Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 172 of 297
Found at i:57891586 original size:24 final size:24
Alignment explanation
Indices: 57891559--57891751 Score: 298
Period size: 24 Copynumber: 8.0 Consensus size: 24
57891549 GAGGAAGTGC
*
57891559 AAAAGGGCTTATGCCCCAGTGATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
57891583 AAAAGAGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
57891607 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
57891631 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
57891655 AAAAAGGGCTTATGCCCCAGTTATC
1 -AAAAGGGCTTATGCCCCAGTTATT
57891680 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
57891704 AAAAGGGCTTTTACCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
57891728 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
57891752 ATGATAAAGC
Statistics
Matches: 156, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
24 122 0.78
25 34 0.22
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:57891748 original size:73 final size:73
Alignment explanation
Indices: 57891559--57891751 Score: 302
Period size: 73 Copynumber: 2.7 Consensus size: 73
57891549 GAGGAAGTGC
* *
57891559 AAAAGGGCTTATGCCCCAGTGATTAAAAGA-GCTTATGCCCCAGTTATTAAAAGGGCTTATGCCC
1 AAAAGGGCTTATGCCCCAGTTATTAAAAGAGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCC
57891623 CAGTTATT
66 CAGTTATT
57891631 AAAAGGGCTTATGCCCCAGTTATTAAAA-AGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCC
1 AAAAGGGCTTATGCCCCAGTTATTAAAAGA-GGCTTATGCCCCAGTTATCAAAAGGGCTTATGCC
57891695 CCAGTTATT
65 CCAGTTATT
* * *
57891704 AAAAGGGCTTTTACCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATTAAAAGAGGCTTATGCC-CCAGTTAT
57891752 ATGATAAAGC
Statistics
Matches: 112, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
71 1 0.01
72 32 0.29
73 78 0.70
74 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (73 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAAGAGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCC
CAGTTATT
Found at i:57897933 original size:45 final size:49
Alignment explanation
Indices: 57897801--57897933 Score: 148
Period size: 50 Copynumber: 2.8 Consensus size: 49
57897791 TCACTATTTA
* *
57897801 TGGACAAGCCACCACTGAGTTGTAGATAAACTGCCACTGATAACACTTTG
1 TGGA-AAGCAACCACTGATTTGTAGATAAACTGCCACTGATAACACTTTG
* * * * * *
57897851 TGGAAAAGCCACCACTGATATGCAAATATACTACCACTGA-AACACTTTG
1 TGG-AAAGCAACCACTGATTTGTAGATAAACTGCCACTGATAACACTTTG
57897900 T-G-AA-CAACCACTGATTTGTAGATAAACTGCCACT
1 TGGAAAGCAACCACTGATTTGTAGATAAACTGCCACT
57897934 TACTTCCACC
Statistics
Matches: 70, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
45 24 0.34
46 2 0.03
48 1 0.01
49 10 0.14
50 32 0.46
51 1 0.01
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (49 bp):
TGGAAAGCAACCACTGATTTGTAGATAAACTGCCACTGATAACACTTTG
Found at i:57908853 original size:28 final size:28
Alignment explanation
Indices: 57908821--57908902 Score: 119
Period size: 29 Copynumber: 2.9 Consensus size: 28
57908811 TACCTGTATT
* *
57908821 TGGCCCATTAAGCCCAATCATATTCATC
1 TGGCCCATTAGGCCCAATCATATTCATA
*
57908849 TGGCCCATTAGGCCCAAATCATATTTATA
1 TGGCCCATTAGGCCC-AATCATATTCATA
*
57908878 TGGCCCATTAGGCCCAATCACATTC
1 TGGCCCATTAGGCCCAATCATATTC
57908903 GTATTCATGC
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 22 0.46
29 26 0.54
ACGTcount: A:0.28, C:0.30, G:0.13, T:0.28
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCATATTCATA
Found at i:57912242 original size:51 final size:51
Alignment explanation
Indices: 57912182--57912282 Score: 193
Period size: 51 Copynumber: 2.0 Consensus size: 51
57912172 CCACATATAA
57912182 CTTTGCCAACTTTTGCAGTCAGTAGTCGGTACGAACAAGTATGAAATGAGC
1 CTTTGCCAACTTTTGCAGTCAGTAGTCGGTACGAACAAGTATGAAATGAGC
*
57912233 CTTTGCCAACTTTTGCAGTCAGTAGTCGGTACGAACAGGTATGAAATGAG
1 CTTTGCCAACTTTTGCAGTCAGTAGTCGGTACGAACAAGTATGAAATGAG
57912283 TAGATTTTGT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.28
Consensus pattern (51 bp):
CTTTGCCAACTTTTGCAGTCAGTAGTCGGTACGAACAAGTATGAAATGAGC
Found at i:57930266 original size:40 final size:40
Alignment explanation
Indices: 57930211--57930501 Score: 320
Period size: 40 Copynumber: 7.3 Consensus size: 40
57930201 ATTTGAATGA
* *
57930211 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
* *
57930251 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
* * *
57930291 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTT
* * * *
57930331 TACCCAGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
* * *
57930371 TATCCGGGCTAAGACCCGAATGCATTTGTGCGAGTTGA-TA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTT
* * *
57930411 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTT
* * * * * *
57930451 TACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
57930491 TATCC-GGCTAA
1 TATCCGGGCTAA
57930502 ATTCCGAAGA
Statistics
Matches: 218, Mismatches: 28, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
39 9 0.04
40 204 0.94
41 5 0.02
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
Found at i:57930438 original size:120 final size:120
Alignment explanation
Indices: 57930220--57930501 Score: 433
Period size: 120 Copynumber: 2.4 Consensus size: 120
57930210 ATATCCGGGC
* * * * *
57930220 TAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG
1 TAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTATGCGAG
*
57930285 TGATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCAGGT
66 TGATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCAGGT
* *
57930340 TAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAATGCATTTGTGCGAG
1 TAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTATGCGAG
*
57930405 TTGA-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGT
66 -TGATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCAGGT
* * *
57930460 TAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 TAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAA
57930502 ATTCCGAAGA
Statistics
Matches: 149, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
119 6 0.04
120 140 0.94
121 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (120 bp):
TAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTATGCGAG
TGATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCAGGT
Found at i:57938354 original size:40 final size:40
Alignment explanation
Indices: 57938295--57938506 Score: 223
Period size: 40 Copynumber: 5.3 Consensus size: 40
57938285 CATTTGAATG
* *
57938295 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
57938335 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGT-AGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGA-TT
* * * *
57938375 ATACCCGGGTTATGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * * *
57938415 TTATCGGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * * * *
57938455 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
57938495 ATATCC-GGCTAA
1 ATATCCGGGCTAA
57938507 ATTCCGAAGA
Statistics
Matches: 138, Mismatches: 30, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
39 8 0.06
40 127 0.92
41 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:57938432 original size:80 final size:80
Alignment explanation
Indices: 57938299--57938506 Score: 319
Period size: 80 Copynumber: 2.6 Consensus size: 80
57938289 TGAATGATAT
* * * *
57938299 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
57938364 TGCGAGTAGCTATAC
66 TGCGAGTAGCTATAC
* *
57938379 CCGGGTTATGACCCGAAGGCAATTGTGCTAGTGATTTTATCGGGGCTAAGACCCGAAGGCATTTG
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
*
57938444 TGCGAGTTGCTATAC
66 TGCGAGTAGCTATAC
* * *
57938459 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAA
57938507 ATTCCGAAGA
Statistics
Matches: 116, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
79 6 0.05
80 110 0.95
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (80 bp):
CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
TGCGAGTAGCTATAC
Found at i:57943507 original size:35 final size:35
Alignment explanation
Indices: 57943467--57943572 Score: 107
Period size: 35 Copynumber: 3.1 Consensus size: 35
57943457 AATCATAGTA
57943467 AATATATCAATTTTACATTGAAACATGCATAAATT
1 AATATATCAATTTTACATTGAAACATGCATAAATT
* * * *
57943502 AATATA-C--TTTCAACACCTTGACA-AT-CAT-AGTA
1 AATATATCAATTT-TACA--TTGAAACATGCATAAATT
57943534 AATATATCAATTTTACATTGAAACATGCATAAATT
1 AATATATCAATTTTACATTGAAACATGCATAAATT
57943569 AATA
1 AATA
57943573 CTTATTATAC
Statistics
Matches: 54, Mismatches: 8, Indels: 18
0.68 0.10 0.22
Matches are distributed among these distances:
32 16 0.30
33 9 0.17
34 9 0.17
35 20 0.37
ACGTcount: A:0.45, C:0.14, G:0.06, T:0.35
Consensus pattern (35 bp):
AATATATCAATTTTACATTGAAACATGCATAAATT
Found at i:57943539 original size:32 final size:32
Alignment explanation
Indices: 57943438--57943539 Score: 93
Period size: 32 Copynumber: 3.1 Consensus size: 32
57943428 CACAACTTAC
57943438 ATACTTTCAACACCTTGACAATCATAGTAAAT
1 ATACTTTCAACACCTTGACAATCATAGTAAAT
* * * *
57943470 ATATCAATTT-TACA--TTGAAACATGCATAAATTAAT
1 ATA-C--TTTCAACACCTTGACA-AT-CAT-AGTAAAT
57943505 ATACTTTCAACACCTTGACAATCATAGTAAAT
1 ATACTTTCAACACCTTGACAATCATAGTAAAT
57943537 ATA
1 ATA
57943540 TCAATTTTAC
Statistics
Matches: 53, Mismatches: 8, Indels: 18
0.67 0.10 0.23
Matches are distributed among these distances:
32 19 0.36
33 9 0.17
34 9 0.17
35 16 0.30
ACGTcount: A:0.43, C:0.18, G:0.06, T:0.33
Consensus pattern (32 bp):
ATACTTTCAACACCTTGACAATCATAGTAAAT
Found at i:57943546 original size:67 final size:67
Alignment explanation
Indices: 57943438--57943572 Score: 270
Period size: 67 Copynumber: 2.0 Consensus size: 67
57943428 CACAACTTAC
57943438 ATACTTTCAACACCTTGACAATCATAGTAAATATATCAATTTTACATTGAAACATGCATAAATTA
1 ATACTTTCAACACCTTGACAATCATAGTAAATATATCAATTTTACATTGAAACATGCATAAATTA
57943503 AT
66 AT
57943505 ATACTTTCAACACCTTGACAATCATAGTAAATATATCAATTTTACATTGAAACATGCATAAATTA
1 ATACTTTCAACACCTTGACAATCATAGTAAATATATCAATTTTACATTGAAACATGCATAAATTA
57943570 AT
66 AT
57943572 A
1 A
57943573 CTTATTATAC
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.44, C:0.16, G:0.06, T:0.34
Consensus pattern (67 bp):
ATACTTTCAACACCTTGACAATCATAGTAAATATATCAATTTTACATTGAAACATGCATAAATTA
AT
Found at i:57946722 original size:27 final size:27
Alignment explanation
Indices: 57946691--57946868 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
57946681 TAAATTGTAC
57946691 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
57946718 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
57946744 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
57946772 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * *
57946800 AGCACTAAATGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
57946827 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
57946854 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
57946869 GGCTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 105 0.83
28 22 0.17
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:57946805 original size:82 final size:81
Alignment explanation
Indices: 57946692--57946847 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
57946682 AAATTGTACA
* * *
57946692 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAATGTGCGAAATGAATACGTA-GCACTAAGTG
