Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 163 of 199
Found at i:47782267 original size:25 final size:26
Alignment explanation
Indices: 47782225--47782276 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
47782215 AGTTATAAAT
* *
47782225 TAGAAAAATTTCTCTAGA-AATTTTC
1 TAGAAAAATCTCTCTAGAGAATATTC
* *
47782250 TAGAATAATCTCTTTAGAGAATATTC
1 TAGAAAAATCTCTCTAGAGAATATTC
47782276 T
1 T
47782277 CTCTACAACT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (26 bp):
TAGAAAAATCTCTCTAGAGAATATTC
Found at i:47787937 original size:12 final size:12
Alignment explanation
Indices: 47787922--47787954 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
47787912 TTCTTTTAAC
47787922 TTTTCTTTCTTT
1 TTTTCTTTCTTT
47787934 TTTTCTTT-TTT
1 TTTTCTTTCTTT
*
47787945 TTTTCATTCT
1 TTTTCTTTCT
47787955 CTTATGTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTCTTTCTTT
Found at i:47788501 original size:22 final size:22
Alignment explanation
Indices: 47788455--47788507 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
47788445 TTTTGAGCAA
*
47788455 TTTAATTTTTTCTTTTATGTTC
1 TTTAATTTTTTCTTTTATGTCC
47788477 TTTAACTTTCTTTCTTTT-T-TCC
1 TTTAA-TTT-TTTCTTTTATGTCC
47788499 TTT-ATTTTT
1 TTTAATTTTT
47788508 CATTCTCTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
19 2 0.07
20 3 0.11
21 1 0.04
22 10 0.36
23 4 0.14
24 8 0.29
ACGTcount: A:0.11, C:0.13, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTAATTTTTTCTTTTATGTCC
Found at i:47797536 original size:15 final size:15
Alignment explanation
Indices: 47797516--47797749 Score: 121
Period size: 15 Copynumber: 15.7 Consensus size: 15
47797506 CTTCATCCAA
* * *
47797516 AACCCTAGATGTGTG
1 AACCCTATATATGCG
47797531 AACCCTATATATGCG
1 AACCCTATATATGCG
* ** *
47797546 AACCCTAGATACACA
1 AACCCTATATATGCG
* ** *
47797561 AACCCTAGATACACA
1 AACCCTATATATGCG
* **
47797576 AACCCTATATGTGTA
1 AACCCTATATATGCG
*
47797591 AACCC-ATAGATGCG
1 AACCCTATATATGCG
* *
47797605 AACCCTATATGTGTG
1 AACCCTATATATGCG
*
47797620 AACCCTTTATATGCG
1 AACCCTATATATGCG
* *
47797635 AACCCTATATACGTG
1 AACCCTATATATGCG
* *
47797650 AACCCTATATGTG-T
1 AACCCTATATATGCG
* *
47797664 AGATCCTATATGTGCG
1 A-ACCCTATATATGCG
* *
47797680 AACCCTATACATGTG
1 AACCCTATATATGCG
* * *
47797695 AACCCTATGTGTGCA
1 AACCCTATATATGCG
* * ** *
47797710 AATCTTATACGTGCA
1 AACCCTATATATGCG
* *
47797725 AACCCTAAATATGCA
1 AACCCTATATATGCG
47797740 AACCCTATAT
1 AACCCTATAT
47797750 GCGTGAACCC
Statistics
Matches: 167, Mismatches: 49, Indels: 6
0.75 0.22 0.03
Matches are distributed among these distances:
14 11 0.07
15 155 0.93
16 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (15 bp):
AACCCTATATATGCG
Found at i:47797550 original size:30 final size:30
Alignment explanation
Indices: 47797516--47797707 Score: 154
Period size: 30 Copynumber: 6.4 Consensus size: 30
47797506 CTTCATCCAA
*
47797516 AACCCTAGATGTGTGAACCCTATATATGCG
1 AACCCTATATGTGTGAACCCTATATATGCG
* ***** * ** *
47797546 AACCCTAGATACACAAACCCTAGATACACA
1 AACCCTATATGTGTGAACCCTATATATGCG
* *
47797576 AACCCTATATGTGTAAACCC-ATAGATGCG
1 AACCCTATATGTGTGAACCCTATATATGCG
*
47797605 AACCCTATATGTGTGAACCCTTTATATGCG
1 AACCCTATATGTGTGAACCCTATATATGCG
** * *
47797635 AACCCTATATACGTGAACCCTATATGTG-T
1 AACCCTATATGTGTGAACCCTATATATGCG
* * * *
47797664 AGATCCTATATGTGCGAACCCTATACATGTG
1 A-ACCCTATATGTGTGAACCCTATATATGCG
*
47797695 AACCCTATGTGTG
1 AACCCTATATGTG
47797708 CAAATCTTAT
Statistics
Matches: 123, Mismatches: 36, Indels: 6
0.75 0.22 0.04
Matches are distributed among these distances:
29 24 0.20
30 98 0.80
31 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (30 bp):
AACCCTATATGTGTGAACCCTATATATGCG
Found at i:47797659 original size:45 final size:45
Alignment explanation
Indices: 47797604--47797707 Score: 138
Period size: 45 Copynumber: 2.3 Consensus size: 45
47797594 CCATAGATGC
* *
47797604 GAACCCTATATGTGT-GAACCCTTTATATGCGAACCCTATATACGT
1 GAACCCTATATGTGTAG-ACCCTATATATGCGAACCCTATACACGT
* * *
47797649 GAACCCTATATGTGTAGATCCTATATGTGCGAACCCTATACATGT
1 GAACCCTATATGTGTAGACCCTATATATGCGAACCCTATACACGT
*
47797694 GAACCCTATGTGTG
1 GAACCCTATATGTG
47797708 CAAATCTTAT
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
45 51 0.98
46 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (45 bp):
GAACCCTATATGTGTAGACCCTATATATGCGAACCCTATACACGT
Found at i:47807793 original size:31 final size:31
Alignment explanation
Indices: 47807731--47807794 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
47807721 ATGAACTTAT
* *
47807731 ATAAAATTTTGATTGTAATTTAAATATGTAC
1 ATAAAATTTTAATTGTAATTTAAATAAGTAC
* *
47807762 ATAAAATTTTAATTTTGATTT-AATCAAGTAC
1 ATAAAATTTTAATTGTAATTTAAAT-AAGTAC
47807793 AT
1 AT
47807795 TTAAACAAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 3 0.11
31 25 0.89
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.45
Consensus pattern (31 bp):
ATAAAATTTTAATTGTAATTTAAATAAGTAC
Found at i:47815097 original size:120 final size:120
Alignment explanation
Indices: 47814960--47815462 Score: 873
Period size: 120 Copynumber: 4.2 Consensus size: 120
47814950 TTTTCAAGTT
* *
47814960 ATATATTTAATAATAATTATGTTAATTTATATTTTGCAGTATCATGTATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
47815025 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATCATATAGTTTAATTAAA
*
47815080 ATATTTTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
47815145 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATCATATAGTTTAATTAAA
47815200 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
* * *
47815265 TAATATAAGAATATTAATTATTAATAATTTTATTAAATCAAATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATCATATAGTTTAATTAAA
* *
47815320 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAATT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
* * *
47815385 TAATATAAGAATATTAATTATTAAGAATTTTA-CAGTATCATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTA-AATCATATAGTTTAATTAAA
47815440 ATATATTTAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
47815463 TAAATATGAT
Statistics
Matches: 368, Mismatches: 14, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
119 1 0.00
120 367 1.00
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.48
Consensus pattern (120 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTATTAAATCATATAGTTTAATTAAA
Found at i:47815248 original size:43 final size:42
Alignment explanation
Indices: 47815200--47815369 Score: 108
Period size: 43 Copynumber: 4.2 Consensus size: 42
47815190 TTTAATTAAA
47815200 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATC
1 ATATATTTAATAATAATTATGTTAATTTATATTTTA-AGTATC
* * * *
47815243 ATATA-TT-ATGAT--TTGA-G-TAAATTA-A-TATAAGAAT-
1 ATATATTTAATAATAATT-ATGTTAATTTATATTTTAAGTATC
* * * * ** * **
47815277 AT-TAATTATTAATAATTTTATTAAATCAAATATTTTAATTAAA
1 ATATATTTAATAATAATTATGTT-AAT-TTATATTTTAAGTATC
47815320 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATC
1 ATATATTTAATAATAATTATGTTAATTTATATTTTA-AGTATC
47815363 ATATATT
1 ATATATT
47815370 ATGATTTCAG
Statistics
Matches: 89, Mismatches: 24, Indels: 28
0.63 0.17 0.20
Matches are distributed among these distances:
33 2 0.02
34 4 0.04
35 7 0.08
36 3 0.03
37 3 0.03
38 7 0.08
39 5 0.06
40 2 0.02
41 5 0.06
42 15 0.17
43 20 0.22
44 16 0.18
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.49
Consensus pattern (42 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTAAGTATC
Found at i:47815708 original size:45 final size:44
Alignment explanation
Indices: 47815627--47815711 Score: 109
Period size: 45 Copynumber: 1.9 Consensus size: 44
47815617 CCAAACACAA
* * * *
47815627 GATTACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTG
1 GATTACTATTACACCTCTAATCCAATACATGCAACCAAACAGTG
47815671 GATTAGCTATTACACCTCTAATCCAATACA-GCGAACCAAAC
1 GATTA-CTATTACACCTCTAATCCAATACATGC-AACCAAAC
47815712 GCACCCTAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
44 6 0.17
45 29 0.83
ACGTcount: A:0.35, C:0.28, G:0.09, T:0.27
Consensus pattern (44 bp):
GATTACTATTACACCTCTAATCCAATACATGCAACCAAACAGTG
Found at i:47826589 original size:18 final size:18
Alignment explanation
Indices: 47826566--47826607 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
47826556 TAAACGGATT
* *
47826566 AATTATTTATTTGTATTA
1 AATTATTAATTTATATTA
*
47826584 AATTATTAATTTATGTTA
1 AATTATTAATTTATATTA
47826602 AATTAT
1 AATTAT
47826608 AAAGTACAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (18 bp):
AATTATTAATTTATATTA
Found at i:47827267 original size:115 final size:112
Alignment explanation
Indices: 47827123--47827621 Score: 393
Period size: 113 Copynumber: 4.4 Consensus size: 112
47827113 GTTTATCCGT
* * * *
47827123 AAGCGCCGCAGAAAATGTTAAACAAAACGCAACGTACGAGCT-TTGAGGTATATTAAG-ATTAGT
1 AAGCGCCGCA-AATATCTTAACCAAAACGCAACGTTCG-G-TATTGAGGTATATTAAGAATTAGT
47827186 GGCGCTTATGCAAAAACGCCGCTAAAGCACAGTATTAGCGGCGC-ATCATACA
63 GGCGCTTATG-AAAAACGCCGCTAAAGCACAGTATTAGCGGCGCAAT-ATA-A
* *
47827238 TA-CTGCCGCAAACTATCTTAACCAAAACGC-A-G--C-G---TGAGGTGTATT-AGAATTAGTG
1 AAGC-GCCGCAAA-TATCTTAACCAAAACGCAACGTTCGGTATTGAGGTATATTAAGAATTAGTG
* * * *
47827293 GCGCTTATGAAAAAACACCGCTAGA-CACAGTATTTGCGGTGCAATATAA
64 GCGCTTATG-AAAAACGCCGCTAAAGCACAGTATTAGCGGCGCAATATAA
* * * * *
47827342 GAAGCGCCGCCAAATATCTTAACAAAAAACGTAGCGTTTTGGTATTGAGGTATA-TCAGAATTAG
1 -AAGCGCCG-CAAATATCTTAAC-CAAAACGCAACG-TTCGGTATTGAGGTATATTAAGAATTAG
* * *
47827406 TGGCGCTTAT-AGAAAACGCCGCTAAAGCATAGTATTAGCGGCGCTATGTAAA
62 TGGCGCTTATGA-AAAACGCCGCTAAAGCACAGTATTAGCGGCGCAATAT-AA
* * * ** * * * *
47827458 AAGCACCGCAAAATTTCTTAACTAAAACGCAGTGTTTGGTCTTCAGGCATATTAA-AATTAGTGG
1 AAGCGCCGC-AAATATCTTAACCAAAACGCAACGTTCGGTATTGAGGTATATTAAGAATTAGTGG
* * * *
47827522 CACTTATGAAAATCGCCGCTAAAGCACAGTATTAGCGGCGTAATAAAAA
65 CGCTTATGAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCAAT-ATAA
* * * * *
47827571 AAGCGCCGCAAAATATCTTAACCGAAACGCAGCGTTTGGTCTTTAGGTATA
1 AAGCGCCGC-AAATATCTTAACCAAAACGCAACGTTCGGTATTGAGGTATA
47827622 GAGCCAATAG
Statistics
