Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 6 of 203
Found at i:1699880 original size:12 final size:12
Alignment explanation
Indices: 1699863--1699904 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
1699853 CTTCACATTA
1699863 AATAAATAATGG
1 AATAAATAATGG
**
1699875 AATAAA-ACATTA
1 AATAAATA-ATGG
1699887 AATAAATAATGG
1 AATAAATAATGG
1699899 AATAAA
1 AATAAA
1699905 ACATACCTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
11 1 0.04
12 22 0.92
13 1 0.04
ACGTcount: A:0.64, C:0.02, G:0.10, T:0.24
Consensus pattern (12 bp):
AATAAATAATGG
Found at i:1699884 original size:24 final size:24
Alignment explanation
Indices: 1699857--1699908 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
1699847 ACGGTTCTTC
1699857 ACATTAAATAAATAATGGAATAAA
1 ACATTAAATAAATAATGGAATAAA
1699881 ACATTAAATAAATAATGGAATAAA
1 ACATTAAATAAATAATGGAATAAA
1699905 ACAT
1 ACAT
1699909 ACCTTACAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.62, C:0.06, G:0.08, T:0.25
Consensus pattern (24 bp):
ACATTAAATAAATAATGGAATAAA
Found at i:1701627 original size:22 final size:23
Alignment explanation
Indices: 1701584--1701629 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
1701574 AAAAATGTTA
*
1701584 AAAATCATTTAAAATTATAAAAT
1 AAAATAATTTAAAATTATAAAAT
*
1701607 AAAATAATTTAAATTTA-AAAAT
1 AAAATAATTTAAAATTATAAAAT
1701629 A
1 A
1701630 TATATTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (23 bp):
AAAATAATTTAAAATTATAAAAT
Found at i:1707163 original size:40 final size:40
Alignment explanation
Indices: 1707108--1707218 Score: 177
Period size: 40 Copynumber: 2.8 Consensus size: 40
1707098 ACATTGGATT
*
1707108 ATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGAC
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTCAC
*
1707148 ATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTCAT
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTCAC
* * *
1707188 ATGTCCGGGTTAAGACCCGAAGGCAAATATG
1 ATATCCGGGCTAAGACCCGAAGGCAATTATG
1707219 TTTGCGGCTG
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 66 1.00
ACGTcount: A:0.31, C:0.22, G:0.27, T:0.21
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTCAC
Found at i:1714899 original size:25 final size:25
Alignment explanation
Indices: 1714871--1714920 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
1714861 TGTATGTGTG
*
1714871 TATATGTTCCAATTGCTCTACCACA
1 TATATGTTCCAATTGCTCCACCACA
1714896 TATATGTTCCAATTGCTCCACCACA
1 TATATGTTCCAATTGCTCCACCACA
1714921 ATAAAAGATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.34
Consensus pattern (25 bp):
TATATGTTCCAATTGCTCCACCACA
Found at i:1716962 original size:22 final size:23
Alignment explanation
Indices: 1716937--1716983 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
1716927 TGGACTCATA
1716937 AAATA-TAAAAATAAAATATTTT
1 AAATATTAAAAATAAAATATTTT
* *
1716959 AAATATTTTAATATAAAATATTTT
1 AAATA-TTAAAAATAAAATATTTT
1716983 A
1 A
1716984 TTTCGAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 5 0.24
24 16 0.76
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
AAATATTAAAAATAAAATATTTT
Found at i:1717041 original size:32 final size:31
Alignment explanation
Indices: 1717000--1717065 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 31
1716990 AATATAATTT
*
1717000 AAAATAAAATATTTTAATATAATTCAATATA
1 AAAATAAAATATTTTAATATAATTCAAAATA
*
1717031 AAAATAAAAATATTTTAATATAATTTAAAATA
1 AAAAT-AAAATATTTTAATATAATTCAAAATA
1717063 AAA
1 AAA
1717066 TATTTTAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 5 0.16
32 27 0.84
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (31 bp):
AAAATAAAATATTTTAATATAATTCAAAATA
Found at i:1717070 original size:25 final size:25
Alignment explanation
Indices: 1716990--1717080 Score: 119
Period size: 25 Copynumber: 3.4 Consensus size: 25
1716980 TTTATTTCGA
1716990 AATATAATTTAAAATAAAATATTTT
1 AATATAATTTAAAATAAAATATTTT
1717015 AATATAATTCAATATAAAAATAAAAATATTTT
1 AATATAA-T---T-T-AAAAT-AAAATATTTT
1717047 AATATAATTTAAAATAAAATATTTT
1 AATATAATTTAAAATAAAATATTTT
1717072 AATATAATT
1 AATATAATT
1717081 AATTACATTG
Statistics
Matches: 59, Mismatches: 0, Indels: 14
0.81 0.00 0.19
Matches are distributed among these distances:
25 26 0.44
26 6 0.10
27 1 0.02
28 1 0.02
29 1 0.02
30 1 0.02
31 6 0.10
32 17 0.29
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (25 bp):
AATATAATTTAAAATAAAATATTTT
Found at i:1717306 original size:44 final size:46
Alignment explanation
Indices: 1717249--1717337 Score: 103
Period size: 46 Copynumber: 2.0 Consensus size: 46
1717239 ACATCTATTT
1717249 CATTCAAAGAAAC-ATAAGAA-TACT-ATTACAATTTTATTCCATTC
1 CATTCAAAGAAACAAT-AGAATTACTAATTACAATTTTATTCCATTC
** * **
1717293 CATTCAATTAAACAATTGAATTACTAATTACGGTTTTATTCCATT
1 CATTCAAAGAAACAATAGAATTACTAATTACAATTTTATTCCATT
1717338 ATAGCCCTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
44 14 0.38
45 6 0.16
46 17 0.46
ACGTcount: A:0.39, C:0.17, G:0.06, T:0.38
Consensus pattern (46 bp):
CATTCAAAGAAACAATAGAATTACTAATTACAATTTTATTCCATTC
Found at i:1725075 original size:6 final size:6
Alignment explanation
Indices: 1725064--1725116 Score: 61
Period size: 6 Copynumber: 8.8 Consensus size: 6
1725054 TAATTTAACC
* * * * *
1725064 ATTTTT ATTTTT ATTTTT ATTATA ATTTTT GTTTTT AGTTTA ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
1725112 ATTTT
1 ATTTT
1725117 CTAATATTTC
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.75
Consensus pattern (6 bp):
ATTTTT
Found at i:1725091 original size:18 final size:18
Alignment explanation
Indices: 1725070--1725116 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
1725060 AACCATTTTT
1725070 ATTTTTATTTTTA-TTATA
1 ATTTTTATTTTTAGTT-TA
*
1725088 ATTTTTGTTTTTAGTTTA
1 ATTTTTATTTTTAGTTTA
1725106 ATTTTTATTTT
1 ATTTTTATTTT
1725117 CTAATATTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 24 0.92
19 2 0.08
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.74
Consensus pattern (18 bp):
ATTTTTATTTTTAGTTTA
Found at i:1730689 original size:6 final size:6
Alignment explanation
Indices: 1730680--1730736 Score: 57
Period size: 6 Copynumber: 9.7 Consensus size: 6
1730670 TTTGTTTTCC
* *
1730680 TTTTAG TTTT-A TTTTAA TTTTAA TTTTAA TTTTTTA TTTT-A TGTTTAA
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA -TTTTAA TTTTAA T-TTTAA
1730728 -TTTAA TTTT
1 TTTTAA TTTT
1730737 TAGTTATTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
5 11 0.25
6 27 0.61
7 6 0.14
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.72
Consensus pattern (6 bp):
TTTTAA
Found at i:1730705 original size:12 final size:12
Alignment explanation
Indices: 1730680--1730736 Score: 57
Period size: 11 Copynumber: 4.8 Consensus size: 12
1730670 TTTGTTTTCC
*
1730680 TTTTAGTTTT-A
1 TTTTAATTTTAA
1730691 TTTTAATTTTAA
1 TTTTAATTTTAA
*
1730703 TTTTAATTTTTTA
1 TTTTAA-TTTTAA
1730716 TTTT-ATGTTTAA
1 TTTTAAT-TTTAA
1730728 -TTTAATTTT
1 TTTTAATTTT
1730737 TAGTTATTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
11 16 0.41
12 14 0.36
13 9 0.23
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.72
Consensus pattern (12 bp):
TTTTAATTTTAA
Found at i:1730718 original size:19 final size:19
Alignment explanation
Indices: 1730691--1730730 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
1730681 TTTAGTTTTA
1730691 TTTTAATTTTAAT-TTTAAT
1 TTTTAATTTT-ATGTTTAAT
*
1730710 TTTTTATTTTATGTTTAAT
1 TTTTAATTTTATGTTTAAT
1730729 TT
1 TT
1730731 AATTTTTAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 2 0.11
19 17 0.89
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (19 bp):
TTTTAATTTTATGTTTAAT
Found at i:1730720 original size:25 final size:24
Alignment explanation
Indices: 1730686--1730737 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 24
1730676 TTCCTTTTAG
1730686 TTTTATTTTAAT-TTTAATTTTAATT
1 TTTTATTTT-ATGTTTAA-TTTAATT
1730711 TTTTATTTTATGTTTAATTTAATT
1 TTTTATTTTATGTTTAATTTAATT
1730735 TTT
1 TTT
1730738 AGTTATTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
24 12 0.46
25 14 0.54
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (24 bp):
TTTTATTTTATGTTTAATTTAATT
Found at i:1730754 original size:12 final size:11
Alignment explanation
Indices: 1730680--1730758 Score: 61
Period size: 12 Copynumber: 6.8 Consensus size: 11
1730670 TTTGTTTTCC
*
1730680 TTTTAGTTTTA
1 TTTTATTTTTA
*
1730691 TTTTAATTTTAA
1 TTTT-ATTTTTA
1730703 TTTTAATTTTTTA
1 TTTT-A-TTTTTA
*
1730716 TTTTATGTTTAA
1 TTTTAT-TTTTA
*
1730728 TTTAATTTTTA
1 TTTTATTTTTA
*
1730739 -GTTATTTTTA
1 TTTTATTTTTA
1730749 TTGTTATTTT
1 TT-TTATTTT
1730759 CTTAGACTTA
Statistics
Matches: 54, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
10 8 0.15
11 9 0.17
12 28 0.52
13 9 0.17
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:1735515 original size:22 final size:21
Alignment explanation
