Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 44 of 770
Found at i:12582308 original size:69 final size:69
Alignment explanation
Indices: 12582197--12582425 Score: 282
Period size: 69 Copynumber: 3.3 Consensus size: 69
12582187 GTTTCTTCGA
* * ** *
12582197 GTTAGCTGATTTAATATTGCAACTCCTAAAATAGTTCGATGACCTACGTTCACAGTTGATATTAT
1 GTTAGCTGATTTAAGATCGCAACTCCTAAAATAACTCGATGACCTACGTTCACAATTGATATTAT
12582262 AAAG
66 AAAG
* * *
12582266 GTTAGTTGATTTAAGATCGCAACTCCTAGAATAACTCGATGACCTACGTTCATAATTGATATTAT
1 GTTAGCTGATTTAAGATCGCAACTCCTAAAATAACTCGATGACCTACGTTCACAATTGATATTAT
12582331 AAAG
66 AAAG
* * * * *
12582335 GTTAGCTGATTGAAGATCGCAACTCCTAAAACT-ACTCGATGACGTACGATCACAACT-AAATTA
1 GTTAGCTGATTTAAGATCGCAACTCCTAAAA-TAACTCGATGACCTACGTTCACAATTGATATTA
*
12582398 CAAAG
65 TAAAG
* * *
12582403 GTTAGTTTATTTAAGATCACAAC
1 GTTAGCTGATTTAAGATCGCAAC
12582426 CTAAGTTTAT
Statistics
Matches: 138, Mismatches: 21, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
68 28 0.20
69 109 0.79
70 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.31
Consensus pattern (69 bp):
GTTAGCTGATTTAAGATCGCAACTCCTAAAATAACTCGATGACCTACGTTCACAATTGATATTAT
AAAG
Found at i:12586688 original size:16 final size:18
Alignment explanation
Indices: 12586657--12586693 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
12586647 CAAATACCCA
*
12586657 TAAAAACTTAATACTC-T
1 TAAAAACCTAATACTCAT
12586674 TAAAAACCTAA-ACTCAT
1 TAAAAACCTAATACTCAT
12586691 TAA
1 TAA
12586694 TATTTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.51, C:0.19, G:0.00, T:0.30
Consensus pattern (18 bp):
TAAAAACCTAATACTCAT
Found at i:12589666 original size:34 final size:34
Alignment explanation
Indices: 12589628--12589701 Score: 103
Period size: 34 Copynumber: 2.2 Consensus size: 34
12589618 TCCTAAATAC
* * **
12589628 ACCAAATTGTACATAAGTGCATTCATCCTTCACA
1 ACCAAATTGCACATAAGTGCATCCATCCCACACA
*
12589662 ACCAAATTGCACATAAGTGTATCCATCCCACACA
1 ACCAAATTGCACATAAGTGCATCCATCCCACACA
12589696 ACCAAA
1 ACCAAA
12589702 GAGCACTGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.39, C:0.30, G:0.08, T:0.23
Consensus pattern (34 bp):
ACCAAATTGCACATAAGTGCATCCATCCCACACA
Found at i:12595153 original size:29 final size:29
Alignment explanation
Indices: 12595087--12595188 Score: 109
Period size: 29 Copynumber: 3.6 Consensus size: 29
12595077 TACCTATATT
* * *
12595087 TGGCCCATTAAGCCC-AATCATATTTATA
1 TGGCCCATTAGGCCCAAATCACACTTATA
* * * *
12595115 GGGACTATTAGGCCCAAATTAC-CTGTATA
1 TGGCCCATTAGGCCCAAATCACACT-TATA
12595144 TGGCCCATTAGGCCCAAATCACACTTATA
1 TGGCCCATTAGGCCCAAATCACACTTATA
*
12595173 TGGCCCGTTAGGCCCA
1 TGGCCCATTAGGCCCA
12595189 GTCACATTCA
Statistics
Matches: 59, Mismatches: 12, Indels: 5
0.78 0.16 0.07
Matches are distributed among these distances:
28 12 0.20
29 45 0.76
30 2 0.03
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.26
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACACTTATA
Found at i:12595432 original size:16 final size:16
Alignment explanation
Indices: 12595411--12595453 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
12595401 CATACCTAAC
12595411 TTTCGGCTTTTC-AGCA
1 TTTCGGCTTTTCGA-CA
12595427 TTTCGGCTTTTCGACA
1 TTTCGGCTTTTCGACA
*
12595443 TTTCGACTTTT
1 TTTCGGCTTTT
12595454 GCCGATTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 24 0.96
17 1 0.04
ACGTcount: A:0.12, C:0.23, G:0.16, T:0.49
Consensus pattern (16 bp):
TTTCGGCTTTTCGACA
Found at i:12612387 original size:42 final size:42
Alignment explanation
Indices: 12612326--12612446 Score: 131
Period size: 42 Copynumber: 2.9 Consensus size: 42
12612316 GGAAAGCTCG
* *
12612326 TACAATGTCAACGTCCCAGACGTGGTCTTACATGTAATC-AA
1 TACAATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAA
* * *
12612367 TATCAATGCCACTGTCCCAGACAG-GGTCTTACACG-AGTTCAAA
1 TA-CAATGCCAATGTCCCAGAC-GTGGTCTTACATGTA-ATCAAA
* *
12612410 TACGATGCCAATGTCCCAGACATGGTCTTACATGTAA
1 TACAATGCCAATGTCCCAGACGTGGTCTTACATGTAA
12612447 ATCATAAGTC
Statistics
Matches: 64, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
41 3 0.05
42 55 0.86
43 6 0.09
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (42 bp):
TACAATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAA
Found at i:12619360 original size:3 final size:3
Alignment explanation
Indices: 12619352--12619379 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
12619342 TAGATTGGAC
12619352 GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT G
12619380 GTAATTGGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:12619658 original size:25 final size:25
Alignment explanation
Indices: 12619604--12619650 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
12619594 ATATATTATT
*
12619604 TGTTAAATTTTTTATATTTAATATA
1 TGTTAAATTTTATATATTTAATATA
*
12619629 GGTTAAATTTTAT-TA-TTAATAT
1 TGTTAAATTTTATATATTTAATAT
12619651 TAATGTTATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 7 0.35
24 2 0.10
25 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.57
Consensus pattern (25 bp):
TGTTAAATTTTATATATTTAATATA
Found at i:12620448 original size:10 final size:10
Alignment explanation
Indices: 12620429--12620493 Score: 53
Period size: 10 Copynumber: 6.4 Consensus size: 10
12620419 TAATTTAGCA
*
12620429 TTTTATATAT
1 TTTTAAATAT
12620439 TTTTAAATAT
1 TTTTAAATAT
* *
12620449 TTTTTAGTAAT
1 TTTTAAAT-AT
12620460 TTTT-AATAT
1 TTTTAAATAT
12620469 TTTTAATATAT
1 TTTTAA-ATAT
*
12620480 ATTTACAA-AT
1 TTTTA-AATAT
12620490 TTTT
1 TTTT
12620494 TGAAAAAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
9 6 0.13
10 23 0.51
11 15 0.33
12 1 0.02
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.63
Consensus pattern (10 bp):
TTTTAAATAT
Found at i:12620454 original size:21 final size:21
Alignment explanation
Indices: 12620429--12620494 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
12620419 TAATTTAGCA
12620429 TTTTATATATTTTTAAATATT
1 TTTTATATATTTTTAAATATT
12620450 TTTTAGTA-ATTTTT-AATATT
1 TTTTA-TATATTTTTAAATATT
* *
12620470 TTTAATATATATTTACAA-ATT
1 TTTTATATATTTTTA-AATATT
12620491 TTTT
1 TTTT
12620495 GAAAAAAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
19 2 0.05
20 15 0.39
21 17 0.45
22 4 0.11
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (21 bp):
TTTTATATATTTTTAAATATT
Found at i:12620454 original size:29 final size:30
Alignment explanation
Indices: 12620408--12620493 Score: 79
Period size: 30 Copynumber: 2.9 Consensus size: 30
12620398 CATTTGGGAT
*
12620408 TTTTTAAATTATAATTTAG-CA-TTTTATATA
1 TTTTTAAA-TATAATTTAGTAATTTTTA-ATA
**
12620438 TTTTTAAATATTTTTTAGTAATTTTTAATA
1 TTTTTAAATATAATTTAGTAATTTTTAATA
**
12620468 TTTTT-AATATATATTTACAAATTTTT
1 TTTTTAAATATA-ATTTAGTAATTTTT
12620494 TGAAAAAAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
29 13 0.28
30 28 0.61
31 5 0.11
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (30 bp):
TTTTTAAATATAATTTAGTAATTTTTAATA
Found at i:12620479 original size:11 final size:11
Alignment explanation
Indices: 12620429--12620484 Score: 50
Period size: 11 Copynumber: 5.5 Consensus size: 11
12620419 TAATTTAGCA
12620429 TTTT-ATATAT
1 TTTTAATATAT
12620439 TTTTAA-ATATT
1 TTTTAATATA-T
*
12620450 TTTTAGTA-AT
1 TTTTAATATAT
12620460 TTTT-A-ATAT
1 TTTTAATATAT
12620469 TTTTAATATAT
1 TTTTAATATAT
*
12620480 ATTTA
1 TTTTA
12620485 CAAATTTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 11
0.73 0.06 0.22
Matches are distributed among these distances:
8 1 0.03
9 6 0.16
10 13 0.35
11 16 0.43
12 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (11 bp):
TTTTAATATAT
Found at i:12620491 original size:30 final size:31
Alignment explanation
Indices: 12620429--12620493 Score: 80
Period size: 30 Copynumber: 2.1 Consensus size: 31
12620419 TAATTTAGCA
* **
12620429 TTTTATATATTTTTAAATATTTTTTAGTAAT
1 TTTTATATATTTTTAAATATTATTTACAAAT
12620460 TTTTA-ATATTTTT-AATATATATTTACAAAT
1 TTTTATATATTTTTAAATAT-TATTTACAAAT
12620490 TTTT
1 TTTT
12620494 TGAAAAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 5 0.17
30 20 0.67
31 5 0.17
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.63
Consensus pattern (31 bp):
TTTTATATATTTTTAAATATTATTTACAAAT
Found at i:12623826 original size:27 final size:27
Alignment explanation
Indices: 12623768--12623845 Score: 68
Period size: 27 Copynumber: 2.9 Consensus size: 27
12623758 AGAGGTGATG
* * * *
12623768 CCTATCTGGTAGGCGTCACTGGTGTCT
1 CCTATCTGCTAGGCGCCACTAGTGACT
*
12623795 CCTATCTGCTAGGCGCCGCTAGTGACT
1 CCTATCTGCTAGGCGCCACTAGTGACT
* * *
12623822 TCTATCT-CATAGGCGGCACCAGTG
1 CCTATCTGC-TAGGCGCCACTAGTG
12623846 CTTAATTTTT
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
26 1 0.02
27 40 0.98
ACGTcount: A:0.15, C:0.29, G:0.27, T:0.28
Consensus pattern (27 bp):
CCTATCTGCTAGGCGCCACTAGTGACT
Found at i:12634100 original size:38 final size:38
Alignment explanation
Indices: 12634046--12634122 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
12634036 AGCCGATGAT
12634046 AGTGTGATGATGTCTTCGACACCTTCCAACCCAAACGA
1 AGTGTGATGATGTCTTCGACACCTTCCAACCCAAACGA
* *
12634084 AGTGTGATGATTTCTTCGACACCTTCCTACCCAAACGA
1 AGTGTGATGATGTCTTCGACACCTTCCAACCCAAACGA
12634122 A
1 A
12634123 CTTCCAATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (38 bp):
AGTGTGATGATGTCTTCGACACCTTCCAACCCAAACGA
Found at i:12636096 original size:74 final size:76
Alignment explanation
Indices: 12636001--12636161 Score: 245
Period size: 76 Copynumber: 2.1 Consensus size: 76
12635991 TTACGTAAAT
* * * *
12636001 AATACAAAGTTTATTACTTAAATTG-TAAAAAACCCCTAAAATTAATAACTGAAAT-GAAAAAAA
1 AATACAAAGTTGACTACTTAAATTGAAAAAAAACCCCTAAAATTAATAACTAAAATGGAAAAAAA
12636064 GTCATTACATA
66 GTCATTACATA
* *
12636075 AATACAAAGTTGACTATTTAAATTGAAAAAAAACCCCTAAATTTAATAACTAAAATGGAAAAAAA
1 AATACAAAGTTGACTACTTAAATTGAAAAAAAACCCCTAAAATTAATAACTAAAATGGAAAAAAA
12636140 GTCATTACATA
66 GTCATTACATA
*
12636151 AATATAAAGTT
1 AATACAAAGTT
12636162 ATTTAAATTA
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
74 22 0.28
75 27 0.35
76 29 0.37
ACGTcount: A:0.53, C:0.11, G:0.07, T:0.28
Consensus pattern (76 bp):
AATACAAAGTTGACTACTTAAATTGAAAAAAAACCCCTAAAATTAATAACTAAAATGGAAAAAAA
GTCATTACATA
Found at i:12636153 original size:76 final size:74
Alignment explanation
Indices: 12636001--12636188 Score: 242
Period size: 76 Copynumber: 2.6 Consensus size: 74
12635991 TTACGTAAAT
* * * *
12636001 AATACAAAGTTTATTACTTAAATTGTAAAAAACCCCTAAAATTAATAACTGAAATGAAAAAAAGT
1 AATACAAAGTTGACTACTTAAATTGAAAAAAACCCCTAAAATTAATAACTAAAATGAAAAAAAGT
12636066 CATTACATA
66 CATTACATA
* *
12636075 AATACAAAGTTGACTATTTAAATTGAAAAAAAACCCCTAAATTTAATAACTAAAATGGAAAAAAA
1 AATACAAAGTTGACTACTTAAATTG-AAAAAAACCCCTAAAATTAATAACTAAAAT-GAAAAAAA
12636140 GTCATTACATA
64 GTCATTACATA
* * *
12636151 AATATAAAGTT-A-T--TTAAATT-AAAAAATCCCCCAAAATT
1 AATACAAAGTTGACTACTTAAATTGAAAAAAACCCCTAAAATT
12636189 GATGGTTTGA
Statistics
Matches: 102, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
70 15 0.15
72 7 0.07
74 23 0.23
75 28 0.27
76 29 0.28
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.28
Consensus pattern (74 bp):
AATACAAAGTTGACTACTTAAATTGAAAAAAACCCCTAAAATTAATAACTAAAATGAAAAAAAGT
CATTACATA
Found at i:12636429 original size:33 final size:33
Alignment explanation
Indices: 12636349--12636462 Score: 122
Period size: 33 Copynumber: 3.5 Consensus size: 33
12636339 GCTTGAGCGA
* * *
12636349 GGAGGAGTAGAGTAAGGCAGTGGATACGAGAT-G
1 GGAGGAGTGGAGTACGGCGGTGGATACGAG-TCG
*
12636382 GGAAGAGTGGAGTACGGCGGTGGATACGAGTCG
1 GGAGGAGTGGAGTACGGCGGTGGATACGAGTCG
* ***
12636415 AGAGGAGTGGAGTACTAAGGTGGATACGAGTCG
1 GGAGGAGTGGAGTACGGCGGTGGATACGAGTCG
* *
12636448 GGATGACTGGAGTAC
1 GGAGGAGTGGAGTAC
12636463 TGAGGTGGTA
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
32 1 0.01
33 67 0.99
ACGTcount: A:0.29, C:0.10, G:0.45, T:0.17
Consensus pattern (33 bp):
GGAGGAGTGGAGTACGGCGGTGGATACGAGTCG
Found at i:12636463 original size:33 final size:33
Alignment explanation
Indices: 12636368--12636470 Score: 127
Period size: 33 Copynumber: 3.1 Consensus size: 33
12636358 GAGTAAGGCA
* *
12636368 GTGGATACGAGAT-GGGAAGAGTGGAGTACGGCG
1 GTGGATACGAG-TCGGGAAGAGTGGAGTACTGAG
* * *
12636401 GTGGATACGAGTCGAGAGGAGTGGAGTACTAAG
1 GTGGATACGAGTCGGGAAGAGTGGAGTACTGAG
* *
12636434 GTGGATACGAGTCGGGATGACTGGAGTACTGAG
1 GTGGATACGAGTCGGGAAGAGTGGAGTACTGAG
12636467 GTGG
1 GTGG
12636471 TAGTGGGTTG
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
32 1 0.02
33 59 0.98
ACGTcount: A:0.26, C:0.10, G:0.46, T:0.18
