Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 366 of 770
Found at i:112282012 original size:29 final size:29
Alignment explanation
Indices: 112281979--112282110 Score: 201
Period size: 29 Copynumber: 4.6 Consensus size: 29
112281969 CCTCCGAACT
** * * *
112281979 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
112282008 TGCACACTTAGTGCCAAATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
112282037 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
112282066 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
112282095 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
112282111 ATCTCGTCAC
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 94 1.00
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:112284405 original size:6 final size:6
Alignment explanation
Indices: 112284394--112284470 Score: 57
Period size: 6 Copynumber: 12.5 Consensus size: 6
112284384 TCAGAACTAA
* * *
112284394 AATCAG AATCAG AATCAG AATCAG -GTGACAG AATCAG GATTAG AATCAG
1 AATCAG AATCAG AATCAG AATCAG AAT--CAG AATCAG AATCAG AATCAG
* * * *
112284443 TATCAC ATAACAG AATCAA AATCAG AAT
1 AATCAG A-ATCAG AATCAG AATCAG AAT
112284471 GTGAATGCAA
Statistics
Matches: 53, Mismatches: 14, Indels: 8
0.71 0.19 0.11
Matches are distributed among these distances:
5 1 0.02
6 44 0.83
7 7 0.13
8 1 0.02
ACGTcount: A:0.48, C:0.16, G:0.17, T:0.19
Consensus pattern (6 bp):
AATCAG
Found at i:112284456 original size:31 final size:31
Alignment explanation
Indices: 112284394--112284470 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
112284384 TCAGAACTAA
** *
112284394 AATCAGAATCAGAATCAGAATCAGGTGACAG
1 AATCAGAATCAGAATCAGAATCACATAACAG
* * *
112284425 AATCAGGATTAGAATCAGTATCACATAACAG
1 AATCAGAATCAGAATCAGAATCACATAACAG
*
112284456 AATCAAAATCAGAAT
1 AATCAGAATCAGAAT
112284471 GTGAATGCAA
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.48, C:0.16, G:0.17, T:0.19
Consensus pattern (31 bp):
AATCAGAATCAGAATCAGAATCACATAACAG
Found at i:112284649 original size:27 final size:26
Alignment explanation
Indices: 112284607--112284708 Score: 114
Period size: 27 Copynumber: 3.8 Consensus size: 26
112284597 GCTCAGTTAT
* *
112284607 CAGATATTGTGACAGAGTCACCAAATA
1 CAGATATTGTGGCAGAGCCACCAAA-A
*
112284634 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAAAA
*
112284660 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCA-AAA
* * *
112284688 TAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
112284709 TTAACAGAAT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
26 7 0.11
27 51 0.78
28 7 0.11
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAAAA
Found at i:112285412 original size:27 final size:27
Alignment explanation
Indices: 112285382--112285631 Score: 338
Period size: 27 Copynumber: 9.3 Consensus size: 27
112285372 AAGGTATCTA
112285382 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTATAGGGGTATTTC
* *
112285409 GGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTATAGGGGTATTTC
* * *
112285436 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTATAGGGGTATTTC
* *
112285463 GGTAATTTTACCCTATATGGGTATTTC
1 GGTAATTCTACCCTATAGGGGTATTTC
* * * *
112285490 AGTAATTTTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTATAGGGGTATTTC
* * *
112285517 GGTAATTTTACCCTACAGGGATATTTC
1 GGTAATTCTACCCTATAGGGGTATTTC
* *
112285544 GGTAATTCTACCCTATAAGGGTATTTT
1 GGTAATTCTACCCTATAGGGGTATTTC
*
112285571 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTATAGGGGTATTTC
112285598 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTATAGGGGTATTTC
*
112285625 AGTAATT
1 GGTAATT
112285632 TCACAATTGA
Statistics
Matches: 196, Mismatches: 27, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 196 1.00
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (27 bp):
GGTAATTCTACCCTATAGGGGTATTTC
Found at i:112285631 original size:54 final size:54
Alignment explanation
Indices: 112285355--112285623 Score: 351
Period size: 54 Copynumber: 5.0 Consensus size: 54
112285345 AGGGGCAAAA
* * * * *
112285355 TGGTAATTTTACCCCACA-AGGTATCTAGGTAATTCTACCCTATAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTATAGGGGTATTT
* * * *
112285408 CGGTAATTCTACCCTACAGGGGTATTGCGATAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTATAGGGGTATTT
* * * * * *
112285462 TGGTAATTTTACCCTATATGGGTATTTCAGTAATTTTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTATAGGGGTATTT
* * *
112285516 TGGTAATTTTACCCTACAGGGATATTTCGGTAATTCTACCCTATAAGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTATAGGGGTATTT
* *
112285570 TAGTAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCCTATAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTATAGGGGTATTT
112285624 CAGTAATTTC
Statistics
Matches: 186, Mismatches: 29, Indels: 1
0.86 0.13 0.00
Matches are distributed among these distances:
53 15 0.08
54 171 0.92
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.38
Consensus pattern (54 bp):
TGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTATAGGGGTATTT
Found at i:112285683 original size:27 final size:27
Alignment explanation
Indices: 112285643--112286181 Score: 701
Period size: 27 Copynumber: 19.9 Consensus size: 27
112285633 CACAATTGAA
** *
112285643 GGTAAAATAGTAATTCTGTAAATCAAG
1 GGTAAAACGGTAATTCTGTAAATCGAG
* * *
112285670 GGTAAAACGATAATTTTGTAAACCGAG
1 GGTAAAACGGTAATTCTGTAAATCGAG
* * *
112285697 GGTAAACCAGTAATTCTATAAATCGAG
1 GGTAAAACGGTAATTCTGTAAATCGAG
*
112285724 GGTAAAACGGTAATTCTGTAAATCTAG
1 GGTAAAACGGTAATTCTGTAAATCGAG
*
112285751 GGTAAAACGGTAATTTTGTAAATCGAG
1 GGTAAAACGGTAATTCTGTAAATCGAG
*
112285778 GGTAAAACAGTAATTCTGTAAATCGAG
1 GGTAAAACGGTAATTCTGTAAATCGAG
**
112285805 GGTAAAATAGTAATTCTGTAAA-CTGAG
1 GGTAAAACGGTAATTCTGTAAATC-GAG
*
112285832 GGTAAAACGATAATTCTGTAAA-CTGAG
1 GGTAAAACGGTAATTCTGTAAATC-GAG
*
112285859 GGTAAAACGGTAATTCTATAAATCGAG
1 GGTAAAACGGTAATTCTGTAAATCGAG
**
112285886 GGTAAAATAGTAATTCTGTAAA-CTGAG
1 GGTAAAACGGTAATTCTGTAAATC-GAG
* *
112285913 GGTAAAACGGTAATTCTATAAATTGAG
1 GGTAAAACGGTAATTCTGTAAATCGAG
* *
112285940 GGTAAAACGGTAATTTTGCAAATCGAG
1 GGTAAAACGGTAATTCTGTAAATCGAG
*
112285967 GGTAAAACGGTAATTCTATAAATCGAG
1 GGTAAAACGGTAATTCTGTAAATCGAG
*
112285994 GGTAAAACAGTAATTCTGTAAA-CTGAG
1 GGTAAAACGGTAATTCTGTAAATC-GAG
*
112286021 GGTAAAACGGTAACTCTGTAAATCGAG
1 GGTAAAACGGTAATTCTGTAAATCGAG
*
112286048 GGTAAAATGGTAATTCTGTAAA-CTGAG
1 GGTAAAACGGTAATTCTGTAAATC-GAG
112286075 GGTAAAACGGTAATTCTGTAAATCGAG
1 GGTAAAACGGTAATTCTGTAAATCGAG
* * **
112286102 GGTAAAATGGTAATTTTAAAAATCGAG
1 GGTAAAACGGTAATTCTGTAAATCGAG
*
112286129 GGTAAAAATGGTAATTCTGTAAATCGAG
1 GGT-AAAACGGTAATTCTGTAAATCGAG
*
112286157 GGTAAAACGGTGATTCTGTAAATCG
1 GGTAAAACGGTAATTCTGTAAATCG
112286182 GGAGTACTTT
Statistics
Matches: 447, Mismatches: 56, Indels: 18
0.86 0.11 0.03
Matches are distributed among these distances:
26 4 0.01
27 416 0.93
28 27 0.06
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.27
Consensus pattern (27 bp):
GGTAAAACGGTAATTCTGTAAATCGAG
Found at i:112293395 original size:27 final size:29
Alignment explanation
Indices: 112293365--112293479 Score: 99
Period size: 29 Copynumber: 4.0 Consensus size: 29
112293355 ACGCAAGAGC
*
112293365 ATATA-GTGAATC-CGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
* **
112293392 ATATATTTTCAGCTCGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
* **
112293421 ATATAATTTTCAGCTCGCACACTTAGTGCT
1 ATAT-ATGTGAAGCTCGCACACTTAGTGCT
* * ** *
112293451 ATATGTTTTCAGTTCGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
112293480 GTACAATTTT
Statistics
Matches: 79, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
27 5 0.06
28 3 0.04
29 42 0.53
30 29 0.37
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.37
Consensus pattern (29 bp):
ATATATGTGAAGCTCGCACACTTAGTGCT
Found at i:112293432 original size:30 final size:29
Alignment explanation
Indices: 112293377--112293479 Score: 179
Period size: 29 Copynumber: 3.5 Consensus size: 29
112293367 ATAGTGAATC
112293377 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
112293406 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
* *
112293436 CGCACACTTAGTGCTATATGTTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
112293465 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
112293480 GTACAATTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
29 42 0.59
30 29 0.41
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:112293469 original size:59 final size:60
Alignment explanation
Indices: 112293376--112293509 Score: 198
Period size: 59 Copynumber: 2.2 Consensus size: 60
112293366 TATAGTGAAT
* * *
112293376 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA-TTTTCAGC
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
* * * *
112293435 TCGCACACTTAGTGCTATATGTTTTCAGTTCGCACACTTAGTGCTGTACAATTTTTAAAC
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
112293495 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
112293510 CAATCTTGTC
Statistics
Matches: 66, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
59 46 0.70
60 20 0.30
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (60 bp):
CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
Found at i:112294848 original size:17 final size:19
Alignment explanation
Indices: 112294814--112294851 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
112294804 TCCACACCCA
112294814 TTTTTTTTCATCATTTTCTT
1 TTTTTTTTCA-CATTTTCTT
112294834 TTTTTTTTC-CA-TTTCTT
1 TTTTTTTTCACATTTTCTT
112294851 T
1 T
112294852 ATTCTCCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
18 2 0.11
20 9 0.50
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTTTTTCACATTTTCTT
Found at i:112298085 original size:27 final size:27
Alignment explanation
Indices: 112298066--112298195 Score: 161
Period size: 27 Copynumber: 4.8 Consensus size: 27
112298056 ATTACCAAAG
* * *
112298066 TACCCTCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAAAATTACCATTT
* * *
112298093 TACCATCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
* * *
112298120 TACCCTCAATTTACAAAACTACCGTTT
1 TACCCTCGATTTACAAAATTACCATTT
* *
112298147 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCATTT
112298174 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAAAATTAC
112298196 TAAAATACTC
Statistics
Matches: 89, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 89 1.00
ACGTcount: A:0.31, C:0.25, G:0.08, T:0.37
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCATTT
Found at i:112298114 original size:54 final size:54
Alignment explanation
Indices: 112298066--112298195 Score: 197
Period size: 54 Copynumber: 2.4 Consensus size: 54
112298056 ATTACCAAAG
* * *
112298066 TACCCTCGATTTACAGAATTATCGTTTTACCATCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCATCGATTTACAGAATTACCATTT
* * * *
112298120 TACCCTCAATTTACAAAACTACCGTTTTACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCATCGATTTACAGAATTACCATTT
112298174 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAAAATTAC
112298196 TAAAATACTC
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 67 1.00
ACGTcount: A:0.31, C:0.25, G:0.08, T:0.37
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACCGTTTTACCATCGATTTACAGAATTACCATTT
Found at i:112298213 original size:27 final size:27
