Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold387
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: 397658
ACGTcount: A:0.23, C:0.12, G:0.13, T:0.23
Warning! 113954 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:2321 original size:15 final size:15
Alignment explanation
Indices: 2301--2330 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
2291 TTTGTAATCA
2301 GATTTCATGTTTATG
1 GATTTCATGTTTATG
2316 GATTTCATGTTTATG
1 GATTTCATGTTTATG
2331 TTTTGCACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.07, G:0.20, T:0.53
Consensus pattern (15 bp):
GATTTCATGTTTATG
Found at i:8570 original size:41 final size:40
Alignment explanation
Indices: 8494--8571 Score: 93
Period size: 41 Copynumber: 1.9 Consensus size: 40
8484 AAACCTAGAA
* * * *
8494 TGTATCGATACAATGAGAAATGTATCGACATAATTTCTTT
1 TGTATCGATACAATAAAAAATGTATCAACACAATTTCTTT
* *
8534 TGTATCGATATATATAAAAAATGTATCAATACAATTTC
1 TGTATCGATACA-ATAAAAAATGTATCAACACAATTTC
8572 CTTCCAGAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
40 11 0.35
41 20 0.65
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.37
Consensus pattern (40 bp):
TGTATCGATACAATAAAAAATGTATCAACACAATTTCTTT
Found at i:8637 original size:20 final size:20
Alignment explanation
Indices: 8594--8667 Score: 60
Period size: 21 Copynumber: 3.6 Consensus size: 20
8584 CACATGGTCC
***
8594 TGTATCGATACATTTCAAGCA
1 TGTATCGATACA-TTCACTTA
8615 TGTATCGATACATTCACTTA
1 TGTATCGATACATTCACTTA
* * *
8635 TGTATTGATATA-TCGCCTTA
1 TGTATCGATACATTC-ACTTA
8655 TTGTATCGATACA
1 -TGTATCGATACA
8668 AATTGTTGAA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
19 2 0.05
20 19 0.44
21 22 0.51
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATTCACTTA
Found at i:9463 original size:61 final size:60
Alignment explanation
Indices: 9302--9475 Score: 199
Period size: 61 Copynumber: 2.9 Consensus size: 60
9292 GGATAAGAAG
* * * *
9302 AGTGCCAATATGCTGATTCAAGGTTAGCGACATTGGACTTAAGGATGTGAAGAATGATAAA
1 AGTGCCAATATGCTGATTCAAGGCTAGCGATATTGG-CTTAAGGATGAGAAAAATGATAAA
* * * * *
9363 GGTGCCAATATGTTGATTCACGGCTAGCGATATCGGGCTT-GGAGATGAGAAAAATGATAAA
1 AGTGCCAATATGCTGATTCAAGGCTAGCGATAT-TGGCTTAAG-GATGAGAAAAATGATAAA
* *
9424 AGTGCCAATATGCTGATTCAAGGCTAGCAATATTAGGCTTAAAGATGA-AAAA
1 AGTGCCAATATGCTGATTCAAGGCTAGCGATATT-GGCTTAAGGATGAGAAAA
9476 TGTACTAATA
Statistics
Matches: 93, Mismatches: 16, Indels: 9
0.79 0.14 0.08
Matches are distributed among these distances:
60 5 0.05
61 86 0.92
62 2 0.02
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.25
Consensus pattern (60 bp):
AGTGCCAATATGCTGATTCAAGGCTAGCGATATTGGCTTAAGGATGAGAAAAATGATAAA
Found at i:9509 original size:52 final size:52
Alignment explanation
Indices: 9428--9576 Score: 169
Period size: 52 Copynumber: 2.9 Consensus size: 52
9418 GATAAAAGTG
* * *
9428 CCAATATGCTGATTCAAGGCTAGCAATATTAGG-CTTAA-AGATGAAAAATGTA
1 CCAATATGCTGATTCAAGGCCAACAATATT-GGACTTAAGA-AAGAAAAATGTA
* * * *
9480 CTAATATGCTAATTCAAGGCCAACGATATTGGACTTAAGAAAGAAAAATGTG
1 CCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAGAAAGAAAAATGTA
* * *
9532 CCAATGTGCTGATTCAAGGCCAGCAAAATTGGACTTAA-AAAGAAA
1 CCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAGAAAGAAA
9577 TGGTTTGACA
Statistics
Matches: 82, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
51 9 0.11
52 72 0.88
53 1 0.01
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.24
Consensus pattern (52 bp):
CCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAGAAAGAAAAATGTA
Found at i:9846 original size:95 final size:95
Alignment explanation
Indices: 9636--10186 Score: 506
Period size: 95 Copynumber: 5.7 Consensus size: 95
9626 TAGAAGGAGA
* * * * *
9636 TGCCACCGACTTGTGTGGACTTTTA-AG-AGGGTGGCCACTGACTTGTGTGGGCTTTTGAAAGGG
1 TGCCACCGACTTGTGTGGGC-TTTAGAGAAGGGTTGCCACCGACTTATGTGGGCTTTAG-AA-GG
** * *
9699 GTTGCCACCAACTTGTGTGGGCTTTGGAAAAAGGT
63 GTTGCCACTGATTTATGTGGGCTTT--AAAAAGGT
* * *
9734 TGCCACCGACTTGTGTGGGCTTTAGAGTAGGGTTGCCACCGACTTATATAGGCTTTAGAAGGGTT
1 TGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTATGTGGGCTTTAGAAGGGTT
*
9799 GCCACTGGTTTATGTGGGCTTTAAAAAGGT
66 GCCACTGATTTATGTGGGCTTTAAAAAGGT
* * * * * * *
9829 TGCCATCAACTTGTGTGGGCTTTAGAGAAGGGTTGCCATCTACTTGTGTGGGTTTTAGAAAGGTT
1 TGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTATGTGGGCTTTAGAAGGGTT
* * *
9894 GCCACTGACTTGTGTGGGCTTTAAAAGGGGAT
66 GCCACTGATTTATGTGGGCTTTAAAA-AGG-T
* * *
9926 TGCCACTGACTTGTGTGGGCTTTAGA-AAGGGATTGCCACTGACTTGTGTGGGCTTTAGAAGGGG
1 TGCCACCGACTTGTGTGGGCTTTAGAGAAGGG-TTGCCACCGACTTATGTGGGCTTTAGAA-GGG
* *
9990 TTGCCACTGACTTT-TATAGGCTTTAAAAAGGGT
64 TTGCCACTGA-TTTATGTGGGCTTTAAAAA-GGT
* * * * * * * *
10023 TGCCATCGACTTATGTGGGCTTTAGAGGA-TGTTACGACTGACTTTTGTGGGCTTTA-AGAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTATGTGGGCTTTAGA-AGGGT
** * * *
10086 TGCCACT-AACTATGCGGGCTTTTAGAAGGGT
65 TGCCACTGATTTATGTGGGC-TTTAAAAAGGT
* * * * *
10117 TGTCACCGACTTGTGTGGGCTTTGGA-AAGGGGTTGCCACCGACTTATGTGGGCTTTGGAAGAGA
1 TGCCACCGACTTGTGTGGGCTTTAGAGAA-GGGTTGCCACCGACTTATGTGGGCTTTAGAAGGGT
10181 TGCCAC
65 TGCCAC
10187 AGAGTTGTGG
Statistics
Matches: 372, Mismatches: 66, Indels: 33
0.79 0.14 0.07
Matches are distributed among these distances:
93 2 0.01
94 30 0.08
95 134 0.36
96 31 0.08
97 99 0.27
98 50 0.13
99 26 0.07
ACGTcount: A:0.20, C:0.17, G:0.32, T:0.31
Consensus pattern (95 bp):
TGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTATGTGGGCTTTAGAAGGGTT
GCCACTGATTTATGTGGGCTTTAAAAAGGT
Found at i:10176 original size:33 final size:32
Alignment explanation
Indices: 9636--10173 Score: 402
Period size: 33 Copynumber: 16.8 Consensus size: 32
9626 TAGAAGGAGA
* *
9636 TGCCACCGACTTGTGTGGACTTT-TAAGAGGGT
1 TGCCACCGACTTGTGTGGGCTTTGAAAG-GGGT
* *
9668 GGCCACTGACTTGTGTGGGCTTTTGAAAGGGGT
1 TGCCACCGACTTGTGTGGGC-TTTGAAAGGGGT
* **
9701 TGCCACCAACTTGTGTGGGCTTTGGAAAAAGGT
1 TGCCACCGACTTGTGTGGGCTTT-GAAAGGGGT
*
9734 TGCCACCGACTTGTGTGGGCTTT-AGAGTAGGGT
1 TGCCACCGACTTGTGTGGGCTTTGAAAG--GGGT
* * *
9767 TGCCACCGACTTATATAGGCTTT-AGAA-GGGT
1 TGCCACCGACTTGTGTGGGCTTTGA-AAGGGGT
* ** * **
9798 TGCCACTGGTTTATGTGGGCTTT-AAAAAGGT
1 TGCCACCGACTTGTGTGGGCTTTGAAAGGGGT
* *
9829 TGCCATCAACTTGTGTGGGCTTTAGAGAA-GGGT
1 TGCCACCGACTTGTGTGGGCTTT-GA-AAGGGGT
* * *
9862 TGCCATCTACTTGTGTGGGTTTTAGAAA--GGT
1 TGCCACCGACTTGTGTGGGCTTT-GAAAGGGGT
* *
9893 TGCCACTGACTTGTGTGGGCTTTAAAAGGGGAT
1 TGCCACCGACTTGTGTGGGCTTTGAAAGGGG-T
* *
9926 TGCCACTGACTTGTGTGGGCTTTAGAAAGGGAT
1 TGCCACCGACTTGTGTGGGCTTT-GAAAGGGGT
*
9959 TGCCACTGACTTGTGTGGGCTTT-AGAAGGGGT
1 TGCCACCGACTTGTGTGGGCTTTGA-AAGGGGT
* * * * * *
9991 TGCCACTGACTTTTATAGGCTTTAAAAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTGAAAGGGGT
* * * *
10023 TGCCATCGACTTATGTGGGCTTT-AGAGGATGT
1 TGCCACCGACTTGTGTGGGCTTTGAAAGG-GGT
* * * *
10055 TACGACTGACTTTTGTGGGCTTT--AAGAGGGT
1 TGCCACCGACTTGTGTGGGCTTTGAAAG-GGGT
** * * *
10086 TGCCACTAAC-TATGCGGGCTTTTAGAA-GGGT
1 TGCCACCGACTTGTGTGGGCTTTGA-AAGGGGT
*
10117 TGTCACCGACTTGTGTGGGCTTTGGAAAGGGGT
1 TGCCACCGACTTGTGTGGGCTTT-GAAAGGGGT
*
10150 TGCCACCGACTTATGTGGGCTTTG
1 TGCCACCGACTTGTGTGGGCTTTG
10174 GAAGAGATGC
Statistics
Matches: 410, Mismatches: 72, Indels: 48
0.77 0.14 0.09
Matches are distributed among these distances:
30 15 0.04
31 93 0.23
32 108 0.26
33 182 0.44
34 12 0.03
ACGTcount: A:0.20, C:0.16, G:0.32, T:0.32
Consensus pattern (32 bp):
TGCCACCGACTTGTGTGGGCTTTGAAAGGGGT
Found at i:10195 original size:64 final size:63
Alignment explanation
Indices: 9636--10195 Score: 474
Period size: 64 Copynumber: 8.7 Consensus size: 63
9626 TAGAAGGAGA
* *
9636 TGCCACCGACTTGTGTGGACTTTTA-AGAGGGTGGCCACTGACTTGTGTGGGCTTTTGAAAGGGG
1 TGCCACCGACTTGTGTGGGC-TTTAGA-AGGGTTGCCACTGACTTGTGTGGGC-TTTGAAAGGGG
9700 T
63 T
* * * * *
9701 TGCCACCAACTTGTGTGGGCTTTGGAAAAAGGTTGCCACCGACTTGTGTGGGCTTT-AGAGTAGG
1 TGCCACCGACTTGTGTGGGCTTT--AGAAGGGTTGCCACTGACTTGTGTGGGCTTTGAAAG--GG
9765 GT
62 GT
* * * ** * **
9767 TGCCACCGACTTATATAGGCTTTAGAAGGGTTGCCACTGGTTTATGTGGGCTTT-AAAAAGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAAGGGTTGCCACTGACTTGTGTGGGCTTTGAAAGGGGT
* * *
9829 TGCCATCAACTTGTGTGGGCTTTAGAGAAGGGTTGCCATCT-ACTTGTGTGGGTTTTAGAAA--G
1 TGCCACCGACTTGTGTGGGCTTT--AGAAGGGTTGCCA-CTGACTTGTGTGGGCTTT-GAAAGGG
9891 GT
62 GT
* * *
9893 TGCCACTGACTTGTGTGGGCTTTAAAAGGGGATTGCCACTGACTTGTGTGGGCTTTAGAAAGGGA
1 TGCCACCGACTTGTGTGGGCTTTAGAA-GGG-TTGCCACTGACTTGTGTGGGCTTT-GAAAGGGG
9958 T
63 T
* * * * * *
9959 TGCCACTGACTTGTGTGGGCTTTAGAAGGGGTTGCCACTGACTTTTATAGGCTTTAAAAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAA-GGGTTGCCACTGACTTGTGTGGGCTTTGAAAGGGGT
* * * * *
10023 TGCCATCGACTTATGTGGGCTTTAG-AGGATGTTACGACTGACTTTTGTGGGCTTT--AAGAGGG
1 TGCCACCGACTTGTGTGGGCTTTAGAAGG--GTTGCCACTGACTTGTGTGGGCTTTGAAAG-GGG
10085 T
63 T
** * * * *
10086 TGCCACTAAC-TATGCGGGCTTTTAGAAGGGTTGTCACCGACTTGTGTGGGCTTTGGAAAGGGGT
1 TGCCACCGACTTGTGTGGGC-TTTAGAAGGGTTGCCACTGACTTGTGTGGGCTTT-GAAAGGGGT
* * * * * *
10150 TGCCACCGACTTATGTGGGCTTTGGAAGAGATGCCACAGAGTTGTG
1 TGCCACCGACTTGTGTGGGCTTTAGAAGGGTTGCCACTGACTTGTG
10196 GACTTTAAAA
Statistics
Matches: 404, Mismatches: 67, Indels: 49
0.78 0.13 0.09
Matches are distributed among these distances:
62 56 0.14
63 22 0.05
64 189 0.47
65 55 0.14
66 81 0.20
67 1 0.00
ACGTcount: A:0.20, C:0.16, G:0.32, T:0.31
Consensus pattern (63 bp):
TGCCACCGACTTGTGTGGGCTTTAGAAGGGTTGCCACTGACTTGTGTGGGCTTTGAAAGGGGT
Found at i:10387 original size:153 final size:150
Alignment explanation
Indices: 10181--10481 Score: 345
Period size: 153 Copynumber: 2.0 Consensus size: 150
10171 TTGGAAGAGA
* * * * *
10181 TGCCACAGAGTTGTGGACTTTAAAAAAAAAGGTGTCACAGAGTTGTAGGCTTTAAAAAAGATGCC
1 TGCCACAGAGTTATGAACTTTAAAAAAAAAGGTGCCACAGAATTATAGGCTTTAAAAAAGATGCC
*
10246 ACAG-AGTTATGGACTTAAAAAGAGGTCACCACGAAGTTGTAAACTTAAAAAGGAAAAAGATGCC
66 A-AGAAGTTATGGACTTAAAAAG-GGT-ACCACGAAGTTGTAAACTT-AAAAGGAAAAAGATACC
*
10310 ATAGAGTTATGGACTTAAAAAGGG
127 ATAGAGTTATAGACTTAAAAAGGG
* * * * *
10334 TGCCACGGAGTTATGAACTTTGAGAAAAAAGGTGCCACGGAATTAT-GGACTTTAAAAGAGATGC
1 TGCCACAGAGTTATGAACTTTAAAAAAAAAGGTGCCACAGAATTATAGG-CTTTAAAAAAGATGC
* * * * * ** * *
10398 CATGAAGTTGTGGACTTTAAAAGGGTACCATGGAGTTGTGGACTTAAAAGGAAAAAGGTACCATG
65 CAAGAAGTTATGGACTTAAAAAGGGTACCACGAAGTTGTAAACTTAAAAGGAAAAAGATACCATA
*
10463 GAGTTGTAGACTTAAAAAG
130 GAGTTATAGACTTAAAAAG
10482 AAAAAAGATG
Statistics
Matches: 124, Mismatches: 22, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
150 34 0.27
151 15 0.12
152 6 0.05
153 69 0.56
ACGTcount: A:0.39, C:0.12, G:0.26, T:0.23
Consensus pattern (150 bp):
TGCCACAGAGTTATGAACTTTAAAAAAAAAGGTGCCACAGAATTATAGGCTTTAAAAAAGATGCC
AAGAAGTTATGGACTTAAAAAGGGTACCACGAAGTTGTAAACTTAAAAGGAAAAAGATACCATAG
AGTTATAGACTTAAAAAGGG
Found at i:10437 original size:28 final size:28
Alignment explanation
Indices: 10379--10449 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
10369 CACGGAATTA
*
10379 TGGACTTTAAAAGAGATGCCATGAAGTTG
1 TGGACTTTAAAAG-GATACCATGAAGTTG
* *
10408 TGGACTTTAAAAGGGTACCATGGAGTTG
1 TGGACTTTAAAAGGATACCATGAAGTTG
10436 TGGAC-TTAAAAGGA
1 TGGACTTTAAAAGGA
10450 AAAAGGTACC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 8 0.21
28 17 0.45
29 13 0.34
ACGTcount: A:0.34, C:0.10, G:0.30, T:0.27
Consensus pattern (28 bp):
TGGACTTTAAAAGGATACCATGAAGTTG
Found at i:10459 original size:33 final size:33
Alignment explanation
Indices: 10416--11627 Score: 420
Period size: 32 Copynumber: 38.8 Consensus size: 33
10406 TGTGGACTTT
* *
10416 AAAAGGGTACCATGGAGTTGTGGACTTAAAAGG
1 AAAAAGGTGCCATGGAGTTGTGGACTTAAAAGG
* * *
10449 AAAAAGGTACCATGGAGTTGTAGACTTAAAAAGA
1 AAAAAGGTGCCATGGAGTTGTGGACTT-AAAAGG
* * * *
10483 AAAAAGATGGCATGAAGTTGCGGACTTAAAA-G
1 AAAAAGGTGCCATGGAGTTGTGGACTTAAAAGG
* * * *
10515 AAAAATGTGCCAAGGAGTTGTCGAC-TAAAGAAG
1 AAAAAGGTGCCATGGAGTTGTGGACTTAAA-AGG
10548 AAAAAGGATGCCATGGAGTTGTGGACTT-AAAGG
1 AAAAAGG-TGCCATGGAGTTGTGGACTTAAAAGG
* *
10581 -----GGTGCCACGGAGTTGTGGACTT----TG
1 AAAAAGGTGCCATGGAGTTGTGGACTTAAAAGG
* * * *
10605 ATAAGGGTGCCACT-GAGTCGTGGACTT----TG
1 AAAAAGGTGCCA-TGGAGTTGTGGACTTAAAAGG
* *
10634 AAAAGAGATGCCACT-AAGTTGTGGACTTAAAA-G
1 AAAA-AGGTGCCA-TGGAGTTGTGGACTTAAAAGG
* * * * *
10667 AAAAAAGTACCATAGAGTTGTGGAGTT--TA--
1 AAAAAGGTGCCATGGAGTTGTGGACTTAAAAGG
* * * ** * *
10696 ATAAGGGTGCCCCT-GAGTCATAGACTT----TG
1 AAAAAGGTG-CCATGGAGTTGTGGACTTAAAAGG
* ** * *
10725 AAAAGAGATGCCACT-GAGTCATGGATTTAAAAGAA
1 AAAA-AGGTGCCA-TGGAGTTGTGGACTTAAAAG-G
* **
10760 AAAAAAGTGCCACAGAGTTGTGGACTTTAAAA-G
1 AAAAAGGTGCCATGGAGTTGTGGAC-TTAAAAGG
** *
10793 AAAAACATGCCATGGAGTTGTGGACTTAAAACAG
1 AAAAAGGTGCCATGGAGTTGTGGACTTAAAA-GG
* ***
10827 AAAAA--TACCACAAAGTTGTGGACTTAAAA-G
1 AAAAAGGTGCCATGGAGTTGTGGACTTAAAAGG
* * * * *
10857 -----GGTGCCACGGAGTTATGAACCTAAAATG
1 AAAAAGGTGCCATGGAGTTGTGGACTTAAAAGG
* * * *
10885 AAAAAGAGTGCCACGAAATTATGGACTTAAAAGG
1 AAAAAG-GTGCCATGGAGTTGTGGACTTAAAAGG
* * *
10919 GAAAAGGATGCCGTAGAGTTGTGGACTTAAAAGG
1 AAAAAGG-TGCCATGGAGTTGTGGACTTAAAAGG
*
10953 AAAATGGATGCCACT-GAGTTGTGGACTT------
1 AAAAAGG-TGCCA-TGGAGTTGTGGACTTAAAAGG
** * * * *
10981 AAAAAGGTGTTACGAAGTTATGGACTTTAAA-G
1 AAAAAGGTGCCATGGAGTTGTGGACTTAAAAGG
* *
11013 AAAAAGGTGCTATAGAGTTGTGGACTTAAAA-G
1 AAAAAGGTGCCATGGAGTTGTGGACTTAAAAGG
* *
11045 -----GGTGCCATGGAGGTATGGACTTAAAAGG
1 AAAAAGGTGCCATGGAGTTGTGGACTTAAAAGG
* * *
11073 AAAAAGGTGCCACGAAATTGTGGAC-TAAAA-G
1 AAAAAGGTGCCATGGAGTTGTGGACTTAAAAGG
* *
11104 -----GGTGCCACGGAGTTATGGACTTAAAAGG
1 AAAAAGGTGCCATGGAGTTGTGGACTTAAAAGG
* *
11132 ATAAAAGGT-CCAATAGAGTTATGGACTTAAAAGG
1 A-AAAAGGTGCC-ATGGAGTTGTGGACTTAAAAGG
