Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1
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: 8764944
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.31
Warning! 632878 characters in sequence are not A, C, G, or T
File 12 of 52
Found at i:1915076 original size:34 final size:35
Alignment explanation
Indices: 1915038--1915104 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1915028 CCTTACAACA
1915038 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
1915072 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
1915105 AATCACTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:1915580 original size:13 final size:13
Alignment explanation
Indices: 1915562--1915587 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1915552 CAATTTTTTG
1915562 TGTATCGATACAT
1 TGTATCGATACAT
1915575 TGTATCGATACAT
1 TGTATCGATACAT
1915588 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1915599 original size:32 final size:33
Alignment explanation
Indices: 1915542--1915605 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
1915532 TATAAGCCAA
**
1915542 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
1915575 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
1915606 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:1917911 original size:21 final size:21
Alignment explanation
Indices: 1917878--1917922 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1917868 TTGCAAGTTG
*
1917878 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
1917900 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
1917920 AAA
1 AAA
1917923 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:1919746 original size:15 final size:15
Alignment explanation
Indices: 1919726--1919756 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1919716 TAAAAATGTC
*
1919726 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1919741 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1919756 C
1 C
1919757 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:1922867 original size:20 final size:19
Alignment explanation
Indices: 1922821--1922877 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
1922811 TTGTATCGAT
* *
1922821 ACATTGTACCGATACATGT
1 ACATTGTATCGATACATGC
*
1922840 TCATTGTATCGATACATGC
1 ACATTGTATCGATACATGC
*
1922859 ACAATTGTATCAATACATG
1 AC-ATTGTATCGATACATG
1922878 AAACTGGTAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:1924586 original size:15 final size:15
Alignment explanation
Indices: 1924566--1924600 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
1924556 AACCATCAAA
1924566 GATGATGAAGATAAT
1 GATGATGAAGATAAT
*
1924581 GATGATGATGATAAT
1 GATGATGAAGATAAT
1924596 GATGA
1 GATGA
1924601 AGTTGACTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.29
Consensus pattern (15 bp):
GATGATGAAGATAAT
Found at i:1935131 original size:51 final size:52
Alignment explanation
Indices: 1935068--1935188 Score: 131
Period size: 51 Copynumber: 2.3 Consensus size: 52
1935058 GTGATAAAAG
* * * * *
1935068 TGCCAATATGCTGATTCAGGA-CGAATGATATTGGGCTT-AAGATGTA-AAGAA
1 TGCCAATGTGCTGATTCAGGATC-AACGACATTAGACTTGAAGATG-AGAAGAA
* * *
1935119 TGTCAATGTGCTGATTCATGATCAGCGACATTAGACTTGAAGATGAGAAGAA
1 TGCCAATGTGCTGATTCAGGATCAACGACATTAGACTTGAAGATGAGAAGAA
1935171 TGCCAATGTGCTGATTCA
1 TGCCAATGTGCTGATTCA
