Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 156 of 218
Found at i:47366821 original size:74 final size:74
Alignment explanation
Indices: 47366732--47366882 Score: 248
Period size: 74 Copynumber: 2.0 Consensus size: 74
47366722 CAGTTGTCCC
47366732 ATAATTTTTTGATGTCATGGGAAACAGGTTGACAACATGTTTGCAACGTGTTGACTACTTCTATT
1 ATAATTTTTTGATGTCATGGGAAACAGGTTGACAACATGTTTGCAACGTGTTGACTACTTCTATT
47366797 AGGATTTGT
66 AGGATTTGT
* * * * *
47366806 ATAATTTTTTTATGTCATGTGAAATAGGTTGACAACATGTTTGCAACTTGTTGACTGCTTCTATT
1 ATAATTTTTTGATGTCATGGGAAACAGGTTGACAACATGTTTGCAACGTGTTGACTACTTCTATT
*
47366871 AGGATTTTT
66 AGGATTTGT
47366880 ATA
1 ATA
47366883 TAAATTACTA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
74 71 1.00
ACGTcount: A:0.27, C:0.11, G:0.19, T:0.42
Consensus pattern (74 bp):
ATAATTTTTTGATGTCATGGGAAACAGGTTGACAACATGTTTGCAACGTGTTGACTACTTCTATT
AGGATTTGT
Found at i:47367188 original size:36 final size:37
Alignment explanation
Indices: 47367123--47367776 Score: 504
Period size: 37 Copynumber: 17.9 Consensus size: 37
47367113 TACCCTAACC
* *
47367123 TTTTTAAGGTTGCCTTAGAC-GGGTTTATCCCAACTT
1 TTTTTAAGGTTGCCTTAGACAAGGTCTATCCCAACTT
* * *
47367159 TTTTTAA-GTTGCCTTGGAAAAGGTCTATCCCAAC-C
1 TTTTTAAGGTTGCCTTAGACAAGGTCTATCCCAACTT
* * * * *
47367194 TTTTTAAGGTTGCTTTAAACGA-GTCTATCCCATC-A
1 TTTTTAAGGTTGCCTTAGACAAGGTCTATCCCAACTT
* * * *
47367229 TTTTTAAGGTTGTCTTAGAC-AGGTCAATCCTAACCT
1 TTTTTAAGGTTGCCTTAGACAAGGTCTATCCCAACTT
* * * * * *
47367265 TTTTAAAAGTTGCCTTAGACAATGCCTATCCTAAC-C
1 TTTTTAAGGTTGCCTTAGACAAGGTCTATCCCAACTT
* * *
47367301 TTTTTCAGGTTACCTTAGACGAA--TCTATCCCAAC-C
1 TTTTTAAGGTTGCCTTAGAC-AAGGTCTATCCCAACTT
* **
47367336 TTTTTAAGGTTGCCTTAGACGA-GTCTATCCCAACCA
1 TTTTTAAGGTTGCCTTAGACAAGGTCTATCCCAACTT
** *
47367372 TAATTAAGGTTGCCTTAGAC-TGGTCTA-CCCTAACATT
1 TTTTTAAGGTTGCCTTAGACAAGGTCTATCCC-AAC-TT
** *
47367409 TTTAAAAGGTTGCCTTAGACAA-GTCTATCTCAACCTT
1 TTTTTAAGGTTGCCTTAGACAAGGTCTATCCCAA-CTT
** * *
47367446 TTTAAAAAGTTGCCTTAGACAAGGTCTATCCCAAATT
1 TTTTTAAGGTTGCCTTAGACAAGGTCTATCCCAACTT
* * *
47367483 TTTTAAAAGGTTGCCTTCGAC-TGGTCTATCCCAACCTT
1 TTTT-TAAGGTTGCCTTAGACAAGGTCTATCCCAA-CTT
* * *
47367521 TTTTAAAGGTTGCCTTAGACAAGGTCTATACCAAC-C
1 TTTTTAAGGTTGCCTTAGACAAGGTCTATCCCAACTT
* * *
47367557 TTTTTAAGGTTACCTTAGACGA-TTCTATCCCAATCTT
1 TTTTTAAGGTTGCCTTAGACAAGGTCTATCCCAA-CTT
*
47367594 TTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACTT
1 TTTTTAAGGTTGCCTTAGACAAGGTCTATCCCAACTT
* **
47367631 TTTTTAAAGGTTTCCTTAGACAAAATCTATCCCAACTT
1 TTTTT-AAGGTTGCCTTAGACAAGGTCTATCCCAACTT
* * ** * *
47367669 TTTTAAAAGTTTATCTTAGAC-TGGTCTATCCCAAC-C
1 TTTT-TAAGGTTGCCTTAGACAAGGTCTATCCCAACTT
* * *
47367705 TTTTTAAGGTTGCCTTAAACGA-GCCTATCCCAACCTT
1 TTTTTAAGGTTGCCTTAGACAAGGTCTATCCCAA-CTT
** * *
47367742 TTTCAAAGGTTGGCCTT-GACTAGGTCTTTCCCAAC
1 TTTTTAAGGTT-GCCTTAGACAAGGTCTATCCCAAC
47367777 CCTTTAATAA
Statistics
Matches: 495, Mismatches: 95, Indels: 55
0.77 0.15 0.09
Matches are distributed among these distances:
34 2 0.00
35 126 0.25
36 112 0.23
37 142 0.29
38 113 0.23
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (37 bp):
TTTTTAAGGTTGCCTTAGACAAGGTCTATCCCAACTT
Found at i:47367299 original size:37 final size:37
Alignment explanation
Indices: 47367119--47367777 Score: 533
Period size: 35 Copynumber: 18.1 Consensus size: 37
47367109 GGTTTACCCT
** *
47367119 AACCTTTTT-AAGGTTGCCTTAGAC-GGGTTTATCCC
1 AACCTTTTTAAAGGTTGCCTTAGACAATGTCTATCCC
* * * * *
47367154 AACTTTTTTTAA-GTTGCCTTGGAAAAGGTCTATCCC
1 AACCTTTTTAAAGGTTGCCTTAGACAATGTCTATCCC
* * *
47367190 AACCTTTTT-AAGGTTGCTTTAAACGA-GTCTATCCC
1 AACCTTTTTAAAGGTTGCCTTAGACAATGTCTATCCC
* * * * * *
47367225 ATCATTTTT-AAGGTTGTCTTAGAC-AGGTCAATCCT
1 AACCTTTTTAAAGGTTGCCTTAGACAATGTCTATCCC
* * *
47367260 AACCTTTTTAAAAGTTGCCTTAGACAATGCCTATCCT
1 AACCTTTTTAAAGGTTGCCTTAGACAATGTCTATCCC
* *
47367297 AACCTTTTT-CAGGTTACCTTAGACGAA--TCTATCCC
1 AACCTTTTTAAAGGTTGCCTTAGAC-AATGTCTATCCC
*
47367332 AACCTTTTT-AAGGTTGCCTTAGACGA-GTCTATCCC
1 AACCTTTTTAAAGGTTGCCTTAGACAATGTCTATCCC
**
47367367 AACCATAATT-AAGGTTGCCTTAGAC--TGGTCTA-CCC
1 AACC-TTTTTAAAGGTTGCCTTAGACAAT-GTCTATCCC
* *
47367402 TAACATTTTTAAAAGGTTGCCTTAGACAA-GTCTATCTC
1 -AACCTTTTT-AAAGGTTGCCTTAGACAATGTCTATCCC
* *
47367440 AACCTTTTTAAAAAGTTGCCTTAGACAAGGTCTATCCC
1 AACCTTTTT-AAAGGTTGCCTTAGACAATGTCTATCCC
** *
47367478 AAATTTTTTAAAAGGTTGCCTTCGAC--TGGTCTATCCC
1 AACCTTTTT-AAAGGTTGCCTTAGACAAT-GTCTATCCC
* *
47367515 AACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATACC
1 AACC-TTTTTAAAGGTTGCCTTAGACAATGTCTATCCC
* *
47367553 AACCTTTTT-AAGGTTACCTTAGACGAT-TCTATCCC
1 AACCTTTTTAAAGGTTGCCTTAGACAATGTCTATCCC
* *
47367588 AATCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCC
1 AA-CCTTTTTAAAGGTTGCCTTAGACAATGTCTATCCC
* * **
47367626 AACTTTTTTTAAAGGTTTCCTTAGACAAAATCTATCCC
1 AAC-CTTTTTAAAGGTTGCCTTAGACAATGTCTATCCC
* * **
47367664 AACTTTTTTAAAAGTTTATCTTAGAC--TGGTCTATCCC
1 AACCTTTTT-AAAGGTTGCCTTAGACAAT-GTCTATCCC
* * *
47367701 AACCTTTTT-AAGGTTGCCTTAAACGA-GCCTATCCC
1 AACCTTTTTAAAGGTTGCCTTAGACAATGTCTATCCC
* * *
47367736 AACCTTTTTCAAAGGTTGGCCTT-GACTAGGTCTTTCCC
1 AACCTTTTT-AAAGGTT-GCCTTAGACAATGTCTATCCC
47367774 AACC
1 AACC
47367778 CTTTAATAAG
Statistics
Matches: 512, Mismatches: 78, Indels: 65
0.78 0.12 0.10
Matches are distributed among these distances:
34 2 0.00
35 145 0.28
36 100 0.20
37 143 0.28
38 122 0.24
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (37 bp):
AACCTTTTTAAAGGTTGCCTTAGACAATGTCTATCCC
Found at i:47367566 original size:148 final size:144
Alignment explanation
Indices: 47367078--47367777 Score: 681
Period size: 148 Copynumber: 4.8 Consensus size: 144
47367068 ACAAAAGATT
* * ** *
47367078 TATCCCAACC-TTTTTAAGTTTTCCTTAGATGGGTTTA-CCCTAACCTTTTTAAGGTTGCCTTAG
1 TATCCCAACCATTTTTAAGGTTGCCTTAGACAGGTCTATCCCTAACCTTTTTAAGGTTGCCTTAG
* * * * * *
47367141 ACGGGTTTATCCCAACTTTTTTTAA-GTTGCCTTGGAAAAGGTCTATCCCAACCTTTTTAAGGTT
66 ACGAGTCTATCCCAACCTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTAAGGTT
* *
47367205 GCTTTAAACGAGTC
131 GCCTTAGACGAGTC
* * * *
47367219 TATCCC-ATCATTTTTAAGGTTGTCTTAGACAGGTCAAT-CCTAACCTTTTTAAAAGTTGCCTTA
1 TATCCCAACCATTTTTAAGGTTGCCTTAGACAGGTCTATCCCTAACCTTTTT-AAGGTTGCCTTA
* * * * *
47367282 GACAATGCCTATCCTAACCTTTTT-CAGGTTACCTTAGACGAA--TCTATCCCAACCTTTTTAAG
65 GACGA-GTCTATCCCAACCTTTTTAAAGGTTGCCTTAGAC-AAGGTCTATCCCAACCTTTTTAAG
47367344 GTTGCCTTAGACGAGTC
128 GTTGCCTTAGACGAGTC
** * *
47367361 TATCCCAACCATAATTAAGGTTGCCTTAGACTGGTCTA-CCCTAACATTTTTAAAAGGTTGCCTT
1 TATCCCAACCATTTTTAAGGTTGCCTTAGACAGGTCTATCCCTAACCTTTTT--AAGGTTGCCTT
* * * **
47367425 AGACAAGTCTATCTCAACCTTTTTAAAAAGTTGCCTTAGACAAGGTCTATCCCAAATTTTTTAAA
64 AGACGAGTCTATCCCAACCTTTTT-AAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTT--A
*
47367490 AGGTTGCCTTCGACTG-GTC
126 AGGTTGCCTTAGAC-GAGTC
* * *
47367509 TATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATACC-AACCTTTTTAAGGTTACCTT
1 TATCCCAACCATTTTT-AAGGTTGCCTTAGAC-AGGTCTATCCCTAACCTTTTTAAGGTTGCCTT
* * *
47367573 AGACGATTCTATCCCAATCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACTTTTTTTAA
64 AGACGAGTCTATCCCAA-CCTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAAC-CTTTTT-A
* * *
47367638 AGGTTTCCTTAGACAAAATC
126 AGGTTGCCTTAGAC-GAGTC
* * ** *
47367658 TATCCCAA-CTTTTTTAAAAGTTTATCTTAGACTGGTCTATCCC-AACCTTTTTAAGGTTGCCTT
1 TATCCCAACCATTTTT--AAGGTTGCCTTAGACAGGTCTATCCCTAACCTTTTTAAGGTTGCCTT
* * * *
47367721 AAACGAGCCTATCCCAACCTTTTTCAAAGGTTGGCCTT-GACTAGGTCTTTCCCAACC
64 AGACGAGTCTATCCCAACCTTTTT-AAAGGTT-GCCTTAGACAAGGTCTATCCCAACC
47367778 CTTTAATAAG
Statistics
Matches: 465, Mismatches: 69, Indels: 44
0.80 0.12 0.08
Matches are distributed among these distances:
140 2 0.00
141 38 0.08
142 56 0.12
143 74 0.16
144 21 0.05
145 12 0.03
146 15 0.03
147 6 0.01
148 169 0.36
149 56 0.12
150 14 0.03
151 2 0.00
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.36
Consensus pattern (144 bp):
TATCCCAACCATTTTTAAGGTTGCCTTAGACAGGTCTATCCCTAACCTTTTTAAGGTTGCCTTAG
ACGAGTCTATCCCAACCTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTAAGGTT
GCCTTAGACGAGTC
Found at i:47370386 original size:15 final size:15
Alignment explanation
Indices: 47370368--47370409 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
47370358 TTCTCAGTTG
47370368 TCTTCTTCTTCG-CTT
1 TCTTCTTCTTCGTC-T
*
47370383 TCTTCGTCTTCGTCT
1 TCTTCTTCTTCGTCT
47370398 TCTTCTTCTTCG
1 TCTTCTTCTTCG
47370410 GTGATTGCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 23 0.96
16 1 0.04
ACGTcount: A:0.00, C:0.33, G:0.10, T:0.57
Consensus pattern (15 bp):
TCTTCTTCTTCGTCT
Found at i:47375951 original size:24 final size:23
Alignment explanation
Indices: 47375916--47375969 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
47375906 TAGTTGCATG
*
47375916 TTTTATAAGTAATAAATATTTTTA
1 TTTT-TAAGTAATAAATAATTTTA
*
47375940 TTTTTAATGTAATAATTAATTTTA
1 TTTTTAA-GTAATAAATAATTTTA
*
47375964 CTTTTA
1 TTTTTA
47375970 TATAATGATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 3 0.12
24 23 0.88
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (23 bp):
TTTTTAAGTAATAAATAATTTTA
Found at i:47377773 original size:23 final size:23
Alignment explanation
Indices: 47377724--47377773 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
47377714 AGCATTATGT
* *
47377724 CATTTTAGTGCAATTCATTTTGC
1 CATTATAGTGCAATTCATTCTGC
*
47377747 CATTATAGTGCAATTCATTCTGG
1 CATTATAGTGCAATTCATTCTGC
47377770 CATT
1 CATT
47377774 CGATGCATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.24, C:0.18, G:0.14, T:0.44
Consensus pattern (23 bp):
CATTATAGTGCAATTCATTCTGC
Found at i:47390263 original size:51 final size:52
Alignment explanation
Indices: 47390208--47390315 Score: 175
Period size: 51 Copynumber: 2.1 Consensus size: 52
47390198 TTTCATTTTT
47390208 CATTTTTATTTTGGAGAAAACCA-AATTCATTTCCAAATGATTCC-ATTTCTC
1 CATTTTTATTTTGGAGAAAACCATAA-TCATTTCCAAATGATTCCTATTTCTC
* *
47390259 CATTTTTATTTTGGAGAAAACCATAATCATTTCCAAATGTTTCCTATTTTTC
1 CATTTTTATTTTGGAGAAAACCATAATCATTTCCAAATGATTCCTATTTCTC
47390311 CATTT
1 CATTT
47390316 CACCATTTCT
Statistics
Matches: 53, Mismatches: 2, Indels: 3
0.91 0.03 0.05
Matches are distributed among these distances:
51 40 0.75
52 13 0.25
ACGTcount: A:0.30, C:0.19, G:0.07, T:0.44
Consensus pattern (52 bp):
CATTTTTATTTTGGAGAAAACCATAATCATTTCCAAATGATTCCTATTTCTC
Found at i:47399825 original size:20 final size:20
Alignment explanation
Indices: 47399791--47399832 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
47399781 AACTATTTAA
** *
47399791 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
47399811 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
47399831 AT
1 AT
47399833 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:47400664 original size:49 final size:49
Alignment explanation
Indices: 47400531--47400665 Score: 139
Period size: 49 Copynumber: 2.7 Consensus size: 49
47400521 GTAAAGAGAT
* * * * *