*
11166 AAAAAGAGTGCCACT-GAGTCT-TGAACTT------
1 AAAAAG-GTGCCA-TGGAGT-TGTGGACTTAAAAGG
* * **
11194 -AAAAGGTGCCACGGAGTTATGGACTTTGAA--
1 AAAAAGGTGCCATGGAGTTGTGGACTTAAAAGG
* * ** *
11224 AAAAATGTGCTACAGAGTTATGGACTTTAAAA--
1 AAAAAGGTGCCATGGAGTTGTGGAC-TTAAAAGG
* ** *
11256 AAAAAGGAGCCACAGAGTTATGGACTT-AAA-G
1 AAAAAGGTGCCATGGAGTTGTGGACTTAAAAGG
*
11287 -----GGTGCCATAGAGTTGTGGACTTTTAAAA-G
1 AAAAAGGTGCCATGGAGTTGTGGAC--TTAAAAGG
* * *** *
11316 AAAAAGGTACTACAAAGTTGTGGACTTTAAA-G
1 AAAAAGGTGCCATGGAGTTGTGGACTTAAAAGG
* * **
11348 AAAAAAGTGCCACGGAGTTGTGGACTTTGAA-G
1 AAAAAGGTGCCATGGAGTTGTGGACTTAAAAGG
* *
11380 AAAAATGTGCCATGAAGTTGTGGACTTTAAAA-G
1 AAAAAGGTGCCATGGAGTTGTGGAC-TTAAAAGG
*
11413 --ACA--TGCCACT-GAGTTGTGGACTTAAAAGG
1 AAAAAGGTGCCA-TGGAGTTGTGGACTTAAAAGG
*
11442 -AAAATGTGCCATGGAGTTGTGGACTTAAAA--
1 AAAAAGGTGCCATGGAGTTGTGGACTTAAAAGG
11472 AAAAAGGTGCCATGGAGTTGTGGACTTAAAA-G
1 AAAAAGGTGCCATGGAGTTGTGGACTTAAAAGG
* * * *
11504 -AAAAGGAGCCACGGAGTTGTCGACTTAAAAAG
1 AAAAAGGTGCCATGGAGTTGTGGACTTAAAAGG
* * * * *
11536 AAAAAGATACCACGAAGTTATGGACTTAAAAGG
1 AAAAAGGTGCCATGGAGTTGTGGACTTAAAAGG
*
11569 AAAAA-GTGCCATCGAGTTGTGGACTTAAAAAGG
1 AAAAAGGTGCCATGGAGTTGTGGACTT-AAAAGG
* * * *
11602 -GAAATGTGCCATAGAGTTATGGACTT
1 AAAAAGGTGCCATGGAGTTGTGGACTT
11628 TGTGCTACTG
Statistics
Matches: 914, Mismatches: 168, Indels: 194
0.72 0.13 0.15
Matches are distributed among these distances:
24 1 0.00
25 1 0.00
26 50 0.05
27 83 0.09
28 19 0.02
29 63 0.07
30 45 0.05
31 88 0.10
32 213 0.23
33 148 0.16
34 187 0.20
35 16 0.02
ACGTcount: A:0.38, C:0.12, G:0.27, T:0.23
Consensus pattern (33 bp):
AAAAAGGTGCCATGGAGTTGTGGACTTAAAAGG
Found at i:10478 original size:89 final size:88
Alignment explanation
Indices: 10299--10482 Score: 201
Period size: 89 Copynumber: 2.1 Consensus size: 88
10289 CTTAAAAAGG
* **
10299 AAAAAGATGCCATAGAGTTATGGACTTAAAAAGGGTGCCACGGAGTTATGAACTTTGAGAAAAAA
1 AAAAAGATGCCATAGAGTTATGGACTTAAAAAGGGTACCACGGAGTTATGAACTTAAAGAAAAAA
* *
10364 GGTGCCACGGAATTATGGACTTT
66 GGTACCACGGAATTATAGACTTT
* * * * * *
10387 AAAAGAGATGCCAT-GAAGTTGTGGACTTTAAAAGGGTACCATGGAGTTGTGGACTTAAAAGGAA
1 AAAA-AGATGCCATAG-AGTTATGGACTTAAAAAGGGTACCACGGAGTTATGAACTT-AAAGAAA
* * *
10451 AAAGGTACCATGGAGTTGTAGAC-TT
63 AAAGGTACCACGGAATTATAGACTTT
10476 AAAAAGA
1 AAAAAGA
10483 AAAAAGATGG
Statistics
Matches: 79, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
88 8 0.10
89 49 0.62
90 22 0.28
ACGTcount: A:0.39, C:0.11, G:0.27, T:0.23
Consensus pattern (88 bp):
AAAAAGATGCCATAGAGTTATGGACTTAAAAAGGGTACCACGGAGTTATGAACTTAAAGAAAAAA
GGTACCACGGAATTATAGACTTT
Found at i:10549 original size:66 final size:67
Alignment explanation
Indices: 10425--10578 Score: 213
Period size: 66 Copynumber: 2.3 Consensus size: 67
10415 TAAAAGGGTA
*
10425 CCATGGAGTTGTGGACTTAAAAGGAAAAAGGTACCATGGAGTTGTAGACTTAAAAAGAAAAAAGA
1 CCATGGAGTTGTGGACTTAAAAGGAAAAAGGTACCAAGGAGTTGTAGACTTAAAAAGAAAAAAGA
10490 TG
66 TG
* * * * * * *
10492 GCATGAAGTTGCGGACTTAAAA-GAAAAATGTGCCAAGGAGTTGTCGAC-TAAAGAAGAAAAAGG
1 CCATGGAGTTGTGGACTTAAAAGGAAAAAGGTACCAAGGAGTTGTAGACTTAAA-AAGAAAAAAG
10555 ATG
65 ATG
10558 CCATGGAGTTGTGGACTTAAA
1 CCATGGAGTTGTGGACTTAAA
10579 GGGGTGCCAC
Statistics
Matches: 75, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
65 4 0.05
66 52 0.69
67 19 0.25
ACGTcount: A:0.41, C:0.10, G:0.28, T:0.21
Consensus pattern (67 bp):
CCATGGAGTTGTGGACTTAAAAGGAAAAAGGTACCAAGGAGTTGTAGACTTAAAAAGAAAAAAGA
TG
Found at i:10648 original size:30 final size:30
Alignment explanation
Indices: 10583--10758 Score: 114
Period size: 29 Copynumber: 5.9 Consensus size: 30
10573 CTTAAAGGGG
* * * *
10583 TGCCACGGAGTTGTGGACTTTGATAAG-GG
1 TGCCACTGAGTCGTGGACTTTGAAAAGAGA
10612 TGCCACTGAGTCGTGGACTTTGAAAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAAAAGAGA
* * * *
10642 TGCCACTAAGTTGTGGACTTAAAAGAAAAAAG-
1 TGCCACTGAGTCGTGGACTT---TGAAAAGAGA
* * * *
10674 TACCA-TAGAGTTGTGGAGTTT-AATAAG-GG
1 TGCCACT-GAGTCGTGGACTTTGAA-AAGAGA
* * *
10703 TGCCCCTGAGTCATAGACTTTGAAAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAAAAGAGA
*
10733 TGCCACTGAGTCATGGA-TTT-AAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAAAGA
10759 AAAAAAAGTG
Statistics
Matches: 115, Mismatches: 22, Indels: 21
0.73 0.14 0.13
Matches are distributed among these distances:
28 9 0.08
29 45 0.39
30 38 0.33
31 1 0.01
32 15 0.13
33 7 0.06
ACGTcount: A:0.32, C:0.14, G:0.28, T:0.26
Consensus pattern (30 bp):
TGCCACTGAGTCGTGGACTTTGAAAAGAGA
Found at i:10713 original size:91 final size:92
Alignment explanation
Indices: 10585--10789 Score: 286
Period size: 91 Copynumber: 2.2 Consensus size: 92
10575 TAAAGGGGTG
* * * *
10585 CCACGGAGTTGTGGACTTTGATAAGGGTGCCACTGAGTCGTGGACTTTGAAAAGAGATGCCACTA
1 CCACAGAGTTGTGGACTTTAATAAGGGTGCCACTGAGTCATAGACTTTGAAAAGAGATGCCACTA
**
10650 AGTTGTGGACTTAAAAG-AAAAAAGTA
66 AGTCATGGACTTAAAAGAAAAAAAGTA
* * * *
10676 CCATAGAGTTGTGGAGTTTAATAAGGGTGCCCCTGAGTCATAGACTTTGAAAAGAGATGCCACTG
1 CCACAGAGTTGTGGACTTTAATAAGGGTGCCACTGAGTCATAGACTTTGAAAAGAGATGCCACTA
* *
10741 AGTCATGGATTTAAAAGAAAAAAAAGTG
66 AGTCATGGACTTAAAAG-AAAAAAAGTA
10769 CCACAGAGTTGTGGACTTTAA
1 CCACAGAGTTGTGGACTTTAA
10790 AAGAAAAACA
Statistics
Matches: 98, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
91 71 0.72
93 27 0.28
ACGTcount: A:0.34, C:0.14, G:0.27, T:0.25
Consensus pattern (92 bp):
CCACAGAGTTGTGGACTTTAATAAGGGTGCCACTGAGTCATAGACTTTGAAAAGAGATGCCACTA
AGTCATGGACTTAAAAGAAAAAAAGTA
Found at i:11037 original size:59 final size:60
Alignment explanation
Indices: 10934--11598 Score: 267
Period size: 60 Copynumber: 10.8 Consensus size: 60
10924 GGATGCCGTA
* * * * **
10934 GAGTTGTGGACTTAAAAGGAAAATGGATGCCACT-GAGTTGTGGACTTAAAAAGGTGTTACG
1 GAGTTATGGACTTAAAAGGAAAAAGG-TG-CAATAGAGTTGTGGACTTAAAAGGGTGCCACG
* * * *
10995 AAGTTATGGACTTTAAA-GAAAAAGGTGCTATAGAGTTGTGGACTTAAAAGGGTGCCATG
1 GAGTTATGGACTTAAAAGGAAAAAGGTGCAATAGAGTTGTGGACTTAAAAGGGTGCCACG
* * * *
11054 GAGGTATGGACTTAAAAGGAAAAAGGTGCCA-CGAAATTGTGGAC-TAAAAGGGTGCCACG
1 GAGTTATGGACTTAAAAGGAAAAAGGTGCAATAG-AGTTGTGGACTTAAAAGGGTGCCACG
* *
11113 GAGTTATGGACTTAAAAGGATAAAAGGTCCAATAGAGTTATGGACTTAAAAGGAAAAAGAGTGCC
1 GAGTTATGGACTTAAAAGGA-AAAAGGTGCAATAGAGTTGTGGACTTAAAA-G-----G-GTGCC
*
11178 ACT
58 ACG
* * ** * ** * *
11181 GAGTCT-TGAACTT-------AAAAGGTGCCACGGAGTTATGGACTTTGAAAAAAATGTGCTACA
1 GAGT-TATGGACTTAAAAGGAAAAAGGTGCAATAGAGTTGTGGAC-TT---AAAAGGGTGCCACG
* * * * **
11238 GAGTTATGGACTTTAAAA--AAAAAGGAGCCACAGAGTTATGGACTT-AAAGGGTGCCATA
1 GAGTTATGGAC-TTAAAAGGAAAAAGGTGCAATAGAGTTGTGGACTTAAAAGGGTGCCACG
* * * * * **
11296 GAGTTGTGGACTTTTAAAA-GAAAAAGGTACTACAAAGTTGTGGACTTTAAAGAAAAAAGTGCCA
1 GAGTTATGGAC--TTAAAAGGAAAAAGGTGCAATAGAGTTGTGGAC-TT----AAAAGGGTGCCA
11360 CG
59 CG
* ** * * ** *
11362 GAGTTGTGGACTTTGAA-GAAAAATGTGCCAT-GAAGTTGTGGACTTTAAAAGACATGCCACT
1 GAGTTATGGACTTAAAAGGAAAAAGGTGCAATAG-AGTTGTGGAC-TTAAAAG-GGTGCCACG
* * * * * *
11423 GAGTTGTGGACTTAAAAGG-AAAATGTGCCATGGAGTTGTGGACTTAAAAAAAAAGGTGCCATG
1 GAGTTATGGACTTAAAAGGAAAAAGGTGCAATAGAGTTGTGGACTT----AAAAGGGTGCCACG
* * * ** * * *
11486 GAGTTGTGGACTTAAAA-G-AAAAGGAGCCACGGAGTTGTCGACTTAAAAAGAAAAAGATACCAC
1 GAGTTATGGACTTAAAAGGAAAAAGGTGCAATAGAGTTGTGGACTT-AAAAG-----GGTGCCAC
11549 G
60 G
* * *
11550 AAGTTATGGACTTAAAAGGAAAAA-GTGCCATCGAGTTGTGGACTTAAAA
1 GAGTTATGGACTTAAAAGGAAAAAGGTGCAATAGAGTTGTGGACTTAAAA
11599 AGGGAAATGT
Statistics
Matches: 474, Mismatches: 82, Indels: 93
0.73 0.13 0.14
Matches are distributed among these distances:
56 1 0.00
57 14 0.03
58 23 0.05
59 85 0.18
60 91 0.19
61 67 0.14
62 28 0.06
63 44 0.09
64 60 0.13
65 18 0.04
66 24 0.05
67 1 0.00
68 17 0.04
69 1 0.00
ACGTcount: A:0.38, C:0.11, G:0.27, T:0.23
Consensus pattern (60 bp):
GAGTTATGGACTTAAAAGGAAAAAGGTGCAATAGAGTTGTGGACTTAAAAGGGTGCCACG
Found at i:11109 original size:26 final size:27
Alignment explanation
Indices: 11073--11131 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 27
11063 ACTTAAAAGG
* *
11073 AAAAAGGTGCCACGAAATTGTGGAC-T
1 AAAAGGGTGCCACGAAATTATGGACTT
* *
11099 AAAAGGGTGCCACGGAGTTATGGACTT
1 AAAAGGGTGCCACGAAATTATGGACTT
11126 AAAAGG
1 AAAAGG
11132 ATAAAAGGTC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 21 0.75
27 7 0.25
ACGTcount: A:0.37, C:0.14, G:0.31, T:0.19
Consensus pattern (27 bp):
AAAAGGGTGCCACGAAATTATGGACTT
Found at i:11157 original size:60 final size:61
Alignment explanation
Indices: 10934--11598 Score: 287
Period size: 59 Copynumber: 10.8 Consensus size: 61
10924 GGATGCCGTA
* * * * **
10934 GAGTTGTGGACTTAAAAGGAAAATGGATGCCACT-GAGTTGTGGACTTAAAAAGGTGTTACG
1 GAGTTATGGACTTAAAAGGAAAAAGG-TGCCAATAGAGTTGTGGACTTAAAAGGGTGCCACG
* * * *
10995 AAGTTATGGACTTTAAA-GAAAAAGGTG-CTATAGAGTTGTGGACTTAAAAGGGTGCCATG
1 GAGTTATGGACTTAAAAGGAAAAAGGTGCCAATAGAGTTGTGGACTTAAAAGGGTGCCACG
* ** *
11054 GAGGTATGGACTTAAAAGGAAAAAGGTGCCACGA-AATTGTGGAC-TAAAAGGGTGCCACG
1 GAGTTATGGACTTAAAAGGAAAAAGGTGCCAATAGAGTTGTGGACTTAAAAGGGTGCCACG
*
11113 GAGTTATGGACTTAAAAGGATAAAAGGT-CCAATAGAGTTATGGACTTAAAAGGAAAAAGAGTGC
1 GAGTTATGGACTTAAAAGGA-AAAAGGTGCCAATAGAGTTGTGGACTTAAAA-G-----G-GTGC
*
11177 CACT
58 CACG
* ** * ** *
11181 GAGTCT-TGAACTT-------AAAAGGTGCC-ACGGAGTTATGGACTTTGAAAAAAATGTGCTAC
1 GAGT-TATGGACTTAAAAGGAAAAAGGTGCCAATAGAGTTGTGGAC-TT---AAAAGGGTGCCAC
*
11237 A
61 G
* * * **
11238 GAGTTATGGACTTTAAAA--AAAAAGGAGCC-ACAGAGTTATGGACTT-AAAGGGTGCCATA
1 GAGTTATGGAC-TTAAAAGGAAAAAGGTGCCAATAGAGTTGTGGACTTAAAAGGGTGCCACG
* * * **
11296 GAGTTGTGGACTTTTAAAA-GAAAAAGGTACTACA-A-AGTTGTGGACTTTAAAGAAAAAAGTGC
1 GAGTTATGGAC--TTAAAAGGAAAAAGGTGCCA-ATAGAGTTGTGGAC-TT----AAAAGGGTGC
11358 CACG
58 CACG
* ** * ** *
11362 GAGTTGTGGACTTTGAA-GAAAAATGTGCC-AT-GAAGTTGTGGACTTTAAAAGACATGCCACT
1 GAGTTATGGACTTAAAAGGAAAAAGGTGCCAATAG-AGTTGTGGAC-TTAAAAG-GGTGCCACG
* * * * *
11423 GAGTTGTGGACTTAAAAGG-AAAATGTGCC-ATGGAGTTGTGGACTTAAAAAAAAAGGTGCCATG
1 GAGTTATGGACTTAAAAGGAAAAAGGTGCCAATAGAGTTGTGGACTT----AAAAGGGTGCCACG
* * ** * * *
11486 GAGTTGTGGACTTAAAA-G-AAAAGGAGCC-ACGGAGTTGTCGACTTAAAAAGAAAAAGATACCA
1 GAGTTATGGACTTAAAAGGAAAAAGGTGCCAATAGAGTTGTGGACTT-AAAAG-----GGTGCCA
11548 CG
60 CG
* *
11550 AAGTTATGGACTTAAAAGGAAAAA-GTGCC-ATCGAGTTGTGGACTTAAAA
1 GAGTTATGGACTTAAAAGGAAAAAGGTGCCAATAGAGTTGTGGACTTAAAA
11599 AGGGAAATGT
Statistics
Matches: 474, Mismatches: 77, Indels: 103
0.72 0.12 0.16
Matches are distributed among these distances:
56 1 0.00
57 14 0.03
58 23 0.05
59 88 0.19
60 83 0.18
61 71 0.15
62 30 0.06
63 44 0.09
64 59 0.12
65 18 0.04
66 24 0.05
67 1 0.00
68 17 0.04
69 1 0.00
ACGTcount: A:0.38, C:0.11, G:0.27, T:0.23
Consensus pattern (61 bp):
GAGTTATGGACTTAAAAGGAAAAAGGTGCCAATAGAGTTGTGGACTTAAAAGGGTGCCACG
Found at i:12377 original size:21 final size:21
Alignment explanation
Indices: 12344--12384 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
12334 CTAAGTAAAA
12344 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
12365 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
12385 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:12449 original size:20 final size:19
Alignment explanation
Indices: 12424--12494 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
12414 ACCCTGAAAA
12424 GTATCGATACACATTTAAAT
1 GTATCGATACACA-TTAAAT
* **
12444 GTATCGATACAAATTGCAT
1 GTATCGATACACATTAAAT
**
12463 AGTATCGATACACACAAATAT
1 -GTATCGATACACATTAA-AT
12484 GTATCGATACA
1 GTATCGATACA
12495 GGACATTGGC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.10
20 35 0.85
21 2 0.05
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.30
Consensus pattern (19 bp):
GTATCGATACACATTAAAT
Found at i:12622 original size:10 final size:10
Alignment explanation
Indices: 12603--12633 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
12593 AATCTCATTT
12603 TCACTGTTCA
1 TCACTGTTCA
*
12613 TCACTATTCA
1 TCACTGTTCA
12623 TCACTGTTCA
1 TCACTGTTCA
12633 T
1 T
12634 GTATCGATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.29, G:0.06, T:0.42
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:12655 original size:21 final size:22
Alignment explanation
Indices: 12621--12675 Score: 94
Period size: 21 Copynumber: 2.5 Consensus size: 22
12611 CATCACTATT
12621 CATCACTGTTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
*
12643 CATCACT-TTCATGTATCGATT
1 CATCACTGTTCATGTATCGATA
12664 CATCACTGTTCA
1 CATCACTGTTCA
12676 CACTGTTCAC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 20 0.65
22 11 0.35
ACGTcount: A:0.25, C:0.25, G:0.11, T:0.38
Consensus pattern (22 bp):
CATCACTGTTCATGTATCGATA
Found at i:12770 original size:13 final size:13
Alignment explanation
Indices: 12752--12777 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12742 ACATATTTGT
12752 GTGTATCGATACA
1 GTGTATCGATACA
12765 GTGTATCGATACA
1 GTGTATCGATACA
12778 TCATAAATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
GTGTATCGATACA
Found at i:13319 original size:34 final size:35
Alignment explanation
Indices: 13256--13322 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
13246 CTAAGTGATT
13256 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
13292 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
13323 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:15153 original size:694 final size:694
Alignment explanation
Indices: 13824--15214 Score: 2674
Period size: 694 Copynumber: 2.0 Consensus size: 694
13814 TTTGTCAGTA
*
13824 ACGATCAATGGCAAGGCAATGTCATTACCGTAATGCCCTATACTATGAATAAGCCCTCGTACTAT
1 ACGATCAATGGCAAGGCAATGTCATTACCGTAATACCCTATACTATGAATAAGCCCTCGTACTAT