Consensus pattern (33 bp):
GTGGATACGAGTCGGGAAGAGTGGAGTACTGAG
Found at i:12650598 original size:48 final size:48
Alignment explanation
Indices: 12650543--12650634 Score: 139
Period size: 48 Copynumber: 1.9 Consensus size: 48
12650533 GTGAAAAATA
* * * * *
12650543 TTTGAGTTAGTTAAGTTGATAAGTTTTATTTTATTGTCTTAACTTTGT
1 TTTGAGTTAGTCAAGTTGACAAGTCTTATTTTATTATCCTAACTTTGT
12650591 TTTGAGTTAGTCAAGTTGACAAGTCTTATTTTATTATCCTAACT
1 TTTGAGTTAGTCAAGTTGACAAGTCTTATTTTATTATCCTAACT
12650635 CGATGTGAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.25, C:0.09, G:0.15, T:0.51
Consensus pattern (48 bp):
TTTGAGTTAGTCAAGTTGACAAGTCTTATTTTATTATCCTAACTTTGT
Found at i:12654680 original size:46 final size:46
Alignment explanation
Indices: 12654613--12654840 Score: 341
Period size: 46 Copynumber: 5.0 Consensus size: 46
12654603 AGTGTGCTCT
12654613 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
12654659 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
12654705 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ***
12654751 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
12654797 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
12654841 TCATGTCAAA
Statistics
Matches: 168, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.01
46 167 0.99
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:12656434 original size:17 final size:17
Alignment explanation
Indices: 12656412--12656450 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
12656402 GCGCCACCAC
* *
12656412 TTTTTTTATAATAATTA
1 TTTTTTTATAAAAAATA
12656429 TTTTTTTATAAAAAATA
1 TTTTTTTATAAAAAATA
12656446 TTTTT
1 TTTTT
12656451 ATTTTTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTTTTTATAAAAAATA
Found at i:12657089 original size:30 final size:31
Alignment explanation
Indices: 12657034--12657097 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
12657024 ACTTAACAAG
12657034 CAAATGCCTCTAAAATAATTAAAAAAATTAA
1 CAAATGCCTCTAAAATAATTAAAAAAATTAA
*
12657065 CAAATGCCTTTAAAATAA-TAAAAAAATTAA
1 CAAATGCCTCTAAAATAATTAAAAAAATTAA
12657095 CAA
1 CAA
12657098 TAAAATAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 15 0.47
31 17 0.53
ACGTcount: A:0.59, C:0.12, G:0.03, T:0.25
Consensus pattern (31 bp):
CAAATGCCTCTAAAATAATTAAAAAAATTAA
Found at i:12657647 original size:14 final size:16
Alignment explanation
Indices: 12657618--12657649 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
12657608 GGTTTAATAA
12657618 TTTTTATGAATGTATT
1 TTTTTATGAATGTATT
12657634 TTTTTAT-AAT-TATT
1 TTTTTATGAATGTATT
12657648 TT
1 TT
12657650 AAAATTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 3 0.19
16 7 0.44
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (16 bp):
TTTTTATGAATGTATT
Found at i:12658053 original size:101 final size:101
Alignment explanation
Indices: 12657745--12658129 Score: 459
Period size: 99 Copynumber: 3.8 Consensus size: 101
12657735 ATTTTGTTAA
* * *
12657745 TTATTTTGTTGGTAATTTATGATTAGGTTATAAATTGTTAGTGTT---TT-GTGATTTGTGATTT
1 TTATTTTGTTAGTAATTTATGATTAGTTTATAAATTGTTAGTGTTAGGTTAGTGTTTTGTGATTT
** *
12657806 TTTAGTAATGTAAATTTTTAAAAAAAATAATTTTACAG
66 TTTAGTAATGTAAATTTTT-TTAAAAATAA-TTTATAG
* * *
12657844 TTATTTTGTTAGTAATTTATGATTAGATTATAAATTGTTAGTGTTA----AGTATTTTGTGAATT
1 TTATTTTGTTAGTAATTTATGATTAGTTTATAAATTGTTAGTGTTAGGTTAGTGTTTTGTGATTT
* * *
12657905 ATTAATAATGTAAATTTTTTTTAAAAAT--GTTATAG
66 TTTAGTAATGTAAA-TTTTTTTAAAAATAATTTATAG
* *
12657940 TTATTTTGTTAGTAATTTATGATTAGTTTATAAATTGTTATTGTTTAGGTTAGGGTTTTGTGATT
1 TTATTTTGTTAGTAATTTATGATTAGTTTATAAATTGTTAGTG-TTAGGTTAGTGTTTTGTGATT
12658005 TTTTAGTAATGT-AATTTTTTTAAAAATAATTTATAG
65 TTTTAGTAATGTAAATTTTTTTAAAAATAATTTATAG
* *
12658041 TTATTTTGTTAGTAATTTATGATTAGATTATATAAATTGTTAGTGTTTAGTTTAGTATTTTGTGA
1 TTATTTTGTTAGTAATTTATGATTAG-TT-TATAAATTGTTAGTG-TTAGGTTAGTGTTTTGTGA
* *
12658106 TTTTTTTATTAATGTCAATTTTTT
63 -TTTTTTAGTAATGTAAATTTTTT
12658130 ATAATGTAAT
Statistics
Matches: 248, Mismatches: 24, Indels: 22
0.84 0.08 0.07
Matches are distributed among these distances:
96 46 0.19
97 3 0.01
99 85 0.34
100 7 0.03
101 53 0.21
102 2 0.01
103 31 0.12
104 13 0.05
105 8 0.03
ACGTcount: A:0.30, C:0.01, G:0.15, T:0.55
Consensus pattern (101 bp):
TTATTTTGTTAGTAATTTATGATTAGTTTATAAATTGTTAGTGTTAGGTTAGTGTTTTGTGATTT
TTTAGTAATGTAAATTTTTTTAAAAATAATTTATAG
Found at i:12658129 original size:17 final size:15
Alignment explanation
Indices: 12658107--12658142 Score: 54
Period size: 17 Copynumber: 2.3 Consensus size: 15
12658097 ATTTTGTGAT
12658107 TTTTTTATTAATGTCAA
1 TTTTTTA-TAATGT-AA
12658124 TTTTTTATAATGTAA
1 TTTTTTATAATGTAA
12658139 TTTT
1 TTTT
12658143 AATTTATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.32
16 6 0.32
17 7 0.37
ACGTcount: A:0.28, C:0.03, G:0.06, T:0.64
Consensus pattern (15 bp):
TTTTTTATAATGTAA
Found at i:12662167 original size:47 final size:46
Alignment explanation
Indices: 12661963--12662322 Score: 223
Period size: 47 Copynumber: 7.7 Consensus size: 46
12661953 TGGGATATAT
* * ***
12661963 TGCCGACGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAAATG
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCTCTG
* * *
12662011 CATGCCGATGCATGTCCCAGACATGTCTTACACTAG--CACAACTCCT-
1 --TGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCT-CTG
* ** * * *
12662057 AGCCGATGTGTGTCCCAGACACGTCTTACACTGGCTATC-TCTGTCG
1 TGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCT-G
* * * *
12662103 AGGCCGATGCATTTCCCAGACATGTCTTACTCTGGCACTCATCTCTG
1 -TGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCTG
* * *
12662150 TGCCGATGCCATGTCCCAGACATGGTCTTACAATGGCTCTCATAATATG
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CTCTG
* * * * * *
12662199 -GCTGATGCAT-ACCCTAGACATGTCTTACACTAGCCCTCGTCT-GG
1 TGCCGATGCATGTCCC-AGACATGTCTTACACTGGCTCTCATCTCTG
* **
12662243 ATGCCGATTCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-AATG
1 -TGCCGA-TGCATGTCCCAGACAT-GTCTTACACTGGCTCTCATCTCTG
* * **
12662291 TGGCAGAAGCATGTCTTAGACATGTCTTACAC
1 T-GCCGATGCATGTCCCAGACATGTCTTACAC
12662323 CGGCGTACAA
Statistics
Matches: 238, Mismatches: 54, Indels: 40
0.72 0.16 0.12
Matches are distributed among these distances:
44 31 0.13
45 3 0.01
46 42 0.18
47 78 0.33
48 61 0.26
49 16 0.07
50 7 0.03
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (46 bp):
TGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCTG
Found at i:12662207 original size:94 final size:94
Alignment explanation
Indices: 12661963--12662322 Score: 346
Period size: 94 Copynumber: 3.8 Consensus size: 94
12661953 TGGGATATAT
* *
12661963 TGCCGACGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAA-ATGCATGCCGATGCATGTC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATATG---GCCGATGCATGTC
*
12662027 CCAGACATGTCTTACACTAGCA--CAACTCCT-
63 CCAGACATGTCTTACACTAGCACTCATCT-CTG
* ** * * *
12662057 AGCCGATG-TGTGTCCCAGACA-CGTCTTACACTGGCTATCTC-T-GTCGA-GGCCGATGCATTT
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGC--TCTCATAAT--ATGGCCGATGCATGT
* *
12662117 CCCAGACATGTCTTACTCTGGCACTCATCTCTG
62 CCCAGACATGTCTTACACTAGCACTCATCTCTG
* * *
12662150 TGCCGATGCCATGTCCCAGACATGGTCTTACAATGGCTCTCATAATATGGCTGATGCAT-ACCCT
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATATGGCCGATGCATGTCCC-
* * *
12662214 AGACATGTCTTACACTAGCCCTCGTCT-GG
65 AGACATGTCTTACACTAGCACTCATCTCTG
* * * * **
12662243 ATGCCGATTCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCAGAAGCATGTCTT
1 -TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATATGGCCGATGCATGTCCC
12662308 AGACATGTCTTACAC
65 AGACATGTCTTACAC
12662323 CGGCGTACAA
Statistics
Matches: 218, Mismatches: 32, Indels: 32
0.77 0.11 0.11
Matches are distributed among these distances:
91 32 0.15
92 15 0.07
93 31 0.14
94 125 0.57
95 15 0.07
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (94 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATATGGCCGATGCATGTCCCA
GACATGTCTTACACTAGCACTCATCTCTG
Found at i:12667685 original size:11 final size:11
Alignment explanation
Indices: 12667669--12667712 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
12667659 CTCTAATTTC
12667669 AAAATAAAATA
1 AAAATAAAATA
*
12667680 AAAATAAGAT-
1 AAAATAAAATA
* *
12667690 AAGATAAGATA
1 AAAATAAAATA
12667701 AAAATAAAATA
1 AAAATAAAATA
12667712 A
1 A
12667713 TATTTAAACT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.18
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:12667701 original size:21 final size:21
Alignment explanation
Indices: 12667672--12667712 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
12667662 TAATTTCAAA
*
12667672 ATAAAATAAAAATAAGATAAG
1 ATAAAATAAAAATAAAATAAG
*
12667693 ATAAGATAAAAATAAAATAA
1 ATAAAATAAAAATAAAATAA
12667713 TATTTAAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (21 bp):
ATAAAATAAAAATAAAATAAG
Found at i:12671898 original size:30 final size:31
Alignment explanation
Indices: 12671838--12671910 Score: 80
Period size: 30 Copynumber: 2.4 Consensus size: 31
12671828 AAATTTTTTT
* *
12671838 AAAA-TTAATATAAACTTACAAAATTTAT-A
1 AAAATTTAATAAAAACTTACAAAATTCATAA
*
12671867 AAAATTTAATAAAAACTTA-TAAATATCATAA
1 AAAATTTAATAAAAACTTACAAAAT-TCATAA
*
12671898 AAAATATAATAAA
1 AAAATTTAATAAA
12671911 TTCTAATAGT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
29 8 0.22
30 16 0.43
31 13 0.35
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (31 bp):
AAAATTTAATAAAAACTTACAAAATTCATAA
Found at i:12672016 original size:20 final size:19
Alignment explanation
Indices: 12671993--12672039 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
12671983 TAATAATTCT
* *
12671993 TAAAAACTTATGAAAAGTCA
1 TAAAAAATTAT-AAAAATCA
*
12672013 TAAAAAATTATAAAAATTA
1 TAAAAAATTATAAAAATCA
12672032 TAAAAAAT
1 TAAAAAAT
12672040 CATATAACCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.28
Consensus pattern (19 bp):
TAAAAAATTATAAAAATCA
Found at i:12672588 original size:10 final size:10
Alignment explanation
Indices: 12672573--12672752 Score: 61
Period size: 10 Copynumber: 17.8 Consensus size: 10
12672563 TCTAGTTTAT
*
12672573 TTTTTTATGA
1 TTTTTTATAA
12672583 TTTTTTAT-A
1 TTTTTTATAA
*
12672592 TGTTTATATAA
1 T-TTTTTATAA
*
12672603 TTTTTAATAA
1 TTTTTTATAA
12672613 -TTTTTATACA
1 TTTTTTATA-A
12672623 -TTTTTATAA
1 TTTTTTATAA
** *
12672632 AATTTT-GAA
1 TTTTTTATAA
* *
12672641 TATTTGA-AA
1 TTTTTTATAA
12672650 TGTGTTTTTATTAA
1 --T-TTTTTA-TAA
*
12672664 TTTTATA-AA
1 TTTTTTATAA
*
12672673 ATTTTTATAA
1 TTTTTTATAA
* *
12672683 TTTATTAAAA
1 TTTTTTATAA
*
12672693 TTTATTAT-A
1 TTTTTTATAA
*
12672702 TTTTTAATATA
1 TTTTTTATA-A
12672713 TGTTTTTA-AA
1 T-TTTTTATAA
*
12672723 ATTTTTATAA
1 TTTTTTATAA
* *
12672733 GTTTATATGAA
1 TTTTTTAT-AA
12672744 TTTTATTAT
1 TTTT-TTAT
12672753 TTTTAATGTT
Statistics
Matches: 128, Mismatches: 25, Indels: 32
0.69 0.14 0.17
Matches are distributed among these distances:
9 38 0.30
10 59 0.46
11 16 0.12
12 13 0.10
14 2 0.02
ACGTcount: A:0.34, C:0.01, G:0.05, T:0.60
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:12672606 original size:29 final size:31
Alignment explanation
Indices: 12672593--12672729 Score: 74
Period size: 31 Copynumber: 4.5 Consensus size: 31
12672583 TTTTTTATAT
*
12672593 GTTTATATAATTTTTAATAATTTTTATACAT
1 GTTTATAAAATTTTTAATAATTTTTATACAT
* * * * **
12672624 TTTTATAAAATTTTGAAT-A-TTTGAAATGT
1 GTTTATAAAATTTTTAATAATTTTTATACAT
* *
12672653 GTTTTTATTAATTTTATAA-AATTTTTATA-A-
1 GTTTATA-AAATTTT-TAATAATTTTTATACAT
*
12672683 -TTTATTAAAATTTATT-AT-ATTTTTAATATAT
1 GTTTA-TAAAATTT-TTAATAATTTTT-ATACAT
*
12672714 GTTTTTAAAATTTTTA
1 GTTTATAAAATTTTTA
12672730 TAAGTTTATA
Statistics
Matches: 77, Mismatches: 17, Indels: 24
0.65 0.14 0.20
Matches are distributed among these distances:
28 7 0.09
29 23 0.30
30 13 0.17
31 26 0.34
32 8 0.10
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.58
Consensus pattern (31 bp):
GTTTATAAAATTTTTAATAATTTTTATACAT
Found at i:12672631 original size:19 final size:20
Alignment explanation
Indices: 12672584--12672631 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
12672574 TTTTTATGAT
12672584 TTTTTAT-ATGTTTATATAA
1 TTTTTATAATGTTTATATAA
12672603 TTTTTAATAAT-TTT-TATACA
1 TTTTT-ATAATGTTTATATA-A
12672623 TTTTTATAA
1 TTTTTATAA
12672632 AATTTTGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 13 0.50
20 11 0.42
21 2 0.08
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (20 bp):
TTTTTATAATGTTTATATAA
Found at i:12672683 original size:19 final size:19
Alignment explanation
