Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 73 of 345
Found at i:23343458 original size:19 final size:20
Alignment explanation
Indices: 23343421--23343458 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
23343411 ATAAGGTGGT
23343421 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
23343441 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
23343459 TAGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:23345454 original size:5 final size:5
Alignment explanation
Indices: 23345444--23345567 Score: 248
Period size: 5 Copynumber: 24.8 Consensus size: 5
23345434 ATTTAATTAT
23345444 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
23345494 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
23345544 TATAA TATAA TATAA TATAA TATA
1 TATAA TATAA TATAA TATAA TATA
23345568 TATTCTTAAG
Statistics
Matches: 119, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 119 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:23351670 original size:6 final size:6
Alignment explanation
Indices: 23351652--23351771 Score: 77
Period size: 6 Copynumber: 19.3 Consensus size: 6
23351642 AAGAAACGTT
* * *
23351652 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATTAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * *
23351701 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA ATCAGT ATCAAGTA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATC-AG-A
*
23351752 AT-AGA ATCAAAA ATCAGA AT
1 ATCAGA ATC-AGA ATCAGA AT
23351772 GTGAATGCAA
Statistics
Matches: 88, Mismatches: 14, Indels: 24
0.70 0.11 0.19
Matches are distributed among these distances:
5 7 0.08
6 64 0.73
7 13 0.15
8 4 0.05
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:23351702 original size:31 final size:31
Alignment explanation
Indices: 23351661--23351771 Score: 132
Period size: 31 Copynumber: 3.5 Consensus size: 31
23351651 TATCAGAACT
* *
23351661 AGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
* *
23351692 AGAATTAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
* * * *
23351723 AGAATCAAAATCAGAATCAGTATCAAGTAAT
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
*
23351754 AGAATCAAAAATCAGAAT
1 AGAATC-AGAATCAGAAT
23351772 GTGAATGCAA
Statistics
Matches: 71, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
31 60 0.85
32 11 0.15
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.21
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:23351950 original size:27 final size:26
Alignment explanation
Indices: 23351908--23352002 Score: 109
Period size: 27 Copynumber: 3.5 Consensus size: 26
23351898 GCTCAGTGAT
* *
23351908 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
*
23351935 CAGATATTGTGGCAGACCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
* *
23351961 CAGATATTTGTAGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
*
23351989 CAGATAATGTGGCA
1 CAGATATTGTGGCA
23352003 AAGACACTTA
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
26 7 0.12
27 43 0.74
28 8 0.14
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:23352720 original size:27 final size:27
Alignment explanation
Indices: 23352663--23353207 Score: 740
Period size: 27 Copynumber: 20.3 Consensus size: 27
23352653 GGGCCAAAAT
* * * *
23352663 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
23352689 GGTAATTCCACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
23352716 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
23352743 GGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
23352770 GATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
23352797 AGTAATTTTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
23352824 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
23352851 GGTAATTCTACTCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
23352878 GATAATTCTACCTTCCAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
23352905 GGTAATTCTACCCTATAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
23352932 GGTAATTCTACCCTACAGAGGTA-TTC
1 GGTAATTCTACCCTACAGGGGTATTTC
23352958 TGGTAATTCTACCCTACAGGGGTATTTC
1 -GGTAATTCTACCCTACAGGGGTATTTC
*
23352986 GGTAATTCTACCCTACGGGGGTATTGT-
1 GGTAATTCTACCCTACAGGGGTATT-TC
*
23353013 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
23353040 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
23353067 GATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
23353094 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
23353121 GGTAATTCTATCCTACAGGGGTA-ATC
1 GGTAATTCTACCCTACAGGGGTATTTC
23353147 GGTAATTCTACCCTACAGGGGTA-TTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
23353173 TGGTAATTCTACCCTACAGGGGTATTGC
1 -GGTAATTCTACCCTACAGGGGTATTTC
*
23353201 GATAATT
1 GGTAATT
23353208 TTACAAACCA
Statistics
Matches: 458, Mismatches: 54, Indels: 13
0.87 0.10 0.02
Matches are distributed among these distances:
26 43 0.09
27 409 0.89
28 6 0.01
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:23353219 original size:27 final size:27
Alignment explanation
Indices: 23353189--23353316 Score: 123
Period size: 27 Copynumber: 4.7 Consensus size: 27
23353179 TTCTACCCTA
*
23353189 CAGGGGTATTGCGATAATTTTACAAAC
1 CAGGGGTATTTCGATAATTTTACAAAC
* * * *
23353216 CAGGGGTATTTTGTTGATTTTATAAAC
1 CAGGGGTATTTCGATAATTTTACAAAC
* * * * *
23353243 CAAGGGTATTTTGGTGATTTTATAAAC
1 CAGGGGTATTTCGATAATTTTACAAAC
*
23353270 CAAGGGTATTTC-AGTAATTTTACAAAC
1 CAGGGGTATTTCGA-TAATTTTACAAAC
* *
23353297 CAGGGGTATTTTGGTAATTT
1 CAGGGGTATTTCGATAATTT
23353317 GGTAAACTAA
Statistics
Matches: 85, Mismatches: 14, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
27 85 1.00
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.38
Consensus pattern (27 bp):
CAGGGGTATTTCGATAATTTTACAAAC
Found at i:23353323 original size:27 final size:27
Alignment explanation
Indices: 23353203--23353316 Score: 147
Period size: 27 Copynumber: 4.2 Consensus size: 27
23353193 GGTATTGCGA
* * *
23353203 TAATTTTACAAACCAGGGGTATTTTGT
1 TAATTTTATAAACCAAGGGTATTTTGG
*
23353230 TGATTTTATAAACCAAGGGTATTTTGG
1 TAATTTTATAAACCAAGGGTATTTTGG
* **
23353257 TGATTTTATAAACCAAGGGTATTTCAG
1 TAATTTTATAAACCAAGGGTATTTTGG
* *
23353284 TAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTATAAACCAAGGGTATTTTGG
23353311 TAATTT
1 TAATTT
23353317 GGTAAACTAA
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 76 1.00
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (27 bp):
TAATTTTATAAACCAAGGGTATTTTGG
Found at i:23358260 original size:18 final size:18
Alignment explanation
Indices: 23358239--23358326 Score: 74
Period size: 19 Copynumber: 4.8 Consensus size: 18
23358229 AAGAAACATT
23358239 ATCAGAA-CTAGAATTAGA
1 ATCAGAATC-AGAATTAGA
23358257 ATCAGAATCAGAATTAG-
1 ATCAGAATCAGAATTAGA
* *
23358274 GTGACAGAATCAGAATCAGA
1 AT--CAGAATCAGAATTAGA
*
23358294 ATCAGTATCAGGTAA-TAGA
1 ATCAGAATCA-G-AATTAGA
*
23358313 ATCAAAATCAGAAT
1 ATCAGAATCAGAAT
23358327 CAGTATCAGG
Statistics
Matches: 56, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
17 3 0.05
18 23 0.41
19 27 0.48
20 3 0.05
ACGTcount: A:0.48, C:0.12, G:0.18, T:0.22
Consensus pattern (18 bp):
ATCAGAATCAGAATTAGA
Found at i:23358283 original size:31 final size:31
Alignment explanation
Indices: 23358223--23358345 Score: 142
Period size: 31 Copynumber: 4.0 Consensus size: 31
23358213 TAACCCATTA
* * *
23358223 CAGAATAAGAAACATTATCA-G-AACTAGAAT
1 CAGAATCAGAATCAGTATCAGGTAAC-AGAAT
* * * *
23358253 TAGAATCAGAATCAGAATTAGGTGACAGAAT
1 CAGAATCAGAATCAGTATCAGGTAACAGAAT
*
23358284 CAGAATCAGAATCAGTATCAGGTAATAGAAT
1 CAGAATCAGAATCAGTATCAGGTAACAGAAT
*
23358315 CAAAATCAGAATCAGTATCAGGTAACAGAAT
1 CAGAATCAGAATCAGTATCAGGTAACAGAAT
23358346 AAAAAATCAG
Statistics
Matches: 77, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
30 14 0.18
31 61 0.79
32 2 0.03
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.21
Consensus pattern (31 bp):
CAGAATCAGAATCAGTATCAGGTAACAGAAT
Found at i:23358287 original size:6 final size:6
Alignment explanation
Indices: 23358239--23358335 Score: 74
Period size: 6 Copynumber: 15.8 Consensus size: 6
23358229 AAGAAACATT
* * *
23358239 ATCAGA A-CTAGA ATTAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * *
23358288 ATCAGA ATCAGT ATCAGGTA AT-AGA ATCAAA ATCAGA ATCAGT ATCAG
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAG
23358336 GTAACAGAAT
Statistics
Matches: 72, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
5 5 0.07
6 60 0.83
7 4 0.06
8 3 0.04
ACGTcount: A:0.46, C:0.13, G:0.19, T:0.22
Consensus pattern (6 bp):
ATCAGA
Found at i:23358562 original size:27 final size:26
Alignment explanation
Indices: 23358495--23358597 Score: 116
Period size: 27 Copynumber: 3.8 Consensus size: 26
23358485 ACTCAGTTAT
* * *
23358495 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAAAGCCACCAGA-A
*
23358522 CAAAATATTGTGGCAAAGCCACCAGAA
1 C-AGATATTGTGGCAAAGCCACCAGAA
*
23358549 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAAAGCCACCAG-AA
*
23358577 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAAAGCCAC
23358598 TTAACAGAAT
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
26 4 0.06
27 33 0.51
28 28 0.43
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.18
Consensus pattern (26 bp):
CAGATATTGTGGCAAAGCCACCAGAA
Found at i:23358588 original size:54 final size:54
Alignment explanation
Indices: 23358495--23358597 Score: 136
Period size: 54 Copynumber: 1.9 Consensus size: 54
23358485 ACTCAGTTAT
* * *
23358495 CAGATATTGTGACAGAGTCACCAGATACAAAATATTGTGGCAAAGCCACCAGAA
1 CAGATATTGTGACAGAGCCACCAGAAACAAAATAATGTGGCAAAGCCACCAGAA
* * *
23358549 CAGATATTTGTGGCATAGCCACCAGAAAC-AGATAATGTGGCAAAGCCAC
1 CAGATA-TTGTGACAGAGCCACCAGAAACAAAATAATGTGGCAAAGCCAC
23358598 TTAACAGAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
54 24 0.57
55 18 0.43
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.18
Consensus pattern (54 bp):
CAGATATTGTGACAGAGCCACCAGAAACAAAATAATGTGGCAAAGCCACCAGAA
Found at i:23358784 original size:22 final size:22
Alignment explanation
Indices: 23358756--23358820 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
23358746 GCAAATACGT
*
23358756 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
23358778 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
23358800 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
