Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 212 of 290
Found at i:73379995 original size:50 final size:49
Alignment explanation
Indices: 73379887--73380062 Score: 217
Period size: 50 Copynumber: 3.5 Consensus size: 49
73379877 CTAGTACGCA
* * *
73379887 TAGTAGCCTCCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
** * *
73379936 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * * * *
73379986 TAGTAGCCTGCACTAAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACACG
73380037 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
73380063 TGCGACCTCA
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
49 30 0.28
50 44 0.41
51 34 0.31
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:73380070 original size:101 final size:99
Alignment explanation
Indices: 73379887--73380070 Score: 260
Period size: 101 Copynumber: 1.8 Consensus size: 99
73379877 CTAGTACGCA
* * *
73379887 TAGTAGCCTCCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTCCACTAAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
*
73379952 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACCTAACCATCTGATACACG
* * * * *
73379986 TAGTAGCCTGCACTAAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTCCACTAAGTACTACACACGCGA-CCAA-TTATCCGGTACACATAGTAGCCTGCACT
*
73380051 TAGTACTACACATGCGACCT
64 TAGTACTACACACGCGACCT
73380071 CACAATAGAT
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
99 27 0.37
100 3 0.04
101 43 0.59
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.24
Consensus pattern (99 bp):
TAGTAGCCTCCACTAAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTAACCATCTGATACACG
Found at i:73385839 original size:42 final size:42
Alignment explanation
Indices: 73385774--73385870 Score: 140
Period size: 42 Copynumber: 2.3 Consensus size: 42
73385764 TCAGTAAATG
*
73385774 CTCACACGAGCTGTGGATTGGGATGTTAGCTATACGATACTA
1 CTCACACGAGCTGTGGATCGGGATGTTAGCTATACGATACTA
* * * * *
73385816 CTCTCACGAGTTGTGGGTCGGGATGTTAGCTATACGGTACTG
1 CTCACACGAGCTGTGGATCGGGATGTTAGCTATACGATACTA
73385858 CTCACACGAGCTG
1 CTCACACGAGCTG
73385871 CGGAGAATCT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (42 bp):
CTCACACGAGCTGTGGATCGGGATGTTAGCTATACGATACTA
Found at i:73392159 original size:89 final size:90
Alignment explanation
Indices: 73392055--73392477 Score: 435
Period size: 89 Copynumber: 5.0 Consensus size: 90
73392045 TTTTGTTTCC
* * *
73392055 AAATTAAAAGTAAATAAAATCCATTTCAGGATTTATTCCCGCTGATT-AACGGATTTTATTCCAT
1 AAATTAAATGTAAATAAAATCCATTTCGGGATTTATTCCCGCTCATTCAACGGATTTTATTCCAT
*
73392119 TATTTTGATTTTATTTCCAAATGGG
66 TATTTTGATTTTATTTCCAAACGGG
* ** * * *
73392144 AAATTAAATGTAAATAAATTCTGTTTCGGGATTTATTCTCGCT-GTTCAATGGATTTTATTCCAT
1 AAATTAAATGTAAATAAAATCCATTTCGGGATTTATTCCCGCTCATTCAACGGATTTTATTCCAT
73392208 TATTTTGATTTTATTTCCAAACGGG
66 TATTTTGATTTTATTTCCAAACGGG
* *** *
73392233 GAATT-AATGGTAAATAAAATTTGTTTCGGGATTTATTCCCAC-CATTCAACGGATTTTATTCCA
1 AAATTAAAT-GTAAATAAAATCCATTTCGGGATTTATTCCCGCTCATTCAACGGATTTTATTCCA
* *
73392296 TCATTTAGATTTTATTTCCAAACGGG
65 TTATTTTGATTTTATTTCCAAACGGG
* * *
73392322 AAATTAAAGGTAAATAAAATCCATTTCGGGATTGATTCCCG-TCCTTCAAC-GATTTTATTCCA-
1 AAATTAAATGTAAATAAAATCCATTTCGGGATTTATTCCCGCTCATTCAACGGATTTTATTCCAT
73392384 -A-----ATTTTATTTCC-AA----
66 TATTTTGATTTTATTTCCAAACGGG
* * * * * *
73392398 AAA-TGAGT-AAAATAAAATCCATTTCGAGATTGATTCCCGC-CATTCAA-TGATTTTATTCCA-
1 AAATTAAATGTAAATAAAATCCATTTCGGGATTTATTCCCGCTCATTCAACGGATTTTATTCCAT
73392458 -ATTTTGATTTTATTTCCAAA
66 TATTTTGATTTTATTTCCAAA
73392478 ACTGAGTATT
Statistics
Matches: 289, Mismatches: 32, Indels: 35
0.81 0.09 0.10
Matches are distributed among these distances:
74 48 0.17
75 2 0.01
76 3 0.01
79 11 0.04
80 4 0.01
81 11 0.04
86 1 0.00
88 17 0.06
89 190 0.66
90 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (90 bp):
AAATTAAATGTAAATAAAATCCATTTCGGGATTTATTCCCGCTCATTCAACGGATTTTATTCCAT
TATTTTGATTTTATTTCCAAACGGG
Found at i:73396174 original size:20 final size:20
Alignment explanation
Indices: 73396144--73396190 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
73396134 ATATATCCTG
73396144 AATTG-TTTGATTCTAATCA
1 AATTGATTTGATTCTAATCA
* *
73396163 ATTTGATTTGATTTTAATCA
1 AATTGATTTGATTCTAATCA
73396183 AATTGATT
1 AATTGATT
73396191 CAATTGCCCC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.32, C:0.06, G:0.11, T:0.51
Consensus pattern (20 bp):
AATTGATTTGATTCTAATCA
Found at i:73401486 original size:17 final size:18
Alignment explanation
Indices: 73401464--73401501 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
73401454 GAAAGTATGA
*
73401464 CATTTCACAATATTT-GT
1 CATTTCAAAATATTTAGT
*
73401481 CATTTCAAAATCTTTAGT
1 CATTTCAAAATATTTAGT
73401499 CAT
1 CAT
73401502 AGTTTTCTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.32, C:0.18, G:0.05, T:0.45
Consensus pattern (18 bp):
CATTTCAAAATATTTAGT
Found at i:73403558 original size:21 final size:21
Alignment explanation
Indices: 73403534--73403581 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
73403524 GTAACTAGGT
* *
73403534 CACACGGGTGTGTGTCTCCTC
1 CACACGGGCGTCTGTCTCCTC
**
73403555 CACACATGCGTCTGTCTCCTC
1 CACACGGGCGTCTGTCTCCTC
73403576 CACACG
1 CACACG
73403582 AGCATGTGCA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.15, C:0.40, G:0.21, T:0.25
Consensus pattern (21 bp):
CACACGGGCGTCTGTCTCCTC
Found at i:73405311 original size:190 final size:190
Alignment explanation
Indices: 73404988--73405335 Score: 529
Period size: 190 Copynumber: 1.8 Consensus size: 190
73404978 GGGTGTTACA
* *
73404988 AGTTGTTGCAACAGGAGTTAATGGAGGGCTTTGATTGTAGCCTTATTCTAGATTGATGAAGTCGT
1 AGTTGTTGCAACAGGACTTAATGGAGGGCTTTGATTGCAGCCTTATTCTAGATTGATGAAGTCGT
** * * *
73405053 CGTCTTTTTTATCACTGAAAAATAATCTTTCTATTTTCTTTTCCTTTTCGCTCCATCTCTAGTAA
66 CGTCTTTGCTATCACTGAAAAATAATCTTTCAATTTTCTTTTCCTTTTCACTCCATCTCTAATAA
**
73405118 TCAGCTTCATTGAATTCTACATCTCTTACTATTGTTGATTGGTGATGATAATGTTGTAGG
131 TCAGCTTCATCAAATTCTACATCTCTTACTATTGTTGATTGGTGATGATAATGTTGTAGG
** * * *
73405178 AGTTGTTGCAACAGGACTTGGTGGAGGGCTTTGATTGCCA-CCTTGTTCTTGATTGATGAAGTTG
1 AGTTGTTGCAACAGGACTTAATGGAGGGCTTTGATTG-CAGCCTTATTCTAGATTGATGAAGTCG
*
73405242 TTGTCTTTGCTATCACTGAAAAATAATCTTTCAATTTTCTTTT-CTTCTTCACTCCATCTCTAAT
65 TCGTCTTTGCTATCACTGAAAAATAATCTTTCAATTTTCTTTTCCTT-TTCACTCCATCTCTAAT
73405306 AATCAGCTTCATCAAATTCTACATCTCTTA
129 AATCAGCTTCATCAAATTCTACATCTCTTA
73405336 AAATAATAAC
Statistics
Matches: 141, Mismatches: 15, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
189 3 0.02
190 137 0.97
191 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.17, T:0.42
Consensus pattern (190 bp):
AGTTGTTGCAACAGGACTTAATGGAGGGCTTTGATTGCAGCCTTATTCTAGATTGATGAAGTCGT
CGTCTTTGCTATCACTGAAAAATAATCTTTCAATTTTCTTTTCCTTTTCACTCCATCTCTAATAA
TCAGCTTCATCAAATTCTACATCTCTTACTATTGTTGATTGGTGATGATAATGTTGTAGG
Found at i:73413194 original size:81 final size:81
Alignment explanation
Indices: 73413059--73413255 Score: 322
Period size: 81 Copynumber: 2.4 Consensus size: 81
73413049 CAAATTGATG
* * * *
73413059 AATGACTGTTTTGCCCTTATATGGTAAAATGATTGTTTTGCCCTTATGTGGTAAAATAATTGTTT
1 AATGACTGTTTTGCCCTTATATGGTAAAATGACTGTTTTGCCCTTATGAGGTAAAATAACTGATT
73413124 TGCCCTTATGAGGTAA
66 TGCCCTTATGAGGTAA
* * *
73413140 AATGACCGTTTTGCCCTTATATGGTAAAATGACTGTTTTTCCCTTATGAGGTAAAATGACTGATT
1 AATGACTGTTTTGCCCTTATATGGTAAAATGACTGTTTTGCCCTTATGAGGTAAAATAACTGATT
73413205 TGCCCTTATGAGGTAA
66 TGCCCTTATGAGGTAA
*
73413221 AATGACTGTTTTGCCCTTATATGGTAAGATGACTG
1 AATGACTGTTTTGCCCTTATATGGTAAAATGACTG
73413256 ATATGCCCAT
Statistics
Matches: 107, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 107 1.00
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.39
Consensus pattern (81 bp):
AATGACTGTTTTGCCCTTATATGGTAAAATGACTGTTTTGCCCTTATGAGGTAAAATAACTGATT
TGCCCTTATGAGGTAA
Found at i:73413263 original size:27 final size:27
Alignment explanation
Indices: 73413059--73413255 Score: 274
Period size: 27 Copynumber: 7.3 Consensus size: 27
73413049 CAAATTGATG
73413059 AATGACTGTTTTGCCCTTATATGGTAA
1 AATGACTGTTTTGCCCTTATATGGTAA
* *
73413086 AATGATTGTTTTGCCCTTATGTGGTAA
1 AATGACTGTTTTGCCCTTATATGGTAA
* *
73413113 AATAATTGTTTTGCCCTTATGA-GGTAA
1 AATGACTGTTTTGCCCTTAT-ATGGTAA
*
73413140 AATGACCGTTTTGCCCTTATATGGTAA
1 AATGACTGTTTTGCCCTTATATGGTAA
*
73413167 AATGACTGTTTTTCCCTTATGA-GGTAA
1 AATGACTGTTTTGCCCTTAT-ATGGTAA
*
73413194 AATGACTGATTTGCCCTTATGA-GGTAA
1 AATGACTGTTTTGCCCTTAT-ATGGTAA
73413221 AATGACTGTTTTGCCCTTATATGGTAA
1 AATGACTGTTTTGCCCTTATATGGTAA
*
73413248 GATGACTG
1 AATGACTG
73413256 ATATGCCCAT
Statistics
Matches: 153, Mismatches: 13, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
26 2 0.01
27 150 0.98
28 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.39
Consensus pattern (27 bp):
AATGACTGTTTTGCCCTTATATGGTAA
Found at i:73421330 original size:21 final size:22
Alignment explanation
Indices: 73421304--73421362 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
73421294 GTTTTAAGAA
*
73421304 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
73421325 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
73421347 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
73421363 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:73421377 original size:26 final size:24
Alignment explanation
Indices: 73421333--73421381 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
73421323 ATTTGTTTTA
*
73421333 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
73421357 ATATTTGATTTATTATATTTTTAAA
1 ATATTTG-TTT-TTATATTTTTAAA
73421382 CTTTTTTATT
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:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:73426900 original size:83 final size:83
Alignment explanation
Indices: 73426761--73426923 Score: 317
Period size: 83 Copynumber: 2.0 Consensus size: 83
73426751 GTCATGGGAG
73426761 TGTCAGACGCGTGGAAGGCCAGTGACTGGCGCCCCGAGCGGTGGTGGCGCACGTGGGAAGGCTGG
1 TGTCAGACGCGTGGAAGGCCAGTGACTGGCGCCCCGAGCGGTGGTGGCGCACGTGGGAAGGCTGG
73426826 TGGCTGAAGGTTCGCGGC
66 TGGCTGAAGGTTCGCGGC
*
73426844 TGTCAGACGCGTGGAAGGCCAGTGACTGGCGCCTCGAGCGGTGGTGGCGCACGTGGGAAGGCTGG
1 TGTCAGACGCGTGGAAGGCCAGTGACTGGCGCCCCGAGCGGTGGTGGCGCACGTGGGAAGGCTGG
73426909 TGGCTGAAGGTTCGC
66 TGGCTGAAGGTTCGC
73426924 AGCTAACAAC
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 79 1.00
ACGTcount: A:0.15, C:0.23, G:0.45, T:0.17
Consensus pattern (83 bp):
TGTCAGACGCGTGGAAGGCCAGTGACTGGCGCCCCGAGCGGTGGTGGCGCACGTGGGAAGGCTGG
TGGCTGAAGGTTCGCGGC
Found at i:73428258 original size:17 final size:17
Alignment explanation
Indices: 73428232--73428270 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
73428222 CAAAATTTCC
*
73428232 TTATTCTATTTCATTTT
1 TTATTCTATTTCAATTT
*
73428249 TTATTTTATTTCAATTT
1 TTATTCTATTTCAATTT
73428266 TTATT
1 TTATT
73428271 ATTTAACAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.72
Consensus pattern (17 bp):
TTATTCTATTTCAATTT
Found at i:73432673 original size:123 final size:127
Alignment explanation
Indices: 73432461--73432720 Score: 327
Period size: 123 Copynumber: 2.1 Consensus size: 127
73432451 GAGTATGAGC
*
73432461 TTGCCTTCTATTTCATTTAAAACTCATGTATTTAAATTTTAAAAAGGATATTCAAATATTTAGAT
1 TTGCCTT-TATTTCATTTAAAACTCATGTATTTAAATTTTAAAAAGGATAATCAAATATTTAGAT
*
73432526 CAAACAGAAAATCGAAAACCAGTACGTTAA-AGCACGACTACTCGAATTTCTAAATA-AGAAATA
65 CAAACAGAAAATCGAAAACCAGTACGTTAAGA-CACGACTACTCGAATTTCCAAATACAG-AATA
* * **
73432589 TTGCCTTTATTTTATTTAAAACTCATGTATTTTAA-TTT-AAAAGGATAATC-GGT-TTTAGATC
1 TTGCCTTTATTTCATTTAAAACTCATGTATTTAAATTTTAAAAAGGATAATCAAATATTTAGATC
* * * * * *