Indices: 12672598--12672707 Score: 66
Period size: 21 Copynumber: 5.5 Consensus size: 19
12672588 TATATGTTTA
12672598 TATAATTTT-TAATAATTTT
1 TATAATTTTATAA-AATTTT
12672617 TATACATTTTTATAAAATTTT
1 TATA-A-TTTTATAAAATTTT
* * **
12672638 GA-ATATTTGA-AATGTGTTTT
1 TATA-ATTTTATAA--AATTTT
12672658 TATTAATTTTATAAAATTTT
1 TA-TAATTTTATAAAATTTT
12672678 TATAA-TTTATTAAAATTTAT
1 TATAATTTTA-TAAAATTT-T
*
12672698 TATATTTTTA
1 TATAATTTTA
12672708 ATATATGTTT
Statistics
Matches: 70, Mismatches: 10, Indels: 20
0.70 0.10 0.20
Matches are distributed among these distances:
18 6 0.09
19 19 0.27
20 19 0.27
21 20 0.29
22 6 0.09
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.58
Consensus pattern (19 bp):
TATAATTTTATAAAATTTT
Found at i:12672717 original size:61 final size:61
Alignment explanation
Indices: 12672588--12672729 Score: 159
Period size: 61 Copynumber: 2.3 Consensus size: 61
12672578 TATGATTTTT
* *
12672588 TATATGTTTATATAATTTTTAATAATTTTTATACATTTTTATAAAATTTTGAATATTTGAA
1 TATATGTTTTTATAATTTTTAATAATTTTTATACATTTATATAAAATTTTGAATATTTGAA
* * *
12672649 -ATGTGTTTTTATTAATTTTATAA-AATTTTTATA-ATTTAT-TAAAATTTAT-TATATTTTTAA
1 TATATGTTTTTA-TAATTTT-TAATAATTTTTATACATTTATATAAAATTT-TGAATA-TTTGAA
*
12672709 TATATGTTTTTAAAATTTTTA
1 TATATGTTTTTATAATTTTTA
12672730 TAAGTTTATA
Statistics
Matches: 69, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
59 13 0.19
60 26 0.38
61 27 0.39
62 3 0.04
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.58
Consensus pattern (61 bp):
TATATGTTTTTATAATTTTTAATAATTTTTATACATTTATATAAAATTTTGAATATTTGAA
Found at i:12672736 original size:19 final size:18
Alignment explanation
Indices: 12672654--12672708 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 18
12672644 TTGAAATGTG
12672654 TTTTTATTAATTTTATAAAA
1 TTTTTA-TAATTTT-TAAAA
12672674 TTTTTATAATTTATTAAAA
1 TTTTTATAATTT-TTAAAA
12672693 TTTATTAT-ATTTTTAA
1 TTT-TTATAATTTTTAA
12672709 TATATGTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.12
19 18 0.55
20 11 0.33
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTTTATAATTTTTAAAA
Found at i:12672754 original size:28 final size:25
Alignment explanation
Indices: 12672723--12672780 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 25
12672713 TGTTTTTAAA
*
12672723 ATTTTTATAAGTTTATATGAATTTTATT
1 ATTTTTA-AAGTTTA-ATAAATTTTA-T
*
12672751 ATTTTTAATGTTTAATAAATTTTAT
1 ATTTTTAAAGTTTAATAAATTTTAT
12672776 ATTTT
1 ATTTT
12672781 ATATTTTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 6 0.21
26 9 0.32
27 6 0.21
28 7 0.25
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (25 bp):
ATTTTTAAAGTTTAATAAATTTTAT
Found at i:12672789 original size:25 final size:27
Alignment explanation
Indices: 12672723--12672799 Score: 70
Period size: 26 Copynumber: 2.9 Consensus size: 27
12672713 TGTTTTTAAA
* **
12672723 ATTTTTATAAGTTTATATGAATTTTATT
1 ATTTTTA-ATGTTTATAAAAATTTTATT
*
12672751 ATTTTTAATGTTTA-ATAAATTTTA-T
1 ATTTTTAATGTTTATAAAAATTTTATT
*
12672776 A-TTTTATATTTTTATAAAAATTTT
1 ATTTTTA-ATGTTTATAAAAATTTT
12672800 TTAATAATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
24 5 0.12
25 8 0.19
26 17 0.40
27 6 0.14
28 7 0.16
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (27 bp):
ATTTTTAATGTTTATAAAAATTTTATT
Found at i:12679386 original size:42 final size:43
Alignment explanation
Indices: 12679334--12679414 Score: 146
Period size: 43 Copynumber: 1.9 Consensus size: 43
12679324 TTAAGGCTGC
12679334 TTGTAAAAT-AAAAAAATACACTACCAGTGTACCAAATATTAA
1 TTGTAAAATAAAAAAAATACACTACCAGTGTACCAAATATTAA
*
12679376 TTGTAGAATAAAAAAAATACACTACCAGTGTACCAAATA
1 TTGTAAAATAAAAAAAATACACTACCAGTGTACCAAATA
12679415 CTAACCCACA
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
42 8 0.22
43 29 0.78
ACGTcount: A:0.52, C:0.15, G:0.09, T:0.25
Consensus pattern (43 bp):
TTGTAAAATAAAAAAAATACACTACCAGTGTACCAAATATTAA
Found at i:12679429 original size:43 final size:43
Alignment explanation
Indices: 12679338--12679429 Score: 116
Period size: 43 Copynumber: 2.2 Consensus size: 43
12679328 GGCTGCTTGT
* ***
12679338 AAAAT-AAAAAAATACACTACCAGTGTACCAAATATTAATTGT
1 AAAATAAAAAAAATACACTACCAGTGTACCAAATACTAATCCC
*
12679380 AGAATAAAAAAAATACACTACCAGTGTACCAAATACTAA-CCC
1 AAAATAAAAAAAATACACTACCAGTGTACCAAATACTAATCCC
12679422 ACAAATAA
1 A-AAATAA
12679430 TATGCGTTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
42 5 0.12
43 37 0.88
ACGTcount: A:0.54, C:0.18, G:0.07, T:0.21
Consensus pattern (43 bp):
AAAATAAAAAAAATACACTACCAGTGTACCAAATACTAATCCC
Found at i:12687241 original size:25 final size:25
Alignment explanation
Indices: 12687213--12687282 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
12687203 GATAAACGGT
* * *
12687213 AAGCTCCTCCGAGCTGAATATTGGC
1 AAGCTCATACGAGCTGAATATCGGC
* *
12687238 AAGCTCATACGAGCTGAGTATCGGT
1 AAGCTCATACGAGCTGAATATCGGC
*
12687263 AAGCTCATAAGAGCTAGAAT
1 AAGCTCATACGAGCT-GAAT
12687283 CGGTAACCCT
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
25 34 0.92
26 3 0.08
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.23
Consensus pattern (25 bp):
AAGCTCATACGAGCTGAATATCGGC
Found at i:12687786 original size:29 final size:29
Alignment explanation
Indices: 12687741--12687797 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
12687731 TATAGAAGCC
12687741 CATACATTTTACAATTTCACACATTTAATA
1 CATACATTTTACAATTTCACA-ATTTAATA
*
12687771 CATA-ATTTT-CATATTTCTCAATTTAAT
1 CATACATTTTACA-ATTTCACAATTTAAT
12687798 CCCTATTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 9 0.36
29 12 0.48
30 4 0.16
ACGTcount: A:0.37, C:0.18, G:0.00, T:0.46
Consensus pattern (29 bp):
CATACATTTTACAATTTCACAATTTAATA
Found at i:12690812 original size:23 final size:23
Alignment explanation
Indices: 12690778--12690835 Score: 55
Period size: 23 Copynumber: 2.6 Consensus size: 23
12690768 CATTTTTTCT
*
12690778 TTTTTTC-CTCTTCTTTCGAATC
1 TTTTTTCTTTCTTCTTTCGAATC
* * ** *
12690800 TTTTTTCTTTCTTTTTTTGTGTT
1 TTTTTTCTTTCTTCTTTCGAATC
12690823 TTTTTTCTTTCTT
1 TTTTTTCTTTCTT
12690836 TATATATACA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
22 7 0.24
23 22 0.76
ACGTcount: A:0.03, C:0.17, G:0.05, T:0.74
Consensus pattern (23 bp):
TTTTTTCTTTCTTCTTTCGAATC
Found at i:12693378 original size:12 final size:12
Alignment explanation
Indices: 12693361--12693396 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
12693351 ATTCATTTGA
12693361 CATTCATGCATT
1 CATTCATGCATT
*
12693373 CATTCATGCATC
1 CATTCATGCATT
*
12693385 CATTCATTCATT
1 CATTCATGCATT
12693397 GTATATCCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.25, C:0.28, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:12703281 original size:40 final size:40
Alignment explanation
Indices: 12703215--12703381 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
12703205 AAATTGAATG
* * *
12703215 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
12703254 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
12703294 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
12703334 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
12703374 ATATCCGG
1 ATATCCGG
12703382 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:12711279 original size:40 final size:40
Alignment explanation
Indices: 12711213--12711379 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
12711203 AAATTGAATG
* * *
12711213 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
12711252 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
12711292 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
12711332 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
12711372 ATATCCGG
1 ATATCCGG
12711380 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:12713173 original size:90 final size:90
Alignment explanation
Indices: 12713024--12713188 Score: 251
Period size: 90 Copynumber: 1.8 Consensus size: 90
12713014 CAATTTCTGC
* *
12713024 TTTTCAAAAAAAATCAACTCATACTGCAAGAGGTAAGCTGAGGCTCAAGGCACGTTGAGGTAATT
1 TTTTCAAAAAAAATCAACTCATACTGCAAGAGGTAAGCTGAGCCTCAAGGCACGCTGAGGTAATT
12713089 TCAATTTCTGCTTTTAAATTTATAT
66 TCAATTTCTGCTTTTAAATTTATAT
* * * * *
12713114 TTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGACACGCTGAGGTAAT
1 TTTTCAAAAAAAATCAACTCATACTGCAAGAGGTAAGCTGAGCCTCAAGG-CACGCTGAGGTAAT
12713178 TTCAATTTCTG
65 TTCAATTTCTG
12713189 TTGTCAAAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
89 3 0.04
90 64 0.96
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (90 bp):
TTTTCAAAAAAAATCAACTCATACTGCAAGAGGTAAGCTGAGCCTCAAGGCACGCTGAGGTAATT
TCAATTTCTGCTTTTAAATTTATAT
Found at i:12713309 original size:75 final size:75
Alignment explanation
Indices: 12713115--12714838 Score: 1127
Period size: 73 Copynumber: 21.9 Consensus size: 75
12713105 AATTTATATT
* * *
12713115 TTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTT
1 TTTCAAAAAAA-TCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCTGAGGTATTTT
*
12713180 CAATTTCTGT-
65 CAATTTTTGTC
* * **
12713190 TGTCAAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATACTGAGGTATT
1 TTTC---AAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCTGAGGTATT
12713255 TTCAATTTTTGTC
63 TTCAATTTTTGTC
* *
12713268 TTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTC
12713333 AATTTTTGTC
66 AATTTTTGTC
* * * *
12713343 TTTCAAAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAGTT
1 TTTC--AAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCTGAGGTATTT
12713408 TCAATTTTTGTTC
64 TCAATTTTTG-TC
* * *
12713421 AATTT-ATGTTTTTCAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAAGACACGCTGA
1 --TTTCA-------AAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCTGA
* *
12713485 GGTATTTTCAATTTCTGTT
57 GGTATTTTCAATTTTTGTC
* * * * *
12713504 TTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAAGTATTGTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTC
*
12713567 AATTTTTGTG
66 AATTTTTGTC
* * *
12713577 TTTCAATCTATTTTTCAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACACGCTG
1 TTTC-A---A------AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCTG
* *
12713642 AGGTAATTTCAATTTCTGT-
56 AGGTATTTTCAATTTTTGTC
* * * * * *
12713661 TTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGGCATGTTGAGGTAATTT
1 TT-TCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCTGAGGTATTTT
*
12713724 CAATTTCT-TC
65 CAATTTTTGTC
** * * * * * * *
12713734 TTTTCAATTTATATTTTTCAAAAAAATTCA-ACT-CATATTGCGA-GAGGTGAGTTGAGGCTCAG
1 -TTTCAA---A-A------AAATCAACTCATATTGC-GA--GAGATGAGTTGA-----GCCTCAA
* * *
12713796 GACACGCTGAGGTAATTTCAATCTCTGT-
47 GACACGCTGAGGTATTTTCAATTTTTGTC
* * *
12713824 TGTCAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTT
1 TTTC-AAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCTGAGGTATTTT
12713889 CAATTTTTGTC
65 CAATTTTTGTC
* * *
12713900 TTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTTAGCCTCAAGACATGCTGAGGTATTTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTC
12713965 AATTTTTGTC
66 AATTTTTGTC
* * * *
12713975 TTTCAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGATAGTT
1 TTTC--AAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCTGAGGTATTT
*
12714040 TCAATTTATGTTC
64 TCAATTTTTG-TC
* * * *
12714053 AATTT-ATGTTTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGA
1 --TTTCA-------AAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCTGA
* *
12714117 GGTATTTTCAATTTCTGTT
57 GGTATTTTCAATTTTTGTC
* ** * *
12714136 TTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTGTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTC
*
12714199 AATTTTTGTG
66 AATTTTTGTC
* * *
12714209 TTTCAATCTATTTTTCAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACACGCTG
1 TTTC-A---A------AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCTG
* *
12714274 AGGTAATTTCAATTTCTGT-
56 AGGTATTTTCAATTTTTGTC
* * * * *
12714293 TTGTC--AAAAATCAACTCATAGTGCGAGAGGTGAGTTGAGCCTCAAGGCACGTTGAGGTAATTT
1 TT-TCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCTGAGGTATTTT
*
12714356 CAATTTCT-TC
65 CAATTTTTGTC
** * * * * * *
12714366 TTTTCAATTTATATTTTTCAAAAAAATTCA-ACT-CATATTGCGA-GAGGTGAGTTGAGCCTCAG
1 -TTTCAA---A-A------AAATCAACTCATATTGC-GA--GAGATGAGTTGA-----GCCTCAA
** * *
12714428 GACACATTGAGGTAATTTCAA--TTTCTC
47 GACACGCTGAGGTATTTTCAATTTTTGTC
* *
12714455 TTGTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTT
1 TT-TCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCTGAGGTATTTT
12714520 CAATTTTTGTC
65 CAATTTTTGTC
* * * *
