Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold166
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: 2719372
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 17868 characters in sequence are not A, C, G, or T
File 5 of 18
Found at i:660165 original size:198 final size:199
Alignment explanation
Indices: 659865--660257 Score: 506
Period size: 198 Copynumber: 2.0 Consensus size: 199
659855 TTATCGATTT
* * * * * * *
659865 TGCCCTGGCCTACGTTTTAATTGGTTAACTTTATCGGTTTCATCTTGGTCAACCCTTCTAACCCG
1 TGCCCTAGCCAACCTTTTAATTGGTTAACTTTATCGGTTTCACCCTAGTCAACCCTTCTAACCCA
* *
659930 TTGGCTTTATCGATTTTGCCCTAGCTAACCATTTAATTGGTTGACT-TGATCAATTTCACCCTAG
66 TTGGCTTTATCGAGTTTGCCCTAGCCAACCATTTAATTGGTTGACTCT-ATCAATTTCACCCTAG
* * **
659994 CCAACCTTTCTAAGCCATTGGCTTTATCGGTTTTACCCTAGCCAACCTTTTAATTAGTTGACTTT
130 CCAACCCTTCTAACCCATTGGCTTTATCAATTTTACCCTAGCCAACCTTTTAATTAGTTGACTTT
660059 AGTGG
195 AGTGG
* **
660064 TGCCCTAGCCAACCTTTTAATTGGTTGACTTTATCGGTTTTGCCCTAGT-AACCCTTCTAACCCA
1 TGCCCTAGCCAACCTTTTAATTGGTTAACTTTATCGGTTTCACCCTAGTCAACCCTTCTAACCCA
* * * * *
660128 TTGGCTTTATCG-GTTT-CACCTTGACCAACCTTTTAATTGGTTGACTCTATCGATTTCGCCCTG
66 TTGGCTTTATCGAGTTTGC-CCTAG-CCAACCATTTAATTGGTTGACTCTATCAATTTCACCCTA
* * * *
660191 GTCAACCCTTCTAACCCATTGGCTTTATCAATTTTACCTTGGCCAACCTTTTAATTGGTTGACTT
129 GCCAACCCTTCTAACCCATTGGCTTTATCAATTTTACCCTAGCCAACCTTTTAATTAGTTGACTT
660256 TA
194 TA
660258 TTGATTTCGC
Statistics
Matches: 166, Mismatches: 25, Indels: 7
0.84 0.13 0.04
Matches are distributed among these distances:
196 1 0.01
197 7 0.04
198 117 0.70
199 41 0.25
ACGTcount: A:0.20, C:0.26, G:0.15, T:0.39
Consensus pattern (199 bp):
TGCCCTAGCCAACCTTTTAATTGGTTAACTTTATCGGTTTCACCCTAGTCAACCCTTCTAACCCA
TTGGCTTTATCGAGTTTGCCCTAGCCAACCATTTAATTGGTTGACTCTATCAATTTCACCCTAGC
CAACCCTTCTAACCCATTGGCTTTATCAATTTTACCCTAGCCAACCTTTTAATTAGTTGACTTTA
GTGG
Found at i:660197 original size:40 final size:40
Alignment explanation
Indices: 659804--660412 Score: 237
Period size: 40 Copynumber: 15.2 Consensus size: 40
659794 CTTTTTATCC
* * * *
659804 TTGGTTGACTTTATCGGTTTTGCCTTGGTCAACCCTATTAA
1 TTGGTTGACTTTATCGATTTCGCCCTGGTCAA-CCTTTTAA
**** * * * * *
659845 CCCATTGGCTTTATCGATTTTGCCCTGGCCTACGTTTTAA
1 TTGGTTGACTTTATCGATTTCGCCCTGGTCAACCTTTTAA
* * ** * *
659885 TTGGTTAACTTTATCGGTTTCATCTTGGTCAACCCTTCTAA
1 TTGGTTGACTTTATCGATTTCGCCCTGGTCAA-CCTTTTAA
*** * * * *
659926 CCCGTTGGCTTTATCGATTTTGCCCTAG-CTAACCATTTAA
1 TTGGTTGACTTTATCGATTTCGCCCTGGTC-AACCTTTTAA
* * * * *
659966 TTGGTTGACTTGATCAATTTCACCCTAGCCAACCTTTCTAA
1 TTGGTTGACTTTATCGATTTCGCCCTGGTCAACCTTT-TAA
**** * * ** * *
660007 GCCATTGGCTTTATCGGTTTTACCCTAGCCAACCTTTTAA
1 TTGGTTGACTTTATCGATTTCGCCCTGGTCAACCTTTTAA
* * * *
660047 TTAGTTGACTTTA--G-TGGT-GCCCTAGCCAACCTTTTAA
1 TTGGTTGACTTTATCGAT-TTCGCCCTGGTCAACCTTTTAA
* * * *
660084 TTGGTTGACTTTATCGGTTTTGCCCTAGT-AACCCTTCTAA
1 TTGGTTGACTTTATCGATTTCGCCCTGGTCAA-CCTTTTAA
**** * * * * **
660124 CCCATTGGCTTTATCGGTTTCACCTTGACCAACCTTTTAA
1 TTGGTTGACTTTATCGATTTCGCCCTGGTCAACCTTTTAA
* *
660164 TTGGTTGACTCTATCGATTTCGCCCTGGTCAACCCTTCTAA
1 TTGGTTGACTTTATCGATTTCGCCCTGGTCAA-CCTTTTAA
**** * * ** * *
660205 CCCATTGGCTTTATCAATTTTACCTTGGCCAACCTTTTAA
1 TTGGTTGACTTTATCGATTTCGCCCTGGTCAACCTTTTAA
* * *
660245 TTGGTTGACTTTATTGATTTCGCCCTGGTTAACACTTCTAA
1 TTGGTTGACTTTATCGATTTCGCCCTGGTCAAC-CTTTTAA
* * * * *
660286 CTCGTTGGCTTTATC-AGTTTCGCCATGGCCAACCTTTTAA
1 TTGGTTGACTTTATCGA-TTTCGCCCTGGTCAACCTTTTAA
** *
660326 TTGGTTGACTTTATC-AGTTTTACCCTGGTCAACCCTTCTAA
1 TTGGTTGACTTTATCGA-TTTCGCCCTGGTCAA-CCTTTTAA
* ** * * * * *
660367 CCT-GTTGGTTTTATTGGTTTTGCCTTGGCCAACCTTTTAA
1 -TTGGTTGACTTTATCGATTTCGCCCTGGTCAACCTTTTAA
660407 TTGGTT
1 TTGGTT
660413 AACTGTGTTG
Statistics
Matches: 407, Mismatches: 143, Indels: 37
0.69 0.24 0.06
Matches are distributed among these distances:
37 31 0.08
38 2 0.00
39 5 0.01
40 200 0.49
41 168 0.41
42 1 0.00
ACGTcount: A:0.19, C:0.25, G:0.16, T:0.41
Consensus pattern (40 bp):
TTGGTTGACTTTATCGATTTCGCCCTGGTCAACCTTTTAA
Found at i:660231 original size:81 final size:81
Alignment explanation
Indices: 660071--660412 Score: 445
Period size: 81 Copynumber: 4.2 Consensus size: 81
660061 TGGTGCCCTA
* * *
660071 GCCAACCTTTTAATTGGTTGACTTTATCGGTTTTGCCCTAGT-AACCCTTCTAACCCATTGGCTT
1 GCCAACCTTTTAATTGGTTGACTTTATCGATTTCGCCCTGGTCAACCCTTCTAACCCATTGGCTT
*
660135 TATCGGTTTCACCTTG
66 TATCAGTTTCACCTTG
* *
660151 ACCAACCTTTTAATTGGTTGACTCTATCGATTTCGCCCTGGTCAACCCTTCTAACCCATTGGCTT
1 GCCAACCTTTTAATTGGTTGACTTTATCGATTTCGCCCTGGTCAACCCTTCTAACCCATTGGCTT
* *
660216 TATCAATTTTACCTTG
66 TATCAGTTTCACCTTG
* * * * *
660232 GCCAACCTTTTAATTGGTTGACTTTATTGATTTCGCCCTGGTTAACACTTCTAACTCGTTGGCTT
1 GCCAACCTTTTAATTGGTTGACTTTATCGATTTCGCCCTGGTCAACCCTTCTAACCCATTGGCTT
* *
660297 TATCAGTTTCGCCATG
66 TATCAGTTTCACCTTG
** ** *
660313 GCCAACCTTTTAATTGGTTGACTTTATC-AGTTTTACCCTGGTCAACCCTTCTAACCTGTTGGTT
1 GCCAACCTTTTAATTGGTTGACTTTATCGA-TTTCGCCCTGGTCAACCCTTCTAACCCATTGGCT
** **
660377 TTATTGGTTTTGCCTTG
65 TTATCAGTTTCACCTTG
660394 GCCAACCTTTTAATTGGTT
1 GCCAACCTTTTAATTGGTT
660413 AACTGTGTTG
Statistics
Matches: 229, Mismatches: 31, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
80 38 0.17
81 191 0.83
ACGTcount: A:0.18, C:0.25, G:0.16, T:0.41
Consensus pattern (81 bp):
GCCAACCTTTTAATTGGTTGACTTTATCGATTTCGCCCTGGTCAACCCTTCTAACCCATTGGCTT
TATCAGTTTCACCTTG
Found at i:660512 original size:43 final size:43
Alignment explanation
Indices: 660442--660525 Score: 105
Period size: 43 Copynumber: 2.0 Consensus size: 43
660432 CAAGCAATGC
* ** *
660442 TTTTATCTTTTGTTTACCTATTGGCTCAATCCCGGGTAAATCT
1 TTTTATCTTTTGTTAACCTATCAGCTCAATCCCGAGTAAATCT
* * *
660485 TTTTATCTTTTGTTAACTTCTCAGCTCAGTCCCGAGTAAAT
1 TTTTATCTTTTGTTAACCTATCAGCTCAATCCCGAGTAAAT
660526 TCATATATCT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.20, C:0.21, G:0.13, T:0.45
Consensus pattern (43 bp):
TTTTATCTTTTGTTAACCTATCAGCTCAATCCCGAGTAAATCT
Found at i:660889 original size:43 final size:43
Alignment explanation
Indices: 660558--660890 Score: 150
Period size: 43 Copynumber: 7.8 Consensus size: 43
660548 TAGTCAACCT
* * * * *
660558 TTTTATCCTTTATTTACCTATCGACTT-AATCTCGGGTAAATCC
1 TTTTATCCTTTGTTGACTTGTCGA-TTCAATCTTGGGTAAATCC
* * *
660601 TTTTATCCTTTGTTGACTTGTC-ATTTCAATC-TCGATCAA-CC
1 TTTTATCCTTTGTTGACTTGTCGA-TTCAATCTTGGGTAAATCC
* * * * * *
660642 TTTCTATCATTTGTTTA-TCTGTCGACTCAGTCTTAGATAAATCC
1 TTT-TATCCTTTGTTGACT-TGTCGATTCAATCTTGGGTAAATCC
* * * *
660686 TTTTATCCTTTGTTGGCTTGTC-ATTTCAATC-TCGATCAA-CC
1 TTTTATCCTTTGTTGACTTGTCGA-TTCAATCTTGGGTAAATCC
* * * * * * *
660727 TTTTTATCCTTTATTTACTTATTGGCTT-AGTCCTGGGTAAATCC
1 -TTTTATCCTTTGTTGACTT-GTCGATTCAATCTTGGGTAAATCC
* * * * * *
660771 TTTTATCTTTTATTGACTTGTCGGTTCAATCCT-GGTTAA-CT
1 TTTTATCCTTTGTTGACTTGTCGATTCAATCTTGGGTAAATCC
* * * * * *
660812 TTTCTATCATTTGTTTACCTGTTAGCTT-AGTCTTGGGTAAATCC
1 TTT-TATCCTTTGTTGACTTG-TCGATTCAATCTTGGGTAAATCC
* *
660856 TTTTATCTTTTGTTGACTTATCGATTCAATCTTGG
1 TTTTATCCTTTGTTGACTTGTCGATTCAATCTTGG
660891 TCAACTTTTG
Statistics
Matches: 214, Mismatches: 57, Indels: 38
0.69 0.18 0.12
Matches are distributed among these distances:
41 12 0.06
42 83 0.39
43 107 0.50
44 12 0.06
ACGTcount: A:0.19, C:0.20, G:0.13, T:0.48
Consensus pattern (43 bp):
TTTTATCCTTTGTTGACTTGTCGATTCAATCTTGGGTAAATCC
Found at i:660936 original size:85 final size:84
Alignment explanation
Indices: 660550--660928 Score: 386
Period size: 85 Copynumber: 4.5 Consensus size: 84
660540 TTTAATCCTA
* *
660550 GTCAACCTTTTTATCCTTTATTTACCTATCGACTTAATCTCGGGTAAATCCTTTTATCCTTTGTT
1 GTCAA-CTTTTTATCCTTTATTTACCTATCGACTTAGTCTTGGGTAAATCCTTTTATCCTTTGTT
660615 GACTTGTCATTTCAATCTCG
65 GACTTGTCATTTCAATCTCG
* * * * * * * * *
660635 ATCAACCTTTCTATCATTTGTTTATCTGTCGACTCAGTCTTAGATAAATCCTTTTATCCTTTGTT
1 GTCAA-CTTTTTATCCTTTATTTACCTATCGACTTAGTCTTGGGTAAATCCTTTTATCCTTTGTT
*
660700 GGCTTGTCATTTCAATCTCG
65 GACTTGTCATTTCAATCTCG
* * * * * * *
660720 ATCAACCTTTTTATCCTTTATTTACTTATTGGCTTAGTCCTGGGTAAATCCTTTTATCTTTTATT
1 GTCAA-CTTTTTATCCTTTATTTACCTATCGACTTAGTCTTGGGTAAATCCTTTTATCCTTTGTT
**
660785 GACTTGTCGGTTCAATC-CTG
65 GACTTGTCATTTCAATCTC-G
* * * * * *
660805 GTTAACTTTTCTATCATTTGTTTACCTGT-TAGCTTAGTCTTGGGTAAATCCTTTTATCTTTTGT
1 GTCAACTTTT-TATCCTTTATTTACCTATCGA-CTTAGTCTTGGGTAAATCCTTTTATCCTTTGT
* *
660869 TGACTTATCGA-TTCAATCTTG
64 TGACTTGTC-ATTTCAATCTCG
* *
660890 GTCAACTTTTGTATCCTTCATTTACCTATCAACTTAGTC
1 GTCAACTTTT-TATCCTTTATTTACCTATCGACTTAGTC
660929 CCAGGTAACC
Statistics
Matches: 239, Mismatches: 49, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
84 6 0.03
85 232 0.97
86 1 0.00
ACGTcount: A:0.20, C:0.21, G:0.12, T:0.47
Consensus pattern (84 bp):
GTCAACTTTTTATCCTTTATTTACCTATCGACTTAGTCTTGGGTAAATCCTTTTATCCTTTGTTG
ACTTGTCATTTCAATCTCG
Found at i:660955 original size:170 final size:170
Alignment explanation
Indices: 660550--660957 Score: 477
Period size: 170 Copynumber: 2.4 Consensus size: 170
660540 TTTAATCCTA
* * *
660550 GTCAACCTTTTTATCCTTTATTTACCTATCGACTTAATCTCGGGTAAATCCTTTTATCCTTTGTT
1 GTCAACCTTTTTATCCTTTATTTACCTATCGACTTAGTCCCGGGTAAATCCTTTTATCCTTTATT
* * *
660615 GACTTGTCATTTCAATCTCGATCAACCTTTCTATCATTTGTTTATCTGTCGACTCAGTCTTAGAT
66 GACTTGTCAGTTCAATCTCGATCAACCTTTCTATCATTTGTTTACCTGTAGACTCAGTCTTAGAT
* *
660680 AAATCCTTTTATCCTTTGTTGGCTTGTCATTTCAATCTCG
131 AAATCCTTTTATCCTTTGTTGACTTATCATTTCAATCTCG
* * * * * *
660720 ATCAACCTTTTTATCCTTTATTTACTTATTGGCTTAGTCCTGGGTAAATCCTTTTATCTTTTATT
1 GTCAACCTTTTTATCCTTTATTTACCTATCGACTTAGTCCCGGGTAAATCCTTTTATCCTTTATT
* * * * * *
660785 GACTTGTCGGTTCAATC-CTGGTTAACTTTTCTATCATTTGTTTACCTGTTAG-CTTAGTCTTGG
66 GACTTGTCAGTTCAATCTC-GATCAACCTTTCTATCATTTGTTTACCTG-TAGACTCAGTCTTAG
* * *
660848 GTAAATCCTTTTATCTTTTGTTGACTTATCGA-TTCAATCTTG
129 ATAAATCCTTTTATCCTTTGTTGACTTATC-ATTTCAATCTCG
* * * *
660890 GTCAA-CTTTTGTATCCTTCATTTACCTATCAACTTAGTCCCAGGT-AACCCTTTTCA-CACTTT
1 GTCAACCTTTT-TATCCTTTATTTACCTATCGACTTAGTCCCGGGTAAATCCTTTT-ATC-CTTT
660952 ATTGAC
63 ATTGAC
660958 CTGACTACCT
Statistics
Matches: 199, Mismatches: 33, Indels: 12
0.82 0.14 0.05
Matches are distributed among these distances:
169 15 0.08
170 181 0.91
171 3 0.02
ACGTcount: A:0.20, C:0.22, G:0.12, T:0.46
Consensus pattern (170 bp):
GTCAACCTTTTTATCCTTTATTTACCTATCGACTTAGTCCCGGGTAAATCCTTTTATCCTTTATT
GACTTGTCAGTTCAATCTCGATCAACCTTTCTATCATTTGTTTACCTGTAGACTCAGTCTTAGAT
AAATCCTTTTATCCTTTGTTGACTTATCATTTCAATCTCG
Found at i:661518 original size:21 final size:20
Alignment explanation
Indices: 661492--661530 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
661482 AGGTCAAAAC
661492 CCTAGAAAGTATCGATACACA
1 CCTAG-AAGTATCGATACACA
*
661513 CCTAGATGTATCGATACA
1 CCTAGAAGTATCGATACA
661531 TATTGCTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.23
Consensus pattern (20 bp):
CCTAGAAGTATCGATACACA
Found at i:661561 original size:33 final size:32
Alignment explanation
Indices: 661519--661582 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
661509 CACACCTAGA
* *
661519 TGTATCGATACATATTGCTTAGTATTGATACAT
1 TGTATCGATACATATT-CATAGTATCGATACAT
*
661552 TGTATCGATACATGTTCATAGTATCGATACA
1 TGTATCGATACATATTCATAGTATCGATACA
661583 CCTTAAAAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATATTCATAGTATCGATACAT
Found at i:661669 original size:13 final size:13
Alignment explanation
Indices: 661651--661675 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
661641 ATACATGGTA
661651 CATTGTATCGATG
1 CATTGTATCGATG
661664 CATTGTATCGAT
1 CATTGTATCGAT
661676 ACATGGTGAA
