Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 178 of 332
Found at i:58807500 original size:40 final size:40
Alignment explanation
Indices: 58807438--58807603 Score: 192
Period size: 40 Copynumber: 4.2 Consensus size: 40
58807428 AACCCAAGTA
* * * *
58807438 CCTTCGGGATTTA-TCCGGATATAACAACTCGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
* * *
58807477 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATA
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
* * *
58807517 CCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATT
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
* * *
58807557 CCTTCGGGAGTTAACCCGGATATAGTC-ACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-CAACTCGCACAAATG
58807597 CCTTCGG
1 CCTTCGG
58807604 ATCTTAGTCC
Statistics
Matches: 109, Mismatches: 16, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
39 12 0.11
40 97 0.89
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
Found at i:58807610 original size:80 final size:80
Alignment explanation
Indices: 58807436--58807603 Score: 214
Period size: 80 Copynumber: 2.1 Consensus size: 80
58807426 CAAACCCAAG
* * * ** * *
58807436 TACCTTCGGGATTTA-TCCGGATATAACAACTCGCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 TACCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATAT
58807500 AGTAACTCACACAAA
66 AGTAACTCACACAAA
* *
58807515 TACCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATTCCTTCGGGAGTTAACCCGGATAT
1 TACCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATAT
*
58807580 AGTCACT-AGCACAAA
66 AGTAACTCA-CACAAA
*
58807595 TGCCTTCGG
1 TACCTTCGG
58807604 ATCTTAGTCC
Statistics
Matches: 76, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
79 15 0.20
80 61 0.80
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (80 bp):
TACCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATAT
AGTAACTCACACAAA
Found at i:58815432 original size:40 final size:40
Alignment explanation
Indices: 58815370--58815575 Score: 297
Period size: 40 Copynumber: 5.2 Consensus size: 40
58815360 AACCCAAGTA
* * **
58815370 CCTTCGGGA-TTTAGCCGGATATAACAACTCGCACAAATG
1 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
58815409 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
* *
58815449 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
* *
58815489 CCTTCGAGACTTAACCCAGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
** * *
58815529 CCTTCGGGACTTAACTTGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
58815569 CCTTCGG
1 CCTTCGG
58815576 ATCTTAGTCC
Statistics
Matches: 150, Mismatches: 16, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 9 0.06
40 141 0.94
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
Found at i:58825324 original size:46 final size:48
Alignment explanation
Indices: 58825220--58825331 Score: 124
Period size: 46 Copynumber: 2.4 Consensus size: 48
58825210 ACATTATGAG
*
58825220 AGCCAGTGTAAGACCATGTCTGGGATATGGCATATGCATTGAGACGAGT
1 AGCCAGTGTAAGA-CATGTCTGGGATATGGCATAGGCATTGAGACGAGT
* * * * *
58825269 -GCTAATGTAAGACATGTCTGGGATAT-GCTTCGGCATTGAGA-TA-T
1 AGCCAGTGTAAGACATGTCTGGGATATGGCATAGGCATTGAGACGAGT
58825313 AAGCCAGTGTAAGACATGT
1 -AGCCAGTGTAAGACATGT
58825332 ATGTGACATG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
44 1 0.02
45 1 0.02
46 27 0.51
47 14 0.26
48 10 0.19
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (48 bp):
AGCCAGTGTAAGACATGTCTGGGATATGGCATAGGCATTGAGACGAGT
Found at i:58832770 original size:46 final size:45
Alignment explanation
Indices: 58832717--58832887 Score: 136
Period size: 46 Copynumber: 3.7 Consensus size: 45
58832707 TGTGTGTGCT
58832717 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTATGAGAGCC
** * *
58832763 AGTGTAAGACCATGTCTAAGACATGGCA-CTGG--CATTGAGATGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC-GGCCCATT---ATGAGAGCC
** * *
58832811 AGTGTAAGACATGTCTGGGACATGTTTTGGCCTCGA-GATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC-C-ATTATG-AGAGCC
*
58832857 AGTATAAGACATGTCTGGGACATGCATCGGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC
58832888 TATGAGAGGT
Statistics
Matches: 97, Mismatches: 16, Indels: 24
0.71 0.12 0.18
Matches are distributed among these distances:
45 4 0.04
46 44 0.45
47 26 0.27
48 21 0.22
49 1 0.01
50 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCCATTATGAGAGCC
Found at i:58832833 original size:47 final size:45
Alignment explanation
Indices: 58832712--58832981 Score: 135
Period size: 46 Copynumber: 5.8 Consensus size: 45
58832702 TCACATGTGT
58832712 GTGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCACATTATGA
1 GTGCTAGTGTAAGACATGTCTGGGACATGGCATCGG-C-CATTATGA
* * **
58832758 GAGCCAGTGTAAGACCATGTCTAAGACATGGCA-CTGG-CATTGAGATGA
1 GTGCTAGTGTAAGA-CATGTCTGGGACATGGCATC-GGCCATT---ATGA
** * *
58832806 GTGCTAGTGTAAGACATGTCTGGGACAT-GTTTTGGCC-TCGA-GA
1 GTGCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCAT-TATGA
* * * *
58832849 TGTAAGCCAGTATAAGACATGTCTGGGACAT-GCATCGGCTATGA-GA
1 -GT--GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCATTATGA
* * * *
58832895 GGTG-TCAGTGTAAGACCATATCTAGGACATGGCATCGACACAGATATGCTA
1 -GTGCT-AGTGTAAGA-CATGTCTGGGACATGGCATCGGC-CA-TTATG--A
* * *
58832946 GAGCTTGTGTAAGACCATGTTTGGGACATGGCATCG
1 GTGCTAGTGTAAGA-CATGTCTGGGACATGGCATCG
58832982 ACACTTGACC
Statistics
Matches: 170, Mismatches: 32, Indels: 40
0.70 0.13 0.17
Matches are distributed among these distances:
43 2 0.01
44 12 0.07
45 16 0.09
46 58 0.34
47 28 0.16
48 22 0.13
49 1 0.01
50 29 0.17
51 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.25
Consensus pattern (45 bp):
GTGCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCATTATGA
Found at i:58832956 original size:140 final size:141
Alignment explanation
Indices: 58832721--58832975 Score: 322
Period size: 138 Copynumber: 1.8 Consensus size: 141
58832711 TGTGCTAGTG
* *
58832721 TAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTAAGACA
1 TAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACCATATCTAAGACA
* ** *
58832786 TGGCACTGGCATTGAGATGAGTGCTAGTGTAAGA-CATGTCTGGGACATGTTTTGGCCTCGAGAT
66 TGGCACTGACACAGAGATGAGAGCTAGTGTAAGACCATGTCTGGGACATGTTTTGGCCTCGAGAT
58832850 GTAAGCCAGTA
131 GTAAGCCAGTA
* * * *
58832861 TAAGACATGTCTGGGACATGCATCGG-C-TATGA-GAGGTGTCAGTGTAAGACCATATCTAGGAC
1 TAAGACATGTCTGGGACATGCATCGGCCACATGATGA-GAGCCAGTGTAAGACCATATCTAAGAC
* * *
58832923 ATGGCA-TCGACACAGATATGCTAGAGCTTGTGTAAGACCATGTTTGGGACATG
65 ATGGCACT-GACACAGAGATG--AGAGCTAGTGTAAGACCATGTCTGGGACATG
58832976 GCATCGACAC
Statistics
Matches: 97, Mismatches: 13, Indels: 9
0.82 0.11 0.08
Matches are distributed among these distances:
137 3 0.03
138 40 0.41
139 1 0.01
140 39 0.40
141 14 0.14
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (141 bp):
TAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACCATATCTAAGACA
TGGCACTGACACAGAGATGAGAGCTAGTGTAAGACCATGTCTGGGACATGTTTTGGCCTCGAGAT
GTAAGCCAGTA
Found at i:58842722 original size:12 final size:12
Alignment explanation
Indices: 58842705--58842729 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
58842695 CCACACACGC
58842705 CCGTGTACTAGG
1 CCGTGTACTAGG
58842717 CCGTGTACTAGG
1 CCGTGTACTAGG
58842729 C
1 C
58842730 AGTGCCAAAC
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:0.16, C:0.28, G:0.32, T:0.24
Consensus pattern (12 bp):
CCGTGTACTAGG
Found at i:58846360 original size:27 final size:27
Alignment explanation
Indices: 58846330--58846382 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
58846320 CCCTAATTGA
* *
58846330 TAAAATGACTGTTATGCCCTTATGTGG
1 TAAAATGACTATTATGCCCCTATGTGG
* *
58846357 TAAAATGATTATTTTGCCCCTATGTG
1 TAAAATGACTATTATGCCCCTATGTG
58846383 ATGTATGATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (27 bp):
TAAAATGACTATTATGCCCCTATGTGG
Found at i:58848471 original size:43 final size:43
Alignment explanation
Indices: 58848362--58848491 Score: 115
Period size: 43 Copynumber: 3.0 Consensus size: 43
58848352 TTATTGTACA
* * * * * *
58848362 ATGCCAACGTCCAAGGCATGGTCTTACATGTAATCACATATCG
1 ATGCCAACATCCCAGACGTGGTCTTACACGTAATAACATATCG
* *
58848405 ATGCC-ACTATCCCAAATAG-GGTCTTACACGTAATAACATAAT-G
1 ATGCCAAC-ATCCCAGA-CGTGGTCTTACACGTAATAACAT-ATCG
*
58848448 ATGCCAACATCCCAGACGTGGTCTTACAC-AAATACACATATCG
1 ATGCCAACATCCCAGACGTGGTCTTACACGTAATA-ACATATCG
58848491 A
1 A
58848492 AATCCTATGT
Statistics
Matches: 69, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
42 9 0.13
43 56 0.81
44 4 0.06
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (43 bp):
ATGCCAACATCCCAGACGTGGTCTTACACGTAATAACATATCG
Found at i:58855170 original size:20 final size:18
Alignment explanation
Indices: 58855133--58855183 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
58855123 CTATAGCAAC
58855133 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
58855150 TCACATATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
58855170 TTACAACTTTACAA
1 TCACAA-TTTACAA
58855184 AATAGCCCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.43
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:59048350 original size:27 final size:27
Alignment explanation
Indices: 59048313--59048515 Score: 243
Period size: 27 Copynumber: 7.6 Consensus size: 27
59048303 TAAATTGTAC
59048313 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
59048340 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
59048367 TGCACTAAGTGTGCGA--AGA--ATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
59048390 GATGCACTAAGTGTGCGAATTGACCATGC
1 -A-GCACTAAGTGTGCGATTTGACTATGT
*
59048419 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
59048447 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
59048474 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
59048501 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
59048516 GACTCAATAT
Statistics
Matches: 153, Mismatches: 16, Indels: 14
0.84 0.09 0.08
Matches are distributed among these distances:
23 4 0.03
25 17 0.11
27 106 0.69
28 23 0.15
29 3 0.02
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:59048407 original size:52 final size:52
Alignment explanation
Indices: 59048313--59048489 Score: 196
Period size: 52 Copynumber: 3.3 Consensus size: 52
59048303 TAAATTGTAC
*
59048313 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGA-TAGAC-ATGTAGCACTAAGTGTGCGATTTGACTATGT
* * * *
59048367 TGCACTAAGTGTGCGA-AGA-ATGTGATGCACTAAGTGTGCGAATTGACCATGC
1 AGCACTAAGTGTGCGATAGACATGT-A-GCACTAAGTGTGCGATTTGACTATGT
* * * *
59048419 GGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA--TAGAC-ATGTAGCACTAAGTGTGCGATTTGACTATGT
59048474 AGCACTAAGTGTGCGA
1 AGCACTAAGTGTGCGA
59048490 GTTGATTATA
Statistics
Matches: 103, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
50 4 0.04
51 1 0.01
52 40 0.39
54 15 0.15
55 38 0.37
56 1 0.01
57 4 0.04
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (52 bp):
AGCACTAAGTGTGCGATAGACATGTAGCACTAAGTGTGCGATTTGACTATGT
Found at i:59052081 original size:15 final size:17
Alignment explanation
Indices: 59052063--59052094 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
59052053 TAGCATAATT
59052063 TACCAAA-TCA-ATTCA
1 TACCAAACTCACATTCA
59052078 TACCAAACTCACATTCA
1 TACCAAACTCACATTCA
59052095 CAAGTATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (17 bp):
TACCAAACTCACATTCA
Found at i:59061184 original size:48 final size:48
Alignment explanation
Indices: 59061113--59061788 Score: 1135
Period size: 48 Copynumber: 14.0 Consensus size: 48
59061103 AGATAAATAT
59061113 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
59061161 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
59061209 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* **
59061257 --ATGCATATGTGGTAAAGATGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
59061303 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
59061351 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
59061399 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
59061447 --ATGCATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGAG
59061495 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
