Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008190.1 Hibiscus syriacus cultivar Beakdansim tig00110799_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: 244330
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:9067 original size:57 final size:58
Alignment explanation
Indices: 8989--9137 Score: 169
Period size: 59 Copynumber: 2.6 Consensus size: 58
8979 AATAGTCAAT
* * * *
8989 GGATCA-TTTATAACTTCTAATAGTC-AG-GATTCAACAAAGAAACACCCCATCGTCGG
1 GGATCATTTTGTAACTTTTAATAGTCGAGAGACTCAACAAAGAAACACCCCATAG-CGG
* * * **
9045 GGATCATTTTGTAACTTTTAATAGTCGAGAGACTCAAGAAAGCATCACCTTATAGCGG
1 GGATCATTTTGTAACTTTTAATAGTCGAGAGACTCAACAAAGAAACACCCCATAGCGG
*
9103 GTGACCATTTTGTAACTTTTAATAGTCGAGAGACT
1 G-GATCATTTTGTAACTTTTAATAGTCGAGAGACT
9138 TAAGAAAGCA
Statistics
Matches: 79, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
56 6 0.08
57 17 0.22
58 6 0.08
59 50 0.63
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30
Consensus pattern (58 bp):
GGATCATTTTGTAACTTTTAATAGTCGAGAGACTCAACAAAGAAACACCCCATAGCGG
Found at i:9118 original size:59 final size:60
Alignment explanation
Indices: 9043--9170 Score: 213
Period size: 59 Copynumber: 2.1 Consensus size: 60
9033 CCCCATCGTC
*
9043 GGGGATCATTTTGTAACTTTTAATAGTCGAGAGACTCAAGAAAGCATCACCTTATAG-CG
1 GGGGACCATTTTGTAACTTTTAATAGTCGAGAGACTCAAGAAAGCATCACCTTATAGTCG
* * *
9102 GGTGACCATTTTGTAACTTTTAATAGTCGAGAGACTTAAGAAAGCATCATCTTATAGTCG
1 GGGGACCATTTTGTAACTTTTAATAGTCGAGAGACTCAAGAAAGCATCACCTTATAGTCG
9162 GGGGACCAT
1 GGGGACCAT
9171 ATGTATATTT
Statistics
Matches: 63, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
59 53 0.84
60 10 0.16
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (60 bp):
GGGGACCATTTTGTAACTTTTAATAGTCGAGAGACTCAAGAAAGCATCACCTTATAGTCG
Found at i:9629 original size:2 final size:2
Alignment explanation
Indices: 9622--9654 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
9612 AATTGACTTT
9622 TA TA TA TA TA TA TA TA TA -A 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
9655 GACAGTAACG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:9645 original size:15 final size:15
Alignment explanation
Indices: 9625--9654 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
9615 TGACTTTTAT
9625 ATATATATATATATA
1 ATATATATATATATA
9640 ATATATATATATATA
1 ATATATATATATATA
9655 GACAGTAACG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATATATATATATATA
Found at i:12113 original size:649 final size:618
Alignment explanation
Indices: 10967--12131 Score: 1561
Period size: 649 Copynumber: 1.8 Consensus size: 618
10957 CCTTTTAGGG
* * *
10967 TGCGTTTGGTTCACGGAATGTAAGATTACCATTGGGAATAAAATTATCAAGGAATAGAATTACTG
1 TGCGTTTGGTTCACGGAATATAAGATTACCAGTGGGAATAAAATTACCAAGGAATAGAATTACTG
* * *
11032 GGAATGTGTATTTGTGTTTGGTTAGTTTAGCAAGAATGCAAGATTATCGTGTTTGGTTAAAGGAA
66 GGAATGTGTATTTGTGTTTGGTTAGCTTAACAAGAATGCAAGATTACCGTGTTTGGTTAAAGGAA
* * *
11097 TAAAAGATTATTGGAATGTATATTTTACCAAATTGTCCTTATTATATTTTTTTAACAAGTTGAAA
131 TAAAAGATTATTGGAATG-ATATTTGACCAAATTATCCTTATTATATTTTTTTAACAAGTTAAAA
* * *
11162 ATATTATATATTTTCTTTAAAAAAATATAATTTTTTTTACAAAATTGAAAATATAAAAAGGTTTA
195 ATATTATATATTTTCTTTAAAAAAATATAATTTTTTTTACAAAATTAAAAATAAAAAAAAGTTTA
*
11227 TGAAAGGGTAAATTTTATTTTAACCCCTGAACTTCATATAAAATTTTAATTATAGATTTTTTTTT
260 TGAAAGGGTAAATTTTATTTTAACCCCTAAACTTCATATAAAATTTT-ATTATAGATTTTTTTTT
*
11292 GTAAATCTAAAATAGTTTAAGGATAAATTTGTAATTTAACTTCGTAAAATTTTATTATTCAATAA
324 GTAAATCTAAAATAGTTTAAGGATAAATTTATAATTTAACTTCGTAAAATTTTATTATTCAATAA
* * * * * ** *
11357 CAAAATAAGGGTATTTTTTAAAGAAATTTTTTAAGAGCATTTAGTCCAAAACGTCGGTAATCGAA
389 CAAAATAAAGATATTTTTAAAAAAAATTTATTAAGAGCATTTAGTCCAAAACACCGGTAATCCAA
* * * * * *
11422 CAATATCTAAGGAAAGGGAGGTAATGACATTCCCGGTAATATACCCTAAAAAATTCACTATTAGT
454 CAATATCTAAAGAAAGAGAGGTAATGACATTCACGATAATATACCCCAAAAAATCCACTATTAGT
11487 AATGTAAGATTACTGGGAATGACATTCTCAGCCAACCAAACGGGAAAATGTGAATTCCATTCCAA
519 AATGTAAGATTACTGGGAATGACATTCTCAGCCAACCAAACGGGAAAATGTGAATTCCATTCCAA
11552 TGAGAATCTCACACTCCCCCAACCAAACACATTAA
584 TGAGAATCTCACACTCCCCCAACCAAACACATTAA
* * * *
11587 TGCGTTTGGTTCACGGAATATAAGATTACCAGTGGGAATGTAAGATTACCAATGAATAGGATTAT
1 TGCGTTTGGTTCACGGAATATAAGATTACCAGTGGGAA--TAAAATTACCAAGGAATAGAATTAC
* * *
11652 TGGGAATGTTGTATTTTGTGTTTGGTTGGCTTAACATGAATGTAAGATTACCGTGTTTGGTTAAA
64 TGGGAATG-TGTA-TTTGTGTTTGGTTAGCTTAACAAGAATGCAAGATTACCGTGTTTGGTTAAA
11717 GGAATAAAAGATTATTGGAATG-TATTTGACCAAATTATCCTTATTATATATTTGTATAATATTA
127 GGAATAAAAGATTATTGGAATGATATTTGACCAAATTATCCTTATTATAT-TTT-T-T--TA--A
11781 CAAGTTAAAAAATATTTATATATTTTCTTTAAAAAAAATTAAATTCATAATTTTATATATTTTTA
185 CAAGTT-AAAAATA-TTATATATTTTCTTT----AAAA--AAA-T-ATAA---T-T-T-TTTTTA
*
11846 CAAAATTAAAAATAAAAAAAAGTTTAATGAAAGGGTAAAATTTTATTTTAACCCTTAAACTTCAT
234 CAAAATTAAAAATAAAAAAAAGTTT-ATGAAAGGGT-AAATTTTATTTTAACCCCTAAACTTCAT
11911 AT-AAATTTT-TTATA-A-TTTTTTTTGTAAATCTAAAATA-TTTAAGGATAAATTTATAATTTA
297 ATAAAATTTTATTATAGATTTTTTTTTGTAAATCTAAAATAGTTTAAGGATAAATTTATAATTTA
* * *
11971 ACATTCGTAGAATTTTTATTATTCAATGACAAAATAAATATATTTTTGAAAAAAAATATAATAAT
362 AC-TTCGTA-AAATTTTATTATTCAATAACAAAATAAAGATATTTTT-AAAAAAAAT-T--T-AT
*
12036 TAAGGGCATTTTAGTCCAAAACACCGGTAATCCAACAATA-CATAAAGAAAGAGAGGTAATGACA
420 TAAGAGCA-TTTAGTCCAAAACACCGGTAATCCAACAATATC-TAAAGAAAGAGAGGTAATGACA
12100 TTCACGATAATATACCCCAAAAAATCCACTAT
483 TTCACGATAATATACCCCAAAAAATCCACTAT
12132 GGTAATCTTA
Statistics
Matches: 467, Mismatches: 40, Indels: 47
0.84 0.07 0.08
Matches are distributed among these distances:
620 36 0.08
622 53 0.11
623 7 0.01
624 68 0.15
625 1 0.00
627 2 0.00
629 7 0.01
630 6 0.01
631 15 0.03
635 4 0.01
637 3 0.01
638 1 0.00
639 4 0.01
641 24 0.05
642 29 0.06
643 34 0.07
644 13 0.03
645 29 0.06
646 17 0.04
647 29 0.06
648 9 0.02
649 76 0.16
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (618 bp):
TGCGTTTGGTTCACGGAATATAAGATTACCAGTGGGAATAAAATTACCAAGGAATAGAATTACTG
GGAATGTGTATTTGTGTTTGGTTAGCTTAACAAGAATGCAAGATTACCGTGTTTGGTTAAAGGAA
TAAAAGATTATTGGAATGATATTTGACCAAATTATCCTTATTATATTTTTTTAACAAGTTAAAAA
TATTATATATTTTCTTTAAAAAAATATAATTTTTTTTACAAAATTAAAAATAAAAAAAAGTTTAT
GAAAGGGTAAATTTTATTTTAACCCCTAAACTTCATATAAAATTTTATTATAGATTTTTTTTTGT
AAATCTAAAATAGTTTAAGGATAAATTTATAATTTAACTTCGTAAAATTTTATTATTCAATAACA
AAATAAAGATATTTTTAAAAAAAATTTATTAAGAGCATTTAGTCCAAAACACCGGTAATCCAACA
ATATCTAAAGAAAGAGAGGTAATGACATTCACGATAATATACCCCAAAAAATCCACTATTAGTAA
TGTAAGATTACTGGGAATGACATTCTCAGCCAACCAAACGGGAAAATGTGAATTCCATTCCAATG
AGAATCTCACACTCCCCCAACCAAACACATTAA
Found at i:12906 original size:19 final size:18
Alignment explanation
Indices: 12841--12909 Score: 75
Period size: 19 Copynumber: 3.7 Consensus size: 18
12831 TAATTGTTCA
*
12841 CATTTTAAATTATGATTT
1 CATTTTAAATTATAATTT
* * *
12859 TATTTTAAATTTTTAACTT
1 CATTTTAAA-TTATAATTT
12878 CATCTTTAAATTATAAGTTT
1 CAT-TTTAAATTATAA-TTT
12898 CATTTTAAATTA
1 CATTTTAAATTA
12910 GTTCTTTTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
18 8 0.20
19 22 0.54
20 11 0.27
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (18 bp):
CATTTTAAATTATAATTT
Found at i:19039 original size:23 final size:23
Alignment explanation
Indices: 19013--19062 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
19003 AGACTATAGC
19013 TTTTGAAATAAAAGTAAAGGTAT
1 TTTTGAAATAAAAGTAAAGGTAT
*
19036 TTTTGAAATAAAAGTAAAGTTAT
1 TTTTGAAATAAAAGTAAAGGTAT
19059 TTTT
1 TTTT
19063 AATTTAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.44, C:0.00, G:0.14, T:0.42
Consensus pattern (23 bp):
TTTTGAAATAAAAGTAAAGGTAT
Found at i:19357 original size:30 final size:31
Alignment explanation
Indices: 19322--19384 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 31
19312 GGGAATCTTC
*
19322 TCGATATTACAATCTG-GAAAAAAAATCCTA
1 TCGATATTACAATCTGAAAAAAAAAATCCTA
19352 TCGATATTACAATCTGAAAAAAAAAATCCTA
1 TCGATATTACAATCTGAAAAAAAAAATCCTA
19383 TC
1 TC
19385 CAAACACCCT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 16 0.52
31 15 0.48
ACGTcount: A:0.48, C:0.17, G:0.08, T:0.27
Consensus pattern (31 bp):
TCGATATTACAATCTGAAAAAAAAAATCCTA
Found at i:20762 original size:15 final size:17
Alignment explanation
Indices: 20731--20762 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
20721 TATTAATGTA
20731 TGAATCATTTATATTTT
1 TGAATCATTTATATTTT
20748 TGAAT-ATTT-TATTTT
1 TGAATCATTTATATTTT
20763 AATAAGAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.28, C:0.03, G:0.06, T:0.62
Consensus pattern (17 bp):
TGAATCATTTATATTTT
Found at i:21431 original size:130 final size:130
Alignment explanation
Indices: 21227--21474 Score: 424
Period size: 130 Copynumber: 1.9 Consensus size: 130
21217 AATTTTCTTC
* *
21227 TAATTAGGTGGTGACATGTGTCACCAATAACATATATCATGATCATGTGTTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
** *
21292 CCTGGTTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
* * *
21357 TAATTAGGTGGTGACATGTGTCACCAATGACACGTGTCATGATCATGTGCTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
21422 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
21475 TATATAAATA
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
130 110 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.36
Consensus pattern (130 bp):
TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
Found at i:21921 original size:35 final size:35
Alignment explanation
Indices: 21871--21946 Score: 125