23358821 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:23359305 original size:27 final size:27
Alignment explanation
Indices: 23359247--23359711 Score: 572
Period size: 27 Copynumber: 17.3 Consensus size: 27
23359237 GGGCCAAAAT
* * * *
23359247 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
23359273 GATAATTCCACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
23359300 AGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
23359327 GGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
23359354 GATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
23359381 AGTAATTTTACCCTACAGGGATATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
23359408 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
23359435 GGTAATTCTACCCTATAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
** * *
23359462 AATAATTCTACCTTCCAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
23359489 GATAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
23359516 GGTAATTCTACCCTACAAGTGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
23359543 GGTAATTCTACCCTATGGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
23359570 GATAATTCTACCGTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
23359597 AGTAATTTTACCCTACAGAGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
23359624 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
23359651 GGTAATTCTACCTTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
23359678 GGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
23359705 GATAATT
1 GGTAATT
23359712 TTACAAACCA
Statistics
Matches: 369, Mismatches: 69, Indels: 1
0.84 0.16 0.00
Matches are distributed among these distances:
26 13 0.04
27 356 0.96
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:23359723 original size:27 final size:27
Alignment explanation
Indices: 23359693--23359756 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 27
23359683 TTCTACCCTA
23359693 CAGGGGTATTGCGATAATTTTACAAAC
1 CAGGGGTATTGCGATAATTTTACAAAC
** * * *
23359720 CAGGGGTATTTTGGTGATTTTATAAAC
1 CAGGGGTATTGCGATAATTTTACAAAC
*
23359747 CAAGGGTATT
1 CAGGGGTATT
23359757 TTGGTGATTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.34
Consensus pattern (27 bp):
CAGGGGTATTGCGATAATTTTACAAAC
Found at i:23359827 original size:27 final size:27
Alignment explanation
Indices: 23359707--23359820 Score: 138
Period size: 27 Copynumber: 4.2 Consensus size: 27
23359697 GGTATTGCGA
* *
23359707 TAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTATAAACCAAGGGTATTTTGG
*
23359734 TGATTTTATAAACCAAGGGTATTTTGG
1 TAATTTTATAAACCAAGGGTATTTTGG
* * * *
23359761 TGATTTTATAAACGAATGGTATTTTAG
1 TAATTTTATAAACCAAGGGTATTTTGG
* **
23359788 TAATTTTACAAACCTGGGGTATTTTGG
1 TAATTTTATAAACCAAGGGTATTTTGG
23359815 TAATTT
1 TAATTT
23359821 GGTAAACTAA
Statistics
Matches: 74, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 74 1.00
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (27 bp):
TAATTTTATAAACCAAGGGTATTTTGG
Found at i:23361743 original size:55 final size:54
Alignment explanation
Indices: 23361603--23361799 Score: 173
Period size: 53 Copynumber: 3.6 Consensus size: 54
23361593 TTTCCTTTTT
* * * * ** *
23361603 AAACTTACCATTGCCATGTCTTGACATAATCTTACGTG-GTATCCTTGCCTTAT-
1 AAACTTACCAATGTCATGCCTTGGCATGGTCTTACATGAG-ATCCTTGCCTTATA
* * * * * *
23361656 GAACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATA
1 AAACTTACCAATGTCATGCCTTGGCATGGTCTTACATGAGATCCTTGCCTTATA
** * * * ** *
23361710 ATAGTTTATCAATGTCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTA
1 A-AACTTACCAATGTCATGCCTTGGCATGGTCTTACATGAGATCCTTGCCTTATA
23361765 AAACTTACCAATGTCATGCCTTGGCATGGTCTTAC
1 AAACTTACCAATGTCATGCCTTGGCATGGTCTTAC
23361800 TTGGTATCCT
Statistics
Matches: 114, Mismatches: 27, Indels: 5
0.78 0.18 0.03
Matches are distributed among these distances:
53 43 0.38
54 30 0.26
55 41 0.36
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (54 bp):
AAACTTACCAATGTCATGCCTTGGCATGGTCTTACATGAGATCCTTGCCTTATA
Found at i:23367448 original size:96 final size:95
Alignment explanation
Indices: 23367284--23367558 Score: 345
Period size: 96 Copynumber: 2.9 Consensus size: 95
23367274 AGGTGAATTG
* * * * **
23367284 CCAATGCCATGTTCCAAACATGGTCTTCCACTGGCTCACATGTCAAGGCCGATGCCATGTCCCAG
1 CCAATGCCATGCTCCAAACATGGTCTTACACTGGCTCTCATAT-GTGGCCGATGCCATGTCCCAG
*
23367349 ACATGGTCTTACACTAGCTCTCGTCT-CAATA
65 ACATGGTCTTACACTAGCTCTCAT-TACAATA
* * * *
23367380 CCAATGCCATGCCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCAATGTCATGTCCCAG
1 CCAATGCCATGCTCCAAACATGGTCTTACACTGGCTCTCAT-ATGTGGCCGATGCCATGTCCCAG
* * * *
23367445 ACATGGTCTTACATTGGCTCTCATTACATTG
65 ACATGGTCTTACACTAGCTCTCATTACAATA
* *
23367476 CCGATGCCATGCTCCAAACATGGTCTTACACTGGCTCTCATATGATGGCTGATGCCATGTCCCAG
1 CCAATGCCATGCTCCAAACATGGTCTTACACTGGCTCTCATATG-TGGCCGATGCCATGTCCCAG
*
23367541 GCATGGTCTTACACTAGC
65 ACATGGTCTTACACTAGC
23367559 ACACATATCA
Statistics
Matches: 152, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
95 4 0.03
96 147 0.97
97 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (95 bp):
CCAATGCCATGCTCCAAACATGGTCTTACACTGGCTCTCATATGTGGCCGATGCCATGTCCCAGA
CATGGTCTTACACTAGCTCTCATTACAATA
Found at i:23367546 original size:144 final size:144
Alignment explanation
Indices: 23367283--23367555 Score: 336
Period size: 144 Copynumber: 1.9 Consensus size: 144
23367273 AAGGTGAATT
* *
23367283 GCCAATGCCATGTTCCAAACATGGTCTTCCACTGGCTCACATGTCAAGGCCGATGCCATGTCCCA
1 GCCAATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATGTCAAGGCCGATGCCATGTCCCA
* * *
23367348 GACATGGTCTTACACTAGCTCTCGTCTCAATACCAATGCCATGCCCCAGACATGGTCTTACACTG
66 AACATGGTCTTACACTAGCTCTCATATCAATACCAATGCCATGCCCCAGACATGGTCTTACACTG
23367413 GCTCTCATAATGTG
131 GCTCTCATAATGTG
* * * * **
23367427 GCCAATGTCATGTCCCAGACATGGTCTTACATTGGCTCTCAT-TACATTGCCGATGCCATG-CTC
1 GCCAATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATGT-CAAGGCCGATGCCATGTC-C
* * * ** * *
23367490 CAAACATGGTCTTACACTGGCTCTCATAT-GATGGCTGATGCCATGTCCCAGGCATGGTCTTACA
64 CAAACATGGTCTTACACTAGCTCTCATATCAAT-ACCAATGCCATGCCCCAGACATGGTCTTACA
23367554 CT
128 CT
23367556 AGCACACATA
Statistics
Matches: 108, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
143 4 0.04
144 104 0.96
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.27
Consensus pattern (144 bp):
GCCAATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATGTCAAGGCCGATGCCATGTCCCA
AACATGGTCTTACACTAGCTCTCATATCAATACCAATGCCATGCCCCAGACATGGTCTTACACTG
GCTCTCATAATGTG
Found at i:23367566 original size:48 final size:48
Alignment explanation
Indices: 23367287--23367555 Score: 285
Period size: 48 Copynumber: 5.6 Consensus size: 48
23367277 TGAATTGCCA
* * * * * *
23367287 ATGCCATGTTCCAAACATGGTCTTCCACTGGCTCACATGTCAAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATGGCCG
* * * * *
23367335 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAAT-ACCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATC-ATGGCCG
* * *
23367383 ATGCCATGCCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATCATGGCCG
* * *
23367431 ATGTCATGTCCCAGACATGGTCTTACATTGGCTCTCAT-TACATTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAT-CATGGCCG
* * *
23367479 ATGCCATG-CTCCAAACATGGTCTTACACTGGCTCTCATATGATGGCTG
1 ATGCCATGTC-CCAGACATGGTCTTACACTGGCTCTCATATCATGGCCG
*
23367527 ATGCCATGTCCCAGGCATGGTCTTACACT
1 ATGCCATGTCCCAGACATGGTCTTACACT
23367556 AGCACACATA
Statistics
Matches: 183, Mismatches: 30, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
46 1 0.01
47 2 0.01
48 176 0.96
49 4 0.02
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATGGCCG
Found at i:23369297 original size:25 final size:24
Alignment explanation
Indices: 23369269--23369315 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
23369259 AGGATGGGAA
*
23369269 GGGAGTAAAAGTTTTAGGGGAAAGT
1 GGGAGTAAAAATTTT-GGGGAAAGT
23369294 GGGAGTAAAAATTTTGGGGAAA
1 GGGAGTAAAAATTTTGGGGAAA
23369316 AATAAAAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.38, C:0.00, G:0.38, T:0.23
Consensus pattern (24 bp):
GGGAGTAAAAATTTTGGGGAAAGT
Found at i:23374360 original size:46 final size:46
Alignment explanation
Indices: 23374260--23374424 Score: 196
Period size: 46 Copynumber: 3.6 Consensus size: 46
23374250 GGGTAGAATA
23374260 CCGATGTCATGTCCCAGACATGGTCTTACACTGGC-TCATCTCGTA-G
1 CCGATG-CATGTCCCAGACATGGTCTTACACTGGCTTCATCTCG-AGG
* *
23374306 TCGATGCATGTCCCAGACAT-GTCTTACATTGGCTTACATCTCGAGG
1 CCGATGCATGTCCCAGACATGGTCTTACACTGGCTT-CATCTCGAGG
* *
23374352 CCGATGCATGTCCCAGACAT-GTCCTACACTAGCTCTCATCTC-AGTG
1 CCGATGCATGTCCCAGACATGGTCTTACACTGGCT-TCATCTCGAG-G
*
23374398 GCGATGCAATGTCCCAGACATGGTCTT
1 CCGATGC-ATGTCCCAGACATGGTCTT
23374425 GTACTAGCTC
Statistics
Matches: 104, Mismatches: 8, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
44 12 0.12
45 18 0.17
46 56 0.54
47 14 0.13
48 4 0.04
ACGTcount: A:0.21, C:0.30, G:0.21, T:0.28
Consensus pattern (46 bp):
CCGATGCATGTCCCAGACATGGTCTTACACTGGCTTCATCTCGAGG
Found at i:23383335 original size:45 final size:45
Alignment explanation
Indices: 23383212--23383337 Score: 123
Period size: 45 Copynumber: 2.8 Consensus size: 45
23383202 GGGGTAGGAT
* * * *
23383212 GCCGATGCCATGTCCTAGACGTGGTCTTACACTAGC-TCATCTCGTA
1 GCCGATG-CAAGTCCTAGACAT-GTCTTACACTGGCTTAATCTCGTA
* * * *
23383258 GCCGATGCATGTCCCAAACATGTCTTATACTGGCTTAAATCTCG-A
1 GCCGATGCAAGTCCTAGACATGTCTTACACTGGCTT-AATCTCGTA
23383303 GGCCGATG-AAGTCCTAGACATGTCTTACACTGGCT
1 -GCCGATGCAAGTCCTAGACATGTCTTACACTGGCT
23383338 CTCGTCTCAA
Statistics
Matches: 67, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
44 11 0.16
45 36 0.54
46 20 0.30
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (45 bp):
GCCGATGCAAGTCCTAGACATGTCTTACACTGGCTTAATCTCGTA
Found at i:23386243 original size:13 final size:13
Alignment explanation
Indices: 23386225--23386251 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
23386215 GGAGCAATCG
23386225 CACACGGGCGTGT
1 CACACGGGCGTGT
23386238 CACACGGGCGTGT
1 CACACGGGCGTGT
23386251 C
1 C
23386252 CCTCTCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:23386645 original size:12 final size:13
Alignment explanation
Indices: 23386609--23386646 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
23386599 AAATATTTGA
23386609 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
