Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007838.1 Hibiscus syriacus cultivar Beakdansim tig00110187_pilon, whole genome shotgun sequence
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: 3429202
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 13
Found at i:2313178 original size:19 final size:19
Alignment explanation
Indices: 2313140--2313178 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
2313130 AAAATATTTT
*
2313140 ATTTTATTAATATTTATAA
1 ATTTTATTAATAGTTATAA
2313159 ATTTTATTAATTAGTT-TAA
1 ATTTTATTAA-TAGTTATAA
2313178 A
1 A
2313179 ACAAAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (19 bp):
ATTTTATTAATAGTTATAA
Found at i:2313312 original size:73 final size:73
Alignment explanation
Indices: 2313225--2313441 Score: 325
Period size: 73 Copynumber: 3.0 Consensus size: 73
2313215 CAATCTCTTT
* * * **
2313225 GTTTTCCCCAAACGGTACAAAATTATACTTGCAAAGAAAGAATCAAGAATCGGTTCTCTCTCTTC
1 GTTTTCCCCCAACGGTACAAAATTTTACTTGCAAAGAAAGAATCAAGAACCGGTGATCTCTCTTC
2313290 TCCTCAGA
66 TCCTCAGA
* *
2313298 GTTTTCCCCCAACGGTTCAAAATTTTACTT----AGAAAGAATCAAGAACCGGTGATCTCTCTTA
1 GTTTTCCCCCAACGGTACAAAATTTTACTTGCAAAGAAAGAATCAAGAACCGGTGATCTCTCTTC
2313359 TCCTCAGA
66 TCCTCAGA
* *
2313367 GTTTTCCCCCAACGGTACAAAATTTTACTTGCAAAGAAAGAATCAGGAACCGGTGATCTTTCTTC
1 GTTTTCCCCCAACGGTACAAAATTTTACTTGCAAAGAAAGAATCAAGAACCGGTGATCTCTCTTC
2313432 TCCTCAGA
66 TCCTCAGA
2313440 GT
1 GT
2313442 AGTATAAAAT
Statistics
Matches: 129, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
69 64 0.50
73 65 0.50
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.29
Consensus pattern (73 bp):
GTTTTCCCCCAACGGTACAAAATTTTACTTGCAAAGAAAGAATCAAGAACCGGTGATCTCTCTTC
TCCTCAGA
Found at i:2318997 original size:71 final size:71
Alignment explanation
Indices: 2318893--2319040 Score: 271
Period size: 71 Copynumber: 2.1 Consensus size: 71
2318883 GGAAAAATTT
*
2318893 ATTTTTCCATTTACATTAATCTCACATCTTTTCCTTTTACATAAGAAATTTAGTACTTTAAATTT
1 ATTTTTCCATTTACATTAATCTCACATCTTTTCCTTTTACATAAGAAATTTAGTACTTCAAATTT
2318958 TCTTAG
66 TCTTAG
2318964 -TTTTTCCATTTAACATTAATCTCACATCTTTTCCTTTTACATAAGAAATTTAGTACTTCAAATT
1 ATTTTTCCATTT-ACATTAATCTCACATCTTTTCCTTTTACATAAGAAATTTAGTACTTCAAATT
2319028 TTCTTAG
65 TTCTTAG
2319035 ATTTTT
1 ATTTTT
2319041 ACAATTGATT
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
70 11 0.15
71 58 0.78
72 5 0.07
ACGTcount: A:0.29, C:0.17, G:0.04, T:0.50
Consensus pattern (71 bp):
ATTTTTCCATTTACATTAATCTCACATCTTTTCCTTTTACATAAGAAATTTAGTACTTCAAATTT
TCTTAG
Found at i:2320884 original size:244 final size:244
Alignment explanation
Indices: 2320455--2320942 Score: 958
Period size: 244 Copynumber: 2.0 Consensus size: 244
2320445 TACCCGAAAT
2320455 TATTATACCATGGTTCAAAAGTCTTGTTTGGAGAGTTTTTGTTTCTAGATTTTGCTTCATCCCTT
1 TATTATACCATGGTTCAAAAGTCTTGTTTGGAGAGTTTTTGTTTCTAGATTTTGCTTCATCCCTT
2320520 GTTTAACATAGTTTTGGATTTAACTGTCTCTTTTTTAAAATGCAGAATAAGGAAATGTGCATTTT
66 GTTTAACATAGTTTTGGATTTAACTGTCTCTTTTTTAAAATGCAGAATAAGGAAATGTGCATTTT
*
2320585 TTAAGTTTGACAGGTATATAATTCCTTACCTAATTGTCTCTTCCTCACTGTAGGTTGGAACCTTG
131 TTAAGTTTGACAGGGATATAATTCCTTACCTAATTGTCTCTTCCTCACTGTAGGTTGGAACCTTG
*
2320650 AATGAGGTATGAAATAAGGTTCACTATGCATACCTAAAGTTGTTCCTGA
196 AATGAGGTATGAAATAAGGTCCACTATGCATACCTAAAGTTGTTCCTGA
2320699 TATTATACCATGGTTCAAAAGTCTTGTTTGGAGAGTTTTTGTTTCTAGATTTTGCTTCATCCCTT
1 TATTATACCATGGTTCAAAAGTCTTGTTTGGAGAGTTTTTGTTTCTAGATTTTGCTTCATCCCTT
2320764 GTTTAACATAGTTTTGGATTTAACTGTCTCTTTTTTAAAATGCAGAATAAGGAAATGTGCATTTT
66 GTTTAACATAGTTTTGGATTTAACTGTCTCTTTTTTAAAATGCAGAATAAGGAAATGTGCATTTT
2320829 TTAAGTTTGACAGGGATATAATTCCTTACCTAATTGTCTCTTCCTCACTGTAGGTTGGAACCTTG
131 TTAAGTTTGACAGGGATATAATTCCTTACCTAATTGTCTCTTCCTCACTGTAGGTTGGAACCTTG
2320894 AATGAGGTATGAAATAAGGTCCACTATGCATACCTAAAGTTGTTCCTGA
196 AATGAGGTATGAAATAAGGTCCACTATGCATACCTAAAGTTGTTCCTGA
2320943 AATTTGAGCT
Statistics
Matches: 242, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
244 242 1.00
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.41
Consensus pattern (244 bp):
TATTATACCATGGTTCAAAAGTCTTGTTTGGAGAGTTTTTGTTTCTAGATTTTGCTTCATCCCTT
GTTTAACATAGTTTTGGATTTAACTGTCTCTTTTTTAAAATGCAGAATAAGGAAATGTGCATTTT
TTAAGTTTGACAGGGATATAATTCCTTACCTAATTGTCTCTTCCTCACTGTAGGTTGGAACCTTG
AATGAGGTATGAAATAAGGTCCACTATGCATACCTAAAGTTGTTCCTGA
Found at i:2324619 original size:168 final size:169
Alignment explanation
Indices: 2324332--2324667 Score: 611
Period size: 168 Copynumber: 2.0 Consensus size: 169
2324322 AAGCAGTAGT
*
2324332 ATGCTATTTGACATCTGTTGTGTTTCTTGTCTTTTAATTTAGGGTAAAGTCTGTTTTTTTAACAG
1 ATGCTATTTGACATCTGTTGTGTTTCTTGTCTTTTAATTTAGGGTAAAGTCTGTTTTTTTAACAA
* * * *
2324397 CTGGTGATCAAAATAGAACCAAAACGTTACGTTATGTATGATTTTGAAAAAAATAATAGTTGGGT
66 CTGGTGATCAAAACAGAAACAAAACGCTAAGTTATGTATGATTTTGAAAAAAATAATAGTTGGGT
2324462 GACCAAAACAAAAACTAAGTAATAGGTGAGTGATGAAAC
131 GACCAAAACAAAAACTAAGTAATAGGTGAGTGATGAAAC
2324501 ATGCTATTTGACATCTGTTGTGTTTCTTGTCTTTTAATTTAGGGTAAAGTCT-TTTTTTTAACAA
1 ATGCTATTTGACATCTGTTGTGTTTCTTGTCTTTTAATTTAGGGTAAAGTCTGTTTTTTTAACAA
*
2324565 CTGTTGATCAAAACAGAAACAAAACGCTAAGTTATGTATGATTTTGAAAAAAATAATAGTTGGGT
66 CTGGTGATCAAAACAGAAACAAAACGCTAAGTTATGTATGATTTTGAAAAAAATAATAGTTGGGT
2324630 GACCAAAACAAAAACTAAGTAATAGGTGAGTGATGAAA
131 GACCAAAACAAAAACTAAGTAATAGGTGAGTGATGAAA
2324668 TAGATAGTTT
Statistics
Matches: 161, Mismatches: 6, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
168 109 0.68
169 52 0.32
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.35
Consensus pattern (169 bp):
ATGCTATTTGACATCTGTTGTGTTTCTTGTCTTTTAATTTAGGGTAAAGTCTGTTTTTTTAACAA
CTGGTGATCAAAACAGAAACAAAACGCTAAGTTATGTATGATTTTGAAAAAAATAATAGTTGGGT
GACCAAAACAAAAACTAAGTAATAGGTGAGTGATGAAAC
Found at i:2330145 original size:38 final size:38
Alignment explanation
Indices: 2330103--2330290 Score: 121
Period size: 38 Copynumber: 5.2 Consensus size: 38
2330093 ACAACTTTTC
2330103 CTTTTACATAAGAAATTTAGTACTTTAAATTTTCTTAG
1 CTTTTACATAAGAAATTTAGTACTTTAAATTTTCTTAG
* * * * * * *
2330141 CTTTTCCATTTA-ACA-TTAAT-C-TTACATCTT-TT-C
1 CTTTTACA-TAAGAAATTTAGTACTTTAAATTTTCTTAG
*
2330174 CTTTTACATAAGAAATTTAGTACTTCAAATTTTCTTAG
1 CTTTTACATAAGAAATTTAGTACTTTAAATTTTCTTAG
* * * * * * *
2330212 CTTTTCCATTTA-ACA-TTAAT-C-TTACATCTT-TT-C
1 CTTTTACA-TAAGAAATTTAGTACTTTAAATTTTCTTAG
*
2330245 CTTTTACATAAGAAATTTAGTACTTCAAATTTTCTTAG
1 CTTTTACATAAGAAATTTAGTACTTTAAATTTTCTTAG
*
2330283 ATTTTACA
1 CTTTTACA
2330291 ATTGATTTAA
Statistics
Matches: 104, Mismatches: 32, Indels: 28
0.63 0.20 0.17
Matches are distributed among these distances:
32 4 0.04
33 18 0.17
34 12 0.12
35 15 0.14
36 14 0.13
37 12 0.12
38 25 0.24
39 4 0.04
ACGTcount: A:0.31, C:0.16, G:0.05, T:0.48
Consensus pattern (38 bp):
CTTTTACATAAGAAATTTAGTACTTTAAATTTTCTTAG
Found at i:2330172 original size:71 final size:71
Alignment explanation
Indices: 2330072--2330287 Score: 389
Period size: 71 Copynumber: 3.1 Consensus size: 71
2330062 AAAAATTTAT
* * *
2330072 TTTTCCATTT-ACATTAATCTCACAACTTTTCCTTTTACATAAGAAATTTAGTACTTTAAATTTT
1 TTTTCCATTTAACATTAATCTTACATCTTTTCCTTTTACATAAGAAATTTAGTACTTCAAATTTT
2330136 CTTAGC
66 CTTAGC
2330142 TTTTCCATTTAACATTAATCTTACATCTTTTCCTTTTACATAAGAAATTTAGTACTTCAAATTTT
1 TTTTCCATTTAACATTAATCTTACATCTTTTCCTTTTACATAAGAAATTTAGTACTTCAAATTTT
2330207 CTTAGC
66 CTTAGC
2330213 TTTTCCATTTAACATTAATCTTACATCTTTTCCTTTTACATAAGAAATTTAGTACTTCAAATTTT
1 TTTTCCATTTAACATTAATCTTACATCTTTTCCTTTTACATAAGAAATTTAGTACTTCAAATTTT
*
2330278 CTTAGA
66 CTTAGC
2330284 TTTT
1 TTTT
2330288 ACAATTGATT
Statistics
Matches: 141, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
70 10 0.07
71 131 0.93
ACGTcount: A:0.30, C:0.18, G:0.04, T:0.49
Consensus pattern (71 bp):
TTTTCCATTTAACATTAATCTTACATCTTTTCCTTTTACATAAGAAATTTAGTACTTCAAATTTT
CTTAGC
Found at i:2330968 original size:299 final size:299
Alignment explanation
Indices: 2330425--2331029 Score: 1201
Period size: 299 Copynumber: 2.0 Consensus size: 299
2330415 GGGGTTTCAG
*
2330425 TTATGCTATTTAGTTTGCAGTAAGCTAAAATTTGATCCAATGTTATCAGATCCAAACAGAGATGG
1 TTATCCTATTTAGTTTGCAGTAAGCTAAAATTTGATCCAATGTTATCAGATCCAAACAGAGATGG
2330490 TGCCATCAATGCTGATCATTTGAGAAAAATCGAGTCTATTGTGAATCAGCAAATAAAACCTGAGT
66 TGCCATCAATGCTGATCATTTGAGAAAAATCGAGTCTATTGTGAATCAGCAAATAAAACCTGAGT
2330555 TAGATGTATATTCAAAGGAGGTAACGCTTGCTGAAGCCAAGCGTATCAACGGTTTGCGAGCCGTA
131 TAGATGTATATTCAAAGGAGGTAACGCTTGCTGAAGCCAAGCGTATCAACGGTTTGCGAGCCGTA
2330620 TTTGGAGAAGTAAGCTTAAGCATTTTTTTGTCATTATGGATTTCTAATTTGGCTTTGCTCAATCC
196 TTTGGAGAAGTAAGCTTAAGCATTTTTTTGTCATTATGGATTTCTAATTTGGCTTTGCTCAATCC
2330685 TTTTAGAAGTTATGCTAGAATTATATTCCCAACGCAGGT
261 TTTTAGAAGTTATGCTAGAATTATATTCCCAACGCAGGT
2330724 TTATCCTATTTAGTTTGCAGTAAGCTAAAATTTGATCCAATGTTATCAGATCCAAACAGAGATGG
1 TTATCCTATTTAGTTTGCAGTAAGCTAAAATTTGATCCAATGTTATCAGATCCAAACAGAGATGG
2330789 TGCCATCAATGCTGATCATTTGAGAAAAATCGAGTCTATTGTGAATCAGCAAATAAAACCTGAGT
66 TGCCATCAATGCTGATCATTTGAGAAAAATCGAGTCTATTGTGAATCAGCAAATAAAACCTGAGT
2330854 TAGATGTATATTCAAAGGAGGTAACGCTTGCTGAAGCCAAGCGTATCAACGGTTTGCGAGCCGTA
131 TAGATGTATATTCAAAGGAGGTAACGCTTGCTGAAGCCAAGCGTATCAACGGTTTGCGAGCCGTA
2330919 TTTGGAGAAGTAAGCTTAAGCATTTTTTTGTCATTATGGATTTCTAATTTGGCTTTGCTCAATCC
196 TTTGGAGAAGTAAGCTTAAGCATTTTTTTGTCATTATGGATTTCTAATTTGGCTTTGCTCAATCC
2330984 TTTTAGAAGTTATGCTAGAATTATATTCCCAACGCAGGT
261 TTTTAGAAGTTATGCTAGAATTATATTCCCAACGCAGGT
2331023 TTATCCT
1 TTATCCT
2331030 GATCCAGTTA
Statistics
Matches: 305, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
299 305 1.00
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (299 bp):
TTATCCTATTTAGTTTGCAGTAAGCTAAAATTTGATCCAATGTTATCAGATCCAAACAGAGATGG
TGCCATCAATGCTGATCATTTGAGAAAAATCGAGTCTATTGTGAATCAGCAAATAAAACCTGAGT
TAGATGTATATTCAAAGGAGGTAACGCTTGCTGAAGCCAAGCGTATCAACGGTTTGCGAGCCGTA
TTTGGAGAAGTAAGCTTAAGCATTTTTTTGTCATTATGGATTTCTAATTTGGCTTTGCTCAATCC
TTTTAGAAGTTATGCTAGAATTATATTCCCAACGCAGGT
Found at i:2337590 original size:38 final size:38
Alignment explanation
Indices: 2337548--2337664 Score: 102
Period size: 38 Copynumber: 3.2 Consensus size: 38
2337538 ACATCTTTTC
*
2337548 CTTTTACATAAGAAATTTAGTACTTTAAATTTTCTTAG
1 CTTTTACATAAGAAATTTAGTACTTCAAATTTTCTTAG
* * * * * * *
2337586 CTTTTCCATTTA-ACA-TTAAT-C-TCACATCTT-TT-C
1 CTTTTACA-TAAGAAATTTAGTACTTCAAATTTTCTTAG
2337619 CTTTTACATAAGAAATTTAGTACTTCAAATTTTCTTAG
1 CTTTTACATAAGAAATTTAGTACTTCAAATTTTCTTAG
*
2337657 ATTTTACA
1 CTTTTACA
2337665 ATTGATTCAA
Statistics
Matches: 56, Mismatches: 16, Indels: 14
0.65 0.19 0.16
Matches are distributed among these distances:
32 2 0.04
33 9 0.16
34 6 0.11
35 7 0.12
36 8 0.14
37 6 0.11
38 16 0.29
39 2 0.04
ACGTcount: A:0.32, C:0.16, G:0.05, T:0.47
Consensus pattern (38 bp):
CTTTTACATAAGAAATTTAGTACTTCAAATTTTCTTAG
Found at i:2337619 original size:71 final size:70
Alignment explanation
Indices: 2337517--2337661 Score: 254
Period size: 71 Copynumber: 2.1 Consensus size: 70
2337507 AAAAATTTAT
*
2337517 TTTTCCATTTACAATAATCTCACATCTTTTCCTTTTACATAAGAAATTTAGTACTTTAAATTTTC
1 TTTTCCATTTACAATAATCTCACATCTTTTCCTTTTACATAAGAAATTTAGTACTTCAAATTTTC
*
2337582 TTAGC
66 TTAGA
*
2337587 TTTTCCATTTAACATTAATCTCACATCTTTTCCTTTTACATAAGAAATTTAGTACTTCAAATTTT
1 TTTTCCATTT-ACAATAATCTCACATCTTTTCCTTTTACATAAGAAATTTAGTACTTCAAATTTT
2337652 CTTAGA
65 CTTAGA