57946756 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
57946773 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAATGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAATGTGCGAAATGAATACGTAGCACTAAGTG
*
57946838 TGCGAGTTGA
65 TGCGAATTGA
57946848 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAATGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:57946859 original size:82 final size:81
Alignment explanation
Indices: 57946688--57946868 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
57946678 GATTAAATTG
* * *
57946688 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAATGTGCGAAATGAATACGATGCACTAA
57946753 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
57946769 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAATGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAATGTGCGAAATGAATACGAT-GCACT
* **
57946833 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
57946851 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
57946869 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAATGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:57946879 original size:27 final size:27
Alignment explanation
Indices: 57946826--57946879 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
57946816 TTTGATTACG
* * *
57946826 TAGCACTAAGTGTGCGAGTTGATTATA
1 TAGCACTAAGTGTGCGAGCTCAATATA
* *
57946853 TAGCACTGAGTGTGCGGGCTCAATATA
1 TAGCACTAAGTGTGCGAGCTCAATATA
57946880 CATTCGTGAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
TAGCACTAAGTGTGCGAGCTCAATATA
Found at i:57949775 original size:46 final size:46
Alignment explanation
Indices: 57949722--57949858 Score: 220
Period size: 46 Copynumber: 3.0 Consensus size: 46
57949712 TATATATACA
* * * *
57949722 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
57949768 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
57949814 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
57949859 ATACACTTCC
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 83 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:57949903 original size:47 final size:47
Alignment explanation
Indices: 57949832--57950069 Score: 334
Period size: 47 Copynumber: 5.1 Consensus size: 47
57949822 ACACATTTCG
* * * * *
57949832 CATTAGCCATTCGGCTTTACCACATATATACACT-TCCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACA-TGTTCACATTCATCA
*
57949879 CATTGGCCATTCTGCCTTATCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* **
57949926 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
*
57949973 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* * **
57950020 CATTTGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
57950067 CAT
1 CAT
57950070 AAAATCCTAA
Statistics
Matches: 173, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
46 1 0.01
47 172 0.99
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.34
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
Found at i:57950070 original size:25 final size:25
Alignment explanation
Indices: 57949991--57950070 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
57949981 ATTCGGCCTT
**
57949991 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCACATTCACATTC
* *
57950016 ATCACAT-T-TGC-CATTCGGCCTT-
1 ATCACATATATGCACATTC-ACATTC
* *
57950038 ATCTCATATATACACATTCACATTC
1 ATCACATATATGCACATTCACATTC
57950063 ATCACATA
1 ATCACATA
57950071 AAATCCTAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 9 0.22
23 7 0.17
24 6 0.15
25 19 0.46
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (25 bp):
ATCACATATATGCACATTCACATTC
Found at i:57956409 original size:18 final size:17
Alignment explanation
Indices: 57956369--57956415 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
57956359 AATATTTATA
57956369 CTTTA-TTTTTTTATTT
1 CTTTATTTTTTTTATTT
*
57956385 TTCTTATTTTTTTTATTT
1 CT-TTATTTTTTTTATTT
57956403 CCTTTATTATTTT
1 -CTTTATT-TTTT
57956416 CTAAAATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
16 1 0.04
17 3 0.12
18 16 0.64
19 5 0.20
ACGTcount: A:0.13, C:0.09, G:0.00, T:0.79
Consensus pattern (17 bp):
CTTTATTTTTTTTATTT
Found at i:57961135 original size:11 final size:11
Alignment explanation
Indices: 57961119--57961155 Score: 74
Period size: 11 Copynumber: 3.4 Consensus size: 11
57961109 GCTCGTTTTG
57961119 TTATCAACTCA
1 TTATCAACTCA
57961130 TTATCAACTCA
1 TTATCAACTCA
57961141 TTATCAACTCA
1 TTATCAACTCA
57961152 TTAT
1 TTAT
57961156 TTAATAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.35, C:0.24, G:0.00, T:0.41
Consensus pattern (11 bp):
TTATCAACTCA
Found at i:57962865 original size:49 final size:49
Alignment explanation
Indices: 57962771--57963734 Score: 1805
Period size: 49 Copynumber: 19.8 Consensus size: 49
57962761 ATTTAGGATT
57962771 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
* *
57962818 CGATGTGATGAATTTGAAAGTTTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
57962867 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
57962916 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
57962965 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
57963014 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
57963063 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
57963112 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
57963161 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
57963210 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
57963259 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
57963308 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
57963357 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
57963406 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
57963455 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
57963504 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
57963553 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
57963602 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
* * * *
57963651 CGATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGC
1 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
* * *
57963698 CAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
57963735 TCCCGAAGGG
Statistics
Matches: 900, Mismatches: 13, Indels: 8
0.98 0.01 0.01
Matches are distributed among these distances:
47 68 0.08
48 1 0.00
49 831 0.92
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (49 bp):
CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
Found at i:57963909 original size:37 final size:37
Alignment explanation
Indices: 57963853--57963931 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
57963843 CCGAGCTCTA
* * * *
57963853 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTAGAGATTATGTCCGGGT
*
57963890 AAGACCCGATAACTTCGTGTAGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTAGAGATTATGTCCGGGT
57963927 AAGAC
1 AAGAC
57963932 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTAGAGATTATGTCCGGGT
Found at i:57970061 original size:38 final size:38
Alignment explanation
Indices: 57970010--57970323 Score: 448
Period size: 38 Copynumber: 8.3 Consensus size: 38
57970000 ATATTTGATG
* * *
57970010 TATATTCGGGTTAAATCCCGCAGACTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTAT
*
57970048 TATATCAGGGTTAAATCCCACAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTAT
**
57970086 TATATCCGGGTTAAATCCTGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTAT
* *
57970124 TATATCCGGGTTAAATCCCACAGGCTTCATGCTGGTAA
1 TATATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTAT
*
57970162 TATGTCCGGGTTAAATCCCACAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTAT
* *
57970200 TATATCCGGGTTAAATCCTACAGGCTTCGTGCTGGTAA
1 TATATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTAT
* * * *
57970238 TATATTCGGGTTAAATCTCGCAGGCTTCATGCTGGTAT
1 TATATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTAT
* * * *
57970276 TATATCCGAGTTAAATCCCGCAGGCCTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTAT
*
57970314 TATATTCGGG
1 TATATCCGGG
57970324 CCTTTGAGCC
Statistics
Matches: 245, Mismatches: 31, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 245 1.00
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.32
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTAT
Found at i:57970210 original size:114 final size:114
Alignment explanation
Indices: 57970010--57970323 Score: 493
Period size: 114 Copynumber: 2.8 Consensus size: 114
57970000 ATATTTGATG
* * *
57970010 TATATTCGGGTTAAATCCCGCAGACTTCGTGCTGGTATTATATCAGGGTTAAATCCCACAGGCTT
1 TATATTCGGGTTAAATCCCGCAGGCTTCATGCTGGTATTATATCCGGGTTAAATCCCACAGGCTT
* *
57970075 CGTGCTGGTATTATATCCGGGTTAAATCCTGCAGGCTTCGTGCTGGTAT
66 CGTGCTGGTATTATATCCGGGTTAAATCCTACAGGCTTCGTGCTGGTAA
* * * *
57970124 TATATCCGGGTTAAATCCCACAGGCTTCATGCTGGTAATATGTCCGGGTTAAATCCCACAGGCTT
1 TATATTCGGGTTAAATCCCGCAGGCTTCATGCTGGTATTATATCCGGGTTAAATCCCACAGGCTT
57970189 CGTGCTGGTATTATATCCGGGTTAAATCCTACAGGCTTCGTGCTGGTAA
66 CGTGCTGGTATTATATCCGGGTTAAATCCTACAGGCTTCGTGCTGGTAA
* * * *
57970238 TATATTCGGGTTAAATCTCGCAGGCTTCATGCTGGTATTATATCCGAGTTAAATCCCGCAGGCCT
1 TATATTCGGGTTAAATCCCGCAGGCTTCATGCTGGTATTATATCCGGGTTAAATCCCACAGGCTT
* *
57970303 AGTGCTGGTATTATATTCGGG
66 CGTGCTGGTATTATATCCGGG
57970324 CCTTTGAGCC
Statistics
Matches: 181, Mismatches: 19, Indels: 0
0.90 0.09 0.00
Matches are distributed among these distances:
114 181 1.00
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.32
Consensus pattern (114 bp):
TATATTCGGGTTAAATCCCGCAGGCTTCATGCTGGTATTATATCCGGGTTAAATCCCACAGGCTT
CGTGCTGGTATTATATCCGGGTTAAATCCTACAGGCTTCGTGCTGGTAA
Found at i:57975950 original size:38 final size:38
Alignment explanation
Indices: 57975899--57976211 Score: 448
Period size: 38 Copynumber: 8.3 Consensus size: 38
57975889 ATATTTGATG
*
57975899 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTAT
57975937 TATATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTAT
* * * *
57975975 TATATCTGGGTGAAATCTCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTAT
* * *
57976013 TATAACCGGGGTAAATCCCACAGGCTTCGTGCTGGTAA
1 TATATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTAT
*
57976051 TATCTCCGGGTTAAATCCCACAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTAT
** * *
57976089 TATATCCGGGTTAAATCCTGCAGGCTTC-AGCTGGTAA
1 TATATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTAT
* *
57976126 TATATTCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTAT
* * *
57976164 TAGATCCGGGTTAAATCCCACAGGCCTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTAT
*
57976202 TATATTCGGG
1 TATATCCGGG
57976212 CCTTTGAGCC
Statistics
Matches: 242, Mismatches: 32, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
37 33 0.14
38 209 0.86
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.31
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTAT
Found at i:57980118 original size:46 final size:46
Alignment explanation
Indices: 57979985--57980204 Score: 207
Period size: 46 Copynumber: 4.7 Consensus size: 46
57979975 TGAGATGCCA
* * * *
57979985 ATGCCATGTCCCAGACATGATCTTACACAAGCTCTAGCATATCTGTGCCG
1 ATGCCATGTCCCAGACATG-TCTTACACTAGCACT--CATCTCT-AGCCG
* *
57980035 ATGCCTTGTCCCAGACATGGTCTTACACT-G-ACACATCTCCTAGCCG
1 ATGCCATGTCCCAGACAT-GTCTTACACTAGCACTCATCT-CTAGCCG
*
57980081 ATG-CATGTCCCAGACATGTCTTACACTAGCACTCATCTCAATGCCG
1 ATGCCATGTCCCAGACATGTCTTACACTAGCACTCATCTCTA-GCCG