23386622 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
23386636 CTTG-TCTTAAT
1 CTTGTTCTTAAT
23386647 ATTCCAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:23395077 original size:96 final size:96
Alignment explanation
Indices: 23394913--23395088 Score: 307
Period size: 96 Copynumber: 1.8 Consensus size: 96
23394903 GGGTGAATTG
*
23394913 CCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTCGAGGCCGATGCCATGTCCCAG
1 CCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCCCAG
23394978 ACATGGTCTTACACTGGCTCTCATTACATTA
66 ACATGGTCTTACACTGGCTCTCATTACATTA
* * * *
23395009 CCGATGCCATGTTCCAAATATGGTCTTACACTGGCTCTCATATTGTGGCCGATGCCATGTCCCAG
1 CCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCCCAG
23395074 ACATGGTCTTACACT
66 ACATGGTCTTACACT
23395089 AGCACACATA
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
96 75 1.00
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (96 bp):
CCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCCCAG
ACATGGTCTTACACTGGCTCTCATTACATTA
Found at i:23395099 original size:48 final size:48
Alignment explanation
Indices: 23394912--23395099 Score: 218
Period size: 48 Copynumber: 3.9 Consensus size: 48
23394902 AGGGTGAATT
* * * *
23394912 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTCGAG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATTGTG
* * *
23394960 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATTACAT-T-
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACA-TA-TTGTG
* * * *
23395008 ACCGATGCCATGTTCCAAATATGGTCTTACACTGGCTCTCATATTGTG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATTGTG
* * *
23395056 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATAT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAT
23395100 CACCCAAATG
Statistics
Matches: 117, Mismatches: 19, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
46 1 0.01
47 3 0.03
48 112 0.96
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATTGTG
Found at i:23397329 original size:43 final size:44
Alignment explanation
Indices: 23397261--23397384 Score: 121
Period size: 45 Copynumber: 2.8 Consensus size: 44
23397251 TTTTCTCAAA
* *
23397261 TCACCGGCATT-TCGCCTACTAGGCTCGAGGCCCGATA-TCAT-T
1 TCACCGGCATTATAGCCTGCTAGGCTCGAGGCCCGATAGT-ATCT
* *
23397303 TCACCGGCTTTATAGCCTGCTAGGCTCGAAAGCCCGAATAGTATCT
1 TCACCGGCATTATAGCCTGCTAGGCTCG-AGGCCCG-ATAGTATCT
* * *
23397349 T-ACCGACATTATAGTCTGCTAGGCTCAAAGGCCCGA
1 TCACCGGCATTATAGCCTGCTAGGCTC-GAGGCCCGA
23397385 ATAATCAAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
42 10 0.15
43 14 0.21
44 7 0.10
45 33 0.49
46 3 0.04
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.25
Consensus pattern (44 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAGGCCCGATAGTATCT
Found at i:23397752 original size:43 final size:43
Alignment explanation
Indices: 23397718--23398043 Score: 535
Period size: 43 Copynumber: 7.6 Consensus size: 43
23397708 CGGCATTACA
23397718 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
* * *
23397761 CCTGCAAGGCACGAAGGCCCGAATACACATAACCGGAACGAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
* * * **
23397804 CCTACTAGGCACGAAGACCCGAATATACATCACCGATACGAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
23397847 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
*
23397890 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCATGAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
* *
23397933 CCTGCTAGGCACGAAGGCCCGAATATACATCACCGACACGAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
* *
23397976 CCTGCTAGGCACGAAGGCCTGAATACACATCACCGACACGAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
23398019 CCTGCTAGGCACGAAGGCCCGAATA
1 CCTGCTAGGCACGAAGGCCCGAATA
23398044 TCATACCAGT
Statistics
Matches: 261, Mismatches: 22, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 261 1.00
ACGTcount: A:0.33, C:0.33, G:0.24, T:0.11
Consensus pattern (43 bp):
CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
Found at i:23398101 original size:38 final size:38
Alignment explanation
Indices: 23398041--23398143 Score: 109
Period size: 38 Copynumber: 2.7 Consensus size: 38
23398031 GAAGGCCCGA
* * * * * *
23398041 ATATCATACCAGTACTAGGCCTGCGGGATTTATCCCT-G
1 ATATAATACCAGCACGAAGCCTGCAGGATTTA-ACCTGG
*
23398079 ATATAATACCAGCATGAAGCCTGCAGGATTTAACCTGG
1 ATATAATACCAGCACGAAGCCTGCAGGATTTAACCTGG
**
23398117 ATATTTTACCAGCACGAAGCCTGCAGG
1 ATATAATACCAGCACGAAGCCTGCAGG
23398144 TCTTTAAGTC
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
37 3 0.06
38 51 0.94
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.25
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCAGGATTTAACCTGG
Found at i:23403196 original size:47 final size:47
Alignment explanation
Indices: 23403145--23403749 Score: 1032
Period size: 47 Copynumber: 12.7 Consensus size: 47
23403135 TTAGGATTCT
* * *
23403145 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
23403192 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
23403239 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
23403286 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
23403335 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
23403382 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
23403431 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
23403478 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
23403525 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
23403572 ATGTGATGAATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
23403619 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
* * * * *
23403668 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
23403715 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
23403750 TCTCGAAGGG
Statistics
Matches: 536, Mismatches: 15, Indels: 14
0.95 0.03 0.02
Matches are distributed among these distances:
46 1 0.00
47 394 0.74
49 141 0.26
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:23403220 original size:25 final size:25
Alignment explanation
Indices: 23403192--23403270 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
23403182 CTAATGGCCG
23403192 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ****
23403217 ATGTGAT-AAGGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
23403239 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
23403264 ATGTGAT
1 ATGTGAT
23403271 AAGGCCTAAT
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 7 0.20
25 14 0.40
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:23403325 original size:143 final size:143
Alignment explanation
Indices: 23403166--23403749 Score: 1018
Period size: 143 Copynumber: 4.1 Consensus size: 143
23403156 GTGAACATGC
*
23403166 ATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
23403231 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
66 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
23403296 TGTGAAAGTGTAT
131 TGTGAAAGTGTAT
23403309 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
23403374 AATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
66 AATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
23403439 AATGTGAAAGTG--T
129 AATGTGAAAGTGTAT
23403452 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
23403517 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
66 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
23403582 TGTGAAA--GTAT
131 TGTGAAAGTGTAT
23403593 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGC
* * * * * *
23403658 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
64 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
23403723 GATGTGAAAGTGTAT
129 AATGTGAAAGTGTAT
23403738 A-A-ATGTGATAAG
1 ATATATGTGATAAG
23403750 TCTCGAAGGG
Statistics
Matches: 425, Mismatches: 8, Indels: 16
0.95 0.02 0.04
Matches are distributed among these distances:
139 1 0.00
141 91 0.21
143 280 0.66
144 1 0.00
145 52 0.12
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (143 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
TGTGAAAGTGTAT
Found at i:23403360 original size:96 final size:94
Alignment explanation
Indices: 23403145--23403749 Score: 1032
Period size: 96 Copynumber: 6.4 Consensus size: 94
23403135 TTAGGATTCT
* * *
23403145 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
23403209 GTGTATATATGTGATAAGGCCTAATGGCCG
65 GTGTATATATGTGATAAGGCCTAATGGCCG
23403239 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
23403304 TGTATATATATGTGATAAGGCCTAATGGCCG
66 TG--TATATATGTGATAAGGCCTAATGGCCG
23403335 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
23403400 TGTATATATATGTGATAAGGCCTAATGGCCG
66 TG--TATATATGTGATAAGGCCTAATGGCCG
23403431 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
23403496 TGTATATATGTGATAAGGCCTAATGGCCG
66 TGTATATATGTGATAAGGCCTAATGGCCG
23403525 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
23403590 TATATATATGTGATAAGGCCTAATGGCCG
66 TGTATATATGTGATAAGGCCTAATGGCCG
23403619 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * *
23403684 AGTGTATATATGTGACAGGGCCGAGTGGCCA
64 AGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
23403715 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
23403750 TCTCGAAGGG
Statistics
Matches: 493, Mismatches: 13, Indels: 10
0.96 0.03 0.02
Matches are distributed among these distances:
93 1 0.00
94 216 0.44
96 276 0.56
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (94 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGTGATAAGGCCTAATGGCCG
Found at i:23403923 original size:37 final size:37
Alignment explanation
Indices: 23403867--23403945 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
23403857 CCGAGCTCTA
* * *
23403867 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
23403904 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
23403941 AAGAC
1 AAGAC
23403946 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:23408787 original size:19 final size:18
Alignment explanation
Indices: 23408746--23408789 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
23408736 AAATATTATA
23408746 ATAATAAAAATTTCTTTT
1 ATAATAAAAATTTCTTTT
*
23408764 GTAATAAGATAATTT-TTTT
1 ATAATAA-A-AATTTCTTTT
23408783 ATAATAA
1 ATAATAA
23408790 TTTATATCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 6 0.27
19 11 0.50
20 5 0.23
