Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold27
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: 2789374
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 115785 characters in sequence are not A, C, G, or T
File 13 of 16
Found at i:2158449 original size:20 final size:20
Alignment explanation
Indices: 2158424--2158463 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
2158414 GTTGGGGCCT
2158424 TGTATCGATACATTATGGCA
1 TGTATCGATACATTATGGCA
2158444 TGTATCGATACATTATGGCA
1 TGTATCGATACATTATGGCA
2158464 AAAATGTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (20 bp):
TGTATCGATACATTATGGCA
Found at i:2163487 original size:24 final size:24
Alignment explanation
Indices: 2163451--2163503 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
2163441 CATTTGAATG
2163451 TCCAAAAAATTGACTCCAAAAGTT
1 TCCAAAAAATTGACTCCAAAAGTT
*
2163475 TCCAAAAATTTGACTCCAAAAGTT
1 TCCAAAAAATTGACTCCAAAAGTT
2163499 TCCAA
1 TCCAA
2163504 TGGGACACTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.43, C:0.23, G:0.08, T:0.26
Consensus pattern (24 bp):
TCCAAAAAATTGACTCCAAAAGTT
Found at i:2166644 original size:66 final size:66
Alignment explanation
Indices: 2166521--2166644 Score: 162
Period size: 65 Copynumber: 1.9 Consensus size: 66
2166511 GAAAATCTAT
* *
2166521 AAAAGATAATAAAGATAATAAAGGTTTTAGAAAAAGGATACCTTGAGGTTTTGAAAAAAAAAAAA
1 AAAAGATAATAAAGATAATAAAGGTTTTAGAAAAACGATACCTTAAGGTTTTGAAAAAAAAAAAA
2166586 A
66 A
* ** * *
2166587 AAAAGATAATAAAGATATTTTGAGGTTTT-G-GAAACGATACCTTAAGGTTTTGTAAAAA
1 AAAAGATAATAAAGATA-ATAAAGGTTTTAGAAAAACGATACCTTAAGGTTTTGAAAAAA
2166645 GGATAACTTC
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
65 24 0.48
66 18 0.36
67 8 0.16
ACGTcount: A:0.51, C:0.04, G:0.18, T:0.27
Consensus pattern (66 bp):
AAAAGATAATAAAGATAATAAAGGTTTTAGAAAAACGATACCTTAAGGTTTTGAAAAAAAAAAAA
A
Found at i:2167911 original size:22 final size:19
Alignment explanation
Indices: 2167865--2167911 Score: 51
Period size: 18 Copynumber: 2.3 Consensus size: 19
2167855 AAATTAATTT
2167865 ATTATATATTATATGATAAA
1 ATTAT-TATTATATGATAAA
2167885 A-TATTATTATAATGTATACAA
1 ATTATTATTAT-ATG-ATA-AA
2167906 ATTATT
1 ATTATT
2167912 GCAATAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
18 6 0.26
19 6 0.26
20 4 0.17
21 3 0.13
22 4 0.17
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (19 bp):
ATTATTATTATATGATAAA
Found at i:2168642 original size:28 final size:27
Alignment explanation
Indices: 2168587--2168682 Score: 92
Period size: 28 Copynumber: 3.5 Consensus size: 27
2168577 TGGGATTTAA
2168587 TTTTTTA-TTTTATTTTGTT-T-TTC-T
1 TTTTTTATTTTTATTTT-TTCTATTCAT
2168611 TTTTTTATTTCTTATTTTTTCTATTCAT
1 TTTTTTATTT-TTATTTTTTCTATTCAT
* *
2168639 TTTTTTAATTTTTATTTTATCTACTTTATT
1 TTTTTT-ATTTTTATTTTTTCTA-TTCA-T
2168669 ATTTTTTATTTTTA
1 -TTTTTTATTTTTA
2168683 AAAAAATAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 12
0.81 0.03 0.16
Matches are distributed among these distances:
24 7 0.11
25 4 0.07
26 8 0.13
27 3 0.05
28 18 0.30
29 7 0.11
30 8 0.13
31 6 0.10
ACGTcount: A:0.16, C:0.06, G:0.01, T:0.77
Consensus pattern (27 bp):
TTTTTTATTTTTATTTTTTCTATTCAT
Found at i:2171315 original size:21 final size:21
Alignment explanation
Indices: 2171261--2171315 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
2171251 ATACAAGTGA
* *
2171261 AAATGTATCGAGACATTATGT
1 AAATGTATCGATACATCATGT
*
2171282 AAAAGTATCGATACATCATGT
1 AAATGTATCGATACATCATGT
* *
2171303 GAATGTATTGATA
1 AAATGTATCGATA
2171316 TATTTTGTTG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.40, C:0.09, G:0.18, T:0.33
Consensus pattern (21 bp):
AAATGTATCGATACATCATGT
Found at i:2171398 original size:20 final size:20
Alignment explanation
Indices: 2171374--2171423 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
2171364 AATACACATG
*
2171374 TAAATATATCAATACAATTCA
1 TAAATGTATCAATAC-ATTCA
2171395 -AAATGTATCAATACATTCA
1 TAAATGTATCAATACATTCA
2171414 TAAATGTATC
1 TAAATGTATC
2171424 TGTCGCAACG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 5 0.19
20 22 0.81
ACGTcount: A:0.48, C:0.14, G:0.04, T:0.34
Consensus pattern (20 bp):
TAAATGTATCAATACATTCA
Found at i:2172496 original size:79 final size:79
Alignment explanation
Indices: 2172396--2172597 Score: 221
Period size: 79 Copynumber: 2.6 Consensus size: 79
2172386 AATAACAGGG
* * * * *
2172396 TTGGAGTGTTCCCTT-GAAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATGA-TTA
1 TTGGAGT-ATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAAT-ATTTA
*
2172459 GAAAAAAAAATCGGGA
64 GAAAAAAAAACCGGGA
* * *
2172475 TTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGG
1 TTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTAGA
* * * *
2172540 GAATAAAGCCGGGG
66 AAAAAAAACCGGGA
* *
2172554 TTGGAGTATCCCCTC-AGAAGTAACGGGGTTGGAGTATCCCCGAT
1 TTGGAGTATCCCTTCGA-AAATAACGGGGTTGGAGTATCCCCGAT
2172598 GAAATAACGA
Statistics
Matches: 104, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
78 8 0.08
79 96 0.92
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.25
Consensus pattern (79 bp):
TTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTAGA
AAAAAAAACCGGGA
Found at i:2172589 original size:28 final size:28
Alignment explanation
Indices: 2172549--2172620 Score: 101
Period size: 28 Copynumber: 2.6 Consensus size: 28
2172539 GGAATAAAGC
*
2172549 CGGGGTTGGAGTATCCCCTCA-GAAGTAA
1 CGGGGTTGGAGTATCCCC-CATGAAATAA
*
2172577 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCCATGAAATAA
*
2172605 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
2172621 TCGATTGTGA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
27 1 0.03
28 39 0.98
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCCATGAAATAA
Found at i:2172678 original size:52 final size:52
Alignment explanation
Indices: 2172609--2172733 Score: 137
Period size: 52 Copynumber: 2.4 Consensus size: 52
2172599 AAATAACGAG
* * * *
2172609 GTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATC-GGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGG-AGTTTTGAAAATAAAACCAGGA
** * *
2172661 GTTGGAGTATCCCCGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCAGGA
1 GTTGGAGTATCCCCGATT-GTGAAAAATTGGAGTTTTGAAAATAAAACCAGGA
*
2172714 -TTGGAATATCCCCGATTGTG
1 GTTGGAGTATCCCCGATTGTG
2172734 GAGAATTGAG
Statistics
Matches: 60, Mismatches: 11, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
51 1 0.02
52 47 0.78
53 12 0.20
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGAGTTTTGAAAATAAAACCAGGA
Found at i:2175110 original size:13 final size:13
Alignment explanation
Indices: 2175092--2175117 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2175082 ACAAAGATCC
2175092 ATGTATCGATACA
1 ATGTATCGATACA
2175105 ATGTATCGATACA
1 ATGTATCGATACA
2175118 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:2175113 original size:33 final size:33
Alignment explanation
Indices: 2175071--2175137 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2175061 AAAATTTCCA
***
2175071 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
2175104 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
2175137 A
1 A
2175138 TTTCCTCGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:2175181 original size:19 final size:18
Alignment explanation
Indices: 2175157--2175224 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
2175147 CAGTAGCTAA
2175157 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
2175176 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
2175191 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
2175208 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
2175225 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:2175197 original size:13 final size:13
Alignment explanation
Indices: 2175179--2175203 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2175169 ACAATACTTA
2175179 TGTATCGATACAT
1 TGTATCGATACAT
2175192 TGTATCGATACA
1 TGTATCGATACA
2175204 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2175201 original size:32 final size:32
Alignment explanation
Indices: 2175160--2175222 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2175150 TAGCTAATTA
*
2175160 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
2175192 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
2175223 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:2175313 original size:13 final size:13
Alignment explanation
Indices: 2175295--2175320 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2175285 GAAATTTTTT
2175295 TTTTTTTTTTCAA
1 TTTTTTTTTTCAA
2175308 TTTTTTTTTTCAA
1 TTTTTTTTTTCAA
2175321 ACACTTTATC
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:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTTTTTTTCAA
Found at i:2175997 original size:55 final size:55
Alignment explanation
Indices: 2175913--2176865 Score: 1455
Period size: 55 Copynumber: 17.3 Consensus size: 55
2175903 ATAAATTGTA
* * * * *
2175913 TCCTGCTCATTGAGGAGT-AAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* * *
2175968 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCCACTTGTGTGGGCTTTGAAAAGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* * *
2176023 TCCTGCTCTTTGGGGAAT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
2176078 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* * *
2176133 TCCTGTTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGAGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
* *
2176188 TCCTGCTCTTTGGGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
* *
2176243 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGGGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
2176298 TCCTGCTCTTTGGGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
* *
2176353 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGGGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
2176408 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
2176463 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
2176518 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
2176573 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
2176628 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
2176683 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
2176738 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGAGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
* ***
2176793 CCCTGCTCTTTGAGGACTGGAAGGCGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
2176848 TCCTGCTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
2176866 AAAAAGCGGA
Statistics
Matches: 841, Mismatches: 40, Indels: 34
0.92 0.04 0.04
Matches are distributed among these distances:
54 20 0.02
55 799 0.95
56 22 0.03
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
Found at i:2176242 original size:29 final size:29
Alignment explanation
Indices: 2176157--2176242 Score: 74
Period size: 29 Copynumber: 3.1 Consensus size: 29
2176147 GACTAGAAAA
*
2176157 TGCCACCAACTTGTGTGAGCTTTAAGAGG
1 TGCCACCAACTTGTGTGGGCTTTAAGAGG
** * *
2176186 TGTCCTGC-TCTT-TG-GGGAC-TGAA-AGG
1 TG-CCACCAACTTGTGTGGG-CTTTAAGAGG
2176212 TGCCACCAACTTGTGTGGGCTTTAAGAGG
1 TGCCACCAACTTGTGTGGGCTTTAAGAGG
2176241 TG
1 TG
2176243 TCCTGCTCTT
Statistics
Matches: 41, Mismatches: 9, Indels: 14
0.64 0.14 0.22
Matches are distributed among these distances:
25 3 0.07
26 8 0.20
27 8 0.20
28 9 0.22
29 10 0.24
30 3 0.07
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.29
Consensus pattern (29 bp):
TGCCACCAACTTGTGTGGGCTTTAAGAGG
Found at i:2177870 original size:19 final size:21
Alignment explanation
Indices: 2177848--2177891 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
2177838 CTTTTCTCTC
2177848 TTTTCCTTTG-T-TTTTTTTT
1 TTTTCCTTTGCTCTTTTTTTT
**
2177867 TTTTTTTTTGCTCTTTTTTTT
1 TTTTCCTTTGCTCTTTTTTTT
