Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 14 of 211
Found at i:4745341 original size:15 final size:17
Alignment explanation
Indices: 4745311--4745343 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
4745301 TGACAAAAGA
4745311 AAAATAAGACAAAAACC
1 AAAATAAGACAAAAACC
4745328 AAAA-AAGA-AAAAACC
1 AAAATAAGACAAAAACC
4745343 A
1 A
4745344 CGTGTTATGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 4 0.25
17 4 0.25
ACGTcount: A:0.76, C:0.15, G:0.06, T:0.03
Consensus pattern (17 bp):
AAAATAAGACAAAAACC
Found at i:4745480 original size:18 final size:16
Alignment explanation
Indices: 4745435--4745481 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
4745425 ACATATTTGG
4745435 GATA-AATTTTAAAAT
1 GATATAATTTTAAAAT
*
4745450 GATATATATTTTAAAGT
1 GATATA-ATTTTAAAAT
4745467 GATGCATAATTTTAA
1 GAT--ATAATTTTAA
4745482 TTTAATCCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 4 0.15
16 1 0.04
17 12 0.44
18 7 0.26
19 3 0.11
ACGTcount: A:0.45, C:0.02, G:0.11, T:0.43
Consensus pattern (16 bp):
GATATAATTTTAAAAT
Found at i:4751480 original size:55 final size:55
Alignment explanation
Indices: 4751396--4751520 Score: 187
Period size: 55 Copynumber: 2.3 Consensus size: 55
4751386 TAGACGTGCT
*
4751396 ACATAACAATCGATTTAAACATATAAACAATCTACTCAAAAGAAGCAACATTCCA
1 ACATAACAATCGATTTAAACATATAAACAATCGACTCAAAAGAAGCAACATTCCA
* * * * *
4751451 ACATAACAATTGATTTAAACGTATAAACAATCGATTCAAAAGAAGCAATATTTCA
1 ACATAACAATCGATTTAAACATATAAACAATCGACTCAAAAGAAGCAACATTCCA
*
4751506 ACATAAAAATCGATT
1 ACATAACAATCGATT
4751521 CAAAAGAAGG
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
55 62 1.00
ACGTcount: A:0.50, C:0.18, G:0.07, T:0.25
Consensus pattern (55 bp):
ACATAACAATCGATTTAAACATATAAACAATCGACTCAAAAGAAGCAACATTCCA
Found at i:4755603 original size:17 final size:17
Alignment explanation
Indices: 4755581--4755617 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
4755571 AGATGCTACA
4755581 TGAAATAGTTAAAAATC
1 TGAAATAGTTAAAAATC
4755598 TGAAATAGTTAAAAATC
1 TGAAATAGTTAAAAATC
4755615 TGA
1 TGA
4755618 CTTTCGCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.51, C:0.05, G:0.14, T:0.30
Consensus pattern (17 bp):
TGAAATAGTTAAAAATC
Found at i:4762487 original size:10 final size:11
Alignment explanation
Indices: 4762467--4762491 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4762457 ATTATATTTC
4762467 AAAAAGAAAAA
1 AAAAAGAAAAA
4762478 AAAAAGAAAAA
1 AAAAAGAAAAA
4762489 AAA
1 AAA
4762492 TGATGAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:4763253 original size:54 final size:54
Alignment explanation
Indices: 4763164--4763267 Score: 131
Period size: 54 Copynumber: 1.9 Consensus size: 54
4763154 GGGGAATAAG
* * **
4763164 ATTTGTGGCTTTAATCTGCTCTACTGTAACTTCA-GGAAGATAAGATTCGCCATA
1 ATTTGTAGCTTTAATCTGCTCCACTACAACTTCAGGGAA-ATAAGATTCGCCATA
*
4763218 ATTTGTAGCTTTAATCTGTTCCACTACAA-TGTCAGGGAAATAAGATTCGC
1 ATTTGTAGCTTTAATCTGCTCCACTACAACT-TCAGGGAAATAAGATTCGC
4763268 TATCTTCAGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
53 1 0.02
54 38 0.88
55 4 0.09
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (54 bp):
ATTTGTAGCTTTAATCTGCTCCACTACAACTTCAGGGAAATAAGATTCGCCATA
Found at i:4763401 original size:143 final size:143
Alignment explanation
Indices: 4763138--4763934 Score: 1035
Period size: 143 Copynumber: 5.6 Consensus size: 143
4763128 CTTCAACCCA
* ** * * * *
4763138 CTCCACTGCAACTTCAGGG-GAATAAGATTTGTGGCTTTAATCTGCTCTACTGTAACTTCAGGAA
1 CTCCGCTGCAACTTCAGGGAG-ATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAA
* *
4763202 GATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTACAATG-TCAGGGAAATAAGATTC
65 GATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCT-AGGGAAATAAGATTC
* *
4763266 GCTATCTTCAGTCTA
129 GCTGTCTTCAGTCTG
* * * * * *
4763281 CTCCGTTGCAACTTCAGGGATATAAGGCTAGTGGCTTCAATTTGCTCCACTGCAACTTTAAGAAG
1 CTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAG
* * * * * *
4763346 AAAAAATTCGCCATAATTTTTTGCTTTAATCTGTTCCACTGCAACGCTAGAGAAATAAGATTCTC
66 ATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCTAGGGAAATAAGATTCGC
*
4763411 TATCTTCAGTCTG
131 TGTCTTCAGTCTG
* * *
4763424 CTCCGCTGCAACTTCAGGGGGATAAGGCTGGTGGCTTTAATCTGTTCCACTGCAACTTCAGGAAG
1 CTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAG
* ** *
4763489 ATAAGA-TCTGTCATAATTTGTAGCTTTAATCTGTTCCGTTGTAACGCTAGGGAAATAAGATTCG
66 ATAAGATTC-GCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCTAGGGAAATAAGATTCG
*
4763553 TTGTCTTCAGTCTG
130 CTGTCTTCAGTCTG
* * *
4763567 CTCTGCTGCAACTTTAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTTAGGAAG
1 CTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAG
* * * * *
4763632 ATAAGATTCGCCATAATTTGT-GACTTTAATCTATTCCGCTGCAATGCCAGGGAAATAAGATTTG
66 ATAAGATTCGCCATAATTTGTAG-CTTTAATCTGTTCCACTGCAACGCTAGGGAAATAAGATTCG
4763696 CTGTCTTCAGTCTG
130 CTGTCTTCAGTCTG
* * * *
4763710 CTCCACTGCAACTTCAGGGAGATAAGACTGGTGGCTTCAATATGCTCCACTGCAACTTTAGGAAG
1 CTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAG
* * * * * *
4763775 ATAAGATCCACCATAATTTGTAGCTTTAATTTGTTTCACTGCAACTCCAGGGAAATAAGATTCGC
66 ATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCTAGGGAAATAAGATTCGC
*
4763840 TGTCTTCAGTCGG
131 TGTCTTCAGTCTG
* ** *
4763853 CTCTGCTGCAACTTCAGGGAGATAAGGCTAATGGCTTCAATCTGCTCCACTGTAACTTCAGGAAG
1 CTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAG
4763918 ATAAGATTCGCCATAAT
66 ATAAGATTCGCCATAAT
4763935 GACTTCAATC
Statistics
Matches: 567, Mismatches: 81, Indels: 12
0.86 0.12 0.02
Matches are distributed among these distances:
142 3 0.01
143 560 0.99
144 4 0.01
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (143 bp):
CTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAG
ATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCTAGGGAAATAAGATTCGC
TGTCTTCAGTCTG
Found at i:4763728 original size:45 final size:45
Alignment explanation
Indices: 4763679--4763782 Score: 122
Period size: 44 Copynumber: 2.3 Consensus size: 45
4763669 GCTGCAATGC
* * * *
4763679 CAGGGAAATAAGATTTGCTGTCTTCAGTCTGCTCCACTGCAACTT
1 CAGGGAAATAAGATCTGCTGGCTTCAATATGCTCCACTGCAACTT
* *
4763724 CAGGGAGATAAGA-CTGGTGGCTTCAATATGCTCCACTGCAACTT
1 CAGGGAAATAAGATCTGCTGGCTTCAATATGCTCCACTGCAACTT
*
4763768 TA-GGAAGATAAGATC
1 CAGGGAA-ATAAGATC
4763783 CACCATAATT
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
43 3 0.06
44 33 0.67
45 13 0.27
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (45 bp):
CAGGGAAATAAGATCTGCTGGCTTCAATATGCTCCACTGCAACTT
Found at i:4764850 original size:27 final size:27
Alignment explanation
Indices: 4764795--4764856 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 27
4764785 CCTTGGCCTC
* *
4764795 TCCTTTTTCTTTTTTCTTTCTGTTCTT
1 TCCTTTTTCTTTTTTATTTCTATTCTT
4764822 TCCTTTTTCCTTATTTTATTT-TATT-TT
1 TCCTTTTT-CTT-TTTTATTTCTATTCTT
*
4764849 TCTTTTTT
1 TCCTTTTT
4764857 TACAAAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
27 17 0.57
28 6 0.20
29 7 0.23
ACGTcount: A:0.05, C:0.18, G:0.02, T:0.76
Consensus pattern (27 bp):
TCCTTTTTCTTTTTTATTTCTATTCTT
Found at i:4765217 original size:30 final size:30
Alignment explanation
Indices: 4765183--4765243 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
4765173 GATTTAATCC
4765183 ATTTTACTTCATCCATCTTCAGCTCAGCCG
1 ATTTTACTTCATCCATCTTCAGCTCAGCCG
4765213 ATTTTACTTCATCCATCTTCAGCTCAGCCG
1 ATTTTACTTCATCCATCTTCAGCTCAGCCG
4765243 A
1 A
4765244 AGGGAAGGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.21, C:0.33, G:0.10, T:0.36
Consensus pattern (30 bp):
ATTTTACTTCATCCATCTTCAGCTCAGCCG
Found at i:4770361 original size:27 final size:26
Alignment explanation
Indices: 4770324--4770377 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 26
4770314 CCCGAAATAA
4770324 ATATATATCCT-CCATAACACACCAAT
1 ATATATATCCTCCCA-AACACACCAAT
4770350 ATATCATATCCTCCCAAACACACCAAT
1 ATAT-ATATCCTCCCAAACACACCAAT
4770377 A
1 A
4770378 AGGCATTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
26 4 0.15
27 19 0.73
28 3 0.12
ACGTcount: A:0.43, C:0.33, G:0.00, T:0.24
Consensus pattern (26 bp):
ATATATATCCTCCCAAACACACCAAT
Found at i:4770854 original size:3 final size:3
Alignment explanation
Indices: 4770846--4770875 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
4770836 TTACAATCAT
4770846 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4770876 AAAAATTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:4771966 original size:18 final size:19
Alignment explanation
Indices: 4771931--4771969 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
4771921 CAAGTCTATT
*
4771931 AAAAAACAATAAGTAAATA
1 AAAAAACAAAAAGTAAATA
*
4771950 AAAAAAGAAAAAG-AAATA
1 AAAAAACAAAAAGTAAATA
4771968 AA
1 AA
4771970 TATTAAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.79, C:0.03, G:0.08, T:0.10
Consensus pattern (19 bp):
AAAAAACAAAAAGTAAATA
Found at i:4776365 original size:24 final size:23
Alignment explanation
Indices: 4776336--4776381 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
4776326 ATTTTAAATT
4776336 TTTATAAATTT-TTTATGAATTTTG
1 TTTAT-AATTTGTTTAT-AATTTTG
*
4776360 TTTATATTTTGTTTATAATTTT
1 TTTATAATTTGTTTATAATTTT
4776382 TAATAACTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (23 bp):
TTTATAATTTGTTTATAATTTTG
Found at i:4776368 original size:11 final size:12
Alignment explanation
Indices: 4776336--4776381 Score: 60
Period size: 11 Copynumber: 3.9 Consensus size: 12
4776326 ATTTTAAATT
*
4776336 TTTATAAATTT-
1 TTTATAATTTTG
4776347 TTTATGAATTTTG
1 TTTAT-AATTTTG
4776360 TTTAT-ATTTTG
1 TTTATAATTTTG
4776371 TTTATAATTTT
1 TTTATAATTTT
4776382 TAATAACTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
11 16 0.52
12 10 0.32
13 5 0.16
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (12 bp):
TTTATAATTTTG
Found at i:4778388 original size:17 final size:17
Alignment explanation
Indices: 4778366--4778403 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
4778356 CCAGGTGTTC
*
4778366 ATTTTCTTGAAAGAATA
1 ATTTTCTTCAAAGAATA
4778383 ATTTTCTTCAAAGAATA
1 ATTTTCTTCAAAGAATA
4778400 ATTT
1 ATTT
4778404 GGGTTTGAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (17 bp):
ATTTTCTTCAAAGAATA
Found at i:4779548 original size:14 final size:15
Alignment explanation
Indices: 4779523--4779551 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4779513 ACACATTATA
4779523 TTCTATATATATAGT
1 TTCTATATATATAGT
4779538 TTCTA-ATATATAGT
1 TTCTATATATATAGT
4779552 ATGCTAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.52
Consensus pattern (15 bp):
TTCTATATATATAGT
Found at i:4787610 original size:3 final size:3
Alignment explanation
Indices: 4787602--4787626 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
4787592 ATTAAAAGTG
4787602 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
4787627 CAACAACGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:4792249 original size:7 final size:7
Alignment explanation
Indices: 4792237--4792264 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
4792227 AAATAATATA
4792237 AATAATT
1 AATAATT
4792244 AATAATT
1 AATAATT
4792251 AATAATT
1 AATAATT
4792258 AATAATT
1 AATAATT
4792265 TGGAATATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
AATAATT
Found at i:4792380 original size:9 final size:9
