Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 154 of 295
Found at i:48423999 original size:19 final size:18
Alignment explanation
Indices: 48423971--48424014 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
48423961 ATAGTAGTTT
48423971 AATATAATATATACACATA
1 AATATAATATATA-ACATA
* *
48423990 AATATTATATTTAACATA
1 AATATAATATATAACATA
48424008 ATATATA
1 A-ATATA
48424015 TTACTTATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.39
Consensus pattern (18 bp):
AATATAATATATAACATA
Found at i:48432503 original size:17 final size:18
Alignment explanation
Indices: 48432463--48432504 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
48432453 CCATTATGTT
48432463 ATTAAATAGACATTTAAA
1 ATTAAATAGACATTTAAA
* *
48432481 AATAAATATA-ATTTAAA
1 ATTAAATAGACATTTAAA
*
48432498 TTTAAAT
1 ATTAAAT
48432505 TATTAGTTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (18 bp):
ATTAAATAGACATTTAAA
Found at i:48438422 original size:68 final size:68
Alignment explanation
Indices: 48438255--48438430 Score: 150
Period size: 68 Copynumber: 2.6 Consensus size: 68
48438245 TAGTACCACT
* * * * *
48438255 CATGCGACCTAGC--CA-ATTTGTCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCTACATATATATCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAAT
*
48438317 CACG
65 CACA
* * *
48438321 CATGCGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGT
1 CATGCGACCTAGCTACATATATATCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGA
48438383 ATCACA
63 ATCACA
*
48438389 CATGTGACCTAGCTACTATATAGTATCTCGTAGC-CTTCTTGT
1 CATGCGACCTAGCTAC-ATATA-TATCTCGTAGCTC-TCTTGT
48438431 ACACATGTTT
Statistics
Matches: 90, Mismatches: 11, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
66 13 0.14
67 1 0.01
68 35 0.39
69 9 0.10
70 6 0.07
71 26 0.29
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (68 bp):
CATGCGACCTAGCTACATATATATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATC
ACA
Found at i:48441724 original size:43 final size:42
Alignment explanation
Indices: 48441620--48441739 Score: 134
Period size: 43 Copynumber: 2.8 Consensus size: 42
48441610 AGGGTTACTA
* * *
48441620 AGATTACGTGTAAGACCATATCTGGGATATGGCATCGATATG
1 AGATTACGTGTAAGACCATAGCTAGGATATGGCATCGATACG
* *
48441662 AGACTT-CGTCTAAGACCATAGCTAGGCTATTGGCATCGATACG
1 AGA-TTACGTGTAAGACCATAGCTAGGATA-TGGCATCGATACG
* * * *
48441705 AGATTACATGTAAGTCCATATCTGGGATATGGCAT
1 AGATTACGTGTAAGACCATAGCTAGGATATGGCAT
48441740 TAGTACGGTA
Statistics
Matches: 64, Mismatches: 11, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
42 30 0.47
43 34 0.53
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.28
Consensus pattern (42 bp):
AGATTACGTGTAAGACCATAGCTAGGATATGGCATCGATACG
Found at i:48444929 original size:21 final size:21
Alignment explanation
Indices: 48444903--48444953 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
48444893 TCAACACATG
*
48444903 GGCGTGTGGGATGGCCAAACT
1 GGCGTGTGGGATGCCCAAACT
*
48444924 GGCGTGTGGGATGCCCACACT
1 GGCGTGTGGGATGCCCAAACT
48444945 GGCGTGTGG
1 GGCGTGTGG
48444954 ATTAGCCACA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.14, C:0.22, G:0.45, T:0.20
Consensus pattern (21 bp):
GGCGTGTGGGATGCCCAAACT
Found at i:48450410 original size:14 final size:14
Alignment explanation
Indices: 48450391--48450418 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
48450381 AGAATATATT
48450391 TTTAATTAATTAAA
1 TTTAATTAATTAAA
48450405 TTTAATTAATTAAA
1 TTTAATTAATTAAA
48450419 AATTTTAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TTTAATTAATTAAA
Found at i:48461926 original size:17 final size:17
Alignment explanation
Indices: 48461904--48461937 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
48461894 GGTATAAGGC
48461904 GCATCTTGTAGCTAAAG
1 GCATCTTGTAGCTAAAG
48461921 GCATCTTGTAGCTAAAG
1 GCATCTTGTAGCTAAAG
48461938 TATATACTCA
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:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (17 bp):
GCATCTTGTAGCTAAAG
Found at i:48472655 original size:20 final size:20
Alignment explanation
Indices: 48472589--48472672 Score: 80
Period size: 20 Copynumber: 4.2 Consensus size: 20
48472579 TCAATGTCTT
**
48472589 TATTTGCACTTCAGTGCCTC
1 TATTTGCACTTTGGTGCCTC
* * * * *
48472609 TGTATACACTTTGATGTCTC
1 TATTTGCACTTTGGTGCCTC
*
48472629 TACTTGCACATTT-GTGCCTC
1 TATTTGCAC-TTTGGTGCCTC
48472649 TATTTGCACTTTGGTGCCTC
1 TATTTGCACTTTGGTGCCTC
48472669 TATT
1 TATT
48472673 ATACATCTAT
Statistics
Matches: 48, Mismatches: 14, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
19 3 0.06
20 42 0.88
21 3 0.06
ACGTcount: A:0.15, C:0.25, G:0.15, T:0.44
Consensus pattern (20 bp):
TATTTGCACTTTGGTGCCTC
Found at i:48486602 original size:26 final size:26
Alignment explanation
Indices: 48486552--48486602 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
48486542 TAAATTAAAC
* * *
48486552 TTTTCAAAAATACTTTTCCATAGCAA
1 TTTTCAAAAACACTTTTCAAAAGCAA
*
48486578 TTTTCAAAAACACTTTTTAAAAGCA
1 TTTTCAAAAACACTTTTCAAAAGCA
48486603 TTGCCAAACT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.41, C:0.18, G:0.04, T:0.37
Consensus pattern (26 bp):
TTTTCAAAAACACTTTTCAAAAGCAA
Found at i:48487437 original size:13 final size:13
Alignment explanation
Indices: 48487394--48487437 Score: 58
Period size: 13 Copynumber: 3.6 Consensus size: 13
48487384 AGTATATATT
*
48487394 AACCCAAGTACCC
1 AACCCAATTACCC
48487407 AACCC-A--ACCC
1 AACCCAATTACCC
48487417 AACCCAATTACCC
1 AACCCAATTACCC
48487430 AACCCAAT
1 AACCCAAT
48487438 CATAAAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 9 0.32
11 1 0.04
12 1 0.04
13 17 0.61
ACGTcount: A:0.41, C:0.48, G:0.02, T:0.09
Consensus pattern (13 bp):
AACCCAATTACCC
Found at i:48487475 original size:5 final size:6
Alignment explanation
Indices: 48487462--48487508 Score: 67
Period size: 6 Copynumber: 7.5 Consensus size: 6
48487452 ATAATTTAAT
*
48487462 AAATAA AAATAA AAATAA AAATCTAA AACTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA
48487509 ACATATAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
6 32 0.86
8 5 0.14
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:48487510 original size:20 final size:19
Alignment explanation
Indices: 48487462--48487508 Score: 69
Period size: 20 Copynumber: 2.5 Consensus size: 19
48487452 ATAATTTAAT
48487462 AAATAAAAA-TAAAAATAA
1 AAATAAAAACTAAAAATAA
*
48487480 AAATCTAAAACTAAAAATAA
1 AAAT-AAAAACTAAAAATAA
48487500 AAATAAAAA
1 AAATAAAAA
48487509 ACATATAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 4 0.16
19 8 0.32
20 13 0.52
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.17
Consensus pattern (19 bp):
AAATAAAAACTAAAAATAA
Found at i:48487558 original size:9 final size:9
Alignment explanation
Indices: 48487528--48487586 Score: 82
Period size: 9 Copynumber: 6.6 Consensus size: 9
48487518 TTTATACAAA
48487528 TAATTCGGT
1 TAATTCGGT
* *
48487537 TAATTTGGG
1 TAATTCGGT
*
48487546 TAATTCAGT
1 TAATTCGGT
*
48487555 TAATTCGAT
1 TAATTCGGT
48487564 TAATTCGGT
1 TAATTCGGT
48487573 TAATTCGGT
1 TAATTCGGT
48487582 TAATT
1 TAATT
48487587 TTATACTTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 42 1.00
ACGTcount: A:0.27, C:0.08, G:0.19, T:0.46
Consensus pattern (9 bp):
TAATTCGGT
Found at i:48491955 original size:16 final size:17
Alignment explanation
Indices: 48491925--48491957 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
48491915 AAATTATCTA
48491925 TTTACTTTAAGTATTTT
1 TTTACTTTAAGTATTTT
*
48491942 TTTA-TTTAATTATTTT
1 TTTACTTTAAGTATTTT
48491958 ATAACATGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.70
Consensus pattern (17 bp):
TTTACTTTAAGTATTTT
Found at i:48492200 original size:9 final size:9
Alignment explanation
Indices: 48492186--48492241 Score: 52
Period size: 9 Copynumber: 6.9 Consensus size: 9
48492176 GTGAAAAAAT
48492186 TTAAATTAA
1 TTAAATTAA
48492195 TTAAATTAA
1 TTAAATTAA
*
48492204 -T-AAGTAA
1 TTAAATTAA
*
48492211 --AAA-AAA
1 TTAAATTAA
48492217 TTAAATTAA
1 TTAAATTAA
48492226 TTAAATTAA
1 TTAAATTAA
48492235 -TAAATTA
1 TTAAATTA
48492242 TATTTATTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
6 2 0.05
7 7 0.17
8 11 0.28
9 20 0.50
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (9 bp):
TTAAATTAA
Found at i:48492221 original size:31 final size:31
Alignment explanation
Indices: 48492170--48492237 Score: 109
Period size: 31 Copynumber: 2.2 Consensus size: 31
48492160 AATTCGATCG
* *
48492170 AATAGAGTGAAAAAATTTAAATTAATTAAATT
1 AATA-AGTAAAAAAAATTAAATTAATTAAATT
48492202 AATAAGTAAAAAAAATTAAATTAATTAAATT
1 AATAAGTAAAAAAAATTAAATTAATTAAATT
48492233 AATAA
1 AATAA
48492238 ATTATATTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
31 30 0.88
32 4 0.12
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (31 bp):
AATAAGTAAAAAAAATTAAATTAATTAAATT
Found at i:48492239 original size:22 final size:22
Alignment explanation
Indices: 48492186--48492250 Score: 59
Period size: 22 Copynumber: 3.1 Consensus size: 22
48492176 GTGAAAAAAT
48492186 TTAAATTAATTAAATT-AA-TAA
1 TTAAATTAA-TAAATTAAATTAA
*
48492207 GTAAA--AA-AAATTAAATTAA
1 TTAAATTAATAAATTAAATTAA
* *
48492226 TTAAATTAATAAATTATATTTA
1 TTAAATTAATAAATTAAATTAA
48492248 TTA
1 TTA
48492251 TCTTAACTCG
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
17 5 0.14
18 2 0.06
19 9 0.26
21 6 0.17
22 13 0.37
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (22 bp):
TTAAATTAATAAATTAAATTAA
Found at i:48493344 original size:43 final size:43
Alignment explanation
Indices: 48493289--48493402 Score: 183
Period size: 43 Copynumber: 2.7 Consensus size: 43
48493279 AAAAATGCCG
* * *
48493289 CTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCA
1 CTAAAGGTCAAGGCTTTTAGCGGCGCTTGTGGAAAAAGCACCA
*
48493332 CTAAAGGTCAAGGCTTTTAGCGGCGCTTGTGGAAAAAGCACCG
1 CTAAAGGTCAAGGCTTTTAGCGGCGCTTGTGGAAAAAGCACCA
*
48493375 CTAAAGGTCAAGGCTTTTAGCGGAGCTT
1 CTAAAGGTCAAGGCTTTTAGCGGCGCTT
48493403 TTTTTACAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 66 1.00
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (43 bp):
CTAAAGGTCAAGGCTTTTAGCGGCGCTTGTGGAAAAAGCACCA
Found at i:48493419 original size:43 final size:43
Alignment explanation
Indices: 48493285--48493422 Score: 165
Period size: 43 Copynumber: 3.2 Consensus size: 43
48493275 GGAAAAAAAT
*
48493285 GCCGCTAAAGGTCAAGGCTTTTAGCGGCG-TTTGTGGGAAAAGC
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGCTTT-TTGGAAAAGC
* *
48493328 GCCACTAAAGGTCAAGGCTTTTAGCGGCGC-TTGTGGAAAAAGC
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGCTTTTTGG-AAAAGC
* * **
48493371 ACCGCTAAAGGTCAAGGCTTTTAGCGGAGCTTTTTTTACAAA-C
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGCTTTTTGGA-AAAGC
48493414 GCCGCTAAA
1 GCCGCTAAA
48493423 TTTGGCAGAT
Statistics
Matches: 81, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
42 2 0.02
43 73 0.90
44 6 0.07
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (43 bp):
GCCGCTAAAGGTCAAGGCTTTTAGCGGCGCTTTTTGGAAAAGC
Found at i:48493549 original size:32 final size:31
Alignment explanation
Indices: 48493472--48493553 Score: 92
Period size: 31 Copynumber: 2.6 Consensus size: 31
48493462 CTTCCTGCAT
* * *
48493472 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATACAACCAAAAACAACAAATATAACA
* * * *
48493503 TAAAATGCAGCCAAAAACAGCAAATTTAACA
1 TAAAATACAACCAAAAACAACAAATATAACA
48493534 TAAAAATACAACCAAAAACA
1 T-AAAATACAACCAAAAACA
48493554 TTAATTCTAA
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
31 26 0.62
32 16 0.38
ACGTcount: A:0.61, C:0.20, G:0.04, T:0.16
Consensus pattern (31 bp):
TAAAATACAACCAAAAACAACAAATATAACA
Found at i:48497184 original size:28 final size:28
Alignment explanation
Indices: 48497152--48497221 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
