Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, whole genome shotgun sequence
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: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 5 of 195
Found at i:917954 original size:34 final size:34
Alignment explanation
Indices: 917845--917962 Score: 103
Period size: 34 Copynumber: 3.4 Consensus size: 34
917835 CTTATTCATT
* *
917845 TTTATTTTCTAACTTGCAG-TTCAATCTCGGTCTC
1 TTTATTTTCTGACTTG-AGATTCAATCCCGGTCTC
* * * * * ** *
917879 TTTGTTCTCTGACTTGGGATTTAATTCTAGTCATT
1 TTTATTTTCTGACTTGAGATTCAATCCCGGTC-TC
*
917914 TTTATTTTATGACTTGAGATTCAATCCCGGTCTC
1 TTTATTTTCTGACTTGAGATTCAATCCCGGTCTC
*
917948 TTTATTTTTTGACTT
1 TTTATTTTCTGACTT
917963 ACAATTAAAT
Statistics
Matches: 62, Mismatches: 20, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
33 1 0.02
34 36 0.58
35 25 0.40
ACGTcount: A:0.18, C:0.18, G:0.14, T:0.51
Consensus pattern (34 bp):
TTTATTTTCTGACTTGAGATTCAATCCCGGTCTC
Found at i:917982 original size:69 final size:68
Alignment explanation
Indices: 917760--917984 Score: 209
Period size: 69 Copynumber: 3.3 Consensus size: 68
917750 CAACTCATGG
* * * * * *
917760 TTTAATCCCAGTCATCTTTATTTTATGACTT-ACGGTTCAATTTCAGTCTCATTATTCTCTGACT
1 TTTAATCCTAATCATTTTTATTTTATGACTTGA--GTTCAATCTCGGTCTCTTTATTCTCTGACT
* *
917824 CACTA
64 TACAA
* * * * *
917829 TTTAATCTTATTCATTTTTATTTTCTAACTTGCAGTTCAATCTCGGTCTCTTTGTTCTCTGACTT
1 TTTAATCCTAATCATTTTTATTTTATGACTTG-AGTTCAATCTCGGTCTCTTTATTCTCTGACTT
***
917894 GGGA
65 ACAA
* * * * *
917898 TTTAATTCTAGTCATTTTTATTTTATGACTTGAGATTCAATCCCGGTCTCTTTATTTTTTGACTT
1 TTTAATCCTAATCATTTTTATTTTATGACTTGAG-TTCAATCTCGGTCTCTTTATTCTCTGACTT
917963 ACAA
65 ACAA
*
917967 TTAAATCCTAATCATTTT
1 TTTAATCCTAATCATTTT
917985 AGTTTTTCCA
Statistics
Matches: 124, Mismatches: 29, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
68 2 0.02
69 121 0.98
71 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.10, T:0.49
Consensus pattern (68 bp):
TTTAATCCTAATCATTTTTATTTTATGACTTGAGTTCAATCTCGGTCTCTTTATTCTCTGACTTA
CAA
Found at i:919769 original size:22 final size:23
Alignment explanation
Indices: 919725--919777 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 23
919715 TTATTTTTTT
*
919725 TAATAATAATAACCCAAATATTA
1 TAATAATAATAACCAAAATATTA
*
919748 -AATAATAATAA-TAAAATGATTA
1 TAATAATAATAACCAAAAT-ATTA
919770 TAA-AATAA
1 TAATAATAA
919778 ATTCGTAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 4 0.15
22 20 0.77
23 2 0.08
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.30
Consensus pattern (23 bp):
TAATAATAATAACCAAAATATTA
Found at i:920126 original size:14 final size:14
Alignment explanation
Indices: 920090--920141 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
920080 AAAAAAATTT
*
920090 AAACCTTAAAA-CA
1 AAACCCTAAAATCA
* *
920103 AAACCATAAACCTC-
1 AAACCCTAAA-ATCA
920117 AAACCCTAAAATCA
1 AAACCCTAAAATCA
920131 AAACCCTAAAA
1 AAACCCTAAAA
920142 CCCCTAAACA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
13 11 0.34
14 20 0.62
15 1 0.03
ACGTcount: A:0.58, C:0.29, G:0.00, T:0.13
Consensus pattern (14 bp):
AAACCCTAAAATCA
Found at i:920156 original size:57 final size:56
Alignment explanation
Indices: 920089--920256 Score: 167
Period size: 57 Copynumber: 2.9 Consensus size: 56
920079 TAAAAAAATT
* *
920089 TAAACCTTAAAACAAAACCATAAACCTCAAACCCTAAAATCAAAACCCTAAAACCCC
1 TAAACATTAAAACAAAACC-TAAACCTCAAATCCTAAAATCAAAACCCTAAAACCCC
* ** * * * *
920146 TAAACATTAAAACTAAACTCTAAACCTTTAATTCTAGAATTAAAACCCT-AAACCCT
1 TAAACATTAAAACAAAAC-CTAAACCTCAAATCCTAAAATCAAAACCCTAAAACCCC
* *
920202 TCAAACTTTAAAATCAAAACCTTAAACCTTTGAAATCCTAAAATCAAAACCCTAA
1 T-AAACATTAAAA-CAAAACC-TAAACC--TCAAATCCTAAAATCAAAACCCTAA
920257 CCTTCCAAAC
Statistics
Matches: 88, Mismatches: 16, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
56 7 0.08
57 50 0.57
58 12 0.14
60 18 0.20
61 1 0.01
ACGTcount: A:0.49, C:0.27, G:0.01, T:0.23
Consensus pattern (56 bp):
TAAACATTAAAACAAAACCTAAACCTCAAATCCTAAAATCAAAACCCTAAAACCCC
Found at i:920228 original size:30 final size:30
Alignment explanation
Indices: 920090--920378 Score: 231
Period size: 30 Copynumber: 9.9 Consensus size: 30
920080 AAAAAAATTT
* *
920090 AAACCTTAAAA-CAAAACCATAAA-CC-TC
1 AAACCCTAAAATCAAAACCCTAAACCCTTC
*
920117 AAACCCTAAAATCAAAACCCTAAAACCCCT-
1 AAACCCTAAAATCAAAACCCT-AAACCCTTC
** * *
920147 AAACATTAAAA-CTAAACTCTAAA-CCTT-
1 AAACCCTAAAATCAAAACCCTAAACCCTTC
* ** * *
920174 TAATTCTAGAATTAAAACCCTAAACCCTTC
1 AAACCCTAAAATCAAAACCCTAAACCCTTC
** * * *
920204 AAACTTTAAAATCAAAACCTTAAACCTTTG
1 AAACCCTAAAATCAAAACCCTAAACCCTTC
*
920234 AAATCCTAAAATCAAAACCCT-AA-CCTTCC
1 AAACCCTAAAATCAAAACCCTAAACCCTT-C
920263 AAACCCTAAAATCAAAACCCTAAACCCTT-
1 AAACCCTAAAATCAAAACCCTAAACCCTTC
* * *
920292 TAACTCTAAAATCGAAACCCTAAACCCTTC
1 AAACCCTAAAATCAAAACCCTAAACCCTTC
** *
920322 AAACCCTAAAA-CTAAAACCCTAAAGGCTTT
1 AAACCCTAAAATC-AAAACCCTAAACCCTTC
* * *
920352 AAAACCTAGAATCAAAACCTTAAACCC
1 AAACCCTAAAATCAAAACCCTAAACCC
920379 CGAACCTTAC
Statistics
Matches: 205, Mismatches: 44, Indels: 23
0.75 0.16 0.08
Matches are distributed among these distances:
27 19 0.09
28 23 0.11
29 63 0.31
30 94 0.46
31 6 0.03
ACGTcount: A:0.47, C:0.29, G:0.02, T:0.21
Consensus pattern (30 bp):
AAACCCTAAAATCAAAACCCTAAACCCTTC
Found at i:920277 original size:59 final size:58
Alignment explanation
Indices: 920090--920378 Score: 284
Period size: 59 Copynumber: 4.9 Consensus size: 58
920080 AAAAAAATTT
* * * *
920090 AAACCTTAAAACAAAACCATAAACC-TCAAACCCTAAAATCAAAACCCTAAAACCCCT-
1 AAACCTTAAAACAAAACCCTAAACCTTTAAATCCTAAAATCAAAACCCT-AAACCCTTC
* * * * * *
920147 AAACATTAAAACTAAACTCTAAACCTTT-AATTCTAGAATTAAAACCCTAAACCCTTC
1 AAACCTTAAAACAAAACCCTAAACCTTTAAATCCTAAAATCAAAACCCTAAACCCTTC
* *
920204 AAACTTTAAAATCAAAACCTTAAACCTTTGAAATCCTAAAATCAAAACCCT-AA-CCTTCC
1 AAACCTTAAAA-CAAAACCCTAAACCTTT-AAATCCTAAAATCAAAACCCTAAACCCTT-C
* * *
920263 AAACCCTAAAATCAAAACCCTAAACCCTTTAACT-CTAAAATCGAAACCCTAAACCCTTC
1 AAACCTTAAAA-CAAAACCCTAAA-CCTTTAAATCCTAAAATCAAAACCCTAAACCCTTC
* * * * *
920322 AAACCCTAAAACTAAAACCCTAAAGGCTTTAAAACCTAGAATCAAAACCTTAAACCC
1 AAACCTTAAAAC-AAAACCCTAAA-CCTTTAAATCCTAAAATCAAAACCCTAAACCC
920379 CGAACCTTAC
Statistics
Matches: 192, Mismatches: 29, Indels: 19
0.80 0.12 0.08
Matches are distributed among these distances:
56 7 0.04
57 47 0.24
58 35 0.18
59 58 0.30
60 45 0.23
ACGTcount: A:0.47, C:0.29, G:0.02, T:0.21
Consensus pattern (58 bp):
AAACCTTAAAACAAAACCCTAAACCTTTAAATCCTAAAATCAAAACCCTAAACCCTTC
Found at i:920282 original size:14 final size:14
Alignment explanation
Indices: 920238--920286 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
920228 CCTTTGAAAT
920238 CCTAAAATCAAAAC
1 CCTAAAATCAAAAC
** *
920252 CCTAACCTTCCAAAC
1 CCTAA-AATCAAAAC
920267 CCTAAAATCAAAAC
1 CCTAAAATCAAAAC
920281 CCTAAA
1 CCTAAA
920287 CCCTTTAACT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
14 17 0.61
15 11 0.39
ACGTcount: A:0.49, C:0.35, G:0.00, T:0.16
Consensus pattern (14 bp):
CCTAAAATCAAAAC
Found at i:920392 original size:19 final size:19
Alignment explanation
Indices: 920368--920406 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
920358 TAGAATCAAA
920368 ACCTTAAACCCCGAACCTT
1 ACCTTAAACCCCGAACCTT
920387 ACCTTAAACCCCGAACCTT
1 ACCTTAAACCCCGAACCTT
920406 A
1 A
920407 AAAACCCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.41, G:0.05, T:0.21
Consensus pattern (19 bp):
ACCTTAAACCCCGAACCTT
Found at i:920503 original size:29 final size:30
Alignment explanation
Indices: 920445--920528 Score: 100
Period size: 29 Copynumber: 2.8 Consensus size: 30
920435 TCTTTAAGCC
* *
920445 ATCCAAACCCTAAAAACCTTAAA-TCTTAAA
1 ATCCAAAACCT-AAAACCCTAAATTCTTAAA
920475 ATCCAAAACCTAAAACCCTAAATTC-TAAA
1 ATCCAAAACCTAAAACCCTAAATTCTTAAA
* * *
920504 ATTCAAAACTTAAAACCCCAAATTC
1 ATCCAAAACCTAAAACCCTAAATTC
920529 GATATACAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
29 36 0.75
30 12 0.25
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (30 bp):
ATCCAAAACCTAAAACCCTAAATTCTTAAA
Found at i:923684 original size:21 final size:23
Alignment explanation
Indices: 923658--923702 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
923648 TCTATTATTC
*
923658 TAAAATTTAT-TTTTTTA-TTTA
1 TAAAATATATATTTTTTACTTTA
923679 TAAAATATATGATTTTTTACTTTA
1 TAAAATATAT-ATTTTTTACTTTA
923703 ATACTTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 9 0.45
23 7 0.35
24 4 0.20
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (23 bp):
TAAAATATATATTTTTTACTTTA
Found at i:924535 original size:21 final size:21
Alignment explanation
Indices: 924511--924553 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
924501 TAGCATGAGG
*
924511 ATGAAATTAATTATTATAATA
1 ATGAAATTAAGTATTATAATA
*
924532 ATGAAATTGAGTATTATAATA
1 ATGAAATTAAGTATTATAATA
924553 A
1 A
924554 AAAGATTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (21 bp):
ATGAAATTAAGTATTATAATA
Found at i:924735 original size:17 final size:15
Alignment explanation
Indices: 924713--924755 Score: 52
Period size: 17 Copynumber: 2.8 Consensus size: 15
924703 TCCTTAAAAT
924713 TATTTATTTATTTTAC
1 TATTTATTTATTTT-C
*
924729 ATATTTATTTAATTTC
1 -TATTTATTTATTTTC
924745 TATTT-TTTATT
1 TATTTATTTATT
924756 AATTAATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 5 0.21
15 5 0.21
16 1 0.04
17 13 0.54
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (15 bp):
TATTTATTTATTTTC
Found at i:926528 original size:19 final size:18
Alignment explanation
Indices: 926496--926535 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
926486 TATCCTACAA
* *
926496 TTTAATTTTTTTTTCTTT
1 TTTAATTTTCTTTTATTT
926514 TTTATATTTTCTTTTATTT
1 TTTA-ATTTTCTTTTATTT
926533 TTT
1 TTT
926536 TACTTAAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.12, C:0.05, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTAATTTTCTTTTATTT
Found at i:926962 original size:17 final size:19
Alignment explanation
Indices: 926940--926975 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
926930 ATATATATAA
926940 ATAATT-TTTTTA-ATTTT
1 ATAATTATTTTTATATTTT
926957 ATAATTATTTTTATATTTT
1 ATAATTATTTTTATATTTT
926976 TTATATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 6 0.35
19 5 0.29
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
ATAATTATTTTTATATTTT
Found at i:926977 original size:21 final size:23
Alignment explanation
Indices: 926953--926997 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
926943 ATTTTTTTAA
*
926953 TTTTATA-AT-TATTTTTATATT
1 TTTTATATATATAATTTTATATT
926974 TTTTATATATATAATTTTATATT
1 TTTTATATATATAATTTTATATT
926997 T
1 T
926998 ATATTAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 7 0.33
22 2 0.10
23 12 0.57
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (23 bp):
TTTTATATATATAATTTTATATT
Found at i:926982 original size:11 final size:12
Alignment explanation
Indices: 926952--926999 Score: 50
Period size: 11 Copynumber: 4.2 Consensus size: 12
926942 AATTTTTTTA
926952 ATTTTATA-ATT
1 ATTTTATATATT
926963 ATTTT-TATATT
1 ATTTTATATATT
926974 -TTTTATATATAT
1 ATTTTATATAT-T
926986 AATTTTATAT-TT
1 -ATTTTATATATT
926998 AT
1 AT
927000 ATTAAAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
10 6 0.19
11 15 0.47
12 2 0.06
13 1 0.03
14 8 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATTTTATATATT
Found at i:927390 original size:16 final size:15
Alignment explanation
Indices: 927365--927410 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 15