Alignment explanation
Indices: 4792368--4792392 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
4792358 AATTTTTAAA
4792368 TAATAATAT
1 TAATAATAT
4792377 TAATAATAT
1 TAATAATAT
4792386 TAATAAT
1 TAATAAT
4792393 GTCATAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
TAATAATAT
Found at i:4793023 original size:44 final size:44
Alignment explanation
Indices: 4792960--4793048 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
4792950 AGTATATTAG
*
4792960 CCTTCTTGCCCAATTTCTTGAAATCCGAAATCCCTAAATCGCCT
1 CCTTCTTGCCCAATTTCTTGAAATCCCAAATCCCTAAATCGCCT
*
4793004 CCTTCTTGCCGAATTTCTTGAAATCCCAAATCCCTAAATCGCCT
1 CCTTCTTGCCCAATTTCTTGAAATCCCAAATCCCTAAATCGCCT
4793048 C
1 C
4793049 TTTTCTCCTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.25, C:0.35, G:0.09, T:0.31
Consensus pattern (44 bp):
CCTTCTTGCCCAATTTCTTGAAATCCCAAATCCCTAAATCGCCT
Found at i:4794983 original size:34 final size:35
Alignment explanation
Indices: 4794925--4795011 Score: 140
Period size: 34 Copynumber: 2.5 Consensus size: 35
4794915 TAAAGTTATA
* *
4794925 TTTTAAATATTTTATTTTATTTTAATCATGAATTT
1 TTTTAAATATTTTATTTTATTTTAATCACGAATAT
4794960 TTTTAAATATTTTA-TTTATTTTAATCACGAATAT
1 TTTTAAATATTTTATTTTATTTTAATCACGAATAT
*
4794994 TTTTAAATATTTTTTTTT
1 TTTTAAATATTTTATTTT
4795012 TAAAGTTCAA
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
34 31 0.65
35 17 0.35
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.63
Consensus pattern (35 bp):
TTTTAAATATTTTATTTTATTTTAATCACGAATAT
Found at i:4795073 original size:9 final size:9
Alignment explanation
Indices: 4795021--4795076 Score: 57
Period size: 9 Copynumber: 6.7 Consensus size: 9
4795011 TTAAAGTTCA
4795021 AATTT-CAT
1 AATTTACAT
* *
4795029 AACTTACGT
1 AATTTACAT
4795038 AATTTACAT
1 AATTTACAT
*
4795047 AACTTACAT
1 AATTTACAT
4795056 -A-TT-CAT
1 AATTTACAT
4795062 AATTTACAT
1 AATTTACAT
4795071 AATTTA
1 AATTTA
4795077 AATTTATAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
6 3 0.08
7 3 0.08
8 7 0.18
9 26 0.67
ACGTcount: A:0.41, C:0.14, G:0.02, T:0.43
Consensus pattern (9 bp):
AATTTACAT
Found at i:4796587 original size:11 final size:11
Alignment explanation
Indices: 4796567--4796600 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
4796557 ATAAAAATTT
4796567 TAAA-TTTTTA
1 TAAATTTTTTA
4796577 TAAATTTTTTA
1 TAAATTTTTTA
*
4796588 TGAATTTTTTA
1 TAAATTTTTTA
4796599 TA
1 TA
4796601 TTCTGTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 4 0.19
11 17 0.81
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (11 bp):
TAAATTTTTTA
Found at i:4801689 original size:236 final size:236
Alignment explanation
Indices: 4801213--4802396 Score: 1778
Period size: 236 Copynumber: 5.0 Consensus size: 236
4801203 GGCTATACCA
* *
4801213 GCAGTACTTTTCTGAGTGTGTTGTCTTTCTTATAGTGAACACAT-GTGGAAACACCC-TTTTACT
1 GCAGTACTTTTCTGAGTGTGTTGTC-TTCTTACAGTGAACACATGGTGGAAACACCCTTTTTGCT
4801276 TCATCTCTTCCTGGTTTGGACTTCTCCTATTGTG-CAAGGGCTTTTTGCCTTTTACACTCAAACT
65 TCATCTCTTCCTGG-TT-GAC-TCTCCTATTGTGCCAA-GGCTTTTTGCCTTTTACACTCAAACT
*
4801340 CGAAG-CCTCAGCT-GCTTTAGCCTGGAAAGCGCAGCTTCAGGATTTTCTTCCTGCCTATTTTCC
126 CG-AGCCCTCA-CTGGCTTTAGCCTGGAAA--GCAGCTTCAGGATTTTCTTCCTGCCTATTTGCC
*
4801403 CTTCATTTT-TCAAGTGCATACAGGAGTTTATCAGCTCAGACAATGAAATG
187 C-TCCTTTTCTCAAGTGCATACAGGAGTTTATCAGCTCAGACAATGAAATG
*
4801453 GCAAGTACTTTTCTGA-TGTGTTATCTTCTTACAGTGAACATCATGGTGGAAAACACCC-TTTTG
1 GC-AGTACTTTTCTGAGTGTGTTGTCTTCTTACAGTGAACA-CATGGTGG-AAACACCCTTTTTG
4801516 CTTCATCTCTTCCTGGTTGGACTC-CCTATTGTGCCAAGGCTTTTTGCCTTTTACACTCAAACTC
63 CTTCATCTCTTCCTGGTT-GACTCTCCTATTGTGCCAAGGCTTTTTGCCTTTTACACTCAAACTC
*
4801580 GACCCCT-ACTGGCTTTAGCCTGGAAAGCAGCTTCAGGATTTTCTTCCTGCCTATTTGCCCTCC-
127 GAGCCCTCACTGGCTTTAGCCTGGAAAGCAGCTTCAGGATTTTCTTCCTGCCTATTTGCCCTCCT
4801643 TTTCTCAAGTGCATACAGGAGTTTATC-GCTCTCAGACAATGAAATG
192 TTTCTCAAGTGCATACAGGAGTTTATCAG--CTCAGACAATGAAATG
4801689 GCAGTACTTTTCTGAGTGTGTTGTCTTCTTACAGTGAACACATGGTGGAAACACCCTTTTTGCTT
1 GCAGTACTTTTCTGAGTGTGTTGTCTTCTTACAGTGAACACATGGTGGAAACACCCTTTTTGCTT
4801754 CATCTCTTCCTGGTTTGACTCTCCTATTGTGCCAAGGC-TTTTGCC-TTTACACTCAAAACTCGA
66 CATCTCTTCCTGG-TTGACTCTCCTATTGTGCCAAGGCTTTTTGCCTTTTACACTC-AAACTCGA
* *
4801817 GCCCTCACTGGCTTTAGCCTGGAAAGTAGCTTCAAGATTTTCTTCCTGCCTATTT-CCCTCCTTT
129 GCCCTCACTGGCTTTAGCCTGGAAAGCAGCTTCAGGATTTTCTTCCTGCCTATTTGCCCTCCTTT
4801881 TCTCAAGTGCATACAGGGAGTTTATTCAGCTCAGACAAATG-AATG
194 TCTCAAGTGCATACA-GGAGTTTA-TCAGCTCAGAC-AATGAAATG
4801926 GCAGTACTTTTTCTGAGTGTGTTGTCTTCTTACAGTGAACACATGGTGG-AACACCCTTTTTGCT
1 GCAGTAC-TTTTCTGAGTGTGTTGTCTTCTTACAGTGAACACATGGTGGAAACACCCTTTTTGCT
*
4801990 TCATCTCTTCCTGGTTTACTCTCCTATTGT-CGCAAGGCTTTTTTGCCTTTTACACTCAAACTCG
65 TCATCTCTTCCTGGTTGACTCTCCTATTGTGC-CAAGGC-TTTTTGCCTTTTACACTCAAACTCG
*
4802054 AG-CCTCACTGGC-TTAGCCTGGAAAGCAGCTTTAGGGATTTTCTTCCTGCCTA-TTGCCCTCTC
128 AGCCCTCACTGGCTTTAGCCTGGAAAGCAGCTTCA-GGATTTTCTTCCTGCCTATTTGCCCTC-C
4802116 TTTTCTCAAGTGCATACAGGA-TTTAATCAGCTCAGACAATGAAATG
191 TTTTCTCAAGTGCATACAGGAGTTT-ATCAGCTCAGACAATGAAATG
4802162 GCAGTACTTTTCTGAGTGTG-TGTCTTCTTACAGTGAACAACATGGTGGAAACACCCTTTTTGCT
1 GCAGTACTTTTCTGAGTGTGTTGTCTTCTTACAGTGAAC-ACATGGTGGAAACACCCTTTTTGCT
4802226 TCATCTC-TCCTGGTTGACTCTCCCTA-TGTGCCACA-GCTTTTTGCCTTTTACACTCAAACTCG
65 TCATCTCTTCCTGGTTGACTCT-CCTATTGTGCCA-AGGCTTTTTGCCTTTTACACTCAAACTCG
* *
4802288 AGCCCTCACTGGCTTTAGCCTGGAAAGCA-CTTCAAG-TTTTCTTCCTGCCTATTTTCCCTCCTT
128 AGCCCTCACTGGCTTTAGCCTGGAAAGCAGCTTCAGGATTTTCTTCCTGCCTATTTGCCCTCCTT
4802351 TTCTCAAGTGCATACAGGGAGTTTATCAGCTCAGACAATG-AATG
193 TTCTCAAGTGCATACA-GGAGTTTATCAGCTCAGACAATGAAATG
4802395 GC
1 GC
4802397 TGATAAGTCC
Statistics
Matches: 885, Mismatches: 18, Indels: 89
0.89 0.02 0.09
Matches are distributed among these distances:
233 40 0.05
234 93 0.11
235 161 0.18
236 266 0.30
237 93 0.11
238 99 0.11
239 64 0.07
240 18 0.02
241 23 0.03
242 28 0.03
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.36
Consensus pattern (236 bp):
GCAGTACTTTTCTGAGTGTGTTGTCTTCTTACAGTGAACACATGGTGGAAACACCCTTTTTGCTT
CATCTCTTCCTGGTTGACTCTCCTATTGTGCCAAGGCTTTTTGCCTTTTACACTCAAACTCGAGC
CCTCACTGGCTTTAGCCTGGAAAGCAGCTTCAGGATTTTCTTCCTGCCTATTTGCCCTCCTTTTC
TCAAGTGCATACAGGAGTTTATCAGCTCAGACAATGAAATG
Found at i:4806615 original size:22 final size:22
Alignment explanation
Indices: 4806571--4806615 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
4806561 ATTGATAATT
* *
4806571 AATAAATCTATATAAAATTTTA
1 AATAAATATATATAAAATATTA
4806593 AATAAATATAT-TAATAATATTA
1 AATAAATATATATAA-AATATTA
4806615 A
1 A
4806616 TTTCATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
AATAAATATATATAAAATATTA
Found at i:4810831 original size:10 final size:11
Alignment explanation
Indices: 4810799--4810845 Score: 60
Period size: 11 Copynumber: 4.3 Consensus size: 11
4810789 AAATTTTAAA
*
4810799 TTTTTATAAAT
1 TTTTTATAATT
*
4810810 TTTTTATGATT
1 TTTTTATAATT
4810821 TTTTTAT-ATT
1 TTTTTATAATT
4810831 TTGTTTATAATT
1 TT-TTTATAATT
4810843 TTT
1 TTT
4810846 AATAACTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
10 5 0.16
11 22 0.69
12 5 0.16
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.72
Consensus pattern (11 bp):
TTTTTATAATT
Found at i:4810850 original size:10 final size:10
Alignment explanation
Indices: 4810799--4810855 Score: 51
Period size: 11 Copynumber: 5.3 Consensus size: 10
4810789 AAATTTTAAA
4810799 TTTTTATAAAT
1 TTTTTAT-AAT
*
4810810 TTTTTATGATT
1 TTTTTAT-AAT
*
4810821 TTTTTATATT
1 TTTTTATAAT
4810831 TTGTTTATAAT
1 TT-TTTATAAT
*
4810842 TTTTAATAACT
1 TTTTTATAA-T
4810853 TTT
1 TTT
4810856 AAAATTTAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
10 11 0.28
11 29 0.73
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:4815966 original size:238 final size:238
Alignment explanation
Indices: 4815548--4816738 Score: 2285
Period size: 238 Copynumber: 5.0 Consensus size: 238
4815538 GCCTATACCA
*
4815548 GCAGTACTTTTCTGAGTGTGTTGTCTTCTTACAGTGAACACATGGTGGAAACACCCTTTTTACTT
1 GCAGTACTTTTCTGAGTGTGTTGTCTTCTTACAGTGAACACATGGTGGAAACACCCTTTTTGCTT
4815613 CATCTCTTCCTGGTTTGACTCTCCTATTGTGCCAAGGCTTTTTGCCTTTTACACTCAAACTCGAG
66 CATCTCTTCCTGGTTTGACTCTCCTATTGTGCCAAGGCTTTTTGCCTTTTACACTCAAACTCGAG
*
4815678 CCCTCACTGGCTTTAGCCTGGAAAGCAGCTTCAGGATTTTCTTCCTGCCTATTTTCCCTCATTTT
131 CCCTCACTGGCTTTAGCCTGGAAAGCAGCTTCAGGATTTTCTTCCTGCCTATTTTCCCTCCTTTT
*
4815743 TTCAAGTGCATACAGGGAGTTTATCAGCTCAGACAATGAAATG
196 CTCAAGTGCATACAGGGAGTTTATCAGCTCAGACAATGAAATG
*
4815786 GCAGTACTTTTCTGAGTGTGTTATCTTCTTACAGTGAACACATGGTGGAAACACCCTTTTTGCTT
1 GCAGTACTTTTCTGAGTGTGTTGTCTTCTTACAGTGAACACATGGTGGAAACACCCTTTTTGCTT
4815851 CATCTCTTCCTGGTTTGACTCTCCTATTGTGCCAAGGCTTTTTGCCTTTTACACTCAAACTCGAG
66 CATCTCTTCCTGGTTTGACTCTCCTATTGTGCCAAGGCTTTTTGCCTTTTACACTCAAACTCGAG
*
4815916 CCCTCACTGGCTTTAGCCTGGAAAGCAGCTTCAGGATTTTCTTCCTGCCTATTTGCCCTCCTTTT
131 CCCTCACTGGCTTTAGCCTGGAAAGCAGCTTCAGGATTTTCTTCCTGCCTATTTTCCCTCCTTTT
4815981 CTCAAGTGCATACAGGGAGTTTATCAGCTCAGACAATGAAATG
196 CTCAAGTGCATACAGGGAGTTTATCAGCTCAGACAATGAAATG
4816024 GCAGTACTTTTCTGAGTGTGTTGTCTTCTTACAGTGAACACATGGTGGAAACACCCTTTTTGCTT
1 GCAGTACTTTTCTGAGTGTGTTGTCTTCTTACAGTGAACACATGGTGGAAACACCCTTTTTGCTT
4816089 CATCTCTTCCTGGTTTGACTCTCCTATTGTGCCAAGGCTTTTTGCCTTTTACACTCAAACTCGAG
66 CATCTCTTCCTGGTTTGACTCTCCTATTGTGCCAAGGCTTTTTGCCTTTTACACTCAAACTCGAG
* *
4816154 CCCTCACTGGCTTTAGCCTGGAAAGTAGCTTCAAGATTTTCTTCCTGCCTATTTTCCCTCCTTTT
131 CCCTCACTGGCTTTAGCCTGGAAAGCAGCTTCAGGATTTTCTTCCTGCCTATTTTCCCTCCTTTT
4816219 CTCAAGTGCATACAGGGAGTTTATCAGCTCAGACAATGAAATG
196 CTCAAGTGCATACAGGGAGTTTATCAGCTCAGACAATGAAATG
4816262 GCAGTACTTTTCTGAGTGTGTTGTCTTCTTACAGTGAACACATGGTGGAAACACCCTTTTTGCTT
1 GCAGTACTTTTCTGAGTGTGTTGTCTTCTTACAGTGAACACATGGTGGAAACACCCTTTTTGCTT
4816327 CATCTCTTCCTGGTTT-ACTCTCCTATTGTGCCAAGGCTTTTTGCCTTTTACACTCAAACTCGAG
66 CATCTCTTCCTGGTTTGACTCTCCTATTGTGCCAAGGCTTTTTGCCTTTTACACTCAAACTCGAG
* *
4816391 CCCTCACTGGCTTTAGCCTGGAAAGCAGCTTTAGGATTTTCTTCCTGCCTATTTGCCCTCCTTTT
131 CCCTCACTGGCTTTAGCCTGGAAAGCAGCTTCAGGATTTTCTTCCTGCCTATTTTCCCTCCTTTT
4816456 CTCAAGTGCATACAGGGAGTTTATCAGCTCAGACAATGAAATG
196 CTCAAGTGCATACAGGGAGTTTATCAGCTCAGACAATGAAATG
4816499 GCAGTACTTTTCTGAGTGTGTTGTCTTCTTACAGTGAACACATGGTGGAAACACCCTTTTTGCTT
1 GCAGTACTTTTCTGAGTGTGTTGTCTTCTTACAGTGAACACATGGTGGAAACACCCTTTTTGCTT
4816564 CATCTCTTCCTGGTTTGACTCTCCTATTGTGCCAAGGCTTTTTGCCTTTTACACTCAAACTCGAG
66 CATCTCTTCCTGGTTTGACTCTCCTATTGTGCCAAGGCTTTTTGCCTTTTACACTCAAACTCGAG
*
4816629 CCCTCACTGGCTTTAGCCTGGAAAGCAGCTTCAAGATTTTCTTCCTGCCTATTTTCCCTCCTTTT
131 CCCTCACTGGCTTTAGCCTGGAAAGCAGCTTCAGGATTTTCTTCCTGCCTATTTTCCCTCCTTTT
4816694 CTCAAGTGCATACAGGGAGTTTATCAGCTCAGACAATGAAATG
196 CTCAAGTGCATACAGGGAGTTTATCAGCTCAGACAATGAAATG
4816737 GC
1 GC
4816739 TGATAAGTCC
Statistics
Matches: 936, Mismatches: 16, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
237 233 0.25
238 703 0.75
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (238 bp):
GCAGTACTTTTCTGAGTGTGTTGTCTTCTTACAGTGAACACATGGTGGAAACACCCTTTTTGCTT
CATCTCTTCCTGGTTTGACTCTCCTATTGTGCCAAGGCTTTTTGCCTTTTACACTCAAACTCGAG
CCCTCACTGGCTTTAGCCTGGAAAGCAGCTTCAGGATTTTCTTCCTGCCTATTTTCCCTCCTTTT
CTCAAGTGCATACAGGGAGTTTATCAGCTCAGACAATGAAATG
Found at i:4816591 original size:475 final size:476
Alignment explanation
Indices: 4815548--4816738 Score: 2312
Period size: 475 Copynumber: 2.5 Consensus size: 476
