Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 399 of 427
Found at i:115665206 original size:58 final size:57
Alignment explanation
Indices: 115665116--115665280 Score: 234
Period size: 51 Copynumber: 3.0 Consensus size: 57
115665106 ACTTCTGATC
* * *
115665116 AGTGACAAGTGATAAGTGGTAGCCTCAACTACACTTATCTGATCAGTGATAAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGA-AAGTGACA
115665174 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC------AGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGAAAGTGACA
*
115665225 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGA-AAGTGA
115665281 TAAATGTGAT
Statistics
Matches: 96, Mismatches: 4, Indels: 14
0.84 0.04 0.12
Matches are distributed among these distances:
51 50 0.52
58 46 0.48
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (57 bp):
AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGAAAGTGACA
Found at i:115673087 original size:35 final size:36
Alignment explanation
Indices: 115672959--115673090 Score: 151
Period size: 35 Copynumber: 3.6 Consensus size: 36
115672949 TCCTCATTGA
** *
115672959 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTATGGGAT
* **
115672994 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTATGG----GAT
*
115673034 AATACCATACCTACATTTCACAGCTCAGTAT-GGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGGAT
115673069 AATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
115673091 CTTTGCCATG
Statistics
Matches: 84, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
35 54 0.64
39 3 0.04
40 27 0.32
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (36 bp):
AATACCATACCTACATTTCACAACTCAGTATGGGAT
Found at i:115680466 original size:35 final size:35
Alignment explanation
Indices: 115680422--115680588 Score: 201
Period size: 35 Copynumber: 4.6 Consensus size: 35
115680412 TCCTCATTGA
** *
115680422 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
115680457 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
115680497 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
115680532 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
115680567 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
115680589 CTTTGCCATG
Statistics
Matches: 117, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
35 87 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:115680505 original size:75 final size:73
Alignment explanation
Indices: 115680417--115680588 Score: 226
Period size: 75 Copynumber: 2.4 Consensus size: 73
115680407 GGTTTTCCTC
** * * **
115680417 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
115680481 TCAGTATGG
65 TCAGTATGG
*
115680490 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
115680555 CTCAGTATGG
64 CTCAGTATGG
115680565 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
115680589 CTTTGCCATG
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 58 0.65
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:115683405 original size:5 final size:5
Alignment explanation
Indices: 115683388--115683421 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
115683378 ATCTCAATCA
*
115683388 TATAT CATA- TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT
115683422 ATTACAAGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
4 3 0.12
5 23 0.88
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (5 bp):
TATAT
Found at i:115693041 original size:14 final size:14
Alignment explanation
Indices: 115693001--115693058 Score: 57
Period size: 14 Copynumber: 4.2 Consensus size: 14
115692991 ATCATGTTAC
115693001 ATTTTAATTATTTAT
1 ATTTTAATTA-TTAT
* *
115693016 ATTTAAAATATTAT
1 ATTTTAATTATTAT
115693030 ATTTTAATTATT-T
1 ATTTTAATTATTAT
* *
115693043 ATGTT-ATTATTTT
1 ATTTTAATTATTAT
115693056 ATT
1 ATT
115693059 ACGAAATGGT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
12 6 0.17
13 8 0.22
14 14 0.39
15 8 0.22
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (14 bp):
ATTTTAATTATTAT
Found at i:115697619 original size:4 final size:4
Alignment explanation
Indices: 115697603--115697636 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
115697593 ATATGGACAC
*
115697603 ATGT ATGT AATGT ATGT ATGT ATGT ACGT ATGT A
1 ATGT ATGT -ATGT ATGT ATGT ATGT ATGT ATGT A
115697637 CATATGTGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.29, C:0.03, G:0.24, T:0.44
Consensus pattern (4 bp):
ATGT
Found at i:115707152 original size:24 final size:24
Alignment explanation
Indices: 115707107--115707154 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
115707097 AAAATTTAGA
* *
115707107 TTTAATTATTAATATTGTTATTTT
1 TTTAATTATTAATAATGATATTTT
115707131 TTTAATTTATTAA-AATGATATTTT
1 TTTAA-TTATTAATAATGATATTTT
115707155 AAAATTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (24 bp):
TTTAATTATTAATAATGATATTTT
Found at i:115707298 original size:30 final size:30
Alignment explanation
Indices: 115707264--115707338 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
115707254 ACAGTTGGAC
115707264 CTAAATTTTAAATTTTAAAAAGTAAAAGGA-
1 CTAAATTTTAAATTTTAAAAAGT-AAAGGAT
** *
115707294 CTAAATTTTTAAA-AATAAAAAGTATAGGAT
1 CTAAA-TTTTAAATTTTAAAAAGTAAAGGAT
*
115707324 CTAAATTCTAAATTT
1 CTAAATTTTAAATTT
115707339 ACAAAGAGTC
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
29 11 0.31
30 18 0.50
31 7 0.19
ACGTcount: A:0.51, C:0.05, G:0.08, T:0.36
Consensus pattern (30 bp):
CTAAATTTTAAATTTTAAAAAGTAAAGGAT
Found at i:115708669 original size:31 final size:31
Alignment explanation
Indices: 115708614--115708672 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
115708604 TGTACTTAAT
** * *
115708614 AATTGTTCTCATTTTGATGTTTAAACTTGAC
1 AATTGTTCTCAAATTGAGGCTTAAACTTGAC
115708645 AATTGTTCTCAAATTGAGGCTTAAACTT
1 AATTGTTCTCAAATTGAGGCTTAAACTT
115708673 TAAAGCTTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.44
Consensus pattern (31 bp):
AATTGTTCTCAAATTGAGGCTTAAACTTGAC
Found at i:115715846 original size:24 final size:21
Alignment explanation
Indices: 115715770--115715847 Score: 75
Period size: 22 Copynumber: 3.4 Consensus size: 21
115715760 AGGGGCGAAA
* *
115715770 TTAAATTATAATTTTTATAATAA
1 TTAAAATATAA-TTTTATAAT-T
*
115715793 TAAAAATATAATTTTATAATT
1 TTAAAATATAATTTTATAATT
115715814 TTAATAATATATATCTTTATAATTT
1 TTAA-AATATA-AT-TTTATAA-TT
115715839 TTAAAATAT
1 TTAAAATAT
115715848 TAAATTAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
21 3 0.06
22 15 0.32
23 11 0.23
24 12 0.26
25 6 0.13
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (21 bp):
TTAAAATATAATTTTATAATT
Found at i:115717882 original size:22 final size:22
Alignment explanation
Indices: 115717855--115717896 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
115717845 ATTATGAAAA
115717855 ATTATA-ATTTGATCATTTAATT
1 ATTATATATTT-ATCATTTAATT
115717877 ATTATATATTTATCATTTAA
1 ATTATATATTTATCATTTAA
115717897 ATCAATCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (22 bp):
ATTATATATTTATCATTTAATT
Found at i:115727699 original size:61 final size:61
Alignment explanation
Indices: 115727583--115727702 Score: 145
Period size: 61 Copynumber: 2.0 Consensus size: 61
115727573 AAATTAAAAA
* * * * * * *
115727583 TTTTAGAGTTAGGACTAAATTGACAGATTTTATAAATATTGAGCGTCAAATTTATTGAATG
1 TTTTAGAATTAGGACTAAAATGACAAATTTTATAAACAATGAGCGACAAACTTATTGAATG
115727644 TTTTAGAATT-GGAACTAAAATGACAAATTTTATAAACAATGAG-GACTAAACTTATTGAA
1 TTTTAGAATTAGG-ACTAAAATGACAAATTTTATAAACAATGAGCGAC-AAACTTATTGAA
115727703 ATTTTTTATA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
60 4 0.08
61 46 0.92
ACGTcount: A:0.41, C:0.07, G:0.16, T:0.36
Consensus pattern (61 bp):
TTTTAGAATTAGGACTAAAATGACAAATTTTATAAACAATGAGCGACAAACTTATTGAATG
Found at i:115730993 original size:13 final size:12
Alignment explanation
Indices: 115730975--115731022 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 12
115730965 TTCAAATGTG
115730975 TTAAAATTATTAA
1 TTAAAA-TATTAA
*
115730988 TTAAAA-ATAAA
1 TTAAAATATTAA
115730999 TTTAAAATATTAA
1 -TTAAAATATTAA
115731012 TTACAAATATT
1 TTA-AAATATT
115731023 TAATAGTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
11 4 0.13
12 9 0.30
13 17 0.57
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (12 bp):
TTAAAATATTAA
Found at i:115732441 original size:2 final size:2
Alignment explanation
Indices: 115732434--115732463 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
115732424 ATAGTATTAT
115732434 TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
115732464 CACATAAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:115743489 original size:13 final size:12
Alignment explanation
Indices: 115743473--115743524 Score: 56
Period size: 12 Copynumber: 4.5 Consensus size: 12
115743463 TTTTAGTTTC
115743473 TTTATATTTTCTA
1 TTTATATTTT-TA
*
115743486 TTTATAATTTTA
1 TTTATATTTTTA
*
115743498 TTT-TA-ATTT-
1 TTTATATTTTTA
115743507 TTTATATTTTTA
1 TTTATATTTTTA
115743519 TTTATA
1 TTTATA
115743525 AGTCTAGTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
9 3 0.09
10 5 0.15
11 5 0.15
12 11 0.33
13 9 0.27
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (12 bp):
TTTATATTTTTA
Found at i:115743499 original size:35 final size:33
Alignment explanation
Indices: 115743455--115743525 Score: 106
Period size: 35 Copynumber: 2.1 Consensus size: 33
115743445 ATTTGAAATT
*
115743455 TAATCTTATTTTAGTTTCTTTATATTTTCTATTTA
1 TAATCTTATTTTAATTT-TTTATATTTT-TATTTA
*
115743490 TAATTTTATTTTAATTTTTTATATTTTTATTTA
1 TAATCTTATTTTAATTTTTTATATTTTTATTTA
115743523 TAA
1 TAA
115743526 GTCTAGTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 9 0.26
34 10 0.29
35 15 0.44
ACGTcount: A:0.27, C:0.04, G:0.01, T:0.68
Consensus pattern (33 bp):
TAATCTTATTTTAATTTTTTATATTTTTATTTA
Found at i:115748931 original size:25 final size:25
Alignment explanation
Indices: 115748903--115748953 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
115748893 GAAGATTAAT
115748903 CTGGTTCTGCTCGAGGGCAACTGTG
1 CTGGTTCTGCTCGAGGGCAACTGTG
115748928 CTGGTTCTGCTCGAGGGCAACTGTG
1 CTGGTTCTGCTCGAGGGCAACTGTG
115748953 C
1 C
115748954 ACTTCAGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.12, C:0.25, G:0.35, T:0.27
Consensus pattern (25 bp):
CTGGTTCTGCTCGAGGGCAACTGTG
Found at i:115755316 original size:22 final size:20
Alignment explanation
Indices: 115755285--115755330 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
115755275 TCACCACCTT
*
115755285 TTTTTTTTTTATAATATATATA
1 TTTTTGTTTTATAA-ATAT-TA
*