927355 ATTCGATTCA
927365 AATTAATTTAAATTTG
1 AATT-ATTTAAATTTG
927381 AATTATTTTAAATTTG
1 AATTA-TTTAAATTTG
*
927397 AATTAATTAAATTT
1 AATTATTTAAATTT
927411 AGGTTATTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 9 0.32
16 19 0.68
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (15 bp):
AATTATTTAAATTTG
Found at i:927418 original size:31 final size:31
Alignment explanation
Indices: 927365--927434 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
927355 ATTCGATTCA
*
927365 AATTAATTTAAATTTGAATTATTTTAAATTTG
1 AATTAA-TTAAATTTGAATTATTTCAAATTTG
* *
927397 AATTAATTAAATTT-AGGTTATTTCAATTTTG
1 AATTAATTAAATTTGA-ATTATTTCAAATTTG
927428 AA-TAATT
1 AATTAATT
927435 TTTGTTTAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 6 0.18
31 22 0.65
32 6 0.18
ACGTcount: A:0.40, C:0.01, G:0.07, T:0.51
Consensus pattern (31 bp):
AATTAATTAAATTTGAATTATTTCAAATTTG
Found at i:928287 original size:18 final size:18
Alignment explanation
Indices: 928229--928303 Score: 59
Period size: 16 Copynumber: 4.3 Consensus size: 18
928219 TTTATTAAAT
* *
928229 ACAAAATACGAAATACAAA
1 ACAAAATACCAAA-AAAAA
* * *
928248 AC-AAATATC-AAATAAT
1 ACAAAATACCAAAAAAAA
928264 ACAAAATACCAAAAAAAA
1 ACAAAATACCAAAAAAAA
928282 ACAAAA-A-CAAAAAAAA
1 ACAAAATACCAAAAAAAA
*
928298 AGAAAA
1 ACAAAA
928304 AATGGGGGAT
Statistics
Matches: 46, Mismatches: 8, Indels: 7
0.75 0.13 0.11
Matches are distributed among these distances:
16 19 0.41
17 9 0.20
18 16 0.35
19 2 0.04
ACGTcount: A:0.75, C:0.13, G:0.03, T:0.09
Consensus pattern (18 bp):
ACAAAATACCAAAAAAAA
Found at i:928643 original size:19 final size:19
Alignment explanation
Indices: 928619--928663 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
928609 CATAAAGAAG
* *
928619 AAAAAAAAAGTCAGTTTCA
1 AAAAAAAAAGTCACTTACA
928638 AAAAAAAAAGTCACTTACA
1 AAAAAAAAAGTCACTTACA
928657 AAAAAAA
1 AAAAAAA
928664 TATAGTTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.67, C:0.11, G:0.07, T:0.16
Consensus pattern (19 bp):
AAAAAAAAAGTCACTTACA
Found at i:941688 original size:149 final size:147
Alignment explanation
Indices: 941493--941922 Score: 457
Period size: 149 Copynumber: 2.9 Consensus size: 147
941483 TTGAGTCTCA
* * *
941493 CTAAGAGGAGCTTTTTCAAGATGAA-AATTTTTAAAGTTGTTAAGCCTCTGCTGAGAAGAGCCTT
1 CTAAGAGAAGCCTTTTCAAAAT-AAGAATTTTTAAAGTTGTTAAGCCTCTGCTGAGAAGAGCCTT
*
941557 TTTCAAGATAATTTTTAAAGTTGTTGAGCTTCTGCTGAGAGGAGCCCTTTTTAAGAT-GATTTTT
65 TTTCAAGATAATTTTTAAAGTTGTTGAGCTTCTGCTGAGAGGAGCCCTTTTCAAGATAGATTTTT
*
941621 AAAGTCGTTGAGCT-TCTG
130 AAAGTCATTGAG-TATCTG
* * * *
941639 CTGAGATG-AGCCCTTTTCAAAATAAGAATTTTTTTAAAGTTATTGAGCCTCTGCTGAGATGAGC
1 CTAAGA-GAAG-CCTTTTCAAAATAAGAA--TTTTTAAAGTTGTTAAGCCTCTGCTGAGAAGAG-
* * **
941703 CCTTTTCCAA-ATGAGA-TTTTAAAGTCGTTGAGCCTT-TATTGAGAGGAGCCCTTTTCAAGATG
61 CCTTTTTCAAGAT-A-ATTTTTAAAGTTGTTGAG-CTTCTGCTGAGAGGAGCCCTTTTCAAGAT-
* *
941765 AGATTTTTAAAGTTATTGAGTATTTG
122 AGATTTTTAAAGTCATTGAGTATCTG
** * *
941791 CTAAGAGAAGTTTTTTCAAAATGAGAATTTTTAAAGTTGTTAAGCCTCTGCTGAGAGGAGCCTTT
1 CTAAGAGAAGCCTTTTCAAAATAAGAATTTTTAAAGTTGTTAAGCCTCTGCTGAGAAGAGCCTTT
* * * * * *
941856 TTCAAGATGATTTTTAAAGTTGTTGAG-TCTCTGCTGAAAGAAG-CTTTTTCAAAAGAGA-TTTT
66 TTCAAGATAATTTTTAAAGTTGTTGAGCT-TCTGCTGAGAGGAGCCCTTTTCAAGATAGATTTTT
941918 AAAGT
130 AAAGT
941923 TGTCGAGCCT
Statistics
Matches: 236, Mismatches: 31, Indels: 35
0.78 0.10 0.12
Matches are distributed among these distances:
145 9 0.04
146 13 0.06
147 24 0.10
148 32 0.14
149 64 0.27
150 47 0.20
151 20 0.08
152 27 0.11
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.37
Consensus pattern (147 bp):
CTAAGAGAAGCCTTTTCAAAATAAGAATTTTTAAAGTTGTTAAGCCTCTGCTGAGAAGAGCCTTT
TTCAAGATAATTTTTAAAGTTGTTGAGCTTCTGCTGAGAGGAGCCCTTTTCAAGATAGATTTTTA
AAGTCATTGAGTATCTG
Found at i:941704 original size:101 final size:98
Alignment explanation
Indices: 941519--941892 Score: 341
Period size: 101 Copynumber: 3.8 Consensus size: 98
941509 CAAGATGAAA
* * * * *
941519 ATTTTTAAAGTTGTTAAGCCTCTGCTGAGAAGAGCCTTTTTCAAGAT--AATTTTTAAAGTTGTT
1 ATTTTTAAAGTCGTTGAGCTTCTGCTGAGAAGAGCCCTTTTCAAGATAGAATTTTTAAAGTTATT
* *
941582 GAGCTTCTGCTGAGAGGAGCCCTTTT-TAAGATG
66 GAGCCTCTGCTGAGAGGAGCCCTTTTCCAA-ATG
* *
941615 ATTTTTAAAGTCGTTGAGCTTCTGCTGAGATGAGCCCTTTTCAAAATAAGAATTTTTTTAAAGTT
1 ATTTTTAAAGTCGTTGAGCTTCTGCTGAGAAGAGCCCTTTTCAAGAT-AGAA--TTTTTAAAGTT
*
941680 ATTGAGCCTCTGCTGAGATGAGCCCTTTTCCAAATG
63 ATTGAGCCTCTGCTGAGAGGAGCCCTTTTCCAAATG
* ** *
941716 AGATTTTAAAGTCGTTGAGCCTT-TATTGAGAGGAGCCCTTTTCAAGAT-GAGATTTTTAAAGTT
1 A-TTTTTAAAGTCGTTGAG-CTTCTGCTGAGAAGAGCCCTTTTCAAGATAGA-ATTTTTAAAGTT
** * * * ** *
941779 ATTGAGTATTTGCTAAGAGAAG-TTTTTTCAAAATGAG
63 ATTGAGCCTCTGCTGAGAGGAGCCCTTTTCCAAAT--G
* * * * * *
941816 AATTTTTAAAGTTGTTAAGCCTCTGCTGAGAGGAGCCTTTTTCAAGAT-G-ATTTTTAAAGTTGT
1 -ATTTTTAAAGTCGTTGAGCTTCTGCTGAGAAGAGCCCTTTTCAAGATAGAATTTTTAAAGTTAT
*
941879 TGAGTCTCTGCTGA
65 TGAGCCTCTGCTGA
941893 AAGAAGCTTT
Statistics
Matches: 230, Mismatches: 35, Indels: 24
0.80 0.12 0.08
Matches are distributed among these distances:
96 41 0.18
98 33 0.14
99 31 0.13
100 40 0.17
101 43 0.19
102 39 0.17
103 3 0.01
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (98 bp):
ATTTTTAAAGTCGTTGAGCTTCTGCTGAGAAGAGCCCTTTTCAAGATAGAATTTTTAAAGTTATT
GAGCCTCTGCTGAGAGGAGCCCTTTTCCAAATG
Found at i:941821 original size:50 final size:49
Alignment explanation
Indices: 941466--941925 Score: 281
Period size: 48 Copynumber: 9.4 Consensus size: 49
941456 TGAAAAACAT
* * * *
941466 ATGAGA-TTTTAAAATTGTTGAGTCTC-ACTAAGAGGAGCTTTTTCAAG
1 ATGAGATTTTTAAAGTTGTTGAGTCTCTGCTAAGAGAAGCTTTTTCAAA
* * * * *
941513 ATGAAAATTTTTAAAGTTGTTAAGCCTCTGCTGAGA-AGAGCCTTTTTCAAG
1 ATG-AGATTTTTAAAGTTGTTGAGTCTCTGCTAAGAGA-AG-CTTTTTCAAA
* * *
941564 AT-A-ATTTTTAAAGTTGTTGAG-CTTCTGCTGAGAGGAGCCCTTTTT-AAG
1 ATGAGATTTTTAAAGTTGTTGAGTC-TCTGCTAAGAGAAG--CTTTTTCAAA
* * *
941612 AT--GATTTTTAAAGTCGTTGAG-CTTCTGCTGAGATG-AGCCCTTTTCAAA
1 ATGAGATTTTTAAAGTTGTTGAGTC-TCTGCTAAGA-GAAG-CTTTTTCAAA
* * * * * *
941660 ATAAGAATTTTTTTAAAGTTATTGAGCCTCTGCTGAGATG-AGCCCTTTTCCAA
1 ATGAG-A--TTTTTAAAGTTGTTGAGTCTCTGCTAAGA-GAAG-CTTTTTCAAA
* * * ** * * * *
941713 ATGAGA-TTTTAAAGTCGTTGAGCCTTTATTGAGAGGAGCCCTTTTCAAG
1 ATGAGATTTTTAAAGTTGTTGAGTCTCTGCTAAGAGAAG-CTTTTTCAAA
* * * *
941762 ATGAGATTTTTAAAGTTATTGAGTATTTGCTAAGAGAAGTTTTTTCAAA
1 ATGAGATTTTTAAAGTTGTTGAGTCTCTGCTAAGAGAAGCTTTTTCAAA
* * * * *
941811 ATGAGAATTTTTAAAGTTGTTAAGCCTCTGCTGAGAGGAGCCTTTTTCAAG
1 ATGAG-ATTTTTAAAGTTGTTGAGTCTCTGCTAAGAGAAG-CTTTTTCAAA
941862 AT--GATTTTTAAAGTTGTTGAGTCTCTGCTGAA-AGAAGCTTTTTCAAA
1 ATGAGATTTTTAAAGTTGTTGAGTCTCTGCT-AAGAGAAGCTTTTTCAAA
941909 A-GAGA-TTTTAAAGTTGT
1 ATGAGATTTTTAAAGTTGT
941926 CGAGCCTCAA
Statistics
Matches: 341, Mismatches: 48, Indels: 48
0.78 0.11 0.11
Matches are distributed among these distances:
47 32 0.09
48 102 0.30
49 80 0.23
50 59 0.17
51 23 0.07
52 1 0.00
53 43 0.13
54 1 0.00
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (49 bp):
ATGAGATTTTTAAAGTTGTTGAGTCTCTGCTAAGAGAAGCTTTTTCAAA
Found at i:942875 original size:27 final size:27
Alignment explanation
Indices: 942845--942963 Score: 175
Period size: 27 Copynumber: 4.4 Consensus size: 27
942835 GGTGAAAACC
*
942845 AAAACGACGTCGTTTCAATAAACGTCG
1 AAAACGACGTCGTTTCAATAAACGCCG
*
942872 AAAACGACGTCGTTTTAATAAACGCCG
1 AAAACGACGTCGTTTCAATAAACGCCG
* * *
942899 AAAACGACGTCATTTCAATAAACGTCA
1 AAAACGACGTCGTTTCAATAAACGCCG
* *
942926 AAAACGACGTTGTTTCAATAAATGCCG
1 AAAACGACGTCGTTTCAATAAACGCCG
942953 AAAACGACGTC
1 AAAACGACGTC
942964 ATTTTAAGCA
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 80 1.00
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.22
Consensus pattern (27 bp):
AAAACGACGTCGTTTCAATAAACGCCG
Found at i:942930 original size:54 final size:54
Alignment explanation
Indices: 942845--942967 Score: 201
Period size: 54 Copynumber: 2.3 Consensus size: 54
942835 GGTGAAAACC
* * *
942845 AAAACGACGTCGTTTCAATAAACGTCGAAAACGACGTCGTTTTAATAAACGCCG
1 AAAACGACGTCATTTCAATAAACGTCAAAAACGACGTCGTTTCAATAAACGCCG
* *
942899 AAAACGACGTCATTTCAATAAACGTCAAAAACGACGTTGTTTCAATAAATGCCG
1 AAAACGACGTCATTTCAATAAACGTCAAAAACGACGTCGTTTCAATAAACGCCG
942953 AAAACGACGTCATTT
1 AAAACGACGTCATTT
942968 TAAGCACCCA
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 64 1.00
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.24
Consensus pattern (54 bp):
AAAACGACGTCATTTCAATAAACGTCAAAAACGACGTCGTTTCAATAAACGCCG
Found at i:943368 original size:15 final size:16
Alignment explanation
Indices: 943335--943391 Score: 53
Period size: 16 Copynumber: 3.5 Consensus size: 16
943325 AAATAAACTT
943335 TAAAAATAAAATAATA
1 TAAAAATAAAATAATA
*
943351 TAAAAATAAATTTAATAA
1 TAAAAATAAA-ATAAT-A
* * *
943369 TAATACTAAACTAATA
1 TAAAAATAAAATAATA
943385 -AAAAATA
1 TAAAAATA
943392 TAGGAAAAGA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
15 5 0.15
16 11 0.33
17 8 0.24
18 9 0.27
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (16 bp):
TAAAAATAAAATAATA
Found at i:944457 original size:22 final size:21
Alignment explanation
Indices: 944413--944455 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
944403 TTAAATTAAA
944413 ATTTTAAAAAATTTAAAATTTT
1 ATTTT-AAAAATTTAAAATTTT
* *
944435 ATTTTAAAATTTTAAATTTTT
1 ATTTTAAAAATTTAAAATTTT
944456 TAATTTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTTTAAAAATTTAAAATTTT
Found at i:945300 original size:370 final size:368
Alignment explanation
Indices: 944620--945726 Score: 1615
Period size: 370 Copynumber: 3.0 Consensus size: 368
944610 TCACATCACT
* *
944620 TATTAGAAATTATTTTCATTTTAATGAACGAACATAATATTTTCAAAATATGCCTGA--T-GTGG
1 TATTAGAAATTATTTTCATTTTAATGAACGAACATAATATTTTCCAAATATCCCTGATTTAGTGG
*
944682 ATAAAGAAATTTGACCAATAATAATGGGTTTTTCAACGATGAAAAATGTCATTATTTTGGACCCC
66 ATAAAGAAATTTGACCAATAATAATGGGTTTTTCAATGATG-AAAATGTCATTATTTTGGACCCC
944747 AACATGAGAATCGATAAGCAATAATTTGATTTCATTTTTGGCGCATAGCAATAATTTGATTTTGC
130 AACATGAGAATCGATAAGCAATAATTTGATTTCATTTTTGGCGCATAGCAATAATTTGATTTTGC
* * *
944812 ATGTGTCTTGTTCATATTATCTTTGATATTTTTCAACTTTTTAAAAGTACATTTGTCTTTTGTTT
195 ATGTGTCTTGTTCATATTATCTTTGATACTTTTCAACTTTTTAAAAGCACATTTGTCCTTTG-TT
* * *
944877 ACTTGGCTTTTTATCTTTAAAAAAGATTCTCATATC-TTTTTCTATGACATGCATGATTGTTATA
259 ACTTGGCTTTTTATCTTTAAAAAAGATTCTTAT-TCTTTTTTCTATGTCATGCATGATTGATATA
*
944941 TTTTGGATATTATTGATGCAGTTTTTCTAACTTTATTGTCTAACTA
323 TTTTGGATATTATTGATGCAGTTTTTCTAACTTTATTGTCTAGCTA
944987 TATTAGAAATTATTTTCATTTTAATGAACGAACATAATATTTTCCAAATATCCCTGATTTACGTG
1 TATTAGAAATTATTTTCATTTTAATGAACGAACATAATATTTTCCAAATATCCCTGATTTA-GTG
*
945052 GATAAAGAAATTTGGCCAATAATAATGGGTTTTTCAATGATGAAAATGTCATTATTTTGGACCCC
65 GATAAAGAAATTTGACCAATAATAATGGGTTTTTCAATGATGAAAATGTCATTATTTTGGACCCC
945117 AACATGAGAATCGATAAGCAATAATTTGATTTCATTTTTGGCGCATAGCAATAATTTGATTTTGC
130 AACATGAGAATCGATAAGCAATAATTTGATTTCATTTTTGGCGCATAGCAATAATTTGATTTTGC
* *
945182 ATGTGTCTTGTTCATATTATCTTTTATACTTTTCAACTTTTTAAAAGCACCTTTGTCCTTTGTTA
195 ATGTGTCTTGTTCATATTATCTTTGATACTTTTCAACTTTTTAAAAGCACATTTGTCCTTTGTTA
* * *
945247 CTTGGCTTTTTATCTTTAAAAAAGATTCTTATCTCTTTTTTCTTTGTCATGCATGATAGGTATAT
260 CTTGGCTTTTTATCTTTAAAAAAGATTCTTAT-TCTTTTTTCTATGTCATGCATGATTGATATAT
* * *
945312 TTTGGACATTATTGATCCAGTTTTTCTAACTTTATTGCCTAGCTA
324 TTTGGATATTATTGATGCAGTTTTTCTAACTTTATTGTCTAGCTA
* * * *
945357 TATTAGAAATTATTTTCGTTTTAATGAACTAATATAATATTTTCCAAATATCCCTGGTTTATGTG
1 TATTAGAAATTATTTTCATTTTAATGAACGAACATAATATTTTCCAAATATCCCTGATTTA-GTG
* * * * * *
945422 GATAAAGAAATTTGACCACTAATAGTGGGCTTTTC-ATGATGAGAAATGTGATTATCTTGGATCC
