Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 98 of 318
Found at i:32351417 original size:40 final size:40
Alignment explanation
Indices: 32351358--32351434 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
32351348 GAAATTACAG
32351358 AAAAGCGCACTGACGTGGGCACGCTTTACCCAATGTTAGC
1 AAAAGCGCACTGACGTGGGCACGCTTTACCCAATGTTAGC
* **
32351398 AAAAGCGCACTGACTTGGGCGTGCTTTACCCAATGTT
1 AAAAGCGCACTGACGTGGGCACGCTTTACCCAATGTT
32351435 TTTCCCCTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.26, C:0.26, G:0.25, T:0.23
Consensus pattern (40 bp):
AAAAGCGCACTGACGTGGGCACGCTTTACCCAATGTTAGC
Found at i:32353809 original size:59 final size:59
Alignment explanation
Indices: 32353712--32353838 Score: 182
Period size: 59 Copynumber: 2.2 Consensus size: 59
32353702 GCATTGATTT
* ** * *
32353712 TTTTTAATATATTTGTACAAACTATTTTTATTTTGTTTCATTTAATAAAACATAAGTTG
1 TTTTGAATATATTTGTACAAACTATTTTTATACTGTTTCATTTAATAAAACATAAATTC
* * *
32353771 TTTTGAATATTTTTGTACAAATTATTTTTATACTGTTTCATTTAATAAAATATAAATTC
1 TTTTGAATATATTTGTACAAACTATTTTTATACTGTTTCATTTAATAAAACATAAATTC
32353830 TTTTGAATA
1 TTTTGAATA
32353839 AGACAATACA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.53
Consensus pattern (59 bp):
TTTTGAATATATTTGTACAAACTATTTTTATACTGTTTCATTTAATAAAACATAAATTC
Found at i:32353849 original size:59 final size:59
Alignment explanation
Indices: 32353727--32353851 Score: 142
Period size: 59 Copynumber: 2.1 Consensus size: 59
32353717 AATATATTTG
* ** * * ******
32353727 TACAAACTATTTTTATTTTGTTTCATTTAATAAAACATAAGTTGTTTTGAATATTTTTG
1 TACAAATTATTTTTATACTGTTTCATTTAATAAAACATAAATTCTTTTGAATAAGACAA
*
32353786 TACAAATTATTTTTATACTGTTTCATTTAATAAAATATAAATTCTTTTGAATAAGACAA
1 TACAAATTATTTTTATACTGTTTCATTTAATAAAACATAAATTCTTTTGAATAAGACAA
32353845 TACAAAT
1 TACAAAT
32353852 CGAATATTCA
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
59 54 1.00
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.47
Consensus pattern (59 bp):
TACAAATTATTTTTATACTGTTTCATTTAATAAAACATAAATTCTTTTGAATAAGACAA
Found at i:32354912 original size:28 final size:27
Alignment explanation
Indices: 32354871--32354939 Score: 72
Period size: 28 Copynumber: 2.6 Consensus size: 27
32354861 AATAGACCTT
32354871 AAACCCTAA--TTAATATATATTTTT-A
1 AAACCCTAACCTTAATATAT-TTTTTAA
* *
32354896 AAACCTTAAACCTTAATTTATTTTTTCAA
1 AAACCCT-AACCTTAATATATTTTTT-AA
32354925 AAACCCTAACCTTAA
1 AAACCCTAACCTTAA
32354940 CCCTAAACCC
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
25 6 0.17
26 2 0.06
27 5 0.14
28 16 0.44
29 7 0.19
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.39
Consensus pattern (27 bp):
AAACCCTAACCTTAATATATTTTTTAA
Found at i:32355081 original size:28 final size:29
Alignment explanation
Indices: 32355048--32355112 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
32355038 CGTCAAAATA
* * * *
32355048 ATTTTTTTAGAATACATCACGTTAAATTT
1 ATTTTTTTAAAACACATCACATCAAATTT
*
32355077 ATTTTTTTAAAACACATCGCATCAAATTT
1 ATTTTTTTAAAACACATCACATCAAATTT
32355106 ATTTTTT
1 ATTTTTT
32355113 CATATCCCAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.34, C:0.12, G:0.05, T:0.49
Consensus pattern (29 bp):
ATTTTTTTAAAACACATCACATCAAATTT
Found at i:32355756 original size:13 final size:13
Alignment explanation
Indices: 32355734--32355775 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
32355724 ATAATGAGAA
32355734 ATTATAAATATATT
1 ATTAT-AATATATT
*
32355748 ATTGTAATATATT
1 ATTATAATATATT
*
32355761 TTTATAATATATT
1 ATTATAATATATT
32355774 AT
1 AT
32355776 CAGTTGACAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
13 20 0.83
14 4 0.17
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (13 bp):
ATTATAATATATT
Found at i:32356195 original size:44 final size:44
Alignment explanation
Indices: 32356127--32356219 Score: 168
Period size: 44 Copynumber: 2.1 Consensus size: 44
32356117 CTACTTCACG
* *
32356127 CAAAGATAGGTGTATATATATATACATATAACAGAAAAAGGAAA
1 CAAAAATAGGTATATATATATATACATATAACAGAAAAAGGAAA
32356171 CAAAAATAGGTATATATATATATACATATAACAGAAAAAGGAAA
1 CAAAAATAGGTATATATATATATACATATAACAGAAAAAGGAAA
32356215 CAAAA
1 CAAAA
32356220 TAAAAGAAAG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.58, C:0.08, G:0.13, T:0.22
Consensus pattern (44 bp):
CAAAAATAGGTATATATATATATACATATAACAGAAAAAGGAAA
Found at i:32359051 original size:11 final size:11
Alignment explanation
Indices: 32359031--32359060 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
32359021 TTTTTAATTT
*
32359031 AATATGTTTTA
1 AATATTTTTTA
32359042 AATATTTTTTA
1 AATATTTTTTA
32359053 AATATTTT
1 AATATTTT
32359061 AGCTGTGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (11 bp):
AATATTTTTTA
Found at i:32359677 original size:30 final size:29
Alignment explanation
Indices: 32359641--32359704 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 29
32359631 CAACTTAACA
32359641 AACAAATGT-TTCTAAAATAATAACAAAATT
1 AACAAATGTCTT-TAAAATAATAA-AAAATT
32359671 AACAAATGTCTTTAAAATAATAAAAAATT
1 AACAAATGTCTTTAAAATAATAAAAAATT
32359700 AACAA
1 AACAA
32359705 TAAAATAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
29 11 0.33
30 20 0.61
31 2 0.06
ACGTcount: A:0.59, C:0.09, G:0.03, T:0.28
Consensus pattern (29 bp):
AACAAATGTCTTTAAAATAATAAAAAATT
Found at i:32359778 original size:11 final size:11
Alignment explanation
Indices: 32359764--32359789 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
32359754 ACATAATAGT
32359764 AAAATAGGGAG
1 AAAATAGGGAG
32359775 AAAATAGGGAG
1 AAAATAGGGAG
32359786 AAAA
1 AAAA
32359790 CAATAAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.31, T:0.08
Consensus pattern (11 bp):
AAAATAGGGAG
Found at i:32361082 original size:23 final size:24
Alignment explanation
Indices: 32361047--32361096 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
32361037 ATAATATTTT
32361047 GAATGATGTTCGAGAGAATAAGGA
1 GAATGATGTTCGAGAGAATAAGGA
32361071 GAAT-ATGTTCGAGAGAATAAGGA
1 GAATGATGTTCGAGAGAATAAGGA
32361094 GAA
1 GAA
32361097 GCAATTACCT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 22 0.85
24 4 0.15
ACGTcount: A:0.44, C:0.04, G:0.32, T:0.20
Consensus pattern (24 bp):
GAATGATGTTCGAGAGAATAAGGA
Found at i:32363727 original size:12 final size:12
Alignment explanation
Indices: 32363710--32363737 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
32363700 TATTATATGT
32363710 AAGATCGAGACC
1 AAGATCGAGACC
32363722 AAGATCGAGACC
1 AAGATCGAGACC
32363734 AAGA
1 AAGA
32363738 CCCAATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.46, C:0.21, G:0.25, T:0.07
Consensus pattern (12 bp):
AAGATCGAGACC
Found at i:32363840 original size:25 final size:25
Alignment explanation
Indices: 32363806--32363870 Score: 96
Period size: 25 Copynumber: 2.6 Consensus size: 25
32363796 GGCTAGACTA
*
32363806 GACCAGTCGGGTTGTCATTAACTC-G
1 GACCGGTCGGGTTGTCATTAAC-CAG
32363831 GACCGGTCGGGTTGTCATTAACCAG
1 GACCGGTCGGGTTGTCATTAACCAG
*
32363856 GACAGGTCGGGTTGT
1 GACCGGTCGGGTTGT
32363871 TATTGACCTA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
24 1 0.03
25 36 0.97
ACGTcount: A:0.18, C:0.22, G:0.34, T:0.26
Consensus pattern (25 bp):
GACCGGTCGGGTTGTCATTAACCAG
Found at i:32364254 original size:62 final size:60
Alignment explanation
Indices: 32364086--32364281 Score: 181
Period size: 62 Copynumber: 3.2 Consensus size: 60
32364076 TTCAAAAATA
* * * *
32364086 ATATTATTTTAAT-AATTTAATATTAAATTAAATCTAATACTTATC-T-TAAT-AGTATT
1 ATATTAATTTAATAAATTTAATATTAAATTAAATTTAATATTTATCTTGTAATAAATATT
* * *
32364142 TTATTAATTTAATATTAAAGTGATT-ATCTTAATATTAAATTTAATGTTTATCTTGTAAATAAAT
1 ATATTAATTT-A-A-TAAA-T--TTAATATTAA-ATTAAATTTAATATTTATCTTGT-AATAAAT
32364206 ATT
58 ATT
* *
32364209 CTATTATTTTAATAAGATTTAATATTAAATTAAATTTAATATTTATCTTG--ATAAATATT
1 ATATTAATTTAATAA-ATTTAATATTAAATTAAATTTAATATTTATCTTGTAATAAATATT
32364268 ATATTAATTTAATA
1 ATATTAATTTAATA
32364282 TTAAATCTTA
Statistics
Matches: 113, Mismatches: 13, Indels: 25
0.75 0.09 0.17
Matches are distributed among these distances:
56 8 0.07
57 1 0.01
58 1 0.01
59 22 0.19
60 2 0.02
61 1 0.01
62 29 0.26
63 24 0.21
64 5 0.04
65 3 0.03
66 4 0.04
67 13 0.12
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.51
Consensus pattern (60 bp):
ATATTAATTTAATAAATTTAATATTAAATTAAATTTAATATTTATCTTGTAATAAATATT
Found at i:32368613 original size:114 final size:113
Alignment explanation
Indices: 32368474--32368751 Score: 418
Period size: 114 Copynumber: 2.4 Consensus size: 113
32368464 CAAAATTTTC
* *
32368474 AAACATCGAATCTTAAGA-TGGTATCGATA-TAGAAGTAAGGTATCAATACCTTAAAGGAAGTAT
1 AAACATTGAAGCTT-AGATTGGTATCGATACTAG-A-TAAGGTATCAATACCTTAAAGGAAGTAT
32368537 CAGTACCTTAAGTCTAGTATCGATACCTTTGGTTTTAAATCAATTTTTCTG
63 CAGTACCTTAAGTCTAGTATCGATACCTTTGGTTTTAAATCAATTTTTCTG
* *
32368588 AAACATTGAAGCTTAGATTGGTATCGGTACTTAGATGAGGTATCAATACCTTAAAGGAAGTATCA
1 AAACATTGAAGCTTAGATTGGTATCGATAC-TAGATAAGGTATCAATACCTTAAAGGAAGTATCA
*
32368653 GTACTTTAAGTCTAGTATCGATACCTTTGGTTTTAAATCAATTTTTCTG
65 GTACCTTAAGTCTAGTATCGATACCTTTGGTTTTAAATCAATTTTTCTG
* * *
32368702 AAACATTGAAGCTTAGATTGGTATCGGTACCTAGAT-GGGTATCGATACCT
1 AAACATTGAAGCTTAGATTGGTATCGATA-CTAGATAAGGTATCAATACCT
32368752 GATCTAGAAT
Statistics
Matches: 153, Mismatches: 7, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
113 15 0.10
114 133 0.87
115 2 0.01
116 3 0.02
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.35
Consensus pattern (113 bp):
AAACATTGAAGCTTAGATTGGTATCGATACTAGATAAGGTATCAATACCTTAAAGGAAGTATCAG
TACCTTAAGTCTAGTATCGATACCTTTGGTTTTAAATCAATTTTTCTG
Found at i:32368742 original size:18 final size:18
Alignment explanation
Indices: 32368715--32368751 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
32368705 CATTGAAGCT
* *
32368715 TAGATTGGTATCGGTACC
1 TAGATGGGTATCGATACC
32368733 TAGATGGGTATCGATACC
1 TAGATGGGTATCGATACC
32368751 T
1 T
32368752 GATCTAGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.32
Consensus pattern (18 bp):
TAGATGGGTATCGATACC
Found at i:32370686 original size:95 final size:95
Alignment explanation
Indices: 32370516--32370719 Score: 300
Period size: 95 Copynumber: 2.1 Consensus size: 95
32370506 GATAGTGCAG
* *
32370516 TTAAAATTGCCAAATCGAATATATATGGTCAAGCCACTATATTGCAGCCAGGCTGCCAGGCAGAA
1 TTAAAA-TGCCAGATCAAATATATATGGTCAAGCCACTATATTGCAGCCAGGCTGCCAGGCAGAA
* *
32370581 ATATGGATAAACCACCATATGGTGAAAATCA
65 ATATGGATAAACAACCATATGGCGAAAATCA
* * *
32370612 TTAAAATGCCAGATCAAATATATATGGTCAAGCCACTATATTGCAGCCATGTTGCCAGGCATAAA
1 TTAAAATGCCAGATCAAATATATATGGTCAAGCCACTATATTGCAGCCAGGCTGCCAGGCAGAAA
* * *
32370677 TGTGGATAAACAACCATATGGCGCAGATCA
66 TATGGATAAACAACCATATGGCGAAAATCA
*
32370707 TTAAACTGCCAGA
1 TTAAAATGCCAGA
32370720 ATCTCCTCCT
Statistics
Matches: 97, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
95 91 0.94
96 6 0.06
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.24
Consensus pattern (95 bp):
TTAAAATGCCAGATCAAATATATATGGTCAAGCCACTATATTGCAGCCAGGCTGCCAGGCAGAAA
TATGGATAAACAACCATATGGCGAAAATCA
Found at i:32372209 original size:36 final size:36
Alignment explanation
Indices: 32372162--32372242 Score: 146
Period size: 36 Copynumber: 2.3 Consensus size: 36
32372152 AGAATAAGGG
32372162 AGTGGAAAACGTGGGTATAGAATTGGGAAAAAAATT
1 AGTGGAAAACGTGGGTATAGAATTGGGAAAAAAATT
32372198 AGTGGAAAACGTGGGTATAGAATTGGGAAAAAAATT
1 AGTGGAAAACGTGGGTATAGAATTGGGAAAAAAATT
*
32372234 A-AGGAAAAC
1 AGTGGAAAAC
32372243 AAATAAATTT
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
35 7 0.16
36 37 0.84
ACGTcount: A:0.47, C:0.04, G:0.30, T:0.20
Consensus pattern (36 bp):
AGTGGAAAACGTGGGTATAGAATTGGGAAAAAAATT
Found at i:32378739 original size:35 final size:35
Alignment explanation
Indices: 32378693--32378763 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
32378683 GAAAAGAACA
32378693 GTTTTTGGGTGGTACAGACAGATAGATAAATGAGG
1 GTTTTTGGGTGGTACAGACAGATAGATAAATGAGG
32378728 GTTTTTGGGTGGTACAGACAGATAGATAAATGAGG
1 GTTTTTGGGTGGTACAGACAGATAGATAAATGAGG
32378763 G
1 G
32378764 CAACAGAAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.31, C:0.06, G:0.35, T:0.28
Consensus pattern (35 bp):
GTTTTTGGGTGGTACAGACAGATAGATAAATGAGG
Found at i:32381549 original size:6 final size:6
Alignment explanation
Indices: 32381539--32381580 Score: 66
Period size: 6 Copynumber: 7.0 Consensus size: 6
32381529 GGGAGTAGTA
* *
32381539 ACTCAA ACTCAA ACTCAC ACTCAC ACTCAC ACTCAC ACTCAC
1 ACTCAC ACTCAC ACTCAC ACTCAC ACTCAC ACTCAC ACTCAC
32381581 TTCACTACAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.38, C:0.45, G:0.00, T:0.17
Consensus pattern (6 bp):
ACTCAC
Found at i:32383737 original size:17 final size:17
Alignment explanation
Indices: 32383710--32383743 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