73432650 AAAC-GAAAAATCGAAACCCAGTACGTTCAGACACGATTTCTCGAATTTCCAAGTACCGAATA
66 AAACAG-AAAATCGAAAACCAGTACGTTAAGACACGACTACTCGAATTTCCAAATACAGAATA
73432712 TTGCCTTTA
1 TTGCCTTTA
73432721 CTTGAAAAAT
Statistics
Matches: 117, Mismatches: 12, Indels: 11
0.84 0.09 0.08
Matches are distributed among these distances:
122 1 0.01
123 66 0.56
124 3 0.03
125 11 0.09
126 3 0.03
127 26 0.22
128 7 0.06
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (127 bp):
TTGCCTTTATTTCATTTAAAACTCATGTATTTAAATTTTAAAAAGGATAATCAAATATTTAGATC
AAACAGAAAATCGAAAACCAGTACGTTAAGACACGACTACTCGAATTTCCAAATACAGAATA
Found at i:73432972 original size:3 final size:3
Alignment explanation
Indices: 73432966--73433254 Score: 66
Period size: 3 Copynumber: 95.0 Consensus size: 3
73432956 ATAATAGTGC
** *
73432966 TAA TAA TAA TAA TAA TAA TAA TAA TAA -ACA -AA CGGCA TAT TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA --TAA TAA TAA TAA
** * * *
73433012 TAA TAA TAAA TAA TGG CAA TAGA AAA TAA TGA TAA TAA TAA TGGAA GTAA
1 TAA TAA T-AA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA T--AA -TAA
* * * *
73433062 TGAA -AA TAA TAT TAA TAGA -AA CAA TAG TAA TAA -AG TAA TAA TAA
1 T-AA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * **
73433106 -AA TAGA AAA TAA CAA TGA TACA TTAA TAA TAA T-A TATG TGC TAA TAA
1 TAA TA-A TAA TAA TAA TAA TA-A -TAA TAA TAA TAA TA-A TAA TAA TAA
* * * * * *
73433153 CAA TAA TAA T-A TAA -AA AAA TAA -AA TAA TAC T-A TAT TGA TAA AAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
73433197 TAA TAA TAG TAGGT TAA TAA TAA TAG TAA TAA AAA GGTAA -AA -AA TAA
1 TAA TAA TAA TA--A TAA TAA TAA TAA TAA TAA TAA --TAA TAA TAA TAA
73433244 TAA -AA TAA TAA
1 TAA TAA TAA TAA
73433255 AAACACTATT
Statistics
Matches: 205, Mismatches: 51, Indels: 60
0.65 0.16 0.19
Matches are distributed among these distances:
2 23 0.11
3 157 0.77
4 15 0.07
5 9 0.04
6 1 0.00
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:73433684 original size:25 final size:24
Alignment explanation
Indices: 73433633--73433684 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
73433623 ATCTCGTGTA
* **
73433633 TTTCTTGTATTGAAAGTCTCTTTT
1 TTTCTTGTATTGAAACTCTCTCAT
*
73433657 TTTCTTGTATTCGAATCTCTCTCAT
1 TTTCTTGTATT-GAAACTCTCTCAT
73433682 TTT
1 TTT
73433685 TTCTCCAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 11 0.48
25 12 0.52
ACGTcount: A:0.15, C:0.17, G:0.10, T:0.58
Consensus pattern (24 bp):
TTTCTTGTATTGAAACTCTCTCAT
Found at i:73433687 original size:27 final size:24
Alignment explanation
Indices: 73433633--73433688 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
73433623 ATCTCGTGTA
*
73433633 TTTCTTGTATTGAAAGTCTCTTTT
1 TTTCTTGTATTGAAACTCTCTTTT
*
73433657 TTTCTTGTATTCGAATCTCTCTCATTT
1 TTTCTTGTATT-GAAACTCTCT--TTT
73433684 TTTCT
1 TTTCT
73433689 CCAAAAAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 11 0.41
25 8 0.30
27 8 0.30
ACGTcount: A:0.14, C:0.18, G:0.09, T:0.59
Consensus pattern (24 bp):
TTTCTTGTATTGAAACTCTCTTTT
Found at i:73443118 original size:57 final size:57
Alignment explanation
Indices: 73443028--73443142 Score: 149
Period size: 57 Copynumber: 2.0 Consensus size: 57
73443018 TAGATTCGTC
* * * **
73443028 TACTAATGTAAGTTATCTTTCCGTATTATGATCCAACCACGTAATACCGCTTAGTAT
1 TACTAATATAAGTTACCTTTCCGTATTACGATCCAACCACGTAATACCAATTAGTAT
* * * *
73443085 TACTAATATATGTTACCTTTCTGTATTACGATCCGACCGCGTAATACCAATTAGTAT
1 TACTAATATAAGTTACCTTTCCGTATTACGATCCAACCACGTAATACCAATTAGTAT
73443142 T
1 T
73443143 CATTAAATAT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
57 49 1.00
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.37
Consensus pattern (57 bp):
TACTAATATAAGTTACCTTTCCGTATTACGATCCAACCACGTAATACCAATTAGTAT
Found at i:73446246 original size:21 final size:21
Alignment explanation
Indices: 73446213--73446262 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
73446203 ACATATCTTT
* * *
73446213 ATATGTCATTAATTTTCTATG
1 ATATCTCATTAATTTACCATG
73446234 ATA-CTCATATAATTTACCATG
1 ATATCTCAT-TAATTTACCATG
73446255 ATATCTCA
1 ATATCTCA
73446263 CCATTCAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 4 0.17
21 16 0.67
22 4 0.17
ACGTcount: A:0.34, C:0.16, G:0.06, T:0.44
Consensus pattern (21 bp):
ATATCTCATTAATTTACCATG
Found at i:73446582 original size:19 final size:19
Alignment explanation
Indices: 73446554--73446603 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
73446544 TGGTAATCTA
*
73446554 GCACATAAAGTGAATAC-TG
1 GCACACAAAGTGAAT-CTTG
*
73446573 GCACACAAAGCGAATCTTG
1 GCACACAAAGTGAATCTTG
73446592 GCACACAAAGTG
1 GCACACAAAGTG
73446604 CATCCTAGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 1 0.04
19 26 0.96
ACGTcount: A:0.40, C:0.22, G:0.22, T:0.16
Consensus pattern (19 bp):
GCACACAAAGTGAATCTTG
Found at i:73457681 original size:27 final size:27
Alignment explanation
Indices: 73457641--73457710 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
73457631 AGGAAGCGTC
*
73457641 CTGGTGGCTATGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
73457668 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
73457695 CTGGTGGCTCTGCCAC
1 CTGGTGGCTCTGCCAC
73457711 GATTATTATA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.17, C:0.27, G:0.24, T:0.31
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAAATATCTGAT
Found at i:73467375 original size:138 final size:137
Alignment explanation
Indices: 73467194--73467612 Score: 601
Period size: 138 Copynumber: 3.0 Consensus size: 137
73467184 TAGAAAAAGG
*
73467194 AATTGTATTCTTTCCAAAAGAATA-TAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
***
73467258 TATAATTGTTTATATTAATAAATTCATTAAAATATAAACAATTAATATTTTGAATGAATCAAATT
66 TATAATTGTTTATATTAATAAATTTGGTAAAATATAAACAATTAATATTTT-AATGAATCAAATT
73467323 CATATATT
130 CATATATT
* * *
73467331 AATTATATTCTTTCAAAAAGAATATTAATTTCCATTTCTTTTATATTTTGACTGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
* * *
73467396 TATAATTGTTTATATTTATAAATTTGGTAAAATATATAA-AATTAATATTTTTCATGAATAAAAT
66 TATAATTGTTTATATTAATAAATTTGGTAAAATATA-AACAATTAATA-TTTTAATGAATCAAAT
73467460 TCATATATT
129 TCATATATT
* *
73467469 AATTATATTCTTTCCAAAAGCATATTAATTTCCATGTCTCTTATATTTTGACC-AGAATTAATTA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGA-AATTAATTA
* * ** * *
73467533 ATATAACTGTTTATATTAATAAATTTGGTACAATATACGCAATTAATAATTTATATGAATCAACT
65 ATATAATTGTTTATATTAATAAATTTGGTAAAATATAAACAATTAATATTTTA-ATGAATCAAAT
*
73467598 CCATATATT
129 TCATATATT
73467607 AATTAT
1 AATTAT
73467613 TAATTTCCAT
Statistics
Matches: 251, Mismatches: 25, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
137 26 0.10
138 219 0.87
139 6 0.02
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.45
Consensus pattern (137 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
TATAATTGTTTATATTAATAAATTTGGTAAAATATAAACAATTAATATTTTAATGAATCAAATTC
ATATATT
Found at i:73467420 original size:261 final size:267
Alignment explanation
Indices: 73466934--73467612 Score: 804
Period size: 261 Copynumber: 2.5 Consensus size: 267
73466924 AGTTGTTACA
* * * * * *
73466934 TATATTCTTTCCAAAAAATAATAATAATTTCAATATCATTTATATTTTAACCGCAATTAATTAAT
1 TATATTCTTTCC--AAAAGAAT-ATAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAAT
* * * *
73466999 ATAACTGTTTTTATATTAATAAATTCATT--ATATATACAATTAATATTTTGTATAAATCAAATT
63 ATAA-T-TGTTTATATTAATAAATTCATTAAATATAAACAATTAATATTTTGAATGAATCAAATT
* *
73467062 CATATATTAATTATATTCTTTCCAAAAGAATATTAATTTATATGCCTTTTATATTTTGACCAAAA
126 CATATATTAATTATATTCTTTCAAAAAGAATATTAATTTACATGCCTTTTATATTTTGACCAAAA
* * *
73467127 TTAATTAATATAACTATTTATATTTATAAATTTGGTAAAATATA-ACAATTAATA-A-G-TTAGA
191 TTAATTAATATAACTATTTATATTTATAAATTTGGTAAAATATATAAAATTAATATATGAATAAA
73467188 A-A-A-AGGAAT
256 ATATATAGGAAT
*
73467197 TGTATTCTTTCCAAAAGAATATAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAATATA
1 TATATTCTTTCCAAAAGAATATAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAATATA
73467262 ATTGTTTATATTAATAAATTCATTAAAATATAAACAATTAATATTTTGAATGAATCAAATTCATA
66 ATTGTTTATATTAATAAATTCATT-AAATATAAACAATTAATATTTTGAATGAATCAAATTCATA
* ** **
73467327 TATTAATTATATTCTTTCAAAAAGAATATTAATTTCCATTTCTTTTATATTTTGACTGAAATTAA
130 TATTAATTATATTCTTTCAAAAAGAATATTAATTTACATGCCTTTTATATTTTGACCAAAATTAA
* *
73467392 TTAATATAATTGTTTATATTTATAAATTTGGTAAAATATATAAAATTAATATTTTTCATGAATAA
195 TTAATATAACTATTTATATTTATAAATTTGGTAAAATATATAAAATTAATA----T-ATGAATAA
**
73467457 AATTCATATATTAAT
255 AA-T-ATATAGGAAT
* *
73467472 TATATTCTTTCCAAAAGCATATTAATTTCCATGTCTCTTATATTTTGACC-AGAATTAATTAATA
1 TATATTCTTTCCAAAAGAATA-TAATTTCCATGTCTTTTATATTTTGACCGA-AATTAATTAATA
* *** ** * * *
73467536 TAACTGTTTATATTAATAAATTTGGTACAATATACGCAATTAATAATTT-ATATGAATCAACTCC
64 TAATTGTTTATATTAATAAATTCATTA-AATATAAACAATTAATATTTTGA-ATGAATCAAATTC
73467600 ATATATTAATTAT
127 ATATATTAATTAT
73467613 TAATTTCCAT
Statistics
Matches: 358, Mismatches: 37, Indels: 29
0.84 0.09 0.07
Matches are distributed among these distances:
258 21 0.06
259 1 0.00
260 41 0.11
261 138 0.39
262 9 0.03
263 11 0.03
268 1 0.00
269 1 0.00
270 4 0.01
273 1 0.00
274 1 0.00
275 26 0.07
276 103 0.29
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.44
Consensus pattern (267 bp):
TATATTCTTTCCAAAAGAATATAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAATATA
ATTGTTTATATTAATAAATTCATTAAATATAAACAATTAATATTTTGAATGAATCAAATTCATAT
ATTAATTATATTCTTTCAAAAAGAATATTAATTTACATGCCTTTTATATTTTGACCAAAATTAAT
TAATATAACTATTTATATTTATAAATTTGGTAAAATATATAAAATTAATATATGAATAAAATATA
TAGGAAT
Found at i:73467645 original size:117 final size:118
Alignment explanation
Indices: 73467491--73467727 Score: 359
Period size: 117 Copynumber: 2.0 Consensus size: 118
73467481 TCCAAAAGCA
*
73467491 TATTAATTTCCATGTCTCTTATATTTTGACCAGAATTAATTAATATAACTGTTTATATTAATAAA
1 TATTAATTTCCATG-CTCTTATATTTTGACCAGAATTAATTAATATAACTATTTATATTAATAAA
** * * * *
73467556 TTTGGTACAATATACGCAATTAATAATTTATATGAATCAACTCCATATATTAAT
65 TCCGATAAAATATACACAATTAATAATTTATATGAATCAAATCCATATATTAAT
73467610 TATTAATTTCCATG-TCTTATATTTTGACCAGAATTAATTAATATAACTATTTATATTAATAAAT
1 TATTAATTTCCATGCTCTTATATTTTGACCAGAATTAATTAATATAACTATTTATATTAATAAAT
* * * *
73467674 CCGATAAAATATATACAATTAATATTTTATATGAATCAAATTCATATGTTAAT
66 CCGATAAAATATACACAATTAATAATTTATATGAATCAAATCCATATATTAAT
73467727 T
1 T
73467728 TTATCTATGT
Statistics
Matches: 107, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
117 93 0.87
119 14 0.13
ACGTcount: A:0.40, C:0.11, G:0.06, T:0.43
Consensus pattern (118 bp):
TATTAATTTCCATGCTCTTATATTTTGACCAGAATTAATTAATATAACTATTTATATTAATAAAT
CCGATAAAATATACACAATTAATAATTTATATGAATCAAATCCATATATTAAT
Found at i:73471145 original size:28 final size:29
Alignment explanation
Indices: 73471096--73471150 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
73471086 TACAGGGGTT
73471096 TTCACACAGCCAAGCACACGCCTGTGTCC
1 TTCACACAGCCAAGCACACGCCTGTGTCC
* *
73471125 TTCACACGGCCTAG-ACACGCCTGTGT
1 TTCACACAGCCAAGCACACGCCTGTGT
73471151 GGTCGCCCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 12 0.50
29 12 0.50
ACGTcount: A:0.22, C:0.38, G:0.20, T:0.20
Consensus pattern (29 bp):
TTCACACAGCCAAGCACACGCCTGTGTCC
Found at i:73473955 original size:21 final size:20
Alignment explanation
Indices: 73473926--73473979 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 20
73473916 CAGTCTGCGT
* *
73473926 ACACAAGCATGTGAAGTAGTC
1 ACAC-AGCATGTGAAGCAGCC
73473947 ACACGAGCATGTGAAGCAGCC
1 ACAC-AGCATGTGAAGCAGCC
73473968 ACACAGCTATGT
1 ACACAGC-ATGT
73473980 CTAAAGCCAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 3 0.10
21 26 0.90
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (20 bp):