65 GATAAAGAAATTTGACCAATAATAATGGGTTTTTCAATGATGA-AAATGTCATTATTTTGGACCC
** * * * *
945486 CGTCACGAGAATAGATAAGCAATAATTTAACTTT-ATTTTTGGCGCATAGCAATAATTTAATTTT
129 CAACATGAGAATCGATAAGCAATAATTTGA-TTTCATTTTTGGCGCATAGCAATAATTTGATTTT
* * * **
945550 GCATG-GTCTTGATCATATTATCTTTGATACTTTTCAACTTTTCAAAAGCA-TTTTGGACTTTGT
193 GCATGTGTCTTGTTCATATTATCTTTGATACTTTTCAACTTTTTAAAAGCACATTTGTCCTTTGT
* * ** * *
945613 TACTTGGCTTTTTATCCTT-GAAAATTTTCTTA-TCTTTTTTCTGTGTCATGCATGATTGATATG
258 TACTTGGCTTTTTATCTTTAAAAAAGATTCTTATTCTTTTTTCTATGTCATGCATGATTGATATA
* * *
945676 GTTTGCATATTATTGATGCATTTTTTCTAACTTTATT-TCTTAGCTA
323 TTTTGGATATTATTGATGCAGTTTTTCTAACTTTATTGTC-TAGCTA
945722 TATTA
1 TATTA
945727 TTACACTGCT
Statistics
Matches: 675, Mismatches: 57, Indels: 18
0.90 0.08 0.02
Matches are distributed among these distances:
364 1 0.00
365 70 0.10
367 65 0.10
368 28 0.04
369 86 0.13
370 379 0.56
371 46 0.07
ACGTcount: A:0.29, C:0.13, G:0.14, T:0.44
Consensus pattern (368 bp):
TATTAGAAATTATTTTCATTTTAATGAACGAACATAATATTTTCCAAATATCCCTGATTTAGTGG
ATAAAGAAATTTGACCAATAATAATGGGTTTTTCAATGATGAAAATGTCATTATTTTGGACCCCA
ACATGAGAATCGATAAGCAATAATTTGATTTCATTTTTGGCGCATAGCAATAATTTGATTTTGCA
TGTGTCTTGTTCATATTATCTTTGATACTTTTCAACTTTTTAAAAGCACATTTGTCCTTTGTTAC
TTGGCTTTTTATCTTTAAAAAAGATTCTTATTCTTTTTTCTATGTCATGCATGATTGATATATTT
TGGATATTATTGATGCAGTTTTTCTAACTTTATTGTCTAGCTA
Found at i:946646 original size:19 final size:18
Alignment explanation
Indices: 946602--946651 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
946592 TAATCCCTCT
* **
946602 AATATAAAATTTTTTTTG
1 AATATTAAATTTTTTTAA
*
946620 AATTTTAAATATTTTTTAA
1 AATATTAAAT-TTTTTTAA
946639 AATATTAAATTTT
1 AATATTAAATTTT
946652 AAAAATATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 11 0.42
19 15 0.58
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (18 bp):
AATATTAAATTTTTTTAA
Found at i:946686 original size:17 final size:17
Alignment explanation
Indices: 946655--946687 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
946645 AAATTTTAAA
*
946655 AATATTTTAGTTTTTAC
1 AATATATTAGTTTTTAC
946672 AATATATTAGTTTTTA
1 AATATATTAGTTTTTA
946688 TTTTACATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.58
Consensus pattern (17 bp):
AATATATTAGTTTTTAC
Found at i:946761 original size:16 final size:14
Alignment explanation
Indices: 946694--946790 Score: 64
Period size: 14 Copynumber: 7.2 Consensus size: 14
946684 TTTATTTTAC
946694 ATAA-TTAATTATTA
1 ATAATTTAA-TATTA
* *
946708 ATAATATCATATTA
1 ATAATTTAATATTA
*
946722 ATAA--TATTATT-
1 ATAATTTAATATTA
*
946733 ATCATTT-ATATTA
1 ATAATTTAATATTA
946746 ATCAATTATAATATTA
1 AT-AATT-TAATATTA
946762 ATAATTTAA-ATTA
1 ATAATTTAATATTA
* *
946775 AT-ATATAAAATTA
1 ATAATTTAATATTA
946788 ATA
1 ATA
946791 TTATTTTAAT
Statistics
Matches: 66, Mismatches: 8, Indels: 18
0.72 0.09 0.20
Matches are distributed among these distances:
11 3 0.05
12 14 0.21
13 15 0.23
14 19 0.29
15 7 0.11
16 8 0.12
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (14 bp):
ATAATTTAATATTA
Found at i:946769 original size:29 final size:25
Alignment explanation
Indices: 946701--946777 Score: 75
Period size: 29 Copynumber: 2.9 Consensus size: 25
946691 TACATAATTA
*
946701 ATTATTAATAATATCATATTAATAAT
1 ATTATTAATAAT-TTATATTAATAAT
*
946727 ATTATT-ATCATTTATATTAATCAATT
1 ATTATTAATAATTTATATTAAT-AA-T
*
946753 ATAATATTAATAATTTAAATTAATA
1 AT--TATTAATAATTTATATTAATA
946778 TATAAAATTA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
24 9 0.21
25 6 0.14
26 9 0.21
28 5 0.12
29 13 0.31
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (25 bp):
ATTATTAATAATTTATATTAATAAT
Found at i:946953 original size:20 final size:21
Alignment explanation
Indices: 946923--946965 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
946913 ATATGAAATT
946923 AATATAGTAAAAATATATTAA
1 AATATAGTAAAAATATATTAA
* *
946944 AATA-AGTAAAATTTTATTAA
1 AATATAGTAAAAATATATTAA
946964 AA
1 AA
946966 ATAATATAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (21 bp):
AATATAGTAAAAATATATTAA
Found at i:949075 original size:20 final size:20
Alignment explanation
Indices: 949050--949124 Score: 84
Period size: 20 Copynumber: 3.9 Consensus size: 20
949040 TGCAAGAATG
949050 TCATGCAAATATATTAATTA
1 TCATGCAAATATATTAATTA
* *
949070 TCATGC-AATAATAATAATAA
1 TCATGCAAAT-ATATTAATTA
**
949090 TCATATAAATATA-TAA-TA
1 TCATGCAAATATATTAATTA
949108 TCATGCAAATATATTAA
1 TCATGCAAATATATTAA
949125 GAATTATGCA
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
18 12 0.27
19 9 0.20
20 21 0.47
21 3 0.07
ACGTcount: A:0.51, C:0.09, G:0.04, T:0.36
Consensus pattern (20 bp):
TCATGCAAATATATTAATTA
Found at i:949299 original size:24 final size:24
Alignment explanation
Indices: 949246--949308 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 24
949236 AATATCATTC
* **
949246 AAATATAATATTA-ATCATGCAAT
1 AAATATAATATCATATCACACAAT
949269 AACATATAATATCATATCACACAAT
1 AA-ATATAATATCATATCACACAAT
*
949294 AAATATAAAATCATA
1 AAATATAATATCATA
949309 CAATAATATT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
23 2 0.06
24 22 0.65
25 10 0.29
ACGTcount: A:0.56, C:0.13, G:0.02, T:0.30
Consensus pattern (24 bp):
AAATATAATATCATATCACACAAT
Found at i:949378 original size:24 final size:24
Alignment explanation
Indices: 949319--949379 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
949309 CAATAATATT
*
949319 AATAAATAAATAACCATGCAAATA
1 AATAAATAAATAACCATACAAATA
* * *
949343 AATATATTAATAATCATAC-AATCA
1 AATAAATAAATAACCATACAAAT-A
*
949367 CATAAATAAATAA
1 AATAAATAAATAA
949380 ATTAATAACC
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
23 3 0.10
24 26 0.90
ACGTcount: A:0.61, C:0.11, G:0.02, T:0.26
Consensus pattern (24 bp):
AATAAATAAATAACCATACAAATA
Found at i:949444 original size:21 final size:22
Alignment explanation
Indices: 949411--949452 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
949401 CATGTAATTA
949411 AATATATAATCATGCAAATAAT
1 AATATATAATCATGCAAATAAT
*
949433 AATATA-AATCATGTAAATAA
1 AATATATAATCATGCAAATAA
949453 ACATGTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.57, C:0.07, G:0.05, T:0.31
Consensus pattern (22 bp):
AATATATAATCATGCAAATAAT
Found at i:949487 original size:15 final size:16
Alignment explanation
Indices: 949463--949492 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
949453 ACATGTAATT
949463 AAATATATAATAATAC
1 AAATATATAATAATAC
949479 AAATA-ATAATAATA
1 AAATATATAATAATA
949493 TACAAATCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (16 bp):
AAATATATAATAATAC
Found at i:949493 original size:23 final size:25
Alignment explanation
Indices: 949467--949525 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 25
949457 GTAATTAAAT
949467 ATATAATAATACAAAT-AATA-ATA
1 ATATAATAATACAAATAAATATATA
* *
949490 ATATACA-AATCCAATTAAATATATA
1 ATATA-ATAATACAAATAAATATATA
949515 ATAATAATAAT
1 AT-ATAATAAT
949526 CATGTAATCA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
23 12 0.41
24 5 0.17
25 6 0.21
26 6 0.21
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (25 bp):
ATATAATAATACAAATAAATATATA
Found at i:949569 original size:20 final size:20
Alignment explanation
Indices: 949543--949603 Score: 95
Period size: 20 Copynumber: 3.0 Consensus size: 20
949533 TCACACAAAT
*
949543 AGATAAATTGATAATCATGC
1 AGATAAATTAATAATCATGC
*
949563 GGATAAATTAATAATCATGC
1 AGATAAATTAATAATCATGC
*
949583 AGATAAATTAAAAATCATGC
1 AGATAAATTAATAATCATGC
949603 A
1 A
949604 AACATATTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.49, C:0.10, G:0.13, T:0.28
Consensus pattern (20 bp):
AGATAAATTAATAATCATGC
Found at i:949612 original size:20 final size:20
Alignment explanation
Indices: 949553--949634 Score: 83
Period size: 20 Copynumber: 4.1 Consensus size: 20
949543 AGATAAATTG
** *
949553 ATAATCATGCGGATAAATTA
1 ATAATCATGCAAATATATTA
* *
949573 ATAATCATGCAGATAAATTA
1 ATAATCATGCAAATATATTA
* *
949593 AAAATCATGCAAACATATTA
1 ATAATCATGCAAATATATTA
**
949613 ATGGTCATGCAAATATATTA
1 ATAATCATGCAAATATATTA
949633 AT
1 AT
949635 CATGTAAATA
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 53 1.00
ACGTcount: A:0.48, C:0.11, G:0.11, T:0.30
Consensus pattern (20 bp):
ATAATCATGCAAATATATTA
Found at i:949671 original size:32 final size:33
Alignment explanation
Indices: 949621--949684 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
949611 TAATGGTCAT
*
949621 GCAAATATATTAATCATGTAAATAAAATATTAG
1 GCAAATAAATTAATCATGTAAATAAAATATTAG
*
949654 GCAAATAAATT-ATCATGTAAATATAATATTA
1 GCAAATAAATTAATCATGTAAATAAAATATTA
949685 ATCATATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 19 0.66
33 10 0.34
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (33 bp):
GCAAATAAATTAATCATGTAAATAAAATATTAG
Found at i:949675 original size:16 final size:16
Alignment explanation
Indices: 949617--949676 Score: 57
Period size: 16 Copynumber: 3.7 Consensus size: 16
949607 ATATTAATGG
*
949617 TCATGCAAATATATTAA
1 TCATGCAAATAAATT-A
* *
949634 TCATGTAAATAAAATA
1 TCATGCAAATAAATTA
* *
949650 TTAGGCAAATAAATTA
1 TCATGCAAATAAATTA
*
949666 TCATGTAAATA
1 TCATGCAAATA
949677 TAATATTAAT
Statistics
Matches: 33, Mismatches: 10, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
16 21 0.64
17 12 0.36
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.33
Consensus pattern (16 bp):
TCATGCAAATAAATTA
Found at i:949694 original size:20 final size:20
Alignment explanation
Indices: 949665--949704 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
949655 CAAATAAATT
*
949665 ATCATGTAAATATAATATTA
1 ATCATATAAATATAATATTA
949685 ATCATATAAATATAATATTA
1 ATCATATAAATATAATATTA
949705 GTAATGCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.40
Consensus pattern (20 bp):
ATCATATAAATATAATATTA
Found at i:949694 original size:32 final size:32
Alignment explanation
Indices: 949621--949695 Score: 96
Period size: 32 Copynumber: 2.3 Consensus size: 32
949611 TAATGGTCAT
* *
949621 GCAAATATATTAATCATGTAAATAAAATATTAG
1 GCAAATAAATT-ATCATGTAAATAAAATATTAA
*
949654 GCAAATAAATTATCATGTAAATATAATATTAA
1 GCAAATAAATTATCATGTAAATAAAATATTAA
* *
949686 TCATATAAAT
1 GCAAATAAAT
949696 ATAATATTAG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
32 27 0.73
33 10 0.27
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.35
Consensus pattern (32 bp):
GCAAATAAATTATCATGTAAATAAAATATTAA
Found at i:950347 original size:16 final size:16
Alignment explanation
Indices: 950313--950347 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
950303 TCTTTTAACT
*
950313 AAAAAAATTAAACTAA
1 AAAAAAATTAAAATAA
950329 AAAAAAATTACAAATAA
1 AAAAAAATTA-AAATAA
950346 AA
1 AA
950348 TTTAGAGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (16 bp):
AAAAAAATTAAAATAA
Found at i:960007 original size:17 final size:17
Alignment explanation
Indices: 959985--960018 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
959975 TAACCTTTAA
*
959985 TTTTTTTTGTAA-ACTC
1 TTTTTTTTTTAATACTC
960001 TTTTTTTTTTAATACTC
1 TTTTTTTTTTAATACTC
960018 T
1 T
960019 AATTTAGTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.18, C:0.12, G:0.03, T:0.68
Consensus pattern (17 bp):
TTTTTTTTTTAATACTC
Found at i:963104 original size:228 final size:228
Alignment explanation
Indices: 962350--963717 Score: 1403
Period size: 228 Copynumber: 6.0 Consensus size: 228
962340 TATTTAATAG
* * * * * * * *
962350 ATGCAAATCTTTGTGAAAACCCTCACTGGCAAGACCATCACCCTT-GAGGTGGAGAGTTCTGACA
1 ATGCAAATCTTTGTGAAGACTCTCACTGGAAAGACAATTA-CCTTGGAGGTTGAAAGTTCAGACA
* * *