115755307 TTTTTGTTTTTTAAATATTA
1 TTTTTGTTTTATAAATATTA
115755327 TTTT
1 TTTT
115755331 ATTATTGGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 6 0.27
21 4 0.18
22 12 0.55
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (20 bp):
TTTTTGTTTTATAAATATTA
Found at i:115755316 original size:23 final size:20
Alignment explanation
Indices: 115755284--115755330 Score: 58
Period size: 23 Copynumber: 2.2 Consensus size: 20
115755274 GTCACCACCT
*
115755284 TTTTTTTTTTTATAATATATATA
1 TTTTTGTTTTT-TAA-ATAT-TA
115755307 TTTTTGTTTTTTAAATATTA
1 TTTTTGTTTTTTAAATATTA
115755327 TTTT
1 TTTT
115755331 ATTATTGGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 6 0.26
21 4 0.17
22 3 0.13
23 10 0.43
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (20 bp):
TTTTTGTTTTTTAAATATTA
Found at i:115755493 original size:27 final size:27
Alignment explanation
Indices: 115755437--115755495 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
115755427 GCTTATTTGG
* **
115755437 TAGGCGCCACTGGTGACTCCTATTTAA
1 TAGGCACCACTGGTGACTCCTACCTAA
*
115755464 TAGGCACCACTGGTGACTCCTACCTGA
1 TAGGCACCACTGGTGACTCCTACCTAA
115755491 TAGGC
1 TAGGC
115755496 GGCACCAATG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (27 bp):
TAGGCACCACTGGTGACTCCTACCTAA
Found at i:115757896 original size:46 final size:44
Alignment explanation
Indices: 115757839--115757973 Score: 207
Period size: 44 Copynumber: 3.0 Consensus size: 44
115757829 ACAGGACAGA
* * *
115757839 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGAATTGAGCCATGTAAGTCCATATT--ATATATGGCATTGGAG
115757885 ACAGAATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGAATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
* *
115757929 ACAGGATTGTGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGAATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
115757973 A
1 A
115757974 TAGGAATAAT
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
44 57 0.68
46 27 0.32
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (44 bp):
ACAGAATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
Found at i:115757943 original size:44 final size:44
Alignment explanation
Indices: 115757846--115757997 Score: 205
Period size: 44 Copynumber: 3.4 Consensus size: 44
115757836 AGAACAGAAA
* * *
115757846 TGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGAAT
1 TGAGCCATGTAAGTCCATATT--ATATATGGCATTGGAGACAGGAT
115757892 TGAGCCATGTAAGTCCATATTATATATGGCATTGGAGACAGGAT
1 TGAGCCATGTAAGTCCATATTATATATGGCATTGGAGACAGGAT
* * *
115757936 TGTGCCATGTAAGTCCATATTATATATGGCATTGGAGATAGGAA
1 TGAGCCATGTAAGTCCATATTATATATGGCATTGGAGACAGGAT
* **
115757980 TAATTCATGTAAGTCCAT
1 TGAGCCATGTAAGTCCAT
115757998 GTCAAAGACA
Statistics
Matches: 96, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
44 75 0.78
46 21 0.22
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.31
Consensus pattern (44 bp):
TGAGCCATGTAAGTCCATATTATATATGGCATTGGAGACAGGAT
Found at i:115758175 original size:17 final size:17
Alignment explanation
Indices: 115758145--115758181 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
115758135 TGAAAAAGGA
* *
115758145 AAGGTCAGGTAATAAAG
1 AAGGTAAGGGAATAAAG
115758162 AAGGTAAGGGAATAAAG
1 AAGGTAAGGGAATAAAG
115758179 AAG
1 AAG
115758182 AAGATATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.51, C:0.03, G:0.32, T:0.14
Consensus pattern (17 bp):
AAGGTAAGGGAATAAAG
Found at i:115762159 original size:20 final size:20
Alignment explanation
Indices: 115762134--115762174 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
115762124 CCATCTCAAG
115762134 TGTAACACCTCCT-ACCCGTA
1 TGTAACACC-CCTAACCCGTA
115762154 TGTAACACCCCTAACCCGTA
1 TGTAACACCCCTAACCCGTA
115762174 T
1 T
115762175 CCGTCGTCGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.27, C:0.39, G:0.10, T:0.24
Consensus pattern (20 bp):
TGTAACACCCCTAACCCGTA
Found at i:115764610 original size:16 final size:17
Alignment explanation
Indices: 115764579--115764611 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
115764569 TTCATAAGTA
115764579 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
115764596 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
115764612 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:115765215 original size:46 final size:46
Alignment explanation
Indices: 115764906--115765215 Score: 451
Period size: 46 Copynumber: 6.7 Consensus size: 46
115764896 TGCCATATTG
* * * *
115764906 TCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCA-TTTCATATCAGGTTGCCATGGTA
* *
115764952 TCTTTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATATCAGGTTGCCATGGTA
*** *
115764998 TCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATATCAGGTTGCCATGGTA
*
115765044 TCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATATCAGGTTGCCATGGTA
**
115765090 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATATCAGGTTGCCATGGTA
*
115765136 TCTTTCAACCATGGTCTTATACATTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATATCAGGTTGCCATGGTA
* **
115765182 TCTTTTAACCATGGTCTTACACATTTCATATCAG
1 TCTTTCAACCATGGTCTTATTCATTTCATATCAG
115765216 AGATCACACT
Statistics
Matches: 247, Mismatches: 16, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 4 0.02
46 243 0.98
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTATTCATTTCATATCAGGTTGCCATGGTA
Found at i:115767870 original size:25 final size:23
Alignment explanation
Indices: 115767811--115767870 Score: 57
Period size: 25 Copynumber: 2.4 Consensus size: 23
115767801 TAAATATGTA
*
115767811 CATATATTTTTAACTACTTTATG
1 CATATATTTTTAACTACATTATG
*
115767834 CACATTATTTTTTAACTTCACATTATG
1 CATA-TA-TTTTTAAC-T-ACATTATG
*
115767861 TATATATTTT
1 CATATATTTT
115767871 GAACACCATA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
23 3 0.10
24 2 0.07
25 12 0.41
26 3 0.10
27 9 0.31
ACGTcount: A:0.30, C:0.13, G:0.03, T:0.53
Consensus pattern (23 bp):
CATATATTTTTAACTACATTATG
Found at i:115769223 original size:92 final size:92
Alignment explanation
Indices: 115769117--115769327 Score: 341
Period size: 92 Copynumber: 2.3 Consensus size: 92
115769107 TGCCATAGTG
* * *
115769117 TCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATAGTATCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATAGTATCTTTCAACCATGGTCTTA
* *
115769182 TTCTTTTCATGTCACGTTGCCACGGTA
66 TTCGTTTCATATCACGTTGCCACGGTA
* *
115769209 TCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATAGTATCTTTCAACCATGGTCTTA
*
115769274 TTCGTTTCATATCACGTTGCCATGGTA
66 TTCGTTTCATATCACGTTGCCACGGTA
*
115769301 TCTTTCAACCATGGTCTTACACATTTC
1 TCTTTCAACCATGGTCTTACTCATTTC
115769328 ATATCAGAGA
Statistics
Matches: 109, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
92 109 1.00
ACGTcount: A:0.19, C:0.25, G:0.14, T:0.42
Consensus pattern (92 bp):
TCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATAGTATCTTTCAACCATGGTCTTA
TTCGTTTCATATCACGTTGCCACGGTA
Found at i:115769333 original size:46 final size:46
Alignment explanation
Indices: 115769107--115769329 Score: 295
Period size: 46 Copynumber: 4.8 Consensus size: 46
115769097 TTTGACATGA
* * * * *
115769107 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATGTCACGT
* *
115769153 TGCCATAGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
* ** *
115769199 TGCCACGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
* *
115769245 TGCCATGGTATCTTTCAACCATGGTCTTATTCGTTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
**
115769291 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCAT
115769330 ATCAGAGAGC
Statistics
Matches: 156, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
45 4 0.03
46 152 0.97
ACGTcount: A:0.19, C:0.25, G:0.14, T:0.42
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
Found at i:115775428 original size:78 final size:77
Alignment explanation
Indices: 115775302--115775535 Score: 292
Period size: 78 Copynumber: 3.1 Consensus size: 77
115775292 CTATATAAAT
* * * ** * *
115775302 AATACAAAGTTTATTATTTAAATTG--TAAAAAACTCCTAAAATTAATAACTGAAATAACGAAAA
1 AATACAAAGTTGACTATTTAAATTGCAAAAAAAACTTATAAAATTAATAACTAAAATGACGAAAA
115775365 AGTCATTACATA
66 AGTCATTACATA
*
115775377 AATACAAAGTTGACTATTTAAATTGCAAAAAAAAACTTATAAAATTAATAACTAAAATGACAAAA
1 AATACAAAGTTGACTATTTAAATTGC-AAAAAAAACTTATAAAATTAATAACTAAAATGACGAAA
*
115775442 AAATCATTACATA
65 AAGTCATTACATA
* * * * **
115775455 AATACAAAGCTGACTATTTAAATTGCAAAAAGAACCTATAAAATTAATAACTTAAATGGTGAAAA
1 AATACAAAGTTGACTATTTAAATTGCAAAAAAAACTTATAAAATTAATAACTAAAATGACGAAAA
* *
115775520 TGTCATTAAATA
66 AGTCATTACATA
115775532 AATA
1 AATA
115775536 TGAAGTTATT
Statistics
Matches: 137, Mismatches: 19, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
75 23 0.17
77 46 0.34
78 68 0.50
ACGTcount: A:0.54, C:0.10, G:0.07, T:0.29
Consensus pattern (77 bp):
AATACAAAGTTGACTATTTAAATTGCAAAAAAAACTTATAAAATTAATAACTAAAATGACGAAAA
AGTCATTACATA
Found at i:115777812 original size:15 final size:16
Alignment explanation
Indices: 115777794--115777829 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
115777784 AAAATAAAAT
115777794 AAAATTACATT-ATAA
1 AAAATTACATTAATAA
*
115777809 AAAATTAGATTAATAA
1 AAAATTACATTAATAA
115777825 AAAAT
1 AAAAT
115777830 CACAAAACAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (16 bp):
AAAATTACATTAATAA
Found at i:115777900 original size:104 final size:101
Alignment explanation
Indices: 115777803--115778381 Score: 561
Period size: 88 Copynumber: 5.9 Consensus size: 101
115777793 TAAAATTACA
* * *
115777803 TTATAAAAAATTAGATTAATAAAAAATCACAAAACACTAAACTAAACACTAATAATTTATATAAC
1 TTATAAAAAATTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATA-AA-
*
115777868 CTAATCATAAATTACTAATAAAATAACTATAAAATTATT
64 CTAATCATAAATTACTAACAAAATAACTATAAAATT-TT
* * *
115777907 TT-TGAAAAAAATTACATTACTAAAAAAATCATAAAACCCTAAACTAAATACTAACAATTTATAA
1 TTAT--AAAAAATTACATTACT-AAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAA
*
115777971 ACTAATCATAAATTACTAACAAAATAACTATAACATTTT
63 ACTAATCATAAATTACTAACAAAATAACTATAAAATTTT
* *
115778010 TT-TAAAAAGAATTTACATTACTCATAAATCACAAAACAC---A--AAACACTAACAATTTATAT
1 TTAT-AAAA-AA-TTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATA-
*
115778069 AACCTAATAATAAATTACTAACAAAATAACTAT--AATTTT
62 AA-CTAATCATAAATTACTAACAAAATAACTATAAAATTTT
* * * * * * *
115778108 TTTTTAAAAATTACATTACTGAAAAATCACAAAACCCTAAACTAAGCACTAAAAATTTCTAAACT
1 TTATAAAAAATTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAAACT
* *
