Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1873
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: 405709
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 1 of 4
Found at i:146 original size:84 final size:84
Alignment explanation
Indices: 48--228 Score: 283
Period size: 84 Copynumber: 2.1 Consensus size: 84
38 ACTTTTTTAT
*
48 CAATATTTATTTTTATCCGTAATATTATA-TTACCATTCATAATTTGTAGTAATATTATTTTTCA
1 CAATATTTATTTTTATCCATAATATTATATTTACCATTCATAATTTGTAGTAATATTA-TTTTCA
*
112 TCTATTATTTTTAAAAATTA
65 TCCATTATTTTTAAAAATTA
* * *
132 CAATATTTATTTTTATTCATAATATTATATTTATCATTCATAATTTGTATTAATATTATTTTCAT
1 CAATATTTATTTTTATCCATAATATTATATTTACCATTCATAATTTGTAGTAATATTATTTTCAT
197 CCATTATTTTTAAAAATTA
66 CCATTATTTTTAAAAATTA
*
216 CAATTATTCATTT
1 CAA-TATTTATTT
229 ATGATTATTA
Statistics
Matches: 89, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
84 55 0.62
85 34 0.38
ACGTcount: A:0.35, C:0.09, G:0.02, T:0.54
Consensus pattern (84 bp):
CAATATTTATTTTTATCCATAATATTATATTTACCATTCATAATTTGTAGTAATATTATTTTCAT
CCATTATTTTTAAAAATTA
Found at i:172 original size:21 final size:19
Alignment explanation
Indices: 133--175 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 19
123 TAAAAATTAC
*
133 AATATTTATTTTTATTCAT
1 AATATTTATTTTCATTCAT
152 AATATTATATTTATCATTCAT
1 AATATT-TATTT-TCATTCAT
173 AAT
1 AAT
176 TTGTATTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.29
20 5 0.24
21 10 0.48
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (19 bp):
AATATTTATTTTCATTCAT
Found at i:8870 original size:33 final size:33
Alignment explanation
Indices: 8823--8922 Score: 155
Period size: 33 Copynumber: 3.0 Consensus size: 33
8813 CGAGAGTTGA
*
8823 TCACTTCACTTTCGCAGCGTATGGATGAGCACT
1 TCACTTCACTTTCGCAGCGCATGGATGAGCACT
* * *
8856 TCACTTCACATTCGCAGTGCATGGATGGGCACT
1 TCACTTCACTTTCGCAGCGCATGGATGAGCACT
*
8889 TCACTTCACTTTCGTAGCGCATGGATGAGCACT
1 TCACTTCACTTTCGCAGCGCATGGATGAGCACT
8922 T
1 T
8923 TAGTTCTTTT
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.21, C:0.27, G:0.22, T:0.30
Consensus pattern (33 bp):
TCACTTCACTTTCGCAGCGCATGGATGAGCACT
Found at i:9826 original size:21 final size:21
Alignment explanation
Indices: 9800--9876 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
9790 AAATTATCCA
9800 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
9821 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
* *
9842 AATGTATCGATACA-TTCTACA
1 AATGTATCGATACATTTGTA-G
9863 AATGTATCGATACA
1 AATGTATCGATACA
9877 GGGTCCCAAC
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 3 0.06
21 48 0.94
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:9936 original size:19 final size:19
Alignment explanation
Indices: 9912--9979 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 19
9902 AATTCAACAA
9912 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
9931 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
*
9946 --TGTATCGATACAAAAGT
1 TTTGTATCGATACATAAGT
*
9963 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
9980 TTAGCTACTG
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 27 0.64
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:9951 original size:13 final size:13
Alignment explanation
Indices: 9933--9958 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9923 ACATAAGTTT
9933 TGTATCGATACAA
1 TGTATCGATACAA
9946 TGTATCGATACAA
1 TGTATCGATACAA
9959 AAGTATTGTA
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:9955 original size:32 final size:32
Alignment explanation
Indices: 9914--9976 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
9904 TTCAACAATT
* *
9914 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACAAAAGTATTGTATCGATACAA
9946 TGTATCGATACAAAAGTATTGTATCGATACA
1 TGTATCGATACAAAAGTATTGTATCGATACA
9977 TAATTAGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAAGTATTGTATCGATACAA
Found at i:10037 original size:13 final size:13
Alignment explanation
Indices: 10019--10044 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10009 TATTTTTCTG
10019 TGTATCGATACAT
1 TGTATCGATACAT
10032 TGTATCGATACAT
1 TGTATCGATACAT
10045 GGATCTTTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:12591 original size:28 final size:27
Alignment explanation
Indices: 12521--12596 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 27
12511 AATTTTCACA
12521 ATCGGGGATACTCCAACCCCGTTAATC
1 ATCGGGGATACTCCAACCCCGTTAATC
* *
12548 ATCGGGGATACTCCAACTCCGTT-ATT
1 ATCGGGGATACTCCAACCCCGTTAATC
*
12574 TTCGAGGGGATACTCCAACCCCG
1 ATC--GGGGATACTCCAACCCCG
12597 ACTTTATTTC
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 4 0.09
27 22 0.51
28 17 0.40
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.24
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCGTTAATC
Found at i:12758 original size:53 final size:52
Alignment explanation
Indices: 12579--12801 Score: 216
Period size: 52 Copynumber: 4.3 Consensus size: 52
12569 TTATTTTCGA
* ** * ***
12579 GGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTTT-CATAATC
1 GGGGATACTCTAACCCCGGTTTTATTTCCAAAACACCAATTTTTCCATAATC
* * * * * *
12630 GAGGATACTCTAACCCCGGTTTTATTGCTAAAACACTAAGTTTTCCACAATC
1 GGGGATACTCTAACCCCGGTTTTATTTCCAAAACACCAATTTTTCCATAATC
* * *
12682 GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTTCCTTTAATC
1 GGGGATACTCTAACCCCGGTTTTATTTCCAAAACACCAATTTTTCC-ATAATC
* * * *
12735 GGGGATACTCTAACTCCGATTTTATTTCCAAAAGTACCAATTTTT-CACAATC
1 GGGGATACTCTAACCCCGGTTTTATTTCCAAAA-CACCAATTTTTCCATAATC
* *
12787 GAGGATACTCCAACC
1 GGGGATACTCTAACC
12802 TCGTTATCTC
Statistics
Matches: 139, Mismatches: 30, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
51 34 0.24
52 61 0.44
53 34 0.24
54 10 0.07
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.33
Consensus pattern (52 bp):
GGGGATACTCTAACCCCGGTTTTATTTCCAAAACACCAATTTTTCCATAATC
Found at i:12793 original size:105 final size:103
Alignment explanation
Indices: 12581--12801 Score: 255
Period size: 105 Copynumber: 2.1 Consensus size: 103
12571 ATTTTCGAGG
* ***
12581 GGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTTTCATAATCGAGGATACTCTAACCC
1 GGATACTCCAACCCCGACTTTATTTCCAAAACACCAATTTTTCATAATCGAGGATACTCTAACCC
* * * *
12646 CGGTTTTATTGCTAAAACACTAAGTTTTCCACAATCGG
66 CGATTTTATTGCCAAAACACCAAGTTTTCCACAATCGA
** * * *
12684 GGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTTCCTTTAATCGGGGATACTCTAAC
1 GGATACTCCAACCCCGACTTTATTTCCAAAACACCAATTTTT-C-ATAATCGAGGATACTCTAAC
* * * *
12749 TCCGATTTTATTTCCAAAAGTACCAA-TTTTTCACAATCGA
64 CCCGATTTTATTGCCAAAA-CACCAAGTTTTCCACAATCGA
12789 GGATACTCCAACC
1 GGATACTCCAACC
12802 TCGTTATCTC
Statistics
Matches: 98, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
103 35 0.36
104 1 0.01
105 58 0.59
106 4 0.04
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (103 bp):
GGATACTCCAACCCCGACTTTATTTCCAAAACACCAATTTTTCATAATCGAGGATACTCTAACCC
CGATTTTATTGCCAAAACACCAAGTTTTCCACAATCGA
Found at i:12821 original size:28 final size:27
Alignment explanation
Indices: 12789--12856 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 27
12779 TCACAATCGA
* *
12789 GGATACTCCAACCTCGTTATCTCTTC-GG
1 GGATACTCCAACCCCGTTA-CT-TCCAGG
*
12817 GGATACTCTAACCCCGTTACTTCCGAGG
1 GGATACTCCAACCCCGTTACTTCC-AGG
12845 GGATACTCCAAC
1 GGATACTCCAAC
12857 GCCGGCTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
26 2 0.06
27 2 0.06
28 30 0.88
ACGTcount: A:0.22, C:0.32, G:0.19, T:0.26
Consensus pattern (27 bp):
GGATACTCCAACCCCGTTACTTCCAGG
Found at i:12892 original size:264 final size:262
Alignment explanation
Indices: 12410--12911 Score: 736
Period size: 264 Copynumber: 1.9 Consensus size: 262
12400 TTCTCAATTC
* * * *
12410 TCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAGACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
*
12475 TACTCCAACTCCGATTTTATTTCCAAAAAAACACCAAATTTTCACAATCGGGGATACTCCAACCC
66 TACTCCAACTCCGATTTTATTTCC-AAAAAACACCAAATTTTCACAATCGAGGATACTCCAACCC
* * *
12540 CGTTAATCATCGGGGATACTCCAACTCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATT
130 CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATT
* * *
12605 TCCAAAATATTGATTTTTCATAATCGAGGATACTCTAACCCCGGTTTTATTGCTAAAACACTAAG
195 CCCAAAATATTGATTTCTCATAATCGAGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAAG
12670 TTT
260 TTT
* *
12673 TCCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTTCCTTTAATCGGG
1 TCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAA-TTTT-CTATAATCGGG
* ** *
12738 GATACTCTAACTCCGATTTTATTTCC-AAAAGTACCAATTTTTCACAATCGAGGATACTCCAACC
64 GATACTCCAACTCCGATTTTATTTCCAAAAAACACCAAATTTTCACAATCGAGGATACTCCAACC
* * * * * *
12802 TCGTTATCTCTTCGGGGATACTCTAACCCCGTTACTTCCGAGGGGATACTCCAACGCCGGCTTTA
129 CCGTTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTA
* *
12867 TTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAACCCCG
193 TTCCCAAAATATTGATTTCTCATAATCGAGGATACTCCAACCCCG
12912 TTATTTTCGA
Statistics
Matches: 211, Mismatches: 25, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
263 82 0.39
264 94 0.45
265 35 0.17
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.31
Consensus pattern (262 bp):
TCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAAATTTTCACAATCGAGGATACTCCAACCCC
GTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATTC
CCAAAATATTGATTTCTCATAATCGAGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAAGT
TT
Found at i:14224 original size:20 final size:20
Alignment explanation
Indices: 14201--14250 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
14191 TCATTGTAAT
14201 GATACATGAACAAATGTATC
1 GATACATGAACAAATGTATC
14221 GATACATGAACAAATGTATC
1 GATACATGAACAAATGTATC
14241 GATACATGAA
1 GATACATGAA
14251 ACTGGCAGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.46, C:0.14, G:0.16, T:0.24
Consensus pattern (20 bp):
GATACATGAACAAATGTATC
Found at i:14315 original size:33 final size:33
Alignment explanation
Indices: 14278--14342 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
14268 TACCACTGTT
* *
14278 TGTATCGATACATGGCACAA-TGTATCGATACAA
1 TGTATCAATACAT-GAACAATTGTATCGATACAA
*
14311 TGTATCAATACATGAAGAATTGTATCGATACA
1 TGTATCAATACATGAACAATTGTATCGATACA
14343 TTGCCTCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 4 0.14
33 24 0.86
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.29
Consensus pattern (33 bp):
TGTATCAATACATGAACAATTGTATCGATACAA
Found at i:25842 original size:16 final size:16
Alignment explanation
Indices: 25798--25839 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
25788 TATTTTTTGG
*
25798 TTAAATAATTATTTTA
1 TTAAATAATTATTCTA
*
25814 TTATATAATTATTCTA
1 TTAAATAATTATTCTA
25830 TTCAAATAAT
1 TT-AAATAAT
25840 ATTGCCATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 16 0.73
17 6 0.27
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (16 bp):
TTAAATAATTATTCTA
Found at i:26891 original size:13 final size:13
Alignment explanation
Indices: 26873--26897 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26863 CAATTCATCA
26873 TGTATCGATACAT
1 TGTATCGATACAT
26886 TGTATCGATACA
1 TGTATCGATACA
26898 ATGTGCCATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:26899 original size:33 final size:33
Alignment explanation
Indices: 26853--26917 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
26843 TTTAAAGTAA
26853 TGTATCGACACAAT-T-CATCATGTATCGATACAT
1 TGTATCGACACAATGTGC--CATGTATCGATACAT
*
26886 TGTATCGATACAATGTGCCATGTATCGATACA
1 TGTATCGACACAATGTGCCATGTATCGATACA
26918 AACAGTGGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 27 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.32
Consensus pattern (33 bp):
TGTATCGACACAATGTGCCATGTATCGATACAT
Found at i:33532 original size:78 final size:78
Alignment explanation
Indices: 33404--33601 Score: 211
Period size: 79 Copynumber: 2.5 Consensus size: 78
33394 AATAACAGGG
* * * ** * *
33404 TTGGAGTGTTCCCTT-GAAAATAACGGGGCTGGAGTATCCTCGGTTGTGAGAAATCGATGA-TTA
1 TTGGAGT-ATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-ATTTA
*
33467 GAAAAAAAATCGGGA
64 GAAAAAAAACCGGGA
*
33482 TTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGG
1 TTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATA-TTTAG
* * * *
33547 GAATAAAGCCGGGG
65 AAAAAAAACCGGGA
* * *
33561 TTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCC
1 TTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCC
33602 GATGAAATAA
Statistics
Matches: 101, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
77 7 0.07
78 44 0.44
79 50 0.50
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (78 bp):
TTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTAGA
AAAAAAACCGGGA
Found at i:33612 original size:28 final size:28
Alignment explanation
Indices: 33556--33632 Score: 82
Period size: 28 Copynumber: 2.8 Consensus size: 28
33546 GGAATAAAGC