59061543 ATATGTATATGTGGTAAAGTCGAATTGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
59061591 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGATATATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGA-A-ATATGTATGAG
*
59061641 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
59061689 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGAG
* *
59061739 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
59061787 AT
1 AT
59061789 GTGTGTATAT
Statistics
Matches: 598, Mismatches: 20, Indels: 20
0.94 0.03 0.03
Matches are distributed among these distances:
46 75 0.13
47 2 0.00
48 389 0.65
49 8 0.01
50 124 0.21
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.32
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:59061436 original size:190 final size:190
Alignment explanation
Indices: 59061113--59061788 Score: 1163
Period size: 190 Copynumber: 3.5 Consensus size: 190
59061103 AGATAAATAT
59061113 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
59061178 AGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGT
66 AGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGT
** *
59061243 GAAATATGTATGAGATGCATATGTGGTAAAGATGAATGGCTAATGTGAAATATGTATGAG
131 GAAATATGTATGAGATGCATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
59061303 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
59061368 AGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGT
66 AGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGT
59061433 GAAATATGTATGAGATGCATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAG
131 GAAATATGTATGAGATGCATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATATATGAG
59061495 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
* * * *
59061560 AGTCGAATTGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGT
66 AGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGT
* *
59061625 GATATATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
131 GA-A-ATATGTATGAG--ATGCATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
* *
59061689 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATATGAGATATGTATATGTGGT
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGAGATATGTATATGTGGT
* *
59061754 AAAGCCGAATGGCTAGTGTGAAATATGTAGGAGAT
64 AAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
59061789 GTGTGTATAT
Statistics
Matches: 462, Mismatches: 16, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
190 175 0.38
191 2 0.00
192 138 0.30
193 1 0.00
194 55 0.12
195 4 0.01
196 87 0.19
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.32
Consensus pattern (190 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
AGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGT
GAAATATGTATGAGATGCATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
Found at i:59062028 original size:37 final size:37
Alignment explanation
Indices: 59061930--59062029 Score: 128
Period size: 37 Copynumber: 2.7 Consensus size: 37
59061920 GAAATATATT
* * * *
59061930 CCGGGTAAAACCCGATGACTACATGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTAGAGATTATGC
*
59061967 CCGGGTAAGACCCGATGACTACGTGTAGAGATTTTGC
1 CCGGGTAAGACCCGATGACTACGTGTAGAGATTATGC
* * *
59062004 CCGGGTAAGATCCGATAACCACGTGT
1 CCGGGTAAGACCCGATGACTACGTGT
59062030 GGGGACTATT
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 55 1.00
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTAGAGATTATGC
Found at i:59068147 original size:48 final size:48
Alignment explanation
Indices: 59068006--59068162 Score: 162
Period size: 48 Copynumber: 3.4 Consensus size: 48
59067996 GGTTATGTGC
* * * * *
59068006 GATCCCATGTAAGATCATGCCTGGGACATGGCTTTGTCATCGATATGT
1 GATCCCATGTAAGACCATGACTAGGACATGGCATTGGCATCGATATGT
* ** * * *
59068054 AATTTCGTGTAAGACCATAACTAGG-C-T---ATCGGCATCGATATGT
1 GATCCCATGTAAGACCATGACTAGGACATGGCATTGGCATCGATATGT
*
59068097 GATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGATATGT
1 GATCCCATGTAAGACCATGACTAGGACATGGCATTGGCATCGATATGT
*
59068145 GATCCTATGTAAGACCAT
1 GATCCCATGTAAGACCAT
59068163 ATCCAAGATT
Statistics
Matches: 85, Mismatches: 19, Indels: 10
0.75 0.17 0.09
Matches are distributed among these distances:
43 32 0.38
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 49 0.58
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.29
Consensus pattern (48 bp):
GATCCCATGTAAGACCATGACTAGGACATGGCATTGGCATCGATATGT
Found at i:59068180 original size:48 final size:48
Alignment explanation
Indices: 59068084--59068184 Score: 139
Period size: 48 Copynumber: 2.1 Consensus size: 48
59068074 CTAGGCTATC
* * * *
59068084 GGCATCGATATGTGATCCCATGTAAGACCATGTCTAGGACATGGCATT
1 GGCATCGATATGTGATCCCATGTAAGACCATATCCAAGACATGACATT
* **
59068132 GGCATCGATATGTGATCCTATGTAAGACCATATCCAAGATTTGACATT
1 GGCATCGATATGTGATCCCATGTAAGACCATATCCAAGACATGACATT
59068180 GGCAT
1 GGCAT
59068185 ACTACCATGT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (48 bp):
GGCATCGATATGTGATCCCATGTAAGACCATATCCAAGACATGACATT
Found at i:59068416 original size:54 final size:54
Alignment explanation
Indices: 59068343--59068451 Score: 191
Period size: 54 Copynumber: 2.0 Consensus size: 54
59068333 TGAATCAATG
*
59068343 AGACCTTGGAAGAAATGAATGAATGAATTATGATAATGAGTTTTATTATACATT
1 AGACCTTGGAAGAAATGAATGAATAAATTATGATAATGAGTTTTATTATACATT
* *
59068397 AGACCTTGGAAGAAGTGAATGAATAAATTATGATAATGAGTTTTATTGTACATT
1 AGACCTTGGAAGAAATGAATGAATAAATTATGATAATGAGTTTTATTATACATT
59068451 A
1 A
59068452 TGTAAATGGC
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.40, C:0.06, G:0.19, T:0.35
Consensus pattern (54 bp):
AGACCTTGGAAGAAATGAATGAATAAATTATGATAATGAGTTTTATTATACATT
Found at i:59072106 original size:23 final size:23
Alignment explanation
Indices: 59072051--59072164 Score: 81
Period size: 23 Copynumber: 4.8 Consensus size: 23
59072041 GGACTCACTA
* *
59072051 CAGCTCATATGAGCTTACCGATATAT
1 CAGCTCATAAGAGCTTA-C--TATTT
59072077 CAGCTC-TAAGAGCTTACTATTCT
1 CAGCTCATAAGAGCTTACTATT-T
* *
59072100 CAGCTCTTATGAGCTTACTGA-TT
1 CAGCTCATAAGAGCTTACT-ATTT
* *
59072123 CAGCTCATCAGAGTTTACTATTT
1 CAGCTCATAAGAGCTTACTATTT
* *
59072146 TAGCTTA-ATAGAGCTTACT
1 CAGCTCATA-AGAGCTTACT
59072165 GTCCATCAGC
Statistics
Matches: 72, Mismatches: 11, Indels: 13
0.75 0.11 0.14
Matches are distributed among these distances:
22 4 0.06
23 39 0.54
24 13 0.18
25 10 0.14
26 6 0.08
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (23 bp):
CAGCTCATAAGAGCTTACTATTT
Found at i:59072160 original size:46 final size:46
Alignment explanation
Indices: 59072076--59072165 Score: 112
Period size: 46 Copynumber: 2.0 Consensus size: 46
59072066 TACCGATATA
*
59072076 TCAGCTCTAAGAGCTTACTATTCTCAGCTCTTATGAGCTTACTGAT
1 TCAGCTCTAAGAGCTTACTATTCTCAGCTCTAATGAGCTTACTGAT
* * *
59072122 TCAGCTCATCAGAGTTTACTATT-TTAGCT-TAATAGAGCTTACTG
1 TCAGCTC-TAAGAGCTTACTATTCTCAGCTCTAAT-GAGCTTACTG
59072166 TCCATCAGCT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
45 3 0.08
46 22 0.58
47 13 0.34
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.38
Consensus pattern (46 bp):
TCAGCTCTAAGAGCTTACTATTCTCAGCTCTAATGAGCTTACTGAT
Found at i:59080046 original size:65 final size:65
Alignment explanation
Indices: 59079935--59080057 Score: 153
Period size: 65 Copynumber: 1.9 Consensus size: 65
59079925 CAGTATGCTC
* *
59079935 TACACGGCCTCACACACGGGCGTGTGATCGGCCATGTGGTACAAGTCAGTATATCCCCTCAATGG
1 TACACGGCCTCACACACGGGCGTGTGATCGGACATGTGGTACAAGTCAGTATACCCCCTCAATGG
* * *
59080000 TACACGGCCT-AGCACATGGGCGTGTGACTC-GAC-TGTGTTGATAAGTCAGTATACCCCC
1 TACACGGCCTCA-CACACGGGCGTGTGA-TCGGACATGTGGT-ACAAGTCAGTATACCCCC
59080058 CAGTTCTCAC
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
64 6 0.12
65 42 0.84
66 2 0.04
ACGTcount: A:0.23, C:0.28, G:0.26, T:0.23
Consensus pattern (65 bp):
TACACGGCCTCACACACGGGCGTGTGATCGGACATGTGGTACAAGTCAGTATACCCCCTCAATGG
Found at i:59088120 original size:40 final size:40
Alignment explanation
Indices: 59088019--59088200 Score: 239
Period size: 40 Copynumber: 4.5 Consensus size: 40
59088009 TATTCGGATG
59088019 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAGTTGCT
59088062 ATA-CCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTG-CT
**
59088101 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTG-CT
* *
59088141 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
*
59088181 ATATCC-GGCTAAAT-CCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
59088201 ATACTTGGGT
Statistics
Matches: 128, Mismatches: 8, Indels: 11
0.87 0.05 0.07
Matches are distributed among these distances:
38 8 0.06
39 14 0.11
40 73 0.57
41 2 0.02
42 28 0.22
43 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
Found at i:59096237 original size:27 final size:27
Alignment explanation
Indices: 59096181--59096274 Score: 163
Period size: 27 Copynumber: 3.5 Consensus size: 27
59096171 TAAATTGTAC
59096181 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAG-TTGATTATAT
59096209 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGATTATAT
59096236 AGCACTAAGTGTGCGAGTT-ATTATAT
1 AGCACTAAGTGTGCGAGTTGATTATAT
*
59096262 AGCACTGAGTGTG
1 AGCACTAAGTGTG
59096275 TGGACTTAAT
Statistics
Matches: 65, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
26 19 0.29
27 29 0.45
28 17 0.26
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATTATAT
Found at i:59102205 original size:40 final size:40
Alignment explanation
Indices: 59102168--59102388 Score: 251
Period size: 40 Copynumber: 5.7 Consensus size: 40
59102158 GCTACTCGTT
* *
59102168 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
59102208 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
59102248 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** *
59102288 CAAATGCCTTC-GG-CTTAGTCCGGA-TTAGT-ACTC-TA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
59102323 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
59102364 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
59102389 CATCATTCAA
Statistics
Matches: 163, Mismatches: 10, Indels: 16
0.86 0.05 0.08
Matches are distributed among these distances:
35 14 0.09
36 4 0.02
37 16 0.10
38 12 0.07
39 4 0.02
40 103 0.63
41 10 0.06
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:59105349 original size:40 final size:40
Alignment explanation
Indices: 59105294--59105517 Score: 270
Period size: 40 Copynumber: 5.5 Consensus size: 40
59105284 TATTCGGATG
59105294 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
59105334 ATATCCGGGCTAAGTCCCGAAGGCATTTCTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * * *
59105377 ATACCCTGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** ** * *
59105417 ATATCTTGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
59105457 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
59105497 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
59105518 ATACTTGGGT
Statistics
Matches: 159, Mismatches: 22, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
39 13 0.08
40 110 0.69
41 1 0.01
43 35 0.22
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:59105440 original size:83 final size:79
Alignment explanation
Indices: 59105298--59105517 Score: 275
Period size: 83 Copynumber: 2.7 Consensus size: 79
59105288 CGGATGATAT
*
59105298 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCC-GGCTAAGTCCCGAAGGCA-TTC
59105363 -TGCGAGTAGTTG-CTATAC
64 ATGC---TAG-TGACTATAC
* * *
59105381 CCTGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCTTGGCTAAGTCCCGAAGGCATTCA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATC-CGGCTAAGTCCCGAAGGCATTCA
*
59105446 TGCTAGTGACTATAT
65 TGCTAGTGACTATAC
* * *
59105461 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCCGGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGCTAAGTCCCGAAG
59105518 ATACTTGGGT
Statistics
Matches: 123, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
79 16 0.13
80 43 0.35
81 2 0.02
82 3 0.02
83 59 0.48
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGCTAAGTCCCGAAGGCATTCAT
GCTAGTGACTATAC
Found at i:59115917 original size:67 final size:66
Alignment explanation
Indices: 59115805--59116250 Score: 373