Alignment explanation
Indices: 112298183--112298258 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 27
112298173 TTACCCTCGA
112298183 TTTACAAAATTACTAAAATA-CTCTTGG
1 TTTACAAAATTACTAAAATACCT-TTGG
*
112298210 TTTACAAAATTACCAAAATACCTTTGG
1 TTTACAAAATTACTAAAATACCTTTGG
* * *
112298237 TTCATAGAATTACTAAAATACC
1 TTTACAAAATTACTAAAATACC
112298259 CCTGTAGGGT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
27 41 0.95
28 2 0.05
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.34
Consensus pattern (27 bp):
TTTACAAAATTACTAAAATACCTTTGG
Found at i:112298214 original size:54 final size:54
Alignment explanation
Indices: 112298093--112298224 Score: 138
Period size: 54 Copynumber: 2.4 Consensus size: 54
112298083 ATTATCGTTT
* * ****
112298093 TACCATCGATTTATAGAATTACCATTTTACCCTCAATTTACAAAACTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCAATTTACAAAACTACCAAAA
* * * *
112298147 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCAATTTACAAAACTACCAAAA
* * * *
112298201 TACTCTTGGTTTACAAAATTACCA
1 TACCCTCGATTTACAGAATTACCA
112298225 AAATACCTTT
Statistics
Matches: 63, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 63 1.00
ACGTcount: A:0.34, C:0.23, G:0.07, T:0.36
Consensus pattern (54 bp):
TACCCTCGATTTACAGAATTACCATTTTACCCTCAATTTACAAAACTACCAAAA
Found at i:112298271 original size:27 final size:27
Alignment explanation
Indices: 112298241--112298601 Score: 445
Period size: 27 Copynumber: 13.4 Consensus size: 27
112298231 CTTTGGTTCA
**
112298241 TAGAATTACTAAAATACCCCTGTAGGG
1 TAGAATTACCGAAATACCCCTGTAGGG
112298268 TAGAATTACCGAAATACCCCTGTAGGG
1 TAGAATTACCGAAATACCCCTGTAGGG
112298295 TAGAATTACCGAAATACCCCTGTAGGG
1 TAGAATTACCGAAATACCCCTGTAGGG
* ** * * *
112298322 TATAATTATTGAAATAACCCTTTAAGG
1 TAGAATTACCGAAATACCCCTGTAGGG
* *
112298349 TAGAATTACCAAAATACCCCTATAGGG
1 TAGAATTACCGAAATACCCCTGTAGGG
* * * *
112298376 TATAATTACTGAAATACCCCTATAAGG
1 TAGAATTACCGAAATACCCCTGTAGGG
* *
112298403 TAGAATTACTGAAATACCCTTGTAGGG
1 TAGAATTACCGAAATACCCCTGTAGGG
** *
112298430 TAGAATTATTGAAATACCCCTGTAAGG
1 TAGAATTACCGAAATACCCCTGTAGGG
112298457 TAGAATTACCGAAATACCCCTGTAGGG
1 TAGAATTACCGAAATACCCCTGTAGGG
112298484 TAGAATTACCGAAATACCCCTGTAGGG
1 TAGAATTACCGAAATACCCCTGTAGGG
* *
112298511 TAGAATTACCGAAATACCCTTGTAGGT
1 TAGAATTACCGAAATACCCCTGTAGGG
* * ** * *
112298538 TAGAAATACTGATTTACTCCTGTAAGG
1 TAGAATTACCGAAATACCCCTGTAGGG
*
112298565 TAGAATTACCGAGATACCCTCT-TAGGG
1 TAGAATTACCGAAATACCC-CTGTAGGG
*
112298592 TAAAATTACC
1 TAGAATTACC
112298602 ATTTTGCCCC
Statistics
Matches: 287, Mismatches: 46, Indels: 2
0.86 0.14 0.01
Matches are distributed among these distances:
27 285 0.99
28 2 0.01
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (27 bp):
TAGAATTACCGAAATACCCCTGTAGGG
Found at i:112298542 original size:108 final size:108
Alignment explanation
Indices: 112298241--112298601 Score: 517
Period size: 108 Copynumber: 3.3 Consensus size: 108
112298231 CTTTGGTTCA
*
112298241 TAGAATTACTAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCG
1 TAGAATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCG
* * * *
112298306 AAATACCCCTGTAGGGTATAATTATTGAAATAACCCTTTAAGG
66 AAATACCCTTGTAGGGTAGAATTATTGAAATACCCCTGTAAGG
* * * * * *
112298349 TAGAATTACCAAAATACCCCTATAGGGTATAATTACTGAAATACCCCTATAAGGTAGAATTACTG
1 TAGAATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCG
112298414 AAATACCCTTGTAGGGTAGAATTATTGAAATACCCCTGTAAGG
66 AAATACCCTTGTAGGGTAGAATTATTGAAATACCCCTGTAAGG
*
112298457 TAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCG
1 TAGAATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCG
* * * ** *
112298522 AAATACCCTTGTAGGTTAGAAATACTGATTTACTCCTGTAAGG
66 AAATACCCTTGTAGGGTAGAATTATTGAAATACCCCTGTAAGG
* * *
112298565 TAGAATTACCGAGATACCCTCT-TAGGGTAAAATTACC
1 TAGAATTACCAAAATACCC-CTGTAGGGTAGAATTACC
112298602 ATTTTGCCCC
Statistics
Matches: 226, Mismatches: 26, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
108 224 0.99
109 2 0.01
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (108 bp):
TAGAATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCG
AAATACCCTTGTAGGGTAGAATTATTGAAATACCCCTGTAAGG
Found at i:112298932 original size:20 final size:20
Alignment explanation
Indices: 112298892--112298932 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
112298882 TGTGTGCCAT
* *
112298892 TATTGTGGGCTTCTTATCGA
1 TATTGTGGGCTTCGTACCGA
*
112298912 TATTGTGGGCTTCGTGCCGA
1 TATTGTGGGCTTCGTACCGA
112298932 T
1 T
112298933 TATAGACCCG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.12, C:0.17, G:0.29, T:0.41
Consensus pattern (20 bp):
TATTGTGGGCTTCGTACCGA
Found at i:112298981 original size:22 final size:22
Alignment explanation
Indices: 112298949--112299007 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
112298939 CCCGTTATCG
*
112298949 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
112298971 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
112298993 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
112299008 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:112299194 original size:27 final size:27
Alignment explanation
Indices: 112299164--112299268 Score: 97
Period size: 27 Copynumber: 3.9 Consensus size: 27
112299154 TATTCTATTA
* *
112299164 AGTGGCTTTGCTACATTATCTGATTCT
1 AGTGGCTTTGCCACAATATCTGATTCT
* *
112299191 AGTGGCTATGCCACAAATAT-TTATTCT
1 AGTGGCTTTGCCAC-AATATCTGATTCT
*
112299218 GGTGGCTTTGCCACAATATCTG-TATCT
1 AGTGGCTTTGCCACAATATCTGAT-TCT
* * * *
112299245 GGTGACTCTGTCACAATATCTGAT
1 AGTGGCTTTGCCACAATATCTGAT
112299269 AACTGAGCAG
Statistics
Matches: 64, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
26 6 0.09
27 53 0.83
28 5 0.08
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (27 bp):
AGTGGCTTTGCCACAATATCTGATTCT
Found at i:112299441 original size:6 final size:6
Alignment explanation
Indices: 112299426--112299522 Score: 74
Period size: 6 Copynumber: 15.8 Consensus size: 6
112299416 ATTCTGTTAC
* * *
112299426 CTGATA CTGATT CTGATT TTGATT CTG-TT ACCTGATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* * *
112299475 CTGAAT CT-ATCAC CTAATT CTGATT CTGATT CTGATT CT-AGTT CTGAT
1 CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT CTGA-TT CTGAT
112299523 AATGTTTCTT
Statistics
Matches: 73, Mismatches: 10, Indels: 16
0.74 0.10 0.16
Matches are distributed among these distances:
5 4 0.05
6 60 0.82
7 6 0.08
8 3 0.04
ACGTcount: A:0.22, C:0.19, G:0.14, T:0.45
Consensus pattern (6 bp):
CTGATT
Found at i:112299454 original size:31 final size:31
Alignment explanation
Indices: 112299416--112299538 Score: 142
Period size: 31 Copynumber: 4.0 Consensus size: 31
112299406 CTAATTTTTT
*
112299416 ATTCTGTTACCTGATACTGATTCTGATTTTG
1 ATTCTGTTACCTGATACTGATTCTGATTCTG
112299447 ATTCTGTTACCTGATACTGATTCTGATTCTG
1 ATTCTGTTACCTGATACTGATTCTGATTCTG
* * * * *
112299478 AATCTATCACCTAATTCTGATTCTGATTCTG
1 ATTCTGTTACCTGATACTGATTCTGATTCTG
* * *
112299509 ATTCTAGTT--CTGATAATGTTTCTTATTCTG
1 ATTCT-GTTACCTGATACTGATTCTGATTCTG
112299539 TAATGGGTTA
Statistics
Matches: 77, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
30 16 0.21
31 60 0.78
32 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.14, T:0.47
Consensus pattern (31 bp):
ATTCTGTTACCTGATACTGATTCTGATTCTG
Found at i:112303464 original size:30 final size:30
Alignment explanation
Indices: 112303419--112303478 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
112303409 ATTTAATACG
112303419 AACTTTGGCAAAATTACA-TTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTT-CCCCTA
* *
112303449 AACTTTTGCATAATTACACTTTTTCCCCTA
1 AACTTTGGCAAAATTACACTTTTTCCCCTA
112303479 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.40
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTTCCCCTA
Found at i:112305405 original size:15 final size:15
Alignment explanation
Indices: 112305376--112305425 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
112305366 TAAAGATAAC
*
112305376 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
112305390 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
112305405 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
112305420 AAGAAA
1 AAGAAA
112305426 CCTAAGATAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 8 0.26
15 23 0.74
ACGTcount: A:0.60, C:0.12, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:112308499 original size:93 final size:93
Alignment explanation
Indices: 112308340--112308511 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
112308330 CGCCCATAAG
* * *
112308340 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
112308405 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACAAGTTCGGATGCCTAGTTACATCTCA
* *
112308433 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
112308498 ACAAGTTCGGATGC
66 ACAAGTTCGGATGC
112308512 TCAACCATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACAAGTTCGGATGCCTAGTTACATCTCA
Found at i:112308508 original size:46 final size:46
Alignment explanation
Indices: 112308333--112308508 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
112308323 TGTAACCCGC
* * * *
112308333 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * * *
112308379 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
*
112308429 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* *
112308472 CCATAAGTGAACTCGGACTCAACTCAACAAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
112308509 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:112308976 original size:30 final size:30
Alignment explanation
Indices: 112308931--112308990 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
112308921 ATTTAATACG
*
112308931 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
112308961 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
112308991 GGCTCGGCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:112310092 original size:53 final size:54
Alignment explanation
Indices: 112310035--112310229 Score: 223
Period size: 55 Copynumber: 3.6 Consensus size: 54
112310025 CTTACCATTA
* *
112310035 CCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAATG
1 CCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCACCAATG
* * ** *
112310088 CCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTCATCAATG
1 CCATGTCTTGACATGGTCTTACATGATATCC-TTGCCTTATAG-AACTCACCAATG
* * * * * *
112310143 TCATGTCTTGACATGGTCTTACATGATTTCCTTTCTTTATAGAACTTATCAATG
1 CCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCACCAATG
* *
112310197 CCATGACTTGGCATGGTCTTACATGATATCCTT
1 CCATGTCTTGACATGGTCTTACATGATATCCTT
112310230 ATCTTACCAA
Statistics
Matches: 120, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
52 2 0.02
53 33 0.28
54 41 0.34
55 42 0.35
56 2 0.02
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (54 bp):
CCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCACCAATG
Found at i:112310218 original size:54 final size:54
Alignment explanation
Indices: 112310035--112310229 Score: 232
Period size: 54 Copynumber: 3.6 Consensus size: 54
112310025 CTTACCATTA
* * * *
112310035 CCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAATG
1 CCATGTCTTGACATGGTCTTACATGATATCCTTTCCTTATAGAACTCATCAATG
* * **
