Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 71 of 292
Found at i:21600182 original size:27 final size:27
Alignment explanation
Indices: 21600124--21600544 Score: 260
Period size: 27 Copynumber: 15.6 Consensus size: 27
21600114 TTAGTTTACC
* * * *
21600124 AAATTACCGAAATACCCTCAAATTGTA
1 AAATTACCAAAATACCCTCGATTTATA
*
21600151 AAATTACCAAAGTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTATA
* **** *
21600178 GAATTACCGTTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* **** *
21600205 GAATTACCGTTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* ***
21600232 GAATTACCATTTTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTATA
* * *** * *
21600259 GAATTACTATTTTACCATTGATTTATA
1 AAATTACCAAAATACCCTCGATTTATA
* ***** * *
21600286 GAATTACTGTTTTACCCTTGATTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* * *
21600313 AAATTACTAAAATACCCT-TAGTTTACA
1 AAATTACCAAAATACCCTCGA-TTTATA
*
21600340 AAATTACCAAAATACCCTCGA-TCAGTA
1 AAATTACCAAAATACCCTCGATTTA-TA
* *
21600367 AAATTACCAAAATACCCTAG-TTTGTA
1 AAATTACCAAAATACCCTCGATTTATA
* * *
21600393 AAATTACTAAAATACCC-CTGGTTTTTA
1 AAATTACCAAAATACCCTC-GATTTATA
* *
21600420 AAATTACCAAAATACCCTCAATTTGTA
1 AAATTACCAAAATACCCTCGATTTATA
* *
21600447 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTATA
* *
21600474 AAATTACCAAAATACCACT-GGTTTGTA
1 AAATTACCAAAATACC-CTCGATTTATA
* * * *
21600501 AAATTATCGAAATACCCTCAATTTGTA
1 AAATTACCAAAATACCCTCGATTTATA
21600528 AAATTACCAAAATACCC
1 AAATTACCAAAATACCC
21600545 CTAATTTACA
Statistics
Matches: 335, Mismatches: 48, Indels: 22
0.83 0.12 0.05
Matches are distributed among these distances:
26 26 0.08
27 306 0.91
28 3 0.01
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.33
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTATA
Found at i:21600356 original size:54 final size:54
Alignment explanation
Indices: 21600298--21600655 Score: 269
Period size: 54 Copynumber: 6.6 Consensus size: 54
21600288 ATTACTGTTT
* *
21600298 TACCCTTGATTTACAAAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAA
1 TACCCTTGATTTATAAAATTACCAAAATACCCTTAGTTTACAAAATTACCAAAA
* * ** *
21600352 TACCCTCGA-TCAGTAAAATTACCAAAATACCC-TAGTTTGTAAAATTACTAAAA
1 TACCCTTGATTTA-TAAAATTACCAAAATACCCTTAGTTTACAAAATTACCAAAA
* * * * * **
21600405 TACCCCTGGTTTTTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTATAAAATTACCAAAATACCCTTAGTTTACAAAATTACCAAAA
* * * ** * *
21600459 TACCCCT-AGTTTGTAAAATTACCAAAATACCAC-TGGTTTGTAAAATTATCGAAA
1 TACCCTTGA-TTTATAAAATTACCAAAATACC-CTTAGTTTACAAAATTACCAAAA
** * * * *
21600513 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAGTTA-CAGAAA
1 TACCCTTGATTTATAAAATTACCAAAATACCCTTAGTTTACAAAATTACCA-AAA
*** * * **
21600567 TACCCTTGACTTCT-TAAAATTATGGAAATACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGA-TT-TATAAAATTACCAAAATACCCTTAGTTTACAAAATTACCAAAA
* * * * *
21600622 TACCCTTGGTTTGTAGATTTACCAAAACACCCTT
1 TACCCTTGATTTATAAAATTACCAAAATACCCTT
21600656 GTAGGATGAA
Statistics
Matches: 242, Mismatches: 50, Indels: 24
0.77 0.16 0.08
Matches are distributed among these distances:
53 48 0.20
54 151 0.62
55 42 0.17
56 1 0.00
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (54 bp):
TACCCTTGATTTATAAAATTACCAAAATACCCTTAGTTTACAAAATTACCAAAA
Found at i:21600504 original size:81 final size:80
Alignment explanation
Indices: 21600312--21600547 Score: 348
Period size: 81 Copynumber: 2.9 Consensus size: 80
21600302 CTTGATTTAC
* * * **
21600312 AAAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
1 AAAATTACTAAAATACCC-TGGTTTATAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAA
21600377 AATA-CCCTAGTTTGT
65 AATACCCCTAGTTTGT
*
21600392 AAAATTACTAAAATACCCCTGGTTTTTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAA
1 AAAATTACTAAAATA-CCCTGGTTTATAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAA
21600457 AATACCCCTAGTTTGT
65 AATACCCCTAGTTTGT
* * * *
21600473 AAAATTACCAAAATACCACTGGTTTGTAAAATTATCGAAATACCCTCAATTTGTAAAATTACCAA
1 AAAATTACTAAAATACC-CTGGTTTATAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAA
21600538 AATACCCCTA
65 AATACCCCTA
21600548 ATTTACAAAG
Statistics
Matches: 143, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
80 61 0.43
81 82 0.57
ACGTcount: A:0.43, C:0.21, G:0.06, T:0.30
Consensus pattern (80 bp):
AAAATTACTAAAATACCCTGGTTTATAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAA
ATACCCCTAGTTTGT
Found at i:21600551 original size:27 final size:27
Alignment explanation
Indices: 21600312--21600547 Score: 273
Period size: 27 Copynumber: 8.8 Consensus size: 27
21600302 CTTGATTTAC
* * **
21600312 AAAATTACTAAAATACCCTTAGTTTAC
1 AAAATTACCAAAATACCCCTAGTTTGT
* **
21600339 AAAATTACCAAAATA-CCCTCGATCAGT
1 AAAATTACCAAAATACCCCTAG-TTTGT
21600366 AAAATTACCAAAATA-CCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
* * *
21600392 AAAATTACTAAAATACCCCTGGTTTTT
1 AAAATTACCAAAATACCCCTAGTTTGT
*
21600419 AAAATTACCAAAATA-CCCTCAATTTGT
1 AAAATTACCAAAATACCCCT-AGTTTGT
21600446 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
* *
21600473 AAAATTACCAAAATACCACTGGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
* * *
21600500 AAAATTATCGAAATA-CCCTCAATTTGT
1 AAAATTACCAAAATACCCCT-AGTTTGT
21600527 AAAATTACCAAAATACCCCTA
1 AAAATTACCAAAATACCCCTA
21600548 ATTTACAAAG
Statistics
Matches: 176, Mismatches: 27, Indels: 12
0.82 0.13 0.06
Matches are distributed among these distances:
26 28 0.16
27 140 0.80
28 8 0.05
ACGTcount: A:0.43, C:0.21, G:0.06, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTAGTTTGT
Found at i:21600621 original size:27 final size:27
Alignment explanation
Indices: 21600582--21600633 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
21600572 TTGACTTCTT
21600582 AAAATTATGGAAATACCATTGGTTTAC
1 AAAATTATGGAAATACCATTGGTTTAC
*
21600609 AAAATTACT-GAAATACCCTTGGTTT
1 AAAATTA-TGGAAATACCATTGGTTT
21600634 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.35
Consensus pattern (27 bp):
AAAATTATGGAAATACCATTGGTTTAC
Found at i:21600717 original size:27 final size:27
Alignment explanation
Indices: 21600687--21600774 Score: 115
Period size: 27 Copynumber: 3.3 Consensus size: 27
21600677 ACCCCTATTA
21600687 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAAAGACCGTAAAGCCCCTGTAG
*
21600714 GGTAAAGAGACCGTAAAGCCCCTGTAG
1 GGTAAAAAGACCGTAAAGCCCCTGTAG
** * *
21600741 GGTAAAGTGACCATAATA-CCCCTGTAT
1 GGTAAAAAGACCGTAA-AGCCCCTGTAG
21600768 GGTAAAA
1 GGTAAAA
21600775 TGACGAATAT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 54 0.98
28 1 0.02
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.18
Consensus pattern (27 bp):
GGTAAAAAGACCGTAAAGCCCCTGTAG
Found at i:21601607 original size:26 final size:26
Alignment explanation
Indices: 21601578--21601749 Score: 219
Period size: 25 Copynumber: 6.8 Consensus size: 26
21601568 GAGGAAGTGC
* *
21601578 AAAAGAGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
21601604 AAAAGGGCTTATACCCCA-TTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
21601629 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
21601655 AAAAGGGCTTATGCCCCAGTTTA--C
1 AAAAGGGCTTATGCCCCAGTTTATTG
21601679 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* ***
21601705 AAAAAGGCTT-TGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTATTG
21601730 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
21601750 ATTAAAGAGG
Statistics
Matches: 128, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
24 23 0.18
25 53 0.41
26 52 0.41
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:21601704 original size:50 final size:52
Alignment explanation
Indices: 21601578--21601749 Score: 264
Period size: 51 Copynumber: 3.4 Consensus size: 52
21601568 GAGGAAGTGC
* * * *
21601578 AAAAGAGCTTATGCCCTAGTTTATTGAAAAGGGCTTATACCCCA-TTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCA
21601629 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTA-C-
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCA
*
21601679 AAAAGGGCTTATGCCCCAGTTTATTGAAAAAGGCTT-TGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCA
21601730 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
21601750 ATTAAAGAGG
Statistics
Matches: 114, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
49 12 0.11
50 46 0.40
51 52 0.46
52 4 0.04
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCA
Found at i:21601953 original size:42 final size:42
Alignment explanation
Indices: 21601894--21601985 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
21601884 TGGTCTCCCC
* ** *
21601894 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
21601936 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
21601978 AAATGGGC
1 AAATGGGC
21601986 CTAAGGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:21602086 original size:31 final size:31
Alignment explanation
Indices: 21602009--21602087 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
21601999 CGTTTACAGT
*
21602009 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
21602040 AAAGGCTTCAGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
21602071 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
21602088 AACCGTTAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:21604605 original size:21 final size:20
Alignment explanation
Indices: 21604577--21604615 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
21604567 CAAAACTTGT
21604577 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
*
21604597 ATAATCTATCATTAAACAT
1 ATAA-CTATCATCAAACAT
21604616 CAAAATAATC
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:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:21605519 original size:31 final size:31
Alignment explanation
Indices: 21605478--21605541 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
21605468 CCTTTTCATA
*
21605478 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
21605509 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
21605540 TT
1 TT
21605542 ACGGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:21605809 original size:23 final size:24
Alignment explanation
Indices: 21605734--21605852 Score: 172
Period size: 24 Copynumber: 5.0 Consensus size: 24
21605724 GCTTTATCAT
*
21605734 ATAACTGGAGGC-CAAGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
21605759 ATAACTGGGGCA-AAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
21605783 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
21605806 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
21605830 ATAACTAGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
21605853 GCACTTCCTC
Statistics
Matches: 89, Mismatches: 1, Indels: 9
0.90 0.01 0.09
Matches are distributed among these distances:
23 24 0.27
24 51 0.57
25 14 0.16
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:21605814 original size:47 final size:47
Alignment explanation
Indices: 21605755--21605851 Score: 169
Period size: 47 Copynumber: 2.1 Consensus size: 47
21605745 CCAAGCCTCT
*
21605755 TTTAATAACTGGGGCA-AAGCCCTTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC-TTTTAATAACTAGGGCATAAGCCC
21605802 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTAGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTAGGGCATAAGCCC
21605849 TTT
1 TTT
21605852 TGCACTTCCT
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
