Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 162 of 185
Found at i:48575914 original size:24 final size:24
Alignment explanation
Indices: 48575870--48575948 Score: 88
Period size: 24 Copynumber: 3.2 Consensus size: 24
48575860 CCGGGCTTAA
*
48575870 TAACAGGAAGCTCACAAAGAGC-CT
1 TAACAGGAAGCTC-CGAAGAGCACT
* * *
48575894 ATATCGGGTAGCTCCGAAGAGCACT
1 -TAACAGGAAGCTCCGAAGAGCACT
48575919 TAACAGGAAGCTCCGAAGAGCACTT
1 TAACAGGAAGCTCCGAAGAGCAC-T
48575944 TAACA
1 TAACA
48575949 TAGAGCACCG
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
24 27 0.60
25 18 0.40
ACGTcount: A:0.37, C:0.24, G:0.23, T:0.16
Consensus pattern (24 bp):
TAACAGGAAGCTCCGAAGAGCACT
Found at i:48576293 original size:18 final size:19
Alignment explanation
Indices: 48576264--48576303 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
48576254 ATCGAGTTTC
* *
48576264 ATTCATTTTATCGGGACTT
1 ATTCATTTTATCAGGAATT
48576283 ATTCA-TTTATCAGGAATT
1 ATTCATTTTATCAGGAATT
48576301 ATT
1 ATT
48576304 AGATATGAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (19 bp):
ATTCATTTTATCAGGAATT
Found at i:48576542 original size:33 final size:33
Alignment explanation
Indices: 48576499--48576561 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
48576489 CTGAATCTAT
*
48576499 ATGAGTAAATTTAACATCAATTCTATCCAAGTC
1 ATGAGCAAATTTAACATCAATTCTATCCAAGTC
48576532 ATGAGCAAATTTAACATCAATTCTATCCAA
1 ATGAGCAAATTTAACATCAATTCTATCCAA
48576562 CTCACATCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (33 bp):
ATGAGCAAATTTAACATCAATTCTATCCAAGTC
Found at i:48580073 original size:46 final size:46
Alignment explanation
Indices: 48580001--48580188 Score: 313
Period size: 46 Copynumber: 4.1 Consensus size: 46
48579991 ACAATGCTAT
*
48580001 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCATTGAAATACCATACCTACTTTTCAC
* * *
48580047 AACTCAGTATGGTTTTTTTCATTGAAACACCATACCTATTTTTCAC
1 AACTCAGTATGGTTTTCTTCATTGAAATACCATACCTACTTTTCAC
*
48580093 AACTCAGTATGGTTTTCTTTATTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCATTGAAATACCATACCTACTTTTCAC
* *
48580139 AACTCTGTATGGTTTTCTTCATTGAAAAACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCATTGAAATACCATACCTACTTTTCAC
48580185 AACT
1 AACT
48580189 TTGCCATGGA
Statistics
Matches: 131, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 131 1.00
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.39
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCATTGAAATACCATACCTACTTTTCAC
Found at i:48585056 original size:18 final size:21
Alignment explanation
Indices: 48585020--48585058 Score: 57
Period size: 18 Copynumber: 2.0 Consensus size: 21
48585010 TGAGCTTTTC
48585020 ATTTTTAATATATATTTAAAT
1 ATTTTTAATATATATTTAAAT
48585041 ATTTTT-ATAT-TA-TTAAAT
1 ATTTTTAATATATATTTAAAT
48585059 TATATTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 2 0.11
20 4 0.22
21 6 0.33
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
ATTTTTAATATATATTTAAAT
Found at i:48585593 original size:161 final size:162
Alignment explanation
Indices: 48585328--48585650 Score: 630
Period size: 161 Copynumber: 2.0 Consensus size: 162
48585318 GGATTTTTAC
48585328 TTTTGTCTTATTGACTTGAAATGAATCATCAATTGCTCTTTACCAAATGATATAATCAAACATTT
1 TTTTGTCTTATTGACTTGAAATGAATCATCAATTGCTCTTTACCAAATGATATAATCAAACATTT
48585393 TTAATCTGCATGACTATATTCACTCGCACAGTGTGTAGGAAAAATTGAATACGAAGTAAACAACT
66 TTAATCTGCATGACTATATTCACTCGCACAGTGTGTAGGAAAAATTGAATACGAAGTAAACAACT
*
48585458 GGTTTG-CGCAAAAAAAAAAAAAAACCCAAGG
131 GGTTTGCCACAAAAAAAAAAAAAAACCCAAGG
48585489 TTTTGTCTTATTGACTTGAAATGAATCATCAATTGCTCTTTACCAAATGATATAATCAAACATTT
1 TTTTGTCTTATTGACTTGAAATGAATCATCAATTGCTCTTTACCAAATGATATAATCAAACATTT
48585554 TTAATCTGCATGACTATATTCACTCGCACAGTGTGTAGGAAAAATTGAATACGAAGTAAACAACT
66 TTAATCTGCATGACTATATTCACTCGCACAGTGTGTAGGAAAAATTGAATACGAAGTAAACAACT
48585619 GGTTTGCCACAAAAAAAAAAAAAAACCCAAGG
131 GGTTTGCCACAAAAAAAAAAAAAAACCCAAGG
48585651 GCCAAGTTGA
Statistics
Matches: 160, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
161 136 0.85
162 24 0.15
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (162 bp):
TTTTGTCTTATTGACTTGAAATGAATCATCAATTGCTCTTTACCAAATGATATAATCAAACATTT
TTAATCTGCATGACTATATTCACTCGCACAGTGTGTAGGAAAAATTGAATACGAAGTAAACAACT
GGTTTGCCACAAAAAAAAAAAAAAACCCAAGG
Found at i:48589623 original size:14 final size:14
Alignment explanation
Indices: 48589604--48589642 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
48589594 AAAGATAAAT
*
48589604 AAAAAATAAAACGA
1 AAAAAATAAAAAGA
*
48589618 AAAAAAGAAAAAGA
1 AAAAAATAAAAAGA
48589632 AAAAGAATAAA
1 AAAA-AATAAA
48589643 CTTAAAGGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 16 0.76
15 5 0.24
ACGTcount: A:0.82, C:0.03, G:0.10, T:0.05
Consensus pattern (14 bp):
AAAAAATAAAAAGA
Found at i:48589759 original size:16 final size:16
Alignment explanation
Indices: 48589729--48589802 Score: 80
Period size: 15 Copynumber: 4.7 Consensus size: 16
48589719 AAATCTAAGT
*
48589729 ATAAGAATAATAAATAA
1 ATAA-AATAAAAAATAA
*
48589746 ATAAAATAAAAAATTA
1 ATAAAATAAAAAATAA
**
48589762 GGAAAAT-AAAAATAA
1 ATAAAATAAAAAATAA
*
48589777 ATAATATAAAAAAT-A
1 ATAAAATAAAAAATAA
48589792 ATAAAATAAAA
1 ATAAAATAAAA
48589803 TAAAAGGGGT
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
15 22 0.47
16 21 0.45
17 4 0.09
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (16 bp):
ATAAAATAAAAAATAA
Found at i:48589778 original size:31 final size:30
Alignment explanation
Indices: 48589734--48589806 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 30
48589724 TAAGTATAAG
*
48589734 AATAATAAATAAATAAAATAAAAAATTAGGAA
1 AATAA-AAATAAATAAAATAAAAAA-TAAGAA
* *
48589766 AATAAAAATAAATAATATAAAAAATAATAA
1 AATAAAAATAAATAAAATAAAAAATAAGAA
48589796 AAT-AAAATAAA
1 AATAAAAATAAA
48589807 AGGGGTAGCT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
29 8 0.21
30 7 0.18
31 18 0.47
32 5 0.13
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (30 bp):
AATAAAAATAAATAAAATAAAAAATAAGAA
Found at i:48608776 original size:2 final size:2
Alignment explanation
Indices: 48608769--48608793 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
48608759 CTAGTCTCTT
48608769 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
48608794 TGTAAGCTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:48610313 original size:3 final size:3
Alignment explanation
Indices: 48610305--48610335 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
48610295 TGGAATAGTC
48610305 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
48610336 TTTTGCATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:48610709 original size:23 final size:22
Alignment explanation
Indices: 48610663--48610712 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
48610653 TCTGAATTTA
* *
48610663 TAAATTTTAAAAATAGAGAGAC
1 TAAATTTTAAAAATACAAAGAC
*
48610685 TAAATTTCTAAAAATACAAATAC
1 TAAATTT-TAAAAATACAAAGAC
48610708 TAAAT
1 TAAAT
48610713 GGTTAAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 7 0.29
23 17 0.71
ACGTcount: A:0.56, C:0.08, G:0.06, T:0.30
Consensus pattern (22 bp):
TAAATTTTAAAAATACAAAGAC
Found at i:48613855 original size:26 final size:26
Alignment explanation
Indices: 48613826--48613879 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
48613816 ATATATAGCC
* *
48613826 ATTCATAATAAATAATATATGAAATA
1 ATTCAAAATAAATAATATATAAAATA
* * *
48613852 ATTCAAAATACATCATATCTAAAATA
1 ATTCAAAATAAATAATATATAAAATA
48613878 AT
1 AT
48613880 ATAAAACAGT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.56, C:0.09, G:0.02, T:0.33
Consensus pattern (26 bp):
ATTCAAAATAAATAATATATAAAATA
Found at i:48613905 original size:24 final size:23
Alignment explanation
Indices: 48613873--48613959 Score: 79
Period size: 24 Copynumber: 3.6 Consensus size: 23
48613863 ATCATATCTA
*
48613873 AAATAATATA-AAACAGTTTAATAT
1 AAATAATATATAAA-AG-TTAAAAT
48613897 AAATAATATATAAAAGTTAAAAT
1 AAATAATATATAAAAGTTAAAAT
*
48613920 AAATAAAAATATAAAACTGTTAAAA-
1 AAAT-AATATATAAAA--GTTAAAAT
*
48613945 ATGATAATATATAAA
1 A-AATAATATATAAA
48613960 GGGAAAAAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
23 10 0.19
24 22 0.41
25 13 0.24
26 9 0.17
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (23 bp):
AAATAATATATAAAAGTTAAAAT
Found at i:48613907 original size:26 final size:26
Alignment explanation
Indices: 48613878--48613959 Score: 82
Period size: 25 Copynumber: 3.3 Consensus size: 26
48613868 ATCTAAAATA
*
48613878 ATATAAAACAGTTTAATATAAATAAT
1 ATATAAAACAGTTTAAAATAAATAAT
*
48613904 ATAT-AAA-AG-TTAAAATAAATAAAA
1 ATATAAAACAGTTTAAAATAAAT-AAT
* * *
48613928 ATATAAAACTGTTAAAAAT-GATAAT
1 ATATAAAACAGTTTAAAATAAATAAT
48613953 ATATAAA
1 ATATAAA
48613960 GGGAAAAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
23 10 0.22
24 8 0.17
25 15 0.33
26 7 0.15
27 6 0.13
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.30
Consensus pattern (26 bp):
ATATAAAACAGTTTAAAATAAATAAT
Found at i:48617742 original size:50 final size:51
Alignment explanation
Indices: 48617627--48617756 Score: 181
Period size: 50 Copynumber: 2.6 Consensus size: 51
48617617 AATAATAACA
* ** *
48617627 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTCGG
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACAGGGGATCCTCTCATCTCGG
* * *
48617678 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGA-CCTCTCATCTCGG
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACAGGGGATCCTCTCATCTCGG
*
48617728 TGCCAACGCCATGTCCCAGACATGGTCTT
1 TGCCAAAGCCATGTCCCAGACATGGTCTT
48617757 TAAAGAAGAT
Statistics
Matches: 70, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
50 37 0.53
51 33 0.47
ACGTcount: A:0.19, C:0.31, G:0.25, T:0.25
Consensus pattern (51 bp):
TGCCAAAGCCATGTCCCAGACATGGTCTTACAGGGGATCCTCTCATCTCGG
Found at i:48619757 original size:17 final size:17
Alignment explanation
Indices: 48619737--48619769 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
48619727 AAAAATATAT
48619737 AAATTATTAAAAAGTTA
1 AAATTATTAAAAAGTTA
*
48619754 AAATTATTTAAAAGTT
1 AAATTATTAAAAAGTT
48619770 GTAAAAAATG
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:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (17 bp):
AAATTATTAAAAAGTTA
Found at i:48620128 original size:19 final size:19
Alignment explanation
Indices: 48620104--48620168 Score: 67
Period size: 20 Copynumber: 3.3 Consensus size: 19
48620094 TAACTTTTAT
*
48620104 TTTTTAAAATTATTTATAA
1 TTTTTAAAATTTTTTATAA
* *
48620123 TTTTTAAATTTCTTTTATTA
1 TTTTTAAAATT-TTTTATAA
*
48620143 TTTTTAATTATTTTTTATAA
1 TTTTTAA-AATTTTTTATAA
48620163 TATTTT
1 T-TTTT
48620169 GAACTATGTT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
19 10 0.27
20 21 0.57
21 6 0.16
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTTTAAAATTTTTTATAA
Found at i:48620339 original size:20 final size:19
Alignment explanation
Indices: 48620287--48620344 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
48620277 TTTTTTAGGA
*
48620287 TTTTT-TAATATTTTATAA-
1 TTTTTATAATATTCTA-AAC
48620305 TTTTTAATAAT-TTCTACAAC
1 TTTTT-ATAATATTCTA-AAC
48620325 TTTTTATAATATTCTAAAC
1 TTTTTATAATATTCTAAAC
48620344 T
1 T
48620345 ACGTCCAGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
18 5 0.15
19 15 0.44
20 14 0.41
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTTTATAATATTCTAAAC
Found at i:48626174 original size:107 final size:107
Alignment explanation
Indices: 48625988--48626199 Score: 379
Period size: 107 Copynumber: 2.0 Consensus size: 107
48625978 TCACATCCAA
* * * *
48625988 TAATTCTTCGCAAGCTTTCTTGTCCTGATTTGGATGTAAATCCCCTCTCTTAAAGAACCTTTCAG
1 TAATTCTTCGCAAGCCTTCTCGTCCTGATTTCGATGTAAATCCCCTATCTTAAAGAACCTTTCAG
48626053 CCTCAGCACATGTGTCACGAAATCTTATTTTCCCAATCCCAG
66 CCTCAGCACATGTGTCACGAAATCTTATTTTCCCAATCCCAG
*
48626095 TAATTCTTCGCAAGCCTTCTCGTCCTGATTTCGATGTAAATCCCTTATCTTAAAGAACCTTTCAG
1 TAATTCTTCGCAAGCCTTCTCGTCCTGATTTCGATGTAAATCCCCTATCTTAAAGAACCTTTCAG
48626160 CCTCAGCACATGTGTCACGAAATCTTATTTTCCCAATCCC
66 CCTCAGCACATGTGTCACGAAATCTTATTTTCCCAATCCC
48626200 CGCCACAGCA
Statistics
Matches: 100, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
107 100 1.00
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.34
Consensus pattern (107 bp):
TAATTCTTCGCAAGCCTTCTCGTCCTGATTTCGATGTAAATCCCCTATCTTAAAGAACCTTTCAG
CCTCAGCACATGTGTCACGAAATCTTATTTTCCCAATCCCAG
Found at i:48633032 original size:32 final size:32
Alignment explanation
Indices: 48632991--48633074 Score: 82
