Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 313 of 322
Found at i:103909313 original size:96 final size:94
Alignment explanation
Indices: 103908950--103909314 Score: 328
Period size: 96 Copynumber: 3.8 Consensus size: 94
103908940 TGACATGTGC
* *
103908950 GCTAGTGTAAGACCATGTCTGGGGCATGGCATC-AGCCACGATATGAGAGCCATTGTAAGACCAT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGA-CCA--ATATGAGAGCCAATGTAAGACCAT
* *
103909014 GTTTGGAACATGGCCTCGGCGA-TGTTG-TGAGA
63 GTTTGGAACATGGCATCGGC-ATTG-AGATGAGA
* * * * * * *
103909046 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGACGATGTTGTGAGAACCAATGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCA--ATATGAGAGCCAATGTAAGACCATG
* * * * * *
103909111 TCT-CAGACATGGCATCAGCATTAATATGTGCA
64 TTTGGA-ACATGGCATCGGCATTGAGATGAG-A
*
103909143 -CTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACATTATGAGAGTCAATGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCA-A-TATGAGAGCCAATGTAAGACCATG
* *
103909207 TCTAGG-ACATGGCATCGGCATTGAGACGAGA
64 T-TTGGAACATGGCATCGGCATTGAGATGAGA
* * * * * *
103909238 GCTAGTGTAAGACCATGTTTGGGACATGGCATCAGTCTCAACATGTGAGCCAGTGTAAAACCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC-GAC-CAATATGAGAGCCAATGTAAGACCATG
103909303 TTTGGAACATGG
64 TTTGGAACATGG
103909315 TATCAACAAT
Statistics
Matches: 214, Mismatches: 43, Indels: 24
0.76 0.15 0.09
Matches are distributed among these distances:
95 6 0.03
96 201 0.94
97 5 0.02
98 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (94 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCAATATGAGAGCCAATGTAAGACCATGTT
TGGAACATGGCATCGGCATTGAGATGAGA
Found at i:103917030 original size:43 final size:43
Alignment explanation
Indices: 103916911--103917031 Score: 133
Period size: 43 Copynumber: 2.8 Consensus size: 43
103916901 ACACGTATCG
* * *
103916911 ATGCCACTGTCCCACACAGGGTCTT--ATGCGAAGTTGATTAACA
1 ATGCCACTGTCCCACACAGGGTCTTACATG-TAA-TCGAATAACA
* *
103916954 ATGCCGA-TGTCCCACACATGGTCTTACAAGTAATCGTAAT-ACA
1 ATGCC-ACTGTCCCACACAGGGTCTTACATGTAATCG-AATAACA
103916997 ATGCCACTGTCCCACACAGGGTCTTACATGTAATC
1 ATGCCACTGTCCCACACAGGGTCTTACATGTAATC
103917032 ACATCTCAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
42 1 0.02
43 58 0.88
44 5 0.08
45 2 0.03
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (43 bp):
ATGCCACTGTCCCACACAGGGTCTTACATGTAATCGAATAACA
Found at i:103919102 original size:20 final size:21
Alignment explanation
Indices: 103919064--103919103 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
103919054 GTTAAGATAA
103919064 CACACGGGCTTGTTGCCCTTC
1 CACACGGGCTTGTTGCCCTTC
103919085 CACACGGGCTTG-TGCCCTT
1 CACACGGGCTTGTTGCCCTT
103919104 GTCAACTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.10, C:0.38, G:0.25, T:0.28
Consensus pattern (21 bp):
CACACGGGCTTGTTGCCCTTC
Found at i:103925350 original size:48 final size:47
Alignment explanation
Indices: 103925291--103925561 Score: 224
Period size: 48 Copynumber: 5.7 Consensus size: 47
103925281 TATGTGTGCT
103925291 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGATATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACGATATGAGAGCC
* * * * * * * *
103925339 AGTGTAAGACCATGTTTAGAACATGGCATTGGCATTGATATGTGCGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA-CGATATGAGAGCC
* *
103925387 AGTGTAAGACCATGTCTGGCACATGGCATCGACCAC-ATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCG-GCACGA-TATGAGAGCC
* * ** * * * * *
103925435 AATGTAATACCATGTCTAAGACATGACATCGGCATTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA-CGATATGAGAGCC
* * *
103925483 AGTGTAAGACCATGTCTGGGACATAGCATCGGC-CTTAACATGTA-AGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC--GATATG-AGAGCC
* * *
103925531 AGTGTAGGACCATGTTTGGAACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
103925562 ACAATTCACC
Statistics
Matches: 172, Mismatches: 43, Indels: 16
0.74 0.19 0.07
Matches are distributed among these distances:
47 4 0.02
48 164 0.95
49 4 0.02
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGATATGAGAGCC
Found at i:103925416 original size:96 final size:95
Alignment explanation
Indices: 103925278--103925561 Score: 340
Period size: 96 Copynumber: 3.0 Consensus size: 95
103925268 GACATTTGGG
*
103925278 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGATATGAGAGCCAGTG
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTAC-ATATGAGAGCCAGTG
*
103925343 TAAGACCATGTTTAGAACATGGCATTGGCAT
65 TAAGACCATGTTTAGAACATGGCATCGGCAT
* * * * *
103925374 TGATATGTGCGCTAGTGTAAGACCATGTCTGGCACATGGCATCGACCACATTATGAGAGCCAATG
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACA-TATGAGAGCCAGTG
* * *
103925439 TAATACCATGTCTA-AGACATGACATCGGCAT
65 TAAGACCATGTTTAGA-ACATGGCATCGGCAT
* * * * *
103925470 TGAGACGAGAGCTAGTGTAAGACCATGTCTGGGACATAGCATCGGCCTTA-ACATGTA-AGCCAG
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-C-TACATATG-AGAGCCAG
* *
103925533 TGTAGGACCATGTTTGGAACATGGCATCG
63 TGTAAGACCATGTTTAGAACATGGCATCG
103925562 ACAATTCACC
Statistics
Matches: 158, Mismatches: 24, Indels: 12
0.81 0.12 0.06
Matches are distributed among these distances:
95 2 0.01
96 151 0.96
97 4 0.03
98 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (95 bp):
TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACATATGAGAGCCAGTGT
AAGACCATGTTTAGAACATGGCATCGGCAT
Found at i:103932211 original size:21 final size:21
Alignment explanation
Indices: 103932187--103932227 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
103932177 ATAAAAAATC
*
103932187 AATTTACATTAA-ATAATTTTA
1 AATTTAAATTAATAT-ATTTTA
103932208 AATTTAAATTAATATATTTT
1 AATTTAAATTAATATATTTT
103932228 CATTAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (21 bp):
AATTTAAATTAATATATTTTA
Found at i:103935803 original size:29 final size:28
Alignment explanation
Indices: 103935767--103935844 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
103935757 TCATGAGATT
103935767 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
103935797 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
103935824 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
103935845 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:103936062 original size:174 final size:174
Alignment explanation
Indices: 103935797--103936124 Score: 620
Period size: 174 Copynumber: 1.9 Consensus size: 174
103935787 AAATTGTACA
103935797 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
103935862 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
103935927 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
103935971 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
103936036 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
103936101 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
103936125 ACCTTGAGTT
Statistics
Matches: 150, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 150 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:103948062 original size:43 final size:43
Alignment explanation
Indices: 103948015--103948129 Score: 151
Period size: 43 Copynumber: 2.7 Consensus size: 43
103948005 TCACATATCA
*
103948015 ATGCCAATGTCCCAGACATGGCCTTACACGAAATCAT-ATAACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCATAAT-ACG
* * * ** *
103948058 ATGCCAATGTCCCAGATATAGTCTTACACGTAATTGTAATATG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCATAATACG
103948101 ATGCCAATGTCCCAGACATGGTCTTACAC
1 ATGCCAATGTCCCAGACATGGTCTTACAC
103948130 ATAACCATGT
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
43 60 0.97
44 2 0.03
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCATAATACG
Found at i:103948705 original size:20 final size:21
Alignment explanation
Indices: 103948680--103948722 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
103948670 TCACTTAACA
103948680 AAACTTTAATATCT-ATCATC
1 AAACTTTAATATCTCATCATC
* *
103948700 AAACTTTCATATTTCATCATC
1 AAACTTTAATATCTCATCATC
103948721 AA
1 AA
103948723 TCATTCAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.40, C:0.21, G:0.00, T:0.40
Consensus pattern (21 bp):
AAACTTTAATATCTCATCATC
Found at i:103955708 original size:43 final size:43
Alignment explanation
Indices: 103955673--103955796 Score: 137
Period size: 43 Copynumber: 2.9 Consensus size: 43
103955663 CTTACATGTT
103955673 ATCACATATCGATGCCAATGTCCCAGACATGGTCTTACACGAA
1 ATCACATATCGATGCCAATGTCCCAGACATGGTCTTACACGAA
** * * * *
103955716 ATCTTATAACGGTGCCAGTGTCCCAGATATGGTCTTACAC-ACA
1 ATCACATATCGATGCCAATGTCCCAGACATGGTCTTACACGA-A
*
103955759 ATCGCAATAT-GATGCCAATGTCCCCA-ACATGGTCTTAC
1 ATCAC-ATATCGATGCCAATGT-CCCAGACATGGTCTTAC
103955797 TCATAATCAC
Statistics
Matches: 66, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
42 1 0.02
43 58 0.88
44 7 0.11
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (43 bp):
ATCACATATCGATGCCAATGTCCCAGACATGGTCTTACACGAA
Found at i:103958247 original size:40 final size:39
Alignment explanation
Indices: 103958200--103958403 Score: 291
Period size: 40 Copynumber: 5.1 Consensus size: 39
103958190 CGGGCTTTAA
* * * * *
103958200 CCGGATATAGCCACTCACTCAAATGCCTTCGGGACATAGT
1 CCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGC
*
103958240 CCGGATATAGTAGTTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTA-CTCGCACAAATGCCTTCGGGACTTAGC
*
103958280 CCGGATATAGTAACTCGTACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGC
*
103958320 CCGGATATAGTAGGTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTA-CTCGCACAAATGCCTTCGGGACTTAGC
103958360 CCGGATATAGTACTTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAC-TCGCACAAATGCCTTCGGGACTTAGC
103958400 CCGG
1 CCGG
103958404 NNNNNNNNNN
Statistics
Matches: 149, Mismatches: 11, Indels: 8
0.89 0.07 0.05
Matches are distributed among these distances:
39 2 0.01
40 146 0.98
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (39 bp):
CCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:103973667 original size:40 final size:40
Alignment explanation
Indices: 103973601--103973863 Score: 392
Period size: 40 Copynumber: 6.6 Consensus size: 40
103973591 GCCACTCCCT
** *
103973601 CAAATGCCTTCGGG--TTAGCCCGG-ATATAGTAGTTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
103973639 CAAAAGCCTTCGGGACTTAGCCCGG-ATATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
103973679 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
103973719 CAAATGCCTTCGGGACTTAGCCCGG-ATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
*
103973759 CAAATACCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* *
103973799 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
103973839 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
103973864 TTATCATCCG
Statistics
Matches: 209, Mismatches: 11, Indels: 8
0.92 0.05 0.04
Matches are distributed among these distances:
38 13 0.06
39 2 0.01
40 190 0.91
41 4 0.02
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:103982727 original size:40 final size:41
Alignment explanation
Indices: 103982529--103982713 Score: 215
Period size: 40 Copynumber: 4.6 Consensus size: 41
103982519 TTGAATGATG
* * *
103982529 TCCGGGCTAAGTCCC-AAGGGC-TTTGTGCTAAGTGACCAT-A
1 TCCGGGCTAAGTCCCGAA-GGCATTTGTGC-GAGTTACTATAA
* * *
103982569 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-AT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
103982609 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
103982648 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
103982689 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
103982714 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.63
41 12 0.10