Period size: 35 Copynumber: 2.2 Consensus size: 35
21861 AATTGAATTT
* *
21871 AATTGAATTATTTTGGAATTTAGGGTTTAGAATGA
1 AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
*
21906 AATTGAATTACTTTGGAAATTGGGGTTTAGAATGA
1 AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
21941 AATTGA
1 AATTGA
21947 GGACTGTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.36, C:0.01, G:0.24, T:0.39
Consensus pattern (35 bp):
AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
Found at i:22876 original size:2 final size:2
Alignment explanation
Indices: 22871--22922 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
22861 ATTATTTCTA
*
22871 AT AT AT AT AT AT AT GT 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 AT AT AT AT
22913 AT AT AT AT AT
1 AT AT AT AT AT
22923 TTAATAAAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23579 original size:65 final size:64
Alignment explanation
Indices: 23362--23685 Score: 533
Period size: 64 Copynumber: 5.0 Consensus size: 64
23352 GGATTTGATC
* **
23362 ACCTTAAATAATTTCAGTTTAGATATATAATTATTACTTTTTCTTTTATAAATTTGAAGTAACC
1 ACCTTAAATAATTTAAGTTTAGATATATAATTATTACTTTTTCTTTTATAAATTTGAAGTAAAT
*
23426 AACTTAAATAATTTAAGTTTAGATATATAATTATTACTTTTTCTTTTATAAATTTGAAGTAAAT
1 ACCTTAAATAATTTAAGTTTAGATATATAATTATTACTTTTTCTTTTATAAATTTGAAGTAAAT
* *
23490 ACCTTAGATAATTTAAGTTTAGATATATAATTATTACTTTTTCTTTTATAAAATTCT-AAATAAA
1 ACCTTAAATAATTTAAGTTTAGATATATAATTATTACTTTTTCTTTTAT-AAATT-TGAAGTAAA
23554 T
64 T
23555 ACCTTAAATAATTTAAGTTTAGATATATAATTATTACTTTTTCTTTTATAAAATTTGAAGTAAAT
1 ACCTTAAATAATTTAAGTTTAGATATATAATTATTACTTTTTCTTTTAT-AAATTTGAAGTAAAT
* * *
23620 ACCTTAAATAATTTAAGTTTAGATATATAATTATCACTTTTTCTTCTATAAATTTAAAGTAAAT
1 ACCTTAAATAATTTAAGTTTAGATATATAATTATTACTTTTTCTTTTATAAATTTGAAGTAAAT
23684 AC
1 AC
23686 AAGATAGTAT
Statistics
Matches: 245, Mismatches: 12, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
64 124 0.51
65 120 0.49
66 1 0.00
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.47
Consensus pattern (64 bp):
ACCTTAAATAATTTAAGTTTAGATATATAATTATTACTTTTTCTTTTATAAATTTGAAGTAAAT
Found at i:24084 original size:23 final size:23
Alignment explanation
Indices: 24058--24121 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 23
24048 TATTTTGATG
24058 TTGAATCATTCAGCATTGTTTTA
1 TTGAATCATTCAGCATTGTTTTA
* ** *
24081 TTGAATCATTCAACACCGTTTTG
1 TTGAATCATTCAGCATTGTTTTA
*
24104 TTGAATCAGTCAGCATTG
1 TTGAATCATTCAGCATTG
24122 AATCATTCAG
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.27, C:0.17, G:0.16, T:0.41
Consensus pattern (23 bp):
TTGAATCATTCAGCATTGTTTTA
Found at i:30896 original size:20 final size:20
Alignment explanation
Indices: 30871--30910 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
30861 CTTGGTTGAC
30871 CCCTCCAACACAACATGTGT
1 CCCTCCAACACAACATGTGT
30891 CCCTCCAACACAACATGTGT
1 CCCTCCAACACAACATGTGT
30911 GAGGACCGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.40, G:0.10, T:0.20
Consensus pattern (20 bp):
CCCTCCAACACAACATGTGT
Found at i:33021 original size:19 final size:18
Alignment explanation
Indices: 32994--33029 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
32984 GGTTTGTTTG
*
32994 TTAAGATAATTTATAATTA
1 TTAAAATAATTTA-AATTA
33013 TTAAAATAATTTAAATT
1 TTAAAATAATTTAAATT
33030 TCAAAGATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
TTAAAATAATTTAAATTA
Found at i:34163 original size:19 final size:19
Alignment explanation
Indices: 34141--34194 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 19
34131 AACAGATTCC
34141 CCCCTGGGGGGTATCGATT
1 CCCCTGGGGGGTATCGATT
*
34160 CCCC----GGG-AACAGATT
1 CCCCTGGGGGGTATC-GATT
34175 CCCCTGGGGGGTATCGATT
1 CCCCTGGGGGGTATCGATT
34194 C
1 C
34195 TCCCCTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 12
0.66 0.05 0.29
Matches are distributed among these distances:
14 2 0.07
15 11 0.41
19 12 0.44
20 2 0.07
ACGTcount: A:0.15, C:0.30, G:0.33, T:0.22
Consensus pattern (19 bp):
CCCCTGGGGGGTATCGATT
Found at i:34199 original size:36 final size:35
Alignment explanation
Indices: 34128--34194 Score: 118
Period size: 34 Copynumber: 1.9 Consensus size: 35
34118 TATGTGCAGG
34128 GGGAACAGATTCCCCCCTGGGGGGTATCGATTCCCC
1 GGGAACAGATT-CCCCCTGGGGGGTATCGATTCCCC
34164 GGGAACAGATT-CCCCTGGGGGGTATCGATTC
1 GGGAACAGATTCCCCCTGGGGGGTATCGATTC
34195 TCCCCTAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
34 20 0.65
36 11 0.35
ACGTcount: A:0.18, C:0.28, G:0.33, T:0.21
Consensus pattern (35 bp):
GGGAACAGATTCCCCCTGGGGGGTATCGATTCCCC
Found at i:41026 original size:35 final size:36
Alignment explanation
Indices: 40965--41033 Score: 104
Period size: 35 Copynumber: 1.9 Consensus size: 36
40955 TGTACAGGGG
*
40965 GAACAGATTCCCCCCTAGGGGATATCGATTCCCCGT
1 GAACAAATTCCCCCCTAGGGGATATCGATTCCCCGT
* *
41001 GAACAAATT-CCCCCTGGGGGGTATCGATTCCCC
1 GAACAAATTCCCCCCTAGGGGATATCGATTCCCC
41034 CTAAATGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 22 0.73
36 8 0.27
ACGTcount: A:0.22, C:0.33, G:0.23, T:0.22
Consensus pattern (36 bp):
GAACAAATTCCCCCCTAGGGGATATCGATTCCCCGT
Found at i:44963 original size:15 final size:16
Alignment explanation
Indices: 44945--44982 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
44935 TTAAAACATC
*
44945 ATAAA-TGTCAGGAAT
1 ATAAACTGTCAGAAAT
44960 ATAAACTTGTCAGAAAT
1 ATAAAC-TGTCAGAAAT
44977 ATAAAC
1 ATAAAC
44983 GTTCAATATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 5 0.25
17 15 0.75
ACGTcount: A:0.50, C:0.11, G:0.13, T:0.26
Consensus pattern (16 bp):
ATAAACTGTCAGAAAT
Found at i:44972 original size:17 final size:17
Alignment explanation
Indices: 44950--44982 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
44940 ACATCATAAA
*
44950 TGTCAGGAATATAAACT
1 TGTCAGAAATATAAACT
44967 TGTCAGAAATATAAAC
1 TGTCAGAAATATAAAC
44983 GTTCAATATC
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:0.45, C:0.12, G:0.15, T:0.27
Consensus pattern (17 bp):
TGTCAGAAATATAAACT
Found at i:50888 original size:15 final size:15
Alignment explanation
Indices: 50868--50898 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
50858 GATGCTTTCC
50868 GCTGTCTGAACGGAG
1 GCTGTCTGAACGGAG
50883 GCTGTCTGAACGGAG
1 GCTGTCTGAACGGAG
50898 G
1 G
50899 TTCTCTCCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.19, G:0.42, T:0.19
Consensus pattern (15 bp):
GCTGTCTGAACGGAG
Found at i:54319 original size:28 final size:28
Alignment explanation
Indices: 54287--54354 Score: 136
Period size: 28 Copynumber: 2.4 Consensus size: 28
54277 AGCACAACAG
54287 CAAGAAACCTCATTATGACCCAGATATA
1 CAAGAAACCTCATTATGACCCAGATATA
54315 CAAGAAACCTCATTATGACCCAGATATA
1 CAAGAAACCTCATTATGACCCAGATATA
54343 CAAGAAACCTCA
1 CAAGAAACCTCA
54355 ATAACTAGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.44, C:0.26, G:0.10, T:0.19
Consensus pattern (28 bp):
CAAGAAACCTCATTATGACCCAGATATA
Found at i:58156 original size:22 final size:22
Alignment explanation
Indices: 58130--58174 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
58120 TTGTTTGATG
*
58130 TTGTAACCTTTTGTTACAAATC
1 TTGTAACATTTTGTTACAAATC
58152 TTGTAACATTTTGTTACAAATC
1 TTGTAACATTTTGTTACAAATC
58174 T
1 T
58175 GCTACTAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.29, C:0.16, G:0.09, T:0.47
Consensus pattern (22 bp):
TTGTAACATTTTGTTACAAATC
Found at i:60813 original size:83 final size:83
Alignment explanation
Indices: 60597--61036 Score: 366
Period size: 83 Copynumber: 5.3 Consensus size: 83
60587 GTGAAGTGGA
* * * * * **
60597 AGAGATTCTCTAAATAATAAAGGAAAACATTTTCCTCGAAATGCATC-TTTCGTTTCGGATATGA
1 AGAGATTCTCTAAATAATAATGGAAAACACTTTCCTCAAAATGC-GCATTTCATTTCGGATGGGA
** *
60661 TGGAACACTCTGACATGGC
65 TATAACACTCTGACATGAC
* * * *
60680 AGAGATTCTCT---TAATAATGGAAAACACTTTCCTCAAAATGCACCTTTCATTTCAGATGGGGT
1 AGAGATTCTCTAAATAATAATGGAAAACACTTTCCTCAAAATGCGCATTTCATTTCGGATGGGAT
*
60742 ATAACACTCTGACTTGAC
66 ATAACACTCTGACATGAC
* * * *
60760 AGAGATTCTCTAAATAATAATGGAAAACATTTTCCTCGAAATACGCATTTCATTTCGAATGGGAT
1 AGAGATTCTCTAAATAATAATGGAAAACACTTTCCTCAAAATGCGCATTTCATTTCGGATGGGAT
* *
60825 -TGAATACTCTGACATGAT
66 AT-AACACTCTGACATGAC
* * * * * *
60843 AAAGATTCTCTGAATTAATAATAGAAAATACTTTCCCCAAAATGCGGC-TTTCATTTTGGATGGG
1 AGAGATTCTCT-AAATAATAATGGAAAACACTTTCCTCAAAATGC-GCATTTCATTTCGGATGGG
60907 ATGA-AACACTCTGACATGAC
64 AT-ATAACACTCTGACATGAC
* * * *
60927 AGAGATTTTCTGAATAATAATGGATAACGA-TTCTCCT-AAAA--CGTATCTTTCATTTCGGATG
1 AGAGATTCTCTAAATAATAATGGAAAAC-ACTT-TCCTCAAAATGCGCA--TTTCATTTCGGATG
* * * *
60988 GGATA-AATCACTATTATAAT-CC
62 GGATATAA-CACTCTGA-CATGAC
*
61010 AGAGATTCTCTTAATAATAATGGAAAA
1 AGAGATTCTCTAAATAATAATGGAAAA
61037 ATGTTTCTCC
Statistics
Matches: 288, Mismatches: 53, Indels: 32
0.77 0.14 0.09
Matches are distributed among these distances:
79 1 0.00
80 66 0.23
81 1 0.00
82 4 0.01
83 143 0.50
84 71 0.25
85 2 0.01
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (83 bp):
AGAGATTCTCTAAATAATAATGGAAAACACTTTCCTCAAAATGCGCATTTCATTTCGGATGGGAT
ATAACACTCTGACATGAC
Found at i:60945 original size:167 final size:162
Alignment explanation
Indices: 60597--60950 Score: 433
Period size: 167 Copynumber: 2.1 Consensus size: 162
60587 GTGAAGTGGA
* * * *
60597 AGAGATTCTCTAAATAATAAAGGAAAACATTTTCCTCGAAATGCATCTTTCGTTTCGGATATGAT
1 AGAGATTCTCTAAATAATAATGGAAAACATTTTCCTCGAAATGCA-CTTTCATTTCGAATAGGAT