Period size: 32 Copynumber: 2.6 Consensus size: 32
48632981 CCTTTCAAAA
* *
48632991 TTTTAAAAATTCTCATTATACCT-TCTT-CTTAT
1 TTTTGAAAATTCTCATTA-ACCTCTCTTAATT-T
* * *
48633023 TTTTGAAAATTTTAATTAAGCTCTCTTAAATTT
1 TTTTGAAAATTCTCATTAACCTCTCTT-AATTT
48633056 TTTTGAAAATTCTCATTAA
1 TTTTGAAAATTCTCATTAA
48633075 TCTCACAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
31 3 0.07
32 19 0.45
33 18 0.43
34 2 0.05
ACGTcount: A:0.32, C:0.13, G:0.04, T:0.51
Consensus pattern (32 bp):
TTTTGAAAATTCTCATTAACCTCTCTTAATTT
Found at i:48633087 original size:33 final size:33
Alignment explanation
Indices: 48633022--48633089 Score: 82
Period size: 33 Copynumber: 2.1 Consensus size: 33
48633012 CTTCTTCTTA
* * **
48633022 TTTTTGAAAATTTTAATTAAGCTCTCTTAAATT
1 TTTTTGAAAATTCTAATTAAGCTCACAAAAATT
* *
48633055 TTTTTGAAAATTCTCATTAATCTCACAAAAATT
1 TTTTTGAAAATTCTAATTAAGCTCACAAAAATT
48633088 TT
1 TT
48633090 AGTATAAACT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.35, C:0.12, G:0.04, T:0.49
Consensus pattern (33 bp):
TTTTTGAAAATTCTAATTAAGCTCACAAAAATT
Found at i:48634105 original size:21 final size:21
Alignment explanation
Indices: 48634081--48634121 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
48634071 AATAAACCTC
48634081 AAATAA-AAACAAAGCCCAAAT
1 AAATAACAAACAAA-CCCAAAT
*
48634102 AAATAACCAACAAACCCAAA
1 AAATAACAAACAAACCCAAA
48634122 ACAAAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.66, C:0.24, G:0.02, T:0.07
Consensus pattern (21 bp):
AAATAACAAACAAACCCAAAT
Found at i:48639181 original size:19 final size:20
Alignment explanation
Indices: 48639157--48639195 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
48639147 AGTGGAGGCA
48639157 AAAAATAAAA-AAAAAAACC
1 AAAAATAAAAGAAAAAAACC
48639176 AAAAATAAAAGAAAAAAACC
1 AAAAATAAAAGAAAAAAACC
48639196 TCTACCGGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.82, C:0.10, G:0.03, T:0.05
Consensus pattern (20 bp):
AAAAATAAAAGAAAAAAACC
Found at i:48639441 original size:22 final size:24
Alignment explanation
Indices: 48639415--48639458 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
48639405 GAAAAATATT
48639415 AAATAT-ATA-TATTTTATTTTTA
1 AAATATAATAGTATTTTATTTTTA
*
48639437 AAATATAATAGTTTTTTATTTT
1 AAATATAATAGTATTTTATTTT
48639459 AAGTTTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 3 0.16
24 10 0.53
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (24 bp):
AAATATAATAGTATTTTATTTTTA
Found at i:48639564 original size:68 final size:67
Alignment explanation
Indices: 48639492--48639632 Score: 164
Period size: 68 Copynumber: 2.1 Consensus size: 67
48639482 TGACTAGGGT
*
48639492 TACAAAATAATA-ATAAAACATCAAGTTTG-T-TTTACTAATCAAATGTTAGATTTTGTTACAAC
1 TACAAAATAATACA-AAAA-AT-AA-TTTGATATTTACTAATCAAATGTTAGATTTTATTACAAC
48639554 AATTAA
62 AATTAA
* **
48639560 TAC-AATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACAACAA
1 TACAAAATAATACAAAAAATAATTTGAT--ATTTACTAATCAAATGTTAGATTTTATTACAACAA
48639624 TTAA
64 TTAA
48639628 TACAA
1 TACAA
48639633 TTAACAATTA
Statistics
Matches: 63, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
64 4 0.06
65 3 0.05
66 2 0.03
67 9 0.14
68 44 0.70
69 1 0.02
ACGTcount: A:0.47, C:0.10, G:0.06, T:0.38
Consensus pattern (67 bp):
TACAAAATAATACAAAAAATAATTTGATATTTACTAATCAAATGTTAGATTTTATTACAACAATT
AA
Found at i:48639566 original size:9 final size:9
Alignment explanation
Indices: 48639552--48639579 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
48639542 TTTTGTTACA
48639552 ACAATTAAT
1 ACAATTAAT
48639561 ACAATTAAT
1 ACAATTAAT
48639570 ACAATTAAT
1 ACAATTAAT
48639579 A
1 A
48639580 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:48639633 original size:68 final size:66
Alignment explanation
Indices: 48639522--48639663 Score: 248
Period size: 68 Copynumber: 2.1 Consensus size: 66
48639512 TCAAGTTTGT
*
48639522 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
48639587 AAA
64 AAA
48639590 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
*
48639655 T
66 A
48639656 TTTACTAA
1 TTTACTAA
48639664 CAATTAGTTT
Statistics
Matches: 72, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
66 27 0.38
67 1 0.01
68 44 0.61
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (66 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
A
Found at i:48639677 original size:22 final size:23
Alignment explanation
Indices: 48639652--48639704 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
48639642 AATAATTTGA
* * *
48639652 TAATTTTACT-AACAATTAGTTT
1 TAATTTTACTAAAAAAGTAATTT
*
48639674 TAATTTTATTAAAAAAGTAATTT
1 TAATTTTACTAAAAAAGTAATTT
48639697 TAATTTTA
1 TAATTTTA
48639705 ATTAAAAACG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 9 0.35
23 17 0.65
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.51
Consensus pattern (23 bp):
TAATTTTACTAAAAAAGTAATTT
Found at i:48640213 original size:24 final size:23
Alignment explanation
Indices: 48640175--48640227 Score: 72
Period size: 24 Copynumber: 2.3 Consensus size: 23
48640165 TACTTCACTT
*
48640175 GAAAAAAAAATAAAAAAAGAAAA
1 GAAAAAAAAAGAAAAAAAGAAAA
*
48640198 GAAAAGAAAAAGAAAAAAAG-AAC
1 GAAAA-AAAAAGAAAAAAAGAAAA
48640221 GAAAAAA
1 GAAAAAA
48640228 TAAAATGAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 2 0.07
23 12 0.44
24 13 0.48
ACGTcount: A:0.83, C:0.02, G:0.13, T:0.02
Consensus pattern (23 bp):
GAAAAAAAAAGAAAAAAAGAAAA
Found at i:48640217 original size:8 final size:8
Alignment explanation
Indices: 48640178--48640219 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
48640168 TTCACTTGAA
*
48640178 AAAAAAAT
1 AAAAAAAG
48640186 AAAAAAAG
1 AAAAAAAG
48640194 AAAAGAAA-
1 AAAA-AAAG
*
48640202 AGAAAAAG
1 AAAAAAAG
48640210 AAAAAAAG
1 AAAAAAAG
48640218 AA
1 AA
48640220 CGAAAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
7 3 0.10
8 23 0.79
9 3 0.10
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (8 bp):
AAAAAAAG
Found at i:48640226 original size:19 final size:17
Alignment explanation
Indices: 48640175--48640232 Score: 55
Period size: 16 Copynumber: 3.3 Consensus size: 17
48640165 TACTTCACTT
*
48640175 GAAAAAAAAATAAAAAAA
1 GAAAAAAAAA-GAAAAAA
*
48640193 GAAAAGAAAAG-AAAAA
1 GAAAAAAAAAGAAAAAA
48640209 GAAAAAAAGAACGAAAAAA
1 GAAAAAAA-AA-GAAAAAA
*
48640228 TAAAA
1 GAAAA
48640233 TGAGAGGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
16 12 0.36
17 2 0.06
18 10 0.30
19 9 0.27
ACGTcount: A:0.83, C:0.02, G:0.12, T:0.03
Consensus pattern (17 bp):
GAAAAAAAAAGAAAAAA
Found at i:48640968 original size:15 final size:15
Alignment explanation
Indices: 48640948--48640988 Score: 64
Period size: 16 Copynumber: 2.7 Consensus size: 15
48640938 TGGCATTCTA
48640948 CATTCATACAAATAT
1 CATTCATACAAATAT
*
48640963 CATTCAATGCAAATAT
1 CATTC-ATACAAATAT
48640979 CATTCATACA
1 CATTCATACA
48640989 CATCTAGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.44, C:0.22, G:0.02, T:0.32
Consensus pattern (15 bp):
CATTCATACAAATAT
Found at i:48641218 original size:44 final size:44
Alignment explanation
Indices: 48641151--48641412 Score: 237
Period size: 44 Copynumber: 5.9 Consensus size: 44
48641141 AAGTCATTAA
* * *
48641151 AGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAATAT
1 AGCAGATCTTGTCTTCCTATATTGGTCG-GAAGTAGATCGAAGAT
* * * * *
48641195 AGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCAAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGTCGGAAGTAGATCGAAGAT
* * * *
48641239 -GCAGATCTTGTCTTCCCATACTAGTGGCGAAGTAGATCGAAGA-
1 AGCAGATCTTGTCTTCCTATATTGGTCG-GAAGTAGATCGAAGAT
* *
48641282 ACGTAGATCTTGTCTTCCTATGTTGG-CAGTGAAGTAGATCGAAGAT
1 A-GCAGATCTTGTCTTCCTATATTGGTC-G-GAAGTAGATCGAAGAT
* * * * *
48641328 AGCAGGTCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGTCGGAAGTAGATCGAAGAT
* * *
48641372 -GCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
1 AGCAGATCTTGTCTTCCTATATTGGTCG-GAAGTAGATCGAA
48641413 AAAAACAGAT
Statistics
Matches: 173, Mismatches: 37, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
43 42 0.24
44 74 0.43
45 56 0.32
46 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (44 bp):
AGCAGATCTTGTCTTCCTATATTGGTCGGAAGTAGATCGAAGAT
Found at i:48641293 original size:45 final size:44
Alignment explanation
Indices: 48641179--48641412 Score: 211
Period size: 45 Copynumber: 5.3 Consensus size: 44
48641169 GTATTGGCGT
* * * * *
48641179 GAAGTAGATCGAATATAGCAGGTCCTGTCTTCCTATATTGGTAG-
1 GAAGTAGATCGAAGA-AGCAGATCTTGTCTTCCCATACTGGTAGC
* * * * *
48641223 GAAGTGGATCAAAGATGCAGATCTTGTCTTCCCATACTAGTGGC
1 GAAGTAGATCGAAGAAGCAGATCTTGTCTTCCCATACTGGTAGC
* * ** * *
48641267 GAAGTAGATCGAAGAACGTAGATCTTGTCTTCCTATGTTGGCAGT
1 GAAGTAGATCGAAGAA-GCAGATCTTGTCTTCCCATACTGGTAGC
* * * * *
48641312 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGGTAG-
1 GAAGTAGATCGAAGA-AGCAGATCTTGTCTTCCCATACTGGTAGC
* * *
48641356 GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGC
1 GAAGTAGATCGAAGAAGCAGATCTTGTCTTCCCATACTGGTAGC
48641400 GAAGTAGATCGAA
1 GAAGTAGATCGAA
48641413 AAAAACAGAT
Statistics
Matches: 150, Mismatches: 36, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
43 42 0.28
44 51 0.34
45 56 0.37
46 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (44 bp):
GAAGTAGATCGAAGAAGCAGATCTTGTCTTCCCATACTGGTAGC
Found at i:48641334 original size:133 final size:132
Alignment explanation
Indices: 48641154--48641412 Score: 446
Period size: 133 Copynumber: 2.0 Consensus size: 132
48641144 TCATTAAAGC
* * *
48641154 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAATATAGCAGGTCCTGTCTTCCTATATTG
1 AGATCTTGTCTTCATATATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTG
48641219 GTAGGAAGTGGATCAAAGATGCAGATCTTGTCTTCCCATACTAGTGGCGAAGTAGATCGAAGAAC
66 GTAGGAAGTGGATCAAAGATGCAGATCTTGTCTTCCCATACTAGTGGCGAAGTAGATCGAAGAAC
48641284 GT
131 GT
* *
48641286 AGATCTTGTCTTCCTATGTTGGCAGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATT
1 AGATCTTGTCTTCATATATTGGC-GTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATT
* *
48641351 GGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
65 GGTAGGAAGTGGATCAAAGATGCAGATCTTGTCTTCCCATACTAGTGGCGAAGTAGATCGAA
48641413 AAAAACAGAT
Statistics
Matches: 119, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
132 20 0.17
133 99 0.83
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (132 bp):
AGATCTTGTCTTCATATATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTG
GTAGGAAGTGGATCAAAGATGCAGATCTTGTCTTCCCATACTAGTGGCGAAGTAGATCGAAGAAC
GT
Found at i:48641454 original size:133 final size:133
Alignment explanation
Indices: 48641172--48641454 Score: 403
Period size: 133 Copynumber: 2.1 Consensus size: 133
48641162 TCTTCATGTA
* * *
48641172 TTGGC-GTGAAGTAGATCGAATATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCAAA
1 TTGGCAGTGAAGCAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGGTAGGAAGTGGATCAAA
* *** *
48641236 GATGCAGATCTTGTCTTCCCATACTAGTGGCGAAGTAGATCGAAGAACGTAGATCTTGTCTTCCT
66 GATGCAGATCTTGTCTTCCCATACTAGTGGCGAAGTAGATCGAAAAAAACAGATCTTATCTTCCT
*
48641301 ATG
131 AAG
* *
48641304 TTGGCAGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGGTAGGAAGTGGATCGAA
1 TTGGCAGTGAAGCAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGGTAGGAAGTGGATCAAA
*
48641369 GATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAAAAAACAGATCTTATC-TCTC
66 GATGCAGATCTTGTCTTCCCATACTAGTGGCGAAGTAGATCGAAAAAAACAGATCTTATCTTC-C
48641433 TGAAG
130 T-AAG
48641438 TT-GCAGT-AGAGCAGATC
1 TTGGCAGTGA-AGCAGATC
48641455 ATATCAAATC
Statistics
Matches: 136, Mismatches: 11, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
132 8 0.06
133 124 0.91
134 4 0.03
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (133 bp):
TTGGCAGTGAAGCAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGGTAGGAAGTGGATCAAA
GATGCAGATCTTGTCTTCCCATACTAGTGGCGAAGTAGATCGAAAAAAACAGATCTTATCTTCCT
AAG
Found at i:48641549 original size:50 final size:50
Alignment explanation
Indices: 48641491--48641775 Score: 175
Period size: 50 Copynumber: 5.7 Consensus size: 50
48641481 GTAGTAGAGC
* *
48641491 AGATTAAAGCTACGACGGTGAATCTTGCTTCCCTGACATTGCAATTTAAA
1 AGATTAAAGCTACGACGGCGAATCTTACTTCCCTGACATTGCAATTTAAA
** * * * * ** * ** **
48641541 AGATTAAAGCCGCAACGGTGAATCTTACTTTCATGGTGA-TGCAGTGGAGC
1 AGATTAAAGCTACGACGGCGAATCTTACTTCCCT-GACATTGCAATTTAAA
* * * * *
48641591 AGATTAAAGCTACAACGACAAATCTTGCTTCCCCGACATTGCAATTTAAA
1 AGATTAAAGCTACGACGGCGAATCTTACTTCCCTGACATTGCAATTTAAA