2177888 TTTT
1 TTTT
2177892 GAAGAGAAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 8 0.38
20 1 0.05
21 12 0.57
ACGTcount: A:0.00, C:0.09, G:0.05, T:0.86
Consensus pattern (21 bp):
TTTTCCTTTGCTCTTTTTTTT
Found at i:2190460 original size:79 final size:79
Alignment explanation
Indices: 2190295--2190496 Score: 219
Period size: 79 Copynumber: 2.6 Consensus size: 79
2190285 GATAATAACA
* * ** * *
2190295 GGGTTGGAGTGTTCCCTT-GAAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATGAT
1 GGGTTGGAGT-ATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATGAT
**
2190359 TAGAAAAAAAAATTG
65 TAGAAAAAAAAACCG
*
2190374 GGATTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-ATT
1 GGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATGA-T
* ** * *
2190438 TTGGGAATAAAGCCG
65 TAGAAAAAAAAACCG
* * *
2190453 GGGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCC
1 GGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCC
2190497 GATGAAATAA
Statistics
Matches: 103, Mismatches: 18, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
78 7 0.07
79 96 0.93
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.25
Consensus pattern (79 bp):
GGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATGATT
AGAAAAAAAAACCG
Found at i:2190491 original size:28 final size:28
Alignment explanation
Indices: 2190451--2190522 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
2190441 GGAATAAAGC
** *
2190451 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
2190479 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
2190507 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
2190523 TCGATTGTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:2193011 original size:13 final size:13
Alignment explanation
Indices: 2192993--2193018 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2192983 ACAAAGATCC
2192993 ATGTATCGATACA
1 ATGTATCGATACA
2193006 ATGTATCGATACA
1 ATGTATCGATACA
2193019 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:2193014 original size:33 final size:33
Alignment explanation
Indices: 2192972--2193038 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2192962 AAAATTTCCA
***
2192972 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
2193005 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
2193038 A
1 A
2193039 TTTCCTCGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:2193082 original size:19 final size:18
Alignment explanation
Indices: 2193058--2193125 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
2193048 CAGTAGCTAA
2193058 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
2193077 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
2193092 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
2193109 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
2193126 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:2193098 original size:13 final size:13
Alignment explanation
Indices: 2193080--2193104 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2193070 ACAATACTTA
2193080 TGTATCGATACAT
1 TGTATCGATACAT
2193093 TGTATCGATACA
1 TGTATCGATACA
2193105 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2193102 original size:32 final size:32
Alignment explanation
Indices: 2193061--2193123 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2193051 TAGCTAATTA
*
2193061 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
2193093 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
2193124 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:2193205 original size:21 final size:21
Alignment explanation
Indices: 2193181--2193237 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
2193171 CATTTGTAGG
2193181 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
2193202 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
2193223 ATGTATCGATACATT
1 ATGTATCGATACATT
2193238 TGGAAATTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:2193267 original size:13 final size:13
Alignment explanation
Indices: 2193249--2193274 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2193239 GGAAATTTTT
2193249 TTTTTTTTTTCAA
1 TTTTTTTTTTCAA
2193262 TTTTTTTTTTCAA
1 TTTTTTTTTTCAA
2193275 ACACTTTATC
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:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTTTTTTTCAA
Found at i:2193525 original size:20 final size:20
Alignment explanation
Indices: 2193500--2193537 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2193490 TAGTTTTTTA
* *
2193500 AAGTAATGTATCTATACATT
1 AAGTAATGAATCGATACATT
2193520 AAGTAATGAATCGATACA
1 AAGTAATGAATCGATACA
2193538 ATGTCGCGAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.32
Consensus pattern (20 bp):
AAGTAATGAATCGATACATT
Found at i:2196477 original size:21 final size:21
Alignment explanation
Indices: 2196372--2196488 Score: 63
Period size: 21 Copynumber: 5.8 Consensus size: 21
2196362 TTTATCATAT
2196372 TTATTTT--ATTAAA-TTAAG
1 TTATTTTAAATTAAATTTAAG
* *
2196390 TT-TTTAAAATTAAAATT-A-
1 TTATTTTAAATTAAATTTAAG
* * *
2196408 -TA-TTTAATTTAAGTTTAAA
1 TTATTTTAAATTAAATTTAAG
* *
2196427 TTATTTAAAATAAATATTTTTAAG
1 TTATTTTAAATTAA-A--TTTAAG
*
2196451 TTATTTTAATTTTAAATTTAA-
1 TTATTTTAA-ATTAAATTTAAG
2196472 TTATTTTAAATTAAATT
1 TTATTTTAAATTAAATT
2196489 ATTTACTGTT
Statistics
Matches: 73, Mismatches: 14, Indels: 22
0.67 0.13 0.20
Matches are distributed among these distances:
17 14 0.19
18 3 0.04
19 7 0.10
20 11 0.15
21 16 0.22
22 5 0.07
24 14 0.19
25 3 0.04
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.55
Consensus pattern (21 bp):
TTATTTTAAATTAAATTTAAG
Found at i:2196479 original size:15 final size:15
Alignment explanation
Indices: 2196422--2196492 Score: 65
Period size: 15 Copynumber: 4.7 Consensus size: 15
2196412 TAATTTAAGT
2196422 TTAAATTA-TTTAAA
1 TTAAATTATTTTAAA
* *
2196436 ATAAA-TATTTTTAAG
1 TTAAATTA-TTTTAAA
**
2196451 TTATTTTAATTTTAAA
1 TTAAATT-ATTTTAAA
*
2196467 TTTAATTATTTTAAA
1 TTAAATTATTTTAAA
2196482 TTAAATTATTT
1 TTAAATTATTT
2196493 ACTGTTGAGG
Statistics
Matches: 43, Mismatches: 10, Indels: 7
0.72 0.17 0.12
Matches are distributed among these distances:
13 2 0.05
14 4 0.09
15 25 0.58
16 11 0.26
17 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.56
Consensus pattern (15 bp):
TTAAATTATTTTAAA
Found at i:2196794 original size:5 final size:5
Alignment explanation
Indices: 2196784--2196933 Score: 68
Period size: 5 Copynumber: 31.0 Consensus size: 5
2196774 TAATAATTTA
* *
2196784 TATAT TATAT TATAT TATAT TATAAT TATAT T-TAA AATAT T-T-T TAT-T
1 TATAT TATAT TATAT TATAT TAT-AT TATAT TATAT TATAT TATAT TATAT
* * * * * * * *
2196831 TATA- TAAAT TTTAA TATAT TA-AA TAAAT TAT-T AAAAA TATATT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA-T TATAT
* * *
2196879 TATAT TATATT TTTAT TGTTT TATA- TATAT ATATAT TATAT TCATA-
1 TATAT TATA-T TATAT TATAT TATAT TATAT -TATAT TATAT T-ATAT
2196925 TA-AT TATAT
1 TATAT TATAT
2196934 AAAATATTTT
Statistics
Matches: 107, Mismatches: 24, Indels: 28
0.67 0.15 0.18
Matches are distributed among these distances:
3 3 0.03
4 23 0.21
5 60 0.56
6 21 0.20
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.56
Consensus pattern (5 bp):
TATAT
Found at i:2196935 original size:8 final size:9
Alignment explanation
Indices: 2196782--2196934 Score: 58
Period size: 8 Copynumber: 17.4 Consensus size: 9
2196772 TTTAATAATT
2196782 TATATATTA
1 TATATATTA
2196791 TATTATATTA
1 TA-TATATTA
*
2196801 TAT-TATAA
1 TATATATTA
2196809 T-TATATT-
1 TATATATTA
*
2196816 TAAAATATT-
1 T-ATATATTA
*
2196825 TTTAT-TTA
1 TATATATTA
* *
2196833 TATAAATTT
1 TATATATTA
2196842 TAATATATTA
1 T-ATATATTA
* *
2196852 AATAAATTA
1 TATATATTA
**
2196861 T-TA-AAAA
1 TATATATTA
2196868 TATAT-TTA
1 TATATATTA
2196876 TATTATATTA
1 TA-TATATTA
*
2196886 TAT-TTTTA
1 TATATATTA
* *
2196894 T-TGTTTTA
1 TATATATTA
2196902 TATATATATA
1 TATATAT-TA
2196912 TATTATATTCA
1 TA-TATATT-A
2196923 TATA-ATTA
1 TATATATTA
2196931 TATA
1 TATA
2196935 AAATATTTTT
Statistics
Matches: 108, Mismatches: 20, Indels: 33
0.67 0.12 0.20
Matches are distributed among these distances:
7 8 0.07
8 36 0.33
9 29 0.27
10 27 0.25
11 8 0.07
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.56
Consensus pattern (9 bp):
TATATATTA
Found at i:2197142 original size:14 final size:14
Alignment explanation
Indices: 2197125--2197180 Score: 53
Period size: 14 Copynumber: 4.0 Consensus size: 14
2197115 GAGTAAAATA
2197125 AATTATTTAAATTT
1 AATTATTTAAATTT
*
2197139 AATTTAATTAAATTT
1 AA-TTATTTAAATTT
* *
2197154 ATTTACTT-AATTT
1 AATTATTTAAATTT
2197167 -ATATATTTAAATTT
1 AAT-TATTTAAATTT
2197181 GAGTTTAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 1 0.03
13 9 0.26
14 12 0.35
15 12 0.35
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (14 bp):
AATTATTTAAATTT
Found at i:2203316 original size:3 final size:3
Alignment explanation
Indices: 2203308--2203341 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
2203298 AGAAAAGGAA
2203308 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
2203342 CTGTAAACAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:2204635 original size:16 final size:15
Alignment explanation
Indices: 2204616--2204677 Score: 52
Period size: 16 Copynumber: 3.9 Consensus size: 15
2204606 TTAGGTCTAC
*
2204616 TAATATTATATTTTTT
1 TAAT-TTATAATTTTT
*
2204632 TAATTTTTAATTTTT
1 TAATTTATAATTTTT
* **
2204647 TAAATTTATTATTTAA
1 T-AATTTATAATTTTT
2204663 TAATTTAATAATTTT
1 TAATTT-ATAATTTT
2204678 ATTATATTTT
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
15 15 0.42
16 21 0.58
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TAATTTATAATTTTT
Found at i:2206096 original size:2 final size:2
Alignment explanation
Indices: 2206089--2206121 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2206079 ATTGTACTCT
2206089 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2206122 TTTAGAATTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2207584 original size:4 final size:4
Alignment explanation
Indices: 2207575--2207599 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
2207565 ATAACATTTA
2207575 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
2207600 TAGCCCTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:2207771 original size:15 final size:15
Alignment explanation
Indices: 2207751--2207877 Score: 52
Period size: 15 Copynumber: 8.5 Consensus size: 15
2207741 ATTGCCATAA
2207751 AAAGTAAATTACAAG
1 AAAGTAAATTACAAG
*
2207766 AAAGTAATTGTAC--G
1 AAAGTAAAT-TACAAG
**
2207780 AAAGTAAATTGTAAG
1 AAAGTAAATTACAAG
* *
2207795 AAAATTAAATTACAAAAAA
1 -AAAGTAAATTAC---AAG
**
2207814 AAAAAAAATTGAC-AG
1 AAAGTAAATT-ACAAG
* *
2207829 AAAATAAATTGC-A-
1 AAAGTAAATTACAAG
2207842 AAA--AAATTACAAG
1 AAAGTAAATTACAAG
**
2207855 AAAGTAAATTGTAAG
1 AAAGTAAATTACAAG
2207870 AAAGTAAA
1 AAAGTAAA
2207878 CATTTAATCA
Statistics
Matches: 84, Mismatches: 16, Indels: 24
0.68 0.13 0.19
Matches are distributed among these distances:
11 6 0.07
12 1 0.01
13 7 0.08
14 11 0.13
15 35 0.42
16 12 0.14
18 8 0.10
19 4 0.05
ACGTcount: A:0.61, C:0.05, G:0.13, T:0.21
Consensus pattern (15 bp):
AAAGTAAATTACAAG
Found at i:2207805 original size:16 final size:15
Alignment explanation
Indices: 2207751--2207797 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
2207741 ATTGCCATAA
**
2207751 AAAGTAAATTACAAG
1 AAAGTAAATTGTAAG
*
2207766 AAAGT-AATTGTACG
1 AAAGTAAATTGTAAG
2207780 AAAGTAAATTGTAAG
1 AAAGTAAATTGTAAG
2207795 AAA
1 AAA
2207798 ATTAAATTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 11 0.41
15 16 0.59
ACGTcount: A:0.55, C:0.04, G:0.17, T:0.23
Consensus pattern (15 bp):
AAAGTAAATTGTAAG
Found at i:2207856 original size:26 final size:26
Alignment explanation
Indices: 2207815--2207865 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