* * * *
60662 GGAACACTCTGACATGGCAGAGATTCTCTTAATAATGGAAAACACTTTCCTCAAAATGCACCTTT
65 GGAACACTCTGACATGACAAAGATTCTCTTAATAATAGAAAACACTTTCCCCAAAATGCACCTTT
* *
60727 CATTTCAGATGGGGTATAACACTCTGACTTGAC
130 CATTTCAGATGGGATATAACACTCTGACATGAC
*
60760 AGAGATTCTCTAAATAATAATGGAAAACATTTTCCTCGAAATACGCA-TTTCATTTCGAATGGGA
1 AGAGATTCTCTAAATAATAATGGAAAACATTTTCCTCGAAAT--GCACTTTCATTTCGAATAGGA
* * * * *
60824 TTGAATACTCTGACATGATAAAGATTCTCTGAATTAATAATAGAAAATACTTTCCCCAAAATGCG
64 TGGAACACTCTGACATGACAAAGATTCTC----TTAATAATAGAAAACACTTTCCCCAAAATGCA
* **
60889 GCTTTCATTTTGGATGGGATGA-AACACTCTGACATGAC
125 CCTTTCATTTCAGATGGGAT-ATAACACTCTGACATGAC
* *
60927 AGAGATTTTCTGAATAATAATGGA
1 AGAGATTCTCTAAATAATAATGGA
60951 TAACGATTCT
Statistics
Matches: 163, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
163 78 0.48
165 3 0.02
167 81 0.50
168 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (162 bp):
AGAGATTCTCTAAATAATAATGGAAAACATTTTCCTCGAAATGCACTTTCATTTCGAATAGGATG
GAACACTCTGACATGACAAAGATTCTCTTAATAATAGAAAACACTTTCCCCAAAATGCACCTTTC
ATTTCAGATGGGATATAACACTCTGACATGAC
Found at i:60980 original size:167 final size:166
Alignment explanation
Indices: 60597--60991 Score: 421
Period size: 167 Copynumber: 2.4 Consensus size: 166
60587 GTGAAGTGGA
* * * * **
60597 AGAGATTCTCTAAATAATAAAGGAAAACATTTTCCTCGAAAT--GCATCTTTCGTTTCGGATATG
1 AGAGATTCTCTAAATAATAATGGAAAACATTCTCCTC-AAATACGCA--TTTCATTTCGAATGGG
* * ** * * *
60660 ATGGAACACTCTGACATGGCAGAGATTCTC----TTAATAATGGAAAACACTTTCCTCAAAATGC
63 ATTGAATACTCTGACATGATAAAGATTCTCTGAATTAATAATAGAAAACACTTTCCCCAAAATGC
* *
60721 ACCTTTCATTTCAGATGGGGTATAACACTCTGACTTGAC
128 ACCTTTCATTTCAGATGGGATATAACACTCTGACATGAC
*
60760 AGAGATTCTCTAAATAATAATGGAAAACATTTTCCTCGAAATACGCATTTCATTTCGAATGGGAT
1 AGAGATTCTCTAAATAATAATGGAAAACATTCTCCTC-AAATACGCATTTCATTTCGAATGGGAT
* **
60825 TGAATACTCTGACATGATAAAGATTCTCTGAATTAATAATAGAAAATACTTTCCCCAAAATGCGG
65 TGAATACTCTGACATGATAAAGATTCTCTGAATTAATAATAGAAAACACTTTCCCCAAAATGCAC
**
60890 CTTTCATTTTGGATGGGATGA-AACACTCTGACATGAC
130 CTTTCATTTCAGATGGGAT-ATAACACTCTGACATGAC
* * * * *
60927 AGAGATTTTCTGAATAATAATGGATAACGATTCTCCT-AAA-ACGTATCTTTCATTTCGGATGGG
1 AGAGATTCTCTAAATAATAATGGAAAAC-ATTCTCCTCAAATACGCA--TTTCATTTCGAATGGG
60990 AT
63 AT
60992 AAATCACTAT
Statistics
Matches: 197, Mismatches: 25, Indels: 16
0.83 0.11 0.07
Matches are distributed among these distances:
163 78 0.40
165 7 0.04
166 3 0.02
167 101 0.51
168 8 0.04
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (166 bp):
AGAGATTCTCTAAATAATAATGGAAAACATTCTCCTCAAATACGCATTTCATTTCGAATGGGATT
GAATACTCTGACATGATAAAGATTCTCTGAATTAATAATAGAAAACACTTTCCCCAAAATGCACC
TTTCATTTCAGATGGGATATAACACTCTGACATGAC
Found at i:61018 original size:167 final size:165
Alignment explanation
Indices: 60690--61036 Score: 382
Period size: 167 Copynumber: 2.1 Consensus size: 165
60680 AGAGATTCTC
* *
60690 TTAATAATGGAAAACACTTTCCTCAAAATGCACCTTTCATTTCAGATGGGGTATAACACTCTGAC
1 TTAATAATGGAAAACACTTTCCCCAAAATGCACCTTTCATTTCAGATGGGATATAACACTCTGAC
* *
60755 TTGACAGAGATTCTCTAAATAATAATGGAAAACATTTTCCTCGAAATACGCATTTCATTTCGAAT
66 ATGACAGAGATTCTCTAAATAATAATGGAAAACATTCTCCTC-AAATACGCATTTCATTTCGAAT
* * *
60820 GGGATTGAATACTCTGACATGATAAAGATTCTCTGAA
130 GGGATTAAATACTAT-ACATAATAAAGATTCTCTGAA
* * ** **
60857 TTAATAATAGAAAATACTTTCCCCAAAATGCGGCTTTCATTTTGGATGGGATGA-AACACTCTGA
1 TTAATAATGGAAAACACTTTCCCCAAAATGCACCTTTCATTTCAGATGGGAT-ATAACACTCTGA
* * * *
60921 CATGACAGAGATTTTCTGAATAATAATGGATAACGATTCTCCT-AAA-ACGTATCTTTCATTTCG
65 CATGACAGAGATTCTCTAAATAATAATGGAAAAC-ATTCTCCTCAAATACGCA--TTTCATTTCG
* * * *
60984 GATGGGA-TAAATCACTAT-TATAATCCAGAGATTCTCTTAA
127 AATGGGATTAAAT-ACTATACATAAT--AAAGATTCTCTGAA
61024 -TAATAATGGAAAA
1 TTAATAATGGAAAA
61037 ATGTTTCTCC
Statistics
Matches: 151, Mismatches: 22, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
165 8 0.05
166 19 0.13
167 116 0.77
168 8 0.05
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (165 bp):
TTAATAATGGAAAACACTTTCCCCAAAATGCACCTTTCATTTCAGATGGGATATAACACTCTGAC
ATGACAGAGATTCTCTAAATAATAATGGAAAACATTCTCCTCAAATACGCATTTCATTTCGAATG
GGATTAAATACTATACATAATAAAGATTCTCTGAA
Found at i:61145 original size:84 final size:84
Alignment explanation
Indices: 60973--61158 Score: 237
Period size: 84 Copynumber: 2.2 Consensus size: 84
60963 TAAAACGTAT
** *
60973 CTTTCATTTCGGATGGGATAAATCACTATTATAATCCAGAGATTCTCTTAATAATAATGGAAAAA
1 CTTTCATTTCGGATATGATAAATCACTATTATAATCCAGAGATTCTCTGAATAATAATGGAAAAA
** * * *
61038 TGTTTCTCCTGGAATGCAT
66 TGCATCCCCTGGAACGCAC
** *
61057 CTTTCATTTCGGATATGATGGATCACTATTATAATCCAGAGTTTCTCTGAATAATAATGGAAAAA
1 CTTTCATTTCGGATATGATAAATCACTATTATAATCCAGAGATTCTCTGAATAATAATGGAAAAA
* *
61122 TGCATCCCCTGTAACGCGC
66 TGCATCCCCTGGAACGCAC
61141 CTTTCATTGTCGGCATAT
1 CTTTCATT-TCGG-ATAT
61159 TTTGTCTTAG
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
84 79 0.91
85 4 0.05
86 4 0.05
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (84 bp):
CTTTCATTTCGGATATGATAAATCACTATTATAATCCAGAGATTCTCTGAATAATAATGGAAAAA
TGCATCCCCTGGAACGCAC
Found at i:66622 original size:60 final size:59
Alignment explanation
Indices: 66521--66652 Score: 151
Period size: 60 Copynumber: 2.2 Consensus size: 59
66511 GAGTGACCAA
* * *
66521 ATTTGTAACTTTTAACAGTTGAGTGATTCAACAAAACAATA-CTCTATAGTGAGAGGATC
1 ATTTGTAACTTTTAACAGTTGAGAGATTCAACAAAACAATACCT-TATAGTAAGAGGACC
* * * *
66580 ATTTTGTAACTTTTAATAGTTGAGAGACTT-AATAAAATAATACCTTATAGTAAGGGGACC
1 A-TTTGTAACTTTTAACAGTTGAGAGA-TTCAACAAAACAATACCTTATAGTAAGAGGACC
66640 ATTTGTATACTTT
1 ATTTGTA-ACTTT
66653 ATGCTAATAA
Statistics
Matches: 62, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
59 7 0.11
60 51 0.82
61 4 0.06
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.36
Consensus pattern (59 bp):
ATTTGTAACTTTTAACAGTTGAGAGATTCAACAAAACAATACCTTATAGTAAGAGGACC
Found at i:67433 original size:23 final size:23
Alignment explanation
Indices: 67407--67450 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
67397 ATGTTACGGG
67407 TACCCGGTAATCGGGTACCCGGA
1 TACCCGGTAATCGGGTACCCGGA
67430 TACCCGGTAATCGGGTACCCG
1 TACCCGGTAATCGGGTACCCG
67451 ATTTTTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.20, C:0.32, G:0.30, T:0.18
Consensus pattern (23 bp):
TACCCGGTAATCGGGTACCCGGA
Found at i:68431 original size:24 final size:24
Alignment explanation
Indices: 68403--68450 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
68393 GAAGTTATAT
* * *
68403 TAAAATTTTAGGGATGTGAAATTA
1 TAAAATTTTAAGAATGTAAAATTA
68427 TAAAATTTTAAGAATGTAAAATTA
1 TAAAATTTTAAGAATGTAAAATTA
68451 GATAATCGAT
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:0.48, C:0.00, G:0.15, T:0.38
Consensus pattern (24 bp):
TAAAATTTTAAGAATGTAAAATTA
Found at i:68941 original size:2 final size:2
Alignment explanation
Indices: 68936--68974 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
68926 CAAAAAAATG
68936 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 T
68975 GCATATGGTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:81997 original size:18 final size:18
Alignment explanation
Indices: 81952--81998 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
81942 ACGCCACTAT
*
81952 CATCATCATGCCCATGCC
1 CATCATCATGACCATGCC
* * *
81970 CATGACCATGACCATGTC
1 CATCATCATGACCATGCC
81988 CATCATCATGA
1 CATCATCATGA
81999 TCATAGGGAC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.28, C:0.36, G:0.13, T:0.23
Consensus pattern (18 bp):
CATCATCATGACCATGCC
Found at i:86102 original size:22 final size:22
Alignment explanation
Indices: 86060--86103 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
86050 TTCAACAATA
* *
86060 ATTATTATTTATGTCATATAAT
1 ATTATTATTAATGTCACATAAT
86082 ATTATTATATAATG-CACATAAT
1 ATTATTAT-TAATGTCACATAAT
86104 TTTTTACATG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.48
Consensus pattern (22 bp):
ATTATTATTAATGTCACATAAT
Found at i:94785 original size:60 final size:60
Alignment explanation
Indices: 94709--94842 Score: 173
Period size: 60 Copynumber: 2.2 Consensus size: 60
94699 TAATTGCACT
* ** *
94709 ATTCATCCTCAAACTACGACCTTCATTCTAAATT-GATCTTTAAACTTTTGAATATTCTAA
1 ATTCATCCTCAAACTACGACCATCATTCTAAATTAG-TCCATAAACTTTTGAACATTCTAA
* *
94769 ATTCATTCC-CAAACTACGAGCATCATTCTAAATTAGTCCATAGACTTTTGAACATTCTAA
1 ATTCA-TCCTCAAACTACGACCATCATTCTAAATTAGTCCATAAACTTTTGAACATTCTAA
*
94829 ATTCGTCCTCAAAC
1 ATTCATCCTCAAAC
94843 AATGACCCAA
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
59 3 0.05
60 57 0.89
61 4 0.06
ACGTcount: A:0.34, C:0.24, G:0.07, T:0.36
Consensus pattern (60 bp):
ATTCATCCTCAAACTACGACCATCATTCTAAATTAGTCCATAAACTTTTGAACATTCTAA
Found at i:96110 original size:20 final size:20
Alignment explanation
Indices: 96085--96128 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
96075 CTAAAATTAA
96085 AATATCATTTTATAACTTTT
1 AATATCATTTTATAACTTTT
96105 AATATCATTTTATAACTTTT
1 AATATCATTTTATAACTTTT
96125 AATA
1 AATA
96129 ATTATAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.52
Consensus pattern (20 bp):
AATATCATTTTATAACTTTT
Found at i:108508 original size:14 final size:14
Alignment explanation
Indices: 108489--108525 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
108479 GCCAATGATT
108489 TTTAAAAAATAAAA
1 TTTAAAAAATAAAA
* *
108503 TTTAAATACTAAAA
1 TTTAAAAAATAAAA
108517 TTTAAAAAA