12714531 TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGTTGAGGTAATTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTC
*
12714595 AATTTCTG-C
66 AATTTTTGTC
** * * * * * *
12714604 TTTTCAATTTATATTTTTCAAAAAAATTCA-ACT-CATATTGCGA-GAGGTGAGTTGAGCCTCAG
1 -TTTCAA---A-A------AAATCAACTCATATTGC-GA--GAGATGAGTTGA-----GCCTCAA
*
12714666 GACACGCTGAGGTAATTTCAATTTCTT-T-
47 GACACGCTGAGGTATTTTCAATTT-TTGTC
* * * *
12714694 TGTCAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGTTGAGGTATTTT
1 TTTC-AAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCTGAGGTATTTT
12714759 CAATTTTTGTC
65 CAATTTTTGTC
* * * * * * *
12714770 TTTC-AAAAAATCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAAGGCACGTTGAGTTAATTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTC
12714834 AATTT
66 AATTT
12714839 CTGCTTTTAA
Statistics
Matches: 1328, Mismatches: 180, Indels: 283
0.74 0.10 0.16
Matches are distributed among these distances:
72 2 0.00
73 255 0.19
74 151 0.11
75 211 0.16
76 13 0.01
77 184 0.14
78 19 0.01
79 21 0.02
80 37 0.03
81 13 0.01
82 2 0.00
83 5 0.00
84 136 0.10
85 166 0.12
86 9 0.01
87 2 0.00
88 4 0.00
89 12 0.01
90 84 0.06
91 2 0.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.33
Consensus pattern (75 bp):
TTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTC
AATTTTTGTC
Found at i:12713639 original size:158 final size:157
Alignment explanation
Indices: 12712956--12714942 Score: 1931
Period size: 158 Copynumber: 12.5 Consensus size: 157
12712946 TCTGTTTCAA
* ** *
12712956 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
* * * * * * * *
12713021 TGCTTTTCAAAAAAAATCAACTCATACTGCAAGAGGTAAGCTGAGGCTCAAGGCACGTTGAGGTA
66 TGTTTTTC--AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGT-
* *
12713086 ATTTCAATTTCTGCTTTTAAATTTATATTTTTC
128 ATTTCAATTTTTG-TTTTCAA--TATATTTTTC
12713119 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
1 --AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
* ** **
12713184 TTCTG-TTGTCAAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATACTG
63 TTCTGTTTTTC----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTG
12713248 AGGTATTTTCAATTTTTGTCTTTC---A-A------
124 AGGTA-TTTCAATTTTTGT-TTTCAATATATTTTTC
** * * * *
12713274 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
* * *
12713339 TGTCTTTCAAAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAAGACACGTTGAGGT
66 TGTTTTTC---AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGT
*
12713404 AGTTTCAATTTTTG--TTCAATTTATGTTTTTC
128 A-TTTCAATTTTTGTTTTCAA--TATATTTTTC
* * *
12713435 AAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
* * *
12713500 TGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAAGTATT
66 TGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATT
*
12713564 GTCAATTTTTGTGTTTCAATCTATTTTTC
131 -TCAATTTTTGT-TTTCAATATATTTTTC
* **
12713593 AAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
* * * * *
12713658 TGTTTGTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGGCATGTTGAGGTAAT
66 TGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGT-AT
*
12713722 TTCAATTTCTTCTTTTCAATTTATATTTTTC
130 TTCAATTT-TTGTTTTCAA--TATATTTTTC
*
12713753 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGGCTCAGGACACGCTGAGGTAATTTCAAT
1 --AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
* * ** *
12713818 CTCTG-TTGTCAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAG
63 TTCTGTTTTTC--AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAG
12713882 GTATTTTCAATTTTTGTCTTTC---A-A------
126 GTA-TTTCAATTTTTGT-TTTCAATATATTTTTC
** * * * * *
12713906 AAAAATCAACTCATATTGCGAGAAATGAGTTTAGCCTCAAGACATGCTGAGGTATTTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
* ** * *
12713971 TGTCTTTCAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGAT
66 TGTTTTTC---AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGT
* * *
12714036 AGTTTCAATTTATG--TTCAATTTATGTTTTTT
128 A-TTTCAATTTTTGTTTTCAA--TATATTTTTC
* *
12714067 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
** *
12714132 TGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATT
66 TGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATT
*
12714196 GTCAATTTTTGTGTTTCAATCTATTTTTC
131 -TCAATTTTTGT-TTTCAATATATTTTTC
* **
12714225 AAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
* * * *
12714290 TGTTTGTC-AAAAATCAACTCATAGTGCGAGAGGTGAGTTGAGCCTCAAGGCACGTTGAGGTAAT
66 TGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGT-AT
*
12714354 TTCAATTTCTTCTTTTCAATTTATATTTTTC
130 TTCAATTT-TTGTTTTCAA--TATATTTTTC
**
12714385 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACATTGAGGTAATTTCAAT
1 --AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
* * ** *
12714450 TTCT-CTTGTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGG
63 TTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGG
12714514 TATTTTCAATTTTTG---TC--------TTTC
127 TA-TTTCAATTTTTGTTTTCAATATATTTTTC
*
12714535 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGG-CACGTTGAGGTAATTTCAATT
1 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGACACGCTGAGGTAATTTCAATT
12714599 TCTGCTTTTCAATTTATATTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
64 TCTG--------------TTTTTC-AAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
* *
12714664 AGGACACGCTGAGGTAATTTCAATTTCTT-TTGTC-A-A-A------
113 AAGACACGCTGAGGT-ATTTCAATTT-TTGTTTTCAATATATTTTTC
** * * * * *
12714701 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGTTGAGGTATTTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
* * * * * *
12714766 TGTCTTTCAAAAAATCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAAGGCACGTTGAGTTAAT
66 TGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGT-AT
* *
12714831 TTCAATTTCTGCTTTTAAATTTATATTTTTC
130 TTCAATTTTTG-TTTTCAA--TATATTTTTC
*
12714862 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAAT
1 --AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
*
12714927 TTCTG-TTGTCAAAAAA
63 TTCTGTTTTTCAAAAAA
12714943 AAAATAAAAA
Statistics
Matches: 1556, Mismatches: 162, Indels: 210
0.81 0.08 0.11
Matches are distributed among these distances:
148 57 0.04
149 68 0.04
150 66 0.04
151 14 0.01
152 185 0.12
153 8 0.01
154 3 0.00
155 1 0.00
156 4 0.00
157 115 0.07
158 271 0.17
159 13 0.01
160 31 0.02
161 135 0.09
162 21 0.01
163 141 0.09
164 171 0.11
165 131 0.08
166 60 0.04
167 61 0.04
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (157 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
TGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATT
TCAATTTTTGTTTTCAATATATTTTTC
Found at i:12714054 original size:74 final size:74
Alignment explanation
Indices: 12713753--12714363 Score: 528
Period size: 75 Copynumber: 7.9 Consensus size: 74
12713743 TATATTTTTC
* * *
12713753 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGGCTCAGGACACGCTGAGGTAATTTCAAT
1 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAAT
* *
12713818 CTCTGTTGT
66 TTCTGTTCT
** * *
12713827 CAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAA
1 -AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAA
* *
12713892 TTTTTGTCTTT
65 TTTCTGT-TCT
* ** * * *
12713903 CAAAAAAATCAACTCATATTGCGAGAAATGAGTTTAGCCTCAAGACATGCTGAGGTATTTTCAAT
1 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAAT
* *
12713968 TTTTGTCTTTCA
66 TTCTG---TTCT
** * * *
12713980 AAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGATAGTTTCAAT
1 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAAT
*
12714045 TTATGTTC-
66 TTCTGTTCT
* *
12714053 AATTTATGTTTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAG
1 AA---A--------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAG
*
12714118 GTATTTTCAATTTCTGTT-T
55 GTAATTTCAATTTCTGTTCT
*** ** *
12714137 TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGT-ATTGTCAA
1 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATT-TCAA
* *
12714201 TTTTTGTGTTT
65 TTTCTGT-TCT
* ** *
12714212 CAATCTATTTTTCAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACACGCTGAGG
1 -AA---A------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGG
12714277 TAATTTCAATTTCTGTT-T
56 TAATTTCAATTTCTGTTCT
*** * * *
12714295 GTCAAAAATCAACTCATAGTGCGAGAGGTGAGTTGAGCCTCAAGGCACGTTGAGGTAATTTCAAT
1 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAAT
12714360 TTCT
66 TTCT
12714364 TCTTTTCAAT
Statistics
Matches: 450, Mismatches: 56, Indels: 62
0.79 0.10 0.11
Matches are distributed among these distances:
72 2 0.00
73 121 0.27
74 4 0.01
75 131 0.29
76 3 0.01
77 64 0.14
78 1 0.00
83 1 0.00
84 62 0.14
85 58 0.13
86 3 0.01
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.32
Consensus pattern (74 bp):
AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAAT
TTCTGTTCT
Found at i:12714239 original size:632 final size:632
Alignment explanation
Indices: 12712956--12714941 Score: 3014
Period size: 632 Copynumber: 3.1 Consensus size: 632
12712946 TCTGTTTCAA
* ** * ** *
12712956 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
* * * *
12713021 TGCTTT-TCAAAAAAAATCAACTCATACTGCAAGAGGTAAGCTGAGGCTCAAGGCACGTTGAGGT
66 TG-TTTGTC---AAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAAGGCACGTTGAGGT
* *
12713085 AATTTCAATTTCTGCTTTTAAATTTATATTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGA
127 AATTTCAATTTCTTCTTTTCAATTTATATTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGA
12713150 GTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAAAAATCAACTCATAT
192 GTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTC--AAAAAAAATCAACTCATAT
*
12713215 TGCGAGAAATGAGTTGAGCCTCAAGACATACTGAGGTATTTTCAATTTTTGTCTTTCAAAAAAAT
255 TGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTTGTCTTTCAAAAAAAT
12713280 CAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTTGTCTT
320 CAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTTGTCTT
*
12713345 TCAAAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAGTTTC
385 TCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAGTTTC
* * *
12713410 AATTTTTGTTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAA
450 AATTTATGTTCAATTTATGTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA
*
12713475 GACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG
515 GACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG
*
12713540 AGCCTCAGGGCACGCTGAAGTATTGTCAATTTTTGTGTTTCAATCTATTTTTC
580 AGCCTCAGGGCACGCTGAGGTATTGTCAATTTTTGTGTTTCAATCTATTTTTC
12713593 AAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
* * *
12713658 TGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGGCATGTTGAGGTAATT
66 TGTTTGTCAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAAGGCACGTTGAGGTAATT
12713723 TCAATTTCTTCTTTTCAATTTATATTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTG
131 TCAATTTCTTCTTTTCAATTTATATTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTG
* *
12713788 AGGCTCAGGACACGCTGAGGTAATTTCAATCTCTGTTGTCAAAAAAAATCAACTCATATTGCGAG
196 AGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAAATCAACTCATATTGCGAG
12713853 AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTTGTCTTTCAAAAAAATCAACTC
261 AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTTGTCTTTCAAAAAAATCAACTC
*
12713918 ATATTGCGAGAAATGAGTTTAGCCTCAAGACATGCTGAGGTATTTTCAATTTTTGTCTTTCAAAA
326 ATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTTGTCTTTCAAAA
** *
12713983 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGATAGTTTCAATTTA
391 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAGTTTCAATTTA
* *
12714048 TGTTCAATTTATGTTTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATG
456 TGTTCAATTTATGTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATG
12714113 CTGAGGTATTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
521 CTGAGGTATTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
*
12714178 GGGGCACGCTGAGGTATTGTCAATTTTTGTGTTTCAATCTATTTTTC
586 AGGGCACGCTGAGGTATTGTCAATTTTTGTGTTTCAATCTATTTTTC
12714225 AAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
*
12714290 TGTTTGTCAAAAATCAACTCATAGTGCGAGAGGTGAGTTGAGCCTCAAGGCACGTTGAGGTAATT
66 TGTTTGTCAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAAGGCACGTTGAGGTAATT
12714355 TCAATTTCTTCTTTTCAATTTATATTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTG
131 TCAATTTCTTCTTTTCAATTTATATTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTG
** *
12714420 AGCCTCAGGACACATTGAGGTAATTTCAATTTCTCTTGTC-AAAAAAATCAACTCATATTGCGAG