2337658 TTTT
1 TTTT
2337662 ACAATTGATT
Statistics
Matches: 71, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
70 10 0.14
71 61 0.86
ACGTcount: A:0.30, C:0.18, G:0.04, T:0.48
Consensus pattern (70 bp):
TTTTCCATTTACAATAATCTCACATCTTTTCCTTTTACATAAGAAATTTAGTACTTCAAATTTTC
TTAGA
Found at i:2337933 original size:12 final size:12
Alignment explanation
Indices: 2337916--2337941 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2337906 CAACACATAA
2337916 ATCTTTAACAAT
1 ATCTTTAACAAT
2337928 ATCTTTAACAAT
1 ATCTTTAACAAT
2337940 AT
1 AT
2337942 AAGCATATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (12 bp):
ATCTTTAACAAT
Found at i:2344617 original size:102 final size:102
Alignment explanation
Indices: 2344441--2344644 Score: 363
Period size: 102 Copynumber: 2.0 Consensus size: 102
2344431 TCCCCCACTT
* * * *
2344441 TTATACTCCCAACATTTTGACTTTTTGACAGCCCACATTTAATGTATTTCCTATCTATGGAAAGC
1 TTATACTCCCAACATTCTAACTTTCTGACAGCCAACATTTAATGTATTTCCTATCTATGGAAAGC
2344506 CTTGGAAAATGTTGTTCCCCACCAACTCCACCAAACC
66 CTTGGAAAATGTTGTTCCCCACCAACTCCACCAAACC
2344543 TTATACTCCCAACATTCTAACTTTCTGACAGCCAACATTTAATGTATTTCCTATCTATGGAAAGC
1 TTATACTCCCAACATTCTAACTTTCTGACAGCCAACATTTAATGTATTTCCTATCTATGGAAAGC
*
2344608 TTTGGAAAATGTTGTTCCCCACCAACTCCACCAAACC
66 CTTGGAAAATGTTGTTCCCCACCAACTCCACCAAACC
2344645 CAAGAGTAGC
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
102 97 1.00
ACGTcount: A:0.29, C:0.28, G:0.10, T:0.32
Consensus pattern (102 bp):
TTATACTCCCAACATTCTAACTTTCTGACAGCCAACATTTAATGTATTTCCTATCTATGGAAAGC
CTTGGAAAATGTTGTTCCCCACCAACTCCACCAAACC
Found at i:2345156 original size:102 final size:102
Alignment explanation
Indices: 2344980--2345180 Score: 384
Period size: 102 Copynumber: 2.0 Consensus size: 102
2344970 TCCCCCACTT
* *
2344980 TTATACTCCCAACATTCTGACTTTCTGACAGCCCACATTTAATGTATTTCCTATCTATGGAAAGC
1 TTATACTCCCAACAGTCTAACTTTCTGACAGCCCACATTTAATGTATTTCCTATCTATGGAAAGC
2345045 CTTGGAAAATGTTGTTCCCCACCAACTCCACCAATCC
66 CTTGGAAAATGTTGTTCCCCACCAACTCCACCAATCC
2345082 TTATACTCCCAACAGTCTAACTTTCTGACAGCCCACATTTAATGTATTTCCTATCTATGGAAAGC
1 TTATACTCCCAACAGTCTAACTTTCTGACAGCCCACATTTAATGTATTTCCTATCTATGGAAAGC
2345147 CTTGGAAAATGTTGTTCCCCACCAACTCCACCAA
66 CTTGGAAAATGTTGTTCCCCACCAACTCCACCAA
2345181 ACCCAAGAGT
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
102 97 1.00
ACGTcount: A:0.28, C:0.30, G:0.11, T:0.31
Consensus pattern (102 bp):
TTATACTCCCAACAGTCTAACTTTCTGACAGCCCACATTTAATGTATTTCCTATCTATGGAAAGC
CTTGGAAAATGTTGTTCCCCACCAACTCCACCAATCC
Found at i:2345441 original size:539 final size:540
Alignment explanation
Indices: 2344424--2345506 Score: 2015
Period size: 539 Copynumber: 2.0 Consensus size: 540
2344414 TACCCAAATC
* *
2344424 GGCAAACTCCCCCACTTTTATACTCCCAACATTTTGACTTTTTGACAGCCCACATTTAATGTATT
1 GGCAAACTCCCCCACTTTTATACTCCCAACATTCTGACTTTCTGACAGCCCACATTTAATGTATT
2344489 TCCTATCTATGGAAAGCCTTGGAAAATGTTGTTCCCCACCAACTCCACCAAACCTTATACTCCCA
66 TCCTATCTATGGAAAGCCTTGGAAAATGTTGTTCCCCACCAACTCCACCAAACCTTATACTCCCA
* *
2344554 ACATTCTAACTTTCTGACAGCCAACATTTAATGTATTTCCTATCTATGGAAAGCTTTGGAAAATG
131 ACAGTCTAACTTTCTGACAGCCAACATTTAATGTATTTCCTATCTATGGAAAGCCTTGGAAAATG
2344619 TTGTTCCCCACCAACTCCACCAAACCCAAGAGTAGCTCCCTGGTCAATCCACTTGTCAACTCTCA
196 TTGTTCCCCACCAACTCCACCAAACCCAAGAGTAGCTCCCTGGTCAATCCACTTGTCAACTCTCA
2344684 GCCGATTTTCTTCTGCTGAACATACTAAACCTTTCCTACTTTCTGACAGCACTCTGTCTTCTTCC
261 GCCGATTTTCTTCTGCTGAACATACTAAACCTTTCCTACTTTCTGACAGCACTCTGTCTTCTTCC
* *
2344749 TCTTCAGACATCAACTCTCCAAAATTTCCCCCACCAGAACCATCCACCGGAGTTACTCTGGAAAA
326 TATTCAGACATCAACTCTCCAAAATTTCCCCCACCAGAACCATCCACCGGAGTTACACTGGAAAA
*
2344814 AGAACTTGAAGACTTGCACGCCAATCCAACCTTAATATTCACTTTAAAGGATCTTCCATATGATC
391 AGAACTTGAAGACTCGCACGCCAATCCAACCTTAATATTCACTTTAAAGGATCTTCCATATGATC
2344879 CAAGAGTGATCACCTCCGGAACATCAAAAGGACTTGCCACCCTCATTAAAATTCTCGCCGTTGTG
456 CAAGAGTGATCACCTCCGGAACATCAAAAGGACTTGCCACCCTCATTAAAATTCTCGCCGTTGTG
2344944 -GATCTTCTTTGTTTCTAGT
521 AGATCTTCTTTGTTTCTAGT
2344963 GGCAAACTCCCCCACTTTTATACTCCCAACATTCTGACTTTCTGACAGCCCACATTTAATGTATT
1 GGCAAACTCCCCCACTTTTATACTCCCAACATTCTGACTTTCTGACAGCCCACATTTAATGTATT
*
2345028 TCCTATCTATGGAAAGCCTTGGAAAATGTTGTTCCCCACCAACTCCACCAATCCTTATACTCCCA
66 TCCTATCTATGGAAAGCCTTGGAAAATGTTGTTCCCCACCAACTCCACCAAACCTTATACTCCCA
*
2345093 ACAGTCTAACTTTCTGACAGCCCACATTTAATGTATTTCCTATCTATGGAAAGCCTTGGAAAATG
131 ACAGTCTAACTTTCTGACAGCCAACATTTAATGTATTTCCTATCTATGGAAAGCCTTGGAAAATG
2345158 TTGTTCCCCACCAACTCCACCAAACCCAAGAGTAGCTCCCTGGTCAATCCACTTGTCAACTCTCA
196 TTGTTCCCCACCAACTCCACCAAACCCAAGAGTAGCTCCCTGGTCAATCCACTTGTCAACTCTCA
* * * *
2345223 GTCGATTTTCTTCTGCTGAACATACTACACCTTTCCTACTTTTTGACAGCACTTTGTCTTCTTCC
261 GCCGATTTTCTTCTGCTGAACATACTAAACCTTTCCTACTTTCTGACAGCACTCTGTCTTCTTCC
2345288 TATTCAGACATCAACTCTCCAAAATTTCCCCCACCAGAACCATCCACCGGAGTTACACTGGAAAA
326 TATTCAGACATCAACTCTCCAAAATTTCCCCCACCAGAACCATCCACCGGAGTTACACTGGAAAA
* * *
2345353 AGAACTTGAAGACTCGCACGTCGATCCAACCTTAATATTCACTTTAAAGGATCTTCCGTATGATC
391 AGAACTTGAAGACTCGCACGCCAATCCAACCTTAATATTCACTTTAAAGGATCTTCCATATGATC
2345418 CAAGAGTGATCACCTCCGGAACATCAAAAGGACTTGCCACCCTCATTAAAATTCTCGCCGTTGTG
456 CAAGAGTGATCACCTCCGGAACATCAAAAGGACTTGCCACCCTCATTAAAATTCTCGCCGTTGTG
2345483 AGATCTTCTTTGTTTCTAGT
521 AGATCTTCTTTGTTTCTAGT
2345503 GGCA
1 GGCA
2345507 TTATGTATGT
Statistics
Matches: 527, Mismatches: 16, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
539 504 0.96
540 23 0.04
ACGTcount: A:0.28, C:0.30, G:0.13, T:0.30
Consensus pattern (540 bp):
GGCAAACTCCCCCACTTTTATACTCCCAACATTCTGACTTTCTGACAGCCCACATTTAATGTATT
TCCTATCTATGGAAAGCCTTGGAAAATGTTGTTCCCCACCAACTCCACCAAACCTTATACTCCCA
ACAGTCTAACTTTCTGACAGCCAACATTTAATGTATTTCCTATCTATGGAAAGCCTTGGAAAATG
TTGTTCCCCACCAACTCCACCAAACCCAAGAGTAGCTCCCTGGTCAATCCACTTGTCAACTCTCA
GCCGATTTTCTTCTGCTGAACATACTAAACCTTTCCTACTTTCTGACAGCACTCTGTCTTCTTCC
TATTCAGACATCAACTCTCCAAAATTTCCCCCACCAGAACCATCCACCGGAGTTACACTGGAAAA
AGAACTTGAAGACTCGCACGCCAATCCAACCTTAATATTCACTTTAAAGGATCTTCCATATGATC
CAAGAGTGATCACCTCCGGAACATCAAAAGGACTTGCCACCCTCATTAAAATTCTCGCCGTTGTG
AGATCTTCTTTGTTTCTAGT
Found at i:2351176 original size:20 final size:20
Alignment explanation
Indices: 2351140--2351178 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
2351130 TTAATTTACG
*
2351140 ATTATGATTGTAAATATTTT
1 ATTATAATTGTAAATATTTT
2351160 ATTATAATT-TAATATATTT
1 ATTATAATTGTAA-ATATTT
2351179 CCTATTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (20 bp):
ATTATAATTGTAAATATTTT
Found at i:2352331 original size:213 final size:214
Alignment explanation
Indices: 2351964--2352390 Score: 847
Period size: 213 Copynumber: 2.0 Consensus size: 214
2351954 CTTTGAAAAC
2351964 CTTCATTTCAACCCATTAACCTTTAACCTCGTCACCGAACCACCCTTCTCTGATCGGGAGTGGTT
1 CTTCATTTCAACCCATTAACCTTTAACCTCGTCACCGAACCACCCTTCTCTGATCGGGAGTGGTT
2352029 TACACCGGCGCTCCCACCGAACTAAGCAGCAACCGGCGTGTAACACCCCCAACCCGTATCCGACC
66 TACACCGGCGCTCCCACCGAACTAAGCAGCAACCGGCGTGTAACACCCCCAACCCGTATCCGACC
2352094 CGGATACGAGTCCGAAGTGTCACATTGACTTTTTAAACATTCATTCGTATAAAATAGTGGGTAA-
131 CGGATACGAGTCCGAAGTGTCACATTGACTTTTTAAACATTCATTCGTATAAAATAGTGGGTAAT
2352158 TTAAAACTTTGATAACATT
196 TTAAAACTTTGATAACATT
2352177 CTTCATTTCAACCCATTAACCTTTAACCTCGTCACCGAACCACCCTTCTCTGATCGGGAGTGGTT
1 CTTCATTTCAACCCATTAACCTTTAACCTCGTCACCGAACCACCCTTCTCTGATCGGGAGTGGTT
2352242 TACACCGGCGCTCCCACCGAACTAAGCAGCAACCGGCGTGTAACACCCCCAACCCGTATCCGACC
66 TACACCGGCGCTCCCACCGAACTAAGCAGCAACCGGCGTGTAACACCCCCAACCCGTATCCGACC
2352307 CGGATACGAGTCCGAAGTGTCACATTGACTTTTTAAACATTCATTCGTATAAAATAGTGGGTAAT
131 CGGATACGAGTCCGAAGTGTCACATTGACTTTTTAAACATTCATTCGTATAAAATAGTGGGTAAT
2352372 TTAAAACTTTGATAACATT
196 TTAAAACTTTGATAACATT
2352391 TAATTTATTT
Statistics
Matches: 213, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
213 194 0.91
214 19 0.09
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (214 bp):
CTTCATTTCAACCCATTAACCTTTAACCTCGTCACCGAACCACCCTTCTCTGATCGGGAGTGGTT
TACACCGGCGCTCCCACCGAACTAAGCAGCAACCGGCGTGTAACACCCCCAACCCGTATCCGACC
CGGATACGAGTCCGAAGTGTCACATTGACTTTTTAAACATTCATTCGTATAAAATAGTGGGTAAT
TTAAAACTTTGATAACATT
Found at i:2353039 original size:31 final size:31
Alignment explanation
Indices: 2353001--2353153 Score: 247
Period size: 31 Copynumber: 5.0 Consensus size: 31
2352991 CCCGAAGGAC
* *
2353001 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TTCCGAAGAACATAGGTAAA
* *
2353032 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
2353063 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
2353094 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
2353125 CAGTCCATATGTTCCG-AGAACATAGGTAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAA
2353154 CCCTCGACCC
Statistics
Matches: 115, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
30 13 0.11
31 101 0.88
32 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (31 bp):
CAGTCCATATGTTCCGAAGAACATAGGTAAA
Found at i:2353878 original size:21 final size:21
Alignment explanation
Indices: 2353848--2353892 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
2353838 ATTCTGTCGT
* *
2353848 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
2353869 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
2353890 TTG
1 TTG
2353893 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:2356764 original size:31 final size:31
Alignment explanation
Indices: 2356726--2356879 Score: 256
Period size: 31 Copynumber: 5.0 Consensus size: 31
2356716 CCCGAAGGAC
* *
2356726 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TTCCGAAGAACATAGGTAAA
* *
2356757 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
2356788 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
2356819 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
2356850 CAGTCCATATGTTCCGAAGAACATAGGTAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAA
2356880 CCCTCGACCC
Statistics
Matches: 116, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
31 115 0.99
32 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (31 bp):
CAGTCCATATGTTCCGAAGAACATAGGTAAA
Found at i:2357205 original size:16 final size:17
Alignment explanation
Indices: 2357184--2357223 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
2357174 GCATGTTAAC
2357184 ACATATAATCATG-CAT
1 ACATATAATCATGTCAT
*
2357200 ACATATATTCATGTCAT
1 ACATATAATCATGTCAT
*
2357217 TCATATA
1 ACATATA
2357224 CGTATAATCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.40, C:0.17, G:0.05, T:0.38
Consensus pattern (17 bp):
ACATATAATCATGTCAT
Found at i:2357602 original size:21 final size:21
Alignment explanation
Indices: 2357572--2357616 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
2357562 ATTCTGTCGT
* *
2357572 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
2357593 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
2357614 TTG
1 TTG
2357617 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:2359465 original size:27 final size:27
Alignment explanation
Indices: 2359427--2359479 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
2359417 GTGACACTTT
*
2359427 ATTCATTTAAAATTTTGAATAATTTTG
1 ATTCATTTAAAATTTTAAATAATTTTG
*
2359454 ATTCATTTAAAATTTTAAATGATTTT
1 ATTCATTTAAAATTTTAAATAATTTT
2359480 TTCTTAAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.53