47 42 0.88
48 6 0.12
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.30
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTAATAACTAGGGCATAAGCCC
Found at i:21605923 original size:9 final size:9
Alignment explanation
Indices: 21605909--21605965 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
21605899 ATCTCGTGTG
21605909 CATATCATA
1 CATATCATA
*
21605918 CATATCATGTG
1 CATATCA--TA
21605929 CATATCATA
1 CATATCATA
* *
21605938 CATGTCATGTG
1 CATATCA--TA
21605949 CATATCATA
1 CATATCATA
21605958 CATATCAT
1 CATATCAT
21605966 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:21605928 original size:20 final size:20
Alignment explanation
Indices: 21605905--21605967 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
21605895 GAACATCTCG
21605905 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
21605925 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
21605945 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
21605965 TGT
1 TGT
21605968 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:21606032 original size:25 final size:25
Alignment explanation
Indices: 21606004--21606051 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
21605994 ATGTATAAAC
* * *
21606004 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
21606029 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
21606052 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:21609937 original size:37 final size:36
Alignment explanation
Indices: 21609867--21609937 Score: 83
Period size: 37 Copynumber: 1.9 Consensus size: 36
21609857 CAGCTAAGGT
* *
21609867 TTTGTATAGGTAAATATATATGAATTGGCTGTTATG
1 TTTGTATAGGTAAATATATATAAAATGGCTGTTATG
21609903 TTTGATATAGGT-AATAATATATAAACATGG-TGTTA
1 TTTG-TATAGGTAAAT-ATATATAAA-ATGGCTGTTA
21609938 AATGATATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
36 7 0.23
37 20 0.67
38 3 0.10
ACGTcount: A:0.35, C:0.03, G:0.20, T:0.42
Consensus pattern (36 bp):
TTTGTATAGGTAAATATATATAAAATGGCTGTTATG
Found at i:21613351 original size:22 final size:22
Alignment explanation
Indices: 21613323--21613364 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
21613313 TCACTACAAA
21613323 TGTAGCTTGCGTCTTTGAACTC
1 TGTAGCTTGCGTCTTTGAACTC
*
21613345 TGTAGCTTGCTTCTTTGAAC
1 TGTAGCTTGCGTCTTTGAAC
21613365 CTGCATATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.43
Consensus pattern (22 bp):
TGTAGCTTGCGTCTTTGAACTC
Found at i:21615988 original size:30 final size:30
Alignment explanation
Indices: 21615954--21616023 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
21615944 GCTGTCGCAA
* * *
21615954 CCCTTTTCATAGCTCGATAGTCGAAGCTAT
1 CCCTTTTCATAGCTCAATAGCCGAAGCTAG
*
21615984 CCCTTTTCACAGCTCAATAGCCGAAGCTAG
1 CCCTTTTCATAGCTCAATAGCCGAAGCTAG
*
21616014 GCCTTTTCAT
1 CCCTTTTCAT
21616024 TATTTGATGT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.31
Consensus pattern (30 bp):
CCCTTTTCATAGCTCAATAGCCGAAGCTAG
Found at i:21616059 original size:29 final size:31
Alignment explanation
Indices: 21616017--21616080 Score: 87
Period size: 29 Copynumber: 2.1 Consensus size: 31
21616007 AAGCTAGGCC
* * *
21616017 TTTTCATTATTTGATGTTCGTCACCAT-CCT
1 TTTTCATTAGTTGATGGTCATCACCATCCCT
21616047 TTTTCATT-GTTGATGGTCATCACCATCCCT
1 TTTTCATTAGTTGATGGTCATCACCATCCCT
21616077 TTTT
1 TTTT
21616081 ATACTTTGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 15 0.50
30 15 0.50
ACGTcount: A:0.16, C:0.23, G:0.11, T:0.50
Consensus pattern (31 bp):
TTTTCATTAGTTGATGGTCATCACCATCCCT
Found at i:21616230 original size:30 final size:31
Alignment explanation
Indices: 21616191--21616263 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 31
21616181 GTTGTCACCG
*
21616191 TCCCTTTTTCA-GAATTTGGTAGC-CAAGGCTA
1 TCCC-TTTTCATGAATTTGATAGCTCAA-GCTA
* * *
21616222 TCCCTTTTCATTATTTTGATAGCTGAAGCTA
1 TCCCTTTTCATGAATTTGATAGCTCAAGCTA
21616253 TCCCTTTTCAT
1 TCCCTTTTCAT
21616264 TAGCCGATGA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
30 6 0.17
31 28 0.78
32 2 0.06
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (31 bp):
TCCCTTTTCATGAATTTGATAGCTCAAGCTA
Found at i:21617000 original size:2 final size:2
Alignment explanation
Indices: 21616993--21617023 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
21616983 TGAGATAGTC
21616993 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
21617024 CATGTCATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:21629548 original size:27 final size:27
Alignment explanation
Indices: 21629512--21629764 Score: 161
Period size: 27 Copynumber: 9.4 Consensus size: 27
21629502 TGGTGACGAA
21629512 GCTGCTGCTGCCGCTGAAGTTCCAACT
1 GCTGCTGCTGCCGCTGAAGTTCCAACT
*
21629539 GCTGCTGCTGCTGCTGTAGCTGTAGTTCCAA--
1 GCTGCTGCTGC--C----GCTGAAGTTCCAACT
* *
21629570 -CTGCTGCTGCCGCTGTAA-CT-CTA--
1 GCTGCTGCTGCCGCTG-AAGTTCCAACT
* * * *
21629593 GCTGCTGCCGCCGCTGTAA-CTCTAGCT
1 GCTGCTGCTGCCGCTG-AAGTTCCAACT
* * *
21629620 GCTGCTGCTGCCGCTGTAA-CTCTAGCT
1 GCTGCTGCTGCCGCTG-AAGTTCCAACT
* * *
21629647 GCTGCTGCTGTCGCTGTAGTTCCAGCT
1 GCTGCTGCTGCCGCTGAAGTTCCAACT
*
21629674 GCTGCTGTTGCCGCTGAAGTTCC-A--
1 GCTGCTGCTGCCGCTGAAGTTCCAACT
* *
21629698 GCTGCTGCTGCCTCTGAAGTTCCAGCT
1 GCTGCTGCTGCCGCTGAAGTTCCAACT
21629725 GCTGCTGCTGCTGTCGCTGAAGTTCCAACT
1 GCTGCTGCTGC---CGCTGAAGTTCCAACT
*
21629755 GCCGCTGCTG
1 GCTGCTGCTG
21629765 TTGAAACTGA
Statistics
Matches: 185, Mismatches: 23, Indels: 33
0.77 0.10 0.14
Matches are distributed among these distances:
23 2 0.01
24 45 0.24
25 1 0.01
26 1 0.01
27 89 0.48
28 1 0.01
29 1 0.01
30 33 0.18
33 12 0.06
ACGTcount: A:0.11, C:0.32, G:0.27, T:0.29
Consensus pattern (27 bp):
GCTGCTGCTGCCGCTGAAGTTCCAACT
Found at i:21629554 original size:33 final size:33
Alignment explanation
Indices: 21629512--21629584 Score: 110
Period size: 33 Copynumber: 2.2 Consensus size: 33
21629502 TGGTGACGAA
*
21629512 GCTGCTGCTGCCGCTGAAGTTCCAACTGCTGCT
1 GCTGCTGCTGCAGCTGAAGTTCCAACTGCTGCT
* *
21629545 GCTGCTGCTGTAGCTGTAGTTCCAACTGCTGCT
1 GCTGCTGCTGCAGCTGAAGTTCCAACTGCTGCT
*
21629578 GCCGCTG
1 GCTGCTG
21629585 TAACTCTAGC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.11, C:0.32, G:0.29, T:0.29
Consensus pattern (33 bp):
GCTGCTGCTGCAGCTGAAGTTCCAACTGCTGCT
Found at i:21629584 original size:24 final size:24
Alignment explanation
Indices: 21629545--21629738 Score: 154
Period size: 24 Copynumber: 7.7 Consensus size: 24
21629535 AACTGCTGCT
**
21629545 GCTGCTGCTGTAGCTGTAGTTCCA
1 GCTGCTGCTGCCGCTGTAGTTCCA
* ** *
21629569 ACTGCTGCTGCCGCTGTAACTCTA
1 GCTGCTGCTGCCGCTGTAGTTCCA
* * * *
21629593 GCTGCTGCCGCCGCTGTAACTCTAGCT
1 GCTGCTGCTGCCGCTGT-AGT-T-CCA
** *
21629620 GCTGCTGCTGCCGCTGTAACTCTA
1 GCTGCTGCTGCCGCTGTAGTTCCA
21629644 GCTGCTGCTGCTGTCGCTGTAGTTCCA
1 GCTGCTGCTGC---CGCTGTAGTTCCA
*
21629671 GCTGCTGCTGTTGCCGCTGAAGTTCCA
1 GCTGCTGC---TGCCGCTGTAGTTCCA
* *
21629698 GCTGCTGCTGCCTCTGAAGTTCCA
1 GCTGCTGCTGCCGCTGTAGTTCCA
*
21629722 GCTGCTGCTGCTGCTGT
1 GCTGCTGCTGCCGCTGT
21629739 CGCTGAAGTT
Statistics
Matches: 134, Mismatches: 27, Indels: 18
0.75 0.15 0.10
Matches are distributed among these distances:
24 73 0.54
25 2 0.01
26 2 0.01
27 54 0.40
30 3 0.02
ACGTcount: A:0.11, C:0.31, G:0.27, T:0.30
Consensus pattern (24 bp):
GCTGCTGCTGCCGCTGTAGTTCCA
Found at i:21629627 original size:51 final size:51
Alignment explanation
Indices: 21629570--21629735 Score: 192
Period size: 51 Copynumber: 3.2 Consensus size: 51
21629560 GTAGTTCCAA
* *
21629570 CTGCTGCTGCCGCTGTAACTCTAGCTGCTGCCGCCGCTGTAACTCTAGCTG
1 CTGCTGCTGCCGCTGTAACTCTAGCTGCTGCCGCCGCTGTAATTCCAGCTG
* *
21629621 CTGCTGCTGCCGCTGTAACTCTAGCTGCTGCTGCTGTCGCTGTAGTTCCAGCTG
1 CTGCTGCTGCCGCTGTAACTCTAGCTGCTGC--C-GCCGCTGTAATTCCAGCTG
* * * * *
21629675 CTGCTGTTGCCGCTG-AAGTTCCAGCTGCTGCTGCCTCTG-AAGTTCCAGCTG
1 CTGCTGCTGCCGCTGTAA-CTCTAGCTGCTGCCGCCGCTGTAA-TTCCAGCTG
21629726 CTGCTGCTGC
1 CTGCTGCTGC
21629736 TGTCGCTGAA
Statistics
Matches: 98, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
50 1 0.01
51 54 0.55
53 3 0.03
54 40 0.41
ACGTcount: A:0.10, C:0.33, G:0.27, T:0.30
Consensus pattern (51 bp):
CTGCTGCTGCCGCTGTAACTCTAGCTGCTGCCGCCGCTGTAATTCCAGCTG
Found at i:21629678 original size:30 final size:30
Alignment explanation
Indices: 21629644--21629764 Score: 143
Period size: 30 Copynumber: 4.3 Consensus size: 30
21629634 TGTAACTCTA
*
21629644 GCTGCTGCTGCTGTCGCTGTAGTTCCAGCT
1 GCTGCTGCTGCTGTCGCTGAAGTTCCAGCT
*
21629674 GCTGCTG-T--TGCCGCTGAAGTTCCAGCT
1 GCTGCTGCTGCTGTCGCTGAAGTTCCAGCT
21629701 GCTGCTGC--C--T--CTGAAGTTCCAGCT
1 GCTGCTGCTGCTGTCGCTGAAGTTCCAGCT
*
21629725 GCTGCTGCTGCTGTCGCTGAAGTTCCAACT
1 GCTGCTGCTGCTGTCGCTGAAGTTCCAGCT
*
21629755 GCCGCTGCTG
1 GCTGCTGCTG
21629765 TTGAAACTGA
Statistics
Matches: 78, Mismatches: 5, Indels: 16
0.79 0.05 0.16
Matches are distributed among these distances:
24 22 0.28
26 1 0.01
27 24 0.31
28 1 0.01
29 1 0.01
30 29 0.37
ACGTcount: A:0.10, C:0.31, G:0.29, T:0.30
Consensus pattern (30 bp):
GCTGCTGCTGCTGTCGCTGAAGTTCCAGCT
Found at i:21629769 original size:24 final size:24
Alignment explanation
Indices: 21629688--21629769 Score: 67
Period size: 24 Copynumber: 3.2 Consensus size: 24
21629678 CTGTTGCCGC
* *
21629688 TGAAGTTCCAGCTGCTGCTGCCT-C
1 TGAAGTTCCAGCTGCCGCTG-CTGT
21629712 TGAAGTTCCAGCTGCTGCTGCTGCTGT
1 TGAAGTTCCAGCTGC--C-GCTGCTGT
*
21629739 CGCTGAAGTTCCAACTGCCGCTGCTGT
1 ---TGAAGTTCCAGCTGCCGCTGCTGT
21629766 TGAA
1 TGAA
21629770 ACTGAAGTTC
Statistics
Matches: 48, Mismatches: 3, Indels: 14
0.74 0.05 0.22
Matches are distributed among these distances:
24 19 0.40
26 2 0.04
27 12 0.25
28 1 0.02
30 14 0.29
ACGTcount: A:0.15, C:0.29, G:0.27, T:0.29
Consensus pattern (24 bp):
TGAAGTTCCAGCTGCCGCTGCTGT
Found at i:21629775 original size:30 final size:30
Alignment explanation
Indices: 21629711--21629782 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
21629701 GCTGCTGCCT
* * ***
21629711 CTGAAGTTCCAGCTGCTGCTGCTGCTGTCG
1 CTGAAGTTCCAACTGCCGCTGCTGCTGAAA
*
21629741 CTGAAGTTCCAACTGCCGCTGCTGTTGAAA
1 CTGAAGTTCCAACTGCCGCTGCTGCTGAAA
21629771 CTGAAGTTCCAA
1 CTGAAGTTCCAA
21629783 AAGGTGTTCC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.19, C:0.28, G:0.25, T:0.28
Consensus pattern (30 bp):
CTGAAGTTCCAACTGCCGCTGCTGCTGAAA
Found at i:21651481 original size:28 final size:28
Alignment explanation
Indices: 21651408--21651481 Score: 105
Period size: 28 Copynumber: 2.6 Consensus size: 28
21651398 GTTCAAATTG
* * *
21651408 TATAGCACTAAGTGTGCAAGTTTGATTA
1 TATAGCACTAAGTGTGCGAGTTCGACTA
21651436 TATAGCACTAAGTGTGCGAGTTCGACTA
1 TATAGCACTAAGTGTGCGAGTTCGACTA
21651464 T-TAAGCACTAAGTGTGCG
1 TAT-AGCACTAAGTGTGCG
21651482 GGCTTATTAC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
27 1 0.02
28 41 0.98
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (28 bp):
TATAGCACTAAGTGTGCGAGTTCGACTA
Found at i:21662952 original size:49 final size:49
Alignment explanation
Indices: 21662880--21662977 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
21662870 AGGTGAATGG
*
21662880 AAATGTCGCCCAAGTATTGATATCCCAACCTCCTTTAATCAAGAAATAA
1 AAATGTCGCCCAAGTACTGATATCCCAACCTCCTTTAATCAAGAAATAA
21662929 AAATGTCGCCCAAGTACTGATATCCCAACCTCCTTTAATCAAGAAATAA
1 AAATGTCGCCCAAGTACTGATATCCCAACCTCCTTTAATCAAGAAATAA
21662978 TGTTTCCTAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.39, C:0.26, G:0.10, T:0.26