* * ** * ** **
48641641 AGATTGAAG-T-CGCAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAGC
1 AGATTAAAGCTACG--ACGGCGAATCTTACTTCCCTGACATTGCAATTTAAA
* * *
48641691 AGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGATATTACAATTTAAA
1 AGATTAAAGCTACGACGGCGAATCTTACTTCCCTGACATTGCAATTTAAA
* * *
48641741 AGATTGAAG-T-CGCAACGGTGAATCTTACTTTCCTG
1 AGATTAAAGCTACG--ACGGCGAATCTTACTTCCCTG
48641776 GCGATGCAGT
Statistics
Matches: 168, Mismatches: 59, Indels: 16
0.69 0.24 0.07
Matches are distributed among these distances:
48 3 0.02
49 4 0.02
50 156 0.93
51 3 0.02
52 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (50 bp):
AGATTAAAGCTACGACGGCGAATCTTACTTCCCTGACATTGCAATTTAAA
Found at i:48641634 original size:100 final size:100
Alignment explanation
Indices: 48641461--48642026 Score: 702
Period size: 100 Copynumber: 5.8 Consensus size: 100
48641451 GATCATATCA
* * * * * *
48641461 AATCTTACTTCTCTGGCGGTGTAGTAGAGCAGATTAAAGCTACGACGGTGAATCTTGCTTCCCTG
1 AATCTTACTTCCCTGGCGATGCAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCTG
*
48641526 ACATTGCAATTTAAAAGATTAAAGCCGCAACGGTG
66 ACATTGCAATTTAAAAGATTGAAGCCGCAACGGTG
* * * * * *
48641561 AATCTTACTTTCATGGTGATGCAGTGGAGCAGATTAAAGCTACAACGACAAATCTTGCTTCCCCG
1 AATCTTACTTCCCTGGCGATGCAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCTG
* *
48641626 ACATTGCAATTTAAAAGATTGAAGTCGCAACGGCG
66 ACATTGCAATTTAAAAGATTGAAGCCGCAACGGTG
* *
48641661 AATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTG
1 AATCTTACTTCCCTGGCGATGCAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCTG
* * *
48641726 ATATTACAATTTAAAAGATTGAAGTCGCAACGGTG
66 ACATTGCAATTTAAAAGATTGAAGCCGCAACGGTG
* * * *
48641761 AATCTTACTTTCCTGGCGATGCAGTGGATCAGATTGAAGCTACAACGGTGAATCTTG------T-
1 AATCTTACTTCCCTGGCGATGCAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCTG
* * *
48641819 ---TTGCAATTAAAAATATTGAAGCCGCCACGGTG
66 ACATTGCAATTTAAAAGATTGAAGCCGCAACGGTG
* ** * * *
48641851 AATCTTACTTCCCTGGTGATATAGTGGGGCAGATTAAAGTTACGACGGCGAATCTTGCTTCCCTG
1 AATCTTACTTCCCTGGCGATGCAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCTG
* *
48641916 ACATTGCAATTTAAAATATTGAAGCCGCAACGGCG
66 ACATTGCAATTTAAAAGATTGAAGCCGCAACGGTG
* * * * *
48641951 AATCTTACTTCCCTGGCGATACAGTGGAGCACATTAAAGCTACAACAGTGAATCTTGCTTCCCCG
1 AATCTTACTTCCCTGGCGATGCAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCTG
48642016 ACATTGCAATT
66 ACATTGCAATT
48642027 AATCGAATTA
Statistics
Matches: 397, Mismatches: 59, Indels: 20
0.83 0.12 0.04
Matches are distributed among these distances:
90 74 0.19
94 1 0.00
96 1 0.00
100 321 0.81
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (100 bp):
AATCTTACTTCCCTGGCGATGCAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCTG
ACATTGCAATTTAAAAGATTGAAGCCGCAACGGTG
Found at i:48641798 original size:50 final size:50
Alignment explanation
Indices: 48641541--48641978 Score: 154
Period size: 50 Copynumber: 9.0 Consensus size: 50
48641531 GCAATTTAAA
* * * * * * *
48641541 AGATTAAAGCCGCAACGGTGAATCTTACTTTCATGGTGATGCAGTGGAGC
1 AGATTGAAGTCGCAACGGCGAATCTTACTTCCCTGGCGATGCAGTGGAAC
* * * * * * * * ** *
48641591 AGATTAAAG-CTACAACGACAAATCTTGCTTCCCCGAC-ATTGCAATTTAAA
1 AGATTGAAGTC-GCAACGGCGAATCTTACTTCCCTGGCGA-TGCAGTGGAAC
* *
48641641 AGATTGAAGTCGCAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAGC
1 AGATTGAAGTCGCAACGGCGAATCTTACTTCCCTGGCGATGCAGTGGAAC
* * ** * * ** *
48641691 AGATTAAAGCTACG--ACGGCGAATCTTGCTTCCCT-GATATTACAATTTAAA
1 AGATTGAAG-T-CGCAACGGCGAATCTTACTTCCCTGGCGA-TGCAGTGGAAC
* * *
48641741 AGATTGAAGTCGCAACGGTGAATCTTACTTTCCTGGCGATGCAGTGGATC
1 AGATTGAAGTCGCAACGGCGAATCTTACTTCCCTGGCGATGCAGTGGAAC
* * * ** *
48641791 AGATTGAAG-CTACAACGGTGAATCTT-GTT---T-GC-A---A-TTAAAA
1 AGATTGAAGTC-GCAACGGCGAATCTTACTTCCCTGGCGATGCAGTGGAAC
* * * * * ** **
48641831 ATATTGAAGCCGCCACGGTGAATCTTACTTCCCTGGTGATATAGTGGGGC
1 AGATTGAAGTCGCAACGGCGAATCTTACTTCCCTGGCGATGCAGTGGAAC
* ** * * * * ** *
48641881 AGATTAAAGTTACGACGGCGAATCTTGCTTCCCTGAC-ATTGCAATTTAAA
1 AGATTGAAGTCGCAACGGCGAATCTTACTTCCCTGGCGA-TGCAGTGGAAC
* * *
48641931 ATATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGATACAGTGGA
1 AGATTGAAGTCGCAACGGCGAATCTTACTTCCCTGGCGATGCAGTGGA
48641979 GCACATTAAA
Statistics
Matches: 267, Mismatches: 97, Indels: 48
0.65 0.24 0.12
Matches are distributed among these distances:
40 23 0.09
41 4 0.01
44 2 0.01
45 3 0.01
46 2 0.01
48 2 0.01
49 9 0.03
50 215 0.81
51 5 0.02
52 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (50 bp):
AGATTGAAGTCGCAACGGCGAATCTTACTTCCCTGGCGATGCAGTGGAAC
Found at i:48642091 original size:40 final size:40
Alignment explanation
Indices: 48642047--48642641 Score: 508
Period size: 40 Copynumber: 14.3 Consensus size: 40
48642037 AAACCATAGA
*
48642047 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATCAAG
*
48642087 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAAAAACCAA-
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG-----AATCAAG
** * ** ** *
48642130 TCTTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCACAG
1 TCTTATCTCCCT-AAGCAGTAGTGGAGCAGA-TCGAATCA-AG
* *
48642173 ATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGCATCAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATCAAG
*
48642214 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAAAACCAA-
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG----AATCAAG
* ** * * **
48642256 TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCATAG
1 TCTTATCTCCCT-AAGCAGTAGTGGAGCAGA-TCGAATCA-AG
* *
48642299 ATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGCATCAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATCAAG
* *
48642340 TCTTATCTCCCTAAGCAGTAGTGGAGTAGA-CAGAACCACAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-GAATCA-AG
*
48642381 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATCAAG
*
48642422 TCTCATCTCCCTAAGCAGTAGTGGAGCAGATC-ACATCAAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGA-ATCAAG
* *
48642462 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAGAAACCAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC----GAATCAAG
*
48642505 ATCTTATCTCACTAAGCAGTAGTGGAGCAGATC-ACATCAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGA-ATCAAG
* * *
48642546 TCTTATCTCCCTAAGCAGTAGTGGAGTAGA-CGAAAGAAACCAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC----GAATCAAG
* * *
48642589 ATCTTATCTCCCTAAGCATTAGTGAAGCACATC-ATATCAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGA-ATCAAG
48642630 TCTTATCTCCCT
1 TCTTATCTCCCT
48642642 GAAGTTGCAG
Statistics
Matches: 449, Mismatches: 64, Indels: 84
0.75 0.11 0.14
Matches are distributed among these distances:
39 7 0.02
40 199 0.44
41 25 0.06
42 55 0.12
43 64 0.14
44 97 0.22
45 2 0.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (40 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATCAAG
Found at i:48642322 original size:126 final size:125
Alignment explanation
Indices: 48642033--48642726 Score: 764
Period size: 126 Copynumber: 5.5 Consensus size: 125
48642023 AATTAATCGA
*
48642033 ATTAAAACCATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCC
1 ATTAAAACCA-AGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGCATCAAGTCTTATCTCCC
*
48642098 TAAGCAGTAGTGGAGCAGACGAAAAAAACCAATCTTATCTCCCTGAAGTTGCAGTGGAGTGG
65 TAAGCAGTAGTGGAGCAGACG-AAAAAACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCGG
48642160 ATTAAAACCACAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGCATCAAGTCTTATCTCCC
1 ATTAAAACCA-AGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGCATCAAGTCTTATCTCCC
*
48642225 TAAGCAGTAGTGGAGCAGACGAAAAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGG
65 TAAGCAGTAGTGGAGCAGACGAAAAAACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCGG
*
48642286 ATTAAAATCATAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGCATCAAGTCTTATCTCCC
1 ATTAAAACCA-AGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGCATCAAGTCTTATCTCCC
* * * ** * *
48642351 TAAGCAGTAGTGGAGTAGAC--AGAACCACAGATCTTATCTCCCT-AAGCAGTAGTGGAGCAG
65 TAAGCAGTAGTGGAGCAGACGAAAAAAC-CA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCGG
*** * * * *
48642411 A-TCGCATCAAG-TCTCATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCT
1 ATTAAAACCAAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGCATCAAGTCTTATCTCCCT
* ** * *
48642474 AAGCAGTAGTGGAGCAGACGAAAGAAACCAGATCTTATCTCACT-AAGCAGTAGTGGAGCAG
66 AAGCAGTAGTGGAGCAGACGAAA-AAACCA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCGG
* * * ** * * *
48642535 A-TCACATCAAG-TCTTATCTCCCTAAGCAGTAGTGGAGTAG-ACGAAAGAAACCAGATCTTATC
1 ATTAAAACCAAGATCTTATCTCCCTAAGCAGTAGT--AG-AGCA-GATCGCATCAAG-TCTTATC
* * ** * *
48642597 TCCCTAAGCATTAGTGAAGC--AC-ATCATATCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCG
61 TCCCTAAGCAGTAGTGGAGCAGACGAAAAAACCAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCG
48642659 G
125 G
* * ** * * *
48642660 ATTAAAACCACAGATATTATCTCTCTCAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTACCTCC
1 ATTAAAACCA-AGATCTTATCTCCCT-AAGCAGTAGTAGAGCAGATCGCATCAAGTCTTATCTCC
48642725 CT
64 CT
48642727 GAAGTTGCAG
Statistics
Matches: 493, Mismatches: 57, Indels: 36
0.84 0.10 0.06
Matches are distributed among these distances:
122 67 0.14
123 3 0.01
124 88 0.18
125 45 0.09
126 151 0.31
127 97 0.20
128 35 0.07
129 7 0.01
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (125 bp):
ATTAAAACCAAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGCATCAAGTCTTATCTCCCT
AAGCAGTAGTGGAGCAGACGAAAAAACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCGG
Found at i:48642411 original size:208 final size:207
Alignment explanation
Indices: 48642130--48642641 Score: 642
Period size: 208 Copynumber: 2.5 Consensus size: 207
48642120 AAAAAACCAA
** * * *
48642130 TCTTATCTCCCTGAAGTTGCAGTGGAGTGGATTAA-AACCACAGATCTTATCTCCCTAAGCAGTA
1 TCTTATCTCCCT-AAGCAGTAGTGGAGTAGA-CAAGAACCACAGATCTTATCTCCCTAAGCAGTA
*
48642194 GTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAAAACCAA-T
64 GTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGATC----AAACCAAGT
** * ** * * *
48642257 CCTATCTCCCTGAAGTTGCAGTGGAGCGGA-TTAA-AATCATAGATCTTATCTCCCTAAGCAGTA
125 CCTATCTCCCT-AAGCAGCAGTGGAGCAGACGAAAGAAAC-CAGATCTTATCTCACTAAGCAGTA
*
48642320 GTAGAGCAGATCGCATCAAG
188 GTAGAGCAGATCACATCAAG
48642340 TCTTATCTCCCTAAGCAGTAGTGGAGTAGAC-AGAACCACAGATCTTATCTCCCTAAGCAGTAGT
1 TCTTATCTCCCTAAGCAGTAGTGGAGTAGACAAGAACCACAGATCTTATCTCCCTAAGCAGTAGT
* * * *
48642404 GGAGCAGATCGCATCAAGTCTCATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATC
66 GGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAACCAAGTCCTATC
* *
48642469 TCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAGATCTTATCTCACTAAGCAGTAGTGGAGCA
131 TCCCTAAGCAGCAGTGGAGCAGACGAAAGAAACCAGATCTTATCTCACTAAGCAGTAGTAGAGCA
48642534 GATCACATCAAG
196 GATCACATCAAG
* *
48642546 TCTTATCTCCCTAAGCAGTAGTGGAGTAGACGAAAGAAAC-CAGATCTTATCTCCCTAAGCATTA
1 TCTTATCTCCCTAAGCAGTAGTGGAGTAGAC--AAGAACCACAGATCTTATCTCCCTAAGCAGTA
* * **
48642610 GTGAAGCACATCATATCAAGTCTTATCTCCCT
64 GTGGAGCAGATCGCATCAAGTCTTATCTCCCT
48642642 GAAGTTGCAG
Statistics
Matches: 266, Mismatches: 28, Indels: 18
0.85 0.09 0.06
Matches are distributed among these distances:
205 19 0.07
206 84 0.32
207 4 0.02
208 127 0.48
209 20 0.08
210 12 0.05
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (207 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGTAGACAAGAACCACAGATCTTATCTCCCTAAGCAGTAGT
GGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAACCAAGTCCTATC
TCCCTAAGCAGCAGTGGAGCAGACGAAAGAAACCAGATCTTATCTCACTAAGCAGTAGTAGAGCA
GATCACATCAAG
Found at i:48642674 original size:84 final size:82
Alignment explanation
Indices: 48642047--48642752 Score: 538
Period size: 84 Copynumber: 8.5 Consensus size: 82
48642037 AAACCATAGA
** *
48642047 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-TCGCATCA-AG-TCTTATCTCCCTAAGCAGTAGT
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACT-AAAACACAGATCTTATCTCCCTAAGCAGTAGT
* *
48642109 GGAGCAGA-CGAAAAAAACCAA-
65 GGAGCAGATC-----ACATCAAG
** * ** *
48642130 TCTTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCACAGATCTTATCTCCCTAAGCAGTAG
1 TCTTATCTCCCT-AAGCAGTAGTGGAGCAGACTAAAA-CACAGATCTTATCTCCCTAAGCAGTAG
* *
48642195 TAGAGCAGATCGCATCAAG
64 TGGAGCAGATCACATCAAG
* * * ** *