Indices: 1735484--1735528 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
1735474 TAACATATAG
*
1735484 TTAATTAAGT-TAATTAGCAAA
1 TTAATTAAGTATAAATAG-AAA
1735505 TTAATCTAAGTATAAATAGAAA
1 TTAAT-TAAGTATAAATAGAAA
1735527 TT
1 TT
1735529 CAAGTGGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 5 0.24
22 10 0.48
23 6 0.29
ACGTcount: A:0.49, C:0.04, G:0.09, T:0.38
Consensus pattern (21 bp):
TTAATTAAGTATAAATAGAAA
Found at i:1739400 original size:13 final size:13
Alignment explanation
Indices: 1739384--1739416 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
1739374 ATCCATTTCA
*
1739384 CATTTCATATTTT
1 CATTTCACATTTT
1739397 CATTTCACATTTT
1 CATTTCACATTTT
1739410 CATTTCA
1 CATTTCA
1739417 AGTATCCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.24, C:0.21, G:0.00, T:0.55
Consensus pattern (13 bp):
CATTTCACATTTT
Found at i:1739426 original size:13 final size:13
Alignment explanation
Indices: 1739410--1739466 Score: 53
Period size: 13 Copynumber: 4.5 Consensus size: 13
1739400 TTCACATTTT
*
1739410 CATTTCAAGTATC
1 CATTTCAAATATC
*
1739423 CATTTCAAATATG
1 CATTTCAAATATC
* *
1739436 CATTTCATATAAC
1 CATTTCAAATATC
* *
1739449 CATTTTACAT-TC
1 CATTTCAAATATC
1739461 CATTTC
1 CATTTC
1739467 CACCAAATGA
Statistics
Matches: 35, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
12 6 0.17
13 29 0.83
ACGTcount: A:0.32, C:0.23, G:0.04, T:0.42
Consensus pattern (13 bp):
CATTTCAAATATC
Found at i:1739549 original size:25 final size:25
Alignment explanation
Indices: 1739509--1739569 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
1739499 ACCTGGGAAC
1739509 AATGCTCACACAAGCTATGACGGTA
1 AATGCTCACACAAGCTATGACGGTA
* ** *
1739534 TATGCTCACATGAGCTATGACTGTA
1 AATGCTCACACAAGCTATGACGGTA
1739559 AATGCTCACAC
1 AATGCTCACAC
1739570 GAACTGTGAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.25
Consensus pattern (25 bp):
AATGCTCACACAAGCTATGACGGTA
Found at i:1743500 original size:17 final size:17
Alignment explanation
Indices: 1743478--1743511 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
1743468 AAGAGAGTTG
1743478 TGAGAGAGGATGA-GAGA
1 TGAGAG-GGATGATGAGA
1743495 TGAGAGGGATGATGAGA
1 TGAGAGGGATGATGAGA
1743512 AATGAGCTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.38, C:0.00, G:0.47, T:0.15
Consensus pattern (17 bp):
TGAGAGGGATGATGAGA
Found at i:1750254 original size:21 final size:22
Alignment explanation
Indices: 1750209--1750256 Score: 62
Period size: 25 Copynumber: 2.1 Consensus size: 22
1750199 AATCTAAGAC
1750209 AATGAAATCAGCAGGANTCTAAAAT
1 AATGAAATCAGCAGGA---TAAAAT
1750234 AATGAAATCAGCAGGA-AAAAT
1 AATGAAATCAGCAGGATAAAAT
1750255 AA
1 AA
1750257 ATTTATCGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 7 0.30
25 16 0.70
ACGTcount: A:0.54, C:0.10, G:0.17, T:0.17
Consensus pattern (22 bp):
AATGAAATCAGCAGGATAAAAT
Found at i:1756781 original size:23 final size:22
Alignment explanation
Indices: 1756738--1756781 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
1756728 TTCTAAGTCA
1756738 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
1756761 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
1756782 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:1756985 original size:51 final size:51
Alignment explanation
Indices: 1756925--1757111 Score: 209
Period size: 51 Copynumber: 3.7 Consensus size: 51
1756915 TCAGTTCACA
* *
1756925 TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCGATACAAG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATTACCATCCGGTACAAG
* * ** * *
1756976 TAGTAGCCTGCACATAGTACTACACACATGATCAAAACTATCCGGTACGCA-
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATTACCATCCGGTAC-AAG
* ** * * *
1757027 TAGTAGCCTGCACATAGTACTACACATGCAACC--TATCATTCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATTACCA-TCCGGTACAAG
1757077 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
1757112 AACTTTCACT
Statistics
Matches: 109, Mismatches: 22, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
49 2 0.02
50 37 0.34
51 69 0.63
52 1 0.01
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.24
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATTACCATCCGGTACAAG
Found at i:1760726 original size:137 final size:137
Alignment explanation
Indices: 1760480--1760747 Score: 394
Period size: 137 Copynumber: 2.0 Consensus size: 137
1760470 TTAGGGTTTT
* * * * * *
1760480 CATGTTTCGGGTGCTGGTCTTGAATGTTCTACTGATGGCTGAGATCTGGCATTTTTGTGGATACT
1 CATGTTTCAGGTGCTGATCTTGAATGTCCTACCGATGGCTGAGATCCGACATTTTTGTGGATACT
* *
1760545 CATCAGCTTGTGTGAGTAGCATCGTGCAGCTTACATTCCGACCATCAGCTTGTGTGAGTAGACCC
66 CACCAGCTTGTGTGAGCAGCATCGTGCAGCTTACATTCCGACCATCAGCTTGTGTGAGTAGACCC
1760610 AGGTTAC
131 AGGTTAC
*
1760617 CATGTTTCAGGTGCTGATCTTGAATGTCCTACCGATGGCTGAGTTCCGACATTTTTTGTGGATAC
1 CATGTTTCAGGTGCTGATCTTGAATGTCCTACCGATGGCTGAGATCCGACA-TTTTTGTGGATAC
* * * * *
1760682 TCGCCCGCTTGTGTGAGCGGCATCGTGCAGC-TACATTTCTACCATCAGCTTGTGTGAGTAGACC
65 TCACCAGCTTGTGTGAGCAGCATCGTGCAGCTTACATTCCGACCATCAGCTTGTGTGAGTAGACC
1760746 CA
130 CA
1760748 TTTATGGCTC
Statistics
Matches: 116, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
137 77 0.66
138 39 0.34
ACGTcount: A:0.19, C:0.22, G:0.26, T:0.33
Consensus pattern (137 bp):
CATGTTTCAGGTGCTGATCTTGAATGTCCTACCGATGGCTGAGATCCGACATTTTTGTGGATACT
CACCAGCTTGTGTGAGCAGCATCGTGCAGCTTACATTCCGACCATCAGCTTGTGTGAGTAGACCC
AGGTTAC
Found at i:1766560 original size:79 final size:81
Alignment explanation
Indices: 1766424--1766608 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
1766414 TTGAATGATG
* *
1766424 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
1766488 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
1766503 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
1766565 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
1766583 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
1766609 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:1766622 original size:40 final size:40
Alignment explanation
Indices: 1766425--1766608 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
1766415 TGAATGATGT
* * * *
1766425 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
1766465 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
1766505 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
1766543 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
1766584 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
1766609 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:1766630 original size:79 final size:79
Alignment explanation
Indices: 1766477--1766641 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
1766467 GGACTAAGAT
* * **
1766477 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
1766542 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
1766556 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
1766619 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
1766635 CCGAAGG
1 CCGAAGG
1766642 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:1768670 original size:16 final size:16
Alignment explanation
Indices: 1768620--1768677 Score: 55
Period size: 16 Copynumber: 3.6 Consensus size: 16
1768610 AACCTCACTA
* * *
1768620 TCTATTGTTTTCACAA
1 TCTATAGTTTTCATAG
* *
1768636 TCTAGAGTTTTC-TCTG
1 TCTATAGTTTTCAT-AG
1768652 TCTATAGTTTTCATAG
1 TCTATAGTTTTCATAG
1768668 TCTATAGTTT
1 TCTATAGTTT
1768678 CACATCTAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
16 32 0.97
17 1 0.03
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.52
Consensus pattern (16 bp):
TCTATAGTTTTCATAG
Found at i:1770336 original size:40 final size:40
Alignment explanation
Indices: 1770292--1770516 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
1770282 GCTCCTTGTT
* *
1770292 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1770332 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1770372 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
1770412 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** * ** *
1770451 CAAATACCTTC-GGATCTTAGTCCGGATTTGGTCTCTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
1770492 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
1770517 CATCATTCAA
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
38 2 0.01
39 31 0.19
40 119 0.72
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:1770476 original size:119 final size:120
Alignment explanation
Indices: 1770294--1770516 Score: 292
Period size: 119 Copynumber: 1.9 Consensus size: 120
1770284 TCCTTGTTCA
* *
1770294 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATACCTTCGGGACTTAACCCGGAT
*
1770359 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 TTAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