Consensus pattern (49 bp):
AAATGTCGCCCAAGTACTGATATCCCAACCTCCTTTAATCAAGAAATAA
Found at i:21666136 original size:94 final size:94
Alignment explanation
Indices: 21665975--21666162 Score: 376
Period size: 94 Copynumber: 2.0 Consensus size: 94
21665965 GACTCTACAG
21665975 GCAAAGTCTTACTGGATACTAAATTCATGCATATATACAAATGAGTTGTTCCAGGATCTATCAAA
1 GCAAAGTCTTACTGGATACTAAATTCATGCATATATACAAATGAGTTGTTCCAGGATCTATCAAA
21666040 GTAACCACAGACGTATCATAAAGAGTAAA
66 GTAACCACAGACGTATCATAAAGAGTAAA
21666069 GCAAAGTCTTACTGGATACTAAATTCATGCATATATACAAATGAGTTGTTCCAGGATCTATCAAA
1 GCAAAGTCTTACTGGATACTAAATTCATGCATATATACAAATGAGTTGTTCCAGGATCTATCAAA
21666134 GTAACCACAGACGTATCATAAAGAGTAAA
66 GTAACCACAGACGTATCATAAAGAGTAAA
21666163 TGTACCCGTA
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
94 94 1.00
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.27
Consensus pattern (94 bp):
GCAAAGTCTTACTGGATACTAAATTCATGCATATATACAAATGAGTTGTTCCAGGATCTATCAAA
GTAACCACAGACGTATCATAAAGAGTAAA
Found at i:21666932 original size:19 final size:19
Alignment explanation
Indices: 21666908--21666946 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
21666898 ACTCTTTATG
21666908 TTTCTGGTCGATAAATCTC
1 TTTCTGGTCGATAAATCTC
21666927 TTTCTGGTCGATAAATCTC
1 TTTCTGGTCGATAAATCTC
21666946 T
1 T
21666947 GACTGATGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.21, G:0.15, T:0.44
Consensus pattern (19 bp):
TTTCTGGTCGATAAATCTC
Found at i:21679162 original size:29 final size:29
Alignment explanation
Indices: 21679092--21679298 Score: 117
Period size: 29 Copynumber: 7.1 Consensus size: 29
21679082 AAAAGTACGC
* * * *
21679092 CTTTATGGCTACCTCAGTTAAAAGAGAGT
1 CTTTATGGCGATCTCTGTTAAAAGAAAGT
*
21679121 CTTTATGGTGATCTCTGTTAAAAGAAAGT
1 CTTTATGGCGATCTCTGTTAAAAGAAAGT
* * *
21679150 CTTTGTGGCGATCTTTGATAAAAAGAAAGT
1 CTTTATGGCGATCTCTG-TTAAAAGAAAGT
* ** * ** * *
21679180 CTTCATGGTTATCTCTATTTTAAGGATGT
1 CTTTATGGCGATCTCTGTTAAAAGAAAGT
* * * * * *
21679209 CTTTGTGGCTATTTATGTTAAAAGGATGT
1 CTTTATGGCGATCTCTGTTAAAAGAAAGT
* * * ** *
21679238 CTTTAAGGCTATCTCTGTTTAGGGAATGT
1 CTTTATGGCGATCTCTGTTAAAAGAAAGT
** * *
21679267 CTTTATGGATATCTCTGTTAAAGGAATGT
1 CTTTATGGCGATCTCTGTTAAAAGAAAGT
21679296 CTT
1 CTT
21679299 GTAGCAAATT
Statistics
Matches: 137, Mismatches: 40, Indels: 2
0.77 0.22 0.01
Matches are distributed among these distances:
29 115 0.84
30 22 0.16
ACGTcount: A:0.27, C:0.12, G:0.21, T:0.40
Consensus pattern (29 bp):
CTTTATGGCGATCTCTGTTAAAAGAAAGT
Found at i:21680571 original size:18 final size:18
Alignment explanation
Indices: 21680550--21680586 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
21680540 TTGAGACAAA
21680550 ATTAATTAAATTAAAACT
1 ATTAATTAAATTAAAACT
21680568 ATTAATTAAATTAAAACT
1 ATTAATTAAATTAAAACT
21680586 A
1 A
21680587 CACCTAGGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (18 bp):
ATTAATTAAATTAAAACT
Found at i:21682342 original size:35 final size:35
Alignment explanation
Indices: 21682301--21682403 Score: 125
Period size: 35 Copynumber: 2.9 Consensus size: 35
21682291 TAAGTATGTA
* *
21682301 CATGTGAGGTCATATTGAGTTTGTATATTCGGCTG
1 CATGTGAGGTTATATTGAATTTGTATATTCGGCTG
* * * ** *
21682336 CTTGTGAAGTTATATTGAACTTGTATATTCGATTT
1 CATGTGAGGTTATATTGAATTTGTATATTCGGCTG
*
21682371 CATATGAGGTTATATTGAATTTGTATATTCGGC
1 CATGTGAGGTTATATTGAATTTGTATATTCGGC
21682404 CATATGAGAT
Statistics
Matches: 54, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
35 54 1.00
ACGTcount: A:0.24, C:0.10, G:0.22, T:0.44
Consensus pattern (35 bp):
CATGTGAGGTTATATTGAATTTGTATATTCGGCTG
Found at i:21682422 original size:70 final size:71
Alignment explanation
Indices: 21682299--21682484 Score: 175
Period size: 70 Copynumber: 2.6 Consensus size: 71
21682289 CATAAGTATG
* * * * *
21682299 TACATGTGAGGTCATATTGAGTTTGTATATTCGGCTGC-T-TGTGA-AGTTATATTGAACTTGTA
1 TACATATGAGGTTATATTGAATTTGTATATTCGGC--CATATGAGATAGTTATATTGAACTTGAA
* *
21682361 TATTCGAT
64 CATTAGAT
* *
21682369 TTCATATGAGGTTATATTGAATTTGTATATTCGGCCATATGAGATA-TTTTATTGAACTTGAACA
1 TACATATGAGGTTATATTGAATTTGTATATTCGGCCATATGAGATAGTTATATTGAACTTGAACA
*
21682433 TTAGGT
66 TTAGAT
* * * * *
21682439 TACATGTGATGATA-ATTTGAACTTATATATTCGGCCATATGAGATA
1 TACATATGAGGTTATA-TTGAATTTGTATATTCGGCCATATGAGATA
21682485 ATATAATGAA
Statistics
Matches: 96, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
68 1 0.01
69 2 0.02
70 92 0.96
71 1 0.01
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (71 bp):
TACATATGAGGTTATATTGAATTTGTATATTCGGCCATATGAGATAGTTATATTGAACTTGAACA
TTAGAT
Found at i:21684808 original size:17 final size:20
Alignment explanation
Indices: 21684767--21684808 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
21684757 TTTTTTGGTC
*
21684767 TTTATTGTTCTTATCTTTGA
1 TTTATTATTCTTATCTTTGA
21684787 TTTATTATTC-TAT-TTT-A
1 TTTATTATTCTTATCTTTGA
21684804 TTTAT
1 TTTAT
21684809 CTTAGTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 6 0.29
18 3 0.14
19 3 0.14
20 9 0.43
ACGTcount: A:0.19, C:0.07, G:0.05, T:0.69
Consensus pattern (20 bp):
TTTATTATTCTTATCTTTGA
Found at i:21684834 original size:26 final size:26
Alignment explanation
Indices: 21684805--21684854 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
21684795 TCTATTTTAT
* * *
21684805 TTATCTTAGTTATTTATTTTAATTAA
1 TTATATTAATTATTTATTTGAATTAA
*
21684831 TTATATTAATTTTTTATTTGAATT
1 TTATATTAATTATTTATTTGAATT
21684855 GGATTTGTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (26 bp):
TTATATTAATTATTTATTTGAATTAA
Found at i:21690122 original size:20 final size:20
Alignment explanation
Indices: 21690085--21690124 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
21690075 CATTAAATAC
* *
21690085 TTCAAACTCTTTTTGTCAGT
1 TTCAAACTCTTGTGGTCAGT
21690105 TTCAAACTCTTGTGGTCAGT
1 TTCAAACTCTTGTGGTCAGT
21690125 AAAGATATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.20, C:0.20, G:0.15, T:0.45
Consensus pattern (20 bp):
TTCAAACTCTTGTGGTCAGT
Found at i:21697931 original size:21 final size:20
Alignment explanation
Indices: 21697884--21697931 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
21697874 ATGATAGCTT
* * *
21697884 TTTTTGTTTTATTAATTTAC
1 TTTTTATTTTACTAAATTAC
*
21697904 TTATTATTTTACTAAATTACC
1 TTTTTATTTTACTAAATTA-C
21697925 TTTTTAT
1 TTTTTAT
21697932 CCTTATTAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.25, C:0.08, G:0.02, T:0.65
Consensus pattern (20 bp):
TTTTTATTTTACTAAATTAC
Found at i:21699724 original size:40 final size:40
Alignment explanation
Indices: 21699679--21699846 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
21699669 CGGAATATAA
21699679 CCGGATATAACTACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACTAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
21699719 CCGGATAGAA-TGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACT-ACTAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
21699759 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACTACTAGCACAAATGCCTTCGGGTCTTAGC
* * * * * * *
21699799 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACTACTAGCACAAATGCCTTCGGGTCTTAGC
21699839 CCGGATAT
1 CCGGATAT
21699847 CATTCAATTT
Statistics
Matches: 103, Mismatches: 22, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
39 2 0.02
40 101 0.98
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.27
Consensus pattern (40 bp):
CCGGATATAACTACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:21699829 original size:80 final size:80
Alignment explanation
Indices: 21699695--21699844 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
21699685 ATAACTACGT
* *
21699695 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
21699760 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * * *
21699775 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGGCTTAG
21699838 CCCGGAT
64 CCCGGAT
21699845 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 3 0.05
80 58 0.95
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:21709998 original size:40 final size:40
Alignment explanation
Indices: 21709936--21710189 Score: 349
Period size: 40 Copynumber: 6.4 Consensus size: 40
21709926 AAACCAAGTA
* * *
21709936 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
**
21709975 CCTTCGGGACTTAGCCCGGATATAGTAGTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
21710015 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
21710055 CCTTCGGGACTTAGCCCGGA-ATTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* * *
21710095 CCTTCGGGACTTAGCCCGAAT-TAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
21710134 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
21710174 CCTTC-GGACTTAGCCC
1 CCTTCGGGACTTAGCCC
21710190 CGTTATCATC
Statistics
Matches: 198, Mismatches: 11, Indels: 12
0.90 0.05 0.05
Matches are distributed among these distances:
39 60 0.30
40 138 0.70
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:21713464 original size:16 final size:17
Alignment explanation
Indices: 21713439--21713471 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
21713429 AAATTGATAG
21713439 TTTTTCTTAATTTGGTA
1 TTTTTCTTAATTTGGTA
21713456 TTTTT-TTAATTTGGTA
1 TTTTTCTTAATTTGGTA
21713472 CCTGAGCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.18, C:0.03, G:0.12, T:0.67
Consensus pattern (17 bp):
TTTTTCTTAATTTGGTA
Found at i:21714460 original size:27 final size:27
Alignment explanation
Indices: 21714424--21714487 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 27
21714414 GTCTTTGAAT
21714424 TTTGATGAAATGAGCTATTTG-GGG-CTAA
1 TTTG-TGAAATGAG-T-TTTGAGGGACTAA
21714452 TTTGTGAAAATGAGTTTTGAGGGACTAA
1 TTTGTG-AAATGAGTTTTGAGGGACTAA
*
21714480 ATTGTGAA
1 TTTGTGAA
21714488 TTAAATATGT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
26 4 0.12
27 8 0.25
28 20 0.62
ACGTcount: A:0.31, C:0.05, G:0.28, T:0.36
Consensus pattern (27 bp):
TTTGTGAAATGAGTTTTGAGGGACTAA
Found at i:21714462 original size:28 final size:28
Alignment explanation
Indices: 21714431--21714487 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
21714421 AATTTTGATG
*
21714431 AAATGAGCTATTTG-GGG-CTAATTTGTGA
1 AAATGAG-T-TTTGAGGGACTAAATTGTGA
21714459 AAATGAGTTTTGAGGGACTAAATTGTGA
1 AAATGAGTTTTGAGGGACTAAATTGTGA
21714487 A
1 A
21714488 TTAAATATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 4 0.15
27 4 0.15
28 18 0.69
ACGTcount: A:0.33, C:0.05, G:0.28, T:0.33
Consensus pattern (28 bp):
AAATGAGTTTTGAGGGACTAAATTGTGA
Found at i:21716621 original size:25 final size:24
Alignment explanation
Indices: 21716546--21716625 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 24
21716536 TTCGGGACTT
*
21716546 ATCACATTTATACACTTTCACATCC
1 ATCACA-TTATACACTTTCACATTC
** * *
21716571 ATCACATTAGCCAC--TCGGCCTT-
1 ATCACATTATACACTTTC-ACATTC
21716593 ATCACATATATACACTTTCACATTC
1 ATCACAT-TATACACTTTCACATTC
21716618 ATCACATT
1 ATCACATT
21716626 GGCCATTAGG
Statistics
Matches: 41, Mismatches: 9, Indels: 11
0.67 0.15 0.18
Matches are distributed among these distances:
22 9 0.22
23 7 0.17
24 10 0.24
25 15 0.37
ACGTcount: A:0.31, C:0.31, G:0.04, T:0.34
Consensus pattern (24 bp):
ATCACATTATACACTTTCACATTC
Found at i:21716670 original size:49 final size:49
Alignment explanation
Indices: 21716543--21716847 Score: 501
Period size: 49 Copynumber: 6.3 Consensus size: 49
21716533 CCCTTCGGGA
* * ** * *