1 TTTAAAAAA
108526 AATGATAATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (14 bp):
TTTAAAAAATAAAA
Found at i:115665 original size:2 final size:2
Alignment explanation
Indices: 115658--115687 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
115648 ACCAGATACA
115658 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
115688 TCGTATTTTT
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):
AT
Found at i:118388 original size:25 final size:25
Alignment explanation
Indices: 118351--118402 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
118341 AGTAGTTTAT
*
118351 CACTTTATATTAATCAGAACTTAAA
1 CACTTTATATTAACCAGAACTTAAA
*
118376 CACTTTATGTTAACCAGAACTTAAA
1 CACTTTATATTAACCAGAACTTAAA
118401 CA
1 CA
118403 AGTAATTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.42, C:0.19, G:0.06, T:0.33
Consensus pattern (25 bp):
CACTTTATATTAACCAGAACTTAAA
Found at i:122504 original size:27 final size:28
Alignment explanation
Indices: 122463--122538 Score: 75
Period size: 28 Copynumber: 2.7 Consensus size: 28
122453 TATATTTTAT
122463 TTTAATAATATATAA-AAAAATTATATA
1 TTTAATAATATATAATAAAAATTATATA
** *
122490 TTTAATAATGA-ATAATATTATTTATATA
1 TTTAATAAT-ATATAATAAAAATTATATA
*
122518 TTTAAATAATATTTTAATAAA
1 TTT-AATAATA-TATAATAAA
122539 TATATTTAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
27 13 0.34
28 14 0.37
29 6 0.16
30 5 0.13
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (28 bp):
TTTAATAATATATAATAAAAATTATATA
Found at i:122540 original size:12 final size:11
Alignment explanation
Indices: 122500--122567 Score: 50
Period size: 11 Copynumber: 6.0 Consensus size: 11
122490 TTTAATAATG
122500 AATAATATTATT
1 AATAATATT-TT
* *
122512 TAT-ATATTTA
1 AATAATATTTT
122522 AATAATATTTT
1 AATAATATTTT
122533 AATAAATATATTT
1 AAT-AATAT-TTT
**
122546 AA-AATATACT
1 AATAATATTTT
122556 AATTAATATTTT
1 AA-TAATATTTT
122568 TAAAATATAA
Statistics
Matches: 43, Mismatches: 8, Indels: 10
0.70 0.13 0.16
Matches are distributed among these distances:
10 6 0.14
11 19 0.44
12 13 0.30
13 5 0.12
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (11 bp):
AATAATATTTT
Found at i:122551 original size:15 final size:14
Alignment explanation
Indices: 122513--122548 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 14
122503 AATATTATTT
122513 ATATATTTAAAT-A
1 ATATATTTAAATAA
122526 ATAT-TTT-AATAA
1 ATATATTTAAATAA
122538 ATATATTTAAA
1 ATATATTTAAA
122549 ATATACTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
11 3 0.15
12 8 0.40
13 7 0.35
14 2 0.10
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
ATATATTTAAATAA
Found at i:122551 original size:23 final size:23
Alignment explanation
Indices: 122513--122576 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
122503 AATATTATTT
**
122513 ATATATTTAAATAATATTTTAATAA
1 ATATATTT-AA-AATATACTAATAA
*
122538 ATATATTTAAAATATACTAATTA
1 ATATATTTAAAATATACTAATAA
*
122561 ATATTTTTAAAATATA
1 ATATATTTAAAATATA
122577 ATATAACACT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 25 0.71
24 2 0.06
25 8 0.23
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
ATATATTTAAAATATACTAATAA
Found at i:122895 original size:29 final size:30
Alignment explanation
Indices: 122861--122933 Score: 105
Period size: 30 Copynumber: 2.5 Consensus size: 30
122851 TTCAAAAAAT
122861 GTAATTCATTTTTCAG-AATTCAAATT-TCA
1 GTAATTCATTTTTCAGTAATTCAAATTCT-A
*
122890 GTAATTCTTTTTTCAGTAATTCAAATTCTA
1 GTAATTCATTTTTCAGTAATTCAAATTCTA
*
122920 ATAATTCATTTTTC
1 GTAATTCATTTTTC
122934 GAAAAACTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
29 15 0.38
30 23 0.59
31 1 0.03
ACGTcount: A:0.32, C:0.14, G:0.05, T:0.49
Consensus pattern (30 bp):
GTAATTCATTTTTCAGTAATTCAAATTCTA
Found at i:122903 original size:15 final size:15
Alignment explanation
Indices: 122861--122912 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
122851 TTCAAAAAAT
122861 GTAATTCATTTTTCA
1 GTAATTCATTTTTCA
**
122876 G-AATTCAAATTTCA
1 GTAATTCATTTTTCA
*
122890 GTAATTCTTTTTTCA
1 GTAATTCATTTTTCA
122905 GTAATTCA
1 GTAATTCA
122913 AATTCTAATA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
14 12 0.40
15 18 0.60
ACGTcount: A:0.31, C:0.13, G:0.08, T:0.48
Consensus pattern (15 bp):
GTAATTCATTTTTCA
Found at i:127315 original size:13 final size:14
Alignment explanation
Indices: 127280--127318 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
127270 AATCATATCT
127280 TAAACCTTAAAATC
1 TAAACCTTAAAATC
* *
127294 TAAATCTTAAATTC
1 TAAACCTTAAAATC
127308 T-AACCTTAAAA
1 TAAACCTTAAAA
127319 AATATTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.49, C:0.18, G:0.00, T:0.33
Consensus pattern (14 bp):
TAAACCTTAAAATC
Found at i:127428 original size:2 final size:2
Alignment explanation
Indices: 127421--127460 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
127411 ATTAGTGTAA
127421 AT AT AT 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 AT AT AT
127461 GATTGTGACG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:130907 original size:24 final size:24
Alignment explanation
Indices: 130852--130913 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
130842 TGAACTTGAT
*
130852 TTCTTTATATTTTATGTCATTAAC
1 TTCTTTAAATTTTATGTCATTAAC
*
130876 TT-TATTAAATTTTATG-CATATATC
1 TTCT-TTAAATTTTATGTCAT-TAAC
*
130900 TTCTTTAAAATTTA
1 TTCTTTAAATTTTA
130914 ATCACTTCTG
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
23 4 0.12
24 27 0.84
25 1 0.03
ACGTcount: A:0.31, C:0.10, G:0.03, T:0.56
Consensus pattern (24 bp):
TTCTTTAAATTTTATGTCATTAAC
Found at i:133085 original size:23 final size:23
Alignment explanation
Indices: 133058--133231 Score: 204
Period size: 23 Copynumber: 7.0 Consensus size: 23
133048 ATGGAATAAT
*
133058 GTTATATATAGAGAGAGAGAGAG
1 GTTATGTATAGAGAGAGAGAGAG
133081 GTTATGTATAGATAGAGAGAGAGAGAG
1 GTTATG--T--ATAGAGAGAGAGAGAG
133108 GTTATGTATAGATAGAGAGAGAGAGAGAG
1 GTTATG--T--AT--AGAGAGAGAGAGAG
*
133137 GTTATGTATGATAGAGAGAGAGAG
1 GTTATGTAT-AGAGAGAGAGAGAG
133161 GTTATGTATAGAGAGAGAGAGGGAG
1 GTTATGTATAGAGAGAGAGA--GAG
133186 GTTATGTATAGAGAGAGAGAGAG
1 GTTATGTATAGAGAGAGAGAGAG
*
133209 GTTATGTGTAGAGAGAGAGAGAG
1 GTTATGTATAGAGAGAGAGAGAG
133232 AGAGAGTTTA
Statistics
Matches: 139, Mismatches: 4, Indels: 16
0.87 0.03 0.10
Matches are distributed among these distances:
23 40 0.29
24 23 0.17
25 26 0.19
27 30 0.22
29 20 0.14
ACGTcount: A:0.39, C:0.00, G:0.39, T:0.22
Consensus pattern (23 bp):
GTTATGTATAGAGAGAGAGAGAG
Found at i:133096 original size:27 final size:27
Alignment explanation
Indices: 133060--133235 Score: 235
Period size: 27 Copynumber: 6.8 Consensus size: 27
133050 GGAATAATGT
*
133060 TATATATAGAGAGAGAGAGAGGTTATG
1 TATAGATAGAGAGAGAGAGAGGTTATG
133087 TATAGATAGAGAGAGAGAGAGGTTATG
1 TATAGATAGAGAGAGAGAGAGGTTATG
133114 TATAGATAGAGAGAGAGAGAGAGGTTATG
1 TATAGAT--AGAGAGAGAGAGAGGTTATG
133143 TAT-GAT--AGAGAGAGAGAGGTTATG
1 TATAGATAGAGAGAGAGAGAGGTTATG
*
133167 TATAG--AGAGAGAGAGGGAGGTTATG
1 TATAGATAGAGAGAGAGAGAGGTTATG
133192 --T--ATAGAGAGAGAGAGAGGTTATG
1 TATAGATAGAGAGAGAGAGAGGTTATG
* *
133215 TGTAGAGAGAGAGAGAGAGAG
1 TATAGATAGAGAGAGAGAGAG
133236 AGTTTATTCT
Statistics
Matches: 134, Mismatches: 4, Indels: 22
0.84 0.03 0.14
Matches are distributed among these distances:
23 20 0.15
24 21 0.16
25 19 0.14
27 48 0.36
28 3 0.02
29 23 0.17
ACGTcount: A:0.40, C:0.00, G:0.39, T:0.21
Consensus pattern (27 bp):
TATAGATAGAGAGAGAGAGAGGTTATG
Found at i:133097 original size:25 final size:25
Alignment explanation
Indices: 133069--133233 Score: 219
Period size: 25 Copynumber: 6.5 Consensus size: 25
133059 TTATATATAG
133069 AGAGAGAGAGAGGTTATGTATAGAT
1 AGAGAGAGAGAGGTTATGTATAGAT
133094 AGAGAGAGAGAGAGGTTATGTATAGAT
1 --AGAGAGAGAGAGGTTATGTATAGAT
133121 AGAGAGAGAGAGAGAGGTTATGTAT-GAT
1 ----AGAGAGAGAGAGGTTATGTATAGAT
*
133149 AGAGAGAGAGAGGTTATGTATAGAG
1 AGAGAGAGAGAGGTTATGTATAGAT
*
133174 AGAGAGAGGGAGGTTATGTATAG--
1 AGAGAGAGAGAGGTTATGTATAGAT
* *
133197 AGAGAGAGAGAGGTTATGTGTAGAG
1 AGAGAGAGAGAGGTTATGTATAGAT
133222 AGAGAGAGAGAG
1 AGAGAGAGAGAG
133234 AGAGTTTATT
Statistics
Matches: 129, Mismatches: 4, Indels: 12
0.89 0.03 0.08
Matches are distributed among these distances:
23 21 0.16
24 21 0.16
25 36 0.28
27 25 0.19
28 3 0.02
29 23 0.18
ACGTcount: A:0.39, C:0.00, G:0.41, T:0.20
Consensus pattern (25 bp):
AGAGAGAGAGAGGTTATGTATAGAT
Found at i:135090 original size:8 final size:8
Alignment explanation
Indices: 135077--135103 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
135067 AACAAACACT
135077 ATCGTATA
1 ATCGTATA
135085 ATCGTATA
1 ATCGTATA
135093 ATCGTATA
1 ATCGTATA
135101 ATC
1 ATC
135104 ACAGTAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (8 bp):
ATCGTATA
Found at i:135429 original size:2 final size:2
Alignment explanation
Indices: 135422--135469 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
135412 AATGAAGATA
135422 AT AT AT AT 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 AT AT AT AT
135464 AT AT AT
1 AT AT AT
135470 GTGTGTGTGT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:145689 original size:396 final size:398
Alignment explanation
Indices: 144810--145796 Score: 1633
Period size: 396 Copynumber: 2.5 Consensus size: 398
144800 TTATTTGAAG
**
144810 AGGTGTATATGGAACTTCCTATTGGATTTTGCAGTCAGGGGGAGAATAAGGTATGTAGGCTGCAA