Period size: 67 Copynumber: 6.7 Consensus size: 66
59115795 GCTATAATGG
** * * * *
59115805 GGTATAACATGTAAGACCATATCTCAACTAT-GACAACATAGAGAGTCCACCATGACATTAAACA
1 GGTATAATGTGTAAGACCATAGCTC-ACTATGGA-AACATAAAGAGTTCACCAGGACATTAAACA
59115869 TGT
64 TGT
* * * ** *
59115872 GGTATTATGTGTAAGACCATAGCTCATCTATGGAAAGATACAGAGTTTGCCAGGACGTTAAACAT
1 GGTATAATGTGTAAGACCATAGCTCA-CTATGGAAACATAAAGAGTTCACCAGGACATTAAACAT
59115937 AGT
65 -GT
* * * * *
59115940 -GTATAATGTGTAAAACCATAGCTCGACTATGGCAACATAGACAGTTCACCAGGACATTGAACAT
1 GGTATAATGTGTAAGACCATAGCTC-ACTATGGAAACATAAAGAGTTCACCAGGACATTAAACAT
*
59116004 GG
65 GT
* * * * *
59116006 GGTATAATGTGTAAGACCATAGGTCGACTATGGTAACATAAAAAGTCCACCAGGACATGAAACAT
1 GGTATAATGTGTAAGACCATAGCTC-ACTATGGAAACATAAAGAGTTCACCAGGACATTAAACAT
59116071 AG-
65 -GT
** * ** *
59116073 GGTATAATGTGTAAGACCATAATTCGCTAT-GACAACATAAAGAGTTCACCAATATATTAAACAT
1 GGTATAATGTGTAAGACCATAGCTCACTATGGA-AACATAAAGAGTTCACCAGGACATTAAACAT
*
59116137 AT
65 GT
* * * ** *
59116139 GGTATATTGTGTAAGACCATAGCTTGACTATTGTTACATAGAGAGTTC-CCTAGGACATTAAACA
1 GGTATAATGTGTAAGACCATAGC-TCACTATGGAAACATAAAGAGTTCACC-AGGACATTAAACA
*
59116203 TGG
64 TGT
* * * * *
59116206 GGTATGATGTGTTAGACCACAGCTAACTAT-GACAACATATAGAGT
1 GGTATAATGTGTAAGACCATAGCTCACTATGGA-AACATAAAGAGT
59116251 CTGTTGGGAC
Statistics
Matches: 305, Mismatches: 62, Indels: 25
0.78 0.16 0.06
Matches are distributed among these distances:
65 2 0.01
66 69 0.23
67 227 0.74
68 7 0.02
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (66 bp):
GGTATAATGTGTAAGACCATAGCTCACTATGGAAACATAAAGAGTTCACCAGGACATTAAACATG
T
Found at i:59116059 original size:134 final size:133
Alignment explanation
Indices: 59115804--59116250 Score: 468
Period size: 134 Copynumber: 3.4 Consensus size: 133
59115794 GGCTATAATG
** * * *
59115804 GGGTATAACATGTAAGACCATATCTCAACTATGACAACATAGAGAGTCCACCATGACATTAAACA
1 GGGTATAATGTGTAAGACCATAGCTCAACTATGACAACATAGAGAGTTCACCAAGACATTAAACA
* * * * ** *
59115869 TGTGGTATTATGTGTAAGACCATAGCTC-ATCTATGGAAAGATACAGAGTTTGCCAGGACGTTAA
66 TGTGGTATAATGTGTAAGACCATAGCTCGA-CTATGGTAACATAAAGAG-TCCCCAGGACATTAA
59115933 ACATA
129 ACATA
* * * * * * *
59115938 GTGTATAATGTGTAAAACCATAGCTCGACTATGGCAACATAGACAGTTCACCAGGACATTGAACA
1 GGGTATAATGTGTAAGACCATAGCTCAACTATGACAACATAGAGAGTTCACCAAGACATTAAACA
* * * *
59116003 TGGGGTATAATGTGTAAGACCATAGGTCGACTATGGTAACATAAAAAGTCCACCAGGACATGAAA
66 TGTGGTATAATGTGTAAGACCATAGCTCGACTATGGTAACATAAAGAGTCC-CCAGGACATTAAA
59116068 CATA
130 CATA
** * * * *
59116072 GGGTATAATGTGTAAGACCATAATTC-GCTATGACAACATAAAGAGTTCACCAATATATTAAACA
1 GGGTATAATGTGTAAGACCATAGCTCAACTATGACAACATAGAGAGTTCACCAAGACATTAAACA
* * * * * * *
59116136 TATGGTATATTGTGTAAGACCATAGCTTGACTATTGTTACATAGAGAGTTCCCTAGGACATTAAA
66 TGTGGTATAATGTGTAAGACCATAGCTCGACTATGGTAACATAAAGAG-TCCCCAGGACATTAAA
*
59116201 CATG
130 CATA
* * * *
59116205 GGGTATGATGTGTTAGACCACAGCT-AACTATGACAACATATAGAGT
1 GGGTATAATGTGTAAGACCATAGCTCAACTATGACAACATAGAGAGT
59116251 CTGTTGGGAC
Statistics
Matches: 256, Mismatches: 53, Indels: 9
0.81 0.17 0.03
Matches are distributed among these distances:
133 122 0.48
134 133 0.52
135 1 0.00
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (133 bp):
GGGTATAATGTGTAAGACCATAGCTCAACTATGACAACATAGAGAGTTCACCAAGACATTAAACA
TGTGGTATAATGTGTAAGACCATAGCTCGACTATGGTAACATAAAGAGTCCCCAGGACATTAAAC
ATA
Found at i:59116205 original size:200 final size:201
Alignment explanation
Indices: 59115801--59116244 Score: 504
Period size: 200 Copynumber: 2.2 Consensus size: 201
59115791 ATGGGCTATA
** * * * * *
59115801 ATGGGGTATAACATGTAAGACCATATCTCAACTATGACAACATAGAGAGTCCACCATGACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCAACTATGACAACATAAAAAGTCCACCAGGACATGAA
* * * * * ** * *
59115866 ACATGTGGTATTATGTGTAAGACCATAGCTCATCTATGGAAAGATACAGAGTTTGCCAGGACGTT
66 ACATGTGGTATAATGTGTAAGACCATAACTCAGCTATGGAAACATAAAGAGTTCACCAAGACATT
59115931 AAACATAGTGTATAATGTGTAAAACCATAGCTCGACTATGGCAACATAGACAGTTCACCAGGACA
131 AAACATAGTGTATAATGTGTAAAACCATAGCTCGACTATGGCAACATAGACAGTTCACCAGGACA
*
59115996 TTGAAC
196 TTAAAC
* * **
59116002 ATGGGGTATAATGTGTAAGACCATAGGTCGACTATGGTAACATAAAAAGTCCACCAGGACATGAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCAACTATGACAACATAAAAAGTCCACCAGGACATGAA
* * *
59116067 ACATAG-GGTATAATGTGTAAGACCATAATTC-GCTAT-GACAACATAAAGAGTTCACCAATATA
66 ACAT-GTGGTATAATGTGTAAGACCATAACTCAGCTATGGA-AACATAAAGAGTTCACCAAGACA
* * * * ** *
59116129 TTAAACATA-TGGTATATTGTGTAAGACCATAGCTTGACTATTGTTACATAGAGAGTTC-CCTAG
129 TTAAACATAGT-GTATAATGTGTAAAACCATAGCTCGACTATGGCAACATAGACAGTTCACC-AG
59116192 GACATTAAAC
192 GACATTAAAC
* * *
59116202 ATGGGGTATGATGTGTTAGACCACAGCT-AACTATGACAACATA
1 ATGGGGTATAATGTGTAAGACCATAGCTCAACTATGACAACATA
59116245 TAGAGTCTGT
Statistics
Matches: 201, Mismatches: 38, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
199 17 0.08
200 103 0.51
201 80 0.40
202 1 0.00
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (201 bp):
ATGGGGTATAATGTGTAAGACCATAGCTCAACTATGACAACATAAAAAGTCCACCAGGACATGAA
ACATGTGGTATAATGTGTAAGACCATAACTCAGCTATGGAAACATAAAGAGTTCACCAAGACATT
AAACATAGTGTATAATGTGTAAAACCATAGCTCGACTATGGCAACATAGACAGTTCACCAGGACA
TTAAAC
Found at i:59117676 original size:343 final size:344
Alignment explanation
Indices: 59116993--59117683 Score: 1154
Period size: 342 Copynumber: 2.0 Consensus size: 344
59116983 CCTTAAAAGC
* *
59116993 AAGGTATCACAAATAGGGTGAAATACAAGGCAGTAACCCAAACAAAATTTCAAATTGAGTGTAGG
1 AAGGTATCAAAAATAGGGTGAAATACAAGGCAGTAACCCAAACAAAAATTCAAATTGAGTGTAGG
* *
59117058 GTAGAAGTAGAAAAGATGAAATAGAGTAAGTCTGCCATGGTGGCGTGGGTTTTTATTAGTGGCCT
66 GTAGAAGTAGAAAAGATGAAACAGAGTAAGTCTGCCAAGGTGGCGTGGGTTTTTATTAGTGGCCT
* * *
59117123 AAGTGTGGAATGCTAGTAAATATGCCTGAACTATTTTGAGATATAAGGATCAACTAAAGGGTACC
131 AAGGGTGGAATGCTAGTAAATATGCCAGAACTATTTTGAGATACAAGGATCAACTAAAGGGTACC
* *
59117188 ATGTAATGGGAGTTTTATTAAGGATAGAGCATACAATCAGACTTACAATCAAGGATGATGATGTG
196 ATGTAATGGGAGTTTTATTAAGGATAGAACATACAATCAGACTTACAACCAAGGATGATGATGTG
*
59117253 GCCAACAACTCACCAGGTTTCAAATTATAGGTCTATAAGTCGGGATAAAGGTAAATGGTTGTTCA
261 GCCAACAACTCACCAAGTTTCAAATTATAGGTCTATAAGTCGGGATAAAGGTAAATGGTTGTTCA
59117318 TAACCAGAAATGTGTGGAA
326 TAACCAGAAATGTGTGGAA
*
59117337 AAGGTATCAAAAATAGGGTGAAATACAAGGGAGTAACCCAAA-AAAAATTCAAATTGAGTGTAGG
1 AAGGTATCAAAAATAGGGTGAAATACAAGGCAGTAACCCAAACAAAAATTCAAATTGAGTGTAGG
*
59117401 GTGGAAGTAGAAAAGATGAAACAGAGTAAGTCTGCCAAGGTGGCGTGGG-TTTTATTAGTGGCCT
66 GTAGAAGTAGAAAAGATGAAACAGAGTAAGTCTGCCAAGGTGGCGTGGGTTTTTATTAGTGGCCT
* *
59117465 AAGGGTGGAATG-TCAGTAAATATGCCAGAACTATTTTGAGATACGAGGATCATCTAAAGGGTAC
131 AAGGGTGGAATGCT-AGTAAATATGCCAGAACTATTTTGAGATACAAGGATCAACTAAAGGGTAC
* * *
59117529 CATGTAATGGGAGTTTTATTAAGGATGGAACGTACAATCAGATTTACAACCAAGGATGATGATGT
195 CATGTAATGGGAGTTTTATTAAGGATAGAACATACAATCAGACTTACAACCAAGGATGATGATGT
*
59117594 GGCCAACAACTCACCAAGTTTCAAAGTTATAGGTCTATGAGTCGGGATAAAGGTAAATGGTTGTT
260 GGCCAACAACTCACCAAGTTTCAAA-TTATAGGTCTATAAGTCGGGATAAAGGTAAATGGTTGTT
* * *
59117659 CATGACTAGAGATGTGTGGAA
324 CATAACCAGAAATGTGTGGAA
59117680 AAGG
1 AAGG
59117684 GAAAGAAAGT
Statistics
Matches: 324, Mismatches: 21, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
341 1 0.00
342 156 0.48
343 127 0.39
344 40 0.12
ACGTcount: A:0.36, C:0.12, G:0.26, T:0.26
Consensus pattern (344 bp):
AAGGTATCAAAAATAGGGTGAAATACAAGGCAGTAACCCAAACAAAAATTCAAATTGAGTGTAGG
GTAGAAGTAGAAAAGATGAAACAGAGTAAGTCTGCCAAGGTGGCGTGGGTTTTTATTAGTGGCCT
AAGGGTGGAATGCTAGTAAATATGCCAGAACTATTTTGAGATACAAGGATCAACTAAAGGGTACC
ATGTAATGGGAGTTTTATTAAGGATAGAACATACAATCAGACTTACAACCAAGGATGATGATGTG
GCCAACAACTCACCAAGTTTCAAATTATAGGTCTATAAGTCGGGATAAAGGTAAATGGTTGTTCA
TAACCAGAAATGTGTGGAA
Found at i:59136714 original size:67 final size:67
Alignment explanation
Indices: 59136583--59136954 Score: 226
Period size: 67 Copynumber: 5.6 Consensus size: 67
59136573 ATGAGCTGTA
* * * *
59136583 ATGGGGTATACTGTGTAAGACCATAGCTCGACTATGACAACATAGAAAGTCCGCCATGAAATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGACAACAAAGAAAGTACGCCATAAAATTAA
59136648 AC
66 AC
* * *
59136650 ATGGGGTATAATGTAG-AAGACCATAGCTCGACTATGATAATAAAGAGAA-TATGCCA-AAACAT
1 ATGGGGTATAATGT-GTAAGACCATAGCTCGACTATGACAACAAAGA-AAGTACGCCATAAA-AT
59136712 TAAAC
63 TAAAC
* * * * * * * * * *
59136717 ATTGGATATGATGTGTAAGACCATAGCTCAAGTATGGA-AACATATAG-AA-TCCACTAGAACAT
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTAT-GACAACA-A-AGAAAGTACGCCATAAAAT
59136779 TAAAC
63 TAAAC
* * * * * * * ** *
59136784 ATGGGATATAATCTGTAAGACCATAGCT-TAGTTATGGCAAC-ATGAAATGT-CTGCTAGGACAT
1 ATGGGGTATAATGTGTAAGACCATAGCTCGA-CTATGACAACAAAGAAA-GTAC-GCCATAAAAT
59136846 TAAAC
63 TAAAC
* * * * * * * *
59136851 ATGGGGTATAATGTGTAAGACCATATCTCAACTATGGCAACATAGAGAGTTCACCA-AGATATTA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGACAACAAAGAAAGTACGCCATA-AAATTA
59136915 AAC
65 AAC
* * *
59136918 ATGAGGTATGATGTATGAA-ACCATAGCTCGACTATGA
1 ATGGGGTATAATGTGT-AAGACCATAGCTCGACTATGA
59136955 TAGCATATGA
Statistics
Matches: 241, Mismatches: 45, Indels: 38
0.74 0.14 0.12
Matches are distributed among these distances:
64 1 0.00
65 3 0.01
66 6 0.02
67 214 0.89
68 15 0.06
69 2 0.01
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (67 bp):
ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGACAACAAAGAAAGTACGCCATAAAATTAA
AC
Found at i:59136970 original size:134 final size:134
Alignment explanation
Indices: 59136583--59136970 Score: 362
Period size: 134 Copynumber: 2.9 Consensus size: 134
59136573 ATGAGCTGTA
* * * * * *
59136583 ATGGGGTATACTGTGTAAGACCATAGCTCGACTATGACAACATAGAAAGTCCGCCATGAAATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCAACTATGGCAACATAGAGAGTCCACCAAGAAATTAA
* * *
59136648 ACATGGGGTATAATGTA-GAAGACCATAGCTCGACTATGATA--ATAAAGAGAATATGCCAAAAC
66 ACAT-GGGTATAATGTATGAAGACCATAGCTCGACTATGATAGCAT-ATGA-AGTCTGCCAAAAC
59136710 ATTAAAC
128 ATTAAAC
* * * * * * * *
59136717 ATTGGATATGATGTGTAAGACCATAGCTCAAGTATGGAAACATATAGAATCCA-CTAGAACATTA
1 ATGGGGTATAATGTGTAAGACCATAGCTCAACTATGGCAACATAGAGAGTCCACCAAGAA-ATTA
* * * * * * * **
59136781 AACATGGGATATAATCTGT-AAGACCATAGCT-TAGT-T-ATGGCAACATGAAATGTCTGCTAGG
65 AACATGGG-TATAATGTATGAAGACCATAGCTCGACTATGATAGC-ATATG-AA-GTCTGCCAAA
59136842 ACATTAAAC
126 ACATTAAAC
* * *
59136851 ATGGGGTATAATGTGTAAGACCATATCTCAACTATGGCAACATAGAGAGTTCACCAAGATATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCAACTATGGCAACATAGAGAGTCCACCAAGAAATTAA
*
59136916 ACATGAGGTATGATGTATGAA-ACCATAGCTCGACTATGATAGCATATGAAGTCTG
66 ACATG-GGTATAATGTATGAAGACCATAGCTCGACTATGATAGCATATGAAGTCTG
59136971 TCGAGAAACT
Statistics
Matches: 196, Mismatches: 44, Indels: 28
0.73 0.16 0.10
Matches are distributed among these distances:
131 2 0.01
132 1 0.01
133 12 0.06
134 160 0.82
135 12 0.06
136 5 0.03
137 4 0.02
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.25
Consensus pattern (134 bp):
ATGGGGTATAATGTGTAAGACCATAGCTCAACTATGGCAACATAGAGAGTCCACCAAGAAATTAA
ACATGGGTATAATGTATGAAGACCATAGCTCGACTATGATAGCATATGAAGTCTGCCAAAACATT
AAAC
Found at i:59139245 original size:40 final size:40
Alignment explanation
Indices: 59139184--59139395 Score: 313
Period size: 40 Copynumber: 5.3 Consensus size: 40
59139174 CCTTCAGGGT
* *
59139184 TTAG-CCGGATATAGCT-ACTCGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGTTATAG-TAACTCGCACAAATGCCTTCGGGAC
*
59139223 TTAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGAC
1 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
59139263 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
59139303 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
* * * * *
59139343 TTAGCCCGG-AATTAGTCATTAGCACAAATGCCTTTGGGAC
1 TTAGCCCGGTTA-TAGTAACTCGCACAAATGCCTTCGGGAC
59139383 TTAGCCCGGTTAT
1 TTAGCCCGGTTAT
59139396 CATCTGAATA
Statistics
Matches: 159, Mismatches: 10, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 6 0.04
40 152 0.96
41 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:59141467 original size:43 final size:43
Alignment explanation
Indices: 59141403--59141606 Score: 198
Period size: 43 Copynumber: 4.8 Consensus size: 43
59141393 TAATTTTTTA
* * * *
59141403 ATAAAAATGCCCCTATAGAACATGACCTTTAGTGGCGCTTCTC
1 ATAAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTCTC
* * * * * *