Matches: 313, Mismatches: 46, Indels: 52
0.76 0.11 0.13
Matches are distributed among these distances:
104 1 0.00
105 34 0.11
106 52 0.17
108 1 0.00
109 1 0.00
111 1 0.00
112 1 0.00
113 108 0.35
114 30 0.10
115 82 0.26
116 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.24
Consensus pattern (112 bp):
AAGCGCCGCAAATATCTTAACCAAAACGCAACGTTCGGTATTGAGGTATATTAAGAATTAGTGGC
GCTTATGAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCAATATAA
Found at i:47828410 original size:21 final size:22
Alignment explanation
Indices: 47828362--47828404 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
47828352 TGGTGGTTGT
*
47828362 TGTTTGTGGTTTACGGGTTTAA
1 TGTTTATGGTTTACGGGTTTAA
47828384 TGTTTATGGTTTA-GGGTTTAA
1 TGTTTATGGTTTACGGGTTTAA
47828405 GATTTACGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.16, C:0.02, G:0.30, T:0.51
Consensus pattern (22 bp):
TGTTTATGGTTTACGGGTTTAA
Found at i:47828415 original size:21 final size:22
Alignment explanation
Indices: 47828369--47828415 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
47828359 TGTTGTTTGT
*
47828369 GGTTTACGGGTTTAATGTTTAT
1 GGTTTACGGGTTTAATGTTTAC
47828391 GGTTTA-GGGTTTAA-GATTTAC
1 GGTTTACGGGTTTAATG-TTTAC
47828412 GGTT
1 GGTT
47828416 AATTTTTATG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 1 0.04
21 16 0.70
22 6 0.26
ACGTcount: A:0.19, C:0.04, G:0.30, T:0.47
Consensus pattern (22 bp):
GGTTTACGGGTTTAATGTTTAC
Found at i:47828516 original size:14 final size:14
Alignment explanation
Indices: 47828499--47828558 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 14
47828489 CAGGGGTTAA
* *
47828499 GGTTTACGGTTTGG
1 GGTTTATGGTTTAG
*
47828513 GGTTTGTGGTTTAG
1 GGTTTATGGTTTAG
*
47828527 GGTTTATAGTTTAG
1 GGTTTATGGTTTAG
* *
47828541 GGTTTATGATTTAC
1 GGTTTATGGTTTAG
47828555 GGTT
1 GGTT
47828559 AAGGCTTATA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 38 1.00
ACGTcount: A:0.13, C:0.03, G:0.35, T:0.48
Consensus pattern (14 bp):
GGTTTATGGTTTAG
Found at i:47828704 original size:15 final size:16
Alignment explanation
Indices: 47828684--47828719 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
47828674 TATTTAAAAG
*
47828684 AATATAAATGTAAA-T
1 AATATAAATATAAATT
47828699 AATATAAATATAAATT
1 AATATAAATATAAATT
47828715 AATAT
1 AATAT
47828720 TTAAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (16 bp):
AATATAAATATAAATT
Found at i:47829748 original size:18 final size:18
Alignment explanation
Indices: 47829725--47829759 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
47829715 TTTCTAGGGT
*
47829725 TTGCCTCTGTCGATTACG
1 TTGCCTCTGCCGATTACG
47829743 TTGCCTCTGCCGATTAC
1 TTGCCTCTGCCGATTAC
47829760 TAAGGGCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.31, G:0.20, T:0.37
Consensus pattern (18 bp):
TTGCCTCTGCCGATTACG
Found at i:47830026 original size:12 final size:13
Alignment explanation
Indices: 47829994--47830040 Score: 87
Period size: 13 Copynumber: 3.7 Consensus size: 13
47829984 ATACAAATTG
47829994 CTGAATGAATTTT
1 CTGAATGAATTTT
47830007 CTGAATGAATTTT
1 CTGAATGAATTTT
47830020 C-GAATGAATTTT
1 CTGAATGAATTTT
47830032 CTGAATGAA
1 CTGAATGAA
47830041 GTTTATTTAG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.36
13 21 0.64
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (13 bp):
CTGAATGAATTTT
Found at i:47834096 original size:21 final size:21
Alignment explanation
Indices: 47834072--47834122 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
47834062 CTACAACTTA
*
47834072 AAGCAGAGGCAGCAACGAGGG
1 AAGCAGAGGCAGCAACGAGAG
* *
47834093 AAGCAGAGGCTGCAGCGAGAG
1 AAGCAGAGGCAGCAACGAGAG
47834114 AAGCAGAGG
1 AAGCAGAGG
47834123 TTCAAAAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.37, C:0.18, G:0.43, T:0.02
Consensus pattern (21 bp):
AAGCAGAGGCAGCAACGAGAG
Found at i:47834553 original size:42 final size:40
Alignment explanation
Indices: 47834494--47834661 Score: 183
Period size: 42 Copynumber: 4.1 Consensus size: 40
47834484 CAAAATTAGT
47834494 GGCGTTTTTATAAAAGCGCCGCTAAAGAACATGACCTTTAAC
1 GGCGTTTTT-T-AAAGCGCCGCTAAAGAACATGACCTTTAAC
*** *
47834536 GGCGTTTCCAAGAAAGCGCTGCTAAAGAACATGACCTTTAAC
1 GGCGTTT--TTTAAAGCGCCGCTAAAGAACATGACCTTTAAC
* * * * *
47834578 GGTGTTTTTTTTATGCGCCGCTAAAGAACATGATCTTTAGC
1 GGCG-TTTTTTAAAGCGCCGCTAAAGAACATGACCTTTAAC
* * *
47834619 GGTGTTTTTTTAAGCGCCGCTAAAGAACATGACCTTTAGC
1 GGCGTTTTTTAAAGCGCCGCTAAAGAACATGACCTTTAAC
47834659 GGC
1 GGC
47834662 ATTTATTTCT
Statistics
Matches: 107, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
40 36 0.34
41 29 0.27
42 39 0.36
43 3 0.03
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (40 bp):
GGCGTTTTTTAAAGCGCCGCTAAAGAACATGACCTTTAAC
Found at i:47834616 original size:41 final size:41
Alignment explanation
Indices: 47834507--47834656 Score: 194
Period size: 42 Copynumber: 3.7 Consensus size: 41
47834497 GTTTTTATAA
* *****
47834507 AAGCGCCGCTAAAGAACATGACCTTTAACGGCGTTTCCAAGA
1 AAGCGCCGCTAAAGAACATGACCTTTAACGGTGTTT-TTTTT
*
47834549 AAGCGCTGCTAAAGAACATGACCTTTAACGGTGTTTTTTTT
1 AAGCGCCGCTAAAGAACATGACCTTTAACGGTGTTTTTTTT
* * *
47834590 ATGCGCCGCTAAAGAACATGATCTTTAGCGGTG-TTTTTTT
1 AAGCGCCGCTAAAGAACATGACCTTTAACGGTGTTTTTTTT
47834630 AAGCGCCGCTAAAGAACATGACCTTTA
1 AAGCGCCGCTAAAGAACATGACCTTTA
47834657 GCGGCATTTA
Statistics
Matches: 95, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
40 32 0.34
41 29 0.31
42 34 0.36
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (41 bp):
AAGCGCCGCTAAAGAACATGACCTTTAACGGTGTTTTTTTT
Found at i:47834660 original size:40 final size:40
Alignment explanation
Indices: 47834507--47834656 Score: 192
Period size: 40 Copynumber: 3.7 Consensus size: 40
47834497 GTTTTTATAA
* ****
47834507 AAGCGCCGCTAAAGAACATGACCTTTAACGGCGTTTCCAAGA
1 AAGCGCCGCTAAAGAACATGACCTTTAACGGTGTTT--TTTT
*
47834549 AAGCGCTGCTAAAGAACATGACCTTTAACGGTGTTTTTTTT
1 AAGCGCCGCTAAAGAACATGACCTTTAACGGTG-TTTTTTT
* * *
47834590 ATGCGCCGCTAAAGAACATGATCTTTAGCGGTGTTTTTTT
1 AAGCGCCGCTAAAGAACATGACCTTTAACGGTGTTTTTTT
47834630 AAGCGCCGCTAAAGAACATGACCTTTA
1 AAGCGCCGCTAAAGAACATGACCTTTA
47834657 GCGGCATTTA
Statistics
Matches: 95, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
40 32 0.34
41 29 0.31
42 31 0.33
43 3 0.03
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (40 bp):
AAGCGCCGCTAAAGAACATGACCTTTAACGGTGTTTTTTT
Found at i:47835324 original size:28 final size:28
Alignment explanation
Indices: 47835284--47835341 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
47835274 TTTGCATCAC
47835284 CTATTCCAGGTAATTTGTTCATTATTTT
1 CTATTCCAGGTAATTTGTTCATTATTTT
47835312 CTATTCCAGGTAATTTGTTCATTATTTT
1 CTATTCCAGGTAATTTGTTCATTATTTT
47835340 CT
1 CT
47835342 CTTATTTTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.21, C:0.16, G:0.10, T:0.53
Consensus pattern (28 bp):
CTATTCCAGGTAATTTGTTCATTATTTT
Found at i:47836085 original size:22 final size:21
Alignment explanation
Indices: 47836060--47836111 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
47836050 TAGATATTCT
*
47836060 TAATATTAA-ATTACTAAAATCA
1 TAATATTAATACTA-TAAAAT-A
47836082 TAATATATAATACTATAAAATA
1 TAATAT-TAATACTATAAAATA
47836104 TAAT-TTAA
1 TAATATTAA
47836112 CATAATTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 3 0.11
21 1 0.04
22 11 0.41
23 9 0.33
24 3 0.11
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (21 bp):
TAATATTAATACTATAAAATA
Found at i:47836252 original size:122 final size:121
Alignment explanation
Indices: 47835987--47836278 Score: 505
Period size: 122 Copynumber: 2.4 Consensus size: 121
47835977 TAATCATATC
47835987 TTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTA
1 TTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTA
*
47836052 GATATTCTTAATATTAAATTACTAAAATCATAATATATAATACTATAAAATATAAT
66 GATATTCTTAATATGAAATTACTAAAATCATAATATATAATACTATAAAATATAAT
*
47836108 TTAACATAATTATTATTAAATATACTTTAATAAAAATATATAATTTAATAAAATTCTTAATATTA
1 TTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT-
* *
47836173 AATATATTCTT-ATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAAT
65 -AGATATTCTTAATATGAAATTACTAAAATCATAATATATAATACTATAAAATATAAT
* *
47836230 TTAAAATAATTTTTATTAAATATAATTTAATAAAAATATATAATTTAAT
1 TTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAAT
47836279 CTAAAGTTTT
Statistics
Matches: 162, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
121 63 0.39
122 90 0.56
123 9 0.06
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (121 bp):
TTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTA
GATATTCTTAATATGAAATTACTAAAATCATAATATATAATACTATAAAATATAAT
Found at i:47836432 original size:27 final size:28
Alignment explanation
Indices: 47836402--47836460 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 28
47836392 TAAATATAGT
*
47836402 AATG-AAGAATTTATAGTATACGATTAA
1 AATGCAAGAATTTATAGTATACAATTAA
*
47836429 AATGCTAATAATTTATAGTATACAATTAA
1 AATGC-AAGAATTTATAGTATACAATTAA
47836458 AAT
1 AAT
47836461 ATTATAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 4 0.14
29 24 0.86
ACGTcount: A:0.49, C:0.05, G:0.10, T:0.36
Consensus pattern (28 bp):
AATGCAAGAATTTATAGTATACAATTAA
Found at i:47843011 original size:62 final size:63
Alignment explanation
Indices: 47842935--47843062 Score: 224
Period size: 62 Copynumber: 2.0 Consensus size: 63
47842925 CTTCTGATCA
47842935 GTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAA-GA-ACAAGTGATAAGTG
1 GTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGGATA-AAGTGATAAGTG
47842997 GTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGATAAAGTGATAAGTG
1 GTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAG-GATAAAGTGATAAGTG
47843061 GT
1 GT
47843063 AGCATTAGCT
Statistics
Matches: 63, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
62 46 0.73
64 16 0.25
65 1 0.02
ACGTcount: A:0.34, C:0.10, G:0.25, T:0.30
Consensus pattern (63 bp):
GTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGGATAAAGTGATAAGTG
Found at i:47843062 original size:46 final size:46
