Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 154 of 344
Found at i:51272769 original size:46 final size:46
Alignment explanation
Indices: 51272650--51272777 Score: 188
Period size: 45 Copynumber: 2.8 Consensus size: 46
51272640 TGTAACCCGC
* * * *
51272650 CCATAAGCGAACTCGAACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
*
51272696 CCA-AAATGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
51272741 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
51272778 TGCTCAATCA
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
44 2 0.03
45 37 0.50
46 35 0.47
ACGTcount: A:0.32, C:0.30, G:0.20, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:51279252 original size:36 final size:36
Alignment explanation
Indices: 51279211--51279324 Score: 160
Period size: 36 Copynumber: 3.2 Consensus size: 36
51279201 ATAAATGAAT
* * *
51279211 ATATATATATTCACCTTCGGTTATATCAAACTATAC
1 ATATATATATTCACCTTCGATTATACCAAGCTATAC
*
51279247 ATATATATATTCACTTTCGATTATACCAAGCTATAC
1 ATATATATATTCACCTTCGATTATACCAAGCTATAC
* *
51279283 ATATATA-A-TCACCTTCGATTATGCCAAGCCATAC
1 ATATATATATTCACCTTCGATTATACCAAGCTATAC
51279317 ATATATAT
1 ATATATAT
51279325 TTATGTACTT
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
34 30 0.43
35 1 0.01
36 39 0.56
ACGTcount: A:0.37, C:0.20, G:0.06, T:0.37
Consensus pattern (36 bp):
ATATATATATTCACCTTCGATTATACCAAGCTATAC
Found at i:51279287 original size:34 final size:34
Alignment explanation
Indices: 51279213--51279325 Score: 145
Period size: 34 Copynumber: 3.3 Consensus size: 34
51279203 AAATGAATAT
* * *
51279213 ATATATATTCACCTTCGGTTATATCAAACTATAC
1 ATATATATTCACCTTCGATTATACCAAGCTATAC
*
51279247 ATATATATATTCACTTTCGATTATACCAAGCTATAC
1 --ATATATATTCACCTTCGATTATACCAAGCTATAC
* * *
51279283 ATATATAATCACCTTCGATTATGCCAAGCCATAC
1 ATATATATTCACCTTCGATTATACCAAGCTATAC
51279317 ATATATATT
1 ATATATATT
51279326 TATGTACTTC
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
34 38 0.56
36 30 0.44
ACGTcount: A:0.36, C:0.20, G:0.06, T:0.37
Consensus pattern (34 bp):
ATATATATTCACCTTCGATTATACCAAGCTATAC
Found at i:51281171 original size:43 final size:43
Alignment explanation
Indices: 51280959--51281160 Score: 271
Period size: 43 Copynumber: 4.7 Consensus size: 43
51280949 ATATCGTACA
* * *
51280959 ATGCCATCGTCCCAGACATGGTCTTACATGCAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
* * **
51281002 ATGCC-ACTGTCCTAGACGGGGTCTTACAAATAATCACATATCG
1 ATGCCAAC-GTCCCAGACGTGGTCTTACATGTAATCACATATCG
* * *
51281045 ATGCCAACGTCCCAAACGTGGTCTTATAGGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
* *
51281088 ATGCCAACGTCCCAGACATGGTTTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
*
51281131 ATGCCAACGTCCTAGACGTGGTCTTACATG
1 ATGCCAACGTCCCAGACGTGGTCTTACATG
51281161 CACACACATA
Statistics
Matches: 136, Mismatches: 21, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
42 1 0.01
43 133 0.98
44 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
Found at i:51281932 original size:28 final size:26
Alignment explanation
Indices: 51281875--51281926 Score: 68
Period size: 28 Copynumber: 1.9 Consensus size: 26
51281865 CAATTATTAT
*
51281875 ATTAACATTATTTAATATATGAAAAA
1 ATTAACATTATTTAAAATATGAAAAA
*
51281901 ATTAACCATTGTTATAAAATATGAAA
1 ATTAA-CATTATT-TAAAATATGAAA
51281927 CCATTATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.23
27 6 0.27
28 11 0.50
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.37
Consensus pattern (26 bp):
ATTAACATTATTTAAAATATGAAAAA
Found at i:51282992 original size:31 final size:31
Alignment explanation
Indices: 51282949--51283027 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
51282939 TTTAACGGTT
*
51282949 ACTGTGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
51282980 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
51283011 ATTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
51283028 ACTATAAAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:51283110 original size:42 final size:42
Alignment explanation
Indices: 51283051--51283142 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
51283041 TGGCCCTTAG
* ** *
51283051 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
51283093 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
51283135 GCCCATTT
1 GCCCATTT
51283143 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:51283358 original size:26 final size:26
Alignment explanation
Indices: 51283287--51283461 Score: 255
Period size: 26 Copynumber: 6.8 Consensus size: 26
51283277 CCTCTTTAAT
51283287 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
**
51283312 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
51283337 AACTGGGGCATAAGCCCCTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
* **
51283363 AACTGGGGCATAATCTATTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
51283389 AACTGGGGCATAAGCCATTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
**
51283415 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
51283441 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
51283462 GCACTTCCTC
Statistics
Matches: 135, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
25 33 0.24
26 102 0.76
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:51284294 original size:27 final size:26
Alignment explanation
Indices: 51284264--51284342 Score: 70
Period size: 27 Copynumber: 2.9 Consensus size: 26
51284254 GGGCATATTC
51284264 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACC-TACAGGGGTATTACG
* *
51284291 GTCACTTTACCCTACAAGGGCT-TTACG
1 GTCATTTTA-CCTAC-AGGGGTATTACG
* *
51284318 GTCCTTTTTACCTAATAGGGGTATT
1 GT-CATTTTACCT-ACAGGGGTATT
51284343 TTAGTCATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
27 26 0.63
28 15 0.37
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (26 bp):
GTCATTTTACCTACAGGGGTATTACG
Found at i:51284532 original size:54 final size:53
Alignment explanation
Indices: 51284473--51284665 Score: 219
Period size: 54 Copynumber: 3.6 Consensus size: 53
51284463 TGTAAATCAG
* * *
51284473 GGGTATTTTGGTAATTTTATAAATTGAGGGTATTTCGGTAATTTCACAAACCA
1 GGGTATTTTGGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTACAAACCA
* * * * * *
51284526 GTGGTATTTTGGTAATTTTACAAA-CCAGTGGTATTTTAGCAATTTTACAGACTA
1 G-GGTATTTTGGTAATTTTATAAATCGAG-GGTATTTTGGTAATTTTACAAACCA
* **
51284580 AGGTATTTTGGTAATTTTACT-AATCGAGGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTA-TAAATCGAGGGTATTTTGGTAATTTTACAAACC-A
*
51284634 GGGTATTTTAGTAATTTTATAAATCGAGGGTA
1 GGGTATTTTGGTAATTTTATAAATCGAGGGTA
51284666 AAATAGTAAT
Statistics
Matches: 114, Mismatches: 20, Indels: 11
0.79 0.14 0.08
Matches are distributed among these distances:
53 42 0.37
54 72 0.63
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (53 bp):
GGGTATTTTGGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTACAAACCA
Found at i:51284614 original size:80 final size:80
Alignment explanation
Indices: 51284501--51284652 Score: 209
Period size: 80 Copynumber: 1.9 Consensus size: 80
51284491 ATAAATTGAG
51284501 GGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGTAATTTTACAAACC-AGTGGTATTTTAG
1 GGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGTAATTTTACAAACCAAG-GGTATTTTAG
51284565 CAATTTTACAGACTAA
65 CAATTTTACAGACTAA
* * * * **
51284581 GGTATTTTGGTAATTTTACTAATCGAG-GGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAG
1 GGTATTTCGGTAATTTCAC-AAACCAGTGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAG
*
51284645 TAATTTTA
65 CAATTTTA
51284653 TAAATCGAGG
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
80 56 0.89
81 7 0.11
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (80 bp):
GGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGC
AATTTTACAGACTAA
Found at i:51284656 original size:27 final size:27
Alignment explanation
Indices: 51284387--51284692 Score: 185
Period size: 27 Copynumber: 11.3 Consensus size: 27
51284377 ATCTACAAAC
* * *
51284387 CAAGGGTATTTCAGTAATTTTGTAAAG
1 CAAGGGTATTTTAGTAATTTTATAAAT
* * *
51284414 CAATGGTATTTCCA-TAATTTTTAGAAAGT
1 CAAGGGTATTT-TAGTAA-TTTTATAAA-T
* *
51284443 CAAGGGTATTTCT-GTAACTTTGTAAAT
1 CAAGGGTATTT-TAGTAATTTTATAAAT
* *
51284470 CAGGGGTATTTTGGTAATTTTATAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
** ** * *
51284497 TGAGGGTATTTCGGTAATTTCACAAA-
1 CAAGGGTATTTTAGTAATTTTATAAAT
* * *
51284523 CCAGTGGTATTTTGGTAATTTTACAAA-
1 CAAG-GGTATTTTAGTAATTTTATAAAT
* * * *
51284550 CCAGTGGTATTTTAGCAATTTTACAGA-
1 CAAG-GGTATTTTAGTAATTTTATAAAT
*
51284577 CTAA-GGTATTTTGGTAATTTTACT-AAT
1 C-AAGGGTATTTTAGTAATTTTA-TAAAT
* * * *
51284604 CGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAT
51284631 CAAGGGTATTTTAGTAATTTTATAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
* *** *
51284658 CGAGGGTAAAATAGTAATTCTATAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
*
51284685 CGAGGGTA
1 CAAGGGTA
51284693 AAACGATAAT
Statistics
Matches: 226, Mismatches: 42, Indels: 22
0.78 0.14 0.08
Matches are distributed among these distances:
26 22 0.10
27 174 0.77
28 16 0.07
29 14 0.06
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTATAAAT
Found at i:51284691 original size:54 final size:54
Alignment explanation
Indices: 51284581--51284760 Score: 159
Period size: 54 Copynumber: 3.3 Consensus size: 54
51284571 TACAGACTAA
* *** * * * * *
51284581 GGTATTTTGGTAATTTTACT-AATCGAGGGTATTTTGGTAATTTTGTAAACCAAG
1 GGTATTTTAGTAATTTTA-TAAATCGAGGGTAAAATAGTAATTCTATAAATCGAG
51284635 GGTATTTTAGTAATTTTATAAATCGAGGGTAAAATAGTAATTCTATAAATCGAG
1 GGTATTTTAGTAATTTTATAAATCGAGGGTAAAATAGTAATTCTATAAATCGAG
** * * * *
51284689 GGTA--AAACGATAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGAC
1 GGTATTTTA-G-TAATTTTATAAATCGAGGGTAAAATAGTAATTCTATAAATCGAG
* *
51284743 GGTACTTTGGTAATTTTA
1 GGTATTTTAGTAATTTTA
51284761 CAATTTGAGG
Statistics
Matches: 101, Mismatches: 20, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
52 1 0.01
53 2 0.02
54 97 0.96
55 1 0.01
ACGTcount: A:0.35, C:0.08, G:0.20, T:0.37
Consensus pattern (54 bp):
GGTATTTTAGTAATTTTATAAATCGAGGGTAAAATAGTAATTCTATAAATCGAG
Found at i:51284693 original size:27 final size:27
Alignment explanation
Indices: 51284642--51284746 Score: 149
Period size: 27 Copynumber: 3.9 Consensus size: 27
51284632 AAGGGTATTT
*
51284642 TAGTAATTTTATAAATCGAGGGTAAAA
1 TAGTAATTCTATAAATCGAGGGTAAAA
51284669 TAGTAATTCTATAAATCGAGGGTAAAA
1 TAGTAATTCTATAAATCGAGGGTAAAA
* *
51284696 -CGATAATTCTGTAAATCGAGGGTAAAA
1 TAG-TAATTCTATAAATCGAGGGTAAAA