32383700 ATCATACCAT
32383710 CACCAGAGATATAGAAAA
1 CACCAGAGATAT-GAAAA
32383728 CACC-GAGATATGAAAA
1 CACCAGAGATATGAAAA
32383744 TTTCAATCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 7 0.44
18 4 0.25
ACGTcount: A:0.53, C:0.18, G:0.18, T:0.12
Consensus pattern (17 bp):
CACCAGAGATATGAAAA
Found at i:32385000 original size:31 final size:31
Alignment explanation
Indices: 32384963--32385025 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
32384953 TCTATGGTTG
*
32384963 TATTAAATCATTTAAATATCATTTATTATTA
1 TATTAAATCATTTAAATATAATTTATTATTA
* *
32384994 TATTAAATTATTTAAATATAATTTATTTTTA
1 TATTAAATCATTTAAATATAATTTATTATTA
32385025 T
1 T
32385026 GTTTAAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (31 bp):
TATTAAATCATTTAAATATAATTTATTATTA
Found at i:32385039 original size:31 final size:31
Alignment explanation
Indices: 32384963--32385049 Score: 90
Period size: 31 Copynumber: 2.8 Consensus size: 31
32384953 TCTATGGTTG
*
32384963 TATT-AAATCATTTAAATATCATTTATTATTA
1 TATTAAAAT-ATTTAAATATAATTTATTATTA
* *
32384994 TATTAAATTATTTAAATATAATTTATTTTTA
1 TATTAAAATATTTAAATATAATTTATTATTA
* *
32385025 TGTTTAAAAT-TTTAAA-ATATTTTAT
1 T-ATTAAAATATTTAAATATAATTTAT
32385050 GTATCATTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
30 8 0.17
31 31 0.65
32 9 0.19
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.55
Consensus pattern (31 bp):
TATTAAAATATTTAAATATAATTTATTATTA
Found at i:32395034 original size:26 final size:25
Alignment explanation
Indices: 32394982--32395035 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
32394972 TTATATAAAA
32394982 AAAATTAATAAATAAAAAAAATGTAT
1 AAAATTAATAAATAAAAAAAA-GTAT
*
32395008 AAAATTATTAAATAATAAAATAA-TAT
1 AAAATTAATAAATAA-AAAA-AAGTAT
32395034 AA
1 AA
32395036 TCTAAATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 19 0.76
27 4 0.16
28 2 0.08
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.30
Consensus pattern (25 bp):
AAAATTAATAAATAAAAAAAAGTAT
Found at i:32396046 original size:41 final size:41
Alignment explanation
Indices: 32396002--32396414 Score: 471
Period size: 41 Copynumber: 10.1 Consensus size: 41
32395992 CAAAAATTGT
* **
32396002 AAAACACAGAGCAATAGCGGCG-TTTTACCAAAAGCGCCGCTA
1 AAAAC-CAGAGCATTAGCGGCGCTTTTAGTAAAA-CGCCGCTA
** * * *
32396044 AAAA-TGGAGCAATAGAGGCG-TTTTAGTAAAAAACACCGCTA
1 AAAACCAGAGCATTAGCGGCGCTTTTAGT--AAAACGCCGCTA
*
32396085 AAAA-CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
1 AAAACCAGAGCATTAGCGGCGCTTTTAGTAAAACGCCGCTA
* * *
32396125 ATAACCAGAGCATTGGCGGCGCTTTTGGTAAAACGCCGCTA
1 AAAACCAGAGCATTAGCGGCGCTTTTAGTAAAACGCCGCTA
* * *
32396166 AAAACCAGAGCATTGGCGGCGCTTTTGGTAAAACG-CACTA
1 AAAACCAGAGCATTAGCGGCGCTTTTAGTAAAACGCCGCTA
* *
32396206 AAAACCAGAGCATTGGCGGCGATTTT-GATAAAACGCCGCTA
1 AAAACCAGAGCATTAGCGGCGCTTTTAG-TAAAACGCCGCTA
* * *
32396247 AAAATCAGAGCATTAGCGGCGCTTTTCGTAAAACGCCGCAA
1 AAAACCAGAGCATTAGCGGCGCTTTTAGTAAAACGCCGCTA
* *
32396288 AAAACCAGAGCATTGGCTGCGCTTTT-GATAAAACGCCGCTA
1 AAAACCAGAGCATTAGCGGCGCTTTTAG-TAAAACGCCGCTA
* *
32396329 AAAACCAGAGCATTAGCGGCACTTTTTGATAAAACGCCGCTA
1 AAAACCAGAGCATTAGCGGCGCTTTTAG-TAAAACGCCGCTA
* **
32396371 AAAACCAGATCATTAGCGGCGCTTTCGGTAAAACGCCGCTA
1 AAAACCAGAGCATTAGCGGCGCTTTTAGTAAAACGCCGCTA
32396412 AAA
1 AAA
32396415 GTCATATAAC
Statistics
Matches: 329, Mismatches: 33, Indels: 19
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.00
40 69 0.21
41 205 0.62
42 54 0.16
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.20
Consensus pattern (41 bp):
AAAACCAGAGCATTAGCGGCGCTTTTAGTAAAACGCCGCTA
Found at i:32396225 original size:122 final size:123
Alignment explanation
Indices: 32396073--32396414 Score: 517
Period size: 122 Copynumber: 2.8 Consensus size: 123
32396063 GTTTTAGTAA
* * * *
32396073 AAAACACCGCTAAAAA-CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAATAACCAGAGCA
1 AAAACGCCACTAAAAACCAGAGCATTAGCGGCGCTTTTGATAAAACGCCGCTAAAAACCAGAGCA
* *
32396137 TTGGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCATTGGCGGCGCTTTTGGT
66 TTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCATTGGCGGCGCTTTTGAT
* * *
32396195 AAAACG-CACTAAAAACCAGAGCATTGGCGGCGATTTTGATAAAACGCCGCTAAAAATCAGAGCA
1 AAAACGCCACTAAAAACCAGAGCATTAGCGGCGCTTTTGATAAAACGCCGCTAAAAACCAGAGCA
* * *
32396259 TTAGCGGCGCTTTTCGTAAAACGCCGCAAAAAACCAGAGCATTGGCTGCGCTTTTGAT
66 TTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCATTGGCGGCGCTTTTGAT
* * *
32396317 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCACTTTTTGATAAAACGCCGCTAAAAACCAGATC
1 AAAACGCCACTAAAAACCAGAGCATTAGCGGCGC-TTTTGATAAAACGCCGCTAAAAACCAGAGC
*
32396382 ATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAA
65 ATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAA
32396415 GTCATATAAC
Statistics
Matches: 196, Mismatches: 21, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
121 8 0.04
122 107 0.55
123 23 0.12
124 58 0.30
ACGTcount: A:0.34, C:0.24, G:0.23, T:0.20
Consensus pattern (123 bp):
AAAACGCCACTAAAAACCAGAGCATTAGCGGCGCTTTTGATAAAACGCCGCTAAAAACCAGAGCA
TTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCATTGGCGGCGCTTTTGAT
Found at i:32396593 original size:7 final size:7
Alignment explanation
Indices: 32396577--32396679 Score: 53
Period size: 7 Copynumber: 14.1 Consensus size: 7
32396567 TATCATTATA
32396577 GTTTAAG
1 GTTTAAG
*
32396584 GTTTATG
1 GTTTAAG
32396591 GTTTAAG
1 GTTTAAG
* * *
32396598 ATATATG
1 GTTTAAG
*
32396605 ATTTAAG
1 GTTTAAG
32396612 GTTTAAG
1 GTTTAAG
*
32396619 GTTTAGG
1 GTTTAAG
**
32396626 AGTTAGCTGTG
1 -GTT---TAAG
32396637 GTTTAAG
1 GTTTAAG
* * *
32396644 ATATATG
1 GTTTAAG
* *
32396651 ATTTAGG
1 GTTTAAG
32396658 GTTTAAG
1 GTTTAAG
32396665 GTTTAAG
1 GTTTAAG
32396672 GTTTAAG
1 GTTTAAG
32396679 G
1 G
32396680 GTTATGAGTT
Statistics
Matches: 72, Mismatches: 20, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
7 64 0.89
8 3 0.04
10 3 0.04
11 2 0.03
ACGTcount: A:0.28, C:0.01, G:0.28, T:0.43
Consensus pattern (7 bp):
GTTTAAG
Found at i:32396614 original size:21 final size:21
Alignment explanation
Indices: 32396585--32396664 Score: 70
Period size: 21 Copynumber: 3.6 Consensus size: 21
32396575 TAGTTTAAGG
32396585 TTTATGGTTTAAGATATATGA
1 TTTATGGTTTAAGATATATGA
* * * *
32396606 TTTAAGGTTTAAGGTTTAGGA
1 TTTATGGTTTAAGATATATGA
*
32396627 GTTAGCTGTGGTTTAAGATATATGA
1 -TT---TATGGTTTAAGATATATGA
*
32396652 TTTAGGGTTTAAG
1 TTTATGGTTTAAG
32396665 GTTTAAGGTT
Statistics
Matches: 44, Mismatches: 11, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
21 26 0.59
22 2 0.05
24 2 0.05
25 14 0.32
ACGTcount: A:0.29, C:0.01, G:0.26, T:0.44
Consensus pattern (21 bp):
TTTATGGTTTAAGATATATGA
Found at i:32396679 original size:14 final size:14
Alignment explanation
Indices: 32396572--32396676 Score: 66
Period size: 14 Copynumber: 7.2 Consensus size: 14
32396562 TTAATTATCA
*
32396572 TTATAGTTTAAGGT
1 TTATGGTTTAAGGT
*
32396586 TTATGGTTTAAGAT
1 TTATGGTTTAAGGT
* *
32396600 ATATGATTTAAGGT
1 TTATGGTTTAAGGT
* *
32396614 TTAAGGTTTAGGAGT
1 TTATGGTTTAAG-GT
* *
32396629 TAGCTGTGGTTTAAGAT
1 T---TATGGTTTAAGGT
* * *
32396646 ATATGATTTAGGGT
1 TTATGGTTTAAGGT
*
32396660 TTAAGGTTTAAGGT
1 TTATGGTTTAAGGT
32396674 TTA
1 TTA
32396677 AGGGTTATGA
Statistics
Matches: 65, Mismatches: 22, Indels: 8
0.68 0.23 0.08
Matches are distributed among these distances:
14 53 0.82
15 3 0.05
17 1 0.02
18 8 0.12
ACGTcount: A:0.29, C:0.01, G:0.26, T:0.45
Consensus pattern (14 bp):
TTATGGTTTAAGGT
Found at i:32396808 original size:21 final size:22
Alignment explanation
Indices: 32396768--32396816 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
32396758 TTGGAGTTTA
*
32396768 AAGTG-TAAGGGTTTTGGGGTT
1 AAGTGTTAAGGGTTTTAGGGTT
32396789 AAGTGTTAAGGG-TTTAGGGTT
1 AAGTGTTAAGGGTTTTAGGGTT
*
32396810 TAGTGTT
1 AAGTGTT
32396817 TATGAGGCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 19 0.76
22 6 0.24
ACGTcount: A:0.20, C:0.00, G:0.39, T:0.41
Consensus pattern (22 bp):
AAGTGTTAAGGGTTTTAGGGTT
Found at i:32401399 original size:19 final size:19
Alignment explanation
Indices: 32401377--32401417 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
32401367 TTTATTGATA
32401377 TTTTTA-TATTTAATCTAG
1 TTTTTATTATTTAATCTAG
* *
32401395 TTTTTATTATTTATTTTAG
1 TTTTTATTATTTAATCTAG
32401414 TTTT
1 TTTT
32401418 GACTCTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.71
Consensus pattern (19 bp):
TTTTTATTATTTAATCTAG
Found at i:32401728 original size:43 final size:43
Alignment explanation
Indices: 32401667--32401770 Score: 163
Period size: 43 Copynumber: 2.4 Consensus size: 43
32401657 TTTTTGAATT
* * * *
32401667 TCATGACCTTTAGTGGCGTTTTTGGGAAAAGCGTCGCTAAAGG
1 TCATGGCCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGG
32401710 TCATGGCCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGG
1 TCATGGCCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGG
*
32401753 TCATGGCTTTTAGCGGCG
1 TCATGGCCTTTAGCGGCG
32401771 GCGGAAATAG
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 56 1.00
ACGTcount: A:0.20, C:0.19, G:0.33, T:0.28
Consensus pattern (43 bp):
TCATGGCCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGG
Found at i:32401957 original size:22 final size:22
Alignment explanation
Indices: 32401929--32401975 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
32401919 TTCCATATAA
32401929 TTTCACTTACAAATGAATACAC
1 TTTCACTTACAAATGAATACAC
32401951 TTTCACTTACAAATGAATACAC
1 TTTCACTTACAAATGAATACAC
32401973 TTT
1 TTT
32401976 TCCAAACATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.38, C:0.21, G:0.04, T:0.36
Consensus pattern (22 bp):
TTTCACTTACAAATGAATACAC
Found at i:32403821 original size:17 final size:17
Alignment explanation
Indices: 32403799--32403844 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
32403789 ATGACGATAG
32403799 AAAATA-ACAATATACAT
1 AAAATATAC-ATATACAT
32403816 AAAATATACATATACAT
1 AAAATATACATATACAT
*
32403833 ATATATATACAT
1 A-AAATATACAT
32403845 GGCATACATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (17 bp):
AAAATATACATATACAT
Found at i:32404691 original size:3 final size:3
Alignment explanation
Indices: 32404685--32404717 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
32404675 CATATACTAG
32404685 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
32404718 CATAAAGTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:32406918 original size:74 final size:74
Alignment explanation
Indices: 32406656--32407112 Score: 500
Period size: 74 Copynumber: 6.2 Consensus size: 74
32406646 TGAAACTTAA
* * * *
32406656 TTTGAAA-AGCAGAATTTGAAAATACCTCGACATGTGATC-CGAGGCTCCACTCACCTCTTGCAA
1 TTTGAAAGA-CAGAAATTGAAAATACCTC-A-ACGTG-TCTTGAGGCTCAACTCACCTCTTGCAA
32406719 TATGAGTTGA--T
62 TATGAGTTGATTT
* * * * * * *
32406730 TTTAAAAAACGGAGA-TCAAAATTACCTCAACGTGTCCTGAGGCTCAACTTACCTCTTGCAATAT
1 TTTGAAAGACAGAAATTGAAAA-TACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATAT
32406794 GAGTTGATTAT
65 GAGTTGATT-T
* * * * *
32406805 TTTGAAAGACAGAAATTTAAATTACCTCAGCGTGTCTTGAGGCTCAACTTACCTCTCGCAATATG
1 TTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATG
32406870 AGTTGATTT
66 AGTTGATTT
* *
32406879 TTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACTTCTTGCAGTATG
1 TTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATG
*
32406944 AGTTGAATT
66 AGTTGATTT
* *
32406953 TTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACTTCTTGCAGTATG
1 TTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATG
*
32407018 AGTTGA-AT
66 AGTTGATTT
* * * *** * *
32407026 TTTG-AA-ACAGAAA-TAAAAACTATCTCAGCGTGTCCCAAGGCTCAATTCACCTCTCGCAATAT
1 TTTGAAAGACAGAAATTGAAAA-TACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATAT
32407088 GAGTTGATTTTT
65 GAGTTGA--TTT
32407100 TTTGAAAGACAGA
1 TTTGAAAGACAGA
32407113 GCGTGTCCTG
Statistics
Matches: 332, Mismatches: 38, Indels: 24
0.84 0.10 0.06
Matches are distributed among these distances:
70 5 0.02
71 49 0.15
72 37 0.11
73 11 0.03
74 158 0.48
75 63 0.19
76 9 0.03
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (74 bp):
TTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATG
AGTTGATTT
Found at i:32407145 original size:60 final size:59
Alignment explanation
Indices: 32407052--32407171 Score: 186
Period size: 60 Copynumber: 2.0 Consensus size: 59
32407042 AAACTATCTC
* *
32407052 AGCGTGTCCCAAGGCTCAATTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAG
1 AGCGTGTCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA-ATTTTTTGAAAGACAG
** *
32407112 AGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTGAAAGGCAG
1 AGCGTGTCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTGAAAGACAG
32407171 A
1 A
32407172 AATTGAAAAT