47400531 CCCATGTAAGACCATGTCTGAGACATGGCATGGGCACCGATATGAGAACT
1 CCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CGACAAGAGAACC
* * * *
47400581 CCCATGTAAGACTATATCTGGGATATGACATTGGCA-GTACAAGA-AACAC
1 CCCATGTAAGACCATGTCTGGGACATGGCATTGGCACG-ACAAGAGAAC-C
*
47400630 CCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 CCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
47400666 TGTTATTATC
Statistics
Matches: 69, Mismatches: 14, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
48 4 0.06
49 35 0.51
50 30 0.43
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.22
Consensus pattern (49 bp):
CCCATGTAAGACCATGTCTGGGACATGGCATTGGCACGACAAGAGAACC
Found at i:47408101 original size:56 final size:50
Alignment explanation
Indices: 47408005--47408251 Score: 196
Period size: 50 Copynumber: 4.8 Consensus size: 50
47407995 ATTTGGGTAA
* * *
47408005 AGAGATCCCATGTAAGACCATGTCTGGGACTTGACATTGGCATCATTAAAGTTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C---AAAG--ATG
* **
47408061 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACAAAGATG
* * ** *
47408111 AGAGGTCTCC-CGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTC-CCATGTAAGACCATGTCTGGGACATGGCATTGGCACAAAGATG
** * * * *
47408161 AGAACTCCCATGTAAGACCTTATCTGGGATATGGCATTGGCAGTACAAGA--
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CA-AAGATG
** * *
47408211 A-ACATCCCATGTAAGACCATGTCTGGGACATAGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
47408252 TGTTATTATC
Statistics
Matches: 159, Mismatches: 28, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
49 35 0.22
50 79 0.50
51 2 0.01
52 4 0.03
55 1 0.01
56 38 0.24
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACAAAGATG
Found at i:47408113 original size:50 final size:50
Alignment explanation
Indices: 47408058--47408251 Score: 205
Period size: 50 Copynumber: 3.9 Consensus size: 50
47408048 CATTAAAGTT
* *
47408058 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAC
* * *
47408108 ATGAGAGGTCTCC-CGTAAGACCATGTCTGGGACATGGCATGGGCACCGAT
1 ATGAGAGGTC-CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAC
** * * *
47408158 ATGAGAACTCCCATGTAAGACCTTATCTGGGATATGGCATTGGCA--GTAC
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AC
* * ** * *
47408207 AAGAAACATCCCATGTAAGACCATGTCTGGGACATAGCTTTGGCA
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
47408252 TGTTATTATC
Statistics
Matches: 120, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
48 1 0.01
49 39 0.32
50 78 0.65
51 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.22
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAC
Found at i:47413541 original size:20 final size:20
Alignment explanation
Indices: 47413507--47413548 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
47413497 AACTATTTAA
** *
47413507 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
47413527 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
47413547 AT
1 AT
47413549 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:47413915 original size:16 final size:16
Alignment explanation
Indices: 47413896--47413928 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
47413886 GTGGGGGAGA
47413896 ATATAACCTTAAAGAT
1 ATATAACCTTAAAGAT
47413912 ATATAACCTTAAAGAT
1 ATATAACCTTAAAGAT
47413928 A
1 A
47413929 GTGACTCGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.52, C:0.12, G:0.06, T:0.30
Consensus pattern (16 bp):
ATATAACCTTAAAGAT
Found at i:47419721 original size:20 final size:20
Alignment explanation
Indices: 47419696--47419736 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
47419686 ACAATTCTTG
47419696 TTGTTGTTTTT-CCTTCTGTT
1 TTGTTGTTTTTGCCTT-TGTT
47419716 TTGTTGTTTTTGCCTTTGTT
1 TTGTTGTTTTTGCCTTTGTT
47419736 T
1 T
47419737 ATTGCTAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.00, C:0.12, G:0.17, T:0.71
Consensus pattern (20 bp):
TTGTTGTTTTTGCCTTTGTT
Found at i:47426954 original size:4 final size:4
Alignment explanation
Indices: 47426945--47427010 Score: 114
Period size: 4 Copynumber: 16.5 Consensus size: 4
47426935 AAAAAAGATA
*
47426945 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTGT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
*
47426993 GTGT GTAT GTAT GTAT GT
1 GTAT GTAT GTAT GTAT GT
47427011 GAAGAATTGG
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 58 1.00
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (4 bp):
GTAT
Found at i:47441027 original size:11 final size:11
Alignment explanation
Indices: 47441005--47441044 Score: 64
Period size: 11 Copynumber: 3.6 Consensus size: 11
47440995 AACTAATCCT
47441005 CTCTCAAATTTC
1 CTCTC-AATTTC
47441017 CTCTCAATTTC
1 CTCTCAATTTC
47441028 CTCTCAATTTC
1 CTCTCAATTTC
47441039 CT-TCAA
1 CTCTCAA
47441045 AAATTCTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 4 0.14
11 19 0.68
12 5 0.18
ACGTcount: A:0.23, C:0.35, G:0.00, T:0.42
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:47442090 original size:21 final size:20
Alignment explanation
Indices: 47442051--47442088 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
47442041 TAACGAGGTA
47442051 AATTTTATATTAGATTTTAC
1 AATTTTATATTAGATTTTAC
47442071 AATTATTATA-TAGATTTT
1 AATT-TTATATTAGATTTT
47442089 TAAAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.55
Consensus pattern (20 bp):
AATTTTATATTAGATTTTAC
Found at i:47442951 original size:18 final size:18
Alignment explanation
Indices: 47442928--47442965 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
47442918 AGTGCGTTTT
47442928 CTAACCCTTATATGTATC
1 CTAACCCTTATATGTATC
*
47442946 CTAACCCTTATATTTATC
1 CTAACCCTTATATGTATC
47442964 CT
1 CT
47442966 TTTCCGAGTC
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:0.26, C:0.29, G:0.03, T:0.42
Consensus pattern (18 bp):
CTAACCCTTATATGTATC
Found at i:47443421 original size:25 final size:25
Alignment explanation
Indices: 47443393--47443440 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
47443383 TATTTTGATA
47443393 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
47443418 TTATTTGATGTAATAAAATAGAA
1 TTATTTGATGTAATAAAATAGAA
47443441 ATTTTTGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.40
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:47443546 original size:21 final size:21
Alignment explanation
Indices: 47443488--47444012 Score: 508
Period size: 21 Copynumber: 24.0 Consensus size: 21
47443478 AACCATTAAT
47443488 ACCCTTAACTT-AAAACCCTA
1 ACCCTTAACTTAAAAACCCTA
* *
47443508 ACCTAATTTAA-TTAAAAACCTTAA
1 ACC---CTTAACTTAAAAACCCT-A
47443532 ACCCTTAACTTAAAAACCCTA
1 ACCCTTAACTTAAAAACCCTA
* *
47443553 ACCTAATTAAATTAAAAACCCTA
1 ACC--CTTAACTTAAAAACCCTA
47443576 ACCCTTAACTT-AAAACCCTA
1 ACCCTTAACTTAAAAACCCTA
* *
47443596 ACCTAATTAAATTAAAAACCCTA
1 ACC--CTTAACTTAAAAACCCTA
47443619 ACCCCTTAACTT-AAAACCCTA
1 A-CCCTTAACTTAAAAACCCTA
* *
47443640 ACCTAATTAAATTAAAAACCCTA
1 ACC--CTTAACTTAAAAACCCTA
*
47443663 ACCCTTAACTTAAAAACCCGA
1 ACCCTTAACTTAAAAACCCTA
* *
47443684 ACCTAATTAAATTAAAAACCCTA
1 ACC--CTTAACTTAAAAACCCTA
*
47443707 ACCCTTAAATTAAAAACCCTA
1 ACCCTTAACTTAAAAACCCTA
47443728 ACCCTTAACTTAAAAACCCTA
1 ACCCTTAACTTAAAAACCCTA
* *
47443749 ACCTAATTAAATTAAAAACCCTA
1 ACC--CTTAACTTAAAAACCCTA
*
47443772 ACCTAATTAACTTAAAAACCCTA
1 ACC--CTTAACTTAAAAACCCTA
* *
47443795 ACCTAATTAAATT-AAAACCCTA
1 ACC--CTTAACTTAAAAACCCTA
47443817 ACCCTTAACTTAAAAACCCTA
1 ACCCTTAACTTAAAAACCCTA
*
47443838 ACCTAATTTAA-TTAAAAACCCTAA
1 ACC---CTTAACTTAAAAACCCT-A
* * *
47443862 ACCCTAAAATTAAAAACACTA
1 ACCCTTAACTTAAAAACCCTA
*
47443883 A-CCTGTTACTTAAAAACCCTA
1 ACCCT-TAACTTAAAAACCCTA
47443904 ACCCTTAACTTAAAAACCCTA
1 ACCCTTAACTTAAAAACCCTA
*
47443925 ACCCTTTAACTT-AAAACACTAA
1 ACCC-TTAACTTAAAAACCCT-A
47443947 ACCCTTAACTTAAAAACCCTA
1 ACCCTTAACTTAAAAACCCTA
*
47443968 ACCCTTAACTTAAAAATCCTA
1 ACCCTTAACTTAAAAACCCTA
* *
47443989 ACCTAATTAAATTAAAAACCCTA
1 ACC--CTTAACTTAAAAACCCTA
47444012 A
1 A
47444013 ACGAAATTAA
Statistics
Matches: 430, Mismatches: 43, Indels: 61
0.81 0.08 0.11
Matches are distributed among these distances:
20 26 0.06
21 169 0.39
22 74 0.17
23 147 0.34
24 14 0.03
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.26
Consensus pattern (21 bp):
ACCCTTAACTTAAAAACCCTA
Found at i:47443579 original size:44 final size:44
Alignment explanation
Indices: 47443488--47444012 Score: 600
Period size: 44 Copynumber: 12.0 Consensus size: 44
47443478 AACCATTAAT
* *
47443488 ACCCTTAACTT-AAAACCCTAACCTAATTTAATTAAAAACCTTAA
1 ACCCTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCT-A
47443532 ACCCTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTA
1 ACCCTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTA
47443576 ACCCTTAACTT-AAAACCCTAACCTAATTAAATTAAAAACCCTA
1 ACCCTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTA
47443619 ACCCCTTAACTT-AAAACCCTAACCTAATTAAATTAAAAACCCTA
1 A-CCCTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTA
*
47443663 ACCCTTAACTTAAAAACCCGAACCTAATTAAATTAAAAACCCTA
1 ACCCTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTA
* * *
47443707 ACCCTTAAATTAAAAACCCTAACC--CTTAACTTAAAAACCCTA
1 ACCCTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTA
* * *
47443749 ACCTAATTAAATTAAAAACCCTAACCTAATTAACTTAAAAACCCTA
1 ACC--CTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTA
* * * *
47443795 ACCTAATTAAATT-AAAACCCTAACC--CTTAACTTAAAAACCCTA
1 ACC--CTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTA
* *
47443838 ACCTAATTTAA-TTAAAAACCCTAAACCCT-A--AAATTAAAAACACTA
1 ACC---CTTAACTTAAAAACCCT-AA-CCTAATTAAATTAAAAACCCTA
* * *
47443883 A-CCTGTTACTTAAAAACCCTAACC--CTTAACTTAAAAACCCTA
1 ACCCT-TAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTA
* * *
47443925 ACCCTTTAACTT-AAAACACTAAACC--CTTAACTTAAAAACCCTA
1 ACCC-TTAACTTAAAAACCCT-AACCTAATTAAATTAAAAACCCTA
*
47443968 ACCCTTAACTTAAAAATCCTAACCTAATTAAATTAAAAACCCTA
1 ACCCTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTA
47444012 A
1 A
47444013 ACGAAATTAA
Statistics
Matches: 433, Mismatches: 26, Indels: 44
0.86 0.05 0.09
Matches are distributed among these distances:
41 3 0.01
42 55 0.13
43 115 0.27
44 171 0.39
45 57 0.13
46 32 0.07
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.26
Consensus pattern (44 bp):
ACCCTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTA
Found at i:47444142 original size:27 final size:25
Alignment explanation
Indices: 47444079--47444146 Score: 66
Period size: 27 Copynumber: 2.6 Consensus size: 25
47444069 TGGTACTAAA
*
47444079 AATTAATAATTTTATATAATTTGAT
1 AATTAATAATTTTATACAATTTGAT
*
47444104 AATTTTACTAATTATTAATACAATTT-AT
1 AA--TTAATAATT-TT-ATACAATTTGAT
47444132 CAATTAATAATTTTA
1 -AATTAATAATTTTA
47444147 CATTCACATA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
25 3 0.09
26 2 0.06
27 16 0.46
28 4 0.11
29 10 0.29
ACGTcount: A:0.44, C:0.04, G:0.01, T:0.50
Consensus pattern (25 bp):
AATTAATAATTTTATACAATTTGAT