ACACAGCATGTGAAGCAGCC
Found at i:73478733 original size:25 final size:25
Alignment explanation
Indices: 73478699--73478790 Score: 123
Period size: 25 Copynumber: 3.7 Consensus size: 25
73478689 TCTGACCTAT
*
73478699 AGCTCATGAGAGCATACCGATTTAC
1 AGCTCGTGAGAGCATACCGATTTAC
*
73478724 AGCTCGTGAGAGCATACCGATTTAT
1 AGCTCGTGAGAGCATACCGATTTAC
* * *
73478749 AGCTCCTGAAAGCATACCGATTCAC
1 AGCTCGTGAGAGCATACCGATTTAC
73478774 AGCTCGTGTA-AGCATAC
1 AGCTCGTG-AGAGCATAC
73478791 ATGTACAGGA
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
25 58 0.98
26 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (25 bp):
AGCTCGTGAGAGCATACCGATTTAC
Found at i:73478763 original size:50 final size:50
Alignment explanation
Indices: 73478696--73478790 Score: 147
Period size: 50 Copynumber: 1.9 Consensus size: 50
73478686 CGTTCTGACC
* *
73478696 TATAGCTCATGAGAGCATACCGATTTACAGCTCGTG-AGAGCATACCGATT
1 TATAGCTCATGAAAGCATACCGATTCACAGCTCGTGTA-AGCATACCGATT
*
73478746 TATAGCTCCTGAAAGCATACCGATTCACAGCTCGTGTAAGCATAC
1 TATAGCTCATGAAAGCATACCGATTCACAGCTCGTGTAAGCATAC
73478791 ATGTACAGGA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
50 40 0.98
51 1 0.02
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (50 bp):
TATAGCTCATGAAAGCATACCGATTCACAGCTCGTGTAAGCATACCGATT
Found at i:73481262 original size:27 final size:28
Alignment explanation
Indices: 73481232--73481284 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
73481222 CATCATCATG
* * *
73481232 GTCCGCCGGGACAATAAACAC-GAGATA
1 GTCCACCGAGACAAGAAACACAGAGATA
73481259 GTCCACCGAGACAAGAAACACAGAGA
1 GTCCACCGAGACAAGAAACACAGAGA
73481285 ATTATGAGGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 18 0.82
28 4 0.18
ACGTcount: A:0.42, C:0.26, G:0.25, T:0.08
Consensus pattern (28 bp):
GTCCACCGAGACAAGAAACACAGAGATA
Found at i:73485854 original size:43 final size:43
Alignment explanation
Indices: 73485771--73485855 Score: 102
Period size: 43 Copynumber: 2.0 Consensus size: 43
73485761 ATGTTATTTT
* * *
73485771 GATATGTGTTTACAAGTAAGACCCTGTCTGGGACAGTGGCATC
1 GATATGTGATTACAAGTAAGACCCTATCTGAGACAGTGGCATC
*
73485814 GATATGTGATTACATGTAAGACCAC-ATCTGAGAC-GTTGGCAT
1 GATATGTGATTACAAGTAAGACC-CTATCTGAGACAG-TGGCAT
73485856 TGTACGACTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
42 1 0.03
43 34 0.94
44 1 0.03
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (43 bp):
GATATGTGATTACAAGTAAGACCCTATCTGAGACAGTGGCATC
Found at i:73488111 original size:43 final size:42
Alignment explanation
Indices: 73488014--73488133 Score: 188
Period size: 43 Copynumber: 2.8 Consensus size: 42
73488004 AGGGTTACTA
73488014 AGATTACATGTAAGACCATATCTGGGATATGGCATCGATATG
1 AGATTACATGTAAGACCATATCTGGGATATGGCATCGATATG
* * *
73488056 AAACTT-CGTGTAAGACCATATCTGGGCTATTGGCATCGATATG
1 AGA-TTACATGTAAGACCATATCTGGGATA-TGGCATCGATATG
73488099 AGATTACATGTAAGACCATATCTGGGATATGGCAT
1 AGATTACATGTAAGACCATATCTGGGATATGGCAT
73488134 TGGTACAGTA
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
42 31 0.45
43 38 0.55
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (42 bp):
AGATTACATGTAAGACCATATCTGGGATATGGCATCGATATG
Found at i:73494457 original size:27 final size:27
Alignment explanation
Indices: 73494355--73494477 Score: 129
Period size: 27 Copynumber: 4.6 Consensus size: 27
73494345 CTCATATCTG
* * * * * *
73494355 TAGGCTAGTATTACTGAAATACACTTG
1 TAGGGTAGAATTACCGAAATACCCCTA
*
73494382 TAGGGTAGAATTACTGAAATACCCCTA
1 TAGGGTAGAATTACCGAAATACCCCTA
* *
73494409 TAAGGTAGAATTACTGAAATACCCCTA
1 TAGGGTAGAATTACCGAAATACCCCTA
* *
73494436 TAGGGTAGAATTACCGAGATACCCTTA
1 TAGGGTAGAATTACCGAAATACCCCTA
* *
73494463 TTGGGTAAAATTACC
1 TAGGGTAGAATTACC
73494478 ATTTTACCCC
Statistics
Matches: 84, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 84 1.00
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (27 bp):
TAGGGTAGAATTACCGAAATACCCCTA
Found at i:73494475 original size:54 final size:54
Alignment explanation
Indices: 73494364--73494476 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
73494354 GTAGGCTAGT
* * * *
73494364 ATTACTGAAATACACTTGTAGGGTAGAATTACTGAAATACCCCTATAAGGTAGA
1 ATTACTGAAATACACCTATAGGGTAGAATTACCGAAATACCCCTATAAGGTAAA
* * * **
73494418 ATTACTGAAATACCCCTATAGGGTAGAATTACCGAGATACCCTTATTGGGTAAA
1 ATTACTGAAATACACCTATAGGGTAGAATTACCGAAATACCCCTATAAGGTAAA
73494472 ATTAC
1 ATTAC
73494477 CATTTTACCC
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (54 bp):
ATTACTGAAATACACCTATAGGGTAGAATTACCGAAATACCCCTATAAGGTAAA
Found at i:73494742 original size:28 final size:27
Alignment explanation
Indices: 73494702--73494811 Score: 132
Period size: 27 Copynumber: 4.0 Consensus size: 27
73494692 GGAGGAAGCG
73494702 TTCTGGTGGCTATGCCACAAATATCTGT
1 TTCTGGTGGCTATGCCAC-AATATCTGT
73494730 TTCTGGTGGCTATGCCACAAATATCTG-
1 TTCTGGTGGCTATGCCAC-AATATCTGT
* * *
73494757 CTCTGGGGGCTCTGCCACAATATCTGT
1 TTCTGGTGGCTATGCCACAATATCTGT
* * * *
73494784 ATCTGGTGACTCTGTCACAATATCTGT
1 TTCTGGTGGCTATGCCACAATATCTGT
73494811 T
1 T
73494812 GACCGATCGA
Statistics
Matches: 73, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
26 8 0.11
27 38 0.52
28 27 0.37
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.35
Consensus pattern (27 bp):
TTCTGGTGGCTATGCCACAATATCTGT
Found at i:73495067 original size:78 final size:78
Alignment explanation
Indices: 73494817--73495053 Score: 384
Period size: 78 Copynumber: 3.0 Consensus size: 78
73494807 CTGTTGACCG
* *
73494817 ATCGATGGCTGAATGCCGATCATGTTACCGAAGGCTGTGTGCCATTATTGTGGGCTTCGTGTCGA
1 ATCGATGGCTGAGTGCCGATCATGTTACCGAAGGCTGTGTGCCATTATTGTGGGCTTCGTGCCGA
73494882 TTATAGACCCGTT
66 TTATAGACCCGTT
* * * *
73494895 ATCGATGGCTGAGTGCCGATAATGTTGCCAAAGGCTGTGTGCCATTATTGTAGGCTTCGTGCCGA
1 ATCGATGGCTGAGTGCCGATCATGTTACCGAAGGCTGTGTGCCATTATTGTGGGCTTCGTGCCGA
73494960 TTATAGACCCGTT
66 TTATAGACCCGTT
* * *
73494973 ATCGATGGCTGAGTGCCGGTCATGTTACCGAAGGCTGTGTGCCGTTATTGTGGGCGTCGTGCCGA
1 ATCGATGGCTGAGTGCCGATCATGTTACCGAAGGCTGTGTGCCATTATTGTGGGCTTCGTGCCGA
*
73495038 TTATAGGCCCGTT
66 TTATAGACCCGTT
73495051 ATC
1 ATC
73495054 AATAGCTTTG
Statistics
Matches: 145, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
78 145 1.00
ACGTcount: A:0.18, C:0.21, G:0.30, T:0.31
Consensus pattern (78 bp):
ATCGATGGCTGAGTGCCGATCATGTTACCGAAGGCTGTGTGCCATTATTGTGGGCTTCGTGCCGA
TTATAGACCCGTT
Found at i:73495119 original size:27 final size:26
Alignment explanation
Indices: 73495089--73495162 Score: 94
Period size: 27 Copynumber: 2.8 Consensus size: 26
73495079 TAAGTAGCTT
* *
73495089 TGCCACATTATCTGATTCTGGTGGCTC
1 TGCCACAATATCTG-TTCTGGTGACTC
73495116 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGT-TCTGGTGACTC
* *
73495143 TGTCATAATATCTGTTCTGG
1 TGCCACAATATCTGTTCTGG
73495163 CAGCCATGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 6 0.14
27 36 0.86
ACGTcount: A:0.19, C:0.23, G:0.20, T:0.38
Consensus pattern (26 bp):
TGCCACAATATCTGTTCTGGTGACTC
Found at i:73495311 original size:25 final size:25
Alignment explanation
Indices: 73495283--73495346 Score: 65
Period size: 25 Copynumber: 2.6 Consensus size: 25
73495273 CATTCACATT
* *
73495283 CTGATCCTGATTTTGTTACATAATA
1 CTGATCCTGATTCTATTACATAATA
* * *
73495308 CTGATTCTGATTCTATTACCTAATT
1 CTGATCCTGATTCTATTACATAATA
**
73495333 CTGATTTTGATTCT
1 CTGATCCTGATTCT
73495347 GATTCTGATT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.23, C:0.17, G:0.11, T:0.48
Consensus pattern (25 bp):
CTGATCCTGATTCTATTACATAATA
Found at i:73495319 original size:6 final size:6
Alignment explanation
Indices: 73495308--73495487 Score: 117
Period size: 6 Copynumber: 29.8 Consensus size: 6
73495298 TTACATAATA
* *
73495308 CTGATT CTGATT CT-ATT ACCTAATT CTGATT TTGATT CTGATT CTGATT
1 CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT CTGATT CTGATT
*
73495357 CTG-TT ACCTGATAT -TGATT CTGATT -T--TT CT-ATT ACCTAATT CTGATT
1 CTGATT --CTGAT-T CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT
* * * *
73495404 CTGATT CTGACT CTAATT CTG-TCAC CTGATT CTGATT CTGATT TTGATT
1 CTGATT CTGATT CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT
* * *
73495453 CTGATT CTCATT CTTATT TTGATT CT-AGTT CTGAT
1 CTGATT CTGATT CTGATT CTGATT CTGA-TT CTGAT
73495488 AATGTTTCTT
Statistics
Matches: 139, Mismatches: 17, Indels: 36
0.72 0.09 0.19
Matches are distributed among these distances:
3 2 0.01
4 1 0.01
5 11 0.08
6 105 0.76
7 11 0.08
8 8 0.06
9 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.12, T:0.51
Consensus pattern (6 bp):
CTGATT
Found at i:73495344 original size:31 final size:31
Alignment explanation
Indices: 73495309--73495418 Score: 109
Period size: 31 Copynumber: 3.5 Consensus size: 31
73495299 TACATAATAC
73495309 TGATTCTGATTCTATTACCTAATTCTGATTT
1 TGATTCTGATTCTATTACCTAATTCTGATTT
* *
73495340 TGATTCTGATTCTGATT--CT-GTTACCTGATAT
1 TGATTCTGATTCT-ATTACCTAATT--CTGATTT
*
73495371 TGATTCTGATTTTTCTATTACCTAATTCTGATTC
1 TGATTCTGA---TTCTATTACCTAATTCTGATTT
*
73495405 TGATTCTGACTCTA
1 TGATTCTGATTCTA
73495419 ATTCTGTCAC
Statistics
Matches: 64, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
29 2 0.03
30 2 0.03
31 32 0.50
32 3 0.05
33 3 0.05
34 18 0.28
35 2 0.03
36 2 0.03
ACGTcount: A:0.21, C:0.17, G:0.12, T:0.50
Consensus pattern (31 bp):
TGATTCTGATTCTATTACCTAATTCTGATTT
Found at i:73495349 original size:37 final size:37
Alignment explanation
Indices: 73495308--73495460 Score: 162
Period size: 37 Copynumber: 4.4 Consensus size: 37
73495298 TTACATAATA
*
73495308 CTGATTCTGATTCTATTACCTAATTCTGATTTTGATT
1 CTGATTCTGATTCTATTACCTAATTCTGATTCTGATT
* *
73495345 CTGATTCTGATTCTGTTACCTGA---T-A-T-TGATT
1 CTGATTCTGATTCTATTACCTAATTCTGATTCTGATT
73495376 CTGATT-T--TTCTATTACCTAATTCTGATTCTGATT
1 CTGATTCTGATTCTATTACCTAATTCTGATTCTGATT
* * * * *
73495410 CTGACTCTAATTCTGTCACCTGATTCTGATTCTGATT
1 CTGATTCTGATTCTATTACCTAATTCTGATTCTGATT
*
73495447 TTGATTCTGATTCT
1 CTGATTCTGATTCT
73495461 CATTCTTATT
Statistics
Matches: 96, Mismatches: 11, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
28 11 0.11
30 1 0.01
31 12 0.12
32 2 0.02
33 2 0.02
34 11 0.11
35 1 0.01
37 56 0.58
ACGTcount: A:0.20, C:0.18, G:0.12, T:0.50
Consensus pattern (37 bp):
CTGATTCTGATTCTATTACCTAATTCTGATTCTGATT
Found at i:73495402 original size:28 final size:27
Alignment explanation
Indices: 73495342--73495409 Score: 79
Period size: 28 Copynumber: 2.6 Consensus size: 27
73495332 TCTGATTTTG
* *
73495342 ATTCTGATTCTGA--TTCTGTTACCTG
1 ATTCTGATTCTGATTTTCTATTACCTA
73495367 ATAT-TGATTCTGATTTTTCTATTACCTA
1 AT-TCTGATTCTGA-TTTTCTATTACCTA
73495395 ATTCTGATTCTGATT
1 ATTCTGATTCTGATT
73495410 CTGACTCTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
25 11 0.31
26 1 0.03
27 3 0.08
28 21 0.58
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (27 bp):
ATTCTGATTCTGATTTTCTATTACCTA
Found at i:73495411 original size:65 final size:65
Alignment explanation
Indices: 73495280--73495448 Score: 220
Period size: 65 Copynumber: 2.6 Consensus size: 65
73495270 TTGCATTCAC
* * * * * *
73495280 ATTCTGATCCTGATTTTGTTACATAATACTGATTCTGA---TTCTATTACCTAATTCTGATTTTG
1 ATTCTGATTCTGATTCTGTTACCTGATATTGATTCTGATTTTTCTATTACCTAATTCTGATTCTG
73495342 ATTCTGATTCTGATTCTGTTACCTGATATTGATTCTGATTTTTCTATTACCTAATTCTGATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATATTGATTCTGATTTTTCTATTACCTAATTCTGATTCTG
* * *
73495407 ATTCTGACTCTAATTCTGTCACCTGAT-TCTGATTCTGATTTT
1 ATTCTGATTCTGATTCTGTTACCTGATAT-TGATTCTGATTTT
73495449 GATTCTGATT
Statistics
Matches: 94, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
62 33 0.35
64 1 0.01
65 60 0.64
ACGTcount: A:0.21, C:0.18, G:0.12, T:0.49
Consensus pattern (65 bp):