2207805 TACAAAAAAA
2207815 AAAAAAATTGACAGAAAATAAATTGC
1 AAAAAAATTGACAGAAAATAAATTGC
*
2207841 AAAAAAATT-ACAAGAAAGTAAATTG
1 AAAAAAATTGAC-AGAAAATAAATTG
2207866 TAAGAAAGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 2 0.09
26 21 0.91
ACGTcount: A:0.63, C:0.06, G:0.12, T:0.20
Consensus pattern (26 bp):
AAAAAAATTGACAGAAAATAAATTGC
Found at i:2211378 original size:13 final size:13
Alignment explanation
Indices: 2211360--2211384 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2211350 ATTACTCACA
2211360 TGTATCGATACAT
1 TGTATCGATACAT
2211373 TGTATCGATACA
1 TGTATCGATACA
2211385 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2211486 original size:52 final size:52
Alignment explanation
Indices: 2211393--2211516 Score: 207
Period size: 52 Copynumber: 2.4 Consensus size: 52
2211383 CACTGATCTT
*
2211393 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACA-TTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATT-AAA
2211444 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
*
2211496 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
2211517 CTTTTCATAT
Statistics
Matches: 69, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
51 19 0.28
52 47 0.68
53 3 0.04
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
Found at i:2214769 original size:20 final size:20
Alignment explanation
Indices: 2214741--2214815 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
2214731 TCATACCCTG
2214741 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
2214761 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
2214781 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
2214801 ATGTATCGATACATT
1 ATGTATCGATACATT
2214816 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:2214808 original size:40 final size:39
Alignment explanation
Indices: 2214741--2214818 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
2214731 TCATACCCTG
* *
2214741 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
2214781 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
2214819 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:2223326 original size:27 final size:27
Alignment explanation
Indices: 2223245--2223956 Score: 1028
Period size: 27 Copynumber: 26.0 Consensus size: 27
2223235 GTGGCATTTT
*
2223245 CTTTTAAAGTCCACAACTCTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
2223273 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* * *
2223301 CTTTTTAGTCCACAACTTCGTCGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
2223328 ATTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
2223355 CTTTTAAGTCCACAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
2223383 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
2223410 CTTTTAAGTCCACAACTCTGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
2223438 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* **
2223465 CTTTTAAGTCCACAACTCTGTGGCATT
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
2223492 CTTTTAAGTCCACAACTCCATGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
2223519 CTTTTTAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
2223546 CTTTTAAGTCCACAACTCCGTGACACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
2223573 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
2223601 CTTTTAAGACCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
2223628 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
2223655 CTTTTAAGTCCATAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
2223683 CTTTTAAGTCCATAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
2223710 TTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
2223738 CTTTTAAGACCACAACTTCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * *
2223765 CTTTTAAGTCCATAACTCCATGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
2223793 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
2223820 CTTTTAAAGTCCACAACTCCCTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
2223848 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * * *
2223875 TTTTTAAGTCCATAAATTCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
2223902 CTTTTAAGTCCACAACTCCGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
2223929 CTTTTAAATCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
2223956 C
1 C
2223957 ATTTCAAAGC
Statistics
Matches: 612, Mismatches: 65, Indels: 15
0.88 0.09 0.02
Matches are distributed among these distances:
27 407 0.67
28 205 0.33
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.29
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCGTGGCACC
Found at i:2223327 original size:55 final size:54
Alignment explanation
Indices: 2223245--2223956 Score: 957
Period size: 55 Copynumber: 13.0 Consensus size: 54
2223235 GTGGCATTTT
2223245 CTTTTAAAGTCCACAAC-TCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTTC-GTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACC
* * *
2223301 CTTTTTAGTCCACAACTTCGTCGCACCATTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* *
2223355 CTTTTAAGTCCACAACTCCGTGGCATCTCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTTCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACC
*
2223410 CTTTTAAGTCCACAAC-TCTGTGGCATCCCTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTTC-GTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACC
** *
2223465 CTTTTAAGTCCACAAC-TCTGTGGCATTCTTTTAAGTCCACAACTCCATGGCACC
1 CTTTTAAGTCCACAACTTC-GTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* * *
2223519 CTTTTTAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGACACC
1 CTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* * *
2223573 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGACCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTTCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACC
* * *
2223628 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCATAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
* *
2223683 CTTTTAAGTCCATAAC-TCTGTGGCACCTTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTTC-GTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACC
* * * *
2223738 CTTTTAAGACCACAACTTCGTGGCACCCTTTTAAGTCCATAACTCCATGGCATCT
1 CTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
*
2223793 CTTTTAAGTCCACAAC-TCTGTGGCACCCTTTTAAAGTCCACAACTCCCTGGCACC
1 CTTTTAAGTCCACAACTTC-GTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACC
* * * * *
2223848 CTTTTAAGTCCACAACTCCGTGGCACCTTTTTAAGTCCATAAATTCGTGGCACC
1 CTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* * * *
2223902 CTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAATCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
2223956 C
1 C
2223957 ATTTCAAAGC
Statistics
Matches: 586, Mismatches: 57, Indels: 28
0.87 0.08 0.04
Matches are distributed among these distances:
54 251 0.43
55 288 0.49
56 47 0.08
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.29
Consensus pattern (54 bp):
CTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
Found at i:2223393 original size:82 final size:81
Alignment explanation
Indices: 2223245--2223956 Score: 1028
Period size: 82 Copynumber: 8.7 Consensus size: 81
2223235 GTGGCATTTT
* *
2223245 CTTTTAAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTTAGT
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGT
* *
2223310 CCACAACTTCGTCGCACC
64 CCACAACTCCGTGGCACC
* *
2223328 ATTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCTCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
2223393 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
* *
2223410 CTTTTAAGTCCACAACTCTGTGGCATCCCTTTTAAGACCACAACTCCGTGGCACCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
* **
2223475 CACAACTCTGTGGCATT
65 CACAACTCCGTGGCACC
* *
2223492 CTTTTAAGTCCACAACTCCATGGCACCCTTTTTAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
*
2223557 ACAACTCCGTGACACC
66 ACAACTCCGTGGCACC
* *
2223573 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGACCACAACTCTGTGGCACCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
2223638 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
* * * * *
2223655 CTTTTAAGTCCATAACTCCGTGGCATCTCTTTTAAGTCCATAACTCTGTGGCACCTTTTTAAAGT
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGT
2223720 CCACAACTCCGTGGCACC
64 CCACAACTCCGTGGCACC
* * * * *
2223738 CTTTTAAGACCACAACTTCGTGGCACCCTTTTAAGTCCATAACTCCATGGCATCTCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
*
2223803 CACAACTCTGTGGCACC
65 CACAACTCCGTGGCACC
* *
2223820 CTTTTAAAGTCCACAACTCCCTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTAAGTC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
* * *
2223885 CATAAATTCGTGGCACC
65 CACAACTCCGTGGCACC
* * *
2223902 CTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAATCCACAACTCTGTGGCACCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
2223957 ATTTCAAAGC
Statistics
Matches: 567, Mismatches: 56, Indels: 14
0.89 0.09 0.02
Matches are distributed among these distances:
81 139 0.25
82 307 0.54
83 121 0.21
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.29
Consensus pattern (81 bp):
CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
ACAACTCCGTGGCACC
Found at i:2224553 original size:32 final size:32
Alignment explanation
Indices: 2223939--2224545 Score: 1018
Period size: 32 Copynumber: 19.0 Consensus size: 32
2223929 CTTTTAAATC
* *
2223939 CACAACTCTGTGGC-ACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
2223970 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2224002 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2224034 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
2224066 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2224098 CACAAGTCAGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
2224130 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2224162 CACAAGTCGGTGGCAACCCATTACAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2224194 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2224226 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2224258 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
2224290 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2224322 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2224354 CACAAGTCGGTGGCAAACCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2224386 CACAAGTCGGTGGCAACCCATTTCAAAACCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
2224418 CACAAGTCAGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * * *
2224450 CATAAGTCAGTGCCAACTCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
2224482 CACAAGTCGGTGGCGACCCTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2224514 CACAAGTCGGTGGCAACCCATTTAAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
2224546 TGCAAGTCAA
Statistics
Matches: 545, Mismatches: 30, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
31 12 0.02
32 533 0.98
ACGTcount: A:0.32, C:0.35, G:0.18, T:0.15
Consensus pattern (32 bp):
CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
Found at i:2225028 original size:20 final size:20
Alignment explanation
Indices: 2225000--2225074 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
2224990 TCATACCCTG
2225000 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
2225020 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
2225040 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
2225060 ATGTATCGATACATT
1 ATGTATCGATACATT
2225075 ATGTCTTTTC
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:2225067 original size:40 final size:39
Alignment explanation
Indices: 2225000--2225077 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
2224990 TCATACCCTG
* *
2225000 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