Found at i:47444212 original size:115 final size:117
Alignment explanation
Indices: 47444017--47444260 Score: 386
Period size: 116 Copynumber: 2.1 Consensus size: 117
47444007 CCCTAAACGA
* * **
47444017 AATTAATAATTTTACTTTCACATAATGTTGGATTTGGAAAAATATTTTTTCCTGGTACTAAAAAT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATATTTTTGACTGGTACTAAAAAT
* **
47444082 TAATAATTTTATATAATTTGATAA-TTTTACTAATTATTAATACAATTTATC
66 TAATAATTTTATATAATTTGACAATTTTTACTAACCATTAATACAATTTATC
*
47444133 AATTAATAATTTTACATTCACATAATGTTAGATTT-GAAAAA-ATGTTTTGACTGGTACTAACAA
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATAT-TTTTGACTGGTACTAAAAA
47444196 TTAATAATTTTATATAATTTGACAATTTTTACTAACCATTAATACAATTTATC
65 TTAATAATTTTATATAATTTGACAATTTTTACTAACCATTAATACAATTTATC
47444249 AATTAATAATTT
1 AATTAATAATTT
47444261 CACAAACTTA
Statistics
Matches: 118, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
114 2 0.02
115 46 0.39
116 70 0.59
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.45
Consensus pattern (117 bp):
AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATATTTTTGACTGGTACTAAAAAT
TAATAATTTTATATAATTTGACAATTTTTACTAACCATTAATACAATTTATC
Found at i:47447598 original size:124 final size:124
Alignment explanation
Indices: 47447269--47447620 Score: 578
Period size: 125 Copynumber: 2.8 Consensus size: 124
47447259 CCCAAACATG
* * *
47447269 CTACTGTAGCAAAAGCGCATCCACGAGGGCACGATTTTCACAAATTCTTCTCAAATAGCATCCTC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGA-TTTCACAAATTCTTCTCAAATAGCATCCTG
47447334 CTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATATTTCTTCCATAAC
65 CTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATATTTCTTCCATAAC
47447394 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTGTCACAAATTCTTCTCAAATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATT-TCACAAATTCTTCTCAAATAGCATCCTG
** * *
47447459 CTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATTTATTTCTTTCATGAC
65 CTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATATTTCTTCCATAAC
* * * *
47447519 CTATTGTAGTAAAAGTGCGTCCACTAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
*
47447584 TAGAAGCGATTTTATACTATTTGATCAGAAACGTCAA
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAA
47447621 CTCGAAATTA
Statistics
Matches: 214, Mismatches: 12, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
124 67 0.31
125 147 0.69
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (124 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATATTTCTTCCATAAC
Found at i:47448223 original size:14 final size:14
Alignment explanation
Indices: 47448204--47448235 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
47448194 TTCATTAATC
47448204 TTTTCTCTCAATTT
1 TTTTCTCTCAATTT
*
47448218 TTTTCTCTTAATTT
1 TTTTCTCTCAATTT
47448232 TTTT
1 TTTT
47448236 ATCATAATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.12, C:0.16, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTTCTCTCAATTT
Found at i:47454197 original size:45 final size:42
Alignment explanation
Indices: 47454096--47454188 Score: 150
Period size: 42 Copynumber: 2.2 Consensus size: 42
47454086 GCTCTCGGTA
*
47454096 TCGCACACTTAGTGCCCGTTATTCAACATCATCATTTTAATT
1 TCGCACACTTAGTGCCCATTATTCAACATCATCATTTTAATT
** *
47454138 TCTTACACTTAGTGCCCATTATTCAACATCATCATTTTAGTT
1 TCGCACACTTAGTGCCCATTATTCAACATCATCATTTTAATT
47454180 TCGCACACT
1 TCGCACACT
47454189 ATTTAGTGCT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.26, C:0.27, G:0.09, T:0.39
Consensus pattern (42 bp):
TCGCACACTTAGTGCCCATTATTCAACATCATCATTTTAATT
Found at i:47461670 original size:117 final size:117
Alignment explanation
Indices: 47461531--47461741 Score: 325
Period size: 117 Copynumber: 1.8 Consensus size: 117
47461521 TTTGATTTGT
* * * * *
47461531 TGGTTATTTGTGATTTATTATTGCAATTTCAGTGTCACAATGTAGGGTTTGTTTTATCAATTTTT
1 TGGTTAATTGTGATTTATTATTGCAATTTCAATGCCACAATGTAGGGTTTGTTTTATCAATCTGT
*
47461596 GCTACGACAGTGGTCCCGATGT-TGTTGATAAAACTATTGTCAAAATTACAGA
66 GATACGACAGTGGTCCCGAT-TATGTTGATAAAACTATTGTCAAAATTACAGA
*
47461648 TGGTTAATTGTGATTTATTATTGCAATTTCAATGCCACAATGTAGGGTTTGTTTTGTCAATCTGT
1 TGGTTAATTGTGATTTATTATTGCAATTTCAATGCCACAATGTAGGGTTTGTTTTATCAATCTGT
* *
47461713 GATGCGACAGTGGTCCTGATTATGTTGAT
66 GATACGACAGTGGTCCCGATTATGTTGAT
47461742 TTCTGTTACC
Statistics
Matches: 84, Mismatches: 9, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
116 1 0.01
117 83 0.99
ACGTcount: A:0.25, C:0.12, G:0.21, T:0.42
Consensus pattern (117 bp):
TGGTTAATTGTGATTTATTATTGCAATTTCAATGCCACAATGTAGGGTTTGTTTTATCAATCTGT
GATACGACAGTGGTCCCGATTATGTTGATAAAACTATTGTCAAAATTACAGA
Found at i:47463531 original size:43 final size:44
Alignment explanation
Indices: 47463484--47463581 Score: 112
Period size: 44 Copynumber: 2.2 Consensus size: 44
47463474 TTACAGACGT
*
47463484 GGTCTTACATGT-AATC-AAATATCGATGCC-ACTGTCCCAAACAA
1 GGTCTTACATGTAAATCTAAA-ATCGATGCCAAC-ATCCCAAACAA
* * * *
47463527 GGTCTTACACGTAAATCTCAAATCGATGCCAACATCCCAGACGA
1 GGTCTTACATGTAAATCTAAAATCGATGCCAACATCCCAAACAA
47463571 GGTCTTACATG
1 GGTCTTACATG
47463582 ATAACTCATA
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
43 11 0.24
44 31 0.67
45 4 0.09
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (44 bp):
GGTCTTACATGTAAATCTAAAATCGATGCCAACATCCCAAACAA
Found at i:47465218 original size:33 final size:33
Alignment explanation
Indices: 47465151--47465326 Score: 135
Period size: 33 Copynumber: 5.3 Consensus size: 33
47465141 TATTAACTAC
*
47465151 TGGGGAGGGTGATGTTGAA-AGGGT-GAAAGT-TGA
1 TGGGGAGGGTGATGTAGAAGA-GGTAG-AA-TCTGA
*
47465184 TGGGGAGGGTGATG-ATGAAGGGGTAGAATCTGA
1 TGGGGAGGGTGATGTA-GAAGAGGTAGAATCTGA
* * * * * *
47465217 TGGTGAAGGTGATCTAAAAAAGGTAGAATCTGG
1 TGGGGAGGGTGATGTAGAAGAGGTAGAATCTGA
* * * * *
47465250 TGGGGAGGGTGATGTAGGAGTGGTACAAGCTAA
1 TGGGGAGGGTGATGTAGAAGAGGTAGAATCTGA
* * * *
47465283 TGGGGAGGGCGATGTAGGAGAGGTACAAGCTGA
1 TGGGGAGGGTGATGTAGAAGAGGTAGAATCTGA
47465316 TGGGGAGGGTG
1 TGGGGAGGGTG
47465327 TGTCTGCTAC
Statistics
Matches: 114, Mismatches: 24, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
32 1 0.01
33 111 0.97
34 2 0.02
ACGTcount: A:0.28, C:0.05, G:0.47, T:0.21
Consensus pattern (33 bp):
TGGGGAGGGTGATGTAGAAGAGGTAGAATCTGA
Found at i:47469277 original size:32 final size:32
Alignment explanation
Indices: 47469240--47469313 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 32
47469230 TTTGGTTCTA
*
47469240 AGGGATTTCATAATTTCATTCCTAATAGTTTT
1 AGGGATTTCATAATTTCATTCCTAAAAGTTTT
* * * * *
47469272 AGGGATTTAATGATTTGATTCGTAAAATTTTT
1 AGGGATTTCATAATTTCATTCCTAAAAGTTTT
*
47469304 AAGGATTTCA
1 AGGGATTTCA
47469314 AGAATATTTC
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.31, C:0.08, G:0.16, T:0.45
Consensus pattern (32 bp):
AGGGATTTCATAATTTCATTCCTAAAAGTTTT
Found at i:47475830 original size:28 final size:26
Alignment explanation
Indices: 47475799--47475861 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
47475789 TAATACTAAG
* * *
47475799 AATTTTATTAAATTATATATATTTTTTA
1 AATTATATTAAATCATA-AT-TATTTTA
*
47475827 AATTATATTTAATCATAATTATTTTA
1 AATTATATTAAATCATAATTATTTTA
47475853 AATTATATT
1 AATTATATT
47475862 TTATAGTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 15 0.48
27 2 0.06
28 14 0.45
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (26 bp):
AATTATATTAAATCATAATTATTTTA
Found at i:47475864 original size:59 final size:58
Alignment explanation
Indices: 47475800--47475997 Score: 183
Period size: 59 Copynumber: 3.3 Consensus size: 58
47475790 AATACTAAGA
*
47475800 ATTTTATTAAATTATATATATTTTTTAAATTATATTTAATCATAATTATTTTAAATTAT
1 ATTTTA-TAAATTATATATATTTTTTAAATTATATTTAATAATAATTATTTTAAATTAT
* * * ** *
47475859 ATTTTATAGTATTATATATTATGATTTTAGTAAATTCATA--TAAGAATATTTAATACT-AA-GA
1 ATTTTATA-AATTATATA-TAT--TTTT--TAAATT-ATATTTAATAATAATT-ATTTTAAATTA
47475920 -
58 T
47475920 ATTTTATTAAATTATATAT-TTTTGTTAAATTATATTTAATAATAATTATTTTAAATTAT
1 ATTTTA-TAAATTATATATATTTT-TTAAATTATATTTAATAATAATTATTTTAAATTAT
47475979 ATTTTATAATATTATATAT
1 ATTTTATAA-ATTATATAT
47475998 TATAATTTTA
Statistics
Matches: 110, Mismatches: 13, Indels: 32
0.71 0.08 0.21
Matches are distributed among these distances:
55 3 0.03
56 9 0.08
57 14 0.13
58 7 0.06
59 30 0.27
60 4 0.04
61 14 0.13
62 7 0.06
63 10 0.09
64 9 0.08
65 3 0.03
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (58 bp):
ATTTTATAAATTATATATATTTTTTAAATTATATTTAATAATAATTATTTTAAATTAT
Found at i:47475924 original size:61 final size:59
Alignment explanation
Indices: 47475843--47476020 Score: 148
Period size: 59 Copynumber: 3.0 Consensus size: 59
47475833 ATTTAATCAT
* *
47475843 AATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAG
1 AATTATTTTAAATAAAATTTTATA-TATTATATATTATGATTTTAGTAAATTCATATAAG
* * ** * * * *
47475903 AA-TA-TTTAATACTAAGAATTTTATTAAATTATATATTTTTG-TTAAATTATATTTA-ATAAT
1 AATTATTTTAA-A-TAA-AATTTTA-TATATTATATA-TTATGATTTTAGTAAATTCATATAAG
* * *
47475963 AATTATTTTAAATTATATTTTATAATATTATATATTATAATTTTAGTAAATTCATATA
1 AATTATTTTAAATAAAATTTTAT-ATATTATATATTATGATTTTAGTAAATTCATATA
47476021 TTCTATTAAA
Statistics
Matches: 88, Mismatches: 20, Indels: 20
0.69 0.16 0.16
Matches are distributed among these distances:
58 9 0.10
59 27 0.31
60 15 0.17
61 26 0.30
62 11 0.12
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (59 bp):
AATTATTTTAAATAAAATTTTATATATTATATATTATGATTTTAGTAAATTCATATAAG
Found at i:47475924 original size:120 final size:120
Alignment explanation
Indices: 47475781--47476020 Score: 437
Period size: 120 Copynumber: 2.0 Consensus size: 120
47475771 TACAATCATT
*
47475781 AGAATATTTAATACTAAGAATTTTATTAAATTATATATATTTT-TTAAATTATATTTAATCATAA
1 AGAATATTTAATACTAAGAATTTTATTAAATTATATAT-TTTTGTTAAATTATATTTAATAATAA
* *
47475845 TTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATA
65 TTATTTTAAATTATATTTTATAATATTATATATTATAATTTTAGTAAATTCATATA
47475901 AGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAATAAT
1 AGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAATAAT
47475966 TATTTTAAATTATATTTTATAATATTATATATTATAATTTTAGTAAATTCATATA
66 TATTTTAAATTATATTTTATAATATTATATATTATAATTTTAGTAAATTCATATA
47476021 TTCTATTAAA
Statistics
Matches: 116, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
119 4 0.03
120 112 0.97
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (120 bp):
AGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAATAAT
TATTTTAAATTATATTTTATAATATTATATATTATAATTTTAGTAAATTCATATA
Found at i:47475973 original size:26 final size:25
Alignment explanation
Indices: 47475935--47475993 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
47475925 ATTAAATTAT
*
47475935 ATATTTTTGTTAAATTATATTTAATA
1 ATATTATT-TTAAATTATATTTAATA
*
47475961 ATAATTATTTTAAATTATATTTTATA
1 AT-ATTATTTTAAATTATATTTAATA
47475987 ATATTAT
1 ATATTAT
47475994 ATATTATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 5 0.17
26 20 0.67
27 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (25 bp):
ATATTATTTTAAATTATATTTAATA