4815538 GCCTATACCA
*
4815548 GCAGTACTTTTCTGAGTGTGTTGTCTTCTTACAGTGAACACATGGTGGAAACACCCTTTTTACTT
1 GCAGTACTTTTCTGAGTGTGTTGTCTTCTTACAGTGAACACATGGTGGAAACACCCTTTTTGCTT
4815613 CATCTCTTCCTGGTTTGACTCTCCTATTGTGCCAAGGCTTTTTGCCTTTTACACTCAAACTCGAG
66 CATCTCTTCCTGGTTTGACTCTCCTATTGTGCCAAGGCTTTTTGCCTTTTACACTCAAACTCGAG
* *
4815678 CCCTCACTGGCTTTAGCCTGGAAAGCAGCTTCAGGATTTTCTTCCTGCCTATTTTCCCTCATTTT
131 CCCTCACTGGCTTTAGCCTGGAAAGCAGCTTCAAGATTTTCTTCCTGCCTATTTTCCCTCCTTTT
*
4815743 TTCAAGTGCATACAGGGAGTTTATCAGCTCAGACAATGAAATGGCAGTACTTTTCTGAGTGTGTT
196 CTCAAGTGCATACAGGGAGTTTATCAGCTCAGACAATGAAATGGCAGTACTTTTCTGAGTGTGTT
4815808 ATCTTCTTACAGTGAACACATGGTGGAAACACCCTTTTTGCTTCATCTCTTCCTGGTTTGACTCT
261 ATCTTCTTACAGTGAACACATGGTGGAAACACCCTTTTTGCTTCATCTCTTCCTGGTTTGACTCT
4815873 CCTATTGTGCCAAGGCTTTTTGCCTTTTACACTCAAACTCGAGCCCTCACTGGCTTTAGCCTGGA
326 CCTATTGTGCCAAGGCTTTTTGCCTTTTACACTCAAACTCGAGCCCTCACTGGCTTTAGCCTGGA
4815938 AAGCAGCTTCAGGATTTTCTTCCTGCCTATTTGCCCTCCTTTTCTCAAGTGCATACAGGGAGTTT
391 AAGCAGCTTCAGGATTTTCTTCCTGCCTATTTGCCCTCCTTTTCTCAAGTGCATACAGGGAGTTT
4816003 ATCAGCTCAGACAATGAAATG
456 ATCAGCTCAGACAATGAAATG
4816024 GCAGTACTTTTCTGAGTGTGTTGTCTTCTTACAGTGAACACATGGTGGAAACACCCTTTTTGCTT
1 GCAGTACTTTTCTGAGTGTGTTGTCTTCTTACAGTGAACACATGGTGGAAACACCCTTTTTGCTT
4816089 CATCTCTTCCTGGTTTGACTCTCCTATTGTGCCAAGGCTTTTTGCCTTTTACACTCAAACTCGAG
66 CATCTCTTCCTGGTTTGACTCTCCTATTGTGCCAAGGCTTTTTGCCTTTTACACTCAAACTCGAG
*
4816154 CCCTCACTGGCTTTAGCCTGGAAAGTAGCTTCAAGATTTTCTTCCTGCCTATTTTCCCTCCTTTT
131 CCCTCACTGGCTTTAGCCTGGAAAGCAGCTTCAAGATTTTCTTCCTGCCTATTTTCCCTCCTTTT
4816219 CTCAAGTGCATACAGGGAGTTTATCAGCTCAGACAATGAAATGGCAGTACTTTTCTGAGTGTGTT
196 CTCAAGTGCATACAGGGAGTTTATCAGCTCAGACAATGAAATGGCAGTACTTTTCTGAGTGTGTT
*
4816284 GTCTTCTTACAGTGAACACATGGTGGAAACACCCTTTTTGCTTCATCTCTTCCTGGTTT-ACTCT
261 ATCTTCTTACAGTGAACACATGGTGGAAACACCCTTTTTGCTTCATCTCTTCCTGGTTTGACTCT
4816348 CCTATTGTGCCAAGGCTTTTTGCCTTTTACACTCAAACTCGAGCCCTCACTGGCTTTAGCCTGGA
326 CCTATTGTGCCAAGGCTTTTTGCCTTTTACACTCAAACTCGAGCCCTCACTGGCTTTAGCCTGGA
*
4816413 AAGCAGCTTTAGGATTTTCTTCCTGCCTATTTGCCCTCCTTTTCTCAAGTGCATACAGGGAGTTT
391 AAGCAGCTTCAGGATTTTCTTCCTGCCTATTTGCCCTCCTTTTCTCAAGTGCATACAGGGAGTTT
4816478 ATCAGCTCAGACAATGAAATG
456 ATCAGCTCAGACAATGAAATG
4816499 GCAGTACTTTTCTGAGTGTGTTGTCTTCTTACAGTGAACACATGGTGGAAACACCCTTTTTGCTT
1 GCAGTACTTTTCTGAGTGTGTTGTCTTCTTACAGTGAACACATGGTGGAAACACCCTTTTTGCTT
4816564 CATCTCTTCCTGGTTTGACTCTCCTATTGTGCCAAGGCTTTTTGCCTTTTACACTCAAACTCGAG
66 CATCTCTTCCTGGTTTGACTCTCCTATTGTGCCAAGGCTTTTTGCCTTTTACACTCAAACTCGAG
4816629 CCCTCACTGGCTTTAGCCTGGAAAGCAGCTTCAAGATTTTCTTCCTGCCTATTTTCCCTCCTTTT
131 CCCTCACTGGCTTTAGCCTGGAAAGCAGCTTCAAGATTTTCTTCCTGCCTATTTTCCCTCCTTTT
4816694 CTCAAGTGCATACAGGGAGTTTATCAGCTCAGACAATGAAATGGC
196 CTCAAGTGCATACAGGGAGTTTATCAGCTCAGACAATGAAATGGC
4816739 TGATAAGTCC
Statistics
Matches: 707, Mismatches: 8, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
475 394 0.56
476 313 0.44
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (476 bp):
GCAGTACTTTTCTGAGTGTGTTGTCTTCTTACAGTGAACACATGGTGGAAACACCCTTTTTGCTT
CATCTCTTCCTGGTTTGACTCTCCTATTGTGCCAAGGCTTTTTGCCTTTTACACTCAAACTCGAG
CCCTCACTGGCTTTAGCCTGGAAAGCAGCTTCAAGATTTTCTTCCTGCCTATTTTCCCTCCTTTT
CTCAAGTGCATACAGGGAGTTTATCAGCTCAGACAATGAAATGGCAGTACTTTTCTGAGTGTGTT
ATCTTCTTACAGTGAACACATGGTGGAAACACCCTTTTTGCTTCATCTCTTCCTGGTTTGACTCT
CCTATTGTGCCAAGGCTTTTTGCCTTTTACACTCAAACTCGAGCCCTCACTGGCTTTAGCCTGGA
AAGCAGCTTCAGGATTTTCTTCCTGCCTATTTGCCCTCCTTTTCTCAAGTGCATACAGGGAGTTT
ATCAGCTCAGACAATGAAATG
Found at i:4820896 original size:7 final size:7
Alignment explanation
Indices: 4820884--4820911 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
4820874 GAATAATATA
4820884 AATAATT
1 AATAATT
4820891 AATAATT
1 AATAATT
4820898 AATAATT
1 AATAATT
4820905 AATAATT
1 AATAATT
4820912 TGGAATATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
AATAATT
Found at i:4821027 original size:9 final size:9
Alignment explanation
Indices: 4821015--4821039 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
4821005 AATTTTTAAA
4821015 TAATAATAT
1 TAATAATAT
4821024 TAATAATAT
1 TAATAATAT
4821033 TAATAAT
1 TAATAAT
4821040 GTCATAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
TAATAATAT
Found at i:4821671 original size:44 final size:44
Alignment explanation
Indices: 4821608--4821699 Score: 166
Period size: 44 Copynumber: 2.1 Consensus size: 44
4821598 AGTATATTAG
*
4821608 CCTTCTTGCCCAATTTCTTGAAATCCGAAATCCCTAAATCGCCT
1 CCTTCTTGCCCAATTTCTTGAAATCCCAAATCCCTAAATCGCCT
*
4821652 CCTTCTTGCCGAATTTCTTGAAATCCCAAATCCCTAAATCGCCT
1 CCTTCTTGCCCAATTTCTTGAAATCCCAAATCCCTAAATCGCCT
4821696 CCTT
1 CCTT
4821700 TCTCCTTCCA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.24, C:0.35, G:0.09, T:0.33
Consensus pattern (44 bp):
CCTTCTTGCCCAATTTCTTGAAATCCCAAATCCCTAAATCGCCT
Found at i:4823627 original size:19 final size:19
Alignment explanation
Indices: 4823603--4823663 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
4823593 TTTAAAGTTA
4823603 TATTTTAAATATTTTATTT
1 TATTTTAAATATTTTATTT
* *
4823622 TATTTT-AATCA--TGA-AT
1 TATTTTAAAT-ATTTTATTT
4823638 T-TTTTAAATATTTTATTT
1 TATTTTAAATATTTTATTT
4823656 TATTTTAA
1 TATTTTAA
4823664 TCACGAATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 12
0.67 0.08 0.25
Matches are distributed among these distances:
15 5 0.16
16 5 0.16
17 4 0.12
18 5 0.16
19 13 0.41
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (19 bp):
TATTTTAAATATTTTATTT
Found at i:4823648 original size:34 final size:35
Alignment explanation
Indices: 4823605--4823691 Score: 149
Period size: 34 Copynumber: 2.5 Consensus size: 35
4823595 TAAAGTTATA
*
4823605 TTTTAAATATTTTATTTTATTTTAATCATGAAT-T
1 TTTTAAATATTTTATTTTATTTTAATCACGAATAT
4823639 TTTTAAATATTTTATTTTATTTTAATCACGAATAT
1 TTTTAAATATTTTATTTTATTTTAATCACGAATAT
*
4823674 TTTTAAATATTTAATTTT
1 TTTTAAATATTTTATTTT
4823692 TTTAAAGTTC
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
34 32 0.64
35 18 0.36
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.61
Consensus pattern (35 bp):
TTTTAAATATTTTATTTTATTTTAATCACGAATAT
Found at i:4823731 original size:18 final size:17
Alignment explanation
Indices: 4823703--4823758 Score: 78
Period size: 16 Copynumber: 3.3 Consensus size: 17
4823693 TTAAAGTTCA
*
4823703 AATTTCATAACTTACGT
1 AATTTCATAACTTACAT
4823720 AATTTACATAACTTACAT
1 AATTT-CATAACTTACAT
*
4823738 AA-TTCATAATTTACAT
1 AATTTCATAACTTACAT
4823754 AATTT
1 AATTT
4823759 AAATTTATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
16 13 0.37
17 9 0.26
18 13 0.37
ACGTcount: A:0.41, C:0.14, G:0.02, T:0.43
Consensus pattern (17 bp):
AATTTCATAACTTACAT
Found at i:4823756 original size:9 final size:9
Alignment explanation
Indices: 4823703--4823759 Score: 66
Period size: 9 Copynumber: 6.7 Consensus size: 9
4823693 TTAAAGTTCA
4823703 AATTT-CAT
1 AATTTACAT
* *
4823711 AACTTACGT
1 AATTTACAT
4823720 AATTTACAT
1 AATTTACAT
*
4823729 AACTTACAT
1 AATTTACAT
4823738 AA-TT-CAT
1 AATTTACAT
4823745 AATTTACAT
1 AATTTACAT
4823754 AATTTA
1 AATTTA
4823760 AATTTATAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
7 5 0.12
8 8 0.20
9 28 0.68
ACGTcount: A:0.42, C:0.14, G:0.02, T:0.42
Consensus pattern (9 bp):
AATTTACAT
Found at i:4823900 original size:23 final size:22
Alignment explanation
Indices: 4823850--4823913 Score: 64
Period size: 23 Copynumber: 3.0 Consensus size: 22
4823840 TTAAAAATTG
4823850 ATACATTACATAACTTACATAAC
1 ATACA-TACATAACTTACATAAC
*
4823873 CTACATACATAAACTTACAT---
1 ATACATACAT-AACTTACATAAC
*
4823893 ATA-ATACATAACTTATATAAC
1 ATACATACATAACTTACATAAC
4823914 TTAAATTTAG
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
18 8 0.24
19 6 0.18
20 2 0.06
22 5 0.15
23 13 0.38
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.31
Consensus pattern (22 bp):
ATACATACATAACTTACATAAC
Found at i:4823993 original size:21 final size:21
Alignment explanation
Indices: 4823966--4824021 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 21
4823956 AATCAATCAC
4823966 AACTTACATAACCAACATAAT
1 AACTTACATAACCAACATAAT
* *
4823987 GACTTACATAATAACCTACATAAT
1 AACTTAC---ATAACCAACATAAT
4824011 AACTTACATAA
1 AACTTACATAA
4824022 TAATACATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
21 10 0.34
24 19 0.66
ACGTcount: A:0.50, C:0.21, G:0.02, T:0.27
Consensus pattern (21 bp):
AACTTACATAACCAACATAAT
Found at i:4823997 original size:12 final size:12
Alignment explanation
Indices: 4823980--4824210 Score: 105
Period size: 12 Copynumber: 19.8 Consensus size: 12
4823970 TACATAACCA
*
4823980 ACATAATGACTT
1 ACATAATAACTT
*
4823992 ACATAATAACCT
1 ACATAATAACTT
4824004 ACATAATAACTT
1 ACATAATAACTT
4824016 ACATAATAA--T
1 ACATAATAACTT
* *
4824026 ACATAACATACAT
1 ACATAATA-ACTT
* *
4824039 AAATTAAATAAGTT
1 ACA-T-AATAACTT
4824053 ACATAAT-AC--
1 ACATAATAACTT
4824062 ACA-AA-AAC--
1 ACATAATAACTT
*
4824070 ACTTACATAACTT
1 ACATA-ATAACTT
*
4824083 ACATAATATCTT
1 ACATAATAACTT
4824095 ACATAATAACTT
1 ACATAATAACTT
4824107 ACATAATAA--T
1 ACATAATAACTT
* *
4824117 ACATACCCT-ACAT
1 ACATA--ATAACTT
* *
4824130 AAATTAAATAAGTT
1 ACA-T-AATAACTT
**
4824144 ACATAATACACAA
1 ACATAATA-ACTT
* * *
4824157 AAACAAAAACTT
1 ACATAATAACTT
4824169 AC---ATAACTT
1 ACATAATAACTT
* *
4824178 ACATAATATCCT
1 ACATAATAACTT
4824190 ACATAATAACTT
1 ACATAATAACTT
4824202 ACATAATAA
1 ACATAATAA
4824211 TACATACTTA
Statistics
Matches: 163, Mismatches: 34, Indels: 44
0.68 0.14 0.18
Matches are distributed among these distances:
8 6 0.04
9 12 0.07
10 15 0.09
11 6 0.04
12 91 0.56
13 19 0.12
14 10 0.06
15 4 0.02
ACGTcount: A:0.52, C:0.18, G:0.01, T:0.29
Consensus pattern (12 bp):
ACATAATAACTT
Found at i:4824021 original size:9 final size:9
Alignment explanation
Indices: 4824009--4824363 Score: 117
Period size: 9 Copynumber: 39.9 Consensus size: 9
4823999 AACCTACATA
4824009 ATAACTTAC
1 ATAACTTAC
4824018 ATAA-TAATAC
1 ATAACT--TAC
*
4824028 ATAACATAC
1 ATAACTTAC
* *
4824037 ATAAATTAA
1 ATAACTTAC
*
4824046 ATAAGTTAC
1 ATAACTTAC
*
4824055 ATAA-TACAC
1 ATAACT-TAC
*
4824064 AAAAACACTTAC
1 -ATAA--CTTAC
4824076 ATAACTTAC
1 ATAACTTAC
4824085 ATAATATCTTAC
1 AT-A-A-CTTAC
4824097 ATAATAACTTAC
1 ---ATAACTTAC
4824109 ATAA-TAATAC
1 ATAACT--TAC
* *
4824119 ATACCCTAC
1 ATAACTTAC
* *
4824128 ATAAATTAA
1 ATAACTTAC
*
4824137 ATAAGTTAC
1 ATAACTTAC
4824146 ATAA--TAC
1 ATAACTTAC
* **
4824153 ACAA-AAAC
1 ATAACTTAC
*
4824161 AAAAACTTAC
1 ATAA-CTTAC
4824171 ATAACTTAC
1 ATAACTTAC
4824180 ATAA--TATC
1 ATAACTTA-C
* *
4824188 CT-ACATA-
1 ATAACTTAC
4824195 ATAACTTAC
1 ATAACTTAC
4824204 ATAA-TAATAC
1 ATAACT--TAC
4824214 AT-ACTTAC
1 ATAACTTAC
* *
4824222 ATAAATTAA
1 ATAACTTAC
*
4824231 ATAAGTTAC
1 ATAACTTAC
4824240 ATAA--TAC
1 ATAACTTAC
* **
4824247 ACAA-AAAC
1 ATAACTTAC
*
4824255 AAAAACTTAC
1 -ATAACTTAC
4824265 ATAACTTAC
1 ATAACTTAC
4824274 ATAA--TAC
1 ATAACTTAC
*
4824281 ATAATTTAC
1 ATAACTTAC
4824290 ATAACTTAC
1 ATAACTTAC
*
4824299 ATAA--GAC
1 ATAACTTAC
4824306 ATAACTTAC
1 ATAACTTAC
* *
4824315 ATAAGTTTC
1 ATAACTTAC
4824324 ATAA--TAC
1 ATAACTTAC
*
4824331 ACAACTTAC
1 ATAACTTAC
4824340 ATAACTTAC
1 ATAACTTAC
4824349 ATAA--TAC
1 ATAACTTAC
4824356 ATAACTTA
1 ATAACTTA
4824364 TTCCTAAATC
Statistics
Matches: 261, Mismatches: 45, Indels: 80
0.68 0.12 0.21