48642214 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAAAACCA-ATCCTATCTCCCTGAAGTTGCAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACTAAAACA-CAGATCTTATCTCCCT-AAGCAGTAG
* * *
48642278 TGGAGCGGATTAAAATCATAG
64 TGGAGCAGA-TCACATCA-AG
* ** *
48642299 ATCTTATCTCCCTAAGCAGTAGTAGAGCAGA-TCGCATCA-AG-TCTTATCTCCCTAAGCAGTAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGACT-AAAACACAGATCTTATCTCCCTAAGCAGTAG
* * *
48642361 TGGAGTAGA-CAGAACCACAG
64 TGGAGCAGATCA-CATCA-AG
** * *
48642381 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGA-TCGCATCA-AG-TCTCATCTCCCTAAGCAGTAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGACT-AAAACACAGATCTTATCTCCCTAAGCAGTAG
48642443 TGGAGCAGATCACATCAAG
64 TGGAGCAGATCACATCAAG
* * *
48642462 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAGATCTTATCTCACTAAGCAGTAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACTAAA-ACA-CAGATCTTATCTCCCTAAGCAGTAG
48642527 TGGAGCAGATCACATCAAG
64 TGGAGCAGATCACATCAAG
* * * *
48642546 TCTTATCTCCCTAAGCAGTAGTGGAGTAGACGAAAGAAACCAGATCTTATCTCCCTAAGCATTAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACTAAA-ACA-CAGATCTTATCTCCCTAAGCAGTAG
* * *
48642611 TGAAGCACATCATATCAAG
64 TGGAGCAGATCACATCAAG
** * * * * * ** *
48642630 TCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATATTATCTCTCTCAAGTTGCA
1 TCTTATCTCCCT-AAGCAGTAGTGGAGCAGACTAAAA-CACAGATCTTATCTCCCT-AAGCAGTA
* * *
48642695 GTAGAGCAGATCGCATCCAG
63 GTGGAGCAGATCACATCAAG
* ** * *
48642715 TCTTACCTCCCTGAAGTTGCAGTGGAGCAAACTAAAAC
1 TCTTATCTCCCT-AAGCAGTAGTGGAGCAGACTAAAAC
48642753 CAAATCTCAT
Statistics
Matches: 513, Mismatches: 86, Indels: 47
0.79 0.13 0.07
Matches are distributed among these distances:
80 31 0.06
81 4 0.01
82 90 0.18
83 65 0.13
84 187 0.36
85 73 0.14
86 33 0.06
87 29 0.06
88 1 0.00
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.24
Consensus pattern (82 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGACTAAAACACAGATCTTATCTCCCTAAGCAGTAGTG
GAGCAGATCACATCAAG
Found at i:48643042 original size:21 final size:21
Alignment explanation
Indices: 48643018--48643058 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
48643008 AATAAAACCC
48643018 AAATAA-AAACAAAGCCCAAAT
1 AAATAACAAACAAA-CCCAAAT
*
48643039 AAATAACCAACAAACCCAAA
1 AAATAACAAACAAACCCAAA
48643059 ACAAAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.66, C:0.24, G:0.02, T:0.07
Consensus pattern (21 bp):
AAATAACAAACAAACCCAAAT
Found at i:48645543 original size:23 final size:23
Alignment explanation
Indices: 48645499--48645543 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
48645489 TCGTGGACCA
* *
48645499 AAATCGTTGTTTTAATAAAATCT
1 AAATCGTTGTATTAAAAAAATCT
48645522 AAATCGTT-TATTAAAAACAATC
1 AAATCGTTGTATTAAAAA-AATC
48645544 GTTTTACGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.44, C:0.11, G:0.07, T:0.38
Consensus pattern (23 bp):
AAATCGTTGTATTAAAAAAATCT
Found at i:48645720 original size:19 final size:20
Alignment explanation
Indices: 48645683--48645723 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
48645673 ATACTAAAAA
*
48645683 TATTAAAATTGATATAAACT
1 TATTAAAATTGATAAAAACT
48645703 TATTAAAA-TGATAAAAACT
1 TATTAAAATTGATAAAAACT
48645722 TA
1 TA
48645724 AAAGTATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.37
Consensus pattern (20 bp):
TATTAAAATTGATAAAAACT
Found at i:48645770 original size:17 final size:19
Alignment explanation
Indices: 48645739--48645773 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
48645729 ATTATAAAAA
48645739 TAAAAAATCTAATAAATTG
1 TAAAAAATCTAATAAATTG
48645758 TAAAAAAT-T-ATAAATT
1 TAAAAAATCTAATAAATT
48645774 AATAAAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 1 0.06
19 8 0.50
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (19 bp):
TAAAAAATCTAATAAATTG
Found at i:48646478 original size:19 final size:17
Alignment explanation
Indices: 48646454--48646492 Score: 60
Period size: 19 Copynumber: 2.2 Consensus size: 17
48646444 TTTATATCAA
48646454 TTTTAATATTTGTAATATT
1 TTTTAATATTTG-AA-ATT
48646473 TTTTAATATTTGAAATT
1 TTTTAATATTTGAAATT
48646490 TTT
1 TTT
48646493 ATTTTTTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 6 0.30
18 2 0.10
19 12 0.60
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (17 bp):
TTTTAATATTTGAAATT
Found at i:48651308 original size:127 final size:128
Alignment explanation
Indices: 48651150--48651408 Score: 475
Period size: 127 Copynumber: 2.0 Consensus size: 128
48651140 TCTTTTGTCA
48651150 TTCATCTTCCTCGACATTAAAGCTAAAGCTTGTGATAGAATAGATACCAACAAAACATTAAAGAG
1 TTCATCTTCCTCGACATTAAAGCTAAAGCTTGTGATAGAATAGATACCAACAAAACATTAAAGAG
*
48651215 AGCT-AAAAAAAGAATGCCAAAGTAATCATGAAACTAATCTATCCATTGTTTATACTAACATG
66 AGCTAAAAAAAAGAAAGCCAAAGTAATCATGAAACTAATCTATCCATTGTTTATACTAACATG
*
48651277 TTCATCTTCCTCGACATTAAAGTTAAAGCTTGTGATAGAATAGATACCAACAAAACATTAAAGAG
1 TTCATCTTCCTCGACATTAAAGCTAAAGCTTGTGATAGAATAGATACCAACAAAACATTAAAGAG
* *
48651342 AGCTAAAAAAAAGAAAGCCAAAGTAATCATGAAACTAATTTGTCCATTGTTTATACTAACATG
66 AGCTAAAAAAAAGAAAGCCAAAGTAATCATGAAACTAATCTATCCATTGTTTATACTAACATG
48651405 TTCA
1 TTCA
48651409 GTAAAGTATG
Statistics
Matches: 127, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
127 68 0.54
128 59 0.46
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.27
Consensus pattern (128 bp):
TTCATCTTCCTCGACATTAAAGCTAAAGCTTGTGATAGAATAGATACCAACAAAACATTAAAGAG
AGCTAAAAAAAAGAAAGCCAAAGTAATCATGAAACTAATCTATCCATTGTTTATACTAACATG
Found at i:48653548 original size:29 final size:30
Alignment explanation
Indices: 48653516--48653597 Score: 80
Period size: 29 Copynumber: 2.8 Consensus size: 30
48653506 CCATTGTACT
* *
48653516 TTTTGAAATTTC-TATTTTGACCCCAAACC
1 TTTTGAAAATTCACATTTTGACCCCAAACC
* *
48653545 TTTTTAAAATTCACATTTTGACCCCAAA-A
1 TTTTGAAAATTCACATTTTGACCCCAAACC
* *
48653574 TTTTCTAAAATT-ATATTTTGACCC
1 TTTT-GAAAATTCACATTTTGACCC
48653598 TTAAATTTTC
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
29 25 0.54
30 21 0.46
ACGTcount: A:0.32, C:0.21, G:0.05, T:0.43
Consensus pattern (30 bp):
TTTTGAAAATTCACATTTTGACCCCAAACC
Found at i:48653548 original size:30 final size:28
Alignment explanation
Indices: 48653513--48653615 Score: 98
Period size: 30 Copynumber: 3.5 Consensus size: 28
48653503 TAACCATTGT
*
48653513 ACTTTTTGAAATTTCTATTTTGACCCCAA
1 ACTTTTT-AAAATTCTATTTTGACCCCAA
*
48653542 ACCTTTTTAAAATTCACATTTTGACCCCAA
1 A-CTTTTTAAAATTC-TATTTTGACCCCAA
* * *
48653572 AATTTTCTAAAATTATATTTTGACCCTTAA
1 ACTTTT-TAAAATTCTATTTTGACCC-CAA
*
48653602 ATTTTCTTAAAATT
1 ACTTT-TTAAAATT
48653616 TCACTTTAAC
Statistics
Matches: 62, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
29 21 0.34
30 40 0.65
31 1 0.02
ACGTcount: A:0.33, C:0.18, G:0.04, T:0.45
Consensus pattern (28 bp):
ACTTTTTAAAATTCTATTTTGACCCCAA
Found at i:48654171 original size:6 final size:6
Alignment explanation
Indices: 48654164--48654237 Score: 67
Period size: 6 Copynumber: 11.3 Consensus size: 6
48654154 CGGCCCGAAG
* *
48654164 AAGAAG AAGAAA AAGAAA AAGAAA GAAGGAAA AAGAGAG AAGAAA AAGAGAA
1 AAGAAA AAGAAA AAGAAA AAGAAA -AA-GAAA AAGA-AA AAGAAA AAGA-AA
*
48654216 AGAAAAA AAGAAAA AAGAAA AA
1 A-AGAAA AAG-AAA AAGAAA AA
48654238 AAAGAAATAT
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
6 30 0.53
7 21 0.37
8 6 0.11
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:48654185 original size:12 final size:12
Alignment explanation
Indices: 48654164--48654237 Score: 67
Period size: 14 Copynumber: 5.7 Consensus size: 12
48654154 CGGCCCGAAG
*
48654164 AAGAAGAAGAAA
1 AAGAAAAAGAAA
48654176 AAGAAAAAGAAA
1 AAGAAAAAGAAA
*
48654188 GAAGGAAAAAGAGAG
1 -AA-GAAAAAGA-AA
48654203 AAGAAAAAGAGAA
1 AAGAAAAAGA-AA
*
48654216 AGAAAAAAAGAAAA
1 A-AGAAAAAG-AAA
48654230 AAGAAAAA
1 AAGAAAAA
48654238 AAAGAAATAT
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
12 11 0.21
13 19 0.37
14 20 0.38
15 2 0.04
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (12 bp):
AAGAAAAAGAAA
Found at i:48654185 original size:15 final size:15
Alignment explanation
Indices: 48654161--48654244 Score: 73
Period size: 15 Copynumber: 5.4 Consensus size: 15
48654151 GTACGGCCCG
*
48654161 AAGAAGAAGAAGAAA
1 AAGAAAAAGAAGAAA
48654176 AAGAAAAAGAAAGAAGGA
1 AAGAAAAAG-AAGAA--A
*
48654194 AA-AAGAGAGAAGAAA
1 AAGAA-AAAGAAGAAA
*
48654209 AAGAGAAAGAA-AAA
1 AAGAAAAAGAAGAAA
*
48654223 AAGAAAAAAGAAAAAA
1 AAG-AAAAAGAAGAAA
48654239 AAGAAA
1 AAGAAA
48654245 TATATCACAG
Statistics
Matches: 57, Mismatches: 5, Indels: 14
0.75 0.07 0.18
Matches are distributed among these distances:
14 6 0.11
15 26 0.46
16 12 0.21
17 7 0.12
18 6 0.11
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (15 bp):
AAGAAAAAGAAGAAA
Found at i:48654205 original size:33 final size:33
Alignment explanation
Indices: 48654164--48654244 Score: 107
Period size: 33 Copynumber: 2.6 Consensus size: 33
48654154 CGGCCCGAAG
* *
48654164 AAGA-AGAAGAAAAAGAAAAAGAAAGAAGGAAA
1 AAGAGAGAAGAAAAAGAAAAAGAAAAAAAGAAA
*
48654196 AAGAGAGAAGAAAAAGAGAAAGAAAAAAAGAAA
1 AAGAGAGAAGAAAAAGAAAAAGAAAAAAAGAAA
48654229 AA-AGA-AA-AAAAAGAAA
1 AAGAGAGAAGAAAAAGAAA
48654245 TATATCACAG
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
30 8 0.18
31 2 0.05
32 7 0.16
33 27 0.61
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (33 bp):
AAGAGAGAAGAAAAAGAAAAAGAAAAAAAGAAA
Found at i:48654208 original size:27 final size:25
Alignment explanation
Indices: 48654173--48654244 Score: 83
Period size: 27 Copynumber: 2.8 Consensus size: 25
48654163 GAAGAAGAAG
48654173 AAAAAGAAAAAGAAAGAAGGAAAAAGA
1 AAAAAGAAAAAGAAAGAA--AAAAAGA
* *
48654200 GAGAAGAAAAAGAGAAAGAAAAAAAGA
1 AAAAAG-AAAA-AGAAAGAAAAAAAGA
48654227 AAAAAGAAAAA-AAAGAAA
1 AAAAAGAAAAAGAAAGAAA
48654245 TATATCACAG
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
24 7 0.18
25 1 0.03
26 4 0.10
27 15 0.38
28 4 0.10
29 8 0.21
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (25 bp):
AAAAAGAAAAAGAAAGAAAAAAAGA
Found at i:48654387 original size:28 final size:26
Alignment explanation
Indices: 48654351--48654416 Score: 93
Period size: 25 Copynumber: 2.6 Consensus size: 26
48654341 AAACCAAAAC
48654351 AGAA-AAAGAAGCAGCAGAAAAAAG-
1 AGAAGAAAGAAGCAGCAGAAAAAAGA
*
48654375 A-AAGAAAGAAAGAAGCAGAAAAAAGA
1 AGAAGAAAG-AAGCAGCAGAAAAAAGA
48654401 AGAAGAAAGAAGCAGC
1 AGAAGAAAGAAGCAGC
48654417 CCAAATGCAG
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
23 2 0.06
24 5 0.14
25 15 0.42
26 7 0.19
27 7 0.19
ACGTcount: A:0.67, C:0.08, G:0.26, T:0.00
Consensus pattern (26 bp):
AGAAGAAAGAAGCAGCAGAAAAAAGA
Found at i:48654408 original size:23 final size:23
Alignment explanation
Indices: 48654346--48654415 Score: 88
Period size: 23 Copynumber: 3.0 Consensus size: 23
48654336 AAAAAAAACC
* * *
48654346 AAAACAGAAAAAG-AAGCAGCAG
1 AAAAAAGAAGAAGAAAGAAGCAG
48654368 AAAAAAGAAAGAAAGAAAGAAGCAG
1 AAAAAAG-AAG-AAGAAAGAAGCAG
48654393 AAAAAAGAAGAAGAAAGAAGCAG
1 AAAAAAGAAGAAGAAAGAAGCAG
48654416 CCCAAATGCA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
22 6 0.14
23 15 0.36
24 6 0.14
25 15 0.36
ACGTcount: A:0.69, C:0.07, G:0.24, T:0.00
Consensus pattern (23 bp):
AAAAAAGAAGAAGAAAGAAGCAG
Found at i:48654493 original size:22 final size:24
Alignment explanation
Indices: 48654447--48654497 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
48654437 GCAGCAGGCC
48654447 CAGCAGGCCCCCAGGCCCAGTGCAG
1 CAGCAGGCCCCCAGGCCCAG-GCAG
*
48654472 CAGCA-GCCCCCAGGCCTA-GCAG
1 CAGCAGGCCCCCAGGCCCAGGCAG
48654494 CAGC
1 CAGC
48654498 CCAACAGGCC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 8 0.32
24 12 0.48
25 5 0.20
ACGTcount: A:0.22, C:0.45, G:0.29, T:0.04
Consensus pattern (24 bp):
CAGCAGGCCCCCAGGCCCAGGCAG
Found at i:48654507 original size:20 final size:19
Alignment explanation
Indices: 48654470--48654507 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
48654460 GGCCCAGTGC
*
48654470 AGCAGCAGCCCCCAGGCCT
1 AGCAGCAGCCCACAGGCCT
48654489 AGCAGCAGCCCAACAGGCC
1 AGCAGCAGCCC-ACAGGCC
48654508 AGCCCAGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.26, C:0.45, G:0.26, T:0.03
Consensus pattern (19 bp):
AGCAGCAGCCCACAGGCCT
Found at i:48654531 original size:10 final size:10
Alignment explanation
Indices: 48654518--48654578 Score: 68
Period size: 10 Copynumber: 6.0 Consensus size: 10
48654508 AGCCCAGTCC
48654518 AGAAAAAAAA
1 AGAAAAAAAA
48654528 AGAAAAAAAA
1 AGAAAAAAAA
**
48654538 GAGAGGAAAAA
1 -AGAAAAAAAA
* *
48654549 AGAAGATAAA
1 AGAAAAAAAA
*
48654559 AGAAGAAAAA
1 AGAAAAAAAA
48654569 AGAAAAAAAA
1 AGAAAAAAAA