1770414 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATACCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATACCTTCGGGA-CTTAACCCGG
* ** *
1770476 ATTTGGTCTCTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATTTAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
1770517 CATCATTCAA
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
118 4 0.04
119 65 0.73
120 20 0.22
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATACCTTCGGGACTTAACCCGGAT
TTAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:1773038 original size:25 final size:25
Alignment explanation
Indices: 1772982--1773039 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
1772972 AGGGTCAAAC
* * * *
1772982 GATCATGTCACACGCTCGTGTGCCA
1 GATCGTGTCACACGCCCATGTACCA
* *
1773007 GACCGTGTCACACGCCCATGTACTA
1 GATCGTGTCACACGCCCATGTACCA
1773032 GATCGTGT
1 GATCGTGT
1773040 AACTCATTTA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.21, C:0.31, G:0.24, T:0.24
Consensus pattern (25 bp):
GATCGTGTCACACGCCCATGTACCA
Found at i:1783838 original size:11 final size:11
Alignment explanation
Indices: 1783822--1783846 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1783812 TATATTACGA
1783822 CACATATTAAT
1 CACATATTAAT
1783833 CACATATTAAT
1 CACATATTAAT
1783844 CAC
1 CAC
1783847 TTTCAGTCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (11 bp):
CACATATTAAT
Found at i:1787219 original size:27 final size:27
Alignment explanation
Indices: 1787168--1787222 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
1787158 CTTATTTCTT
* * *
1787168 TTCCCTACTATTTTTCGCATTATTTTC
1 TTCCCTACAATTTTTCACATCATTTTC
*
1787195 TTCCCTACAATTTTTCATATCATTTTC
1 TTCCCTACAATTTTTCACATCATTTTC
1787222 T
1 T
1787223 CTTAATTCTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.18, C:0.25, G:0.02, T:0.55
Consensus pattern (27 bp):
TTCCCTACAATTTTTCACATCATTTTC
Found at i:1790738 original size:51 final size:50
Alignment explanation
Indices: 1790611--1790787 Score: 223
Period size: 51 Copynumber: 3.5 Consensus size: 50
1790601 GATACACATT
* * *
1790611 GCCTTCACATAGTACTACACACGTAATC-AAGTTTTACGGTCCACGTAGTA
1 GCCTTCACATAGTACTACACACGTGACCAAAGTTTT-CGGTACACGTAGTA
*
1790661 GCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGTA
1 GCCTTCACATAGTACTACACACGTGACCAAAG-TTTTCGGTACACGTAGTA
* * * * *
1790712 GCCTTCACTTAGTACTACGCATGTGACCATTA-TTTATCGATACACGTAGTA
1 GCCTTCACATAGTACTACACACGTGACCA-AAGTTT-TCGGTACACGTAGTA
1790763 GCCTTCACATAGTACTACACACGTG
1 GCCTTCACATAGTACTACACACGTG
1790788 TTCATCGATA
Statistics
Matches: 110, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
50 29 0.26
51 76 0.69
52 5 0.05
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (50 bp):
GCCTTCACATAGTACTACACACGTGACCAAAGTTTTCGGTACACGTAGTA
Found at i:1795655 original size:23 final size:23
Alignment explanation
Indices: 1795629--1795676 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
1795619 TAAATTATAA
*
1795629 ACTCTTTCCTTGTCTCAGGTTGC
1 ACTCTTTCCCTGTCTCAGGTTGC
*
1795652 ACTCTTTCCCTGTTTCAGGTTGC
1 ACTCTTTCCCTGTCTCAGGTTGC
1795675 AC
1 AC
1795677 CAACACCAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.10, C:0.31, G:0.17, T:0.42
Consensus pattern (23 bp):
ACTCTTTCCCTGTCTCAGGTTGC
Found at i:1811537 original size:14 final size:14
Alignment explanation
Indices: 1811511--1811544 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
1811501 TGAAAACTAG
1811511 TTTTTTTTCACAAT
1 TTTTTTTTCACAAT
1811525 TTCTTTTTT-ACAAT
1 TT-TTTTTTCACAAT
1811539 TTTTTT
1 TTTTTT
1811545 CACAACTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.21
14 9 0.47
15 6 0.32
ACGTcount: A:0.18, C:0.12, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTTTTTCACAAT
Found at i:1813776 original size:51 final size:50
Alignment explanation
Indices: 1813643--1813834 Score: 210
Period size: 51 Copynumber: 3.8 Consensus size: 50
1813633 ACTATTATCA
* * *
1813643 TTCGATACACGTATTAGCCTTCACATAGTACTACACACGTAATC-AAGTT
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTT
* *
1813692 TTACGTTCCACGTAGTAGCCTTCACATTA-TACTACACACGTGACCAAAGCTT
1 TT-CGATACACGTAGTAGCCTTCACA-TAGTACTACACACGTGACCAAAG-TT
* * * * *
1813744 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATTA-TT
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AAGTT
* *
1813794 TATCAATAAACGTAGTAGCCTTCACATAGTACTACACACGT
1 T-TCGATACACGTAGTAGCCTTCACATAGTACTACACACGT
1813835 ATTCATCGAT
Statistics
Matches: 119, Mismatches: 17, Indels: 12
0.80 0.11 0.08
Matches are distributed among these distances:
49 2 0.02
50 39 0.33
51 73 0.61
52 5 0.04
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.30
Consensus pattern (50 bp):
TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTT
Found at i:1824504 original size:20 final size:20
Alignment explanation
Indices: 1824461--1824504 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
1824451 ACTAGTTCAC
* *
1824461 ACAATAGCATAGGTTCGCAT
1 ACAATAGCATAGGTTCACAA
* *
1824481 ACAATAGTATAGTTTCACAA
1 ACAATAGCATAGGTTCACAA
1824501 ACAA
1 ACAA
1824505 ATAGACTTCG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.25
Consensus pattern (20 bp):
ACAATAGCATAGGTTCACAA
Found at i:1825677 original size:9 final size:10
Alignment explanation
Indices: 1825651--1825680 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
1825641 AAAGCTGTAC
*
1825651 TTTAAAAATT
1 TTTAAAAATG
1825661 TTTAAAAATG
1 TTTAAAAATG
1825671 TTTAAAAATG
1 TTTAAAAATG
1825681 CTTAGAAGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (10 bp):
TTTAAAAATG
Found at i:1837513 original size:22 final size:23
Alignment explanation
Indices: 1837488--1837571 Score: 86
Period size: 22 Copynumber: 3.8 Consensus size: 23
1837478 ATTGTGATGT
* *
1837488 AGTGGTGGTGTAGTGGTGATA-A
1 AGTGGTTGTGTGGTGGTGATATA
*
1837510 AGTGGTTGAGTGGTGGTGATATA
1 AGTGGTTGTGTGGTGGTGATATA
*
1837533 A-TGGTTGTATGGTGGTGATAT-
1 AGTGGTTGTGTGGTGGTGATATA
*
1837554 GGTGGTTGT-TGGGTGGTG
1 AGTGGTTGTGT-GGTGGTG
1837572 TTTTGGTTTG
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
21 1 0.02
22 50 0.94
23 2 0.04
ACGTcount: A:0.17, C:0.00, G:0.46, T:0.37
Consensus pattern (23 bp):
AGTGGTTGTGTGGTGGTGATATA
Found at i:1839599 original size:21 final size:21
Alignment explanation
Indices: 1839575--1839614 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1839565 TTGGTATCAT
* *
1839575 TTTTAACAAAGGTATCGATTA
1 TTTTAAAAAAAGTATCGATTA
1839596 TTTTAAAAAAAGTATCGAT
1 TTTTAAAAAAAGTATCGAT
1839615 ACTGAAATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.07, G:0.12, T:0.38
Consensus pattern (21 bp):
TTTTAAAAAAAGTATCGATTA
Found at i:1841983 original size:79 final size:81
Alignment explanation
Indices: 1841847--1842031 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
1841837 TTGAATGATG
*
1841847 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
1841911 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
1841926 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
1841988 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
1842006 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
1842032 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:1842045 original size:40 final size:40
Alignment explanation
Indices: 1841848--1842031 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
1841838 TGAATGATGT
* * * *
1841848 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
1841888 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
1841928 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
1841966 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
1842007 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
1842032 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:1842053 original size:79 final size:79
Alignment explanation
Indices: 1841900--1842064 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
1841890 GGACTAAGAT
* **
1841900 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
1841965 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
1841979 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
1842042 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
1842058 CCGAAGG
1 CCGAAGG
1842065 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:1844261 original size:40 final size:40
Alignment explanation
Indices: 1844217--1844296 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
1844207 ATCATGTGTA
*
1844217 AACGCTTCGAGGATGGGCTGAATGAAGATATAAAAATGTT
1 AACGCTTCAAGGATGGGCTGAATGAAGATATAAAAATGTT
1844257 AACGCTTCAAGGATGGGCTGAATGAAGATATAAAAATGTT
1 AACGCTTCAAGGATGGGCTGAATGAAGATATAAAAATGTT
1844297 CGTTGGCATT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.39, C:0.10, G:0.26, T:0.25
Consensus pattern (40 bp):
AACGCTTCAAGGATGGGCTGAATGAAGATATAAAAATGTT
Found at i:1849638 original size:40 final size:41
Alignment explanation