Statistics
Matches: 55, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
59 15 0.27
60 40 0.73
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (59 bp):
AGCGTGTCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTGAAAGACAG
Found at i:32419404 original size:17 final size:17
Alignment explanation
Indices: 32419382--32419427 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
32419372 ATGACGATAG
32419382 AAAATA-ACAATATACAT
1 AAAATATAC-ATATACAT
32419399 AAAATATACATATACAT
1 AAAATATACATATACAT
*
32419416 ATATATATACAT
1 A-AAATATACAT
32419428 GGCATACATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (17 bp):
AAAATATACATATACAT
Found at i:32420088 original size:28 final size:30
Alignment explanation
Indices: 32420029--32420097 Score: 79
Period size: 28 Copynumber: 2.4 Consensus size: 30
32420019 GAAAATAATA
** * *
32420029 AATAAAATATGGTATTAAGAGTATACATAT
1 AATAAAATATAATATTAAAAGTATACACAT
*
32420059 -A-AAAATATAATATTAAAAGTATATACAT
1 AATAAAATATAATATTAAAAGTATACACAT
32420087 AATAAAATATA
1 AATAAAATATA
32420098 GAAATATAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
28 22 0.69
29 2 0.06
30 8 0.25
ACGTcount: A:0.58, C:0.03, G:0.07, T:0.32
Consensus pattern (30 bp):
AATAAAATATAATATTAAAAGTATACACAT
Found at i:32420261 original size:3 final size:3
Alignment explanation
Indices: 32420253--32420296 Score: 65
Period size: 3 Copynumber: 15.3 Consensus size: 3
32420243 ATATACACAT
*
32420253 ATA ATA ATA ATA ATA AT- ATA ATA ATA ATA A-C ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
32420297 CATAAAGTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
2 3 0.08
3 34 0.92
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:32420273 original size:17 final size:16
Alignment explanation
Indices: 32420251--32420296 Score: 65
Period size: 17 Copynumber: 2.8 Consensus size: 16
32420241 ATATATACAC
32420251 ATATAATAATAATAATA
1 ATATAATAATAATAA-A
*
32420268 ATATAATAATAATAAC
1 ATATAATAATAATAAA
32420284 ATAATAATAATAA
1 AT-ATAATAATAA
32420297 CATAAAGTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 2 0.07
17 25 0.93
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (16 bp):
ATATAATAATAATAAA
Found at i:32420275 original size:14 final size:14
Alignment explanation
Indices: 32420256--32420301 Score: 83
Period size: 14 Copynumber: 3.3 Consensus size: 14
32420246 TACACATATA
*
32420256 ATAATAATAATAAT
1 ATAATAATAATAAC
32420270 ATAATAATAATAAC
1 ATAATAATAATAAC
32420284 ATAATAATAATAAC
1 ATAATAATAATAAC
32420298 ATAA
1 ATAA
32420302 AGTAATGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.30
Consensus pattern (14 bp):
ATAATAATAATAAC
Found at i:32420301 original size:11 final size:10
Alignment explanation
Indices: 32420253--32420293 Score: 57
Period size: 11 Copynumber: 4.0 Consensus size: 10
32420243 ATATACACAT
32420253 ATAATAAT-A
1 ATAATAATAA
32420262 ATAATAATATA
1 ATAATAATA-A
32420273 ATAATAATAA
1 ATAATAATAA
32420283 CATAATAATAA
1 -ATAATAATAA
32420294 TAACATAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
9 8 0.28
10 1 0.03
11 20 0.69
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (10 bp):
ATAATAATAA
Found at i:32420864 original size:12 final size:10
Alignment explanation
Indices: 32420837--32420861 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
32420827 CGGCCACCGT
32420837 TATATGTGTA
1 TATATGTGTA
32420847 TATATGTGTA
1 TATATGTGTA
32420857 TATAT
1 TATAT
32420862 ATGCACCGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (10 bp):
TATATGTGTA
Found at i:32422600 original size:47 final size:47
Alignment explanation
Indices: 32422549--32422643 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
32422539 AGTCCTTTAC
32422549 TTTTAGAAGAGCCATTGTTCTTTTCTTTGTTTTTTTAACTTTTGTTT
1 TTTTAGAAGAGCCATTGTTCTTTTCTTTGTTTTTTTAACTTTTGTTT
*
32422596 TTTTAGAAGAGCCATTGTTCTTTTCTTTTTTTTTTTAACTTTTGTTT
1 TTTTAGAAGAGCCATTGTTCTTTTCTTTGTTTTTTTAACTTTTGTTT
32422643 T
1 T
32422644 GAGTTAAAGG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.15, C:0.11, G:0.12, T:0.63
Consensus pattern (47 bp):
TTTTAGAAGAGCCATTGTTCTTTTCTTTGTTTTTTTAACTTTTGTTT
Found at i:32428404 original size:26 final size:26
Alignment explanation
Indices: 32428328--32428414 Score: 86
Period size: 26 Copynumber: 3.1 Consensus size: 26
32428318 TATCTTCAAT
*
32428328 AAACTTACATTTTCATTTAAGTTATC
1 AAACTTACATTTTTATTTAAGTTATC
*
32428354 AAACTATTAGAAAATTTGATT-TTTAAGTTATC
1 AAAC--TT---ACATTT--TTATTTAAGTTATC
32428386 AAACTTACATTTTTATTTAAGTTATC
1 AAACTTACATTTTTATTTAAGTTATC
32428412 AAA
1 AAA
32428415 TGATTTTTAA
Statistics
Matches: 50, Mismatches: 3, Indels: 16
0.72 0.04 0.23
Matches are distributed among these distances:
25 2 0.04
26 18 0.36
27 5 0.10
28 2 0.04
30 2 0.04
31 5 0.10
32 15 0.30
33 1 0.02
ACGTcount: A:0.39, C:0.10, G:0.06, T:0.45
Consensus pattern (26 bp):
AAACTTACATTTTTATTTAAGTTATC
Found at i:32431238 original size:86 final size:86
Alignment explanation
Indices: 32431093--32431264 Score: 299
Period size: 86 Copynumber: 2.0 Consensus size: 86
32431083 AAAAATTAGC
* *
32431093 TTGGTTGACGAAATAACTAGACAGTGACATGTGACGTGTCACGTGTACCTCATGTTGACGTACAT
1 TTGGTTGACGAAATAACTAGACAATGACATGTGACGTGTCACGTATACCTCATGTTGACGTACAT
*
32431158 AGGCCAATTTTAATAACATAA
66 AGACCAATTTTAATAACATAA
* *
32431179 TTGGTTGACGAAATAACTAGACAATGACATGTGACGTGTCCCGTATACCTTATGTTGACGTACAT
1 TTGGTTGACGAAATAACTAGACAATGACATGTGACGTGTCACGTATACCTCATGTTGACGTACAT
32431244 AGACCAATTTTAATAACATAA
66 AGACCAATTTTAATAACATAA
32431265 ATGGATAAAA
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
86 81 1.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (86 bp):
TTGGTTGACGAAATAACTAGACAATGACATGTGACGTGTCACGTATACCTCATGTTGACGTACAT
AGACCAATTTTAATAACATAA
Found at i:32436390 original size:44 final size:43
Alignment explanation
Indices: 32436322--32436483 Score: 145
Period size: 42 Copynumber: 3.8 Consensus size: 43
32436312 CGTTATGTGA
* *
32436322 TTTCATGTAAGACTACGTCTGGGACATTGACATCGACTTCTGTT
1 TTTCATGTAAGACCACGTCTGGGACATTGGCATCGA-TTCTGTT
* * * *
32436366 TTTCGTGTAAGACCATGTCTGGGACATCGGCATCG-TATCTG-A
1 TTTCATGTAAGACCACGTCTGGGACATTGGCATCGAT-TCTGTT
* * * *
32436408 CTTCGTGTAAAACC-CTGTCTGGGACAATGGCATCGATT-T-TT
1 TTTCATGTAAGACCAC-GTCTGGGACATTGGCATCGATTCTGTT
*
32436449 TATTACATTTAAGACCACGTCTGGGACATTGGCAT
1 T-TT-CATGTAAGACCACGTCTGGGACATTGGCAT
32436484 TGTATATGTT
Statistics
Matches: 94, Mismatches: 17, Indels: 15
0.75 0.13 0.12
Matches are distributed among these distances:
41 1 0.01
42 33 0.35
43 29 0.31
44 31 0.33
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.33
Consensus pattern (43 bp):
TTTCATGTAAGACCACGTCTGGGACATTGGCATCGATTCTGTT
Found at i:32437493 original size:27 final size:27
Alignment explanation
Indices: 32437445--32437603 Score: 191
Period size: 27 Copynumber: 5.9 Consensus size: 27
32437435 GCGAGGCTGC
* * *
32437445 CAGATATTGTGACGGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
32437472 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
32437498 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
32437525 CAGATAATTGTGGCATAGCCACGAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
32437552 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
32437579 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
32437604 GACGCTTCCT
Statistics
Matches: 115, Mismatches: 10, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
26 10 0.09
27 101 0.88
28 4 0.03
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:32437606 original size:54 final size:54
Alignment explanation
Indices: 32437445--32437606 Score: 247
Period size: 54 Copynumber: 3.0 Consensus size: 54
32437435 GCGAGGCTGC
* * * * *
32437445 CAGATAT-TGTGACGGAGTCACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAA
1 CAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAGGA
*
32437498 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACGAGGA
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
32437552 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
32437606 C
1 C
32437607 GCTTCCTCCA
Statistics
Matches: 100, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
53 12 0.12
54 88 0.88
ACGTcount: A:0.33, C:0.22, G:0.27, T:0.19
Consensus pattern (54 bp):
CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
Found at i:32437752 original size:26 final size:27
Alignment explanation
Indices: 32437707--32437782 Score: 84
Period size: 26 Copynumber: 2.8 Consensus size: 27
32437697 CAAAATTAAC
*
32437707 CCTAGGGGTATAACT-GTAATTTTGC-A
1 CCTAGGGGTATAA-TAGTAATTTTCCAA
*
32437733 CCTAGGGGTATAATAATAATTTTCCATA
1 CCTAGGGGTATAATAGTAATTTTCCA-A
* *
32437761 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATAATAGTAATTT
32437783 AGCTGCTTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
25 1 0.02
26 21 0.50
28 20 0.48
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.37
Consensus pattern (27 bp):
CCTAGGGGTATAATAGTAATTTTCCAA
Found at i:32439255 original size:26 final size:26
Alignment explanation
Indices: 32439224--32439331 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
32439214 TGAAATGTCC
*
32439224 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
32439250 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
32439276 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
32439302 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
32439328 ATCA
1 ATCA
32439332 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:32444650 original size:27 final size:27
Alignment explanation
Indices: 32444602--32444759 Score: 153
Period size: 27 Copynumber: 5.9 Consensus size: 27
32444592 GCGAGGCTGC
* * *
32444602 CAGATATTGTGACGGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
*
32444629 CAAATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
32444655 CAGTTATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * * *
32444682 TAGATAATTGTGGCATAGCCACGAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
32444709 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
32444736 CAGATAATTGTGGGATAGCCACCA
1 CAGAT-ATTGTGGCAGAGCCACCA
32444760 AGACGCTTCC
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
26 8 0.07
27 95 0.89
28 4 0.04
ACGTcount: A:0.34, C:0.20, G:0.26, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:32444702 original size:54 final size:54
Alignment explanation
Indices: 32444602--32444759 Score: 203
Period size: 54 Copynumber: 2.9 Consensus size: 54
32444592 GCGAGGCTGC
* * * * *
32444602 CAGATAT-TGTGACGGAGTCACCAGATACAAAT-ATTGTGGCAGAGCCACCAGAA
1 CAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAGAA
* * * *
32444655 CAGTTATATGTGGCAGAGCCACCAGATTAGATAATTGTGGCATAGCCACGAGGA
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGAA
*
32444709 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGGATAGCCACCA
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCA
32444760 AGACGCTTCC
Statistics
Matches: 90, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
53 9 0.10
54 81 0.90
ACGTcount: A:0.34, C:0.20, G:0.26, T:0.20
Consensus pattern (54 bp):
CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGAA
Found at i:32444894 original size:27 final size:28
Alignment explanation
Indices: 32444864--32444928 Score: 89
Period size: 26 Copynumber: 2.4 Consensus size: 28
32444854 CAAAATTAAC
32444864 CTTAGGGGTATAACAATAATTTTGCAT-
1 CTTAGGGGTATAACAATAATTTTGCATA
* *
32444891 CTTA-GGGTATAACAGTAATTTTTCATA
1 CTTAGGGGTATAACAATAATTTTGCATA
*
32444918 CATAGGGGTAT
1 CTTAGGGGTAT
32444929 TATAGTAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 20 0.61
27 7 0.21
28 6 0.18
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.37
Consensus pattern (28 bp):
CTTAGGGGTATAACAATAATTTTGCATA
Found at i:32446413 original size:26 final size:26
Alignment explanation
Indices: 32446382--32446489 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
32446372 TGAAATGCCC
*
32446382 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
32446408 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
32446434 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
32446460 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
32446486 ATCA
1 ATCA
32446490 ATTTGTACCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:32449629 original size:16 final size:16
Alignment explanation
Indices: 32449604--32449670 Score: 53
Period size: 16 Copynumber: 3.8 Consensus size: 16
32449594 TATAATCGTG
32449604 TTTAAGTTGTTGTGTA
1 TTTAAGTTGTTGTGTA
* *
32449620 TTTAATTTGTTGTTATATCGTG
1 TTTAA---GTTG-T-TGT-GTA
32449642 TTTAAGTTGTTGTGTA
1 TTTAAGTTGTTGTGTA
*
32449658 TTTAATTTGTTGT
1 TTTAAGTTGTTGT
32449671 TATATATGTG