48654579 GGGTTTTAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
10 36 0.82
11 8 0.18
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (10 bp):
AGAAAAAAAA
Found at i:48655136 original size:19 final size:19
Alignment explanation
Indices: 48655038--48655135 Score: 68
Period size: 18 Copynumber: 5.5 Consensus size: 19
48655028 AAAATTTTTC
*
48655038 TCGTTTTTTCTAAAAAATT-
1 TCGTGTTTTC-AAAAAATTG
* *
48655057 CCGTG-TTTC-AAAAATTT
1 TCGTGTTTTCAAAAAATTG
* * *
48655074 TCGCG-TTTCAAAAAAATA
1 TCGTGTTTTCAAAAAATTG
48655092 T--TGTTTTCAAAAAATTG
1 TCGTGTTTTCAAAAAATTG
48655109 TCGTGTTTTC-AAAAATAT-
1 TCGTGTTTTCAAAAAAT-TG
48655127 TCGTGTTTT
1 TCGTGTTTT
48655136 TAAGAATTTT
Statistics
Matches: 64, Mismatches: 9, Indels: 13
0.74 0.10 0.15
Matches are distributed among these distances:
16 8 0.12
17 19 0.30
18 26 0.41
19 11 0.17
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.45
Consensus pattern (19 bp):
TCGTGTTTTCAAAAAATTG
Found at i:48655147 original size:18 final size:18
Alignment explanation
Indices: 48654880--48655148 Score: 110
Period size: 17 Copynumber: 14.8 Consensus size: 18
48654870 ATTGTAAATA
*
48654880 TTCAAAAAATTTCGTGTTT
1 TTCAAAAATTTTCGTG-TT
**
48654899 TTCGAAAAAATTCCCGTG-T
1 TTC--AAAAATTTTCGTGTT
*
48654918 TT--AAAATTTTCATGTT
1 TTCAAAAATTTTCGTGTT
48654934 TTC-AAAATTTTCGTGTT
1 TTCAAAAATTTTCGTGTT
**
48654951 TT-AAAAATACTCGTGTT
1 TTCAAAAATTTTCGTGTT
****
48654968 TTCAAAAATCCAGGTG-T
1 TTCAAAAATTTTCGTGTT
48654985 TTCAAAAATTTTCGTGTT
1 TTCAAAAATTTTCGTGTT
* * *
48655003 CTCAAAAA-TTCCGATGATCAA
1 TTCAAAAATTTTCG-TG-T--T
*** *
48655024 AAAAAAAATTTTTCTCGTTTT
1 TTCAAAAA--TTT-TCGTGTT
* *
48655045 TTCTAAAAAATTCCGTG-T
1 TTC-AAAAATTTTCGTGTT
*
48655063 TTCAAAAATTTTCGCG-T
1 TTCAAAAATTTTCGTGTT
* *
48655080 TTCAAAAAAATAT--TGTT
1 TTC-AAAAATTTTCGTGTT
*
48655097 TTCAAAAAATTGTCGTGTT
1 TTC-AAAAATTTTCGTGTT
*
48655116 TTCAAAAATATTCGTGTT
1 TTCAAAAATTTTCGTGTT
* *
48655134 TTTAAGAATTTTCGT
1 TTCAAAAATTTTCGT
48655149 CTCTAAAATT
Statistics
Matches: 186, Mismatches: 44, Indels: 41
0.69 0.16 0.15
Matches are distributed among these distances:
15 9 0.05
16 4 0.02
17 72 0.39
18 56 0.30
19 17 0.09
20 2 0.01
21 15 0.08
22 5 0.03
23 1 0.01
24 3 0.02
25 2 0.01
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.42
Consensus pattern (18 bp):
TTCAAAAATTTTCGTGTT
Found at i:48662110 original size:12 final size:12
Alignment explanation
Indices: 48662093--48662118 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
48662083 GAACTGAACC
48662093 AGGAGAAGCTGA
1 AGGAGAAGCTGA
48662105 AGGAGAAGCTGA
1 AGGAGAAGCTGA
48662117 AG
1 AG
48662119 AAAAATCAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.08, G:0.42, T:0.08
Consensus pattern (12 bp):
AGGAGAAGCTGA
Found at i:48662851 original size:5 final size:5
Alignment explanation
Indices: 48662843--48662870 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
48662833 AATTAAATGC
48662843 AATCA AATCA AATCA AATCA AATCA AAT
1 AATCA AATCA AATCA AATCA AATCA AAT
48662871 TGATCATAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.61, C:0.18, G:0.00, T:0.21
Consensus pattern (5 bp):
AATCA
Found at i:48665002 original size:15 final size:13
Alignment explanation
Indices: 48664970--48664994 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48664960 TATTTCTCTA
48664970 ATTTTAAAAAATT
1 ATTTTAAAAAATT
48664983 ATTTTAAAAAAT
1 ATTTTAAAAAAT
48664995 AATATTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATTTTAAAAAATT
Found at i:48665658 original size:126 final size:126
Alignment explanation
Indices: 48665503--48665799 Score: 402
Period size: 126 Copynumber: 2.4 Consensus size: 126
48665493 AGTGTTAATT
* * * * * *
48665503 TAAAA-AAGCTCCCACGTGGACGCTCTTTTGTTACAGTAGCTCTTGAAAAAATAATTTTGAGAAG
1 TAAAAGAAGCTCTCACGTGGACGCGCTTTTGCTACAATAGCTCCTGAAAAAATAATTTCGAGAAG
* * **
48665567 ACATTTCTGAGTAAATAGTGTCAAAAACACTTTAAG-TGTGATGCTTTGTCAGCAAAAGTAC
66 ACATTTCTGAGCAAATAGTGTCAAAAACACTTTAAGCAG-GATGCTTTAACAGCAAAAGTAC
* *
48665628 TAAAAGAAGCT-TCAATGTGGACGCGCTTTTGCTACAATAGCTCCTGAAAAAATAATTTCGAGTA
1 TAAAAGAAGCTCTC-ACGTGGACGCGCTTTTGCTACAATAGCTCCTGAAAAAATAATTTCGAGAA
* *
48665692 GACTTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTAACAGCAAAAGTAC
65 GACATTTCTGAGCAAATAGTGTCAAAAACACTTTAAGCAGGATGCTTTAACAGCAAAAGTAC
* * *
48665754 TGAAAGAAGCTCTCACGTGGACGTGCTTTTGCTACAATAGATCCTG
1 TAAAAGAAGCTCTCACGTGGACGCGCTTTTGCTACAATAGCTCCTG
48665800 TTTGGCCTGA
Statistics
Matches: 150, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
125 6 0.04
126 141 0.94
127 3 0.02
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.29
Consensus pattern (126 bp):
TAAAAGAAGCTCTCACGTGGACGCGCTTTTGCTACAATAGCTCCTGAAAAAATAATTTCGAGAAG
ACATTTCTGAGCAAATAGTGTCAAAAACACTTTAAGCAGGATGCTTTAACAGCAAAAGTAC
Found at i:48669514 original size:18 final size:18
Alignment explanation
Indices: 48669488--48669530 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
48669478 AACTAGAAAA
* * *
48669488 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
48669506 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
48669524 AGGATAC
1 AGGATAC
48669531 GCACATGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:48671382 original size:11 final size:11
Alignment explanation
Indices: 48671368--48671437 Score: 72
Period size: 11 Copynumber: 6.4 Consensus size: 11
48671358 AAAAATTTTA
48671368 AGAGGAATTTG
1 AGAGGAATTTG
*
48671379 AGAGGAAATTG
1 AGAGGAATTTG
* *
48671390 AAAAGAATTTG
1 AGAGGAATTTG
48671401 AGAGGAATTTG
1 AGAGGAATTTG
48671412 AGA-GAATATTG
1 AGAGGAAT-TTG
*
48671423 -GAGAGAAATTG
1 AGAG-GAATTTG
48671434 AGAG
1 AGAG
48671438 AAACGATTTA
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
10 6 0.12
11 36 0.75
12 6 0.12
ACGTcount: A:0.44, C:0.00, G:0.33, T:0.23
Consensus pattern (11 bp):
AGAGGAATTTG
Found at i:48671405 original size:33 final size:33
Alignment explanation
Indices: 48671368--48671437 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 33
48671358 AAAAATTTTA
*
48671368 AGAGGAATTTGAGAGGAA-ATTGAAAAGAATTTG
1 AGAGGAATTTGAGA-GAATATTGAAAAGAAATTG
* *
48671401 AGAGGAATTTGAGAGAATATTGGAGAGAAATTG
1 AGAGGAATTTGAGAGAATATTGAAAAGAAATTG
48671434 AGAG
1 AGAG
48671438 AAACGATTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 3 0.09
33 30 0.91
ACGTcount: A:0.44, C:0.00, G:0.33, T:0.23
Consensus pattern (33 bp):
AGAGGAATTTGAGAGAATATTGAAAAGAAATTG
Found at i:48671437 original size:22 final size:21
Alignment explanation
Indices: 48671372--48671439 Score: 84
Period size: 22 Copynumber: 3.1 Consensus size: 21
48671362 ATTTTAAGAG
*
48671372 GAATTTGAGAGGAAATTGAAAA
1 GAATTTGAGAGGAAATTG-AGA
*
48671394 GAATTTGAGAGGAATTTGAGA
1 GAATTTGAGAGGAAATTGAGA
48671415 GAATATTG-GAGAGAAATTGAGA
1 GAAT-TTGAGAG-GAAATTGAGA
48671437 GAA
1 GAA
48671440 ACGATTTAGG
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
21 9 0.22
22 32 0.78
ACGTcount: A:0.46, C:0.00, G:0.31, T:0.24
Consensus pattern (21 bp):
GAATTTGAGAGGAAATTGAGA
Found at i:48672560 original size:15 final size:15
Alignment explanation
Indices: 48672536--48672566 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
48672526 CTTACATACA
48672536 TGTTTATTTATTGTT
1 TGTTTATTTATTGTT
*
48672551 TGTTTGTTTATTGTT
1 TGTTTATTTATTGTT
48672566 T
1 T
48672567 ACGGACATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.10, C:0.00, G:0.16, T:0.74
Consensus pattern (15 bp):
TGTTTATTTATTGTT
Found at i:48676208 original size:4 final size:4
Alignment explanation
Indices: 48676199--48676224 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
48676189 TCACACAACC
48676199 AGGG AGGG AGGG AGGG AGGG AGGG AG
1 AGGG AGGG AGGG AGGG AGGG AGGG AG
48676225 AGACCTGAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.73, T:0.00
Consensus pattern (4 bp):
AGGG
Found at i:48682410 original size:47 final size:50
Alignment explanation
Indices: 48682345--48682453 Score: 134
Period size: 47 Copynumber: 2.2 Consensus size: 50
48682335 CATGGCAATA
*
48682345 TGTGATATGTGATTTCCGTATAACACCATAGCTGGGCTATGACATT-G-G
1 TGTGATATGTGACTTCCGTATAACACCATAGCTGGGCTATGACATTGGTG
* * * * * *
48682393 TGTGATATGTG-CTTCCGTGTAAGACCATGGCTGGGTTATGGCTTTGGTG
1 TGTGATATGTGACTTCCGTATAACACCATAGCTGGGCTATGACATTGGTG
48682442 TGTGATATGTGA
1 TGTGATATGTGA
48682454 TTATGCGCAA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
47 27 0.53
48 12 0.24
49 12 0.24
ACGTcount: A:0.20, C:0.14, G:0.30, T:0.36
Consensus pattern (50 bp):
TGTGATATGTGACTTCCGTATAACACCATAGCTGGGCTATGACATTGGTG
Found at i:48683030 original size:25 final size:25
Alignment explanation
Indices: 48683001--48683077 Score: 88
Period size: 25 Copynumber: 3.2 Consensus size: 25
48682991 ACCTTAGTGC
48683001 GCTCTTTGATTATTAGCACATCAGT
1 GCTCTTTGATTATTAGCACATCAGT
* * *
48683026 GCTCTCTGATTATTAGCACGTTAGT
1 GCTCTTTGATTATTAGCACATCAGT
* *
48683051 GCTCTTCG---ATTAGCACATCTGT
1 GCTCTTTGATTATTAGCACATCAGT
48683073 GCTCT
1 GCTCT
48683078 CTGTTCATTA
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
22 16 0.36
25 28 0.64
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.39
Consensus pattern (25 bp):
GCTCTTTGATTATTAGCACATCAGT
Found at i:48685790 original size:25 final size:24
Alignment explanation
Indices: 48685748--48685795 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 24
48685738 CTGATTAATT
48685748 GCTCTTTGGAGCTACCCGTTATAG
1 GCTCTTTGGAGCTACCCGTTATAG
*
48685772 GCTCTTTGTGAGCTTCCCGTTATA
1 GCTCTTTG-GAGCTACCCGTTATA
48685796 TTACCTGGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.15, C:0.25, G:0.23, T:0.38
Consensus pattern (24 bp):
GCTCTTTGGAGCTACCCGTTATAG
Found at i:48689503 original size:11 final size:11
Alignment explanation
Indices: 48689487--48689511 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
48689477 CATATAAGGG
48689487 AATATATGATT
1 AATATATGATT
48689498 AATATATGATT
1 AATATATGATT
48689509 AAT
1 AAT
48689512 TTCTGACATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (11 bp):
AATATATGATT
Found at i:48701415 original size:33 final size:35
Alignment explanation
Indices: 48701352--48701426 Score: 109
Period size: 34 Copynumber: 2.2 Consensus size: 35
48701342 TATAATGGGA
*
48701352 TTTACATTTTTAAAAGTAAATTTTAAATAAATA-T
1 TTTATATTTTTAAAAGTAAATTTTAAATAAATATT
* *
48701386 TTTATATTTTTATAATTAAA-TTTAAATAAATATT
1 TTTATATTTTTAAAAGTAAATTTTAAATAAATATT
48701420 TTTATAT
1 TTTATAT
48701427 ATTACAAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
33 12 0.32
34 25 0.68
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (35 bp):
TTTATATTTTTAAAAGTAAATTTTAAATAAATATT
Found at i:48717643 original size:3 final size:3
Alignment explanation
Indices: 48717629--48717678 Score: 59
Period size: 3 Copynumber: 17.3 Consensus size: 3
48717619 AAATGACATT
* * *
48717629 TTA TTA TT- TTA TTA TTA TTG TTA TTA TTA ATA TTA TTG TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
48717675 TTA T
1 TTA T
48717679 GAAATAAATT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 4 0.10
3 35 0.90
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:48717664 original size:18 final size:18
Alignment explanation
Indices: 48717632--48717673 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
48717622 TGACATTTTA
*
48717632 TTATT-TTATTATTATTG
1 TTATTATTAATATTATTG
48717649 TTATTATTAATATTATTG
1 TTATTATTAATATTATTG
48717667 TTATTAT
1 TTATTAT
48717674 ATTATGAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.67
Consensus pattern (18 bp):
TTATTATTAATATTATTG
Found at i:48725966 original size:28 final size:27
Alignment explanation
Indices: 48725919--48725978 Score: 63
Period size: 27 Copynumber: 2.2 Consensus size: 27
48725909 ATACACAATT
48725919 AAAAATATAATGAAAAATAAATTTA-TAA
1 AAAAATATAATGAAAAAT-AA-TTACTAA
48725947 AAAAATAT-AT-AAATATATAATTACTAA
1 AAAAATATAATGAAA-A-ATAATTACTAA
48725974 AAAAA
1 AAAAA
48725979 ACCACACAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
26 6 0.21
27 13 0.45
28 10 0.34
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (27 bp):
AAAAATATAATGAAAAATAATTACTAA
Found at i:48728691 original size:17 final size:17
Alignment explanation
Indices: 48728660--48728710 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
48728650 TATGGGAAGT
*
48728660 AATCTTTAGAGGATTTGC
1 AATC-TTAGAAGATTTGC
*
48728678 AATCTTAGAAGATTTGT
1 AATCTTAGAAGATTTGC
*
48728695 AATCTTAGAAAATTTG
1 AATCTTAGAAGATTTG
48728711 ATTCTGTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