Indices: 1849542--1849646 Score: 126
Period size: 40 Copynumber: 2.6 Consensus size: 41
1849532 CGAATGATGT
*
1849542 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATAA
* * * *
1849582 CCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTATAA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCTAAGTGACCATAA
*
1849622 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
1849647 AACGAGTAGC
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
39 1 0.02
40 46 0.84
41 8 0.15
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (41 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATAA
Found at i:1860721 original size:49 final size:50
Alignment explanation
Indices: 1860649--1860757 Score: 139
Period size: 50 Copynumber: 2.2 Consensus size: 50
1860639 TACGGAGGAA
* * * *
1860649 GTATCTAGCAGTATATTTGCAATT-TCTGATGGCTTGACCATAATATTTT
1 GTATCTGGCAGTATATTTACAATTATCTGATGGCTCGACCACAATATTTT
* * *
1860698 GTATCTGGTAGTATATTTACAATTATTTGGTGGCTCGACCACAATATTTT
1 GTATCTGGCAGTATATTTACAATTATCTGATGGCTCGACCACAATATTTT
*
1860748 GTTTCTGGCA
1 GTATCTGGCA
1860758 TCTCAACTGC
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
49 21 0.42
50 29 0.58
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.42
Consensus pattern (50 bp):
GTATCTGGCAGTATATTTACAATTATCTGATGGCTCGACCACAATATTTT
Found at i:1861203 original size:24 final size:24
Alignment explanation
Indices: 1861175--1861227 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
1861165 TGTGTTTTTA
*
1861175 TTTCTATAGACTTTGGCTTGGGAC
1 TTTCTATAGACTTTGGCTTGCGAC
* *
1861199 TTTCTTTTGACTTTGGCTTGCGAC
1 TTTCTATAGACTTTGGCTTGCGAC
1861223 TTTCT
1 TTTCT
1861228 TTTGGACTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.11, C:0.19, G:0.21, T:0.49
Consensus pattern (24 bp):
TTTCTATAGACTTTGGCTTGCGAC
Found at i:1861228 original size:24 final size:25
Alignment explanation
Indices: 1861183--1861237 Score: 94
Period size: 24 Copynumber: 2.2 Consensus size: 25
1861173 TATTTCTATA
*
1861183 GACTTTGGCTTGGGACTTTCTTTT-
1 GACTTTGGCTTGCGACTTTCTTTTG
1861207 GACTTTGGCTTGCGACTTTCTTTTG
1 GACTTTGGCTTGCGACTTTCTTTTG
1861232 GACTTT
1 GACTTT
1861238 AGATTTTGGT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 23 0.79
25 6 0.21
ACGTcount: A:0.09, C:0.18, G:0.24, T:0.49
Consensus pattern (25 bp):
GACTTTGGCTTGCGACTTTCTTTTG
Found at i:1862892 original size:23 final size:23
Alignment explanation
Indices: 1862861--1862913 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
1862851 TTACAAGCAG
* *
1862861 TAAATTTATATGA-ATTTATATTA
1 TAAAATTATATGATATTT-TAGTA
*
1862884 TAAAATTATTTGATATTTTAGTA
1 TAAAATTATATGATATTTTAGTA
1862907 -AAAATTA
1 TAAAATTA
1862914 AGCATTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 7 0.27
23 15 0.58
24 4 0.15
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (23 bp):
TAAAATTATATGATATTTTAGTA
Found at i:1863654 original size:19 final size:20
Alignment explanation
Indices: 1863620--1863674 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 20
1863610 AAAAACCAAA
1863620 AATAAAAATCAA-TAAAAGTT
1 AATAAAAAT-AATTAAAAGTT
**
1863640 -ATAAAAATAATTAAATTTT
1 AATAAAAATAATTAAAAGTT
1863659 AATAAAAAT-ATTAAAA
1 AATAAAAATAATTAAAA
1863675 TATTAAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 2 0.07
19 20 0.67
20 8 0.27
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (20 bp):
AATAAAAATAATTAAAAGTT
Found at i:1863674 original size:8 final size:8
Alignment explanation
Indices: 1863663--1863687 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
1863653 AATTTTAATA
1863663 AAAATATT
1 AAAATATT
1863671 AAAATATT
1 AAAATATT
1863679 AAAATATT
1 AAAATATT
1863687 A
1 A
1863688 TTAATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
AAAATATT
Found at i:1863728 original size:20 final size:20
Alignment explanation
Indices: 1863705--1863780 Score: 79
Period size: 20 Copynumber: 4.0 Consensus size: 20
1863695 TTTATGATTT
1863705 ATATTTATTTATAATTTTTA
1 ATATTTATTTATAATTTTTA
*
1863725 ATATATATTTA-AA--TTTA
1 ATATTTATTTATAATTTTTA
*
1863742 ATAATT-TTTATAATTTTTA
1 ATATTTATTTATAATTTTTA
* *
1863761 TTGATTTTTTTATAATTTTT
1 AT-ATTTATTTATAATTTTT
1863781 TTGCCTCATA
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
16 4 0.09
17 10 0.22
19 7 0.15
20 13 0.28
21 12 0.26
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.64
Consensus pattern (20 bp):
ATATTTATTTATAATTTTTA
Found at i:1863756 original size:9 final size:9
Alignment explanation
Indices: 1863702--1863780 Score: 54
Period size: 9 Copynumber: 8.3 Consensus size: 9
1863692 TTTTTTATGA
*
1863702 TTTATATTT
1 TTTATAATT
1863711 ATTTATAATT
1 -TTTATAATT
*
1863721 TTTAATATATA
1 TTT-ATA-ATT
1863732 TTTA-AA-T
1 TTTATAATT
*
1863739 TTAATAATT
1 TTTATAATT
1863748 TTTATAATT
1 TTTATAATT
*
1863757 TTTATTGATTTT
1 TTTA-T-A-ATT
1863769 TTTATAATT
1 TTTATAATT
1863778 TTT
1 TTT
1863781 TTGCCTCATA
Statistics
Matches: 55, Mismatches: 7, Indels: 15
0.71 0.09 0.19
Matches are distributed among these distances:
7 3 0.05
8 3 0.05
9 22 0.40
10 14 0.25
11 7 0.13
12 6 0.11
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (9 bp):
TTTATAATT
Found at i:1866345 original size:108 final size:107
Alignment explanation
Indices: 1866177--1866383 Score: 292
Period size: 108 Copynumber: 1.9 Consensus size: 107
1866167 ATTTTGACTT
* *
1866177 TAAGAATTAAAAAATTAGTGATGAAAAAAGATATATAACAATTTTTATAGTTTACTAAAAAAACT
1 TAAGAATTAAAAAATTAATGATGAAAAAAGATATATAACAACTTTTATAGTTTACTAAAAAAACT
* *
1866242 AAACAACAGTTGAAATTTTTCTTTGGGGGTTAAAACCTAATTG
66 AAACAACAGTTGAAAGTTTTC-TGGGGGGTTAAAACCTAATTG
* * * * *
1866285 TAAGAATTAAAACATTAATGACT-AAAACAGATATATGACTACTTTT-TAGTTTATTAAAAAAAA
1 TAAGAATTAAAAAATTAATGA-TGAAAAAAGATATATAACAACTTTTATAGTTTACT-AAAAAAA
1866348 CTAAACAACAGTTGAAAGTTTTCTGGGGGGTTAAAA
64 CTAAACAACAGTTGAAAGTTTTCTGGGGGGTTAAAA
1866384 AGCAAAATTT
Statistics
Matches: 88, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
107 20 0.23
108 67 0.76
109 1 0.01
ACGTcount: A:0.46, C:0.08, G:0.14, T:0.32
Consensus pattern (107 bp):
TAAGAATTAAAAAATTAATGATGAAAAAAGATATATAACAACTTTTATAGTTTACTAAAAAAACT
AAACAACAGTTGAAAGTTTTCTGGGGGGTTAAAACCTAATTG
Found at i:1870889 original size:108 final size:107
Alignment explanation
Indices: 1870721--1870927 Score: 292
Period size: 108 Copynumber: 1.9 Consensus size: 107
1870711 ATTTTGACTT
* *
1870721 TAAGAATTAAAAAATTAGTGATGAAAAAAGATATATAACAATTTTTATAGTTTACTAAAAAAACT
1 TAAGAATTAAAAAATTAATGATGAAAAAAGATATATAACAACTTTTATAGTTTACTAAAAAAACT
* *
1870786 AAACAACAGTTGAAATTTTTCTTTGGGGGTTAAAACCTAATTG
66 AAACAACAGTTGAAAGTTTTC-TGGGGGGTTAAAACCTAATTG
* * * * *
1870829 TAAGAATTAAAACATTAATGACT-AAAACAGATATATGACTACTTTT-TAGTTTATTAAAAAAAA
1 TAAGAATTAAAAAATTAATGA-TGAAAAAAGATATATAACAACTTTTATAGTTTACT-AAAAAAA
1870892 CTAAACAACAGTTGAAAGTTTTCTGGGGGGTTAAAA
64 CTAAACAACAGTTGAAAGTTTTCTGGGGGGTTAAAA
1870928 AGCAAAATTT
Statistics
Matches: 88, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
107 20 0.23
108 67 0.76
109 1 0.01
ACGTcount: A:0.46, C:0.08, G:0.14, T:0.32
Consensus pattern (107 bp):
TAAGAATTAAAAAATTAATGATGAAAAAAGATATATAACAACTTTTATAGTTTACTAAAAAAACT
AAACAACAGTTGAAAGTTTTCTGGGGGGTTAAAACCTAATTG
Found at i:1875303 original size:203 final size:203
Alignment explanation
Indices: 1874954--1875348 Score: 700
Period size: 203 Copynumber: 1.9 Consensus size: 203
1874944 CAAGGTACAT
*
1874954 GGCCCTATTAACTGATCTATAAGGGAGAAACACTTAGTGGATTGAGGCTTCTCAACTAGCTGAAT
1 GGCCCTATTAACTGATCTATAAGGGAGAAACACTTAGTGGATTGAGGCTTCACAACTAGCTGAAT
*
1875019 GGTGCTTGGTTTAATGCTTTGCAGCACACAAGGATGGAAATCAAGAGTGAACTGCATGGTCAATG
66 GGTGCTTGGTTCAATGCTTTGCAGCACACAAGGATGGAAATCAAGAGTGAACTGCATGGTCAATG
1875084 AGCTGAAACTCCACACAATGGTTCCCAAAGAAAGGCGCCATTGAACACCTAGAACCAGATCAACC
131 AGCTGAAACTCCACACAATGGTTCCCAAAGAAAGGCGCCATTGAACACCTAGAACCAGATCAACC
1875149 AACAACAA
196 AACAACAA
** * *
1875157 GGCCCTATTAACTGATCTATAAGGGAGATGCATTTAGTGGATTGAGGCTTCACAACTAGTTGAAT
1 GGCCCTATTAACTGATCTATAAGGGAGAAACACTTAGTGGATTGAGGCTTCACAACTAGCTGAAT
* * *
1875222 GGTTCTTGGTTCAATGCTTTGTAGCACACAATGATGGAAATCAAGAGTGAACTGCATGGTCAATG
66 GGTGCTTGGTTCAATGCTTTGCAGCACACAAGGATGGAAATCAAGAGTGAACTGCATGGTCAATG
*
1875287 AGCTGAAACTCCACACAATGGTTCCCAAAGAAAGGCGCCATTGAACACCTAGAACTAGATCA
131 AGCTGAAACTCCACACAATGGTTCCCAAAGAAAGGCGCCATTGAACACCTAGAACCAGATCA
1875349 CACTCGTATA
Statistics
Matches: 182, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
203 182 1.00
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.24
Consensus pattern (203 bp):
GGCCCTATTAACTGATCTATAAGGGAGAAACACTTAGTGGATTGAGGCTTCACAACTAGCTGAAT
GGTGCTTGGTTCAATGCTTTGCAGCACACAAGGATGGAAATCAAGAGTGAACTGCATGGTCAATG
AGCTGAAACTCCACACAATGGTTCCCAAAGAAAGGCGCCATTGAACACCTAGAACCAGATCAACC
AACAACAA
Found at i:1877212 original size:17 final size:17
Alignment explanation
Indices: 1877186--1877219 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1877176 ATACTTCCTA