21716543 CTTATCACAT-T-TATACACTTTCACATCCATCACATTAGCCACTCGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
*
21716590 CTTATCACATATAT--ACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
*
21716637 CTTATCACATATATACACACTTTCACATTCATCATATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
21716686 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
21716735 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
*
21716784 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
21716833 CTTATCACATATATA
1 CTTATCACATATATA
21716848 TATATATCTC
Statistics
Matches: 246, Mismatches: 8, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
47 53 0.22
48 1 0.00
49 192 0.78
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:21723898 original size:54 final size:54
Alignment explanation
Indices: 21723840--21723970 Score: 190
Period size: 54 Copynumber: 2.4 Consensus size: 54
21723830 ATTACCAAAG
* *
21723840 TACCCTCAATTTATAGAATTACTGTTTTACCATCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACTGTTTTACCATCGATTTACAGAATTACCATTT
* * * *
21723894 TACCCTTGATTTATAGAATTACTGTTTTACCTTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTATAGAATTACTGTTTTACCATCGATTTACAGAATTACCATTT
* *
21723948 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTATAGAATTACT
21723971 AAAATACCTT
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 68 1.00
ACGTcount: A:0.30, C:0.19, G:0.08, T:0.43
Consensus pattern (54 bp):
TACCCTCGATTTATAGAATTACTGTTTTACCATCGATTTACAGAATTACCATTT
Found at i:21723971 original size:27 final size:27
Alignment explanation
Indices: 21723840--21723970 Score: 172
Period size: 27 Copynumber: 4.9 Consensus size: 27
21723830 ATTACCAAAG
* *
21723840 TACCCTCAATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
21723867 TACCATCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
21723894 TACCCTTGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * *
21723921 TACCTTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
21723948 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTACAGAATTACT
21723971 AAAATACCTT
Statistics
Matches: 90, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 90 1.00
ACGTcount: A:0.30, C:0.19, G:0.08, T:0.43
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:21723978 original size:27 final size:27
Alignment explanation
Indices: 21723948--21724276 Score: 156
Period size: 27 Copynumber: 12.1 Consensus size: 27
21723938 ATTACTATTT
*
21723948 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* * * * *
21723975 TACCTTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* *
21724002 TACCCTCGA-TCAGTAAAATTACCAAAA
1 TACCCTCGATTTA-TAAAATTACTAAAA
* * * **
21724029 TACCCTAG-TCTGTAAAATTGGTAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* *
21724055 TACCC-CTGGTTTGTAAAATTAC-AGAAA
1 TACCCTC-GATTTATAAAATTACTA-AAA
* * *
21724082 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* * *
21724109 TACCCT-TAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTATAAAATTACTAAAA
* * *
21724136 TACCACT-GGTTTGTAAAATTA-TCGAAA
1 TACC-CTCGATTTATAAAATTACT-AAAA
* * *
21724163 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* *
21724190 TACCC-CTGATTTACAAAGTTAC-AGAAA
1 TACCCTC-GATTTATAAAATTACTA-AAA
* * *
21724217 TACCCTTGACTTTCTAAAAATTA-TGGAAA
1 TACCCTCGA-TTTAT-AAAATTACT-AAAA
* * * * *
21724246 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGATTTATAAAATTACTAAAA
21724273 TACC
1 TACC
21724277 ATTGGTTTGT
Statistics
Matches: 238, Mismatches: 44, Indels: 40
0.74 0.14 0.12
Matches are distributed among these distances:
26 25 0.11
27 186 0.78
28 11 0.05
29 16 0.07
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACTAAAA
Found at i:21723979 original size:54 final size:54
Alignment explanation
Indices: 21723874--21723998 Score: 151
Period size: 54 Copynumber: 2.3 Consensus size: 54
21723864 TTTTACCATC
* * * * ****
21723874 GATTTACAGAATTACCGTTTTACCCTTGATTTATAGAATTACTGTTTTACCTTT
1 GATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTAAAATACCTTT
*
21723928 GATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTACTAAAATACCTTT
1 GATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTAAAATACCTTT
* *
21723982 GGTTTACAAAATTACCA
1 GATTTACAGAATTACCA
21723999 AAATACCCTC
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 59 1.00
ACGTcount: A:0.33, C:0.18, G:0.09, T:0.41
Consensus pattern (54 bp):
GATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTAAAATACCTTT
Found at i:21723995 original size:81 final size:81
Alignment explanation
Indices: 21723848--21723996 Score: 181
Period size: 81 Copynumber: 1.8 Consensus size: 81
21723838 AGTACCCTCA
* * * **** * *
21723848 ATTTATAGAATTACTGTTTTACCATCGATTTACAGAATTACCGTTTTACCCTTGATTTATAGAAT
1 ATTTACAGAATTACTATTTTACCATCGATTTACAAAATTACCAAAATACCCTTGATTTACAAAAT
21723913 TACTGTTTTACCTTTG
66 TACTGTTTTACCTTTG
* * * *
21723929 ATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTACTAAAATACCTTTGGTTTACAAAAT
1 ATTTACAGAATTACTATTTTACCATCGATTTACAAAATTACCAAAATACCCTTGATTTACAAAAT
21723994 TAC
66 TAC
21723997 CAAAATACCC
Statistics
Matches: 55, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
81 55 1.00
ACGTcount: A:0.32, C:0.17, G:0.09, T:0.42
Consensus pattern (81 bp):
ATTTACAGAATTACTATTTTACCATCGATTTACAAAATTACCAAAATACCCTTGATTTACAAAAT
TACTGTTTTACCTTTG
Found at i:21724006 original size:54 final size:54
Alignment explanation
Indices: 21723948--21724299 Score: 219
Period size: 54 Copynumber: 6.5 Consensus size: 54
21723938 ATTACTATTT
** * *
21723948 TACCCTCGATTTACAAAATTACTAAAATACCTTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAATACCATTGGTTTACAAAATTACCAAAA
** * * * ** ***
21724002 TACCCTCGATCAGTAAAATTACCAAAATACC-CTAGTCTGTAAAATTGGTAAAA
1 TACCCTCGATTTGTAAAATTACCAAAATACCATTGGTTTACAAAATTACCAAAA
* * *** **
21724055 TACCC-CTGGTTTGTAAAATTA-CAGAAATACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTC-GATTTGTAAAATTACCA-AAATACCATTGGTTTACAAAATTACCAAAA
* * ** * *
21724109 TACCCT-TAGTTTGTAAAATTACCAAAATACCACTGGTTTGTAAAATTATCGAAA
1 TACCCTCGA-TTTGTAAAATTACCAAAATACCATTGGTTTACAAAATTACCAAAA
* ** * *
21724163 TACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAGTTA-CAGAAA
1 TACCCTCGATTTGTAAAATTACCAAAATACCATTGGTTTACAAAATTACCA-AAA
* * *** **
21724217 TACCCTTGACTTTCTAAAAATTATGGAAATACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGA-TTTGT-AAAATTACCAAAATACCATTGGTTTACAAAATTACCAAAA
* * * * *
21724273 TACCATTGGTTTGTAGATTTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
21724300 CACTCTTGTA
Statistics
Matches: 228, Mismatches: 59, Indels: 22
0.74 0.19 0.07
Matches are distributed among these distances:
52 3 0.01
53 38 0.17
54 139 0.61
55 11 0.05
56 37 0.16
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (54 bp):
TACCCTCGATTTGTAAAATTACCAAAATACCATTGGTTTACAAAATTACCAAAA
Found at i:21724033 original size:81 final size:80
Alignment explanation
Indices: 21723948--21724220 Score: 284
Period size: 81 Copynumber: 3.4 Consensus size: 80
21723938 ATTACTATTT
** ** * *
21723948 TACCCTCGATTTACAAAATTACTAAAATACCTTTGGTTTACAAAATTACCAAAATACCCTCGATC
1 TACCCTCGATTTACAAAATTACTAAAATACCACTGGTTTGTAAAATTA-CAAAATACCCTCAATT
*
21724013 AGTAAAATTACCAAAA
65 TGTAAAATTACCAAAA
* * ** ** *
21724029 TACCCTAG-TCTGTAAAATTGGTAAAATACCCCTGGTTTGTAAAATTACAGAAATACCCTCAATT
1 TACCCTCGATTTACAAAATTACTAAAATACCACTGGTTTGTAAAATTACA-AAATACCCTCAATT
21724093 TGTAAAATTACCAAAA
65 TGTAAAATTACCAAAA
* ** * *
21724109 TACCCT-TAGTTTGTAAAATTACCAAAATACCACTGGTTTGTAAAATTATCGAAATACCCTCAAT
1 TACCCTCGA-TTTACAAAATTACTAAAATACCACTGGTTTGTAAAATTA-CAAAATACCCTCAAT
21724173 TTGTAAAATTACCAAAA
64 TTGTAAAATTACCAAAA
*
21724190 TACCC-CTGATTTACAAAGTTAC-AGAAATACC
1 TACCCTC-GATTTACAAAATTACTA-AAATACC
21724221 CTTGACTTTC
Statistics
Matches: 161, Mismatches: 24, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
79 2 0.01
80 64 0.40
81 93 0.58
82 2 0.01
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.30
Consensus pattern (80 bp):
TACCCTCGATTTACAAAATTACTAAAATACCACTGGTTTGTAAAATTACAAAATACCCTCAATTT
GTAAAATTACCAAAA
Found at i:21724294 original size:27 final size:27
Alignment explanation
Indices: 21724233--21724284 Score: 88
Period size: 27 Copynumber: 1.9 Consensus size: 27
21724223 TGACTTTCTA
21724233 AAAATTA-TGGAAATACCATTGGTTTAC
1 AAAATTACT-GAAATACCATTGGTTTAC
21724260 AAAATTACTGAAATACCATTGGTTT
1 AAAATTACTGAAATACCATTGGTTT
21724285 GTAGATTTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
27 23 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (27 bp):
AAAATTACTGAAATACCATTGGTTTAC
Found at i:21724429 original size:27 final size:27
Alignment explanation
Indices: 21724338--21724429 Score: 116
Period size: 27 Copynumber: 3.4 Consensus size: 27
21724328 ACCCCTATTA
* *
21724338 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAT
*
21724365 GGTAAAGA-GACCGTAAAGCCCCTGTAA
1 GGTAAA-ATGACCGTAAAGCCCCTGTAT
*
21724392 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAT
21724419 GGTAAAATGAC
1 GGTAAAATGAC
21724430 GAATATGCCC
Statistics
Matches: 58, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
27 56 0.97
28 2 0.03
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.18
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAT
Found at i:21725308 original size:52 final size:51
Alignment explanation
Indices: 21725230--21725352 Score: 221
Period size: 52 Copynumber: 2.4 Consensus size: 51
21725220 GAGGAAGTGC
*
21725230 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCTCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCG
21725282 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
21725333 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
21725353 ATTAAAGAGG
Statistics
Matches: 70, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
50 10 0.14
51 24 0.34
52 36 0.51
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.28
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
Found at i:21725327 original size:25 final size:26
Alignment explanation
Indices: 21725230--21725352 Score: 187
Period size: 26 Copynumber: 4.8 Consensus size: 26
21725220 GAGGAAGTGC
**
21725230 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
21725256 AAAAGGGCTTATGCTCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
21725282 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
21725308 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
21725333 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
21725353 ATTAAAGAGG
Statistics
Matches: 89, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
25 33 0.37
26 56 0.63
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:21725556 original size:42 final size:42
Alignment explanation
Indices: 21725497--21725588 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
21725487 TAGTCTCCCC
** ** *
21725497 AAATGGGCTTGCATACATTTATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
21725539 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
21725581 AAATGGGC
1 AAATGGGC
21725589 CTAAGGGCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.36
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:21725689 original size:31 final size:31
Alignment explanation
Indices: 21725612--21725690 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
21725602 CGTTTACAGT
* *