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:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (13 bp):
CATTGTATCGATG
Found at i:661692 original size:33 final size:33
Alignment explanation
Indices: 661633--661702 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 33
661623 CTACCACTAT
** *
661633 TTGTATCGATACATGGTACATTGTATCGATGCA
1 TTGTATCGATACATGGTACAAAGTATCGATACA
661666 TTGTATCGATACATGGTGA-AAAGTATCGATACA
1 TTGTATCGATACATGGT-ACAAAGTATCGATACA
661699 TTGT
1 TTGT
661703 GTCTAAACAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
33 32 0.97
34 1 0.03
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (33 bp):
TTGTATCGATACATGGTACAAAGTATCGATACA
Found at i:662906 original size:9 final size:9
Alignment explanation
Indices: 662892--662930 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
662882 TTAACCATCA
662892 AAGATGATG
1 AAGATGATG
662901 AAGATGATG
1 AAGATGATG
*
662910 ATGATGATG
1 AAGATGATG
* *
662919 ATGATGAAG
1 AAGATGATG
662928 AAG
1 AAG
662931 TTGACTCGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.44, C:0.00, G:0.33, T:0.23
Consensus pattern (9 bp):
AAGATGATG
Found at i:662909 original size:3 final size:3
Alignment explanation
Indices: 662894--662925 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
662884 AACCATCAAA
*
662894 GAT GAT GAA GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
662926 AGAAGTTGAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.34, T:0.28
Consensus pattern (3 bp):
GAT
Found at i:665897 original size:13 final size:13
Alignment explanation
Indices: 665879--665910 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
665869 ACTTTTCACT
665879 ATTGTATCGATAC
1 ATTGTATCGATAC
665892 ATTGTATCGATAC
1 ATTGTATCGATAC
*
665905 AATGTA
1 ATTGTA
665911 CCATGTATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (13 bp):
ATTGTATCGATAC
Found at i:666003 original size:19 final size:19
Alignment explanation
Indices: 665955--666010 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
665945 CTACCAGTTT
*
665955 CATGTATCGATACAATTGAG
1 CATGTATCGATACAA-TGAA
* *
665975 TATTTATCGATACAATGAA
1 CATGTATCGATACAATGAA
665994 CATGTATCGATACAATG
1 CATGTATCGATACAATG
666011 TATCGATACA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 18 0.58
20 13 0.42
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:666013 original size:13 final size:13
Alignment explanation
Indices: 665995--666021 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
665985 TACAATGAAC
665995 ATGTATCGATACA
1 ATGTATCGATACA
666008 ATGTATCGATACA
1 ATGTATCGATACA
666021 A
1 A
666022 AGCATAATAT
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:668673 original size:20 final size:21
Alignment explanation
Indices: 668643--668681 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
668633 TCTGGGTTTT
668643 TTCAGATGTATCGATACATCA
1 TTCAGATGTATCGATACATCA
668664 TTCA-ATGTATCGATACAT
1 TTCAGATGTATCGATACAT
668682 TCTGGAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (21 bp):
TTCAGATGTATCGATACATCA
Found at i:682075 original size:156 final size:164
Alignment explanation
Indices: 681890--682284 Score: 449
Period size: 156 Copynumber: 2.4 Consensus size: 164
681880 TTTAAGAGGA
** * * * *
681890 TTTTCTTTGGTTTA-AATTTTCTA-ACATTCATCAAATATTGTTACTTAA-TCATCATTTAATTA
1 TTTTC-TTGGTTTATAATTTT-TACA-ATTCATCAAATATCATCATTTAATTCATCATTAAATCA
* *
681952 GTTTTAAAAAAATTTCC-TTTATTTCACGAATTTTATA-TTTTTTCTTGAAATTATCCTATTTTC
63 GTTTTAAAAAAA-TTCCTTTTATTTCACGAATTTTATATTTTTTTCTTAAAATTATACTATTTTC
* *
682015 GAAATACGAAATTTTTTACTCT-T-CA-G-AG-G-GAT
127 GAAATACGAAATTTTCTACTCTGTAAATGTAGTGTGAT
*
682047 TTTTCTTGGTTTATAATTTTTACAATTCATCAAATATCATCATTTAATTCA-CATTAAATCAATT
1 TTTTCTTGGTTTATAATTTTTACAATTCATCAAATATCATCATTTAATTCATCATTAAATCAGTT
* * * * *
682111 TT-GAAAAATTCCTTTTATTTCATGAATTTTTTATTTTTTTCTTAAAATTTTACTATTTTTGAAA
66 TTAAAAAAATTCCTTTTATTTCACGAATTTTATATTTTTTTCTTAAAATTATACTATTTTCGAAA
* * *
682175 TACGGAGTTTTCTACTCTGTAAATGTTTTCGGTGTGAT
131 TACGAAATTTTCTACTCTGTAAATG---T-AGTGTGAT
682213 TTTTCTTGGTTTATAATTTTTACAATTCATCAAATATCATCATTTAATTCAT-ATTAAATCAGTT
1 TTTTCTTGGTTTATAATTTTTACAATTCATCAAATATCATCATTTAATTCATCATTAAATCAGTT
682277 TTAAAAAA
66 TTAAAAAA
682285 TTCATTTATT
Statistics
Matches: 200, Mismatches: 21, Indels: 24
0.82 0.09 0.10
Matches are distributed among these distances:
154 4 0.02
155 23 0.12
156 82 0.41
157 16 0.08
158 1 0.00
159 1 0.00
164 1 0.00
165 1 0.00
166 67 0.34
167 4 0.02
ACGTcount: A:0.31, C:0.12, G:0.07, T:0.50
Consensus pattern (164 bp):
TTTTCTTGGTTTATAATTTTTACAATTCATCAAATATCATCATTTAATTCATCATTAAATCAGTT
TTAAAAAAATTCCTTTTATTTCACGAATTTTATATTTTTTTCTTAAAATTATACTATTTTCGAAA
TACGAAATTTTCTACTCTGTAAATGTAGTGTGAT
Found at i:682238 original size:166 final size:163
Alignment explanation
Indices: 682044--682461 Score: 486
Period size: 166 Copynumber: 2.5 Consensus size: 163
682034 TCTTCAGAGG
*
682044 GATTTTTCTTGGTTTATAATTTTTACAATTCATCAAATATCATCATTTAATTCACATTAAATCAA
1 GATTTTTCTTGGTTTATAATTTTTACAATTCATCAAATATCATCATTTAATTCATATTAAATCAA
* ** * *
682109 TTTTGAAAAATTCCTTT-TATTTCATGAATTTTTTATTTTTTTCTTAAAATTTTACTAT-TTTTG
66 TTTTGAAAAATTCATTTAT-TTTCATGAATTTTCCATTTTTTCCTTAAAA-TCT-CT-TGTTTTG
* * * *
682172 AAATACGGAGTTTTCTAC-TCTGTAAATGTTTTCGGTGT
127 AAAAACGGAGTTTTCTACTTC-ATAAATATTTTCGG-GA
*
682210 GATTTTTCTTGGTTTATAATTTTTACAATTCATCAAATATCATCATTTAATTCATATTAAATCAG
1 GATTTTTCTTGGTTTATAATTTTTACAATTCATCAAATATCATCATTTAATTCATATTAAATCAA
* * * *
682275 TTTTAAAAAATTCATTTATTTTCTTGAGTTTTCCATTTTTTCCTTGAAATCTCTTGTTTTGAAAA
66 TTTTGAAAAATTCATTTATTTTCATGAATTTTCCATTTTTTCCTTAAAATCTCTTGTTTTGAAAA
*
682340 ACTGAGTTTTCTACTTCATAAATATTTTCGGGA
131 ACGGAGTTTTCTACTTCATAAATATTTTCGGGA
* * * * * *
682373 GAATTTTTTTTGATTTGA-AATTTTTGA-AATTCATCAAATATTATTATTAAATTTATATTAAAT
1 G-ATTTTTCTTGGTTT-ATAATTTTT-ACAATTCATCAAATATCATCATTTAATTCATATTAAAT
* * *
682436 CAATTTTGTTAAATTTAATTTATTTT
63 CAATTTTG-AAAAATTCATTTATTTT
682462 AGGATTTTTT
Statistics
Matches: 218, Mismatches: 27, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
163 3 0.01
164 92 0.42
165 20 0.09
166 102 0.47
167 1 0.00
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.51
Consensus pattern (163 bp):
GATTTTTCTTGGTTTATAATTTTTACAATTCATCAAATATCATCATTTAATTCATATTAAATCAA
TTTTGAAAAATTCATTTATTTTCATGAATTTTCCATTTTTTCCTTAAAATCTCTTGTTTTGAAAA
ACGGAGTTTTCTACTTCATAAATATTTTCGGGA
Found at i:683892 original size:20 final size:20
Alignment explanation
Indices: 683867--683932 Score: 87
Period size: 20 Copynumber: 3.3 Consensus size: 20
683857 ATTGGGCTCA
683867 ATGTATCGATACATTTCACC
1 ATGTATCGATACATTTCACC
* * **
683887 ATGTATCGATACAATCCTTC
1 ATGTATCGATACATTTCACC
*
683907 ATGTTTCGATACATTTCACC
1 ATGTATCGATACATTTCACC
683927 ATGTAT
1 ATGTAT
683933 TGAGCTGTTG
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTTCACC
Found at i:687793 original size:58 final size:58
Alignment explanation
Indices: 687703--687819 Score: 207
Period size: 58 Copynumber: 2.0 Consensus size: 58
687693 TGGAAATGGG
*
687703 CATAAACATAATATCCAGTTTACTAGCAGTAAGATATAACAACGAACCTTTCATAGAC
1 CATAAACATAATATCCAGTTTACTAGCAGTAAGATATAACAACGAACCTATCATAGAC
* *
687761 CATAAACATAATATCTAGTTTACTAGTAGTAAGATATAACAACGAACCTATCATAGAC
1 CATAAACATAATATCCAGTTTACTAGCAGTAAGATATAACAACGAACCTATCATAGAC
687819 C
1 C
687820 TATAGAGTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.44, C:0.20, G:0.10, T:0.26
Consensus pattern (58 bp):
CATAAACATAATATCCAGTTTACTAGCAGTAAGATATAACAACGAACCTATCATAGAC
Found at i:691314 original size:3 final size:3
Alignment explanation
Indices: 691306--691342 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
691296 CGAGTCAACT
691306 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
691343 TATCTTTAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:693832 original size:19 final size:19
Alignment explanation
Indices: 693808--693872 Score: 79
Period size: 19 Copynumber: 3.7 Consensus size: 19
693798 ATTTCAATGA
693808 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
693827 TTTGTAACGATAC--AA--
1 TTTGTATCGATACATAAGT
693842 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
693859 TTTGTATCGATACA
1 TTTGTATCGATACA
693873 ATGTATCACC
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
13 10 0.26
15 2 0.05
17 2 0.05
19 24 0.63
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:693846 original size:32 final size:32
Alignment explanation
Indices: 693810--693879 Score: 131
Period size: 32 Copynumber: 2.2 Consensus size: 32
693800 TTCAATGATT
693810 TGTATCGATACATAAGTTTTGTAACGATACAA
1 TGTATCGATACATAAGTTTTGTAACGATACAA
*
693842 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTTTTGTAACGATACAA
693874 TGTATC
1 TGTATC
693880 ACCACGAAGC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTTTTGTAACGATACAA
Found at i:693943 original size:13 final size:13
Alignment explanation
Indices: 693925--693949 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
693915 ATTACTCAAA
693925 TGTATCGATACAT
1 TGTATCGATACAT
693938 TGTATCGATACA
1 TGTATCGATACA
693950 CTAATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:694002 original size:52 final size:53
Alignment explanation
Indices: 693938--694086 Score: 214
Period size: 52 Copynumber: 2.9 Consensus size: 53
693928 ATCGATACAT
*** * *
693938 TGTATCGATACACTAAT-CTTTGTATCGATACATGCAGTCAAATTTGCCCAGA
1 TGTATCGATACACTAATGAAATGTATCGATACATACAGGCAAATTTGCCCAGA
693990 TGTATCGATACACT-ATGAAATGTATCGATACATACAGGCAAATTTGCCCAGA
1 TGTATCGATACACTAATGAAATGTATCGATACATACAGGCAAATTTGCCCAGA
* *
694042 TGTATCGATACACT-ATGAAATGTATCGATACATGCTGGCAAATTT
1 TGTATCGATACACTAATGAAATGTATCGATACATACAGGCAAATTT
694087 TCATATTTCG
Statistics
Matches: 89, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
51 2 0.02
52 87 0.98
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.31
Consensus pattern (53 bp):
TGTATCGATACACTAATGAAATGTATCGATACATACAGGCAAATTTGCCCAGA
Found at i:707936 original size:29 final size:28
Alignment explanation
Indices: 707903--708005 Score: 98
Period size: 30 Copynumber: 3.4 Consensus size: 28
707893 CGTCCTCCAC
*
707903 AAAAAAAAACAAACAAACAAAAAAAAGAA
1 AAAAAAAAACAAAAAAACAAAAAAAA-AA
*
707932 GAAAAAAAAACAAAAAAAAAACAAACAAACAA
1 -AAAAAAAAACAAAAAAACAA-AAA-AAA-AA
* *
707964 AAAAAAAAGAAAAAAAAACAAACAAACAAA
1 AAAAAAAA-ACAAAAAAACAAA-AAAAAAA
*
707994 CAAAAAAAACAA
1 AAAAAAAAACAA
708006 TAACAAAAAG
Statistics
Matches: 61, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
29 3 0.05
30 27 0.44
31 14 0.23
32 17 0.28
ACGTcount: A:0.85, C:0.12, G:0.03, T:0.00
Consensus pattern (28 bp):
AAAAAAAAACAAAAAAACAAAAAAAAAA
Found at i:707938 original size:11 final size:11
Alignment explanation
Indices: 707901--708014 Score: 67
Period size: 11 Copynumber: 10.6 Consensus size: 11
707891 AGCGTCCTCC
707901 ACAAAAAAA-A
1 ACAAAAAAAGA
* *
707911 ACAAACAAA-C
1 ACAAAAAAAGA
707921 A-AAAAAAAGA
1 ACAAAAAAAGA
*
707931 AGAAAAAAA-A
1 ACAAAAAAAGA
*
707941 ACAAAAAAAAA
1 ACAAAAAAAGA
* *
707952 ACAAACAAACA
1 ACAAAAAAAGA
*
707963 AAAAAAAAAGA
1 ACAAAAAAAGA
*
707974 A-AAAAAAACAA
1 ACAAAAAAA-GA
* *
707985 ACAAACAAACA
1 ACAAAAAAAGA
* *
707996 AAAAAAACAATA
1 ACAAAAA-AAGA
708008 ACAAAAA
1 ACAAAAA
708015 GGGTCCGGAT
Statistics
Matches: 81, Mismatches: 17, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
9 6 0.07
10 26 0.32
11 34 0.42
12 15 0.19
ACGTcount: A:0.84, C:0.12, G:0.03, T:0.01
Consensus pattern (11 bp):
ACAAAAAAAGA
Found at i:707954 original size:33 final size:32
Alignment explanation
Indices: 707903--708002 Score: 132