196 AGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAAATCAACTCATATTGCGAG
12714484 AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTTGTCTTTC-AAAAAATCAACTC
261 AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTTGTCTTTCAAAAAAATCAACTC
** * * * * *
12714548 ATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGTTGAGGTAATTTCAATTTCTG-CTTTTCAAT
326 ATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTTGTC-TTTC---
* *
12714612 TTATATTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
387 --A-A------AAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAG
* *** **
12714677 GTAATTTC-A---AT-TTC--TTT-TG-TCAAAAAAAATCAACTCATATTGCGAGAAATGAGTTG
442 GTAGTTTCAATTTATGTTCAATTTATGTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
* * * *
12714733 AGCCTCAAGACATGTTGAGGTATTTTCAATTTTTGTCTTTCAAAAAATCAACTCATACTGCGAGA
507 AGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGA
* * * * * * *
12714798 GGTAAGTTGAGCCTCAAGGCACGTTGAGTTAATT-TCAATTTCTGCT-TTTAAATTTATATTTTT
571 GGTGAGTTGAGCCTCAGGGCACGCTGAGGT-ATTGTCAATTTTTG-TGTTTCAA--TCTATTTTT
12714861 C
632 C
* ** *
12714862 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAAT
1 --AAAAA-TCAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
12714927 TTCTG-TTGTCAAAAA
63 TTCTGTTTGTCAAAAA
12714942 AAAAATAAAA
Statistics
Matches: 1250, Mismatches: 76, Indels: 44
0.91 0.06 0.03
Matches are distributed among these distances:
629 1 0.00
630 64 0.05
631 75 0.06
632 611 0.49
634 219 0.18
635 64 0.05
636 11 0.01
637 71 0.06
638 3 0.00
639 17 0.01
640 58 0.05
642 8 0.01
643 48 0.04
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (632 bp):
AAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
TGTTTGTCAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAAGGCACGTTGAGGTAATT
TCAATTTCTTCTTTTCAATTTATATTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTG
AGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAAATCAACTCATATTGCGAG
AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTTGTCTTTCAAAAAAATCAACTC
ATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTTGTCTTTCAAAA
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAGTTTCAATTTA
TGTTCAATTTATGTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATG
CTGAGGTATTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
AGGGCACGCTGAGGTATTGTCAATTTTTGTGTTTCAATCTATTTTTC
Found at i:12714408 original size:90 final size:88
Alignment explanation
Indices: 12714298--12714461 Score: 267
Period size: 90 Copynumber: 1.8 Consensus size: 88
12714288 TCTGTTTGTC
*
12714298 AAAAATCAACTCATAGTGCGAGAGGTGAGTTGAGCCTCAAGG-CACGTTGAGGTAATTTCAATTT
1 AAAAATCAACTCATAGTGCGAGAGGTGAGTTGAGCCTC-AGGACACATTGAGGTAATTTCAATTT
*
12714362 CTTCTTTTCAATTTATATTTTTCAA
65 C-TCTTGTCAATTTATATTTTTCAA
*
12714387 AAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACATTGAGGTAATTTCAATTT
1 AAAAA-TCAACTCATAGTGCGAGAGGTGAGTTGAGCCTCAGGACACATTGAGGTAATTTCAATTT
12714452 CTCTTGTCAA
65 CTCTTGTCAA
12714462 AAAAATCAAC
Statistics
Matches: 70, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
89 16 0.23
90 54 0.77
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (88 bp):
AAAAATCAACTCATAGTGCGAGAGGTGAGTTGAGCCTCAGGACACATTGAGGTAATTTCAATTTC
TCTTGTCAATTTATATTTTTCAA
Found at i:12714609 original size:74 final size:75
Alignment explanation
Indices: 12714380--12714610 Score: 326
Period size: 74 Copynumber: 3.1 Consensus size: 75
12714370 CAATTTATAT
*
12714380 TTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGACACATTGAGGTAAT
1 TTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGG-CACGTTGAGGTAAT
12714444 TTCAATTTCT-C
64 TTCAATTTCTGC
* ** * * * *
12714455 TTGTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTT
1 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGTTGAGGTAATTT
*
12714520 CAATTTTTG-
66 CAATTTCTGC
12714529 TCTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGTTGAGGTAATT
1 T-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGTTGAGGTAATT
12714593 TCAATTTCTGC
65 TCAATTTCTGC
12714604 TTTTCAA
1 TTTTCAA
12714611 TTTATATTTT
Statistics
Matches: 134, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
74 116 0.87
75 18 0.13
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (75 bp):
TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGTTGAGGTAATTT
CAATTTCTGC
Found at i:12714623 original size:88 final size:90
Alignment explanation
Indices: 12714516--12714691 Score: 286
Period size: 90 Copynumber: 2.0 Consensus size: 90
12714506 TGCTGAGGTA
* *
12714516 TTTTCAATTTTTGTCTTTC-AAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGG-
1 TTTTCAATTTATATCTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGA
*
12714578 CACGTTGAGGTAATTTCAATTTCTGC
65 CACGCTGAGGTAATTTCAATTTCTGC
*
12714604 TTTTCAATTTATATTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
1 TTTTCAATTTATATCTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
12714669 ACGCTGAGGTAATTTCAATTTCT
66 ACGCTGAGGTAATTTCAATTTCT
12714692 TTTGTCAAAA
Statistics
Matches: 81, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
88 16 0.20
89 9 0.11
90 56 0.69
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.36
Consensus pattern (90 bp):
TTTTCAATTTATATCTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
ACGCTGAGGTAATTTCAATTTCTGC
Found at i:12714782 original size:74 final size:73
Alignment explanation
Indices: 12714605--12714838 Score: 299
Period size: 74 Copynumber: 3.1 Consensus size: 73
12714595 AATTTCTGCT
*
12714605 TTTCAATTTATATTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTCAATTT-T-TTTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
*
12714670 CGCTGAGGTAA
63 CGTTGAGGTAA
* ** *
12714681 TTTCAATTTCTTTTGTCAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAT
1 TTTCAATTT-TTTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
*
12714746 GTTGAGGTAT
64 GTTGAGGTAA
* * *
12714756 TTTCAATTTTTGTCTTTC-AAAAAATCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAAGGCAC
1 TTTCAATTTTT-T-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
*
12714820 GTTGAGTTAA
64 GTTGAGGTAA
12714830 TTTCAATTT
1 TTTCAATTT
12714839 CTGCTTTTAA
Statistics
Matches: 138, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
74 59 0.43
75 59 0.43
76 20 0.14
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (73 bp):
TTTCAATTTTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGT
TGAGGTAA
Found at i:12714839 original size:239 final size:239
Alignment explanation
Indices: 12714225--12714944 Score: 1257
Period size: 239 Copynumber: 3.0 Consensus size: 239
12714215 TCTATTTTTC
* * * * *
12714225 AAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTT
*
12714290 TGT-TTGTC-AAAAATCAACTCATAGTGCGAGAGGTGAGTTGAGCCTCAAGGCACGTTGAGGTAA
66 TGTCTT-TCAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAAGGCACGTTGAGGTAA
*
12714353 TTTCAATTTCTTCTTTTCAATTTATATTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGT
130 TTTCAATTTCTGCTTTTCAATTTATATTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGT
**
12714418 TGAGCCTCAGGACACATTGAGGTAATTTCAATTTCTCTTGTC-AA
195 TGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTCTTGTCAAA
12714462 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTT
*
12714527 TGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGTTGAGGTAAT
66 TGTCTTTCAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAAGGCACGTTGAGGTAAT
12714592 TTCAATTTCTGCTTTTCAATTTATATTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTT
131 TTCAATTTCTGCTTTTCAATTTATATTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTT
*
12714657 GAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTTTTGTCAAA
196 GAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTCTTGTCAAA
*
12714701 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGTTGAGGTATTTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTT
* *
12714766 TGTCTTTCAAAAAATCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAAGGCACGTTGAGTTAAT
66 TGTCTTTCAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAAGGCACGTTGAGGTAAT
*
12714831 TTCAATTTCTGCTTTTAAATTTATATTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTT
131 TTCAATTTCTGCTTTTCAATTTATATTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTT
* *
12714896 GAGCCTCAGGACATGCTGAGGTAATTTCAATTTCTGTTGTCAAA
196 GAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTCTTGTCAAA
12714940 AAAAA
1 AAAAA
12714945 AATAAAAAAA
Statistics
Matches: 463, Mismatches: 17, Indels: 4
0.96 0.04 0.01
Matches are distributed among these distances:
237 65 0.14
238 159 0.34
239 239 0.52
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (239 bp):
AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTT
TGTCTTTCAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAAGGCACGTTGAGGTAAT
TTCAATTTCTGCTTTTCAATTTATATTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTT
GAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTCTTGTCAAA
Found at i:12714921 original size:90 final size:88
Alignment explanation
Indices: 12714770--12715114 Score: 297
Period size: 90 Copynumber: 3.9 Consensus size: 88
12714760 AATTTTTGTC
* * * *
12714770 TTTC-AAAAAATCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAAGG-CACGTTGAGTTAATTT
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGACACGCTGAGGTAATTT
**
12714833 CAATTTCTGCTTTTAAATTTATATT
65 CAATTTCTG-TTTTAAATTTATAAA
*
12714858 TTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTT
1 TTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTT
* *
12714923 CAATTTCTGTTGTCAAA---AAAAA
65 CAATTTCTGTT-TTAAATTTATAAA
** * * * ** * *
12714945 AATAAAAAAAATCAACTCGTATTGCAAGAGACGAGTTGAGCCTCAGGTCACACGCCGAGGTATTT
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTAATT
* * ***
12715010 TCAATTTCTGTTTTTCAATTTTTGCC
64 TCAATTTCTG-TTTTAAATTTATAAA
* * * * * *
12715036 TTTCAAAAAAATCGACTTATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACGCGCTGAGTTATT
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAAT
12715100 TTCAATTTCTGTTTT
63 TTCAATTTCTGTTTT
12715115 TATTGTCTAT
Statistics
Matches: 207, Mismatches: 39, Indels: 20
0.78 0.15 0.08
Matches are distributed among these distances:
86 32 0.15
87 10 0.05
88 30 0.14
89 13 0.06
90 63 0.30
91 59 0.29
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.34
Consensus pattern (88 bp):
TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
AATTTCTGTTTTAAATTTATAAA
Found at i:12714983 original size:86 final size:87
Alignment explanation
Indices: 12714862--12715021 Score: 232
Period size: 86 Copynumber: 1.8 Consensus size: 87
12714852 TATATTTTTC
* * ** * *
12714862 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACATGCTGAGGTAATTTCAA
1 AAAAAAAATCAACTCATATTGCAAGAGACGAGTTGAGCCTCAGGCACACGCCGAGGTAATTTCAA
12714926 TTTCTGTTGTCAAAAAAAAAAT
66 TTTCTGTTGTCAAAAAAAAAAT
* *
12714948 AAAAAAAATCAACTCGTATTGCAAGAGACGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCA
1 AAAAAAAATCAACTCATATTGCAAGAGACGAGTTGAGCCTCAGG-CACACGCCGAGGTAATTTCA
12715013 ATTTCTGTT
65 ATTTCTGTT
12715022 TTTCAATTTT
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
86 39 0.61
88 25 0.39
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.28
Consensus pattern (87 bp):
AAAAAAAATCAACTCATATTGCAAGAGACGAGTTGAGCCTCAGGCACACGCCGAGGTAATTTCAA
TTTCTGTTGTCAAAAAAAAAAT
Found at i:12715072 original size:91 final size:89
Alignment explanation
Indices: 12714755--12715115 Score: 320
Period size: 91 Copynumber: 4.0 Consensus size: 89
12714745 TGTTGAGGTA
* * * *
12714755 TTTTCAATTTTTGTCTTTC-AAAAAATCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAAGG-C
1 TTTTCAATTTATATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGAC
* * *
12714818 ACGTTGAGTTAATTTCAATTTCTGC
65 ACGCTGAGGTAATTTCAATTTCTGT
* *
12714843 TTTTAAATTTATATTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
1 TTTTCAATTTATATCTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
*
12714908 ATGCTGAGGTAATTTCAATTTCTG-
65 ACGCTGAGGTAATTTCAATTTCTGT
* * * **** * * * **
12714932 TTGTCAA--AAAAAAAATAAAAAAAATCAACTCGTATTGCAAGAGACGAGTTGAGCCTCAGGTCA
1 TTTTCAATTTATATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--A
* *
12714995 CACGCCGAGGTATTTTCAATTTCTGT
64 CACGCTGAGGTAATTTCAATTTCTGT
* ** * * *
12715021 TTTTCAATTTTTGCCTTTCAAAAAAATCGACTTATATTGCGAGAGGTGAGTTGAGCCT-TGGCTC
1 TTTTCAATTTATATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---
* * *
12715085 ACGCGCTGAGTTATTTTCAATTTCTGT
63 ACACGCTGAGGTAATTTCAATTTCTGT