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:103982736 original size:79 final size:79
Alignment explanation
Indices: 103982582--103982746 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
103982572 GGACTAAGAT
* **
103982582 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
* *
103982647 ATCCGGGTTAAGTC
66 ATCCGAGTTAAATC
* *
103982661 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
103982724 TATATCC-AGTTAAATT
63 TAAATCCGAGTTAAATC
103982740 CCGAAGG
1 CCGAAGG
103982747 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGAGTTAAATC
Found at i:103984767 original size:44 final size:44
Alignment explanation
Indices: 103984718--103984802 Score: 161
Period size: 44 Copynumber: 1.9 Consensus size: 44
103984708 AAGCTCTTTC
*
103984718 CCCTCTTTTTCTTTCTTCTATTCGGCCAAGTTCAACAACATTTT
1 CCCTCTTTTTCTTTCATCTATTCGGCCAAGTTCAACAACATTTT
103984762 CCCTCTTTTTCTTTCATCTATTCGGCCAAGTTCAACAACAT
1 CCCTCTTTTTCTTTCATCTATTCGGCCAAGTTCAACAACAT
103984803 GAGAACTTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.20, C:0.31, G:0.07, T:0.42
Consensus pattern (44 bp):
CCCTCTTTTTCTTTCATCTATTCGGCCAAGTTCAACAACATTTT
Found at i:103984815 original size:44 final size:44
Alignment explanation
Indices: 103984720--103984820 Score: 130
Period size: 44 Copynumber: 2.3 Consensus size: 44
103984710 GCTCTTTCCC
* *****
103984720 CTCTTTTTCTTTCTTCTATTCGGCCAAGTTCAACAACATTTTCC
1 CTCTTTTTCTTTCATCTATTCGGCCAAGTTCAACAACATGAGAA
103984764 CTCTTTTTCTTTCATCTATTCGGCCAAGTTCAACAACATGAGAA
1 CTCTTTTTCTTTCATCTATTCGGCCAAGTTCAACAACATGAGAA
* *
103984808 CTTTTTTTTTTTC
1 CTCTTTTTCTTTC
103984821 TTCATCATTT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 49 1.00
ACGTcount: A:0.20, C:0.26, G:0.08, T:0.47
Consensus pattern (44 bp):
CTCTTTTTCTTTCATCTATTCGGCCAAGTTCAACAACATGAGAA
Found at i:103985729 original size:23 final size:23
Alignment explanation
Indices: 103985703--103985747 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
103985693 ATTTCGTAAA
*
103985703 CTTATGTTAATGATGGTGATGAG
1 CTTATGTTAATGACGGTGATGAG
103985726 CTTATGTTAATGACGGTGATGA
1 CTTATGTTAATGACGGTGATGA
103985748 TTGATCTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.38
Consensus pattern (23 bp):
CTTATGTTAATGACGGTGATGAG
Found at i:103997720 original size:19 final size:21
Alignment explanation
Indices: 103997691--103997731 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
103997681 CTAAACTAAT
*
103997691 AACTTATGAAATTTCT-AAAA
1 AACTTATGAAAATTCTGAAAA
103997711 AACTTA-GAAAATTCTGAAAA
1 AACTTATGAAAATTCTGAAAA
103997731 A
1 A
103997732 TATAGGGGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.54, C:0.10, G:0.07, T:0.29
Consensus pattern (21 bp):
AACTTATGAAAATTCTGAAAA
Found at i:104001716 original size:42 final size:42
Alignment explanation
Indices: 104001608--104001730 Score: 140
Period size: 43 Copynumber: 2.9 Consensus size: 42
104001598 AGTACTGTAC
* * *
104001608 CAATGCCATATCCCAAATATGGTTTTACATGTAATCTCGTAT
1 CAATGCCATATCCCAGATATGGTCTTACATGTAATCTCATAT
* * * *
104001650 CGATGCCAATAGCCCAGCTATGGTCCTACATG-AAGTCTCATAT
1 CAATGCC-ATATCCCAGATATGGTCTTACATGTAA-TCTCATAT
**
104001693 CAATGCCATATCCCAGATATGGTCTTACACATAATCTC
1 CAATGCCATATCCCAGATATGGTCTTACATGTAATCTC
104001731 GGTAACCCTA
Statistics
Matches: 65, Mismatches: 13, Indels: 6
0.77 0.15 0.07
Matches are distributed among these distances:
42 31 0.48
43 34 0.52
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (42 bp):
CAATGCCATATCCCAGATATGGTCTTACATGTAATCTCATAT
Found at i:104005088 original size:56 final size:55
Alignment explanation
Indices: 104005020--104005128 Score: 164
Period size: 56 Copynumber: 2.0 Consensus size: 55
104005010 CTTGCCTTGA
* *
104005020 TTGAAAGAGTGGTTTAGCCCGCTTAAACCGTTGACGAAGGTTGATTACACCCTCC
1 TTGAAAGAGTGGTTTAGCCCGCTTAAACAGTTGACGAAGGCTGATTACACCCTCC
* * *
104005075 TTGAAGAGTGTGGTTTAGCCCGTTTAAACAGTTGACGAAGGCTGATTTCACCCT
1 TTGAA-AGAGTGGTTTAGCCCGCTTAAACAGTTGACGAAGGCTGATTACACCCT
104005129 TCTTATCGAA
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
55 5 0.10
56 43 0.90
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (55 bp):
TTGAAAGAGTGGTTTAGCCCGCTTAAACAGTTGACGAAGGCTGATTACACCCTCC
Found at i:104005443 original size:45 final size:45
Alignment explanation
Indices: 104005379--104005468 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
104005369 TCCTCCACTC
104005379 CTCGAGAAGGTCTAGAAACTGAAAGAACACCACACATAAGAGAAG
1 CTCGAGAAGGTCTAGAAACTGAAAGAACACCACACATAAGAGAAG
104005424 CTCGAGAAGGTCTAGAAACTGAAAGAACACCACACATAAGAGAAG
1 CTCGAGAAGGTCTAGAAACTGAAAGAACACCACACATAAGAGAAG
104005469 GAAGATAAGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.47, C:0.20, G:0.22, T:0.11
Consensus pattern (45 bp):
CTCGAGAAGGTCTAGAAACTGAAAGAACACCACACATAAGAGAAG
Found at i:104006197 original size:24 final size:24
Alignment explanation
Indices: 104006170--104006267 Score: 128
Period size: 24 Copynumber: 4.0 Consensus size: 24
104006160 AAGGATGTCA
*
104006170 GGAGAAGATTTAGGAACTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
*
104006194 GGAG-AGTATTTAGGAGTTGATAAG
1 GGAGAAG-ATTTAGGAGCTGATAAG
*
104006218 GGA-AATGATTTAGGAGCTGATAAA
1 GGAGAA-GATTTAGGAGCTGATAAG
104006242 GGAGAAGATTTAGGAGCTGATCAAG
1 GGAGAAGATTTAGGAGCTGAT-AAG
104006267 G
1 G
104006268 AGCAGGAGTT
Statistics
Matches: 64, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
23 2 0.03
24 56 0.88
25 6 0.09
ACGTcount: A:0.38, C:0.04, G:0.35, T:0.23
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:104013951 original size:42 final size:42
Alignment explanation
Indices: 104013832--104013953 Score: 122
Period size: 43 Copynumber: 2.9 Consensus size: 42
104013822 TACCGTACCA
* ** * *
104013832 ATGCCATATTCCAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACATAGTCTCATATCG
* * * *
104013874 ATGCGAATAGCCTA-ACTATGGTCTTACATGA-AGTCTCATATCG
1 ATGC-CATATCCCAGA-TATGGTCTTACA-CATAGTCTCATATCG
104013917 ATGCCATATCCCAGATATGGTCTTACACATAGTCTCA
1 ATGCCATATCCCAGATATGGTCTTACACATAGTCTCA
104013954 GTAACCCTAA
Statistics
Matches: 63, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
41 1 0.02
42 30 0.48
43 32 0.51
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACATAGTCTCATATCG
Found at i:104015416 original size:27 final size:27
Alignment explanation
Indices: 104015364--104015443 Score: 115
Period size: 27 Copynumber: 2.9 Consensus size: 27
104015354 GCGACAGAGT
*
104015364 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGGGC
*
104015393 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGGGC
104015420 CACCAGAACAGATAATTTGTGGCA
1 CACCAGAACAGAT-ATTTGTGGCA
104015444 TAGCCGCTAG
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
27 24 0.51
28 16 0.34
29 7 0.15
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGGGC
Found at i:104015606 original size:28 final size:28
Alignment explanation
Indices: 104015559--104015651 Score: 134
Period size: 28 Copynumber: 3.3 Consensus size: 28
104015549 AAATTAACCC
*
104015559 TAGGGGTATAGA-GGTCATTTTGCATACA
1 TAGGGGTATA-ATGGTAATTTTGCATACA
* *
104015587 TAAGGGTATAATGGTAATTTTGTATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
*
104015615 TAGGGGTATAATGGTAATTTTGCATGCA
1 TAGGGGTATAATGGTAATTTTGCATACA
104015643 TAGGGGTAT
1 TAGGGGTAT
104015652 TCTAGTACAT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 1 0.02
28 57 0.98
ACGTcount: A:0.30, C:0.06, G:0.28, T:0.35
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:104016737 original size:12 final size:13
Alignment explanation
Indices: 104016718--104016750 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
104016708 GGGTTCAGCT
104016718 ATGGAGAAGGAAG
1 ATGGAGAAGGAAG
*
104016731 A-GGAGAAGGTAG
1 ATGGAGAAGGAAG
104016743 ATGGAGAA
1 ATGGAGAA
104016751 AAAGAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.45, T:0.09
Consensus pattern (13 bp):
ATGGAGAAGGAAG
Found at i:104017611 original size:11 final size:11
Alignment explanation
Indices: 104017579--104017611 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
104017569 ATGTGTTTTT
*
104017579 TGTTTAATAAG
1 TGTTTAATATG
104017590 TGTTTAA-ATG
1 TGTTTAATATG
104017600 TGTTTAATATG
1 TGTTTAATATG
104017611 T
1 T
104017612 TTGTTTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.30, C:0.00, G:0.18, T:0.52
Consensus pattern (11 bp):
TGTTTAATATG
Found at i:104017626 original size:23 final size:21
Alignment explanation
Indices: 104017577--104017630 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 21
104017567 TAATGTGTTT
104017577 TTTGTTTAATAAGTGTTTAAA
1 TTTGTTTAATAAGTGTTTAAA
* * *
104017598 TGTGTTTAATATGTTTGTTTTAA
1 TTTGTTTAATAAG--TGTTTAAA
104017621 TTTGTTTAAT
1 TTTGTTTAAT
104017631 TGCACGTGTC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 11 0.41
23 16 0.59
ACGTcount: A:0.26, C:0.00, G:0.15, T:0.59
Consensus pattern (21 bp):
TTTGTTTAATAAGTGTTTAAA
Found at i:104021876 original size:27 final size:27
Alignment explanation
Indices: 104021845--104022032 Score: 236
Period size: 27 Copynumber: 7.0 Consensus size: 27
104021835 TAGAATACTT
* *
104021845 TAGTTTATCAAATTACCAAAATACCCC
1 TAGTTTGTAAAATTACCAAAATACCCC
* *
104021872 TAGTTTGTAAAATTACTAAAATACCCTT
1 TAGTTTGTAAAATTACCAAAATACCC-C
* *
104021900 TA-TTTATAAAATTACCAAAATAACCC
1 TAGTTTGTAAAATTACCAAAATACCCC
* *
104021926 TAGTTTGTAAAATTACGAAAAAACCCC
1 TAGTTTGTAAAATTACCAAAATACCCC
* *
104021953 TGGTTTGTAAAATTATCAAAATACCCC
1 TAGTTTGTAAAATTACCAAAATACCCC
104021980 TAGTTTGTAAAATTACCAAAATACCCC
1 TAGTTTGTAAAATTACCAAAATACCCC
* *
104022007 T-GATTTGTGAAATTACTAAAATACCC
1 TAG-TTTGTAAAATTACCAAAATACCC
104022033 TCGACCTGTA
Statistics
Matches: 138, Mismatches: 20, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
26 3 0.02
27 133 0.96
28 2 0.01
ACGTcount: A:0.41, C:0.19, G:0.07, T:0.32
Consensus pattern (27 bp):
TAGTTTGTAAAATTACCAAAATACCCC
Found at i:104021919 original size:54 final size:54
Alignment explanation
Indices: 104021848--104022086 Score: 255
Period size: 54 Copynumber: 4.4 Consensus size: 54
104021838 AATACTTTAG
* *
104021848 TTTATCAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTTA
1 TTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGA
* * * * *
104021902 TTTATAAAATTACCAAAATAACCCTAGTTTGTAAAATTACGAAAAAACCCCTGG
1 TTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGA
* * * *
104021956 TTTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGA
1 TTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGA
* * * * ** * *
104022010 TTTGTGAAATTACTAAAATA-CCCTCGACCTGTAAAATTATTAAAATACCCTCGA
1 TTTATAAAATTACCAAAATACCCCTAG-TTTGTAAAATTACTAAAATACCCTTGA
* * * *
104022064 CTTGTGAAATTACCAAAGTACCC
1 TTTATAAAATTACCAAAATACCC
104022087 TTGATGTACA
Statistics
Matches: 157, Mismatches: 26, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
53 5 0.03
54 150 0.96
55 2 0.01
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.31
Consensus pattern (54 bp):
TTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGA
Found at i:104021991 original size:81 final size:81
Alignment explanation
Indices: 104021845--104022080 Score: 246
Period size: 81 Copynumber: 2.9 Consensus size: 81
104021835 TAGAATACTT
* * * *
104021845 TAGTTTATCAAATTACCAAAATACCCCTAGTTTGTAAAATTA-CTAAAATACCCTTTATTTATAA
1 TAGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTATC-AAAATACCCTCTATTTATAA
104021909 AATTACCAAAATAACCC
65 AATTACCAAAATAACCC
* * *
104021926 TAGTTTGTAAAATTACGAAAAAACCCCTGGTTTGTAAAATTATCAAAATACCC-CTAGTTTGTAA
1 TAGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTATCAAAATACCCTCTA-TTTATAA
*
104021990 AATTACCAAAATACCCC
65 AATTACCAAAATAACCC
* * *** * * * * *