Period size: 33 Copynumber: 3.1 Consensus size: 32
707893 CGTCCTCCAC
*
707903 AAAAAAAAACAAACAAACAAA-AAA-AAGAAGAA
1 AAAAAAAAAAAAACAAACAAACAAACAA-AA-AA
*
707935 AAAAAAACAAAAAAAAAACAAACAAACAAAAAA
1 AAAAAAA-AAAAAACAAACAAACAAACAAAAAA
707968 AAAAGAAAAAAAAACAAACAAACAAACAAAAAA
1 AAAA-AAAAAAAAACAAACAAACAAACAAAAAA
708001 AA
1 AA
708003 CAATAACAAA
Statistics
Matches: 61, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
32 7 0.11
33 44 0.72
34 8 0.13
35 2 0.03
ACGTcount: A:0.86, C:0.11, G:0.03, T:0.00
Consensus pattern (32 bp):
AAAAAAAAAAAAACAAACAAACAAACAAAAAA
Found at i:707960 original size:41 final size:40
Alignment explanation
Indices: 707903--708015 Score: 163
Period size: 41 Copynumber: 2.7 Consensus size: 40
707893 CGTCCTCCAC
707903 AAAAAAAAACAAACAAACAAAAAAAAGAAGAAAAAAAAACA
1 AAAAAAAAACAAACAAACAAAAAAAA-AAGAAAAAAAAACA
707944 AAAAAAAAACAAACAAACAAAAAAAAAAGAAAAAAAAACA
1 AAAAAAAAACAAACAAACAAAAAAAAAAGAAAAAAAAACA
* * *
707984 AACAAACAAACAAAAAAAACAATAACAAAAAG
1 AA-AAAAAAAC-AAACAAACAA-AAAAAAAAG
708016 GGTCCGGATG
Statistics
Matches: 66, Mismatches: 3, Indels: 4
0.90 0.04 0.05
Matches are distributed among these distances:
40 16 0.24
41 33 0.50
42 9 0.14
43 8 0.12
ACGTcount: A:0.84, C:0.12, G:0.04, T:0.01
Consensus pattern (40 bp):
AAAAAAAAACAAACAAACAAAAAAAAAAGAAAAAAAAACA
Found at i:708014 original size:1 final size:1
Alignment explanation
Indices: 707903--708002 Score: 74
Period size: 1 Copynumber: 100.0 Consensus size: 1
707893 CGTCCTCCAC
* * * * * * * * *
707903 AAAAAAAAACAAACAAACAAAAAAAAGAAGAAAAAAAAACAAAAAAAAAACAAACAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * *
707968 AAAAGAAAAAAAAACAAACAAACAAACAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
708003 CAATAACAAA
Statistics
Matches: 71, Mismatches: 28, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 71 1.00
ACGTcount: A:0.86, C:0.11, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:709506 original size:30 final size:30
Alignment explanation
Indices: 709435--709631 Score: 193
Period size: 30 Copynumber: 6.9 Consensus size: 30
709425 AGACATTCCT
*
709435 CACCC-TTTTCAAAAGCCCACAAGTCAGTGG
1 CACCCTTTTTC-AAAGCCCACAAATCAGTGG
* * *
709465 CAACC---TTCAAAGCCCAC-AAGCTAATGG
1 CACCCTTTTTCAAAGCCCACAAATC-AGTGG
*
709492 CACCCTTTTTCAAAGCCCACAAATTAGTGG
1 CACCCTTTTTCAAAGCCCACAAATCAGTGG
*
709522 CAACC--TTT-AAAGCCCACAAATCAGTGG
1 CACCCTTTTTCAAAGCCCACAAATCAGTGG
*
709549 CACCCTTTTCCAAAGCCCACAAATCAGTGG
1 CACCCTTTTTCAAAGCCCACAAATCAGTGG
* * *
709579 TAACC---TTCAAAAGCCCACAAGTCAGTGG
1 CACCCTTTTTC-AAAGCCCACAAATCAGTGG
709607 CACCCTTTTTCAAAG-CCACAAATCA
1 CACCCTTTTTCAAAGCCCACAAATCA
709632 TTAGCAACCT
Statistics
Matches: 136, Mismatches: 19, Indels: 25
0.76 0.11 0.14
Matches are distributed among these distances:
26 2 0.01
27 41 0.30
28 27 0.20
29 11 0.08
30 50 0.37
31 5 0.04
ACGTcount: A:0.34, C:0.32, G:0.14, T:0.20
Consensus pattern (30 bp):
CACCCTTTTTCAAAGCCCACAAATCAGTGG
Found at i:709523 original size:57 final size:58
Alignment explanation
Indices: 709435--709673 Score: 319
Period size: 57 Copynumber: 4.2 Consensus size: 58
709425 AGACATTCCT
* *
709435 CACCC-TTTTCAAAAGCCCACAAGTCAGTGGCAACCTTC-AAAGCCCACAAG-CTAATGG
1 CACCCTTTTTC-AAAGCCCACAAATCAGTGGCAACCTTCAAAAGCCCACAAGTC-AGTGG
* * *
709492 CACCCTTTTTCAAAGCCCACAAATTAGTGGCAACCTT-TAAAGCCCACAAATCAGTGG
1 CACCCTTTTTCAAAGCCCACAAATCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGG
* *
709549 CACCCTTTTCCAAAGCCCACAAATCAGTGGTAACCTTCAAAAGCCCACAAGTCAGTGG
1 CACCCTTTTTCAAAGCCCACAAATCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGG
* * *
709607 CACCCTTTTTCAAAG-CCACAAATCATTAGCAACCTTCAAAAGCCCACAAGTCTGTGG
1 CACCCTTTTTCAAAGCCCACAAATCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGG
*
709664 CA-TCTTTTTC
1 CACCCTTTTTC
709674 CTTTTAAGCC
Statistics
Matches: 163, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
56 7 0.04
57 118 0.72
58 38 0.23
ACGTcount: A:0.32, C:0.32, G:0.14, T:0.22
Consensus pattern (58 bp):
CACCCTTTTTCAAAGCCCACAAATCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGG
Found at i:709639 original size:114 final size:115
Alignment explanation
Indices: 709435--709674 Score: 333
Period size: 115 Copynumber: 2.1 Consensus size: 115
709425 AGACATTCCT
* *
709435 CACCCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAGCTAATGGCACCCTTT
1 CACCCTTTTCCAAAGCCCACAAATCAGTGGCAACCTTCAAAGCCCACAAGCTAATGGCACCCTTT
* * *
709500 TTCAAAGCCCACAAATTAGTGGCAACCTT-TAAAGCCCACAAATCAGTGG
66 TTCAAAGCCCACAAATCAGTAGCAACCTTCAAAAGCCCACAAATCAGTGG
* *
709549 CACCCTTTTCCAAAGCCCACAAATCAGTGGTAACCTTCAAAAGCCCACAAG-TCAGTGGCACCCT
1 CACCCTTTTCCAAAGCCCACAAATCAGTGGCAACCTTC-AAAGCCCACAAGCT-AATGGCACCCT
* * *
709613 TTTTCAAAG-CCACAAATCATTAGCAACCTTCAAAAGCCCACAAGTCTGTGG
64 TTTTCAAAGCCCACAAATCAGTAGCAACCTTCAAAAGCCCACAAATCAGTGG
* *
709664 CATCTTTTTCC
1 CACCCTTTTCC
709675 TTTTAAGCCT
Statistics
Matches: 111, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
114 54 0.49
115 57 0.51
ACGTcount: A:0.32, C:0.32, G:0.14, T:0.22
Consensus pattern (115 bp):
CACCCTTTTCCAAAGCCCACAAATCAGTGGCAACCTTCAAAGCCCACAAGCTAATGGCACCCTTT
TTCAAAGCCCACAAATCAGTAGCAACCTTCAAAAGCCCACAAATCAGTGG
Found at i:709694 original size:33 final size:32
Alignment explanation
Indices: 709650--709735 Score: 102
Period size: 32 Copynumber: 2.7 Consensus size: 32
709640 CTTCAAAAGC
* *
709650 CCACAAGTCTGTGGCATCTTTTTCCTTTTAAG
1 CCACAACTCTGTGGCACCTTTTTCCTTTTAAG
* *
709682 CCTACAACTCTGTGGCGCC-TTTTCTTTTTAAG
1 CC-ACAACTCTGTGGCACCTTTTTCCTTTTAAG
*
709714 TCCACAACTCCGTGGCACCTTT
1 -CCACAACTCTGTGGCACCTTT
709736 AAGCCTAATA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
32 28 0.62
33 17 0.38
ACGTcount: A:0.17, C:0.30, G:0.15, T:0.37
Consensus pattern (32 bp):
CCACAACTCTGTGGCACCTTTTTCCTTTTAAG
Found at i:709821 original size:34 final size:34
Alignment explanation
Indices: 709783--709847 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
709773 ACCTTTTCTT
* *
709783 TTTTAAG-TCCACAACTCCGTGGCACTCTTTTTCC
1 TTTTAAGCT-CACAACTCAGTGGCACCCTTTTTCC
*
709817 TTTTAAGCTCACAAGTCAGTGGCACCCTTTT
1 TTTTAAGCTCACAACTCAGTGGCACCCTTTT
709848 CAAAAGCCCA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
34 26 0.96
35 1 0.04
ACGTcount: A:0.20, C:0.29, G:0.14, T:0.37
Consensus pattern (34 bp):
TTTTAAGCTCACAACTCAGTGGCACCCTTTTTCC
Found at i:709969 original size:49 final size:49
Alignment explanation
Indices: 709907--710255 Score: 482
Period size: 49 Copynumber: 7.0 Consensus size: 49
709897 ATCTTCTTCA
* *
709907 AAGTCCAATATCGCTGGCCTTGAATTAGCATATTGGCACCTTCATCTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT
* * * * *
709956 AAGACTAGTATCGCTGGCCTTGAATCAGCACATGGGCATCTTCATCTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT
*
710005 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT
*
710054 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT
* *
710103 AAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT
* * * **
710152 AAGTCCAATATCACAGGCCTTGAATCAGCATATTGGTGCCTTTGTCATCTTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCATC-TTT
* * * *
710205 AAGTCCAATGTCACTAGCCTTGAATCAGCACATTAGCACCTTCATCTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT
710254 AA
1 AA
710256 CATTCCTAAG
Statistics
Matches: 264, Mismatches: 32, Indels: 8
0.87 0.11 0.03
Matches are distributed among these distances:
49 216 0.82
50 5 0.02
51 2 0.01
52 5 0.02
53 36 0.14
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (49 bp):
AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT
Found at i:711144 original size:19 final size:18
Alignment explanation
Indices: 711120--711182 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
711110 ATCGATACCA
711120 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
711139 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
711152 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
711171 TGTATCGATACA
1 TGTATCGATACA
711183 ATGTATCGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 23 0.61
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:711147 original size:32 final size:32
Alignment explanation
Indices: 711106--711190 Score: 152
Period size: 32 Copynumber: 2.7 Consensus size: 32
711096 TTTCAACGAT
*
711106 TTGTATCGATACCATGTATCGATACATAAGTG
1 TTGTATCGATACAATGTATCGATACATAAGTG
*
711138 TTGTATCGATACAATGTATCGATACATAAGTT
1 TTGTATCGATACAATGTATCGATACATAAGTG
711170 TTGTATCGATACAATGTATCG
1 TTGTATCGATACAATGTATCG
711191 CTACGAAGCT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 51 1.00
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (32 bp):
TTGTATCGATACAATGTATCGATACATAAGTG
Found at i:711157 original size:13 final size:13
Alignment explanation
Indices: 711139--711163 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
711129 ACATAAGTGT
711139 TGTATCGATACAA
1 TGTATCGATACAA
711152 TGTATCGATACA
1 TGTATCGATACA
711164 TAAGTTTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:711253 original size:13 final size:13
Alignment explanation
Indices: 711235--711275 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
711225 ATTACTCAAA
*
711235 TGTATCGATACAT
1 TGTATCGATACAC
711248 TGTATCGATACAC
1 TGTATCGATACAC
*
711261 TGTATCGATGCAC
1 TGTATCGATACAC
711274 TG
1 TG
711276 ATCTTTGTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:711405 original size:52 final size:52
Alignment explanation
Indices: 711281--711409 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
711271 CACTGATCTT
* * *
711281 TGTATCGATACATCCAAGCAAATTTGCCCAGATGTATTGATACACTATGAAA
1 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
711333 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
* *
711385 TGTATCGATACATGCTGGCAAATTT
1 TGTATCGATACATACAGGCAAATTT
711410 TCATATTTCG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:725240 original size:4 final size:4
Alignment explanation
Indices: 725225--725319 Score: 78
Period size: 4 Copynumber: 25.2 Consensus size: 4
725215 AGCGTCCTCC
* * * *
725225 ACAA A-AA A-AA ACAA ACAA ACAA AAAA AGAA GAAAA AAAA ACAA A-AA
1 ACAA ACAA ACAA ACAA ACAA ACAA ACAA ACAA -ACAA ACAA ACAA ACAA
* *
725271 A-AA ACAA ACAA ACAA A-AA AAAA AGAA A-AA A-AA ACAA ACAA ACAA
1 ACAA ACAA ACAA ACAA ACAA ACAA ACAA ACAA ACAA ACAA ACAA ACAA
725315 ACAA A
1 ACAA A
725320 AAAAACAATA
Statistics
Matches: 81, Mismatches: 5, Indels: 10
0.84 0.05 0.10
Matches are distributed among these distances:
3 21 0.26
4 57 0.70
5 3 0.04
ACGTcount: A:0.84, C:0.13, G:0.03, T:0.00
Consensus pattern (4 bp):
ACAA
Found at i:725259 original size:29 final size:28
Alignment explanation
Indices: 725230--725323 Score: 81
Period size: 26 Copynumber: 3.5 Consensus size: 28
725220 CCTCCACAAA
* * *
725230 AAAAAACAAACAAACAAAAAAAGAAGAAA
1 AAAAAACAAAAAAACAAACAAACAA-AAA
*
725259 AAAAAAC-AAAAAA-AAACAAACAAACA
1 AAAAAACAAAAAAACAAACAAACAAAAA
* *
725285 AAAAAA-AAAGAAA-AAA-AAACAAACA
1 AAAAAACAAAAAAACAAACAAACAAAAA
*
725310 AACAAACAAAAAAA
1 AAAAAACAAAAAAA
725324 ACAATAACAA
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
25 14 0.25
26 22 0.39
27 8 0.14
28 5 0.09
29 7 0.12
ACGTcount: A:0.85, C:0.12, G:0.03, T:0.00
Consensus pattern (28 bp):
AAAAAACAAAAAAACAAACAAACAAAAA
Found at i:725261 original size:10 final size:10
Alignment explanation
Indices: 725225--725324 Score: 107
Period size: 10 Copynumber: 10.0 Consensus size: 10
725215 AGCGTCCTCC
725225 ACAAAAAAAA
1 ACAAAAAAAA
*
725235 AC--AAACAA
1 ACAAAAAAAA
725243 ACAAAAAAAGA