12715112 TTTT
1 TTTT
12715116 ATTGTCTATT
Statistics
Matches: 219, Mismatches: 45, Indels: 15
0.78 0.16 0.05
Matches are distributed among these distances:
86 32 0.15
87 10 0.05
88 38 0.17
89 20 0.09
90 55 0.25
91 64 0.29
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (89 bp):
TTTTCAATTTATATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
CGCTGAGGTAATTTCAATTTCTGT
Found at i:12716785 original size:15 final size:17
Alignment explanation
Indices: 12716757--12716788 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
12716747 TTGTATATAT
12716757 TATATTTATATTATGTA
1 TATATTTATATTATGTA
12716774 TATATTT-T-TTATGTA
1 TATATTTATATTATGTA
12716789 CGTTTCCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (17 bp):
TATATTTATATTATGTA
Found at i:12719793 original size:31 final size:31
Alignment explanation
Indices: 12719757--12719820 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
12719747 ATATTTGATT
12719757 ATGCTTGCTAAAAAATTACTCTATTTGCCAC
1 ATGCTTGCTAAAAAATTACTCTATTTGCCAC
* * *
12719788 ATGCTTGCTCAAAAATTACTCTTTTTTCCAC
1 ATGCTTGCTAAAAAATTACTCTATTTGCCAC
12719819 AT
1 AT
12719821 TTATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (31 bp):
ATGCTTGCTAAAAAATTACTCTATTTGCCAC
Found at i:12720143 original size:45 final size:45
Alignment explanation
Indices: 12720079--12720173 Score: 147
Period size: 45 Copynumber: 2.1 Consensus size: 45
12720069 TCACCCACCG
*
12720079 TAATCAAATTTGTTATTAACTTTTATC-CCGTCATAATTTATTTAT
1 TAATCAAATTTGTTATTAACTTTCATCACC-TCATAATTTATTTAT
* *
12720124 TAATCAGATTTTTTATTAACTTTCATCACCTCATAATTTATTTAT
1 TAATCAAATTTGTTATTAACTTTCATCACCTCATAATTTATTTAT
12720169 TAATC
1 TAATC
12720174 TTTTATATAC
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
45 44 0.96
46 2 0.04
ACGTcount: A:0.32, C:0.15, G:0.03, T:0.51
Consensus pattern (45 bp):
TAATCAAATTTGTTATTAACTTTCATCACCTCATAATTTATTTAT
Found at i:12722468 original size:22 final size:23
Alignment explanation
Indices: 12722440--12722486 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
12722430 AAGAGAAATG
**
12722440 AAATAAATGATAAAACAATT-TA
1 AAATAAACAATAAAACAATTCTA
*
12722462 AAATAAACAATAAGACAATTCTA
1 AAATAAACAATAAAACAATTCTA
12722485 AA
1 AA
12722487 TGAATAATAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.64, C:0.09, G:0.04, T:0.23
Consensus pattern (23 bp):
AAATAAACAATAAAACAATTCTA
Found at i:12722702 original size:2 final size:2
Alignment explanation
Indices: 12722695--12722734 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
12722685 AAAATAAGTA
* *
12722695 AT AT AT AT A- AA AG AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
12722735 AACAATTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (2 bp):
AT
Found at i:12723111 original size:12 final size:13
Alignment explanation
Indices: 12723094--12723122 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
12723084 AAAGAAACTG
12723094 AATAAATAAA-TA
1 AATAAATAAATTA
12723106 AATAAATAAATTA
1 AATAAATAAATTA
12723119 AATA
1 AATA
12723123 GATTAGGACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AATAAATAAATTA
Found at i:12743627 original size:7 final size:7
Alignment explanation
Indices: 12743615--12743644 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
12743605 TGGCCTAAAG
12743615 GTAAAAT
1 GTAAAAT
12743622 GTAAAAT
1 GTAAAAT
12743629 GTAAAAT
1 GTAAAAT
12743636 GTAAAAT
1 GTAAAAT
12743643 GT
1 GT
12743645 GCTATGATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.30
Consensus pattern (7 bp):
GTAAAAT
Found at i:12743781 original size:78 final size:78
Alignment explanation
Indices: 12743693--12743845 Score: 297
Period size: 78 Copynumber: 2.0 Consensus size: 78
12743683 TGTACTAAAT
*
12743693 CGATGAGATGAGGTTTAAATGCAATGAATTATACCAAGGTTTTTTAAGAGTATAATTAGGCCATG
1 CGATGAGATGAAGTTTAAATGCAATGAATTATACCAAGGTTTTTTAAGAGTATAATTAGGCCATG
12743758 TTAAATACCAAAC
66 TTAAATACCAAAC
12743771 CGATGAGATGAAGTTTAAATGCAATGAATTATACCAAGGTTTTTTAAGAGTATAATTAGGCCATG
1 CGATGAGATGAAGTTTAAATGCAATGAATTATACCAAGGTTTTTTAAGAGTATAATTAGGCCATG
12743836 TTAAATACCA
66 TTAAATACCA
12743846 TTGAAGTCTA
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 74 1.00
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.31
Consensus pattern (78 bp):
CGATGAGATGAAGTTTAAATGCAATGAATTATACCAAGGTTTTTTAAGAGTATAATTAGGCCATG
TTAAATACCAAAC
Found at i:12747684 original size:56 final size:56
Alignment explanation
Indices: 12747587--12747697 Score: 154
Period size: 56 Copynumber: 2.0 Consensus size: 56
12747577 ACCATGGCAT
* * *
12747587 CGATATATGTGTGCGAGTAAGACCATGTTTTATGCGTTGGCATCGGTATGTGATTC
1 CGATATATGTGTGCGAGTAAGACCATGTTTGATGAGTTGGCATCGATATGTGATTC
*
12747643 CGATATATGTGTGCGAGTAAGACCCTGTTTGGGAT-AG-TGGCATCGATATGTGATT
1 CGATATATGTGTGCGAGTAAGACCATGTTT--GATGAGTTGGCATCGATATGTGATT
12747698 ACATGTAAGA
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
56 46 0.94
57 1 0.02
58 2 0.04
ACGTcount: A:0.23, C:0.14, G:0.30, T:0.34
Consensus pattern (56 bp):
CGATATATGTGTGCGAGTAAGACCATGTTTGATGAGTTGGCATCGATATGTGATTC
Found at i:12753345 original size:25 final size:26
Alignment explanation
Indices: 12753313--12753373 Score: 74
Period size: 25 Copynumber: 2.4 Consensus size: 26
12753303 GTTTATCTAC
* *
12753313 TTTA-ATTTAATATAAT-ATATATTT
1 TTTATATTTAATAAAATAATATAATT
12753337 TTTATATTT-ATAAAATAATATAATT
1 TTTATATTTAATAAAATAATATAATT
12753362 TTTATAGTTTAA
1 TTTATA-TTTAA
12753374 ATAGTTAACA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 10 0.32
25 17 0.55
26 3 0.10
27 1 0.03
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (26 bp):
TTTATATTTAATAAAATAATATAATT
Found at i:12755424 original size:43 final size:43
Alignment explanation
Indices: 12755363--12755479 Score: 198
Period size: 43 Copynumber: 2.7 Consensus size: 43
12755353 TCTTTAGTAT
*
12755363 TTGAGTTACTAGATCTAGTTCCATTCACATCCGAGCAAATAGC
1 TTGAGTTACTAGATCTAGTTTCATTCACATCCGAGCAAATAGC
*
12755406 TTGAGTTACTAGATCTAGTTTCATTTACATCCGAGCAAATAGC
1 TTGAGTTACTAGATCTAGTTTCATTCACATCCGAGCAAATAGC
* *
12755449 TTGAGTTACTAGATCTACTTTCATTGACATC
1 TTGAGTTACTAGATCTAGTTTCATTCACATC
12755480 ACCTAATGTG
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 70 1.00
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (43 bp):
TTGAGTTACTAGATCTAGTTTCATTCACATCCGAGCAAATAGC
Found at i:12757118 original size:13 final size:13
Alignment explanation
Indices: 12757100--12757124 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12757090 TTTCAATATA
12757100 AAAAAATAAAAAT
1 AAAAAATAAAAAT
12757113 AAAAAATAAAAA
1 AAAAAATAAAAA
12757125 AGCCTGGCTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:12765680 original size:6 final size:6
Alignment explanation
Indices: 12765651--12765679 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
12765641 TGTATTCTCA
12765651 ATTTTT ATTTTT ATTTTT ATTTTT -TTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
12765680 TGTACAATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
ATTTTT
Found at i:12769746 original size:8 final size:8
Alignment explanation
Indices: 12769733--12769759 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
12769723 CCAGATCAAT
12769733 GCTTATTC
1 GCTTATTC
12769741 GCTTATTC
1 GCTTATTC
12769749 GCTTATTC
1 GCTTATTC
12769757 GCT
1 GCT
12769760 GTGGATATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.11, C:0.26, G:0.15, T:0.48
Consensus pattern (8 bp):
GCTTATTC
Found at i:12770480 original size:757 final size:749
Alignment explanation
Indices: 12769037--12770548 Score: 2837
Period size: 757 Copynumber: 2.0 Consensus size: 749
12769027 GGCAGATGTA
*
12769037 AATTGACCCTTATTACGCTGCATCCTAATGCACTCAAAAAAATCAGAAGCAAGAACTTACTATAT
1 AATTGACCCTTATTACGCTGCATCCTAATGCACTCAAAAAAATCAAAAGCAAGAACTTACTATAT
* * * *
12769102 ATGTAATAAAGAAAAATTTGTCAACAAGGACAGATCATCTCTAGTGAGTTTTCTAGGCGCCCATT
66 ATGCAATAAAGAAAAATTTGTCAACAAGGACAGATCATCTCTAATGAGTTTTCTACGCACCCATT
12769167 TCAGTTTAATAAAGCACACTAAGATAAGATATTAAGAATTCAATTCCATCAACTCAACTGTATGC
131 TCAGTTTAATAAAGCACACTAAGATAAGATATTAAGAATTCAATTCCATCAACTCAACTGTATGC
12769232 ATGTTCTTTTTCTCAATTATGTTGTTAACCATTGGTAGAAATGTAACTTCCCTAGAAGGATAAAA
196 ATGTTCTTTTTCTCAATTATGTTGTTAACCATTGGTAGAAATGTAACTTCCCTAGAAGGATAAAA
12769297 AGGCCATCCTCTCTCATTTGTCTGTGTTGTTCTATTACCTAGAGCAGCCAATTAAACCTGGAGGA
261 AGGCCATCCTCTCTCATTTGTCTGTGTTGTTCTATTACCTAGAGCAGCCAATTAAACCTGGAGGA
12769362 AAAATAGTATTCTACACTATCGTTTTATTTCTTCAATATCTTTTCCCTTCAGTAAGACCCTTATT
326 AAAATAGTATTCTACACTATCGTTTTATTTCTTCAATATCTTTTCCCTTCAGTAAGACCCTTATT
12769427 GCACTTCAATCATTTCTGGTACATAAGTATGTCAAACTGTGTTAAACTTGCCTGACTGCTACAGT
391 GCACTTCAATCATTTCTGGTACATAAGTATGTCAAACTGTGTTAAACTTGCCTGACTGCTACAGT
12769492 TCAGACTTCTTGTTTCCACTTTAGAAAATAAATCCCCAATATTTTTGGACACAAGAAGCTATTAG
456 TCAGACTTCTTGTTTCCACTTTAGAAAATAAATCCCCAATATTTTTGGACACAAGAAGCTATTAG
*
12769557 TGAATTGAAATTGCATTATTGTATAGCATCCTCACTATAGATGACGGAATTACAAATATGAGTTC
521 TGAATTGAAATTGCATTATTGTATAGCATCCTCACTACAGATGACGGAATTACAAATATGAGTTC
12769622 ATATAGATTCCAGAATTGAAAATTTATGCCAAAATCTTCCAATTTAAAAAGCACTGCATAAACTT
586 ATATAGATTCCAGAATTGAAAATTTATGCCAAAATCTTCCAATTTAAAAAGCACTGCATAAACTT
12769687 ATATCGGTTTTAAAAAAAGTGACATGATTAGACATGCCAGATCAATGCTTATTCGCTTATTCGCT
651 ATATCGGTTTTAAAAAAAGTGACATGATTAGACATGCCAGATCAATGCTTATTCG-----T---T
*
12769752 TATTCGCTGTGGATATTATGCTCTATCACATTTTTCTGCTTG
708 TATTCCCTGTGGATATTATGCTCTATCACATTTTTCTGCTTG
*
12769794 AATTGACCCTTATTACGCTGCATCCTAATGCACTCAAAAAAATCAAAAGCAAGAACTTACTATTT
1 AATTGACCCTTATTACGCTGCATCCTAATGCACTCAAAAAAATCAAAAGCAAGAACTTACTATAT
12769859 ATGCAATAAAGAAAAATTTGTCAACAAGGACAGATCATCTCTAATGAGTTTTCTACGCACCCATT
66 ATGCAATAAAGAAAAATTTGTCAACAAGGACAGATCATCTCTAATGAGTTTTCTACGCACCCATT
12769924 TCAGTTTAATAAAGCACACTAAGATAAGATATTAAGAATTCAATTCCATCAACTCAACTGTATGC
131 TCAGTTTAATAAAGCACACTAAGATAAGATATTAAGAATTCAATTCCATCAACTCAACTGTATGC
12769989 ATGTTCTTTTTCTCAATTATGTTGTTAACCATTGGTAGAAATGTAAACTTCCCTAGAAGGATAAA
196 ATGTTCTTTTTCTCAATTATGTTGTTAACCATTGGTAGAAATGT-AACTTCCCTAGAAGGATAAA
*
12770054 AAGGGCATCCTCTCTCATTTGTCTGTGTTGTTCTATTACCTAGAGCAGCCAATTAAACCTGGAGG
260 AAGGCCATCCTCTCTCATTTGTCTGTGTTGTTCTATTACCTAGAGCAGCCAATTAAACCTGGAGG
12770119 AAAAATAGTATTCTACACTATCGTTTTATTTCTTCAATATCTTTTCCCTTCAGTAAGACCCTTAT
325 AAAAATAGTATTCTACACTATCGTTTTATTTCTTCAATATCTTTTCCCTTCAGTAAGACCCTTAT
12770184 TGCACTTCAATCATTTCTGGTACATAAGTATGTCAAACTGTGTTAAACTTGCCTGACTGCTACAG
390 TGCACTTCAATCATTTCTGGTACATAAGTATGTCAAACTGTGTTAAACTTGCCTGACTGCTACAG
*
12770249 TTCAGACTTCTTGTTTTCACTTTAGAAAATAAATCCCCAATATTTTTGGACACAAGAAGCTATTA
455 TTCAGACTTCTTGTTTCCACTTTAGAAAATAAATCCCCAATATTTTTGGACACAAGAAGCTATTA
12770314 GTGAATTGAAATTGCATTATTGTATAGCATCCTCACTACAGATGACGGAATTAC-AATATGAGTT
520 GTGAATTGAAATTGCATTATTGTATAGCATCCTCACTACAGATGACGGAATTACAAATATGAGTT
12770378 CATATAGATTCCAGAATTGAAAATTTATGCCAAAATCTTCCAATTTAAAAAGCACTGCATAAACT
585 CATATAGATTCCAGAATTGAAAATTTATGCCAAAATCTTCCAATTTAAAAAGCACTGCATAAACT
*
12770443 TTTATCGGTTTTAAAAAAAGTGACATGATTAGACATGCCAGATCAATGCTTATTCGTTTATTCCC
650 TATATCGGTTTTAAAAAAAGTGACATGATTAGACATGCCAGATCAATGCTTATTCGTTTATTCCC
12770508 TGTGGATATTATGCTCTATCACATTTTTCTGCTTG
715 TGTGGATATTATGCTCTATCACATTTTTCTGCTTG
12770543 AATTGA
1 AATTGA
12770549 TAATTTTGTA
Statistics
Matches: 743, Mismatches: 11, Indels: 10
0.97 0.01 0.01
Matches are distributed among these distances:
749 48 0.06
752 1 0.00
757 363 0.49
758 331 0.45
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (749 bp):
AATTGACCCTTATTACGCTGCATCCTAATGCACTCAAAAAAATCAAAAGCAAGAACTTACTATAT
ATGCAATAAAGAAAAATTTGTCAACAAGGACAGATCATCTCTAATGAGTTTTCTACGCACCCATT
TCAGTTTAATAAAGCACACTAAGATAAGATATTAAGAATTCAATTCCATCAACTCAACTGTATGC
ATGTTCTTTTTCTCAATTATGTTGTTAACCATTGGTAGAAATGTAACTTCCCTAGAAGGATAAAA
AGGCCATCCTCTCTCATTTGTCTGTGTTGTTCTATTACCTAGAGCAGCCAATTAAACCTGGAGGA
AAAATAGTATTCTACACTATCGTTTTATTTCTTCAATATCTTTTCCCTTCAGTAAGACCCTTATT
GCACTTCAATCATTTCTGGTACATAAGTATGTCAAACTGTGTTAAACTTGCCTGACTGCTACAGT
TCAGACTTCTTGTTTCCACTTTAGAAAATAAATCCCCAATATTTTTGGACACAAGAAGCTATTAG
TGAATTGAAATTGCATTATTGTATAGCATCCTCACTACAGATGACGGAATTACAAATATGAGTTC
ATATAGATTCCAGAATTGAAAATTTATGCCAAAATCTTCCAATTTAAAAAGCACTGCATAAACTT
ATATCGGTTTTAAAAAAAGTGACATGATTAGACATGCCAGATCAATGCTTATTCGTTTATTCCCT
GTGGATATTATGCTCTATCACATTTTTCTGCTTG
Found at i:12776595 original size:18 final size:17
Alignment explanation
Indices: 12776559--12776592 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
12776549 TCAGGAGGAA
* *
12776559 AATAAAAAGTTTTAGGG
1 AATAAAAAATTTAAGGG
12776576 AATAAAAAATTTAAGGG
1 AATAAAAAATTTAAGGG