17 26 0.87
18 4 0.13
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.39
Consensus pattern (17 bp):
AATCTTAGAAGATTTGC
Found at i:48733250 original size:39 final size:39
Alignment explanation
Indices: 48733196--48733288 Score: 168
Period size: 39 Copynumber: 2.4 Consensus size: 39
48733186 ATATTCCGAC
48733196 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
* *
48733235 TACTGTTACTGTTACCGATTTGGCACTTTGTGTGTTGAA
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
48733274 TACTGTTACTGTTAC
1 TACTGTTACTGTTAC
48733289 TATTACCGTT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 52 1.00
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.42
Consensus pattern (39 bp):
TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
Found at i:48733284 original size:45 final size:45
Alignment explanation
Indices: 48733196--48733395 Score: 196
Period size: 45 Copynumber: 4.4 Consensus size: 45
48733186 ATATTCCGAC
48733196 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCG-A-A----
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATACTGT
* *
48733235 TACTGTTACTGTTACCGATTTGGCACTTTGTGTGTTGAATACTGT
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATACTGT
48733280 TACTGTTACTATTACCGTTACCGATTCGGCACTTTGTGTGTCGAATACTGT
1 TACTGTTAC---T---GTTACCGATTCGGCACTTTGTGTGTCGAATACTGT
* * ** ** *
48733331 TACCGTTGCTGTTACAAATTTAGCACTTTGTGTGTTGAATACTGT
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATACTGT
* * *
48733376 TACTGCTACCGTTACTGATT
1 TACTGTTACTGTTACCGATT
48733396 ACTGTTTAGG
Statistics
Matches: 132, Mismatches: 17, Indels: 18
0.79 0.10 0.11
Matches are distributed among these distances:
39 35 0.27
40 1 0.01
41 1 0.01
45 53 0.40
48 2 0.02
51 40 0.30
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (45 bp):
TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATACTGT
Found at i:48733374 original size:90 final size:87
Alignment explanation
Indices: 48733196--48733395 Score: 235
Period size: 90 Copynumber: 2.2 Consensus size: 87
48733186 ATATTCCGAC
* ** *
48733196 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATACTGTTACTGTTACCGATTTGGCAC
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATACTGTTACTGTTACAAATTTAGCAC
48733261 TTTGTGTGTTGAATACTGTTACTGT
66 TTTGTGTGTTGAATA---TTACTGT
*
48733286 TACTATTACCGTTACCGATTCGGCACTTTGTGTGTCGAATACTGTTACCGTTGCTGTTACAAATT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATACTGTTA------CTGTTACAAATT
48733351 TAGCACTTTGTGTGTTG-A-A-TACTGT
60 TAGCACTTTGTGTGTTGAATATTACTGT
* *
48733376 TACTGCTACCGTTACTGATT
1 TACTGTTACCGTTACCGATT
48733396 ACTGTTTAGG
Statistics
Matches: 96, Mismatches: 8, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
90 68 0.71
94 1 0.01
95 1 0.01
96 26 0.27
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (87 bp):
TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATACTGTTACTGTTACAAATTTAGCAC
TTTGTGTGTTGAATATTACTGT
Found at i:48733380 original size:51 final size:51
Alignment explanation
Indices: 48733239--48733397 Score: 177
Period size: 51 Copynumber: 3.2 Consensus size: 51
48733229 GTCGAATACT
*
48733239 GTTACTGTTACCGATTTGGCACTTTGTGTGTTGAATACTGTTACTGTTACT
1 GTTACTGTTACCGATTTGGCACTTTGTGTGTTGAATACTGTTACTGTTACC
* * * *
48733290 ATTACCGTTACCGATTCGGCACTTTGTGTGTCG-A-A----TACTGTTACC
1 GTTACTGTTACCGATTTGGCACTTTGTGTGTTGAATACTGTTACTGTTACC
* ** * *
48733335 GTTGCTGTTACAAATTTAGCACTTTGTGTGTTGAATACTGTTACTGCTACC
1 GTTACTGTTACCGATTTGGCACTTTGTGTGTTGAATACTGTTACTGTTACC
48733386 GTTACTGATTAC
1 GTTACTG-TTAC
48733398 TGTTTAGGTA
Statistics
Matches: 86, Mismatches: 15, Indels: 13
0.75 0.13 0.11
Matches are distributed among these distances:
45 34 0.40
46 1 0.01
47 1 0.01
49 1 0.01
50 1 0.01
51 44 0.51
52 4 0.05
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (51 bp):
GTTACTGTTACCGATTTGGCACTTTGTGTGTTGAATACTGTTACTGTTACC
Found at i:48757726 original size:21 final size:21
Alignment explanation
Indices: 48757664--48757726 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
48757654 TCAGCACTTT
*
48757664 TGAGCTTCAGTTTAACCCTTA
1 TGAGCTTCTGTTTAACCCTTA
* * *
48757685 TGGGTTTCTG-TTAAGCTCTTA
1 TGAGCTTCTGTTTAA-CCCTTA
48757706 TGAGCTTCTGTTTAACCCTTA
1 TGAGCTTCTGTTTAACCCTTA
48757727 CGGGTTCCCG
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
20 4 0.12
21 25 0.76
22 4 0.12
ACGTcount: A:0.19, C:0.21, G:0.17, T:0.43
Consensus pattern (21 bp):
TGAGCTTCTGTTTAACCCTTA
Found at i:48757732 original size:42 final size:42
Alignment explanation
Indices: 48757607--48757732 Score: 139
Period size: 42 Copynumber: 3.0 Consensus size: 42
48757597 TCTCGTGAGC
* * *
48757607 TTCAATTAA-CTCATATGAGTTTCAGTTTAACCCTT-CTAGGT
1 TTCAATTAAGCTCTTATGAGCTTCAGTTTAACCCTTAC-GGGT
* * * *
48757648 TTCAATTCAGCACTTTTGAGCTTCAGTTTAACCCTTATGGGT
1 TTCAATTAAGCTCTTATGAGCTTCAGTTTAACCCTTACGGGT
** *
48757690 TTCTGTTAAGCTCTTATGAGCTTCTGTTTAACCCTTACGGGT
1 TTCAATTAAGCTCTTATGAGCTTCAGTTTAACCCTTACGGGT
48757732 T
1 T
48757733 CCCGTTTAGC
Statistics
Matches: 69, Mismatches: 14, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
41 8 0.12
42 61 0.88
ACGTcount: A:0.21, C:0.21, G:0.16, T:0.42
Consensus pattern (42 bp):
TTCAATTAAGCTCTTATGAGCTTCAGTTTAACCCTTACGGGT
Found at i:48757748 original size:42 final size:42
Alignment explanation
Indices: 48757620--48757754 Score: 128
Period size: 42 Copynumber: 3.2 Consensus size: 42
48757610 AATTAACTCA
* * * ** *
48757620 TATGAGTTTCAGTTTAACCCTT-CTAGGTTTCAATTCAGCACT
1 TATGAGCTTCAGTTTAACCCTTAC-GGGTTCCCGTTAAGCACT
* * * * *
48757662 TTTGAGCTTCAGTTTAACCCTTATGGGTTTCTGTTAAGCTCT
1 TATGAGCTTCAGTTTAACCCTTACGGGTTCCCGTTAAGCACT
* *
48757704 TATGAGCTTCTGTTTAACCCTTACGGGTTCCCGTTTAGCACT
1 TATGAGCTTCAGTTTAACCCTTACGGGTTCCCGTTAAGCACT
*
48757746 TATGTGCTT
1 TATGAGCTT
48757755 TTGTGCAGCT
Statistics
Matches: 76, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
42 76 1.00
ACGTcount: A:0.19, C:0.21, G:0.18, T:0.42
Consensus pattern (42 bp):
TATGAGCTTCAGTTTAACCCTTACGGGTTCCCGTTAAGCACT
Found at i:48759529 original size:21 final size:22
Alignment explanation
Indices: 48759497--48759537 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
48759487 TTAGTGGTAA
48759497 ATGTGATGCATTTAGGATATTG
1 ATGTGATGCATTTAGGATATTG
*
48759519 ATGTGAT-CATTTATGATAT
1 ATGTGATGCATTTAGGATAT
48759538 CCAACAACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.29, C:0.05, G:0.22, T:0.44
Consensus pattern (22 bp):
ATGTGATGCATTTAGGATATTG
Found at i:48760383 original size:16 final size:16
Alignment explanation
Indices: 48760358--48760388 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48760348 GATATACGAA
*
48760358 AAAAATGAAAAAAAAG
1 AAAAACGAAAAAAAAG
48760374 AAAAACGAAAAAAAA
1 AAAAACGAAAAAAAA
48760389 ATTTGGGTGC
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:0.84, C:0.03, G:0.10, T:0.03
Consensus pattern (16 bp):
AAAAACGAAAAAAAAG
Found at i:48760743 original size:206 final size:201
Alignment explanation
Indices: 48760382--48761102 Score: 780
Period size: 205 Copynumber: 3.5 Consensus size: 201
48760372 AGAAAAACGA
* * * **
48760382 AAAAAAAATTTGGGTGCTGGCTTGTCAATGGCTGGCACCCAGTACAAATTTTAAAAAAAAAATTC
1 AAAAAAAATTTGGGTGCTTGCCTGTCAATGGCCGGCACCCAGTACAAA--TTAAAAAAAATCTT-
48760447 TTTTTTTCGTGTCAAAATCAGATATAAATATACG-AAAAAAAA-TTGGTGCTGTCCTGTCAATGG
63 TTTTTTTCGTGTCAAAATCAGATATAAATATACGAAAAAAAAATTTGGTGCTGT-CTGTCAATGG
* *
48760510 CTAGAACCCAGTAC-AAATTTAAAAAAAATTATTTTTTTTCGTGTCAGAATCAAATATAAATATA
127 CTGGCACCCAGTACAAAATTTAAAAAAAATTATTTTTTTTCGTGTCAGAATCAAATATAAATATA
48760574 CGAAAAAAAT
192 CGAAAAAAAT
* * *
48760584 AAAAAAAAAAAGTTT-GGTGGTTGCCTGTCAATGGCCGGCAACCAGTAGAAATTAAAAAAAATTC
1 ---AAAAAAAA-TTTGGGTGCTTGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAAAAAA-TC
* * *
48760648 TTTTTTTTTTCATGTCAGAATCATATATAAATATACGAAAAAAAAATTTGGTGCTGGTCTGTCAA
61 -TTTTTTTTTCGTGTCAAAATCAGATATAAATATACGAAAAAAAAATTTGGTGCT-GTCTGTCAA
** *
48760713 TGG-TCGGCACTTAGTACAAAATTTAAAAAAAATTCTTTTTTTTTCGTGTCAGAATCAAATATAA
124 TGGCT-GGCACCCAGTACAAAATTTAAAAAAAATT-ATTTTTTTTCGTGTCAGAATCAAATATAA
48760777 ATATACGAAAAAAAT
187 ATATACGAAAAAAAT
** * *
48760792 AAAAAAAATTTCGGGTG-TTGGCCTGTCAATGGCAAGCACCCAGTACGAATTTAAAAAAAA---A
1 AAAAAAAATTT-GGGTGCTT-GCCTGTCAATGGCCGGCACCCAGTAC-AAATTAAAAAAAATCTT
* * ** * * * * ** * * *
48760853 TTATTGTCAGAATCATATAT-AAATATACGAAAAAAATAAAAAAAAATTTGGGTGCAAGCCTATC
63 TTTTTTTC-GTGTCA-AAATCAGATATA--AATATACGAAAAAAAAATTT-GGTGC-TGTCTGTC
* *
48760917 AATGGCTGGCACCCAGTACAAATTTTTAAAAAAAATTA-TTTTTTTCGTGTCAGAATCAGATATA
122 AATGGCTGGCACCCAGTACAAA-ATTTAAAAAAAATTATTTTTTTTCGTGTCAGAATCAAATATA
48760981 AATATACGAAAAAAAT
186 AATATACGAAAAAAAT
** *
48760997 AAAAAAAATTTTGGGTGCTAACCTGACAATGGCCGGCACCCAGTACAAATTAAAAAAAAATCTTA
1 AAAAAAAA-TTTGGGTGCTTGCCTGTCAATGGCCGGCACCCAGTACAAATT-AAAAAAAATCTT-
*
48761062 TTTTTTTCGTGTCAAAATCAGATATACATATACGAAAAAAA
63 TTTTTTTCGTGTCAAAATCAGATATAAATATACGAAAAAAA
48761103 TAAAAAAATT
Statistics
Matches: 427, Mismatches: 60, Indels: 57
0.78 0.11 0.10
Matches are distributed among these distances:
202 6 0.01
203 19 0.04
204 40 0.09
205 159 0.37
206 97 0.23
207 47 0.11
208 53 0.12
209 6 0.01
ACGTcount: A:0.43, C:0.13, G:0.14, T:0.30
Consensus pattern (201 bp):
AAAAAAAATTTGGGTGCTTGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAAAAAATCTTTTT
TTTTCGTGTCAAAATCAGATATAAATATACGAAAAAAAAATTTGGTGCTGTCTGTCAATGGCTGG
CACCCAGTACAAAATTTAAAAAAAATTATTTTTTTTCGTGTCAGAATCAAATATAAATATACGAA
AAAAAT
Found at i:48760873 original size:98 final size:97
Alignment explanation
Indices: 48760759--48761158 Score: 361
Period size: 107 Copynumber: 3.9 Consensus size: 97
48760749 TTTTTTTTCG
* *
48760759 TGTCAGAATCAAATATAAATATACGAAAAAAATAAAAAAAATTTCGGGTGTTGGCCTGTCAATGG
1 TGTCAGAATCAAATATAAATATACGAAAAAAATAAAAAAAATTT-GGGTGCTAGCCTGTCAATGG
*
48760824 CAAGCACCCAGTACGAATTTAAAAAAAAATTAT-
65 CAGGCACCCAGTAC-AATTTAAAAAAAAATTATC
* * *
48760857 TGTCAGAATCATATATAAATATACGAAAAAAATAAAAAAAAATTTGGGTGCAAGCCTATCAATGG
1 TGTCAGAATCAAATATAAATATACGAAAAAAAT-AAAAAAAATTTGGGTGCTAGCCTGTCAATGG
* *
48760922 CTGGCACCCAGTACAAATTTTTAAAAAAAATTATTTTTTTC
65 CAGGCACCCAGTAC-AA--TTTAAAAAAAA--A---TTATC
* * *
48760963 GTGTCAGAATCAGATATAAATATACGAAAAAAATAAAAAAAATTTTGGGTGCTAACCTGACAATG
1 -TGTCAGAATCAAATATAAATATACGAAAAAAATAAAAAAAA-TTTGGGTGCTAGCCTGTCAATG
* *
48761028 GCCGGCACCCAGTACAAATTAAAAAAAAATCTTATTTTTTTC
64 GCAGGCACCCAGTACAATTTAAAAAAAAA--TTA------TC
* * * * * ** *
48761070 GTGTCAAAATCAGATATACATATACGAAAAAAATAAAAAAATTTTTGAGTGCCGGCTTGTCAATG
1 -TGTCAGAATCAAATATAAATATACGAAAAAAATAAAAAAA-ATTTGGGTGCTAGCCTGTCAATG
* **
48761135 GCCGGCTTCCAGTACAAATTTAAA
64 GCAGGCACCCAGTAC-AATTTAAA
48761159 TTTTTTTTCG
Statistics
Matches: 253, Mismatches: 30, Indels: 28
0.81 0.10 0.09
Matches are distributed among these distances:
98 62 0.25
99 11 0.04
100 11 0.04
101 3 0.01
102 2 0.01
104 10 0.04
105 3 0.01
106 10 0.04
107 134 0.53
108 7 0.03
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.27
Consensus pattern (97 bp):
TGTCAGAATCAAATATAAATATACGAAAAAAATAAAAAAAATTTGGGTGCTAGCCTGTCAATGGC
AGGCACCCAGTACAATTTAAAAAAAAATTATC
Found at i:48760980 original size:107 final size:106
Alignment explanation
Indices: 48760857--48761158 Score: 381
Period size: 107 Copynumber: 2.8 Consensus size: 106
48760847 AAAAAATTAT
* ** *
48760857 TGTCAGAATCATATATAAATATACGAAAAAAATAAAAAAAAATTTGGGTGCAAGCCTATCAATGG
1 TGTCAGAATCAAATATAAATATACGAAAAAAATAAAAAAAAATTTGGGTGCTGGCCTGTCAATGG
*
48760922 CTGGCACCCAGTACAAATTTTTAAAAAAAA-TTATTTTTTTCG
66 CCGGCACCCAGTACAAA--TTTAAAAAAAATTTATTTTTTTCG
* * ** *
48760964 TGTCAGAATCAGATATAAATATACGAAAAAAATAAAAAAAATTTTGGGTGCTAACCTGACAATGG
1 TGTCAGAATCAAATATAAATATACGAAAAAAATAAAAAAAAATTTGGGTGCTGGCCTGTCAATGG
*
48761029 CCGGCACCCAGTACAAATTAAAAAAAAATCTTATTTTTTTCG
66 CCGGCACCCAGTACAAATTTAAAAAAAAT-TTATTTTTTTCG
* * * ** * * *
48761071 TGTCAAAATCAGATATACATATACGAAAAAAATAAAAAAATTTTTGAGTGCCGGCTTGTCAATGG
1 TGTCAGAATCAAATATAAATATACGAAAAAAATAAAAAAAAATTTGGGTGCTGGCCTGTCAATGG
**
48761136 CCGGCTTCCAGTACAAATTTAAA
66 CCGGCACCCAGTACAAATTTAAA
48761159 TTTTTTTTCG
Statistics
Matches: 173, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
105 10 0.06
107 163 0.94
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.28
Consensus pattern (106 bp):
TGTCAGAATCAAATATAAATATACGAAAAAAATAAAAAAAAATTTGGGTGCTGGCCTGTCAATGG
CCGGCACCCAGTACAAATTTAAAAAAAATTTATTTTTTTCG
Found at i:48761166 original size:205 final size:203
Alignment explanation