1 ACAAAAAAA-A
*
725254 AGAAAAAAAA
1 ACAAAAAAAA
725264 ACAAAAAAAA
1 ACAAAAAAAA
* *
725274 ACAAACAAAC
1 ACAAAAAAAA
725284 A-AAAAAAAA
1 ACAAAAAAAA
*
725293 AGAAAAAAAA
1 ACAAAAAAAA
725303 ACAAACAAACAA
1 ACAAA-AAA-AA
725315 ACAAAAAAAA
1 ACAAAAAAAA
725325 CAATAACAAA
Statistics
Matches: 75, Mismatches: 9, Indels: 12
0.78 0.09 0.12
Matches are distributed among these distances:
8 7 0.09
9 7 0.09
10 39 0.52
11 15 0.20
12 7 0.09
ACGTcount: A:0.85, C:0.12, G:0.03, T:0.00
Consensus pattern (10 bp):
ACAAAAAAAA
Found at i:725279 original size:39 final size:39
Alignment explanation
Indices: 725225--725337 Score: 163
Period size: 39 Copynumber: 2.8 Consensus size: 39
725215 AGCGTCCTCC
*
725225 ACAAAAAAAAACAAACAAACAAAAAAAGAAGAAAAAAAA
1 ACAAAAAAAAACAAACAAACAAAAAAAAAAGAAAAAAAA
725264 ACAAAAAAAAACAAACAAACAAAAAAAAAAGAAAAAAAA
1 ACAAAAAAAAACAAACAAACAAAAAAAAAAGAAAAAAAA
* *
725303 ACAAACAAACAAACAAAAAAAACAATAACAAAAAG
1 ACAAA-AAA-AAAC-AAACAAACAA-AAAAAAAAG
725338 GGTCCGGATG
Statistics
Matches: 67, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
39 43 0.64
40 3 0.04
41 4 0.06
42 9 0.13
43 8 0.12
ACGTcount: A:0.83, C:0.12, G:0.04, T:0.01
Consensus pattern (39 bp):
ACAAAAAAAAACAAACAAACAAAAAAAAAAGAAAAAAAA
Found at i:725336 original size:1 final size:1
Alignment explanation
Indices: 725227--725324 Score: 70
Period size: 1 Copynumber: 98.0 Consensus size: 1
725217 CGTCCTCCAC
* * * * * * * * *
725227 AAAAAAAAACAAACAAACAAAAAAAGAAGAAAAAAAAACAAAAAAAAACAAACAAACAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * *
725292 AAGAAAAAAAAACAAACAAACAAACAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
725325 CAATAACAAA
Statistics
Matches: 69, Mismatches: 28, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 69 1.00
ACGTcount: A:0.86, C:0.11, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:726828 original size:30 final size:30
Alignment explanation
Indices: 726757--726953 Score: 193
Period size: 30 Copynumber: 6.9 Consensus size: 30
726747 AGACATTCCT
*
726757 CACCC-TTTTCAAAAGCCCACAAGTCAGTGG
1 CACCCTTTTTC-AAAGCCCACAAATCAGTGG
* * *
726787 CAACC---TTCAAAGCCCAC-AAGCTAATGG
1 CACCCTTTTTCAAAGCCCACAAATC-AGTGG
*
726814 CACCCTTTTTCAAAGCCCACAAATTAGTGG
1 CACCCTTTTTCAAAGCCCACAAATCAGTGG
*
726844 CAACC--TTT-AAAGCCCACAAATCAGTGG
1 CACCCTTTTTCAAAGCCCACAAATCAGTGG
*
726871 CACCCTTTTCCAAAGCCCACAAATCAGTGG
1 CACCCTTTTTCAAAGCCCACAAATCAGTGG
* * *
726901 TAACC---TTCAAAAGCCCACAAGTCAGTGG
1 CACCCTTTTTC-AAAGCCCACAAATCAGTGG
726929 CACCCTTTTTCAAAG-CCACAAATCA
1 CACCCTTTTTCAAAGCCCACAAATCA
726954 TTAGCAACCT
Statistics
Matches: 136, Mismatches: 19, Indels: 25
0.76 0.11 0.14
Matches are distributed among these distances:
26 2 0.01
27 41 0.30
28 27 0.20
29 11 0.08
30 50 0.37
31 5 0.04
ACGTcount: A:0.34, C:0.32, G:0.14, T:0.20
Consensus pattern (30 bp):
CACCCTTTTTCAAAGCCCACAAATCAGTGG
Found at i:726845 original size:57 final size:58
Alignment explanation
Indices: 726757--726995 Score: 319
Period size: 57 Copynumber: 4.2 Consensus size: 58
726747 AGACATTCCT
* *
726757 CACCC-TTTTCAAAAGCCCACAAGTCAGTGGCAACCTTC-AAAGCCCACAAG-CTAATGG
1 CACCCTTTTTC-AAAGCCCACAAATCAGTGGCAACCTTCAAAAGCCCACAAGTC-AGTGG
* * *
726814 CACCCTTTTTCAAAGCCCACAAATTAGTGGCAACCTT-TAAAGCCCACAAATCAGTGG
1 CACCCTTTTTCAAAGCCCACAAATCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGG
* *
726871 CACCCTTTTCCAAAGCCCACAAATCAGTGGTAACCTTCAAAAGCCCACAAGTCAGTGG
1 CACCCTTTTTCAAAGCCCACAAATCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGG
* * *
726929 CACCCTTTTTCAAAG-CCACAAATCATTAGCAACCTTCAAAAGCCCACAAGTCTGTGG
1 CACCCTTTTTCAAAGCCCACAAATCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGG
*
726986 CA-TCTTTTTC
1 CACCCTTTTTC
726996 CTTTTAAGCC
Statistics
Matches: 163, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
56 7 0.04
57 118 0.72
58 38 0.23
ACGTcount: A:0.32, C:0.32, G:0.14, T:0.22
Consensus pattern (58 bp):
CACCCTTTTTCAAAGCCCACAAATCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGG
Found at i:726961 original size:114 final size:115
Alignment explanation
Indices: 726757--726996 Score: 333
Period size: 115 Copynumber: 2.1 Consensus size: 115
726747 AGACATTCCT
* *
726757 CACCCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAGCTAATGGCACCCTTT
1 CACCCTTTTCCAAAGCCCACAAATCAGTGGCAACCTTCAAAGCCCACAAGCTAATGGCACCCTTT
* * *
726822 TTCAAAGCCCACAAATTAGTGGCAACCTT-TAAAGCCCACAAATCAGTGG
66 TTCAAAGCCCACAAATCAGTAGCAACCTTCAAAAGCCCACAAATCAGTGG
* *
726871 CACCCTTTTCCAAAGCCCACAAATCAGTGGTAACCTTCAAAAGCCCACAAG-TCAGTGGCACCCT
1 CACCCTTTTCCAAAGCCCACAAATCAGTGGCAACCTTC-AAAGCCCACAAGCT-AATGGCACCCT
* * *
726935 TTTTCAAAG-CCACAAATCATTAGCAACCTTCAAAAGCCCACAAGTCTGTGG
64 TTTTCAAAGCCCACAAATCAGTAGCAACCTTCAAAAGCCCACAAATCAGTGG
* *
726986 CATCTTTTTCC
1 CACCCTTTTCC
726997 TTTTAAGCCT
Statistics
Matches: 111, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
114 54 0.49
115 57 0.51
ACGTcount: A:0.32, C:0.32, G:0.14, T:0.22
Consensus pattern (115 bp):
CACCCTTTTCCAAAGCCCACAAATCAGTGGCAACCTTCAAAGCCCACAAGCTAATGGCACCCTTT
TTCAAAGCCCACAAATCAGTAGCAACCTTCAAAAGCCCACAAATCAGTGG
Found at i:727016 original size:33 final size:32
Alignment explanation
Indices: 726972--727057 Score: 102
Period size: 32 Copynumber: 2.7 Consensus size: 32
726962 CTTCAAAAGC
* *
726972 CCACAAGTCTGTGGCATCTTTTTCCTTTTAAG
1 CCACAACTCTGTGGCACCTTTTTCCTTTTAAG
* *
727004 CCTACAACTCTGTGGCGCC-TTTTCTTTTTAAG
1 CC-ACAACTCTGTGGCACCTTTTTCCTTTTAAG
*
727036 TCCACAACTCCGTGGCACCTTT
1 -CCACAACTCTGTGGCACCTTT
727058 AAGCCTAATA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
32 28 0.62
33 17 0.38
ACGTcount: A:0.17, C:0.30, G:0.15, T:0.37
Consensus pattern (32 bp):
CCACAACTCTGTGGCACCTTTTTCCTTTTAAG
Found at i:727143 original size:34 final size:34
Alignment explanation
Indices: 727105--727169 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
727095 ACCTTTTCTT
* *
727105 TTTTAAG-TCCACAACTCTGTGGCACTCTTTTTCC
1 TTTTAAGCT-CACAACTCAGTGGCACCCTTTTTCC
*
727139 TTTTAAGCTCACAAGTCAGTGGCACCCTTTT
1 TTTTAAGCTCACAACTCAGTGGCACCCTTTT
727170 CAAAAGCCCA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
34 26 0.96
35 1 0.04
ACGTcount: A:0.20, C:0.28, G:0.14, T:0.38
Consensus pattern (34 bp):
TTTTAAGCTCACAACTCAGTGGCACCCTTTTTCC
Found at i:727291 original size:49 final size:49
Alignment explanation
Indices: 727229--727577 Score: 482
Period size: 49 Copynumber: 7.0 Consensus size: 49
727219 ATCTTCTTCA
* *
727229 AAGTCCAATATCGCTGGCCTTGAATTAGCATATTGGCACCTTCATCTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT
* * * * *
727278 AAGACTAGTATCGCTGGCCTTGAATCAGCACATGGGCATCTTCATCTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT
*
727327 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT
*
727376 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT
* *
727425 AAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT
* * * **
727474 AAGTCCAATATCACAGGCCTTGAATCAGCATATTGGTGCCTTTGTCATCTTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCATC-TTT
* * * *
727527 AAGTCCAATGTCACTAGCCTTGAATCAGCACATTAGCACCTTCATCTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT
727576 AA
1 AA
727578 CATTCCTAAG
Statistics
Matches: 264, Mismatches: 32, Indels: 8
0.87 0.11 0.03
Matches are distributed among these distances:
49 216 0.82
50 5 0.02
51 2 0.01
52 5 0.02
53 36 0.14
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (49 bp):
AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT
Found at i:728466 original size:19 final size:18
Alignment explanation
Indices: 728442--728504 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
728432 ATCGATACCA
728442 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
728461 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
728474 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
728493 TGTATCGATACA
1 TGTATCGATACA
728505 ATGTATCGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 23 0.61
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:728469 original size:32 final size:32
Alignment explanation
Indices: 728428--728512 Score: 152
Period size: 32 Copynumber: 2.7 Consensus size: 32
728418 TTTCAACGAT
*
728428 TTGTATCGATACCATGTATCGATACATAAGTG
1 TTGTATCGATACAATGTATCGATACATAAGTG
*
728460 TTGTATCGATACAATGTATCGATACATAAGTT
1 TTGTATCGATACAATGTATCGATACATAAGTG
728492 TTGTATCGATACAATGTATCG
1 TTGTATCGATACAATGTATCG
728513 CTACGAAGCT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 51 1.00
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (32 bp):
TTGTATCGATACAATGTATCGATACATAAGTG
Found at i:728479 original size:13 final size:13
Alignment explanation
Indices: 728461--728485 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
728451 ACATAAGTGT
728461 TGTATCGATACAA
1 TGTATCGATACAA
728474 TGTATCGATACA
1 TGTATCGATACA
728486 TAAGTTTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:728575 original size:13 final size:13
Alignment explanation
Indices: 728557--728597 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
728547 ATTACTCAAA
*
728557 TGTATCGATACAT
1 TGTATCGATACAC
728570 TGTATCGATACAC
1 TGTATCGATACAC
*
728583 TGTATCGATGCAC
1 TGTATCGATACAC
728596 TG
1 TG
728598 ATCTTTGTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:728727 original size:52 final size:52
Alignment explanation
Indices: 728603--728731 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
728593 CACTGATCTT
* * *
728603 TGTATCGATACATCCAAGCAAATTTGCCCAGATGTATTGATACACTATGAAA
1 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
728655 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
* *
728707 TGTATCGATACATGCTGGCAAATTT
1 TGTATCGATACATACAGGCAAATTT
728732 TCATATTTCG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:731913 original size:19 final size:19
Alignment explanation
Indices: 731865--731920 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
731855 CTGCCACTTT
* *
731865 CATGTATTGATACAATTGAG
1 CATGTATCGATACAA-TGAA
* *
731885 TATATATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
731904 CATGTATCGATATAATG
1 CATGTATCGATACAATG
731921 TATTGATACA
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:739651 original size:21 final size:20
Alignment explanation
Indices: 739618--739656 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
739608 CACATTTTTG
739618 TCTAAATGCATCGATACATT
1 TCTAAATGCATCGATACATT
*
739638 TCTAGAATGTATCGATACA
1 TCTA-AATGCATCGATACA
739657 AGGTCCCAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (20 bp):
TCTAAATGCATCGATACATT
Found at i:753839 original size:16 final size:16
Alignment explanation
Indices: 753815--753871 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 16
753805 CATCATCTGC
*
753815 CAAAAAAAAGAGAAAAGA
1 CAAAAAAAACA-AAAA-A
753833 CAAAAAAAACAAAAAA
1 CAAAAAAAACAAAAAA
753849 CAAAAAGAAA-AAAACAA
1 CAAAAA-AAACAAAA-AA
753866 CAAAAA
1 CAAAAA
753872 GGGTCCGAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
16 11 0.31
17 15 0.42
18 10 0.28
ACGTcount: A:0.82, C:0.11, G:0.07, T:0.00
Consensus pattern (16 bp):
CAAAAAAAACAAAAAA
Found at i:753854 original size:24 final size:25
Alignment explanation
Indices: 753818--753871 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 25
753808 CATCTGCCAA
*
753818 AAAAAAGAGAAAAGACAAAAAA-AAC
1 AAAAAACAGAAAAGA-AAAAAACAAC
753843 AAAAAACA-AAAAGAAAAAAACAAC
1 AAAAAACAGAAAAGAAAAAAACAAC
753867 AAAAA
1 AAAAA
753872 GGGTCCGAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 6 0.22
24 14 0.52