ATTCTGATTCTGATTCTGTTACCTGATATTGATTCTGATTTTTCTATTACCTAATTCTGATTCTG
Found at i:73497551 original size:55 final size:55
Alignment explanation
Indices: 73497450--73497568 Score: 148
Period size: 55 Copynumber: 2.2 Consensus size: 55
73497440 GCAGGTGCAT
* * *
73497450 GCCCGTGTTAAATTGACAGGTTTACCCATGGTTTCAAAACATGGGCGTGTAGCAC
1 GCCCGTGTTAAATTGACAGGTTCACCCACGGTTTCAAAACACGGGCGTGTAGCAC
* * * * ** *
73497505 GCCCATGTTAATTTGACAGGTTCAGCCACGGTTTTAAGGCACGGGCGTGTCGCAC
1 GCCCGTGTTAAATTGACAGGTTCACCCACGGTTTCAAAACACGGGCGTGTAGCAC
73497560 GCCCGTGTT
1 GCCCGTGTT
73497569 GTTTTAGCAG
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (55 bp):
GCCCGTGTTAAATTGACAGGTTCACCCACGGTTTCAAAACACGGGCGTGTAGCAC
Found at i:73502608 original size:28 final size:28
Alignment explanation
Indices: 73502509--73502595 Score: 165
Period size: 28 Copynumber: 3.1 Consensus size: 28
73502499 GATGCACAAG
73502509 AGTAAATACTCAAAAACTGAGAGGTTAA
1 AGTAAATACTCAAAAACTGAGAGGTTAA
*
73502537 AGTAAATACTCAAAAACTGGGAGGTTAA
1 AGTAAATACTCAAAAACTGAGAGGTTAA
73502565 AGTAAATACTCAAAAACTGAGAGGTTAA
1 AGTAAATACTCAAAAACTGAGAGGTTAA
73502593 AGT
1 AGT
73502596 GTAAATATGA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 57 1.00
ACGTcount: A:0.48, C:0.10, G:0.20, T:0.22
Consensus pattern (28 bp):
AGTAAATACTCAAAAACTGAGAGGTTAA
Found at i:73505041 original size:138 final size:138
Alignment explanation
Indices: 73504712--73505077 Score: 516
Period size: 138 Copynumber: 2.7 Consensus size: 138
73504702 GCTTTCTGAA
* * * *
73504712 ATGAAATGTGTAAAACCATGGTTGAAAGATACCATAGCAACATGATATGAAATGTGTAAGACAAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAGTAAGACCAT
*
73504777 GGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGC
66 AGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGC
*
73504842 AACATGAT
131 AACATGAC
* * * *
73504850 ATGAAATGTGTAAGACCATTGTTGAAAGATACCATGACAACATGATATGAAATGCGTATGACCAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAGTAAGACCAT
*
73504915 CGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGC
66 AGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGC
*
73504980 AACGTGAC
131 AACATGAC
** * * * ** * *
73504988 ATGAAATGAATAAGACCATGGTTGAAAGACACCATGGCAACGTGACACAAAATGAGCAAGACCCT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAGTAAGACCAT
* * *
73505053 AGTTGAAAGACACTATGGCATCATG
66 AGTTGAAAGATACCATGGCAACATG
73505078 TTGAAGATAA
Statistics
Matches: 201, Mismatches: 27, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
138 201 1.00
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.22
Consensus pattern (138 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAGTAAGACCAT
AGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGC
AACATGAC
Found at i:73505065 original size:46 final size:46
Alignment explanation
Indices: 73504712--73505028 Score: 517
Period size: 46 Copynumber: 6.9 Consensus size: 46
73504702 GCTTTCTGAA
* *
73504712 ATGAAATGTGTAAAACCATGGTTGAAAGATACCATAGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
73504758 ATGAAATGTGTAAGACAATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
73504804 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
73504850 ATGAAATGTGTAAGACCATTGTTGAAAGATACCATGACAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * *
73504896 ATGAAATGCGTATGACCATCGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
73504942 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** *
73504988 ATGAAATGAATAAGACCATGGTTGAAAGACACCATGGCAAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
73505029 GTGACACAAA
Statistics
Matches: 253, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 253 1.00
ACGTcount: A:0.40, C:0.14, G:0.22, T:0.23
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:73505071 original size:46 final size:46
Alignment explanation
Indices: 73504712--73505072 Score: 398
Period size: 46 Copynumber: 7.8 Consensus size: 46
73504702 GCTTTCTGAA
* * * * * *
73504712 ATGAAATGTGTAAAACCATGGTTGAAAGATACCATAGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGACACCATGGCAACGTGAC
* * * * *
73504758 ATGAAATGTGTAAGACAATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGACACCATGGCAACGTGAC
* * * *
73504804 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGACACCATGGCAACGTGAC
* * * * * *
73504850 ATGAAATGTGTAAGACCATTGTTGAAAGATACCATGACAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGACACCATGGCAACGTGAC
* * * * * *
73504896 ATGAAATGCGTATGACCATCGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGACACCATGGCAACGTGAC
* *
73504942 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGACACCATGGCAACGTGAC
*
73504988 ATGAAATGAATAAGACCATGGTTGAAAGACACCATGGCAACGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGACACCATGGCAACGTGAC
** * * * *
73505034 ACAAAATGAGCAAGACCCTAGTTGAAAGACACTATGGCA
1 ATGAAATGAGTAAGACCATGGTTGAAAGACACCATGGCA
73505073 TCATGTTGAA
Statistics
Matches: 290, Mismatches: 25, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 290 1.00
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.22
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGACACCATGGCAACGTGAC
Found at i:73505191 original size:26 final size:25
Alignment explanation
Indices: 73505160--73505229 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 25
73505150 CCCTGATGAC
*
73505160 GAATGGTTATATGAATTGTTTATACAA
1 GAATGGTTATATGAAATG-TT-TACAA
*
73505187 -AATGGTTGTATGAAATGTTTACAA
1 GAATGGTTATATGAAATGTTTACAA
73505211 GAATTGGTTATATGGAAAT
1 GAA-TGGTTATAT-GAAAT
73505230 ATATGTACAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
24 5 0.14
25 4 0.11
26 23 0.62
27 5 0.14
ACGTcount: A:0.37, C:0.03, G:0.21, T:0.39
Consensus pattern (25 bp):
GAATGGTTATATGAAATGTTTACAA
Found at i:73508011 original size:3 final size:3
Alignment explanation
Indices: 73508003--73508043 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
73507993 AATTGAAGCT
73508003 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
73508044 GCCTTTGAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:73512814 original size:16 final size:18
Alignment explanation
Indices: 73512779--73512816 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
73512769 ATTCTTATTT
73512779 AAATAAAATACAATAGTA
1 AAATAAAATACAATAGTA
73512797 AAATAAAATA-AA-AGTA
1 AAATAAAATACAATAGTA
73512813 AAAT
1 AAAT
73512817 CCATAAGAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 8 0.40
17 2 0.10
18 10 0.50
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.21
Consensus pattern (18 bp):
AAATAAAATACAATAGTA
Found at i:73520401 original size:285 final size:281
Alignment explanation
Indices: 73519885--73520454 Score: 955
Period size: 285 Copynumber: 2.0 Consensus size: 281
73519875 GTTTCTTTGT
*
73519885 TCTAAGAAGGTAGCAGGGCCGAACAAGGTTTTGAGAAAAAATAACTTTAGTTTCTATATAAACCA
1 TCTAAGAAGGTAACAGGGCCGAACAAGGTTTTGAGAAAAAATAACTTTAGTTTCTATATAAACCA
* *
73519950 AATAAAGTCTCTAAAGGTTAAAGGCAGAAACTGTATTGACAGAGAGTTGCATTGACAACTGAATG
66 AAAAAAGTCTCTAAAGGTTAAAGGCAGAAACTGTATTGACAAAGAGTTGCATTGACAACTGAATG
* *
73520015 TCTTCATAAAATACTTGAGAAGACAACAAGTATTCTTAGTTATTTAAGATATTTTCAATCTAACA
131 TCTTCATAAAATACTTCAGAAGACAACAAGTATTCTTAGCTATTTAAGATATTTTCAATCTAACA
* *
73520080 TCTCTTTTCCAACAGCTCTACCTCAAAAATATTTTTTACAACTGTTCTAGGGTCAAATTGGCTCA
196 GCTCTTTTCCAACAGCTCTACCTCAAAAACATTTTTTA-AACTGTTCTAGGGTCAAATTGGCTCA
73520145 AGGCACCAATAACAAAGTGGAG
260 AGGCACCAATAACAAAGTGGAG
*
73520167 TCTAAGAAGGTAACAGGGCCGAACAAGGTTTT-TGAAAAAATAACTTTAGTTTCTATATAAACCA
1 TCTAAGAAGGTAACAGGGCCGAACAAGGTTTTGAGAAAAAATAACTTTAGTTTCTATATAAACCA
*
73520231 AAAAAAGTCTCTAAAGGTTAAAGGCAGAAACTTAAAGTATTGACAAAGAGTTGCATTGATAACTG
66 AAAAAAGTCTCTAAAGGTTAAAGGCAGAAAC-T---GTATTGACAAAGAGTTGCATTGACAACTG
73520296 AATGTCTTCATAAAATACTTCAGAAGACAACAAGTATTCTTCA-CTATTTAAGATATTTTCAATC
127 AATGTCTTCATAAAATACTTCAGAAGACAACAAGTATTCTT-AGCTATTTAAGATATTTTCAATC
* *
73520360 TAACAGCTCTTTTCCAACAGCTCTACCTCAACAACATTTTTTAAACTGTTCTAGGGTCACATTGG
191 TAACAGCTCTTTTCCAACAGCTCTACCTCAAAAACATTTTTTAAACTGTTCTAGGGTCAAATTGG
* *
73520425 CTCAAGGCACCAATAAGAAAGTGGTG
256 CTCAAGGCACCAATAACAAAGTGGAG
73520451 TCTA
1 TCTA
73520455 GGAACGTAGC
Statistics
Matches: 270, Mismatches: 13, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
281 61 0.23
282 32 0.12
284 49 0.18
285 127 0.47
286 1 0.00
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (281 bp):
TCTAAGAAGGTAACAGGGCCGAACAAGGTTTTGAGAAAAAATAACTTTAGTTTCTATATAAACCA
AAAAAAGTCTCTAAAGGTTAAAGGCAGAAACTGTATTGACAAAGAGTTGCATTGACAACTGAATG
TCTTCATAAAATACTTCAGAAGACAACAAGTATTCTTAGCTATTTAAGATATTTTCAATCTAACA
GCTCTTTTCCAACAGCTCTACCTCAAAAACATTTTTTAAACTGTTCTAGGGTCAAATTGGCTCAA
GGCACCAATAACAAAGTGGAG
Found at i:73528533 original size:493 final size:494
Alignment explanation
Indices: 73527878--73528870 Score: 1871
Period size: 494 Copynumber: 2.0 Consensus size: 494
73527868 ATTATATGCA
* *
73527878 TTAGAATAATTTATTTGTACAACTTGGAAGTTTGATTAAAAAGGTAAAATCTGACAATGCAAAAG
1 TTAGAATAATTTAATCGTACAACTTGGAAGTTTGATTAAAAAGGTAAAATCTGACAATGCAAAAG
* *
73527943 ACTATTTTAATCAAGTTCTCTCATCTTTCTTCCAAAAAGAGTGTAATATATGAGCCATCTTGTGT
66 ACTATTTTAATCAAGTTCTCTAATCTTTCTTCCAAAAAGAGTGTAATATATGAGCCATCTTGTGC
73528008 AGACACACCCCAACAAAATAGGATTGTTGAATG-AAAAATAGACATTTGCTAAATGTAACACGAG
131 AGACACACCCCAACAAAATAGGATTGTTGAATGAAAAAATAGACATTTGCTAAATGTAACACGAG
73528072 CAATTTTGTTTCACCATAAAGTTCCAAAAACCTTTTGGTGGAAGGCTGTTTTAACTGCTGCACAT
196 CAATTTTGTTTCACCATAAAGTTCCAAAAACCTTTTGGTGGAAGGCTGTTTTAACTGCTGCACAT
*
73528137 TTGATAAATAGAGTAACTTCTAAAGTGCTAAATAACCAGAGTCCCATTGTTGCTCTTTTTGTTTT
261 TTGATAAATAGAGTAACTTCCAAAGTGCTAAATAACCAGAGTCCCATTGTTGCTCTTTTTGTTTT
*
73528202 TTACCTTGATTTTATTGCCTCTTGCAAATTGTCACCAAAAATGTTTGGCTGTGTTGCTTTTGTAC
326 TTACCATGATTTTATTGCCTCTTGCAAATTGTCACCAAAAATGTTTGGCTGTGTTGCTTTTGTAC
*
73528267 ATGTTCATGCACACCAAAGAGGGAAACTTGATCCAAGAACTTTAAAATGTATTTTTGTGGGATAC
391 ATGTTCATGCACACCAAAGAGGGAAACTTGATCCAAGAACTTTAAAATGTATTTTTGTGGGACAC
73528332 TCAAACACAAAGAAAGGATACAAGTGTTATTATCCACCT
456 TCAAACACAAAGAAAGGATACAAGTGTTATTATCCACCT
73528371 TTAGAATAATTTAATCGTACAACTTGGAAGTTTGATTAAAAAGGTAAAATCTGACAATGCAAAAG
1 TTAGAATAATTTAATCGTACAACTTGGAAGTTTGATTAAAAAGGTAAAATCTGACAATGCAAAAG
73528436 ACTATTTTAATCAAGTTCTCTAATCTTTCTTCCAAAAAGAGTGTAATATATGAGCCATCTTGTGC
66 ACTATTTTAATCAAGTTCTCTAATCTTTCTTCCAAAAAGAGTGTAATATATGAGCCATCTTGTGC
*
73528501 AGACACACCCCAGCAAAATAGGATTGTTGAATGAAAAAATAGACATTTGCTAAATGTAACACGAG
131 AGACACACCCCAACAAAATAGGATTGTTGAATGAAAAAATAGACATTTGCTAAATGTAACACGAG
*
73528566 CAATTTTGTTTCACCATAAAGTTTCAAAAACCTTTTGGTGGAAGGCTGTTTTAACTGCTGCACAT
196 CAATTTTGTTTCACCATAAAGTTCCAAAAACCTTTTGGTGGAAGGCTGTTTTAACTGCTGCACAT
*
73528631 TTGATAAATAGAGTAACTTCCAAAGTGCTAAATAATCAGAGTCCCATTGTTGCTCTTTTTGTTTT
261 TTGATAAATAGAGTAACTTCCAAAGTGCTAAATAACCAGAGTCCCATTGTTGCTCTTTTTGTTTT
73528696 TTACCATGATTTTATTGCCTCTTGCAAATTGTCACCAAAAATGTTTGGCTGTGTTGCTTTTGTAC
326 TTACCATGATTTTATTGCCTCTTGCAAATTGTCACCAAAAATGTTTGGCTGTGTTGCTTTTGTAC
*
73528761 ATGTTCATGCACACCAAAGAGGGAAACTTGATCCAAGAGCTTTAAAATGTATTTTTGTGGGACAC
391 ATGTTCATGCACACCAAAGAGGGAAACTTGATCCAAGAACTTTAAAATGTATTTTTGTGGGACAC
73528826 TCAAACACAAAGAAAGGATACAAGTGTTATTATCCACCT
456 TCAAACACAAAGAAAGGATACAAGTGTTATTATCCACCT
*
73528865 TCAGAA
1 TTAGAA
73528871 AAAAAATTTA
Statistics
Matches: 487, Mismatches: 12, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
493 158 0.32
494 329 0.68
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (494 bp):
TTAGAATAATTTAATCGTACAACTTGGAAGTTTGATTAAAAAGGTAAAATCTGACAATGCAAAAG
ACTATTTTAATCAAGTTCTCTAATCTTTCTTCCAAAAAGAGTGTAATATATGAGCCATCTTGTGC
AGACACACCCCAACAAAATAGGATTGTTGAATGAAAAAATAGACATTTGCTAAATGTAACACGAG