* *
51284723 CAGTAATTCTATAAATCGACGGTA
1 TAGTAATTCTATAAATCGAGGGTA
51284747 CTTTGGTAAT
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
26 1 0.01
27 68 0.97
28 1 0.01
ACGTcount: A:0.42, C:0.10, G:0.19, T:0.30
Consensus pattern (27 bp):
TAGTAATTCTATAAATCGAGGGTAAAA
Found at i:51284755 original size:27 final size:27
Alignment explanation
Indices: 51284581--51284757 Score: 122
Period size: 27 Copynumber: 6.6 Consensus size: 27
51284571 TACAGACTAA
* *
51284581 GGTATTTTGGTAATTTTACT-AATCGAG
1 GGTAATTTGGTAATTCTA-TAAATCGAG
* * * * *
51284608 GGTATTTTGGTAATTTTGTAAACCAAG
1 GGTAATTTGGTAATTCTATAAATCGAG
* * *
51284635 GGTATTTTAGTAATTTTATAAATCGAG
1 GGTAATTTGGTAATTCTATAAATCGAG
** *
51284662 GGTAAAATAGTAATTCTATAAATCGAG
1 GGTAATTTGGTAATTCTATAAATCGAG
*** * *
51284689 GGTAAAACGATAATTCTGTAAATCGAG
1 GGTAATTTGGTAATTCTATAAATCGAG
**** *
51284716 GGTAAAACAGTAATTCTATAAATCGAC
1 GGTAATTTGGTAATTCTATAAATCGAG
*
51284743 GGTACTTTGGTAATT
1 GGTAATTTGGTAATT
51284758 TTACAATTTG
Statistics
Matches: 125, Mismatches: 24, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
26 1 0.01
27 124 0.99
ACGTcount: A:0.35, C:0.08, G:0.20, T:0.36
Consensus pattern (27 bp):
GGTAATTTGGTAATTCTATAAATCGAG
Found at i:51287957 original size:33 final size:33
Alignment explanation
Indices: 51287914--51288205 Score: 302
Period size: 33 Copynumber: 8.9 Consensus size: 33
51287904 TCTTTCCGAG
* * ** *
51287914 TGGTACACACAAAGTATTCCTTTCCTTTTAAAA
1 TGGTATACACAAAGTATACCTAACCTTTTCAAA
* * *
51287947 TGGTATACACAAAGTATACCTAACCTCTCCAAG
1 TGGTATACACAAAGTATACCTAACCTTTTCAAA
* * * **
51287980 T-GTACACATAAAGTGTAAATAACCTTTTCAAA
1 TGGTATACACAAAGTATACCTAACCTTTTCAAA
* * *
51288012 TGGTATGCACAAAGTATACCTAACCTTTCCAAG
1 TGGTATACACAAAGTATACCTAACCTTTTCAAA
* * *
51288045 T-GTACACACAAAGTGTACATAACCTTTTCAAA
1 TGGTATACACAAAGTATACCTAACCTTTTCAAA
* * *
51288077 TGGTATACACAAAGTGTACCTAACCTTTCCAAG
1 TGGTATACACAAAGTATACCTAACCTTTTCAAA
* * *
51288110 T-GTACACACAAAGTGTACATAACCTTTTCAAA
1 TGGTATACACAAAGTATACCTAACCTTTTCAAA
* *
51288142 TGGTATACACAAAGTATACCTAATCTTTCCAAA
1 TGGTATACACAAAGTATACCTAACCTTTTCAAA
**
51288175 TGGTATACACAAAGTATACCTTTCCTTTTCA
1 TGGTATACACAAAGTATACCTAACCTTTTCA
51288206 CATTCAATTG
Statistics
Matches: 209, Mismatches: 47, Indels: 6
0.80 0.18 0.02
Matches are distributed among these distances:
32 78 0.37
33 131 0.63
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.30
Consensus pattern (33 bp):
TGGTATACACAAAGTATACCTAACCTTTTCAAA
Found at i:51287985 original size:65 final size:65
Alignment explanation
Indices: 51287905--51288189 Score: 417
Period size: 65 Copynumber: 4.4 Consensus size: 65
51287895 GTGTACGTTT
* * * * ** *
51287905 CTTTCCGAGTGGTACACACAAAGTATTCCTTTCCTTTTAAAATGGTATACACAAAGTATACCTAA
1 CTTTCCAAGT-GTACACACAAAGTGTACATAACCTTTTCAAATGGTATACACAAAGTATACCTAA
51287970 C
65 C
* * * *
51287971 CTCTCCAAGTGTACACATAAAGTGTAAATAACCTTTTCAAATGGTATGCACAAAGTATACCTAAC
1 CTTTCCAAGTGTACACACAAAGTGTACATAACCTTTTCAAATGGTATACACAAAGTATACCTAAC
*
51288036 CTTTCCAAGTGTACACACAAAGTGTACATAACCTTTTCAAATGGTATACACAAAGTGTACCTAAC
1 CTTTCCAAGTGTACACACAAAGTGTACATAACCTTTTCAAATGGTATACACAAAGTATACCTAAC
*
51288101 CTTTCCAAGTGTACACACAAAGTGTACATAACCTTTTCAAATGGTATACACAAAGTATACCTAAT
1 CTTTCCAAGTGTACACACAAAGTGTACATAACCTTTTCAAATGGTATACACAAAGTATACCTAAC
* *
51288166 CTTTCCAAATGGTATACACAAAGT
1 CTTTCCAAGT-GTACACACAAAGT
51288190 ATACCTTTCC
Statistics
Matches: 198, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
65 178 0.90
66 20 0.10
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (65 bp):
CTTTCCAAGTGTACACACAAAGTGTACATAACCTTTTCAAATGGTATACACAAAGTATACCTAAC
Found at i:51288240 original size:29 final size:29
Alignment explanation
Indices: 51288198--51288267 Score: 113
Period size: 29 Copynumber: 2.4 Consensus size: 29
51288188 GTATACCTTT
* * *
51288198 CCTTTTCACATTCAATTGCTGAAGCTATC
1 CCTTTTCACATTCAATAGCCGAAACTATC
51288227 CCTTTTCACATTCAATAGCCGAAACTATC
1 CCTTTTCACATTCAATAGCCGAAACTATC
51288256 CCTTTTCACATT
1 CCTTTTCACATT
51288268 ATACATGCAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.26, C:0.30, G:0.07, T:0.37
Consensus pattern (29 bp):
CCTTTTCACATTCAATAGCCGAAACTATC
Found at i:51296626 original size:27 final size:27
Alignment explanation
Indices: 51296542--51296628 Score: 86
Period size: 27 Copynumber: 3.2 Consensus size: 27
51296532 ATTTCCATTA
* * * * *
51296542 TAAGATAATCCTAATAGACCTCCTATC
1 TAAGATCATCCTAATGGGCTTCCCATC
* * *
51296569 TAAGATCATCCTGACGGGCTT-CCATAT
1 TAAGATCATCCTAATGGGCTTCCCAT-C
51296596 TAAGATCATCCTAATGGGCTTCCCATC
1 TAAGATCATCCTAATGGGCTTCCCATC
51296623 TAAGAT
1 TAAGAT
51296629 TGTCCTGGCA
Statistics
Matches: 47, Mismatches: 11, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
26 3 0.06
27 40 0.85
28 4 0.09
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (27 bp):
TAAGATCATCCTAATGGGCTTCCCATC
Found at i:51297914 original size:15 final size:15
Alignment explanation
Indices: 51297894--51297926 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
51297884 GGGGTGGGTG
51297894 CAAGGCGAACGATTT
1 CAAGGCGAACGATTT
51297909 CAAGGCGAACGATTT
1 CAAGGCGAACGATTT
51297924 CAA
1 CAA
51297927 AGCCATTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.18
Consensus pattern (15 bp):
CAAGGCGAACGATTT
Found at i:51298998 original size:70 final size:70
Alignment explanation
Indices: 51298876--51299017 Score: 266
Period size: 70 Copynumber: 2.0 Consensus size: 70
51298866 ATATTAAACT
51298876 AGGATATATGGGACTAATTTGCTCACACAAGCTATAATTTCTAGATTACTCACGCAAGCTATCTA
1 AGGATATATGGGACTAATTTGCTCACACAAGCTATAATTTCTAGATTACTCACGCAAGCTATCTA
51298941 ACTCA
66 ACTCA
* *
51298946 AGGATATATGGGACTAATTTGCTCACACAAGCTATAATTTCTGGATTGCTCACGCAAGCTATCTA
1 AGGATATATGGGACTAATTTGCTCACACAAGCTATAATTTCTAGATTACTCACGCAAGCTATCTA
51299011 ACTCA
66 ACTCA
51299016 AG
1 AG
51299018 TTTGCTCATA
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 70 1.00
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (70 bp):
AGGATATATGGGACTAATTTGCTCACACAAGCTATAATTTCTAGATTACTCACGCAAGCTATCTA
ACTCA
Found at i:51299619 original size:17 final size:18
Alignment explanation
Indices: 51299576--51299619 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
51299566 TAACAATTAA
51299576 AATAAAAAATAATACAAT
1 AATAAAAAATAATACAAT
*
51299594 -ATAATAAAAT-ATACCAT
1 AATAA-AAAATAATACAAT
51299611 AATAAAAAA
1 AATAAAAAA
51299620 AGTAAGTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (18 bp):
AATAAAAAATAATACAAT
Found at i:51299620 original size:18 final size:18
Alignment explanation
Indices: 51299579--51299620 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
51299569 CAATTAAAAT
51299579 AAAAAATAATACAATATA
1 AAAAAATAATACAATATA
* *
51299597 ATAAAAT-ATACCATAATA
1 AAAAAATAATACAAT-ATA
51299615 AAAAAA
1 AAAAAA
51299621 GTAAGTTTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.21
Consensus pattern (18 bp):
AAAAAATAATACAATATA
Found at i:51301318 original size:20 final size:18
Alignment explanation
Indices: 51301293--51301331 Score: 60
Period size: 20 Copynumber: 2.1 Consensus size: 18
51301283 TATATGATAT
51301293 ATATTAAGTTAATAAAGTAA
1 ATATTAAG-TAATAAA-TAA
51301313 ATATTAAGTAATAAATAA
1 ATATTAAGTAATAAATAA
51301331 A
1 A
51301332 GAAAAGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.21
19 7 0.37
20 8 0.42
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (18 bp):
ATATTAAGTAATAAATAA
Found at i:51309167 original size:36 final size:36
Alignment explanation
Indices: 51309119--51309188 Score: 90
Period size: 36 Copynumber: 1.9 Consensus size: 36
51309109 TCTTGTATTA
51309119 CCCTTAATATTAACCTTTAA-CCCATTATTGTTGAAAT
1 CCCTTAATATTAA--TTTAACCCCATTATTGTTGAAAT
*
51309156 CCCTTAA-ATTAATTTAAGCCCCATTTTTGTTGA
1 CCCTTAATATTAATTTAA-CCCCATTATTGTTGA
51309189 GATTTGAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
34 5 0.17
36 18 0.60
37 7 0.23
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.41
Consensus pattern (36 bp):
CCCTTAATATTAATTTAACCCCATTATTGTTGAAAT
Found at i:51312568 original size:20 final size:20
Alignment explanation
Indices: 51312554--51312613 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
51312544 AATTTATTTT
51312554 CTTACCATTCCATTTACTTA
1 CTTACCATTCCATTTACTTA
*
51312574 CTTTA-CATTTCATTTACTTA
1 C-TTACCATTCCATTTACTTA
* *
51312594 CTTTCCATTCCATTCACTTA
1 CTTACCATTCCATTTACTTA
51312614 GCATTAGCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
19 2 0.06
20 29 0.85
21 3 0.09
ACGTcount: A:0.23, C:0.28, G:0.00, T:0.48
Consensus pattern (20 bp):
CTTACCATTCCATTTACTTA
Found at i:51314500 original size:16 final size:16
Alignment explanation
Indices: 51314462--51314500 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
51314452 ATGTATCAGT
* *
51314462 AAAAGCCGAAATGCTG
1 AAAAGCTGAAATGCCG
51314478 AAAAGCTGAAATGCCG
1 AAAAGCTGAAATGCCG
51314494 AAAAGCT
1 AAAAGCT
51314501 AAAAGTTTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.13
Consensus pattern (16 bp):
AAAAGCTGAAATGCCG
Found at i:51314770 original size:29 final size:28
Alignment explanation
Indices: 51314715--51314835 Score: 134
Period size: 29 Copynumber: 4.2 Consensus size: 28
51314705 ATAAGCATGA
* * *
51314715 ATATGAATGTGACTGGGCCTAACGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
51314743 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* *
51314772 ATATACAGGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
** * *
51314801 ATACGAATATGATTGGGCTTAATGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
*
51314829 AGATAAA
1 ATATAAA
51314836 GGCAAGTGAA
Statistics
Matches: 78, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 30 0.38
29 48 0.62
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCCTAATGGGCC
Found at i:51317963 original size:93 final size:93
Alignment explanation
Indices: 51317855--51318025 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
51317845 GCCCCTAAGT
* * * *
51317855 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
51317920 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
51317948 GAACTCAGACTCAACTCAACGAGTTCGGATATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
51318013 CGAGTTCGGATGC
66 CGAGTTCGGATGC
51318026 TCAGCCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:51318022 original size:46 final size:46
Alignment explanation
Indices: 51317850--51318023 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 46
51317840 AACCCGCCCC
* ***
51317850 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATATTCGCATCCA
* *
51317896 TAAGTGAACTTGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA----TA-TTCGCATCCA
* * *
51317944 TCA-CGAACTCAGACTCAACTCAACGAGTTCGGATATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATATTCGCATCCA
*
51317989 TAGGTGAACTCGGACTCAACTCAACGAGTTCGGAT
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAT
51318024 GCTCAGCCAT
Statistics
Matches: 104, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 1 0.01
45 1 0.01
46 60 0.58
47 27 0.26
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATATTCGCATCCA
Found at i:51327991 original size:29 final size:29
Alignment explanation
Indices: 51327959--51328015 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
51327949 CAAGAAAATC
* *
51327959 GAATAAAGAAATCCAAGATAGAGAAACCA
1 GAATAAAGAAATCCAAAATAAAGAAACCA
51327988 GAATAAAGAAATCCAAAATAAAGAAACC
1 GAATAAAGAAATCCAAAATAAAGAAACC
51328016 CAAGATACGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.61, C:0.14, G:0.14, T:0.11
Consensus pattern (29 bp):
GAATAAAGAAATCCAAAATAAAGAAACCA
Found at i:51328009 original size:15 final size:15
Alignment explanation
Indices: 51327960--51328018 Score: 75
Period size: 15 Copynumber: 4.0 Consensus size: 15
51327950 AAGAAAATCG
51327960 AATAAAGAAATCCAA
1 AATAAAGAAATCCAA
* * *
51327975 GATAGAGAAA-CCAG
1 AATAAAGAAATCCAA
51327989 AATAAAGAAATCCAA
1 AATAAAGAAATCCAA
*
51328004 AATAAAGAAACCCAA
1 AATAAAGAAATCCAA
51328019 GATACGATAC
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
14 11 0.31
15 25 0.69
ACGTcount: A:0.63, C:0.15, G:0.12, T:0.10
Consensus pattern (15 bp):
AATAAAGAAATCCAA
Found at i:51331073 original size:49 final size:49
Alignment explanation
Indices: 51331019--51331336 Score: 430
Period size: 49 Copynumber: 6.5 Consensus size: 49
51331009 CTGGTACGCA
* * * *
51331019 TAGTAGCCTGCACATAGTATTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
*
51331068 TAGTAGCCTGCACTTAGTACTACACACGTGGCCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
*
51331117 TAGTAGCCTGCACTTAGTACCACACACGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
51331166 TAGTAGCCTGCACTTAGTACT--ACAC---ACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
** * *
51331210 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGTTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * * * *
51331260 TAGTAGCTTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTATCCGGTACACG
*
51331311 TAGTAGCCTACACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
51331337 TACGACCTTA
Statistics
Matches: 239, Mismatches: 22, Indels: 14
0.87 0.08 0.05
Matches are distributed among these distances:
44 40 0.17
46 4 0.02
47 4 0.02
49 114 0.48
50 42 0.18
51 34 0.14
52 1 0.00
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:51337275 original size:42 final size:42
Alignment explanation
Indices: 51337223--51337343 Score: 206
Period size: 42 Copynumber: 2.9 Consensus size: 42
51337213 TTATCTAAAA
51337223 AAACACCGCTAAAGGTCATGACCTTTAGCGGCGCTTTCCCAC
1 AAACACCGCTAAAGGTCATGACCTTTAGCGGCGCTTTCCCAC
* * *
51337265 AAACATCGCTAAAAGTCATGACCTTTAGTGGCGCTTTCCCAC
1 AAACACCGCTAAAGGTCATGACCTTTAGCGGCGCTTTCCCAC
*
51337307 AAACGCCGCTAAAGGTCATGACCTTTAGCGGCGCTTT
1 AAACACCGCTAAAGGTCATGACCTTTAGCGGCGCTTT
51337344 TCTTAAAAAT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 72 1.00
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (42 bp):
AAACACCGCTAAAGGTCATGACCTTTAGCGGCGCTTTCCCAC
Found at i:51344879 original size:3 final size:3
Alignment explanation
Indices: 51344873--51344922 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
51344863 TTTTTCTCTT
51344873 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
51344921 TT
1 TT
51344923 TACTAAAATG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:51345728 original size:8 final size:7
Alignment explanation
Indices: 51345704--51345862 Score: 68
Period size: 7 Copynumber: 21.7 Consensus size: 7
51345694 CTAATTTCCT
51345704 TAAACCC
1 TAAACCC
51345711 TAAACCC
1 TAAACCC
51345718 TAAACCCC
1 TAAA-CCC
51345726 T-AACCC
1 TAAACCC
* *
51345732 TTAACCT
1 TAAACCC
* **
51345739 TTAACTG
1 TAAACCC
*
51345746 TTAACCC
1 TAAACCC
***
51345753 ATGTCCCC
1 -TAAACCC
51345761 TAAGACCC
1 TAA-ACCC
*
51345769 ATACACACC
1 -TAAAC-CC
*
51345778 TAAATCC
1 TAAACCC
51345785 TAAACCC
1 TAAACCC
51345792 TAAACCC
1 TAAACCC
*
51345799 TATAACCTG
1 TA-AACC-C
51345808 TAAACCC
1 TAAACCC
* *
51345815 TTAACTC
1 TAAACCC
*
51345822 TTAACCC
1 TAAACCC
51345829 TTAAACCC
1 -TAAACCC
* *
51345837 TAAGCCA
1 TAAACCC
* *
51345844 TAAAACA
1 TAAACCC
51345851 TAAACCC
1 TAAACCC
51345858 TAAAC
1 TAAAC
51345863 TTCTACCCTT
Statistics
Matches: 116, Mismatches: 27, Indels: 18
0.72 0.17 0.11
Matches are distributed among these distances:
6 4 0.03
7 76 0.66
8 30 0.26
9 6 0.05
ACGTcount: A:0.38, C:0.36, G:0.03, T:0.22
Consensus pattern (7 bp):
TAAACCC
Found at i:51345811 original size:23 final size:22
Alignment explanation
Indices: 51345785--51345839 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 22
51345775 ACCTAAATCC
51345785 TAAACCCTAAACCCTATAA-CCT
1 TAAACCCTAAACCCT-TAACCCT
* *
51345807 GTAAACCCTTAACTCTTAACCCT
1 -TAAACCCTAAACCCTTAACCCT
51345830 TAAACCCTAA
1 TAAACCCTAA
51345840 GCCATAAAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 12 0.43
23 16 0.57
ACGTcount: A:0.38, C:0.35, G:0.02, T:0.25
Consensus pattern (22 bp):
TAAACCCTAAACCCTTAACCCT
Found at i:51346445 original size:38 final size:37
Alignment explanation
Indices: 51346360--51346445 Score: 100
Period size: 38 Copynumber: 2.2 Consensus size: 37
51346350 GGTTTAAGGT
* * *
51346360 TTTAGAGGTTATAGTTTAGTCTTTATGGTTTTTTAGGG
1 TTTAG-GGTTATAGATTAGTCTTTATGATTTTTGAGGG
* *
51346398 TTTAGGGGTTATAGATTAGTGTTTATGATTTTTGGGGGG
1 TTTA-GGGTTATAGATTAGTCTTTATGATTTTT-GAGGG
51346437 TTTAGGGTT
1 TTTAGGGTT
51346446 TTAGGAATTA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
38 33 0.80
39 8 0.20
ACGTcount: A:0.17, C:0.01, G:0.31, T:0.50
Consensus pattern (37 bp):
TTTAGGGTTATAGATTAGTCTTTATGATTTTTGAGGG
Found at i:51346578 original size:41 final size:41
Alignment explanation
Indices: 51346462--51346632 Score: 179
Period size: 41 Copynumber: 4.2 Consensus size: 41
51346452 ATTATATGAC
* ** * *
51346462 TTTTAGCGGCATTTTGACCACAAACGCCATTATTGCTTTATT
1 TTTTAGCGGCATTTT-ACCAAAAACGCCGCTATTGCTCTGTT
* * *
51346504 TTTTAGCGGCGTTTT---AAAAACACCGCTATTGCTCTGGT
1 TTTTAGCGGCATTTTACCAAAAACGCCGCTATTGCTCTGTT
*
51346542 TTTTAGCGGCATTTTACCAAAAACGCCGCTAATGCTCTGTT
1 TTTTAGCGGCATTTTACCAAAAACGCCGCTATTGCTCTGTT
** * * *
51346583 TTTTAGCGGTGTTTTACCAAAAATGCCGCTATTACTCT-AT
1 TTTTAGCGGCATTTTACCAAAAACGCCGCTATTGCTCTGTT
51346623 TTTTAGCGGC
1 TTTTAGCGGC
51346633 GTTATTGCTC
Statistics
Matches: 107, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
38 30 0.28
40 10 0.09
41 53 0.50
42 14 0.13
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.38
Consensus pattern (41 bp):
TTTTAGCGGCATTTTACCAAAAACGCCGCTATTGCTCTGTT
Found at i:51346597 original size:79 final size:80
Alignment explanation
Indices: 51346462--51346632 Score: 204
Period size: 79 Copynumber: 2.1 Consensus size: 80
51346452 ATTATATGAC
* * * *
51346462 TTTTAGCGGCATTTTGACCACAAACGCCATTATTGCTTTATTTTTTAGCGGCGTTTTA-AAAACA
1 TTTTAGCGGCATTTTGACCAAAAACGCCACTAATGCTCTATTTTTTAGCGGCGTTTTACAAAA-A
* *
51346526 -CCGCTATTGCTCTGGT
65 GCCGCTATTACTCT-AT
* * *
51346542 TTTTAGCGGCATTTT-ACCAAAAACGCCGCTAATGCTCTGTTTTTTAGCGGTGTTTTACCAAAAA
1 TTTTAGCGGCATTTTGACCAAAAACGCCACTAATGCTCTATTTTTTAGCGGCGTTTTA-CAAAAA
51346606 TGCCGCTATTACTCTAT
65 -GCCGCTATTACTCTAT
51346623 TTTTAGCGGC
1 TTTTAGCGGC
51346633 GTTATTGCTC
Statistics
Matches: 78, Mismatches: 9, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
79 35 0.45
80 16 0.21
81 15 0.19
82 12 0.15
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.38
Consensus pattern (80 bp):
TTTTAGCGGCATTTTGACCAAAAACGCCACTAATGCTCTATTTTTTAGCGGCGTTTTACAAAAAG
CCGCTATTACTCTAT
Found at i:51346643 original size:23 final size:23
Alignment explanation
Indices: 51346612--51346664 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
51346602 AAAATGCCGC
* *
51346612 TATTACTCTATTTTTAGCGGCGT
1 TATTGCTCTATTTTAAGCGGCGT
*
51346635 TATTGCTCTGTTTTAAGCGGCGT
1 TATTGCTCTATTTTAAGCGGCGT
*
51346658 TTTTGCT
1 TATTGCT
51346665 AAAAAGCCGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.13, C:0.17, G:0.21, T:0.49
Consensus pattern (23 bp):
TATTGCTCTATTTTAAGCGGCGT
Found at i:51349158 original size:31 final size:31
Alignment explanation
Indices: 51349120--51349198 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
51349110 TTTAACGATT
51349120 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* *
51349151 ACTGGGCCAAAGCCTTTTCATAAATCATTTC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
51349182 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
51349199 ACTGTAAATG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.29
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:51349301 original size:42 final size:42
Alignment explanation
Indices: 51349222--51349313 Score: 112
Period size: 42 Copynumber: 2.2 Consensus size: 42
51349212 TGGCCCATAG
* *** **
51349222 GCCCATTTCAATATCACATGTAATGTTAATGGTTGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
*
51349264 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGTAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
*
51349306 GCCTATTT
1 GCCCATTT
51349314 GGGGAGACTA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:51349501 original size:26 final size:26
Alignment explanation
Indices: 51349458--51349555 Score: 144
Period size: 26 Copynumber: 3.8 Consensus size: 26
51349448 TCTCTTTAAT
51349458 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
* **
51349483 ACCTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
51349509 AACTAGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
51349535 AACTGGGGCGTAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
51349556 GCACTTCCTC
Statistics
Matches: 63, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
25 9 0.14
26 54 0.86
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:51349531 original size:52 final size:51
Alignment explanation
Indices: 51349458--51349555 Score: 160
Period size: 52 Copynumber: 1.9 Consensus size: 51
51349448 TCTCTTTAAT
* *
51349458 AACTGGGGCAAAGCCCTTTTCGGTAACCTGGGGCATAAGCCCTTTTCAATA
1 AACTAGGGCAAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
*