962414 CCATTGACAATGTGAAGGCTAAGATCCAGGACAAGGAAGGGATCCCACCAGATCAGCAAAGGCTT
65 CCATTGACAATGTGAAGGCAAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGGCTT
* *
962479 ATCTTTGCTGGCAAA-CAACTTGAAGATGGTCGCACGCTAGCTGACTACAACATCCAGAAGGAGT
130 ATCTTTGCTGG-AAAGCAGCTTGAAGATGGTCGCACGCTAGCTGACTATAACATCCAGAAGGAGT
*
962543 CCACCCTCCACTTGGTTCTTCGTCTTCGTGGTGGC
194 CAACCCTCCACTTGGTTCTTCGTCTTCGTGGTGGC
* * *
962578 ATGCAAAT-TTTCGTCAAGACTCTCACTGGAAAGACAATTACCTTGGAGGTTGAAAGCTCTGACA
1 ATGCAAATCTTT-GTGAAGACTCTCACTGGAAAGACAATTACCTTGGAGGTTGAAAGTTCAGACA
* * * * * * *
962642 CAATTGATAATGTCAAGGCTAAGATCCAAGACAAGGAAGGAATCCCCCCAGACCAGCAGAGGCTT
65 CCATTGACAATGTGAAGGCAAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGGCTT
* * *
962707 ATCTTTGCTGGAAAGCAGCTTGAAGATGGTCGTACGCTGGCAGACTATAACATTCCAGAAGGAGT
130 ATCTTTGCTGGAAAGCAGCTTGAAGATGGTCGCACGCTAGCTGACTATAACA-TCCAGAAGGAGT
* * * *
962772 CTACCCTCCACCTGGTGCTTCGTCTTCGAGGTGGC
194 CAACCCTCCACTTGGTTCTTCGTCTTCGTGGTGGC
* * * * * * *
962807 ATGCAAATCTTTGTCAAAACCCTTACTGGCAAGACAATTACCCTT-GAGGTTGAGAGTTCTGACA
1 ATGCAAATCTTTGTGAAGACTCTCACTGGAAAGACAATTA-CCTTGGAGGTTGAAAGTTCAGACA
*
962871 CCATTGACAATGTGAAGGCAAAGATCCAAGACAAGGAAGGGATTCCACCAGACCAGCAAAGGCTT
65 CCATTGACAATGTGAAGGCAAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGGCTT
* * * * *
962936 ATTTTTGCTGGAAAGCAGCTTGAAGATGGCCGCACCCTAGCTGACTACAACATTCAGAAGGAGTC
130 ATCTTTGCTGGAAAGCAGCTTGAAGATGGTCGCACGCTAGCTGACTATAACATCCAGAAGGAGTC
* * * * *
963001 CACCCTCCACCTGGTACTTCGTCTCCGAGGTGGC
195 AACCCTCCACTTGGTTCTTCGTCTTCGTGGTGGC
* * * * * * *
963035 ATGCAAATATTTGTTAAGACTCTCACTGGTAAGACAATTACCTTGGAAGTTGAGAGCTCAGATAC
1 ATGCAAATCTTTGTGAAGACTCTCACTGGAAAGACAATTACCTTGGAGGTTGAAAGTTCAGACAC
* * * * * *
963100 CATTGATAATGTGAAAGCCAAA-ATTC-AGCACAAAG-AGGGTATCCCACCAGACCAGCAGA-GA
66 CATTGACAATGTG-AAGGCAAAGATCCAAG-ACAAGGAAGGG-ATCCCACCAGACCAGCAAAGGC
* * * ** * * * * * *
963161 TTGATTTTTGCAGGAAAACAGCTTGAAGATGGAAGGACTCTTGCCGATTATAATATCCAGAAGGA
128 TT-ATCTTTGCTGGAAAGCAGCTTGAAGATGGTCGCACGCTAGCTGACTATAACATCCAGAAGGA
* * * * *
963226 GTCAACTCTCCATTTGGTTCTCCGCCTTCGTGGTGGT
192 GTCAACCCTCCACTTGGTTCTTCGTCTTCGTGGTGGC
* * * * * *
963263 ATGCAGATTTTTGTGAAGACTCTGACTGGAAAGACTATAACTTTGGAGGTTGAAAGTTCAGACAC
1 ATGCAAATCTTTGTGAAGACTCTCACTGGAAAGACAATTACCTTGGAGGTTGAAAGTTCAGACAC
* *
963328 CATTGACAATGTGAAGGCAAAGATCCAAGACAAGG-AGGGTATCCCCCCAGACCAGCAAAGGCTC
66 CATTGACAATGTGAAGGCAAAGATCCAAGACAAGGAAGGG-ATCCCACCAGACCAGCAAAGGCTT
* ** * ** * * *
963392 ATCTTTGCTGGCAAGCAGCTTGAAGATGGGAGGACATTGGCTGACTATAATATCCAAAAGGAGTC
130 ATCTTTGCTGGAAAGCAGCTTGAAGATGGTCGCACGCTAGCTGACTATAACATCCAGAAGGAGTC
* * * * * *
963457 AACTCTTCATTTGGTGT-TGCGACTGCGTGGTGGC
195 AACCCTCCACTTGGT-TCTTCGTCTTCGTGGTGGC
* * * *
963491 ATGCAGATCTTTGTGAAGAC-CTTAACTGGAAAGACAATCACTTTGGAGGTTGAAAGTTCAGACA
1 ATGCAAATCTTTGTGAAGACTC-TCACTGGAAAGACAATTACCTTGGAGGTTGAAAGTTCAGACA
* * * * *
963555 CCATTGATAACGTGAAGGCAAAGATTCAGGACAAGGAAGGGATCCCACCAGACCAGCAGAGG-TT
65 CCATTGACAATGTGAAGGCAAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGGCTT
* * * ** * * * * *
963619 GATTTTTGCTGGGAAGCAGCTTGAGGATGGGAGGACTCTTGCAGATTATAACATCCAGAAGGAGT
130 -ATCTTTGCTGGAAAGCAGCTTGAAGATGGTCGCACGCTAGCTGACTATAACATCCAGAAGGAGT
* * * *
963684 CTACTCTGCATCTT-GTTCTTCGCCTTCGTGGTGG
194 CAACCCTCCA-CTTGGTTCTTCGTCTTCGTGGTGG
963718 TTTCTAAGTT
Statistics
Matches: 967, Mismatches: 153, Indels: 40
0.83 0.13 0.03
Matches are distributed among these distances:
227 33 0.03
228 715 0.74
229 212 0.22
230 7 0.01
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (228 bp):
ATGCAAATCTTTGTGAAGACTCTCACTGGAAAGACAATTACCTTGGAGGTTGAAAGTTCAGACAC
CATTGACAATGTGAAGGCAAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGGCTTA
TCTTTGCTGGAAAGCAGCTTGAAGATGGTCGCACGCTAGCTGACTATAACATCCAGAAGGAGTCA
ACCCTCCACTTGGTTCTTCGTCTTCGTGGTGGC
Found at i:963455 original size:456 final size:452
Alignment explanation
Indices: 962350--963718 Score: 1625
Period size: 456 Copynumber: 3.0 Consensus size: 452
962340 TATTTAATAG
* * * * * * *
962350 ATGCAAATCTTTGTGAAAACCCTCACTGGCAAGACCATCACCCTTGAGGTGGAGAGTTCTGACAC
1 ATGCAAATCTTTGTCAAAACCCTGACTGGAAAGACAATTAACCTTGAGGTTGAGAGTTCTGACAC
* * *
962415 CATTGACAATGTGAAGGCTAAGATCCAGGACAAGGAAGGGATCCCACCAGATCAGCAAAGGCTTA
66 CATTGACAATGTGAAGGCAAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGGCTTA
* * * *
962480 TCTTTGCTGGCAAACAACTTGAAGATGGTCGCACGCTAGCTGACTACAACATCCAGAAGGAGTCC
131 TCTTTGCTGGCAAGCAGCTTGAAGATGGCCGCACACTAGCTGACTACAACATCCAGAAGGAGTCC
*
962545 ACCCTCCACTTGGTTCTTCGTCTTCGTGGTGGCATGCAAATTTTCGTCAAGACTCTCACTGGAAA
196 ACCCTCCACTTGG-TCTTCGTCTCCGTGGTGGCATGCAAATTTT-GTCAAGACTCTCACTGGAAA
* * * * * * *
962610 GACAATTACCTTGGAGGTTGAAAGCTCTGACACAATTGATAATGTCAAGGCTAAGATCCAAGACA
259 GACAATTACCTTGGAGGTTGAAAGCTCAGACACCATTGATAATGTGAAAGCCAAAATTC-AGACA
* * * * **
962675 AGGAAGGAATCCCCCCAGACCAGCAGAGGCTT-ATCTTTGCTGGAAAGCAGCTTGAAGATGGTCG
323 AGG-AGGGATCCCACCAGACCAGCAGA-GATTGATTTTTGCTGGAAAGCAGCTTGAAGATGGAAG
* * * * * ** * * *
962739 TACGCTGGCAGACTATAACATTCCAGAAGGAGTCTACCCTCCACCTGGTGCTTCGTCTTCGAGGT
386 GACTCTTGCAGATTATAACA-TCCAGAAGGAGTCTACTCTCCATTTGGTTCTTCGCCTTCGTGGT
*
962804 GGC
450 GGT
* * *
962807 ATGCAAATCTTTGTCAAAACCCTTACTGGCAAGACAATTACCCTTGAGGTTGAGAGTTCTGACAC
1 ATGCAAATCTTTGTCAAAACCCTGACTGGAAAGACAATTAACCTTGAGGTTGAGAGTTCTGACAC
*
962872 CATTGACAATGTGAAGGCAAAGATCCAAGACAAGGAAGGGATTCCACCAGACCAGCAAAGGCTTA
66 CATTGACAATGTGAAGGCAAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGGCTTA
* * * *
962937 TTTTTGCTGGAAAGCAGCTTGAAGATGGCCGCACCCTAGCTGACTACAACATTCAGAAGGAGTCC
131 TCTTTGCTGGCAAGCAGCTTGAAGATGGCCGCACACTAGCTGACTACAACATCCAGAAGGAGTCC
* * * *
963002 ACCCTCCACCTGGTACTTCGTCTCCGAGGTGGCATGCAAATATTTGTTAAGACTCTCACTGGTAA
196 ACCCTCCACTTGGT-CTTCGTCTCCGTGGTGGCATGCAAAT-TTTGTCAAGACTCTCACTGGAAA
* * *
963067 GACAATTACCTTGGAAGTTGAGAGCTCAGATACCATTGATAATGTGAAAGCCAAAATTCAGCACA
259 GACAATTACCTTGGAGGTTGAAAGCTCAGACACCATTGATAATGTGAAAGCCAAAATTCAG-ACA
* * *
963132 AAGAGGGTATCCCACCAGACCAGCAGAGATTGATTTTTGCAGGAAAACAGCTTGAAGATGGAAGG
323 AGGAGGG-ATCCCACCAGACCAGCAGAGATTGATTTTTGCTGGAAAGCAGCTTGAAGATGGAAGG
* * * *
963197 ACTCTTGCCGATTATAATATCCAGAAGGAGTCAACTCTCCATTTGGTTCTCCGCCTTCGTGGTGG
387 ACTCTTGCAGATTATAACATCCAGAAGGAGTCTACTCTCCATTTGGTTCTTCGCCTTCGTGGTGG
963262 T
452 T
* * * * * * * * *
963263 ATGCAGATTTTTGTGAAGACTCTGACTGGAAAGACTA-TAACTTTGGAGGTTGAAAGTTCAGACA
1 ATGCAAATCTTTGTCAAAACCCTGACTGGAAAGACAATTAACCTT-GAGGTTGAGAGTTCTGACA
*
963327 CCATTGACAATGTGAAGGCAAAGATCCAAGACAAGG-AGGGTATCCCCCCAGACCAGCAAAGGCT
65 CCATTGACAATGTGAAGGCAAAGATCCAAGACAAGGAAGGG-ATCCCACCAGACCAGCAAAGGCT
* ** * * * * * *
963391 CATCTTTGCTGGCAAGCAGCTTGAAGATGGGAGGACATTGGCTGACTATAATATCCAAAAGGAGT
129 TATCTTTGCTGGCAAGCAGCTTGAAGATGGCCGCACACTAGCTGACTACAACATCCAGAAGGAGT
* * * * * * * * * *
963456 CAACTCTTCATTTGGTGTTGCGACTGCGTGGTGGCATGCAGATCTTTGTGAAGAC-CTTAACTGG
194 CCACCCTCCACTTGGTCTT-CGTCTCCGTGGTGGCATGCAAAT-TTTGTCAAGACTC-TCACTGG
* * * * *
963520 AAAGACAATCACTTTGGAGGTTGAAAGTTCAGACACCATTGATAACGTG-AAGGCAAAGATTCAG
256 AAAGACAATTACCTTGGAGGTTGAAAGCTCAGACACCATTGATAATGTGAAAGCCAAA-ATTCA-
* * *
963584 GACAAGGAAGGGATCCCACCAGACCAGCAGAGGTTGATTTTTGCTGGGAAGCAGCTTGAGGATGG
319 GACAAGG-AGGGATCCCACCAGACCAGCAGAGATTGATTTTTGCTGGAAAGCAGCTTGAAGATGG
* *
963649 GAGGACTCTTGCAGATTATAACATCCAGAAGGAGTCTACTCTGCATCTT-GTTCTTCGCCTTCGT
383 AAGGACTCTTGCAGATTATAACATCCAGAAGGAGTCTACTCTCCAT-TTGGTTCTTCGCCTTCGT
963713 GGTGGT
447 GGTGGT
963719 TTCTAAGTTT
Statistics
Matches: 783, Mismatches: 116, Indels: 27
0.85 0.13 0.03
Matches are distributed among these distances:
455 19 0.02
456 408 0.52
457 353 0.45
458 3 0.00
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (452 bp):
ATGCAAATCTTTGTCAAAACCCTGACTGGAAAGACAATTAACCTTGAGGTTGAGAGTTCTGACAC
CATTGACAATGTGAAGGCAAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGGCTTA
TCTTTGCTGGCAAGCAGCTTGAAGATGGCCGCACACTAGCTGACTACAACATCCAGAAGGAGTCC
ACCCTCCACTTGGTCTTCGTCTCCGTGGTGGCATGCAAATTTTGTCAAGACTCTCACTGGAAAGA
CAATTACCTTGGAGGTTGAAAGCTCAGACACCATTGATAATGTGAAAGCCAAAATTCAGACAAGG
AGGGATCCCACCAGACCAGCAGAGATTGATTTTTGCTGGAAAGCAGCTTGAAGATGGAAGGACTC
TTGCAGATTATAACATCCAGAAGGAGTCTACTCTCCATTTGGTTCTTCGCCTTCGTGGTGGT
Found at i:968142 original size:93 final size:93
Alignment explanation
Indices: 967978--968215 Score: 320
Period size: 93 Copynumber: 2.6 Consensus size: 93
967968 GATAAGGAGA
* * * *
967978 TGACGGAGATGCATTTAAATTCTGACCTTCAAACTCAAATTTATTGTGTT-CAGCCATTGAAGAA
1 TGACTGAGATGCATTCAAATTCTGACCTTCAAACTCAAATTTATTGT-TTCCAACCAATGAAGAA
*
968042 GCTTCATTATTCCGTGCTACATTAAGAGT
65 GCTTCATTATTCCGTACTACATTAAGAGT
*
968071 TCG-CTGAGATGCATTCGAATTCTGACCTTCAAACTCAAATTTATTGTTTCCAACCAATGAAGAA
1 T-GACTGAGATGCATTCAAATTCTGACCTTCAAACTCAAATTTATTGTTTCCAACCAATGAAGAA
*
968135 GCTTCATTATTCTGTACTACATTAAGAGT
65 GCTTCATTATTCCGTACTACATTAAGAGT
* ** * *
968164 TGACTGAAATGCATTCCCATTCTGATCTTCAAACT-TAATATTATTGTTTCCA
1 TGACTGAGATGCATTCAAATTCTGACCTTCAAACTCAAAT-TTATTGTTTCCA
968216 GTCATCCTAG
Statistics
Matches: 129, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
92 6 0.05
93 122 0.95
94 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (93 bp):
TGACTGAGATGCATTCAAATTCTGACCTTCAAACTCAAATTTATTGTTTCCAACCAATGAAGAAG
CTTCATTATTCCGTACTACATTAAGAGT
Found at i:968292 original size:99 final size:99
Alignment explanation
Indices: 968183--968691 Score: 793
Period size: 99 Copynumber: 5.1 Consensus size: 99
968173 TGCATTCCCA
* * * * *
968183 TTCTGATCTTCAAACTTAATATTATTGTTTCCAGTCATCCTAGATGCTCCGTTTTCTTGTGAATT
1 TTCTGATCTTCAAACCTAATATTATTGTTTCCAGCCATCATAGATGCTCCATTTTCCTGTGAATT
*
968248 CACATTAACAGTTGGCTGAGAATTAGCATTCGAT
66 CACATTAACAATTGGCTGAGAATTAGCATTCGAT
* * * *
968282 TTCTGATCTTCAAACCCAATATTATTGTTTCCATCCATCATAGATGCTCTATATTCCTGTGAATT
1 TTCTGATCTTCAAACCTAATATTATTGTTTCCAGCCATCATAGATGCTCCATTTTCCTGTGAATT
* *
968347 CACATTAACAATTGGCTGAGAATTAGCATTCCAA
66 CACATTAACAATTGGCTGAGAATTAGCATTCGAT
* * *
968381 TTCTGATCTTCAAACTTAATATTATTGTTTCCAGCCATCCTAGATGCTCCATTTTCTTGTGAATT
1 TTCTGATCTTCAAACCTAATATTATTGTTTCCAGCCATCATAGATGCTCCATTTTCCTGTGAATT
*
968446 CACATTAACAGTTGGCTGAGAATTAGCATTCGAT
66 CACATTAACAATTGGCTGAGAATTAGCATTCGAT
* * *
968480 TTCTGATCTTCAAACCCAATATTATTGTTTCCAGCCATCATAGATGCTCTATATTCCTGTGAATT
1 TTCTGATCTTCAAACCTAATATTATTGTTTCCAGCCATCATAGATGCTCCATTTTCCTGTGAATT
* *
968545 CACATTAACAATTGGCTGAGAATTAGCATTCCAA
66 CACATTAACAATTGGCTGAGAATTAGCATTCGAT
* *
968579 TTCTGATCTTCAAACCTAATATTATTGTTTCCACCCATCATAGATGCTTCATTTTCCTGTGAATT
1 TTCTGATCTTCAAACCTAATATTATTGTTTCCAGCCATCATAGATGCTCCATTTTCCTGTGAATT
* *
968644 CACATTGACAATTGGCTGAGAATTACCATTCGAT
66 CACATTAACAATTGGCTGAGAATTAGCATTCGAT
968678 TTCTGATCTTCAAA
1 TTCTGATCTTCAAA
968692 TTCATTATTG
Statistics
Matches: 370, Mismatches: 40, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
99 370 1.00
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.38
Consensus pattern (99 bp):
TTCTGATCTTCAAACCTAATATTATTGTTTCCAGCCATCATAGATGCTCCATTTTCCTGTGAATT
CACATTAACAATTGGCTGAGAATTAGCATTCGAT
Found at i:968400 original size:198 final size:198
Alignment explanation
Indices: 968174--968691 Score: 928
Period size: 198 Copynumber: 2.6 Consensus size: 198
968164 TGACTGAAAT
* * *
968174 GCATTCCCATTCTGATCTTCAAACTTAATATTATTGTTTCCAGTCATCCTAGATGCTCCGTTTTC
1 GCATTCCAATTCTGATCTTCAAACTTAATATTATTGTTTCCAGCCATCCTAGATGCTCCATTTTC
968239 TTGTGAATTCACATTAACAGTTGGCTGAGAATTAGCATTCGATTTCTGATCTTCAAACCCAATAT
66 TTGTGAATTCACATTAACAGTTGGCTGAGAATTAGCATTCGATTTCTGATCTTCAAACCCAATAT
*
968304 TATTGTTTCCATCCATCATAGATGCTCTATATTCCTGTGAATTCACATTAACAATTGGCTGAGAA