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (18 bp):
ATAATAAAAATTTCTTTT
Found at i:23409455 original size:16 final size:16
Alignment explanation
Indices: 23409436--23409475 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
23409426 TATTTTATGT
23409436 AAAAATAAATTTACTC
1 AAAAATAAATTTACTC
* *
23409452 AAAAAAAAATTTTCTC
1 AAAAATAAATTTACTC
*
23409468 AAATATAA
1 AAAAATAA
23409476 TGGACACTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.30
Consensus pattern (16 bp):
AAAAATAAATTTACTC
Found at i:23419860 original size:18 final size:18
Alignment explanation
Indices: 23419837--23419889 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
23419827 TTGTTTTGAT
23419837 ATTTTTAAAAAATTTTAA
1 ATTTTTAAAAAATTTTAA
** *
23419855 ATTTTT-ATGAATTTCTAT
1 ATTTTTAAAAAATTT-TAA
23419873 ATTTTTAAATAAATTTT
1 ATTTTTAAA-AAATTTT
23419890 TTATAATTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
17 6 0.22
18 14 0.52
19 2 0.07
20 5 0.19
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (18 bp):
ATTTTTAAAAAATTTTAA
Found at i:23427023 original size:18 final size:18
Alignment explanation
Indices: 23426996--23427032 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
23426986 TTCAAATTTT
23426996 ATAATCTCTATTAACCTA
1 ATAATCTCTATTAACCTA
*
23427014 ATAATTTCTATTAACCTA
1 ATAATCTCTATTAACCTA
23427032 A
1 A
23427033 CTCAGACTCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (18 bp):
ATAATCTCTATTAACCTA
Found at i:23427815 original size:41 final size:41
Alignment explanation
Indices: 23427737--23427817 Score: 101
Period size: 41 Copynumber: 2.0 Consensus size: 41
23427727 AGAGTGAGTT
** *
23427737 ACACGGCCAACCACACGACTTGACACATGGTCGTGTGGCAC
1 ACACGGCCAACCACACGACTTGACACATGACCATGTGGCAC
* *
23427778 ACACGGCCTACCACACG-GTCTGACACATGACCATGTGGCA
1 ACACGGCCAACCACACGACT-TGACACATGACCATGTGGCA
23427818 TTGAAAACCA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
40 1 0.03
41 33 0.97
ACGTcount: A:0.27, C:0.35, G:0.23, T:0.15
Consensus pattern (41 bp):
ACACGGCCAACCACACGACTTGACACATGACCATGTGGCAC
Found at i:23428360 original size:24 final size:24
Alignment explanation
Indices: 23428313--23428382 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 24
23428303 AAAAGGGAGG
23428313 AAAAAGAAAAGAAAGAAATGATAAC
1 AAAAAGAAAAGAAAGAAA-GATAAC
* *
23428338 AAAAAGAAAAG-AAGGAAGAATAAG
1 AAAAAGAAAAGAAAGAAAG-ATAAC
* *
23428362 AAAAACAAAAAAAAAGAAAGA
1 AAAAA-GAAAAGAAAGAAAGA
23428383 AGAGGAAACG
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
23 1 0.03
24 14 0.38
25 16 0.43
26 6 0.16
ACGTcount: A:0.76, C:0.03, G:0.17, T:0.04
Consensus pattern (24 bp):
AAAAAGAAAAGAAAGAAAGATAAC
Found at i:23432204 original size:13 final size:13
Alignment explanation
Indices: 23432186--23432210 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23432176 TCTTTTCTTG
23432186 TTTTTATTTTTTA
1 TTTTTATTTTTTA
23432199 TTTTTATTTTTT
1 TTTTTATTTTTT
23432211 TGTCTTTATG
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:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:23437477 original size:59 final size:59
Alignment explanation
Indices: 23437405--23437522 Score: 236
Period size: 59 Copynumber: 2.0 Consensus size: 59
23437395 TATCGGGATG
23437405 GGTTTGATATGTGATGGAGGAAGTGTATTCTGGAAGTATTACTACAATTTTGGCAGTTA
1 GGTTTGATATGTGATGGAGGAAGTGTATTCTGGAAGTATTACTACAATTTTGGCAGTTA
23437464 GGTTTGATATGTGATGGAGGAAGTGTATTCTGGAAGTATTACTACAATTTTGGCAGTTA
1 GGTTTGATATGTGATGGAGGAAGTGTATTCTGGAAGTATTACTACAATTTTGGCAGTTA
23437523 AACTGCAATA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (59 bp):
GGTTTGATATGTGATGGAGGAAGTGTATTCTGGAAGTATTACTACAATTTTGGCAGTTA
Found at i:23437694 original size:24 final size:24
Alignment explanation
Indices: 23437667--23437719 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
23437657 TGAAGGTAGG
23437667 ATCTGTGACTGCATCTATATCTGA
1 ATCTGTGACTGCATCTATATCTGA
* * *
23437691 ATCTGTGTCTGCATTTGTATCTGA
1 ATCTGTGACTGCATCTATATCTGA
23437715 ATCTG
1 ATCTG
23437720 AGTAAGCATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.42
Consensus pattern (24 bp):
ATCTGTGACTGCATCTATATCTGA
Found at i:23437728 original size:24 final size:24
Alignment explanation
Indices: 23437684--23437738 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
23437674 ACTGCATCTA
* **
23437684 TATCTGAATCTGTGTCTGCATTTG
1 TATCTGAATCTGAGTAAGCATTTG
23437708 TATCTGAATCTGAGTAAGCATTTG
1 TATCTGAATCTGAGTAAGCATTTG
23437732 TATCTGA
1 TATCTGA
23437739 TTATGAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.42
Consensus pattern (24 bp):
TATCTGAATCTGAGTAAGCATTTG
Found at i:23440844 original size:5 final size:5
Alignment explanation
Indices: 23440836--23440863 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
23440826 ATTTAGATTA
23440836 TATAT TATAT TATAT TATAT TATAT TAT
1 TATAT TATAT TATAT TATAT TATAT TAT
23440864 TCATTATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:23440872 original size:3 final size:3
Alignment explanation
Indices: 23440832--23440919 Score: 71
Period size: 3 Copynumber: 30.3 Consensus size: 3
23440822 TTTTATTTAG
*
23440832 ATT ATAT ATT A-T ATT A-T ATT A-T ATT A-T ATT ATT CATT ATT ATA
1 ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT
* * *
23440875 ATT ATT AATT GTT ATG GTT -TT A-T ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
23440919 A
1 A
23440920 AATAAATTAA
Statistics
Matches: 69, Mismatches: 7, Indels: 18
0.73 0.07 0.19
Matches are distributed among these distances:
2 12 0.17
3 48 0.70
4 9 0.13
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:23441181 original size:33 final size:32
Alignment explanation
Indices: 23441115--23441181 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 32
23441105 TTAAATTAGT
* *
23441115 AGATATTTATTATTTATTAATATTAAAATTAAG
1 AGATATTTATTAATTA-TAATATTAAAAATAAG
23441148 AGATATTTATTAATTA-AATAATTATAAAATAAG
1 AGATATTTATTAATTATAAT-ATTA-AAAATAAG
23441181 A
1 A
23441182 TTTTTATGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
31 3 0.10
32 4 0.13
33 23 0.77
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (32 bp):
AGATATTTATTAATTATAATATTAAAAATAAG
Found at i:23441315 original size:5 final size:5
Alignment explanation
Indices: 23441304--23441346 Score: 52
Period size: 5 Copynumber: 8.4 Consensus size: 5
23441294 TTTATTAATT
*
23441304 AAATA TAATA TAAATA AAATA AAATA AAA-A TAAATA AAATA AA
1 AAATA AAATA -AAATA AAATA AAATA AAATA -AAATA AAATA AA
23441347 TAGAAACCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
4 1 0.03
5 27 0.82
6 5 0.15
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
AAATA
Found at i:23441325 original size:9 final size:9
Alignment explanation
Indices: 23441303--23441348 Score: 56
Period size: 9 Copynumber: 4.7 Consensus size: 9
23441293 ATTTATTAAT
23441303 TAAATATAATA
1 TAAATA-AA-A
23441314 TAAATAAAA
1 TAAATAAAA
23441323 TAAAATAAAAA
1 T-AAAT-AAAA
23441334 TAAATAAAA
1 TAAATAAAA
23441343 TAAATA
1 TAAATA
23441349 GAAACCAAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
9 12 0.36
10 10 0.30
11 11 0.33
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (9 bp):
TAAATAAAA
Found at i:23441326 original size:20 final size:21
Alignment explanation
Indices: 23441303--23441348 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
23441293 ATTTATTAAT
*
23441303 TAAATAT-AATATAAATAAAA
1 TAAATATAAAAATAAATAAAA
23441323 TAAA-ATAAAAATAAATAAAA
1 TAAATATAAAAATAAATAAAA
23441343 TAAATA
1 TAAATA
23441349 GAAACCAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 2 0.09
20 20 0.87
21 1 0.04
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (21 bp):
TAAATATAAAAATAAATAAAA
Found at i:23441415 original size:6 final size:6
Alignment explanation
Indices: 23441396--23441451 Score: 94
Period size: 6 Copynumber: 9.2 Consensus size: 6
23441386 AAAACAGGGG
*
23441396 AGAAAA AGAGAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA
1 AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA
23441444 AGGAAAA A
1 A-GAAAA A
23441452 CTAGAGATTT
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
6 41 0.87
7 6 0.13
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:23442493 original size:45 final size:45
Alignment explanation
Indices: 23442442--23442548 Score: 162
Period size: 45 Copynumber: 2.4 Consensus size: 45
23442432 CGACTACTGT
*
23442442 TACTGTTACCGTTACTGTTATCGATTCGA-CACTTTGTGTGTCGAA
1 TACTGTTACCGTTACTGTTATAGATT-GAGCACTTTGTGTGTCGAA
* *
23442487 TACTGTTACCGTTACTGTTATAGATTTAGCACTTTGTGTGTTGAA
1 TACTGTTACCGTTACTGTTATAGATTGAGCACTTTGTGTGTCGAA
*
23442532 TACTGTTACTGTTACTG
1 TACTGTTACCGTTACTG
23442549 CTACTGCTAC
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
44 1 0.02
45 56 0.98
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.43
Consensus pattern (45 bp):
TACTGTTACCGTTACTGTTATAGATTGAGCACTTTGTGTGTCGAA
Found at i:23442542 original size:51 final size:50
Alignment explanation
Indices: 23442427--23442546 Score: 135
Period size: 45 Copynumber: 2.5 Consensus size: 50
23442417 CAGGCACTTA
* * *
23442427 TGTGCCGACTACTGTTACTGTTACCGTTACTGTTATCGATTCGACACTTTG
1 TGTGTCGA-TACTGTTACTGTTACCGTTACTGTTATAGATTAGACACTTTG
23442478 TGTGTCGA-A----TACTGTTACCGTTACTGTTATAGATTTAG-CACTTTG
1 TGTGTCGATACTGTTACTGTTACCGTTACTGTTATAGA-TTAGACACTTTG
*
23442523 TGTGTTGAATACTGTTACTGTTAC
1 TGTGTCG-ATACTGTTACTGTTAC
23442547 TGCTACTGCT
Statistics
Matches: 58, Mismatches: 4, Indels: 14
0.76 0.05 0.18
Matches are distributed among these distances:
45 36 0.62
46 4 0.07
47 1 0.02
49 1 0.02
51 16 0.28
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (50 bp):
TGTGTCGATACTGTTACTGTTACCGTTACTGTTATAGATTAGACACTTTG
Found at i:23444198 original size:45 final size:44
Alignment explanation
Indices: 23444096--23444218 Score: 131
Period size: 45 Copynumber: 2.8 Consensus size: 44
23444086 CTGTAAATAG
* * * * *
23444096 GTTGTGCATCCATAGCCA-ATGGCAGATTTTATCTGCATTATTTT
1 GTTGTGTATCCACAGCCATA-GGCAGATTTCATCTACATGATTTT
* *
23444140 GTTGTGTACCCACAGCCATAGGCAGATTTCATCTACGATGCTTTT
1 GTTGTGTATCCACAGCCATAGGCAGATTTCATCTAC-ATGATTTT
* * *
23444185 GTTGTGTATCCACAACCATAGGTAGATTCCATCT
1 GTTGTGTATCCACAGCCATAGGCAGATTTCATCT
23444219 GTGGTGTTTT
Statistics
Matches: 66, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
44 29 0.44
45 37 0.56
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.36
Consensus pattern (44 bp):
