT-AGGCACATGA
* *
85121821 CCGTATAGACTAGGGACATGA
1 CCGTGTAGACTAGGCACATGA
85121842 CCGTG
1 CCGTG
85121847 GGAACAGGTC
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.26, C:0.26, G:0.30, T:0.19
Consensus pattern (21 bp):
CCGTGTAGACTAGGCACATGA
Found at i:85122544 original size:17 final size:18
Alignment explanation
Indices: 85122510--85122562 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 18
85122500 AAAAGAAAAG
85122510 AAATAATAAAT-A-AATA
1 AAATAATAAATAATAATA
*
85122526 AAATCA-AAATAATAAT-
1 AAATAATAAATAATAATA
*
85122542 AAATAATAAATAATTATA
1 AAATAATAAATAATAATA
85122560 AAA
1 AAA
85122563 ATTAACTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
15 4 0.13
16 11 0.37
17 12 0.40
18 3 0.10
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (18 bp):
AAATAATAAATAATAATA
Found at i:85122878 original size:22 final size:21
Alignment explanation
Indices: 85122853--85122896 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
85122843 ACTTCCATAT
*
85122853 TCATATCTACTTCTACTCCCCA
1 TCATATATAC-TCTACTCCCCA
* *
85122875 TCATCTATACTCTAGTCCCCA
1 TCATATATACTCTACTCCCCA
85122896 T
1 T
85122897 TTTTGTTCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.23, C:0.39, G:0.02, T:0.36
Consensus pattern (21 bp):
TCATATATACTCTACTCCCCA
Found at i:85128313 original size:23 final size:23
Alignment explanation
Indices: 85128280--85128323 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
85128270 GATTTAAAAA
85128280 CAATTTTTTATAAAAT-AAATAT
1 CAATTTTTTATAAAATCAAATAT
*
85128302 CAATTCTTTTATTAAATCAAAT
1 CAATT-TTTTATAAAATCAAAT
85128324 TATAAATGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 10 0.53
24 4 0.21
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.45
Consensus pattern (23 bp):
CAATTTTTTATAAAATCAAATAT
Found at i:85131793 original size:22 final size:21
Alignment explanation
Indices: 85131768--85131826 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 21
85131758 TTTCTTGTTG
85131768 TTTTCTCTTTATTTTGCTACCA
1 TTTTCT-TTTATTTTGCTACCA
* * *
85131790 TTTTACTATTATGTTGCTACTA
1 TTTT-CTTTTATTTTGCTACCA
*
85131812 TTTTATTTTTATTTT
1 TTTT-CTTTTATTTT
85131827 TTGGATATTG
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
22 28 0.93
23 2 0.07
ACGTcount: A:0.17, C:0.14, G:0.05, T:0.64
Consensus pattern (21 bp):
TTTTCTTTTATTTTGCTACCA
Found at i:85138458 original size:20 final size:20
Alignment explanation
Indices: 85138416--85138473 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
85138406 TATTTTTATG
85138416 AAAATCATAAAAA-TTATAAA
1 AAAATCATAAAAACTTAT-AA
* *
85138436 AAAATTGATATAAACTTATAA
1 AAAA-TCATAAAAACTTATAA
85138457 AAAATCATAAAAACTTA
1 AAAATCATAAAAACTTA
85138474 AATTGGACCA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 15 0.47
21 13 0.41
22 4 0.12
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.28
Consensus pattern (20 bp):
AAAATCATAAAAACTTATAA
Found at i:85138936 original size:29 final size:29
Alignment explanation
Indices: 85138894--85139025 Score: 83
Period size: 29 Copynumber: 4.5 Consensus size: 29
85138884 TTTTATGATT
85138894 TTTTAATACT-TTTTATAAGTTTATATCAA
1 TTTTAATA-TATTTTATAAGTTTATATCAA
* * * * **
85138923 TTTTAATATATTTTTTTATTTTTTAAGAA
1 TTTTAATATATTTTATAAGTTTATATCAA
* * *
85138952 TTCTAATACATATTTT-TCAATTTTAAAT-AA
1 TTTTAAT--ATATTTTAT-AAGTTTATATCAA
*
85138982 GTTTTATTA-ATTTTAATAAGTTTATATCAA
1 -TTTTAATATATTTT-ATAAGTTTATATCAA
*
85139012 ATTTAATATATTTT
1 TTTTAATATATTTT
85139026 TATATTTTAT
Statistics
Matches: 77, Mismatches: 17, Indels: 17
0.69 0.15 0.15
Matches are distributed among these distances:
28 6 0.08
29 42 0.55
30 11 0.14
31 18 0.23
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.57
Consensus pattern (29 bp):
TTTTAATATATTTTATAAGTTTATATCAA
Done.