1935189 AGGCCAGCGA
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
51 29 0.50
52 29 0.50
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (52 bp):
TGCCAATGTGCTGATTCAGGATCAACGACATTAGACTTGAAGATGAGAAGAA
Found at i:1935276 original size:39 final size:39
Alignment explanation
Indices: 1935222--1935429 Score: 128
Period size: 39 Copynumber: 4.9 Consensus size: 39
1935212 AGACAAGGTG
*
1935222 CCAATATGCTGATTCAAGGCCAGCAATATTGGGCTTATA
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTATA
* * ** * *
1935261 CCAATGTGCTGATTCAAGGCTAGCGACGTTGGTCTTAAAGACAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT-------A--TA
* *
1935309 CCAATATGCTGATTCAAGGCCAGTGATATTGGGTTTATA
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTATA
* * * * *
1935348 CCAATGTGCTAATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT-------A--TA
1935396 CCAATATGCTGATTCAAGGCCAGCGATATTGGGC
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGGC
1935430 ATAGAAGAAG
Statistics
Matches: 125, Mismatches: 26, Indels: 27
0.70 0.15 0.15
Matches are distributed among these distances:
39 61 0.49
41 1 0.01
46 2 0.02
48 61 0.49
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (39 bp):
CCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTATA
Found at i:1935320 original size:87 final size:87
Alignment explanation
Indices: 1935173--1935429 Score: 442
Period size: 87 Copynumber: 2.9 Consensus size: 87
1935163 GAGAAGAATG
*
1935173 CCAATGTGCTGATTCAAGGCCAGCGACATTGGGTTTTAAAGACAAGGTGCCAATATGCTGATTCA
1 CCAATGTGCTGATTCAAGGCCAGCGACATT-GGTCTTAAAGACAAGGTGCCAATATGCTGATTCA
*
1935238 AGGCCAGCAATATTGGGCTTATA
65 AGGCCAGCGATATTGGGCTTATA
* *
1935261 CCAATGTGCTGATTCAAGGCTAGCGACGTTGGTCTTAAAGACAAGGTGCCAATATGCTGATTCAA
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTCAA
* *
1935326 GGCCAGTGATATTGGGTTTATA
66 GGCCAGCGATATTGGGCTTATA
*
1935348 CCAATGTGCTAATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTCAA
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTCAA
1935413 GGCCAGCGATATTGGGC
66 GGCCAGCGATATTGGGC
1935430 ATAGAAGAAG
Statistics
Matches: 158, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
87 130 0.82
88 28 0.18
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (87 bp):
CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTCAA
GGCCAGCGATATTGGGCTTATA
Found at i:1935722 original size:28 final size:28
Alignment explanation
Indices: 1935456--1935723 Score: 289
Period size: 28 Copynumber: 9.5 Consensus size: 28
1935446 CCAACTTGTA
*
1935456 TGGGCTTTTGAAAGGGTTG-CACAAACTTG
1 TGGGC-TTTGAAA-GGTTGCCACTAACTTG
1935485 TGGGCTTTG-AAGGTTGCCACTAACTTG
1 TGGGCTTTGAAAGGTTGCCACTAACTTG
1935512 TGGGCTTTG-AAGGTTGCCACTAACTTG
1 TGGGCTTTGAAAGGTTGCCACTAACTTG
* *
1935539 TGGGCATTGAAA-ATGTGCCACTAACTTG
1 TGGGCTTTGAAAGGT-TGCCACTAACTTG
* * * *
1935567 TGGGCTTTCGAAAAGATACCACTAACTTA
1 TGGGCTTT-GAAAGGTTGCCACTAACTTG
* * * *
1935596 TGGGCTTTTCAAAAGATGCCACTGACTTG
1 TGGGC-TTTGAAAGGTTGCCACTAACTTG
1935625 TGGGCTTTTG-AAGGTTGCCACTAACTTG
1 TGGGC-TTTGAAAGGTTGCCACTAACTTG
*
1935653 TGAGCTTTGAAAAGG-TGCCACTAACTTG
1 TGGGCTTTG-AAAGGTTGCCACTAACTTG
* *
1935681 TGGGCTTTTG-AAGGTTGCCACTGACTAG
1 TGGGC-TTTGAAAGGTTGCCACTAACTTG
1935709 TGGGCTTTGAAAGGT
1 TGGGCTTTGAAAGGT
1935724 GAGGAATGTC
Statistics
Matches: 208, Mismatches: 20, Indels: 23
0.83 0.08 0.09