Consensus pattern (27 bp):
ATTCATTTAAAATTTTAAATAATTTTG
Found at i:2364271 original size:9 final size:9
Alignment explanation
Indices: 2364254--2364288 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
2364244 AAGTAAGTCG
2364254 TATATATTT
1 TATATATTT
*
2364263 TAGATATTT
1 TATATATTT
*
2364272 TTTATATTT
1 TATATATTT
2364281 TATATATT
1 TATATATT
2364289 AATAATTTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (9 bp):
TATATATTT
Found at i:2365859 original size:74 final size:72
Alignment explanation
Indices: 2365740--2365885 Score: 247
Period size: 74 Copynumber: 2.0 Consensus size: 72
2365730 TAATAATTAA
* *
2365740 AAGAGAGGAGAGCCCTAATCTGGTCATCAACAGCCGGCAAGGGATGATTTTTTTTTCTTTTTAAT
1 AAGAGAGGAGAGCCCTAATCTGGTCATCAACAACCGGCAAGGGATGATTTCTTTTTCTTTTTAAT
2365805 TTCGATT
66 TTCGATT
*
2365812 AAGAGAGGAGAGCCCTAATCTGGTCGGATCAACAACCGGCAAGGGATGGTTTCTTTTTCTTTTTA
1 AAGAGAGGAGAGCCCTAATCTGGTC--ATCAACAACCGGCAAGGGATGATTTCTTTTTCTTTTTA
2365877 ATTTCGATT
64 ATTTCGATT
2365886 CCAAATGAAA
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
72 25 0.36
74 44 0.64
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (72 bp):
AAGAGAGGAGAGCCCTAATCTGGTCATCAACAACCGGCAAGGGATGATTTCTTTTTCTTTTTAAT
TTCGATT
Found at i:2370638 original size:25 final size:24
Alignment explanation
Indices: 2370590--2370635 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
2370580 TGATGAGGGA
*
2370590 TGAAATTGAATTAATTATAAAATG
1 TGAAACTGAATTAATTATAAAATG
2370614 TGAAACTGATATTAA-TATAAAA
1 TGAAACTGA-ATTAATTATAAAA
2370636 ATGGACTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.52, C:0.02, G:0.11, T:0.35
Consensus pattern (24 bp):
TGAAACTGAATTAATTATAAAATG
Found at i:2371784 original size:24 final size:24
Alignment explanation
Indices: 2371742--2371792 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 24
2371732 GACTAAATTG
*
2371742 AATAAATATAAAATTACAA-ATTAA
1 AATAAATATAAAATAACAACA-TAA
2371766 AATAAA-ATAAAATAAACAACATAA
1 AATAAATATAAAAT-AACAACATAA
2371790 AAT
1 AAT
2371793 GATCAAATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 7 0.29
24 16 0.67
25 1 0.04
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.24
Consensus pattern (24 bp):
AATAAATATAAAATAACAACATAA
Found at i:2371965 original size:2 final size:2
Alignment explanation
Indices: 2371958--2371987 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2371948 ACATTATAAT
2371958 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2371988 CTTTCCACGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2378336 original size:117 final size:122
Alignment explanation
Indices: 2378203--2378420 Score: 290
Period size: 123 Copynumber: 1.8 Consensus size: 122
2378193 AACAAAAATA
*
2378203 ATTTACATTTTATTATTATTATGAATATCTAT-G-AAGAAT-TT-T-TACAA-TGTAA-ACATTT
1 ATTTACATTTTATTATTATTATGAATAT-TATAGTAA-AATGTTATGTAAAATTGTAATACATTT
*
2378261 TTACATAAATTATGTAAAATTTAATATTAATTAAAATATCTTAAATTATAAACATTTTT
64 TTACATAAATAATGTAAAATTTAATATTAATTAAAATATCTTAAATTATAAACATTTTT
* * * *
2378320 ATTTACATCTTT-TTATTATTATGAATATTTTAGTTAAATGTTGATGTAAAATTTTAATATATTT
1 ATTTACAT-TTTATTATTATTATGAATATTATAGTAAAATGTT-ATGTAAAATTGTAATACATTT
2378384 TTACATAAATAATGTAAAATTTAATATTAATTAAAAT
64 TTACATAAATAATGTAAAATTTAATATTAATTAAAAT
2378421 TAAAATAATA
Statistics
Matches: 86, Mismatches: 6, Indels: 12
0.83 0.06 0.12
Matches are distributed among these distances:
116 2 0.02
117 28 0.33
118 6 0.07
120 1 0.01
121 4 0.05
122 4 0.05
123 41 0.48
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.48
Consensus pattern (122 bp):
ATTTACATTTTATTATTATTATGAATATTATAGTAAAATGTTATGTAAAATTGTAATACATTTTT
ACATAAATAATGTAAAATTTAATATTAATTAAAATATCTTAAATTATAAACATTTTT
Found at i:2378495 original size:15 final size:15
Alignment explanation
Indices: 2378475--2378505 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2378465 CAACAAATAG
2378475 AATTTTTATATAAAT
1 AATTTTTATATAAAT
*
2378490 AATTTTTATTTAAAT
1 AATTTTTATATAAAT
2378505 A
1 A
2378506 TTTAGAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTTTTATATAAAT
Found at i:2381639 original size:2 final size:2
Alignment explanation
Indices: 2381632--2381665 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2381622 CAATTCAATG
2381632 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
2381666 GAGTGTGTCG
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:2396609 original size:187 final size:183
Alignment explanation
Indices: 2396299--2396669 Score: 665
Period size: 187 Copynumber: 2.0 Consensus size: 183
2396289 GGAAAGCGAC
2396299 CTAATGAAACATCTTGGGGCCCTCAAGTCACATTAGCCCATTAGCTGATCAGAGCTATTCCATCG
1 CTAATGAAACATCTTGGGGCCCTCAAGTCACATTAGCCCATTAGCTGATCAGAGCTATTCCATCG
2396364 TAATTCAATTCCAAAATTCAATTGCACCGTGACATAAATTCCATAAATCCAAAAACATGGT-ATC
66 TAATTCAATTCCAAAATTCAATTGCACCGTGACATAAATTCCATAAATCCAAAAACATGGTAATC
*
2396428 ATATACCATTTCAAAA-ACAAATTAGATAGCAGTCATATTCCATTAATTTGTCA
131 ATATACCATTTCAAAACAAAAATTAGATAGCAGTCATATTCCATTAA-TTGTCA
2396481 CTAATGAAACATCTTGGGGCCCTCAAGAGTCACATTAGGCCCAGTTAGCTTGATCAGAGCTATTC
1 CTAATGAAACATCTTGGGGCCCTC-A-AGTCACATTA-GCCCA-TTAGC-TGATCAGAGCTATTC
2396546 CATCGTAATTCAATTCCAAAATTCAATTGCACCGTGACATAAATTCCATAAATCCAAAAACATGG
61 CATCGTAATTCAATTCCAAAATTCAATTGCACCGTGACATAAATTCCATAAATCCAAAAACATGG
2396611 TAATCATATACCATTTCAAAACAAAAATTAGATAGCAGTCATATTCCATTAATTGTCA
126 TAATCATATACCATTTCAAAACAAAAATTAGATAGCAGTCATATTCCATTAATTGTCA
2396669 C
1 C
2396670 ATTAAATTGG
Statistics
Matches: 181, Mismatches: 1, Indels: 8
0.95 0.01 0.04
Matches are distributed among these distances:
182 24 0.13
183 1 0.01
184 10 0.06
185 5 0.03
186 5 0.03
187 81 0.45
188 26 0.14
189 29 0.16
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (183 bp):
CTAATGAAACATCTTGGGGCCCTCAAGTCACATTAGCCCATTAGCTGATCAGAGCTATTCCATCG
TAATTCAATTCCAAAATTCAATTGCACCGTGACATAAATTCCATAAATCCAAAAACATGGTAATC
ATATACCATTTCAAAACAAAAATTAGATAGCAGTCATATTCCATTAATTGTCA
Found at i:2397335 original size:12 final size:12
Alignment explanation
Indices: 2397304--2397353 Score: 68
Period size: 12 Copynumber: 4.3 Consensus size: 12
2397294 AACGAACAAC
*
2397304 GGTCAACGGTCC
1 GGTCAACGGTCG
2397316 GGTC--CGGTCG
1 GGTCAACGGTCG
*
2397326 GGTCAACGGTTG
1 GGTCAACGGTCG
2397338 GGTCAACGGTCG
1 GGTCAACGGTCG
2397350 GGTC
1 GGTC
2397354 GGGTCAGACC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
10 9 0.27
12 24 0.73
ACGTcount: A:0.12, C:0.26, G:0.42, T:0.20
Consensus pattern (12 bp):
GGTCAACGGTCG
Found at i:2397366 original size:19 final size:19
Alignment explanation
Indices: 2397352--2397389 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
2397342 AACGGTCGGG
2397352 TCGGGTCAGACCGGTCAAA
1 TCGGGTCAGACCGGTCAAA
*
2397371 TCGGTTCAGACCGGTCAAA
1 TCGGGTCAGACCGGTCAAA
2397390 CCGGTTGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.26, G:0.29, T:0.18
Consensus pattern (19 bp):
TCGGGTCAGACCGGTCAAA
Found at i:2397394 original size:19 final size:19
Alignment explanation
Indices: 2397357--2397423 Score: 82
Period size: 19 Copynumber: 3.5 Consensus size: 19
2397347 TCGGGTCGGG
*
2397357 TCAGACCGGTCAAATCGGT
1 TCAGACCGGTCAAACCGGT
2397376 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
* * *
2397395 TGAAACTGGTCAAACCGG-
1 TCAGACCGGTCAAACCGGT
2397413 TCAGAACCGGT
1 TCAG-ACCGGT
2397424 TGAAAACCGG
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
18 2 0.05
19 38 0.95
ACGTcount: A:0.28, C:0.27, G:0.27, T:0.18
Consensus pattern (19 bp):
TCAGACCGGTCAAACCGGT
Found at i:2397400 original size:10 final size:10
Alignment explanation
Indices: 2397361--2397444 Score: 70
Period size: 9 Copynumber: 8.7 Consensus size: 10
2397351 GTCGGGTCAG
2397361 ACCGG-TCAA
1 ACCGGTTCAA
* *
2397370 ATCGGTTCAG
1 ACCGGTTCAA
2397380 ACCGG-TCAA
1 ACCGGTTCAA
*
2397389 ACCGGTTGAA
1 ACCGGTTCAA
*
2397399 ACTGG-TCAA
1 ACCGGTTCAA
2397408 ACCGG-TCAGA
1 ACCGGTTCA-A
*
2397418 ACCGGTTGAAA
1 ACCGGTT-CAA
2397429 ACCGGTT-AA
1 ACCGGTTCAA
2397438 ACCGGTT
1 ACCGGTT
2397445 TCCAGCAGCC
Statistics
Matches: 61, Mismatches: 9, Indels: 10
0.76 0.11 0.12
Matches are distributed among these distances:
9 31 0.51
10 20 0.33
11 9 0.15
12 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.26, T:0.19
Consensus pattern (10 bp):
ACCGGTTCAA
Found at i:2397442 original size:20 final size:21
Alignment explanation
Indices: 2397406--2397444 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2397396 GAAACTGGTC
2397406 AAACCGGTCAGAACCGGTTGA
1 AAACCGGTCAGAACCGGTTGA
*
2397427 AAACCGGTTA-AACCGGTT
1 AAACCGGTCAGAACCGGTT
2397445 TCCAGCAGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.33, C:0.23, G:0.26, T:0.18
Consensus pattern (21 bp):
AAACCGGTCAGAACCGGTTGA
Found at i:2400741 original size:2 final size:2
Alignment explanation
Indices: 2400728--2400758 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
2400718 TTCTCTATCA
*
2400728 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2400759 AGTTATCAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:2410916 original size:16 final size:16
Alignment explanation
Indices: 2410895--2410925 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
2410885 GTTGAGCGTG
2410895 GATGAACACCATTAAC
1 GATGAACACCATTAAC
2410911 GATGAACACCATTAA
1 GATGAACACCATTAA
2410926 ATTAATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.23, G:0.13, T:0.19
Consensus pattern (16 bp):
GATGAACACCATTAAC
Found at i:2421316 original size:36 final size:36
Alignment explanation
Indices: 2421228--2421492 Score: 222
Period size: 36 Copynumber: 7.3 Consensus size: 36
2421218 GGAATATATA
* * * *
2421228 ATAATATATAGTTTCTGAAAA-GGTATTTTTTAAAACAT
1 ATAATATATAGTTTTTTAAAATGG---TTTTGAAAACGT
* *
2421266 AT-ATAATATAGTTTTTTGAAATGGTTTTGAAAGCGT
1 ATAAT-ATATAGTTTTTTAAAATGGTTTTGAAAACGT
*
2421302 ATAATATATAGTTTTTTAAAATAGTTTTGAAAACGT
1 ATAATATATAGTTTTTTAAAATGGTTTTGAAAACGT
* * *
2421338 ATAATATATA-ATTTTTAAAACGGTTTTGAAAACAT
1 ATAATATATAGTTTTTTAAAATGGTTTTGAAAACGT
* *
2421373 AT-ATAATATGGTTTTTT-AAATGATTTTGAAAAC-T
1 ATAAT-ATATAGTTTTTTAAAATGGTTTTGAAAACGT
* * *
2421407 ATAATATATAGTTTTTTAAAAAATGATTTAGAAAACAT
1 ATAATATATAGTTTTTT--AAAATGGTTTTGAAAACGT
* *
2421445 AT-ATAATATGGTTTTCTAAAAAACT-GTTTTGAAAACGT
1 ATAAT-ATATAGTTTT-T-TAAAA-TGGTTTTGAAAACGT
2421483 ATAATATATA
1 ATAATATATA
2421493 TTTAAAAAAA
Statistics
Matches: 187, Mismatches: 25, Indels: 30
0.77 0.10 0.12
Matches are distributed among these distances:
34 16 0.09
35 43 0.23
36 54 0.29
37 21 0.11
38 47 0.25
39 6 0.03
ACGTcount: A:0.42, C:0.04, G:0.11, T:0.42
Consensus pattern (36 bp):
ATAATATATAGTTTTTTAAAATGGTTTTGAAAACGT
Found at i:2421364 original size:35 final size:35
Alignment explanation
Indices: 2421228--2421492 Score: 200
Period size: 35 Copynumber: 7.3 Consensus size: 35
2421218 GGAATATATA
* * *
2421228 ATAATATATAGTTTCTGAAAA-GGTATTTTTTAAAACAT
1 ATAATATATAGTTT-TTAAAATGG---TTTTGAAAACGT
* *
2421266 AT-ATAATATAGTTTTTTGAAATGGTTTTGAAAGCGT
1 ATAAT-ATATAG-TTTTTAAAATGGTTTTGAAAACGT
*
2421302 ATAATATATAGTTTTTTAAAATAGTTTTGAAAACGT
1 ATAATATATAG-TTTTTAAAATGGTTTTGAAAACGT
* * *
2421338 ATAATATATAATTTTTAAAACGGTTTTGAAAACAT
1 ATAATATATAGTTTTTAAAATGGTTTTGAAAACGT
* * *
2421373 AT-ATAATATGGTTTTTTAAATGATTTTGAAAAC-T
1 ATAAT-ATATAGTTTTTAAAATGGTTTTGAAAACGT
* * *