CAATTTTGTTTCACCATAAAGTTCCAAAAACCTTTTGGTGGAAGGCTGTTTTAACTGCTGCACAT
TTGATAAATAGAGTAACTTCCAAAGTGCTAAATAACCAGAGTCCCATTGTTGCTCTTTTTGTTTT
TTACCATGATTTTATTGCCTCTTGCAAATTGTCACCAAAAATGTTTGGCTGTGTTGCTTTTGTAC
ATGTTCATGCACACCAAAGAGGGAAACTTGATCCAAGAACTTTAAAATGTATTTTTGTGGGACAC
TCAAACACAAAGAAAGGATACAAGTGTTATTATCCACCT
Found at i:73530998 original size:21 final size:21
Alignment explanation
Indices: 73530972--73531013 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
73530962 TATATTCCAT
73530972 GATTTCTACTATTTTTTTAGG
1 GATTTCTACTATTTTTTTAGG
73530993 GATTTCTACTATTTTTTTAGG
1 GATTTCTACTATTTTTTTAGG
73531014 TTAGAATAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.10, G:0.14, T:0.57
Consensus pattern (21 bp):
GATTTCTACTATTTTTTTAGG
Found at i:73531536 original size:14 final size:14
Alignment explanation
Indices: 73531517--73531547 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
73531507 CAAGTCATAT
73531517 AATAAAGGGATTAA
1 AATAAAGGGATTAA
73531531 AATAAAGGGATTAA
1 AATAAAGGGATTAA
73531545 AAT
1 AAT
73531548 TCCTATTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.19, T:0.23
Consensus pattern (14 bp):
AATAAAGGGATTAA
Found at i:73534679 original size:31 final size:32
Alignment explanation
Indices: 73534610--73534680 Score: 81
Period size: 31 Copynumber: 2.2 Consensus size: 32
73534600 TAAATTAGGT
73534610 TTTAAATTTGTCAAAATTATTTTCATATTAAGA
1 TTTAAATTTG-CAAAATTATTTTCATATTAAGA
* * * * *
73534643 ATTAAATTTG-ACAATTTTTTTCATATTGAGG
1 TTTAAATTTGCAAAATTATTTTCATATTAAGA
73534674 TTTAAAT
1 TTTAAAT
73534681 ATTTTTTAGT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
31 23 0.72
33 9 0.28
ACGTcount: A:0.37, C:0.06, G:0.08, T:0.49
Consensus pattern (32 bp):
TTTAAATTTGCAAAATTATTTTCATATTAAGA
Found at i:73536446 original size:55 final size:56
Alignment explanation
Indices: 73536345--73536449 Score: 137
Period size: 55 Copynumber: 1.9 Consensus size: 56
73536335 GCTAACTTAA
* *
73536345 CACGCCCGTGTAGCTTAGCTCGTGTGCAACACTGACTTTTAAACACGGCCATGACC
1 CACGCCCGTGTAGCCTAGCTCGTGTACAACACTGACTTTTAAACACGGCCATGACC
73536401 CACGCCCGTGTAGCCT-GC-CTGTGTACTAA-ACTGAC-TTTAAGACACGGCC
1 CACGCCCGTGTAGCCTAGCTC-GTGTAC-AACACTGACTTTTAA-ACACGGCC
73536450 GTGGCAACCT
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
54 6 0.14
55 21 0.48
56 17 0.39
ACGTcount: A:0.23, C:0.32, G:0.22, T:0.23
Consensus pattern (56 bp):
CACGCCCGTGTAGCCTAGCTCGTGTACAACACTGACTTTTAAACACGGCCATGACC
Found at i:73537991 original size:18 final size:17
Alignment explanation
Indices: 73537960--73538020 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 17
73537950 CCATCGATTA
73537960 TTCAATAA-AGGTCAATT
1 TTCAATAACA-GTCAATT
*
73537977 GTTCAATAACAGTCAGTCT
1 -TTCAATAACAGTCAAT-T
* *
73537996 TGCAGTAACAGTCAATT
1 TTCAATAACAGTCAATT
73538013 ATTCAATA
1 -TTCAATA
73538021 CCTTTATTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
17 1 0.03
18 31 0.91
19 2 0.06
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (17 bp):
TTCAATAACAGTCAATT
Found at i:73542453 original size:21 final size:21
Alignment explanation
Indices: 73542427--73542467 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
73542417 CCCAGTCGCC
73542427 GAGCTCGAGTAACAAGACGCG
1 GAGCTCGAGTAACAAGACGCG
73542448 GAGCTCGAGTAACAAGACGC
1 GAGCTCGAGTAACAAGACGC
73542468 CACATCACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.24, G:0.32, T:0.10
Consensus pattern (21 bp):
GAGCTCGAGTAACAAGACGCG
Found at i:73542693 original size:20 final size:19
Alignment explanation
Indices: 73542668--73542721 Score: 63
Period size: 22 Copynumber: 2.6 Consensus size: 19
73542658 ATTTCACATA
*
73542668 GGTATCGATACTCATTCGAT
1 GGTATCGATACTCA-TAGAT
73542688 GGTATCGATATTTCTCATAGAT
1 GGTATCGATA---CTCATAGAT
73542710 GGTATCGATACT
1 GGTATCGATACT
73542722 GCTTAGAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
19 2 0.07
20 10 0.33
22 14 0.47
23 4 0.13
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (19 bp):
GGTATCGATACTCATAGAT
Found at i:73544678 original size:62 final size:59
Alignment explanation
Indices: 73544611--73544727 Score: 153
Period size: 62 Copynumber: 1.9 Consensus size: 59
73544601 AGTGATTATC
* * * *
73544611 TTAATATTAAATTTAATTTAATGTTTATCTTGTATATAAACATTCTATTATTTTAATAAGAT
1 TTAATATTAAATTTAATCTAATATTTATC-T-TA-ATAAACATTATATTAATTTAATAAGAT
* *
73544673 TTAATATTATATTTAATCTAATATTTATCTTAATAAATATTATATTAATTTAATA
1 TTAATATTAAATTTAATCTAATATTTATCTTAATAAACATTATATTAATTTAATA
73544728 TTAAAGTGAT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
59 20 0.41
60 2 0.04
61 1 0.02
62 26 0.53
ACGTcount: A:0.41, C:0.04, G:0.03, T:0.52
Consensus pattern (59 bp):
TTAATATTAAATTTAATCTAATATTTATCTTAATAAACATTATATTAATTTAATAAGAT
Found at i:73550402 original size:30 final size:30
Alignment explanation
Indices: 73550368--73550428 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
73550358 TCCTTAACTC
73550368 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
73550398 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
73550428 A
1 A
73550429 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:73554545 original size:17 final size:17
Alignment explanation
Indices: 73554523--73554578 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
73554513 ATTTAGCTTG
73554523 GACTGGTAATCCTAATT
1 GACTGGTAATCCTAATT
* *
73554540 GACTGG--AT-TTAGCTT
1 GACTGGTAATCCTA-ATT
73554555 GGACTGGTAATCCTAATT
1 -GACTGGTAATCCTAATT
73554573 GACTGG
1 GACTGG
73554579 ATTTAGCTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 10
0.68 0.09 0.23
Matches are distributed among these distances:
14 2 0.07
15 4 0.13
16 6 0.20
17 12 0.40
18 4 0.13
19 2 0.07
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (17 bp):
GACTGGTAATCCTAATT
Found at i:73554553 original size:33 final size:33
Alignment explanation
Indices: 73554511--73554600 Score: 180
Period size: 33 Copynumber: 2.7 Consensus size: 33
73554501 GTTTCAATTA
73554511 GGATTTAGCTTGGACTGGTAATCCTAATTGACT
1 GGATTTAGCTTGGACTGGTAATCCTAATTGACT
73554544 GGATTTAGCTTGGACTGGTAATCCTAATTGACT
1 GGATTTAGCTTGGACTGGTAATCCTAATTGACT
73554577 GGATTTAGCTTGGACTGGTAATCC
1 GGATTTAGCTTGGACTGGTAATCC
73554601 ATATTAGACT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.36
Consensus pattern (33 bp):
GGATTTAGCTTGGACTGGTAATCCTAATTGACT
Found at i:73554561 original size:16 final size:16
Alignment explanation
Indices: 73554540--73554594 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
73554530 AATCCTAATT
73554540 GACTGGATTTAGCTTG
1 GACTGGATTTAGCTTG
* *
73554556 GACTGGTAATCCTA-ATT-
1 GACTGG--AT-TTAGCTTG
73554573 GACTGGATTTAGCTTG
1 GACTGGATTTAGCTTG
73554589 GACTGG
1 GACTGG
73554595 TAATCCATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 10
0.68 0.09 0.23
Matches are distributed among these distances:
14 2 0.07
15 4 0.13
16 12 0.40
17 6 0.20
18 4 0.13
19 2 0.07
ACGTcount: A:0.22, C:0.15, G:0.29, T:0.35
Consensus pattern (16 bp):
GACTGGATTTAGCTTG
Found at i:73557727 original size:22 final size:22
Alignment explanation
Indices: 73557714--73557760 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
73557704 TTCATTTATA
73557714 AAGATTAATTATTTCAAAAACT
1 AAGATTAATTATTTCAAAAACT
73557736 AAGATTAATTATTTCAAAAACT
1 AAGATTAATTATTTCAAAAACT
73557758 AAG
1 AAG
73557761 TTTTATTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.51, C:0.09, G:0.06, T:0.34
Consensus pattern (22 bp):
AAGATTAATTATTTCAAAAACT
Found at i:73557768 original size:19 final size:21
Alignment explanation
Indices: 73557714--73557768 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 21
73557704 TTCATTTATA
73557714 AAGATTAATTATTTCAAAAACT
1 AAGATT-ATTATTTCAAAAACT
73557736 AAGATTAATTATTTCAAAAACT
1 AAGATT-ATTATTTCAAAAACT
73557758 AAG-TT-TTATTT
1 AAGATTATTATTT
73557769 TATTAGAAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
19 6 0.18
21 2 0.06
22 25 0.76
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (21 bp):
AAGATTATTATTTCAAAAACT
Found at i:73558339 original size:20 final size:20
Alignment explanation
Indices: 73558296--73558361 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
73558286 AATTGAAAAC
* * * *
73558296 AAGCTACCAGTATTGTGGAG
1 AAGCCACCAGTAATGAGGAT
*
73558316 AAGCCACTAGTAATGCA-GAT
1 AAGCCACCAGTAATG-AGGAT
**
73558336 AAGCTGCCAGTAATGAGGAT
1 AAGCCACCAGTAATGAGGAT
73558356 AAGCCA
1 AAGCCA
73558362 TCAGAATTGC
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
19 1 0.03
20 33 0.97
ACGTcount: A:0.36, C:0.18, G:0.26, T:0.20
Consensus pattern (20 bp):
AAGCCACCAGTAATGAGGAT
Found at i:73558340 original size:40 final size:40
Alignment explanation
Indices: 73558283--73558387 Score: 115
Period size: 40 Copynumber: 2.6 Consensus size: 40
73558273 GATAAACTGC
* * * *
73558283 CAGAATTGAAAACAAGCTACCAGTATTGTGGAGAAGCCA-
1 CAGAATTGCAGACAAGCTACCAGTAATGAGGAGAAGCCAT
* * *
73558322 CTAGTAA-TGCAGATAAGCTGCCAGTAATGAGGATAAGCCAT
1 C-AG-AATTGCAGACAAGCTACCAGTAATGAGGAGAAGCCAT
73558363 CAGAATTGCAGACAAGCTACCAGTA
1 CAGAATTGCAGACAAGCTACCAGTA
73558388 CTTCCTATTC
Statistics
Matches: 53, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
39 3 0.06
40 47 0.89
41 3 0.06
ACGTcount: A:0.39, C:0.19, G:0.23, T:0.19
Consensus pattern (40 bp):
CAGAATTGCAGACAAGCTACCAGTAATGAGGAGAAGCCAT
Found at i:73567233 original size:34 final size:34
Alignment explanation
Indices: 73567189--73567259 Score: 99
Period size: 34 Copynumber: 2.1 Consensus size: 34
73567179 TTAGCCACTT
*
73567189 TTTCAATAACAGTA-TCAGTCTGGGCCTGAGCCCA
1 TTTCAATAACAG-AGGCAGTCTGGGCCTGAGCCCA
* *
73567223 TTTCAGTAACAGAGGCAGTCTGGGCCTTAGCCCA
1 TTTCAATAACAGAGGCAGTCTGGGCCTGAGCCCA
73567257 TTT
1 TTT
73567260 TAGTGGGTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
33 1 0.03
34 32 0.97
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.28
Consensus pattern (34 bp):
TTTCAATAACAGAGGCAGTCTGGGCCTGAGCCCA
Found at i:73571343 original size:48 final size:48
Alignment explanation
Indices: 73571227--73571493 Score: 149
Period size: 48 Copynumber: 5.6 Consensus size: 48
73571217 AGCTCCCGTA
* * * * *
73571227 TAAGACCATATTTGGGATATGGCTTCGGCAGT-GATATGTGATCCCATG
1 TAAGACCATGTTTGGGACATGGCTTTGGCA-TCGATATATGACCCCATG
* * * **
73571275 TAAGACCATGTCTAGTACATGGCTTTGGCATCTTTATATGACCCCATG
1 TAAGACCATGTTTGGGACATGGCTTTGGCATCGATATATGACCCCATG
* ** *
73571323 TAAGACCATGTTTGGGACATGGCATTGGCATC-ATA-ATGAGACATCGTG
1 TAAGACCATGTTTGGGACATGGCTTTGGCATCGATATAT--GACCCCATG
* * * * *
73571371 TAAGACCATAG-CTGGG-CTATTGG-TTTCG-AT--ATGTGTGATCCCATG
1 TAAGACCAT-GTTTGGGAC-A-TGGCTTTGGCATCGATATATGACCCCATG
* * * **
73571416 TAAGACCATGTCTGGGACATGGCATTT-GCATCGTTATGTGGTCCCATG
1 TAAGACCATGTTTGGGACATGGC-TTTGGCATCGATATATGACCCCATG
* * * *
73571464 TAAGACCATATCTGGGATATGGCATTGGCA
1 TAAGACCATGTTTGGGACATGGCTTTGGCA
73571494 CCTACCTTGT
Statistics
Matches: 171, Mismatches: 33, Indels: 30
0.73 0.14 0.13
Matches are distributed among these distances:
44 4 0.02
45 21 0.12
46 10 0.06
47 9 0.05
48 123 0.72
49 4 0.02
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (48 bp):
TAAGACCATGTTTGGGACATGGCTTTGGCATCGATATATGACCCCATG
Found at i:73572783 original size:20 final size:20
Alignment explanation
Indices: 73572760--73572803 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
73572750 GGACACGGGA
73572760 GTGTCCCAAG-CTACACAGGC
1 GTGTCCCAAGTC-ACACAGGC
*
73572780 GTGTCCCAAGTCACACGGGC
1 GTGTCCCAAGTCACACAGGC
73572800 GTGT
1 GTGT
73572804 GGGATTACAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 21 0.95
21 1 0.05
ACGTcount: A:0.20, C:0.32, G:0.30, T:0.18
Consensus pattern (20 bp):
GTGTCCCAAGTCACACAGGC