Alignment explanation
Indices: 47842997--47843380 Score: 682
Period size: 46 Copynumber: 8.4 Consensus size: 46
47842987 GTGATAAGTG
*
47842997 GTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAA
1 GTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAA
47843043 GTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAA
1 GTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAA
* *
47843089 GTGATAAAGTGATAAGTGATAGCATTAGCTACACTTATCTTATCAA
1 GTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAA
*
47843135 GTGGTAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAA
1 GTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAA
*
47843181 GTGGTAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAA
1 GTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAA
47843227 GTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAA
1 GTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAA
*
47843273 GTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAA
1 GTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAA
47843319 GTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATC-A
1 GTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAA
* *
47843364 GGGA-CAAGTGATAAGTG
1 GTGATAAAGTGATAAGTG
47843381 ATCACAAGTA
Statistics
Matches: 327, Mismatches: 11, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
44 12 0.04
45 4 0.01
46 311 0.95
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (46 bp):
GTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAA
Found at i:47844712 original size:49 final size:49
Alignment explanation
Indices: 47844639--47844766 Score: 202
Period size: 49 Copynumber: 2.6 Consensus size: 49
47844629 ATGTGAACAT
*
47844639 GTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGATAA
* *
47844689 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATTGATAT
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGATAA
* *
47844738 GTGATTTGTGATTACGTGTAAGACCATAG
1 GTGATATGTGATTCCGTGTAAGACCATAG
47844767 TTAGACTATA
Statistics
Matches: 73, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
49 69 0.95
50 4 0.05
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.32
Consensus pattern (49 bp):
GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGATAA
Found at i:47845668 original size:24 final size:24
Alignment explanation
Indices: 47845637--47845774 Score: 108
Period size: 22 Copynumber: 6.0 Consensus size: 24
47845627 ACTAAAAATT
*
47845637 TTTG-ATTATAGGGACGAAAAAAA
1 TTTGAATTACAGGGACGAAAAAAA
*
47845660 TTTGAATTACAGGGA-GAAGAAAA
1 TTTGAATTACAGGGACGAAAAAAA
* * *
47845683 TTTGACTTACATGGAGGAAAAAAA
1 TTTGAATTACAGGGACGAAAAAAA
* * *
47845707 --TGAACTACATGGACAAAAAAAA
1 TTTGAATTACAGGGACGAAAAAAA
* * *
47845729 TTAGAATTATAGGGAC--CAAAAA
1 TTTGAATTACAGGGACGAAAAAAA
* * *
47845751 TTTAAATTACATGGACAAAAAAAA
1 TTTGAATTACAGGGACGAAAAAAA
47845775 GATGAAATAC
Statistics
Matches: 90, Mismatches: 19, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
22 35 0.39
23 24 0.27
24 31 0.34
ACGTcount: A:0.51, C:0.08, G:0.18, T:0.22
Consensus pattern (24 bp):
TTTGAATTACAGGGACGAAAAAAA
Found at i:47851723 original size:11 final size:11
Alignment explanation
Indices: 47851709--47851752 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
47851699 AGATAAATAT
47851709 TATTTTATTAA
1 TATTTTATTAA
*
47851720 TATTTTAATGAGA
1 TATTTT-ATTA-A
*
47851733 TATTTTATTAT
1 TATTTTATTAA
47851744 TATTTTATT
1 TATTTTATT
47851753 TAGTATAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
11 15 0.54
12 6 0.21
13 7 0.25
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.64
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:47853776 original size:33 final size:32
Alignment explanation
Indices: 47853731--47853891 Score: 124
Period size: 33 Copynumber: 4.8 Consensus size: 32
47853721 CAGTGTTTAT
47853731 ATGTAAGACCATAGCTGGGCTATGGCATTTTG
1 ATGTAAGACCATAGCTGGGCTATGGCATTTTG
* * * * * *
47853763 ATGATAAGACCATAACTGAGTTATGACACTATG
1 ATG-TAAGACCATAGCTGGGCTATGGCATTTTG
* * * * * * *
47853796 AACGTAAGACAATGGTTGGACCATGGCAGTGTTTAT
1 -ATGTAAGACCATAGCTGGGCTATGGCA-T-TTT-G
*
47853832 ATGTAAGACCATAGCTGAGCTATGGCATTTTG
1 ATGTAAGACCATAGCTGGGCTATGGCATTTTG
* *
47853864 ATGATAAGACCATAACTGGGTTATGGCA
1 ATG-TAAGACCATAGCTGGGCTATGGCA
47853892 CTACGAATGT
Statistics
Matches: 93, Mismatches: 30, Indels: 11
0.69 0.22 0.08
Matches are distributed among these distances:
32 6 0.06
33 62 0.67
34 3 0.03
35 22 0.24
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.29
Consensus pattern (32 bp):
ATGTAAGACCATAGCTGGGCTATGGCATTTTG
Found at i:47853840 original size:101 final size:101
Alignment explanation
Indices: 47853665--47853903 Score: 415
Period size: 101 Copynumber: 2.4 Consensus size: 101
47853655 GAATTGACGA
*
47853665 ATAAGACCATAACTGAGTTATGGCACTATGAACGTAAGACCATGGTTGAACCATGGCAGTGTTTA
1 ATAAGACCATAACTGAGTTATGGCACTATGAACGTAAGACAATGGTTGAACCATGGCAGTGTTTA
*
47853730 TATGTAAGACCATAGCTGGGCTATGGCATTTTGATG
66 TATGTAAGACCATAGCTGAGCTATGGCATTTTGATG
* *
47853766 ATAAGACCATAACTGAGTTATGACACTATGAACGTAAGACAATGGTTGGACCATGGCAGTGTTTA
1 ATAAGACCATAACTGAGTTATGGCACTATGAACGTAAGACAATGGTTGAACCATGGCAGTGTTTA
47853831 TATGTAAGACCATAGCTGAGCTATGGCATTTTGATG
66 TATGTAAGACCATAGCTGAGCTATGGCATTTTGATG
* * *
47853867 ATAAGACCATAACTGGGTTATGGCACTACGAATGTAA
1 ATAAGACCATAACTGAGTTATGGCACTATGAACGTAA
47853904 ATGATGAATT
Statistics
Matches: 130, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
101 130 1.00
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (101 bp):
ATAAGACCATAACTGAGTTATGGCACTATGAACGTAAGACAATGGTTGAACCATGGCAGTGTTTA
TATGTAAGACCATAGCTGAGCTATGGCATTTTGATG
Found at i:47853937 original size:24 final size:24
Alignment explanation
Indices: 47853897--47853947 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
47853887 TGGCACTACG
* *
47853897 AATGTAAATGATGAATTGACGGAA
1 AATGTAAAGGATAAATTGACGGAA
*
47853921 AATGTAAAGGATAAATTGACGGCA
1 AATGTAAAGGATAAATTGACGGAA
47853945 AAT
1 AAT
47853948 TACCCAAGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.47, C:0.06, G:0.24, T:0.24
Consensus pattern (24 bp):
AATGTAAAGGATAAATTGACGGAA
Found at i:47855070 original size:29 final size:29
Alignment explanation
Indices: 47855017--47855072 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
47855007 ATCTGAGTAA
* *
47855017 AAATGAATATAATGGATAAATAAATAAGT
1 AAATGAATATAATGAATAAACAAATAAGT
47855046 AAATGAATA-AATGAATCAAACAAATAA
1 AAATGAATATAATGAAT-AAACAAATAA
47855073 AATTATAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 6 0.25
29 18 0.75
ACGTcount: A:0.62, C:0.04, G:0.11, T:0.23
Consensus pattern (29 bp):
AAATGAATATAATGAATAAACAAATAAGT
Found at i:47855593 original size:3 final size:3
Alignment explanation
Indices: 47855585--47855646 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
47855575 AAGTAATTAA
47855585 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
47855633 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
47855647 AAAGATGATA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:47857526 original size:17 final size:17
Alignment explanation
Indices: 47857504--47857537 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
47857494 TTGTCAGAAA
47857504 TATATCACACTATCCAT
1 TATATCACACTATCCAT
47857521 TATATCACACTATCCAT
1 TATATCACACTATCCAT
47857538 CGGTTCTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.29, G:0.00, T:0.35
Consensus pattern (17 bp):
TATATCACACTATCCAT
Found at i:47857690 original size:23 final size:23
Alignment explanation
Indices: 47857646--47857690 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
47857636 CCACTTATTT
*
47857646 TGGCTTGTTTTGAATGTCTAATTA
1 TGGCTTG-TTTGAATGTATAATTA
47857670 TGGCTTG-TTGATATGTATAAT
1 TGGCTTGTTTGA-ATGTATAAT
47857691 GTTGATTGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.21
23 8 0.42
24 7 0.37
ACGTcount: A:0.22, C:0.07, G:0.22, T:0.49
Consensus pattern (23 bp):
TGGCTTGTTTGAATGTATAATTA
Found at i:47857898 original size:13 final size:13
Alignment explanation
Indices: 47857880--47857913 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
47857870 GCGCACAGGT
*
47857880 GTGTGACTTGGCC
1 GTGTGACCTGGCC
47857893 GTGTGACCTGGCC
1 GTGTGACCTGGCC
47857906 GTGTGACC
1 GTGTGACC
47857914 CAAGTCAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.09, C:0.26, G:0.38, T:0.26
Consensus pattern (13 bp):
GTGTGACCTGGCC
Found at i:47859751 original size:12 final size:11
Alignment explanation
Indices: 47859725--47859763 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
47859715 ATATCTGCTC
47859725 TTTTTCTTCAA
1 TTTTTCTTCAA
47859736 TTTTTCTTCAA
1 TTTTTCTTCAA
47859747 TTTTTTCTT--A
1 -TTTTTCTTCAA
47859757 TTTTTCT
1 TTTTTCT
47859764 CTCATTCTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 7 0.26
10 1 0.04
11 11 0.41
12 8 0.30
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.72
Consensus pattern (11 bp):
TTTTTCTTCAA
Found at i:47861893 original size:41 final size:41
Alignment explanation
Indices: 47861795--47861896 Score: 134
Period size: 41 Copynumber: 2.5 Consensus size: 41
47861785 GCTTAGCGCT
* *
47861795 TAGCAGGCTTATTGCCGATGAAACACTTCAGACTAAATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
* * *
47861836 TAGCAGGCTTAATGCCGGTGAAATATTTCAGACTATATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
*
47861877 TAGCATGC-TAAGTGCCGGTG
1 TAGCAGGCTTAA-TGCCGGTG
47861897 TACTGAATCA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
40 3 0.06
41 51 0.94
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (41 bp):
TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
Found at i:47869928 original size:22 final size:21
Alignment explanation
Indices: 47869898--47869940 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
47869888 CAAGACACAT
*
47869898 TATTGGTTGGCTTATTTGATGA
1 TATTGGTTGG-ATATTTGATGA
*
47869920 TATTTGTTGGATATTTGATGA
1 TATTGGTTGGATATTTGATGA
47869941 AAGAAGGTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.21, C:0.02, G:0.26, T:0.51