GTTGTGTATCCACAGCCATAGGCAGATTTCATCTACATGATTTT
Found at i:23444708 original size:16 final size:17
Alignment explanation
Indices: 23444673--23444711 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
23444663 TTAGGCTTAT
* *
23444673 TTTTATAATTCTTGTTA
1 TTTTATAATTCGTATTA
23444690 TTTTATAATT-GTATTA
1 TTTTATAATTCGTATTA
23444706 TTTTAT
1 TTTTAT
23444712 TTATATTGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.67
Consensus pattern (17 bp):
TTTTATAATTCGTATTA
Found at i:23448918 original size:22 final size:22
Alignment explanation
Indices: 23448886--23448931 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
23448876 AGAAGAAAGC
*
23448886 TTATGAAGATCAGCACTAAATT
1 TTATGAAGATCAACACTAAATT
*
23448908 TTATGAGGATCAACACTAAATT
1 TTATGAAGATCAACACTAAATT
23448930 TT
1 TT
23448932 CTATTATTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (22 bp):
TTATGAAGATCAACACTAAATT
Found at i:23451488 original size:262 final size:260
Alignment explanation
Indices: 23451019--23451539 Score: 889
Period size: 262 Copynumber: 2.0 Consensus size: 260
23451009 AATTTTTAAC
* *
23451019 GCAAAGACAATAACTGCCAATTCTAAGCATGTGTCGGATAATTTTTTTTGTACGGCTTCAATTGT
1 GCAAACACAATAACTGCCAATTCTAAGCATGTGTCGGATAATTTTTTTTGTACAGCTTCAATTGT
* *
23451084 CGGTAAGCATATGCTATTACTTTGCCTTCCTGCATCAAAACACAGCCTAAACTATATAAAGAGCA
66 CGGTAAGCATATGCTATTACTTTGCCTTCCTGCATCAAAACACAACCTAAACCATATAAAGAGCA
* * *
23451149 TCACTGAAAATCACAAATTCTTTTCCCGATTCAGGCTGAACTAGAACGGGTGCTTCGGCCAACAG
131 TCACTAAAAATCACAAATTCTTTTCCCGATTCAAGCTAAACTAGAACGGGTGCTTCGGCCAACAG
* * *
23451214 TGTTTTCAACTGGTCGAAACTTTACTGACACTTGCCGGACCATTCTTATTTCACATCTTTCTATT
196 TGCTTTCAACTGGTCGAAACTTTACTGACACTTGCCAGACCATTCATATTTCACATCTTTCTATT
*
23451279 GCAAACACAATAACTGCCAATTCTAAGTCATGTGTTGGATAATTTTTTTTTGTACAGCTTCAATT
1 GCAAACACAATAACTGCCAATTCTAAG-CATGTGTCGGATAA-TTTTTTTTGTACAGCTTCAATT
* *
23451344 GTCGGTAAGTATATGCTATTACTTTGCCTTCCTGTATCAAAACACAACCTAAACCATATAAAGAG
64 GTCGGTAAGCATATGCTATTACTTTGCCTTCCTGCATCAAAACACAACCTAAACCATATAAAGAG
* *
23451409 CATCACTAAAAATCACAAATTCTTTTCCCGATTCAAGCTAAACTATAACGGGTGCTTCGGTCAAC
129 CATCACTAAAAATCACAAATTCTTTTCCCGATTCAAGCTAAACTAGAACGGGTGCTTCGGCCAAC
23451474 AGTGCTTTCAACTGGTCGAAACTTTACTGACACTTGCCAGACCATTCATATTTCACATCTTTCTA
194 AGTGCTTTCAACTGGTCGAAACTTTACTGACACTTGCCAGACCATTCATATTTCACATCTTTCTA
23451539 T
259 T
23451540 AATAGTTGTG
Statistics
Matches: 244, Mismatches: 15, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
260 26 0.11
261 13 0.05
262 205 0.84
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (260 bp):
GCAAACACAATAACTGCCAATTCTAAGCATGTGTCGGATAATTTTTTTTGTACAGCTTCAATTGT
CGGTAAGCATATGCTATTACTTTGCCTTCCTGCATCAAAACACAACCTAAACCATATAAAGAGCA
TCACTAAAAATCACAAATTCTTTTCCCGATTCAAGCTAAACTAGAACGGGTGCTTCGGCCAACAG
TGCTTTCAACTGGTCGAAACTTTACTGACACTTGCCAGACCATTCATATTTCACATCTTTCTATT
Found at i:23456359 original size:12 final size:12
Alignment explanation
Indices: 23456344--23456370 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
23456334 CGTGGCCAGT
23456344 GATGAATTGACG
1 GATGAATTGACG
23456356 GATGAATTGACG
1 GATGAATTGACG
23456368 GAT
1 GAT
23456371 AAGACCATGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.33, T:0.26
Consensus pattern (12 bp):
GATGAATTGACG
Found at i:23456480 original size:35 final size:35
Alignment explanation
Indices: 23456398--23456659 Score: 312
Period size: 35 Copynumber: 7.5 Consensus size: 35
23456388 GTGGCAAAGT
*
23456398 TATGATACGTAGGTATGGCATCGTCCATACCGAGC
1 TATGATACGTAGGTATGGCATCGTCCATACTGAGC
* *
23456433 T-TGATAAGTAGGTATGGCATCGACCATACTGAGC
1 TATGATACGTAGGTATGGCATCGTCCATACTGAGC
*
23456467 TATGATACGTAGGTATGGCATCGTCCATACTGAAC
1 TATGATACGTAGGTATGGCATCGTCCATACTGAGC
* *
23456502 TATGATACGTAGGTATGGCATTGTCCATACTGAGT
1 TATGATACGTAGGTATGGCATCGTCCATACTGAGC
* * *
23456537 TATGACATGTAGGTATGGCATCGTCCATACTGAGT
1 TATGATACGTAGGTATGGCATCGTCCATACTGAGC
* * ** *
23456572 TATGAAACGTAGGTATGGTATTTTCCATACTGAGT
1 TATGATACGTAGGTATGGCATCGTCCATACTGAGC
* * ** *
23456607 TATGAAACGTAGGTATGGTATTTTCCATACCGAAG-
1 TATGATACGTAGGTATGGCATCGTCCATACTG-AGC
* *
23456642 TATGAAATGTAGGTATGG
1 TATGATACGTAGGTATGG
23456660 TATTTCAATG
Statistics
Matches: 206, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
34 31 0.15
35 173 0.84
36 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (35 bp):
TATGATACGTAGGTATGGCATCGTCCATACTGAGC
Found at i:23456582 original size:105 final size:104
Alignment explanation
Indices: 23456398--23456659 Score: 348
Period size: 105 Copynumber: 2.5 Consensus size: 104
23456388 GTGGCAAAGT
*
23456398 TATGATACGTAGGTATGGCATCGTCCATACCGAGCT-TGATAA-GTAGGTATGGCATCGACCATA
1 TATGATACGTAGGTATGGCATTGTCCATACCGAG-TATGA-AATGTAGGTATGGCATCGACCATA
*
23456461 CTGAGCTATGATACGTAGGTATGGCATCGTCCATACTGAAC
64 CTGAGCTATGAAACGTAGGTATGGCATCGTCCATACTGAAC
* * *
23456502 TATGATACGTAGGTATGGCATTGTCCATACTGAGTTATGACATGTAGGTATGGCATCGTCCATAC
1 TATGATACGTAGGTATGGCATTGTCCATACCGAG-TATGAAATGTAGGTATGGCATCGACCATAC
* * ** **
23456567 TGAGTTATGAAACGTAGGTATGGTATTTTCCATACTGAGT
65 TGAGCTATGAAACGTAGGTATGGCATCGTCCATACTGAAC
* * *
23456607 TATGAAACGTAGGTATGGTATTTTCCATACCGAAGTATGAAATGTAGGTATGG
1 TATGATACGTAGGTATGGCATTGTCCATACCG-AGTATGAAATGTAGGTATGG
23456660 TATTTCAATG
Statistics
Matches: 138, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
104 34 0.25
105 102 0.74
106 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (104 bp):
TATGATACGTAGGTATGGCATTGTCCATACCGAGTATGAAATGTAGGTATGGCATCGACCATACT
GAGCTATGAAACGTAGGTATGGCATCGTCCATACTGAAC
Found at i:23458872 original size:38 final size:39
Alignment explanation
Indices: 23458793--23458886 Score: 127
Period size: 38 Copynumber: 2.4 Consensus size: 39
23458783 CACGGCATGA
* * * *
23458793 AAGTGCTATCAGGAGTACCGAAATACAATAGGGGCATGT
1 AAGTGCGATCAGGGGTACCGAAATACAACAGGGGCACGT
* *
23458832 AAGTGTGATCAGGGGTA-CGAAGTACAACAGGGGCACGT
1 AAGTGCGATCAGGGGTACCGAAATACAACAGGGGCACGT
23458870 AAGTGCGATCAGGGGTA
1 AAGTGCGATCAGGGGTA
23458887 TAATTATATA
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
38 34 0.71
39 14 0.29
ACGTcount: A:0.33, C:0.15, G:0.34, T:0.18
Consensus pattern (39 bp):
AAGTGCGATCAGGGGTACCGAAATACAACAGGGGCACGT
Found at i:23458884 original size:20 final size:20
Alignment explanation
Indices: 23458822--23458884 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
23458812 GAAATACAAT
* *
23458822 AGGGGCATGTAAGTGTGATC
1 AGGGGCACGTAAGTGCGATC
* * *
23458842 AGGGGTACG-AAGTAC-AAC
1 AGGGGCACGTAAGTGCGATC
23458860 AGGGGCACGTAAGTGCGATC
1 AGGGGCACGTAAGTGCGATC
23458880 AGGGG
1 AGGGG
23458885 TATAATTATA
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
18 10 0.30
19 9 0.27
20 14 0.42
ACGTcount: A:0.29, C:0.14, G:0.41, T:0.16
Consensus pattern (20 bp):
AGGGGCACGTAAGTGCGATC
Found at i:23460407 original size:25 final size:25
Alignment explanation
Indices: 23460373--23460424 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
23460363 AGATAGCATC
*
23460373 TGAACCGTTAAAAAGTTTCTAGATG
1 TGAACCGTTAAAAAGTTTCCAGATG
*
23460398 TGAACCGTTAAAAGGTTTCCAGATG
1 TGAACCGTTAAAAAGTTTCCAGATG
23460423 TG
1 TG
23460425 TTGTCGAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.31
Consensus pattern (25 bp):
TGAACCGTTAAAAAGTTTCCAGATG
Found at i:23465735 original size:17 final size:17
Alignment explanation
Indices: 23465715--23465747 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
23465705 ATCATGAAGG
23465715 AAAGAATGAAATGAATA
1 AAAGAATGAAATGAATA
23465732 AAAGAATGAAATGAAT
1 AAAGAATGAAATGAAT
23465748 GCTAAGGCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.18, T:0.18
Consensus pattern (17 bp):
AAAGAATGAAATGAATA
Found at i:23470692 original size:19 final size:20
Alignment explanation
Indices: 23470668--23470705 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
23470658 CTTAATTTCG
23470668 ATGTTTGACCTC-AATCTCA
1 ATGTTTGACCTCGAATCTCA
*
23470687 ATGTTTGATCTCGAATCTC
1 ATGTTTGACCTCGAATCTC
23470706 TATAAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.39
Consensus pattern (20 bp):
ATGTTTGACCTCGAATCTCA
Found at i:23471401 original size:34 final size:34
Alignment explanation
Indices: 23471363--23471442 Score: 97
Period size: 34 Copynumber: 2.4 Consensus size: 34
23471353 TTTGCCACTG
* * * * *
23471363 TATTGAACTGTTATAAGCATATTGATTGCTACCA
1 TATTGATCTGTTAAAAGCATATTAAATGCCACCA
* *
23471397 TATTGTTCTGTTAAAAGCATATTAAATGCCACCG
1 TATTGATCTGTTAAAAGCATATTAAATGCCACCA
23471431 TATTGATCTGTT
1 TATTGATCTGTT
23471443 TTGAAAATGC
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (34 bp):
TATTGATCTGTTAAAAGCATATTAAATGCCACCA
Found at i:23486508 original size:13 final size:13
Alignment explanation
Indices: 23486486--23486533 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
23486476 CTTAAATACG
*
23486486 ATTTATTTAATTA
1 ATTTAATTAATTA
*
23486499 ATTTAATTAACTA
1 ATTTAATTAATTA
* *
23486512 AATTAATTACTTA
1 ATTTAATTAATTA
*
23486525 ATTAAATTA
1 ATTTAATTA
23486534 TTTTCTCAAC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (13 bp):
ATTTAATTAATTA
Found at i:23486530 original size:17 final size:18
Alignment explanation
Indices: 23486494--23486533 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
23486484 CGATTTATTT
23486494 AATTAATTTAATTAACTA
1 AATTAATTTAATTAACTA
* *
23486512 AATTAA-TTACTTAATTA
1 AATTAATTTAATTAACTA
23486529 AATTA
1 AATTA
23486534 TTTTCTCAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (18 bp):
AATTAATTTAATTAACTA
Found at i:23488890 original size:27 final size:27
Alignment explanation
Indices: 23488860--23488914 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
23488850 CAAGGGTATC
23488860 ACAGCCACTTTACCCGACAGGGGCATT
1 ACAGCCACTTTACCCGACAGGGGCATT
* * * *
23488887 ACAGTCATTTTACCCTACAGGGGTATT
1 ACAGCCACTTTACCCGACAGGGGCATT
23488914 A
1 A
23488915 TGATCATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (27 bp):
ACAGCCACTTTACCCGACAGGGGCATT
Found at i:23488921 original size:27 final size:27
Alignment explanation
Indices: 23488868--23489075 Score: 278
Period size: 27 Copynumber: 7.7 Consensus size: 27
23488858 TCACAGCCAC
* *
23488868 TTTACCCGACAGGGGCATTAC-AGTCAT
1 TTTACCCTACAGGGGTATTACGA-TCAT
*
23488895 TTTACCCTACAGGGGTATTATGATCAT
1 TTTACCCTACAGGGGTATTACGATCAT
* *
23488922 TTTACCCTATAGGGTTATTAC-AGTCAT
1 TTTACCCTACAGGGGTATTACGA-TCAT
* *
23488949 TTTACCCTATAGGGGTATTACGATTAT
1 TTTACCCTACAGGGGTATTACGATCAT
