Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 233 of 276
Found at i:77128115 original size:6 final size:6
Alignment explanation
Indices: 77128106--77128139 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
77128096 AAATATCCCT
*
77128106 AAATTA AAATCA AAATCA AAATCA AAATCA AAAT
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAAT
77128140 TGAAATCGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.21
Consensus pattern (6 bp):
AAATCA
Found at i:77128175 original size:16 final size:16
Alignment explanation
Indices: 77128156--77128187 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
77128146 CGAAAGAATC
*
77128156 CAAAATAACCTTAAAT
1 CAAAATAACCCTAAAT
77128172 CAAAATAACCCTAAAT
1 CAAAATAACCCTAAAT
77128188 ATAAAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.56, C:0.22, G:0.00, T:0.22
Consensus pattern (16 bp):
CAAAATAACCCTAAAT
Found at i:77128423 original size:43 final size:43
Alignment explanation
Indices: 77128366--77128467 Score: 150
Period size: 43 Copynumber: 2.4 Consensus size: 43
77128356 AATACCATTC
* * * *
77128366 TAATCAATTATCGAATCGATTTCTAACCTTAAACAAACCTTCT
1 TAATCGATTCTCGAATCAATTTCTAACCCTAAACAAACCTTCT
* *
77128409 TAATCGATTCTCGAAACAATTTCTAACCCTAAACCAACCTTCT
1 TAATCGATTCTCGAATCAATTTCTAACCCTAAACAAACCTTCT
77128452 TAATCGATTCTCGAAT
1 TAATCGATTCTCGAAT
77128468 TAGTTTGAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 52 1.00
ACGTcount: A:0.35, C:0.25, G:0.06, T:0.33
Consensus pattern (43 bp):
TAATCGATTCTCGAATCAATTTCTAACCCTAAACAAACCTTCT
Found at i:77131773 original size:56 final size:56
Alignment explanation
Indices: 77131712--77131817 Score: 194
Period size: 56 Copynumber: 1.9 Consensus size: 56
77131702 ATAACTTCTA
*
77131712 ATTTATTAAATGAAACAATATAAAAATAAGTTTTACAAAAATATTCAAAAGAACCT
1 ATTTATTAAATGAAAAAATATAAAAATAAGTTTTACAAAAATATTCAAAAGAACCT
*
77131768 ATTTATTAAATGAAAAAATATAAAAATAATTTTTACAAAAATATTCAAAA
1 ATTTATTAAATGAAAAAATATAAAAATAAGTTTTACAAAAATATTCAAAA
77131818 ATAAATCAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 48 1.00
ACGTcount: A:0.58, C:0.07, G:0.04, T:0.32
Consensus pattern (56 bp):
ATTTATTAAATGAAAAAATATAAAAATAAGTTTTACAAAAATATTCAAAAGAACCT
Found at i:77136596 original size:19 final size:18
Alignment explanation
Indices: 77136572--77136618 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
77136562 CCTATAACAT
77136572 CAAATCCAACTAAAAACTG
1 CAAATCCAACT-AAAACTG
* * *
77136591 CAAATCTAAATAAAACTT
1 CAAATCCAACTAAAACTG
77136609 CAAATCCAAC
1 CAAATCCAAC
77136619 GAAAGAAATA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
18 14 0.61
19 9 0.39
ACGTcount: A:0.53, C:0.26, G:0.02, T:0.19
Consensus pattern (18 bp):
CAAATCCAACTAAAACTG
Found at i:77141794 original size:13 final size:13
Alignment explanation
Indices: 77141776--77141800 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
77141766 GTATGCAATC
77141776 GTTTGCAATCATG
1 GTTTGCAATCATG
77141789 GTTTGCAATCAT
1 GTTTGCAATCAT
77141801 TTCCACATGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (13 bp):
GTTTGCAATCATG
Found at i:77144271 original size:44 final size:44
Alignment explanation
Indices: 77144222--77144354 Score: 266
Period size: 44 Copynumber: 3.0 Consensus size: 44
77144212 ATTACGTAAG
77144222 TAAGTTTTAGAATTTGATAAATATTCATCTTTTTAATTTGTTTA
1 TAAGTTTTAGAATTTGATAAATATTCATCTTTTTAATTTGTTTA
77144266 TAAGTTTTAGAATTTGATAAATATTCATCTTTTTAATTTGTTTA
1 TAAGTTTTAGAATTTGATAAATATTCATCTTTTTAATTTGTTTA
77144310 TAAGTTTTAGAATTTGATAAATATTCATCTTTTTAATTTGTTTA
1 TAAGTTTTAGAATTTGATAAATATTCATCTTTTTAATTTGTTTA
77144354 T
1 T
77144355 CTTCTAACCA
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 89 1.00
ACGTcount: A:0.32, C:0.05, G:0.09, T:0.55
Consensus pattern (44 bp):
TAAGTTTTAGAATTTGATAAATATTCATCTTTTTAATTTGTTTA
Found at i:77146610 original size:8 final size:8
Alignment explanation
Indices: 77146599--77146631 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
77146589 CTAGATCGGC
77146599 AAAAGCCG
1 AAAAGCCG
77146607 AAAAGCC-
1 AAAAGCCG
77146614 AAAATGCCG
1 AAAA-GCCG
77146623 AAAAGCCG
1 AAAAGCCG
77146631 A
1 A
77146632 CATTTCGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 4 0.17
8 15 0.65
9 4 0.17
ACGTcount: A:0.52, C:0.24, G:0.21, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:77147441 original size:61 final size:63
Alignment explanation
Indices: 77147303--77147451 Score: 161
Period size: 60 Copynumber: 2.5 Consensus size: 63
77147293 AACTGTGTTA
* * *
77147303 ATATGGGC-AAGGCCCAATATA-TCTCA-ACTTGTAATAGGGCTACGGCCCAAATTGATACTG
1 ATATGGGCTAAGGCCCAGTATACTCTGATACTTGTAATAGGGCTACGGCCCAAATTAATACTG
* * * *
77147363 ACATGGGCT-AGGCCCAGTATACTCTGATAC-TGTAA-GGGGCTATGG-CCAAGATTAATATTG
1 ATATGGGCTAAGGCCCAGTATACTCTGATACTTGTAATAGGGCTACGGCCCAA-ATTAATACTG
77147423 ATATGGGCTAAGGCCCAGT-TAACTCTGAT
1 ATATGGGCTAAGGCCCAGTAT-ACTCTGAT
77147452 TTCTGAATAG
Statistics
Matches: 75, Mismatches: 8, Indels: 11
0.80 0.09 0.12
Matches are distributed among these distances:
59 4 0.05
60 43 0.57
61 26 0.35
62 2 0.03
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (63 bp):
ATATGGGCTAAGGCCCAGTATACTCTGATACTTGTAATAGGGCTACGGCCCAAATTAATACTG
Found at i:77147909 original size:26 final size:26
Alignment explanation
Indices: 77147880--77147931 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
77147870 CAAAGGCTTA
77147880 AAACGAAATGGTTTTTCCTGAGCAAT
1 AAACGAAATGGTTTTTCCTGAGCAAT
77147906 AAACGAAATGGTTTTTCCTGAGCAAT
1 AAACGAAATGGTTTTTCCTGAGCAAT
77147932 CATTTAGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (26 bp):
AAACGAAATGGTTTTTCCTGAGCAAT
Found at i:77158617 original size:25 final size:25
Alignment explanation
Indices: 77158553--77158610 Score: 116
Period size: 25 Copynumber: 2.3 Consensus size: 25
77158543 CTTTTCATTC
77158553 CCATATTCTCTGTTTCTTCTTGCTA
1 CCATATTCTCTGTTTCTTCTTGCTA
77158578 CCATATTCTCTGTTTCTTCTTGCTA
1 CCATATTCTCTGTTTCTTCTTGCTA
77158603 CCATATTC
1 CCATATTC
77158611 ACAGTTTGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.14, C:0.29, G:0.07, T:0.50
Consensus pattern (25 bp):
CCATATTCTCTGTTTCTTCTTGCTA
Found at i:77160804 original size:39 final size:40
Alignment explanation
Indices: 77160761--77160858 Score: 108
Period size: 46 Copynumber: 2.3 Consensus size: 40
77160751 TATTGAATGC
*
77160761 ATACTTTCAATTTACTAA-AATAATAGATGAGTCCGAGAG
1 ATACTTTCAATTTACCAATAATAATAGATGAGTCCGAGAG
**
77160800 ATACTTTCAATTTTTTACCAATCTTTCTAATAGATGAGTCCGAGAG
1 ATACTTTCAA---TTTACCAA---TAATAATAGATGAGTCCGAGAG
77160846 ATACTTTCAATTT
1 ATACTTTCAATTT
77160859 TTTACTAAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
39 10 0.20
42 7 0.14
43 3 0.06
46 29 0.59
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (40 bp):
ATACTTTCAATTTACCAATAATAATAGATGAGTCCGAGAG
Found at i:77163174 original size:32 final size:32
Alignment explanation
Indices: 77163138--77163297 Score: 266
Period size: 32 Copynumber: 5.0 Consensus size: 32
77163128 TATAACTATG
77163138 CTACTTTTTTATATGTAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* *
77163170 CTACTTTTTCATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* *
77163202 CTACTTTTTTATATGTGAACCTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
*
77163234 CTACTTTTTTATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
*
77163266 CTACTTTTTTATATGTAAACCTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
77163298 ATTTTTTATG
Statistics
Matches: 117, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 117 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (32 bp):
CTACTTTTTTATATGTAAAACTAATGTATGAT
Found at i:77163239 original size:64 final size:64
Alignment explanation
Indices: 77163138--77163297 Score: 293
Period size: 64 Copynumber: 2.5 Consensus size: 64
77163128 TATAACTATG
*
77163138 CTACTTTTTTATATGTAAAACTAATGTATGATCTACTTTTTCATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAACCTAATGTATGATCTACTTTTTCATATGCAAAACTAATGTATGAT
* *
77163202 CTACTTTTTTATATGTGAACCTAATGTATGATCTACTTTTTTATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAACCTAATGTATGATCTACTTTTTCATATGCAAAACTAATGTATGAT
77163266 CTACTTTTTTATATGTAAACCTAATGTATGAT
1 CTACTTTTTTATATGTAAACCTAATGTATGAT
77163298 ATTTTTTATG
Statistics
Matches: 92, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
64 92 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (64 bp):
CTACTTTTTTATATGTAAACCTAATGTATGATCTACTTTTTCATATGCAAAACTAATGTATGAT
Found at i:77165312 original size:21 final size:21
Alignment explanation
Indices: 77165287--77165336 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
77165277 CGTTGTTTCT
*
77165287 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
* *
77165308 AATCTCACCGCTAGAGTAACG
1 AATCTCACCGCTACAGTAACC
77165329 AATCTCAC
1 AATCTCAC
77165337 GACCACCGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.32, C:0.34, G:0.12, T:0.22
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:77187105 original size:25 final size:25
Alignment explanation
Indices: 77187077--77187155 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 25
77187067 CTAATGGCCG
77187077 ATGTGATGAATGTGAAAGTGCATAT
1 ATGTGATGAATGTGAAAGTGCATAT
* * * **
77187102 ATGTGAT-AAGGCTTAATG-GC--CG
1 ATGTGATGAATG-TGAAAGTGCATAT
*
77187124 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGCATAT
77187149 ATGTGAT
1 ATGTGAT
77187156 AAGGCCTAAT
Statistics
Matches: 38, Mismatches: 11, Indels: 10
0.64 0.19 0.17
Matches are distributed among these distances:
22 11 0.29
23 4 0.11
24 5 0.13
25 18 0.47
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGCATAT
Found at i:77187127 original size:47 final size:47
Alignment explanation
Indices: 77187061--77187395 Score: 553
Period size: 47 Copynumber: 7.1 Consensus size: 47
77187051 GAAATGATAG
*
77187061 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
77187108 TAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
77187155 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
77187202 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAA--GTGTATATATGTGA
*
77187251 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
77187298 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * *
77187345 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
77187392 TAAG
1 TAAG
77187396 TCCCGAAGGG
Statistics
Matches: 271, Mismatches: 15, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
47 225 0.83
49 46 0.17
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:77187317 original size:143 final size:141
Alignment explanation
Indices: 77187061--77187395 Score: 553
Period size: 143 Copynumber: 2.4 Consensus size: 141
77187051 GAAATGATAG
* *
77187061 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATATGTGATAAGGCTTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
77187126 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
77187191 TATATATGTGA
131 TATATATGTGA
*
77187202 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAGGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAA--GTGTATATATGTGATAAGGCCTAATGGCCG
77187267 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
64 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
77187332 TGTATATATGTGA
129 TGTATATATGTGA
* * * * * * * *
77187345 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
77187396 TCCCGAAGGG
Statistics
Matches: 180, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
141 49 0.27
143 131 0.73
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (141 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
TATATATGTGA
Found at i:77192778 original size:30 final size:30
Alignment explanation
Indices: 77192744--77192835 Score: 150
Period size: 30 Copynumber: 3.1 Consensus size: 30
77192734 ACTTATTTTA
77192744 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
* *
77192774 TTGTTAATTTTGTTATTATATTAAAGACA-
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
*
77192803 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
77192833 TTG
1 TTG
77192836 CTTGTTAAGT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
29 26 0.46
30 30 0.54
ACGTcount: A:0.27, C:0.03, G:0.14, T:0.55
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:77192833 original size:29 final size:29
Alignment explanation
Indices: 77192743--77192833 Score: 146
Period size: 29 Copynumber: 3.1 Consensus size: 29
77192733 AACTTATTTT
77192743 ATTGTTAATTTTGTTATTATTTTAAAGGC
1 ATTGTTAATTTTGTTATTATTTTAAAGGC
* *
77192772 ATTTGTTAATTTTGTTATTATATTAAAGAC
1 A-TTGTTAATTTTGTTATTATTTTAAAGGC
*
77192802 ATTGTTAATTTTGTTATTATTTTAGAGGC
1 ATTGTTAATTTTGTTATTATTTTAAAGGC
77192831 ATT
1 ATT
77192834 TGCTTGTTAA
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
29 29 0.52
30 27 0.48
ACGTcount: A:0.29, C:0.03, G:0.13, T:0.55
Consensus pattern (29 bp):
ATTGTTAATTTTGTTATTATTTTAAAGGC
Found at i:77198208 original size:14 final size:13
Alignment explanation
Indices: 77198189--77198241 Score: 63
Period size: 14 Copynumber: 4.0 Consensus size: 13
77198179 ATTCCCCCTC
77198189 TTTCTTTCTTTTTT
1 TTTCTTT-TTTTTT
*
77198203 TTTCTTTCTTTTCT
1 TTTCTTT-TTTTTT
*
77198217 TTTC-TTTTTCTT
1 TTTCTTTTTTTTT
77198229 TTTCTTTTTTTTT
1 TTTCTTTTTTTTT
77198242 CAAACACTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
12 8 0.24
13 9 0.26
14 17 0.50
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTCTTTTTTTTT
Found at i:77198215 original size:5 final size:5
Alignment explanation
Indices: 77198189--77198242 Score: 58
Period size: 5 Copynumber: 10.8 Consensus size: 5
77198179 ATTCCCCCTC
* *
77198189 TTTC- TTTCT TTTTT TTTC- TTTCT TTTCT TTTCTT TTTCTT TTTCT TTTTT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTC-T TTTC-T TTTCT TTTCT
77198239 TTTC
1 TTTC
77198243 AAACACTCAA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
4 8 0.19
5 24 0.56
6 11 0.26
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTCT
Found at i:77207912 original size:55 final size:54
Alignment explanation
Indices: 77207757--77207963 Score: 236
Period size: 53 Copynumber: 3.8 Consensus size: 54
77207747 TTTCTTTTTA
* * *
77207757 AACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * *
77207810 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * * *
77207864 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAA
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* *
77207919 AACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
77207964 AAACCCTAAT
Statistics
Matches: 125, Mismatches: 27, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
53 46 0.37
54 38 0.30
55 41 0.33
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.37
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:77215155 original size:53 final size:54
Alignment explanation
Indices: 77215086--77215292 Score: 218
Period size: 53 Copynumber: 3.8 Consensus size: 54
77215076 TTCCTTTTTA
* * * *
77215086 AACTTACCATTTCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * *
77215139 AACTTACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * * * *
77215193 TAGTTTATCAATGCCATGTCTTGACATGGTCTTGCATGATTTCCTTGCCTTGTAA
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * *
77215248 AACTTACCAATGCAATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
77215293 AAACCCTAAT
Statistics
Matches: 123, Mismatches: 29, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
53 46 0.37
54 36 0.29
55 41 0.33
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.38
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:77228356 original size:5 final size:5
Alignment explanation
Indices: 77228346--77228413 Score: 52
Period size: 5 Copynumber: 13.6 Consensus size: 5
77228336 AGCCACCCCC
* *
77228346 TTTTA TTTTA TTTTA -TGTA TTATTA TTTTTA TATTA -TTTA TTTTTA
1 TTTTA TTTTA TTTTA TTTTA TT-TTA -TTTTA TTTTA TTTTA -TTTTA
* *
77228392 TTTTA -CTAA TTTTA TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTT
77228414 GTTTATTTTT
Statistics
Matches: 49, Mismatches: 8, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
4 8 0.16
5 30 0.61
6 9 0.18
7 2 0.04
ACGTcount: A:0.24, C:0.01, G:0.01, T:0.74
Consensus pattern (5 bp):
TTTTA
Found at i:77228377 original size:21 final size:21
Alignment explanation
Indices: 77228351--77228395 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
77228341 CCCCCTTTTA
*
77228351 TTTTATTTTATGTATTATTAT
1 TTTTATATTATGTATTATTAT
* *
77228372 TTTTATATTATTTATTTTTAT
1 TTTTATATTATGTATTATTAT
77228393 TTT
1 TTT
77228396 ACTAATTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (21 bp):
TTTTATATTATGTATTATTAT
Found at i:77228380 original size:14 final size:14
Alignment explanation
Indices: 77228349--77228412 Score: 58
Period size: 14 Copynumber: 4.5 Consensus size: 14
77228339 CACCCCCTTT
*
77228349 TATT-TTATTTTATG
1 TATTATTATTTT-TA
77228363 TATTATTATTTTTA
1 TATTATTATTTTTA
77228377 TATTATTTATTTTTA
1 TATTA-TTATTTTTA
* * *
77228392 TTTTACTAATTTTA
1 TATTATTATTTTTA
*
77228406 TTTTATT
1 TATTATT
77228413 TGTTTATTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
14 23 0.53
15 20 0.47
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.72
Consensus pattern (14 bp):
TATTATTATTTTTA
Found at i:77228505 original size:14 final size:15
Alignment explanation
Indices: 77228479--77228509 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
77228469 CTACTATTTC
77228479 TATTTTATTTATTAT
1 TATTTTATTTATTAT
77228494 TATTTT-TTTATTAT
1 TATTTTATTTATTAT
77228508 TA
1 TA
77228510 CAATTACATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
TATTTTATTTATTAT
Found at i:77232141 original size:75 final size:75
Alignment explanation
Indices: 77232018--77232160 Score: 250
Period size: 75 Copynumber: 1.9 Consensus size: 75
77232008 AAGACGAAGA
* *
77232018 TATCGTCGGTATACCCGACTAGCATTTGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTAGGC
1 TATCGTCGGTATACCCGACTAGCACTGGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTAGGC
77232083 TCACAATTAC
66 TCACAATTAC
* *
77232093 TATCGTCGGTATACCCGACTAGCACTGGGTGTAAATATCGTTGGTTTATCCAACTAGAGCTGGGC
1 TATCGTCGGTATACCCGACTAGCACTGGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTAGGC
77232158 TCA
66 TCA
77232161 TATTAATACT
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
75 64 1.00
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.30
Consensus pattern (75 bp):
TATCGTCGGTATACCCGACTAGCACTGGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTAGGC
TCACAATTAC
Found at i:77232156 original size:35 final size:35
Alignment explanation
Indices: 77232045--77232156 Score: 100
Period size: 35 Copynumber: 3.1 Consensus size: 35
77232035 ACTAGCATTT
77232045 GGTGCAAATATCGTTGGTTTATCCAACTAGAGCTAG
1 GGTGCAAATATCGTTGGTTTATCCAACTAGAGCT-G
* * * * * *
77232081 GCTCACAATTACTATCGTCGGTATACCCGACTAGCA-CTG
1 GGT-GCAA--A-TATCGTTGGTTTATCCAACTAG-AGCTG
*
77232120 GGTGTAAATATCGTTGGTTTATCCAACTAGAGCTG
1 GGTGCAAATATCGTTGGTTTATCCAACTAGAGCTG
77232155 GG
1 GG
77232157 CTCATATTAA
Statistics
Matches: 57, Mismatches: 13, Indels: 13
0.69 0.16 0.16
Matches are distributed among these distances:
34 1 0.02
35 23 0.40
36 3 0.05
37 3 0.05
38 2 0.04
39 4 0.07
40 20 0.35