112310088 CCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTCATCAATG
1 CCATGTCTTGACATGGTCTTACATGATATCCTTT-CCTTATAG-AACTCATCAATG
* * * *
112310143 TCATGTCTTGACATGGTCTTACATGATTTCCTTTCTTTATAGAACTTATCAATG
1 CCATGTCTTGACATGGTCTTACATGATATCCTTTCCTTATAGAACTCATCAATG
* *
112310197 CCATGACTTGGCATGGTCTTACATGATATCCTT
1 CCATGTCTTGACATGGTCTTACATGATATCCTT
112310230 ATCTTACCAA
Statistics
Matches: 120, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
52 4 0.03
53 30 0.25
54 41 0.34
55 40 0.33
56 5 0.04
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (54 bp):
CCATGTCTTGACATGGTCTTACATGATATCCTTTCCTTATAGAACTCATCAATG
Found at i:112310426 original size:95 final size:95
Alignment explanation
Indices: 112310187--112310426 Score: 217
Period size: 95 Copynumber: 2.5 Consensus size: 95
112310177 CTTTATAGAA
* * * *
112310187 CTTATCAATGCCATGACTTGGCATGGTCTTACATGATATCCTTATCTT--A-CCAAATGCCATGT
1 CTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTAACTTCAATCCAAATGCCATGT
* * *
112310249 TCCAAACATGGTCTTACATGGTATCCTTGT
66 TCCAAACATGGTCTTACACGGGATCCTTGC
* ** ** * *
112310279 CTTAGTGCTAATGTCACATCTTGATGTGGTCTTACATGG-AGTCATTAA--TCAATGCC-GATGC
1 CTTA-T-C-AATGCCATGTCTTGACATGGTCTTACATGGTA-TCCTTAACTTCAAT-CCAAATGC
***
112310340 CAT-TTCTTGACATGGTCTTACACGGGATCCTTGC
61 CATGTTCCAAACATGGTCTTACACGGGATCCTTGC
112310374 CTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTAACTTTCAAT
1 CTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTAAC-TTCAAT
112310427 TCCTCCTTAA
Statistics
Matches: 113, Mismatches: 23, Indels: 21
0.72 0.15 0.13
Matches are distributed among these distances:
92 35 0.31
93 4 0.04
94 3 0.03
95 62 0.55
96 7 0.06
97 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.36
Consensus pattern (95 bp):
CTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTAACTTCAATCCAAATGCCATGT
TCCAAACATGGTCTTACACGGGATCCTTGC
Found at i:112310471 original size:44 final size:44
Alignment explanation
Indices: 112310422--112310505 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
112310412 TCCTTAACTT
* *
112310422 TCAATTCCTCCTTAAATGCCATGTTATGAA-CATGGACTTTTCCA
1 TCAATTCCTCCTTAAATGCCATGGTA-CAACCATGGACTTTTCCA
* *
112310466 TCAATTCTTCCTTAATTGCCATGGTACAACCATGGACTTT
1 TCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTT
112310506 GAGATATCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 2 0.06
44 33 0.94
ACGTcount: A:0.26, C:0.25, G:0.12, T:0.37
Consensus pattern (44 bp):
TCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTTTCCA
Found at i:112318219 original size:21 final size:20
Alignment explanation
Indices: 112318152--112318222 Score: 76
Period size: 19 Copynumber: 3.6 Consensus size: 20
112318142 TACCTGATCA
*
112318152 GAATACGACACATAAGTGCCT
1 GAATACGACACA-AGGTGCCT
112318173 GAA-AC-ACACAAGGTGCCT
1 GAATACGACACAAGGTGCCT
* *
112318191 -ACTGCGACACAAGGTGCCT
1 GAATACGACACAAGGTGCCT
112318210 GAAATACGACACA
1 G-AATACGACACA
112318223 TAAAGTGCCT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
17 1 0.02
18 8 0.20
19 18 0.44
20 2 0.05
21 12 0.29
ACGTcount: A:0.38, C:0.27, G:0.21, T:0.14
Consensus pattern (20 bp):
GAATACGACACAAGGTGCCT
Found at i:112318451 original size:23 final size:24
Alignment explanation
Indices: 112318425--112318519 Score: 93
Period size: 28 Copynumber: 3.6 Consensus size: 24
112318415 AAATGTCCAA
112318425 CCAAAACACACCAG-TATAATCCT
1 CCAAAACACACCAGATATAATCCT
112318448 CCAAAACACACCAGTATCATATAATCCT
1 CCAAAACACACCAG----ATATAATCCT
*
112318476 CCCAAACACACCAGAATAATATAATCCAT
1 CCAAAACACACCAG----ATATAATCC-T
112318505 CCAAAACACACCAGA
1 CCAAAACACACCAGA
112318520 ATAGCACAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
23 14 0.23
25 1 0.02
28 33 0.53
29 14 0.23
ACGTcount: A:0.46, C:0.34, G:0.04, T:0.16
Consensus pattern (24 bp):
CCAAAACACACCAGATATAATCCT
Found at i:112318521 original size:29 final size:28
Alignment explanation
Indices: 112318439--112318522 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
112318429 AACACACCAG
* *
112318439 TATAATCCTCCAAAACACACCAGTATCA
1 TATAATCCTCCAAAACACACCAGAATAA
*
112318467 TATAATCCTCCCAAACACACCAGAATAA
1 TATAATCCTCCAAAACACACCAGAATAA
112318495 TATAATCCATCCAAAACACACCAGAATA
1 TATAATCC-TCCAAAACACACCAGAATA
112318523 GCACAAAGTG
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 33 0.65
29 18 0.35
ACGTcount: A:0.46, C:0.31, G:0.04, T:0.19
Consensus pattern (28 bp):
TATAATCCTCCAAAACACACCAGAATAA
Found at i:112327147 original size:47 final size:47
Alignment explanation
Indices: 112327075--112327205 Score: 163
Period size: 47 Copynumber: 2.8 Consensus size: 47
112327065 CACAATCGAT
* * * * *
112327075 AAATACCTACATCATGGCCCGTAGCCTAATCAAGGTAAGTTATCTTA
1 AAATACCTATATCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCA
* * * * *
112327122 GAGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCCTCTCA
1 AAATACCTATATCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCA
*
112327169 AAATACCTATATCATAGCCCGTAGCCAAATCAAGGTA
1 AAATACCTATATCATGGCCCGTAGCCAAATCAAGGTA
112327206 TTATTCGCAC
Statistics
Matches: 69, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
47 69 1.00
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.24
Consensus pattern (47 bp):
AAATACCTATATCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCA
Found at i:112333303 original size:49 final size:49
Alignment explanation
Indices: 112333245--112334014 Score: 1333
Period size: 49 Copynumber: 15.9 Consensus size: 49
112333235 GTATGAGATG
*
112333245 TATATATGTGATACGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
112333294 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
112333343 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
112333392 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAG--
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
112333439 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
112333488 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
112333537 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
112333586 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAG--
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
112333633 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* **
112333682 TATACATGTGATAAGGCCTAATGAACAATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
112333731 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
112333780 TATATATGTGATAAGGCCTAATGGCCAATG-GATGAATGTGAAAGAG--
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
112333826 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
112333875 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAG--
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
112333922 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
112333971 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
112334015 TATATGTGTG
Statistics
Matches: 686, Mismatches: 26, Indels: 18
0.94 0.04 0.02
Matches are distributed among these distances:
46 30 0.04
47 148 0.22
48 15 0.02
49 493 0.72
ACGTcount: A:0.35, C:0.09, G:0.27, T:0.29
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:112333506 original size:145 final size:145
Alignment explanation
Indices: 112333245--112334014 Score: 1327
Period size: 145 Copynumber: 5.3 Consensus size: 145
112333235 GTATGAGATG
*
112333245 TATATATGTGATACGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA-ATGTGATAAGG
112333310 CCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTG
65 CCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA-ATGTGATAAGGCCTAATGGCCAATGTG
112333375 ATGAATGTGAAAGTGTA
129 ATGAATGTGAAAGTGTA
* *
112333392 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATAT-ATGTGATAAGGC
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATAATGTGATAAGGC
112333456 CTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCAATGTGA
66 CTAATGGCCAATGTGATGAATGTGAAAGTGTATATA-ATGTGATAAGGCCTAATGGCCAATGTGA
112333521 TGAATGTGAAAGTGTA
130 TGAATGTGAAAGTGTA
112333537 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA-ATGTGATAAGG
*
112333602 CCTAATGGCCAATGTGATGAATGTGAAAGAGTATAT-ATGTGATAAGGCCTAATGGCCAATGTGA
65 CCTAATGGCCAATGTGATGAATGTGAAAGTGTATATAATGTGATAAGGCCTAATGGCCAATGTGA
112333666 TGAATGTGAAAGTGTA
130 TGAATGTGAAAGTGTA
* **
112333682 TATACATGTGATAAGGCCTAATGAACAATGTGATGAATGTGAAAGTGTATATACATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA-ATGTGATAAGG
112333747 CCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATG-G
65 CCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA-ATGTGATAAGGCCTAATGGCCAATGTG
*
112333811 ATGAATGTGAAAGAG--
129 ATGAATGTGAAAGTGTA
112333826 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA-ATGTGATAAGG
* *
112333891 CCTAATGGCCAATGTGATGAATGTGAAAGAGTATAT-ATGTGATAAGGCCTAATGGCCGATGTGA
65 CCTAATGGCCAATGTGATGAATGTGAAAGTGTATATAATGTGATAAGGCCTAATGGCCAATGTGA
*
112333955 TGAATGTGAAGGTGTA
130 TGAATGTGAAAGTGTA
*
112333971 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
112334015 TATATGTGTG
Statistics
Matches: 596, Mismatches: 20, Indels: 16
0.94 0.03 0.03
Matches are distributed among these distances:
142 24 0.04
143 14 0.02
144 97 0.16
145 326 0.55
146 15 0.03
147 120 0.20
ACGTcount: A:0.35, C:0.09, G:0.27, T:0.29
Consensus pattern (145 bp):
TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATAATGTGATAAGGC
CTAATGGCCAATGTGATGAATGTGAAAGTGTATATAATGTGATAAGGCCTAATGGCCAATGTGAT
GAATGTGAAAGTGTA
Found at i:112333573 original size:194 final size:194
Alignment explanation
Indices: 112333244--112334014 Score: 1422
Period size: 194 Copynumber: 4.0 Consensus size: 194
112333234 TGTATGAGAT
* *
112333244 GTATATATGTGATACGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
1 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATAAG
112333309 GCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGT
66 GCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGT
112333374 GATGAATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
131 GATGAATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
112333438 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATAAG
1 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATAAG
112333503 GCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGT
66 GCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGT
112333568 GATGAATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
131 GATGAATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
112333632 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATAAG
1 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATAAG
** *
112333697 GCCTAATGAACAATGTGATGAATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCAATGT
66 GCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGT
*
112333762 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATG-GATGAATGTGAAAGA
131 GATGAATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
112333825 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATAAG
1 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATAAG
* *
112333890 GCCTAATGGCCAATGTGATGAATGTGAAAGAG--TATATATGTGATAAGGCCTAATGGCCGATGT
66 GCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGT
* * *
112333953 GATGAATGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