* *
23488976 TTTACCCTATAGGGGTATTACGGTCAT
1 TTTACCCTACAGGGGTATTACGATCAT
*
23489003 TTTACCCTACAGGGGTATTACGGTCAT
1 TTTACCCTACAGGGGTATTACGATCAT
*
23489030 TTTACCCTACAGGGGTATTACGGTCAT
1 TTTACCCTACAGGGGTATTACGATCAT
23489057 TTTACCCTACA-GGGTATTA
1 TTTACCCTACAGGGGTATTA
23489076 GCTTAGATAA
Statistics
Matches: 167, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
26 9 0.05
27 156 0.93
28 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.36
Consensus pattern (27 bp):
TTTACCCTACAGGGGTATTACGATCAT
Found at i:23488926 original size:54 final size:54
Alignment explanation
Indices: 23488868--23489075 Score: 310
Period size: 54 Copynumber: 3.9 Consensus size: 54
23488858 TCACAGCCAC
* * *
23488868 TTTACCCGACAGGGGCATTACAGTCATTTTACCCTACAGGGGTATTATGATCAT
1 TTTACCCTACAGGGGTATTACAGTCATTTTACCCTACAGGGGTATTACGATCAT
* * * *
23488922 TTTACCCTATAGGGTTATTACAGTCATTTTACCCTATAGGGGTATTACGATTAT
1 TTTACCCTACAGGGGTATTACAGTCATTTTACCCTACAGGGGTATTACGATCAT
* * *
23488976 TTTACCCTATAGGGGTATTACGGTCATTTTACCCTACAGGGGTATTACGGTCAT
1 TTTACCCTACAGGGGTATTACAGTCATTTTACCCTACAGGGGTATTACGATCAT
*
23489030 TTTACCCTACAGGGGTATTACGGTCATTTTACCCTACA-GGGTATTA
1 TTTACCCTACAGGGGTATTACAGTCATTTTACCCTACAGGGGTATTA
23489076 GCTTAGATAA
Statistics
Matches: 141, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
53 8 0.06
54 133 0.94
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.36
Consensus pattern (54 bp):
TTTACCCTACAGGGGTATTACAGTCATTTTACCCTACAGGGGTATTACGATCAT
Found at i:23488963 original size:81 final size:80
Alignment explanation
Indices: 23488836--23489075 Score: 302
Period size: 81 Copynumber: 3.0 Consensus size: 80
23488826 AGGGCTACTC
* * * * * * * *
23488836 ATCATTTTTCCGTACAAGGGTATCACAGCCACTTTACCCGACAGGGGCATTACAGTCATTTTACC
1 ATCATTTTACCCTACAGGGGTATTACAGTCATTTTACCCTACAGGGGTATTAC-GTCATTTTACC
*
23488901 CTACAGGGGTATTATG
65 CTACAGGGGTATTACG
* * * *
23488917 ATCATTTTACCCTATAGGGTTATTACAGTCATTTTACCCTATAGGGGTATTACGATTATTTTACC
1 ATCATTTTACCCTACAGGGGTATTACAGTCATTTTACCCTACAGGGGTATTACG-TCATTTTACC
*
23488982 CTATAGGGGTATTACG
65 CTACAGGGGTATTACG
* *
23488998 GTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACC
1 ATCATTTTACCCTACAGGGGTATTACAGTCATTTTACCCTACAGGGGTATTAC-GTCATTTTACC
23489063 CTACA-GGGTATTA
65 CTACAGGGGTATTA
23489076 GCTTAGATAA
Statistics
Matches: 136, Mismatches: 21, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
80 9 0.07
81 126 0.93
82 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (80 bp):
ATCATTTTACCCTACAGGGGTATTACAGTCATTTTACCCTACAGGGGTATTACGTCATTTTACCC
TACAGGGGTATTACG
Found at i:23493902 original size:21 final size:21
Alignment explanation
Indices: 23493876--23493918 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
23493866 GAAAATTTCA
23493876 AGCCCAAGAGTTAGCAAACCT
1 AGCCCAAGAGTTAGCAAACCT
* *
23493897 AGCCCAAGTGTTTGCAAACCT
1 AGCCCAAGAGTTAGCAAACCT
23493918 A
1 A
23493919 ACTTTAATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.35, C:0.28, G:0.19, T:0.19
Consensus pattern (21 bp):
AGCCCAAGAGTTAGCAAACCT
Found at i:23495350 original size:43 final size:43
Alignment explanation
Indices: 23495292--23495429 Score: 204
Period size: 43 Copynumber: 3.2 Consensus size: 43
23495282 TTAAAACAAT
* * * *
23495292 GCCGCTAAAGACCATGACCTTTAGCGACGCTTTTCCCGCAAAT
1 GCCGCTAAAAACCATGACCTTTAGCGACGCTTTTCTCACAAAC
* *
23495335 GCCGCTAAAAACCATGACCTTTAGCGACGCTTTTTTTACAAAC
1 GCCGCTAAAAACCATGACCTTTAGCGACGCTTTTCTCACAAAC
* *
23495378 GCCGCTAAAAACCATGACCTTTAACGGCGCTTTTCTCACAAAC
1 GCCGCTAAAAACCATGACCTTTAGCGACGCTTTTCTCACAAAC
23495421 GCCGCTAAA
1 GCCGCTAAA
23495430 GAATATAACC
Statistics
Matches: 85, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 85 1.00
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.24
Consensus pattern (43 bp):
GCCGCTAAAAACCATGACCTTTAGCGACGCTTTTCTCACAAAC
Found at i:23499607 original size:8 final size:8
Alignment explanation
Indices: 23499596--23499676 Score: 78
Period size: 8 Copynumber: 9.9 Consensus size: 8
23499586 ATATTAAATA
23499596 TTAAATTT
1 TTAAATTT
*
23499604 TTAAGTTT
1 TTAAATTT
*
23499612 TT-TATTT
1 TTAAATTT
23499619 TTAAATTT
1 TTAAATTT
23499627 TT-AATTT
1 TTAAATTT
23499634 TTAAA-TT
1 TTAAATTT
23499641 TTAAATTTTT
1 TTAAA--TTT
23499651 TTGAAGATTT
1 TT-AA-ATTT
23499661 TTATAATTT
1 TTA-AATTT
23499670 TTAAATT
1 TTAAATT
23499677 ATCATATAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
7 19 0.31
8 21 0.34
9 8 0.13
10 10 0.16
11 2 0.03
12 1 0.02
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (8 bp):
TTAAATTT
Found at i:23499607 original size:15 final size:15
Alignment explanation
Indices: 23499589--23499650 Score: 79
Period size: 15 Copynumber: 4.1 Consensus size: 15
23499579 GATTAAAATA
*
23499589 TTAAATATTAAATTT
1 TTAAATTTTAAATTT
* **
23499604 TTAAGTTTTTTATTT
1 TTAAATTTTAAATTT
*
23499619 TTAAATTTTTAATTT
1 TTAAATTTTAAATTT
23499634 TTAAATTTTAAATTT
1 TTAAATTTTAAATTT
23499649 TT
1 TT
23499651 TTGAAGATTT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 40 1.00
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.65
Consensus pattern (15 bp):
TTAAATTTTAAATTT
Found at i:23499612 original size:7 final size:7
Alignment explanation
Indices: 23499599--23499650 Score: 59
Period size: 7 Copynumber: 7.0 Consensus size: 7
23499589 TTAAATATTA
23499599 AATTTTT
1 AATTTTT
23499606 AAGTTTTT
1 AA-TTTTT
*
23499614 TATTTTT
1 AATTTTT
23499621 AAATTTTT
1 -AATTTTT
23499629 AATTTTT
1 AATTTTT
*
23499636 AAATTTTA
1 -AATTTTT
23499644 AATTTTT
1 AATTTTT
23499651 TTGAAGATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
7 20 0.53
8 18 0.47
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (7 bp):
AATTTTT
Found at i:23501049 original size:30 final size:30
Alignment explanation
Indices: 23501015--23501071 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
23501005 CGAGCCTAGG
23501015 GGCAAAAGTGTAAATATGCAAAAGTTTAGA
1 GGCAAAAGTGTAAATATGCAAAAGTTTAGA
* * * *
23501045 GGCAAAATTGTAATTTTGCCAAAGTTT
1 GGCAAAAGTGTAAATATGCAAAAGTTT
23501072 GAGTTAAGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.30
Consensus pattern (30 bp):
GGCAAAAGTGTAAATATGCAAAAGTTTAGA
Found at i:23502946 original size:19 final size:19
Alignment explanation
Indices: 23502922--23502958 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
23502912 TTAATGTGCG
*
23502922 AATATATGTATATGTGTGT
1 AATATATATATATGTGTGT
23502941 AATATATATATATGTGTG
1 AATATATATATATGTGTG
23502959 GATCGAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (19 bp):
AATATATATATATGTGTGT
Found at i:23503232 original size:41 final size:41
Alignment explanation
Indices: 23503170--23503335 Score: 269
Period size: 41 Copynumber: 4.0 Consensus size: 41
23503160 GTTTGGAATT
*
23503170 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCC
1 GGTGATATGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
* *
23503211 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATATGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
* *
23503252 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCC
1 GGTGATATGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
* *
23503293 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATATGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
23503334 GG
1 GG
23503336 CTATAAGCCT
Statistics
Matches: 114, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 114 1.00
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (41 bp):
GGTGATATGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
Found at i:23503307 original size:82 final size:82
Alignment explanation
Indices: 23503170--23503335 Score: 323
Period size: 82 Copynumber: 2.0 Consensus size: 82
23503160 GTTTGGAATT
*
23503170 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
23503235 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
23503252 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
23503317 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
23503334 GG
1 GG
23503336 CTATAAGCCT
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 83 1.00
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (82 bp):
GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
CTAGCAGGCTAAGTGCC
Found at i:23503326 original size:16 final size:16
Alignment explanation
Indices: 23503305--23503354 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
23503295 TGATCTGAAT
23503305 CAGGCTATAAGCCTAG
1 CAGGCTATAAGCCTAG
23503321 CAGGC--TAAG--T-G
1 CAGGCTATAAGCCTAG
*
23503332 CCGGCTATAAGCCTAG
1 CAGGCTATAAGCCTAG
23503348 CAGGCTA
1 CAGGCTA
23503355 AGTGCCGGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 10
0.69 0.05 0.26
Matches are distributed among these distances:
11 5 0.19
12 1 0.04
13 4 0.15
14 4 0.15
15 1 0.04
16 12 0.44
ACGTcount: A:0.28, C:0.26, G:0.28, T:0.18
Consensus pattern (16 bp):
CAGGCTATAAGCCTAG
Found at i:23503337 original size:27 final size:27
Alignment explanation
Indices: 23503307--23503362 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
23503297 ATCTGAATCA
23503307 GGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGCTATAAGCCTAGCAGGCTAAGTGCC
23503334 GGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGCTATAAGCCTAGCAGGCTAAGTGCC
23503361 GG
1 GG
23503363 TGATATGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.25, C:0.25, G:0.32, T:0.18
Consensus pattern (27 bp):
GGCTATAAGCCTAGCAGGCTAAGTGCC
Found at i:23503353 original size:68 final size:68
Alignment explanation
Indices: 23503269--23503403 Score: 216
Period size: 68 Copynumber: 2.0 Consensus size: 68
23503259 TGAATCAGGT
* * *
23503269 TATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 TATAAACCTAGCAGGCTAAGCGCCGGTGATATGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
23503334 GGC
66 GGC
* * *
23503337 TATAAGCCTAGCAGGCTAAGTGCCGGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCC
1 TATAAACCTAGCAGGCTAAGCGCCGGTGATATGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
23503402 GG
66 GG
23503404 TGATCTGAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
68 61 1.00
ACGTcount: A:0.29, C:0.23, G:0.28, T:0.20
Consensus pattern (68 bp):
TATAAACCTAGCAGGCTAAGCGCCGGTGATATGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
GGC
Found at i:23503416 original size:109 final size:109
Alignment explanation
Indices: 23503225--23503444 Score: 440