2421407 ATAATATATAGTTTTTTAAAAAATGATTTAGAAAACAT
1 ATAATATATAG-TTTTT--AAAATGGTTTTGAAAACGT
*
2421445 AT-ATAATATGGTTTTCTAAAAAACT-GTTTTGAAAACGT
1 ATAAT-ATATAGTTTT-T--AAAA-TGGTTTTGAAAACGT
2421483 ATAATATATA
1 ATAATATATA
2421493 TTTAAAAAAA
Statistics
Matches: 188, Mismatches: 25, Indels: 28
0.78 0.10 0.12
Matches are distributed among these distances:
34 10 0.05
35 53 0.28
36 49 0.26
37 25 0.13
38 43 0.23
39 8 0.04
ACGTcount: A:0.42, C:0.04, G:0.11, T:0.42
Consensus pattern (35 bp):
ATAATATATAGTTTTTAAAATGGTTTTGAAAACGT
Found at i:2421387 original size:71 final size:72
Alignment explanation
Indices: 2421254--2421492 Score: 256
Period size: 72 Copynumber: 3.3 Consensus size: 72
2421244 GAAAAGGTAT
* * * * * * *
2421254 TTTTTAAAACATATATA-ATATAGTTTTTTGAAATGGTTTTGAAAGCGTATA-ATATATAGTTTT
1 TTTTGAAAACGTATA-ATATATAGATTTTTAAAATGGTTTTGAAAACATATATA-ATATGGTTTT
2421317 TTAAAATAG
64 TTAAAATAG
*
2421326 TTTTGAAAACGTATAATATATA-ATTTTTAAAACGGTTTTGAAAACATATATAATATGGTTTTTT
1 TTTTGAAAACGTATAATATATAGATTTTTAAAATGGTTTTGAAAACATATATAATATGGTTTTTT
2421390 -AAAT-G
66 AAAATAG
* * *
2421395 ATTTTGAAAAC-TATAATATATAGTTTTTTAAAAAATGATTTAGAAAACATATATAATATGGTTT
1 -TTTTGAAAACGTATAATATATAGATTTTT--AAAATGGTTTTGAAAACATATATAATATGGTTT
* *
2421459 TCTAAAAAACTG
63 TTTAAAATA--G
2421471 TTTTGAAAACGTATAATATATA
1 TTTTGAAAACGTATAATATATA
2421493 TTTAAAAAAA
Statistics
Matches: 142, Mismatches: 14, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
69 12 0.08
70 19 0.13
71 35 0.25
72 51 0.36
73 3 0.02
75 10 0.07
76 12 0.08
ACGTcount: A:0.42, C:0.04, G:0.11, T:0.43
Consensus pattern (72 bp):
TTTTGAAAACGTATAATATATAGATTTTTAAAATGGTTTTGAAAACATATATAATATGGTTTTTT
AAAATAG
Found at i:2421430 original size:107 final size:107
Alignment explanation
Indices: 2421254--2421447 Score: 286
Period size: 107 Copynumber: 1.8 Consensus size: 107
2421244 GAAAAGGTAT
* * *
2421254 TTTTTAAAACATATATAATATAGTTTTTTGAAATGGTTTTGAAAGCGTATAATATATAGTTTTTT
1 TTTTGAAAACATATATAATATAGTTTTTTGAAATGATTTTGAAAACGTATAATATATAGTTTTTT
* *
2421319 AAAAT-AGTTTTGAAAACGTATAATATATAATTTTTAAAACGG
66 AAAATGA-TTTAGAAAACATATAATATATAATTTTTAAAACGG
*
2421361 TTTTGAAAACATATATAATATGGTTTTTT-AAATGATTTTGAAAAC-TATAATATATAGTTTTTT
1 TTTTGAAAACATATATAATATAGTTTTTTGAAATGATTTTGAAAACGTATAATATATAGTTTTTT
2421424 AAAAAATGATTTAGAAAACATATA
66 --AAAATGATTTAGAAAACATATA
2421448 TAATATGGTT
Statistics
Matches: 78, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
105 18 0.23
106 14 0.18
107 45 0.58
108 1 0.01
ACGTcount: A:0.42, C:0.04, G:0.11, T:0.43
Consensus pattern (107 bp):
TTTTGAAAACATATATAATATAGTTTTTTGAAATGATTTTGAAAACGTATAATATATAGTTTTTT
AAAATGATTTAGAAAACATATAATATATAATTTTTAAAACGG
Found at i:2421541 original size:3 final size:3
Alignment explanation
Indices: 2421533--2421614 Score: 84
Period size: 3 Copynumber: 27.7 Consensus size: 3
2421523 AATATAGTTT
*
2421533 TTA TTA TTA -TA TTA -TA TCA -TA TTA TTA TTA TTA -TA TTA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
2421575 TTA TTTA TTA TTA TTA TTA TTTA TTA TTA TATA TT- TTA TT
1 TTA -TTA TTA TTA TTA TTA -TTA TTA TTA T-TA TTA TTA TT
2421615 TAAATATTTC
Statistics
Matches: 68, Mismatches: 2, Indels: 18
0.77 0.02 0.20
Matches are distributed among these distances:
2 9 0.13
3 47 0.69
4 12 0.18
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:2421560 original size:24 final size:25
Alignment explanation
Indices: 2421533--2421614 Score: 100
Period size: 24 Copynumber: 3.3 Consensus size: 25
2421523 AATATAGTTT
2421533 TTATTATTATATTATATCA-TA-TTA
1 TTATTATTATATTATAT-ATTATTTA
2421557 TTATTATTATATTATATATTATTTA
1 TTATTATTATATTATATATTATTTA
*
2421582 TTATTATTATTATT-TATTATTATATA
1 TTATTATTA-TATTATA-TATTATTTA
2421608 TT-TTATT
1 TTATTATT
2421615 TAAATATTTC
Statistics
Matches: 53, Mismatches: 1, Indels: 7
0.87 0.02 0.11
Matches are distributed among these distances:
23 1 0.02
24 19 0.36
25 19 0.36
26 14 0.26
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (25 bp):
TTATTATTATATTATATATTATTTA
Found at i:2421578 original size:31 final size:30
Alignment explanation
Indices: 2421534--2421614 Score: 107
Period size: 28 Copynumber: 2.8 Consensus size: 30
2421524 ATATAGTTTT
2421534 TATTATTATATTATATCATATTATTATTATTA
1 TATTA-TATATTATAT-ATATTATTATTATTA
2421566 TATTATATATTAT-T-TATTATTATTATTA
1 TATTATATATTATATATATTATTATTATTA
*
2421594 T-TTAT-TATTATATATTTTATT
1 TATTATATATTATATATATTATT
2421615 TAAATATTTC
Statistics
Matches: 46, Mismatches: 1, Indels: 8
0.84 0.02 0.15
Matches are distributed among these distances:
26 6 0.13
27 5 0.11
28 21 0.46
30 1 0.02
31 8 0.17
32 5 0.11
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (30 bp):
TATTATATATTATATATATTATTATTATTA
Found at i:2421698 original size:30 final size:30
Alignment explanation
Indices: 2421663--2421738 Score: 125
Period size: 30 Copynumber: 2.5 Consensus size: 30
2421653 CCAACAGTCT
2421663 AGCAAGGAGCCCAACAAGGTAGCCTGACCC
1 AGCAAGGAGCCCAACAAGGTAGCCTGACCC
*
2421693 AGCAAGGAGCCCAACAAGGTAGTCTGACCC
1 AGCAAGGAGCCCAACAAGGTAGCCTGACCC
* *
2421723 AACAAGGAGTCCAACA
1 AGCAAGGAGCCCAACA
2421739 GTTTAGCCAA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.37, C:0.30, G:0.25, T:0.08
Consensus pattern (30 bp):
AGCAAGGAGCCCAACAAGGTAGCCTGACCC
Found at i:2423255 original size:2 final size:2
Alignment explanation
Indices: 2423248--2423330 Score: 166
Period size: 2 Copynumber: 41.5 Consensus size: 2
2423238 GGACGGTTAC
2423248 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2423290 TA TA TA TA 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 TA TA TA TA T
2423331 CATCTGGGAT
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 81 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2430859 original size:60 final size:60
Alignment explanation
Indices: 2430795--2430960 Score: 190
Period size: 60 Copynumber: 2.8 Consensus size: 60
2430785 ATTATGAATT
* *
2430795 TTATTTTAAATTATTCTTTAAAATTTTAAATATTTTAATTTTATCCTCAAATTATCATA-C
1 TTATTTTAAATTAGTCTTTAAACTTTTAAATATTTTAATTTTATCCTCAAATTATCA-ACC
* ** * * *
2430855 TTATTTTAAATTAGTCCTTAAACTTTTGCATATTCTAATTTTATTCTCAAATTATGAACC
1 TTATTTTAAATTAGTCTTTAAACTTTTAAATATTTTAATTTTATCCTCAAATTATCAACC
* * * * * *
2430915 TCATTCTAAATTAGTCTCTAAACTTTTAACTTTTTTAATTTCATCC
1 TTATTTTAAATTAGTCTTTAAACTTTTAAATATTTTAATTTTATCC
2430961 CTAAATTCAT
Statistics
Matches: 86, Mismatches: 19, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
59 1 0.01
60 85 0.99
ACGTcount: A:0.33, C:0.14, G:0.02, T:0.51
Consensus pattern (60 bp):
TTATTTTAAATTAGTCTTTAAACTTTTAAATATTTTAATTTTATCCTCAAATTATCAACC
Found at i:2434043 original size:17 final size:17
Alignment explanation
Indices: 2434021--2434053 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2434011 TTAATATTTT
*
2434021 GTATTTAATTTATTTAC
1 GTATTTAAATTATTTAC
2434038 GTATTTAAATTATTTA
1 GTATTTAAATTATTTA
2434054 ATATTGTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.58
Consensus pattern (17 bp):
GTATTTAAATTATTTAC
Found at i:2435843 original size:33 final size:27
Alignment explanation
Indices: 2435772--2435841 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
2435762 AACCATATAT
2435772 GATGCCGCCACCGCCATTCGCTTACCC
1 GATGCCGCCACCGCCATTCGCTTACCC
2435799 GATGCCGCCACCGCCATTCGCTTACCC
1 GATGCCGCCACCGCCATTCGCTTACCC
*
2435826 GATGCCGCCGCCGCCA
1 GATGCCGCCACCGCCA
2435842 CCATTACCTG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.14, C:0.49, G:0.21, T:0.16
Consensus pattern (27 bp):
GATGCCGCCACCGCCATTCGCTTACCC
Found at i:2448020 original size:40 final size:40
Alignment explanation
Indices: 2447976--2448088 Score: 120
Period size: 40 Copynumber: 2.8 Consensus size: 40
2447966 ACATAGCAAG
* * ** *
2447976 ATTCGCGTTGCAAATTCGAAAATCGAGTTGTGAAAACGAA
1 ATTCGTGTTGCAAATTCAAAAATCGAGTTGCAAAAAAGAA
* *
2448016 ATTCGTGTTGCGAATTTAAAAATCGAGTTGCAAAAAAGAA
1 ATTCGTGTTGCAAATTCAAAAATCGAGTTGCAAAAAAGAA
*
2448056 ATTCGTGTTGCGAAAATGTC-AAATTCGAGTTGC
1 ATTCGTGTTGC--AAAT-TCAAAAATCGAGTTGC
2448089 GAATTCGACT
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
40 44 0.73
42 15 0.25
43 1 0.02
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.28
Consensus pattern (40 bp):
ATTCGTGTTGCAAATTCAAAAATCGAGTTGCAAAAAAGAA
Found at i:2448127 original size:20 final size:20
Alignment explanation
Indices: 2448075--2448134 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
2448065 GCGAAAATGT
*
2448075 CAAATTCGAGTTGCGAATT-
1 CAAATTTGAGTTGCGAATTC
* * *
2448094 CGACTTCTGTGTTGCGAATTC
1 CAAATT-TGAGTTGCGAATTC
*
2448115 CAAATTTGAGTTGCAAATTC
1 CAAATTTGAGTTGCGAATTC
2448135 GGAAACTATG
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
19 4 0.13
20 23 0.74
21 4 0.13
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (20 bp):
CAAATTTGAGTTGCGAATTC
Found at i:2450551 original size:61 final size:60
Alignment explanation
Indices: 2450467--2450609 Score: 164
Period size: 60 Copynumber: 2.4 Consensus size: 60
2450457 GTTTATATGT
* * ** *
2450467 ATAGTTTGA-AATGAAATTGAAATGTTAAAAAATTTTGGGGACCAATTTAGAATGAA-GGTC
1 ATAGTTTGAGAATGAAATTAAAATGTT-AAAAAGTTTAAGGACCAATTTAGAAT-AATAGTC
* * * *
2450527 ATAGTTTGAGGATGAAAATAAAATGTTCAAAAGTTTAAGGACTAATTTAGAATAATAGTC
1 ATAGTTTGAGAATGAAATTAAAATGTTAAAAAGTTTAAGGACCAATTTAGAATAATAGTC
*
2450587 ATAGTTTAAGAATGAAATTAAAA
1 ATAGTTTGAGAATGAAATTAAAA
2450610 CATTTAAAGA
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
59 2 0.03
60 53 0.77
61 14 0.20
ACGTcount: A:0.45, C:0.04, G:0.19, T:0.31
Consensus pattern (60 bp):
ATAGTTTGAGAATGAAATTAAAATGTTAAAAAGTTTAAGGACCAATTTAGAATAATAGTC
Found at i:2450574 original size:60 final size:59
Alignment explanation
Indices: 2450505--2450641 Score: 154
Period size: 60 Copynumber: 2.3 Consensus size: 59
2450495 AAAATTTTGG
* * * **
2450505 GGACCAATTTAGAATGAAGGTCATAGTTTGAGGATGAAAATAAAATGTTCAAAAG-TTTAA
1 GGACTAATTTAGAATGAAGGTCATAGTTTAAGAATGAAAATAAAACATT-AAAAGATTT-A
* * *
2450565 GGACTAATTTAGAAT-AATAGTCATAGTTTAAGAATGAAATTAAAACATTTAAAGATTTA
1 GGACTAATTTAGAATGAA-GGTCATAGTTTAAGAATGAAAATAAAACATTAAAAGATTTA
2450624 GGACTAATTTAGAA-GAAG
1 GGACTAATTTAGAATGAAG
2450642 AATATTAATT
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
59 23 0.35
60 42 0.65
ACGTcount: A:0.45, C:0.06, G:0.19, T:0.30
Consensus pattern (59 bp):
GGACTAATTTAGAATGAAGGTCATAGTTTAAGAATGAAAATAAAACATTAAAAGATTTA
Found at i:2456832 original size:17 final size:16
Alignment explanation
Indices: 2456810--2456850 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
2456800 GGTGTTTATT
2456810 TGTAATCTATAGTCTTA
1 TGTAATCTATAGT-TTA
*
2456827 TGTAATCT-TGGTTTA
1 TGTAATCTATAGTTTA
2456842 T-TAATCTAT
1 TGTAATCTAT
2456851 TGAGGTACTC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 6 0.27
15 5 0.23
16 3 0.14
17 8 0.36
ACGTcount: A:0.27, C:0.10, G:0.12, T:0.51
Consensus pattern (16 bp):
TGTAATCTATAGTTTA
Found at i:2465014 original size:8 final size:8
Alignment explanation
Indices: 2464984--2465093 Score: 56
Period size: 8 Copynumber: 13.9 Consensus size: 8
2464974 ATAACTTATG
2464984 ATATTTT-
1 ATATTTTA
2464991 ATAGTTTT-
1 ATA-TTTTA
2464999 ATATTTTTA
1 ATA-TTTTA
2465008 ATATTTTA
1 ATATTTTA
2465016 ATAATTTTA
1 AT-ATTTTA
2465025 ATAATTTT-
1 AT-ATTTTA
*
2465033 -TA-TTCA
1 ATATTTTA
* *
2465039 TTTTTTTA