59141446 ATAAAAACGTCGCTAAGGAACATGACTTTTTGCGACGCTTCTA
1 ATAAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTCTC
*** *
59141489 ATAAAAACGCTATTAAAGAACATGACCTTTAGCGGCGCTTTTC
1 ATAAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTCTC
* * * *
59141532 -CAGAAACGCCGCTAAAGAACATGACCTTTAACGGTGCTTTCTC
1 ATAAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGC-TTCTC
* *
59141575 CT-CAAACGCCGCTAAAG-ACATGACCTTTAGCG
1 ATAAAAACGCCGCTAAAGAACATGACCTTTAGCG
59141607 ACATTTTCCC
Statistics
Matches: 128, Mismatches: 31, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
42 44 0.34
43 84 0.66
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (43 bp):
ATAAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTCTC
Found at i:59144376 original size:48 final size:48
Alignment explanation
Indices: 59144303--59144544 Score: 385
Period size: 48 Copynumber: 5.0 Consensus size: 48
59144293 CAAGATAAAT
* *
59144303 ATATATATGTGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
59144351 ATATATATATGTGGTAAAGCTGAATGGCTAATGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* **
59144399 ATATGTATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
59144447 ATATATATATGTGGTAAATCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * * *
59144495 ATATGTATATTTGGTAAAGCCGAATGGCTAATGTGTAATATGTAGGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
59144543 AT
1 AT
59144545 GTGTGTATAT
Statistics
Matches: 178, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 178 1.00
ACGTcount: A:0.37, C:0.06, G:0.25, T:0.32
Consensus pattern (48 bp):
ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:59144735 original size:37 final size:37
Alignment explanation
Indices: 59144685--59144794 Score: 175
Period size: 37 Copynumber: 3.0 Consensus size: 37
59144675 GGAAATATAT
*
59144685 TCCGGGTAAGACCCGATTACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTATG
* *
59144722 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTATG
* *
59144759 TCCGGGTAAGACCCGATAACTATGTGTGGGGATTAT
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTAT
59144795 TCGAGCTAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATAACTACGTGTGGAGATTATG
Found at i:59146093 original size:23 final size:23
Alignment explanation
Indices: 59146067--59146145 Score: 122
Period size: 23 Copynumber: 3.4 Consensus size: 23
59146057 ACATAAAGAA
59146067 CATTTAAACACTTCAATTTACAG
1 CATTTAAACACTTCAATTTACAG
** *
59146090 CATTTAAGTACTTCAATTTACAA
1 CATTTAAACACTTCAATTTACAG
*
59146113 CATTTAAACACTTTAATTTACAG
1 CATTTAAACACTTCAATTTACAG
59146136 CATTTAAACA
1 CATTTAAACA
59146146 GCAGTAACCA
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.41, C:0.19, G:0.04, T:0.37
Consensus pattern (23 bp):
CATTTAAACACTTCAATTTACAG
Found at i:59148798 original size:95 final size:95
Alignment explanation
Indices: 59148635--59148845 Score: 327
Period size: 95 Copynumber: 2.2 Consensus size: 95
59148625 AACGTCGTAG
* * *
59148635 ACAGGACGGCTAAAGGCCGTAAATATCGCAGCAACGCTGCCAGTTAACAGAATGACTATAAGCCA
1 ACAGGACGGCTACAGGCCGTAAATATCGCAACAACGCTGCCAGTTAAAAGAATGACTATAAGCCA
59148700 TAAGTAT-GACAGAAAGGATGAAAGCCTTAT
66 TAAGTATCG-CAGAAAGGATGAAAGCCTTAT
59148730 ACAGGACGGCTACAGGCCGTAAATATCGCAACAACGCTGCCAGTTAAAAGAACTG-CTATAAGCC
1 ACAGGACGGCTACAGGCCGTAAATATCGCAACAACGCTGCCAGTTAAAAGAA-TGACTATAAGCC
* *
59148794 ATAAGTATCGCAGAAAGGCTGAAAGTCTTAT
65 ATAAGTATCGCAGAAAGGATGAAAGCCTTAT
* *
59148825 ACAGGACGACTACAAGCCGTA
1 ACAGGACGGCTACAGGCCGTA
59148846 CACTTCCTCC
Statistics
Matches: 107, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
95 104 0.97
96 3 0.03
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.18
Consensus pattern (95 bp):
ACAGGACGGCTACAGGCCGTAAATATCGCAACAACGCTGCCAGTTAAAAGAATGACTATAAGCCA
TAAGTATCGCAGAAAGGATGAAAGCCTTAT
Found at i:59150723 original size:18 final size:20
Alignment explanation
Indices: 59150689--59150730 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
59150679 CATGATGTGT
59150689 AAATAGTATTTTCTTTC-AA
1 AAATAGTATTTTCTTTCTAA
*
59150708 AAATAG-ATTTTTTTTCTAA
1 AAATAGTATTTTCTTTCTAA
59150727 AAAT
1 AAAT
59150731 CTCACTAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.48
Consensus pattern (20 bp):
AAATAGTATTTTCTTTCTAA
Found at i:59156752 original size:71 final size:73
Alignment explanation
Indices: 59156661--59156809 Score: 194
Period size: 71 Copynumber: 2.1 Consensus size: 73
59156651 TTTGGGTATA
* * * * *
59156661 AAATAGAAGAACAGGTTGAGAAAGGCTGAGAAAAAAAAGGAAATTGGGAAAGAAAAGGGAA-TCG
1 AAATAGAAGAACAGGCTGAGAAAGGCTAAGAAAAAAAAGGAAATCGAGAAAGAAAAGGAAATTCG
59156725 G-GGAGAG
66 GAGGAGAG
* * * * *
59156732 AAATAGAGGAACAGGCTGAGAATGGCTAAGAAATAAAAGGAAATCGAGAAAGAAGAGGAAATTGG
1 AAATAGAAGAACAGGCTGAGAAAGGCTAAGAAAAAAAAGGAAATCGAGAAAGAAAAGGAAATTCG
59156797 GAGGAGAG
66 GAGGAGAG
59156805 AAATA
1 AAATA
59156810 TAACGGCGTC
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
71 52 0.79
72 3 0.05
73 11 0.17
ACGTcount: A:0.51, C:0.05, G:0.34, T:0.11
Consensus pattern (73 bp):
AAATAGAAGAACAGGCTGAGAAAGGCTAAGAAAAAAAAGGAAATCGAGAAAGAAAAGGAAATTCG
GAGGAGAG
Found at i:59157302 original size:17 final size:18
Alignment explanation
Indices: 59157269--59157302 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
59157259 TATCTCTTAA
59157269 ATAATTTAAACTATATTG
1 ATAATTTAAACTATATTG
*
59157287 ATAATTTTAA-TATATT
1 ATAATTTAAACTATATT
59157303 AAAATTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (18 bp):
ATAATTTAAACTATATTG
Found at i:59157746 original size:21 final size:20
Alignment explanation
Indices: 59157722--59157768 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
59157712 ATAAAACATA
59157722 AACCTTAAACCTTAAACCCCT
1 AACCTTAAACCTT-AACCCCT
* *
59157743 AACCCTTAACCCTTAACCTCT
1 AA-CCTTAAACCTTAACCCCT
59157764 AACCT
1 AACCT
59157769 CTAACCCCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 3 0.13
21 10 0.43
22 10 0.43
ACGTcount: A:0.34, C:0.40, G:0.00, T:0.26
Consensus pattern (20 bp):
AACCTTAAACCTTAACCCCT
Found at i:59157836 original size:15 final size:15
Alignment explanation
Indices: 59157801--59157838 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
59157791 AACCATTAAA
59157801 CCATAAA-CCATAAT
1 CCATAAACCCATAAT
*
59157815 CCCTAAACCCATAAT
1 CCATAAACCCATAAT
*
59157830 CTATAAACC
1 CCATAAACC
59157839 TTAAAATAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.45, C:0.34, G:0.00, T:0.21
Consensus pattern (15 bp):
CCATAAACCCATAAT
Found at i:59157843 original size:22 final size:21
Alignment explanation
Indices: 59157791--59157901 Score: 57
Period size: 22 Copynumber: 5.1 Consensus size: 21
59157781 CTTAAACCCC
59157791 AACCATTAAACCATAAACCATA
1 AACC-TTAAACCATAAACCATA
* * * *
59157813 ATCCCTAAACCCATAATCTATA
1 AACCTTAAA-CCATAAACCATA
*
59157835 AACCTTAAA--ATAGTAACTCCTA
1 AACCTTAAACCATA--AAC-CATA
*
59157857 AAGCTTAAAACC-TAAACCATA
1 AACCTT-AAACCATAAACCATA
* ** *
59157878 TACCCAAAACCATAAACCCTA
1 AACCTTAAACCATAAACCATA
59157899 AAC
1 AAC
59157902 TATAATGATA
Statistics
Matches: 64, Mismatches: 17, Indels: 17
0.65 0.17 0.17
Matches are distributed among these distances:
19 3 0.05
20 5 0.08
21 21 0.33
22 30 0.47
23 3 0.05
24 2 0.03
ACGTcount: A:0.49, C:0.29, G:0.02, T:0.21
Consensus pattern (21 bp):
AACCTTAAACCATAAACCATA
Found at i:59158370 original size:40 final size:39
Alignment explanation
Indices: 59158326--59158471 Score: 139
Period size: 40 Copynumber: 3.7 Consensus size: 39
59158316 ATTTTTTTGC
*
59158326 GGCGTTTTTCAAAAACCGCCACTAATGGTCGACCTATAGT
1 GGCGTTTTTCAAAAAGCGCCACTAATGGTCGA-CTATAGT
** *
59158366 GGCGTTTTAGAAAAAGCGCCACTAATGGTTGACTATAGT
1 GGCGTTTTTCAAAAAGCGCCACTAATGGTCGACTATAGT
* * * ** * *
59158405 GGTGTTTTTTAAAAAACGCTGCTAATGCTCTATCTATAGT
1 GGCGTTTTTCAAAAAGCGCCACTAATGGTCGA-CTATAGT
* * * *
59158445 AGCATTTTTCTAAAAGCGCCGCTAATG
1 GGCGTTTTTCAAAAAGCGCCACTAATG
59158472 CTACTAAAGC
Statistics
Matches: 85, Mismatches: 20, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 30 0.35
40 55 0.65
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.32
Consensus pattern (39 bp):
GGCGTTTTTCAAAAAGCGCCACTAATGGTCGACTATAGT
Found at i:59158616 original size:194 final size:195
Alignment explanation
Indices: 59158228--59158647 Score: 457
Period size: 194 Copynumber: 2.2 Consensus size: 195
59158218 TGATAAAGCA
* * * * ** *
59158228 CCGCTAAAGCTCGATCTACAACGGCATTTTTCAAAAAACGTTGCTAATTGCCACTAAAGCTTAAA
1 CCGCTAATGCTCGATCTATAGCAGCATTTTTCAAAAAACGCCGCTAATTGCCACTAAAGCTCAAA
** *
59158293 ATAAAACGACAGCGTTGTGCTTAATTTTTTTGCGGCGTTTTTCAAAAACCGCCACTAATGGTCGA
66 ATAAAACGACAGCGTTGTGCTTAATTTTTTTGCGGCGTTTTTCAAAAAAAGCCACTAATGCTCGA
* * * * * * *
59158358 CCTATAGTGGCGTTTTAGAAAAAGCGCCACTAATGGTTGACTATAGTGGTGTTTTTTAAAAAACG
131 CCTATAGCGACGTTTTACAAAAAGCGCCACTAATGCTCGACTATAGTGGCGCTTTTTAAAAAACG
* * * * * * *
59158423 CTGCTAATGCTCTATCTATAGTAGCATTTTTCTAAAAGCGCCGCTAA-TGCTACTAAAGCTCAAC
1 CCGCTAATGCTCGATCTATAGCAGCATTTTTCAAAAAACGCCGCTAATTGCCACTAAAGCTCAAA
** * ** *
59158487 ATAAAACGAGGGC-TTGTGCTTAATTTTTTTGCGGCGTTTTTTAAAAAAAGCTGCTAATTCTCGA
66 ATAAAACGACAGCGTTGTGCTTAATTTTTTTGCGGCGTTTTTCAAAAAAAGCCACTAATGCTCGA
* * * * * ** *
59158551 TCTATAGCGATGTTTTTCAAAAAGTGTCGTTAATGCTCGACCTATAGTGGCGCTTTTTGAAAAAC
131 CCTATAGCGACGTTTTACAAAAAGCGCCACTAATGCTCGA-CTATAGTGGCGCTTTTTAAAAAAC
59158616 G
195 G
* *
59158617 CCGCTAATGCTCGATCTGTAGCGGCATTTTT
1 CCGCTAATGCTCGATCTATAGCAGCATTTTT
59158648 TATCCAAACG
Statistics
Matches: 181, Mismatches: 43, Indels: 3
0.80 0.19 0.01
Matches are distributed among these distances:
193 72 0.40
194 73 0.40
195 36 0.20
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.33
Consensus pattern (195 bp):
CCGCTAATGCTCGATCTATAGCAGCATTTTTCAAAAAACGCCGCTAATTGCCACTAAAGCTCAAA
ATAAAACGACAGCGTTGTGCTTAATTTTTTTGCGGCGTTTTTCAAAAAAAGCCACTAATGCTCGA
CCTATAGCGACGTTTTACAAAAAGCGCCACTAATGCTCGACTATAGTGGCGCTTTTTAAAAAACG
Found at i:59158648 original size:40 final size:40
Alignment explanation
Indices: 59158517--59158649 Score: 108
Period size: 40 Copynumber: 3.3 Consensus size: 40
59158507 TAATTTTTTT
* * *
59158517 GCGGCGTTTTTTAAAAAAAGCTGCTAATTCTCGATCTATA
1 GCGGCATTTTTTAAAAAAAGCCGCTAATGCTCGATCTATA
** * * *
59158557 GC-G-ATGTTTTTCAAAAAGTGTCGTTAATGCTCGACCTATA
1 GCGGCAT-TTTTT-AAAAAAAGCCGCTAATGCTCGATCTATA
* ** * * *
59158597 GTGGCGCTTTTTGAAAAACGCCGCTAATGCTCGATCTGTA
1 GCGGCATTTTTTAAAAAAAGCCGCTAATGCTCGATCTATA
59158637 GCGGCATTTTTTA
1 GCGGCATTTTTTA
59158650 TCCAAACGCC
Statistics
Matches: 67, Mismatches: 22, Indels: 8
0.69 0.23 0.08
Matches are distributed among these distances:
38 1 0.01
39 6 0.09
40 54 0.81
41 6 0.09
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.35
Consensus pattern (40 bp):
GCGGCATTTTTTAAAAAAAGCCGCTAATGCTCGATCTATA
Found at i:59173898 original size:43 final size:43
Alignment explanation
Indices: 59173816--59173933 Score: 159
Period size: 43 Copynumber: 2.8 Consensus size: 43
59173806 TTTGAATTCA
* * *
59173816 TTCACTGACATT-TCGCCTGCTAGGCTCGAAGCCCGATATTAT
1 TTCACTGACATTATAGCCTACTAGGCTCGAAGCCCAATATTAT
* *
59173858 TTCACCGACATTATAGCCTACTAGGCTCGAGGCCCAATATTAT
1 TTCACTGACATTATAGCCTACTAGGCTCGAAGCCCAATATTAT
* *
59173901 TTCACTGGCATTATAG-CTTCTAGGCTCGAAGCC
1 TTCACTGACATTATAGCCTACTAGGCTCGAAGCC
59173934 TGAATTCATC
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
42 26 0.39
43 40 0.61
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.30
Consensus pattern (43 bp):
TTCACTGACATTATAGCCTACTAGGCTCGAAGCCCAATATTAT
Found at i:59174956 original size:9 final size:9
Alignment explanation
Indices: 59174932--59174970 Score: 60
Period size: 9 Copynumber: 4.2 Consensus size: 9
59174922 CTCAAACTTA
*
59174932 ATTTATAAC
1 ATTTAAAAC
59174941 TATTTAAAAC
1 -ATTTAAAAC
59174951 ATTTAAAAC
1 ATTTAAAAC
59174960 ATTTAAAAC
1 ATTTAAAAC
59174969 AT
1 AT
59174971 CCAACACCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
9 20 0.71
10 8 0.29
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.38
Consensus pattern (9 bp):
ATTTAAAAC
Found at i:59179916 original size:21 final size:21
Alignment explanation
Indices: 59179884--59179948 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 21
59179874 GAAGCTTGAA
59179884 AGCT-AAACAGAAGCTCATAAG