13889 TAAAGTCGAGGCCCCAGGTAGAACCGACACCTTGATAATGCGCGAATATTGTCACGAGTTGGTCA
66 TAAAGTCGAGGCCCCAGGTAGAACCGACACCTTGATAATGCGCGAATATTGTCACGAGTTGGTCA
*
13954 TTTCTTTTGCGTCCCTTAAGGTGAACACCTTGTTAGGGTTCTTTTTATCGGACATGCCATTATGC
131 TTTCTTTTGCGTCCCTTAAGGTGAACACCTTGTTAGGGTTCTTTTTATCAGACATGCCATTATGC
* *
14019 TGTCCGATCTTTGTCAAATACCCCCTAGGCATCGTAACACCTAAGAAGGGGCCACTCATGTTGAT
196 TGTCCGATCTTTGTCAAACACCCCCTAGGCATCGTAACACCTAAGAAGGGGCCACTCATGTTGAA
14084 TGATGTTCATTCTTTATCTTTGTTATTCATCCCTACTATTTTCGTATAGTTGCTAACTAAGTTCT
261 TGATGTTCATTCTTTATCTTTGTTATTCATCCCTACTATTTTCGTATAGTTGCTAACTAAGTTCT
14149 TGTTTGTTTTTGCTTGATACATGCATGCATCTCATCATGATCATCATTATTTCGGGACAATTGTT
326 TGTTTGTTTTTGCTTGATACATGCATGCATCTCATCATGATCATCATTATTTCGGGACAATTGTT
*
14214 CTGGTTCGGTGTTCAGCAAGGAGCATCATCTATGGAGCATTAGTCAATCTCTACTTTTGAGTCCT
391 CTGGTTCGGTGTTCAGCAAGGAGCATCATCTATGGAGCATCAGTCAATCTCTACTTTTGAGTCCT
*
14279 TTTAAAACATCAGAACATGGTCAGAAGGTCGCCAATGTCGAGATGGGGACATCTTAAAACCCGAT
456 TTTAAAACATCAGAACATGGTCAGAAGGTCGCCAATGTCGAGATGAGGACATCTTAAAACCCGAT
14344 TATGTGTTAGAAATGCATGAAAAGGTCAAGATTAGTTTTCGCCAGAATGATTGTCGGGAACTGAA
521 TATGTGTTAGAAATGCATGAAAAGGTCAAGATTAGTTTTCGCCAGAATGATTGTCGGGAACTGAA
14409 GCACATTTGGGACAGTTAGGATGGCAATGAGAAAGAAAACTTCACTCAGAAATATGGGGATATAG
586 GCACATTTGGGACAGTTAGGATGGCAATGAGAAAGAAAACTTCACTCAGAAATATGGGGATATAG
14474 CTCTTTTGCTTCGTGTACAGTTGGATGAGGGCCTGTTGCGAGCT
651 CTCTTTTGCTTCGTGTACAGTTGGATGAGGGCCTGTTGCGAGCT
14518 ACGATCAATGGCAAGGCAATGTCATTACCGTAATACCCTATACTATGAATAAGCCCTCGTACTAT
1 ACGATCAATGGCAAGGCAATGTCATTACCGTAATACCCTATACTATGAATAAGCCCTCGTACTAT
*
14583 TAAAGTCGAGGCCCCAGGTAGAACCGGCACCTTGATAATGCGCGAATATTGTCACGAGTTGGTCA
66 TAAAGTCGAGGCCCCAGGTAGAACCGACACCTTGATAATGCGCGAATATTGTCACGAGTTGGTCA
14648 TTTCTTTTGCGTCCCTTAAGGTGAACACCTTGTTAGGGTTCTTTTTATCAGACATGCCATTATGC
131 TTTCTTTTGCGTCCCTTAAGGTGAACACCTTGTTAGGGTTCTTTTTATCAGACATGCCATTATGC
* *
14713 TGTCCGATCTTTGTCAAACACCCCCTAGGCATTGTCACACCTAAGAAGGGGCCACTCATGTTGAA
196 TGTCCGATCTTTGTCAAACACCCCCTAGGCATCGTAACACCTAAGAAGGGGCCACTCATGTTGAA
14778 TGATGTTCATTCTTTATCTTTGTTATTCATCCCTACTATTTTCGTATAGTTGCTAACTAAGTTCT
261 TGATGTTCATTCTTTATCTTTGTTATTCATCCCTACTATTTTCGTATAGTTGCTAACTAAGTTCT
14843 TGTTTGTTTTTGCTTGATACATGCATGCATCTCATCATGATCATCATTATTTCGGGACAATTGTT
326 TGTTTGTTTTTGCTTGATACATGCATGCATCTCATCATGATCATCATTATTTCGGGACAATTGTT
14908 CTGGTTCGGTGTTCAGCAAGGAGCATCATCTATGGAGCATCAGTCAATCTCTACTTTTGAGTCCT
391 CTGGTTCGGTGTTCAGCAAGGAGCATCATCTATGGAGCATCAGTCAATCTCTACTTTTGAGTCCT
*
14973 TTTAAAACATCAGAACATGGTCAGAAGGTCGCCAATGTCGGGATGAGGACATCTTAAAACCCGAT
456 TTTAAAACATCAGAACATGGTCAGAAGGTCGCCAATGTCGAGATGAGGACATCTTAAAACCCGAT
*
15038 TATGTGTTAGAAATGCATGAAAAGGTCAAGATTGGTTTTCGCCAGAATGATTGTCGGGAACTGAA
521 TATGTGTTAGAAATGCATGAAAAGGTCAAGATTAGTTTTCGCCAGAATGATTGTCGGGAACTGAA
15103 GCACATTTGGGACAGTTAGGATGGCAATGAGAAAGAAAACTTCACTCAGAAATATGGGGATATAG
586 GCACATTTGGGACAGTTAGGATGGCAATGAGAAAGAAAACTTCACTCAGAAATATGGGGATATAG
*
15168 CTTTTTTGCTTCGTGTACAGTTGGATGAGGGCCTGTTGCGAGCT
651 CTCTTTTGCTTCGTGTACAGTTGGATGAGGGCCTGTTGCGAGCT
15212 ACG
1 ACG
15215 GCACAGTTCT
Statistics
Matches: 685, Mismatches: 12, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
694 685 1.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.32
Consensus pattern (694 bp):
ACGATCAATGGCAAGGCAATGTCATTACCGTAATACCCTATACTATGAATAAGCCCTCGTACTAT
TAAAGTCGAGGCCCCAGGTAGAACCGACACCTTGATAATGCGCGAATATTGTCACGAGTTGGTCA
TTTCTTTTGCGTCCCTTAAGGTGAACACCTTGTTAGGGTTCTTTTTATCAGACATGCCATTATGC
TGTCCGATCTTTGTCAAACACCCCCTAGGCATCGTAACACCTAAGAAGGGGCCACTCATGTTGAA
TGATGTTCATTCTTTATCTTTGTTATTCATCCCTACTATTTTCGTATAGTTGCTAACTAAGTTCT
TGTTTGTTTTTGCTTGATACATGCATGCATCTCATCATGATCATCATTATTTCGGGACAATTGTT
CTGGTTCGGTGTTCAGCAAGGAGCATCATCTATGGAGCATCAGTCAATCTCTACTTTTGAGTCCT
TTTAAAACATCAGAACATGGTCAGAAGGTCGCCAATGTCGAGATGAGGACATCTTAAAACCCGAT
TATGTGTTAGAAATGCATGAAAAGGTCAAGATTAGTTTTCGCCAGAATGATTGTCGGGAACTGAA
GCACATTTGGGACAGTTAGGATGGCAATGAGAAAGAAAACTTCACTCAGAAATATGGGGATATAG
CTCTTTTGCTTCGTGTACAGTTGGATGAGGGCCTGTTGCGAGCT
Found at i:24546 original size:10 final size:10
Alignment explanation
Indices: 24529--24589 Score: 63
Period size: 10 Copynumber: 6.2 Consensus size: 10
24519 GTCCTTTACA
*
24529 AAAAAAAAAA
1 AAAAAAAAAC
24539 AGAAAAAAAAC
1 A-AAAAAAAAC
*
24550 AAAACAAAAC
1 AAAAAAAAAC
24560 -AAAAAAAAC
1 AAAAAAAAAC
* *
24569 AAACAAACA-
1 AAAAAAAAAC
24578 AAAAAAAAAC
1 AAAAAAAAAC
24588 AA
1 AA
24590 CAACAAAAAG
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
9 15 0.37
10 17 0.41
11 9 0.22
ACGTcount: A:0.87, C:0.11, G:0.02, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:24551 original size:22 final size:21
Alignment explanation
Indices: 24526--24598 Score: 83
Period size: 23 Copynumber: 3.3 Consensus size: 21
24516 GGCGTCCTTT
24526 ACAAAAAAAAAAAAGAAAAAAA
1 ACAAAAAAAAAAAA-AAAAAAA
*
24548 ACAAAACAAAACAAAAAAAACAA
1 ACAAAA-AAAA-AAAAAAAAAAA
* * *
24571 ACAAACAAAAAAAAAACAACA
1 ACAAAAAAAAAAAAAAAAAAA
24592 ACAAAAA
1 ACAAAAA
24599 GGGTCCGGAT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
21 14 0.33
22 10 0.23
23 15 0.35
24 4 0.09
ACGTcount: A:0.85, C:0.14, G:0.01, T:0.00
Consensus pattern (21 bp):
ACAAAAAAAAAAAAAAAAAAA
Found at i:24553 original size:19 final size:19
Alignment explanation
Indices: 24531--24599 Score: 77
Period size: 19 Copynumber: 3.5 Consensus size: 19
24521 CCTTTACAAA
24531 AAAAAAAAAGAAAAAAAAC
1 AAAAAAAAAGAAAAAAAAC
* *
24550 AAAACAAAACAAAAAAAAC
1 AAAAAAAAAGAAAAAAAAC
*
24569 AAACAAACAA-AAAAAAAAC
1 AAA-AAAAAAGAAAAAAAAC
24588 AACAACAAAAAG
1 AA-AA-AAAAAG
24600 GGTCCGGATG
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
19 32 0.78
20 9 0.22
ACGTcount: A:0.84, C:0.13, G:0.03, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAGAAAAAAAAC
Found at i:24556 original size:27 final size:26
Alignment explanation
Indices: 24526--24586 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 26
24516 GGCGTCCTTT
24526 ACAAAAAAAAAAAAGAAAAAAAACAAA
1 ACAAAAAAAAAAAA-AAAAAAAACAAA
* *
24553 ACAAAACAAAAAAAACAAACAAACAAA
1 ACAAAA-AAAAAAAAAAAAAAAACAAA
24580 A-AAAAAA
1 ACAAAAAA
24587 CAACAACAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 2 0.06
26 4 0.13
27 17 0.55
28 8 0.26
ACGTcount: A:0.87, C:0.11, G:0.02, T:0.00
Consensus pattern (26 bp):
ACAAAAAAAAAAAAAAAAAAAACAAA
Found at i:24563 original size:18 final size:17
Alignment explanation
Indices: 24526--24598 Score: 82
Period size: 15 Copynumber: 4.4 Consensus size: 17
24516 GGCGTCCTTT
*
24526 ACAAAAAAAAAAA-AGA
1 ACAAAAAAAAAAACAAA
*
24542 A-AAAAAACAAAACAAA
1 ACAAAAAAAAAAACAAA
24558 ACAAAAAAAACAAAC-AA
1 ACAAAAAAAA-AAACAAA
24575 AC-AAAAAAAAAACAACA
1 ACAAAAAAAAAAACAA-A
24592 ACAAAAA
1 ACAAAAA
24599 GGGTCCGGAT
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
15 14 0.29
16 12 0.25
17 14 0.29
18 8 0.17
ACGTcount: A:0.85, C:0.14, G:0.01, T:0.00
Consensus pattern (17 bp):
ACAAAAAAAAAAACAAA
Found at i:24591 original size:14 final size:14
Alignment explanation
Indices: 24528--24598 Score: 62
Period size: 12 Copynumber: 5.3 Consensus size: 14
24518 CGTCCTTTAC
24528 AAAAAAA-AA-AAA
1 AAAAAAACAACAAA
*
24540 GAAAAAA-AAC-AA
1 AAAAAAACAACAAA
*
24552 AACAAAACAA-AAA
1 AAAAAAACAACAAA
*
24565 AAACAAACAAACAAA
1 AAAAAAAC-AACAAA
24580 AAAAAAACAACAACA
1 AAAAAAACAACAA-A
24595 AAAA
1 AAAA
24599 GGGTCCGGAT
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
12 15 0.32
13 10 0.21
14 7 0.15
15 15 0.32
ACGTcount: A:0.86, C:0.13, G:0.01, T:0.00
Consensus pattern (14 bp):
AAAAAAACAACAAA
Found at i:24598 original size:1 final size:1
Alignment explanation
Indices: 24528--24586 Score: 55
Period size: 1 Copynumber: 59.0 Consensus size: 1
24518 CGTCCTTTAC
* * * * * * *
24528 AAAAAAAAAAAAGAAAAAAAACAAAACAAAACAAAAAAAACAAACAAACAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
24587 CAACAACAAA
Statistics
Matches: 44, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.88, C:0.10, G:0.02, T:0.00
Consensus pattern (1 bp):
A
Found at i:26060 original size:34 final size:34
Alignment explanation
Indices: 26017--26246 Score: 312
Period size: 34 Copynumber: 7.0 Consensus size: 34
26007 CATTCCTCAC
*
26017 CCTTTTAAGCCCACAACTCCGTAGCACTCTTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
* *
26051 CCTTTTAAGCCCATAACTCCATGGCACTCTTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
26085 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
* *
26119 CCTTTTAAGTCCACAACTTCGTGGCA--C-----
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
*
26146 CCTTTTAAGTCCACAACTCCGTGGCACTCTTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
* *
26180 TCTTTTAAGCCCACAACTCCGTGGCACTCTTCTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
* * *
26214 CCTTTTAAGTCCACAACTTCGTGGCACCCTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTT
26247 AAGTCCGCAA
Statistics
Matches: 173, Mismatches: 16, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
27 25 0.14
29 1 0.01
32 1 0.01
34 146 0.84
ACGTcount: A:0.19, C:0.34, G:0.11, T:0.36
Consensus pattern (34 bp):
CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
Found at i:26116 original size:27 final size:27
Alignment explanation
Indices: 26086--26300 Score: 126
Period size: 27 Copynumber: 7.2 Consensus size: 27
26076 ACTCTTTTTC
*
26086 CTTTTAAGCCCACAACTCCGTGGCACT
1 CTTTTAAGTCCACAACTCCGTGGCACT
* *
26113 CTTTTTCCTTTTAAGTCCACAACTTCGTGGCACC
1 C----T--T-TTAAGTCCACAACTCCGTGGCACT
26147 CTTTTAAGTCCACAACTCCGTGGCACTCTTTTTT
1 CTTTTAAGTCCACAACTCCGTGGCA--C-----T
*
26181 CTTTTAAGCCCACAACTCCGTGGCACTCTTCTT
1 CTTTTAAGTCCACAACTCCGTGGCA-----C-T
* *
26214 CCTTTTAAGTCCACAACTTCGTGGCACC
1 -CTTTTAAGTCCACAACTCCGTGGCACT
* * *
26242 CTTTTAAGTCCGCAACTCCATGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACT
* *
26269 CTTTTAAG-CCTACAACTCCATAGCACT
1 CTTTTAAGTCC-ACAACTCCGTGGCACT
26296 CTTTT
1 CTTTT
26301 TCCTTTTAAG
Statistics
Matches: 153, Mismatches: 16, Indels: 38
0.74 0.08 0.18
Matches are distributed among these distances:
26 2 0.01
27 72 0.47
28 1 0.01
29 2 0.01
30 1 0.01
31 1 0.01
33 3 0.02
34 69 0.45
37 2 0.01
ACGTcount: A:0.20, C:0.34, G:0.12, T:0.33
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCGTGGCACT
Found at i:26161 original size:61 final size:61
Alignment explanation
Indices: 26085--26334 Score: 255
Period size: 61 Copynumber: 4.1 Consensus size: 61
26075 CACTCTTTTT
* * *
26085 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTTCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCAC
*
26146 CCTTTTAAGTCCACAACTCCGTGGCACTCTTTTTTCTTTTAAGCCCACAACTCCGTGGCACTCTT
1 CCTTTTAAGTCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCA-----
26211 C
61 C
* * * *
26212 TTCCTTTTAAGTCCACAACTTCGTGGCA--C-----CCTTTTAAGTCCGCAACTCCATGGCAC
1 --CCTTTTAAGTCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCAC
* * * **
26268 CCTTTTAAG-CCTACAACTCCATAGCACTCTTTTTCCTTTTAAGCCCACAAGTTAGTGGCAC
1 CCTTTTAAGTCC-ACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCAC
26329 CCTTTT
1 CCTTTT
26335 CAAAAGCCCA
Statistics
Matches: 156, Mismatches: 18, Indels: 30
0.76 0.09 0.15
Matches are distributed among these distances:
53 2 0.01
54 20 0.13
56 2 0.01
61 105 0.67
66 2 0.01
68 25 0.16
ACGTcount: A:0.20, C:0.34, G:0.12, T:0.34
Consensus pattern (61 bp):
CCTTTTAAGTCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCAC
Found at i:26185 original size:95 final size:94
Alignment explanation
Indices: 26051--26334 Score: 409
Period size: 95 Copynumber: 3.1 Consensus size: 94
26041 CACTCTTTTT
* *
26051 CCTTTTAAGCCCATAACTCCATGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACTCTT
1 CCTTTTAAGTCCACAACTCCATGGCACTCTTTTT-CTTTTAAGCCCACAACTCCGTGGCACTCTT
26116 TTTCCTTTTAAGTCCACAACTTCGTGGCAC
65 TTTCCTTTTAAGTCCACAACTTCGTGGCAC
*
26146 CCTTTTAAGTCCACAACTCCGTGGCACTCTTTTTTCTTTTAAGCCCACAACTCCGTGGCACTCTT
1 CCTTTTAAGTCCACAACTCCATGGCACTC-TTTTTCTTTTAAGCCCACAACTCCGTGGCACTCTT
*
26211 CTTCCTTTTAAGTCCACAACTTCGTGGCAC
65 TTTCCTTTTAAGTCCACAACTTCGTGGCAC
* * * *
26241 CCTTTTAAGTCCGCAACTCCATGGCAC-C-----CTTTTAAGCCTACAACTCCATAGCACTCTTT
1 CCTTTTAAGTCCACAACTCCATGGCACTCTTTTTCTTTTAAGCCCACAACTCCGTGGCACTCTTT
* * *
26300 TTCCTTTTAAGCCCACAAGTTAGTGGCAC
66 TTCCTTTTAAGTCCACAACTTCGTGGCAC
26329 CCTTTT
1 CCTTTT
26335 CAAAAGCCCA
Statistics
Matches: 175, Mismatches: 13, Indels: 9
0.89 0.07 0.05
Matches are distributed among these distances:
88 59 0.34
94 1 0.01
95 110 0.63
96 5 0.03
ACGTcount: A:0.20, C:0.33, G:0.12, T:0.34
Consensus pattern (94 bp):
CCTTTTAAGTCCACAACTCCATGGCACTCTTTTTCTTTTAAGCCCACAACTCCGTGGCACTCTTT
TTCCTTTTAAGTCCACAACTTCGTGGCAC
Found at i:26377 original size:28 final size:28
Alignment explanation
Indices: 26308--26402 Score: 136
Period size: 28 Copynumber: 3.3 Consensus size: 28
26298 TTTTCCTTTT
*
26308 AAGCCCACAAGTTAGTGGCACCCTTTTCAA
1 AAGCCCACAAGTTAGTGGCAACC--TTCAA
*
26338 AAGCCCATAAGTTAGTGGCAACCTTCAA
1 AAGCCCACAAGTTAGTGGCAACCTTCAA
* *
26366 AAGCCCACAAGTCAGCGGCAACCTTCAA
1 AAGCCCACAAGTTAGTGGCAACCTTCAA
26394 AAGCCCACA
1 AAGCCCACA
26403 TAAGTTGGTG
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
28 39 0.65
30 21 0.35
ACGTcount: A:0.35, C:0.32, G:0.17, T:0.17
Consensus pattern (28 bp):
AAGCCCACAAGTTAGTGGCAACCTTCAA
Found at i:26496 original size:49 final size:49
Alignment explanation
Indices: 26424--26887 Score: 329
Period size: 49 Copynumber: 9.7 Consensus size: 49
26414 CGTCTTCTTC
* *
26424 TAAGTCCAATATCGTTGGCCTTGAATTAGCATATTGGCACCTTCACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCACCTT
* * * * * * *