48497142 ATAGTAAGTC
48497152 CGCACACTTAGTGCT-TA-ATAGTCAAACT
1 CGCACACTTAGTGCTATACA-A-TCAAACT
*
48497180 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
48497208 CGCACACTTAGTGC
1 CGCACACTTAGTGC
48497222 AAATCTCATT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 35 0.90
29 3 0.08
30 1 0.03
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:48504197 original size:40 final size:39
Alignment explanation
Indices: 48504092--48504197 Score: 97
Period size: 40 Copynumber: 2.6 Consensus size: 39
48504082 GCTACTCGTT
* * * *
48504092 CAAATTCCTTCAGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATATAGTAACTAGCA
* * * *
48504132 CAAATGCCTACGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATATAGTAAC-TAGCA
48504173 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTC-GGACTTAGCCCGGA
48504198 CATCATTTGA
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
39 3 0.06
40 39 0.74
41 11 0.21
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGATATAGTAACTAGCA
Found at i:48512171 original size:40 final size:40
Alignment explanation
Indices: 48512066--48512171 Score: 108
Period size: 40 Copynumber: 2.6 Consensus size: 40
48512056 GCTACTCGTT
* * * *
48512066 CAAATTCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
* * * *
48512106 CAAATGCCTAC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TAGCA
48512147 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
48512172 CATCATTCGA
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
39 3 0.06
40 39 0.74
41 11 0.21
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
Found at i:48516223 original size:38 final size:38
Alignment explanation
Indices: 48516172--48516248 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
48516162 AAGTCCGCAC
48516172 ACTTAGTGCTTAATAGTCAAACTCGCACACTTAGTGCT
1 ACTTAGTGCTTAATAGTCAAACTCGCACACTTAGTGCT
48516210 ACTTAGTGCTTAATAGTCAAACTCGCACACTTAGTGCT
1 ACTTAGTGCTTAATAGTCAAACTCGCACACTTAGTGCT
48516248 A
1 A
48516249 TACAATTAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (38 bp):
ACTTAGTGCTTAATAGTCAAACTCGCACACTTAGTGCT
Found at i:48516242 original size:28 final size:28
Alignment explanation
Indices: 48516210--48516274 Score: 89
Period size: 28 Copynumber: 2.3 Consensus size: 28
48516200 ACTTAGTGCT
48516210 ACTTAGTGCT-TA-ATAGTCAAACTCGCAC
1 ACTTAGTGCTATACA-A-TCAAACTCGCAC
*
48516238 ACTTAGTGCTATACAATTAAACTCGCAC
1 ACTTAGTGCTATACAATCAAACTCGCAC
48516266 ACTTAGTGC
1 ACTTAGTGC
48516275 CAATCTCATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
28 30 0.88
29 3 0.09
30 1 0.03
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (28 bp):
ACTTAGTGCTATACAATCAAACTCGCAC
Found at i:48521517 original size:9 final size:9
Alignment explanation
Indices: 48521503--48521657 Score: 73
Period size: 9 Copynumber: 16.6 Consensus size: 9
48521493 TATTTAAGTA
48521503 TTATGTAAG
1 TTATGTAAG
*
48521512 TTATGTAAT
1 TTATGTAAG
48521521 TTATG-ATA-
1 TTATGTA-AG
* * *
48521529 TAATATATAT
1 TTATGTA-AG
*
48521539 TTATGTAAA
1 TTATGTAAG
* *
48521548 TTATAT-AT
1 TTATGTAAG
*
48521556 TTATCTAAG
1 TTATGTAAG
48521565 TTATGTAAG
1 TTATGTAAG
*
48521574 TTATGTAAA
1 TTATGTAAG
*
48521583 TTATGATATAAAA
1 TTATG---T-AAG
*
48521596 TATATTTAAG
1 T-TATGTAAG
48521606 TATTATGTAAG
1 --TTATGTAAG
48521617 TTATGTAAG
1 TTATGTAAG
* *
48521626 TTATATATG
1 TTATGTAAG
*
48521635 TTATATAAG
1 TTATGTAAG
*
48521644 TTATGTAAA
1 TTATGTAAG
48521653 TTATG
1 TTATG
48521658 ATATCAAATA
Statistics
Matches: 115, Mismatches: 20, Indels: 22
0.73 0.13 0.14
Matches are distributed among these distances:
8 10 0.09
9 81 0.70
10 7 0.06
11 8 0.07
12 2 0.02
13 4 0.03
14 3 0.03
ACGTcount: A:0.39, C:0.01, G:0.12, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:48521646 original size:27 final size:28
Alignment explanation
Indices: 48521608--48521661 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 28
48521598 TATTTAAGTA
* *
48521608 TTATGTAAGTTATGTAAGTTAT-ATATG
1 TTATATAAGTTATGTAAATTATGATATG
48521635 TTATATAAGTTATGTAAATTATGATAT
1 TTATATAAGTTATGTAAATTATGATAT
48521662 CAAATATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 20 0.83
28 4 0.17
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (28 bp):
TTATATAAGTTATGTAAATTATGATATG
Found at i:48521782 original size:15 final size:15
Alignment explanation
Indices: 48521762--48521817 Score: 80
Period size: 15 Copynumber: 3.8 Consensus size: 15
48521752 AAGTAGCGGG
48521762 ATTAAATAATATTTA
1 ATTAAATAATATTTA
48521777 ATTAAATAATATTT-
1 ATTAAATAATATTTA
*
48521791 A-TAAATATTATTTTA
1 ATTAAATAATA-TTTA
48521806 ATTAAATAATAT
1 ATTAAATAATAT
48521818 ACATGTCGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
13 8 0.22
14 4 0.11
15 16 0.44
16 8 0.22
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:48522026 original size:24 final size:24
Alignment explanation
Indices: 48521994--48522061 Score: 111
Period size: 24 Copynumber: 2.8 Consensus size: 24
48521984 ACTTAAATGG
48521994 TAAAACGGACGATAATATTTGTGA
1 TAAAACGGACGATAATATTTGTGA
48522018 TAAAACGGA-GAATAATATTTGTGA
1 TAAAACGGACG-ATAATATTTGTGA
*
48522042 TAAAACGGACGAGAATATTT
1 TAAAACGGACGATAATATTT
48522062 CAGTAATAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
23 1 0.02
24 39 0.95
25 1 0.02
ACGTcount: A:0.44, C:0.07, G:0.21, T:0.28
Consensus pattern (24 bp):
TAAAACGGACGATAATATTTGTGA
Found at i:48522965 original size:372 final size:373
Alignment explanation
Indices: 48522153--48523062 Score: 1714
Period size: 372 Copynumber: 2.4 Consensus size: 373
48522143 GAAACATACA
* *
48522153 AATTTTTTAAGATTCATCATACATGGCGTTGTTACACCTAGAGAGGATCCATTATATCTTACAGC
1 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
48522218 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
66 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
48522283 AGGTTGGAGAGAAGGTCAGGTATTGTTGTAATTTTGATAAAAAGTAGTTATAACTTTTAAAGAAA
131 AGGTTGGAGAGAAGGTCAGGTATTGTTGTAATTTTGATAAAAAGTAGTTATAACTTTTAAAGAAA
48522348 TTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAAATAGTAATTTGAATATAAT
196 TTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAAATAGTAATTTGAATATAAT
*
48522413 AAAATCAAAAAATAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATATAA
261 AAAATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATATAA
48522478 ATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTG
326 ATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTG
* *
48522526 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAAGGAGGATCCATTATATCTTCCAGC
1 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
48522591 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
66 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
*
48522656 AGGTTTGAGAGAAGGTCAGGTATTGTTGTAATTTTGATAAAAAGTAGTTATAACTTTTAAAGAAA
131 AGGTTGGAGAGAAGGTCAGGTATTGTTGTAATTTTGATAAAAAGTAGTTATAACTTTTAAAGAAA
48522721 TTTAAAAATATTAAATATTAAAATAAAACATTATTAATAT-AAAAAATAGTAATTTGAATATAAT
196 TTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAAATAGTAATTTGAATATAAT
* *
48522785 AATATCAAAAAAGAATCGTAGTTTAATTTTTATAGGTAAATTGGAAATAAATTAAGGTTATATAA
261 AAAATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATATAA
48522850 ATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTG
326 ATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTG
*
48522898 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGC
1 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
48522963 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
66 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
* *
48523028 AGGTTGGAGAGAAAGTCAGCTATTGTTGTAATTTT
131 AGGTTGGAGAGAAGGTCAGGTATTGTTGTAATTTT
48523063 AATGGACAAG
Statistics
Matches: 524, Mismatches: 13, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
372 294 0.56
373 230 0.44
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.36
Consensus pattern (373 bp):
AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
AGGTTGGAGAGAAGGTCAGGTATTGTTGTAATTTTGATAAAAAGTAGTTATAACTTTTAAAGAAA
TTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAAATAGTAATTTGAATATAAT
AAAATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATATAA
ATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTG
Found at i:48527294 original size:15 final size:15
Alignment explanation
Indices: 48527274--48527305 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
48527264 AAATAATAAT
*
48527274 TTATATATATTTATC
1 TTATATACATTTATC
48527289 TTATATACATTTATC
1 TTATATACATTTATC
48527304 TT
1 TT
48527306 CTACATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATATACATTTATC
Found at i:48527728 original size:16 final size:18
Alignment explanation
Indices: 48527704--48527754 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
48527694 TTACACCCTA
48527704 AATATATATTATAATCTT
1 AATATATATTATAATCTT
* *
48527722 AATATATATTAGAATTTT
1 AATATATATTATAATCTT
48527740 AATATATATATATAA
1 AATATATAT-TATAA
48527755 CAAGGGACAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 25 0.86
19 4 0.14
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (18 bp):
AATATATATTATAATCTT
Found at i:48528104 original size:41 final size:41
Alignment explanation
Indices: 48528059--48528289 Score: 374
Period size: 41 Copynumber: 5.6 Consensus size: 41
48528049 TTACTTTTTT
* *
48528059 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACATCGGCCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGACCTATA
* *
48528100 GCGGCGTTTTTCCATAAGCGCCGCTAAAACATC-AGCCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGA-CCTATA
*
48528141 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTTGACCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGACCTATA
48528182 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGACCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGACCTATA
* * *
48528223 GCAGCGTTTTTCCAGAAGCGCTGCTAAAACCTCGACCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGACCTATA
48528264 GCGGCGTTTTTCCAAAAGCGCCGCTA
1 GCGGCGTTTTTCCAAAAGCGCCGCTA
48528290 TTGTACAGTT
Statistics
Matches: 176, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
41 175 0.99
42 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (41 bp):
GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGACCTATA
Found at i:48528320 original size:41 final size:41
Alignment explanation
Indices: 48528262--48528394 Score: 153
Period size: 41 Copynumber: 3.3 Consensus size: 41
48528252 CCTCGACCTA
** *
48528262 TAGCGGCGTTT-TTCCAAAAGCGCCGCTATTG-TACAGTTTT
1 TAGCGGCGTTTGGACCAAAAACGCCGCTATTGCT-CAGTTTT
* * *
48528302 TAGCGGCGTTTGGGCCAAAAACACCACTATTGCTCAGTTTT
1 TAGCGGCGTTTGGACCAAAAACGCCGCTATTGCTCAGTTTT
* * *
48528343 TAGCGGCGTTTGGATCAAAAACGCTGCTATTGCTCTGTTTT
1 TAGCGGCGTTTGGACCAAAAACGCCGCTATTGCTCAGTTTT
*
48528384 TTGCGGCGTTT
1 TAGCGGCGTTT
48528395 TATTGCAAAC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
40 11 0.14
41 67 0.85
42 1 0.01
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.35
Consensus pattern (41 bp):
TAGCGGCGTTTGGACCAAAAACGCCGCTATTGCTCAGTTTT
Found at i:48528321 original size:123 final size:121
Alignment explanation
Indices: 48528051--48528312 Score: 352
Period size: 123 Copynumber: 2.1 Consensus size: 121
48528041 AAACTAAATT
* * * *
48528051 ACTTTTTTGCGGCGTTTTTCCAAAAGCGCCGCTAAAACATCGGCCTATAGCGGCGTTTTTCCATA
1 ACTTTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAAAACATCGACCTATAGCAGCGTTTTTCCAGA
48528116 AGCGCCGCTAAAACATCAGCCTATAGCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTTG
66 AGCGCCGCTAAAACATCAGCCTATAGCGGCGTTTTTCCAAAAGCGCCGCT--AA-CTTG
* * *
48528175 AC-CTATAGCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGACCTATAGCAGCGTTTTTCCAGA