1 ATATTTTA
2465047 ATATTTTA
1 ATATTTTA
*
2465055 ATATTGTTTT
1 ATA-T-TTTA
*
2465065 GTATTTTA
1 ATATTTTA
2465073 A-ATTTTA
1 ATATTTTA
2465080 A-A-TTTA
1 ATATTTTA
2465086 ATTATTTT
1 A-TATTTT
2465094 TTCTTAAAAA
Statistics
Matches: 82, Mismatches: 10, Indels: 20
0.73 0.09 0.18
Matches are distributed among these distances:
5 2 0.02
6 6 0.07
7 13 0.16
8 34 0.41
9 22 0.27
10 5 0.06
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.65
Consensus pattern (8 bp):
ATATTTTA
Found at i:2465025 original size:17 final size:16
Alignment explanation
Indices: 2464986--2465032 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
2464976 AACTTATGAT
2464986 ATTTT-ATAGTTTTATA
1 ATTTTAATA-TTTTATA
*
2465002 TTTTTAATATTTTAATA
1 ATTTTAATATTTT-ATA
2465019 ATTTTAATAATTTT
1 ATTTTAAT-ATTTT
2465033 TATTCATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 8 0.31
17 13 0.50
18 5 0.19
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (16 bp):
ATTTTAATATTTTATA
Found at i:2465653 original size:25 final size:24
Alignment explanation
Indices: 2465602--2465654 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
2465592 ATATCAATAT
* *
2465602 TTAATTTTTTTATCAAAAACTATA
1 TTAATTTTTTTATCAAAAACCACA
*
2465626 TTAATTTTTTTTTCTAAAAACCACA
1 TTAATTTTTTTATC-AAAAACCACA
2465651 TTAA
1 TTAA
2465655 ATATAAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 13 0.52
25 12 0.48
ACGTcount: A:0.40, C:0.11, G:0.00, T:0.49
Consensus pattern (24 bp):
TTAATTTTTTTATCAAAAACCACA
Found at i:2465667 original size:24 final size:24
Alignment explanation
Indices: 2465640--2465687 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
2465630 TTTTTTTTTC
2465640 TAAAAACCACATTAAATATAAAAA
1 TAAAAACCACATTAAATATAAAAA
* * *
2465664 TAAAAACCATATTAATTTTAAAAA
1 TAAAAACCACATTAAATATAAAAA
2465688 AATACCTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.27
Consensus pattern (24 bp):
TAAAAACCACATTAAATATAAAAA
Found at i:2480135 original size:135 final size:135
Alignment explanation
Indices: 2479967--2480217 Score: 502
Period size: 135 Copynumber: 1.9 Consensus size: 135
2479957 TATGATTTAA
2479967 AGAGCTTAAAACCACTTTCTAGTAAAGTCACAATAGAAAGTCAATATCTTTATTTTCAAAGTATT
1 AGAGCTTAAAACCACTTTCTAGTAAAGTCACAATAGAAAGTCAATATCTTTATTTTCAAAGTATT
2480032 CAATGAAATCAATATGTACAGAAAATAAATGTGAGCTTGTCAAGAGCATAATTGGTGGCCACACC
66 CAATGAAATCAATATGTACAGAAAATAAATGTGAGCTTGTCAAGAGCATAATTGGTGGCCACACC
2480097 TATTG
131 TATTG
2480102 AGAGCTTAAAACCACTTTCTAGTAAAGTCACAATAGAAAGTCAATATCTTTATTTTCAAAGTATT
1 AGAGCTTAAAACCACTTTCTAGTAAAGTCACAATAGAAAGTCAATATCTTTATTTTCAAAGTATT
2480167 CAATGAAATCAATATGTACAGAAAATAAATGTGAGCTTGTCAAGAGCATAA
66 CAATGAAATCAATATGTACAGAAAATAAATGTGAGCTTGTCAAGAGCATAA
2480218 GTAAACCAGC
Statistics
Matches: 116, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
135 116 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.29
Consensus pattern (135 bp):
AGAGCTTAAAACCACTTTCTAGTAAAGTCACAATAGAAAGTCAATATCTTTATTTTCAAAGTATT
CAATGAAATCAATATGTACAGAAAATAAATGTGAGCTTGTCAAGAGCATAATTGGTGGCCACACC
TATTG
Found at i:2483859 original size:27 final size:26
Alignment explanation
Indices: 2483816--2483879 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 26
2483806 TGTTTGTATC
2483816 TATTTATTTTATCTTTAAAGATGTTCA
1 TATTTA-TTTATCTTTAAAGATGTTCA
* * *
2483843 TCATTTATTTATTTTTAAAGATTTTTA
1 T-ATTTATTTATCTTTAAAGATGTTCA
2483870 TATTTATTTA
1 TATTTATTTA
2483880 AAAATTTAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 9 0.27
27 19 0.58
28 5 0.15
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.61
Consensus pattern (26 bp):
TATTTATTTATCTTTAAAGATGTTCA
Found at i:2483908 original size:24 final size:25
Alignment explanation
Indices: 2483867--2483925 Score: 66
Period size: 26 Copynumber: 2.4 Consensus size: 25
2483857 TTAAAGATTT
**
2483867 TTATATTTATTTAAAAA-TTTAATA
1 TTATATTTAAATAAAAATTTTAATA
*
2483891 TTATATTTAAATATAAATTTTTAATA
1 TTATATTTAAATA-AAAATTTTAATA
*
2483917 TCATATTTA
1 TTATATTTA
2483926 CGTTGGTTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 11 0.38
25 3 0.10
26 15 0.52
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (25 bp):
TTATATTTAAATAAAAATTTTAATA
Found at i:2494916 original size:18 final size:17
Alignment explanation
Indices: 2494880--2494927 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
2494870 TTTTAATAAG
2494880 AAATATATAAAAATTTA
1 AAATATATAAAAATTTA
*
2494897 AAATATATAATAATTTTA
1 AAATATATAA-AAATTTA
*
2494915 AAAT-TTTAAAAAT
1 AAATATATAAAAAT
2494928 ACGACTGACT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 3 0.11
17 14 0.52
18 10 0.37
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
AAATATATAAAAATTTA
Found at i:2495487 original size:22 final size:22
Alignment explanation
Indices: 2495462--2495504 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
2495452 TATATTTTGT
2495462 TGATTTT-TTTTAAAAATTTTTC
1 TGATTTTATTTT-AAAATTTTTC
*
2495484 TGATTTTATTTTTAAATTTTT
1 TGATTTTATTTTAAAATTTTT
2495505 AAATCTATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.67
Consensus pattern (22 bp):
TGATTTTATTTTAAAATTTTTC
Found at i:2504079 original size:58 final size:57
Alignment explanation
Indices: 2504017--2504211 Score: 171
Period size: 58 Copynumber: 3.3 Consensus size: 57
2504007 TCAGGTGACC
* * *
2504017 ATTTTGTAACTTTTAATAGTTGAAAGATTAAAAAATAACATGCTATAATTGATAAATT
1 ATTTTATAAATTTTAATAGTTGAAAGATTAAAAAATAACAT-CTATAATTGATAAATA
* * * * * * *
2504075 ATTTTATAAATTTTAATAATTGAATGACTAAAAAGACTTTA-ATATA-AATAG-TCAGGCGATA
1 ATTTTATAAATTTTAATAGTTGAAAGATTAAAAA-A--TAACATCTATAATTGAT-A---AATA
* * *
2504136 ATTTTATAATTTTTAATAGTTGAAAGATTAAAAAATAACATACTATAATTGATCAATC
1 ATTTTATAAATTTTAATAGTTGAAAGATTAAAAAATAACAT-CTATAATTGATAAATA
2504194 ATTTTATAAATTTTAATA
1 ATTTTATAAATTTTAATA
2504212 ATCCAATCAC
Statistics
Matches: 105, Mismatches: 21, Indels: 22
0.71 0.14 0.15
Matches are distributed among these distances:
57 1 0.01
58 55 0.52
59 5 0.05
60 5 0.05
61 38 0.36
62 1 0.01
ACGTcount: A:0.46, C:0.06, G:0.09, T:0.40
Consensus pattern (57 bp):
ATTTTATAAATTTTAATAGTTGAAAGATTAAAAAATAACATCTATAATTGATAAATA
Found at i:2504502 original size:17 final size:17
Alignment explanation
Indices: 2504477--2504510 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2504467 GTAGCTCATT
*
2504477 TATATCAGCTGATTAAC
1 TATAACAGCTGATTAAC
*
2504494 TATAACAGCTGGTTAAC
1 TATAACAGCTGATTAAC
2504511 AACTTCCCTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (17 bp):
TATAACAGCTGATTAAC
Found at i:2504666 original size:21 final size:21
Alignment explanation
Indices: 2504642--2504690 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
2504632 CTCTCTGATG
2504642 AACACTCTTCATGCTATTCAC
1 AACACTCTTCATGCTATTCAC
*
2504663 AACACTCTTCATGCTGTTCAC
1 AACACTCTTCATGCTATTCAC
2504684 ATACACT
1 A-ACACT
2504691 AACATTCCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 21 0.81
22 5 0.19
ACGTcount: A:0.29, C:0.33, G:0.06, T:0.33
Consensus pattern (21 bp):
AACACTCTTCATGCTATTCAC
Found at i:2516701 original size:17 final size:15
Alignment explanation
Indices: 2516664--2516710 Score: 58
Period size: 16 Copynumber: 3.0 Consensus size: 15
2516654 CCTCCACAAA
* *
2516664 TTTTTTAATTATTTT
1 TTTTTTAATTATATG
2516679 TATTTTTAACTTATATG
1 T-TTTTTAA-TTATATG
2516696 TTTTTTAATTATATG
1 TTTTTTAATTATATG
2516711 CATTAAATCG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 8 0.29
16 14 0.50
17 6 0.21
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (15 bp):
TTTTTTAATTATATG
Found at i:2519819 original size:21 final size:21
Alignment explanation
Indices: 2519793--2519842 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
2519783 CATGATTATT
2519793 TAAAAA-ACTAAATAAAAATAC
1 TAAAAACACTAAATAAAAA-AC
* *
2519814 TAAAAACATTTAATAAAAAAC
1 TAAAAACACTAAATAAAAAAC
2519835 TAAAAACA
1 TAAAAACA
2519843 TCCCCACAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 16 0.62
22 10 0.38
ACGTcount: A:0.70, C:0.10, G:0.00, T:0.20
Consensus pattern (21 bp):
TAAAAACACTAAATAAAAAAC
Found at i:2519843 original size:21 final size:22
Alignment explanation
Indices: 2519803--2519843 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
2519793 TAAAAAACTA
2519803 AATAAAAATACTAAAAACATTT
1 AATAAAAATACTAAAAACATTT
2519825 AATAAAAA-ACTAAAAACAT
1 AATAAAAATACTAAAAACAT
2519844 CCCCACAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.68, C:0.10, G:0.00, T:0.22
Consensus pattern (22 bp):
AATAAAAATACTAAAAACATTT
Found at i:2520036 original size:15 final size:14
Alignment explanation
Indices: 2520009--2520042 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
2519999 AAGAAAACTA
2520009 AAAAGCTGAAAACG
1 AAAAGCTGAAAACG
*
2520023 AAAAGACTGGAAACG
1 AAAAG-CTGAAAACG
2520038 AAAAG
1 AAAAG
2520043 GAGAAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.59, C:0.12, G:0.24, T:0.06
Consensus pattern (14 bp):
AAAAGCTGAAAACG
Found at i:2520723 original size:33 final size:34
Alignment explanation
Indices: 2520665--2520732 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 34
2520655 GTTCAATTCC
*
2520665 CGGCAATGGAACTATTTGTAACTATTATATTTTT
1 CGGCAATGGAACTATTTATAACTATTATATTTTT
* * *
2520699 CGGCAAT-GAGCTTTTTATAACTATTATTTTTTT
1 CGGCAATGGAACTATTTATAACTATTATATTTTT
2520732 C
1 C
2520733 TGAATTTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
33 23 0.77
34 7 0.23
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.47
Consensus pattern (34 bp):
CGGCAATGGAACTATTTATAACTATTATATTTTT
Found at i:2523769 original size:35 final size:35
Alignment explanation
Indices: 2523677--2523748 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
2523667 CCAAAAAAGA
*
2523677 AGAGTTGGATTATGACTCAAATACTAGTCTAAAAT
1 AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
2523712 AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
1 AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
2523747 AG
1 AG
2523749 GGTTTTTTAG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.29
Consensus pattern (35 bp):
AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
Found at i:2524424 original size:2 final size:2
Alignment explanation
Indices: 2524419--2524445 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2524409 CTTATAACTT
2524419 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 T
2524446 TTATTTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2524450 original size:4 final size:4
Alignment explanation
Indices: 2524443--2524500 Score: 59
Period size: 4 Copynumber: 14.5 Consensus size: 4
2524433 TATATATATA
*
2524443 TATT TATT TATT TATTT TATT TATTT TATT TTTT TATT TA-T TA-T TATAT
1 TATT TATT TATT TA-TT TATT TA-TT TATT TATT TATT TATT TATT TAT-T
2524492 TATT T-TT TA
1 TATT TATT TA
2524501 AAAAATATTG
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
3 9 0.19
4 26 0.55
5 12 0.26
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:2524454 original size:8 final size:8
Alignment explanation
Indices: 2524443--2524500 Score: 59
Period size: 9 Copynumber: 7.2 Consensus size: 8
2524433 TATATATATA
2524443 TATTTATT
1 TATTTATT
2524451 TATTTATTT
1 TATTTA-TT
2524460 TATTTATTT
1 TATTTA-TT
*
2524469 TATTTTTT
1 TATTTATT
2524477 TATTTA-T
1 TATTTATT
2524484 TA-TTATAT
1 TATTTAT-T