Consensus pattern (21 bp):
TATTGGTTGGATATTTGATGA
Found at i:47870312 original size:17 final size:17
Alignment explanation
Indices: 47870292--47870334 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
47870282 GAGTTTGCAA
*
47870292 TTTTGGTGAGCTCGCAG
1 TTTTGATGAGCTCGCAG
*
47870309 TTTTGATGAGATCGCAG
1 TTTTGATGAGCTCGCAG
47870326 TTTTGATGA
1 TTTTGATGA
47870335 ACTTGCAGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.19, C:0.12, G:0.30, T:0.40
Consensus pattern (17 bp):
TTTTGATGAGCTCGCAG
Found at i:47870342 original size:17 final size:17
Alignment explanation
Indices: 47870292--47870343 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
47870282 GAGTTTGCAA
* *
47870292 TTTTGGTGAGCTCGCAG
1 TTTTGATGAACTCGCAG
47870309 TTTTGATGAGA-TCGCAG
1 TTTTGATGA-ACTCGCAG
*
47870326 TTTTGATGAACTTGCAG
1 TTTTGATGAACTCGCAG
47870343 T
1 T
47870344 CTTGGTATGC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 1 0.03
17 29 0.97
ACGTcount: A:0.19, C:0.13, G:0.29, T:0.38
Consensus pattern (17 bp):
TTTTGATGAACTCGCAG
Found at i:47871595 original size:23 final size:23
Alignment explanation
Indices: 47871551--47871607 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
47871541 ATTATAGACA
*
47871551 TATATAAAAAAAATATAAGTATG
1 TATATAAAAAAAAGATAAGTATG
** *
47871574 TATATAAATCAAAGATATGTATG
1 TATATAAAAAAAAGATAAGTATG
*
47871597 TAGAATAAAAA
1 TA-TATAAAAA
47871608 TAGTTTATTA
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
23 21 0.81
24 5 0.19
ACGTcount: A:0.58, C:0.02, G:0.11, T:0.30
Consensus pattern (23 bp):
TATATAAAAAAAAGATAAGTATG
Found at i:47877469 original size:41 final size:41
Alignment explanation
Indices: 47877416--47877508 Score: 134
Period size: 41 Copynumber: 2.3 Consensus size: 41
47877406 AATTCATCAT
* *
47877416 ATTCGGAT-ACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
47877456 ATTTAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
*
47877497 ATTCATATCACC
1 ATTCAGATCACC
47877509 AATTCCAAAC
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
40 6 0.13
41 40 0.87
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (41 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
Found at i:47877751 original size:19 final size:18
Alignment explanation
Indices: 47877720--47877760 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 18
47877710 TTGTTCGATC
47877720 CACACATATATATATT-G
1 CACACATATATATATTCG
47877737 CACACATATACATATATTCG
1 CACACATAT--ATATATTCG
47877757 CACA
1 CACA
47877761 TTAATATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.43
19 7 0.33
20 5 0.24
ACGTcount: A:0.41, C:0.24, G:0.05, T:0.29
Consensus pattern (18 bp):
CACACATATATATATTCG
Found at i:47885023 original size:41 final size:41
Alignment explanation
Indices: 47884973--47885148 Score: 271
Period size: 41 Copynumber: 4.3 Consensus size: 41
47884963 AATTCATCAT
* *
47884973 ATTCGGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
47885014 ATTTAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
47885055 ATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
47885096 ATTTAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
*
47885137 ATTCATATCACC
1 ATTCAGATCACC
47885149 AATTCCAAAC
Statistics
Matches: 121, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 121 1.00
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.30
Consensus pattern (41 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
Found at i:47885116 original size:82 final size:82
Alignment explanation
Indices: 47884979--47885148 Score: 340
Period size: 82 Copynumber: 2.1 Consensus size: 82
47884969 TCATATTCGG
47884979 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTTAGATCACCGGCACTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTTAGATCACCGGCACTTAGCCTGCTAGG
47885044 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
47885061 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTTAGATCACCGGCACTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTTAGATCACCGGCACTTAGCCTGCTAGG
47885126 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
47885143 ATCACC
1 ATCACC
47885149 AATTCCAAAC
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 88 1.00
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.30
Consensus pattern (82 bp):
ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTTAGATCACCGGCACTTAGCCTGCTAGG
TTTATAACCTGATTCAT
Found at i:47888690 original size:24 final size:23
Alignment explanation
Indices: 47888663--47888736 Score: 73
Period size: 24 Copynumber: 3.3 Consensus size: 23
47888653 TTACACATAA
*
47888663 AAAAATTGTGATAATTATATATTT
1 AAAAATTATGATAATTATA-ATTT
* *
47888687 AAAAATAATTATAATT-TAA--T
1 AAAAATTATGATAATTATAATTT
*
47888707 AAAAATTATGATAATTACACATTT
1 AAAAATTATGATAATTATA-ATTT
47888731 AAAAAT
1 AAAAAT
47888737 AATTAAAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
20 15 0.38
21 1 0.03
22 2 0.05
23 2 0.05
24 20 0.50
ACGTcount: A:0.54, C:0.03, G:0.04, T:0.39
Consensus pattern (23 bp):
AAAAATTATGATAATTATAATTT
Found at i:47888705 original size:17 final size:19
Alignment explanation
Indices: 47888673--47888715 Score: 65
Period size: 17 Copynumber: 2.4 Consensus size: 19
47888663 AAAAATTGTG
47888673 ATAATTATATATTTAA-AA
1 ATAATTATATATTTAATAA
47888691 ATAATTATA-ATTTAATAA
1 ATAATTATATATTTAATAA
47888709 A-AATTAT
1 ATAATTAT
47888716 GATAATTACA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.50
18 12 0.50
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
ATAATTATATATTTAATAA
Found at i:47888722 original size:26 final size:27
Alignment explanation
Indices: 47888691--47888741 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
47888681 ATATTTAAAA
*
47888691 ATAATTATA-ATTTAATAAA-AATTATG
1 ATAATTACACATTTAA-AAATAATTATG
47888717 ATAATTACACATTTAAAAATAATTA
1 ATAATTACACATTTAAAAATAATTA
47888742 AAAATTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 11 0.50
27 11 0.50
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (27 bp):
ATAATTACACATTTAAAAATAATTATG
Found at i:47890512 original size:54 final size:54
Alignment explanation
Indices: 47890453--47890561 Score: 200
Period size: 54 Copynumber: 2.0 Consensus size: 54
47890443 AAGAACGTAG
*
47890453 GGGCCCTTTCGAAGTTCTTGAGCAAGGAGACTAAGAGACTGTGGGCAAAGCGAA
1 GGGCCCTTTAGAAGTTCTTGAGCAAGGAGACTAAGAGACTGTGGGCAAAGCGAA
*
47890507 GGGCCCTTTAGAAGTTCTTGTGCAAGGAGACTAAGAGACTGTGGGCAAAGCGAA
1 GGGCCCTTTAGAAGTTCTTGAGCAAGGAGACTAAGAGACTGTGGGCAAAGCGAA
47890561 G
1 G
47890562 CCAAGTATTG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.29, C:0.17, G:0.34, T:0.19
Consensus pattern (54 bp):
GGGCCCTTTAGAAGTTCTTGAGCAAGGAGACTAAGAGACTGTGGGCAAAGCGAA
Found at i:47893160 original size:43 final size:43
Alignment explanation
Indices: 47893112--47893372 Score: 210
Period size: 43 Copynumber: 6.1 Consensus size: 43
47893102 ATGTCGCTAA
* *
47893112 CTTTAGCGGCGCTTTTGTCACAAACGCCGCTAAAGATCTTGAC
1 CTTTAGCGGCGCTTTAGTCACAAACGCCGCTAAAGATCGTGAC
** *
47893155 CTTTAGCGGCATTTTTA-TCACAAACGCCGCTAAAGATCGTAAC
1 CTTTAGCGGC-GCTTTAGTCACAAACGCCGCTAAAGATCGTGAC
* * * * *
47893198 CTTTAGCGGCACTTTAGCCACAAATGCCGCTAAGGATCGTGAT
1 CTTTAGCGGCGCTTTAGTCACAAACGCCGCTAAAGATCGTGAC
* * * *
47893241 CTTTAGTGGCGCTTTAGAT-ACAAATGTCGCTAAAGATCGTGAG
1 CTTTAGCGGCGCTTTAG-TCACAAACGCCGCTAAAGATCGTGAC
* ** * * * **
47893284 CTTTAACAACGCTTCAGCCACAAACGCCACTAAAGAAT--AAAC
1 CTTTAGCGGCGCTTTAGTCACAAACGCCGCTAAAG-ATCGTGAC
* * * *
47893326 CTTTAGCGACGCTTCTAG-CAAAAACGCCGCTAAA-AACGTAAC
1 CTTTAGCGGCGCTT-TAGTCACAAACGCCGCTAAAGATCGTGAC
47893368 CTTTA
1 CTTTA
47893373 AAAAAATATT
Statistics
Matches: 173, Mismatches: 37, Indels: 17
0.76 0.16 0.07
Matches are distributed among these distances:
40 1 0.01
42 39 0.23
43 128 0.74
44 5 0.03
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTAGTCACAAACGCCGCTAAAGATCGTGAC
Found at i:47895191 original size:18 final size:18
Alignment explanation
Indices: 47895170--47895209 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
47895160 AAAATAAAAT
47895170 AAAAGAATAAAAGCAATA
1 AAAAGAATAAAAGCAATA
** *
47895188 AAAAGCGTGAAAGCAATA
1 AAAAGAATAAAAGCAATA
47895206 AAAA
1 AAAA
47895210 AGACAGACAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.68, C:0.07, G:0.15, T:0.10
Consensus pattern (18 bp):
AAAAGAATAAAAGCAATA
Found at i:47902377 original size:29 final size:27
Alignment explanation
Indices: 47902316--47902377 Score: 65
Period size: 29 Copynumber: 2.2 Consensus size: 27
47902306 AATATATAAA
47902316 TTAATAAAAATATTTCTTTTCATATTAG
1 TTAATAAAAATATTTCTTTT-ATATTAG
*
47902344 -GAATAAACTAATATTTCTTTT-TATTAAG
1 TTAATAAA--AATATTTCTTTTATATT-AG
47902372 TTAATA
1 TTAATA
47902378 TATTTTGATG
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
27 10 0.36
28 2 0.07
29 16 0.57
ACGTcount: A:0.40, C:0.06, G:0.05, T:0.48
Consensus pattern (27 bp):
TTAATAAAAATATTTCTTTTATATTAG
Found at i:47905617 original size:9 final size:9
Alignment explanation
Indices: 47905599--47905656 Score: 73
Period size: 9 Copynumber: 6.4 Consensus size: 9
47905589 TTTGGTTAAA
47905599 AATTAACCG
1 AATTAACCG
*
47905608 AATTACCCG
1 AATTAACCG
*
47905617 AATTACCCG
1 AATTAACCG
*
47905626 AATTAACCT
1 AATTAACCG
47905635 AATT-ACCTG
1 AATTAACC-G
47905644 AATTAACCG
1 AATTAACCG
47905653 AATT
1 AATT
47905657 GAATCACTAC
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
8 3 0.07
9 37 0.86
10 3 0.07
ACGTcount: A:0.40, C:0.24, G:0.09, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:47905638 original size:27 final size:27
Alignment explanation
Indices: 47905599--47905656 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
47905589 TTTGGTTAAA
*
47905599 AATTAACCGAATTACCCGAATTACCCG
1 AATTAACCGAATTACCCGAATTAACCG
* *
47905626 AATTAACCTAATTACCTGAATTAACCG
1 AATTAACCGAATTACCCGAATTAACCG
47905653 AATT
1 AATT
47905657 GAATCACTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.40, C:0.24, G:0.09, T:0.28
Consensus pattern (27 bp):
