Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 14 of 216
Found at i:4413843 original size:20 final size:20
Alignment explanation
Indices: 4413818--4413855 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
4413808 ATAATTTTGT
4413818 AAACTCAAAACTTAAACCAC
1 AAACTCAAAACTTAAACCAC
4413838 AAACTCAAAACTTAAACC
1 AAACTCAAAACTTAAACC
4413856 TGAACATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.55, C:0.29, G:0.00, T:0.16
Consensus pattern (20 bp):
AAACTCAAAACTTAAACCAC
Found at i:4419279 original size:6 final size:6
Alignment explanation
Indices: 4419268--4419294 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
4419258 AAAACAGCTG
4419268 CCGCCA CCGCCA CCGCCA CCGCCA CCG
1 CCGCCA CCGCCA CCGCCA CCGCCA CCG
4419295 TCACAATGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.67, G:0.19, T:0.00
Consensus pattern (6 bp):
CCGCCA
Found at i:4432729 original size:18 final size:19
Alignment explanation
Indices: 4432686--4432745 Score: 61
Period size: 18 Copynumber: 3.2 Consensus size: 19
4432676 GTTTCTCTCA
*
4432686 ATAAAAGTTACAAAATAATTT
1 ATAAAAATT-CAAAAT-ATTT
*
4432707 TTAAAAA-TCAAAATATTT
1 ATAAAAATTCAAAATATTT
*
4432725 ATAAAAATTCCAAAT-TTT
1 ATAAAAATTCAAAATATTT
4432743 ATA
1 ATA
4432746 TGTTTTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
18 16 0.47
19 12 0.35
20 1 0.03
21 5 0.15
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.37
Consensus pattern (19 bp):
ATAAAAATTCAAAATATTT
Found at i:4437745 original size:2 final size:2
Alignment explanation
Indices: 4437738--4437763 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4437728 TTCCTTAAAT
4437738 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
4437764 AATTCGATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4441478 original size:64 final size:64
Alignment explanation
Indices: 4441394--4441570 Score: 249
Period size: 64 Copynumber: 2.8 Consensus size: 64
4441384 ATATATATTT
*
4441394 AAAGTTCTTGAGCTGTATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
1 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
*
4441458 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTACT-TACATATGTGGTTCGAATATAGGTTAC
1 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTA-TATACATATGTGGTTCAAATATAGGTTAC
*
4441522 AAA-TTCTTTGAGCTGAATTTTAATGT-TGTAA--AT-TATACATATGTGGTTC
1 AAAGTTC-TTGAGCTGAA-TTTAATGTATG-AATTTTATATACATATGTGGTTC
4441571 GAATGTTTGT
Statistics
Matches: 105, Mismatches: 3, Indels: 12
0.88 0.03 0.10
Matches are distributed among these distances:
61 1 0.01
62 14 0.13
63 4 0.04
64 75 0.71
65 11 0.10
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (64 bp):
AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
Found at i:4441746 original size:41 final size:41
Alignment explanation
Indices: 4441689--4441929 Score: 306
Period size: 41 Copynumber: 5.9 Consensus size: 41
4441679 TATATGAGAT
*
4441689 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
4441730 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
4441771 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
* * * *
4441812 TTTTAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
* * * * * *
4441853 ATTCCGACTTTATGTCTAGCAGGCTTTG-TGCCGGTGAAATGA
1 TTTCAGGCTTAATGCCTAGCAGGC-TTGATGCCGGTG-AATTA
* * ** *
4441895 -ATCGGGCTTTGTGCCTAGCAGGCTTTATGCCGGTG
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTG
4441930 TTTTATATAG
Statistics
Matches: 182, Mismatches: 15, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
40 2 0.01
41 173 0.95
42 7 0.04
ACGTcount: A:0.20, C:0.19, G:0.28, T:0.33
Consensus pattern (41 bp):
TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
Found at i:4442621 original size:14 final size:15
Alignment explanation
Indices: 4442597--4442631 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
4442587 TACTTTAATC
4442597 ATGGATTAGTATTT-T
1 ATGG-TTAGTATTTAT
4442612 ATGGTTAGTATTTAT
1 ATGGTTAGTATTTAT
4442627 ATGGT
1 ATGGT
4442632 AATATATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (15 bp):
ATGGTTAGTATTTAT
Found at i:4448412 original size:64 final size:64
Alignment explanation
Indices: 4448328--4448475 Score: 237
Period size: 64 Copynumber: 2.3 Consensus size: 64
4448318 ATATATATTT
*
4448328 AAAGTTCTTGAGCTGTATTTAATGTATGAATTTTA-TATACATATGTGGTTCAAATATAGGTTAC
1 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTACT-TACATATGTGGTTCAAATATAGGTTAC
* *
4448392 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTACTTACGTATGTGGTTCGAATATAGGTTAC
1 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTACTTACATATGTGGTTCAAATATAGGTTAC
4448456 AAA-TTCTTTGAGCTGAATTT
1 AAAGTTC-TTGAGCTGAATTT
4448476 TAATATTGTA
Statistics
Matches: 79, Mismatches: 3, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
63 3 0.04
64 75 0.95
65 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (64 bp):
AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTACTTACATATGTGGTTCAAATATAGGTTAC
Found at i:4448680 original size:41 final size:41
Alignment explanation
Indices: 4448623--4448904 Score: 397
Period size: 41 Copynumber: 6.9 Consensus size: 41
4448613 TATATGAGAT
4448623 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
4448664 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
4448705 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
4448746 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
* * * *
4448787 TTTTAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
* * * * * *
4448828 ATTCCGACTTTATGTCTAGCAGGCTTTG-TGCCGGTGAAATGA
1 TTTCAGGCTTAATGCCTAGCAGGC-TTGATGCCGGTG-AATTA
* * ** *
4448870 -ATCGGGCTTTGTGCCTAGCAGGCTTTATGCCGGTG
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTG
4448905 TTTTATATAG
Statistics
Matches: 224, Mismatches: 14, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
40 2 0.01
41 215 0.96
42 7 0.03
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.33
Consensus pattern (41 bp):
TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
Found at i:4449596 original size:14 final size:15
Alignment explanation
Indices: 4449572--4449606 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
4449562 TACTTTAATC
4449572 ATGGATTAGTATTT-T
1 ATGG-TTAGTATTTAT
4449587 ATGGTTAGTATTTAT
1 ATGGTTAGTATTTAT
4449602 ATGGT
1 ATGGT
4449607 AATATATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (15 bp):
ATGGTTAGTATTTAT
Found at i:4456836 original size:134 final size:134
Alignment explanation
Indices: 4456592--4456887 Score: 325
Period size: 134 Copynumber: 2.2 Consensus size: 134
4456582 ATCCCCTAAT
*
4456592 AAAATTAAATT-TTGTAACAATATTTTAAAATTGTTGATAATATAGTAACATTTACCAGCAACTC
1 AAAATTAAATTATT-TAACAATATTTTAAAATTGTTGATAATATAATAACATTTACCAGCAACTC
* * * *
4456656 ATTTTATTGCTGTGTATTATTTGATTAAAAATTCATAACAATAAATTGTATTGCTGCAATTAGTA
65 ATTTTATTGCTATGTATAATTAGATTAAAAATTCATAACAATAAATTATATTGCTGCAATTAGTA
4456721 ATTAA-
130 A-TAAG
* * * *
4456726 AAAATTAAATTATTTAACAACATTTTAAATTTGTTGCTAATA-ACATAACATTTACCAGCAACTT
1 AAAATTAAATTATTTAACAATATTTTAAAATTGTTGATAATATA-ATAACATTTACCAGCAACTC
* * *** * * *
4456790 ATTTTGTTG-TAT-TAGGTAATTAG-TTACAAATTCATAATGGTAAAATTATTTTGTTGTAATTA
65 ATTTTATTGCTATGTA--TAATTAGATTAAAAATTCATAACAAT-AAATTATATTGCTGCAATTA
4456852 GTAATAAG
127 GTAATAAG
* *
4456860 AAAATTAAATTATGTAACGATATTTTAA
1 AAAATTAAATTATTTAACAATATTTTAA
4456888 GGTTATTGTT
Statistics
Matches: 136, Mismatches: 20, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
132 2 0.01
133 20 0.15
134 112 0.82
135 2 0.01
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (134 bp):
AAAATTAAATTATTTAACAATATTTTAAAATTGTTGATAATATAATAACATTTACCAGCAACTCA
TTTTATTGCTATGTATAATTAGATTAAAAATTCATAACAATAAATTATATTGCTGCAATTAGTAA
TAAG
Found at i:4457255 original size:137 final size:134
Alignment explanation
Indices: 4457006--4457262 Score: 295
Period size: 137 Copynumber: 1.9 Consensus size: 134
4456996 ATTACGTAAC
* * * *
4457006 GACATTTTAAAGATGTTGCTAATATTTTCACATTTAACAAAATTTTTTTTCGTTACAAATTTTAT
1 GACAATTTAAAGATGTTGCTAATATTTTAACATTTAACAAAATTTTTTATCATTACAAATTTTAT
* * * * * * *
4457071 TAGGAATTCACAACGACAAGTCGCGTTGTTGTGAATACTAAACAGAAAGTTAAATTACGTAAAGA
66 TAAGAATTCACAACGACAAATCACGCTGCTGTGAATAATAAACAGAAAATTAAATTACGTAAAGA
4457136 TTAA
131 TTAA
* **
4457140 GACAATTT-AAGATTGTTGCTAATATTTTAACGTTTAACAACAACTTGTTTTATCATTACGCATT
1 GACAATTTAAAGA-TGTTGCTAATATTTTAACATTTAACAA-AA-TT-TTTTATCATTACAAATT
* *
4457204 TTATTAAGAATTCACAATGACAAATCATGCTGCTGT-AATTAATAAGA-AGAAAATTAAAT
62 TTATTAAGAATTCACAACGACAAATCACGCTGCTGTGAA-TAATAA-ACAGAAAATTAAAT
4457263 GACATAACGA
Statistics
Matches: 101, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
133 4 0.04
134 32 0.32
135 2 0.02
136 4 0.04
137 58 0.57
138 1 0.01
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (134 bp):
GACAATTTAAAGATGTTGCTAATATTTTAACATTTAACAAAATTTTTTATCATTACAAATTTTAT
TAAGAATTCACAACGACAAATCACGCTGCTGTGAATAATAAACAGAAAATTAAATTACGTAAAGA
TTAA
Found at i:4462938 original size:30 final size:30
Alignment explanation