41 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (35 bp):
GGTGCAAATATCGTTGGTTTATCCAACTAGAGCTG
Found at i:77258697 original size:29 final size:29
Alignment explanation
Indices: 77258665--77258720 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
77258655 CTTTACTTTA
*
77258665 TCTTGTCA-AGAATTTGCTGCAGGTGGATT
1 TCTT-TCATAGAATTTGCTACAGGTGGATT
* *
77258694 TCTTTTATTGAATTTGCTACAGGTGGA
1 TCTTTCATAGAATTTGCTACAGGTGGA
77258721 CTCTGATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 2 0.09
29 21 0.91
ACGTcount: A:0.21, C:0.12, G:0.25, T:0.41
Consensus pattern (29 bp):
TCTTTCATAGAATTTGCTACAGGTGGATT
Found at i:77268220 original size:27 final size:27
Alignment explanation
Indices: 77268190--77268245 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
77268180 AATATAATAG
77268190 TTAGCAGTTAGAGATTAAAAAAAATTA
1 TTAGCAGTTAGAGATTAAAAAAAATTA
77268217 TTAGCAGTTAGAGATTAAAAAAAATTA
1 TTAGCAGTTAGAGATTAAAAAAAATTA
77268244 TT
1 TT
77268246 CATAAATTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.50, C:0.04, G:0.14, T:0.32
Consensus pattern (27 bp):
TTAGCAGTTAGAGATTAAAAAAAATTA
Found at i:77268643 original size:4 final size:4
Alignment explanation
Indices: 77268634--77268675 Score: 57
Period size: 4 Copynumber: 9.8 Consensus size: 4
77268624 TTGATTAAAA
77268634 TAAT TAAT TAAT TCAAT TAATT TAATT TAAT TAAT TAAT TAA
1 TAAT TAAT TAAT T-AAT TAA-T TAA-T TAAT TAAT TAAT TAA
77268676 ACATTAAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
4 23 0.64
5 13 0.36
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (4 bp):
TAAT
Found at i:77268660 original size:18 final size:18
Alignment explanation
Indices: 77268637--77268673 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
77268627 ATTAAAATAA
77268637 TTAA-TTAATTCAATTAAT
1 TTAATTTAATT-AATTAAT
77268655 TTAATTTAATTAATTAAT
1 TTAATTTAATTAATTAAT
77268673 T
1 T
77268674 AAACATTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (18 bp):
TTAATTTAATTAATTAAT
Found at i:77268672 original size:31 final size:30
Alignment explanation
Indices: 77268634--77268698 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 30
77268624 TTGATTAAAA
*
77268634 TAATTAATTAATT-CA-ATT-AATTTAATT
1 TAATTAATTAATTAAACATTAAATTTAATT
77268661 TAATTAATTAATTAAACATTAAAATTTAATT
1 TAATTAATTAATTAAACATT-AAATTTAATT
77268692 TAATTAA
1 TAATTAA
77268699 AAATTAACTT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
27 13 0.39
28 1 0.03
29 3 0.09
31 16 0.48
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (30 bp):
TAATTAATTAATTAAACATTAAATTTAATT
Found at i:77271947 original size:26 final size:25
Alignment explanation
Indices: 77271894--77271949 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
77271884 AGGTTTAGGC
**
77271894 TTGAAATTTTCAAGAATAGGAAGGA
1 TTGAAATTTTCAAGAATAGGAACAA
77271919 TTGAAATTTTCAAGGTAA-AGGAACAA
1 TTGAAATTTTCAA-G-AATAGGAACAA
77271945 TTGAA
1 TTGAA
77271950 CTATTGAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 13 0.48
26 12 0.44
27 2 0.07
ACGTcount: A:0.45, C:0.05, G:0.21, T:0.29
Consensus pattern (25 bp):
TTGAAATTTTCAAGAATAGGAACAA
Found at i:77275078 original size:31 final size:31
Alignment explanation
Indices: 77275040--77275110 Score: 124
Period size: 31 Copynumber: 2.3 Consensus size: 31
77275030 TTTTAATAAC
77275040 TCACAAGTTTAACTTATATATTCACAGGCAA
1 TCACAAGTTTAACTTATATATTCACAGGCAA
* *
77275071 TCACAAGTTTAACTTATATATTCATAGGCAT
1 TCACAAGTTTAACTTATATATTCACAGGCAA
77275102 TCACAAGTT
1 TCACAAGTT
77275111 ATATGAAAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (31 bp):
TCACAAGTTTAACTTATATATTCACAGGCAA
Found at i:77276946 original size:37 final size:36
Alignment explanation
Indices: 77276885--77276965 Score: 126
Period size: 37 Copynumber: 2.2 Consensus size: 36
77276875 AGAATTTGGT
*
77276885 GTGTTTCGGTTGGACTAGCTCTTATGAGCGATTGAC
1 GTGTTTCGGGTGGACTAGCTCTTATGAGCGATTGAC
* *
77276921 GTGTTATCGGGTGGATTAGCTCTTATGAGCGATTGAT
1 GTGTT-TCGGGTGGACTAGCTCTTATGAGCGATTGAC
77276958 GTGTTTCG
1 GTGTTTCG
77276966 ATTGAATTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
36 8 0.20
37 33 0.80
ACGTcount: A:0.16, C:0.14, G:0.32, T:0.38
Consensus pattern (36 bp):
GTGTTTCGGGTGGACTAGCTCTTATGAGCGATTGAC
Found at i:77277988 original size:54 final size:53
Alignment explanation
Indices: 77277909--77278010 Score: 123
Period size: 54 Copynumber: 1.9 Consensus size: 53
77277899 CATGACCTAG
* ** *
77277909 CACACGGTCTGCGACACGATTGTGTGTCACAAGTCAGAAAGTTACATGGTCTGA
1 CACACGGCCTGCGACACGACCGTGTG-CACAACTCAGAAAGTTACATGGTCTGA
* * **
77277963 CACACGGCCTGCGACATGACCGTGTGCCCAACTCAGTGAGTTACATGG
1 CACACGGCCTGCGACACGACCGTGTGCACAACTCAGAAAGTTACATGG
77278011 GCAGGGACAC
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
53 18 0.45
54 22 0.55
ACGTcount: A:0.25, C:0.26, G:0.26, T:0.22
Consensus pattern (53 bp):
CACACGGCCTGCGACACGACCGTGTGCACAACTCAGAAAGTTACATGGTCTGA
Found at i:77280445 original size:21 final size:22
Alignment explanation
Indices: 77280419--77280485 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 22
77280409 ATTTTAAGAA
*
77280419 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
77280440 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* * *
77280462 GT-TTTTAA-ATATA-TTTGAT
1 TTGTTTTAATATTTATTTTTAT
77280481 TTGTT
1 TTGTT
77280486 ATATTTTTAA
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
19 6 0.16
20 5 0.14
21 16 0.43
22 10 0.27
ACGTcount: A:0.21, C:0.00, G:0.10, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:77280494 original size:26 final size:24
Alignment explanation
Indices: 77280448--77280496 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
77280438 ATTTGTTTTA
*
77280448 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
77280472 ATATTTGATTTGTTATATTTTTAAA
1 ATATTTG-TTT-TTATATTTTTAAA
77280497 ATTTTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:77285448 original size:54 final size:51
Alignment explanation
Indices: 77285320--77285508 Score: 177
Period size: 52 Copynumber: 3.6 Consensus size: 51
77285310 TTGGGGCTTG
* *
77285320 GGGGAAGTAAAAATTTTGAGGA-AAAGCAAAAGGAAAAAAAATGGAGGTTTA
1 GGGGAAGTAAAAGTTTTG-GGAGAAAGTAAAAGGAAAAAAAATGGAGGTTTA
* * ** *
77285371 AGGAAAGTAAAAGTTTTAGGGAGAAAGTAAAAGGAAAAAATTTTGAGGGGTTTA
1 GGGGAAGTAAAAGTTTT-GGGAGAAAGTAAAAGGAAAAAA-AATG-GAGGTTTA
* * *
77285425 GGGGAATGTAAAAGTTTTGGGAGAAATTAAAAAGAAAAAAAAATTGG-GGTTTG
1 GGGGAA-GTAAAAGTTTTGGGAGAAAGT-AAAAGGAAAAAAAA-TGGAGGTTTA
**
77285478 GGGGAAGTAAATTTTTTTGGGA-AAAGTAAAA
1 GGGGAAGTAAA-AGTTTTGGGAGAAAGTAAAA
77285509 TGGTATTTTT
Statistics
Matches: 113, Mismatches: 17, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
51 21 0.19
52 26 0.23
53 21 0.19
54 21 0.19
55 24 0.21
ACGTcount: A:0.47, C:0.01, G:0.30, T:0.23
Consensus pattern (51 bp):
GGGGAAGTAAAAGTTTTGGGAGAAAGTAAAAGGAAAAAAAATGGAGGTTTA
Found at i:77287129 original size:14 final size:15
Alignment explanation
Indices: 77287102--77287137 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
77287092 ATTTATTCTC
77287102 TTCTTCTTCTTCTTT
1 TTCTTCTTCTTCTTT
*
77287117 TTCTTTTTC-TCTTT
1 TTCTTCTTCTTCTTT
77287131 TTCTTCT
1 TTCTTCT
77287138 ATTGTCCAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 11 0.58
15 8 0.42
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (15 bp):
TTCTTCTTCTTCTTT
Found at i:77293657 original size:26 final size:25
Alignment explanation
Indices: 77293577--77293657 Score: 67
Period size: 26 Copynumber: 3.1 Consensus size: 25
77293567 GTTTTTCAGT
*
77293577 TTTTTC-ATTTTTTAATTTGTTTGTCC
1 TTTTTCAATTTTTT-ATTTATTTGT-C
* * *
77293603 TTTTTCATTTGTTTTTCTTTATTT-AC
1 TTTTTCA-AT-TTTTTATTTATTTGTC
77293629 TTTTTCAATTTATTTATTTATTTGTC
1 TTTTTCAATTT-TTTATTTATTTGTC
77293655 TTT
1 TTT
77293658 CTTCCTGTCT
Statistics
Matches: 43, Mismatches: 7, Indels: 10
0.72 0.12 0.17
Matches are distributed among these distances:
24 2 0.05
25 11 0.26
26 18 0.42
28 7 0.16
29 5 0.12
ACGTcount: A:0.14, C:0.10, G:0.05, T:0.72
Consensus pattern (25 bp):
TTTTTCAATTTTTTATTTATTTGTC
Found at i:77293707 original size:14 final size:11
Alignment explanation
Indices: 77293671--77293700 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
77293661 CCTGTCTTTA
77293671 TTTTTATTATT
1 TTTTTATTATT
77293682 TTTTTATTATT
1 TTTTTATTATT
77293693 TGTTTTAT
1 T-TTTTAT
77293701 AATATTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.67
12 6 0.33
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (11 bp):
TTTTTATTATT
Found at i:77294148 original size:3 final size:3
Alignment explanation
Indices: 77294142--77294169 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
77294132 GAGGAGGAGG
77294142 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
77294170 TGTCTCTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:77296426 original size:34 final size:34
Alignment explanation
Indices: 77296342--77296510 Score: 230
Period size: 35 Copynumber: 4.9 Consensus size: 34
77296332 TTCACAACAA
* * * * *
77296342 AGTATGGTTAATACCATATCTACGTTTCACAACTC
1 AGTATGG-AAATACCATACCTACGTATCATAGCTC
* *
77296377 GGTATGGGAAATACCATACCTACGTATTATAGCTC
1 AGTAT-GGAAATACCATACCTACGTATCATAGCTC
*
77296412 AATATGGAAATACCATACCTACGTATCATAGCTC
1 AGTATGGAAATACCATACCTACGTATCATAGCTC
77296446 AGTATGGACAATACCATACCTACGTATCATAGCTC
1 AGTATGGA-AATACCATACCTACGTATCATAGCTC
*
77296481 AGTATGGGAATACCATACCTACGTATCATA
1 AGTATGGAAATACCATACCTACGTATCATA
77296511 AATTTGCCAA
Statistics
Matches: 120, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
34 57 0.47
35 61 0.51
36 2 0.02
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.28
Consensus pattern (34 bp):