115778173 AATCATAAATTACTAACAAAATAATTATAATATTTT
66 AATCATAAATTACTAACAAAATAACTATAAAATTTT
* * *
115778209 TTAAAAAAGAATTTACATTACTAATAAATCAC-AAACAC---A--AAACAGTAACAATTTATAAA
1 TTATAAAA-AA-TTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAAA
115778268 CTAATCATAAATTACTAACAAAATAA-T-T--AA----
64 CTAATCATAAATTACTAACAAAATAACTATAAAATTTT
* * * * *
115778298 -TA-AAATAATTTTACATTAATAAAAAATCAGAAAACACAAAAC---AC-C-AACAATTTATAAC
1 TTATAAA-AA-ATTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAAA
115778356 CTAATCATAAATTACTAACAAAATAA
64 CTAATCATAAATTACTAACAAAATAA
115778382 TTAACATAAT
Statistics
Matches: 409, Mismatches: 42, Indels: 64
0.79 0.08 0.12
Matches are distributed among these distances:
87 21 0.05
88 47 0.11
90 2 0.00
91 1 0.00
93 1 0.00
95 1 0.00
96 25 0.06
97 44 0.11
98 27 0.07
99 33 0.08
100 32 0.08
101 25 0.06
102 12 0.03
103 39 0.10
104 46 0.11
105 16 0.04
106 37 0.09
ACGTcount: A:0.55, C:0.14, G:0.01, T:0.30
Consensus pattern (101 bp):
TTATAAAAAATTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAAACT
AATCATAAATTACTAACAAAATAACTATAAAATTTT
Found at i:115778071 original size:204 final size:201
Alignment explanation
Indices: 115777846--115778309 Score: 695
Period size: 199 Copynumber: 2.3 Consensus size: 201
115777836 ACACTAAACT
* *
115777846 AAACACTAATAATTTATATAACCTAATCATAAATTACTAATAAAATAACTATAAAATTATTTTTG
1 AAACACTAACAATTTATATAACCTAATCATAAATTACTAACAAAATAACTATAAAATTATTTTT-
* * *
115777911 AAAAAAATTACATTACTAAAAAAATCATAAAACCCTAAACTAAATACTAACAATTTATAAACTAA
65 AAAAAAATTACATTACT-AAAAAATCACAAAACCCTAAACTAAACACTAAAAATTTATAAACTAA
* *
115777976 TCATAAATTACTAACAAAATAACTATAACATTTTTTTAAAAAGAATTTACATTACTCATAAATCA
129 TCATAAATTACTAACAAAATAACTATAACATTTTTTAAAAAAGAATTTACATTACTAATAAATCA
115778041 CAAAACACA
194 C-AAACACA
* *
115778050 AAACACTAACAATTTATATAACCTAATAATAAATTACTAACAAAATAACTAT--AATT-TTTTTT
1 AAACACTAACAATTTATATAACCTAATCATAAATTACTAACAAAATAACTATAAAATTATTTTTA
* * * *
115778112 TAAAAATTACATTACTGAAAAATCACAAAACCCTAAACTAAGCACTAAAAATTTCTAAACTAATC
66 AAAAAATTACATTACTAAAAAATCACAAAACCCTAAACTAAACACTAAAAATTTATAAACTAATC
* *
115778177 ATAAATTACTAACAAAATAATTATAATATTTTTTAAAAAAGAATTTACATTACTAATAAATCACA
131 ATAAATTACTAACAAAATAACTATAACATTTTTTAAAAAAGAATTTACATTACTAATAAATCACA
115778242 AACACA
196 AACACA
* * *
115778248 AAACAGTAACAATTTATA-AA-CTAATCATAAATTACTAACAAAATAATTAATAAAATAATTTT
1 AAACACTAACAATTTATATAACCTAATCATAAATTACTAACAAAATAACT-ATAAAATTATTTT
115778310 ACATTAATAA
Statistics
Matches: 237, Mismatches: 19, Indels: 12
0.88 0.07 0.04
Matches are distributed among these distances:
196 26 0.11
197 4 0.02
198 24 0.10
199 106 0.45
200 19 0.08
201 5 0.02
202 4 0.02
204 49 0.21
ACGTcount: A:0.54, C:0.14, G:0.01, T:0.31
Consensus pattern (201 bp):
AAACACTAACAATTTATATAACCTAATCATAAATTACTAACAAAATAACTATAAAATTATTTTTA
AAAAAATTACATTACTAAAAAATCACAAAACCCTAAACTAAACACTAAAAATTTATAAACTAATC
ATAAATTACTAACAAAATAACTATAACATTTTTTAAAAAAGAATTTACATTACTAATAAATCACA
AACACA
Found at i:115778338 original size:88 final size:86
Alignment explanation
Indices: 115778220--115778470 Score: 315
Period size: 88 Copynumber: 2.8 Consensus size: 86
115778210 TAAAAAAGAA
* * * *
115778220 TTTACATTACTAATAAATCACAAACACAAAACAGTAACAATTTATAAACTAATCATAAATTACTA
1 TTTACATTAATAAAAAATCAAAAACACAAAACA-CAACAATTTATAAACTAATCATAAATTACTA
*
115778285 ACAAAATAATTAATAAAATAAT
65 ACAAAATAATTAACAAAATAAT
*
115778307 TTTACATTAATAAAAAATCAGAAAACACAAAACACCAACAATTTATAACCTAATCATAAATTACT
1 TTTACATTAATAAAAAATCA-AAAACACAAAACA-CAACAATTTATAAACTAATCATAAATTACT
*
115778372 AACAAAATAATTAACATAATAAT
64 AACAAAATAATTAACAAAATAAT
* * *
115778395 TTTATATTAATAAAAAATCACAAAATACTAAACTAAACACAACAATTTAT-AACATAATCCTAAA
1 TTTACATTAATAAAAAAT--CAAAA-AC---ACAAAACACAACAATTTATAAAC-TAATCATAAA
115778459 TTACTAACAAAA
59 TTACTAACAAAA
115778471 CAACTTTAAA
Statistics
Matches: 144, Mismatches: 12, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
87 18 0.12
88 78 0.54
89 3 0.02
90 4 0.03
91 2 0.01
92 32 0.22
93 7 0.05
ACGTcount: A:0.57, C:0.15, G:0.01, T:0.27
Consensus pattern (86 bp):
TTTACATTAATAAAAAATCAAAAACACAAAACACAACAATTTATAAACTAATCATAAATTACTAA
CAAAATAATTAACAAAATAAT
Found at i:115778650 original size:4 final size:4
Alignment explanation
Indices: 115778643--115778672 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
115778633 ATACATACTT
115778643 TTTC TTTC TTTC TTTC TTTC TTTC -TTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT
115778673 TCCTCCTCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTC
Found at i:115779560 original size:38 final size:39
Alignment explanation
Indices: 115779509--115779593 Score: 154
Period size: 38 Copynumber: 2.2 Consensus size: 39
115779499 AAAAGTGACT
*
115779509 ATTTTTTAGTTTACCCTTAATTAAAACACTTTGTCTTCA
1 ATTTCTTAGTTTACCCTTAATTAAAACACTTTGTCTTCA
115779548 ATTTCTTA-TTTACCCTTAATTAAAACACTTTGTCTTCA
1 ATTTCTTAGTTTACCCTTAATTAAAACACTTTGTCTTCA
115779586 ATTTCTTA
1 ATTTCTTA
115779594 ACTTCCTCTT
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
38 38 0.84
39 7 0.16
ACGTcount: A:0.28, C:0.19, G:0.04, T:0.49
Consensus pattern (39 bp):
ATTTCTTAGTTTACCCTTAATTAAAACACTTTGTCTTCA
Found at i:115787202 original size:27 final size:27
Alignment explanation
Indices: 115787172--115787230 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 27
115787162 AAAATTATGA
*
115787172 AAAATCATAATTTTTTTTA-AAAAGTTC-
1 AAAAT-ATAACTTTTTTTATAAAA-TTCT
115787199 AAAA-ATAACTTTTTTTATAAAATTCT
1 AAAATATAACTTTTTTTATAAAATTCT
115787225 AAAATA
1 AAAATA
115787231 AATAATTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
25 15 0.54
26 8 0.29
27 5 0.18
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (27 bp):
AAAATATAACTTTTTTTATAAAATTCT
Found at i:115787206 original size:25 final size:25
Alignment explanation
Indices: 115787178--115787231 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
115787168 ATGAAAAATC
*
115787178 ATAATTTTTTTTA-AAAAGTTCAAAA
1 ATAACTTTTTTTATAAAA-TTCAAAA
*
115787203 ATAACTTTTTTTATAAAATTCTAAA
1 ATAACTTTTTTTATAAAATTCAAAA
115787228 ATAA
1 ATAA
115787232 ATAATTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 22 0.85
26 4 0.15
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (25 bp):
ATAACTTTTTTTATAAAATTCAAAA
Found at i:115787611 original size:19 final size:19
Alignment explanation
Indices: 115787589--115787640 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 19
115787579 TTTTATGATT
115787589 TATAATTTTTTTAATTATA
1 TATAATTTTTTTAATTATA
* *
115787608 TAT-ATTTTTCTGAATTTTA
1 TATAATTTTT-TTAATTATA
115787627 TATATATTTATTTT
1 TATA-ATTT-TTTT
115787641 CATTTTTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
18 6 0.23
19 13 0.50
21 5 0.19
22 2 0.08
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (19 bp):
TATAATTTTTTTAATTATA
Found at i:115790980 original size:25 final size:25
Alignment explanation
Indices: 115790946--115791005 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
115790936 CAAATGTGCG
*
115790946 AATCAGAGAGCACTGACGTCCTAAT
1 AATCAGAGAGCACTAACGTCCTAAT
* *
115790971 AATCAAAGAGCACTAACGTGCTAAT
1 AATCAGAGAGCACTAACGTCCTAAT
115790996 AATCAGAGAG
1 AATCAGAGAG
115791006 TGCGCTAAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.42, C:0.20, G:0.20, T:0.18
Consensus pattern (25 bp):
AATCAGAGAGCACTAACGTCCTAAT
Found at i:115793501 original size:12 final size:12
Alignment explanation
Indices: 115793484--115793510 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
115793474 TTTACCTGAA
115793484 TATACTCTTCAT
1 TATACTCTTCAT
115793496 TATACTCTTCAT
1 TATACTCTTCAT
115793508 TAT
1 TAT
115793511 TTCTATAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.22, G:0.00, T:0.52
Consensus pattern (12 bp):
TATACTCTTCAT
Found at i:115794686 original size:18 final size:18
Alignment explanation
Indices: 115794669--115794780 Score: 84
Period size: 18 Copynumber: 6.2 Consensus size: 18
115794659 AGTTTCATTT
*
115794669 AGTAACATTCAATTATTT
1 AGTAACATTCAATTATTC
* *
115794687 AGTAGCAATT-AGTTATTC
1 AGTAAC-ATTCAATTATTC
* * **
115794705 AGTAACAATCATTTGCTC
1 AGTAACATTCAATTATTC
* *
115794723 AGTAGCATTCAGTTATTC
1 AGTAACATTCAATTATTC
115794741 AGTAACGA-TCAATTATTC
1 AGTAAC-ATTCAATTATTC
* * *
115794759 AGTAACAGTCAGTCATTC
1 AGTAACATTCAATTATTC
115794777 AGTA
1 AGTA
115794781 CTTTTATTTA
Statistics
Matches: 73, Mismatches: 17, Indels: 8
0.74 0.17 0.08
Matches are distributed among these distances:
17 3 0.04
18 66 0.90
19 4 0.05
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (18 bp):
AGTAACATTCAATTATTC
Found at i:115794761 original size:36 final size:35
Alignment explanation
Indices: 115794669--115794780 Score: 118
Period size: 36 Copynumber: 3.1 Consensus size: 35
115794659 AGTTTCATTT
*
115794669 AGTAACATTCAATTATTTAGTAGCAATT-AGTTATTC
1 AGTAACA-TCAATTATTCAGTAGC-ATTCAGTTATTC
* **
115794705 AGTAACAATCATTTGCTCAGTAGCATTCAGTTATTC
1 AGTAAC-ATCAATTATTCAGTAGCATTCAGTTATTC
* * *
115794741 AGTAACGATCAATTATTCAGTAACAGTCAGTCATTC
1 AGTAAC-ATCAATTATTCAGTAGCATTCAGTTATTC
115794777 AGTA
1 AGTA
115794781 CTTTTATTTA
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
35 3 0.05
36 59 0.94
37 1 0.02
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (35 bp):
AGTAACATCAATTATTCAGTAGCATTCAGTTATTC
Found at i:115794988 original size:44 final size:44
Alignment explanation
Indices: 115794940--115795029 Score: 123
Period size: 44 Copynumber: 2.0 Consensus size: 44
115794930 GAAGTAACAA
115794940 TAACAGTACGGCACAC-AAT-GTGCCTCATCGACTCGAA-GTCGAAG
1 TAACAGTAC-G-ACACTAATAGTGCCTCATCGACTC-AAGGTCGAAG
*
115794984 TAACAGTACGACACTTATAGTGCCTCATCGACTCAAGGTCGAAG
1 TAACAGTACGACACTAATAGTGCCTCATCGACTCAAGGTCGAAG
115795028 TA
1 TA
115795030 TCCCTGAACA
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
42 4 0.10
43 5 0.12
44 33 0.79
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (44 bp):
TAACAGTACGACACTAATAGTGCCTCATCGACTCAAGGTCGAAG
Found at i:115795847 original size:26 final size:28
Alignment explanation
Indices: 115795792--115795851 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 28
115795782 TGATTATTTT
*
115795792 ATATTATTTTTTTTGTTTTTTTAAATAAA
1 ATATTATTTTTTTTGTTTTATT-AATAAA
115795821 ATATTATTTTTTTAT-TTTTATT-A-AAA
1 ATATTATTTTTTT-TGTTTTATTAATAAA
115795847 ATATT
1 ATATT
115795852 TAAATATATA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 8 0.28
27 1 0.03
29 19 0.66
30 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (28 bp):
ATATTATTTTTTTTGTTTTATTAATAAA
Found at i:115796203 original size:14 final size:14