1 AGGTGTATATGGAACTTCCTCCTGGATTTTGCAGTCAGGGGGAGAATAAGGTATGTAGGCTGCAA
* *
144875 AAATCTCTTTATGATTTGAAACAACCATCTAGGCAATAGAATTTGAAGTTAACTGAGGCTCTTTT
66 AAATCTCTTTATGGTTTGAAACAAGCATCTAGGCAATAGAATTTGAAGTTAACTGAGGCTCTTTT
* *
144940 AGGTGTTGGTTATGAACAAAACAAATTTGATTATTATTTGTTCACTATGAAAAAAGATAAGAATA
131 AGGTGTTGGTTATGAACAAAACAAATTTGATTATTATTTGTTCACAATGAAAAAAGATAAGAAGA
* *
145005 TTGTAGTCTTGTTGATTTATGTTGATGACTTGTTGATTACTAGCAATGACAGTGTTTTGATTGAC
196 TTGCAGTCTTGTTGATTTATGTT-ATGAC-TGTCGATTACTAGCAATGACAGTGTTTTGATTGAC
*
145070 GATTTAAAGAGTCTTTTGAACAAGAAGTTTAGAATGAAAGACCTTGGAGAGTTGATATATTTTTA
259 GATTTAAAGAGTCTTTTGAACAAGAAGTTTAGAATGAAAGACCTTGGAGAGTTGAAATATTTTTA
*
145135 GGTATTGAGATTATGAGATCAAAAGAAGGGATCTTAATTAATCAACGTAAATATGTTCTTAAATT
324 GGTATTGAGATTATGAGATCAAAAGAAGGGATCTTAATTAATCAACGCAAATATGTTCTTAAATT
145200 GATTGAGAAA
389 GATTGAGAAA
* *
145210 AGGTGTATATGGAACTTCCTCCTGGATTTTGCAGTCGGGGGGAGAATAAGGTATGTAGGTTGCAA
1 AGGTGTATATGGAACTTCCTCCTGGATTTTGCAGTCAGGGGGAGAATAAGGTATGTAGGCTGCAA
* *
145275 AAATCTCTTTATGGTTTGAAACAAGCATCTAGGCAATGGAATTTGAAGTTAACTGATGCTCTTTT
66 AAATCTCTTTATGGTTTGAAACAAGCATCTAGGCAATAGAATTTGAAGTTAACTGAGGCTCTTTT
*
145340 AGGTGCTGGTTATGAACAAAACAAATTTGATTATTATTTGTTCACAATGAAAAAAGATAAGAAGA
131 AGGTGTTGGTTATGAACAAAACAAATTTGATTATTATTTGTTCACAATGAAAAAAGATAAGAAGA
* *
145405 TTGCCA-TCTTGTTGATTTATG-T-TGA-TGTCGATTACTGGCAATGATAGTGTTTTGATTGACG
196 TTG-CAGTCTTGTTGATTTATGTTATGACTGTCGATTACTAGCAATGACAGTGTTTTGATTGACG
145466 ATTTAAAGAGTCTTTTGAACAAGAAGTTTAGAATGAAAGACCTTGGAGAGTTGAAATATTTTTTA
260 ATTTAAAGAGTCTTTTGAACAAGAAGTTTAGAATGAAAGACCTTGGAGAGTTGAAATA-TTTTTA
* * *
145531 GGTCTTGAGATTATGAGATCAAAAGAAGGGATCTTAATTAATCAATGCAAATATGTTCTTGAATT
324 GGTATTGAGATTATGAGATCAAAAGAAGGGATCTTAATTAATCAACGCAAATATGTTCTTAAATT
145596 GATTGAGAAA
389 GATTGAGAAA
** * * * **
145606 AGGTGTATATGGAACTTCCTCCTGGATTTTATAGTCAGGGGGATAATACGGTATGCATACTGCAA
1 AGGTGTATATGGAACTTCCTCCTGGATTTTGCAGTCAGGGGGAGAATAAGGTATGTAGGCTGCAA
* * *
145671 AAATCTCTTTATGGTTTGAAACAAGCATCTAGGCAATTGAATTTGAAGTTAATTGAGGCTCATTT
66 AAATCTCTTTATGGTTTGAAACAAGCATCTAGGCAATAGAATTTGAAGTTAACTGAGGCTCTTTT
145736 AGGTGTTGGTTATGAACAAAACAAATTTGATTATTATTTGTTCACAATG-AAAAAGATAAGA
131 AGGTGTTGGTTATGAACAAAACAAATTTGATTATTATTTGTTCACAATGAAAAAAGATAAGA
145797 CCTTGGAATG
Statistics
Matches: 551, Mismatches: 34, Indels: 9
0.93 0.06 0.02
Matches are distributed among these distances:
395 102 0.19
396 242 0.44
397 3 0.01
399 1 0.00
400 202 0.37
401 1 0.00
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.35
Consensus pattern (398 bp):
AGGTGTATATGGAACTTCCTCCTGGATTTTGCAGTCAGGGGGAGAATAAGGTATGTAGGCTGCAA
AAATCTCTTTATGGTTTGAAACAAGCATCTAGGCAATAGAATTTGAAGTTAACTGAGGCTCTTTT
AGGTGTTGGTTATGAACAAAACAAATTTGATTATTATTTGTTCACAATGAAAAAAGATAAGAAGA
TTGCAGTCTTGTTGATTTATGTTATGACTGTCGATTACTAGCAATGACAGTGTTTTGATTGACGA
TTTAAAGAGTCTTTTGAACAAGAAGTTTAGAATGAAAGACCTTGGAGAGTTGAAATATTTTTAGG
TATTGAGATTATGAGATCAAAAGAAGGGATCTTAATTAATCAACGCAAATATGTTCTTAAATTGA
TTGAGAAA
Found at i:146623 original size:42 final size:42
Alignment explanation
Indices: 146576--146798 Score: 392
Period size: 42 Copynumber: 5.3 Consensus size: 42
146566 TCCAAGTTCG
* **
146576 CGTTGCAATAGTCGAAGTTCGCGTTGCGATTTATTTGAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
* *
146618 TGTTGCGATAGTCGAAGTTCGCGTTGCAATTTATTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
146660 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
146702 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
*
146744 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
146786 CGTTGCGATAGTC
1 CGTTGCGATAGTC
146799 CAAAATTACA
Statistics
Matches: 173, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 173 1.00
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.36
Consensus pattern (42 bp):
CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
Found at i:147704 original size:21 final size:20
Alignment explanation
Indices: 147672--147798 Score: 116
Period size: 21 Copynumber: 6.2 Consensus size: 20
147662 CGTTGCGATT
147672 TTGGACTATCGCAA-CGAAC
1 TTGGACTATCGCAAGCGAAC
*
147691 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAA-GCGAAC
*
147714 TTTGACTATCGCAACGCGAAC
1 TTGGACTATCGCAA-GCGAAC
*
147735 TTGGACTATCGCAA-CGAAT
1 TTGGACTATCGCAAGCGAAC
* *
147754 TTGGAATAAATTGCAAAGCGAAC
1 TTGGACT--ATCGC-AAGCGAAC
*
147777 TTCGACTATCGCAA-CGAAC
1 TTGGACTATCGCAAGCGAAC
147796 TTG
1 TTG
147799 ACGTATTTTC
Statistics
Matches: 88, Mismatches: 12, Indels: 16
0.76 0.10 0.14
Matches are distributed among these distances:
19 23 0.26
20 2 0.02
21 42 0.48
22 2 0.02
23 19 0.22
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (20 bp):
TTGGACTATCGCAAGCGAAC
Found at i:147775 original size:63 final size:63
Alignment explanation
Indices: 147672--147792 Score: 206
Period size: 63 Copynumber: 1.9 Consensus size: 63
147662 CGTTGCGATT
* *
147672 TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTTGACTATCGCAACGCGAAC
1 TTGGACTATCGCAACGAACTTGGAATAAATCGCAAAGCGAACTTCGACTATCGCAACGCGAAC
* *
147735 TTGGACTATCGCAACGAATTTGGAATAAATTGCAAAGCGAACTTCGACTATCGCAACG
1 TTGGACTATCGCAACGAACTTGGAATAAATCGCAAAGCGAACTTCGACTATCGCAACG
147793 AACTTGACGT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
63 54 1.00
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.22
Consensus pattern (63 bp):
TTGGACTATCGCAACGAACTTGGAATAAATCGCAAAGCGAACTTCGACTATCGCAACGCGAAC
Found at i:150525 original size:2 final size:2
Alignment explanation
Indices: 150518--150542 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
150508 GTTTTACCTA
150518 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
150543 ATACCTGAAT
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:160261 original size:39 final size:39
Alignment explanation
Indices: 160200--160302 Score: 109
Period size: 39 Copynumber: 2.6 Consensus size: 39
160190 GTTCAAATGT
** *
160200 AAAAAATAAAAGTTAGCGGTTAG-TGACGTTAAAAATAAA
1 AAAAAATAAAAGTTAGAAGTTAGCAG-CGTTAAAAATAAA
* * * * *
160239 AAAAAATAAATGTTAGTAGTTAGCAGTGTTAGAACTAAA
1 AAAAAATAAAAGTTAGAAGTTAGCAGCGTTAAAAATAAA
160278 AATAAAATAAAAGTTAGAAGTTAGC
1 AA-AAAATAAAAGTTAGAAGTTAGC
160303 GGTTAGTAAT
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
39 32 0.60
40 21 0.40
ACGTcount: A:0.52, C:0.05, G:0.17, T:0.25
Consensus pattern (39 bp):
AAAAAATAAAAGTTAGAAGTTAGCAGCGTTAAAAATAAA
Found at i:163701 original size:15 final size:15
Alignment explanation
Indices: 163681--163718 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
163671 AACTAGGCAA
163681 CAAGTTTCATCCACT
1 CAAGTTTCATCCACT
163696 CAAGTTTCATCCACT
1 CAAGTTTCATCCACT
163711 CAAGTTTC
1 CAAGTTTC
163719 TTGCTTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.26, C:0.32, G:0.08, T:0.34
Consensus pattern (15 bp):
CAAGTTTCATCCACT
Found at i:172673 original size:20 final size:20
Alignment explanation
Indices: 172650--172689 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
172640 TTATTAGAAC
172650 AATTCTAATATTACATACAA
1 AATTCTAATATTACATACAA
172670 AATTCTAATATTACATACAA
1 AATTCTAATATTACATACAA
172690 TGAGTGACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (20 bp):
AATTCTAATATTACATACAA
Found at i:175360 original size:15 final size:16
Alignment explanation
Indices: 175340--175370 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
175330 TAAACTAGGG
175340 ATTAAA-ATATTATTT
1 ATTAAATATATTATTT
175355 ATTAAATATATTATTT
1 ATTAAATATATTATTT
175371 TAATATAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATTAAATATATTATTT
Found at i:176209 original size:16 final size:16
Alignment explanation
Indices: 176188--176220 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
176178 GTGGCAACGG
176188 TGGAGGCAGAGGCGGC
1 TGGAGGCAGAGGCGGC
*
176204 TGGAGGTAGAGGCGGC
1 TGGAGGCAGAGGCGGC
176220 T
1 T
176221 AGGGATTAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.15, G:0.55, T:0.12
Consensus pattern (16 bp):
TGGAGGCAGAGGCGGC
Found at i:176348 original size:3 final size:3
Alignment explanation
Indices: 176340--176435 Score: 129
Period size: 3 Copynumber: 32.0 Consensus size: 3
176330 TATATATATT
* * **
176340 TAA TAA TAA TAA TAA TAA TAA TAT TTA TAA TAA TAA TAA TAA TAA TTT
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
176388 TTA TAG TAA TTA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
176436 ATAAATCAAT
Statistics
Matches: 81, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 81 1.00
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:177189 original size:224 final size:223
Alignment explanation
Indices: 176765--177323 Score: 958
Period size: 224 Copynumber: 2.5 Consensus size: 223
176755 ATAGAATTAT
* * * * *
176765 GCAAAAAGTTGAACAAGTTCTTCTTATTGTGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * * * *
176830 ATTATGAA-CTTCTCTAGAAAAGATAATCCATCAATTGATGAATTCAGGAAAAAGGTTGAACAAA
66 ATTATGAACCTTCTCTGGAAAAGCTGATCCATC-ATT-ATGGATTCAAGAAAAAGGTTGAACAAA
176894 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGG
129 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGG
176959 AAAAGCTGATCCATCAAATGATGGATTTGA
194 AAAAGCTGATCCATCAAATGATGGATTTGA
176989 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTC
*
177054 ATTATGAACCTTCTCTGGAAAAGCTGATCCATCATTATGGATTCAAGCAAAAGGTTGAACAAATT