Indices: 4462898--4462958 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
4462888 TTACAAAGGC
*
4462898 ATTGGTGGTCTAGG-GGGTTTAGGCGGTGGA
1 ATTGGAGGTCTAGGTGGG-TTAGGCGGTGGA
*
4462928 ATTGGAGGTCTAGGTGGGTTAGGGGGTGGA
1 ATTGGAGGTCTAGGTGGGTTAGGCGGTGGA
4462958 A
1 A
4462959 CTGGTGGCGG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 25 0.89
31 3 0.11
ACGTcount: A:0.16, C:0.05, G:0.51, T:0.28
Consensus pattern (30 bp):
ATTGGAGGTCTAGGTGGGTTAGGCGGTGGA
Found at i:4462986 original size:42 final size:42
Alignment explanation
Indices: 4462930--4463025 Score: 156
Period size: 42 Copynumber: 2.3 Consensus size: 42
4462920 GCGGTGGAAT
*
4462930 TGGAGGTCTAGGTGGGTTAGGGGGTGGAACTGGTGGCGGAGG
1 TGGAGGTCTAGGTGGGTTAGGGGGTGGAACCGGTGGCGGAGG
* * *
4462972 TGGAGGTCTTGGTGGTTTAGGGGGTGGAACCGGTGGCGGAGT
1 TGGAGGTCTAGGTGGGTTAGGGGGTGGAACCGGTGGCGGAGG
4463014 TGGAGGTCTAGG
1 TGGAGGTCTAGG
4463026 CGGTGGGACC
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.14, C:0.08, G:0.54, T:0.24
Consensus pattern (42 bp):
TGGAGGTCTAGGTGGGTTAGGGGGTGGAACCGGTGGCGGAGG
Found at i:4463031 original size:33 final size:33
Alignment explanation
Indices: 4462980--4463064 Score: 107
Period size: 33 Copynumber: 2.6 Consensus size: 33
4462970 GGTGGAGGTC
* * * *
4462980 TTGGTGGTTTAGGGGGTGGAACCGGTGGCGGAG
1 TTGGAGGTCTAGGCGGTGGAACCGGGGGCGGAG
* *
4463013 TTGGAGGTCTAGGCGGTGGGACCGGGGGTGGAG
1 TTGGAGGTCTAGGCGGTGGAACCGGGGGCGGAG
*
4463046 TTGGAGGTCTAGGTGGTGG
1 TTGGAGGTCTAGGCGGTGG
4463065 TGGTTGTCCA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.12, C:0.09, G:0.55, T:0.24
Consensus pattern (33 bp):
TTGGAGGTCTAGGCGGTGGAACCGGGGGCGGAG
Found at i:4463105 original size:54 final size:54
Alignment explanation
Indices: 4463042--4463172 Score: 205
Period size: 51 Copynumber: 2.5 Consensus size: 54
4463032 GACCGGGGGT
* *
4463042 GGAGTTGGAGGTCTAGGTGGTGGTGGTTGTCCAGGTACAGGTGGTGTAGGCAGC
1 GGAGCTGGAGGTCTAGGTGGTGGTGGTTGTCCAGATACAGGTGGTGTAGGCAGC
* *
4463096 GGAGCTGGAGGTCTA---GGTGGTGGTTGTCCAGATACAGGTGGTGTAGGCGGT
1 GGAGCTGGAGGTCTAGGTGGTGGTGGTTGTCCAGATACAGGTGGTGTAGGCAGC
4463147 GGAGCTGGAGGTCTAGGTGGTGGTGG
1 GGAGCTGGAGGTCTAGGTGGTGGTGG
4463173 CAGCGGAATA
Statistics
Matches: 70, Mismatches: 4, Indels: 6
0.88 0.05 0.08
Matches are distributed among these distances:
51 48 0.69
54 22 0.31
ACGTcount: A:0.15, C:0.11, G:0.50, T:0.25
Consensus pattern (54 bp):
GGAGCTGGAGGTCTAGGTGGTGGTGGTTGTCCAGATACAGGTGGTGTAGGCAGC
Found at i:4463186 original size:51 final size:50
Alignment explanation
Indices: 4463039--4463188 Score: 158
Period size: 51 Copynumber: 2.9 Consensus size: 50
4463029 TGGGACCGGG
* * *
4463039 GGTGGAGTTGGAGGTCTAGGTGGTGGTGGTTGTCCAGGTACAGGTGGTGTAGGC
1 GGTGGAGCTGGAGGTCTAGGTGGTGGTGG-CG--C-GGAACAGGTGGTGTAGGC
* * * *
4463093 AGCGGAGCTGGAGGTCTAGGTGGTGGTTGTC-CAGATACAGGTGGTGTAGGC
1 GGTGGAGCTGGAGGTCTAGGTGGTGG-TGGCGCGGA-ACAGGTGGTGTAGGC
*
4463144 GGTGGAGCTGGAGGTCTAGGTGGTGGTGGCAGCGGAATAGGTGGT
1 GGTGGAGCTGGAGGTCTAGGTGGTGGTGGC-GCGGAACAGGTGGT
4463189 ATAAGTAGGC
Statistics
Matches: 80, Mismatches: 12, Indels: 11
0.78 0.12 0.11
Matches are distributed among these distances:
50 4 0.05
51 48 0.60
52 3 0.04
54 23 0.29
55 2 0.03
ACGTcount: A:0.15, C:0.11, G:0.49, T:0.25
Consensus pattern (50 bp):
GGTGGAGCTGGAGGTCTAGGTGGTGGTGGCGCGGAACAGGTGGTGTAGGC
Found at i:4464510 original size:68 final size:65
Alignment explanation
Indices: 4464403--4464537 Score: 171
Period size: 67 Copynumber: 2.0 Consensus size: 65
4464393 ATATTTTATA
* * * * *
4464403 AATATTTTGATTTTTTATAATTTTTTAAGGGACCTATTTGCATATTTCCGAGACTGTCAATTACC
1 AATATTTTGATTTTTTATAATTCTATAAGGGACCAATTTGCAT-TTTCCGAAACTATCAATTACC
4464468 C
65 C
* * *
4464469 AATATTTTGACTTTTTTGGTAATTCTATAAGGGACCAATTTGCATTTTTCGAAACTATCAGTTAC
1 AATATTTTGA-TTTTTT-ATAATTCTATAAGGGACCAATTTGCATTTTCCGAAACTATCAATTAC
4464534 CC
64 CC
4464536 AA
1 AA
4464538 GCAATATTTA
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
66 10 0.17
67 26 0.44
68 23 0.39
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.43
Consensus pattern (65 bp):
AATATTTTGATTTTTTATAATTCTATAAGGGACCAATTTGCATTTTCCGAAACTATCAATTACCC
Found at i:4484240 original size:26 final size:26
Alignment explanation
Indices: 4484211--4484276 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 26
4484201 ACGTATACTT
*
4484211 ATATATATAGATATATCTTATAATAC
1 ATATATATACATATATCTTATAATAC
* *
4484237 ATATATGTACATATATTTTATAAT--
1 ATATATATACATATATCTTATAATAC
*
4484261 TTATATATACATATAT
1 ATATATATACATATAT
4484277 ATATTTGTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
24 14 0.40
26 21 0.60
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (26 bp):
ATATATATACATATATCTTATAATAC
Found at i:4487753 original size:21 final size:23
Alignment explanation
Indices: 4487702--4487745 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
4487692 ACATATGCAC
*
4487702 ATACTTACA-TTTTTATTTTATA
1 ATACTTATAGTTTTTATTTTATA
4487724 ATACTTATAGTTTTT-TTTTATA
1 ATACTTATAGTTTTTATTTTATA
4487746 TATGTATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (23 bp):
ATACTTATAGTTTTTATTTTATA
Found at i:4491026 original size:3 final size:3
Alignment explanation
Indices: 4491018--4491048 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
4491008 TCAACTGCAA
4491018 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
4491049 GAGAAGAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:4492266 original size:51 final size:51
Alignment explanation
Indices: 4492176--4492274 Score: 135
Period size: 51 Copynumber: 1.9 Consensus size: 51
4492166 CATATTTTTT
* * * *
4492176 ATTTTTTAGAATTAGGACCAAATTGAGAATATTTGTAAATTTTGAGGGTTA
1 ATTTTTTAAAATTAGGACCAAATTGAGAATATATATAAATGTTGAGGGTTA
* * *
4492227 ATTTTTTAAAATTAGGACTAAATTGATATTATATATAAATGTTGAGGG
1 ATTTTTTAAAATTAGGACCAAATTGAGAATATATATAAATGTTGAGGG
4492275 CTAAATTTGT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 41 1.00
ACGTcount: A:0.37, C:0.03, G:0.18, T:0.41
Consensus pattern (51 bp):
ATTTTTTAAAATTAGGACCAAATTGAGAATATATATAAATGTTGAGGGTTA
Found at i:4497859 original size:3 final size:3
Alignment explanation
Indices: 4497851--4497882 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
4497841 ATAGTCCTTG
*
4497851 TTA TTA TTA TTA TTA ATA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
4497883 GTTAATGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:4508800 original size:24 final size:22
Alignment explanation
Indices: 4508773--4508821 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
4508763 ACACATATAG
4508773 TTAGCCAACTATAAAAAAAAAAAT
1 TTAGCC-ACT-TAAAAAAAAAAAT
* *
4508797 TTAGGCACTTAAAATAAAAAAT
1 TTAGCCACTTAAAAAAAAAAAT
4508819 TTA
1 TTA
4508822 CAATTTAAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 15 0.65
23 3 0.13
24 5 0.22
ACGTcount: A:0.57, C:0.10, G:0.06, T:0.27
Consensus pattern (22 bp):
TTAGCCACTTAAAAAAAAAAAT
Found at i:4515740 original size:18 final size:19
Alignment explanation
Indices: 4515713--4515757 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
4515703 AGCAATTATT
4515713 TTTTTAATATTTAAAAATA
1 TTTTTAATATTTAAAAATA
* *
4515732 TTTTT-ATATTTTATAATA
1 TTTTTAATATTTAAAAATA
4515750 -TTTTAATA
1 TTTTTAATA
4515758 ATTTTTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 4 0.17
18 14 0.61
19 5 0.22
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTTTAATATTTAAAAATA
Found at i:4515743 original size:27 final size:27
Alignment explanation
Indices: 4515708--4515767 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 27
4515698 ACGTTAGCAA
*
4515708 TTAT-TTTTTTAATATTTAAAAATATTT
1 TTATATTTTATAATATTTAAAAA-ATTT
* *
4515735 TTATATTTTATAATATTTTAATAATTT
1 TTATATTTTATAATATTTAAAAAATTT
4515762 TTATAT
1 TTATAT
4515768 AGTTTTTGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 14 0.48
28 15 0.52
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (27 bp):
TTATATTTTATAATATTTAAAAAATTT
Found at i:4515750 original size:10 final size:10
Alignment explanation
Indices: 4515712--4515766 Score: 53
Period size: 10 Copynumber: 5.7 Consensus size: 10
4515702 TAGCAATTAT
*
4515712 TTTTTTAATA
1 TTTTATAATA
* *
4515722 TTTAAAAATA
1 TTTTATAATA
4515732 TTTT-T-ATA
1 TTTTATAATA
4515740 TTTTATAATA
1 TTTTATAATA
4515750 TTTTAATAAT-
1 TTTT-ATAATA
4515760 TTTTATA
1 TTTTATA
4515767 TAGTTTTTGA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
8 7 0.19
9 4 0.11
10 21 0.57
11 5 0.14
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TTTTATAATA
Found at i:4518206 original size:7 final size:7
Alignment explanation
Indices: 4518170--4518240 Score: 51
Period size: 7 Copynumber: 10.4 Consensus size: 7
4518160 TTTGAAATTT
*
4518170 ATTTTTT
1 ATTTTTA
4518177 ATTTTT-
1 ATTTTTA
4518183 ATTTTT-
1 ATTTTTA
*
4518189 ATTTTAAA
1 ATTTT-TA
4518197 ATTTTTA
1 ATTTTTA
4518204 ATTTTT-
1 ATTTTTA
*
4518210 ATATTTCA
1 AT-TTTTA
*
4518218 AATTTTA
1 ATTTTTA
*
4518225 AATTTTA
1 ATTTTTA
4518232 A-TTTTA
1 ATTTTTA
4518238 ATT
1 ATT
4518241 ATTACTATTG
Statistics
Matches: 54, Mismatches: 5, Indels: 10
0.78 0.07 0.14
Matches are distributed among these distances:
6 19 0.35
7 29 0.54
8 6 0.11
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (7 bp):
ATTTTTA
Found at i:4518220 original size:22 final size:21
Alignment explanation
Indices: 4518177--4518238 Score: 81
Period size: 22 Copynumber: 3.0 Consensus size: 21
4518167 TTTATTTTTT
4518177 ATTTTT-ATTTTTATTTTAAA
1 ATTTTTAATTTTTATTTTAAA
*
4518197 ATTTTTAATTTTTATATTTCAA
1 ATTTTTAATTTTTAT-TTTAAA
* *
4518219 ATTTTAAATTTTAATTTTAA
1 ATTTTTAATTTTTATTTTAA
4518239 TTATTACTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
20 6 0.17
21 12 0.33
22 18 0.50
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.65
Consensus pattern (21 bp):
ATTTTTAATTTTTATTTTAAA
Found at i:4521796 original size:24 final size:24
Alignment explanation
Indices: 4521768--4521815 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
4521758 TAAATATACA
*
4521768 TATATAGAAA-AAAACTGTAAGTAT
1 TATATA-AAATAAAAATGTAAGTAT
4521792 TATATAAAATAAAAATGTAAGTAT
1 TATATAAAATAAAAATGTAAGTAT
4521816 GTGCATATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 3 0.14
24 19 0.86
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.31
Consensus pattern (24 bp):
TATATAAAATAAAAATGTAAGTAT
Found at i:4522050 original size:24 final size:24
Alignment explanation
Indices: 4521985--4522052 Score: 66
Period size: 26 Copynumber: 2.8 Consensus size: 24
4521975 AAAAATGTGT
* * *
4521985 ATATACATGTATATATAAAAAAAC
1 ATATAGATGTAGATATATAAAAAC
*
4522009 ATATAGATTGTAGCATATATAAAAAT
1 ATATAGA-TGTAG-ATATATAAAAAC
4522035 ATA-AGTATGTAGATATAT
1 ATATAG-ATGTAGATATAT
4522053 TGATTAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
24 12 0.32
25 11 0.30
26 14 0.38
ACGTcount: A:0.51, C:0.04, G:0.10, T:0.34
Consensus pattern (24 bp):
ATATAGATGTAGATATATAAAAAC
Found at i:4522952 original size:13 final size:13
Alignment explanation
Indices: 4522921--4522964 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
4522911 AAATGAACCG
4522921 AAAAAGAAGAAAAA
1 AAAAAGAA-AAAAA
* *
4522935 TAAAATAAAAAAA
1 AAAAAGAAAAAAA
4522948 AAAAAGAAAAAAGA
1 AAAAAGAAAAAA-A
4522962 AAA
1 AAA
4522965 CTGCAAACAG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
13 15 0.60
14 10 0.40
ACGTcount: A:0.86, C:0.00, G:0.09, T:0.05
Consensus pattern (13 bp):
AAAAAGAAAAAAA
Found at i:4524113 original size:44 final size:45
Alignment explanation
Indices: 4523925--4524692 Score: 622
Period size: 44 Copynumber: 17.4 Consensus size: 45
4523915 GGGAGGTAAA
* * * * * * *
4523925 ATCTGCCATCATCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAG
1 ATCTGCTATCTTCGATCTACTTCACTACC-AATATAGGAAGACAAG
* * * * * *
4523971 ATCTGCAATCCTCAATCTA-TTCCACTGTCAAATACAGG--GACAAG
1 ATCTGCTATCTTCGATCTACTT-CACT-ACCAATATAGGAAGACAAG
* * * *
4524015 ATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
* * * * *
4524060 ATCTG-TATCTTGGATCCACTTC-CTATCAATATAGGAAGATAGG
1 ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
* * * * *
4524103 ACCTGCTATCTTCGATCTACTTCAC-GCCAATACATGAAGATAAG
1 ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
* * * *
4524147 ATCTGCTTTCTGT-GATCTACTTCGCCACCAATATGGGAAGACAAG
1 ATCTGCTATCT-TCGATCTACTTCACTACCAATATAGGAAGACAAG
* * *
4524192 ATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAGATAGG
1 ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
* * * *
4524235 ATCTGCTACCTTCGATCTACTTCAC-GCCAATACATGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
* * * * *
4524279 ATTTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
* * *
4524324 ATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAGATAGG
1 ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
* * * *
4524367 ACCTGCTATCTTCGATCTACTTCAC-GCCAATACATGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
* * * *
4524411 ATTTGCCT-TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAG
1 ATCTG-CTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
* ** * *
4524456 ATCTGC-ATCTTCGATCCACTT-TTTACCAATATAGGAAGATAGG
1 ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
* * * *
4524499 ACCTGCTATCTTCGATCTACTTCAC-GCCAATACATGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
* * * * * * *
4524543 ATCTGTTTTCTGCGATCTACTTCGCCACCAGTATGGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
* * * * *
4524588 ATCTGC-GTCTTCGATCCACTTC-CTACTAATATAGGAAGATAGG
1 ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
* * * *
4524631 ACCTGCTATCTTCGATCTACTTCAC-GCCAATACATGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
* *
4524675 ATCTGCTTTCTGCGATCT
1 ATCTGCTATCTTCGATCT
4524693 CAATCCATCC
Statistics
Matches: 565, Mismatches: 134, Indels: 48
0.76 0.18 0.06
Matches are distributed among these distances:
43 112 0.20
44 326 0.58
45 100 0.18
46 26 0.05
47 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (45 bp):
ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
Found at i:4524202 original size:132 final size:132
Alignment explanation
Indices: 4524009--4524692 Score: 1181
Period size: 132 Copynumber: 5.2 Consensus size: 132
4523999 CAAATACAGG
* * * *
4524009 GACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGTATCTTGGA
1 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
*
4524074 TCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATG
4524139 AA
131 AA
*
4524141 GATAAGATCTGCTTTCTGT-GATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCG
1 GACAAGATCTGCTTTCT-TCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCG
* *
4524205 ATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACAT
65 ATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACAT
4524270 GAA
130 GAA
*
4524273 GACAAGATTTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
1 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
4524338 TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATG
4524403 AA
131 AA
* *
4524405 GACAAGATTTGCCTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
1 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
**
4524470 TCCACTTTTTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATG
4524535 AA
131 AA
* * * *
4524537 GACAAGATCTGTTTTCTGCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCGTCTTCGA
1 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
*
4524602 TCCACTTCCTACTAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATG
4524667 AA
131 AA
*
4524669 GACAAGATCTGCTTTCTGCGATCT
1 GACAAGATCTGCTTTCTTCGATCT
4524693 CAATCCATCC
Statistics
Matches: 525, Mismatches: 25, Indels: 4
0.95 0.05 0.01
Matches are distributed among these distances:
131 1 0.00
132 523 1.00
133 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (132 bp):
GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATG
AA
Found at i:4536500 original size:24 final size:24
Alignment explanation
Indices: 4536472--4536519 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
4536462 TAAATATACA
*
4536472 TATATAGAAA-AAAACTGTAAGTAT
1 TATATA-AAATAAAAATGTAAGTAT
4536496 TATATAAAATAAAAATGTAAGTAT
1 TATATAAAATAAAAATGTAAGTAT
4536520 GTGCATATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 3 0.14
24 19 0.86
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.31
Consensus pattern (24 bp):
TATATAAAATAAAAATGTAAGTAT
Found at i:4536756 original size:25 final size:25
Alignment explanation
Indices: 4536689--4536758 Score: 70
Period size: 27 Copynumber: 2.7 Consensus size: 25
4536679 AAAAATGTGT
* * *
4536689 ATATACATGTATATATAAAAAAAAC
1 ATATAGATGTAGATATATAAAAAAC
*
4536714 ATATAGATTGTAGCATATATAAAAAAT
1 ATATAGA-TGTAG-ATATATAAAAAAC
4536741 ATA-AGTATGTAGATATAT
1 ATATAG-ATGTAGATATAT
4536759 TGATTAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
25 12 0.32
26 11 0.29
27 15 0.39
ACGTcount: A:0.53, C:0.04, G:0.10, T:0.33
Consensus pattern (25 bp):
ATATAGATGTAGATATATAAAAAAC
Found at i:4539788 original size:10 final size:10
Alignment explanation
Indices: 4539764--4539826 Score: 60
Period size: 10 Copynumber: 6.6 Consensus size: 10
4539754 ACCAGAAAAG
4539764 TATAAA-AAT
1 TATAAATAAT
*
4539773 TGTAAATAAT
1 TATAAATAAT
* *
4539783 TATAAAGAAA
1 TATAAATAAT
4539793 T-TAAA-AAT
1 TATAAATAAT
*
4539801 GATAAATAAT
1 TATAAATAAT
*
4539811 TGTAAATAAT
1 TATAAATAAT
4539821 TATAAA
1 TATAAA
4539827 AAAGATAAAA
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
8 2 0.05
9 13 0.31
10 27 0.64
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.33
Consensus pattern (10 bp):
TATAAATAAT
Found at i:4539836 original size:38 final size:37
Alignment explanation
Indices: 4539765--4539838 Score: 114
Period size: 38 Copynumber: 2.0 Consensus size: 37
4539755 CCAGAAAAGT
*
4539765 ATAAAAATTGTAAATAATTATAAAGAAATTAAAAATG
1 ATAAAAATTGTAAATAATTATAAAGAAAATAAAAATG
4539802 ATAAATAATTGTAAATAATTATAAA-AAAGATAAAAAT
1 ATAAA-AATTGTAAATAATTATAAAGAAA-ATAAAAAT
4539839 TACAAAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
37 8 0.24
38 26 0.76
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.30
Consensus pattern (37 bp):
ATAAAAATTGTAAATAATTATAAAGAAAATAAAAATG
Found at i:4539874 original size:24 final size:24
