Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 221 of 322
Found at i:73085724 original size:18 final size:18
Alignment explanation
Indices: 73085701--73085737 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
73085691 GAAAACGAAA
73085701 AAGAAGGAAAG-GATGAAG
1 AAGAA-GAAAGAGATGAAG
73085719 AAGAAGAAAGAGATGAAG
1 AAGAAGAAAGAGATGAAG
73085737 A
1 A
73085738 GACATATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.59, C:0.00, G:0.35, T:0.05
Consensus pattern (18 bp):
AAGAAGAAAGAGATGAAG
Found at i:73100406 original size:45 final size:44
Alignment explanation
Indices: 73100336--73100425 Score: 126
Period size: 45 Copynumber: 2.0 Consensus size: 44
73100326 ATCTTTCTTT
73100336 TTCGAAGTTAGGGACAGTCCCGATACAAAATCCATAGTGACTCTA
1 TTCGAAGTTAGGGACAGTCCCGATACAAAAT-CATAGTGACTCTA
* * ** *
73100381 TTCGGAGTTAGGGGCAGTCTTGATACGAAATCATAGTGACTCTA
1 TTCGAAGTTAGGGACAGTCCCGATACAAAATCATAGTGACTCTA
73100425 T
1 T
73100426 CCCATTTCCA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 14 0.35
45 26 0.65
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (44 bp):
TTCGAAGTTAGGGACAGTCCCGATACAAAATCATAGTGACTCTA
Found at i:73104392 original size:79 final size:81
Alignment explanation
Indices: 73104290--73104473 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 81
73104280 GCTCCTCGTT
* *
73104290 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACC
*
73104352 CGGAT-TTAGTAAC-TCGCA
63 CGGATATT-GTAACTTAGCA
**
73104370 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
*
73104434 ATATTGTCACTTAGCA
66 ATATTGTAACTTAGCA
73104450 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
73104474 CATCATTCAA
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 14 0.15
79 56 0.61
80 22 0.24
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATTGTAACTTAGCA
Found at i:73104407 original size:39 final size:41
Alignment explanation
Indices: 73104290--73104473 Score: 199
Period size: 40 Copynumber: 4.6 Consensus size: 41
73104280 GCTCCTCGTT
* *
73104290 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAATCTCGCA
* *
73104330 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAA-CTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
73104370 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
* * *
73104409 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAATC-TCGCA
73104450 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
73104474 CATCATTCAA
Statistics
Matches: 128, Mismatches: 7, Indels: 19
0.83 0.05 0.12
Matches are distributed among these distances:
38 3 0.02
39 48 0.38
40 66 0.52
41 11 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
Found at i:73107044 original size:31 final size:31
Alignment explanation
Indices: 73107009--73107072 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
73106999 CCTTTCCATA
73107009 TTTCATATTTCATAACACTGGGCCAAAGCCT
1 TTTCATATTTCATAACACTGGGCCAAAGCCT
** *
73107040 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCAAAGCCT
73107071 TT
1 TT
73107073 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCAAAGCCT
Found at i:73107389 original size:26 final size:24
Alignment explanation
Indices: 73107281--73107388 Score: 128
Period size: 25 Copynumber: 4.4 Consensus size: 24
73107271 CTGGAGGCCT
*
73107281 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCC-CTTTTGATAAACTGGGGCAA
73107305 AGCCCTTTTGATAAACTGGGGCAAA
1 AGCCCTTTTGATAAACTGGGGC-AA
* *
73107330 AGCCCTTTTAATAAACTAGGGCAA
1 AGCCCTTTTGATAAACTGGGGCAA
* *
73107354 AGGCCCTTTTCGGTAAACTGGGGCAT
1 A-GCCCTTTT-GATAAACTGGGGCAA
73107380 AGCCCTTTT
1 AGCCCTTTT
73107389 TGCACTTCCT
Statistics
Matches: 73, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
23 7 0.10
24 16 0.22
25 38 0.52
26 12 0.16
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
AGCCCTTTTGATAAACTGGGGCAA
Found at i:73107459 original size:20 final size:20
Alignment explanation
Indices: 73107436--73107482 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
73107426 TTATGAATAC
73107436 ATCATGTGCATATCATA-CA
1 ATCATGTGCATATCATATCA
73107455 TATCATGTGCATATCATATCA
1 -ATCATGTGCATATCATATCA
73107476 ATCATGT
1 ATCATGT
73107483 ATATCAAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATATCA
Found at i:73111742 original size:45 final size:45
Alignment explanation
Indices: 73111691--73111813 Score: 140
Period size: 45 Copynumber: 2.7 Consensus size: 45
73111681 GAGTCATGGT
* *
73111691 CGGTAAGCTCTTTTGAGCTGAACAGTAAGCTCT-ATTGAGCTGAAA
1 CGGTAAGCTCTTTTGAGTTGAACAGTAAGCTCTCA-TGAGCTAAAA
* *
73111736 CGGTAAGCTCTATTGAGTTGAACGGTAAGCTCTCATGAGCTAAAA
1 CGGTAAGCTCTTTTGAGTTGAACAGTAAGCTCTCATGAGCTAAAA
*** **
73111781 AAATAAGCTCTTACGAGTTGAATCAGTAAGCTC
1 CGGTAAGCTCTTTTGAGTTGAA-CAGTAAGCTC
73111814 ATACGAGCTG
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
45 55 0.85
46 10 0.15
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.28
Consensus pattern (45 bp):
CGGTAAGCTCTTTTGAGTTGAACAGTAAGCTCTCATGAGCTAAAA
Found at i:73111745 original size:23 final size:22
Alignment explanation
Indices: 73111691--73111776 Score: 120
Period size: 22 Copynumber: 3.9 Consensus size: 22
73111681 GAGTCATGGT
*
73111691 CGGTAAGCTCTTTTGAGCTGAA
1 CGGTAAGCTCTATTGAGCTGAA
*
73111713 CAGTAAGCTCTATTGAGCTGAAA
1 CGGTAAGCTCTATTGAGCTG-AA
*
73111736 CGGTAAGCTCTATTGAGTTGAA
1 CGGTAAGCTCTATTGAGCTGAA
73111758 CGGTAAGCTCTCA-TGAGCT
1 CGGTAAGCTCT-ATTGAGCT
73111777 AAAAAAATAA
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
22 36 0.63
23 21 0.37
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (22 bp):
CGGTAAGCTCTATTGAGCTGAA
Found at i:73116450 original size:17 final size:17
Alignment explanation
Indices: 73116428--73116464 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
73116418 ATATTGCCTA
73116428 GCAGATAGTATCGCATG
1 GCAGATAGTATCGCATG
* *
73116445 GCAGATTGTATCGCTTG
1 GCAGATAGTATCGCATG
73116462 GCA
1 GCA
73116465 AACTGTATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (17 bp):
GCAGATAGTATCGCATG
Found at i:73116483 original size:51 final size:51
Alignment explanation
Indices: 73116413--73116553 Score: 126
Period size: 51 Copynumber: 2.8 Consensus size: 51
73116403 ATTGCCTGGT
* * * *
73116413 AAACAATATTGCCTAGCAGATAGTATCGCATGGCAGATTGTATCGCT-TGGC
1 AAACAGTATTGCCTGGCAGATAGTATCGCATGGCAGATAGTATCG-TGTGCC
* * * * *
73116464 AAACTGTATTGCCTGGCAGACAATATCG-ACTAGTAGATAGTATCGTGTGCC
1 AAACAGTATTGCCTGGCAGATAGTATCGCA-TGGCAGATAGTATCGTGTGCC
* * *
73116515 GAACAGTATTGCCTGGC-GAGTAGTATCGCCTGGCGGATA
1 AAACAGTATTGCCTGGCAGA-TAGTATCGCATGGCAGATA
73116554 CGATTTGCAA
Statistics
Matches: 69, Mismatches: 17, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
50 4 0.06
51 65 0.94
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (51 bp):
AAACAGTATTGCCTGGCAGATAGTATCGCATGGCAGATAGTATCGTGTGCC
Found at i:73117862 original size:40 final size:40
Alignment explanation
Indices: 73117799--73117880 Score: 112
Period size: 40 Copynumber: 2.0 Consensus size: 40
73117789 TGTAAATGTC
*
73117799 TTTAGGAGTACCGAAGTAAAAACAGGGGCACATATGTGCA
1 TTTAGGAGTACCGAAGTAAAAACAGGAGCACATATGTGCA
* * *
73117839 TTTAGG-GATACCGCAGTACAAACAGGAGTACATATGTGCA
1 TTTAGGAG-TACCGAAGTAAAAACAGGAGCACATATGTGCA
73117879 TT
1 TT
73117881 CAAGCAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.03
40 36 0.97
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.23
Consensus pattern (40 bp):
TTTAGGAGTACCGAAGTAAAAACAGGAGCACATATGTGCA
Found at i:73119136 original size:60 final size:60
Alignment explanation
Indices: 73119023--73119164 Score: 137
Period size: 60 Copynumber: 2.4 Consensus size: 60
73119013 TTACATTCAT
* * * * *
73119023 AATACTGGCAGCTTGTCTATAATACTGGTGGTTAGATCACAATACTGGCAGTTTA-CTTCC
1 AATACTGTCAGCTTGTCTACAATACTAGTGGCTAGATCACAATACTGACAGTTTATC-TCC
* * * * *
73119083 AATACTGTCAGCTTGTTTGCAATACTAGTGGCTAGA-CTACAATATTGATAGTTTATCTGC
1 AATACTGTCAGCTTGTCTACAATACTAGTGGCTAGATC-ACAATACTGACAGTTTATCTCC
*
73119143 AATACTGGT-AGCTTGTCCACAA
1 AATACT-GTCAGCTTGTCTACAA
73119165 ATTGGTGTAT
Statistics
Matches: 66, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
59 1 0.02
60 62 0.94
61 3 0.05
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (60 bp):
AATACTGTCAGCTTGTCTACAATACTAGTGGCTAGATCACAATACTGACAGTTTATCTCC
Found at i:73119685 original size:38 final size:38
Alignment explanation
Indices: 73119609--73119681 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
73119599 CCTTAAATTG
*
73119609 ATATTTAAATTTTTATTCATAAAACTCAGATTTTTTAA
1 ATATTTAAATTTTTATGCATAAAACTCAGATTTTTTAA
73119647 ATATTTAAATTTTTATGCATAAAACTCA-ATTTTTT
1 ATATTTAAATTTTTATGCATAAAACTCAGATTTTTT
73119682 TAAAATAAGC
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
37 7 0.21
38 27 0.79
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.51
Consensus pattern (38 bp):
ATATTTAAATTTTTATGCATAAAACTCAGATTTTTTAA
Found at i:73123811 original size:28 final size:28
Alignment explanation
Indices: 73123750--73123838 Score: 126
Period size: 28 Copynumber: 3.1 Consensus size: 28
73123740 TGAGAATGAC
*
73123750 TATAAATGTGAATTGGGCCTGATGGGCCA
1 TATAAATGTG-ATTGGGCCTAATGGGCCA
*
73123779 TATAAATGTGATTTGGGTC-AATGGGCCA
1 TATAAATGTGA-TTGGGCCTAATGGGCCA
*
73123807 TATAAATGTGATTGGGCCTAGTGGGCCA
1 TATAAATGTGATTGGGCCTAATGGGCCA
73123835 TATA
1 TATA
73123839 CAGGTATGTG
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 6 0.11
28 32 0.59
29 16 0.30
ACGTcount: A:0.28, C:0.12, G:0.29, T:0.30
Consensus pattern (28 bp):
TATAAATGTGATTGGGCCTAATGGGCCA
Found at i:73128741 original size:14 final size:15
Alignment explanation
Indices: 73128722--73128756 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
73128712 CAAAACTAAT
*
73128722 ATTTTTACAA-TTTC
1 ATTTTTACAACATTC
73128736 ATTTTTACAACATTC
1 ATTTTTACAACATTC
73128751 ATTTTT
1 ATTTTT
73128757 CTTTAAAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.29, C:0.14, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTTTTACAACATTC
Found at i:73129089 original size:24 final size:24
Alignment explanation
Indices: 73129046--73129091 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
73129036 AACTCACTAG
*
73129046 ATTTTACAATTTAAGTTTTCATAA
1 ATTTTACAATTTAAGATTTCATAA
73129070 ATTTTACAATTTCAA-ATTTCAT
1 ATTTTACAATTT-AAGATTTCAT
73129092 CCGAGGTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 18 0.90
25 2 0.10
ACGTcount: A:0.37, C:0.11, G:0.02, T:0.50
Consensus pattern (24 bp):
ATTTTACAATTTAAGATTTCATAA
Found at i:73129488 original size:41 final size:41
Alignment explanation
Indices: 73129426--73129510 Score: 152
Period size: 41 Copynumber: 2.1 Consensus size: 41
73129416 TGCACCCCAC
*
73129426 TACATCGGTGCAGTTACAGTTAGGGACAATTGCCCGCTTAG
1 TACACCGGTGCAGTTACAGTTAGGGACAATTGCCCGCTTAG
*
73129467 TACACCGGTGCAGTTACAGTTAGTGACAATTGCCCGCTTAG
1 TACACCGGTGCAGTTACAGTTAGGGACAATTGCCCGCTTAG
73129508 TAC
1 TAC
73129511 TTCATTGGAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.27
Consensus pattern (41 bp):
TACACCGGTGCAGTTACAGTTAGGGACAATTGCCCGCTTAG
Found at i:73134211 original size:16 final size:15