*** *
33556 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
33584 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
** * *
33612 CAAGGTTGGAGCATCCTCGAT
1 CGGGGTTGGAGTATCCCCGAT
33633 TGTGAAAAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.25, C:0.21, G:0.32, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:33685 original size:52 final size:52
Alignment explanation
Indices: 33616--33784 Score: 175
Period size: 52 Copynumber: 3.3 Consensus size: 52
33606 AAATAACAAG
* * * *
33616 GTTGGAGCATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGGAAAATTGGTATTTTTGGAAATAAAACCGGA
** * * *
33668 GTTGGAGTATCCCCGATTAAAGGAAAATTGGCA-TTTTGAAAATGAAACCAGGA
1 GTTGGAGTATCCCCGATT-GTGGAAAATTGGTATTTTTGGAAATAAAACC-GGA
* * *
33721 -TTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGCG--ATAAAACCGGA
1 GTTGGAGTATCCCCGATTGTGGAAAATTGGTATTTTTG-GAAATAAAACCGGA
33771 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
33785 TCAGAAATAA
Statistics
Matches: 95, Mismatches: 17, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
50 3 0.03
51 29 0.31
52 50 0.53
53 13 0.14
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTGTGGAAAATTGGTATTTTTGGAAATAAAACCGGA
Found at i:36286 original size:13 final size:13
Alignment explanation
Indices: 36268--36293 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
36258 ACAAAGATCC
36268 ATGTATCGATACA
1 ATGTATCGATACA
36281 ATGTATCGATACA
1 ATGTATCGATACA
36294 CAGAAAAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:36289 original size:33 final size:33
Alignment explanation
Indices: 36247--36313 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
36237 AAAATTTCCA
***
36247 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
36280 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
36313 A
1 A
36314 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:36357 original size:19 final size:18
Alignment explanation
Indices: 36333--36400 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
36323 CAGTAGCTAA
36333 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
36352 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
36367 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
36384 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
36401 TCGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:36373 original size:13 final size:13
Alignment explanation
Indices: 36355--36379 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36345 ACAATACTTA
36355 TGTATCGATACAT
1 TGTATCGATACAT
36368 TGTATCGATACA
1 TGTATCGATACA
36380 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:36377 original size:32 final size:32
Alignment explanation
Indices: 36336--36398 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
36326 TAGCTAATTA
*
36336 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
36368 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
36399 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:38541 original size:22 final size:21
Alignment explanation
Indices: 38516--38565 Score: 50
Period size: 20 Copynumber: 2.4 Consensus size: 21
38506 AAAATAAAAT
38516 AAAAAGAGAGAAGAA-AAAGCAA
1 AAAAAGAG-GAA-AAGAAAGCAA
* *
38538 AAAATG-GGAAAAGAAAGGAA
1 AAAAAGAGGAAAAGAAAGCAA
38558 AAAAAGAG
1 AAAAAGAG
38566 CATGAAAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
19 2 0.09
20 14 0.61
21 2 0.09
22 5 0.22
ACGTcount: A:0.70, C:0.02, G:0.26, T:0.02
Consensus pattern (21 bp):
AAAAAGAGGAAAAGAAAGCAA
Found at i:39721 original size:43 final size:43
Alignment explanation
Indices: 39586--39722 Score: 134
Period size: 43 Copynumber: 3.2 Consensus size: 43
39576 TTAGCATTTA
39586 CATTTGCATTTTAGATGACATTGTGTTTGCATCATTGCATGTG
1 CATTTGCATTTTAGATGACATTGTGTTTGCATCATTGCATGTG
* * ** ** * ** *
39629 CATTTGCCCCTTTGTTGATG-C-TTGCATTTGCATTGTTTCACCTA
1 CATTTG--CATTT-TAGATGACATTGTGTTTGCATCATTGCATGTG
*
39673 TATTTGCATTTTAGATGACATTGTGTTTGCATCATTGCATGTG
1 CATTTGCATTTTAGATGACATTGTGTTTGCATCATTGCATGTG
39716 CATTTGC
1 CATTTGC
39723 CCCTTGGTTG
Statistics
Matches: 67, Mismatches: 22, Indels: 10
0.68 0.22 0.10
Matches are distributed among these distances:
41 5 0.07
42 5 0.07
43 27 0.40
44 20 0.30
45 5 0.07
46 5 0.07
ACGTcount: A:0.18, C:0.18, G:0.19, T:0.45
Consensus pattern (43 bp):
CATTTGCATTTTAGATGACATTGTGTTTGCATCATTGCATGTG
Found at i:39781 original size:87 final size:87
Alignment explanation
Indices: 39586--39811 Score: 289
Period size: 87 Copynumber: 2.6 Consensus size: 87
39576 TTAGCATTTA
*
39586 CATTTGCATTTTAGATGACATTGTGTTTGCATCATTGCATGTGCATTTGCCCCTTTGTTGATGCT
1 CATTTGCATTTTAGATGACATTGTGTTTGCATCATTGCATGTGCATTTGCCCCTTGGTTGATGCT
**
39651 TGCATTTGCATTGTTTCACCTAT
66 TGCATTTGCATCATTTCA-CTAT
39674 -ATTTGCATTTTAGATGACATTGTGTTTGCATCATTGCATGTGCATTTGCCCCTTGGTTGATGCT
1 CATTTGCATTTTAGATGACATTGTGTTTGCATCATTGCATGTGCATTTGCCCCTTGGTTGATGCT
* *
39738 TGCATTTTGTATCATTTTA-TAT
66 TGCA-TTTGCATCATTTCACTAT
* * * * *
39760 GCATTTGCA-TTCAGATAACATTG-GCATTTGCATTATTTCATATGCATTTGCC
1 -CATTTGCATTTTAGATGACATTGTG--TTTGCATCATTGCATGTGCATTTGCC
39812 ACCTAATGCC
Statistics
Matches: 123, Mismatches: 10, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
86 4 0.03
87 79 0.64
88 40 0.33
ACGTcount: A:0.19, C:0.18, G:0.18, T:0.45
Consensus pattern (87 bp):
CATTTGCATTTTAGATGACATTGTGTTTGCATCATTGCATGTGCATTTGCCCCTTGGTTGATGCT
TGCATTTGCATCATTTCACTAT
Found at i:40907 original size:79 final size:78
Alignment explanation
Indices: 40824--41003 Score: 197
Period size: 78 Copynumber: 2.3 Consensus size: 78
40814 TATTTTGGAG
* *
40824 ATAAAGACGGGGTTGGAGTATCCCCTC-AAAACTAACGGGGCTGAAGTATCCTCGATT-ATGGAA
1 ATAAA-ACGGGGTTGGAGTATCCCCTCGAAAA-TAACGGGACTGAAGTATCCCCGATTGA-GGAA
*
40887 AATCGATGTTTT-GAAA
63 AATCAATGTTTTAG-AA
* * * *
40903 ATAAAACTAGGGTTGG-GTATCCCCTCGAAAATAACGGGATTGGAGTATCCCCGGTTGAGGAAAA
1 ATAAAAC-GGGGTTGGAGTATCCCCTCGAAAATAACGGGACTGAAGTATCCCCGATTGAGGAAAA
*
40967 TTAATGTTTTAGAA
65 TCAATGTTTTAGAA
*
40981 ATAAAATCGGGGTTGAAGTATCC
1 ATAAAA-CGGGGTTGGAGTATCC
41004 TCGATGGTGA
Statistics
Matches: 85, Mismatches: 10, Indels: 12
0.79 0.09 0.11
Matches are distributed among these distances:
78 60 0.71
79 25 0.29
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.26
Consensus pattern (78 bp):
ATAAAACGGGGTTGGAGTATCCCCTCGAAAATAACGGGACTGAAGTATCCCCGATTGAGGAAAAT
CAATGTTTTAGAA
Found at i:41026 original size:129 final size:130
Alignment explanation
Indices: 40859--41116 Score: 324
Period size: 130 Copynumber: 2.0 Consensus size: 130
40849 TCAAAACTAA
* * **
40859 CGGGGCTGAAGTATCCTCGATTATGGAAAATCGATGTTTTGAAAATAAAACTAG-GGTT-GGGTA
1 CGGGGCTGAAGTATCCTCGATGATGAAAAATCGATGTTTTGAAAATAAAAC-AGAGGTTAAAGTA
* *
40922 TCCCCTCGAAAATAACGGGATTGGAGTATCCCCGGTTGAGGAAAATTAATGTTTT-AGAAATAAA
65 TCCCCTCGAAAATAACGGGATCGGAGTATCCCCGATTGAGGAAAATTAATGTTTTGA-AAATAAA
40986 AT
129 AT
* * * * * *
40988 CGGGGTTGAAGTATCCTCGATGGTGAAAAATTGGTGTTTTGGAAATAAAACCGAGGTTAAAGTAT
1 CGGGGCTGAAGTATCCTCGATGATGAAAAATCGATGTTTTGAAAATAAAACAGAGGTTAAAGTAT
* * * * *
41053 CCTCTCGAAAATAACGGGGTCGGAGTATCCCTGATTGTGGAAAATTAGTGTTTTGAAAATAAAA
66 CCCCTCGAAAATAACGGGATCGGAGTATCCCCGATTGAGGAAAATTAATGTTTTGAAAATAAAA
41117 CCGAAGTTGG
Statistics
Matches: 109, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
128 1 0.01
129 48 0.44
130 59 0.54
131 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.28
Consensus pattern (130 bp):
CGGGGCTGAAGTATCCTCGATGATGAAAAATCGATGTTTTGAAAATAAAACAGAGGTTAAAGTAT
CCCCTCGAAAATAACGGGATCGGAGTATCCCCGATTGAGGAAAATTAATGTTTTGAAAATAAAAT
Found at i:41071 original size:79 final size:78
Alignment explanation
Indices: 40988--41531 Score: 550
Period size: 79 Copynumber: 6.9 Consensus size: 78
40978 GAAATAAAAT
* * ** * **
40988 CGGGGTTGAAGTATCCTCGATGGTGAAAAATTGGTGTTTTGGAAATAAAACCGAGGTTAAAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAACCGGGGTTGGAGTAT
*
41053 CCTCTCGAAAATAA
66 CCCCTC-AAAATAA
* * * * * * ** *
41067 CGGGGTCGGAGTATCCCTGATTGTGGAAAATTAGTGTTTTGAAAATAAAACCGAAGTTGGAATAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAACCGGGGTTGGAGTAT
41132 CCCCTCAGAAATAA
66 CCCCTCA-AAATAA
** * ** * * *
41146 TAGGGTTGGAGTATCCCCGATTATGGAAAATCAGTGTTTTGGAAATAAAATCGGGGTTGGAGCAA
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAACCGGGGTTGGAGTAT
*
41211 CCCTTCAGAAATAA
66 CCCCTCA-AAATAA
* *** *
41225 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGTAATAAAATTAGGGTTGGAGTGT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAACCGGGGTTGGAGTAT
* *
41290 CCTCTTGAAAATAA
66 CC-CCTCAAAATAA
* * * * * ** *
41304 C-GGGTTGGAGTATCCCCGATTGTGGAAAATCGATGTTTTGAAAATAAAATTGGGGTTGGAGCAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAACCGGGGTTGGAGTAT
*
41368 CTCCTCAGAAATAA
66 CCCCTCA-AAATAA
* * *
41382 CGGGGTTGGAGTATCCTCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTAGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAACCGGGGTTGGAGTAT
*
41447 CCCCTCAAAAATAT
66 CCCCTC-AAAATAA
* * ** ** *
41461 CGAGGTTGGACTATCCTTGATTATGAAAAATCAGTGTTTTGAAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAACCGGGGTTGGAGTAT
41526 CCCCTC
66 CCCCTC
41532 GAAAGTAAAA
Statistics
Matches: 388, Mismatches: 72, Indels: 10
0.83 0.15 0.02
Matches are distributed among these distances:
77 3 0.01
78 63 0.16
79 317 0.82
80 5 0.01
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.29
Consensus pattern (78 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAACCGGGGTTGGAGTAT
CCCCTCAAAATAA
Found at i:41359 original size:157 final size:157
Alignment explanation
Indices: 41061--41522 Score: 563
Period size: 157 Copynumber: 2.9 Consensus size: 157
41051 ATCCTCTCGA
* * * * * *
41061 AAATAACGGGGTCGGAGTATCCCTGATTGTGGAAAATTAGTGTTTT-GAAAATAAAACC-GAAGT
1 AAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAG-AAATAAAACCAG-GGT
* * * * *
41124 TGGAATATCCCCTCAGAAATAATAGGGTTGGAGTATCCCCGATTATGGAAAATCAGTGTTTTGGA
64 TAGAGTATCCCCTCAAAAATAA-CGGGTTGGAGTATCCCCGATTATGGAAAATCAGTGTTTTGAA
41189 AATAAAATCGGGGTTGGAGCAAC-CCTTCAG
128 AATAAAATCGGGGTTGGAGCAACTCC-TCAG
* * ** *
41219 AAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGTAATAAAATTAGGGTTG
1 AAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCAGGGTTA
* * ** *
41284 GAGTGTCCTCTTGAAAATAACGGGTTGGAGTATCCCCGATTGTGGAAAATC-GATGTTTTGAAAA
66 GAGTATCCCCTCAAAAATAACGGGTTGGAGTATCCCCGATTATGGAAAATCAG-TGTTTTGAAAA
* *
41348 TAAAATTGGGGTTGGAGCATCTCCTCAG
130 TAAAATCGGGGTTGGAGCAACTCCTCAG
* *
41376 AAATAACGGGGTTGGAGTATCCTCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTA
1 AAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCAGGGTTA
* * ** *
41441 GAGTATCCCCTCAAAAATATCGAGGTTGGACTATCCTTGATTATGAAAAATCAGTGTTTTGAAAA
66 GAGTATCCCCTCAAAAATAACG-GGTTGGAGTATCCCCGATTATGGAAAATCAGTGTTTTGAAAA
*
41506 TAAAACCGGGGTTGGAG
130 TAAAATCGGGGTTGGAG
41523 TATCCCCTCG
Statistics
Matches: 259, Mismatches: 39, Indels: 12
0.84 0.13 0.04
Matches are distributed among these distances:
156 1 0.00
157 137 0.53
158 118 0.46
159 3 0.01
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.29
Consensus pattern (157 bp):
AAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCAGGGTTA
GAGTATCCCCTCAAAAATAACGGGTTGGAGTATCCCCGATTATGGAAAATCAGTGTTTTGAAAAT
AAAATCGGGGTTGGAGCAACTCCTCAG
Found at i:41393 original size:236 final size:237
Alignment explanation
Indices: 40988--41535 Score: 643
Period size: 236 Copynumber: 2.3 Consensus size: 237
40978 GAAATAAAAT
* ** *
40988 CGGGGTTGAAGTATCCTCGATGGTGAAAAATTGGTGTTTTGGAAATAAAACCGAGGTTAAAGTAT
1 CGGGGTTGGAGTATCCTCGATTATGAAAAATTGGTGTTTTGGAAATAAAACAGAGGTTAAAGTAT
* *
41053 CCTCTCGAAAATAACGGGGTCGGAGTATCCCTGATTGTGGAAAATTAGTGTTTTGAAAATAAAAC
66 CCTCTCGAAAATAACGGGGTCGGAGTATCCCCGATTGTGGAAAATGAGTGTTTTGAAAATAAAAC
* * *
41118 CGAAGTTGGAATATCCCCTCAGAAATAATAGGGTTGGAGTATCCCCGATTATGGAAAATCAGTGT
131 CGAAGTTGGAACATCCCCTCAGAAATAACAGGGTTGGAGTATCCCCGATTATGAAAAATCAGTGT
* * * * *
41183 TTTGGAAATAAAATCGGGGTTGGAGCAACCCTTCAGAAATAA
196 TTTAGAAATAAAACCGGGGTTAGAGCAACCCCTCAAAAATAA
* * * ** *
41225 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGTAATAAAATTAG-GGTTGGAGTG
1 CGGGGTTGGAGTATCCTCGATTATGAAAAATTGGTGTTTTGGAAATAAAA-CAGAGGTTAAAGTA
* *
41289 TCCTCTTGAAAATAAC-GGGTTGGAGTATCCCCGATTGTGGAAAATCGA-TGTTTTGAAAATAAA
65 TCCTCTCGAAAATAACGGGGTCGGAGTATCCCCGATTGTGGAAAAT-GAGTGTTTTGAAAATAAA
** ** * * * * **
41352 ATTGGGGTTGGAGCATCTCCTCAGAAATAACGGGGTTGGAGTATCCTCGATTATGAAAAATTGGT
129 ACCGAAGTTGGAACATCCCCTCAGAAATAACAGGGTTGGAGTATCCCCGATTATGAAAAATCAGT
* * *
41417 GTTTTAGAAATAAAACCGGGGTTAGAGTATCCCCTCAAAAATAT
194 GTTTTAGAAATAAAACCGGGGTTAGAGCAACCCCTCAAAAATAA
* * * ** * * * **
41461 CGAGGTTGGACTATCCTTGATTATGAAAAATCAGTGTTTTGAAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCTCGATTATGAAAAATTGGTGTTTTGGAAATAAAACAGAGGTTAAAGTAT
*
41526 CCCCTCGAAA
66 CCTCTCGAAA
41536 GTAAAAACAT
Statistics
Matches: 260, Mismatches: 48, Indels: 7
0.83 0.15 0.02