21725612 AAAGGCTTTGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
21725643 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
21725674 AAAGGCTTCAGCCCAGT
1 AAAGGCTTCGGCCCAGT
21725691 AACCGTTAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:21727624 original size:27 final size:27
Alignment explanation
Indices: 21727588--21727651 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 27
21727578 GTCTTTGAAT
21727588 TTTGATGAAATGAGCTATTTG-GGG-CTAA
1 TTTG-TGAAATGAG-T-TTTGAGGGACTAA
21727616 TTTGTGAAAATGAGTTTTGAGGGACTAA
1 TTTGTG-AAATGAGTTTTGAGGGACTAA
*
21727644 ATTGTGAA
1 TTTGTGAA
21727652 TTAAATATGT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
26 4 0.12
27 8 0.25
28 20 0.62
ACGTcount: A:0.31, C:0.05, G:0.28, T:0.36
Consensus pattern (27 bp):
TTTGTGAAATGAGTTTTGAGGGACTAA
Found at i:21727626 original size:28 final size:28
Alignment explanation
Indices: 21727595--21727651 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
21727585 AATTTTGATG
*
21727595 AAATGAGCTATTTG-GGG-CTAATTTGTGA
1 AAATGAG-T-TTTGAGGGACTAAATTGTGA
21727623 AAATGAGTTTTGAGGGACTAAATTGTGA
1 AAATGAGTTTTGAGGGACTAAATTGTGA
21727651 A
1 A
21727652 TTAAATATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 4 0.15
27 4 0.15
28 18 0.69
ACGTcount: A:0.33, C:0.05, G:0.28, T:0.33
Consensus pattern (28 bp):
AAATGAGTTTTGAGGGACTAAATTGTGA
Found at i:21728230 original size:42 final size:43
Alignment explanation
Indices: 21728112--21728277 Score: 144
Period size: 43 Copynumber: 3.9 Consensus size: 43
21728102 GGAACATTGA
* * *
21728112 CATC-TATCTGAGATATCGTGTAAGACCATGTCTAGGACACAGG
1 CATCGTATCT-AGATTTCGTGTAAGACCATGTCTGGGACATAGG
* * *
21728155 CCTCG-AT-TGAGATTTACGTATAAGACCATGTCTGGGACATTGG
1 CATCGTATCT-AGATTT-CGTGTAAGACCATGTCTGGGACATAGG
* *
21728198 CATCGTATCT-GATTTCGTGTAAGACCCTGTCTGGGACAGAGG
1 CATCGTATCTAGATTTCGTGTAAGACCATGTCTGGGACATAGG
* * * * *
21728240 CATCGATAT-TAAATTACATGTAAGACCACGTCCGGGAC
1 CATCG-TATCTAGATTTCGTGTAAGACCATGTCTGGGAC
21728278 TTCGGCATTG
Statistics
Matches: 100, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
42 36 0.36
43 61 0.61
44 2 0.02
45 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (43 bp):
CATCGTATCTAGATTTCGTGTAAGACCATGTCTGGGACATAGG
Found at i:21728277 original size:85 final size:85
Alignment explanation
Indices: 21728105--21728285 Score: 197
Period size: 85 Copynumber: 2.1 Consensus size: 85
21728095 TTCTAAAGGA
* * *
21728105 ACATTGACATCTATCTGAGATATCGTGTAAGACCATGTCTAGGACACAGGCCTCGATTGAGATTT
1 ACATTGGCATCTATCT-AGATATCGTGTAAGACCATGTCTAGGACACAGGCATCGATTGAGAATT
* * *
21728170 ACGTATAAGACCATGTCTGGG
65 ACATATAAGACCACGTCCGGG
* * * * *
21728191 ACATTGGCATCGTATCT-GATTTCGTGTAAGACCCTGTCTGGGACAGAGGCATCGATATTA-AAT
1 ACATTGGCATC-TATCTAGATATCGTGTAAGACCATGTCTAGGACACAGGCATCGAT-TGAGAAT
*
21728254 TACATGTAAGACCACGTCCGGG
64 TACATATAAGACCACGTCCGGG
21728276 AC-TTCGGCAT
1 ACATT-GGCAT
21728286 TGTACTCGTG
Statistics
Matches: 80, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
84 2 0.03
85 61 0.76
86 12 0.15
87 5 0.06
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.28
Consensus pattern (85 bp):
ACATTGGCATCTATCTAGATATCGTGTAAGACCATGTCTAGGACACAGGCATCGATTGAGAATTA
CATATAAGACCACGTCCGGG
Found at i:21730831 original size:30 final size:29
Alignment explanation
Indices: 21730767--21730837 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 29
21730757 ATTTTACTGA
*
21730767 TATTTA-AAATATAAAATTTTAATAATGT
1 TATTTATAATTATAAAATTTTAATAATGT
*
21730795 TATTTATATTTATAAATATTTTAATTAAT-T
1 TATTTATAATTATAAA-ATTTTAA-TAATGT
21730825 GT-TTTATAATTAT
1 -TATTTATAATTAT
21730838 TTAAATTATT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
28 6 0.17
29 7 0.19
30 18 0.50
31 5 0.14
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (29 bp):
TATTTATAATTATAAAATTTTAATAATGT
Found at i:21734412 original size:18 final size:18
Alignment explanation
Indices: 21734391--21734442 Score: 86
Period size: 18 Copynumber: 2.9 Consensus size: 18
21734381 AAAATGTGGG
*
21734391 AAATGATGTTCACATTTT
1 AAATGATGTTCACATTTC
*
21734409 AAATGATGTTCAGATTTC
1 AAATGATGTTCACATTTC
21734427 AAATGATGTTCACATT
1 AAATGATGTTCACATT
21734443 GATAGAAACG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.40
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:21734962 original size:72 final size:72
Alignment explanation
Indices: 21734867--21735130 Score: 372
Period size: 72 Copynumber: 3.7 Consensus size: 72
21734857 CAATGCTAAA
* *
21734867 CTAGTTTTATCAATTGTTATTTATATTTGGTTTTTGGATATTAAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATATTTGGTTTTTGGATATTAAATTTATGTTCTACTTATTTAT
21734932 GTGTAAT
66 GTGTAAT
* * * * *
21734939 CTAGTTTTATCAATGGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATATTTTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATATTTGGTTTTTGGATATTAAATTTATGTTCTACTTATTTAT
21735004 GTGTAAT
66 GTGTAAT
* *
21735011 CTAGTTTTATCAATAGTTGTTTATGTTTGATTTTTGGATATTAAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATATTTGGTTTTTGGATATTAAATTTATGTTCTACTTATTTAT
* *
21735076 ACT-AAAT
66 -GTGTAAT
* * *
21735083 -TAGTTTTATCAATAGTTGTTTATATAT-GATTTTGGATATAAAATTTAT
1 CTAGTTTTATCAATAGTTGTTTATATTTGGTTTTTGGATATTAAATTTAT
21735131 TCACAGGTGA
Statistics
Matches: 173, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
70 18 0.10
71 25 0.14
72 129 0.75
73 1 0.01
ACGTcount: A:0.27, C:0.05, G:0.13, T:0.55
Consensus pattern (72 bp):
CTAGTTTTATCAATAGTTGTTTATATTTGGTTTTTGGATATTAAATTTATGTTCTACTTATTTAT
GTGTAAT
Found at i:21736902 original size:19 final size:19
Alignment explanation
Indices: 21736874--21736917 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
21736864 TAATGATTAT
21736874 ATTTAAATATT-TAAATATA
1 ATTTAAATATTCTAAATA-A
* *
21736893 ATTTATATATTCTAATTAA
1 ATTTAAATATTCTAAATAA
21736912 ATTTAA
1 ATTTAA
21736918 TAAATAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (19 bp):
ATTTAAATATTCTAAATAA
Found at i:21738010 original size:42 final size:42
Alignment explanation
Indices: 21737951--21738103 Score: 279
Period size: 42 Copynumber: 3.6 Consensus size: 42
21737941 TTTTCTCAAA
21737951 TCACCGGCATTTCGCCTGCTAGGCTCGAGGCCTGATATCAGT
1 TCACCGGCATTTCGCCTGCTAGGCTCGAGGCCTGATATCAGT
21737993 TCACCGGCATTTCGCCTGCTAGGCTCGAGGCCTGATATCAGT
1 TCACCGGCATTTCGCCTGCTAGGCTCGAGGCCTGATATCAGT
*
21738035 TCACCGGCATTTCGCCTGCTAGGCTCGAGGCCCGATATCAGT
1 TCACCGGCATTTCGCCTGCTAGGCTCGAGGCCTGATATCAGT
*
21738077 TCACCGGCATTATAGCCTGCTAGGCTC
1 TCACCGGCATT-TCGCCTGCTAGGCTC
21738104 AAAGGCTCGA
Statistics
Matches: 108, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
42 94 0.87
43 14 0.13
ACGTcount: A:0.17, C:0.32, G:0.25, T:0.25
Consensus pattern (42 bp):
TCACCGGCATTTCGCCTGCTAGGCTCGAGGCCTGATATCAGT
Found at i:21738495 original size:43 final size:43
Alignment explanation
Indices: 21738447--21738570 Score: 189
Period size: 43 Copynumber: 2.9 Consensus size: 43
21738437 CCGGCATTAC
* *
21738447 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGTACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGAA
*
21738490 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGAA
* *
21738533 GCCTGCTAGGCACGAAGGCTCGAATATA-AT-ACCAGCAC
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCAC
21738571 TAGGCCTACG
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
41 8 0.11
42 2 0.03
43 66 0.87
ACGTcount: A:0.31, C:0.32, G:0.23, T:0.13
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGAA
Found at i:21741376 original size:18 final size:18
Alignment explanation
Indices: 21741353--21741389 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
21741343 AACAAATGCC
21741353 TTGAAGTTGAAATCTAAT
1 TTGAAGTTGAAATCTAAT
*
21741371 TTGAAGTTGGAATCTAAT
1 TTGAAGTTGAAATCTAAT
21741389 T
1 T
21741390 CAACTTCTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.35, C:0.05, G:0.19, T:0.41
Consensus pattern (18 bp):
TTGAAGTTGAAATCTAAT
Found at i:21745697 original size:41 final size:41
Alignment explanation
Indices: 21745608--21745697 Score: 148
Period size: 40 Copynumber: 2.2 Consensus size: 41
21745598 TCGACGAAGG
21745608 AGAAAAAAATTACAACAAAACTCTATTCTAAAGAAAATAAA
1 AGAAAAAAATTACAACAAAACTCTATTCTAAAGAAAATAAA
*
21745649 AG-AAAAAATCTACAACAAAA-TCTATTCTAACGAAAATAAA
1 AGAAAAAAAT-TACAACAAAACTCTATTCTAAAGAAAATAAA
21745689 AGAAAAAAA
1 AGAAAAAAA
21745698 AAACCTAATC
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
40 28 0.61
41 18 0.39
ACGTcount: A:0.64, C:0.12, G:0.06, T:0.18
Consensus pattern (41 bp):
AGAAAAAAATTACAACAAAACTCTATTCTAAAGAAAATAAA
Found at i:21748495 original size:110 final size:108
Alignment explanation
Indices: 21748350--21748643 Score: 419
Period size: 108 Copynumber: 2.7 Consensus size: 108
21748340 TTTGACCAGC
* * * *
21748350 TCACAATGCTGCTCACACAAGCTGTAGAGAATCTGCAACAGATGTACGATCTCAAGCCATCGTTA
1 TCACGATGCTGCTCACACAAGCTGTAGAGAATCTGCAACAGATGCAGGATCTC-AGCCATTGTTA
* *
21748415 CAGTCTGTATCACCAGTATAT-GATACCTACTAAATAATCATCGGG
65 CGGTCTGTATCACCAGTATATAG-TACCTAC-AAATAATCATCAGG
* * * *
21748460 TCACGATGCTGCTCACACAAGTTGTAGAGAATCTGCAACAGATGCAGGATCTTAGCCATTTTTAT
1 TCACGATGCTGCTCACACAAGCTGTAGAGAATCTGCAACAGATGCAGGATCTCAGCCATTGTTAC
* * **
21748525 GGTTTATATCACGGGTATATAGTACCTACAAATAATCATCAGG
66 GGTCTGTATCACCAGTATATAGTACCTACAAATAATCATCAGG
*
21748568 TCACGATGCTGCTCACACAAGCTGTAGAGAATCTGCAACAGATGCAGGATCTCAGCCATTGCTAC
1 TCACGATGCTGCTCACACAAGCTGTAGAGAATCTGCAACAGATGCAGGATCTCAGCCATTGTTAC
21748633 GGTCTGTATCA
66 GGTCTGTATCA
21748644 TTGGCTCAGA
Statistics
Matches: 162, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
108 82 0.51
109 31 0.19
110 49 0.30
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (108 bp):
TCACGATGCTGCTCACACAAGCTGTAGAGAATCTGCAACAGATGCAGGATCTCAGCCATTGTTAC
GGTCTGTATCACCAGTATATAGTACCTACAAATAATCATCAGG
Found at i:21749797 original size:13 final size:13
Alignment explanation
Indices: 21749779--21749805 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
21749769 GCTTGGCAGG
21749779 GACACGCCCGTGT
1 GACACGCCCGTGT
21749792 GACACGCCCGTGT
1 GACACGCCCGTGT
21749805 G
1 G
21749806 CGATTACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:21765207 original size:40 final size:40
Alignment explanation
Indices: 21765141--21765241 Score: 121
Period size: 40 Copynumber: 2.5 Consensus size: 40
21765131 CGAATGTGTG
* * * * * *
21765141 ATCAGGGGAACCAAAGTGCAAACAGGGGTACAGACGTGCA
1 ATCAGGGGTACCGAAGTACAACCAGGGGCACAGAAGTGCA
* * *
21765181 TTCAGGGGTACCGGAGTACAACCAGGGGCACATAAGTGCA
1 ATCAGGGGTACCGAAGTACAACCAGGGGCACAGAAGTGCA
21765221 ATCAGGGGTACCGAAGTACAA
1 ATCAGGGGTACCGAAGTACAA
21765242 GCAGAGACAT
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.35, C:0.21, G:0.32, T:0.13
Consensus pattern (40 bp):
ATCAGGGGTACCGAAGTACAACCAGGGGCACAGAAGTGCA
Found at i:21765237 original size:20 final size:20
Alignment explanation
Indices: 21765141--21765237 Score: 86
Period size: 20 Copynumber: 4.8 Consensus size: 20
21765131 CGAATGTGTG
* *
21765141 ATCAGGGGAACCAAAGTGCA
1 ATCAGGGGTACCGAAGTGCA
* * *
21765161 AACAGGGGTACAGACGTGCA
1 ATCAGGGGTACCGAAGTGCA
* * *
21765181 TTCAGGGGTACCGGAGTACA
1 ATCAGGGGTACCGAAGTGCA
* * **
21765201 ACCAGGGGCACATAAGTGCA
1 ATCAGGGGTACCGAAGTGCA
21765221 ATCAGGGGTACCGAAGT
1 ATCAGGGGTACCGAAGT
21765238 ACAAGCAGAG
Statistics
Matches: 55, Mismatches: 22, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 55 1.00