131 GATGAATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
112334015 TATATGTGTG
Statistics
Matches: 563, Mismatches: 13, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
191 75 0.13
192 13 0.02
193 109 0.19
194 366 0.65
ACGTcount: A:0.35, C:0.09, G:0.27, T:0.29
Consensus pattern (194 bp):
GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATAAG
GCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGT
GATGAATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
Found at i:112334063 original size:48 final size:48
Alignment explanation
Indices: 112334006--112334157 Score: 286
Period size: 48 Copynumber: 3.2 Consensus size: 48
112333996 CGATGTGATG
*
112334006 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAAGGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
112334054 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
*
112334102 AATGTGAAATATATGTGTGATATGTATGTGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
112334150 AATGTGAA
1 AATGTGAA
112334158 TGTTGTAACA
Statistics
Matches: 102, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 102 1.00
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.32
Consensus pattern (48 bp):
AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
Found at i:112334251 original size:37 final size:37
Alignment explanation
Indices: 112334197--112334287 Score: 164
Period size: 37 Copynumber: 2.4 Consensus size: 37
112334187 AACTTGGAAA
*
112334197 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGTAAGACCCGATGACTACGTGTGGAGAT
112334235 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
112334272 TATGTCCGGGTAAGAC
1 TATGTCCGGGTAAGAC
112334288 TTCGTAATAA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 48 0.92
38 4 0.08
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (37 bp):
TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
Found at i:112336743 original size:18 final size:18
Alignment explanation
Indices: 112336720--112336761 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
112336710 AGAGGTCATG
112336720 TTTGACCCCATGTAACTC
1 TTTGACCCCATGTAACTC
**
112336738 TTTGACTTCATGTAACTC
1 TTTGACCCCATGTAACTC
112336756 TTTGAC
1 TTTGAC
112336762 TTGCACACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.21, C:0.26, G:0.12, T:0.40
Consensus pattern (18 bp):
TTTGACCCCATGTAACTC
Found at i:112336762 original size:18 final size:18
Alignment explanation
Indices: 112336728--112336763 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
112336718 TGTTTGACCC
112336728 CATGTAACTCTTTGACTT
1 CATGTAACTCTTTGACTT
112336746 CATGTAACTCTTTGACTT
1 CATGTAACTCTTTGACTT
112336764 GCACACATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.22, G:0.11, T:0.44
Consensus pattern (18 bp):
CATGTAACTCTTTGACTT
Found at i:112338777 original size:26 final size:26
Alignment explanation
Indices: 112338722--112338777 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
112338712 CAACCTTAAC
* *
112338722 CCTAGGGGTACATCAGTAATTTTACT
1 CCTAGGGGTAAATCAGTAATTTTACA
112338748 CCTAGGGGTAAATCTA-TAAATTTT-CA
1 CCTAGGGGTAAATC-AGT-AATTTTACA
112338774 CCTA
1 CCTA
112338778 CAAAGGTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
26 19 0.73
27 7 0.27
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTACA
Found at i:112342235 original size:40 final size:40
Alignment explanation
Indices: 112342190--112342357 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
112342180 CGGAATACAA
112342190 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
112342230 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
112342270 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
112342310 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
112342350 CCGGATAT
1 CCGGATAT
112342358 CATTCAATTG
Statistics
Matches: 105, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
39 3 0.03
40 100 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:112344497 original size:40 final size:40
Alignment explanation
Indices: 112344438--112344579 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
112344428 AAATTGAATG
* * *
112344438 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
112344478 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
112344518 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
112344558 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
112344580 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:112344580 original size:40 final size:39
Alignment explanation
Indices: 112344477--112344605 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
112344467 TGCTGGAAAT
* * *
112344477 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
112344517 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
112344557 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
112344597 TATATCCGG
1 TATATCCGG
112344606 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:112352496 original size:38 final size:40
Alignment explanation
Indices: 112352445--112352553 Score: 143
Period size: 38 Copynumber: 2.8 Consensus size: 40
112352435 CTGGAAATTA
* *
112352445 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-T-GGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTAGGC
**
112352483 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTTAGGC
*
112352523 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
112352554 ACGTGATTAT
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
37 3 0.05
38 28 0.45
39 1 0.02
40 28 0.45
41 2 0.03
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTAGGC
Found at i:112352567 original size:40 final size:40
Alignment explanation
Indices: 112352405--112352569 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
112352395 AAATTGAATG
* * **
112352405 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTGATT
* * *
112352444 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG--G
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATT
* *
112352482 CTATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGATT
* *
112352522 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGATT
112352562 ATATCCGG
1 ATATCCGG
112352570 TTATATTCCG
Statistics
Matches: 104, Mismatches: 15, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
37 3 0.03
38 29 0.28
39 14 0.13
40 56 0.54
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATT
Found at i:112358966 original size:40 final size:40
Alignment explanation
Indices: 112358907--112359037 Score: 172
Period size: 40 Copynumber: 3.3 Consensus size: 40
112358897 CGGGACTTTA
* * *
112358907 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
112358947 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
112358987 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
112359027 CCCGGATATAA
1 CCCGGATATAA
112359038 TTTCAGCATA
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 78 1.00
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:112359070 original size:39 final size:40
Alignment explanation
Indices: 112358924--112359074 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 40
112358914 ATCACGATTT
* * * *
112358924 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
*
112358964 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
* * *
112359004 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-A
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
* * *
112359043 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
112359075 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
39 31 0.32
40 64 0.66
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
Found at i:112367065 original size:40 final size:40
Alignment explanation
Indices: 112367006--112367136 Score: 172
Period size: 40 Copynumber: 3.3 Consensus size: 40
112366996 CGGGACTTTA
* * *
112367006 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
112367046 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
112367086 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
112367126 CCCGGATATAA
1 CCCGGATATAA
112367137 TTTCAGCATA
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 78 1.00
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:112367169 original size:39 final size:40
Alignment explanation
Indices: 112367023--112367173 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 40
112367013 ATCACGATTT
* * * *
112367023 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
*
112367063 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
* * *
112367103 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-A
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
* * *
112367142 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
112367174 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
39 31 0.32
40 64 0.66
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
Found at i:112372492 original size:13 final size:13
Alignment explanation
Indices: 112372474--112372498 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
112372464 GTGAATCTTT
112372474 AGTGCTTCATTTG
1 AGTGCTTCATTTG
112372487 AGTGCTTCATTT
1 AGTGCTTCATTT
112372499 TATTGTCCTT
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:0.16, C:0.16, G:0.20, T:0.48
Consensus pattern (13 bp):
AGTGCTTCATTTG
Found at i:112382335 original size:2 final size:2
Alignment explanation
Indices: 112382325--112382366 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
112382315 GTTATGTGTG
* *
112382325 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TC TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
112382367 CATGAGTATG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:112382928 original size:31 final size:31
Alignment explanation
Indices: 112382845--112382930 Score: 83
Period size: 31 Copynumber: 2.9 Consensus size: 31
112382835 AAATTTGTAC
*
112382845 AGCACTAAGTGTGCGAG-T--TTGAT-TATAT
1 AGCACTAAGTGTGCGAGCTCAAT-ATATATAT
* * *
112382873 CGCACTCAGTGTGCGAGCTGAATATATATAT
1 AGCACTAAGTGTGCGAGCTCAATATATATAT
112382904 AGCACTAAGTGTGCG-GACTCAATATAT
1 AGCACTAAGTGTGCGAG-CTCAATATAT
112382931 GCTTTTGCAT
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
28 15 0.32
29 1 0.02
30 3 0.06
31 28 0.60
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.30
Consensus pattern (31 bp):
AGCACTAAGTGTGCGAGCTCAATATATATAT
Found at i:112386662 original size:51 final size:49
Alignment explanation
Indices: 112386596--112386741 Score: 177
Period size: 49 Copynumber: 2.9 Consensus size: 49
112386586 TAGCCGAAGC
* * * *
112386596 TATCTGGTACGCATAGTAGCCTGCAATTAGTATTACACACGTGATCACAGT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
* *
112386647 T-TTCGAGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
1 TATCCG-GTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* * *
112386696 TATCCGGTACACGTAGTAGCCTCCACTTAGTACTACACACGTGACC
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACC
112386742 CCACAATAGT
Statistics
Matches: 82, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
49 40 0.49
50 6 0.07
51 36 0.44
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.27
Consensus pattern (49 bp):
TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:112396946 original size:53 final size:53