Alignment explanation
Indices: 4539826--4539892 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 24
4539816 ATAATTATAA
* *
4539826 AAAAGATAAAAAT-TACAAAA-A-
1 AAAATATAGAAATATACAAAATAG
* *
4539847 AAATTATAGAAA-ATAGAAAATAG
1 AAAATATAGAAATATACAAAATAG
*
4539870 AAAATATGGAAATATACAAAATA
1 AAAATATAGAAATATACAAAATA
4539893 TATAAAATTT
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
21 15 0.43
22 1 0.03
23 10 0.29
24 9 0.26
ACGTcount: A:0.69, C:0.03, G:0.09, T:0.19
Consensus pattern (24 bp):
AAAATATAGAAATATACAAAATAG
Found at i:4540315 original size:7 final size:7
Alignment explanation
Indices: 4540303--4540329 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
4540293 AACTCGGTTA
4540303 TTTTTAT
1 TTTTTAT
4540310 TTTTTAT
1 TTTTTAT
4540317 TTTTTAT
1 TTTTTAT
4540324 TTTTTA
1 TTTTTA
4540330 CATAAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTAT
Found at i:4546679 original size:18 final size:18
Alignment explanation
Indices: 4546656--4546748 Score: 96
Period size: 18 Copynumber: 5.2 Consensus size: 18
4546646 CCCAACTACT
*
4546656 GTATACGTAAACAGTACC
1 GTATACGTAAATAGTACC
* *
4546674 GTATACGTGAATAGTGCC
1 GTATACGTAAATAGTACC
* *
4546692 GTATATGTAAATAGTACT
1 GTATACGTAAATAGTACC
* **
4546710 GTATACGTGAATAGTGTC
1 GTATACGTAAATAGTACC
* *
4546728 GTATACGTGAATAGTATC
1 GTATACGTAAATAGTACC
4546746 GTA
1 GTA
4546749 AACGGTCGTA
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 62 1.00
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.31
Consensus pattern (18 bp):
GTATACGTAAATAGTACC
Found at i:4546708 original size:36 final size:36
Alignment explanation
Indices: 4546656--4546748 Score: 132
Period size: 36 Copynumber: 2.6 Consensus size: 36
4546646 CCCAACTACT
*
4546656 GTATACGTAAACAGTACCGTATACGTGAATAGTGCC
1 GTATACGTAAATAGTACCGTATACGTGAATAGTGCC
* * *
4546692 GTATATGTAAATAGTACTGTATACGTGAATAGTGTC
1 GTATACGTAAATAGTACCGTATACGTGAATAGTGCC
* *
4546728 GTATACGTGAATAGTATCGTA
1 GTATACGTAAATAGTACCGTA
4546749 AACGGTCGTA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 49 1.00
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.31
Consensus pattern (36 bp):
GTATACGTAAATAGTACCGTATACGTGAATAGTGCC
Found at i:4548888 original size:5 final size:5
Alignment explanation
Indices: 4548878--4548905 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
4548868 ATCAACCTGC
4548878 AAGAG AAGAG AAGAG AAGAG AAGAG AAG
1 AAGAG AAGAG AAGAG AAGAG AAGAG AAG
4548906 GATATATTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (5 bp):
AAGAG
Found at i:4551351 original size:179 final size:179
Alignment explanation
Indices: 4551040--4551396 Score: 606
Period size: 179 Copynumber: 2.0 Consensus size: 179
4551030 AAGCATCAAT
**
4551040 CATTAGCTTTGCATCTTCAAAACCTTTTACCTAAAGGAAGATTTAAATGCACAAGGACATAAACT
1 CATTAGCTTTGCATCTTCAAAACCTTTTACCTAAAGGAAGAACTAAATGCACAAGGACATAAACT
4551105 TCAAAAGAGATTCATCATTAAACATTAAATGCTTCCCTAGATAATGGTGTAGAAATACAGAATGA
66 TCAAAAGAGATTCATCATTAAACATTAAATGCTTCCCTAGATAATGGTGTAGAAATACAGAATGA
*
4551170 ACGGAACAAATTCAAAATCAAACCTATATCTATAATGAAGAGACTAAAA
131 ACGGAACAAATTCAAAATCAAACCTATACCTATAATGAAGAGACTAAAA
*
4551219 CATTAGCTTTGCATCTTCAAAACCTTTTTCCTAAAGGAAGAACTAAATGCACAAGGACATAAACT
1 CATTAGCTTTGCATCTTCAAAACCTTTTACCTAAAGGAAGAACTAAATGCACAAGGACATAAACT
* * * * * *
4551284 TCAAAAGAGGTTCATCATTAAACATTAGATTCTTCCCTAGGTAATGGTGTAGAAATGCAGGATGA
66 TCAAAAGAGATTCATCATTAAACATTAAATGCTTCCCTAGATAATGGTGTAGAAATACAGAATGA
* *
4551349 ACGGCACAAATTCAAAATCAAACCTATACCTATTATGAAGAGACTAAA
131 ACGGAACAAATTCAAAATCAAACCTATACCTATAATGAAGAGACTAAA
4551397 GCCAGTGTAG
Statistics
Matches: 166, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
179 166 1.00
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (179 bp):
CATTAGCTTTGCATCTTCAAAACCTTTTACCTAAAGGAAGAACTAAATGCACAAGGACATAAACT
TCAAAAGAGATTCATCATTAAACATTAAATGCTTCCCTAGATAATGGTGTAGAAATACAGAATGA
ACGGAACAAATTCAAAATCAAACCTATACCTATAATGAAGAGACTAAAA
Found at i:4552484 original size:18 final size:18
Alignment explanation
Indices: 4552461--4552505 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
4552451 GAAATTAGCG
4552461 GATGATCA-AAACAATGGT
1 GATGATCATAAAC-ATGGT
* *
4552479 GATGATCATCATCATGGT
1 GATGATCATAAACATGGT
4552497 GATGATCAT
1 GATGATCAT
4552506 CATGGAACAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 22 0.92
19 2 0.08
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.29
Consensus pattern (18 bp):
GATGATCATAAACATGGT
Found at i:4552499 original size:15 final size:15
Alignment explanation
Indices: 4552481--4552510 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4552471 ACAATGGTGA
4552481 TGATCATCATCATGG
1 TGATCATCATCATGG
*
4552496 TGATGATCATCATGG
1 TGATCATCATCATGG
4552511 AACAGAGATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (15 bp):
TGATCATCATCATGG
Found at i:4552506 original size:18 final size:18
Alignment explanation
Indices: 4552474--4552508 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
4552464 GATCAAAACA
4552474 ATGGTGATGATCATCATC
1 ATGGTGATGATCATCATC
4552492 ATGGTGATGATCATCAT
1 ATGGTGATGATCATCAT
4552509 GGAACAGAGA
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:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (18 bp):
ATGGTGATGATCATCATC
Found at i:4553866 original size:18 final size:18
Alignment explanation
Indices: 4553843--4553879 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
4553833 CATAAAGTTG
4553843 GCCATTATACATTAAACA
1 GCCATTATACATTAAACA
4553861 GCCATTATACATTAAACA
1 GCCATTATACATTAAACA
4553879 G
1 G
4553880 TTTCCATCGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.43, C:0.22, G:0.08, T:0.27
Consensus pattern (18 bp):
GCCATTATACATTAAACA
Found at i:4555402 original size:84 final size:84
Alignment explanation
Indices: 4555261--4555428 Score: 205
Period size: 84 Copynumber: 2.0 Consensus size: 84
4555251 ATGTACCGTA
* * * * *
4555261 TGAATCTTTCCCGTTAAAATGCCAGAAATCATGGGTAGGGAGAGGAGGAGGATAAGAAGGTAATG
1 TGAATCTTTCCCGTGAAAATGCCAGAAATCATGGGTAGCGACAGGAGAAGGATAAGAAGGGAATG
* *
4555326 TATGTATGTGTATATATAT
66 CACGTATGTGTATATATAT
* * *
4555345 TGAAT-TTCTCCCGTGAAAATGCCAGAAAAT-GTGGGTATCGACAGGAGAAGTATAAGAAGGGAA
1 TGAATCTT-TCCCGTGAAAATGCCAG-AAATCATGGGTAGCGACAGGAGAAGGATAAGAAGGGAA
*
4555408 TGCACGTGTGTGTATATATAT
64 TGCACGTATGTGTATATATAT
4555429 ATATAATTTG
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
83 2 0.03
84 65 0.92
85 4 0.06
ACGTcount: A:0.35, C:0.10, G:0.28, T:0.27
Consensus pattern (84 bp):
TGAATCTTTCCCGTGAAAATGCCAGAAATCATGGGTAGCGACAGGAGAAGGATAAGAAGGGAATG
CACGTATGTGTATATATAT
Found at i:4556446 original size:14 final size:14
Alignment explanation
Indices: 4556427--4556455 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
4556417 AACTTTAAAT
4556427 AAAAAATTTCAAAC
1 AAAAAATTTCAAAC
4556441 AAAAAATTTCAAAC
1 AAAAAATTTCAAAC
4556455 A
1 A
4556456 GTTCAATAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.14, G:0.00, T:0.21
Consensus pattern (14 bp):
AAAAAATTTCAAAC
Found at i:4562951 original size:23 final size:22
Alignment explanation
Indices: 4562912--4562955 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
4562902 TTAAAAAACT
**
4562912 TTATATAT-TTTATTTTTTAAA
1 TTATATATATTTAAATTTTAAA
4562933 TTATATATATTTAAATTTTAAA
1 TTATATATATTTAAATTTTAAA
4562955 T
1 T
4562956 GATGGTATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
TTATATATATTTAAATTTTAAA
Found at i:4563199 original size:17 final size:19
Alignment explanation
Indices: 4563179--4563222 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
4563169 ATTAAAAATT
4563179 ATAAAAAAT-TAAA-ATCA
1 ATAAAAAATATAAATATCA
*
4563196 ATAAAAACTATAAATATCA
1 ATAAAAAATATAAATATCA
*
4563215 TTAAAAAA
1 ATAAAAAA
4563223 ATTACTAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 8 0.36
18 4 0.18
19 10 0.45
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.25
Consensus pattern (19 bp):
ATAAAAAATATAAATATCA
Found at i:4564429 original size:9 final size:9
Alignment explanation
Indices: 4564417--4564447 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
4564407 ACTTTTAAAC
*
4564417 ATTTTTAAT
1 ATTTTTATT
4564426 ATTTTTATT
1 ATTTTTATT
4564435 ATTTTTATT
1 ATTTTTATT
4564444 ATTT
1 ATTT
4564448 GGAAGAGGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (9 bp):
ATTTTTATT
Found at i:4575830 original size:39 final size:39
Alignment explanation
Indices: 4575748--4575960 Score: 200
Period size: 45 Copynumber: 5.2 Consensus size: 39
4575738 ATTTGCCGGC
* * * *
4575748 TTACTGATTAGGCAC-TTATGTGCCGACTACTGTTACTG
1 TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTG
4575786 TTACTGATTCGGCACTTTGTGTGTCGAAAACTGTTACTGTTACTG
1 TTACTGATTCGGCACTTTGTGTGTCG--AA----TACTGTTACTG
* *
4575831 TTACCGACTCGGCAC-TT-TGTGTCGAATACTGTTACTG
1 TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTG
*
4575868 TTA-TCGATTCGGCACTTTGTGTGTCGAATACTGTTACCG
1 TTACT-GATTCGGCACTTTGTGTGTCGAATACTGTTACTG
* *
4575907 TTACTGTTACAGGTTCAGCACTTTGTGTGTTGAATACTGTTACTG
1 TTACTG----A--TTCGGCACTTTGTGTGTCGAATACTGTTACTG