AATTAACCGAATTACCCGAATTAACCG
Found at i:47916403 original size:32 final size:32
Alignment explanation
Indices: 47916367--47916428 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
47916357 TAAATGTTTA
*
47916367 TGAAAATATGATATTCTGATCCGAAATATGTC
1 TGAAAATATGACATTCTGATCCGAAATATGTC
* * *
47916399 TGAAAATATGACATTTTGATCTGATATATG
1 TGAAAATATGACATTCTGATCCGAAATATG
47916429 CTTCTGGTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (32 bp):
TGAAAATATGACATTCTGATCCGAAATATGTC
Found at i:47917341 original size:22 final size:22
Alignment explanation
Indices: 47917313--47917362 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
47917303 ATGTGAATCT
*
47917313 GAGTCTTCGACGCCGGTCATCC
1 GAGTCTTCGACGCCAGTCATCC
* *
47917335 GAGTCTTTGACGCTAGTCATCC
1 GAGTCTTCGACGCCAGTCATCC
47917357 GAGTCT
1 GAGTCT
47917363 CTGATGCCAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.16, C:0.30, G:0.26, T:0.28
Consensus pattern (22 bp):
GAGTCTTCGACGCCAGTCATCC
Found at i:47917374 original size:22 final size:22
Alignment explanation
Indices: 47917313--47917374 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
47917303 ATGTGAATCT
*
47917313 GAGTCT-TCGACGCCGGTCATCC
1 GAGTCTCT-GACGCCAGTCATCC
* *
47917335 GAGTCTTTGACGCTAGTCATCC
1 GAGTCTCTGACGCCAGTCATCC
*
47917357 GAGTCTCTGATGCCAGTC
1 GAGTCTCTGACGCCAGTC
47917375 CAAGTAAGCA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
22 33 0.97
23 1 0.03
ACGTcount: A:0.16, C:0.31, G:0.26, T:0.27
Consensus pattern (22 bp):
GAGTCTCTGACGCCAGTCATCC
Found at i:47918264 original size:34 final size:33
Alignment explanation
Indices: 47918233--47918315 Score: 114
Period size: 32 Copynumber: 2.5 Consensus size: 33
47918223 GACATTCTAG
47918233 TCTGATATATGTTTCTGAAATTATGATATTCTGA
1 TCTGATATATGTTTCTGAAA-TATGATATTCTGA
* * * *
47918267 TTTGAAATATG-TTCAGAAATATGATATTTTGA
1 TCTGATATATGTTTCTGAAATATGATATTCTGA
47918299 TCTGATATATGTTTCTG
1 TCTGATATATGTTTCTG
47918316 GTAATACAAC
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
32 21 0.51
33 11 0.27
34 9 0.22
ACGTcount: A:0.30, C:0.07, G:0.16, T:0.47
Consensus pattern (33 bp):
TCTGATATATGTTTCTGAAATATGATATTCTGA
Found at i:47923755 original size:27 final size:27
Alignment explanation
Indices: 47923705--47923756 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
47923695 TTATCAATCC
* * *
47923705 TCTATTATTTTTGTTACTTGTTCTTAT
1 TCTATTATTGTTCTTACTTCTTCTTAT
*
47923732 TCTATTATTGTTCTTCCTTCTTCTT
1 TCTATTATTGTTCTTACTTCTTCTT
47923757 TGCTACTGAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.12, C:0.17, G:0.06, T:0.65
Consensus pattern (27 bp):
TCTATTATTGTTCTTACTTCTTCTTAT
Found at i:47926701 original size:17 final size:18
Alignment explanation
Indices: 47926666--47926703 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
47926656 TGCGAGCCAA
* *
47926666 TTATATTTGTGTACTATG
1 TTATATTTGTGAACCATG
47926684 TTATA-TTGTGAACCATG
1 TTATATTTGTGAACCATG
47926701 TTA
1 TTA
47926704 ACTTGATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.26, C:0.08, G:0.16, T:0.50
Consensus pattern (18 bp):
TTATATTTGTGAACCATG
Found at i:47926928 original size:42 final size:42
Alignment explanation
Indices: 47926872--47926953 Score: 128
Period size: 42 Copynumber: 2.0 Consensus size: 42
47926862 TATGATTTAT
* * *
47926872 GTGAGCTATGACATGAATTATATGAGAACTGTAACTCTAAGA
1 GTGAACTATGACATGAATGATATGAGAACTATAACTCTAAGA
*
47926914 GTGAACTATGACATGAATGATATGAGAAGTATAACTCTAA
1 GTGAACTATGACATGAATGATATGAGAACTATAACTCTAA
47926954 ATAAAATATG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.40, C:0.11, G:0.21, T:0.28
Consensus pattern (42 bp):
GTGAACTATGACATGAATGATATGAGAACTATAACTCTAAGA
Found at i:47943726 original size:16 final size:16
Alignment explanation
Indices: 47943701--47943736 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
47943691 TGTTTATAAG
47943701 TATGCAAACAGTATTC
1 TATGCAAACAGTATTC
*
47943717 TATGCGAACAGTATTC
1 TATGCAAACAGTATTC
47943733 TATG
1 TATG
47943737 TCTAGAGATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (16 bp):
TATGCAAACAGTATTC
Found at i:47944237 original size:42 final size:43
Alignment explanation
Indices: 47944185--47944278 Score: 120
Period size: 42 Copynumber: 2.2 Consensus size: 43
47944175 AAACCCATGT
* *
47944185 TTATCTTCTCCAATTTTTAAATTCTTTT-TC-ACCAAGCCAAGA
1 TTATCTTCTCCAATTTTCAAATTCTTTTCTCAACC-ACCCAAGA
* **
47944227 TTATGTTCTCCTCTTTTCAAATTCTTTTCTCAACCACCCAAGA
1 TTATCTTCTCCAATTTTCAAATTCTTTTCTCAACCACCCAAGA
47944270 TTATCTTCT
1 TTATCTTCT
47944279 TTCTAAATTC
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
42 24 0.55
43 17 0.39
44 3 0.07
ACGTcount: A:0.24, C:0.27, G:0.04, T:0.45
Consensus pattern (43 bp):
TTATCTTCTCCAATTTTCAAATTCTTTTCTCAACCACCCAAGA
Found at i:47952820 original size:7 final size:7
Alignment explanation
Indices: 47952808--47952838 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
47952798 TGTATTGGCA
47952808 TAGAGGT
1 TAGAGGT
47952815 TAGAGGT
1 TAGAGGT
47952822 TAGAGGT
1 TAGAGGT
47952829 TAGAGGT
1 TAGAGGT
47952836 TAG
1 TAG
47952839 GAATTAGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.29, C:0.00, G:0.42, T:0.29
Consensus pattern (7 bp):
TAGAGGT
Found at i:47954858 original size:17 final size:16
Alignment explanation
Indices: 47954836--47954877 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 16
47954826 TAAATAGGAT
47954836 TTTCTTTCT-TTTTCCTA
1 TTTCTTTCTCTTTT-C-A
47954853 TTTCTTCTCTCTTTTCA
1 TTTCTT-TCTCTTTTCA
47954870 TTTCTTTC
1 TTTCTTTC
47954878 CTCTCTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 2 0.09
17 13 0.57
18 4 0.17
19 4 0.17
ACGTcount: A:0.05, C:0.26, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTCTTTCTCTTTTCA
Found at i:47958674 original size:16 final size:16
Alignment explanation
Indices: 47958653--47958696 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
47958643 ATTTGCAGCT
47958653 TTTTTTTTTCTTTTCC
1 TTTTTTTTTCTTTTCC
** *
47958669 TTTTTTTCCCTTTTTC
1 TTTTTTTTTCTTTTCC
*
47958685 TTTTCTTTTCTT
1 TTTTTTTTTCTT
47958697 ATTTTTCTTT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTTTTTTCTTTTCC
Found at i:47958689 original size:27 final size:26
Alignment explanation
Indices: 47958651--47958711 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 26
47958641 CTATTTGCAG
*
47958651 CTTTTTTTTTTCTTTTCCTT-TTTTTCC
1 CTTTTTCTTTTCTTTT-CTTATTTTT-C
47958678 CTTTTTCTTTTCTTTTCTTATTTTTC
1 CTTTTTCTTTTCTTTTCTTATTTTTC
*
47958704 TTTTTTCT
1 CTTTTTCT
47958712 CTCCATGCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
26 11 0.35
27 20 0.65
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.79
Consensus pattern (26 bp):
CTTTTTCTTTTCTTTTCTTATTTTTC
Found at i:47974803 original size:220 final size:219
Alignment explanation
Indices: 47974418--47974860 Score: 724
Period size: 220 Copynumber: 2.0 Consensus size: 219
47974408 TGAATAAATA
* ** *
47974418 AATAACTATTATTAACATGATTACAATGATTGAACCAAAGATAAAGTACATAGTAACAGGAGGGT
1 AATAACTATCATTAACATGATTACAATGATTGAACCAAAGATAAAGTACATAGTAACACAAAGGT
*
47974483 AGTTAACACATTTTCACTTACCATACTTTCATCATTCACTTATCTTTAATACACCACTCACGTTG
66 AGTTAACACATTTTCACTTACCATACTTTCATCATTCACTTATCTTTAATACACCACTCACATTG
* * * ** * *
47974548 CCCCTTGTAGACTCGAGTGAATAAGAAGGATATATGGAATGTAATCATAGAGCACAAGAGCATGT
131 CCCCTTATAGACTCAAGTGAACAAGAAAAATATATGGAATGTAATCACAAAGCACAAGAGCATGT
*
47974613 AAATGCCAAATTATCATGAACACT
196 AAATGCCAAATTATCACGAACACT
47974637 AATAACTATCATTAACATGATTACAATGATTGAACCAAAGATAAAGTACATAGTAACAACAAAGG
1 AATAACTATCATTAACATGATTACAATGATTGAACCAAAGATAAAGTACATAGTAAC-ACAAAGG
* *
47974702 TAGTTAACACATTTTCACTTACCATACTTTCATCATTCACTTATCTTTTATATACCACTCACATT
65 TAGTTAACACATTTTCACTTACCATACTTTCATCATTCACTTATCTTTAATACACCACTCACATT
*
47974767 GCCCCTTATAGACTCAAGTGAACAAGAAAAATATATGGAATGTAATCACAAAGCACAGGAGCATG
130 GCCCCTTATAGACTCAAGTGAACAAGAAAAATATATGGAATGTAATCACAAAGCACAAGAGCATG
*
47974832 TAAGTGCCAAATTATCACGAACACT
195 TAAATGCCAAATTATCACGAACACT
47974857 AATA
1 AATA
47974861 GTGTTAGAAC
Statistics
Matches: 206, Mismatches: 17, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
219 56 0.27
220 150 0.73
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.28
Consensus pattern (219 bp):
AATAACTATCATTAACATGATTACAATGATTGAACCAAAGATAAAGTACATAGTAACACAAAGGT
AGTTAACACATTTTCACTTACCATACTTTCATCATTCACTTATCTTTAATACACCACTCACATTG
CCCCTTATAGACTCAAGTGAACAAGAAAAATATATGGAATGTAATCACAAAGCACAAGAGCATGT
AAATGCCAAATTATCACGAACACT
Found at i:47978402 original size:11 final size:11
Alignment explanation
Indices: 47978386--47978424 Score: 51
Period size: 11 Copynumber: 3.3 Consensus size: 11
47978376 TTTCGCGCAT
47978386 AAAAAATAATA
1 AAAAAATAATA
47978397 AAAAAATAAAAGTA
1 AAAAAAT--AA-TA
47978411 AAAAAATAATA
1 AAAAAATAATA
47978422 AAA
1 AAA
47978425 CGAAACAGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 12 0.48
12 2 0.08
13 2 0.08
14 9 0.36
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (11 bp):
AAAAAATAATA
Found at i:47980586 original size:3 final size:3
Alignment explanation
Indices: 47980578--47980603 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
47980568 GCATAAGTAA
47980578 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
47980604 ACAAACTATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:47982735 original size:13 final size:13
Alignment explanation
Indices: 47982717--47982742 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47982707 CTGTCACATG
47982717 CACACGACCACAC
1 CACACGACCACAC
47982730 CACACGACCACAC
1 CACACGACCACAC
47982743 GACCATGTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.54, G:0.08, T:0.00
Consensus pattern (13 bp):
CACACGACCACAC
Found at i:47991074 original size:3 final size:3
Alignment explanation
Indices: 47991066--47991112 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
47991056 ACTTACACCC
47991066 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
47991113 CTTTCTTGTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:47999888 original size:34 final size:35