26473 TAAGTCCAATGTCGCCGACCTTGAATCAGCACATTGGTATCTTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCACCTT
* *
26522 TAAGTCCAATATCACTGGCCTTGAATTAGCATATTGG------CACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCACCTT
* * *
26565 TAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGG------CA----
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCACCTT
* **
26604 TAAG-CCTAATATCGCTAGCCTTGAATCAGCATATTGGCACCTT-GTCTT
1 TAAGTCC-AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCACCTT
* * * * *
26652 TAAGACCAATGTCCCTGGCCATGAATCAGCATATTGGCACCTTAACCATTTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCACC---TT
* * * *
26704 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCACCTT
* * * * *
26753 TAAGTCCAATATTGTTGGCCTTGAATCAGCATATTGGCATCTTTAACATT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CCTTCACCTT
* * * ** * **
26803 CCTAAGCCCAATGTCGATGGCCTTGTCTCAGCACATTGGCA--TTCTTCTT
1 --TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCACCTT
* * * * *
26852 CAAGTCTAATGTCGCTGGCCATGAATCAGCACATTG
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG
26888 TCATTCTTCG
Statistics
Matches: 332, Mismatches: 64, Indels: 40
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.01
39 30 0.09
43 39 0.12
47 29 0.09
48 36 0.11
49 114 0.34
50 6 0.02
52 76 0.23
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.31
Consensus pattern (49 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCACCTT
Found at i:26688 original size:87 final size:82
Alignment explanation
Indices: 26529--26690 Score: 207
Period size: 87 Copynumber: 1.9 Consensus size: 82
26519 CTTTAAGTCC
* * * * *
26529 AATATCACTGGCCTTGAATTAGCATATTGGCACCTTTAAGTCCAATGTCGCTGGCCTTGAATCAA
1 AATATCACTAGCCTTGAATCAGCATATTGGCACCTTTAAGACCAATGTCCCTGGCCATGAATCAA
26594 CACATTGGCATAAGCCT
66 CACATTGGCATAAGCCT
*
26611 AATATCGCTAGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCCCTGGCCATGA
1 AATATCACTAGCCTTGAATCAGCATATTGGCA-C----CTTTAAGACCAATGTCCCTGGCCATGA
* *
26676 ATCAGCATATTGGCA
61 ATCAACACATTGGCA
26691 CCTTAACCAT
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
82 29 0.43
83 1 0.01
87 37 0.55
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (82 bp):
AATATCACTAGCCTTGAATCAGCATATTGGCACCTTTAAGACCAATGTCCCTGGCCATGAATCAA
CACATTGGCATAAGCCT
Found at i:26729 original size:52 final size:49
Alignment explanation
Indices: 26615--26887 Score: 255
Period size: 52 Copynumber: 5.5 Consensus size: 49
26605 AAGCCTAATA
* *
26615 TCGCTAGCCTTGAATCAGCATATTGGCACCTT-GTCTTTAAGACCAATG
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATG
* * *
26663 TCCCTGGCCATGAATCAGCATATTGGCACCTTAACCATTTTTAAGACCAATG
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTT---CATCTTTAAGACCAATG
* * *
26715 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATA
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATG
* * * * * *
26764 TTGTTGGCCTTGAATCAGCATATTGGCATCTTTAACATTCCTAAGCCCAATG
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC-TT--TAAGACCAATG
* ** * * * * *
26816 TCGATGGCCTTGTCTCAGCACATTGGCA--TTCTTCTTCAAGTCTAATG
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATG
* *
26863 TCGCTGGCCATGAATCAGCACATTG
1 TCGCTGGCCTTGAATCAGCATATTG
26888 TCATTCTTCG
Statistics
Matches: 184, Mismatches: 34, Indels: 15
0.79 0.15 0.06
Matches are distributed among these distances:
47 29 0.16
48 29 0.16
49 46 0.25
50 5 0.03
52 75 0.41
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.32
Consensus pattern (49 bp):
TCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATG
Found at i:26789 original size:101 final size:101
Alignment explanation
Indices: 26615--26887 Score: 329
Period size: 101 Copynumber: 2.7 Consensus size: 101
26605 AAGCCTAATA
* * * * *
26615 TCGCTAGCCTTGAATCAGCATATTGGCACCTT-GTCTTTAAGACCAATGTCCCTGGCCATGAATC
1 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCATGAATC
**
26679 AGCATATTGGCA-CCTTAACCATTTTTAAGACCAATG
66 AGCATATTGGCATCCTTAA-CATTCCTAAGACCAATG
* * * *
26715 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATTGTTGGCCTTGAATC
1 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCATGAATC
* *
26780 AGCATATTGGCATCTTTAACATTCCTAAGCCCAATG
66 AGCATATTGGCATCCTTAACATTCCTAAGACCAATG
* ** * * *
26816 TCGATGGCCTTGTCTCAGCACATTGGCA--TTCTTCTTCAAGTCTAATGTCGCTGGCCATGAATC
1 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCATGAATC
*
26879 AGCACATTG
66 AGCATATTG
26888 TCATTCTTCG
Statistics
Matches: 147, Mismatches: 24, Indels: 5
0.84 0.14 0.03
Matches are distributed among these distances:
99 36 0.24
100 30 0.20
101 76 0.52
102 5 0.03
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.32
Consensus pattern (101 bp):
TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCATGAATC
AGCATATTGGCATCCTTAACATTCCTAAGACCAATG
Found at i:27644 original size:20 final size:20
Alignment explanation
Indices: 27604--27704 Score: 114
Period size: 20 Copynumber: 4.8 Consensus size: 20
27594 AAACAGTAAC
**
27604 TGTATCGATAC-ATAAGTGT
1 TGTATCGATACAATGTGTGT
27623 TGTATCGATACAATGTGTGT
1 TGTATCGATACAATGTGTGT
*
27643 TGTATCGATACAATGTATCGAT
1 TGTATCGATACAATGTGT-G-T
27665 ACAATGTATCGATACAATGTGTGT
1 ----TGTATCGATACAATGTGTGT
27689 TGTATCGATACAATGT
1 TGTATCGATACAATGT
27705 ATCGCTACAA
Statistics
Matches: 71, Mismatches: 4, Indels: 13
0.81 0.05 0.15
Matches are distributed among these distances:
19 11 0.15
20 39 0.55
21 1 0.01
22 1 0.01
24 1 0.01
25 1 0.01
26 17 0.24
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.37
Consensus pattern (20 bp):
TGTATCGATACAATGTGTGT
Found at i:27661 original size:13 final size:13
Alignment explanation
Indices: 27643--27684 Score: 84
Period size: 13 Copynumber: 3.2 Consensus size: 13
27633 CAATGTGTGT
27643 TGTATCGATACAA
1 TGTATCGATACAA
27656 TGTATCGATACAA
1 TGTATCGATACAA
27669 TGTATCGATACAA
1 TGTATCGATACAA
27682 TGT
1 TGT
27685 GTGTTGTATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:27690 original size:46 final size:46
Alignment explanation
Indices: 27623--27714 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
27613 ACATAAGTGT
27623 TGTATCGATACAATGTGTGTTGTATCGATACAATGTATCGATACAA
1 TGTATCGATACAATGTGTGTTGTATCGATACAATGTATCGATACAA
*
27669 TGTATCGATACAATGTGTGTTGTATCGATACAATGTATCGCTACAA
1 TGTATCGATACAATGTGTGTTGTATCGATACAATGTATCGATACAA
27715 AGCTACTGCC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.35
Consensus pattern (46 bp):
TGTATCGATACAATGTGTGTTGTATCGATACAATGTATCGATACAA
Found at i:41611 original size:18 final size:17
Alignment explanation
Indices: 41587--41627 Score: 64
Period size: 19 Copynumber: 2.3 Consensus size: 17
41577 CCGCAAAAAA
41587 AAAAAAAAAACAAACAAAC
1 AAAAAAAAAAC-AAC-AAC
41606 AAAAAAAAAACAACAAC
1 AAAAAAAAAACAACAAC
41623 AAAAA
1 AAAAA
41628 GGGTCCGGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 8 0.36
18 3 0.14
19 11 0.50
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAACAACAAC
Found at i:43090 original size:34 final size:34
Alignment explanation
Indices: 43047--43415 Score: 465
Period size: 34 Copynumber: 11.5 Consensus size: 34
43037 CATTCCTCAC
43047 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
*
43081 CCTTTTAAGCCCATAACTCCGTGGCACTCTTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
43115 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
*
43149 CCTTTTAAGCCCATAACTCCGTGGCACTCTTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
43183 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
* *
43217 CCTTTTAAGTCCACAACTTCGTGGCA--C-----
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
*
43244 CCTTTTAAGTCCACAACTCCGTGGCACTCTTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
* *
43278 CCTCTTAAGCCCACAACTCCGTGGCACTCTTCTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
* **
43312 CCTTTTAAGTCCACAACTTTGTGGCA--C-----
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
* * *
43339 CCTTTTAAGTCCGCAACTCCATGGCA--C-----
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
*
43366 CCTTTTGAGCCCACAACTCCGTGGCACTCTTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
43400 CCTTTTAAGCCCACAA
1 CCTTTTAAGCCCACAA
43416 GTTAGTGGCA
Statistics
Matches: 298, Mismatches: 23, Indels: 28
0.85 0.07 0.08
Matches are distributed among these distances:
27 70 0.23
29 2 0.01
32 2 0.01
34 224 0.75
ACGTcount: A:0.19, C:0.35, G:0.12, T:0.34
Consensus pattern (34 bp):
CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
Found at i:43259 original size:61 final size:61
Alignment explanation
Indices: 43183--43415 Score: 255
Period size: 61 Copynumber: 3.8 Consensus size: 61
43173 CACTCTTTTT
* *
43183 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTTCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCAC
* *
43244 CCTTTTAAGTCCACAACTCCGTGGCACTCTTTTTCCTCTTAAGCCCACAACTCCGTGGCACTCTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCA-----
43309 C
61 C
* ** * * *
43310 TTCCTTTTAAGTCCACAACTTTGTGGCA--C-----CCTTTTAAGTCCGCAACTCCATGGCAC
1 --CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCAC
*
43366 CCTTTTGAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAA
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAA
43416 GTTAGTGGCA
Statistics
Matches: 142, Mismatches: 16, Indels: 28
0.76 0.09 0.15
Matches are distributed among these distances:
54 22 0.15
56 2 0.01
61 92 0.65
66 2 0.01
68 24 0.17
ACGTcount: A:0.20, C:0.35, G:0.13, T:0.32
Consensus pattern (61 bp):
CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCAC
Found at i:43274 original size:95 final size:95
Alignment explanation
Indices: 43044--43427 Score: 521
Period size: 95 Copynumber: 4.0 Consensus size: 95
43034 AGACATTCCT
*
43044 CACCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCATAACTCCGTGGCACT
1 CACCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACT
*
43109 CTTTTTCCTTTTAAGCCCACAACTCCGTGG
66 CTTTTTCCTTTTAAGCCCACAACTTCGTGG
*
43139 CACTCTTTTTCCTTTTAAGCCCATAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCG
1 CA--C-----CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCG
*
43204 TGGCACTCTTTTTCCTTTTAAGTCCACAACTTCGTGG
59 TGGCACTCTTTTTCCTTTTAAGCCCACAACTTCGTGG
* *
43241 CACCCTTTTAAGTCCACAACTCCGTGGCACTCTTTTTCCTCTTAAGCCCACAACTCCGTGGCACT
1 CACCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACT
* * *
43306 CTTCTTCCTTTTAAGTCCACAACTTTGTGG
66 CTTTTTCCTTTTAAGCCCACAACTTCGTGG
* * * *
43336 CACCCTTTTAAGTCCGCAACTCCATGGCA--C-----CCTTTTGAGCCCACAACTCCGTGGCACT
1 CACCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACT
* *
43394 CTTTTTCCTTTTAAGCCCACAAGTTAGTGG
66 CTTTTTCCTTTTAAGCCCACAACTTCGTGG
43424 CACC
1 CACC
43428 TGTCGCAACG
Statistics
Matches: 265, Mismatches: 17, Indels: 21
0.87 0.06 0.07
Matches are distributed among these distances:
88 56 0.21
93 1 0.00
95 116 0.44
97 1 0.00
100 1 0.00
102 90 0.34
ACGTcount: A:0.19, C:0.35, G:0.13, T:0.33
Consensus pattern (95 bp):
CACCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACT
CTTTTTCCTTTTAAGCCCACAACTTCGTGG
Found at i:47299 original size:13 final size:13
Alignment explanation
Indices: 47281--47306 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47271 AACTTCCTAG
47281 ATGTATCGATACA
1 ATGTATCGATACA
47294 ATGTATCGATACA
1 ATGTATCGATACA
47307 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:47386 original size:19 final size:19
Alignment explanation
Indices: 47358--47406 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
47348 AGCGATACAT
*
47358 TGTATTGATACAAAACTTA
1 TGTATCGATACAAAACTTA
*
47377 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
47396 TGTATCGATAC
1 TGTATCGATAC
47407 GTTTACTGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:47492 original size:21 final size:22
Alignment explanation
Indices: 47466--47523 Score: 75
Period size: 21 Copynumber: 2.7 Consensus size: 22
47456 GTTGGGACCT
* *
47466 TGTATCGATACATTTGTA-GAA
1 TGTATCGATACATTTGCACAAA
*
47487 TGTATCGATACA-TTCCACAAA
1 TGTATCGATACATTTGCACAAA
47508 TGTATCGATACATTTG
1 TGTATCGATACATTTG
47524 GATAAAAAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
20 3 0.10
21 26 0.84
22 2 0.06
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.36
Consensus pattern (22 bp):
TGTATCGATACATTTGCACAAA
Found at i:47780 original size:28 final size:28
Alignment explanation
Indices: 47749--47816 Score: 136
Period size: 28 Copynumber: 2.4 Consensus size: 28
47739 CAGCACCCTT
47749 TTCAAAAGCCCATAAGTCAGTGGCAACC
1 TTCAAAAGCCCATAAGTCAGTGGCAACC
47777 TTCAAAAGCCCATAAGTCAGTGGCAACC
1 TTCAAAAGCCCATAAGTCAGTGGCAACC
47805 TTCAAAAGCCCA
1 TTCAAAAGCCCA
47817 CACAAGTTGG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.37, C:0.29, G:0.16, T:0.18
Consensus pattern (28 bp):
TTCAAAAGCCCATAAGTCAGTGGCAACC
Found at i:47894 original size:49 final size:49
Alignment explanation
Indices: 47835--48340 Score: 395
Period size: 49 Copynumber: 10.5 Consensus size: 49
47825 GGTGGCATTT
*
47835 TCTTCTAAGTCCAATATCGCTGGCCTTGAATTAGCATATTGGCACCTTCA
1 TCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
* * * * * *
47885 CCTTTAAGTCCAATGTCGCCGGCCTTGAATCAGCACATTGGTATCTTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
47934 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA----C-
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
* * *
47978 -CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGTACATTGG------CA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
*
48020 ----TAAG-CCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-G