Alignment explanation
Indices: 112396883--112396987 Score: 192
Period size: 53 Copynumber: 2.0 Consensus size: 53
112396873 GTATGAAGTT
*
112396883 AACTAAATTTGGCTTATTCAAGTTGAATCATATATATGATCTTGTGAAAATTA
1 AACTAAATTTGGCTTATTCAAGTTGAATCATATACATGATCTTGTGAAAATTA
*
112396936 AACTAAATTTGGCTTATTCAAGTTGAATTATATACATGATCTTGTGAAAATT
1 AACTAAATTTGGCTTATTCAAGTTGAATCATATACATGATCTTGTGAAAATT
112396988 TATTTGCTTA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.40
Consensus pattern (53 bp):
AACTAAATTTGGCTTATTCAAGTTGAATCATATACATGATCTTGTGAAAATTA
Found at i:112407251 original size:27 final size:26
Alignment explanation
Indices: 112407216--112407336 Score: 152
Period size: 27 Copynumber: 4.5 Consensus size: 26
112407206 CTTTATGATA
* * *
112407216 AAATGACTATATTGCCCCTGTGTGGT
1 AAATGACTATTTTGCCCTTATGTGGT
*
112407242 ATAATGACTATTTTGCTCTTATGTGGT
1 A-AATGACTATTTTGCCCTTATGTGGT
112407269 AAAATGACTATTTTGCCCTTATGTGGT
1 -AAATGACTATTTTGCCCTTATGTGGT
*
112407296 AAATTGACTATTTTGCCTTTATGTGGT
1 AAA-TGACTATTTTGCCCTTATGTGGT
*
112407323 AAAAAGACTATTTT
1 -AAATGACTATTTT
112407337 TTTCCCTTAT
Statistics
Matches: 84, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
26 4 0.05
27 76 0.90
28 4 0.05
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.42
Consensus pattern (26 bp):
AAATGACTATTTTGCCCTTATGTGGT
Found at i:112407285 original size:54 final size:54
Alignment explanation
Indices: 112407214--112407336 Score: 178
Period size: 54 Copynumber: 2.3 Consensus size: 54
112407204 CTCTTTATGA
* *
112407214 TAAAATGACTATATTGCCCCTGTGTGGTATAA-TGACTATTTTG-CTCTTATGTGG
1 TAAAATGACTATTTTGCCCCTATGTGGTA-AATTGACTATTTTGCCT-TTATGTGG
*
112407268 TAAAATGACTATTTTGCCCTTATGTGGTAAATTGACTATTTTGCCTTTATGTGG
1 TAAAATGACTATTTTGCCCCTATGTGGTAAATTGACTATTTTGCCTTTATGTGG
*
112407322 TAAAAAGACTATTTT
1 TAAAATGACTATTTT
112407337 TTTCCCTTAT
Statistics
Matches: 63, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
53 2 0.03
54 59 0.94
55 2 0.03
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.42
Consensus pattern (54 bp):
TAAAATGACTATTTTGCCCCTATGTGGTAAATTGACTATTTTGCCTTTATGTGG
Found at i:112407375 original size:56 final size:54
Alignment explanation
Indices: 112407246--112407376 Score: 147
Period size: 56 Copynumber: 2.4 Consensus size: 54
112407236 TGTGGTATAA
* * * *
112407246 TGACTATTTTGCTCTTATGTGGTAAAATGACTATTTTGCCCTTATGTGGTAAAT
1 TGACTATTTTGCCCTTATGTGGTAAAAAGACTATTTTGCCCTTATATGCTAAAT
* *
112407300 TGACTATTTTGCCTTTATGTGGTAAAAAGACTATTTTTTTCCCTTATATGCTAAGA-
1 TGACTATTTTGCCCTTATGTGGTAAAAAGACTA--TTTTGCCCTTATATGCTAA-AT
* * *
112407356 TGATTGTTTTGCCCCTATGTG
1 TGACTATTTTGCCCTTATGTG
112407377 ATGTATGTTT
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
54 30 0.47
56 33 0.52
57 1 0.02
ACGTcount: A:0.23, C:0.15, G:0.18, T:0.45
Consensus pattern (54 bp):
TGACTATTTTGCCCTTATGTGGTAAAAAGACTATTTTGCCCTTATATGCTAAAT
Found at i:112415213 original size:30 final size:30
Alignment explanation
Indices: 112415173--112415243 Score: 115
Period size: 30 Copynumber: 2.4 Consensus size: 30
112415163 CTATGTGTTA
*
112415173 GCCCGTGTGTCACACACGGCCAATAAACAT
1 GCCCGTGTGTCACACACGGCCAATAAACAC
* *
112415203 GCCCATGTGTCACACACGGCTAATAAACAC
1 GCCCGTGTGTCACACACGGCCAATAAACAC
112415233 GCCCGTGTGTC
1 GCCCGTGTGTC
112415244 TAGGCCGTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.27, C:0.34, G:0.21, T:0.18
Consensus pattern (30 bp):
GCCCGTGTGTCACACACGGCCAATAAACAC
Found at i:112416468 original size:20 final size:20
Alignment explanation
Indices: 112416381--112416468 Score: 65
Period size: 20 Copynumber: 4.4 Consensus size: 20
112416371 TTTCTATTCG
* * *
112416381 TATAAACTGTAAATCATTCA
1 TATAAACAGTAATTCATCCA
*
112416401 TAT-AACAAGTAGTTCAT-CA
1 TATAAAC-AGTAATTCATCCA
* *
112416420 GTA-ATAACAGTAATCCATCCG
1 -TATA-AACAGTAATTCATCCA
*
112416441 TATCAACAGTAATTCATCCA
1 TATAAACAGTAATTCATCCA
112416461 TATAAACA
1 TATAAACA
112416469 CTTATCTTAT
Statistics
Matches: 52, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
19 5 0.10
20 43 0.83
21 4 0.08
ACGTcount: A:0.43, C:0.19, G:0.08, T:0.30
Consensus pattern (20 bp):
TATAAACAGTAATTCATCCA
Found at i:112416702 original size:24 final size:24
Alignment explanation
Indices: 112416627--112416705 Score: 99
Period size: 23 Copynumber: 3.3 Consensus size: 24
112416617 AGCTCCTCTT
*
112416627 GAGCTGATGAATAGTAAGCTCATAC
1 GAGCTGA-AAATAGTAAGCTCATAC
* *
112416652 GAGCTGAAAA-GGTAAGCTCCA-AT
1 GAGCTGAAAATAGTAAGCT-CATAC
112416675 GAGCTGAAAATAGTAAGCTCATAC
1 GAGCTGAAAATAGTAAGCTCATAC
112416699 GAGCTGA
1 GAGCTGA
112416706 TATATCAATA
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
23 20 0.43
24 19 0.41
25 7 0.15
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.20
Consensus pattern (24 bp):
GAGCTGAAAATAGTAAGCTCATAC
Found at i:112419360 original size:14 final size:14
Alignment explanation
Indices: 112419341--112419368 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
112419331 CTACTCAGTT
112419341 TGTTACACGGGTAA
1 TGTTACACGGGTAA
112419355 TGTTACACGGGTAA
1 TGTTACACGGGTAA
112419369 GGACACGGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (14 bp):
TGTTACACGGGTAA
Found at i:112420783 original size:22 final size:24
Alignment explanation
Indices: 112420753--112420801 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
112420743 TTTCATTAAT
112420753 ACACATTCA-CATAATCATAC-TTC
1 ACACATTCATCATAAT-ATACTTTC
*
112420776 ACAC-TTCATCATTATATACTTTC
1 ACACATTCATCATAATATACTTTC
112420799 ACA
1 ACA
112420802 AGATATCAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 8 0.35
23 15 0.65
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.35
Consensus pattern (24 bp):
ACACATTCATCATAATATACTTTC
Found at i:112421042 original size:40 final size:40
Alignment explanation
Indices: 112420983--112421190 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 40
112420973 CGGAATACAA
* * *
112420983 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACGACTTGCACAAATGCCTTCGGGTCTTAGC
* *
112421023 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACGACTTGCACAAATGCCTTCGGGTCTTAGC
* * *
112421063 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACGACTTGCACAAATGCCTTCGGGTCTTAGC
* * * * * *
112421103 CCAGATGTAGTC-ACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACGACTTGCACAAATGCCTTCGGGTCTTAGC
* ** * * * *
112421143 CCGTATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACGACTTGCACAAATGCCTTCGGGTCTTAGC
112421183 CCGGATAT
1 CCGGATAT
112421191 CATTCAATTG
Statistics
Matches: 138, Mismatches: 28, Indels: 4
0.81 0.16 0.02
Matches are distributed among these distances:
40 137 0.99
41 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAACGACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:112426062 original size:40 final size:40
Alignment explanation
Indices: 112426003--112426210 Score: 220
Period size: 40 Copynumber: 5.2 Consensus size: 40
112425993 CGGAATACAA
* * *
112426003 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACGACTTGCACAAATGCCTTCGGGTCTTAGC
* *
112426043 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACGACTTGCACAAATGCCTTCGGGTCTTAGC
* * *
112426083 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACGACTTGCACAAATGCCTTCGGGTCTTAGC
* * * * * *
112426123 CCAGATGTAGTC-ACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACGACTTGCACAAATGCCTTCGGGTCTTAGC
** * * * *
112426163 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACGACTTGCACAAATGCCTTCGGGTCTTAGC
112426203 CCGGATAT
1 CCGGATAT
112426211 CATTCAATTG
Statistics
Matches: 140, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
40 139 0.99
41 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAACGACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:112434970 original size:80 final size:80
Alignment explanation
Indices: 112434886--112435034 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
112434876 TATGGTAACC
* * * *
112434886 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
112434950 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
112434966 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
112435031 CCGG
66 CCGG
112435035 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:112434976 original size:40 final size:38
Alignment explanation
Indices: 112434927--112435034 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
112434917 ATCACGATTT
*
112434927 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
112434967 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
112435007 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
112435035 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:112439364 original size:68 final size:70
Alignment explanation
Indices: 112439292--112439489 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
112439282 ACACCCTGTA
* * * *
112439292 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
112439354 ATAAAT
65 ATAAAT
*
112439360 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
112439425 ATAAAT
65 ATAAAT
*
112439431 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
112439490 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:112439403 original size:41 final size:41
Alignment explanation
Indices: 112439358--112439475 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
112439348 TGAAAGATAA
112439358 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
112439399 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
112439429 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
112439470 ATGTAG
1 ATGTAG
112439476 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:112439415 original size:71 final size:71
Alignment explanation
Indices: 112439326--112439489 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
112439316 GAGATGTATC
112439326 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
112439391 AGGACA
66 AGGACA
112439397 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
112439462 AGGACA
66 AGGACA
112439468 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
112439490 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:112445405 original size:46 final size:46
Alignment explanation
Indices: 112445337--112445460 Score: 162
Period size: 46 Copynumber: 2.7 Consensus size: 46
112445327 TTGTGTGACA
112445337 TAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CAAGACG-TAAGC
1 TAGTGTAAGACATGTCTGGGACATGCATCGG-CTACAAGACGAT-AGC
* * * *
112445383 TAGTGTAAGACATGTCTAGGACATGCATCGGCTACGAGATGATAGT
1 TAGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGACGATAGC
112445429 TAGTGTAAGACCATGTCTGGGACATGGCATCG
1 TAGTGTAAGA-CATGTCTGGGACAT-GCATCG
112445461 ATTTGAGATA
Statistics
Matches: 69, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
45 2 0.03
46 47 0.68
47 14 0.20
48 6 0.09
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (46 bp):
TAGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGACGATAGC
Found at i:112445469 original size:47 final size:47
Alignment explanation
Indices: 112445337--112445507 Score: 138
Period size: 47 Copynumber: 3.7 Consensus size: 47
112445327 TTGTGTGACA
* * ** *
112445337 TAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCT-CAAGACGTAAGC
1 TAGTGTAAGACCATGTCTGGGACATGGCATC-G-ATACGAGATATGAGC