Matches are distributed among these distances:
7 41 0.16
8 22 0.08
9 147 0.56
10 30 0.11
11 4 0.02
12 12 0.05
13 2 0.01
14 1 0.00
15 2 0.01
ACGTcount: A:0.52, C:0.17, G:0.01, T:0.29
Consensus pattern (9 bp):
ATAACTTAC
Found at i:4824196 original size:95 final size:94
Alignment explanation
Indices: 4823988--4824279 Score: 502
Period size: 91 Copynumber: 3.1 Consensus size: 94
4823978 CAACATAATG
*
4823988 ACTTACATAATAACCTACATAATAACTTACATAATAATACATAACATACATAAATTAAATAAGTT
1 ACTTACATAATATCCTACATAATAACTTACATAATAATACAT-ACATACATAAATTAAATAAGTT
4824053 ACATAATACACAAAAAC----ACTTACATA
65 ACATAATACACAAAAACAAAAACTTACATA
* *
4824079 ACTTACATAATATCTTACATAATAACTTACATAATAATACATACCCTACATAAATTAAATAAGTT
1 ACTTACATAATATCCTACATAATAACTTACATAATAATACATA-CATACATAAATTAAATAAGTT
4824144 ACATAATACACAAAAACAAAAACTTACATA
65 ACATAATACACAAAAACAAAAACTTACATA
*
4824174 ACTTACATAATATCCTACATAATAACTTACATAATAATACATACTTACATAAATTAAATAAGTTA
1 ACTTACATAATATCCTACATAATAACTTACATAATAATACATACATACATAAATTAAATAAGTTA
4824239 CATAATACACAAAAACAAAAACTTACATA
66 CATAATACACAAAAACAAAAACTTACATA
4824268 ACTTACATAATA
1 ACTTACATAATA
4824280 CATAATTTAC
Statistics
Matches: 191, Mismatches: 5, Indels: 7
0.94 0.02 0.03
Matches are distributed among these distances:
90 1 0.01
91 77 0.40
94 62 0.32
95 51 0.27
ACGTcount: A:0.53, C:0.17, G:0.01, T:0.28
Consensus pattern (94 bp):
ACTTACATAATATCCTACATAATAACTTACATAATAATACATACATACATAAATTAAATAAGTTA
CATAATACACAAAAACAAAAACTTACATA
Found at i:4824283 original size:16 final size:17
Alignment explanation
Indices: 4824009--4824363 Score: 125
Period size: 16 Copynumber: 20.5 Consensus size: 17
4823999 AACCTACATA
4824009 ATAACTTACATAATAATAC
1 ATAACTTACATAAT--TAC
* *
4824028 ATAACATACATAAATTAA
1 ATAACTTACAT-AATTAC
* *
4824046 ATAAGTTACATAATACAC
1 ATAACTTACATAAT-TAC
*
4824064 AAAAACACTTACATAACTTAC
1 --ATA-ACTTACATAA-TTAC
*
4824085 ATAA--TATCTTACA-TA-
1 ATAACTTA-CATA-ATTAC
4824100 ATAACTTACATAATAATAC
1 ATAACTTACATAAT--TAC
* * *
4824119 ATACCCTACATAAATTAA
1 ATAACTTACAT-AATTAC
*
4824137 ATAAGTTACATAA-TAC
1 ATAACTTACATAATTAC
* ** *
4824153 ACAA-AAACAAAAACTTAC
1 ATAACTTAC-ATAA-TTAC
4824171 ATAACTTACATAA-TATC
1 ATAACTTACATAATTA-C
* *
4824188 CT-ACATA-ATAACTTAC
1 ATAACTTACATAA-TTAC
*
4824204 ATAA-TAATACATACTTAC
1 ATAACT--TACATAATTAC
* *
4824222 ATAAATTAAATAAGTTAC
1 ATAACTTACATAA-TTAC
* **
4824240 ATAA--TACACAAAAAC
1 ATAACTTACATAATTAC
*
4824255 AAAAACTTACATAACTTAC
1 -ATAACTTACATAA-TTAC
4824274 ATAA--TACATAATTTAC
1 ATAACTTACATAA-TTAC
*
4824290 ATAACTTACATAA-GAC
1 ATAACTTACATAATTAC
*
4824306 ATAACTTACATAAGTTTC
1 ATAACTTACATAA-TTAC
*
4824324 ATAA--TACACAACTTAC
1 ATAACTTACATAA-TTAC
4824340 ATAACTTACATAA-TAC
1 ATAACTTACATAATTAC
4824356 ATAACTTA
1 ATAACTTA
4824364 TTCCTAAATC
Statistics
Matches: 247, Mismatches: 51, Indels: 79
0.66 0.14 0.21
Matches are distributed among these distances:
15 13 0.05
16 85 0.34
17 20 0.08
18 80 0.32
19 29 0.12
20 8 0.03
21 11 0.04
22 1 0.00
ACGTcount: A:0.52, C:0.17, G:0.01, T:0.29
Consensus pattern (17 bp):
ATAACTTACATAATTAC
Found at i:4824289 original size:25 final size:25
Alignment explanation
Indices: 4824258--4824363 Score: 167
Period size: 25 Copynumber: 4.2 Consensus size: 25
4824248 CAAAAACAAA
4824258 AACTTACATAACTTACATAATACAT
1 AACTTACATAACTTACATAATACAT
* *
4824283 AATTTACATAACTTACATAAGACAT
1 AACTTACATAACTTACATAATACAT
* * *
4824308 AACTTACATAAGTTTCATAATACAC
1 AACTTACATAACTTACATAATACAT
4824333 AACTTACATAACTTACATAATACAT
1 AACTTACATAACTTACATAATACAT
4824358 AACTTA
1 AACTTA
4824364 TTCCTAAATC
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 71 1.00
ACGTcount: A:0.47, C:0.19, G:0.02, T:0.32
Consensus pattern (25 bp):
AACTTACATAACTTACATAATACAT
Found at i:4829936 original size:21 final size:21
Alignment explanation
Indices: 4829910--4829959 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
4829900 CTACAACTTA
4829910 AAGCAGAGG-TGGCAGCGA-AGG
1 AAGCAGAGGCT-GCAGCGAGA-G
4829931 AAGCAGAGGCTGCAGCGAGAG
1 AAGCAGAGGCTGCAGCGAGAG
4829952 AAGCAGAG
1 AAGCAGAG
4829960 CAGAGCAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
21 25 0.93
22 2 0.07
ACGTcount: A:0.36, C:0.16, G:0.44, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGAG
Found at i:4830431 original size:42 final size:41
Alignment explanation
Indices: 4830282--4830599 Score: 242
Period size: 42 Copynumber: 7.6 Consensus size: 41
4830272 GTACAAAAGT
* * *
4830282 GCCGCTAAAGAACATGTTCTTTAGTGGCGTTTGTAAAAAAAGC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAT-AAAAAA-C
* * ** * * * * * * *
4830325 GTCGCGAAAGATTATGATCTCTAGTGGCGTTTTTTGAAAAGC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCG-CTTATAAAAAAC
* * *
4830367 GCCGTTAAAGAACATGTTCTTTAGCGGCGCATATACACAAAC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTATA-AAAAAC
* * *
4830409 GCCACTAAAGAACATGATCTTTAACGGCGCTTAATAAAAAAC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGCTT-ATAAAAAAC
** * * *
4830451 GCCATTAAAGATCATGTTCTTTAGCGGTGCTTAGAAAAAAAC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTA-TAAAAAAC
* * *
4830493 ACCGCTAAAGATA-ATGTTCTTTAGCGGCGCTTAGAAAAAAA
1 GCCGCTAAAGA-ACATGTTCTTTAGCGGCGCTTATAAAAAAC
* * * * * * *
4830534 GCCGCTAACGACCATGTTCTTTAGCGGCGTTTTTCATAAGC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTATAAAAAAC
*
4830575 GCCGCTAAAGAACATGATCTTTAGC
1 GCCGCTAAAGAACATGTTCTTTAGC
4830600 AGCGTTTTTA
Statistics
Matches: 214, Mismatches: 55, Indels: 14
0.76 0.19 0.05
Matches are distributed among these distances:
41 61 0.29
42 119 0.56
43 30 0.14
44 4 0.02
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (41 bp):
GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTATAAAAAAC
Found at i:4836448 original size:17 final size:17
Alignment explanation
Indices: 4836426--4836463 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
4836416 CCAGGTGTTC
*
4836426 ATTTTCTTGAAAAAATA
1 ATTTTCTTCAAAAAATA
*
4836443 ATTTTCTTCAAAGAATA
1 ATTTTCTTCAAAAAATA
4836460 ATTT
1 ATTT
4836464 GGGTTCGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.45
Consensus pattern (17 bp):
ATTTTCTTCAAAAAATA
Found at i:4837607 original size:15 final size:15
Alignment explanation
Indices: 4837583--4837612 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4837573 ACACATTATA
*
4837583 TTCTATATATATAGT
1 TTCTAAATATATAGT
4837598 TTCTAAATATATAGT
1 TTCTAAATATATAGT
4837613 ATGCTAATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.50
Consensus pattern (15 bp):
TTCTAAATATATAGT
Found at i:4842967 original size:40 final size:40
Alignment explanation
Indices: 4842912--4842991 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
4842902 AGGGGAAACA
4842912 ACATGTGCATCAAATAAACTTTGGTACAACTCCCTGTATG
1 ACATGTGCATCAAATAAACTTTGGTACAACTCCCTGTATG
4842952 ACATGTGCATCAAATAAACTTTGGTACAACTCCCTGTATG
1 ACATGTGCATCAAATAAACTTTGGTACAACTCCCTGTATG
4842992 TCATTGGAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.30
Consensus pattern (40 bp):
ACATGTGCATCAAATAAACTTTGGTACAACTCCCTGTATG
Found at i:4844569 original size:3 final size:3
Alignment explanation
Indices: 4844561--4844585 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
4844551 ATTAAAAGTG
4844561 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
4844586 CAACAACAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:4847619 original size:10 final size:11
Alignment explanation
Indices: 4847587--4847633 Score: 60
Period size: 11 Copynumber: 4.3 Consensus size: 11
4847577 AAATTTTAAA
*
4847587 TTTTTATAAAT
1 TTTTTATAATT
*
4847598 TTTTTATGATT
1 TTTTTATAATT
4847609 TTTTTAT-ATT
1 TTTTTATAATT
4847619 TTGTTTATAATT
1 TT-TTTATAATT
4847631 TTT
1 TTT
4847634 AATAACTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
10 5 0.16
11 22 0.69
12 5 0.16
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.72
Consensus pattern (11 bp):
TTTTTATAATT
Found at i:4847638 original size:10 final size:10
Alignment explanation
Indices: 4847587--4847643 Score: 51
Period size: 11 Copynumber: 5.3 Consensus size: 10
4847577 AAATTTTAAA
4847587 TTTTTATAAAT
1 TTTTTAT-AAT
*
4847598 TTTTTATGATT
1 TTTTTAT-AAT
*
4847609 TTTTTATATT
1 TTTTTATAAT
4847619 TTGTTTATAAT
1 TT-TTTATAAT
*
4847630 TTTTAATAACT
1 TTTTTATAA-T
4847641 TTT
1 TTT
4847644 AAAATTTAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
10 11 0.28
11 29 0.73
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:4852913 original size:238 final size:238
Alignment explanation
Indices: 4852335--4853525 Score: 2321
Period size: 238 Copynumber: 5.0 Consensus size: 238
4852325 GCCTATACCA
4852335 GCAGTACTTTTCTGAGTGTGTTGTCTTCTTACAGTGAACACATGGTGGAAACACCCTTTTTGCTT
1 GCAGTACTTTTCTGAGTGTGTTGTCTTCTTACAGTGAACACATGGTGGAAACACCCTTTTTGCTT
4852400 CATCTCTTCCTGGTTTGACTCTCCTATTGTGCCAAGGCTTTTTGCCTTTTACACTCAAACTCGAG
66 CATCTCTTCCTGGTTTGACTCTCCTATTGTGCCAAGGCTTTTTGCCTTTTACACTCAAACTCGAG
*
4852465 CCCTCACTGGCTTTAGCCTGGAAAGCAGCTTCAGGATTTT-TTCCTGCCTATTTGCCCTCATTTT
131 CCCTCACTGGCTTTAGCCTGGAAAGCAGCTTCAGGATTTTCTTCCTGCCTATTTGCCCTCCTTTT
4852529 CTCAAGTGCATACAGGGAGTTTATCAGCTCAGACAATGAAATG
196 CTCAAGTGCATACAGGGAGTTTATCAGCTCAGACAATGAAATG
4852572 GCAGTACTTTTCTGAGTGTGTTGTCTTCTTACAGTGAACACATGGTGGAAACACCCTTTTTGCTT
1 GCAGTACTTTTCTGAGTGTGTTGTCTTCTTACAGTGAACACATGGTGGAAACACCCTTTTTGCTT
4852637 CATCTCTTCCTGGTTTGACTCTCCTATTGTGCCAAGGCTTTTTGCCTTTTACACTCAAACTCGAG
66 CATCTCTTCCTGGTTTGACTCTCCTATTGTGCCAAGGCTTTTTGCCTTTTACACTCAAACTCGAG
4852702 CCCTCACTGGCTTTAGCCTGGAAAGCAGCTTCAGGATTTTCTTCCTGCCTATTTGCCCTCCTTTT
131 CCCTCACTGGCTTTAGCCTGGAAAGCAGCTTCAGGATTTTCTTCCTGCCTATTTGCCCTCCTTTT
4852767 CTCAAGTGCATACAGGGAGTTTATCAGCTCAGACAATGAAATG
196 CTCAAGTGCATACAGGGAGTTTATCAGCTCAGACAATGAAATG
4852810 GCAGTACTTTTCTGAGTGTGTTGTCTTCTTACAGTGAACACATGGTGGAAACACCCTTTTTGCTT
1 GCAGTACTTTTCTGAGTGTGTTGTCTTCTTACAGTGAACACATGGTGGAAACACCCTTTTTGCTT
4852875 CATCTCTTCCTGGTTTGACTCTCCTATTGTGCCAAGGCTTTTTGCCTTTTACACTCAAACTCGAG
66 CATCTCTTCCTGGTTTGACTCTCCTATTGTGCCAAGGCTTTTTGCCTTTTACACTCAAACTCGAG
* *
4852940 CCCTCACTGGCTTTAGCCTGGAAAGCAGCTTCAAGATTTTCTTCCTGCCTATTTTCCCTCCTTTT
131 CCCTCACTGGCTTTAGCCTGGAAAGCAGCTTCAGGATTTTCTTCCTGCCTATTTGCCCTCCTTTT
4853005 CTCAAGTGCATACAGGGAGTTTATCAGCTCAGACAATGAAATG
196 CTCAAGTGCATACAGGGAGTTTATCAGCTCAGACAATGAAATG
4853048 GCAGTACTTTTCTGAGTGTGTTGTCTTCTTACAGTGAACACATGGTGGAAACACCCTTTTTGCTT
1 GCAGTACTTTTCTGAGTGTGTTGTCTTCTTACAGTGAACACATGGTGGAAACACCCTTTTTGCTT
4853113 CATCTCTTCCTGGTTTGACTCTCCTATTGTGCCAAGGCTTTTTGCCTTTTACACTCAAACTCGAG
66 CATCTCTTCCTGGTTTGACTCTCCTATTGTGCCAAGGCTTTTTGCCTTTTACACTCAAACTCGAG
*
4853178 CCCTCACTGGCTTTAGCCTGGAAAGCAGCTTTAGGATTTTCTTCCTGCCTATTTGCCCTCCTTTT
131 CCCTCACTGGCTTTAGCCTGGAAAGCAGCTTCAGGATTTTCTTCCTGCCTATTTGCCCTCCTTTT
4853243 CTCAAGTGCATACAGGGAGTTTATCAGCTCAGACAATGAAATG
196 CTCAAGTGCATACAGGGAGTTTATCAGCTCAGACAATGAAATG
4853286 GCAGTACTTTTCTGAGTGTGTTGTCTTCTTACAGTGAACACATGGTGGAAACACCCTTTTTGCTT
1 GCAGTACTTTTCTGAGTGTGTTGTCTTCTTACAGTGAACACATGGTGGAAACACCCTTTTTGCTT
4853351 CATCTCTTCCTGGTTTGACTCTCCTATTGTGCCAAGGCTTTTTGCCTTTTACACTCAAACTCGAG
66 CATCTCTTCCTGGTTTGACTCTCCTATTGTGCCAAGGCTTTTTGCCTTTTACACTCAAACTCGAG
* *
4853416 CCCTCACTGGCTTTAGCCTGGAAAGCAGCTTCAAGATTTTCTTCCTGCCTATTTTCCCTCCTTTT
131 CCCTCACTGGCTTTAGCCTGGAAAGCAGCTTCAGGATTTTCTTCCTGCCTATTTGCCCTCCTTTT
4853481 CTCAAGTGCATACAGGGAGTTTATCAGCTCAGACAATGAAATG