Alignment explanation
Indices: 115796171--115796260 Score: 67
Period size: 14 Copynumber: 6.2 Consensus size: 14
115796161 CCACACACCG
115796171 GAAGAGAGAAAAAA
1 GAAGAGAGAAAAAA
* **
115796185 AAAGAGAGAAAGGA
1 GAAGAGAGAAAAAA
*
115796199 GAAGA-AAAAAAAA
1 GAAGAGAGAAAAAA
*
115796212 GGAGGAGAGAAGAAGAA
1 -GAAGAGAGAA-AA-AA
115796229 GAAGA-AGAAGAAGAA
1 GAAGAGAGAA-AA-AA
*
115796244 GAAGAAAGAAAAAA
1 GAAGAGAGAAAAAA
115796258 GAA
1 GAA
115796261 AAAAAGGTAA
Statistics
Matches: 61, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
13 5 0.08
14 24 0.39
15 20 0.33
16 10 0.16
17 2 0.03
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (14 bp):
GAAGAGAGAAAAAA
Found at i:115796205 original size:24 final size:23
Alignment explanation
Indices: 115796177--115796259 Score: 82
Period size: 24 Copynumber: 3.6 Consensus size: 23
115796167 ACCGGAAGAG
115796177 AGAAAAAAAAAGAGAGAAAGGAGA
1 AGAAAAAAAAAGAGAG-AAGGAGA
*
115796201 AGAAAAAAAAAG-GAGGA-GAGA
1 AGAAAAAAAAAGAGAGAAGGAGA
* *
115796222 AGAAGAAGAAGAAGA-AGAAGAAGA
1 AGAA-AA-AAAAAGAGAGAAGGAGA
115796246 AGAAAGAAAAAAGA
1 AGAAA-AAAAAAGA
115796260 AAAAAAGGTA
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
21 8 0.16
22 3 0.06
23 18 0.37
24 20 0.41
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (23 bp):
AGAAAAAAAAAGAGAGAAGGAGA
Found at i:115796221 original size:21 final size:21
Alignment explanation
Indices: 115796171--115796258 Score: 79
Period size: 23 Copynumber: 3.9 Consensus size: 21
115796161 CCACACACCG
115796171 GAAGAG-AGAAAAAAAAAGAGA
1 GAAGAGAAGAAAAAAAAAG-GA
115796192 GAAAGGAGAAGAAAAAAAAAGGA
1 G-AA-GAGAAGAAAAAAAAAGGA
* * *
115796215 GGAGAGAAGAAGAAGAAGAAGAA
1 GAAGAGAAGAA-AA-AAAAAGGA
115796238 GAAGAAGAAGAAAGAAAAAAG
1 GAAG-AGAAGAAA-AAAAAAG
115796259 AAAAAAAGGT
Statistics
Matches: 55, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
21 9 0.16
22 5 0.09
23 21 0.38
24 20 0.36
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (21 bp):
GAAGAGAAGAAAAAAAAAGGA
Found at i:115796225 original size:3 final size:3
Alignment explanation
Indices: 115796219--115796249 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
115796209 AAAGGAGGAG
115796219 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
115796250 AGAAAAAAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:115796473 original size:33 final size:33
Alignment explanation
Indices: 115796430--115796537 Score: 104
Period size: 33 Copynumber: 3.4 Consensus size: 33
115796420 GTTTTTTATA
*
115796430 ATTATTTTAAAATTAATTTGTTAGTAATTTAGG
1 ATTATGTTAAAATTAATTTGTTAGTAATTTAGG
*
115796463 ATTATGTTAAAATT-TTTTG-T-GT--TTGTA--
1 ATTATGTTAAAATTAATTTGTTAGTAATT-TAGG
* *
115796490 ATTATTTTAAAATTAATTTATTAGTAATTTAGG
1 ATTATGTTAAAATTAATTTGTTAGTAATTTAGG
*
115796523 ATTAAGTTATAAATT
1 ATTATGTTA-AAATT
115796538 GTTGTGTTTA
Statistics
Matches: 59, Mismatches: 7, Indels: 17
0.71 0.08 0.20
Matches are distributed among these distances:
27 13 0.22
28 5 0.08
29 3 0.05
30 4 0.07
31 3 0.05
32 6 0.10
33 20 0.34
34 5 0.08
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (33 bp):
ATTATGTTAAAATTAATTTGTTAGTAATTTAGG
Found at i:115796506 original size:60 final size:61
Alignment explanation
Indices: 115796414--115796547 Score: 200
Period size: 60 Copynumber: 2.2 Consensus size: 61
115796404 GAATGTAATT
* * *
115796414 TTTTTTGTTTTTTATAATTATTTTAAAATTAATTTGTTAGTAATTTAGGATTATGTTA-AAA
1 TTTTTTG-TGTTTATAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAA
*
115796475 TTTTTTGTGTTTGTAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAA
1 TTTTTTGTGTTTATAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAA
*
115796536 -TTGTTGTGTTTA
1 TTTTTTGTGTTTA
115796548 GTTTAGTATT
Statistics
Matches: 66, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
60 56 0.85
61 10 0.15
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.57
Consensus pattern (61 bp):
TTTTTTGTGTTTATAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAA
Found at i:115799824 original size:33 final size:33
Alignment explanation
Indices: 115799781--115799888 Score: 153
Period size: 33 Copynumber: 3.3 Consensus size: 33
115799771 TCAGTACTCT
* *
115799781 CTCCTTCCGGCTCATATCCACCATCGTACTCCA
1 CTCCTCCCGGCCCATATCCACCATCGTACTCCA
115799814 CTCCTCCCGGCCCATATCCACCATCGTACTCCA
1 CTCCTCCCGGCCCATATCCACCATCGTACTCCA
* * * **
115799847 CTCCTCCCGGCCCGTATCAATCGCCGTACTCCA
1 CTCCTCCCGGCCCATATCCACCATCGTACTCCA
115799880 CTCCTCCCG
1 CTCCTCCCG
115799889 ACTCAAGTTC
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 68 1.00
ACGTcount: A:0.16, C:0.50, G:0.11, T:0.23
Consensus pattern (33 bp):
CTCCTCCCGGCCCATATCCACCATCGTACTCCA
Found at i:115807940 original size:18 final size:19
Alignment explanation
Indices: 115807903--115807949 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
115807893 TATTCTGTTA
115807903 CTTTGTTTCTTTTCTATTT
1 CTTTGTTTCTTTTCTATTT
*
115807922 CTTTTTTTCTTTT-TATTT
1 CTTTGTTTCTTTTCTATTT
115807940 CATTTGTTTC
1 C-TTTGTTTC
115807950 ATTTGTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.06, C:0.15, G:0.04, T:0.74
Consensus pattern (19 bp):
CTTTGTTTCTTTTCTATTT
Found at i:115807993 original size:21 final size:21
Alignment explanation
Indices: 115807963--115808003 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
115807953 TGTTTTATAA
*
115807963 TAATATTATAATAATATAATT
1 TAATAATATAATAATATAATT
* *
115807984 TAATAATATACTTATATAAT
1 TAATAATATAATAATATAAT
115808004 AAGTAAACAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
TAATAATATAATAATATAATT
Found at i:115808002 original size:13 final size:13
Alignment explanation
Indices: 115807959--115808004 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
115807949 CATTTGTTTT
115807959 ATAATAATATTATA
1 ATAAT-ATATTATA
115807973 ATAATATAATT-TA
1 ATAATAT-ATTATA
115807986 ATAATATACTTAT-
1 ATAATATA-TTATA
115807999 ATAATA
1 ATAATA
115808005 AGTAAACATA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
12 1 0.03
13 19 0.66
14 9 0.31
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (13 bp):
ATAATATATTATA
Found at i:115808095 original size:5 final size:5
Alignment explanation
Indices: 115808085--115808126 Score: 52
Period size: 5 Copynumber: 8.6 Consensus size: 5
115808075 ATATTAAATA
*
115808085 ATAAT ATAAT ATAAT ATAAT ATATTT ATAAT -TAA- ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATA-AT ATAAT ATAAT ATAAT ATA
115808127 TTTAAAACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
4 6 0.19
5 22 0.69
6 4 0.12
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
ATAAT
Found at i:115808113 original size:21 final size:19
Alignment explanation
Indices: 115808077--115808130 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
115808067 TTAGTTAAAT
115808077 ATTAAATAATA-A--TATA
1 ATTAAATAATATATTTATA
115808093 ATATAATATAATATATTTATA
1 AT-TAA-ATAATATATTTATA
115808114 ATTAAATAATATATTTA
1 ATTAAATAATATATTTA
115808131 AAACATAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
16 2 0.06
17 3 0.09
18 6 0.18
19 13 0.39
20 3 0.09
21 6 0.18
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
ATTAAATAATATATTTATA
Found at i:115811792 original size:18 final size:18
Alignment explanation
Indices: 115811758--115812053 Score: 141
Period size: 18 Copynumber: 16.1 Consensus size: 18
115811748 TCATTAACAA
* *
115811758 TCAG-AACAATTATTTAT
1 TCAGTAACAATCAATTAT
* *
115811775 TCAGTAACAGTCACTTAT
1 TCAGTAACAATCAATTAT
*
115811793 TCGGTAACAATCAATTAT
1 TCAGTAACAATCAATTAT
* * * *
115811811 TCAATAATAACCAGTTAT
1 TCAGTAACAATCAATTAT
* *
115811829 TCAGTATCGATCAATTGATCGGTT
1 TCAGTAACAATCAATT-A-----T
*
115811853 ATCTAGTAACAGTCAATTAT
1 -TC-AGTAACAATCAATTAT
*
115811873 TTAGTAA-AATCAGA-TAT
1 TCAGTAACAATCA-ATTAT
* * *
115811890 TCAATAGCAATTAAGTTAT
1 TCAGTAACAATCAA-TTAT
* *
115811909 TCAGTAACAGTCATTTAT
1 TCAGTAACAATCAATTAT
* *
115811927 TCAGTGACAATCAGTTAT
1 TCAGTAACAATCAATTAT
**
115811945 TCAGTAATGATCAATTAT
1 TCAGTAACAATCAATTAT
* * *
115811963 TCAGTAATATTCAGTTAT
1 TCAGTAACAATCAATTAT
* * *
115811981 TCAATAACAGTCTATTA-
1 TCAGTAACAATCAATTAT
* *
115811998 TCTTGTAACAGTCAATTAT
1 TC-AGTAACAATCAATTAT
** * *
115812017 TTTGTAACAGTCAATTTT
1 TCAGTAACAATCAATTAT
* *
115812035 TCAGTAATAATCAGTTAT
1 TCAGTAACAATCAATTAT
115812053 T
1 T
115812054 TTATACCTTT
Statistics
Matches: 207, Mismatches: 57, Indels: 29
0.71 0.19 0.10
Matches are distributed among these distances:
17 18 0.09
18 158 0.76
19 15 0.07
20 1 0.00
24 1 0.00
25 3 0.01
26 11 0.05
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.38
Consensus pattern (18 bp):
TCAGTAACAATCAATTAT
Found at i:115812017 original size:72 final size:71
Alignment explanation
Indices: 115811851--115812053 Score: 198
Period size: 72 Copynumber: 2.8 Consensus size: 71
115811841 AATTGATCGG
* * *
115811851 TTATCTAGTAACAGTCAATTATTTAGTAAAATCAGA-TATTCAATAGCA-ATTAAGTTATTCAGT
1 TTATCTAGTAACAGTCAATTATTTAGTAAAATCA-ATTATTCAGTA--ATATTCAGTTATTCAAT
115811914 AACAGTCAT
63 AACAGTCAT
* * * * *
115811923 TTAT-TCAGTGACAATCAGTTATTCAGTAATGATCAATTATTCAGTAATATTCAGTTATTCAATA
1 TTATCT-AGTAACAGTCAATTATTTAGTAA-AATCAATTATTCAGTAATATTCAGTTATTCAATA
115811987 ACAGTC-T
64 ACAGTCAT
* * * * *
115811994 ATTATCTTGTAACAGTCAATTATTTTGTAACAGTCAATTTTTCAGTAATAATCAGTTATT
1 -TTATCTAGTAACAGTCAATTATTTAGTAA-AATCAATTATTCAGTAATATTCAGTTATT
115812054 TTATACCTTT
Statistics
Matches: 106, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
71 3 0.03
72 90 0.85
73 13 0.12
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (71 bp):
TTATCTAGTAACAGTCAATTATTTAGTAAAATCAATTATTCAGTAATATTCAGTTATTCAATAAC
AGTCAT
Found at i:115812315 original size:45 final size:45
Alignment explanation
Indices: 115812217--115812322 Score: 140
Period size: 45 Copynumber: 2.4 Consensus size: 45
115812207 ACAAATCCGG
* ** *
115812217 AACAGTAACAGTAACAGTATTCAACACACAAAGTGTTGAATTGAT
1 AACAGTAACAGTAACAATATTCAACACACAAAGTGCCGAATCGAT
* * *
115812262 AACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGT
1 AACAGTAACAGTAACAATATTCAACACACAAAGTGCCGAATCGAT
*
115812307 AACAGTAACGGTAACA
1 AACAGTAACAGTAACA
115812323 GTAACAGTAG
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 52 1.00
ACGTcount: A:0.43, C:0.19, G:0.18, T:0.20
Consensus pattern (45 bp):
AACAGTAACAGTAACAATATTCAACACACAAAGTGCCGAATCGAT
Found at i:115812320 original size:12 final size:12
Alignment explanation
Indices: 115812303--115812327 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
115812293 AGTGCCGAAT