Matches are distributed among these distances:
235 1 0.00
236 190 0.73
237 68 0.26
238 1 0.00
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (237 bp):
CGGGGTTGGAGTATCCTCGATTATGAAAAATTGGTGTTTTGGAAATAAAACAGAGGTTAAAGTAT
CCTCTCGAAAATAACGGGGTCGGAGTATCCCCGATTGTGGAAAATGAGTGTTTTGAAAATAAAAC
CGAAGTTGGAACATCCCCTCAGAAATAACAGGGTTGGAGTATCCCCGATTATGAAAAATCAGTGT
TTTAGAAATAAAACCGGGGTTAGAGCAACCCCTCAAAAATAA
Found at i:44541 original size:34 final size:34
Alignment explanation
Indices: 44480--44593 Score: 122
Period size: 34 Copynumber: 3.3 Consensus size: 34
44470 TTAGAAGGGG
* * *
44480 AAAGGAAATGAAGGGACGT-CTTGCTCTTTGAGGAC
1 AAAGGAAAAGAA-GTACGTCCTT-CTCTTCGAGGAC
* *
44515 AAAGGAAAAGGAGTACGTCCTTCTCTTCGAGGAT
1 AAAGGAAAAGAAGTACGTCCTTCTCTTCGAGGAC
* * * *
44549 AAAGGGAAAGAAGTATGCCCTGCTCTTCGAGGAC
1 AAAGGAAAAGAAGTACGTCCTTCTCTTCGAGGAC
44583 AAAGGAAAAGA
1 AAAGGAAAAGA
44594 GAATGAAATG
Statistics
Matches: 66, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
34 53 0.80
35 13 0.20
ACGTcount: A:0.36, C:0.16, G:0.29, T:0.19
Consensus pattern (34 bp):
AAAGGAAAAGAAGTACGTCCTTCTCTTCGAGGAC
Found at i:44624 original size:40 final size:42
Alignment explanation
Indices: 44569--44681 Score: 151
Period size: 41 Copynumber: 2.7 Consensus size: 42
44559 AAGTATGCCC
* * **
44569 TGCTCTTCGAGGACAAAGGAAAAGA-G-AATGAAATGGGTCA
1 TGCTCTTTGAGGACAAAGGAAAAGAGGAAATAAAATACGTCA
44609 TGCTCTTTGAGGACAAAGGAAAA-AGGAAATAAAATACGTCA
1 TGCTCTTTGAGGACAAAGGAAAAGAGGAAATAAAATACGTCA
*
44650 TGCTTTTTGAGGACAAAGGAAAAGAAGGAAAT
1 TGCTCTTTGAGGACAAAGGAAAAG-AGGAAAT
44682 TAAAGCGCGT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
39 1 0.02
40 23 0.36
41 33 0.52
43 7 0.11
ACGTcount: A:0.43, C:0.11, G:0.27, T:0.19
Consensus pattern (42 bp):
TGCTCTTTGAGGACAAAGGAAAAGAGGAAATAAAATACGTCA
Found at i:44784 original size:61 final size:60
Alignment explanation
Indices: 44683--45022 Score: 403
Period size: 61 Copynumber: 5.5 Consensus size: 60
44673 GAAGGAAATT
* * **
44683 AAAGCGCGTCCTGCTCTTTGGGGACTAGAAGGCGCCACCAACTTGTGTGGGCTTTGCAAGGA
1 AAAG-GCGTCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* * ** *
44745 GAAA-GCGTCTTGCTCTTTGAGGACTAAATGGTGCTACCAACTCATGTGGGATTTAAAAGGA
1 -AAAGGCGTCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* * *
44806 AAAGGTGTCCTGCTCTTTGAGGACTGAAAGATGCCACCAACTTGTGTAGGCTTTAAAAGGA
1 AAAGGCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* * *
44867 AAAGGCGTCCTGCTCTTTGAGGAATAAAAGGTGCCACCAACTTGTATGGGCTTTAAAATGA
1 AAAGGCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* * * *
44928 AAAGATGTGTCCTGCTTTTTGAGGACTAAAATGTGCCACCAATTTGTGTGGGCTTTAAAAGGA
1 AAAG--GCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
*
44991 AAAGACGTCCTGCTCTTTGAGGACTGAAAGGT
1 AAAGGCGTCCTGCTCTTTGAGGACT-AAAGGT
45023 TAAAAGGTTT
Statistics
Matches: 236, Mismatches: 36, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
60 5 0.02
61 171 0.72
62 3 0.01
63 57 0.24
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (60 bp):
AAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
Found at i:47791 original size:48 final size:48
Alignment explanation
Indices: 47735--47843 Score: 146
Period size: 48 Copynumber: 2.3 Consensus size: 48
47725 TTGACTGTAT
* * * *
47735 CTGGTCAAACTCTTTTCATCTCTTATTTAACTGTATTGGTGTTAGGGC
1 CTGGTCAAACTCTTTTCATCCCTCATTTAACTGTATTGATGTTAAGGC
* * *
47783 CTGGTCAAATTCTTTTCATCCCTCGTTTGACTGTATTGATGTTAAGGC
1 CTGGTCAAACTCTTTTCATCCCTCATTTAACTGTATTGATGTTAAGGC
*
47831 CTAGTCAAACTCT
1 CTGGTCAAACTCT
47844 CATTTTTCTT
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.20, C:0.21, G:0.17, T:0.41
Consensus pattern (48 bp):
CTGGTCAAACTCTTTTCATCCCTCATTTAACTGTATTGATGTTAAGGC
Found at i:47955 original size:89 final size:88
Alignment explanation
Indices: 47857--48322 Score: 528
Period size: 88 Copynumber: 5.3 Consensus size: 88
47847 TTTTCTTGTC
* * *
47857 TGACATATGGTTACCACCCTGCTCAGATTTCTTTTCATTCTAATTTGACGTATGGTTACCACCTT
1 TGACGTATGGTTACCACCCTGGTCAGA-TTCTTTTCATTCTGATTTGACGTATGGTTACCACCTT
* *
47922 GGTCAAATTTGCCTCCTTCTTGTA
65 GGTCAAATCTGCCTCCTTCCTGTA
* *
47946 TGATGTATGGTTACCACCCTGGTCAAATTTCTTTTCATT-TCGATTTGACGTATGGTTACCACCT
1 TGACGTATGGTTACCACCCTGGTCAGA-TTCTTTTCATTCT-GATTTGACGTATGGTTACCACCT
* *
48010 TGGTCAAATTTGCCTCATTCCTGTA
64 TGGTCAAATCTGCCTCCTTCCTGTA
* * * * * * *
48035 TGACATAAGGTTATCACCTTGGTTAGATTCTTTTAATTCTGATTTGACGTGTGGTTACCATCC-T
1 TGACGTATGGTTACCACCCTGGTCAGATTCTTTTCATTCTGATTTGACGTATGGTTACCA-CCTT
* * * * * *
48099 GGTTAAGTGTGCCTTCTTCTTGTC
65 GGTCAAATCTGCCTCCTTCCTGTA
* ** * *
48123 TGACGTATGGTTACCACCTTATTCAGATTCTTTTCA-TCTCGATTTGACGTGTGGTTACCACCCT
1 TGACGTATGGTTACCACCCTGGTCAGATTCTTTTCATTCT-GATTTGACGTATGGTTACCACCTT
* * *
48187 GGTCAAATCTGCCTTCTTCCTATT
65 GGTCAAATCTGCCTCCTTCCTGTA
* *
48211 TGACGTATGGTTACCACCCTGGTCAGATTC-TTTCATTCTGATTTGATGTATGGTTACCA-TTCT
1 TGACGTATGGTTACCACCCTGGTCAGATTCTTTTCATTCTGATTTGACGTATGGTTACCACCT-T
* *
48274 GGTCAAATCTGCCTCCTTCCTATC
65 GGTCAAATCTGCCTCCTTCCTGTA
*
48298 TGACGTATGGTTACCACCCTAGTCA
1 TGACGTATGGTTACCACCCTGGTCA
48323 AACGATTAGC
Statistics
Matches: 324, Mismatches: 46, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
87 75 0.23
88 146 0.45
89 103 0.32
ACGTcount: A:0.19, C:0.24, G:0.17, T:0.40
Consensus pattern (88 bp):
TGACGTATGGTTACCACCCTGGTCAGATTCTTTTCATTCTGATTTGACGTATGGTTACCACCTTG
GTCAAATCTGCCTCCTTCCTGTA
Found at i:47962 original size:44 final size:44
Alignment explanation
Indices: 47849--48324 Score: 215
Period size: 44 Copynumber: 10.8 Consensus size: 44
47839 ACTCTCATTT
* * * * * *
47849 TTCTTGTCTGACATATGGTTACCACCCTGCTCAGATTT-CTTTTCA
1 TTCTTGTATGACGTATGGTTACCACCTTGGTCAAATTTGC--CTCA
** * *
47894 TTCTAATTTGACGTATGGTTACCACCTTGGTCAAATTTGCCTCC
1 TTCTTGTATGACGTATGGTTACCACCTTGGTCAAATTTGCCTCA
* * *
47938 TTCTTGTATGATGTATGGTTACCACCCTGGTCAAATTT-CTTTTCA
1 TTCTTGTATGACGTATGGTTACCACCTTGGTCAAATTTGC--CTCA
* *
47983 TT-TCGATTTGACGTATGGTTACCACCTTGGTCAAATTTGCCTCA
1 TTCTTG-TATGACGTATGGTTACCACCTTGGTCAAATTTGCCTCA
* * * * * * ** *
48027 TTCCTGTATGACATAAGGTTATCACCTTGGTTAGATTCT-TTTAA
1 TTCTTGTATGACGTATGGTTACCACCTTGGTCAAATT-TGCCTCA
* * * * *
48071 TTC-TGATTTGACGTGTGGTTACCATCC-TGGTTAAGTGTGCCTTC-
1 TTCTTG-TATGACGTATGGTTACCA-CCTTGGTCAAATTTGCC-TCA
* ** * **
48115 TTCTTGTCTGACGTATGGTTACCACCTTATTCAGATTCT-TTTCA
1 TTCTTGTATGACGTATGGTTACCACCTTGGTCAAATT-TGCCTCA
* * * * *
48159 -TCTCGATTTGACGTGTGGTTACCACCCTGGTCAAATCTGCCTTC-
1 TTCTTG-TATGACGTATGGTTACCACCTTGGTCAAATTTGCC-TCA
* * * * * *
48203 TTCCTATTTGACGTATGGTTACCACCCTGGTCAGA-TT-CTTTCA
1 TTCTTGTATGACGTATGGTTACCACCTTGGTCAAATTTGC-CTCA
* * * * *
48246 TTC-TGATTTGATGTATGGTTACCA-TTCTGGTCAAATCTGCCTCC
1 TTCTTG-TATGACGTATGGTTACCACCT-TGGTCAAATTTGCCTCA
* * * * *
48290 TTCCTATCTGACGTATGGTTACCACCCTAGTCAAA
1 TTCTTGTATGACGTATGGTTACCACCTTGGTCAAA
48325 CGATTAGCAT
Statistics
Matches: 320, Mismatches: 84, Indels: 55
0.70 0.18 0.12
Matches are distributed among these distances:
42 4 0.01
43 41 0.13
44 195 0.61
45 78 0.24
46 2 0.01
ACGTcount: A:0.19, C:0.24, G:0.17, T:0.40
Consensus pattern (44 bp):
TTCTTGTATGACGTATGGTTACCACCTTGGTCAAATTTGCCTCA
Found at i:48519 original size:42 final size:42
Alignment explanation
Indices: 48419--48520 Score: 107
Period size: 42 Copynumber: 2.4 Consensus size: 42
48409 TCTACCCATC
* * * * *
48419 GGCTTAAACTCGAGAGACTTTTTTATCTTTTATTTGCCCATG
1 GGCTCAAACTCGGGAGACTTCTTTATCCTTTATTTGCCAATG
* ** *
48461 GGTTCAAACTTTGGAGACTTCTTTATCCTTTGTTTGCCTAAT-
1 GGCTCAAACTCGGGAGACTTCTTTATCCTTTATTTGCC-AATG
48503 GGCTCAAACTCGGGAGAC
1 GGCTCAAACTCGGGAGAC
48521 AAGACCCGAG
Statistics
Matches: 47, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
42 45 0.96
43 2 0.04
ACGTcount: A:0.22, C:0.21, G:0.20, T:0.38
Consensus pattern (42 bp):
GGCTCAAACTCGGGAGACTTCTTTATCCTTTATTTGCCAATG
Found at i:48650 original size:42 final size:42
Alignment explanation
Indices: 48604--49010 Score: 336
Period size: 42 Copynumber: 9.7 Consensus size: 42
48594 TACCTGCCAG
* * *
48604 CTTTGACCCGAGAGACTCTTTCACCCTTTGTCTGCTCGTCGA
1 CTTTGACCCGAGAGACTCTTTCACCCTTTCTCTGCCCATCGA
* * * ** * * * *
48646 CTTTGACTC-AGGAGATTTTTTCACTATTTTTCTGTCCGTTGA
1 CTTTGACCCGA-GAGACTCTTTCACCCTTTCTCTGCCCATCGA
* * ** * *
48688 CTTTGACTCGAGAGACTCCTTCACCCTTTCTCTGTTCATTGG
1 CTTTGACCCGAGAGACTCTTTCACCCTTTCTCTGCCCATCGA
* * *
48730 CTTTAACCCGGGAGACTCCTTCACCCTTTCTCTGCCCATCGA
1 CTTTGACCCGAGAGACTCTTTCACCCTTTCTCTGCCCATCGA
* * * * * *
48772 TTTTGACTCGAGAGGCTCCTTCACGCTTTCTCTGCCCATCGG
1 CTTTGACCCGAGAGACTCTTTCACCCTTTCTCTGCCCATCGA
* * * * *
48814 CTTTAACCCGGGAGACTCCTTCACCCTTTCTCTGCTCGTCGA
1 CTTTGACCCGAGAGACTCTTTCACCCTTTCTCTGCCCATCGA
* * * *
48856 CTTTGACCCGAGAGACTCTTTCACCATTTTTTTGCCCATCGG
1 CTTTGACCCGAGAGACTCTTTCACCCTTTCTCTGCCCATCGA
* * * *
48898 CTTTGACCCGAGAGAC-CGCTTCACCCTTTCTTTGCCTATTGA
1 CTTTGACCCGAGAGACTC-TTTCACCCTTTCTCTGCCCATCGA
* * *
48940 CTTTGACCCGAGAGACT-TCTTCACCATTT-TCTTACCCATCGG
1 CTTTGACCCGAGAGACTCT-TTCACCCTTTCTC-TGCCCATCGA
* * *
48982 CTTTGACTCGGGAGACTCTTTCAACCTTT
1 CTTTGACCCGAGAGACTCTTTCACCCTTT
49011 GCCTGCCTGT
Statistics
Matches: 291, Mismatches: 67, Indels: 14
0.78 0.18 0.04
Matches are distributed among these distances:
41 3 0.01
42 286 0.98
43 2 0.01
ACGTcount: A:0.16, C:0.32, G:0.17, T:0.35
Consensus pattern (42 bp):
CTTTGACCCGAGAGACTCTTTCACCCTTTCTCTGCCCATCGA
Found at i:48753 original size:84 final size:83
Alignment explanation
Indices: 48523--49010 Score: 388
Period size: 84 Copynumber: 5.8 Consensus size: 83
48513 CGGGAGACAA
* * * * * ** ** * *
48523 GACCCGAGAGACTTCCTTTATCTTTTATCTGCTCATCGGCTTCGACTTGGGAGACTCTTTTACCC
1 GACCCGAGAGAC-TCCTTCACCCTTTCTCTGCCCATCGGCTTTAACCCGGGAGACTCCTTCACCC
* * *
48588 TTTGTCTACC-TGCCAGCTTT
65 TTTCTCTGCCAT-CGA-CTTT
* * * * * * * * * ** **
48608 GACCCGAGAGACTCTTTCACCCTTTGTCTGCTCGTCGACTTTGACTCAGGAGATTTTTTCACTAT
1 GACCCGAGAGACTCCTTCACCCTTTCTCTGCCCATCGGCTTTAACCCGGGAGACTCCTTCACCCT
* * *
48673 TTTTCTGTCCGTTGACTTT
66 TTCTCTG-CCATCGACTTT
* ** *
48692 GACTCGAGAGACTCCTTCACCCTTTCTCTGTTCATTGGCTTTAACCCGGGAGACTCCTTCACCCT
1 GACCCGAGAGACTCCTTCACCCTTTCTCTGCCCATCGGCTTTAACCCGGGAGACTCCTTCACCCT
*
48757 TTCTCTGCCCATCGATTTT
66 TTCTCTG-CCATCGACTTT
* * *
48776 GACTCGAGAGGCTCCTTCACGCTTTCTCTGCCCATCGGCTTTAACCCGGGAGACTCCTTCACCCT
1 GACCCGAGAGACTCCTTCACCCTTTCTCTGCCCATCGGCTTTAACCCGGGAGACTCCTTCACCCT
*
48841 TTCTCTGCTCGTCGACTTT
66 TTCTCTGC-CATCGACTTT
* * * * * *
48860 GACCCGAGAGACTCTTTCACCATTTTTTTGCCCATCGGCTTTGACCCGAGAGAC-CGCTTCACCC
1 GACCCGAGAGACTCCTTCACCCTTTCTCTGCCCATCGGCTTTAACCCGGGAGACTC-CTTCACCC
* *
48924 TTTCTTTGCCTATTGACTTT
65 TTTCTCTGCC-ATCGACTTT
* * * * * * *
48944 GACCCGAGAGACTTCTTCACCATTT-TCTTACCCATCGGCTTTGACTCGGGAGACTCTTTCAACC
1 GACCCGAGAGACTCCTTCACCCTTTCTC-TGCCCATCGGCTTTAACCCGGGAGACTCCTTCACCC
49008 TTT
65 TTT
49011 GCCTGCCTGT
Statistics
Matches: 330, Mismatches: 66, Indels: 15
0.80 0.16 0.04
Matches are distributed among these distances:
83 4 0.01
84 309 0.94
85 16 0.05
86 1 0.00
ACGTcount: A:0.16, C:0.32, G:0.17, T:0.35
Consensus pattern (83 bp):
GACCCGAGAGACTCCTTCACCCTTTCTCTGCCCATCGGCTTTAACCCGGGAGACTCCTTCACCCT
TTCTCTGCCATCGACTTT
Found at i:50305 original size:166 final size:165
Alignment explanation
Indices: 50113--50473 Score: 383
Period size: 167 Copynumber: 2.2 Consensus size: 165
50103 TTCATACATC
* * * * * *
50113 AAAATTTC-TCAAATATTATCATTTAATTCCTATCAAATCAGTTTTGAGAAATTTCCTTTATTTT
1 AAAA-TTCATCAAATATTATCATTTAATTCATATCAAATCAGTTCTCA-AAAATTCATTCATTTT
** * * ** *
50177 -TGGAGTTATTG-ATTTTCTTT-C-GGAATTCCTCATGTTTTCAAATTACGGGGTTTTCTTCTTC
64 ATAAAATT-TTGAATTTT-TTTCCAGAAATTCCTC-TGTTTTCAAA-TACGGGGTTTTCCACTCC
*
50238 G-AAAATTTTTTTAGGAGGATTTTTCTTGGTTTTTAATTTTT
125 GTAAAATTTTTTGAGG-GGATTTTTCTTGGTTTTTAATTTTT
* * ** *
50279 AAAATTCATCAAATATTCTTATTTAATTCATATTTAATTAGTTCTCAAAAATTCATTCATTTTCA
1 AAAATTCATCAAATATTATCATTTAATTCATATCAAATCAGTTCTCAAAAATTCATTCATTTT-A
* * * *
50344 TAAAATTTTGAATTTTTTTCCTAGAAATTCTTCTTTTTTGAAATACGGTGTTTTCCACTCCGTAA
65 TAAAATTTTGAATTTTTTTCC-AGAAATTCCTCTGTTTTCAAATACGGGGTTTTCCACTCCGTAA
50409 AATTTTTTGAGGGGATTTTTCTTGGTTTTTAATTTTT
129 AATTTTTTGAGGGGATTTTTCTTGGTTTTTAATTTTT
*
50446 AAAATTCATCAAATATCATCATTTAATT
1 AAAATTCATCAAATATTATCATTTAATT
50474 TACATTAAAT
Statistics
Matches: 161, Mismatches: 26, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
165 16 0.10
166 41 0.25
167 75 0.47
168 21 0.13
169 8 0.05
ACGTcount: A:0.28, C:0.12, G:0.10, T:0.50
Consensus pattern (165 bp):
AAAATTCATCAAATATTATCATTTAATTCATATCAAATCAGTTCTCAAAAATTCATTCATTTTAT
AAAATTTTGAATTTTTTTCCAGAAATTCCTCTGTTTTCAAATACGGGGTTTTCCACTCCGTAAAA
TTTTTTGAGGGGATTTTTCTTGGTTTTTAATTTTT
Found at i:50755 original size:160 final size:162
Alignment explanation
Indices: 50476--50909 Score: 504
Period size: 160 Copynumber: 2.6 Consensus size: 162
50466 ATTTAATTTA
*
50476 CATTAAATCAA-TTTGAAAATTTAACTCATTTTCATGAGTTTTGGATTTTTTTTCTTTGAAATCT
1 CATTAAATCAATTTTGAAAATTTAATTCA-TTTCATGAGTTTTGGA--TTTTTTCTTTGAAATC-