Alignment explanation
Indices: 73134192--73134226 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
73134182 TAATTTAGCC
*
73134192 ATTTTTTTATTTTAA
1 ATTTTGTTATTTTAA
73134207 TATTTTGTTATTTTAA
1 -ATTTTGTTATTTTAA
73134223 ATTT
1 ATTT
73134227 AATTTTTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (15 bp):
ATTTTGTTATTTTAA
Found at i:73136688 original size:43 final size:43
Alignment explanation
Indices: 73136622--73136778 Score: 153
Period size: 43 Copynumber: 3.7 Consensus size: 43
73136612 AACTCGTACA
* *
73136622 ATGCCAATGTCCCAAACATGGTCTTACATGTAATCAAATATTG
1 ATGCCACTGTCCCAGACATGGTCTTACATGTAATCAAATATTG
*
73136665 ATGCCACTGTCCCAGACAAGGTCTTACATG-AAGTCAAATA-TG
1 ATGCCACTGTCCCAGACATGGTCTTACATGTAA-TCAAATATTG
* * * *
73136707 ATGCTGA-TGTCCTAGACATGGTCTTACACGTAAATCTCAA-ATTG
1 ATGC-CACTGTCCCAGACATGGTCTTACATGT-AATC-AAATATTG
**
73136751 ATGCCAAC-GTCCCAGATGTGGTCTTACA
1 ATGCC-ACTGTCCCAGACATGGTCTTACA
73136779 CAAAATCACA
Statistics
Matches: 94, Mismatches: 12, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
42 28 0.30
43 38 0.40
44 28 0.30
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACATGGTCTTACATGTAATCAAATATTG
Found at i:73143899 original size:20 final size:20
Alignment explanation
Indices: 73143871--73143909 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
73143861 CTAAGAACTA
73143871 TGTGATCTGAGCTCATGATT
1 TGTGATCTGAGCTCATGATT
* *
73143891 TGTGGTCTGAGTTCATGAT
1 TGTGATCTGAGCTCATGAT
73143910 ATATATGACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.13, G:0.28, T:0.41
Consensus pattern (20 bp):
TGTGATCTGAGCTCATGATT
Found at i:73166010 original size:15 final size:15
Alignment explanation
Indices: 73165987--73166048 Score: 72
Period size: 15 Copynumber: 4.1 Consensus size: 15
73165977 CATGAAAACT
*
73165987 AAGATAAAGAAGTCC
1 AAGATAAAGAAATCC
*
73166002 AAGACAAAGAAATCC
1 AAGATAAAGAAATCC
*
73166017 TAGATAAAGAAATCC
1 AAGATAAAGAAATCC
*
73166032 AAGAGACAA-AAATCC
1 AAGATA-AAGAAATCC
73166047 AA
1 AA
73166049 TATACAATAT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
15 38 0.95
16 2 0.05
ACGTcount: A:0.58, C:0.16, G:0.15, T:0.11
Consensus pattern (15 bp):
AAGATAAAGAAATCC
Found at i:73180696 original size:25 final size:26
Alignment explanation
Indices: 73180668--73180742 Score: 84
Period size: 26 Copynumber: 2.9 Consensus size: 26
73180658 CTAGAGGCCT
73180668 AGCCTCTTTTAAT-AACTGGGGCAAA
1 AGCCTCTTTTAATAAACTGGGGCAAA
*
73180693 AGCCAT-TTTTGATAAACTGGGGCAAA
1 AGCC-TCTTTTAATAAACTGGGGCAAA
**
73180719 AGCC-CTTTTCGGTAAACTGGGGCA
1 AGCCTCTTTT-AATAAACTGGGGCA
73180743 TAGCCCTTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
25 14 0.32
26 30 0.68
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (26 bp):
AGCCTCTTTTAATAAACTGGGGCAAA
Found at i:73180747 original size:25 final size:26
Alignment explanation
Indices: 73180681--73180752 Score: 101
Period size: 26 Copynumber: 2.8 Consensus size: 26
73180671 CTCTTTTAAT
* *
73180681 AACTGGGGCAAAAGCCATTTTTGATA
1 AACTGGGGCAAAAGCCCTTTTCGATA
*
73180707 AACTGGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAAGCCCTTTTCGATA
*
73180733 AACTGGGGC-ATAGCCCTTTT
1 AACTGGGGCAAAAGCCCTTTT
73180753 GCACTTCCTC
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
25 10 0.24
26 32 0.76
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (26 bp):
AACTGGGGCAAAAGCCCTTTTCGATA
Found at i:73183071 original size:3 final size:3
Alignment explanation
Indices: 73183065--73183089 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
73183055 TTACTACTAT
73183065 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
73183090 TTCATAAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:73193261 original size:29 final size:29
Alignment explanation
Indices: 73193176--73193283 Score: 128
Period size: 29 Copynumber: 3.8 Consensus size: 29
73193166 TATCAGATAC
* *
73193176 TAGGCCC-AATCTCATTCATATGACCCAT
1 TAGGCCCAAATCACATTCATATGACCTAT
* *
73193204 TAGGCCCAAATCATATTCGTATGACCTAT
1 TAGGCCCAAATCACATTCATATGACCTAT
* **
73193233 TAGGCCCAAATCACATTCATACGGTCTAT
1 TAGGCCCAAATCACATTCATATGACCTAT
* *
73193262 TAGCCCCAAATCACAGTCATAT
1 TAGGCCCAAATCACATTCATAT
73193284 TCATGCTTTC
Statistics
Matches: 67, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
28 7 0.10
29 60 0.90
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.28
Consensus pattern (29 bp):
TAGGCCCAAATCACATTCATATGACCTAT
Found at i:73196904 original size:40 final size:40
Alignment explanation
Indices: 73196845--73197151 Score: 316
Period size: 40 Copynumber: 7.5 Consensus size: 40
73196835 TGGATGATAA
* * * *
73196845 CCGGGCTAAGTCCCAAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
73196885 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTGGATGAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC----T--AT-AT
* * * *
73196932 AACCGGGCTAAGACCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 --CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
* * *
73196974 TCGGGCTAAGTGCCGAAGGCATTTGTGCGAGTTACTATAC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
73197014 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
73197054 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* ***
73197094 CCGGGCTATGTCCCGAAGGCATTCAAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
73197134 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
73197152 TACTTGGCTT
Statistics
Matches: 228, Mismatches: 26, Indels: 27
0.81 0.09 0.10
Matches are distributed among these distances:
39 16 0.07
40 173 0.76
42 1 0.00
43 1 0.00
44 2 0.01
45 2 0.01
46 1 0.00
47 1 0.00
49 31 0.14
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:73196982 original size:89 final size:89
Alignment explanation
Indices: 73196831--73197091 Score: 362
Period size: 89 Copynumber: 3.0 Consensus size: 89
73196821 TGTGCATGAA
*
73196831 TATTTGGATGATAACCGGGCTAAGTCCCAAAGGCATTTGCGCTAGTGACTAGTTCCGGGCTAAGT
1 TATTTGGATGATAACCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTTCCGGGCTAAGT
73196896 CCCGAAGGCATTTGTGCGAGTTAC
66 CCCGAAGGCATTTGTGCGAGTTAC
* *
73196920 TATTTGGATGATAACCGGGCTAAGACCCGAAGGCATTTGCGCTAGTGACTAGTTTCGGGCTAAGT
1 TATTTGGATGATAACCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTTCCGGGCTAAGT
*
73196985 GCCGAAGGCATTTGTGCGAGTTAC
66 CCCGAAGGCATTTGTGCGAGTTAC
* * * *
73197009 --------T-ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TATCCGGGCTAAG
1 TATTTGGATGATAACCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-TCCGGGCTAAG
*
73197064 TCCCGAAGGCATTGGTGCGAGTTAC
65 TCCCGAAGGCATTTGTGCGAGTTAC
73197089 TAT
1 TAT
73197092 ATCCGGGCTA
Statistics
Matches: 156, Mismatches: 12, Indels: 14
0.86 0.07 0.08
Matches are distributed among these distances:
79 1 0.01
80 69 0.44
81 1 0.01
89 85 0.54
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (89 bp):
TATTTGGATGATAACCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTTCCGGGCTAAGT
CCCGAAGGCATTTGTGCGAGTTAC
Found at i:73197475 original size:114 final size:114
Alignment explanation
Indices: 73197275--73197503 Score: 440
Period size: 114 Copynumber: 2.0 Consensus size: 114
73197265 ATAGTATTCG
*
73197275 CTCAGTCGATAAATGAGCTACCGGCCTTTGGCTAAGTTGATCTTTTGTGTATGAATATAAGGGTT
1 CTCAGTCGATAAATGAGCTACCAGCCTTTGGCTAAGTTGATCTTTTGTGTATGAATATAAGGGTT
*
73197340 GGTAATGTGAAGTAAGTATGATATTGAGAATTTGTGCATATGAAATTAT
66 GGTAACGTGAAGTAAGTATGATATTGAGAATTTGTGCATATGAAATTAT
73197389 CTCAGTCGATAAATGAGCTACCAGCCTTTGGCTAAGTTGATCTTTTGTGTATGAATATAAGGGTT
1 CTCAGTCGATAAATGAGCTACCAGCCTTTGGCTAAGTTGATCTTTTGTGTATGAATATAAGGGTT
73197454 GGTAACGTGAAGTAAGTATGATATTGAGAATTTGTGCATATGAAATTAT
66 GGTAACGTGAAGTAAGTATGATATTGAGAATTTGTGCATATGAAATTAT
73197503 C
1 C
73197504 CGTTTAGCCA
Statistics
Matches: 113, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
114 113 1.00
ACGTcount: A:0.30, C:0.10, G:0.24, T:0.35
Consensus pattern (114 bp):
CTCAGTCGATAAATGAGCTACCAGCCTTTGGCTAAGTTGATCTTTTGTGTATGAATATAAGGGTT
GGTAACGTGAAGTAAGTATGATATTGAGAATTTGTGCATATGAAATTAT
Found at i:73198326 original size:58 final size:58
Alignment explanation
Indices: 73198247--73198364 Score: 209
Period size: 58 Copynumber: 2.0 Consensus size: 58
73198237 TAGATTTATT
* *
73198247 TTTGAGTCTCGTTTCATTAGAAACAAACGGTATAAGTATTGAAGCCCTGTATAAGGAG
1 TTTGAGTCTAGTTTAATTAGAAACAAACGGTATAAGTATTGAAGCCCTGTATAAGGAG
*
73198305 TTTGAGTCTAGTTTAATTAGAAACAAATGGTATAAGTATTGAAGCCCTGTATAAGGAG
1 TTTGAGTCTAGTTTAATTAGAAACAAACGGTATAAGTATTGAAGCCCTGTATAAGGAG
73198363 TT
1 TT
73198365 ATCTAAGTCG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.34, C:0.11, G:0.22, T:0.33
Consensus pattern (58 bp):
TTTGAGTCTAGTTTAATTAGAAACAAACGGTATAAGTATTGAAGCCCTGTATAAGGAG
Found at i:73209974 original size:47 final size:47
Alignment explanation
Indices: 73209908--73210202 Score: 200
Period size: 47 Copynumber: 6.3 Consensus size: 47
73209898 TTTGTATGCT
* *
73209908 AGTGTAAGA-CATGTTTGGGACAT-GCATTGGCCACATTATGA-GAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CAC-TTATGATGAGCC
* * * *
73209954 AGTGTAAGACCATGTCTGGGACATGGCATCGACA-TTAAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACTTATGA--TGAGCC
* * * * * *
73210002 AGTGCAAGA-CATGTTTGGGACAT-GTATCGGCTAC-GA-GATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACTTATGATGAGCC
* * * * *
73210046 AGTGTAAGACCATGT-TGGGACATGGCATCGGCACGTATAAAGGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACTTAT-GATGAGCC
* * * *
73210093 AGTGTAAGACCATGTCTAGGACATGGCAACGGCACGAATATG-TGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC--TTATGAT--GAGCC
*
73210143 AGTGTAAGACCATGTCTGGGACATGGCAT-TG-ACTTGATGGATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACTT-AT-GATGAGCC
73210190 AGTGTAAGACCAT
1 AGTGTAAGACCAT
73210203 AGTAAGTGAT
Statistics
Matches: 197, Mismatches: 32, Indels: 39
0.74 0.12 0.15
Matches are distributed among these distances:
44 20 0.10
45 18 0.09
46 18 0.09
47 70 0.36
48 37 0.19
49 2 0.01
50 32 0.16
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACTTATGATGAGCC
Found at i:73210107 original size:92 final size:95
Alignment explanation
Indices: 73209948--73210171 Score: 223
Period size: 92 Copynumber: 2.4 Consensus size: 95
73209938 CCACATTATG
73209948 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTAAGACGAGAGCTAGTGCAAGACA
1 AGAG-CAGTGTAAGACCATGTCTGGGACATGGCATCGACATTAAGACGAGAGCTAGTGCAAGACA
* * * *
73210013 TGTTTGGGACAT-GTATCGGCTACG-AGATGT
65 TGTCTAGGACATGGCAACGGC-ACGAAGATGT
* * * *
73210043 -G-TCAGTGTAAGACCATGT-TGGGACATGGCATCGGCACGTATAA-A-G-GTG-TCAGTGTAAG
1 AGAGCAGTGTAAGACCATGTCTGGGACATGGCATC-G-ACAT-TAAGACGAGAGCT-AGTGCAAG
*
73210101 ACCATGTCTAGGACATGGCAACGGCACGAATATGT
62 A-CATGTCTAGGACATGGCAACGGCACGAAGATGT
73210136 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCAT
1 -AGAGC-AGTGTAAGACCATGTCTGGGACATGGCAT
73210172 TGACTTGATG
Statistics
Matches: 107, Mismatches: 10, Indels: 21
0.78 0.07 0.15
Matches are distributed among these distances:
90 1 0.01
91 24 0.22
92 33 0.31
93 15 0.14
94 4 0.04
95 1 0.01
96 1 0.01
97 15 0.14
98 13 0.12
ACGTcount: A:0.29, C:0.18, G:0.31, T:0.22