131 TATTGTTTCCAGCCATCATAGATGCTCTATATTCCTGTGAATTCACATTAACAATTGGCTGAGAA
968369 TTA
196 TTA
968372 GCATTCCAATTCTGATCTTCAAACTTAATATTATTGTTTCCAGCCATCCTAGATGCTCCATTTTC
1 GCATTCCAATTCTGATCTTCAAACTTAATATTATTGTTTCCAGCCATCCTAGATGCTCCATTTTC
968437 TTGTGAATTCACATTAACAGTTGGCTGAGAATTAGCATTCGATTTCTGATCTTCAAACCCAATAT
66 TTGTGAATTCACATTAACAGTTGGCTGAGAATTAGCATTCGATTTCTGATCTTCAAACCCAATAT
968502 TATTGTTTCCAGCCATCATAGATGCTCTATATTCCTGTGAATTCACATTAACAATTGGCTGAGAA
131 TATTGTTTCCAGCCATCATAGATGCTCTATATTCCTGTGAATTCACATTAACAATTGGCTGAGAA
968567 TTA
196 TTA
* * * *
968570 GCATTCCAATTCTGATCTTCAAACCTAATATTATTGTTTCCACCCATCATAGATGCTTCATTTTC
1 GCATTCCAATTCTGATCTTCAAACTTAATATTATTGTTTCCAGCCATCCTAGATGCTCCATTTTC
* * * *
968635 CTGTGAATTCACATTGACAATTGGCTGAGAATTACCATTCGATTTCTGATCTTCAAA
66 TTGTGAATTCACATTAACAGTTGGCTGAGAATTAGCATTCGATTTCTGATCTTCAAA
968692 TTCATTATTG
Statistics
Matches: 308, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
198 308 1.00
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.38
Consensus pattern (198 bp):
GCATTCCAATTCTGATCTTCAAACTTAATATTATTGTTTCCAGCCATCCTAGATGCTCCATTTTC
TTGTGAATTCACATTAACAGTTGGCTGAGAATTAGCATTCGATTTCTGATCTTCAAACCCAATAT
TATTGTTTCCAGCCATCATAGATGCTCTATATTCCTGTGAATTCACATTAACAATTGGCTGAGAA
TTA
Found at i:974459 original size:17 final size:18
Alignment explanation
Indices: 974434--974475 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
974424 TTTTAAATTA
* * *
974434 AATAATATTATAAATAAT
1 AATATTATTACAAAAAAT
974452 AA-ATTATTACAAAAAAT
1 AATATTATTACAAAAAAT
974469 AATATTA
1 AATATTA
974476 ATATTAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
AATATTATTACAAAAAAT
Found at i:981733 original size:15 final size:16
Alignment explanation
Indices: 981715--981744 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
981705 AATTTGAGAG
981715 AAAATAAAAT-AGAAT
1 AAAATAAAATCAGAAT
981730 AAAATAAAATCAGAA
1 AAAATAAAATCAGAA
981745 AACAGAAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.73, C:0.03, G:0.07, T:0.17
Consensus pattern (16 bp):
AAAATAAAATCAGAAT
Found at i:986712 original size:31 final size:31
Alignment explanation
Indices: 986676--986737 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
986666 CGTCTGTACT
*
986676 TTTAACCTTTAATCTATCTGATTTTACAAAC
1 TTTAACCTTGAATCTATCTGATTTTACAAAC
*
986707 TTTAACCTTGAATCTATCTGATTTTATAAAC
1 TTTAACCTTGAATCTATCTGATTTTACAAAC
986738 ATACTTGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.32, C:0.18, G:0.05, T:0.45
Consensus pattern (31 bp):
TTTAACCTTGAATCTATCTGATTTTACAAAC
Found at i:1003275 original size:2 final size:2
Alignment explanation
Indices: 1003270--1003302 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
1003260 AAAAAAAAAA
*
1003270 AC AC AC AC AC AC AC AC AC AC AC AT AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1003303 AACGGAGTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.45, G:0.00, T:0.03
Consensus pattern (2 bp):
AC
Found at i:1008664 original size:2 final size:2
Alignment explanation
Indices: 1008657--1008693 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
1008647 GTTAAGATCA
*
1008657 AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1008694 AACCATTCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:1012103 original size:61 final size:58
Alignment explanation
Indices: 1012032--1012253 Score: 268
Period size: 59 Copynumber: 3.7 Consensus size: 58
1012022 TCTGTACAAG
* *
1012032 GAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTATTTTGAAAAACTTTAATTTCGA
1 GAAAAATTGATACTTTCAAC-TTTTCTCAAAAATATTT-TTTTG-AAAACTTTATTTTCAA
* * * * *
1012093 GGAAAGTTGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTGAAAA-TTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTT-CTCAAAAATA-TTTTTTTGAAAACTTTATTTTCAA
*
1012152 GAAAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTTGGAAAGC-TTATTTTCAA
1 GAAAAATTGATACTTTCAACTTTTCT-CAAAAATATTTTTTT-GAAAACTTTATTTTCAA
*
1012211 AAAAAATTGATACTTTCAACTTTTCTTCAAAAAATATTTTTTT
1 GAAAAATTGATACTTTCAACTTTTC-TC-AAAAATATTTTTTT
1012254 TTGAATTTTA
Statistics
Matches: 140, Mismatches: 14, Indels: 15
0.83 0.08 0.09
Matches are distributed among these distances:
58 8 0.06
59 75 0.54
60 23 0.16
61 32 0.23
62 2 0.01
ACGTcount: A:0.37, C:0.13, G:0.07, T:0.43
Consensus pattern (58 bp):
GAAAAATTGATACTTTCAACTTTTCTCAAAAATATTTTTTTGAAAACTTTATTTTCAA
Found at i:1012273 original size:118 final size:120
Alignment explanation
Indices: 1012032--1012274 Score: 316
Period size: 118 Copynumber: 2.0 Consensus size: 120
1012022 TCTGTACAAG
* **
1012032 GAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTATTTTGAAAAACTTTAATTTCGAGGAA
1 GAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTATTTTGAAAAACTTTAATTTCAAAAAA
* *
1012097 AGTTGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTGAAAATTTATTTTTAA
66 AATTGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTGAAAATTTATTTTAAA
* * *
1012152 GAAAAATTGATACTTTCAAC-TTTTCTCCAAAAATATTT-TTTTGGAAAGC-TTATTTTCAAAAA
1 GAAAAATTGATACTTTCAACTTTTTCT-CAAAAATATTTATTTTGAAAAACTTTAATTTCAAAAA
* ** *
1012214 AAATTGATACTTTCAACTTTTCTTCAAAAAATATTTTTTTTTG-AATTTTA-TTTAAA
65 AAATTGATACTTTCAACTTTTCCTCAAAAAA-A-CCTTTTTTGAAAATTTATTTTAAA
1012270 GAAAA
1 GAAAA
1012275 TAAAATAAAA
Statistics
Matches: 108, Mismatches: 12, Indels: 8
0.84 0.09 0.06
Matches are distributed among these distances:
118 48 0.44
119 22 0.20
120 38 0.35
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.43
Consensus pattern (120 bp):
GAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTATTTTGAAAAACTTTAATTTCAAAAAA
AATTGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTGAAAATTTATTTTAAA
Found at i:1012293 original size:14 final size:14
Alignment explanation
Indices: 1012266--1012333 Score: 50
Period size: 14 Copynumber: 4.6 Consensus size: 14
1012256 GAATTTTATT
1012266 TAAAGAAAAT-AAAA
1 TAAA-AAAATGAAAA
1012280 TAAAAAAATGAAAA
1 TAAAAAAATGAAAA
**
1012294 TACAAATAAAAAATAAA
1 TA-AAA-AAATGA-AAA
*
1012311 T-AAAAAATAGAAAT
1 TAAAAAAAT-GAAAA
1012325 TAAAAAAAT
1 TAAAAAAAT
1012334 ACTAAGCAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 11
0.73 0.08 0.19
Matches are distributed among these distances:
13 5 0.12
14 16 0.37
15 14 0.33
16 4 0.09
17 4 0.09
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.18
Consensus pattern (14 bp):
TAAAAAAATGAAAA
Found at i:1012318 original size:18 final size:17
Alignment explanation
Indices: 1012271--1012332 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 17
1012261 TTATTTAAAG
*
1012271 AAAATAAAATAAAAAAAT
1 AAAAAAAAAT-AAAAAAT
*
1012289 GAAAATACAAATAAAAAAT
1 -AAAA-AAAAATAAAAAAT
* *
1012308 AAATAAAAAATAGAAATT
1 AAA-AAAAAATAAAAAAT
1012326 AAAAAAA
1 AAAAAAA
1012333 TACTAAGCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
17 4 0.11
18 16 0.44
19 12 0.33
20 4 0.11
ACGTcount: A:0.79, C:0.02, G:0.03, T:0.16
Consensus pattern (17 bp):
AAAAAAAAATAAAAAAT
Found at i:1013189 original size:9 final size:9
Alignment explanation
Indices: 1013175--1013217 Score: 52
Period size: 9 Copynumber: 4.7 Consensus size: 9
1013165 TCTTCGGCCA
1013175 AAAAAAATC
1 AAAAAAATC
*
1013184 AAAAAAATA
1 AAAAAAATC
1013193 AAAAAAATC
1 AAAAAAATC
1013202 AAATAATAAT-
1 AAA-AA-AATC
1013212 AAAAAA
1 AAAAAA
1013218 TATTAATAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
8 1 0.03
9 21 0.70
10 5 0.17
11 3 0.10
ACGTcount: A:0.81, C:0.05, G:0.00, T:0.14
Consensus pattern (9 bp):
AAAAAAATC
Found at i:1013231 original size:20 final size:20
Alignment explanation
Indices: 1013174--1013217 Score: 74
Period size: 18 Copynumber: 2.3 Consensus size: 20
1013164 ATCTTCGGCC
1013174 AAAAAAAATCAAA-AA-AAT
1 AAAAAAAATCAAATAATAAT
1013192 AAAAAAAATCAAATAATAAT
1 AAAAAAAATCAAATAATAAT
1013212 AAAAAA
1 AAAAAA
1013218 TATTAATAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 13 0.54
19 2 0.08
20 9 0.38
ACGTcount: A:0.82, C:0.05, G:0.00, T:0.14
Consensus pattern (20 bp):
AAAAAAAATCAAATAATAAT
Found at i:1013301 original size:7 final size:7
Alignment explanation
Indices: 1013269--1013507 Score: 52
Period size: 7 Copynumber: 33.1 Consensus size: 7
1013259 AGATTAACAG
*
1013269 ATAAATT
1 ATAAATA
1013276 ATAACAT-
1 ATAA-ATA
1013283 ATAAATA
1 ATAAATA
1013290 GATAAATA
1 -ATAAATA
1013298 AT-AATA
1 ATAAATA
*
1013304 ATATATA
1 ATAAATA
* *
1013311 CTAAGTA
1 ATAAATA
1013318 ATAAATA
1 ATAAATA
*
1013325 TATATATA
1 -ATAAATA
*
1013333 ATATATAA
1 ATAAAT-A
*
1013341 ATATTAACA
1 ATA--AATA
** *
1013350 GGAAAGA
1 ATAAATA
* *
1013357 AAAAAGA
1 ATAAATA
*
1013364 A-AAAGA
1 ATAAATA
1013370 A-AAA-A
1 ATAAATA
1013375 ATATAATA
1 ATA-AATA
1013383 ATAAAGATA
1 AT-AA-ATA
* *
1013392 TATATATT
1 -ATAAATA
1013400 ATAAATA
1 ATAAATA
*
1013407 GT-AATA
1 ATAAATA
1013413 AT-AATA
1 ATAAATA
1013419 AGTAAATA
1 A-TAAATA
1013427 ATAAATA
1 ATAAATA
1013434 CATAAA-A
1 -ATAAATA
*
1013441 GATAAAAA
1 -ATAAATA
*
1013449 ATATATA
1 ATAAATA
1013456 TATAATATAA
1 -ATAA-AT-A
1013466 ATAAAT-
1 ATAAATA
1013472 ATAAA-A
1 ATAAATA
1013478 TATAAAATA
1 -AT-AAATA
*
1013487 CAAAAATA
1 -ATAAATA
1013495 ATAAA-A
1 ATAAATA
1013501 A-AAATA
1 ATAAATA
1013507 A
1 A
1013508 AGTGGACCAA
Statistics
Matches: 179, Mismatches: 27, Indels: 53
0.69 0.10 0.20
Matches are distributed among these distances:
5 5 0.03
6 37 0.21
7 69 0.39
8 49 0.27
9 15 0.08
10 4 0.02
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.28
Consensus pattern (7 bp):
ATAAATA
Found at i:1013398 original size:20 final size:20
Alignment explanation
Indices: 1013375--1013506 Score: 59
Period size: 20 Copynumber: 6.8 Consensus size: 20
1013365 AAAGAAAAAA
*
1013375 ATATAATAATAAAGATATAT
1 ATATAATAATAAAAATATAT
*
1013395 ATAT--T-ATAAATAGTA-AT
1 ATATAATAATAAA-AATATAT
*
1013412 A-ATAATAAGTAAATAATAAAT
1 ATATAATAA-TAAA-AATATAT
* *
1013433 ACATAAAAGATAAAAA-ATAT
1 ATATAATA-ATAAAAATATAT
*
1013453 ATAT-ATAATATAAATA-A-
1 ATATAATAATAAAAATATAT
* *
1013470 ATATAA-AATATAAAATACAA
1 ATATAATAATA-AAAATATAT
* *
1013490 AAATAATAAAAAAAATA
1 ATATAATAATAAAAATA
1013507 AAGTGGACCA
Statistics
Matches: 87, Mismatches: 11, Indels: 28
0.69 0.09 0.22
Matches are distributed among these distances:
16 2 0.02
17 16 0.18
18 17 0.20
19 5 0.06
20 29 0.33
21 8 0.09
22 9 0.10
23 1 0.01
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.29
Consensus pattern (20 bp):
ATATAATAATAAAAATATAT
Found at i:1013439 original size:15 final size:15
Alignment explanation
Indices: 1013399--1013499 Score: 54
Period size: 15 Copynumber: 6.9 Consensus size: 15
1013389 ATATATATAT
*
1013399 TATAAATAGT-AATA
1 TATAAATAATAAATA
1013413 -AT-AATAAGTAAATA
1 TATAAATAA-TAAATA
1013427 -ATAAATACATAAA-A
1 TATAAATA-ATAAATA
* * *
1013441 GATAAAAAATATATA
1 TATAAATAATAAATA
1013456 TATAATATAAATAAATA
1 TATAA-AT-AATAAATA
1013473 TA-AAAT-ATAAAATA
1 TATAAATAAT-AAATA
* *
1013487 CAAAAATAATAAA
1 TATAAATAATAAA
1013500 AAAAATAAAG
Statistics
Matches: 69, Mismatches: 7, Indels: 21
0.71 0.07 0.22
Matches are distributed among these distances:
12 4 0.06
13 5 0.07
14 17 0.25
15 28 0.41
16 6 0.09
17 9 0.13
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.28
Consensus pattern (15 bp):
TATAAATAATAAATA
Found at i:1013446 original size:22 final size:22
Alignment explanation
Indices: 1013400--1013476 Score: 63
Period size: 22 Copynumber: 3.5 Consensus size: 22
1013390 TATATATATT
*
1013400 ATAAATAGT-AATAATAATAAG
1 ATAAATAATAAATAATAATAAG
1013421 -TAAATAATAAATACATAA-AAG
1 ATAAATAATAAATA-ATAATAAG
* * *