* * * *
50540 CC-TTTTTC-CCAAAAAACTGAGTTTTCTATTCTATAAATATTTTCGAGGAGATTTTCTTTGGTC
62 CCTTTTTTCTCGAAAAATC-AAGTTTTCTATTCCATAAATATTTTCGAGGAGATTTTCTTTGGTC
*
50603 AAAAATTTTTAAAATGTA-T-AATTTCATGGAATTCC
126 AAAAATTTTTAAAATGTACTAAATGTCATGGAATTCC
* ***
50638 TATTAAATTTGTTTTGAAAATTTAATTCATATTCATGAGTTTTGGATTTTTT-TTTGAAATCCCT
1 CATTAAATCAATTTTGAAAATTTAATTCAT-TTCATGAGTTTTGGATTTTTTCTTTGAAATCCCT
* * *
50702 TTTTTCTCGAAAAATCAAGTTTTCTATTCCATAAATATTTTCGTGGGGATTTTCTTTGGTCTAAA
65 TTTTTCTCGAAAAATCAAGTTTTCTATTCCATAAATATTTTCGAGGAGATTTTCTTTGGTCAAAA
50767 ATTTTTAAAATGTATCTAAAAATGTCATGGAATTCC
130 ATTTTTAAAATGTA-CT--AAATGTCATGGAATTCC
* ** * *
50803 CATTATATCAATTTTGAAAATTTAATTCACTTTCATGAGTTTTTTTATTTTTTCCTTGAAATGCC
1 CATTAAATCAATTTTGAAAATTTAATTCA-TTTCATGAG-TTTTGGATTTTTTCTTTGAAATCCC
* * * * *
50868 TATCTTCTCGAAAAACTGAA-TTTTCTACTCCATAATTATTTT
64 TTTTTTCTCGAAAAA-TCAAGTTTTCTATTCCATAAATATTTT
50910 TAGGGAGATT
Statistics
Matches: 232, Mismatches: 27, Indels: 21
0.83 0.10 0.08
Matches are distributed among these distances:
159 2 0.01
160 73 0.31
161 13 0.06
162 9 0.04
163 31 0.13
165 47 0.20
166 12 0.05
167 42 0.18
168 3 0.01
ACGTcount: A:0.30, C:0.13, G:0.10, T:0.47
Consensus pattern (162 bp):
CATTAAATCAATTTTGAAAATTTAATTCATTTCATGAGTTTTGGATTTTTTCTTTGAAATCCCTT
TTTTCTCGAAAAATCAAGTTTTCTATTCCATAAATATTTTCGAGGAGATTTTCTTTGGTCAAAAA
TTTTTAAAATGTACTAAATGTCATGGAATTCC
Found at i:50972 original size:167 final size:164
Alignment explanation
Indices: 50476--50997 Score: 451
Period size: 167 Copynumber: 3.2 Consensus size: 164
50466 ATTTAATTTA
* *
50476 CATTAAATCAA-TTTGAAAATTTAACTCATTTTCATGAGTTTTGGATTTTTTTTCTTTGAAATCT
1 CATTAAATCAATTTTGAAAATTTAATTCATATTCATGAGTTTTGGA--TTTTTTC-TTGAAATC-
* * * * * * *
50540 CCT-TTTTC-CCAAAAAACTGAGTTTTCTATTCTATAAATATTTTC-GAGGAGATTTTCTTTGGT
62 CCTATCTTCTCGAAAAATC-AAGTTTTCTACTCCATAAATATTTTCTG-GG-GATTTTCTTTGAT
* *
50602 CAAAAATTTTTAAAATGTA--T---AATTTCATGGAATTCC
124 CTAAAATTTTTAAAATGTATCTAAAAATGTCATGGAATTCC
* *** * *
50638 TATTAAATTTGTTTTGAAAATTTAATTCATATTCATGAGTTTTGGATTTTTTTTTGAAATCCCTT
1 CATTAAATCAATTTTGAAAATTTAATTCATATTCATGAGTTTTGGATTTTTTCTTGAAATCCCTA
* * *
50703 TTTTCTCGAAAAATCAAGTTTTCTATTCCATAAATATTTTCGTGGGGATTTTCTTTGGTCTAAAA
66 TCTTCTCGAAAAATCAAGTTTTCTACTCCATAAATATTTTC-TGGGGATTTTCTTTGATCTAAAA
50768 TTTTTAAAATGTATCTAAAAATGTCATGGAATTCC
130 TTTTTAAAATGTATCTAAAAATGTCATGGAATTCC
* ** *
50803 CATTATATCAATTTTGAAAATTTAATTCACT-TTCATGAGTTTTTTTATTTTTTCCTTGAAATGC
1 CATTAAATCAATTTTGAAAATTTAATTCA-TATTCATGAG-TTTTGGATTTTTT-CTTGAAATCC
* *
50867 CTATCTTCTCGAAAAACTGAA-TTTTCTACTCCATAATTATTTT-TAGGGAGATTTT-TCTTGAT
63 CTATCTTCTCGAAAAA-TCAAGTTTTCTACTCCATAAATATTTTCT-GGG-GATTTTCT-TTGAT
* * * * * * ** *
50929 TTAAATTTTTTTAAAT-TCATCTAATATTGTTATTTAGTTCC
124 CTAAAATTTTTAAAATGT-ATCTAAAAATGTCATGGAATTCC
* * *
50970 CATTAAATTAGTTTTGCAAAATTCAATT
1 CATTAAATCAATTTTG-AAAATTTAATT
50998 TATTTTTTTG
Statistics
Matches: 300, Mismatches: 41, Indels: 32
0.80 0.11 0.09
Matches are distributed among these distances:
159 3 0.01
160 68 0.23
161 15 0.05
162 9 0.03
163 32 0.11
165 48 0.16
166 17 0.06
167 95 0.32
168 13 0.04
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.48
Consensus pattern (164 bp):
CATTAAATCAATTTTGAAAATTTAATTCATATTCATGAGTTTTGGATTTTTTCTTGAAATCCCTA
TCTTCTCGAAAAATCAAGTTTTCTACTCCATAAATATTTTCTGGGGATTTTCTTTGATCTAAAAT
TTTTAAAATGTATCTAAAAATGTCATGGAATTCC
Found at i:51612 original size:12 final size:12
Alignment explanation
Indices: 51595--51619 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
51585 AAGGAAAAAT
51595 AGAAAAAAAGAA
1 AGAAAAAAAGAA
51607 AGAAAAAAAGAA
1 AGAAAAAAAGAA
51619 A
1 A
51620 AATGAGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (12 bp):
AGAAAAAAAGAA
Found at i:51629 original size:20 final size:20
Alignment explanation
Indices: 51588--51635 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
51578 GAGAGTGAAG
*
51588 GAAAAATAGAAAAAAAGAAA
1 GAAAAAAAGAAAAAAAGAAA
*
51608 GAAAAAAAG-AAAAATGAGAA
1 GAAAAAAAGAAAAAAAGA-AA
51628 GAAAAAAA
1 GAAAAAAA
51636 CTAAGGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 7 0.28
20 18 0.72
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.04
Consensus pattern (20 bp):
GAAAAAAAGAAAAAAAGAAA
Found at i:54043 original size:155 final size:154
Alignment explanation
Indices: 53846--54386 Score: 455
Period size: 155 Copynumber: 3.5 Consensus size: 154
53836 GCTTTTACGT
* * * * * * *
53846 CGAAGGTGGGTGTTTAGGATAGGTTCAT-CC-TTTCTATGATCCTTTTAAGTCCTTTAGGGGTGC
1 CGAAAGTGGGTATTTAGGATAGGTTCATCCCATTT-TGTAATCCTTTTAAGTTCTTTAGGGATGT
* * * ** *
53909 CGGGTACTTTTATGCCAAAGCTATCCCCTAAGGGTATTTTTTTAATTTTCTAGAACTAAGTCTTA
65 CGGGTACTTTTACGTCAAAGATATCCCCTAAGGGTATTTTAGTAATTTTCTAGAACTAAG-CCTA
*
53974 GGTTTTCACCAAGTTCGCTTTAATAC
129 GGTTGTCACCAAGTTCGCTTTAATAC
* * * *
54000 TGAAAGTGGGTATTTAGGATAGGTTCATCCCATTTTGTAATCCTTTTTTAGTTCTTTAAGGATAT
1 CGAAAGTGGGTATTTAGGATAGGTTCATCCCATTTTGTAATCC-TTTTAAGTTCTTTAGGGATGT
* * * * * *
54065 CGGGCACTTCTACGTCAAAGATATTCCCT-AGGGTTATTTTAGTAATTTTTTAGATCTGAGCCTA
65 CGGGTACTTTTACGTCAAAGATATCCCCTAAGGG-TATTTTAGTAATTTTCTAGAACTAAGCCTA
* * * * *
54129 GGTTGTCATCGAGTTTGCTTTTATGC
129 GGTTGTCACCAAGTTCGCTTTAATAC
* * * *
54155 CGAAGGTGGGCATTTAGGATAGGTTCATCCCATTTTGTAATCTTTTTTAAGTTTTTTAGGGATGT
1 CGAAAGTGGGTATTTAGGATAGGTTCATCCCATTTTGTAATC-CTTTTAAGTTCTTTAGGGATGT
* * * * * * * **
54220 CGGGTACTATAACGTCGAAGGTATCCCCTATGGGTATTTTCGTATTTTTC-AGAACCGAGTCCTA
65 CGGGTACTTTTACGTCAAAGATATCCCCTAAGGGTATTTTAGTAATTTTCTAGAACTAAG-CCTA
* * * * * * *
54284 GGTTGTTACTAGGTCCGTTTTTATGC
129 GGTTGTCACCAAGTTCGCTTTAATAC
* * * * * * *
54310 C-AAAGGTGAGCATTTAGGATAGGTTTAGCCCA-TTTGTTATCCTTTTTAAGTTCTTTAGGGGTA
1 CGAAA-GTGGGTATTTAGGATAGGTTCATCCCATTTTGTAATCC-TTTTAAGTTCTTTAGGGATG
*
54373 TCAGGTACTTTTAC
64 TCGGGTACTTTTAC
54387 ATTGAAGGTG
Statistics
Matches: 308, Mismatches: 70, Indels: 18
0.78 0.18 0.05
Matches are distributed among these distances:
154 70 0.23
155 173 0.56
156 65 0.21
ACGTcount: A:0.22, C:0.16, G:0.22, T:0.40
Consensus pattern (154 bp):
CGAAAGTGGGTATTTAGGATAGGTTCATCCCATTTTGTAATCCTTTTAAGTTCTTTAGGGATGTC
GGGTACTTTTACGTCAAAGATATCCCCTAAGGGTATTTTAGTAATTTTCTAGAACTAAGCCTAGG
TTGTCACCAAGTTCGCTTTAATAC
Found at i:54422 original size:309 final size:309
Alignment explanation
Indices: 53785--54423 Score: 639
Period size: 309 Copynumber: 2.1 Consensus size: 309
53775 TATCCTCAGA
* *
53785 GGGCATTTTTATAATTTTTTTAGAATCGAGTCCTAGGTTGTCTTCGTATCTGCTTTTACGTCGAA
1 GGGCA-TTTTATAA-TTTTTTAGAATCGAGTCCTAGGTTGTCATCGTATCTGCTTTTACGCCGAA
** * *
53850 GGTGGGTGTTTAGGATAGGTTCATCCTTTCTATGATCCTTTTAAGTCCTTTAGGGGTGCCGGGTA
64 GGTGGGCATTTAGGATAGGTTCATCCTTTCTATAATCCTTTTAAGTCCTTTAGGGATGCCGGGTA
* * * ** * *
53915 CTTTTATGCCAAAGCTATCCCCTAAGGGTATTTTTTTAATTTTCTAGAACTAAGTCTTAGGTTTT
129 CTATAACGCCAAAGCTATCCCCTAAGGGTATTTTCGTAATTTTCTAGAACCAAGTCCTAGGTTTT
* * * * *
53980 CACCAAGTTCGCTTTAATACTGAAAGTGGGTATTTAGGATAGGTTCATCCCATTTTGTAATCCTT
194 CACCAAGTCCGCTTTAATACTCAAAGTGAGCATTTAGGATAGGTTCAGCCCATTTTGTAATCCTT
* * *
54045 TTTTAGTTCTTTAAGGATATCGGGCACTTCTACGTCAAAGATATTCCCTAG
259 TTTAAGTTCTTTAAGGATATCAGGCACTTCTACATCAAAGATATTCCCTAG
** * *
54096 GGTTATTTTAGTAATTTTTTAG-ATCTGAG-CCTAGGTTGTCATCG-AGTTTGCTTTTATGCCGA
1 GGGCATTTTA-TAATTTTTTAGAATC-GAGTCCTAGGTTGTCATCGTA-TCTGCTTTTACGCCGA
* * ** *
54158 AGGTGGGCATTTAGGATAGGTTCATCCCATTT-TGTAATCTTTTTTAAGTTTTTTAGGGATGTCG
63 AGGTGGGCATTTAGGATAGGTTCAT-CC-TTTCTATAATC-CTTTTAAGTCCTTTAGGGATGCCG
* * * * * *
54222 GGTACTATAACGTCGAAGGTATCCCCTATGGGTATTTTCGTATTTTTC-AGAACCGAGTCCTAGG
125 GGTACTATAACGCCAAAGCTATCCCCTAAGGGTATTTTCGTAATTTTCTAGAACCAAGTCCTAGG
* * * * * * *
54286 TTGTT-ACTAGGTCCGTTTTTATGC-CAAAGGTGAGCATTTAGGATAGGTTTAGCCCA-TTTGTT
190 TT-TTCACCAAGTCCGCTTTAATACTCAAA-GTGAGCATTTAGGATAGGTTCAGCCCATTTTGTA
* * * * ** * * *
54348 ATCCTTTTTAAGTTCTTTAGGGGTATCAGGTACTTTTACATTGAAGGT-GTCTCCTCG
253 ATCCTTTTTAAGTTCTTTAAGGATATCAGGCACTTCTACATCAAAGATATTC-CCTAG
54405 GGGCATTTTCATAATTTTT
1 GGGCATTTT-ATAATTTTT
54424 CTTGAACTTA
Statistics
Matches: 264, Mismatches: 54, Indels: 22
0.78 0.16 0.06
Matches are distributed among these distances:
308 3 0.01
309 118 0.45
310 75 0.28
311 68 0.26
ACGTcount: A:0.21, C:0.16, G:0.22, T:0.41
Consensus pattern (309 bp):
GGGCATTTTATAATTTTTTAGAATCGAGTCCTAGGTTGTCATCGTATCTGCTTTTACGCCGAAGG
TGGGCATTTAGGATAGGTTCATCCTTTCTATAATCCTTTTAAGTCCTTTAGGGATGCCGGGTACT
ATAACGCCAAAGCTATCCCCTAAGGGTATTTTCGTAATTTTCTAGAACCAAGTCCTAGGTTTTCA
CCAAGTCCGCTTTAATACTCAAAGTGAGCATTTAGGATAGGTTCAGCCCATTTTGTAATCCTTTT
TAAGTTCTTTAAGGATATCAGGCACTTCTACATCAAAGATATTCCCTAG
Found at i:58990 original size:32 final size:33
Alignment explanation
Indices: 58949--59013 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
58939 TGCCAGTTTC
*
58949 ATGTATCGATACTATG-AATATGTATCCATACA
1 ATGTATCGATACTAGGCAATATGTATCCATACA
*
58981 ATGTATCGATACTAGGCAATATGTATCGATACA
1 ATGTATCGATACTAGGCAATATGTATCCATACA
59014 TCTAGGTGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.32
Consensus pattern (33 bp):
ATGTATCGATACTAGGCAATATGTATCCATACA
Found at i:59818 original size:23 final size:23
Alignment explanation
Indices: 59788--59833 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
59778 AATATATTGC
*
59788 AAATTACTTCTCCCCTTTTTTGT
1 AAATTACTTCTCCCCCTTTTTGT
59811 AAATTACTTCTCCCCCTTTTTGT
1 AAATTACTTCTCCCCCTTTTTGT
59834 TATCCCTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.17, C:0.28, G:0.04, T:0.50
Consensus pattern (23 bp):
AAATTACTTCTCCCCCTTTTTGT
Found at i:60138 original size:12 final size:12
Alignment explanation
Indices: 60117--60148 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
60107 ACTATCATAC
*
60117 GACTACTCCTAT
1 GACTAATCCTAT
60129 GACTAATCCTAT
1 GACTAATCCTAT
60141 GACTAATC
1 GACTAATC
60149 ATCACTCGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.31, C:0.28, G:0.09, T:0.31
Consensus pattern (12 bp):
GACTAATCCTAT
Found at i:63528 original size:13 final size:13
Alignment explanation
Indices: 63510--63534 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
63500 ATACAATTCT
63510 TCATGTATCGATG
1 TCATGTATCGATG
63523 TCATGTATCGAT
1 TCATGTATCGAT
63535 ACAAATAGTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (13 bp):
TCATGTATCGATG
Found at i:63606 original size:13 final size:13
Alignment explanation
Indices: 63588--63627 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
63578 ACAATTGTAC
63588 ATGTATCGATACA
1 ATGTATCGATACA
*
63601 ATGTATCGATATA
1 ATGTATCGATACA
63614 ATGTATCGATACA
1 ATGTATCGATACA
63627 A
1 A
63628 AGCATAATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:66833 original size:20 final size:20
Alignment explanation
Indices: 66808--66845 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
66798 AAAATGGCTC
*
66808 GAACAATGTATCGATACAAT
1 GAACAATGTATCAATACAAT
66828 GAACAATGTATCAATACA
1 GAACAATGTATCAATACA
66846 TCTGGGTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.16, G:0.13, T:0.24
Consensus pattern (20 bp):
GAACAATGTATCAATACAAT
Found at i:72819 original size:33 final size:33
Alignment explanation
Indices: 72777--72839 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
72767 TGGGTCAATG
*
72777 TATCGATACAAT-TCTTCATGTATCGATACATGA
1 TATCGATACAATGT-GTCATGTATCGATACATGA
72810 TATCGATACAATGTGTCATGTATCGATACA
1 TATCGATACAATGTGTCATGTATCGATACA
72840 AACAGTGGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.35
Consensus pattern (33 bp):
TATCGATACAATGTGTCATGTATCGATACATGA
Found at i:72894 original size:20 final size:19
Alignment explanation
Indices: 72869--72913 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
72859 CTGCCAGTTT
*
72869 CATGTACCAATACAATTGTA
1 CATGTACCAATACAA-TGAA
* *
72889 CATGTATCGATACAATGAA
1 CATGTACCAATACAATGAA
72908 CATGTA
1 CATGTA
72914 TCGATACATC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.40, C:0.18, G:0.13, T:0.29
Consensus pattern (19 bp):
CATGTACCAATACAATGAA
Found at i:72912 original size:19 final size:20
Alignment explanation
Indices: 72878--72921 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
72868 TCATGTACCA
*
72878 ATACAATTGTACATGTATCG
1 ATACAATTGAACATGTATCG
72898 ATACAA-TGAACATGTATCG
1 ATACAATTGAACATGTATCG
72917 ATACA
1 ATACA
72922 TCTGGATGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.30
Consensus pattern (20 bp):
ATACAATTGAACATGTATCG
Found at i:75984 original size:33 final size:33
Alignment explanation
Indices: 75946--76012 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 33
75936 GTTACAAGCT
75946 ATGTATCGATACATT-T-CTTCATGTATCGATACA
1 ATGTATCGATACATTGTAC--CATGTATCGATACA
*
75979 ATGTATCGATGCATTGTACCATGTATCGATACA
1 ATGTATCGATACATTGTACCATGTATCGATACA
76012 A
1 A
76013 ATAGTGATAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 29 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (33 bp):
ATGTATCGATACATTGTACCATGTATCGATACA
Found at i:76676 original size:22 final size:18