Consensus pattern (95 bp):
AGAGCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTAAGACGAGAGCTAGTGCAAGACAT
GTCTAGGACATGGCAACGGCACGAAGATGT
Found at i:73210159 original size:50 final size:48
Alignment explanation
Indices: 73210043--73210170 Score: 161
Period size: 50 Copynumber: 2.6 Consensus size: 48
73210033 TACGAGATGT
* * *
73210043 GTCAGTGTAAGACCATGT-TGGGACATGGCATCGGCACGTATAAAGGT
1 GTCAGTGTAAGACCATGTCTGGGACATGGCAACGGCACGAATAAAGGA
* *
73210090 GTCAGTGTAAGACCATGTCTAGGACATGGCAACGGCACGAAT-ATGTGA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCAACGGCACGAATAAAG-GA
*
73210138 GAGCTAGTGTAAGACCATGTCTGGGACATGGCA
1 G-TC-AGTGTAAGACCATGTCTGGGACATGGCA
73210171 TTGACTTGAT
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
47 20 0.29
48 22 0.31
49 1 0.01
50 27 0.39
ACGTcount: A:0.29, C:0.18, G:0.31, T:0.22
Consensus pattern (48 bp):
GTCAGTGTAAGACCATGTCTGGGACATGGCAACGGCACGAATAAAGGA
Found at i:73211082 original size:46 final size:46
Alignment explanation
Indices: 73211032--73211207 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
73211022 TGATTGAGCA
*
73211032 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
73211078 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
73211123 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-C
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
73211170 ACCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
73211208 GCGGGTTACC
Statistics
Matches: 109, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 60 0.55
47 29 0.27
48 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:73211188 original size:93 final size:93
Alignment explanation
Indices: 73211029--73211200 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
73211019 GGATGATTGA
**
73211029 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATCACCGAACTCGTTGAGT
73211094 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
73211122 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-CACCTGAGCTCGTTGAG
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATCACC-GAACTCGTTGAG
73211186 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
73211201 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATCACCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:73213627 original size:35 final size:36
Alignment explanation
Indices: 73213578--73213656 Score: 142
Period size: 35 Copynumber: 2.2 Consensus size: 36
73213568 TAAGAAGCAA
73213578 AATGTAGGTCCTAAATCTCAGAATACTTCTGCAGCC
1 AATGTAGGTCCTAAATCTCAGAATACTTCTGCAGCC
*
73213614 AGTGTAGG-CCTAAATCTCAGAATACTTCTGCAGCC
1 AATGTAGGTCCTAAATCTCAGAATACTTCTGCAGCC
73213649 AATGTAGG
1 AATGTAGG
73213657 GAACTCGAGA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
35 34 0.83
36 7 0.17
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (36 bp):
AATGTAGGTCCTAAATCTCAGAATACTTCTGCAGCC
Found at i:73220827 original size:47 final size:47
Alignment explanation
Indices: 73220769--73221069 Score: 476
Period size: 47 Copynumber: 6.4 Consensus size: 47
73220759 CAGCCAAGAC
73220769 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
73220816 AGTGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
73220863 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
73220910 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
73220957 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* * * * * * * *
73221004 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
73221051 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
73221070 TCTCGAAGGG
Statistics
Matches: 236, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 236 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
Found at i:73221257 original size:37 final size:37
Alignment explanation
Indices: 73221194--73221267 Score: 105
Period size: 37 Copynumber: 2.0 Consensus size: 37
73221184 TCTAAAGGCC
* *
73221194 CGATGACTACGTGTGGGAATTTTGTCCGGGTAAGACT
1 CGATAACTACGTGTGGGAATTATGTCCGGGTAAGACT
*
73221231 CGATAACTTCGTGT-GGAGATTATGTCCGGGTAAGACT
1 CGATAACTACGTGTGGGA-ATTATGTCCGGGTAAGACT
73221268 TCGTAATAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
36 3 0.09
37 30 0.91
ACGTcount: A:0.23, C:0.16, G:0.31, T:0.30
Consensus pattern (37 bp):
CGATAACTACGTGTGGGAATTATGTCCGGGTAAGACT
Found at i:73222691 original size:6 final size:6
Alignment explanation
Indices: 73222660--73222840 Score: 122
Period size: 6 Copynumber: 29.3 Consensus size: 6
73222650 TTGCATTCAC
* * *
73222660 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TTACCTC
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG
* *
73222710 ATTCTG ATTCTG GTTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
* * * *
73222759 ATTCTG -TTACCTA ATTCTA ATTCTG ATTCTG ATTTTG ATTCTG -TCACCTG
1 ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG
* *
73222809 ATTCTA ATTTTG ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
73222841 AATGTTTCTT
Statistics
Matches: 138, Mismatches: 20, Indels: 34
0.72 0.10 0.18
Matches are distributed among these distances:
5 10 0.07
6 107 0.78
7 14 0.10
8 7 0.05
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:73222691 original size:25 final size:25
Alignment explanation
Indices: 73222663--73222727 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 25
73222653 CATTCACATT
* *
73222663 CTGATTTTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTTACCTCATA
*
73222688 CTGATTCTGATTCTGTTACCTCATT
1 CTGATTCTGATTCTGTTACCTCATA
*
73222713 CTGATTCTGGTTCTG
1 CTGATTCTGATTCTG
73222728 ATTCTGATTC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.15, C:0.20, G:0.17, T:0.48
Consensus pattern (25 bp):
CTGATTCTGATTCTGTTACCTCATA
Found at i:73222692 original size:19 final size:19
Alignment explanation
Indices: 73222688--73222813 Score: 107
Period size: 19 Copynumber: 6.4 Consensus size: 19
73222678 TTACCTGATA
73222688 CTGATTCTGATTCTGTTAC
1 CTGATTCTGATTCTGTTAC
*
73222707 CTCATTCTGATTCTGGTT--
1 CTGATTCTGATTCT-GTTAC
73222725 CTGATTCTGATTCTGTTACC
1 CTGATTCTGATTCTGTTA-C
73222745 TGATACTGATTCTGATTCTGTTAC
1 -----CTGATTCTGATTCTGTTAC
* *
73222769 CTAATTCTAATTCTGATT--
1 CTGATTCTGATTCTG-TTAC
* *
73222787 CTGATTTTGATTCTGTCAC
1 CTGATTCTGATTCTGTTAC
73222806 CTGATTCT
1 CTGATTCT
73222814 AATTTTGATT
Statistics
Matches: 86, Mismatches: 9, Indels: 24
0.72 0.08 0.20
Matches are distributed among these distances:
17 4 0.05
18 25 0.29
19 33 0.38
20 5 0.06
24 1 0.01
25 18 0.21
ACGTcount: A:0.17, C:0.21, G:0.14, T:0.48
Consensus pattern (19 bp):
CTGATTCTGATTCTGTTAC
Found at i:73222729 original size:37 final size:37
Alignment explanation
Indices: 73222682--73222764 Score: 130
Period size: 37 Copynumber: 2.2 Consensus size: 37
73222672 ATTCTGTTAC
* *
73222682 CTGATACTGATTCTGATTCTGTTACCTCATTCTGATT
1 CTGATTCTGATTCTGATTCTGTTACCTCATACTGATT
* *
73222719 CTGGTTCTGATTCTGATTCTGTTACCTGATACTGATT
1 CTGATTCTGATTCTGATTCTGTTACCTCATACTGATT
73222756 CTGATTCTG
1 CTGATTCTG
73222765 TTACCTAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTGTTACCTCATACTGATT
Found at i:73222755 original size:25 final size:25
Alignment explanation
Indices: 73222725--73222789 Score: 103
Period size: 25 Copynumber: 2.6 Consensus size: 25
73222715 GATTCTGGTT
*
73222725 CTGATTCTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTTACCTAATA
*
73222750 CTGATTCTGATTCTGTTACCTAATT
1 CTGATTCTGATTCTGTTACCTAATA
*
73222775 CTAATTCTGATTCTG
1 CTGATTCTGATTCTG
73222790 ATTTTGATTC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.46
Consensus pattern (25 bp):
CTGATTCTGATTCTGTTACCTAATA
Found at i:73222758 original size:62 final size:62
Alignment explanation
Indices: 73222660--73222826 Score: 262
Period size: 62 Copynumber: 2.7 Consensus size: 62
73222650 TTGCATTCAC
* *
73222660 ATTCTGATTTTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTCATTCTGATTCTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTAATTCTG
* *
73222722 GTTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTAATTCTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTAATTCTG
* * * *
73222784 ATTCTGATTTTGATTCTGTCACCTGATTCTAATTTTGATTCTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTGATTCTGATTCTG
73222827 ATTCTAGTTC
Statistics
Matches: 95, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 95 1.00
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.49
Consensus pattern (62 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTAATTCTG
Found at i:73222838 original size:37 final size:37
Alignment explanation
Indices: 73222744--73222831 Score: 131
Period size: 37 Copynumber: 2.4 Consensus size: 37
73222734 ATTCTGTTAC
* *
73222744 CTGATACTGATTCTGATTCTGTTACCTAATTCTAATT
1 CTGATTCTGATTCTGATTCTGTCACCTAATTCTAATT
* *
73222781 CTGATTCTGATTTTGATTCTGTCACCTGATTCTAATT
1 CTGATTCTGATTCTGATTCTGTCACCTAATTCTAATT
*
73222818 TTGATTCTGATTCT
1 CTGATTCTGATTCT
73222832 AGTTCTGATA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.20, C:0.18, G:0.12, T:0.49
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTGTCACCTAATTCTAATT
Found at i:73224837 original size:27 final size:27
Alignment explanation
Indices: 73224801--73224977 Score: 160
Period size: 27 Copynumber: 6.6 Consensus size: 27
73224791 CAAAACCAAA
* **
73224801 ACCAAAATACCCTTGGTTTACAAAATT
1 ACCAAAATACCCCTGGTTTGTAAAATT
73224828 ACCAAAATACCCCTGGTTTGTAAAATT
1 ACCAAAATACCCCTGGTTTGTAAAATT
* * *
73224855 ATCAAAATATCCCTAGTTTGTAAAATT
1 ACCAAAATACCCCTGGTTTGTAAAATT
* *
73224882 ACCAAAATACCCCTGATTTGTGAAATT
1 ACCAAAATACCCCTGGTTTGTAAAATT
* ***
73224909 ACAAAAATA-CCCTCGACCTGTAAAATT
1 ACCAAAATACCCCT-GGTTTGTAAAATT
*** **
73224936 ATTGAAATA-CCCTCGACTTGTAAAATT
1 ACCAAAATACCCCT-GGTTTGTAAAATT
*
73224963 ACCAAAGTACCCCTG
1 ACCAAAATACCCCTG
73224978 ATTTATAGAA
Statistics
Matches: 125, Mismatches: 23, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
26 4 0.03
27 117 0.94
28 4 0.03
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.29
Consensus pattern (27 bp):
ACCAAAATACCCCTGGTTTGTAAAATT
Found at i:73225007 original size:27 final size:27
Alignment explanation
Indices: 73224977--73225081 Score: 113
Period size: 27 Copynumber: 3.9 Consensus size: 27
73224967 AAGTACCCCT
* *
73224977 GATTTATAGAATTA-TCGTTTTACCATC
1 GATTTACAGAATTACT-ATTTTACCATC
* *
73225004 GATTGACAGAATTACTATTTTACCCTC
1 GATTTACAGAATTACTATTTTACCATC
* * *
73225031 GATTTACAAAATTACTACTTTACCCTC
1 GATTTACAGAATTACTATTTTACCATC
* *
73225058 GATTTACAAAATTACCATTTTACC
1 GATTTACAGAATTACTATTTTACC
73225082 CCTAGGGTGT
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
27 67 0.99
28 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.39
Consensus pattern (27 bp):
GATTTACAGAATTACTATTTTACCATC
Found at i:73225028 original size:54 final size:54
Alignment explanation
Indices: 73224970--73225084 Score: 128
Period size: 54 Copynumber: 2.1 Consensus size: 54
73224960 ATTACCAAAG
* * * *
73224970 TACCCCT-GATTTATAGAATTATCGT-TTTACCATCGATTGACAGAATTACTATTT
1 TACCCCTCGATTTACAAAATTA-C-TATTTACCATCGATTGACAAAATTACCATTT
* *