1013442 ATAAAAAATATATATATAATATAA
1 ATAAATAATAAATA-ATAATA-AG
1013466 ATAAAT-ATAAA
1 ATAAATAATAAA
1013477 ATATAAAATA
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
20 7 0.16
21 7 0.16
22 19 0.43
23 5 0.11
24 6 0.14
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (22 bp):
ATAAATAATAAATAATAATAAG
Found at i:1015763 original size:13 final size:13
Alignment explanation
Indices: 1015745--1015771 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1015735 AACCAGGCAA
1015745 GTAGTTGTATGTT
1 GTAGTTGTATGTT
1015758 GTAGTTGTATGTT
1 GTAGTTGTATGTT
1015771 G
1 G
1015772 GCTGGCTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.33, T:0.52
Consensus pattern (13 bp):
GTAGTTGTATGTT
Found at i:1027064 original size:2 final size:2
Alignment explanation
Indices: 1027045--1027078 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
1027035 GTTAATTGAG
* *
1027045 AT AT AC AT AT AC 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
1027079 CCATCAATCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:1029071 original size:29 final size:28
Alignment explanation
Indices: 1029039--1029097 Score: 64
Period size: 29 Copynumber: 2.1 Consensus size: 28
1029029 ATTATTAAAA
1029039 ATTTAAATCATATCATATTTACACCATTT
1 ATTTAAATCATATCATA-TTACACCATTT
** * * *
1029068 ATTTGTATTATATTATATTACATCATTT
1 ATTTAAATCATATCATATTACACCATTT
1029096 AT
1 AT
1029098 GATGCTTTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 12 0.48
29 13 0.52
ACGTcount: A:0.36, C:0.12, G:0.02, T:0.51
Consensus pattern (28 bp):
ATTTAAATCATATCATATTACACCATTT
Found at i:1030871 original size:2 final size:2
Alignment explanation
Indices: 1030864--1030902 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
1030854 AATATTTTAA
* *
1030864 AT AT AT AT -T AA AT AT AT AT AC 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
1030903 GAAGTAGCTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:1031800 original size:23 final size:23
Alignment explanation
Indices: 1031753--1031796 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
1031743 ATATCAATCA
*
1031753 TTAATTTAAATATTTGATTACAT
1 TTAATTTAAATAATTGATTACAT
1031776 TTAATTT-AATAATTGA-TACAT
1 TTAATTTAAATAATTGATTACAT
1031797 ATTTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 5 0.25
22 8 0.40
23 7 0.35
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.50
Consensus pattern (23 bp):
TTAATTTAAATAATTGATTACAT
Found at i:1033745 original size:23 final size:23
Alignment explanation
Indices: 1033719--1033764 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
1033709 TAAATGTAAC
1033719 ATAAATT-AAATTATAAAAATAAT
1 ATAAATTAAAATT-TAAAAATAAT
* *
1033742 ATAATTTAAAATTTAATAATAAT
1 ATAAATTAAAATTTAAAAATAAT
1033765 TTTATAAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
ATAAATTAAAATTTAAAAATAAT
Found at i:1035142 original size:3 final size:3
Alignment explanation
Indices: 1035134--1035166 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
1035124 CTATATATGC
*
1035134 TAT TAT TAT TAT TAT TAT TAT TAT TAT AAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1035167 ATCATGTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:1035246 original size:17 final size:17
Alignment explanation
Indices: 1035209--1035250 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
1035199 CTAATTTTAT
*
1035209 ATTTATTTATTAGTTTG
1 ATTTATTTATTAGTCTG
1035226 -TTTAGTTTATTA-TCTG
1 ATTTA-TTTATTAGTCTG
1035242 ATTTATTTA
1 ATTTATTTA
1035251 CCTATTGAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
16 11 0.50
17 11 0.50
ACGTcount: A:0.24, C:0.02, G:0.10, T:0.64
Consensus pattern (17 bp):
ATTTATTTATTAGTCTG
Found at i:1040463 original size:28 final size:30
Alignment explanation
Indices: 1040431--1040496 Score: 82
Period size: 34 Copynumber: 2.1 Consensus size: 30
1040421 TCTAAAAATT
1040431 ATAACAT-AT-TATCGAATATACATATTTA
1 ATAACATAATCTATCGAATATACATATTTA
1040459 ATAACATAAAAAATCTATCGAATATACATATTTA
1 ATAACAT----AATCTATCGAATATACATATTTA
1040493 ATAA
1 ATAA
1040497 ACAATATTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
28 7 0.22
33 2 0.06
34 23 0.72
ACGTcount: A:0.52, C:0.11, G:0.03, T:0.35
Consensus pattern (30 bp):
ATAACATAATCTATCGAATATACATATTTA
Found at i:1040787 original size:16 final size:15
Alignment explanation
Indices: 1040766--1040795 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
1040756 GATATTATTT
1040766 AAAGTTATTCTTTTAG
1 AAAGTTATT-TTTTAG
1040782 AAAGTTATTTTTTA
1 AAAGTTATTTTTTA
1040796 ATGTATTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.53
Consensus pattern (15 bp):
AAAGTTATTTTTTAG
Found at i:1041401 original size:20 final size:21
Alignment explanation
Indices: 1041376--1041415 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
1041366 TCAACGAACT
*
1041376 AATATATAATTAAA-CAAATC
1 AATATAAAATTAAATCAAATC
1041396 AATATAAAATTAAATCAAAT
1 AATATAAAATTAAATCAAAT
1041416 TCACATATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.30
Consensus pattern (21 bp):
AATATAAAATTAAATCAAATC
Found at i:1047867 original size:11 final size:11
Alignment explanation
Indices: 1047835--1047876 Score: 57
Period size: 11 Copynumber: 3.6 Consensus size: 11
1047825 ATAATTTTTT
1047835 ATTTTTATTAA
1 ATTTTTATTAA
1047846 ATTTATGTATTAA
1 ATTT-T-TATTAA
1047859 ATTTTTATTAA
1 ATTTTTATTAA
*
1047870 AATTTTA
1 ATTTTTA
1047877 AATTGATCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
11 16 0.57
12 2 0.07
13 10 0.36
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (11 bp):
ATTTTTATTAA
Found at i:1054370 original size:32 final size:32
Alignment explanation
Indices: 1054325--1054400 Score: 86
Period size: 32 Copynumber: 2.5 Consensus size: 32
1054315 AAATTATTTG
* *
1054325 AATCAA-ATATTAAAATATTTAAATTTAACTT
1 AATCAATAAATTAAAATACTTAAATTTAACTT
* * *
1054356 AATCAATAAATTAAATTACTTGAATTTAATTT
1 AATCAATAAATTAAAATACTTAAATTTAACTT
1054388 AAT-AAT-AATTAAA
1 AATCAATAAATTAAA
1054401 TCAAATCAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
30 7 0.18
31 9 0.23
32 23 0.59
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.41
Consensus pattern (32 bp):
AATCAATAAATTAAAATACTTAAATTTAACTT
Found at i:1056194 original size:32 final size:32
Alignment explanation
Indices: 1056090--1056218 Score: 81
Period size: 32 Copynumber: 4.1 Consensus size: 32
1056080 AATAATAATT
*
1056090 ATATATAAA-TTTAATA-AAAATAAAATA-AA
1 ATATATAAATTTTAATATAAAATATAATATAA
* * * *
1056119 ATAATTTATATTTTTATAT-TAATATAA-ATTATA
1 AT-ATATAAATTTTAATATAAAATATAATA-TA-A
** *
1056152 ATACGT-AATTTTTATATAAAATATAATATAA
1 ATATATAAATTTTAATATAAAATATAATATAA
*** *
1056183 ATATATAAATTTTAATATTTTATATTATATAA
1 ATATATAAATTTTAATATAAAATATAATATAA
1056215 ATAT
1 ATAT
1056219 TATATTTATA
Statistics
Matches: 75, Mismatches: 16, Indels: 15
0.71 0.15 0.14
Matches are distributed among these distances:
29 2 0.03
30 6 0.08
31 27 0.36
32 36 0.48
33 4 0.05
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.46
Consensus pattern (32 bp):
ATATATAAATTTTAATATAAAATATAATATAA
Found at i:1056216 original size:24 final size:24
Alignment explanation
Indices: 1056184--1056230 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
1056174 ATAATATAAA
*
1056184 TATATAAATTTTAATATTT-TATAT
1 TATATAAATATT-ATATTTATATAT
1056208 TATATAAATATTATATTTATATA
1 TATATAAATATTATATTTATATA
1056231 AACATTCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
TATATAAATATTATATTTATATAT
Found at i:1056229 original size:17 final size:17
Alignment explanation
Indices: 1056196--1056243 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
1056186 TATAAATTTT
*
1056196 AATATTTTATATTATATA
1 AATATTATAT-TTATATA
1056214 AATATTATATTTATATA
1 AATATTATATTTATATA
*
1056231 AACATTCATATTT
1 AATATT-ATATTT
1056244 TAGATTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 12 0.44
18 15 0.56
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (17 bp):
AATATTATATTTATATA
Found at i:1058782 original size:18 final size:19
Alignment explanation
Indices: 1058752--1058793 Score: 77
Period size: 18 Copynumber: 2.3 Consensus size: 19
1058742 TATTTTATTT
1058752 TATAAAAATTTAAAAAATA
1 TATAAAAATTTAAAAAATA
1058771 TATAAAAA-TTAAAAAATA
1 TATAAAAATTTAAAAAATA
1058789 TATAA
1 TATAA
1058794 TTCGATTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
TATAAAAATTTAAAAAATA
Found at i:1059328 original size:28 final size:29
Alignment explanation
Indices: 1059283--1059345 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 29
1059273 TATCGAATGA
* *
1059283 TAAAAAAATTATTTATTT-GTGATTAAAT
1 TAAAAAAATTACTAATTTAGTGATTAAAT
* **
1059311 TAAAAAATTTACTAATTTAGTGATTATTT
1 TAAAAAAATTACTAATTTAGTGATTAAAT
1059340 TAAAAA
1 TAAAAA
1059346 TAGAATCATA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 15 0.52
29 14 0.48
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (29 bp):
TAAAAAAATTACTAATTTAGTGATTAAAT
Found at i:1069098 original size:21 final size:20
Alignment explanation
Indices: 1069074--1069115 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
1069064 GGAGTTTTAA
*
1069074 AGAGAAAATAAAAGAAGAAAT
1 AGAGAAAA-AAAAGAAAAAAT
*
1069095 AGAGGAAAAAAAGAAAAAAT
1 AGAGAAAAAAAAGAAAAAAT
1069115 A
1 A
1069116 TTATTTTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.74, C:0.00, G:0.19, T:0.07
Consensus pattern (20 bp):
AGAGAAAAAAAAGAAAAAAT
Found at i:1069212 original size:20 final size:21
Alignment explanation
Indices: 1069169--1069212 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1069159 ATTTTTATTT
*
1069169 ATTTTATTAATGTCATATAAA
1 ATTTTATTAATGTCATAAAAA
1069190 ATTTTATTAAT-T-AGTAAAAA
1 ATTTTATTAATGTCA-TAAAAA
1069210 ATT
1 ATT
1069213 AACGATGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 9 0.43
21 11 0.52
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (21 bp):
ATTTTATTAATGTCATAAAAA
Found at i:1069318 original size:35 final size:34
Alignment explanation
Indices: 1069231--1069324 Score: 102
Period size: 35 Copynumber: 2.7 Consensus size: 34
1069221 TAATTTTTTT
* * * *
1069231 ATTTAAATAAAAATTTAATTAAATATAAATAAAT
1 ATTTAAATAAAATTTTAATTTAATAAAAATAAAG
1069265 A-TTAAA-AAAATTGATTAATTGTAATAAAAATAAAG
1 ATTTAAATAAAATT--TTAATT-TAATAAAAATAAAG
1069300 ATTTAAATAAAATTTTAATTATAAT
1 ATTTAAATAAAATTTTAATT-TAAT
1069325 TCACGAACAT
Statistics
Matches: 50, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
32 5 0.10
33 5 0.10
34 7 0.14
35 22 0.44
36 5 0.10
37 6 0.12
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (34 bp):
ATTTAAATAAAATTTTAATTTAATAAAAATAAAG
Found at i:1070085 original size:22 final size:23
Alignment explanation
Indices: 1070038--1070098 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 23
1070028 ATATAATAAT
1070038 TAAAAA-AAACAAAAAACAACAA
1 TAAAAAGAAACAAAAAACAACAA
* *
1070060 -AAAAAGAAACAAAAGAGAA-AA
1 TAAAAAGAAACAAAAAACAACAA
*
1070081 TAAAAAGAAGAAAAAAAA
1 TAAAAAGAA-ACAAAAAA
1070099 TCGGGATTGC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
21 7 0.22
22 19 0.59
23 6 0.19
ACGTcount: A:0.82, C:0.07, G:0.08, T:0.03
Consensus pattern (23 bp):
TAAAAAGAAACAAAAAACAACAA
Found at i:1071239 original size:21 final size:21
Alignment explanation
Indices: 1071177--1071241 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 21
1071167 ATAAAATAGG
1071177 ATAATAA-CTAAAAAA-AATA
1 ATAATAATCTAAAAAATAATA
* *
1071196 CTAAAAATGCTTAAAATAATAATA
1 ATAATAAT-C-TAAAA-AATAATA
1071220 ATAATAATCTAAAAAATAATA
1 ATAATAATCTAAAAAATAATA
1071241 A
1 A
1071242 AAATTTAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