ACGTcount: A:0.33, C:0.21, G:0.33, T:0.13
Consensus pattern (20 bp):
ATCAGGGGTACCGAAGTGCA
Found at i:21765257 original size:40 final size:40
Alignment explanation
Indices: 21765176--21765262 Score: 111
Period size: 40 Copynumber: 2.2 Consensus size: 40
21765166 GGGTACAGAC
* * * *
21765176 GTGCATTCAGGGGTACCGGAGTACAACCAGGGGCACATAA
1 GTGCAATCAGGGGTACCGAAGTACAACCAGAGACACATAA
* **
21765216 GTGCAATCAGGGGTACCGAAGTACAAGCAGAGACATGTAA
1 GTGCAATCAGGGGTACCGAAGTACAACCAGAGACACATAA
21765256 GTGCAAT
1 GTGCAAT
21765263 AATTCAATAA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.33, C:0.20, G:0.31, T:0.16
Consensus pattern (40 bp):
GTGCAATCAGGGGTACCGAAGTACAACCAGAGACACATAA
Found at i:21766027 original size:20 final size:20
Alignment explanation
Indices: 21765999--21766036 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
21765989 AACTATCATG
*
21765999 TTTTCTTTATGTTATTAACC
1 TTTTATTTATGTTATTAACC
*
21766019 TTTTATTTATTTTATTAA
1 TTTTATTTATGTTATTAA
21766037 TAAAATAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.08, G:0.03, T:0.66
Consensus pattern (20 bp):
TTTTATTTATGTTATTAACC
Found at i:21768165 original size:21 final size:21
Alignment explanation
Indices: 21768139--21768206 Score: 66
Period size: 21 Copynumber: 3.3 Consensus size: 21
21768129 AAAGTGTAAA
21768139 CAGGGGCACATATGTGCAATT
1 CAGGGGCACATATGTGCAATT
** * * *
21768160 CAGGGGCACCGAAGTACAA-A
1 CAGGGGCACATATGTGCAATT
* *
21768180 CAGGGGCACGTATGTGCTATT
1 CAGGGGCACATATGTGCAATT
21768201 CAGGGG
1 CAGGGG
21768207 TATCGAAGCA
Statistics
Matches: 35, Mismatches: 11, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
20 14 0.40
21 21 0.60
ACGTcount: A:0.28, C:0.21, G:0.34, T:0.18
Consensus pattern (21 bp):
CAGGGGCACATATGTGCAATT
Found at i:21768181 original size:41 final size:41
Alignment explanation
Indices: 21768136--21768241 Score: 160
Period size: 41 Copynumber: 2.6 Consensus size: 41
21768126 ACCAAAGTGT
* *
21768136 AAACAGGGGCACATATGTGCAATTCAGGGGCACCGAAGTAC
1 AAACAGGGGCACGTATGTGCAATTCAGGGGCACCGAAGCAC
* * *
21768177 AAACAGGGGCACGTATGTGCTATTCAGGGGTATCGAAGCAC
1 AAACAGGGGCACGTATGTGCAATTCAGGGGCACCGAAGCAC
21768218 AAACA-GGGCACGTATGTGCAATTC
1 AAACAGGGGCACGTATGTGCAATTC
21768242 GTAGAATAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 18 0.31
41 41 0.69
ACGTcount: A:0.32, C:0.21, G:0.29, T:0.18
Consensus pattern (41 bp):
AAACAGGGGCACGTATGTGCAATTCAGGGGCACCGAAGCAC
Found at i:21770452 original size:28 final size:27
Alignment explanation
Indices: 21770389--21770458 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
21770379 ATAGTGAGTC
21770389 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
21770416 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
21770444 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
21770459 GTACAAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:21777916 original size:19 final size:17
Alignment explanation
Indices: 21777892--21777934 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 17
21777882 TTTAATTAAA
21777892 TAAATATAATTATTATATG
1 TAAATATAATT-TTAT-TG
*
21777911 TAAATATAATTTTATTT
1 TAAATATAATTTTATTG
21777928 TAAATAT
1 TAAATAT
21777935 GATAATAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.35
18 4 0.17
19 11 0.48
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (17 bp):
TAAATATAATTTTATTG
Found at i:21778288 original size:6 final size:6
Alignment explanation
Indices: 21778267--21778309 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
21778257 AATTTAAATA
* *
21778267 TATAA- TATAA- TATAGT TATAGT TATAAT TATAAT TATAAT TAT
1 TATAAT TATAAT TATAAT TATAAT TATAAT TATAAT TATAAT TAT
21778310 TTTATTAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
5 9 0.26
6 26 0.74
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.49
Consensus pattern (6 bp):
TATAAT
Found at i:21778945 original size:25 final size:25
Alignment explanation
Indices: 21778917--21778971 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
21778907 TTTAATTAGT
*
21778917 AAATATATTTTTTAA-AAATTTTGAA
1 AAATATATTATTTAATAAATTTT-AA
21778942 AAATATATTATTTAATAAATTTTAA
1 AAATATATTATTTAATAAATTTTAA
21778967 AAATA
1 AAATA
21778972 AACACATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
25 21 0.75
26 7 0.25
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (25 bp):
AAATATATTATTTAATAAATTTTAA
Found at i:21780285 original size:25 final size:24
Alignment explanation
Indices: 21780256--21780316 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
21780246 TTTAATTAGT
** *
21780256 AAATATATATTTTTAAAAATTATAA
1 AAATATATATTTAAAAAAAGTA-AA
21780281 AAATATATTATTTAAAAAAAGTAAA
1 AAATATA-TATTTAAAAAAAGTAAA
*
21780306 AAATAAATATT
1 AAATATATATT
21780317 ACATCTTAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
24 4 0.13
25 15 0.48
26 12 0.39
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (24 bp):
AAATATATATTTAAAAAAAGTAAA
Found at i:21780286 original size:23 final size:25
Alignment explanation
Indices: 21780249--21780307 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 25
21780239 ATTCTTATTT
*
21780249 AATTAGTAAATATATATT-TTTAAA
1 AATTAGTAAAAATATATTATTTAAA
21780273 AATTA-TAAAAATATATTATTTAAA
1 AATTAGTAAAAATATATTATTTAAA
*
21780297 AA-AAGTAAAAA
1 AATTAGTAAAAA
21780308 ATAAATATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 12 0.39
24 19 0.61
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.37
Consensus pattern (25 bp):
AATTAGTAAAAATATATTATTTAAA
Found at i:21783032 original size:2 final size:2
Alignment explanation
Indices: 21783025--21783057 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
21783015 ATATTTTCAC
21783025 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
21783058 AAGTTAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:21789842 original size:21 final size:21
Alignment explanation
Indices: 21789795--21789842 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
21789785 TCCTAGGGTG
*
21789795 TAAATTGAATTCAATTGAATAT
1 TAAA-TGAATTAAATTGAATAT
*
21789817 GAAATGAATTAAATTG-ATGAT
1 TAAATGAATTAAATTGAAT-AT
21789838 TAAAT
1 TAAAT
21789843 TCATTTATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 2 0.09
21 17 0.77
22 3 0.14
ACGTcount: A:0.48, C:0.02, G:0.12, T:0.38
Consensus pattern (21 bp):
TAAATGAATTAAATTGAATAT
Found at i:21790918 original size:40 final size:40
Alignment explanation
Indices: 21790874--21791017 Score: 229
Period size: 40 Copynumber: 3.6 Consensus size: 40
21790864 GCTACTAGCT
*
21790874 CAAATGCCTTTGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
21790914 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
21790954 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
21790993 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
21791018 GTATCAATCC
Statistics
Matches: 98, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
38 1 0.01
39 34 0.35
40 63 0.64
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:21790994 original size:39 final size:40
Alignment explanation
Indices: 21790851--21791017 Score: 225
Period size: 40 Copynumber: 4.2 Consensus size: 40
21790841 CCTTCGGAGT
* * *
21790851 TTAG-CCGGATATAGCT-ACTAGCTCAAATGCCTTTGGGAC
1 TTAGCCCGGTTATAG-TAACTAGCACAAATGCCTTCGGGAC
*
21790890 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGTTATAGTAACTAGCACAAATGCCTTCGGGAC
*
21790930 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGG-C
1 TTAGCCCGGTTATAGTAACTAGCACAAATGCCTTCGGGAC
* *
21790969 TTAGCCCGG-AATTAGTCACTAGCACAAATGCCTTCGGGAC
1 TTAGCCCGGTTA-TAGTAACTAGCACAAATGCCTTCGGGAC
21791009 TTAGCCCGG
1 TTAGCCCGG
21791018 GTATCAATCC
Statistics
Matches: 117, Mismatches: 7, Indels: 7
0.89 0.05 0.05
Matches are distributed among these distances:
38 1 0.01
39 39 0.33
40 77 0.66
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGTTATAGTAACTAGCACAAATGCCTTCGGGAC
Found at i:21793722 original size:123 final size:123
Alignment explanation
Indices: 21793503--21794210 Score: 1344
Period size: 123 Copynumber: 5.8 Consensus size: 123
21793493 GAATTATGTG
21793503 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
21793568 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
21793626 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
21793691 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
21793749 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
21793814 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
21793872 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
21793937 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
21793995 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
*
21794060 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
* * * * *
21794118 AAATGAAATATGGATGTGTAATGATTATTGATTTATGTGTGCATGAGCAATTGAATGATACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
* *
21794183 GCTAAGTCCCGAAGACATTTATGCTAGT
66 GCTAAGTCCCGAAGGCAATTATGCTAGT
21794211 AATTATATCC
Statistics
Matches: 577, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
123 577 1.00
ACGTcount: A:0.30, C:0.10, G:0.26, T:0.34
Consensus pattern (123 bp):
AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
Found at i:21794234 original size:40 final size:40
Alignment explanation
Indices: 21794179--21794394 Score: 272
Period size: 40 Copynumber: 5.4 Consensus size: 40
21794169 TGAATGATAC
* * * * **
21794179 CCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* * * *
21794219 CCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGACTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTG-TTATAT
*
21794259 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* *
21794299 CTGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* * *
21794339 CCGGGATAATACCCGAAGGCATTTGTGCAAGTCGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
21794379 CCGGGCTAAGACCCGA
1 CCGGGCTAAGACCCGA
21794395 GGTCATTCGT
Statistics
Matches: 155, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
40 153 0.99
41 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
Found at i:21794417 original size:40 final size:39
Alignment explanation
Indices: 21794179--21794422 Score: 221
Period size: 40 Copynumber: 6.1 Consensus size: 39
21794169 TGAATGATAC
* * *
21794179 CCGGGCTAAGT-CCCGAAGACATTTATGC-TAGTAATTATAT
1 CCGGGCTAA-TACCCGAAGGCATTTGTGCGT-GT-GTTATAT
* * * *
21794219 CCGGGTTAAGACCCGAAGGCAATTGTGC-TAGTGACTATAT
1 CCGGGCTAATACCCGAAGGCATTTGTGCGT-GTG-TTATAT
21794259 CCGGGCTAATACCCGAAGGCATTTGTGCAAGT-TGTTATAT
1 CCGGGCTAATACCCGAAGGCATTTGTGC--GTGTGTTATAT
*
21794299 CTGGGCTAATACCCGAAGGCATTTGTGCAAGT-TGTTATAT
1 CCGGGCTAATACCCGAAGGCATTTGTGC--GTGTGTTATAT
* **
21794339 CCGGGATAATACCCGAAGGCATTTGTGCAAGTCGTTATAT
1 CCGGGCTAATACCCGAAGGCATTTGTGCGTGT-GTTATAT
* *
21794379 CCGGGCTAAGACCCG-AGGTCATTCGTGCGTGTGATTATAT
1 CCGGGCTAATACCCGAAGG-CATTTGTGCGTGTG-TTATAT
21794419 CCGG
1 CCGG
21794423 TTGTATTCCG
Statistics
Matches: 174, Mismatches: 21, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
39 5 0.03
40 166 0.95
41 2 0.01
43 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.28
Consensus pattern (39 bp):
CCGGGCTAATACCCGAAGGCATTTGTGCGTGTGTTATAT
Found at i:21794417 original size:80 final size:79
Alignment explanation
Indices: 21794190--21794422 Score: 276
Period size: 80 Copynumber: 2.9 Consensus size: 79
21794180 CGGGCTAAGT
* * * * * *