73225024 TA-CCCTCGATTTACAAAATTACTACTTTACCCTCGATTTACAAAATTACCATTT
1 TACCCCTCGATTTACAAAATTACTA-TTTACCATCGATTGACAAAATTACCATTT
73225078 TACCCCT
1 TACCCCT
73225085 AGGGTGTTAA
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
52 1 0.02
53 5 0.10
54 41 0.80
55 4 0.08
ACGTcount: A:0.30, C:0.24, G:0.07, T:0.38
Consensus pattern (54 bp):
TACCCCTCGATTTACAAAATTACTATTTACCATCGATTGACAAAATTACCATTT
Found at i:73225082 original size:27 final size:27
Alignment explanation
Indices: 73224994--73225082 Score: 133
Period size: 27 Copynumber: 3.3 Consensus size: 27
73224984 AGAATTATCG
* * *
73224994 TTTTACCATCGATTGACAGAATTACTA
1 TTTTACCCTCGATTTACAAAATTACTA
73225021 TTTTACCCTCGATTTACAAAATTACTA
1 TTTTACCCTCGATTTACAAAATTACTA
* *
73225048 CTTTACCCTCGATTTACAAAATTACCA
1 TTTTACCCTCGATTTACAAAATTACTA
73225075 TTTTACCC
1 TTTTACCC
73225083 CTAGGGTGTT
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.31, C:0.25, G:0.06, T:0.38
Consensus pattern (27 bp):
TTTTACCCTCGATTTACAAAATTACTA
Found at i:73225362 original size:27 final size:26
Alignment explanation
Indices: 73225318--73225369 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
73225308 CTCGCTGCAA
*
73225318 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
73225345 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
73225370 GCAACCTGGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:73225407 original size:67 final size:68
Alignment explanation
Indices: 73225299--73225438 Score: 183
Period size: 69 Copynumber: 2.1 Consensus size: 68
73225289 GAGGAAGCGT
* * * * *
73225299 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCC-ACATATATCTGTTCTGGTGACTTCGTCACA
1 TCTGGCAACCTCGCTGCAATCTAGTGGCCTCGCCAACATATATCTGTTCTGGTGACCTAGCCACA
73225363 ATA
66 ATA
* * * *
73225366 TCTGGCAACCTGGCTGCAATCTAGTGGCTTCGCCATATATATATCTGTTCTGGTGGCCTAGCCAC
1 TCTGGCAACCTCGCTGCAATCTAGTGGCCTCGCCA-ACATATATCTGTTCTGGTGACCTAGCCAC
73225431 AATA
65 AATA
73225435 TCTG
1 TCTG
73225439 TATTTGGTGA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
67 30 0.48
69 32 0.52
ACGTcount: A:0.19, C:0.28, G:0.22, T:0.31
Consensus pattern (68 bp):
TCTGGCAACCTCGCTGCAATCTAGTGGCCTCGCCAACATATATCTGTTCTGGTGACCTAGCCACA
ATA
Found at i:73225626 original size:6 final size:6
Alignment explanation
Indices: 73225584--73225739 Score: 99
Period size: 6 Copynumber: 25.3 Consensus size: 6
73225574 TTTCATTCAC
* * * * *
73225584 ATTCTG ATTTTG ATTATG -TTACCTG ATACTA ATTCTG ATTCTG -TTACCTC
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG
*
73225634 ATTCTG ATTCT- AGTTCTG ATTCTG ATTCT- ATTACCTA ATTCTG ATTCTG
1 ATTCTG ATTCTG A-TTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
* * *
73225683 ATTCTG ATTTTG ATTCT- ATCACCTG ATTCTG ATTTTG ATTCTG ATTCT-
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
73225731 AGTTCTG AT
1 A-TTCTG AT
73225740 AATGTTTCTT
Statistics
Matches: 118, Mismatches: 16, Indels: 32
0.71 0.10 0.19
Matches are distributed among these distances:
5 11 0.09
6 89 0.75
7 10 0.08
8 8 0.07
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:73225639 original size:19 final size:19
Alignment explanation
Indices: 73225612--73225682 Score: 92
Period size: 19 Copynumber: 3.8 Consensus size: 19
73225602 TTACCTGATA
73225612 CTAATTCTGATTCTGTTAC
1 CTAATTCTGATTCTGTTAC
*
73225631 CTCATTCTGATTCTAGTT--
1 CTAATTCTGATTCT-GTTAC
* *
73225649 CTGATTCTGATTCTATTAC
1 CTAATTCTGATTCTGTTAC
73225668 CTAATTCTGATTCTG
1 CTAATTCTGATTCTG
73225683 ATTCTGATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
17 2 0.05
18 13 0.30
19 26 0.59
20 3 0.07
ACGTcount: A:0.20, C:0.21, G:0.11, T:0.48
Consensus pattern (19 bp):
CTAATTCTGATTCTGTTAC
Found at i:73225643 original size:25 final size:25
Alignment explanation
Indices: 73225584--73225725 Score: 107
Period size: 25 Copynumber: 5.7 Consensus size: 25
73225574 TTTCATTCAC
* *
73225584 ATTCTGATTTTGATTATGTTACCTG
1 ATTCTGATTCTGATTCTGTTACCTG
* * *
73225609 ATACTAATTCTGATTCTGTTACCTC
1 ATTCTGATTCTGATTCTGTTACCTG
73225634 ATTCTGATTCT-AGTTCTGATT--CTG
1 ATTCTGATTCTGA-TTCTG-TTACCTG
*
73225658 ATTCT-ATTACCTAATTCTGATT--CTG
1 ATTCTGATT--CTGATTCTG-TTACCTG
* * *
73225683 ATTCTGATTTTGATTCTATCACCTG
1 ATTCTGATTCTGATTCTGTTACCTG
*
73225708 ATTCTGATTTTGATTCTG
1 ATTCTGATTCTGATTCTG
73225726 ATTCTAGTTC
Statistics
Matches: 96, Mismatches: 13, Indels: 16
0.77 0.10 0.13
Matches are distributed among these distances:
23 4 0.04
24 14 0.15
25 72 0.75
26 6 0.06
ACGTcount: A:0.20, C:0.18, G:0.13, T:0.49
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTTACCTG
Found at i:73225656 original size:37 final size:37
Alignment explanation
Indices: 73225606--73225730 Score: 162
Period size: 37 Copynumber: 3.4 Consensus size: 37
73225596 ATTATGTTAC
* * * *
73225606 CTGATACTAATTCTGATTCTGTTACCTCATTCTGATT
1 CTGATTCTGATTCTGATTCTATTACCTAATTCTGATT
73225643 CT-AGTTCTGATTCTGATTCTATTACCTAATTCTGATT
1 CTGA-TTCTGATTCTGATTCTATTACCTAATTCTGATT
* * *
73225680 CTGATTCTGATTTTGATTCTATCACCTGATTCTGATT
1 CTGATTCTGATTCTGATTCTATTACCTAATTCTGATT
*
73225717 TTGATTCTGATTCT
1 CTGATTCTGATTCT
73225731 AGTTCTGATA
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
36 1 0.01
37 75 0.97
38 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.12, T:0.49
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTATTACCTAATTCTGATT
Found at i:73230565 original size:21 final size:21
Alignment explanation
Indices: 73230539--73230587 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
73230529 TACACGACCT
73230539 GACCACATGGGCGTGTCCTTA
1 GACCACATGGGCGTGTCCTTA
73230560 GACCACATGGGCGTGTCCTTA
1 GACCACATGGGCGTGTCCTTA
73230581 GACCACA
1 GACCACA
73230588 CTAGCGTGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.22, C:0.31, G:0.27, T:0.20
Consensus pattern (21 bp):
GACCACATGGGCGTGTCCTTA
Found at i:73230594 original size:21 final size:21
Alignment explanation
Indices: 73230539--73230596 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
73230529 TACACGACCT
*
73230539 GACCACATGGGCGTGTCCTTA
1 GACCACATGAGCGTGTCCTTA
*
73230560 GACCACATGGGCGTGTCCTTA
1 GACCACATGAGCGTGTCCTTA
73230581 GACCACACT-AGCGTGT
1 GACCACA-TGAGCGTGT
73230597 GAGCCCTACA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
21 34 0.97
22 1 0.03
ACGTcount: A:0.21, C:0.29, G:0.28, T:0.22
Consensus pattern (21 bp):
GACCACATGAGCGTGTCCTTA
Found at i:73236692 original size:13 final size:14
Alignment explanation
Indices: 73236674--73236707 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
73236664 CCCAGTCTTG
73236674 CACCGCCACTG-GC
1 CACCGCCACTGTGC
*
73236687 CACCGCCTCTGTGC
1 CACCGCCACTGTGC
73236701 CACCGCC
1 CACCGCC
73236708 CTTTTGTACC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.12, C:0.56, G:0.21, T:0.12
Consensus pattern (14 bp):
CACCGCCACTGTGC
Found at i:73238718 original size:48 final size:48
Alignment explanation
Indices: 73238630--73238752 Score: 140
Period size: 48 Copynumber: 2.6 Consensus size: 48
73238620 TGAGATCTCG
* * * *
73238630 TGTAAAACCATGTATGGGACATGGAATCAGCATTGATATGTG-TGTCA
1 TGTAAGACCATGTCTGGGAAATGGCATCAGCATTGATATGTGATGTCA
* * * * *
73238677 TTGTAAGACCATATCTGGGAAATGGCATCGGCTTTGGTATGTGATTTCA
1 -TGTAAGACCATGTCTGGGAAATGGCATCAGCATTGATATGTGATGTCA
*
73238726 TGTAAGACCATGTCTGGGATATGGCAT
1 TGTAAGACCATGTCTGGGAAATGGCAT
73238753 TGATATGAGA
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
48 59 0.94
49 4 0.06
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.32
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGAAATGGCATCAGCATTGATATGTGATGTCA
Found at i:73238778 original size:42 final size:42
Alignment explanation
Indices: 73238714--73238837 Score: 158
Period size: 42 Copynumber: 3.0 Consensus size: 42
73238704 TCGGCTTTGG
* * * **
73238714 TATGTGATTTCATGTAAGACCATGTCTGGGATATGGCATTGA
1 TATGAGATTTCGTGTAAGACCATGTCTGGGACATGGCATCAA
* *
73238756 TATGAGATTTCGTGTAAGACCATGTCTGAGACATGACATCAA
1 TATGAGATTTCGTGTAAGACCATGTCTGGGACATGGCATCAA
* * *
73238798 TATGAGGTCTCGTGAAAGACCATGTCTGGGACATGGCATC
1 TATGAGATTTCGTGTAAGACCATGTCTGGGACATGGCATC
73238838 GGCACCGACA
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (42 bp):
TATGAGATTTCGTGTAAGACCATGTCTGGGACATGGCATCAA
Found at i:73242471 original size:40 final size:41
Alignment explanation
Indices: 73242382--73242531 Score: 203
Period size: 41 Copynumber: 3.7 Consensus size: 41
73242372 CGCTGACTCA
* * *
73242382 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTGCCCC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
* * * * * *
73242423 GAAGGCCCTTCGAAACTAGGTTC-GATTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
73242463 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
*
73242504 AAAAGCCCTTCGAGAGCAAGCTCGGATT
1 AAAAGCCCTTCGAGACCAAGCTCGGATT
73242532 TAAACCCCGA
Statistics
Matches: 92, Mismatches: 16, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
40 31 0.34
41 61 0.66
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.21
Consensus pattern (41 bp):
AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
Found at i:73250544 original size:41 final size:40
Alignment explanation
Indices: 73250491--73250595 Score: 111
Period size: 40 Copynumber: 2.6 Consensus size: 40
73250481 CGCTGACTCA
* *
73250491 AAAAGCCCTTCGAGACCAAGCTCAGATTATGACATTGGCCC
1 AAAAGCCCTTCGAGACCAAGCTC-GATTATGACACTGGACC
* * * * * * * *
73250532 GAAGGCCCTTCGAAACTAGGTTCGGTTATGACACTGGATC
1 AAAAGCCCTTCGAGACCAAGCTCGATTATGACACTGGACC
73250572 AAAAGCCCTTCGAGACCAAGCTCG
1 AAAAGCCCTTCGAGACCAAGCTCG
73250596 GATTTAAACC
Statistics
Matches: 48, Mismatches: 16, Indels: 1
0.74 0.25 0.02
Matches are distributed among these distances:
40 31 0.65
41 17 0.35
ACGTcount: A:0.30, C:0.28, G:0.23, T:0.20
Consensus pattern (40 bp):
AAAAGCCCTTCGAGACCAAGCTCGATTATGACACTGGACC
Found at i:73252947 original size:89 final size:89
Alignment explanation
Indices: 73252823--73253330 Score: 402
Period size: 89 Copynumber: 5.7 Consensus size: 89
73252813 GTCATTGTGG
* **
73252823 TAAGTCTTATCTCCCCGAAGTTGCAGTGGAGTAGATCGAAGATAGCAAATCTTATCTCTTTGAAG
1 TAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGATCGAAGATAGCAAATCTTATCTCCCTGAAG
73252888 TTGCAGTAGAGTAGATTAAAGCTA
66 TTGCAGTAGAGTAGATTAAAGCTA
* * * * * * * * *
73252912 TAAGTTTTACCTCCCTGAAGTTTCAATGGAGTAGATTGAAGCTA-TAGATCTTATCTCCCTAAAG
1 TAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGATCGAAGATAGCAAATCTTATCTCCCTGAAG
* ** *
73252976 TTGCAGTGGAGTAGATCGAAGATA
66 TTGCAGTAGAGTAGATTAAAGCTA
* * * * * ** * * * * * * *
73253000 CCAAATCTTACCTCTCTGAAGTTGCAGTAGAGTAGATTAAAGCTA-TAATTTTTACCCCCCTAAA
1 -TAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGATCGAAGATAGCAAATCTTATCTCCCTGAA
* * *
73253064 GTTGTAGTGGAGTAGATTGAA-CT-
65 GTTGCAGTAGAGTAGATTAAAGCTA
* * * * * *
73253087 TATAGATCTTATCTCCCTAAAGTTGAAGTGGAGTAAATCGAAGATAGCAAATATCATCTCTCTGA
1 TA-AG-TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATCGAAGATAGCAAATCTTATCTCCCTGA
* * *
73253152 AGTTGCAGTAGAGCATATTGAAA-TTA
64 AGTTGCAGTAGAGTAGATT-AAAGCTA
* ** * *