AGTATGGAAATACCATACCTACGTATCATAGCTC
Found at i:77296462 original size:69 final size:69
Alignment explanation
Indices: 77296351--77296511 Score: 234
Period size: 69 Copynumber: 2.3 Consensus size: 69
77296341 AAGTATGGTT
* * * * *
77296351 AATACCATATCTACGTTTCACAACTCGGTATGGGAAATACCATACCTACGTATTATAGCTCAATA
1 AATACCATACCTACGTATCATAACTCAGTATGGGAAATACCATACCTACGTATCATAGCTCAATA
77296416 TGGA
66 TGGA
* *
77296420 AATACCATACCTACGTATCATAGCTCAGTAT-GGACAATACCATACCTACGTATCATAGCTCAGT
1 AATACCATACCTACGTATCATAACTCAGTATGGGA-AATACCATACCTACGTATCATAGCTCAAT
*
77296484 ATGGG
65 ATGGA
77296489 AATACCATACCTACGTATCATAA
1 AATACCATACCTACGTATCATAA
77296512 ATTTGCCAAG
Statistics
Matches: 82, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
68 3 0.04
69 79 0.96
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (69 bp):
AATACCATACCTACGTATCATAACTCAGTATGGGAAATACCATACCTACGTATCATAGCTCAATA
TGGA
Found at i:77299698 original size:16 final size:16
Alignment explanation
Indices: 77299673--77299706 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
77299663 TGTACTCTTC
77299673 ATAAAATTTGAATTTA
1 ATAAAATTTGAATTTA
*
77299689 ATAAATTTTGAATTTA
1 ATAAAATTTGAATTTA
77299705 AT
1 AT
77299707 TTCTATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (16 bp):
ATAAAATTTGAATTTA
Found at i:77308714 original size:18 final size:18
Alignment explanation
Indices: 77308691--77308729 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
77308681 ATTGAAATTT
**
77308691 TTTTTAGTATTTTTTAAA
1 TTTTTAGTATGGTTTAAA
*
77308709 TTTTTATTATGGTTTAAA
1 TTTTTAGTATGGTTTAAA
77308727 TTT
1 TTT
77308730 GTAATTTATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.67
Consensus pattern (18 bp):
TTTTTAGTATGGTTTAAA
Found at i:77309757 original size:21 final size:21
Alignment explanation
Indices: 77309731--77309786 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
77309721 AACAGCGGTG
*
77309731 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
*
77309752 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
77309773 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
77309787 AACATCGGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.25, C:0.09, G:0.38, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:77311983 original size:20 final size:19
Alignment explanation
Indices: 77311940--77311983 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
77311930 GTGTCAATAA
77311940 TATTGAAATGCTATATTTG
1 TATTGAAATGCTATATTTG
* * *
77311959 AATTGAAAATTCTATATTTT
1 TATTG-AAATGCTATATTTG
77311979 TATTG
1 TATTG
77311984 CACGAATGAC
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.50
Consensus pattern (19 bp):
TATTGAAATGCTATATTTG
Found at i:77312650 original size:24 final size:24
Alignment explanation
Indices: 77312618--77312667 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
77312608 TAGACTGGTA
77312618 ATTCAGATCCGATCTCATTTGAGT
1 ATTCAGATCCGATCTCATTTGAGT
77312642 ATTCAGATCCGATCTCATTTGAGT
1 ATTCAGATCCGATCTCATTTGAGT
77312666 AT
1 AT
77312668 ATGTCGTTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.38
Consensus pattern (24 bp):
ATTCAGATCCGATCTCATTTGAGT
Found at i:77317260 original size:54 final size:54
Alignment explanation
Indices: 77317178--77317336 Score: 318
Period size: 54 Copynumber: 2.9 Consensus size: 54
77317168 ATAGTATGTA
77317178 TGACGTTCATATTTTCCAACAATTACTATTCTAATAATTACAATTTCATTCAAT
1 TGACGTTCATATTTTCCAACAATTACTATTCTAATAATTACAATTTCATTCAAT
77317232 TGACGTTCATATTTTCCAACAATTACTATTCTAATAATTACAATTTCATTCAAT
1 TGACGTTCATATTTTCCAACAATTACTATTCTAATAATTACAATTTCATTCAAT
77317286 TGACGTTCATATTTTCCAACAATTACTATTCTAATAATTACAATTTCATTC
1 TGACGTTCATATTTTCCAACAATTACTATTCTAATAATTACAATTTCATTC
77317337 CATTATTCTA
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 105 1.00
ACGTcount: A:0.35, C:0.19, G:0.04, T:0.43
Consensus pattern (54 bp):
TGACGTTCATATTTTCCAACAATTACTATTCTAATAATTACAATTTCATTCAAT
Found at i:77319453 original size:24 final size:23
Alignment explanation
Indices: 77319422--77319481 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 23
77319412 GCTTGTTAAG
77319422 AAAAAAAT-TATGTTAAAAAAAATT
1 AAAAAAATGTATGTT-AAAAAAA-T
*
77319446 AAAAAAATGGTATGTTTAAAAAAT
1 AAAAAAAT-GTATGTTAAAAAAAT
77319470 AAAAAATATGTA
1 AAAAAA-ATGTA
77319482 AAAATCGATT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
24 18 0.56
25 8 0.25
26 6 0.19
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.28
Consensus pattern (23 bp):
AAAAAAATGTATGTTAAAAAAAT
Found at i:77334854 original size:18 final size:18
Alignment explanation
Indices: 77334831--77334865 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
77334821 ATGTCATCTG
*
77334831 TGTATCCCAGCCCTTATA
1 TGTATCCCAACCCTTATA
*
77334849 TGTATCCTAACCCTTAT
1 TGTATCCCAACCCTTAT
77334866 GTGTTTCCTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.31, G:0.09, T:0.37
Consensus pattern (18 bp):
TGTATCCCAACCCTTATA
Found at i:77335294 original size:58 final size:59
Alignment explanation
Indices: 77335222--77335354 Score: 139
Period size: 61 Copynumber: 2.2 Consensus size: 59
77335212 CATGCATTGA
*
77335222 TTTTTTT-AATATATTTGTACA-AATTATTTTTATATTGTT-TC-ATTTAATAAAATAAAAG
1 TTTTTTTGAATAT-TTT-AACACAATTATTTTTATATT-TTATCTATTTAATAAAATAAAAG
* *
77335280 TTTTTTTTGAATATTTTAATAGTCAATTATTTTTATATTTTATCTTATTTAATAAAATAGAAG
1 -TTTTTTTGAATATTTTAACA--CAATTATTTTTATATTTTATC-TATTTAATAAAATAAAAG
*
77335343 TTCTTTTGAATA
1 TTTTTTTGAATA
77335355 AGGCAATAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
58 2 0.03
59 10 0.16
60 7 0.11
61 17 0.27
62 11 0.17
63 16 0.25
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.55
Consensus pattern (59 bp):
TTTTTTTGAATATTTTAACACAATTATTTTTATATTTTATCTATTTAATAAAATAAAAG
Found at i:77338894 original size:125 final size:126
Alignment explanation
Indices: 77338395--77338915 Score: 655
Period size: 126 Copynumber: 4.1 Consensus size: 126
77338385 GCCGAGCAAG
* * *
77338395 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGTTTTTTTCAGTAATTTTGCTGACATTGCATCC
1 AACTACTGTAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
*
77338460 TGCTTAAAGCGTTTTTGACACTATTTTTTCAGAATAGT-TTTATCAAAATTATTTTTTCA-A
66 TGCTTAAAGCGTTTTTGACACTATTTTTTCAGAA-AGTCTTTCTCAAAATTATTTTTTCAGA
* *
77338520 GAACTACTGTAGAAAAAAAGTGTCCACGTAGGAGC-TTTTTCTAGTAATTTTGCTGACAGTGCAT
1 -AACTACTGTAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTC-AGTAATTTTGCTGACAGTGCAT
* * * * *
77338584 CTTGCTTAAAGTGTTTTTGACACTATTTTTTCAGAACCGTC-TTCTCAAAATTATTTTTTTAGG
64 CCTGCTTAAAGCGTTTTTGACACTATTTTTTCAGAA-AGTCTTTCTCAAAATTATTTTTTCAGA
* * * * *
77338647 AACTACTGTAGAAAAAGAGCGTCCTCGTGGGAGCTTTTTTCAATAATTTTGCTGATAGTGCATCT
1 AACTACTGTAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
* * * * *
77338712 TGCTTGATGCGTTTTTGACATTATTTTTTTAGAAATGTC-TTCTCAAAATTATATTTTCAGA
66 TGCTTAAAGCGTTTTTGACACTATTTTTTCAGAAA-GTCTTTCTCAAAATTATTTTTTCAGA
* * * * * *
77338773 AACTACTATAGAAAAAAAGCGTCAACATGGGAGCTTTTTT-AGTACTTTTGCTGACATTACATCC
1 AACTACTGTAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
*
77338837 TGCTTGAAGCGTTTTT-ATCACTATTTTTT-A-AAAGTCATATTCTCAAAATTATTTTTTCAGA
66 TGCTTAAAGCGTTTTTGA-CACTATTTTTTCAGAAAGTC-T-TTCTCAAAATTATTTTTTCAGA
77338898 AACTACTGTAGAAAAAAA
1 AACTACTGTAGAAAAAAA
77338916 AACAAAAACC
Statistics
Matches: 344, Mismatches: 42, Indels: 19
0.85 0.10 0.05
Matches are distributed among these distances:
122 3 0.01
123 3 0.01
124 2 0.01
125 87 0.25
126 243 0.71
127 6 0.02
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.39
Consensus pattern (126 bp):
AACTACTGTAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
TGCTTAAAGCGTTTTTGACACTATTTTTTCAGAAAGTCTTTCTCAAAATTATTTTTTCAGA
Found at i:77339078 original size:34 final size:36
Alignment explanation
Indices: 77338997--77339080 Score: 120
Period size: 34 Copynumber: 2.4 Consensus size: 36
77338987 CTAAACACAA
* *
77338997 AATTATTTTTAAAAACCCTTAAACCCTAATTTAATT
1 AATTTTTTTTTAAAACCCTTAAACCCTAATTTAATT
*
77339033 AA-TTTTATTTAAAACCC-TAAA-CCTAATTTAATT
1 AATTTTTTTTTAAAACCCTTAAACCCTAATTTAATT
77339066 AATTTTTTTTTAAAA
1 AATTTTTTTTTAAAA
77339081 TTAAATCTTG
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
33 14 0.33
34 15 0.35
35 12 0.28
36 2 0.05
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.45
Consensus pattern (36 bp):
AATTTTTTTTTAAAACCCTTAAACCCTAATTTAATT
Found at i:77347653 original size:19 final size:20
Alignment explanation
Indices: 77347629--77347669 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
77347619 ATTTTATATT
77347629 AATAATCATATTAA-TTAAA
1 AATAATCATATTAATTTAAA
*
77347648 AATAATTATATTAATTTAAA
1 AATAATCATATTAATTTAAA
77347668 AA
1 AA
77347670 AAAAAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (20 bp):
AATAATCATATTAATTTAAA
Found at i:77351542 original size:6 final size:6
Alignment explanation
Indices: 77351473--77351539 Score: 89
Period size: 6 Copynumber: 11.2 Consensus size: 6
77351463 ATATAAAGAC
* * *
77351473 AAAATA AACATA AAAATA AAAATA AAGATA AAGATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
* *
77351521 AAAATG AAAATA ATAATA A
1 AAAATA AAAATA AAAATA A
77351540 TAAACATAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 54 1.00
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:77351554 original size:18 final size:18
Alignment explanation
Indices: 77351473--77351555 Score: 91
Period size: 18 Copynumber: 4.8 Consensus size: 18
77351463 ATATAAAGAC
*
77351473 AAAATAAACATAAAAATA
1 AAAATAAAGATAAAAATA
*
77351491 AAAATAAAGATAAAGATA
1 AAAATAAAGATAAAAATA
* *
77351509 AAAATAAAAATAAAAATG