1877186 AAAAAATGTGTTTTATT
1 AAAAAATGTGTTTTATT
*
1877203 AAAAATTGTGTTTTATT
1 AAAAAATGTGTTTTATT
1877220 TTCAAAAGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (17 bp):
AAAAAATGTGTTTTATT
Found at i:1890582 original size:79 final size:81
Alignment explanation
Indices: 1890446--1890630 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
1890436 TTGAATGATG
*
1890446 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
1890510 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
1890525 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
1890587 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
1890605 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
1890631 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:1890644 original size:40 final size:40
Alignment explanation
Indices: 1890447--1890630 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
1890437 TGAATGATGT
* * * *
1890447 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
1890487 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
1890527 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
1890565 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
1890606 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
1890631 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:1890652 original size:79 final size:79
Alignment explanation
Indices: 1890499--1890663 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
1890489 GGACTAAGAT
* **
1890499 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
1890564 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
1890578 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
1890641 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
1890657 CCGAAGG
1 CCGAAGG
1890664 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:1911416 original size:18 final size:19
Alignment explanation
Indices: 1911393--1911433 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
1911383 AAAAATTTGG
1911393 AATAAGAAATAATAAA-AT
1 AATAAGAAATAATAAATAT
**
1911411 AATAAGAGCTAATAAATAT
1 AATAAGAAATAATAAATAT
1911430 AATA
1 AATA
1911434 TTGGGTCATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.66, C:0.02, G:0.07, T:0.24
Consensus pattern (19 bp):
AATAAGAAATAATAAATAT
Found at i:1917636 original size:17 final size:19
Alignment explanation
Indices: 1917606--1917643 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
1917596 TTTATTTTCT
1917606 AAATTAATATATTTA-ATG
1 AAATTAATATATTTAGATG
*
1917624 AAATTATTA-ATTTAGATG
1 AAATTAATATATTTAGATG
1917642 AA
1 AA
1917644 GATCGAGTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (19 bp):
AAATTAATATATTTAGATG
Found at i:1924795 original size:39 final size:40
Alignment explanation
Indices: 1924750--1924934 Score: 178
Period size: 40 Copynumber: 4.7 Consensus size: 40
1924740 GCTCCTCGTT
* * *
1924750 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
**
1924790 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
1924829 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * * * * *
1924869 CAAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAAC-TCGCA
* *
1924910 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACATAACCCGGA
1924935 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 37 0.30
40 74 0.61
41 11 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:1924850 original size:40 final size:39
Alignment explanation
Indices: 1924717--1924934 Score: 165
Period size: 40 Copynumber: 5.5 Consensus size: 39
1924707 AAATCACGTA
* * **
1924717 CCTTCGGGATTTAA-CCGGATATAGCTCCTCGTTCA-AATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCG--CACAATG
* * * * *
1924756 CCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCACAATG
* *
1924795 CCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCAC-AATG
* * *
1924835 CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCAC-AATG
* * * * *
1924875 CCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCACAAAG
1 CCTTCGGGA-CTTAACCCGGATTTA-GCAAC-TCGCACAATG
*
1924915 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
1924935 CAGCATTCAA
Statistics
Matches: 143, Mismatches: 29, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
38 2 0.01
39 48 0.34
40 85 0.59
41 8 0.06
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (39 bp):
CCTTCGGGACTTAACCCGGATTTAGCAACTCGCACAATG
Found at i:1931127 original size:40 final size:39
Alignment explanation
Indices: 1931029--1931291 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
1931019 TCCTCGTTCA
* * * *
1931029 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
1931068 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
1931107 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
1931147 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
1931187 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
1931227 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
1931268 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
1931292 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:1931251 original size:120 final size:119
Alignment explanation
Indices: 1931029--1931291 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
1931019 TCCTCGTTCA
* * *
1931029 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
1931094 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
1931147 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
1931212 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
1931268 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
1931292 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:1931300 original size:41 final size:41
Alignment explanation
Indices: 1931223--1931300 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
1931213 TTTGTATCTC
* * *
1931223 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
1931264 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
1931301 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:1939073 original size:40 final size:39
Alignment explanation
Indices: 1938975--1939237 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
1938965 TCCTCGTTCA
* * * *
1938975 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
1939014 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
1939053 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
1939093 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
1939133 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
1939173 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
1939214 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
1939238 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:1939197 original size:120 final size:119
Alignment explanation
Indices: 1938975--1939237 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
1938965 TCCTCGTTCA
* * *
1938975 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
1939040 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
1939093 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
1939158 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
1939214 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
1939238 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:1939246 original size:41 final size:41
Alignment explanation
Indices: 1939169--1939246 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
1939159 TTTGTATCTC
* * *
1939169 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
1939210 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
1939247 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:1942107 original size:10 final size:10
Alignment explanation
Indices: 1942094--1942144 Score: 52
Period size: 10 Copynumber: 5.2 Consensus size: 10
1942084 ATATATTTAA
1942094 TTTCCTTTTT
1 TTTCCTTTTT
*
1942104 TTT-CTTTTC
1 TTTCCTTTTT
*
1942113 TTT-ATTTTAT
1 TTTCCTTTT-T
*
1942123 TTTCCTTTAT
1 TTTCCTTTTT
1942133 TTTCCTTTTT
1 TTTCCTTTTT
1942143 TT
1 TT
1942145 AATGGAAACC
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
9 12 0.36
10 18 0.55
11 3 0.09
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTCCTTTTT
Found at i:1942111 original size:29 final size:30
Alignment explanation
Indices: 1942079--1942141 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 30
1942069 ATTATTCACA
*
1942079 TTTTC-ATATATTTAATTTCCTTT-TTTTTC
1 TTTTCTATAT-TTTAATTTCCTTTATTTTCC
* *
1942108 TTTTCTTTATTTTATTTTCCTTTATTTTCC
1 TTTTCTATATTTTAATTTCCTTTATTTTCC
1942138 TTTT
1 TTTT
1942142 TTTAATGGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 17 0.59
30 12 0.41
ACGTcount: A:0.13, C:0.14, G:0.00, T:0.73
Consensus pattern (30 bp):
TTTTCTATATTTTAATTTCCTTTATTTTCC
Found at i:1942112 original size:15 final size:15
Alignment explanation