21794190 CCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAATTGTGC-TAGTGAC
1 CCCGAAGGCATTTGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGT-GTGAT
*
21794254 TATATCCGGGCTAATA
64 TATATCCGGGATAATA
* * *
21794270 CCCGAAGGCATTTGTGCAAGTTGTTATATCTGGGCTAATACCCGAAGGCATTTGTGCAAGT-TG-
1 CCCGAAGGCATTTGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCA-TTGTGC--GTGTGA
21794333 TTATATCCGGGATAATA
63 TTATATCCGGGATAATA
*
21794350 CCCGAAGGCATTTGTGCAAGTCGTTATATCCGGGCTAAGACCCG-AGGTCATTCGTGCGTGTGAT
1 CCCGAAGGCATTTGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CATT-GTGCGTGTGAT
21794414 TATATCCGG
64 TATATCCGG
21794423 TTGTATTCCG
Statistics
Matches: 132, Mismatches: 13, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
78 2 0.02
79 8 0.06
80 119 0.90
81 2 0.02
83 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (79 bp):
CCCGAAGGCATTTGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATTGTGCGTGTGATTA
TATCCGGGATAATA
Found at i:21794417 original size:120 final size:119
Alignment explanation
Indices: 21794181--21794419 Score: 288
Period size: 120 Copynumber: 2.0 Consensus size: 119
21794171 AATGATACCC
* *
21794181 GGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAATTGTG
1 GGGCTAAGTCCCGAAGACATTTATGCAAGTAATTATATCCGGGATAAGACCCGAAGGCAATTGTG
* * *
21794246 CTAGTGACTATATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATATCT
66 CAAGTGACTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTTGTTATATCT
* * ** * *
21794301 GGGCTAA-TACCCGAAGGCATTTGTGCAAGTTGTTATATCCGGGATAATACCCGAAGGCATTTGT
1 GGGCTAAGT-CCCGAAGACATTTATGCAAGTAATTATATCCGGGATAAGACCCGAAGGCAATTGT
*
21794365 GCAAGTCG-TTATATCCGGGCTAAGACCCG-AGGTCATTCGTGC-GTGTGATTATATC
65 GCAAGT-GACTATATCCGGGCTAAGACCCGAAGG-CATTCGTGCAGT-TG-TTATATC
21794420 CGGTTGTATT
Statistics
Matches: 102, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
118 2 0.02
119 6 0.06
120 93 0.91
121 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.29
Consensus pattern (119 bp):
GGGCTAAGTCCCGAAGACATTTATGCAAGTAATTATATCCGGGATAAGACCCGAAGGCAATTGTG
CAAGTGACTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTTGTTATATCT
Found at i:21801734 original size:123 final size:123
Alignment explanation
Indices: 21801515--21802222 Score: 1344
Period size: 123 Copynumber: 5.8 Consensus size: 123
21801505 GAATTATGTG
21801515 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
21801580 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
21801638 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
21801703 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
21801761 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
21801826 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
21801884 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
21801949 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
21802007 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
*
21802072 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
* * * * *
21802130 AAATGAAATATGGATGTGTAATGATTATTGATTTATGTGTGCATGAGCAATTGAATGATACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
* *
21802195 GCTAAGTCCCGAAGACATTTATGCTAGT
66 GCTAAGTCCCGAAGGCAATTATGCTAGT
21802223 AATTATATCC
Statistics
Matches: 577, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
123 577 1.00
ACGTcount: A:0.30, C:0.10, G:0.26, T:0.34
Consensus pattern (123 bp):
AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
Found at i:21802246 original size:40 final size:40
Alignment explanation
Indices: 21802191--21802406 Score: 272
Period size: 40 Copynumber: 5.4 Consensus size: 40
21802181 TGAATGATAC
* * * * **
21802191 CCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* * * *
21802231 CCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGACTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTG-TTATAT
*
21802271 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* *
21802311 CTGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* * *
21802351 CCGGGATAATACCCGAAGGCATTTGTGCAAGTCGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
21802391 CCGGGCTAAGACCCGA
1 CCGGGCTAAGACCCGA
21802407 GGTCATTCGT
Statistics
Matches: 155, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
40 153 0.99
41 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
Found at i:21802429 original size:40 final size:39
Alignment explanation
Indices: 21802191--21802434 Score: 221
Period size: 40 Copynumber: 6.1 Consensus size: 39
21802181 TGAATGATAC
* * *
21802191 CCGGGCTAAGT-CCCGAAGACATTTATGC-TAGTAATTATAT
1 CCGGGCTAA-TACCCGAAGGCATTTGTGCGT-GT-GTTATAT
* * * *
21802231 CCGGGTTAAGACCCGAAGGCAATTGTGC-TAGTGACTATAT
1 CCGGGCTAATACCCGAAGGCATTTGTGCGT-GTG-TTATAT
21802271 CCGGGCTAATACCCGAAGGCATTTGTGCAAGT-TGTTATAT
1 CCGGGCTAATACCCGAAGGCATTTGTGC--GTGTGTTATAT
*
21802311 CTGGGCTAATACCCGAAGGCATTTGTGCAAGT-TGTTATAT
1 CCGGGCTAATACCCGAAGGCATTTGTGC--GTGTGTTATAT
* **
21802351 CCGGGATAATACCCGAAGGCATTTGTGCAAGTCGTTATAT
1 CCGGGCTAATACCCGAAGGCATTTGTGCGTGT-GTTATAT
* *
21802391 CCGGGCTAAGACCCG-AGGTCATTCGTGCGTGTGATTATAT
1 CCGGGCTAATACCCGAAGG-CATTTGTGCGTGTG-TTATAT
21802431 CCGG
1 CCGG
21802435 TTGTATTCCG
Statistics
Matches: 174, Mismatches: 21, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
39 5 0.03
40 166 0.95
41 2 0.01
43 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.28
Consensus pattern (39 bp):
CCGGGCTAATACCCGAAGGCATTTGTGCGTGTGTTATAT
Found at i:21802429 original size:80 final size:79
Alignment explanation
Indices: 21802202--21802434 Score: 276
Period size: 80 Copynumber: 2.9 Consensus size: 79
21802192 CGGGCTAAGT
* * * * * *
21802202 CCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAATTGTGC-TAGTGAC
1 CCCGAAGGCATTTGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGT-GTGAT
*
21802266 TATATCCGGGCTAATA
64 TATATCCGGGATAATA
* * *
21802282 CCCGAAGGCATTTGTGCAAGTTGTTATATCTGGGCTAATACCCGAAGGCATTTGTGCAAGT-TG-
1 CCCGAAGGCATTTGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCA-TTGTGC--GTGTGA
21802345 TTATATCCGGGATAATA
63 TTATATCCGGGATAATA
*
21802362 CCCGAAGGCATTTGTGCAAGTCGTTATATCCGGGCTAAGACCCG-AGGTCATTCGTGCGTGTGAT
1 CCCGAAGGCATTTGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CATT-GTGCGTGTGAT
21802426 TATATCCGG
64 TATATCCGG
21802435 TTGTATTCCG
Statistics
Matches: 132, Mismatches: 13, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
78 2 0.02
79 8 0.06
80 119 0.90
81 2 0.02
83 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (79 bp):
CCCGAAGGCATTTGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATTGTGCGTGTGATTA
TATCCGGGATAATA
Found at i:21802429 original size:120 final size:119
Alignment explanation
Indices: 21802193--21802431 Score: 288
Period size: 120 Copynumber: 2.0 Consensus size: 119
21802183 AATGATACCC
* *
21802193 GGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAATTGTG
1 GGGCTAAGTCCCGAAGACATTTATGCAAGTAATTATATCCGGGATAAGACCCGAAGGCAATTGTG
* * *
21802258 CTAGTGACTATATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATATCT
66 CAAGTGACTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTTGTTATATCT
* * ** * *
21802313 GGGCTAA-TACCCGAAGGCATTTGTGCAAGTTGTTATATCCGGGATAATACCCGAAGGCATTTGT
1 GGGCTAAGT-CCCGAAGACATTTATGCAAGTAATTATATCCGGGATAAGACCCGAAGGCAATTGT
*
21802377 GCAAGTCG-TTATATCCGGGCTAAGACCCG-AGGTCATTCGTGC-GTGTGATTATATC
65 GCAAGT-GACTATATCCGGGCTAAGACCCGAAGG-CATTCGTGCAGT-TG-TTATATC
21802432 CGGTTGTATT
Statistics
Matches: 102, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
118 2 0.02
119 6 0.06
120 93 0.91
121 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.29
Consensus pattern (119 bp):
GGGCTAAGTCCCGAAGACATTTATGCAAGTAATTATATCCGGGATAAGACCCGAAGGCAATTGTG
CAAGTGACTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTTGTTATATCT
Found at i:21804917 original size:123 final size:123
Alignment explanation
Indices: 21804494--21805182 Score: 1263
Period size: 123 Copynumber: 5.6 Consensus size: 123
21804484 AGTCAGAGAT
21804494 TAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGGGCTAAGTCCCGAAGGCAA
1 TAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGGGCTAAGTCCCGAAGGCAA
21804559 TTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGAAAATGAAATATGGATGTG
66 TTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGAAAATGAAATATGGATGTG
21804617 TAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGGGCTAAGTCCCGAAGGCAA
1 TAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGGGCTAAGTCCCGAAGGCAA
*
21804682 TTATGCTAGTTATATG-TTGTGTTTGAGCCTTAGTAACGAAAATGAAATATGGATGTG
66 TTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGAAAATGAAATATGGATGTG
21804739 TAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGGGCTAAGTCCCGAAGGCAA
1 TAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGGGCTAAGTCCCGAAGGCAA
*
21804804 TTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGAAAATGAAATATGGATGTG
66 TTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGAAAATGAAATATGGATGTG
* *
21804862 TAATGATTATTGATATATGTGTGTATGAGTATTCGAATGGTACCCTGGCTAAGTCCCGAAGGCAA
1 TAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGGGCTAAGTCCCGAAGGCAA
21804927 TTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGAAAATGAAATATGGATGTG
66 TTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGAAAATGAAATATGGATGTG
21804985 TAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGGGCTAAGTCCCGAAGGCAA
1 TAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGGGCTAAGTCCCGAAGGCAA
*
21805050 TTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGAAAATGAAATATGGATGTG
66 TTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGAAAATGAAATATGGATGTG
* * * * * * *
21805108 TAATGATTATTGATTTATGTGTGCATGAGCAATTGAATGATACCCGGGCTAAGTCCCGAAGACAT
1 TAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGGGCTAAGTCCCGAAGGCAA
21805173 TTATGCTAGT
66 TTATGCTAGT
21805183 AATTATATCC
Statistics
Matches: 549, Mismatches: 16, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
122 121 0.22
123 428 0.78
ACGTcount: A:0.29, C:0.11, G:0.25, T:0.35
Consensus pattern (123 bp):
TAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGGGCTAAGTCCCGAAGGCAA
TTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGAAAATGAAATATGGATGTG
Found at i:21805206 original size:40 final size:40
Alignment explanation
Indices: 21805151--21805394 Score: 287
Period size: 40 Copynumber: 6.1 Consensus size: 40
21805141 TGAATGATAC
* * * * **
21805151 CCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* * * *
21805191 CCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGACTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTG-TTATAT
*
21805231 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* *
21805271 CCGGGCTAATACCCGAAGGCATTTGTGCATGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* *
21805311 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* *
21805351 CCGGGCTAAGACCCGAGGGCATTCGTGC--GTGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGT-TG-TTATAT
21805391 CCGG
1 CCGG
21805395 TTGTATTCCG
Statistics
Matches: 180, Mismatches: 20, Indels: 8
0.87 0.10 0.04
Matches are distributed among these distances:
38 2 0.01
39 1 0.01
40 175 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
Found at i:21811687 original size:24 final size:23
Alignment explanation