1 AAAATAAAGATAAAAATA
*
77351527 AAAAT--A-ATAATAATA
1 AAAATAAAGATAAAAATA
*
77351542 AACATAAAGATAAA
1 AAAATAAAGATAAA
77351556 TGGACTCAAT
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
15 11 0.21
16 1 0.02
17 1 0.02
18 40 0.75
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.18
Consensus pattern (18 bp):
AAAATAAAGATAAAAATA
Found at i:77353251 original size:22 final size:20
Alignment explanation
Indices: 77353218--77353264 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 20
77353208 AACAAAGCAA
77353218 AATAAAACAATAAGAAAGAGTT
1 AATAAAACAATAA-AAAGAG-T
*
77353240 AATAAAGA-AATAATAAGAGT
1 AATAAA-ACAATAAAAAGAGT
77353260 AATAA
1 AATAA
77353265 TAACTAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 6 0.26
21 5 0.22
22 11 0.48
23 1 0.04
ACGTcount: A:0.66, C:0.02, G:0.13, T:0.19
Consensus pattern (20 bp):
AATAAAACAATAAAAAGAGT
Found at i:77353871 original size:18 final size:20
Alignment explanation
Indices: 77353831--77353871 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
77353821 TCGCTTCTCT
**
77353831 CACGCCTGTGTGGTCTCTTA
1 CACGCCTGTGTGGTCTCGAA
77353851 CACGCCTGTGT-GTC-CGAA
1 CACGCCTGTGTGGTCTCGAA
77353869 CAC
1 CAC
77353872 ATGACCATCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
18 5 0.26
19 3 0.16
20 11 0.58
ACGTcount: A:0.15, C:0.34, G:0.24, T:0.27
Consensus pattern (20 bp):
CACGCCTGTGTGGTCTCGAA
Found at i:77369431 original size:53 final size:53
Alignment explanation
Indices: 77369326--77369433 Score: 139
Period size: 53 Copynumber: 2.0 Consensus size: 53
77369316 CGGATCACAT
* * *
77369326 ATCACACTGATGCCATATCCTAGATATGGTCTTACACAGAAGCACATAATCAC
1 ATCACACCGATGCCATATCCCAGATATGGTCTTACACAGAAACACATAATCAC
* *
77369379 ATCACACCGATGCCATATCCCA-ATTATGGTCTTATACGGAAAACACAT-ATCAC
1 ATCACACCGATGCCATATCCCAGA-TATGGTCTTACACAG-AAACACATAATCAC
77369432 AT
1 AT
77369434 GTTGCCATGG
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
52 1 0.02
53 40 0.83
54 7 0.15
ACGTcount: A:0.36, C:0.27, G:0.12, T:0.25
Consensus pattern (53 bp):
ATCACACCGATGCCATATCCCAGATATGGTCTTACACAGAAACACATAATCAC
Found at i:77371952 original size:21 final size:21
Alignment explanation
Indices: 77371905--77371944 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
77371895 TCACACACAA
*
77371905 GCGTGTGGGATGGTCACATAG
1 GCGTGTGGGATGGCCACATAG
77371926 GCGTGTGGGATGGCCACAT
1 GCGTGTGGGATGGCCACAT
77371945 GGTTGTGTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.17, G:0.42, T:0.23
Consensus pattern (21 bp):
GCGTGTGGGATGGCCACATAG
Found at i:77373390 original size:20 final size:20
Alignment explanation
Indices: 77373365--77373404 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
77373355 GCTATGTATG
77373365 TATTAAGAAAAGATAAGTTA
1 TATTAAGAAAAGATAAGTTA
77373385 TATTAAGAAAAGATAAGTTA
1 TATTAAGAAAAGATAAGTTA
77373405 CAGTATCAAA
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:0.55, C:0.00, G:0.15, T:0.30
Consensus pattern (20 bp):
TATTAAGAAAAGATAAGTTA
Found at i:77373427 original size:8 final size:8
Alignment explanation
Indices: 77373414--77373439 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
77373404 ACAGTATCAA
77373414 ATTAAAAC
1 ATTAAAAC
77373422 ATTAAAAC
1 ATTAAAAC
77373430 ATTAAAAC
1 ATTAAAAC
77373438 AT
1 AT
77373440 ATATTGAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.27
Consensus pattern (8 bp):
ATTAAAAC
Found at i:77375334 original size:24 final size:24
Alignment explanation
Indices: 77375307--77375359 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
77375297 AAAATAAATC
* *
77375307 TTTTTCTACTCTTGAATCGTCAAA
1 TTTTACTACTCTTGAATCGTAAAA
* * *
77375331 TTTTACTCCTTTTGAATCTTAAAA
1 TTTTACTACTCTTGAATCGTAAAA
77375355 TTTTA
1 TTTTA
77375360 TCTGCACAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.26, C:0.17, G:0.06, T:0.51
Consensus pattern (24 bp):
TTTTACTACTCTTGAATCGTAAAA
Found at i:77375447 original size:27 final size:27
Alignment explanation
Indices: 77375417--77375468 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
77375407 GGAACTACCA
77375417 GTGTCGCCTATGACAT-GGACACCACTG
1 GTGTCGCCTATGACATAGG-CACCACTG
* *
77375444 GTGTCGCTTATGTCATAGGCACCAC
1 GTGTCGCCTATGACATAGGCACCAC
77375469 CAAAAAAAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 20 0.91
28 2 0.09
ACGTcount: A:0.21, C:0.29, G:0.25, T:0.25
Consensus pattern (27 bp):
GTGTCGCCTATGACATAGGCACCACTG
Found at i:77382506 original size:4 final size:4
Alignment explanation
Indices: 77382497--77382523 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
77382487 AAATACAGAA
77382497 AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAA
77382524 CACAGACAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:77385531 original size:39 final size:40
Alignment explanation
Indices: 77385454--77385535 Score: 123
Period size: 40 Copynumber: 2.1 Consensus size: 40
77385444 ATTCCACAGC
*
77385454 ACTTCATTTATTCAGTATACATCCTCTGGTGTCAAGTCAA
1 ACTTCATTTATTCAGTATACATACTCTGGTGTCAAGTCAA
*
77385494 ACTTTATTTATTCAGTATACA-ACTCTGGT-TCCAAGTCAA
1 ACTTCATTTATTCAGTATACATACTCTGGTGT-CAAGTCAA
77385533 ACT
1 ACT
77385536 CATGCTGAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
38 1 0.03
39 18 0.46
40 20 0.51
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.38
Consensus pattern (40 bp):
ACTTCATTTATTCAGTATACATACTCTGGTGTCAAGTCAA
Found at i:77393108 original size:65 final size:65
Alignment explanation
Indices: 77392998--77393127 Score: 215
Period size: 65 Copynumber: 2.0 Consensus size: 65
77392988 AAACATTATA
* * *
77392998 TCAAACATCTTCCATACAAAAATTCAGTGCTAGAAAAGTATCCCTATGTACATAGAATTAAACAG
1 TCAAACATCTCCCATACAAAAATTCAGTGCTAGAAAAGCACCCCTATGTACATAGAATTAAACAG
* *
77393063 TCAAACGTCTCCCATACTAAAATTCAGTGCTAGAAAAGCACCCCTATGTACATAGAATTAAACAG
1 TCAAACATCTCCCATACAAAAATTCAGTGCTAGAAAAGCACCCCTATGTACATAGAATTAAACAG
77393128 CTACCAAAAG
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
65 60 1.00
ACGTcount: A:0.42, C:0.22, G:0.12, T:0.25
Consensus pattern (65 bp):
TCAAACATCTCCCATACAAAAATTCAGTGCTAGAAAAGCACCCCTATGTACATAGAATTAAACAG
Found at i:77395505 original size:6 final size:6
Alignment explanation
Indices: 77395476--77395521 Score: 56
Period size: 6 Copynumber: 7.3 Consensus size: 6
77395466 TTTAATGAGG
* *
77395476 TTAACAA TTAAAC TTAAATT TTAAAA TTAAAA TTAAAA TTAAAA TT
1 TTAA-AA TTAAAA TTAAA-A TTAAAA TTAAAA TTAAAA TTAAAA TT
77395522 TATAAAAGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
6 26 0.74
7 9 0.26
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (6 bp):
TTAAAA
Found at i:77403611 original size:45 final size:46
Alignment explanation
Indices: 77403502--77403625 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
77403492 GTGATAAGTG
* *
77403502 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
77403548 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
77403593 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
77403626 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:77411099 original size:37 final size:37
Alignment explanation
Indices: 77411058--77411196 Score: 233
Period size: 37 Copynumber: 3.8 Consensus size: 37
77411048 TTTGAGTACT
77411058 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
77411095 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
77411132 TCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
** *
77411169 TCTGATCAAGTGATAAAGTGATAAGTGG
1 TCTGATCAAGAAACAAAGTGATAAGTGG
77411197 TAGCTTCAGC
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 97 1.00
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.26
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:77411268 original size:45 final size:46
Alignment explanation
Indices: 77411159--77411282 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
77411149 GTGATAAGTG
* *
77411159 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
77411205 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
77411250 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
77411283 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:77418798 original size:46 final size:44
Alignment explanation
Indices: 77418745--77418868 Score: 178
Period size: 46 Copynumber: 2.8 Consensus size: 44
77418735 GTGATAAGTG
*
77418745 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGA-AAAGTGATAAGTGGTAGCCT-A
*
77418791 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCTA
1 GCTACACTTATCTGATCAAGT-GAAAAGTGATAAGTGGTAGCCTA
* *
77418836 ACTACACTTATCTGATCAAG-GACAAGTGATAAG
1 GCTACACTTATCTGATCAAGTGAAAAGTGATAAG
77418869 AGGTCATATG
Statistics
Matches: 72, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
43 11 0.15
45 20 0.28
46 40 0.56
47 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (44 bp):
GCTACACTTATCTGATCAAGTGAAAAGTGATAAGTGGTAGCCTA
Found at i:77421959 original size:41 final size:42
Alignment explanation
Indices: 77421891--77422183 Score: 154
Period size: 46 Copynumber: 7.0 Consensus size: 42
77421881 ATTGCTATAA
*
77421891 CTCAGTATGGTTTTTCTTCACGGAAATATC-ATACCTACTTTT
1 CTCAGTATGGTTTTTCTTCACCGAAATA-CAATACCTACTTTT
*
77421933 CTCAGTATGG-TTTTCTTTACCGAAATACAATACCTACTTTT
1 CTCAGTATGGTTTTTCTTCACCGAAATACAATACCTACTTTT
* * ** **
77421974 CATC-G-A---TTTAT-TT----GAATATTTCACATTGCTA--TAA
1 C-TCAGTATGGTTTTTCTTCACCGAA-A-TACA-ATACCTACTTTT
*
77422008 CTCAGTATGGTTTTTCTTCACGGAAATATC-ATACCTACTTTT
1 CTCAGTATGGTTTTTCTTCACCGAAATA-CAATACCTACTTTT
* *
77422050 CTCAGTATGG-TTTTCTTTACCGAAATACCATACCTACTTTT
1 CTCAGTATGGTTTTTCTTCACCGAAATACAATACCTACTTTT
* * * *
77422091 CACAACTCAGTATGG-TTTTCTTTATCGAAATACCATAGCTACTTTT