Indices: 1942094--1942141 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 15
1942084 ATATATTTAA
1942094 TTTCCTTTTTTTTCT
1 TTTCCTTTTTTTTCT
* *
1942109 TTT-CTTTATTTTAT
1 TTTCCTTTTTTTTCT
*
1942123 TTTCCTTTATTTTCCT
1 TTTCCTTT-TTTTTCT
1942139 TTT
1 TTT
1942142 TTTAATGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
14 12 0.46
15 7 0.27
16 7 0.27
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTCCTTTTTTTTCT
Found at i:1942145 original size:29 final size:29
Alignment explanation
Indices: 1942089--1942145 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
1942079 TTTTCATATA
*
1942089 TTTAATTTCCTTTTTTTTCTTTTCTTTAT
1 TTTAATTTCCTTTTTTTCCTTTTCTTTAT
*
1942118 TTTATTTTCCTTTATTTTCCTTTT-TTTA
1 TTTAATTTCCTTT-TTTTCCTTTTCTTTA
1942146 ATGGAAACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 16 0.64
30 9 0.36
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.75
Consensus pattern (29 bp):
TTTAATTTCCTTTTTTTCCTTTTCTTTAT
Found at i:1945344 original size:12 final size:13
Alignment explanation
Indices: 1945322--1945372 Score: 54
Period size: 12 Copynumber: 4.2 Consensus size: 13
1945312 AAGAGATGAA
*
1945322 AAAGGCTTGATTG
1 AAAGACTTGATTG
1945335 AAA-ACTTGA-TG
1 AAAGACTTGATTG
1945346 AAAGACTTGATT-
1 AAAGACTTGATTG
* *
1945358 AATGAATTGATTG
1 AAAGACTTGATTG
1945371 AA
1 AA
1945373 TGAATGAACA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
11 5 0.16
12 21 0.66
13 6 0.19
ACGTcount: A:0.41, C:0.06, G:0.22, T:0.31
Consensus pattern (13 bp):
AAAGACTTGATTG
Found at i:1947173 original size:40 final size:39
Alignment explanation
Indices: 1947129--1947233 Score: 122
Period size: 39 Copynumber: 2.6 Consensus size: 39
1947119 AGTGACCATA
*
1947129 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGACTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
* *
1947169 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
1947207 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGACTAAG-CCCGAAGGCATTTG
1947234 AACGAGGAGC
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
38 2 0.03
39 32 0.55
40 24 0.41
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:1947190 original size:39 final size:40
Alignment explanation
Indices: 1947089--1947233 Score: 165
Period size: 40 Copynumber: 3.6 Consensus size: 40
1947079 TTGAATGATG
* *
1947089 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATA
*
1947129 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA
*
1947168 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
* *
1947208 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
1947234 AACGAGGAGC
Statistics
Matches: 91, Mismatches: 7, Indels: 14
0.81 0.06 0.12
Matches are distributed among these distances:
39 34 0.37
40 46 0.51
41 10 0.11
42 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
Found at i:1947247 original size:40 final size:39
Alignment explanation
Indices: 1947090--1947252 Score: 100
Period size: 40 Copynumber: 4.1 Consensus size: 39
1947080 TGAATGATGT
** * * *
1947090 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTATAA
* * ** *
1947130 CCGGACTAAGATCCGAAGGCATTTGTGCGAGAT-ACTA-ATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAG-TGACTATA-A
** *
1947170 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTATAA
* *
1947209 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATAT
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTATAA
1947249 CCGG
1 CCGG
1947253 TTAAATTCCA
Statistics
Matches: 103, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
38 1 0.01
39 34 0.33
40 60 0.58
41 8 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.23
Consensus pattern (39 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTATAA
Found at i:1947252 original size:79 final size:80
Alignment explanation
Indices: 1947089--1947239 Score: 191
Period size: 79 Copynumber: 1.9 Consensus size: 80
1947079 TTGAATGATG
*
1947089 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
1947154 GTGCGAGATACTAAT
66 GAACGAGATACTAAT
* * * * *
1947169 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
1947231 TTGAACGAG
64 TTGAACGAG
1947240 GAGCTATATC
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.02
79 42 0.69
80 18 0.30
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGATACTAAT
Found at i:1952563 original size:19 final size:18
Alignment explanation
Indices: 1952527--1952566 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
1952517 TTTCCACTCG
*
1952527 TTTCTTTTTCAACTTCTC
1 TTTCTTTTTCAACATCTC
*
1952545 TTTCTTTTTCCACAATCTC
1 TTTCTTTTTCAAC-ATCTC
1952564 TTT
1 TTT
1952567 GTTTGTTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.12, C:0.28, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTCTTTTTCAACATCTC
Found at i:1953640 original size:14 final size:14
Alignment explanation
Indices: 1953621--1953717 Score: 187
Period size: 14 Copynumber: 7.0 Consensus size: 14
1953611 AGCTCTCTAT
1953621 TTTTTTTTTCACAA
1 TTTTTTTTTCACAA
1953635 TTTTTTTTTCACAA
1 TTTTTTTTTCACAA
1953649 TTTTTTTTTCACAA
1 TTTTTTTTTCACAA
1953663 TTTTTTTTTCACAA
1 TTTTTTTTTCACAA
1953677 TTTTTTTTTCACAA
1 TTTTTTTTTCACAA
1953691 TTTTTTTTTCACAA
1 TTTTTTTTTCACAA
1953705 -TTTTTTTTCACAA
1 TTTTTTTTTCACAA
1953718 CTTGATATCC
Statistics
Matches: 83, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
13 13 0.16
14 70 0.84
ACGTcount: A:0.22, C:0.14, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTTTTTTTCACAA
Found at i:1953797 original size:14 final size:14
Alignment explanation
Indices: 1953755--1953801 Score: 71
Period size: 13 Copynumber: 3.5 Consensus size: 14
1953745 TGGAAACTAG
1953755 TTTTTTTTTC-AAT
1 TTTTTTTTTCGAAT
1953768 TTTTTTTTT-GAAT
1 TTTTTTTTTCGAAT
*
1953781 TTTTTTTTTCGAGT
1 TTTTTTTTTCGAAT
1953795 TTTTTTT
1 TTTTTTT
1953802 CGAGAAACTA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
13 21 0.68
14 10 0.32
ACGTcount: A:0.11, C:0.04, G:0.06, T:0.79
Consensus pattern (14 bp):
TTTTTTTTTCGAAT
Found at i:1955353 original size:22 final size:22
Alignment explanation
Indices: 1955302--1955367 Score: 80
Period size: 21 Copynumber: 3.0 Consensus size: 22
1955292 GGTATTTGGG
* *
1955302 AATTGGTTCGAAATAGTATGG-
1 AATTGGTACGAAATGGTATGGT
1955323 AATTGGTACGAAATGGTATGGT
1 AATTGGTACGAAATGGTATGGT
* *
1955345 ATTTGGTACGAATTGGTAATGGT
1 AATTGGTACGAAATGGT-ATGGT
1955368 TCAAAGACGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
21 19 0.49
22 15 0.38
23 5 0.13
ACGTcount: A:0.30, C:0.05, G:0.30, T:0.35
Consensus pattern (22 bp):
AATTGGTACGAAATGGTATGGT
Found at i:1960482 original size:12 final size:12
Alignment explanation
Indices: 1960465--1960540 Score: 50
Period size: 12 Copynumber: 6.3 Consensus size: 12
1960455 AGTGAAAACC
1960465 AAAAAGAGATTG
1 AAAAAGAGATTG
*
1960477 AAAAAGAAATTG
1 AAAAAGAGATTG
*
1960489 --AAAGAGA-AG
1 AAAAAGAGATTG
*
1960498 AAAAAGAAAGAGTGG
1 AAAAAG--AGA-TTG
*
1960513 AAAAAGAAATTG
1 AAAAAGAGATTG
* *
1960525 AAAGAGAGCTTG
1 AAAAAGAGATTG
1960537 AAAA
1 AAAA
1960541 GAAATCGAGT
Statistics
Matches: 48, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
9 1 0.02
10 6 0.12
11 4 0.08
12 25 0.52
13 5 0.10
15 7 0.15
ACGTcount: A:0.62, C:0.01, G:0.25, T:0.12
Consensus pattern (12 bp):
AAAAAGAGATTG
Found at i:1960506 original size:15 final size:15
Alignment explanation
Indices: 1960488--1960521 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
1960478 AAAAGAAATT
1960488 GAAAGAGAAGAAAAA
1 GAAAGAGAAGAAAAA
**
1960503 GAAAGAGTGGAAAAA
1 GAAAGAGAAGAAAAA
1960518 GAAA
1 GAAA
1960522 TTGAAAGAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.03
Consensus pattern (15 bp):
GAAAGAGAAGAAAAA
Found at i:1977087 original size:21 final size:21
Alignment explanation
Indices: 1977061--1977100 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1977051 CTTTGCTGGA
*
1977061 GAATTTTCCTGGAATTTTCTT
1 GAATTTTCCTGGAAATTTCTT
*
1977082 GAATTTTTCTGGAAATTTC
1 GAATTTTCCTGGAAATTTC
1977101 AGCTCATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.23, C:0.12, G:0.15, T:0.50
Consensus pattern (21 bp):
GAATTTTCCTGGAAATTTCTT
Found at i:1979212 original size:65 final size:65
Alignment explanation
Indices: 1979136--1979264 Score: 249
Period size: 65 Copynumber: 2.0 Consensus size: 65
1979126 AACTTGGATG
1979136 GTGCATGGATGTGCTAGGTTCGGCCAATGAGCATAAATTAGCTCATTCACATTGCAACTTTTGGC
1 GTGCATGGATGTGCTAGGTTCGGCCAATGAGCATAAATTAGCTCATTCACATTGCAACTTTTGGC
*
1979201 GTGCATGGATGTGCTAGGTTCGGCCAATGAGCATAAATTAGCTCATTTACATTGCAACTTTTGG
1 GTGCATGGATGTGCTAGGTTCGGCCAATGAGCATAAATTAGCTCATTCACATTGCAACTTTTGG
1979265 TTGAAAAGTG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (65 bp):
GTGCATGGATGTGCTAGGTTCGGCCAATGAGCATAAATTAGCTCATTCACATTGCAACTTTTGGC
Found at i:1987068 original size:23 final size:24
Alignment explanation