115812303 CGGTAACAGTAA
1 CGGTAACAGTAA
115812315 CGGTAACAGTAA
1 CGGTAACAGTAA
115812327 C
1 C
115812328 AGTAGTCGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:115813335 original size:25 final size:25
Alignment explanation
Indices: 115813301--115813361 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
115813291 CAGACGTGCA
* * *
115813301 AATCGGAGAGCACTGACGTGATAAT
1 AATCAGAGAGCACTAACATGATAAT
*
115813326 AATCAGAGAGCACTAACATGCTAAT
1 AATCAGAGAGCACTAACATGATAAT
*
115813351 AATTAGAGAGC
1 AATCAGAGAGC
115813362 GTGCTAAGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.41, C:0.16, G:0.23, T:0.20
Consensus pattern (25 bp):
AATCAGAGAGCACTAACATGATAAT
Found at i:115814704 original size:15 final size:16
Alignment explanation
Indices: 115814674--115814708 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
115814664 ATGACCATGG
115814674 CTTTTATAGCTCTTTT
1 CTTTTATAGCTCTTTT
*
115814690 CTTTTATA-TTCTTTT
1 CTTTTATAGCTCTTTT
115814705 CTTT
1 CTTT
115814709 CTCCATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.11, C:0.17, G:0.03, T:0.69
Consensus pattern (16 bp):
CTTTTATAGCTCTTTT
Found at i:115820312 original size:30 final size:30
Alignment explanation
Indices: 115820243--115820326 Score: 93
Period size: 31 Copynumber: 2.8 Consensus size: 30
115820233 GTATGGTTAA
115820243 AACAAAATTAAAGTTTCAAGTATATATTTG
1 AACAAAATTAAAGTTTCAAGTATATATTTG
*
115820273 AACCAAAATTAGAGTTTCACATGTATA-A-TTG
1 AA-CAAAATTAAAGTTTCA-A-GTATATATTTG
* *
115820304 CACAAAATTAAAG-TTCATGTATA
1 AACAAAATTAAAGTTTCAAGTATA
115820327 CAATTGTAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
27 5 0.11
29 4 0.09
30 12 0.26
31 19 0.40
32 2 0.04
33 5 0.11
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.33
Consensus pattern (30 bp):
AACAAAATTAAAGTTTCAAGTATATATTTG
Found at i:115824874 original size:19 final size:20
Alignment explanation
Indices: 115824826--115824875 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
115824816 TTACTTGAAA
* *
115824826 TTTAAATAAAATTTTATTTT
1 TTTAAATTAAATTTGATTTT
*
115824846 TTATATATTAAA-TTGATTTT
1 TT-TAAATTAAATTTGATTTT
115824866 TTTAAATTAA
1 TTTAAATTAA
115824876 TAATTATACA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
19 7 0.28
20 11 0.44
21 7 0.28
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (20 bp):
TTTAAATTAAATTTGATTTT
Found at i:115824933 original size:23 final size:24
Alignment explanation
Indices: 115824880--115824934 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
115824870 AATTAATAAT
*
115824880 TATACATTTTAGAATTTTATAAAA
1 TATATATTTTAGAATTTTATAAAA
* *
115824904 AAGATATTTTA-AACTTTTA-AAAA
1 TATATATTTTAGAA-TTTTATAAAA
115824927 TATATATT
1 TATATATT
115824935 ATATATGATT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
23 12 0.48
24 13 0.52
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (24 bp):
TATATATTTTAGAATTTTATAAAA
Found at i:115825845 original size:2 final size:2
Alignment explanation
Indices: 115825840--115825890 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
115825830 TCCTCTCTCT
115825840 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
115825882 CA CA CA CA C
1 CA CA CA CA C
115825891 GCATACACTG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.51, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:115832062 original size:12 final size:12
Alignment explanation
Indices: 115832026--115832058 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
115832016 TAATGTGTAT
115832026 ATAAA-AAATTA
1 ATAAATAAATTA
115832037 ATAAATAAATTA
1 ATAAATAAATTA
115832049 AT-AATAAATT
1 ATAAATAAATT
115832059 TAATTACACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 13 0.62
12 8 0.38
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
ATAAATAAATTA
Found at i:115832251 original size:3 final size:3
Alignment explanation
Indices: 115832243--115832288 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
115832233 AAAACACAAT
*
115832243 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ACA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
115832289 AAGTATAGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:115851957 original size:99 final size:99
Alignment explanation
Indices: 115851786--115851996 Score: 395
Period size: 99 Copynumber: 2.1 Consensus size: 99
115851776 AACTGTCGTT
*
115851786 TGAAATGGACGGTGGAGATCAAAGGAGTACCGCATTTCGAATGCAAAGGATCAGAGACTGCGGGG
1 TGAAATGGACGGTGGAGATCAAAGGAGTACCGCATTCCGAATGCAAAGGATCAGAGACTGCGGGG
115851851 AAGACCGTTATACGAGACCAAAGCCGACATAGAA
66 AAGACCGTTATACGAGACCAAAGCCGACATAGAA
*
115851885 TGAAATGGACGGTGGAGATCAAAGGAGTACCGCATTCCGAATGCATAGGATCAGAGACTGCGGGG
1 TGAAATGGACGGTGGAGATCAAAGGAGTACCGCATTCCGAATGCAAAGGATCAGAGACTGCGGGG
115851950 AAGACCGTTATACGAGACCAAAGCCGACATAGAA
66 AAGACCGTTATACGAGACCAAAGCCGACATAGAA
*
115851984 TGAAATGAACGGT
1 TGAAATGGACGGT
115851997 AGAAATTTAG
Statistics
Matches: 109, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
99 109 1.00
ACGTcount: A:0.36, C:0.18, G:0.30, T:0.16
Consensus pattern (99 bp):
TGAAATGGACGGTGGAGATCAAAGGAGTACCGCATTCCGAATGCAAAGGATCAGAGACTGCGGGG
AAGACCGTTATACGAGACCAAAGCCGACATAGAA
Found at i:115861162 original size:20 final size:19
Alignment explanation
Indices: 115861137--115861193 Score: 66
Period size: 17 Copynumber: 3.1 Consensus size: 19
115861127 TATTTTATTA
115861137 ATTTAATATTAAAATAATT
1 ATTTAATATTAAAATAATT
115861156 ATCTTAATATT-AAAT--TT
1 AT-TTAATATTAAAATAATT
*
115861173 AATTTAATATTAAACTAATT
1 -ATTTAATATTAAAATAATT
115861193 A
1 A
115861194 AATTTGATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
17 10 0.31
18 5 0.16
19 7 0.22
20 10 0.31
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTTAATATTAAAATAATT
Found at i:115862008 original size:15 final size:15
Alignment explanation
Indices: 115861990--115862019 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
115861980 AAGATTATAT
115861990 ATTTCAAAATTATGA
1 ATTTCAAAATTATGA
*
115862005 ATTTCAAATTTATGA
1 ATTTCAAAATTATGA
115862020 TTATTGATTG
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:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (15 bp):
ATTTCAAAATTATGA
Found at i:115867690 original size:40 final size:35
Alignment explanation
Indices: 115867609--115867754 Score: 177
Period size: 35 Copynumber: 4.0 Consensus size: 35
115867599 ACATTTTTTT
* * **
115867609 AACTCGGTATGGGA-AATGCCATACCTACATTTCTT
1 AACTCAGTAT-GGATAATACCATACCTACATTTCAC
115867644 AACTCAGTATGAATTTGATAATACCATACCTACATTTCAC
1 AACTCAGTATG-----GATAATACCATACCTACATTTCAC
*
115867684 AGCTCAGTATGGATAATACCATACCTACATTTCAC
1 AACTCAGTATGGATAATACCATACCTACATTTCAC
*
115867719 AACTCAGTATGGATGATACCATACCTACATTTCAC
1 AACTCAGTATGGATAATACCATACCTACATTTCAC
115867754 A
1 A
115867755 CTTTGCCATG
Statistics
Matches: 98, Mismatches: 7, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
34 1 0.01
35 67 0.68
39 2 0.02
40 28 0.29
ACGTcount: A:0.34, C:0.24, G:0.12, T:0.30
Consensus pattern (35 bp):
AACTCAGTATGGATAATACCATACCTACATTTCAC
Found at i:115871064 original size:31 final size:31
Alignment explanation
Indices: 115871029--115871087 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
115871019 AGTACAGCAC
*
115871029 ATATTTACTCCCCCTCATGAAAATATCATAT
1 ATATTTACTCACCCTCATGAAAATATCATAT
* *
115871060 ATATTTACTCATCTTCATGAAAATATCA
1 ATATTTACTCACCCTCATGAAAATATCA
115871088 CATACTTTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.37, C:0.22, G:0.03, T:0.37
Consensus pattern (31 bp):
ATATTTACTCACCCTCATGAAAATATCATAT
Found at i:115873022 original size:133 final size:133
Alignment explanation
Indices: 115872784--115873383 Score: 905
Period size: 133 Copynumber: 4.5 Consensus size: 133
115872774 TTGTAATGCT
* * ** *
115872784 GATACATGGAGATAAGATTCATCAAAATTTGATCTGCTTTGCTCCTGCTTAGCGAAGATAAGATC
1 GATACATGGAGATAAGATTCACCAAAATTTGATCTACTCCGCTCCTGCTCAGCGAAGATAAGATC
* * *
115872849 TAGTATATAGTCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATT
66 TAGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTAGTGGCTGAAATCTGCTCCATT
115872914 GCC
131 GCC
* * *
115872917 GATACATGGAGATAAGATTTACCAAAATTTGATCTACTCCGCTCCTGCTCAGTGAAAATAAGATC
1 GATACATGGAGATAAGATTCACCAAAATTTGATCTACTCCGCTCCTGCTCAGCGAAGATAAGATC
*
115872982 TAGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTAGTGGCTGAACTCTGCTCCATT
66 TAGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTAGTGGCTGAAATCTGCTCCATT
115873047 GCC
131 GCC
* * * * *
115873050 GATACATGGAGATAAGACTT-GCCAAAATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGAT
1 GATACATGGAGATAAGA-TTCACCAAAATTTGATCTACTCCGCTCCTGCTCAGCGAAGATAAGAT
* *
115873114 CTGGTATGTTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTAATGGCTGAAATCTGCTCC
65 CTAGTA--TTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTAGTGGCTGAAATCTGCTCC
115873179 ATTGCC
128 ATTGCC
* *
115873185 AATACATGGAGATAAGATTCACCAAAATTTGATCTACTCCGCTCTTGCTCAGCGAAGATAAGATC
1 GATACATGGAGATAAGATTCACCAAAATTTGATCTACTCCGCTCCTGCTCAGCGAAGATAAGATC
* * * * *
115873250 TAGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAATGCTTGTGGCTAAAATCTACTCCAAT
66 TAGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTAGTGGCTGAAATCTGCTCCATT
*
115873315 GCT
131 GCC
* *
115873318 GATACATGGAGATAAGATTCGCCAAAATTTGATCTACTCCGCTTCTGCTCAGCGAAGATAAGATC
1 GATACATGGAGATAAGATTCACCAAAATTTGATCTACTCCGCTCCTGCTCAGCGAAGATAAGATC
115873383 T
66 T
115873384 GTCAAAATTT
Statistics
Matches: 424, Mismatches: 39, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
133 300 0.71
134 4 0.01
135 120 0.28
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (133 bp):
GATACATGGAGATAAGATTCACCAAAATTTGATCTACTCCGCTCCTGCTCAGCGAAGATAAGATC
TAGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTAGTGGCTGAAATCTGCTCCATT
GCC
Found at i:115873259 original size:268 final size:265
Alignment explanation
Indices: 115872778--115873384 Score: 928
Period size: 268 Copynumber: 2.3 Consensus size: 265
115872768 ATACAATTGT
* * *
115872778 AATGCTGATACATGGAGATAAGATT-CATCAAAATTTGATCTGCTTTGCTCCTGCTTAGCGAAGA
1 AATGCCGATACATGGAGATAAGATTGC--CAAAATTTGATCTGCTTCGCTCCTGCTCAGCGAAGA
* * **
115872842 TAAGATCTAGTATATAGTCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTG
64 TAAGATCTGGTATATAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTAATGGCTGAAATCTG
* * *
115872907 CTCCATTGCCGATACATGGAGATAAGATTTACCAAAATTTGATCTACTCCGCTCCTGCTCAGTGA
129 CTCCATTGCCAATACATGGAGATAAGATTCACCAAAATTTGATCTACTCCGCTCCTGCTCAGCGA
* *