Statistics
Matches: 40, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
16 19 0.47
17 2 0.05
18 1 0.03
19 8 0.20
20 1 0.03
21 2 0.05
22 7 0.17
ACGTcount: A:0.18, C:0.01, G:0.21, T:0.60
Consensus pattern (16 bp):
TTTAAGTTGTTGTGTA
Found at i:32449640 original size:38 final size:38
Alignment explanation
Indices: 32449598--32449688 Score: 157
Period size: 38 Copynumber: 2.4 Consensus size: 38
32449588 ATATGGTATA
32449598 ATCGTGTTTAAGTTGTTGTGTATTTAATTTGTTGTTAT
1 ATCGTGTTTAAGTTGTTGTGTATTTAATTTGTTGTTAT
32449636 ATCGTGTTTAAGTTGTTGTGTATTTAATTTGTTGTTAT
1 ATCGTGTTTAAGTTGTTGTGTATTTAATTTGTTGTTAT
*
32449674 ATATGTGTTT-AGTTG
1 AT-CGTGTTTAAGTTG
32449689 AGAAATGGTA
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
38 45 0.88
39 6 0.12
ACGTcount: A:0.19, C:0.02, G:0.22, T:0.57
Consensus pattern (38 bp):
ATCGTGTTTAAGTTGTTGTGTATTTAATTTGTTGTTAT
Found at i:32468033 original size:385 final size:385
Alignment explanation
Indices: 32467323--32468093 Score: 1542
Period size: 385 Copynumber: 2.0 Consensus size: 385
32467313 TGGGATGATA
32467323 TTGAACCCCTTGATGAGCCAAAGCCTTCTTCAGCTTTGGCAAATATTCAGGCAGCTCAGAAGCGT
1 TTGAACCCCTTGATGAGCCAAAGCCTTCTTCAGCTTTGGCAAATATTCAGGCAGCTCAGAAGCGT
32467388 CCTGTTTCACAACCAGTTTCACAGCCTAAACCACAAGGTAGTATTCTCCATTCAATTCTGGAATG
66 CCTGTTTCACAACCAGTTTCACAGCCTAAACCACAAGGTAGTATTCTCCATTCAATTCTGGAATG
32467453 TAGGAATTAAACCTCTAGTCTTAATGTTTATGGTCCAAGATGGGAAAATATGTGATGCATTTACA
131 TAGGAATTAAACCTCTAGTCTTAATGTTTATGGTCCAAGATGGGAAAATATGTGATGCATTTACA
32467518 TTTTTCTATATGCATGAACAGTCATTGTAAACAAGTTAAAATTAGTTGAATAAGGATGTGAATAA
196 TTTTTCTATATGCATGAACAGTCATTGTAAACAAGTTAAAATTAGTTGAATAAGGATGTGAATAA
32467583 CCATAGATGATCTAGATTTTCCCTTAATCTCTGGCCAAAAAACAAAAAAATAGTTGCTCTTAATC
261 CCATAGATGATCTAGATTTTCCCTTAATCTCTGGCCAAAAAACAAAAAAATAGTTGCTCTTAATC
32467648 AGAAATTTGTCATTATTTAAAGTTTTCTTCAATGAGTGCTCCAAGGGCTCTCGTTAAAAT
326 AGAAATTTGTCATTATTTAAAGTTTTCTTCAATGAGTGCTCCAAGGGCTCTCGTTAAAAT
32467708 TTGAACCCCTTGATGAGCCAAAGCCTTCTTCAGCTTTGGCAAATATTCAGGCAGCTCAGAAGCGT
1 TTGAACCCCTTGATGAGCCAAAGCCTTCTTCAGCTTTGGCAAATATTCAGGCAGCTCAGAAGCGT
32467773 CCTGTTTCACAACCAGTTTCACAGCCTAAACCACAAGGTAGTATTCTCCATTCAATTCTGGAATG
66 CCTGTTTCACAACCAGTTTCACAGCCTAAACCACAAGGTAGTATTCTCCATTCAATTCTGGAATG
32467838 TAGGAATTAAACCTCTAGTCTTAATGTTTATGGTCCAAGATGGGAAAATATGTGATGCATTTACA
131 TAGGAATTAAACCTCTAGTCTTAATGTTTATGGTCCAAGATGGGAAAATATGTGATGCATTTACA
32467903 TTTTTCTATATGCATGAACAGTCATTGTAAACAAGTTAAAATTAGTTGAATAAGGATGTGAATAA
196 TTTTTCTATATGCATGAACAGTCATTGTAAACAAGTTAAAATTAGTTGAATAAGGATGTGAATAA
32467968 CCATAGATGATCTAGATTTTCCCTTAATCTCTGGCCAAAAAACAAAAAAATAGTTGCTCTTAATC
261 CCATAGATGATCTAGATTTTCCCTTAATCTCTGGCCAAAAAACAAAAAAATAGTTGCTCTTAATC
32468033 AGAAATTTGTCATTATTTAAAGTTTTCTTCAATGAGTGCTCCAAGGGCTCTCGTTAAAAT
326 AGAAATTTGTCATTATTTAAAGTTTTCTTCAATGAGTGCTCCAAGGGCTCTCGTTAAAAT
32468093 T
1 T
32468094 ACTGTATGTA
Statistics
Matches: 386, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
385 386 1.00
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (385 bp):
TTGAACCCCTTGATGAGCCAAAGCCTTCTTCAGCTTTGGCAAATATTCAGGCAGCTCAGAAGCGT
CCTGTTTCACAACCAGTTTCACAGCCTAAACCACAAGGTAGTATTCTCCATTCAATTCTGGAATG
TAGGAATTAAACCTCTAGTCTTAATGTTTATGGTCCAAGATGGGAAAATATGTGATGCATTTACA
TTTTTCTATATGCATGAACAGTCATTGTAAACAAGTTAAAATTAGTTGAATAAGGATGTGAATAA
CCATAGATGATCTAGATTTTCCCTTAATCTCTGGCCAAAAAACAAAAAAATAGTTGCTCTTAATC
AGAAATTTGTCATTATTTAAAGTTTTCTTCAATGAGTGCTCCAAGGGCTCTCGTTAAAAT
Found at i:32476425 original size:32 final size:32
Alignment explanation
Indices: 32476388--32476452 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
32476378 AAGAAGAGAC
32476388 AAAAATTTAAAAATTAAAATATATTTTAAGTA
1 AAAAATTTAAAAATTAAAATATATTTTAAGTA
32476420 AAAAATTTAAAAATTAAAATATATTTTAAGTA
1 AAAAATTTAAAAATTAAAATATATTTTAAGTA
32476452 A
1 A
32476453 TTTTTGTAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (32 bp):
AAAAATTTAAAAATTAAAATATATTTTAAGTA
Found at i:32476712 original size:19 final size:19
Alignment explanation
Indices: 32476688--32476724 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
32476678 GATTTGATTA
32476688 AATAAATTATTTAAAAAAT
1 AATAAATTATTTAAAAAAT
32476707 AATAAATTATTTAAAAAA
1 AATAAATTATTTAAAAAA
32476725 AACTACTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
AATAAATTATTTAAAAAAT
Found at i:32481278 original size:15 final size:15
Alignment explanation
Indices: 32481258--32481287 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
32481248 CTTTTTTGGC
*
32481258 CGATTTGCTTTCTGT
1 CGATTTGCTCTCTGT
32481273 CGATTTGCTCTCTGT
1 CGATTTGCTCTCTGT
32481288 TTTACCCTCC
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:0.07, C:0.23, G:0.20, T:0.50
Consensus pattern (15 bp):
CGATTTGCTCTCTGT
Found at i:32485827 original size:91 final size:91
Alignment explanation
Indices: 32485689--32485896 Score: 335
Period size: 91 Copynumber: 2.3 Consensus size: 91
32485679 TTGATTTTAG
* *
32485689 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* * *
32485754 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
*
32485781 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
32485846 TGTAATAATAATTATTTTAAATTATA
66 TGTAATAATAATTATTTTAAATTATA
* *
32485872 CAAATTCATATAAGATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
32485897 GTTATAATTA
Statistics
Matches: 108, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
91 92 0.85
92 16 0.15
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:32485865 original size:26 final size:28
Alignment explanation
Indices: 32485811--32485871 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
32485801 TATTATCAAG
* *
32485811 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
32485839 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
32485865 AATTATA
1 AATTATA
32485872 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:32485871 original size:44 final size:43
Alignment explanation
Indices: 32485729--32485871 Score: 121
Period size: 44 Copynumber: 3.2 Consensus size: 43
32485719 GAATTTTATG
* *
32485729 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
1 AAATTATATATTATTATTAAATTATA-TTAATAATAATTATTTT
* ** * *
32485773 AAATTGTATAAATTCATATAAGAAAATT-TATT-ATCAAGAATT-TTATG
1 AAA-T-TATATATT-AT-T-ATTAAATTATATTAAT-AATAATTATT-TT
32485820 AAATTATATATTATTATTAAATTATATGTAATAATAATTATTTT
1 AAATTATATATTATTATTAAATTATAT-TAATAATAATTATTTT
32485864 AAATTATA
1 AAATTATA
32485872 CAAATTCATA
Statistics
Matches: 76, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
42 6 0.08
43 4 0.05
44 21 0.28
45 12 0.16
46 11 0.14
47 13 0.17
48 3 0.04
49 6 0.08
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.48
Consensus pattern (43 bp):
AAATTATATATTATTATTAAATTATATTAATAATAATTATTTT
Found at i:32485989 original size:59 final size:57
Alignment explanation
Indices: 32485923--32486111 Score: 152
Period size: 59 Copynumber: 3.2 Consensus size: 57
32485913 ATTTTATTAA
32485923 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTAT-TTTTATAGT
* * ** * *
32485982 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATT-TTATTA-A--
1 ATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTA-AATTATTTTTATAGT
* * * *
32486043 ATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAATTAT-TTTTATAGT
32486102 ATCATATATT
1 ATCATATATT
32486112 ATGATTTGAG
Statistics
Matches: 99, Mismatches: 17, Indels: 28
0.69 0.12 0.19
Matches are distributed among these distances:
54 14 0.14
55 7 0.07
56 5 0.05
57 3 0.03
59 20 0.20
60 8 0.08
61 10 0.10
63 4 0.04
64 5 0.05
65 6 0.06
66 17 0.17
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (57 bp):
ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTATTTTTATAGT
Found at i:32486020 original size:66 final size:64
Alignment explanation
Indices: 32485950--32486148 Score: 186
Period size: 66 Copynumber: 3.2 Consensus size: 64
32485940 AAATATATTT
32485950 AATATTAATTATTTCAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTAT-TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
32486015 G
64 G
* * * * * **
32486016 AATATTAATTATTAAGAATT-TTATTA-A--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTA-AATTATTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAG
* *
32486070 AATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTAT-TTAAATTAT-TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
32486135 G
64 G
*
32486136 AATATTGATTATT
1 AATATTAATTATT
32486149 AAGAATTTTA
Statistics
Matches: 101, Mismatches: 18, Indels: 29
0.68 0.12 0.20
Matches are distributed among these distances:
54 14 0.14
55 7 0.07
56 5 0.05
57 3 0.03
58 1 0.01
59 10 0.10
60 8 0.08
61 10 0.10
62 1 0.01
63 3 0.03
64 5 0.05
65 7 0.07
66 27 0.27
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.49
Consensus pattern (64 bp):
AATATTAATTATTTAAATTATTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:32486036 original size:120 final size:120
Alignment explanation
Indices: 32485912--32486209 Score: 517
Period size: 120 Copynumber: 2.5 Consensus size: 120
32485902 AATTATTTTA
* * *
32485912 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTT
32485976 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
32486032 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
*
32486097 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
32486152 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAAT
32486210 ATGATTAAAT
Statistics
Matches: 168, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
120 161 0.96
121 7 0.04
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:32486052 original size:61 final size:61
Alignment explanation
Indices: 32485985--32486172 Score: 192
Period size: 61 Copynumber: 3.1 Consensus size: 61
32485975 TTATAGTATC
32485985 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * * * *
32486046 ATATATT-TTAATT-A-T-AATAT-ATTTAATAATAATTATGTTAATTTA-TATTTTA-TAGTAT
1 ATATATTATGATTTGAGTAAAT-TCATATAAGAAT-ATTA-ATT-ATTAAGAATTTTATTA-AAT
*
32486104 C
61 T
*
32486105 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
32486166 ATATATT
1 ATATATT
32486173 TTAATTAAAA
Statistics
Matches: 96, Mismatches: 19, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
57 11 0.11
58 8 0.08
59 18 0.19
60 16 0.17
61 25 0.26
62 7 0.07
63 11 0.11
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:32486072 original size:15 final size:15
Alignment explanation
Indices: 32486037--32486088 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
32486027 TTAAGAATTT
*
32486037 TATTAAATTAT-ATA
1 TATTTAATTATAATA
32486051 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
32486065 TATTTAATAATAAT-
1 TATTTAATTATAATA
32486079 TATGTTAATT
1 TAT-TTAATT
32486089 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:32486181 original size:18 final size:17
Alignment explanation
Indices: 32486153--32486187 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
32486143 ATTATTAAGA
*
32486153 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
32486170 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
32486188 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:32486414 original size:44 final size:45
Alignment explanation
Indices: 32486349--32486439 Score: 112
Period size: 45 Copynumber: 2.0 Consensus size: 45
32486339 ACCTCTATTC
* * *
32486349 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
*** *
32486393 CATTCAACCAAACAGTGGATTAGTTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
32486438 CA
1 CA
32486440 CCTCTAATCC
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 19 0.49
45 20 0.51
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.29
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:32486441 original size:16 final size:16
Alignment explanation
Indices: 32486420--32486488 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
32486410 GATTAGTTAT
32486420 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
32486436 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
32486453 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
32486469 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
32486485 TACA
1 TACA
32486489 GCGAACCAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:32486462 original size:33 final size:32
Alignment explanation
Indices: 32486420--32486488 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
32486410 GATTAGTTAT
32486420 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
32486453 TACACCTCTAATCCAATACACCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
32486485 TACA
1 TACA
32486489 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 8 0.22
33 28 0.78