Indices: 21811631--21811755 Score: 137
Period size: 23 Copynumber: 5.3 Consensus size: 23
21811621 GAGTCATGAT
**
21811631 CAGTAAGCTCCTCCTGAGCTGATGAA
1 CAGTAAGCT-CTATTGAGCTGA--AA
21811657 CAGTAAGCTCTATTGAGCTGAAAA
1 CAGTAAGCTCTATTGAGCTG-AAA
21811681 CAGTAAGCTCTATTGAGCTG-AA
1 CAGTAAGCTCTATTGAGCTGAAA
*
21811703 CAGTAAGCTCT-TTCGAGCTGAAT
1 CAGTAAGCTCTATT-GAGCTGAAA
* * *
21811726 CAGTAAGCTCCAATGAGTTGAAA
1 CAGTAAGCTCTATTGAGCTGAAA
21811749 CAGTAAG
1 CAGTAAG
21811756 TTTTTACGAG
Statistics
Matches: 88, Mismatches: 7, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
21 2 0.02
22 19 0.22
23 25 0.28
24 23 0.26
25 9 0.10
26 10 0.11
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (23 bp):
CAGTAAGCTCTATTGAGCTGAAA
Found at i:21811707 original size:22 final size:22
Alignment explanation
Indices: 21811653--21811755 Score: 127
Period size: 24 Copynumber: 4.5 Consensus size: 22
21811643 CCTGAGCTGA
21811653 TGAACAGTAAGCTCTATTGAGC
1 TGAACAGTAAGCTCTATTGAGC
21811675 TGAAAACAGTAAGCTCTATTGAGC
1 TG--AACAGTAAGCTCTATTGAGC
21811699 TGAACAGTAAGCTCT-TTCGAGC
1 TGAACAGTAAGCTCTATT-GAGC
* * *
21811721 TGAATCAGTAAGCTCCAATGAGT
1 TGAA-CAGTAAGCTCTATTGAGC
21811744 TGAAACAGTAAG
1 TG-AACAGTAAG
21811756 TTTTTACGAG
Statistics
Matches: 72, Mismatches: 3, Indels: 11
0.84 0.03 0.13
Matches are distributed among these distances:
21 2 0.03
22 23 0.32
23 22 0.31
24 25 0.35
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.25
Consensus pattern (22 bp):
TGAACAGTAAGCTCTATTGAGC
Found at i:21813319 original size:48 final size:48
Alignment explanation
Indices: 21813235--21813496 Score: 202
Period size: 48 Copynumber: 5.5 Consensus size: 48
21813225 AGATGCCAAC
*
21813235 GCCATGTCCCAGACATGGTCTTACACT-GACTTTCATATACAAGGCCGAT
1 GCCATGTCCCAGACA-GGTCTTACACTAG-CTCTCATATACAAGGCCGAT
* * * *
21813284 GCCATGTCCCAGATAGGACTTACACTAGCTCTCATATATC-GGTGTCGAT
1 GCCATGTCCCAGACAGGTCTTACACTAGCTCTCATATA-CAAG-GCCGAT
** * * * * * *
21813333 GCCACATTCCAGACAGGTCTTACACTA--ACACACA-ACAA-GCTGAC
1 GCCATGTCCCAGACAGGTCTTACACTAGCTCTCATATACAAGGCCGAT
* * *
21813377 GCCATATCCCAGACAGGTCTTACACTAGCTCGT-ATATCGCGAGGCCGAT
1 GCCATGTCCCAGACAGGTCTTACACTAGCTC-TCATAT-ACAAGGCCGAT
* * * *
21813426 G-CATGTCCCAGACATGTCTTACACTAGCTCTCGTCT-CAATGCCGAT
1 GCCATGTCCCAGACAGGTCTTACACTAGCTCTCATATACAAGGCCGAT
* *
21813472 G-CATGTCTCAGACATGTCTTACACT
1 GCCATGTCCCAGACAGGTCTTACACT
21813497 GACTCTGATA
Statistics
Matches: 169, Mismatches: 33, Indels: 25
0.74 0.15 0.11
Matches are distributed among these distances:
44 28 0.17
45 1 0.01
46 36 0.21
47 5 0.03
48 51 0.30
49 48 0.28
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.25
Consensus pattern (48 bp):
GCCATGTCCCAGACAGGTCTTACACTAGCTCTCATATACAAGGCCGAT
Found at i:21813476 original size:46 final size:48
Alignment explanation
Indices: 21813383--21813496 Score: 151
Period size: 46 Copynumber: 2.4 Consensus size: 48
21813373 TGACGCCATA
* * *
21813383 TCCCAGACAGGTCTTACACTAGCTCGTATATCGCGAGGCCGATGCATG
1 TCCCAGACATGTCTTACACTAGCTCGTACATCGCAAGGCCGATGCATG
* * *
21813431 TCCCAGACATGTCTTACACTAGCTC-T-CGTCTCAATGCCGATGCATG
1 TCCCAGACATGTCTTACACTAGCTCGTACATCGCAAGGCCGATGCATG
*
21813477 TCTCAGACATGTCTTACACT
1 TCCCAGACATGTCTTACACT
21813497 GACTCTGATA
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
46 34 0.58
47 1 0.02
48 24 0.41
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (48 bp):
TCCCAGACATGTCTTACACTAGCTCGTACATCGCAAGGCCGATGCATG
Found at i:21813531 original size:46 final size:45
Alignment explanation
Indices: 21813420--21813534 Score: 121
Period size: 46 Copynumber: 2.5 Consensus size: 45
21813410 ATATCGCGAG
*
21813420 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAAT
1 GCCGATGCATGTCCTAGACATGTCTTACACTAGCTCTCGTCT-AAT
*
21813466 GCCGATGCATGT-CTCAGACATGTCTTACACT-GACTCT-GATACT-GT
1 GCCGATGCATGTCCT-AGACATGTCTTACACTAG-CTCTCG-T-CTAAT
*
21813511 GGCTGATGCATGTCCTAGACATGT
1 -GCCGATGCATGTCCTAGACATGT
21813535 ATTGCATTAG
Statistics
Matches: 60, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
45 4 0.07
46 52 0.87
47 4 0.07
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.30
Consensus pattern (45 bp):
GCCGATGCATGTCCTAGACATGTCTTACACTAGCTCTCGTCTAAT
Found at i:21815920 original size:40 final size:40
Alignment explanation
Indices: 21815861--21816052 Score: 188
Period size: 40 Copynumber: 4.8 Consensus size: 40
21815851 CAATTGAATG
* * *
21815861 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAATT
* * * *
21815901 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAATT
* * * **
21815941 ACATCCGGACTAAGACCCGAAGGCATTCGTG-TGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCT-AGTAATT
* * * * **
21815981 AAATCCGGGCTAATACCTGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAATT
* *
21816021 CTATCCGGGCTAAGACCCGAAGGCATTCGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
21816053 ATGTGGTTAT
Statistics
Matches: 123, Mismatches: 27, Indels: 4
0.80 0.18 0.03
Matches are distributed among these distances:
39 1 0.01
40 122 0.99
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAATT
Found at i:21822432 original size:6 final size:6
Alignment explanation
Indices: 21822406--21822445 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
21822396 TAAAGAAGAT
* *
21822406 AAATAA AGATAA AAGTAA AAATAA AAATAA TAAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA -AAATAA AAA
21822446 GTTCGTAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:21822432 original size:13 final size:14
Alignment explanation
Indices: 21822416--21822447 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
21822406 AAATAAAGAT
21822416 AAAAGTAA-AAATA
1 AAAAGTAATAAATA
21822429 AAAA-TAATAAATA
1 AAAAGTAATAAATA
21822442 AAAAGT
1 AAAAGT
21822448 TCGTAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.18
13 13 0.76
14 1 0.06
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (14 bp):
AAAAGTAATAAATA
Found at i:21833582 original size:49 final size:49
Alignment explanation
Indices: 21833479--21833602 Score: 135
Period size: 49 Copynumber: 2.5 Consensus size: 49
21833469 ATGTCAACGC
* * *
21833479 CATGTCCTAGACATGTTCTTACACTGGCTTTCATATAGCGAGGCTAATGG
1 CATGTCCTAGACA-GGTCTTACACTGGCTCTCATATAGCGAGGCTAATGA
* * *
21833529 CATGTCCTAGACAGGTCTTACACTGGCTCTCATCTATCG-GTG-TCGATGA
1 CATGTCCTAGACAGGTCTTACACTGGCTCTCATATAGCGAG-GCT-AATGA
* *
21833578 CATGTCCCAGACAAGTCTTACACTG
1 CATGTCCTAGACAGGTCTTACACTG
21833603 ACACACAACA
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
48 2 0.03
49 49 0.77
50 13 0.20
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (49 bp):
CATGTCCTAGACAGGTCTTACACTGGCTCTCATATAGCGAGGCTAATGA
Found at i:21833687 original size:15 final size:15
Alignment explanation
Indices: 21833667--21833699 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
21833657 CGCAAGGCCA
21833667 ATGCATGTCCCAAAC
1 ATGCATGTCCCAAAC
21833682 ATGCATGTCCCAAAC
1 ATGCATGTCCCAAAC
21833697 ATG
1 ATG
21833700 TCTTACACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.21
Consensus pattern (15 bp):
ATGCATGTCCCAAAC
Found at i:21833752 original size:46 final size:45
Alignment explanation
Indices: 21833682--21833851 Score: 175
Period size: 46 Copynumber: 3.7 Consensus size: 45
21833672 TGTCCCAAAC
* *
21833682 ATGCATGTCCCAAACATGTCTTACACTAGCTCTCGTCTCAATGCCG
1 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTC-ATGCCG
* * * *
21833728 ATGCATGTCCCAGACATGTATTACACTGGCT-TAAATATCTCGAGGCCG
1 ATGCATGTCCCAGACATGTCTTACACTAGCTCT---CATCTC-ATGCCG
* *
21833776 ATGCATGTCCCATACATGTCTTACAC-AGGCTCTCATACT-ATGGCTG
1 ATGCATGTCCCAGACATGTCTTACACTA-GCTCTCAT-CTCAT-GCCG
21833822 ATGCATGTCCCAGACATGTCTTACACTAGC
1 ATGCATGTCCCAGACATGTCTTACACTAGC
21833852 ACGCATATCA
Statistics
Matches: 102, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
45 2 0.02
46 60 0.59
47 3 0.03
48 36 0.35
49 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (45 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCATGCCG
Found at i:21833860 original size:94 final size:93
Alignment explanation
Indices: 21833682--21833853 Score: 231
Period size: 94 Copynumber: 1.8 Consensus size: 93
21833672 TGTCCCAAAC
*
21833682 ATGCATGTCCCAAACATGTCTTACACTAGCTCTCGTCTCAATGCCGATGCATGTCCCAGACATGT
1 ATGCATGTCCCAAACATGTCTTACACTAGCTCTCATCT-AATGCCGATGCATGTCCCAGACATGT
* **
21833747 ATTACACTGGCTTAAATATCTCGAGGCCG
65 ATTACACTAGCACAAATATCTCGAGGCCG
* *
21833776 ATGCATGTCCCATACATGTCTTACAC-AGGCTCTCATACT-ATGGCTGATGCATGTCCCAGACAT
1 ATGCATGTCCCAAACATGTCTTACACTA-GCTCTCAT-CTAAT-GCCGATGCATGTCCCAGACAT
*
21833839 GTCTTACACTAGCAC
63 GTATTACACTAGCAC
21833854 GCATATCACC
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
93 3 0.04
94 63 0.93
95 2 0.03
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (93 bp):
ATGCATGTCCCAAACATGTCTTACACTAGCTCTCATCTAATGCCGATGCATGTCCCAGACATGTA
TTACACTAGCACAAATATCTCGAGGCCG
Found at i:21836216 original size:39 final size:39
Alignment explanation
Indices: 21836173--21836301 Score: 197
Period size: 39 Copynumber: 3.3 Consensus size: 39
21836163 GGTCTTTAAC
* ** *
21836173 CCGGATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGT
1 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
* *
21836212 CCGGATATATTTCTAGCATATAGCCTGCGGATCTCATGT
1 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
21836251 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
21836290 CCGGATAT-TTTC
1 CCGGATATATTTC
21836302 AATCTCATAC
Statistics
Matches: 82, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
38 4 0.05
39 78 0.95
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (39 bp):
CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
Found at i:21844194 original size:39 final size:39
Alignment explanation
Indices: 21844140--21844268 Score: 170
Period size: 39 Copynumber: 3.3 Consensus size: 39
21844130 TACTAGTAAC
* ** **
21844140 CCGGATATTTTTCTAGCACGTAGCCTGCGGACCTCAAAT
1 CCGGATATATTTCTAGCATATAGCCTGCGGACCTCATGT
*
21844179 CCGGATATATTTCTAGCATATAGCCTGCGGATCTCATGT
1 CCGGATATATTTCTAGCATATAGCCTGCGGACCTCATGT
* * *
21844218 CTGGATATATTTCCAGCATATAGCCTACGGACCTCATGT
1 CCGGATATATTTCTAGCATATAGCCTGCGGACCTCATGT
21844257 CCGGATAT-TTTC
1 CCGGATATATTTC
21844269 AATCTCATAC
Statistics
Matches: 79, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
38 4 0.05
39 75 0.95
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (39 bp):
CCGGATATATTTCTAGCATATAGCCTGCGGACCTCATGT
Found at i:21846985 original size:40 final size:40
Alignment explanation
Indices: 21846920--21847163 Score: 294
Period size: 40 Copynumber: 6.1 Consensus size: 40
21846910 CGGAATACAA
* ** * * *
21846920 CCGGATATAACTACACGCACGAATGCCCTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
*
21846960 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
21847000 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
21847040 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
* * * * * *
21847080 CCGGATATAGTC-ACTAGCACAATTGCCTTCGAGTCTTAAC
1 CCGGATATA-ACAACTTGCACAAATGCCTTCGGGTATTAGC
** * * *
21847120 CCGGATATAATTACTAGCATAAATGTCTTCGGG-ACTTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTA-TTAGC
21847160 CCGG
1 CCGG
21847164 GTACAATTGC
Statistics
Matches: 180, Mismatches: 21, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
40 179 0.99
41 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
Done.