1 -----CTCAGTATGGTTTTTCTTCACCGAAATACAATACCTACTTTT
* * *
77422137 CACAACTCAGTATGG-TTTTCTTCACTGAAATACCATACCTACGTTT
1 -----CTCAGTATGGTTTTTCTTCACCGAAATACAATACCTACTTTT
77422183 C
1 C
77422184 ACACTTTGCC
Statistics
Matches: 203, Mismatches: 23, Indels: 51
0.73 0.08 0.18
Matches are distributed among these distances:
33 5 0.02
34 4 0.02
35 4 0.02
36 5 0.02
37 2 0.01
38 7 0.03
39 2 0.01
40 8 0.04
41 58 0.29
42 25 0.12
43 3 0.01
46 80 0.39
ACGTcount: A:0.27, C:0.22, G:0.11, T:0.41
Consensus pattern (42 bp):
CTCAGTATGGTTTTTCTTCACCGAAATACAATACCTACTTTT
Found at i:77422066 original size:117 final size:117
Alignment explanation
Indices: 77421860--77422092 Score: 457
Period size: 117 Copynumber: 2.0 Consensus size: 117
77421850 CTTGGTGCTA
77421860 CGATTTATTTGAATATTTCACATTGCTATAACTCAGTATGGTTTTTCTTCACGGAAATATCATAC
1 CGATTTATTTGAATATTTCACATTGCTATAACTCAGTATGGTTTTTCTTCACGGAAATATCATAC
77421925 CTACTTTTCTCAGTATGGTTTTCTTTACCGAAATACAATACCTACTTTTCAT
66 CTACTTTTCTCAGTATGGTTTTCTTTACCGAAATACAATACCTACTTTTCAT
77421977 CGATTTATTTGAATATTTCACATTGCTATAACTCAGTATGGTTTTTCTTCACGGAAATATCATAC
1 CGATTTATTTGAATATTTCACATTGCTATAACTCAGTATGGTTTTTCTTCACGGAAATATCATAC
*
77422042 CTACTTTTCTCAGTATGGTTTTCTTTACCGAAATACCATACCTACTTTTCA
66 CTACTTTTCTCAGTATGGTTTTCTTTACCGAAATACAATACCTACTTTTCA
77422093 CAACTCAGTA
Statistics
Matches: 115, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
117 115 1.00
ACGTcount: A:0.27, C:0.20, G:0.10, T:0.42
Consensus pattern (117 bp):
CGATTTATTTGAATATTTCACATTGCTATAACTCAGTATGGTTTTTCTTCACGGAAATATCATAC
CTACTTTTCTCAGTATGGTTTTCTTTACCGAAATACAATACCTACTTTTCAT
Found at i:77422120 original size:46 final size:46
Alignment explanation
Indices: 77422006--77422186 Score: 239
Period size: 46 Copynumber: 4.0 Consensus size: 46
77421996 ACATTGCTAT
*
77422006 AACTCAGTATGGTTTTTCTTCACGGAAATATCATACCTACTTTT---
1 AACTCAGTATGG-TTTTCTTCACGGAAATACCATACCTACTTTTCAC
* *
77422050 --CTCAGTATGGTTTTCTTTACCGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCAC
* *
77422094 AACTCAGTATGGTTTTCTTTATC-GAAATACCATAGCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCA-CGGAAATACCATACCTACTTTTCAC
* *
77422140 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACGTTTCAC
1 AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCAC
77422186 A
1 A
77422187 CTTTGCCATG
Statistics
Matches: 123, Mismatches: 7, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
41 28 0.23
42 10 0.08
45 1 0.01
46 83 0.67
47 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.10, T:0.38
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCAC
Found at i:77431038 original size:18 final size:17
Alignment explanation
Indices: 77430991--77431038 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
77430981 TGTCGTTCGT
*
77430991 TTTCAAAACATTATTCA
1 TTTCAAAACGTTATTCA
* *
77431008 TTTACAGATCGTTATTCAA
1 TTT-CAAAACGTTATTC-A
77431027 TTTCAAAACGTT
1 TTTCAAAACGTT
77431039 TATTTTTATT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
17 3 0.12
18 17 0.71
19 4 0.17
ACGTcount: A:0.35, C:0.17, G:0.06, T:0.42
Consensus pattern (17 bp):
TTTCAAAACGTTATTCA
Found at i:77434093 original size:39 final size:39
Alignment explanation
Indices: 77434033--77434179 Score: 186
Period size: 39 Copynumber: 3.8 Consensus size: 39
77434023 ACTTCCAATA
* * **
77434033 CACCGGCACACAGCCTGCTAGGCACAAAGCCCGAATAAT
1 CACCGGCACAAAGCCTACTAGGCACTTAGCCCGAATAAT
* *
77434072 GACCGGCACAAAGCCTACTAGGAACTTAGCCCGAATAAT
1 CACCGGCACAAAGCCTACTAGGCACTTAGCCCGAATAAT
* * * *
77434111 TACCGGCACAAATCCTGCTAGGCACTTAGCCTGAATAAT
1 CACCGGCACAAAGCCTACTAGGCACTTAGCCCGAATAAT
* *
77434150 CATCGGCACAAAGCCTACTGGGCACTTAGC
1 CACCGGCACAAAGCCTACTAGGCACTTAGC
77434180 TTGAATTTAG
Statistics
Matches: 92, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 92 1.00
ACGTcount: A:0.32, C:0.31, G:0.20, T:0.16
Consensus pattern (39 bp):
CACCGGCACAAAGCCTACTAGGCACTTAGCCCGAATAAT
Found at i:77434163 original size:78 final size:78
Alignment explanation
Indices: 77434034--77434179 Score: 211
Period size: 78 Copynumber: 1.9 Consensus size: 78
77434024 CTTCCAATAC
* *
77434034 ACCGGCACACAGCCTGCTAGGCACAAAGCCCGAATAATGACCGGCACAAAGCCTACTAGGAACTT
1 ACCGGCACAAAGCCTGCTAGGCACAAAGCCCGAATAATCACCGGCACAAAGCCTACTAGGAACTT
77434099 AGCCCGAATAATT
66 AGCCCGAATAATT
* ** * * * *
77434112 ACCGGCACAAATCCTGCTAGGCACTTAGCCTGAATAATCATCGGCACAAAGCCTACTGGGCACTT
1 ACCGGCACAAAGCCTGCTAGGCACAAAGCCCGAATAATCACCGGCACAAAGCCTACTAGGAACTT
77434177 AGC
66 AGC
77434180 TTGAATTTAG
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
78 59 1.00
ACGTcount: A:0.32, C:0.31, G:0.21, T:0.16
Consensus pattern (78 bp):
ACCGGCACAAAGCCTGCTAGGCACAAAGCCCGAATAATCACCGGCACAAAGCCTACTAGGAACTT
AGCCCGAATAATT
Found at i:77434602 original size:17 final size:18
Alignment explanation
Indices: 77434572--77434613 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
77434562 TCGAAATTCA
*
77434572 TCAAATTAACTAATTT-TC
1 TCAAA-TAAATAATTTATC
77434590 TCAAATAAATAATTTATC
1 TCAAATAAATAATTTATC
77434608 -CAAATA
1 TCAAATA
77434614 TTCTAAGCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (18 bp):
TCAAATAAATAATTTATC
Found at i:77438016 original size:20 final size:20
Alignment explanation
Indices: 77437993--77438032 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
77437983 CTATTCAAAC
*
77437993 AATATTA-ATTGAATAGTTAT
1 AATATTAGA-TGAATAATTAT
77438013 AATATTAGATGAATAATTAT
1 AATATTAGATGAATAATTAT
77438033 GTCTCTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.42
Consensus pattern (20 bp):
AATATTAGATGAATAATTAT
Found at i:77438101 original size:13 final size:15
Alignment explanation
Indices: 77438069--77438103 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
77438059 GAAAAGACAC
77438069 CTATAAAAAATGTCT
1 CTATAAAAAATGTCT
77438084 CTATAAAAAAT-TCT
1 CTATAAAAAATGTCT
77438098 -TATAAA
1 CTATAAA
77438104 TAGTAATGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 6 0.30
14 3 0.15
15 11 0.55
ACGTcount: A:0.51, C:0.11, G:0.03, T:0.34
Consensus pattern (15 bp):
CTATAAAAAATGTCT
Found at i:77439429 original size:11 final size:11
Alignment explanation
Indices: 77439413--77439465 Score: 51
Period size: 11 Copynumber: 5.0 Consensus size: 11
77439403 GATAATCACT
77439413 TTAATATTAAA
1 TTAATATTAAA
77439424 TTAATA--AAA
1 TTAATATTAAA
77439433 -TAAGTATTAAA
1 TTAA-TATTAAA
*
77439444 TTTAAT-TTAAT
1 -TTAATATTAAA
77439455 TTAATATTAAA
1 TTAATATTAAA
77439466 CTATTAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
8 3 0.09
9 5 0.15
10 5 0.15
11 17 0.50
12 1 0.03
13 3 0.09
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:77440697 original size:30 final size:30
Alignment explanation
Indices: 77440661--77440719 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
77440651 TATCAAAGCA
* *
77440661 CATGAGTTGCATATACATGGTCAGTGACTG
1 CATGAGTTGCATACACATGATCAGTGACTG
*
77440691 CATGAGTTGCATACGCATGATCAGTGACT
1 CATGAGTTGCATACACATGATCAGTGACT
77440720 AAATCATGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (30 bp):
CATGAGTTGCATACACATGATCAGTGACTG
Found at i:77450033 original size:19 final size:20
Alignment explanation
Indices: 77449997--77450034 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
77449987 AGATGACATA
77449997 TAAATATTTAATTAATATTT
1 TAAATATTTAATTAATATTT
*
77450017 TAAATTTTTAA-TAATATT
1 TAAATATTTAATTAATATT
77450035 AAAAAATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TAAATATTTAATTAATATTT
Found at i:77450680 original size:41 final size:41
Alignment explanation
Indices: 77450620--77450713 Score: 125
Period size: 41 Copynumber: 2.2 Consensus size: 41
77450610 CCGAATATAA
*
77450620 TAAATATATTTTTTATTTTTATTTTTTAAATTTAAAATACTTT
1 TAAA-ATA-TTTTTATTTTTATTTTTTAAATTTAAAATAATTT
**
77450663 TAAAATATTTTTATTTTTATTTTTTATTTTTAAAATAATTT
1 TAAAATATTTTTATTTTTATTTTTTAAATTTAAAATAATTT
**
77450704 TTTAATATTT
1 TAAAATATTT
77450714 ATTAAAAAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
41 39 0.85
42 3 0.07
43 4 0.09
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (41 bp):
TAAAATATTTTTATTTTTATTTTTTAAATTTAAAATAATTT
Found at i:77450688 original size:13 final size:13
Alignment explanation
Indices: 77450670--77450694 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
77450660 TTTTAAAATA
77450670 TTTTTATTTTTAT
1 TTTTTATTTTTAT
77450683 TTTTTATTTTTA
1 TTTTTATTTTTA
77450695 AAATAATTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTATTTTTAT
Found at i:77450816 original size:16 final size:16
Alignment explanation
Indices: 77450795--77450831 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
77450785 CCTAGTAGTT
77450795 GGCCCGAACCCGGCCC
1 GGCCCGAACCCGGCCC
*
77450811 GGCCCGAACCCGGCCT
1 GGCCCGAACCCGGCCC
77450827 GGCCC
1 GGCCC
77450832 ATGGACAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.11, C:0.54, G:0.32, T:0.03
Consensus pattern (16 bp):
GGCCCGAACCCGGCCC
Found at i:77454954 original size:25 final size:25
Alignment explanation
Indices: 77454926--77454975 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
77454916 AAAGAAAACT
77454926 AAGATATTATAAAATTGAAAAATGA
1 AAGATATTATAAAATTGAAAAATGA
77454951 AAGATATTATAAAATTGAAAAATGA
1 AAGATATTATAAAATTGAAAAATGA
77454976 GTATGCGTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.28
Consensus pattern (25 bp):
AAGATATTATAAAATTGAAAAATGA
Found at i:77467799 original size:42 final size:42
Alignment explanation
Indices: 77467709--77467819 Score: 163
Period size: 42 Copynumber: 2.6 Consensus size: 42
77467699 GAAAAGGGCA
77467709 ACTCAAATATTGATTAGAATGGGGCATGAGGTGATCTGAGTG
