Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 77 of 276
Found at i:23678305 original size:6 final size:6
Alignment explanation
Indices: 23678296--23678339 Score: 79
Period size: 6 Copynumber: 7.3 Consensus size: 6
23678286 GGAATACACC
*
23678296 GTAACA GTAACA GTAACA GTAACA GTAGCA GTAACA GTAACA GT
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GT
23678340 CAGGTACAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.45, C:0.16, G:0.20, T:0.18
Consensus pattern (6 bp):
GTAACA
Found at i:23681519 original size:16 final size:17
Alignment explanation
Indices: 23681494--23681525 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
23681484 TTTGACATAT
23681494 AAAAATTATATAAAAAG
1 AAAAATTATATAAAAAG
23681511 AAAAA-TATATAAAAA
1 AAAAATTATATAAAAA
23681526 TAGTTGATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (17 bp):
AAAAATTATATAAAAAG
Found at i:23684093 original size:20 final size:22
Alignment explanation
Indices: 23684054--23684094 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
23684044 CATCTCCGAC
*
23684054 GGAAACAGAATATGTTTTGGAA
1 GGAAACAGAATATGTCTTGGAA
23684076 GGAAACAG-A-ATGTCTTGGA
1 GGAAACAGAATATGTCTTGGA
23684095 TTCTTTTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 1 0.06
22 8 0.44
ACGTcount: A:0.39, C:0.07, G:0.29, T:0.24
Consensus pattern (22 bp):
GGAAACAGAATATGTCTTGGAA
Found at i:23686559 original size:219 final size:219
Alignment explanation
Indices: 23686180--23686585 Score: 686
Period size: 219 Copynumber: 1.9 Consensus size: 219
23686170 ATCGTCTTCA
*
23686180 TCGCTGTTCTATATCGAAACCTAGGCAAGTCATTGGAATCCTCTGTTTCAACCTCATTGTGGACT
1 TCGCTGTTCTATATCGAAACCTAGGCAAGTCATTGGAATCCTCTGTTTCAACCACATTGTGGACT
* * *
23686245 TCCCCTTCGTCCAGTTCCATGCCTATCATTTTTCTTCTGTATGTCGGCTGTGAGTTTGGACACTC
66 TCCCCTTCGTCCAGTTCCATGCCTATCATTTTGCTTCTGTATGTCCGCCGTGAGTTTGGACACTC
23686310 ATTGACTCTGGGTTCCGCCTTTTCTCCATTTTCAGACCCTGTTACAGCAGCAGCCATCGTCTTCA
131 ATTGACTCTGGGTTCCGCCTTTTCTCCATTTTCAGACCCTGTTACAGCAGCAGCCATCGTCTTCA
23686375 TCGACTTAAACGTTCGACGGCTGG
196 TCGACTTAAACGTTCGACGGCTGG
* *
23686399 TCGCTGTTCTATTTCGAAACCTAGTCAAGTCATTGGAATCCTCTGTTTCAACCACATTGTGGACT
1 TCGCTGTTCTATATCGAAACCTAGGCAAGTCATTGGAATCCTCTGTTTCAACCACATTGTGGACT
* * * * *
23686464 TTCCCTTTGTCCAGTTCCATGTCTATCCTTTTGCTTCTGTATGTCCGCCGTGAGTTTGGCCACTC
66 TCCCCTTCGTCCAGTTCCATGCCTATCATTTTGCTTCTGTATGTCCGCCGTGAGTTTGGACACTC
** *
23686529 ATTGACTCTGGGTTTTGCCTTTTCTCCATTTTCAGACCCTGTTGCAGCAGCAGCCAT
131 ATTGACTCTGGGTTCCGCCTTTTCTCCATTTTCAGACCCTGTTACAGCAGCAGCCAT
23686586 TGGTTGAACC
Statistics
Matches: 173, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
219 173 1.00
ACGTcount: A:0.17, C:0.28, G:0.19, T:0.36
Consensus pattern (219 bp):
TCGCTGTTCTATATCGAAACCTAGGCAAGTCATTGGAATCCTCTGTTTCAACCACATTGTGGACT
TCCCCTTCGTCCAGTTCCATGCCTATCATTTTGCTTCTGTATGTCCGCCGTGAGTTTGGACACTC
ATTGACTCTGGGTTCCGCCTTTTCTCCATTTTCAGACCCTGTTACAGCAGCAGCCATCGTCTTCA
TCGACTTAAACGTTCGACGGCTGG
Found at i:23687966 original size:55 final size:54
Alignment explanation
Indices: 23687896--23688014 Score: 139
Period size: 54 Copynumber: 2.2 Consensus size: 54
23687886 ATTTGGATTG
* * *
23687896 AATCGATTATTATGTTGAAATATTATTTATTCTAAATAAATTATTTTTATATTTA
1 AATCGATTATCATGTTGAAATACTATTT-TTCTAAATAAATTATTTATATATTTA
* * * ** * *
23687951 AATCGATTGTCATGTTGAAATACTGTTTTTTTTTATAAATTGTTTATATGTTTA
1 AATCGATTATCATGTTGAAATACTATTTTTCTAAATAAATTATTTATATATTTA
23688005 AATCGATTAT
1 AATCGATTAT
23688015 TACGGCGGAA
Statistics
Matches: 53, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
54 29 0.55
55 24 0.45
ACGTcount: A:0.34, C:0.05, G:0.09, T:0.52
Consensus pattern (54 bp):
AATCGATTATCATGTTGAAATACTATTTTTCTAAATAAATTATTTATATATTTA
Found at i:23688056 original size:55 final size:54
Alignment explanation
Indices: 23687989--23688128 Score: 154
Period size: 55 Copynumber: 2.5 Consensus size: 54
23687979 TTTTTTATAA
*
23687989 ATTGTTTATATGTTTAAATCGATTATTACGGCGGAACACTGCTTCCTTTGAATTG
1 ATTG-TTATATGTTTAAATCGATTGTTACGGCGGAACACTGCTTCCTTTGAATTG
* * ** * * ** *
23688044 ATTGTGTATATGTTTAAATGGATTGTTATGTTGGAATACTGTTTGTTTTTAATTG
1 ATTGT-TATATGTTTAAATCGATTGTTACGGCGGAACACTGCTTCCTTTGAATTG
*
23688099 ATTACTTATATGTTTAAATCGATTGTTACG
1 ATT-GTTATATGTTTAAATCGATTGTTACG
23688129 TAGCACGTCG
Statistics
Matches: 70, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
54 1 0.01
55 68 0.97
56 1 0.01
ACGTcount: A:0.26, C:0.09, G:0.19, T:0.47
Consensus pattern (54 bp):
ATTGTTATATGTTTAAATCGATTGTTACGGCGGAACACTGCTTCCTTTGAATTG
Found at i:23690141 original size:19 final size:19
Alignment explanation
Indices: 23690089--23690147 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 19
23690079 TAATTCTAAA
*
23690089 AAATTAAAATTTTTTAAAAAT
1 AAATTAAAA-TATTT-AAAAT
* *
23690110 AAAATAAATTATTTAAAAT
1 AAATTAAAATATTTAAAAT
* *
23690129 ACATTAAAATATTAAAAAT
1 AAATTAAAATATTTAAAAT
23690148 TATAACAAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
19 20 0.65
20 4 0.13
21 7 0.23
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (19 bp):
AAATTAAAATATTTAAAAT
Found at i:23690344 original size:37 final size:37
Alignment explanation
Indices: 23690294--23690373 Score: 142
Period size: 37 Copynumber: 2.2 Consensus size: 37
23690284 TTATTTAATG
23690294 CAATGAGACACTAACCTTACTTGTTGAAGATGCTCTC
1 CAATGAGACACTAACCTTACTTGTTGAAGATGCTCTC
* *
23690331 CAATGAGACACTAACTTTATTTGTTGAAGATGCTCTC
1 CAATGAGACACTAACCTTACTTGTTGAAGATGCTCTC
23690368 CAATGA
1 CAATGA
23690374 AATTCTAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.31
Consensus pattern (37 bp):
CAATGAGACACTAACCTTACTTGTTGAAGATGCTCTC
Found at i:23690818 original size:18 final size:19
Alignment explanation
Indices: 23690785--23690821 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
23690775 AATAATTTTT
*
23690785 AAAATTTTAAATATTTATA
1 AAAATTCTAAATATTTATA
23690804 AAAATTCTAAA-ATTTATA
1 AAAATTCTAAATATTTATA
23690822 TTTTAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (19 bp):
AAAATTCTAAATATTTATA
Found at i:23690826 original size:25 final size:27
Alignment explanation
Indices: 23690784--23690840 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 27
23690774 AAATAATTTT
* *
23690784 TAAAATTTTAAATATTTATAAAAATTC
1 TAAAATTTTAAATATTTAAAAAAATTA
*
23690811 TAAAA-TTTATAT-TTTAAAAAAATTA
1 TAAAATTTTAAATATTTAAAAAAATTA
23690836 TAAAA
1 TAAAA
23690841 AATTTTTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 16 0.59
26 6 0.22
27 5 0.19
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (27 bp):
TAAAATTTTAAATATTTAAAAAAATTA
Found at i:23690999 original size:16 final size:16
Alignment explanation
Indices: 23690978--23691008 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23690968 CTTTGAAAAT
23690978 TTTCAAATATATGTGG
1 TTTCAAATATATGTGG
*
23690994 TTTCAAATTTATGTG
1 TTTCAAATATATGTG
23691009 CTCTAACATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.06, G:0.16, T:0.48
Consensus pattern (16 bp):
TTTCAAATATATGTGG
Found at i:23692685 original size:78 final size:78
Alignment explanation
Indices: 23692588--23692746 Score: 300
Period size: 78 Copynumber: 2.0 Consensus size: 78
23692578 CTTTGCTTGC
*
23692588 TTTGTTTCTGTTATATGAAAATAGACTCATTAAGCTCTAATTTGATATCTCATTCAGTCTCTGAT
1 TTTGTTTCTGCTATATGAAAATAGACTCATTAAGCTCTAATTTGATATCTCATTCAGTCTCTGAT
23692653 TCAATTTCTACGA
66 TCAATTTCTACGA
23692666 TTTGTTTCTGCTATATGAAAATAGACTCATTAAGCTCTAATTTGATATCTCATTCAGTCTCTGAT
1 TTTGTTTCTGCTATATGAAAATAGACTCATTAAGCTCTAATTTGATATCTCATTCAGTCTCTGAT
*
23692731 TCAATTTCTACTA
66 TCAATTTCTACGA
23692744 TTT
1 TTT
23692747 TTGGTAAATT
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
78 79 1.00
ACGTcount: A:0.28, C:0.17, G:0.11, T:0.45
Consensus pattern (78 bp):
TTTGTTTCTGCTATATGAAAATAGACTCATTAAGCTCTAATTTGATATCTCATTCAGTCTCTGAT
TCAATTTCTACGA
Found at i:23692773 original size:16 final size:16
Alignment explanation
Indices: 23692752--23692782 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
23692742 TATTTTTGGT
23692752 AAATTTTTAGATTCAC
1 AAATTTTTAGATTCAC
23692768 AAATTTTTAGATTCA
1 AAATTTTTAGATTCA
23692783 TGTCACTGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.10, G:0.06, T:0.45
Consensus pattern (16 bp):
AAATTTTTAGATTCAC
Found at i:23696573 original size:19 final size:19
Alignment explanation
Indices: 23696502--23696574 Score: 53
Period size: 19 Copynumber: 3.7 Consensus size: 19
23696492 TCATATCTAG
23696502 TATTATTTTCGTA-TATCATT
1 TATTATTTT--TATTATCATT
*
23696522 T-TTATTTATTATTATACCTAT
1 TATTATTT-TTATTAT-CAT-T
*
23696543 TATT-TTCATTATTATCATT
1 TATTATT-TTTATTATCATT
23696562 TATTATTTTTATT
1 TATTATTTTTATT
23696575 TTAATATTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 15
0.69 0.07 0.25
Matches are distributed among these distances:
18 2 0.05
19 19 0.45
20 8 0.19
21 11 0.26
22 2 0.05
ACGTcount: A:0.26, C:0.08, G:0.01, T:0.64
Consensus pattern (19 bp):
TATTATTTTTATTATCATT
Found at i:23697983 original size:68 final size:63
Alignment explanation
Indices: 23697836--23697983 Score: 165
Period size: 63 Copynumber: 2.3 Consensus size: 63
23697826 CATAATTTTG
* * *
23697836 GCTCTCTTGTACACATGGTGAACACTTAGTACCACCCATGTGACTTAGCCAGTTTATCTCGTA
1 GCTCTCTTGTACACATGGTGAACACATAGTACCACCCATGCGACCTAGCCAGTTTATCTCGTA
* * *
23697899 GCTCTCTTGT-CTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACA-TCATAATGTC
1 GCTCTCTTGTAC-ACATGGTGAACACATAGTACCACCCATGCGACCTAGC--CAGT--T--TATC
23697962 TCGTA
59 TCGTA
23697967 GCTCTCTTGTACACATG
1 GCTCTCTTGTACACATG
23697984 ATGTGCACTC
Statistics
Matches: 71, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
62 1 0.01
63 42 0.59
64 1 0.01
65 2 0.03
66 1 0.01
68 23 0.32
69 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.32
Consensus pattern (63 bp):
GCTCTCTTGTACACATGGTGAACACATAGTACCACCCATGCGACCTAGCCAGTTTATCTCGTA
Found at i:23698012 original size:68 final size:68
Alignment explanation
Indices: 23697892--23698020 Score: 163
Period size: 68 Copynumber: 1.9 Consensus size: 68
23697882 AGCCAGTTTA
* * * *
23697892 TCTCGTAGCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATA
1 TCTCGTAGCTCTCTTGTCTACATGATGTACACATAGCACCACACATGCGACCTAGCTACATCATA
23697957 ATG
66 ATG
* * *
23697960 TCTCGTAGCTCTCTTGTAC-ACATGATGTGCAC-TCAGCACCATACATGTGACCTAGCTACAT
1 TCTCGTAGCTCTCTTGT-CTACATGATGTACACAT-AGCACCACACATGCGACCTAGCTACAT
23698021 ACCATCTGTA
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
67 1 0.02
68 50 0.96