* * *
112445383 TAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCTACGAGATGAT-AGT
1 TAGTGTAAGACCATGTCTGGGACATGGCATC-GATACGAGAT-ATGAGC
**
112445429 TAGTGTAAGACCATGTCTGGGACATGGCATCGATTTGAGATATGAGC
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGATACGAGATATGAGC
* * * *
112445476 CAATGAAAGACCGTGTCTGGGACATGGCATCG
1 TAGTGTAAGACCATGTCTGGGACATGGCATCG
112445508 GCACCTTAAC
Statistics
Matches: 106, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
45 2 0.02
46 48 0.45
47 51 0.48
48 5 0.05
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (47 bp):
TAGTGTAAGACCATGTCTGGGACATGGCATCGATACGAGATATGAGC
Found at i:112450342 original size:26 final size:26
Alignment explanation
Indices: 112450285--112450358 Score: 78
Period size: 26 Copynumber: 2.8 Consensus size: 26
112450275 TCTCATCCTT
* * * *
112450285 ATTTTACCCTTAGCAAATTTATTGATG
1 ATTTTACCCTTGGTAAAATT-TTGAAG
112450312 ATTTTACCCTTGGTAAAATTTTGAAG
1 ATTTTACCCTTGGTAAAATTTTGAAG
*
112450338 ATTTTGTCCC-TGGTAAAATTT
1 ATTTT-ACCCTTGGTAAAATTT
112450359 CTAGAAAATA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
26 21 0.51
27 20 0.49
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.45
Consensus pattern (26 bp):
ATTTTACCCTTGGTAAAATTTTGAAG
Found at i:112456246 original size:148 final size:148
Alignment explanation
Indices: 112455978--112456272 Score: 511
Period size: 148 Copynumber: 2.0 Consensus size: 148
112455968 TGAGAGAAGG
* *
112455978 TAGAACGCTTATTGAATGGCATAATGACAAATTAGCCCCTAACGTTTGGGTGTTGGGTCACTTTG
1 TAGAACACTTATTGAATGGCATAATGACAAATTAGCCCCTAACATTTGGGTGTTGGGTCACTTTG
* *
112456043 GCCCTTAAGGTTTTTTTTTGTAGCACTTTCATACATAACTTTGTTCTTTGGGTCAAATTGGTCAT
66 GCCCTTAAGGTTTTTTTTTGGAGCACTTTCATACATAACTTTGTTCTTTAGGTCAAATTGGTCAT
*
112456108 TTTTTAAAGGTCTTCCTA
131 TTTTTAAAGGCCTTCCTA
*
112456126 TAGAACACTTGTTGAATGGCATAATGACAAAATTAGCCCCTAACATTTGGGTGTTGGGTCACTTT
1 TAGAACACTTATTGAATGGCATAATGAC-AAATTAGCCCCTAACATTTGGGTGTTGGGTCACTTT
*
112456191 GGCCCTTAAGG-TTTTTTTTGGAGCACTTTCATACATAACTTTGTTTTTTAGGTCAAATTGGTCA
65 GGCCCTTAAGGTTTTTTTTTGGAGCACTTTCATACATAACTTTGTTCTTTAGGTCAAATTGGTCA
112456255 TTTTTTAAAGGCCTTCCT
130 TTTTTTAAAGGCCTTCCT
112456273 GACATGGCCG
Statistics
Matches: 139, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
148 93 0.67
149 46 0.33
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.40
Consensus pattern (148 bp):
TAGAACACTTATTGAATGGCATAATGACAAATTAGCCCCTAACATTTGGGTGTTGGGTCACTTTG
GCCCTTAAGGTTTTTTTTTGGAGCACTTTCATACATAACTTTGTTCTTTAGGTCAAATTGGTCAT
TTTTTAAAGGCCTTCCTA
Found at i:112456472 original size:8 final size:9
Alignment explanation
Indices: 112456448--112456483 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
112456438 GGATTTACCC
112456448 ACAATTAAA
1 ACAATTAAA
112456457 ACAATTAAA
1 ACAATTAAA
112456466 A-AATTAAA
1 ACAATTAAA
112456474 ACAAGTTAAA
1 ACAA-TTAAA
112456484 CACTAACCAG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 8 0.32
9 12 0.48
10 5 0.20
ACGTcount: A:0.67, C:0.08, G:0.03, T:0.22
Consensus pattern (9 bp):
ACAATTAAA
Found at i:112456472 original size:17 final size:18
Alignment explanation
Indices: 112456450--112456483 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
112456440 ATTTACCCAC
112456450 AATTAAAACAA-TTAAAA
1 AATTAAAACAAGTTAAAA
112456467 AATTAAAACAAGTTAAA
1 AATTAAAACAAGTTAAA
112456484 CACTAACCAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.68, C:0.06, G:0.03, T:0.24
Consensus pattern (18 bp):
AATTAAAACAAGTTAAAA
Found at i:112458685 original size:46 final size:46
Alignment explanation
Indices: 112458618--112458790 Score: 167
Period size: 46 Copynumber: 3.8 Consensus size: 46
112458608 TTTGGGCATT
112458618 CGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGTC
* ** * *
112458664 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAAT--ATAAC-AAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCAT-TTATGGAT-GCGAA--CGTC
* * * * *
112458711 GGAACTCGTTGAGATGAGTCTGAGTTCACTTATGGATGTGAACG-C
1 CGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGTC
*
112458756 CTGAGCTCGTTGAGTTGAGTCCGAGTTCA-TTATGG
1 C-GAACTCGTTGAGTTGAGTCCGAGTTCATTTATGG
112458791 GCGGGTTACA
Statistics
Matches: 100, Mismatches: 19, Indels: 17
0.74 0.14 0.12
Matches are distributed among these distances:
45 11 0.11
46 56 0.56
47 29 0.29
48 4 0.04
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGTC
Found at i:112461738 original size:46 final size:46
Alignment explanation
Indices: 112461684--112461861 Score: 218
Period size: 46 Copynumber: 3.8 Consensus size: 46
112461674 GATATTTGGG
112461684 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAA
* *** * *
112461730 TATCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACT-AG-G
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-TGAGAA
* *
112461777 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAA
*
112461823 CA-CTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CATC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
112461862 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
44 1 0.01
45 3 0.03
46 71 0.63
47 33 0.29
48 3 0.03
49 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAA
Found at i:112461841 original size:93 final size:93
Alignment explanation
Indices: 112461682--112461853 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
112461672 AGGATATTTG
*
112461682 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAATATCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACATCCGAACTCGTTGAG
112461747 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
112461775 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACA-CTCGAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACATC-CGAACTCGTTGA
112461839 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
112461854 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 1 0.01
93 73 0.99
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACATCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:112466766 original size:46 final size:45
Alignment explanation
Indices: 112466713--112466889 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 45
112466703 ATATTTGGGC
112466713 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAA
*** * **
112466758 TATCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACT-AGGC
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-TGAGAA
* *
112466806 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAA
** *
112466851 CGCTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 ATC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
112466890 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
44 1 0.01
45 3 0.03
46 69 0.63
47 33 0.30
48 3 0.03
49 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.29
Consensus pattern (45 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAA
Found at i:112466869 original size:93 final size:93
Alignment explanation
Indices: 112466710--112466881 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
112466700 AGGATATTTG
*
112466710 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAATATCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAAGATCCGAACTCGTTGAG
112466775 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * *
112466803 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCT-CGAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAA-GATCCGAACTCGTTGA
112466867 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
112466882 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
93 72 0.99
94 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAAGATCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:112475750 original size:28 final size:28
Alignment explanation
Indices: 112475681--112475753 Score: 101
Period size: 28 Copynumber: 2.6 Consensus size: 28
112475671 TATGGCACTC
* ** *
112475681 AGTGTACGAAATAGCGAGAATGACACTT
1 AGTGTGCGAAATATTGAGAATGAAACTT
*
112475709 AGTGTGCGAGATATTGAGAATGAAACTT
1 AGTGTGCGAAATATTGAGAATGAAACTT
112475737 AGTGTGCGAAATATTGA
1 AGTGTGCGAAATATTGA
112475754 ATGATTCAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.37, C:0.10, G:0.27, T:0.26
Consensus pattern (28 bp):
AGTGTGCGAAATATTGAGAATGAAACTT
Found at i:112475914 original size:41 final size:40
Alignment explanation
Indices: 112475868--112475982 Score: 108
Period size: 41 Copynumber: 2.8 Consensus size: 40
112475858 ATGGTGATAT
* *
112475868 TCGGGCTTTGAGCCTAGCAAGCCATGTGCTGGTGAATTAAA
1 TCGGGC-TTGAGCCTAGCAGGCCATGTGCTGGTGAATAAAA
* *
112475909 TCGGGCTT-ATGCCTAGCAGGCTTAT-TGCTGGTGTATAAAA
1 TCGGGCTTGA-GCCTAGCAGGC-CATGTGCTGGTGAATAAAA
** * *
112475949 TCAGACCTTGAGTCTAGCAGGCCTTGTGCTGGTG
1 TC-GGGCTTGAGCCTAGCAGGCCATGTGCTGGTG
112475983 TGAGATACAG
Statistics
Matches: 60, Mismatches: 9, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
39 1 0.02
40 28 0.47
41 30 0.50
42 1 0.02
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (40 bp):
TCGGGCTTGAGCCTAGCAGGCCATGTGCTGGTGAATAAAA
Found at i:112479881 original size:27 final size:29
Alignment explanation
Indices: 112479851--112479966 Score: 110
Period size: 29 Copynumber: 4.0 Consensus size: 29
112479841 AACGCAAGAG
*
112479851 TATATA-GTGAATC-CGCACACTTAGTGC
1 TATATATGTGAAGCTCGCACACTTAGTGC
* **
112479878 TATATATTTTCAGCTCGCACACTTAGTGC
1 TATATATGTGAAGCTCGCACACTTAGTGC
* **
112479907 TATATAATTTTCAGCTCGCACACTTAGTGC
1 TATAT-ATGTGAAGCTCGCACACTTAGTGC
* ** *
112479937 TATATATTTTCAGTTCGCACACTTAGTGC
1 TATATATGTGAAGCTCGCACACTTAGTGC
112479966 T
1 T
112479967 GTACAATTTT
Statistics
Matches: 81, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
27 6 0.07
28 3 0.04
29 43 0.53
30 29 0.36
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (29 bp):
TATATATGTGAAGCTCGCACACTTAGTGC
Found at i:112479919 original size:30 final size:29
Alignment explanation
Indices: 112479864--112479966 Score: 188
Period size: 29 Copynumber: 3.5 Consensus size: 29
112479854 ATAGTGAATC
112479864 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
112479893 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
*
112479923 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
112479952 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
112479967 GTACAATTTT
Statistics
Matches: 72, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
29 43 0.60
30 29 0.40
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:112479940 original size:59 final size:60
Alignment explanation
Indices: 112479863--112479996 Score: 207
Period size: 59 Copynumber: 2.2 Consensus size: 60
112479853 TATAGTGAAT
* * *
112479863 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA-TTTTCAGC
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
* * *
112479922 TCGCACACTTAGTGCTATATATTTTCAGTTCGCACACTTAGTGCTGTACAATTTTTAAAC
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
112479982 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
112479997 CAATCTTGTC
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
59 47 0.70
60 20 0.30
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.35
Consensus pattern (60 bp):
CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
Found at i:112487418 original size:27 final size:29
Alignment explanation
Indices: 112487388--112487473 Score: 86