1 ACTCAAATATTGATTAGAATGGGGCATGAGGTGATCTGAGTG
*
77467751 ACTCAAATATTGATCAGAATGGGGCATGAGGTGATCTGAGT-
1 ACTCAAATATTGATTAGAATGGGGCATGAGGTGATCTGAGTG
* *
77467792 AGTTCAAAT-TTGGATTAGATTGGGGCAT
1 A-CTCAAATATT-GATTAGAATGGGGCAT
77467820 ATGACAAGAT
Statistics
Matches: 63, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
41 3 0.05
42 60 0.95
ACGTcount: A:0.31, C:0.10, G:0.30, T:0.30
Consensus pattern (42 bp):
ACTCAAATATTGATTAGAATGGGGCATGAGGTGATCTGAGTG
Found at i:77468424 original size:43 final size:43
Alignment explanation
Indices: 77468376--77468597 Score: 152
Period size: 43 Copynumber: 5.0 Consensus size: 43
77468366 CTCTCTGAGC
77468376 AGCAGTGGAGTAGGTTGAAATAAATACAGATCTTATCTCCCTA
1 AGCAGTGGAGTAGGTTGAAATAAATACAGATCTTATCTCCCTA
* * * **
77468419 AGCAGT--AGT-GG-AGCAAATTGAAGACCCCATCCTTATCTCCCTAA
1 AGCAGTGGAGTAGGTTG-AAA-TAAATA-CAGAT-CTTATCTCCCT-A
77468463 GTAGCAGTGGAGTAGGTTGAAATAAATACAGATCTTATCTCCCTA
1 --AGCAGTGGAGTAGGTTGAAATAAATACAGATCTTATCTCCCTA
* * * *** * *
77468508 AGCAGTAGTGGAGCAGGTCG-AA-GACCCCAG-CCTTGTCTCCCTGA
1 AGC---AGTGGAGTAGGTTGAAATAAATACAGATCTTATCTCCCT-A
*
77468552 GCAGTAGTGGAGTAGGTTGAAATAAATACAGATCTTATCTCCCTA
1 --AGCAGTGGAGTAGGTTGAAATAAATACAGATCTTATCTCCCTA
77468597 A
1 A
77468598 AAACAGTAGT
Statistics
Matches: 132, Mismatches: 27, Indels: 40
0.66 0.14 0.20
Matches are distributed among these distances:
39 1 0.01
40 5 0.04
41 7 0.05
42 3 0.02
43 43 0.33
44 8 0.06
45 8 0.06
46 41 0.31
47 3 0.02
48 7 0.05
49 5 0.04
50 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.25
Consensus pattern (43 bp):
AGCAGTGGAGTAGGTTGAAATAAATACAGATCTTATCTCCCTA
Found at i:77468645 original size:91 final size:90
Alignment explanation
Indices: 77468358--77469652 Score: 1994
Period size: 91 Copynumber: 14.3 Consensus size: 90
77468348 GAAACCACAA
* * * *
77468358 AGCCTTGTC-TCTCTGAGCAGCAGTGGAGTAGGTTG-AAATAAATACAGATCTTATCTCCCTAAG
1 AGCCTTGTCTTC-CTGAGCAGTAGTGGAGTAGGTTGAAAAAAAATACAGATCTTATCTCTCTAAA
*
77468421 CAGTAGTGGAGCAAATTGAAGACCCC
65 CAGTAGTGGAGCAGATTGAAGACCCC
* * * * * * * * *
77468447 ATCCTTATCTCCCTAAGTAGCAGTGGAGTAGGTTG-AAATAAATACAGATCTTATCTCCCTAAGC
1 AGCCTTGTCTTCCTGAGCAGTAGTGGAGTAGGTTGAAAAAAAATACAGATCTTATCTCTCTAAAC
* *
77468511 AGTAGTGGAGCAGGTCGAAGACCCC
66 AGTAGTGGAGCAGATTGAAGACCCC
* * *
77468536 AGCCTTGTCTCCCTGAGCAGTAGTGGAGTAGGTTG-AAATAAATACAGATCTTATCTCCCTAAAA
1 AGCCTTGTCTTCCTGAGCAGTAGTGGAGTAGGTTGAAAAAAAATACAGATCTTATCTCTCT--AA
77468600 ACAGTAGTGGAGCAGATTGAAGACCCC
64 ACAGTAGTGGAGCAGATTGAAGACCCC
77468627 AGCCTTGTCTTCCTGAGCAGTAGTGGAGTAGGTTGAAAAAAAAATACAGATCTTATCTCTCTAAA
1 AGCCTTGTCTTCCTGAGCAGTAGTGGAGTAGGTTG-AAAAAAAATACAGATCTTATCTCTCTAAA
77468692 CAGTAGTGGAGCAGATTGAAGACCCC
65 CAGTAGTGGAGCAGATTGAAGACCCC
77468718 AGCCTTGTCTTCCTGAGCAGTAGTGGAGTAGGTTGAAAAAAAAATACAGATCTTATCTCTCTAAA
1 AGCCTTGTCTTCCTGAGCAGTAGTGGAGTAGGTTG-AAAAAAAATACAGATCTTATCTCTCTAAA
77468783 CAGTAGTGGAGCAGATTGAAGACCCC
65 CAGTAGTGGAGCAGATTGAAGACCCC
77468809 AGCCTTGTCTTCCTGAGCAGTAGTGGAGTAGGTTGAAAAAAAAATACAGATCTTATCTCTCTAAA
1 AGCCTTGTCTTCCTGAGCAGTAGTGGAGTAGGTTG-AAAAAAAATACAGATCTTATCTCTCTAAA
77468874 CAGTAGTGGAGCAGATTGAAGACCCC
65 CAGTAGTGGAGCAGATTGAAGACCCC
77468900 AGCCTTGTCTTCCTGAGCAGTAGTGGAGTAGGTTGAAAAAAAAATACAGATCTTATCTCTCTAAA
1 AGCCTTGTCTTCCTGAGCAGTAGTGGAGTAGGTTG-AAAAAAAATACAGATCTTATCTCTCTAAA
77468965 CAGTAGTGGAGCAGATTGAAGACCCC
65 CAGTAGTGGAGCAGATTGAAGACCCC
77468991 AGCCTTGTCTTCCTGAGCAGTAGTGGAGTAGGTTGAAAAAAAAATACAGATCTTATCTCTCTAAA
1 AGCCTTGTCTTCCTGAGCAGTAGTGGAGTAGGTTG-AAAAAAAATACAGATCTTATCTCTCTAAA
77469056 CAGTAGTGGAGCAGATTGAAGACCCC
65 CAGTAGTGGAGCAGATTGAAGACCCC
77469082 AGCCTTGTCTTCCTGAGCAGTAGTGGAGTAGGTTGAAAAAAAAATACAGATCTTATCTCTCTAAA
1 AGCCTTGTCTTCCTGAGCAGTAGTGGAGTAGGTTG-AAAAAAAATACAGATCTTATCTCTCTAAA
77469147 CAGTAGTGGAGCAGATTGAAGACCCC
65 CAGTAGTGGAGCAGATTGAAGACCCC
77469173 AGCCTTGTCTTCCTGAGCAGTAGTGGAGTAGGTTGAAAAAAAAATACAGATCTTATCTCTCTAAA
1 AGCCTTGTCTTCCTGAGCAGTAGTGGAGTAGGTTG-AAAAAAAATACAGATCTTATCTCTCTAAA
77469238 CAGTAGTGGAGCAGATTGAAGACCCC
65 CAGTAGTGGAGCAGATTGAAGACCCC
77469264 AGCCTTGTCTTCCTGAGCAGTAGTGGAGTAGGTTGAAAAAAAAATACAGATCTTATCTCTCTAAA
1 AGCCTTGTCTTCCTGAGCAGTAGTGGAGTAGGTTG-AAAAAAAATACAGATCTTATCTCTCTAAA
77469329 CAGTAGTGGAGCAGATTGAAGACCCC
65 CAGTAGTGGAGCAGATTGAAGACCCC
* * *
77469355 AGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAAAAATATATAGATCTTATCTC-CTTA
1 AGCCTTGTCTTCCTGAGCAGTAGTGGAGTAGGTTG-AAAAAAA-ATACAGATCTTATCTCTC-TA
* * *
77469419 AGCAGTAGTGGAGCAGATCGAAGACCCT
63 AACAGTAGTGGAGCAGATTGAAGACCCC
* * * *
77469447 AGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAAAAAATACAGATATTATCTCCCTAAG
1 AGCCTTGTCTTCCTGAGCAGTAGTGGAGTAGGTTG-AAAAAAAATACAGATCTTATCTCTCTAA-
*
77469512 A-AGTAGTGGAGCAGATCGAAGACCCC
64 ACAGTAGTGGAGCAGATTGAAGACCCC
* * * ** * * * * *
77469538 AGCCTTCTCTCCCTCAGCAACAATGGAGGAGGTTG--AAAAATTACAGATCTTATCTCCCTAAGC
1 AGCCTTGTCTTCCTGAGCAGTAGTGGAGTAGGTTGAAAAAAAATACAGATCTTATCTCTCTAAAC
*
77469601 AGTAGTGGAGCAGATCGAAGACCCC
66 AGTAGTGGAGCAGATTGAAGACCCC
* * *
77469626 AGCCTTGCCTCCCTGAGCAGCAGTGGA
1 AGCCTTGTCTTCCTGAGCAGTAGTGGA
77469653 CGGAGCGGAT
Statistics
Matches: 1154, Mismatches: 42, Indels: 21
0.95 0.03 0.02
Matches are distributed among these distances:
88 71 0.06
89 134 0.12
90 1 0.00
91 839 0.73
92 86 0.07
93 23 0.02
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.24
Consensus pattern (90 bp):
AGCCTTGTCTTCCTGAGCAGTAGTGGAGTAGGTTGAAAAAAAATACAGATCTTATCTCTCTAAAC
AGTAGTGGAGCAGATTGAAGACCCC
Found at i:77469748 original size:41 final size:41
Alignment explanation
Indices: 77469671--77469748 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
77469661 ATTAAAATAA
* * *
77469671 CAGATCTTATCTCTCTGAAGTTACAGTAGAGGAGATCACAT
1 CAGATCTTATCTCCCTGAAGTTACAGCAGAGCAGATCACAT
* *
77469712 CAGATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATC
1 CAGATCTTATCTCCCTGAAGTTACAGCAGAGCAGATC
77469749 GAAGAAGCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (41 bp):
CAGATCTTATCTCCCTGAAGTTACAGCAGAGCAGATCACAT
Found at i:77470051 original size:16 final size:17
Alignment explanation
Indices: 77470030--77470067 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
77470020 CATACATTTC
77470030 AAAAAAACA-AACAAAT
1 AAAAAAACATAACAAAT
* *
77470046 AAAAAAATATAATAAAT
1 AAAAAAACATAACAAAT
77470063 AAAAA
1 AAAAA
77470068 TAAAGCCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.82, C:0.05, G:0.00, T:0.13
Consensus pattern (17 bp):
AAAAAAACATAACAAAT
Found at i:77473825 original size:62 final size:62
Alignment explanation
Indices: 77473745--77473896 Score: 159
Period size: 62 Copynumber: 2.5 Consensus size: 62
77473735 GGTTATGTAT
* * * * *
77473745 ATATGTGTTTTAAATTCTATAAGTT-AAA-AAAATGTATGAATTGTATATATATGTCTTAGCC-A
1 ATATATGTTTTGAGTTCTATAAGTTGAAACAAAATGTAT-AAAT-TATATATATAT-TTAGCCAA
* * *
77473807 ATGTATGTTTTGAGTTCTATAAATTGAAACAAATTGTATAAATTATATATATATTTAGCCAA
1 ATATATGTTTTGAGTTCTATAAGTTGAAACAAAATGTATAAATTATATATATATTTAGCCAA
*
77473869 ATATATGTGTTGAGATTC-ATAAGTTGAA
1 ATATATGTTTTGAG-TTCTATAAGTTGAA
77473897 TGTAATTATA
Statistics
Matches: 75, Mismatches: 11, Indels: 8
0.80 0.12 0.09
Matches are distributed among these distances:
61 6 0.08
62 52 0.69
63 9 0.12
64 8 0.11
ACGTcount: A:0.39, C:0.06, G:0.14, T:0.41
Consensus pattern (62 bp):
ATATATGTTTTGAGTTCTATAAGTTGAAACAAAATGTATAAATTATATATATATTTAGCCAA
Found at i:77473913 original size:62 final size:62
Alignment explanation
Indices: 77473779--77473920 Score: 153
Period size: 62 Copynumber: 2.3 Consensus size: 62
77473769 TAAAAAAATG
* * * *
77473779 TATGAATTGTATATATATGTCTTAGCCAATGTATGTTTTGAGTTCTATAAATTGAAACAAATTG
1 TATGAA-T-TATATATATATCTTAGCCAATATATGTGTTGAGTTCTATAAATTGAAACAAATTA
* * ***
77473843 TATAAATTATATATATAT-TTAGCCAAATATATGTGTTGAGATTC-ATAAGTTGAATGTAATTA
1 TATGAATTATATATATATCTTAGCC-AATATATGTGTTGAG-TTCTATAAATTGAAACAAATTA
77473905 TATGAATTATATATAT
1 TATGAATTATATATAT
77473921 GTTAGTCGAA
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
61 6 0.09
62 51 0.77
63 4 0.06
64 5 0.08
ACGTcount: A:0.38, C:0.06, G:0.13, T:0.43
Consensus pattern (62 bp):
TATGAATTATATATATATCTTAGCCAATATATGTGTTGAGTTCTATAAATTGAAACAAATTA
Found at i:77481909 original size:62 final size:60
Alignment explanation
Indices: 77481792--77481938 Score: 154
Period size: 62 Copynumber: 2.4 Consensus size: 60
77481782 AAAATGTATG
* * * *
77481792 AATTGTATATA-TATATATCTATTAGCCAATGTATGTTTTGAGTTCTATAAATTGAAACA
1 AATTGTATAAATTATATATATATTAGCCAATATATGTGTTGAGTTCTATAAATTGAAACA
* ***
77481851 AATTGTATAAATTATATATATATTTAGCCAAATATATGTGTTGAGATTC-ATAAGTTGAATGT
1 AATTGTATAAATTATATATATA-TTAGCC-AATATATGTGTTGAG-TTCTATAAATTGAAACA
* * *
77481913 AATTATATGAATTATATATATGTTAG
1 AATTGTATAAATTATATATATATTAG
77481939 TCGAATGTAC
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
59 10 0.14
60 9 0.12
61 10 0.14
62 41 0.56
63 3 0.04
ACGTcount: A:0.39, C:0.05, G:0.13, T:0.43
Consensus pattern (60 bp):
AATTGTATAAATTATATATATATTAGCCAATATATGTGTTGAGTTCTATAAATTGAAACA
Found at i:77484087 original size:15 final size:14
Alignment explanation
Indices: 77484049--77484087 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
77484039 GAAACCCTAC
77484049 TTTTCCTTTTTCTT
1 TTTTCCTTTTTCTT
*
77484063 TTCTTTCTTTTTCCTT
1 TT-TTCCTTTTT-CTT
77484079 TTTTCCTTT
1 TTTTCCTTT
77484088 CTCTATTCGT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
14 2 0.10
15 14 0.67
16 5 0.24
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTCCTTTTTCTT
Found at i:77489605 original size:31 final size:31
Alignment explanation
Indices: 77489570--77489631 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
77489560 TGAAAGGGGT
*