69 1 0.02
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (68 bp):
TCTCGTAGCTCTCTTGTCTACATGATGTACACATAGCACCACACATGCGACCTAGCTACATCATA
ATG
Found at i:23698521 original size:30 final size:30
Alignment explanation
Indices: 23698486--23698546 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
23698476 TCCTTAACTC
23698486 AAAC-TTTGTCAAAATTACAATTTTGCCCCT
1 AAACTTTTG-CAAAATTACAATTTTGCCCCT
* * *
23698516 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
23698546 A
1 A
23698547 GGCTTGAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTGCCCCT
Found at i:23700579 original size:25 final size:26
Alignment explanation
Indices: 23700549--23700609 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
23700539 TATTACTTAT
23700549 TTTATTATTGAAAATATT-TATTT-TA
1 TTTATTATTGAAAAT-TTATATTTGTA
*
23700574 TTTATTGGATTGCAAATTTATATTTGTA
1 TTTATT--ATTGAAAATTTATATTTGTA
23700602 TTTATTAT
1 TTTATTAT
23700610 AGATGTAAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
25 6 0.19
26 4 0.13
27 13 0.42
28 8 0.26
ACGTcount: A:0.31, C:0.02, G:0.08, T:0.59
Consensus pattern (26 bp):
TTTATTATTGAAAATTTATATTTGTA
Found at i:23700590 original size:27 final size:28
Alignment explanation
Indices: 23700555--23700607 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 28
23700545 TTATTTTATT
23700555 ATTGAAAATATT-TATTT-TATTTATTGG
1 ATTGAAAAT-TTATATTTGTATTTATTGG
*
23700582 ATTGCAAATTTATATTTGTATTTATT
1 ATTGAAAATTTATATTTGTATTTATT
23700608 ATAGATGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 2 0.09
27 13 0.57
28 8 0.35
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.57
Consensus pattern (28 bp):
ATTGAAAATTTATATTTGTATTTATTGG
Found at i:23705011 original size:38 final size:38
Alignment explanation
Indices: 23704960--23705037 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
23704950 GAGCATCTGT
*
23704960 TTGATATTTATATATGCTAAGAGAACACCATAAAGTTC
1 TTGATATTTATATATGCTAAGAGAACAACATAAAGTTC
23704998 TTGATATTTATATATGCTAAGAGAACAACATAAAGTTC
1 TTGATATTTATATATGCTAAGAGAACAACATAAAGTTC
23705036 TT
1 TT
23705038 ATGCTTGTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.36
Consensus pattern (38 bp):
TTGATATTTATATATGCTAAGAGAACAACATAAAGTTC
Found at i:23714746 original size:67 final size:67
Alignment explanation
Indices: 23714663--23714790 Score: 229
Period size: 67 Copynumber: 1.9 Consensus size: 67
23714653 GAGAAGTAAT
**
23714663 GTGCAATACAAATCATCAATTTCCTTTGAATATTTGAATAAGGCTTTAATACTAAAAGCTCACTA
1 GTGCAATACAAATCATCAATTTCCTTCAAATATTTGAATAAGGCTTTAATACTAAAAGCTCACTA
23714728 AC
66 AC
*
23714730 GTGCAATACAAATCATCAATTTCCTTCAAATATTTGAATTAGGCTTTAATACTAAAAGCTC
1 GTGCAATACAAATCATCAATTTCCTTCAAATATTTGAATAAGGCTTTAATACTAAAAGCTC
23714791 GATGTAAAGT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 58 1.00
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.34
Consensus pattern (67 bp):
GTGCAATACAAATCATCAATTTCCTTCAAATATTTGAATAAGGCTTTAATACTAAAAGCTCACTA
AC
Found at i:23724863 original size:24 final size:24
Alignment explanation
Indices: 23724817--23724867 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
23724807 ACATGTTTAT
23724817 TTTTAAAATTTATTAAACAATATGA
1 TTTTAAAATTTATTAAACAATAT-A
*
23724842 TTTTATAATTT-TTAAA-ATATATA
1 TTTTAAAATTTATTAAACA-ATATA
23724865 TTT
1 TTT
23724868 GCTAATTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 5 0.21
24 9 0.38
25 10 0.42
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (24 bp):
TTTTAAAATTTATTAAACAATATA
Found at i:23725325 original size:24 final size:24
Alignment explanation
Indices: 23725298--23725374 Score: 72
Period size: 24 Copynumber: 3.2 Consensus size: 24
23725288 AATATTCATA
23725298 TAAATATTTTATTAAAACTAATAT
1 TAAATATTTTATTAAAACTAATAT
*
23725322 TAAATTTTTTATTATAAA-TATATAT
1 TAAATATTTTATTA-AAACTA-ATAT
*
23725347 ATAAACA-TTTA-TAAAACATAA-AT
1 -TAAATATTTTATTAAAAC-TAATAT
23725370 TAAAT
1 TAAAT
23725375 TAATATTTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
22 4 0.09
23 5 0.11
24 18 0.41
25 13 0.30
26 4 0.09
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (24 bp):
TAAATATTTTATTAAAACTAATAT
Found at i:23729411 original size:16 final size:16
Alignment explanation
Indices: 23729390--23729420 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23729380 AATGTTAGAG
23729390 CATATAAATTTGAAAC
1 CATATAAATTTGAAAC
*
23729406 CATATATATTTGAAA
1 CATATAAATTTGAAA
23729421 AAAACTTCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.35
Consensus pattern (16 bp):
CATATAAATTTGAAAC
Found at i:23735250 original size:60 final size:60
Alignment explanation
Indices: 23735184--23735302 Score: 238
Period size: 60 Copynumber: 2.0 Consensus size: 60
23735174 CAGGAGCTAA
23735184 ACAAAGAAACAAATTCAAAAATGGCTACTCTTACAGCATGTTTGGTTGGGTGTATTGGCT
1 ACAAAGAAACAAATTCAAAAATGGCTACTCTTACAGCATGTTTGGTTGGGTGTATTGGCT
23735244 ACAAAGAAACAAATTCAAAAATGGCTACTCTTACAGCATGTTTGGTTGGGTGTATTGGC
1 ACAAAGAAACAAATTCAAAAATGGCTACTCTTACAGCATGTTTGGTTGGGTGTATTGGC
23735303 ATAGCCAATA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (60 bp):
ACAAAGAAACAAATTCAAAAATGGCTACTCTTACAGCATGTTTGGTTGGGTGTATTGGCT
Found at i:23740904 original size:19 final size:19
Alignment explanation
Indices: 23740868--23740927 Score: 61
Period size: 19 Copynumber: 3.1 Consensus size: 19
23740858 TCGTCTCGAC
*
23740868 ATTTTATAAA-ATTCTTATG
1 ATTTT-TAAATATTTTTATG
*
23740887 CTTTTTATAAT-TTTTTATG
1 ATTTTTA-AATATTTTTATG
23740906 ATTTTTAAATATTTTTAATG
1 ATTTTTAAATATTTTT-ATG
23740926 AT
1 AT
23740928 CTTATAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
18 5 0.15
19 24 0.71
20 5 0.15
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.60
Consensus pattern (19 bp):
ATTTTTAAATATTTTTATG
Found at i:23742071 original size:21 final size:22
Alignment explanation
Indices: 23742042--23742084 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
23742032 AGGAAAAAAA
23742042 AATGCTATTTT-TTGTTATTTT
1 AATGCTATTTTCTTGTTATTTT
* *
23742063 AATGTTATTTTCTTGTTGTTTT
1 AATGCTATTTTCTTGTTATTTT
23742085 CTCCCTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.16, C:0.05, G:0.12, T:0.67
Consensus pattern (22 bp):
AATGCTATTTTCTTGTTATTTT
Found at i:23743515 original size:6 final size:6
Alignment explanation
Indices: 23743504--23743539 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
23743494 CCTCCCTTGA
23743504 TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG
23743540 GTTGTTCATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
TATATG
Found at i:23743617 original size:27 final size:28
Alignment explanation
Indices: 23743577--23743631 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
23743567 CACAGTAACT
* *
23743577 GAAACATGGAGAATGAA-AGGAAGAAGA
1 GAAAAATGGAGAATGAAGAGGAAAAAGA
*
23743604 GAAAAATGGGGAATGAAGAGGAAAAAGA
1 GAAAAATGGAGAATGAAGAGGAAAAAGA
23743632 CGATGAAGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 15 0.62
28 9 0.38
ACGTcount: A:0.56, C:0.02, G:0.35, T:0.07
Consensus pattern (28 bp):
GAAAAATGGAGAATGAAGAGGAAAAAGA
Found at i:23743644 original size:6 final size:6
Alignment explanation
Indices: 23743633--23743664 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
23743623 GGAAAAAGAC
*
23743633 GATGAA GATGAA GATGAA GATGAT GATGAA GA
1 GATGAA GATGAA GATGAA GATGAA GATGAA GA
23743665 AGAGAAAGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.47, C:0.00, G:0.34, T:0.19
Consensus pattern (6 bp):
GATGAA
Found at i:23744113 original size:17 final size:17
Alignment explanation
Indices: 23744091--23744125 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
23744081 GTATGTAAAA
23744091 TTGTGGCTCTGCTTGGT
1 TTGTGGCTCTGCTTGGT
23744108 TTGTGGCTCTGCTTGGT
1 TTGTGGCTCTGCTTGGT
23744125 T
1 T
23744126 CAAGTTTCAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.00, C:0.17, G:0.34, T:0.49
Consensus pattern (17 bp):
TTGTGGCTCTGCTTGGT
Found at i:23746639 original size:14 final size:14
Alignment explanation
Indices: 23746620--23746651 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
23746610 ATCATTCGTA
23746620 ATTTTCTTGGAATC
1 ATTTTCTTGGAATC
23746634 ATTTTCTTGGAATC
1 ATTTTCTTGGAATC
23746648 ATTT
1 ATTT
23746652 ATAATTGTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.22, C:0.12, G:0.12, T:0.53
Consensus pattern (14 bp):
ATTTTCTTGGAATC
Found at i:23750258 original size:19 final size:19
Alignment explanation
Indices: 23750236--23750281 Score: 67
Period size: 18 Copynumber: 2.5 Consensus size: 19
23750226 AATGAACAGT
* *
23750236 AAAAAAAATGTTGAAATCG
1 AAAAAAAATGATGAAAACG
23750255 AAAAAAAA-GATGAAAACG
1 AAAAAAAATGATGAAAACG
23750273 AAAAAAAAT
1 AAAAAAAAT
23750282 AAAAAAAGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 16 0.67
19 8 0.33
ACGTcount: A:0.70, C:0.04, G:0.13, T:0.13
Consensus pattern (19 bp):
AAAAAAAATGATGAAAACG
Found at i:23750420 original size:17 final size:16
Alignment explanation
Indices: 23750398--23750448 Score: 56
Period size: 15 Copynumber: 3.4 Consensus size: 16
23750388 GGAAAGAAAT
23750398 GAGAAGAGAAGAAAAA
1 GAGAAGAGAAGAAAAA
23750414 GGAGAAG-GAA-AAAAA
1 -GAGAAGAGAAGAAAAA
*
23750429 GA-AAGAAAAGAAAAA
1 GAGAAGAGAAGAAAAA
23750444 -AGAAG
1 GAGAAG
23750449 GTATAACTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
13 3 0.10
14 5 0.17
15 13 0.43
16 3 0.10
17 6 0.20
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (16 bp):
GAGAAGAGAAGAAAAA
Found at i:23750586 original size:23 final size:25
Alignment explanation
Indices: 23750534--23750590 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
23750524 TTATTTTTTG
*
23750534 TTGTTAGTAAAAACCCCATATTATTA
1 TTGTTAGTAAAAAACCCATA-TATTA
23750560 TTGTTAGTAAAAAACCC-TA-ATTA
1 TTGTTAGTAAAAAACCCATATATTA
23750583 TTGTTAGT
1 TTGTTAGT
23750591 TATTATTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 12 0.40
25 2 0.07
26 16 0.53
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.40
Consensus pattern (25 bp):
TTGTTAGTAAAAAACCCATATATTA
Found at i:23755915 original size:72 final size:72
Alignment explanation
Indices: 23755829--23755973 Score: 202
Period size: 72 Copynumber: 2.0 Consensus size: 72
23755819 ATCTGCCCCC
* * * *
23755829 TGACGAGCCCGGGAAATAGTTATTACTCGAAAAATCTGGATGATAATAAGTATCAG-CTGAATGT
1 TGACGAGCCCGGGAAATAGTCATTACCCGAAAAATCCGGATGATAAGAAGTATCAGTC-GAATGT
23755893 GAATGCGA
65 GAATGCGA
* * **
23755901 TGACGAGCCTGGGAAATAGTCATTGCCCGCCAAATCCGGATGATAAGAAGTATCAGTCGAATGTG