1 ACTTTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAAAACATCGACCTATAGCAGCGTTTTTCCAGA
* *
48528239 AGCGCTGCTAAAACCTC-GACCTATAGCGGCGTTTTTCCAAAAGCGCCGCT-A-TTG
66 AGCGCCGCTAAAACATCAG-CCTATAGCGGCGTTTTTCCAAAAGCGCCGCTAACTTG
48528293 TACAGTTTTTAGCGGCGTTT
1 -AC--TTTTTAGCGGCGTTT
48528313 GGGCCAAAAA
Statistics
Matches: 122, Mismatches: 11, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
118 3 0.02
119 2 0.02
120 1 0.01
122 13 0.11
123 101 0.83
124 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (121 bp):
ACTTTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAAAACATCGACCTATAGCAGCGTTTTTCCAGA
AGCGCCGCTAAAACATCAGCCTATAGCGGCGTTTTTCCAAAAGCGCCGCTAACTTG
Found at i:48529163 original size:19 final size:20
Alignment explanation
Indices: 48529139--48529177 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
48529129 AAACATTAAA
*
48529139 AAATTATTTAAAAA-TATAT
1 AAATTAATTAAAAAGTATAT
48529158 AAATTAATTAAAAAGTATAT
1 AAATTAATTAAAAAGTATAT
48529178 TTTCTTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (20 bp):
AAATTAATTAAAAAGTATAT
Found at i:48533630 original size:13 final size:13
Alignment explanation
Indices: 48533612--48533636 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48533602 TTGTGAATTT
48533612 TGTATCTGTTTTC
1 TGTATCTGTTTTC
48533625 TGTATCTGTTTT
1 TGTATCTGTTTT
48533637 GGGGTGGGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.12, G:0.16, T:0.64
Consensus pattern (13 bp):
TGTATCTGTTTTC
Found at i:48538080 original size:53 final size:53
Alignment explanation
Indices: 48538017--48538121 Score: 147
Period size: 53 Copynumber: 2.0 Consensus size: 53
48538007 TTCCTTTTTA
* * * *
48538017 AACTTACCATTTCCATGTCTTAACATAGTCTTACATGGTATCTTTGCCTTATG
1 AACTCACCATTGCCATGCCTTAACATAGTCTTACATGGGATCTTTGCCTTATG
** *
48538070 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTAT
1 AACTCACCATTGCCATGCCTTAACATAGTCTTACATGGGATCTTTGCCTTAT
48538122 AGTAGTTTAT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
53 45 1.00
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.38
Consensus pattern (53 bp):
AACTCACCATTGCCATGCCTTAACATAGTCTTACATGGGATCTTTGCCTTATG
Found at i:48538160 original size:55 final size:53
Alignment explanation
Indices: 48538029--48538212 Score: 170
Period size: 55 Copynumber: 3.4 Consensus size: 53
48538019 CTTACCATTT
* * * *
48538029 CCATGTCTTAACATAGTCTTACATGGTATCTTTGCCTTATGAACTCACCATTG
1 CCATGTCTTGACATGGTCTTACATGGGATCTTTGCCTTATGAACTCACCAATG
* * ** * *
48538082 CCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAGTAGTTTATCAATG
1 CCATGTCTTGACATGGTCTTACATGGGATCTTTGCCTTAT-G-AACTCACCAATG
*** * * * *
48538137 CCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAAAACTTACCAATG
1 CCATGTCTTGACATGGTCTTACATGGGATCTTTGCCTTAT-GAACTCACCAATG
* *
48538191 CCATGCCTTGGCATGGTCTTAC
1 CCATGTCTTGACATGGTCTTAC
48538213 TTGGTATCCT
Statistics
Matches: 106, Mismatches: 23, Indels: 3
0.80 0.17 0.02
Matches are distributed among these distances:
53 35 0.33
54 30 0.28
55 41 0.39
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (53 bp):
CCATGTCTTGACATGGTCTTACATGGGATCTTTGCCTTATGAACTCACCAATG
Found at i:48538263 original size:36 final size:36
Alignment explanation
Indices: 48538216--48538287 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
48538206 GTCTTACTTG
*
48538216 GTATCCTTAAACCCTAATTTCATGACATTTGTATCC
1 GTATCCTTAAACCCTAATGTCATGACATTTGTATCC
48538252 GTATCCTTAAACCCTAATGTCATGACATTTGTATCC
1 GTATCCTTAAACCCTAATGTCATGACATTTGTATCC
48538288 TACACATTCT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.28, C:0.25, G:0.10, T:0.38
Consensus pattern (36 bp):
GTATCCTTAAACCCTAATGTCATGACATTTGTATCC
Found at i:48559702 original size:16 final size:17
Alignment explanation
Indices: 48559654--48559703 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
48559644 ATTGAATTAA
48559654 AAAAAATTC-AAGTCTG
1 AAAAAATTCTAAGTCTG
*
48559670 CAATAAA-TCTAAGTCTG
1 -AAAAAATTCTAAGTCTG
48559687 AAAAAATTCTAA-TCTG
1 AAAAAATTCTAAGTCTG
48559703 A
1 A
48559704 CAGGACCCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
16 12 0.41
17 17 0.59
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.28
Consensus pattern (17 bp):
AAAAAATTCTAAGTCTG
Found at i:48561592 original size:39 final size:39
Alignment explanation
Indices: 48561514--48561593 Score: 97
Period size: 39 Copynumber: 2.1 Consensus size: 39
48561504 TATTATAAAT
* **
48561514 TATAATGAGATCTAGCATTTGTTTCAGATCCTCAGGTAA
1 TATAATGAGATCCAGCATTTGTCGCAGATCCTCAGGTAA
* * * *
48561553 TATAATGAGATCCATCATTTGTCGCGGATTCTCATGTAA
1 TATAATGAGATCCAGCATTTGTCGCAGATCCTCAGGTAA
48561592 TA
1 TA
48561594 CATGATATAG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.36
Consensus pattern (39 bp):
TATAATGAGATCCAGCATTTGTCGCAGATCCTCAGGTAA
Found at i:48567934 original size:13 final size:13
Alignment explanation
Indices: 48567897--48567947 Score: 68
Period size: 13 Copynumber: 3.9 Consensus size: 13
48567887 TTTGACAATT
48567897 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
*
48567910 C-TCTGAAAAAGTG
1 CTTTTG-AAAAGTG
*
48567923 CTTTTGATAAGTG
1 CTTTTGAAAAGTG
48567936 CTTTTGAAAAGT
1 CTTTTGAAAAGT
48567948 TTGGTTGGCC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
12 3 0.09
13 26 0.81
14 3 0.09
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.37
Consensus pattern (13 bp):
CTTTTGAAAAGTG
Found at i:48568623 original size:13 final size:13
Alignment explanation
Indices: 48568602--48568663 Score: 72
Period size: 13 Copynumber: 4.8 Consensus size: 13
48568592 ACACCTAAAA
48568602 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
* *
48568615 TTCTCAAAAACAC
1 TTTTCAAAAGCAC
*
48568628 TTTTCCACAA-CAC
1 TTTT-CAAAAGCAC
*
48568641 TTTTTAAAAGCAC
1 TTTTCAAAAGCAC
48568654 TTTTCAAAAG
1 TTTTCAAAAG
48568664 TATTACCAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
12 3 0.08
13 33 0.82
14 4 0.10
ACGTcount: A:0.39, C:0.24, G:0.05, T:0.32
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:48571023 original size:21 final size:21
Alignment explanation
Indices: 48570999--48571039 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
48570989 TGAATTTTTC
48570999 ATGGTTTTGTTAATAAAGTAA
1 ATGGTTTTGTTAATAAAGTAA
48571020 ATGGTTTTGTTAATAAAGTA
1 ATGGTTTTGTTAATAAAGTA
48571040 TATTTAATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.20, T:0.44
Consensus pattern (21 bp):
ATGGTTTTGTTAATAAAGTAA
Found at i:48574645 original size:31 final size:30
Alignment explanation
Indices: 48574590--48574648 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
48574580 GTAAATACTC
***
48574590 AAAATTTGAAGGGTTAAAGTGTAAATATGA
1 AAAATTTGAAGGACCAAAGTGTAAATATGA
48574620 AAAATTTGAAGGACCAATAGTGTAAATAT
1 AAAATTTGAAGGACCAA-AGTGTAAATAT
48574649 TTTAGGGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.47, C:0.03, G:0.20, T:0.29
Consensus pattern (30 bp):
AAAATTTGAAGGACCAAAGTGTAAATATGA
Found at i:48580929 original size:171 final size:168
Alignment explanation
Indices: 48580632--48580937 Score: 368
Period size: 169 Copynumber: 1.8 Consensus size: 168
48580622 GTTAATAGGG
* * *
48580632 TGAATAATTGAAATGAGAAAATTAAATAAATGTGATTGATCATACTATTAAAAATATGAGAAAGA
1 TGAATAAATGAAATGAGAAAATTAAATAAATGTGATCGATCATACTATTAAAAATATGAAAAAGA
* * * * **
48580697 AATTATGAGTTGAATTGCGAATTGATTTGAGATGTGAGATTTGAAGCATGAACTTAAGGTTCATG
66 AATTATGAATTGAAATGCGAATTGAATTGAGATATGAGATTTGAAGCATGAACCAAAGGTTCATG
48580762 AATTTGCTAAAATATCAAATTGTTGATATTGAAATCAGT
131 -ATTTGCTAAAATATCAAATTGTTGATATTGAAATCAGT
* * * * *
48580801 TGAATAAATGAAATGAG-AAATTCAAATGAATTTGATCGATTGA-ACTATTGAAAGTATGAAAAA
1 TGAATAAATGAAATGAGAAAATT-AAATAAATGTGATCGA-TCATACTATTAAAAATATGAAAAA
* * *
48580864 GTGGAATTATGAATTGAAATGTGAATTGAAATTGAGATAT-ACGA-TTGAAGCTTGAACCAAAGG
64 --GAAATTATGAATTGAAATGCGAATTG-AATTGAGATATGA-GATTTGAAGCATGAACCAAAGG
48580927 TTCATGATTTG
125 TTCATGATTTG
48580938 ATTAAAGATA
Statistics
Matches: 114, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
168 5 0.04
169 46 0.40
170 7 0.06
171 45 0.39
172 11 0.10
ACGTcount: A:0.42, C:0.06, G:0.20, T:0.32
Consensus pattern (168 bp):
TGAATAAATGAAATGAGAAAATTAAATAAATGTGATCGATCATACTATTAAAAATATGAAAAAGA
AATTATGAATTGAAATGCGAATTGAATTGAGATATGAGATTTGAAGCATGAACCAAAGGTTCATG
ATTTGCTAAAATATCAAATTGTTGATATTGAAATCAGT
Found at i:48581162 original size:7 final size:7
Alignment explanation
Indices: 48581152--48581178 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
48581142 TTATTCATTA
48581152 TTAAATG
1 TTAAATG
48581159 TTAAATG
1 TTAAATG
48581166 TTAAATG
1 TTAAATG
48581173 TTAAAT
1 TTAAAT
48581179 TATGTGTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (7 bp):
TTAAATG
Found at i:48581595 original size:25 final size:25
Alignment explanation
Indices: 48581567--48581642 Score: 88
Period size: 25 Copynumber: 3.2 Consensus size: 25
48581557 TAGCGCGCTA
* *
48581567 TCTGATTATTAGTACGTTAGTGCTC
1 TCTGATTATTAGCACATTAGTGCTC
48581592 TCTGATTATTAGCACATTAGTGCTC
1 TCTGATTATTAGCACATTAGTGCTC
*
48581617 TCCG--T-TTAGCACATCT-GTGCTC
1 TCTGATTATTAGCACAT-TAGTGCTC
48581639 TCTG
1 TCTG
48581643 TATAGTACTT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
22 18 0.39
23 2 0.04
25 26 0.57
ACGTcount: A:0.18, C:0.22, G:0.18, T:0.41
Consensus pattern (25 bp):
TCTGATTATTAGCACATTAGTGCTC
Found at i:48586518 original size:21 final size:22
Alignment explanation
Indices: 48586492--48586541 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
48586482 CTCTAGCACG
**
48586492 GGCGTGT-CCTAGGGTCACACA
1 GGCGTGTCCCTAGGACCACACA
*
48586513 GGCGTGTCCCTTGGACCACACA
1 GGCGTGTCCCTAGGACCACACA
48586535 GGCGTGT
1 GGCGTGT
48586542 GAGCCCAGCA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 7 0.28
22 18 0.72
ACGTcount: A:0.16, C:0.30, G:0.34, T:0.20
Consensus pattern (22 bp):
GGCGTGTCCCTAGGACCACACA
Found at i:48588181 original size:42 final size:43
Alignment explanation
Indices: 48588087--48588243 Score: 133
Period size: 43 Copynumber: 3.7 Consensus size: 43
48588077 TGAGATATCG
* * * *
48588087 TGTAAGACCGTGTCCGAGACA-CAGGCCTCGAT-TTGAGATTTACA
1 TGTAAGACCATGTCTGGGACATC-GGCATCGATATTGA-A-TTACA
* *
48588131 TGTAAGACCATGTCTGGGACATCGGCATC-ATATCTG-ATTTCG
1 TGTAAGACCATGTCTGGGACATCGGCATCGATAT-TGAATTACA
* * **
48588173 TGTAAGACCCTATCTGGGACAGAGGCATCGATATTGAATTACA
1 TGTAAGACCATGTCTGGGACATCGGCATCGATATTGAATTACA
* * *
48588216 TGTAAGACCACGTCCGGGACGTCGGCAT
1 TGTAAGACCATGTCTGGGACATCGGCAT
48588244 TGTATCTGTT
Statistics
Matches: 89, Mismatches: 19, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
42 30 0.34
43 32 0.36
44 24 0.27
45 3 0.03
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.25
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATCGGCATCGATATTGAATTACA
Found at i:48588235 original size:43 final size:43
Alignment explanation
Indices: 48588087--48588235 Score: 119
Period size: 42 Copynumber: 3.5 Consensus size: 43
48588077 TGAGATATCG
** * *
48588087 TGTAAGACCGTGTCCGAGACACAGGCCTCGAT-TTGAGATTTACA
1 TGTAAGACCACGTCCGGGACACAGGCATCGATATTGA-A-TTACA
* * * *
48588131 TGTAAGACCATGTCTGGGACATC-GGCATC-ATATCTG-ATTTCG
1 TGTAAGACCACGTCCGGGACA-CAGGCATCGATAT-TGAATTACA
* * *
48588173 TGTAAGACC-CTATCTGGGACAGAGGCATCGATATTGAATTACA
1 TGTAAGACCAC-GTCCGGGACACAGGCATCGATATTGAATTACA
48588216 TGTAAGACCACGTCCGGGAC
1 TGTAAGACCACGTCCGGGAC
48588236 GTCGGCATTG
Statistics
Matches: 84, Mismatches: 13, Indels: 17
0.74 0.11 0.15
Matches are distributed among these distances:
42 29 0.35
43 27 0.32
44 25 0.30
45 3 0.04
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.26
Consensus pattern (43 bp):
TGTAAGACCACGTCCGGGACACAGGCATCGATATTGAATTACA
Found at i:48588251 original size:85 final size:86
Alignment explanation
Indices: 48588084--48588243 Score: 216