1 TCTTTAAGTCC-AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
* * * **
48064 TCTTTAAGACCAATGTTGCTGGCAATGAATCAGCATATTGGCACCTTAACCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT---CA
* * * *
48116 TCTTTAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
* * * *
48165 TCTTTAAGTCCAATATTGTTGGCCTTGAATCAGCATATTGGCATCTTTAA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CCTTCA
* * * * ** * *
48215 TATTCCTAAGCCCAATGTCGATGGCCTTGTCTCAGCACATTGGCA--TTCT
1 TCTT--TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
* * * * * * *
48264 TCTTCAAGTCTAATGTCGCTGGCCATGAATCAGCACATTGTCATTCTTCGCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CCTT--CA
* * *
48316 TCTTTGAGCCCAATATCGCTAGCCT
1 TCTTTAAGTCCAATATCGCTGGCCT
48341 CATATTAGCT
Statistics
Matches: 367, Mismatches: 64, Indels: 48
0.77 0.13 0.10
Matches are distributed among these distances:
38 2 0.01
39 31 0.08
41 1 0.00
43 37 0.10
45 1 0.00
47 31 0.08
48 36 0.10
49 123 0.34
50 12 0.03
52 93 0.25
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.32
Consensus pattern (49 bp):
TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
Found at i:48046 original size:39 final size:40
Alignment explanation
Indices: 47938--48059 Score: 167
Period size: 43 Copynumber: 3.0 Consensus size: 40
47928 TCTTCATCTT
47938 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-C
* * *
47979 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGTACATTGGCA-
1 --TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
48020 TAAG-CCTAATATCGCTGGCCTTGAATCAGCATATTGGCAC
1 TAAGTCC-AATATCGCTGGCCTTGAATCAGCATATTGGCAC
48060 CTTGTCTTTA
Statistics
Matches: 71, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
38 2 0.03
39 33 0.46
43 36 0.51
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (40 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
Found at i:48145 original size:52 final size:49
Alignment explanation
Indices: 48033--48303 Score: 242
Period size: 52 Copynumber: 5.5 Consensus size: 49
48023 GCCTAATATC
*
48033 GCTGGCCTTGAATCAGCATATTGGCACCTT-GTCTTTAAGACCAATGTT
1 GCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTT
** *
48081 GCTGGCAATGAATCAGCATATTGGCACCTTAACCATCTTTAAGACCAATGTC
1 GCTGGCCTTGAATCAGCATATTGGCACCTT---CATCTTTAAGACCAATGTT
* * * *
48133 ACTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATT
1 GCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTT
* * * * * *
48182 GTTGGCCTTGAATCAGCATATTGGCATCTTTAATATTCCTAAGCCCAATGTC
1 GCTGGCCTTGAATCAGCATATTGGCA-CCTTCATCTT--TAAGACCAATGTT
* ** * * * * * *
48234 GATGGCCTTGTCTCAGCACATTGGCA--TTCTTCTTCAAGTCTAATGTC
1 GCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTT
* *
48281 GCTGGCCATGAATCAGCACATTG
1 GCTGGCCTTGAATCAGCATATTG
48304 TCATTCTTCG
Statistics
Matches: 182, Mismatches: 34, Indels: 15
0.79 0.15 0.06
Matches are distributed among these distances:
47 29 0.16
48 28 0.15
49 44 0.24
50 7 0.04
52 74 0.41
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (49 bp):
GCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTT
Found at i:48230 original size:101 final size:101
Alignment explanation
Indices: 48020--48303 Score: 310
Period size: 101 Copynumber: 2.8 Consensus size: 101
48010 TACATTGGCA
* * * * * *
48020 TAAGCCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-GTCTTTAAGACCAATGTTGCT
1 TAAGCCCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTTGCT
* *
48084 GGCAATGAATCAGCATATTGGCACCTTAACCATCTT
66 GGCCATGAATCAGCATATTGGCACCTTAACCATCTC
* * *
48120 TAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATTGTT
1 TAAGCCCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTTGCT
* * *
48185 GGCCTTGAATCAGCATATTGGCATCTTTAA-TAT-TCC
66 GGCCATGAATCAGCATATTGGCA-CCTTAACCATCT-C
** * * * *
48221 TAAGCCCAATGTCGA-TGGCCTTGTCTCAGCACATTGGCA--TTCTTCTTCAAGTCTAATGTCGC
1 TAAGCCCAATGTC-ACTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTTGC
*
48283 TGGCCATGAATCAGCACATTG
65 TGGCCATGAATCAGCATATTG
48304 TCATTCTTCG
Statistics
Matches: 155, Mismatches: 25, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
99 36 0.23
100 39 0.25
101 74 0.48
102 6 0.04
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.32
Consensus pattern (101 bp):
TAAGCCCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTTGCT
GGCCATGAATCAGCATATTGGCACCTTAACCATCTC
Found at i:49105 original size:20 final size:19
Alignment explanation
Indices: 49080--49147 Score: 76
Period size: 20 Copynumber: 3.8 Consensus size: 19
49070 CTGCCAAGGA
49080 AATGTATCGATACATTATTC
1 AATGTATCGATACA-TATTC
49100 AATGTATCGATAC--A-T-
1 AATGTATCGATACATATTC
49115 --TGTATCGATACATCATTC
1 AATGTATCGATACAT-ATTC
49133 AATGTATCGATACAT
1 AATGTATCGATACAT
49148 GCAGGCAAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
13 11 0.27
16 2 0.05
17 2 0.05
20 26 0.63
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (19 bp):
AATGTATCGATACATATTC
Found at i:49120 original size:13 final size:13
Alignment explanation
Indices: 49102--49127 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
49092 CATTATTCAA
49102 TGTATCGATACAT
1 TGTATCGATACAT
49115 TGTATCGATACAT
1 TGTATCGATACAT
49128 CATTCAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:49124 original size:33 final size:33
Alignment explanation
Indices: 49082--49147 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
49072 GCCAAGGAAA
*
49082 TGTATCGATACATTATTCAATGTATCGATACAT
1 TGTATCGATACATCATTCAATGTATCGATACAT
49115 TGTATCGATACATCATTCAATGTATCGATACAT
1 TGTATCGATACATCATTCAATGTATCGATACAT
49148 GCAGGCAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (33 bp):
TGTATCGATACATCATTCAATGTATCGATACAT
Found at i:60986 original size:21 final size:20
Alignment explanation
Indices: 60939--60992 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
60929 CATTTTAGGC
*
60939 ATGTATCGATACATTCACTT
1 ATGTATCGATATATTCACTT
*
60959 ATGTATCGATATATTTACTAT
1 ATGTATCGATATATTCACT-T
*
60980 TTGTATCGATATA
1 ATGTATCGATATA
60993 AATTGGAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.44
Consensus pattern (20 bp):
ATGTATCGATATATTCACTT
Found at i:61903 original size:52 final size:52
Alignment explanation
Indices: 61819--62216 Score: 290
Period size: 52 Copynumber: 7.7 Consensus size: 52
61809 ATGATAAGAG
* ** * * *
61819 TGAGAAGAGTGCCAACATGTTGATTCACGGCCAGCGACATTAGACTTGAAGA
1 TGAGAAGAATGCCAATGTGCTGATTCAAGGCCAGCGACATTAGACTTGAAAA
* * *
61871 TGAGAAGAATGCTAATGTGCTGATTCAGGGCCAGCAACATTAGACTT-AAAA
1 TGAGAAGAATGCCAATGTGCTGATTCAAGGCCAGCGACATTAGACTTGAAAA
* * * * **
61922 CTTAGAAGAATGCCAATGTGATGATTCAAGGCTAGCGATATTAGGTTTATGAATAA
1 -TGAGAAGAATGCCAATGTGCTGATTCAAGGCCAGCGACATTA-GACT-TGAA-AA
* * * * *
61978 T-A-AA-AATGCTAATATGCTGATTCAAGGCCAGTGATATTAGACTTGAAGA
1 TGAGAAGAATGCCAATGTGCTGATTCAAGGCCAGCGACATTAGACTTGAAAA
* * * * * * * * * *
62027 TGACAA-AGGTGCCAATATGCTAATTCAAGGCTAGTGATATTGGATTTAAAAA
1 TGAGAAGA-ATGCCAATGTGCTGATTCAAGGCCAGCGACATTAGACTTGAAAA
* * * * *
62079 AGA-AAAAAGTGCCAATGTGTTGATTCACA-GCCAACGACATTAGACTTGAATA
1 TGAGAAGAA-TGCCAATGTGCTGATTCA-AGGCCAGCGACATTAGACTTGAAAA
* * * *
62131 TGAGAAGAATGTCAATGTGCTGATTTAAGGCCAACGACATTGGACTT-AAAA
1 TGAGAAGAATGCCAATGTGCTGATTCAAGGCCAGCGACATTAGACTTGAAAA
* **
62182 CGTAGAAGAATGCCAATGCACTGATTCAAGGCCAG
1 TG-AGAAGAATGCCAATGTGCTGATTCAAGGCCAG
62217 TGCTGATTTA
Statistics
Matches: 273, Mismatches: 59, Indels: 28
0.76 0.16 0.08
Matches are distributed among these distances:
49 2 0.01
50 5 0.02
51 15 0.05
52 235 0.86
53 9 0.03
54 2 0.01
55 3 0.01
56 2 0.01
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (52 bp):
TGAGAAGAATGCCAATGTGCTGATTCAAGGCCAGCGACATTAGACTTGAAAA
Found at i:62319 original size:52 final size:52
Alignment explanation
Indices: 62263--62843 Score: 452
Period size: 52 Copynumber: 10.8 Consensus size: 52
62253 AATAAAAATA
* * * *
62263 CCAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGACAAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAAATGTG
* * * *
62315 CCAATGTGCTGATCCAAGGCTAGCGACATTGGACTTGAAGATGAGAATAATGAAAAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGACATTGGACTT--A-A--AG----ATGAAAAATGTG
* ** * ** *
62376 CCGATATATTGATTCAAGGCCAGCGATATTGGGTTTAAAGATGACAAA-GTG
1 CCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAAATGTG
* * * * *
62427 CTAATGTGCTGATTCAAGGCCAGCGACATTGGACTTGAAGATGACAAATGCG
1 CCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAAATGTG
* * * *
62479 CCAATATGCTGATTCAAGGCCAGTGATATTGGACTT-AAGAAAGAAAAATATG
1 CCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAG-ATGAAAAATGTG
* * * *
62531 CCAATGTGTTAATTCAAGGCCAGTGACATTGGACTTAAAAATGATAAGGATAAGAA-GAATG
1 CCAATATGCTGATTCAAGGCCAGCGACATTGGACTT--AAA-GAT---GA-AA-AATG--TG
* * * * *
62592 CCAATGTGCTAATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAATGCG
1 CCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAAATGTG
* * * * * * *
62644 TCAATATGTTGATTCAA-GCCTAGCAATATTAGACTT-AAGAAAGAAAAAGGTG
1 CCAATATGCTGATTCAAGGCC-AGCGACATTGGACTTAAAG-ATGAAAAATGTG
* * **
62696 CCAATATACTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAATGCA
1 CCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAAATGTG
* * * *
62748 CCAATATGCTGATTCAAGGCCAGTGACATTGGACTTAAAAAAGAAAAATGTA
1 CCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAAATGTG
* * * * *
62800 CCAATATGTTAATTCAAGGCCAGTGACATTAGATTTAAAGATGA
1 CCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGA
62844 TAAGGATAAG
Statistics
Matches: 424, Mismatches: 78, Indels: 54
0.76 0.14 0.10
Matches are distributed among these distances:
51 51 0.12
52 264 0.62
53 8 0.02
54 3 0.01
55 6 0.01
56 3 0.01
57 2 0.00
58 6 0.01
59 6 0.01
60 2 0.00
61 73 0.17
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.24
Consensus pattern (52 bp):
CCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAAATGTG
Found at i:62625 original size:165 final size:165
Alignment explanation
Indices: 62429--62739 Score: 462
Period size: 165 Copynumber: 1.9 Consensus size: 165
62419 ACAAAGTGCT
* *
62429 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTGAAGATGACAAATGCGCCAATATGCTGATTC
1 AATGTGCTAATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAATGCGCCAATATGCTGATTC
** * * * ** *
62494 AAGGCC-AGTGATATTGGACTTAAGAAAGAAAAATATGCCAATGTGTTAATTCAAGGCCAGTGAC
66 AA-GCCTAGCAATATTAGACTTAAGAAAGAAAAAGATGCCAATATACTAATTCAAGGCCAGCGAC
62558 ATTGGACTTAAAAATGATAAGGATAAGAAGAATGCC
130 ATTGGACTTAAAAATGATAAGGATAAGAAGAATGCC
* * *
62594 AATGTGCTAATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAATGCGTCAATATGTTGATTC
1 AATGTGCTAATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAATGCGCCAATATGCTGATTC
* *
62659 AAGCCTAGCAATATTAGACTTAAGAAAGAAAAAGGTGCCAATATACTGATTCAAGGCCAGCGACA
66 AAGCCTAGCAATATTAGACTTAAGAAAGAAAAAGATGCCAATATACTAATTCAAGGCCAGCGACA
*
62724 TTGGACTTAAAGATGA
131 TTGGACTTAAAAATGA
62740 CAAATGCACC
Statistics
Matches: 129, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
164 3 0.02
165 126 0.98
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.24
Consensus pattern (165 bp):
AATGTGCTAATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAATGCGCCAATATGCTGATTC
AAGCCTAGCAATATTAGACTTAAGAAAGAAAAAGATGCCAATATACTAATTCAAGGCCAGCGACA
TTGGACTTAAAAATGATAAGGATAAGAAGAATGCC
Found at i:62998 original size:33 final size:33
Alignment explanation
Indices: 62956--63611 Score: 454
Period size: 32 Copynumber: 20.0 Consensus size: 33
62946 CATCGGGCTT
*
62956 AGAAGGGTTGCCACCAACTTGTGTAGGCTTTAA
1 AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAA
* *
62989 AGAAGGGTTGCCATCGACTTGTGTGGGCTTTAA
1 AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAA
* *
63022 A-AGAGGGTTGCCACCGACTTGTGTGGGTTTTAA
1 AGA-AGGGTTGCCACCAACTTGTGTGGGCTTTAA
* * * *
63055 A-AAAGGTTGGCACCAGCTTGTGTAGGCTTTAGA
1 AGAAGGGTTGCCACCAACTTGTGTGGGCTTTA-A
* *
63088 AGAGGGGTTGCCACCAACTTGTGTGGGTTTTAGA
1 AGAAGGGTTGCCACCAACTTGTGTGGGCTTTA-A
** * *
63122 GAGGGGTTGCCACCGACTTGCCACCAACTTATGTGGGTTTTAA
1 -AGAAG--G-----G--TTGCCACCAACTTGTGTGGGCTTTAA
* * * *
63165 AGAGGGGTTGCCACCGACTTGTATGGGCTTTAG
1 AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAA
* ** * * *
63198 AGAAAGGTTGCCACTGATTTTTGTGGGCTTT-G
1 AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAA
* *
63230 AGAAGGGTTGCCACCAGCTTATGTGGGCTTTACA
1 AGAAGGGTTGCCACCAACTTGTGTGGGCTTTA-A
** * * *
63264 A-AA-GGTTGCCACTGATTTGTGTAGGCTTT-G
1 AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAA
* * *
63294 AGAAGGGTTGTCACTAACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAA
* * * *
63327 AGGA-GG-TGCCACCATCTTGTGTGAGCTTT-G
1 AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAA
* *
63357 AGAAGGGTTACCACCAACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAA
*
63390 AGGA-GG-TGCCA-CAGACTTGTGTGGGCTTT-A
1 AGAAGGGTTGCCACCA-ACTTGTGTGGGCTTTAA
* *
63420 AGAAGGGTTGCCACTAACTTGTGTGGGTTTTTAA
1 AGAAGGGTTGCCACCAACTTGTGTGGG-CTTTAA
* * * *
63454 A-AAAGGTTACCACCAACTTATAT-GGCTTT--
1 AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAA
* * * * **
63483 AGAAGGGGTGCCACCGACTTATATGGGCTTTGG
1 AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAA
* *
63516 A-AAGGGTTGCCACCGACTTGTATGGGCTTT--
1 AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAA
* * *
63546 AGAAGGGGTGCCACCGACTTGTGTGGGCTTTGA
1 AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAA
* * **
63579 A-ATGGGTTACCACTGACTTGTGTGGGCTTTAA
1 AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAA
63611 A
1 A
63612 AGAAAAAGAT
Statistics
Matches: 506, Mismatches: 83, Indels: 69