2225040 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
2225078 TCTTTTCACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:2233582 original size:27 final size:27
Alignment explanation
Indices: 2233501--2234212 Score: 1028
Period size: 27 Copynumber: 26.0 Consensus size: 27
2233491 GTGGCATTTT
*
2233501 CTTTTAAAGTCCACAACTCTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
2233529 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* * *
2233557 CTTTTTAGTCCACAACTTCGTCGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
2233584 ATTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
2233611 CTTTTAAGTCCACAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
2233639 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
2233666 CTTTTAAGTCCACAACTCTGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
2233694 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* **
2233721 CTTTTAAGTCCACAACTCTGTGGCATT
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
2233748 CTTTTAAGTCCACAACTCCATGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
2233775 CTTTTTAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
2233802 CTTTTAAGTCCACAACTCCGTGACACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
2233829 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
2233857 CTTTTAAGACCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
2233884 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
2233911 CTTTTAAGTCCATAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
2233939 CTTTTAAGTCCATAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
2233966 TTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
2233994 CTTTTAAGACCACAACTTCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * *
2234021 CTTTTAAGTCCATAACTCCATGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
2234049 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
2234076 CTTTTAAAGTCCACAACTCCCTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
2234104 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * * *
2234131 TTTTTAAGTCCATAAATTCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
2234158 CTTTTAAGTCCACAACTCCGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
2234185 CTTTTAAATCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
2234212 C
1 C
2234213 ATTTCAAAGC
Statistics
Matches: 612, Mismatches: 65, Indels: 15
0.88 0.09 0.02
Matches are distributed among these distances:
27 407 0.67
28 205 0.33
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.29
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCGTGGCACC
Found at i:2233583 original size:55 final size:54
Alignment explanation
Indices: 2233501--2234212 Score: 957
Period size: 55 Copynumber: 13.0 Consensus size: 54
2233491 GTGGCATTTT
2233501 CTTTTAAAGTCCACAAC-TCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTTC-GTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACC
* * *
2233557 CTTTTTAGTCCACAACTTCGTCGCACCATTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* *
2233611 CTTTTAAGTCCACAACTCCGTGGCATCTCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTTCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACC
*
2233666 CTTTTAAGTCCACAAC-TCTGTGGCATCCCTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTTC-GTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACC
** *
2233721 CTTTTAAGTCCACAAC-TCTGTGGCATTCTTTTAAGTCCACAACTCCATGGCACC
1 CTTTTAAGTCCACAACTTC-GTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* * *
2233775 CTTTTTAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGACACC
1 CTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* * *
2233829 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGACCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTTCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACC
* * *
2233884 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCATAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
* *
2233939 CTTTTAAGTCCATAAC-TCTGTGGCACCTTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTTC-GTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACC
* * * *
2233994 CTTTTAAGACCACAACTTCGTGGCACCCTTTTAAGTCCATAACTCCATGGCATCT
1 CTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
*
2234049 CTTTTAAGTCCACAAC-TCTGTGGCACCCTTTTAAAGTCCACAACTCCCTGGCACC
1 CTTTTAAGTCCACAACTTC-GTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACC
* * * * *
2234104 CTTTTAAGTCCACAACTCCGTGGCACCTTTTTAAGTCCATAAATTCGTGGCACC
1 CTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* * * *
2234158 CTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAATCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
2234212 C
1 C
2234213 ATTTCAAAGC
Statistics
Matches: 586, Mismatches: 57, Indels: 28
0.87 0.08 0.04
Matches are distributed among these distances:
54 251 0.43
55 288 0.49
56 47 0.08
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.29
Consensus pattern (54 bp):
CTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
Found at i:2233649 original size:82 final size:81
Alignment explanation
Indices: 2233501--2234212 Score: 1028
Period size: 82 Copynumber: 8.7 Consensus size: 81
2233491 GTGGCATTTT
* *
2233501 CTTTTAAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTTAGT
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGT
* *
2233566 CCACAACTTCGTCGCACC
64 CCACAACTCCGTGGCACC
* *
2233584 ATTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCTCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
2233649 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
* *
2233666 CTTTTAAGTCCACAACTCTGTGGCATCCCTTTTAAGACCACAACTCCGTGGCACCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
* **
2233731 CACAACTCTGTGGCATT
65 CACAACTCCGTGGCACC
* *
2233748 CTTTTAAGTCCACAACTCCATGGCACCCTTTTTAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
*
2233813 ACAACTCCGTGACACC
66 ACAACTCCGTGGCACC
* *
2233829 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGACCACAACTCTGTGGCACCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
2233894 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
* * * * *
2233911 CTTTTAAGTCCATAACTCCGTGGCATCTCTTTTAAGTCCATAACTCTGTGGCACCTTTTTAAAGT
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGT
2233976 CCACAACTCCGTGGCACC
64 CCACAACTCCGTGGCACC
* * * * *
2233994 CTTTTAAGACCACAACTTCGTGGCACCCTTTTAAGTCCATAACTCCATGGCATCTCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
*
2234059 CACAACTCTGTGGCACC
65 CACAACTCCGTGGCACC
* *
2234076 CTTTTAAAGTCCACAACTCCCTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTAAGTC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
* * *
2234141 CATAAATTCGTGGCACC
65 CACAACTCCGTGGCACC
* * *
2234158 CTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAATCCACAACTCTGTGGCACCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
2234213 ATTTCAAAGC
Statistics
Matches: 567, Mismatches: 56, Indels: 14
0.89 0.09 0.02
Matches are distributed among these distances:
81 139 0.25
82 307 0.54
83 121 0.21
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.29
Consensus pattern (81 bp):
CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
ACAACTCCGTGGCACC
Found at i:2234809 original size:32 final size:32
Alignment explanation
Indices: 2234195--2234801 Score: 1027
Period size: 32 Copynumber: 19.0 Consensus size: 32
2234185 CTTTTAAATC
* *
2234195 CACAACTCTGTGGC-ACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
2234226 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2234258 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2234290 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
2234322 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
2234354 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
2234386 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2234418 CACAAGTCGGTGGCAACCCATTACAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2234450 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2234482 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2234514 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2234546 CACAAGTCGGTGGCAACCCATTTCAAAACCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2234578 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
2234610 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2234642 CACAAGTCGGTGGCAACCCATTTCAAAACCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
2234674 CACAAGTCAGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * * *
2234706 CATAAGTCAGTGCCAACTCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
2234738 CACAAGTCGGTGGCGACCCTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2234770 CACAAGTCGGTGGCAACCCATTTAAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
2234802 TGCAAGTCAA
Statistics
Matches: 547, Mismatches: 28, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
31 12 0.02
32 535 0.98
ACGTcount: A:0.32, C:0.35, G:0.18, T:0.15
Consensus pattern (32 bp):
CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
Found at i:2235284 original size:20 final size:20
Alignment explanation
Indices: 2235256--2235330 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
2235246 TCATACCCTG
2235256 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
2235276 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
2235296 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
2235316 ATGTATCGATACATT
1 ATGTATCGATACATT
2235331 ATGTCTTTTC
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:2235323 original size:40 final size:39
Alignment explanation
Indices: 2235256--2235333 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
2235246 TCATACCCTG
* *
2235256 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
2235296 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
2235334 TCTTTTCACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:2243840 original size:27 final size:27
Alignment explanation
Indices: 2243759--2244470 Score: 1028
Period size: 27 Copynumber: 26.0 Consensus size: 27
2243749 GTGGCATTTT
*
2243759 CTTTTAAAGTCCACAACTCTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
2243787 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* * *
2243815 CTTTTTAGTCCACAACTTCGTCGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
2243842 ATTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
2243869 CTTTTAAGTCCACAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
2243897 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
2243924 CTTTTAAGTCCACAACTCTGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
2243952 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* **
2243979 CTTTTAAGTCCACAACTCTGTGGCATT
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
2244006 CTTTTAAGTCCACAACTCCATGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
2244033 CTTTTTAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
2244060 CTTTTAAGTCCACAACTCCGTGACACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
2244087 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
2244115 CTTTTAAGACCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
2244142 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
2244169 CTTTTAAGTCCATAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
2244197 CTTTTAAGTCCATAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
2244224 TTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
2244252 CTTTTAAGACCACAACTTCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * *
2244279 CTTTTAAGTCCATAACTCCATGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
2244307 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
2244334 CTTTTAAAGTCCACAACTCCCTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