Alignment explanation
Indices: 47999833--47999899 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
47999823 CAAACACCAG
*
47999833 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
47999868 AAAACATTTTCCCG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
47999900 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:48009458 original size:16 final size:16
Alignment explanation
Indices: 48009437--48009470 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
48009427 AACTAACCCG
48009437 AACCAACATAAATGAA
1 AACCAACATAAATGAA
48009453 AACCAACATAAATGAA
1 AACCAACATAAATGAA
48009469 AA
1 AA
48009471 TGGTTCAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.65, C:0.18, G:0.06, T:0.12
Consensus pattern (16 bp):
AACCAACATAAATGAA
Found at i:48013294 original size:24 final size:24
Alignment explanation
Indices: 48013267--48013313 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
48013257 TGAATTCAAC
* *
48013267 ATTAAAATTTATAATTTATTTAAA
1 ATTAAAATTTAAAATTAATTTAAA
*
48013291 ATTAATATTTAAAATTAATTTAA
1 ATTAAAATTTAAAATTAATTTAA
48013314 TATAATTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
ATTAAAATTTAAAATTAATTTAAA
Found at i:48013301 original size:13 final size:13
Alignment explanation
Indices: 48013283--48013309 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
48013273 ATTTATAATT
48013283 TATTTAAAATTAA
1 TATTTAAAATTAA
48013296 TATTTAAAATTAA
1 TATTTAAAATTAA
48013309 T
1 T
48013310 TTAATATAAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TATTTAAAATTAA
Found at i:48016850 original size:22 final size:24
Alignment explanation
Indices: 48016800--48016851 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 24
48016790 TTGCAATGCT
48016800 TTTATATTTTAATAATTGAGTATTA
1 TTTATATTTTAAT-ATTGAGTATTA
48016825 -TTATATATTTAAT-TTGA-T-TTA
1 TTTATAT-TTTAATATTGAGTATTA
48016846 TTTATA
1 TTTATA
48016852 AATAAATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
21 3 0.12
22 6 0.24
23 4 0.16
24 6 0.24
25 6 0.24
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.60
Consensus pattern (24 bp):
TTTATATTTTAATATTGAGTATTA
Found at i:48017063 original size:34 final size:35
Alignment explanation
Indices: 48017004--48017070 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
48016994 CAAACACCAG
*
48017004 AAAATATTTTCCAGTCAATCATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
48017039 AAAATATTTTCTAG-AAATCATTTTACGGAAAA
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAA
48017071 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.34
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:48017677 original size:32 final size:32
Alignment explanation
Indices: 48017640--48017703 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
48017630 CAGGATATAC
*
48017640 AGAATCATAAAGTTCTCAGAATGTATGCATAT
1 AGAATCATAAAGTTCTCAAAATGTATGCATAT
*
48017672 AGAATCATAAAGTTCTCAAAATGTATGTATAT
1 AGAATCATAAAGTTCTCAAAATGTATGCATAT
48017704 GTTCATGAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (32 bp):
AGAATCATAAAGTTCTCAAAATGTATGCATAT
Found at i:48029819 original size:10 final size:10
Alignment explanation
Indices: 48029804--48029832 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
48029794 GAAATTTTTG
48029804 ATGATATAAT
1 ATGATATAAT
48029814 ATGATATAAT
1 ATGATATAAT
48029824 A-GATATAAT
1 ATGATATAAT
48029833 TATTTATAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 8 0.42
10 11 0.58
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (10 bp):
ATGATATAAT
Found at i:48030157 original size:37 final size:37
Alignment explanation
Indices: 48030053--48030166 Score: 142
Period size: 37 Copynumber: 3.1 Consensus size: 37
48030043 TGTTTTCAGT
* ** *
48030053 TGGACTAGCTCTTCGGAGCAATTGGCATGATATCGGG
1 TGGATTAGCTCTTATGAGCAATTGGCATGTTATCGGG
*
48030090 TGGATTAGCTCTTATGAGC-ATCTGGCATGTTATTGGG
1 TGGATTAGCTCTTATGAGCAAT-TGGCATGTTATCGGG
* *
48030127 TGGATTAGCTCTTATGAGCAATTGGTATGTT-TCGGT
1 TGGATTAGCTCTTATGAGCAATTGGCATGTTATCGGG
48030163 TGGA
1 TGGA
48030167 ATATCTATGT
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
36 9 0.13
37 56 0.84
38 2 0.03
ACGTcount: A:0.20, C:0.14, G:0.31, T:0.35
Consensus pattern (37 bp):
TGGATTAGCTCTTATGAGCAATTGGCATGTTATCGGG
Found at i:48032451 original size:30 final size:31
Alignment explanation
Indices: 48032393--48032462 Score: 106
Period size: 30 Copynumber: 2.3 Consensus size: 31
48032383 AATTTTCTAT
* * *
48032393 TATGAATCCGCATGTATGATTTCGCCATATC
1 TATGAATCTGCATGTATGAGTTCACCATATC
48032424 TATGAATCTGCAT-TATGAGTTCACCATATC
1 TATGAATCTGCATGTATGAGTTCACCATATC
48032454 TATGAATCT
1 TATGAATCT
48032463 TCTTCTATGA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
30 24 0.67
31 12 0.33
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (31 bp):
TATGAATCTGCATGTATGAGTTCACCATATC
Found at i:48032485 original size:75 final size:75
Alignment explanation
Indices: 48032362--48032507 Score: 233
Period size: 75 Copynumber: 1.9 Consensus size: 75
48032352 AATCCACATG
* *
48032362 TATGAGTTCGCCATATCTATGAATTTTCTATTATGAATCCGCATGTATGA-TTTCGCCATATCTA
1 TATGAGTTCACCATATCTATGAATCTTCTATTATGAATCCGCATGTATGAGTTT-GCCATATCTA
48032426 TGAATCTGCAT
65 TGAATCTGCAT
*
48032437 TATGAGTTCACCATATCTATGAATCTTCT-TCTATGAATCCGCATGTATGAGTTTGTCATATCTA
1 TATGAGTTCACCATATCTATGAATCTTCTAT-TATGAATCCGCATGTATGAGTTTGCCATATCTA
48032501 TGAATCT
65 TGAATCT
48032508 TCTACTATGA
Statistics
Matches: 66, Mismatches: 3, Indels: 4
0.90 0.04 0.05
Matches are distributed among these distances:
74 1 0.02
75 62 0.94
76 3 0.05
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.40
Consensus pattern (75 bp):
TATGAGTTCACCATATCTATGAATCTTCTATTATGAATCCGCATGTATGAGTTTGCCATATCTAT
GAATCTGCAT
Found at i:48032497 original size:45 final size:45
Alignment explanation
Indices: 48032422--48032641 Score: 291
Period size: 45 Copynumber: 4.9 Consensus size: 45
48032412 TTTCGCCATA
* *
48032422 TCTATGAATCTGCAT-TATGAGTTCACCATATCTATGAATCTTCT
1 TCTATGAATCCGCATGTATGAGTTCGCCATATCTATGAATCTTCT
* *
48032466 TCTATGAATCCGCATGTATGAGTTTGTCATATCTATGAATCTTCT
1 TCTATGAATCCGCATGTATGAGTTCGCCATATCTATGAATCTTCT
* * *
48032511 ACTATGAATCCGCATGTATGAGTTCGCCATATTTATGAATATTCT
1 TCTATGAATCCGCATGTATGAGTTCGCCATATCTATGAATCTTCT
** ** *
48032556 TCTATGAATTTGCATGTATGAGTTTACTATATCTATGAATCTTCT
1 TCTATGAATCCGCATGTATGAGTTCGCCATATCTATGAATCTTCT
* *
48032601 AT-TATGAATTCGCATGTATGAGTTAGCCATATCTATGAATC
1 -TCTATGAATCCGCATGTATGAGTTCGCCATATCTATGAATC
48032642 CATTTCTACA
Statistics
Matches: 153, Mismatches: 21, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
44 14 0.09
45 138 0.90
46 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.41
Consensus pattern (45 bp):
TCTATGAATCCGCATGTATGAGTTCGCCATATCTATGAATCTTCT
Found at i:48032556 original size:90 final size:90
Alignment explanation
Indices: 48032423--48032640 Score: 323
Period size: 90 Copynumber: 2.4 Consensus size: 90
48032413 TTCGCCATAT
* * *
48032423 CTATGAATCTGCAT-TATGAGTTCACCATATCTATGAATCTTCTTCTATGAATCCGCATGTATGA
1 CTATGAATCCGCATGTATGAGTTCGCCATATCTATGAATATTCTTCTATGAATCCGCATGTATGA
*
48032487 GTTT-GTCATATCTATGAATCTTCTA
66 GTTTACT-ATATCTATGAATCTTCTA
* **
48032512 CTATGAATCCGCATGTATGAGTTCGCCATATTTATGAATATTCTTCTATGAATTTGCATGTATGA
1 CTATGAATCCGCATGTATGAGTTCGCCATATCTATGAATATTCTTCTATGAATCCGCATGTATGA
48032577 GTTTACTATATCTATGAATCTTCTA
66 GTTTACTATATCTATGAATCTTCTA
* * *
48032602 TTATGAATTCGCATGTATGAGTTAGCCATATCTATGAAT
1 CTATGAATCCGCATGTATGAGTTCGCCATATCTATGAAT
48032641 CCATTTCTAC
Statistics
Matches: 116, Mismatches: 11, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
89 13 0.11
90 102 0.88
91 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.41
Consensus pattern (90 bp):
CTATGAATCCGCATGTATGAGTTCGCCATATCTATGAATATTCTTCTATGAATCCGCATGTATGA
GTTTACTATATCTATGAATCTTCTA
Found at i:48032649 original size:90 final size:90
Alignment explanation
Indices: 48032423--48032669 Score: 310
Period size: 90 Copynumber: 2.8 Consensus size: 90
48032413 TTCGCCATAT
* *
48032423 CTATGAA-TCTGCAT-TATGAGTTCA-CCATATCTATGAATCTTCTTCTATGAATCCGCATGTAT
1 CTATGAATTC-GCATGTATGAGTT-AGCCATATCTATGAATCATCTTCTATGAATTCGCATGTAT
*
48032485 GAGTTTGTCATATCTATGAATCTTCTA
64 GAGTTTCTCATATCTATGAATCTTCTA
* * * *
48032512 CTATGAATCCGCATGTATGAGTTCGCCATATTTATGAAT-ATTCTTCTATGAATTTGCATGTATG
1 CTATGAATTCGCATGTATGAGTTAGCCATATCTATGAATCA-TCTTCTATGAATTCGCATGTATG
48032576 AGTTTACT-ATATCTATGAATCTTCTA
65 AGTTT-CTCATATCTATGAATCTTCTA
* *
48032602 TTATGAATTCGCATGTATGAGTTAGCCATATCTATGAATCCAT-TTCTA-CAAGTTCGCATGTAT
1 CTATGAATTCGCATGTATGAGTTAGCCATATCTATGAAT-CATCTTCTATGAA-TTCGCATGTAT
48032665 GAGTT
64 GAGTT
48032670 AGCATATAAG
Statistics
Matches: 137, Mismatches: 13, Indels: 15
0.83 0.08 0.09
Matches are distributed among these distances:
89 13 0.09
90 121 0.88
91 2 0.01
92 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (90 bp):
CTATGAATTCGCATGTATGAGTTAGCCATATCTATGAATCATCTTCTATGAATTCGCATGTATGA
GTTTCTCATATCTATGAATCTTCTA
Found at i:48032658 original size:45 final size:43
Alignment explanation
Indices: 48032433--48032676 Score: 210
Period size: 45 Copynumber: 5.5 Consensus size: 43
48032423 CTATGAATCT
* *
48032433 GCAT-TATGAGTTCA-CCATATCTATGAATCTTCTTCTATGAATCC
1 GCATGTATGAGTT-AGCCATATCTATGAATC-T-TTCTATCAATTC
* * * *
48032477 GCATGTATGAGTTTGTCATATCTATGAATCTTCTACTATGAATCC
1 GCATGTATGAGTTAGCCATATCTATGAATCTT-T-CTATCAATTC
* * * * *
48032522 GCATGTATGAGTTCGCCATATTTATGAATATTCTTCTATGAATTT
1 GCATGTATGAGTTAGCCATATCTATGAAT-CT-TTCTATCAATTC
* * *
48032567 GCATGTATGAGTTTA-CTATATCTATGAATCTTCTATTATGAATTC
1 GCATGTATGAG-TTAGCCATATCTATGAATCTT-T-CTATCAATTC
48032612 GCATGTATGAGTTAGCCATATCTATGAATCCATTTCTA-CAAGTTC
1 GCATGTATGAGTTAGCCATATCTATGAAT-C-TTTCTATCAA-TTC
48032657 GCATGTATGAGTTAG-CATAT
1 GCATGTATGAGTTAGCCATAT
48032677 AAGAATCCAC
Statistics
Matches: 170, Mismatches: 17, Indels: 26
0.80 0.08 0.12
Matches are distributed among these distances:
43 2 0.01
44 18 0.11
45 141 0.83
46 6 0.04
47 3 0.02