2524492 TATTT-TT
1 TATTTATT
2524499 TA
1 TA
2524501 AAAAATATTG
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
6 3 0.07
7 6 0.14
8 17 0.39
9 18 0.41
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTATT
Found at i:2524465 original size:17 final size:17
Alignment explanation
Indices: 2524443--2524500 Score: 70
Period size: 17 Copynumber: 3.6 Consensus size: 17
2524433 TATATATATA
2524443 TATTTATTTATTTATTT
1 TATTTATTTATTTATTT
2524460 TATTTATTTTATTT-TTT
1 TATTTA-TTTATTTATTT
*
2524477 TATTTA-TTA-TTATAT
1 TATTTATTTATTTATTT
2524492 TATTT-TTTA
1 TATTTATTTA
2524501 AAAAATATTG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 2 0.05
15 13 0.35
17 15 0.41
18 7 0.19
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
TATTTATTTATTTATTT
Found at i:2524494 original size:23 final size:25
Alignment explanation
Indices: 2524445--2524499 Score: 58
Period size: 26 Copynumber: 2.1 Consensus size: 25
2524435 TATATATATA
2524445 TTTATTTATTTATTT-TATTTATTTT
1 TTTATTTATTTATTTATA-TTATTTT
*
2524470 ATTTTTTTATTTATTATTATATTATTTT
1 -TTTATTTATTTA-T-TTATATTATTTT
2524498 TT
1 TT
2524500 AAAAAATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
26 11 0.44
27 3 0.12
28 9 0.36
29 2 0.08
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (25 bp):
TTTATTTATTTATTTATATTATTTT
Found at i:2524716 original size:38 final size:40
Alignment explanation
Indices: 2524665--2524744 Score: 112
Period size: 40 Copynumber: 2.0 Consensus size: 40
2524655 AGTGAGAGGG
*
2524665 TAGCTTTTCTATTTT-TAAATA-TTTGTTGTATATATATA
1 TAGCTTTTCTATTTTATAAATACTTTGATGTATATATATA
*
2524703 TAGCTTATT-TATTTTATTAATACTTTGATGTATATATATA
1 TAGCTT-TTCTATTTTATAAATACTTTGATGTATATATATA
2524743 TA
1 TA
2524745 TATTTTTCTT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
38 12 0.32
39 7 0.19
40 18 0.49
ACGTcount: A:0.31, C:0.05, G:0.07, T:0.56
Consensus pattern (40 bp):
TAGCTTTTCTATTTTATAAATACTTTGATGTATATATATA
Found at i:2524834 original size:14 final size:14
Alignment explanation
Indices: 2524815--2524854 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
2524805 TATTTATTTA
*
2524815 TTTTATTTTTTTCT
1 TTTTATTTTATTCT
2524829 TTTTATTTTATTCT
1 TTTTATTTTATTCT
* *
2524843 CTTTATCTTATT
1 TTTTATTTTATT
2524855 TGTTTTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTATTTTATTCT
Found at i:2534110 original size:14 final size:14
Alignment explanation
Indices: 2534083--2534118 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
2534073 TATGTGTTGG
*
2534083 GATTT-AGGGTTTA
1 GATTTAAGGGGTTA
2534096 GATTTAAGGGGTTA
1 GATTTAAGGGGTTA
2534110 GATTTAAGG
1 GATTTAAGG
2534119 ATCTTGGGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 5 0.24
14 16 0.76
ACGTcount: A:0.28, C:0.00, G:0.33, T:0.39
Consensus pattern (14 bp):
GATTTAAGGGGTTA
Found at i:2536413 original size:22 final size:21
Alignment explanation
Indices: 2536370--2536413 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
2536360 TATATTTTTT
* *
2536370 TTAAAATTACGAAATTATCAC
1 TTAAAATTACGAAAATAGCAC
*
2536391 TTAAAATTTATGAAAATAGCAC
1 TTAAAA-TTACGAAAATAGCAC
2536413 T
1 T
2536414 ATTTTCAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.48, C:0.11, G:0.07, T:0.34
Consensus pattern (21 bp):
TTAAAATTACGAAAATAGCAC
Found at i:2536467 original size:29 final size:29
Alignment explanation
Indices: 2536398--2536467 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
2536388 CACTTAAAAT
* * *
2536398 TTATGAAAATAGCACTATTTTCAAAATAA
1 TTATCAAAATATCACCATTTTCAAAATAA
2536427 TTATCAAAATATCACCATTTTCAAAATAA
1 TTATCAAAATATCACCATTTTCAAAATAA
2536456 TTA-CTAAAATAT
1 TTATC-AAAATAT
2536468 TACCCGGTCA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 1 0.03
29 36 0.97
ACGTcount: A:0.49, C:0.13, G:0.03, T:0.36
Consensus pattern (29 bp):
TTATCAAAATATCACCATTTTCAAAATAA
Found at i:2543677 original size:29 final size:29
Alignment explanation
Indices: 2543629--2543794 Score: 107
Period size: 29 Copynumber: 5.9 Consensus size: 29
2543619 TATCACCCTT
* *
2543629 TTTA-AAAAAAATTACAAAAATATCACTC
1 TTTACAAAATAATTACTAAAATATCACTC
* *
2543657 TTTACAAAATAATTACTAAAATATCATTT
1 TTTACAAAATAATTACTAAAATATCACTC
*** * * * *
2543686 TTTTTTAAAT--TTACGACATTATAACT-
1 TTTACAAAATAATTACTAAAATATCACTC
*
2543712 TTTA-AAAA-AATTA-TGAAAATAGCAC-C
1 TTTACAAAATAATTACT-AAAATATCACTC
* *
2543738 ATTTTCAAAATAATTA-TCAAAATATCACTA
1 -TTTACAAAATAATTACT-AAAATATCACTC
*
2543768 TTTTCAAAATAATTACTAAAATATCAC
1 TTTACAAAATAATTACTAAAATATCAC
2543795 CCAACAGGTC
Statistics
Matches: 105, Mismatches: 23, Indels: 19
0.71 0.16 0.13
Matches are distributed among these distances:
25 3 0.03
26 12 0.11
27 14 0.13
28 8 0.08
29 67 0.64
30 1 0.01
ACGTcount: A:0.49, C:0.13, G:0.02, T:0.37
Consensus pattern (29 bp):
TTTACAAAATAATTACTAAAATATCACTC
Found at i:2544998 original size:2 final size:2
Alignment explanation
Indices: 2544991--2545015 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2544981 TCGGAGGAGC
2544991 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
2545016 CTTTACCCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2550600 original size:258 final size:250
Alignment explanation
Indices: 2550106--2550597 Score: 778
Period size: 258 Copynumber: 1.9 Consensus size: 250
2550096 TTCACCCTAA
* * *
2550106 ACCCGAACCCGATCCGAATATATGAATCAGAAATCCGATCTGATCCGAAATAATAAAAAATATTT
1 ACCCGAACCCGACCCGAATATATGAATCAGAAATCCGATCCGACCCGAAATAATAAAAAATATTT
*
2550171 TTATTCAATAAAAACAGTGATTTAAATGAAAAAAATTATATATAGAGGGGTATTATTGTAATTAT
66 TTATTCAATAAAAACAGTGACTTAAATGAAAAAAATTATATATAGAGGGGTATTATTGTAATTAT
*
2550236 TCATAAATTTATAAGGTAAAATTATATATATTTTCGGGTCGGGTATTTTTCACCCTAAACCCGAA
131 TCATAAATATATAAGGTAAAATTATATATATTTTCGGGTCGGGTATTTTTCACCCTAAACCCGAA
2550301 CTTGACTCGACCCGAATATCACACTTAAAAAAACAGACCCGACCCGACCAAAATAAAGTTTC
196 --T-ACT----CCGAATATCACACTTAAAAAAACAGACCCGACCCGACCAAAATAAAGTTTC
*
2550363 ACCCG-ACCCGACCCGAATATATGAATTAGAAA-CTCGATCCGACCCGAAATAATAAAAAAATTA
1 ACCCGAACCCGACCCGAATATATGAATCAGAAATC-CGATCCGACCCGAAATAAT-AAAAAA-TA
*
2550426 TTTTTATTCAATAAAAACAGTGACTTAATTGAAAAAAATTATATATAGAGGGGTATTATTGTAAT
63 TTTTTATTCAATAAAAACAGTGACTTAAATGAAAAAAATTATATATAGAGGGGTATTATTGTAAT
*
2550491 TATTCATAAATATATAAGGTAAAATTATATATATTTTCGGGTCGGGTATTTTTCACGCTAAACCC
128 TATTCATAAATATATAAGGTAAAATTATATATATTTTCGGGTCGGGTATTTTTCACCCTAAACCC
*
2550556 G-A-ACT-CGAATATCACACTTAAAAAAACCGACCCGACCCGACC
193 GAATACTCCGAATATCACACTTAAAAAAACAGACCCGACCCGACC
2550598 CGAATATATG
Statistics
Matches: 223, Mismatches: 9, Indels: 15
0.90 0.04 0.06
Matches are distributed among these distances:
248 36 0.16
253 3 0.01
255 1 0.00
256 42 0.19
257 12 0.05
258 129 0.58
ACGTcount: A:0.41, C:0.18, G:0.13, T:0.28
Consensus pattern (250 bp):
ACCCGAACCCGACCCGAATATATGAATCAGAAATCCGATCCGACCCGAAATAATAAAAAATATTT
TTATTCAATAAAAACAGTGACTTAAATGAAAAAAATTATATATAGAGGGGTATTATTGTAATTAT
TCATAAATATATAAGGTAAAATTATATATATTTTCGGGTCGGGTATTTTTCACCCTAAACCCGAA
TACTCCGAATATCACACTTAAAAAAACAGACCCGACCCGACCAAAATAAAGTTTC
Found at i:2556392 original size:193 final size:196
Alignment explanation
Indices: 2556063--2556451 Score: 757
Period size: 193 Copynumber: 2.0 Consensus size: 196
2556053 GGGTTATATT
2556063 TTATTATAATATTCTAGTGAGCATGTTAATGTCCAACTCAGATGACCATCGTTTTCTTAATGAAA
1 TTATTATAATATTCTAGTGAGCATGTTAATGTCCAACTCAGATGACCATCGTTTTCTTAATGAAA
2556128 AAAGAAGAGTTTTGAATATATGAATAGTTGAGTGACAATATTGCAATTTTTAATAGTCAGAGAAC
66 AAAGAAGAGTTTTGAATATATGAATAGTTGAGTGACAATATTGCAATTTTTAATAGTCAGAGAAC
2556193 TCGACAAAGCAATACCTTATAATTGAGAGATTATTTTATAACTTTC-A-A-TCGAACTATAGTCG
131 TCGACAAAGCAATACCTTATAATTGAGAGATTATTTTATAACTTTCAATAGTCGAACTATAGTCG
2556255 A
196 A
2556256 TTATTATAATATTCTAGTGAGCATGTTAATGTCCAACTCAGATGACCATCGTTTTCTTAATGAAA
1 TTATTATAATATTCTAGTGAGCATGTTAATGTCCAACTCAGATGACCATCGTTTTCTTAATGAAA
2556321 AAAGAAGAGTTTTGAATATATGAATAGTTGAGTGACAATATTGCAATTTTTAATAGTCAGAGAAC
66 AAAGAAGAGTTTTGAATATATGAATAGTTGAGTGACAATATTGCAATTTTTAATAGTCAGAGAAC
2556386 TCGACAAAGCAATACCTTATAATTGAGAGATTATTTTATAACTTTCAATAGTCGAACTATAGTCG
131 TCGACAAAGCAATACCTTATAATTGAGAGATTATTTTATAACTTTCAATAGTCGAACTATAGTCG
2556451 A
196 A
2556452 GAGACCATTT
Statistics
Matches: 193, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
193 176 0.91
194 1 0.01
195 1 0.01
196 15 0.08
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (196 bp):
TTATTATAATATTCTAGTGAGCATGTTAATGTCCAACTCAGATGACCATCGTTTTCTTAATGAAA
AAAGAAGAGTTTTGAATATATGAATAGTTGAGTGACAATATTGCAATTTTTAATAGTCAGAGAAC
TCGACAAAGCAATACCTTATAATTGAGAGATTATTTTATAACTTTCAATAGTCGAACTATAGTCG
A
Found at i:2558631 original size:38 final size:38
Alignment explanation
Indices: 2558580--2558655 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
2558570 GTCTCTCCCC
2558580 TAAAATTTTAAAAATGTATCCCTCTAACATGAAATTTT
1 TAAAATTTTAAAAATGTATCCCTCTAACATGAAATTTT
2558618 TAAAATTTTAAAAATGTATCCCTCTAACATGAAATTTT
1 TAAAATTTTAAAAATGTATCCCTCTAACATGAAATTTT
2558656 ATTCATCTCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.42, C:0.13, G:0.05, T:0.39
Consensus pattern (38 bp):
TAAAATTTTAAAAATGTATCCCTCTAACATGAAATTTT
Found at i:2558835 original size:15 final size:15
Alignment explanation
Indices: 2558803--2558837 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
2558793 ATTTTTCTCT
* *
2558803 TTGGTAGAACTTATG
1 TTGGTAGAACTAAAG
2558818 TTGGTAGAACTAAAG
1 TTGGTAGAACTAAAG
2558833 TTGGT
1 TTGGT
2558838 GTTTTCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.29, C:0.06, G:0.29, T:0.37
Consensus pattern (15 bp):
TTGGTAGAACTAAAG
Found at i:2572501 original size:60 final size:62
Alignment explanation
Indices: 2572428--2572551 Score: 234
Period size: 62 Copynumber: 2.0 Consensus size: 62
2572418 ATTTTTTTTT
2572428 ATGAGGGGAA-T-TATTGGATTCAAGTTCGCGTATTTGATGGTCTGGGTTCGTGAGAGAAAA
1 ATGAGGGGAATTATATTGGATTCAAGTTCGCGTATTTGATGGTCTGGGTTCGTGAGAGAAAA
2572488 ATGAGGGGAATTATATTGGATTCAAGTTCGCGTATTTGATGGTCTGGGTTCGTGAGAGAAAA
1 ATGAGGGGAATTATATTGGATTCAAGTTCGCGTATTTGATGGTCTGGGTTCGTGAGAGAAAA
2572550 AT
1 AT
2572552 TGGAATCTCG
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
60 10 0.16
61 1 0.02
62 51 0.82
ACGTcount: A:0.27, C:0.08, G:0.32, T:0.32
Consensus pattern (62 bp):
ATGAGGGGAATTATATTGGATTCAAGTTCGCGTATTTGATGGTCTGGGTTCGTGAGAGAAAA
Found at i:2589715 original size:2 final size:2
Alignment explanation
Indices: 2589708--2589752 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
2589698 AATTAAAATA
*
2589708 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2589750 AT A
1 AT A
2589753 ATTATAATAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2589758 original size:12 final size:11
Alignment explanation
Indices: 2589705--2589764 Score: 72
Period size: 12 Copynumber: 5.5 Consensus size: 11
2589695 GTAAATTAAA
2589705 ATAATATATAT
1 ATAATATATAT
2589716 AT-ATATATAT
1 ATAATATATAT
2589726 ATATATATATAT
1 ATA-ATATATAT
*
2589738 ATATGTATATAT
1 ATA-ATATATAT
2589750 ATAAT-TATA-
1 ATAATATATAT
2589759 ATAATA
1 ATAATA
2589765 ATTCAATTTC
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
9 5 0.11
10 14 0.32
11 3 0.07
12 22 0.50
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (11 bp):
ATAATATATAT
Found at i:2590466 original size:60 final size:59
Alignment explanation
Indices: 2590402--2590517 Score: 153