Period size: 109 Copynumber: 2.0 Consensus size: 109
23503215 ATCTGAATCA
23503225 GGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGC
1 GGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGC
23503290 GCCGGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
66 GCCGGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
23503334 GGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGC
1 GGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGC
23503399 GCCGGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
66 GCCGGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
23503443 GG
1 GG
23503445 TGATCCGAAT
Statistics
Matches: 111, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
109 111 1.00
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.21
Consensus pattern (109 bp):
GGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGC
GCCGGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
Found at i:23503449 original size:41 final size:41
Alignment explanation
Indices: 23503334--23503454 Score: 197
Period size: 41 Copynumber: 3.0 Consensus size: 41
23503324 GCTAAGTGCC
*
23503334 GGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATATGAATCA
1 GGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCA
* * *
23503375 GGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCA
1 GGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCA
*
23503416 GGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATCCGAAT
1 GGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAAT
23503455 ATGATGAATT
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 72 1.00
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.21
Consensus pattern (41 bp):
GGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCA
Found at i:23506360 original size:14 final size:14
Alignment explanation
Indices: 23506341--23506371 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
23506331 TCGTATATTT
23506341 TAAACCCTAAACCA
1 TAAACCCTAAACCA
*
23506355 TAAACCCTAAACTA
1 TAAACCCTAAACCA
23506369 TAA
1 TAA
23506372 TGATAATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.52, C:0.29, G:0.00, T:0.19
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:23506507 original size:14 final size:14
Alignment explanation
Indices: 23506465--23506512 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
23506455 ACTAATTAAT
23506465 CTAAACCCTAAACTC
1 CTAAACCCTAAA-TC
* *
23506480 TTAATCCCTAAATC
1 CTAAACCCTAAATC
*
23506494 CTAAACCTTAAATC
1 CTAAACCCTAAATC
23506508 CTAAA
1 CTAAA
23506513 ACATAAACCA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 18 0.64
15 10 0.36
ACGTcount: A:0.42, C:0.31, G:0.00, T:0.27
Consensus pattern (14 bp):
CTAAACCCTAAATC
Found at i:23506510 original size:21 final size:22
Alignment explanation
Indices: 23506465--23506526 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 22
23506455 ACTAATTAAT
*
23506465 CTAAACCCTAAACTCTT-AATCC
1 CTAAAACCTAAAC-CTTAAATCC
*
23506487 CTAAATCCTAAACCTTAAAT-C
1 CTAAAACCTAAACCTTAAATCC
* *
23506508 CTAAAACATAAACCATAAA
1 CTAAAACCTAAACCTTAAA
23506527 CCATGAACCC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 20 0.57
22 15 0.43
ACGTcount: A:0.47, C:0.29, G:0.00, T:0.24
Consensus pattern (22 bp):
CTAAAACCTAAACCTTAAATCC
Found at i:23506571 original size:22 final size:22
Alignment explanation
Indices: 23506493--23506571 Score: 67
Period size: 21 Copynumber: 3.7 Consensus size: 22
23506483 ATCCCTAAAT
*
23506493 CCTAAACCTTAAATCC-T-AAAA
1 CCTAAACCTTAAA-CCATGAACA
* * *
23506514 CATAAACCATAAACCATGAACC
1 CCTAAACCTTAAACCATGAACA
*
23506536 CCTAACCCTT-AACCAATG-ACA
1 CCTAAACCTTAAACC-ATGAACA
23506557 CCTAAACCTTAAACC
1 CCTAAACCTTAAACC
23506572 CCAACTCTTA
Statistics
Matches: 45, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
20 2 0.04
21 27 0.60
22 16 0.36
ACGTcount: A:0.44, C:0.34, G:0.03, T:0.19
Consensus pattern (22 bp):
CCTAAACCTTAAACCATGAACA
Found at i:23507107 original size:76 final size:76
Alignment explanation
Indices: 23506981--23507165 Score: 271
Period size: 76 Copynumber: 2.4 Consensus size: 76
23506971 TGAAATATTT
* * * * *
23506981 TTTTGTGGCATTTTTCAAAAAGCGCCGCTAAAGCCACTAAAAGCTTAATACAAAACAATGGCGTT
1 TTTTGCGGCGTTTTTTAAAAAGCGCCGCTAAAGCCACTAAAAGCTCAATACAAAACAACGGCGTT
*
23507046 TTGTAAAATTC
66 TTGCAAAATTC
** * **
23507057 TTTTGCGGCGTTTTTTGGAAAGCGCCTCTAAAGCCACTAAAAGCTCAATACAAAATGACGGCGTT
1 TTTTGCGGCGTTTTTTAAAAAGCGCCGCTAAAGCCACTAAAAGCTCAATACAAAACAACGGCGTT
23507122 TTGCAAAATTC
66 TTGCAAAATTC
23507133 TTTTGCGGCGTTTTTTAAAAAGCGCCGCTAAAG
1 TTTTGCGGCGTTTTTTAAAAAGCGCCGCTAAAG
23507166 GTGTACTTAT
Statistics
Matches: 95, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
76 95 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.30
Consensus pattern (76 bp):
TTTTGCGGCGTTTTTTAAAAAGCGCCGCTAAAGCCACTAAAAGCTCAATACAAAACAACGGCGTT
TTGCAAAATTC
Found at i:23507518 original size:39 final size:40
Alignment explanation
Indices: 23507471--23507556 Score: 127
Period size: 40 Copynumber: 2.1 Consensus size: 40
23507461 AAGTTTTGCG
* * *
23507471 GCGTTTTTTAAAAAGCACCGCTAATGCTCGTTCTTTAGCT
1 GCGTTTTTCAAAAAGCACCACTAATGCTCGTTCTTTAGCA
* *
23507511 GCGTTTTTCGAAAAGCACCACTAATGCTCGTTCTTTGGCA
1 GCGTTTTTCAAAAAGCACCACTAATGCTCGTTCTTTAGCA
23507551 GCGTTT
1 GCGTTT
23507557 CTTATTCAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.36
Consensus pattern (40 bp):
GCGTTTTTCAAAAAGCACCACTAATGCTCGTTCTTTAGCA
Found at i:23515228 original size:20 final size:20
Alignment explanation
Indices: 23515192--23515229 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
23515182 AAGTGCTAGA
**
23515192 TTTGAACAACAGTAGATGTT
1 TTTGAACAACAACAGATGTT
23515212 TTTGAACAACAACAGATG
1 TTTGAACAACAACAGATG
23515230 CTTTAGTAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.29
Consensus pattern (20 bp):
TTTGAACAACAACAGATGTT
Found at i:23517899 original size:57 final size:58
Alignment explanation
Indices: 23517766--23517912 Score: 140
Period size: 57 Copynumber: 2.6 Consensus size: 58
23517756 ATTAACCTCA
* * * *
23517766 TTATAGAAAGGATTTAG-CTCGTACTGGTAATCCTGATATAATACCTCTCGAGTATACG
1 TTATATAAAGGATTTAGCCT-GGACTGGTAATCCTAATATAATACCTCTCGAGCATACG
* * * * *
23517824 TTATGAT-TAGGGTTTAGCCTGGACTGGTAATCCTAAT-TAA-GCTCTTTTGAGCATACG
1 TTAT-ATAAAGGATTTAGCCTGGACTGGTAATCCTAATATAATAC-CTCTCGAGCATACG
* *
23517881 TTATATAAAGGATTTAGCCTAGACTAGTAATC
1 TTATATAAAGGATTTAGCCTGGACTGGTAATC
23517913 TTGTTATACG
Statistics
Matches: 72, Mismatches: 13, Indels: 9
0.77 0.14 0.10
Matches are distributed among these distances:
56 3 0.04
57 39 0.54
58 27 0.38
59 3 0.04
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.35
Consensus pattern (58 bp):
TTATATAAAGGATTTAGCCTGGACTGGTAATCCTAATATAATACCTCTCGAGCATACG
Found at i:23519911 original size:62 final size:62
Alignment explanation
Indices: 23519843--23519966 Score: 212
Period size: 62 Copynumber: 2.0 Consensus size: 62
23519833 TGTGAAATGA
*
23519843 AAGAAAATGTGGGCTACTATAGGCAAGAAAAATATTTAGCTAGGCTTGGGTAACTTAGAAAT
1 AAGAAAATGTGGGCTACTATAGGCAAGAAAAATATTCAGCTAGGCTTGGGTAACTTAGAAAT
* * *
23519905 AAGAAAATGTTGGCTGCTATAGGCAAGAAAAATATTCGGCTAGGCTTGGGTAACTTAGAAAT
1 AAGAAAATGTGGGCTACTATAGGCAAGAAAAATATTCAGCTAGGCTTGGGTAACTTAGAAAT
23519967 TTCATGCATT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 58 1.00
ACGTcount: A:0.39, C:0.10, G:0.25, T:0.26
Consensus pattern (62 bp):
AAGAAAATGTGGGCTACTATAGGCAAGAAAAATATTCAGCTAGGCTTGGGTAACTTAGAAAT
Found at i:23532650 original size:20 final size:20
Alignment explanation
Indices: 23532625--23532721 Score: 95
Period size: 20 Copynumber: 4.7 Consensus size: 20
23532615 ATGGGATTAT
23532625 ACTTCGATGCCTCTATTTGC
1 ACTTCGATGCCTCTATTTGC
* *
23532645 ACTTCGATGCCCCTGTTTGC
1 ACTTCGATGCCTCTATTTGC
*
23532665 ACTTCAATGCCTCTGTATTTGC
1 ACTTCGATGCCTC--TATTTGC
* * * *
23532687 ACTACAATGCCTCTGTTAGC
1 ACTTCGATGCCTCTATTTGC
*
23532707 ATTTCGATGCTCTCT
1 ACTTCGATGC-CTCT
23532722 GGTATGTTTT
Statistics
Matches: 63, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
20 41 0.65
21 4 0.06
22 18 0.29
ACGTcount: A:0.16, C:0.30, G:0.15, T:0.38
Consensus pattern (20 bp):
ACTTCGATGCCTCTATTTGC
Found at i:23532697 original size:42 final size:42
Alignment explanation
Indices: 23532625--23532722 Score: 119
Period size: 42 Copynumber: 2.4 Consensus size: 42
23532615 ATGGGATTAT
* * *
23532625 ACTTCGATGCCTC--TATTTGCACTTCGATGCCCCTGTTTGC
1 ACTTCGATGCCTCTGTATTTGCACTACAATGCCCCTGTTAGC
* *
23532665 ACTTCAATGCCTCTGTATTTGCACTACAATGCCTCTGTTAGC
1 ACTTCGATGCCTCTGTATTTGCACTACAATGCCCCTGTTAGC
*
23532707 ATTTCGATGCTCTCTG
1 ACTTCGATGC-CTCTG
23532723 GTATGTTTTG
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
40 12 0.25
42 31 0.65
43 5 0.10
ACGTcount: A:0.16, C:0.30, G:0.16, T:0.38
Consensus pattern (42 bp):
ACTTCGATGCCTCTGTATTTGCACTACAATGCCCCTGTTAGC
Found at i:23535055 original size:20 final size:21
Alignment explanation
Indices: 23535032--23535078 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
23535022 TTTAAATGAG
*
23535032 AAATTCATCTTT-GAAATAAA
1 AAATTCATCTTTCAAAATAAA
* *
23535052 AAATATTATTTTTCAAAATAAA
1 AAAT-TCATCTTTCAAAATAAA
23535074 AAATT
1 AAATT
23535079 TTGTTGGGGT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 4 0.18
21 7 0.32
22 11 0.50
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.38
Consensus pattern (21 bp):
AAATTCATCTTTCAAAATAAA
Found at i:23537392 original size:17 final size:17
Alignment explanation
Indices: 23537370--23537405 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
23537360 GTTTAGTAAA
23537370 AATTTGTTAATAATTTT
1 AATTTGTTAATAATTTT
23537387 AATTTGTTAATAATTTT
1 AATTTGTTAATAATTTT
23537404 AA
1 AA
23537406 GTATTGTATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.56
Consensus pattern (17 bp):
AATTTGTTAATAATTTT
Found at i:23543331 original size:12 final size:12
Alignment explanation
Indices: 23543314--23543340 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
23543304 AAATCCTTAA
23543314 TTTCTTCTTCTT
1 TTTCTTCTTCTT
23543326 TTTCTTCTTCTT
1 TTTCTTCTTCTT
23543338 TTT
1 TTT
23543341 AAAAATACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTCTTCTTCTT
Found at i:23550740 original size:20 final size:20
Alignment explanation
Indices: 23550692--23550730 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