51349509 AACTAGGGCATAAGCCCTTTTCGGTAAACTGGGGCGTAAGCCCTTTT
1 AACTAGGGCA-AAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTT
51349556 GCACTTCCTC
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
51 9 0.21
52 34 0.79
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (51 bp):
AACTAGGGCAAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
Found at i:51350388 original size:27 final size:27
Alignment explanation
Indices: 51350358--51350422 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
51350348 GGGCATATTC
51350358 GTCATTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCCTACAGGGGCTTTACG
* *
51350385 GTCACTTTACCCTACATGGGCTTTACG
1 GTCATTTTACCCTACAGGGGCTTTACG
*
51350412 GTCTTTTTACC
1 GTCATTTTACC
51350423 TAATAGGGGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.17, C:0.28, G:0.18, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCTTTACG
Found at i:51350506 original size:27 final size:27
Alignment explanation
Indices: 51350480--51350732 Score: 161
Period size: 27 Copynumber: 9.3 Consensus size: 27
51350470 ATCTACAAAC
*
51350480 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCAGTAATTTTGTAAAT
*
51350507 CAATGGTATTTCTA-TAATTTT-TAGAAAGT
1 CAAGGGTATTTC-AGTAATTTTGT--AAA-T
* *
51350536 CAAGGGTATTTCTGTAACTTTGTAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
* ** **
51350563 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
** * ** *
51350590 TGAGGGTATTTCGGTAATTTTACAAAC
1 CAAGGGTATTTCAGTAATTTTGTAAAT
*
51350617 CAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
** *** *
51350644 TGAGGGTAAAACAGTAATTGTGTAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
** *
51350671 CAAGGGTAAAAT-AGTAATTCTGTAAAT
1 CAAGGGT-ATTTCAGTAATTTTGTAAAT
* *** * *
51350698 CGAGGGTAAAACGGTAATTCTGTAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
51350725 CAAGGGTA
1 CAAGGGTA
51350733 AAACGGTAAT
Statistics
Matches: 180, Mismatches: 38, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
26 4 0.02
27 148 0.82
28 10 0.06
29 17 0.09
30 1 0.01
ACGTcount: A:0.35, C:0.08, G:0.21, T:0.36
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTTTGTAAAT
Found at i:51350547 original size:56 final size:54
Alignment explanation
Indices: 51350473--51350637 Score: 170
Period size: 56 Copynumber: 3.0 Consensus size: 54
51350463 TTGGTAAATC
* *
51350473 TACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCTATAATTTT
1 TACAAATCAAGGGTATTTCAGTAATTTTGTAAACCAAGGGTATTT-TATAATTTT
* * * * * *
51350528 TAGAAAGTCAAGGGTATTTCTGTAACTTTGTAAATCAGGGGTATTTTGGTAA-TTT
1 TACAAA-TCAAGGGTATTTCAGTAATTTTGTAAACCAAGGGTATTTT-ATAATTTT
** * **
51350583 TACAAATTGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTT
1 TACAAATCAAGGGTATTTCAGTAATTTTGTAAACCAAGGGTATTTTA-TAATTTT
51350638 GTAAATTGAG
Statistics
Matches: 88, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
54 35 0.40
55 17 0.19
56 36 0.41
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (54 bp):
TACAAATCAAGGGTATTTCAGTAATTTTGTAAACCAAGGGTATTTTATAATTTT
Found at i:51350624 original size:54 final size:54
Alignment explanation
Indices: 51350453--51350678 Score: 184
Period size: 54 Copynumber: 4.1 Consensus size: 54
51350443 TTTTATCCTA
* * * *
51350453 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTGTAAAC
* * * * * *
51350507 CAATGGTATTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCTGTAACTTTGTAAAT
1 CAAGGGTATTT-TGGTAA-TTTTACAAA-TCAAGGGTATTTCAGTAATTTTGTAAAC
* ** * **
51350563 CAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTGTAAAC
* ** ** *** * *
51350617 CAAGGGTATTTTAGTAATTTTGTAAATTGAGGGTAAAACAGTAATTGTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTGTAAAC
51350671 CAAGGGTA
1 CAAGGGTA
51350679 AAATAGTAAT
Statistics
Matches: 135, Mismatches: 33, Indels: 8
0.77 0.19 0.05
Matches are distributed among these distances:
54 83 0.61
55 16 0.12
56 36 0.27
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37
Consensus pattern (54 bp):
CAAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTGTAAAC
Found at i:51350733 original size:27 final size:27
Alignment explanation
Indices: 51350630--51350840 Score: 278
Period size: 27 Copynumber: 7.8 Consensus size: 27
51350620 GGGTATTTTA
* * *
51350630 GTAATTTTGTAAATTGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * **
51350657 GTAATTGTGTAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
51350684 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
51350711 GTAATTCTGTAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
51350738 GTAATTCTGTAAGTCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
51350765 GTAATTATGTAAATCGGGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
51350792 GTAATTATGTAAATCGGGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
51350819 GTAATTCTATAAATCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTA
51350841 CTTTGGTAAT
Statistics
Matches: 166, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 166 1.00
ACGTcount: A:0.38, C:0.08, G:0.26, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:51350867 original size:27 final size:27
Alignment explanation
Indices: 51350846--51350935 Score: 101
Period size: 27 Copynumber: 3.3 Consensus size: 27
51350836 GGGTACTTTG
*
51350846 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
*
51350873 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* * * **
51350900 ATATTTTTACAAA-CTAAGGGTATTTTG
1 GTAATTTTACAAATCGAA-GGTATTTCA
51350927 GTAATTTTA
1 GTAATTTTA
51350936 GTAAACTAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
26 2 0.04
27 50 0.96
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.41
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:51353753 original size:43 final size:43
Alignment explanation
Indices: 51353706--51353826 Score: 120
Period size: 42 Copynumber: 2.8 Consensus size: 43
51353696 CCTTGATTGA
*
51353706 GATTTACGTATAAGACCATGTCTGGGACATCGGCATC-GTATCT
1 GATTTACGTATAAGACCATGTCTGGGACATCGGCATCAATAT-T
* * **
51353749 GATTT-CGTGTAAGACCCTGTCTGGGACAGAGGCATCAATATT
1 GATTTACGTATAAGACCATGTCTGGGACATCGGCATCAATATT
** * * * *
51353791 GAACTACATATAAGACCACGTTTGGGACGTCGGCAT
1 GATTTACGTATAAGACCATGTCTGGGACATCGGCAT
51353827 TGTACTTGTT
Statistics
Matches: 61, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
42 31 0.51
43 30 0.49
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (43 bp):
GATTTACGTATAAGACCATGTCTGGGACATCGGCATCAATATT
Found at i:51355353 original size:20 final size:20
Alignment explanation
Indices: 51355285--51355344 Score: 86
Period size: 20 Copynumber: 3.0 Consensus size: 20
51355275 AAGTTAATGC
*
51355285 TAAGTAAATGAAATGGAAAG
1 TAAGTAAATGAAATGGTAAG
51355305 TAAGTAAATGAAAT-GTATAG
1 TAAGTAAATGAAATGGTA-AG
*
51355325 TAAGTAAATGGAATGGTAAG
1 TAAGTAAATGAAATGGTAAG
51355345 AAAATAAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
19 2 0.06
20 31 0.86
21 3 0.08
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (20 bp):
TAAGTAAATGAAATGGTAAG
Found at i:51356636 original size:10 final size:10
Alignment explanation
Indices: 51356623--51356661 Score: 69
Period size: 10 Copynumber: 3.8 Consensus size: 10
51356613 ATATATGAAT
51356623 ATATCATGGC
1 ATATCATGGC
51356633 ATATCATGTGC
1 ATATCATG-GC
51356644 ATATCATGGC
1 ATATCATGGC
51356654 ATATCATG
1 ATATCATG
51356662 TACAAATCAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (10 bp):
ATATCATGGC
Found at i:51356649 original size:21 final size:21
Alignment explanation
Indices: 51356623--51356662 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
51356613 ATATATGAAT
51356623 ATATCATGGCATATCATGTGC
1 ATATCATGGCATATCATGTGC
51356644 ATATCATGGCATATCATGT
1 ATATCATGGCATATCATGT
51356663 ACAAATCAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (21 bp):
ATATCATGGCATATCATGTGC
Found at i:51356670 original size:21 final size:21
Alignment explanation
Indices: 51356625--51356670 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
51356615 ATATGAATAT
* *
51356625 ATCATGGCATATCATGTGCAT
1 ATCATGGCATATCATGTACAA
51356646 ATCATGGCATATCATGTACAA
1 ATCATGGCATATCATGTACAA
51356667 ATCA
1 ATCA
51356671 GTATCACATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (21 bp):
ATCATGGCATATCATGTACAA
Found at i:51367634 original size:27 final size:27
Alignment explanation
Indices: 51367593--51367645 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
51367583 AGTCATACAT
* *
51367593 CTCATAAGGGCATAATAATTATTTTAC
1 CTCAAAAGGGCATAATAATCATTTTAC
* *
51367620 CTCAAAAGGGTATAATAGTCATTTTA
1 CTCAAAAGGGCATAATAATCATTTTA
51367646 TCAATTTGGC
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:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (27 bp):
CTCAAAAGGGCATAATAATCATTTTAC
Found at i:51374746 original size:40 final size:39
Alignment explanation
Indices: 51374591--51374754 Score: 267
Period size: 39 Copynumber: 4.2 Consensus size: 39
51374581 GAAGGCACTC
*
51374591 GTGCTGGTGTTATATCCGGGC-AAAGTCCCGCAGGCTTT
1 GTGCTGGTATTATATCCGGGCTAAAGTCCCGCAGGCTTT
*
51374629 GTGCTGGTATTATATCCGGGCTAAAGTCCCACAGGCTTT
1 GTGCTGGTATTATATCCGGGCTAAAGTCCCGCAGGCTTT
51374668 GTGCTGGTATTATATCCGGGCTAAAGTCCCGCAGGCTTT
1 GTGCTGGTATTATATCCGGGCTAAAGTCCCGCAGGCTTT
* *
51374707 GTGTTGGTATTATATCCGGGCTTAAAGTCCCGCATGCTTT
1 GTGCTGGTATTATATCCGGGC-TAAAGTCCCGCAGGCTTT
*
51374747 GTGGTGGT
1 GTGCTGGT
51374755 GATTGGATTT
Statistics
Matches: 118, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
38 20 0.17
39 74 0.63
40 24 0.20
ACGTcount: A:0.17, C:0.21, G:0.29, T:0.32
Consensus pattern (39 bp):
GTGCTGGTATTATATCCGGGCTAAAGTCCCGCAGGCTTT
Found at i:51378821 original size:27 final size:27
Alignment explanation
Indices: 51378789--51378841 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
51378779 AGTCATACAT
* *
51378789 CTCATAAGGGCATAATAGTCATTTTAC
1 CTCATAAGGGCATAACAATCATTTTAC
*
51378816 CTCATAGGGGCATAACAATCATTTTA
1 CTCATAAGGGCATAACAATCATTTTA
51378842 TCAATTTGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (27 bp):
CTCATAAGGGCATAACAATCATTTTAC
Found at i:51383351 original size:27 final size:27
Alignment explanation
Indices: 51383319--51383372 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
51383309 ACCACCTAAT
*
51383319 TGATAAAATGACTATTACGCCCCTATG
1 TGATAAAATAACTATTACGCCCCTATG
* *
51383346 TGATAAAATAACTGTTATGCCCCTATG
1 TGATAAAATAACTATTACGCCCCTATG
51383373 AGATGAATGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.31
Consensus pattern (27 bp):
TGATAAAATAACTATTACGCCCCTATG
Found at i:51383442 original size:5 final size:5