Found at i:47475992 original size:15 final size:15
Alignment explanation
Indices: 47475948--47476003 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
47475938 TTTTTGTTAA
*
47475948 ATTATATTTAATAAT
1 ATTATATTTTATAAT
*
47475963 AAT-TA-TTT-TAA-
1 ATTATATTTTATAAT
47475974 ATTATATTTTATAAT
1 ATTATATTTTATAAT
*
47475989 ATTATATATTATAAT
1 ATTATATTTTATAAT
47476004 TTTAGTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
11 2 0.06
12 5 0.15
13 5 0.15
14 5 0.15
15 16 0.48
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTATATTTTATAAT
Found at i:47476021 original size:41 final size:40
Alignment explanation
Indices: 47475856--47476039 Score: 109
Period size: 41 Copynumber: 4.6 Consensus size: 40
47475846 TATTTTAAAT
* *
47475856 TATATTTTATAGTATTATATATTATGATTTTAGTAAATTCA
1 TATATTTTATAATATTATATATTATAATTTTAGTAAATT-A
* * * *
47475897 TATA----AGAATATT-TAATACTAAGAATTTTATTAAATTA
1 TATATTTTATAATATTAT-ATA-TTATAATTTTAGTAAATTA
* **
47475934 TATATTTTTGTTAA-ATTATAT-TTAATAATAATTATTTTAAA-T-
1 TATA-TTTT-ATAATATTATATATT-ATAAT--TT-TAGTAAATTA
47475976 TATATTTTATAATATTATATATTATAATTTTAGTAAATTCA
1 TATATTTTATAATATTATATATTATAATTTTAGTAAATT-A
*
47476017 TATATTCTATTAA-ATTATATATT
1 TATATTTTA-TAATATTATATATT
47476040 TTTATTAAAT
Statistics
Matches: 109, Mismatches: 15, Indels: 38
0.67 0.09 0.23
Matches are distributed among these distances:
36 1 0.01
37 14 0.13
38 19 0.17
39 3 0.03
40 4 0.04
41 42 0.39
42 14 0.13
43 6 0.06
44 6 0.06
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (40 bp):
TATATTTTATAATATTATATATTATAATTTTAGTAAATTA
Found at i:47476245 original size:21 final size:21
Alignment explanation
Indices: 47476220--47476272 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
47476210 CGTTGTTTCT
* *
47476220 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAATAACC
*
47476241 AATCTCACCGCTACAATAACT
1 AATCTCACCGCTACAATAACC
47476262 AATCTCACCGC
1 AATCTCACCGC
47476273 CACCGCTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.32, C:0.38, G:0.08, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAATAACC
Found at i:47476776 original size:27 final size:26
Alignment explanation
Indices: 47476746--47476826 Score: 67
Period size: 27 Copynumber: 3.0 Consensus size: 26
47476736 GACTTTATCT
*
47476746 TATTTTATTTTTCAATTATTTAAAATG
1 TATTTTATTTTT-AATTATTTAAAATA
* *
47476773 TA-TTTATCTTTTATAATATATAATAA-A
1 TATTTTAT-TTTTA-ATTATTTAA-AATA
47476800 TATATTTATTTTTTAATTATTTAAAAT
1 TAT-TTTA-TTTTTAATTATTTAAAAT
47476827 TTGCATCGAT
Statistics
Matches: 42, Mismatches: 5, Indels: 13
0.70 0.08 0.22
Matches are distributed among these distances:
26 6 0.14
27 17 0.40
28 9 0.21
29 9 0.21
30 1 0.02
ACGTcount: A:0.38, C:0.02, G:0.01, T:0.58
Consensus pattern (26 bp):
TATTTTATTTTTAATTATTTAAAATA
Found at i:47481487 original size:26 final size:26
Alignment explanation
Indices: 47481456--47481513 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
47481446 CAACAACAGT
47481456 GATCAAAATAGTAGCACCTCTACAAC
1 GATCAAAATAGTAGCACCTCTACAAC
*
47481482 GATCAAAGTAGTAGCACCTCTACAAC
1 GATCAAAATAGTAGCACCTCTACAAC
47481508 GATCAA
1 GATCAA
47481514 TGAACAAACG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.41, C:0.26, G:0.14, T:0.19
Consensus pattern (26 bp):
GATCAAAATAGTAGCACCTCTACAAC
Found at i:47482435 original size:21 final size:20
Alignment explanation
Indices: 47482389--47482438 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
47482379 ACCTCTATTC
*
47482389 ATGTTTGCTTGTTTAGTTTT
1 ATGTTTGTTTGTTTAGTTTT
*
47482409 AAGTTTGTTTGTGTTCAG-TTT
1 ATGTTTGTTTGT-TT-AGTTTT
47482430 ATGTTTGTT
1 ATGTTTGTT
47482439 AAGAATTTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 10 0.40
21 13 0.52
22 2 0.08
ACGTcount: A:0.12, C:0.04, G:0.22, T:0.62
Consensus pattern (20 bp):
ATGTTTGTTTGTTTAGTTTT
Found at i:47482525 original size:12 final size:12
Alignment explanation
Indices: 47482508--47482532 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47482498 TTGTTTAATG
47482508 TTCATGAACATA
1 TTCATGAACATA
47482520 TTCATGAACATA
1 TTCATGAACATA
47482532 T
1 T
47482533 AATTGAACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (12 bp):
TTCATGAACATA
Found at i:47482945 original size:11 final size:11
Alignment explanation
Indices: 47482931--47482970 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
47482921 CGAACATTAT
*
47482931 ACGAACTGTTC
1 ACGAACAGTTC
*
47482942 ACGAACGGTTC
1 ACGAACAGTTC
47482953 ACGAACAGTTC
1 ACGAACAGTTC
47482964 ATCGAAC
1 A-CGAAC
47482971 GTTTTGTTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
11 21 0.81
12 5 0.19
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.20
Consensus pattern (11 bp):
ACGAACAGTTC
Found at i:47483716 original size:18 final size:18
Alignment explanation
Indices: 47483689--47483725 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
47483679 GCTATCAGTT
*
47483689 TCGATTTAACCAATTTGA
1 TCGATCTAACCAATTTGA
*
47483707 TCGATCTAACCAGTTTGA
1 TCGATCTAACCAATTTGA
47483725 T
1 T
47483726 TGAATAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.38
Consensus pattern (18 bp):
TCGATCTAACCAATTTGA
Found at i:47486458 original size:21 final size:22
Alignment explanation
Indices: 47486417--47486459 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
47486407 TTTATTTTTA
47486417 AAAATATTTAAATTATTAATAT
1 AAAATATTTAAATTATTAATAT
* *
47486439 AAAATA-TTATATTTTTAATAT
1 AAAATATTTAAATTATTAATAT
47486460 TATTAAACAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
AAAATATTTAAATTATTAATAT
Found at i:47487950 original size:13 final size:13
Alignment explanation
Indices: 47487913--47487953 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
47487903 TTTTGCTTTA
47487913 CTGCTTTGCTCTG
1 CTGCTTTGCTCTG
47487926 CT--TTGTGCCTCTG
1 CTGCTT-TG-CTCTG
47487939 CTGCTTTGCTCTG
1 CTGCTTTGCTCTG
47487952 CT
1 CT
47487954 TTGCTTTAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
11 2 0.08
12 2 0.08
13 16 0.67
14 2 0.08
15 2 0.08
ACGTcount: A:0.00, C:0.32, G:0.22, T:0.46
Consensus pattern (13 bp):
CTGCTTTGCTCTG
Found at i:47490911 original size:18 final size:18
Alignment explanation
Indices: 47490888--47490953 Score: 123
Period size: 18 Copynumber: 3.7 Consensus size: 18
47490878 AAAATATGAG
*
47490888 AAATGATGTTCACATTTT
1 AAATGATGTTCACATTTC
47490906 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
47490924 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
47490942 AAATGATGTTCA
1 AAATGATGTTCA
47490954 AATTGATGGA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
18 47 1.00
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:47491441 original size:72 final size:71
Alignment explanation
Indices: 47491349--47491545 Score: 245
Period size: 72 Copynumber: 2.8 Consensus size: 71
47491339 AACAACAATG
* * * * *
47491349 CTAAACTAATTTTATCAATAGTTATTTATGTTTGATTTTTGGATATTGAATTTATGTTCTCCTTA
1 CTAAATTAGTTTTATTAATAGTTGTTTATGTTTGATTTTTGGATATTGAATTTATGTTCTACTTA
47491414 TTTAT-
66 TTTATA
* * * *
47491419 GTGTAATCTAGTTTTATTAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTCTACT
1 CT-AAAT-TAGTTTTATTAATAGTTGTTTATGTTTGATTTTTGGATATTGAATTTATGTTCTACT
47491484 TATTTATA
64 TATTTATA
* * **
47491492 CTAAATTAGTTTTATTAATAGTTGTTTATATATGA-TTTTGGATATAAAATTTAT
1 CTAAATTAGTTTTATTAATAGTTGTTTATGTTTGATTTTTGGATATTGAATTTAT
47491546 TCACAGGTGA
Statistics
Matches: 107, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
70 17 0.16
71 28 0.26
72 61 0.57
73 1 0.01
ACGTcount: A:0.28, C:0.06, G:0.13, T:0.54
Consensus pattern (71 bp):
CTAAATTAGTTTTATTAATAGTTGTTTATGTTTGATTTTTGGATATTGAATTTATGTTCTACTTA
TTTATA
Found at i:47493321 original size:19 final size:19
Alignment explanation
Indices: 47493293--47493336 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
47493283 TAATTTTTAT
47493293 ATTTAAATATT-TAAATATA
1 ATTTAAATATTCTAAATA-A
* *
47493312 ATTTATATATTCTAATTAA
1 ATTTAAATATTCTAAATAA
47493331 ATTTAA
1 ATTTAA
47493337 TAATTAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (19 bp):
ATTTAAATATTCTAAATAA
Found at i:47493599 original size:23 final size:24
Alignment explanation
Indices: 47493562--47493623 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 24
47493552 AACACTCAAA
47493562 TTTTTCAAAAGCACTTCTCAAAAC
1 TTTTTCAAAAGCACTTCTCAAAAC
* *
47493586 TTTTTCACAA-CACTTTTCAAAAAC
1 TTTTTCAAAAGCACTTCTC-AAAAC
*
47493610 ACTTTTCAAAAGCA
1 -TTTTTCAAAAGCA
47493624 ACGAAGAACT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
23 7 0.23
24 14 0.45
25 8 0.26
26 2 0.06
ACGTcount: A:0.39, C:0.24, G:0.03, T:0.34
Consensus pattern (24 bp):
TTTTTCAAAAGCACTTCTCAAAAC
Found at i:47493604 original size:12 final size:12
Alignment explanation
Indices: 47493563--47493620 Score: 64
Period size: 13 Copynumber: 4.8 Consensus size: 12
47493553 ACACTCAAAT
47493563 TTTTCAAAAGCAC
1 TTTTCAAAA-CAC
* *
47493576 TTCTCAAAAC-T
1 TTTTCAAAACAC
*
47493587 TTTTCACAACAC
1 TTTTCAAAACAC
47493599 TTTTCAAAAACAC
1 TTTTC-AAAACAC
47493612 TTTTCAAAA
1 TTTTCAAAA
47493621 GCAACGAAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
11 8 0.22
12 10 0.27
13 19 0.51
ACGTcount: A:0.40, C:0.24, G:0.02, T:0.34
Consensus pattern (12 bp):
TTTTCAAAACAC
Found at i:47502857 original size:21 final size:21
Alignment explanation
Indices: 47502833--47502873 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
47502823 AAACACTCGT
*
47502833 TTTCCTTTTTCAATTGAACCA
1 TTTCCTTTTCCAATTGAACCA
*
47502854 TTTCCTTTTCCATTTGAACC
1 TTTCCTTTTCCAATTGAACC
47502874 CTAATGTCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.27, G:0.05, T:0.49
Consensus pattern (21 bp):
TTTCCTTTTCCAATTGAACCA
Found at i:47511796 original size:41 final size:42
Alignment explanation
Indices: 47511751--47511834 Score: 143
Period size: 44 Copynumber: 2.0 Consensus size: 42
47511741 AACTGTCAGC
47511751 TAATTAACAACT-AACAAATTAACTGACTTAATCAGTTACTT
1 TAATTAACAACTAAACAAATTAACTGACTTAATCAGTTACTT
47511792 TAATTAACAACTAACAACAAATTAACTGACTTAATCAGTTACT
1 TAATTAACAACT-A-AACAAATTAACTGACTTAATCAGTTACT
47511835 CTAACATTCC
Statistics
Matches: 40, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
41 12 0.30
44 28 0.70
ACGTcount: A:0.45, C:0.18, G:0.05, T:0.32
Consensus pattern (42 bp):
TAATTAACAACTAAACAAATTAACTGACTTAATCAGTTACTT
Found at i:47517221 original size:31 final size:29
Alignment explanation
Indices: 47517151--47517221 Score: 74
Period size: 31 Copynumber: 2.4 Consensus size: 29
47517141 ATTAATATAT
47517151 AGTA-AAATT-ATCTTTTAAAAATATAAA
1 AGTATAAATTAATCTTTTAAAAATATAAA
* * *
47517178 AGTATGATTTAATCTTTTTAAAAGTTATAAA
1 AGTATAAATTAATC-TTTTAAAA-ATATAAA
*
47517209 GGTATAAATTAAT
1 AGTATAAATTAAT
47517222 ACAATAGAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
27 4 0.12
28 3 0.09
29 3 0.09
30 8 0.24
31 16 0.47
ACGTcount: A:0.48, C:0.03, G:0.08, T:0.41
Consensus pattern (29 bp):
AGTATAAATTAATCTTTTAAAAATATAAA
Found at i:47523718 original size:15 final size:16