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:32489756 original size:25 final size:26
Alignment explanation
Indices: 32489710--32489761 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
32489700 TTTTTTTAAT
* ** *
32489710 AAAATTTTTAATTTTTTGAATTTTTG
1 AAAATTTTAAATTAATTGAATTGTTG
32489736 AAAATTTTAAATTAATT-AATTGTTG
1 AAAATTTTAAATTAATTGAATTGTTG
32489761 A
1 A
32489762 CATGACAATC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (26 bp):
AAAATTTTAAATTAATTGAATTGTTG
Found at i:32491982 original size:18 final size:18
Alignment explanation
Indices: 32491961--32492072 Score: 90
Period size: 17 Copynumber: 6.4 Consensus size: 18
32491951 AAGTTTTTTT
*
32491961 AACACGGGAATTTTTGAA
1 AACACGAGAATTTTTGAA
*
32491979 AACACGAGAA--TTTGTA
1 AACACGAGAATTTTTGAA
* *
32491995 AACACGAAAATTTTAG-A
1 AACACGAGAATTTTTGAA
* *
32492012 AACATGAAAATTTTT-AA
1 AACACGAGAATTTTTGAA
* *
32492029 AACACGACATTTTTTTTG-A
1 AACACGAGA--ATTTTTGAA
*
32492048 AACACGGGAATTTTTGAA
1 AACACGAGAATTTTTGAA
32492066 AACACGA
1 AACACGA
32492073 ATTTTTTTTA
Statistics
Matches: 74, Mismatches: 13, Indels: 14
0.73 0.13 0.14
Matches are distributed among these distances:
16 14 0.19
17 28 0.38
18 19 0.26
19 13 0.18
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (18 bp):
AACACGAGAATTTTTGAA
Found at i:32491992 original size:16 final size:16
Alignment explanation
Indices: 32491973--32492035 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
32491963 CACGGGAATT
*
32491973 TTTGAAAACACGAGAA
1 TTTGAAAACACGAAAA
*
32491989 TTTGTAAACACGAAAA
1 TTTGAAAACACGAAAA
* *
32492005 TTTTAGAAACATGAAAA
1 TTTGA-AAACACGAAAA
*
32492022 TTTTTAAAACACGA
1 -TTTGAAAACACGA
32492036 CATTTTTTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
16 17 0.44
17 17 0.44
18 5 0.13
ACGTcount: A:0.49, C:0.11, G:0.13, T:0.27
Consensus pattern (16 bp):
TTTGAAAACACGAAAA
Found at i:32492031 original size:17 final size:17
Alignment explanation
Indices: 32491938--32492073 Score: 80
Period size: 17 Copynumber: 7.9 Consensus size: 17
32491928 AGTATTTCTT
* *
32491938 TTTTTTAAA-ACGAAAG
1 TTTTTAAAACACGAAAA
** **
32491954 TTTTTTTAACACGGGAA
1 TTTTTAAAACACGAAAA
*
32491971 TTTTTGAAAACACGAGAA
1 TTTTT-AAAACACGAAAA
*
32491989 TTTGT-AAACACGAAAA
1 TTTTTAAAACACGAAAA
*
32492005 -TTTTAGAAACATGAAAA
1 TTTTTA-AAACACGAAAA
**
32492022 TTTTTAAAACACGACATTT
1 TTTTTAAAACACGA-A-AA
* **
32492041 TTTTTGAAACACGGGAA
1 TTTTTAAAACACGAAAA
32492058 TTTTTGAAAACACGAA
1 TTTTT-AAAACACGAA
32492074 TTTTTTTTAT
Statistics
Matches: 90, Mismatches: 22, Indels: 14
0.71 0.17 0.11
Matches are distributed among these distances:
15 3 0.03
16 18 0.20
17 31 0.34
18 26 0.29
19 12 0.13
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (17 bp):
TTTTTAAAACACGAAAA
Found at i:32492042 original size:16 final size:16
Alignment explanation
Indices: 32491938--32492078 Score: 72
Period size: 18 Copynumber: 8.3 Consensus size: 16
32491928 AGTATTTCTT
*
32491938 TTTTTTAAA-ACGAAA
1 TTTTTAAAACACGAAA
** *
32491953 GTTTTTTTAACACGGGAA
1 -TTTTTAAAACAC-GAAA
32491971 TTTTTGAAAACACGAGAA
1 TTTTT-AAAACACGA-AA
*
32491989 TTTGT-AAACACGAAA
1 TTTTTAAAACACGAAA
* *
32492004 ATTTTAGAAACATGAAAA
1 TTTTTA-AAACACG-AAA
*
32492022 TTTTTAAAACACGACATTT
1 TTTTTAAAACACGA-A--A
* *
32492041 TTTTTGAAACACGGGAA
1 TTTTTAAAACAC-GAAA
32492058 TTTTTGAAAACACG-AA
1 TTTTT-AAAACACGAAA
32492074 TTTTT
1 TTTTT
32492079 TTTATTCACG
Statistics
Matches: 97, Mismatches: 16, Indels: 24
0.71 0.12 0.18
Matches are distributed among these distances:
15 5 0.05
16 24 0.25
17 27 0.28
18 28 0.29
19 12 0.12
20 1 0.01
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.35
Consensus pattern (16 bp):
TTTTTAAAACACGAAA
Found at i:32492050 original size:19 final size:19
Alignment explanation
Indices: 32492022--32492108 Score: 74
Period size: 19 Copynumber: 4.7 Consensus size: 19
32492012 AACATGAAAA
* *
32492022 TTTTTAAAACACGACATTT
1 TTTTTGAAACACGAGATTT
* *
32492041 TTTTTGAAACACGGGA--A
1 TTTTTGAAACACGAGATTT
32492058 TTTTTGAAAACACGA-ATTT
1 TTTTTG-AAACACGAGATTT
** *
32492077 TTTTT-ATTCACGAGAATT
1 TTTTTGAAACACGAGATTT
32492095 TTTTTGAAACACGA
1 TTTTTGAAACACGA
32492109 TTTTTCTTTA
Statistics
Matches: 52, Mismatches: 11, Indels: 10
0.71 0.15 0.14
Matches are distributed among these distances:
17 13 0.25
18 15 0.29
19 24 0.46
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (19 bp):
TTTTTGAAACACGAGATTT
Found at i:32492099 original size:37 final size:35
Alignment explanation
Indices: 32491978--32492119 Score: 114
Period size: 36 Copynumber: 4.1 Consensus size: 35
32491968 GAATTTTTGA
* ** **
32491978 AAACACGAGAA--TTTGTAAACACGAAAATTTTAG
1 AAACACGAGAATTTTTGAAAACACGAATTTTTTTT
* *
32492011 AAACATGAAAATTTTT-AAAACACGACATTTTTTTT
1 AAACACGAGAATTTTTGAAAACACGA-ATTTTTTTT
*
32492046 GAAACACGGGAATTTTTGAAAACACGAATTTTTTTT
1 -AAACACGAGAATTTTTGAAAACACGAATTTTTTTT
**
32492082 ATTCACGAGAATTTTTTTG-AAACACG-ATTTTTCTTT
1 AAACACGAGAA--TTTTTGAAAACACGAATTTTT-TTT
32492118 AA
1 AA
32492120 CAAATACCGT
Statistics
Matches: 87, Mismatches: 14, Indels: 13
0.76 0.12 0.11
Matches are distributed among these distances:
33 9 0.10
34 8 0.09
35 22 0.25
36 33 0.38
37 15 0.17
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (35 bp):
AAACACGAGAATTTTTGAAAACACGAATTTTTTTT
Found at i:32492710 original size:10 final size:11
Alignment explanation
Indices: 32492685--32492711 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
32492675 TGTTTTTATT
32492685 TTTTTAATTAC
1 TTTTTAATTAC
32492696 TTTTTAATTAC
1 TTTTTAATTAC
32492707 TTTTT
1 TTTTT
32492712 TTCTTTCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTTTAATTAC
Found at i:32492722 original size:10 final size:10
Alignment explanation
Indices: 32492709--32492762 Score: 56
Period size: 10 Copynumber: 5.2 Consensus size: 10
32492699 TTAATTACTT
32492709 TTTTTCTTTC
1 TTTTTCTTTC
32492719 TTTTTCTTTC
1 TTTTTCTTTC
32492729 TCTTTT-TTTC
1 T-TTTTCTTTC
*
32492739 TTTCTTTTTTC
1 TTT-TTCTTTC
*
32492750 TTCTTCTCTTC
1 TTTTTCT-TTC
32492761 TT
1 TT
32492763 CTTGTCTCAA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
9 2 0.05
10 21 0.55
11 15 0.39
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTTTCTTTC
Found at i:32492728 original size:14 final size:13
Alignment explanation
Indices: 32492707--32492759 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 13
32492697 TTTTAATTAC
32492707 TTTT-TTTCTTTCT
1 TTTTCTTTCTTT-T
32492720 TTTTCTTTCTCTTT
1 TTTTCTTTCT-TTT
32492734 TTTTCTTTCTTTT
1 TTTTCTTTCTTTT
32492747 TTCTTCTTCTCTT
1 TT-TTCTT-TCTT
32492760 CTTCTTGTCT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
13 9 0.25
14 21 0.58
15 6 0.17
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTCTTTCTTTT
Found at i:32493344 original size:29 final size:30
Alignment explanation
Indices: 32493326--32493426 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
32493316 ATTTAGGATT
32493326 AAAATGAAATTTAATG-AAAG-TTAGGGGTC
1 AAAATGAAATTTAA-GAAAAGTTTAGGGGTC
* * * *
32493355 TAAGTGAAATTTAAAAAAAGTTTAAGGGTC
1 AAAATGAAATTTAAGAAAAGTTTAGGGGTC
*
32493385 AAAATGAAATTTAGGAAAAGTTTAGGGGTC
1 AAAATGAAATTTAAGAAAAGTTTAGGGGTC
32493415 AAAATGAAATTT
1 AAAATGAAATTT
32493427 TTATTTTTTA
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
29 16 0.26
30 45 0.74
ACGTcount: A:0.47, C:0.03, G:0.22, T:0.29
Consensus pattern (30 bp):
AAAATGAAATTTAAGAAAAGTTTAGGGGTC
Found at i:32493882 original size:54 final size:54
Alignment explanation
Indices: 32493697--32494012 Score: 509
Period size: 54 Copynumber: 5.9 Consensus size: 54
32493687 CACGTGAGCC
* *
32493697 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAACAGAATTTGCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT--AA
*
32493752 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAG--A--AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
* *
32493802 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
*
32493856 AAGGCTCAACTCACCTTTCGCAATATG-GTTGATTTTTGAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
32493909 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
*
32493963 AAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA
32494013 CTGAAAAGTA
Statistics
Matches: 246, Mismatches: 9, Indels: 13
0.92 0.03 0.05
Matches are distributed among these distances:
50 48 0.20
52 1 0.00
53 50 0.20
54 103 0.42
55 38 0.15
56 6 0.02
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (54 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
Found at i:32493934 original size:107 final size:106
Alignment explanation
Indices: 32493697--32494012 Score: 505
Period size: 107 Copynumber: 3.0 Consensus size: 106
32493687 CACGTGAGCC
* *
32493697 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAACAGAATTTGCAAAAGGCTCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT--AAAAGGCTCAA
*
32493761 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAG--AAA
64 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAAAA
* *
32493802 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAAAAGGCTCAACT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACT
*
32493867 CACCTTTCGCAATATG-GTTGATTTTTGAAAAACAGAAATTAA
66 CACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA--AA
32493909 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACT
*
32493974 CATCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA
66 CACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA
32494013 CTGAAAAGTA
Statistics
Matches: 195, Mismatches: 10, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
103 18 0.09
104 28 0.14
105 38 0.19
106 10 0.05
107 79 0.41
108 22 0.11
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (106 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACT
CACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAAAA
Found at i:32494128 original size:13 final size:14
Alignment explanation
Indices: 32494100--32494132 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
32494090 TTTTTGAAAC
32494100 ACAGAAATTAAAAA
1 ACAGAAATTAAAAA
32494114 ACAGAAATT-AAAA
1 ACAGAAATTAAAAA
32494127 ACAGAA
1 ACAGAA
32494133 TTTGAAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.70, C:0.09, G:0.09, T:0.12
Consensus pattern (14 bp):
ACAGAAATTAAAAA
Found at i:32494140 original size:14 final size:14
Alignment explanation
Indices: 32494093--32494140 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
32494083 TTATTTTTTT
*
32494093 TTGAAACACAGAAA
1 TTGAAAAACAGAAA
*
32494107 TTAAAAAACAGAAA
1 TTGAAAAACAGAAA
*
32494121 TT-AAAAACAGAAT
1 TTGAAAAACAGAAA
32494134 TTGAAAA
1 TTGAAAA
32494141 GACCTCAGCG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
13 12 0.40
14 18 0.60
ACGTcount: A:0.62, C:0.08, G:0.10, T:0.19
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:32494271 original size:85 final size:87
Alignment explanation
Indices: 32494128--32494292 Score: 219
Period size: 87 Copynumber: 1.9 Consensus size: 87
32494118 AAATTAAAAA
* *
32494128 CAGAATTTGAAAAGACCTCAGCGTGTGGCCTGAGACTCAACTCACCTCTTGCAATATGAGTT-GA
1 CAGAAATTGAAAAGACCTCAGCG-GTGGCCTGAGACTCAACTCACCTCTCGCAATATGAGTTAGA
*
32494192 TTTGAAAAGTAGAATTAGTAAAG
65 TTTGAAAAGCAGAATTAGTAAAG
* * *
32494215 CAGAAATTGAAAATACCTCAGC-GT-GCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTAAG
1 CAGAAATTGAAAAGACCTCAGCGGTGGCC-TGAGACTCAACTCACCTCTCGCAATATGAGTT-AG
*
32494278 TTTTGAAAAGCAGAA
64 ATTTGAAAAGCAGAA
32494293 ATTGAAAATA
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
84 3 0.04
85 31 0.46
87 34 0.50
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.26
Consensus pattern (87 bp):
CAGAAATTGAAAAGACCTCAGCGGTGGCCTGAGACTCAACTCACCTCTCGCAATATGAGTTAGAT
TTGAAAAGCAGAATTAGTAAAG
Found at i:32494330 original size:73 final size:73
Alignment explanation
Indices: 32494211--32494588 Score: 606
Period size: 73 Copynumber: 5.2 Consensus size: 73
32494201 TAGAATTAGT
* * *
32494211 AAAGCAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-
1 AAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
32494275 AAGTTTTGA
66 AA-TTTTGA
*
32494284 AAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
32494349 AATTTTGA
66 AATTTTGA
*
32494357 AAA-CA-AAGATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 AAAGCAGAA-ATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
32494420 GAATTTTGA
65 GAATTTTGA
*
32494429 GAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
32494494 AATTTTGA
66 AATTTTGA
* *
32494502 AAA-CAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
32494566 -ATTTTGA
66 AATTTTGA
* *
32494573 AAAACAAAAATT-AAAA
1 AAAGCAGAAATTGAAAA
32494589 GGCTTAACTC
Statistics
Matches: 287, Mismatches: 13, Indels: 12
0.92 0.04 0.04
Matches are distributed among these distances:
71 15 0.05
72 132 0.46
73 136 0.47
74 4 0.01
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (73 bp):
AAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
AATTTTGA
Found at i:32494403 original size:72 final size:72
Alignment explanation
Indices: 32494215--32494588 Score: 594
Period size: 72 Copynumber: 5.2 Consensus size: 72
32494205 ATTAGTAAAG
* * *
32494215 CAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-AAGT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-T
32494279 TTTGAAAA
65 TTTGAAAA
*
32494287 GCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
1 -CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
32494352 TTTGAAAA
65 TTTGAAAA
*
32494360 CA-AAGATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
1 CAGAA-ATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
*
32494424 TTTGAGAAG
65 TTTGA-AAA
32494433 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
32494498 TTGAAAA
66 TTGAAAA
* *
32494505 CAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG-ATT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
32494569 TTGAAAAA
66 TTG-AAAA
*
32494577 CAAAAATT-AAAA
1 CAGAAATTGAAAA
32494589 GGCTTAACTC
Statistics
Matches: 283, Mismatches: 13, Indels: 12
0.92 0.04 0.04
Matches are distributed among these distances:
71 11 0.04
72 136 0.48
73 132 0.47
74 4 0.01
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (72 bp):
CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
TTGAAAA
Found at i:32494466 original size:145 final size:145
Alignment explanation
Indices: 32494215--32494588 Score: 630
Period size: 145 Copynumber: 2.6 Consensus size: 145
32494205 ATTAGTAAAG
* * *
32494215 CAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-AAGT
1 CAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-T
*
32494279 TTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
65 TTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
32494344 AGTTGAATTTTGAAAA
130 AGTTGAATTTTGAAAA
*
32494360 CA-AAGATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
1 CAGAA-ATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
*
32494424 TTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
65 TTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
32494489 AGTTGAATTTTGAAAA
130 AGTTGAATTTTGAAAA
32494505 CAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG-ATT
1 CAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
* *
32494569 TTGAAAAACAAAAATT-AAAA
66 TTGAAAAGCAGAAATTGAAAA
32494589 GGCTTAACTC
Statistics
Matches: 216, Mismatches: 10, Indels: 8
0.92 0.04 0.03
Matches are distributed among these distances:
143 4 0.02
144 18 0.08
145 190 0.88
146 4 0.02
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (145 bp):
CAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
TTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
GTTGAATTTTGAAAA
Found at i:32494683 original size:122 final size:125
Alignment explanation
Indices: 32494463--32494702 Score: 353
Period size: 122 Copynumber: 1.9 Consensus size: 125
32494453 ACGTGTCTTG
** * * * *
32494463 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTGAAAACAGAAACTAAAAATACCTCAACG
32494528 TGCCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG-ATTTTGAAAAACAAAAATTAAA
66 TGCCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAAAAATTAAA
* * *
32494588 AGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTCAATG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTGAAAACAGAAACTAAAAATACCTCAACG
*
32494650 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAA
66 TGCCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAA
32494703 GATTGAAATT
Statistics
Matches: 104, Mismatches: 10, Indels: 5
0.87 0.08 0.04
Matches are distributed among these distances:
122 67 0.64
123 9 0.09
124 3 0.03
125 25 0.24
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.30
Consensus pattern (125 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTGAAAACAGAAACTAAAAATACCTCAACG
TGCCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTAAA
Found at i:32494823 original size:73 final size:72
Alignment explanation
Indices: 32494588--32494927 Score: 494
Period size: 72 Copynumber: 4.8 Consensus size: 72
32494578 AAAAATTAAA
* ** * * * * *
32494588 AGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTCAATG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACG
32494650 TGTCTTG
66 TGTCTTG
*
32494657 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACA-AAGATTGAAATTACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAA-ATTGAAAATACCTCAAC
32494721 GTGTCTTG
65 GTGTCTTG
*
32494729 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA-AAACAGAAATTGAAAATACCTCAAC
32494794 GTGTCTTG
65 GTGTCTTG
* *
32494802 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAATAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACG
32494867 TGTCTTG
66 TGTCTTG
*
32494874 AGGCTCAACTCATTTCTCGCAATATGAGTTG-ATTTTGAAAAACAAAAATT-AAAA
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATTGAAAA
32494928 GGCTTAACTC
Statistics
Matches: 248, Mismatches: 16, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
69 25 0.10
70 3 0.01
71 14 0.06
72 137 0.55
73 67 0.27
74 2 0.01
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.31
Consensus pattern (72 bp):
AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACG
TGTCTTG
Found at i:32494843 original size:557 final size:550
Alignment explanation
Indices: 32494220--32496680 Score: 3371
Period size: 557 Copynumber: 4.5 Consensus size: 550
32494210 TAAAGCAGAA
* * *
32494220 ATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-AAGTTTTGA
1 ATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-TTTTGA
*
32494284 AAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
65 AAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
* * *
32494349 AATTTTGAAAACAAAGATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATA
130 AATTTTGAAAA-ACA-A---AAATTA----AAAG-G-CTT-A-ACTC-AC-C---TCTCGCAATA
* * * * * *
32494414 TGAGTTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTC
177 TGAG-TCAA-TTT-A-AAACATAAACTAAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTC
*
32494479 TCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAAC
238 TCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAAC
*
32494544 TCATTTCTCGCAATATGAGTTG-ATTTTGA-AA-A-ACA-AAAAT-TAAAAG-G-CTT-A-ACTC
303 TCATTTCTCGCAATATGAGTTGAATTTTGAGAACAGAAATAAAATCTAAAAGTGTCTTGAGACTC
* *
32494599 -AC-C-TCTCGCAATATGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTCAATGTGTCTTGA
368 AACTCTTCTCGCAATATGAGTTCAATTTTGAAAACAGAAACTAAAAATACCTCAACGTGTCTTGA
32494658 GGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACA-AAGATTGAAATTACCTCAACG
433 GGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAA-ATTGAAATTACCTCAACG
*
32494722 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAA-
497 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA-AAACA-AAG
32494777 ATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAA
1 ATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAA
* *
32494842 AA-TAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG-
66 AAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
*
32494905 ATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGTAATATGAGTCAATTTAAAACATA
131 ATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATA
32494970 AACTAAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA
196 AACTAAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA
32495035 AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
261 AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
* * *
32495100 ATTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATA
326 ATTTTGAGAA-CAGAAA-T-AAAAT--CTAAAAGTGTCTTGAGACTCAACTC--TTCTCGCAATA
* * * *
32495165 TGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCT
384 TGAGTTCAATTTTGAAAACAGAAACTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCT
32495230 CGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACT
449 CGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACT
32495295 CATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAG
514 CATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAG
*
32495332 ATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAA
1 ATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAA
32495397 AAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
66 AAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
32495462 ATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATA
131 ATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATA
32495527 AACTAAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA
196 AACTAAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA
32495592 AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
261 AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
* * *
32495657 ATTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATA
326 ATTTTGAGAA-CAGAAA-T-AAAAT--CTAAAAGTGTCTTGAGACTCAACTC--TTCTCGCAATA
* * * *
32495722 TGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCT
384 TGAGTTCAATTTTGAAAACAGAAACTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCT
*
32495787 TGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACT
449 CGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACT
32495852 CATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAG
514 CATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAG
*
32495889 ATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAA
1 ATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAA
32495954 AAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
66 AAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
*
32496019 GTTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATA
131 ATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATA
32496084 AACTAAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA
196 AACTAAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA
32496149 AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
261 AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
* *
32496214 GTTTTGA-AA-A-ACA-AAAAT-TAAAAG-G-CTT-A-ACTC-AC-C-TCTCGCAATATGAG-TC
326 ATTTTGAGAACAGAAATAAAATCTAAAAGTGTCTTGAGACTCAACTCTTCTCGCAATATGAGTTC
* ** * ** *
32496266 AA-TTT-AAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATA
391 AATTTTGAAAACAGAAACTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATA
* * * * **
32496329 TGAGTTG-ATTTTG-AAA-A-AAGTAGAAATTA----AA---------AGGTTCAACCCACCTCT
456 TGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCT
*
32496377 CGCAATATGAGTTGATTTTTGAAAAACATAAATTGAACAGG
521 CGCAATATGAGTTGAATTTTG-AAAAC--------AA-A-G
** *
32496418 AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTT
1 -ATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-ATT-TT
* * ** ** *
32496483 GAAAA-TAGAAATT-AAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAA
63 GAAAAGCAGAAATTGAAAA-TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
*
32496546 TTG-ATTTTGAAAAACAAATATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAA
127 TTGAATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAA
*** * ** *
32496610 CATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTG-ATT
192 CATAAACTAAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
32496674 TTGAAAA
257 TTGAAAA
32496681 AAGTAGAAAT
Statistics
Matches: 1783, Mismatches: 78, Indels: 114
0.90 0.04 0.06
Matches are distributed among these distances:
518 33 0.02
519 5 0.00
527 4 0.00
528 1 0.00
529 11 0.01
530 171 0.10
531 61 0.03
532 8 0.00
533 133 0.07
534 14 0.01
535 59 0.03
536 6 0.00
537 17 0.01
538 16 0.01
540 1 0.00
541 8 0.00
542 5 0.00
543 4 0.00
544 8 0.00
545 5 0.00
546 7 0.00
547 5 0.00
548 3 0.00
549 2 0.00
550 12 0.01
553 17 0.01
554 8 0.00
555 83 0.05
556 256 0.14
557 818 0.46
558 2 0.00
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (550 bp):
ATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAA
AAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
ATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATA
AACTAAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA
AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
ATTTTGAGAACAGAAATAAAATCTAAAAGTGTCTTGAGACTCAACTCTTCTCGCAATATGAGTTC
AATTTTGAAAACAGAAACTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATA
TGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCT
CGCAATATGAGTTGAATTTTGAAAACAAAG
Found at i:32494853 original size:145 final size:144
Alignment explanation