196 CTCAAGTGCATACAGGGAGTTTATCAGCTCAGACAATGAAATG
4853524 GC
1 GC
4853526 TGATAAGTCC
Statistics
Matches: 944, Mismatches: 9, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
237 170 0.18
238 774 0.82
ACGTcount: A:0.20, C:0.25, G:0.19, T:0.36
Consensus pattern (238 bp):
GCAGTACTTTTCTGAGTGTGTTGTCTTCTTACAGTGAACACATGGTGGAAACACCCTTTTTGCTT
CATCTCTTCCTGGTTTGACTCTCCTATTGTGCCAAGGCTTTTTGCCTTTTACACTCAAACTCGAG
CCCTCACTGGCTTTAGCCTGGAAAGCAGCTTCAGGATTTTCTTCCTGCCTATTTGCCCTCCTTTT
CTCAAGTGCATACAGGGAGTTTATCAGCTCAGACAATGAAATG
Found at i:4856430 original size:17 final size:17
Alignment explanation
Indices: 4856408--4856445 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
4856398 CCAGGTGTTC
4856408 ATTTTCTTAAAAGAATA
1 ATTTTCTTAAAAGAATA
*
4856425 ATTTTCTTCAAAGAATA
1 ATTTTCTTAAAAGAATA
4856442 ATTT
1 ATTT
4856446 AGGTTCGAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.45
Consensus pattern (17 bp):
ATTTTCTTAAAAGAATA
Found at i:4859740 original size:59 final size:62
Alignment explanation
Indices: 4859629--4859751 Score: 162
Period size: 59 Copynumber: 2.0 Consensus size: 62
4859619 CCATTACAAT
** * * *
4859629 AATAAATTTAGCCCTCCAATGTTTACAAATTCTATCAGTTTGATCCTAATTC-TAAAAATTC
1 AATAAATTTAGCCCTCCAATCCTTACAAATTCTACCAATTTAATCCTAATTCTTAAAAATTC
* *
4859690 AATAAATTTAGCCCT-CAA-CCTTACAAATTCTACCAATTTAATCTTGATTCTTAAAAATTC
1 AATAAATTTAGCCCTCCAATCCTTACAAATTCTACCAATTTAATCCTAATTCTTAAAAATTC
4859750 AA
1 AA
4859752 AAAAATCAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
59 25 0.46
60 14 0.26
61 15 0.28
ACGTcount: A:0.38, C:0.20, G:0.05, T:0.37
Consensus pattern (62 bp):
AATAAATTTAGCCCTCCAATCCTTACAAATTCTACCAATTTAATCCTAATTCTTAAAAATTC
Found at i:4868052 original size:14 final size:14
Alignment explanation
Indices: 4868033--4868059 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4868023 ATAAGAACTT
4868033 ATAAAAATAAATAA
1 ATAAAAATAAATAA
4868047 ATAAAAATAAATA
1 ATAAAAATAAATA
4868060 CCCATTTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (14 bp):
ATAAAAATAAATAA
Found at i:4869658 original size:20 final size:19
Alignment explanation
Indices: 4869626--4869682 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 19
4869616 TTTCTTGGAG
4869626 ATTTTCTTCTCATTATTTCT
1 ATTTTCTTCTCA-TATTTCT
*
4869646 ATTTTCGTT-TCATATTTTTT
1 ATTTTC-TTCTCATA-TTTCT
* *
4869666 ATTTTTTTCTGATATTT
1 ATTTTCTTCTCATATTT
4869683 TAAAAAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
19 7 0.23
20 22 0.71
21 2 0.06
ACGTcount: A:0.16, C:0.12, G:0.04, T:0.68
Consensus pattern (19 bp):
ATTTTCTTCTCATATTTCT
Found at i:4870218 original size:2 final size:2
Alignment explanation
Indices: 4870211--4870239 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4870201 GCATGCTTTC
4870211 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4870240 CTTCTAAGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4870441 original size:17 final size:17
Alignment explanation
Indices: 4870415--4870452 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
4870405 ATCATTGTAA
*
4870415 ATATTTTATTATTTTAC
1 ATATTCTATTATTTTAC
*
4870432 ATATTCTATTATTTTAT
1 ATATTCTATTATTTTAC
4870449 ATAT
1 ATAT
4870453 ATTGCACCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (17 bp):
ATATTCTATTATTTTAC
Found at i:4872668 original size:30 final size:30
Alignment explanation
Indices: 4872608--4872746 Score: 156
Period size: 30 Copynumber: 4.6 Consensus size: 30
4872598 ATTTTGATCA
*
4872608 CTAAAC-TTTTCTAAAATTTTCATTTTAACCC
1 CTAAACTTTTTC-AAAA-TTACATTTTAACCC
** *
4872639 CTAATTTTTTTCAAAATTACATTTCAACCC
1 CTAAACTTTTTCAAAATTACATTTTAACCC
* * * *
4872669 CTAAA-ATTTTCTAAACTACATTTTTACCC
1 CTAAACTTTTTCAAAATTACATTTTAACCC
*
4872698 CTAAACTTTCTCAAAATTACATTTTAACCC
1 CTAAACTTTTTCAAAATTACATTTTAACCC
*
4872728 CTAAACTTTCTCAAAATTA
1 CTAAACTTTTTCAAAATTA
4872747 TGTTTTGGCT
Statistics
Matches: 91, Mismatches: 15, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
29 24 0.26
30 54 0.59
31 8 0.09
32 5 0.05
ACGTcount: A:0.35, C:0.24, G:0.00, T:0.41
Consensus pattern (30 bp):
CTAAACTTTTTCAAAATTACATTTTAACCC
Found at i:4873143 original size:11 final size:12
Alignment explanation
Indices: 4873117--4873149 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
4873107 AAGAAGGAAG
4873117 AAGAAGAAAAAGA
1 AAGAA-AAAAAGA
4873130 AAGAAAAAAA-A
1 AAGAAAAAAAGA
4873141 AAGAAAAAA
1 AAGAAAAAA
4873150 TTATTATAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.50
12 5 0.25
13 5 0.25
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (12 bp):
AAGAAAAAAAGA
Found at i:4873436 original size:20 final size:20
Alignment explanation
Indices: 4873402--4873451 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
4873392 CAATAGGCCA
4873402 AAAAGAGAAAGAAGAAAAAAGG
1 AAAAGA-AAAGAAGAAAAAA-G
4873424 AAAAGAAAA-AAGAAAAAAG
1 AAAAGAAAAGAAGAAAAAAG
4873443 AAAA-AAAAG
1 AAAAGAAAAG
4873452 GCTCCAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 4 0.15
19 5 0.19
20 9 0.33
21 3 0.11
22 6 0.22
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (20 bp):
AAAAGAAAAGAAGAAAAAAG
Found at i:4873448 original size:7 final size:7
Alignment explanation
Indices: 4873401--4873448 Score: 62
Period size: 7 Copynumber: 6.9 Consensus size: 7
4873391 CCAATAGGCC
4873401 AAAAAGAG
1 AAAAA-AG
*
4873409 AAAGAAG
1 AAAAAAG
4873416 AAAAAAG
1 AAAAAAG
*
4873423 -GAAAAG
1 AAAAAAG
4873429 AAAAAAG
1 AAAAAAG
4873436 AAAAAAG
1 AAAAAAG
4873443 AAAAAA
1 AAAAAA
4873449 AAGGCTCCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
6 5 0.14
7 26 0.74
8 4 0.11
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:4873626 original size:21 final size:20
Alignment explanation
Indices: 4873600--4873648 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
4873590 CATTTATATT
4873600 TTTTAATTTAATTTAAATCAA
1 TTTTAATTTAATTTAAAT-AA
* *
4873621 TTTTAATTTTATTTTAAATAC
1 TTTTAA-TTTAATTTAAATAA
4873642 TTTTAAT
1 TTTTAAT
4873649 AAATAAGACA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 1 0.04
21 13 0.52
22 11 0.44
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTAATTTAATTTAAATAA
Found at i:4873825 original size:19 final size:20
Alignment explanation
Indices: 4873797--4873843 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
4873787 AAATTATATT
4873797 TTTC-AAAA-TTTT-TCGTG
1 TTTCAAAAATTTTTCTCGTG
4873814 TCTTCAAAAATTTTTCTCGTG
1 T-TTCAAAAATTTTTCTCGTG
4873835 TTTCAAAAA
1 TTTCAAAAA
4873844 AAAAATATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 1 0.04
18 3 0.12
19 4 0.15
20 12 0.46
21 6 0.23
ACGTcount: A:0.30, C:0.15, G:0.09, T:0.47
Consensus pattern (20 bp):
TTTCAAAAATTTTTCTCGTG
Found at i:4874077 original size:18 final size:18
Alignment explanation
Indices: 4874047--4874492 Score: 267
Period size: 17 Copynumber: 24.9 Consensus size: 18
4874037 AAAAAAGATT
4874047 TCGT-TTTTC-AAAATTC
1 TCGTGTTTTCAAAAATTC
*
4874063 TCATGTTTTCAAAAAAAATTC
1 TCGTGTTTTC---AAAAATTC
* * * *
4874084 T-AT-TTTTTAAAATTTT
1 TCGTGTTTTCAAAAATTC
4874100 TCGTGTTTTCAAAAAATTC
1 TCGTGTTTTC-AAAAATTC
4874119 TCGTG-TTTCAAAAAATTC
1 TCGTGTTTTC-AAAAATTC
*
4874137 TCGTGTTTT-AAAAAATC
1 TCGTGTTTTCAAAAATTC
4874154 TTCGTGTTTTCAAAAA-TC
1 -TCGTGTTTTCAAAAATTC
* *
4874172 TTCGTGTTTTCAAGATTTC
1 -TCGTGTTTTCAAAAATTC
*
4874191 T-GTG-TTTCAAAAATTT
1 TCGTGTTTTCAAAAATTC
*
4874207 TCATGTTTTCAAAAAAAATTTC
1 TCGTGTTTTC---AAAAA-TTC
*
4874229 TCGTGTTTT-AAAAATTT
1 TCGTGTTTTCAAAAATTC
* * *
4874246 TTGCGTTTT-AAAAATTT
1 TCGTGTTTTCAAAAATTC
* *
4874263 TTGTGTTTTCAAAAATCC
1 TCGTGTTTTCAAAAATTC
4874281 TCGTGTTTTCAAAAATTC
1 TCGTGTTTTCAAAAATTC
4874299 -CG-GTGTTTCAAAAATTC
1 TCGTGT-TTTCAAAAATTC
4874316 -CTGTGTTTT-AAAAATT-
1 TC-GTGTTTTCAAAAATTC
*
4874332 TCCGTGTTTTCAAAAAAAATC
1 T-CGTGTTTTC--AAAAATTC
*
4874353 TTCGTATTTTCAAAAAAATT-
1 -TCGTGTTTTC--AAAAATTC
*
4874373 TCGTG-TTTCACAAATGT-
1 TCGTGTTTTCAAAAAT-TC
*
4874390 TCGTGTTTT--AAAATTT
1 TCGTGTTTTCAAAAATTC
* *
4874406 TTGTGTTTTGAAAAAATTC
1 TCGTGTTTT-CAAAAATTC
* *
4874425 TCGTGTTTT-AAAAACTG
1 TCGTGTTTTCAAAAATTC
* *
4874442 TCGTGTTTTAAAAAAAAT-
1 TCGTGTTTT-CAAAAATTC
* *
4874460 TCGTG-TTTCTAAAATTT
1 TCGTGTTTTCAAAAATTC
4874477 TCGTG-TTTCAAAAATT
1 TCGTGTTTTCAAAAATT
4874493 TCTTTTTTTA
Statistics
Matches: 351, Mismatches: 41, Indels: 75
0.75 0.09 0.16
Matches are distributed among these distances:
15 1 0.00
16 44 0.13
17 111 0.32
18 96 0.27
19 51 0.15
20 8 0.02
21 29 0.08
22 11 0.03
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.46
Consensus pattern (18 bp):
TCGTGTTTTCAAAAATTC
Found at i:4874079 original size:37 final size:34
Alignment explanation
Indices: 4874038--4874535 Score: 180
Period size: 35 Copynumber: 13.9 Consensus size: 34
4874028 AATAAAAATA
*
4874038 AAAAAGATTTCGTTTTTCAAAATTCTCATGTTTTC
1 AAAAA-ATTTCGTTTTTCAAAATTCTCGTGTTTTC
* * * *
4874073 AAAAAAAATTCTATTTTTTAAAATTTTTCGTGTTTTC
1 -AAAAAATTTC-GTTTTTCAAAA-TTCTCGTGTTTTC
*
4874110 AAAAAATTCTCGTGTTTCAAAAAATTCTCGTGTTTT-
1 AAAAAATT-TCGTTTTTC--AAAATTCTCGTGTTTTC
*
4874146 AAAAAATCTTCGTGTTTTCAAAAATCTTCGTGTTTTC
1 AAAAAAT-TTCGT-TTTTCAAAATTC-TCGTGTTTTC
* * * *
4874183 --AAGATTTCTGTGTTTCAAAAATTTTCATGTTTTC
1 AAAAAATTTC-GTTTTTC-AAAATTCTCGTGTTTTC
* * * *
4874217 AAAAAAAATTTCTCGTGTTTTAAAAATTTTTGCGTTTT-
1 --AAAAAA-TT-TCGT-TTTTCAAAATTCTCGTGTTTTC
* * *
4874255 AAAAATTTTTGTGTTTTCAAAAATCCTCGTGTTTTC
1 AAAAAATTTCGT-TTTTC-AAAATTCTCGTGTTTTC
* *
4874291 -AAAAATTCCGGTGTTTCAAAAATTC-CTGTGTTTT-
1 AAAAAATTTC-GTTTTTC-AAAATTCTC-GTGTTTTC
* *
4874325 -AAAAATTTCCGTGTTTTCAAAAAAAATCTTCGTATTTTC
1 AAAAAATTT-CGT-TTTTC---AAAATTC-TCGTGTTTTC
*
4874364 AAAAAAATTTCGTGTTTCACAAATGT-TCGTGTTTT-
1 -AAAAAATTTCGTTTTTCA-AAAT-TCTCGTGTTTTC
* * *
4874399 -AAAATTTTTGTGTTTTGAAAAAATTCTCGTGTTTT-
1 AAAAAATTTCGT-TTTT--CAAAATTCTCGTGTTTTC
* * * *
4874434 AAAAACTGTCGTGTTTTAAAAAAAAT-TCGTG-TTTC
1 AAAAAATTTCGT-TTTT--CAAAATTCTCGTGTTTTC
* * * * * *
4874469 TAAAATTTTCGTGTTTCAAAAATT-TCTTTTTTTAG
1 AAAAAATTTCGTTTTTC-AAAATTCTCGTGTTTT-C
* **
4874504 AAAAAATTTTGTGCTTCAAAATTCTTCGTGTT
1 AAAAAATTTCGTTTTTCAAAATTC-TCGTGTT
4874536 AAAAAAAATT
Statistics
Matches: 352, Mismatches: 66, Indels: 88
0.70 0.13 0.17
Matches are distributed among these distances:
33 17 0.05
34 53 0.15
35 104 0.30
36 87 0.25
37 39 0.11
38 14 0.04
39 22 0.06
40 8 0.02
41 8 0.02
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.46
Consensus pattern (34 bp):
AAAAAATTTCGTTTTTCAAAATTCTCGTGTTTTC
Found at i:4874092 original size:69 final size:69
Alignment explanation
Indices: 4873962--4874093 Score: 153
Period size: 69 Copynumber: 1.9 Consensus size: 69
4873952 TGCTCAATTA
* * * *
4873962 AAAAATAAAAAAATTTGTGTTTTAAAAATCTTTCCGTGGTTTCAAAAAATATTCGTGTTTTAACA
1 AAAAATAAAAAAATTTGTGTTTTAAAAATCTCTCCATGGTTTCAAAAAAAATTCATGTTTTAACA
4874027 AAAT
66 AAAT
* * *
4874031 AAAAATAAAAAAGATTTCGT-TTTTCAAAAT-TCT-CATGTTTTCAAAAAAAATTCTATTTTTTA
1 AAAAATAAAAAA-ATTT-GTGTTTTAAAAATCTCTCCATGGTTTCAAAAAAAATTC-ATGTTTTA
4874093 A
63 A
4874094 AATTTTTCGT
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
68 17 0.32
69 21 0.40
70 13 0.25
71 2 0.04
ACGTcount: A:0.44, C:0.09, G:0.08, T:0.39
Consensus pattern (69 bp):
AAAAATAAAAAAATTTGTGTTTTAAAAATCTCTCCATGGTTTCAAAAAAAATTCATGTTTTAACA
AAAT
Found at i:4874225 original size:21 final size:21
Alignment explanation