19 5 0.14
21 9 0.24
22 10 0.27
23 3 0.08
24 10 0.27
ACGTcount: A:0.66, C:0.06, G:0.02, T:0.26
Consensus pattern (21 bp):
ATAATAATCTAAAAAATAATA
Found at i:1071361 original size:15 final size:16
Alignment explanation
Indices: 1071341--1071371 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1071331 GATGTTGAAG
1071341 AATTATT-ATAAAAAA
1 AATTATTAATAAAAAA
1071356 AATTATTAATAAAAAA
1 AATTATTAATAAAAAA
1071372 GGGTATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AATTATTAATAAAAAA
Found at i:1071604 original size:28 final size:28
Alignment explanation
Indices: 1071580--1071698 Score: 121
Period size: 28 Copynumber: 4.1 Consensus size: 28
1071570 TCAAAACTCC
* *
1071580 AAAATTAAGCTCCAAACCTTCAAACCCT
1 AAAATTAAACCCCAAACCTTCAAACCCT
*
1071608 AAAATTAAACCCCAAACTTTCAAACCCT
1 AAAATTAAACCCCAAACCTTCAAACCCT
* * *
1071636 AAAATTAAACCCTAAACCCTCTGAACCCT
1 AAAATTAAACCCCAAACCTTC-AAACCCT
* * * *
1071665 AAAAATGAAACCCTAAACCCTCTGAACCCT
1 -AAAATTAAACCCCAAACCTTC-AAACCCT
1071695 AAAA
1 AAAA
1071699 ACGAAACTTT
Statistics
Matches: 81, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 43 0.53
29 10 0.12
30 28 0.35
ACGTcount: A:0.45, C:0.32, G:0.03, T:0.19
Consensus pattern (28 bp):
AAAATTAAACCCCAAACCTTCAAACCCT
Found at i:1071619 original size:13 final size:13
Alignment explanation
Indices: 1071528--1071651 Score: 72
Period size: 14 Copynumber: 8.9 Consensus size: 13
1071518 CACGTTTTCT
1071528 TTAAACCCTAAAA
1 TTAAACCCTAAAA
* *
1071541 TCCAAACCCTAAAT
1 T-TAAACCCTAAAA
*
1071555 TTCAAAACCCAAAAA
1 TT--AAACCCTAAAA
*
1071570 TCAAAACTCC-AAAA
1 T-TAAAC-CCTAAAA
* *
1071584 TTAAGCTCC-AAACC
1 TTAAAC-CCTAAA-A
1071598 TTCAAACCCTAAAA
1 TT-AAACCCTAAAA
* *
1071612 TTAAACCCCAAACT
1 TTAAACCCTAAA-A
1071626 TTCAAACCCTAAAA
1 TT-AAACCCTAAAA
1071640 TTAAACCCTAAA
1 TTAAACCCTAAA
1071652 CCCTCTGAAC
Statistics
Matches: 86, Mismatches: 15, Indels: 20
0.71 0.12 0.17
Matches are distributed among these distances:
13 29 0.34
14 30 0.35
15 27 0.31
ACGTcount: A:0.49, C:0.30, G:0.01, T:0.20
Consensus pattern (13 bp):
TTAAACCCTAAAA
Found at i:1071664 original size:16 final size:16
Alignment explanation
Indices: 1071643--1071697 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
1071633 CCTAAAATTA
1071643 AACCCTAAACCCTCTG
1 AACCCTAAACCCTCTG
**
1071659 AACCCTAAA---AATG
1 AACCCTAAACCCTCTG
1071672 AAACCCTAAACCCTCTG
1 -AACCCTAAACCCTCTG
1071689 AACCCTAAA
1 AACCCTAAA
1071698 AACGAAACTT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
13 2 0.06
14 9 0.29
16 18 0.58
17 2 0.06
ACGTcount: A:0.42, C:0.36, G:0.05, T:0.16
Consensus pattern (16 bp):
AACCCTAAACCCTCTG
Found at i:1071741 original size:30 final size:29
Alignment explanation
Indices: 1071596--1071762 Score: 135
Period size: 30 Copynumber: 5.7 Consensus size: 29
1071586 AAGCTCCAAA
* *
1071596 CCTTCAAACCCTAAAATTAAACCCCAAA-
1 CCTTCAAACCCTAAAATCAAACCCTAAAC
* *
1071624 CTTTCAAACCCTAAAATTAAACCCTAAAC
1 CCTTCAAACCCTAAAATCAAACCCTAAAC
* *
1071653 CC-TCTGAACCCTAAAAATGAAACCCTAAAC
1 CCTTC-AAACCCT-AAAATCAAACCCTAAAC
* * **
1071683 CC-TCTGAACCCTAAAAACGAAACTTTAAAC
1 CCTTC-AAACCCTAAAATC-AAACCCTAAAC
* *
1071713 CCTTCAAACCCTAAAATCAAATCCTTAAAA
1 CCTTCAAACCCTAAAATCAAA-CCCTAAAC
* *
1071743 CATCCAAACCCTAAAA-CAAA
1 CCTTCAAACCCTAAAATCAAA
1071763 AACTTCAAAC
Statistics
Matches: 118, Mismatches: 15, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
28 28 0.24
29 18 0.15
30 70 0.59
31 2 0.02
ACGTcount: A:0.46, C:0.32, G:0.02, T:0.19
Consensus pattern (29 bp):
CCTTCAAACCCTAAAATCAAACCCTAAAC
Found at i:1071821 original size:15 final size:15
Alignment explanation
Indices: 1071803--1071889 Score: 58
Period size: 15 Copynumber: 5.8 Consensus size: 15
1071793 CCCTAAAATA
1071803 AAAAATCCTAAACCT
1 AAAAATCCTAAACCT
*
1071818 AAAAAT-CTAAATTTCT
1 AAAAATCCTAAA--CCT
1071834 AAAACA-CCTAAAATCC-
1 AAAA-ATCCT-AAA-CCT
*
1071850 -AAAATCCCAAACCT
1 AAAAATCCTAAACCT
* *
1071864 TAAAATCCAAAACCT
1 AAAAATCCTAAACCT
1071879 AAAAAT-CTAAA
1 AAAAATCCTAAA
1071890 ATTCTAAAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 17
0.72 0.07 0.21
Matches are distributed among these distances:
13 2 0.03
14 13 0.22
15 29 0.50
16 6 0.10
17 5 0.09
18 3 0.05
ACGTcount: A:0.55, C:0.24, G:0.00, T:0.21
Consensus pattern (15 bp):
AAAAATCCTAAACCT
Found at i:1071889 original size:22 final size:23
Alignment explanation
Indices: 1071832--1071891 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 23
1071822 ATCTAAATTT
*
1071832 CTAAAACACCTAAAATCCAAAATC
1 CTAAAA-ATCTAAAATCCAAAATC
* **
1071856 CCAAACCT-TAAAATCCAAAA-C
1 CTAAAAATCTAAAATCCAAAATC
1071877 CTAAAAATCTAAAAT
1 CTAAAAATCTAAAAT
1071892 TCTAAAAACC
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
21 6 0.21
22 18 0.64
24 4 0.14
ACGTcount: A:0.55, C:0.27, G:0.00, T:0.18
Consensus pattern (23 bp):
CTAAAAATCTAAAATCCAAAATC
Found at i:1074409 original size:157 final size:156
Alignment explanation
Indices: 1073943--1074854 Score: 1562
Period size: 156 Copynumber: 5.8 Consensus size: 156
1073933 TAGTTGTTGA
1073943 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAAGAG
1 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAAGAG
*
1074008 TATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTATTTAAAGAAAAATCA
66 TATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAATCA
*
1074073 AGATCAACCAATTAATTAATTATCGA
131 AGATCAACCAATTAATTAATTATCGG
* * *
1074099 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAACTTGAGAAAATTTCCTCACCTCAGGAG
1 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAAGAG
1074164 TATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAATCA
66 TATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAATCA
1074229 AGATCAACCAATTAATTAATTATCGG
131 AGATCAACCAATTAATTAATTATCGG
1074255 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAAGAG
1 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAAGAG
*
1074320 TAATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTATTTAAAGAAAAATC
66 T-ATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAATC
1074385 AAGATCAACCAATTAATTAATTATCGG
130 AAGATCAACCAATTAATTAATTATCGG
*
1074412 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCTCTCACCTCAAGAG
1 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAAGAG
*
1074477 TATGCAAGAAAAACTACTGTTTCACTTGGCAGAGGCTCCGTCGTCGGATTATTTAAAGAAAAATC
66 TATGCAAGAAAAACTACTGTTTCACTT-GCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAATC
*
1074542 AAGATCAACC----AATTAATTATCGA
130 AAGATCAACCAATTAATTAATTATCGG
*
1074565 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAG
1 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAAGAG
1074630 TATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAAAA
66 TATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAG------AA
* * * *
1074695 AAATCAAAATCAGCCAAGTAATTAATTATCAG
125 AAATCAAGATCAACCAATTAATTAATTATCGG
*
1074727 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAG
1 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAAGAG
* *
1074792 TATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAA
66 TATGCAAGAAAAACTACTG-TTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAA
1074855 AAAAAAAATC
Statistics
Matches: 723, Mismatches: 20, Indels: 25
0.94 0.03 0.03
Matches are distributed among these distances:
152 29 0.04
153 102 0.14
156 240 0.33
157 206 0.28
158 15 0.02
162 95 0.13
163 36 0.05
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.29
Consensus pattern (156 bp):
AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAAGAG
TATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAATCA
AGATCAACCAATTAATTAATTATCGG
Found at i:1074874 original size:18 final size:16
Alignment explanation
Indices: 1074853--1074943 Score: 73
Period size: 16 Copynumber: 5.6 Consensus size: 16
1074843 ATTAAAGAAA
1074853 AAAAAAAAAATCAAGAT
1 AAAAAAAAAATCAA-AT
** *
1074870 CAAAATCAAAGTCAAAT
1 -AAAAAAAAAATCAAAT
1074887 AAAAAAAAAATTCAAA-
1 AAAAAAAAAA-TCAAAT
*
1074903 AAAAAAAAAA--AATT
1 AAAAAAAAAATCAAAT
1074917 CAAAAAAAAAAATCAAA-
1 --AAAAAAAAAATCAAAT
1074934 AAAAAAAAAA
1 AAAAAAAAAA
1074944 AAAACAAACC
Statistics
Matches: 59, Mismatches: 8, Indels: 15
0.72 0.10 0.18
Matches are distributed among these distances:
13 2 0.03
15 10 0.17
16 27 0.46
17 7 0.12
18 13 0.22
ACGTcount: A:0.79, C:0.08, G:0.02, T:0.11
Consensus pattern (16 bp):
AAAAAAAAAATCAAAT
Found at i:1074904 original size:1 final size:1
Alignment explanation
Indices: 1074900--1074947 Score: 51
Period size: 1 Copynumber: 48.0 Consensus size: 1
1074890 AAAAAAATTC
*** **
1074900 AAAAAAAAAAAAAAATTCAAAAAAAAAAATCAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1074948 CAAACCTGGA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.90, C:0.04, G:0.00, T:0.06
Consensus pattern (1 bp):
A
Found at i:1074906 original size:14 final size:13
Alignment explanation
Indices: 1074904--1074941 Score: 67
Period size: 13 Copynumber: 2.8 Consensus size: 13
1074894 AAATTCAAAA
1074904 AAAAAAAAAAATTC
1 AAAAAAAAAAA-TC
1074918 AAAAAAAAAAATC
1 AAAAAAAAAAATC
1074931 AAAAAAAAAAA
1 AAAAAAAAAAA
1074942 AAAAAACAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.87, C:0.05, G:0.00, T:0.08
Consensus pattern (13 bp):
AAAAAAAAAAATC
Found at i:1074922 original size:31 final size:31
Alignment explanation
Indices: 1074887--1074945 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
1074877 AAAGTCAAAT
*
1074887 AAAAAAAAAATTCAAAAAAAAAAAAAAATTC
1 AAAAAAAAAAATCAAAAAAAAAAAAAAATTC
1074918 AAAAAAAAAAATCAAAAAAAAAAAAAAA
1 AAAAAAAAAAATCAAAAAAAAAAAAAAA
1074946 AACAAACCTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.86, C:0.05, G:0.00, T:0.08
Consensus pattern (31 bp):
AAAAAAAAAAATCAAAAAAAAAAAAAAATTC
Found at i:1074942 original size:14 final size:15
Alignment explanation
Indices: 1074887--1074942 Score: 71
Period size: 14 Copynumber: 3.7 Consensus size: 15
1074877 AAAGTCAAAT
1074887 AAAAAAAAAATTCAAAAA
1 AAAAAAAAAATTC---AA
1074905 AAAAAAAAAATTC-A
1 AAAAAAAAAATTCAA
1074919 AAAAAAAAAA-TCAA
1 AAAAAAAAAATTCAA
1074933 AAAAAAAAAA
1 AAAAAAAAAA
1074943 AAAAACAAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
13 2 0.05
14 22 0.59
18 13 0.35
ACGTcount: A:0.86, C:0.05, G:0.00, T:0.09
Consensus pattern (15 bp):
AAAAAAAAAATTCAA
Found at i:1074944 original size:18 final size:18
Alignment explanation
Indices: 1074850--1074947 Score: 76
Period size: 18 Copynumber: 5.5 Consensus size: 18
1074840 TTAATTAAAG
*
1074850 AAAAAAAAAAAAATCAAG
1 AAAAAAAAAAAAATCAAA
** ** *
1074868 ATCAAAATCAAAGTC-AA
1 AAAAAAAAAAAAATCAAA
* *
1074885 ATAAAAAAAAAATTCAAA
1 AAAAAAAAAAAAATCAAA
*
1074903 AAAAAAAAAAAATTCAAA
1 AAAAAAAAAAAAATCAAA
1074921 AAAAAAAATCAAAAA--AAA
1 AAAAAAAA--AAAAATCAAA
1074939 AAAAAAAAA
1 AAAAAAAAA
1074948 CAAACCTGGA
Statistics
Matches: 65, Mismatches: 12, Indels: 8
0.76 0.14 0.09
Matches are distributed among these distances:
16 1 0.02
17 12 0.18
18 48 0.74
20 4 0.06
ACGTcount: A:0.81, C:0.07, G:0.02, T:0.10
Consensus pattern (18 bp):
AAAAAAAAAAAAATCAAA
Found at i:1075286 original size:18 final size:19
Alignment explanation
Indices: 1075243--1075288 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
1075233 AGAACACCGG
*
1075243 TGCCGGATTCTGGAAATGT
1 TGCCGGAATCTGGAAATGT
* *
1075262 CGCCGGAATCTGG-AATTT
1 TGCCGGAATCTGGAAATGT
1075280 TGCCGGAAT
1 TGCCGGAAT
1075289 AATGGCCGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
18 12 0.52
19 11 0.48