0.77 0.13 0.10
Matches are distributed among these distances:
29 1 0.00
30 29 0.06
31 80 0.16
32 188 0.37
33 142 0.28
34 29 0.06
35 5 0.01
37 1 0.00
40 1 0.00
42 5 0.01
43 1 0.00
44 24 0.05
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.30
Consensus pattern (33 bp):
AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAA
Found at i:63158 original size:44 final size:44
Alignment explanation
Indices: 63095--63185 Score: 164
Period size: 44 Copynumber: 2.1 Consensus size: 44
63085 AGAAGAGGGG
* *
63095 TTGCCACCAACTTGTGTGGGTTTTAGAGAGGGGTTGCCACCGAC
1 TTGCCACCAACTTATGTGGGTTTTAAAGAGGGGTTGCCACCGAC
63139 TTGCCACCAACTTATGTGGGTTTTAAAGAGGGGTTGCCACCGAC
1 TTGCCACCAACTTATGTGGGTTTTAAAGAGGGGTTGCCACCGAC
63183 TTG
1 TTG
63186 TATGGGCTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.29
Consensus pattern (44 bp):
TTGCCACCAACTTATGTGGGTTTTAAAGAGGGGTTGCCACCGAC
Found at i:63493 original size:158 final size:157
Alignment explanation
Indices: 63142--63612 Score: 411
Period size: 158 Copynumber: 3.0 Consensus size: 157
63132 CACCGACTTG
* * * *
63142 CCACCAACTTATGTGGGTTTTAAAGAGG-GGTTGCCACCGACTTGTATGGGCTTTAGAGAAA-GG
1 CCACCAACTTATAT-GGCTTT--AGAGGAGG-TGCCACCGACTTATATGAGCTTT-G-GAAAGGG
* ** * * * * * *
63205 TTGCCACTGATTTTTGTGGGCTTTGAGAAGGGTTGCCACCAG-CTTATGTGGGCTTT-ACAAAAG
60 TTACCACCAACTTGTATGGGCTTT-AGAAGGGGTGCCA-CAGACTTGTGTGGGCTTTGA-AAAGG
* * * * * * * *
63268 GTTGCCACTGATTTGTGTAGGCTTTGAGAAGGGTTG
122 GTTACCACTAACTTGTGTGGGCTTTAAAAAAGGTTA
* * * * * *
63304 TCACTAACTTGTGTGGGCTTTAGAGGAGGTGCCACC-ATCTTGTGTGAGCTTT-GAGAAGGGTTA
1 CCACCAACTTATAT-GGCTTTAGAGGAGGTGCCACCGA-CTTATATGAGCTTTGGA-AAGGGTTA
* *
63367 CCACCAACTTGTGTGGGCTTTAG-AGGAGGTGCCACAGACTTGTGTGGGCTTT-AAGAAGGGTTG
63 CCACCAACTTGTATGGGCTTTAGAAGG-GGTGCCACAGACTTGTGTGGGCTTTGAA-AAGGGTTA
*
63430 CCACTAACTTGTGTGGGTTTTTAAAAAAGGTTA
126 CCACTAACTTGTGTGGG-CTTTAAAAAAGGTTA
* *
63463 CCACCAACTTATATGGCTTTAGAAGG-GGTGCCACCGACTTATATGGGCTTTGGAAAGGGTTGCC
1 CCACCAACTTATATGGCTTTAG-AGGAGGTGCCACCGACTTATATGAGCTTTGGAAAGGGTTACC
* * *
63527 ACCGACTTGTATGGGCTTTAGAAGGGGTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTACCAC
65 ACCAACTTGTATGGGCTTTAGAAGGGGTGCCACAGACTTGTGTGGGCTTTGAAAAGGGTTACCAC
*
63592 TGACTTGTGTGGGCTTTAAAA
130 TAACTTGTGTGGGCTTTAAAA
63613 GAAAAAGATG
Statistics
Matches: 259, Mismatches: 37, Indels: 31
0.79 0.11 0.09
Matches are distributed among these distances:
157 16 0.06
158 147 0.57
159 53 0.20
160 24 0.09
161 2 0.01
162 17 0.07
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.30
Consensus pattern (157 bp):
CCACCAACTTATATGGCTTTAGAGGAGGTGCCACCGACTTATATGAGCTTTGGAAAGGGTTACCA
CCAACTTGTATGGGCTTTAGAAGGGGTGCCACAGACTTGTGTGGGCTTTGAAAAGGGTTACCACT
AACTTGTGTGGGCTTTAAAAAAGGTTA
Found at i:63577 original size:63 final size:63
Alignment explanation
Indices: 63139--63608 Score: 394
Period size: 63 Copynumber: 7.4 Consensus size: 63
63129 TGCCACCGAC
* * * * * * * *
63139 TTGCCACCAACTTATGTGGGTTTTAAAGAGGGGTTGCCACCGACTTGTATGGGCTTTAGAGAAAG
1 TTGCCACCGACTTGTGTGGGCTTT-GAGAAGGGTTGCCACCAACTTGTGTGGGCTTT-GA-AAGG
63204 G
63 G
* * * * * * *
63205 TTGCCACTGATTTTTGTGGGCTTTGAGAAGGGTTGCCACCAGCTTATGTGGGCTTTACAAAAGG
1 TTGCCACCGACTTGTGTGGGCTTTGAGAAGGGTTGCCACCAACTTGTGTGGGCTTT-GAAAGGG
* * * * * *
63269 TTGCCACTGATTTGTGTAGGCTTTGAGAAGGGTTGTCACTAACTTGTGTGGGCTTT-AGAGGAG
1 TTGCCACCGACTTGTGTGGGCTTTGAGAAGGGTTGCCACCAACTTGTGTGGGCTTTGAAAGG-G
* * * *
63332 GTGCCACC-ATCTTGTGTGAGCTTTGAGAAGGGTTACCACCAACTTGTGTGGGCTTT-AGAGGAG
1 TTGCCACCGA-CTTGTGTGGGCTTTGAGAAGGGTTGCCACCAACTTGTGTGGGCTTTGAAAGG-G
* * * * * * *
63395 GTGCCACAGACTTGTGTGGGCTTTAAGAAGGGTTGCCACTAACTTGTGTGGGTTTTTAAAAAAGG
1 TTGCCACCGACTTGTGTGGGCTTTGAGAAGGGTTGCCACCAACTTGTGTGGG-CTTT-GAAAGGG
* * * * * * * *
63460 TTACCACCAACTTATAT-GGCTTT-AGAAGGGGTGCCACCGACTTATATGGGCTTTGGAAAGGG
1 TTGCCACCGACTTGTGTGGGCTTTGAGAAGGGTTGCCACCAACTTGTGTGGGCTTT-GAAAGGG
* * *
63522 TTGCCACCGACTTGTATGGGCTTT-AGAAGGGGTGCCACCGACTTGTGTGGGCTTTGAAATGGG
1 TTGCCACCGACTTGTGTGGGCTTTGAGAAGGGTTGCCACCAACTTGTGTGGGCTTTGAAA-GGG
* *
63585 TTACCACTGACTTGTGTGGGCTTT
1 TTGCCACCGACTTGTGTGGGCTTT
63609 AAAAGAAAAA
Statistics
Matches: 337, Mismatches: 59, Indels: 19
0.81 0.14 0.05
Matches are distributed among these distances:
62 30 0.09
63 180 0.53
64 65 0.19
65 40 0.12
66 22 0.07
ACGTcount: A:0.21, C:0.17, G:0.31, T:0.31
Consensus pattern (63 bp):
TTGCCACCGACTTGTGTGGGCTTTGAGAAGGGTTGCCACCAACTTGTGTGGGCTTTGAAAGGG
Found at i:63693 original size:33 final size:33
Alignment explanation
Indices: 63655--63747 Score: 118
Period size: 33 Copynumber: 2.8 Consensus size: 33
63645 TTTTTTTTAA
**
63655 AAAAAAGTGCCATGGAGTTGTGGACTTAAAAGG
1 AAAAAAGTGCCATGGAGTCATGGACTTAAAAGG
*
63688 AAAAAAGTGCTATGGAGTCATGGACTTAAAAGG
1 AAAAAAGTGCCATGGAGTCATGGACTTAAAAGG
*
63721 -AAAAAGATGCCACT-AAGTCATGGACTT
1 AAAAAAG-TGCCA-TGGAGTCATGGACTT
63748 TGAAAAGGTT
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
32 6 0.11
33 46 0.87
34 1 0.02
ACGTcount: A:0.41, C:0.12, G:0.26, T:0.22
Consensus pattern (33 bp):
AAAAAAGTGCCATGGAGTCATGGACTTAAAAGG
Found at i:65171 original size:7 final size:7
Alignment explanation
Indices: 65161--65198 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
65151 TTTTTTCCTT
65161 TTTTTTG
1 TTTTTTG
*
65168 TTTTTTA
1 TTTTTTG
*
65175 TCTTTTG
1 TTTTTTG
65182 TTTTTTG
1 TTTTTTG
65189 TTTTTT-
1 TTTTTTG
65195 TTTT
1 TTTT
65199 GTGCTTTTGA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
6 4 0.15
7 23 0.85
ACGTcount: A:0.03, C:0.03, G:0.08, T:0.87
Consensus pattern (7 bp):
TTTTTTG
Found at i:65192 original size:26 final size:25
Alignment explanation
Indices: 65159--65212 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
65149 ACTTTTTTCC
* *
65159 TTTTTTTTGTTTTTTAT-CTTTTGT
1 TTTTTTTTTTTTTTTATGCTTTTGA
*
65183 TTTTTGTTTTTTTTTTGTGCTTTTGA
1 TTTTT-TTTTTTTTTTATGCTTTTGA
65209 TTTT
1 TTTT
65213 GACTTTTTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 5 0.20
25 10 0.40
26 10 0.40
ACGTcount: A:0.04, C:0.04, G:0.11, T:0.81
Consensus pattern (25 bp):
TTTTTTTTTTTTTTTATGCTTTTGA
Found at i:69771 original size:35 final size:34
Alignment explanation
Indices: 69679--69790 Score: 120
Period size: 35 Copynumber: 3.2 Consensus size: 34
69669 AAATAGCAGC
* *
69679 AAAACAAAAGGCAGCAATGGCATCAGAATAATAAC
1 AAAACAAAAGGCAGCAATGGCATCA-AACAATAAG
*
69714 AAAACAAGCAA--CAGCGATGGCATCGAAACAATAAG
1 AAAACAA--AAGGCAGCAATGGCATC-AAACAATAAG
* *
69749 AAAACAAAAGGCAGCAACGGCATCAAAGCAACAAG
1 AAAACAAAAGGCAGCAATGGCATCAAA-CAATAAG
69784 AAAACAA
1 AAAACAA
69791 GAGGAAACAA
Statistics
Matches: 65, Mismatches: 6, Indels: 12
0.78 0.07 0.14
Matches are distributed among these distances:
33 2 0.03
34 3 0.05
35 57 0.88
36 1 0.02
37 2 0.03
ACGTcount: A:0.55, C:0.20, G:0.18, T:0.07
Consensus pattern (34 bp):
AAAACAAAAGGCAGCAATGGCATCAAACAATAAG
Found at i:70136 original size:20 final size:20
Alignment explanation
Indices: 70097--70136 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
70087 AAAAAAGAAG
*
70097 CAAAAGGAAAAAAAGTAAAA
1 CAAAAGGAAAAAAAGGAAAA
70117 CAAAA-GAAAAAAAGAGAAAA
1 CAAAAGGAAAAAAAG-GAAAA
70137 AAGAAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.78, C:0.05, G:0.15, T:0.03
Consensus pattern (20 bp):
CAAAAGGAAAAAAAGGAAAA
Found at i:70139 original size:9 final size:8
Alignment explanation
Indices: 70087--70144 Score: 53
Period size: 8 Copynumber: 6.5 Consensus size: 8
70077 GAGTTTAGCT
70087 AAAAAAGA
1 AAAAAAGA
*
70095 AGCAAAAGGA
1 A--AAAAAGA
70105 AAAAAAGTAA
1 AAAAAAG--A
70115 AACAAAAGA
1 AA-AAAAGA
70124 AAAAAAGA
1 AAAAAAGA
70132 GAAAAAAGA
1 -AAAAAAGA
70141 AAAA
1 AAAA
70145 TTAGGAAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
8 16 0.38
9 11 0.26
10 10 0.24
11 5 0.12
ACGTcount: A:0.79, C:0.03, G:0.16, T:0.02
Consensus pattern (8 bp):
AAAAAAGA
Found at i:70153 original size:17 final size:17
Alignment explanation
Indices: 70087--70144 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 17
70077 GAGTTTAGCT
* *
70087 AAAAAAGAAGCAAAAGGA
1 AAAAAAG-AGAAAAAAGA
*
70105 AAAAAAGTAAAACAAAAGA
1 AAAAAAG-AGAA-AAAAGA
70124 AAAAAAGAGAAAAAAGA
1 AAAAAAGAGAAAAAAGA
70141 AAAA
1 AAAA
70145 TTAGGAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
17 10 0.29
18 12 0.35
19 12 0.35
ACGTcount: A:0.79, C:0.03, G:0.16, T:0.02
Consensus pattern (17 bp):
AAAAAAGAGAAAAAAGA
Found at i:76848 original size:34 final size:35
Alignment explanation
Indices: 76810--76876 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
76800 CCTTACAACA
76810 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
76844 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
76877 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:77373 original size:13 final size:13
Alignment explanation
Indices: 77355--77380 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
77345 CTATTTATGA
77355 TGTATCGATACAC
1 TGTATCGATACAC
77368 TGTATCGATACAC
1 TGTATCGATACAC
77381 ACAAATATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:77511 original size:22 final size:22
Alignment explanation
Indices: 77457--77514 Score: 100
Period size: 21 Copynumber: 2.7 Consensus size: 22
77447 GTGAACAGTG
77457 TGAACAGTGATGAATCGATACA
1 TGAACAGTGATGAATCGATACA
*
77479 TGAA-AGTGATGTATCGATACA
1 TGAACAGTGATGAATCGATACA
77500 TGAACAGTGATGAAT
1 TGAACAGTGATGAAT
77515 AGTGATGAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
21 20 0.61
22 13 0.39
ACGTcount: A:0.40, C:0.10, G:0.24, T:0.26
Consensus pattern (22 bp):
TGAACAGTGATGAATCGATACA
Found at i:77518 original size:10 final size:10
Alignment explanation
Indices: 77499--77529 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
77489 GTATCGATAC
77499 ATGAACAGTG
1 ATGAACAGTG
*
77509 ATGAATAGTG
1 ATGAACAGTG
77519 ATGAACAGTG
1 ATGAACAGTG
77529 A
1 A
77530 AAATGAGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.29, T:0.23
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:77617 original size:53 final size:53
Alignment explanation
Indices: 77553--77689 Score: 247
Period size: 53 Copynumber: 2.6 Consensus size: 53
77543 CTACTTCCAA
77553 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* *
77606 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
77659 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
77690 TATGCAATTT
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
53 67 0.84
54 13 0.16
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:77722 original size:20 final size:20
Alignment explanation
Indices: 77659--77729 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
77649 GCCAATGTCC
**
77659 TGTATCGATACATATTTGTG
1 TGTATCGATACATATTAATG
* *
77679 TGTATCGATAC-TATGCAATT
1 TGTATCGATACATAT-TAATG
77699 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATT-AATG
77719 TGTATCGATAC
1 TGTATCGATAC
77730 TTTTCAGGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 38 0.90
21 1 0.02
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATATTAATG
Found at i:77795 original size:21 final size:21
Alignment explanation
Indices: 77769--77809 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
77759 GTCAACCTTG
77769 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
77790 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
77810 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:81691 original size:13 final size:13
Alignment explanation
Indices: 81669--81726 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 13
81659 GGTAGTAGCT
*
81669 TTGTAGCGATACA
1 TTGTATCGATACA
81682 TTGTATCGATACAACA
1 TTGTATCGAT---ACA
81698 CTTATGTATCGATACA
1 --T-TGTATCGATACA
81714 TTGTATCGATACA
1 TTGTATCGATACA
81727 ACACTTATGT
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:81707 original size:19 final size:19
Alignment explanation
Indices: 81683--81745 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
81673 AGCGATACAT
81683 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
81702 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
81715 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
81734 TGTATCGATACA
1 TGTATCGATACA
81746 GTTACTATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 9 0.24
14 1 0.03
16 6 0.16
18 1 0.03
19 21 0.55
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:81716 original size:32 final size:32
Alignment explanation
Indices: 81670--81745 Score: 143
Period size: 32 Copynumber: 2.4 Consensus size: 32
81660 GTAGTAGCTT
*
81670 TGTAGCGATACATTGTATCGATACAACACTTA
1 TGTATCGATACATTGTATCGATACAACACTTA
81702 TGTATCGATACATTGTATCGATACAACACTTA
1 TGTATCGATACATTGTATCGATACAACACTTA
81734 TGTATCGATACA
1 TGTATCGATACA
81746 GTTACTATTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.33
Consensus pattern (32 bp):
TGTATCGATACATTGTATCGATACAACACTTA
Found at i:83355 original size:21 final size:20
Alignment explanation
Indices: 83331--83383 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
83321 CACATGATCC
83331 TGTATCGATACATTTCAAGCA
1 TGTATCGATACA-TTCAAGCA
***
83352 TGTATCGATACATTCACTTA
1 TGTATCGATACATTCAAGCA
83372 TGTATCGATACA
1 TGTATCGATACA
83384 GTGCCTTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATTCAAGCA
Found at i:83374 original size:20 final size:21
Alignment explanation
Indices: 83331--83404 Score: 80
Period size: 21 Copynumber: 3.6 Consensus size: 21
83321 CACATGATCC
* ***
83331 TGTATCGATACATTTCAAGCA
1 TGTATCGATACAGTTCACTTA
83352 TGTATCGATACA-TTCACTTA
1 TGTATCGATACAGTTCACTTA
*
83372 TGTATCGATACAGTGC-CTTA
1 TGTATCGATACAGTTCACTTA