Alignment explanation
Indices: 47523693--47523722 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
47523683 TTATCTTCAT
47523693 TTCATCCACTAACATC
1 TTCATCCACTAACATC
47523709 TTCA-CCACTAACAT
1 TTCATCCACTAACAT
47523723 AATTTTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (16 bp):
TTCATCCACTAACATC
Found at i:47524244 original size:31 final size:31
Alignment explanation
Indices: 47524201--47524266 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
47524191 ATGACTTTCA
* * *
47524201 ACTTCCTGCTTCTTTCTTCACTATTAGTTTG
1 ACTTACTGCTTCTTTCTTCACTATCAGTTCG
*
47524232 ACTTACTGCTTCTTTCTTCATTATCAGTTCG
1 ACTTACTGCTTCTTTCTTCACTATCAGTTCG
47524263 ACTT
1 ACTT
47524267 TCTGATACAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.15, C:0.26, G:0.09, T:0.50
Consensus pattern (31 bp):
ACTTACTGCTTCTTTCTTCACTATCAGTTCG
Found at i:47524695 original size:16 final size:16
Alignment explanation
Indices: 47524653--47524695 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
47524643 TAATTTATTA
*
47524653 AATAAAA-ATAATTTT
1 AATAAAATATTATTTT
47524668 AATTAAAATATTATTTT
1 AA-TAAAATATTATTTT
47524685 AATAAAATATT
1 AATAAAATATT
47524696 TAAATTTCAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 2 0.08
16 14 0.56
17 9 0.36
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AATAAAATATTATTTT
Found at i:47525324 original size:24 final size:24
Alignment explanation
Indices: 47525292--47525343 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
47525282 AAGTTTTCTT
* *
47525292 TAAACATTATATATTTTGTGTAAA
1 TAAAAATTATATATTTTGTATAAA
* *
47525316 TAAAAATTATTTTTTTTGTATAAA
1 TAAAAATTATATATTTTGTATAAA
47525340 TAAA
1 TAAA
47525344 GATTTTTAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (24 bp):
TAAAAATTATATATTTTGTATAAA
Found at i:47528438 original size:50 final size:50
Alignment explanation
Indices: 47528263--47528625 Score: 202
Period size: 50 Copynumber: 7.2 Consensus size: 50
47528253 TGGGAAAACC
* * * *
47528263 AGATCCGCCGTCGTAGCTTCAATCTGTTCCTACTACACCGCCAAGGAAGTA
1 AGATCCGCCGTTGTAGCTTCAATCTGTTCC-ACTACATCGCCAGGGAAATA
* * ** * * * *
47528314 AGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCAAT-GTCGGGGAAA-A
1 AGATCCGCCGTTGTAGCTTCAATCTGTTCCACTAC-ATCGCCAGGGAAATA
* *
47528363 CTAGATCCGTCGTCGTAGCTTCAATCTGTTCCACTACATCGCCAGGGAAATA
1 --AGATCCGCCGTTGTAGCTTCAATCTGTTCCACTACATCGCCAGGGAAATA
* * ** * * * * **
47528415 AGATCCGCCGTTGTGGCTTCAATCTTTTAAATTGCAAT-GTCGGGGAAACC
1 AGATCCGCCGTTGTAGCTTCAATCTGTTCCACTAC-ATCGCCAGGGAAATA
* * * * *
47528465 AGAT-CACCGTCGTAGATTCAATCTGTTCCACTATA-CAGCCAGGGAAGTA
1 AGATCCGCCGTTGTAGCTTCAATCTGTTCCACTACATC-GCCAGGGAAATA
* * * ** * * *** **
47528514 AGATCCGCCGTTGTGGCTTCAATATTTTAAATTGCAAT-GTTGGGGAAACC
1 AGATCCGCCGTTGTAGCTTCAATCTGTTCCACTAC-ATCGCCAGGGAAATA
*
47528564 AGATCCGCC-TTCGTAGCTTCAATCTGTTCCACTACACCGCCA-GGAAAGTA
1 AGATCCGCCGTT-GTAGCTTCAATCTGTTCCACTACATCGCCAGGGAAA-TA
*
47528614 AGATCCACCGTT
1 AGATCCGCCGTT
47528626 TTCAACCTAC
Statistics
Matches: 217, Mismatches: 80, Indels: 30
0.66 0.24 0.09
Matches are distributed among these distances:
48 1 0.00
49 40 0.18
50 109 0.50
51 66 0.30
52 1 0.00
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (50 bp):
AGATCCGCCGTTGTAGCTTCAATCTGTTCCACTACATCGCCAGGGAAATA
Found at i:47528526 original size:99 final size:100
Alignment explanation
Indices: 47528147--47528625 Score: 622
Period size: 101 Copynumber: 4.8 Consensus size: 100
47528137 GTTTAACTAT
* * * * *
47528147 AATGTCGAGGAAACAAGATCCGCCGTCGTGGCTTCAATCTGTTCCTACTACACCA-CCAAGAAAG
1 AATGTCGGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCC-ACTACA-CAGCCAGGGAAG
* * * ** * * *
47528211 TAAGATTCGTCATTGTAACCTCAATCTTTTTAATTAC
64 TAAGATCCGCCGTTGTGGCTTCAATCTTTTAAATTGC
* * * *
47528248 AATGTTGGGAAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCTACTACACCGCCAAGGAAGT
1 AATGTCGGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCC-ACTACACAGCCAGGGAAGT
*
47528313 AAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGC
65 AAGATCCGCCGTTGTGGCTTCAATCTTTTAAATTGC
* * *
47528349 AATGTCGGGGAAAACTAGATCCGTCGTCGTAGCTTCAATCTGTTCCACTACATC-GCCAGGGAAA
1 AATGTCGGGG-AAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTACA-CAGCCAGGGAAG
47528413 TAAGATCCGCCGTTGTGGCTTCAATCTTTTAAATTGC
64 TAAGATCCGCCGTTGTGGCTTCAATCTTTTAAATTGC
* * *
47528450 AATGTCGGGGAAACCAGAT-CACCGTCGTAGATTCAATCTGTTCCACTATACAGCCAGGGAAGTA
1 AATGTCGGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTACACAGCCAGGGAAGTA
*
47528514 AGATCCGCCGTTGTGGCTTCAATATTTTAAATTGC
66 AGATCCGCCGTTGTGGCTTCAATCTTTTAAATTGC
* * * *
47528549 AATGTTGGGGAAACCAGATCCGCCTTCGTAGCTTCAATCTGTTCCACTACACCGCCAGGAAAGTA
1 AATGTCGGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTACACAGCCAGGGAAGTA
*
47528614 AGATCCACCGTT
66 AGATCCGCCGTT
47528626 TTCAACCTAC
Statistics
Matches: 337, Mismatches: 36, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
98 1 0.00
99 90 0.27
100 59 0.18
101 153 0.45
102 34 0.10
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (100 bp):
AATGTCGGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTACACAGCCAGGGAAGTA
AGATCCGCCGTTGTGGCTTCAATCTTTTAAATTGC
Found at i:47528755 original size:88 final size:88
Alignment explanation
Indices: 47528625--47528842 Score: 382
Period size: 88 Copynumber: 2.5 Consensus size: 88
47528615 GATCCACCGT
* * *
47528625 TTTCAACCTACTCCACTACTGCCCAGGGAGACAAGGCTGGTATCTTTGATCTACTTCGCTGTCAG
1 TTTCAACCTACTCCACTACTGCCCAGGGAGACAAGGCTGGTATATTCGATCTACTTCGCCGTCAG
47528690 TACAGGAAGGCAAGATCTGTCAA
66 TACAGGAAGGCAAGATCTGTCAA
* *
47528713 TTTCAACCTACTCCACTACTGCCCAGGGAGACAAGGCCGGTATATTCGATCTGCTTCGCCGTCAG
1 TTTCAACCTACTCCACTACTGCCCAGGGAGACAAGGCTGGTATATTCGATCTACTTCGCCGTCAG
*
47528778 TACAGGAAGGCAAGATCTGTCAT
66 TACAGGAAGGCAAGATCTGTCAA
47528801 TTTCAACCTACTCCACTACTGCCCAGGGAGACAAGGCTGGTA
1 TTTCAACCTACTCCACTACTGCCCAGGGAGACAAGGCTGGTA
47528843 GTCATTACTC
Statistics
Matches: 123, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
88 123 1.00
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (88 bp):
TTTCAACCTACTCCACTACTGCCCAGGGAGACAAGGCTGGTATATTCGATCTACTTCGCCGTCAG
TACAGGAAGGCAAGATCTGTCAA
Found at i:47529892 original size:15 final size:15
Alignment explanation
Indices: 47529874--47529924 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
47529864 TTAGGCTCTC
*
47529874 CATTTTTAC-TTTTT
1 CATTTTTCCATTTTT
47529888 CCATTTTT-CATTTTT
1 -CATTTTTCCATTTTT
47529903 CATTTTTCCATTTTT
1 CATTTTTCCATTTTT
47529918 -ATTTTTC
1 CATTTTTC
47529925 ACATATTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
14 15 0.44
15 19 0.56
ACGTcount: A:0.14, C:0.18, G:0.00, T:0.69
Consensus pattern (15 bp):
CATTTTTCCATTTTT
Found at i:47529899 original size:22 final size:22
Alignment explanation
Indices: 47529874--47529925 Score: 81
Period size: 22 Copynumber: 2.4 Consensus size: 22
47529864 TTAGGCTCTC
47529874 CATTTTT-ACTTTTTCCATTTTT
1 CATTTTTCA-TTTTTCCATTTTT
47529896 CATTTTTCATTTTTCCATTTTT
1 CATTTTTCATTTTTCCATTTTT
47529918 -ATTTTTCA
1 CATTTTTCA
47529926 CATATTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
21 8 0.28
22 20 0.69
23 1 0.03
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.67
Consensus pattern (22 bp):
CATTTTTCATTTTTCCATTTTT
Found at i:47529941 original size:7 final size:7
Alignment explanation
Indices: 47529874--47529925 Score: 63
Period size: 7 Copynumber: 7.3 Consensus size: 7
47529864 TTAGGCTCTC
47529874 CATTTTT
1 CATTTTT
47529881 -ACTTTTT
1 CA-TTTTT
47529888 CCATTTTT
1 -CATTTTT
47529896 CATTTTT
1 CATTTTT
47529903 CATTTTT
1 CATTTTT
47529910 CCATTTTT
1 -CATTTTT
47529918 -ATTTTT
1 CATTTTT
47529924 CA
1 CA
47529926 CATATTTTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
6 7 0.17
7 20 0.50
8 12 0.30
9 1 0.03
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.67
Consensus pattern (7 bp):
CATTTTT
Found at i:47530463 original size:11 final size:11
Alignment explanation
Indices: 47530426--47530476 Score: 52
Period size: 10 Copynumber: 4.7 Consensus size: 11
47530416 AGTAGAGGTT
*
47530426 TTTTTG-TTTC
1 TTTTTGTTTTA
47530436 TTTTTGTTTTTA
1 TTTTTG-TTTTA
47530448 TTTTTGTTTTA
1 TTTTTGTTTTA
* *
47530459 TTTTTCTTGT-
1 TTTTTGTTTTA
47530469 TTTTTGTT
1 TTTTTGTT
47530477 CTTTTTTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
10 13 0.37
11 13 0.37
12 9 0.26
ACGTcount: A:0.04, C:0.04, G:0.10, T:0.82
Consensus pattern (11 bp):
TTTTTGTTTTA
Found at i:47530482 original size:11 final size:10
Alignment explanation
Indices: 47530424--47530484 Score: 59
Period size: 11 Copynumber: 5.7 Consensus size: 10
47530414 CCAGTAGAGG
47530424 TTTTTTTGTT
1 TTTTTTTGTT
*
47530434 TCTTTTTGTTT
1 TTTTTTTG-TT
47530445 TTATTTTTGTT
1 TT-TTTTTGTT
*
47530456 TTATTTTTCTT
1 TT-TTTTTGTT
*
47530467 GTTTTTTGTT
1 TTTTTTTGTT
47530477 CTTTTTTT
1 -TTTTTTT
47530485 TTGGATTGAA
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
10 14 0.33
11 22 0.52
12 6 0.14
ACGTcount: A:0.03, C:0.05, G:0.08, T:0.84
Consensus pattern (10 bp):
TTTTTTTGTT
Found at i:47533761 original size:8 final size:8
Alignment explanation
Indices: 47533748--47533775 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
47533738 AAACTATGAA
47533748 AATAAAAT
1 AATAAAAT
47533756 AATAAAAT
1 AATAAAAT
47533764 AATAAAAT
1 AATAAAAT
47533772 AATA
1 AATA
47533776 TGTATATGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (8 bp):
AATAAAAT
Found at i:47533861 original size:3 final size:3
Alignment explanation
Indices: 47533853--47533884 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
47533843 GTCTATAGGT
47533853 ATA ATA ATA ATA ATA ATA ATA ATA ATTA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA A
47533885 AATGACAGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:47535846 original size:99 final size:100
Alignment explanation
Indices: 47535468--47535946 Score: 579
Period size: 101 Copynumber: 4.8 Consensus size: 100
47535458 ATTTAACTAT
* * * * * *
47535468 AATGTCGGGGAAACAAGATCTGCCGTCGT-GCCTTTAATCTGTTCTTACTACACCA-CCAAGAAA
1 AATGTCGGGGAAACCAGATCCGCCGTCGTAG-CTTCAATCTGTTC-CACTACA-CAGCCAGGGAA
* ** * * *
47535531 GTAAGATTCGCCGTTGTAACCTCAATCTTTTTAACTGC
63 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTAAATTGC
* * * * ** *
47535569 AATGTTGGGAAAACCAGATCCGCCGTCATAGCTTCAATCTGTTCCTACTACACTGCCAATGAAAT
1 AATGTCGGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCC-ACTACACAGCCAGGGAAGT
** *
47535634 AAGATCTACCGTTGTGGCTTCAATCTTTTTAATTGC
65 AAGATCCGCCGTTGTGGCTTCAATCTTTTAAATTGC
* * *
47535670 AATGTCAGGGAAAATCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTACATC-GCCAGGGAAA
1 AATGTC-GGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTACA-CAGCCAGGGAAG
* *
47535734 TAAGATCCACCGTTGTGGCTTCAATCTTTTAAATTAC
64 TAAGATCCGCCGTTGTGGCTTCAATCTTTTAAATTGC
* *
47535771 AATGTCGGGGAAACCAGAT-CGCCGTTGTAGCTTCAATCTGTTCCACTATACAGCCAGGGAAGTA
1 AATGTCGGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTACACAGCCAGGGAAGTA
47535835 AGATCCGCCGTTGTGGCTTCAATCTTTTAAATTGC
66 AGATCCGCCGTTGTGGCTTCAATCTTTTAAATTGC
* * *
47535870 AATGTTGGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGCTAGGGAAGTA
1 AATGTCGGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTACACAGCCAGGGAAGTA
*
47535935 AGATCCGTCGTT
66 AGATCCGCCGTT
47535947 TTCAACCTAC
Statistics
Matches: 332, Mismatches: 39, Indels: 15
0.86 0.10 0.04
Matches are distributed among these distances:
98 1 0.00
99 91 0.27
100 64 0.19
101 137 0.41
102 39 0.12
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (100 bp):
AATGTCGGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTACACAGCCAGGGAAGTA
AGATCCGCCGTTGTGGCTTCAATCTTTTAAATTGC
Found at i:47535931 original size:50 final size:50
Alignment explanation
Indices: 47535534--47535946 Score: 235
Period size: 50 Copynumber: 8.2 Consensus size: 50
47535524 CAAGAAAGTA
* * * * ** * * *
47535534 AGATTCGCCGTTGTAACCTCAATCTTTTTAACTGCAATG-TTGGGAAAACC
1 AGATCCGCCGTTGTAGCTTCAATCTGTTCCACTACAATGCTAGGG-AAATC
** * * ** *
47535584 AGATCCGCCGTCATAGCTTCAATCTGTTCCTACTACACTGCCAATGAAATA
1 AGATCCGCCGTTGTAGCTTCAATCTGTTCC-ACTACAATGCTAGGGAAATC
** * * ** * *
47535635 AGATCTACCGTTGTGGCTTCAATCTTTTTAATTGCAATG-TCAGGGAAAATC
1 AGATCCGCCGTTGTAGCTTCAATCTGTTCCACTACAATGCT-AGGG-AAATC
* * *
47535686 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTAC-ATCGCCAGGGAAATA
1 AGATCCGCCGTTGTAGCTTCAATCTGTTCCACTACAAT-GCTAGGGAAATC
* * * ** * * *
47535736 AGATCCACCGTTGTGGCTTCAATCTTTTAAATTACAATG-TCGGGGAAACC
1 AGATCCGCCGTTGTAGCTTCAATCTGTTCCACTACAATGCT-AGGGAAATC
* * * *
47535786 AGAT-CGCCGTTGTAGCTTCAATCTGTTCCACTATACA-GCCAGGGAAGTA
1 AGATCCGCCGTTGTAGCTTCAATCTGTTCCACTACA-ATGCTAGGGAAATC
* * ** * * * * *
47535835 AGATCCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTTGGGGAAACC
1 AGATCCGCCGTTGTAGCTTCAATCTGTTCCACTACAATGCTAGGGAAATC
* ** * *
47535885 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGCTAGGGAAGTA
1 AGATCCGCCGTTGTAGCTTCAATCTGTTCCACTACAATGCTAGGGAAATC
*
47535935 AGATCCGTCGTT
1 AGATCCGCCGTT
47535947 TTCAACCTAC
Statistics
Matches: 257, Mismatches: 94, Indels: 24
0.69 0.25 0.06
Matches are distributed among these distances:
49 35 0.14
50 152 0.59
51 69 0.27
52 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.29
Consensus pattern (50 bp):
AGATCCGCCGTTGTAGCTTCAATCTGTTCCACTACAATGCTAGGGAAATC
Found at i:47536055 original size:88 final size:88
Alignment explanation
Indices: 47535945--47536468 Score: 859
Period size: 88 Copynumber: 6.0 Consensus size: 88
47535935 AGATCCGTCG
* * * * *
47535945 TTTTCAACCTACTCCACTACTGCCTAGGGAGACAAGGCTGGTATCTTTGATCTGCTTCGCTGCCA
1 TTTTCAACCTACTCCACTACTGCCCAGGGAGACAAGGCTGGTATATTCGATCTGCTTCACTGTCA
*
47536010 GTACAGGAAGGCAAGATCTGTCA
66 GTACAGGAAGGCAAGATCTGCCA
* *
47536033 TTTTCAACCTACTCCACTACTGCCCAGGGATACAAGGCTGGTATATTCGATCTGCTTCACCGTCA
1 TTTTCAACCTACTCCACTACTGCCCAGGGAGACAAGGCTGGTATATTCGATCTGCTTCACTGTCA
*
47536098 GTACAGGAAGGCAAGATCTGTCA
66 GTACAGGAAGGCAAGATCTGCCA
*
47536121 TTTTCAACCTACTCCACTACTGCCGAGGGAGACAAGGCTGGTATATTCGATCTGCTTCACTGTCA
1 TTTTCAACCTACTCCACTACTGCCCAGGGAGACAAGGCTGGTATATTCGATCTGCTTCACTGTCA
47536186 GTACAGGAAGGCAAGATCTGCCA
66 GTACAGGAAGGCAAGATCTGCCA
* * *
47536209 TTTTCAACCTACTCCACTATTGCCCAGGGAGACAAGGCTGGTATATTCGATCTGCTTCGCCGTCA
1 TTTTCAACCTACTCCACTACTGCCCAGGGAGACAAGGCTGGTATATTCGATCTGCTTCACTGTCA
47536274 GTACAGGAAGGCAAGATCTGCCA
66 GTACAGGAAGGCAAGATCTGCCA
* *
47536297 TTTTCAACCTACTCCACTACTGCCCAAGGAGACAAGGCTGGTATCTTCGATCTGCTTCACTGTCA
1 TTTTCAACCTACTCCACTACTGCCCAGGGAGACAAGGCTGGTATATTCGATCTGCTTCACTGTCA
*
47536362 GTACAGGAAGGCAAAATCTGCCA
66 GTACAGGAAGGCAAGATCTGCCA
* * * *
47536385 TTTTCAACCTACTCCACTACTGCCCAGGGAGACAAGACTAGTATCTTCGATCTGCTTCACTGTTA
1 TTTTCAACCTACTCCACTACTGCCCAGGGAGACAAGGCTGGTATATTCGATCTGCTTCACTGTCA
*
47536450 GTACAAGAAGGCAAGATCT
66 GTACAGGAAGGCAAGATCT
47536469 ACTATCTTCA
Statistics
Matches: 409, Mismatches: 27, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 409 1.00
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (88 bp):
TTTTCAACCTACTCCACTACTGCCCAGGGAGACAAGGCTGGTATATTCGATCTGCTTCACTGTCA
GTACAGGAAGGCAAGATCTGCCA
Found at i:47537215 original size:15 final size:15
Alignment explanation
Indices: 47537195--47537247 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
47537185 TTATGTTTTA
*
47537195 TATATATTATTTTAT
1 TATATATTATTATAT
* *
47537210 TATATAATATAATAT
1 TATATATTATTATAT
*
47537225 TTTATATTGTATTATAT
1 TATATA-T-TATTATAT
47537242 TATATA
1 TATATA
47537248 AATTAAACAG
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
15 17 0.59
17 12 0.41
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (15 bp):
TATATATTATTATAT
Found at i:47537241 original size:17 final size:17
Alignment explanation
Indices: 47537185--47537247 Score: 56
Period size: 17 Copynumber: 3.7 Consensus size: 17
47537175 TCTTCGATTT
*
47537185 TTATGTTTTATA-TATA
1 TTATATTTTATATTATA
* *
47537201 TTATTTTATTATATAATA
1 TTATATT-TTATATTATA
* *
47537219 TAATATTTTATATTGTA
1 TTATATTTTATATTATA
*
47537236 TTATATTATATA
1 TTATATTTTATA
47537248 AATTAAACAG
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
16 6 0.16
17 23 0.62
18 8 0.22
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (17 bp):
TTATATTTTATATTATA
Found at i:47540371 original size:15 final size:15
Alignment explanation
Indices: 47540353--47540403 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
47540343 TTAGGCTCTC
*
47540353 CATTTTTAC-TTTTT
1 CATTTTTCCATTTTT
47540367 CCATTTTT-CATTTTT
1 -CATTTTTCCATTTTT
47540382 CATTTTTCCATTTTT
1 CATTTTTCCATTTTT
47540397 -ATTTTTC
1 CATTTTTC
47540404 ACATCTTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
14 15 0.44
15 19 0.56
ACGTcount: A:0.14, C:0.18, G:0.00, T:0.69
Consensus pattern (15 bp):
CATTTTTCCATTTTT
Found at i:47540378 original size:22 final size:22
Alignment explanation
Indices: 47540353--47540404 Score: 81
Period size: 22 Copynumber: 2.4 Consensus size: 22
47540343 TTAGGCTCTC
47540353 CATTTTT-ACTTTTTCCATTTTT
1 CATTTTTCA-TTTTTCCATTTTT
47540375 CATTTTTCATTTTTCCATTTTT
1 CATTTTTCATTTTTCCATTTTT
47540397 -ATTTTTCA
1 CATTTTTCA
47540405 CATCTTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
21 8 0.28
22 20 0.69
23 1 0.03
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.67
Consensus pattern (22 bp):
CATTTTTCATTTTTCCATTTTT
Found at i:47540402 original size:7 final size:7
Alignment explanation
Indices: 47540353--47540404 Score: 63
Period size: 7 Copynumber: 7.3 Consensus size: 7
47540343 TTAGGCTCTC
47540353 CATTTTT
1 CATTTTT
47540360 -ACTTTTT
1 CA-TTTTT
47540367 CCATTTTT
1 -CATTTTT
47540375 CATTTTT
1 CATTTTT
47540382 CATTTTT
1 CATTTTT
47540389 CCATTTTT
1 -CATTTTT
47540397 -ATTTTT
1 CATTTTT
47540403 CA
1 CA
47540405 CATCTTTTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
6 7 0.17
7 20 0.50
8 12 0.30
9 1 0.03
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.67
Consensus pattern (7 bp):
CATTTTT
Found at i:47543801 original size:11 final size:13
Alignment explanation
Indices: 47543775--47543803 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
47543765 TGACAAAATC
47543775 AAAATGTGTTTAA
1 AAAATGTGTTTAA
47543788 AAAATGTG-TTAA
1 AAAATGTGTTTAA
47543800 AAAA
1 AAAA
47543804 ACAATGCAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.55, C:0.00, G:0.14, T:0.31
Consensus pattern (13 bp):
AAAATGTGTTTAA
Found at i:47543804 original size:13 final size:13
Alignment explanation
Indices: 47543775--47543804 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
47543765 TGACAAAATC
*
47543775 AAAATGTGTTTAA
1 AAAATGTGTTAAA
47543788 AAAATGTGTTAAA
1 AAAATGTGTTAAA
47543801 AAAA
1 AAAA
47543805 CAATGCAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.13, T:0.30
Consensus pattern (13 bp):
AAAATGTGTTAAA
Found at i:47554086 original size:33 final size:33
Alignment explanation
Indices: 47554018--47554087 Score: 79
Period size: 33 Copynumber: 2.1 Consensus size: 33
47554008 ATCTATTCTA
* * *
47554018 AAAAGAAAAGAGAAAATCTAAGCTAAAAAGGTG
1 AAAAGAAAAGAGAAAACCTAACCTAAAAAGATG
**
47554051 AAAAGAAAAGA-AAAACCCTAACCTAAAACTATG
1 AAAAGAAAAGAGAAAA-CCTAACCTAAAAAGATG
47554084 AAAA
1 AAAA
47554088 CCTAATAAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
32 4 0.13
33 27 0.87
ACGTcount: A:0.63, C:0.11, G:0.14, T:0.11
Consensus pattern (33 bp):
AAAAGAAAAGAGAAAACCTAACCTAAAAAGATG
Found at i:47558866 original size:14 final size:14
Alignment explanation
Indices: 47558847--47558877 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
47558837 TCACATCCCG
*
47558847 AAAATTGGGTTAGT
1 AAAATTGGGTCAGT
47558861 AAAATTGGGTCAGT
1 AAAATTGGGTCAGT
47558875 AAA
1 AAA
47558878 CTAGGGGTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.03, G:0.26, T:0.29
Consensus pattern (14 bp):
AAAATTGGGTCAGT
Found at i:47561353 original size:48 final size:48
Alignment explanation
Indices: 47561282--47561394 Score: 136
Period size: 48 Copynumber: 2.4 Consensus size: 48
47561272 TACAACCAGT
* * * * * *
47561282 GGTTCATCCACAACATATTTTAGTCGGTAGTTTATTAGCACGATCAGC
1 GGTTCATCCACAACATATTTTAGTCAGCAATTTATCAGCACGACCAAC
** * *
47561330 GGTTCATCCACAATGTATTTTAGTCAGCAATTTATCAGTACGACCAAT
1 GGTTCATCCACAACATATTTTAGTCAGCAATTTATCAGCACGACCAAC
47561378 GGTTCATCCACAACATA
1 GGTTCATCCACAACATA
47561395 CTAGCAGTTG
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 53 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (48 bp):
GGTTCATCCACAACATATTTTAGTCAGCAATTTATCAGCACGACCAAC
Found at i:47561482 original size:96 final size:96
Alignment explanation
Indices: 47561377--47561572 Score: 250
Period size: 96 Copynumber: 2.0 Consensus size: 96
47561367 GTACGACCAA
* * *
47561377 TGGTTCATCCACAACATACTAGCAG-TTGTTACCTTCACCAAAGGATGGTTCATCCACCAATATT
1 TGGTCCATCCACAACATACTAGCAGCTT-TTACCTGCACCAAAGGATGATTCATCCACCAATATT
** *
47561441 TTTATCGTTAGCAGTTCATTTGCAACGATCAG
65 TTTATCGTTAGCAGTTCAGCTACAACGATCAG
** * * * * *
47561473 TGGTCCATCCACAATGTATTAGCAGCTTTTATCTGCAGCGATGGATGATTCATCCACCAATATTT
1 TGGTCCATCCACAACATACTAGCAGCTTTTACCTGCACCAAAGGATGATTCATCCACCAATATTT
*
47561538 TTATCGTTAGCATTTCAGCTACAACGATCAG
66 TTATCGTTAGCAGTTCAGCTACAACGATCAG
47561569 TGGT
1 TGGT
47561573 TTATCTACAA
Statistics
Matches: 85, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
96 83 0.98
97 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (96 bp):
TGGTCCATCCACAACATACTAGCAGCTTTTACCTGCACCAAAGGATGATTCATCCACCAATATTT
TTATCGTTAGCAGTTCAGCTACAACGATCAG
Found at i:47563801 original size:39 final size:39
Alignment explanation
Indices: 47563758--47563835 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 39
47563748 ACATTACGCG
* * *
47563758 TATAATTACATAACGTTCAAGCACATATCGCAATACTCA
1 TATAATCACATAACATTCAACCACATATCGCAATACTCA
* *
47563797 TATAATCGCATAACATTCAACCATATATCGCAATACTCA
1 TATAATCACATAACATTCAACCACATATCGCAATACTCA
47563836 AAACAGGTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.28
Consensus pattern (39 bp):
TATAATCACATAACATTCAACCACATATCGCAATACTCA