Period size: 85 Copynumber: 1.9 Consensus size: 86
48588074 ATTTGAGATA
* * * * *
48588084 TCGTGTAAGACCGTGTCCGAGACACAGGCCTCGATTTGAGATTTACATGTAAGACCATGTCTGGG
1 TCGTGTAAGACCCTATCCGAGACACAGGCATCGATTTGAGATTTACATGTAAGACCACGTCCGGG
48588149 ACATCGGCATCATATCTGATT
66 ACATCGGCATCATATCTGATT
* * *
48588170 TCGTGTAAGACCCTATCTGGGACAGAGGCATCGATATTGA-A-TTACATGTAAGACCACGTCCGG
1 TCGTGTAAGACCCTATCCGAGACACAGGCATCGAT-TTGAGATTTACATGTAAGACCACGTCCGG
*
48588233 GACGTCGGCAT
65 GACATCGGCAT
48588244 TGTATCTGTT
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
85 30 0.47
86 30 0.47
87 4 0.06
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (86 bp):
TCGTGTAAGACCCTATCCGAGACACAGGCATCGATTTGAGATTTACATGTAAGACCACGTCCGGG
ACATCGGCATCATATCTGATT
Found at i:48591789 original size:20 final size:20
Alignment explanation
Indices: 48591735--48591791 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 20
48591725 AATCATATGA
* *
48591735 AACTATTTTGTTATGGG-CC
1 AACTATATTGATATGGGCCC
* * *
48591754 AACTGTATTAAAATGGGCCC
1 AACTATATTGATATGGGCCC
*
48591774 AACTATGTTGATATGGGC
1 AACTATATTGATATGGGC
48591792 AAGGCCCAAT
Statistics
Matches: 28, Mismatches: 9, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (20 bp):
AACTATATTGATATGGGCCC
Found at i:48591859 original size:27 final size:27
Alignment explanation
Indices: 48591829--48591932 Score: 70
Period size: 28 Copynumber: 3.6 Consensus size: 27
48591819 AGGGCGACGA
48591829 CCCAGATTAATACTGATATGGGCTAGG
1 CCCAGATTAATACTGATATGGGCTAGG
*
48591856 CCCA-ATATACTCTGATACTG-TAAGGGGCTATGG
1 CCCAGAT-TA-----ATACTGAT-ATGGGCTA-GG
*
48591889 CCCAGATTAATATTGATATGGGCTGAGG
1 CCCAGATTAATACTGATATGGGCT-AGG
* *
48591917 TCCAG-TTAACACTGAT
1 CCCAGATTAATACTGAT
48591933 TTCTGAATAG
Statistics
Matches: 60, Mismatches: 6, Indels: 22
0.68 0.07 0.25
Matches are distributed among these distances:
26 2 0.03
27 15 0.25
28 17 0.28
29 2 0.03
31 1 0.02
32 13 0.22
33 8 0.13
34 2 0.03
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (27 bp):
CCCAGATTAATACTGATATGGGCTAGG
Found at i:48591893 original size:60 final size:60
Alignment explanation
Indices: 48591782--48591912 Score: 160
Period size: 60 Copynumber: 2.2 Consensus size: 60
48591772 CCAACTATGT
*
48591782 TGATATGGGCAAGGCCCAATATATCTTGACTCGTAACAGGGCGACGACCCAGATTAATAC
1 TGATATGGGCTAGGCCCAATATATCTTGACTCGTAACAGGGCGACGACCCAGATTAATAC
* * * * *
48591842 TGATATGGGCTAGGCCCAATATA-CTCTGA-TACTGTAA-GGGGCTATGGCCCAGATTAATAT
1 TGATATGGGCTAGGCCCAATATATCT-TGACT-C-GTAACAGGGCGACGACCCAGATTAATAC
48591902 TGATATGGGCT
1 TGATATGGGCT
48591913 GAGGTCCAGT
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
59 3 0.05
60 55 0.89
61 4 0.06
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (60 bp):
TGATATGGGCTAGGCCCAATATATCTTGACTCGTAACAGGGCGACGACCCAGATTAATAC
Found at i:48604990 original size:46 final size:46
Alignment explanation
Indices: 48604876--48604992 Score: 155
Period size: 46 Copynumber: 2.5 Consensus size: 46
48604866 TCTCGTAGCT
* * * * *
48604876 GATGCATGTCCCAGACATGTCTCACACTGGCTTACGTTTCGAGGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCTTACGTCTCAAGGCC
* *
48604922 GATGCATGTCCCAGACATGTCTTACACTAG-TTCTCGTCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTT-ACGTCTCAAGGCC
48604968 GATGCATGTCCCAGACATGTCTTAC
1 GATGCATGTCCCAGACATGTCTTAC
48604993 GTTGGCTCTC
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
45 2 0.03
46 61 0.97
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTTACGTCTCAAGGCC
Found at i:48614373 original size:47 final size:47
Alignment explanation
Indices: 48614301--48614787 Score: 721
Period size: 47 Copynumber: 10.3 Consensus size: 47
48614291 CCCTTTGGGA
* * *
48614301 CTTATCACATTTATACACT-TCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
48614348 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
*
48614395 CTTATCTCATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
* *
48614442 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
*
48614489 CTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* * *
48614536 CTTATCACACATACACATGTTCACATTCATCACATTGGTCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
48614583 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
*
48614630 CTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* * *
48614677 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTTGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
48614724 CTTATCACGCATATATATACT-TTCACATTCATCACATTGGCCACTCGGC
1 CTTATCA--CATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
*
48614773 CCTATCACATATATA
1 CTTATCACATATATA
48614788 TACTTGTACA
Statistics
Matches: 410, Mismatches: 26, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
46 1 0.00
47 369 0.90
49 39 0.10
50 1 0.00
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
Found at i:48618320 original size:40 final size:40
Alignment explanation
Indices: 48618276--48618583 Score: 465
Period size: 40 Copynumber: 7.7 Consensus size: 40
48618266 CCAGCATGAT
* * * *
48618276 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * *
48618316 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
48618356 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
48618396 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
48618436 TGCACTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
48618476 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
48618516 TGCTCTTCGGGACTTAGCCCAGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
48618556 TGCTCTTCGGGACTTAGCCCGGAT-CATC
1 TGCTCTTCGGGACTTAGCCCGGATACATC
48618584 GTCGAGACCT
Statistics
Matches: 246, Mismatches: 22, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
39 4 0.02
40 242 0.98
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:48618706 original size:38 final size:38
Alignment explanation
Indices: 48618637--48618711 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
48618627 GAATTTTAAT
*
48618637 CCGGACATAATCTCTGTACATAGCCATCGGGTCTTTAC
1 CCGGACATAATCTCTGTACATAGCCAGCGGGTCTTTAC
* *
48618675 CCGGACATAATCTCT-TCATATAGTCAGCGGGTCTTTA
1 CCGGACATAATCTCTGT-ACATAGCCAGCGGGTCTTTA
48618712 AACTCGGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (38 bp):
CCGGACATAATCTCTGTACATAGCCAGCGGGTCTTTAC
Found at i:48621200 original size:47 final size:47
Alignment explanation
Indices: 48621137--48621672 Score: 785
Period size: 47 Copynumber: 11.3 Consensus size: 47
48621127 CCCTTCGGGA
* * *
48621137 CTTATCACATTTATACACT-TCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
48621184 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
*
48621231 CTTATCTCATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
* *
48621278 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
*
48621325 CTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* * *
48621372 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGAC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
*
48621419 CTTATCACGCATATATATACT-TTCACATTCATCACATTGGCCATTCGGC
1 CTTATCA--CATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
* *
48621468 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
*
48621515 CTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
48621562 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
48621609 CTTATCACGCATATATATACT-TTCACATTCATCACATTGGCCACTCGGC
1 CTTATCA--CATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
*
48621658 CCTATCACATATATA
1 CTTATCACATATATA
48621673 TACTTGTACA
Statistics
Matches: 455, Mismatches: 26, Indels: 16
0.92 0.05 0.03
Matches are distributed among these distances:
46 2 0.00
47 371 0.82
49 80 0.18
50 2 0.00
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
Found at i:48621499 original size:190 final size:190
Alignment explanation
Indices: 48621158--48621671 Score: 917
Period size: 190 Copynumber: 2.7 Consensus size: 190
48621148 TATACACTTC
* * *
48621158 CACATCCATCACATTGGCCATTCGGCCTTATCACATATATACACT-TTCACATTCATCACATTGG
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACA-TGTTCACATTCATCACATTGG
* *
48621222 CCATTCGGCCTTAT--CTCATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCT
65 CCATTCGGCCTTATCACGCATATATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCT
48621285 CATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATACATGTT
130 CATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATACATGTT
48621346 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCACATTGGC
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCACATTGGC
*
48621411 CATTCGACCTTATCACGCATATATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCTC
66 CATTCGGCCTTATCACGCATATATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCTC
48621476 ATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATACATGTT
131 ATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATACATGTT
48621536 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCACATTGGC
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCACATTGGC
* * *
48621601 CATTCGGCCTTATCACGCATATATATACTTTCACATTCATCACATTGGCCACTCGGCCCTATCAC
66 CATTCGGCCTTATCACGCATATATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCTC
48621666 ATATAT
131 ATATAT
48621672 ATACTTGTAC
Statistics
Matches: 313, Mismatches: 10, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
187 1 0.00
188 72 0.23
190 240 0.77
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.33
Consensus pattern (190 bp):
CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCACATTGGC
CATTCGGCCTTATCACGCATATATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCTC
ATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATACATGTT
Found at i:48624450 original size:47 final size:47
Alignment explanation
Indices: 48624390--48624558 Score: 170
Period size: 47 Copynumber: 3.6 Consensus size: 47
48624380 ATCCATAAGT
48624390 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
* * * * *
48624437 GAACTCGGACTCAACTCAATGAGTTC--A-GAC--GTTCGCATC-CATAA
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACATCTC--AC
* * *
48624481 GTAAACTCGGATTCAACTCAACAAGCTCAGATGCCTAGTTACATCTCAC
1 G--AACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
*
48624530 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGCTCGGA
48624559 CGTTTGCATC
Statistics
Matches: 95, Mismatches: 16, Indels: 22
0.71 0.12 0.17
Matches are distributed among these distances:
42 4 0.04
43 4 0.04
44 4 0.04
45 1 0.01
46 21 0.22
47 48 0.51
48 1 0.01
49 4 0.04
50 4 0.04
51 4 0.04
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:48624470 original size:93 final size:93
Alignment explanation
Indices: 48624344--48624608 Score: 397
Period size: 93 Copynumber: 2.8 Consensus size: 93
48624334 ACCCATAAGT
* * * *
48624344 GAACTTGGACTCAACTCAACAAGCTT-GGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAG-TTCAGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
48624408 ACGAGCTCGGATGCCTAGTTACATCTCAC
65 ACGAGCTCGGATGCCTAGTTACATCTCAC
* * *
48624437 GAACTCGGACTCAACTCAATGAGTTCAGACGTTCGCATCCATAAGTAAACTCGGATTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
48624502 CAAGCTCAGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
* * *
48624530 GAACTCGGACTCAACTCAACGAGTTCGGACGTTTGCATCCATAAGTGAACTCGGACTAAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
48624595 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
48624609 CAAAATTCGA
Statistics
Matches: 153, Mismatches: 18, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
92 2 0.01
93 151 0.99
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:48624597 original size:46 final size:46
Alignment explanation
Indices: 48624336--48624604 Score: 210
Period size: 46 Copynumber: 5.8 Consensus size: 46