Alignment explanation
Indices: 76628--76680 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 18
76618 TTTTAAAAAA
76628 TTCTCCCCCTTAAACGAT
1 TTCTCCCCCTTAAACGAT
76646 TATCTCCCCCTTAAACAGTTAT
1 T-TCTCCCCCTTAAAC-G--AT
76668 CTTCTCCCCCTTA
1 -TTCTCCCCCTTA
76681 TGTAAAAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
18 1 0.03
19 14 0.47
20 1 0.03
22 13 0.43
23 1 0.03
ACGTcount: A:0.21, C:0.40, G:0.04, T:0.36
Consensus pattern (18 bp):
TTCTCCCCCTTAAACGAT
Found at i:84744 original size:33 final size:33
Alignment explanation
Indices: 84706--84772 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
84696 GTTACAAGTT
* **
84706 ATGTATCGATACATTTCTTCATGTATCGATACA
1 ATGTATCGATACATTGCACCATGTATCGATACA
* *
84739 ATGTATTGATACATTGCACCATGTATTGATACA
1 ATGTATCGATACATTGCACCATGTATCGATACA
84772 A
1 A
84773 ATAGTGATAG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.37
Consensus pattern (33 bp):
ATGTATCGATACATTGCACCATGTATCGATACA
Found at i:84817 original size:21 final size:20
Alignment explanation
Indices: 84791--84842 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
84781 AGGGTAGCAT
**
84791 TATCGATACAATTTGTCCATG
1 TATCGATACAA-TTGAACATG
84812 TATCGATACAA-TGAACATG
1 TATCGATACAATTGAACATG
84831 TATCGATACAAT
1 TATCGATACAAT
84843 GTATCGATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 17 0.61
21 11 0.39
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (20 bp):
TATCGATACAATTGAACATG
Found at i:84846 original size:13 final size:13
Alignment explanation
Indices: 84828--84854 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
84818 TACAATGAAC
84828 ATGTATCGATACA
1 ATGTATCGATACA
84841 ATGTATCGATACA
1 ATGTATCGATACA
84854 A
1 A
84855 AGCAGCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:84869 original size:33 final size:32
Alignment explanation
Indices: 84809--84873 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
84799 CAATTTGTCC
*
84809 ATGTATCGATACAATGAACATGTATCGATACA
1 ATGTATCGATACAAAGAACATGTATCGATACA
*
84841 ATGTATCGATACAAAGCAGCATGTATCGATACA
1 ATGTATCGATACAAAG-AACATGTATCGATACA
84874 TCTGGGTGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (32 bp):
ATGTATCGATACAAAGAACATGTATCGATACA
Found at i:86673 original size:3 final size:3
Alignment explanation
Indices: 86665--86689 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
86655 CGAGTCAACT
86665 TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA T
86690 TGATGGTTGA
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:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (3 bp):
TCA
Found at i:90006 original size:15 final size:14
Alignment explanation
Indices: 89962--90008 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 14
89952 TCATGATTTT
*
89962 TTTTTCTCTTTCTTT
1 TTTTTCT-TTTCTTA
*
89977 TTTTTCTTTTTTTA
1 TTTTTCTTTTCTTA
89991 TTTTTCTATTTCTTA
1 TTTTTCT-TTTCTTA
90006 TTT
1 TTT
90009 ATAGTGAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 12 0.43
15 16 0.57
ACGTcount: A:0.06, C:0.13, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTCTTTTCTTA
Found at i:94156 original size:150 final size:148
Alignment explanation
Indices: 93873--94287 Score: 411
Period size: 150 Copynumber: 2.8 Consensus size: 148
93863 CACAAAAGTT
* * ** ** *
93873 TTATAGG-ACAGG-TTTCGAGAGAAAATGCTAAAATATCCCTAAGGTTTACCATTGACTCAAAAG
1 TTATAGGAATAGGTTTTCGA-AAAAAATGCTAAAAGGTCCCTAAGGTTTACCATCAACTTAAAAG
* * * * * *
93936 TGCTCGGTGATCCTAAGAGACTTGAAAAAGTAAAAACAAACCCACTCCTAATTCATACCTTTGGC
65 TGCCCGGTGATCCTAAG-GACTTGAAAAAGTAAAAACAAACCAACACCTAATACATACCCTCGGC
* *
94001 GTAGAAGCAGACCCAGTAATC
129 ATAGAAAC-GACCCAGTAATC
* * *
94022 TTATAGGAATAGGTTTTCGAAAAAAATGCTAATAGGTCCCTAAGGTCTACCATCAACTTATAAGT
1 TTATAGGAATAGGTTTTCGAAAAAAATGCTAAAAGGTCCCTAAGGTTTACCATCAACTTAAAAGT
* * * *
94087 GCCCGGTGATCCTAGAGGACTTGAAAAAGTAGAAGCGAACCAACACCTAATACCTACCCTCGGCA
66 GCCCGGTGATCCTA-AGGACTTGAAAAAGTAAAAACAAACCAACACCTAATACATACCCTCGGCA
*** * *
94152 TAGAAACGACTTGGTAGTT
130 TAGAAACGACCCAGTAATC
* * * ** * * *
94171 TTATAGGACTAGGTTTTAAGGAAAAAATATTAAAAGGTCCCTAAGGTTTGCCATCTACTTAGAAG
1 TTATAGGAATAGGTTTT-CGAAAAAAATGCTAAAAGGTCCCTAAGGTTTACCATCAACTTAAAAG
* * * *
94236 TGCCTGGTGATCCAAAGGGACTTGAAAAAGTAAAAACAAACCCACTCCTAAT
65 TGCCCGGTGATCCTAA-GGACTTGAAAAAGTAAAAACAAACCAACACCTAAT
94288 TCATGGACTT
Statistics
Matches: 217, Mismatches: 44, Indels: 9
0.80 0.16 0.03
Matches are distributed among these distances:
149 31 0.14
150 178 0.82
151 8 0.04
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.25
Consensus pattern (148 bp):
TTATAGGAATAGGTTTTCGAAAAAAATGCTAAAAGGTCCCTAAGGTTTACCATCAACTTAAAAGT
GCCCGGTGATCCTAAGGACTTGAAAAAGTAAAAACAAACCAACACCTAATACATACCCTCGGCAT
AGAAACGACCCAGTAATC
Found at i:103194 original size:20 final size:20
Alignment explanation
Indices: 103156--103195 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
103146 GTTGAGACCT
*
103156 TGTATCGATACATGGAGGTA
1 TGTATCGATACATCGAGGTA
* *
103176 TGTATTGATACATCTAGGTA
1 TGTATCGATACATCGAGGTA
103196 AAAATGTAAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.30, C:0.10, G:0.25, T:0.35
Consensus pattern (20 bp):
TGTATCGATACATCGAGGTA
Found at i:108102 original size:13 final size:13
Alignment explanation
Indices: 108062--108109 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
108052 CCGTTATAAG
108062 CAATGTATCGATA
1 CAATGTATCGATA
108075 C-AT-T-TC-AT-
1 CAATGTATCGATA
108083 C-ATGTATCGATA
1 CAATGTATCGATA
108095 CAATGTATCGATA
1 CAATGTATCGATA
108108 CA
1 CA
108110 TTAGACCATG
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
8 3 0.10
9 3 0.10
10 4 0.13
11 3 0.10
12 3 0.10
13 14 0.47
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.33
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:108104 original size:33 final size:33
Alignment explanation
Indices: 108062--108130 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
108052 CCGTTATAAG
* *
108062 CAATGTATCGATACATTTCATCATGTATCGATA
1 CAATGTATCGATACATTACACCATGTATCGATA
*
108095 CAATGTATCGATACATTAGACCATGTATCGATA
1 CAATGTATCGATACATTACACCATGTATCGATA
108128 CAA
1 CAA
108131 ACAGTGGTAG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.32
Consensus pattern (33 bp):
CAATGTATCGATACATTACACCATGTATCGATA
Found at i:108183 original size:19 final size:20
Alignment explanation
Indices: 108159--108211 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
108149 CTGCCAGTTT
*
108159 CATGTATCGATACAATG-AG
1 CATGTATCGATACAAAGCAG
*
108178 CATGTATCGATACAAAGCAT
1 CATGTATCGATACAAAGCAG
*
108198 AATGTATCGATACA
1 CATGTATCGATACA
108212 TCTGGGTGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (20 bp):
CATGTATCGATACAAAGCAG
Found at i:108715 original size:22 final size:22
Alignment explanation
Indices: 108683--108738 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
108673 AGTTTTCGTT
* *
108683 TTTCTCGCCCTTAATTAAAGAA
1 TTTCTCCCCCTTAATCAAAGAA
* *
108705 TTTCTCCCCCTTAATCAAGGCA
1 TTTCTCCCCCTTAATCAAAGAA
108727 TTTCTCCCCCTT
1 TTTCTCCCCCTT
108739 TGTCAAATCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.21, C:0.34, G:0.07, T:0.38
Consensus pattern (22 bp):
TTTCTCCCCCTTAATCAAAGAA
Found at i:110643 original size:13 final size:13
Alignment explanation
Indices: 110625--110651 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
110615 ACAGTAATCC
110625 ATGTATCGATACA
1 ATGTATCGATACA
110638 ATGTATCGATACA
1 ATGTATCGATACA
110651 A
1 A
110652 GGAATATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:111667 original size:61 final size:62
Alignment explanation
Indices: 111602--112313 Score: 615
Period size: 61 Copynumber: 11.0 Consensus size: 62
111592 GCATTTTTTC
* * *
111602 TTTAAAGCCCACAACTCTGTGGCACCTTGTTCCTTTT-AAGTCCACAACTCCGTGGCACCCT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACCCT
* * * *
111663 TTTAAAGCCCACAATTCCGTGGCACTTTTTTCATCTTT-AAGTCCACAACTCCGTGGCACCCT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCT-TTTAAAGCCCACAACTCCGTGGCACCCT
* * * * * *
111725 TTTAAAGCCCACAATTCTGTGGCACTTTTTTCATCTTT-AAGTCCACAACTCCGTGGCACCCG
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCT-TTTAAAGCCCACAACTCCGTGGCACCCT
*
111787 TTT-AAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACC-----
111851 CT
61 CT
*
111853 TTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTT-CCTTTT-AAAGCCCACAACTCCGTGGCACC--
111918 TTTCT
61 ---CT
*** *
111923 GTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCCCATGCCTCCGTGGCACTC
1 -TTTAAAGCCCACAACTCCGTGGCAC-CTTTTTC-CTTTT-AAAGCCCACAACTCCGTGGCACCC
111988 -
62 T
* * * *
111988 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTTAAAGCCCACAGCTCCATGGCACCTTCT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACC--CT
* * * *
112052 TTTCAAAGCCCACAACTCTGTGGCACCTTCTT-CTTTTCAAAGCCCACGACTCCGTGGCACTCTT
1 TTT-AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTT-AAAGCCCACAACTCCGTGGCAC-CCT
** * *
112116 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTCCT-AAGCCCACAACTCTGTGGCACTCTTT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTTCCTTTTAAAGCCCACAACTCCGTGGCAC-C--C
112180 T
62 T
* * **
112181 TCCTTCTAAGCCCACAACTCCGTGGCA-C-----CCTTTT-AAGCCCATAACTCCGTGGCACTTT
1 T--TT-AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACCCT
* *
112239 TTTCATCTTTAAGTCCACAACTCCGTGGCACCTTTTTTTTTTCTTTTAAAGCCCACAACTCCGTG
1 TTT-A-----AAGCCCACAACTCCGTGGCACC----TTTTTCCTTTTAAAGCCCACAACTCCGTG
*
112304 GCACTCT
56 GCACCCT
112311 TTT
1 TTT
112314 TCCCTTTTAA
Statistics
Matches: 559, Mismatches: 50, Indels: 73
0.82 0.07 0.11
Matches are distributed among these distances:
56 3 0.01
58 3 0.01
60 3 0.01
61 136 0.24
62 95 0.17
63 49 0.09
64 41 0.07
65 52 0.09
66 7 0.01
67 22 0.04
68 26 0.05
69 5 0.01
70 31 0.06
71 61 0.11
72 25 0.04
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.32
Consensus pattern (62 bp):
TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACCCT
Found at i:111709 original size:34 final size:34
Alignment explanation
Indices: 111595--112366 Score: 624
Period size: 34 Copynumber: 23.6 Consensus size: 34
111585 CTCAGTGGCA
*
111595 TTTTT-TCTTTAAAGCCCACAACTCTGTGGCACC
1 TTTTTCTCTTTAAAGCCCACAACTCCGTGGCACC
* * *
111628 TTGTTC-CTTTTAAGTCCACAACTCCGTGGCACC
1 TTTTTCTCTTTAAAGCCCACAACTCCGTGGCACC
* *
111661 -----CT-TTTAAAGCCCACAATTCCGTGGCACT
1 TTTTTCTCTTTAAAGCCCACAACTCCGTGGCACC
*
111689 TTTTTCATCTTT-AAGTCCACAACTCCGTGGCACC
1 TTTTTC-TCTTTAAAGCCCACAACTCCGTGGCACC
* * *
111723 -----CT-TTTAAAGCCCACAATTCTGTGGCACT
1 TTTTTCTCTTTAAAGCCCACAACTCCGTGGCACC
*
111751 TTTTTCATCTTT-AAGTCCACAACTCCGTGGCACC
1 TTTTTC-TCTTTAAAGCCCACAACTCCGTGGCACC
*
111785 -----C-GTTT-AAGCCCACAACTCCGTGGCACC
1 TTTTTCTCTTTAAAGCCCACAACTCCGTGGCACC
*
111812 TTTTTCTTTTTAAAGCCCACAACTCCGTGGCACC
1 TTTTTCTCTTTAAAGCCCACAACTCCGTGGCACC
*
111846 TTTTTCT-TTTAAAGCCCACAACTCTGTGGCACTC
1 TTTTTCTCTTTAAAGCCCACAACTCCGTGGCAC-C
*
111880 TTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACC
1 TTTTTCTC-TTT-AAAGCCCACAACTCCGTGGCACC
*
111916 TTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTC
1 TTTTTCTCTTTAAAGCCCACAACTCCGTGGCAC-C
***
111951 TTTTTCTCTTTTCAAAGCCCATGCCTCCGTGGCA--
1 TTTTTCTC-TTT-AAAGCCCACAACTCCGTGGCACC
111985 -----CTCTTTAAAGCCCACAACTCCGTGGCACC
1 TTTTTCTCTTTAAAGCCCACAACTCCGTGGCACC
* * * *
112014 TTCTTCTTTTTAAAGCCCACAGCTCCATGGCACC
1 TTTTTCTCTTTAAAGCCCACAACTCCGTGGCACC
*
112048 ---TTCT-TTTCAAAGCCCACAACTCTGTGGCACC
1 TTTTTCTCTTT-AAAGCCCACAACTCCGTGGCACC
* *
112079 TTCTTCT-TTTCAAAGCCCACGACTCCGTGGCA-C
1 TTTTTCTCTTT-AAAGCCCACAACTCCGTGGCACC
*
112112 ----TCTTTTTAAAGCCCACAACTCCGTGGCACTC
1 TTTTTCTCTTTAAAGCCCACAACTCCGTGGCAC-C
* *
112143 TTTTTC-CTCCT-AAGCCCACAACTCTGTGGCACTC
1 TTTTTCTCT-TTAAAGCCCACAACTCCGTGGCAC-C
112177 TTTTTC-CTTCT-AAGCCCACAACTCCGTGGCACC
1 TTTTTCTCTT-TAAAGCCCACAACTCCGTGGCACC
* *
112210 -----CT-TTT-AAGCCCATAACTCCGTGGCACT
1 TTTTTCTCTTTAAAGCCCACAACTCCGTGGCACC
*
112237 TTTTTCATCTTT-AAGTCCACAACTCCGTGGCACC
1 TTTTTC-TCTTTAAAGCCCACAACTCCGTGGCACC
*
112271 TTTTTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTC
1 ---TTTTTCTC-TTTAAAGCCCACAACTCCGTGGCAC-C
* * * *
112310 TTTTTCCCTTTTAAGTCCACAACTCCGTGGCATC
1 TTTTTCTCTTTAAAGCCCACAACTCCGTGGCACC
* *
112344 TTTCTCCCTTCCTAAAGCCCACA
1 TTTTTCTCTT--TAAAGCCCACA
112367 CAAGTCGGTG
Statistics
Matches: 609, Mismatches: 63, Indels: 131
0.76 0.08 0.16
Matches are distributed among these distances:
27 66 0.11
28 48 0.08
29 28 0.05
30 6 0.01
31 25 0.04
32 2 0.00
33 60 0.10
34 234 0.38
35 42 0.07
36 30 0.05
37 47 0.08
38 20 0.03
39 1 0.00
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.33
Consensus pattern (34 bp):
TTTTTCTCTTTAAAGCCCACAACTCCGTGGCACC
Found at i:111798 original size:27 final size:27
Alignment explanation
Indices: 111760--111811 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
111750 TTTTTTCATC
*
111760 TTTAAGTCCACAACTCCGTGGCACCCG
1 TTTAAGCCCACAACTCCGTGGCACCCG