2244362 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * * *
2244389 TTTTTAAGTCCATAAATTCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
2244416 CTTTTAAGTCCACAACTCCGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
2244443 CTTTTAAATCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
2244470 C
1 C
2244471 ATTTCAAAGC
Statistics
Matches: 612, Mismatches: 65, Indels: 15
0.88 0.09 0.02
Matches are distributed among these distances:
27 407 0.67
28 205 0.33
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.29
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCGTGGCACC
Found at i:2243841 original size:55 final size:54
Alignment explanation
Indices: 2243759--2244470 Score: 957
Period size: 55 Copynumber: 13.0 Consensus size: 54
2243749 GTGGCATTTT
2243759 CTTTTAAAGTCCACAAC-TCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTTC-GTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACC
* * *
2243815 CTTTTTAGTCCACAACTTCGTCGCACCATTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* *
2243869 CTTTTAAGTCCACAACTCCGTGGCATCTCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTTCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACC
*
2243924 CTTTTAAGTCCACAAC-TCTGTGGCATCCCTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTTC-GTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACC
** *
2243979 CTTTTAAGTCCACAAC-TCTGTGGCATTCTTTTAAGTCCACAACTCCATGGCACC
1 CTTTTAAGTCCACAACTTC-GTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* * *
2244033 CTTTTTAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGACACC
1 CTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* * *
2244087 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGACCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTTCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACC
* * *
2244142 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCATAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
* *
2244197 CTTTTAAGTCCATAAC-TCTGTGGCACCTTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTTC-GTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACC
* * * *
2244252 CTTTTAAGACCACAACTTCGTGGCACCCTTTTAAGTCCATAACTCCATGGCATCT
1 CTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
*
2244307 CTTTTAAGTCCACAAC-TCTGTGGCACCCTTTTAAAGTCCACAACTCCCTGGCACC
1 CTTTTAAGTCCACAACTTC-GTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACC
* * * * *
2244362 CTTTTAAGTCCACAACTCCGTGGCACCTTTTTAAGTCCATAAATTCGTGGCACC
1 CTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* * * *
2244416 CTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAATCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
2244470 C
1 C
2244471 ATTTCAAAGC
Statistics
Matches: 586, Mismatches: 57, Indels: 28
0.87 0.08 0.04
Matches are distributed among these distances:
54 251 0.43
55 288 0.49
56 47 0.08
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.29
Consensus pattern (54 bp):
CTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
Found at i:2243907 original size:82 final size:81
Alignment explanation
Indices: 2243759--2244470 Score: 1028
Period size: 82 Copynumber: 8.7 Consensus size: 81
2243749 GTGGCATTTT
* *
2243759 CTTTTAAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTTAGT
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGT
* *
2243824 CCACAACTTCGTCGCACC
64 CCACAACTCCGTGGCACC
* *
2243842 ATTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCTCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
2243907 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
* *
2243924 CTTTTAAGTCCACAACTCTGTGGCATCCCTTTTAAGACCACAACTCCGTGGCACCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
* **
2243989 CACAACTCTGTGGCATT
65 CACAACTCCGTGGCACC
* *
2244006 CTTTTAAGTCCACAACTCCATGGCACCCTTTTTAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
*
2244071 ACAACTCCGTGACACC
66 ACAACTCCGTGGCACC
* *
2244087 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGACCACAACTCTGTGGCACCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
2244152 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
* * * * *
2244169 CTTTTAAGTCCATAACTCCGTGGCATCTCTTTTAAGTCCATAACTCTGTGGCACCTTTTTAAAGT
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGT
2244234 CCACAACTCCGTGGCACC
64 CCACAACTCCGTGGCACC
* * * * *
2244252 CTTTTAAGACCACAACTTCGTGGCACCCTTTTAAGTCCATAACTCCATGGCATCTCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
*
2244317 CACAACTCTGTGGCACC
65 CACAACTCCGTGGCACC
* *
2244334 CTTTTAAAGTCCACAACTCCCTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTAAGTC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
* * *
2244399 CATAAATTCGTGGCACC
65 CACAACTCCGTGGCACC
* * *
2244416 CTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAATCCACAACTCTGTGGCACCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
2244471 ATTTCAAAGC
Statistics
Matches: 567, Mismatches: 56, Indels: 14
0.89 0.09 0.02
Matches are distributed among these distances:
81 139 0.25
82 307 0.54
83 121 0.21
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.29
Consensus pattern (81 bp):
CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
ACAACTCCGTGGCACC
Found at i:2245067 original size:32 final size:32
Alignment explanation
Indices: 2244453--2245059 Score: 1027
Period size: 32 Copynumber: 19.0 Consensus size: 32
2244443 CTTTTAAATC
* *
2244453 CACAACTCTGTGGC-ACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
2244484 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2244516 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2244548 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
2244580 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
2244612 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
2244644 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2244676 CACAAGTCGGTGGCAACCCATTACAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2244708 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2244740 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2244772 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2244804 CACAAGTCGGTGGCAACCCATTTCAAAACCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2244836 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
2244868 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2244900 CACAAGTCGGTGGCAACCCATTTCAAAACCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
2244932 CACAAGTCAGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * * *
2244964 CATAAGTCAGTGCCAACTCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
2244996 CACAAGTCGGTGGCGACCCTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2245028 CACAAGTCGGTGGCAACCCATTTAAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
2245060 TGCAAGTCAA
Statistics
Matches: 547, Mismatches: 28, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
31 12 0.02
32 535 0.98
ACGTcount: A:0.32, C:0.35, G:0.18, T:0.15
Consensus pattern (32 bp):
CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
Found at i:2245542 original size:20 final size:20
Alignment explanation
Indices: 2245514--2245588 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
2245504 TCATACCCTG
2245514 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
2245534 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
2245554 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
2245574 ATGTATCGATACATT
1 ATGTATCGATACATT
2245589 ATGTCTTTTC
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:2245581 original size:40 final size:39
Alignment explanation
Indices: 2245514--2245591 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
2245504 TCATACCCTG
* *
2245514 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
2245554 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
2245592 TCTTTTCACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:2253438 original size:4 final size:4
Alignment explanation
Indices: 2253423--2253460 Score: 58
Period size: 4 Copynumber: 9.5 Consensus size: 4
2253413 AATGCGACTA
* *
2253423 TTCT TCCT TTCT TTCT TTCT TTCT TTCT TTTT TTCT TT
1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TT
2253461 GTAATTCTGG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTCT
Found at i:2256964 original size:21 final size:21
Alignment explanation
Indices: 2256938--2256984 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
2256928 CTTTTAATTA
2256938 TTTTTATTTTTTAAAAATAAT
1 TTTTTATTTTTTAAAAATAAT
2256959 TTTTTATTTTTTAAAAATAAT
1 TTTTTATTTTTTAAAAATAAT
2256980 TTTTT
1 TTTTT
2256985 TAAAAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (21 bp):
TTTTTATTTTTTAAAAATAAT
Found at i:2257130 original size:13 final size:13
Alignment explanation
Indices: 2257114--2257140 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2257104 TTATTTAGCA
2257114 TTTTTTTGTAATT
1 TTTTTTTGTAATT
2257127 TTTTTTTGTAATT
1 TTTTTTTGTAATT
2257140 T
1 T
2257141 ATATTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (13 bp):
TTTTTTTGTAATT
Found at i:2257296 original size:25 final size:26
Alignment explanation
Indices: 2257268--2257318 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
2257258 AAAAAAATTT
2257268 AATTAACATAATATAAATATA-ATAA
1 AATTAACATAATATAAATATATATAA
* * *
2257293 AATTAACTTTATATATATATATATAA
1 AATTAACATAATATAAATATATATAA
2257319 TAAATTTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (26 bp):
AATTAACATAATATAAATATATATAA
Found at i:2257298 original size:29 final size:28
Alignment explanation
Indices: 2257255--2257331 Score: 73
Period size: 29 Copynumber: 2.6 Consensus size: 28
2257245 TTATTAAATT
*
2257255 TATAAAAAAATTTAATTAACATAATATAAA
1 TATAATAAAA-TTAATTAACAT-ATATAAA
* * *
2257285 TATAATAAAATTAACTTTATATATATATA
1 TATAATAAAATTAA-TTAACATATATAAA
*
2257314 TATAATAAATTTATATTA
1 TATAATAAAATTA-ATTA
2257332 TTAAATTTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
29 24 0.62
30 15 0.38
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (28 bp):
TATAATAAAATTAATTAACATATATAAA
Found at i:2257309 original size:21 final size:21
Alignment explanation
Indices: 2257284--2257378 Score: 63
Period size: 21 Copynumber: 4.4 Consensus size: 21
2257274 CATAATATAA
2257284 ATATAATAAAATTAACTTTAT
1 ATATAATAAAATTAACTTTAT
*
2257305 ATATATATATATAA-TAAATTTAT
1 ATATA-ATA-A-AATTAACTTTAT
* *
2257328 AT-TATTAAATTTAA-TAATTA-
1 ATATAATAAAATTAACT--TTAT
* *
2257348 ATTTATTAAAATTAACTTTAT
1 ATATAATAAAATTAACTTTAT
2257369 ATATATATAA
1 ATATA-ATAA
2257379 TAAATTTATA
Statistics
Matches: 58, Mismatches: 6, Indels: 19
0.70 0.07 0.23
Matches are distributed among these distances:
19 2 0.03
20 9 0.16
21 25 0.43
22 9 0.16
23 11 0.19
24 2 0.03
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
ATATAATAAAATTAACTTTAT
Found at i:2257310 original size:23 final size:23
Alignment explanation
Indices: 2257278--2257329 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
2257268 AATTAACATA
* *
2257278 ATATAAATATAATAAAATTAACTTT
1 ATATATATAT-ATAAAA-TAAATTT
*
2257303 ATATATATATATATAATAAATTT
1 ATATATATATATAAAATAAATTT
2257326 ATAT
1 ATAT
2257330 TATTAAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 10 0.42
24 5 0.21
25 9 0.38
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (23 bp):
ATATATATATATAAAATAAATTT
Found at i:2257324 original size:58 final size:61
Alignment explanation
Indices: 2257276--2257405 Score: 160
Period size: 60 Copynumber: 2.1 Consensus size: 61
2257266 TTAATTAACA
2257276 TAAT-ATAAATATAATAAAATTAACTTTATATATATATATATAATAAATTTATATTATTAAATT
1 TAATAATAAATATAATAAAATTAACTTTATATATATATA-ATAATAAATTTATATTA-TAAA-T
* * *
2257339 TAATAATTAATTTATTAAAATTAAC-TT-TATATATAT-ATAATAAATTTATATTATTAAATT
1 TAATAATAAATATAATAAAATTAACTTTATATATATATAATAATAAATTTATATTA-TAAA-T