12776593 GAAGTAAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.21, T:0.26
Consensus pattern (17 bp):
AATAAAAAATTTAAGGG
Found at i:12776629 original size:14 final size:13
Alignment explanation
Indices: 12776589--12776627 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
12776579 AAAAAATTTA
*
12776589 AGGGGAAGTAAAT
1 AGGGGGAGTAAAT
12776602 AGCGGGGAGTAAAT
1 AG-GGGGAGTAAAT
12776616 AGGGGGAGTAAA
1 AGGGGGAGTAAA
12776628 ATTTTGGAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.41, C:0.03, G:0.44, T:0.13
Consensus pattern (13 bp):
AGGGGGAGTAAAT
Found at i:12777329 original size:7 final size:7
Alignment explanation
Indices: 12777317--12777343 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
12777307 TTAAAAAAAT
12777317 AATTGAG
1 AATTGAG
12777324 AATTGAG
1 AATTGAG
12777331 AATTGAG
1 AATTGAG
12777338 AATTGA
1 AATTGA
12777344 ATATTGAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.26, T:0.30
Consensus pattern (7 bp):
AATTGAG
Found at i:12777970 original size:20 final size:21
Alignment explanation
Indices: 12777947--12777985 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
12777937 ATAAAACTGA
12777947 CATTTACTATTTAA-AAAAAT
1 CATTTACTATTTAACAAAAAT
12777967 CATTTACTATTTAACAAAA
1 CATTTACTATTTAACAAAA
12777986 CTAAAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (21 bp):
CATTTACTATTTAACAAAAAT
Found at i:12782361 original size:20 final size:20
Alignment explanation
Indices: 12782336--12782375 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
12782326 CTGAAAATAA
12782336 AAATAATGCTAACTTATCTT
1 AAATAATGCTAACTTATCTT
* *
12782356 AAATAATTCTATCTTATCTT
1 AAATAATGCTAACTTATCTT
12782376 CCCTAGGAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.15, G:0.03, T:0.45
Consensus pattern (20 bp):
AAATAATGCTAACTTATCTT
Found at i:12786939 original size:21 final size:21
Alignment explanation
Indices: 12786913--12786953 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
12786903 TCCAGCAACC
*
12786913 AAACACTCTCATTCCAGCTCT
1 AAACACTCCCATTCCAGCTCT
12786934 AAACACTCCCATTCCAGCTC
1 AAACACTCCCATTCCAGCTC
12786954 CTGTCCAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.41, G:0.05, T:0.24
Consensus pattern (21 bp):
AAACACTCCCATTCCAGCTCT
Found at i:12800196 original size:151 final size:151
Alignment explanation
Indices: 12799922--12800211 Score: 463
Period size: 151 Copynumber: 1.9 Consensus size: 151
12799912 CGAAAACATC
* * *
12799922 ACACAAGACAAAAAGACTGCAGTCATGCAAACTGGACACTGCCTTCCTGAGATAAACATGCATGT
1 ACACAAGACAAAAAGACTGCAGTAATGCAAACTGGACACTGCCTTCCTGAGATAAACATGAATGA
* * *
12799987 TGTTGAACATTAAGCTACATTTTAAGAAGAGCCATACCAACACCAGCTACAAAGTTTTTTAGTGT
66 CGTCGAACATTAAGCTACATTTTAAGAAAAGCCATACCAACACCAGCTACAAAGTTTTTTAGTGT
12800052 TCTCATGTAAGTGCAAATATT
131 TCTCATGTAAGTGCAAATATT
*
12800073 ACACAAGACAAAAGGACTGCAGTAATGCAAACTGGACACTGCCTTCCTGAGATAAACATGAATGA
1 ACACAAGACAAAAAGACTGCAGTAATGCAAACTGGACACTGCCTTCCTGAGATAAACATGAATGA
* ** * * *
12800138 CGTCGAACATTAAGCTACGTTTTCGGAAAAGTCATACCAACACCAGCTACTAAGTTTTTTGGTGT
66 CGTCGAACATTAAGCTACATTTTAAGAAAAGCCATACCAACACCAGCTACAAAGTTTTTTAGTGT
12800203 TCTCATGTA
131 TCTCATGTA
12800212 CTGTGGCATA
Statistics
Matches: 126, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
151 126 1.00
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.26
Consensus pattern (151 bp):
ACACAAGACAAAAAGACTGCAGTAATGCAAACTGGACACTGCCTTCCTGAGATAAACATGAATGA
CGTCGAACATTAAGCTACATTTTAAGAAAAGCCATACCAACACCAGCTACAAAGTTTTTTAGTGT
TCTCATGTAAGTGCAAATATT
Found at i:12803901 original size:19 final size:19
Alignment explanation
Indices: 12803867--12803914 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
12803857 TACCAGATAC
*
12803867 AAACAAAATGGCCATCACAT
1 AAACAAAA-AGCCATCACAT
12803887 AAACAAAAAGCCATCACAT
1 AAACAAAAAGCCATCACAT
*
12803906 AATCAAAAA
1 AAACAAAAA
12803915 CAATACTCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 18 0.69
20 8 0.31
ACGTcount: A:0.58, C:0.23, G:0.06, T:0.12
Consensus pattern (19 bp):
AAACAAAAAGCCATCACAT
Found at i:12808934 original size:14 final size:14
Alignment explanation
Indices: 12808915--12808956 Score: 84
Period size: 14 Copynumber: 3.0 Consensus size: 14
12808905 GAAATAGGCC
12808915 TAAGCCTTCCAACT
1 TAAGCCTTCCAACT
12808929 TAAGCCTTCCAACT
1 TAAGCCTTCCAACT
12808943 TAAGCCTTCCAACT
1 TAAGCCTTCCAACT
12808957 ATACCACTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.29, C:0.36, G:0.07, T:0.29
Consensus pattern (14 bp):
TAAGCCTTCCAACT
Found at i:12809061 original size:27 final size:28
Alignment explanation
Indices: 12809030--12809086 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
12809020 CACTTTTGTT
*
12809030 TATTTCAAA-TTACATTTTAGTTATTTA
1 TATTTCAAAGTTACATTTTAGTCATTTA
* *
12809057 TATTTGAAATGTTACGTTTTAGTCATTTA
1 TATTTCAAA-GTTACATTTTAGTCATTTA
12809086 T
1 T
12809087 GTTATCATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 8 0.32
29 17 0.68
ACGTcount: A:0.30, C:0.07, G:0.09, T:0.54
Consensus pattern (28 bp):
TATTTCAAAGTTACATTTTAGTCATTTA
Found at i:12815734 original size:30 final size:30
Alignment explanation
Indices: 12815710--12815769 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
12815700 ATCTTTGTAC
12815710 TCATATTCATCTCCACCTTCATCTTCATCT
1 TCATATTCATCTCCACCTTCATCTTCATCT
* **
12815740 TCATATTCATCTCTACCTTCGGCTTCATCT
1 TCATATTCATCTCCACCTTCATCTTCATCT
12815770 CCGTCTTCGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.18, C:0.35, G:0.03, T:0.43
Consensus pattern (30 bp):
TCATATTCATCTCCACCTTCATCTTCATCT
Found at i:12819049 original size:33 final size:34
Alignment explanation
Indices: 12819012--12819076 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
12819002 GTCTTAGTTA
12819012 GGGCCTTAGCCC-ATTCAGTAACAGTATCAGTGT
1 GGGCCTTAGCCCAATTCAGTAACAGTATCAGTGT
12819045 GGGCCTTAGCCCAATTCAGTAACAGTATCAGT
1 GGGCCTTAGCCCAATTCAGTAACAGTATCAGT
12819077 ACAAAATGCA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 12 0.39
34 19 0.61
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (34 bp):
GGGCCTTAGCCCAATTCAGTAACAGTATCAGTGT
Found at i:12826943 original size:33 final size:34
Alignment explanation
Indices: 12826913--12826977 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
12826903 GTCTCAGTTA
* *
12826913 GGGCCTTAGCCC-ATTCAGTAATAGTATCAGTGT
1 GGGCCTTAGCCCAATTCAGTAACAATATCAGTGT
*
12826946 GGGTCTTAGCCCAATTCAGTAACAATATCAGT
1 GGGCCTTAGCCCAATTCAGTAACAATATCAGT
12826978 ACAAAATACA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 11 0.39
34 17 0.61
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (34 bp):
GGGCCTTAGCCCAATTCAGTAACAATATCAGTGT
Found at i:12830210 original size:38 final size:38
Alignment explanation
Indices: 12830150--12830283 Score: 133
Period size: 38 Copynumber: 3.4 Consensus size: 38
12830140 GTGGTGATAA
* * *
12830150 TCAGGCTTTGTGCTTAGTAGGCTTTATGCCGGTGTTAT
1 TCAGGCTATGTGCCTAGCAGGCTTTATGCCGGTGTTAT
* * *
12830188 TCGGGCTATGTGCCTAGCAGGCTTTCTGTCGGTGTTAT
1 TCAGGCTATGTGCCTAGCAGGCTTTATGCCGGTGTTAT
* * ** *
12830226 TCAGGCCATATGCCTAGCAGGCTTCGTGCCGATGATTTAT
1 TCAGGCTATGTGCCTAGCAGGCTTTATGCCGGTG--TTAT
*
12830266 ATCAGGCTCTGTGCCTAG
1 -TCAGGCTATGTGCCTAG
12830284 TAGACTTTGT
Statistics
Matches: 77, Mismatches: 16, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
38 59 0.77
40 4 0.05
41 14 0.18
ACGTcount: A:0.15, C:0.22, G:0.28, T:0.35
Consensus pattern (38 bp):
TCAGGCTATGTGCCTAGCAGGCTTTATGCCGGTGTTAT
Found at i:12830335 original size:40 final size:41
Alignment explanation
Indices: 12830291--12830381 Score: 116
Period size: 41 Copynumber: 2.2 Consensus size: 41
12830281 TAGTAGACTT
12830291 TGTGCCTAGC-GGCTTCGTGCCT-GT-ATTTTATATCAAGCTC
1 TGTGCCTAGCAGGCTTCGTG-CTGGTCA-TTTATATCAAGCTC
* * *
12830331 TGTGCCTAGCAGGCTTCGTGCTGGTCATTTGTATCAGGCTT
1 TGTGCCTAGCAGGCTTCGTGCTGGTCATTTATATCAAGCTC
12830372 TGTGCCTAGC
1 TGTGCCTAGC
12830382 CAGTGACTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
40 12 0.27
41 32 0.71
42 1 0.02
ACGTcount: A:0.13, C:0.24, G:0.26, T:0.36
Consensus pattern (41 bp):
TGTGCCTAGCAGGCTTCGTGCTGGTCATTTATATCAAGCTC
Found at i:12832391 original size:8 final size:8
Alignment explanation
Indices: 12832378--12832402 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
12832368 ATTATGCCTT
12832378 AAGGTTGA
1 AAGGTTGA
12832386 AAGGTTGA
1 AAGGTTGA
12832394 AAGGTTGA
1 AAGGTTGA
12832402 A
1 A
12832403 TTGTATAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.36, T:0.24
Consensus pattern (8 bp):
AAGGTTGA
Found at i:12834861 original size:34 final size:33
Alignment explanation
Indices: 12834791--12834879 Score: 79
Period size: 34 Copynumber: 2.6 Consensus size: 33
12834781 ATACATTTTG
* *
12834791 GATACTGTACTGAAATGGGCTAAAGCCCATATT
1 GATACTGTACTGAAATGGGCTAAAGCCCACACT
* * * *
12834824 GATACTGTTACTGTATTGGGCTAAGGCCTACACT
1 GATACTG-TACTGAAATGGGCTAAAGCCCACACT
* * *
12834858 GATATTGCGACTGATATGGGCT
1 GATACTG-TACTGAAATGGGCT
12834880 TAGGCCCAGA
Statistics
Matches: 43, Mismatches: 12, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
33 7 0.16
34 36 0.84
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (33 bp):
GATACTGTACTGAAATGGGCTAAAGCCCACACT
Found at i:12842209 original size:25 final size:25
Alignment explanation
Indices: 12842181--12842233 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
12842171 ATCAAACCCA
12842181 TAAATTAACAAATGAACAAATAAGT
1 TAAATTAACAAATGAACAAATAAGT
12842206 TAAATTAACAAATGAACAAATAAGT
1 TAAATTAACAAATGAACAAATAAGT
12842231 TAA
1 TAA
12842234 CTTCTCTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.60, C:0.08, G:0.08, T:0.25
Consensus pattern (25 bp):
TAAATTAACAAATGAACAAATAAGT
Found at i:12847534 original size:13 final size:13
Alignment explanation
Indices: 12847513--12847542 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
12847503 TTAGTTGTAA
12847513 AAAAATTATTTCC
1 AAAAATTATTTCC
*
12847526 AAAATTTATTTCC
1 AAAAATTATTTCC
12847539 AAAA
1 AAAA
12847543 CCTTCTTGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (13 bp):
AAAAATTATTTCC
Found at i:12847859 original size:17 final size:18
Alignment explanation
Indices: 12847830--12847867 Score: 69
Period size: 17 Copynumber: 2.2 Consensus size: 18
12847820 AGATAAAAAT
12847830 AAATAATGAAAAATAAAC
1 AAATAATGAAAAATAAAC
12847848 AAATAA-GAAAAATAAAC
1 AAATAATGAAAAATAAAC
12847865 AAA
1 AAA
12847868 ACAAATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.76, C:0.05, G:0.05, T:0.13
Consensus pattern (18 bp):
AAATAATGAAAAATAAAC
Found at i:12848790 original size:2 final size:2
Alignment explanation
Indices: 12848783--12848812 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
12848773 ATGTATCACA
*
12848783 AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12848813 GGCATGTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:12861615 original size:20 final size:20
Alignment explanation
Indices: 12861590--12861628 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
12861580 ACAAAGTAAA
12861590 AATGAGATA-GAGTCGAGCTC
1 AATGAGATAGGAGT-GAGCTC
*
12861610 AATGAGCTAGGAGTGAGCT
1 AATGAGATAGGAGTGAGCT
12861629 AGATAAGCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.21
Consensus pattern (20 bp):
AATGAGATAGGAGTGAGCTC
Found at i:12863789 original size:19 final size:19
Alignment explanation
Indices: 12863765--12863802 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
12863755 ACCTAAAACT
12863765 CCCGAAGCGAAATTGAGGA
1 CCCGAAGCGAAATTGAGGA
*
12863784 CCCGAAGGGAAATTGAGGA
1 CCCGAAGCGAAATTGAGGA
12863803 GAGATTTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.37, C:0.18, G:0.34, T:0.11
Consensus pattern (19 bp):
CCCGAAGCGAAATTGAGGA
Found at i:12874248 original size:47 final size:47
Alignment explanation
Indices: 12874180--12874269 Score: 135
Period size: 47 Copynumber: 1.9 Consensus size: 47
12874170 GATAAACTAT
*
12874180 CACATAATTAAATCGTAGACAAGCCACCACATGTGAAGATATAGTGC
1 CACATAATCAAATCGTAGACAAGCCACCACATGTGAAGATATAGTGC
* * * *
12874227 CACATAATCAAATTGTGGACAAGCCACCACATTTGCAGATATA
1 CACATAATCAAATCGTAGACAAGCCACCACATGTGAAGATATA
12874270 CTACCATATA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 38 1.00
ACGTcount: A:0.40, C:0.22, G:0.16, T:0.22
Consensus pattern (47 bp):
CACATAATCAAATCGTAGACAAGCCACCACATGTGAAGATATAGTGC
Found at i:12876736 original size:21 final size:21
Alignment explanation
Indices: 12876711--12876754 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
12876701 CTACTCAAAT
12876711 GGAGGAATACTCGAGATGAAA
1 GGAGGAATACTCGAGATGAAA