115872972 AAATAAGATCTAGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTAGTGGCTGAACT
194 AAATAAGATCTAGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTAGTGGCTAAAAT
*
115873037 CTGCTCC
259 CTACTCC
* * *
115873044 ATTGCCGATACATGGAGATAAGACTTGCCAAAATTTGATCTGCTTCACTCCTGCTCAGTGAAGAT
1 AATGCCGATACATGGAGATAAGA-TTGCCAAAATTTGATCTGCTTCGCTCCTGCTCAGCGAAGAT
*
115873109 AAGATCTGGTATGTTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTAATGGCTGAAATCT
65 AAGATCTGGTA--TATAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTAATGGCTGAAATCT
*
115873174 GCTCCATTGCCAATACATGGAGATAAGATTCACCAAAATTTGATCTACTCCGCTCTTGCTCAGCG
128 GCTCCATTGCCAATACATGGAGATAAGATTCACCAAAATTTGATCTACTCCGCTCCTGCTCAGCG
* * *
115873239 AAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAATGCTTGTGGCTAAAA
193 AAAATAAGATCTAGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTAGTGGCTAAAA
115873304 TCTACTCC
258 TCTACTCC
* * * *
115873312 AATGCTGATACATGGAGATAAGATTCGCCAAAATTTGATCTACTCCGCTTCTGCTCAGCGAAGAT
1 AATGCCGATACATGGAGATAAGATT-GCCAAAATTTGATCTGCTTCGCTCCTGCTCAGCGAAGAT
115873377 AAGATCTG
65 AAGATCTG
115873385 TCAAAATTTG
Statistics
Matches: 308, Mismatches: 28, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
266 64 0.21
267 4 0.01
268 240 0.78
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (265 bp):
AATGCCGATACATGGAGATAAGATTGCCAAAATTTGATCTGCTTCGCTCCTGCTCAGCGAAGATA
AGATCTGGTATATAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTAATGGCTGAAATCTGCT
CCATTGCCAATACATGGAGATAAGATTCACCAAAATTTGATCTACTCCGCTCCTGCTCAGCGAAA
ATAAGATCTAGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTAGTGGCTAAAATCT
ACTCC
Found at i:115874434 original size:24 final size:24
Alignment explanation
Indices: 115874407--115874477 Score: 74
Period size: 24 Copynumber: 3.0 Consensus size: 24
115874397 TCACCTTGGC
*
115874407 CTCTCCTTTGCTTTTCTTTTCTTT
1 CTCTCCTTTGTTTTTCTTTTCTTT
** *
115874431 CTCTTTTTTGTTTTTCTCTTCTTT
1 CTCTCCTTTGTTTTTCTTTTCTTT
*
115874455 -T-TCCTTTTTTTTTCTCTTTCTTT
1 CTCTCCTTTGTTTTTCT-TTTCTTT
115874478 TTTCTCTTCT
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
22 11 0.29
23 7 0.18
24 20 0.53
ACGTcount: A:0.00, C:0.24, G:0.03, T:0.73
Consensus pattern (24 bp):
CTCTCCTTTGTTTTTCTTTTCTTT
Found at i:115874455 original size:17 final size:16
Alignment explanation
Indices: 115874423--115874496 Score: 71
Period size: 17 Copynumber: 4.5 Consensus size: 16
115874413 TTTGCTTTTC
*
115874423 TTTTCTTTCTCTT-TT
1 TTTTTTTTCTCTTCTT
*
115874438 TTGTTTTTCTCTTCTT
1 TTTTTTTTCTCTTCTT
*
115874454 TTTCCTTTTT-TTTTCTCT
1 TTT--TTTTTCTCTTCT-T
115874472 TTCTTTTTTCTCTTCTT
1 TT-TTTTTTCTCTTCTT
115874489 TTTTTTTT
1 TTTTTTTT
115874497 GAAAGTGAAG
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
15 11 0.23
16 10 0.21
17 13 0.27
18 13 0.27
19 1 0.02
ACGTcount: A:0.00, C:0.19, G:0.01, T:0.80
Consensus pattern (16 bp):
TTTTTTTTCTCTTCTT
Found at i:115874456 original size:12 final size:12
Alignment explanation
Indices: 115874441--115874492 Score: 72
Period size: 11 Copynumber: 4.4 Consensus size: 12
115874431 CTCTTTTTTG
115874441 TTTTTCTCTTC-
1 TTTTTCTCTTCT
*
115874452 TTTTTC-CTTTT
1 TTTTTCTCTTCT
115874463 TTTTTCTCTTTCT
1 TTTTTCTC-TTCT
115874476 TTTTTCTCTTCT
1 TTTTTCTCTTCT
115874488 TTTTT
1 TTTTT
115874493 TTTTGAAAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
10 3 0.08
11 12 0.33
12 10 0.28
13 11 0.31
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTTCTCTTCT
Found at i:115874480 original size:35 final size:37
Alignment explanation
Indices: 115874423--115874491 Score: 106
Period size: 35 Copynumber: 1.9 Consensus size: 37
115874413 TTTGCTTTTC
*
115874423 TTTTCTTTCTCTTTTTTGTTTTTCTCTTCTTTTTCCT
1 TTTTCTTTCTCTTTTCTGTTTTTCTCTTCTTTTTCCT
*
115874460 TTTTTTTTCTC-TTTCT-TTTTTCTCTTCTTTTT
1 TTTTCTTTCTCTTTTCTGTTTTTCTCTTCTTTTT
115874492 TTTTTGAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
35 16 0.53
36 4 0.13
37 10 0.33
ACGTcount: A:0.00, C:0.20, G:0.01, T:0.78
Consensus pattern (37 bp):
TTTTCTTTCTCTTTTCTGTTTTTCTCTTCTTTTTCCT
Found at i:115874493 original size:13 final size:12
Alignment explanation
Indices: 115874423--115874493 Score: 72
Period size: 13 Copynumber: 5.7 Consensus size: 12
115874413 TTTGCTTTTC
*
115874423 TTTTCTTTCTCT
1 TTTTTTTTCTCT
*
115874435 TTTTTGTTTTTCT
1 TTTTT-TTTCTCT
*
115874448 CTTCTTTTTC-CT
1 -TTTTTTTTCTCT
115874460 TTTTTTTTCTCT
1 TTTTTTTTCTCT
115874472 TTCTTTTTTCTCT
1 TT-TTTTTTCTCT
115874485 TCTTTTTTT
1 T-TTTTTTT
115874494 TTTGAAAGTG
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
11 8 0.16
12 10 0.20
13 26 0.53
14 5 0.10
ACGTcount: A:0.00, C:0.20, G:0.01, T:0.79
Consensus pattern (12 bp):
TTTTTTTTCTCT
Found at i:115874493 original size:37 final size:37
Alignment explanation
Indices: 115874423--115874491 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 37
115874413 TTTGCTTTTC
*
115874423 TTTTCTTTCTCTTTTTTGTTTTTCTCTTCTTTTTCCT
1 TTTTCTTTCTCTTTTTTGTTTCTCTCTTCTTTTTCCT
* *
115874460 TTTTTTTTCTCTTTCTT-TTT-TCTCTTCTTTTT
1 TTTTCTTTCTCTTTTTTGTTTCTCTCTTCTTTTT
115874492 TTTTTGAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
35 12 0.40
36 3 0.10
37 15 0.50
ACGTcount: A:0.00, C:0.20, G:0.01, T:0.78
Consensus pattern (37 bp):
TTTTCTTTCTCTTTTTTGTTTCTCTCTTCTTTTTCCT
Found at i:115878386 original size:46 final size:46
Alignment explanation
Indices: 115878275--115878741 Score: 547
Period size: 46 Copynumber: 10.0 Consensus size: 46
115878265 TTATCTTTGA
* * * * * **
115878275 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATGT
**
115878322 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
* * *** **
115878368 CACGCTGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
**
115878414 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTTTTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATGT
**
115878461 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
*** **
115878507 CACGCTGCCATGTGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGT
1 CA---TG---T-TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
*
115878560 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
* * *
115878606 CAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
* * * *
115878652 CAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTTAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
*
115878698 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
115878742 ATCAGAGAGC
Statistics
Matches: 374, Mismatches: 38, Indels: 17
0.87 0.09 0.04
Matches are distributed among these distances:
46 254 0.68
47 75 0.20
49 2 0.01
50 2 0.01
52 1 0.00
53 40 0.11
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.40
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
Found at i:115880721 original size:18 final size:20
Alignment explanation
Indices: 115880706--115880742 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
115880696 TAATAATAAA
*
115880706 ATATCTCATTAAAATAATAT
1 ATATCTAATTAAAATAATAT
115880726 ATATCTAATT-AAATAAT
1 ATATCTAATTAAAATAAT
115880743 CATAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATCTAATTAAAATAATAT
Found at i:115883496 original size:46 final size:46
Alignment explanation
Indices: 115883385--115883804 Score: 491
Period size: 46 Copynumber: 9.0 Consensus size: 46
115883375 TTATCTTTGA
* * * * **
115883385 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGT
*
115883432 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * * * * *
115883478 CACGCTGCTATGGTATCTTTCAACCATGGTCTTATTTATTTCCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* **
115883524 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTTTTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGT
*
115883571 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * *
115883617 CACGCTGCCATGTGCCATGGTATCTTTCAACCATGGTCTTATTTATTTC-CGT
1 CA---TG---T-TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* *
115883669 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * * * *
115883715 CAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTTAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* *
115883761 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
115883805 ATCAGAGAGC
Statistics
Matches: 328, Mismatches: 36, Indels: 19
0.86 0.09 0.05
Matches are distributed among these distances:
45 34 0.10
46 174 0.53
47 75 0.23
49 4 0.01
52 5 0.02
53 36 0.11
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
Found at i:115883612 original size:139 final size:139
Alignment explanation
Indices: 115883363--115883794 Score: 602
Period size: 139 Copynumber: 3.1 Consensus size: 139
115883353 CGTCTCCCAT
* * * * * *
115883363 CCATGGTCTTATTTATCTT--TGACATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTT
1 CCATGGTCTTATTTAT-TTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
115883426 TTTTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGCTGCTATGG
65 TTTTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGCTGCTATGG
115883491 TATCTTTCAA
130 TATCTTTCAA
115883501 CCATGGTCTTATTTATTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTT
1 CCATGGTCTTATTTATTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTT
115883566 TTTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGCTGCCATGTG
66 TTTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGCTG-C---T-
115883631 CCATGGTATCTTTCAA
126 --ATGGTATCTTTCAA
115883647 CCATGGTCTTATTTATTTCC-GTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTT
1 CCATGGTCTTATTTATTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTT
** * * * ** * * * * *
115883710 CATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTTATCAGGTTGCCATGGT
66 TTTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGCTGCTATGGT
115883775 ATCTTTCAA
131 ATCTTTCAA
115883784 CCATGGTCTTA
1 CCATGGTCTTA
115883795 CACATTTCAT
Statistics
Matches: 267, Mismatches: 18, Indels: 19
0.88 0.06 0.06
Matches are distributed among these distances:
137 27 0.10
138 16 0.06
139 97 0.36
140 1 0.00
143 2 0.01
144 50 0.19
145 40 0.15
146 34 0.13
ACGTcount: A:0.20, C:0.23, G:0.16, T:0.42
Consensus pattern (139 bp):
CCATGGTCTTATTTATTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTT
TTTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGCTGCTATGGT
ATCTTTCAA
Found at i:115885978 original size:18 final size:20
Alignment explanation
Indices: 115885963--115885999 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
115885953 TAATAATAAA
*