2257399 TAATAAT
1 TAATAAT
2257406 TGATTTATTA
Statistics
Matches: 63, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
60 31 0.49
62 9 0.14
63 6 0.10
64 17 0.27
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (61 bp):
TAATAATAAATATAATAAAATTAACTTTATATATATATAATAATAAATTTATATTATAAAT
Found at i:2257347 original size:13 final size:14
Alignment explanation
Indices: 2257312--2257406 Score: 72
Period size: 14 Copynumber: 6.6 Consensus size: 14
2257302 TATATATATA
2257312 TATATAA-TAAATT
1 TATATAATTAAATT
*
2257325 TATATTATTAAATT
1 TATATAATTAAATT
2257339 TA-ATAATT-AATT
1 TATATAATTAAATT
* *
2257351 TATTAAAATTAACTTT
1 TA-TATAATTAA-ATT
2257367 ATATATATATAATAAATT
1 -TATATA-AT--TAAATT
*
2257385 TATATTATTAAATT
1 TATATAATTAAATT
2257399 TA-ATAATT
1 TATATAATT
2257407 GATTTATTAA
Statistics
Matches: 65, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
12 6 0.09
13 16 0.25
14 21 0.32
15 1 0.02
16 7 0.11
17 9 0.14
18 2 0.03
19 3 0.05
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (14 bp):
TATATAATTAAATT
Found at i:2257351 original size:26 final size:26
Alignment explanation
Indices: 2257315--2257405 Score: 83
Period size: 26 Copynumber: 3.2 Consensus size: 26
2257305 ATATATATAT
2257315 ATAATAAATTTATATTATTAAATTTA
1 ATAATAAATTTATATTATTAAATTTA
* * *
2257341 ATAATTAATTTATTAAAATTAACTTTATATATA
1 ATAATAAATTTA-T---ATT-A--TTAAATTTA
2257374 TATAATAAATTTATATTATTAAATTTA
1 -ATAATAAATTTATATTATTAAATTTA
2257401 ATAAT
1 ATAAT
2257406 TGATTTATTA
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
26 16 0.31
27 8 0.16
29 1 0.02
30 6 0.12
31 1 0.02
33 8 0.16
34 11 0.22
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (26 bp):
ATAATAAATTTATATTATTAAATTTA
Found at i:2257389 original size:60 final size:60
Alignment explanation
Indices: 2257306--2257418 Score: 217
Period size: 60 Copynumber: 1.9 Consensus size: 60
2257296 TAACTTTATA
2257306 TATATATATATAATAAATTTATATTATTAAATTTAATAATTAATTTATTAAAATTAACTT
1 TATATATATATAATAAATTTATATTATTAAATTTAATAATTAATTTATTAAAATTAACTT
*
2257366 TATATATATATAATAAATTTATATTATTAAATTTAATAATTGATTTATTAAAA
1 TATATATATATAATAAATTTATATTATTAAATTTAATAATTAATTTATTAAAA
2257419 AATAAATATA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 52 1.00
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.50
Consensus pattern (60 bp):
TATATATATATAATAAATTTATATTATTAAATTTAATAATTAATTTATTAAAATTAACTT
Found at i:2257850 original size:5 final size:5
Alignment explanation
Indices: 2257840--2257865 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
2257830 TTATAAATAA
2257840 TAAAT TAAAT TAAAT TAAAT TAAAT T
1 TAAAT TAAAT TAAAT TAAAT TAAAT T
2257866 TATATTTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TAAAT
Found at i:2258062 original size:2 final size:2
Alignment explanation
Indices: 2258055--2258088 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2258045 TTCAAACTAC
2258055 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2258089 GTATGTACAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2258234 original size:18 final size:17
Alignment explanation
Indices: 2258202--2258235 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
2258192 TAGCTAGAAT
2258202 ATTATTTATAATATATC
1 ATTATTTATAATATATC
*
2258219 ATTATATTATATTATAT
1 ATTAT-TTATAATATAT
2258236 TATAGGAGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTATTTATAATATATC
Found at i:2261418 original size:34 final size:35
Alignment explanation
Indices: 2261355--2261421 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
2261345 CTAAGTGATT
2261355 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
2261391 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
2261422 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:2262498 original size:21 final size:21
Alignment explanation
Indices: 2262472--2262513 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2262462 AATCAACCGT
* *
2262472 TCAAGATGATGATGAAGATGA
1 TCAAGAGGATGATGAAAATGA
*
2262493 TCAAGAGGTTGATGAAAATGA
1 TCAAGAGGATGATGAAAATGA
2262514 AGAAATGGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.43, C:0.05, G:0.29, T:0.24
Consensus pattern (21 bp):
TCAAGAGGATGATGAAAATGA
Found at i:2262959 original size:21 final size:21
Alignment explanation
Indices: 2262935--2262993 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
2262925 TAATATTCTT
* *
2262935 GAAAAGAAATTAAGTGAATTA
1 GAAAAGAAAATAAATGAATTA
2262956 GAAAAGAAAATAAATGAATTA
1 GAAAAGAAAATAAATGAATTA
** *
2262977 GAGGAGAAAAGAAATGA
1 GAAAAGAAAATAAATGA
2262994 GTTGCAAGTG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.61, C:0.00, G:0.22, T:0.17
Consensus pattern (21 bp):
GAAAAGAAAATAAATGAATTA
Found at i:2266869 original size:34 final size:35
Alignment explanation
Indices: 2266806--2266872 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
2266796 CTAAGTGATT
2266806 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
2266842 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
2266873 TATTGTAAGG
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:2268116 original size:22 final size:21
Alignment explanation
Indices: 2268084--2268137 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 21
2268074 ACTAGAAAAG
*
2268084 GAAAAAGAGGAAGAAAAAATAGA
1 GAAAAA-AGGAA-AAAAAAGAGA
2268107 GAAAAAAGGAAAAAAAAGAGA
1 GAAAAAAGGAAAAAAAAGAGA
*
2268128 AAATAAAAGG
1 GAA-AAAAGG
2268138 TTTTTTCAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 11 0.39
22 11 0.39
23 6 0.21
ACGTcount: A:0.72, C:0.00, G:0.24, T:0.04
Consensus pattern (21 bp):
GAAAAAAGGAAAAAAAAGAGA
Found at i:2269022 original size:57 final size:57
Alignment explanation
Indices: 2268915--2269024 Score: 134
Period size: 57 Copynumber: 1.9 Consensus size: 57
2268905 TTTAGGATCA
* * *
2268915 TTTATGCATTTTCATATATTTTAGGGTCATTTTAGTAATTTGCCACGTTTTAGAAAT
1 TTTATGCAATTTCATATATTTTAGGCTCATTTTAGTAATTTGCAACGTTTTAGAAAT
* * *
2268972 TTTATGCAATTTCATGA-ATTTTAGGACT-ATTTTAGTCATTTTCAATGTTTTAG
1 TTTATGCAATTTCAT-ATATTTTAGG-CTCATTTTAGTAATTTGCAACGTTTTAG
2269025 GGACTATTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
57 43 0.96
58 2 0.04
ACGTcount: A:0.26, C:0.10, G:0.14, T:0.50
Consensus pattern (57 bp):
TTTATGCAATTTCATATATTTTAGGCTCATTTTAGTAATTTGCAACGTTTTAGAAAT
Found at i:2274609 original size:29 final size:28
Alignment explanation
Indices: 2274570--2274685 Score: 126
Period size: 29 Copynumber: 4.1 Consensus size: 28
2274560 ACCTGAAAAG
* * **
2274570 GGTGTCACTAACTTGTGGGCTTACGAGAA
1 GGTGCCACTAACTTGTGGACTTTTGA-AA
*
2274599 GATGCCACTAACTTGTGGACTTTTGAAAA
1 GGTGCCACTAACTTGTGGACTTTTG-AAA
*
2274628 GGTGCCACTAACTTGTAGACTTTTGAAA
1 GGTGCCACTAACTTGTGGACTTTTGAAA
* *
2274656 GGGTGCCACTGACTTGTGGGC-TTTGAAA
1 -GGTGCCACTAACTTGTGGACTTTTGAAA
2274684 GG
1 GG
2274686 ATTTAACTCC
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
27 2 0.03
28 10 0.13
29 62 0.83
30 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.29
Consensus pattern (28 bp):
GGTGCCACTAACTTGTGGACTTTTGAAA
Found at i:2279118 original size:165 final size:166
Alignment explanation
Indices: 2278887--2279188 Score: 453
Period size: 165 Copynumber: 1.8 Consensus size: 166
2278877 AAGTACGGTA
* * * *
2278887 TTTTCTACTCTATAAATTTTTTTTGAGGAGATTTTTCTTGGTTTTCAATTTTTAAAATTTATCAA
1 TTTTCTACTCCATAAATTTTTTTCGAGGAGATTTTCCTTGGTTTTCAATTTTTAAAATTCATCAA
* * *
2278952 ACATTATCATCTATTCCATATTAATCCGGTTTTCAAAAATTCATTCATTTTCATAAATTTTTAAA
66 ACATCATCATCTATTCCATATTAATCCAGTTTTCAAAAATTCATTCATCTTCATAAATTTTTAAA
2279017 TTTTTTCCTCGAAACTCCGTTTTTTTAAATACGTTG
131 TTTTTTCCTCGAAACTCCGTTTTTTTAAATACGTTG
* *
2279053 TTTTCTACTCCGTAAA-TTTTTTCGAGGGGATTTTCCTTGGTTTTCAATTTTTAAAATTCATCAA
1 TTTTCTACTCCATAAATTTTTTTCGAGGAGATTTTCCTTGGTTTTCAATTTTTAAAATTCATCAA
* * * * * * *
2279117 ACATCATTATTTATTTCATATTAATTCAGTTTTTAAAAATTCATTCATCTTCATGAGTTTTTAAA
66 ACATCATCATCTATTCCATATTAATCCAGTTTTCAAAAATTCATTCATCTTCATAAATTTTTAAA
2279182 TTTTTTC
131 TTTTTTC
2279189 TTTGAAACCC
Statistics
Matches: 120, Mismatches: 16, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
165 106 0.88
166 14 0.12
ACGTcount: A:0.28, C:0.14, G:0.08, T:0.50
Consensus pattern (166 bp):
TTTTCTACTCCATAAATTTTTTTCGAGGAGATTTTCCTTGGTTTTCAATTTTTAAAATTCATCAA
ACATCATCATCTATTCCATATTAATCCAGTTTTCAAAAATTCATTCATCTTCATAAATTTTTAAA
TTTTTTCCTCGAAACTCCGTTTTTTTAAATACGTTG
Found at i:2279218 original size:17 final size:18
Alignment explanation
Indices: 2279184--2279225 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
2279174 TTTTTAAATT
**
2279184 TTTTCTTTGAAACCCCTA-
1 TTTTC-TTGAAAAACCTAG
2279202 TTTTCTTGAAAAACCTAG
1 TTTTCTTGAAAAACCTAG
2279220 TTTTCT
1 TTTTCT
2279226 ATTTCATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.24, C:0.21, G:0.07, T:0.48
Consensus pattern (18 bp):
TTTTCTTGAAAAACCTAG
Found at i:2279366 original size:25 final size:25
Alignment explanation
Indices: 2279319--2279367 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
2279309 CAGTTTTGAA
*
2279319 AATTTTTTTTATTTCATTAATTTTG
1 AATTTTTTTTATATCATTAATTTTG
*
2279344 AATTTTTTTGTATAT-ATTGATTTT
1 AATTTTTTT-TATATCATTAATTTT
2279368 CCTACATCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.24, C:0.02, G:0.06, T:0.67
Consensus pattern (25 bp):
AATTTTTTTTATATCATTAATTTTG
Found at i:2279883 original size:24 final size:24
Alignment explanation
Indices: 2279837--2279884 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
2279827 AAACTTAGCT
* *
2279837 GAAAAGAGAGAAAAAACGAAGAAA
1 GAAAAGAGAAAAAAAAAGAAGAAA
2279861 GAAAAGAGAAAAAAAATAG-AGAAA
1 GAAAAGAGAAAAAAAA-AGAAGAAA
2279885 ATAGGTAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 20 0.95
25 1 0.05
ACGTcount: A:0.73, C:0.02, G:0.23, T:0.02
Consensus pattern (24 bp):
GAAAAGAGAAAAAAAAAGAAGAAA
Found at i:2280961 original size:163 final size:162
Alignment explanation
Indices: 2280684--2281136 Score: 616
Period size: 163 Copynumber: 2.8 Consensus size: 162
2280674 TATATATTTT
* * *
2280684 AATATTAATCATTTTAAAATCTTTTATATTCCTAAGAGTATCTGTAGGGGTATAAAAGATTTCAA
1 AATATTAATCATTTTTAAAT-TTTTATATTCCTATGGGTATCTGTAGGGGTATAAAAGATTTCAA
*
2280749 AAACTTTAT-GTATCTTTTCGGGTATCCATTAAGGTACGAAATAATTTTTTTCAAAAATAAATAA
65 AAACTTT-TCGTATCTTTTCGGGTATCCATTAAGGTACGAAATGATTTTTTTCAAAAATAAATAA
2280813 ATAAAATTAAATTCACTCCTCATTAATTACAACA
129 ATAAAATTAAATTCACTCCTCATTAATTACAACA
* *
2280847 AATATTAATCATTTTTAAATTTTTTATATTCCTATGGGTATCCGTAGGGGTATTAAAGATTTCAA
1 AATATTAATCATTTTTAAA-TTTTTATATTCCTATGGGTATCTGTAGGGGTATAAAAGATTTCAA
** * *
2280912 AAACTTTTCGTATCTTTTTAGGTATCCATTAA-GAAGCGAAATGATTTTTTTCAAAAATAAATAT
65 AAACTTTTCGTATCTTTTCGGGTATCCATTAAGGTA-CGAAATGATTTTTTTCAAAAATAAATAA
* * *
2280976 ATAATATTAATTTCACTCCTCGTTAATTACAACA
129 ATAAAATTAAATTCACTCCTCATTAATTACAACA
* * * *
2281010 AACATTAATCATTTTTTAAA----TAT-TT-TTATGGGTATCTATAGAGGTATAAAAGATTTCAA
1 AATATTAATCA-TTTTTAAATTTTTATATTCCTATGGGTATCTGTAGGGGTATAAAAGATTTCAA
* * *
2281069 AAACTTTTCGTATCTTTTCGGGCATCCATTAAGGTACGAAATGTTTTTTTTCCAAATATAAATAA
65 AAACTTTTCGTATCTTTTCGGGTATCCATTAAGGTACGAAATGATTTTTTT-CAAAAATAAATAA
2281134 ATA
129 ATA
2281137 TCAATTATTT
Statistics
Matches: 258, Mismatches: 26, Indels: 17
0.86 0.09 0.06
Matches are distributed among these distances:
157 72 0.28
158 18 0.07
159 3 0.01
162 3 0.01
163 153 0.59
164 9 0.03
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (162 bp):
AATATTAATCATTTTTAAATTTTTATATTCCTATGGGTATCTGTAGGGGTATAAAAGATTTCAAA
AACTTTTCGTATCTTTTCGGGTATCCATTAAGGTACGAAATGATTTTTTTCAAAAATAAATAAAT
AAAATTAAATTCACTCCTCATTAATTACAACA
Found at i:2282296 original size:11 final size:11
Alignment explanation
Indices: 2282280--2282306 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
2282270 TAGGTTCATC
2282280 CCTTTTATAGT
1 CCTTTTATAGT
2282291 CCTTTTATAGT
1 CCTTTTATAGT
2282302 CCTTT
1 CCTTT
2282307 AGGGATATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.15, C:0.22, G:0.07, T:0.56