1 TGACGAGCCCGGGAAATAGTCATTACCCGAAAAATCCGGATGATAAGAAGTATCAGTCGAATGTG
23755966 AATGCGA
66 AATGCGA
23755973 T
1 T
23755974 TGCTTGGACT
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
72 63 0.98
73 1 0.02
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (72 bp):
TGACGAGCCCGGGAAATAGTCATTACCCGAAAAATCCGGATGATAAGAAGTATCAGTCGAATGTG
AATGCGA
Found at i:23758036 original size:22 final size:22
Alignment explanation
Indices: 23758010--23758054 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
23758000 CTCCTCCTCC
23758010 TCCTTATTCTTC-TTCTCTTCTT
1 TCCTTATTC-TCATTCTCTTCTT
* *
23758032 TCCTTCTTCTCATTCTTTTCTT
1 TCCTTATTCTCATTCTCTTCTT
23758054 T
1 T
23758055 TTCTTCTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 2 0.10
22 18 0.90
ACGTcount: A:0.04, C:0.31, G:0.00, T:0.64
Consensus pattern (22 bp):
TCCTTATTCTCATTCTCTTCTT
Found at i:23758064 original size:23 final size:25
Alignment explanation
Indices: 23758019--23758072 Score: 76
Period size: 23 Copynumber: 2.2 Consensus size: 25
23758009 CTCCTTATTC
*
23758019 TTCTTCTCTTCTTTCCTTCTTCTCA
1 TTCTTTTCTTCTTTCCTTCTTCTCA
*
23758044 TTCTTTTCTT-TTT-CTTCTTCTCC
1 TTCTTTTCTTCTTTCCTTCTTCTCA
23758067 TTCTTT
1 TTCTTT
23758073 GTTCCCGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 15 0.56
24 3 0.11
25 9 0.33
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.67
Consensus pattern (25 bp):
TTCTTTTCTTCTTTCCTTCTTCTCA
Found at i:23759148 original size:67 final size:67
Alignment explanation
Indices: 23759068--23759215 Score: 163
Period size: 67 Copynumber: 2.2 Consensus size: 67
23759058 AAATGCAAAT
** * * * * ***
23759068 AGATTTTGCAAATGTAAATGAAAGGCGATT-TCAATATAATTATTATGGTGATTTTGATATTGTA
1 AGATTTTATAAATGTAAATGAAAGGCGATTGT-AATACAATTATTATGGTAATTCTAATACAATA
*
23759132 TTA
65 CTA
* * *
23759135 AGATTTTATAAATGTAAATGAATGGTGATTGTAGTACAATTATTATGGTAATTCTAATACAATAC
1 AGATTTTATAAATGTAAATGAAAGGCGATTGTAATACAATTATTATGGTAATTCTAATACAATAC
23759200 TA
66 TA
23759202 AGATTTTATAAATG
1 AGATTTTATAAATG
23759216 AATAACAATT
Statistics
Matches: 67, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
67 66 0.99
68 1 0.01
ACGTcount: A:0.39, C:0.05, G:0.16, T:0.41
Consensus pattern (67 bp):
AGATTTTATAAATGTAAATGAAAGGCGATTGTAATACAATTATTATGGTAATTCTAATACAATAC
TA
Found at i:23759247 original size:42 final size:44
Alignment explanation
Indices: 23759200--23759310 Score: 136
Period size: 49 Copynumber: 2.5 Consensus size: 44
23759190 AATACAATAC
*
23759200 TAAGATTTTATAAATGAATAA-CAATTCAAAAGCAAA-GCAAAT
1 TAAGATTTTATAAATGAATAATCAATGCAAAAGCAAATGCAAAT
*
23759242 TAAGATTTTATAAATGAACGATAATTTCAATGCAAATGCAAATGCAAAT
1 TAAGATTTTATAAATG-A--ATAA--TCAATGCAAAAGCAAATGCAAAT
*
23759291 TAAGATTTTACAAATGAATA
1 TAAGATTTTATAAATGAATA
23759311 TTGATGATTC
Statistics
Matches: 59, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
42 16 0.27
43 1 0.02
45 4 0.07
46 3 0.05
48 14 0.24
49 21 0.36
ACGTcount: A:0.50, C:0.09, G:0.11, T:0.30
Consensus pattern (44 bp):
TAAGATTTTATAAATGAATAATCAATGCAAAAGCAAATGCAAAT
Found at i:23759819 original size:41 final size:38
Alignment explanation
Indices: 23759774--23759861 Score: 92
Period size: 36 Copynumber: 2.3 Consensus size: 38
23759764 AATGGAACAA
*
23759774 TTTATTTATATACTACACTAAAATATGTTATGTGTAAATAT
1 TTTA-TTATATACT--ACTAAAATATATTATGTGTAAATAT
* *
23759815 TTTA-TATAT-GTACTAAATTATATTATGTGTAAATAT
1 TTTATTATATACTACTAAAATATATTATGTGTAAATAT
23759851 TTT-TATATATA
1 TTTAT-TATATA
23759862 AAAATAGAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
36 26 0.63
37 5 0.12
38 1 0.02
39 5 0.12
41 4 0.10
ACGTcount: A:0.39, C:0.05, G:0.07, T:0.50
Consensus pattern (38 bp):
TTTATTATATACTACTAAAATATATTATGTGTAAATAT
Found at i:23759830 original size:36 final size:37
Alignment explanation
Indices: 23759790--23759860 Score: 117
Period size: 36 Copynumber: 1.9 Consensus size: 37
23759780 TATATACTAC
*
23759790 ACTAAAATATGTTATGTGTAAATA-TTTTATATATGT
1 ACTAAAATATATTATGTGTAAATATTTTTATATATGT
*
23759826 ACTAAATTATATTATGTGTAAATATTTTTATATAT
1 ACTAAAATATATTATGTGTAAATATTTTTATATAT
23759861 AAAAATAGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
36 22 0.69
37 10 0.31
ACGTcount: A:0.39, C:0.03, G:0.08, T:0.49
Consensus pattern (37 bp):
ACTAAAATATATTATGTGTAAATATTTTTATATATGT
Found at i:23759856 original size:16 final size:16
Alignment explanation
Indices: 23759801--23759856 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 16
23759791 CTAAAATATG
23759801 TTATGTGTAAATATTT
1 TTATGTGTAAATATTT
*
23759817 TATATATGTACTAA-ATTAT
1 T-TATGTGTA--AATATT-T
23759836 ATTATGTGTAAATATTT
1 -TTATGTGTAAATATTT
23759853 TTAT
1 TTAT
23759857 ATATAAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
16 5 0.16
17 10 0.31
18 6 0.19
19 10 0.31
20 1 0.03
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.54
Consensus pattern (16 bp):
TTATGTGTAAATATTT
Found at i:23763339 original size:20 final size:21
Alignment explanation
Indices: 23763300--23763341 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
23763290 ACTCAAACCT
**
23763300 CAAACCTTTGAACTTTAAACA
1 CAAACCTTTGAACTCCAAACA
23763321 CAAACC-TTGAACTCCAAACA
1 CAAACCTTTGAACTCCAAACA
23763341 C
1 C
23763342 GTAACCTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.43, C:0.31, G:0.05, T:0.21
Consensus pattern (21 bp):
CAAACCTTTGAACTCCAAACA
Found at i:23763425 original size:7 final size:7
Alignment explanation
Indices: 23763409--23763448 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
23763399 GAACATCGAA
23763409 GTTCAAG
1 GTTCAAG
*
23763416 GTTTAAG
1 GTTCAAG
*
23763423 GTTCAGG
1 GTTCAAG
23763430 GTTCAAG
1 GTTCAAG
*
23763437 GTTCGAG
1 GTTCAAG
23763444 GTTCA
1 GTTCA
23763449 GGTAAAAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.23, C:0.12, G:0.33, T:0.33
Consensus pattern (7 bp):
GTTCAAG
Found at i:23763435 original size:21 final size:21
Alignment explanation
Indices: 23763409--23763450 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
23763399 GAACATCGAA
*
23763409 GTTCAAGGTTTAAGGTTCAGG
1 GTTCAAGGTTCAAGGTTCAGG
*
23763430 GTTCAAGGTTCGAGGTTCAGG
1 GTTCAAGGTTCAAGGTTCAGG
23763451 TAAAAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.21, C:0.12, G:0.36, T:0.31
Consensus pattern (21 bp):
GTTCAAGGTTCAAGGTTCAGG
Found at i:23764149 original size:17 final size:17
Alignment explanation
Indices: 23764110--23764151 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
23764100 TAAATTAATT
*
23764110 AACAAAAGAACAAGACA
1 AACAAACGAACAAGACA
23764127 AA-AAACGAATCAAGA-A
1 AACAAACGAA-CAAGACA
23764143 AACAAACGA
1 AACAAACGA
23764152 TTAATAACCA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.69, C:0.17, G:0.12, T:0.02
Consensus pattern (17 bp):
AACAAACGAACAAGACA
Found at i:23764472 original size:71 final size:71
Alignment explanation
Indices: 23764356--23764763 Score: 816
Period size: 71 Copynumber: 5.7 Consensus size: 71
23764346 GTGAGATTAA
23764356 TTACGAAAATGGTATATTTTTTGGGTGGAGCCTTTTTCATAGGCGTTTTCACCTTTTTTTATAAT
1 TTACGAAAATGGTATATTTTTTGGGTGGAGCCTTTTTCATAGGCGTTTTCACCTTTTTTTATAAT
23764421 AATTTT
66 AATTTT
23764427 TTACGAAAATGGTATATTTTTTGGGTGGAGCCTTTTTCATAGGCGTTTTCACCTTTTTTTATAAT
1 TTACGAAAATGGTATATTTTTTGGGTGGAGCCTTTTTCATAGGCGTTTTCACCTTTTTTTATAAT
23764492 AATTTT
66 AATTTT
23764498 TTACGAAAATGGTATATTTTTTGGGTGGAGCCTTTTTCATAGGCGTTTTCACCTTTTTTTATAAT
1 TTACGAAAATGGTATATTTTTTGGGTGGAGCCTTTTTCATAGGCGTTTTCACCTTTTTTTATAAT
23764563 AATTTT
66 AATTTT
23764569 TTACGAAAATGGTATATTTTTTGGGTGGAGCCTTTTTCATAGGCGTTTTCACCTTTTTTTATAAT
1 TTACGAAAATGGTATATTTTTTGGGTGGAGCCTTTTTCATAGGCGTTTTCACCTTTTTTTATAAT
23764634 AATTTT
66 AATTTT
23764640 TTACGAAAATGGTATATTTTTTGGGTGGAGCCTTTTTCATAGGCGTTTTCACCTTTTTTTATAAT
1 TTACGAAAATGGTATATTTTTTGGGTGGAGCCTTTTTCATAGGCGTTTTCACCTTTTTTTATAAT
23764705 AATTTT
66 AATTTT
23764711 TTACGAAAATGGTATATTTTTTGGGTGGAGCCTTTTTCATAGGCGTTTTCACC
1 TTACGAAAATGGTATATTTTTTGGGTGGAGCCTTTTTCATAGGCGTTTTCACC
23764764 CACTAGCCCT
Statistics
Matches: 337, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 337 1.00
ACGTcount: A:0.22, C:0.12, G:0.18, T:0.48
Consensus pattern (71 bp):
TTACGAAAATGGTATATTTTTTGGGTGGAGCCTTTTTCATAGGCGTTTTCACCTTTTTTTATAAT
AATTTT
Found at i:23765544 original size:18 final size:18
Alignment explanation
Indices: 23765523--23765559 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
23765513 TATTCTTGCT
23765523 ATCAATTTTATCAAAATA
1 ATCAATTTTATCAAAATA
23765541 ATCAATTTTATCAAAATA
1 ATCAATTTTATCAAAATA
23765559 A
1 A
23765560 GGTTTTAGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (18 bp):
ATCAATTTTATCAAAATA
Found at i:23771068 original size:12 final size:12
Alignment explanation
Indices: 23771048--23771080 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
23771038 TACGTAATCT
*
23771048 GAATGATCTTTA
1 GAATAATCTTTA
23771060 GAATAATCTTTA
1 GAATAATCTTTA
23771072 GAATAATCT
1 GAATAATCT
23771081 GATATCTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.39
Consensus pattern (12 bp):
GAATAATCTTTA
Found at i:23772256 original size:23 final size:22
Alignment explanation
Indices: 23772184--23772271 Score: 92
Period size: 21 Copynumber: 4.1 Consensus size: 22
23772174 TACCTGATCA
*
23772184 GAATACGACACATAA-GTGCCT
1 GAATACGACACACAAGGTGCCT
*
23772205 GAA-ACGACACACGAGGTGCCT
1 GAATACGACACACAAGGTGCCT
* *
23772226 -ACTGCGACACACAAGGTGCCT
1 GAATACGACACACAAGGTGCCT
* *
23772247 GAAATACGACACATAAAGTGCCT
1 G-AATACGACACACAAGGTGCCT
23772270 GA
1 GA
23772272 TCAATAAAGC
Statistics
Matches: 54, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
20 10 0.19
21 25 0.46
22 1 0.02
23 18 0.33
ACGTcount: A:0.36, C:0.26, G:0.23, T:0.15
Consensus pattern (22 bp):
GAATACGACACACAAGGTGCCT
Found at i:23772268 original size:44 final size:41
Alignment explanation
Indices: 23772189--23772269 Score: 99
Period size: 44 Copynumber: 1.9 Consensus size: 41
23772179 GATCAGAATA
* * *
23772189 CGACACATAAGTGCCTGAAACGACACACGAGGTGCCTACTG
1 CGACACACAAGTGCCTGAAACGACACACAAAGTGCCTACTG
*
23772230 CGACACACAAGGTGCCTGAAATACGACACATAAAGTGCCT
1 CGACACACAA-GTGCCTG-AA-ACGACACACAAAGTGCCT
23772270 GATCAATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
41 9 0.27
42 7 0.21
43 2 0.06
44 15 0.45
ACGTcount: A:0.35, C:0.28, G:0.22, T:0.15
Consensus pattern (41 bp):
CGACACACAAGTGCCTGAAACGACACACAAAGTGCCTACTG
Found at i:23772488 original size:23 final size:24
Alignment explanation
Indices: 23772462--23772556 Score: 93