Found at i:47566049 original size:25 final size:25
Alignment explanation
Indices: 47566013--47566063 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
47566003 TACTAGGCCA
**
47566013 TGTGTGACACACAGTTTAGGCTATT
1 TGTGTGACACACAGGCTAGGCTATT
*
47566038 TGTG-GACTACACGGGCTAGGCTATT
1 TGTGTGAC-ACACAGGCTAGGCTATT
47566063 T
1 T
47566064 AGGTTGTGTG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 3 0.14
25 19 0.86
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (25 bp):
TGTGTGACACACAGGCTAGGCTATT
Found at i:47589552 original size:23 final size:24
Alignment explanation
Indices: 47589526--47589586 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
47589516 GTGCTTATTG
*
47589526 TTTTGAATTTATTAT-TGA-TAAAA
1 TTTTGAATATATTATAT-ATTAAAA
47589549 TTTT-AATATATATATATATTAAAA
1 TTTTGAATATAT-TATATATTAAAA
*
47589573 TTTTGAATGTATTA
1 TTTTGAATATATTA
47589587 GTTTTTAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
22 6 0.19
23 8 0.25
24 12 0.38
25 6 0.19
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (24 bp):
TTTTGAATATATTATATATTAAAA
Found at i:47591032 original size:40 final size:40
Alignment explanation
Indices: 47590977--47591060 Score: 159
Period size: 40 Copynumber: 2.1 Consensus size: 40
47590967 TTAAAAAGCG
47590977 ATACCAATTTGTTATATTTTATGATCTATTTATGTAGATC
1 ATACCAATTTGTTATATTTTATGATCTATTTATGTAGATC
*
47591017 ATACCAATTTGTTATATTTTATGGTCTATTTATGTAGATC
1 ATACCAATTTGTTATATTTTATGATCTATTTATGTAGATC
47591057 ATAC
1 ATAC
47591061 ATGTCAAATT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.49
Consensus pattern (40 bp):
ATACCAATTTGTTATATTTTATGATCTATTTATGTAGATC
Found at i:47596309 original size:17 final size:17
Alignment explanation
Indices: 47596275--47596316 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
47596265 AAATATAGAT
*
47596275 TATTATTTA-TTAAATA
1 TATTATTAACTTAAATA
* *
47596291 TATTTTTAACTTAACTA
1 TATTATTAACTTAAATA
47596308 TATTATTAA
1 TATTATTAA
47596317 TTATATTTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (17 bp):
TATTATTAACTTAAATA
Found at i:47602506 original size:23 final size:24
Alignment explanation
Indices: 47602479--47602528 Score: 61
Period size: 23 Copynumber: 2.1 Consensus size: 24
47602469 TTGATTCGTT
47602479 TTTCAAATTT-TATAGAT-ATG-ATA
1 TTTC-AATTTATATA-ATGATGAATA
47602502 TTTCAATTTATATAATGATGAATA
1 TTTCAATTTATATAATGATGAATA
47602526 TTT
1 TTT
47602529 GAGATACTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
22 7 0.29
23 11 0.46
24 6 0.25
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (24 bp):
TTTCAATTTATATAATGATGAATA
Found at i:47604686 original size:7 final size:7
Alignment explanation
Indices: 47604674--47604707 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
47604664 ATGTGAGGTT
47604674 GTTTATG
1 GTTTATG
47604681 GTTTATG
1 GTTTATG
47604688 GTTTATG
1 GTTTATG
47604695 GTTTATG
1 GTTTATG
*
47604702 ATTTAT
1 GTTTAT
47604708 TCAACTATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.18, C:0.00, G:0.24, T:0.59
Consensus pattern (7 bp):
GTTTATG
Found at i:47608339 original size:55 final size:55
Alignment explanation
Indices: 47608280--47608450 Score: 129
Period size: 55 Copynumber: 3.1 Consensus size: 55
47608270 TATTTATATA
47608280 TTAATTTATAACGAATAGATGTGAAAATAAAATTACAATTTGAAGCATAACTCGG
1 TTAATTTATAACGAATAGATGTGAAAATAAAATTACAATTTGAAGCATAACTCGG
* * ** ** * * * ***
47608335 TTAATATATTA--TTTA-AT-T-ATCATAAAAATAACTAATATGACTGCTATTATTA-TATA
1 TTAATTTATAACGAATAGATGTGAAAAT-AAAATTAC-AATTTGA-AGC-A-TA--ACTCGG
47608391 TTAATTTATAACGAATAGATGTGAAAATAAAATTACAATTTGAAGCATAACTCGG
1 TTAATTTATAACGAATAGATGTGAAAATAAAATTACAATTTGAAGCATAACTCGG
47608446 TTAAT
1 TTAAT
47608451 AATCGTAGTT
Statistics
Matches: 79, Mismatches: 24, Indels: 26
0.61 0.19 0.20
Matches are distributed among these distances:
50 3 0.04
51 8 0.10
52 8 0.10
53 4 0.05
54 2 0.03
55 17 0.22
56 12 0.15
57 2 0.03
58 4 0.05
59 8 0.10
60 8 0.10
61 3 0.04
ACGTcount: A:0.45, C:0.08, G:0.11, T:0.36
Consensus pattern (55 bp):
TTAATTTATAACGAATAGATGTGAAAATAAAATTACAATTTGAAGCATAACTCGG
Found at i:47608856 original size:7 final size:7
Alignment explanation
Indices: 47608844--47608887 Score: 63
Period size: 7 Copynumber: 6.1 Consensus size: 7
47608834 TTTAAAATTG
47608844 ATTTAAA
1 ATTTAAA
47608851 ATTTAAA
1 ATTTAAA
47608858 ATTTTAAA
1 A-TTTAAA
47608866 ATTTTAAA
1 A-TTTAAA
47608874 ATTTAAA
1 ATTTAAA
47608881 A-TTAAA
1 ATTTAAA
47608887 A
1 A
47608888 GTATTATATA
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.17
7 15 0.42
8 15 0.42
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
ATTTAAA
Found at i:47608865 original size:8 final size:8
Alignment explanation
Indices: 47608845--47608883 Score: 64
Period size: 8 Copynumber: 5.1 Consensus size: 8
47608835 TTAAAATTGA
47608845 TTTAAAA-
1 TTTAAAAT
47608852 TTTAAAAT
1 TTTAAAAT
47608860 TTTAAAAT
1 TTTAAAAT
47608868 TTTAAAA-
1 TTTAAAAT
47608875 TTTAAAAT
1 TTTAAAAT
47608883 T
1 T
47608884 AAAAGTATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
7 14 0.47
8 16 0.53
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (8 bp):
TTTAAAAT
Found at i:47608865 original size:15 final size:15
Alignment explanation
Indices: 47608844--47608883 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
47608834 TTTAAAATTG
47608844 ATTTAAAA-TTTAAA
1 ATTTAAAATTTTAAA
47608858 ATTTTAAAATTTTAAA
1 A-TTTAAAATTTTAAA
47608874 ATTTAAAATT
1 ATTTAAAATT
47608884 AAAAGTATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 1 0.04
15 16 0.67
16 7 0.29
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTTAAAATTTTAAA
Found at i:47616899 original size:54 final size:54
Alignment explanation
Indices: 47616841--47616955 Score: 131
Period size: 54 Copynumber: 2.1 Consensus size: 54
47616831 TATGTAATAT
* * * * * * *
47616841 AAGGTCATATGGTTGTGTGACCAGGCCCTATAACTCTCTGTGATCGTGTGGCTC
1 AAGGTCAAATGGATGTGTCACCAAGCCCTATAACCCTCTGTGACCGTATGGCTC
** *
47616895 AAGGTCAAATGGATGTGTCACCAAGCTGTGTAACCCTCTGTGACCGTATGGCTC
1 AAGGTCAAATGGATGTGTCACCAAGCCCTATAACCCTCTGTGACCGTATGGCTC
*
47616949 TAGGTCA
1 AAGGTCA
47616956 CATGACCGTG
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.29
Consensus pattern (54 bp):
AAGGTCAAATGGATGTGTCACCAAGCCCTATAACCCTCTGTGACCGTATGGCTC
Found at i:47618562 original size:63 final size:63
Alignment explanation
Indices: 47618443--47618624 Score: 188
Period size: 63 Copynumber: 2.9 Consensus size: 63
47618433 GTGACAGGCT
* * * * * * * *
47618443 GTGTAACTCACTA-TTTTGAGTTAATGTCAAACAGGCTAGGGACATGAGCATGTGTCTATACC
1 GTGTAACTCACTATTTTTAAGTTAGTGTCACACGGGCCAGGGACACGAGCATCTGTCTAGACC
* * *
47618505 GTGTAACTCACTATTTTTAAGTTAGGGTCACACGGGCCAGGGACACGAGCGTCTGTCTAGGCC
1 GTGTAACTCACTATTTTTAAGTTAGTGTCACACGGGCCAGGGACACGAGCATCTGTCTAGACC
* * * * * *
47618568 GTGTAACTTACTATTTGTGAA-TTAGTGTTACATGGGCCAGAGACACAAGCATCTGTC
1 GTGTAACTCACTATTT-TTAAGTTAGTGTCACACGGGCCAGGGACACGAGCATCTGTC
47618625 CAAGTCGTGT
Statistics
Matches: 99, Mismatches: 19, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
62 13 0.13
63 83 0.84
64 3 0.03
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (63 bp):
GTGTAACTCACTATTTTTAAGTTAGTGTCACACGGGCCAGGGACACGAGCATCTGTCTAGACC
Found at i:47628862 original size:15 final size:15
Alignment explanation
Indices: 47628829--47628867 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
47628819 CCAAGGATAA
47628829 AAAAATGAAA-GGAGG
1 AAAAA-GAAATGGAGG
47628844 -AAAAGAAATGGAGG
1 AAAAAGAAATGGAGG
47628858 AAAAAGAAAT
1 AAAAAGAAAT
47628868 ATCATGCAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 4 0.18
14 9 0.41
15 9 0.41
ACGTcount: A:0.64, C:0.00, G:0.28, T:0.08
Consensus pattern (15 bp):
AAAAAGAAATGGAGG
Found at i:47630307 original size:28 final size:28
Alignment explanation
Indices: 47630267--47630322 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
47630257 GCTAAAATGT
47630267 GTTTTGTAAGAAAAAGAATTATTTGAAC
1 GTTTTGTAAGAAAAAGAATTATTTGAAC
47630295 GTTTTGTAAGAAAAAGAATTATTTGAAC
1 GTTTTGTAAGAAAAAGAATTATTTGAAC
47630323 AACTCTGATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.04, G:0.18, T:0.36
Consensus pattern (28 bp):
GTTTTGTAAGAAAAAGAATTATTTGAAC
Found at i:47647304 original size:18 final size:19
Alignment explanation
Indices: 47647283--47647320 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
47647273 TTTATACAAT
47647283 AAAAAT-AATTTAAAATTA
1 AAAAATAAATTTAAAATTA
*
47647301 AAAAATAAATTTAACATTA
1 AAAAATAAATTTAAAATTA
47647320 A
1 A
47647321 TGAAATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAAATAAATTTAAAATTA
Found at i:47655856 original size:13 final size:13
Alignment explanation
Indices: 47655838--47655863 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47655828 AGTAATTGCT
47655838 AAATTATAGCACA
1 AAATTATAGCACA
47655851 AAATTATAGCACA
1 AAATTATAGCACA
47655864 CCCATGATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.08, T:0.23
Consensus pattern (13 bp):
AAATTATAGCACA
Found at i:47663372 original size:45 final size:45
Alignment explanation
Indices: 47663285--47663382 Score: 108
Period size: 45 Copynumber: 2.2 Consensus size: 45
47663275 AGAACGAATA
* *
47663285 GAAATAGAGAAATGAAAAGCATTCAGAAATGATTATGATTTTCTCC
1 GAAATGGAGAAATGAAAAGCATTCAGAAATGAATATGATTTTCT-C
* ** * *
47663331 GAAATGGAGAAAT-AAAATCATTTGGAAATGAATGTGGTTTTCTC
1 GAAATGGAGAAATGAAAAGCATTCAGAAATGAATATGATTTTCTC
*
47663375 AAAATGGA
1 GAAATGGA
47663383 AATGGAAATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
44 8 0.18
45 24 0.55
46 12 0.27
ACGTcount: A:0.43, C:0.08, G:0.20, T:0.29
Consensus pattern (45 bp):
GAAATGGAGAAATGAAAAGCATTCAGAAATGAATATGATTTTCTC
Found at i:47663387 original size:6 final size:6
Alignment explanation
Indices: 47663376--47663417 Score: 75
Period size: 6 Copynumber: 6.8 Consensus size: 6
47663366 GGTTTTCTCA
47663376 AAATGG AAATGG AAATGG AAATGG AAATGG AAATGAG AAATG
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATG-G AAATG
47663418 ATTCATTTAC
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 29 0.83
7 6 0.17
ACGTcount: A:0.52, C:0.00, G:0.31, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:47665292 original size:13 final size:13
Alignment explanation
Indices: 47665274--47665314 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
47665264 GCGTATCATT
47665274 TGGAAAACCTTTG
1 TGGAAAACCTTTG
*
47665287 TGGAAAA--TTCTC
1 TGGAAAACCTT-TG
47665299 TGGAAAACCTTTG
1 TGGAAAACCTTTG
47665312 TGG
1 TGG
47665315 CGTATCATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
11 2 0.09
12 8 0.35
13 11 0.48
14 2 0.09
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (13 bp):
TGGAAAACCTTTG
Found at i:47665334 original size:25 final size:24
Alignment explanation
Indices: 47665262--47665340 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 24
47665252 CAAGCTTTTA
47665262 TGGCGTATCATTTGGAAAACCTTTG
1 TGGCGTATCATTT-GAAAACCTTTG
*** *
47665287 TGGAAAATTC-TCTGGAAAACCTTTG
1 TGGCGTA-TCAT-TTGAAAACCTTTG