Found at i:73577246 original size:27 final size:27
Alignment explanation
Indices: 73577215--73577392 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
73577205 TAAATTGTAC
73577215 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
73577242 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
73577268 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
73577296 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
73577324 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
73577351 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
73577378 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
73577393 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:73577329 original size:82 final size:81
Alignment explanation
Indices: 73577216--73577371 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
73577206 AAATTGTACA
* *
73577216 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
73577280 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
73577297 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
73577362 TGCGAGTTGA
65 TGCGAATTGA
73577372 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:73577383 original size:82 final size:81
Alignment explanation
Indices: 73577212--73577392 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
73577202 GATTAAATTG
* *
73577212 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
73577277 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
73577293 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
73577357 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
73577375 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
73577393 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:73582408 original size:93 final size:93
Alignment explanation
Indices: 73582296--73582466 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
73582286 GCCCATAAGT
* *
73582296 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
73582361 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
73582389 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
73582454 CGAGTTCGGATGC
66 CGAGTTCGGATGC
73582467 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:73582463 original size:46 final size:46
Alignment explanation
Indices: 73582288--73582463 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
73582278 TGTAACCCGC
* * *
73582288 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
73582334 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
73582384 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
73582427 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
73582464 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:73584898 original size:30 final size:30
Alignment explanation
Indices: 73584854--73584942 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
73584844 CAAAGATAAC
*
73584854 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCGGAATAAAGAAATCCAAGATA
*
73584883 GAGAAACCCGGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGGAATAAAGAAATCCAAG-ATA
* * *
73584913 AAGAGATCCAGG-ATAAAGAAACCCAAGATA
1 AAGA-AACCCGGAATAAAGAAATCCAAGATA
73584943 CGATACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 9 0.18
30 34 0.68
31 7 0.14
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.10
Consensus pattern (30 bp):
AAGAAACCCGGAATAAAGAAATCCAAGATA
Found at i:73584902 original size:15 final size:14
Alignment explanation
Indices: 73584854--73584936 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
73584844 CAAAGATAAC
*
73584854 AAGAAAACCGAATA
1 AAGAAACCCGAATA
* *
73584868 AAGAAATCCAAGATA
1 AAGAAACCCGA-ATA
*
73584883 GAGAAACCCGGAATA
1 AAGAAACCC-GAATA
*
73584898 AAGAAATCCAGAATA
1 AAGAAA-CCCGAATA
* * *
73584913 AAGAGATCCAGGATA
1 AAGA-AACCCGAATA
73584928 AAGAAACCC
1 AAGAAACCC
73584937 AAGATACGAT
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
14 12 0.22
15 38 0.70
16 4 0.07
ACGTcount: A:0.55, C:0.17, G:0.18, T:0.10
Consensus pattern (14 bp):
AAGAAACCCGAATA
Found at i:73584942 original size:15 final size:15
Alignment explanation
Indices: 73584865--73584942 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
73584855 AGAAAACCGA
73584865 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
73584880 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
73584894 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
73584909 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
73584925 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
73584940 ATA
1 ATA
73584943 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:73587978 original size:93 final size:93
Alignment explanation
Indices: 73587865--73588033 Score: 268
Period size: 93 Copynumber: 1.8 Consensus size: 93
73587855 GCCCATAAGT
** * *
73587865 GAACTCGGACTCAACTCAACGAGCTC-GAGTGTTCGCATCCATAAGTTAACTCGGACTTAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGA-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
73587929 ACGAGCTCGGATTCCTAGTTACATCTCTC
65 ACGAGCTCGGATTCCTAGTTACATCTCTC
*
73587958 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
73588023 CGAGTTCGGAT
66 CGAGCTCGGAT
73588034 GCTCAACCAT
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
93 67 0.97
94 2 0.03
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATTCCTAGTTACATCTCTC
Found at i:73588019 original size:46 final size:45
Alignment explanation
Indices: 73587857--73588032 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 45
73587847 TGTAACGCGC
**
73587857 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCG-GAATTCGCAT
* *
73587903 CCATAAGTTAACTCGGACTTAACTCAACGAGCTCGG-ATTC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAATTCGC-A--T
* *** *
73587949 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGA-ATTCGCAT
*
73587996 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
73588033 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 1 0.01
46 67 0.61
47 30 0.28
49 5 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAATTCGCAT
Found at i:73601648 original size:21 final size:21
Alignment explanation
Indices: 73601623--73601677 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
73601613 TCAACTACCA
*
73601623 TCGCTGCTGCCTCTGCCTCTC
1 TCGCTGCTGCCTCTGCCTCCC
*
73601644 TCGCTGCTGCCGCTGCCTCCC
1 TCGCTGCTGCCTCTGCCTCCC
* *
73601665 TCTCTGCTACCTC
1 TCGCTGCTGCCTC
73601678 CGCTCTAAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.02, C:0.49, G:0.18, T:0.31
Consensus pattern (21 bp):
TCGCTGCTGCCTCTGCCTCCC
Found at i:73602221 original size:13 final size:14
Alignment explanation
Indices: 73602195--73602223 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
73602185 ACTAACGAAG
73602195 AATTAAACCATTAT
1 AATTAAACCATTAT
73602209 AATTAAA-CATTAT
1 AATTAAACCATTAT
73602222 AA
1 AA
73602224 ATATCTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:73604329 original size:31 final size:30
Alignment explanation
Indices: 73604286--73604364 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 30
73604276 TTTAACGGTT
*
73604286 ACTGGGCTAAAGCCTTTTCATTAATCAAACC
1 ACTGGGC-AAAGCCTTTTCATAAATCAAACC
* * *
73604317 ACTGGGTCAAAGCCATTTCATAAATCATATC
1 ACTGGG-CAAAGCCTTTTCATAAATCAAACC
*
73604348 ACTGGGCCGAAGCCTTT
1 ACTGGG-CAAAGCCTTT
73604365 ACTGTAAACA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
31 39 0.98
32 1 0.03
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.28
Consensus pattern (30 bp):
ACTGGGCAAAGCCTTTTCATAAATCAAACC
Found at i:73604598 original size:24 final size:24
Alignment explanation
Indices: 73604548--73604628 Score: 83
Period size: 25 Copynumber: 3.2 Consensus size: 24
73604538 AGCATAGCTG
* **
73604548 CCTTATCACATAACTGGAGGCCTAGC
1 CCTTTTCA-ATAACT-GAGGCAAAGC
73604574 CTCTTTT-AATAACTGAGGCAAAGC
1 C-CTTTTCAATAACTGAGGCAAAGC
*
73604598 CCTTTTCAATAAACTGCGGCAAAGC
1 CCTTTTCAAT-AACTGAGGCAAAGC
73604623 CCTTTT
1 CCTTTT
73604629 GCACTTCCTC
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
23 5 0.10
24 12 0.25
25 25 0.52
26 2 0.04
27 4 0.08
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.28
Consensus pattern (24 bp):
CCTTTTCAATAACTGAGGCAAAGC
Found at i:73604705 original size:20 final size:20
Alignment explanation
Indices: 73604676--73604732 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
73604666 TATATGAGTT
*
73604676 TATCAAGTGCATATCATACA
1 TATCATGTGCATATCATACA
73604696 TATCATGTGCATATCATACA
1 TATCATGTGCATATCATACA
73604716 TATCATGTGCATATCAT
1 TATCATGTGCATATCAT
73604733 GTCAAGTCAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.35
Consensus pattern (20 bp):
TATCATGTGCATATCATACA
Found at i:73604708 original size:11 final size:11
Alignment explanation
Indices: 73604676--73604734 Score: 63
Period size: 11 Copynumber: 5.7 Consensus size: 11
73604666 TATATGAGTT
*
73604676 TATCAAGTGCA
1 TATCATGTGCA
*
73604687 TATCA--TACA
1 TATCATGTGCA
73604696 TATCATGTGCA
1 TATCATGTGCA
*
73604707 TATCA--TACA
1 TATCATGTGCA
73604716 TATCATGTGCA
1 TATCATGTGCA
73604727 TATCATGT
1 TATCATGT
73604735 CAAGTCATGT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
9 16 0.40
11 24 0.60
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.36
Consensus pattern (11 bp):
TATCATGTGCA
Found at i:73612543 original size:11 final size:10
Alignment explanation
Indices: 73612527--73612584 Score: 57
Period size: 11 Copynumber: 5.7 Consensus size: 10
73612517 TATATGAGTT
73612527 TATCATGTGCA
1 TATCAT-TGCA
*
73612538 TATCA-TACA
1 TATCATTGCA
73612547 TATCATGTGCA
1 TATCAT-TGCA
*
73612558 TATCA-TACA
1 TATCATTGCA
73612567 TATCATATGCA
1 TATCAT-TGCA
73612578 TATCATT
1 TATCATT
73612585 TCAAATCATG
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
9 16 0.41
10 1 0.03
11 22 0.56
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.38
Consensus pattern (10 bp):
TATCATTGCA
Found at i:73612550 original size:9 final size:9
Alignment explanation
Indices: 73612536--73612583 Score: 51
Period size: 9 Copynumber: 4.9 Consensus size: 9
73612526 TTATCATGTG
73612536 CATATCATA
1 CATATCATA
*
73612545 CATATCATGTG
1 CATATCA--TA
73612556 CATATCATA
1 CATATCATA
73612565 CATATCATA
1 CATATCATA
73612574 TGCATATCAT
1 --CATATCAT
73612584 TTCAAATCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 17 0.52
11 16 0.48
ACGTcount: A:0.38, C:0.21, G:0.06, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:73612552 original size:20 final size:20
Alignment explanation
Indices: 73612527--73612583 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
73612517 TATATGAGTT
73612527 TATCATGTGCATATCATACA
1 TATCATGTGCATATCATACA
73612547 TATCATGTGCATATCATACA
1 TATCATGTGCATATCATACA
*
73612567 TATCATATGCATATCAT
1 TATCATGTGCATATCAT
73612584 TTCAAATCAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (20 bp):
TATCATGTGCATATCATACA
Found at i:73612573 original size:5 final size:5
Alignment explanation
Indices: 73612536--73612593 Score: 57
Period size: 5 Copynumber: 11.6 Consensus size: 5
73612526 TTATCATGTG
* *
73612536 CATAT CATA- CATAT CATGT GCATAT CATA- CATAT CATAT GCATAT CATTT
1 CATAT CATAT CATAT CATAT -CATAT CATAT CATAT CATAT -CATAT CATAT
*
73612586 CAAAT CAT
1 CATAT CAT
73612594 GTATATCAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
4 8 0.19
5 26 0.60
6 9 0.21
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (5 bp):
CATAT
Found at i:73618184 original size:9 final size:9
Alignment explanation
Indices: 73618163--73618283 Score: 72
Period size: 9 Copynumber: 13.6 Consensus size: 9
73618153 TATGTATTAC
*
73618163 GTAAGTTAA
1 GTAAGTTAT
73618172 GTAAGCTT-T
1 GTAAG-TTAT