Period size: 28 Copynumber: 3.6 Consensus size: 24
23772452 AAATGTCCAA
23772462 CCAAAACACACCAG-TATAATCCT
1 CCAAAACACACCAGATATAATCCT
23772485 CCAAAACACACCAGTATCATATAATCCT
1 CCAAAACACACCAG----ATATAATCCT
*
23772513 CCCAAACACACCAGAATAATATAATCCAT
1 CCAAAACACACCAG----ATATAATCC-T
23772542 CCAAAACACACCAGA
1 CCAAAACACACCAGA
23772557 ATAGCACAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
23 14 0.23
25 1 0.02
28 33 0.53
29 14 0.23
ACGTcount: A:0.46, C:0.34, G:0.04, T:0.16
Consensus pattern (24 bp):
CCAAAACACACCAGATATAATCCT
Found at i:23772558 original size:29 final size:28
Alignment explanation
Indices: 23772476--23772559 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
23772466 AACACACCAG
* *
23772476 TATAATCCTCCAAAACACACCAGTATCA
1 TATAATCCTCCAAAACACACCAGAATAA
*
23772504 TATAATCCTCCCAAACACACCAGAATAA
1 TATAATCCTCCAAAACACACCAGAATAA
23772532 TATAATCCATCCAAAACACACCAGAATA
1 TATAATCC-TCCAAAACACACCAGAATA
23772560 GCACAAAGTG
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 33 0.65
29 18 0.35
ACGTcount: A:0.46, C:0.31, G:0.04, T:0.19
Consensus pattern (28 bp):
TATAATCCTCCAAAACACACCAGAATAA
Found at i:23778310 original size:43 final size:42
Alignment explanation
Indices: 23778258--23778389 Score: 106
Period size: 43 Copynumber: 3.3 Consensus size: 42
23778248 TTAATAACTG
23778258 AAATGGCAAAAAAGTCATTACCTAAATACAAAGTTGACTATGT
1 AAATGGCAAAAAAGTCATTACCTAAATACAAAGTTGACTAT-T
* *
23778301 AAATTGCAAAAAA---A--ACCT---TA-AAA-TT-AATAATT
1 AAATGGCAAAAAAGTCATTACCTAAATACAAAGTTGACT-ATT
* *
23778333 GAAATGGCGAAAAAGTCATTACATAAATACAAAGTTGACTATTT
1 -AAATGGCAAAAAAGTCATTACCTAAATACAAAGTTGACTA-TT
*
23778377 AAATTGCAAAAAA
1 AAATGGCAAAAAA
23778390 CCCCTAAAAT
Statistics
Matches: 67, Mismatches: 8, Indels: 28
0.65 0.08 0.27
Matches are distributed among these distances:
32 3 0.04
33 15 0.22
34 3 0.04
35 2 0.03
36 1 0.01
38 7 0.10
40 1 0.01
41 2 0.03
42 3 0.04
43 26 0.39
44 4 0.06
ACGTcount: A:0.52, C:0.11, G:0.11, T:0.26
Consensus pattern (42 bp):
AAATGGCAAAAAAGTCATTACCTAAATACAAAGTTGACTATT
Found at i:23778336 original size:155 final size:152
Alignment explanation
Indices: 23778125--23778458 Score: 426
Period size: 155 Copynumber: 2.2 Consensus size: 152
23778115 TTACGTAAAT
* * * *
23778125 AATACAAAGTTTATTATTTAAATTACAAAAAAAAAACCCAAAAATTAATAACTGAAATGATGAAA
1 AATACAAAGTTGACTATGTAAATTAC-AAAAAAAAACCCAAAAATTAATAACTGAAATGACGAAA
*
23778190 AAGTCATTACATAAATACAAAATTGACTATTTAAATTGCAAAAAAAAAGACCCTAAAGTTAATAA
65 AAGTCATTACATAAATACAAAATTGACTATTTAAATTGC---AAAAAA-ACCCTAAAATTAATAA
* ** *
23778255 CTGAAATGGCAAAAAAGTCATTACCTA
126 CTAAAATGAAAAAAAAGTCATTACATA
* ** * *
23778282 AATACAAAGTTGACTATGTAAATTGC-AAAAAAAACCTTAAAATTAATAATTGAAATGGCGAAAA
1 AATACAAAGTTGACTATGTAAATTACAAAAAAAAACCCAAAAATTAATAACTGAAATGACGAAAA
* *
23778346 AGTCATTACATAAATACAAAGTTGACTATTTAAATTGCAAAAAACCCCTAAAATTAATAACTAAA
66 AGTCATTACATAAATACAAAATTGACTATTTAAATTGCAAAAAAACCCTAAAATTAATAACTAAA
*
23778411 ATGAAAAAAAAGTCATTATATA
131 ATGAAAAAAAAGTCATTACATA
*
23778433 AATATAAAGTT-A-T-T-TAAATTACAAAA
1 AATACAAAGTTGACTATGTAAATTACAAAA
23778459 CCCCCTAAAA
Statistics
Matches: 157, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
147 7 0.04
148 4 0.03
149 1 0.01
150 1 0.01
151 46 0.29
152 6 0.04
155 70 0.45
157 22 0.14
ACGTcount: A:0.54, C:0.11, G:0.08, T:0.27
Consensus pattern (152 bp):
AATACAAAGTTGACTATGTAAATTACAAAAAAAAACCCAAAAATTAATAACTGAAATGACGAAAA
AGTCATTACATAAATACAAAATTGACTATTTAAATTGCAAAAAAACCCTAAAATTAATAACTAAA
ATGAAAAAAAAGTCATTACATA
Found at i:23778360 original size:76 final size:77
Alignment explanation
Indices: 23778125--23778443 Score: 410
Period size: 76 Copynumber: 4.1 Consensus size: 77
23778115 TTACGTAAAT
* * * * **
23778125 AATACAAAGTTTATTATTTAAATTACAAAAAAAAAACCCAAAAATTAATAACTGAAATGATGAAA
1 AATACAAAGTTGACTATTTAAATTGC-AAAAAAAAACCCTAAAATTAATAACTGAAATGACAAAA
23778190 AAGTCATTACATA
65 AAGTCATTACATA
* * *
23778203 AATACAAAATTGACTATTTAAATTGCAAAAAAAAAGACCCTAAAGTTAATAACTGAAATGGCAAA
1 AATACAAAGTTGACTATTTAAATTGC-AAAAAAAA-ACCCTAAAATTAATAACTGAAATGACAAA
*
23778268 AAAGTCATTACCTA
64 AAAGTCATTACATA
* * * * *
23778282 AATACAAAGTTGACTATGTAAATTGC-AAAAAAAACCTTAAAATTAATAATTGAAATGGCGAAAA
1 AATACAAAGTTGACTATTTAAATTGCAAAAAAAAACCCTAAAATTAATAACTGAAATGACAAAAA
23778346 AGTCATTACATA
66 AGTCATTACATA
* * *
23778358 AATACAAAGTTGACTATTTAAATTGC--AAAAAACCCCTAAAATTAATAACTAAAATGAAAAAAA
1 AATACAAAGTTGACTATTTAAATTGCAAAAAAAAACCCTAAAATTAATAACTGAAATGACAAAAA
*
23778421 AGTCATTATATA
66 AGTCATTACATA
*
23778433 AATATAAAGTT
1 AATACAAAGTT
23778444 ATTTAAATTA
Statistics
Matches: 213, Mismatches: 27, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
75 51 0.24
76 63 0.30
77 7 0.03
78 31 0.15
79 61 0.29
ACGTcount: A:0.54, C:0.11, G:0.09, T:0.26
Consensus pattern (77 bp):
AATACAAAGTTGACTATTTAAATTGCAAAAAAAAACCCTAAAATTAATAACTGAAATGACAAAAA
AGTCATTACATA
Found at i:23778689 original size:33 final size:33
Alignment explanation
Indices: 23778641--23778712 Score: 101
Period size: 33 Copynumber: 2.2 Consensus size: 33
23778631 AGAAGTAGTA
*
23778641 GAGTACGGCTGTGGATACGGGCCGGGAGGAGTG
1 GAGTACGGCTGTGGATACGGGCCGGGAGGACTG
* *
23778674 GAGTACGGC-GATGGATACGGGTCGGGATGACTG
1 GAGTACGGCTG-TGGATACGGGCCGGGAGGACTG
23778707 GAGTAC
1 GAGTAC
23778713 TGAGGTGGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
32 1 0.03
33 34 0.97
ACGTcount: A:0.21, C:0.15, G:0.47, T:0.17
Consensus pattern (33 bp):
GAGTACGGCTGTGGATACGGGCCGGGAGGACTG
Found at i:23780685 original size:104 final size:104
Alignment explanation
Indices: 23780581--23780928 Score: 592
Period size: 104 Copynumber: 3.3 Consensus size: 104
23780571 TATAAAAAAT
*
23780581 TTACATTAAT-AAAAAATCACAAAACACTAAACTAAACACTAACAATTTAGATAACCTAATTATA
1 TTACATTACTAAAAAAATCACAAAACACTAAACTAAACACTAACAATTTAGATAACCTAATTATA
23780645 AATTACTAACAAAATAACTATAAAATTATTATTTTTAAA
66 AATTACTAACAAAATAACTATAAAATTATTATTTTTAAA
23780684 TTACATTACTAAAAAAATCACAAAACACTAAACTAAACACTAACAATTTAGATAACCTAATTATA
1 TTACATTACTAAAAAAATCACAAAACACTAAACTAAACACTAACAATTTAGATAACCTAATTATA
23780749 AATTACTAACAAAATAACTATAAAATTATTATTTTTAAA
66 AATTACTAACAAAATAACTATAAAATTATTATTTTTAAA
23780788 TTACATTACTAAAAAAATCACAAAACACTAAACTAAACACTAACAATTTAGATAACCTAATTATA
1 TTACATTACTAAAAAAATCACAAAACACTAAACTAAACACTAACAATTTAGATAACCTAATTATA
* * *
23780853 AATTACTAACAAAAAAACTATAAAAATATT-TTTTAAAAATAAT
66 AATTACTAACAAAATAACTATAAAATTATTATTTT-----TAAA
*
23780896 TTACATTACTAAAAAAATCACAAAACACAAAAC
1 TTACATTACTAAAAAAATCACAAAACACTAAAC
23780929 ACTAACATAA
Statistics
Matches: 234, Mismatches: 5, Indels: 7
0.95 0.02 0.03
Matches are distributed among these distances:
103 13 0.06
104 186 0.79
108 35 0.15
ACGTcount: A:0.55, C:0.15, G:0.01, T:0.29
Consensus pattern (104 bp):
TTACATTACTAAAAAAATCACAAAACACTAAACTAAACACTAACAATTTAGATAACCTAATTATA
AATTACTAACAAAATAACTATAAAATTATTATTTTTAAA
Found at i:23780934 original size:72 final size:70
Alignment explanation
Indices: 23780857--23781065 Score: 190
Period size: 71 Copynumber: 2.9 Consensus size: 70
23780847 ATTATAAATT
* *
23780857 ACTAACAAAAAAACTATA-AAAATATTTTTTA-AAAATAATTT-ACATTACTAAAAAAATCACAA
1 ACTAACAAAAAAACTA-ACAAAATA--ATTAACAAAATAATTTGACATTA--AAAAAAATCACAA
23780919 AACACAAAAC
61 AACACAAAAC
** *
23780929 ACTAACATAAATTACTAACAAAATAATTAACAAAATAATTTGACATTAATAAAAATCACAAAACA
1 ACTAACA-AAAAAACTAACAAAATAATTAACAAAATAATTTGACATTAAAAAAAATCACAAAACA
*
23780994 CAAAAT
65 CAAAAC
* * * * *
23781000 ACTAACAATTTATAACCTAATCATAAATTACTAACAAAATAATTTTACATTAATAAAAAATCACA
1 ACTAACAA---AAAAACTAA-CA-AAATAATTAACAAAATAATTTGACATTAA-AAAAAATCACA
23781065 A
60 A
23781066 CATACTAAAC
Statistics
Matches: 113, Mismatches: 14, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
70 1 0.01
71 31 0.27
72 18 0.16
73 24 0.21
74 2 0.02
75 26 0.23
76 11 0.10
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.26
Consensus pattern (70 bp):
ACTAACAAAAAAACTAACAAAATAATTAACAAAATAATTTGACATTAAAAAAAATCACAAAACAC
AAAAC
Found at i:23780959 original size:12 final size:12
Alignment explanation
Indices: 23780944--23780968 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23780934 CATAAATTAC
23780944 TAACAAAATAAT
1 TAACAAAATAAT
23780956 TAACAAAATAAT
1 TAACAAAATAAT
23780968 T
1 T
23780969 TGACATTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (12 bp):
TAACAAAATAAT
Found at i:23781004 original size:71 final size:74
Alignment explanation
Indices: 23780888--23781065 Score: 220
Period size: 71 Copynumber: 2.4 Consensus size: 74
23780878 ATATTTTTTA
* *
23780888 AAAATAATTTACATTACTAAAAAAATCACAAAACACAAAACACTAAC-ATAAATTA-CTAA-CA-
1 AAAATAATTTACATTA--ATAAAAATCACAAAACACAAAACACTAACAATAAATAACCTAATCAT
*
23780949 AAATAATTAAC
64 AAATAACTAAC
* **
23780960 AAAATAATTTGACATTAATAAAAATCACAAAACACAAAATACTAACAATTTATAACCTAATCATA
1 AAAATAATTT-ACATTAATAAAAATCACAAAACACAAAACACTAACAATAAATAACCTAATCATA
*
23781025 AATTACTAAC
65 AATAACTAAC
23781035 AAAATAATTTTACATTAATAAAAAATCACAA
1 AAAATAA-TTTACATTAAT-AAAAATCACAA
23781066 CATACTAAAC
Statistics
Matches: 92, Mismatches: 7, Indels: 10
0.84 0.06 0.09
Matches are distributed among these distances:
71 27 0.29
72 15 0.16
73 10 0.11
74 2 0.02
75 24 0.26
76 14 0.15
ACGTcount: A:0.59, C:0.15, G:0.01, T:0.25
Consensus pattern (74 bp):
AAAATAATTTACATTAATAAAAATCACAAAACACAAAACACTAACAATAAATAACCTAATCATAA
ATAACTAAC
Found at i:23781112 original size:80 final size:75
Alignment explanation
Indices: 23780888--23781126 Score: 247
Period size: 80 Copynumber: 3.2 Consensus size: 75
23780878 ATATTTTTTA
* ** *
23780888 AAAATAA-TTTACATTACTAAAAAAATCACAAAACACAAAACACTAAC-ATAAATTAC-TAA-CA
1 AAAATAATTTTACATTA--ATAAAAATCACAAAACACAAAACACTAACAATTTATAACATAATCA
* *
23780949 -AAATAATTAAC
64 TAAATTACTAAC
* * *
23780960 AAAATAATTTGACATTAATAAAAATCACAAAACACAAAATACTAACAATTTATAACCTAATCATA
1 AAAATAATTTTACATTAATAAAAATCACAAAACACAAAACACTAACAATTTATAACATAATCATA
23781025 AATTACTAAC
66 AATTACTAAC
* *
23781035 AAAATAATTTTACATTAATAAAAAATCACAACATACTAAACTAAACAC-AACAATTTATAATATA
1 AAAATAATTTTACATTAAT-AAAAATCACAA-A-AC---ACAAAACACTAACAATTTATAACATA
*
23781099 ATCCTAAATTACTAAC
60 ATCATAAATTACTAAC
*
23781115 AAAACAATTTTA
1 AAAATAATTTTA
23781127 AAACAATTAT
Statistics
Matches: 141, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
71 27 0.19
72 13 0.09
73 11 0.08
74 2 0.01
75 27 0.19
76 11 0.08
77 1 0.01
78 2 0.01
80 40 0.28
81 7 0.05
ACGTcount: A:0.57, C:0.16, G:0.00, T:0.26