1 AGCTGAAA-AGAAGCTCATAAG
* *
59179905 AGCTGAATAGAAGCTCGTAAG
1 AGCTGAAAAGAAGCTCATAAG
* *
59179926 AGCTTAAAAGAAGCTCATGAG
1 AGCTGAAAAGAAGCTCATAAG
59179947 AG
1 AG
59179949 TTGATCCACC
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
21 35 0.95
22 2 0.05
ACGTcount: A:0.43, C:0.15, G:0.25, T:0.17
Consensus pattern (21 bp):
AGCTGAAAAGAAGCTCATAAG
Found at i:59180494 original size:17 final size:18
Alignment explanation
Indices: 59180464--59180505 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
59180454 AGTTAATTCA
*
59180464 TCAAATTAACTAATTT-TC
1 TCAAA-TAAATAATTTATC
59180482 TCAAATAAATAATTTATC
1 TCAAATAAATAATTTATC
59180500 -CAAATA
1 TCAAATA
59180506 TTCTAGGCCC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (18 bp):
TCAAATAAATAATTTATC
Found at i:59190092 original size:40 final size:40
Alignment explanation
Indices: 59190048--59190140 Score: 116
Period size: 40 Copynumber: 2.3 Consensus size: 40
59190038 TCGGTATCGT
* *
59190048 ACACTTAGTGCCAGATAAAGCTGAAGCTAT-TCCAATTCGC
1 ACACTAAGTGCCAGATAAAGCTGAAGCTATCTCCAA-ACGC
* * * *
59190088 ACACTAAGTGCTATATATAGCTGAAGCTATCTCGAAACGC
1 ACACTAAGTGCCAGATAAAGCTGAAGCTATCTCCAAACGC
59190128 ACACTAAGTGCCA
1 ACACTAAGTGCCA
59190141 AACATAGTCG
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
40 41 0.91
41 4 0.09
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (40 bp):
ACACTAAGTGCCAGATAAAGCTGAAGCTATCTCCAAACGC
Found at i:59192277 original size:74 final size:74
Alignment explanation
Indices: 59192196--59192342 Score: 294
Period size: 74 Copynumber: 2.0 Consensus size: 74
59192186 CCTATGAGTA
59192196 TTTGCACAATTTCAATCCATATAACTATATCAACTCAATGAGATTCATATACATAATATCATCTA
1 TTTGCACAATTTCAATCCATATAACTATATCAACTCAATGAGATTCATATACATAATATCATCTA
59192261 CCACTTAGT
66 CCACTTAGT
59192270 TTTGCACAATTTCAATCCATATAACTATATCAACTCAATGAGATTCATATACATAATATCATCTA
1 TTTGCACAATTTCAATCCATATAACTATATCAACTCAATGAGATTCATATACATAATATCATCTA
59192335 CCACTTAG
66 CCACTTAG
59192343 GCATTATACA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 73 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.35
Consensus pattern (74 bp):
TTTGCACAATTTCAATCCATATAACTATATCAACTCAATGAGATTCATATACATAATATCATCTA
CCACTTAGT
Found at i:59194472 original size:46 final size:46
Alignment explanation
Indices: 59194422--59194594 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
59194412 TGGTTGAGCA
59194422 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
59194468 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
59194513 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
59194561 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
59194595 GGGGCGGGTT
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:59194578 original size:93 final size:93
Alignment explanation
Indices: 59194419--59194589 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
59194409 GGATGGTTGA
* *
59194419 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
59194484 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
59194512 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
59194577 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
59194590 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:59200889 original size:47 final size:46
Alignment explanation
Indices: 59200772--59200942 Score: 189
Period size: 44 Copynumber: 3.8 Consensus size: 46
59200762 GGATGGTTGA
59200772 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTA-GGATGCGAAT
* *
59200819 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GT-GAGATG-TAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTAG-GATGCGAA-T
59200862 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TA-GGATGCGAAT
*
59200911 -C--CCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
59200943 TAGGGGCGGG
Statistics
Matches: 108, Mismatches: 5, Indels: 26
0.78 0.04 0.19
Matches are distributed among these distances:
42 3 0.03
43 6 0.06
44 30 0.28
45 30 0.28
46 1 0.01
47 30 0.28
49 1 0.01
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTAGGATGCGAAT
Found at i:59207093 original size:46 final size:46
Alignment explanation
Indices: 59207043--59207215 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
59207033 TGGTTGAGCA
59207043 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
59207089 TCCGAACTCTTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
59207134 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
59207182 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
59207216 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 60 0.56
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:59207199 original size:93 final size:93
Alignment explanation
Indices: 59207040--59207210 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
59207030 GGATGGTTGA
* * *
59207040 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCTTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
59207105 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
59207133 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
59207198 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
59207211 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:59221111 original size:39 final size:39
Alignment explanation
Indices: 59221026--59221238 Score: 193
Period size: 39 Copynumber: 5.5 Consensus size: 39
59221016 GCTCCTCGTT
* * *
59221026 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTTGCA
1 CAAATGCCTTC-GGACTTAACCCGGATT-TAGTAACTCGCA
* *
59221066 CTAATGCCTTTGCGACTTAACCCGGATTTA-TAACTCGCA
1 CAAATGCCTTCG-GACTTAACCCGGATTTAGTAACTCGCA
59221105 CAAATGCCTTCGGACTTAA-CC-GATTTAGTAACTCGCA
1 CAAATGCCTTCGGACTTAACCCGGATTTAGTAACTCGCA
* * * * * *
59221142 CCAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTTGCA
1 CAAATGCCTTCGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
59221181 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAACCCGGATTTAGTAAC-TCGCA
59221222 CAAA-GCCTTCGGACTTA
1 CAAATGCCTTCGGACTTA
59221239 GCTCGGACAT
Statistics
Matches: 144, Mismatches: 22, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
36 6 0.04
37 27 0.19
38 9 0.06
39 48 0.33
40 44 0.31
41 10 0.07
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.28
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:59221182 original size:76 final size:78
Alignment explanation
Indices: 59221026--59221200 Score: 203
Period size: 76 Copynumber: 2.2 Consensus size: 78
59221016 GCTCCTCGTT
* * * * * *
59221026 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTTGCACTAATGCCTTTGCGACTTAACCCGG
1 CAAATGCCTTC-GGACTTAGACCGATTATAGTAACTCGCACCAATGCCTTCGCGACTTAACCCGG
*
59221091 ATTTATAACTCGCA
65 AATTATAACTCGCA
* *
59221105 CAAATGCCTTCGGACTTA-ACCGATT-TAGTAACTCGCACCAATGCCTTCG-GGCTTAGCCCGGA
1 CAAATGCCTTCGGACTTAGACCGATTATAGTAACTCGCACCAATGCCTTCGCGACTTAACCCGGA
* *
59221167 ATTAGTATCTTGCA
66 ATTA-TAACTCGCA
59221181 CAAATGCCTTCGGATCTTAG
1 CAAATGCCTTCGGA-CTTAG
59221201 TCCGGATATG
Statistics
Matches: 82, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
75 14 0.17
76 42 0.51
77 9 0.11
78 6 0.07
79 11 0.13
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (78 bp):
CAAATGCCTTCGGACTTAGACCGATTATAGTAACTCGCACCAATGCCTTCGCGACTTAACCCGGA
ATTATAACTCGCA
Found at i:59223944 original size:33 final size:34
Alignment explanation
Indices: 59223907--59223986 Score: 92
Period size: 36 Copynumber: 2.3 Consensus size: 34
59223897 AATTCAATTT
* * *
59223907 TAATATAAATA-TTCAATATGATTAAA-AATTTAA
1 TAATATAAATAGTACAAAATG-TGAAATAATTTAA
59223940 TAATATAAATAGTACAAAATGTGAAATTTAATTTAA
1 TAATATAAATAGTACAAAATGTGAAA--TAATTTAA
59223976 TAATATAAATA
1 TAATATAAATA
59223987 ATAGATATAA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
33 15 0.38
34 7 0.17
36 18 0.45
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.38
Consensus pattern (34 bp):
TAATATAAATAGTACAAAATGTGAAATAATTTAA
Found at i:59224311 original size:21 final size:21
Alignment explanation
Indices: 59224285--59224334 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
59224275 GGAGTAAAGT
59224285 TTTGGGGAAAAAGTAAAAACG
1 TTTGGGGAAAAAGTAAAAACG
** *
59224306 TTTGGGGGTAAAGTAAAAATG
1 TTTGGGGAAAAAGTAAAAACG
59224327 TTTAGGGG
1 TTT-GGGG
59224335 TTTAGGATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.38, C:0.02, G:0.34, T:0.26
Consensus pattern (21 bp):
TTTGGGGAAAAAGTAAAAACG
Found at i:59224335 original size:21 final size:21
Alignment explanation
Indices: 59224294--59224335 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
59224284 TTTTGGGGAA
*
59224294 AAAGTAAAAACGTTTGGGGGT
1 AAAGTAAAAACGTTTAGGGGT
*
59224315 AAAGTAAAAATGTTTAGGGGT
1 AAAGTAAAAACGTTTAGGGGT
59224336 TTAGGATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.02, G:0.31, T:0.26
Consensus pattern (21 bp):
AAAGTAAAAACGTTTAGGGGT
Found at i:59228763 original size:100 final size:96
Alignment explanation
Indices: 59228570--59228761 Score: 241
Period size: 98 Copynumber: 2.0 Consensus size: 96
59228560 CAGAAGGCCT
*
59228570 GAAAAGAGGCCCAAGCTTGCCTTCTTTGATATGATGGTGAATGGTTGGGGAATTATCCTGAAGAA
1 GAAAAGAGGCCCAAGCTTGCCTTCTTTGATATGATGGTGAATGGTTGGGGAATTATCCTGAAAAA
59228635 ATCACCCCAATATAAACAAGACCTCCCCTCC
66 ATCACCCCAATATAAACAAGACCTCCCCTCC
* *
59228666 GAAAAGAGGCCCGAGC-TGCCTTCTTT-ATATTGATGGATGGAATGTTTTGAGGG-ATTAT-CTG
1 GAAAAGAGGCCCAAGCTTGCCTTCTTTGATA-TGATGG-T-GAATG-GTTG-GGGAATTATCCT-
*
59228727 GAAAAAATCACTACCCAATATACACAAG-CCTCCCC
60 GAAAAAATCAC--CCCAATATAAACAAGACCTCCCC
59228762 CTGCCCCCTA
Statistics
Matches: 84, Mismatches: 4, Indels: 13
0.83 0.04 0.13
Matches are distributed among these distances:
94 3 0.04
95 16 0.19
96 16 0.19
97 7 0.08
98 18 0.21
99 10 0.12
100 14 0.17
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (96 bp):
GAAAAGAGGCCCAAGCTTGCCTTCTTTGATATGATGGTGAATGGTTGGGGAATTATCCTGAAAAA
ATCACCCCAATATAAACAAGACCTCCCCTCC
Found at i:59231068 original size:40 final size:39
Alignment explanation
Indices: 59230984--59231206 Score: 283
Period size: 40 Copynumber: 5.7 Consensus size: 39
59230974 TTGAATGATG
* * *
59230984 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-A
* *
59231024 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
59231063 TTCCGGGCTAAG-CCCGAAGGCA-TTGTGCGAGTTACTAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
*
59231101 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AA
*
59231141 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* *
59231181 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
59231207 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 11, Indels: 16
0.86 0.06 0.08
Matches are distributed among these distances:
37 10 0.06
38 25 0.15
39 25 0.15
40 96 0.59
41 8 0.05
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:59231238 original size:79 final size:78
Alignment explanation
Indices: 59230984--59231239 Score: 216
Period size: 79 Copynumber: 3.3 Consensus size: 78
59230974 TTGAATGATG
* * * * * * * *
59230984 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 TCCGGGTTAAATCCCGAAGGCATTGTGC-GAGTTACTA-AACCGGGCTAAG-TCCCGAAGGCATT
** *
59231048 TGTGCGAGAT-ACTAAT
63 TGAACGAG-TGACTAAA
* * * * *
59231064 TCCGGGCT-AAGCCCGAAGGCATTGTGCGAGTTACTAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 TCCGGGTTAAATCCCGAAGGCATTGTGCGAGTTACTAAACCGGGCTAAGTCCCGAAGGCATTTGA
* *
59231128 GCGAGTTACTAAA
66 ACGAGTGACTAAA
* *
59231141 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAATCCCGAAGGCA-TTGTGCGAGTTACTA-AACCGGGCTAAGTCCCGAAGGCATTT
*
59231206 GAACGAG-GAGCTATA
64 GAACGAGTGA-CTAAA
*
59231221 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAATCCCGAAGG
59231240 TACGTGATTT
Statistics
Matches: 149, Mismatches: 21, Indels: 13
0.81 0.11 0.07
Matches are distributed among these distances:
76 2 0.01
77 41 0.28
78 17 0.11
79 46 0.31
80 43 0.29
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (78 bp):
TCCGGGTTAAATCCCGAAGGCATTGTGCGAGTTACTAAACCGGGCTAAGTCCCGAAGGCATTTGA
ACGAGTGACTAAA
Found at i:59239052 original size:40 final size:39
Alignment explanation
Indices: 59238962--59239186 Score: 247
Period size: 40 Copynumber: 5.6 Consensus size: 39