83392 TTGTATCGATACA
1 -TGTATCGATACA
83405 AATTGTTGAA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
20 21 0.45
21 26 0.55
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (21 bp):
TGTATCGATACAGTTCACTTA
Found at i:83398 original size:21 final size:20
Alignment explanation
Indices: 83351--83404 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 20
83341 CATTTCAAGC
*
83351 ATGTATCGATACATTCACTT
1 ATGTATCGATACATGCACTT
83371 ATGTATCGATACAGTGC-CTT
1 ATGTATCGATACA-TGCACTT
83391 ATTGTATCGATACA
1 A-TGTATCGATACA
83405 AATTGTTGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
20 17 0.55
21 14 0.45
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATGCACTT
Found at i:97566 original size:51 final size:52
Alignment explanation
Indices: 97507--97645 Score: 165
Period size: 52 Copynumber: 2.7 Consensus size: 52
97497 TCTAGAAAGA
* * *
97507 AAATGTATCAATACATTTTTCATTTTATCGATACATTCT-AGTTTTTGACCC
1 AAATGTATCAATACATTATTCATTATATCGATACATTATGAGTTTTTGACCC
* * * *
97558 AAATGTATCGATACATTATTCATTATATCGATACATTATGGGTTTTTTACTC
1 AAATGTATCAATACATTATTCATTATATCGATACATTATGAGTTTTTGACCC
* * *
97610 AAATGTATCCATACATTCTTCA-AAGTATCGATACAT
1 AAATGTATCAATACATTATTCATTA-TATCGATACAT
97646 GCAGGCAATT
Statistics
Matches: 76, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
51 36 0.47
52 40 0.53
ACGTcount: A:0.32, C:0.17, G:0.09, T:0.42
Consensus pattern (52 bp):
AAATGTATCAATACATTATTCATTATATCGATACATTATGAGTTTTTGACCC
Found at i:100853 original size:164 final size:163
Alignment explanation
Indices: 100532--100853 Score: 350
Period size: 164 Copynumber: 2.0 Consensus size: 163
100522 ATCTTTGAAA
* * * *
100532 TCTCTTTATTTTTGAAATATGGAGTTTTCTACTCCGTAAATATTTTCAAGGGGTTTTTCTCATTT
1 TCTCTTTATTTTCGAAAAATCGAGTTTTCTACTCCATAAATATTTTCAAGGGGTTTTTCTCATTT
* * * * * ** * * *
100597 CAAAATTTTTAATATTATTTAAATATTATTATTTAATTATCTCTTGATCAGTTTTGAAAATTCAT
66 CAAAATTTTTAAAATTATCTAAATATTATCATTAAATTATATCTAAATCAATTTTCAAAATTAAT
* * *
100662 TTATTTTCATGAGTTTTTTATTTTTTTTAAAAT
131 TTATTTTCATGAGATTTTGAATTTTTTTAAAAT
* * *
100695 TCTC-TTATTTTCGAAAAATCGAGTTTTTTATTCCATAAATTTTTTCAAGGGAGATTTTTCTC-T
1 TCTCTTTATTTTCGAAAAATCGAGTTTTCTACTCCATAAATATTTTCAAGGG-G-TTTTTCTCAT
*
100758 TTCTAAAATTTTTAAAATTCATCT-AATATTATCATTGAAATTGTAT-TAAATCAATTTTACAAA
64 TTC-AAAATTTTTAAAATT-ATCTAAATATTATCATT-AAATTATATCTAAATCAATTTT-CAAA
100821 ATTTAATTTA-TTTCATGA-ATTTTGAATTTTTTT
125 A-TTAATTTATTTTCATGAGATTTTGAATTTTTTT
100854 GTATATGTTA
Statistics
Matches: 131, Mismatches: 21, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
162 40 0.31
163 9 0.07
164 54 0.41
165 21 0.16
166 7 0.05
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.52
Consensus pattern (163 bp):
TCTCTTTATTTTCGAAAAATCGAGTTTTCTACTCCATAAATATTTTCAAGGGGTTTTTCTCATTT
CAAAATTTTTAAAATTATCTAAATATTATCATTAAATTATATCTAAATCAATTTTCAAAATTAAT
TTATTTTCATGAGATTTTGAATTTTTTTAAAAT
Found at i:102789 original size:147 final size:148
Alignment explanation
Indices: 102597--102982 Score: 452
Period size: 147 Copynumber: 2.6 Consensus size: 148
102587 CTTTGCAACC
* * * ** * * *
102597 CTTTTTTAAATCCTATAGGATCATCAAGCATTTCTAAGTCAATGGTGGACGTTAGGGACCTTTTA
1 CTTTTTCAAGTCCTCTAGGATCA-CGGGCATTTCTAAGTCGATGGTAGACCTTAGGGACCTTTTA
* *** *
102662 GCATTTTTCTCGAAACCTAGTCCTATAAAACTA-TCGGGTCTGATTCTATGTCGAAGGTATAAAT
65 GCATTTTTCTCGAAACCTAGTCCTATAAAACTACT-AGGTCTGATTCTACACCAAAGGTATAAAT
102726 TAGGAGTAAGTTCGCTTTTA
129 TAGGAGTAAGTTCGCTTTTA
** * * *
102746 CTTTTTCAAGTGTTCTAGGATC-CGGGCATTTTTAAGTCGATGGTAGACCTTAGGCATCTTTTAG
1 CTTTTTCAAGTCCTCTAGGATCACGGGCATTTCTAAGTCGATGGTAGACCTTAGGGACCTTTTAG
* * * *
102810 CATTTTTCACAAAACCTAGTCCTATAAAACTACTAGGTCTGCTTCTACACCAAAGGTATGAATTA
66 CATTTTTCTCGAAACCTAGTCCTATAAAACTACTAGGTCTGATTCTACACCAAAGGTATAAATTA
** *
102875 GGAGTCGGTTTGCTTTTA
131 GGAGTAAGTTCGCTTTTA
* *
102893 CTTTTTCAAGTCCTCTAGGATCATCGGGTACTTCTAAGTCGATGGTAGACCTTAGGGACCTTTTA
1 CTTTTTCAAGTCCTCTAGGATCA-CGGGCATTTCTAAGTCGATGGTAGACCTTAGGGACCTTTTA
*
102958 GCTTTTTTTTTCTCGAAACCTAGTC
65 GC---ATTTTTCTCGAAACCTAGTC
102983 TTGTGAAACT
Statistics
Matches: 196, Mismatches: 35, Indels: 9
0.82 0.15 0.04
Matches are distributed among these distances:
147 123 0.63
148 1 0.01
149 55 0.28
152 17 0.09
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (148 bp):
CTTTTTCAAGTCCTCTAGGATCACGGGCATTTCTAAGTCGATGGTAGACCTTAGGGACCTTTTAG
CATTTTTCTCGAAACCTAGTCCTATAAAACTACTAGGTCTGATTCTACACCAAAGGTATAAATTA
GGAGTAAGTTCGCTTTTA
Found at i:104166 original size:13 final size:13
Alignment explanation
Indices: 104148--104174 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
104138 ACATTATGCT
104148 TTGTATCGATACA
1 TTGTATCGATACA
104161 TTGTATCGATACA
1 TTGTATCGATACA
104174 T
1 T
104175 GCTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:112334 original size:22 final size:22
Alignment explanation
Indices: 112309--112392 Score: 72
Period size: 22 Copynumber: 4.0 Consensus size: 22
112299 GAAACTAAAT
*
112309 AAATTTCTTTATTTAGAGGGAG
1 AAATTTCTTTATTAAGAGGGAG
*
112331 AAA-TTCTTTGATTAAGGGGGAG
1 AAATTTCTTT-ATTAAGAGGGAG
*
112353 -AATTT-TTT-TAAAGA-GGAG
1 AAATTTCTTTATTAAGAGGGAG
*
112371 AAA-TTCTTTAATTAAGGGGGAG
1 AAATTTCTTT-ATTAAGAGGGAG
112393 TAAAATGAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
18 6 0.12
19 9 0.18
21 15 0.31
22 19 0.39
ACGTcount: A:0.35, C:0.04, G:0.26, T:0.36
Consensus pattern (22 bp):
AAATTTCTTTATTAAGAGGGAG
Found at i:112338 original size:21 final size:21
Alignment explanation
Indices: 112313--112388 Score: 63
Period size: 21 Copynumber: 3.8 Consensus size: 21
112303 CTAAATAAAT
112313 TTCTTTATTTAGAGGGAGAAA
1 TTCTTTATTTAGAGGGAGAAA
* *
112334 TTCTTTGATTAAGGGGGAG-AA
1 TTCTTT-ATTTAGAGGGAGAAA
*
112355 -T-TTT-TTTAAAGAGGAGAAA
1 TTCTTTATTTAGAG-GGAGAAA
*
112374 TTCTTTAATTA-AGGG
1 TTCTTTATTTAGAGGG
112389 GGAGTAAAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 13
0.69 0.10 0.21
Matches are distributed among these distances:
17 4 0.09
18 4 0.09
19 5 0.12
20 4 0.09
21 13 0.30
22 13 0.30
ACGTcount: A:0.33, C:0.04, G:0.25, T:0.38
Consensus pattern (21 bp):
TTCTTTATTTAGAGGGAGAAA
Found at i:112957 original size:13 final size:13
Alignment explanation
Indices: 112939--112977 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
112929 ACATTATGCT
112939 TTGTATCGATACA
1 TTGTATCGATACA
* *
112952 TTGTATAGACA-A
1 TTGTATCGATACA
112964 TTGTATCGATACA
1 TTGTATCGATACA
112977 T
1 T
112978 GAGATTGGCA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:113046 original size:13 final size:13
Alignment explanation
Indices: 113028--113076 Score: 63
Period size: 13 Copynumber: 4.2 Consensus size: 13
113018 CATGGGACAA
113028 TGTATCGATACAT
1 TGTATCGATACAT
113041 TGTATCGATACA-
1 TGTATCGATACAT
113053 TG-AT-GA-A-AT
1 TGTATCGATACAT
113062 TGTATCGATACAT
1 TGTATCGATACAT
113075 TG
1 TG
113077 CTTGTAACGG
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
8 1 0.03
9 3 0.10
10 4 0.13
11 4 0.13
12 3 0.10
13 16 0.52
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:113049 original size:33 final size:34
Alignment explanation
Indices: 113007--113076 Score: 108
Period size: 33 Copynumber: 2.1 Consensus size: 34
112997 CTATCACTAT
113007 TTGTATCGATACATG-GGACAA-TGTATCGATACA
1 TTGTATCGATACATGAGGA-AATTGTATCGATACA
*
113040 TTGTATCGATACATGATGAAATTGTATCGATACA
1 TTGTATCGATACATGAGGAAATTGTATCGATACA
113074 TTG
1 TTG
113077 CTTGTAACGG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
33 17 0.50
34 17 0.50
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.34
Consensus pattern (34 bp):
TTGTATCGATACATGAGGAAATTGTATCGATACA
Found at i:117584 original size:5 final size:5
Alignment explanation
Indices: 117576--117736 Score: 100
Period size: 5 Copynumber: 32.6 Consensus size: 5
117566 TAATATAATA
* * * * *
117576 ATTAT ATTAT -TTTT ATTTT TTTAT ATTAT AATTAT ATTTAT AATAT TTTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT -ATTAT A-TTAT ATTAT ATTAT
* * * * * * *
117627 ATTTAA ATAAA ATT-T AATAT ATTA- A-TAT TTTAT ATTAT A-TAA ATTTT
1 A-TTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
** * *
117674 AAAAT A-TAT ATTAAT ATTAT ATCAC ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATT-AT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
117724 ATTAT ATTAT ATT
1 ATTAT ATTAT ATT
117737 TTTATTAATT
Statistics
Matches: 119, Mismatches: 27, Indels: 20
0.72 0.16 0.12
Matches are distributed among these distances:
3 2 0.02
4 12 0.10
5 86 0.72
6 19 0.16
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (5 bp):
ATTAT
Found at i:117628 original size:16 final size:16
Alignment explanation
Indices: 117607--117674 Score: 68
Period size: 16 Copynumber: 4.2 Consensus size: 16
117597 TATATTATAA
117607 TTATATTTATAATATT
1 TTATATTTATAATATT
*
117623 TTATATTTAAATAAAATT
1 TTATATTT--ATAATATT
* *
117641 TAATATAT-TAATATT
1 TTATATTTATAATATT
117656 TTATATTATATAA-ATT
1 TTATATT-TATAATATT
117672 TTA
1 TTA
117675 AAATATATAT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
15 11 0.26
16 15 0.36
17 3 0.07
18 13 0.31
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TTATATTTATAATATT
Found at i:117648 original size:36 final size:34
Alignment explanation
Indices: 117608--117691 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 34
117598 ATATTATAAT
117608 TATATTTATAATATTTTATATTTAAATAAAATTTAA
1 TATA-TTATAATATTTTATA-TTAAATAAAATTTAA
* *
117644 TATA-T-TAATATTTTATATTATATAAATTTTAA
1 TATATTATAATATTTTATATTAAATAAAATTTAA
*
117676 AATATATATTAATATT
1 TATAT-TA-TAATATT
117692 ATATCACATT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
32 16 0.39
33 12 0.29
34 2 0.05
36 11 0.27
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (34 bp):
TATATTATAATATTTTATATTAAATAAAATTTAA
Found at i:117658 original size:33 final size:32
Alignment explanation
Indices: 117616--117680 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
117606 ATTATATTTA
*
117616 TAATATTTTATATTTAAATAAAATTTAATATAT
1 TAATATTTTATA-TTAAATAAAATTTAAAATAT
* *
117649 TAATATTTTATATTATATAAATTTTAAAATAT
1 TAATATTTTATATTAAATAAAATTTAAAATAT
117681 ATATTAATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (32 bp):
TAATATTTTATATTAAATAAAATTTAAAATAT
Found at i:117665 original size:18 final size:18
Alignment explanation
Indices: 117607--117760 Score: 85
Period size: 15 Copynumber: 9.4 Consensus size: 18
117597 TATATTATAA
117607 TTATATT-TA-TAATATT
1 TTATATTATATTAATATT
* *
117623 TTATATT-TAAATAA-AAT
1 TTATATTAT-ATTAATATT
117640 TTA-A-TATATTAATATT
1 TTATATTATATTAATATT
117656 TTATATTATA-TAA-ATT
1 TTATATTATATTAATATT
*
117672 TTAAAATATATATTAATA--
1 TT-ATAT-TATATTAATATT
* *
117690 TTATATCACATT-ATA--
1 TTATATTATATTAATATT
117705 TTATATTATATT-ATA--
1 TTATATTATATTAATATT
117720 TTATATTATATT-ATATT
1 TTATATTATATTAATATT
*
117737 TT-TATTA-ATTTATATAT
1 TTATATTATATTAATAT-T
117754 TTATATT
1 TTATATT
117761 TAATATTGAA
Statistics
Matches: 114, Mismatches: 9, Indels: 28
0.75 0.06 0.19
Matches are distributed among these distances:
15 39 0.34
16 33 0.29
17 21 0.18
18 17 0.15
19 3 0.03
20 1 0.01
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.56
Consensus pattern (18 bp):
TTATATTATATTAATATT
Found at i:117681 original size:16 final size:16
Alignment explanation
Indices: 117633--117683 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
117623 TTATATTTAA
* *
117633 ATAAAATTTAATATAT
1 ATAAATTTTAAAATAT
* *
117649 -TAATATTTTATATTAT
1 ATAA-ATTTTAAAATAT
117665 ATAAATTTTAAAATAT
1 ATAAATTTTAAAATAT
117681 ATA
1 ATA
117684 TTAATATTAT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
15 3 0.11
16 21 0.78
17 3 0.11
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
ATAAATTTTAAAATAT
Found at i:118077 original size:14 final size:14
Alignment explanation
Indices: 118040--118094 Score: 60
Period size: 14 Copynumber: 4.0 Consensus size: 14
118030 GAATATTAAA
* *
118040 AAAATTAATTTTGT
1 AAAATAAATTTTTT
118054 -AAATAAATTTTTT
1 AAAATAAATTTTTT
*
118067 ATAAA-ATATTTTTT
1 A-AAATAAATTTTTT
118081 AAAATAAATTTTTT
1 AAAATAAATTTTTT
118095 TAATGAATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
13 14 0.41
14 17 0.50
15 3 0.09
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (14 bp):
AAAATAAATTTTTT
Found at i:118113 original size:29 final size:28
Alignment explanation
Indices: 118054--118114 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 28
118044 TTAATTTTGT
* **
118054 AAATAAATTTTTTATAAAATATTTTTTA
1 AAATAAATTTTTTATAAAATATATTAAA
118082 AAATAAATTTTTT-TAATGAATATATTAAA
1 AAATAAATTTTTTATAA--AATATATTAAA
118111 AAAT
1 AAAT
118115 TATTATTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 3 0.11
28 13 0.46
29 12 0.43
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (28 bp):
AAATAAATTTTTTATAAAATATATTAAA
Found at i:118183 original size:41 final size:42
Alignment explanation
Indices: 118069--118184 Score: 141
Period size: 41 Copynumber: 2.8 Consensus size: 42
118059 AATTTTTTAT
* *
118069 AAAA-TATTTTTTAAAAT-A-AATTTTTTTAATGAATATATTAA
1 AAAATTATTATTTAAAATGACAA-TTTTTTAAT-TATATATTAA
*
118110 AAAATTATTATTTAAAATGATAATTTTTTAATTATA-ATTAA
1 AAAATTATTATTTAAAATGACAATTTTTTAATTATATATTAA
* *
118151 AAAATTATTATTTTATATGACAATTTTTTAATTA
1 AAAATTATTATTTAAAATGACAATTTTTTAATTA
118185 CATTTTTTTA
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
41 40 0.60
42 15 0.22
43 10 0.15
44 2 0.03
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.50
Consensus pattern (42 bp):
AAAATTATTATTTAAAATGACAATTTTTTAATTATATATTAA
Found at i:118263 original size:23 final size:23