* * * *
57980127 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA-CAATGTGGCCG
1 ATGCCATGTCCCAGACAT-GTCTTACACTAGCACTCATC--TCTAGCCG
*
57980175 ATG-CATGTCCTAGACATGTCTTACACTAGC
1 ATGCCATGTCCCAGACATGTCTTACACTAGC
57980205 TCACAATAGC
Statistics
Matches: 145, Mismatches: 16, Indels: 22
0.79 0.09 0.12
Matches are distributed among these distances:
44 10 0.07
45 16 0.11
46 37 0.26
47 30 0.21
48 24 0.17
49 2 0.01
50 25 0.17
51 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.26
Consensus pattern (46 bp):
ATGCCATGTCCCAGACATGTCTTACACTAGCACTCATCTCTAGCCG
Found at i:57980197 original size:94 final size:93
Alignment explanation
Indices: 57979989--57980204 Score: 265
Period size: 94 Copynumber: 2.3 Consensus size: 93
57979979 ATGCCAATGC
* * ** *
57979989 CATGTCCCAGACATGATCTTACACAAGCTCTAGCATATCTGTGCCGATGCCTTGTCCCAGACATG
1 CATGTCCCAGACATG-TCTTACACTAGCACTA-CATATCAATGCCGATGCCATGTCCCAGACATG
*
57980054 GTCTTACACTGACACATCTCCTAGCCGATG
64 GTCTTACACTGACACATCACCTAGCCGATG
*
57980084 CATGTCCCAGACATGTCTTACACTAGCACT-CATCTCAATGCCGATGCCATGTCCCAGACATGGT
1 CATGTCCCAGACATGTCTTACACTAGCACTACATATCAATGCCGATGCCATGTCCCAGACATGGT
* * * *
57980148 CTTACACTGGCTC-TCACAATGTGGCCGATG
66 CTTACACTGACACATCAC---CTAGCCGATG
*
57980178 CATGTCCTAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
57980205 TCACAATAGC
Statistics
Matches: 106, Mismatches: 12, Indels: 7
0.85 0.10 0.06
Matches are distributed among these distances:
91 3 0.03
92 41 0.39
94 47 0.44
95 15 0.14
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.26
Consensus pattern (93 bp):
CATGTCCCAGACATGTCTTACACTAGCACTACATATCAATGCCGATGCCATGTCCCAGACATGGT
CTTACACTGACACATCACCTAGCCGATG
Found at i:57980580 original size:30 final size:31
Alignment explanation
Indices: 57980541--57980599 Score: 102
Period size: 30 Copynumber: 1.9 Consensus size: 31
57980531 ATAACCTATA
57980541 TTTTGGCAAAATGACCATTTTACCCCTAGAC
1 TTTTGGCAAAATGACCATTTTACCCCTAGAC
*
57980572 TTTT-GCAAAATGACCATTTTATCCCTAG
1 TTTTGGCAAAATGACCATTTTACCCCTAG
57980600 TTTTGAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.36
Consensus pattern (31 bp):
TTTTGGCAAAATGACCATTTTACCCCTAGAC
Found at i:57981866 original size:12 final size:12
Alignment explanation
Indices: 57981849--57981875 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
57981839 AGTTTCCATG
57981849 ATTCAACTAGCC
1 ATTCAACTAGCC
57981861 ATTCAACTAGCC
1 ATTCAACTAGCC
57981873 ATT
1 ATT
57981876 TCATAGTAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.30, G:0.07, T:0.30
Consensus pattern (12 bp):
ATTCAACTAGCC
Found at i:57989273 original size:48 final size:48
Alignment explanation
Indices: 57989141--57989266 Score: 198
Period size: 48 Copynumber: 2.6 Consensus size: 48
57989131 TCTCAAATCG
* *
57989141 ATGCCATGTCCCAAACATGGTCTTACATGAAATCACATATCGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGAATCACATATCGATGCCA
* * * *
57989189 ATGCCATATCCCAGATATGGTCTTACATGGGATCACATATTGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGAATCACATATCGATGCCA
57989237 ATGCCATGTCCCAGACATGGTCTTACATGG
1 ATGCCATGTCCCAGACATGGTCTTACATGG
57989267 TTTCACACCT
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 70 1.00
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.27
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACATGGAATCACATATCGATGCCA
Found at i:57998960 original size:101 final size:100
Alignment explanation
Indices: 57998770--57999001 Score: 288
Period size: 101 Copynumber: 2.3 Consensus size: 100
57998760 ATTTTGAGAA
* * *
57998770 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGACGGTTTTAGGTCACGTGTGTAGTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATAAGACGG-TTTAGGTCACGTGTGTAGTA
*
57998835 CTAAGTGCAGGCTACTATGCGTACCTGACAACTTCGAT
65 CTAAGTGCAGGCTACTATGCGTACCAGA-AACTT-GAT
* * *
57998873 CACATTTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGG-TTAGGTCACGTGTGTAGTAC
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATAAGACGGTTTAGGTCACGTGTGTAGTAC
* * *** *
57998937 TAAGTGCAGGCTATTACT-TGTACCAGATTGTTGGT
66 TAAGTGCAGGCTACTA-TGCGTACCAGAAACTTGAT
*
57998972 CGCATGTGTAGTACTAAGTGCAGGCTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
57999002 TGAGTACCAG
Statistics
Matches: 113, Mismatches: 15, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
99 30 0.27
100 2 0.02
101 42 0.37
102 1 0.01
103 38 0.34
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.32
Consensus pattern (100 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATAAGACGGTTTAGGTCACGTGTGTAGTAC
TAAGTGCAGGCTACTATGCGTACCAGAAACTTGAT
Found at i:57998964 original size:50 final size:50
Alignment explanation
Indices: 57998770--57999015 Score: 212
Period size: 50 Copynumber: 4.9 Consensus size: 50
57998760 ATTTTGAGAA
* *** **
57998770 CACATGTGTAGTACTATGTGCAGGCTACTA-TGTGTTTAAGACGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACT-TGTACCAGATAG--TTAGGT
* * * * * * *
57998822 CACGTGTGTAGTACTAAGTGCAGGCTACTA-TGCGTACCTGACAACTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACT-TGTACCAGA-TAGTTAGGT
* * * *
57998873 CACATTTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACTTGTACCAGATAGTTAGGT
* * *
57998923 CACGTGTGTAGTACTAAGTGCAGGCTATTACTTGTACCAGATTGTT-GGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACTTGTACCAGATAGTTAGGT
* *
57998972 CGCATGTGTAGTACTAAGTGCAGGCTACTA-TGAGTACCAGATAG
1 CACATGTGTAGTACTAAGTGCAGGCTACTACT-TGTACCAGATAG
57999016 CTTCGGTTAC
Statistics
Matches: 157, Mismatches: 34, Indels: 9
0.79 0.17 0.05
Matches are distributed among these distances:
48 1 0.01
49 40 0.25
50 44 0.28
51 38 0.24
52 34 0.22
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.31
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACTTGTACCAGATAGTTAGGT
Found at i:57999234 original size:16 final size:15
Alignment explanation
Indices: 57999213--57999242 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
57999203 GAATGTAGCA
57999213 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
57999229 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
57999243 TAAAATAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:58006824 original size:43 final size:43
Alignment explanation
Indices: 58006777--58006941 Score: 167
Period size: 43 Copynumber: 3.8 Consensus size: 43
58006767 CAATGCCAAC
* *
58006777 GTCCCAGACGTGGTCTTACATGTAATCAAATATTGATGCCTCT
1 GTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCTAT
* *
58006820 GTCCCAGACAG-GGTCTTATATGAAATCAAAT-TCGATG-CTGAT
1 GTCCCAGAC-GTGGTCTTACATGTAATCAAATATCGATGCCT-AT
* * * *
58006862 GTCCCAGACATGGTCTTTCATGTAAATCTCAA-ATCGATGCCAAT
1 GTCCCAGACGTGGTCTTACATGT-AATC-AAATATCGATGCCTAT
* * *
58006906 GTCCCAGACGTGGTCTTACACGAAATCACATATCGA
1 GTCCCAGACGTGGTCTTACATGTAATCAAATATCGA
58006942 AGTCTTATGT
Statistics
Matches: 98, Mismatches: 16, Indels: 16
0.75 0.12 0.12
Matches are distributed among these distances:
41 2 0.02
42 25 0.26
43 40 0.41
44 30 0.31
45 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (43 bp):
GTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCTAT
Found at i:58006923 original size:86 final size:85
Alignment explanation
Indices: 58006777--58006933 Score: 201
Period size: 86 Copynumber: 1.8 Consensus size: 85
58006767 CAATGCCAAC
* * ** * *
58006777 GTCCCAGACGTGGTCTTACATGTAATCAAATATTGATGCCTCTGTCCCAGACAGGGTCTTATATG
1 GTCCCAGACATGGTCTTACATGTAATCAAATATCGATGCCAATGTCCCAGACAGGGTCTTACACG
58006842 AAATCAAATTCGATGCTGAT
66 AAATCAAATTCGATGCTGAT
* *
58006862 GTCCCAGACATGGTCTTTCATGTAAATCTCAA-ATCGATGCCAATGTCCCAGAC-GTGGTCTTAC
1 GTCCCAGACATGGTCTTACATGT-AATC-AAATATCGATGCCAATGTCCCAGACAG-GGTCTTAC
58006925 ACGAAATCA
63 ACGAAATCA
58006934 CATATCGAAG
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
85 22 0.36
86 37 0.61
87 2 0.03
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (85 bp):
GTCCCAGACATGGTCTTACATGTAATCAAATATCGATGCCAATGTCCCAGACAGGGTCTTACACG
AAATCAAATTCGATGCTGAT
Found at i:58014515 original size:43 final size:42
Alignment explanation
Indices: 58014403--58014559 Score: 138
Period size: 43 Copynumber: 3.7 Consensus size: 42
58014393 CAATGCCAAC
** * * **
58014403 GTCCCAGATGTGGTCTTACATGTAATCAAATATCGAT-TCTTCT
1 GTCCCAGACATGGTCTTACACGAAATCAAATA-CGATGTC-AAT
* * *
58014446 ATCCCAGACAGGGTCTTATACGAAATCAAATACGATGTCAAT
1 GTCCCAGACATGGTCTTACACGAAATCAAATACGATGTCAAT
*
58014488 GTCCCAGACATGGTCTTACACGTAAATCTCAAAT-CGATGCCAAT
1 GTCCCAGACATGGTCTTACACG-AAA--TCAAATACGATGTCAAT
* **
58014532 GTCCCAGACGTTATCTTACACGAAATCA
1 GTCCCAGACATGGTCTTACACGAAATCA
58014560 CATATCGGAA
Statistics
Matches: 94, Mismatches: 16, Indels: 10
0.78 0.13 0.08
Matches are distributed among these distances:
41 3 0.03
42 24 0.26
43 33 0.35
44 28 0.30
45 6 0.06
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACACGAAATCAAATACGATGTCAAT
Found at i:58014538 original size:44 final size:44
Alignment explanation
Indices: 58014447--58014558 Score: 140
Period size: 44 Copynumber: 2.6 Consensus size: 44
58014437 GATTCTTCTA
* * *
58014447 TCCCAGACAGGGTCTTATACGAAA--TCAAATACGATGTCAATG
1 TCCCAGACATGGTCTTACACGAAATCTCAAATACGATGCCAATG
58014489 TCCCAGACATGGTCTTACACGTAAATCTCAAAT-CGATGCCAATG
1 TCCCAGACATGGTCTTACACG-AAATCTCAAATACGATGCCAATG
* **
58014533 TCCCAGACGTTATCTTACACGAAATC
1 TCCCAGACATGGTCTTACACGAAATC
58014559 ACATATCGGA
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
42 19 0.31
43 8 0.13
44 28 0.46
45 6 0.10
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (44 bp):
TCCCAGACATGGTCTTACACGAAATCTCAAATACGATGCCAATG
Found at i:58017476 original size:3 final size:3
Alignment explanation
Indices: 58017468--58017521 Score: 54
Period size: 3 Copynumber: 17.7 Consensus size: 3
58017458 AAGGGCCCAA
* * * * *
58017468 ATT ATT ATT ATT ATT ATC ATT ATT ACT ACT ACT ATT ATT AAAT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT
58017514 ATT ATT AT
1 ATT ATT AT
58017522 CTTCTTTTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
3 42 0.95
4 2 0.05
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (3 bp):
ATT
Found at i:58017900 original size:27 final size:27
Alignment explanation
Indices: 58017850--58017901 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
58017840 AATCTTGGAA
* *
58017850 AAAGTTTTGATTTTATTAAAAAAAAAG
1 AAAGTTTAGATTTTATAAAAAAAAAAG
*
58017877 AAAGTTTAGATTTT-TAAAATAAAAA
1 AAAGTTTAGATTTTATAAAAAAAAAA
58017902 TCTACATATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.37
Consensus pattern (27 bp):
AAAGTTTAGATTTTATAAAAAAAAAAG
Found at i:58018029 original size:19 final size:19
Alignment explanation
Indices: 58017977--58018022 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
58017967 AATAAAGTTT
58017977 TGATTTTTAAGAAAAATAG
1 TGATTTTTAAGAAAAATAG
58017996 TGATTTTTAAGAAAAATAG
1 TGATTTTTAAGAAAAATAG
58018015 TGATTTTT
1 TGATTTTT
58018023 TTAAAAAGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.43
Consensus pattern (19 bp):
TGATTTTTAAGAAAAATAG
Found at i:58034605 original size:42 final size:42
Alignment explanation
Indices: 58034535--58035004 Score: 589
Period size: 42 Copynumber: 11.2 Consensus size: 42
58034525 AAAAACATTT
* * * * * *
58034535 ATTGCATTTAAATGCTCAGCTGTGGAGGTCTATTTACTTTAC
1 ATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTC
* * * *
58034577 ATTGCATTTAGAGACCCAGGCGTAGAGGTCCATTTACTTTTT