4575952 TTACTGATT
1 TTACTGATT
4575961 ACTGTATACT
Statistics
Matches: 146, Mismatches: 12, Indels: 33
0.76 0.06 0.17
Matches are distributed among these distances:
37 23 0.16
38 16 0.11
39 33 0.23
40 1 0.01
41 4 0.03
43 8 0.05
44 2 0.01
45 59 0.40
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.39
Consensus pattern (39 bp):
TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTG
Found at i:4575843 original size:45 final size:45
Alignment explanation
Indices: 4575775--4575962 Score: 221
Period size: 45 Copynumber: 4.3 Consensus size: 45
4575765 ATGTGCCGAC
*
4575775 TACTGTTACTGTTACTGATTCGGCACTTTGTGTGTCGAAAACTGT
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAAAACTGT
*
4575820 TACTGTTACTGTTACCGACTCGGCAC-TT-TGTGTCG--AA----
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAAAACTGT
* *
4575857 TACTGTTACTGTTATCGATTCGGCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAAAACTGT
* * * * * *
4575902 TACCGTTACTGTTACAGGTTCAGCACTTTGTGTGTTGAATACTGT
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAAAACTGT
4575947 TACTGTTACTGATTAC
1 TACTGTTACTG-TTAC
4575963 TGTATACTGG
Statistics
Matches: 122, Mismatches: 12, Indels: 17
0.81 0.08 0.11
Matches are distributed among these distances:
37 24 0.20
38 2 0.02
39 7 0.06
41 3 0.02
43 7 0.06
44 2 0.02
45 73 0.60
46 4 0.03
ACGTcount: A:0.20, C:0.19, G:0.21, T:0.40
Consensus pattern (45 bp):
TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAAAACTGT
Found at i:4575912 original size:82 final size:83
Alignment explanation
Indices: 4575758--4575960 Score: 284
Period size: 82 Copynumber: 2.4 Consensus size: 83
4575748 TTACTGATTA
* *
4575758 GGCACTTATGTGCCGACTACTGTTACTGTTACTGATTCGGCACTTTGTGTGTCGAAAACTGTTAC
1 GGCACTTATGTGTCGAATACTGTTACTGTTACTGATTCGGCACTTTGTGTGTCGAAAACTGTTAC
* *
4575823 TGTTACTGTTACCGACTC
66 CGTTACTGTTACAGACTC
*
4575841 GGCACTT-TGTGTCGAATACTGTTACTGTTA-TCGATTCGGCACTTTGTGTGTCGAATACTGTTA
1 GGCACTTATGTGTCGAATACTGTTACTGTTACT-GATTCGGCACTTTGTGTGTCGAAAACTGTTA
**
4575904 CCGTTACTGTTACAGGTTC
65 CCGTTACTGTTACAGACTC
* * *
4575923 AGCACTTTGTGTGTTGAATACTGTTACTGTTACTGATT
1 GGCAC-TTATGTGTCGAATACTGTTACTGTTACTGATT
4575961 ACTGTATACT
Statistics
Matches: 107, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
81 1 0.01
82 70 0.65
83 9 0.08
84 26 0.24
85 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (83 bp):
GGCACTTATGTGTCGAATACTGTTACTGTTACTGATTCGGCACTTTGTGTGTCGAAAACTGTTAC
CGTTACTGTTACAGACTC
Found at i:4577457 original size:21 final size:21
Alignment explanation
Indices: 4577433--4577480 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 21
4577423 GCCCGGCCCG
*
4577433 TTTTCTAAACGGGCTTCATTT
1 TTTTCAAAACGGGCTTCATTT
4577454 TTTTGCAAAACGGGCTTCATTT
1 TTTT-CAAAACGGGCTTCATTT
4577476 TTTTC
1 TTTTC
4577481 CCAAACCTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 5 0.20
22 20 0.80
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.48
Consensus pattern (21 bp):
TTTTCAAAACGGGCTTCATTT
Found at i:4577486 original size:22 final size:22
Alignment explanation
Indices: 4577439--4577486 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
4577429 CCCGTTTTCT
*
4577439 AAACGGGCTTCATTTTTTTGCA
1 AAACGGGCTTCATTTTTTTCCA
*
4577461 AAACGGGCTTCATTTTTTTCCC
1 AAACGGGCTTCATTTTTTTCCA
4577483 AAAC
1 AAAC
4577487 CTATATTTCG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.38
Consensus pattern (22 bp):
AAACGGGCTTCATTTTTTTCCA
Found at i:4578558 original size:33 final size:33
Alignment explanation
Indices: 4578516--4578586 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
4578506 GTGGCATAAG
*
4578516 GCCCACCTTACCATGAAAACCCCAACATCATGC
1 GCCCACCTTACCATGAAAAACCCAACATCATGC
*
4578549 GCCCACCTTACCATGAAAAACCCAATATCATGC
1 GCCCACCTTACCATGAAAAACCCAACATCATGC
*
4578582 ACCCA
1 GCCCA
4578587 ACACCACAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.35, C:0.41, G:0.08, T:0.15
Consensus pattern (33 bp):
GCCCACCTTACCATGAAAAACCCAACATCATGC
Found at i:4578937 original size:15 final size:15
Alignment explanation
Indices: 4578896--4578937 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
4578886 GAGAGTAATG
4578896 GGAA-AAGAAGA-AGA
1 GGAAGAAGAAGAGA-A
4578910 GGAAGAAGAAGAGAA
1 GGAAGAAGAAGAGAA
*
4578925 GGAAGAGGAAGAG
1 GGAAGAAGAAGAG
4578938 CCTATACTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 4 0.16
15 20 0.80
16 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.43, T:0.00
Consensus pattern (15 bp):
GGAAGAAGAAGAGAA
Found at i:4583955 original size:17 final size:17
Alignment explanation
Indices: 4583933--4583966 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
4583923 ATTGTTGTCC
4583933 CTTATCGAATTTTTTAA
1 CTTATCGAATTTTTTAA
4583950 CTTATCGAATTTTTTAA
1 CTTATCGAATTTTTTAA
4583967 GTGCCTGTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.53
Consensus pattern (17 bp):
CTTATCGAATTTTTTAA
Found at i:4585749 original size:14 final size:15
Alignment explanation
Indices: 4585732--4585764 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
4585722 GTTGAAATAA
4585732 ATTTTTT-TAAATTT
1 ATTTTTTATAAATTT
*
4585746 ATTTTTTATGAATTT
1 ATTTTTTATAAATTT
4585761 ATTT
1 ATTT
4585765 AATTGAACCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (15 bp):
ATTTTTTATAAATTT
Found at i:4588587 original size:3 final size:3
Alignment explanation
Indices: 4588579--4588607 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
4588569 ATATTTGACC
4588579 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
4588608 TTTTGATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:4601263 original size:63 final size:67
Alignment explanation
Indices: 4601125--4601265 Score: 150
Period size: 69 Copynumber: 2.1 Consensus size: 67
4601115 GAAATATCAA
* * * *
4601125 AATT-TTTGTATTTAAGATTTCTGTTTCGAGTTCGATTTTTAAATAAATTTTTATTTGTTACCCG
1 AATTATTTATATTTAAGATTTCTGTCTCGAGTTCAATTTTTAAATAAATTTTTA-TTGTT--CCA
*
4601189 TTATC
63 TAATC
*
4601194 AA-TATTTATATTTAAGATTTCTGTCTCGAGTTTAATTTTTAAAT-AATTTTTA-T-TT-CATAA
1 AATTATTTATATTTAAGATTTCTGTCTCGAGTTCAATTTTTAAATAAATTTTTATTGTTCCATAA
*
4601254 TG
66 TC
4601256 AATTATTTAT
1 AATTATTTAT
4601266 TGTTATATTA
Statistics
Matches: 63, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
62 6 0.10
63 7 0.11
65 2 0.03
66 1 0.02
68 9 0.14
69 38 0.60
ACGTcount: A:0.29, C:0.08, G:0.09, T:0.54
Consensus pattern (67 bp):
AATTATTTATATTTAAGATTTCTGTCTCGAGTTCAATTTTTAAATAAATTTTTATTGTTCCATAA
TC
Found at i:4601782 original size:31 final size:31
Alignment explanation
Indices: 4601724--4601788 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
4601714 ATAAAAATTC
** *
4601724 AATGACTTAAATAAAAACTTTTGAATAGTTT
1 AATGACTTAAATAAAAACTTTCAAATAGCTT
*
4601755 AATGACTTAAATGAAAACTTTCAAATAGCTT
1 AATGACTTAAATAAAAACTTTCAAATAGCTT
4601786 AAT
1 AAT
4601789 AACCATTTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.46, C:0.09, G:0.09, T:0.35
Consensus pattern (31 bp):
AATGACTTAAATAAAAACTTTCAAATAGCTT
Found at i:4602051 original size:11 final size:11
Alignment explanation
Indices: 4602035--4602088 Score: 53
Period size: 10 Copynumber: 5.2 Consensus size: 11
4602025 CACTCTTAAC
4602035 AAAAATTTCAA
1 AAAAATTTCAA
4602046 AAAAA-TTCAA
1 AAAAATTTCAA
*
4602056 AATAATTT--A
1 AAAAATTTCAA
4602065 AAAAA-TTCAA
1 AAAAATTTCAA
*
4602075 AATAAATTTTAA
1 AA-AAATTTCAA
4602087 AA
1 AA
4602089 TTCAAAATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
8 2 0.06
9 5 0.14
10 12 0.34
11 10 0.29
12 6 0.17
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.30
Consensus pattern (11 bp):
AAAAATTTCAA
Found at i:4602063 original size:21 final size:21
Alignment explanation
Indices: 4602037--4602099 Score: 80
Period size: 19 Copynumber: 3.1 Consensus size: 21
4602027 CTCTTAACAA
4602037 AAATTTCAAAAAAATTCAAAAT
1 AAATTT-AAAAAAATTCAAAAT
4602059 -AATTT-AAAAAATTCAAAAT
1 AAATTTAAAAAAATTCAAAAT
*
4602078 AAATTT--TAAAATTCAAAAT
1 AAATTTAAAAAAATTCAAAAT
4602097 AAA
1 AAA
4602100 AATTTCAAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
19 29 0.74
20 5 0.13
21 5 0.13
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.30
Consensus pattern (21 bp):
AAATTTAAAAAAATTCAAAAT
Found at i:4602099 original size:19 final size:20
Alignment explanation
Indices: 4602045--4602099 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 20
4602035 AAAAATTTCA
4602045 AAAAAATTCAAAAT-AATTT
1 AAAAAATTCAAAATAAATTT
4602064 AAAAAATTCAAAATAAATTT
1 AAAAAATTCAAAATAAATTT
*
4602084 -TAAAATTCAAAATAAA
1 AAAAAATTCAAAATAAA
4602100 AATTTCAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
19 29 0.85
20 5 0.15
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAAAATTCAAAATAAATTT
Found at i:4607707 original size:23 final size:22
Alignment explanation
Indices: 4607673--4607719 Score: 53
Period size: 22 Copynumber: 2.1 Consensus size: 22
4607663 TGTTAAAAAG
4607673 TTGTTATTTAATTAATGTT-AATT
1 TTGTTATTTAA-TAA-GTTGAATT
4607696 TTGTT-TTGTAATAAGTTGAATT
1 TTGTTATT-TAATAAGTTGAATT
4607718 TT
1 TT