77489570 AAGTCTTGGTGAAAGGGAAAAAATTTTGTGA
1 AAGTCTTGGTGAAAGGGAAAAAAATTTGTGA
77489601 AAGTCTTGGTGAAAGGGAAAAAAATTTGTGA
1 AAGTCTTGGTGAAAGGGAAAAAAATTTGTGA
77489632 CTTATGAGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.40, C:0.03, G:0.29, T:0.27
Consensus pattern (31 bp):
AAGTCTTGGTGAAAGGGAAAAAAATTTGTGA
Found at i:77498128 original size:27 final size:28
Alignment explanation
Indices: 77498091--77498143 Score: 83
Period size: 27 Copynumber: 1.9 Consensus size: 28
77498081 ATGTTCTAAT
77498091 ATTTGTGTATAATTTTTAT-ATTTTTATG
1 ATTTGTGTAT-ATTTTTATGATTTTTATG
77498119 ATTT-TGTATATTTTTATGATTTTTA
1 ATTTGTGTATATTTTTATGATTTTTA
77498144 ATGTTTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 8 0.33
27 12 0.50
28 4 0.17
ACGTcount: A:0.25, C:0.00, G:0.09, T:0.66
Consensus pattern (28 bp):
ATTTGTGTATATTTTTATGATTTTTATG
Found at i:77498150 original size:9 final size:9
Alignment explanation
Indices: 77498102--77498143 Score: 61
Period size: 9 Copynumber: 4.8 Consensus size: 9
77498092 TTTGTGTATA
77498102 ATTTTTAT-
1 ATTTTTATG
77498110 ATTTTTATG
1 ATTTTTATG
77498119 ATTTTGTAT-
1 ATTTT-TATG
77498128 ATTTTTATG
1 ATTTTTATG
77498137 ATTTTTA
1 ATTTTTA
77498144 ATGTTTTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
8 11 0.35
9 17 0.55
10 3 0.10
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (9 bp):
ATTTTTATG
Found at i:77498150 original size:18 final size:17
Alignment explanation
Indices: 77498102--77498143 Score: 75
Period size: 18 Copynumber: 2.4 Consensus size: 17
77498092 TTTGTGTATA
77498102 ATTTTTATATTTTTATG
1 ATTTTTATATTTTTATG
77498119 ATTTTGTATATTTTTATG
1 ATTTT-TATATTTTTATG
77498137 ATTTTTA
1 ATTTTTA
77498144 ATGTTTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 7 0.29
18 17 0.71
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (17 bp):
ATTTTTATATTTTTATG
Found at i:77498150 original size:27 final size:27
Alignment explanation
Indices: 77498087--77498150 Score: 78
Period size: 27 Copynumber: 2.3 Consensus size: 27
77498077 TGTAATGTTC
*
77498087 TAATATTTGTGTATAATTTTTATATTTT
1 TAATGTTT-TGTATAATTTTTATATTTT
77498115 T-ATGATTTTGTAT-ATTTTTATGATTTT
1 TAATG-TTTTGTATAATTTTTAT-ATTTT
77498142 TAATGTTTT
1 TAATGTTTT
77498151 AAAATATCTT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
26 8 0.25
27 17 0.53
28 7 0.22
ACGTcount: A:0.25, C:0.00, G:0.09, T:0.66
Consensus pattern (27 bp):
TAATGTTTTGTATAATTTTTATATTTT
Found at i:77511147 original size:26 final size:26
Alignment explanation
Indices: 77511111--77511160 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
77511101 CTGACATTAT
77511111 AGGGCTGCTAACACTAGATTCAGATC
1 AGGGCTGCTAACACTAGATTCAGATC
* *
77511137 AGGGTTGCTAACACTAGCTTCAGA
1 AGGGCTGCTAACACTAGATTCAGA
77511161 GAATCCACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (26 bp):
AGGGCTGCTAACACTAGATTCAGATC
Found at i:77511639 original size:19 final size:20
Alignment explanation
Indices: 77511584--77511646 Score: 69
Period size: 19 Copynumber: 3.2 Consensus size: 20
77511574 TCACATGTAT
77511584 ATAAATTAATAAATATAATC
1 ATAAATTAATAAATATAATC
* *
77511604 ATACAATT--CAAACATAAT-
1 ATA-AATTAATAAATATAATC
*
77511622 ATAAGTTAATAAATATAATC
1 ATAAATTAATAAATATAATC
77511642 ATAAA
1 ATAAA
77511647 ATTCCATATG
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
17 3 0.09
18 3 0.09
19 16 0.48
20 7 0.21
21 4 0.12
ACGTcount: A:0.59, C:0.08, G:0.02, T:0.32
Consensus pattern (20 bp):
ATAAATTAATAAATATAATC
Found at i:77512546 original size:62 final size:62
Alignment explanation
Indices: 77512471--77512590 Score: 186
Period size: 62 Copynumber: 1.9 Consensus size: 62
77512461 ACCTGACTAG
*
77512471 TGCATGGTGAACCTTGGGGCGAAAATGACTCACTACGCAGAAAGGCATGGTTTAGAGAGAAC
1 TGCATGGTGAACCTTGGGGCGAAAATGACTCACTACGCAGAAAAGCATGGTTTAGAGAGAAC
* ** * *
77512533 TGCATGGTGAACCTTGGGTCGGCAATGACTTACTACGCTGAAAAGCATGGTTTAGAGA
1 TGCATGGTGAACCTTGGGGCGAAAATGACTCACTACGCAGAAAAGCATGGTTTAGAGA
77512591 TGCTTTCGTG
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 52 1.00
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (62 bp):
TGCATGGTGAACCTTGGGGCGAAAATGACTCACTACGCAGAAAAGCATGGTTTAGAGAGAAC
Found at i:77512870 original size:36 final size:35
Alignment explanation
Indices: 77512830--77512905 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 35
77512820 CAACACGGAC
77512830 GAGTTCAATGATGATTATTTTACTAACATTTGATGG
1 GAGTTCAATGATGATTATTTTACTAACATTTGAT-G
77512866 GAGTTCAATGATGATTATTTTACTAACATTTGATG
1 GAGTTCAATGATGATTATTTTACTAACATTTGATG
77512901 GAGTT
1 GAGTT
77512906 TTACTTAATC
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
35 6 0.15
36 34 0.85
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (35 bp):
GAGTTCAATGATGATTATTTTACTAACATTTGATG
Found at i:77513226 original size:17 final size:18
Alignment explanation
Indices: 77513194--77513238 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
77513184 GTATATAGAT
*
77513194 TTTTAGTTTGTTTGTT-TG
1 TTTTA-TTTTTTTGTTATG
*
77513212 TTTTATTTTTTTGTTATT
1 TTTTATTTTTTTGTTATG
77513230 TTTTATTTT
1 TTTTATTTT
77513239 ATATACCCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.09, C:0.00, G:0.11, T:0.80
Consensus pattern (18 bp):
TTTTATTTTTTTGTTATG
Found at i:77513798 original size:26 final size:27
Alignment explanation
Indices: 77513749--77513800 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
77513739 TTGAAACAAA
*
77513749 ACTAATTGACTAAGATATTTCTAATTT
1 ACTAATTGACTAAGATATTCCTAATTT
77513776 ACTAATT-ACTAATGA-ATTCCTAATT
1 ACTAATTGACTAA-GATATTCCTAATT
77513801 CCCAATTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 14 0.61
27 9 0.39
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.42
Consensus pattern (27 bp):
ACTAATTGACTAAGATATTCCTAATTT
Found at i:77517647 original size:100 final size:100
Alignment explanation
Indices: 77517512--77518052 Score: 1082
Period size: 100 Copynumber: 5.4 Consensus size: 100
77517502 AAAGCTATTT
77517512 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
77517577 TGCACTTAGTACTACAGACGTGATCGAAGTTATCG
66 TGCACTTAGTACTACAGACGTGATCGAAGTTATCG
77517612 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
77517677 TGCACTTAGTACTACAGACGTGATCGAAGTTATCG
66 TGCACTTAGTACTACAGACGTGATCGAAGTTATCG
77517712 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
77517777 TGCACTTAGTACTACAGACGTGATCGAAGTTATCG
66 TGCACTTAGTACTACAGACGTGATCGAAGTTATCG
77517812 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
77517877 TGCACTTAGTACTACAGACGTGATCGAAGTTATCG
66 TGCACTTAGTACTACAGACGTGATCGAAGTTATCG
77517912 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
77517977 TGCACTTAGTACTACAGACGTGATCGAAGTTATCG
66 TGCACTTAGTACTACAGACGTGATCGAAGTTATCG
77518012 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
77518053 TCACAATAGA
Statistics
Matches: 441, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 441 1.00
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (100 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
TGCACTTAGTACTACAGACGTGATCGAAGTTATCG
Found at i:77519717 original size:26 final size:24
Alignment explanation
Indices: 77519673--77519722 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
77519663 ATTTGTTTTA
*
77519673 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
77519697 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
77519723 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:77521523 original size:21 final size:21
Alignment explanation
Indices: 77521497--77521551 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
77521487 ATTCTTCAGT
77521497 GGTATCACGATATCCACTTTA
1 GGTATCACGATATCCACTTTA
* *
77521518 GGTATCACAATATCCACTTTG
1 GGTATCACGATATCCACTTTA
77521539 GGTATCACGATAT
1 GGTATCACGATAT
77521552 TTGTAACACC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (21 bp):
GGTATCACGATATCCACTTTA
Found at i:77526590 original size:26 final size:27
Alignment explanation
Indices: 77526561--77526625 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
77526551 TTAGCTCTTA
* *
77526561 TGAGCATCCCGATATA-TGGCTCCTTG
1 TGAGCTTCCCGATAAATTGGCTCCTTG
* * *
77526587 TGAGCTTCCCGTTAAATTGGCTCTTTT
1 TGAGCTTCCCGATAAATTGGCTCCTTG
77526614 TGAGCTTCCCGA
1 TGAGCTTCCCGA
77526626 CAGTGCTCGC
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 13 0.41
27 19 0.59
ACGTcount: A:0.17, C:0.26, G:0.22, T:0.35
Consensus pattern (27 bp):
TGAGCTTCCCGATAAATTGGCTCCTTG
Found at i:77539930 original size:15 final size:15
Alignment explanation
Indices: 77539888--77539960 Score: 60
Period size: 15 Copynumber: 5.0 Consensus size: 15
77539878 GTAAGCCACC
*
77539888 TGTATACGAACCCC-
1 TGTATGCGAACCCCT
* * *
77539902 TATAGGCTAACCCCT
1 TGTATGCGAACCCCT
*
77539917 TGTATGTGAACCCC-
1 TGTATGCGAACCCCT
* *
77539931 TATAGGCGAACCCCT
1 TGTATGCGAACCCCT
*
77539946 TGTATGCAAACCCCT
1 TGTATGCGAACCCCT
77539961 ATAGGCAAAC
Statistics
Matches: 43, Mismatches: 14, Indels: 3
0.72 0.23 0.05
Matches are distributed among these distances:
14 21 0.49
15 22 0.51
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.25
Consensus pattern (15 bp):
TGTATGCGAACCCCT
Found at i:77539981 original size:13 final size:13
Alignment explanation
Indices: 77539946--77539985 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
77539936 GCGAACCCCT
77539946 TGTATGCAAACCCC
1 TGTATGCAAA-CCC
* *
77539960 TATAGGCAAACCC
1 TGTATGCAAACCC
77539973 TGTATGCAAACCC
1 TGTATGCAAACCC
77539986 ACTATAGGTA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 14 0.64
14 8 0.36
ACGTcount: A:0.33, C:0.33, G:0.15, T:0.20
Consensus pattern (13 bp):
TGTATGCAAACCC
Done.