1 ATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTC
*
58034619 ATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTTACTTTTC
1 ATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTC
* * *
58034661 ATTGCATTTAGAGGCCTAGGTGTGGAGGTTCATTTACTTTTT
1 ATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTC
* * *
58034703 ATTTCATTTAGAGGCCCAGGTGTGGAGTTTCATTTACTTTTC
1 ATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTC
* * *
58034745 ATTACATTTAAAGGCCCAGGTGTGGATGTCCATTTACTTTTC
1 ATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTC
* * *
58034787 ATTGCATTTAGGGGCCCAGGTGTGGAGGTTCATTTAATTTTC
1 ATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTC
* * * * *
58034829 ATTGCGTTTAAAGACCCATGTGTGGAGGTCCATTTGCTTTTC
1 ATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTC
* * *
58034871 ATTGCATTTAGAGACCTAGGTGTGGAGGTCCATTGACTTTTC
1 ATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTC
** *
58034913 ATTGCATTTAGAGGCTTAGGTGTGGAGGTCCGTTTACTTTTC
1 ATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTC
* * * *
58034955 ATTGTATTTAAAGTCCCAGGTGTGGGGGTCCATTTACTTTTC
1 ATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTC
*
58034997 CTTGCATT
1 ATTGCATT
58035005 CTCATTTCAA
Statistics
Matches: 369, Mismatches: 59, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 369 1.00
ACGTcount: A:0.20, C:0.17, G:0.24, T:0.39
Consensus pattern (42 bp):
ATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTC
Found at i:58035386 original size:3 final size:3
Alignment explanation
Indices: 58035378--58035415 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
58035368 AAGGGCCCAA
58035378 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
58035416 CTTTTTTACA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:58035929 original size:130 final size:128
Alignment explanation
Indices: 58035729--58036000 Score: 422
Period size: 130 Copynumber: 2.1 Consensus size: 128
58035719 GATCTTAGGA
* *
58035729 AAAGTTTTGA-TTTTTTAAAAAAAGAAAGTTTAGATTTTTAAAATAAAAATATATTTTTTAGTCA
1 AAAGTTTTGATTTTTTTAAAAAAAGAAAGTTTAAATTTTTAAAATAAAAATATACTTTTTAGTCA
*
58035793 TATTAAAGGAAAAGTTTAAATTCTTAAAACAAAGTTTTGATCTTTTTCAACTATTCCG-AAAT
66 TATTAAAGGAAAAGTTTAAATTCTTAAAACAAAGTTTTGATATTTTTCAACTATTCCGAAAAT
* *
58035855 AAAGTTTTAATTTTTTTAAAAAAAAGAGAAAGTTTAAATTTTTAAAATAAAAATATGCTTTTTAG
1 AAAGTTTTGATTTTTTT--AAAAAA-AGAAAGTTTAAATTTTTAAAATAAAAATATACTTTTTAG
* * **
58035920 TTATATTAAAGGAAAAGTTTAAATTCTTAAAATAAAGTTTTGATATTTTTCAACTATTTTGAAAA
63 TCATATTAAAGGAAAAGTTTAAATTCTTAAAACAAAGTTTTGATATTTTTCAACTATTCCGAAAA
58035985 T
128 T
58035986 AAAGTTTTGATTTTT
1 AAAGTTTTGATTTTT
58036001 AAGAAAATTA
Statistics
Matches: 131, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
126 9 0.07
127 6 0.05
129 6 0.05
130 92 0.70
131 18 0.14
ACGTcount: A:0.43, C:0.04, G:0.10, T:0.43
Consensus pattern (128 bp):
AAAGTTTTGATTTTTTTAAAAAAAGAAAGTTTAAATTTTTAAAATAAAAATATACTTTTTAGTCA
TATTAAAGGAAAAGTTTAAATTCTTAAAACAAAGTTTTGATATTTTTCAACTATTCCGAAAAT
Found at i:58036026 original size:22 final size:21
Alignment explanation
Indices: 58036001--58036062 Score: 54
Period size: 22 Copynumber: 2.8 Consensus size: 21
58035991 TTTGATTTTT
58036001 AAGAAAATTAGTTTTTTTTTAA
1 AAGAAAA-TAGTTTTTTTTTAA
*
58036023 AAGAGAA-AGTTTATATTTTTAA
1 AAGAAAATAGTTT-T-TTTTTAA
*
58036045 AATAAAAATATGTTTTTT
1 AA-GAAAATA-GTTTTTT
58036063 AGTCATCTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
20 5 0.16
21 1 0.03
22 15 0.47
23 5 0.16
24 2 0.06
25 4 0.12
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.47
Consensus pattern (21 bp):
AAGAAAATAGTTTTTTTTTAA
Found at i:58042296 original size:26 final size:26
Alignment explanation
Indices: 58042267--58043102 Score: 1654
Period size: 26 Copynumber: 32.2 Consensus size: 26
58042257 TGATACAAAT
58042267 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58042293 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58042319 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58042345 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58042371 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58042397 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58042423 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58042449 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58042475 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58042501 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58042527 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58042553 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58042579 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58042605 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58042631 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58042657 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58042683 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58042709 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58042735 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58042761 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58042787 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58042813 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58042839 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58042865 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58042891 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58042917 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58042943 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58042969 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58042995 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
58043021 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
58043047 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58043073 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58043099 TGAT
1 TGAT
58043103 GGGAATTTCA
Statistics
Matches: 806, Mismatches: 4, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 806 1.00
ACGTcount: A:0.31, C:0.08, G:0.27, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:58050140 original size:26 final size:26
Alignment explanation
Indices: 58050111--58050894 Score: 1550
Period size: 26 Copynumber: 30.2 Consensus size: 26
58050101 TGATACAAAT
58050111 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58050137 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58050163 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58050189 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58050215 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58050241 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58050267 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58050293 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58050319 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58050345 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58050371 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58050397 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58050423 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58050449 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58050475 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58050501 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58050527 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58050553 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58050579 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58050605 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58050631 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58050657 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58050683 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58050709 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58050735 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58050761 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58050787 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
58050813 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
58050839 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58050865 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58050891 TGAT
1 TGAT
58050895 GGGAATTTCA
Statistics
Matches: 754, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
26 754 1.00
ACGTcount: A:0.31, C:0.08, G:0.27, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:58053392 original size:23 final size:25
Alignment explanation
Indices: 58053372--58053421 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
58053362 AACAAATAAT
58053372 TGTGACAGAGCCACCAGAATAGATA
1 TGTGACAGAGCCACCAGAATAGATA
* * *
58053397 TGTGGCAGTGCCACCAGATTAGATA
1 TGTGACAGAGCCACCAGAATAGATA
58053422 ATTGTGGCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.34, C:0.20, G:0.26, T:0.20
Consensus pattern (25 bp):
TGTGACAGAGCCACCAGAATAGATA
Found at i:58053435 original size:27 final size:27
Alignment explanation
Indices: 58053350--58053440 Score: 105
Period size: 27 Copynumber: 3.4 Consensus size: 27
58053340 GTGCTAATGA
* * * *
58053350 CAGTGTCACCAGAACAAATAATTGTGA
1 CAGTGCCACCAGAATAGATAATTGTGG
*
58053377 CAGAGCCACCAGAATAGAT-A-TGTGG
1 CAGTGCCACCAGAATAGATAATTGTGG
*
58053402 CAGTGCCACCAGATTAGATAATTGTGG
1 CAGTGCCACCAGAATAGATAATTGTGG
*
58053429 CATTGCCACCAG
1 CAGTGCCACCAG
58053441 GACGCTTCCT
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
25 21 0.39
26 2 0.04
27 31 0.57
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.21
Consensus pattern (27 bp):
CAGTGCCACCAGAATAGATAATTGTGG
Found at i:58055281 original size:10 final size:9
Alignment explanation
Indices: 58055258--58055282 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
58055248 TTGAAAACCA
58055258 CAAAAATCC
1 CAAAAATCC
58055267 CAAAAATCC
1 CAAAAATCC
58055276 CAAAAAT
1 CAAAAAT
58055283 TGGGGCGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.28, G:0.00, T:0.12
Consensus pattern (9 bp):
CAAAAATCC
Found at i:58061219 original size:27 final size:27
Alignment explanation
Indices: 58061165--58061302 Score: 192
Period size: 27 Copynumber: 5.1 Consensus size: 27
58061155 AGCATGGTTG
* *
58061165 CCAGAACAGATAA-TGTGACAGTGTCA
1 CCAGAACAGATAATTGTGGCAGTGCCA
*
58061191 CCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAATTGTGGCAGTGCCA
58061218 CCAGAACAGAT-ATATGTGGCAGTGCCA
1 CCAGAACAGATAAT-TGTGGCAGTGCCA
*
58061245 CCAGATCAGATAATTGTGGCAGTGCCA
1 CCAGAACAGATAATTGTGGCAGTGCCA
*
58061272 CCAGATCAGATAATTGTGGCA-TAGCCA
1 CCAGAACAGATAATTGTGGCAGT-GCCA
58061299 CCAG
1 CCAG
58061303 GACGCTTCCT
Statistics
Matches: 103, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
26 16 0.16
27 85 0.83
28 2 0.02
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGTGCCA
Found at i:58061478 original size:18 final size:18
Alignment explanation
Indices: 58061455--58061489 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
58061445 CAATAATTTC
58061455 TATACATAGGGGTATTAT
1 TATACATAGGGGTATTAT
58061473 TATACATAGGGGTATTA
1 TATACATAGGGGTATTA
58061490 AGTAATTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.06, G:0.23, T:0.37
Consensus pattern (18 bp):
TATACATAGGGGTATTAT
Found at i:58062744 original size:24 final size:24
Alignment explanation
Indices: 58062717--58062803 Score: 138
Period size: 24 Copynumber: 3.6 Consensus size: 24
58062707 TCTAATCGGT