104022007 T-GATTTGTGAAATTACTAAAATA-CCCTCGACCTGTAAAATTATTAAAATACCCTCGACTTGTG
1 TAG-TTTGTAAAATTACCAAAATACCCCT-GGTTTGTAAAATTATCAAAATACCCTCTATTTATA
104022070 AAATTACCAAA
64 AAATTACCAAA
104022081 GTACCCTTGA
Statistics
Matches: 132, Mismatches: 18, Indels: 10
0.82 0.11 0.06
Matches are distributed among these distances:
80 7 0.05
81 122 0.92
82 3 0.02
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.31
Consensus pattern (81 bp):
TAGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTATCAAAATACCCTCTATTTATAAA
ATTACCAAAATAACCC
Found at i:104022046 original size:27 final size:27
Alignment explanation
Indices: 104021854--104022087 Score: 172
Period size: 27 Copynumber: 8.7 Consensus size: 27
104021844 TTAGTTTATC
* *
104021854 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-CTTGTA
* ** * *
104021881 AAATTACTAAAATACCCTTTATTTATA
1 AAATTACCAAAATACCCTCGACTTGTA
* *
104021908 AAATTACCAAAATAACCCTAG-TTTGTA
1 AAATTACCAAAAT-ACCCTCGACTTGTA
* * **
104021935 AAATTACGAAAAAACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GACTTGTA
* * *
104021962 AAATTATCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-CTTGTA
* *
104021989 AAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACCAAAATACCCTC-GACTTGTA
* *
104022016 AAATTACTAAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTCGACTTGTA
** *
104022043 AAATTATTAAAATACCCTCGACTTGTG
1 AAATTACCAAAATACCCTCGACTTGTA
*
104022070 AAATTACCAAAGTACCCT
1 AAATTACCAAAATACCCT
104022088 TGATGTACAG
Statistics
Matches: 172, Mismatches: 28, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
26 5 0.03
27 158 0.92
28 9 0.05
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGACTTGTA
Found at i:104022218 original size:81 final size:81
Alignment explanation
Indices: 104022122--104022374 Score: 272
Period size: 81 Copynumber: 3.1 Consensus size: 81
104022112 CTTCGATTTA
* * * * *
104022122 AAAAATTACCAAAATACCCTTGCAGGGTAGAAATGCTAAAATATCCTTGTAGGGTAGAAATACCA
1 AAAAA-TACCGAAATACCCCTGCAGGGTAGAAATACTAAAATACCCCTGTAGGGTAGAAATACCA
* *
104022187 AAATGCCCCTGTTGGGT
65 AAATACCCCTGTAGGGT
* * * * *
104022204 AAAAATACTGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACCGA
1 AAAAATACCGAAATACCCCTGCAGGGTAGAAATACTAAAATACCCCTGTAGGGTAGAAATACCAA
*
104022269 AATACCCTTGTAGGGT
66 AATACCCCTGTAGGGT
* * * * * * * *
104022285 AAAAATACCGAAATACCTCTGTAGGGTTGAATTATTGAAATACCCCTGTAGGGTAGAATTACCGA
1 AAAAATACCGAAATACCCCTGCAGGGTAGAAATACTAAAATACCCCTGTAGGGTAGAAATACCAA
* * *
104022350 GATACCCTTGTGGGGT
66 AATACCCCTGTAGGGT
*
104022366 AAAATTACC
1 AAAAATACC
104022375 ATGTTACCCC
Statistics
Matches: 150, Mismatches: 21, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
81 145 0.97
82 5 0.03
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.25
Consensus pattern (81 bp):
AAAAATACCGAAATACCCCTGCAGGGTAGAAATACTAAAATACCCCTGTAGGGTAGAAATACCAA
AATACCCCTGTAGGGT
Found at i:104022343 original size:27 final size:27
Alignment explanation
Indices: 104022125--104022374 Score: 239
Period size: 27 Copynumber: 9.3 Consensus size: 27
104022115 CGATTTAAAA
* * *
104022125 AATTACCAAAATACCCTTGCAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * ** * *
104022152 AAATGCTAAAATATCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * * *
104022179 AAATACCAAAATGCCCCTGTTGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
104022206 AAATACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
**
104022233 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
104022260 AATTACCGAAATACCCTTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
104022287 AAATACCGAAATACCTCTGTAGGGTTG
1 AATTACCGAAATACCCCTGTAGGGTAG
**
104022314 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
104022341 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
104022368 AATTACC
1 AATTACC
104022375 ATGTTACCCC
Statistics
Matches: 184, Mismatches: 39, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 184 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:104022749 original size:27 final size:26
Alignment explanation
Indices: 104022715--104022770 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
104022705 ATATATATAC
*
104022715 CTGTTCTGGTGGCCTAGCCACAATAT
1 CTGTTCTGGTGACCTAGCCACAATAT
* * *
104022741 CTGTATCTGGTGACTTCGTCACAATAT
1 CTGT-TCTGGTGACCTAGCCACAATAT
104022768 CTG
1 CTG
104022771 GCAGCCTCTG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 4 0.16
27 21 0.84
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.34
Consensus pattern (26 bp):
CTGTTCTGGTGACCTAGCCACAATAT
Found at i:104022790 original size:37 final size:37
Alignment explanation
Indices: 104022740--104022815 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
104022730 AGCCACAATA
104022740 TCTGTATCTGGTGACTTCGTCACAATATCTGGCAGCC
1 TCTGTATCTGGTGACTTCGTCACAATATCTGGCAGCC
104022777 TCTGTATCTGGTGACTTCGTCACAATATCTGGCAGCC
1 TCTGTATCTGGTGACTTCGTCACAATATCTGGCAGCC
104022814 TC
1 TC
104022816 GCTGCAAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.18, C:0.28, G:0.21, T:0.33
Consensus pattern (37 bp):
TCTGTATCTGGTGACTTCGTCACAATATCTGGCAGCC
Found at i:104022941 original size:6 final size:6
Alignment explanation
Indices: 104022926--104023103 Score: 141
Period size: 6 Copynumber: 28.8 Consensus size: 6
104022916 TTGCATTCAC
* *
104022926 ATTCTG -TTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTACCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATT--CTG ATTCTG
* *
104022976 ATTCTG GTTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG
* * * *
104023025 -TTACCTA ATTATG ATTCTG ATTCTG ATTTTG ATTCTG -TCACCTG ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG
* *
104023075 ATTCTG ATTCTG ATTCTC ATTTTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCT
104023104 AGTTCTGACA
Statistics
Matches: 137, Mismatches: 20, Indels: 30
0.73 0.11 0.16
Matches are distributed among these distances:
5 12 0.09
6 104 0.76
7 11 0.08
8 10 0.07
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:104023016 original size:25 final size:26
Alignment explanation
Indices: 104022985--104023049 Score: 107
Period size: 25 Copynumber: 2.6 Consensus size: 26
104022975 GATTCTGGTT
*
104022985 CTGATTCTGATTCTGTTACCTGA-TA
1 CTGATTCTGATTCTGTTACCTAATTA
104023010 CTGATTCTGATTCTGTTACCTAATTA
1 CTGATTCTGATTCTGTTACCTAATTA
104023036 -TGATTCTGATTCTG
1 CTGATTCTGATTCTG
104023050 ATTTTGATTC
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
25 36 0.95
26 2 0.05
ACGTcount: A:0.20, C:0.18, G:0.15, T:0.46
Consensus pattern (26 bp):
CTGATTCTGATTCTGTTACCTAATTA
Found at i:104023045 original size:37 final size:37
Alignment explanation
Indices: 104023004--104023091 Score: 131
Period size: 37 Copynumber: 2.4 Consensus size: 37
104022994 ATTCTGTTAC
* *
104023004 CTGATACTGATTCTGATTCTGTTACCTAATTATGATT
1 CTGATTCTGATTCTGATTCTGTCACCTAATTATGATT
* * *
104023041 CTGATTCTGATTTTGATTCTGTCACCTGATTCTGATT
1 CTGATTCTGATTCTGATTCTGTCACCTAATTATGATT
104023078 CTGATTCTGATTCT
1 CTGATTCTGATTCT
104023092 CATTTTGATT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.19, C:0.18, G:0.15, T:0.48
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTGTCACCTAATTATGATT
Found at i:104023100 original size:18 final size:18
Alignment explanation
Indices: 104022953--104023091 Score: 77
Period size: 19 Copynumber: 7.4 Consensus size: 18
104022943 TTACCTGATA
*
104022953 CTGATTCTGATTACCTAATT
1 CTGATTCTGATT--CTCATT
* *
104022973 CTGATTCTGGTTCTGATT
1 CTGATTCTGATTCTCATT
* *
104022991 CTGATTCTG-TTACCTGATA
1 CTGATTCTGATT--CTCATT
*
104023010 CTGATTCTGATTCT-GTT
1 CTGATTCTGATTCTCATT
* * *
104023027 ACCTAATTATGATTCTGATT
1 --CTGATTCTGATTCTCATT
* *
104023047 CTGATTTTGATTCTGTCA-C
1 CTGATTCTGATTC--TCATT
*
104023066 CTGATTCTGATTCTGATT
1 CTGATTCTGATTCTCATT
104023084 CTGATTCT
1 CTGATTCT
104023092 CATTTTGATT
Statistics
Matches: 95, Mismatches: 15, Indels: 20
0.73 0.12 0.15
Matches are distributed among these distances:
17 5 0.05
18 35 0.37
19 38 0.40
20 17 0.18
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.47
Consensus pattern (18 bp):
CTGATTCTGATTCTCATT
Found at i:104023301 original size:59 final size:58
Alignment explanation
Indices: 104023229--104023341 Score: 199
Period size: 59 Copynumber: 1.9 Consensus size: 58
104023219 TAGTAGGGGA
104023229 TTTCACACTGAGTTTTCATAAACTCACCCCGTTTAATAACCTTTCAGGTAATTTCTAGC
1 TTTCACACTGAGTTTTCATAAACTCACCCCG-TTAATAACCTTTCAGGTAATTTCTAGC
* *
104023288 TTTCACACTGAGTTTTCGTAAACTCACCCCGTTATTAACCTTTCAGGTAATTTC
1 TTTCACACTGAGTTTTCATAAACTCACCCCGTTAATAACCTTTCAGGTAATTTC
104023342 CAGCCTTAGA
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
58 22 0.42
59 30 0.58
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.38
Consensus pattern (58 bp):
TTTCACACTGAGTTTTCATAAACTCACCCCGTTAATAACCTTTCAGGTAATTTCTAGC
Found at i:104025105 original size:27 final size:27
Alignment explanation
Indices: 104025074--104025234 Score: 216
Period size: 27 Copynumber: 6.0 Consensus size: 27
104025064 TAGAATACTT
* *
104025074 TAGTTTATCAAATTACCAAAATACCCC
1 TAGTTTGTAAAATTACCAAAATACCCC
* *
104025101 TAGTTTGTAAAATTACTAAAATACCCT
1 TAGTTTGTAAAATTACCAAAATACCCC
* *
104025128 TTGTTTATAAAATTACCAAAATACCCC
1 TAGTTTGTAAAATTACCAAAATACCCC
*
104025155 TAGTTTGTAAAATTACGAAAATACCCC
1 TAGTTTGTAAAATTACCAAAATACCCC
*
104025182 TGGTTTGTAAAATTACCAAAATACCCC
1 TAGTTTGTAAAATTACCAAAATACCCC
* *
104025209 T-GATTTGTGAAATTACTAAAATACCC
1 TAG-TTTGTAAAATTACCAAAATACCC
104025235 TCAACCTGTA
Statistics
Matches: 118, Mismatches: 15, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
26 1 0.01
27 117 0.99
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (27 bp):
TAGTTTGTAAAATTACCAAAATACCCC
Found at i:104025148 original size:54 final size:54
Alignment explanation
Indices: 104025071--104025235 Score: 251
Period size: 54 Copynumber: 3.0 Consensus size: 54
104025061 ATTTAGAATA
*
104025071 CTTTAGTTTATCAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACC
1 CTTT-GTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACC
*
104025126 CTTTGTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACGAAAATACC
1 CTTTGTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACC
* * * *
104025180 CCTGGTTTGTAAAATTACCAAAATACCCCT-GATTTGTGAAATTACTAAAATACC
1 CTTTGTTTATAAAATTACCAAAATACCCCTAG-TTTGTAAAATTACTAAAATACC
104025234 CT
1 CT
104025236 CAACCTGTAA
Statistics
Matches: 101, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
53 1 0.01
54 96 0.95
55 4 0.04
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (54 bp):
CTTTGTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACC
Found at i:104025245 original size:54 final size:54
Alignment explanation
Indices: 104025083--104025289 Score: 222
Period size: 54 Copynumber: 3.8 Consensus size: 54
104025073 TTAGTTTATC
* ** *
104025083 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACGAAAATACCCTCAGTTTGTA
*
104025137 AAATTACCAAAATACCCCTAGTTTGTAAAATTACGAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACGAAAATACCCTC-AGTTTGTA
* * ***
104025191 AAATTACCAAAATACCCCT-GATTTGTGAAATTACTAAAATACCCTCAACCTGTA
1 AAATTACCAAAATACCCCTAG-TTTGTAAAATTACGAAAATACCCTCAGTTTGTA
** * * * *
104025245 AAATTATTAAAATA-CCCTCGACTTGTGAAATTACGAAAGTACCCT
1 AAATTACCAAAATACCCCTAG-TTTGTAAAATTACGAAAATACCCT
104025290 TGATGTACAG
Statistics
Matches: 134, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
53 5 0.04
54 128 0.96
55 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACGAAAATACCCTCAGTTTGTA
Found at i:104025245 original size:81 final size:81
Alignment explanation
Indices: 104025083--104025261 Score: 218
Period size: 81 Copynumber: 2.2 Consensus size: 81