59238952 TTTAATGATG
* * * *
59238962 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
59239002 TCCGGACTAAGATCCGAAGGCATTTGTGCAAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
59239042 TTCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
59239081 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAA
*
59239121 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
59239162 -CCGGGCTATGTTCCGAAGGCATTTG
1 TCCGGGCTAAG-TCCGAAGGCATTTG
59239187 AACGAGGAGC
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
39 32 0.20
40 118 0.73
41 11 0.07
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:59239204 original size:80 final size:80
Alignment explanation
Indices: 59238962--59239219 Score: 215
Period size: 80 Copynumber: 3.2 Consensus size: 80
59238952 TTTAATGATG
* * * * * * *
59238962 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCAT
** * *
59239025 TTGTGCAAGAT-ACTAAT
64 TTGAACGAG-TGACTAAA
* * *
59239042 TTCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
** *
59239106 GTGCGAGTTACTAAA
66 GAACGAGTGACTAAA
* * *
59239121 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTTCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
*
59239185 TGAACGAG-GAGCTATA
65 TGAACGAGTGA-CTAAA
* *
59239201 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
59239220 TACGTGATTT
Statistics
Matches: 150, Mismatches: 22, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.01
79 72 0.48
80 74 0.49
81 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GAACGAGTGACTAAA
Found at i:59241120 original size:8 final size:8
Alignment explanation
Indices: 59241102--59241132 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
59241092 ACTGAAAAAA
59241102 AAAACCTTC
1 AAAA-CTTC
59241111 AAAACTTC
1 AAAACTTC
59241119 AAAACTTC
1 AAAACTTC
59241127 AAAACT
1 AAAACT
59241133 AAACAAAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 18 0.82
9 4 0.18
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.23
Consensus pattern (8 bp):
AAAACTTC
Found at i:59241642 original size:22 final size:22
Alignment explanation
Indices: 59241599--59241654 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 22
59241589 TAGTCATATA
* * *
59241599 ATAAATTATTAATATAAGAAAT
1 ATAATTTATTATTTTAAGAAAT
*
59241621 ATAATTTATTATTTTAATAAAT
1 ATAATTTATTATTTTAAGAAAT
*
59241643 -T-ATTTAATATTT
1 ATAATTTATTATTT
59241655 CAATTTTATT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 10 0.34
21 1 0.03
22 18 0.62
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
ATAATTTATTATTTTAAGAAAT
Found at i:59241755 original size:15 final size:15
Alignment explanation
Indices: 59241735--59241791 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
59241725 ATTCAATATT
59241735 AATATTTTAATAATA
1 AATATTTTAATAATA
*
59241750 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
59241769 AATATATTAATAATA
1 AATATTTTAATAATA
*
59241784 AATGTTTT
1 AATATTTT
59241792 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:59243311 original size:13 final size:13
Alignment explanation
Indices: 59243293--59243318 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
59243283 TTTCAATCGT
59243293 TAATATATATATA
1 TAATATATATATA
59243306 TAATATATATATA
1 TAATATATATATA
59243319 GACAATATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TAATATATATATA
Found at i:59245323 original size:41 final size:42
Alignment explanation
Indices: 59245266--59245388 Score: 149
Period size: 43 Copynumber: 2.9 Consensus size: 42
59245256 TAGGGTTAGT
59245266 TAAGATTACGTGTAAGACCATATC-GGGATATGGCATTGATA
1 TAAGATTACGTGTAAGACCATATCTGGGATATGGCATTGATA
** * * *
59245307 TAAGATTTTGTGTAAGACCATAGCTGGGCTATTGGCATCGATA
1 TAAGATTACGTGTAAGACCATATCTGGGATA-TGGCATTGATA
* ** *
59245350 TGAGATCCCATGTAAGACCATATCTGGGATATGGCATTG
1 TAAGATTACGTGTAAGACCATATCTGGGATATGGCATTG
59245389 GTATGGTACT
Statistics
Matches: 67, Mismatches: 13, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
41 21 0.31
42 12 0.18
43 34 0.51
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (42 bp):
TAAGATTACGTGTAAGACCATATCTGGGATATGGCATTGATA
Found at i:59251602 original size:40 final size:39
Alignment explanation
Indices: 59251553--59251680 Score: 168
Period size: 40 Copynumber: 3.2 Consensus size: 39
59251543 CTCATTCAAT
*
59251553 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACAAAA
1 GCCTTCGGGACTTAACCCGGA-ATTAAAACTCGCACAAAA
* * *
59251593 GCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAG
1 GCCTTCGGGACTTAACCCGGAATTA-AAACTCGCACAAAA
*
59251633 GCCTTCGGGACTTAACCCAGAATTAATAACTCGCACAAATA
1 GCCTTCGGGACTTAACCCGGAATTAA-AACTCGCACAAA-A
59251674 -CCTTCGG
1 GCCTTCGG
59251681 ATCTTAGTCC
Statistics
Matches: 77, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (39 bp):
GCCTTCGGGACTTAACCCGGAATTAAAACTCGCACAAAA
Found at i:59251612 original size:79 final size:81
Alignment explanation
Indices: 59251514--59251680 Score: 191
Period size: 80 Copynumber: 2.1 Consensus size: 81
59251504 TCGTTCAAGT
* * ** * * *
59251514 GCCTTCGGGACATAGCCCGGTCA-TAGTAACTCATTC-AATGCCTTCGGGACTTAACCCGGATTT
1 GCCTTCGGGACATAACCCGG-AATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCAGA-AT
59251577 TAA-AACTCGCACAAA-A
64 TAATAACTCGCACAAATA
* * *
59251593 GCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAGGCCTTCGGGACTTAACCCAGAATTA
1 GCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCAGAATTA
59251658 ATAACTCGCACAAATA
66 ATAACTCGCACAAATA
59251674 -CCTTCGG
1 GCCTTCGG
59251681 ATCTTAGTCC
Statistics
Matches: 74, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
78 1 0.01
79 31 0.42
80 41 0.55
81 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (81 bp):
GCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCAGAATTA
ATAACTCGCACAAATA
Found at i:59251664 original size:80 final size:80
Alignment explanation
Indices: 59251553--59251726 Score: 207
Period size: 80 Copynumber: 2.2 Consensus size: 80
59251543 CTCATTCAAT
* *
59251553 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACAAA-AGCCTTCGGGA-CTTAACCCGGA-A
1 GCCTTCGGGACTTAACCCAGATATTAAAACTCGCACAAATA-CCTTC-GGATCTTAACCCGGATA
*
59251615 TTAGT-A-TCTCGCACAAA
64 -TAGTCACT-TAGCACAAA
**
59251632 GGCCTTCGGGACTTAACCCAGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCAGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
59251696 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
59251713 GCCTTCGGGACTTA
1 GCCTTCGGGACTTA
59251727 GCCCGGACAG
Statistics
Matches: 83, Mismatches: 5, Indels: 12
0.83 0.05 0.12
Matches are distributed among these distances:
79 7 0.08
80 64 0.77
81 11 0.13
82 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCAGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:59255959 original size:48 final size:46
Alignment explanation
Indices: 59255873--59256003 Score: 174
Period size: 47 Copynumber: 2.8 Consensus size: 46
59255863 CTTCCGTCGA
* * *
59255873 GGCCGATGCATGTCCTAGACATGTCTTACACTGGCACTCAT-CTCT
1 GGCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATAATGT
* *
59255918 GTGCCGATGCCATGTCCCAGACATGGTCTTATATTGGCACTCATAATGT
1 G-GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATAATGT
*
59255967 GGCTGATGCATGTCCCAGACATGTCTTACACTGGCAC
1 GGCCGATGCATGTCCCAGACATGTCTTACACTGGCAC
59256004 ACAAGAAATC
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
45 1 0.01
46 20 0.27
47 27 0.36
48 23 0.31
49 3 0.04
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.28
Consensus pattern (46 bp):
GGCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATAATGT
Found at i:59256147 original size:17 final size:17
Alignment explanation
Indices: 59256122--59256154 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
59256112 ATACTATATC
*
59256122 AATTTAATGACAATTCG
1 AATTCAATGACAATTCG
59256139 AATTCAATGACAATTC
1 AATTCAATGACAATTC
59256155 AAATACATAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.33
Consensus pattern (17 bp):
AATTCAATGACAATTCG
Found at i:59259299 original size:46 final size:46
Alignment explanation
Indices: 59259227--59259400 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
59259217 TGTAATCTGC
*
59259227 CCATAAGGGAACTCGGACTCAACTCAACGAGCTCGAGCATTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCATTCGTAT
* * * *
59259273 CCATAAGTGAACTCGGACTCAGCTCAACGAGCTC-AGGATGCCTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCATTCGTA--T
* * * * *
59259320 ACATCTCA-CGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCATTCGTAT
*
59259367 CCATAAGTGAACTCGGACTCAACTCAATGAGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC
59259401 TGATGCCCAA
Statistics
Matches: 104, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
45 9 0.09
46 57 0.55
47 6 0.06
48 25 0.24
49 7 0.07
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCATTCGTAT
Found at i:59268914 original size:43 final size:42
Alignment explanation
Indices: 59268825--59268938 Score: 149
Period size: 43 Copynumber: 2.7 Consensus size: 42
59268815 GTTAAGATTA
* **
59268825 CATGTAAGACCATATCTGGGATATGGCATCAATATGATATTT
1 CATGTAAGACCATATCTGGGATATGGCATCAATATGAGATCC
* *
59268867 CATGTAAGACCATAGT-TGGGCTATTGGCATCGATATGAGATCC
1 CATGTAAGACCATA-TCTGGGATA-TGGCATCAATATGAGATCC
*
59268910 CATGTAAGACCATATCTGGGATTTGGCAT
1 CATGTAAGACCATATCTGGGATATGGCAT
59268939 TGGTATGGTA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
42 27 0.44
43 35 0.56
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.31
Consensus pattern (42 bp):
CATGTAAGACCATATCTGGGATATGGCATCAATATGAGATCC
Found at i:59280811 original size:21 final size:21
Alignment explanation
Indices: 59280772--59280812 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
59280762 ATTACTCTAA
*
59280772 GGAAGCCGATTGATCCATCTC
1 GGAAGCCGATTCATCCATCTC
59280793 GGAAGCCGGATTCAT-CATCT
1 GGAAGCC-GATTCATCCATCT
59280813 AAACTGAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (21 bp):
GGAAGCCGATTCATCCATCTC
Found at i:59288120 original size:21 final size:21
Alignment explanation
Indices: 59288082--59288121 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
59288072 TTACTCCAAG
*
59288082 GAAGCTGATTGATCCATCTCA
1 GAAGCTGATTCATCCATCTCA
59288103 GAAGCTGGATTCAT-CATCT
1 GAAGCT-GATTCATCCATCT
59288122 AGACTGAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (21 bp):
GAAGCTGATTCATCCATCTCA
Found at i:59292485 original size:42 final size:42
Alignment explanation
Indices: 59292388--59292534 Score: 138
Period size: 43 Copynumber: 3.4 Consensus size: 42
59292378 ATGCCAATGT
* *
59292388 CCAGACGCGGTCTTACA-TGTAATCAAATATCGATGCC-ACTATC
1 CCAGACGTGGTCTTACACT-AAATCAAATA-CGATGCCAAC-ATC
* ** *
59292431 CTAGACAAGGTCTTACACTAAATCAAATACGATGCCAACGTC
1 CCAGACGTGGTCTTACACTAAATCAAATACGATGCCAACATC
* *
59292473 CCAGACGTGGTCTTACACGTAAAACATAAGT-CAATGCCAACATC
1 CCAGACGTGGTCTTACAC-TAAATCA-AA-TACGATGCCAACATC
*
59292517 CCAGACGTGATCTTACAC
1 CCAGACGTGGTCTTACAC
59292535 GATAACACAT
Statistics
Matches: 87, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
42 24 0.28
43 31 0.36
44 31 0.36
45 1 0.01
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.22
Consensus pattern (42 bp):
CCAGACGTGGTCTTACACTAAATCAAATACGATGCCAACATC
Found at i:59294852 original size:26 final size:26
Alignment explanation
Indices: 59294823--59294904 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
59294813 TGGTACAAAT
59294823 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
59294849 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
59294875 TGATAATGGGTTAGCTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
59294901 TGAT
1 TGAT
59294905 GGGAATTTCA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 51 1.00
ACGTcount: A:0.33, C:0.09, G:0.23, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:59302409 original size:93 final size:93
Alignment explanation
Indices: 59302297--59302468 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
59302287 CGCCCATAAG
*
59302297 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
59302361 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
59302390 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
59302455 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