Consensus pattern (75 bp):
AAAATAATTTTACATTAATAAAAATCACAAAACACAAAACACTAACAATTTATAACATAATCATA
AATTACTAAC
Found at i:23781303 original size:4 final size:4
Alignment explanation
Indices: 23781288--23781341 Score: 51
Period size: 4 Copynumber: 13.5 Consensus size: 4
23781278 ATAATACATA
*
23781288 TCTT TTTT TCTT TCTT TCTT TCTT TC-T TC-T TC-T TCTTT TCTT CTCCTT
1 TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TC-TT TCTT -T-CTT
23781336 TCTT TC
1 TCTT TC
23781342 CCTCTTTTCT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
3 9 0.20
4 27 0.61
5 5 0.11
6 3 0.07
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (4 bp):
TCTT
Found at i:23785964 original size:43 final size:43
Alignment explanation
Indices: 23785898--23786068 Score: 188
Period size: 43 Copynumber: 4.0 Consensus size: 43
23785888 AGCTCATACA
* * *
23785898 ATGCCAACGTCCCAGAC-GTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACACGAAATCAAATATCG
* * *
23785941 ATGCCATTGTCCCAAACAGGGTCTTACATGAAATCAAATAT-G
1 ATGCCAATGTCCCAGACAGGGTCTTACACGAAATCAAATATCG
* *
23785983 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCTCAA-ATCG
1 ATGCCAATGTCCCAGACAGGGTCTTACACG-AAATC-AAATATCG
* *
23786027 ATGCCAACGTCCCAGAC-GTGGTCTTACACAAAATCAAATATC
1 ATGCCAATGTCCCAGACAG-GGTCTTACACGAAATCAAATATC
23786069 AAAATCCTAT
Statistics
Matches: 109, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
42 29 0.27
43 50 0.46
44 30 0.28
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGGGTCTTACACGAAATCAAATATCG
Found at i:23786061 original size:86 final size:85
Alignment explanation
Indices: 23785898--23786067 Score: 218
Period size: 86 Copynumber: 2.0 Consensus size: 85
23785888 AGCTCATACA
* * **
23785898 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCATTGTCCCAAACAGGGT
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCAACGTCCCAAACAGGGT
**
23785963 CTTACATGAAATCAAATATG
66 CTTACACAAAATCAAATATG
* * *
23785983 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCTCAA-ATCGATGCCAACGTCCCAGAC-GT
1 ATGCCAACGTCCCAGACATGGTCTTACACGT-AATC-AAATATCGATGCCAACGTCCCAAACAG-
23786046 GGTCTTACACAAAATCAAATAT
63 GGTCTTACACAAAATCAAATAT
23786068 CAAAATCCTA
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
85 29 0.40
86 42 0.58
87 2 0.03
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (85 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCAACGTCCCAAACAGGGT
CTTACACAAAATCAAATATG
Found at i:23793108 original size:21 final size:20
Alignment explanation
Indices: 23793084--23793128 Score: 72
Period size: 21 Copynumber: 2.2 Consensus size: 20
23793074 AAATGGTAAG
*
23793084 TATGCAAATGCAATGTATAT
1 TATGAAAATGCAATGTATAT
23793104 ATATGAAAATGCAATGTATAT
1 -TATGAAAATGCAATGTATAT
23793125 TATG
1 TATG
23793129 GTAACATTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.42, C:0.07, G:0.16, T:0.36
Consensus pattern (20 bp):
TATGAAAATGCAATGTATAT
Found at i:23796775 original size:17 final size:17
Alignment explanation
Indices: 23796755--23796787 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
23796745 TAGAATTGGG
23796755 TTGAGAAAATAATTTAA
1 TTGAGAAAATAATTTAA
*
23796772 TTGAGAAATTAATTTA
1 TTGAGAAAATAATTTA
23796788 GTTAATTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.39
Consensus pattern (17 bp):
TTGAGAAAATAATTTAA
Found at i:23796802 original size:21 final size:21
Alignment explanation
Indices: 23796778--23796823 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
23796768 TTAATTGAGA
* *
23796778 AATTAATTTAGTTAATTAATT
1 AATTAAATTAGTTAATTAAAT
* *
23796799 AATTAAATTATTTGATTAAAT
1 AATTAAATTAGTTAATTAAAT
23796820 AATT
1 AATT
23796824 TTTTGAAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (21 bp):
AATTAAATTAGTTAATTAAAT
Found at i:23805216 original size:13 final size:13
Alignment explanation
Indices: 23805198--23805228 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
23805188 TTCTGGGTAA
23805198 AAAAAAAAAAAAC
1 AAAAAAAAAAAAC
*
23805211 AAAAAACAAAAAC
1 AAAAAAAAAAAAC
23805224 AAAAA
1 AAAAA
23805229 GGCTCTACGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAAC
Found at i:23809482 original size:19 final size:21
Alignment explanation
Indices: 23809453--23809494 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
23809443 CCACCTTCTC
23809453 TTTCAAAG-TTTCCTTTGAAT
1 TTTCAAAGTTTTCCTTTGAAT
23809473 TTTC-AAGTTTTTCCTTTGAAT
1 TTTCAAAG-TTTTCCTTTGAAT
23809494 T
1 T
23809495 ATACAAGGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 3 0.15
20 4 0.20
21 13 0.65
ACGTcount: A:0.21, C:0.14, G:0.10, T:0.55
Consensus pattern (21 bp):
TTTCAAAGTTTTCCTTTGAAT
Found at i:23811796 original size:55 final size:55
Alignment explanation
Indices: 23811701--23811805 Score: 151
Period size: 55 Copynumber: 1.9 Consensus size: 55
23811691 CAGGGACGAC
*
23811701 ACTAAAATATTGTCAAAATATAATTTCTCTCATTTTATAATTTATATTTTATGAA
1 ACTAAAATATTCTCAAAATATAATTTCTCTCATTTTATAATTTATATTTTATGAA
* *
23811756 ACTAAAATATTCTCAAAATGTTATTTCAT-T-ATTTTAATAATTTATATTTT
1 ACTAAAATATTCTCAAAATATAATTTC-TCTCATTTT-ATAATTTATATTTT
23811806 CATAATTTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
54 5 0.11
55 39 0.87
56 1 0.02
ACGTcount: A:0.39, C:0.09, G:0.03, T:0.50
Consensus pattern (55 bp):
ACTAAAATATTCTCAAAATATAATTTCTCTCATTTTATAATTTATATTTTATGAA
Found at i:23811995 original size:124 final size:124
Alignment explanation
Indices: 23811857--23812107 Score: 502
Period size: 124 Copynumber: 2.0 Consensus size: 124
23811847 AGTTACCAGG
23811857 TTAAAATTTTAAAAAAATTAAAACTCCCCGAGGAGAGAAGAAAGCAACTAGTAAGCCGAAAAAAA
1 TTAAAATTTTAAAAAAATTAAAACTCCCCGAGGAGAGAAGAAAGCAACTAGTAAGCCGAAAAAAA
23811922 AAACCCTTACATAAAACACATTTACAATGCAGACTCTTGTTTTAAACTTAAGATATATT
66 AAACCCTTACATAAAACACATTTACAATGCAGACTCTTGTTTTAAACTTAAGATATATT
23811981 TTAAAATTTTAAAAAAATTAAAACTCCCCGAGGAGAGAAGAAAGCAACTAGTAAGCCGAAAAAAA
1 TTAAAATTTTAAAAAAATTAAAACTCCCCGAGGAGAGAAGAAAGCAACTAGTAAGCCGAAAAAAA
23812046 AAACCCTTACATAAAACACATTTACAATGCAGACTCTTGTTTTAAACTTAAGATATATT
66 AAACCCTTACATAAAACACATTTACAATGCAGACTCTTGTTTTAAACTTAAGATATATT
23812105 TTA
1 TTA
23812108 TACATGATCA
Statistics
Matches: 127, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
124 127 1.00
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.25
Consensus pattern (124 bp):
TTAAAATTTTAAAAAAATTAAAACTCCCCGAGGAGAGAAGAAAGCAACTAGTAAGCCGAAAAAAA
AAACCCTTACATAAAACACATTTACAATGCAGACTCTTGTTTTAAACTTAAGATATATT
Found at i:23813627 original size:6 final size:7
Alignment explanation
Indices: 23813609--23813637 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
23813599 ATAAAAATAT
23813609 ATTTTTA
1 ATTTTTA
23813616 ATTTTTA
1 ATTTTTA
23813623 ATTTTTA
1 ATTTTTA
23813630 ATTTTTA
1 ATTTTTA
23813637 A
1 A
23813638 ATAGTAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (7 bp):
ATTTTTA
Found at i:23821881 original size:21 final size:22
Alignment explanation
Indices: 23821838--23821882 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
23821828 AATAAAATAA
23821838 ATTTAGTTTTGATTGTGAATTT
1 ATTTAGTTTTGATTGTGAATTT
23821860 ATTTAGTTTTGCATT-T-AATTT
1 ATTTAGTTTTG-ATTGTGAATTT
23821881 AT
1 AT
23821883 CAAACAAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 7 0.32
22 12 0.55
23 3 0.14
ACGTcount: A:0.24, C:0.02, G:0.13, T:0.60
Consensus pattern (22 bp):
ATTTAGTTTTGATTGTGAATTT
Found at i:23830190 original size:40 final size:40
Alignment explanation
Indices: 23830146--23830249 Score: 181
Period size: 40 Copynumber: 2.6 Consensus size: 40
23830136 AGCACAAATG
*
23830146 CCTTCGGGACTTAACCCGATTATAATAACCCACACGAATA
1 CCTTCGGGACTTAACCCGGTTATAATAACCCACACGAATA
* *
23830186 CCTTCGGGACTTAACCCGGTTATAATAACCCGCACGAATG
1 CCTTCGGGACTTAACCCGGTTATAATAACCCACACGAATA
23830226 CCTTCGGGACTTAACCCGGTTATA
1 CCTTCGGGACTTAACCCGGTTATA
23830250 TTTTTTTTTC
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 61 1.00
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAACCCGGTTATAATAACCCACACGAATA
Found at i:23832888 original size:23 final size:25
Alignment explanation
Indices: 23832862--23832908 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
23832852 TATCATTCAT
*
23832862 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
23832885 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
23832909 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:23835993 original size:35 final size:35
Alignment explanation
Indices: 23835953--23836026 Score: 148
Period size: 35 Copynumber: 2.1 Consensus size: 35
23835943 TTAATTTTTT
23835953 TTCTTTTATGTTCTTTTAACTCTTTTGTTTTTCCA
1 TTCTTTTATGTTCTTTTAACTCTTTTGTTTTTCCA
23835988 TTCTTTTATGTTCTTTTAACTCTTTTGTTTTTCCA
1 TTCTTTTATGTTCTTTTAACTCTTTTGTTTTTCCA
23836023 TTCT
1 TTCT
23836027 CTTCTGTTTC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.11, C:0.18, G:0.05, T:0.66
Consensus pattern (35 bp):
TTCTTTTATGTTCTTTTAACTCTTTTGTTTTTCCA
Found at i:23836034 original size:18 final size:18
Alignment explanation
Indices: 23835972--23836035 Score: 62
Period size: 18 Copynumber: 3.6 Consensus size: 18
23835962 GTTCTTTTAA
23835972 CTCTTTTGTTTTTCCATT
1 CTCTTTTGTTTTTCCATT
* *
23835990 CT-TTTATGTTCTTT-TA-A
1 CTCTTT-TGTT-TTTCCATT
23836007 CTCTTTTGTTTTTCCATT
1 CTCTTTTGTTTTTCCATT
*
23836025 CTCTTCTGTTT
1 CTCTTTTGTTT
23836036 CTCGCTCTGT
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
16 3 0.08
17 10 0.28
18 20 0.56
19 3 0.08
ACGTcount: A:0.08, C:0.20, G:0.06, T:0.66
Consensus pattern (18 bp):
CTCTTTTGTTTTTCCATT
Found at i:23837802 original size:53 final size:53
Alignment explanation
Indices: 23837722--23837824 Score: 145
Period size: 53 Copynumber: 1.9 Consensus size: 53
23837712 CCATGGCAAC
23837722 ATGTGACAATATGCTCCCGTATAAGACCATAGCT-AGACTATGGCATCGGTATG
1 ATGTGACAATATGCTCCCGTATAAGACCATAGCTGAGA-TATGGCATCGGTATG
* * * * *
23837775 ATGTGATAATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATCGGT
1 ATGTGACAATATGCTCCCGTATAAGACCATAGCTGAGATATGGCATCGGT
23837825 GATATATGTG
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
53 42 0.95
54 2 0.05
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.29
Consensus pattern (53 bp):
ATGTGACAATATGCTCCCGTATAAGACCATAGCTGAGATATGGCATCGGTATG
Found at i:23837851 original size:47 final size:46
Alignment explanation
Indices: 23837777--23837868 Score: 148
Period size: 47 Copynumber: 2.0 Consensus size: 46
23837767 TCGGTATGAT
*
23837777 GTGATAATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATCG
1 GTGATAATGTGCTTCCGTATAAAACCATATCTGGGATATGGCATCG
* *
23837823 GTGATATATGTGCTTCTGTGTAAAACCATATCTGGGATATGGCATC
1 GTGATA-ATGTGCTTCCGTATAAAACCATATCTGGGATATGGCATC
23837869 AGTATGATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
46 6 0.14
47 36 0.86
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (46 bp):
GTGATAATGTGCTTCCGTATAAAACCATATCTGGGATATGGCATCG
Found at i:23838601 original size:24 final size:25
Alignment explanation
Indices: 23838555--23838609 Score: 85
Period size: 24 Copynumber: 2.2 Consensus size: 25
23838545 GATACACGGG
*
23838555 CGTATATTTTGGGCCCTCGTAGGCC
1 CGTATATTTTGGGCCCTCATAGGCC
*
23838580 TGTATATTTTGGG-CCTCATAGGCC
1 CGTATATTTTGGGCCCTCATAGGCC
23838604 CGTATA
1 CGTATA
23838610 AGGGACTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 15 0.56
25 12 0.44
ACGTcount: A:0.16, C:0.24, G:0.25, T:0.35
Consensus pattern (25 bp):
CGTATATTTTGGGCCCTCATAGGCC
Found at i:23842691 original size:2 final size:2
Alignment explanation
Indices: 23842686--23842712 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
23842676 TATATATATA
23842686 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
23842713 ATCATGTACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:23845033 original size:19 final size:19
Alignment explanation
Indices: 23845009--23845047 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
23844999 TTTTATGGTA
* *
23845009 ATAAAATCTGTCCGAAGTT
1 ATAAAATCTCTCCAAAGTT
23845028 ATAAAATCTCTCCAAAGTT
1 ATAAAATCTCTCCAAAGTT
23845047 A
1 A
23845048 AAGCTATCCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (19 bp):
ATAAAATCTCTCCAAAGTT
Found at i:23845113 original size:24 final size:22
Alignment explanation
Indices: 23845072--23845126 Score: 56
Period size: 24 Copynumber: 2.4 Consensus size: 22
23845062 GTGCATATTG
*
23845072 AATTGAATTTGAACAAATTTTTAA
1 AATT-AATTTGAACAAA-TTATAA
* *
23845096 AATTCAATTTGGATAAATTATAA
1 AATT-AATTTGAACAAATTATAA
23845119 AATTAATT
1 AATTAATT
23845127 ATAAATTATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 4 0.15
23 9 0.33
24 14 0.52
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.42
Consensus pattern (22 bp):
AATTAATTTGAACAAATTATAA
Found at i:23845414 original size:27 final size:27
Alignment explanation
Indices: 23845384--23845469 Score: 72
Period size: 27 Copynumber: 3.1 Consensus size: 27
23845374 GGATTGAAAT
23845384 GAGAAAGATAAAGATTAAGAGCTAAAA
1 GAGAAAGATAAAGATTAAGAGCTAAAA
* * *
23845411 GAG--AGTTTGAAAG-TGTAAG-GATTGAAAT
1 GAGAAAG-AT-AAAGAT-TAAGAG-CT-AAAA
23845439 GAGAAAGATAAAGATTAAGAGCTAAAA
1 GAGAAAGATAAAGATTAAGAGCTAAAA
23845466 GAGA
1 GAGA
23845470 GTTATTTTAC
Statistics
Matches: 44, Mismatches: 6, Indels: 18
0.65 0.09 0.26
Matches are distributed among these distances:
25 2 0.05
26 3 0.07
27 19 0.43
28 15 0.34
29 3 0.07
30 2 0.05
ACGTcount: A:0.52, C:0.02, G:0.27, T:0.19
Consensus pattern (27 bp):
GAGAAAGATAAAGATTAAGAGCTAAAA
Found at i:23845445 original size:55 final size:55
Alignment explanation
Indices: 23845361--23845472 Score: 206
Period size: 55 Copynumber: 2.0 Consensus size: 55
23845351 TTTTATGTAA
**
23845361 TTTGAAAGTGTGGGGATTGAAATGAGAAAGATAAAGATTAAGAGCTAAAAGAGAG
1 TTTGAAAGTGTAAGGATTGAAATGAGAAAGATAAAGATTAAGAGCTAAAAGAGAG
23845416 TTTGAAAGTGTAAGGATTGAAATGAGAAAGATAAAGATTAAGAGCTAAAAGAGAG
1 TTTGAAAGTGTAAGGATTGAAATGAGAAAGATAAAGATTAAGAGCTAAAAGAGAG
23845471 TT
1 TT
23845473 ATTTTACTCT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.46, C:0.02, G:0.29, T:0.23
Consensus pattern (55 bp):
TTTGAAAGTGTAAGGATTGAAATGAGAAAGATAAAGATTAAGAGCTAAAAGAGAG
Found at i:23857734 original size:19 final size:19
Alignment explanation
Indices: 23857710--23857746 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
23857700 AATAGTAAAA
* *
23857710 AGACAATTATAAATATATT
1 AGACAAATACAAATATATT
23857729 AGACAAATACAAATATAT
1 AGACAAATACAAATATAT
23857747 GTTTAATTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.57, C:0.08, G:0.05, T:0.30
Consensus pattern (19 bp):
AGACAAATACAAATATATT
Found at i:23861742 original size:33 final size:32
Alignment explanation
Indices: 23861674--23861788 Score: 90
Period size: 33 Copynumber: 3.5 Consensus size: 32
23861664 GTGCCATAGA
* * *
23861674 CCAATTATGATCTTACA-CAAGCATTGTCATGAC
1 CCAACTATGGTCTTACATC-AG-ATTGTCATAAC
*
23861707 CCAACTATGGTCTTACATTC-GTATTGCCATAAC
1 CCAACTATGGTCTTACA-TCAG-ATTGTCATAAC
** * **
23861740 CCAGTTATGGTCTTATCATCAGAATGTCATAGT
1 CCAACTATGGTCTTA-CATCAGATTGTCATAAC
23861773 CCAACTATGGTCTTAC
1 CCAACTATGGTCTTAC
23861789 TTATAATTAC
Statistics
Matches: 65, Mismatches: 13, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
32 1 0.02
33 60 0.92
34 3 0.05
35 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (32 bp):
CCAACTATGGTCTTACATCAGATTGTCATAAC
Found at i:23861748 original size:66 final size:66
Alignment explanation
Indices: 23861665--23861788 Score: 148
Period size: 66 Copynumber: 1.9 Consensus size: 66
23861655 GTTGTCTTTG
*
23861665 TGCCATAGACCAATTATGATCTTA-CA-CAAGCATTGTCAT-GACCCAACTATGGTCTTACATTC
1 TGCCATAGACCAATTATGATCTTATCATC-AG-AATGTCATAG-CCCAACTATGGTCTTACATTC
23861727 GTAT
63 GTAT
* * *
23861731 TGCCATA-ACCCAGTTATGGTCTTATCATCAGAATGTCATAGTCCAACTATGGTCTTAC
1 TGCCATAGA-CCAATTATGATCTTATCATCAGAATGTCATAGCCCAACTATGGTCTTAC
23861789 TTATAATTAC
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
65 1 0.02
66 43 0.86
67 5 0.10
68 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (66 bp):
TGCCATAGACCAATTATGATCTTATCATCAGAATGTCATAGCCCAACTATGGTCTTACATTCGTA
T
Found at i:23861846 original size:101 final size:101
Alignment explanation
Indices: 23861698--23861923 Score: 276
Period size: 101 Copynumber: 2.2 Consensus size: 101
23861688 ACACAAGCAT
** * ** * *
23861698 TGTCATGACCCAACTATGGTCTTACATTCGTATTGCCATAACCCAGTTATGGTCTTATCATCAGA
1 TGTCATGGTCCAACCATGGTCTTACATTCAAAGTGCCATAACCCAGTTATGGTCTTATCATCAAA
* * **
23861763 ATGTCATAGTCC-AACTATGGTCTTACTTATAATTAC
66 ATGCCATAG-CCTAACTATGGTCTTACATATAAACAC
* * * *
23861799 TG-CTATGGTCCAACCATGGTCTTACGTTCAAAGTGCCATAACGCAGTTATGGTCTTTTCATTAA
1 TGTC-ATGGTCCAACCATGGTCTTACATTCAAAGTGCCATAACCCAGTTATGGTCTTATCATCAA
*
23861863 AATGCCATAGCCTAGCTATGGTCTTACATATAAACAC
65 AATGCCATAGCCTAACTATGGTCTTACATATAAACAC
23861900 TGTCATGGTCCAACCATGGTCTTA
1 TGTCATGGTCCAACCATGGTCTTA
23861924 TCCATCAATT
Statistics
Matches: 106, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
100 3 0.03
101 102 0.96
102 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (101 bp):
TGTCATGGTCCAACCATGGTCTTACATTCAAAGTGCCATAACCCAGTTATGGTCTTATCATCAAA
ATGCCATAGCCTAACTATGGTCTTACATATAAACAC
Found at i:23862785 original size:5 final size:5
Alignment explanation
Indices: 23862775--23862799 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
23862765 CATAAGAAGG
23862775 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
23862800 GTATATTAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:23870272 original size:22 final size:25
Alignment explanation
Indices: 23870224--23870276 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
23870214 ATTTTAAAAT
* *
23870224 AAATAATATGTATATAAAAGGAGTA
1 AAATAATATGTATATAAAAGAACTA
23870249 AAATAATATGTA-A-AAAA-AACTA
1 AAATAATATGTATATAAAAGAACTA
23870271 AAATAA
1 AAATAA
23870277 ATAATAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 9 0.35
23 4 0.15
24 1 0.04
25 12 0.46
ACGTcount: A:0.64, C:0.02, G:0.09, T:0.25
Consensus pattern (25 bp):
AAATAATATGTATATAAAAGAACTA
Found at i:23870396 original size:20 final size:19
Alignment explanation
Indices: 23870373--23870412 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
23870363 TTTAAAATGT
23870373 TATATAACAAGTTAAAAAAA
1 TATATAACAAG-TAAAAAAA
* *
23870393 TATATAATATGTAAAAAAA
1 TATATAACAAGTAAAAAAA
23870412 T
1 T
23870413 TAAAAAAAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (19 bp):
TATATAACAAGTAAAAAAA
Found at i:23872554 original size:45 final size:45
Alignment explanation
Indices: 23872483--23872953 Score: 210
Period size: 45 Copynumber: 10.7 Consensus size: 45
23872473 TTTAGCCTAT
* * *
23872483 TCCACTGCAACTTCAAGGAAATAAGATTTGTTGTCTTCGATCTGC
1 TCCACTGCAACTTCAGGGAGACAAGATTTGTTGTCTTCGATCTGC
* **** * *
23872528 TCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTC-AGCCTAC
1 TCCACTGCAACTTCAGGGAGACAAGATTTGTTGTCTTCGA-TCTGC
* ** * * * * ** *
23872573 TCAACTATAACTT-AGGGAGATAGGA-TAG-TGGCTTAAATTTGC
1 TCCACTGCAACTTCAGGGAGACAAGATTTGTTGTCTTCGATCTGC
* * *
23872615 TTCACTGCAACTTCAGGAAGACAAGATTCGTTGTCTTCGATCTGC
1 TCCACTGCAACTTCAGGGAGACAAGATTTGTTGTCTTCGATCTGC
* * **** * *
23872660 TCCACTGCAATTTCAGGGAGACAAGATCTACAATCTTC-AGCCTAC
1 TCCACTGCAACTTCAGGGAGACAAGATTTGTTGTCTTCGA-TCTGC
* * * * * **
23872705 TCCACTACAACTT-AGGGAGATAGGA--TGGTGGCTTAAATCTGC
1 TCCACTGCAACTTCAGGGAGACAAGATTTGTTGTCTTCGATCTGC
* * * *
23872747 TTCACTGCAACTTCAGGAAGACAAGATTCGTCGTCTTCGATCTGC
1 TCCACTGCAACTTCAGGGAGACAAGATTTGTTGTCTTCGATCTGC
* * * * * **** * * *
23872792 TCAATTGCGACTTTAGGGAGACAAGATCTACAATCTT-TAGCCTAC
1 TCCACTGCAACTTCAGGGAGACAAGATTTGTTGTCTTCGA-TCTGC
* * * * * * **
23872837 TCCATTACAACTT-AGGGAGATAGGA--TGGTGGCTTAAATCTGC
1 TCCACTGCAACTTCAGGGAGACAAGATTTGTTGTCTTCGATCTGC
* * * * * *
23872879 TTCACTACAACTTCAGGAAGACAAGATTTGTCGTCTTTGATCTGT
1 TCCACTGCAACTTCAGGGAGACAAGATTTGTTGTCTTCGATCTGC
*
23872924 TCCACTGCAATTTCAGGGAGACAAGATTTG
1 TCCACTGCAACTTCAGGGAGACAAGATTTG
23872954 CAATCTTCAG
Statistics
Matches: 297, Mismatches: 114, Indels: 30
0.67 0.26 0.07
Matches are distributed among these distances:
42 50 0.17
43 30 0.10
44 35 0.12
45 182 0.61
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (45 bp):
TCCACTGCAACTTCAGGGAGACAAGATTTGTTGTCTTCGATCTGC
Found at i:23872722 original size:132 final size:132
Alignment explanation
Indices: 23872485--23873346 Score: 1088
Period size: 132 Copynumber: 6.5 Consensus size: 132
23872475 TAGCCTATTC
* * * *
23872485 CACTGCAACTTCAAGGAA-ATAAGATTTGTTGTCTTCGATCTGCTCCACTGCAACTTCAGGGAGA
1 CACTGCAACTTC-AGGAAGACAAGATTCGTCGTCTTCGATCTGTTCCACTGCAACTTCAGGGAGA
* * * *
23872549 CAAGATCTACAATCTTCAGCCTACTCAACTATAACTTAGGGAGATAGGATAGTGGCTTAAATTTG
65 CAAGATCTACAATCTTCAGCCTACTCCACTACAACTTAGGGAGATAGGATGGTGGCTTAAATCTG
23872614 CTT
130 CTT
* * *
23872617 CACTGCAACTTCAGGAAGACAAGATTCGTTGTCTTCGATCTGCTCCACTGCAATTTCAGGGAGAC
1 CACTGCAACTTCAGGAAGACAAGATTCGTCGTCTTCGATCTGTTCCACTGCAACTTCAGGGAGAC
23872682 AAGATCTACAATCTTCAGCCTACTCCACTACAACTTAGGGAGATAGGATGGTGGCTTAAATCTGC