Period size: 29 Copynumber: 3.0 Consensus size: 29
112487378 AACGCAAGAG
*
112487388 TATATA-GTGAATC-CGCACACTTAGTGC
1 TATATATGTGAAGCTCGCACACTTAGTGC
* **
112487415 TATATATTTTCAGCTCGCACACTTAGTGC
1 TATATATGTGAAGCTCGCACACTTAGTGC
* ** *
112487444 TATATATTTTCAGTTCGCACACTTAGTGC
1 TATATATGTGAAGCTCGCACACTTAGTGC
112487473 T
1 T
112487474 GTACAATTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
27 6 0.12
28 3 0.06
29 43 0.83
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (29 bp):
TATATATGTGAAGCTCGCACACTTAGTGC
Found at i:112487433 original size:29 final size:29
Alignment explanation
Indices: 112487401--112487473 Score: 137
Period size: 29 Copynumber: 2.5 Consensus size: 29
112487391 ATAGTGAATC
112487401 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
112487430 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
112487459 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
112487474 GTACAATTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:112497549 original size:26 final size:26
Alignment explanation
Indices: 112497516--112497568 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
112497506 CAACAATAAT
*
112497516 TTATTTTCCATCATCAACTATCAAAA
1 TTATTTTCCAGCATCAACTATCAAAA
112497542 TTATTTTCCAGCATCAACTATCAAAA
1 TTATTTTCCAGCATCAACTATCAAAA
112497568 T
1 T
112497569 ACTCATGCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.23, G:0.02, T:0.38
Consensus pattern (26 bp):
TTATTTTCCAGCATCAACTATCAAAA
Found at i:112499203 original size:41 final size:39
Alignment explanation
Indices: 112499126--112499229 Score: 111
Period size: 41 Copynumber: 2.6 Consensus size: 39
112499116 CAGTGTGGGC
112499126 CTTAGCCCACTCAGATACAGAATCAAATATAAATTAGGGT
1 CTTAGCCCACTCAGATACAGAATCAAATAT-AATTAGGGT
* * *
112499166 CTTAGCCCAGCTCAGATACAGAGTCAGGAATAT-ATTAGAGC
1 CTTAGCCCA-CTCAGATACAGAATCA--AATATAATTAGGGT
* * *
112499207 CTCAGCCTAATCAGATACAGAAT
1 CTTAGCCCACTCAGATACAGAAT
112499230 GCAGATCAGA
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
40 21 0.39
41 28 0.52
43 5 0.09
ACGTcount: A:0.38, C:0.22, G:0.17, T:0.23
Consensus pattern (39 bp):
CTTAGCCCACTCAGATACAGAATCAAATATAATTAGGGT
Found at i:112503447 original size:26 final size:26
Alignment explanation
Indices: 112503416--112503523 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
112503406 TGAAATGTCC
*
112503416 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
112503442 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
112503468 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
112503494 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
112503520 ATCA
1 ATCA
112503524 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:112510541 original size:26 final size:26
Alignment explanation
Indices: 112510510--112510617 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
112510500 TGAAATGTCC
*
112510510 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
112510536 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
112510562 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
112510588 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
112510614 ATCA
1 ATCA
112510618 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:112511065 original size:30 final size:31
Alignment explanation
Indices: 112511021--112511081 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
112511011 TATAATAGCC
* *
112511021 ATTAGGACTAAATTAAA-ACAAATATAAAAT
1 ATTAGGACTAAATTAAATAAAAATAAAAAAT
* *
112511051 ATTAGGGCTGAATTAAATAAAAATAAAAAAT
1 ATTAGGACTAAATTAAATAAAAATAAAAAAT
112511082 TGTAAAGATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 15 0.58
31 11 0.42
ACGTcount: A:0.59, C:0.05, G:0.10, T:0.26
Consensus pattern (31 bp):
ATTAGGACTAAATTAAATAAAAATAAAAAAT
Found at i:112512073 original size:17 final size:17
Alignment explanation
Indices: 112512051--112512083 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
112512041 AAAGCTATTA
112512051 TTTTTTGTT-TTTATTTG
1 TTTTTT-TTATTTATTTG
112512068 TTTTTTTTATTTATTT
1 TTTTTTTTATTTATTT
112512084 ACGGGCCGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.09, C:0.00, G:0.06, T:0.85
Consensus pattern (17 bp):
TTTTTTTTATTTATTTG
Found at i:112513835 original size:39 final size:40
Alignment explanation
Indices: 112513657--112513839 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
112513647 CCGCACCAAG
* * * * * * * *
112513657 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * *
112513697 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAA-T
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCAC-AATT
*
112513737 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * * *
112513777 GCCTTCGGGTCTTAACCCGGATATAATTTC-AGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* *
112513816 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
112513840 CATTCAATTT
Statistics
Matches: 122, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 31 0.25
40 89 0.73
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
Found at i:112519351 original size:40 final size:43
Alignment explanation
Indices: 112519281--112519382 Score: 124
Period size: 44 Copynumber: 2.4 Consensus size: 43
112519271 AAACCAAGTA
* * *
112519281 CCTTCGGGATTTAG-CCGGATATAGCTACTCG-C-TCA-ACTG
1 CCTTCGGGACTTAGCCCGGATATAGCTACTCGACATAATAATG
112519320 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACATAATAATG
1 CCTTCGGGACTTAGCCCGGATATAGCT-ACTCG-ACATAATAATG
112519364 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
112519383 TTATCATCCG
Statistics
Matches: 54, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
39 14 0.26
40 15 0.28
42 1 0.02
43 2 0.04
44 22 0.41
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (43 bp):
CCTTCGGGACTTAGCCCGGATATAGCTACTCGACATAATAATG
Found at i:112527202 original size:40 final size:40
Alignment explanation
Indices: 112527139--112527276 Score: 208
Period size: 40 Copynumber: 3.5 Consensus size: 40
112527129 AAACCAAGTA
* * * *
112527139 CCTTCGGGATTTAG-TCGGATATAGCT-ACTCGCTCAACTG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
112527178 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
112527218 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
112527258 CCTTCGGGAATTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
112527277 TTATCATCCG
Statistics
Matches: 92, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
39 14 0.15
40 78 0.85
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:112531189 original size:40 final size:40
Alignment explanation
Indices: 112531106--112531217 Score: 138
Period size: 40 Copynumber: 2.8 Consensus size: 40
112531096 TCGAATGATG
* *
112531106 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACCAAA
* **
112531146 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTGACCAAA
*
112531186 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
112531218 CTATTATAAC
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
39 1 0.02
40 53 0.85
41 8 0.13
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAA
Found at i:112531231 original size:40 final size:39
Alignment explanation
Indices: 112531106--112531256 Score: 128
Period size: 40 Copynumber: 3.8 Consensus size: 39
112531096 TCGAATGATG
* *
112531106 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGCT-ACCAAA
* * *
112531146 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGCTACCAAA
* **
112531186 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGCTACCA-AA
* * *
112531227 -CCGGGCTATGTCCGAAGGCTTTTGAGCGAG
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAG
112531257 TCGCTATATC
Statistics
Matches: 92, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
39 18 0.20
40 63 0.68
41 11 0.12
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGCTACCAAA
Found at i:112537912 original size:40 final size:40
Alignment explanation
Indices: 112537829--112538036 Score: 168
Period size: 40 Copynumber: 5.2 Consensus size: 40
112537819 CGGGATTTAA
* * * * * * *
112537829 CCGGATATAGTGACTCACTCGATTGTCTTCGGGACCTAGC
1 CCGGATATAGTAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * *
112537869 CCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAAC
1 CCGGATATAGTAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * *
112537909 CCGGATTTGGTAACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATATAGTAACTCGCACGAATGCCTTCGGGTCTTAGC
*
112537949 CCGGATATA-TCAACTCGCACGAATACCTTCGGGTCTTAGC
1 CCGGATATAGT-AACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
112537989 CCGGATGTAATTACTAGCA-TAATTGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACGAA-TGCCTTCGGGTCTTAGC
112538029 CCGGATAT
1 CCGGATAT
112538037 CATTCCAATG
Statistics
Matches: 134, Mismatches: 31, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
39 3 0.02
40 130 0.97
41 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:112538017 original size:80 final size:80
Alignment explanation
Indices: 112537855--112538036 Score: 204
Period size: 80 Copynumber: 2.3 Consensus size: 80
112537845 ACTCGATTGT
* * * * * * * **
112537855 CTTCGGGACCTAGCCCGGTTATAGT-GATTCGCACGATTGCCTTCGGGTCTTAACCCGGATTTGG
1 CTTCGGGACTTAGCCCGGATATA-TCAACTCGCACGAATACCTTCGGGTCTTAACCCGGATGTAA
*
112537919 TAACTTGCACAAAGGC
65 TAACTAGCACAAAGGC
* *
112537935 CTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATACCTTCGGGTCTTAGCCCGGATGTAAT
1 CTTCGGGACTTAGCCCGGATATATCAACTCGCACGAATACCTTCGGGTCTTAACCCGGATGTAAT
* * **
112538000 TACTAGCATAATTGC
66 AACTAGCACAAAGGC
112538015 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
112538037 CATTCCAATG
Statistics
Matches: 84, Mismatches: 17, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
79 1 0.01
80 83 0.99
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.28
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATATCAACTCGCACGAATACCTTCGGGTCTTAACCCGGATGTAAT
AACTAGCACAAAGGC
Found at i:112541982 original size:38 final size:39
Alignment explanation
Indices: 112541882--112541991 Score: 116
Period size: 40 Copynumber: 2.8 Consensus size: 39
112541872 TCGAATGATG
* * *
112541882 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGACTAAGTCCC-AAGGCATTTGTGC-GAGTGACCAAA
* **
112541922 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGACTAAG-TCCCAAGGCATTTGTGCGAGTGACCAAA
*
112541962 TCCGG-TTAAGTCCCAAGGCATTTGTGCGAG
1 TCCGGACTAAGTCCCAAGGCATTTGTGCGAG
112541992 CTATTATAAC
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
38 19 0.32
39 4 0.07
40 27 0.45
41 10 0.17
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGACTAAGTCCCAAGGCATTTGTGCGAGTGACCAAA
Found at i:112546720 original size:27 final size:26
Alignment explanation
Indices: 112546672--112546731 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
112546662 GCGAGGCTGC
*
112546672 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGACAAAGCCACCAGA-A
* * *
112546699 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACAAAGCCACCAGAA
*
112546725 CAAATAT
1 CAGATAT
112546732 ATATATATGT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACAAAGCCACCAGAA
Found at i:112549440 original size:27 final size:27
Alignment explanation
Indices: 112549397--112549642 Score: 230
Period size: 27 Copynumber: 9.1 Consensus size: 27