73253178 T-AGATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTAAAGATAGTAAATCTTATCTCTCTG-A
1 TAAG-TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATCGAAGATAGCAAATCTTATCTCCCTGAA
* *
73253241 GTTTGCAATAGAGCAGATTAAAGCTA
65 G-TTGCAGTAGAGTAGATTAAAGCTA
* * * * * *
73253267 TAAGTCTTATCTCCCTGAAGTTACAGTAGAGCAGA-CTGAAGATAACAAATCTCATCTCCTTGAA
1 TAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGATC-GAAGATAGCAAATCTTATCTCCCTGAA
73253331 ATTGTAGCAT
Statistics
Matches: 328, Mismatches: 80, Indels: 21
0.76 0.19 0.05
Matches are distributed among these distances:
86 1 0.00
87 1 0.00
88 72 0.22
89 247 0.75
90 6 0.02
91 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (89 bp):
TAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGATCGAAGATAGCAAATCTTATCTCCCTGAAG
TTGCAGTAGAGTAGATTAAAGCTA
Found at i:73253199 original size:133 final size:133
Alignment explanation
Indices: 73252827--73253235 Score: 538
Period size: 133 Copynumber: 3.1 Consensus size: 133
73252817 TTGTGGTAAG
** *
73252827 TCTTATCTCCCCGAAGTTGCAGTGGAGTAGATCGAAGATAGCAAATCTTATCTCTTTGAAGTTGC
1 TCTTATCTCCCTAAAGTTGCAGTGGAGTAGATCGAAGATAGCAAATCTTATCTCTCTGAAGTTGC
*
73252892 AGTAGAGTAGATTAAAGCTATAAGTTTTACCTCCCTGAAGTT-TCAATGGAGTAGATTGAAGCTA
66 AGTAGAGTAGATTAAAGCTATAAGTTTTACCTCCCTGAAGTTGT-AGTGGAGTAGATTGAAGCTA
73252956 TAGA
130 TAGA
* *
73252960 TCTTATCTCCCTAAAGTTGCAGTGGAGTAGATCGAAGATACCAAATCTTACCTCTCTGAAGTTGC
1 TCTTATCTCCCTAAAGTTGCAGTGGAGTAGATCGAAGATAGCAAATCTTATCTCTCTGAAGTTGC
* * *
73253025 AGTAGAGTAGATTAAAGCTATAATTTTTACCCCCCTAAAGTTGTAGTGGAGTAGATTGAA-CTTA
66 AGTAGAGTAGATTAAAGCTATAAGTTTTACCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGC-TA
73253089 TAGA
130 TAGA
* * * *
73253093 TCTTATCTCCCTAAAGTTGAAGTGGAGTAAATCGAAGATAGCAAATATCATCTCTCTGAAGTTGC
1 TCTTATCTCCCTAAAGTTGCAGTGGAGTAGATCGAAGATAGCAAATCTTATCTCTCTGAAGTTGC
* * * * * * * * *
73253158 AGTAGAGCATATTGAAA-TTAT-AGATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTAAAGAT
66 AGTAGAGTAGATT-AAAGCTATAAG-TTTTACCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGCT
*
73253221 AGTAAA
129 A-TAGA
73253227 TCTTATCTC
1 TCTTATCTC
73253236 TCTGAGTTTG
Statistics
Matches: 242, Mismatches: 28, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
132 2 0.01
133 224 0.93
134 16 0.07
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (133 bp):
TCTTATCTCCCTAAAGTTGCAGTGGAGTAGATCGAAGATAGCAAATCTTATCTCTCTGAAGTTGC
AGTAGAGTAGATTAAAGCTATAAGTTTTACCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGCTAT
AGA
Found at i:73253301 original size:44 final size:44
Alignment explanation
Indices: 73252823--73253293 Score: 333
Period size: 44 Copynumber: 10.6 Consensus size: 44
73252813 GTCATTGTGG
* ** *
73252823 TAAGTCTTATCTCCCCGAAGTTGCAGTGGAGTAGATCGAAGATA
1 TAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTA
* * ** *
73252867 GCAAATCTTATCTCTTTGAAGTTGCAGTAGAGTAGATTAAAGCTA
1 -TAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTA
* * * * *
73252912 TAAGTTTTACCTCCCTGAAGTTTCAATGGAGTAGATTGAAGCTA
1 TAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTA
* ** *
73252956 T-AGATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATCGAAGATA
1 TAAG-TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTA
* * * * *
73253000 CCAAATCTTACCTCTCTGAAGTTGCAGTAGAGTAGATTAAAGCTA
1 -TAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTA
* * * * * * *
73253045 TAATTTTTACCCCCCTAAAGTTGTAGTGGAGTAGATTGAA-CT-
1 TAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTA
* * * ** *
73253087 TATAGATCTTATCTCCCTAAAGTTGAAGTGGAGTAAATCGAAGATA
1 TA-AG-TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTA
* * * * * * * * *
73253133 GCAAATATCATCTCTCTGAAGTTGCAGTAGAGCATATTGAAA-TTA
1 -TAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGATT-AAAGCTA
* *
73253178 T-AGATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTAAAGATA
1 TAAG-TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTA
* * * * *
73253222 GTAAATCTTATCTCTCTG-AGTTTGCAATAGAGCAGATTAAAGCTA
1 -TAAGTCTTATCTCCCTGAAG-TTGCAGTGGAGTAGATTAAAGCTA
*
73253267 TAAGTCTTATCTCCCTGAAGTTACAGT
1 TAAGTCTTATCTCCCTGAAGTTGCAGT
73253294 AGAGCAGACT
Statistics
Matches: 325, Mismatches: 86, Indels: 31
0.74 0.19 0.07
Matches are distributed among these distances:
42 2 0.01
43 9 0.03
44 179 0.55
45 129 0.40
46 5 0.02
47 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (44 bp):
TAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTA
Found at i:73253397 original size:52 final size:52
Alignment explanation
Indices: 73253341--73253512 Score: 290
Period size: 52 Copynumber: 3.3 Consensus size: 52
73253331 ATTGTAGCAT
* *
73253341 AGCAGATTTAAGCTACAACATAGCAAATCTTATCTCCCTAAAGTTGCAGTGG
1 AGCAGATTGAAGCTACAAGATAGCAAATCTTATCTCCCTAAAGTTGCAGTGG
* * * *
73253393 AGCAGATTGAAGGTACAAGATAGCAAATCTTATTTCCCTAAAGTTGTAGCGG
1 AGCAGATTGAAGCTACAAGATAGCAAATCTTATCTCCCTAAAGTTGCAGTGG
73253445 AGCAGATTGAAGCTACAAGATAGCAAATCTTATCTCCCTAAAGTTGCAGTGG
1 AGCAGATTGAAGCTACAAGATAGCAAATCTTATCTCCCTAAAGTTGCAGTGG
73253497 AGCAGATTGAAGCTAC
1 AGCAGATTGAAGCTAC
73253513 TAATCTTATC
Statistics
Matches: 110, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 110 1.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.26
Consensus pattern (52 bp):
AGCAGATTGAAGCTACAAGATAGCAAATCTTATCTCCCTAAAGTTGCAGTGG
Found at i:73253458 original size:104 final size:104
Alignment explanation
Indices: 73253305--73253508 Score: 320
Period size: 104 Copynumber: 2.0 Consensus size: 104
73253295 GAGCAGACTG
* * *
73253305 AAGATAACAAATCTCATCTCCTTGAAATTGTAGCATAGCAGATTTAAGCTACAACATAGCAAATC
1 AAGATAACAAATCTCATCTCCCTGAAATTGTAGCAGAGCAGATTGAAGCTACAACATAGCAAATC
73253370 TTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGGTAC
66 TTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGGTAC
* * * * *
73253409 AAGATAGCAAATCTTATTTCCCT-AAAGTTGTAGCGGAGCAGATTGAAGCTACAAGATAGCAAAT
1 AAGATAACAAATCTCATCTCCCTGAAA-TTGTAGCAGAGCAGATTGAAGCTACAACATAGCAAAT
73253473 CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAG
65 CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAG
73253509 CTACTAATCT
Statistics
Matches: 91, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
103 3 0.03
104 88 0.97
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (104 bp):
AAGATAACAAATCTCATCTCCCTGAAATTGTAGCAGAGCAGATTGAAGCTACAACATAGCAAATC
TTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGGTAC
Found at i:73253536 original size:44 final size:45
Alignment explanation
Indices: 73253470--73253562 Score: 134
Period size: 44 Copynumber: 2.1 Consensus size: 45
73253460 CAAGATAGCA
* * * *
73253470 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGC-TACT
1 AATCTTATCTCCCTAAAATTGCAATGGAGCAGATTAAAGCGAACT
*
73253514 AATCTTATCTCCTTAAAATTGCAATGGAGCAGATTAAAGCGAACT
1 AATCTTATCTCCCTAAAATTGCAATGGAGCAGATTAAAGCGAACT
73253559 AATC
1 AATC
73253563 CAATGTAACA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 36 0.84
45 7 0.16
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.29
Consensus pattern (45 bp):
AATCTTATCTCCCTAAAATTGCAATGGAGCAGATTAAAGCGAACT
Found at i:73257639 original size:20 final size:21
Alignment explanation
Indices: 73257612--73257666 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
73257602 TTGTATAACG
73257612 TTAT-TTTATTTTCATTTATT
1 TTATATTTATTTTCATTTATT
*
73257632 TT-TATTTATTTATTCATTTGTT
1 TTATATTTA-TT-TTCATTTATT
73257654 TTACTATTTATTT
1 TTA-TATTTATTT
73257667 ACCTTTGTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
19 1 0.03
20 6 0.21
21 2 0.07
22 12 0.41
23 2 0.07
24 6 0.21
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.73
Consensus pattern (21 bp):
TTATATTTATTTTCATTTATT
Found at i:73257645 original size:24 final size:23
Alignment explanation
Indices: 73257622--73257667 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
73257612 TTATTTTATT
73257622 TTCATTTATTTT-TATTTATTTA
1 TTCATTTATTTTATATTTATTTA
*
73257644 TTCATTTGTTTTACTATTTATTTA
1 TTCATTTATTTTA-TATTTATTTA
73257668 CCTTTGTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 11 0.52
24 10 0.48
ACGTcount: A:0.22, C:0.07, G:0.02, T:0.70
Consensus pattern (23 bp):
TTCATTTATTTTATATTTATTTA
Found at i:73257886 original size:12 final size:13
Alignment explanation
Indices: 73257858--73257886 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
73257848 AAAATTACTA
73257858 TTATCTATTTGTT
1 TTATCTATTTGTT
73257871 TTATCTATTT-TT
1 TTATCTATTTGTT
73257883 TTAT
1 TTAT
73257887 TGACTTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.17, C:0.07, G:0.03, T:0.72
Consensus pattern (13 bp):
TTATCTATTTGTT
Found at i:73263287 original size:182 final size:182
Alignment explanation
Indices: 73262980--73263342 Score: 708
Period size: 182 Copynumber: 2.0 Consensus size: 182
73262970 TTAACGTGGA
*
73262980 AAAACCCCTCAAAAGAGGATAAAAAACCTCGGGCAAAGATAAATTTACTATAATGGCAAAAGAAT
1 AAAACCCCTCAAAAGAGGATAAAAAACCACGGGCAAAGATAAATTTACTATAATGGCAAAAGAAT
*
73263045 GAAGAGTACAAAAGATGGAGATAAAAACTAAACCCCGAAAACCCGAAAATAAAGAACCCTCAAAC
66 GAAGAGTACAAAAGATGGAGATAAAAACTAAACCCCGAAAACCCGAAAACAAAGAACCCTCAAAC
73263110 GTAAACACAAAATTCTCTGAATGTGTTATGAGTTCTAATCTAATGGGTGTCC
131 GTAAACACAAAATTCTCTGAATGTGTTATGAGTTCTAATCTAATGGGTGTCC
73263162 AAAACCCCTCAAAAGAGGATAAAAAACCACGGGCAAAGATAAATTTACTATAATGGCAAAAGAAT
1 AAAACCCCTCAAAAGAGGATAAAAAACCACGGGCAAAGATAAATTTACTATAATGGCAAAAGAAT
73263227 GAAGAGTACAAAAGATGGAGATAAAAACTAAACCCCGAAAACCCGAAAACAAAGAACCCTCAAAC
66 GAAGAGTACAAAAGATGGAGATAAAAACTAAACCCCGAAAACCCGAAAACAAAGAACCCTCAAAC
73263292 GTAAACACAAAATTCTCTGAATGTGTTATGAGTTCTAATCTAATGGGTGTC
131 GTAAACACAAAATTCTCTGAATGTGTTATGAGTTCTAATCTAATGGGTGTC
73263343 TCTTTATTCT
Statistics
Matches: 179, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
182 179 1.00
ACGTcount: A:0.47, C:0.18, G:0.17, T:0.19
Consensus pattern (182 bp):
AAAACCCCTCAAAAGAGGATAAAAAACCACGGGCAAAGATAAATTTACTATAATGGCAAAAGAAT
GAAGAGTACAAAAGATGGAGATAAAAACTAAACCCCGAAAACCCGAAAACAAAGAACCCTCAAAC
GTAAACACAAAATTCTCTGAATGTGTTATGAGTTCTAATCTAATGGGTGTCC
Found at i:73263422 original size:24 final size:24
Alignment explanation
Indices: 73263395--73263446 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
73263385 TTAGTAAGTC
*
73263395 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
73263419 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
73263443 AAAT
1 AAAT
73263447 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:73265246 original size:52 final size:51
Alignment explanation
Indices: 73265177--73265277 Score: 132
Period size: 52 Copynumber: 2.0 Consensus size: 51
73265167 ATAGCCTTTT
* * * *
73265177 CCTACAAGGACAGCAAGAAGGTTTCCT-ATAATTATGACTGCAACGTGACNTC
1 CCTACAAGGAAAACAAGAAGGTTCCCTGA-AATTATAACTGCAACGTGAC-TC
*
73265229 CCTACAAGGAAAACAAGAGGGTTCCCTGAAATTATAACTGCAACGTGAC
1 CCTACAAGGAAAACAAGAAGGTTCCCTGAAATTATAACTGCAACGTGAC
73265278 AATTCCAGGA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
52 42 0.98
53 1 0.02
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (51 bp):
CCTACAAGGAAAACAAGAAGGTTCCCTGAAATTATAACTGCAACGTGACTC