Indices: 32494636--32494911 Score: 509
Period size: 145 Copynumber: 1.9 Consensus size: 144
32494626 ACATAAACTA
*
32494636 AAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACA
1 AAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACA
32494701 AAGATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTT
66 AAGATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG-ATTTT
32494766 GAGAAGCAGAAATTG
130 GAGAAGCAGAAATTG
*
32494781 AAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAATA
1 AAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACA
32494846 GAA-ATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
66 -AAGATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
32494910 GA
130 GA
32494912 AAAACAAAAA
Statistics
Matches: 128, Mismatches: 2, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
144 7 0.05
145 119 0.93
146 2 0.02
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (144 bp):
AAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACA
AAGATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTG
AGAAGCAGAAATTG
Found at i:32495069 original size:72 final size:72
Alignment explanation
Indices: 32494927--32495480 Score: 918
Period size: 72 Copynumber: 7.7 Consensus size: 72
32494917 AAAAATTAAA
* ** * * * * * * *
32494927 AGGCTTAACTCACCTCTCGTAATATGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTCAATG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
32494989 TGTCTTG
66 TGTCTTG
32494996 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
32495061 TGTCTTG
66 TGTCTTG
* *
32495068 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA-AAACAGAAATTGAAATTACCTCAAC
32495133 GTGTCTTG
65 GTGTCTTG
32495141 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
32495206 TGTCTTG
66 TGTCTTG
32495213 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
32495278 TGTCTTG
66 TGTCTTG
32495285 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACA-AAGATTGAAATTACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAA-ATTGAAATTACCTCAAC
32495349 GTGTCTTG
65 GTGTCTTG
*
32495357 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACCTCAAC
32495422 GTGTCTTG
65 GTGTCTTG
*
32495430 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAAAAATT
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATT
32495481 AAAAGGCTTA
Statistics
Matches: 461, Mismatches: 16, Indels: 12
0.94 0.03 0.02
Matches are distributed among these distances:
69 24 0.05
70 3 0.01
71 5 0.01
72 282 0.61
73 141 0.31
74 6 0.01
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.31
Consensus pattern (72 bp):
AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
TGTCTTG
Found at i:32495186 original size:145 final size:144
Alignment explanation
Indices: 32494975--32495480 Score: 933
Period size: 145 Copynumber: 3.5 Consensus size: 144
32494965 ACATAAACTA
*
32494975 AAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACA
1 AAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACA
32495040 GAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTT
66 GAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTT
32495105 GAGAAGCAGAAATTG
131 GA-AAGCAGAAATTG
32495120 AAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACA
1 AAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACA
32495185 GAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTT
66 GAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTT
*
32495250 GAAAACAGAAATTG
131 GAAAGCAGAAATTG
*
32495264 AAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACA
1 AAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACA
32495329 -AAGATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTT
66 GAA-ATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTT
32495393 TGAAAAGCAGAAATTG
130 TG-AAAGCAGAAATTG
32495409 AAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAAC
1 AAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAAC
*
32495474 AAAAATT
65 AGAAATT
32495481 AAAAGGCTTA
Statistics
Matches: 352, Mismatches: 5, Indels: 7
0.97 0.01 0.02
Matches are distributed among these distances:
143 2 0.01
144 138 0.39
145 201 0.57
146 9 0.03
147 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (144 bp):
AAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACA
GAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTT
GAAAGCAGAAATTG
Found at i:32495406 original size:217 final size:217
Alignment explanation
Indices: 32494927--32495480 Score: 929
Period size: 217 Copynumber: 2.6 Consensus size: 217
32494917 AAAAATTAAA
* ** * * * * * *
32494927 AGGCTTAACTCACCTCTCGTAATATGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTCAATG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACG
32494989 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTAC
66 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTAC
*
32495054 CTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATT
131 CTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAACAGAAATT
32495119 GAAAATACCTCAACGTGTCTTG
196 GAAAATACCTCAACGTGTCTTG
*
32495141 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACG
32495206 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTAC
66 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTAC
32495271 CTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA-AAACA-AAGAT
131 CTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAACAGAA-AT
*
32495334 TGAAATTACCTCAACGTGTCTTG
195 TGAAAATACCTCAACGTGTCTTG
32495357 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAAATACCTCAAC
*
32495422 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAAAAATT
65 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATT
32495481 AAAAGGCTTA
Statistics
Matches: 320, Mismatches: 14, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
214 24 0.08
215 5 0.02
216 73 0.23
217 207 0.65
218 11 0.03
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.31
Consensus pattern (217 bp):
AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACG
TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTAC
CTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAACAGAAATT
GAAAATACCTCAACGTGTCTTG
Found at i:32495580 original size:123 final size:126
Alignment explanation
Indices: 32495357--32495602 Score: 374
Period size: 123 Copynumber: 2.0 Consensus size: 126
32495347 ACGTGTCTTG
** * * *
32495357 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAAC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTGAAAAGCAGAAACTAAAAATACCTCAAC
32495422 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAAAAATTAAA
66 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAAAAATTAAA
* * *
32495484 AGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-AAAA-CATAAACTAAAAATACCTCAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTGAAAAGCAGAAACTAAAAATACCTCAAC
*
32495545 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATT
66 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATT
32495603 GAAATTACCT
Statistics
Matches: 110, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
122 11 0.10
123 64 0.58
124 4 0.04
125 3 0.03
126 3 0.03
127 25 0.23
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (126 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTGAAAAGCAGAAACTAAAAATACCTCAAC
GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTAAA
Found at i:32495626 original size:72 final size:72
Alignment explanation
Indices: 32495484--32496037 Score: 909
Period size: 72 Copynumber: 7.7 Consensus size: 72
32495474 AAAAATTAAA
* ** * * * * * *
32495484 AGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTCAATG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
32495546 TGTCTTG
66 TGTCTTG
32495553 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
32495618 TGTCTTG
66 TGTCTTG
* *
32495625 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA-AAACAGAAATTGAAATTACCTCAAC
32495690 GTGTCTTG
65 GTGTCTTG
32495698 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
32495763 TGTCTTG
66 TGTCTTG
*
32495770 AGGCTCAACTCATTTCTTGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
32495835 TGTCTTG
66 TGTCTTG
32495842 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACA-AAGATTGAAATTACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAA-ATTGAAATTACCTCAAC
32495906 GTGTCTTG
65 GTGTCTTG
*
32495914 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACCTCAAC
32495979 GTGTCTTG
65 GTGTCTTG
* *
32495987 AGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTGAAAAACAAAAATT
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATT
32496038 AAAAGGCTTA
Statistics
Matches: 459, Mismatches: 18, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
69 25 0.05
70 3 0.01
71 5 0.01
72 280 0.61
73 140 0.31
74 6 0.01
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.31
Consensus pattern (72 bp):
AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
TGTCTTG
Found at i:32495743 original size:145 final size:144
Alignment explanation
Indices: 32495484--32496037 Score: 918
Period size: 145 Copynumber: 3.8 Consensus size: 144
32495474 AAAAATTAAA
* ** * * * * * *
32495484 AGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTCAATG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAGCAGAAATTGAAAATACCTCAACG
32495546 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTAC
66 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTAC
32495611 CTCAACGTGTCTTG
131 CTCAACGTGTCTTG
32495625 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA-AAGCAGAAATTGAAAATACCTCAAC
32495690 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTA
65 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTA
32495755 CCTCAACGTGTCTTG
130 CCTCAACGTGTCTTG
* * *
32495770 AGGCTCAACTCATTTCTTGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAGCAGAAATTGAAAATACCTCAACG
32495835 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACA-AAGATTGAAATTA
66 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAA-ATTGAAATTA
32495899 CCTCAACGTGTCTTG
130 CCTCAACGTGTCTTG
32495914 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAGCAGAAATTGAAAATACCTCAAC
* *
32495979 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTGAAAAACAAAAATT
65 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATT
32496038 AAAAGGCTTA
Statistics
Matches: 389, Mismatches: 16, Indels: 11
0.94 0.04 0.03
Matches are distributed among these distances:
141 25 0.06
142 3 0.01
143 5 0.01
144 138 0.35
145 207 0.53
146 9 0.02
147 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.31
Consensus pattern (144 bp):
AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAGCAGAAATTGAAAATACCTCAACG
TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTAC
CTCAACGTGTCTTG
Found at i:32496137 original size:123 final size:126
Alignment explanation
Indices: 32495914--32496159 Score: 365
Period size: 123 Copynumber: 2.0 Consensus size: 126
32495904 ACGTGTCTTG
** * * *
32495914 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAAC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTGAAAAGCAGAAACTAAAAATACCTCAAC
*
32495979 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTGAAAAACAAAAATTAAA
66 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAAAAATTAAA
* * *
32496041 AGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-AAAA-CATAAACTAAAAATACCTCAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTGAAAAGCAGAAACTAAAAATACCTCAAC
*
32496102 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATT
66 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATT
32496160 GAAATTACCT
Statistics
Matches: 109, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
122 11 0.10
123 63 0.58
124 4 0.04
125 3 0.03
126 3 0.03
127 25 0.23
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (126 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTGAAAAGCAGAAACTAAAAATACCTCAAC
GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTAAA
Found at i:32496183 original size:72 final size:72
Alignment explanation
Indices: 32496041--32496236 Score: 263
Period size: 72 Copynumber: 2.8 Consensus size: 72
32496031 AAAAATTAAA
* ** * * * *
32496041 AGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTCAATG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTAAAAATACCTCAACG
32496103 TGTCTTG
66 TGTCTTG
* * *
32496110 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTAAAAATACCTCAACG
32496175 TGTCTTG
66 TGTCTTG
*
32496182 AGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTGAAAAACAAAAATTAAAA
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAAAAATTAAAA
32496237 GGCTTAACTC
Statistics
Matches: 111, Mismatches: 12, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
69 25 0.23
70 3 0.03
71 3 0.03
72 66 0.59
73 14 0.13
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.30
Consensus pattern (72 bp):
AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTAAAAATACCTCAACG
TGTCTTG
Found at i:32496230 original size:195 final size:196
Alignment explanation
Indices: 32495842--32496345 Score: 816
Period size: 195 Copynumber: 2.6 Consensus size: 196
32495832 ACGTGTCTTG
* ** * * * *
32495842 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACA-AAGATTGAAATTACCTCAAC
1 AGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-AAAACATAA-ACTAAAAATACCTCAAC
32495906 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAAT
62 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAAT
32495971 ACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTGAAAAACAAAAA
127 ACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTGAAAAACAAAAA
32496036 TTAAA
192 TTAAA
*
32496041 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAATGTGT
1 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAACGTGT
*
32496106 CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACCT
66 CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCT
32496170 CAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTGAAAAACAAAAATTAA
131 CAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTGAAAAACAAAAATTAA
32496235 A
196 A
** *
32496236 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGC
1 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAACGTGT
** *
32496301 CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTG-ATTTTGAAAA
66 CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA
32496346 AAGTAGAAAT
Statistics
Matches: 288, Mismatches: 16, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
194 10 0.03
195 176 0.61
196 69 0.24
197 5 0.02
198 3 0.01
199 25 0.09
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (196 bp):
AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAACGTGT
CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCT
CAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTGAAAAACAAAAATTAA
A
Found at i:32496666 original size:122 final size:126
Alignment explanation
Indices: 32496444--32496723 Score: 356
Period size: 122 Copynumber: 2.2 Consensus size: 126
32496434 ACGTGTCTTG
* * * * * *
32496444 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAATAGAAATTAAAATTACCTCAG
1 AGGCTTAACTCACCTCTCGCAATATGAG-TCA-TATCTTGAAAACAGAAACTAAAAATACCTCAG
* *
32496509 CGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTGAAAAACA-A-ATATTAAA
64 CGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTGAAAAA-AGAGAAATTAAA
* *
32496571 AGGCTTAACTCACCTCTCGCAATATGAGTCA-AT-TT-AAAACATAAACTAAAAATACCTCGGCG
1 AGGCTTAACTCACCTCTCGCAATATGAGTCATATCTTGAAAACAGAAACTAAAAATACCTCAGCG
* *
32496633 TGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAAAAGTAGAAATTAAA
66 TGCCCCGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTGAAAAAAG-AGAAATTAAA
*
32496695 AGG-TTCAACCCACCTCTCGCAATATGAGT
1 AGGCTT-AACTCACCTCTCGCAATATGAGT
32496724 TGATTTTTGA
Statistics
Matches: 136, Mismatches: 13, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
121 1 0.01
122 68 0.50
123 5 0.04
124 33 0.24
126 2 0.01
127 27 0.20
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (126 bp):
AGGCTTAACTCACCTCTCGCAATATGAGTCATATCTTGAAAACAGAAACTAAAAATACCTCAGCG
TGCCCCGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTGAAAAAAGAGAAATTAAA
Found at i:32497001 original size:122 final size:126
Alignment explanation
Indices: 32496779--32497010 Score: 328
Period size: 122 Copynumber: 1.9 Consensus size: 126
32496769 ACGTGTCTTG
* * * * *
32496779 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAATAGAAATTAAAATTACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCA-TATCTTGAAAACAGAAACTAAAAATACCTCAG
*
32496844 CGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTGAAAAACAAATATTAAA
65 CGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTGAAAAACAAATATTAAA
* * *
32496906 AGGCTTAACTCACCTCTCGCAATATGAG-TCA-AT-TT-AAAACATAAACTAAAAATACCTCGGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCATATCTTGAAAACAGAAACTAAAAATACCTCAGC
* *
32496967 GTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT
66 GTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTT
32497011 TTTTTTAAAT
Statistics
Matches: 94, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
122 62 0.66
123 2 0.02
124 1 0.01
126 2 0.02
127 27 0.29
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (126 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTCATATCTTGAAAACAGAAACTAAAAATACCTCAGC
GTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTGAAAAACAAATATTAAA
Found at i:32498686 original size:12 final size:12
Alignment explanation
Indices: 32498669--32498706 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
32498659 GACCTCTCCA
32498669 TTTTCTTTTCTT
1 TTTTCTTTTCTT
*
32498681 TTTTCTCTTCTT
1 TTTTCTTTTCTT
32498693 TTTT-TTTTGCTT
1 TTTTCTTTT-CTT
32498705 TT
1 TT
32498707 GAATGAATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 3 0.13
12 20 0.87
ACGTcount: A:0.00, C:0.16, G:0.03, T:0.82
Consensus pattern (12 bp):
TTTTCTTTTCTT
Found at i:32499329 original size:14 final size:14
Alignment explanation
Indices: 32499281--32499336 Score: 78
Period size: 14 Copynumber: 4.1 Consensus size: 14
32499271 TGGCATTTGA
*
32499281 TTTT-TTTTTGTTT
1 TTTTCTTTTTCTTT
* *
32499294 TTTTCTTGTCCTTT
1 TTTTCTTTTTCTTT
32499308 TTTTCTTTTTCTTT
1 TTTTCTTTTTCTTT
32499322 TTTTCTTTTTCTTT
1 TTTTCTTTTTCTTT
32499336 T
1 T
32499337 CATGACTGTC
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
13 4 0.11
14 33 0.89
ACGTcount: A:0.00, C:0.12, G:0.04, T:0.84
Consensus pattern (14 bp):
TTTTCTTTTTCTTT
Found at i:32500225 original size:43 final size:43
Alignment explanation
Indices: 32500164--32500250 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
32500154 AAGGCAATAA
32500164 GTATGTTTTGAATATTACTCTAGATTAGCTTTAAAAGTACACG
1 GTATGTTTTGAATATTACTCTAGATTAGCTTTAAAAGTACACG
32500207 GTATGTTTTGAATATTACTCTAGATTAGCTTTAAAAGTACACG
1 GTATGTTTTGAATATTACTCTAGATTAGCTTTAAAAGTACACG
32500250 G
1 G
32500251 ATCTCTTCCA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.39
Consensus pattern (43 bp):
GTATGTTTTGAATATTACTCTAGATTAGCTTTAAAAGTACACG
Found at i:32503093 original size:18 final size:18
Alignment explanation
Indices: 32503072--32503183 Score: 90
Period size: 17 Copynumber: 6.4 Consensus size: 18
32503062 AAGTTTTTTT
*
32503072 AACACGGGAATTTTTGAA
1 AACACGAGAATTTTTGAA
*
32503090 AACACGAGAA--TTTGTA
1 AACACGAGAATTTTTGAA
* *
32503106 AACACGAAAATTTTAG-A
1 AACACGAGAATTTTTGAA
* *
32503123 AACATGAAAATTTTT-AA
1 AACACGAGAATTTTTGAA
* *
32503140 AACACGACATTTTTTTTG-A
1 AACACGAGA--ATTTTTGAA
*
32503159 AACACGGGAATTTTTGAA
1 AACACGAGAATTTTTGAA
32503177 AACACGA
1 AACACGA
32503184 ATTTTTTTTA
Statistics
Matches: 74, Mismatches: 13, Indels: 14
0.73 0.13 0.14
Matches are distributed among these distances:
16 14 0.19
17 28 0.38
18 19 0.26
19 13 0.18
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (18 bp):
AACACGAGAATTTTTGAA
Found at i:32503103 original size:16 final size:16
Alignment explanation
Indices: 32503084--32503146 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
32503074 CACGGGAATT
*
32503084 TTTGAAAACACGAGAA
1 TTTGAAAACACGAAAA
*
32503100 TTTGTAAACACGAAAA
1 TTTGAAAACACGAAAA
* *
32503116 TTTTAGAAACATGAAAA
1 TTTGA-AAACACGAAAA
*
32503133 TTTTTAAAACACGA
1 -TTTGAAAACACGA
32503147 CATTTTTTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
16 17 0.44
17 17 0.44
18 5 0.13
ACGTcount: A:0.49, C:0.11, G:0.13, T:0.27
Consensus pattern (16 bp):
TTTGAAAACACGAAAA
Found at i:32503142 original size:17 final size:17
Alignment explanation
Indices: 32503049--32503184 Score: 80
Period size: 17 Copynumber: 7.9 Consensus size: 17
32503039 TATTTCTTTT
* *
32503049 TTTTTTAAA-ACGAAAG
1 TTTTTAAAACACGAAAA
** **
32503065 TTTTTTTAACACGGGAA
1 TTTTTAAAACACGAAAA
*
32503082 TTTTTGAAAACACGAGAA
1 TTTTT-AAAACACGAAAA
*
32503100 TTTGT-AAACACGAAAA
1 TTTTTAAAACACGAAAA
*
32503116 -TTTTAGAAACATGAAAA
1 TTTTTA-AAACACGAAAA
**
32503133 TTTTTAAAACACGACATTT
1 TTTTTAAAACACGA-A-AA
* **
32503152 TTTTTGAAACACGGGAA
1 TTTTTAAAACACGAAAA
32503169 TTTTTGAAAACACGAA
1 TTTTT-AAAACACGAA
32503185 TTTTTTTTAT
Statistics
Matches: 90, Mismatches: 22, Indels: 14
0.71 0.17 0.11
Matches are distributed among these distances:
15 3 0.03
16 18 0.20
17 31 0.34
18 26 0.29
19 12 0.13
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (17 bp):
TTTTTAAAACACGAAAA
Found at i:32503153 original size:16 final size:16
Alignment explanation
Indices: 32503049--32503189 Score: 72
Period size: 18 Copynumber: 8.3 Consensus size: 16
32503039 TATTTCTTTT
*
32503049 TTTTTTAAA-ACGAAA
1 TTTTTAAAACACGAAA
** *
32503064 GTTTTTTTAACACGGGAA
1 -TTTTTAAAACAC-GAAA
32503082 TTTTTGAAAACACGAGAA
1 TTTTT-AAAACACGA-AA
*
32503100 TTTGT-AAACACGAAA
1 TTTTTAAAACACGAAA
* *
32503115 ATTTTAGAAACATGAAAA
1 TTTTTA-AAACACG-AAA
*
32503133 TTTTTAAAACACGACATTT
1 TTTTTAAAACACGA-A--A
* *
32503152 TTTTTGAAACACGGGAA
1 TTTTTAAAACAC-GAAA
32503169 TTTTTGAAAACACG-AA
1 TTTTT-AAAACACGAAA
32503185 TTTTT
1 TTTTT
32503190 TTTATTCACG
Statistics
Matches: 97, Mismatches: 16, Indels: 24
0.71 0.12 0.18
Matches are distributed among these distances:
15 5 0.05
16 24 0.25
17 27 0.28
18 28 0.29
19 12 0.12
20 1 0.01
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.35
Consensus pattern (16 bp):
TTTTTAAAACACGAAA
Found at i:32503161 original size:19 final size:19
Alignment explanation
Indices: 32503133--32503219 Score: 74
Period size: 19 Copynumber: 4.7 Consensus size: 19
32503123 AACATGAAAA
* *
32503133 TTTTTAAAACACGACATTT
1 TTTTTGAAACACGAGATTT
* *
32503152 TTTTTGAAACACGGGA--A
1 TTTTTGAAACACGAGATTT
32503169 TTTTTGAAAACACGA-ATTT
1 TTTTTG-AAACACGAGATTT
** *
32503188 TTTTT-ATTCACGAGAATT
1 TTTTTGAAACACGAGATTT
32503206 TTTTTGAAACACGA
1 TTTTTGAAACACGA
32503220 TTTTTCTTTA
Statistics
Matches: 52, Mismatches: 11, Indels: 10
0.71 0.15 0.14
Matches are distributed among these distances:
17 13 0.25
18 15 0.29
19 24 0.46
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (19 bp):
TTTTTGAAACACGAGATTT
Found at i:32503210 original size:37 final size:35
Alignment explanation
Indices: 32503089--32503230 Score: 114
Period size: 36 Copynumber: 4.1 Consensus size: 35
32503079 GAATTTTTGA
* ** **
32503089 AAACACGAGAA--TTTGTAAACACGAAAATTTTAG
1 AAACACGAGAATTTTTGAAAACACGAATTTTTTTT
* *
32503122 AAACATGAAAATTTTT-AAAACACGACATTTTTTTT
1 AAACACGAGAATTTTTGAAAACACGA-ATTTTTTTT
*
32503157 GAAACACGGGAATTTTTGAAAACACGAATTTTTTTT
1 -AAACACGAGAATTTTTGAAAACACGAATTTTTTTT
**
32503193 ATTCACGAGAATTTTTTTG-AAACACG-ATTTTTCTTT
1 AAACACGAGAA--TTTTTGAAAACACGAATTTTT-TTT
32503229 AA
1 AA
32503231 CAAATACCGT
Statistics
Matches: 87, Mismatches: 14, Indels: 13
0.76 0.12 0.11
Matches are distributed among these distances:
33 9 0.10
34 8 0.09
35 22 0.25
36 33 0.38
37 15 0.17
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (35 bp):
AAACACGAGAATTTTTGAAAACACGAATTTTTTTT
Found at i:32503814 original size:11 final size:11
Alignment explanation
Indices: 32503798--32503824 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
32503788 GTTTTTATTT
32503798 TTTTTAATTAC
1 TTTTTAATTAC
32503809 TTTTTAATTAC
1 TTTTTAATTAC
32503820 TTTTT
1 TTTTT
32503825 TTCTTTCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTTTAATTAC
Found at i:32503835 original size:10 final size:10
Alignment explanation
Indices: 32503822--32503875 Score: 56
Period size: 10 Copynumber: 5.2 Consensus size: 10
32503812 TTAATTACTT
32503822 TTTTTCTTTC
1 TTTTTCTTTC
32503832 TTTTTCTTTC
1 TTTTTCTTTC
32503842 TCTTTT-TTTC
1 T-TTTTCTTTC
*
32503852 TTTCTTTTTTC
1 TTT-TTCTTTC
*
32503863 TTCTTCTCTTC
1 TTTTTCT-TTC
32503874 TT
1 TT
32503876 CTTGTCTCAA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
9 2 0.05
10 21 0.55
11 15 0.39
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTTTCTTTC
Found at i:32503841 original size:14 final size:13
Alignment explanation
Indices: 32503820--32503872 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 13
32503810 TTTTAATTAC
32503820 TTTT-TTTCTTTCT
1 TTTTCTTTCTTT-T
32503833 TTTTCTTTCTCTTT
1 TTTTCTTTCT-TTT
32503847 TTTTCTTTCTTTT
1 TTTTCTTTCTTTT
32503860 TTCTTCTTCTCTT
1 TT-TTCTT-TCTT
32503873 CTTCTTGTCT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
13 9 0.25
14 21 0.58
15 6 0.17
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTCTTTCTTTT
Done.