Indices: 4874199--4874242 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
4874189 TCTGTGTTTC
4874199 AAAAATTT-TCATGTTTTCAAA
1 AAAAATTTCTCATGTTTT-AAA
*
4874220 AAAAATTTCTCGTGTTTTAAA
1 AAAAATTTCTCATGTTTTAAA
4874241 AA
1 AA
4874243 TTTTTGCGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (21 bp):
AAAAATTTCTCATGTTTTAAA
Found at i:4874351 original size:21 final size:19
Alignment explanation
Indices: 4874037--4874490 Score: 186
Period size: 18 Copynumber: 25.3 Consensus size: 19
4874027 AAATAAAAAT
4874037 AAAAAAGATTTCGT-TTTTC
1 AAAAAA-ATTTCGTGTTTTC
*
4874056 ---AAAATTCTCATGTTTTC
1 AAAAAAATT-TCGTGTTTTC
* * *
4874073 AAAAAAAATTC-TATTTTT
1 AAAAAAATTTCGTGTTTTC
* **
4874091 TAAAATTTTTCGTGTTTTC
1 AAAAAAATTTCGTGTTTTC
4874110 -AAAAAATTCTCGTG-TTTC
1 AAAAAAATT-TCGTGTTTTC
4874128 -AAAAAATTCTCGTGTTTT-
1 AAAAAAATT-TCGTGTTTTC
4874146 -AAAAAATCTTCGTGTTTTC
1 AAAAAAAT-TTCGTGTTTTC
4874165 --AAAAATCTTCGTGTTTTC
1 AAAAAAAT-TTCGTGTTTTC
*
4874183 ---AAGATTTC-TGTGTTTC
1 AAAAAAATTTCGTGT-TTTC
* *
4874199 -AAAAATTTTCATGTTTTC
1 AAAAAAATTTCGTGTTTTC
4874217 AAAAAAAATTTCTCGTGTTTT-
1 -AAAAAAA-TT-TCGTGTTTTC
* * *
4874238 -AAAAATTTTTGCGTTTT-
1 AAAAAAATTTCGTGTTTTC
* *
4874255 -AAAAATTTTTGTGTTTTC
1 AAAAAAATTTCGTGTTTTC
*
4874273 --AAAAATCCTCGTGTTTTC
1 AAAAAAAT-TTCGTGTTTTC
*
4874291 --AAAAATTCCG-GTGTTTC
1 AAAAAAATTTCGTGT-TTTC
*
4874308 --AAAAATTCCTGTGTTTT-
1 AAAAAAATTTC-GTGTTTTC
4874325 --AAAAATTTCCGTGTTTTC
1 AAAAAAATTT-CGTGTTTTC
*
4874343 AAAAAAAATCTTCGTATTTTC
1 -AAAAAAAT-TTCGTGTTTTC
4874364 AAAAAAATTTCGTG-TTTC
1 AAAAAAATTTCGTGTTTTC
*
4874382 --ACAAATGTTCGTGTTTT-
1 AAAAAAAT-TTCGTGTTTTC
* *
4874399 --AAAATTTTTGTGTTTT-
1 AAAAAAATTTCGTGTTTTC
*
4874415 GAAAAAATTCTCGTGTTTT-
1 AAAAAAATT-TCGTGTTTTC
* *
4874434 -AAAAACTGTCGTGTTTT-
1 AAAAAAATTTCGTGTTTTC
*
4874451 AAAAAAAATTCGTG-TTTC
1 AAAAAAATTTCGTGTTTTC
* *
4874469 -TAAAATTTTCGTG-TTTC
1 AAAAAAATTTCGTGTTTTC
4874486 AAAAA
1 AAAAA
4874491 TTTCTTTTTT
Statistics
Matches: 354, Mismatches: 44, Indels: 75
0.75 0.09 0.16
Matches are distributed among these distances:
15 6 0.02
16 29 0.08
17 102 0.29
18 134 0.38
19 39 0.11
20 18 0.05
21 16 0.05
22 10 0.03
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.45
Consensus pattern (19 bp):
AAAAAAATTTCGTGTTTTC
Found at i:4874368 original size:22 final size:21
Alignment explanation
Indices: 4874325--4874374 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
4874315 CCTGTGTTTT
*
4874325 AAAAATTTCCGTGTTTTCAAA
1 AAAAATTTCCGTATTTTCAAA
4874346 AAAAATCTT-CGTATTTTC-AA
1 AAAAAT-TTCCGTATTTTCAAA
4874366 AAAAATTTC
1 AAAAATTTC
4874375 GTGTTTCACA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 2 0.08
20 8 0.31
21 14 0.54
22 2 0.08
ACGTcount: A:0.42, C:0.14, G:0.06, T:0.38
Consensus pattern (21 bp):
AAAAATTTCCGTATTTTCAAA
Found at i:4874421 original size:126 final size:123
Alignment explanation
Indices: 4874099--4874455 Score: 366
Period size: 126 Copynumber: 2.8 Consensus size: 123
4874089 TTTAAAATTT
4874099 TTCGTGTTTTC-AAAAAATTCTCGTGTTTCAAAAAATTCTCGTGTTTTAAAAAATCTTCGTGTTT
1 TTCGTGTTTTCAAAAAAATT-TCGTGTTTC-AAAAATT-TCGTGTTTT-AAAAATCTTCGTGTTT
* * * * * *
4874163 TCAAAAATCTTCGTGTTTTCAAGATTTCTGTGTTTCAAAAATTTTCATGTTTTCAAAAAAAATT
62 TCAAAAAT-TCCGTG-TTTCAAAAATTCTGTGTTTTAAAAATTTCCATGTTTTCAAAAAAAATC
** * *
4874227 TCTCGTGTTTT-AAAAATTTTTGCGT-TTT-AAAAATTTTTGTGTTTTCAAAAATCCTCGTGTTT
1 T-TCGTGTTTTCAAAAAAATTT-CGTGTTTCAAAAA-TTTCGTGTTTT-AAAAATCTTCGTGTTT
*
4874289 TCAAAAATTCCGGTGTTTCAAAAATTCCTGTGTTTTAAAAATTTCCGTGTTTTCAAAAAAAATC
62 TCAAAAATTCC-GTGTTTCAAAAATT-CTGTGTTTTAAAAATTTCCATGTTTTCAAAAAAAATC
* * * * *
4874353 TTCGTATTTTCAAAAAAATTTCGTGTTTCACAAATGTTCGTGTTTT-AAAATTTTTGTGTTTTGA
1 TTCGTGTTTTCAAAAAAATTTCGTGTTTCAAAAAT-TTCGTGTTTTAAAAATCTTCGTGTTTT-C
*
4874417 AAAAATTCTCGTGTTTTAAAAACTGTC-GTGTTTTAAAAA
64 AAAAATTC-CGTGTTTCAAAAA-T-TCTGTGTTTTAAAAA
4874456 AAATTCGTGT
Statistics
Matches: 193, Mismatches: 22, Indels: 30
0.79 0.09 0.12
Matches are distributed among these distances:
125 35 0.18
126 116 0.60
127 18 0.09
128 6 0.03
129 18 0.09
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (123 bp):
TTCGTGTTTTCAAAAAAATTTCGTGTTTCAAAAATTTCGTGTTTTAAAAATCTTCGTGTTTTCAA
AAATTCCGTGTTTCAAAAATTCTGTGTTTTAAAAATTTCCATGTTTTCAAAAAAAATC
Found at i:4874474 original size:52 final size:51
Alignment explanation
Indices: 4874418--4874535 Score: 130
Period size: 52 Copynumber: 2.3 Consensus size: 51
4874408 GTGTTTTGAA
* *
4874418 AAAATTCTCGTGTTTTAAAAACTGTCGTGTTTTA-AAAAAAATTCGTGTTTC
1 AAAATTCTCGTGTTTCAAAAA-TGTCGTGTTTTAGAAAAAAATTCGTGCTTC
* * * * * *
4874469 TAAAATTTTCGTGTTTCAAAAATTTCTTTTTTTAGAAAAAATTTTGTGCTTC
1 -AAAATTCTCGTGTTTCAAAAATGTCGTGTTTTAGAAAAAAATTCGTGCTTC
4874521 AAAATTCTTCGTGTT
1 AAAATTC-TCGTGTT
4874536 AAAAAAAATT
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
51 15 0.27
52 40 0.73
ACGTcount: A:0.31, C:0.11, G:0.12, T:0.46
Consensus pattern (51 bp):
AAAATTCTCGTGTTTCAAAAATGTCGTGTTTTAGAAAAAAATTCGTGCTTC
Found at i:4874490 original size:17 final size:17
Alignment explanation
Indices: 4874092--4874493 Score: 229
Period size: 18 Copynumber: 22.5 Consensus size: 17
4874082 TCTATTTTTT
*
4874092 AAAATTTTTCGTGTTTTC
1 AAAAATTTTCGTG-TTTC
*
4874110 AAAAAATTCTCGTGTTTC
1 -AAAAATTTTCGTGTTTC
* *
4874128 AAAAAATTCTCGTGTTTTA
1 -AAAAATTTTCGTG-TTTC
*
4874147 AAAAATCTTCGTGTTTTC
1 AAAAATTTTCGTG-TTTC
*
4874165 AAAAATCTTCGTGTTTTC
1 AAAAATTTTCGTG-TTTC
*
4874183 -AAGA-TTTCTGTGTTTC
1 AAAAATTTTC-GTGTTTC
*
4874199 AAAAATTTTCATGTTTTC
1 AAAAATTTTCGTG-TTTC
*
4874217 AAAAAAAATTTCTCGTGTTTT
1 ---AAAAATTT-TCGTGTTTC
* * *
4874238 AAAAATTTTTGCGTTTT
1 AAAAATTTTCGTGTTTC
*
4874255 AAAAATTTTTGTGTTTTC
1 AAAAATTTTCGTG-TTTC
**
4874273 AAAAATCCTCGTGTTTTC
1 AAAAATTTTCGTG-TTTC
*
4874291 AAAAA-TTCCGGTGTTTC
1 AAAAATTTTC-GTGTTTC
* *
4874308 AAAAA-TTCCTGTGTTTT
1 AAAAATTTTC-GTGTTTC
*
4874325 AAAAATTTCCGTGTTTTC
1 AAAAATTTTCGTG-TTTC
* *
4874343 AAAAAAAATCTTCGTATTTTC
1 ---AAAAATTTTCGT-GTTTC
*
4874364 AAAAAAATTTCGTGTTTC
1 -AAAAATTTTCGTGTTTC
* *
4874382 ACAAATGTTCGTGTTT-
1 AAAAATTTTCGTGTTTC
* * *
4874398 TAAAATTTTTGTGTTTTGA
1 AAAAATTTTCGTG-TTT-C
* *
4874417 AAAAATTCTCGTGTTTT
1 AAAAATTTTCGTGTTTC
* * *
4874434 AAAAACTGTCGTGTTTTA
1 AAAAATTTTCGTG-TTTC
**
4874452 AAAAAAATTCGTGTTTC
1 AAAAATTTTCGTGTTTC
*
4874469 TAAAATTTTCGTGTTTC
1 AAAAATTTTCGTGTTTC
4874486 AAAAATTT
1 AAAAATTT
4874494 CTTTTTTTAG
Statistics
Matches: 309, Mismatches: 53, Indels: 44
0.76 0.13 0.11
Matches are distributed among these distances:
16 16 0.05
17 109 0.35
18 120 0.39
19 35 0.11
21 25 0.08
22 4 0.01
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (17 bp):
AAAAATTTTCGTGTTTC
Found at i:4874542 original size:52 final size:51
Alignment explanation
Indices: 4874447--4874547 Score: 123
Period size: 52 Copynumber: 2.0 Consensus size: 51
4874437 AACTGTCGTG
* ** *
4874447 TTTTAAAAAAAATTCGTGTTTCTAAAATTTTCGTGTTTCAAAAATTTCTTT
1 TTTTAAAAAAAATTCGTGCTTCTAAAATTTTCGTGTTAAAAAAAATTCTTT
* *
4874498 TTTTAGAAAAAATTTTGTGCTTC-AAAATTCTTCGTGTTAAAAAAAATTCT
1 TTTTA-AAAAAAATTCGTGCTTCTAAAATT-TTCGTGTTAAAAAAAATTCT
4874548 CGTATTTTGA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
51 11 0.26
52 31 0.74
ACGTcount: A:0.36, C:0.10, G:0.09, T:0.46
Consensus pattern (51 bp):
TTTTAAAAAAAATTCGTGCTTCTAAAATTTTCGTGTTAAAAAAAATTCTTT
Found at i:4875277 original size:14 final size:15
Alignment explanation
Indices: 4875250--4875284 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
4875240 ACTTTTGAAT
*
4875250 AATTTTTATTTTTAA
1 AATTTTTATATTTAA
4875265 AATTTTT-TATTTAA
1 AATTTTTATATTTAA
4875279 AATTTT
1 AATTTT
4875285 AAATTAAGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
AATTTTTATATTTAA
Found at i:4876833 original size:18 final size:18
Alignment explanation
Indices: 4876799--4877119 Score: 247
Period size: 18 Copynumber: 17.9 Consensus size: 18
4876789 AATTAAAAAA
*
4876799 AAACACGA-AAGTTTTTG
1 AAACACGAGAATTTTTTG
4876816 AAACACGAGAATTTTTTG
1 AAACACGAGAATTTTTTG
*
4876834 AAAACACGAAAATTTTTT-
1 -AAACACGAGAATTTTTTG
* * *
4876852 AAATACGA-AAATTTTTA
1 AAACACGAGAATTTTTTG
*
4876869 AAACACGACAA-TTTTTG
1 AAACACGAGAATTTTTTG
* *
4876886 AAAGACAAGAATTTTTTG
1 AAACACGAGAATTTTTTG
*
4876904 AATCACTG-GAA-TTTTTG
1 AAACAC-GAGAATTTTTTG
*
4876921 AAAACACGA-AAATTTTTG
1 -AAACACGAGAATTTTTTG
4876939 AAACACCG-GAA-TTTTTG
1 AAACA-CGAGAATTTTTTG
* * *
4876956 AAAATATGAGGATTTTTTG
1 -AAACACGAGAATTTTTTG
*
4876975 AAACACG-GAAATTTTTG
1 AAACACGAGAATTTTTTG
* *
4876992 AAAACACCATAATTTTTTG
1 -AAACACGAGAATTTTTTG
4877011 AAACACGAGAATTTTTTG
1 AAACACGAGAATTTTTTG
4877029 AAACACCG-GAA-TTTTTG
1 AAACA-CGAGAATTTTTTG
* *
4877046 AAAAATGATG-ATTTTTTG
1 AAACACGA-GAATTTTTTG
*
4877064 AAACACG-GAAATTTTTG
1 AAACACGAGAATTTTTTG
*
4877081 AAAACACGAAAATTTTTTTTG
1 -AAACACGAGAA--TTTTTTG
*
4877102 AAACACAAGAAATTTTTT
1 AAACACGAG-AATTTTTT
4877120 TTATTGAAGA
Statistics
Matches: 244, Mismatches: 34, Indels: 50
0.74 0.10 0.15
Matches are distributed among these distances:
16 9 0.04
17 82 0.34
18 98 0.40
19 40 0.16
20 7 0.03
21 8 0.03
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.34
Consensus pattern (18 bp):
AAACACGAGAATTTTTTG
Found at i:4876868 original size:16 final size:17
Alignment explanation
Indices: 4876758--4877097 Score: 152
Period size: 18 Copynumber: 19.3 Consensus size: 17
4876748 GAGAATTTTC
*
4876758 TTTTTAAAACACGAGAA
1 TTTTTAAAACACGAAAA
* *
4876775 -TTTTGAAGCACGAAAA
1 TTTTTAAAACACGAAAA
*** *
4876791 TTAAAAAAAAACACGAAAG
1 TT--TTTAAAACACGAAAA
* *
4876810 TTTTTGAAACACGAGAAT
1 TTTTTAAAACACGA-AAA
4876828 TTTTTGAAAACACGAAAA
1 TTTTT-AAAACACGAAAA
* *
4876846 TTTTTTAAATACGAAAA
1 TTTTTAAAACACGAAAA
*
4876863 TTTTTAAAACACGACAA
1 TTTTTAAAACACGAAAA
* *
4876880 TTTTTGAAAGACAAG-AAT
1 TTTTT-AAA-ACACGAAAA
* * *
4876898 TTTTTGAATCACTG-GAA
1 TTTTTAAAACAC-GAAAA
4876915 TTTTTGAAAACACGAAAA
1 TTTTT-AAAACACGAAAA
* *
4876933 TTTTTGAAACACCG-GAA
1 TTTTTAAAACA-CGAAAA
* * * *
4876950 TTTTTGAAAATATGAGGAT
1 TTTTT-AAAACACGA-AAA
* *
4876969 TTTTTGAAACACGGAAA
1 TTTTTAAAACACGAAAA
* *
4876986 TTTTTGAAAACACCATAAT
1 TTTTT-AAAACACGA-AAA
* *
4877005 TTTTTGAAACACGAGAAT
1 TTTTTAAAACACGA-AAA
* *
4877023 TTTTTGAAACACCG-GAA
1 TTTTTAAAACA-CGAAAA
* * *
4877040 TTTTTGAAAA-ATGATGAT
1 TTTTT-AAAACACGA-AAA
* *
4877058 TTTTTGAAACACGGAAA
1 TTTTTAAAACACGAAAA
4877075 TTTTTGAAAACACGAAAA
1 TTTTT-AAAACACGAAAA
4877093 TTTTT
1 TTTTT
4877098 TTTGAAACAC
Statistics
Matches: 238, Mismatches: 63, Indels: 43
0.69 0.18 0.12
Matches are distributed among these distances:
16 16 0.07
17 83 0.35
18 100 0.42
19 39 0.16
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.33
Consensus pattern (17 bp):
TTTTTAAAACACGAAAA
Found at i:4876917 original size:35 final size:34
Alignment explanation
Indices: 4876799--4877097 Score: 184
Period size: 35 Copynumber: 8.4 Consensus size: 34
4876789 AATTAAAAAA
*
4876799 AAACACGAAAGTTTTTG-AAACACGAGAATTTTTTG
1 AAACACGGAA-TTTTTGAAAACAC-AGAATTTTTTG
* * *
4876834 AAAACACGAAAATTTTTTAAATACGA-A-AA-TTTTTA
1 -AAACACG-GAATTTTTGAAA-AC-ACAGAATTTTTTG
*
4876869 AAACACGACAATTTTTGAAAGACA-AGAATTTTTTG
1 AAACACG-GAATTTTTGAAA-ACACAGAATTTTTTG
* *
4876904 AATCACTGGAATTTTTGAAAACAC-GAAAATTTTTG
1 AAACAC-GGAATTTTTGAAAACACAG-AATTTTTTG
* * *
4876939 AAACACCGGAATTTTTGAAAATATGAGGATTTTTTG
1 AAACA-CGGAATTTTTGAAAACA-CAGAATTTTTTG