Indices: 48760381--48761192 Score: 640
Period size: 205 Copynumber: 4.0 Consensus size: 203
48760371 AAGAAAAACG
* * * * *
48760381 AAAAAAAAATTTGGGTGCTGGCTTGTCAATGGCTGGCACCCAGTACAAATTTTAAAAAAAAA-AT
1 AAAAAAAATTTTGGGTGCTAGCCTGTCAATGGCCGGCACCCAGTACAAA--TTAAAAAAAAATCT
* * * * * *
48760445 TCTTTTTTTCGTGTCAAAATCAGATATAAATATACG------A-AAAAAAA-TTGGTGCTGTCCT
64 TATTTTTTTC-TGTCAGAATCATATATAAATATACGAAAAAAATAAAAAAATTTGGTGCAGGCTT
** ***
48760502 GTCAATGGCTAGAACCCAGTACAAATTTAAAAAAAATTATTTTTTTTCGTGTCAGAATCAAATAT
128 GTCAATGGCCGGCTTCCAGTACAAATTT----AAAA-T-TTTTTTTTCGTGTCAGAATCAAATAT
48760567 AAATATACGAAAAAAAT
187 AAATATACGAAAAAAAT
* * * * * *
48760584 AAAAAAAAAAAGTTT-GGTGGTTGCCTGTCAATGGCCGGCAACCAGTAGAAATTAAAAAAAATTC
1 ---AAAAAAAATTTTGGGTGCTAGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAAAAAAATC
* *
48760648 TTTTTTTTTTCATGTCAGAATCATATATAAATATACG-----AA-AAAAAAATTTGGTGCTGG-T
63 TTATTTTTTTC-TGTCAGAATCATATATAAATATACGAAAAAAATAAAAAAATTTGGTGCAGGCT
*
48760706 CTGTCAATGGTCGGCACTT--AGTACAAAATTTAAAAAAAATTCTTTTTTTTTCGTGTCAGAATC
127 -TGTCAATGGCCGG--CTTCCAGTAC-AAATTT----AAAA---TTTTTTTTTCGTGTCAGAATC
48760769 AAATATAAATATACGAAAAAAAT
181 AAATATAAATATACGAAAAAAAT
* * * ** *
48760792 AAAAAAAATTTCGGGTGTTGGCCTGTCAATGGCAAGCACCCAGTACGAATTTAAAAAAAAA--TT
1 AAAAAAAATTTTGGGTGCTAGCCTGTCAATGGCCGGCACCCAGTAC-AAATTAAAAAAAAATCTT
* *
48760855 A------T-TGTCAGAATCATATATAAATATACGAAAAAAATAAAAAAAAATTTGGGTGCAAGCC
65 ATTTTTTTCTGTCAGAATCATATATAAATATACGAAAAAAAT--AAAAAAATTT-GGTGCAGGCT
* * ** *
48760913 TATCAATGGCTGGCACCCAGTACAAATTTTTAAAAAAAATTATTTTTTTCGTGTCAGAATCAGAT
127 TGTCAATGGCCGGCTTCCAGTACAAA--TTT----AAAATT-TTTTTTTCGTGTCAGAATCAAAT
48760978 ATAAATATACGAAAAAAAT
185 ATAAATATACGAAAAAAAT
* *
48760997 AAAAAAAATTTTGGGTGCTAACCTGACAATGGCCGGCACCCAGTACAAATTAAAAAAAAATCTTA
1 AAAAAAAATTTTGGGTGCTAGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAAAAAAATCTTA
* * * *
48761062 TTTTTTTCGTGTCAAAATCAGATATACATATACGAAAAAAATAAAAAAATTTTTGAGTGCCGGCT
66 TTTTTTTC-TGTCAGAATCATATATAAATATACGAAAAAAATAAAAAAA--TTTG-GTGCAGGCT
* * *
48761127 TGTCAATGGCCGGCTTCCAGTACAAATTT-AAA-TTTTTTTTCGTGTAAGAATCATATACAAATA
127 TGTCAATGGCCGGCTTCCAGTACAAATTTAAAATTTTTTTTTCGTGTCAGAATCAAATATAAATA
48761190 TAC
192 TAC
48761193 AAAGTCATAT
Statistics
Matches: 504, Mismatches: 63, Indels: 79
0.78 0.10 0.12
Matches are distributed among these distances:
197 25 0.05
199 1 0.00
202 2 0.00
203 10 0.02
204 49 0.10
205 173 0.34
206 87 0.17
207 40 0.08
208 43 0.09
209 1 0.00
212 11 0.02
213 1 0.00
214 61 0.12
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.30
Consensus pattern (203 bp):
AAAAAAAATTTTGGGTGCTAGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAAAAAAATCTTA
TTTTTTTCTGTCAGAATCATATATAAATATACGAAAAAAATAAAAAAATTTGGTGCAGGCTTGTC
AATGGCCGGCTTCCAGTACAAATTTAAAATTTTTTTTTCGTGTCAGAATCAAATATAAATATACG
AAAAAAAT
Found at i:48766337 original size:112 final size:109
Alignment explanation
Indices: 48766137--48766786 Score: 780
Period size: 112 Copynumber: 5.8 Consensus size: 109
48766127 TTTTTTAAAA
*
48766137 ATTTTTTTCGTATATTTATATCTGATTCTGACACGAAAAAAAAAAAAATTTTTTTAAATTTGTAC
1 ATTTTTTTCGTATATTTATATCTGATTCTGACACG--AAAAAAAAGAATTTTTTTAAATTTGTAC
48766202 TGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAATATATTTTTTTT
64 TGGGTGCCGGCCATTGACAGGCCAGCACCC--AAAATATATTTTTTTT
*
48766250 AATTTTTTTCGTATATTTATATTTGATTCTGACACGAAAAAAAAGAATTTTTTTAAATTTGTACT
1 -ATTTTTTTCGTATATTTATATCTGATTCTGACACGAAAAAAAAGAATTTTTTTAAATTTGTACT
* * *
48766315 GGGTACCGGCTATTGACAGGCCAGCACCCAAAA-ATTATTTTTTTAA
65 GGGTGCCGGCCATTGACAGGCCAGCACCCAAAATA-TATTTTTTT-T
*
48766361 AATTTTTTCGTATATTTATATCTGATTCTGACACG-AAAAAAAGAAATTTTTTTTTAAATTTGTA
1 ATTTTTTTCGTATATTTATATCTGATTCTGACACGAAAAAAAAG-AA--TTTTTTTAAATTTGTA
* *
48766425 CTGGGTGCCGGCCATTGACAGACCAGCACCCAAAATA-AATTTTTTT
63 CTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATATATTTTTTTT
* **
48766471 ATTTTTTTCGTATATTTATATCTGATTCTGACACG-----GAA-TTTTTTTTTAAAAAAAATTTG
1 ATTTTTTTCGTATATTTATATCTGATTCTGACACGAAAAAAAAGAATTTTTTT-----AAATTTG
* * *
48766530 TACTAGGTGCCGGCCATTGATAGGCTAGCACCCAAAATAT-TTTTTTTT
61 TACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATATATTTTTTTT
*
48766578 ATATTTTTCGTATATTTATATCTGATTCTGACACGAAAAAAAAAGAAATTTTTTTTCTAGAATTT
1 ATTTTTTTCGTATATTTATATCTGATTCTGACACG-AAAAAAAAG-AA--TTTTTT-TA-AATTT
* *
48766643 GTACTGGGTGCCGGCCATTGACAGGCCAACACCCAAAATAAATTTTTTTT
60 GTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATATATTTTTTTT
* * * * ******
48766693 CTTTTTTCCATATATTTATATATGATTCTGACACGAAAAATTTTTTTTTTTTTAAAAATTTGTAC
1 ATTTTTTTCGTATATTTATATCTGATTCTGACACGAAAAAAAAGAATTTTTTT--AAATTTGTAC
48766758 TGGGTGCCGGCCATTGACAGGCCAGCACC
64 TGGGTGCCGGCCATTGACAGGCCAGCACC
48766787 TAAATTTTTT
Statistics
Matches: 467, Mismatches: 42, Indels: 57
0.83 0.07 0.10
Matches are distributed among these distances:
102 7 0.01
106 2 0.00
107 83 0.18
109 9 0.02
110 83 0.18
111 50 0.11
112 104 0.22
113 4 0.01
114 80 0.17
115 38 0.08
117 6 0.01
118 1 0.00
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (109 bp):
ATTTTTTTCGTATATTTATATCTGATTCTGACACGAAAAAAAAGAATTTTTTTAAATTTGTACTG
GGTGCCGGCCATTGACAGGCCAGCACCCAAAATATATTTTTTTT
Found at i:48767763 original size:27 final size:30
Alignment explanation
Indices: 48767733--48767802 Score: 85
Period size: 27 Copynumber: 2.5 Consensus size: 30
48767723 ATCTCTATAC
*
48767733 ACTTTTTATATTT-GGAATTTAGT-C-TCT
1 ACTTTTTATATTTAGGAATTTAATCCTTCT
*
48767760 AC-TTTTATTTTTAGGAATTTAATCCTTCT
1 ACTTTTTATATTTAGGAATTTAATCCTTCT
*
48767789 ACTTTTTAAATTTA
1 ACTTTTTATATTTA
48767803 AAAATTTAGG
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
26 9 0.26
27 11 0.31
28 1 0.03
29 5 0.14
30 9 0.26
ACGTcount: A:0.26, C:0.11, G:0.07, T:0.56
Consensus pattern (30 bp):
ACTTTTTATATTTAGGAATTTAATCCTTCT
Found at i:48767767 original size:26 final size:29
Alignment explanation
Indices: 48767736--48767794 Score: 79
Period size: 26 Copynumber: 2.1 Consensus size: 29
48767726 TCTATACACT
*
48767736 TTTTATATTT-GGAATTTAGT-C-TCTAC
1 TTTTATATTTAGGAATTTAATCCTTCTAC
*
48767762 TTTTATTTTTAGGAATTTAATCCTTCTAC
1 TTTTATATTTAGGAATTTAATCCTTCTAC
48767791 TTTT
1 TTTT
48767795 TAAATTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 9 0.32
27 9 0.32
28 1 0.04
29 9 0.32
ACGTcount: A:0.22, C:0.12, G:0.08, T:0.58
Consensus pattern (29 bp):
TTTTATATTTAGGAATTTAATCCTTCTAC
Found at i:48768872 original size:31 final size:32
Alignment explanation
Indices: 48768817--48768876 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
48768807 ACATAAACAA
*
48768817 AATATTTTAAAATTTTAAATATAATGATAAAC
1 AATATTTTAAAATATTAAATATAATGATAAAC
48768849 AATATTTTAACAA-ATT-AATATAATGATA
1 AATATTTTAA-AATATTAAATATAATGATA
48768877 TTTTAATCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 12 0.46
32 12 0.46
33 2 0.08
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.40
Consensus pattern (32 bp):
AATATTTTAAAATATTAAATATAATGATAAAC
Found at i:48770434 original size:8 final size:8
Alignment explanation
Indices: 48770373--48770438 Score: 80
Period size: 8 Copynumber: 8.0 Consensus size: 8
48770363 CGCCTTCTCA
48770373 AAAAGAAAG
1 AAAA-AAAG
48770382 -AAAAAAG
1 AAAAAAAG
*
48770389 AAGAAAAG
1 AAAAAAAG
48770397 AAAAAAAG
1 AAAAAAAG
48770405 AAAAAAAG
1 AAAAAAAG
48770413 AAAAAAGAG
1 AAAAAA-AG
48770422 AAATAAAAG
1 AAA-AAAAG
*
48770431 AATAAAAG
1 AAAAAAAG
48770439 TGAATGAAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
7 4 0.08
8 35 0.69
9 9 0.18
10 3 0.06
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (8 bp):
AAAAAAAG
Found at i:48783286 original size:4 final size:4
Alignment explanation
Indices: 48783277--48783306 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
48783267 GGTGGACAGG
48783277 GAAT GAAT GAAT GAAT GAAT GAAT GAAT GA
1 GAAT GAAT GAAT GAAT GAAT GAAT GAAT GA
48783307 TAGTGTAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.27, T:0.23
Consensus pattern (4 bp):
GAAT
Found at i:48786583 original size:21 final size:18
Alignment explanation
Indices: 48786550--48786588 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 18
48786540 AACAATGTTT
48786550 TAATTAATATTTTTTAAAA
1 TAATTAATA-TTTTTAAAA
48786569 TAATTAAATTATTTTTAAAA
1 TAATT-AA-TATTTTTAAAA
48786589 GATTAATGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.28
20 11 0.61
21 2 0.11
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TAATTAATATTTTTAAAA
Found at i:48786595 original size:23 final size:20
Alignment explanation
Indices: 48786549--48786595 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 20
48786539 TAACAATGTT
*
48786549 TTAATTAATATTTTTTAAAA
1 TTAATTAATATTTTTAAAAA
48786569 -TAATTAAATTATTTTTAAAAGA
1 TTAATT-AA-TATTTTTAAAA-A
48786591 TTAAT
1 TTAAT
48786596 GGAAAAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
19 5 0.23
20 2 0.09
21 10 0.45
22 1 0.05
23 4 0.18
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (20 bp):
TTAATTAATATTTTTAAAAA
Found at i:48795341 original size:20 final size:20
Alignment explanation
Indices: 48795316--48795365 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
48795306 TGGCTTAAAA
48795316 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
48795336 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
48795353 GTGGTAGTGGATT
1 TTGGTAGTGGATT
48795366 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:48799980 original size:20 final size:20
Alignment explanation
Indices: 48799955--48800004 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
48799945 TGGCTTAAAA
48799955 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
48799975 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
48799992 GTGGTAGTGGATT
1 TTGGTAGTGGATT
48800005 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:48814947 original size:75 final size:72
Alignment explanation
Indices: 48814788--48814935 Score: 235
Period size: 71 Copynumber: 2.0 Consensus size: 72
48814778 TACATATATA
*
48814788 TCTCTTTTATAATTTTTTTCATTTCATTTACTTATTTATTTATTTACATTTTCAATATTATTTTA
1 TCTCTTTTATAATTTTATTCATTTCATTTAC---TTTATTTATTTACATTTTCAATATTATTTTA
48814853 AAAGAATGTT
63 AAAGAATGTT
* *
48814863 TCTCTTTTATAATTTTATTCATTTCATTTAC-TTATTTATTTACATTTTCAGTATTATTTTGAAA
1 TCTCTTTTATAATTTTATTCATTTCATTTACTTTATTTATTTACATTTTCAATATTATTTTAAAA
48814927 GAATGTT
66 GAATGTT
48814934 TC
1 TC
48814936 AGTTTTTTTT
Statistics
Matches: 70, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
71 40 0.57
75 30 0.43
ACGTcount: A:0.27, C:0.10, G:0.04, T:0.59
Consensus pattern (72 bp):
TCTCTTTTATAATTTTATTCATTTCATTTACTTTATTTATTTACATTTTCAATATTATTTTAAAA
GAATGTT
Found at i:48815140 original size:83 final size:83
Alignment explanation
Indices: 48815039--48815203 Score: 321
Period size: 83 Copynumber: 2.0 Consensus size: 83
48815029 TATCGTATTC
48815039 ATTATTATTTTGCTATGTATATCAATAATGTCATTTGTTTTCGCATTCTTTTTATCACGACATCA
1 ATTATTATTTTGCTATGTATATCAATAATGTCATTTGTTTTCGCATTCTTTTTATCACGACATCA
48815104 TGCTTCATTTTACTCAAA
66 TGCTTCATTTTACTCAAA
*
48815122 ATTATTGTTTTGCTATGTATATCAATAATGTCATTTGTTTTCGCATTCTTTTTATCACGACATCA
1 ATTATTATTTTGCTATGTATATCAATAATGTCATTTGTTTTCGCATTCTTTTTATCACGACATCA
48815187 TGCTTCATTTTACTCAA
66 TGCTTCATTTTACTCAA
48815204 TATGTCAAAA
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 81 1.00
ACGTcount: A:0.25, C:0.17, G:0.09, T:0.48
Consensus pattern (83 bp):
ATTATTATTTTGCTATGTATATCAATAATGTCATTTGTTTTCGCATTCTTTTTATCACGACATCA
TGCTTCATTTTACTCAAA
Found at i:48817123 original size:12 final size:12
Alignment explanation
Indices: 48817106--48817139 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
48817096 TTAGAGCAAT
48817106 TGCAAGAACAGA
1 TGCAAGAACAGA
**
48817118 TGCAAGCCCAGA
1 TGCAAGAACAGA
48817130 TGCAAGAACA
1 TGCAAGAACA
48817140 ACTAGAAAAG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.44, C:0.24, G:0.24, T:0.09
Consensus pattern (12 bp):
TGCAAGAACAGA
Found at i:48818740 original size:23 final size:23
Alignment explanation
Indices: 48818698--48818741 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
48818688 AAGAGATCCC
* * *
48818698 TGTAGTATTTAGAGCTTACTTAG
1 TGTAATATTTAGAACATACTTAG
48818721 TGTAATATTTAGAACATACTT
1 TGTAATATTTAGAACATACTT
48818742 GTTGCTTTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (23 bp):
TGTAATATTTAGAACATACTTAG
Found at i:48819836 original size:25 final size:22
Alignment explanation
Indices: 48819791--48819842 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