Consensus pattern (11 bp):
CCTTTTATAGT
Found at i:2282303 original size:156 final size:155
Alignment explanation
Indices: 2281895--2282310 Score: 474
Period size: 156 Copynumber: 2.7 Consensus size: 155
2281885 CACCAATTTG
* * * * * *
2281895 TTACGAAACCAAGTCCTAGGTAACCACCAGGTCTGCTTTTATGCCGAAGGTGTGTATTTAGGATA
1 TTACAAAATCAAGTCCTAGGTTATCACCGGGTCTGCTTTTATGCCGAAGGTGGGTATTTAGGATA
* * * * * * *
2281960 TGTTTATTCCTTTTATAGTTCTTTTTAAGTTCTTTAAGGGTATCGAGATACTTTCACATCGAAGG
66 GGTTCATCCCTTTTATAG-TCTTTTTAAGTCCTTTAGGGGTACCGAGATACTTTCACATCAAAGG
*
2282025 TATCCCCTAGGAGCATTTTCGTAATT
130 TATCCCCTAGGAGCATTTTCATAATT
* * * ** *
2282051 TTTCAAAATCAAGTCCTAGGTTATCACCGAGTCTGCTTTTATGCCGAAGGTAGACATTTGGGATA
1 TTACAAAATCAAGTCCTAGGTTATCACCGGGTCTGCTTTTATGCCGAAGGTGGGTATTTAGGATA
* * * * *
2282116 GGTTCATCCATTTTAAAATTTTTTTTAAGTCCTTTAGGGGTACCGAGATACTTTCACGTCAAAGG
66 GGTTCATCCCTTTT-ATAGTCTTTTTAAGTCCTTTAGGGGTACCGAGATACTTTCACATCAAAGG
*
2282181 TATCCCCTAGG-GATATTTTCATAATT
130 TATCCCCTAGGAG-CATTTTCATAATT
* * * * ** * *
2282207 TTACAAAATCGAGTCTTAGGTTATCATCGGGTCTGTTTTTATGCCGAAAATGGGTTTTTAAGATA
1 TTACAAAATCAAGTCCTAGGTTATCACCGGGTCTGCTTTTATGCCGAAGGTGGGTATTTAGGATA
*
2282272 GGTTCATCCCTTTTATAGTCCTTTTATAGTCCTTTAGGG
66 GGTTCATCCCTTTTATAGTCTTTTTA-AGTCCTTTAGGG
2282311 ATATCAGGTA
Statistics
Matches: 212, Mismatches: 45, Indels: 6
0.81 0.17 0.02
Matches are distributed among these distances:
155 9 0.04
156 201 0.95
157 2 0.01
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.38
Consensus pattern (155 bp):
TTACAAAATCAAGTCCTAGGTTATCACCGGGTCTGCTTTTATGCCGAAGGTGGGTATTTAGGATA
GGTTCATCCCTTTTATAGTCTTTTTAAGTCCTTTAGGGGTACCGAGATACTTTCACATCAAAGGT
ATCCCCTAGGAGCATTTTCATAATT
Found at i:2284309 original size:409 final size:409
Alignment explanation
Indices: 2283527--2284317 Score: 1138
Period size: 409 Copynumber: 1.9 Consensus size: 409
2283517 TGCGACACCC
** *
2283527 TTCGCTTGAAAAAAATGCAATTCTCAATGTCATGTCTTACTACCCGAGCATGGTAATCACAATGG
1 TTCGCTTGAAAAAAATGCAATTCTCAATGTCATGTCCCACTACCCGACCATGGTAATCACAATGG
* *
2283592 AAATTAGGGTTATACTAGTGAGGATATGGAGGCTTCCTCTCTAGGACATATTCAGGGGCCACTAG
66 AAATTAGGGTTATACTAGTGAGGATATGAAAGCTTCCTCTCTAGGACATATTCAGGGGCCACTAG
* * * * * * *
2283657 ATGCCTTTGGAGTAGAGTTTGGTAAAGCTCTTTGTATGTTATAGGGATAAGGTCAAACTACTGCC
131 ATGACTTTAGAGTAGAGTTCGGTAAAACTCTTTGTATGTCATAAGGATAAGGTCAAACTAATGCC
* * * *
2283722 TCTATTGGTTCGCACCTGGATTGTTTGGTGCATTATTGATAGTAGGGTTAGTATTTATGTTAGCC
196 TCTATTGGTTCGCACCTGGATTGTTTGGTGCATTATTAATAATAGGGTTAGTATTTAGGTTAGCA
* * * *
2283787 TAGGGTCAATTATTTCATGGTGGATGTAGTGGGACAGTAAAGGATGGGCTATAAGTTACGACATA
261 TAGGGTCAATCATTTCATGGTGGATGCAGTGGGACAGTAAAAGATAGGCTATAAGTTACGACATA
* * * * * * *
2283852 CACTGGCTAAAAAGGTATTATGACTTGGCCTAGGTAAGGTGCCCTAGGTTGTAAGGACCTTTGAA
326 CACCGACTAAAAAGGTATCAAGACTGGGCCTAGGTAAGGTGACCTAGGTAGTAAGGACCTTTGAA
2283917 TAACAAAGGCCTTATACCT
391 TAACAAAGGCCTTATACCT
** *
2283936 TTCGCTTGAAAAGGATGCAATTCTCAATGTCATGTCCCACTACCCTACCATGGTAATCACAATGG
1 TTCGCTTGAAAAAAATGCAATTCTCAATGTCATGTCCCACTACCCGACCATGGTAATCACAATGG
* * *
2284001 ATATT-GAGGTTATACTAGTGAGGATATGAAAGCTTCCTCTCTAGGATATACTT-AGGGGCCATT
66 AAATTAG-GGTTATACTAGTGAGGATATGAAAGCTTCCTCTCTAGGACATA-TTCAGGGGCCACT
2284064 AGATGACTTTAGAGTAGAGTTCGGTAAAACTCTTTGTATGTCATAAGGATAA-GTCAAACTAATG
129 AGATGACTTTAGAGTAGAGTTCGGTAAAACTCTTTGTATGTCATAAGGATAAGGTCAAACTAATG
*
2284128 CCTCTGTTGGTTCGCACCTGGATTGTTTGGTGCATTATTAATAATAGGGTTAGTATTTAGGTTAG
194 CCTCTATTGGTTCGCACCTGGATTGTTTGGTGCATTATTAATAATAGGGTTAGTATTTAGGTTAG
* ** * * *
2284193 CATGGGGTCGGTCATTTCATGGTGGATGCAGTGGGACAGTAAAAGATAGGTTATAGGTTGCGACA
259 CATAGGGTCAATCATTTCATGGTGGATGCAGTGGGACAGTAAAAGATAGGCTATAAGTTACGACA
* * * *
2284258 TATACCGATTGAAAAGGTATCAAGACTGGGCCTGGGTAAGGTGAACCTAGGTAGTAAGGA
324 TACACCGACTAAAAAGGTATCAAGACTGGGCCTAGGTAAGGTG-ACCTAGGTAGTAAGGA
2284318 TCGAGTGTTA
Statistics
Matches: 335, Mismatches: 44, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
408 161 0.48
409 172 0.51
410 2 0.01
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (409 bp):
TTCGCTTGAAAAAAATGCAATTCTCAATGTCATGTCCCACTACCCGACCATGGTAATCACAATGG
AAATTAGGGTTATACTAGTGAGGATATGAAAGCTTCCTCTCTAGGACATATTCAGGGGCCACTAG
ATGACTTTAGAGTAGAGTTCGGTAAAACTCTTTGTATGTCATAAGGATAAGGTCAAACTAATGCC
TCTATTGGTTCGCACCTGGATTGTTTGGTGCATTATTAATAATAGGGTTAGTATTTAGGTTAGCA
TAGGGTCAATCATTTCATGGTGGATGCAGTGGGACAGTAAAAGATAGGCTATAAGTTACGACATA
CACCGACTAAAAAGGTATCAAGACTGGGCCTAGGTAAGGTGACCTAGGTAGTAAGGACCTTTGAA
TAACAAAGGCCTTATACCT
Found at i:2284991 original size:13 final size:13
Alignment explanation
Indices: 2284973--2284997 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2284963 CATAAAGTGT
2284973 TGTATCGATACAA
1 TGTATCGATACAA
2284986 TGTATCGATACA
1 TGTATCGATACA
2284998 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2285016 original size:32 final size:33
Alignment explanation
Indices: 2284953--2285018 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 33
2284943 TTCAACGATT
*
2284953 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCAATACAA
*
2284986 TGTATCGATACAT-AAGTTTTGTATCAATACAA
1 TGTATCGATACATAAAGTGTTGTATCAATACAA
2285018 T
1 T
2285019 TTAAGCTACT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.58
33 13 0.42
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.36
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCAATACAA
Found at i:2285077 original size:13 final size:13
Alignment explanation
Indices: 2285059--2285084 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2285049 ATTACTCAAA
2285059 TGTATCGATACAT
1 TGTATCGATACAT
2285072 TGTATCGATACAT
1 TGTATCGATACAT
2285085 GCAGGCAAAT
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:2285150 original size:52 final size:52
Alignment explanation
Indices: 2285072--2285251 Score: 324
Period size: 52 Copynumber: 3.5 Consensus size: 52
2285062 ATCGATACAT
* * *
2285072 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATTGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
2285124 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
*
2285176 TGTATCGATACATGTAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
2285228 TGTATCGATACATGCAGGCAAATT
1 TGTATCGATACATGCAGGCAAATT
2285252 CTCATATTTC
Statistics
Matches: 123, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 123 1.00
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
Found at i:2289862 original size:9 final size:9
Alignment explanation
Indices: 2289844--2289888 Score: 54
Period size: 9 Copynumber: 4.8 Consensus size: 9
2289834 AGTCAAAAGT
*
2289844 AAAAACACA
1 AAAAAAACA
2289853 AAAAAAACA
1 AAAAAAACA
*
2289862 ACAAAAACCA
1 A-AAAAAACA
2289872 AAAAAAACA
1 AAAAAAACA
2289881 CAAAAAAA
1 -AAAAAAA
2289889 AAAGAATGCA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
9 16 0.52
10 15 0.48
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAAACA
Found at i:2289865 original size:12 final size:11
Alignment explanation
Indices: 2289844--2289889 Score: 62
Period size: 10 Copynumber: 4.5 Consensus size: 11
2289834 AGTCAAAAGT
2289844 AAAAACAC-AA
1 AAAAACACAAA
*
2289854 AAAAA-ACAAC
1 AAAAACACAAA
2289864 AAAAAC-CAAA
1 AAAAACACAAA
2289874 AAAAACACAAA
1 AAAAACACAAA
2289885 AAAAA
1 AAAAA
2289890 AAGAATGCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
9 2 0.06
10 20 0.65
11 9 0.29
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAACACAAA
Found at i:2289887 original size:19 final size:20
Alignment explanation
Indices: 2289844--2289886 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
2289834 AGTCAAAAGT
2289844 AAAAACACAAAAAAAACAAC
1 AAAAACACAAAAAAAACAAC
2289864 AAAAAC-CAAAAAAAAC-AC
1 AAAAACACAAAAAAAACAAC
2289882 AAAAA
1 AAAAA
2289887 AAAAAGAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 7 0.30
19 10 0.43
20 6 0.26
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (20 bp):
AAAAACACAAAAAAAACAAC
Found at i:2291194 original size:30 final size:30
Alignment explanation
Indices: 2291159--2291369 Score: 278
Period size: 32 Copynumber: 6.8 Consensus size: 30
2291149 TCTTCAAATC
2291159 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
*
2291189 TCTCTTCTCAAAGTCCACAACTCAGTGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
* *
2291219 TCTCTTCTCTCAAAGTCCACAACTCAATGGCA
1 TCTC-T-TCTCAAAGTCCACGACTCAGTGGCA
*
2291251 TCTCTTTTTTCAAAGTCCACGACTCAGTGGCA
1 TCTC--TTCTCAAAGTCCACGACTCAGTGGCA
*
2291283 TCTCTTTTCTTCAAAGTCCATGACTCAGTGGCAA
1 TCTC--TTC-TCAAAGTCCACGACTCAGTGGC-A
*
2291317 TCTCTTCTCAAAGTCCACGACTTAGTGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
* *
2291347 TCTCTTCCCAAAGTCCACAACTC
1 TCTCTTCTCAAAGTCCACGACTC
2291370 CGTAGCACCT
Statistics
Matches: 164, Mismatches: 12, Indels: 10
0.88 0.06 0.05
Matches are distributed among these distances:
30 54 0.33
31 21 0.13
32 61 0.37
33 23 0.14
34 5 0.03
ACGTcount: A:0.25, C:0.32, G:0.13, T:0.30
Consensus pattern (30 bp):
TCTCTTCTCAAAGTCCACGACTCAGTGGCA
Found at i:2291457 original size:27 final size:27
Alignment explanation
Indices: 2291421--2291478 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
2291411 CTCTTTTTCC
*
2291421 TTTTAAGTCCACAACTTCGTGCCACCT
1 TTTTAAGTCCACAACTCCGTGCCACCT
* *
2291448 TTTTAAGTCCACAACTCCGTGGCATCT
1 TTTTAAGTCCACAACTCCGTGCCACCT
2291475 TTTT
1 TTTT
2291479 CCTTTTAAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.21, C:0.29, G:0.12, T:0.38
Consensus pattern (27 bp):
TTTTAAGTCCACAACTCCGTGCCACCT
Found at i:2291488 original size:33 final size:33
Alignment explanation
Indices: 2291357--2291642 Score: 264
Period size: 34 Copynumber: 8.8 Consensus size: 33
2291347 TCTCTTCCCA
* *
2291357 AAGTCCACAACTCCGTAGCACCTTTTTCTTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
* *
2291390 AAAGCCCACAACTCCATGGCACTCTTTTTCCTTTT
1 -AAGTCCACAACTCCGTGGCAC-CTTTTTCCTTTT
* *
2291425 AAGTCCACAACTTCGTGCCACC----T--TTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
*
2291452 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
* * * *
2291485 AAGTCCATAAATCCGCGGCACCTTGTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
* *
2291518 AAGTCCATAACTCCGTGGCACC-TTTTCTTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
** *
2291550 AAGTCCATGACTCCGTGGCACCCTTTTCCCTTTT
1 AAGTCCACAACTCCGTGGCA-CCTTTTTCCTTTT
* ** * * * *
2291584 AA-TCCAACACCTCTATGCCATTCTTTTTTCTTGT
1 AAGTCC-ACAACTCCGTGGCA-CCTTTTTCCTTTT
2291618 AAGTCCACAACTCCGTGGCACCTTT
1 AAGTCCACAACTCCGTGGCACCTTT
2291643 AACACCAATA
Statistics
Matches: 202, Mismatches: 39, Indels: 23
0.77 0.15 0.09
Matches are distributed among these distances:
27 23 0.11
29 1 0.00
31 1 0.00
32 27 0.13
33 62 0.31
34 74 0.37
35 14 0.07
ACGTcount: A:0.20, C:0.32, G:0.12, T:0.36
Consensus pattern (33 bp):
AAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
Found at i:2291530 original size:66 final size:66
Alignment explanation
Indices: 2291448--2291589 Score: 191
Period size: 66 Copynumber: 2.2 Consensus size: 66
2291438 CGTGCCACCT
*
2291448 TTTTAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCATAAATCCGCGGCA-CCTTGTT
1 TTTTAAGTCCACAACTCCGTGGCA-CCTTTTCCTTTTAAGTCCATAAATCCGCGGCACCCTT-TT
2291512 -CC
64 CCC
* * * * *
2291514 TTTTAAGTCCATAACTCCGTGGCACCTTTTCTTTTTAAGTCCATGACTCCGTGGCACCCTTTTCC
1 TTTTAAGTCCACAACTCCGTGGCACCTTTTCCTTTTAAGTCCATAAATCCGCGGCACCCTTTTCC
2291579 C
66 C
2291580 TTTTAA-TCCA
1 TTTTAAGTCCA
2291590 ACACCTCTAT
Statistics
Matches: 68, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
65 33 0.49
66 35 0.51
ACGTcount: A:0.19, C:0.30, G:0.13, T:0.38
Consensus pattern (66 bp):
TTTTAAGTCCACAACTCCGTGGCACCTTTTCCTTTTAAGTCCATAAATCCGCGGCACCCTTTTCC
C
Found at i:2291681 original size:43 final size:43
Alignment explanation
Indices: 2291633--2291914 Score: 178
Period size: 43 Copynumber: 6.2 Consensus size: 43
2291623 CACAACTCCG
2291633 TGGCACCTTTAACACCAATATCGCTGGCCTTGAATCAGCATAT