4607720 AATTGAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
21 3 0.14
22 11 0.50
23 8 0.36
ACGTcount: A:0.28, C:0.00, G:0.13, T:0.60
Consensus pattern (22 bp):
TTGTTATTTAATAAGTTGAATT
Found at i:4612652 original size:26 final size:28
Alignment explanation
Indices: 4612618--4612676 Score: 77
Period size: 26 Copynumber: 2.2 Consensus size: 28
4612608 GGCCCAACCC
* *
4612618 ATATTAAATATATATAT-ATTTAATAT-
1 ATATAAAATATATATATGATTTAAAATA
*
4612644 ATATAAAATATATATTTGATTTAAAATA
1 ATATAAAATATATATATGATTTAAAATA
4612672 ATATA
1 ATATA
4612677 TATTTGATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 15 0.54
27 8 0.29
28 5 0.18
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (28 bp):
ATATAAAATATATATATGATTTAAAATA
Found at i:4612668 original size:18 final size:18
Alignment explanation
Indices: 4612647--4612697 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 18
4612637 TTAATATATA
4612647 TAAAATATATATTTGATT
1 TAAAATATATATTTGATT
4612665 TAAAATAATATATATTTGATT
1 T--AA-AATATATATTTGATT
* *
4612686 AAAAATAAATAT
1 TAAAATATATAT
4612698 ATATATTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
18 9 0.32
19 2 0.07
20 2 0.07
21 15 0.54
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (18 bp):
TAAAATATATATTTGATT
Found at i:4615283 original size:2 final size:2
Alignment explanation
Indices: 4615276--4615311 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
4615266 ACATGCCATT
4615276 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
4615312 ACACACACAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:4615316 original size:2 final size:2
Alignment explanation
Indices: 4615311--4615336 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4615301 CTCTCTCTCT
4615311 CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
4615337 TCCCCTTCCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:4622439 original size:31 final size:31
Alignment explanation
Indices: 4622398--4622458 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
4622388 GAAATAATTA
* * *
4622398 CTAAATTATTCACAAGTTTTCATTTAAGTCG
1 CTAAACTATTCAAAAATTTTCATTTAAGTCG
*
4622429 CTAAACTATTCAAAAATTTTTATTTAAGTC
1 CTAAACTATTCAAAAATTTTCATTTAAGTC
4622459 ATTGAGCTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.36, C:0.15, G:0.07, T:0.43
Consensus pattern (31 bp):
CTAAACTATTCAAAAATTTTCATTTAAGTCG
Found at i:4627402 original size:18 final size:18
Alignment explanation
Indices: 4627379--4627425 Score: 94
Period size: 18 Copynumber: 2.6 Consensus size: 18
4627369 AAACTGAAAA
4627379 AATTCGGTTAACCAACCG
1 AATTCGGTTAACCAACCG
4627397 AATTCGGTTAACCAACCG
1 AATTCGGTTAACCAACCG
4627415 AATTCGGTTAA
1 AATTCGGTTAA
4627426 TCGGTCGGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (18 bp):
AATTCGGTTAACCAACCG
Found at i:4627781 original size:9 final size:9
Alignment explanation
Indices: 4627764--4627830 Score: 80
Period size: 9 Copynumber: 7.4 Consensus size: 9
4627754 TGTATGATTC
*
4627764 AATTAGGTT
1 AATTCGGTT
4627773 AATTCGGTT
1 AATTCGGTT
*
4627782 AATTCGGGT
1 AATTCGGTT
*
4627791 AATTCGGGT
1 AATTCGGTT
*
4627800 AATTCGATT
1 AATTCGGTT
*
4627809 AATTTGGTT
1 AATTCGGTT
*
4627818 AATTCGGCT
1 AATTCGGTT
4627827 AATT
1 AATT
4627831 TTTAACCAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 50 1.00
ACGTcount: A:0.27, C:0.09, G:0.22, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:4629774 original size:26 final size:26
Alignment explanation
Indices: 4629738--4629813 Score: 82
Period size: 27 Copynumber: 2.9 Consensus size: 26
4629728 AGCCCGGCCC
* * *
4629738 ATTTTTAAAATAAACATTAAAAAATT
1 ATTTTAAAAATAAAAATTAAAAAAGT
4629764 ATTTTAAAAATAAAAAAATT-AAAAAGT
1 ATTTTAAAAAT--AAAAATTAAAAAAGT
* *
4629791 ATTTTAAAATTAAAAAATAAAAA
1 ATTTTAAAAATAAAAATTAAAAA
4629814 TAAAAAATAT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
25 6 0.14
26 14 0.33
27 16 0.38
28 6 0.14
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (26 bp):
ATTTTAAAAATAAAAATTAAAAAAGT
Found at i:4632872 original size:11 final size:11
Alignment explanation
Indices: 4632856--4632880 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4632846 ATCTCTATAC
4632856 TTTAAAAATAA
1 TTTAAAAATAA
4632867 TTTAAAAATAA
1 TTTAAAAATAA
4632878 TTT
1 TTT
4632881 TTTTTGTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
TTTAAAAATAA
Found at i:4641738 original size:75 final size:75
Alignment explanation
Indices: 4641645--4641799 Score: 310
Period size: 75 Copynumber: 2.1 Consensus size: 75
4641635 AAGTGTTTTG
4641645 ACAACTCCGTCGAACATCTTAACTTTAATCATTCCAACACCTACAATTTTACACGAAGCATTATT
1 ACAACTCCGTCGAACATCTTAACTTTAATCATTCCAACACCTACAATTTTACACGAAGCATTATT
4641710 TCCCATCAAA
66 TCCCATCAAA
4641720 ACAACTCCGTCGAACATCTTAACTTTAATCATTCCAACACCTACAATTTTACACGAAGCATTATT
1 ACAACTCCGTCGAACATCTTAACTTTAATCATTCCAACACCTACAATTTTACACGAAGCATTATT
4641785 TCCCATCAAA
66 TCCCATCAAA
4641795 ACAAC
1 ACAAC
4641800 ACCTTCAGAC
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 80 1.00
ACGTcount: A:0.37, C:0.30, G:0.05, T:0.28
Consensus pattern (75 bp):
ACAACTCCGTCGAACATCTTAACTTTAATCATTCCAACACCTACAATTTTACACGAAGCATTATT
TCCCATCAAA
Found at i:4643077 original size:24 final size:24
Alignment explanation
Indices: 4643027--4643078 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
4643017 AATTAAAGTC
* **
4643027 AAATATATTATGCGAATAAATGTT
1 AAATATATTATACGAATAAATACT
**
4643051 AAATATATTATACTCATAAATACT
1 AAATATATTATACGAATAAATACT
4643075 AAAT
1 AAAT
4643079 CTTCTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.08, G:0.06, T:0.37
Consensus pattern (24 bp):
AAATATATTATACGAATAAATACT
Found at i:4644944 original size:28 final size:28
Alignment explanation
Indices: 4644890--4644944 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 28
4644880 AACATAAAAT
* *** *
4644890 AAAAAAATTTAACTATTTGTTTTATATA
1 AAAAAAATTCAACTATTCAATTAATATA
4644918 AAAAAAATTCAACTATTCAATTAATAT
1 AAAAAAATTCAACTATTCAATTAATAT
4644945 TAATATATAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.51, C:0.07, G:0.02, T:0.40
Consensus pattern (28 bp):
AAAAAAATTCAACTATTCAATTAATATA
Found at i:4645667 original size:13 final size:13
Alignment explanation
Indices: 4645605--4645667 Score: 54
Period size: 13 Copynumber: 4.8 Consensus size: 13
4645595 TTAGTATTGT
*
4645605 TTTTGAAAAGTGC
1 TTTTGAAAAGTAC
*
4645618 TTTTGAAAAGTGC
1 TTTTGAAAAGTAC
* * * *
4645631 TGTGGAAAAATAT
1 TTTTGAAAAGTAC
* *
4645644 TTTTTAGAAGTAC
1 TTTTGAAAAGTAC
4645657 TTTTGAAAAGT
1 TTTTGAAAAGT
4645668 TTGGTTTAAG
Statistics
Matches: 37, Mismatches: 13, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
13 37 1.00
ACGTcount: A:0.35, C:0.05, G:0.21, T:0.40
Consensus pattern (13 bp):
TTTTGAAAAGTAC
Found at i:4645959 original size:19 final size:20
Alignment explanation
Indices: 4645915--4645965 Score: 68
Period size: 19 Copynumber: 2.5 Consensus size: 20
4645905 ATAAATTTTA
*
4645915 ATTAGAATATATAAACTATAT
1 ATTA-AATATTTAAACTATAT
*
4645936 TTTAAATATTTAAA-TATAT
1 ATTAAATATTTAAACTATAT
4645955 ATTAAATATTT
1 ATTAAATATTT
4645966 GTAATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 15 0.56
20 9 0.33
21 3 0.11
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (20 bp):
ATTAAATATTTAAACTATAT
Found at i:4645977 original size:21 final size:21
Alignment explanation
Indices: 4645937--4645990 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
4645927 AAACTATATT
*
4645937 TTAAATA-TT-TAAATATATA
1 TTAAATATTTGTAAATAAATA
*
4645956 TTAAATATTTGTAATTAAATA
1 TTAAATATTTGTAAATAAATA
*
4645977 TTAACACATTTGTA
1 TTAA-ATATTTGTA
4645991 TTATTTAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 7 0.24
20 2 0.07
21 12 0.41
22 8 0.28
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (21 bp):
TTAAATATTTGTAAATAAATA
Found at i:4647998 original size:125 final size:125
Alignment explanation
Indices: 4647776--4648021 Score: 429
Period size: 125 Copynumber: 2.0 Consensus size: 125
4647766 GAGTTTTTAC
* *
4647776 TAGTTAAATACCGAATTCAGTCCGTAGTCCTAGTTATAACTAACTTGTCCAAATTTGATCTATCG
1 TAGTTAAATACCGAATTCAGTCCATAGTCCTAGCTATAACTAACTTGTCCAAATTTGATCTATCG
* *
4647841 TCGCAGCTATAACTGGCAAATGCTTAACCAAAGATAGATGTTTTTTCCCTGATTTGCCCG
66 TCGCAGCTATAACCGGCAAATGCTTAACCAAAGATAAATGTTTTTTCCCTGATTTGCCCG
* *
4647901 TAGTTAAATACTGGATTCAGTCCATAGTCCTAGCTATAACTAACTTGTCCAAATTTGATCTATCG
1 TAGTTAAATACCGAATTCAGTCCATAGTCCTAGCTATAACTAACTTGTCCAAATTTGATCTATCG
*
4647966 TTGCAGCTATAACCGGCAAATGCTTAACCAAAGATAAATGTTTTTTCCCTGATTTG
66 TCGCAGCTATAACCGGCAAATGCTTAACCAAAGATAAATGTTTTTTCCCTGATTTG
4648022 TCCCAAGTGT
Statistics
Matches: 114, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
125 114 1.00
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (125 bp):
TAGTTAAATACCGAATTCAGTCCATAGTCCTAGCTATAACTAACTTGTCCAAATTTGATCTATCG
TCGCAGCTATAACCGGCAAATGCTTAACCAAAGATAAATGTTTTTTCCCTGATTTGCCCG
Found at i:4649710 original size:176 final size:176
Alignment explanation
Indices: 4649416--4649770 Score: 665
Period size: 176 Copynumber: 2.0 Consensus size: 176
4649406 ATACTTGCTT
*