Alignment explanation
Indices: 51383435--51383465 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
51383425 TGTTATTATT
*
51383435 ACATT ACATG ACATG ACATG ACATG ACATG A
1 ACATG ACATG ACATG ACATG ACATG ACATG A
51383466 TGCATGATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.23
Consensus pattern (5 bp):
ACATG
Found at i:51389637 original size:27 final size:27
Alignment explanation
Indices: 51389605--51389658 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
51389595 ACCACCTAAT
*
51389605 TGATAAAATGACTATTACGCCCCTATG
1 TGATAAAATAACTATTACGCCCCTATG
* *
51389632 TGATAAAATAACTGTTATGCCCCTATG
1 TGATAAAATAACTATTACGCCCCTATG
51389659 AGATGAATGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.31
Consensus pattern (27 bp):
TGATAAAATAACTATTACGCCCCTATG
Found at i:51389728 original size:5 final size:5
Alignment explanation
Indices: 51389721--51389751 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
51389711 TGTTATTATT
*
51389721 ACATT ACATG ACATG ACATG ACATG ACATG A
1 ACATG ACATG ACATG ACATG ACATG ACATG A
51389752 TGCATGATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.23
Consensus pattern (5 bp):
ACATG
Found at i:51411087 original size:33 final size:33
Alignment explanation
Indices: 51411050--51411119 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
51411040 TGAATAACAT
* *
51411050 AGTATCAGCATAGTCTGGGCCAAAGCCCTATTC
1 AGTATCAGCACAGTCTGGGCCAAAGCCCTATAC
* *
51411083 AGTATCAGTACAGTCTGGGCCTAAGCCCTATAC
1 AGTATCAGCACAGTCTGGGCCAAAGCCCTATAC
51411116 AGTA
1 AGTA
51411120 GCAGTGTGAG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (33 bp):
AGTATCAGCACAGTCTGGGCCAAAGCCCTATAC
Found at i:51411146 original size:28 final size:27
Alignment explanation
Indices: 51411088--51411147 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 27
51411078 TATTCAGTAT
* * *
51411088 CAGTACAGTCTGGGCCTAAGCCCTATA
1 CAGTACAGTCTGAGCCTAAACCCAATA
* *
51411115 CAGTAGCAGTGTGAGCCTAAACCCAATG
1 CAGTA-CAGTCTGAGCCTAAACCCAATA
51411143 CAGTA
1 CAGTA
51411148 ACAATACAGT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.30, C:0.27, G:0.23, T:0.20
Consensus pattern (27 bp):
CAGTACAGTCTGAGCCTAAACCCAATA
Found at i:51411312 original size:27 final size:27
Alignment explanation
Indices: 51411282--51411353 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 27
51411272 AACAAAGCTG
51411282 CCAGAAACAGTAAATGTGGCAAAGCCA
1 CCAGAAACAGTAAATGTGGCAAAGCCA
* * * * *
51411309 CCAGTATCAATAATTGTGGCATAGCCA
1 CCAGAAACAGTAAATGTGGCAAAGCCA
*
51411336 CCAGTAAA-AGTGAATGTG
1 CCAG-AAACAGTAAATGTG
51411354 ACATAATCAC
Statistics
Matches: 34, Mismatches: 10, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
27 33 0.97
28 1 0.03
ACGTcount: A:0.39, C:0.19, G:0.22, T:0.19
Consensus pattern (27 bp):
CCAGAAACAGTAAATGTGGCAAAGCCA
Found at i:51411539 original size:27 final size:27
Alignment explanation
Indices: 51411509--51411613 Score: 115
Period size: 27 Copynumber: 3.9 Consensus size: 27
51411499 GGGCATAATT
*
51411509 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* *
51411536 GTCACTTTACCCTACAAGGGCT-TTACG
1 GTCATTTTACCCTAC-AGGGGTATTACG
**
51411563 GTCATTTTACCCTACAGGGACATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* *
51411590 GTCTTTTTA-CCTATTAGGGGTATT
1 GTCATTTTACCCTA-CAGGGGTATT
51411614 TTAGTCATTT
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
26 8 0.12
27 52 0.80
28 5 0.08
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGTATTACG
Found at i:51411681 original size:27 final size:27
Alignment explanation
Indices: 51411631--51411866 Score: 163
Period size: 27 Copynumber: 8.7 Consensus size: 27
51411621 TTTCATCCTA
* * *
51411631 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
51411658 CAAGGGTATTTTAGTAATTTTACAGAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * ** *
51411685 CAATGGTATTTCT-ATAATTTTTGAAAGT
1 CAAGGGTATTT-TGGTAATTTTACAAA-C
* *
51411713 CAAGGGTATTTTTGTAATTTT-CTAAAT
1 CAAGGGTATTTTGGTAATTTTAC-AAAC
* * * *
51411740 TAAGGGTATTTCGGTAATTTCACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
51411767 CAGGGGTATTTTGGTAACTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
51411794 CGAGGGTGTTTTGGTAATTTTACAAGTC
1 CAAGGGTATTTTGGTAATTTTACAA-AC
* * **
51411822 GAA-GGTATTTTGATAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
51411848 TAATGGTATTTTGGTAATT
1 CAAGGGTATTTTGGTAATT
51411867 CTACCCTACA
Statistics
Matches: 164, Mismatches: 38, Indels: 14
0.76 0.18 0.06
Matches are distributed among these distances:
26 3 0.02
27 138 0.84
28 23 0.14
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.41
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAC
Found at i:51411885 original size:27 final size:27
Alignment explanation
Indices: 51411861--51411930 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
51411851 TGGTATTTTG
51411861 GTAATTCTACCCTACAGGGGCATTTCA
1 GTAATTCTACCCTACAGGGGCATTTCA
* *
51411888 GTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGCATTTCA
* * *
51411915 ATAATGCTAGCCTACA
1 GTAATTCTACCCTACA
51411931 AATATGAGAT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGCATTTCA
Found at i:51416314 original size:29 final size:28
Alignment explanation
Indices: 51416278--51416355 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
51416268 TCATGAGATT
51416278 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
51416308 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
51416335 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
51416356 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:51416634 original size:173 final size:174
Alignment explanation
Indices: 51416308--51416634 Score: 557
Period size: 173 Copynumber: 1.9 Consensus size: 174
51416298 AAATTGTACA
* *
51416308 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* *
51416373 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCAAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCAAGTCAA
51416438 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * * *
51416482 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTACTAAACATTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* *
51416547 TGTGC-AACCCAGTATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCAAGTCAA
51416611 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
51416635 ACCTTGAGTT
Statistics
Matches: 143, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
173 79 0.55
174 64 0.45
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCAAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:51425318 original size:80 final size:79
Alignment explanation
Indices: 51425222--51425391 Score: 198
Period size: 79 Copynumber: 2.1 Consensus size: 79
51425212 GGACTAAGAT
* * * *
51425222 CCGAAGGCATTTGTGCGAGATA-CAAATTCTGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTCGTGCGAGATATCAAA-ACCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
51425286 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * *
51425302 CCGAAGGCATTCGTGCGAGTTATTAAAACCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTCGTGCGAGATATCAAAACCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
51425367 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
51425381 CCGAAGGCATT
1 CCGAAGGCATT
51425392 TGAACGAGGA
Statistics
Matches: 76, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
79 37 0.49
80 36 0.47
81 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTCGTGCGAGATATCAAAACCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:51425372 original size:39 final size:39
Alignment explanation
Indices: 51425222--51425391 Score: 189
Period size: 40 Copynumber: 4.3 Consensus size: 39
51425212 GGACTAAGAT
* * * *
51425222 CCGAAGGCATTTGTGCGAGATAC-AAATTCTGGGTTAAGCC
1 CCGAAGGCA-TTGTGCGAGTTACTAAA-ACCGGGTTAAGTC
* * *
51425262 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGG-CATTGTGCGAGTTACTAAAACCGGGTTAAGTC
* *
51425302 CCGAAGGCATTCGTGCGAGTTATTAAAACCGGGTTATGTC
1 CCGAAGGCATT-GTGCGAGTTACTAAAACCGGGTTAAGTC
* * *
51425342 CCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTGTGCGAGTTACTAAAACCGGGTTAAGTC
51425381 CCGAAGGCATT
1 CCGAAGGCATT
51425392 TGAACGAGGA
Statistics
Matches: 116, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
39 39 0.34
40 73 0.63
41 4 0.03
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTGTGCGAGTTACTAAAACCGGGTTAAGTC
Found at i:51427610 original size:29 final size:28
Alignment explanation
Indices: 51427574--51427651 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
51427564 TCATGAGATT
51427574 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
51427604 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
51427631 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
51427652 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:51427922 original size:173 final size:174
Alignment explanation
Indices: 51427604--51427930 Score: 548
Period size: 173 Copynumber: 1.9 Consensus size: 174
51427594 AAATTGTACA
* *
51427604 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* * *
51427669 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGCGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
51427734 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * * *
51427778 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTACTAAACATTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* *
51427843 TGCGC-AACCCAGTATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACTGAGTCAA
66 TGCGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
51427907 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
51427931 ACCTTGAGTT
Statistics
Matches: 142, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
173 79 0.56
174 63 0.44
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
TGCGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:51429776 original size:27 final size:27
Alignment explanation
Indices: 51429710--51429780 Score: 108
Period size: 26 Copynumber: 2.7 Consensus size: 27
51429700 CCTAATTGAC
*
51429710 AAAATGACTATTATGCCTCTGTGTGAT
1 AAAATGACTATTATGCCCCTGTGTGAT
51429737 -AAATGACTATTATGCCCCTGTGTGAT
1 AAAATGACTATTATGCCCCTGTGTGAT
* *
51429763 AAAATGGCTGTTATGCCC
1 AAAATGACTATTATGCCC
51429781 TATTAGATGA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
26 25 0.62
27 15 0.38
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (27 bp):
AAAATGACTATTATGCCCCTGTGTGAT
Found at i:51434336 original size:14 final size:15