25 7 0.26
ACGTcount: A:0.83, C:0.09, G:0.07, T:0.00
Consensus pattern (25 bp):
AAAAAACAGAAAAGAAAAAAACAAC
Found at i:753867 original size:17 final size:17
Alignment explanation
Indices: 753827--753872 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
753817 AAAAAAAGAG
*
753827 AAAAGACAAAAA-AAAC
1 AAAAAACAAAAAGAAAC
753843 AAAAAACAAAAAGAAA-
1 AAAAAACAAAAAGAAAC
753859 AAAACAACAAAAAG
1 AAAA-AACAAAAAG
753873 GGTCCGAATG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 15 0.56
17 12 0.44
ACGTcount: A:0.83, C:0.11, G:0.07, T:0.00
Consensus pattern (17 bp):
AAAAAACAAAAAGAAAC
Found at i:754979 original size:37 final size:37
Alignment explanation
Indices: 754895--754979 Score: 143
Period size: 37 Copynumber: 2.3 Consensus size: 37
754885 TGCCACAATC
*
754895 ATGCATTTGTAACATTCATAACATTTCATTTTACATG
1 ATGCATTTGTGACATTCATAACATTTCATTTTACATG
* *
754932 ATGCATTTGTGACATTCATAGCATTTCATTTTGCATG
1 ATGCATTTGTGACATTCATAACATTTCATTTTACATG
754969 ATGCATTTGTG
1 ATGCATTTGTG
754980 CTTCATCTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.27, C:0.15, G:0.14, T:0.44
Consensus pattern (37 bp):
ATGCATTTGTGACATTCATAACATTTCATTTTACATG
Found at i:755516 original size:49 final size:49
Alignment explanation
Indices: 755405--755946 Score: 495
Period size: 52 Copynumber: 10.9 Consensus size: 49
755395 CATCTTTTTC
* * *
755405 TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGG------CATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
755448 TAAGTCCAATGTCGCTGGCCTTGAATCTGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
755497 TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACTTTTGTCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC--CT-TCATCTT
* * * ** *
755549 TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGTGCCTTTGTCACCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCATCTT
* *
755601 TAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTAGCACCTTCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * * *
755650 TAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGACGCCTTTGTCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCATCTT
* * *
755702 TAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTAGCACCTTCACCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
755751 TAAGTCCAATGTTGCTGGCCTTCAATCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
755800 TAAGTCTAATGTCACTGACCTTGAATCAGCACATTGGCATTCTTCTTATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CCTTC--ATCTT
* * ** * * * *
755852 CAAGTCTAATGTTACTGACCGTGAATCAGCACATTGACATTCTTTACATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA--CCTT-CATCTT
* * * * * *
755904 TAAGCCCAATATCACTGG-TTCTGAATTAGCATATTGGCACCTT
1 TAAGTCCAATGTCGCTGGCCT-TGAATCAGCACATTGGCACCTT
755947 TATCACTCTT
Statistics
Matches: 414, Mismatches: 65, Indels: 33
0.81 0.13 0.06
Matches are distributed among these distances:
43 33 0.08
49 166 0.40
50 9 0.02
51 2 0.00
52 200 0.48
53 3 0.01
54 1 0.00
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.35
Consensus pattern (49 bp):
TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:755647 original size:101 final size:98
Alignment explanation
Indices: 755442--755834 Score: 480
Period size: 101 Copynumber: 3.9 Consensus size: 98
755432 AGCATATTGG
* *
755442 CATCTTTAAGTCCAATGTCGCTGGCCTTGAATCTGCACATTGGCACCTTCATCTTTAAGTCCAAT
1 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAAT
* * * * *
755507 ATCGTTGGCCTTGAATCAGCATATTGGCACTTTTGT
66 GTCGCTGGCCTTGAATCAGCACATTAGCAC--CT-T
* * ** *
755543 CATCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGTGCCTTTGTCACCTTTAAGTCC
1 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCATCTTTAAGTCC
*
755608 AATGTTGCTGGCCTTGAATCAGCACATTAGCACCTT
63 AATGTCGCTGGCCTTGAATCAGCACATTAGCACCTT
* * * *
755644 CATCTTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGACGCCTTTGTCATCTTTAAGTCC
1 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCATCTTTAAGTCC
*
755709 AATGTCGTTGGCCTTGAATCAGCACATTAGCACCTT
63 AATGTCGCTGGCCTTGAATCAGCACATTAGCACCTT
* * * * *
755745 CACCTTTAAGTCCAATGTTGCTGGCCTTCAATCAGCACATTGGCACCTTCATCTTTAAGTCTAAT
1 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAAT
* *
755810 GTCACTGACCTTGAATCAGCACATT
66 GTCGCTGGCCTTGAATCAGCACATT
755835 GGCATTCTTC
Statistics
Matches: 257, Mismatches: 32, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
98 38 0.15
99 1 0.00
101 175 0.68
102 1 0.00
103 1 0.00
104 41 0.16
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.34
Consensus pattern (98 bp):
CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAAT
GTCGCTGGCCTTGAATCAGCACATTAGCACCTT
Found at i:755723 original size:153 final size:150
Alignment explanation
Indices: 755405--755835 Score: 613
Period size: 153 Copynumber: 2.9 Consensus size: 150
755395 CATCTTTTTC
* * *
755405 TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCA---T---CTTTAAGTCCAATGTCGCT
1 TAAGTCCAATATCGTTGGCCTTGAATCAGCACATTAGCACCTTCACCTTTAAGTCCAATGTTGCT
* * *
755464 GGCCTTGAATCTGCACATTGGCACCTTCATCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCAT
66 GGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCTAATATCGCTGGCCTTGAATCAGCAT
* *
755529 ATTGGCACTTTTGTCATCTT
131 ATTGACACCTTTGTCATCTT
* * **
755549 TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGTGCCTTTGTCACCTTTAAGTCCAATGTT
1 TAAGTCCAATATCGTTGGCCTTGAATCAGCACATTAGCACC--T-TCACCTTTAAGTCCAATGTT
*
755614 GCTGGCCTTGAATCAGCACATTAGCACCTTCATCTTTAAGTCTAATATCGCTGGCCTTGAATCAG
63 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCTAATATCGCTGGCCTTGAATCAG
*
755679 CATATTGACGCCTTTGTCATCTT
128 CATATTGACACCTTTGTCATCTT
*
755702 TAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTAGCACCTTCACCTTTAAGTCCAATGTTGCT
1 TAAGTCCAATATCGTTGGCCTTGAATCAGCACATTAGCACCTTCACCTTTAAGTCCAATGTTGCT
* * * * *
755767 GGCCTTCAATCAGCACATTGGCACCTTCATCTTTAAGTCTAATGTCACTGACCTTGAATCAGCAC
66 GGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCTAATATCGCTGGCCTTGAATCAGCAT
755832 ATTG
131 ATTG
755836 GCATTCTTCT
Statistics
Matches: 257, Mismatches: 21, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
144 37 0.14
150 87 0.34
151 1 0.00
153 132 0.51
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (150 bp):
TAAGTCCAATATCGTTGGCCTTGAATCAGCACATTAGCACCTTCACCTTTAAGTCCAATGTTGCT
GGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCTAATATCGCTGGCCTTGAATCAGCAT
ATTGACACCTTTGTCATCTT
Found at i:757488 original size:20 final size:20
Alignment explanation
Indices: 757443--757488 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
757433 GTTAACAGCC
*
757443 CATGATTCATGCATTTTAAG
1 CATGTTTCATGCATTTTAAG
757463 CTATGTTTCATGCA-TTTACAG
1 C-ATGTTTCATGCATTTTA-AG
757484 CATGT
1 CATGT
757489 CCGGCACCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.41
Consensus pattern (20 bp):
CATGTTTCATGCATTTTAAG
Found at i:761012 original size:19 final size:19
Alignment explanation
Indices: 760967--761022 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
760957 CTGCCACTTT
*
760967 CATGTATCGATACAATTGAG
1 CATGTATCGATACAA-TGAA
*
760987 TATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
761006 CATGTATCTATACAATG
1 CATGTATCGATACAATG
761023 TATCGATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:761593 original size:13 final size:13
Alignment explanation
Indices: 761575--761604 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
761565 ACAATCTTTC
761575 ATGTATCGATACA
1 ATGTATCGATACA
761588 ATGTATCGATACA
1 ATGTATCGATACA
761601 ATGT
1 ATGT
761605 GAGTTTTAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:761698 original size:20 final size:19
Alignment explanation
Indices: 761647--761699 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
761637 TATATTTTAG
*
761647 TATGTATCGATACAATGAA
1 TATGTATCGATACAAAGAA
* * *
761666 CATATATCTATACAAAGCAA
1 TATGTATCGATACAAAG-AA
761686 TATGTATCGATACA
1 TATGTATCGATACA
761700 TCTAGGTGTG
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
19 13 0.50
20 13 0.50
ACGTcount: A:0.43, C:0.15, G:0.11, T:0.30
Consensus pattern (19 bp):
TATGTATCGATACAAAGAA
Found at i:763537 original size:159 final size:159
Alignment explanation
Indices: 763253--763549 Score: 395
Period size: 159 Copynumber: 1.9 Consensus size: 159
763243 AAGGTTACCA
* * * * *
763253 AGATATTTTCATGTCGCAAGTATGACCACAGGGGTATTTTTGTAATTTTATAAAATCGAGTCTTA
1 AGATACTTCCATGTCGAAAGTATGACCACAGGGGCATTTTTGAAATTTTATAAAATCGAGTCTTA
* * *
763318 GGTTATCACCAGATCCATTTTTATGCCGAAGATGGGTATTTAGAATAGGTCCATCTCATCTATAA
66 GGTTATCACCAGATCCACTTTTATGCCGAAGATGAGTATTTAGAATAGGTCCATCCCATCTATAA
763383 T-ATTTTTTCTTGTCCTTTAGGGTTATCG
131 TCATTTTTTCTTGTCCTTTAGGGTTATCG
*
763411 AGATACTTCCATGTCGAAAGTAT-ACCTATAGGGGCATTTTTGAAATTTT-TCCAAAA-CTGAGT
1 AGATACTTCCATGTCGAAAGTATGACC-ACAGGGGCATTTTTGAAATTTTAT--AAAATC-GAGT
* * * * * *
763473 CTTAGGTTGTCACCAGGTCCACTTTTATGTCGAAGGTGAGTATTTAGGATAGGTTCATCCCATCT
62 CTTAGGTTATCACCAGATCCACTTTTATGCCGAAGATGAGTATTTAGAATAGGTCCATCCCATCT
763538 ATAATCATTTTT
127 ATAATCATTTTT
763550 AAGTCCTTTA
Statistics
Matches: 119, Mismatches: 15, Indels: 8
0.84 0.11 0.06
Matches are distributed among these distances:
157 4 0.03
158 40 0.34
159 69 0.58
160 6 0.05
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (159 bp):
AGATACTTCCATGTCGAAAGTATGACCACAGGGGCATTTTTGAAATTTTATAAAATCGAGTCTTA
GGTTATCACCAGATCCACTTTTATGCCGAAGATGAGTATTTAGAATAGGTCCATCCCATCTATAA
TCATTTTTTCTTGTCCTTTAGGGTTATCG
Found at i:765593 original size:19 final size:19
Alignment explanation
Indices: 765568--765619 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
765558 TTTTTGCCTA
765568 CATGTATCGATACATGAAAT
1 CATGTATCGATACAT-AAAT
**
765588 -ATGTATCGATACATATTT
1 CATGTATCGATACATAAAT
765606 CATGTATCGATACA
1 CATGTATCGATACA
765620 AGGTCCAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 2 0.07
19 27 0.93
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (19 bp):
CATGTATCGATACATAAAT
Found at i:765794 original size:49 final size:49
Alignment explanation
Indices: 765717--765833 Score: 173
Period size: 49 Copynumber: 2.4 Consensus size: 49
765707 ATTGTGGTTT
** *
765717 ATTGTATCGATAC-TAGACCATTTTGAGGAAAATTTTGCATTGTGGAAAA
1 ATTGTATCGATACATA-AGTATTTCGAGGAAAATTTTGCATTGTGGAAAA
* *
765766 ATTGTATCTATACATAAGTATTTCGAGGAAAATTTTGCATTGTTGAAAA
1 ATTGTATCGATACATAAGTATTTCGAGGAAAATTTTGCATTGTGGAAAA
765815 ATTGTATCGATACATAAGT
1 ATTGTATCGATACATAAGT
765834 GATGTATTGA
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
49 59 0.97
50 2 0.03
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.37
Consensus pattern (49 bp):
ATTGTATCGATACATAAGTATTTCGAGGAAAATTTTGCATTGTGGAAAA
Found at i:772141 original size:20 final size:20
Alignment explanation
Indices: 772093--772142 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
772083 CCCTTTTAAT
* *
772093 CTTCTCTTTTTCTCTCTTTT
1 CTTCTCTTTTTCTCTCATTG
*
772113 CTTCCCTTTTTCTCT-ATTG
1 CTTCTCTTTTTCTCTCATTG
772132 CTTACTCTTTT
1 CTT-CTCTTTT
772143 ATCAATCACC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.04, C:0.30, G:0.02, T:0.64
Consensus pattern (20 bp):
CTTCTCTTTTTCTCTCATTG
Found at i:772663 original size:15 final size:14
Alignment explanation
Indices: 772618--772668 Score: 50
Period size: 15 Copynumber: 3.6 Consensus size: 14
772608 TTTAAATTAT
*
772618 TTTATATATAAATA
1 TTTATATATAAAAA
* *
772632 TTAATATATTAATAA
1 TTTATATA-TAAAAA
772647 TTTATATTATAAAAA
1 TTTATA-TATAAAAA
772662 TTT-TATA
1 TTTATATA
772669 ACATGAATTC