Found at i:73272380 original size:15 final size:15
Alignment explanation
Indices: 73272342--73272384 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
73272332 TCAATATGAA
73272342 TATATGTATTATACTT
1 TATAT-TATTATACTT
73272358 TATATTATT-TACTT
1 TATATTATTATACTT
*
73272372 ATATTTTATTATA
1 -TATATTATTATA
73272385 TTACTTAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 5 0.21
15 12 0.50
16 7 0.29
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (15 bp):
TATATTATTATACTT
Found at i:73272386 original size:20 final size:19
Alignment explanation
Indices: 73272350--73272391 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
73272340 AATATATGTA
73272350 TTATACTTTATATTATTTAC
1 TTATACTTTATATTA-TTAC
*
73272370 TTATATTTTAT-TATATTAC
1 TTATACTTTATAT-TATTAC
73272389 TTA
1 TTA
73272392 ATACCTTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (19 bp):
TTATACTTTATATTATTAC
Found at i:73272530 original size:16 final size:15
Alignment explanation
Indices: 73272511--73272578 Score: 65
Period size: 13 Copynumber: 4.7 Consensus size: 15
73272501 ATTAACCTTA
73272511 TATTATTTCATATTAT
1 TATTATTT-ATATTAT
73272527 TATTA-TT-TATTAT
1 TATTATTTATATTAT
*
73272540 ATATT-TTTAAATTAT
1 -TATTATTTATATTAT
*
73272555 TATTATTT-TA-CAT
1 TATTATTTATATTAT
73272568 TATTATTTATA
1 TATTATTTATA
73272579 CTTTTTACTT
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
13 16 0.36
14 13 0.30
15 10 0.23
16 5 0.11
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (15 bp):
TATTATTTATATTAT
Found at i:73272703 original size:17 final size:16
Alignment explanation
Indices: 73272669--73272705 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
73272659 ATTATGTCAT
73272669 TTTTTATACTATTATA
1 TTTTTATACTATTATA
73272685 TTTTTAT-CTA-TATA
1 TTTTTATACTATTATA
*
73272699 TTATTAT
1 TTTTTAT
73272706 TATTAAAGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 10 0.50
15 3 0.15
16 7 0.35
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTTTATACTATTATA
Found at i:73273106 original size:24 final size:24
Alignment explanation
Indices: 73273076--73273122 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
73273066 GCTCACTTTA
*
73273076 TTTTATAT-TTATATATATTAATCT
1 TTTTATATGTTAT-TATATAAATCT
73273100 TTTTATATGTTATTATATAAATC
1 TTTTATATGTTATTATATAAATC
73273123 ATTAGGTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (24 bp):
TTTTATATGTTATTATATAAATCT
Found at i:73276979 original size:47 final size:47
Alignment explanation
Indices: 73276922--73277551 Score: 1197
Period size: 47 Copynumber: 13.4 Consensus size: 47
73276912 CAGCCAAGAC
73276922 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
73276969 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
73277016 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
73277063 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
73277110 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
73277157 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
73277204 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
73277251 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
73277298 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
73277345 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
73277392 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
73277439 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * *
73277486 AGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
73277533 AGTGTATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
73277552 TCCCGAAGGG
Statistics
Matches: 575, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 575 1.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:73277726 original size:37 final size:37
Alignment explanation
Indices: 73277670--73277748 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
73277660 CCGAGCTCTA
* *
73277670 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
73277707 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
73277744 AAGAC
1 AAGAC
73277749 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:73281304 original size:44 final size:44
Alignment explanation
Indices: 73281158--73281549 Score: 244
Period size: 44 Copynumber: 8.8 Consensus size: 44
73281148 TTGTGGTAAG
* * * * * *
73281158 TCTTATCTCCCT-AGAGTTGCAGTAGAGTAGATCGAAGATAGCAAA
1 TCTTATCTCTCTGA-AGTTGCAGTAGAGCAGATTGAAGTTA-TAGA
* * *
73281203 TCTTATCTCTCTGAAGTTGCAGTAAAGCAGATTAAAGCTATA-A
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGTTATAGA
* * * * *
73281246 GTTTTACCTCCCTGAAGTTACAGTGGAGCAGATTGAAGTTATAGA
1 -TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGTTATAGA
* * * * * * * *
73281291 TCTTATCTAC-CTGAAGTTGTAGTGGAGTAGGTCGAAGATAGCAAA
1 TCTTATCT-CTCTGAAGTTGCAGTAGAGCAGATTGAAGTTA-TAGA
* ** * * *
73281336 TATTATCTCTCTGAAGTTGCAGTAGAGTTGATTAAAGCTATAAA
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGTTATAGA
*
73281380 CCTTATCTCTCTGAAGTTGCAGTAGAGCA-AGTTGAAGTTATAGA
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TTGAAGTTATAGA
* * * *
73281424 TCTTATCT-TCCTAAAGTTGCAGTGGAGTAGATCGAA--TATAG-
1 TCTTATCTCT-CTGAAGTTGCAGTAGAGCAGATTGAAGTTATAGA
* * *
73281465 TCAATATTACTTCTCTGAAGTTGCAGTAGAGCAAATTAAAGTTATA-A
1 TC-TTA-T-C-TCTCTGAAGTTGCAGTAGAGCAGATTGAAGTTATAGA
* ** * *
73281512 GTCTTATCTCCCTGAAGTTATAGTGGAGCAGACTGAAG
1 -TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAG
73281550 ATAGCGAATC
Statistics
Matches: 268, Mismatches: 61, Indels: 37
0.73 0.17 0.10
Matches are distributed among these distances:
41 2 0.01
42 7 0.03
43 4 0.01
44 155 0.58
45 89 0.33
46 3 0.01
47 6 0.02
48 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (44 bp):
TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGTTATAGA
Found at i:73281396 original size:133 final size:132
Alignment explanation
Indices: 73281158--73281549 Score: 520
Period size: 133 Copynumber: 2.9 Consensus size: 132
73281148 TTGTGGTAAG
* * *
73281158 TCTTATCTCCCTAGAGTTGCAGTAGAGTAGATCGAAGATAGCAAATCTTATCTCTCTGAAGTTGC
1 TCTTATCTACCTA-AGTTGCAGTGGAGTAGATCGAAGATAGCAAATATTATCTCTCTGAAGTTGC
* * *
73281223 AGTAAAGCAGATTAAAGCTATAAGTTTTACCTCCCTGAAGTTACAGTGGAGCAGATTGAAGTTAT
65 AGTAGAGCAGATTAAAGCTATAAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGTTAT
73281288 AGA
130 AGA
* *
73281291 TCTTATCTACCTGAAGTTGTAGTGGAGTAGGTCGAAGATAGCAAATATTATCTCTCTGAAGTTGC
1 TCTTATCTACCT-AAGTTGCAGTGGAGTAGATCGAAGATAGCAAATATTATCTCTCTGAAGTTGC
** ** * * *
73281356 AGTAGAGTTGATTAAAGCTATAAACCTTATCTCTCTGAAGTTGCAGTAGAGCA-AGTTGAAGTTA
65 AGTAGAGCAGATTAAAGCTATAAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGA-TTGAAGTTA
73281420 TAGA
129 TAGA
* *
73281424 TCTTATCTTCCTAAAGTTGCAGTGGAGTAGATCGAATATAGTC-AATATTA-CTTCTCTGAAGTT
1 TCTTATCTACCT-AAGTTGCAGTGGAGTAGATCGAAGATAG-CAAATATTATC-TCTCTGAAGTT
* * * *
73281487 GCAGTAGAGCAAATTAAAGTTATAAGTCTTATCTCCCTGAAGTTATAGTGGAGCAGACTGAAG
63 GCAGTAGAGCAGATTAAAGCTATAAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAG
73281550 ATAGCGAATC
Statistics
Matches: 223, Mismatches: 31, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
132 2 0.01
133 218 0.98
134 3 0.01
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (132 bp):
TCTTATCTACCTAAGTTGCAGTGGAGTAGATCGAAGATAGCAAATATTATCTCTCTGAAGTTGCA
GTAGAGCAGATTAAAGCTATAAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGTTATA
GA
Found at i:73281573 original size:89 final size:88
Alignment explanation
Indices: 73281154--73281576 Score: 322
Period size: 89 Copynumber: 4.8 Consensus size: 88
73281144 GTCATTGTGG
*
73281154 TAAGTCTTATCTCCCT-AGAGTTGCAGTAGAGTAGATCGAAGATAGCAAATCTTATCTCTCTGAA
1 TAAGTCTTATCTCCCTGA-AGTTGCAGTGGAGTAGAT-GAAGATAGCAAATCTTATCTCTCTGAA
* * *
73281218 GTTGCAGTAAAGCAGATTAAAGCTA
64 GTTGCAGTAGAGCAAATTAAAGTTA
* * * * * * *
73281243 TAAGTTTTACCTCCCTGAAGTTACAGTGGAGCAGATTGAAGTTA-TAGATCTTATCTAC-CTGAA
1 TAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGA-TGAAGATAGCAAATCTTATCT-CTCTGAA
* * * ** ** *
73281306 GTTGTAGTGGAGTAGGTCGAAGATA
64 GTTGCAGTAGAGCAAATTAAAGTTA
* * * * * * * * * *
73281331 GCAAATATTATCTCTCTGAAGTTGCAGTAGAGTTGATTAAAGCTA-TAAACCTTATCTCTCTGAA
1 -TAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGA-TGAAGATAGCAAATCTTATCTCTCTGAA
* *
73281395 GTTGCAGTAGAGCAAGTTGAAGTTA
64 GTTGCAGTAGAGCAAATTAAAGTTA
* * * *
73281420 T-AGATCTTATCTTCCTAAAGTTGCAGTGGAGTAGATCGAATATAGTC-AATATTA-CTTCTCTG
1 TAAG-TCTTATCTCCCTGAAGTTGCAGTGGAGTAGAT-GAAGATAG-CAAATCTTATC-TCTCTG
73281482 AAGTTGCAGTAGAGCAAATTAAAGTTA
62 AAGTTGCAGTAGAGCAAATTAAAGTTA
** * * *
73281509 TAAGTCTTATCTCCCTGAAGTTATAGTGGAGCAGACTGAAGATAGCGAATCTCATCTC-CTTGAA
1 TAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGA-TGAAGATAGCAAATCTTATCTCTC-TGAA
73281573 GTTG
64 GTTG
73281577 TTGCAGAGCA
Statistics
Matches: 260, Mismatches: 59, Indels: 30
0.74 0.17 0.09
Matches are distributed among these distances:
87 2 0.01
88 65 0.25
89 187 0.72
90 6 0.02
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (88 bp):
TAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGATGAAGATAGCAAATCTTATCTCTCTGAAGT
TGCAGTAGAGCAAATTAAAGTTA
Found at i:73281627 original size:52 final size:52
Alignment explanation
Indices: 73281547--73281672 Score: 180
Period size: 52 Copynumber: 2.4 Consensus size: 52
73281537 GAGCAGACTG
* * * * ** *
73281547 AAGATAGCGAATCTCATCTCCTTGAAGTTGTTGCAGAGCATATTGAAGCTAC
1 AAGATAGCAAATCTTATCTCCCTAAAGTTGGAGCAGAGCAAATTGAAGCTAC
*
73281599 AAGATAGCAAATCTTATCTCCCTAAAGTTGGAGCAGAGCAAATTGAAGGTAC
1 AAGATAGCAAATCTTATCTCCCTAAAGTTGGAGCAGAGCAAATTGAAGCTAC
73281651 AAGATAGCAAATCTTATCTCCC
1 AAGATAGCAAATCTTATCTCCC
73281673 AGTGGAGCAG
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (52 bp):
AAGATAGCAAATCTTATCTCCCTAAAGTTGGAGCAGAGCAAATTGAAGCTAC
Found at i:73282124 original size:18 final size:17
Alignment explanation
Indices: 73282101--73282135 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
73282091 ATACAAAAAT
73282101 AAAAAAAAACAAAGCAAA
1 AAAAAAAAACAAA-CAAA
73282119 AAAAAAAAACAAACAAA
1 AAAAAAAAACAAACAAA
73282136 CAGCCCAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.86, C:0.11, G:0.03, T:0.00
Consensus pattern (17 bp):
AAAAAAAAACAAACAAA
Found at i:73283285 original size:10 final size:10
Alignment explanation
Indices: 73283270--73283329 Score: 57
Period size: 10 Copynumber: 5.6 Consensus size: 10
73283260 ATAACGTTAT
73283270 TTTATTTTCA
1 TTTATTTTCA
*
73283280 TTTATTTTTA
1 TTTATTTTCA
73283290 TTTATTTATTCA
1 TTTA-TT-TTCA
*
73283302 TTTGTTTTACTA
1 TTTATTTT-C-A
*
73283314 TTTATTTTCC
1 TTTATTTTCA
73283324 TTTATT
1 TTTATT
73283330 ATATTCAAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
10 21 0.51
11 6 0.15
12 14 0.34
ACGTcount: A:0.18, C:0.08, G:0.02, T:0.72
Consensus pattern (10 bp):
TTTATTTTCA
Found at i:73283343 original size:34 final size:34
Alignment explanation
Indices: 73283279--73283344 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 34
73283269 TTTTATTTTC
* **
73283279 ATTTATTTTTATTTATTTATTCATTTGTTTTACT
1 ATTTATTTTCATTTATTTATTCATAAGTTTTACT
*
73283313 ATTTATTTTCCTTTATTATATTCA-AAGTTTTA