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (19 bp):
TGCCGGAATCTGGAAATGT
Found at i:1075918 original size:3 final size:3
Alignment explanation
Indices: 1075910--1075938 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
1075900 ATCTTACAAA
1075910 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1075939 ATATATAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:1076051 original size:18 final size:18
Alignment explanation
Indices: 1076030--1076066 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
1076020 TATAAAATAC
*
1076030 AAAAGAAAA-GAAAAAAA
1 AAAAAAAAAGGAAAAAAA
1076047 AAAAAAAAAGGAAAAAAA
1 AAAAAAAAAGGAAAAAAA
1076065 AA
1 AA
1076067 TAATAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAGGAAAAAAA
Found at i:1076127 original size:20 final size:20
Alignment explanation
Indices: 1076109--1076187 Score: 140
Period size: 20 Copynumber: 4.0 Consensus size: 20
1076099 CCATTTGGGC
* *
1076109 CAGGCCCAAATGATCTGGGT
1 CAGGCCCAATTGATCCGGGT
1076129 CAGGCCCAATTGATCCGGGT
1 CAGGCCCAATTGATCCGGGT
1076149 CAGGCCCAATTGATCCGGGT
1 CAGGCCCAATTGATCCGGGT
1076169 CAGGCCCAATTGATCCGGG
1 CAGGCCCAATTGATCCGGG
1076188 CCCAGACCTG
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 57 1.00
ACGTcount: A:0.22, C:0.29, G:0.30, T:0.19
Consensus pattern (20 bp):
CAGGCCCAATTGATCCGGGT
Found at i:1076300 original size:7 final size:7
Alignment explanation
Indices: 1076290--1076404 Score: 85
Period size: 7 Copynumber: 16.4 Consensus size: 7
1076280 CAACTCAACA
1076290 TTTTTAT
1 TTTTTAT
*
1076297 TTTTGAT
1 TTTTTAT
1076304 TTTTT-T
1 TTTTTAT
*
1076310 TTTTTGT
1 TTTTTAT
1076317 TTTTATAT
1 TTTT-TAT
1076325 TTTTTAT
1 TTTTTAT
1076332 TTTTT-T
1 TTTTTAT
*
1076338 TTTATTTT
1 TTT-TTAT
1076346 TTTTTGAT
1 TTTTT-AT
*
1076354 TTTTT-G
1 TTTTTAT
*
1076360 TTTTTGT
1 TTTTTAT
*
1076367 TTTTTGT
1 TTTTTAT
*
1076374 TTTTTGTT
1 TTTTT-AT
*
1076382 TTTTTGT
1 TTTTTAT
*
1076389 TTTTTGT
1 TTTTTAT
1076396 TTTTT-T
1 TTTTTAT
1076402 TTT
1 TTT
1076405 GGCCGAAGCT
Statistics
Matches: 93, Mismatches: 8, Indels: 15
0.80 0.07 0.13
Matches are distributed among these distances:
6 19 0.20
7 52 0.56
8 22 0.24
ACGTcount: A:0.06, C:0.00, G:0.08, T:0.86
Consensus pattern (7 bp):
TTTTTAT
Found at i:1076307 original size:1 final size:1
Alignment explanation
Indices: 1076303--1076404 Score: 87
Period size: 1 Copynumber: 102.0 Consensus size: 1
1076293 TTATTTTTGA
* * * * * ** * *
1076303 TTTTTTTTTTTTGTTTTTATATTTTTTATTTTTTTTTTATTTTTTTTTGATTTTTTGTTTTTGTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * *
1076368 TTTTGTTTTTTGTTTTTTTGTTTTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1076405 GGCCGAAGCT
Statistics
Matches: 76, Mismatches: 25, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 76 1.00
ACGTcount: A:0.05, C:0.00, G:0.08, T:0.87
Consensus pattern (1 bp):
T
Found at i:1076333 original size:28 final size:26
Alignment explanation
Indices: 1076290--1076404 Score: 115
Period size: 29 Copynumber: 4.2 Consensus size: 26
1076280 CAACTCAACA
*
1076290 TTTTTATTTTTGATTTTTTTTTTTTGT
1 TTTTTATTTTTTATTTTTTTTTTTT-T
1076317 TTTTATATTTTTTATTTTTTTTTTATTTT
1 TTTT-TATTTTTTA-TTTTTTTTT-TTTT
* *
1076346 TTTTTGATTTTTTGTTTTTGTTTTTTGT
1 TTTTT-ATTTTTTATTTTT-TTTTTTTT
* *
1076374 TTTTTGTTTTTT-TGTTTTTTGTTTTT
1 TTTTTATTTTTTAT-TTTTTTTTTTTT
1076400 TTTTT
1 TTTTT
1076405 GGCCGAAGCT
Statistics
Matches: 76, Mismatches: 6, Indels: 13
0.80 0.06 0.14
Matches are distributed among these distances:
26 12 0.16
27 14 0.18
28 22 0.29
29 25 0.33
30 3 0.04
ACGTcount: A:0.06, C:0.00, G:0.08, T:0.86
Consensus pattern (26 bp):
TTTTTATTTTTTATTTTTTTTTTTTT
Found at i:1076457 original size:41 final size:40
Alignment explanation
Indices: 1076412--1077065 Score: 916
Period size: 41 Copynumber: 16.0 Consensus size: 40
1076402 TTTGGCCGAA
*
1076412 GCTCCTCTAAACAGAGACTCAACG-ACTTTTG-AAAGTAAATT
1 GCTCCTCTAAACAGAG--GCAACGAAC-TTTGAAAAGTAAATT
* *
1076453 GCTCCTCTAAACAGAGGCAACGGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
1076493 GCTCCTCTAAACAGAGGCAAC-ACGACTTTGGAAAA-TAAATT
1 GCTCCTCTAAACAGAGGCAACGA--ACTTT-GAAAAGTAAATT
*
1076534 GCTCCTCTAAACAGAGGCAACGGAACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCAAC-GAACTTTGAAAAGTAAATT
1076575 GCTCCTCTAAACAGAGGCACCACG-ACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCA--ACGAAC-TTTGAAAAGTAAATT
1076617 GCTCCTCTAAACAGAGGCAACGAAACTTTGAAAA-TAAATT
1 GCTCCTCTAAACAGAGGCAACG-AACTTTGAAAAGTAAATT
1076657 GCTCCTCTAAACAGAGGCACCACG-ACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCA--ACGAAC-TTTGAAAAGTAAATT
*
1076699 GCTCCTCTAAACAGAGGCAACGGAACTTTGAAAAAT-AATT
1 GCTCCTCTAAACAGAGGCAAC-GAACTTTGAAAAGTAAATT
1076739 GCTCCTCTAAACAGAGGCACCACG-ACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCA--ACGAAC-TTTGAAAAGTAAATT
*
1076781 GCTCCTCTAAACAGAGGCAACGGAACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCAAC-GAACTTTGAAAAGTAAATT
1076822 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
*
1076862 GCTCCTCTAAACAGAGGCAACGGAACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCAAC-GAACTTTGAAAAGTAAATT
1076903 GCTCCTCTAAACAGAGGCACCACG-ACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCA--ACGAAC-TTTGAAAAGTAAATT
*
1076945 GCTCCTCTAAACAGAGGCAACGGAACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCAAC-GAACTTTGAAAAGTAAATT
1076986 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
*
1077026 GCTCCTCTAAACAGAGGCACCACG-ACTTTGGAAAGTAAAT
1 GCTCCTCTAAACAGAGGCA--ACGAACTTTGAAAAGTAAAT
1077066 ACTCCTAGAC
Statistics
Matches: 567, Mismatches: 13, Indels: 66
0.88 0.02 0.10
Matches are distributed among these distances:
39 9 0.02
40 175 0.31
41 242 0.43
42 136 0.24
43 5 0.01
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (40 bp):
GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
Found at i:1076601 original size:82 final size:83
Alignment explanation
Indices: 1076412--1077044 Score: 1099
Period size: 82 Copynumber: 7.7 Consensus size: 83
1076402 TTTGGCCGAA
* * *
1076412 GCTCCTCTAAACAGAGACTCAACGACTTTTG-AAAGTAAATTGCTCCTCTAAACAGAGGCAACGG
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGG
* *
1076476 -ACTTTGGAAAGTAAATT
66 AACTTTGAAAAATAAATT
* *
1076493 GCTCCTCTAAACAGAGGCAACACGACTTTGGAAAA-TAAATTGCTCCTCTAAACAGAGGCAACGG
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGG
1076557 AACTTTGAAAAATAAATT
66 AACTTTGAAAAATAAATT
*
1076575 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGG
1076640 AACTTTG-AAAATAAATT
66 AACTTTGAAAAATAAATT
1076657 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGG
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGG
1076722 AACTTTGAAAAAT-AATT
66 AACTTTGAAAAATAAATT
1076739 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGG
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGG
1076804 AACTTTGAAAAATAAATT
66 AACTTTGAAAAATAAATT
1076822 GCTCCTCTAAACAGAGGCA--ACGAAC-TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACG
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACG
1076884 GAACTTTGAAAAATAAATT
65 GAACTTTGAAAAATAAATT
1076903 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGG
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGG
1076968 AACTTTGAAAAATAAATT
66 AACTTTGAAAAATAAATT
1076986 GCTCCTCTAAACAGAGGCA--ACGAAC-TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA
1077045 CCACGACTTT
Statistics
Matches: 531, Mismatches: 11, Indels: 20
0.94 0.02 0.04
Matches are distributed among these distances:
81 170 0.32
82 220 0.41
83 141 0.27
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (83 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGG
AACTTTGAAAAATAAATT
Found at i:1078101 original size:9 final size:8
Alignment explanation
Indices: 1078077--1078155 Score: 63
Period size: 8 Copynumber: 9.2 Consensus size: 8
1078067 TCCTTTTTCA
*
1078077 TTCACTTT
1 TTCATTTT
*
1078085 TTCTTTTT
1 TTCATTTT
1078093 TTCCATTTT
1 TT-CATTTT
1078102 TTCCATTTTTT
1 TT-CA--TTTT
1078113 TTCA-TTT
1 TTCATTTT
1078120 TTCATCATTT
1 TTCAT--TTT
1078130 TTCATTTT
1 TTCATTTT
1078138 TTCCA-TTT
1 TT-CATTTT
1078146 TTCATTTT
1 TTCATTTT
1078154 TT
1 TT
1078156 TTTATTTTTT
Statistics
Matches: 60, Mismatches: 3, Indels: 16
0.76 0.04 0.20
Matches are distributed among these distances:
7 9 0.15
8 23 0.38
9 12 0.20
10 10 0.17
11 6 0.10
ACGTcount: A:0.11, C:0.18, G:0.00, T:0.71
Consensus pattern (8 bp):
TTCATTTT
Found at i:1078156 original size:9 final size:9
Alignment explanation
Indices: 1078082--1078186 Score: 78
Period size: 10 Copynumber: 11.8 Consensus size: 9
1078072 TTTCATTCAC
1078082 TTTTTC-TT
1 TTTTTCATT
1078090 TTTTTCCATT
1 TTTTT-CATT
*
1078100 TTTTCCATTT
1 TTTTTCA-TT
1078110 TTTTTCA--
1 TTTTTCATT
*
1078117 TTTTTCATCA
1 TTTTTCAT-T
1078127 TTTTTCATT
1 TTTTTCATT
*
1078136 TTTTCCA--
1 TTTTTCATT
1078143 TTTTTCATTT
1 TTTTTCA-TT
*
1078153 TTTTTTATT
1 TTTTTCATT
1078162 TTTTT-ATT
1 TTTTTCATT
*
1078170 TTTTTGTATT
1 TTTTT-CATT
1078180 TTTTTCA
1 TTTTTCA
1078187 AGCATAGTAT
Statistics
Matches: 79, Mismatches: 7, Indels: 21
0.74 0.07 0.20
Matches are distributed among these distances:
7 13 0.16
8 13 0.16
9 17 0.22
10 36 0.46
ACGTcount: A:0.11, C:0.12, G:0.01, T:0.75
Consensus pattern (9 bp):
TTTTTCATT
Found at i:1078162 original size:17 final size:17
Alignment explanation
Indices: 1078110--1078174 Score: 69
Period size: 17 Copynumber: 3.8 Consensus size: 17
1078100 TTTTCCATTT
**
1078110 TTTTTCATTTTTCATCA
1 TTTTTCATTTTTTTTCA
*
1078127 TTTTTCA-TTTTTTCCA
1 TTTTTCATTTTTTTTCA
*
1078143 TTTTTCATTTTTTTTTA
1 TTTTTCATTTTTTTTCA
*
1078160 TTTTTTTATTTTTTT
1 -TTTTTCATTTTTTT
1078175 GTATTTTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
16 13 0.32
17 14 0.35
18 13 0.32
ACGTcount: A:0.12, C:0.11, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTTCATTTTTTTTCA
Found at i:1078173 original size:26 final size:25
Alignment explanation
Indices: 1078099--1078172 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 25
1078089 TTTTTTCCAT
1078099 TTTTTCCATTTTTTTTCATTTTTCATCA
1 TTTTT-CA-TTTTTTT-ATTTTTCATCA
* **
1078127 TTTTTCATTTTTTCCATTTTTCATTT
1 TTTTTCATTTTTT-TATTTTTCATCA
*
1078153 TTTTTTATTTTTTTATTTTT
1 TTTTTCATTTTTTTATTTTT
1078173 TTGTATTTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
25 6 0.15
26 27 0.68
27 2 0.05
28 5 0.12
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (25 bp):
TTTTTCATTTTTTTATTTTTCATCA
Found at i:1078184 original size:18 final size:18
Alignment explanation
Indices: 1078143--1078184 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
1078133 ATTTTTTCCA
* *
1078143 TTTTTCATTTTTTTTTAT
1 TTTTTTATTTTTTTGTAT
1078161 TTTTTTATTTTTTTGTAT
1 TTTTTTATTTTTTTGTAT
1078179 TTTTTT
1 TTTTTT
1078185 CAAGCATAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.10, C:0.02, G:0.02, T:0.86
Consensus pattern (18 bp):
TTTTTTATTTTTTTGTAT
Found at i:1079856 original size:18 final size:18
Alignment explanation
Indices: 1079845--1079914 Score: 92
Period size: 18 Copynumber: 3.9 Consensus size: 18
1079835 AAAATCAAAG
*
1079845 TCAAATAAAAAAAAAAAT
1 TCAAAAAAAAAAAAAAAT
1079863 TCAAAAAAAAAAAAAAAT
1 TCAAAAAAAAAAAAAAAT
1079881 TCAAAAAAAAAATCAAAAA-
1 TCAAAAAAAAAA--AAAAAT
1079900 --AAAAAAAAAAAAAAA
1 TCAAAAAAAAAAAAAAA
1079915 ACAAACCTGG
Statistics
Matches: 49, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
15 5 0.10
17 10 0.20
18 29 0.59
20 5 0.10
ACGTcount: A:0.84, C:0.06, G:0.00, T:0.10
Consensus pattern (18 bp):
TCAAAAAAAAAAAAAAAT
Done.