115885963 ATATCTCATTAAAATAATAT
1 ATATCTAATTAAAATAATAT
115885983 ATATCTAATT-AAATAAT
1 ATATCTAATTAAAATAAT
115886000 CATAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATCTAATTAAAATAATAT
Found at i:115887744 original size:21 final size:21
Alignment explanation
Indices: 115887714--115887765 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
115887704 AATAGTAATT
* *
115887714 AATAGAAATAATTAATAAAAC
1 AATAGTAATAATAAATAAAAC
* *
115887735 AATAGTAATAATAAATACAAT
1 AATAGTAATAATAAATAAAAC
115887756 AAT-GTAATAA
1 AATAGTAATAA
115887766 ACATTGTGCT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 7 0.26
21 20 0.74
ACGTcount: A:0.63, C:0.04, G:0.06, T:0.27
Consensus pattern (21 bp):
AATAGTAATAATAAATAAAAC
Found at i:115888059 original size:14 final size:14
Alignment explanation
Indices: 115888040--115888070 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
115888030 ATATATTTAC
*
115888040 ATAATAAATATATA
1 ATAATAAATAAATA
115888054 ATAATAAATAAATA
1 ATAATAAATAAATA
115888068 ATA
1 ATA
115888071 TAATAATATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAATAAATAAATA
Found at i:115888071 original size:19 final size:18
Alignment explanation
Indices: 115888042--115888078 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
115888032 ATATTTACAT
115888042 AATAAATATATAATAATA
1 AATAAATATATAATAATA
115888060 AATAAATAATATAATAATA
1 AATAAAT-ATATAATAATA
115888079 TGAAACATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AATAAATATATAATAATA
Found at i:115888551 original size:37 final size:37
Alignment explanation
Indices: 115888498--115888568 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
115888488 ATAACAAGTA
* *
115888498 GGGTGATGGAGTTAGTGGACGGTTTAGTAGGGTGTGG
1 GGGTGATGGAGGTAGTGGACGGTTTAGTAAGGTGTGG
*
115888535 GGGTGATGGAGGTAGTGGATGGTTTAGTAAGGTG
1 GGGTGATGGAGGTAGTGGACGGTTTAGTAAGGTG
115888569 ATGGAGTTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.18, C:0.01, G:0.51, T:0.30
Consensus pattern (37 bp):
GGGTGATGGAGGTAGTGGACGGTTTAGTAAGGTGTGG
Found at i:115888587 original size:29 final size:29
Alignment explanation
Indices: 115888536--115888591 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
115888526 AGGGTGTGGG
*
115888536 GGTGATGGAGGTAGTGGATGGTTTAGTAA
1 GGTGATGGAGGTAGTAGATGGTTTAGTAA
*
115888565 GGTGATGGAGTTAGTAG-TCGGTTTAGT
1 GGTGATGGAGGTAGTAGAT-GGTTTAGT
115888592 GGGGTGTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 1 0.04
29 23 0.96
ACGTcount: A:0.21, C:0.02, G:0.43, T:0.34
Consensus pattern (29 bp):
GGTGATGGAGGTAGTAGATGGTTTAGTAA
Found at i:115888597 original size:29 final size:29
Alignment explanation
Indices: 115888534--115888597 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
115888524 GTAGGGTGTG
*
115888534 GGGGTGATGGAGGTAGTGGATGGTTTAGT
1 GGGGTGATGGAGGTAGTAGATGGTTTAGT
** *
115888563 AAGGTGATGGAGTTAGTAG-TCGGTTTAGT
1 GGGGTGATGGAGGTAGTAGAT-GGTTTAGT
115888592 GGGGTG
1 GGGGTG
115888598 TTTAACTTGA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
28 1 0.04
29 27 0.96
ACGTcount: A:0.19, C:0.02, G:0.48, T:0.31
Consensus pattern (29 bp):
GGGGTGATGGAGGTAGTAGATGGTTTAGT
Found at i:115893734 original size:9 final size:9
Alignment explanation
Indices: 115893720--115893748 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
115893710 TTACTAGTTT
115893720 AAAATTTTA
1 AAAATTTTA
115893729 AAAATTTTA
1 AAAATTTTA
115893738 AAAATTTTA
1 AAAATTTTA
115893747 AA
1 AA
115893749 GGGCTTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (9 bp):
AAAATTTTA
Found at i:115895772 original size:55 final size:55
Alignment explanation
Indices: 115895684--115895794 Score: 177
Period size: 55 Copynumber: 2.0 Consensus size: 55
115895674 GGTATTTTCC
* * * *
115895684 TATGTTGAGATTTGAATAGAATATAACTGCTAAGAATGTTCTTACTAAGTGAACA
1 TATGTTGAGATTTGAATAGAATATAACTCCTAAGAATGCTATCACTAAGTGAACA
*
115895739 TATGTTGAGATTTGAATAGAATATAATTCCTAAGAATGCTATCACTAAGTGAACA
1 TATGTTGAGATTTGAATAGAATATAACTCCTAAGAATGCTATCACTAAGTGAACA
115895794 T
1 T
115895795 TACAACGTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.39, C:0.10, G:0.17, T:0.34
Consensus pattern (55 bp):
TATGTTGAGATTTGAATAGAATATAACTCCTAAGAATGCTATCACTAAGTGAACA
Found at i:115900689 original size:34 final size:34
Alignment explanation
Indices: 115900641--115900707 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
115900631 ATCAGCCAAT
*
115900641 GAAATAACACCATTACAAATAGCAGTATGATAAC
1 GAAATAACACCATTACAAACAGCAGTATGATAAC
*
115900675 GAAATAACATCATTACAAACAGCAGTATGATAA
1 GAAATAACACCATTACAAACAGCAGTATGATAA
115900708 GTGATTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.51, C:0.16, G:0.12, T:0.21
Consensus pattern (34 bp):
GAAATAACACCATTACAAACAGCAGTATGATAAC
Found at i:115906687 original size:9 final size:9
Alignment explanation
Indices: 115906654--115906694 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
115906644 AGACGCTATT
*
115906654 TGCTGCTGC
1 TGCTGTTGC
*
115906663 TGCTGTTGT
1 TGCTGTTGC
*
115906672 TGTTGTTGC
1 TGCTGTTGC
115906681 TGCTGTTGC
1 TGCTGTTGC
115906690 TGCTG
1 TGCTG
115906695 CACCGAATCA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.00, C:0.20, G:0.34, T:0.46
Consensus pattern (9 bp):
TGCTGTTGC
Found at i:115908301 original size:130 final size:128
Alignment explanation
Indices: 115908075--115908709 Score: 580
Period size: 130 Copynumber: 4.9 Consensus size: 128
115908065 TTTAAGTTGT
* * * * * * * * *
115908075 TTTAAATGGAAAATTATTCAGATTCTCTTAAGGTTTGATATAAACATGTAGTCACTTATTAGTAA
1 TTTAATTGAAAAAGTATTCAAATTCTCTTAAGATTTAATATAAACACGTAGTCATTTTTTAGTAA
* * * ** *
115908140 ATTTATCAATCACTTGATTCAGGTTACCTCAAATTTACGCAA-CTTGATTTTAACCTTATATCAC
66 ATTTATCAACCACTCGATTCAGGTTACCTCAAACTTACGCAATC-AAATTTTAACCTCATAT-AC
* * *
115908204 TTTAATTGAAAAAGTATTCAAATTCTCTTAAGATTTAATATGAACATGTAGTCATTTTTTTAATA
1 TTTAATTGAAAAAGTATTCAAATTCTCTTAAGATTTAATATAAACACGTAGTCA-TTTTTTAGTA
* * * * **
115908269 AATTTATCAACCCCTCAATTCAGGTTATCTCAAACTTACGAAATCAAATTTTAACC-GGT-TAC
65 AATTTATCAACCACTCGATTCAGGTTACCTCAAACTTACGCAATCAAATTTTAACCTCATATAC
* * * * * * * *
115908331 TCTAACTGAAAAAGTATTTAAATTCTCTTAGGATTTAATATTAACACATAGTCCGTCTTTTAGTA
1 TTTAATTGAAAAAGTATTCAAATTCTCTTAAGATTTAATATAAACACGTAGT-CATTTTTTAGTA
* * *
115908396 AATTTATCAATCATCACTCGATTTAGGTTGCCTCAAACTTACGCAATCAAATTTTAATCTCA-AG
65 AATTTATCAA-C--CACTCGATTCAGGTTACCTCAAACTTACGCAATCAAATTTTAACCTCATA-
*
115908460 TTGC
126 -TAC
* *
115908464 TTTAATTGAAAAAATATTCAAATTCTCTTAAGATTTAATATAAACACGTAGCCACTTTTTTAGTA
1 TTTAATTGAAAAAGTATTCAAATTCTCTTAAGATTTAATATAAACACGTAGTCA-TTTTTTAGTA
* * * ** * * * *
115908529 AATTTATCAACTACTTGTTTGGGGTTGCCTCAAACTTACGCAATCAAATTATAACTTTAGGT-TA
65 AATTTATCAACCACTCGATTCAGGTTACCTCAAACTTACGCAATCAAATTTTAACCTCA--TATA
115908593 C
128 C
** * * ** *
115908594 TTTAATTGAAAAAGTATTCAAATTCTCTT-AGAATTTGGTATGAACGCGTAGTCACTCATTTGGT
1 TTTAATTGAAAAAGTATTCAAATTCTCTTAAG-ATTTAATATAAACACGTAGTCA-TTTTTTAGT
* * * *
115908658 AAATTCATCAATCACTCGATTCAGGTTACCTTAAACTTACGCAATTAAATTT
64 AAATTTATCAACCACTCGATTCAGGTTACCTCAAACTTACGCAATCAAATTT
115908710 AGATTCTTTT
Statistics
Matches: 410, Mismatches: 81, Indels: 29
0.79 0.16 0.06
Matches are distributed among these distances:
127 65 0.16
128 3 0.01
129 50 0.12
130 224 0.55
131 1 0.00
132 2 0.00
133 65 0.16
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (128 bp):
TTTAATTGAAAAAGTATTCAAATTCTCTTAAGATTTAATATAAACACGTAGTCATTTTTTAGTAA
ATTTATCAACCACTCGATTCAGGTTACCTCAAACTTACGCAATCAAATTTTAACCTCATATAC
Found at i:115908469 original size:260 final size:258
Alignment explanation
Indices: 115908123--115908709 Score: 671
Period size: 260 Copynumber: 2.3 Consensus size: 258
115908113 TATAAACATG
* * * * **
115908123 TAGTCACTTA-TTAGTAAATTTATCAATCACTTGATTCAGGTTACCTCAAATTTACGCAA-CTTG
1 TAGTCACTCATTTAGTAAATTCATCAATCACTCGATTCAGGTTACCTCAAACTTACGCAATC-AA
* * ** * *
115908186 ATTTTAACCTTATA-TCACTTTAATTGAAAAAGTATTCAAATTCTCTTAAGATTTAATATGAACA
65 ATTTTAATCTCA-AGTTGCTTTAATTGAAAAAATATTCAAATTCTCTTAAGATTTAATATAAACA
* * * * *
115908250 TGTAGTCATTTTTTTAATAAATTTATCAACCCCTCAATTCAGGTTATCTCAAACTTACGAAATCA
129 CGTAGCCACTTTTTTAATAAATTTATCAACCACTCAATTCAGGTTACCTCAAACTTACGAAATCA
* * * * *
115908315 AATTTTAAC-CGGTTACTCTAACTGAAAAAGTATTTAAATTCTCTTAGGATTTAATATTAACACA
194 AATTATAACTAGGTTACTCTAACTGAAAAAGTATTCAAATTCTCTTAGAATTTAATATGAACACA
* * * *
115908379 TAGTC-CGTCTTTTAGTAAATTTATCAATCATCACTCGATTTAGGTTGCCTCAAACTTACGCAAT
1 TAGTCAC-TCATTTAGTAAATTCATC-A--ATCACTCGATTCAGGTTACCTCAAACTTACGCAAT
115908443 CAAATTTTAATCTCAAGTTGCTTTAATTGAAAAAATATTCAAATTCTCTTAAGATTTAATATAAA
62 CAAATTTTAATCTCAAGTTGCTTTAATTGAAAAAATATTCAAATTCTCTTAAGATTTAATATAAA
* * *** ** * *
115908508 CACGTAGCCACTTTTTTAGTAAATTTATCAACTACTTGTTTGGGGTTGCCTCAAACTTACGCAAT
127 CACGTAGCCACTTTTTTAATAAATTTATCAACCACTCAATTCAGGTTACCTCAAACTTACGAAAT
* * **
115908573 CAAATTATAACTTTAGGTTACTTTAATTGAAAAAGTATTCAAATTCTCTTAGAATTTGGTATGAA
192 CAAATTATAAC--TAGGTTACTCTAACTGAAAAAGTATTCAAATTCTCTTAGAATTTAATATGAA
* *
115908638 CGCG
255 CACA
* * *
115908642 TAGTCACTCATTTGGTAAATTCATCAATCACTCGATTCAGGTTACCTTAAACTTACGCAATTAAA
1 TAGTCACTCATTTAGTAAATTCATCAATCACTCGATTCAGGTTACCTCAAACTTACGCAATCAAA
115908707 TTT
66 TTT
115908710 AGATTCTTTT
Statistics
Matches: 274, Mismatches: 46, Indels: 18
0.81 0.14 0.05
Matches are distributed among these distances:
255 1 0.00
256 6 0.02
257 14 0.05
258 1 0.00
259 1 0.00
260 183 0.67
261 1 0.00
262 1 0.00
263 65 0.24
264 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (258 bp):
TAGTCACTCATTTAGTAAATTCATCAATCACTCGATTCAGGTTACCTCAAACTTACGCAATCAAA
TTTTAATCTCAAGTTGCTTTAATTGAAAAAATATTCAAATTCTCTTAAGATTTAATATAAACACG
TAGCCACTTTTTTAATAAATTTATCAACCACTCAATTCAGGTTACCTCAAACTTACGAAATCAAA
TTATAACTAGGTTACTCTAACTGAAAAAGTATTCAAATTCTCTTAGAATTTAATATGAACACA
Found at i:115910383 original size:3 final size:3
Alignment explanation
Indices: 115910377--115910425 Score: 80
Period size: 3 Copynumber: 16.3 Consensus size: 3
115910367 AATAGAAGAC
* *
115910377 AAT AAT AAT AAT ATT AAT AAT AAT AAT AAA AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
115910425 A
1 A
115910426 TAGGAAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:115910578 original size:3 final size:3
Alignment explanation
Indices: 115910570--115910705 Score: 134
Period size: 3 Copynumber: 45.3 Consensus size: 3
115910560 TAGAACCATG
* * * * *
115910570 ATA ATA ATA AAA ATA AAA ATA ATA A-A ATA ATA A-A AAA ACA AT- ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