48819781 AAAATATTTA
*
48819791 AAGAAAAAAGAATAAAGAAAAG
1 AAGAAAAAAGAACAAAGAAAAG
48819813 AAGAAAGAAAGAACATAAG-AAA-
1 AAGAAA-AAAGAACA-AAGAAAAG
48819835 AAGAAAAA
1 AAGAAAAA
48819843 TGAGAGGCCA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 2 0.07
22 12 0.44
23 10 0.37
24 3 0.11
ACGTcount: A:0.77, C:0.02, G:0.17, T:0.04
Consensus pattern (22 bp):
AAGAAAAAAGAACAAAGAAAAG
Found at i:48821425 original size:132 final size:132
Alignment explanation
Indices: 48821062--48821429 Score: 515
Period size: 132 Copynumber: 2.8 Consensus size: 132
48821052 CAGATCGGTG
* ** * *
48821062 AAACCACCAGTCCTATCTCCCTGAGCAACAGTGGAGTAGGTC-AAAGATTTTAGATCCTGTCTCC
1 AAACCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTCGAAA-ATTGTAAATCCTGTCTCC
* *
48821126 CTAAGTAGTAGTGGAGCAAATCGAAGATGGTGAATCTTATCTTCTCAATGTAGTAGGGAAGCAGA
65 CTAAGTAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCTCAATGTAGTAGGGAAGCAGA
48821191 TTT
130 TTT
* * * **
48821194 AAACCACTAGTCCTATCTCCCTAAGTAGTAGTGGAGTAGGTCGAAGATTGTAAATCCTGTCTTTC
1 AAACCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTCGAAAATTGTAAATCCTGTCTCCC
* * *
48821259 TAAGCAGTAGTGGAGCAGATCAAAAACGGTGAATCTTATCTTC-CAAATGTAGTAGGGAAGCAGA
66 TAAGTAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCTC-AATGTAGTAGGGAAGCAGA
48821323 TTT
130 TTT
* * *
48821326 AAACCACCAGTTCTATCTCACTAAGCAGTAGTGGAGTAGGTCGAAAATTGTAAATCATGTCTCCC
1 AAACCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTCGAAAATTGTAAATCCTGTCTCCC
* * *
48821391 TAAGTAGTAGTGGAGCAGATCGAAGGCAGCGAATCTTAT
66 TAAGTAGTAGTGGAGCAGATCGAAGACGGTGAATCTTAT
48821430 TTCACTGGCG
Statistics
Matches: 205, Mismatches: 29, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
131 1 0.00
132 202 0.99
133 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.27
Consensus pattern (132 bp):
AAACCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTCGAAAATTGTAAATCCTGTCTCCC
TAAGTAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCTCAATGTAGTAGGGAAGCAGAT
TT
Found at i:48821615 original size:50 final size:50
Alignment explanation
Indices: 48821441--48822294 Score: 629
Period size: 50 Copynumber: 17.0 Consensus size: 50
48821431 TCACTGGCGG
* * * * ** *
48821441 TGCAGTGGAACAGATTAAAGCTGCAACGGTAAATCTTGCTTCCCCGACAT
1 TGCAGTTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACAT
* * * * * * * * **
48821491 TGCAATT-AAAATATTGAAGCTACAACAGTGAATCTCACTTTTCCAGGCGG
1 TGCAGTTGAAAAGATTGAAGCTACAACGGCGAATCTTAC-TTCCCCGACAT
* * * * *
48821541 TGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCTTCCTCGATAT
1 TGCAGTTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACAT
* * *
48821591 TGCAGTTGAAAAGATTGAAGCTACAACAGTGAATCTTACTTCCCC-AGAT
1 TGCAGTTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACAT
* * * * * *
48821640 GGTGCAGTGGAACAGATTGATGCTACAACGGTGAATCTTGCTTCCCCGATAT
1 --TGCAGTTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACAT
* * * * * * **
48821692 TGCAATTAAAAAGATTGAAGCCACAATGGCGAATCTTACTTCCCTGGCGG
1 TGCAGTTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACAT
* * * * * *
48821742 TGCAATGGAACAGATTGAAGCTACAACGGTGAATCTTGCTTCCACGACAT
1 TGCAGTTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACAT
* * * * * **
48821792 TGCAATTAAAAAGATTGAAGCCACAACGGCGAATCATACTT-CCCTAGGT
1 TGCAGTTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACAT
* * * * *
48821841 GGTGTAGTGGAACAGATTGAAGCTACAACGGCGAATCTTACTTTCCCAACAT
1 --TGCAGTTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACAT
* * ** * * **
48821893 TGCATTTAAAAAGATTGAAGCTACAACGATGAATCTTACTTCCCTGGCGG
1 TGCAGTTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACAT
* * * * *
48821943 TGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCTTCCTCGATAT
1 TGCAGTTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACAT
* * *
48821993 TGCAGTTGAAAAGATTGAAGCTACAACAGTGAATCTTACTTCCCC-AGAT
1 TGCAGTTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACAT
* * * * * *
48822042 GGTGCAGTGGAACAGATTGATGCTACAACGGTGAATCTTGCTTCCCCGATAT
1 --TGCAGTTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACAT
* * * *
48822094 TGCAATTAAAAAGATTATTGAAGCTACAATGGCGAATCTTGCTTCCCCGACAT
1 TGCAGTTGAAAAG---ATTGAAGCTACAACGGCGAATCTTACTTCCCCGACAT
* * * * * * ** **
48822147 TACAATTAAAAATATTGAAGCCACAACAGCGAATCTTACTT-CCTTAGCGG
1 TGCAGTTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGA-CAT
* * * * ** * *
48822197 TGTAGTGGAACAGATTGAAGCTATAATAGCGAATCTTGCTTCCCCGACAA
1 TGCAGTTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACAT
* * * *
48822247 TGCAGTTAAAAAGATTGAAGCCACAACAGTGAATCTTACTTCCCCGAC
1 TGCAGTTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC
48822295 GAACAGATTG
Statistics
Matches: 617, Mismatches: 171, Indels: 32
0.75 0.21 0.04
Matches are distributed among these distances:
49 36 0.06
50 384 0.62
51 142 0.23
52 11 0.02
53 44 0.07
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.26
Consensus pattern (50 bp):
TGCAGTTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACAT
Found at i:48821656 original size:101 final size:101
Alignment explanation
Indices: 48821436--48822141 Score: 916
Period size: 101 Copynumber: 7.0 Consensus size: 101
48821426 TTATTTCACT
* * * *
48821436 GGCGGTGCAGTGGAACAGATTAAAGCTGCAACGGTAAATCTTGCTTCCCCGACATTGCAATT-AA
1 GGCGGTGCAGTGGAACAGATTGAAGCTACAACGGTGAATCTTGCTTCCCCGATATTGCAATTAAA
* * **
48821500 AATATTGAAGCTACAACAGTGAATCTCACTTTTCCA
66 AAGATTGAAGCTACAACAGTGAATCTTACTTCCCCA
* * * *
48821536 GGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCTTCCTCGATATTGCAGTTGAA
1 GGCGGTGCAGTGGAACAGATTGAAGCTACAACGGTGAATCTTGCTTCCCCGATATTGCAATTAAA
48821601 AAGATTGAAGCTACAACAGTGAATCTTACTTCCCCA
66 AAGATTGAAGCTACAACAGTGAATCTTACTTCCCCA
** *
48821637 GATGGTGCAGTGGAACAGATTGATGCTACAACGGTGAATCTTGCTTCCCCGATATTGCAATTAAA
1 GGCGGTGCAGTGGAACAGATTGAAGCTACAACGGTGAATCTTGCTTCCCCGATATTGCAATTAAA
* ** * *
48821702 AAGATTGAAGCCACAATGGCGAATCTTACTT-CCCT
66 AAGATTGAAGCTACAACAGTGAATCTTACTTCCCCA
* * *
48821737 GGCGGTGCAATGGAACAGATTGAAGCTACAACGGTGAATCTTGCTTCCACGACATTGCAATTAAA
1 GGCGGTGCAGTGGAACAGATTGAAGCTACAACGGTGAATCTTGCTTCCCCGATATTGCAATTAAA
* * * * *
48821802 AAGATTGAAGCCACAACGGCGAATCATACTTCCCTA
66 AAGATTGAAGCTACAACAGTGAATCTTACTTCCCCA
* * * * * * * *
48821838 GGTGGTGTAGTGGAACAGATTGAAGCTACAACGGCGAATCTTACTTTCCCAACATTGCATTTAAA
1 GGCGGTGCAGTGGAACAGATTGAAGCTACAACGGTGAATCTTGCTTCCCCGATATTGCAATTAAA
*
48821903 AAGATTGAAGCTACAAC-GATGAATCTTACTT-CCCT
66 AAGATTGAAGCTACAACAG-TGAATCTTACTTCCCCA
* * * *
48821938 GGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCTTCCTCGATATTGCAGTTGAA
1 GGCGGTGCAGTGGAACAGATTGAAGCTACAACGGTGAATCTTGCTTCCCCGATATTGCAATTAAA
48822003 AAGATTGAAGCTACAACAGTGAATCTTACTTCCCCA
66 AAGATTGAAGCTACAACAGTGAATCTTACTTCCCCA
** *
48822039 GATGGTGCAGTGGAACAGATTGATGCTACAACGGTGAATCTTGCTTCCCCGATATTGCAATTAAA
1 GGCGGTGCAGTGGAACAGATTGAAGCTACAACGGTGAATCTTGCTTCCCCGATATTGCAATTAAA
** * *
48822104 AAGATTATTGAAGCTACAATGGCGAATCTTGCTTCCCC
66 AAG---ATTGAAGCTACAACAGTGAATCTTACTTCCCC
48822142 GACATTACAA
Statistics
Matches: 530, Mismatches: 68, Indels: 12
0.87 0.11 0.02
Matches are distributed among these distances:
100 234 0.44
101 268 0.51
104 28 0.05
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (101 bp):
GGCGGTGCAGTGGAACAGATTGAAGCTACAACGGTGAATCTTGCTTCCCCGATATTGCAATTAAA
AAGATTGAAGCTACAACAGTGAATCTTACTTCCCCA
Found at i:48821784 original size:201 final size:201
Alignment explanation
Indices: 48821439--48822140 Score: 1028
Period size: 201 Copynumber: 3.5 Consensus size: 201
48821429 TTTCACTGGC
* * * *
48821439 GGTGCAGTGGAACAGATTAAAGCTGCAACGGTAAATCTTGCTTCCCCGACATTGCAATT-AAAAT
1 GGTGCAGTGGAACAGATTGAAGCTACAACGGTGAATCTTGCTTCCCCGACATTGCAATTAAAAAG
* * * * *
48821503 ATTGAAGCTACAACAGTGAATCTCACTTTTCCAGGCGGTGCAGTGGAACAGATTGAAGCTACAAC
66 ATTGAAGCTACAACGGCGAATCTTAC-TTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAAC
48821568 GGCGAATCTTGCTTCCTCGATATTGCAGTTGAAAAGATTGAAGCTACAACAGTGAATCTTACTTC
130 GGCGAATCTTGCTTCCTCGATATTGCAGTTGAAAAGATTGAAGCTACAACAGTGAATCTTACTTC
48821633 CCCAGAT
195 CCCAGAT
* *
48821640 GGTGCAGTGGAACAGATTGATGCTACAACGGTGAATCTTGCTTCCCCGATATTGCAATTAAAAAG
1 GGTGCAGTGGAACAGATTGAAGCTACAACGGTGAATCTTGCTTCCCCGACATTGCAATTAAAAAG
* * *
48821705 ATTGAAGCCACAATGGCGAATCTTACTTCCCTGGCGGTGCAATGGAACAGATTGAAGCTACAACG
66 ATTGAAGCTACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACG
* * * * * * * * *
48821770 GTGAATCTTGCTTCCACGACATTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCATACTTCC
131 GCGAATCTTGCTTCCTCGATATTGCAGTTGAAAAGATTGAAGCTACAACAGTGAATCTTACTTCC
* *
48821835 CTAGGT
196 CCAGAT
* * * * * *
48821841 GGTGTAGTGGAACAGATTGAAGCTACAACGGCGAATCTTACTTTCCCAACATTGCATTTAAAAAG
1 GGTGCAGTGGAACAGATTGAAGCTACAACGGTGAATCTTGCTTCCCCGACATTGCAATTAAAAAG
**
48821906 ATTGAAGCTACAACGATGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACG
66 ATTGAAGCTACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACG
48821971 GCGAATCTTGCTTCCTCGATATTGCAGTTGAAAAGATTGAAGCTACAACAGTGAATCTTACTTCC
131 GCGAATCTTGCTTCCTCGATATTGCAGTTGAAAAGATTGAAGCTACAACAGTGAATCTTACTTCC
48822036 CCAGAT
196 CCAGAT
* *
48822042 GGTGCAGTGGAACAGATTGATGCTACAACGGTGAATCTTGCTTCCCCGATATTGCAATTAAAAAG
1 GGTGCAGTGGAACAGATTGAAGCTACAACGGTGAATCTTGCTTCCCCGACATTGCAATTAAAAAG
* *
48822107 ATTATTGAAGCTACAATGGCGAATCTTGCTTCCC
66 ---ATTGAAGCTACAACGGCGAATCTTACTTCCC
48822141 CGACATTACA
Statistics
Matches: 436, Mismatches: 61, Indels: 5
0.87 0.12 0.01
Matches are distributed among these distances:
201 384 0.88
202 25 0.06
204 27 0.06
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (201 bp):
GGTGCAGTGGAACAGATTGAAGCTACAACGGTGAATCTTGCTTCCCCGACATTGCAATTAAAAAG
ATTGAAGCTACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACG
GCGAATCTTGCTTCCTCGATATTGCAGTTGAAAAGATTGAAGCTACAACAGTGAATCTTACTTCC
CCAGAT
Found at i:48823137 original size:17 final size:18
Alignment explanation
Indices: 48823105--48823139 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
48823095 GGGAAATAAT
*
48823105 AAAAGAAAACGGTTCAAA
1 AAAAGAAAACGATTCAAA
48823123 AAAAGAAAA-GATTCAAA
1 AAAAGAAAACGATTCAAA
48823140 GGTTGTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.66, C:0.09, G:0.14, T:0.11
Consensus pattern (18 bp):
AAAAGAAAACGATTCAAA
Found at i:48829384 original size:25 final size:24
Alignment explanation
Indices: 48829356--48829406 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
48829346 TATAATAGGA
*
48829356 AGCTCACAAAGAGCCTAT-AACGGGT
1 AGCTC-CAAAGAG-CAATCAACGGGT
*
48829381 AGCTCCGAAGAGCAATCAACGGGT
1 AGCTCCAAAGAGCAATCAACGGGT
48829405 AG
1 AG
48829407 AAAGAGCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 3 0.13
24 15 0.65
25 5 0.22
ACGTcount: A:0.35, C:0.24, G:0.27, T:0.14
Consensus pattern (24 bp):
AGCTCCAAAGAGCAATCAACGGGT
Found at i:48837418 original size:32 final size:32
Alignment explanation
Indices: 48837377--48837467 Score: 146
Period size: 32 Copynumber: 2.8 Consensus size: 32
48837367 ATACTTCAGT
**
48837377 TGACCAGTCTTACTAACAATGAAAATCCTAAA
1 TGACCAGTCTTACTAACAGCGAAAATCCTAAA
*
48837409 TGACCAGTCTTACTAACAGCGAAAATCCTAAG
1 TGACCAGTCTTACTAACAGCGAAAATCCTAAA
*
48837441 GGACCAGTCTTACTAACAGCGAAAATC
1 TGACCAGTCTTACTAACAGCGAAAATC
48837468 TTTTGATAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 55 1.00
ACGTcount: A:0.40, C:0.24, G:0.14, T:0.22
Consensus pattern (32 bp):
TGACCAGTCTTACTAACAGCGAAAATCCTAAA
Found at i:48837745 original size:37 final size:37
Alignment explanation
Indices: 48837704--48837777 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
48837694 TATCCAATAA
48837704 CATGACCCAAAAATGAGATTGATCAGCTATGCAAAAT
1 CATGACCCAAAAATGAGATTGATCAGCTATGCAAAAT
*
48837741 CATGACCCAAGAATGAGATTGATCAGCTATGCAAAAT
1 CATGACCCAAAAATGAGATTGATCAGCTATGCAAAAT
48837778 AATAGCCATA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.22
Consensus pattern (37 bp):
CATGACCCAAAAATGAGATTGATCAGCTATGCAAAAT
Found at i:48851036 original size:16 final size:15
Alignment explanation
Indices: 48850993--48851039 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
48850983 ATTTAAAAAT
* *
48850993 AATAGAAATGTAT-A
1 AATATAAATATATAA
*
48851007 AATATATATATATAA
1 AATATAAATATATAA
48851022 AATATAAAGTATATAA
1 AATATAAA-TATATAA
48851038 AA
1 AA
48851040 GTTTAAAAGG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 10 0.37
15 8 0.30
16 9 0.33
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (15 bp):
AATATAAATATATAA
Done.