66 AAGATCTACAATCTTCAGCCTACTCCACTACAACTTAGGGAGATAGGATGGTGGCTTAAATCTGC
23872747 TT
131 TT
* * * * *
23872749 CACTGCAACTTCAGGAAGACAAGATTCGTCGTCTTCGATCTGCTCAATTGCGACTTTAGGGAGAC
1 CACTGCAACTTCAGGAAGACAAGATTCGTCGTCTTCGATCTGTTCCACTGCAACTTCAGGGAGAC
* *
23872814 AAGATCTACAATCTTTAGCCTACTCCATTACAACTTAGGGAGATAGGATGGTGGCTTAAATCTGC
66 AAGATCTACAATCTTCAGCCTACTCCACTACAACTTAGGGAGATAGGATGGTGGCTTAAATCTGC
23872879 TT
131 TT
* * * *
23872881 CACTACAACTTCAGGAAGACAAGATTTGTCGTCTTTGATCTGTTCCACTGCAATTTCAGGGAGAC
1 CACTGCAACTTCAGGAAGACAAGATTCGTCGTCTTCGATCTGTTCCACTGCAACTTCAGGGAGAC
* * ** ** *
23872946 AAGATTTGCAATCTTCAGTTTACTCCACTACTGCTTAGAGAGATAGGATGGTGGCTTAAATCTGC
66 AAGATCTACAATCTTCAGCCTACTCCACTACAACTTAGGGAGATAGGATGGTGGCTTAAATCTGC
*
23873011 -A
131 TT
** * *
23873012 CTACTGCAACTTCA-GAGAGACAAGATTCACCGTCTTCGATCTGTTCCACTACAACTTCAAGGAG
1 C-ACTGCAACTTCAGGA-AGACAAGATTCGTCGTCTTCGATCTGTTCCACTGCAACTTCAGGGAG
* ** **
23873076 ACAAGATATGTAATCTTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCT
64 ACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTAGGGAGATAGGATGGTGGCTTAAATCT
*
23873141 GCTC
129 GCTT
* *** * * * * *
23873145 CACTACTGGTT-AGGGAGACAAGATTCGCCGTCTTTGATCTGTTCCACTGTAACTTCAAGGAGAC
1 CACTGCAACTTCAGGAAGACAAGATTCGTCGTCTTCGATCTGTTCCACTGCAACTTCAGGGAGAC
* * * *
23873209 AAGATCTGCAATCTTTAGCCTACTCCACTACTGA-TTAGGGATATAGGATGGTGGCTTAAATCTG
66 AAGATCTACAATCTTCAGCCTACTCCACTAC-AACTTAGGGAGATAGGATGGTGGCTTAAATCTG
*
23873273 CTC
130 CTT
* *** * ** *
23873276 CACTACTGGTT-AGGGAGACAAGATTCACCGTCTTCGATCTGTTCTACTGCAACTTCAGGGAGAC
1 CACTGCAACTTCAGGAAGACAAGATTCGTCGTCTTCGATCTGTTCCACTGCAACTTCAGGGAGAC
23873340 AAGATCT
66 AAGATCT
23873347 GTAAATTCAC
Statistics
Matches: 656, Mismatches: 68, Indels: 13
0.89 0.09 0.02
Matches are distributed among these distances:
131 180 0.27
132 475 0.72
133 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.29
Consensus pattern (132 bp):
CACTGCAACTTCAGGAAGACAAGATTCGTCGTCTTCGATCTGTTCCACTGCAACTTCAGGGAGAC
AAGATCTACAATCTTCAGCCTACTCCACTACAACTTAGGGAGATAGGATGGTGGCTTAAATCTGC
TT
Found at i:23873515 original size:64 final size:64
Alignment explanation
Indices: 23873414--23873538 Score: 196
Period size: 64 Copynumber: 2.0 Consensus size: 64
23873404 TCATGTATCT
* * * *
23873414 ATGCTTATGCCAAATGATTAGGATGCTATGATCGAAATGAATCAAATGTTCCTAATTAGATGTG
1 ATGCTTATGCCAAATAATTAGAATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
* *
23873478 ATGCTTATGTCAAATAATTAGAATGCTATGATCGAAATGAATCAAGTGCTCCTAACTAGAT
1 ATGCTTATGCCAAATAATTAGAATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGAT
23873539 ATGTTATGAA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
64 55 1.00
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAGAATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
Found at i:23874774 original size:49 final size:49
Alignment explanation
Indices: 23874680--23874777 Score: 126
Period size: 49 Copynumber: 2.0 Consensus size: 49
23874670 ATCGACGCTC
* * * * *
23874680 TTCCAGAGGAGGCCTTCTTTACCATATAAGGTCTTTTCCAGTTTGGCAT
1 TTCCAAAGGAGGCCTTCTTTACCACATAAGGTCTCTCCCAATTTGGCAT
*
23874729 TTCCAAAGGATGCCTTCTTTACCACATAAGGTC-CTCCCTAATTTGGCAT
1 TTCCAAAGGAGGCCTTCTTTACCACATAAGGTCTCTCCC-AATTTGGCAT
23874778 ACATTTTCCT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
48 3 0.07
49 39 0.93
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (49 bp):
TTCCAAAGGAGGCCTTCTTTACCACATAAGGTCTCTCCCAATTTGGCAT
Found at i:23877281 original size:19 final size:18
Alignment explanation
Indices: 23877238--23877285 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
23877228 TAGTGAAAGT
*
23877238 TGAATGCAAATGATGTAA
1 TGAATGCAAATGATGGAA
*
23877256 TACAATGCAAATGTATGGAA
1 T-GAATGCAAATG-ATGGAA
23877276 TGAATGCAAA
1 TGAATGCAAA
23877286 AGAAAGGAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 1 0.04
19 18 0.72
20 6 0.24
ACGTcount: A:0.46, C:0.08, G:0.21, T:0.25
Consensus pattern (18 bp):
TGAATGCAAATGATGGAA
Found at i:23879404 original size:22 final size:25
Alignment explanation
Indices: 23879356--23879408 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
23879346 ATTTTAAAAT
* *
23879356 AAATAATATGTATATAAAAGGAGTA
1 AAATAATATGTATATAAAAGAACTA
23879381 AAATAATATGTA-A-AAAA-AACTA
1 AAATAATATGTATATAAAAGAACTA
23879403 AAATAA
1 AAATAA
23879409 ATAATAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 9 0.35
23 4 0.15
24 1 0.04
25 12 0.46
ACGTcount: A:0.64, C:0.02, G:0.09, T:0.25
Consensus pattern (25 bp):
AAATAATATGTATATAAAAGAACTA
Found at i:23882871 original size:3 final size:3
Alignment explanation
Indices: 23882863--23883024 Score: 317
Period size: 3 Copynumber: 54.3 Consensus size: 3
23882853 AAGACGAGAT
23882863 ATA ATA ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
23882910 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
23882958 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
23883006 ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA A
23883025 AAGTGTGAGT
Statistics
Matches: 158, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
2 2 0.01
3 156 0.99
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:23883284 original size:3 final size:3
Alignment explanation
Indices: 23883276--23883321 Score: 56
Period size: 3 Copynumber: 15.3 Consensus size: 3
23883266 TAGATAAATA
* * * *
23883276 AAT AAT AAT AAT ATT AAT AAT ATT AAT GAC AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
23883322 TAGACACAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:23884383 original size:23 final size:23
Alignment explanation
Indices: 23884357--23884400 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
23884347 ATGTTGCACT
*
23884357 TGACTTGATTTTGTTACTGTTCA
1 TGACTTGATTTTGCTACTGTTCA
23884380 TGACTTGATTTTGCTACTGTT
1 TGACTTGATTTTGCTACTGTT
23884401 ATTTCTCTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.16, C:0.14, G:0.18, T:0.52
Consensus pattern (23 bp):
TGACTTGATTTTGCTACTGTTCA
Found at i:23885141 original size:89 final size:89
Alignment explanation
Indices: 23885048--23885439 Score: 251
Period size: 89 Copynumber: 4.4 Consensus size: 89
23885038 TTATAGCTTT
* * * * *
23885048 AATCTGCTCTACTACAACTTCAGATAGATAAGATTTGCT-ATCTTC-GATCCACTTCACTATAAC
1 AATCTGCTCCACTACAACTTCAGAGAGATAAGATTTG-TAACCTTCAG-TCCACTCCACTACAAC
23885111 TTCAGGGAGATAAGACTAGTGGATTC
64 TTCAGGGAGATAAGACTAGTGGATTC
* * * * *
23885137 AATCTGCTCCACTGCAACTTCTGGGAGATAAGATTTGTAACCTTCAGTCTACTCCACTGCAACTT
1 AATCTGCTCCACTACAACTTCAGAGAGATAAGATTTGTAACCTTCAGTCCACTCCACTACAACTT
* * * *
23885202 CAGGGAGATAAAATTTGT-AACTTC
66 CAGGGAGATAAGACTAGTGGA-TTC
* * * * * * * * * ** *
23885226 AACCTGCTCTACTGCAACTTTAGGGAAATAAGGTTTGTAACTTTTAGTCTGCTCCACTGCAACTT
1 AATCTGCTCCACTACAACTTCAGAGAGATAAGATTTGTAACCTTCAGTCCACTCCACTACAACTT
* * **
23885291 TAGGGAGATAAGACT-TTTAACTTC
66 CAGGGAGATAAGACTAGTGGA-TTC
* * ** * * * * * *
23885315 AACCTGCCCCACTGTAACTTCAGAGGGATAAGGTTTGCTAA-CTTCA-ACCTAATCCATTGCAAC
1 AATCTGCTCCACTACAACTTCAGAGAGATAAGATTTG-TAACCTTCAGTCC-ACTCCACTACAAC
* * * *
23885378 TTCAGGGAGATAAGATTTGT-AACTGC
64 TTCAGGGAGATAAGACTAGTGGA-TTC
*
23885404 AATCTACTCCACTGA-AACTTCAGAGAGATAAGATTT
1 AATCTGCTCCACT-ACAACTTCAGAGAGATAAGATTT
23885440 ATTATTTTCC
Statistics
Matches: 244, Mismatches: 51, Indels: 16
0.78 0.16 0.05
Matches are distributed among these distances:
88 4 0.02
89 235 0.96
90 5 0.02
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (89 bp):
AATCTGCTCCACTACAACTTCAGAGAGATAAGATTTGTAACCTTCAGTCCACTCCACTACAACTT
CAGGGAGATAAGACTAGTGGATTC
Found at i:23885201 original size:45 final size:44
Alignment explanation
Indices: 23884880--23885509 Score: 472
Period size: 44 Copynumber: 14.2 Consensus size: 44
23884870 ACTCTACTAT
** * * * *
23884880 AACTTCAGGGAGATTTGATTGGCATCTTCAATCTGCTCCATTGC
1 AACTTCAGGGAGATAAGATTTGTAACTTCAATCTGCTCCACTGC
* * *
23884924 AACTTCAGGGAGATAAGATTTTTAACTCGTAGCTTTAATCTGTTCCACTGT
1 AACTTCAGGGAGATAAGATTTGTAACT--T--C---AATCTGCTCCACTGC
* * * * * *
23884975 AACTTCAGGGAGATAAGACTAGTGACTTCAATCTACTCCAATGA
1 AACTTCAGGGAGATAAGATTTGTAACTTCAATCTGCTCCACTGC
* * * * * * *
23885019 AACTTCAGAGAGATAAGGTTTATAGCTTTAATCTGCTCTACTAC
1 AACTTCAGGGAGATAAGATTTGTAACTTCAATCTGCTCCACTGC
** * * ** * **
23885063 AACTTCAGATAGATAAGATTTGCTATCTTCGATCCACTTCACTAT
1 AACTTCAGGGAGATAAGATTTG-TAACTTCAATCTGCTCCACTGC
* * *
23885108 AACTTCAGGGAGATAAGACTAGTGGA-TTCAATCTGCTCCACTGC
1 AACTTCAGGGAGATAAGATTTGT-AACTTCAATCTGCTCCACTGC
* * *
23885152 AACTTCTGGGAGATAAGATTTGTAACCTTCAGTCTACTCCACTGC
1 AACTTCAGGGAGATAAGATTTGTAA-CTTCAATCTGCTCCACTGC
* * *
23885197 AACTTCAGGGAGATAAAATTTGTAACTTCAACCTGCTCTACTGC
1 AACTTCAGGGAGATAAGATTTGTAACTTCAATCTGCTCCACTGC
* * * * *
23885241 AACTTTAGGGAAATAAGGTTTGTAACTTTTAGTCTGCTCCACTGC
1 AACTTCAGGGAGATAAGATTTGTAAC-TTCAATCTGCTCCACTGC
* * * *
23885286 AACTTTAGGGAGATAAGACTTT-TAACTTCAACCTGCCCCACTGT
1 AACTTCAGGGAGATAAGA-TTTGTAACTTCAATCTGCTCCACTGC
* * ** *
23885330 AACTTCAGAGG-GATAAGGTTTGCTAACTTCAACCTAATCCATTGC
1 AACTTCAG-GGAGATAAGATTTG-TAACTTCAATCTGCTCCACTGC
* * *
23885375 AACTTCAGGGAGATAAGATTTGTAACTGCAATCTACTCCACTGA
1 AACTTCAGGGAGATAAGATTTGTAACTTCAATCTGCTCCACTGC
* *
23885419 AACTTCAGAGAGATAAGA-TT-T-A-TT--AT-T-TTCCACTGC
1 AACTTCAGGGAGATAAGATTTGTAACTTCAATCTGCTCCACTGC
* * * * * *
23885455 AACTTTAGAGAGATAAGGTTTGTGACTTTAATCTGCTCTACTGC
1 AACTTCAGGGAGATAAGATTTGTAACTTCAATCTGCTCCACTGC
23885499 AACTTCAGGGA
1 AACTTCAGGGA
23885510 TACGGGATTT
Statistics
Matches: 458, Mismatches: 103, Indels: 50
0.75 0.17 0.08
Matches are distributed among these distances:
36 23 0.05
37 3 0.01
38 3 0.01
39 1 0.00
40 3 0.01
41 1 0.00
42 3 0.01
43 7 0.02
44 230 0.50
45 142 0.31
46 4 0.01
47 1 0.00
48 1 0.00
49 1 0.00
51 35 0.08
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.32
Consensus pattern (44 bp):
AACTTCAGGGAGATAAGATTTGTAACTTCAATCTGCTCCACTGC
Found at i:23885212 original size:178 final size:177
Alignment explanation
Indices: 23884960--23885439 Score: 491
Period size: 178 Copynumber: 2.7 Consensus size: 177
23884950 TCGTAGCTTT
* * * * *
23884960 AATCTGTTCCACTGTAACTTCAGGGAGATAAGACTAGTGACTTCAATCTACTCCAATGAAACTTC
1 AATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGTAACTTCAATCTACTCCAATGCAACTTC
* * * * * * *
23885025 AGAGAGATAAGGTTTATAGCTTTAATCTGCTCTACTACAACTTCAGATAGATAAGATTTGCTATC
66 AGGGAGATAAGATTTGTAACTTCAATCTGCTCTACTACAACTTCAGAGAGATAAGATTTG-TAAC
* * *
23885090 TTCGA-TCCACTTCACTATAACTTCAGGGAGATAAGACTAGTGGA-TTC