115910615 TTA CTA ATA ATA ATA AAA ATAA ATA ATG GTA ATAA ATA TATA ATA ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA AT-A ATA -ATA ATA ATA
115910663 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
115910706 CGCTCTTTCC
Statistics
Matches: 111, Mismatches: 16, Indels: 12
0.80 0.12 0.09
Matches are distributed among these distances:
2 6 0.05
3 96 0.86
4 9 0.08
ACGTcount: A:0.67, C:0.01, G:0.02, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:115911074 original size:23 final size:24
Alignment explanation
Indices: 115911032--115911080 Score: 82
Period size: 23 Copynumber: 2.1 Consensus size: 24
115911022 TCTTTTTGCA
115911032 GGCAAGTGGGGTGGTAGAGTTAGT
1 GGCAAGTGGGGTGGTAGAGTTAGT
*
115911056 GGCAAGT-GGGTGGTGGAGTTAGT
1 GGCAAGTGGGGTGGTAGAGTTAGT
115911079 GG
1 GG
115911081 TCGGTTTAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.18, C:0.04, G:0.53, T:0.24
Consensus pattern (24 bp):
GGCAAGTGGGGTGGTAGAGTTAGT
Found at i:115911097 original size:17 final size:17
Alignment explanation
Indices: 115911075--115911108 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
115911065 GTGGTGGAGT
115911075 TAGTGGTCGGTTTAGTA
1 TAGTGGTCGGTTTAGTA
115911092 TAGTGGTCGGTTTAGTA
1 TAGTGGTCGGTTTAGTA
115911109 GGGTGCTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.06, G:0.35, T:0.41
Consensus pattern (17 bp):
TAGTGGTCGGTTTAGTA
Found at i:115918496 original size:16 final size:15
Alignment explanation
Indices: 115918475--115918518 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 15
115918465 CAAATAATTT
115918475 AAAATTTAAAAAATC
1 AAAATTTAAAAAATC
*
115918490 AAAAATTAAAAGAATC
1 AAAATTTAAAA-AATC
*
115918506 AAAATTCAAAAAA
1 AAAATTTAAAAAA
115918519 ATATATAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.70, C:0.07, G:0.02, T:0.20
Consensus pattern (15 bp):
AAAATTTAAAAAATC
Found at i:115918498 original size:15 final size:15
Alignment explanation
Indices: 115918475--115918518 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
115918465 CAAATAATTT
*
115918475 AAAATTTAAAAAATC
1 AAAAATTAAAAAATC
115918490 AAAAATTAAAAGAATC
1 AAAAATTAAAA-AATC
115918506 -AAAATTCAAAAAA
1 AAAAATT-AAAAAA
115918519 ATATATAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 18 0.69
16 8 0.31
ACGTcount: A:0.70, C:0.07, G:0.02, T:0.20
Consensus pattern (15 bp):
AAAAATTAAAAAATC
Found at i:115923747 original size:6 final size:6
Alignment explanation
Indices: 115923740--115923771 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
115923730 TGTTCCACAT
*
115923740 ATATAT ATATAA ATATAA ATATAA ATATAA AT
1 ATATAA ATATAA ATATAA ATATAA ATATAA AT
115923772 GTATGTATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (6 bp):
ATATAA
Found at i:115926957 original size:30 final size:30
Alignment explanation
Indices: 115926915--115926975 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 30
115926905 TAGGGTTTTG
115926915 AAATTAAGTTTAT-ATTTTAAAAATAATAA
1 AAATTAAGTTTATAATTTTAAAAATAATAA
* * *
115926944 AAATATAATTTTATAATTTTTAAAATATTAA
1 AAAT-TAAGTTTATAATTTTAAAAATAATAA
115926975 A
1 A
115926976 TTAAATTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 4 0.15
30 8 0.30
31 15 0.56
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (30 bp):
AAATTAAGTTTATAATTTTAAAAATAATAA
Found at i:115928063 original size:16 final size:16
Alignment explanation
Indices: 115928042--115928072 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
115928032 ATCTGTGATC
115928042 AAATAAGGTTAGAATG
1 AAATAAGGTTAGAATG
115928058 AAATAAGGTTAGAAT
1 AAATAAGGTTAGAAT
115928073 TATATTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.23, T:0.26
Consensus pattern (16 bp):
AAATAAGGTTAGAATG
Found at i:115930993 original size:24 final size:24
Alignment explanation
Indices: 115930945--115930989 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
115930935 TTAATTTTTT
115930945 TTATTTTAAAAATTTATTATTATA
1 TTATTTTAAAAATTTATTATTATA
* *
115930969 TTATTTTTAATATTTA-TATTA
1 TTATTTTAAAAATTTATTATTA
115930990 ATATATGGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
TTATTTTAAAAATTTATTATTATA
Found at i:115931532 original size:108 final size:108
Alignment explanation
Indices: 115931419--115931617 Score: 371
Period size: 108 Copynumber: 1.8 Consensus size: 108
115931409 AAAACACGTC
* *
115931419 AAAAATTTTATCAGAGTAATTAACAAATATTTTAATACAATTTTGTTAGAAATTTTATTATTTAA
1 AAAAATTTTATCAAAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTATTATTTAA
115931484 AACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAATA
66 AACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAATA
115931527 AAAAATTTTATCAAAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTATTATTTAA
1 AAAAATTTTATCAAAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTATTATTTAA
*
115931592 AACTTATTCTAACTTAACATATCATT
66 AACTTATTCCAACTTAACATATCATT
115931618 TTAAAAAAAC
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
108 88 1.00
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.43
Consensus pattern (108 bp):
AAAAATTTTATCAAAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTATTATTTAA
AACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAATA
Found at i:115934625 original size:25 final size:23
Alignment explanation
Indices: 115934579--115934633 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
115934569 ATTTGATAAA
* *
115934579 GATATAAATTAAATAACTTTTTTT
1 GATA-AAATTAAATAAATTTTTAT
115934603 GATAAAATTAGAGATAAATTTTTAT
1 GATAAAATTA-A-ATAAATTTTTAT
115934628 GA-AAAA
1 GATAAAA
115934634 GTTATGTAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 6 0.22
24 9 0.33
25 12 0.44
ACGTcount: A:0.49, C:0.02, G:0.09, T:0.40
Consensus pattern (23 bp):
GATAAAATTAAATAAATTTTTAT
Found at i:115939193 original size:16 final size:16
Alignment explanation
Indices: 115939162--115939207 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
115939152 ATCTTCATTG
115939162 AATCCCTAACAATCTTCA
1 AATCCCT-A-AATCTTCA
*
115939180 AATCCCTAAATCTTGA
1 AATCCCTAAATCTTCA
*
115939196 AATACCTAAATC
1 AATCCCTAAATC
115939208 ATTAGCTTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 18 0.69
17 1 0.04
18 7 0.27
ACGTcount: A:0.41, C:0.28, G:0.02, T:0.28
Consensus pattern (16 bp):
AATCCCTAAATCTTCA
Found at i:115939197 original size:70 final size:70
Alignment explanation
Indices: 115939109--115939240 Score: 162
Period size: 70 Copynumber: 1.9 Consensus size: 70
115939099 CTAATTTCTA
* *
115939109 AAATCCTCAAATCGTGAAATTCCCTAAATCCTTAACCT-CTAAAATCTTCATTG-AATCCCTAAC
1 AAATCCTCAAATCGTGAAA-TACCTAAATCATTAACCTACTAAAATCTTC-TTGAAATCCCTAAC
115939172 AATCTTC
64 AATCTTC
* * * *
115939179 AAATCC-CTAAATCTTGAAATACCTAAATCATTAGCTTACTGAAATCTTCTTGAAATCCCTAA
1 AAATCCTC-AAATCGTGAAATACCTAAATCATTAACCTACTAAAATCTTCTTGAAATCCCTAA
115939241 AATTTTTACG
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
69 18 0.34
70 35 0.66
ACGTcount: A:0.37, C:0.26, G:0.05, T:0.32
Consensus pattern (70 bp):
AAATCCTCAAATCGTGAAATACCTAAATCATTAACCTACTAAAATCTTCTTGAAATCCCTAACAA
TCTTC
Found at i:115939961 original size:30 final size:30
Alignment explanation
Indices: 115939925--115939987 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
115939915 GACCCATATG
115939925 TTAGATATGTAGGTGGGAAAGTGATTAGGC
1 TTAGATATGTAGGTGGGAAAGTGATTAGGC
115939955 TTAGATATGTAGGTGGGAAAGTGATTAGGC
1 TTAGATATGTAGGTGGGAAAGTGATTAGGC
115939985 TTA
1 TTA
115939988 AAGAGGACTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.30, C:0.03, G:0.35, T:0.32
Consensus pattern (30 bp):
TTAGATATGTAGGTGGGAAAGTGATTAGGC
Found at i:115940320 original size:33 final size:33
Alignment explanation
Indices: 115940243--115940321 Score: 81
Period size: 33 Copynumber: 2.4 Consensus size: 33
115940233 TATTGACTAC
* *
115940243 TGGGG-AGTGTGATGTTGAAGGGTTAGAAGTTCA
1 TGGGGAAG-GTGATGATGAAGGGGTAGAAGTTCA
* *
115940276 TGGGGAGGGTGATGATGAAGGGGTAGAA-TCTGA
1 TGGGGAAGGTGATGATGAAGGGGTAGAAGT-TCA
*
115940309 TGGTGAAGGTGAT
1 TGGGGAAGGTGAT
115940322 CTAGAAAAGG
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
32 1 0.03
33 36 0.95
34 1 0.03
ACGTcount: A:0.25, C:0.03, G:0.46, T:0.27
Consensus pattern (33 bp):
TGGGGAAGGTGATGATGAAGGGGTAGAAGTTCA
Found at i:115940366 original size:33 final size:34
Alignment explanation
Indices: 115940275--115940366 Score: 102
Period size: 33 Copynumber: 2.8 Consensus size: 34
115940265 TTAGAAGTTC
*
115940275 ATGGGGAGGGTGATG-ATG-AAGGGGTAGAATCTG
1 ATGGGGAGGGTGATGTA-GAAAGAGGTAGAATCTG
* * *
115940308 ATGGTGAAGGTGATCTAGAAA-AGGTAGAATCTG
1 ATGGGGAGGGTGATGTAGAAAGAGGTAGAATCTG
*
115940341 GTGGGGAGGGTGATGTA-AAAGAGGTA
1 ATGGGGAGGGTGATGTAGAAAGAGGTA
115940367 CAAGTTGATG
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
32 3 0.06
33 42 0.88
34 3 0.06
ACGTcount: A:0.32, C:0.03, G:0.43, T:0.22
Consensus pattern (34 bp):
ATGGGGAGGGTGATGTAGAAAGAGGTAGAATCTG
Found at i:115940558 original size:51 final size:51
Alignment explanation
Indices: 115940484--115940641 Score: 235
Period size: 51 Copynumber: 3.1 Consensus size: 51
115940474 GTGAAGTTGC
*
115940484 TGCTAATGAATATGCTGGTGATTTTGCAACATCAGATGGAGTGGATAATGT
1 TGCTGATGAATATGCTGGTGATTTTGCAACATCAGATGGAGTGGATAATGT
* * * *
115940535 TGCTGATGAATGTGTTGGTGATTTTGCAATATCAGATGGAGTGGATAGTGT
1 TGCTGATGAATATGCTGGTGATTTTGCAACATCAGATGGAGTGGATAATGT
* * * *
115940586 TGTTGATGAATATGCTGGTGATTTTGCAGCATCTGATGGACTGGATAATGT
1 TGCTGATGAATATGCTGGTGATTTTGCAACATCAGATGGAGTGGATAATGT
115940637 TGCTG
1 TGCTG
115940642 CTGCACATAA
Statistics
Matches: 93, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 93 1.00
ACGTcount: A:0.25, C:0.09, G:0.30, T:0.36
Consensus pattern (51 bp):
TGCTGATGAATATGCTGGTGATTTTGCAACATCAGATGGAGTGGATAATGT
Found at i:115941499 original size:26 final size:24
Alignment explanation
Indices: 115941469--115941518 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
115941459 AAATAAAAAA
*
115941469 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
115941495 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
115941519 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:115941538 original size:21 final size:21
Alignment explanation
Indices: 115941489--115941547 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
115941479 ATAATAAATC
*
115941489 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
115941509 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
115941531 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
115941548 TTCTTAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Done.