104025073 TTAGTTTATC
* *
104025083 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAATTACCAAA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTCTGTTTATAAAATTACCAAA
***
104025148 ATACCCCTAGTTTGTA
66 ATACCCCTAACCTGTA
* * * * *
104025164 AAATTACGAAAATACCCCTGGTTTGTAAAATTACCAAAATACCC-CTGATTTGTGAAATTACTAA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTCTG-TTTATAAAATTACCAA
104025228 AATA-CCCTCAACCTGTA
65 AATACCCCT-AACCTGTA
**
104025245 AAATTATTAAAATACCC
1 AAATTACCAAAATACCC
104025262 TCGACTTGTG
Statistics
Matches: 84, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
80 6 0.07
81 78 0.93
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (81 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTCTGTTTATAAAATTACCAAA
ATACCCCTAACCTGTA
Found at i:104025248 original size:27 final size:27
Alignment explanation
Indices: 104025083--104025289 Score: 145
Period size: 27 Copynumber: 7.7 Consensus size: 27
104025073 TTAGTTTATC
* * *
104025083 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACTAAAATACCCTCGA-CTTGTA
* * *
104025110 AAATTACTAAAATACCCTTTG-TTTATA
1 AAATTACTAAAATACCC-TCGACTTGTA
* * *
104025137 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACTAAAATACCCTCGA-CTTGTA
* **
104025164 AAATTACGAAAATACCC-CTGGTTTGTA
1 AAATTACTAAAATACCCTC-GACTTGTA
* * *
104025191 AAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACTAAAATACCCTC-GACTTGTA
* *
104025218 AAATTACTAAAATACCCTCAACCTGTA
1 AAATTACTAAAATACCCTCGACTTGTA
* *
104025245 AAATTATTAAAATACCCTCGACTTGTG
1 AAATTACTAAAATACCCTCGACTTGTA
* *
104025272 AAATTACGAAAGTACCCT
1 AAATTACTAAAATACCCT
104025290 TGATGTACAG
Statistics
Matches: 148, Mismatches: 26, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
27 147 0.99
28 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATTACTAAAATACCCTCGACTTGTA
Found at i:104025341 original size:27 final size:27
Alignment explanation
Indices: 104025254--104025343 Score: 74
Period size: 27 Copynumber: 3.3 Consensus size: 27
104025244 AAAATTATTA
* ***
104025254 AAATACCCTCGACTTGTGAAATTA-CG
1 AAATACCCTCGATTTACAAAATTACCG
* * *
104025280 AAAGTACCCTTGATGTACAGAATTACCG
1 AAA-TACCCTCGATTTACAAAATTACCG
***
104025308 TTTTACCCTCGATTTACAAAATTACCG
1 AAATACCCTCGATTTACAAAATTACCG
104025335 AAATACCCT
1 AAATACCCT
104025344 TGCAGGGTAG
Statistics
Matches: 46, Mismatches: 16, Indels: 3
0.71 0.25 0.05
Matches are distributed among these distances:
26 3 0.07
27 41 0.89
28 2 0.04
ACGTcount: A:0.34, C:0.24, G:0.12, T:0.29
Consensus pattern (27 bp):
AAATACCCTCGATTTACAAAATTACCG
Found at i:104025545 original size:27 final size:27
Alignment explanation
Indices: 104025327--104025576 Score: 248
Period size: 27 Copynumber: 9.3 Consensus size: 27
104025317 CGATTTACAA
* *
104025327 AATTACCGAAATACCCTTGCAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * * *
104025354 AAATGCTGAAATATCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * * *
104025381 AAATACCAAAATGCCCCTGTTGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
104025408 AAATACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
**
104025435 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
104025462 AATTACCGAAATACTCTTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
104025489 AAATACCGAAATACCCCTGTAGGGTTG
1 AATTACCGAAATACCCCTGTAGGGTAG
**
104025516 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * * *
104025543 AATTATCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
104025570 AATTACC
1 AATTACC
104025577 ATGTTACCCC
Statistics
Matches: 183, Mismatches: 40, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 183 1.00
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:104025587 original size:81 final size:81
Alignment explanation
Indices: 104025325--104025576 Score: 306
Period size: 81 Copynumber: 3.1 Consensus size: 81
104025315 CTCGATTTAC
* * * * * * * * * *
104025325 AAAATTACCGAAATACCCTTGCAGGGTAGAAATGCTGAAATATCCTTGTAGGGTAGAAATACCAA
1 AAAAATACCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACCGA
* * *
104025390 AATGCCCCTGTTGGGT
66 AATACCCTTGTAGGGT
*
104025406 AAAAATACTGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACCGA
1 AAAAATACCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACCGA
*
104025471 AATACTCTTGTAGGGT
66 AATACCCTTGTAGGGT
* * * *
104025487 AAAAATACCGAAATACCCCTGTAGGGTTGAATTATTGAAATACCCCTGTAGGGTAGAATTATCGA
1 AAAAATACCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACCGA
* *
104025552 GATACCCTTGTGGGGT
66 AATACCCTTGTAGGGT
*
104025568 AAAATTACC
1 AAAAATACC
104025577 ATGTTACCCC
Statistics
Matches: 147, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 147 1.00
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (81 bp):
AAAAATACCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACCGA
AATACCCTTGTAGGGT
Found at i:104025951 original size:27 final size:26
Alignment explanation
Indices: 104025917--104025972 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
104025907 ATATATATAC
*
104025917 CTGTTCTGGTGGCCTAGCCACAATAT
1 CTGTTCTGGTGACCTAGCCACAATAT
* * *
104025943 CTGTATCTGGTGACTTCGTCACAATAT
1 CTGT-TCTGGTGACCTAGCCACAATAT
104025970 CTG
1 CTG
104025973 GCAGCCTCGC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 4 0.16
27 21 0.84
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.34
Consensus pattern (26 bp):
CTGTTCTGGTGACCTAGCCACAATAT
Found at i:104026100 original size:6 final size:6
Alignment explanation
Indices: 104026091--104026278 Score: 127
Period size: 6 Copynumber: 30.3 Consensus size: 6
104026081 TTGCATTCAC
* * *
104026091 ATTCTG ATTCTG ATTCTG -TTACCTG ATACTA ATTCTG ATTACCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATT--CTG ATTCTG
* *
104026142 ATTCT- AGTTCTG ATTATG ATTCTG -TTACCTG ATACTG ATTCTG ATTCT-
1 ATTCTG A-TTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG
* * * *
104026190 ATTACCTA ATTCTA ATTCTG ATTCTG ATTTTG ATTCTG -TCACCTG ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG
* *
104026241 ATTCTG ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
104026279 AATGTTTCTT
Statistics
Matches: 145, Mismatches: 19, Indels: 36
0.73 0.09 0.18
Matches are distributed among these distances:
5 10 0.07
6 111 0.77
7 13 0.09
8 11 0.08
ACGTcount: A:0.21, C:0.18, G:0.13, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:104026125 original size:25 final size:25
Alignment explanation
Indices: 104026097--104026215 Score: 80
Period size: 25 Copynumber: 4.5 Consensus size: 25
104026087 TCACATTCTG
104026097 ATTCTGATTCTGTTACCTGATACTA
1 ATTCTGATTCTGTTACCTGATACTA
* *
104026122 ATTCTGATTACCTAATT--CTGATTCTA
1 ATTCTGATT--CT-GTTACCTGATACTA
* *
104026148 GTTCTGATTATGATTCTGTTACCTGATACTG
1 ATTC----T--GATTCTGTTACCTGATACTA
* * *
104026179 ATTCTGATTCTATTACCTAATTCTA
1 ATTCTGATTCTGTTACCTGATACTA
104026204 ATTCTGATTCTG
1 ATTCTGATTCTG
104026216 ATTTTGATTC
Statistics
Matches: 71, Mismatches: 12, Indels: 22
0.68 0.11 0.21
Matches are distributed among these distances:
25 36 0.51
26 11 0.15
27 3 0.04
28 2 0.03
29 2 0.03
30 3 0.04
31 10 0.14
32 4 0.06
ACGTcount: A:0.24, C:0.18, G:0.12, T:0.46
Consensus pattern (25 bp):
ATTCTGATTCTGTTACCTGATACTA
Found at i:104026211 original size:37 final size:37
Alignment explanation
Indices: 104026170--104026257 Score: 122
Period size: 37 Copynumber: 2.4 Consensus size: 37
104026160 ATTCTGTTAC
* *
104026170 CTGATACTGATTCTGATTCTATTACCTAATTCTAATT
1 CTGATTCTGATTCTGATTCTATCACCTAATTCTAATT
* * * *
104026207 CTGATTCTGATTTTGATTCTGTCACCTGATTCTGATT
1 CTGATTCTGATTCTGATTCTATCACCTAATTCTAATT
104026244 CTGATTCTGATTCT
1 CTGATTCTGATTCT
104026258 CATTTTGATT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.20, C:0.19, G:0.12, T:0.48
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTATCACCTAATTCTAATT
Found at i:104026224 original size:62 final size:61
Alignment explanation
Indices: 104026091--104026251 Score: 215
Period size: 62 Copynumber: 2.7 Consensus size: 61
104026081 TTGCATTCAC
* * *
104026091 ATTCTGATTCTGATTCTGTTACCTGATACTAATTCTG-----ATTACCTAATTCTGATTCT
1 ATTCTGATTATGATTCTGTTACCTGATACTGATTCTGATTCTATTACCTAATTCTAATTCT
104026147 AGTTCTGATTATGATTCTGTTACCTGATACTGATTCTGATTCTATTACCTAATTCTAATTCT
1 A-TTCTGATTATGATTCTGTTACCTGATACTGATTCTGATTCTATTACCTAATTCTAATTCT
* * *
104026209 GATTCTGATTTTGATTCTGTCACCTGATTCTGATTCTGATTCT
1 -ATTCTGATTATGATTCTGTTACCTGATACTGATTCTGATTCT
104026252 GATTCTCATT
Statistics
Matches: 92, Mismatches: 6, Indels: 8
0.87 0.06 0.08
Matches are distributed among these distances:
56 1 0.01
57 34 0.37
62 56 0.61
63 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.12, T:0.47
Consensus pattern (61 bp):
ATTCTGATTATGATTCTGTTACCTGATACTGATTCTGATTCTATTACCTAATTCTAATTCT
Found at i:104027673 original size:41 final size:41
Alignment explanation
Indices: 104027628--104027709 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 41
104027618 GTCAAGGAAA
*
104027628 TCAAAGAGCACAAGTCCCTCCAGGCTTCCAACAATAACCTT
1 TCAAAGAGCACAAGTCCCTCCAGGCTTCCAACAACAACCTT
* *
104027669 TCAAATAGCACAAGTCCCTCCGGGCTTCCAACAACAACCTT
1 TCAAAGAGCACAAGTCCCTCCAGGCTTCCAACAACAACCTT
104027710 ACCAGCAAGA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.33, C:0.35, G:0.12, T:0.20
Consensus pattern (41 bp):
TCAAAGAGCACAAGTCCCTCCAGGCTTCCAACAACAACCTT
Found at i:104033926 original size:106 final size:106
Alignment explanation
Indices: 104033741--104033952 Score: 397
Period size: 106 Copynumber: 2.0 Consensus size: 106
104033731 TTGAAGAACC
* *
104033741 GAATGTGAAAGAAGTTTAGGGGAGGAACATCATTCGGTCATCGTAGTCTTAATTAAGGTAAGAAG
1 GAATGTAAAAGAAGTTTAGGGGAGGAACATCATTCGGTCATCCTAGTCTTAATTAAGGTAAGAAG
104033806 TTTTGGTTAATTCTTGAAATTTTAGTTAAATTCTAGTAAAT
66 TTTTGGTTAATTCTTGAAATTTTAGTTAAATTCTAGTAAAT
*
104033847 GAATGTAAAAGAAGTTTAGGGGAGGAAGATCATTCGGTCATCCTAGTCTTAATTAAGGTAAGAAG
1 GAATGTAAAAGAAGTTTAGGGGAGGAACATCATTCGGTCATCCTAGTCTTAATTAAGGTAAGAAG
104033912 TTTTGGTTAATTCTTGAAATTTTAGTTAAATTCTAGTAAAT
66 TTTTGGTTAATTCTTGAAATTTTAGTTAAATTCTAGTAAAT
104033953 TACTAAGTTC
Statistics
Matches: 103, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
106 103 1.00
ACGTcount: A:0.34, C:0.08, G:0.22, T:0.36
Consensus pattern (106 bp):
GAATGTAAAAGAAGTTTAGGGGAGGAACATCATTCGGTCATCCTAGTCTTAATTAAGGTAAGAAG
TTTTGGTTAATTCTTGAAATTTTAGTTAAATTCTAGTAAAT
Found at i:104035851 original size:29 final size:27
Alignment explanation
Indices: 104035833--104035902 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
104035823 ATATTAAGTC
104035833 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
104035860 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
104035888 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
104035903 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:104035896 original size:28 final size:28
Alignment explanation
Indices: 104035833--104035930 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
104035823 ATATTAAGTC
*
104035833 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
104035860 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
104035888 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
104035917 CGCACACTTAGTGC
1 CGCACACTTAGTGC
104035931 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:104040603 original size:49 final size:49
Alignment explanation
Indices: 104040475--104040791 Score: 523
Period size: 49 Copynumber: 6.5 Consensus size: 49
104040465 CTTATCACAC
* *
104040475 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ACAT
1 ATACAC-T-TTCACATTCATCACATTGGCCATTAGGCCTTATCACATATAT
* *
104040524 ACACA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAT
1 ATACACT-TTCACATTCATCACATTGGCCATTAGGCCTTATCACATATAT
*
104040573 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
1 ATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATAT
*
104040622 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAT
1 ATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATAT
*
104040671 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
1 ATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATAT
104040720 ATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATAT
1 ATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATAT
104040769 ATACACTTTCACATTCATCACAT
1 ATACACTTTCACATTCATCACAT
104040792 AGAATCCTAA
Statistics
Matches: 255, Mismatches: 10, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
47 38 0.15
49 216 0.85
50 1 0.00
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
ATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATAT
Found at i:104044620 original size:70 final size:70
Alignment explanation
Indices: 104044507--104044646 Score: 246
Period size: 70 Copynumber: 2.0 Consensus size: 70
104044497 ATTCTGGAAA
104044507 TTTTATGGAGTGAAGATATACGAGTCTATATTCAGGAAAAATTAACGGAAAGTGATTTGGAGTTT
1 TTTTATGGAGTGAAGATATACGAGTCTATATTCAGGAAAAATTAACGGAAAGTGATTTGGAGTTT
104044572 TGTAG
66 TGTAG
* *
104044577 TTTTATGGA-TGGAGGATATACGAGTCTATATTCAGGAAAAATTAACGGCAAGTGATTTGGAGTT
1 TTTTATGGAGT-GAAGATATACGAGTCTATATTCAGGAAAAATTAACGGAAAGTGATTTGGAGTT
104044641 TTGTAG
65 TTGTAG
104044647 CTCCGGTTAT
Statistics
Matches: 67, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
69 1 0.01
70 66 0.99
ACGTcount: A:0.33, C:0.06, G:0.26, T:0.34
Consensus pattern (70 bp):
TTTTATGGAGTGAAGATATACGAGTCTATATTCAGGAAAAATTAACGGAAAGTGATTTGGAGTTT
TGTAG
Found at i:104044988 original size:49 final size:49
Alignment explanation
Indices: 104044932--104045260 Score: 577
Period size: 49 Copynumber: 6.7 Consensus size: 49
104044922 TATTTGAATA
**
104044932 AATGTGAAAGTGTATATATATGTGATAAGGCATAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
104044981 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATT
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
104045030 AATGTGAAAATGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
104045079 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
104045128 AATGTGTAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
104045177 AATGTGTAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
104045226 AATGTGTAAGTGTATATATATGTGATAAGGCCGAA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAA
104045261 NNNNNNNNNN
Statistics
Matches: 271, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 271 1.00
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.30
Consensus pattern (49 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:104051113 original size:18 final size:18
Alignment explanation
Indices: 104051090--104051128 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
104051080 TGATCAAGAA
104051090 ACAAAGTGATAAGTGGTT
1 ACAAAGTGATAAGTGGTT
104051108 ACAAAGTGATAAGTGGTT
1 ACAAAGTGATAAGTGGTT
104051126 ACA
1 ACA
104051129 CTTATCTGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.41, C:0.08, G:0.26, T:0.26
Consensus pattern (18 bp):
ACAAAGTGATAAGTGGTT
Found at i:104051137 original size:55 final size:55
Alignment explanation
Indices: 104051053--104051165 Score: 199
Period size: 55 Copynumber: 2.1 Consensus size: 55
104051043 TGATCAAGAA
*
104051053 ACAAAGTGATAAGTGGCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGGTT
1 ACAAAGTGATAAGTGGCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGGCT
* *
104051108 ACAAAGTGATAAGTGGTTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGCT
1 ACAAAGTGATAAGTGGCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGGCT
104051163 ACA
1 ACA
104051166 CTTATCTGAT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.40, C:0.13, G:0.22, T:0.25
Consensus pattern (55 bp):
ACAAAGTGATAAGTGGCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGGCT
Found at i:104051158 original size:37 final size:37
Alignment explanation
Indices: 104051108--104051198 Score: 155
Period size: 37 Copynumber: 2.5 Consensus size: 37
104051098 ATAAGTGGTT
104051108 ACAAAGTGATAAGTGGTTACACTTATCTGATCAAGAG
1 ACAAAGTGATAAGTGGTTACACTTATCTGATCAAGAG
* *
104051145 ACAAAGTGATAAGTGGCTACACTTATCTGATCAAGTG
1 ACAAAGTGATAAGTGGTTACACTTATCTGATCAAGAG
*
104051182 ATAAAGTGATAAGTGGT
1 ACAAAGTGATAAGTGGT
104051199 AGCTTCAGCT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 50 1.00
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.27
Consensus pattern (37 bp):
ACAAAGTGATAAGTGGTTACACTTATCTGATCAAGAG
Found at i:104051269 original size:45 final size:46
Alignment explanation
Indices: 104051160--104051283 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
104051150 GTGATAAGTG
* *
104051160 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
104051206 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
104051251 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
104051284 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:104054698 original size:49 final size:49
Alignment explanation
Indices: 104054644--104054864 Score: 280
Period size: 49 Copynumber: 4.4 Consensus size: 49
104054634 TACGCATAGG
* * *
104054644 AGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACGTAGT
1 AGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACGTAGT
104054693 AGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACGTAGT
1 AGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACGTAGT
** ** *
104054742 AGCCTGCACTTAGTACTACACACGTGACCTAACCATTTGATACACGTAGT
1 AGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACGTAGT
* * ** * *
104054792 AGCCTGCACTTAGTACTACACACGTGATCACAGTTTTTGGGTACGCATAGT
1 AGCCTGCACTTAGTACTACACACGTGA-C-CAATTATCCGGTACACGTAGT
*
104054843 AGCCTACACTTAGTACTACACA
1 AGCCTGCACTTAGTACTACACA
104054865 TGCTACCTCA
Statistics
Matches: 152, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
49 75 0.49
50 42 0.28
51 34 0.22
52 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (49 bp):
AGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACGTAGT
Found at i:104054807 original size:99 final size:101
Alignment explanation
Indices: 104054683--104054864 Score: 287
Period size: 99 Copynumber: 1.8 Consensus size: 101
104054673 AATTATCCGG
*
104054683 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTATCCGGTACACGTAGTAGCC
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAATTATCCGGTACACATAGTAGCC
*
104054746 TGCACTTAGTACTACACACGTGACCTAACCATTTGA
66 TACACTTAGTACTACACACGTGACCTAACCATTTGA
* * ** *
104054782 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTTGGGTACGCATAGTAGCC
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAATTATCCGGTACACATAGTAGCC
104054847 TACACTTAGTACTACACA
66 TACACTTAGTACTACACA
104054865 TGCTACCTCA
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
99 37 0.50
100 1 0.01
101 36 0.49
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (101 bp):
TACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAATTATCCGGTACACATAGTAGCC
TACACTTAGTACTACACACGTGACCTAACCATTTGA
Found at i:104077471 original size:22 final size:22
Alignment explanation
Indices: 104077446--104077516 Score: 63
Period size: 22 Copynumber: 3.1 Consensus size: 22
104077436 ATAAAGGATT
* *
104077446 AATAAAAGAGAG-ATAAAATTAA
1 AATAAAAGAAAGAATAAAA-GAA
*
104077468 AATAAAATAAAGAATAAAAGAA
1 AATAAAAGAAAGAATAAAAGAA
*
104077490 AATAAAAGTAAAAGAAATCAAAGAA
1 AATAAAAG--AAAG-AATAAAAGAA
104077515 AA
1 AA
104077517 GAAGAGGATG
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
22 19 0.47
23 6 0.15
24 4 0.10
25 11 0.28
ACGTcount: A:0.73, C:0.01, G:0.11, T:0.14
Consensus pattern (22 bp):
AATAAAAGAAAGAATAAAAGAA
Found at i:104077503 original size:16 final size:16
Alignment explanation
Indices: 104077448--104077519 Score: 67
Period size: 17 Copynumber: 4.5 Consensus size: 16
104077438 AAAGGATTAA
* *
104077448 TAAAAGAGAGATAAAAT
1 TAAAAGA-AAATAAAAG
* *
104077465 TAAAATAAAATAAAGAA
1 TAAAAGAAAATAAA-AG
104077482 TAAAAGAAAATAAAAG
1 TAAAAGAAAATAAAAG
*
104077498 TAAAAG-AAATCAAAG
1 TAAAAGAAAATAAAAG
104077513 -AAAAGAA
1 TAAAAGAA
104077520 GAGGATGATA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
14 5 0.11
15 9 0.19
16 13 0.28
17 20 0.43
ACGTcount: A:0.72, C:0.01, G:0.12, T:0.14
Consensus pattern (16 bp):
TAAAAGAAAATAAAAG
Found at i:104077626 original size:14 final size:14
Alignment explanation
Indices: 104077607--104077643 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
104077597 AACGACAGCG
104077607 GCGATGGTGCTGGT
1 GCGATGGTGCTGGT
104077621 GCGATGGTGCTGGT
1 GCGATGGTGCTGGT
104077635 GCGATGGTG
1 GCGATGGTG
104077644 GGGCGTGGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.08, C:0.14, G:0.51, T:0.27
Consensus pattern (14 bp):
GCGATGGTGCTGGT
Found at i:104085857 original size:41 final size:41
Alignment explanation
Indices: 104085800--104085881 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
104085790 TTCTTATTAA
*
104085800 TAATATTGAGTTTGAACATGCTCTCATACATATACCCTTTC
1 TAATATTGAGTTTGAACATGCTCTCATACATATACCATTTC
104085841 TAATATTGAGTTTGAACATGCTCTCATACATATACCATTTC
1 TAATATTGAGTTTGAACATGCTCTCATACATATACCATTTC
104085882 CTTACAAAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.39
Consensus pattern (41 bp):
TAATATTGAGTTTGAACATGCTCTCATACATATACCATTTC
Found at i:104087352 original size:243 final size:243
Alignment explanation
Indices: 104086924--104087399 Score: 781
Period size: 243 Copynumber: 2.0 Consensus size: 243
104086914 GCAATCTTCA
* * *
104086924 AAGTTGATAATAAAAAATGCATCTTTTTCTGCCATCGTCGAAAATTGCCACTATCAAACCGATCA
1 AAGTTGACAATAAAAAATGCATCTTTTTCTGCCATCGTCGAAAACTGCCACCATCAAACCGATCA
* * * * * * *
104086989 AGTTTGACAAAGTTGGAAGCCAACTTCCTTAGTGTTCCGCTTTTATGTGTTGTGGTGGCCATTAT
66 AGTTTGACAAAGTTGGAAGCCAACTCCCTTAGTATTCCACTTTCATATGTTGTGGTAGCCATCAT
* * *
104087054 GAAATATAACCTTAAAATTGTTATTACAAATATCTGGTGAGGAAAATCTCGAACATATGAACGAA
131 GAAATATAACCTTAAAATTGTTAGTACAAATATCTGGCGAGGAAAATCTCGAACATATGAACAAA
*
104087119 ACTCGAACAGAAAATGAAGAAATAGGATAAGGCTCCAACGCTTGTATC
196 ACTCAAACAGAAAATGAAGAAATAGGATAAGGCTCCAACGCTTGTATC
* *
104087167 AAGTTGACAATAAGAAATGCATCTTTTTCTGCCATCGTCGGAAACTGCCACCATCAAACCGATCA
1 AAGTTGACAATAAAAAATGCATCTTTTTCTGCCATCGTCGAAAACTGCCACCATCAAACCGATCA
104087232 AGTTTGACAAAGTTGGAAGCCAACTCCCTTAGTATTCCACTTTCATATGTTGTGGTAGCCATCAT
66 AGTTTGACAAAGTTGGAAGCCAACTCCCTTAGTATTCCACTTTCATATGTTGTGGTAGCCATCAT
* *
104087297 GAAATATAACCTTAAAATTGTTAGTACAAGTCTCTGGCGAGGAAAATCTCGAACATATGAACAAA
131 GAAATATAACCTTAAAATTGTTAGTACAAATATCTGGCGAGGAAAATCTCGAACATATGAACAAA
*
104087362 ACTCAAATAGAAAATGAAGAAATAGGATAAGGCTCCAA
196 ACTCAAACAGAAAATGAAGAAATAGGATAAGGCTCCAA
104087400 GGCATGTTGT
Statistics
Matches: 214, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
243 214 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (243 bp):
AAGTTGACAATAAAAAATGCATCTTTTTCTGCCATCGTCGAAAACTGCCACCATCAAACCGATCA
AGTTTGACAAAGTTGGAAGCCAACTCCCTTAGTATTCCACTTTCATATGTTGTGGTAGCCATCAT
GAAATATAACCTTAAAATTGTTAGTACAAATATCTGGCGAGGAAAATCTCGAACATATGAACAAA
ACTCAAACAGAAAATGAAGAAATAGGATAAGGCTCCAACGCTTGTATC
Found at i:104093473 original size:30 final size:30
Alignment explanation
Indices: 104093439--104093501 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
104093429 ATTTATTTTA
104093439 TTGTTAATTTTCTTATTATTTTA-AAGGCAT
1 TTGTTAATTTTCTTATTATTTTAGAA-GCAT
*
104093469 TTGTTAATTTTTTTATTATTTTAGAAGCAT
1 TTGTTAATTTTCTTATTATTTTAGAAGCAT
104093499 TTG
1 TTG