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (43 bp):
GCATGTATGAGTTAGCCATATCTATGAATCTTTCTATCAATTC
Found at i:48032700 original size:42 final size:44
Alignment explanation
Indices: 48032607--48032711 Score: 126
Period size: 42 Copynumber: 2.4 Consensus size: 44
48032597 TTCTATTATG
* *
48032607 AATTCGCATGTATGAGTTAGCCATATCTATGAATCCATTTCTACA
1 AATTCGCATGTATGAGTTAGCCATA-CTAAGAATCCAATTCTACA
* *
48032652 AGTTCGCATGTATGAGTTAG-CATA-TAAGAATCCACATT-TAGA
1 AATTCGCATGTATGAGTTAGCCATACTAAGAATCCA-ATTCTACA
*
48032694 AATTCGCATGTAAGAGTT
1 AATTCGCATGTATGAGTT
48032712 TGTAGGAATG
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
42 28 0.53
43 2 0.04
44 4 0.08
45 19 0.36
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Consensus pattern (44 bp):
AATTCGCATGTATGAGTTAGCCATACTAAGAATCCAATTCTACA
Found at i:48037740 original size:3 final size:3
Alignment explanation
Indices: 48037732--48037763 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
48037722 TGCTTTACCT
48037732 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
48037764 GTACTTCAGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:48053358 original size:42 final size:42
Alignment explanation
Indices: 48053268--48053405 Score: 201
Period size: 42 Copynumber: 3.3 Consensus size: 42
48053258 TCAGTACACT
* * *
48053268 GGCATTTAGCCTGCTAGACATATAGTCTGAAA-TGTTTCACC
1 GGCATTAAGCCTGCTAGACGTAAAGTCTGAAATTGTTTCACC
48053309 GGCATTAAGCCTGCTAGACGTAAAGTCT-AATATTGTTTCACC
1 GGCATTAAGCCTGCTAGACGTAAAGTCTGAA-ATTGTTTCACC
*
48053351 GGCATTAAGCCTGCTAGACGTAAAGTCTGAAATTATTTCACC
1 GGCATTAAGCCTGCTAGACGTAAAGTCTGAAATTGTTTCACC
48053393 GGGC-TTAAGCCTG
1 -GGCATTAAGCCTG
48053406 ATAGGCACTG
Statistics
Matches: 89, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
40 2 0.02
41 26 0.29
42 56 0.63
43 5 0.06
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.30
Consensus pattern (42 bp):
GGCATTAAGCCTGCTAGACGTAAAGTCTGAAATTGTTTCACC
Found at i:48058129 original size:54 final size:53
Alignment explanation
Indices: 48057998--48058143 Score: 150
Period size: 54 Copynumber: 2.7 Consensus size: 53
48057988 AGAAAGTTGC
* * *
48057998 GATCTTAAATCGAC-AACTACAAGATTATGGAAATCTTGTAAGTATAAGACTGT
1 GATCTTAAATCGGCAAACTACAAGATT-TGAAAATCTTGTAAGTATAAGACTGG
* * * * * **
48058051 TATCTTAAATCGGCGAGCTGCAAGATTTTAAAACTCTTGTAAGTATAAGGTTGG
1 GATCTTAAATCGGCAAACTACAAGATTTGAAAA-TCTTGTAAGTATAAGACTGG
* *
48058105 GATCTTAAATTGGTAAACTACAAGATTTGAAAAATCTTG
1 GATCTTAAATCGGCAAACTACAAGATTTG-AAAATCTTG
48058144 CAATCTTAAA
Statistics
Matches: 74, Mismatches: 16, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
53 16 0.22
54 54 0.73
55 4 0.05
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.32
Consensus pattern (53 bp):
GATCTTAAATCGGCAAACTACAAGATTTGAAAATCTTGTAAGTATAAGACTGG
Found at i:48058177 original size:40 final size:40
Alignment explanation
Indices: 48058106--48058183 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
48058096 TAAGGTTGGG
* * *
48058106 ATCTTAAATTGGTAAACTACAAGATTTGAAAAATCTTGCA
1 ATCTTAAATTGGCAAACCACAAGATTCGAAAAATCTTGCA
* * *
48058146 ATCTTAAATTGGCGAGCCACAATATTCGAAAAATCTTG
1 ATCTTAAATTGGCAAACCACAAGATTCGAAAAATCTTG
48058184 TAAGTATAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.31
Consensus pattern (40 bp):
ATCTTAAATTGGCAAACCACAAGATTCGAAAAATCTTGCA
Found at i:48058224 original size:94 final size:94
Alignment explanation
Indices: 48058052--48058234 Score: 233
Period size: 94 Copynumber: 1.9 Consensus size: 94
48058042 TAAGACTGTT
** ** * **
48058052 ATCTTAAATCGGCGAGCTGCAAGATTTTAAAACTCTTGTAAGTATAAGGTTGGGATCTTAAATTG
1 ATCTTAAATCGGCGAGCCACAAGATTCGAAAAATCTTGTAAGTATAAGGTTGCAATCTTAAATTG
*
48058117 GTAAACTACAAGATTTGAAAAATCTTGCA
66 GGAAACTACAAGATTTGAAAAATCTTGCA
* *
48058146 ATCTTAAATTGGCGAGCCACAATATTCGAAAAATCTTGTAAGTATAAGGTTGCAATCTTAAATTG
1 ATCTTAAATCGGCGAGCCACAAGATTCGAAAAATCTTGTAAGTATAAGGTTGCAATCTTAAATTG
** *
48058211 GCGAGTC-ATAAGATTTGAAAAATC
66 G-GAAACTACAAGATTTGAAAAATC
48058235 CTGTAAGTAT
Statistics
Matches: 75, Mismatches: 13, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
94 73 0.97
95 2 0.03
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.31
Consensus pattern (94 bp):
ATCTTAAATCGGCGAGCCACAAGATTCGAAAAATCTTGTAAGTATAAGGTTGCAATCTTAAATTG
GGAAACTACAAGATTTGAAAAATCTTGCA
Found at i:48058231 original size:54 final size:54
Alignment explanation
Indices: 48058142--48058458 Score: 312
Period size: 54 Copynumber: 5.9 Consensus size: 54
48058132 TGAAAAATCT
* * * *
48058142 TGCAATCTTAAATTGGCGAGCCACAATATTCGAAAAATCTTGTAAGTATAAGGT
1 TGCAATCTTAAATCGGCGAGCCGCAAGATTCGAAAAATCTTGTAAGTATAAGGC
* * ** * *
48058196 TGCAATCTTAAATTGGCGAGTCATAAGATTTGAAAAATCCTGTAAGTATAAGGC
1 TGCAATCTTAAATCGGCGAGCCGCAAGATTCGAAAAATCTTGTAAGTATAAGGC
* * * * * * *
48058250 TACGA-CTTAAACCGGTGAGCCGCAAGACTCAAAAAATCTTGTAAGTATAAGGT
1 TGCAATCTTAAATCGGCGAGCCGCAAGATTCGAAAAATCTTGTAAGTATAAGGC
* * * * * * * * *
48058303 TACAATCTTAAATCGGCAAACTGCAATATTCGGAAGATCTTATAAGTGTAAGGC
1 TGCAATCTTAAATCGGCGAGCCGCAAGATTCGAAAAATCTTGTAAGTATAAGGC
* * ** * *
48058357 TGCGATTTTAAATCGATGAGTCGCAAGATTGGAAAAATCTTGTAAGTATAAGGC
1 TGCAATCTTAAATCGGCGAGCCGCAAGATTCGAAAAATCTTGTAAGTATAAGGC
* * *
48058411 TGCAATCTTAAATCGGCAAGCCGTAAGATTCAAAAAATCTTGTAAGTA
1 TGCAATCTTAAATCGGCGAGCCGCAAGATTCGAAAAATCTTGTAAGTA
48058459 GTGAATTGAG
Statistics
Matches: 205, Mismatches: 57, Indels: 2
0.78 0.22 0.01
Matches are distributed among these distances:
53 41 0.20
54 164 0.80
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (54 bp):
TGCAATCTTAAATCGGCGAGCCGCAAGATTCGAAAAATCTTGTAAGTATAAGGC
Found at i:48058409 original size:161 final size:162
Alignment explanation
Indices: 48058165--48058458 Score: 392
Period size: 161 Copynumber: 1.8 Consensus size: 162
48058155 TGGCGAGCCA
* * * * * *
48058165 CAATATTCGAAAAATCTTGTAAGTATAAGGTTGCAATCTTAAATTGGCGAGTCATAAGATTTGAA
1 CAATATTCGAAAAATCTTATAAGTATAAGGCTGCAATCTTAAATCGACGAGTCACAAGATTGGAA
* **
48058230 AAATCCTGTAAGTATAAGGCTACGA-CTTAAACCGGTGAGCCGCAAGACTCAAAAAATCTTGTAA
66 AAATCCTGTAAGTATAAGGCTACAATCTTAAACCGGCAAGCCGCAAGACTCAAAAAATCTTGTAA
48058294 GTATAAGGTTACAATCTTAAATCGGCAAACTG
131 GTATAAGGTTACAATCTTAAATCGGCAAACTG
* * * * * * *
48058326 CAATATTCGGAAGATCTTATAAGTGTAAGGCTGCGATTTTAAATCGATGAGTCGCAAGATTGGAA
1 CAATATTCGAAAAATCTTATAAGTATAAGGCTGCAATCTTAAATCGACGAGTCACAAGATTGGAA
* * * * *
48058391 AAATCTTGTAAGTATAAGGCTGCAATCTTAAATCGGCAAGCCGTAAGATTCAAAAAATCTTGTAA
66 AAATCCTGTAAGTATAAGGCTACAATCTTAAACCGGCAAGCCGCAAGACTCAAAAAATCTTGTAA
48058456 GTA
131 GTA
48058459 GTGAATTGAG
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
161 74 0.67
162 37 0.33
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.28
Consensus pattern (162 bp):
CAATATTCGAAAAATCTTATAAGTATAAGGCTGCAATCTTAAATCGACGAGTCACAAGATTGGAA
AAATCCTGTAAGTATAAGGCTACAATCTTAAACCGGCAAGCCGCAAGACTCAAAAAATCTTGTAA
GTATAAGGTTACAATCTTAAATCGGCAAACTG
Found at i:48058417 original size:108 final size:107
Alignment explanation
Indices: 48058171--48058429 Score: 297
Period size: 107 Copynumber: 2.4 Consensus size: 107
48058161 GCCACAATAT
* * * *
48058171 TCGAAAAATCTTGTAAGTATAAGGTTGCAATCTTAAATTGGC-GAGTCATAAGATTTGAAAAATC
1 TCGAAAAATCTTGTAAGTATAAGGTTGCAATCTTAAATCGGCAAACTCA-AAGATTCGAAAAATC
* *
48058235 CTGTAAGTATAAGGCTACGACTTAAACCGGTGAGCCGCAAGAC
65 CTATAAGTATAAGGCTACGACTTAAACCGATGAGCCGCAAGAC
* * * * *
48058278 TCAAAAAATCTTGTAAGTATAAGGTTACAATCTTAAATCGGCAAACTGC-AATATTCGGAAGATC
1 TCGAAAAATCTTGTAAGTATAAGGTTGCAATCTTAAATCGGCAAACT-CAAAGATTCGAAAAATC
* * * * * * *
48058342 TTATAAGTGTAAGGCTGCGATTTTAAATCGATGAGTCGCAAGAT
65 CTATAAGTATAAGGCTACGA-CTTAAACCGATGAGCCGCAAGAC
* *
48058386 TGGAAAAATCTTGTAAGTATAAGGCTGCAATCTTAAATCGGCAA
1 TCGAAAAATCTTGTAAGTATAAGGTTGCAATCTTAAATCGGCAA
48058430 GCCGTAAGAT
Statistics
Matches: 127, Mismatches: 22, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
107 66 0.52
108 60 0.47
109 1 0.01
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (107 bp):
TCGAAAAATCTTGTAAGTATAAGGTTGCAATCTTAAATCGGCAAACTCAAAGATTCGAAAAATCC
TATAAGTATAAGGCTACGACTTAAACCGATGAGCCGCAAGAC
Found at i:48059165 original size:14 final size:14
Alignment explanation
Indices: 48059130--48059172 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
48059120 TTCTGTGTCC
*
48059130 TTTCTTCTTCT-TT
1 TTTCTTCTTTTATT
48059143 TTTC-T-TTTTATT
1 TTTCTTCTTTTATT
48059155 TTTCTTCTTTTATT
1 TTTCTTCTTTTATT
48059169 TTTC
1 TTTC
48059173 CTTGTCGATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
11 3 0.12
12 7 0.27
13 5 0.19
14 11 0.42
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTCTTCTTTTATT
Found at i:48072509 original size:19 final size:19
Alignment explanation
Indices: 48072473--48072524 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
48072463 AGATATAGAT
48072473 TAATT-AAAATATAATAAT-
1 TAATTAAAAAT-TAATAATA
*
48072491 TCAATTAAAAATTATTAATA
1 T-AATTAAAAATTAATAATA
48072511 TAATATAAAAATTA
1 TAAT-TAAAAATTA
48072525 GTGGCATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
18 1 0.03
19 13 0.45
20 15 0.52
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
TAATTAAAAATTAATAATA
Found at i:48078382 original size:5 final size:5
Alignment explanation
Indices: 48078372--48078397 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
48078362 TCAAAGATTC
48078372 CATTT CATTT CATTT CATTT CATTT C
1 CATTT CATTT CATTT CATTT CATTT C
48078398 GTATATTACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.23, G:0.00, T:0.58
Consensus pattern (5 bp):
CATTT
Found at i:48078423 original size:20 final size:19
Alignment explanation
Indices: 48078372--48078424 Score: 51
Period size: 20 Copynumber: 2.9 Consensus size: 19
48078362 TCAAAGATTC
48078372 CATTTCATTT--CAT-TT-
1 CATTTCATTTCACATATTA
**
48078387 CATTTCATTTCGTATATTA
1 CATTTCATTTCACATATTA
48078406 CATTTCCATTTCACATATT
1 CATTT-CATTTCACATATT
48078425 TAAATTTCTC
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
15 10 0.33
17 2 0.07
18 2 0.07
19 5 0.17
20 11 0.37
ACGTcount: A:0.25, C:0.21, G:0.02, T:0.53