73618181 GTAAGTTAT
1 GTAAGTTAT
73618190 GTAAGTTAT
1 GTAAGTTAT
* *
73618199 GTTA-TGAT
1 GTAAGTTAT
* *
73618207 ATACATTTAT
1 GTA-AGTTAT
*
73618217 GTAAGGTAT
1 GTAAGTTAT
73618226 GTAAGTTAT
1 GTAAGTTAT
* *
73618235 GATATGATAT
1 G-TAAGTTAT
* *
73618245 AT-ATTTAT
1 GTAAGTTAT
73618253 GT-A-TTAT
1 GTAAGTTAT
*
73618260 GTAAGTTGT
1 GTAAGTTAT
73618269 GTAAGTTAT
1 GTAAGTTAT
73618278 GATAAG
1 G-TAAG
73618284 ATATATATTT
Statistics
Matches: 85, Mismatches: 19, Indels: 15
0.71 0.16 0.13
Matches are distributed among these distances:
7 6 0.07
8 12 0.14
9 50 0.59
10 17 0.20
ACGTcount: A:0.34, C:0.02, G:0.21, T:0.44
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:73618227 original size:36 final size:36
Alignment explanation
Indices: 73618180--73618255 Score: 125
Period size: 36 Copynumber: 2.1 Consensus size: 36
73618170 AAGTAAGCTT
* *
73618180 TGTAAGTTATGTAAGTTATGTTATGATATACATTTA
1 TGTAAGGTATGTAAGTTATGATATGATATACATTTA
*
73618216 TGTAAGGTATGTAAGTTATGATATGATATATATTTA
1 TGTAAGGTATGTAAGTTATGATATGATATACATTTA
73618252 TGTA
1 TGTA
73618256 TTATGTAAGT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.34, C:0.01, G:0.18, T:0.46
Consensus pattern (36 bp):
TGTAAGGTATGTAAGTTATGATATGATATACATTTA
Found at i:73618272 original size:43 final size:43
Alignment explanation
Indices: 73618213--73618296 Score: 141
Period size: 43 Copynumber: 2.0 Consensus size: 43
73618203 TGATATACAT
*
73618213 TTATGTAAGGTATGTAAGTTATGATATGATATATATTTATGTA
1 TTATGTAAGGTATGTAAGTTATGATAAGATATATATTTATGTA
* *
73618256 TTATGTAAGTTGTGTAAGTTATGATAAGATATATATTTATG
1 TTATGTAAGGTATGTAAGTTATGATAAGATATATATTTATG
73618297 ATATATATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (43 bp):
TTATGTAAGGTATGTAAGTTATGATAAGATATATATTTATGTA
Found at i:73618304 original size:56 final size:56
Alignment explanation
Indices: 73618237--73618468 Score: 348
Period size: 56 Copynumber: 4.2 Consensus size: 56
73618227 TAAGTTATGA
73618237 TATGATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAAGATATATATT
1 TATGATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAAGATATATATT
* *
73618293 TATGATATATATTTGGA-GTATTATGTAAGTTGTGTAAGTTATGATATGATACATATT
1 TATGATATATATTT--ATGTATTATGTAAGTTGTGTAAGTTATGATAAGATATATATT
* * *
73618350 TATGAAATATATTTATGTATTATGTTAGTTGTGTAAGTTATGATATGATATATATT
1 TATGATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAAGATATATATT
* *
73618406 TATGATATATATTTATGTATTATGTAAGTTTTGTAAGTTATG-TAAG-T-TAT-TA
1 TATGATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAAGATATATATT
73618458 TATGATATATA
1 TATGATATATA
73618469 ATAAACATTA
Statistics
Matches: 163, Mismatches: 10, Indels: 10
0.89 0.05 0.05
Matches are distributed among these distances:
52 12 0.07
53 3 0.02
54 1 0.01
55 4 0.02
56 91 0.56
57 51 0.31
58 1 0.01
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.49
Consensus pattern (56 bp):
TATGATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAAGATATATATT
Found at i:73618366 original size:113 final size:112
Alignment explanation
Indices: 73618237--73618447 Score: 361
Period size: 113 Copynumber: 1.9 Consensus size: 112
73618227 TAAGTTATGA
*
73618237 TATGATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAAGATATATATTTATGATATA
1 TATGAAATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAAGATATATATTTATGATATA
73618302 TATTTGGA-GTATTATGTAAGTTGTGTAAGTTATGATATGATACATATT
66 TATTT--ATGTATTATGTAAGTTGTGTAAGTTATGATATGATACATATT
* *
73618350 TATGAAATATATTTATGTATTATGTTAGTTGTGTAAGTTATGATATGATATATATTTATGATATA
1 TATGAAATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAAGATATATATTTATGATATA
*
73618415 TATTTATGTATTATGTAAGTTTTGTAAGTTATG
66 TATTTATGTATTATGTAAGTTGTGTAAGTTATG
73618448 TAAGTTATTA
Statistics
Matches: 93, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
111 1 0.01
112 25 0.27
113 67 0.72
ACGTcount: A:0.34, C:0.00, G:0.17, T:0.49
Consensus pattern (112 bp):
TATGAAATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAAGATATATATTTATGATATA
TATTTATGTATTATGTAAGTTGTGTAAGTTATGATATGATACATATT
Found at i:73618411 original size:13 final size:13
Alignment explanation
Indices: 73618393--73618422 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
73618383 TAAGTTATGA
73618393 TATGATATATATT
1 TATGATATATATT
73618406 TATGATATATATT
1 TATGATATATATT
73618419 TATG
1 TATG
73618423 TATTATGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (13 bp):
TATGATATATATT
Found at i:73618442 original size:9 final size:9
Alignment explanation
Indices: 73618425--73618455 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
73618415 TATTTATGTA
73618425 TTATGTAAG
1 TTATGTAAG
*
73618434 TTTTGTAAG
1 TTATGTAAG
73618443 TTATGTAAG
1 TTATGTAAG
73618452 TTAT
1 TTAT
73618456 TATATGATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.29, C:0.00, G:0.19, T:0.52
Consensus pattern (9 bp):
TTATGTAAG
Found at i:73618681 original size:20 final size:20
Alignment explanation
Indices: 73618628--73618681 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 20
73618618 GATTAATCCA
*
73618628 AAATAAATTAATCCAAAAAT
1 AAATAAATTTATCCAAAAAT
**
73618648 ATGT-AATTTA---AAAAAT
1 AAATAAATTTATCCAAAAAT
73618664 AAATAAATTTATCCAAAA
1 AAATAAATTTATCCAAAA
73618682 TATATATGTC
Statistics
Matches: 25, Mismatches: 5, Indels: 8
0.66 0.13 0.21
Matches are distributed among these distances:
16 8 0.32
17 6 0.24
19 5 0.20
20 6 0.24
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.30
Consensus pattern (20 bp):
AAATAAATTTATCCAAAAAT
Found at i:73618929 original size:10 final size:9
Alignment explanation
Indices: 73618883--73618929 Score: 51
Period size: 10 Copynumber: 5.0 Consensus size: 9
73618873 AATTATATTA
73618883 ATTGATAAAT
1 ATTGA-AAAT
73618893 ATTG-AAAT
1 ATTGAAAAT
73618901 ATTGAAATAT
1 ATTGAAA-AT
*
73618911 ATTTAAAAT
1 ATTGAAAAT
73618920 ATTGATAAAT
1 ATTGA-AAAT
73618930 GAAATATAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
8 8 0.25
9 8 0.25
10 16 0.50
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (9 bp):
ATTGAAAAT
Found at i:73618943 original size:26 final size:27
Alignment explanation
Indices: 73618889--73618943 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
73618879 ATTAATTGAT
**
73618889 AAATATTGAAATATTGAAATATATTTA
1 AAATATTGAAATATTGAAATATAAGTA
73618916 AAATATTGATAA-A-TGAAATATAAGTA
1 AAATATTGA-AATATTGAAATATAAGTA
73618942 AA
1 AA
73618944 TCATTTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 13 0.52
27 10 0.40
28 2 0.08
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (27 bp):
AAATATTGAAATATTGAAATATAAGTA
Found at i:73621492 original size:60 final size:59
Alignment explanation
Indices: 73621414--73621543 Score: 172
Period size: 60 Copynumber: 2.2 Consensus size: 59
73621404 TTTTGAATTG
* ** *
73621414 GGGA-AAAGGGGTAATTATTTTAGGGTTTCAAATTAGGGAAAATGGGGGCAAATAAACTA
1 GGGAGAAAGGGGTAATTATTTTAGGGATTCAAAGAAGGGAAAATGGGGG-AAATAAACCA
* *
73621473 GGGAGAAAGGGGTGATTATTTTAGGGATTCAGAGAAGGGAAAATGGGGGAAATAAACCA
1 GGGAGAAAGGGGTAATTATTTTAGGGATTCAAAGAAGGGAAAATGGGGGAAATAAACCA
* *
73621532 GAGAGAAGGGGG
1 GGGAGAAAGGGG
73621544 AAAATGAATA
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
59 23 0.37
60 39 0.63
ACGTcount: A:0.38, C:0.05, G:0.37, T:0.20
Consensus pattern (59 bp):
GGGAGAAAGGGGTAATTATTTTAGGGATTCAAAGAAGGGAAAATGGGGGAAATAAACCA
Found at i:73622047 original size:114 final size:115
Alignment explanation
Indices: 73621631--73622161 Score: 508
Period size: 114 Copynumber: 4.6 Consensus size: 115
73621621 CACGTTTTCT
* *
73621631 CCTAACGCCGCTAAAGGCAAACCAATTGCGGCGTTTTAACAT-AAACGCCACTAAAAATCAAACA
1 CCTAACGCCGCTAAAGGCAAACCTATTGCGGCGTTTTAACCTAAAACGCCACTAAAAATCAAACA
* * * * *
73621695 AAAC-A-ATGCCATTTTGATATAAACAAAATAAACTTTAGTGGCGTTTTTCC
66 AAACTACAT--CGTTTTGATATAAACAAAATAACCATTAGTGGCGTTTATAC
* * * * * * *
73621745 CCTAGCACCGTTAAAGGCAAATCAATTGCCGCG-TTTAACCCTAAAATGCCACTAAAAATCCAAA
1 CCTAACGCCGCTAAAGGCAAACCTATTGCGGCGTTTTAA-CCTAAAACGCCACTAAAAAT-C--A
* * ** * * *
73621809 AAAAAAAATGACGGCGTTTTCATATAAACAGAATAA-CATTTAGTGGCATTT-TATC
62 AACAAAACT-ACATCGTTTTGATATAAACAAAATAACCA-TTAGTGGCGTTTATA-C
* * * *
73621864 TCC-AAGCGCCGCTAAAGGCGAAA-CTATTGCGGCATTTTACCCTAAAACGCCACTAAGAATCCA
1 -CCTAA-CGCCGCTAAAGGC-AAACCTATTGCGGCGTTTTAACCTAAAACGCCACTAAAAATCAA
*
73621927 ATAAAACTACATCGTTTTGATATAAACAAAATAACCATTAGTGGCGTTTATAC
63 ACAAAACTACATCGTTTTGATATAAACAAAATAACCATTAGTGGCGTTTATAC
* * * * *
73621980 CCTAACGCCGCTAAA-TCTAACCTATTGTGGCGTTTTAACCAAAAACGCCACTAAAAATCGATA-
1 CCTAACGCCGCTAAAGGCAAACCTATTGCGGCGTTTTAACCTAAAACGCCACTAAAAATC-AAAC
* * *
73622043 AAAACTACACCGTTTTGATATAAACAAAATAACCATTAGTGGTGTTTATAA
65 AAAACTACATCGTTTTGATATAAACAAAATAACCATTAGTGGCGTTTATAC
** * * *
73622094 CCTTGCGCCGCTAAA-TCAAACCTATTGCGGCGTTTTAACCTAAAATGCCACTAAAAATCCAAAA
1 CCTAACGCCGCTAAAGGCAAACCTATTGCGGCGTTTTAACCTAAAACGCCACTAAAAAT-CAAAC
73622158 AAAA
65 AAAA
73622162 AAAAATGATG
Statistics
Matches: 343, Mismatches: 53, Indels: 41
0.78 0.12 0.09
Matches are distributed among these distances:
113 7 0.02
114 166 0.48
115 33 0.10
116 37 0.11
117 11 0.03
118 9 0.03
119 33 0.10
120 40 0.12
121 7 0.02
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.25
Consensus pattern (115 bp):
CCTAACGCCGCTAAAGGCAAACCTATTGCGGCGTTTTAACCTAAAACGCCACTAAAAATCAAACA
AAACTACATCGTTTTGATATAAACAAAATAACCATTAGTGGCGTTTATAC
Found at i:73622643 original size:22 final size:23
Alignment explanation
Indices: 73622618--73622670 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
73622608 CTTAATCTCC
*
73622618 AACCCTTAAA-TCATACA-CCATA
1 AACCCTTAAACCCATA-ATCCATA
73622640 AACCC-TAAACCCATAATCCATA
1 AACCCTTAAACCCATAATCCATA
73622662 AA-CCTTAAA
1 AACCCTTAAA
73622671 ATAGTAACTC
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 7 0.26
22 20 0.74
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.21
Consensus pattern (23 bp):
AACCCTTAAACCCATAATCCATA
Found at i:73622655 original size:15 final size:15
Alignment explanation
Indices: 73622635--73622722 Score: 51
Period size: 14 Copynumber: 6.1 Consensus size: 15
73622625 AAATCATACA
*
73622635 CCATAAACCCTAAAC
1 CCATAAACCATAAAC
*
73622650 CCATAATCCATAAA-
1 CCATAAACCATAAAC
*
73622664 CCTTAAA--ATAGTAAC
1 CCATAAACCATA--AAC
* * **
73622679 TCATACACTTTAAAC
1 CCATAAACCATAAAC
*
73622694 CC-TAAACCATATAC
1 CCATAAACCATAAAC
73622708 CC-TAAACCATAAAC
1 CCATAAACCATAAAC
73622722 C
1 C
73622723 TTAAACTATA
Statistics
Matches: 54, Mismatches: 14, Indels: 11
0.68 0.18 0.14
Matches are distributed among these distances:
12 3 0.06
14 29 0.54
15 20 0.37
17 2 0.04
ACGTcount: A:0.45, C:0.32, G:0.01, T:0.22
Consensus pattern (15 bp):
CCATAAACCATAAAC
Found at i:73622711 original size:14 final size:14
Alignment explanation
Indices: 73622689--73622733 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
73622679 TCATACACTT
73622689 TAAACCCTAAACCA
1 TAAACCCTAAACCA
*
73622703 TATACCCTAAACCA
1 TAAACCCTAAACCA
* *
73622717 TAAACCTTAAACTA
1 TAAACCCTAAACCA
73622731 TAA
1 TAA
73622734 TGATAATTAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:73623064 original size:7 final size:7
Alignment explanation
Indices: 73623038--73623079 Score: 57
Period size: 7 Copynumber: 6.0 Consensus size: 7
73623028 ATTCCAAATT
*
73623038 CCAAATC
1 CCAAACC
73623045 CCAAACC
1 CCAAACC
**
73623052 ATAAACC
1 CCAAACC
73623059 CCAAACC
1 CCAAACC
73623066 CCAAACC
1 CCAAACC
73623073 CCAAACC
1 CCAAACC
73623080 ATAACCTCAG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.45, C:0.50, G:0.00, T:0.05
Consensus pattern (7 bp):
CCAAACC
Found at i:73623408 original size:14 final size:14
Alignment explanation