104093502 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.94
31 2 0.06
ACGTcount: A:0.25, C:0.05, G:0.11, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTCTTATTATTTTAGAAGCAT
Found at i:104096862 original size:2 final size:2
Alignment explanation
Indices: 104096855--104096885 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
104096845 CTACCCAGAC
104096855 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
104096886 CCCTTGGGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:104097734 original size:43 final size:43
Alignment explanation
Indices: 104097673--104097759 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
104097663 AACAGAGGAC
*
104097673 GAAGCTGGTGAGAAGGGTGGTTTGATTGAGAATCTTAGAGAAG
1 GAAGCTGGTGAGAAGGGTGGTTTGATTGAGAATCTAAGAGAAG
104097716 GAAGCTGGTGAGAAGGGTGGTTTGATTGAGAATCTAAGAGAAG
1 GAAGCTGGTGAGAAGGGTGGTTTGATTGAGAATCTAAGAGAAG
104097759 G
1 G
104097760 GTATGGATTA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.31, C:0.05, G:0.40, T:0.24
Consensus pattern (43 bp):
GAAGCTGGTGAGAAGGGTGGTTTGATTGAGAATCTAAGAGAAG
Found at i:104106238 original size:21 final size:21
Alignment explanation
Indices: 104106208--104106273 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
104106198 ATAACATTGC
*
104106208 ATAAACATATACATATATATA
1 ATAAACATATACACATATATA
* * *
104106229 TTAAAGATATATACATATATA
1 ATAAACATATACACATATATA
104106250 ATAAACATATACTA-ATA-ATA
1 ATAAACATATAC-ACATATATA
104106270 ATAA
1 ATAA
104106274 TAAAAAGATG
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
20 7 0.19
21 29 0.78
22 1 0.03
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.33
Consensus pattern (21 bp):
ATAAACATATACACATATATA
Found at i:104106484 original size:11 final size:10
Alignment explanation
Indices: 104106463--104106506 Score: 65
Period size: 9 Copynumber: 4.5 Consensus size: 10
104106453 ATAAAAATCG
104106463 ATATAATAAT
1 ATATAATAAT
104106473 ATATACATAAT
1 ATATA-ATAAT
104106484 ATATAA-AAT
1 ATATAATAAT
104106493 ATAT-ATAAT
1 ATATAATAAT
104106502 ATATA
1 ATATA
104106507 CATATGTTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
8 1 0.03
9 14 0.45
10 6 0.19
11 10 0.32
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (10 bp):
ATATAATAAT
Found at i:104106644 original size:23 final size:25
Alignment explanation
Indices: 104106618--104106684 Score: 68
Period size: 23 Copynumber: 2.8 Consensus size: 25
104106608 AGCATTAGAA
*
104106618 ATATACATAC-AATAGTA-TAAAAG
1 ATATACATACTAATAATATTAAAAG
* *
104106641 ATATATA-ACTAATAATATTAAAAT
1 ATATACATACTAATAATATTAAAAG
*
104106665 ATATACATAATAATATATAT
1 ATATACATACTAATA-ATAT
104106685 AAATATAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
22 2 0.06
23 12 0.34
24 11 0.31
25 6 0.17
26 4 0.11
ACGTcount: A:0.57, C:0.06, G:0.03, T:0.34
Consensus pattern (25 bp):
ATATACATACTAATAATATTAAAAG
Found at i:104106668 original size:22 final size:24
Alignment explanation
Indices: 104106618--104106742 Score: 80
Period size: 24 Copynumber: 5.1 Consensus size: 24
104106608 AGCATTAGAA
* *
104106618 ATATACAT-ACAATAGTATAAAAGAT
1 ATATACATAATAATA-TATATAA-AT
104106643 ATATA-ACTAATAATAT-TA-AAAT
1 ATATACA-TAATAATATATATAAAT
104106665 ATATACATAATAATATATATAAAT
1 ATATACATAATAATATATATAAAT
* * *
104106689 ATAATA-TTAAAAATATATATACAT
1 AT-ATACATAATAATATATATAAAT
* * *
104106713 AACATATATGAAAAATATATATATAAT
1 -ATATACAT-AATAATATATATA-AAT
104106740 ATA
1 ATA
104106743 GTATTAAATA
Statistics
Matches: 82, Mismatches: 8, Indels: 19
0.75 0.07 0.17
Matches are distributed among these distances:
22 16 0.20
23 5 0.06
24 27 0.33
25 12 0.15
26 20 0.24
27 2 0.02
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.34
Consensus pattern (24 bp):
ATATACATAATAATATATATAAAT
Found at i:104106703 original size:24 final size:24
Alignment explanation
Indices: 104106676--104106750 Score: 89
Period size: 24 Copynumber: 3.0 Consensus size: 24
104106666 TATACATAAT
104106676 AATATATATAAATATAATATTAAA
1 AATATATATAAATATAATATTAAA
*
104106700 AATATATATACATA-ACATATATGAAA
1 AATATATATAAATATA-ATAT-T-AAA
*
104106726 AATATATATATAATATAGTATTAAA
1 AATATATATA-AATATAATATTAAA
104106751 TATTTACAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
23 1 0.02
24 17 0.40
25 4 0.09
26 14 0.33
27 6 0.14
28 1 0.02
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (24 bp):
AATATATATAAATATAATATTAAA
Found at i:104106706 original size:26 final size:26
Alignment explanation
Indices: 104106677--104106750 Score: 89
Period size: 26 Copynumber: 2.9 Consensus size: 26
104106667 ATACATAATA
104106677 ATATATATAAATATAATATTAAAAAT
1 ATATATATAAATATAATATTAAAAAT
* * *
104106703 ATATATACATAACAT-ATATGAAAAAT
1 ATATATATA-AATATAATATTAAAAAT
*
104106729 ATATATAT-AATATAGTATTAAA
1 ATATATATAAATATAATATTAAA
104106751 TATTTACAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
24 4 0.10
25 6 0.15
26 25 0.64
27 4 0.10
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (26 bp):
ATATATATAAATATAATATTAAAAAT
Found at i:104106796 original size:3 final size:3
Alignment explanation
Indices: 104106790--104106867 Score: 59
Period size: 3 Copynumber: 24.7 Consensus size: 3
104106780 AAAAAGCGAC
* * *
104106790 TAA TAA TAA TAC TACA TAAA TATA TACA TAA TAA -AA CATA TAC TAA
1 TAA TAA TAA TAA TA-A T-AA TA-A TA-A TAA TAA TAA TA-A TAA TAA
* *
104106836 TAA TAA TAA TAT TAA TAA TAA TAA TAA CAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
104106868 TAAATAATGG
Statistics
Matches: 60, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
2 2 0.03
3 46 0.77
4 11 0.18
5 1 0.02
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:104108635 original size:92 final size:92
Alignment explanation
Indices: 104108478--104108691 Score: 365
Period size: 92 Copynumber: 2.3 Consensus size: 92
104108468 GTAATCCTAA
* * * * *
104108478 GCTCAACTCACTTCTCGCAATATGAGCTGACTCTTTTTTAAAAAATAGACATTAAAAATAGAAAT
1 GCTCAACTCACCTCTCGCAATATGAGTTGACTCTTTTTAAAAAAAAAGACATTAAAAATAAAAAT
104108543 TGAGAATAGCTCAACACGTGAGCCAAG
66 TGAGAATAGCTCAACACGTGAGCCAAG
*
104108570 GCTCAACTCACCTCTCGCAATAAGAGTTGACTCTTTTTAAAAAAAAAGACATTAAAAATAAAAAT
1 GCTCAACTCACCTCTCGCAATATGAGTTGACTCTTTTTAAAAAAAAAGACATTAAAAATAAAAAT
*
104108635 TGAGAATAGCTCAGCACGTGAGCCAAG
66 TGAGAATAGCTCAACACGTGAGCCAAG
104108662 GCTCAACTCACCTCTCGCAATATGAGTTGA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA
104108692 TTTTTGAAAA
Statistics
Matches: 114, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
92 114 1.00
ACGTcount: A:0.39, C:0.21, G:0.15, T:0.25
Consensus pattern (92 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGACTCTTTTTAAAAAAAAAGACATTAAAAATAAAAAT
TGAGAATAGCTCAACACGTGAGCCAAG
Found at i:104108859 original size:86 final size:87
Alignment explanation
Indices: 104108478--104108956 Score: 405
Period size: 87 Copynumber: 5.4 Consensus size: 87
104108468 GTAATCCTAA
* * * * *
104108478 GCTCAACTCACTTCTCGCAATATGAGCTGACTCTTTTTTAAAAAATAGACATTAAAAATAGAAAT
1 GCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTT-GAAAACAGACATTAAAAACAGAAAT
* *
104108543 TGAGAATAGCTCAACACGTGAGCCAAG
61 TGAGAATACCTCAGCACGTGAGCCAAG
* * * * *
104108570 GCTCAACTCACCTCTCGCAATAAGAGTTGACTCTTTTTAAAAAAAAAGACATTAAAAATAAAAAT
1 GCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTT--GAAAACAGACATTAAAAACAGAAAT
*
104108635 TGAGAATAGCTCAGCACGTGAGCCAAG
61 TGAGAATACCTCAGCACGTGAGCCAAG
* *
104108662 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAC-GTA-ATTGAGAAACAGGAATTGA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAG-ACATT-AAAAACAGAAATTGA
* ** **
104108725 AAATACCTTGGCGTGTGAGCCAAG
64 GAATACCTCAGCACGTGAGCCAAG
* *
104108749 GCTCAACTCACTTCTCGCCATATGAGTTGATTTTTGAAAACAGACATTAAAAACAGAAATTGA-A
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGACATTAAAAACAGAAATTGAGA
* ***
104108813 ATACCTCGGTGTGTGAGCCAAG
66 ATACCTCAGCACGTGAGCCAAG
* * * * * * *
104108835 GTTCAACTCACCTTTCGCAATATGAGCTGATTTTTTTGAAAAATAGATATT-TAAACAGAATTTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTG-AAAACAGACATTAAAAACAGAAATTG
* * ** * *
104108899 AAAATACATTGGCA--TG-TCCTGAG
63 AGAATACCTCAGCACGTGAGCC-AAG
*
104108922 GCTCAACTCACCTCTCACAATATGAGTTGATTTTT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
104108957 TTTATGAACA
Statistics
Matches: 330, Mismatches: 47, Indels: 27
0.82 0.12 0.07
Matches are distributed among these distances:
85 5 0.02
86 52 0.16
87 117 0.35
88 22 0.07
89 23 0.07
91 5 0.02
92 106 0.32
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (87 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGACATTAAAAACAGAAATTGAGA
ATACCTCAGCACGTGAGCCAAG
Found at i:104108926 original size:173 final size:173
Alignment explanation
Indices: 104108564--104108956 Score: 438
Period size: 173 Copynumber: 2.2 Consensus size: 173
104108554 CAACACGTGA
* *
104108564 GCCAAGGCTCAACTCACCTCTCGCAATAAGAGTTGACTCTTTTTAAAAAAAAAGACATTAAAAAT
1 GCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTT-AAAAAAAAGACATTAAAAAC
* *
104108629 AAAAATTGAGAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
62 AAAAATTGAGAATACCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGCTGATT
* * *
104108694 TTTGAAAACGTAATTGAGAAACAGGAATTGAAAATACCTTGGCGTGT
127 TTTGAAAACATAATTGAGAAACAGGAATTGAAAATACATTGGCATGT
* * * * *
104108741 GAGCCAAGGCTCAACTCACTTCTCGCCATATGAGTTGATTTTT-GAAAACAGACATTAAAAACAG
1 --GCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAAAAGACATTAAAAACAA
* *** * *
104108805 AAATTGA-AATACCTCGGTGTGTGAGCCAAGGTTCAACTCACCTTTCGCAATATGAGCTGATTTT
64 AAATTGAGAATACCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGCTGA--TT
**
104108869 TTTGAAAA-ATAGATAT-TTAAACA-GAATTTGAAAATACATTGGCATGT
127 TTTGAAAACATA-AT-TGAGAAACAGGAA-TTGAAAATACATTGGCATGT
* *
104108916 -CCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTT
1 GCC-AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
104108957 TTTATGAACA
Statistics
Matches: 184, Mismatches: 24, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
172 2 0.01
173 79 0.43
174 29 0.16
175 35 0.19
176 6 0.03
179 33 0.18
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (173 bp):
GCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAAAAGACATTAAAAACAAAA
ATTGAGAATACCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTG
AAAACATAATTGAGAAACAGGAATTGAAAATACATTGGCATGT
Found at i:104109012 original size:75 final size:75
Alignment explanation
Indices: 104108913--104109119 Score: 248
Period size: 75 Copynumber: 2.8 Consensus size: 75
104108903 TACATTGGCA
* *
104108913 TGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTT-TATGAACAGAAATT-AAA
1 TGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGAAAG-ACAGAAATTGAAA
*
104108976 ATTACTTC-TGC
65 A-TACCTCATGC
* * *
104108987 GTGTCCTGAGGCTCAACTTATCTCTCACAATATAAGTTGATTTTTTTGAAAGACAGAAATTGAAA
1 -TGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAA
104109052 ATACCTCAATGC
65 ATACCTC-ATGC
* *
104109064 -ATCTTGAGGCTCAACTCACCTCT-AGCAATATGAGTTGA-TTTTTTGAAA-ACAGAAAT
1 TGTCCTGAGGCTCAACTCACCTCTCA-CAATATGAGTTGATTTTTTTGAAAGACAGAAAT
104109120 AAAAACATCA
Statistics
Matches: 116, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
73 8 0.07
74 11 0.09
75 88 0.76
76 6 0.05
77 3 0.03
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (75 bp):
TGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAA
TACCTCATGC
Found at i:104112185 original size:21 final size:21
Alignment explanation
Indices: 104112159--104112221 Score: 117
Period size: 21 Copynumber: 3.0 Consensus size: 21
104112149 AATATTAACG
104112159 GTCTTCCTGGAGTTGGAGGTA
1 GTCTTCCTGGAGTTGGAGGTA
*
104112180 GTCTTCTTGGAGTTGGAGGTA
1 GTCTTCCTGGAGTTGGAGGTA