Alignment explanation
Indices: 118237--118328 Score: 66
Period size: 22 Copynumber: 4.0 Consensus size: 23
118227 AATAATATGT
118237 TAATTATTATTTTATAATAAAAA
1 TAATTATTATTTTATAATAAAAA
* *
118260 TAA-TATTTAATTTAT-TTAAAAA
1 TAATTA-TTATTTTATAATAAAAA
* *
118282 -AATTA-TATTAATATATTAAAATA
1 TAATTATTATT-TTATAATAAAA-A
* *
118305 TTAATTATTCTTTTAAAATAAAAA
1 -TAATTATTATTTTATAATAAAAA
118329 ATTAAAAAAG
Statistics
Matches: 53, Mismatches: 8, Indels: 15
0.70 0.11 0.20
Matches are distributed among these distances:
20 3 0.06
21 5 0.09
22 16 0.30
23 12 0.23
24 1 0.02
25 13 0.25
26 3 0.06
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (23 bp):
TAATTATTATTTTATAATAAAAA
Found at i:118282 original size:24 final size:22
Alignment explanation
Indices: 118255--118302 Score: 60
Period size: 24 Copynumber: 2.1 Consensus size: 22
118245 ATTTTATAAT
*
118255 AAAAATAATATTTAATTTATTTAA
1 AAAAATAATA-TTAATATA-TTAA
*
118279 AAAAATTATATTAATATATTAA
1 AAAAATAATATTAATATATTAA
118301 AA
1 AA
118303 TATTAATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 6 0.27
23 7 0.32
24 9 0.41
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
AAAAATAATATTAATATATTAA
Found at i:118745 original size:11 final size:11
Alignment explanation
Indices: 118731--118779 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
118721 TTATTATTTT
118731 TTATTTATAAA
1 TTATTTATAAA
* *
118742 TTATTTTTAAT
1 TTATTTATAAA
118753 TTATTTATAAA
1 TTATTTATAAA
118764 TTA--TATAAA
1 TTATTTATAAA
118773 TTTATTT
1 -TTATTT
118780 TTATTAAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
9 6 0.19
10 3 0.10
11 21 0.68
12 1 0.03
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
TTATTTATAAA
Found at i:119026 original size:11 final size:11
Alignment explanation
Indices: 119010--119045 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
119000 TTATTACTTT
119010 TTATTTATAAA
1 TTATTTATAAA
* *
119021 TTATTTTTAAT
1 TTATTTATAAA
119032 TTATTTATAAA
1 TTATTTATAAA
119043 TTA
1 TTA
119046 ATTAAATATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
TTATTTATAAA
Found at i:119060 original size:22 final size:21
Alignment explanation
Indices: 119010--119077 Score: 66
Period size: 22 Copynumber: 3.1 Consensus size: 21
119000 TTATTACTTT
*
119010 TTATTTATAAATTATTTTTAAT-
1 TTATTTATAAATTA--ATTAATA
119032 TTATTTATAAATTAATTAAATA
1 TTATTTATAAATTAATT-AATA
* *
119054 TTTTTTAAAAAATTAATTAATA
1 TTATTT-ATAAATTAATTAATA
119076 TT
1 TT
119078 GTACATGTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
20 2 0.05
21 3 0.08
22 25 0.62
23 10 0.25
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TTATTTATAAATTAATTAATA
Found at i:119153 original size:19 final size:19
Alignment explanation
Indices: 119129--119179 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 19
119119 ATATTTTCTG
119129 AAAAATATATTTAA-AAATA
1 AAAAATATATTTAACAAA-A
119148 AAAAATATTATTATAACAAAA
1 AAAAATA-TATT-TAACAAAA
119169 AAAAAT-TATTT
1 AAAAATATATTT
119180 TTAAATTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
18 1 0.03
19 11 0.38
20 4 0.14
21 10 0.34
22 3 0.10
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAAATATATTTAACAAAA
Found at i:119280 original size:122 final size:122
Alignment explanation
Indices: 119149--119407 Score: 346
Period size: 121 Copynumber: 2.1 Consensus size: 122
119139 TTAAAAATAA
* *
119149 AAAATATTATTATAACAAAAAAAAATTATTTTTAAA-TTTTTATTTT-AAAAAACATAATAATTA
1 AAAATATTATAATAA-AAAAAAAAATTATTTTAAAATTTTTTATTTTGAAAAAACATAATAATTA
119212 ATATTTTAATTTGTTAATGTAAATTTTTAAACTTAATTAAATATTACTTTTT-ATTTTGTT
65 A-ATTTTAATTTGTTAATGT-AATTTTTAAACTTAATTAAATATTA-TTTTTAATTTTGTT
***** *
119272 AAAA-ATTATAATAAAAAACCTTTTTATTTTAAAATTTTTTATTTTGTAAAAACATAATAATTAA
1 AAAATATTATAATAAAAAAAAAAATTATTTTAAAATTTTTTATTTTGAAAAAACATAATAATTAA
**
119336 ATTTTAATTTGTTAATGTAATTTTTAAACTTAATTAAATATTATTTTTAATTTTACT
66 ATTTTAATTTGTTAATGTAATTTTTAAACTTAATTAAATATTATTTTTAATTTTGTT
* *
119393 AAAAAATAATAATAA
1 AAAATATTATAATAA
119408 TAAACCTTTT
Statistics
Matches: 121, Mismatches: 11, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
120 5 0.04
121 49 0.40
122 46 0.38
123 21 0.17
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.48
Consensus pattern (122 bp):
AAAATATTATAATAAAAAAAAAAATTATTTTAAAATTTTTTATTTTGAAAAAACATAATAATTAA
ATTTTAATTTGTTAATGTAATTTTTAAACTTAATTAAATATTATTTTTAATTTTGTT
Found at i:119373 original size:121 final size:122
Alignment explanation
Indices: 119174--119514 Score: 410
Period size: 122 Copynumber: 2.8 Consensus size: 122
119164 CAAAAAAAAA
* *
119174 TTATTTTTAAA-TTTTTATTTTAAAAAACATAATAATTAATATTTTAATTTGTTAATGTAAATTT
1 TTATTTTAAAATTTTTTATTTTTAAAAACATAATAATTAATATTTTAATTTGTTAATGT-AATTT
* * *
119238 TTAAACTTAATTAAATATTACTTTTTATTTT-GTTAAAAATTATAATAAAAAACC-TTT
65 TTAAACTTAATTAAATATTA-TTTTTATTTTACTAAAAAATAATAATAAAAAACCTTTT
119295 TTATTTTAAAATTTTTTATTTTGTAAAAACATAATAATTAA-ATTTTAATTTGTTAATGTAATTT
1 TTATTTTAAAATTTTTTATTTT-TAAAAACATAATAATTAATATTTTAATTTGTTAATGTAATTT
*
119359 TTAAACTTAATTAAATATTATTTTTAATTTTACTAAAAAATAATAATAATAAACCTTTT
65 TTAAACTTAATTAAATATTATTTTT-ATTTTACTAAAAAATAATAATAAAAAACCTTTT
* * * *
119418 TTATTTTTATTTAAAATTTTTTATTATT--AAA-A-AATAATTAATATTTTGATTTATTAATATA
1 TTA----T-TTTAAAATTTTTTATTTTTAAAAACATAATAATTAATATTTTAATTTGTTAATGTA
*
119479 TATTTCTTTAAAGTTAATTAAATATTATTTGTTATT
61 -A-TT-TTTAAACTTAATTAAATATTATTT-TTATT
119515 AAAAAATAAT
Statistics
Matches: 194, Mismatches: 11, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
120 5 0.03
121 40 0.21
122 47 0.24
123 32 0.16
124 17 0.09
125 4 0.02
126 2 0.01
127 28 0.14
128 19 0.10
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (122 bp):
TTATTTTAAAATTTTTTATTTTTAAAAACATAATAATTAATATTTTAATTTGTTAATGTAATTTT
TAAACTTAATTAAATATTATTTTTATTTTACTAAAAAATAATAATAAAAAACCTTTT
Found at i:120296 original size:91 final size:92
Alignment explanation
Indices: 120152--120342 Score: 309
Period size: 91 Copynumber: 2.1 Consensus size: 92
120142 TATGTCTTAA
120152 AATCAGATTCTTTTTTATGAAAAAAAAGAAAAGTTAATTGATTGTAAATGTCAGACTGCAAGGAT
1 AATCAGATTCTTTTTTATGAAAAAAAAGAAAAGTTAATTGATTGTAAATGTCAGACTGCAAGGAT
*
120217 TAGACTAATGCATGAATTATATCTGAG
66 TAGACTAATGCATAAATTATATCTGAG
* *
120244 AATCA-ATTCTTTTTTAT-AGAAAAAAAGATAAA-TTGATTGATTGTAAATGTCAGACTGTAAGG
1 AATCAGATTCTTTTTTATGA-AAAAAAAGA-AAAGTTAATTGATTGTAAATGTCAGACTGCAAGG
120306 ATTAGACTAATGCATAAATTATATCTGAG
64 ATTAGACTAATGCATAAATTATATCTGAG
120335 AATC-GATT
1 AATCAGATT
120343 GTAAATGTCA
Statistics
Matches: 93, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
90 1 0.01
91 84 0.90
92 8 0.09
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.34
Consensus pattern (92 bp):
AATCAGATTCTTTTTTATGAAAAAAAAGAAAAGTTAATTGATTGTAAATGTCAGACTGCAAGGAT
TAGACTAATGCATAAATTATATCTGAG
Found at i:120370 original size:57 final size:58
Alignment explanation
Indices: 120282--120400 Score: 204
Period size: 57 Copynumber: 2.1 Consensus size: 58
120272 TAAATTGATT
* *
120282 GATTGTAAATGTCAGACTGTAAGGATTAGACTAATGCATAAATTATATCTGAGAATC-
1 GATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATAAATTATATCTAAGAATCA
*
120339 GATTGTAAATGTCAGACTGCAATGATTAGACTAATGCATAAATTATATCTAAGAATCA
1 GATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATAAATTATATCTAAGAATCA
120397 GATT
1 GATT
120401 CTTTTTTATA
Statistics
Matches: 58, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
57 54 0.93
58 4 0.07
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (58 bp):
GATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATAAATTATATCTAAGAATCA
Found at i:120484 original size:149 final size:148
Alignment explanation
Indices: 120191--120488 Score: 490
Period size: 149 Copynumber: 2.0 Consensus size: 148
120181 AAAGTTAATT
* *
120191 GATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAATTCTTT
1 GATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATAAATTATATCTAAGAATCAATTCTTT
* * *
120256 TTTATAGAAAAAAAGATAAATTGATTGATTGTAAATGTCAGACTGTAAGGATTAGACTAATGCAT
66 TTTATAGAAAAAAAGATAAATTGACTGATTGTAAATGTCAGAATGCAAGGATTAGACTAATGCAT
*
120321 AAATTATATCTGAGAATC
131 AAATTATATATGAGAATC
*
120339 GATTGTAAATGTCAGACTGCAATGATTAGACTAATGCATAAATTATATCTAAGAATCAGATTCTT
1 GATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATAAATTATATCTAAGAATCA-ATTCTT
*
120404 TTTTATAGAAAAAAAGA-AAAGTTGACTGATTGTAAATGTTAGAATGCAAGGATTAGACTAATGC
65 TTTTATAGAAAAAAAGATAAA-TTGACTGATTGTAAATGTCAGAATGCAAGGATTAGACTAATGC
*
120468 ATTAATTATATATGAGAATC
129 ATAAATTATATATGAGAATC
120488 G
1 G
120489 GATTCTTTTT
Statistics
Matches: 139, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
148 58 0.42
149 81 0.58
ACGTcount: A:0.41, C:0.09, G:0.17, T:0.33
Consensus pattern (148 bp):
GATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATAAATTATATCTAAGAATCAATTCTTT
TTTATAGAAAAAAAGATAAATTGACTGATTGTAAATGTCAGAATGCAAGGATTAGACTAATGCAT
AAATTATATATGAGAATC
Found at i:120496 original size:92 final size:92
Alignment explanation
Indices: 120339--120689 Score: 421
Period size: 92 Copynumber: 3.9 Consensus size: 92
120329 TCTGAGAATC
* * * * *
120339 GATTGTAAATGTCAGACTGCAATGATTAGACTAATGCATAAATTATATCTAAGAATCAGATTCTT
1 GATTGTAAATGTCAGAATGCAAGGATTAGACTAATGCATGAATTATATATAAGAATCGGATTCTT
*
120404 TTTTATAGAAAAAAAGAAAAGTTGACT
66 TTTTATAGAAAAAAAGAAAAGTTGATT
* * *
120431 GATTGTAAATGTTAGAATGCAAGGATTAGACTAATGCATTAATTATATATGAGAATCGGATTCTT
1 GATTGTAAATGTCAGAATGCAAGGATTAGACTAATGCATGAATTATATATAAGAATCGGATTCTT
120496 TTTTAT----AAAAA-AAAAGTTGATT
66 TTTTATAGAAAAAAAGAAAAGTTGATT
* * * * * *
120518 GATTGTAAATGTCAGACTGCAAAGATTAGACTAATGTATGAATTATATCTGAGAATTGGATTCTT
1 GATTGTAAATGTCAGAATGCAAGGATTAGACTAATGCATGAATTATATATAAGAATCGGATTCTT
* * *
120583 TTTTATAGTAAAAAAG-AAAGACTAATT
66 TTTTATAGAAAAAAAGAAAAG-TTGATT
* * * *
120610 GATTGTAAATATCA-AACTGTAAGGATTAGACTAATTCATGAATTATATCA-AAGAATTGGATTC
1 GATTGTAAATGTCAGAA-TGCAAGGATTAGACTAATGCATGAATTATAT-ATAAGAATCGGATTC
120673 TTTTTTATAGAAAAAAA
64 TTTTTTATAGAAAAAAA
120690 AGACTGAAAG
Statistics
Matches: 225, Mismatches: 26, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
87 74 0.33
88 5 0.02
91 10 0.04
92 136 0.60
ACGTcount: A:0.42, C:0.08, G:0.16, T:0.35
Consensus pattern (92 bp):
GATTGTAAATGTCAGAATGCAAGGATTAGACTAATGCATGAATTATATATAAGAATCGGATTCTT
TTTTATAGAAAAAAAGAAAAGTTGATT
Found at i:120639 original size:179 final size:180
Alignment explanation
Indices: 120339--120691 Score: 498
Period size: 179 Copynumber: 2.0 Consensus size: 180
120329 TCTGAGAATC
*
120339 GATTGTAAATGTCAGACTGCAATGATTAGACTAATGCATAAATTATATCTAAGAATCAGATTCTT
1 GATTGTAAATGTCAGACTGCAAAGATTAGACTAATGCATAAATTATATCTAAGAATCAGATTCTT
* * * *
120404 TTTTATAGAAAAAAAGAAAAGTTGACTGATTGTAAATGTTAGAATGCAAGGATTAGACTAATGCA
66 TTTTATAGAAAAAAAGAAAAGCTAACTGATTGTAAATATCAGAATGCAAGGATTAGACTAATGCA
* *
120469 TTAATTATAT-ATGAGAATCGGATTCTTTTTTATA-AAAAAAAAGTTGATT
131 TGAATTATATCA-AAGAATCGGATTCTTTTTTATAGAAAAAAAAGTTGATT
* * * **
120518 GATTGTAAATGTCAGACTGCAAAGATTAGACTAATGTATGAATTATATCTGAGAATTGGATTCTT
1 GATTGTAAATGTCAGACTGCAAAGATTAGACTAATGCATAAATTATATCTAAGAATCAGATTCTT
* * * *
120583 TTTTATAGTAAAAAAG-AAAGACTAATTGATTGTAAATATCA-AACTGTAAGGATTAGACTAATT
66 TTTTATAGAAAAAAAGAAAAG-CTAACTGATTGTAAATATCAGAA-TGCAAGGATTAGACTAATG
*
120646 CATGAATTATATCAAAGAATTGGATTCTTTTTTATAGAAAAAAAAG
129 CATGAATTATATCAAAGAATCGGATTCTTTTTTATAGAAAAAAAAG
120692 ACTGAAAGGA
Statistics
Matches: 153, Mismatches: 17, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
178 6 0.04
179 137 0.90
180 10 0.07
ACGTcount: A:0.42, C:0.08, G:0.16, T:0.35
Consensus pattern (180 bp):
GATTGTAAATGTCAGACTGCAAAGATTAGACTAATGCATAAATTATATCTAAGAATCAGATTCTT
TTTTATAGAAAAAAAGAAAAGCTAACTGATTGTAAATATCAGAATGCAAGGATTAGACTAATGCA
TGAATTATATCAAAGAATCGGATTCTTTTTTATAGAAAAAAAAGTTGATT
Found at i:120792 original size:73 final size:70
Alignment explanation
Indices: 120625--120957 Score: 394
Period size: 70 Copynumber: 4.8 Consensus size: 70
120615 TAAATATCAA
* * ** *
120625 ACTGTAAGGATTAGACTAATTCATGAATTATATCAAAGAATTG-GATTCTTTTTTATAG-AAAAA
1 ACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCGAGATTCTTTTTTATAGAAAAAA
120688 -AAAG
66 GAAAG
* *
120692 ACTGAAAGGATTAGACTAATGCATGAATTATATCTGATAATCGA-ATTCTTTTTTATAGAAAAAA
1 ACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCGAGATTCTTTTTTATAG----AA
120756 AAAAGAAAG
62 AAAAGAAAG
* *
120765 ACTGCAAGGATTATACTAATGCATGAATTATATCTGAGAAT-TAGATTCTTTTTTATAGAAAAAA
1 ACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCGAGATTCTTTTTTATAG-AAAAA
120829 AGAAAG
65 AGAAAG
* * * *
120835 ACTGCAAAGATTAGATTAATGCATGAATTATATATGAGAATC-AGATTCTTTTTTATATGGAAAA
1 ACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCGAGATTCTTTTTTATA-GAAAAA
120899 AGAAAG
65 AGAAAG
* * *
120905 ACTACAAGGATTAGATTAATGCGTGAATTATA-CATGAGAATC-AGATTTCTTTT
1 ACTGCAAGGATTAGACTAATGCATGAATTATATC-TGAGAATCGAGA-TTCTTTT
120958 GGTAAAAAAA
Statistics
Matches: 235, Mismatches: 19, Indels: 20
0.86 0.07 0.07
Matches are distributed among these distances:
67 51 0.22
70 114 0.49
71 8 0.03
72 6 0.03
73 56 0.24
ACGTcount: A:0.43, C:0.08, G:0.16, T:0.33
Consensus pattern (70 bp):
ACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCGAGATTCTTTTTTATAGAAAAAA
GAAAG
Found at i:122763 original size:13 final size:13
Alignment explanation
Indices: 122745--122770 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
122735 CAATTTTTTG
122745 TGTATCGATACAT
1 TGTATCGATACAT
122758 TGTATCGATACAT
1 TGTATCGATACAT
122771 ACTTGCTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Done.