12876732 GGAGGAATACTCGAGATGAAA
1 GGAGGAATACTCGAGATGAAA
12876753 GG
1 GG
12876755 GACGTATTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.41, C:0.09, G:0.36, T:0.14
Consensus pattern (21 bp):
GGAGGAATACTCGAGATGAAA
Found at i:12882302 original size:21 final size:22
Alignment explanation
Indices: 12882267--12882307 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
12882257 CCATAATTAT
12882267 TTCAATTTACAATTC-ATCTTA
1 TTCAATTTACAATTCTATCTTA
12882288 TTCAATTTA-ATATTCTATCT
1 TTCAATTTACA-ATTCTATCT
12882308 CACCTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 1 0.06
21 13 0.72
22 4 0.22
ACGTcount: A:0.32, C:0.17, G:0.00, T:0.51
Consensus pattern (22 bp):
TTCAATTTACAATTCTATCTTA
Found at i:12885768 original size:40 final size:40
Alignment explanation
Indices: 12885694--12885891 Score: 276
Period size: 40 Copynumber: 5.0 Consensus size: 40
12885684 AACCCAAGTA
* * *
12885694 CCTTCGGGATTTAGCCGA-ATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCAGATATAGTC-ACTAGCACAAATG
*
12885733 CCTTCGGGTCTTAGCCCAGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCAGATATAGTCACTAGCACAAATG
*
12885773 CCTTCGGGACTTAG-CCAGTATGTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCAG-ATATAGTCACTAGCACAAATG
*
12885813 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCAGATATAGTCACTAGCACAAATG
* * *
12885853 CCTTCGGAACTTAGCTCGGATATAGTCACTAGCACAAAT
1 CCTTCGGGACTTAGCCCAGATATAGTCACTAGCACAAAT
12885892 ATCAATAAAT
Statistics
Matches: 145, Mismatches: 10, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 19 0.13
40 122 0.84
41 4 0.03
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCAGATATAGTCACTAGCACAAATG
Found at i:12893140 original size:64 final size:64
Alignment explanation
Indices: 12893067--12893277 Score: 151
Period size: 64 Copynumber: 3.2 Consensus size: 64
12893057 CTGGGCCAGA
*
12893067 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* * * *** * ** *
12893131 GCCCATTTCAAAATAC-ATGCAACATCAGTAAACATATGCAAGCCC--ATTTGGGTAACAGTGGT
1 GCCCATTTCAGATTACAAT--AA-A-CTG-GGCCTTA-GC---CCCTTATTCAGATAACA---GT
* *
12893193 ACTGGGCCAGA-
54 A-TGGCCCATAG
*
12893204 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
12893268 GCCCATTTCA
1 GCCCATTTCA
12893278 AAATACATGC
Statistics
Matches: 103, Mismatches: 27, Indels: 34
0.63 0.16 0.21
Matches are distributed among these distances:
63 9 0.09
64 25 0.24
65 5 0.05
66 1 0.01
67 11 0.11
68 5 0.05
69 5 0.05
70 11 0.11
71 1 0.01
72 5 0.05
73 16 0.16
74 9 0.09
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:12893279 original size:137 final size:137
Alignment explanation
Indices: 12893033--12893319 Score: 547
Period size: 137 Copynumber: 2.1 Consensus size: 137
12893023 TATTGGGCCT
**
12893033 AAGCCCATTCAGGTAACAGTAGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTAGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
12893098 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
12893163 CATATGC
131 CATATGC
*
12893170 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTAGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
12893235 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
12893300 CATATGC
131 CATATGC
12893307 AAGCCCATTTGGG
1 AAGCCCATTTGGG
12893320 GAGACTACTC
Statistics
Matches: 147, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
137 147 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTAGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:12895141 original size:26 final size:26
Alignment explanation
Indices: 12895105--12895214 Score: 168
Period size: 26 Copynumber: 4.2 Consensus size: 26
12895095 CATGTAATTC
12895105 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
12895131 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
12895157 TTATCAT-AGAATATTTACCTAATCCA
1 TTATCATGA-AACATTTACCTAACCCA
* *
12895183 TTGTCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
12895209 TTATCA
1 TTATCA
12895215 ATTTGTATCA
Statistics
Matches: 75, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
25 1 0.01
26 74 0.99
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:12905564 original size:29 final size:28
Alignment explanation
Indices: 12905530--12905632 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
12905520 TACTCAATCA
*
12905530 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
12905559 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
12905588 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
12905617 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
12905633 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:12922171 original size:17 final size:18
Alignment explanation
Indices: 12922138--12922171 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
12922128 ATAGGTTAAT
*
12922138 TTGTAGTGGCCAAATAAA
1 TTGTAGTGGCAAAATAAA
12922156 TTGTAGT-GCAAAATAA
1 TTGTAGTGGCAAAATAA
12922172 GAGGATTTGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.29
Consensus pattern (18 bp):
TTGTAGTGGCAAAATAAA
Found at i:12923172 original size:69 final size:70
Alignment explanation
Indices: 12923040--12923173 Score: 216
Period size: 69 Copynumber: 1.9 Consensus size: 70
12923030 TAGTTTATTA
* * ***
12923040 CTAATTAATTTGCTGCTGTAATGCTGTAAATTATTGGCTGTCCAAATTAGGACAAATTTATGGTG
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAACCATGGTG
12923105 CTTAG
66 CTTAG
12923110 CTAATTAATATGCTGCTG-AATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAACCATGGTG
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAACCATGGTG
12923174 TTATGTGCTA
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
69 42 0.71
70 17 0.29
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.35
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAACCATGGTG
CTTAG
Found at i:12924004 original size:43 final size:43
Alignment explanation
Indices: 12923946--12924073 Score: 204
Period size: 43 Copynumber: 3.0 Consensus size: 43
12923936 TATCGAAATG
*
12923946 TGATATACGGGCTTCGGGCCTAGCAGGCTATAATGCCAGTGAAA
1 TGATAT-CGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
12923990 TGATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
1 TGATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
** *
12924033 TGATATCGGGCTTCAAGCCTAGCAGGCGA-AATGCCGGTGAA
1 TGATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAA
12924074 TGAATTCATT
Statistics
Matches: 80, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
42 12 0.15
43 62 0.77
44 6 0.08
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (43 bp):
TGATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:12926284 original size:40 final size:40
Alignment explanation
Indices: 12926157--12926286 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
12926147 ATGCTGGAAA
* *
12926157 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
12926197 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
12926237 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
12926277 TTATATCCGG
1 TTATATCCGG
12926287 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:12931852 original size:29 final size:29
Alignment explanation
Indices: 12931820--12931897 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
12931810 ATACCCTCCG
** *
12931820 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
* *
12931849 AGCTTGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
*
12931878 AGCACGCACACTTAGTGCCG
1 AGCTCGCACACTTAGTGCCG
12931898 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.22, C:0.33, G:0.18, T:0.27
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCGTATATTTCC
Found at i:12937379 original size:40 final size:40
Alignment explanation
Indices: 12937252--12937381 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
12937242 ATGCTGGAAA
* *
12937252 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
12937292 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
12937332 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
12937372 TTATATCCGG
1 TTATATCCGG
12937382 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:12938914 original size:12 final size:12
Alignment explanation
Indices: 12938897--12938921 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12938887 GTGGGCTACG
12938897 TGCGGAACCACC
1 TGCGGAACCACC
12938909 TGCGGAACCACC
1 TGCGGAACCACC
12938921 T
1 T
12938922 TATAATTGCT
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:0.24, C:0.40, G:0.24, T:0.12
Consensus pattern (12 bp):
TGCGGAACCACC
Found at i:12948474 original size:16 final size:16
Alignment explanation
Indices: 12948453--12948488 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
12948443 AATCCCTAAC
* *
12948453 AATCTTCAAGTCCCTA
1 AATCTTCAAATACCTA
12948469 AATCTTCAAATACCTA
1 AATCTTCAAATACCTA
12948485 AATC
1 AATC
12948489 GATAGCATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.39, C:0.28, G:0.03, T:0.31
Consensus pattern (16 bp):
AATCTTCAAATACCTA
Found at i:12948865 original size:117 final size:117
Alignment explanation
Indices: 12948657--12948867 Score: 298
Period size: 117 Copynumber: 1.8 Consensus size: 117
12948647 TTTGATGAGT
* * * *
12948657 TGGTTATTTGTGATTTACTATTGCAATTTGAGTGCAAAAATGTATGGTTTGTTTTGTCTATTTTT
1 TGGTTAATTGTGATTTACTATTGCAATTTCAGTGCAAAAATGTAGGGTTTGTTTTGTCTATTTGT
* ** *
12948722 GATGCGATGGTGGTCCTAATGTTGTTGATAAAACTGTTGTAAAAATTGTAGA
66 GATGAGACAGTGGTCCTAATGATGTTGATAAAACTGTTGTAAAAATTGTAGA
* * *
12948774 TGGTTAATTGTGATTTATTATTGCAATTTCAGTGCTAGAATGTAGGGTTTGTTTTGT-TGATTTG
1 TGGTTAATTGTGATTTACTATTGCAATTTCAGTGCAAAAATGTAGGGTTTGTTTTGTCT-ATTTG
*
12948838 TGATGAGACAGTGGTCCTGATGATGTTGAT
65 TGATGAGACAGTGGTCCTAATGATGTTGAT
12948868 TTTTGTTACC
Statistics
Matches: 81, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
116 1 0.01
117 80 0.99
ACGTcount: A:0.24, C:0.07, G:0.25, T:0.45
Consensus pattern (117 bp):
TGGTTAATTGTGATTTACTATTGCAATTTCAGTGCAAAAATGTAGGGTTTGTTTTGTCTATTTGT
GATGAGACAGTGGTCCTAATGATGTTGATAAAACTGTTGTAAAAATTGTAGA
Found at i:12949617 original size:33 final size:32
Alignment explanation
Indices: 12949478--12949620 Score: 101
Period size: 33 Copynumber: 4.3 Consensus size: 32
12949468 AATTGACTAC
* * *
12949478 TGGGGAGGGTGATGTTGAAGGGGTGAAAGTTGA
1 TGGGGAGGGTGATGTAGAAGAGGT-AAAGCTGA
* *
12949511 TGGGGAGGGTGATGATA-AAGGGGTAGAATCTGA
1 TGGGGAGGGTGATG-TAGAAGAGGTA-AAGCTGA
** * * * *
12949544 TGATGAAGGTGATCTAGAAAAGGTAAAATCT-A
1 TGGGGAGGGTGATGTAGAAGAGGT-AAAGCTGA
* *
12949576 GTGAGGAGGGTGATGTAGGAGAGGTACAAGCTGA
1 -TGGGGAGGGTGATGTAGAAGAGGTA-AAGCTGA
12949610 TGGGGAGGGTG
1 TGGGGAGGGTG
12949621 TGTCTGCTAC
Statistics
Matches: 87, Mismatches: 16, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
32 5 0.06
33 79 0.91
34 3 0.03
ACGTcount: A:0.30, C:0.03, G:0.45, T:0.22
Consensus pattern (32 bp):
TGGGGAGGGTGATGTAGAAGAGGTAAAGCTGA
Found at i:12949878 original size:51 final size:51
Alignment explanation
Indices: 12949729--12949865 Score: 211
Period size: 51 Copynumber: 2.7 Consensus size: 51
12949719 GTTGCTGGTA
*
12949729 ATGAATATGCTAGTGATTTTGCAACATCAGATGGAGTGGATAATGTTGCTG
1 ATGAATATGCTGGTGATTTTGCAACATCAGATGGAGTGGATAATGTTGCTG
* * * * *
12949780 GTGAATATGTTGGTGATTTTGCAACATCAGCTAGAGTGGATAATGTTGTTG
1 ATGAATATGCTGGTGATTTTGCAACATCAGATGGAGTGGATAATGTTGCTG
*
12949831 ATGAATATGCTGGTGACTTTGCAACATCAGATGGA
1 ATGAATATGCTGGTGATTTTGCAACATCAGATGGA
12949866 CTAAAAAATG
Statistics
Matches: 75, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 75 1.00
ACGTcount: A:0.28, C:0.10, G:0.28, T:0.34
Consensus pattern (51 bp):
ATGAATATGCTGGTGATTTTGCAACATCAGATGGAGTGGATAATGTTGCTG
Found at i:12952683 original size:22 final size:22
Alignment explanation
Indices: 12952657--12952701 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
12952647 TCATATGCTT
*
12952657 TTGTAAAGTACATTTATCGAAA
1 TTGTAAAGTACATTTATCCAAA
12952679 TTGTAAAGTACATTTATCCAAA
1 TTGTAAAGTACATTTATCCAAA
12952701 T
1 T
12952702 CATATGCTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.38
Consensus pattern (22 bp):
TTGTAAAGTACATTTATCCAAA
Found at i:12953813 original size:18 final size:16
Alignment explanation
Indices: 12953770--12953805 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
12953760 GAATGCTATC
* *
12953770 GATTTAGGTATTTGAA
1 GATTTAGGGACTTGAA
12953786 GATTTAGGGACTTGAA
1 GATTTAGGGACTTGAA
12953802 GATT
1 GATT
12953806 GTTAGGGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.03, G:0.28, T:0.39
Consensus pattern (16 bp):
GATTTAGGGACTTGAA
Done.