66 ATTATGAACCTTCTCTGGAAAAGCTGATCCATCATTATGGATTCAAGAAAAAGGTTGAACAAATT
*
177119 CTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCCTCTGGA
131 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTT-CTCTGGA
177184 AAAGCTGATCCATCAAATGATGGATTTGA
195 AAAGCTGATCCATCAAATGATGGATTTGA
*
177213 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTT
1 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTC
*
177278 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCATTATGGATTCAA
66 ATTATGAACCTTCTCTGGAAAAGCTGATCCATCATTATGGATTCAA
177324 AATCTTTGCT
Statistics
Matches: 319, Mismatches: 14, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
223 82 0.26
224 216 0.68
225 21 0.07
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.37
Consensus pattern (223 bp):
GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACCTTCTCTGGAAAAGCTGATCCATCATTATGGATTCAAGAAAAAGGTTGAACAAATT
CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGAA
AAGCTGATCCATCAAATGATGGATTTGA
Found at i:177269 original size:113 final size:112
Alignment explanation
Indices: 176765--177311 Score: 841
Period size: 112 Copynumber: 4.9 Consensus size: 112
176755 ATAGAATTAT
* * * *
176765 GCAAAAAGTTGAACAAGTTCTTCTTATTGTGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * * * * *
176830 ATTATGAACTTCTCTAGAAAAGATAATCCATCAATTGAT-GAATTCA
66 ATTATGAACTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
* * *
176876 GGAAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
1 -GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCT
176941 CATTATGAACTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
65 CATTATGAACTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
*
176989 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTC
* **
177054 ATTATGAACCTTCTCTGGAAAAGCTGATCCATC--ATTATGGATTCAA
66 ATTATGAA-CTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
*
177100 GCAAAAGGTTGAACAAATTCTTCTCATTATGAA-TTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTT-TTCTTCCTTCTTCAGATGAGTTCTTCT
177164 CATTATGAACTTCCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
65 CATTATGAACTT-CTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
* *
177213 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTT
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTC
177278 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCA
66 ATTATGAAC-TTCTCTGGAAAAGCTGATCCATCA
177312 TTATGGATTC
Statistics
Matches: 401, Mismatches: 26, Indels: 15
0.91 0.06 0.03
Matches are distributed among these distances:
110 6 0.01
111 98 0.24
112 164 0.41
113 128 0.32
114 5 0.01
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.37
Consensus pattern (112 bp):
GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
Found at i:178183 original size:83 final size:83
Alignment explanation
Indices: 178044--178841 Score: 1452
Period size: 83 Copynumber: 9.6 Consensus size: 83
178034 GTAGTTCCTA
*
178044 CCAAACCAGATCAGATAATTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
178109 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
178127 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
178192 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
* *
178210 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
178275 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
* * **
178293 CTAAACCAGATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATCGGCAAATTCATCTTCCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
178358 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
178376 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
178441 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
*
178459 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCACATTCATCTTCCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
178524 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
* *
178542 CCAAACCAGATCAAATAACTCAAAGAATACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
178607 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
* *
178625 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
178690 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
* **
178708 CCAAACCAGATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATCGGCAAATTCATCTTCCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
178773 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
*
178791 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCA
178842 CATTGCATTT
Statistics
Matches: 688, Mismatches: 27, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
83 688 1.00
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (83 bp):
CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
ATTCAATGATTGGTTCTG
Found at i:180012 original size:10 final size:9
Alignment explanation
Indices: 179994--180034 Score: 64
Period size: 9 Copynumber: 4.4 Consensus size: 9
179984 TTGACCCCCC
179994 TTTTCTTTT
1 TTTTCTTTT
*
180003 TTCTCTTTTT
1 TTTTC-TTTT
180013 TTTTCTTTT
1 TTTTCTTTT
180022 TTTTCTTTT
1 TTTTCTTTT
180031 TTTT
1 TTTT
180035 TTCACTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
9 21 0.72
10 8 0.28
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTCTTTT
Found at i:180016 original size:12 final size:11
Alignment explanation
Indices: 179999--180045 Score: 69
Period size: 11 Copynumber: 4.4 Consensus size: 11
179989 CCCCCTTTTC
179999 TTTTTTCTCTT
1 TTTTTTCTCTT
180010 TTTTTT-TCTT
1 TTTTTTCTCTT
*
180020 TTTTTTCTTTT
1 TTTTTTCTCTT
*
180031 TTTTTTCACTT
1 TTTTTTCTCTT
180042 TTTT
1 TTTT
180046 CTTCAAGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
10 10 0.31
11 22 0.69
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTTCTCTT
Found at i:180018 original size:19 final size:19
Alignment explanation
Indices: 179994--180035 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
179984 TTGACCCCCC
179994 TTTTCTTTTTTCTCTTTTT
1 TTTTCTTTTTTCTCTTTTT
*
180013 TTTTCTTTTTTTTCTTTTT
1 TTTTCTTTTTTCTCTTTTT
180032 TTTT
1 TTTT
180036 TCACTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (19 bp):
TTTTCTTTTTTCTCTTTTT
Found at i:180036 original size:20 final size:20
Alignment explanation
Indices: 179994--180048 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
179984 TTGACCCCCC
*
179994 TTTTCTTTTTTCTC-TTTTT
1 TTTTCTTTTTTTTCTTTTTT
180013 TTTTCTTTTTTTTCTTTTTT
1 TTTTCTTTTTTTTCTTTTTT
**
180033 TTTTCACTTTTTTCTT
1 TTTTCTTTTTTTTCTT
180049 CAAGCATAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 13 0.41
20 19 0.59
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.84
Consensus pattern (20 bp):
TTTTCTTTTTTTTCTTTTTT
Found at i:192638 original size:16 final size:16
Alignment explanation
Indices: 192613--192661 Score: 91
Period size: 16 Copynumber: 3.1 Consensus size: 16
192603 GGACGTGGCA
192613 GCGG-TGGAGGCAGAG
1 GCGGCTGGAGGCAGAG
192628 GCGGCTGGAGGCAGAG
1 GCGGCTGGAGGCAGAG
192644 GCGGCTGGAGGCAGAG
1 GCGGCTGGAGGCAGAG
192660 GC
1 GC
192662 AGCTATGGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
15 4 0.12
16 29 0.88
ACGTcount: A:0.18, C:0.18, G:0.57, T:0.06
Consensus pattern (16 bp):
GCGGCTGGAGGCAGAG
Found at i:192797 original size:3 final size:3
Alignment explanation
Indices: 192789--192869 Score: 108
Period size: 3 Copynumber: 27.0 Consensus size: 3
192779 TATATATATT
* * * *
192789 TAA TAA TAA TAA TAA TAA TAT TTA TAA TAA TAA TAA TAA TAA TAT TTA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
192837 TAG TAA TTA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
192870 ATAAATCAAT
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 66 1.00
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:199335 original size:68 final size:68
Alignment explanation
Indices: 199226--199358 Score: 232
Period size: 68 Copynumber: 2.0 Consensus size: 68
199216 CATTAGTTTT
199226 GAGCTTAAACAACTTAAACTATATAGTATAAATAGGGAATAAC-TCATATTAGGATCAGTGCATA
1 GAGCTTAAACAACTTAAACTATATAGTATAAATAGGGAATAACAT-ATATTAGGATCAGTGCATA
199290 CCAG
65 CCAG
* *
199294 GAGCTTAAACAACTTAAACTATTTAGTATAAATAGGGAATAACATATATTAGGATCATTGCATAC
1 GAGCTTAAACAACTTAAACTATATAGTATAAATAGGGAATAACATATATTAGGATCAGTGCATAC
199359 TAGCATTGTT
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
68 61 0.98
69 1 0.02
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.29
Consensus pattern (68 bp):
GAGCTTAAACAACTTAAACTATATAGTATAAATAGGGAATAACATATATTAGGATCAGTGCATAC
CAG
Found at i:200751 original size:108 final size:108
Alignment explanation
Indices: 200562--200781 Score: 413
Period size: 108 Copynumber: 2.0 Consensus size: 108
200552 CAGCCCTTTG
*
200562 GGATCTTCTTCACCGTGAACATCAATCACCACTTCTCCTCCACTGTTTTTCTTCTCTGCCATGTC
1 GGATCTTCTTCACCGTGAACATCAATCACCACTTCTCCTCCACTGTTTTTCTTCTCTGCCACGTC
200627 TTTAGCTTCAATCAAAGCCCTAATTAGAAAACAATTAAAACAT
66 TTTAGCTTCAATCAAAGCCCTAATTAGAAAACAATTAAAACAT
*
200670 GGATCTTCTTCACCGTGAACATCAATCACCACTTCTCCTCCACTGTTTTTCTTCTCTTCCACGTC
1 GGATCTTCTTCACCGTGAACATCAATCACCACTTCTCCTCCACTGTTTTTCTTCTCTGCCACGTC
*
200735 TTTAGCTTCAATCAAAGCCCTGATTAGAAAACAATTAAAACAT
66 TTTAGCTTCAATCAAAGCCCTAATTAGAAAACAATTAAAACAT
200778 GGAT
1 GGAT
200782 GTTTAACTCA
Statistics
Matches: 109, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
108 109 1.00
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (108 bp):