Alignment explanation
Indices: 51434317--51434349 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
51434307 TTAAACTCTT
51434317 AAAA-CCTAAGCCCA
1 AAAACCCTAAGCCCA
*
51434331 AAAACCCTAAGCCTA
1 AAAACCCTAAGCCCA
51434346 AAAA
1 AAAA
51434350 ATAAACCTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.55, C:0.30, G:0.06, T:0.09
Consensus pattern (15 bp):
AAAACCCTAAGCCCA
Found at i:51441947 original size:96 final size:96
Alignment explanation
Indices: 51441766--51441956 Score: 301
Period size: 96 Copynumber: 2.0 Consensus size: 96
51441756 CAAAATTTCA
* *
51441766 AGATAAGGTCCCGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGATATGAGACCCCGTATA
1 AGATAAGGTCCCGTATAAGACCATGTCTGGGACATGGCATCGGCACCGATATGAGACCCCATATA
*
51441831 AGACCATATCTAGGATATGGCATCGGCATCG
66 AGACCATATCTAGGACATGGCATCGGCATCG
* * *
51441862 AGATGAGGTCCCGTATAAGACCATGTGTGGGACATGGCATCGGCACCGATATGAGACCCCATGTA
1 AGATAAGGTCCCGTATAAGACCATGTCTGGGACATGGCATCGGCACCGATATGAGACCCCATATA
* * *
51441927 AGACCATGTCTTGGACATGGCATTGGCATC
66 AGACCATATCTAGGACATGGCATCGGCATC
51441957 AATATGTGTG
Statistics
Matches: 86, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
96 86 1.00
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.21
Consensus pattern (96 bp):
AGATAAGGTCCCGTATAAGACCATGTCTGGGACATGGCATCGGCACCGATATGAGACCCCATATA
AGACCATATCTAGGACATGGCATCGGCATCG
Found at i:51441962 original size:48 final size:48
Alignment explanation
Indices: 51441775--51441954 Score: 243
Period size: 48 Copynumber: 3.8 Consensus size: 48
51441765 AAGATAAGGT
*
51441775 CCCGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGATATGAGAC
1 CCCGTATAAGACCATGTCTGGGACATGGCATCGGCACCGATATGAGAC
* * * * * **
51441823 CCCGTATAAGACCATATCTAGGATATGGCATCGGCATCGAGATGAGGT
1 CCCGTATAAGACCATGTCTGGGACATGGCATCGGCACCGATATGAGAC
*
51441871 CCCGTATAAGACCATGTGTGGGACATGGCATCGGCACCGATATGAGAC
1 CCCGTATAAGACCATGTCTGGGACATGGCATCGGCACCGATATGAGAC
* * * *
51441919 CCCATGTAAGACCATGTCTTGGACATGGCATTGGCA
1 CCCGTATAAGACCATGTCTGGGACATGGCATCGGCA
51441955 TCAATATGTG
Statistics
Matches: 111, Mismatches: 21, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 111 1.00
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.21
Consensus pattern (48 bp):
CCCGTATAAGACCATGTCTGGGACATGGCATCGGCACCGATATGAGAC
Found at i:51442232 original size:48 final size:48
Alignment explanation
Indices: 51442160--51442418 Score: 257
Period size: 48 Copynumber: 5.5 Consensus size: 48
51442150 ATGAGATCCC
*
51442160 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGACGTTGATATGTGAGCCA
* * * * *
51442208 CTGTAAGACCATGTTTGGGACATGGGATCGATGTTGATATGTGAGTCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGACGTTGATATGTGAGCCA
* * * * * *
51442256 GTGTAAGACCAAGTCTAGGACATAGCATC-AGCATTGATATGTGTGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGA-CGTTGATATGTGAGCCA
* * **
51442304 GTGTAAGACCATGTCTGGGACATGGCATCGACGCTGATATGAGATTTC-
1 GTGTAAGACCATGTCTGGGACATGGCATCGACGTTGATATGTGA-GCCA
* * *
51442352 GTAG-AAGACCATGTCTGGGATATGGCATCGA---T-ATGTG-GATCCA
1 GT-GTAAGACCATGTCTGGGACATGGCATCGACGTTGATATGTGAGCCA
51442395 -TGTAAGACCATGTCTGGGACATGG
1 GTGTAAGACCATGTCTGGGACATGG
51442419 ATTTGGCACT
Statistics
Matches: 174, Mismatches: 31, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
41 1 0.01
42 23 0.13
43 2 0.01
44 4 0.02
45 1 0.01
47 1 0.01
48 140 0.80
49 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGACGTTGATATGTGAGCCA
Found at i:51449395 original size:19 final size:19
Alignment explanation
Indices: 51449371--51449408 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
51449361 CGAGCCACAT
51449371 TGGGCCGAAATGGG-TTGTG
1 TGGGCC-AAATGGGCTTGTG
*
51449390 TGGGCCCAATGGGCTTGTG
1 TGGGCCAAATGGGCTTGTG
51449409 GGCACTACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.13, C:0.16, G:0.45, T:0.26
Consensus pattern (19 bp):
TGGGCCAAATGGGCTTGTG
Found at i:51465794 original size:16 final size:16
Alignment explanation
Indices: 51465775--51465805 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
51465765 ATTGATTTTG
*
51465775 TGCATGACATTCTGCA
1 TGCATGACATACTGCA
51465791 TGCATGACATACTGC
1 TGCATGACATACTGC
51465806 TTGGGATTGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (16 bp):
TGCATGACATACTGCA
Found at i:51466077 original size:32 final size:32
Alignment explanation
Indices: 51466036--51466114 Score: 124
Period size: 32 Copynumber: 2.5 Consensus size: 32
51466026 TGGCATTGAA
* *
51466036 ATGGGCTAGGCCTAACTGATATTGGTTCTGAT-
1 ATGGGCTAGGCCCAACTGATATTGATTCT-ATG
51466068 ATGGGCTAGGCCCAACTGATATTGATTCTATG
1 ATGGGCTAGGCCCAACTGATATTGATTCTATG
51466100 ATGGGCTAGGCCCAA
1 ATGGGCTAGGCCCAA
51466115 TTGAGACTGT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
31 2 0.05
32 42 0.95
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (32 bp):
ATGGGCTAGGCCCAACTGATATTGATTCTATG
Found at i:51467599 original size:48 final size:48
Alignment explanation
Indices: 51467474--51467602 Score: 168
Period size: 48 Copynumber: 2.7 Consensus size: 48
51467464 AAATGTATAT
*** *
51467474 GTATAAGACCATATCTAGGACATGGCATTAACATCGATATAAGACCCC
1 GTATAAGACCATATCTAGGACATGGCATCGGCATCGAGATAAGACCCC
* * **
51467522 GTATAAGACCATATCTGGGATATGGCATCGGCATCGAGATAAGGTCCC
1 GTATAAGACCATATCTAGGACATGGCATCGGCATCGAGATAAGACCCC
* *
51467570 GTATAAGACCATGTCTAAGACATGGCATCGGCA
1 GTATAAGACCATATCTAGGACATGGCATCGGCA
51467603 CCGATACGAT
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 69 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (48 bp):
GTATAAGACCATATCTAGGACATGGCATCGGCATCGAGATAAGACCCC
Found at i:51467929 original size:48 final size:48
Alignment explanation
Indices: 51467856--51468029 Score: 249
Period size: 48 Copynumber: 3.6 Consensus size: 48
51467846 ATGAGATCCT
* *
51467856 GTGTAAGACCATGTCTAGGACATGGCATCAGCGTTGATATGTGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGAGCCA
* * *
51467904 GTGTAAGACCATGTCTGGGATATGGCATCGGTGTTGATATATGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGAGCCA
* * * * * *
51467952 ATGTAAGACCACGTCTGGGACATGTCATCGGCATTGATATGTGTGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGAGCCA
51468000 GTGTAAGACCATGTCTGGGACATGGCATCG
1 GTGTAAGACCATGTCTGGGACATGGCATCG
51468030 CCACTGATAT
Statistics
Matches: 109, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 109 1.00
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGAGCCA
Found at i:51471902 original size:46 final size:45
Alignment explanation
Indices: 51471852--51472017 Score: 158
Period size: 46 Copynumber: 3.6 Consensus size: 45
51471842 ACCTCTCATA
51471852 GCCGATGCATGTCCCAAACATGTCTTACACTGGCTTACGTCTCGAG
1 GCCGATGCATGTCCCAAACATGTCTTACACTGGCTT-CGTCTCGAG
* ** * *
51471898 GCCGATGCATGTCCCAAATATGTCTTACACTACACTT-GTCTCAAT
1 GCCGATGCATGTCCCAAACATGTCTTACACT-GGCTTCGTCTCGAG
* * * * * *
51471943 GCCGATGCCATGTCCCAGACATGGCCTTACATTGGCTCTCATAAT-GTG
1 GCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCT-TCGT-CTCGAG
51471991 GCCGATGCATGT-CCAAACATGTCTTAC
1 GCCGATGCATGTCCCAAACATGTCTTAC
51472018 TCTAGCTCAC
Statistics
Matches: 96, Mismatches: 18, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
45 19 0.20
46 51 0.53
47 17 0.18
48 8 0.08
49 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (45 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTGGCTTCGTCTCGAG
Found at i:51472249 original size:9 final size:9
Alignment explanation
Indices: 51472235--51472262 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
51472225 ATGTGGTGAC
51472235 TAGTCGATT
1 TAGTCGATT
51472244 TAGTCGATT
1 TAGTCGATT
51472253 TAGTCGATT
1 TAGTCGATT
51472262 T
1 T
51472263 GCTTGGCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.21, C:0.11, G:0.21, T:0.46
Consensus pattern (9 bp):
TAGTCGATT
Found at i:51482569 original size:55 final size:53
Alignment explanation
Indices: 51482414--51482620 Score: 182
Period size: 55 Copynumber: 3.8 Consensus size: 53
51482404 TTCCTTTTTA
* * * * *
51482414 AACTTACCATTGCCATGTCTTGACATGGTCTTGCGTGGTATACTTGCCTTATG
1 AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
* * * * *
51482467 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAG
1 AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G
** * * * * *
51482521 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAG
1 -AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G
* * * *
51482576 AACTTACCAATGCGATGCCTTTG-CATGGTCTTACTTGGTATCCTT
1 AACTCACCAATGCCATGTC-TTGACATGGTCTTACATGGTATCCTT
51482621 AAACCCTAAT
Statistics
Matches: 123, Mismatches: 28, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
53 44 0.36
54 34 0.28
55 45 0.37
ACGTcount: A:0.20, C:0.23, G:0.19, T:0.38
Consensus pattern (53 bp):
AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
Found at i:51487094 original size:27 final size:27
Alignment explanation
Indices: 51487059--51487189 Score: 147
Period size: 27 Copynumber: 4.9 Consensus size: 27
51487049 CCCCAAAATA
* *
51487059 GGTAAAATGATCATAATGCCTCTGTAG
1 GGTAAAATGATCGTAATGCCCCTGTAG
*
51487086 GGTAAAATGATCGTAATACCCCTGTAG
1 GGTAAAATGATCGTAATGCCCCTGTAG
* *
51487113 GGTAAAATGACCTTAATGCCCCTGTAG
1 GGTAAAATGATCGTAATGCCCCTGTAG
* ** *
51487140 GATAAAATGATCGTAATATCCCTGTAT
1 GGTAAAATGATCGTAATGCCCCTGTAG
* *
51487167 GGTAAATTGA-CGATTATGCCCCT
1 GGTAAAATGATCG-TAATGCCCCT
51487190 ATGTTCCAAA
Statistics
Matches: 86, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
26 2 0.02
27 84 0.98
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (27 bp):
GGTAAAATGATCGTAATGCCCCTGTAG
Found at i:51487131 original size:54 final size:54
Alignment explanation
Indices: 51487059--51487189 Score: 181
Period size: 54 Copynumber: 2.4 Consensus size: 54
51487049 CCCCAAAATA
* * *
51487059 GGTAAAATGATCATAATGCCTCTGTAGGGTAAAATGATCGTAATACCCCTGTAG
1 GGTAAAATGACCATAATGCCCCTGTAGGATAAAATGATCGTAATACCCCTGTAG
* * *
51487113 GGTAAAATGACCTTAATGCCCCTGTAGGATAAAATGATCGTAATATCCCTGTAT
1 GGTAAAATGACCATAATGCCCCTGTAGGATAAAATGATCGTAATACCCCTGTAG
* * *
51487167 GGTAAATTGACGATTATGCCCCT
1 GGTAAAATGACCATAATGCCCCT
51487190 ATGTTCCAAA
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 67 1.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (54 bp):
GGTAAAATGACCATAATGCCCCTGTAGGATAAAATGATCGTAATACCCCTGTAG
Found at i:51490996 original size:44 final size:47
Alignment explanation
Indices: 51490894--51491008 Score: 146
Period size: 49 Copynumber: 2.5 Consensus size: 47
51490884 ACACCTAAGT
* * * *