59302469 TCAACCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:59302463 original size:46 final size:46
Alignment explanation
Indices: 59302290--59302465 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
59302280 TGTAACCCGC
* *
59302290 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
59302336 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
59302386 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
59302429 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
59302466 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 61 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:59309039 original size:46 final size:46
Alignment explanation
Indices: 59308983--59309158 Score: 173
Period size: 46 Copynumber: 3.8 Consensus size: 46
59308973 TGATTGAGCA
59308983 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
59309029 TCCGAACTCGTTGAGTTGAGTACGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
** *
59309074 CATCTAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
59309122 -CCTGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59309159 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 16, Indels: 20
0.74 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 4 0.04
46 58 0.56
47 26 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:59319306 original size:43 final size:42
Alignment explanation
Indices: 59319245--59319362 Score: 141
Period size: 42 Copynumber: 2.8 Consensus size: 42
59319235 CAATGCCAAC
* **
59319245 GTCCCTGACGTGGTCTTACATGTTATCAAATATCGAT-ACCAAT
1 GTCCCAGACGTGGTCTTACATGAAATCAAATA-CGATGA-CAAT
* *
59319288 GTCCCAGACAG-GGTCTTACACGAAATCATATACGATGACAAT
1 GTCCCAGAC-GTGGTCTTACATGAAATCAAATACGATGACAAT
*
59319330 GTCCCAGACGTGGTCTTACATGAAATCACATAC
1 GTCCCAGACGTGGTCTTACATGAAATCAAATAC
59319363 CAAAATCCTA
Statistics
Matches: 65, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
41 1 0.02
42 37 0.57
43 26 0.40
44 1 0.02
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (42 bp):
GTCCCAGACGTGGTCTTACATGAAATCAAATACGATGACAAT
Found at i:59322243 original size:29 final size:29
Alignment explanation
Indices: 59322184--59322241 Score: 98
Period size: 30 Copynumber: 2.0 Consensus size: 29
59322174 CAAATAGCCG
*
59322184 AAGCTAGTTAAATTGCACACTTAGTGCCC
1 AAGCTAGTTAAATCGCACACTTAGTGCCC
59322213 AAGCTAGTTTAAATCGCACACTTAGTGCC
1 AAGCTAG-TTAAATCGCACACTTAGTGCC
59322242 AAAACTTCCG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 7 0.26
30 20 0.74
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTAGTGCCC
Found at i:59325208 original size:37 final size:37
Alignment explanation
Indices: 59325158--59325236 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
59325148 TTATTACGAA
* * *
59325158 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
59325195 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
59325232 GTCTT
1 GTCTT
59325237 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:59325465 original size:47 final size:47
Alignment explanation
Indices: 59325354--59325670 Score: 571
Period size: 47 Copynumber: 6.7 Consensus size: 47
59325344 GCCCTTCGGG
*
59325354 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
59325404 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
59325451 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
59325498 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
59325545 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
59325592 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
59325639 ACTTTCACATTCATCACATCGGCCATTAGGCC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC
59325671 ATACTATCAT
Statistics
Matches: 264, Mismatches: 3, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
47 225 0.85
49 35 0.13
50 4 0.02
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
Found at i:59325538 original size:22 final size:23
Alignment explanation
Indices: 59325505--59325585 Score: 67
Period size: 22 Copynumber: 3.5 Consensus size: 23
59325495 TACACTTTCA
59325505 CATTCATCACATCGGCCATTAGG
1 CATTCATCACATCGGCCATTAGG
**** ***
59325528 CATT-ATCACATATATACACTTTCA
1 CATTCATCACAT-CGGCCA-TTAGG
59325552 CATTCATCACATCGGCCATTAGG
1 CATTCATCACATCGGCCATTAGG
59325575 CATT-ATCACAT
1 CATTCATCACAT
59325586 ATATACACTT
Statistics
Matches: 41, Mismatches: 14, Indels: 7
0.66 0.23 0.11
Matches are distributed among these distances:
22 14 0.34
23 12 0.29
24 8 0.20
25 7 0.17
ACGTcount: A:0.31, C:0.28, G:0.10, T:0.31
Consensus pattern (23 bp):
CATTCATCACATCGGCCATTAGG
Found at i:59325561 original size:25 final size:24
Alignment explanation
Indices: 59325483--59325610 Score: 75
Period size: 25 Copynumber: 5.4 Consensus size: 24
59325473 CCATTAGGCC
59325483 TTATCACATATATACACTTTCACA
1 TTATCACATATATACACTTTCACA
**** ***
59325507 TTCATCACAT-CGGCCA-TTAGGCA
1 TT-ATCACATATATACACTTTCACA
59325530 TTATCACATATATACACTTTCACA
1 TTATCACATATATACACTTTCACA
**** ***
59325554 TTCATCACAT-CGGCCA-TTAGGCA
1 TT-ATCACATATATACACTTTCACA
59325577 TTATCACATATATACACTTTCACA
1 TTATCACATATATACACTTTCACA
59325601 TTCATCACAT
1 TT-ATCACAT
59325611 CGGCCATTAG
Statistics
Matches: 69, Mismatches: 28, Indels: 13
0.63 0.25 0.12
Matches are distributed among these distances:
22 14 0.20
23 16 0.23
24 18 0.26
25 21 0.30
ACGTcount: A:0.33, C:0.27, G:0.06, T:0.34
Consensus pattern (24 bp):
TTATCACATATATACACTTTCACA
Found at i:59329474 original size:40 final size:40
Alignment explanation
Indices: 59329188--59329528 Score: 384
Period size: 40 Copynumber: 8.5 Consensus size: 40
59329178 AGCATGATTA
* * * *
59329188 CTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
* ** * *
59329228 CTCTTTGGGGTTTAGCACGGATATATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
*
59329268 CTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
* * *
59329308 CTCCTCGGGACTTAGCCCGGATATATCACTAGCATGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
* *
59329348 CTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
* *
59329388 CTCTTCGGGACTTAGCCCGGATACATCGCTAGCATGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
** * * *
59329428 CTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAATG
1 CTCTTCGGGACTTAGCCCGGATACA-TCACTAGCACGAATG
* ** *
59329469 C-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC-AAAG
1 CTCTTCGGGA-CTTAGCCCGGATA-CATCAC-TAGCACGAATG
59329509 C-CTTCGGGACTTAGCCCGGA
1 CTCTTCGGGACTTAGCCCGGA
59329529 CATCATTCGA
Statistics
Matches: 259, Mismatches: 37, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
39 3 0.01
40 237 0.92
41 19 0.07
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
Found at i:59329873 original size:29 final size:29
Alignment explanation
Indices: 59329834--59329912 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
59329824 CTTAATAATC
*
59329834 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
59329864 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
59329893 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
59329913 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:59329955 original size:43 final size:43
Alignment explanation
Indices: 59329894--59330039 Score: 292
Period size: 43 Copynumber: 3.4 Consensus size: 43
59329884 TGCATTTCAA
59329894 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
59329937 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
59329980 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
59330023 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
59330040 TGAAAACCAA
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 103 1.00
ACGTcount: A:0.27, C:0.36, G:0.15, T:0.23
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:59331955 original size:37 final size:37
Alignment explanation
Indices: 59331905--59331983 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
59331895 TTATTACGAA
* * *
59331905 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
59331942 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
59331979 GTCTT
1 GTCTT
59331984 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:59332212 original size:47 final size:47
Alignment explanation
Indices: 59332101--59332464 Score: 692
Period size: 47 Copynumber: 7.7 Consensus size: 47
59332091 GCCCTTCGGG
*
59332101 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
59332151 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
59332198 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
59332245 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
59332292 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
59332339 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
59332386 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
59332433 ACTTTCACATTCATCACATCGGCCATTAGGCC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC
59332465 ATACTATCAT
Statistics
Matches: 313, Mismatches: 1, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
47 275 0.88
49 34 0.11
50 4 0.01
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
Found at i:59336561 original size:117 final size:119
Alignment explanation
Indices: 59336381--59336603 Score: 278
Period size: 117 Copynumber: 1.9 Consensus size: 119
59336371 TTGAATGATG
*
59336381 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
59336446 GTACGAG-TACTA-AATCCGGACTAAG-CCGAAGGCATTTGTGCGAGTTACTAAA
66 GTACGAGTTACTATAA-CCGGACTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * * *
59336498 TCCGGGTTAAGTCCCGAAGGCATTTGTG-TGAGTTACTAAATTCGGGA-TAAG-TCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAA-TCCGGACTAAGAT-CCGAAGGCA
* * *
59336560 TTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTG
63 TTTGTACGAGTTACTATAACCGGACTAAG-CCCGAAGGCATTTG
59336604 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
116 1 0.01
117 50 0.56
118 24 0.27
119 2 0.02
120 13 0.14
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (119 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTACGAGTTACTATAACCGGACTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:59336617 original size:40 final size:40
Alignment explanation
Indices: 59336381--59336603 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
59336371 TTGAATGATG
* * * *
59336381 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
59336421 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAG-TACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
59336460 TCCGGACTAAG--CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
59336498 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
59336538 TTCGGGATAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
59336579 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
59336604 AACGAGTAGC
Statistics
Matches: 161, Mismatches: 16, Indels: 12
0.85 0.08 0.06
Matches are distributed among these distances:
37 18 0.11
38 16 0.10
39 15 0.09
40 103 0.64
41 9 0.06
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:59342039 original size:47 final size:47
Alignment explanation
Indices: 59341988--59342402 Score: 652
Period size: 47 Copynumber: 8.7 Consensus size: 47
59341978 TTAGGATTCT
* * *
59341988 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
*
59342035 ATGTGATGAATGTGAAAGTGTATATACATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATAT--ATGTGATAAGGCCTAATGGCCG
59342084 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
59342131 ATGTGATGAATTTGAAAGTGTATATACATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATAT--ATGTGATAAGGCCTAATGGCCG
59342180 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
59342227 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
59342274 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
59342321 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
59342368 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
59342403 TCCCGAAGGG
Statistics
Matches: 344, Mismatches: 19, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
46 1 0.00
47 253 0.74
49 90 0.26
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:59342099 original size:96 final size:96
Alignment explanation