112549387 GGTCATTATT
*
112549397 TGACCGTAATACCCTTGTAAGGTGAAA
1 TGACCGTAATACCCTTGTAAGGTAAAA
* * *
112549424 TGACTGTAATGCTCTTGT-AGGATAAAA
1 TGACCGTAATACCCTTGTAAGG-TAAAA
*
112549451 TGACCGTAATACCCTTGTAGGGTAAAA
1 TGACCGTAATACCCTTGTAAGGTAAAA
* * *
112549478 TGACCGTCATACCCCTAT-AGAGTAAAA
1 TGACCGTAATACCCTTGTAAG-GTAAAA
* *
112549505 TGACCGTAATACCC-TATAGGGTAAAA
1 TGACCGTAATACCCTTGTAAGGTAAAA
* * * *
112549531 TGACCGTAATGCCCCTATAGGGTAAAA
1 TGACCGTAATACCCTTGTAAGGTAAAA
* *
112549558 TGACCGTAATGCCCTTGTAGGGTAAAA
1 TGACCGTAATACCCTTGTAAGGTAAAA
* *
112549585 TAACCGTAATACCCCTG-AAGGGTAAAA
1 TGACCGTAATACCCTTGTAA-GGTAAAA
* ** * *
112549612 TAATTGTAATACTCTTGTATGGTAAAA
1 TGACCGTAATACCCTTGTAAGGTAAAA
112549639 TGAC
1 TGAC
112549643 GATTATGCCC
Statistics
Matches: 184, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
26 27 0.15
27 154 0.84
28 3 0.02
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.26
Consensus pattern (27 bp):
TGACCGTAATACCCTTGTAAGGTAAAA
Found at i:112549458 original size:54 final size:54
Alignment explanation
Indices: 112549397--112549642 Score: 282
Period size: 54 Copynumber: 4.6 Consensus size: 54
112549387 GGTCATTATT
* * * * * *
112549397 TGACCGTAATACCCTTGTAAGGTGAAATGACTGTAATGCTCTTGTAGGATAAAA
1 TGACCGTAATACCCTTGTAGGGTAAAATGACCGTAATGCCCCTATAGGATAAAA
* *
112549451 TGACCGTAATACCCTTGTAGGGTAAAATGACCGTCATACCCCTATA-GAGTAAAA
1 TGACCGTAATACCCTTGTAGGGTAAAATGACCGTAATGCCCCTATAGGA-TAAAA
* *
112549505 TGACCGTAATACCC-TATAGGGTAAAATGACCGTAATGCCCCTATAGGGTAAAA
1 TGACCGTAATACCCTTGTAGGGTAAAATGACCGTAATGCCCCTATAGGATAAAA
* * * *
112549558 TGACCGTAATGCCCTTGTAGGGTAAAATAACCGTAATACCCCTGA-AGGGTAAAA
1 TGACCGTAATACCCTTGTAGGGTAAAATGACCGTAATGCCCCT-ATAGGATAAAA
* ** * *
112549612 TAATTGTAATACTCTTGTATGGTAAAATGAC
1 TGACCGTAATACCCTTGTAGGGTAAAATGAC
112549643 GATTATGCCC
Statistics
Matches: 165, Mismatches: 23, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
53 48 0.29
54 116 0.70
55 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.26
Consensus pattern (54 bp):
TGACCGTAATACCCTTGTAGGGTAAAATGACCGTAATGCCCCTATAGGATAAAA
Found at i:112549557 original size:80 final size:82
Alignment explanation
Indices: 112549441--112549612 Score: 233
Period size: 80 Copynumber: 2.1 Consensus size: 82
112549431 AATGCTCTTG
* * * *
112549441 TAGGATAAAATGACCGTAATACCCTTGTAGGGTAAAATGACCGTCATACCCCTATAGAGTAAAAT
1 TAGGGTAAAATGACCGTAATACCCCTATAGGGTAAAATGACCGTAATACCCCTATAGAGTAAAAT
*
112549506 GACCGTAATA-CCCT-A
66 AACCGTAATACCCCTGA
* * * * *
112549521 TAGGGTAAAATGACCGTAATGCCCCTATAGGGTAAAATGACCGTAATGCCCTTGTAGGGTAAAAT
1 TAGGGTAAAATGACCGTAATACCCCTATAGGGTAAAATGACCGTAATACCCCTATAGAGTAAAAT
112549586 AACCGTAATACCCCTGA
66 AACCGTAATACCCCTGA
112549603 -AGGGTAAAAT
1 TAGGGTAAAAT
112549613 AATTGTAATA
Statistics
Matches: 80, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
80 65 0.81
81 14 0.17
82 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Consensus pattern (82 bp):
TAGGGTAAAATGACCGTAATACCCCTATAGGGTAAAATGACCGTAATACCCCTATAGAGTAAAAT
AACCGTAATACCCCTGA
Found at i:112549584 original size:107 final size:108
Alignment explanation
Indices: 112549397--112549642 Score: 307
Period size: 107 Copynumber: 2.3 Consensus size: 108
112549387 GGTCATTATT
* * * * * *
112549397 TGACCGTAATACCCTTGTAAGGTGAAATGACTGTAATGCTCTTGTAGGATAAAATGACCGTAATA
1 TGACCGTAATACCCTTATAAGGTAAAATGACCGTAATGCCCCTATAGGATAAAATGACCGTAATA
* *
112549462 CCCTTGTAGGGTAAAATGACCGTCATACCCCTATAGAGTAAAA
66 CCCTTGTAGGGTAAAATAACCGTAATACCCCTATAGAGTAAAA
* * *
112549505 TGACCGTAATACCC-TATAGGGTAAAATGACCGTAATGCCCCTATAGGGTAAAATGACCGTAATG
1 TGACCGTAATACCCTTATAAGGTAAAATGACCGTAATGCCCCTATAGGATAAAATGACCGTAATA
*
112549569 CCCTTGTAGGGTAAAATAACCGTAATACCCCTGA-AGGGTAAAA
66 CCCTTGTAGGGTAAAATAACCGTAATACCCCT-ATAGAGTAAAA
* ** * * *
112549612 TAATTGTAATACTCTTGTATGGTAAAATGAC
1 TGACCGTAATACCCTTATAAGGTAAAATGAC
112549643 GATTATGCCC
Statistics
Matches: 118, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
107 89 0.75
108 29 0.25
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.26
Consensus pattern (108 bp):
TGACCGTAATACCCTTATAAGGTAAAATGACCGTAATGCCCCTATAGGATAAAATGACCGTAATA
CCCTTGTAGGGTAAAATAACCGTAATACCCCTATAGAGTAAAA
Found at i:112549813 original size:27 final size:27
Alignment explanation
Indices: 112549783--112549869 Score: 111
Period size: 27 Copynumber: 3.2 Consensus size: 27
112549773 GGAAGTAGTG
* *
112549783 TACTAGTGACTATGTCACATTTACTGT
1 TACTGGTGGCTATGTCACATTTACTGT
* * *
112549810 TACTGGTGGCTATGCCACAATTACTGA
1 TACTGGTGGCTATGTCACATTTACTGT
*
112549837 TACTGGTGGCTTTGTCACATTTACTGT
1 TACTGGTGGCTATGTCACATTTACTGT
*
112549864 TTCTGG
1 TACTGG
112549870 CAGCTATGCT
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.39
Consensus pattern (27 bp):
TACTGGTGGCTATGTCACATTTACTGT
Found at i:112550082 original size:26 final size:27
Alignment explanation
Indices: 112550019--112550083 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
112550009 CATTACACTG
* *
112550019 CACTGATACTGCATTGGGCTTAAGCCCA
1 CACTGTTACTGTA-TGGGCTTAAGCCCA
112550047 CACTGTTACTGTATGGGC-TAAGGCCCA
1 CACTGTTACTGTATGGGCTTAA-GCCCA
*
112550074 GACTG-TACTG
1 CACTGTTACTG
112550084 ATATTGAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 8 0.24
27 14 0.42
28 11 0.33
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (27 bp):
CACTGTTACTGTATGGGCTTAAGCCCA
Found at i:112555424 original size:46 final size:45
Alignment explanation
Indices: 112555247--112555424 Score: 155
Period size: 46 Copynumber: 3.8 Consensus size: 45
112555237 GTTGTGAGCT
* * * *
112555247 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGAGATCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GACGA-AGCC
* ** *
112555293 AGTGTAAGACCATGTTTGGGACATGGCATCGG-TATTAAGACGAATGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-CGAGACGAA-GCC
* * *
112555341 AGTGTAAAACATGTTTGGGAAATGCATCGGCCT-CGAGACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGACG-AAGCC
*
112555387 AGTGTAAGACATGTCTAGGACATGCATCGGCTACGAGA
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGA
112555425 TGTGTCAATG
Statistics
Matches: 107, Mismatches: 16, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
45 2 0.02
46 54 0.50
47 30 0.28
48 20 0.19
49 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGACGAAGCC
Found at i:112555804 original size:17 final size:17
Alignment explanation
Indices: 112555782--112555815 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
112555772 TGTGCAACTT
112555782 ACTAAGCTTTATTCTTA
1 ACTAAGCTTTATTCTTA
112555799 ACTAAGCTTTATTCTTA
1 ACTAAGCTTTATTCTTA
112555816 CTCCCTCTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.18, G:0.06, T:0.47
Consensus pattern (17 bp):
ACTAAGCTTTATTCTTA
Found at i:112562821 original size:46 final size:45
Alignment explanation
Indices: 112562672--112562847 Score: 156
Period size: 46 Copynumber: 3.8 Consensus size: 45
112562662 CACTTGCTGT
* * **
112562672 AAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATG
1 AAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCAAGATG
* * * * * **
112562717 AGATCCAGTGTAAGACCATGTATAGTACATGGCATCGGCATTGAG-TCG
1 A-AGCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTCAAGAT-G
*
112562765 AATGCTAGTGTAAGACATGTCTAGGAAATGCATCGGCCTCAAGATG
1 AA-GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCAAGATG
* * *
112562811 TAAGCAAGTGTGAGACATGTCTGGGACATGCATCGGC
1 -AAGCTAGTGTAAGACATGTCTAGGACATGCATCGGC
112562848 TACGAGATGT
Statistics
Matches: 101, Mismatches: 23, Indels: 13
0.74 0.17 0.09
Matches are distributed among these distances:
45 1 0.01
46 53 0.52
47 27 0.27
48 20 0.20
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.24
Consensus pattern (45 bp):
AAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCAAGATG
Found at i:112567230 original size:26 final size:25
Alignment explanation
Indices: 112567205--112567259 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
112567195 CCCAACAATA
112567205 AATATATGAAAA-TATTAATAAAAAT
1 AATATATGAAAATTATT-ATAAAAAT
* * *
112567230 AATATTTTAAAATTATTATAAAAGT
1 AATATATGAAAATTATTATAAAAAT
112567255 AATAT
1 AATAT
112567260 GAGCTTTTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 22 0.85
26 4 0.15
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (25 bp):
AATATATGAAAATTATTATAAAAAT
Found at i:112572133 original size:48 final size:48
Alignment explanation
Indices: 112572081--112572177 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
112572071 TTTTCCAATA
112572081 ATAGTGACTTGGCATCGAATGATTTTGTATGTCTGAATGGAATACTAC
1 ATAGTGACTTGGCATCGAATGATTTTGTATGTCTGAATGGAATACTAC
*
112572129 ATAGTGACTTGGTATCGAATGATTTTGTATGTCTGAATGGAATACTAC
1 ATAGTGACTTGGCATCGAATGATTTTGTATGTCTGAATGGAATACTAC
112572177 A
1 A
112572178 ACTTATATAT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.36
Consensus pattern (48 bp):
ATAGTGACTTGGCATCGAATGATTTTGTATGTCTGAATGGAATACTAC
Found at i:112573605 original size:24 final size:24
Alignment explanation
Indices: 112573578--112573627 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
112573568 TTCTATACAC
*
112573578 TTAATCTATGTCAATTATTTGTGG
1 TTAATCTATGCCAATTATTTGTGG
112573602 TTAATCTATGCCAATTATTTGTGG
1 TTAATCTATGCCAATTATTTGTGG
112573626 TT
1 TT
112573628 CTCCATTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.10, G:0.16, T:0.50
Consensus pattern (24 bp):
TTAATCTATGCCAATTATTTGTGG
Found at i:112573884 original size:16 final size:16
Alignment explanation
Indices: 112573865--112573900 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
112573855 TATTAAAACT
* *
112573865 TGTTATTATTAAATTG
1 TGTTACTATTAAATTC
112573881 TGTTACTATTAAATTC
1 TGTTACTATTAAATTC
112573897 TGTT
1 TGTT
112573901 TAGATTATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.28, C:0.06, G:0.11, T:0.56
Consensus pattern (16 bp):
TGTTACTATTAAATTC
Found at i:112574347 original size:29 final size:30
Alignment explanation
Indices: 112574314--112574386 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 30
112574304 AATTTATATC
* * *
112574314 TTTATAATTATTAAAGGATTAAATTA-AAT
1 TTTATTATTATTAAAGGATCAAAGTATAAT
* * *
112574343 TTTATTATTTTTGAAGGGTCAAAGTATAAT
1 TTTATTATTATTAAAGGATCAAAGTATAAT
112574373 TTTATTATTATTAA
1 TTTATTATTATTAA
112574387 TTTAAAATTT
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
29 20 0.57
30 15 0.43
ACGTcount: A:0.40, C:0.01, G:0.10, T:0.49
Consensus pattern (30 bp):
TTTATTATTATTAAAGGATCAAAGTATAAT
Found at i:112574524 original size:39 final size:39
Alignment explanation
Indices: 112574470--112574586 Score: 192
Period size: 39 Copynumber: 3.2 Consensus size: 39
112574460 TTTGACTGTT
112574470 CATGTAGTTAATGTTCTAACAATCTTAATATTTTTAATG
1 CATGTAGTTAATGTTCTAACAATCTTAATATTTTTAATG
112574509 CATGTAGTTAATGTTCTAACAATCTTAATATTTTTAATG
1 CATGTAGTTAATGTTCTAACAATCTTAATATTTTTAATG
112574548 CA--T-G-T--TGTTCTAACAATCTTAATATTTTTAATG
1 CATGTAGTTAATGTTCTAACAATCTTAATATTTTTAATG
112574581 CATGTA
1 CATGTA
112574587 ACTTTATATT
Statistics
Matches: 75, Mismatches: 0, Indels: 9
0.89 0.00 0.11
Matches are distributed among these distances:
33 30 0.40
35 2 0.03
36 1 0.01
37 1 0.01
39 41 0.55
ACGTcount: A:0.32, C:0.11, G:0.10, T:0.46
Consensus pattern (39 bp):
CATGTAGTTAATGTTCTAACAATCTTAATATTTTTAATG
Done.