GGATCTTCTTCACCGTGAACATCAATCACCACTTCTCCTCCACTGTTTTTCTTCTCTGCCACGTC
TTTAGCTTCAATCAAAGCCCTAATTAGAAAACAATTAAAACAT
Found at i:206941 original size:60 final size:59
Alignment explanation
Indices: 206824--206949 Score: 132
Period size: 60 Copynumber: 2.1 Consensus size: 59
206814 TAGTCAGATG
* * * *
206824 ATCATTTTATAACTTTTAATAGTCTAGGGACTCAACAAAGCAACACTCTATAGTCGAACA
1 ATCATTTTATAACTTTTAATAGTCTACGAACTCAACAAAACAACACTCTATAATCGAA-A
* * *
206884 ATCATTTTATAACTTTTAATAGT-TAACGAACTTAATAAAACAGTAC-CT-TATAATCGAAG
1 ATCATTTTATAACTTTTAATAGTCT-ACGAACTCAACAAAACA--ACACTCTATAATCGAAA
206943 ATCATTT
1 ATCATTT
206950 GTGTACTTTA
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
59 8 0.14
60 44 0.79
61 2 0.04
62 2 0.04
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.34
Consensus pattern (59 bp):
ATCATTTTATAACTTTTAATAGTCTACGAACTCAACAAAACAACACTCTATAATCGAAA
Found at i:207374 original size:16 final size:15
Alignment explanation
Indices: 207342--207371 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
207332 TCATATTTTA
207342 AAAAAAAATAAAATT
1 AAAAAAAATAAAATT
*
207357 AAAAAAATTAAAATT
1 AAAAAAAATAAAATT
207372 TAATTTTTCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AAAAAAAATAAAATT
Found at i:208985 original size:2 final size:2
Alignment explanation
Indices: 208978--209023 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
208968 TCTAAGCTTT
208978 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
209020 TA TA
1 TA TA
209024 ATGGTGTGAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:210151 original size:29 final size:30
Alignment explanation
Indices: 210118--210200 Score: 71
Period size: 31 Copynumber: 2.8 Consensus size: 30
210108 TAAATTGATT
210118 CTTAAGCTTTTGAATATTCTAATATCA-TC
1 CTTAAGCTTTTGAATATTCTAATATCAGTC
* ** ** *
210147 CTTAAACTATGGGTTTCATTCTAA-ATTAGTC
1 CTTAAGCT-TTTGAAT-ATTCTAATATCAGTC
*
210178 CTTAAGCTTTTGAACATTCTAAT
1 CTTAAGCTTTTGAATATTCTAAT
210201 TGCATCCATA
Statistics
Matches: 38, Mismatches: 12, Indels: 7
0.67 0.21 0.12
Matches are distributed among these distances:
29 14 0.37
30 8 0.21
31 16 0.42
ACGTcount: A:0.30, C:0.17, G:0.10, T:0.43
Consensus pattern (30 bp):
CTTAAGCTTTTGAATATTCTAATATCAGTC
Found at i:210207 original size:60 final size:60
Alignment explanation
Indices: 210118--210266 Score: 167
Period size: 60 Copynumber: 2.5 Consensus size: 60
210108 TAAATTGATT
* ** *
210118 CTTAAGCTTTTGAATATTCTAATATCATCCTTAAACTATGGGTTTCATTCTAAATTAG-TC
1 CTTAAGCTTTTGAATATTCTAAT-TCATCCATAAACTATGACTCTCATTCTAAATTAGTTC
* * * *
210178 CTTAAGCTTTTGAACATTCTAATTGCATCCATAAATTATGACTCTCTTTCTAAATTGGTTC
1 CTTAAGCTTTTGAATATTCTAATT-CATCCATAAACTATGACTCTCATTCTAAATTAGTTC
* *
210239 C-CAAACTTTTGAATATTCTAATTTCATC
1 CTTAAGCTTTTGAATATTCTAA-TTCATC
210267 TCCAAATTCA
Statistics
Matches: 75, Mismatches: 11, Indels: 6
0.82 0.12 0.07
Matches are distributed among these distances:
59 1 0.01
60 69 0.92
61 5 0.07
ACGTcount: A:0.30, C:0.19, G:0.09, T:0.43
Consensus pattern (60 bp):
CTTAAGCTTTTGAATATTCTAATTCATCCATAAACTATGACTCTCATTCTAAATTAGTTC
Found at i:210496 original size:60 final size:60
Alignment explanation
Indices: 210395--210546 Score: 193
Period size: 60 Copynumber: 2.5 Consensus size: 60
210385 GTATATATGT
* *
210395 ATAGTTT-GGGATGAAATTGGAATGTTCAAAAAGTTTAAGGACTAATTTAGAAT-AAAGGTC
1 ATAGTTTAGGGATGAAATTGAAATGTT-TAAAAGTTTAAGGACTAATTTAGAATGAAA-GTC
* * *
210455 ATAGTTTAGGGATAAAATTGAAATGTTTAAAAGTTTGAGGACTAATTTAGAATGATAGTC
1 ATAGTTTAGGGATGAAATTGAAATGTTTAAAAGTTTAAGGACTAATTTAGAATGAAAGTC
* *
210515 ATAGTGTAGGGATGAAATT-AGAATATTTAAAA
1 ATAGTTTAGGGATGAAATTGA-AATGTTTAAAA
210547 ATCTAGTGAT
Statistics
Matches: 81, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
59 1 0.01
60 61 0.75
61 19 0.23
ACGTcount: A:0.41, C:0.03, G:0.22, T:0.33
Consensus pattern (60 bp):
ATAGTTTAGGGATGAAATTGAAATGTTTAAAAGTTTAAGGACTAATTTAGAATGAAAGTC
Found at i:211985 original size:118 final size:118
Alignment explanation
Indices: 211846--212087 Score: 305
Period size: 118 Copynumber: 2.1 Consensus size: 118
211836 TTGAAAACAG
* * * *
211846 AAAAAAATATGTTAAAATTTAATTCAAAATTGAATGAATAAATAATAGAAATGGAAAAAGAGGGT
1 AAAAAAATATGTTAAAATTTAAATCAAAATTAAATGAATAAATAAGAGAAATGAAAAAAGA-GGT
* * * *
211911 C-AAAACTA-AACATTTTATGGA-ATTATAAAAATTAAGGGGCTTAATTATAAATAT
65 CAAAAACTAGAA-ATTTTA-CGATATTATAAAAATT-AGGGCCCTAATAATAAATAT
*
211965 AAAAAAAT-TGGTT-AAATTTAAATCAAAATTAAATGAATTAATAAGAGAAATGAAAAAAGAGGT
1 AAAAAAATAT-GTTAAAATTTAAATCAAAATTAAATGAATAAATAAGAGAAATGAAAAAAGAGGT
* *
212028 CAAAAACTAGAAATTTTACGATATTTTAAAAATTAGGGCCCTAGTAATAAATAT
65 CAAAAACTAGAAATTTTACGATATTATAAAAATTAGGGCCCTAATAATAAATAT
212082 AAAAAA
1 AAAAAA
212088 GAAAAAAAGA
Statistics
Matches: 108, Mismatches: 11, Indels: 10
0.84 0.09 0.08
Matches are distributed among these distances:
117 28 0.26
118 67 0.62
119 13 0.12
ACGTcount: A:0.54, C:0.05, G:0.13, T:0.28
Consensus pattern (118 bp):
AAAAAAATATGTTAAAATTTAAATCAAAATTAAATGAATAAATAAGAGAAATGAAAAAAGAGGTC
AAAAACTAGAAATTTTACGATATTATAAAAATTAGGGCCCTAATAATAAATAT
Found at i:212472 original size:4 final size:4
Alignment explanation
Indices: 212463--212574 Score: 98
Period size: 4 Copynumber: 28.0 Consensus size: 4
212453 AAATTATATT
* * * * *
212463 CATA CATA CAAA CATA CATA CATG CATG CATA CATG CATA CATA CATG
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * * *
212511 CATG CATA CATG CATA CATA CATG CATG CATA CATG CACA CATA CATG
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* *
212559 CATG CATA CATG CATA
1 CATA CATA CATA CATA
212575 ACTTTAAATT
Statistics
Matches: 88, Mismatches: 20, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
4 88 1.00
ACGTcount: A:0.40, C:0.26, G:0.11, T:0.23
Consensus pattern (4 bp):
CATA
Found at i:212480 original size:12 final size:12
Alignment explanation
Indices: 212463--212574 Score: 161
Period size: 12 Copynumber: 9.3 Consensus size: 12
212453 AAATTATATT
**
212463 CATACATACAAA
1 CATACATACATG
212475 CATACATACATG
1 CATACATACATG
*
212487 CATGCATACATG
1 CATACATACATG
212499 CATACATACATG
1 CATACATACATG
*
212511 CATGCATACATG
1 CATACATACATG
212523 CATACATACATG
1 CATACATACATG
*
212535 CATGCATACATG
1 CATACATACATG
*
212547 CACACATACATG
1 CATACATACATG
*
212559 CATGCATACATG
1 CATACATACATG
212571 CATA
1 CATA
212575 ACTTTAAATT
Statistics
Matches: 88, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 88 1.00
ACGTcount: A:0.40, C:0.26, G:0.11, T:0.23
Consensus pattern (12 bp):
CATACATACATG
Found at i:212495 original size:24 final size:24
Alignment explanation
Indices: 212475--212574 Score: 191
Period size: 24 Copynumber: 4.2 Consensus size: 24
212465 TACATACAAA
212475 CATACATACATGCATGCATACATG
1 CATACATACATGCATGCATACATG
212499 CATACATACATGCATGCATACATG
1 CATACATACATGCATGCATACATG
212523 CATACATACATGCATGCATACATG
1 CATACATACATGCATGCATACATG
*
212547 CACACATACATGCATGCATACATG
1 CATACATACATGCATGCATACATG
212571 CATA
1 CATA
212575 ACTTTAAATT
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 74 1.00
ACGTcount: A:0.38, C:0.26, G:0.12, T:0.24
Consensus pattern (24 bp):
CATACATACATGCATGCATACATG
Found at i:219144 original size:19 final size:19
Alignment explanation
Indices: 219116--219177 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
219106 TGTATTTTAG
*
219116 TTTAAATAGGTTTTAGTAT
1 TTTAATTAGGTTTTAGTAT
* *
219135 TTTAATTAGGATTTAGAAT
1 TTTAATTAGGTTTTAGTAT
* *
219154 ATTATATTA-TTTTTAGGTAT
1 TTTA-ATTAGGTTTTA-GTAT
219174 TTTA
1 TTTA
219178 GTTTAAATAG
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
19 23 0.70
20 10 0.30
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (19 bp):
TTTAATTAGGTTTTAGTAT
Found at i:222457 original size:10 final size:10
Alignment explanation
Indices: 222442--222476 Score: 70
Period size: 10 Copynumber: 3.5 Consensus size: 10
222432 TTATGAGAAA
222442 ATTTTATAAT
1 ATTTTATAAT
222452 ATTTTATAAT
1 ATTTTATAAT
222462 ATTTTATAAT
1 ATTTTATAAT
222472 ATTTT
1 ATTTT
222477 CCAAATTCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
ATTTTATAAT
Found at i:224220 original size:2 final size:2
Alignment explanation
Indices: 224209--224246 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
224199 TCATACTTTC
224209 TA TA -A 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 T
224247 TGAACAATGA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:226423 original size:34 final size:32
Alignment explanation
Indices: 226343--226431 Score: 90
Period size: 34 Copynumber: 2.7 Consensus size: 32
226333 TTAGTATTTT
* * *
226343 TTTAAATAGTTATTATTTTTTATATTAATATA
1 TTTATATAATTATTATTTTTTATATAAATATA
* *
226375 TTTATGTAAATATTATTTTATTAT-TAAAATAATA
1 TTTATATAATTATTATTTT-TTATAT-AAAT-ATA
226409 TTTATATAATTATTATTTATTTA
1 TTTATATAATTATTATTT-TTTA
226432 GAATTATTAA
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
32 16 0.35
33 7 0.15
34 22 0.48
35 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.58
Consensus pattern (32 bp):
TTTATATAATTATTATTTTTTATATAAATATA
Found at i:228178 original size:21 final size:21
Alignment explanation
Indices: 228148--228195 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
228138 GCAGGGGTAC
* *
228148 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
* *
228169 ATGCCAAGCCCACCAGTTTAT
1 ATGCCAAGCCCACCACTTCAT