104112201 GTCTTCCTGGAGTTGGAGGTA
1 GTCTTCCTGGAGTTGGAGGTA
104112222 CTAACATCAG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.14, C:0.13, G:0.38, T:0.35
Consensus pattern (21 bp):
GTCTTCCTGGAGTTGGAGGTA
Found at i:104121056 original size:21 final size:21
Alignment explanation
Indices: 104121026--104121091 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
104121016 ATAACATTGC
*
104121026 ATAAACATATACATATATATA
1 ATAAACATATACACATATATA
* * *
104121047 TTAAAGATATATACATATATA
1 ATAAACATATACACATATATA
104121068 ATAAACATATACTA-ATA-ATA
1 ATAAACATATAC-ACATATATA
104121088 ATAA
1 ATAA
104121092 TAATTATAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
20 7 0.19
21 29 0.78
22 1 0.03
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.33
Consensus pattern (21 bp):
ATAAACATATACACATATATA
Found at i:104121086 original size:3 final size:3
Alignment explanation
Indices: 104121080--104121115 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
104121070 AAACATATAC
*
104121080 TAA TAA TAA TAA TAA TTA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
104121116 GATGTATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:104121315 original size:13 final size:12
Alignment explanation
Indices: 104121289--104121336 Score: 62
Period size: 13 Copynumber: 3.9 Consensus size: 12
104121279 TATAATAGGG
*
104121289 ATAAAAATATAT
1 ATAATAATATAT
104121301 ATAATAATAATAT
1 ATAATAAT-ATAT
104121314 ATACATAATATAT
1 ATA-ATAATATAT
104121327 ATAAT-ATATA
1 ATAATAATATA
104121337 CATATGTTAG
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
11 5 0.15
12 9 0.27
13 14 0.42
14 5 0.15
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (12 bp):
ATAATAATATAT
Found at i:104121321 original size:11 final size:11
Alignment explanation
Indices: 104121307--104121340 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
104121297 ATATATAATA
104121307 ATAATATATAC
1 ATAATATATAC
104121318 ATAATATAT--
1 ATAATATATAC
104121327 ATAATATATAC
1 ATAATATATAC
104121338 ATA
1 ATA
104121341 TGTTAGAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
9 9 0.43
11 12 0.57
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (11 bp):
ATAATATATAC
Found at i:104121468 original size:23 final size:25
Alignment explanation
Indices: 104121442--104121497 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 25
104121432 AGCATTAGAA
*
104121442 ATATACATAC-AATAGTA-TAAAAG
1 ATATACATACTAATAATATTAAAAG
* *
104121465 ATATATA-ACTAATAATATTAAAAT
1 ATATACATACTAATAATATTAAAAG
104121489 ATATACATA
1 ATATACATA
104121498 ATATATATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
22 2 0.08
23 12 0.46
24 11 0.42
25 1 0.04
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.32
Consensus pattern (25 bp):
ATATACATACTAATAATATTAAAAG
Found at i:104121517 original size:33 final size:32
Alignment explanation
Indices: 104121465--104121534 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
104121455 AGTATAAAAG
104121465 ATATATAACTAATAATATTAAAATATATACATAAT
1 ATATATAACTAATAATATT-AAATATATAC--AAT
* *
104121500 ATATATAA-T-ATAGTATTAAATATTTACAAT
1 ATATATAACTAATAATATTAAATATATACAAT
104121530 ATATA
1 ATATA
104121535 CATATTAGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
30 8 0.24
32 9 0.27
33 7 0.21
34 1 0.03
35 8 0.24
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.40
Consensus pattern (32 bp):
ATATATAACTAATAATATTAAATATATACAAT
Found at i:104121584 original size:49 final size:46
Alignment explanation
Indices: 104121506--104121871 Score: 215
Period size: 48 Copynumber: 7.7 Consensus size: 46
104121496 TAATATATAT
* *
104121506 AATATAGTATTAA-ATATTTACAATATATACATATTAGAAATAAAAA
1 AATATAATATTAATATATATA-AATATATACATATTAGAAATAAAAA
* * * * * * *
104121552 AACGACTAATAATAATACTACATAAATATATACATAATA-ATATATATA
1 AA-TA-TAATATTAATA-TATATAAATATATACATATTAGAAATAAAAA
* * * * *
104121600 AATATAATATTAATATATATATACATA-ACATATATGAAAAATATATAT
1 AATATAATATTAATATATATAAATATATACATAT-T-AGAAATA-AAAA
* *
104121648 AATATAGTATTAA-ATATTTACAATATATACATATTAGAAATAAAAA
1 AATATAATATTAATATATATA-AATATATACATATTAGAAATAAAAA
* * * * * * *
104121694 AACGACTAATAATAATACTACATAAATATATACATAATA-ATATATATA
1 AA-TA-TAATATTAATA-TATATAAATATATACATATTAGAAATAAAAA
* * * * * *
104121742 AATATAATATTAATATATATATACACA-ACATATATGAAAAATATATAT
1 AATATAATATTAATATATATAAATATATACATAT-T-AGAAATA-AAAA
* *
104121790 AATATAGTATTAA-ATATTTACAATATATACATATTAGAAATAAAAA
1 AATATAATATTAATATATATA-AATATATACATATTAGAAATAAAAA
* * *
104121836 AACGACTAATAATAATACTACATAAATATATACATA
1 AA-TA-TAATATTAATA-TATATAAATATATACATA
104121872 ATAAAACATA
Statistics
Matches: 235, Mismatches: 61, Indels: 45
0.69 0.18 0.13
Matches are distributed among these distances:
44 10 0.04
45 19 0.08
46 32 0.14
47 37 0.16
48 70 0.30
49 55 0.23
50 12 0.05
ACGTcount: A:0.56, C:0.07, G:0.03, T:0.34
Consensus pattern (46 bp):
AATATAATATTAATATATATAAATATATACATATTAGAAATAAAAA
Found at i:104121589 original size:28 final size:27
Alignment explanation
Indices: 104121558--104121904 Score: 109
Period size: 28 Copynumber: 12.4 Consensus size: 27
104121548 AAAAAACGAC
104121558 TAATAATAATACTACATAAATATATACA
1 TAATAATAATA-TACATAAATATATACA
*
104121586 TAATAAT-ATAT--ATAAATATAATA-T
1 TAATAATAATATACATAAATAT-ATACA
*
104121610 TAAT-ATATATATACATAACATATATGAAA
1 TAATAATA-ATATACATAA-ATATAT-ACA
* * *
104121639 AATATATATAATATAGTATTAAATATTTACAA
1 TA-ATA-ATAATATA-CA-TAAATATATAC-A
* * * *
104121671 TATATACATATTAGAAATAAA-A-AAACGA
1 TA-ATA-ATAATATACATAAATATATAC-A
104121699 CTAATAATAATACTACATAAATATATACA
1 -TAATAATAATA-TACATAAATATATACA
*
104121728 TAATAAT-ATAT--ATAAATATAATA-T
1 TAATAATAATATACATAAATAT-ATACA
* *
104121752 TAAT-ATATATATACACAACATATATGAAA
1 TAATAATA-ATATACATAA-ATATAT-ACA
* * *
104121781 AATATATATAATATAGTATTAAATATTTACAA
1 TA-ATA-ATAATATA-CA-TAAATATATAC-A
* * * *
104121813 TATATACATATTAGAAATAAA-A-AAACGA
1 TA-ATA-ATAATATACATAAATATATAC-A
104121841 CTAATAATAATACTACATAAATATATACA
1 -TAATAATAATA-TACATAAATATATACA
*
104121870 TAATAAAACATATAC-T-AATA-ATA-A
1 TAATAATA-ATATACATAAATATATACA
*
104121894 TATTAATAATA
1 TAATAATAATA
104121905 ATAACAATAT
Statistics
Matches: 241, Mismatches: 41, Indels: 79
0.67 0.11 0.22
Matches are distributed among these distances:
23 7 0.03
24 31 0.13
25 17 0.07
26 6 0.02
27 28 0.12
28 58 0.24
29 15 0.06
30 18 0.07
31 14 0.06
32 42 0.17
33 5 0.02
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.34
Consensus pattern (27 bp):
TAATAATAATATACATAAATATATACA
Found at i:104121607 original size:43 final size:41
Alignment explanation
Indices: 104121560--104121653 Score: 104
Period size: 39 Copynumber: 2.3 Consensus size: 41
104121550 AAAACGACTA
*
104121560 ATAATAATACTACATAAATATATACATAATAATATAT-ATAAAT
1 ATAATAATA-TA-ATAAATATATACATAA-AATATATGAAAAAT
* *
104121603 ATAAT-AT-TAATATATATATACATAACATATATGAAAAAT
1 ATAATAATATAATAAATATATACATAAAATATATGAAAAAT
104121642 ATATATAATATA
1 ATA-ATAATATA
104121654 GTATTAAATA
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
38 6 0.14
39 23 0.52
40 4 0.09
41 2 0.05
42 4 0.09
43 5 0.11
ACGTcount: A:0.57, C:0.05, G:0.01, T:0.36
Consensus pattern (41 bp):
ATAATAATATAATAAATATATACATAAAATATATGAAAAAT
Found at i:104121615 original size:21 final size:22
Alignment explanation
Indices: 104121560--104121762 Score: 92
Period size: 24 Copynumber: 8.7 Consensus size: 22
104121550 AAAACGACTA
*
104121560 ATAATAATACTACATAAATATATAC
1 ATAATAATA-TATAT-AA-ATATAC
104121585 ATAATAATATATATAAATATA-
1 ATAATAATATATATAAATATAC
*
104121606 ATATTAATATATATATACATA-AC
1 ATAATAATATATATA-A-ATATAC
*
104121629 ATATATGAAAAATATATATAATATA-
1 ATA-AT--AATATATATA-AATATAC
* * * *
104121654 GTATTAAATATTTACAATATATAC
1 ATAAT-AATATATATAA-ATATAC
* * * * *
104121678 ATATTAGAAATAAAAAAACGACTA-
1 ATAATA-ATATATATAAA-TA-TAC
*
104121702 ATAATAATACTACATAAATATATAC
1 ATAATAATA-TATAT-AA-ATATAC
104121727 ATAATAATATATATAAATATA-
1 ATAATAATATATATAAATATAC
*
104121748 ATATTAATATATATA
1 ATAATAATATATATA
104121763 TACACAACAT
Statistics
Matches: 140, Mismatches: 22, Indels: 36
0.71 0.11 0.18
Matches are distributed among these distances:
21 28 0.20
22 13 0.09
23 27 0.19
24 31 0.22
25 28 0.20
26 13 0.09
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.35
Consensus pattern (22 bp):
ATAATAATATATATAAATATAC
Found at i:104121660 original size:142 final size:142
Alignment explanation
Indices: 104121497--104121901 Score: 756
Period size: 142 Copynumber: 2.8 Consensus size: 142
104121487 ATATATACAT
104121497 AATATATATAATATAGTATTAAATATTTACAATATATACATATTAGAAATAAAAAAACGACTAAT
1 AATATATATAATATAGTATTAAATATTTACAATATATACATATTAGAAATAAAAAAACGACTAAT
*
104121562 AATAATACTACATAAATATATACATAATAATATATATAAATATAATATTAATATATATATACATA
66 AATAATACTACATAAATATATACATAATAATATATATAAATATAATATTAATATATATATACACA
104121627 ACATATATGAAA
131 ACATATATGAAA
104121639 AATATATATAATATAGTATTAAATATTTACAATATATACATATTAGAAATAAAAAAACGACTAAT
1 AATATATATAATATAGTATTAAATATTTACAATATATACATATTAGAAATAAAAAAACGACTAAT
104121704 AATAATACTACATAAATATATACATAATAATATATATAAATATAATATTAATATATATATACACA
66 AATAATACTACATAAATATATACATAATAATATATATAAATATAATATTAATATATATATACACA
104121769 ACATATATGAAA
131 ACATATATGAAA
104121781 AATATATATAATATAGTATTAAATATTTACAATATATACATATTAGAAATAAAAAAACGACTAAT
1 AATATATATAATATAGTATTAAATATTTACAATATATACATATTAGAAATAAAAAAACGACTAAT
* *
104121846 AATAATACTACATAAATATATACATAATAAAACATATACTAATAATAATATTAATA
66 AATAATACTACATAAATATATACATAATAATATATATA--AAT-ATAATATTAATA
104121902 ATAATAACAA
Statistics
Matches: 257, Mismatches: 3, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
142 242 0.94
144 3 0.01
145 12 0.05
ACGTcount: A:0.57, C:0.07, G:0.03, T:0.34
Consensus pattern (142 bp):
AATATATATAATATAGTATTAAATATTTACAATATATACATATTAGAAATAAAAAAACGACTAAT
AATAATACTACATAAATATATACATAATAATATATATAAATATAATATTAATATATATATACACA
ACATATATGAAA
Found at i:104121895 original size:49 final size:46
Alignment explanation
Indices: 104121477--104121901 Score: 199
Period size: 49 Copynumber: 9.1 Consensus size: 46
104121467 ATATAACTAA
*
104121477 TAATAT-TA-AAATATATACATAAT----ATATATAAT-ATAGTAT
1 TAATATATATAAATATATACATAATAAAAATATATAATAATAATAT
* * * * * *
104121516 TAA-ATATTTACAATATATACATATTAGAAATA-AAAAAACGACTAATAA
1 TAATATATATA-AATATATACATAATAAAAATATATAATA--A-TAATAT
* *
104121564 TAATACTACATAAATATATACATAAT-AATATATATAA-ATATAATAT
1 TAATA-TATATAAATATATACATAATAAAAATATATAATA-ATAATAT
* *
104121610 TAATATATATATACATA-ACATATATGAAAAATATAT-ATAATATAGTAT
1 TAATATATATAAATATATACATA-AT-AAAAATATATAATAATA-A-TAT
* * * * * *
104121658 TAA-ATATTTACAATATATACATATTAGAAATA-AAAAAACGACTAATAA
1 TAATATATATA-AATATATACATAATAAAAATATATAATA--A-TAATAT
* *
104121706 TAATACTACATAAATATATACATAAT-AATATATATAA-ATATAATAT
1 TAATA-TATATAAATATATACATAATAAAAATATATAATA-ATAATAT
* * *
104121752 TAATATATATATACACA-ACATATATGAAAAATATAT-ATAATATAGTAT
1 TAATATATATAAATATATACATA-AT-AAAAATATATAATAATA-A-TAT
* * * * * *
104121800 TAA-ATATTTACAATATATACATATTAGAAATA-AAAAAACGACTAATAA
1 TAATATATATA-AATATATACATAATAAAAATATATAATA--A-TAATAT
*
104121848 TAATACTACATAAATATATACATAATAAAACATATACTAATAATAATAT
1 TAATA-TATATAAATATATACATAATAAAA-ATATA-TAATAATAATAT
104121897 TAATA
1 TAATA
104121902 ATAATAACAA
Statistics
Matches: 285, Mismatches: 55, Indels: 82
0.68 0.13 0.19
Matches are distributed among these distances:
38 2 0.01
39 4 0.01
40 1 0.00
41 13 0.05
44 13 0.05
45 24 0.08
46 30 0.11
47 51 0.18
48 48 0.17
49 75 0.26
50 20 0.07
51 1 0.00
52 3 0.01
ACGTcount: A:0.56, C:0.07, G:0.03, T:0.34
Consensus pattern (46 bp):
TAATATATATAAATATATACATAATAAAAATATATAATAATAATAT
Found at i:104123229 original size:158 final size:152