1 ATTTATTTTCATTTATT-TATTCATAAGTTTTA
73283345 TTTTCACCTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 21 0.78
35 6 0.22
ACGTcount: A:0.24, C:0.08, G:0.03, T:0.65
Consensus pattern (34 bp):
ATTTATTTTCATTTATTTATTCATAAGTTTTACT
Found at i:73285541 original size:46 final size:46
Alignment explanation
Indices: 73285478--73285641 Score: 147
Period size: 46 Copynumber: 3.5 Consensus size: 46
73285468 TATTTGGGCA
* *
73285478 TCCGGACTCTTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * * *
73285524 TCCGAGCTCGTTGAGTTGAGTCTGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* **
73285569 CATCCGAAATCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACA
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
73285617 TCCGAACTCATTGAGTTGAGTCCGA
1 TCCGAACTCGTTGAGTTGAGTCCGA
73285642 TTTTGCTTAC
Statistics
Matches: 90, Mismatches: 19, Indels: 18
0.71 0.15 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 48 0.53
47 26 0.29
48 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:73286073 original size:24 final size:23
Alignment explanation
Indices: 73286046--73286092 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
73286036 AAAATAGTAT
*
73286046 ATATAGAATTAGATGATGAATAAA
1 ATATAGAATT-GAAGATGAATAAA
* *
73286070 ATATGGAATTGAAGATTAATAAA
1 ATATAGAATTGAAGATGAATAAA
73286093 TTTATTTTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.30
Consensus pattern (23 bp):
ATATAGAATTGAAGATGAATAAA
Found at i:73306726 original size:47 final size:47
Alignment explanation
Indices: 73306654--73306758 Score: 138
Period size: 47 Copynumber: 2.2 Consensus size: 47
73306644 GCCAAGACAA
* * * *
73306654 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTG
* * *
73306701 TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG
1 TATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTG
*
73306748 TATAAATGTGA
1 TATATATGTGA
73306759 TAAGTCCCGA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.28
Consensus pattern (47 bp):
TATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTG
Found at i:73306931 original size:37 final size:37
Alignment explanation
Indices: 73306881--73306994 Score: 165
Period size: 37 Copynumber: 3.1 Consensus size: 37
73306871 CCGAGCTCTA
* * *
73306881 AAGACTCGATGACTATGTGTAGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
73306918 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
* * * *
73306955 AAGACCCGATAACTACGTGTGGGGATTTTGTCCAGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
73306992 AAG
1 AAG
73306995 CCCAGAACTA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 70 1.00
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
Found at i:73309709 original size:42 final size:42
Alignment explanation
Indices: 73309625--73309783 Score: 178
Period size: 42 Copynumber: 3.8 Consensus size: 42
73309615 TTAGGGTTAC
* *
73309625 TGAGACTACGTGTAAGACCATATCT--GATATGGAATCAATA
1 TGAGACTACGTGTAAGACCATATCTGGGATATGGCATCGATA
*
73309665 TGAGACTATGTGTAAGACCATATCTGGGATATGGCATCGATA
1 TGAGACTACGTGTAAGACCATATCTGGGATATGGCATCGATA
* * * * * *
73309707 TGAGATTTCGTGTATGACCATAGCTTGGTTATTGGCATCGATA
1 TGAGACTACGTGTAAGACCATATCTGGGATA-TGGCATCGATA
* * **
73309750 TGAGATTACATGTAAGACTGTATCTGGGATATGG
1 TGAGACTACGTGTAAGACCATATCTGGGATATGG
73309784 TATTGGTACG
Statistics
Matches: 98, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
40 24 0.24
42 40 0.41
43 34 0.35
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.31
Consensus pattern (42 bp):
TGAGACTACGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:73318578 original size:23 final size:23
Alignment explanation
Indices: 73318552--73318604 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
73318542 AAAGAGTGAG
*
73318552 AATGAAAAAGAAAAAAATTGAAA
1 AATGAAAAAGAAAAAAATTAAAA
*
73318575 AATGAAAAAGAAAAATATTAAAA
1 AATGAAAAAGAAAAAAATTAAAA
*
73318598 AAAGAAA
1 AATGAAA
73318605 GGAAAAATGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.75, C:0.00, G:0.11, T:0.13
Consensus pattern (23 bp):
AATGAAAAAGAAAAAAATTAAAA
Found at i:73318590 original size:21 final size:20
Alignment explanation
Indices: 73318534--73318590 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 20
73318524 TCAAGCGAGG
* *
73318534 GAAAAAGAAAAGAGTGAGAAT
1 GAAAAAGAAAA-ATTGAAAAT
73318555 GAAAAAGAAAAAAATTGAAAAAT
1 GAAAAAG--AAAAATTG-AAAAT
73318578 GAAAAAGAAAAAT
1 GAAAAAGAAAAAT
73318591 ATTAAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
21 13 0.42
22 3 0.10
23 15 0.48
ACGTcount: A:0.70, C:0.00, G:0.19, T:0.11
Consensus pattern (20 bp):
GAAAAAGAAAAATTGAAAAT
Found at i:73318609 original size:22 final size:23
Alignment explanation
Indices: 73318555--73318612 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 23
73318545 GAGTGAGAAT
* * *
73318555 GAAAAAGAAAAAAATTGAAAAAT
1 GAAAAAGAAAAATATTAAAAAAA
73318578 GAAAAAGAAAAATATTAAAAAAA
1 GAAAAAGAAAAATATTAAAAAAA
*
73318601 G-AAAGGAAAAAT
1 GAAAAAGAAAAAT
73318613 GAGAGAAAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 10 0.32
23 21 0.68
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.12
Consensus pattern (23 bp):
GAAAAAGAAAAATATTAAAAAAA
Found at i:73326322 original size:27 final size:26
Alignment explanation
Indices: 73326281--73326334 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 26
73326271 CCCTGTTTAG
*
73326281 AATACTTTAGTTTACCAAATTACTGA
1 AATACTTTAGTTTACAAAATTACTGA
*
73326307 AATACTCTTGGTTTACAAAATTACTGA
1 AATACT-TTAGTTTACAAAATTACTGA
73326334 A
1 A
73326335 TACCCTCAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 6 0.24
27 19 0.76
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.37
Consensus pattern (26 bp):
AATACTTTAGTTTACAAAATTACTGA
Found at i:73326367 original size:27 final size:27
Alignment explanation
Indices: 73326333--73326507 Score: 122
Period size: 27 Copynumber: 6.5 Consensus size: 27
73326323 AAAATTACTG
*
73326333 AATA-CCCTCAATTAGCAAAATTAACAA
1 AATACCCCT-AATTAGCAAAATTACCAA
*
73326360 AATA-CCCTCGATTAGCAAAATTACCAA
1 AATACCCCT-AATTAGCAAAATTACCAA
* * * *
73326387 AATACCCCTAGTTTGTAAAATTATCAA
1 AATACCCCTAATTAGCAAAATTACCAA
* * *
73326414 AATACCCCTAGTTTGTAAAATTACCAA
1 AATACCCCTAATTAGCAAAATTACCAA
* * ** **
73326441 AATACCCCTGATTTGTGAAATTACTGA
1 AATACCCCTAATTAGCAAAATTACCAA
* * *
73326468 AATACCCTCGACTT-GTAAAATTACCAA
1 AATACCC-CTAATTAGCAAAATTACCAA
* *
73326495 AGTACCCCCAATT
1 AATACCCCTAATT
73326508 TACAGAATTA
Statistics
Matches: 124, Mismatches: 22, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
26 4 0.03
27 113 0.91
28 7 0.06
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.27
Consensus pattern (27 bp):
AATACCCCTAATTAGCAAAATTACCAA
Found at i:73326415 original size:54 final size:53
Alignment explanation
Indices: 73326349--73326502 Score: 179
Period size: 54 Copynumber: 2.8 Consensus size: 53
73326339 CTCAATTAGC
*
73326349 AAAATTAACAAAATACCCTCGA-TTAGCAAAATTACCAAAATACCCCT-AGTTTGT
1 AAAATT-ACAAAATACCCTCGACTT-GTAAAATTACCAAAATACCCCTGA-TTTGT
* *
73326403 AAAATTATCAAAATACCC-CTAGTTTGTAAAATTACCAAAATACCCCTGATTTGT
1 AAAATTA-CAAAATACCCTCGA-CTTGTAAAATTACCAAAATACCCCTGATTTGT
* * *
73326457 GAAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCC
1 AAAATTAC-AAAATACCCTCGACTTGTAAAATTACCAAAATACCCC
73326503 CAATTTACAG
Statistics
Matches: 87, Mismatches: 7, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
53 4 0.05
54 78 0.90
55 5 0.06
ACGTcount: A:0.42, C:0.23, G:0.08, T:0.27
Consensus pattern (53 bp):
AAAATTACAAAATACCCTCGACTTGTAAAATTACCAAAATACCCCTGATTTGT
Found at i:73326462 original size:81 final size:81
Alignment explanation
Indices: 73326349--73326502 Score: 186
Period size: 81 Copynumber: 1.9 Consensus size: 81
73326339 CTCAATTAGC
* *
73326349 AAAATTAACAAAATACCCTCGATTAGCAAAATTACCAAAATACCCCTAG-TTTGTAAAATTATCA
1 AAAATTAACAAAATACCCTCGATTAGCAAAATTACCAAAATA-CCCTAGACTTGTAAAATTACCA
73326413 AAATACCCCTAGTTTGT
65 AAATACCCCTAGTTTGT
* * ** ** *
73326430 AAAATTACCAAAATACCC-CTGATTTGTGAAATTACTGAAATACCCTCGACTTGTAAAATTACCA
1 AAAATTAACAAAATACCCTC-GATTAGCAAAATTACCAAAATACCCTAGACTTGTAAAATTACCA
*
73326494 AAGTACCCC
65 AAATACCCC
73326503 CAATTTACAG
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
80 6 0.10
81 55 0.90
ACGTcount: A:0.42, C:0.23, G:0.08, T:0.27
Consensus pattern (81 bp):
AAAATTAACAAAATACCCTCGATTAGCAAAATTACCAAAATACCCTAGACTTGTAAAATTACCAA
AATACCCCTAGTTTGT
Found at i:73326570 original size:27 final size:27
Alignment explanation
Indices: 73326540--73326655 Score: 151
Period size: 27 Copynumber: 4.3 Consensus size: 27
73326530 TGTTTTACAA
* * *
73326540 AATTACTAAAATACCCCTGTAAGGTAG
1 AATTACCAAAATACCCTTGTAGGGTAG
73326567 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACCAAAATACCCTTGTAGGGTAG
* * *
73326594 AAATACCGAAATACCCATGTAGGGTAG
1 AATTACCAAAATACCCTTGTAGGGTAG
* * *
73326621 AATTACCGAGATACCCTTGTAGGGTAA
1 AATTACCAAAATACCCTTGTAGGGTAG
73326648 AATTACCA
1 AATTACCA
73326656 TTTTGCCCCT
Statistics
Matches: 78, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 78 1.00
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGTAGGGTAG
Found at i:73327338 original size:27 final size:26
Alignment explanation
Indices: 73327316--73327414 Score: 90
Period size: 27 Copynumber: 3.7 Consensus size: 26
73327306 TAAGTGCCTT
*
73327316 TGCCACATTATCTATTTCTAGTGGCTA
1 TGCCACAATATCTA-TTCTAGTGGCTA
* *
73327343 TGCCACAAATATCTATTCTGGTGGCTC
1 TGCCAC-AATATCTATTCTAGTGGCTA
* * * *
73327370 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTAT-TCTAGTGGCTA
**
73327397 TGTTACAATATCTATTCT
1 TGCCACAATATCTATTCT
73327415 GGCAGCCATG
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
26 11 0.18
27 44 0.71
28 7 0.11
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (26 bp):
TGCCACAATATCTATTCTAGTGGCTA
Found at i:73327543 original size:6 final size:6
Alignment explanation
Indices: 73327534--73327658 Score: 82
Period size: 6 Copynumber: 20.3 Consensus size: 6
73327524 TTGCATTCAC
*
73327534 ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG --TCATCG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTC-T-G
* *
73327583 AATTCTG ATTTTG ATT-TCG ATTCTG ATTCTG -TCACCTG ATTCTG ATTCTG
1 -ATTCTG ATTCTG ATTCT-G ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* *
73327633 ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG A-TTCTG AT
73327659 AATGTTTCTT
Statistics
Matches: 95, Mismatches: 9, Indels: 30
0.71 0.07 0.22
Matches are distributed among these distances:
4 2 0.02
5 6 0.06
6 73 0.77
7 9 0.09
8 3 0.03
9 2 0.02
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:73327569 original size:31 final size:31
Alignment explanation
Indices: 73327534--73327637 Score: 101
Period size: 31 Copynumber: 3.4 Consensus size: 31
73327524 TTGCATTCAC
*
73327534 ATTCTGATTCTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATTCTG
*
73327565 ATTCTGATTCTG--TCATCGAATT--CTGATTTTG
1 ATTCTGATTCTGATTC-T-G--TTACCTGATTCTG
*
73327596 ATT-TCGATTCTGATTCTGTCACCTGATTCTG
1 ATTCT-GATTCTGATTCTGTTACCTGATTCTG
73327627 ATTCTGATTCT
1 ATTCTGATTCT
73327638 CATTTTGATT