111787 TTTAAGCCCACAACTCCGTGGCACC
1 TTTAAGCCCACAACTCCGTGGCACC
111812 TTTTTCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.23, C:0.38, G:0.17, T:0.21
Consensus pattern (27 bp):
TTTAAGCCCACAACTCCGTGGCACCCG
Found at i:112096 original size:163 final size:165
Alignment explanation
Indices: 111820--112118 Score: 462
Period size: 163 Copynumber: 1.8 Consensus size: 165
111810 CCTTTTTCTT
* **
111820 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTCCATGGCACTC--TTT
*
111885 CCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACT
64 -CCTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTGTTTAAAGCCCACAACTCCGTGGCACT
111950 CTTTTTCTCTTTTCAAAGCCCATGCCTCCGTGGCACTC
128 CTTTTTCTCTTTTCAAAGCCCATGCCTCCGTGGCACTC
*
111988 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTTAAAGCCCACAGCTCCATGGCAC-C-TT-
1 TTTAAAGCCCACAACTCCGTGGCACCTTCTTC-TTTTAAAGCCCACAACTCCATGGCACTCTTTC
* *
112050 CTTTTCAAAGCCCACAACTCTGTGGCACCTTCTTCT-TTTCAAAGCCCACGACTCCGTGGCACTC
65 CTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTGTTT-AAAGCCCACAACTCCGTGGCACTC
112114 TTTTT
129 TTTTT
112119 AAAGCCCACA
Statistics
Matches: 122, Mismatches: 7, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
162 3 0.02
163 62 0.51
165 2 0.02
168 32 0.26
169 23 0.19
ACGTcount: A:0.20, C:0.35, G:0.13, T:0.32
Consensus pattern (165 bp):
TTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTCCATGGCACTCTTTCC
TTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTT
TTTCTCTTTTCAAAGCCCATGCCTCCGTGGCACTC
Found at i:112241 original size:27 final size:27
Alignment explanation
Indices: 112182--112235 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
112172 CACTCTTTTT
*
112182 CCTTCTAAGCCCACAACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCAC
*
112209 CCTTTTAAGCCCATAACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCAC
112236 TTTTTTCATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.22, C:0.41, G:0.15, T:0.22
Consensus pattern (27 bp):
CCTTTTAAGCCCACAACTCCGTGGCAC
Found at i:112333 original size:73 final size:71
Alignment explanation
Indices: 112210--112346 Score: 213
Period size: 73 Copynumber: 1.9 Consensus size: 71
112200 CCGTGGCACC
*
112210 CTTTTAAGCCCATAACTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTTTT
1 CTTTTAAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTTTT
112275 TTTTTT
66 TTTTTT
* *
112281 CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC-CCTTTTAAGTCCACAACTCCGTGGCATCT
1 CTTTT-AAGCCCACAACTCCGTGGCACT-TTTTTCATC-TTTAAGTCCACAACTCCGTGGCACCT
112345 TT
63 TT
112347 CTCCCTTCCT
Statistics
Matches: 60, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
71 5 0.08
72 22 0.37
73 33 0.55
ACGTcount: A:0.19, C:0.31, G:0.12, T:0.39
Consensus pattern (71 bp):
CTTTTAAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTTTT
TTTTTT
Found at i:112379 original size:73 final size:71
Alignment explanation
Indices: 112215--112366 Score: 191
Period size: 73 Copynumber: 2.1 Consensus size: 71
112205 GCACCCTTTT
* * ***
112215 AAGCCCATAACTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTTTTTTTTT
1 AAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTTTCTCCCT
*
112280 TCTTTTA
66 TC-TCTA
* *
112287 AAGCCCACAACTCCGTGGCACTCTTTTTC-CCTTTTAAGTCCACAACTCCGTGGCATCTTTCTCC
1 AAGCCCACAACTCCGTGGCACT-TTTTTCATC-TTTAAGTCCACAACTCCGTGGCACCTTTCTCC
112351 CTTC-CTA
64 CTTCTCTA
112358 AAGCCCACA
1 AAGCCCACA
112367 CAAGTCGGTG
Statistics
Matches: 70, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
71 11 0.16
72 22 0.31
73 37 0.53
ACGTcount: A:0.20, C:0.34, G:0.11, T:0.35
Consensus pattern (71 bp):
AAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTTTCTCCCT
TCTCTA
Found at i:112394 original size:33 final size:35
Alignment explanation
Indices: 112351--112420 Score: 126
Period size: 33 Copynumber: 2.1 Consensus size: 35
112341 ATCTTTCTCC
112351 CTTCCTAAAGCCCACACAAGTCGGTGGCAA-CCTT
1 CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
112385 CTTCC-AAAGCCCACACAAGTCGGTGGCAACCCTT
1 CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
112419 CT
1 CT
112421 AAGCCCAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
33 24 0.69
34 11 0.31
ACGTcount: A:0.26, C:0.37, G:0.17, T:0.20
Consensus pattern (35 bp):
CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
Found at i:112484 original size:49 final size:49
Alignment explanation
Indices: 112420--113560 Score: 1373
Period size: 49 Copynumber: 23.7 Consensus size: 49
112410 GCAACCCTTC
* * *
112420 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
112469 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
112512 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
112561 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
112604 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
112653 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
112696 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
112745 TAAGTCCAATGTAGCTGCCCTTGAATTAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
112788 TAAGTCCAATATCA-CTGGCCTTGAATCAGCATATTGGCATCATCATCTT
1 TAAGTCCAATAT-AGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
112837 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
112886 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
112935 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * * *
112984 TAAGCCCAATATAGCTGGCCTTGAACCAGCATATTGGCACTTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * ** * *
113033 TAAGTCCAATGTAGCTGGCCTTGACTCCCCACATTGGCACCTTCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
113082 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
113131 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
113180 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * ** * *
113229 TAAGTCCAATGTAGCTGGCCTTGACTCCCCACATTGGCACCTTCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * * *
113278 TAAGCCCAATATAGCTGGCCTTGAATCAACATATTGGCACTTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
113327 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-CTTGCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTT-CATCTT
* *
113376 TAAGTCC-ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
113424 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
113473 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* *
113525 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTG
113561 ACATCCTTTT
Statistics
Matches: 925, Mismatches: 135, Indels: 61
0.83 0.12 0.05
Matches are distributed among these distances:
43 153 0.17
44 1 0.00
45 4 0.00
47 4 0.00
48 41 0.04
49 682 0.74
51 2 0.00
52 38 0.04
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.31
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:112918 original size:98 final size:98
Alignment explanation
Indices: 112420--113623 Score: 1685
Period size: 98 Copynumber: 12.4 Consensus size: 98
112410 GCAACCCTTC
*
112420 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
*
112485 GGCCTTGAATCAGCACATTGGCACC-T-----T
66 GGCCTTGACTCAGCACATTGGCACCTTCACCAT
*
112512 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
*
112577 GGCCTTGAATCAGCACATTGGCACC-T-----T
66 GGCCTTGACTCAGCACATTGGCACCTTCACCAT
*
112604 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
*
112669 GGCCTTGAATCAGCACATTGGCACC-T-----T
66 GGCCTTGACTCAGCACATTGGCACCTTCACCAT
*
112696 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
* * *
112761 GCCCTTGAATTAGCACATTGGCACC-T-----T
66 GGCCTTGACTCAGCACATTGGCACCTTCACCAT
*
112788 TAAGTCCAATATCA-CTGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAATGTAGC
1 TAAGTCCAATAT-AGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGC
112852 TGGCCTTGACTCAGCACATTGGCACCTTCACCAT
65 TGGCCTTGACTCAGCACATTGGCACCTTCACCAT
* *
112886 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
112951 GGCCTTGACTCAGCACATTGGCACCTTCACCAT
66 GGCCTTGACTCAGCACATTGGCACCTTCACCAT
* * *
112984 TAAGCCCAATATAGCTGGCCTTGAACCAGCATATTGGCA-CTTTTATCTTTAAGTCCAATGTAGC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATC-TTCATCTTTAAGTCCAATGTAGC
**
113048 TGGCCTTGACTCCCCACATTGGCACCTTCACCAT
65 TGGCCTTGACTCAGCACATTGGCACCTTCACCAT
* *
113082 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
113147 GGCCTTGACTCAGCACATTGGCACCTTCACCAT
66 GGCCTTGACTCAGCACATTGGCACCTTCACCAT
* *
113180 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CTTTTATCTTTAAGTCCAATGTAGC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATC-TTCATCTTTAAGTCCAATGTAGC
**
113244 TGGCCTTGACTCCCCACATTGGCACCTTCACCAT
65 TGGCCTTGACTCAGCACATTGGCACCTTCACCAT
* * *
113278 TAAGCCCAATATAGCTGGCCTTGAATCAACATATTGGCA-CTTTTATCTTTAAGTCCAATGTAGC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATC-TTCATCTTTAAGTCCAATGTAGC
113342 TGGCCTTGACTCAGCACATTGGCA-CTTGCACCAT
65 TGGCCTTGACTCAGCACATTGGCACCTT-CACCAT
* *
113376 TAAGTCC-ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
* *
113440 GGCCTTGACTCAGCACATTGGCACCTTCATCTT
66 GGCCTTGACTCAGCACATTGGCACCTTCACCAT
* * *
113473 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTTTAAGTTCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA--TCTT-CATCTTTAAGTCCAATGTA
* * *
113538 GCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCATCTT
63 GCTGGCCTTGACTCAGCACATTGGCA-CC---TTCA-C--CAT
* * * * *
113581 TAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTT
113624 TATCACTTTT
Statistics
Matches: 1042, Mismatches: 45, Indels: 36
0.93 0.04 0.03
Matches are distributed among these distances:
92 356 0.34
93 1 0.00
97 94 0.09
98 502 0.48
99 1 0.00
100 2 0.00
101 41 0.04
102 2 0.00
105 4 0.00
106 3 0.00
108 36 0.03
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.31
Consensus pattern (98 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
GGCCTTGACTCAGCACATTGGCACCTTCACCAT
Found at i:114498 original size:13 final size:13
Alignment explanation
Indices: 114480--114504 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
114470 CATAAAATGT
114480 TGTATCGATACAA
1 TGTATCGATACAA
114493 TGTATCGATACA
1 TGTATCGATACA
114505 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:114502 original size:33 final size:33
Alignment explanation
Indices: 114460--114529 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
114450 TTCAACGATT
114460 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
114493 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
114526 TGTA
1 TGTA
114530 AGCTACTGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:114587 original size:13 final size:13
Alignment explanation
Indices: 114569--114593 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
114559 ATTACTCACA
114569 TGTATCGATACAT
1 TGTATCGATACAT
114582 TGTATCGATACA
1 TGTATCGATACA
114594 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:122965 original size:30 final size:31
Alignment explanation
Indices: 122929--123010 Score: 112
Period size: 30 Copynumber: 2.7 Consensus size: 31
122919 ATACCTTTTT
122929 AAAGTCCACGACTCAGTGGCATTTTGTC-TC
1 AAAGTCCACGACTCAGTGGCATTTTGTCTTC
* *
122959 AAAGTCCACGACTCAGTGGCATTTTTTCTTT
1 AAAGTCCACGACTCAGTGGCATTTTGTCTTC
* * *
122990 AAAGCCCACAACTCCGTGGCA
1 AAAGTCCACGACTCAGTGGCA
123011 CCTTGTTCCT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 27 0.59
31 19 0.41
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCATTTTGTCTTC
Found at i:123052 original size:61 final size:62
Alignment explanation
Indices: 122987--123697 Score: 631
Period size: 61 Copynumber: 11.0 Consensus size: 62
122977 GCATTTTTTC
* *
122987 TTTAAAGCCCACAACTCCGTGGCACCTTGTTCCTTTT-AAGTCCACAACTCCGTGGCACCCT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACCCT
* * * *
123048 TTTAAAGCCCACAATTCCGTGGCACTTTTTTCATCTTT-AAGTCCACAACTCCGTGGCACCCT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCT-TTTAAAGCCCACAACTCCGTGGCACCCT
* * * * * *
123110 TTTAAAGCCCACAATTCTGTGGCACTTTTTTCATCTTT-AAGTCCACAACTCCGTGGCACCCG
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCT-TTTAAAGCCCACAACTCCGTGGCACCCT
*
123172 TTT-AAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACC-----
123236 CT
61 CT
*
123238 TTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTT-CCTTTT-AAAGCCCACAACTCCGTGGCACC--
123303 TTTCT
61 ---CT
*** *
123308 GTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCCCATGCCTCCGTGGCACTC
1 -TTTAAAGCCCACAACTCCGTGGCAC-CTTTTTC-CTTTT-AAAGCCCACAACTCCGTGGCACCC
123373 -
62 T
* * * *
123373 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTTAAAGCCCACAGCTCCATGGCACCTTCT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACC--CT
* * * *
123437 TTTCAAAGCCCACAACTCTGTGGCACCTTCTT-CTTTTCAAAGCCCACGACTCCGTGGCACTCTT
1 TTT-AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTT-AAAGCCCACAACTCCGTGGCAC-CCT