Period size: 60 Copynumber: 1.9 Consensus size: 59
2590392 ATAATTTTAC
* * *
2590402 AACTTTTAATAGTCGAAT-GACTCAACAAAATAACATCTTATAGTCGAGAAATCATTTTGT
1 AACTTTTAATAGTC-AATGGACTCAACAAAACAACACCTTATACTCGAGAAA-CATTTTGT
* * *
2590462 AACTTTTAATAGTCAGTGGACTCAACAAAACAACGCCTTATACTCTAGAAACATTT
1 AACTTTTAATAGTCAATGGACTCAACAAAACAACACCTTATACTCGAGAAACATTT
2590518 ATATACTTTA
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
59 7 0.14
60 42 0.86
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.31
Consensus pattern (59 bp):
AACTTTTAATAGTCAATGGACTCAACAAAACAACACCTTATACTCGAGAAACATTTTGT
Found at i:2591271 original size:7 final size:7
Alignment explanation
Indices: 2591261--2591286 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
2591251 TTAAGGGTAT
2591261 AATTTTA
1 AATTTTA
2591268 AATTTTA
1 AATTTTA
2591275 AATTTTA
1 AATTTTA
2591282 AATTT
1 AATTT
2591287 ATTTTAATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
AATTTTA
Found at i:2593821 original size:200 final size:197
Alignment explanation
Indices: 2593502--2593935 Score: 572
Period size: 200 Copynumber: 2.2 Consensus size: 197
2593492 CACATATGTT
* *
2593502 ACATCGAAACCGATAATTATAATGTAATAAATAAATTTACAATATAACCGGTATAAATATACTGA
1 ACATCGAAACCGATAATTATAATGTAAT-AGTAAATTTACAATATAACCGGTATAAATATACCGA
*
2593567 TTTTATGAGAGAATAGGTCAACATAATGTATCGACACAAATTTAAAAAGTGTCGATACATTTTGT
65 TTTTATGAGAAAATAGGTCAACATAATGTATCGACACAAATTTAAAAAGTGTCGATAC-TTTT-T
* *
2593632 T-AAAAATGAATGTCAAACGAGGTGCACACATAAAGTGTCGATACATTTATTAAA-AGTATCGAT
128 TCAAAAATGAATGCCAAACGAGGTGCACACATAAAGTGTCGATACATTTA--AAATAGTATCAAT
2593695 CCCAAAA
191 CCCAAAA
* *
2593702 ACATCGAAACCGATAATTACAATGTAATATGTAAATTTACAATGT-ACTCGGTATAAATATACCG
1 ACATCGAAACCGATAATTATAATGTAATA-GTAAATTTACAATATAAC-CGGTATAAATATACCG
* * * * ***
2593766 GTTTTATGATAAAATAGGTCTACATAATGTATCGACAC-ATTTTAAGTTTGTGTCGATACTTTTT
64 ATTTTATGAGAAAATAGGTCAACATAATGTATCGACACAAATTTAA-AAAGTGTCGATACTTTTT
* * * * * *
2593830 TCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCTATACATTTAAAATTGTATCAATCC
128 TCAAAAATGAATGCCAAACGAGGTGCACACATAAAGTGTCGATACATTTAAAATAGTATCAATCC
2593895 CAAAA
193 CAAAA
*
2593900 ACATCAAAACCGATAATTATAATGTAATAG-AAATTT
1 ACATCGAAACCGATAATTATAATGTAATAGTAAATTT
2593936 TTGCAATGTT
Statistics
Matches: 207, Mismatches: 22, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
196 6 0.03
197 4 0.02
198 43 0.21
199 55 0.27
200 99 0.48
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (197 bp):
ACATCGAAACCGATAATTATAATGTAATAGTAAATTTACAATATAACCGGTATAAATATACCGAT
TTTATGAGAAAATAGGTCAACATAATGTATCGACACAAATTTAAAAAGTGTCGATACTTTTTTCA
AAAATGAATGCCAAACGAGGTGCACACATAAAGTGTCGATACATTTAAAATAGTATCAATCCCAA
AA
Found at i:2593981 original size:24 final size:23
Alignment explanation
Indices: 2593944--2593999 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 23
2593934 TTTTGCAATG
2593944 TTTATT-TTAAAAATAATAATAT
1 TTTATTGTTAAAAATAATAATAT
*
2593966 TATT-TTGTTAATAAATAATATTAT
1 T-TTATTGTTAA-AAATAATAATAT
2593990 TTTATTGTTA
1 TTTATTGTTA
2594000 TCCTTGATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
22 3 0.10
23 8 0.28
24 18 0.62
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (23 bp):
TTTATTGTTAAAAATAATAATAT
Found at i:2594553 original size:23 final size:23
Alignment explanation
Indices: 2594527--2594574 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
2594517 GTAATTAACA
*
2594527 TATTTTATTATATAAGCGCTACC
1 TATTTCATTATATAAGCGCTACC
*
2594550 TATTTCGTTATATAAGCGCTACC
1 TATTTCATTATATAAGCGCTACC
2594573 TA
1 TA
2594575 ATATGTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.42
Consensus pattern (23 bp):
TATTTCATTATATAAGCGCTACC
Found at i:2594582 original size:23 final size:23
Alignment explanation
Indices: 2594534--2594583 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
2594524 ACATATTTTA
*
2594534 TTATATAAGCGCTACCTATTTCG
1 TTATATAAGCGCTACCTATATCG
2594557 TTATATAAGCGCTACCTAATAT-G
1 TTATATAAGCGCTACCT-ATATCG
2594580 TTAT
1 TTAT
2594584 TTTTGCTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 22 0.88
24 3 0.12
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.40
Consensus pattern (23 bp):
TTATATAAGCGCTACCTATATCG
Found at i:2594671 original size:23 final size:23
Alignment explanation
Indices: 2594621--2594665 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
2594611 AATCTATTTT
* *
2594621 ATTATATAAGTATTACCTATTAC
1 ATTATATAAGTAGTACCTAATAC
*
2594644 ATTATATAAGTGGTACCTAATA
1 ATTATATAAGTAGTACCTAATA
2594666 TGTTATTGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (23 bp):
ATTATATAAGTAGTACCTAATAC
Found at i:2594725 original size:87 final size:88
Alignment explanation
Indices: 2594516--2594747 Score: 333
Period size: 87 Copynumber: 2.6 Consensus size: 88
2594506 TAACAAATTA
* *
2594516 AGTAATTAACATATTTTATTATATAAGCGCTACCTATTTCGTTATATAAGCGCTACCTAATATGT
1 AGTAATTAACTTATTTTATTATATAAGCGCTACCTATTTCATTATATAAGCGCTACCTAATATGT
* * *
2594581 TATTTTTGCTTGATAATGTTTTC
66 TATTTGTGCTTGATAATATTTCC
*** * * *
2594604 AGTAATTAA-TCTATTTTATTATATAAGTATTACCTATTACATTATATAAGTGGTACCTAATATG
1 AGTAATTAACT-TATTTTATTATATAAGCGCTACCTATTTCATTATATAAGCGCTACCTAATATG
2594668 TTA-TTGTGCTTGATAATATTTCC
65 TTATTTGTGCTTGATAATATTTCC
*
2594691 AGTAATTAACTTATTTTATTATATAAGCGCTACCTATTTTATTATATAAGCGCTACC
1 AGTAATTAACTTATTTTATTATATAAGCGCTACCTATTTCATTATATAAGCGCTACC
2594748 AATTATATTA
Statistics
Matches: 124, Mismatches: 18, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
87 65 0.52
88 59 0.48
ACGTcount: A:0.32, C:0.13, G:0.10, T:0.45
Consensus pattern (88 bp):
AGTAATTAACTTATTTTATTATATAAGCGCTACCTATTTCATTATATAAGCGCTACCTAATATGT
TATTTGTGCTTGATAATATTTCC
Found at i:2594728 original size:23 final size:23
Alignment explanation
Indices: 2594702--2594772 Score: 124
Period size: 23 Copynumber: 3.1 Consensus size: 23
2594692 GTAATTAACT
2594702 TATTTTATTATATAAGCGCTACC
1 TATTTTATTATATAAGCGCTACC
2594725 TATTTTATTATATAAGCGCTACC
1 TATTTTATTATATAAGCGCTACC
* *
2594748 AATTATATTATATAAGCGCTACC
1 TATTTTATTATATAAGCGCTACC
2594771 TA
1 TA
2594773 AATGTTATTG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.34, C:0.17, G:0.08, T:0.41
Consensus pattern (23 bp):
TATTTTATTATATAAGCGCTACC
Found at i:2594808 original size:109 final size:110
Alignment explanation
Indices: 2594614--2594851 Score: 352
Period size: 109 Copynumber: 2.2 Consensus size: 110
2594604 AGTAATTAAT
*** * * *
2594614 CTATTTTATTATATAAGTATTACCTATTACATTATATAAGTGGTACCTAATATGTTATTGTGCTT
1 CTATTTTATTATATAAGCGCTACCAATTACATTATATAAGCGCTACCTAATATGTTATTGTGCTT
* *
2594679 GATAATATTTCCAGTAATTAACTTATTTTATTATATAAGCGCTAC
66 GATAATATTTCCAGTAATTAACATATTTTATTATATAAGCGATAC
* *
2594724 CTATTTTATTATATAAGCGCTACCAATTATATTATATAAGCGCTACCTAA-ATGTTATTGTGTTT
1 CTATTTTATTATATAAGCGCTACCAATTACATTATATAAGCGCTACCTAATATGTTATTGTGCTT
*
2594788 GATAATATTTCCAGTAATTAACATATTTTATTATATAAGTGATAC
66 GATAATATTTCCAGTAATTAACATATTTTATTATATAAGCGATAC
**
2594833 CTATTACATTATATAAGCG
1 CTATTTTATTATATAAGCG
2594852 GTACTTAATA
Statistics
Matches: 115, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
109 72 0.63
110 43 0.37
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.44
Consensus pattern (110 bp):
CTATTTTATTATATAAGCGCTACCAATTACATTATATAAGCGCTACCTAATATGTTATTGTGCTT
GATAATATTTCCAGTAATTAACATATTTTATTATATAAGCGATAC
Found at i:2594866 original size:23 final size:23
Alignment explanation
Indices: 2594816--2594867 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
2594806 TAACATATTT
* *
2594816 TATTATATAAGTGATACCTATTA
1 TATTATATAAGCGATACCTAATA
* * *
2594839 CATTATATAAGCGGTACTTAATA
1 TATTATATAAGCGATACCTAATA
2594862 TATTAT
1 TATTAT
2594868 TGTGTTTGAT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (23 bp):
TATTATATAAGCGATACCTAATA
Found at i:2594870 original size:196 final size:198
Alignment explanation
Indices: 2594527--2594938 Score: 627
Period size: 196 Copynumber: 2.1 Consensus size: 198
2594517 GTAATTAACA
* * *
2594527 TATTTTATTATATAAGCGCTACCTATTTCGTTATATAAGCGCTACCTAATATGTTATTTTTGCTT
1 TATTTTATTATATAAGCGCTACCAATTTCATTATATAAGCGCTACCTAATATGTTATTTGTGCTT
* * *
2594592 GATAATGTTTTCAGTAATTAATCTATTTTATTATATAAGTATTACCTATTACATTATATAAGTGG
66 GATAATATTTCCAGTAATTAATCTATTTTATTATATAAGTATTACCTATTACATTATATAAGCGG
* *
2594657 TACCTAATATGTTATTGTGCTTGATAATATTTCCAGTAATTAACTTATTTTATTATATAAGCGCT
131 TACCTAATATATTATTGTGCTTGATAATATTTCCAGTAATTAACCTATTTTATTATATAAGCGCT
2594722 ACC
196 ACC
*
2594725 TATTTTATTATATAAGCGCTACCAATTAT-ATTATATAAGCGCTACCTAA-ATGTTA-TTGTGTT
1 TATTTTATTATATAAGCGCTACCAATT-TCATTATATAAGCGCTACCTAATATGTTATTTGTGCT
2594787 TGATAATATTTCCAGTAATTAA-CATATTTTATTATATAAGTGA-TACCTATTACATTATATAAG
65 TGATAATATTTCCAGTAATTAATC-TATTTTATTATATAAGT-ATTACCTATTACATTATATAAG
* * * *
2594850 CGGTACTTAATATATTATTGTGTTTGATAATGTTTCCAGTAATTAACCTATTTTATTATATAAGT
128 CGGTACCTAATATATTATTGTGCTTGATAATATTTCCAGTAATTAACCTATTTTATTATATAAGC
2594915 GCTACC
193 GCTACC
**
2594921 TATTACATTATATAAGCG
1 TATTTTATTATATAAGCG
2594939 GTATCTAATA
Statistics
Matches: 196, Mismatches: 15, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
195 1 0.01
196 142 0.72
197 7 0.04
198 45 0.23
199 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.45
Consensus pattern (198 bp):
TATTTTATTATATAAGCGCTACCAATTTCATTATATAAGCGCTACCTAATATGTTATTTGTGCTT
GATAATATTTCCAGTAATTAATCTATTTTATTATATAAGTATTACCTATTACATTATATAAGCGG
TACCTAATATATTATTGTGCTTGATAATATTTCCAGTAATTAACCTATTTTATTATATAAGCGCT
ACC
Found at i:2594892 original size:87 final size:87
Alignment explanation
Indices: 2594725--2594973 Score: 376
Period size: 87 Copynumber: 2.9 Consensus size: 87
2594715 AAGCGCTACC
* * * * *
2594725 TATTTTATTATATAAGCGCTACCAATTATATTATATAAGCGCTACCTAA-ATGTTATTGTGTTTG
1 TATTTTATTATATAAGTGCTACCTATTACATTATATAAGCGGTACTTAATATGTTATTGTGTTTG
2594789 ATAATATTTCCAGTAATTAACA
66 ATAATATTTCCAGTAATTAACA
* *
2594811 TATTTTATTATATAAGTGATACCTATTACATTATATAAGCGGTACTTAATATATTATTGTGTTTG
1 TATTTTATTATATAAGTGCTACCTATTACATTATATAAGCGGTACTTAATATGTTATTGTGTTTG
* *
2594876 ATAATGTTTCCAGTAATTAACC
66 ATAATATTTCCAGTAATTAACA
**
2594898 TATTTTATTATATAAGTGCTACCTATTACATTATATAAGCGGTA-TCTAATATGTTATTGTACTT
1 TATTTTATTATATAAGTGCTACCTATTACATTATATAAGCGGTACT-TAATATGTTATTGTGTTT
2594962 GATAATATTTCC
65 GATAATATTTCC
2594974 GATTAAATGA
Statistics
Matches: 147, Mismatches: 14, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
86 44 0.30
87 103 0.70
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.44
Consensus pattern (87 bp):
TATTTTATTATATAAGTGCTACCTATTACATTATATAAGCGGTACTTAATATGTTATTGTGTTTG
ATAATATTTCCAGTAATTAACA
Found at i:2596042 original size:10 final size:10
Alignment explanation
Indices: 2596027--2596059 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
2596017 TGATGTCTTT
2596027 GTTCTTTTCC
1 GTTCTTTTCC
2596037 GTTCTTTTCC
1 GTTCTTTTCC
*
2596047 TTTCTTTTCC
1 GTTCTTTTCC
2596057 GTT
1 GTT
2596060 TAGATGCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.00, C:0.27, G:0.09, T:0.64
Consensus pattern (10 bp):
GTTCTTTTCC
Found at i:2596166 original size:6 final size:6
Alignment explanation
Indices: 2596134--2596167 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
2596124 AATTCTATTC
* *
2596134 ATGTAT ATATAT ATATAT ATGTAT ATGTAT ATGT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGT
2596168 TTTGGTTGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (6 bp):
ATGTAT
Found at i:2598832 original size:16 final size:17
Alignment explanation
Indices: 2598782--2598833 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 17
2598772 ATAAAAAATA
2598782 AATTTGAAAGTTAGAGT
1 AATTTGAAAGTTAGAGT
*
2598799 GA-TT-AAA-TTAGGAGT
1 AATTTGAAAGTTA-GAGT
2598814 AATTTGAAAGTTA-AGT
1 AATTTGAAAGTTAGAGT
2598830 AATT
1 AATT
2598834 AAATTAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
14 3 0.10
15 8 0.28
16 11 0.38
17 4 0.14
18 3 0.10
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.37
Consensus pattern (17 bp):
AATTTGAAAGTTAGAGT
Found at i:2599092 original size:26 final size:26
Alignment explanation
Indices: 2599063--2599118 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
2599053 TTCTTATTAG
*
2599063 TTTAACACAAATAATCAATTAACTAT-
1 TTTAACA-AAAAAATCAATTAACTATA
* *
2599089 TTTATCAAAAAAATCAATTAATTATA
1 TTTAACAAAAAAATCAATTAACTATA
2599115 TTTA
1 TTTA
2599119 CTTACATCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 16 0.62
26 10 0.38
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (26 bp):
TTTAACAAAAAAATCAATTAACTATA
Found at i:2601836 original size:27 final size:27
Alignment explanation
Indices: 2601798--2601851 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
2601788 AAACACTGAT
2601798 TGCTTATTCTCGGCACTTTGCAGGTTG
1 TGCTTATTCTCGGCACTTTGCAGGTTG
2601825 TGCTTATTCTCGGCACTTTGCAGGTTG
1 TGCTTATTCTCGGCACTTTGCAGGTTG
2601852 GTTCTCTCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.11, C:0.22, G:0.26, T:0.41
Consensus pattern (27 bp):
TGCTTATTCTCGGCACTTTGCAGGTTG
Found at i:2604583 original size:18 final size:19
Alignment explanation
Indices: 2604541--2604580 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
2604531 TTTGGTTCAC
2604541 GGAATGTAAGATTACCAGTG
1 GGAATGTAAGATTACCAG-G
*
2604561 GGAATGTAAGATTATCAGG
1 GGAATGTAAGATTACCAGG
2604580 G
1 G
2604581 AATAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.35, C:0.07, G:0.33, T:0.25
Consensus pattern (19 bp):
GGAATGTAAGATTACCAGG
Found at i:2607340 original size:602 final size:599
Alignment explanation
Indices: 2606171--2607376 Score: 1671
Period size: 602 Copynumber: 2.0 Consensus size: 599
2606161 TTGACATGGG
* * * *
2606171 TCATGCCTCTCCTCATGTACGAATGCAGGATATTATGTTAAAGGGTGCGAACTTATAAAATTTAA
1 TCATGCCCCTCCTCATGAACAAATGCAGGATATCATGTTAAAGGGT-CGAACTTATAAAATTTAA
* * * * * *
2606236 AGGATTGACGAATTTGTAAAATTTTAAGGAGGGTGAAACAGATTTACAACAAAAAAATATTTAAA
65 AGGATTAACGAATTTATAAAATTCTAAGGAGGGAGAAACAGA-TAAAAACAAAAAAATATTTAAA
* * * * *
2606301 ATATATAGGAATTTGAAATTTTTAATGGGCGATCTTCTCCACCCGTCCCTCTGTAGGTCCATGTC
129 ATATATAGGAATTTAAAATTTTTAATGGGCGACCTTCCCCACCCGTCCCTCTCTAGGTCCATCTC
* * *
2606366 TACCTCTCCTCAAGTTGTAATCTCGCTAGTTTAGTTTATTTTTTATCCATAAATTGAATTTAGTG
194 TACCTCTCCTCAAGTTGTAAACTCGCTAGTTTAGTTTATTTTTTATACATAAATTGAATTCAGTG
* ** * *
2606431 ACTAAAGATAATAATATTTTTTGAGGTTTTAAATTTGAGTAGTTGTGATTGCAATATGTATATGC
259 ACTAAAGAGAATAATATTTTTTGAGGTTTTAAATTCAAATAGTTGTGATTGCAATATGTATATGA
*
2606496 ATTGTCAATTGGTTAAGAAAATTATGAATAAATACTATATTATAATTATCTCAAACTATTTAAAA
324 ATTGTCAATTGGTTAAGAAAATTATGAATAAATAATATATTATAATTATCT---AC-------AA
2606561 AATTTAATTTTTTAATTTATAAAATTGTAAGTTAAAACAATAATAAAACTATATTTTAACTATTA
379 AATTTAATTTTTTAATTTATAAAATTGTAAGTTAAAACAATAATAAAACTATATTTTAACTATTA
* *
2606626 AAAAATATAATTTTCTTTTGGTCTCTACAATTAATTTTGGTTTCACCTTTAGTTTATCATAATTA
444 AAAAATATAATTTTATTTTGGTCTCTACAATTAATTTTGGTTTCACCTTTAGTTTACCATAATTA
* * *
2606691 CATTTCAATGGAAGTCATTGTGTCATTATACCATAAATTTAGTTGACAAAATTTAAATTAAATAA
509 CATTTCAATGGAAGTCACTATATCATTATACCATAAATTTAGTTGACAAAATTTAAATTAAATAA
2606756 ATTATT-TTTTTATATATTATTTTTA
574 ATTATTATTTTTATATATTATTTTTA
*
2606781 TCATGCCCCTCCTCATGAATAAATGCAGGATATCATGTTAAAGGGAT-GAACTTATAAAATTTTA
1 TCATGCCCCTCCTCATGAACAAATGCAGGATATCATGTTAAAGGG-TCGAACTTATAAAA-TTTA
* *
2606845 AAGGATTAACGAATTTATAAAATTCTATGGAGGGCAGATTTCCAACA-A-AAAATACAAATAACA
64 AAGGATTAACGAATTTATAAAATTCTAAGGAGGG-AGA-----AACAGATAAAA-ACAAA-AAAA
*
2606908 TATTTAAAATATATAGGAATTTAAAATTTTTAA-GGGCCTACCTTCCCCACCCGTCCCTCTCTAG
121 TATTTAAAATATATAGGAATTTAAAATTTTTAATGGG-CGACCTTCCCCACCCGTCCCTCTCTAG
* * *
2606972 GTTCATCTCTACCTCTCCTCAAGTTGTAAACTTGCTAGTTTAGTTTATTTTTTTAATACATCAAT
185 GTCCATCTCTACCTCTCCTCAAGTTGTAAACTCGCTAGTTTAGTTTA-TTTTTT-ATACATAAAT
* * *
2607037 TGAATTCATTGACTAAAGAGAATAATATTTTTTTGAGGTTTTAGATTCAAATAGTTGT-ATTTGT
248 TGAATTCAGTGACTAAAGAGAATAATA-TTTTTTGAGGTTTTAAATTCAAATAGTTGTGA-TTGC
* * *
2607101 GATATGTATAT-AATTGTCAATTGGTTAAGAAAGTTATGAATAAATAATATATTGTAATTATCT-
311 AATATGTATATGAATTGTCAATTGGTTAAGAAAATTATGAATAAATAATATATTATAATTATCTA
2607164 C-AAA-TT-ATTTTTTAATTTATAAAATTGTAAGTTAAAACAATAATAAAACTATATTTTAACTA
376 CAAAATTTAATTTTTTAATTTATAAAATTGTAAGTTAAAACAATAATAAAACTATATTTTAACTA
* *
2607226 TTAAAAAATATAA-TTTATTTTGGTCTCTACAATTTATTTTGGTTTCAGCTTTAGTTTACCATAA
441 TTAAAAAATATAATTTTATTTTGGTCTCTACAATTAATTTTGGTTTCACCTTTAGTTTACCATAA
*
2607290 TTACGTTTCAATGGAAGTCACTATATCATTATACCATAAATTTAGTTGACAAAATTTAAATTAAA
506 TTACATTTCAATGGAAGTCACTATATCATTATACCATAAATTTAGTTGACAAAATTTAAATTAAA
*
2607355 TATATTATTATTTTTATATATT
571 TAAATTATTATTTTTATATATT
2607377 TTTCTCGTTC
Statistics
Matches: 534, Mismatches: 46, Indels: 39
0.86 0.07 0.06
Matches are distributed among these distances:
602 116 0.22
603 81 0.15
604 2 0.00
605 3 0.01
609 12 0.02
610 74 0.14
611 3 0.01
613 3 0.01
614 8 0.01
615 102 0.19
616 10 0.02
617 81 0.15
618 39 0.07
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (599 bp):
TCATGCCCCTCCTCATGAACAAATGCAGGATATCATGTTAAAGGGTCGAACTTATAAAATTTAAA
GGATTAACGAATTTATAAAATTCTAAGGAGGGAGAAACAGATAAAAACAAAAAAATATTTAAAAT
ATATAGGAATTTAAAATTTTTAATGGGCGACCTTCCCCACCCGTCCCTCTCTAGGTCCATCTCTA
CCTCTCCTCAAGTTGTAAACTCGCTAGTTTAGTTTATTTTTTATACATAAATTGAATTCAGTGAC
TAAAGAGAATAATATTTTTTGAGGTTTTAAATTCAAATAGTTGTGATTGCAATATGTATATGAAT
TGTCAATTGGTTAAGAAAATTATGAATAAATAATATATTATAATTATCTACAAAATTTAATTTTT
TAATTTATAAAATTGTAAGTTAAAACAATAATAAAACTATATTTTAACTATTAAAAAATATAATT
TTATTTTGGTCTCTACAATTAATTTTGGTTTCACCTTTAGTTTACCATAATTACATTTCAATGGA
AGTCACTATATCATTATACCATAAATTTAGTTGACAAAATTTAAATTAAATAAATTATTATTTTT
ATATATTATTTTTA
Found at i:2612374 original size:40 final size:37
Alignment explanation
Indices: 2612291--2612378 Score: 97
Period size: 36 Copynumber: 2.3 Consensus size: 37
2612281 TTGATATATC
** *
2612291 ATTTATTATATTTTTTATTTAGTTATTATTTATGTAT
1 ATTTATTATATGGTGTATTTAGTTATTATTTATGTAT
* *
2612328 A-GTATTATATGGTGTATTTAGTTATTTATTTTTTGGTAT
1 ATTTATTATATGGTGTATTTAGTTA-TTA-TTTAT-GTAT
2612367 ATTTATTATATG
1 ATTTATTATATG
2612379 ATTCGTTTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
36 19 0.46
37 4 0.10
38 4 0.10
39 5 0.12
40 9 0.22
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.62
Consensus pattern (37 bp):
ATTTATTATATGGTGTATTTAGTTATTATTTATGTAT
Found at i:2619434 original size:10 final size:10
Alignment explanation
Indices: 2619419--2619463 Score: 67
Period size: 10 Copynumber: 4.7 Consensus size: 10
2619409 GGCTGCTGGA
2619419 AACCGGTTTG
1 AACCGGTTTG
2619429 AACCGGTTTG
1 AACCGGTTTG
2619439 -ACCGGTTTG
1 AACCGGTTTG
*
2619448 AACCAGTTTG
1 AACCGGTTTG
2619458 -ACCGGT
1 AACCGGT
2619464 CTGACCCGAC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
9 14 0.44
10 18 0.56
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (10 bp):
AACCGGTTTG
Found at i:2619444 original size:9 final size:9
Alignment explanation
Indices: 2619420--2619469 Score: 64
Period size: 9 Copynumber: 5.3 Consensus size: 9
2619410 GCTGCTGGAA
2619420 ACCGGTTTG
1 ACCGGTTTG
2619429 AACCGGTTTG
1 -ACCGGTTTG
2619439 ACCGGTTTG
1 ACCGGTTTG
*
2619448 AACCAGTTTG
1 -ACCGGTTTG
*
2619458 ACCGGTCTG
1 ACCGGTTTG
2619467 ACC
1 ACC
2619470 CGACCCGACC
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
9 19 0.53
10 17 0.47
ACGTcount: A:0.18, C:0.26, G:0.28, T:0.28
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:2619444 original size:19 final size:19
Alignment explanation
Indices: 2619420--2619463 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
2619410 GCTGCTGGAA
*
2619420 ACCGGTTTGAACCGGTTTG
1 ACCGGTTTGAACCAGTTTG
2619439 ACCGGTTTGAACCAGTTTG
1 ACCGGTTTGAACCAGTTTG
2619458 ACCGGT
1 ACCGGT
2619464 CTGACCCGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.18, C:0.23, G:0.30, T:0.30
Consensus pattern (19 bp):
ACCGGTTTGAACCAGTTTG
Found at i:2624363 original size:13 final size:13
Alignment explanation
Indices: 2624347--2624375 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
2624337 GTCTATAGCT
2624347 CTGCATTATAACA
1 CTGCATTATAACA
2624360 CTGCATTATAACA
1 CTGCATTATAACA
2624373 CTG
1 CTG
2624376 TCTACAGTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.34, C:0.24, G:0.10, T:0.31
Consensus pattern (13 bp):
CTGCATTATAACA
Found at i:2627682 original size:139 final size:139
Alignment explanation
Indices: 2627431--2627707 Score: 432
Period size: 139 Copynumber: 2.0 Consensus size: 139
2627421 GCAAAATTAC
2627431 AAGCATATTCATGGGACAGTTGCTTCTTATGACTTCCCTTCACCTTTCTTTTCACTTAGTTATTT
1 AAGCATATTCATGGGACAGTTGCTTCTTATGACTTCCCTTCACCTTTCTTTTCACTTAGTTATTT
* *
2627496 TTTATATGATAAAAGAAAATGTGTGATTAGTGCAGATGCATGTTGATGTTTAACCTCGCCTACCA
66 TTTATATGATAAAAGAAAATGTGTGATTAGTGCAGATGCATGCTGATGTTTAACCTAGCCTACCA
2627561 TCTCCATCA
131 TCTCCATCA
* * * * *
2627570 AAGCATATTCTTGGGACAGTTGCTTCTTGTGACTTCCCTTCACCTTTCTTTTCTCTTGGTTCTTT
1 AAGCATATTCATGGGACAGTTGCTTCTTATGACTTCCCTTCACCTTTCTTTTCACTTAGTTATTT
* * *
2627635 TGTTATATGATTAAA-AAAATGTGTGATTAGATTCA-ATGCATGCTGATGTTTAACCTAGTCTAC
66 T-TTATATGATAAAAGAAAATGTGTGATTAG-TGCAGATGCATGCTGATGTTTAACCTAGCCTAC
2627698 CATCTCCATC
129 CATCTCCATC
2627708 CTCAGTGGTA
Statistics
Matches: 126, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
139 111 0.88
140 15 0.12
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.40
Consensus pattern (139 bp):
AAGCATATTCATGGGACAGTTGCTTCTTATGACTTCCCTTCACCTTTCTTTTCACTTAGTTATTT
TTTATATGATAAAAGAAAATGTGTGATTAGTGCAGATGCATGCTGATGTTTAACCTAGCCTACCA
TCTCCATCA
Found at i:2640010 original size:19 final size:18
Alignment explanation
Indices: 2639975--2640009 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
2639965 AATATGTTCA
2639975 GGGGGTATCGATTCCCCT
1 GGGGGTATCGATTCCCCT
2639993 GGGGGTATCGATTCCCC
1 GGGGGTATCGATTCCCC
2640010 CCTAAATGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.29, G:0.34, T:0.26
Consensus pattern (18 bp):
GGGGGTATCGATTCCCCT
Found at i:2640938 original size:31 final size:31
Alignment explanation
Indices: 2640900--2641042 Score: 241
Period size: 31 Copynumber: 4.6 Consensus size: 31
2640890 AGGGTCGAGG
*
2640900 GTTTACCTATGTTCTTTGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
2640931 GTTTACCTATGTTCTTCGGGACTTATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
2640962 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
2640993 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
2641024 GATTACTTAGGTTCTTCGG
1 GTTTACCTATGTTCTTCGG
2641043 AATCTATAGA
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 106 1.00
ACGTcount: A:0.18, C:0.18, G:0.23, T:0.41
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Done.