Statistics
Matches: 59, Mismatches: 4, Indels: 20
0.71 0.05 0.24
Matches are distributed among these distances:
29 3 0.05
30 2 0.03
31 48 0.81
32 2 0.03
33 4 0.07
ACGTcount: A:0.18, C:0.19, G:0.15, T:0.47
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATTCTG
Found at i:73327587 original size:19 final size:18
Alignment explanation
Indices: 73327564--73327632 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 18
73327554 ACCTGATACT
73327564 GATTCTGATTCTGTCATC
1 GATTCTGATTCTGTCATC
* *
73327582 GAATTCTGATTTTGAT-TTC
1 G-ATTCTGATTCTG-TCATC
*
73327601 GATTCTGATTCTGTCACC
1 GATTCTGATTCTGTCATC
73327619 TGATTCTGATTCTG
1 -GATTCTGATTCTG
73327633 ATTCTCATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
17 1 0.02
18 13 0.31
19 27 0.64
20 1 0.02
ACGTcount: A:0.17, C:0.19, G:0.17, T:0.46
Consensus pattern (18 bp):
GATTCTGATTCTGTCATC
Found at i:73327590 original size:25 final size:25
Alignment explanation
Indices: 73327534--73327598 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
73327524 TTGCATTCAC
*
73327534 ATTCTGATTCTGATTCTGTTACCTG
1 ATTCTGATTCTGATTCTGTCACCTG
* *
73327559 ATACTGATTCTGATTCTGTCATC-G
1 ATTCTGATTCTGATTCTGTCACCTG
*
73327583 AATTCTGATTTTGATT
1 -ATTCTGATTCTGATT
73327599 TCGATTCTGA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
24 1 0.03
25 33 0.97
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.48
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTCACCTG
Found at i:73327881 original size:6 final size:6
Alignment explanation
Indices: 73327865--73327968 Score: 65
Period size: 6 Copynumber: 17.0 Consensus size: 6
73327855 AGGTAATTTC
* *
73327865 TCTGAT ACTGAT TCTGAT TCTG-- TCATCGAAT TCTGAT TTTGAT T-TCGAT
1 TCTGAT TCTGAT TCTGAT TCTGAT TC-T-G-AT TCTGAT TCTGAT TCT-GAT
* * *
73327914 TCTGAT TCTG-T CACCTGAT TCTGAT TCTGAT TCTCAT TTTGAT TCT-AGT
1 TCTGAT TCTGAT --TCTGAT TCTGAT TCTGAT TCTGAT TCTGAT TCTGA-T
73327963 TCTGAT
1 TCTGAT
73327969 AATGTTTCTT
Statistics
Matches: 77, Mismatches: 9, Indels: 24
0.70 0.08 0.22
Matches are distributed among these distances:
4 2 0.03
5 4 0.05
6 61 0.79
7 6 0.08
8 2 0.03
9 2 0.03
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.48
Consensus pattern (6 bp):
TCTGAT
Found at i:73327899 original size:19 final size:18
Alignment explanation
Indices: 73327874--73327942 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 18
73327864 CTCTGATACT
73327874 GATTCTGATTCTGTCATC
1 GATTCTGATTCTGTCATC
* *
73327892 GAATTCTGATTTTGAT-TTC
1 G-ATTCTGATTCTG-TCATC
*
73327911 GATTCTGATTCTGTCACC
1 GATTCTGATTCTGTCATC
73327929 TGATTCTGATTCTG
1 -GATTCTGATTCTG
73327943 ATTCTCATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
17 1 0.02
18 13 0.31
19 27 0.64
20 1 0.02
ACGTcount: A:0.17, C:0.19, G:0.17, T:0.46
Consensus pattern (18 bp):
GATTCTGATTCTGTCATC
Found at i:73328118 original size:310 final size:310
Alignment explanation
Indices: 73327556--73328175 Score: 1213
Period size: 310 Copynumber: 2.0 Consensus size: 310
73327546 ATTCTGTTAC
73327556 CTGATACTGATTCTGATTCTGTCATCGAATTCTGATTTTGATTTCGATTCTGATTCTGTCACCTG
1 CTGATACTGATTCTGATTCTGTCATCGAATTCTGATTTTGATTTCGATTCTGATTCTGTCACCTG
73327621 ATTCTGATTCTGATTCTCATTTTGATTCTAGTTCTGATAATGTTTCTTATTCTGTAATGGGCTAA
66 ATTCTGATTCTGATTCTCATTTTGATTCTAGTTCTGATAATGTTTCTTATTCTGTAATGGGCTAA
* *
73327686 GGTCCATCTGGTACTGTCTCTTATAATGGGCTAAAGCCCAATTGATACTGAAACTATAAGTAGGG
131 GGTCCATCTGGCACTGTCTCTTATAATGGGCTAAAGCCCAATTGATACTGAAACGATAAGTAGGG
73327751 CTGGGGCTAGACTTTTAATTCTTTTATATGACTGACTGTTCCTTTTATATAGTAGGGGATTTCAC
196 CTGGGGCTAGACTTTTAATTCTTTTATATGACTGACTGTTCCTTTTATATAGTAGGGGATTTCAC
73327816 ACTGAGTTTTCGTAAACTCACCCCGTTTATTAACCTTTCAGGTAATTTCT
261 ACTGAGTTTTCGTAAACTCACCCCGTTTATTAACCTTTCAGGTAATTTCT
73327866 CTGATACTGATTCTGATTCTGTCATCGAATTCTGATTTTGATTTCGATTCTGATTCTGTCACCTG
1 CTGATACTGATTCTGATTCTGTCATCGAATTCTGATTTTGATTTCGATTCTGATTCTGTCACCTG
73327931 ATTCTGATTCTGATTCTCATTTTGATTCTAGTTCTGATAATGTTTCTTATTCTGTAATGGGCTAA
66 ATTCTGATTCTGATTCTCATTTTGATTCTAGTTCTGATAATGTTTCTTATTCTGTAATGGGCTAA
*
73327996 GGTCCATCTGGCACTGTCTCTTATAATGGGCTAAAGCCCAATTGATAGTGAAACGATAAGTAGGG
131 GGTCCATCTGGCACTGTCTCTTATAATGGGCTAAAGCCCAATTGATACTGAAACGATAAGTAGGG
73328061 CTGGGGCTAGACTTTTAATTCTTTTATATGACTGACTGTTCCTTTTATATAGTAGGGGATTTCAC
196 CTGGGGCTAGACTTTTAATTCTTTTATATGACTGACTGTTCCTTTTATATAGTAGGGGATTTCAC
73328126 ACTGAGTTTTCGTAAACTCACCCCGTTTATTAACCTTTCAGGTAATTTCT
261 ACTGAGTTTTCGTAAACTCACCCCGTTTATTAACCTTTCAGGTAATTTCT
73328176 AGCCTTAGAC
Statistics
Matches: 307, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
310 307 1.00
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (310 bp):
CTGATACTGATTCTGATTCTGTCATCGAATTCTGATTTTGATTTCGATTCTGATTCTGTCACCTG
ATTCTGATTCTGATTCTCATTTTGATTCTAGTTCTGATAATGTTTCTTATTCTGTAATGGGCTAA
GGTCCATCTGGCACTGTCTCTTATAATGGGCTAAAGCCCAATTGATACTGAAACGATAAGTAGGG
CTGGGGCTAGACTTTTAATTCTTTTATATGACTGACTGTTCCTTTTATATAGTAGGGGATTTCAC
ACTGAGTTTTCGTAAACTCACCCCGTTTATTAACCTTTCAGGTAATTTCT
Found at i:73330725 original size:47 final size:46
Alignment explanation
Indices: 73330668--73330797 Score: 152
Period size: 47 Copynumber: 2.8 Consensus size: 46
73330658 GTGTGAATGA
* * * *
73330668 TACCTTGATTTGGCTACGGACCATGGTATAGGTATTTAAAGAGGAGT
1 TACCTTGATTTGGCTACGG-CCATGGTATAGGTACTCAAAGAGAAAT
* ** *
73330715 TACCTTGATTTGGCTACGGGCCATGGTATAGATACTCCGAGATAAAT
1 TACCTTGATTTGGCTAC-GGCCATGGTATAGGTACTCAAAGAGAAAT
*
73330762 TACTTTGATTTGGCTACAGGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTAC-GGCCATGGTATAGGTACT
73330798 TATCGATAGA
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
47 69 0.97
48 2 0.03
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.32
Consensus pattern (46 bp):
TACCTTGATTTGGCTACGGCCATGGTATAGGTACTCAAAGAGAAAT
Found at i:73334923 original size:40 final size:40
Alignment explanation
Indices: 73334879--73334959 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
73334869 TTACGCAAAC
73334879 AAAGGTTATTTTTGGAAACACGAGCACGGTTTTGATTTAA
1 AAAGGTTATTTTTGGAAACACGAGCACGGTTTTGATTTAA
**
73334919 AAAGGTTATTTTTGGAAACACGAGCGTGGTTTTGATTTAA
1 AAAGGTTATTTTTGGAAACACGAGCACGGTTTTGATTTAA
73334959 A
1 A
73334960 TGGTTTTTCA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.32, C:0.09, G:0.23, T:0.36
Consensus pattern (40 bp):
AAAGGTTATTTTTGGAAACACGAGCACGGTTTTGATTTAA
Found at i:73337550 original size:7 final size:7
Alignment explanation
Indices: 73337538--73337588 Score: 102
Period size: 7 Copynumber: 7.3 Consensus size: 7
73337528 AAATTGTAAC
73337538 TTGGAAT
1 TTGGAAT
73337545 TTGGAAT
1 TTGGAAT
73337552 TTGGAAT
1 TTGGAAT
73337559 TTGGAAT
1 TTGGAAT
73337566 TTGGAAT
1 TTGGAAT
73337573 TTGGAAT
1 TTGGAAT
73337580 TTGGAAT
1 TTGGAAT
73337587 TT
1 TT
73337589 TTTGTTATCA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 44 1.00
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.45
Consensus pattern (7 bp):
TTGGAAT
Found at i:73339697 original size:18 final size:17
Alignment explanation
Indices: 73339676--73339724 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
73339666 TAATAATTTT
*
73339676 TATTTTTATTTTTAAAAA
1 TATTTATATTTTT-AAAA
*
73339694 TATTTAAATTTATTAAAA
1 TATTTATATTT-TTAAAA
73339712 TATTTATATTTTT
1 TATTTATATTTTT
73339725 CAATATTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 2 0.07
18 23 0.85
19 2 0.07
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TATTTATATTTTTAAAA
Found at i:73339814 original size:16 final size:18
Alignment explanation
Indices: 73339770--73339818 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 18
73339760 TTTATTCATA
73339770 TAATAAATTATTATGTAAT
1 TAATAAATTATTATGT-AT
73339789 TAATATAAATTATTAT-T-T
1 T-A-ATAAATTATTATGTAT
73339807 TAATAAATTATT
1 TAATAAATTATT
73339819 TAATATTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
16 10 0.36
17 1 0.04
18 2 0.07
19 1 0.04
20 2 0.07
21 12 0.43
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
TAATAAATTATTATGTAT
Found at i:73340375 original size:14 final size:14
Alignment explanation
Indices: 73340356--73340402 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
73340346 AAAGTAAATA
73340356 ATTTTCTAAATGTC
1 ATTTTCTAAATGTC
** *
73340370 ATTTTC-AAAAATA
1 ATTTTCTAAATGTC
73340383 ATTTTCTAAATGTC
1 ATTTTCTAAATGTC
73340397 ATTTTC
1 ATTTTC
73340403 AATAAAATAA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
13 10 0.38
14 16 0.62
ACGTcount: A:0.34, C:0.13, G:0.04, T:0.49
Consensus pattern (14 bp):
ATTTTCTAAATGTC
Found at i:73340388 original size:13 final size:14
Alignment explanation
Indices: 73340351--73340392 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
73340341 CTAAGAAAGT
73340351 AAATAATTTTCTAA
1 AAATAATTTTCTAA
** *
73340365 ATGTCATTTTC-AA
1 AAATAATTTTCTAA
73340378 AAATAATTTTCTAA
1 AAATAATTTTCTAA
73340392 A
1 A
73340393 TGTCATTTTC
Statistics
Matches: 21, Mismatches: 6, Indels: 2
0.72 0.21 0.07
Matches are distributed among these distances:
13 10 0.48
14 11 0.52
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (14 bp):
AAATAATTTTCTAA
Found at i:73340389 original size:27 final size:27
Alignment explanation
Indices: 73340351--73340404 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
73340341 CTAAGAAAGT
73340351 AAATAATTTTCTAAATGTCATTTTCAA
1 AAATAATTTTCTAAATGTCATTTTCAA
73340378 AAATAATTTTCTAAATGTCATTTTCAA
1 AAATAATTTTCTAAATGTCATTTTCAA
73340405 TAAAATAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.41, C:0.11, G:0.04, T:0.44
Consensus pattern (27 bp):
AAATAATTTTCTAAATGTCATTTTCAA
Found at i:73351559 original size:13 final size:13
Alignment explanation
Indices: 73351541--73351566 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
73351531 TTGAACCCAT
73351541 ACCAAAACAATCA
1 ACCAAAACAATCA
73351554 ACCAAAACAATCA
1 ACCAAAACAATCA
73351567 TAAAACATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.31, G:0.00, T:0.08
Consensus pattern (13 bp):
ACCAAAACAATCA
Found at i:73358785 original size:13 final size:13
Alignment explanation
Indices: 73358767--73358792 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
73358757 TTGAACCCAT
73358767 ACCAAAACAATCA
1 ACCAAAACAATCA
73358780 ACCAAAACAATCA
1 ACCAAAACAATCA
73358793 TAAAACATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.31, G:0.00, T:0.08
Consensus pattern (13 bp):
ACCAAAACAATCA
Found at i:73372178 original size:93 final size:93
Alignment explanation
Indices: 73372062--73372232 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
73372052 CTAATAAGTG
*
73372062 AACTCGGACTCAACTCAACGAGCTC-GAGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 AACTCGGACTCAACTCAACGAGCTCGGA-CATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
73372126 CGAGCTCGGATGCCTAGTTACATCTCACA
65 CGAGCTCGGATGCCTAGTTACATCTCACA
*
73372155 AACTCGGACTCAACTCAATGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
73372220 GAGCTCGGATGCC
66 GAGCTCGGATGCC
73372233 CAAATATCCT
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
93 73 0.97
94 2 0.03
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCACA
Done.