51490894 CGATGCCATGTCCTAGACATGTCTTACACTGACTTTCATGTATCGAGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTAAC-TACATG-ATCGAGGC
*
51490943 CGATGCCATGTCCCAGATAGGTCTTACACTAAC-ACATG-TC-AGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTAACTACATGATCGAGGC
51490987 CGATGCCATGTCCCAGACAGGT
1 CGATGCCATGTCCCAGACAGGT
51491009 TGTAACATAG
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
44 25 0.42
45 2 0.03
47 4 0.07
49 29 0.48
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTAACTACATGATCGAGGC
Found at i:51494295 original size:20 final size:20
Alignment explanation
Indices: 51494270--51494308 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
51494260 AAAATTTCAA
51494270 TTATTTCACACA-TTTACAAC
1 TTATTTCACA-ATTTTACAAC
*
51494290 TTATTTTACAATTTTACAA
1 TTATTTCACAATTTTACAA
51494309 AATAGCCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.36, C:0.18, G:0.00, T:0.46
Consensus pattern (20 bp):
TTATTTCACAATTTTACAAC
Found at i:51497651 original size:27 final size:27
Alignment explanation
Indices: 51497620--51497797 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
51497610 TAAATTGTAC
51497620 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
51497647 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
51497673 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
51497701 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
51497729 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
51497756 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
51497783 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
51497798 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:51497761 original size:82 final size:81
Alignment explanation
Indices: 51497621--51497776 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
51497611 AAATTGTACA
* *
51497621 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
51497686 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
** *
51497702 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGT
*
51497766 GTGCGAGTTGA
64 GTGCGAATTGA
51497777 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:51497788 original size:82 final size:81
Alignment explanation
Indices: 51497617--51497797 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
51497607 GATTAAATTG
* *
51497617 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
51497682 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
51497698 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
51497762 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
51497780 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
51497798 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:51505854 original size:27 final size:26
Alignment explanation
Indices: 51505796--51505944 Score: 165
Period size: 27 Copynumber: 5.5 Consensus size: 26
51505786 AAATTGTACA
51505796 GCACTAAGTGTGC-ATTTGACTATGTT
1 GCACTAAGTGTGCGATTTGACTATG-T
** *
51505822 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCGATTTGACTATG-T
* * *
51505849 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGATTTGACTATG-T
51505876 GCACTAAGTGTGCGAGTTTGACTATGT
1 GCACTAAGTGTGCGA-TTTGACTATGT
* *
51505903 AGCACTAAGTGTGCGATTTGATTACGT
1 -GCACTAAGTGTGCGATTTGACTATGT
51505930 AGCACTAAGTGTGCG
1 -GCACTAAGTGTGCG
51505945 GGACTCAATA
Statistics
Matches: 106, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
26 13 0.12
27 70 0.66
28 23 0.22
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.30
Consensus pattern (26 bp):
GCACTAAGTGTGCGATTTGACTATGT
Found at i:51505935 original size:55 final size:53
Alignment explanation
Indices: 51505795--51505944 Score: 176
Period size: 55 Copynumber: 2.8 Consensus size: 53
51505785 TAAATTGTAC
*
51505795 AGCACTAAGTGTGC-ATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATG
* * ** ** *
51505847 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATG
1 A-GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGA-AATGAATATG
* *
51505902 TAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCG
1 -AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCG
51505945 GGACTCAATA
Statistics
Matches: 81, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
52 1 0.01
53 13 0.16
54 24 0.30
55 42 0.52
56 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.29
Consensus pattern (53 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATG
Found at i:51505935 original size:82 final size:80
Alignment explanation
Indices: 51505796--51505944 Score: 219
Period size: 82 Copynumber: 1.8 Consensus size: 80
51505786 AAATTGTACA
* *
51505796 GCACTAAGTGTGCATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGTG
1 GCACTAAGTGTGCATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGTG
51505861 CGAATTGACCATGCG
66 CGAATTGACCATGCG
** *
51505876 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGT
1 GCACTAAGTGTGC-A-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGT
51505940 GTGCG
63 GTGCG
51505945 GGACTCAATA
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
80 13 0.21
81 2 0.03
82 46 0.75
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.30
Consensus pattern (80 bp):
GCACTAAGTGTGCATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGTG
CGAATTGACCATGCG
Found at i:51511104 original size:48 final size:48
Alignment explanation
Indices: 51511032--51511155 Score: 122
Period size: 48 Copynumber: 2.6 Consensus size: 48
51511022 TGGGACCCCG
* * * * * * * *
51511032 TATAAGACCATATCAGGCATATGGCATTAGTATCAAGATGAGGTCCCA
1 TATAAGACCATGTCTGGGACATGGCATTAGCACCAAGACGAGATCCCA
* * * *
51511080 TATAAGACCATGTCTGGGACATGGCATCAGCACCGATACGAGATCCTA
1 TATAAGACCATGTCTGGGACATGGCATTAGCACCAAGACGAGATCCCA
* *
51511128 TGTAAGACCATGTCTGGGACATGACATT
1 TATAAGACCATGTCTGGGACATGGCATT
51511156 GGCATCGATA
Statistics
Matches: 61, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
48 61 1.00
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (48 bp):
TATAAGACCATGTCTGGGACATGGCATTAGCACCAAGACGAGATCCCA
Found at i:51511549 original size:48 final size:48
Alignment explanation
Indices: 51511366--51511537 Score: 236
Period size: 48 Copynumber: 3.6 Consensus size: 48
51511356 TGAGATCTCA
* * *
51511366 TGTAAGACCATGTCTGGGACATGGAATCGGCGTTGATATGTAAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCAGCGTTGATATGTGAGCCAG
* *
51511414 TGTAAGGCCATGTCTGGGACATGGCATCAGTGTTGATATGTGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCAGCGTTGATATGTGAGCCAG
* ** * **
51511462 TGTAAGATCATGTCTGGGACATGGCATCAATGTTGATATGTGTGATAG
1 TGTAAGACCATGTCTGGGACATGGCATCAGCGTTGATATGTGAGCCAG
*
51511510 TGTAAGACCATGTCTGGGAAATGGCATC
1 TGTAAGACCATGTCTGGGACATGGCATC
51511538 GGCACTAATA
Statistics
Matches: 111, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 111 1.00
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCAGCGTTGATATGTGAGCCAG
Found at i:51514485 original size:28 final size:28
Alignment explanation
Indices: 51514445--51514501 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
51514435 ATTACAAAAT
51514445 ATGTACAAATTAAATGAAATAGAATCTA
1 ATGTACAAATTAAATGAAATAGAATCTA
51514473 ATGTACAAATTAAATGAAATAGAATCTA
1 ATGTACAAATTAAATGAAATAGAATCTA
51514501 A
1 A
51514502 CTCATGGCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.54, C:0.07, G:0.11, T:0.28
Consensus pattern (28 bp):
ATGTACAAATTAAATGAAATAGAATCTA
Found at i:51532435 original size:39 final size:40
Alignment explanation
Indices: 51532340--51532601 Score: 319
Period size: 39 Copynumber: 6.7 Consensus size: 40
51532330 TTGAATGATG
*
51532340 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
51532378 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
*
51532419 TCCGGGCTAAG-CCCGAAGGCATTTGTACGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
51532458 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
51532497 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
51532536 TCCGGGTTAAGTCCCGAAGGCATTTGTACGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
51532575 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
51532602 AACGAGGAGC
Statistics
Matches: 200, Mismatches: 14, Indels: 17
0.87 0.06 0.07
Matches are distributed among these distances:
39 130 0.65
40 58 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:51540027 original size:22 final size:22
Alignment explanation
Indices: 51539985--51540029 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
51539975 TATAAATACA
*
51539985 AGTTTTTTAAATTAACGAGAAT
1 AGTTTTTTAAATTAACAAGAAT
*
51540007 AGTTTTTTAAATTAATAAGAAT
1 AGTTTTTTAAATTAACAAGAAT
51540029 A
1 A
51540030 TTCTTTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.42
Consensus pattern (22 bp):
AGTTTTTTAAATTAACAAGAAT
Found at i:51547491 original size:13 final size:13
Alignment explanation
Indices: 51547473--51547497 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51547463 TAATTATCAC
51547473 TTAATTAATATTT
1 TTAATTAATATTT
51547486 TTAATTAATATT
1 TTAATTAATATT
51547498 AGAGTTAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTAATTAATATTT
Found at i:51547961 original size:25 final size:27
Alignment explanation
Indices: 51547933--51547988 Score: 80
Period size: 25 Copynumber: 2.1 Consensus size: 27
51547923 TACCCTTAAG
51547933 AATAATAGATAAAAT-ATATT-ATAAA
1 AATAATAGATAAAATCATATTAATAAA
* *
51547958 AATAGTAGATAAAATCATATTAATAAT
1 AATAATAGATAAAATCATATTAATAAA
51547985 AATA
1 AATA
51547989 TTTTTTGGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 14 0.52
26 5 0.19
27 8 0.30
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (27 bp):
AATAATAGATAAAATCATATTAATAAA
Found at i:51548002 original size:19 final size:19
Alignment explanation
Indices: 51547978--51548016 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
51547968 AAAATCATAT
51547978 TAATAATAATATTTT-TTGG
1 TAATAA-AATATTTTATTGG
*
51547997 TAATAAAATTTTTTATTGG
1 TAATAAAATATTTTATTGG
51548016 T
1 T
51548017 TTGAACTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.54
Consensus pattern (19 bp):
TAATAAAATATTTTATTGG
Found at i:51549799 original size:40 final size:40
Alignment explanation
Indices: 51549751--51550013 Score: 359
Period size: 40 Copynumber: 6.6 Consensus size: 40
51549741 CTACTCGCTC
* * *
51549751 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCACACC
1 AATGCCTTCGGGACTTAGCCCGGATATAATAACTCACACA
* * *
51549791 AATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAATAACTCACACA
* *
51549831 AATGCCTTCGGGACTTAGCCCGGATGTAATAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAATAACTCACACA
*
51549871 AATGCCTTCGGGACTTAGCCCGGATGTAATAACTCACACA
1 AATGCCTTCGGGACTTAGCCCGGATATAATAACTCACACA
* *
51549911 AATGCCTTCGGGACTTAGCCCGGATGTAATAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAATAACTCACACA
* * * *
51549951 AATGCCTTCGGGGCTTAGCCCGGA-ACTAGTCACT-AGCGCA
1 AATGCCTTCGGGACTTAGCCCGGATA-TAATAACTCA-CACA
51549991 AATGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
51550014 TTATCATCCG
Statistics
Matches: 205, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
40 205 1.00
ACGTcount: A:0.26, C:0.29, G:0.24, T:0.22
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATATAATAACTCACACA
Found at i:51549850 original size:80 final size:79
Alignment explanation
Indices: 51549717--51550013 Score: 402
Period size: 80 Copynumber: 3.7 Consensus size: 79
51549707 AAGCCAAGTA
* * * * * *
51549717 CCTTCGGGATTTA-ACCGGATATAGCTACTCGCTC-AATGCCTTCGGGACATAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAA
* *
51549780 TAACTCACACCAATG
65 TAACTCGCACAAATG
51549795 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAA
1 CCTTCGGGACTTAGCCCGGATATAGTA-CTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAA
51549860 TAACTCGCACAAATG
65 TAACTCGCACAAATG
* * *
51549875 CCTTCGGGACTTAGCCCGGATGTAATAACTCACACAAATGCCTTCGGGACTTAGCCCGGATGTAA
1 CCTTCGGGACTTAGCCCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAA
51549940 TAACTCGCACAAATG
65 TAACTCGCACAAATG
* * *
51549955 CCTTCGGGGCTTAGCCCGGA-ACTAGTCACTAGCGCAAATGCCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGGATA-TAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
51550014 TTATCATCCG
Statistics
Matches: 196, Mismatches: 18, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
78 14 0.07
79 16 0.08
80 165 0.84
81 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.23
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAAT
AACTCGCACAAATG
Found at i:51549968 original size:120 final size:120
Alignment explanation
Indices: 51549743--51550013 Score: 400
Period size: 120 Copynumber: 2.3 Consensus size: 120
51549733 GGATATAGCT
* * * *
51549743 ACTCGCTC-AATGCCTTCGGGACATAGCCCGGATATAGTAACTCACACCAATGCCTTCGGGACTT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCACACAAATGCCTTCGGGACTT
* * **
51549807 AGCCCGGATATAGTAGCTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
66 AGCCCGGATATAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAATA
*
51549862 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATAACTCACACAAATGCCTTCGGGACTT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCACACAAATGCCTTCGGGACTT
* * * *
51549927 AGCCCGGATGTAATAACTCGCACAAATGCCTTCGGGGCTTAGCCCGGAACTAGTC
66 AGCCCGGATATAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAATA
* *
51549982 ACTAGCGCAAATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
51550014 TTATCATCCG
Statistics
Matches: 136, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
119 7 0.05
120 129 0.95
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (120 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCACACAAATGCCTTCGGGACTT
AGCCCGGATATAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAATA
Found at i:51582008 original size:27 final size:27
Alignment explanation
Indices: 51581967--51582020 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
51581957 GTAAGACCTT
*
51581967 GTCTAGGACAGTGGCATCAATCTGTGA
1 GTCTAGGACAATGGCATCAATCTGTGA
* *
51581994 GTCTAGGATAATGGCATCGATCTGTGA
1 GTCTAGGACAATGGCATCAATCTGTGA
51582021 CGACATGTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.28
Consensus pattern (27 bp):
GTCTAGGACAATGGCATCAATCTGTGA
Found at i:51588985 original size:20 final size:20
Alignment explanation
Indices: 51588962--51589000 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
51588952 CTATTAAATT
*
51588962 TTTTTGGATATTATTTTTGG
1 TTTTAGGATATTATTTTTGG
* *
51588982 TTTTAGGATTTTTTTTTTG
1 TTTTAGGATATTATTTTTG
51589001 AACTTTGATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.00, G:0.18, T:0.69
Consensus pattern (20 bp):
TTTTAGGATATTATTTTTGG
Found at i:51592344 original size:18 final size:19
Alignment explanation
Indices: 51592309--51592345 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
51592299 TTAAGTTTGA
*
51592309 CTTCCTTTGCTCCACTTTT
1 CTTCCTTTGCTACACTTTT
51592328 CTTCCTTT-CTACACTTTT
1 CTTCCTTTGCTACACTTTT
51592346 GTCGCCCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.08, C:0.35, G:0.03, T:0.54
Consensus pattern (19 bp):
CTTCCTTTGCTACACTTTT
Found at i:51593351 original size:25 final size:25
Alignment explanation
Indices: 51593323--51593374 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
51593313 AGAAACTTCT
*
51593323 ACAAAATTTTGAGTAAAAAGTGCAA
1 ACAAAAGTTTGAGTAAAAAGTGCAA
* *
51593348 AC-AAGGTTTGAGTAAAAAGTGTAA
1 ACAAAAGTTTGAGTAAAAAGTGCAA
51593372 ACA
1 ACA
51593375 GGGGTCACAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 21 0.91
25 2 0.09
ACGTcount: A:0.50, C:0.08, G:0.19, T:0.23
Consensus pattern (25 bp):
ACAAAAGTTTGAGTAAAAAGTGCAA
Found at i:51595496 original size:15 final size:15
Alignment explanation
Indices: 51595476--51595519 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
51595466 GGGATGATGA
*
51595476 TTTTTTTTGTTTTAT
1 TTTTTTTTATTTTAT
*
51595491 TTTTTTATATTTTAT
1 TTTTTTTTATTTTAT
* *
51595506 TATTTTTTAATTTA
1 TTTTTTTTATTTTA
51595520 CTATATTATC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (15 bp):
TTTTTTTTATTTTAT
Found at i:51599076 original size:39 final size:39
Alignment explanation
Indices: 51599031--51599150 Score: 204
Period size: 39 Copynumber: 3.1 Consensus size: 39
51599021 TTCAAGACAT
51599031 TGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGC
1 TGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGC
* * *
51599070 TGGAAATGTATCCGGGCTAAAGTGCCGCGGGCTTCGTGT
1 TGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGC
*
51599109 TGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTGC
1 TGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGC
51599148 TGG
1 TGG
51599151 TAATATAATT
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 74 1.00
ACGTcount: A:0.19, C:0.23, G:0.33, T:0.25
Consensus pattern (39 bp):
TGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGC
Found at i:51601408 original size:28 final size:28
Alignment explanation
Indices: 51601376--51601529 Score: 139
Period size: 28 Copynumber: 5.4 Consensus size: 28
51601366 ACATAGGCAT
51601376 TGTGTGTGCGAGTTCCGTAACTGAGCAC
1 TGTGTGTGCGAGTTCCGTAACTGAGCAC
* * * ***
51601404 TGTGTGTCCGAGATCGGTTGTTGAGGCAC
1 TGTGTGTGCGAGTTCCGTAACTGA-GCAC
*
51601433 TGTGTGTGCGAGTTTCGTAACTGAGCAC
1 TGTGTGTGCGAGTTCCGTAACTGAGCAC
* ***
51601461 TGTGTGTGCGAGAT-CGATTGTTGAGGCAC
1 TGTGTGTGCGAGTTCCG-TAACTGA-GCAC
* ** *
51601490 TATGTGTGCGAGTTTTGTAACCGAGCAC
1 TGTGTGTGCGAGTTCCGTAACTGAGCAC
51601518 TGTGTGTGCGAG
1 TGTGTGTGCGAG
51601530 ATCGATTGTT
Statistics
Matches: 97, Mismatches: 25, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
27 2 0.02
28 54 0.56
29 40 0.41
30 1 0.01
ACGTcount: A:0.17, C:0.17, G:0.35, T:0.31
Consensus pattern (28 bp):
TGTGTGTGCGAGTTCCGTAACTGAGCAC
Found at i:51601438 original size:29 final size:29
Alignment explanation
Indices: 51601400--51601556 Score: 122
Period size: 29 Copynumber: 5.4 Consensus size: 29
51601390 CCGTAACTGA
*
51601400 GCACTGTGTGTCCGAGATCGGTTGTTGAG
1 GCACTGTGTGTGCGAGATCGGTTGTTGAG
* ***
51601429 GCACTGTGTGTGCGAGTTTC-GTAACTGA-
1 GCACTGTGTGTGCGAG-ATCGGTTGTTGAG
*
51601457 GCACTGTGTGTGCGAGATCGATTGTTGAG
1 GCACTGTGTGTGCGAGATCGGTTGTTGAG
* * ** ****
51601486 GCACTATGTGTGCGAGTTTTGTAACCGA-
1 GCACTGTGTGTGCGAGATCGGTTGTTGAG
* *
51601514 GCACTGTGTGTGCGAGATCGATTGTTGGG
1 GCACTGTGTGTGCGAGATCGGTTGTTGAG
51601543 GCACTAAGTGTGTG
1 GCACT--GTGTGTG
51601557 AAATGAGATC
Statistics
Matches: 93, Mismatches: 29, Indels: 10
0.70 0.22 0.08
Matches are distributed among these distances:
27 2 0.02
28 38 0.41
29 44 0.47
30 2 0.02
31 7 0.08
ACGTcount: A:0.17, C:0.16, G:0.36, T:0.31
Consensus pattern (29 bp):
GCACTGTGTGTGCGAGATCGGTTGTTGAG
Found at i:51601458 original size:57 final size:57
Alignment explanation
Indices: 51601370--51601556 Score: 284
Period size: 57 Copynumber: 3.2 Consensus size: 57
51601360 AAGTGAACAT
* * * *
51601370 AGGCATTGTGTGTGCGAGTTCCGTAACTGAGCACTGTGTGTCCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTTCGTAACTGAGCACTGTGTGTGCGAGATCGATTGTTG
51601427 AGGCACTGTGTGTGCGAGTTTCGTAACTGAGCACTGTGTGTGCGAGATCGATTGTTG
1 AGGCACTGTGTGTGCGAGTTTCGTAACTGAGCACTGTGTGTGCGAGATCGATTGTTG
* * *
51601484 AGGCACTATGTGTGCGAGTTTTGTAACCGAGCACTGTGTGTGCGAGATCGATTGTTG
1 AGGCACTGTGTGTGCGAGTTTCGTAACTGAGCACTGTGTGTGCGAGATCGATTGTTG
*
51601541 GGGCACTAAGTGTGTG
1 AGGCACT--GTGTGTG
51601557 AAATGAGATC
Statistics
Matches: 119, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
57 113 0.95
59 6 0.05
ACGTcount: A:0.18, C:0.16, G:0.35, T:0.31
Consensus pattern (57 bp):
AGGCACTGTGTGTGCGAGTTTCGTAACTGAGCACTGTGTGTGCGAGATCGATTGTTG
Found at i:51604735 original size:39 final size:39
Alignment explanation
Indices: 51604619--51604736 Score: 184
Period size: 39 Copynumber: 3.0 Consensus size: 39
51604609 CAAGACACTA
*
51604619 GAAATGTATCCGGGCTAAAG-TCCTGCAGGCTTTGTGCTA
1 GAAATGTATCCGGGCTAAAGTTCC-GCAGGCTTTGTGCTG
* * *
51604658 GAAATGTATCCAGGCTAAAGTCCCGCAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTTCCGCAGGCTTTGTGCTG
51604697 GAAATGTATCCGGGCTAAAGTTCCGCAGGCTTTGTGCTG
1 GAAATGTATCCGGGCTAAAGTTCCGCAGGCTTTGTGCTG
51604736 G
1 G
51604737 TAATATAATT
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
39 69 0.97
40 2 0.03
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (39 bp):
GAAATGTATCCGGGCTAAAGTTCCGCAGGCTTTGTGCTG
Found at i:51606482 original size:40 final size:40
Alignment explanation
Indices: 51606438--51606625 Score: 281
Period size: 40 Copynumber: 4.7 Consensus size: 40
51606428 GCTACTTGCT
51606438 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
51606478 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
51606518 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
** * * *
51606558 CAAATGCCTTCGGG-CTTAGCTTGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
*
51606597 CAAATGCTTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
51606626 CATCCAAATA
Statistics
Matches: 133, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
38 1 0.01
39 30 0.23
40 101 0.76
41 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Done.