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
13 2 0.07
14 9 0.30
15 17 0.57
16 2 0.07
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
TTTATATATAAAAA
Found at i:783057 original size:28 final size:31
Alignment explanation
Indices: 783025--783085 Score: 83
Period size: 28 Copynumber: 2.1 Consensus size: 31
783015 GTTAAGAAAG
783025 TATTTTAATCTTT-TACTATT-AAATTA-AA
1 TATTTTAATCTTTGTACTATTGAAATTATAA
* *
783053 TATTTTAATTTTTGTACTTTTGAAATTATAA
1 TATTTTAATCTTTGTACTATTGAAATTATAA
783084 TA
1 TA
783086 AATAAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 12 0.43
29 6 0.21
30 6 0.21
31 4 0.14
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (31 bp):
TATTTTAATCTTTGTACTATTGAAATTATAA
Found at i:783494 original size:18 final size:17
Alignment explanation
Indices: 783471--783504 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
783461 ACACACACAC
783471 ACATATATATATATATAG
1 ACATATATAT-TATATAG
783489 ACATATATATTATATA
1 ACATATATATTATATA
783505 TTTTTTCATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (17 bp):
ACATATATATTATATAG
Found at i:784520 original size:19 final size:18
Alignment explanation
Indices: 784461--784590 Score: 92
Period size: 19 Copynumber: 7.8 Consensus size: 18
784451 ATTTCAACGA
784461 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
*
784480 TATTGCATCGAT--ATAA-
1 T-TTGTATCGATACATAAG
784496 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
784512 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
784528 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
*
784544 TTTTATATCGATAC--AA-
1 -TTTGTATCGATACATAAG
784560 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
784576 TTTTGTATCGATACA
1 -TTTGTATCGATACA
784591 ATGTAAGCTA
Statistics
Matches: 88, Mismatches: 4, Indels: 38
0.68 0.03 0.29
Matches are distributed among these distances:
13 29 0.33
15 8 0.09
17 6 0.07
18 2 0.02
19 34 0.39
20 9 0.10
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:784530 original size:32 final size:32
Alignment explanation
Indices: 784463--784595 Score: 212
Period size: 32 Copynumber: 4.1 Consensus size: 32
784453 TTCAACGATT
* * *
784463 TGTATCGATACATAAAGTATTGCATCGATATAA
1 TGTATCGATACAT-AAGTTTTGTATCGATACAA
*
784496 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTTTTGTATCGATACAA
*
784528 TGTATCGATACATAAGTTTTATATCGATACAA
1 TGTATCGATACATAAGTTTTGTATCGATACAA
784560 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTTTTGTATCGATACAA
784592 TGTA
1 TGTA
784596 AGCTACTGCC
Statistics
Matches: 94, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
32 81 0.86
33 13 0.14
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTTTTGTATCGATACAA
Found at i:784538 original size:13 final size:13
Alignment explanation
Indices: 784515--784571 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
784505 ACATAAGTGT
784515 TGTATCGATACAA
1 TGTATCGATACAA
784528 TGTATCGATACATAA
1 TGTATCGATAC--AA
*
784543 GTTTTATATCGATACAA
1 ----TGTATCGATACAA
784560 TGTATCGATACA
1 TGTATCGATACA
784572 TAAGTTTTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 22 0.61
15 2 0.06
17 2 0.06
19 10 0.28
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:784696 original size:52 final size:52
Alignment explanation
Indices: 784628--784780 Score: 182
Period size: 52 Copynumber: 2.9 Consensus size: 52
784618 CGATACATTA
* *** * *
784628 CCCAAATGTATCGATACACTGAT-CTTTGTATCGATATATGCAGGCAAATCTG
1 CCCAGATGTATCGATACACT-ATAAAATGTATCGATACATACAGGCAAATCTG
*
784680 CCCAGATGTATCGATACACTATAAAATGTATCGATACATACAGGCAAATTTG
1 CCCAGATGTATCGATACACTATAAAATGTATCGATACATACAGGCAAATCTG
* * * * *
784732 CCTAGATGTATCGATACACAATGAAATGTATCGATACATGCAGACAAAT
1 CCCAGATGTATCGATACACTATAAAATGTATCGATACATACAGGCAAAT
784781 TTTCACATTT
Statistics
Matches: 88, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
51 2 0.02
52 86 0.98
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (52 bp):
CCCAGATGTATCGATACACTATAAAATGTATCGATACATACAGGCAAATCTG
Found at i:784781 original size:52 final size:52
Alignment explanation
Indices: 784654--784782 Score: 195
Period size: 52 Copynumber: 2.5 Consensus size: 52
784644 CACTGATCTT
* * *
784654 TGTATCGATATATGCAGGCAAATCTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACAATAAAA
* * *
784706 TGTATCGATACATACAGGCAAATTTGCCTAGATGTATCGATACACAATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACAATAAAA
*
784758 TGTATCGATACATGCAGACAAATTT
1 TGTATCGATACATGCAGGCAAATTT
784783 TCACATTTCG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACAATAAAA
Found at i:792973 original size:19 final size:19
Alignment explanation
Indices: 792949--792985 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
792939 ATCTGGCCTA
*
792949 AATGTATCGATACATCTAC
1 AATGTATCAATACATCTAC
*
792968 AATGTATTAATACATCTA
1 AATGTATCAATACATCTA
792986 GGCATTTTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.16, G:0.08, T:0.35
Consensus pattern (19 bp):
AATGTATCAATACATCTAC
Found at i:795346 original size:19 final size:20
Alignment explanation
Indices: 795322--795381 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 20
795312 TTTGAATTTC
795322 AACAAT-TTGTATCGATACA
1 AACAATATTGTATCGATACA
*
795341 AACAATAAATGTATCGATACA
1 AACAAT-ATTGTATCGATACA
* * *
795362 TA-AGTGTTGTATCGATACA
1 AACAATATTGTATCGATACA
795381 A
1 A
795382 TGTATCACTA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
19 18 0.55
20 2 0.06
21 13 0.39
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.30
Consensus pattern (20 bp):
AACAATATTGTATCGATACA
Found at i:805122 original size:20 final size:20
Alignment explanation
Indices: 805097--805134 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
805087 CTACCAAGGA
805097 AATGTATCGATACATTATTC
1 AATGTATCGATACATTATTC
*
805117 AATGTATTGATACATTAT
1 AATGTATCGATACATTAT
805135 ATCGATACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.42
Consensus pattern (20 bp):
AATGTATCGATACATTATTC
Found at i:805156 original size:33 final size:33
Alignment explanation
Indices: 805101--805164 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
805091 CAAGGAAATG
*
805101 TATCGATACATTATTCAATGTATTGATACATTA
1 TATCGATACATTATTCAATGTATCGATACATTA
**
805134 TATCGATACATTGA-TCTTTGTATCGATACAT
1 TATCGATACATT-ATTCAATGTATCGATACAT
805165 CTGGGAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 26 0.96
34 1 0.04
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (33 bp):
TATCGATACATTATTCAATGTATCGATACATTA
Found at i:808902 original size:20 final size:20
Alignment explanation
Indices: 808857--808913 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
808847 CAACCCTGTG
*
808857 ATTGTATCGATACATGTTTAA
1 ATTGTATCGATACAT-TATAA
* *
808878 ATTGTATTGATACATTATGA
1 ATTGTATCGATACATTATAA
808898 ATTGTATCGATACATT
1 ATTGTATCGATACATT
808914 TGGCCCAATG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 18 0.56
21 14 0.44
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.44
Consensus pattern (20 bp):
ATTGTATCGATACATTATAA
Found at i:814629 original size:19 final size:19
Alignment explanation
Indices: 814583--814637 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
814573 GGTTTTCTAG
**
814583 ATTGTATCGATACAATGCAA
1 ATTGTATCGATAC-ATTAAA
*
814603 ATTATATCGATACATTAAA
1 ATTGTATCGATACATTAAA
*
814622 ATTGTATCAATACATT
1 ATTGTATCGATACATT
814638 TCGACAATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 18 0.60
20 12 0.40
ACGTcount: A:0.42, C:0.13, G:0.09, T:0.36
Consensus pattern (19 bp):
ATTGTATCGATACATTAAA
Found at i:816534 original size:62 final size:64
Alignment explanation
Indices: 816447--816576 Score: 201
Period size: 62 Copynumber: 2.1 Consensus size: 64
816437 AAATTGTTAT
* * *
816447 AATTTGGCATATAACACAAAGGGGGAGAAATAAAGAAGTGTTATAAAGGGAGAAATT-GG-AGA
1 AATTTGGCATATAAAACAAAAGGGGAGAAATAAAGAAGTGTTATAAAGGGAAAAATTGGGAAGA
* *
816509 AATTTGGCTTATAAAACAAAAGGGGAGAAATAGAGAAGTGTTATAAAGGGAAAAATTGGGAAGA
1 AATTTGGCATATAAAACAAAAGGGGAGAAATAAAGAAGTGTTATAAAGGGAAAAATTGGGAAGA
816573 AATT
1 AATT
816577 GGAGAAATTG
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
62 52 0.85
63 2 0.03
64 7 0.11
ACGTcount: A:0.48, C:0.04, G:0.28, T:0.21
Consensus pattern (64 bp):
AATTTGGCATATAAAACAAAAGGGGAGAAATAAAGAAGTGTTATAAAGGGAAAAATTGGGAAGA
Found at i:820538 original size:62 final size:64
Alignment explanation
Indices: 820448--820578 Score: 203
Period size: 62 Copynumber: 2.1 Consensus size: 64
820438 TGTTATGTAT
* *** *
820448 AAATTTGGCTTATAACACAAAGGGGGAGAAATAGAGAAGTGTTATAAAGGGAGAAATT-GG-AG
1 AAATTTGGCTTATAAAACAAAAAAGGAGAAATAGAGAAGTGTTATAAAGGGAAAAATTGGGAAG
820510 AAATTTGGCTTATAAAACAAAAAAGGAGAAATAGAGAAGTGTTATAAAGGGAAAAATTGGGAAG
1 AAATTTGGCTTATAAAACAAAAAAGGAGAAATAGAGAAGTGTTATAAAGGGAAAAATTGGGAAG
820574 AAATT
1 AAATT
820579 GGAGAAATTG
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
62 53 0.85
63 2 0.03
64 7 0.11
ACGTcount: A:0.48, C:0.04, G:0.27, T:0.21
Consensus pattern (64 bp):
AAATTTGGCTTATAAAACAAAAAAGGAGAAATAGAGAAGTGTTATAAAGGGAAAAATTGGGAAG
Found at i:826198 original size:165 final size:165
Alignment explanation
Indices: 825916--826234 Score: 575
Period size: 165 Copynumber: 1.9 Consensus size: 165
825906 TCAGAAAAAC
*
825916 ATTCGTGTCATGATTATCAAGGGCATCAATGACCCAAAATTACATCATTTTTCTAGTCATCAGAC
1 ATTCGTGTCATGACTATCAAGGGCATCAATGACCCAAAATTACATCATTTTTCTAGTCATCAGAC
* * *
825981 TGTTTTGTTTGAAATAAATCAAACCATATCATCTTTATTATCAAATAAGCCTTTGTCAAAAATGA
66 CGTTTTGTTTGAAATAAATCAAACCATATCATCTTTATTATCAAACAAGCCTTCGTCAAAAATGA
*
826046 GCCAAACTGTCTTACCTTTTTCTCATCAAAAGAAT
131 GCCAAACTATCTTACCTTTTTCTCATCAAAAGAAT
*
826081 ATTCGTGTCATGACTATCAAGGGCATTAATGACCCAAAATTACATCATTTTTCTAGTCATCAGAC
1 ATTCGTGTCATGACTATCAAGGGCATCAATGACCCAAAATTACATCATTTTTCTAGTCATCAGAC
*
826146 CGTTTTGTTTGAAATAAATCAAACCATATCATCTTTATTGTCAAACAAGCCTTCGTCAAAAATGA
66 CGTTTTGTTTGAAATAAATCAAACCATATCATCTTTATTATCAAACAAGCCTTCGTCAAAAATGA
826211 GCCAAACTATCTTACCTTTTTCTC
131 GCCAAACTATCTTACCTTTTTCTC
826235 TCTCCACACC
Statistics
Matches: 147, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
165 147 1.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.35
Consensus pattern (165 bp):
ATTCGTGTCATGACTATCAAGGGCATCAATGACCCAAAATTACATCATTTTTCTAGTCATCAGAC
CGTTTTGTTTGAAATAAATCAAACCATATCATCTTTATTATCAAACAAGCCTTCGTCAAAAATGA
GCCAAACTATCTTACCTTTTTCTCATCAAAAGAAT
Found at i:827084 original size:61 final size:61
Alignment explanation
Indices: 826938--827110 Score: 204
Period size: 61 Copynumber: 2.8 Consensus size: 61
826928 TTCTTCAAAT
* *
826938 TCCACAACTCCATGGCCTCTTTTTTCTTTTTAAGTCCACAACTTCGTGGTACCCATTTTAAG
1 TCCACAACTCCATGGCC-CATTTTTCTTTTTAAGTCCACAACTTTGTGGTACCCATTTTAAG
*** * *
827000 TCCAC-ACTCCATAGAATCATTTTTCTTTTTAAGTCCACAACTTTGTGGTATCCTTTTTAAG
1 TCCACAACTCCAT-GGCCCATTTTTCTTTTTAAGTCCACAACTTTGTGGTACCCATTTTAAG
* * * *
827061 TCCACAACTCCGTGGCCCCTTTTTTTCTTTTTAAGTCCACAGCTCTGTGG
1 TCCACAACTCCATGG-CCC-ATTTTTCTTTTTAAGTCCACAACTTTGTGG
827111 CACTTTTTTC
Statistics
Matches: 93, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
61 53 0.57
62 13 0.14
63 27 0.29
ACGTcount: A:0.20, C:0.28, G:0.12, T:0.40
Consensus pattern (61 bp):
TCCACAACTCCATGGCCCATTTTTCTTTTTAAGTCCACAACTTTGTGGTACCCATTTTAAG
Found at i:827085 original size:28 final size:28
Alignment explanation
Indices: 827024--827084 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
827014 AATCATTTTT
** *
827024 CTTTTTAAGTCCACAACTTTGTGGTATC
1 CTTTTTAAGTCCACAACTCCGTGGTACC
*
827052 CTTTTTAAGTCCACAACTCCGTGG-CCC
1 CTTTTTAAGTCCACAACTCCGTGGTACC