*
58062717 TCCTAAATCCTCTCCCTTATCATC
1 TCCTAAATCCTCTCCCTTATCAGC
*
58062741 TCCTAAATCCTCTCTCTTATCAGC
1 TCCTAAATCCTCTCCCTTATCAGC
58062765 TCCTAAATCCTCTCCCTTATCAGC
1 TCCTAAATCCTCTCCCTTATCAGC
* *
58062789 TCCCAAATCTTCTCC
1 TCCTAAATCCTCTCC
58062804 TGACAGCCTT
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 58 1.00
ACGTcount: A:0.21, C:0.41, G:0.02, T:0.36
Consensus pattern (24 bp):
TCCTAAATCCTCTCCCTTATCAGC
Found at i:58062769 original size:48 final size:48
Alignment explanation
Indices: 58062703--58062802 Score: 146
Period size: 48 Copynumber: 2.1 Consensus size: 48
58062693 CCAACACCGT
* * * *
58062703 TCTCTCTAATCGGTTCCTAAATCCTCTCCCTTATCATCTCCTAAATCC
1 TCTCTCTAATCAGCTCCTAAATCCTCTCCCTTATCAGCTCCCAAATCC
* *
58062751 TCTCTCTTATCAGCTCCTAAATCCTCTCCCTTATCAGCTCCCAAATCT
1 TCTCTCTAATCAGCTCCTAAATCCTCTCCCTTATCAGCTCCCAAATCC
58062799 TCTC
1 TCTC
58062803 CTGACAGCCT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.20, C:0.39, G:0.04, T:0.37
Consensus pattern (48 bp):
TCTCTCTAATCAGCTCCTAAATCCTCTCCCTTATCAGCTCCCAAATCC
Found at i:58065048 original size:33 final size:32
Alignment explanation
Indices: 58065007--58065088 Score: 94
Period size: 33 Copynumber: 2.5 Consensus size: 32
58064997 ATCTATATTT
*
58065007 TTTTTTAAATATTGATTT-GAAAATTTGTAGTCA
1 TTTTTTAAATATT--TTTACAAAATTTGTAGTCA
*
58065040 TTTTTTAAAATATTTTTACAAAATTTTTAGTCA
1 TTTTTT-AAATATTTTTACAAAATTTGTAGTCA
**
58065073 TTTTAAAAATATTTTT
1 TTTTTTAAATATTTTT
58065089 TTAATTTTTG
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
32 13 0.30
33 23 0.53
34 7 0.16
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.55
Consensus pattern (32 bp):
TTTTTTAAATATTTTTACAAAATTTGTAGTCA
Found at i:58065089 original size:33 final size:33
Alignment explanation
Indices: 58065026--58065088 Score: 101
Period size: 32 Copynumber: 1.9 Consensus size: 33
58065016 TATTGATTTG
*
58065026 AAAATTTGTAGTCATTTTTTAAAATATTTTTAC
1 AAAATTTGTAGTCATTTTTAAAAATATTTTTAC
*
58065059 AAAATTTTTAGTCA-TTTTAAAAATATTTTT
1 AAAATTTGTAGTCATTTTTAAAAATATTTTT
58065089 TTAATTTTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 15 0.54
33 13 0.46
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.52
Consensus pattern (33 bp):
AAAATTTGTAGTCATTTTTAAAAATATTTTTAC
Found at i:58077730 original size:46 final size:46
Alignment explanation
Indices: 58077677--58077856 Score: 192
Period size: 46 Copynumber: 3.9 Consensus size: 46
58077667 TTGTGGGCTA
* *
58077677 GTGTAAGACGTGTC-AGGGACATGCATCGGCCAC-ATTATGAGAGCCT
1 GTGTAAGACATGTCTA-GGACATGCATCGGCCACGA-GATGAGAGCCT
*
58077723 GTGTAAGACCATGTCTAGGACATGGCATCGG-CATCGAGATGAGTG-CT
1 GTGTAAGA-CATGTCTAGGACAT-GCATCGGCCA-CGAGATGAGAGCCT
* *
58077770 AGTGTAAGACATGT-TCAGGACATGCATCGGCCTCGAGATGTA-AGCCA
1 -GTGTAAGACATGTCT-AGGACATGCATCGGCCACGAGATG-AGAGCCT
*
58077817 GTGTAAGACATGTCTAGGACATGCATCGGCTACGAGATGA
1 GTGTAAGACATGTCTAGGACATGCATCGGCCACGAGATGA
58077857 TAGTCAGTAT
Statistics
Matches: 115, Mismatches: 8, Indels: 23
0.79 0.05 0.16
Matches are distributed among these distances:
45 1 0.01
46 59 0.51
47 31 0.27
48 23 0.20
49 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (46 bp):
GTGTAAGACATGTCTAGGACATGCATCGGCCACGAGATGAGAGCCT
Found at i:58077870 original size:46 final size:45
Alignment explanation
Indices: 58077723--58077871 Score: 171
Period size: 46 Copynumber: 3.2 Consensus size: 45
58077713 ATGAGAGCCT
58077723 GTGTAAGACCATGTCTAGGACATGGCATCGGC-ATCGAGATG-AGTGCTA
1 GTGTAAGA-CATGTCTAGGACAT-GCATCGGCTA-CGAGATGTAGT-C-A
*
58077771 GTGTAAGACATGT-TCAGGACATGCATCGGCCT-CGAGATGTAAGCCA
1 GTGTAAGACATGTCT-AGGACATGCATCGG-CTACGAGATGT-AGTCA
58077817 GTGTAAGACATGTCTAGGACATGCATCGGCTACGAGATGATAGTCA
1 GTGTAAGACATGTCTAGGACATGCATCGGCTACGAGATG-TAGTCA
*
58077863 GTATAAGAC
1 GTGTAAGAC
58077872 CATATCTGGG
Statistics
Matches: 90, Mismatches: 3, Indels: 18
0.81 0.03 0.16
Matches are distributed among these distances:
45 2 0.02
46 62 0.69
47 16 0.18
48 10 0.11
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.23
Consensus pattern (45 bp):
GTGTAAGACATGTCTAGGACATGCATCGGCTACGAGATGTAGTCA
Found at i:58092603 original size:43 final size:43
Alignment explanation
Indices: 58092536--58092645 Score: 123
Period size: 43 Copynumber: 2.6 Consensus size: 43
58092526 TGTCACGTAC
* *
58092536 ATCATGAACTCAGACCAACCCAATGAGCTCA-AGTGGCGCATGT
1 ATCATGAACTCAGACCAACCCAATGAGCTCAGA-TGGCACATAT
* *** * *
58092579 ATCATGAACTGAGACCAGTTCAATGAGTTCGGATGGCACATAT
1 ATCATGAACTCAGACCAACCCAATGAGCTCAGATGGCACATAT
*
58092622 ATCATGAACTCAGACCAACTCAAT
1 ATCATGAACTCAGACCAACCCAAT
58092646 AAGTACAGAT
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
43 54 0.98
44 1 0.02
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.22
Consensus pattern (43 bp):
ATCATGAACTCAGACCAACCCAATGAGCTCAGATGGCACATAT
Found at i:58093220 original size:158 final size:158
Alignment explanation
Indices: 58092927--58093243 Score: 562
Period size: 158 Copynumber: 2.0 Consensus size: 158
58092917 TATCAAGCAT
*
58092927 TAACATTCAAGTATAACGTTGCATTATCATTATCACACGAACTTACCTCGATACCAAAAATGGCG
1 TAACATTCAAGTATAACGTTGCATTATCATTATCACACGAACTTACCTCGATACCAAAAATGGCA
* * *
58092992 AAAATGGACCTAACCGTCAATTTCTTATTTTTCCCCCATTCTAGGTTTGAACCTCATTTTCTTTG
66 AAAAGGGACCTAACCGTCAATTTCTTATTTTTCCCCCATTCTAGGTCTGAACCTCATTTTATTTG
*
58093057 TTCTATAATATCACATTTAGTCTATTTA
131 ATCTATAATATCACATTTAGTCTATTTA
*
58093085 TAACATTCAAGTATAACGTTGCATTATTATTATCACACGAACTTACCTCGATACCAAAAATGGCA
1 TAACATTCAAGTATAACGTTGCATTATCATTATCACACGAACTTACCTCGATACCAAAAATGGCA
* *
58093150 AAAAGGGACCTAACTGTCAATTTCTTATTTTTCCCCCGTTCTAGGTCTGAACCTCATTTTATTTG
66 AAAAGGGACCTAACCGTCAATTTCTTATTTTTCCCCCATTCTAGGTCTGAACCTCATTTTATTTG
58093215 ATCTATAATATCACATTTAGTCTATTTA
131 ATCTATAATATCACATTTAGTCTATTTA
58093243 T
1 T
58093244 TAGTCACATT
Statistics
Matches: 151, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
158 151 1.00
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.37
Consensus pattern (158 bp):
TAACATTCAAGTATAACGTTGCATTATCATTATCACACGAACTTACCTCGATACCAAAAATGGCA
AAAAGGGACCTAACCGTCAATTTCTTATTTTTCCCCCATTCTAGGTCTGAACCTCATTTTATTTG
ATCTATAATATCACATTTAGTCTATTTA
Found at i:58094090 original size:15 final size:15
Alignment explanation
Indices: 58094045--58094092 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 15
58094035 CATTCCGTAT
58094045 AATTGTAGACCATAAA
1 AATT-TAGACCATAAA
* * *
58094061 AATATA-ACAAAAAA
1 AATTTAGACCATAAA
58094075 AATTTAGACCATAAA
1 AATTTAGACCATAAA
58094090 AAT
1 AAT
58094093 ATAACAATTT
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
14 11 0.44
15 11 0.44
16 3 0.12
ACGTcount: A:0.60, C:0.10, G:0.06, T:0.23
Consensus pattern (15 bp):
AATTTAGACCATAAA
Found at i:58096650 original size:46 final size:46
Alignment explanation
Indices: 58096592--58096764 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
58096582 TGTAACCCGC
* * *
58096592 CCATAAGCGAACTCGGATTCAACTCAATAAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAATGAGTTCGGGCGTTCGCAT
* *
58096638 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAATGAGTTCGG--G-C--GTTCGCAT
* * *
58096688 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAATGAGTTCGGGCGTTCGCAT
* * *
58096731 CCATAAGTGAACTCGGACTCAACTTAACGAGTTC
1 CCATAAGCGAACTCGGACTCAACTCAATGAGTTC
58096765 AGATGCTAAA
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
44 2 0.02
45 2 0.02
46 57 0.54
47 27 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAATGAGTTCGGGCGTTCGCAT
Found at i:58096708 original size:93 final size:93
Alignment explanation
Indices: 58096599--58096770 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
58096589 CGCCCATAAG
* * *
58096599 CGAACTCGGATTCAACTCAATAAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
58096664 ATGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCAGATGCCTAGTTACATCTCA
* * *
58096692 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTTA
1 CGAACTCGGACTCAACTCAACAAGCTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
58096757 ACGAGTTCAGATGC
66 ACGAGTTCAGATGC
58096771 TAAAATATCT
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACAAGCTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCAGATGCCTAGTTACATCTCA
Found at i:58100886 original size:46 final size:46
Alignment explanation
Indices: 58100740--58100956 Score: 217
Period size: 46 Copynumber: 4.7 Consensus size: 46
58100730 ATTGTGAGCT
* * * **
58100740 AGTGTACGACATGTCTGAGACATGCATCGGCCAC-A-TTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGACAT-A-AGCC
* * * ** *
58100786 AGTGTAAGACCATGTCTAGGACATGGCATCGACATTGAGACGAGT--GCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCAAGAC-A-TAAGCC
58100834 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGACATAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGACATAAGCC
* *
58100880 AGTGTAAGACATGTTTGGGACATGCATCGGCCTCAAGACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGACATAAGCC
* *
58100926 AGTGTAAGATATGTCTGGGACATGTATCGGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC
58100957 TACGAGAGTG
Statistics
Matches: 142, Mismatches: 21, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 94 0.66
47 25 0.18
48 18 0.13
49 1 0.01
51 1 0.01
52 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGACATAAGCC
Found at i:58102601 original size:41 final size:40
Alignment explanation
Indices: 58102539--58102623 Score: 152
Period size: 41 Copynumber: 2.1 Consensus size: 40
58102529 TTCATGGAGT
*
58102539 ACATTACCATTACGTACATAGCATCGTAAACATTTAATTTA
1 ACATCACCATTACGTACATAGCATCGTAAACA-TTAATTTA
58102580 ACATCACCATTACGTACATAGCATCGTAAACATTAATTTA
1 ACATCACCATTACGTACATAGCATCGTAAACATTAATTTA
58102620 ACAT
1 ACAT
58102624 AGTCAAATTA
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
40 12 0.28
41 31 0.72
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.32
Consensus pattern (40 bp):
ACATCACCATTACGTACATAGCATCGTAAACATTAATTTA
Found at i:58105712 original size:27 final size:27
Alignment explanation
Indices: 58105675--58105808 Score: 153
Period size: 27 Copynumber: 5.0 Consensus size: 27
58105665 ATATATACAT
* * *
58105675 CACATAGGGGCAAAACAATCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
** **
58105702 CATGTAAGGGC-ATTTCAGTCATTTTAC
1 CACATAAGGGCAAAAT-AGTCATTTTAC
* *
58105729 AATATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
*
58105756 CACATAAGGGCAAAATAGTCATTTGAC
1 CACATAAGGGCAAAATAGTCATTTTAC
*
58105783 CACATAAGGGAAAAATAGTCATTTTA
1 CACATAAGGGCAAAATAGTCATTTTA
58105809 TCGATTTGGG
Statistics
Matches: 89, Mismatches: 16, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
26 1 0.01
27 86 0.97
28 2 0.02
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (27 bp):
CACATAAGGGCAAAATAGTCATTTTAC
Found at i:58109626 original size:22 final size:22
Alignment explanation
Indices: 58109598--58109642 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
58109588 TCTATTTTAT
58109598 GGACAAAAATAAGCATGAATAA
1 GGACAAAAATAAGCATGAATAA
*
58109620 GGACAAAAATGAGCATGAATAA
1 GGACAAAAATAAGCATGAATAA
58109642 G
1 G
58109643 TAAAAAGAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.56, C:0.09, G:0.22, T:0.13
Consensus pattern (22 bp):
GGACAAAAATAAGCATGAATAA
Found at i:58110628 original size:42 final size:41
Alignment explanation
Indices: 58110518--58110668 Score: 153
Period size: 41 Copynumber: 3.7 Consensus size: 41