48624326 TGTAACCCAC
* * * *
48624336 CCATAAGTGAACTTGGACTCAACTCAACAAGCTT-GGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACGTTTGCAT
* * *
48624382 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA--CGT--TTGCAT
* * * * *
48624432 -C-TCA-CGAACTCGGACTCAACTCAATGAGTTCAGACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTTGCAT
* * * * * * *
48624475 CCATAAGTAAACTCGGATTCAACTCAACAAGCTCAGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA--CGT--TTGCAT
* *
48624525 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTTGCAT
*
48624568 CCATAAGTGAACTCGGACTAAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
48624605 TGCCCAAAAT
Statistics
Matches: 171, Mismatches: 37, Indels: 30
0.72 0.16 0.13
Matches are distributed among these distances:
43 9 0.05
44 2 0.01
45 9 0.05
46 83 0.49
47 50 0.29
48 8 0.05
49 2 0.01
50 8 0.05
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTTGCAT
Found at i:48631660 original size:30 final size:29
Alignment explanation
Indices: 48631617--48631674 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
48631607 TGATTTTTGA
* *
48631617 AAATTGAATCAAATCAAAATTTCATGTATC
1 AAATTGAACCAAATC-AAAGTTCATGTATC
*
48631647 AAATTGCACCAAATCAAAGTTCATGTAT
1 AAATTGAACCAAATCAAAGTTCATGTAT
48631675 AGCTTTGATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 12 0.48
30 13 0.52
ACGTcount: A:0.45, C:0.16, G:0.09, T:0.31
Consensus pattern (29 bp):
AAATTGAACCAAATCAAAGTTCATGTATC
Found at i:48633353 original size:39 final size:39
Alignment explanation
Indices: 48633236--48633536 Score: 407
Period size: 39 Copynumber: 7.6 Consensus size: 39
48633226 GCTCCTCGTT
* *
48633236 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
48633276 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
48633316 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
48633355 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
48633394 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
48633433 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* * *
48633472 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TCGCA
48633513 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
48633537 CATCATTCAA
Statistics
Matches: 243, Mismatches: 11, Indels: 15
0.90 0.04 0.06
Matches are distributed among these distances:
39 171 0.70
40 61 0.25
41 11 0.05
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:48641405 original size:79 final size:79
Alignment explanation
Indices: 48641305--48641644 Score: 451
Period size: 79 Copynumber: 4.3 Consensus size: 79
48641295 CATCTCGTTT
* * * *
48641305 AAATGCCTTCGGGACATAGCCC-GATTATAGTAAT-TCACACAAATGCCTTCGGGACTTAACCCG
1 AAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCG
*
48641368 GATTTAGTAACTCGCAC
63 GAATTAGTAACTCGCAC
48641385 AAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGCTTAGCCCGGAA
1 AAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGCTTAGCCCGGAA
*
48641449 TTAGTATCTCGCAC
66 TTAGTAACTCGCAC
* * *
48641463 AAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAA
1 AAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGCTTAGCCCGGAA
*
48641528 TTAGTATCTCGCAC
66 TTAGTAACTCGCAC
* *
48641542 AAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGG-GCTTAGCCCGGA
* *
48641606 TATT-GTCACTTAGCAC
65 -ATTAGTAAC-TCGCAC
48641622 -AA-GCCTTCGGGACTTAGCCCGGA
1 AAATGCCTTCGGGACTTAGCCCGGA
48641645 CATCATTCAA
Statistics
Matches: 236, Mismatches: 17, Indels: 15
0.88 0.06 0.06
Matches are distributed among these distances:
78 82 0.35
79 130 0.55
80 24 0.10
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
AAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGCTTAGCCCGGAA
TTAGTAACTCGCAC
Found at i:48641421 original size:39 final size:39
Alignment explanation
Indices: 48641305--48641644 Score: 440
Period size: 39 Copynumber: 8.6 Consensus size: 39
48641295 CATCTCGTTT
* * *
48641305 AAATGCCTTCGGGACATAGCCC-GATTATAGTAAT-TCACAC
1 AAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCAC
* * *
48641345 AAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
1 AAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCAC
48641385 AAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCAC
1 AAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCAC
48641424 AAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCAC
1 AAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCAC
* * *
48641463 AAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
1 AAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCAC
48641503 AAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCAC
1 AAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCAC
48641542 AAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCAC
1 AAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCAC
* * *
48641581 AAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCAC
1 AAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TCGCAC
48641622 -AA-GCCTTCGGGACTTAGCCCGGA
1 AAATGCCTTCGGG-CTTAGCCCGGA
48641645 CATCATTCAA
Statistics
Matches: 274, Mismatches: 18, Indels: 17
0.89 0.06 0.06
Matches are distributed among these distances:
39 168 0.61
40 93 0.34
41 13 0.05
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCAC
Found at i:48641480 original size:118 final size:118
Alignment explanation
Indices: 48641305--48641644 Score: 512
Period size: 118 Copynumber: 2.9 Consensus size: 118
48641295 CATCTCGTTT
* * *
48641305 AAATGCCTTCGGGACATAGCCC-GATTATAGTAAT-TCACACAAATGCCTTCGGGACTTAACCCG
1 AAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTCGGGACTTAACCCG
48641368 GATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCAC
63 GATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCAC
48641424 AAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGGAT
48641489 TTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCAC
66 TTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCAC
**
48641542 AAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGA
1 AAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGA-CTTAACCCGGA
* *
48641606 TATT-GTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCGGA
65 T-TTAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGCCCGGA
48641645 CATCATTCAA
Statistics
Matches: 208, Mismatches: 7, Indels: 13
0.91 0.03 0.06
Matches are distributed among these distances:
117 14 0.07
118 171 0.82
119 23 0.11
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (118 bp):
AAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGGAT
TTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCAC
Found at i:48643889 original size:48 final size:48
Alignment explanation
Indices: 48643830--48644112 Score: 248
Period size: 48 Copynumber: 5.9 Consensus size: 48
48643820 GGGTGAGTTA
* * * * * **
48643830 CCGATGTCATGTTCCAAACATGGTCTTACACTGGCTCACATGTTGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGG
* * * *
48643878 CCGATGCCATGTCCCAGACATGGTCTTACACTAGATCTCATCTCAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGG
* * * *
48643926 CCTATGCCATGTCCCAGACTTGGTCTTACACTAGCGCACATATCAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGG
* * * *
48643974 CTGATGCCATGTCCTAGACATTGTCTTACACTGGCTCTCACAATATC---G
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAG--CTCAC-ATATCAAGG
* * * * * **
48644022 CCAATGCCATGTTCCAAACATGGTCTTACACTAGCCCTCATATCGTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGG
* * * *
48644070 CCGATGCCATGTCCCAGACGTGGTCTTGCACTGGCACACATAT
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAT
48644113 TAACCAAATG
Statistics
Matches: 189, Mismatches: 40, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
45 5 0.03
46 3 0.02
48 172 0.91
50 4 0.02
51 5 0.03
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGG
Found at i:48644102 original size:96 final size:96
Alignment explanation
Indices: 48643837--48644104 Score: 308
Period size: 96 Copynumber: 2.8 Consensus size: 96
48643827 TTACCGATGT
* * * * *
48643837 CATGTTCCAAACATGGTCTTACACTGGCTCACATGTTGAGGCCGATGCCATGTCCCAGACATGGT
1 CATGTTCCAAACATGGTCTTACACTAGCCCACATATCGTGGCCGATGCCATGTCCCAGACATGGT
* * * *
48643902 CTTACACTAGATCTCATCTCAATGCCTATGC
66 CTTACACTGGCTCTCATCTAAATGCCAATGC
* * * * * * * *
48643933 CATGTCCCAGACTTGGTCTTACACTAGCGCACATATCAAT-GCTGATGCCATGTCCTAGACATTG
1 CATGTTCCAAACATGGTCTTACACTAGCCCACATATC-GTGGCCGATGCCATGTCCCAGACATGG
48643997 TCTTACACTGGCTCTCA-C-AATATCGCCAATGC
65 TCTTACACTGGCTCTCATCTAA-AT-GCCAATGC
* *
48644029 CATGTTCCAAACATGGTCTTACACTAGCCCTCATATCGTGGCCGATGCCATGTCCCAGACGTGGT
1 CATGTTCCAAACATGGTCTTACACTAGCCCACATATCGTGGCCGATGCCATGTCCCAGACATGGT
*
48644094 CTTGCACTGGC
66 CTTACACTGGC
48644105 ACACATATTA
Statistics
Matches: 141, Mismatches: 27, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
94 1 0.01
95 4 0.03
96 136 0.96
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (96 bp):
CATGTTCCAAACATGGTCTTACACTAGCCCACATATCGTGGCCGATGCCATGTCCCAGACATGGT
CTTACACTGGCTCTCATCTAAATGCCAATGC
Found at i:48646069 original size:28 final size:28
Alignment explanation
Indices: 48646029--48646082 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
48646019 TGTTTGGCCG
48646029 AATACAAGATAGCAAGTGCCGAACTCCA
1 AATACAAGATAGCAAGTGCCGAACTCCA
48646057 AATACAAGATAGCAAGTGCCGAACTC
1 AATACAAGATAGCAAGTGCCGAACTC
48646083 TCTTTTGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.43, C:0.24, G:0.19, T:0.15
Consensus pattern (28 bp):
AATACAAGATAGCAAGTGCCGAACTCCA
Found at i:48647739 original size:33 final size:33
Alignment explanation
Indices: 48647691--48647755 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
48647681 TTAGGCCTAC
* *
48647691 ACTGTTTCTGTATAGGGCTAAGGCCCAGACTGA
1 ACTGTTACTGAATAGGGCTAAGGCCCAGACTGA
**
48647724 ACTGTTACTGAATAGGGCTCTGGCCCAGACTG
1 ACTGTTACTGAATAGGGCTAAGGCCCAGACTG
48647756 TTACTGCATG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (33 bp):
ACTGTTACTGAATAGGGCTAAGGCCCAGACTGA
Found at i:48661232 original size:16 final size:17
Alignment explanation
Indices: 48661213--48661253 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
48661203 ACTAAAAGGT
48661213 TAAACATG-TAAAATAA
1 TAAACATGTTAAAATAA
*
48661229 TAAACATGTTAATATAA
1 TAAACATGTTAAAATAA
48661246 TGAAACAT
1 T-AAACAT
48661254 ATAATAAGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.36
17 8 0.36
18 6 0.27
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.29
Consensus pattern (17 bp):
TAAACATGTTAAAATAA
Found at i:48663619 original size:13 final size:13
Alignment explanation
Indices: 48663601--48663625 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48663591 GAATGACCAA
48663601 ATGTTTGGCTATG
1 ATGTTTGGCTATG
48663614 ATGTTTGGCTAT
1 ATGTTTGGCTAT
48663626 CTATGTTCGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.08, G:0.28, T:0.48
Consensus pattern (13 bp):
ATGTTTGGCTATG
Found at i:48671137 original size:25 final size:25
Alignment explanation
Indices: 48671098--48671146 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
48671088 TACAATCTAA
*
48671098 CTATAGTAGTCTCAACATATACTAC
1 CTATAGCAGTCTCAACATATACTAC
* *
48671123 CTATAGCAGTTTCAAGATATACTA
1 CTATAGCAGTCTCAACATATACTA
48671147 TCAAAAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.33
Consensus pattern (25 bp):
CTATAGCAGTCTCAACATATACTAC
Found at i:48681527 original size:53 final size:53
Alignment explanation
Indices: 48681442--48681815 Score: 466
Period size: 53 Copynumber: 6.9 Consensus size: 53
48681432 ACCTTTTCTT
* * *
48681442 TTATGAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCC
1 TTATGAACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCC
* * *
48681495 TTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCC
1 TTATGAACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCC-TTGCC
*
48681548 TTATAGTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCC
1 TTAT-G-AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCC
* * * *
48681603 TTATGAACTCACCAATCCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCC
1 TTATGAACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCC-TTGCC
*
48681656 TTATAGTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCC
1 TTAT-G-AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCC
* * * *
48681711 TTATGGACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCC
1 TTATGAACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCC-TTGCC
* * * *
48681764 TTATAGTAACTCATCAGTGCCATGTCTTCACATGGTCTTACATGATATCCTT
1 TTAT-G-AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTT
48681816 ATCTTACCAA
Statistics
Matches: 276, Mismatches: 33, Indels: 22
0.83 0.10 0.07
Matches are distributed among these distances:
52 6 0.02
53 136 0.49
54 5 0.02
55 123 0.45
56 6 0.02
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (53 bp):
TTATGAACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCC
Found at i:48681646 original size:108 final size:108
Alignment explanation
Indices: 48681457--48681815 Score: 664
Period size: 108 Copynumber: 3.3 Consensus size: 108
48681447 AACTTACCAT
*
48681457 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
1 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
48681522 GCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
66 GCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
*
48681565 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATCCCATGCCTTG
1 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
48681630 GCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
66 GCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
*
48681673 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGGACTCACCAATGCCATGCCTTG
1 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
*
48681738 GCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAG
66 GCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
* *
48681781 TGCCATGTCTTCACATGGTCTTACATGATATCCTT
1 TGCCATGTCTTGACATGGTCTTACATGGTATCCTT
48681816 ATCTTACCAA
Statistics
Matches: 244, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
108 244 1.00
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (108 bp):
TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
GCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
Found at i:48685457 original size:90 final size:90
Alignment explanation
Indices: 48685304--48685483 Score: 333
Period size: 90 Copynumber: 2.0 Consensus size: 90
48685294 AAGTAAGCTT
*
48685304 TAAGCCATATACAAATAAAGTCATCACATGAACATTTACATATCAATCCAAGTATGCTTAACAAT
1 TAAGCCATATACAAATAAAGTCATCACATGAACATTTACATATCAATCCAAGTATGCTTAACAAG
*
48685369 GTTAATCTCATTCAAATTCACAAAG
66 GCTAATCTCATTCAAATTCACAAAG
*
48685394 TAAGCCATATACAAATAAAGTCATCACATGAACATTTACATATCATTCCAAGTATGCTTAACAAG
1 TAAGCCATATACAAATAAAGTCATCACATGAACATTTACATATCAATCCAAGTATGCTTAACAAG
48685459 GCTAATCTCATTCAAATTCACAAAG
66 GCTAATCTCATTCAAATTCACAAAG
48685484 CTTTCTCATT
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
90 87 1.00
ACGTcount: A:0.43, C:0.21, G:0.08, T:0.28
Consensus pattern (90 bp):
TAAGCCATATACAAATAAAGTCATCACATGAACATTTACATATCAATCCAAGTATGCTTAACAAG
GCTAATCTCATTCAAATTCACAAAG
Found at i:48686260 original size:43 final size:43
Alignment explanation
Indices: 48686170--48686283 Score: 115
Period size: 43 Copynumber: 2.7 Consensus size: 43
48686160 TCACATATCG
* * * * * * *
48686170 ATGCCACTATCCCAAACATGGTCTTACACGAAATCGATTAACG
1 ATGCCAATGTCCCAGACATGGTCTTACACAAAATCCAATAACA
48686213 ATGCCAATG-CCCTAGACATGGTCTTACACAAAATCTCAAT-ACA
1 ATGCCAATGTCCC-AGACATGGTCTTACACAAAATC-CAATAACA
* *
48686256 ATGCCAATGTCCCAGGCATGGTATTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
48686284 TGTAATCACA
Statistics
Matches: 59, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
42 3 0.05
43 51 0.86
44 5 0.08
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACAAAATCCAATAACA
Found at i:48686352 original size:456 final size:456
Alignment explanation
Indices: 48685499--48686408 Score: 1660
Period size: 456 Copynumber: 2.0 Consensus size: 456
48685489 TCATTGAACA
*
48685499 TATATTCAATGTCTTAATCAAGTTCATCAAATATTTTCCCTTTTCAATACTCGAATAAATCTTGT
1 TATATTCAATGTCGTAATCAAGTTCATCAAATATTTTCCCTTTTCAATACTCGAATAAATCTTGT
* * *
48685564 ACGTACCTAAGTCACTTAGTTCATTCACATATTCTTTCTCAACTTAACATTTCCCGTTGAATCGT
66 ACGTACCTAAGTCACTTAGTTCATTCACATATTCTTTCTCAACTTAACATTTCCCATTGAACCAT
48685629 TCGAAATCATTAAGCATACTCGAAAATCACATAAGCTCATACAATGCCATATCCCAGATATGGTC
131 TCGAAATCATTAAGCATACTCGAAAATCACATAAGCTCATACAATGCCATATCCCAGATATGGTC
*
48685694 TTACATGTTATCACATATCGATGCCACTATCCCAAACAGGGTTTTACACGAAATCGATTAACGAT
196 TTACATGTTATCACATATCGATGCCACTATCCCAAACAGGGTCTTACACGAAATCGATTAACGAT
48685759 GCCAATGCCTCAGACATGGTCTTACACAAAATCTCAATACAATGCCAATGTCCCAGGCATGGTAT
261 GCCAATGCCTCAGACATGGTCTTACACAAAATCTCAATACAATGCCAATGTCCCAGGCATGGTAT
48685824 TACATGTAATCACATCTCGATAACCTAATGTCATGACATTCATATCCTATACTATTCCTATGGTT
326 TACATGTAATCACATCTCGATAACCTAATGTCATGACATTCATATCCTATACTATTCCTATGGTT
48685889 CGTACAGGGACTTTCAGATGTTGTAGATTCATCGATTCATACTCATAATTGCTCGTTCGACATTC
391 CGTACAGGGACTTTCAGATGTTGTAGATTCATCGATTCATACTCATAATTGCTCGTTCGACATTC
48685954 G
456 G
48685955 TATATTCAATGTCGTAATCAAGTTCATCAAATATTTTCCCTTTTCAATACTCGAATAAATCTTGT
1 TATATTCAATGTCGTAATCAAGTTCATCAAATATTTTCCCTTTTCAATACTCGAATAAATCTTGT
* *
48686020 ACGTACCTAAGTCACTTAGTTCATTCACATATTCTTTCTCGACTTAACATTTCCCATTGAGCCAT
66 ACGTACCTAAGTCACTTAGTTCATTCACATATTCTTTCTCAACTTAACATTTCCCATTGAACCAT
* * * *
48686085 TTGGAATCATTAAGGATACTCGAAAATCACATAAGCTCGTACAATGCCATATCCCAGATATGGTC
131 TCGAAATCATTAAGCATACTCGAAAATCACATAAGCTCATACAATGCCATATCCCAGATATGGTC
*
48686150 TTACATGTTATCACATATCGATGCCACTATCCCAAACATGGTCTTACACGAAATCGATTAACGAT
196 TTACATGTTATCACATATCGATGCCACTATCCCAAACAGGGTCTTACACGAAATCGATTAACGAT
48686215 GCCAATGCC-CTAGACATGGTCTTACACAAAATCTCAATACAATGCCAATGTCCCAGGCATGGTA
261 GCCAATGCCTC-AGACATGGTCTTACACAAAATCTCAATACAATGCCAATGTCCCAGGCATGGTA
*
48686279 TTACATGTAATCACATCTCGATAACCTAATGTCATGACATTCGTATCCTATACTATTCCTATGGT
325 TTACATGTAATCACATCTCGATAACCTAATGTCATGACATTCATATCCTATACTATTCCTATGGT
* * *
48686344 TCGTACAGGGACTTTCGGATGTTGTAGCTTCGTCGATTCATACTCATAATTGCTCGTTCGACATT
390 TCGTACAGGGACTTTCAGATGTTGTAGATTCATCGATTCATACTCATAATTGCTCGTTCGACATT
48686409 TGTAGAAATT
Statistics
Matches: 437, Mismatches: 16, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
455 1 0.00
456 436 1.00
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.33
Consensus pattern (456 bp):
TATATTCAATGTCGTAATCAAGTTCATCAAATATTTTCCCTTTTCAATACTCGAATAAATCTTGT
ACGTACCTAAGTCACTTAGTTCATTCACATATTCTTTCTCAACTTAACATTTCCCATTGAACCAT
TCGAAATCATTAAGCATACTCGAAAATCACATAAGCTCATACAATGCCATATCCCAGATATGGTC
TTACATGTTATCACATATCGATGCCACTATCCCAAACAGGGTCTTACACGAAATCGATTAACGAT
GCCAATGCCTCAGACATGGTCTTACACAAAATCTCAATACAATGCCAATGTCCCAGGCATGGTAT
TACATGTAATCACATCTCGATAACCTAATGTCATGACATTCATATCCTATACTATTCCTATGGTT
CGTACAGGGACTTTCAGATGTTGTAGATTCATCGATTCATACTCATAATTGCTCGTTCGACATTC
G
Found at i:48695521 original size:8 final size:8
Alignment explanation
Indices: 48695508--48695534 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
48695498 TCTATACCAG
48695508 TTTTAGAA
1 TTTTAGAA
48695516 TTTTAGAA
1 TTTTAGAA
48695524 TTTTAGAA
1 TTTTAGAA
48695532 TTT
1 TTT
48695535 GAACTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (8 bp):
TTTTAGAA
Found at i:48699555 original size:34 final size:34
Alignment explanation
Indices: 48699481--48699556 Score: 116
Period size: 34 Copynumber: 2.2 Consensus size: 34
48699471 GTGACAATCT
*
48699481 AGTATCAGTGTGAGCCTTAGCCCATTACAATACC
1 AGTATCAGTGTGAGCCTTAGCCCATTACAATAAC
* *
48699515 AGTATCAGTGTGGGCCTTAGCCCATTACAGTAAC
1 AGTATCAGTGTGAGCCTTAGCCCATTACAATAAC
*
48699549 ATTATCAG
1 AGTATCAG
48699557 AAATGCATAC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.28
Consensus pattern (34 bp):
AGTATCAGTGTGAGCCTTAGCCCATTACAATAAC
Found at i:48702526 original size:22 final size:22
Alignment explanation
Indices: 48702501--48702557 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
48702491 TGCAGGCCTC
48702501 ACACGTCCGTGTGGTCCAAGAG
1 ACACGTCCGTGTGGTCCAAGAG
* *
48702523 ACACGTCGGTGTGGTCCAAGGG
1 ACACGTCCGTGTGGTCCAAGAG
*
48702545 ACACGCCCGTGTG
1 ACACGTCCGTGTG
48702558 ACCCTAGGAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.19, C:0.28, G:0.35, T:0.18
Consensus pattern (22 bp):
ACACGTCCGTGTGGTCCAAGAG
Found at i:48705183 original size:44 final size:44
Alignment explanation
Indices: 48705129--48705212 Score: 114
Period size: 44 Copynumber: 1.9 Consensus size: 44
48705119 GTTAATTATG
*
48705129 GCACTTAGTGTGCGAAACCAAGATAGCTTCGGATATATATATTT
1 GCACTAAGTGTGCGAAACCAAGATAGCTTCGGATATATATATTT
* *** *
48705173 GCACTAAGTGTGCGAGATTGAGATAGCTTCGGCTATATAT
1 GCACTAAGTGTGCGAAACCAAGATAGCTTCGGATATATAT
48705213 TTATATGCTC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 34 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (44 bp):
GCACTAAGTGTGCGAAACCAAGATAGCTTCGGATATATATATTT
Found at i:48705248 original size:45 final size:46
Alignment explanation
Indices: 48705149--48705259 Score: 138
Period size: 45 Copynumber: 2.5 Consensus size: 46
48705139 TGCGAAACCA
* * *
48705149 AGATAGCTTCGG--ATATATATATTTGCACTAAGTGTGCGAGATTG
1 AGATAGCTTCGGCTATATATTTATATGCACTAAGTATGCGAGATTG
* *
48705193 AGATAGCTTCGGCTATATATTTATATGCTCTTAGTATG-GAGATTG
1 AGATAGCTTCGGCTATATATTTATATGCACTAAGTATGCGAGATTG
* *
48705238 ATATAGCTTCGGCTATTTATTT
1 AGATAGCTTCGGCTATATATTT
48705260 GGCACTAAGT
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
44 12 0.21
45 27 0.47
46 19 0.33
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.40
Consensus pattern (46 bp):
AGATAGCTTCGGCTATATATTTATATGCACTAAGTATGCGAGATTG
Found at i:48706227 original size:51 final size:52
Alignment explanation
Indices: 48706146--48706325 Score: 281
Period size: 51 Copynumber: 3.4 Consensus size: 52
48706136 GATGATGAAA
*
48706146 AAAGGAAAAGAAAGAAAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAG
1 AAAGAAAAAG-AAGAAAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAG
48706199 AAAGAAAAAGAAG-AAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAG
1 AAAGAAAAAGAAGAAAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAG
48706250 AAAGAAAAAGAAGAAAAAAAAAGAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAG
1 AAAGAAAAAGAAG----AAAAA-AAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAG
*
48706307 AAAGAAAAAGAAGGAAAAA
1 AAAGAAAAAGAAGAAAAAA
48706326 GAGCTTTGAG
Statistics
Matches: 119, Mismatches: 2, Indels: 13
0.89 0.01 0.10
Matches are distributed among these distances:
51 51 0.43
52 4 0.03
53 13 0.11
56 4 0.03
57 47 0.39
ACGTcount: A:0.52, C:0.10, G:0.22, T:0.17
Consensus pattern (52 bp):
AAAGAAAAAGAAGAAAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAG
Found at i:48706263 original size:13 final size:13
Alignment explanation
Indices: 48706245--48706274 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
48706235 TTGGCCGAAT
*
48706245 AGAAGAAAGAAAA
1 AGAAGAAAAAAAA
48706258 AGAAGAAAAAAAA
1 AGAAGAAAAAAAA
48706271 AGAA
1 AGAA
48706275 AAGCTCTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
AGAAGAAAAAAAA
Found at i:48706283 original size:57 final size:56
Alignment explanation
Indices: 48706194--48706325 Score: 212
Period size: 57 Copynumber: 2.3 Consensus size: 56
48706184 TTGGCCGAAT
48706194 AGAAGAAAGAA-AAAGAAGAAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAGAA
1 AGAA-AAAGAAGAAA-AA-AAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAGAA
48706252 AGAAAAAGAAGAAAAAAAAAGAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAGAA
1 AGAAAAAGAAGAAAAAAAAA-AAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAGAA
*
48706309 AGAAAAAGAAGGAAAAA
1 AGAAAAAGAAGAAAAAA
48706326 GAGCTTTGAG
Statistics
Matches: 71, Mismatches: 1, Indels: 5
0.92 0.01 0.06
Matches are distributed among these distances:
56 4 0.06
57 60 0.85
58 7 0.10
ACGTcount: A:0.54, C:0.09, G:0.22, T:0.15
Consensus pattern (56 bp):
AGAAAAAGAAGAAAAAAAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAGAA
Found at i:48707627 original size:40 final size:40
Alignment explanation
Indices: 48707572--48707824 Score: 316
Period size: 40 Copynumber: 6.4 Consensus size: 40
48707562 TGATAACCGA
* * * *
48707572 GCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-TCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTATTA-TATCCGG
*
48707612 GCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATATCCGG
* * *
48707652 GCTAAGTCCCGAAGGCATTTGTGCAAGCTACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATATCCGG
* *
48707692 GCTAAGTCCCGAAGGCATTGGTGTGAGTTATTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATATCCGG
*
48707732 GCTAAGTCCCGAAGGCATTGGTGCGAGTTATTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATATCCGG
* * *
48707772 GCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATATCC-G
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTA-TTATATCCGG
* *
48707810 GTTAAATCCCGAAGG
1 GCTAAGTCCCGAAGG
48707825 TACTTGGCTT
Statistics
Matches: 189, Mismatches: 22, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
38 15 0.08
39 14 0.07
40 160 0.85
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
GCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATATCCGG
Found at i:48710274 original size:25 final size:25
Alignment explanation
Indices: 48710211--48710278 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
48710201 AATAAACACA
*
48710211 AGAT-TCTCTGGAAAGCCTTTGTGG
1 AGATCTCTCTGGAAAGCCTTTGTAG
* * *
48710235 TGATCTATCTTGAAAGCCTTTGTAG
1 AGATCTCTCTGGAAAGCCTTTGTAG
48710260 AGAATC-CTCTGGAAAGCCT
1 AG-ATCTCTCTGGAAAGCCT
48710279 ATGTGGCTAC
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
24 3 0.09
25 29 0.83
26 3 0.09
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (25 bp):
AGATCTCTCTGGAAAGCCTTTGTAG
Found at i:48714264 original size:29 final size:28
Alignment explanation
Indices: 48714228--48714305 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
48714218 TCATGAGATT
48714228 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
48714258 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
48714285 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
48714306 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:48714579 original size:173 final size:174
Alignment explanation
Indices: 48714258--48714584 Score: 566
Period size: 173 Copynumber: 1.9 Consensus size: 174
48714248 AAATTGTACA
* *
48714258 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* *
48714323 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
48714388 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * * *
48714432 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTACTAAACATTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
*
48714497 TGTGC-AACCCAGTATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
48714561 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
48714585 ACCTTGAGTT
Statistics
Matches: 144, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
173 80 0.56
174 64 0.44
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:48722378 original size:29 final size:28
Alignment explanation
Indices: 48722342--48722419 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
48722332 TCATGAGATT
48722342 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
48722372 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
48722399 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
48722420 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:48725980 original size:16 final size:16
Alignment explanation
Indices: 48725961--48726012 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
48725951 GATGTGATGA
48725961 ATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATAT
*
48725977 ATGTG-ATGTG-ATGA-
1 ATGTGAAAGTGTAT-AT
48725991 ATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATAT
48726007 ATGTGA
1 ATGTGA
48726013 TAAGGCCTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
14 7 0.23
15 10 0.33
16 13 0.43
ACGTcount: A:0.35, C:0.00, G:0.29, T:0.37
Consensus pattern (16 bp):
ATGTGAAAGTGTATAT
Found at i:48725986 original size:30 final size:30
Alignment explanation
Indices: 48725951--48726013 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
48725941 CCTAATGGCC
48725951 GATGTGATGAATGTGAAAGTGTATATATGT
1 GATGTGATGAATGTGAAAGTGTATATATGT
48725981 GATGTGATGAATGTGAAAGTGTATATATGT
1 GATGTGATGAATGTGAAAGTGTATATATGT
48726011 GAT
1 GAT
48726014 AAGGCCTAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.30, T:0.37
Consensus pattern (30 bp):
GATGTGATGAATGTGAAAGTGTATATATGT
Found at i:48726008 original size:77 final size:83
Alignment explanation
Indices: 48725914--48726443 Score: 442
Period size: 94 Copynumber: 5.9 Consensus size: 83
48725904 GATAATTGTG
* *
48725914 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
48725979 GTGAT-G-T-G-ATG--A
66 GTGATAGATGGCATGTAA
*
48725991 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
48726056 GTGATAAGGCCTAATGGCCAATGTGATGA
66 GTGAT-A-G----ATGG-C-ATGT-A--A
* *
48726085 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
48726150 GTGATAAGGCCGAATGGCCGATGTGATGA
66 GTGAT-A----G-ATGG-C-ATGT-A--A
48726179 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
48726244 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
62 ATATGTGAT-A-G----ATGG-C-ATGT-A--A
48726277 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
48726342 ATGTGATAAGGCCTAATAGCCGATGTGATGA
64 ATGTGAT-A-G----AT-GGC-ATGT-A--A
* * * * * * * *
48726373 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
48726438 GTGATA
66 GTGATA
48726444 AGTCCCGAAG
Statistics
Matches: 405, Mismatches: 20, Indels: 40
0.87 0.04 0.09
Matches are distributed among these distances:
77 67 0.17
80 1 0.00
85 1 0.00
86 1 0.00
89 3 0.01
93 1 0.00
94 148 0.37
95 1 0.00
96 89 0.22
97 2 0.00
98 91 0.22
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (83 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAGATGGCATGTAA
Found at i:48726215 original size:49 final size:47
Alignment explanation
Indices: 48725981--48726445 Score: 750
Period size: 47 Copynumber: 9.8 Consensus size: 47
48725971 GTATATATGT
*
48725981 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
48726028 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
* *
48726075 AATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
* *
48726122 AATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
48726169 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCC
48726218 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCC
48726267 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCC
*
48726316 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
* * * *
48726363 GATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
* * * *
48726410 AACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAG
48726446 TCCCGAAGGG
Statistics
Matches: 399, Mismatches: 17, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 255 0.64
49 144 0.36
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
Found at i:48729399 original size:164 final size:164
Alignment explanation
Indices: 48729201--48729528 Score: 502
Period size: 164 Copynumber: 2.0 Consensus size: 164
48729191 TTTTTGAATA
*
48729201 TTTTCCCCTATTTACTTTCCGCTCAAAATTTTATTCCCCCAACCCTCAAAACTTTTTATTTCCCC
1 TTTTCCCCTATTTACTTTCCGCTCAAAATTTTATTCCCCCAACCCTCAAAACTTATTATTTCCCC
48729266 CCTAAACTTTTACTTTTCACCCTTTACCCCAAATAAAAAACCATCCAAAAAAAATCCCTAAACAT
66 CCTAAACTTTTACTTTTCACCCTTTACCCCAAATAAAAAACCAT-CAAAAAAAATCCCTAAACAT
*
48729331 AAACT-GTAATAAATTTATTTATATCTACTATTTAT
130 AAA-TAGTAATAAATTTATTTAGATCTACTATTTAT
* * *
48729366 TTTTCCCC-ATTTACTTTCTC-C-CAAAAATTTTATTCTCCCAACCTTCAAAACTTATTATTTTC
1 TTTTCCCCTATTTACTTTC-CGCTC-AAAATTTTATTCCCCCAACCCTCAAAACTTATTATTTCC
** * *
48729428 CCCCTAAACTTTTACTTTTCACCCTTTACCCCAAATAAAAAGTCATCTAAAAAAATCCCTAAATA
64 CCCCTAAACTTTTACTTTTCACCCTTTACCCCAAATAAAAAACCATCAAAAAAAATCCCTAAACA
*
48729493 TAAATAGTAATAATTTTATTTAGATCTACTATTTAT
129 TAAATAGTAATAAATTTATTTAGATCTACTATTTAT
48729529 ATTATTAAAT
Statistics
Matches: 150, Mismatches: 10, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
162 1 0.01
163 50 0.33
164 90 0.60
165 9 0.06
ACGTcount: A:0.34, C:0.26, G:0.02, T:0.38
Consensus pattern (164 bp):
TTTTCCCCTATTTACTTTCCGCTCAAAATTTTATTCCCCCAACCCTCAAAACTTATTATTTCCCC
CCTAAACTTTTACTTTTCACCCTTTACCCCAAATAAAAAACCATCAAAAAAAATCCCTAAACATA
AATAGTAATAAATTTATTTAGATCTACTATTTAT
Found at i:48729438 original size:20 final size:20
Alignment explanation
Indices: 48729413--48729452 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
48729403 CCAACCTTCA
*
48729413 AAACTTATTA-TTTTCCCCCT
1 AAACTT-TTACTTTTCACCCT
48729433 AAACTTTTACTTTTCACCCT
1 AAACTTTTACTTTTCACCCT
48729453 TTACCCCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.25, C:0.30, G:0.00, T:0.45
Consensus pattern (20 bp):
AAACTTTTACTTTTCACCCT
Found at i:48729850 original size:19 final size:19
Alignment explanation
Indices: 48729826--48729863 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
48729816 AAGTTAATAA
*
48729826 CAAATTTGATTACGGTGGG
1 CAAATTTAATTACGGTGGG
48729845 CAAATTTAATTACGGTGGG
1 CAAATTTAATTACGGTGGG
48729864 TGACATTGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.11, G:0.29, T:0.32
Consensus pattern (19 bp):
CAAATTTAATTACGGTGGG
Found at i:48735283 original size:40 final size:40
Alignment explanation
Indices: 48735232--48735455 Score: 297
Period size: 40 Copynumber: 5.6 Consensus size: 40
48735222 GCTACTCGCT
* *
48735232 CAATGCCTTCGGGACATAGCCTGGATATAATAACTCGCAC
1 CAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCAC
48735272 CAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCAC
1 CAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCAC
* * *
48735312 CAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTAGCAC
1 CAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCAC
* * *
48735352 AAATGCCTTCGGGACTTAGCCCGGATGTAATAACTCACAC
1 CAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCAC
* * * * **
48735392 AAATGCCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGTGC
1 CAATGCCTTCGGGACTTAGCCCGGATA-TAATAACTCGCAC
*
48735432 AAATGCCTTCGGGACTTAGCCCGG
1 CAATGCCTTCGGGACTTAGCCCGG
48735456 TTATCATCCG
Statistics
Matches: 165, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
40 165 1.00
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.22
Consensus pattern (40 bp):
CAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCAC
Found at i:48735446 original size:120 final size:120
Alignment explanation
Indices: 48735233--48735455 Score: 331
Period size: 120 Copynumber: 1.9 Consensus size: 120
48735223 CTACTCGCTC
* * *
48735233 AATGCCTTCGGGACATAGCCTGGATATAATAACTCGCACCAATGCCTTCGGGACTTAGCCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAATAACTCACACAAATGCCTTCGGGACTTAGCCCGGAT
* *
48735298 ATAATAACTCGCACCAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTAGCACA
66 ATAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTAGCACA
* *
48735353 AATGCCTTCGGGACTTAGCCCGGATGTAATAACTCACACAAATGCCTTCGGGACTTAGCCCGGA-