827079 CTTTTT
1 CTTTTT
827085 TTCTTTTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 7 0.24
28 22 0.76
ACGTcount: A:0.18, C:0.28, G:0.13, T:0.41
Consensus pattern (28 bp):
CTTTTTAAGTCCACAACTCCGTGGTACC
Found at i:827098 original size:35 final size:35
Alignment explanation
Indices: 827052--827155 Score: 124
Period size: 35 Copynumber: 3.0 Consensus size: 35
827042 TTGTGGTATC
*
827052 CTTTTTAAGTCCACAACTCCGTGGCCCCTTTTTTT
1 CTTTTTAAGTCCACAACTCAGTGGCCCCTTTTTTT
* * *
827087 CTTTTTAAGTCCACAGCTCTGTGG-CAC-TTTTTT
1 CTTTTTAAGTCCACAACTCAGTGGCCCCTTTTTTT
*
827120 CTTTTTAAGT-CATAACTCAGTGGCATCCCTTTTTTT
1 CTTTTTAAGTCCACAACTCAGTGGC--CCCTTTTTTT
827156 GAAGTCCATG
Statistics
Matches: 58, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
32 10 0.17
33 16 0.28
34 2 0.03
35 24 0.41
36 6 0.10
ACGTcount: A:0.16, C:0.26, G:0.12, T:0.45
Consensus pattern (35 bp):
CTTTTTAAGTCCACAACTCAGTGGCCCCTTTTTTT
Found at i:827174 original size:32 final size:30
Alignment explanation
Indices: 827121--827182 Score: 88
Period size: 32 Copynumber: 2.0 Consensus size: 30
827111 CACTTTTTTC
827121 TTTTTAAGTCATAACTCAGTGGCATCCCTT
1 TTTTTAAGTCATAACTCAGTGGCATCCCTT
* *
827151 TTTTTGAAGTCCATGACTTAGTGGCATCCCTT
1 TTTTT-AAGT-CATAACTCAGTGGCATCCCTT
827183 CTAAAGTCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 5 0.18
31 4 0.14
32 19 0.68
ACGTcount: A:0.21, C:0.23, G:0.16, T:0.40
Consensus pattern (30 bp):
TTTTTAAGTCATAACTCAGTGGCATCCCTT
Found at i:827203 original size:29 final size:30
Alignment explanation
Indices: 827157--827214 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
827147 CCTTTTTTTG
**
827157 AAGTCCATGACTTAGTGGCA-TCCCTTCTA
1 AAGTCCACAACTTAGTGGCACTCCCTTCTA
* *
827186 AAGTCCACAACTTCGTGGCACTCCTTTCT
1 AAGTCCACAACTTAGTGGCACTCCCTTCT
827215 TTTTTCTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 17 0.71
30 7 0.29
ACGTcount: A:0.22, C:0.31, G:0.16, T:0.31
Consensus pattern (30 bp):
AAGTCCACAACTTAGTGGCACTCCCTTCTA
Found at i:827375 original size:78 final size:78
Alignment explanation
Indices: 827285--827431 Score: 185
Period size: 78 Copynumber: 1.9 Consensus size: 78
827275 CACCTTTTCC
* *
827285 TTTTTCTCTTGTCCT-TAAGAAGCA-GAACCCATTTCA-TTCTCTTTTAT-CCTTTGTCCTCAAA
1 TTTTTCTCTTGTCCTCAAAG-AGCATG-ACCCACTTCATTTC-CTTTT-TGCCTTTGTCCTCAAA
827346 GAGTAGGACATACTCCT
62 GAGTAGGACATACTCCT
* **
827363 TTTTTCTTTTGTCCTCAAAGAGCATGATGCACTTCATTTCCTTTTTGCCTTTGTCCTCAAAGAGT
1 TTTTTCTCTTGTCCTCAAAGAGCATGACCCACTTCATTTCCTTTTTGCCTTTGTCCTCAAAGAGT
827428 AGGA
66 AGGA
827432 TGTCTTTTCC
Statistics
Matches: 60, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
77 1 0.02
78 52 0.87
79 7 0.12
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.41
Consensus pattern (78 bp):
TTTTTCTCTTGTCCTCAAAGAGCATGACCCACTTCATTTCCTTTTTGCCTTTGTCCTCAAAGAGT
AGGACATACTCCT
Found at i:827475 original size:31 final size:31
Alignment explanation
Indices: 827440--827498 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 31
827430 GATGTCTTTT
* * *
827440 CCCTTTTATAGCCCATACAAGTTGGTGGTAA
1 CCCTTCTAAAGCCCACACAAGTTGGTGGTAA
* *
827471 CCCTTCTAAAGTCTACACAAGTTGGTGG
1 CCCTTCTAAAGCCCACACAAGTTGGTGG
827499 CACCTTTTAG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 23 1.00
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (31 bp):
CCCTTCTAAAGCCCACACAAGTTGGTGGTAA
Found at i:827592 original size:31 final size:31
Alignment explanation
Indices: 827554--827931 Score: 165
Period size: 31 Copynumber: 11.9 Consensus size: 31
827544 TTTAAGCCCA
* *
827554 CACGAGTTGATGGTACCCTAGTCAAAGCTTG
1 CACGAGTTGATGGCACCCTAGTCAAAGCCTG
* **
827585 CACGAGTTCG-TGGCACCCTATTCAAAGTTTG
1 CACGAGTT-GATGGCACCCTAGTCAAAGCCTG
* * *
827616 CAGGAGTTGGTGGCA-CCTGAGTCAAAGCCTA
1 CACGAGTTGATGGCACCCT-AGTCAAAGCCTG
* *
827647 CACAAGTT-AGTGGCACCCTAGTCAAAACCTG
1 CACGAGTTGA-TGGCACCCTAGTCAAAGCCTG
* * * ** *
827678 CATGAGTTGGTGGCA-CTTGAGTTTAAGCCCG
1 CACGAGTTGATGGCACCCT-AGTCAAAGCCTG
* * *
827709 CACTAGTTGGTGGCACCTAAATCACCCTATTCAAAGGCC-G
1 CACGAGTTGATGG---------CACCCTAGTCAAA-GCCTG
* ** * * * *
827749 CACAAGTTGGCGGTACCCGAGTCTAAGACC-A
1 CACGAGTTGATGGCACCCTAGTCAAAG-CCTG
* * **
827780 CATGAGTTGGTGGCACCCTAGTCAAAGCCCA
1 CACGAGTTGATGGCACCCTAGTCAAAGCCTG
* * * **
827811 TACAAGTTGGTGGCACCCTAGTCAAAGCCCA
1 CACGAGTTGATGGCACCCTAGTCAAAGCCTG
* *
827842 CACAAGTTGGTGGCACCCTAGTCAAAGCCTG
1 CACGAGTTGATGGCACCCTAGTCAAAGCCTG
* * * **
827873 CACAAGTTGGTGGCACCCAAGTCAAAGCCCA
1 CACGAGTTGATGGCACCCTAGTCAAAGCCTG
* * * *
827904 CACAAGTTGGTGGCACCTTAGTGAAAGC
1 CACGAGTTGATGGCACCCTAGTCAAAGC
827932 TCGCACAAGT
Statistics
Matches: 275, Mismatches: 52, Indels: 40
0.75 0.14 0.11
Matches are distributed among these distances:
30 9 0.03
31 239 0.87
32 4 0.01
40 18 0.07
41 5 0.02
ACGTcount: A:0.27, C:0.27, G:0.25, T:0.21
Consensus pattern (31 bp):
CACGAGTTGATGGCACCCTAGTCAAAGCCTG
Found at i:827639 original size:62 final size:62
Alignment explanation
Indices: 827573--827925 Score: 194
Period size: 62 Copynumber: 5.5 Consensus size: 62
827563 ATGGTACCCT
* * * * * ***
827573 AGTCAAAGCTTGCACGAGTTCGTGGCACCCTATTCAAAGTTTGCAGGAGTTGGTGGCACCTG
1 AGTCAAAGCCTACACAAGTTAGTGGCACCCTAGTCAAAACCTGCAGGAGTTGGTGGCACCTG
* *
827635 AGTCAAAGCCTACACAAGTTAGTGGCACCCTAGTCAAAACCTGCATGAGTTGGTGGCACTTG
1 AGTCAAAGCCTACACAAGTTAGTGGCACCCTAGTCAAAACCTGCAGGAGTTGGTGGCACCTG
** ** * * * * ** *
827697 AGTTTAAGCCCGCACTAGTTGGTGGCACCTAAATCACCCTATTCAAAGGCC-GCACAAGTTGGCG
1 AGTCAAAGCCTACACAAGTTAGTGG---------CACCCTAGTCAAA-ACCTGCAGGAGTTGGTG
* *
827761 GTACCCG
56 GCACCTG
* ** * * *
827768 AGTCTAAGACC-ACATGAGTTGGTGGCACCCTAGTCAAAGCCCATACA--AGTTGGTGGCACCCT
1 AGTCAAAG-CCTACACAAGTTAGTGGCACCCTAGTCAAA-ACC-TGCAGGAGTTGGTGGCA-CCT
827830 -
62 G
* * * ** **
827830 AGTCAAAGCCCACACAAGTTGGTGGCACCCTAGTCAAAGCCTGCACAAGTTGGTGGCACCCA
1 AGTCAAAGCCTACACAAGTTAGTGGCACCCTAGTCAAAACCTGCAGGAGTTGGTGGCACCTG
* * *
827892 AGTCAAAGCCCACACAAGTTGGTGGCACCTTAGT
1 AGTCAAAGCCTACACAAGTTAGTGGCACCCTAGT
827926 GAAAGCTCGC
Statistics
Matches: 232, Mismatches: 41, Indels: 36
0.75 0.13 0.12
Matches are distributed among these distances:
60 3 0.01
61 6 0.03
62 171 0.74
63 2 0.01
64 2 0.01
71 44 0.19
72 4 0.02
ACGTcount: A:0.27, C:0.27, G:0.25, T:0.21
Consensus pattern (62 bp):
AGTCAAAGCCTACACAAGTTAGTGGCACCCTAGTCAAAACCTGCAGGAGTTGGTGGCACCTG
Found at i:827717 original size:93 final size:92
Alignment explanation
Indices: 827547--827951 Score: 294
Period size: 93 Copynumber: 4.3 Consensus size: 92
827537 TTCTCTTTTT
* * * * * * * * *
827547 AAGCCCACACGAGTTGATGGTACCCTAGTCAAAGCTTGCACGAGTTCGTGGCACCCTATTCAAAG
1 AAGCCTACACAAGTTGGTGGCACCCTAGTCAAAACCTGCATGAGTTGGTGGCA-CCTAGTCAAAG
**** ** *
827612 TTTGCAGGAGTTGGTGGCACCTGAGTCA
65 CCCACACAAGTTGGTGGCACCTTAGTCA
* * **
827640 AAGCCTACACAAGTTAGTGGCACCCTAGTCAAAACCTGCATGAGTTGGTGGCACTTGAGTTTAAG
1 AAGCCTACACAAGTTGGTGGCACCCTAGTCAAAACCTGCATGAGTTGGTGGCACCT-AGTCAAAG
* * *
827705 CCCGCACTAGTTGGTGGCACCTAAATCACCCTATTCA
65 CCCACACAAGTTGGTGGCACC----T-----TAGTCA
* * * * * *
827742 AAGGCC-GCACAAGTTGGCGGTACCCGAGTCTAAGACC-ACATGAGTTGGTGGCACCCTAGTCAA
1 AA-GCCTACACAAGTTGGTGGCACCCTAGTC-AAAACCTGCATGAGTTGGTGGCA-CCTAGTCAA
* *
827805 AGCCCATACAAGTTGGTGGCACCCTAGTCA
63 AGCCCACACAAGTTGGTGGCACCTTAGTCA
* * ** *
827835 AAGCCCACACAAGTTGGTGGCACCCTAGTCAAAGCCTGCACAAGTTGGTGGCACCCAAGTCAAAG
1 AAGCCTACACAAGTTGGTGGCACCCTAGTCAAAACCTGCATGAGTTGGTGGCA-CCTAGTCAAAG
*
827900 CCCACACAAGTTGGTGGCACCTTAGTGA
65 CCCACACAAGTTGGTGGCACCTTAGTCA
* *
827928 AAG-CTCGCACAAGTTCGTGGCACC
1 AAGCCT-ACACAAGTTGGTGGCACC
827952 TAAGTCCGAG
Statistics
Matches: 245, Mismatches: 51, Indels: 32
0.75 0.16 0.10
Matches are distributed among these distances:
92 10 0.04
93 160 0.65
97 1 0.00
102 64 0.26
103 10 0.04
ACGTcount: A:0.27, C:0.27, G:0.25, T:0.21
Consensus pattern (92 bp):
AAGCCTACACAAGTTGGTGGCACCCTAGTCAAAACCTGCATGAGTTGGTGGCACCTAGTCAAAGC
CCACACAAGTTGGTGGCACCTTAGTCA
Found at i:827952 original size:31 final size:31
Alignment explanation
Indices: 827731--827951 Score: 271
Period size: 31 Copynumber: 7.1 Consensus size: 31
827721 GCACCTAAAT
* * * *
827731 CACCCTATTCAAAGGCCGCACAAGTTGGCGG
1 CACCCTAGTCAAAGCCCACACAAGTTGGTGG
* * * * **
827762 TACCCGAGTCTAAGACCACATGAGTTGGTGG
1 CACCCTAGTCAAAGCCCACACAAGTTGGTGG
*
827793 CACCCTAGTCAAAGCCCATACAAGTTGGTGG
1 CACCCTAGTCAAAGCCCACACAAGTTGGTGG
827824 CACCCTAGTCAAAGCCCACACAAGTTGGTGG
1 CACCCTAGTCAAAGCCCACACAAGTTGGTGG
**
827855 CACCCTAGTCAAAGCCTGCACAAGTTGGTGG
1 CACCCTAGTCAAAGCCCACACAAGTTGGTGG
*
827886 CACCCAAGTCAAAGCCCACACAAGTTGGTGG
1 CACCCTAGTCAAAGCCCACACAAGTTGGTGG
* * * * *
827917 CACCTTAGTGAAAGCTCGCACAAGTTCGTGG
1 CACCCTAGTCAAAGCCCACACAAGTTGGTGG
827948 CACC
1 CACC
827952 TAAGTCCGAG
Statistics
Matches: 162, Mismatches: 28, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 162 1.00
ACGTcount: A:0.28, C:0.30, G:0.24, T:0.18
Consensus pattern (31 bp):
CACCCTAGTCAAAGCCCACACAAGTTGGTGG
Found at i:828546 original size:20 final size:20
Alignment explanation
Indices: 828517--828572 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
828507 TCTAGAAAGG
*
828517 AAATGCATCGATACATAAGT
1 AAATGTATCGATACATAAGT
***
828537 AAATGTATCGATACATGTTT
1 AAATGTATCGATACATAAGT
*
828557 AAATGTATTGATACAT
1 AAATGTATCGATACAT
828573 TTCTTATTGT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.34
Consensus pattern (20 bp):
AAATGTATCGATACATAAGT
Found at i:838789 original size:15 final size:16
Alignment explanation
Indices: 838764--838793 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
838754 GTTGGATTAA
838764 ATTTAGGATTTAATTC
1 ATTTAGGATTTAATTC
838780 ATTT-GGATTTAATT
1 ATTTAGGATTTAATT
838794 AAATAAAAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.30, C:0.03, G:0.13, T:0.53
Consensus pattern (16 bp):
ATTTAGGATTTAATTC
Found at i:841567 original size:20 final size:20
Alignment explanation
Indices: 841542--841588 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
841532 CACCACCTCT
841542 AGTCGACTCCTTTATTTAGG
1 AGTCGACTCCTTTATTTAGG
841562 AGTCGACTCCTTTATTTAGG
1 AGTCGACTCCTTTATTTAGG
841582 AGTCGAC
1 AGTCGAC
841589 ATGCTCTAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.36
Consensus pattern (20 bp):
AGTCGACTCCTTTATTTAGG
Found at i:852932 original size:12 final size:11
Alignment explanation
Indices: 852913--852987 Score: 59
Period size: 12 Copynumber: 6.8 Consensus size: 11
852903 AGAGAAAGAA
852913 GAGATAGGAGG
1 GAGATAGGAGG
852924 GATGATAGGA-G
1 GA-GATAGGAGG
*
852935 GAGAGA-GAGG
1 GAGATAGGAGG
*
852945 AGAGATAGTA--
1 -GAGATAGGAGG
852955 GAGATAGGAGG
1 GAGATAGGAGG
852966 GATGATAGGAGG
1 GA-GATAGGAGG
*
852978 AGAAATAGGA
1 -GAGATAGGA
852988 AAGATAATAG
Statistics
Matches: 51, Mismatches: 5, Indels: 15
0.72 0.07 0.21
Matches are distributed among these distances:
9 10 0.20
10 4 0.08
11 12 0.24
12 23 0.45
13 2 0.04
ACGTcount: A:0.41, C:0.00, G:0.47, T:0.12
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:853033 original size:42 final size:42
Alignment explanation
Indices: 852912--853027 Score: 178
Period size: 42 Copynumber: 2.7 Consensus size: 42
852902 AAGAGAAAGA
* *
852912 AGAGATAGGAGGGATGATAGGAGGAGAGAGAGGAGAGATAGT
1 AGAGATAGGAGGGATGATAGGAGGAGAGAGAGGAAAGATAAT
* *
852954 AGAGATAGGAGGGATGATAGGAGGAGAAATAGGAAAGATAAT
1 AGAGATAGGAGGGATGATAGGAGGAGAGAGAGGAAAGATAAT
*
852996 AGAGAGAGGAGGGATGATAGGAGGAAGAGAGA
1 AGAGATAGGAGGGATGATAGGAGG-AGAGAGA
853028 AAAAGAAGGA
Statistics
Matches: 66, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
42 61 0.92
43 5 0.08
ACGTcount: A:0.44, C:0.00, G:0.45, T:0.11