4649416 TTGTAAATTCGAAGTGACATGTTTTTCATGTATTTGGAAAATCATATCTATAACTATGAATGTTA
1 TTGTAAATTCGAAGTGACATGTTTTTCATGTATTTGGAAAATCATATCTATAACCATGAATGTTA
4649481 AATCGGACCAACATAGGTGAATTCAGTCATCTTTATTATTGATGTTTTTGACATGCCTGTACAAC
66 AATCGGACCAACATAGGTGAATTCAGTCATCTTTATTATTGATGTTTTTGACATGCCTGTACAAC
* * *
4649546 CGTCACGACTCGCTGACCAACCTAATGCTATCATTTCCCTGGGTAG
131 CGTCACAACTCGCTGACCAACCTAATACTATCATTTCCCCGGGTAG
4649592 TTGTAAATTCGAAGTGACATGTTTTTCATGTATTTGGAAAATCATATCTATAACCATGAATGTTA
1 TTGTAAATTCGAAGTGACATGTTTTTCATGTATTTGGAAAATCATATCTATAACCATGAATGTTA
*
4649657 AATCGGACCAACATGGGTGAATTCAGTCATCTTTATTATTGATGTTTTTGACATGCCTGTACAAC
66 AATCGGACCAACATAGGTGAATTCAGTCATCTTTATTATTGATGTTTTTGACATGCCTGTACAAC
4649722 CGTCACAACTCGCTGACCAACCTAATACTATCATTTCCCCGGGTAG
131 CGTCACAACTCGCTGACCAACCTAATACTATCATTTCCCCGGGTAG
4649768 TTG
1 TTG
4649771 CACTGTGTTG
Statistics
Matches: 174, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
176 174 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (176 bp):
TTGTAAATTCGAAGTGACATGTTTTTCATGTATTTGGAAAATCATATCTATAACCATGAATGTTA
AATCGGACCAACATAGGTGAATTCAGTCATCTTTATTATTGATGTTTTTGACATGCCTGTACAAC
CGTCACAACTCGCTGACCAACCTAATACTATCATTTCCCCGGGTAG
Found at i:4659731 original size:29 final size:28
Alignment explanation
Indices: 4659675--4659731 Score: 64
Period size: 29 Copynumber: 2.0 Consensus size: 28
4659665 ATAAACGTGT
*
4659675 ATGTATTTATAAAAATAAAAATGTAGAC
1 ATGTATTTATAAAAATAAAAATGAAGAC
4659703 ATGTATTTGA-AATAAATAAAATAT-AAGAC
1 ATGTATTT-ATAA-AAATAAAA-ATGAAGAC
4659732 TCGAGACAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
28 10 0.40
29 13 0.52
30 2 0.08
ACGTcount: A:0.54, C:0.04, G:0.11, T:0.32
Consensus pattern (28 bp):
ATGTATTTATAAAAATAAAAATGAAGAC
Found at i:4661990 original size:11 final size:11
Alignment explanation
Indices: 4661976--4662029 Score: 63
Period size: 11 Copynumber: 4.7 Consensus size: 11
4661966 ATTTTTTAAA
4661976 TTTTAAAATAT
1 TTTTAAAATAT
4661987 TTTTAAAATAT
1 TTTTAAAATAT
*
4661998 TTTTAAAATGCTT
1 TTTTAAAAT--AT
* *
4662011 TTTTTAAATTT
1 TTTTAAAATAT
4662022 TTTTAAAA
1 TTTTAAAA
4662030 AAGTAGTGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
11 29 0.76
13 9 0.24
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:4662024 original size:10 final size:11
Alignment explanation
Indices: 4661961--4662028 Score: 54
Period size: 11 Copynumber: 6.4 Consensus size: 11
4661951 TATATAATAA
4661961 TAAATATTTTT
1 TAAATATTTTT
4661972 T-AA-A-TTTT
1 TAAATATTTTT
*
4661980 AAAATATTTTT
1 TAAATATTTTT
*
4661991 AAAATATTTTT
1 TAAATATTTTT
* *
4662002 AAAATGCTTTTTT
1 TAAAT--ATTTTT
4662015 TAAAT-TTTTT
1 TAAATATTTTT
4662025 TAAA
1 TAAA
4662029 AAAGTAGTGT
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
8 4 0.08
9 3 0.06
10 12 0.24
11 21 0.43
13 9 0.18
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (11 bp):
TAAATATTTTT
Found at i:4667353 original size:2 final size:2
Alignment explanation
Indices: 4667346--4667381 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
4667336 ACCAACTATT
*
4667346 TC TC TC TC TC TC GC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
4667382 GCCCTTTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.03, T:0.47
Consensus pattern (2 bp):
TC
Found at i:4668089 original size:3 final size:3
Alignment explanation
Indices: 4668081--4668112 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
4668071 ACTAGATGGG
4668081 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
4668113 AAGTGATATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:4671198 original size:15 final size:15
Alignment explanation
Indices: 4671178--4671209 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
4671168 TGTAATTATA
*
4671178 TTTTTCTTTTTAATT
1 TTTTTCTTATTAATT
4671193 TTTTTCTTATTAATT
1 TTTTTCTTATTAATT
4671208 TT
1 TT
4671210 GTATAATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTTCTTATTAATT
Found at i:4672299 original size:5 final size:5
Alignment explanation
Indices: 4672289--4672339 Score: 93
Period size: 5 Copynumber: 10.0 Consensus size: 5
4672279 ATTTCTAGTT
4672289 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAAA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA AT-AAA ATAAA
4672340 TAATTTTAGA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
5 40 0.89
6 5 0.11
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:4672740 original size:10 final size:10
Alignment explanation
Indices: 4672727--4672753 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
4672717 CAAAATTTAA
4672727 AAAAAATCAC
1 AAAAAATCAC
4672737 AAAAAATCAC
1 AAAAAATCAC
4672747 AAAAAAT
1 AAAAAAT
4672754 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.74, C:0.15, G:0.00, T:0.11
Consensus pattern (10 bp):
AAAAAATCAC
Found at i:4673925 original size:83 final size:84
Alignment explanation
Indices: 4673785--4673948 Score: 267
Period size: 83 Copynumber: 2.0 Consensus size: 84
4673775 CTTCGCTCCT
*
4673785 GTGTATGCTATGTTTTTATCATGAATTTCAAAATTCCATTGGAAATGATTATGTGAACACTTTGG
1 GTGTATGCTATGTTTTTATCATGAATTTCAAAATTCCATTGGAAATGATTATGTGAACACTCTGG
4673850 GGATTTAAATAGATCCCCC
66 GGATTTAAATAGATCCCCC
** * *
4673869 GTGTATGCTATG-TTTTATCATGAATTTTGAAATTTCATTGGGAATGATTATGTGAACACTCTGG
1 GTGTATGCTATGTTTTTATCATGAATTTCAAAATTCCATTGGAAATGATTATGTGAACACTCTGG
*
4673933 GGCTTTAAATAGATCC
66 GGATTTAAATAGATCC
4673949 ATTAATTTGT
Statistics
Matches: 74, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
83 62 0.84
84 12 0.16
ACGTcount: A:0.29, C:0.13, G:0.20, T:0.39
Consensus pattern (84 bp):
GTGTATGCTATGTTTTTATCATGAATTTCAAAATTCCATTGGAAATGATTATGTGAACACTCTGG
GGATTTAAATAGATCCCCC
Found at i:4679328 original size:89 final size:89
Alignment explanation
Indices: 4679148--4679316 Score: 284
Period size: 89 Copynumber: 1.9 Consensus size: 89
4679138 AGCACCGAAC
* * *
4679148 TGAATAAGTAATTCGTAAAACTAACTCGACTCACTATTAAACATGGTTTGCATAGATGGTACTCG
1 TGAATAAGTAATTCGTAAAACTAACTCAACTCACGATTAAACATGGTTTACATAGATGGTACTCG
4679213 AACATAGGTATATAAGCTCTAAAT
66 AACATAGGTATATAAGCTCTAAAT
* *
4679237 TGAATAATTAATTCGTAAAACTAATTCAACTCACGATTAAACATGGTTTACATAGATGGTACTCG
1 TGAATAAGTAATTCGTAAAACTAACTCAACTCACGATTAAACATGGTTTACATAGATGGTACTCG
*
4679302 AACGTAGGTATATAA
66 AACATAGGTATATAA
4679317 CTTGATAATT
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
89 74 1.00
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (89 bp):
TGAATAAGTAATTCGTAAAACTAACTCAACTCACGATTAAACATGGTTTACATAGATGGTACTCG
AACATAGGTATATAAGCTCTAAAT
Found at i:4681565 original size:147 final size:148
Alignment explanation
Indices: 4681286--4681581 Score: 551
Period size: 147 Copynumber: 2.0 Consensus size: 148
4681276 AAAGCAGCTC
4681286 TTTAATTCTAGAACTGCAACAAATTATGATTAAATTACTGAAAACAAGTCAAACCCAAATAAAAA
1 TTTAATTCTAGAACTGCAACAAATTATGATTAAATTACTGAAAACAAGTCAAACCCAAATAAAAA
*
4681351 ATTCTAAAAAAATTAAACTTCCCCATTCTAAATCATTTAGTCTTCCAATAAAATCCCAAACAATC
66 ATTCTAAAAAAATTAAACTTCCCAATTCTAAATCATTTAGTCTTCCAATAAAATCCCAAACAATC
4681416 ATT-AAAAAAA-GGGTAG
131 ATTAAAAAAAATGGGTAG
4681432 TTTAATTCTAGAACTGCAACAAATTATGATTAAATTACTGAAAACAAGTCAAACCCAAATAAAAA
1 TTTAATTCTAGAACTGCAACAAATTATGATTAAATTACTGAAAACAAGTCAAACCCAAAT-AAAA
*
4681497 AATTCTCAAAAAATTAAACTTCCCAATTCTAAATCATTTAGTCTTCCAATAAAATCCCAAACAAT
65 AATTCTAAAAAAATTAAACTTCCCAATTCTAAATCATTTAGTCTTCCAATAAAATCCCAAACAAT
4681562 CATTAAAAAAAATGGGTAG
130 CATTAAAAAAAATGGGTAG
4681581 T
1 T
4681582 AAATAAAAAT
Statistics
Matches: 145, Mismatches: 2, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
146 60 0.41
147 71 0.49
148 7 0.05
149 7 0.05
ACGTcount: A:0.48, C:0.18, G:0.07, T:0.28
Consensus pattern (148 bp):
TTTAATTCTAGAACTGCAACAAATTATGATTAAATTACTGAAAACAAGTCAAACCCAAATAAAAA
ATTCTAAAAAAATTAAACTTCCCAATTCTAAATCATTTAGTCTTCCAATAAAATCCCAAACAATC
ATTAAAAAAAATGGGTAG
Found at i:4685154 original size:3 final size:3
Alignment explanation
Indices: 4685146--4685181 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
4685136 GTTGATCCTT
4685146 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
4685182 GTCGTCTTCG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
ATC
Found at i:4694476 original size:20 final size:20
Alignment explanation
Indices: 4694451--4694490 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
4694441 TTAAAAACCA
4694451 GCCTTCTACAGCCGCTGGTT
1 GCCTTCTACAGCCGCTGGTT
4694471 GCCTTCTACAGCCGCTGGTT
1 GCCTTCTACAGCCGCTGGTT
4694491 ATGTGGGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.10, C:0.35, G:0.25, T:0.30
Consensus pattern (20 bp):
GCCTTCTACAGCCGCTGGTT
Found at i:4701224 original size:17 final size:18
Alignment explanation
Indices: 4701191--4701225 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
4701181 CAAACTGGAC
4701191 CAACTACTCGAACCAATT
1 CAACTACTCGAACCAATT
*
4701209 CAACTAC-CGGACCAATT
1 CAACTACTCGAACCAATT
4701226 ATAAAAACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.37, C:0.34, G:0.09, T:0.20
Consensus pattern (18 bp):
CAACTACTCGAACCAATT
Found at i:4707972 original size:3 final size:3
Alignment explanation