58110508 TGAGTTTACG
* * * *
58110518 TGTAAGACCATATCTGGGATATGGCATTGTTATGAGATTTC-
1 TGTAAGACCATAGCTGGGATATGGCATCGATATGAGA-ATCA
* * * * *
58110559 TATAGGACCGT-GTCTGGAACATGGCATCGATATGAGAATCA
1 TGTAAGACCATAG-CTGGGATATGGCATCGATATGAGAATCA
*
58110600 TGTAAGACCATAGCTGGGCTATTGGCATCGATATGAGAATCA
1 TGTAAGACCATAGCTGGGATA-TGGCATCGATATGAGAATCA
* *
58110642 TGTAAGACCTTATCTGGGATATGGCAT
1 TGTAAGACCATAGCTGGGATATGGCAT
58110669 TGGTATGATT
Statistics
Matches: 88, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
40 2 0.02
41 47 0.53
42 39 0.44
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (41 bp):
TGTAAGACCATAGCTGGGATATGGCATCGATATGAGAATCA
Found at i:58113875 original size:18 final size:18
Alignment explanation
Indices: 58113852--58113915 Score: 71
Period size: 18 Copynumber: 3.7 Consensus size: 18
58113842 TTAAAATATG
*
58113852 GTTGTATAATTAATTATT
1 GTTGTAAAATTAATTATT
* *
58113870 GTTGTAAAA-TATTTAAT
1 GTTGTAAAATTAATTATT
*
58113887 -TT-TAAAATTAACTATT
1 GTTGTAAAATTAATTATT
58113903 GTTGTAAAATTAA
1 GTTGTAAAATTAA
58113916 ATAAATTAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
15 5 0.14
16 7 0.19
17 8 0.22
18 17 0.46
ACGTcount: A:0.41, C:0.02, G:0.09, T:0.48
Consensus pattern (18 bp):
GTTGTAAAATTAATTATT
Found at i:58113925 original size:33 final size:33
Alignment explanation
Indices: 58113859--58113927 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
58113849 ATGGTTGTAT
* ** *
58113859 AATTAATTATTGTTGTAAAATATTTAATTTTAA
1 AATTAACTATTGTTGTAAAATAAATAATATTAA
58113892 AATTAACTATTGTTGTAAAATTAAATAA-ATTAA
1 AATTAACTATTGTTGTAAAA-TAAATAATATTAA
58113925 AAT
1 AAT
58113928 GAAATTAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 26 0.84
34 5 0.16
ACGTcount: A:0.48, C:0.01, G:0.06, T:0.45
Consensus pattern (33 bp):
AATTAACTATTGTTGTAAAATAAATAATATTAA
Found at i:58114022 original size:19 final size:19
Alignment explanation
Indices: 58113996--58114105 Score: 79
Period size: 19 Copynumber: 5.8 Consensus size: 19
58113986 TATTATTTTA
58113996 AAAAATCAAAATTAAATTT
1 AAAAATCAAAATTAAATTT
*
58114015 AAAGATCAAAATT-AA-TT
1 AAAAATCAAAATTAAATTT
* *
58114032 AAAGAAACAAGTTAATTACAGTTT
1 AAA-AATCAA---AATTA-AATTT
*
58114056 --TAAT-AAAATT-AATTT
1 AAAAATCAAAATTAAATTT
58114071 AAAAAATCAAAATTAAATTT
1 -AAAAATCAAAATTAAATTT
*
58114091 AAAAATCAAATTTAA
1 AAAAATCAAAATTAA
58114106 TTATAGAAGA
Statistics
Matches: 70, Mismatches: 9, Indels: 24
0.68 0.09 0.23
Matches are distributed among these distances:
15 4 0.06
17 9 0.13
18 9 0.13
19 32 0.46
20 7 0.10
21 6 0.09
23 1 0.01
24 2 0.03
ACGTcount: A:0.59, C:0.05, G:0.04, T:0.32
Consensus pattern (19 bp):
AAAAATCAAAATTAAATTT
Found at i:58114024 original size:75 final size:75
Alignment explanation
Indices: 58113929--58114113 Score: 248
Period size: 76 Copynumber: 2.4 Consensus size: 75
58113919 AATTAAAATG
* * * *
58113929 AAATTAATTTTAAAATTCAAAATTAATTAGAGAAATAAATTAATTACA-ATTTAA-AAATATTAT
1 AAATTAAATTTAAAA-TCAAAATTAATTAAAGAAACAAATTAATTACAGATTTAATAAA-ATTAA
58113992 TTTAAAAAATCA
64 TTTAAAAAATCA
* *
58114004 AAATTAAATTTAAAGATCAAAATTAATTAAAGAAACAAGTTAATTACAGTTTTAATAAAATTAAT
1 AAATTAAATTTAAA-ATCAAAATTAATTAAAGAAACAAATTAATTACAGATTTAATAAAATTAAT
58114069 TTAAAAAATCA
65 TTAAAAAATCA
* *
58114080 AAATTAAATTTAAAAATCAAATTTAATTATAGAA
1 AAATTAAATTT-AAAATCAAAATTAATTAAAGAA
58114114 GATGGGATGA
Statistics
Matches: 98, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
75 42 0.43
76 50 0.51
77 6 0.06
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.35
Consensus pattern (75 bp):
AAATTAAATTTAAAATCAAAATTAATTAAAGAAACAAATTAATTACAGATTTAATAAAATTAATT
TAAAAAATCA
Found at i:58114092 original size:34 final size:35
Alignment explanation
Indices: 58113970--58114092 Score: 103
Period size: 38 Copynumber: 3.4 Consensus size: 35
58113960 GAAATAAATT
*
58113970 AATTACAATTTAA-AAATATTATTTTAAAAAATCAA
1 AATTACAATTTAATAAA-ATTAATTTAAAAAATCAA
58114005 AATTA-AATTTAAAGATCAAAATTAA-TTAAAGAAA-CAA
1 AATTACAATTT--A-AT-AAAATTAATTTAAA-AAATCAA
*
58114042 GTTAATTACAGTTTTAATAAAATTAATTTAAAAAATCAA
1 ---AATTACA-ATTTAATAAAATTAATTTAAAAAATCAA
58114081 AATTA-AATTTAA
1 AATTACAATTTAA
58114093 AAATCAAATT
Statistics
Matches: 72, Mismatches: 3, Indels: 27
0.71 0.03 0.26
Matches are distributed among these distances:
34 10 0.14
35 6 0.08
36 6 0.08
37 9 0.12
38 18 0.25
39 13 0.18
40 6 0.08
41 1 0.01
42 3 0.04
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (35 bp):
AATTACAATTTAATAAAATTAATTTAAAAAATCAA
Found at i:58115645 original size:13 final size:13
Alignment explanation
Indices: 58115627--58115651 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58115617 GTTTAAAATC
58115627 GAAATTAATTAAA
1 GAAATTAATTAAA
58115640 GAAATTAATTAA
1 GAAATTAATTAA
58115652 TTACAGTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (13 bp):
GAAATTAATTAAA
Found at i:58115711 original size:21 final size:21
Alignment explanation
Indices: 58115687--58115727 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
58115677 TAAAAAATAA
*
58115687 AAATTTAAAAATCAATAAATT
1 AAATTTAAAAATCAAGAAATT
58115708 AAATTTAAAAATCAAGAAAT
1 AAATTTAAAAATCAAGAAAT
58115728 AAGTTAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.29
Consensus pattern (21 bp):
AAATTTAAAAATCAAGAAATT
Found at i:58130159 original size:25 final size:24
Alignment explanation
Indices: 58130120--58130211 Score: 87
Period size: 25 Copynumber: 3.7 Consensus size: 24
58130110 TCATTAGGGA
*
58130120 TTACTGATTCTCAGCTCGTATGAGC
1 TTACCGATT-TCAGCTCGTATGAGC
58130145 TTACCGATTTGCAGCTCGTGA-GAGC
1 TTACCGATTT-CAGCTCGT-ATGAGC
* *
58130170 TTACCAATTCTCAGCTCGTATGAGA
1 TTACCGATT-TCAGCTCGTATGAGC
**
58130195 TTATTGATTTACAGCTC
1 TTACCGATTT-CAGCTC
58130212 ATGAGAGCAT
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
24 3 0.05
25 51 0.91
26 2 0.04
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.35
Consensus pattern (24 bp):
TTACCGATTTCAGCTCGTATGAGC
Found at i:58130227 original size:25 final size:25
Alignment explanation
Indices: 58130121--58130248 Score: 73
Period size: 25 Copynumber: 5.1 Consensus size: 25
58130111 CATTAGGGAT
* * *
58130121 TACTGATTCTCAGCTCGTATGAGCT
1 TACTGATTCACAGCTCATATGAGCA
* ** * *
58130146 TACCGATTTGCAGCTCGTGA-GAGCT
1 TACTGATTCACAGCTCAT-ATGAGCA
** * *
58130171 TACCAATTCTCAGCTCGTATGAG-A
1 TACTGATTCACAGCTCATATGAGCA
* *
58130195 TTATTGATTTACAGCTCATGA-GAGCA
1 -TACTGATTCACAGCTCAT-ATGAGCA
*
58130221 TACTGATTCATAGCTCATATGAGCA
1 TACTGATTCACAGCTCATATGAGCA
58130246 TAC
1 TAC
58130249 ATGTATAGGA
Statistics
Matches: 81, Mismatches: 16, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
24 2 0.02
25 76 0.94
26 3 0.04
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.32
Consensus pattern (25 bp):
TACTGATTCACAGCTCATATGAGCA
Found at i:58130236 original size:50 final size:50
Alignment explanation
Indices: 58130121--58130243 Score: 149
Period size: 50 Copynumber: 2.5 Consensus size: 50
58130111 CATTAGGGAT
* * * *
58130121 TACTGATTCTCAGCTCGTATGAGCTTACCGATTTGCAGCTCGTGAGAGCT
1 TACTGATTCTCAGCTCGTATGAGATTACCGATTTACAGCTCATGAGAGCA
** **
58130171 TACCAATTCTCAGCTCGTATGAGATTATTGATTTACAGCTCATGAGAGCA
1 TACTGATTCTCAGCTCGTATGAGATTACCGATTTACAGCTCATGAGAGCA
*
58130221 TACTGATTCAT-AGCTCATATGAG
1 TACTGATTC-TCAGCTCGTATGAG
58130244 CATACATGTA
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
50 60 0.98
51 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (50 bp):
TACTGATTCTCAGCTCGTATGAGATTACCGATTTACAGCTCATGAGAGCA
Found at i:58137292 original size:93 final size:93
Alignment explanation
Indices: 58137180--58137351 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
58137170 CGCCCATAAG
* * *
58137180 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAAATCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAAATCGGACTCAACTCA
58137245 ACGAGCTCGGATGCCTAGTTACATTTCA
66 ACGAGCTCGGATGCCTAGTTACATTTCA
* *
58137273 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAAATCGGACTCAACTCA
*
58137338 ACGAGTTCGGATGC
66 ACGAGCTCGGATGC
58137352 TCAACCATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAAATCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATTTCA
Found at i:58137348 original size:46 final size:46
Alignment explanation
Indices: 58137181--58137348 Score: 180
Period size: 46 Copynumber: 3.6 Consensus size: 46
58137171 GCCCATAAGC
* * *
58137181 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAAT
* * * ** *
58137227 GAAATCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--TCCA-TAAAT
*
58137274 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAAT
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAAT
*
58137320 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGCTCGGA
58137349 TGCTCAACCA
Statistics
Matches: 100, Mismatches: 15, Indels: 14
0.78 0.12 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 61 0.61
47 30 0.30
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAAT
Found at i:58141963 original size:53 final size:53
Alignment explanation
Indices: 58141883--58141988 Score: 194
Period size: 53 Copynumber: 2.0 Consensus size: 53
58141873 GTGAAAATGA
*
58141883 ACCGCTCATCGGTCTTTTCTTCCAATTTCTAGTCTCAACCTTTACCTTTTTCT
1 ACCGCTCATCGGTCTTTTCTTCCAATTTCTAGTCTCAACCTCTACCTTTTTCT
*
58141936 ACCGCTCATCGGTCTTTTCTTCCAATTTCTAGTCTCAGCCTCTACCTTTTTCT
1 ACCGCTCATCGGTCTTTTCTTCCAATTTCTAGTCTCAACCTCTACCTTTTTCT
58141989 TTTCTTTAAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.14, C:0.33, G:0.08, T:0.44
Consensus pattern (53 bp):
ACCGCTCATCGGTCTTTTCTTCCAATTTCTAGTCTCAACCTCTACCTTTTTCT
Found at i:58146878 original size:56 final size:56
Alignment explanation
Indices: 58146792--58146902 Score: 204
Period size: 56 Copynumber: 2.0 Consensus size: 56
58146782 TATCAAATTA
**
58146792 ATCCTTAACTCAAATTTTGGCAAAATTACAATTTTACCCCTAAACTTTTGCATATC
1 ATCCTTAACTCAAATTTTGAAAAAATTACAATTTTACCCCTAAACTTTTGCATATC
58146848 ATCCTTAACTCAAATTTTGAAAAAATTACAATTTTACCCCTAAACTTTTGCATAT
1 ATCCTTAACTCAAATTTTGAAAAAATTACAATTTTACCCCTAAACTTTTGCATAT
58146903 TTACATTTTT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.36, C:0.22, G:0.05, T:0.38
Consensus pattern (56 bp):
ATCCTTAACTCAAATTTTGAAAAAATTACAATTTTACCCCTAAACTTTTGCATATC
Found at i:58151854 original size:24 final size:23
Alignment explanation
Indices: 58151826--58151871 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
58151816 ATATTACCTT
*
58151826 GCTTCAGCTCAAGAAATTCTTTAC
1 GCTTCAGATCAAGAAA-TCTTTAC
* *
58151850 GCTTCTGATCAATAAATCTTTA
1 GCTTCAGATCAAGAAATCTTTA
58151872 ACTAATATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.37
Consensus pattern (23 bp):
GCTTCAGATCAAGAAATCTTTAC
Found at i:58153304 original size:40 final size:40
Alignment explanation
Indices: 58153249--58153411 Score: 272
Period size: 40 Copynumber: 4.1 Consensus size: 40
58153239 CGGATGATAA
*
58153249 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
58153289 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
58153329 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
58153369 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTAACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
58153409 CCG
1 CCG
58153412 TCTAAACCCC
Statistics
Matches: 116, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 116 1.00
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:58158787 original size:42 final size:41