228190 ATGCCA
1 ATGCCA
228196 TCTCCGCAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.40, G:0.12, T:0.23
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:228242 original size:63 final size:63
Alignment explanation
Indices: 228169--228305 Score: 154
Period size: 63 Copynumber: 2.2 Consensus size: 63
228159 TCCACTTCAT
* * * * *
228169 ATGCCAAGCCCACCAGTTTATATGCC-ATCTCCG-CAGGGTTACATTCCGAGCCCG-CAGGGTTA
1 ATGCCTAGCCCACCAGGTTACATGCCTAGC-CCGCCA-GGTTACATGCCGAGCCCGCCA-GGTTA
228231 C
63 C
* * *
228232 ATTCCTAGCCCGCCAGGTTACATGCCTAGCCCGCCAGGTTACATGCCTAGCCCGCCAGGTTAC
1 ATGCCTAGCCCACCAGGTTACATGCCTAGCCCGCCAGGTTACATGCCGAGCCCGCCAGGTTAC
228295 ATGCCTAGCCC
1 ATGCCTAGCCC
228306 GCAGGGTTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
63 56 0.90
64 6 0.10
ACGTcount: A:0.20, C:0.36, G:0.22, T:0.21
Consensus pattern (63 bp):
ATGCCTAGCCCACCAGGTTACATGCCTAGCCCGCCAGGTTACATGCCGAGCCCGCCAGGTTAC
Found at i:228313 original size:21 final size:21
Alignment explanation
Indices: 228205--228307 Score: 163
Period size: 21 Copynumber: 4.9 Consensus size: 21
228195 ATCTCCGCAG
* *
228205 GGTTACATTCCGAGCCCG-CA
1 GGTTACATGCCTAGCCCGCCA
*
228225 GGGTTACATTCCTAGCCCGCCA
1 -GGTTACATGCCTAGCCCGCCA
228247 GGTTACATGCCTAGCCCGCCA
1 GGTTACATGCCTAGCCCGCCA
228268 GGTTACATGCCTAGCCCGCCA
1 GGTTACATGCCTAGCCCGCCA
228289 GGTTACATGCCTAGCCCGC
1 GGTTACATGCCTAGCCCGC
228308 AGGGTTTTAT
Statistics
Matches: 79, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
21 77 0.97
22 2 0.03
ACGTcount: A:0.18, C:0.37, G:0.24, T:0.20
Consensus pattern (21 bp):
GGTTACATGCCTAGCCCGCCA
Found at i:229314 original size:12 final size:13
Alignment explanation
Indices: 229281--229318 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
229271 AAATACATAA
229281 ATATATTTAATAT
1 ATATATTTAATAT
*
229294 ATTTATTTAATAT
1 ATATATTTAATAT
229307 A-ATATTTAATAT
1 ATATATTTAATAT
229319 TATTAGTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
ATATATTTAATAT
Found at i:229370 original size:23 final size:23
Alignment explanation
Indices: 229332--229389 Score: 102
Period size: 23 Copynumber: 2.6 Consensus size: 23
229322 TAGTTATAAT
229332 TTTTACAT--TATAATCGAAACA
1 TTTTACATAATATAATCGAAACA
229353 TTTTACATAATATAATCGAAACA
1 TTTTACATAATATAATCGAAACA
229376 TTTTACATAATATA
1 TTTTACATAATATA
229390 TTATAATTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
21 8 0.23
23 27 0.77
ACGTcount: A:0.45, C:0.12, G:0.03, T:0.40
Consensus pattern (23 bp):
TTTTACATAATATAATCGAAACA
Found at i:232637 original size:2 final size:2
Alignment explanation
Indices: 232632--232663 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
232622 GTTTTTTAAC
232632 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
232664 TTCCAACTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:232830 original size:7 final size:7
Alignment explanation
Indices: 232818--232858 Score: 82
Period size: 7 Copynumber: 5.9 Consensus size: 7
232808 GAGGATTTGT
232818 GTTTACA
1 GTTTACA
232825 GTTTACA
1 GTTTACA
232832 GTTTACA
1 GTTTACA
232839 GTTTACA
1 GTTTACA
232846 GTTTACA
1 GTTTACA
232853 GTTTAC
1 GTTTAC
232859 GTCATGTTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.44
Consensus pattern (7 bp):
GTTTACA
Found at i:234986 original size:56 final size:57
Alignment explanation
Indices: 234835--234994 Score: 225
Period size: 61 Copynumber: 2.8 Consensus size: 57
234825 ACTATAAGAT
** * *
234835 ATTGTTTTATTT-AGTCCCGACTATTAAAAGTTATAAAATAGTCCCTCGACTATATGG
1 ATTGTTTT-TTTGAGTCTTGACTATAAAAAGTTACAAAATAGTCCCTCGACTATATGG
234892 ATTTGTTTTTTTTGAGTCTCTTGACTATAAAAAGTTACAAAATAGTCCCTCGACTATAT-G
1 A-TTG-TTTTTTTGAG--TCTTGACTATAAAAAGTTACAAAATAGTCCCTCGACTATATGG
234952 ATTGTTTTTTTGAGTCTTGACTATAAAAAGTTACAAAATAGTC
1 ATTGTTTTTTTGAGTCTTGACTATAAAAAGTTACAAAATAGTC
234995 ATTCATTATG
Statistics
Matches: 94, Mismatches: 4, Indels: 11
0.86 0.04 0.10
Matches are distributed among these distances:
56 29 0.31
57 1 0.01
58 16 0.17
59 9 0.10
60 2 0.02
61 37 0.39
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.41
Consensus pattern (57 bp):
ATTGTTTTTTTGAGTCTTGACTATAAAAAGTTACAAAATAGTCCCTCGACTATATGG
Found at i:235452 original size:2 final size:2
Alignment explanation
Indices: 235445--235494 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
235435 TTTCTTTTTC
235445 AT AT AT AT 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 AT AT AT AT
235487 AT AT AT AT
1 AT AT AT AT
235495 TATTTTCACT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:238917 original size:2 final size:2
Alignment explanation
Indices: 238910--239012 Score: 64
Period size: 2 Copynumber: 56.5 Consensus size: 2
238900 TAAAAATAAT
*
238910 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T- TA -A TA AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
238949 T- TA -A AA T- TA -A AA AA TA TA TA -A TA TT TA TA TA TT TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
238985 TT TA AA TA TA TA TA TA TA TA -A TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
239013 TTCCGGCCCG
Statistics
Matches: 79, Mismatches: 12, Indels: 20
0.71 0.11 0.18
Matches are distributed among these distances:
1 10 0.13
2 69 0.87
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:238966 original size:31 final size:30
Alignment explanation
Indices: 238931--239007 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 30
238921 ATATATATAT
238931 ATATATAATATTAATAAATTAAAATTAAAAA
1 ATATATAATATTAATAAATT-AAATTAAAAA
* * * * *
238962 ATATATAATATTTATATATTTAATTTAAAT
1 ATATATAATATTAATAAATTAAATTAAAAA
238992 ATATAT-ATATATAATA
1 ATATATAATAT-TAATA
239008 TATATTTCCG
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
29 4 0.10
30 17 0.44
31 18 0.46
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (30 bp):
ATATATAATATTAATAAATTAAATTAAAAA
Found at i:238993 original size:15 final size:17
Alignment explanation
Indices: 238974--239014 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
238964 ATATAATATT
*
238974 TATATATTTA-ATTTAA
1 TATATATTTATATATAA
*
238990 -ATATATATATATATAA
1 TATATATTTATATATAA
239006 TATATATTT
1 TATATATTT
239015 CCGGCCCGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
15 8 0.40
16 5 0.25
17 7 0.35
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TATATATTTATATATAA
Found at i:239160 original size:25 final size:25
Alignment explanation
Indices: 239119--239169 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
239109 AAATCCCCGT
* *
239119 GGTTTTTTAAGCTGGGAC-GAGTACA
1 GGTTTTTTAAACGGGGACAGAG-ACA
239144 GGTTTTTTAAACGGGGACAGAGACA
1 GGTTTTTTAAACGGGGACAGAGACA
239169 G
1 G
239170 AGAGACCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 20 0.87
26 3 0.13
ACGTcount: A:0.27, C:0.12, G:0.33, T:0.27
Consensus pattern (25 bp):
GGTTTTTTAAACGGGGACAGAGACA
Found at i:239500 original size:17 final size:16
Alignment explanation
Indices: 239460--239504 Score: 58
Period size: 14 Copynumber: 2.9 Consensus size: 16
239450 CCGATCGAAT
239460 CGAATTAGTTCGGTTA
1 CGAATTAGTTCGGTTA
*
239476 --ATTTAGTTCGGTTA
1 CGAATTAGTTCGGTTA
239490 CCGAATTAGTTCGGT
1 -CGAATTAGTTCGGT
239505 CGGTTAACGG
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
14 13 0.54
17 11 0.46
ACGTcount: A:0.22, C:0.13, G:0.24, T:0.40
Consensus pattern (16 bp):
CGAATTAGTTCGGTTA
Found at i:239578 original size:9 final size:9
Alignment explanation
Indices: 239566--239599 Score: 59
Period size: 9 Copynumber: 3.7 Consensus size: 9
239556 GAATTCGGTT
239566 AATTAACCG
1 AATTAACCG
239575 AATTAACCG
1 AATTAACCG
239584 AATTAACCG
1 AATTAACCG
239593 AAATTAA
1 -AATTAA
239600 ATTTTAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 18 0.75
10 6 0.25
ACGTcount: A:0.50, C:0.18, G:0.09, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:239884 original size:174 final size:177
Alignment explanation
Indices: 239620--239962 Score: 529
Period size: 174 Copynumber: 1.9 Consensus size: 177
239610 TTAAATATAT
* * *
239620 TATAACATATGGGCTCAACCAATCATTTAGAACCCAATTAATAATTTAGATCCAATAACTTTTAA
1 TATAACATATGGGCTAAACCAACCATTTAAAACCCAATTAATAATTTAGATCCAATAACTTTTAA
*
239685 ACTTAAATCAATATTAATTAATT-AAAA-TATATAAATTTTTTATTTTATAA-T-TATATTATTT
66 ACTTAAATCAATATTAATTAATTAAAAATTATATAAAATTTTTATTTTATAATTATATATTATTT
*
239746 AAATT-ATTGTAAACTGTTTTTT-AATT-AAAAATATTATATATATTA
131 AAATTAATTATAAACT-TTTTTTGAATTAAAAAATATTATATATATTA
239791 TATAACATATGGGCTAAACCAAAACCATTTAAAACCCAATTAATAATTTAAGATCCAATAACTTT
1 TATAACATATGGGCTAAACC--AACCATTTAAAACCCAATTAATAATTT-AGATCCAATAACTTT
*
239856 TAAACTTAAATCAATATTAATTAATTAAAAATTTTATCTAAAATTTTTATTTTATAATTATATAT
63 TAAACTTAAATCAATATTAATTAATTAAAAA--TTATATAAAATTTTTATTTTATAATTATATAT
239921 TATTTAAATTAATTATAAACTTTTTTTGAATTAAAAAATATT
126 TATTTAAATTAATTATAAACTTTTTTTGAATTAAAAAATATT
239963 GATTTTTATA
Statistics
Matches: 154, Mismatches: 6, Indels: 13
0.89 0.03 0.08
Matches are distributed among these distances:
171 19 0.12
173 25 0.16
174 41 0.27
175 4 0.03
178 21 0.14
179 1 0.01
180 21 0.14
181 13 0.08
182 9 0.06
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.43
Consensus pattern (177 bp):
TATAACATATGGGCTAAACCAACCATTTAAAACCCAATTAATAATTTAGATCCAATAACTTTTAA
ACTTAAATCAATATTAATTAATTAAAAATTATATAAAATTTTTATTTTATAATTATATATTATTT
AAATTAATTATAAACTTTTTTTGAATTAAAAAATATTATATATATTA
Done.