Indices: 1987042--1987086 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
1987032 TTAAAACTAC
1987042 TTCTAAAAAAACTC-AAGAGAAAA
1 TTCTAAAAAAACTCAAAGAGAAAA
* *
1987065 TTCTTAAAGAACTCAAAGAGAA
1 TTCTAAAAAAACTCAAAGAGAA
1987087 TTTTCACTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.56, C:0.13, G:0.11, T:0.20
Consensus pattern (24 bp):
TTCTAAAAAAACTCAAAGAGAAAA
Found at i:1989158 original size:21 final size:21
Alignment explanation
Indices: 1989132--1989177 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
1989122 CAATTTGTAA
**
1989132 AATTTTAATTCTTTATGATTT
1 AATTTTAAGACTTTATGATTT
*
1989153 AATTTTTAGACTTTATGATTT
1 AATTTTAAGACTTTATGATTT
1989174 AATT
1 AATT
1989178 CCTATGTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.04, G:0.07, T:0.59
Consensus pattern (21 bp):
AATTTTAAGACTTTATGATTT
Found at i:1992302 original size:21 final size:23
Alignment explanation
Indices: 1992257--1992303 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
1992247 TTACCTGCAA
* *
1992257 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATCAGCTTAT
1992280 TAAACACATTAAAA-CA-CTTAT
1 TAAACACATTAAAATCAGCTTAT
1992301 TAA
1 TAA
1992304 TCATAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
23 14 0.64
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAACACATTAAAATCAGCTTAT
Found at i:1998206 original size:60 final size:60
Alignment explanation
Indices: 1998113--1998230 Score: 227
Period size: 60 Copynumber: 2.0 Consensus size: 60
1998103 TGAAAGATTA
1998113 CGAGCTTGTCATTGATTACCACCCGGGAAAGGCTAATATGGTTGCGGACGCCTTAAGCCG
1 CGAGCTTGTCATTGATTACCACCCGGGAAAGGCTAATATGGTTGCGGACGCCTTAAGCCG
*
1998173 CGAGCTTGTCATTGATTACCACCCGGGAAAGGCTAATGTGGTTGCGGACGCCTTAAGC
1 CGAGCTTGTCATTGATTACCACCCGGGAAAGGCTAATATGGTTGCGGACGCCTTAAGC
1998231 TAGAAATCAT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.23, C:0.25, G:0.29, T:0.24
Consensus pattern (60 bp):
CGAGCTTGTCATTGATTACCACCCGGGAAAGGCTAATATGGTTGCGGACGCCTTAAGCCG
Found at i:2006170 original size:11 final size:11
Alignment explanation
Indices: 2006154--2006181 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
2006144 TATTGATAGC
2006154 CTTATGCTACA
1 CTTATGCTACA
2006165 CTTATGCTACA
1 CTTATGCTACA
2006176 CTTATG
1 CTTATG
2006182 GGACATGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.25, C:0.25, G:0.11, T:0.39
Consensus pattern (11 bp):
CTTATGCTACA
Found at i:2009562 original size:24 final size:24
Alignment explanation
Indices: 2009524--2009571 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
2009514 AGTGACCCTT
*
2009524 TTCTACTCACCTCCTTATTTCTCC
1 TTCTACTCACCTCCTTATCTCTCC
2009548 TTCT-CTCACCTTCCTTATCTCTCC
1 TTCTACTCACC-TCCTTATCTCTCC
2009572 ACATAGGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.10, C:0.44, G:0.00, T:0.46
Consensus pattern (24 bp):
TTCTACTCACCTCCTTATCTCTCC
Found at i:2010725 original size:17 final size:18
Alignment explanation
Indices: 2010672--2010725 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
2010662 AATAGTTTAA
*
2010672 TCCTC-CTCCTCATCCATC
1 TCCTCACTCCT-ATCCTTC
*
2010690 TCCTCACTCCTATCATTC
1 TCCTCACTCCTATCCTTC
*
2010708 TCCTCA-TCTTATCCTTC
1 TCCTCACTCCTATCCTTC
2010725 T
1 T
2010726 TGTCGCTTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
17 10 0.32
18 16 0.52
19 5 0.16
ACGTcount: A:0.13, C:0.46, G:0.00, T:0.41
Consensus pattern (18 bp):
TCCTCACTCCTATCCTTC
Found at i:2013374 original size:22 final size:22
Alignment explanation
Indices: 2013335--2013386 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
2013325 TGGATAAGCC
*
2013335 ACCACTGA-TTGCAGATAAACT
1 ACCACTGATTTGCAAATAAACT
2013356 ACCACTGATTTGCAAATAAACT
1 ACCACTGATTTGCAAATAAACT
2013378 ACCACTGAT
1 ACCACTGAT
2013387 AACACTTTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 8 0.28
22 21 0.72
ACGTcount: A:0.38, C:0.25, G:0.12, T:0.25
Consensus pattern (22 bp):
ACCACTGATTTGCAAATAAACT
Found at i:2017809 original size:46 final size:46
Alignment explanation
Indices: 2017757--2017850 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 46
2017747 CAAAGAAAAG
2017757 ACCTCGACCCACTATCAAGAATGATAGGAACCTTGGTATATGATGA
1 ACCTCGACCCACTATCAAGAATGATAGGAACCTTGGTATATGATGA
* *
2017803 ACCTCGACTCACTATCAAGGATGATAGGAACCTTGGTATATGATGA
1 ACCTCGACCCACTATCAAGAATGATAGGAACCTTGGTATATGATGA
2017849 AC
1 AC
2017851 GCCACACTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.24
Consensus pattern (46 bp):
ACCTCGACCCACTATCAAGAATGATAGGAACCTTGGTATATGATGA
Found at i:2020407 original size:50 final size:49
Alignment explanation
Indices: 2020332--2020438 Score: 144
Period size: 50 Copynumber: 2.2 Consensus size: 49
2020322 ATGTATGCTT
* *
2020332 ATACGAGCTATGAATCGGTATGCTCTCATAAGCTGGAAATCAGTAAGCTC
1 ATACGAGCTATGAATCGGTAAGCTCTCATAAGCT-GAAATCAATAAGCTC
* *
2020382 ATACGAGCTGA-GAATCGGTAAGCTCTTATGAGCTGAAATCAATAAGCTC
1 ATACGAGCT-ATGAATCGGTAAGCTCTCATAAGCTGAAATCAATAAGCTC
*
2020431 ATATGAGC
1 ATACGAGC
2020439 AGTGGTATGT
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
49 21 0.41
50 29 0.57
51 1 0.02
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (49 bp):
ATACGAGCTATGAATCGGTAAGCTCTCATAAGCTGAAATCAATAAGCTC
Found at i:2020427 original size:24 final size:24
Alignment explanation
Indices: 2020362--2020438 Score: 100
Period size: 25 Copynumber: 3.1 Consensus size: 24
2020352 TGCTCTCATA
*
2020362 AGCTGGAAATCAGTAAGCTCATACG
1 AGCT-GAAATCAGTAAGCTCATATG
* *
2020387 AGCTGAGAATCGGTAAGCTCTTATG
1 AGCTGA-AATCAGTAAGCTCATATG
*
2020412 AGCTGAAATCAATAAGCTCATATG
1 AGCTGAAATCAGTAAGCTCATATG
2020436 AGC
1 AGC
2020439 AGTGGTATGT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
24 20 0.44
25 25 0.56
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.23
Consensus pattern (24 bp):
AGCTGAAATCAGTAAGCTCATATG
Found at i:2023591 original size:40 final size:39
Alignment explanation
Indices: 2023547--2023762 Score: 202
Period size: 40 Copynumber: 5.6 Consensus size: 39
2023537 GCTCCTCGTT
*
2023547 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAATTCGCA
* * *
2023587 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAATTCGCA
*
2023627 CAAATGCCTTCGGGACTTAGCCC-G---A--AACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTATAGTAATTCGCA
*
2023660 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAAT-TCGCA
* * * *
2023699 CAAATGCCTTC-GGATCTTAGTCCGGATATTGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGG-TATAGT-AATTCGCA
2023740 C-AA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
2023763 ACAGCATTCA
Statistics
Matches: 149, Mismatches: 13, Indels: 29
0.78 0.07 0.15
Matches are distributed among these distances:
32 8 0.05
33 23 0.15
35 1 0.01
37 1 0.01
38 3 0.02
39 32 0.21
40 74 0.50
41 6 0.04
42 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAATTCGCA
Found at i:2023656 original size:33 final size:32
Alignment explanation
Indices: 2023619--2023682 Score: 119
Period size: 33 Copynumber: 2.0 Consensus size: 32
2023609 CGGATTTAGT
2023619 AACTCGCACAAATGCCTTCGGGACTTAGCCCGA
1 AACTCGCACAAATGCCTTCGGG-CTTAGCCCGA
2023652 AACTCGCACAAATGCCTTCGGGCTTAGCCCG
1 AACTCGCACAAATGCCTTCGGGCTTAGCCCG
2023683 GAATTAGTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 9 0.29
33 22 0.71
ACGTcount: A:0.25, C:0.34, G:0.22, T:0.19
Consensus pattern (32 bp):
AACTCGCACAAATGCCTTCGGGCTTAGCCCGA
Found at i:2039674 original size:16 final size:16
Alignment explanation
Indices: 2039624--2039681 Score: 55
Period size: 16 Copynumber: 3.6 Consensus size: 16
2039614 AACCTCACTA
* * *
2039624 TCTATTGTTTTCACAA
1 TCTATAGTTTTCATAG
* *
2039640 TCTAGAGTTTTC-TCTG
1 TCTATAGTTTTCAT-AG
2039656 TCTATAGTTTTCATAG
1 TCTATAGTTTTCATAG
2039672 TCTATAGTTT
1 TCTATAGTTT
2039682 CACATCTAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
16 32 0.97
17 1 0.03
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.52
Consensus pattern (16 bp):
TCTATAGTTTTCATAG
Found at i:2041483 original size:31 final size:31
Alignment explanation
Indices: 2041445--2041508 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
2041435 ATCTAGCTTT
2041445 TGATAATCTAAAAAACATAGGAAAGAAACTA
1 TGATAATCTAAAAAACATAGGAAAGAAACTA
2041476 TGATAATCTAAAAAACATAGGAAAGAAACTA
1 TGATAATCTAAAAAACATAGGAAAGAAACTA
2041507 TG
1 TG
2041509 TAAGCACATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.56, C:0.09, G:0.14, T:0.20
Consensus pattern (31 bp):
TGATAATCTAAAAAACATAGGAAAGAAACTA
Found at i:2044563 original size:16 final size:16
Alignment explanation
Indices: 2044535--2044575 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
2044525 TTGTTTTAAT
2044535 TATA-ATATA-ACATA
1 TATATATATATACATA
2044549 TATATATATATACATA
1 TATATATATATACATA
*
2044565 TATATACATAT
1 TATATATATAT
2044576 TTCATATTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 4 0.17
15 5 0.21
16 15 0.62
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.41