*
4876975 AAACACGGAAATTTTTGAAAACACCATAATTTTTTG
1 AAACACGG-AATTTTTGAAAACA-CAGAATTTTTTG
*
4877011 AAACACGAGAATTTTTTG-AAACACCGGAA-TTTTTG
1 AAACACG-GAA-TTTTTGAAAACA-CAGAATTTTTTG
* * * * *
4877046 AAAAATGATGATTTTTTG-AAACACGGAAATTTTTG
1 AAACACG--GAATTTTTGAAAACACAGAATTTTTTG
*
4877081 AAAACACGAAAATTTTT
1 -AAACACG-GAATTTTT
4877098 TTTGAAACAC
Statistics
Matches: 215, Mismatches: 30, Indels: 37
0.76 0.11 0.13
Matches are distributed among these distances:
33 2 0.01
34 31 0.14
35 90 0.42
36 75 0.35
37 14 0.07
38 2 0.01
39 1 0.00
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (34 bp):
AAACACGGAATTTTTGAAAACACAGAATTTTTTG
Found at i:4876999 original size:54 final size:54
Alignment explanation
Indices: 4876799--4877097 Score: 257
Period size: 53 Copynumber: 5.6 Consensus size: 54
4876789 AATTAAAAAA
* * * *
4876799 AAACACGA-AAGTTTTTGAAACACGAGAATTTTTTGAAAACACGAAAATTTTTT-
1 AAACACGAGAATTTTTTGAAACACG-GAAATTTTTGAAAACACCAGAATTTTTTG
* * *
4876852 AAATACGA-AAATTTTTAAAACAC-GACAATTTTTGAAAGACA--AGAATTTTTTG
1 AAACACGAGAATTTTTTGAAACACGGA-AATTTTTGAAA-ACACCAGAATTTTTTG
* * *
4876904 AATCACTG-GAA-TTTTTGAAAACACGAAAATTTTTG-AAACACCGGAA-TTTTTG
1 AAACAC-GAGAATTTTTTG-AAACACGGAAATTTTTGAAAACACCAGAATTTTTTG
* * * *
4876956 AAAATATGAGGATTTTTTGAAACACGGAAATTTTTGAAAACACCATAATTTTTTG
1 -AAACACGAGAATTTTTTGAAACACGGAAATTTTTGAAAACACCAGAATTTTTTG
**
4877011 AAACACGAGAATTTTTTGAAACACCGG-AATTTTTGAAAA-ATGATG-ATTTTTTG
1 AAACACGAGAATTTTTTGAAACA-CGGAAATTTTTGAAAACACCA-GAATTTTTTG
* *
4877064 AAACACG-GAAATTTTTGAAAACACGAAAATTTTT
1 AAACACGAGAATTTTTTG-AAACACGGAAATTTTT
4877098 TTTGAAACAC
Statistics
Matches: 203, Mismatches: 25, Indels: 36
0.77 0.09 0.14
Matches are distributed among these distances:
51 14 0.07
52 39 0.19
53 93 0.46
54 48 0.24
55 9 0.04
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (54 bp):
AAACACGAGAATTTTTTGAAACACGGAAATTTTTGAAAACACCAGAATTTTTTG
Found at i:4877101 original size:21 final size:21
Alignment explanation
Indices: 4877075--4877186 Score: 69
Period size: 20 Copynumber: 5.5 Consensus size: 21
4877065 AACACGGAAA
4877075 TTTTTGAAAACACGAAAATTT
1 TTTTTGAAAACACGAAAATTT
* *
4877096 TTTTTGAAACACAAGAAATTTTT
1 TTTTTGAAA-ACACGAAA-ATTT
* *
4877119 TTTATTGAAGACATGAAAA---
1 TTT-TTGAAAACACGAAAATTT
*
4877138 -TTTCG-AAACTAGCG--AATTT
1 TTTTTGAAAAC-A-CGAAAATTT
4877157 TTTTTGAAAACACG-AAATTT
1 TTTTTGAAAACACGAAAATTT
*
4877177 TTTTTAAAAA
1 TTTTTGAAAA
4877187 TATTTTTAAC
Statistics
Matches: 70, Mismatches: 10, Indels: 23
0.68 0.10 0.22
Matches are distributed among these distances:
16 5 0.07
17 3 0.04
18 3 0.04
19 2 0.03
20 19 0.27
21 13 0.19
22 7 0.10
23 13 0.19
24 5 0.07
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.39
Consensus pattern (21 bp):
TTTTTGAAAACACGAAAATTT
Found at i:4877175 original size:20 final size:20
Alignment explanation
Indices: 4877075--4877185 Score: 72
Period size: 21 Copynumber: 5.5 Consensus size: 20
4877065 AACACGGAAA
4877075 TTTTTGAAAACACGAAAATTT
1 TTTTTGAAAACACG-AAATTT
*
4877096 TTTTTGAAACACAAGAAATTTTT
1 TTTTTGAAA-ACACGAAA--TTT
* *
4877119 TTTATTGAAGACATGAAA---
1 TTT-TTGAAAACACGAAATTT
* *
4877137 ATTTCG-AAACTAGCG-AATTT
1 TTTTTGAAAAC-A-CGAAATTT
4877157 TTTTTGAAAACACGAAATTT
1 TTTTTGAAAACACGAAATTT
4877177 TTTTT-AAAA
1 TTTTTGAAAA
4877186 ATATTTTTAA
Statistics
Matches: 70, Mismatches: 9, Indels: 24
0.68 0.09 0.23
Matches are distributed among these distances:
16 3 0.04
17 5 0.07
18 3 0.04
19 6 0.09
20 15 0.21
21 16 0.23
22 4 0.06
23 13 0.19
24 5 0.07
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.40
Consensus pattern (20 bp):
TTTTTGAAAACACGAAATTT
Found at i:4877525 original size:19 final size:20
Alignment explanation
Indices: 4877501--4877543 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
4877491 AATTGAACCC
4877501 TTTTCTTTCTTTCCTC-CTT
1 TTTTCTTTCTTTCCTCTCTT
* *
4877520 TTTTCTTTTTTTCTTCTCTT
1 TTTTCTTTCTTTCCTCTCTT
4877540 TTTT
1 TTTT
4877544 TCTTCTCTGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTTCTTTCTTTCCTCTCTT
Found at i:4877541 original size:13 final size:13
Alignment explanation
Indices: 4877523--4877551 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
4877513 CCTCCTTTTT
4877523 TCTTTTTTTCTTC
1 TCTTTTTTTCTTC
4877536 TCTTTTTTTCTTC
1 TCTTTTTTTCTTC
4877549 TCT
1 TCT
4877552 GCTGGGCCGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
TCTTTTTTTCTTC
Found at i:4877541 original size:18 final size:19
Alignment explanation
Indices: 4877500--4877547 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
4877490 AAATTGAACC
4877500 CTTTTCTTTCTTTCCTCCT
1 CTTTTCTTTCTTTCCTCCT
* * *
4877519 TTTTTCTTT-TTTTCTTCT
1 CTTTTCTTTCTTTCCTCCT
4877537 CTTTT-TTTCTT
1 CTTTTCTTTCTT
4877548 CTCTGCTGGG
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 3 0.12
18 13 0.54
19 8 0.33
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (19 bp):
CTTTTCTTTCTTTCCTCCT
Found at i:4877688 original size:23 final size:25
Alignment explanation
Indices: 4877645--4877697 Score: 83
Period size: 23 Copynumber: 2.2 Consensus size: 25
4877635 GGGCTTTGGG
*
4877645 CTGCTTCTTTCTTTTCATTTTTTTT
1 CTGCTGCTTTCTTTTCATTTTTTTT
4877670 CTGCTGCTTT-TTTTC-TTTTTTTT
1 CTGCTGCTTTCTTTTCATTTTTTTT
4877693 CTGCT
1 CTGCT
4877698 TTGTTTTTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 13 0.48
24 5 0.19
25 9 0.33
ACGTcount: A:0.02, C:0.21, G:0.08, T:0.70
Consensus pattern (25 bp):
CTGCTGCTTTCTTTTCATTTTTTTT
Found at i:4877696 original size:20 final size:23
Alignment explanation
Indices: 4877645--4877704 Score: 63
Period size: 25 Copynumber: 2.7 Consensus size: 23
4877635 GGGCTTTGGG
* *
4877645 CTGCTTCTTTCTTTTCATTTTTTTT
1 CTGCTGCTTTGTTTTC--TTTTTTT
4877670 CTGCTGCTTT-TTTTCTTTTTTT
1 CTGCTGCTTTGTTTTCTTTTTTT
4877692 -T-CTGCTTTGTTTT
1 CTGCTGCTTTGTTTT
4877705 TTGGGGGGGC
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 7 0.21
21 5 0.15
22 7 0.21
24 5 0.15
25 9 0.27
ACGTcount: A:0.02, C:0.18, G:0.08, T:0.72
Consensus pattern (23 bp):
CTGCTGCTTTGTTTTCTTTTTTT
Found at i:4877811 original size:21 final size:21
Alignment explanation
Indices: 4877759--4877801 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
4877749 GGTCGGGTCA
4877759 CCAGATCGGGTCAGATCGGAT
1 CCAGATCGGGTCAGATCGGAT
* *
4877780 CCAGATTGGGTCGGATCGGAT
1 CCAGATCGGGTCAGATCGGAT
4877801 C
1 C
4877802 TGGGTCGGGT
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:0.21, C:0.23, G:0.35, T:0.21
Consensus pattern (21 bp):
CCAGATCGGGTCAGATCGGAT
Found at i:4877879 original size:4 final size:4
Alignment explanation
Indices: 4877857--4877900 Score: 51
Period size: 4 Copynumber: 11.8 Consensus size: 4
4877847 TCTTTCCCTC
4877857 TTCT TT-T TTC- TTC- TTCT TTCT TTCT TTCT CTT-T TTCT TTCT TTC
1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT -TTCT TTCT TTCT TTC
4877901 CCGATCAGCC
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
3 11 0.31
4 23 0.64
5 2 0.06
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (4 bp):
TTCT
Found at i:4878495 original size:30 final size:29
Alignment explanation
Indices: 4878413--4878495 Score: 103
Period size: 29 Copynumber: 2.8 Consensus size: 29
4878403 ATTTTGGAAT
** *
4878413 ATTTAGGGGTCAAAAGGTAATTTCAAGAAA
1 ATTTA-GGGTCAAAATATAATTTTAAGAAA
* *
4878443 GTTTAGGGTCAGAATATAATTTTAAGAAA
1 ATTTAGGGTCAAAATATAATTTTAAGAAA
4878472 ATTTAGAGGTCAAAATATAATTTT
1 ATTTAG-GGTCAAAATATAATTTT
4878496 GTAAAAAATA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 25 0.56
30 20 0.44
ACGTcount: A:0.42, C:0.05, G:0.19, T:0.34
Consensus pattern (29 bp):
ATTTAGGGTCAAAATATAATTTTAAGAAA
Found at i:4878501 original size:29 final size:28
Alignment explanation
Indices: 4878401--4878495 Score: 91
Period size: 29 Copynumber: 3.2 Consensus size: 28
4878391 GGTCGAAGTG
* * **
4878401 TAATTTTGGAATATTTAGGGGTCAAAAGG
1 TAATTTTAGAAAATTTA-GGGTCAAAATA
* * *
4878430 TAATTTCAAGAAAGTTTAGGGTCAGAATA
1 TAATTT-TAGAAAATTTAGGGTCAAAATA
4878459 TAATTTTAAGAAAATTTAGAGGTCAAAATA
1 TAATTTT-AGAAAATTTAG-GGTCAAAATA
4878489 TAATTTT
1 TAATTTT
4878496 GTAAAAAATA
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
29 30 0.57
30 23 0.43
ACGTcount: A:0.41, C:0.04, G:0.19, T:0.36
Consensus pattern (28 bp):
TAATTTTAGAAAATTTAGGGTCAAAATA
Found at i:4880605 original size:31 final size:29
Alignment explanation
Indices: 4880570--4880635 Score: 69
Period size: 31 Copynumber: 2.1 Consensus size: 29
4880560 ATTTCTTTAA
* *
4880570 ATGTACATGATTGAATCAAAATTAAAGTTTC
1 ATGTACAT--TTGAACCAAAATCAAAGTTTC
*
4880601 ATGTATACATTTGAACCACAATCAAAGTTTC
1 ATG--TACATTTGAACCAAAATCAAAGTTTC
4880632 ATGT
1 ATGT
4880636 GTATAATTAC
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
29 1 0.03
31 24 0.80
33 5 0.17
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.35
Consensus pattern (29 bp):
ATGTACATTTGAACCAAAATCAAAGTTTC
Found at i:4884680 original size:17 final size:17
Alignment explanation
Indices: 4884641--4884683 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
4884631 AATTTTACAA
*
4884641 ATTAT-AAAATAGTTAT
1 ATTATAAAAATAATTAT
**
4884657 AAAATAAAAATAATTAT
1 ATTATAAAAATAATTAT
4884674 ATTATAAAAA
1 ATTATAAAAA
4884684 ATATTTAATA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
16 3 0.14
17 18 0.86
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (17 bp):
ATTATAAAAATAATTAT
Found at i:4887998 original size:3 final size:3
Alignment explanation
Indices: 4887990--4888060 Score: 142
Period size: 3 Copynumber: 23.7 Consensus size: 3
4887980 CATGTAATGT
4887990 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
4888038 TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TT
4888061 ACAATAGTTT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:4889880 original size:19 final size:18
Alignment explanation
Indices: 4889840--4889889 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
4889830 TGAAAAAGAA
4889840 TTATATTTTTCAAATTAAT
1 TTATATTTTT-AAATTAAT
**
4889859 TTATATTTTTAAAGTTTTT
1 TTATATTTTTAAA-TTAAT
4889878 TTA-ATTTTTAAA
1 TTATATTTTTAAA
4889890 ATTTATAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 12 0.43
19 16 0.57
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (18 bp):
TTATATTTTTAAATTAAT
Found at i:4897218 original size:20 final size:20
Alignment explanation
Indices: 4897193--4897230 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
4897183 AATCTTTTTA
*
4897193 TTTTCTTTAACATTCAATCC
1 TTTTCTTTAACATGCAATCC
4897213 TTTTCTTTAACATGCAAT
1 TTTTCTTTAACATGCAAT
4897231 ATTTAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.21, G:0.03, T:0.50
Consensus pattern (20 bp):
TTTTCTTTAACATGCAATCC
Found at i:4905633 original size:20 final size:19
Alignment explanation
Indices: 4905610--4905661 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
4905600 AATAAAAATA
4905610 AATAAAAGTTATTAAATTTT
1 AATAAAA-TTATTAAATTTT
*
4905630 AATAAAAATATTTAAATTTT
1 AATAAAATTA-TTAAATTTT
*
4905650 ATTAAAAATTAT
1 AAT-AAAATTAT
4905662 AAAAAAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 2 0.07
20 19 0.70
21 6 0.22
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (19 bp):
AATAAAATTATTAAATTTT
Found at i:4905668 original size:12 final size:12
Alignment explanation
Indices: 4905653--4905678 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4905643 AAATTTTATT