Consensus pattern (19 bp):
CATTTCATTTCACATATTA
Found at i:48079685 original size:15 final size:15
Alignment explanation
Indices: 48079641--48079687 Score: 55
Period size: 13 Copynumber: 3.3 Consensus size: 15
48079631 CCAATTTCCT
* *
48079641 TTATTTTATTTTTCA
1 TTATATTATATTTCA
48079656 TT-TATT-TATTT-A
1 TTATATTATATTTCA
48079668 TTATATTATATTTCA
1 TTATATTATATTTCA
48079683 TTATA
1 TTATA
48079688 ATTTGATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
12 3 0.11
13 8 0.30
14 8 0.30
15 8 0.30
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (15 bp):
TTATATTATATTTCA
Found at i:48096531 original size:18 final size:18
Alignment explanation
Indices: 48096508--48096544 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
48096498 GTCTCTTCAT
*
48096508 GAGTACCTGCCTCCTTTA
1 GAGTACCCGCCTCCTTTA
*
48096526 GAGTACCCGCCTCTTTTA
1 GAGTACCCGCCTCCTTTA
48096544 G
1 G
48096545 CATATGACCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.16, C:0.32, G:0.19, T:0.32
Consensus pattern (18 bp):
GAGTACCCGCCTCCTTTA
Found at i:48100715 original size:24 final size:24
Alignment explanation
Indices: 48100687--48100732 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
48100677 GTAGAATAGA
*
48100687 AAGATGAAAGGTGAAGGGTTAAAG
1 AAGATGAAAGGTGAAAGGTTAAAG
*
48100711 AAGATGAAATGTGAAAGGTTAA
1 AAGATGAAAGGTGAAAGGTTAA
48100733 TAAAGATAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.48, C:0.00, G:0.33, T:0.20
Consensus pattern (24 bp):
AAGATGAAAGGTGAAAGGTTAAAG
Found at i:48100738 original size:24 final size:23
Alignment explanation
Indices: 48100686--48100739 Score: 72
Period size: 24 Copynumber: 2.3 Consensus size: 23
48100676 AGTAGAATAG
*
48100686 AAAGATGAAAGGTGAAGGGTTAA
1 AAAGATGAAAGGTGAAAGGTTAA
*
48100709 AGAAGATGAAATGTGAAAGGTTAA
1 A-AAGATGAAAGGTGAAAGGTTAA
48100733 TAAAGAT
1 -AAAGAT
48100740 AGAAGGTTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 1 0.04
24 25 0.93
25 1 0.04
ACGTcount: A:0.50, C:0.00, G:0.30, T:0.20
Consensus pattern (23 bp):
AAAGATGAAAGGTGAAAGGTTAA
Found at i:48102965 original size:31 final size:29
Alignment explanation
Indices: 48102945--48102999 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 29
48102935 AACCAAAATC
48102945 AAATCCA-AAAACTTAGTCCAAAAATAAA
1 AAATCCAGAAAACTTAGTCCAAAAATAAA
*
48102973 AAATCCAGAAAACTTAGT-TAAAAATAA
1 AAATCCAGAAAACTTAGTCCAAAAATAA
48103000 TTCAAACCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 15 0.60
29 10 0.40
ACGTcount: A:0.60, C:0.15, G:0.05, T:0.20
Consensus pattern (29 bp):
AAATCCAGAAAACTTAGTCCAAAAATAAA
Found at i:48103261 original size:34 final size:34
Alignment explanation
Indices: 48103223--48103287 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
48103213 GTCGCATCAC
* *
48103223 CAGAAACATATATTAGATCAGAATGTCATATTTT
1 CAGAAACATATATCAGATCAAAATGTCATATTTT
* *
48103257 CAGAAGCATATATCATATCAAAATGTCATAT
1 CAGAAACATATATCAGATCAAAATGTCATAT
48103288 CATATCAGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (34 bp):
CAGAAACATATATCAGATCAAAATGTCATATTTT
Found at i:48103899 original size:31 final size:31
Alignment explanation
Indices: 48103852--48103921 Score: 122
Period size: 31 Copynumber: 2.3 Consensus size: 31
48103842 TTGGAAAATG
* *
48103852 GGCCCACACGGCCCAACTAGCTAGCTCGTGT
1 GGCCTACACGGACCAACTAGCTAGCTCGTGT
48103883 GGCCTACACGGACCAACTAGCTAGCTCGTGT
1 GGCCTACACGGACCAACTAGCTAGCTCGTGT
48103914 GGCCTACA
1 GGCCTACA
48103922 TGGCCTCACA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.21, C:0.36, G:0.26, T:0.17
Consensus pattern (31 bp):
GGCCTACACGGACCAACTAGCTAGCTCGTGT
Found at i:48103955 original size:29 final size:29
Alignment explanation
Indices: 48103906--48103980 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
48103896 CAACTAGCTA
* *
48103906 GCTCGTGTGGCCTACATGGCCTCACACAC
1 GCTCGTGTGGCCAACACGGCCTCACACAC
*
48103935 GCTCGTGTGGCCAACACGGCCTCACATAC
1 GCTCGTGTGGCCAACACGGCCTCACACAC
* * *
48103964 GCCCATGTGGCCCACAC
1 GCTCGTGTGGCCAACAC
48103981 AGCCCAAATA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.19, C:0.40, G:0.24, T:0.17
Consensus pattern (29 bp):
GCTCGTGTGGCCAACACGGCCTCACACAC
Found at i:48104385 original size:26 final size:24
Alignment explanation
Indices: 48104348--48104396 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
48104338 AAGAAACTCA
**
48104348 AAGAAGAAAAGAAAGGAAGAAAAT
1 AAGAAGAAAAGAAACAAAGAAAAT
48104372 AAGAGAGAACAAGAAACAAAGAAAA
1 AAGA-AGAA-AAGAAACAAAGAAAA
48104397 GAAAATATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 4 0.19
25 4 0.19
26 13 0.62
ACGTcount: A:0.71, C:0.04, G:0.22, T:0.02
Consensus pattern (24 bp):
AAGAAGAAAAGAAACAAAGAAAAT
Found at i:48105490 original size:16 final size:16
Alignment explanation
Indices: 48105469--48105502 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
48105459 AGGGATGGTG
*
48105469 TGTAATTTCATTTTTA
1 TGTAATTTCATTGTTA
48105485 TGTAATTTCATTGTTA
1 TGTAATTTCATTGTTA
48105501 TG
1 TG
48105503 GTGTGTAGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.06, G:0.12, T:0.59
Consensus pattern (16 bp):
TGTAATTTCATTGTTA
Found at i:48114228 original size:58 final size:59
Alignment explanation
Indices: 48114136--48114259 Score: 178
Period size: 58 Copynumber: 2.1 Consensus size: 59
48114126 CTACTGTATT
* * * *
48114136 TTGGACTTTTACTTATGTTTTTTTTATTATAATCTTGTTGTGTTATTGTTGTTGTTTAC
1 TTGGACTTTTACTTATGTCTTTTTAATTATAATCTTGTTGTATTATAGTTGTTGTTTAC
* * *
48114195 TTGGACTTTTGCTTCT-TCTTTTTAATTATAATCTTGTTGTATTGTAGTTGTTGTTTAC
1 TTGGACTTTTACTTATGTCTTTTTAATTATAATCTTGTTGTATTATAGTTGTTGTTTAC
48114253 TTGGACT
1 TTGGACT
48114260 CATGTTGTTT
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
58 44 0.76
59 14 0.24
ACGTcount: A:0.15, C:0.09, G:0.16, T:0.60
Consensus pattern (59 bp):
TTGGACTTTTACTTATGTCTTTTTAATTATAATCTTGTTGTATTATAGTTGTTGTTTAC
Found at i:48114267 original size:19 final size:19
Alignment explanation
Indices: 48114243--48114286 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
48114233 GTATTGTAGT
*
48114243 TGTTGTTTACTTGGACTCA
1 TGTTGTTTACTTGGACTAA
* *
48114262 TGTTGTTTATTTGGGCTAA
1 TGTTGTTTACTTGGACTAA
48114281 TGTTGT
1 TGTTGT
48114287 GTTTCTTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.14, C:0.09, G:0.25, T:0.52
Consensus pattern (19 bp):
TGTTGTTTACTTGGACTAA
Found at i:48118373 original size:53 final size:54
Alignment explanation
Indices: 48118307--48118469 Score: 256
Period size: 53 Copynumber: 2.9 Consensus size: 54
48118297 TTCCTAGGGA
* *
48118307 ATGGTTTACGAAGCTTCTTTTGATAAGATAATTTCTTATTTCTTACTTCTTCCT
1 ATGGTTTAGGAAGCTTCTTTTGATAAGATAATTTCTTACTTCTTACTTCTTCCT
48118361 -TGGTTTAGGAAGCTTCTTTTGATAAGATAATTTCTTACTTCTTACTTCTTCCT
1 ATGGTTTAGGAAGCTTCTTTTGATAAGATAATTTCTTACTTCTTACTTCTTCCT
48118414 AGGGAATGGTTTAGGAAGCTTCTTTTGATAAGATAATTTCTTACTTCTTACTTCTT
1 -----ATGGTTTAGGAAGCTTCTTTTGATAAGATAATTTCTTACTTCTTACTTCTT
48118470 ACTCTTCCAT
Statistics
Matches: 101, Mismatches: 2, Indels: 7
0.92 0.02 0.06
Matches are distributed among these distances:
53 51 0.50
59 50 0.50
ACGTcount: A:0.23, C:0.15, G:0.14, T:0.48
Consensus pattern (54 bp):
ATGGTTTAGGAAGCTTCTTTTGATAAGATAATTTCTTACTTCTTACTTCTTCCT
Found at i:48118430 original size:59 final size:59
Alignment explanation
Indices: 48118297--48118469 Score: 286
Period size: 59 Copynumber: 3.0 Consensus size: 59
48118287 TATAATCTTT
* *
48118297 TTCCTAGGGAATGGTTTACGAAGCTTCTTTTGATAAGATAATTTCTTATTTCTTACTTC
1 TTCCTAGGGAATGGTTTAGGAAGCTTCTTTTGATAAGATAATTTCTTACTTCTTACTTC
48118356 TTCCT------TGGTTTAGGAAGCTTCTTTTGATAAGATAATTTCTTACTTCTTACTTC
1 TTCCTAGGGAATGGTTTAGGAAGCTTCTTTTGATAAGATAATTTCTTACTTCTTACTTC
48118409 TTCCTAGGGAATGGTTTAGGAAGCTTCTTTTGATAAGATAATTTCTTACTTCTTACTTC
1 TTCCTAGGGAATGGTTTAGGAAGCTTCTTTTGATAAGATAATTTCTTACTTCTTACTTC
48118468 TT
1 TT
48118470 ACTCTTCCAT
Statistics
Matches: 106, Mismatches: 2, Indels: 12
0.88 0.02 0.10
Matches are distributed among these distances:
53 51 0.48
59 55 0.52
ACGTcount: A:0.23, C:0.16, G:0.15, T:0.47
Consensus pattern (59 bp):
TTCCTAGGGAATGGTTTAGGAAGCTTCTTTTGATAAGATAATTTCTTACTTCTTACTTC
Found at i:48123839 original size:40 final size:40
Alignment explanation
Indices: 48123743--48124005 Score: 299
Period size: 40 Copynumber: 6.7 Consensus size: 40
48123733 TTGAATGATG
* *
48123743 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
*
48123782 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
48123822 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
48123862 TCTGGGCTAAG-CCCAAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
48123901 TCTGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
48123940 TCCGGGTTAAGTCCCGAAGACATTTGTGCG-GATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TTACTA-AA
*
48123981 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
48124006 AACGAGGAGC
Statistics
Matches: 197, Mismatches: 19, Indels: 15
0.85 0.08 0.06
Matches are distributed among these distances:
39 92 0.47
40 95 0.48
41 10 0.05
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:48123892 original size:39 final size:40
Alignment explanation
Indices: 48123743--48124005 Score: 292
Period size: 39 Copynumber: 6.7 Consensus size: 40
48123733 TTGAATGATG
*
48123743 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAA-A
* *
48123782 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAA
* *
48123822 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* * *
48123862 TCTGGGCTAAG-CCCAAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* *
48123901 TCTGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* *
48123940 TCCGGGTTAAGTCCCGAAGACATTTGTGCG-GATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTA-AA
*
48123981 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
48124006 AACGAGGAGC
Statistics
Matches: 195, Mismatches: 20, Indels: 17
0.84 0.09 0.07
Matches are distributed among these distances:
39 92 0.47
40 91 0.47
41 12 0.06
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
Done.