Consensus pattern (16 bp):
TATATATATATACATA
Found at i:2044565 original size:10 final size:10
Alignment explanation
Indices: 2044546--2044575 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
2044536 ATAATATAAC
*
2044546 ATATATATAT
1 ATATACATAT
2044556 ATATACATAT
1 ATATACATAT
2044566 ATATACATAT
1 ATATACATAT
2044576 TTCATATTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (10 bp):
ATATACATAT
Found at i:2051638 original size:11 final size:11
Alignment explanation
Indices: 2051622--2051646 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2051612 TATATTACGA
2051622 CACATATTAAT
1 CACATATTAAT
2051633 CACATATTAAT
1 CACATATTAAT
2051644 CAC
1 CAC
2051647 TTTCAGTCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (11 bp):
CACATATTAAT
Found at i:2061130 original size:20 final size:20
Alignment explanation
Indices: 2061107--2061160 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
2061097 TAATTTGTCT
*
2061107 TGTCTTAATTAAATTAAATG
1 TGTCTTAATTAAATTAAATA
* ** *
2061127 TGTCTTGATTTTATTAAGTA
1 TGTCTTAATTAAATTAAATA
2061147 TGTCTTAAATTAAA
1 TGTCTT-AATTAAA
2061161 ACATGAATTA
Statistics
Matches: 25, Mismatches: 8, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
20 21 0.84
21 4 0.16
ACGTcount: A:0.35, C:0.06, G:0.11, T:0.48
Consensus pattern (20 bp):
TGTCTTAATTAAATTAAATA
Found at i:2070482 original size:51 final size:51
Alignment explanation
Indices: 2070343--2070531 Score: 185
Period size: 51 Copynumber: 3.8 Consensus size: 51
2070333 CTATTATCAT
* * *
2070343 TCGATACACAT--T-GCCTTCACATAGTACTACACACGTAATCA-AGTTT-
1 TCGATACACATAGTAGCCTTCACATAGTACTACACACGTGACCATAATTTA
* * *
2070389 TACGGTCCACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AAGCTTT-
1 T-CGATACACATAGTAGCCTTCACATAGTACTACACACGTGACCATAA--TTTA
* * * * * *
2070441 TTGGTACACATAGTAGCCTTCACTTAGTACTACGCATGTGACCATTATTTA
1 TCGATACACATAGTAGCCTTCACATAGTACTACACACGTGACCATAATTTA
*
2070492 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTG
1 TCGATACACATAGTAGCCTTCACATAGTACTACACACGTG
2070532 TTCATCGATA
Statistics
Matches: 116, Mismatches: 19, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
46 1 0.01
47 7 0.06
49 1 0.01
50 31 0.27
51 71 0.61
52 5 0.04
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (51 bp):
TCGATACACATAGTAGCCTTCACATAGTACTACACACGTGACCATAATTTA
Found at i:2075441 original size:45 final size:45
Alignment explanation
Indices: 2075377--2075462 Score: 136
Period size: 45 Copynumber: 1.9 Consensus size: 45
2075367 AATTATAAAC
* *
2075377 TCTTTCCTTGTCTCAGGTTGCACCAACACCGGCGCCTCAGTCAAT
1 TCTTTCCCTGTCTCAGGTTGCACCAACACCAGCGCCTCAGTCAAT
* *
2075422 TCTTTCCCTGTTTCAGGTTGCACCAACACCAGTGCCTCAGT
1 TCTTTCCCTGTCTCAGGTTGCACCAACACCAGCGCCTCAGT
2075463 TAATAATGCC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.17, C:0.35, G:0.17, T:0.30
Consensus pattern (45 bp):
TCTTTCCCTGTCTCAGGTTGCACCAACACCAGCGCCTCAGTCAAT
Found at i:2091314 original size:14 final size:13
Alignment explanation
Indices: 2091289--2091327 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
2091279 TCAAAACTAG
*
2091289 TTTTTTTCACAAT
1 TTTTTTTTACAAT
2091302 TTCTTTTTTACAAT
1 TT-TTTTTTACAAT
*
2091316 TTTTTTTCACAA
1 TTTTTTTTACAA
2091328 CTTGATATCC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.23, C:0.15, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTTTTTTACAAT
Found at i:2098156 original size:22 final size:19
Alignment explanation
Indices: 2098131--2098172 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
2098121 TGATAATCAT
2098131 TAATATATAATTATATCTATTA
1 TAATATAT-ATTA-AT-TATTA
2098153 TAATATATATTAATTATTA
1 TAATATATATTAATTATTA
2098172 T
1 T
2098173 CAACTTTACA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
TAATATATATTAATTATTA
Found at i:2110159 original size:26 final size:26
Alignment explanation
Indices: 2110123--2110188 Score: 96
Period size: 26 Copynumber: 2.5 Consensus size: 26
2110113 TTTACATCAT
* *
2110123 TGCTCACACGAGTTGTGAAATGAGTC
1 TGCTCACACGAGCTGTGAAATGAGCC
*
2110149 TGCTCACACGAGCTGTGAAATGGGCC
1 TGCTCACACGAGCTGTGAAATGAGCC
*
2110175 TGCTCACATGAGCT
1 TGCTCACACGAGCT
2110189 ATGGGTCGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (26 bp):
TGCTCACACGAGCTGTGAAATGAGCC
Found at i:2113728 original size:19 final size:19
Alignment explanation
Indices: 2113704--2113742 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
2113694 TTATTAAAAG
2113704 TATGTTTGAG-AAGTTCTAA
1 TATGTTTG-GCAAGTTCTAA
2113723 TATGTTTGGCAAGTTCTAA
1 TATGTTTGGCAAGTTCTAA
2113742 T
1 T
2113743 GATAATTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 1 0.05
19 18 0.95
ACGTcount: A:0.28, C:0.08, G:0.21, T:0.44
Consensus pattern (19 bp):
TATGTTTGGCAAGTTCTAA
Found at i:2126311 original size:37 final size:37
Alignment explanation
Indices: 2126261--2126339 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
2126251 TTATTACGAA
* * *
2126261 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
2126298 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
2126335 GTCTT
1 GTCTT
2126340 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:2126531 original size:47 final size:47
Alignment explanation
Indices: 2126457--2127334 Score: 1729
Period size: 47 Copynumber: 18.7 Consensus size: 47
2126447 GCCCTTCGGG
**
2126457 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
2126505 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
2126552 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
2126599 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
2126646 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
2126693 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
2126740 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
2126787 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
2126834 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
2126881 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
2126928 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
2126975 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
2127022 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
2127069 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
2127116 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
2127163 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
2127210 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
2127257 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
2127304 ACTTTCACATTCATCACATCGGCCATTAGGC
1 ACTTTCACATTCATCACATCGGCCATTAGGC
2127335 CATACTATCA
Statistics
Matches: 828, Mismatches: 2, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
47 824 1.00
48 4 0.00
ACGTcount: A:0.32, C:0.28, G:0.09, T:0.32
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
Found at i:2135429 original size:20 final size:19
Alignment explanation
Indices: 2135397--2135438 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
2135387 TATTTTTTAA
2135397 TAAAAATATTAAATTATATT
1 TAAAAATATTAAATTAT-TT
2135417 TAAATAATA-TAAATTATTT
1 TAAA-AATATTAAATTATTT
2135436 TAA
1 TAA
2135439 TTATGAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.24
20 12 0.57
21 4 0.19
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TAAAAATATTAAATTATTT
Found at i:2141483 original size:29 final size:29
Alignment explanation
Indices: 2141424--2141483 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
2141414 GCACTTTCAT
* *
2141424 AAAATGTCCAATATAGTATCTGTACTTTC
1 AAAATGTCCAATATAGTATCTGAACTATC
* *
2141453 AAAATGTCCAATGTGGTA-CTTGAACTATC
1 AAAATGTCCAATATAGTATC-TGAACTATC
2141482 AA
1 AA
2141484 TGTGTGTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 1 0.04
29 25 0.96
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (29 bp):
AAAATGTCCAATATAGTATCTGAACTATC
Found at i:2143167 original size:8 final size:8
Alignment explanation
Indices: 2143118--2143168 Score: 54
Period size: 8 Copynumber: 6.6 Consensus size: 8
2143108 AAATTTAATG
2143118 ATAATATA
1 ATAATATA
2143126 A-AATAT-
1 ATAATATA
2143132 ATAATGAT-
1 ATAAT-ATA
2143140 ATAATATA
1 ATAATATA
* *
2143148 TTAATTTA
1 ATAATATA
2143156 ATAATATA
1 ATAATATA
2143164 ATAAT
1 ATAAT
2143169 TGGTGTTATA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
6 1 0.03
7 10 0.28
8 25 0.69
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (8 bp):
ATAATATA
Found at i:2147364 original size:22 final size:22
Alignment explanation
Indices: 2147336--2147381 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
2147326 ATAGAAATTA
2147336 AAAATATTTAGGAAAATAGACT
1 AAAATATTTAGGAAAATAGACT
2147358 AAAATATTTAGGAAAATAGACT
1 AAAATATTTAGGAAAATAGACT
2147380 AA
1 AA
2147382 TAGTTATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.57, C:0.04, G:0.13, T:0.26
Consensus pattern (22 bp):
AAAATATTTAGGAAAATAGACT
Done.