Alignment explanation
Indices: 104122942--104123251 Score: 557
Period size: 158 Copynumber: 2.0 Consensus size: 152
104122932 ACTTAGGTGC
104122942 GGCGCACCTAGGGTTTTTGTTTCTTTTTTCTTTTTTTTTTGATTTGGGCTATTATGGTTAGTTTG
1 GGCGCACCTAGGGTTTTTGTTTCTTTTTTCTTTTTTTTTTGATTTGGGCTATTATGGTTAGTTTG
*
104123007 GGCTTGGGATATGTTAATTGGGTTTGGGTTTAATGGGTCTTTGTATGGGTTGGGGTAGGTTTAGG
66 GGCTTGGGATATGTTAATTGGGTTTGGGTTTAATGGGTCTTTGTATGGGTTGGGGTAGGCTTAGG
104123072 TTAAAATGGGCCTGAGATTATT
131 TTAAAATGGGCCTGAGATTATT
104123094 GGCGCACCTAGGGTTTTTGTTTCTTTTTTCTTTTCTTTTCTTTTTTGATTTGGGCTATTATGGTT
1 GGCGCACCTAGGGTTTTTGTTTC----TT-TTTTCTTTT-TTTTTTGATTTGGGCTATTATGGTT
104123159 AGTTTGGGCTTGGGATATGTTAATTGGGTTTGGGTTTAATGGGTCTTTGTATGGGTTGGGGTAGG
60 AGTTTGGGCTTGGGATATGTTAATTGGGTTTGGGTTTAATGGGTCTTTGTATGGGTTGGGGTAGG
104123224 CTTAGGTTAAAATGGGCCTGAGATTATT
125 CTTAGGTTAAAATGGGCCTGAGATTATT
104123252 TGGGCTTCTA
Statistics
Matches: 151, Mismatches: 1, Indels: 6
0.96 0.01 0.04
Matches are distributed among these distances:
152 23 0.15
156 2 0.01
157 9 0.06
158 117 0.77
ACGTcount: A:0.14, C:0.08, G:0.30, T:0.47
Consensus pattern (152 bp):
GGCGCACCTAGGGTTTTTGTTTCTTTTTTCTTTTTTTTTTGATTTGGGCTATTATGGTTAGTTTG
GGCTTGGGATATGTTAATTGGGTTTGGGTTTAATGGGTCTTTGTATGGGTTGGGGTAGGCTTAGG
TTAAAATGGGCCTGAGATTATT
Found at i:104124439 original size:38 final size:38
Alignment explanation
Indices: 104124394--104124527 Score: 151
Period size: 38 Copynumber: 3.5 Consensus size: 38
104124384 GGCTTAAAGA
* *
104124394 CCCGCAGGCTTCGTGCTGGTAATACATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAAT
*
104124432 CCCGCAGGCTTCGTGCTAGTATTATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAAT
* * * * * *
104124470 CTCGTAGGCCTAGTGCTGGTATTATATCTGAGCTTAAAGT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCG-GGTTAAA-T
* *
104124510 CCCGCAGGTTTTGTGCTG
1 CCCGCAGGCTTCGTGCTG
104124528 ATGACTAGAT
Statistics
Matches: 79, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
38 59 0.75
39 6 0.08
40 14 0.18
ACGTcount: A:0.19, C:0.23, G:0.26, T:0.31
Consensus pattern (38 bp):
CCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAAT
Found at i:104130353 original size:38 final size:38
Alignment explanation
Indices: 104130311--104130395 Score: 143
Period size: 38 Copynumber: 2.2 Consensus size: 38
104130301 GGCGTAAAGA
104130311 CCCGCAGGCTTCGCGCTGGTAATATATCCGGGTTAAAT
1 CCCGCAGGCTTCGCGCTGGTAATATATCCGGGTTAAAT
* *
104130349 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAAT
1 CCCGCAGGCTTCGCGCTGGTAATATATCCGGGTTAAAT
*
104130387 CTCGCAGGC
1 CCCGCAGGC
104130396 CTAGTGCTAG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (38 bp):
CCCGCAGGCTTCGCGCTGGTAATATATCCGGGTTAAAT
Found at i:104130403 original size:38 final size:38
Alignment explanation
Indices: 104130311--104130414 Score: 136
Period size: 38 Copynumber: 2.7 Consensus size: 38
104130301 GGCGTAAAGA
* * * *
104130311 CCCGCAGGCTTCGCGCTGGTAATATATCCGGGTTAAAT
1 CCCGCAGGCCTAGTGCTGGTATTATATCCGGGTTAAAT
* *
104130349 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAAT
1 CCCGCAGGCCTAGTGCTGGTATTATATCCGGGTTAAAT
* *
104130387 CTCGCAGGCCTAGTGCTAGTATTATATC
1 CCCGCAGGCCTAGTGCTGGTATTATATC
104130415 TAAGCTTAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 60 1.00
ACGTcount: A:0.20, C:0.25, G:0.25, T:0.30
Consensus pattern (38 bp):
CCCGCAGGCCTAGTGCTGGTATTATATCCGGGTTAAAT
Found at i:104130443 original size:40 final size:38
Alignment explanation
Indices: 104130311--104130443 Score: 104
Period size: 38 Copynumber: 3.4 Consensus size: 38
104130301 GGCGTAAAGA
* * * * ** *
104130311 CCCGCAGGCTTCGCGCTGGTAATATATCCGGGTTAAAT
1 CCCGCAGGCTTAGTGCTAGTATTATATCAAGCTTAAAT
* * ** *
104130349 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAAT
1 CCCGCAGGCTTAGTGCTAGTATTATATCAAGCTTAAAT
* *
104130387 CTCGCAGGCCTAGTGCTAGTATTATATCTAAGCTTAAAGT
1 CCCGCAGGCTTAGTGCTAGTATTATATC-AAGCTTAAA-T
* *
104130427 CCCGCAGGTTTTGTGCT
1 CCCGCAGGCTTAGTGCT
104130444 GATGACTGGA
Statistics
Matches: 80, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
38 60 0.75
39 6 0.08
40 14 0.17
ACGTcount: A:0.20, C:0.24, G:0.25, T:0.31
Consensus pattern (38 bp):
CCCGCAGGCTTAGTGCTAGTATTATATCAAGCTTAAAT
Found at i:104138719 original size:19 final size:19
Alignment explanation
Indices: 104138670--104138711 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
104138660 TTCTATATTT
* *
104138670 AAAATAATTAGAAATATAG
1 AAAATAATAAAAAATATAG
104138689 AAAATAATAAAAAATATAG
1 AAAATAATAAAAAATATAG
104138708 AAAA
1 AAAA
104138712 ATGAAAAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.21
Consensus pattern (19 bp):
AAAATAATAAAAAATATAG
Found at i:104139000 original size:10 final size:10
Alignment explanation
Indices: 104138987--104139045 Score: 52
Period size: 11 Copynumber: 6.0 Consensus size: 10
104138977 ATTAGAAATT
*
104138987 ATTATTCAAA
1 ATTATTAAAA
104138997 ATTACTTAAAA
1 ATTA-TTAAAA
* *
104139008 ATAATAAAAA
1 ATTATTAAAA
104139018 ATTA-T-AAA
1 ATTATTAAAA
104139026 ATTA-TAAAA
1 ATTATTAAAA
104139035 ATTATCTAAAA
1 ATTAT-TAAAA
104139046 TTTTATATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
8 8 0.20
9 7 0.17
10 12 0.30
11 13 0.32
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (10 bp):
ATTATTAAAA
Found at i:104139032 original size:18 final size:17
Alignment explanation
Indices: 104139005--104139039 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
104138995 AAATTACTTA
104139005 AAAATAATAAAAAATTAT
1 AAAATAAT-AAAAATTAT
*
104139023 AAAATTATAAAAATTAT
1 AAAATAATAAAAATTAT
104139040 CTAAAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAATAATAAAAATTAT
Found at i:104139330 original size:16 final size:15
Alignment explanation
Indices: 104139296--104139329 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
104139286 GTAAATTTTA
* *
104139296 TTTTCTTTTTAATAT
1 TTTTATTTTTAAAAT
104139311 TTTTATTTTTAAAAT
1 TTTTATTTTTAAAAT
104139326 TTTT
1 TTTT
104139330 TCATAATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTATTTTTAAAAT
Found at i:104139338 original size:20 final size:22
Alignment explanation
Indices: 104139315--104139359 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
104139305 TAATATTTTT
104139315 ATTTTTA-AAATTTT-TTCATA
1 ATTTTTACAAATTTTCTTCATA
*
104139335 ATTTTTACAATTTTTCTTCATA
1 ATTTTTACAAATTTTCTTCATA
104139357 ATT
1 ATT
104139360 ATATAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.32
21 6 0.27
22 9 0.41
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.60
Consensus pattern (22 bp):
ATTTTTACAAATTTTCTTCATA
Found at i:104139367 original size:21 final size:21
Alignment explanation
Indices: 104139325--104139370 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
104139315 ATTTTTAAAA
*
104139325 TTTTTTCATAATTTTTACAAT
1 TTTTTTCATAATTTATACAAT
*
104139346 TTTTCTTCATAA-TTATATAAT
1 TTTT-TTCATAATTTATACAAT
104139367 TTTT
1 TTTT
104139371 ATTTTTTTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTTTTCATAATTTATACAAT
Found at i:104139411 original size:25 final size:26
Alignment explanation
Indices: 104139383--104139431 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
104139373 TTTTTTACTT
104139383 TTTA-AATGATTTTTATAAATTTTCA
1 TTTATAATGATTTTTATAAATTTTCA
* *
104139408 TTTATAATGATTTTTGTAATTTTT
1 TTTATAATGATTTTTATAAATTTT
104139432 TTATCTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.61
Consensus pattern (26 bp):
TTTATAATGATTTTTATAAATTTTCA
Found at i:104139431 original size:9 final size:9
Alignment explanation
Indices: 104139417--104139459 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
104139407 ATTTATAATG
104139417 ATTTTTGTA
1 ATTTTTGTA
*
104139426 ATTTTTTTA
1 ATTTTTGTA
* *
104139435 TCTTTTTATA
1 -ATTTTTGTA
104139445 ATTTTTGTA
1 ATTTTTGTA
104139454 ATTTTT
1 ATTTTT
104139460 AATTTTTTTG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
9 21 0.75
10 7 0.25
ACGTcount: A:0.21, C:0.02, G:0.05, T:0.72
Consensus pattern (9 bp):
ATTTTTGTA
Found at i:104139459 original size:19 final size:19
Alignment explanation
Indices: 104139418--104139459 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
104139408 TTTATAATGA
* *
104139418 TTTTTGTAATTTTTTTATC
1 TTTTTATAATTTTTTAATC
104139437 TTTTTATAATTTTTGTAAT-
1 TTTTTATAATTTTT-TAATC
104139456 TTTT
1 TTTT
104139460 AATTTTTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.19, C:0.02, G:0.05, T:0.74
Consensus pattern (19 bp):
TTTTTATAATTTTTTAATC
Found at i:104139468 original size:28 final size:29
Alignment explanation
Indices: 104139417--104139475 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 29
104139407 ATTTATAATG
104139417 ATTTTTGTAATTTTTTTATCTTTT-TATA
1 ATTTTTGTAATTTTTTTATCTTTTGTATA
104139445 ATTTTTGTAATTTTTAATT-T-TTTTGTATA
1 ATTTTTGTAATTTTT--TTATCTTTTGTATA
104139474 AT
1 AT
104139476 ATATATTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
28 19 0.68
29 7 0.25
30 2 0.07
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.69
Consensus pattern (29 bp):
ATTTTTGTAATTTTTTTATCTTTTGTATA
Found at i:104139817 original size:20 final size:20
Alignment explanation
Indices: 104139787--104139845 Score: 63
Period size: 19 Copynumber: 3.1 Consensus size: 20
104139777 ATATTTAAAT
104139787 TATTTTT-AATAA-TTTTCTA
1 TATTTTTAAATAATTTTTC-A
*
104139806 TATTTTTAAATAGTTTTTCA
1 TATTTTTAAATAATTTTTCA
*
104139826 T-TTTTTAAAT-TTTTTTCA
1 TATTTTTAAATAATTTTTCA
104139844 TA
1 TA
104139846 ATTTATCTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
18 8 0.23
19 16 0.46
20 6 0.17
21 5 0.14
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (20 bp):
TATTTTTAAATAATTTTTCA
Found at i:104140056 original size:19 final size:20
Alignment explanation
Indices: 104140020--104140069 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
104140010 TACAATATTG
*
104140020 TAATTTTTAATAATTTTTGTA
1 TAATTTTT-ATAATTTTTCTA
*
104140041 TAATTTTTATGA-TTTTCTA
1 TAATTTTTATAATTTTTCTA
*
104140060 TAAATTTTAT
1 TAATTTTTAT
104140070 TTTTTTCTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 15 0.58
20 3 0.12
21 8 0.31
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (20 bp):
TAATTTTTATAATTTTTCTA
Found at i:104140075 original size:19 final size:19
Alignment explanation
Indices: 104140033--104140091 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 19
104140023 TTTTTAATAA
* *
104140033 TTTTTGTATAATTTTTATG
1 TTTTTCTATAAATTTTATG
* *
104140052 ATTTTCTATAAATTTTATT
1 TTTTTCTATAAATTTTATG
104140071 TTTTTCTTTATAAATTTTATG
1 TTTTTC--TATAAATTTTATG
104140092 ATTTGTAAGG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
19 20 0.62
21 12 0.38
ACGTcount: A:0.25, C:0.03, G:0.05, T:0.66
Consensus pattern (19 bp):
TTTTTCTATAAATTTTATG
Found at i:104143158 original size:20 final size:21
Alignment explanation
Indices: 104143119--104143158 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
104143109 GCTGACCAAT
* *
104143119 CATGTGAACACCGTTAATGAC
1 CATGTGAACAACGATAATGAC
104143140 CATGTGAACAAC-ATAATGA
1 CATGTGAACAACGATAATGA
104143159 TCAAGACAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (21 bp):
CATGTGAACAACGATAATGAC
Found at i:104143264 original size:19 final size:18
Alignment explanation
Indices: 104143240--104143288 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
104143230 TTCTCTTCAT
104143240 TTTATTTAAAAATATTTTA
1 TTTA-TTAAAAATATTTTA
*
104143259 TTTATTAAAATTATTTT-
1 TTTATTAAAAATATTTTA
*
104143276 TATTATTATAAAT
1 T-TTATTAAAAAT
104143289 TTTAACTGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 1 0.04
18 21 0.81
19 4 0.15
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTATTAAAAATATTTTA
Done.