4905653 AAAAATTATAAA
1 AAAAATTATAAA
4905665 AAAAATTATAAA
1 AAAAATTATAAA
4905677 AA
1 AA
4905679 TCATAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (12 bp):
AAAAATTATAAA
Found at i:4906222 original size:10 final size:10
Alignment explanation
Indices: 4906209--4906266 Score: 55
Period size: 10 Copynumber: 5.8 Consensus size: 10
4906199 TGTATTTTAT
4906209 TTTTTTATAA
1 TTTTTTATAA
4906219 -TTTTTATAA
1 TTTTTTATAA
** *
4906228 AATTTTACAA
1 TTTTTTATAA
4906238 TTTTTTATAA
1 TTTTTTATAA
**
4906248 TTTTTGTACGA
1 TTTTT-TATAA
4906259 TTTTTTAT
1 TTTTTTAT
4906267 TTTTTCTAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
9 9 0.24
10 21 0.55
11 8 0.21
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.64
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:4906224 original size:9 final size:9
Alignment explanation
Indices: 4906210--4906279 Score: 52
Period size: 9 Copynumber: 7.4 Consensus size: 9
4906200 GTATTTTATT
4906210 TTTTTATAA
1 TTTTTATAA
4906219 TTTTTATAAA
1 TTTTTAT-AA
* *
4906229 ATTTTACAA
1 TTTTTATAA
4906238 TTTTTTATAA
1 -TTTTTATAA
*
4906248 TTTTTGTACGA
1 TTTTTATA--A
*
4906259 TTTTT-TAT
1 TTTTTATAA
*
4906267 TTTTTCTAA
1 TTTTTATAA
4906276 TTTT
1 TTTT
4906280 ATTTAATTAA
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
8 5 0.10
9 22 0.45
10 16 0.33
11 6 0.12
ACGTcount: A:0.27, C:0.04, G:0.03, T:0.66
Consensus pattern (9 bp):
TTTTTATAA
Found at i:4906261 original size:29 final size:28
Alignment explanation
Indices: 4906209--4906279 Score: 79
Period size: 29 Copynumber: 2.5 Consensus size: 28
4906199 TGTATTTTAT
4906209 TTTTTTATAATTTTTATAAAATTTTACAA
1 TTTTTTATAATTTTTATAAAATTTT-CAA
* ** **
4906238 TTTTTTATAATTTTTGTACGATTTTTTA
1 TTTTTTATAATTTTTATAAAATTTTCAA
*
4906266 TTTTTTCTAATTTT
1 TTTTTTATAATTTT
4906280 ATTTAATTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
28 14 0.39
29 22 0.61
ACGTcount: A:0.27, C:0.04, G:0.03, T:0.66
Consensus pattern (28 bp):
TTTTTTATAATTTTTATAAAATTTTCAA
Found at i:4910774 original size:15 final size:16
Alignment explanation
Indices: 4910754--4910791 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
4910744 ACATAGATAG
4910754 TATATACAAT-ATATA
1 TATATACAATCATATA
*
4910769 TATATATAATGCATATA
1 TATATACAAT-CATATA
4910786 TATATA
1 TATATA
4910792 TCAAAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 9 0.45
17 11 0.55
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (16 bp):
TATATACAATCATATA
Found at i:4913795 original size:58 final size:58
Alignment explanation
Indices: 4913705--4913820 Score: 232
Period size: 58 Copynumber: 2.0 Consensus size: 58
4913695 TTGATGGACA
4913705 AGTATGTTTTTTGGGTGACCTTTTTTGTTTCTTATGTAATTGTATTACTGGTTATTGT
1 AGTATGTTTTTTGGGTGACCTTTTTTGTTTCTTATGTAATTGTATTACTGGTTATTGT
4913763 AGTATGTTTTTTGGGTGACCTTTTTTGTTTCTTATGTAATTGTATTACTGGTTATTGT
1 AGTATGTTTTTTGGGTGACCTTTTTTGTTTCTTATGTAATTGTATTACTGGTTATTGT
4913821 TCTCGTCCTG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.16, C:0.07, G:0.21, T:0.57
Consensus pattern (58 bp):
AGTATGTTTTTTGGGTGACCTTTTTTGTTTCTTATGTAATTGTATTACTGGTTATTGT
Found at i:4915913 original size:44 final size:44
Alignment explanation
Indices: 4915863--4915966 Score: 190
Period size: 44 Copynumber: 2.3 Consensus size: 44
4915853 TCCTTAATAC
4915863 AATGGATATTTGATTGATTTTTTAGTAGGACGATAATCAAGGTG
1 AATGGATATTTGATTGATTTTTTAGTAGGACGATAATCAAGGTG
*
4915907 AATGGATATTTGATTGATTTTTTAGTAGGACGATAATCAGGGTG
1 AATGGATATTTGATTGATTTTTTAGTAGGACGATAATCAAGGTG
4915951 AATGGATATTGTGATT
1 AATGGATATT-TGATT
4915967 CAAGCTATGC
Statistics
Matches: 58, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
44 53 0.91
45 5 0.09
ACGTcount: A:0.31, C:0.04, G:0.26, T:0.39
Consensus pattern (44 bp):
AATGGATATTTGATTGATTTTTTAGTAGGACGATAATCAAGGTG
Found at i:4925278 original size:22 final size:22
Alignment explanation
Indices: 4925253--4925295 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
4925243 TATCCAAATA
4925253 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
** *
4925275 ATAATTATAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
4925296 AATAGTGAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.12, G:0.09, T:0.21
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:4931622 original size:15 final size:17
Alignment explanation
Indices: 4931597--4931630 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
4931587 TGAATATTTT
4931597 AATTATTATTTTTA-AA
1 AATTATTATTTTTACAA
4931613 AATT-TTATTTTTACAA
1 AATTATTATTTTTACAA
4931629 AA
1 AA
4931631 ATTGCATACC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
AATTATTATTTTTACAA
Found at i:4934898 original size:30 final size:30
Alignment explanation
Indices: 4934863--4934921 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
4934853 AAAACTCTTT
4934863 AATTTCTCCCTAAATTTCTCAAAGCTCTCA
1 AATTTCTCCCTAAATTTCTCAAAGCTCTCA
*
4934893 AATTTCTCCTTAAATTTCTCAAAGCTCTC
1 AATTTCTCCCTAAATTTCTCAAAGCTCTC
4934922 TTTAATTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.29, C:0.29, G:0.03, T:0.39
Consensus pattern (30 bp):
AATTTCTCCCTAAATTTCTCAAAGCTCTCA
Found at i:4936684 original size:18 final size:18
Alignment explanation
Indices: 4936661--4936704 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
4936651 ATGCCAAGTG
*
4936661 TGTATCCTAGCCCTTATA
1 TGTATCCTAACCCTTATA
4936679 TGTATCCTAACCCTTATA
1 TGTATCCTAACCCTTATA
*
4936697 TGTTTCCT
1 TGTATCCT
4936705 TTTTCCAGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.20, C:0.27, G:0.09, T:0.43
Consensus pattern (18 bp):
TGTATCCTAACCCTTATA
Found at i:4940770 original size:29 final size:29
Alignment explanation
Indices: 4940736--4940792 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
4940726 ATTTGATTAT
*
4940736 TTTTAATATTATAAGGACTAAATTAATTC
1 TTTTAATAATATAAGGACTAAATTAATTC
* *
4940765 TTTTAATAATATAAGGATTAATTTAATT
1 TTTTAATAATATAAGGACTAAATTAATT
4940793 TAGTTAGCAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.47
Consensus pattern (29 bp):
TTTTAATAATATAAGGACTAAATTAATTC
Found at i:4942781 original size:31 final size:31
Alignment explanation
Indices: 4942746--4942810 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
4942736 ATTTTTTTTG
* *
4942746 AAAAAATATA-GAACTAAGTTAATTTTATAGA
1 AAAAAATA-AGGAACTAAGCTAATTTTAAAGA
* *
4942777 AAAAATTAAGGAACTAGGCTAATTTTAAAGA
1 AAAAAATAAGGAACTAAGCTAATTTTAAAGA
4942808 AAA
1 AAA
4942811 GTTATTAGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 1 0.03
31 28 0.97
ACGTcount: A:0.55, C:0.05, G:0.12, T:0.28
Consensus pattern (31 bp):
AAAAAATAAGGAACTAAGCTAATTTTAAAGA
Found at i:4943347 original size:5 final size:5
Alignment explanation
Indices: 4943337--4943362 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
4943327 TATATTTCTT
4943337 TTATA TTATA TTATA TTATA TTATA T
1 TTATA TTATA TTATA TTATA TTATA T
4943363 GTTATATTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TTATA
Found at i:4945215 original size:25 final size:25
Alignment explanation
Indices: 4945186--4945252 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
4945176 TCTCGATCCA
**
4945186 TATAATAGGAAGCTCAT-GTGAGCTG
1 TATAATAGGAAGCTCATCCAG-GCTG
* *
4945211 TATAATAGAAAGCTTATCCAGGCTG
1 TATAATAGGAAGCTCATCCAGGCTG
*
4945236 TATAACAGGAAGCTCAT
1 TATAATAGGAAGCTCAT
4945253 AAGAGCCATA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
25 33 0.97
26 1 0.03
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (25 bp):
TATAATAGGAAGCTCATCCAGGCTG
Found at i:4945429 original size:26 final size:26
Alignment explanation
Indices: 4945360--4945429 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 26
4945350 AGCGAGCTAT
*
4945360 ATCGGGAAGCTC-CGGAGAGCCATTA
1 ATCGGGAAGCTCACGAAGAGCCATTA
** ** *
4945385 ATCAAGAAGCTCATAAAGAGCCTTTA
1 ATCGGGAAGCTCACGAAGAGCCATTA
4945411 ATCGGGAAGCTCACGAAGA
1 ATCGGGAAGCTCACGAAGA
4945430 ACCACATATC
Statistics
Matches: 34, Mismatches: 10, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
25 10 0.29
26 24 0.71
ACGTcount: A:0.36, C:0.21, G:0.26, T:0.17
Consensus pattern (26 bp):
ATCGGGAAGCTCACGAAGAGCCATTA
Found at i:4956912 original size:4 final size:4
Alignment explanation
Indices: 4956898--4956928 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
4956888 TATAATTTTT
4956898 ATTA ATT- ATTA ATTA ATTA ATTA ATTA ATTA
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA
4956929 TTAGACTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
ATTA
Found at i:4956938 original size:12 final size:11
Alignment explanation
Indices: 4956898--4956931 Score: 59
Period size: 11 Copynumber: 3.0 Consensus size: 11
4956888 TATAATTTTT
4956898 ATTAATTATTA
1 ATTAATTATTA
4956909 ATTAATTAATTA
1 ATTAATT-ATTA
4956921 ATTAATTATTA
1 ATTAATTATTA
4956932 GACTAATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
ATTAATTATTA
Found at i:4958178 original size:22 final size:24
Alignment explanation
Indices: 4958152--4958200 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
4958142 CTGCTCATAT
*
4958152 TTATATAAT-TAAAATATTTA-TA
1 TTATATAATATAAAACATTTATTA
*
4958174 TTATATACTATAAAACATTTATTA
1 TTATATAATATAAAACATTTATTA
4958198 TTA
1 TTA
4958201 AATATTTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 8 0.35
23 10 0.43
24 5 0.22
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (24 bp):
TTATATAATATAAAACATTTATTA
Found at i:4963794 original size:16 final size:16
Alignment explanation
Indices: 4963773--4963803 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4963763 TATAAGTATA
4963773 TATATAAAATATAAAG
1 TATATAAAATATAAAG
*
4963789 TATATAAAATTTAAA
1 TATATAAAATATAAA
4963804 AAAAATATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (16 bp):
TATATAAAATATAAAG
Found at i:4964934 original size:16 final size:16
Alignment explanation
Indices: 4964913--4964956 Score: 79
Period size: 16 Copynumber: 2.8 Consensus size: 16
4964903 TTTGGTTCGC
*
4964913 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGA
4964929 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGA
4964945 TGTATTGGATTA
1 TGTATTGGATTA
4964957 CTGATTCAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.27, C:0.00, G:0.32, T:0.41
Consensus pattern (16 bp):
TGTATTGGATTAGAGA
Found at i:4966194 original size:12 final size:11
Alignment explanation
Indices: 4966158--4966210 Score: 54
Period size: 11 Copynumber: 4.7 Consensus size: 11
4966148 ATTTTTTAAA
4966158 TTTTAAAATAT
1 TTTTAAAATAT
* *
4966169 TCTAAAAATAT
1 TTTTAAAATAT
4966180 TTTTAAAATACTT
1 TTTTAAAATA--T
*
4966193 TTTTTAAAT-T
1 TTTTAAAATAT
4966203 TTTTAAAA
1 TTTTAAAA
4966211 AAATTGGTGT
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
10 8 0.24
11 17 0.50
13 9 0.26
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:4973641 original size:20 final size:22
Alignment explanation
Indices: 4973618--4973663 Score: 53
Period size: 20 Copynumber: 2.2 Consensus size: 22
4973608 CAAAAATTAC
4973618 AAAATAATT-AAAAAATTT-TA
1 AAAATAATTCAAAAAATTTATA
* *
4973638 AAAA-ATTTCAAAATATTTATA
1 AAAATAATTCAAAAAATTTATA
4973659 AAAAT
1 AAAAT
4973664 TTCAAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
19 3 0.14
20 12 0.57
21 6 0.29
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (22 bp):
AAAATAATTCAAAAAATTTATA
Done.