1 TGGCACCTTTAACACCAATATCGCTGGCCTTGAATCAGCATAT
* * * *
2291676 TGGCACCTTTATCTTTAAGACCAATGTCGCTAGCCTTGAATCAGCACAT
1 TGGCA-C-----CTTTAACACCAATATCGCTGGCCTTGAATCAGCATAT
* * ** *
2291725 TAGCACTTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATAT
1 TGGCACCTTTAACACCAATATCGCTGGCCTTGAATCAGCATAT
* *
2291768 TGGCATCTTTACCATCTTGAGTCCAATATCGCTGGCCTTGAATCAGCGTAT
1 TGGCACCTTTA--A-C---A--CCAATATCGCTGGCCTTGAATCAGCATAT
* * * * * *
2291819 TGGTACCTTGTCTTTAAGATCAATGTCGCTGGCCTTGAATTAGCACAT
1 TGGCA-C----CTTTAACACCAATATCGCTGGCCTTGAATCAGCATAT
*
2291867 TGGCA----TAAGC-CCAATATCGTTGGCCTTGAATCAGCATAT
1 TGGCACCTTTAA-CACCAATATCGCTGGCCTTGAATCAGCATAT
*
2291906 TGACACCTT
1 TGGCACCTT
2291915 GTCTCTAAGA
Statistics
Matches: 181, Mismatches: 34, Indels: 48
0.69 0.13 0.18
Matches are distributed among these distances:
39 31 0.17
43 44 0.24
44 1 0.01
45 1 0.01
48 29 0.16
49 37 0.20
50 1 0.01
51 31 0.17
54 1 0.01
56 5 0.03
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (43 bp):
TGGCACCTTTAACACCAATATCGCTGGCCTTGAATCAGCATAT
Found at i:2291941 original size:87 final size:87
Alignment explanation
Indices: 2291790--2291970 Score: 263
Period size: 87 Copynumber: 2.1 Consensus size: 87
2291780 CATCTTGAGT
* ** * * * *
2291790 CCAATATCGCTGGCCTTGAATCAGCGTATTGGTACCTTGTCTTTAAGATCAATGTCGCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGACACCTTGTCTCTAAGACCAATGTCACTAGCCTT
* *
2291855 GAATTAGCACATTGGCATAAGC
66 GAATCAGCACATTGGCACAAGC
*
2291877 CCAATATCGTTGGCCTTGAATCAGCATATTGACACCTTGTCTCTAAGACCAATGTCACTAGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGACACCTTGTCTCTAAGACCAATGTCACTAGCCTT
*
2291942 GAGTCAGCACATTGGCACAAGC
66 GAATCAGCACATTGGCACAAGC
2291964 CCAATAT
1 CCAATAT
2291971 TGGCACCTTC
Statistics
Matches: 83, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
87 83 1.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (87 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGACACCTTGTCTCTAAGACCAATGTCACTAGCCTT
GAATCAGCACATTGGCACAAGC
Found at i:2292026 original size:49 final size:49
Alignment explanation
Indices: 2291969--2292188 Score: 296
Period size: 49 Copynumber: 4.4 Consensus size: 49
2291959 CAAGCCCAAT
* * *
2291969 ATTGGCACCTTCATCTTTAAGACCGATGCCGTTGGCCTTGAATCAGCAC
1 ATTGGCACCTTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCAC
* * *
2292018 ATTGGCACCTTAACCATCTTTAAGTCCAATGTCGCCGGCCTTGAATTAGCAC
1 ATTGGCACCTT---CATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCAC
* * * * * *
2292070 ATTGGCATCTTCATCTTTAAGTCCGATATTGCTGGCCTTGAATCAGCAT
1 ATTGGCACCTTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCAC
*
2292119 ATTGGCACCTTTATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCAC
1 ATTGGCACCTTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCAC
2292168 ATTGGCACCTTCATCTTTAAG
1 ATTGGCACCTTCATCTTTAAG
2292189 TCTGATATCG
Statistics
Matches: 147, Mismatches: 21, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
49 105 0.71
52 42 0.29
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (49 bp):
ATTGGCACCTTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCAC
Found at i:2292180 original size:98 final size:99
Alignment explanation
Indices: 2291969--2292198 Score: 327
Period size: 98 Copynumber: 2.3 Consensus size: 99
2291959 CAAGCCCAAT
* ** *
2291969 ATTGGCACCTTCATCTTTAAGACCGATGCCGTTGGCCTTGAATCAGCACATTGGCACCTTAACCA
1 ATTGGCACCTTCATCTTTAAGTCCGATATCGCTGGCCTTGAATCAGCACATTGGCACCTT-A-CA
* *
2292034 TCTTTAAGTCCAATGTCGCCGGCCTTGAATTAGCAC
64 TCTTTAAGACCAATGTCGCCGGCCTTGAATCAGCAC
* * * *
2292070 ATTGGCATCTTCATCTTTAAGTCCGATATTGCTGGCCTTGAATCAGCATATTGGCACCTT-TATC
1 ATTGGCACCTTCATCTTTAAGTCCGATATCGCTGGCCTTGAATCAGCACATTGGCACCTTACATC
*
2292134 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCAC
66 TTTAAGACCAATGTCGCCGGCCTTGAATCAGCAC
*
2292168 ATTGGCACCTTCATCTTTAAGTCTGATATCG
1 ATTGGCACCTTCATCTTTAAGTCCGATATCG
2292199 TATTGGCATC
Statistics
Matches: 115, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
98 62 0.54
101 53 0.46
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.32
Consensus pattern (99 bp):
ATTGGCACCTTCATCTTTAAGTCCGATATCGCTGGCCTTGAATCAGCACATTGGCACCTTACATC
TTTAAGACCAATGTCGCCGGCCTTGAATCAGCAC
Found at i:2301098 original size:79 final size:78
Alignment explanation
Indices: 2300990--2301164 Score: 176
Period size: 79 Copynumber: 2.2 Consensus size: 78
2300980 AAATAAGACA
* * * * *
2300990 AGGGTTGAAGTGTCCCCGATTATAGAAAAT-AGATGTTTCAAAAATAAAGTCGGGATTGGAGCAT
1 AGGGTTGGAGTATCCCCAATTATAGAAAATCA-ATATTTCAAAAATAAAGCCGGGATTGGAGCAT
* *
2301054 -CCTTGTGAAAATAAT
65 CCCTCG-G-AAATAAC
** * *
2301069 AGGGTTGGAGTATCCCCAATTAT-GAAAAATCAATATTTTGAAAATAAAGCCGGGGTTGGAGTAT
1 AGGGTTGGAGTATCCCCAATTATAG-AAAATCAATATTTCAAAAATAAAGCCGGGATTGGAGCAT
*
2301133 CCCCTCGGAAGTAAC
65 -CCCTCGGAAATAAC
2301148 AGGGTTGGAGTATCCCC
1 AGGGTTGGAGTATCCCC
2301165 GATGAAATAA
Statistics
Matches: 80, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
78 1 0.01
79 73 0.91
80 2 0.03
81 4 0.05
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (78 bp):
AGGGTTGGAGTATCCCCAATTATAGAAAATCAATATTTCAAAAATAAAGCCGGGATTGGAGCATC
CCTCGGAAATAAC
Found at i:2301175 original size:28 final size:27
Alignment explanation
Indices: 2301121--2301195 Score: 78
Period size: 28 Copynumber: 2.7 Consensus size: 27
2301111 AATAAAGCCG
*** *
2301121 GGGTTGGAGTATCCCCTCGGAAGTAAC
1 GGGTTGGAGTATCCCCGATGAAATAAC
2301148 AGGGTTGGAGTATCCCCGATGAAATAAC
1 -GGGTTGGAGTATCCCCGATGAAATAAC
* *
2301176 GAGGTTGAAGTATCCTCGAT
1 G-GGTTGGAGTATCCCCGAT
2301196 TGTGAAAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
27 1 0.03
28 39 0.98
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.24
Consensus pattern (27 bp):
GGGTTGGAGTATCCCCGATGAAATAAC
Found at i:2301247 original size:51 final size:51
Alignment explanation
Indices: 2301186--2301293 Score: 144
Period size: 51 Copynumber: 2.1 Consensus size: 51
2301176 GAGGTTGAAG
* * * *
2301186 TATCCTCGATTGTGAAAAATTAGTGTTTTGGAAATAAAATCGGAGTTGGAA
1 TATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGGAGTTCGAA
* * * *
2301237 TATCCCCGATTGTGGAGAATTAGTGTTTTAGAAATAAAACCGGGGTTCGAG
1 TATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGGAGTTCGAA
2301288 TATCCC
1 TATCCC
2301294 TCAAAAATAA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.31
Consensus pattern (51 bp):
TATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGGAGTTCGAA
Found at i:2301319 original size:78 final size:80
Alignment explanation
Indices: 2301230--2301412 Score: 273
Period size: 78 Copynumber: 2.3 Consensus size: 80
2301220 TAAAATCGGA
* * *
2301230 GTTGGAATATCCCCGATTGTGGAGAATT-AGTGTTTTAGAAATAAAACCG-GGGTTCGAGTAT-C
1 GTTGGAGTATCCCCGATTGTGAAAAATTGA-TGTTTTAGAAATAAAACCGAGGGTTCGAGTATCC
2301292 CCTCAAAAATAACGGG
65 CCTCAAAAATAACGGG
* * *
2301308 GTTGGAGTATCCCCGATTATGAAAAATTGATTTTTTAGAAATAAAACCGAGGGTTTGAGTATCCC
1 GTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACCGAGGGTTCGAGTATCCC
2301373 CTCAAAAATAACGGG
66 CTCAAAAATAACGGG
*
2301388 GTTGGAGTATCCCTGATTGTGAAAA
1 GTTGGAGTATCCCCGATTGTGAAAA
2301413 GTCGGTGTTC
Statistics
Matches: 94, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
78 42 0.45
79 12 0.13
80 40 0.43
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (80 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACCGAGGGTTCGAGTATCCC
CTCAAAAATAACGGG
Found at i:2301398 original size:80 final size:78
Alignment explanation
Indices: 2301230--2301449 Score: 271
Period size: 80 Copynumber: 2.8 Consensus size: 78
2301220 TAAAATCGGA
* * *
2301230 GTTGGAATATCCCCGATTGTGGAGAATTAGTGTTTTAGAAATAAAACCGGGGTTCGAGTATCCCT
1 GTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGGGGTTCGAGTATCCCT
2301295 CAAAAATAACGGG
66 CAAAAATAACGGG
* * *
2301308 GTTGGAGTATCCCCGATTATGAAAAATT-GATTTTTTAGAAATAAAACCGAGGGTTTGAGTATCC
1 GTTGGAGTATCCCCGATTGTGAAAAATTAG-TGTTTTAGAAATAAAACCG-GGGTTCGAGTAT-C
2301372 CCTCAAAAATAACGGG
63 CCTCAAAAATAACGGG
* * ** * * * * *
2301388 GTTGGAGTATCCCTGATTGTGAAAAGTCGGTGTTCTGGAAATAAAATCGGAGTTTGAGTATC
1 GTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGGGGTTCGAGTATC
2301450 TCTGATGATG
Statistics
Matches: 123, Mismatches: 15, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
77 1 0.01
78 43 0.35
79 22 0.18
80 56 0.46
81 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (78 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGGGGTTCGAGTATCCCT
CAAAAATAACGGG
Found at i:2302965 original size:19 final size:19
Alignment explanation
Indices: 2302941--2303005 Score: 70
Period size: 21 Copynumber: 3.6 Consensus size: 19
2302931 TAGCCAAACT
2302941 TGTATCGATACACAAAATA
1 TGTATCGATACACAAAATA
2302960 TGTATCGAT--AC---A-A
1 TGTATCGATACACAAAATA
2302973 TGTATCGATACACAAAAAATA
1 TGTATCGATACAC--AAAATA
2302994 TGTATCGATACA
1 TGTATCGATACA
2303006 TTGGCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
15 2 0.05
17 2 0.05
19 9 0.24
20 1 0.03
21 13 0.34
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (19 bp):
TGTATCGATACACAAAATA
Found at i:2302977 original size:13 final size:13
Alignment explanation
Indices: 2302959--2302984 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2302949 TACACAAAAT
2302959 ATGTATCGATACA
1 ATGTATCGATACA
2302972 ATGTATCGATACA
1 ATGTATCGATACA
2302985 CAAAAAATAT
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:2302982 original size:32 final size:33
Alignment explanation
Indices: 2302941--2303005 Score: 114
Period size: 34 Copynumber: 2.0 Consensus size: 33
2302931 TAGCCAAACT
2302941 TGTATCGATACAC-AAAATATGTATCGATACAA
1 TGTATCGATACACAAAAATATGTATCGATACAA
2302973 TGTATCGATACACAAAAAATATGTATCGATACA
1 TGTATCGATACAC-AAAAATATGTATCGATACA
2303006 TTGGCTTGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 13 0.42
34 18 0.58
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCGATACAA
Found at i:2306783 original size:17 final size:17
Alignment explanation
Indices: 2306761--2306795 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
2306751 AAAGGCCTAA
2306761 CATAAGCTACTTTCATC
1 CATAAGCTACTTTCATC
2306778 CATAAGCTACTTTCATC
1 CATAAGCTACTTTCATC
2306795 C
1 C
2306796 TTTTGGATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.31, G:0.06, T:0.34
Consensus pattern (17 bp):
CATAAGCTACTTTCATC
Found at i:2309185 original size:13 final size:13
Alignment explanation
Indices: 2309167--2309204 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
2309157 CATTTTTCTT
2309167 TGTATCGATACAA
1 TGTATCGATACAA
*
2309180 TGTATCGATACAC
1 TGTATCGATACAA
2309193 TGTATCGATACA
1 TGTATCGATACA
2309205 GGGGGTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2309359 original size:20 final size:20
Alignment explanation
Indices: 2309316--2309361 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
2309306 AAATCTTTTG
2309316 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
2309337 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
2309357 CAAAA
1 CAAAA
2309362 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:2311758 original size:19 final size:20
Alignment explanation
Indices: 2311734--2311785 Score: 88
Period size: 21 Copynumber: 2.6 Consensus size: 20
2311724 TAGCCAAACT
2311734 TGTATCGATACAC-AAAATA
1 TGTATCGATACACAAAAATA
2311753 TGTATCGATACACAAAAAATA
1 TGTATCGATACAC-AAAAATA
2311774 TGTATCGATACA
1 TGTATCGATACA
2311786 TTGGCTTGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 13 0.42
21 18 0.58
ACGTcount: A:0.46, C:0.15, G:0.12, T:0.27
Consensus pattern (20 bp):
TGTATCGATACACAAAAATA
Found at i:2313886 original size:13 final size:13
Alignment explanation
Indices: 2313868--2313895 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2313858 ATACAAAGAT
2313868 CAATGTATCGATA
1 CAATGTATCGATA
2313881 CAATGTATCGATA
1 CAATGTATCGATA
2313894 CA
1 CA
2313896 TTCTACAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Done.