** * *
123501 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTCCT-AAGCCCACAACTCTGTGGCACTCTTT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTTCCTTTTAAAGCCCACAACTCCGTGGCAC-C--C
123565 T
62 T
* * **
123566 TCCTTCTAAGCCCACAACTCCGTGGCA-C-----CCTTTT-AAGCCCATAACTCCGTGGCACTTT
1 T--TT-AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACCCT
* *
123624 TTTCATCTTTAAGTCCACAACTCCGTGGCACCTTTTTTTTTCTTTTAAAGCCCACAACTCCGTGG
1 TTT-A-----AAGCCCACAACTCCGTGGCACC---TTTTTCCTTTTAAAGCCCACAACTCCGTGG
*
123689 CACTCT
57 CACCCT
123695 TTT
1 TTT
123698 TCCCTTTTAA
Statistics
Matches: 560, Mismatches: 49, Indels: 72
0.82 0.07 0.11
Matches are distributed among these distances:
56 3 0.01
58 3 0.01
60 3 0.01
61 137 0.24
62 95 0.17
63 49 0.09
64 41 0.07
65 52 0.09
66 7 0.01
67 22 0.04
68 26 0.05
69 5 0.01
70 36 0.06
71 81 0.14
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.32
Consensus pattern (62 bp):
TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACCCT
Found at i:123094 original size:34 final size:34
Alignment explanation
Indices: 122959--123750 Score: 641
Period size: 34 Copynumber: 24.3 Consensus size: 34
122949 ATTTTGTCTC
* * *
122959 AAAGTCCACGACTCAGTGGCA--TTTTT-TCTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTCTTT
*
122990 AAAGCCCACAACTCCGTGGCACCTTGTTC-CTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTCTTT
* *
123023 TAAGTCCACAACTCCGTGGCACC-----CT-TTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTCTTT
* *
123051 AAAGCCCACAATTCCGTGGCACTTTTTTCATCTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTC-TCTTT
*
123086 -AAGTCCACAACTCCGTGGCACC-----CT-TTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTCTTT
* * *
123113 AAAGCCCACAATTCTGTGGCACTTTTTTCATCTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTC-TCTTT
* *
123148 -AAGTCCACAACTCCGTGGCACC-----C-GTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTCTTT
*
123175 -AAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTCTTT
123208 AAAGCCCACAACTCCGTGGCACCTTTTTCT-TTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTCTTT
* *
123241 AAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTCTC-TTT
*
123277 CAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCTCTTT
123312 AAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTCTC-TTT
***
123348 CAAAGCCCATGCCTCCGTGGCA-------CTCTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCTCTTT
* *
123376 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTCTTT
* *
123410 AAAGCCCACAGCTCCATGGCACC---TTCT-TTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTCTTT
* *
123440 CAAAGCCCACAACTCTGTGGCACCTTCTTCT-TTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCTCTTT
* *
123474 CAAAGCCCACGACTCCGTGGCA-C----TCTTTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCTCTTT
*
123504 AAAGCCCACAACTCCGTGGCACTCTTTTTC-CTCCT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTCTCT-TT
*
123539 -AAGCCCACAACTCTGTGGCACTCTTTTTC-CTTCT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTCTCTT-T
123573 -AAGCCCACAACTCCGTGGCACC-----CT-TTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTCTTT
* *
123600 -AAGCCCATAACTCCGTGGCACTTTTTTCATCTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTC-TCTTT
* *
123634 -AAGTCCACAACTCCGTGGCACCTTTTTTTTTCTTTT
1 AAAGCCCACAACTCCGTGGCACC--TTTTTCTC-TTT
*
123670 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTCTCTTT
* * * * *
123705 TAAGTCCACAACTCCGTGGCATCTTTCTCCCTTCCT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTCTT--T
123741 AAAGCCCACA
1 AAAGCCCACA
123751 CAAGTCGGTG
Statistics
Matches: 628, Mismatches: 65, Indels: 131
0.76 0.08 0.16
Matches are distributed among these distances:
27 66 0.11
28 48 0.08
29 28 0.04
30 6 0.01
31 43 0.07
32 2 0.00
33 61 0.10
34 234 0.37
35 44 0.07
36 36 0.06
37 59 0.09
38 1 0.00
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.32
Consensus pattern (34 bp):
AAAGCCCACAACTCCGTGGCACCTTTTTCTCTTT
Found at i:123183 original size:27 final size:27
Alignment explanation
Indices: 123145--123196 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
123135 TTTTTTCATC
*
123145 TTTAAGTCCACAACTCCGTGGCACCCG
1 TTTAAGCCCACAACTCCGTGGCACCCG
123172 TTTAAGCCCACAACTCCGTGGCACC
1 TTTAAGCCCACAACTCCGTGGCACC
123197 TTTTTCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.23, C:0.38, G:0.17, T:0.21
Consensus pattern (27 bp):
TTTAAGCCCACAACTCCGTGGCACCCG
Found at i:123481 original size:163 final size:165
Alignment explanation
Indices: 123205--123503 Score: 462
Period size: 163 Copynumber: 1.8 Consensus size: 165
123195 CCTTTTTCTT
* **
123205 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTCCATGGCACTC--TTT
*
123270 CCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACT
64 -CCTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTGTTTAAAGCCCACAACTCCGTGGCACT
123335 CTTTTTCTCTTTTCAAAGCCCATGCCTCCGTGGCACTC
128 CTTTTTCTCTTTTCAAAGCCCATGCCTCCGTGGCACTC
*
123373 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTTAAAGCCCACAGCTCCATGGCAC-C-TT-
1 TTTAAAGCCCACAACTCCGTGGCACCTTCTTC-TTTTAAAGCCCACAACTCCATGGCACTCTTTC
* *
123435 CTTTTCAAAGCCCACAACTCTGTGGCACCTTCTTCT-TTTCAAAGCCCACGACTCCGTGGCACTC
65 CTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTGTTT-AAAGCCCACAACTCCGTGGCACTC
123499 TTTTT
129 TTTTT
123504 AAAGCCCACA
Statistics
Matches: 122, Mismatches: 7, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
162 3 0.02
163 62 0.51
165 2 0.02
168 32 0.26
169 23 0.19
ACGTcount: A:0.20, C:0.35, G:0.13, T:0.32
Consensus pattern (165 bp):
TTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTCCATGGCACTCTTTCC
TTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTT
TTTCTCTTTTCAAAGCCCATGCCTCCGTGGCACTC
Found at i:123626 original size:27 final size:27
Alignment explanation
Indices: 123567--123620 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
123557 CACTCTTTTT
*
123567 CCTTCTAAGCCCACAACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCAC
*
123594 CCTTTTAAGCCCATAACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCAC
123621 TTTTTTCATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.22, C:0.41, G:0.15, T:0.22
Consensus pattern (27 bp):
CCTTTTAAGCCCACAACTCCGTGGCAC
Found at i:123744 original size:71 final size:70
Alignment explanation
Indices: 123600--123750 Score: 189
Period size: 71 Copynumber: 2.1 Consensus size: 70
123590 GCACCCTTTT
* ***
123600 AAGCCCATAACTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTTTTTTTTT
1 AAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTTTTCCCTT
*
123665 CTTTTA
66 C-TCTA
* *
123671 AAGCCCACAACTCCGTGGCACTCTTTTTC-CCTTTTAAGTCCACAACTCCGTGGCATCTTTCTCC
1 AAGCCCACAACTCCGTGGCACT-TTTTTCATC-TTTAAGTCCACAACTCCGTGGCACCTTT-TCC
123735 CTTC-CTA
63 CTTCTCTA
123742 AAGCCCACA
1 AAGCCCACA
123751 CAAGTCGGTG
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
71 33 0.47
72 33 0.47
73 4 0.06
ACGTcount: A:0.21, C:0.34, G:0.11, T:0.34
Consensus pattern (70 bp):
AAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTTTTCCCTT
CTCTA
Found at i:123778 original size:33 final size:35
Alignment explanation
Indices: 123735--123804 Score: 117
Period size: 33 Copynumber: 2.1 Consensus size: 35
123725 ATCTTTCTCC
123735 CTTCCTAAAGCCCACACAAGTCGGTGGCAA-CCTT
1 CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
*
123769 CTTCC-AAAGCCCACACAAGTTGGTGGCAACCCTT
1 CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
123803 CT
1 CT
123805 AAGCCCAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 23 0.68
34 11 0.32
ACGTcount: A:0.26, C:0.36, G:0.17, T:0.21
Consensus pattern (35 bp):
CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
Found at i:123868 original size:49 final size:49
Alignment explanation
Indices: 123804--124944 Score: 1402
Period size: 49 Copynumber: 23.7 Consensus size: 49
123794 GCAACCCTTC
* * * *
123804 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
123853 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
123896 TAAGTCCAAT-AACGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTA-GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
123945 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
123988 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
124037 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
124080 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
124129 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
124172 TAAGTCCAATATCA-CTGGCCTTGAATCAGCATATTGGCATCATCATCTT
1 TAAGTCCAATGT-AGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
124221 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
124270 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
124319 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * * *
124368 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* ** * *
124417 TAAGTCCAATGTAGCTGGCCTTGACTCCCCACATTGGCACCTTCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
124466 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
124515 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * * *
124564 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* ** * *
124613 TAAGTCCAATGTAGCTGGCCTTGACTCCCCACATTGGCACCTTCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * * *
124662 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
124711 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-CTTGCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT-CATCTT
* * *
124760 TAAGTCC-ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
124808 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
124857 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
*
124909 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
124945 ACATCCTTTT
Statistics
Matches: 932, Mismatches: 126, Indels: 65
0.83 0.11 0.06
Matches are distributed among these distances:
42 1 0.00
43 154 0.17
44 1 0.00
45 4 0.00
47 4 0.00
48 41 0.04
49 686 0.74
50 1 0.00
51 2 0.00
52 38 0.04
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (49 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:124302 original size:98 final size:98
Alignment explanation
Indices: 123804--125007 Score: 1714
Period size: 98 Copynumber: 12.4 Consensus size: 98
123794 GCAACCCTTC
*
123804 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
*
123869 GGCCTTGAATCAGCACATTGGCACC-T-----T
66 GGCCTTGACTCAGCACATTGGCACCTTCACCAT
123896 TAAGTCCAATA-ACGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGC
1 TAAGTCCAATATA-GCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGC
*
123960 TGGCCTTGAATCAGCACATTGGCACC-T-----T
65 TGGCCTTGACTCAGCACATTGGCACCTTCACCAT
*
123988 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
*
124053 GGCCTTGAATCAGCACATTGGCACC-T-----T
66 GGCCTTGACTCAGCACATTGGCACCTTCACCAT
*
124080 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
*
124145 GGCCTTGAATCAGCACATTGGCACC-T-----T
66 GGCCTTGACTCAGCACATTGGCACCTTCACCAT
*
124172 TAAGTCCAATATCA-CTGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAATGTAGC
1 TAAGTCCAATAT-AGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGC
124236 TGGCCTTGACTCAGCACATTGGCACCTTCACCAT
65 TGGCCTTGACTCAGCACATTGGCACCTTCACCAT
* *
124270 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
124335 GGCCTTGACTCAGCACATTGGCACCTTCACCAT
66 GGCCTTGACTCAGCACATTGGCACCTTCACCAT
* *
124368 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CTTTTATCTTTAAGTCCAATGTAGC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATC-TTCATCTTTAAGTCCAATGTAGC
**
124432 TGGCCTTGACTCCCCACATTGGCACCTTCACCAT
65 TGGCCTTGACTCAGCACATTGGCACCTTCACCAT
* *
124466 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
124531 GGCCTTGACTCAGCACATTGGCACCTTCACCAT
66 GGCCTTGACTCAGCACATTGGCACCTTCACCAT
* *
124564 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CTTTTATCTTTAAGTCCAATGTAGC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATC-TTCATCTTTAAGTCCAATGTAGC
**
124628 TGGCCTTGACTCCCCACATTGGCACCTTCACCAT
65 TGGCCTTGACTCAGCACATTGGCACCTTCACCAT
* *
124662 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CTTTTATCTTTAAGTCCAATGTAGC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATC-TTCATCTTTAAGTCCAATGTAGC
124726 TGGCCTTGACTCAGCACATTGGCA-CTTGCACCAT
65 TGGCCTTGACTCAGCACATTGGCACCTT-CACCAT
* *
124760 TAAGTCC-ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
* *
124824 GGCCTTGACTCAGCACATTGGCACCTTCATCTT
66 GGCCTTGACTCAGCACATTGGCACCTTCACCAT
* * *
124857 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTTTAAGTTCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA--TCTT-CATCTTTAAGTCCAATGTA
* * *
124922 GCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCATCTT
63 GCTGGCCTTGACTCAGCACATTGGCA-CC---TTCA-C--CAT
* * * * *
124965 TAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTT
125008 TATCACTTTT
Statistics