Indices: 59341988--59342402 Score: 660
Period size: 96 Copynumber: 4.4 Consensus size: 96
59341978 TTAGGATTCT
* * *
59341988 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
59342052 GTGTATATACATGTGATAAGGCCTAATAGCCG
65 GTGTATATACATGTGATAAGGCCTAATAGCCG
*
59342084 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATTTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
59342149 TGTATATACATGTGATAAGGCCTAATAGCCG
66 TGTATATACATGTGATAAGGCCTAATAGCCG
59342180 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
59342245 TGTATAT--ATGTGATAAGGCCTAATGGCCG
66 TGTATATACATGTGATAAGGCCTAATAGCCG
59342274 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* * * * * *
59342339 TGTATAT--ATGTGACAGGGCCGAGTGGCCA
66 TGTATATACATGTGATAAGGCCTAATAGCCG
* * *
59342368 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
59342403 TCCCGAAGGG
Statistics
Matches: 304, Mismatches: 14, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
94 142 0.47
95 1 0.00
96 161 0.53
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (96 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATACATGTGATAAGGCCTAATAGCCG
Found at i:59342571 original size:37 final size:37
Alignment explanation
Indices: 59342521--59342673 Score: 261
Period size: 37 Copynumber: 4.1 Consensus size: 37
59342511 CCGAGCTCTA
59342521 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
*
59342558 AAGACCCGATGACTACGTGTGGGGATTTCGTCCGGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
59342595 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
* * * *
59342632 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
59342669 AAGAC
1 AAGAC
59342674 TTCGTAATAA
Statistics
Matches: 110, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 110 1.00
ACGTcount: A:0.22, C:0.20, G:0.33, T:0.25
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
Found at i:59344334 original size:27 final size:28
Alignment explanation
Indices: 59344250--59344347 Score: 126
Period size: 27 Copynumber: 3.5 Consensus size: 28
59344240 CATGAGATTG
* * * *
59344250 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
59344279 GCACTAAATGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
59344307 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
59344334 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
59344348 GACTTAATAT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 24 0.39
28 21 0.34
29 17 0.27
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:59344358 original size:27 final size:27
Alignment explanation
Indices: 59344278--59344360 Score: 87
Period size: 27 Copynumber: 3.0 Consensus size: 27
59344268 TAAATTGTAC
* * *
59344278 AGCACTAAATGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
59344306 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
59344333 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
59344360 A
1 A
59344361 CTTTTGAATC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
27 30 0.61
28 19 0.39
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:59346064 original size:27 final size:27
Alignment explanation
Indices: 59346034--59346209 Score: 194
Period size: 27 Copynumber: 6.6 Consensus size: 27
59346024 ATATTAAGTC
* * *
59346034 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* * *
59346061 CGCACACTTAGTGCCACATAATCAA-A
1 CGCACACTTAGTGCTACATAGTCAACT
59346087 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
** * *
59346114 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
59346141 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* *
59346168 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
59346195 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
59346210 GTACAATTTA
Statistics
Matches: 127, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
26 23 0.18
27 103 0.81
28 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:59346198 original size:81 final size:80
Alignment explanation
Indices: 59346055--59346208 Score: 229
Period size: 81 Copynumber: 1.9 Consensus size: 80
59346045 TGCTATATAA
* *
59346055 TCAACTCGCACACTTAGTGCCACATAATCAAACGCACACTTAGTGCTACATAGTCAACTCGCACA
1 TCAACTCGCACACTTAGTGCCACATAATCAAACGCACACTTAGTGCAACATAGTCAAATCGCACA
59346120 CTTAGTGCCGCATGG
66 CTTAGTGCCGCATGG
* * **
59346135 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCA-AACGCACACTTAGTGCAACATAGTCAAATCGCA
59346199 CACTTAGTGC
64 CACTTAGTGC
59346209 TGTACAATTT
Statistics
Matches: 66, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
79 2 0.03
80 25 0.38
81 39 0.59
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (80 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAACGCACACTTAGTGCAACATAGTCAAATCGCACA
CTTAGTGCCGCATGG
Found at i:59353255 original size:29 final size:27
Alignment explanation
Indices: 59353111--59353259 Score: 116
Period size: 25 Copynumber: 5.6 Consensus size: 27
59353101 TAATTGTACA
* *
59353111 GCACT-AGTG-GCGATTTGACTATGTT
1 GCACTAAGTGTGCGAGTTGACTATGTG
**
59353136 GCACTTAAGTGTTGGCGAAATGA-TATGAT-
1 GCAC-TAAGTG-T-GCGAGTTGACTATG-TG
* * *
59353165 -CACTAAGTGTGCGAATTG-CCATGCG
1 GCACTAAGTGTGCGAGTTGACTATGTG
59353190 GCACT-AGTGTGCGAGTTGACTATGT-
1 GCACTAAGTGTGCGAGTTGACTATGTG
*
59353215 GCACTAAGTGTGCGAGTTTGATTATGTGG
1 GCACTAAGTGTGCGAG-TTGACTATGT-G
59353244 GCACTAAGTGTGCGAG
1 GCACTAAGTGTGCGAG
59353260 ATTATATATA
Statistics
Matches: 101, Mismatches: 9, Indels: 24
0.75 0.07 0.18
Matches are distributed among these distances:
25 31 0.31
26 20 0.20
27 19 0.19
28 3 0.03
29 20 0.20
30 8 0.08
ACGTcount: A:0.23, C:0.15, G:0.31, T:0.30
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGTTGACTATGTG
Found at i:59353280 original size:26 final size:27
Alignment explanation
Indices: 59353244--59353296 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
59353234 GATTATGTGG
59353244 GCACTAAGTGTGCGAGA-TT-ATATATA
1 GCACTAAGTGTGCG-GACTTAATATATA
*
59353270 GCACTGAGTGTGCGGACTTAATATATA
1 GCACTAAGTGTGCGGACTTAATATATA
59353297 TTCTTGAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 2 0.08
26 15 0.62
27 7 0.29
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (27 bp):
GCACTAAGTGTGCGGACTTAATATATA
Found at i:59355484 original size:104 final size:103
Alignment explanation
Indices: 59355305--59355496 Score: 316
Period size: 104 Copynumber: 1.9 Consensus size: 103
59355295 AACCGTTATT
* * *
59355305 GGTGGATCTCGCACTTAGCACCACCACTGAATTGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
59355370 ATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATAC
66 ATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATAC
59355408 GGTGGATATCGCACTTAGCACC-CACAATGAAATCGGGGAATCAGCACCTTAGCAACCCCTC-GG
1 GGTGGATATCGCACTTAGCACCAC-CAATG-AATCGGGGAATCAGCA-CTTAGCAACCCCTCGGG
59355471 GGAATCAGCACATAGCAACCCCCTTT
63 GGAATCAGCACATAGCAACCCCCTTT
59355497 CATCTCTCNN
Statistics
Matches: 83, Mismatches: 3, Indels: 5
0.91 0.03 0.05
Matches are distributed among these distances:
102 1 0.01
103 25 0.30
104 43 0.52
105 14 0.17
ACGTcount: A:0.29, C:0.31, G:0.21, T:0.20
Consensus pattern (103 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATAC
Found at i:59355494 original size:27 final size:27
Alignment explanation
Indices: 59355440--59355492 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
59355430 CACAATGAAA
*
59355440 TCGGGGAATCAGCACCTTAGCAACCCC
1 TCGGGGAATCAGCACCATAGCAACCCC
59355467 TCGGGGAATCAGCA-CATAGCAACCCC
1 TCGGGGAATCAGCACCATAGCAACCCC
59355493 CTTTCATCTC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 11 0.44
27 14 0.56
ACGTcount: A:0.28, C:0.36, G:0.23, T:0.13
Consensus pattern (27 bp):
TCGGGGAATCAGCACCATAGCAACCCC
Found at i:59362521 original size:26 final size:26
Alignment explanation
Indices: 59362486--59362537 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
59362476 AATGTGAAAG
*
59362486 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
59362512 GGGGTTGCTAAGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
59362538 TTCATTGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.13, C:0.23, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:59362599 original size:102 final size:104
Alignment explanation
Indices: 59362409--59362672 Score: 437
Period size: 103 Copynumber: 2.6 Consensus size: 104
59362399 TGTATATAAA
** *
59362409 AGGGGTTGCTGTGTGCTGATTCCCCG-TTCATTGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
*
59362472 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCCG
65 TTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
59362511 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
59362576 TGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
59362614 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
59362673 ATAACGGTTA
Statistics
Matches: 153, Mismatches: 6, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
102 48 0.31
103 104 0.68
104 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.30
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:59379698 original size:46 final size:46
Alignment explanation
Indices: 59379648--59379816 Score: 173
Period size: 46 Copynumber: 3.7 Consensus size: 46
59379638 TGGTTGAGCA
* *
59379648 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * * * *
59379694 TCCGAACTCGTTGAGTTGAGTCCAAGTTC-GTGA--AATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
59379739 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
59379787 CCCTAGCTCGTTGAGTTGAGTCCAAGTTCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA
59379817 ATTAGGGTCC
Statistics
Matches: 98, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
43 4 0.04
45 4 0.04
46 53 0.54
47 28 0.29
48 4 0.04
50 5 0.05
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:59379797 original size:93 final size:93
Alignment explanation
Indices: 59379645--59379815 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
59379635 GGATGGTTGA
* * *
59379645 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
59379710 TGAGTCCAAGTTCGTGAAATGTAACTAG
66 TGAGTCCAAGTTCGTGAAATGTAACTAG
* *
59379738 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCTAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
59379803 TGAGTCCAAGTTC
66 TGAGTCCAAGTTC
59379816 AATTAGGGTC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
TGAGTCCAAGTTCGTGAAATGTAACTAG
Found at i:59389360 original size:38 final size:38
Alignment explanation
Indices: 59389318--59389393 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
59389308 TGTGACTAAC
59389318 TCTTTGATTGAGTGCATGTGATAGAGAACCATGTCATA
1 TCTTTGATTGAGTGCATGTGATAGAGAACCATGTCATA
59389356 TCTTTGATTGAGTGCATGTGATAGAGAACCATGTCATA
1 TCTTTGATTGAGTGCATGTGATAGAGAACCATGTCATA
59389394 CTTGTTGGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.29, C:0.13, G:0.24, T:0.34
Consensus pattern (38 bp):
TCTTTGATTGAGTGCATGTGATAGAGAACCATGTCATA
Found at i:59390313 original size:18 final size:20
Alignment explanation
Indices: 59390276--59390315 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
59390266 CTAAGGGCAT
59390276 GGGCGTGTCTTAAGCCACAC
1 GGGCGTGTCTTAAGCCACAC
*
59390296 GGGCGTGT-TTGA-CCACAC
1 GGGCGTGTCTTAAGCCACAC
59390314 GG
1 GG
59390316 CCCACCTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 3 0.16
20 8 0.42
ACGTcount: A:0.17, C:0.28, G:0.35, T:0.20
Consensus pattern (20 bp):
GGGCGTGTCTTAAGCCACAC
Found at i:59400872 original size:29 final size:27
Alignment explanation
Indices: 59400828--59400962 Score: 164
Period size: 27 Copynumber: 4.9 Consensus size: 27
59400818 GAGATTGGCG
* * *
59400828 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAG-TT-AATTATATAGCA
*
59400857 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAG-TTAATTATATAGCA
*
59400885 CTAAGTGTGCGAGTTGATTATATAGCA
1 CTAAGTGTGCGAGTTAATTATATAGCA
59400912 CTAAGTGTGCGAGTTAATTATATAGCA
1 CTAAGTGTGCGAGTTAATTATATAGCA
* *
59400939 CTGAGTGTGCGGACTTAA-TATATA
1 CTAAGTGTGC-GAGTTAATTATATA
59400963 CTTTTGAATC
Statistics
Matches: 98, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
27 55 0.56
28 28 0.29
29 15 0.15
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
CTAAGTGTGCGAGTTAATTATATAGCA
Done.