Alignment explanation
Indices: 58158728--58158846 Score: 123
Period size: 43 Copynumber: 2.8 Consensus size: 41
58158718 TTTGTTTTAT
* *
58158728 GTGTAAGACCATGTCTGGGACATCGGCATCGTATTTGATTTC
1 GTGTAAGACCCTGTCTGGGACAT-GGCATCGTATTTGATTAC
*
58158770 GTGTAAGACCCTGTCTGGGACAGTGGCATCGATGTTTGATTAC
1 GTGTAAGACCCTGTCTGGGACA-TGGCATCG-TATTTGATTAC
* * * *
58158813 ATGTAAGAACGC-ATCTGGGACATTGGCATTGTAT
1 GTGTAAG-ACCCTGTCTGGGACA-TGGCATCGTAT
58158847 ATGTTCTCTG
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
42 30 0.46
43 32 0.49
44 3 0.05
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.31
Consensus pattern (41 bp):
GTGTAAGACCCTGTCTGGGACATGGCATCGTATTTGATTAC
Found at i:58164872 original size:40 final size:39
Alignment explanation
Indices: 58164800--58164882 Score: 94
Period size: 40 Copynumber: 2.1 Consensus size: 39
58164790 TTAATATATA
**
58164800 TAGCCGAAGCTATCTCAAATTGCACACCAAGTGCCACTTT
1 TAGCCGAAGCTATCTCAAACCGCACACCAAGTGCCA-TTT
* * * * *
58164840 TAGCCGAAGCTATTTCGAACCGCATACTAAGTGTCATTT
1 TAGCCGAAGCTATCTCAAACCGCACACCAAGTGCCATTT
58164879 TAGC
1 TAGC
58164883 TGATAAGTCA
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
39 7 0.19
40 29 0.81
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.28
Consensus pattern (39 bp):
TAGCCGAAGCTATCTCAAACCGCACACCAAGTGCCATTT
Found at i:58169303 original size:27 final size:27
Alignment explanation
Indices: 58169273--58169450 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
58169263 ATATCGAGTC
* *
58169273 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
58169300 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
58169327 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
58169355 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
58169382 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
58169409 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
*
58169436 TGCACACTTAGTGCT
1 CGCACACTTAGTGCT
58169451 GTACAATTTA
Statistics
Matches: 128, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:58169412 original size:82 final size:81
Alignment explanation
Indices: 58169294--58169449 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
58169284 TGCTATATAA
* *
58169294 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGCA
58169359 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** * *
58169376 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATTGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCA
58169440 CACTTAGTGC
65 CACTTAGTGC
58169450 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 18 0.28
82 47 0.72
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:58172925 original size:30 final size:29
Alignment explanation
Indices: 58172868--58172928 Score: 86
Period size: 30 Copynumber: 2.1 Consensus size: 29
58172858 ACCCGTCTGA
* *
58172868 AACCTTATTTTGATGAGAATGATAGCAGG
1 AACCTTATTTTGATGAGAATCACAGCAGG
*
58172897 ANACCTTATTTTGATGAGATTCACAGCAGG
1 A-ACCTTATTTTGATGAGAATCACAGCAGG
58172927 AA
1 AA
58172929 TGAGGAGTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 2 0.07
30 26 0.93
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.30
Consensus pattern (29 bp):
AACCTTATTTTGATGAGAATCACAGCAGG
Found at i:58176225 original size:17 final size:17
Alignment explanation
Indices: 58176203--58176238 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
58176193 GTGATTTTTC
58176203 AATTCAATCTCGATTCT
1 AATTCAATCTCGATTCT
58176220 AATTCAATCTCGATTCT
1 AATTCAATCTCGATTCT
58176237 AA
1 AA
58176239 CTTTTTCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.33, C:0.22, G:0.06, T:0.39
Consensus pattern (17 bp):
AATTCAATCTCGATTCT
Found at i:58178159 original size:19 final size:19
Alignment explanation
Indices: 58178132--58178224 Score: 68
Period size: 19 Copynumber: 5.1 Consensus size: 19
58178122 TTATTCTAGC
*
58178132 AACTAAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
*
58178151 AACTTAATTAACGAAGATG
1 AACTTAATTAACTAAGATG
* * * *
58178170 -A-TTAATTTATTCCAG--C
1 AACTTAATTAACT-AAGATG
*
58178186 AACTTAATTAACTAAGATA
1 AACTTAATTAACTAAGATG
* *
58178205 AACTCAAATAACTAAGATG
1 AACTTAATTAACTAAGATG
58178224 A
1 A
58178225 GTAATTTATT
Statistics
Matches: 55, Mismatches: 14, Indels: 10
0.70 0.18 0.13
Matches are distributed among these distances:
17 10 0.18
18 11 0.20
19 34 0.62
ACGTcount: A:0.48, C:0.13, G:0.10, T:0.29
Consensus pattern (19 bp):
AACTTAATTAACTAAGATG
Found at i:58178187 original size:54 final size:54
Alignment explanation
Indices: 58178122--58178250 Score: 195
Period size: 54 Copynumber: 2.4 Consensus size: 54
58178112 CAACAATAAA
* * * * * *
58178122 TTATTCTAGCAACTAAATTAACTAAGATGAACTTAATTAACGAAGATGATTAAT
1 TTATTCCAGCAACTTAATTAACTAAGATAAACTCAAATAACGAAGATGAGTAAT
*
58178176 TTATTCCAGCAACTTAATTAACTAAGATAAACTCAAATAACTAAGATGAGTAAT
1 TTATTCCAGCAACTTAATTAACTAAGATAAACTCAAATAACGAAGATGAGTAAT
58178230 TTATTCCAGCAACTTAATTAA
1 TTATTCCAGCAACTTAATTAA
58178251 TTAAACTAAA
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 68 1.00
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.33
Consensus pattern (54 bp):
TTATTCCAGCAACTTAATTAACTAAGATAAACTCAAATAACGAAGATGAGTAAT
Found at i:58180392 original size:18 final size:18
Alignment explanation
Indices: 58180369--58180406 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
58180359 TGGCCCTTTG
58180369 CAATAACAGTAAACAATA
1 CAATAACAGTAAACAATA
*
58180387 CAATAACAGTAAACAGTA
1 CAATAACAGTAAACAATA
58180405 CA
1 CA
58180407 GAAACTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.58, C:0.18, G:0.08, T:0.16
Consensus pattern (18 bp):
CAATAACAGTAAACAATA
Found at i:58180921 original size:37 final size:37
Alignment explanation
Indices: 58180860--58180938 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
58180850 TTATTACGAA
* * *
58180860 GTCTTACCCAGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
* *
58180897 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
58180934 GTCTT
1 GTCTT
58180939 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
Found at i:58181223 original size:47 final size:47
Alignment explanation
Indices: 58181056--58181374 Score: 539
Period size: 47 Copynumber: 6.7 Consensus size: 47
58181046 GCCCTTCGGG
*
58181056 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATACATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTATCACATAT--ATAC
*
58181106 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATACATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT--ATAC
*
58181155 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
58181202 ACTTTCACATTCATCAAATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
* *
58181249 ACTTTCACATTCATCACATCGGCCATCAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
58181296 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
58181343 ACTTTCACATTCATCACATCGGCCATTAGGCC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC
58181375 ATACTATCAT
Statistics
Matches: 260, Mismatches: 9, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
47 170 0.65
49 86 0.33
50 4 0.02
ACGTcount: A:0.31, C:0.30, G:0.09, T:0.30
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
Found at i:58185190 original size:40 final size:40
Alignment explanation
Indices: 58184889--58185244 Score: 371
Period size: 40 Copynumber: 8.9 Consensus size: 40
58184879 CGAATACACG
* * * *
58184889 TCACCAGCATGATTACTCTTCGGGACCTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATA
* * * ** *
58184929 ACACCAGCATGAATGCTCTTTGGGGTTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATA
* * * *
58184969 TCACTAGCACGAATGCTCTTCGGAACTTAGCTCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATA
*
58185009 TCACTAGCACGAATGCTCCTT-GGGACTTAGCCCGGATATA
1 TCACTAGCATGAATGCT-CTTCGGGACTTAGCCCGGATATA
* *
58185049 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATA
* *
58185089 TCACTAGCATGAATGCTCTTCGGGACTTAGCCAGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATA
* *
58185129 TCGCTAGCATGAATGCTCTTCGGGACTTAGCCCGGATTTA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATA
* * ** * *
58185169 GTAACTCGCACCAATGC-CTTC-GGATCTTAGTCCGGATATGG
1 -TCACTAGCATGAATGCTCTTCGGGA-CTTAGCCCGGATAT-A
* *
58185210 TCACTTAGCA-CAAAGC-CTTCGGGACTTAGCCCGGA
1 TCAC-TAGCATGAATGCTCTTCGGGACTTAGCCCGGA
58185245 CATCATTCAA
Statistics
Matches: 268, Mismatches: 41, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
39 6 0.02
40 241 0.90
41 21 0.08
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATA
Found at i:58185593 original size:29 final size:29
Alignment explanation
Indices: 58185554--58185632 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
58185544 CTTAATAATC
*
58185554 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
58185584 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
58185613 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
58185633 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:58187589 original size:37 final size:37
Alignment explanation
Indices: 58187539--58187617 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
58187529 TTATTACGAA
* * *
58187539 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
58187576 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
58187613 GTCTT
1 GTCTT
58187618 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:58187814 original size:47 final size:47
Alignment explanation
Indices: 58187736--58188146 Score: 750
Period size: 47 Copynumber: 8.7 Consensus size: 47
58187726 CCCTTCGGGA
* * * * * *
58187736 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
58187783 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58187830 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58187877 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58187924 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58187971 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58188018 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58188065 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58188112 CTTATCACATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
58188147 AGAATCCTAA
Statistics
Matches: 354, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 354 1.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:58189308 original size:18 final size:18
Alignment explanation
Indices: 58189285--58189326 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
58189275 CATATGCATT
58189285 TTTAATCACATCAAGCAA
1 TTTAATCACATCAAGCAA
58189303 TTTAATCACATCAAGCAA
1 TTTAATCACATCAAGCAA
58189321 TTTAAT
1 TTTAAT
58189327 ACAATTCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.43, C:0.19, G:0.05, T:0.33
Consensus pattern (18 bp):
TTTAATCACATCAAGCAA
Found at i:58191411 original size:39 final size:39
Alignment explanation
Indices: 58191301--58191531 Score: 196
Period size: 40 Copynumber: 5.8 Consensus size: 39
58191291 GTACTACCGG
* ** *
58191301 CACGAAGCCTGCTAGGTGCTAAGCCTAAATAACACGCCA
1 CACGAAGCCTACTAGGCACTAAGCCTAAATAACACACCA
* * * *
58191340 GCACAAAGCCTGCTAGGCACTAAGTCTGAATAACACACCA
1 -CACGAAGCCTACTAGGCACTAAGCCTAAATAACACACCA
* *
58191380 CCACGAAGTCC-AC-AGGCACTAAGCCCAAATAACACATCGA
1 -CACGAAG-CCTACTAGGCACTAAGCCTAAATAACACA-CCA
* * * *
58191420 CATGAAGCCTACTTGGCACTAAGCCGAAATAACACACTA
1 CACGAAGCCTACTAGGCACTAAGCCTAAATAACACACCA
* * * * *