Indices: 4707964--4707988 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
4707954 ACAGCCACAC
4707964 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
4707989 TTCTCTCAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:4711827 original size:31 final size:31
Alignment explanation
Indices: 4711768--4711837 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 31
4711758 GAAACCTTTA
* * * * *
4711768 AAGTTTAGGCTTCAATGTGAGAATAATTGTT
1 AAGTTTAGGCTCCAATATAAGAACAATTGTC
*
4711799 AAGTTTATGCTCCAATATAAGAACAATTGTC
1 AAGTTTAGGCTCCAATATAAGAACAATTGTC
4711830 AAGTTTAG
1 AAGTTTAG
4711838 AGATAAAGTT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.36
Consensus pattern (31 bp):
AAGTTTAGGCTCCAATATAAGAACAATTGTC
Found at i:4711987 original size:37 final size:37
Alignment explanation
Indices: 4711937--4712012 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
4711927 GTTCATGTTT
4711937 CTAATGTGAGAATAAGTGGATCATGGAAAAGTTCAAG
1 CTAATGTGAGAATAAGTGGATCATGGAAAAGTTCAAG
4711974 CTAATGTGAGAATAAGTGGATCATGGAAAAGTTCAAG
1 CTAATGTGAGAATAAGTGGATCATGGAAAAGTTCAAG
4712011 CT
1 CT
4712013 CCCGACGTGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.39, C:0.09, G:0.26, T:0.25
Consensus pattern (37 bp):
CTAATGTGAGAATAAGTGGATCATGGAAAAGTTCAAG
Found at i:4718480 original size:22 final size:22
Alignment explanation
Indices: 4718455--4718497 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
4718445 TAATTCCAAG
4718455 TTTAAATT-TGTACTAACTATTC
1 TTTAAATTATGT-CTAACTATTC
**
4718477 TTTATTTTATGTCTAACTATT
1 TTTAAATTATGTCTAACTATT
4718498 GTAATACATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.28, C:0.12, G:0.05, T:0.56
Consensus pattern (22 bp):
TTTAAATTATGTCTAACTATTC
Found at i:4722766 original size:29 final size:29
Alignment explanation
Indices: 4722720--4722777 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
4722710 TTTAATTTTT
* *
4722720 TTTAATAATATAAGGACTAAATTGATCCA
1 TTTAATAATAGAAGGACTAAATTAATCCA
*
4722749 TTTAATAATAG-AGAGACTAATTTAATCCA
1 TTTAATAATAGAAG-GACTAAATTAATCCA
4722778 GGCCTTATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 2 0.08
29 23 0.92
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.34
Consensus pattern (29 bp):
TTTAATAATAGAAGGACTAAATTAATCCA
Found at i:4723038 original size:16 final size:16
Alignment explanation
Indices: 4723019--4723052 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4723009 CATTTCAAGT
4723019 TTAGGGTAACTTTGGG
1 TTAGGGTAACTTTGGG
* *
4723035 TTAGGGTCATTTTGGG
1 TTAGGGTAACTTTGGG
4723051 TT
1 TT
4723053 GTACATTTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.15, C:0.06, G:0.35, T:0.44
Consensus pattern (16 bp):
TTAGGGTAACTTTGGG
Found at i:4728612 original size:5 final size:5
Alignment explanation
Indices: 4728602--4728627 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
4728592 TGAGCATTCG
4728602 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
4728628 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:4729406 original size:31 final size:30
Alignment explanation
Indices: 4729371--4729430 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
4729361 GGAGGTGGGA
*
4729371 TGGGAAGAGAATAAAAGTTTTAGGGGAAAAG
1 TGGG-AGAGAATAAAAATTTTAGGGGAAAAG
* * *
4729402 TGGGAGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAGAGAATAAAAATTTTAGGGGAAAA
4729431 TAAAAAGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (30 bp):
TGGGAGAGAATAAAAATTTTAGGGGAAAAG
Found at i:4729660 original size:9 final size:9
Alignment explanation
Indices: 4729646--4729682 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
4729636 TATAGTTTGA
4729646 TATTCGAAT
1 TATTCGAAT
4729655 TATTCGAAT
1 TATTCGAAT
*
4729664 TATTCGAGT
1 TATTCGAAT
4729673 TATTCGAAT
1 TATTCGAAT
4729682 T
1 T
4729683 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:4730760 original size:23 final size:25
Alignment explanation
Indices: 4730712--4730769 Score: 59
Period size: 25 Copynumber: 2.4 Consensus size: 25
4730702 AATTTAGTTC
**
4730712 ATTTACTTTTCAAAATT-TTTTAAA-
1 ATTTA-TTTTCAAAATTGTTGAAAAT
4730736 ATTTATTTTC-AAATTGTTGAGAAAT
1 ATTTATTTTCAAAATTGTTGA-AAAT
4730761 ATTTATTTT
1 ATTTATTTT
4730770 AATATTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
22 5 0.17
23 7 0.24
24 8 0.28
25 9 0.31
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.55
Consensus pattern (25 bp):
ATTTATTTTCAAAATTGTTGAAAAT
Found at i:4732263 original size:28 final size:28
Alignment explanation
Indices: 4732210--4732264 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
4732200 TATATTAATG
* * *
4732210 ATAAAAAAAAGTAAACTTTTCTTTATCA
1 ATAAAAAAAAGTAAAATTGTCATTATCA
4732238 ATAAAATAAAA-TAAAATTGTCATTATC
1 ATAAAA-AAAAGTAAAATTGTCATTATC
4732265 CCATGAAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 19 0.83
29 4 0.17
ACGTcount: A:0.53, C:0.09, G:0.04, T:0.35
Consensus pattern (28 bp):
ATAAAAAAAAGTAAAATTGTCATTATCA
Found at i:4732461 original size:26 final size:27
Alignment explanation
Indices: 4732423--4732475 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
4732413 TTTTCCATAA
4732423 TATGGAAATCAAAATCAATGAAGACTT
1 TATGGAAATCAAAATCAATGAAGACTT
* *
4732450 TATGTAAA-CAAATTCAATGAAGACTT
1 TATGGAAATCAAAATCAATGAAGACTT
4732476 GCAAATGCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 17 0.71
27 7 0.29
ACGTcount: A:0.47, C:0.11, G:0.13, T:0.28
Consensus pattern (27 bp):
TATGGAAATCAAAATCAATGAAGACTT
Found at i:4732874 original size:16 final size:17
Alignment explanation
Indices: 4732855--4732887 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4732845 GATTGAGCAA
4732855 ATCAAAT-CAAGATTCG
1 ATCAAATACAAGATTCG
*
4732871 ATCAAATACAGGATTCG
1 ATCAAATACAAGATTCG
4732888 TCGATGACGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.24
Consensus pattern (17 bp):
ATCAAATACAAGATTCG
Found at i:4733531 original size:50 final size:50
Alignment explanation
Indices: 4733472--4733567 Score: 138
Period size: 50 Copynumber: 1.9 Consensus size: 50
4733462 TTAATTATTA
*
4733472 AATGCGTTTGGAAGTAGCGCCATACTTATTACATTCCGTAAACCTCTCCC
1 AATGCGTTTGGAAGCAGCGCCATACTTATTACATTCCGTAAACCTCTCCC
* * * * *
4733522 AATGCGTTTGGGAGCAGGGCTATACTTATTACCTTCCGTAAGCCTC
1 AATGCGTTTGGAAGCAGCGCCATACTTATTACATTCCGTAAACCTC
4733568 CTCATGCATT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 40 1.00
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (50 bp):
AATGCGTTTGGAAGCAGCGCCATACTTATTACATTCCGTAAACCTCTCCC
Found at i:4733767 original size:20 final size:20
Alignment explanation
Indices: 4733742--4733785 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
4733732 CTAGCCCAAA
4733742 TTTTTTA-TTTTTAAAATATT
1 TTTTTTATTTTTTAAAA-ATT
4733762 TTTTTTATTTTTTAAAAATT
1 TTTTTTATTTTTTAAAAATT
4733782 TTTT
1 TTTT
4733786 GGTGTTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTTTTATTTTTTAAAAATT
Found at i:4733797 original size:22 final size:20
Alignment explanation
Indices: 4733749--4733801 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
4733739 AAATTTTTTA
*
4733749 TTTTTAAAATATTTTTTTTAT
1 TTTTTAAAA-ATTTTTTGTAT
*
4733770 TTTTTAAAAATTTTTTGGTGT
1 TTTTTAAAAATTTTTT-GTAT
4733791 TTATTTAAAAA
1 TT-TTTAAAAA
4733802 ATGGGACGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 7 0.25
21 13 0.46
22 8 0.29
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (20 bp):
TTTTTAAAAATTTTTTGTAT
Found at i:4744480 original size:17 final size:17
Alignment explanation
Indices: 4744458--4744492 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
4744448 AAATGCCAAA
* *
4744458 ACTACAATTACAAGTAT
1 ACTACAAGTACAAATAT
4744475 ACTACAAGTACAAATAT
1 ACTACAAGTACAAATAT
4744492 A
1 A
4744493 TGCCTAACCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.51, C:0.17, G:0.06, T:0.26
Consensus pattern (17 bp):
ACTACAAGTACAAATAT
Found at i:4747641 original size:11 final size:11
Alignment explanation
Indices: 4747625--4747649 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4747615 GGGTTCTATG
4747625 TAATAATATTA
1 TAATAATATTA
4747636 TAATAATATTA
1 TAATAATATTA
4747647 TAA
1 TAA
4747650 AAATTAAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
TAATAATATTA
Found at i:4750000 original size:21 final size:21
Alignment explanation
Indices: 4749971--4750013 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
4749961 TTTTTAATTT
*
4749971 TTAATTTTTTAAATATTTTTA
1 TTAACTTTTTAAATATTTTTA
* *
4749992 TTAACTTTTTAATTTTTTTTA
1 TTAACTTTTTAAATATTTTTA
4750013 T
1 T
4750014 GAAGTACAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (21 bp):
TTAACTTTTTAAATATTTTTA
Found at i:4751081 original size:21 final size:21
Alignment explanation
Indices: 4751056--4751096 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4751046 ATAATATTTA
4751056 AAAATTTTAAAATATAAAATG
1 AAAATTTTAAAATATAAAATG
* *
4751077 AAAATTTTAAATTTTAAAAT
1 AAAATTTTAAAATATAAAAT
4751097 TTAACATTTA
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:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (21 bp):
AAAATTTTAAAATATAAAATG
Done.