130 TTCGAGTCCACTCCACTACAACTTCAGGGAGATAAGACT-GTGAACTTC
* * * *
23885137 AATCTGCTCCACTGCAACTTCTGGGAGATAAGATTTGTAACCTTCAGTCTACTCCACTGCAACTT
1 AATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGTAA-CTTCAATCTACTCCAATGCAACTT
* * * * * * *
23885202 CAGGGAGATAAAATTTGTAACTTCAACCTGCTCTACTGCAACTTTAGGGAAATAAGGTTTGTAAC
65 CAGGGAGATAAGATTTGTAACTTCAATCTGCTCTACTACAACTTCAGAGAGATAAGATTTGTAAC
** ** * * * *
23885267 TTTTAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTTTTAACTTC
130 TTCGAGTCCACTCCACTACAACTTCAGGGAGATAAGACTGTGAACTTC
* * * * * *
23885315 AACCTGCCCCACTGTAACTTCAGAGG-GATAAGGTTTGCTAACTTCAACCTAATCCATTGCAACT
1 AATCTGCTCCACTGTAACTTCAG-GGAGATAAGATTTG-TAACTTCAATCTACTCCAATGCAACT
* * *
23885379 TCAGGGAGATAAGATTTGTAACTGCAATCTACTCCACTGA-AACTTCAGAGAGATAAGATTT
64 TCAGGGAGATAAGATTTGTAACTTCAATCTGCTCTACT-ACAACTTCAGAGAGATAAGATTT
23885440 ATTATTTTCC
Statistics
Matches: 244, Mismatches: 53, Indels: 11
0.79 0.17 0.04
Matches are distributed among these distances:
177 42 0.17
178 197 0.81
179 5 0.02
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.30
Consensus pattern (177 bp):
AATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGTAACTTCAATCTACTCCAATGCAACTTC
AGGGAGATAAGATTTGTAACTTCAATCTGCTCTACTACAACTTCAGAGAGATAAGATTTGTAACT
TCGAGTCCACTCCACTACAACTTCAGGGAGATAAGACTGTGAACTTC
Found at i:23886396 original size:12 final size:12
Alignment explanation
Indices: 23886379--23886421 Score: 61
Period size: 12 Copynumber: 3.5 Consensus size: 12
23886369 TCTTTTCCTT
23886379 TTTTTTATTTTA
1 TTTTTTATTTTA
23886391 TTTTTTATTTTA
1 TTTTTTATTTTA
23886403 TTTTCTT-TCTTTA
1 TTTT-TTAT-TTTA
23886416 TTTTTT
1 TTTTTT
23886422 TTAGTAAAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
12 19 0.66
13 10 0.34
ACGTcount: A:0.12, C:0.05, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTTTATTTTA
Found at i:23886403 original size:17 final size:17
Alignment explanation
Indices: 23886377--23886424 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
23886367 TTTCTTTTCC
23886377 TTTT-TTTTATTTTATT
1 TTTTATTTTATTTTATT
*
23886393 TTTTATTTTATTTTCTT
1 TTTTATTTTATTTTATT
23886410 TCTTTATTTT-TTTTA
1 T-TTTATTTTATTTTA
23886425 GTAAAGTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 4 0.14
17 16 0.57
18 8 0.29
ACGTcount: A:0.12, C:0.04, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTATTTTATTTTATT
Found at i:23886940 original size:6 final size:6
Alignment explanation
Indices: 23886929--23886957 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
23886919 CCACACGATC
23886929 TTTTTG TTTTTG TTTTTG TTTTTG TTTTT
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTT
23886958 TTATTTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (6 bp):
TTTTTG
Found at i:23886964 original size:14 final size:14
Alignment explanation
Indices: 23886929--23886978 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
23886919 CCACACGATC
*
23886929 TTTTTGTTTTTG--
1 TTTTTATTTTTGTT
*
23886941 TTTTTGTTTTTGTT
1 TTTTTATTTTTGTT
*
23886955 TTTTTATTTTTATT
1 TTTTTATTTTTGTT
*
23886969 TTTATATTTT
1 TTTTTATTTT
23886979 ATATATTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
12 12 0.36
14 21 0.64
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.84
Consensus pattern (14 bp):
TTTTTATTTTTGTT
Found at i:23889703 original size:19 final size:20
Alignment explanation
Indices: 23889672--23889722 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
23889662 GGTTTTTTTG
* *
23889672 TGAAATTTAATGCATATG-A
1 TGAAATGTAATGCAAATGCA
*
23889691 TGCAATGTAATGCAAATGCA
1 TGAAATGTAATGCAAATGCA
23889711 TGAAATG-AATGC
1 TGAAATGTAATGC
23889723 CAAAAGAGGC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 20 0.74
20 7 0.26
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.29
Consensus pattern (20 bp):
TGAAATGTAATGCAAATGCA
Found at i:23891629 original size:3 final size:3
Alignment explanation
Indices: 23891621--23892014 Score: 788
Period size: 3 Copynumber: 131.3 Consensus size: 3
23891611 CGATATAGAA
23891621 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23891669 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23891717 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23891765 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23891813 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23891861 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23891909 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23891957 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23892005 AAT AAT AAT A
1 AAT AAT AAT A
23892015 TAGGCACAAA
Statistics
Matches: 391, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 391 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:23893078 original size:23 final size:23
Alignment explanation
Indices: 23893050--23893093 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
23893040 ATGTTACACT
*
23893050 TGACTTGATTTTGTTACTGTTCA
1 TGACTTGATTTTGCTACTGTTCA
23893073 TGACTTGATTTTGCTACTGTT
1 TGACTTGATTTTGCTACTGTT
23893094 ATTTCTCTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.16, C:0.14, G:0.18, T:0.52
Consensus pattern (23 bp):
TGACTTGATTTTGCTACTGTTCA
Found at i:23894481 original size:31 final size:32
Alignment explanation
Indices: 23894427--23894488 Score: 90
Period size: 31 Copynumber: 1.9 Consensus size: 32
23894417 ATACAAAGAA
*
23894427 AGTTTTTTTTTATAACCATAATCATAAACAAGTT
1 AGTTTTTTTTTAT-A-CAAAATCATAAACAAGTT
23894461 AGTTTTTTTTTAT-CAAAATCATAAACAA
1 AGTTTTTTTTTATACAAAATCATAAACAA
23894489 TTTAAATAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 14 0.52
34 13 0.48
ACGTcount: A:0.40, C:0.11, G:0.05, T:0.44
Consensus pattern (32 bp):
AGTTTTTTTTTATACAAAATCATAAACAAGTT
Found at i:23895681 original size:6 final size:6
Alignment explanation
Indices: 23895672--23895722 Score: 75
Period size: 6 Copynumber: 8.3 Consensus size: 6
23895662 AAATAAATAA
* *
23895672 AAAGTC AAAGTC AAAGTC AAAGTC AAAGTC AAAATC AAAAATC AAAGTC
1 AAAGTC AAAGTC AAAGTC AAAGTC AAAGTC AAAGTC -AAAGTC AAAGTC
23895721 AA
1 AA
23895723 GCCCCCCGAA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
6 36 0.86
7 6 0.14
ACGTcount: A:0.57, C:0.16, G:0.12, T:0.16
Consensus pattern (6 bp):
AAAGTC
Found at i:23895695 original size:18 final size:19
Alignment explanation
Indices: 23895666--23895722 Score: 80
Period size: 18 Copynumber: 3.1 Consensus size: 19
23895656 AATCACAAAT
*
23895666 AAATAAAAAGTCAAAGTCA
1 AAATCAAAAGTCAAAGTCA
*
23895685 AAGTC-AAAGTCAAAGTCA
1 AAATCAAAAGTCAAAGTCA
*
23895703 AAATCAAAAATCAAAGTCA
1 AAATCAAAAGTCAAAGTCA
23895722 A
1 A
23895723 GCCCCCCGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
18 17 0.52
19 16 0.48
ACGTcount: A:0.60, C:0.14, G:0.11, T:0.16
Consensus pattern (19 bp):
AAATCAAAAGTCAAAGTCA
Found at i:23899232 original size:31 final size:31
Alignment explanation
Indices: 23899197--23899259 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
23899187 AACAACCTAC
* *
23899197 TAACTTAAATAAAAATTTTTAAATAGTCTAG
1 TAACTTAAATAAAAACTTTCAAATAGTCTAG
*
23899228 TAACTTAAATAAAAACTTTCAAATAGTTTAG
1 TAACTTAAATAAAAACTTTCAAATAGTCTAG
23899259 T
1 T
23899260 GACAAAATTG
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:0.48, C:0.08, G:0.06, T:0.38
Consensus pattern (31 bp):
TAACTTAAATAAAAACTTTCAAATAGTCTAG
Found at i:23909125 original size:54 final size:53
Alignment explanation
Indices: 23909066--23909262 Score: 127
Period size: 54 Copynumber: 3.6 Consensus size: 53
23909056 TTATATTATA
23909066 TATTATATAATTATTTTATTATATATTATTTATTATATATTA-TTTATCACAAAT
1 TATTATATAATTATTTTATTATATATTATTTATTATATATTACTTTAT-A-AAAT
* ** * * *
23909120 TATTAT-TATTTTACATTATTATTTA-TATATTATTATATTTTTACTTGTATTATATATT
1 TATTATATA-ATTATTTTATTATATATTAT-TTATTATA-TATTACTT-TA-TA-A-AAT
* * * * *
23909178 TATTA-ATTATTTATATATATTATATATTATTTTTTAAATATATACTTT-T-ATAT
1 TATTATA-TAATTAT-TTTATTATATATTATTTATTATATAT-TACTTTATAAAAT
23909231 TATATATTATAATTATTTTATTATATATTATT
1 TAT-TA-TATAATTATTTTATTATATATTATT
23909263 ATGTCATTTT
Statistics
Matches: 110, Mismatches: 18, Indels: 30
0.70 0.11 0.19
Matches are distributed among these distances:
53 9 0.08
54 44 0.40
55 10 0.09
56 4 0.04
57 4 0.04
58 15 0.14
59 21 0.19
60 3 0.03
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.61
Consensus pattern (53 bp):
TATTATATAATTATTTTATTATATATTATTTATTATATATTACTTTATAAAAT
Found at i:23909220 original size:46 final size:44
Alignment explanation
Indices: 23909134--23909285 Score: 110
Period size: 46 Copynumber: 3.5 Consensus size: 44
23909124 ATTATTTTAC
* *
23909134 ATTATTATTTATATATTATTATAT-TT-TTACTTGT-ATTATATATTT
1 ATTATTATTTATATA-TATTATATATTATT--TTTTAAATATATA-TT
23909179 ATTAATTATTTATATATATTATATATTATTTTTTAAATATATACTT
1 ATT-ATTATTTATATATATTATATATTATTTTTTAAATATATA-TT
*
23909225 -TTA-TA--T-TATATATTATA-ATTATTTTATTATATAT-TATT
1 ATTATTATTTATATATATTATATATTATTTT-TTAAATATATATT
*
23909263 ATGTCATTTTTTATAT-TATTATA
1 AT-T-ATTATTTATATATATTATA
23909286 CATTTTTATC
Statistics
Matches: 90, Mismatches: 5, Indels: 25
0.75 0.04 0.21
Matches are distributed among these distances:
38 2 0.02
39 11 0.12
40 19 0.21
41 2 0.02
42 1 0.01
43 2 0.02
44 9 0.10
45 19 0.21
46 23 0.26
47 2 0.02
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (44 bp):
ATTATTATTTATATATATTATATATTATTTTTTAAATATATATT
Found at i:23909239 original size:99 final size:100
Alignment explanation
Indices: 23909066--23909256 Score: 214
Period size: 99 Copynumber: 1.9 Consensus size: 100
23909056 TTATATTATA
* * *
23909066 TATTATATAATTATTTTATTATATATTATTTATTATATATTATTTATCACAAATTATTATTATTT
1 TATTATATAATTATTTAATTATATATTATATATTATATATTATTTATCACAAATTATTATTATAT
23909131 TACATTATTAT-TTATATATTATTATATTTTTACTTG
66 TACATTATTATATTAT-T-TTATTATATTTTTACTTG
* * * *
23909167 TATTATATATTTA-TTAATTATTTA-TATATATTATATATTATTTTTTA-AATATATACTT-TTA
1 TATTATATAATTATTTAATTATATATTATATATTATATATTATTTATCACAA-AT-TA-TTATTA
*
23909228 TATTATA-TATTATAATTATTTTATTATAT
63 TATTACATTATTAT-ATTATTTTATTATAT
23909257 ATTATTATGT
Statistics
Matches: 77, Mismatches: 8, Indels: 12
0.79 0.08 0.12
Matches are distributed among these distances:
98 2 0.03
99 37 0.48
100 20 0.26
101 18 0.23
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.61
Consensus pattern (100 bp):
TATTATATAATTATTTAATTATATATTATATATTATATATTATTTATCACAAATTATTATTATAT
TACATTATTATATTATTTTATTATATTTTTACTTG
Done.