Indices: 73623368--73623414 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
73623358 TCATACACTT
73623368 TAAACCCTAAACCA
1 TAAACCCTAAACCA
*
73623382 TATACAGCCTAAACCA
1 TA-A-ACCCTAAACCA
*
73623398 TAAACCCTAAACTA
1 TAAACCCTAAACCA
73623412 TAA
1 TAA
73623415 TGATAATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
14 14 0.50
15 2 0.07
16 12 0.43
ACGTcount: A:0.49, C:0.30, G:0.02, T:0.19
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:73624206 original size:22 final size:22
Alignment explanation
Indices: 73624175--73624250 Score: 66
Period size: 22 Copynumber: 3.5 Consensus size: 22
73624165 TTTTTTGGGG
*
73624175 TTTAGGGTTTTAAAGGTTATTA
1 TTTAGTGTTTTAAAGGTTATTA
* **
73624197 TTTAGTG-TTTAAAGTTTAGTGG
1 TTTAGTGTTTTAAAGGTTA-TTA
**
73624219 TTTAGTGTTTTAGGGGTTA-TA
1 TTTAGTGTTTTAAAGGTTATTA
73624240 TATTAGTGTTT
1 T-TTAGTGTTT
73624251 ATGATTTTTT
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
21 11 0.26
22 23 0.55
23 8 0.19
ACGTcount: A:0.22, C:0.00, G:0.25, T:0.53
Consensus pattern (22 bp):
TTTAGTGTTTTAAAGGTTATTA
Found at i:73624378 original size:41 final size:41
Alignment explanation
Indices: 73624291--73624419 Score: 188
Period size: 41 Copynumber: 3.2 Consensus size: 41
73624281 GTTATATGAC
* *
73624291 TTTTAGCGGTGTTTTACCGAAAGCGCCGCT-ATGCTCTGGT
1 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTGGT
* *
73624331 TTTTAGCGGCGTTTTACAGAAAGCACCCCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTGGT
* * *
73624372 TTTTAGCAGCGTTTTACAGAAAGCGCCGCTAATTCTTTGGT
1 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTGGT
73624413 TTTTAGC
1 TTTTAGC
73624420 AGCTTTTTTG
Statistics
Matches: 79, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
40 26 0.33
41 53 0.67
ACGTcount: A:0.19, C:0.22, G:0.23, T:0.36
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTGGT
Found at i:73624500 original size:41 final size:41
Alignment explanation
Indices: 73624291--73624578 Score: 162
Period size: 41 Copynumber: 7.1 Consensus size: 41
73624281 GTTATATGAC
* ** * *
73624291 TTTTAGCGGTGTTTT-ACCGAAAGCGCCGCTA-TGCTCTGGT
1 TTTTAGCGGCGTTTTAACAAAAAACGCTGCTATTGCTCT-GT
* * * ** *
73624331 TTTTAGCGGCGTTTT-ACAGAAAGCACCCCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTAACAAAAAACGCTGCTATTGCTCT-GT
* * * * *
73624372 TTTTAGCAGCGTTTT-ACAGAAAGCGCCGCTAATT-CTTTGGT
1 TTTTAGCGGCGTTTTAACAAAAAACGCTGCT-ATTGCTCT-GT
* ***** * * *
73624413 TTTTAGCAGC-TTTTTTGGTAAAACGCTGCTATTAC-ATAT
1 TTTTAGCGGCGTTTTAACAAAAAACGCTGCTATTGCTCTGT
** *
73624452 TTTTAGCGTTGTTTTAACAAAAAATGCTGCTATTGCTCTGT
1 TTTTAGCGGCGTTTTAACAAAAAACGCTGCTATTGCTCTGT
* * * * *
73624493 TTTTAGCGGCGTTTTAACACAAAACACCGCTATTTCTCTAT
1 TTTTAGCGGCGTTTTAACAAAAAACGCTGCTATTGCTCTGT
*
73624534 TTTTAGCGGCGTTTT-ACCAAAAACGCTGCTA-TGCTCTGT
1 TTTTAGCGGCGTTTTAACAAAAAACGCTGCTATTGCTCTGT
73624573 GTTTTA
1 -TTTTA
73624579 CAATTTTTAC
Statistics
Matches: 198, Mismatches: 43, Indels: 14
0.78 0.17 0.05
Matches are distributed among these distances:
39 14 0.07
40 70 0.35
41 112 0.57
42 2 0.01
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.38
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTAACAAAAAACGCTGCTATTGCTCTGT
Found at i:73624578 original size:81 final size:80
Alignment explanation
Indices: 73624291--73624577 Score: 229
Period size: 81 Copynumber: 3.5 Consensus size: 80
73624281 GTTATATGAC
* * * * *
73624291 TTTTAGCGGTGTTTTACCGAAAGCGCCGCTATGCTCTGGTTTTTAGCGGCGTTTTACAGAAAGCA
1 TTTTAGCGGCGTTTTACCAAAAACGCCGCTATGCTCTGGTTTTTAGCGGCGTTTTACACAAAACA
* * * *
73624356 CCCCTAATGCTCTGGT
66 CCGCTATTACTCT-AT
* * * * * * ****
73624372 TTTTAGCAGCGTTTTA-CAGAAAGCGCCGCTAATTCTTTGGTTTTTAGCAGCTTTTTTGGTAAAA
1 TTTTAGCGGCGTTTTACCA-AAAACGCCGCT-ATGCTCTGGTTTTTAGCGGCGTTTTACACAAAA
* * *
73624436 CGCTGCTATTAC-ATAT
64 CACCGCTATTACTCTAT
** * * *
73624452 TTTTAGCGTTGTTTTAACAAAAAATGCTGCTATTGCTCT-GTTTTTAGCGGCGTTTTAACACAAA
1 TTTTAGCGGCGTTTT-ACCAAAAACGCCGCTA-TGCTCTGGTTTTTAGCGGCGTTTT-ACACAAA
*
73624516 ACACCGCTATTTCTCTAT
63 ACACCGCTATTACTCTAT
*
73624534 TTTTAGCGGCGTTTTACCAAAAACGCTGCTATGCTCTGTGTTTT
1 TTTTAGCGGCGTTTTACCAAAAACGCCGCTATGCTCTG-GTTTT
73624578 ACAATTTTTA
Statistics
Matches: 155, Mismatches: 42, Indels: 17
0.72 0.20 0.08
Matches are distributed among these distances:
80 36 0.23
81 66 0.43
82 53 0.34
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (80 bp):
TTTTAGCGGCGTTTTACCAAAAACGCCGCTATGCTCTGGTTTTTAGCGGCGTTTTACACAAAACA
CCGCTATTACTCTAT
Found at i:73630020 original size:29 final size:29
Alignment explanation
Indices: 73629980--73630079 Score: 121
Period size: 29 Copynumber: 3.5 Consensus size: 29
73629970 AATGTGACTG
*
73629980 GGCCTAACGGGCCATATAAATGTGATTTA
1 GGCCTAATGGGCCATATAAATGTGATTTA
* *
73630009 GGCCTAATGGGCCATATATAGGTGATTTA
1 GGCCTAATGGGCCATATAAATGTGATTTA
* * * *
73630038 GGCCTAGTGGGCTATATGAATATGA-TTA
1 GGCCTAATGGGCCATATAAATGTGATTTA
*
73630066 GGCTTAATGGGCCA
1 GGCCTAATGGGCCA
73630080 GATATAAGTA
Statistics
Matches: 59, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
28 14 0.24
29 45 0.76
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (29 bp):
GGCCTAATGGGCCATATAAATGTGATTTA
Found at i:73634554 original size:29 final size:28
Alignment explanation
Indices: 73634495--73634609 Score: 113
Period size: 29 Copynumber: 4.0 Consensus size: 28
73634485 GTGAGCATAA
* * * *
73634495 ATATGAATGTGACTGGGCCTAACGAGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
*
73634523 ATATAAATGTGATTTGGGCCTAATGGGTC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* *
73634552 ATATACAGGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
** * *
73634581 ATATGCATATGATTGGGCTTAATGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
73634609 A
1 A
73634610 GATACAGGTA
Statistics
Matches: 74, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 27 0.36
29 47 0.64
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCCTAATGGGCC
Found at i:73634605 original size:28 final size:29
Alignment explanation
Indices: 73634508--73634616 Score: 114
Period size: 29 Copynumber: 3.8 Consensus size: 29
73634498 TGAATGTGAC
* * *
73634508 TGGGCCTAACGAGCCATATAAATG-TGATT
1 TGGGCCTAATGGGCCATATACA-GATGATT
* *
73634537 TGGGCCTAATGGGTCATATACAGGTGATT
1 TGGGCCTAATGGGCCATATACAGATGATT
* *
73634566 TGGGCCTAATGGGCCATATGCATATGA-T
1 TGGGCCTAATGGGCCATATACAGATGATT
* *
73634594 TGGGCTTAATGGGCCAGATACAG
1 TGGGCCTAATGGGCCATATACAG
73634617 GTATGTGAAT
Statistics
Matches: 67, Mismatches: 12, Indels: 3
0.82 0.15 0.04
Matches are distributed among these distances:
28 21 0.31
29 46 0.69
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.28
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATACAGATGATT
Found at i:73634618 original size:57 final size:58
Alignment explanation
Indices: 73634508--73634618 Score: 143
Period size: 57 Copynumber: 1.9 Consensus size: 58
73634498 TGAATGTGAC
* * *
73634508 TGGGCCTAACGAGCCATATAAATGTGATTTGGGCCTAATGGGTCATATACAGGTGATT
1 TGGGCCTAACGAGCCATATAAATATGATTTGGGCCTAATGGGCCAGATACAGGTGATT
* * ** *
73634566 TGGGCCTAATGGGCCATATGCATATGA-TTGGGCTTAATGGGCCAGATACAGGT
1 TGGGCCTAACGAGCCATATAAATATGATTTGGGCCTAATGGGCCAGATACAGGT
73634619 ATGTGAATTT
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
57 23 0.51
58 22 0.49
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (58 bp):
TGGGCCTAACGAGCCATATAAATATGATTTGGGCCTAATGGGCCAGATACAGGTGATT
Found at i:73635416 original size:286 final size:286
Alignment explanation
Indices: 73634901--73635471 Score: 1072
Period size: 286 Copynumber: 2.0 Consensus size: 286
73634891 TTAAGGGAAA
73634901 AATATCGAAATACCCCTAAGGGCAAAAATGACCAAAATACCCCTAGGTGTTGAATGTAAGTTTTA
1 AATATCGAAATACCCCTAAGGGCAAAAATGACCAAAATACCCCTAGGTGTTGAATGTAAGTTTTA
73634966 TGGATGTGACATGCATACATATGATGTTCTGCTTTGGTTGCATATGGGGTAGGAACTATGGAACG
66 TGGATGTGACATGCATACATATGATGTTCTGCTTTGGTTGCATATGGGGTAGGAACTATGGAACG
73635031 GAGGAAGTATATGAGGATCTCATGGTTGCCTAACAATCGTGGATCCACCAATGGCTTTTAAAGCC
131 GAGGAAGTATATGAGGATCTCATGGTTGCCTAACAATCGTGGATCCACCAATGGCTTTTAAAGCC
* * *
73635096 CAATATGTAAATGAAGGTAGTTCAACAACCGGGCTATCATTGGTGTGTAGGCTGGGTGGGTCGAT
196 CAATATGTAAATGAAGGTAGTTCAACAACCGGGCTACCACTGATGTGTAGGCTGGGTGGGTCGAT
73635161 ATTTATATCCCCACATGGTGTGACGG
261 ATTTATATCCCCACATGGTGTGACGG
73635187 AATATCGAAATACCCCTAAGGGCAAAAATGACCAAAATACCCCTAGGTGTTGAATGTAAGTTTTA
1 AATATCGAAATACCCCTAAGGGCAAAAATGACCAAAATACCCCTAGGTGTTGAATGTAAGTTTTA
73635252 TGGATGTGACATGCATACATATGATGTTCTGCTTTGGTTGCATATGGGGTAGGAACTATGGAACG
66 TGGATGTGACATGCATACATATGATGTTCTGCTTTGGTTGCATATGGGGTAGGAACTATGGAACG
73635317 GAGGAAGTATATGAGGATCTCATGGTTGCCTAACAATCGTGGATCCACCAATGGCTTTTAAAGCC
131 GAGGAAGTATATGAGGATCTCATGGTTGCCTAACAATCGTGGATCCACCAATGGCTTTTAAAGCC
* * *
73635382 CAATATGTAAATGAAGGTAGTTTC-GCATCCGGGCTACCACTGATGTGTGGGCTGGGTGGGTCGA
196 CAATATGTAAATGAAGGTAG-TTCAACAACCGGGCTACCACTGATGTGTAGGCTGGGTGGGTCGA
73635446 TATTTATATCCCCACATGGTGTGACG
260 TATTTATATCCCCACATGGTGTGACG
73635472 AGGGACGGAG
Statistics
Matches: 278, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
286 275 0.99
287 3 0.01
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (286 bp):
AATATCGAAATACCCCTAAGGGCAAAAATGACCAAAATACCCCTAGGTGTTGAATGTAAGTTTTA
TGGATGTGACATGCATACATATGATGTTCTGCTTTGGTTGCATATGGGGTAGGAACTATGGAACG
GAGGAAGTATATGAGGATCTCATGGTTGCCTAACAATCGTGGATCCACCAATGGCTTTTAAAGCC
CAATATGTAAATGAAGGTAGTTCAACAACCGGGCTACCACTGATGTGTAGGCTGGGTGGGTCGAT
ATTTATATCCCCACATGGTGTGACGG
Found at i:73636067 original size:238 final size:238
Alignment explanation
Indices: 73635649--73636125 Score: 954
Period size: 238 Copynumber: 2.0 Consensus size: 238
73635639 CGATGTTTGG
73635649 AAGGACTCTGGGTGGCTGGCTAGCAAAATAATTCAGACTTGGTTTTTTTTAAGAATTTAAGTTTT
1 AAGGACTCTGGGTGGCTGGCTAGCAAAATAATTCAGACTTGGTTTTTTTTAAGAATTTAAGTTTT
73635714 TATTTCTTTTTAAGTGTGTTCAGATTAGATTGTAATAAGGTTTTCATTATGTTATTATTACTTGA
66 TATTTCTTTTTAAGTGTGTTCAGATTAGATTGTAATAAGGTTTTCATTATGTTATTATTACTTGA
73635779 ATTATATTATTATTTTCATTGTAATTATAATAAGTTGAACATGGTTTCTTAAACTATAGTATGTC
131 ATTATATTATTATTTTCATTGTAATTATAATAAGTTGAACATGGTTTCTTAAACTATAGTATGTC
73635844 TTTTCTACATTTCCGCAACTAAATTTCAAAATGATAGGTTTCC
196 TTTTCTACATTTCCGCAACTAAATTTCAAAATGATAGGTTTCC
73635887 AAGGACTCTGGGTGGCTGGCTAGCAAAATAATTCAGACTTGGTTTTTTTTAAGAATTTAAGTTTT
1 AAGGACTCTGGGTGGCTGGCTAGCAAAATAATTCAGACTTGGTTTTTTTTAAGAATTTAAGTTTT
73635952 TATTTCTTTTTAAGTGTGTTCAGATTAGATTGTAATAAGGTTTTCATTATGTTATTATTACTTGA
66 TATTTCTTTTTAAGTGTGTTCAGATTAGATTGTAATAAGGTTTTCATTATGTTATTATTACTTGA
73636017 ATTATATTATTATTTTCATTGTAATTATAATAAGTTGAACATGGTTTCTTAAACTATAGTATGTC
131 ATTATATTATTATTTTCATTGTAATTATAATAAGTTGAACATGGTTTCTTAAACTATAGTATGTC
73636082 TTTTCTACATTTCCGCAACTAAATTTCAAAATGATAGGTTTCC
196 TTTTCTACATTTCCGCAACTAAATTTCAAAATGATAGGTTTCC
73636125 A
1 A
73636126 TAGGTTTTCA
Statistics
Matches: 239, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
238 239 1.00
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.45
Consensus pattern (238 bp):
AAGGACTCTGGGTGGCTGGCTAGCAAAATAATTCAGACTTGGTTTTTTTTAAGAATTTAAGTTTT
TATTTCTTTTTAAGTGTGTTCAGATTAGATTGTAATAAGGTTTTCATTATGTTATTATTACTTGA
ATTATATTATTATTTTCATTGTAATTATAATAAGTTGAACATGGTTTCTTAAACTATAGTATGTC
TTTTCTACATTTCCGCAACTAAATTTCAAAATGATAGGTTTCC
Found at i:73636446 original size:17 final size:17
Alignment explanation
Indices: 73636424--73636456 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
73636414 ATAATAGGTG
73636424 TAGAATCAGATGCACTC
1 TAGAATCAGATGCACTC
73636441 TAGAATCAGATGCACT
1 TAGAATCAGATGCACT
73636457 ACCCTTTGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.24
Consensus pattern (17 bp):
TAGAATCAGATGCACTC
Done.