23550682 TGGAGCATGA
*
23550692 ATATCGATACCTTAGGAAAT
1 ATATCGATACCTTAAGAAAT
23550712 ATATCGATACCTTAAGAAA
1 ATATCGATACCTTAAGAAA
23550731 AGTGTCGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (20 bp):
ATATCGATACCTTAAGAAAT
Found at i:23553531 original size:33 final size:33
Alignment explanation
Indices: 23553494--23553559 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
23553484 TGAATAGGTT
*
23553494 GCTCCCCCT-TAATAAAAGTCATTTTCAATTTAA
1 GCTCCCCCTAT-ATAAAAATCATTTTCAATTTAA
23553527 GCTCCCCCTATATAAAAATCATTTTCAATTTAA
1 GCTCCCCCTATATAAAAATCATTTTCAATTTAA
23553560 CGCATAAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 30 0.97
34 1 0.03
ACGTcount: A:0.35, C:0.24, G:0.05, T:0.36
Consensus pattern (33 bp):
GCTCCCCCTATATAAAAATCATTTTCAATTTAA
Found at i:23556311 original size:23 final size:24
Alignment explanation
Indices: 23556275--23556320 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
23556265 ATTTATTTTC
*
23556275 TTTTTTGTTTCTCTATTTGTTTGA
1 TTTTTTGTTACTCTATTTGTTTGA
*
23556299 TTTTTT-TTACTCTTTTTGTTTG
1 TTTTTTGTTACTCTATTTGTTTG
23556321 GAGTATATGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.07, C:0.09, G:0.11, T:0.74
Consensus pattern (24 bp):
TTTTTTGTTACTCTATTTGTTTGA
Found at i:23558727 original size:32 final size:32
Alignment explanation
Indices: 23558686--23558762 Score: 86
Period size: 33 Copynumber: 2.4 Consensus size: 32
23558676 AATTTTTTTG
*
23558686 GAAAATATTTTCA-GGAAATC-TGCCAAACAACA
1 GAAAATATTTTCACAG-AATCAT-CCAAACAACA
* *
23558718 GAAAATATTTTACACAGATTCATCCAAACACCA
1 GAAAATATTTT-CACAGAATCATCCAAACAACA
23558751 GAAAATATTTTC
1 GAAAATATTTTC
23558763 TACTAAATCA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
32 12 0.31
33 25 0.64
34 2 0.05
ACGTcount: A:0.45, C:0.19, G:0.09, T:0.26
Consensus pattern (32 bp):
GAAAATATTTTCACAGAATCATCCAAACAACA
Found at i:23558794 original size:20 final size:20
Alignment explanation
Indices: 23558766--23558803 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
23558756 TATTTTCTAC
*
23558766 TAAATCATTTTACAGAAAAG
1 TAAAACATTTTACAGAAAAG
*
23558786 TAAAACATTTTCCAGAAA
1 TAAAACATTTTACAGAAA
23558804 TCATTTTACG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.13, G:0.08, T:0.29
Consensus pattern (20 bp):
TAAAACATTTTACAGAAAAG
Found at i:23558810 original size:14 final size:14
Alignment explanation
Indices: 23558787--23558826 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
23558777 ACAGAAAAGT
*
23558787 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
23558801 AAATCATTTTACGG
1 AAAACATTTTACAG
23558815 AAAACATTTTAC
1 AAAACATTTTAC
23558827 TACCAAACAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:23563837 original size:23 final size:23
Alignment explanation
Indices: 23563807--23563851 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
23563797 TTTTAGATAC
23563807 ATGCATTGCGGCCTTACTCCATA
1 ATGCATTGCGGCCTTACTCCATA
23563830 ATGCATTGCGGCCTTACTCCAT
1 ATGCATTGCGGCCTTACTCCAT
23563852 CTTATTTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.20, C:0.31, G:0.18, T:0.31
Consensus pattern (23 bp):
ATGCATTGCGGCCTTACTCCATA
Found at i:23564276 original size:29 final size:29
Alignment explanation
Indices: 23564238--23564293 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
23564228 CTAGAACAAC
23564238 TCATATTTGACATCCTACAGATTCAAACT
1 TCATATTTGACATCCTACAGATTCAAACT
23564267 TCATATTTGACATCCTACAGATTCAAA
1 TCATATTTGACATCCTACAGATTCAAA
23564294 AACTATGTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.34
Consensus pattern (29 bp):
TCATATTTGACATCCTACAGATTCAAACT
Found at i:23567209 original size:24 final size:24
Alignment explanation
Indices: 23567173--23567222 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 24
23567163 TTCATGTTAC
23567173 ATGTTTGGAATGGTTT-ATATGGT
1 ATGTTTGGAATGGTTTAATATGGT
*
23567196 ATGTTTTGAGATGGTTTGAATATGGT
1 ATGTTTGGA-ATGGTTT-AATATGGT
23567222 A
1 A
23567223 AGATTATGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 8 0.35
24 7 0.30
26 8 0.35
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (24 bp):
ATGTTTGGAATGGTTTAATATGGT
Found at i:23569901 original size:22 final size:22
Alignment explanation
Indices: 23569846--23569906 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
23569836 GAACAATAAG
*
23569846 CTCTATTGAGCTGAAAATAGTAAA
1 CTCTATCGAGCTG--AATAGTAAA
* *
23569870 CTCTATCGAGTTGAATAGTAAG
1 CTCTATCGAGCTGAATAGTAAA
23569892 CTC-ATACGAGCTGAA
1 CTCTAT-CGAGCTGAA
23569907 ACGATAAGCT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 2 0.06
22 19 0.59
24 11 0.34
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (22 bp):
CTCTATCGAGCTGAATAGTAAA
Found at i:23572615 original size:23 final size:23
Alignment explanation
Indices: 23572533--23572617 Score: 77
Period size: 23 Copynumber: 3.7 Consensus size: 23
23572523 AGCTTTTTGT
* *
23572533 TTTCAGCTCATTGGAGCTTACCA
1 TTTCAGCTCATTAGAGCTTACCG
* * *
23572556 TTTCAACTC-GTATGAGCTTACTG
1 TTTCAGCTCATTA-GAGCTTACCG
*
23572579 -TTCAGCTTGA-TAGAGCTTACCG
1 TTTCAGC-TCATTAGAGCTTACCG
23572601 TTTCAGCTCATTAGAGC
1 TTTCAGCTCATTAGAGC
23572618 GTATTGTTCG
Statistics
Matches: 48, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
22 17 0.35
23 31 0.65
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.35
Consensus pattern (23 bp):
TTTCAGCTCATTAGAGCTTACCG
Found at i:23576882 original size:38 final size:38
Alignment explanation
Indices: 23576811--23577081 Score: 416
Period size: 38 Copynumber: 7.1 Consensus size: 38
23576801 ATTTGATGTG
* * * *
23576811 TATCCGGGCTTAAAGACCCACAAGCTTCATGCTGGTATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTATTA
*
23576851 TATCCGAGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
*
23576889 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
*
23576927 TATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
*
23576965 TATCCGGGTTAAATCCAGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
*
23577003 TATCCGGGTTAAATCCCGCAGGCTTCGTCCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
* * *
23577041 TATCCGGGTTAAATCCCGCAGGCCTAGTACTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
23577079 TAT
1 TAT
23577082 TCAGGCCTTG
Statistics
Matches: 215, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
38 203 0.94
39 5 0.02
40 7 0.03
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.31
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
Found at i:23579645 original size:79 final size:82
Alignment explanation
Indices: 23579534--23579718 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
23579524 GCTACTCGTT
* *
23579534 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
23579597 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
23579614 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
23579677 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
23579694 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
23579719 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:23579718 original size:40 final size:40
Alignment explanation
Indices: 23579515--23579718 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
23579505 CGGAATTTAA
** *
23579515 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
23579555 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
23579595 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
23579634 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
23579674 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
23579714 CCGGA
1 CCGGA
23579719 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:23587503 original size:40 final size:39
Alignment explanation
Indices: 23587459--23587642 Score: 214
Period size: 39 Copynumber: 4.7 Consensus size: 39
23587449 GCTACTCGTT
*
23587459 CAAATGCCTTCGGGACATAGCCCGG-TCATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAT--TAGTAACTCGCA
*
23587499 CAAATGCCTTCGGGACTTAACCCGGATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
*
23587538 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-ATTAGTAACTCGCA
* * * * *
23587577 CAAATGCCTTC-GGATCTTAGTCCGAATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TAGTAAC-TCGCA
23587618 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
23587643 CATCATTCAA
Statistics
Matches: 125, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
38 11 0.09
39 52 0.42
40 50 0.40
41 12 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
Found at i:23587541 original size:39 final size:40
Alignment explanation
Indices: 23587440--23587642 Score: 222
Period size: 40 Copynumber: 5.1 Consensus size: 40
23587430 CGGAATTTAA
** *
23587440 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
23587480 CCGG-TCATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGAT-ATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
23587520 CCGGAT-TAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
23587558 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * * *
23587598 CCGAATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
23587638 CCGGA
1 CCGGA
23587643 CATCATTCAA
Statistics
Matches: 139, Mismatches: 14, Indels: 20
0.80 0.08 0.12
Matches are distributed among these distances:
38 12 0.09
39 50 0.36
40 64 0.46
41 13 0.09
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:23598819 original size:38 final size:38
Alignment explanation
Indices: 23598768--23598843 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
23598758 CAAATTAAAG
23598768 AAAATGTTTATTTTTTAATAATTATTTTTTATGAAATA
1 AAAATGTTTATTTTTTAATAATTATTTTTTATGAAATA
23598806 AAAATGTTTATTTTTTAATAATTATTTTTTATGAAATA
1 AAAATGTTTATTTTTTAATAATTATTTTTTATGAAATA
23598844 TTTAATTATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (38 bp):
AAAATGTTTATTTTTTAATAATTATTTTTTATGAAATA
Found at i:23612023 original size:21 final size:21
Alignment explanation
Indices: 23611985--23612037 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 21
23611975 GCTGGGCTTT
*
23611985 TTTGATTTTTAATTAA-TTAAC
1 TTTGA-TTTTAATGAATTTAAC
*
23612006 TTTGATTTTAATCGAATTTTAAT
1 TTTGATTTTAAT-GAA-TTTAAC
23612029 TTTGATTTT
1 TTTGATTTT
23612038 GATTTTGATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 7 0.26
21 7 0.26
23 13 0.48
ACGTcount: A:0.28, C:0.04, G:0.08, T:0.60
Consensus pattern (21 bp):
TTTGATTTTAATGAATTTAAC
Done.