Matches: 1048, Mismatches: 37, Indels: 40
0.93 0.03 0.04
Matches are distributed among these distances:
91 1 0.00
92 357 0.34
93 1 0.00
97 95 0.09
98 505 0.48
99 1 0.00
100 2 0.00
101 41 0.04
102 2 0.00
105 4 0.00
106 3 0.00
108 36 0.03
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.31
Consensus pattern (98 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
GGCCTTGACTCAGCACATTGGCACCTTCACCAT
Found at i:125882 original size:13 final size:13
Alignment explanation
Indices: 125864--125888 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
125854 CATAAAATGT
125864 TGTATCGATACAA
1 TGTATCGATACAA
125877 TGTATCGATACA
1 TGTATCGATACA
125889 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:125889 original size:33 final size:33
Alignment explanation
Indices: 125847--125913 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
125837 AACGATTTGA
125847 ATCGATACATAAAATGTTGTATCGATACAATGT
1 ATCGATACATAAAATGTTGTATCGATACAATGT
*** *
125880 ATCGATACATATTTTTTTGTATCGATACAATGT
1 ATCGATACATAAAATGTTGTATCGATACAATGT
125913 A
1 A
125914 AGCTACTGCC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.39
Consensus pattern (33 bp):
ATCGATACATAAAATGTTGTATCGATACAATGT
Found at i:125972 original size:13 final size:13
Alignment explanation
Indices: 125954--125978 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
125944 ATTACTCACA
125954 TGTATCGATACAT
1 TGTATCGATACAT
125967 TGTATCGATACA
1 TGTATCGATACA
125979 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:126115 original size:52 final size:52
Alignment explanation
Indices: 125987--126107 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
125977 CACTGATCTT
*
125987 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
126039 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
126091 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
126108 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:135314 original size:19 final size:19
Alignment explanation
Indices: 135269--135342 Score: 94
Period size: 20 Copynumber: 3.8 Consensus size: 19
135259 ACTGTCAATT
*
135269 TCATGTATCGATACAATTGT
1 TCATGTATCGATACAA-TGA
135289 TCATGTATCGATACAATGA
1 TCATGTATCGATACAATGA
* *
135308 GCATGTATCGATACAAAGCA
1 TCATGTATCGATACAATG-A
*
135328 TAATGTATCGATACA
1 TCATGTATCGATACA
135343 TCTGGGTGTG
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
19 18 0.38
20 30 0.62
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.31
Consensus pattern (19 bp):
TCATGTATCGATACAATGA
Found at i:140169 original size:13 final size:13
Alignment explanation
Indices: 140151--140177 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
140141 ACATTATGCT
140151 TTGTATCGATACA
1 TTGTATCGATACA
140164 TTGTATCGATACA
1 TTGTATCGATACA
140177 T
1 T
140178 GAAAAATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:140188 original size:20 final size:20
Alignment explanation
Indices: 140163--140201 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
140153 GTATCGATAC
140163 ATTGTATCGATACATGAAAA
1 ATTGTATCGATACATGAAAA
140183 ATTGTATCGATACATGAAA
1 ATTGTATCGATACATGAAA
140202 CTGGCAGTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.31
Consensus pattern (20 bp):
ATTGTATCGATACATGAAAA
Found at i:141593 original size:13 final size:13
Alignment explanation
Indices: 141575--141599 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
141565 GGACGAATTT
141575 TTATAACTTTTTA
1 TTATAACTTTTTA
141588 TTATAACTTTTT
1 TTATAACTTTTT
141600 GACAATTCGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (13 bp):
TTATAACTTTTTA
Found at i:141838 original size:13 final size:13
Alignment explanation
Indices: 141820--141876 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
141810 CATAAAGTGT
141820 TGTATCGATACAA
1 TGTATCGATACAA
141833 TGTATCGATACATAA
1 TGTATCGATAC--AA
*
141848 GTGTTGTATCGATAAAA
1 ----TGTATCGATACAA
141865 TGTATCGATACA
1 TGTATCGATACA
141877 TAAGTTTTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 22 0.61
15 2 0.06
17 2 0.06
19 10 0.28
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:141855 original size:32 final size:32
Alignment explanation
Indices: 141800--141900 Score: 175
Period size: 32 Copynumber: 3.1 Consensus size: 32
141790 TTTAACGATT
141800 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
*
141833 TGTATCGATACATAAGTGTTGTATCGATAAAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
141865 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
141897 TGTA
1 TGTA
141901 AGCTACTGCC
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 52 0.80
33 13 0.20
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:141857 original size:19 final size:18
Alignment explanation
Indices: 141798--141895 Score: 90
Period size: 19 Copynumber: 5.8 Consensus size: 18
141788 ATTTTAACGA
141798 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
141817 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
141833 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
141849 TGTTGTATCGATA-A-AA-
1 T-TTGTATCGATACATAAG
141865 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
141881 TTTTGTATCGATACA
1 -TTTGTATCGATACA
141896 ATGTAAGCTA
Statistics
Matches: 66, Mismatches: 0, Indels: 26
0.72 0.00 0.28
Matches are distributed among these distances:
13 21 0.32
14 1 0.02
15 4 0.06
17 4 0.06
18 1 0.02
19 23 0.35
20 12 0.18
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:141935 original size:13 final size:13
Alignment explanation
Indices: 141917--141941 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
141907 TGCCAAAAAA
141917 TGTATCGATACAT
1 TGTATCGATACAT
141930 TGTATCGATACA
1 TGTATCGATACA
141942 CTCATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:142013 original size:52 final size:52
Alignment explanation
Indices: 141950--142078 Score: 204
Period size: 52 Copynumber: 2.5 Consensus size: 52
141940 CACTCATCTT
141950 TGTATCGATACATGCAGGCAAATTTACCCAGATGTAGCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTACCCAGATGTAGCGATACACTATAAAA
* * * * *
142002 TGTATCGATACATACAAGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTACCCAGATGTAGCGATACACTATAAAA
*
142054 TGTATCGATACATGCAGGTAAATTT
1 TGTATCGATACATGCAGGCAAATTT
142079 TCATATTTCG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTACCCAGATGTAGCGATACACTATAAAA
Found at i:148713 original size:78 final size:78
Alignment explanation
Indices: 148613--148813 Score: 215
Period size: 79 Copynumber: 2.6 Consensus size: 78
148603 AATAACGGGG
* * * * * * **
148613 TTGGAGTGTCCCCTTGAAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATTGATGA-TTAG
1 TTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAAT-ATTTAG
*
148677 AAAAAAAATCGAGA
65 AAAAAAAACCGAGA
* * *
148691 TTGGAGTATCCCCTCGGAAATAACGAGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGG
1 TTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATA-TTTAG
* * * *
148756 GAATAAAGCCGAGG
65 AAAAAAAACCGAGA
**
148770 TTGGAGTATCCCCTCGGAGGTAACGGGGTTGGAGTATCCCCGAT
1 TTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGAT
148814 GAAATAACGA
Statistics
Matches: 101, Mismatches: 20, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
77 1 0.01
78 48 0.48
79 52 0.51
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (78 bp):
TTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTAGA
AAAAAAACCGAGA
Found at i:148894 original size:52 final size:50
Alignment explanation
Indices: 148824--148993 Score: 171
Period size: 52 Copynumber: 3.3 Consensus size: 50
148814 GAAATAACGA
* *
148824 GGTTGGAGTATCCTCAATTGTAAAAAATTGGTGCTTTTGGAAATAAAATCG
1 GGTTGGAGTATCCCCAATTGTAAAAAATTGGTG-TTTTGGAAATAAAACCG
* * *
148875 GAGTTGGAGTATCCCCAATT-AAAGGAAAATTGGTGTTTTGAAAATAAAGCCAG
1 G-GTTGGAGTATCCCCAATTGTAA--AAAATTGGTGTTTTGGAAATAAAACC-G
* ** * * * *
148928 GGTTGGAGTATCCCCGATTGTGGAAAATCGATGATTTAGAAATAAAACCGG
1 GGTTGGAGTATCCCCAATTGTAAAAAATTGGTGTTTTGGAAATAAAACC-G
148979 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
148994 TCGGAGATAA
Statistics
Matches: 98, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
51 39 0.40
52 47 0.48
53 12 0.12
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (50 bp):
GGTTGGAGTATCCCCAATTGTAAAAAATTGGTGTTTTGGAAATAAAACCG
Found at i:148982 original size:51 final size:51
Alignment explanation
Indices: 148863--148993 Score: 147
Period size: 51 Copynumber: 2.5 Consensus size: 51
148853 GGTGCTTTTG
* * * * *
148863 GAAATAAAATCGGAGTTGGAGTATCCCCAATTAAAGGAAAATTGGTGTTTT
1 GAAATAAAACCGGGGTTGGAGTATCCCCAATTAAAGGAAAATCGATGTTTA
* * * **
148914 GAAAATAAAGCCAGGGTTGGAGTATCCCCGATT-GTGGAAAATCGATGATTTA
1 G-AAATAAAACCGGGGTTGGAGTATCCCCAATTAAAGGAAAATCGATG-TTTA
148966 GAAATAAAACCGGGGTTGGAGTATCCCC
1 GAAATAAAACCGGGGTTGGAGTATCCCC
148994 TCGGAGATAA
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
51 36 0.55
52 30 0.45
ACGTcount: A:0.35, C:0.14, G:0.26, T:0.25
Consensus pattern (51 bp):
GAAATAAAACCGGGGTTGGAGTATCCCCAATTAAAGGAAAATCGATGTTTA
Found at i:149205 original size:51 final size:51
Alignment explanation
Indices: 149115--149231 Score: 149
Period size: 51 Copynumber: 2.4 Consensus size: 51
149105 GATTAACGGG
149115 GTTGGAGTATCCCC-A--ATGAAAAATTGATGTTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGA
149163 GTTGGAGTATCCCCGATTAT-AGAAAATT-AGTGTTTT-GAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGA-AAAATTGA-TGTTTTAG-AAATAAAATCGGA
149214 GTTGG-GATATCCCCGATT
1 GTTGGAG-TATCCCCGATT
149232 GCAGAGAATT
Statistics
Matches: 62, Mismatches: 0, Indels: 11
0.85 0.00 0.15
Matches are distributed among these distances:
48 14 0.23
49 1 0.02
50 4 0.06
51 43 0.69
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGA
Found at i:151619 original size:34 final size:33
Alignment explanation
Indices: 151576--151639 Score: 101
Period size: 34 Copynumber: 1.9 Consensus size: 33
151566 AACTTCCTAG
*
151576 ATGTATCGATACAAAGAATAGATGTATCGATCCA
1 ATGTATCGATACAAAGAA-AAATGTATCGATCCA
*
151610 ATGTATCGATACACAGAAAAATGTATCGAT
1 ATGTATCGATACAAAGAAAAATGTATCGAT
151640 ACATTTCCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 11 0.39
34 17 0.61
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (33 bp):
ATGTATCGATACAAAGAAAAATGTATCGATCCA
Found at i:151684 original size:13 final size:13
Alignment explanation
Indices: 151666--151717 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
151656 AGCTTCCTAG
151666 CGATACATTGTAT
1 CGATACATTGTAT
151679 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
151698 CGATACATTGTAT
1 CGATACATTGTAT
151711 CGATACA
1 CGATACA
151718 ACACTTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 17 0.52
15 2 0.06
16 2 0.06
17 2 0.06
19 10 0.30
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:151698 original size:19 final size:19
Alignment explanation
Indices: 151674--151738 Score: 79
Period size: 19 Copynumber: 3.7 Consensus size: 19
151664 AGCGATACAT
151674 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
151693 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
151706 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
151725 TGTATCGATACAAA
1 TGTATCGATACAAA
151739 TCGCTGAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
13 11 0.28
14 1 0.03
16 2 0.05
18 1 0.03
19 24 0.62
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.32
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:151707 original size:32 final size:32
Alignment explanation
Indices: 151666--151736 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
151656 AGCTTCCTAG
151666 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
151698 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
151730 CGATACA
1 CGATACA
151737 AATCGCTGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:151800 original size:21 final size:22
Alignment explanation
Indices: 151776--151831 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
151766 TGGGACCCTA
*
151776 TATTGATACATTTGTA-GAATG
1 TATTGATACATTTGTACAAATG
*
151797 TATTGATACA-TTCTACAAATG
1 TATTGATACATTTGTACAAATG
*
151818 TATCGATACATTTG
1 TATTGATACATTTG
151832 GATAAATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 4 0.14
21 23 0.79
22 2 0.07
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.41
Consensus pattern (22 bp):
TATTGATACATTTGTACAAATG
Found at i:153637 original size:31 final size:29
Alignment explanation
Indices: 153594--153659 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 29
153584 GTTCTTTTCC
153594 AAAAA-AAGAAACAAAACAAA-AAAGGAAAAA
1 AAAAAGAAGAAAC-AAACAAACAAA--AAAAA
153624 AAAAAGAAGAAACAAACAAACAAAAAAAA
1 AAAAAGAAGAAACAAACAAACAAAAAAAA
153653 AAGAAAG
1 AA-AAAG
153660 GAAAAACCCC
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
29 7 0.21
30 16 0.48
31 10 0.30
ACGTcount: A:0.82, C:0.08, G:0.11, T:0.00
Consensus pattern (29 bp):
AAAAAGAAGAAACAAACAAACAAAAAAAA
Done.