Consensus pattern (42 bp):
AGAGATAGGAGGGATGATAGGAGGAGAGAGAGGAAAGATAAT
Found at i:860095 original size:43 final size:42
Alignment explanation
Indices: 860013--860112 Score: 139
Period size: 43 Copynumber: 2.4 Consensus size: 42
860003 TCCTCATGTC
* * *
860013 ATCCTTCCTCTCTCTATTATCTCTCCTGTCTCTCCTCCTA-T
1 ATCCCTCCTCTCTCTACTATCTCTCCTGTCTCTCATCCTACT
*
860054 ATCCCCTCCTATCTCTACTATCTCCTCCTGTCTCTCATCCTACT
1 AT-CCCTCCTCTCTCTACTATCT-CTCCTGTCTCTCATCCTACT
860098 ATCCCTCCTCTCTCT
1 ATCCCTCCTCTCTCT
860113 TTTTCTCTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
41 2 0.04
42 17 0.33
43 29 0.57
44 3 0.06
ACGTcount: A:0.11, C:0.45, G:0.02, T:0.42
Consensus pattern (42 bp):
ATCCCTCCTCTCTCTACTATCTCTCCTGTCTCTCATCCTACT
Found at i:862050 original size:3 final size:3
Alignment explanation
Indices: 862042--862067 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
862032 AACCTCTTGC
862042 TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TC
862068 GCTTTGGATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.35, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:866964 original size:42 final size:42
Alignment explanation
Indices: 866908--867017 Score: 184
Period size: 42 Copynumber: 2.6 Consensus size: 42
866898 TTCTTCTCTC
* **
866908 CTCCTCCTATCATCCCTCCTTTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTATCTCTACAATCTCTCCTGTCT
866950 CTCCTCCTATCATCCCTCCTATCTCTACAATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTATCTCTACAATCTCTCCTGTCT
*
866992 CTCCTCCTATCATCCCTCCTCTCTCT
1 CTCCTCCTATCATCCCTCCTATCTCT
867018 TCTTTCTCTT
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.11, C:0.46, G:0.02, T:0.41
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTATCTCTACAATCTCTCCTGTCT
Found at i:869892 original size:656 final size:657
Alignment explanation
Indices: 868638--870322 Score: 2681
Period size: 656 Copynumber: 2.6 Consensus size: 657
868628 GTTTTCATCA
868638 ATCATCATCATCATCGCTTTGGATGGTTGACTTAAAGGCAACACTTGCCTTCTTGGGTGGCTCTT
1 ATCATCATCATCATCGCTTTGGATGGTTGACTTAAAGGCAACACTTGCC-TCTTGGGTGGCTCTT
* *
868703 AC-GCATGTTTAATTTTCATTTTATAGTAATACAAGGAACTTGTGAGTTCGTCCAAGGTAAGTGT
65 -CTGCATGTTTAATTTTCATTTCATAGTAATACAAGGAACTTGTGAGTTCGTCCAAGGAAAGTGT
*
868767 GTTTGGATCCTTGGATTCTTCAATAG-TCGTGACATTTGCTTCCCACATTTTGGAAGGCTATTGA
129 GTTTGGATCCTTGGATTCTTCAATAGCT-GTGACTTTTGCTTCCCACATTTTGGAAGGCTATTGA
* * *
868831 GAAGCTTCTTTACCATCTCCTAATCTGGATAGGTTTTCCTAAGTGCCTTAAGCCCATTGATTATC
193 GAAGCTTCTTTACCATCTCCTCATCTGGATAGGTTTTCCTGAGTGCCTTAAGCCCGTTGATTATC
* * *
868896 TCGTTGAACCTATCAGACATCTCCTTGATGGTTTCATCGAATTTCATCTTGAATAACTCATTGTC
258 TCGGTGAACCTATCAGACATCTCCTTGATGGTTTCATCGGATTTCATCTTGAATAACTCATAGTC
868961 AAGAGTGAGCATACTTATTTTCGACTCTTTGACTTGGTTTGTCCCTTCTTGTGTGGTTGTGAGTT
323 AAGAGTGAGCATACTTATTTTCGACTCTTTGACTTGGTTTGTCCCTTCTTGTGTGGTTGTGAGTT
*
869026 TATCCCATACTTGCTTGTCGCTATCGCAAAGTGAGACTCTATTGTACTCACTTAGGCCGAAAGCA
388 TATCCCACACTTGCTTGTCGCTATCGCAAAGTGAGACTCTATTGTACTCACTTAGGCCGAAAGCA
* ** *
869091 CAAAATAGCATGTGCATTGCTTTAGCGTTGAGTTGTGCCATCTTTATGTCTTGCTCATTCCATTA
453 CAAAATAGCATGTGAATTGCTTTAGCGTTGAGTCATGCCATCTTTATGTCTTGCACATTCCATTA
869156 TTCTATTTCCACATTGGACAATCAAATATGATGTGTCCCAGCTTCTTACACTCATAGCAAATGAT
518 TTCTATTTCCACATTGGACAATCAAATATGATGTGTCCCAGCTTCTTACACTCATAGCAAATGAT
*
869221 TTGATCTCATCTTTAAGAACTTATTCAATCTTCTTGCCAACATGGCCATTTCTTCATCTGGGTCA
583 TTGATCTCATCTTTAAGAACTTATTCAATCTTCTTGCCAACATGGCCATTTCTTCATCCGGGTCA
869286 ACCTCTTG-C
648 ACCTCTTGCC
*
869295 -TCATCATCATCATCGCTTCGGATGGTTGACTTAAAGGCAACACTTGCCTGCTTGGGTGGCTCTT
1 ATCATCATCATCATCGCTTTGGATGGTTGACTTAAAGGCAACACTTGCCT-CTTGGGTGGCTCTT
869359 CTGCATGTTTAATTTTCATTTCATAGTAATACAAGGAACTTGTGAGTTCGTCCAAGGAAAGTGTG
65 CTGCATGTTTAATTTTCATTTCATAGTAATACAAGGAACTTGTGAGTTCGTCCAAGGAAAGTGTG
* * *
869424 TTCGGATCCTTGTATTCTTCAATAGCTGTGACTTTTGCTTCCCACATTTTGGAAGGCTGTTGAGA
130 TTTGGATCCTTGGATTCTTCAATAGCTGTGACTTTTGCTTCCCACATTTTGGAAGGCTATTGAGA
* * *
869489 AGCTTCTTTACCATCTCCTCATCTGGATAGGTTTTCTTGAGTGCCTCAAGCCCGTTGATTATCTT
195 AGCTTCTTTACCATCTCCTCATCTGGATAGGTTTTCCTGAGTGCCTTAAGCCCGTTGATTATCTC
869554 GGTGAACCTATCAGACATCTCCTTGATGGTTTCATCGGATTTCATCTTGAATAACTCATAGTCAA
260 GGTGAACCTATCAGACATCTCCTTGATGGTTTCATCGGATTTCATCTTGAATAACTCATAGTCAA
*
869619 GAGTGAGCAAACTTATTTTCGACTCTTTGACTTGGTTTGTCCCTTCTTGTGTGGTTGTGAGTTTA
325 GAGTGAGCATACTTATTTTCGACTCTTTGACTTGGTTTGTCCCTTCTTGTGTGGTTGTGAGTTTA
* *
869684 TCCCACACTTGCTTGTCGCTATCGCAAAGTGAGACTCTGTTGTACTCACTTGGGCCGAAAGCACA
390 TCCCACACTTGCTTGTCGCTATCGCAAAGTGAGACTCTATTGTACTCACTTAGGCCGAAAGCACA
*
869749 AAATAGCATGTGAATTGCTTTAGCGTTGAGTCATGCCATCTTTATGTCTTGCACTTTCCATTATT
455 AAATAGCATGTGAATTGCTTTAGCGTTGAGTCATGCCATCTTTATGTCTTGCACATTCCATTATT
* * * * *
869814 CTTTTTCCACGTTGGATAATCAAATATGATGTGTCCCAGCTTCTTACAGTCATAGCAGATGATTT
520 CTATTTCCACATTGGACAATCAAATATGATGTGTCCCAGCTTCTTACACTCATAGCAAATGATTT
* *
869879 TATCTCATCTTTAATAACTTATTCAATCTTCTTGCCAACATGGCCATTTCTTCATCCGGGTCAAC
585 GATCTCATCTTTAAGAACTTATTCAATCTTCTTGCCAACATGGCCATTTCTTCATCCGGGTCAAC
869944 CTCTTGCTCATC
650 CTCTTG--C--C
869956 ATCACCATCATCATCATCATTGCTTTGGATGGTTGACTTAAAGGCAACA-------C-T---T-G
1 AT---CATCATCATCATC---GCTTTGGATGGTTGACTTAAAGGCAACACTTGCCTCTTGGGTGG
* *
870009 C-CTTCT-CATGTTTAATTTTGATTTCATAGTAATAAAAGGAACTTGTGA-TCTCGTCCAAGGAA
60 CTCTTCTGCATGTTTAATTTTCATTTCATAGTAATACAAGGAACTTGTGAGT-TCGTCCAAGGAA
* * *
870071 AGTGTGTTTGGATCTTTGGAATCTTCAGTAGCTGTGACTTTTGCTTCCCACATTTTGGAAGGCTA
124 AGTGTGTTTGGATCCTTGGATTCTTCAATAGCTGTGACTTTTGCTTCCCACATTTTGGAAGGCTA
*
870136 TTGAGAAGCTTCTTTACCATCTCCTCATCTAGATAGGTTTTCCTGAGTGCCTTAAGCCCGTTGAT
189 TTGAGAAGCTTCTTTACCATCTCCTCATCTGGATAGGTTTTCCTGAGTGCCTTAAGCCCGTTGAT
* * * *
870201 TATCTCGGTGAACTTATTAGACATCTCCTTGATGGTTTCATCAGATTTTATCTTGAATAACTCAT
254 TATCTCGGTGAACCTATCAGACATCTCCTTGATGGTTTCATCGGATTTCATCTTGAATAACTCAT
* *
870266 AGTCAAGAGTGAGCATACTTATCTTT-GTCTCTTTGACTTGGTTTGTCCCTTCATGTG
319 AGTCAAGAGTGAGCATACTTAT-TTTCGACTCTTTGACTTGGTTTGTCCCTTCTTGTG
870323 GCTTGCTTCC
Statistics
Matches: 958, Mismatches: 53, Indels: 38
0.91 0.05 0.04
Matches are distributed among these distances:
652 1 0.00
653 283 0.30
654 8 0.01
655 4 0.00
656 617 0.64
657 1 0.00
659 1 0.00
660 1 0.00
661 1 0.00
662 1 0.00
665 13 0.01
668 27 0.03
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (657 bp):
ATCATCATCATCATCGCTTTGGATGGTTGACTTAAAGGCAACACTTGCCTCTTGGGTGGCTCTTC
TGCATGTTTAATTTTCATTTCATAGTAATACAAGGAACTTGTGAGTTCGTCCAAGGAAAGTGTGT
TTGGATCCTTGGATTCTTCAATAGCTGTGACTTTTGCTTCCCACATTTTGGAAGGCTATTGAGAA
GCTTCTTTACCATCTCCTCATCTGGATAGGTTTTCCTGAGTGCCTTAAGCCCGTTGATTATCTCG
GTGAACCTATCAGACATCTCCTTGATGGTTTCATCGGATTTCATCTTGAATAACTCATAGTCAAG
AGTGAGCATACTTATTTTCGACTCTTTGACTTGGTTTGTCCCTTCTTGTGTGGTTGTGAGTTTAT
CCCACACTTGCTTGTCGCTATCGCAAAGTGAGACTCTATTGTACTCACTTAGGCCGAAAGCACAA
AATAGCATGTGAATTGCTTTAGCGTTGAGTCATGCCATCTTTATGTCTTGCACATTCCATTATTC
TATTTCCACATTGGACAATCAAATATGATGTGTCCCAGCTTCTTACACTCATAGCAAATGATTTG
ATCTCATCTTTAAGAACTTATTCAATCTTCTTGCCAACATGGCCATTTCTTCATCCGGGTCAACC
TCTTGCC
Found at i:871553 original size:18 final size:18
Alignment explanation
Indices: 871530--871564 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
871520 ATCTTCTTCT
871530 CTCCTC-CTCCTATTATCC
1 CTCCTCTCT-CTATTATCC
871548 CTCCTCTCTCTATTATC
1 CTCCTCTCTCTATTATC
871565 TCTCTATCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.11, C:0.46, G:0.00, T:0.43
Consensus pattern (18 bp):
CTCCTCTCTCTATTATCC
Found at i:871589 original size:41 final size:42
Alignment explanation
Indices: 871533--871641 Score: 157
Period size: 41 Copynumber: 2.6 Consensus size: 42
871523 TTCTTCTCTC
* * *
871533 CTCCTCCTATTATCCCTCCTCTCTCTATTATCTCT-CTATCT
1 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTATCT
* *
871574 TTCCTCATATCATCCCTCCTATCTCTACTATCTCTCCTATCT
1 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTATCT
*
871616 CTCCTCCTGTCATCCCTCCTATCTCT
1 CTCCTCCTATCATCCCTCCTATCTCT
871642 TCTTTCACTT
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
41 30 0.51
42 29 0.49
ACGTcount: A:0.13, C:0.43, G:0.01, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTATCT
Found at i:871618 original size:9 final size:9
Alignment explanation
Indices: 871589--871620 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
871579 CATATCATCC
871589 CTCCTATCT
1 CTCCTATCT
*
871598 CTACTATCT
1 CTCCTATCT
871607 CTCCTATCT
1 CTCCTATCT
871616 CTCCT
1 CTCCT
871621 CCTGTCATCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.12, C:0.44, G:0.00, T:0.44
Consensus pattern (9 bp):
CTCCTATCT
Found at i:878508 original size:24 final size:24
Alignment explanation
Indices: 878460--878557 Score: 91
Period size: 24 Copynumber: 4.3 Consensus size: 24
878450 CCTGTCATCC
* *
878460 CTCTTCTCTTTATTATCCCTCCTAT
1 CTCTTCTC-CTATCATCCCTCCTAT
*
878485 CTCTTCTCCTATCATCCCTTCTA-
1 CTCTTCTCCTATCATCCCTCCTAT
*
878508 -TC-TCTACTATC-T--CTCCTAT
1 CTCTTCTCCTATCATCCCTCCTAT
* *
878527 CTCTCCTCCTATCATCCCTCTTAT
1 CTCTTCTCCTATCATCCCTCCTAT
878551 CTCTTCT
1 CTCTTCT
878558 TTCTCTTTGA
Statistics
Matches: 58, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
18 5 0.09
20 3 0.05
21 15 0.26
22 3 0.05
24 24 0.41
25 8 0.14
ACGTcount: A:0.12, C:0.41, G:0.00, T:0.47
Consensus pattern (24 bp):
CTCTTCTCCTATCATCCCTCCTAT
Found at i:878552 original size:42 final size:42
Alignment explanation
Indices: 878441--878563 Score: 149
Period size: 42 Copynumber: 2.9 Consensus size: 42
878431 CATCTTCTTC
* * * * *
878441 TCTCTTCCTCCTGTCATCCCTCTTCTCTTTATTATCCCTCCTA
1 TCTC-TCCTCCTATCATCCCTCTTATCTCTACTATCTCTCCTA
*
878484 TCTCTTCTCCTATCATCCCT-TCTATCTCTACTATCTCTCCTA
1 TCTCTCCTCCTATCATCCCTCT-TATCTCTACTATCTCTCCTA
* *
878526 TCTCTCCTCCTATCATCCCTCTTATCTCTTCTTTCTCT
1 TCTCTCCTCCTATCATCCCTCTTATCTCTACTATCTCT
878564 TTGAGGGCTA
Statistics
Matches: 69, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
41 1 0.01
42 63 0.91
43 5 0.07
ACGTcount: A:0.11, C:0.41, G:0.01, T:0.47
Consensus pattern (42 bp):
TCTCTCCTCCTATCATCCCTCTTATCTCTACTATCTCTCCTA
Found at i:881992 original size:12 final size:12
Alignment explanation
Indices: 881972--882006 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
881962 AAGTGAAAGA
881972 AGAGATAGGAGG
1 AGAGATAGGAGG
881984 -GATGATAGGAGG
1 AGA-GATAGGAGG
881996 AGAGATAGGAG
1 AGAGATAGGAG
882007 AGATAATAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 2 0.10
12 17 0.81
13 2 0.10
ACGTcount: A:0.40, C:0.00, G:0.49, T:0.11
Consensus pattern (12 bp):
AGAGATAGGAGG
Found at i:882003 original size:24 final size:22
Alignment explanation
Indices: 881972--882026 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 22
881962 AAGTGAAAGA
* *
881972 AGAGATAGGAGGGATGATAGGAGG
1 AGAGATAGGAGAGATAATA-GA-G
881996 AGAGATAGGAGAGATAATAGAG
1 AGAGATAGGAGAGATAATAGAG
882018 AGAGA-AGGA
1 AGAGATAGGA
882027 ATGACAGGAG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 4 0.14
22 6 0.21
23 2 0.07
24 17 0.59
ACGTcount: A:0.45, C:0.00, G:0.44, T:0.11
Consensus pattern (22 bp):
AGAGATAGGAGAGATAATAGAG
Found at i:882015 original size:12 final size:12
Alignment explanation
Indices: 881975--882022 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
881965 TGAAAGAAGA
*
881975 GATAGGAGGGAT
1 GATAGGAGAGAT
881987 GATAGGAGGAGA-
1 GATAGGA-GAGAT
881999 GATAGGAGAGAT
1 GATAGGAGAGAT
*
882011 AATAGAGAGAGA
1 GATAG-GAGAGA
882023 AGGAATGACA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
11 4 0.13
12 18 0.58
13 9 0.29
ACGTcount: A:0.44, C:0.00, G:0.44, T:0.12
Consensus pattern (12 bp):
GATAGGAGAGAT
Done.