1 AATGCCTTCGGGACATAGCCCGGATATAATAACTCACACAAATGCCTTCGGGACTTAGCCCGGAT
* * **
48735417 ACTAGTCACTAGTGCAAATGCCTTCGGGACTTAGCCCGG
66 A-TAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
48735456 TTATCATCCG
Statistics
Matches: 91, Mismatches: 11, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
119 1 0.01
120 90 0.99
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.22
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAATAACTCACACAAATGCCTTCGGGACTTAGCCCGGAT
ATAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTAGCACA
Found at i:48736780 original size:56 final size:55
Alignment explanation
Indices: 48736698--48736817 Score: 213
Period size: 56 Copynumber: 2.2 Consensus size: 55
48736688 CTCAAAGCTC
*
48736698 TTTTTCCTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTTTCTT
1 TTTTTTCTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTTT-TT
48736754 TTTTTTCTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTTTTT
1 TTTTTTCTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTTTTT
*
48736809 TTCTTTCTT
1 TTTTTTCTT
48736818 TTCCTTTTTT
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
55 10 0.16
56 52 0.84
ACGTcount: A:0.17, C:0.22, G:0.10, T:0.52
Consensus pattern (55 bp):
TTTTTTCTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTTTTT
Found at i:48743406 original size:40 final size:40
Alignment explanation
Indices: 48743328--48743489 Score: 233
Period size: 40 Copynumber: 4.1 Consensus size: 40
48743318 CAGGATTTAA
* *
48743328 CCGGATATAGCT-ACTCGCTC-AAT-CCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
48743366 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
48743406 CTGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
48743446 CCGGA-ACTAGTCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
48743486 CCGG
1 CCGG
48743490 TTATCATCCA
Statistics
Matches: 114, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
37 1 0.01
38 17 0.15
39 4 0.04
40 92 0.81
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:48771281 original size:27 final size:26
Alignment explanation
Indices: 48771224--48771334 Score: 141
Period size: 27 Copynumber: 4.2 Consensus size: 26
48771214 AGTATGGCTT
** *
48771224 CCAGAACAGATAATGTGATAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
48771250 CCAGAACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATAAT-GTGGCAGAGCCA
*
48771277 CCAGAATAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
48771304 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
48771331 CCAG
1 CCAG
48771335 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 15 0.20
27 58 0.77
28 2 0.03
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:48773788 original size:12 final size:12
Alignment explanation
Indices: 48773761--48773801 Score: 64
Period size: 12 Copynumber: 3.3 Consensus size: 12
48773751 CAAATAGATA
*
48773761 ATTTCTCATTTTC
1 ATTTCT-ATTTCC
48773774 ATTTCTATTTCC
1 ATTTCTATTTCC
48773786 ATTTCTATTTCC
1 ATTTCTATTTCC
48773798 ATTT
1 ATTT
48773802 TGAGAAAACC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
12 21 0.78
13 6 0.22
ACGTcount: A:0.17, C:0.22, G:0.00, T:0.61
Consensus pattern (12 bp):
ATTTCTATTTCC
Found at i:48773795 original size:18 final size:19
Alignment explanation
Indices: 48773761--48773801 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
48773751 CAAATAGATA
*
48773761 ATTTCTCATTTTCATTTCT
1 ATTTCTCATTTTCATTTCC
48773780 ATTTC-CA-TTTCTATTTCC
1 ATTTCTCATTTTC-ATTTCC
48773798 ATTT
1 ATTT
48773802 TGAGAAAACC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 4 0.20
18 11 0.55
19 5 0.25
ACGTcount: A:0.17, C:0.22, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTCTCATTTTCATTTCC
Found at i:48781236 original size:43 final size:43
Alignment explanation
Indices: 48781175--48781330 Score: 240
Period size: 43 Copynumber: 3.6 Consensus size: 43
48781165 TTATTTCAAA
* *
48781175 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTTAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTCAC
* *
48781218 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCGC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTCAC
*
48781261 AAACGCCGCTAAAGACCATGACCTTTAGCGACGCTTTTCTCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTCAC
* * *
48781304 AAACGCCGCTAAATATCATGAACTTTA
1 AAACGCCGCTAAAGACCATGACCTTTA
48781331 AAAAAATTAT
Statistics
Matches: 103, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 103 1.00
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTCAC
Found at i:48784476 original size:23 final size:23
Alignment explanation
Indices: 48784449--48784494 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
48784439 TTTTTAAATG
48784449 CCACCTAATCCGATTTAACAGAT
1 CCACCTAATCCGATTTAACAGAT
48784472 CCACCTAATCCGATTTAACAGAT
1 CCACCTAATCCGATTTAACAGAT
48784495 GTTCTCTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.30, G:0.09, T:0.26
Consensus pattern (23 bp):
CCACCTAATCCGATTTAACAGAT
Found at i:48786678 original size:23 final size:23
Alignment explanation
Indices: 48786625--48786691 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
48786615 CCTTAAATCA
*
48786625 TAAAACATAAACCCTTAACCC--C
1 TAAAACTTAAACCC-TAACCCTTC
* *
48786647 TAAACCTTAAACCCCAACCCTTC
1 TAAAACTTAAACCCTAACCCTTC
48786670 TAAAACTTAAACCCTAACCCTT
1 TAAAACTTAAACCCTAACCCTT
48786692 AACCCATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
21 5 0.13
22 12 0.32
23 21 0.55
ACGTcount: A:0.40, C:0.37, G:0.00, T:0.22
Consensus pattern (23 bp):
TAAAACTTAAACCCTAACCCTTC
Found at i:48787206 original size:41 final size:41
Alignment explanation
Indices: 48787161--48787349 Score: 254
Period size: 41 Copynumber: 4.6 Consensus size: 41
48787151 TTAATTTTTT
* *
48787161 GCGGCATTTTCCCAAAAGCGCCGCTAAAACCTCGATCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGATCTATA
*
48787202 GCGGCGTTTTCCCAAAAGCGCCGCTAAAACCTCGATCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGATCTATA
* * * * *
48787243 GTGGCGTTTTTCCAAAAGCGCTGCTAAAAACT-GAGCAATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGATCTATA
* * * *
48787283 GCGGCGTTTTTCAAAAAGTGCCGCTAAAAGCTCGACCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGATCTATA
*
48787324 GCGGCGTTTTTTCAAAAGCGCCGCTA
1 GCGGCGTTTTTCCAAAAGCGCCGCTA
48787350 TTGTTCAGTT
Statistics
Matches: 130, Mismatches: 17, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
40 33 0.25
41 97 0.75
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (41 bp):
GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGATCTATA
Found at i:48787306 original size:81 final size:82
Alignment explanation
Indices: 48787161--48787349 Score: 254
Period size: 81 Copynumber: 2.3 Consensus size: 82
48787151 TTAATTTTTT
* * * * * *
48787161 GCGGCATTTTCCCAAAAGCGCCGCTAAAACCTCGATCTATAGCGGCGTTTTCCCAAAAGCGCCGC
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAAACTCGAGCAATAGCGGCGTTTTCCAAAAAGCGCCGC
*
48787226 TAAAACCTCGATCTATA
66 TAAAACCTCGACCTATA
* * * *
48787243 GTGGCGTTTTTCCAAAAGCGCTGCTAAAAACT-GAGCAATAGCGGCGTTTTTCAAAAAGTGCCGC
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAAACTCGAGCAATAGCGGCGTTTTCCAAAAAGCGCCGC
*
48787307 TAAAAGCTCGACCTATA
66 TAAAACCTCGACCTATA
*
48787324 GCGGCGTTTTTTCAAAAGCGCCGCTA
1 GCGGCGTTTTTCCAAAAGCGCCGCTA
48787350 TTGTTCAGTT
Statistics
Matches: 92, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
81 65 0.71
82 27 0.29
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (82 bp):
GCGGCGTTTTTCCAAAAGCGCCGCTAAAAACTCGAGCAATAGCGGCGTTTTCCAAAAAGCGCCGC
TAAAACCTCGACCTATA
Found at i:48787433 original size:41 final size:40
Alignment explanation
Indices: 48787322--48787444 Score: 133
Period size: 41 Copynumber: 3.0 Consensus size: 40
48787312 GCTCGACCTA
* **
48787322 TAGCGGCGTTTTTTCAAAAGCGCCGCTATTGTTCAGTTTT
1 TAGCGGCGTTTTATCAAAAGCGCCGCTATTACTCAGTTTT
* *
48787362 TAGCGGCGTTTTTACTGAAAA-CGCCACTATTACTCTA-TTTT
1 TAGCGGCG-TTTTA-TCAAAAGCGCCGCTATTACTC-AGTTTT
* *
48787403 TAGCGGCGTTTGGATCAAAAGCGCCGCTATTGCTCAGTTTT
1 TAGCGGCGTTT-TATCAAAAGCGCCGCTATTACTCAGTTTT
48787444 T
1 T
48787445 TGCAGCATTT
Statistics
Matches: 68, Mismatches: 9, Indels: 11
0.77 0.10 0.12
Matches are distributed among these distances:
40 17 0.25
41 45 0.66
42 6 0.09
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.37
Consensus pattern (40 bp):
TAGCGGCGTTTTATCAAAAGCGCCGCTATTACTCAGTTTT
Found at i:48800469 original size:15 final size:15
Alignment explanation
Indices: 48800449--48800480 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
48800439 CGACCCAAAG
48800449 AATCTTACCCTACCA
1 AATCTTACCCTACCA
48800464 AATCTTACCCTACCA
1 AATCTTACCCTACCA
48800479 AA
1 AA
48800481 ATCGACCCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (15 bp):
AATCTTACCCTACCA
Found at i:48811666 original size:24 final size:24
Alignment explanation
Indices: 48811639--48811692 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
48811629 TGGAAGGTAT
*
48811639 GTATATATGTGTTTATGTGTATAA
1 GTATATATGTGTTCATGTGTATAA
* *
48811663 GTATGTATGTGTTCATGTGTATAT
1 GTATATATGTGTTCATGTGTATAA
48811687 GTATAT
1 GTATAT
48811693 GAAGGTGTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.26, C:0.02, G:0.22, T:0.50
Consensus pattern (24 bp):
GTATATATGTGTTCATGTGTATAA
Found at i:48815757 original size:28 final size:28
Alignment explanation
Indices: 48815726--48815826 Score: 96
Period size: 28 Copynumber: 3.4 Consensus size: 28
48815716 AAAGAAAATC
48815726 CTTTGTGGCAAACTTGCTAAAGGACAAT
1 CTTTGTGGCAAACTTGCTAAAGGACAAT
* * *
48815754 CTTTGTGGCAAAATT-CTATAAGAAAAGAAAAGC
1 CTTTGTGGCAAACTTGCTA-AAG----GACAA-T
*
48815787 CTTTGTGGCGAACTTGCTAAAGGACAAT
1 CTTTGTGGCAAACTTGCTAAAGGACAAT
*
48815815 CTGTGTGGCAAA
1 CTTTGTGGCAAA
48815827 ACTCTAGAAA
Statistics
Matches: 57, Mismatches: 9, Indels: 14
0.71 0.11 0.17
Matches are distributed among these distances:
27 3 0.05
28 27 0.47
29 4 0.07
32 4 0.07
33 16 0.28
34 3 0.05
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.27
Consensus pattern (28 bp):
CTTTGTGGCAAACTTGCTAAAGGACAAT
Found at i:48815807 original size:61 final size:61
Alignment explanation
Indices: 48815714--48815832 Score: 202
Period size: 61 Copynumber: 2.0 Consensus size: 61
48815704 AAATCACTAG
* * *
48815714 GAAAAGAAAATCCTTTGTGGCAAACTTGCTAAAGGACAATCTTTGTGGCAAAATTCTATAA
1 GAAAAGAAAAGCCTTTGTGGCAAACTTGCTAAAGGACAATCTGTGTGGCAAAACTCTATAA
*
48815775 GAAAAGAAAAGCCTTTGTGGCGAACTTGCTAAAGGACAATCTGTGTGGCAAAACTCTA
1 GAAAAGAAAAGCCTTTGTGGCAAACTTGCTAAAGGACAATCTGTGTGGCAAAACTCTA
48815833 GAAAGGTAAG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 54 1.00
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (61 bp):
GAAAAGAAAAGCCTTTGTGGCAAACTTGCTAAAGGACAATCTGTGTGGCAAAACTCTATAA
Found at i:48815893 original size:58 final size:57
Alignment explanation
Indices: 48815725--48815916 Score: 179
Period size: 61 Copynumber: 3.3 Consensus size: 57
48815715 AAAAGAAAAT
* * * * * **
48815725 CCTTTGTGGCAAACTTGCTAAAGGACAATCTTTGTGGCAAAATTCTATAAGAAAAGAAAAG
1 CCTTTGTGGCGAACCTGCTAAAGGAAAATCTGTGTGGCAAAA--CAAT-AG-AAAGGTAAG
* * **
48815786 CCTTTGTGGCGAACTTGCTAAAGGACAATCTGTGTGGCAAAACTCTAGAAAGGTAAG
1 CCTTTGTGGCGAACCTGCTAAAGGAAAATCTGTGTGGCAAAACAATAGAAAGGTAAG
* * *
48815843 CCTTTGTTGTGAACCTGCTAAAGGAAAA-CGTTTTGTGGCAAAACAATAGAAAGGTAAG
1 CCTTTGTGGCGAACCTGCTAAAGGAAAATC--TGTGTGGCAAAACAATAGAAAGGTAAG
* *
48815901 ACTTTATGGCGAACCT
1 CCTTTGTGGCGAACCT
48815917 CTCAAAGAAT
Statistics
Matches: 113, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
56 1 0.01
57 31 0.27
58 38 0.34
59 3 0.03
61 40 0.35
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (57 bp):
CCTTTGTGGCGAACCTGCTAAAGGAAAATCTGTGTGGCAAAACAATAGAAAGGTAAG
Done.