58191459 GTACGAAGCCTGCTAGGCACTATGCCTGAGTAACACACCA
1 -CACGAAGCCTACTAGGCACTAAGCCTAAATAACACACCA
* * *
58191499 GCATGAAGCCTATTAGGCACTAAGCCTGAATAA
1 -CACGAAGCCTACTAGGCACTAAGCCTAAATAA
58191532 TTATAAGGTA
Statistics
Matches: 154, Mismatches: 32, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
38 2 0.01
39 30 0.19
40 120 0.78
41 2 0.01
ACGTcount: A:0.36, C:0.29, G:0.19, T:0.16
Consensus pattern (39 bp):
CACGAAGCCTACTAGGCACTAAGCCTAAATAACACACCA
Found at i:58193506 original size:46 final size:46
Alignment explanation
Indices: 58193399--58193525 Score: 157
Period size: 46 Copynumber: 2.7 Consensus size: 46
58193389 AAGCTAACGC
* *
58193399 CATGTCCCAGAC-TGGTCTTACACTAGCTTGTATATCGCAAGGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTAGC-TCT-CATCGCAAGGCCGATG
* *
58193447 CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATCGCAAGGCCGATG
* * *
58193493 CATGTCCCGGACATGTCTTACATTGGCTCTCAT
1 CATGTCCCAGACATGTCTTACACTAGCTCTCAT
58193526 ACTGTGGCTG
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
46 43 0.61
47 2 0.03
48 25 0.35
49 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATCGCAAGGCCGATG
Found at i:58193539 original size:46 final size:45
Alignment explanation
Indices: 58193399--58193565 Score: 142
Period size: 46 Copynumber: 3.6 Consensus size: 45
58193389 AAGCTAACGC
* * * *
58193399 CATGTCCCAGAC-TGGTCTTACACTAGCTTGTATATCGCAAGGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTAGC-TCT-CATC-TAATGCCGATG
58193447 CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATCT-AATGCCGATG
* * * * *
58193493 CATGTCCCGGACATGTCTTACATTGGCTCTCATACT-GTGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCAT-CTAAT-GCCGATG
* *
58193539 CATG-CCCTAGACATGTCTAATACTAGC
1 CATGTCCC-AGACATGTCTTACACTAGC
58193566 ACACATATCA
Statistics
Matches: 100, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
45 4 0.04
46 66 0.66
47 4 0.04
48 25 0.25
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATCTAATGCCGATG
Found at i:58206787 original size:53 final size:53
Alignment explanation
Indices: 58206707--58206810 Score: 181
Period size: 53 Copynumber: 2.0 Consensus size: 53
58206697 TTCCACTCTT
* *
58206707 ATTTTTACAAACTCCATTGTGATGTATCTGCTTAACCCTCAATACATTTGGGC
1 ATTTTTACAAAATCCATCGTGATGTATCTGCTTAACCCTCAATACATTTGGGC
*
58206760 ATTTTTACAAAATCCATCGTGATGTATCTGCTTAACCCTTAATACATTTGG
1 ATTTTTACAAAATCCATCGTGATGTATCTGCTTAACCCTCAATACATTTGG
58206811 ACAGACATCT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 48 1.00
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.38
Consensus pattern (53 bp):
ATTTTTACAAAATCCATCGTGATGTATCTGCTTAACCCTCAATACATTTGGGC
Found at i:58208340 original size:31 final size:31
Alignment explanation
Indices: 58208299--58208363 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
58208289 TTTAATGGTT
*
58208299 ACTGTGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
58208330 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
58208361 ACT
1 ACT
58208364 CAAGTTTACG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:58212155 original size:44 final size:43
Alignment explanation
Indices: 58212011--58212199 Score: 122
Period size: 44 Copynumber: 4.3 Consensus size: 43
58212001 TTGAATTTGA
* * *
58212011 GGCACTAAGTGTGCGA-AA-AATGAAGTAGCTACGGCTATTAAAAAT
1 GGCACTAAGTGTGCGATAATAAT--A-TAGCTTCGGCTAAT-GAAAT
* * *
58212056 GGCACTGAGTGTGCGAGAAT-ATAATAG-TGATC-GCGGAAT-AAAT
1 GGCACTAAGTGTGCGATAATAAT-ATAGCT--TCGGC-TAATGAAAT
* * * *
58212099 AGCACTATGTGTGCGATACTAATATAAG-TTCGGTTTAATGAAAT
1 GGCACTAAGTGTGCGATAATAATAT-AGCTTCGG-CTAATGAAAT
* *
58212143 GGCACTAAGTGTGCGATAATATTATAGCTTCGGCTAATTAAATT
1 GGCACTAAGTGTGCGATAATAATATAGCTTCGGCTAATGAAA-T
58212187 GGCACTAAGTGTG
1 GGCACTAAGTGTG
58212200 TGAGTTCATT
Statistics
Matches: 115, Mismatches: 17, Indels: 25
0.73 0.11 0.16
Matches are distributed among these distances:
42 2 0.02
43 35 0.30
44 54 0.47
45 20 0.17
46 4 0.03
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (43 bp):
GGCACTAAGTGTGCGATAATAATATAGCTTCGGCTAATGAAAT
Found at i:58217677 original size:31 final size:31
Alignment explanation
Indices: 58217642--58217705 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
58217632 GTAAAACGAG
58217642 ATAGTCTGAAAGCAGCTGTAGATTGTCAAAA
1 ATAGTCTGAAAGCAGCTGTAGATTGTCAAAA
* *
58217673 ATAGTCTGAAAGCAGTTGTAGATTGTCAGAA
1 ATAGTCTGAAAGCAGCTGTAGATTGTCAAAA
58217704 AT
1 AT
58217706 CGTATGCAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.11, G:0.23, T:0.28
Consensus pattern (31 bp):
ATAGTCTGAAAGCAGCTGTAGATTGTCAAAA
Found at i:58224407 original size:20 final size:20
Alignment explanation
Indices: 58224371--58224408 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
58224361 TTTCATTTCA
*
58224371 TTTATTTATTTGTTTATTCT
1 TTTATTTATTTGATTATTCT
58224391 TTTATTTACTTT-ATTATT
1 TTTATTTA-TTTGATTATT
58224409 ATATATTACT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.74
Consensus pattern (20 bp):
TTTATTTATTTGATTATTCT
Found at i:58233817 original size:16 final size:16
Alignment explanation
Indices: 58233796--58233860 Score: 52
Period size: 16 Copynumber: 4.4 Consensus size: 16
58233786 ATATCATAAT
58233796 CATTTCTCATATTTTC
1 CATTTCTCATATTTTC
*
58233812 CATTTC-AATATTTTC
1 CATTTCTCATATTTTC
58233827 TCA--TCTCATA--TT-
1 -CATTTCTCATATTTTC
* *
58233839 CATTTATCATATTTGC
1 CATTTCTCATATTTTC
58233855 CATTTC
1 CATTTC
58233861 AATATTAATC
Statistics
Matches: 37, Mismatches: 5, Indels: 14
0.66 0.09 0.25
Matches are distributed among these distances:
11 2 0.05
13 8 0.22
14 2 0.05
15 12 0.32
16 13 0.35
ACGTcount: A:0.23, C:0.23, G:0.02, T:0.52
Consensus pattern (16 bp):
CATTTCTCATATTTTC
Found at i:58233837 original size:15 final size:14
Alignment explanation
Indices: 58233800--58233838 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
58233790 CATAATCATT
58233800 TCTCATATTTTCCA
1 TCTCATATTTTCCA
*
58233814 TTTCAATATTTTCTCA
1 TCTC-ATATTTTC-CA
58233830 TCTCATATT
1 TCTCATATT
58233839 CATTTATCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
14 3 0.14
15 13 0.62
16 5 0.24
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.54
Consensus pattern (14 bp):
TCTCATATTTTCCA
Found at i:58233842 original size:43 final size:43
Alignment explanation
Indices: 58233784--58233866 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 43
58233774 ATCTCATTTA
* *
58233784 TCATATCATAATCATTTCTCATATTTTCCATTTCAATATTTTC
1 TCATATCATAATCATTTATCATATTTGCCATTTCAATATTTTC
* *
58233827 TCATCTCATATTCATTTATCATATTTGCCATTTCAATATT
1 TCATATCATAATCATTTATCATATTTGCCATTTCAATATT
58233867 AATCACATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.28, C:0.20, G:0.01, T:0.51
Consensus pattern (43 bp):
TCATATCATAATCATTTATCATATTTGCCATTTCAATATTTTC
Found at i:58235094 original size:15 final size:15
Alignment explanation
Indices: 58235070--58235105 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
58235060 TTATGTTTTC
*
58235070 ATTA-TATTATCTTT
1 ATTATTATTATCATT
58235084 ATTATTATTATCATT
1 ATTATTATTATCATT
58235099 ATTATTA
1 ATTATTA
58235106 AAGTTACTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (15 bp):
ATTATTATTATCATT
Found at i:58238326 original size:39 final size:40
Alignment explanation
Indices: 58238272--58238352 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 40
58238262 GTGGATGAAA
*
58238272 ATATATTCACTAGCAC-AATGCCTTCGGGACTTAGCCCGG
1 ATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGG
58238311 ATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGG
1 ATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGG
58238351 AT
1 AT
58238353 GTCATCCGAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
39 15 0.38
40 25 0.62
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
ATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGG
Found at i:58247922 original size:44 final size:42
Alignment explanation
Indices: 58247855--58247948 Score: 154
Period size: 44 Copynumber: 2.2 Consensus size: 42
58247845 AGACAGAGTT
58247855 TTACACGAAATCAAATACGATGCCAACGTCCCAGACGTGGTC
1 TTACACGAAATCAAATACGATGCCAACGTCCCAGACGTGGTC
58247897 TTACACGTAAATCATAAGT-CGATGCCAACGTCCCAGACGTGGTC
1 TTACACG-AAATCA-AA-TACGATGCCAACGTCCCAGACGTGGTC
58247941 TTACACGA
1 TTACACGA
58247949 TAACACATAT
Statistics
Matches: 49, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
42 7 0.14
43 7 0.14
44 34 0.69
45 1 0.02
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (42 bp):
TTACACGAAATCAAATACGATGCCAACGTCCCAGACGTGGTC
Found at i:58255710 original size:23 final size:23
Alignment explanation
Indices: 58255684--58255727 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
58255674 CTAATTAGGC
58255684 TTACTTCGGATTTGAATTTTTGT
1 TTACTTCGGATTTGAATTTTTGT
58255707 TTACTTCGGATTTGAATTTTT
1 TTACTTCGGATTTGAATTTTT
58255728 TCAAAGGTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.18, C:0.09, G:0.16, T:0.57
Consensus pattern (23 bp):
TTACTTCGGATTTGAATTTTTGT
Found at i:58255831 original size:22 final size:22
Alignment explanation
Indices: 58255790--58255838 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
58255780 GACCTTTTGG
* *
58255790 ATTCAGATTATTTCAAGCTCGA
1 ATTCAGATCATTTCAAGCTCAA
**
58255812 ATTCAGATCATTTCGGGCTCAA
1 ATTCAGATCATTTCAAGCTCAA
58255834 ATTCA
1 ATTCA
58255839 TTTAGACGGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (22 bp):
ATTCAGATCATTTCAAGCTCAA
Found at i:58256512 original size:17 final size:17
Alignment explanation
Indices: 58256471--58256512 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 17
58256461 TATTATAATC
*
58256471 TATAATATAATAATATT
1 TATAATATATTAATATT
58256488 TAT--TATATTAATATT
1 TATAATATATTAATATT
*
58256503 TATAAAATAT
1 TATAATATAT
58256513 ATTACTTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
15 14 0.67
17 7 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TATAATATATTAATATT
Found at i:58259150 original size:28 final size:28
Alignment explanation
Indices: 58259118--58259174 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
58259108 TGGTGTTTTG
58259118 ATCAGGTAAGCCCATATGGTATTTATTT
1 ATCAGGTAAGCCCATATGGTATTTATTT
58259146 ATCAGGTAAGCCCATATGGTATTTATTT
1 ATCAGGTAAGCCCATATGGTATTTATTT
58259174 A
1 A
58259175 CTTAGGTTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.39
Consensus pattern (28 bp):
ATCAGGTAAGCCCATATGGTATTTATTT
Found at i:58268202 original size:13 final size:13
Alignment explanation
Indices: 58268184--58268208 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58268174 TCGGTAGGGG
58268184 CATGCCCGTGTGA
1 CATGCCCGTGTGA
58268197 CATGCCCGTGTG
1 CATGCCCGTGTG
58268209 CGATTACTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.32, G:0.32, T:0.24
Consensus pattern (13 bp):
CATGCCCGTGTGA
Found at i:58280929 original size:34 final size:34
Alignment explanation
Indices: 58280886--58280959 Score: 123
Period size: 34 Copynumber: 2.2 Consensus size: 34
58280876 GCATATTGTT
58280886 CTGAAATGGGCTAAGGCCCAGACTG-TCACTATTA
1 CTGAAATGGGCTAAGGCCCAGACTGCT-ACTATTA
*
58280920 CTGAAATGGGCTAAGGCCCAGACTGCTACTGTTA
1 CTGAAATGGGCTAAGGCCCAGACTGCTACTATTA
58280954 CTGAAA
1 CTGAAA
58280960 AATGGGATAA
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
34 37 0.97
35 1 0.03
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.23
Consensus pattern (34 bp):
CTGAAATGGGCTAAGGCCCAGACTGCTACTATTA
Done.