47665312 TGGCGTATCATTTGAAAAGCCTTTG
1 TGGCGTATCATTTGAAAA-CCTTTG
47665337 TGGC
1 TGGC
47665341 AAATTCTTTG
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
24 8 0.19
25 31 0.74
26 3 0.07
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.34
Consensus pattern (24 bp):
TGGCGTATCATTTGAAAACCTTTG
Found at i:47665355 original size:25 final size:25
Alignment explanation
Indices: 47665272--47665354 Score: 98
Period size: 25 Copynumber: 3.3 Consensus size: 25
47665262 TGGCGTATCA
*
47665272 TTTGGAAAACCTTTGTGGAAAATTC
1 TTTGGAAAACCTTTGTGGCAAATTC
* **
47665297 TCTGGAAAACCTTTGTGGCGTA-TC
1 TTTGGAAAACCTTTGTGGCAAATTC
47665321 ATTT-GAAAAGCCTTTGTGGCAAATTC
1 -TTTGGAAAA-CCTTTGTGGCAAATTC
47665347 TTTGGAAA
1 TTTGGAAA
47665355 GTTGTTGTGG
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
24 7 0.15
25 34 0.72
26 6 0.13
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (25 bp):
TTTGGAAAACCTTTGTGGCAAATTC
Found at i:47685138 original size:14 final size:13
Alignment explanation
Indices: 47685058--47685149 Score: 51
Period size: 14 Copynumber: 6.6 Consensus size: 13
47685048 GCTATATATT
* *
47685058 ATTATTTTTATTA
1 ATTATATTTAATA
47685071 ATTCATATTTTAATA
1 ATT-ATA-TTTAATA
*
47685086 ATTATTATATTAAGA
1 ATTA-TAT-TTAATA
*
47685101 ATGT-TATTAAATTA
1 AT-TATATTTAA-TA
* * *
47685115 TTTATTTTTATTAA
1 ATTATATTTAAT-A
47685129 ATTATATTTAATA
1 ATTATATTTAATA
47685142 ATTATATT
1 ATTATATT
47685150 AAAATATGAT
Statistics
Matches: 59, Mismatches: 12, Indels: 16
0.68 0.14 0.18
Matches are distributed among these distances:
13 17 0.29
14 23 0.39
15 18 0.31
16 1 0.02
ACGTcount: A:0.39, C:0.01, G:0.02, T:0.58
Consensus pattern (13 bp):
ATTATATTTAATA
Found at i:47685189 original size:55 final size:53
Alignment explanation
Indices: 47685084--47685197 Score: 158
Period size: 55 Copynumber: 2.1 Consensus size: 53
47685074 CATATTTTAA
* * * *
47685084 TAATTATTATATTAAGAATGTTATTAAATTATTTATTTTTATTAAATTATATT
1 TAATAATTATATTAAGAATATGATTAAATTATTTATTATTATTAAATTATATT
47685137 TAATAATTATATTAA-AATATGATTAAATTATTTGTTATTATTATTAAATTATATT
1 TAATAATTATATTAAGAATATGATTAAATTA--T-TTATTATTATTAAATTATATT
47685192 TAATAA
1 TAATAA
47685198 CAATAATCAT
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
52 13 0.24
53 14 0.26
54 1 0.02
55 26 0.48
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.54
Consensus pattern (53 bp):
TAATAATTATATTAAGAATATGATTAAATTATTTATTATTATTAAATTATATT
Found at i:47706134 original size:18 final size:18
Alignment explanation
Indices: 47706111--47706146 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
47706101 GCCAGCTCAA
47706111 GTGGGTCAAATGAGCCCT
1 GTGGGTCAAATGAGCCCT
47706129 GTGGGTCAAATGAGCCCT
1 GTGGGTCAAATGAGCCCT
47706147 ATTTAATCGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.22, G:0.33, T:0.22
Consensus pattern (18 bp):
GTGGGTCAAATGAGCCCT
Found at i:47710658 original size:25 final size:25
Alignment explanation
Indices: 47710628--47710808 Score: 129
Period size: 25 Copynumber: 7.3 Consensus size: 25
47710618 CTCGCCATAA
47710628 AGGCTTTCCAAATAATACACCACAT
1 AGGCTTTCCAAATAATACACCACAT
* ** * * *
47710653 ATGCTTTTTGAGATAACTA-GCCACAA
1 AGGC-TTTCCAAATAA-TACACCACAT
* * * *
47710679 ATGCTTCCCAAATAATAC-GC-TAT
1 AGGCTTTCCAAATAATACACCACAT
*
47710702 AGGCTTTCCAAATAATACGCCACAT
1 AGGCTTTCCAAATAATACACCACAT
* * * *
47710727 AGGCTTTTCAGATAACA-AGCCACAA
1 AGGCTTTCCAAATAATACA-CCACAT
* *
47710752 AGGCTTCCCAAATAATACATCACAT
1 AGGCTTTCCAAATAATACACCACAT
*
47710777 AGGC-TTCCTAAATAGTACACCACAT
1 AGGCTTTCC-AAATAATACACCACAT
47710802 AGGCTTT
1 AGGCTTT
47710809 TTGAGATAAC
Statistics
Matches: 116, Mismatches: 31, Indels: 17
0.71 0.19 0.10
Matches are distributed among these distances:
23 17 0.15
24 7 0.06
25 70 0.60
26 20 0.17
27 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.12, T:0.26
Consensus pattern (25 bp):
AGGCTTTCCAAATAATACACCACAT
Found at i:47720465 original size:74 final size:73
Alignment explanation
Indices: 47720344--47720504 Score: 304
Period size: 74 Copynumber: 2.2 Consensus size: 73
47720334 CCCAAAAATC
*
47720344 AAATCGAATACCCATCCACGAACCCAATACCTACCCCAAATCAACTTACCCAAATACCAAATTAC
1 AAATCCAATACCCATCCACGAACCCAATACCTACCCCAAATCAACTTA-CCAAATACCAAATTAC
47720409 CCACATAAT
65 CCACATAAT
47720418 AAATCCAATACCCATCCACGAACCCAATACCTACCCCAAATCAACTTACCAAATACCAAATTACC
1 AAATCCAATACCCATCCACGAACCCAATACCTACCCCAAATCAACTTACCAAATACCAAATTACC
47720483 CACATAAT
66 CACATAAT
47720491 AAATCCAATACCCA
1 AAATCCAATACCCA
47720505 ATGTCATGAT
Statistics
Matches: 86, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
73 39 0.45
74 47 0.55
ACGTcount: A:0.44, C:0.37, G:0.02, T:0.17
Consensus pattern (73 bp):
AAATCCAATACCCATCCACGAACCCAATACCTACCCCAAATCAACTTACCAAATACCAAATTACC
CACATAAT
Found at i:47720543 original size:73 final size:68
Alignment explanation
Indices: 47720344--47720504 Score: 196
Period size: 73 Copynumber: 2.2 Consensus size: 68
47720334 CCCAAAAATC
* *
47720344 AAATCGAATACCCATCCACGAACCCAATACCTACCCCAAATCAACTTACCCAAATACCAAATTAC
1 AAATCCAATACCCATCCACGAACCCAAAACCTACCCC--A--AA--TACCCAAATACCAAATTAC
47720409 CCACATAAT
60 CCACATAAT
*
47720418 AAATCCAATACCCATCCACGAACCCAATACCTACCCCAAATCAACTTACCAAATACCAAATTACC
1 AAATCCAATACCCATCCACGAACCCAAAACCTACCCCAAAT--AC---CCAAATACCAAATTACC
47720483 CACATAAT
61 CACATAAT
47720491 AAATCCAATACCCA
1 AAATCCAATACCCA
47720505 ATGTCATGAT
Statistics
Matches: 81, Mismatches: 1, Indels: 11
0.87 0.01 0.12
Matches are distributed among these distances:
68 1 0.01
70 4 0.05
72 1 0.01
73 39 0.48
74 36 0.44
ACGTcount: A:0.44, C:0.37, G:0.02, T:0.17
Consensus pattern (68 bp):
AAATCCAATACCCATCCACGAACCCAAAACCTACCCCAAATACCCAAATACCAAATTACCCACAT
AAT
Found at i:47720693 original size:8 final size:8
Alignment explanation
Indices: 47720664--47720712 Score: 64
Period size: 8 Copynumber: 5.9 Consensus size: 8
47720654 CTACAAGGAA
47720664 AAAAGAAAG
1 AAAA-AAAG
47720673 AAAAAAGAG
1 AAAAAA-AG
47720682 AAAACAAA-
1 AAAA-AAAG
47720690 AAAAAAAG
1 AAAAAAAG
47720698 AAAAAAAG
1 AAAAAAAG
47720706 AAAAAAA
1 AAAAAAA
47720713 CAAACACCTA
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
7 3 0.08
8 21 0.57
9 11 0.30
10 2 0.05
ACGTcount: A:0.86, C:0.02, G:0.12, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:47720710 original size:25 final size:25
Alignment explanation
Indices: 47720662--47720709 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
47720652 GGCTACAAGG
*
47720662 AAAAAAGAAAGAAAAAAGAGAAAAC
1 AAAAAAAAAAGAAAAAAGAGAAAAC
47720687 AAAAAAAAAAGAAAAAA-AGAAAA
1 AAAAAAAAAAGAAAAAAGAGAAAA
47720710 AAACAAACAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 6 0.27
25 16 0.73
ACGTcount: A:0.85, C:0.02, G:0.12, T:0.00
Consensus pattern (25 bp):
AAAAAAAAAAGAAAAAAGAGAAAAC
Found at i:47720711 original size:26 final size:26
Alignment explanation
Indices: 47720662--47720716 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 26
47720652 GGCTACAAGG
* *
47720662 AAAAAAGAAAGAAAAAAG-AGAAAAC
1 AAAAAAAAAAGAAAAAAGAAAAAAAC
47720687 AAAAAAAAAAGAAAAAAAGAAAAAAAC
1 AAAAAAAAAAG-AAAAAAGAAAAAAAC
47720714 AAA
1 AAA
47720717 CACCTAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 10 0.38
26 7 0.27
27 9 0.35
ACGTcount: A:0.85, C:0.04, G:0.11, T:0.00
Consensus pattern (26 bp):
AAAAAAAAAAGAAAAAAGAAAAAAAC
Found at i:47727212 original size:25 final size:25
Alignment explanation
Indices: 47727146--47727213 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 25
47727136 GCTGCGAATG
* * * *
47727146 GGTATGCTCACTTGAGGTGTAGATC
1 GGTATGCTCACATGAGCTATAAATC
* *
47727171 GGTATGCTCTA-ACGAGCTATAAATT
1 GGTATGCTC-ACATGAGCTATAAATC
47727196 GGTATGCTCACATGAGCT
1 GGTATGCTCACATGAGCT
47727214 GTGGGTCAGA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
24 1 0.03
25 32 0.94
26 1 0.03
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (25 bp):
GGTATGCTCACATGAGCTATAAATC
Found at i:47733019 original size:19 final size:20
Alignment explanation
Indices: 47732997--47733070 Score: 82
Period size: 20 Copynumber: 3.7 Consensus size: 20
47732987 TAACCTTTTC
*
47732997 TTTTCTTTATTTTATTTTAT
1 TTTTATTTATTTTATTTTAT
47733017 TTTTATTTA-TTTA-TTTAT
1 TTTTATTTATTTTATTTTAT
*
47733035 TTATTATTTATTATTATATTAT
1 TT-TTATTTATT-TTATTTTAT
47733057 TTATT-TTTATTTTA
1 TT-TTATTTATTTTA
47733071 CTGATCCATT
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
18 7 0.15
19 11 0.23
20 12 0.25
21 9 0.19
22 9 0.19
ACGTcount: A:0.23, C:0.01, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTTATTTATTTTATTTTAT
Found at i:47733027 original size:4 final size:4
Alignment explanation
Indices: 47733018--47733062 Score: 60
Period size: 4 Copynumber: 11.8 Consensus size: 4
47733008 TTATTTTATT
47733018 TTTA TTTA TTTA TTTA TTTA -TTA TTTA -TTA -TTA TATTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTT
47733063 TTATTTTACT
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
3 9 0.24
4 25 0.66
5 4 0.11
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:47733027 original size:15 final size:14
Alignment explanation
Indices: 47733002--47733068 Score: 73
Period size: 15 Copynumber: 4.5 Consensus size: 14
47732992 TTTTCTTTTC
47733002 TTTATTTTATTTTATT
1 TTTA-TTTA-TTTATT
47733018 TTTATTTATTTATT
1 TTTATTTATTTATT
47733032 TATT-TATTATTTATT
1 T-TTAT-TTATTTATT
*
47733047 ATTATATTATTTATT
1 TTTAT-TTATTTATT
47733062 TTTATTT
1 TTTATTT
47733069 TACTGATCCA
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
14 12 0.26
15 30 0.65
16 4 0.09
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTATTTATTTATT
Found at i:47733268 original size:18 final size:20
Alignment explanation
Indices: 47733245--47733293 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
47733235 TTTCGTTTCT
47733245 TTTTTATTTTTA-T-CTGTA
1 TTTTTATTTTTACTACTGTA
*
47733263 TTTTTATTTTTAGCTACTTTA
1 TTTTTATTTTTA-CTACTGTA
47733284 TTTTTATTTT
1 TTTTTATTTT
47733294 CTAAGACTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 12 0.44
20 1 0.04
21 14 0.52
ACGTcount: A:0.16, C:0.06, G:0.04, T:0.73
Consensus pattern (20 bp):
TTTTTATTTTTACTACTGTA
Found at i:47749196 original size:50 final size:50
Alignment explanation
Indices: 47749115--47749276 Score: 209
Period size: 50 Copynumber: 3.3 Consensus size: 50
47749105 TAGAGGACTT
* * * *
47749115 GCCATAAAAGCTTTCCAAATAATATGCCACATAGAATTTTCAGATAAGTA
1 GCCACAAAAGCTTCCCAAATAATATGCCACATAGGATTTTCAGATAACTA
*** *
47749165 GCCACAAAAGCTTCCCAAATAATACATCACATAGGA-TTTCAGGTAACTA
1 GCCACAAAAGCTTCCCAAATAATATGCCACATAGGATTTTCAGATAACTA
* *
47749214 GCCACAAAGGCTTCCCAAATAATATGCCACATAGGCTTTTCAGATAACTA
1 GCCACAAAAGCTTCCCAAATAATATGCCACATAGGATTTTCAGATAACTA
* *
47749264 GCCATAAAGGCTT
1 GCCACAAAAGCTT
47749277 ATTTTGTTTG
Statistics
Matches: 96, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
49 42 0.44
50 54 0.56
ACGTcount: A:0.39, C:0.23, G:0.14, T:0.25
Consensus pattern (50 bp):
GCCACAAAAGCTTCCCAAATAATATGCCACATAGGATTTTCAGATAACTA
Done.