Matches are distributed among these distances:
26 5 0.02
27 59 0.28
28 83 0.40
29 58 0.28
30 3 0.01
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.31
Consensus pattern (28 bp):
TGGGCTTTGAAAGGTTGCCACTAACTTG
Found at i:1936133 original size:36 final size:37
Alignment explanation
Indices: 1936081--1936164 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
1936071 AAAGATAAAG
1936081 CACAAATGCATCATGCAAAATG-AATGTTATGAATGT
1 CACAAATGCATCATGCAAAATGAAATGTTATGAATGT
*
1936117 CACAAATGCATTATGCAAAATGAAATGTTATGAATGT
1 CACAAATGCATCATGCAAAATGAAATGTTATGAATGT
1936154 CACAAATGCAT
1 CACAAATGCAT
1936165 GATTGTGGCA
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
36 21 0.46
37 25 0.54
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.27
Consensus pattern (37 bp):
CACAAATGCATCATGCAAAATGAAATGTTATGAATGT
Found at i:1944273 original size:13 final size:13
Alignment explanation
Indices: 1944255--1944280 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1944245 ATACAAAGAT
1944255 CAATGTATCGATA
1 CAATGTATCGATA
1944268 CAATGTATCGATA
1 CAATGTATCGATA
1944281 AATTTGAGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1948418 original size:19 final size:20
Alignment explanation
Indices: 1948379--1948418 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
1948369 ACAACACTTA
1948379 TGTATCGATACAATTATTGTT
1 TGTATCGATACAA-TATTGTT
1948400 TGTATCGATACAA-ATTGTT
1 TGTATCGATACAATATTGTT
1948419 GAAATTCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.32
21 13 0.68
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.45
Consensus pattern (20 bp):
TGTATCGATACAATATTGTT
Found at i:1949997 original size:52 final size:50
Alignment explanation
Indices: 1949933--1950101 Score: 180
Period size: 52 Copynumber: 3.3 Consensus size: 50
1949923 GAAATAACGA
* *
1949933 GGTTGGAGTATCCTC-AGTTGTGAAAAATTAATGTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGA-TTGTG-AAAATTAATG-TTTTGGAAATAAAACCGG
* *
1949985 GGTTGGAGTATCCCCGATTGAAGGAAAATTAGTGTTTT-GAAACTAAAACCGG
1 GGTTGGAGTATCCCCGATTG--TGAAAATTAATGTTTTGGAAA-TAAAACCGG
* * * * **
1950037 GGTTGGAGTATCCCCGATTGTGGAAATCAATATTTTGGAAATAAAGCTAG
1 GGTTGGAGTATCCCCGATTGTGAAAATTAATGTTTTGGAAATAAAACCGG
1950087 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
1950102 TCGGAGGTAA
Statistics
Matches: 100, Mismatches: 12, Indels: 12
0.81 0.10 0.10
Matches are distributed among these distances:
50 32 0.32
51 8 0.08
52 49 0.49
53 10 0.10
54 1 0.01
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.30
Consensus pattern (50 bp):
GGTTGGAGTATCCCCGATTGTGAAAATTAATGTTTTGGAAATAAAACCGG
Found at i:1950095 original size:50 final size:51
Alignment explanation
Indices: 1949967--1950101 Score: 150
Period size: 50 Copynumber: 2.6 Consensus size: 51
1949957 AAATTAATGT
* * * *
1949967 TTTTGGAAATAAAATCGGGGTTGGAGTATCCCCGATTGAAGGAAAATTAGTG
1 TTTTGGAAATAAACT-GGGGTTGGAGTATCCCCGATTGAAGGAAAATCAATA
* *
1950019 TTTT-GAAACTAAAACCGGGGTTGGAGTATCCCCGATTG-TGG-AAATCAATA
1 TTTTGGAAA-T-AAACTGGGGTTGGAGTATCCCCGATTGAAGGAAAATCAATA
*
1950069 TTTTGGAAATAAAGCTAGGGTTGGAGTATCCCC
1 TTTTGGAAATAAA-CTGGGGTTGGAGTATCCCC
1950102 TCGGAGGTAA
Statistics
Matches: 71, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
49 3 0.04
50 28 0.39
51 10 0.14
52 27 0.38
53 3 0.04
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (51 bp):
TTTTGGAAATAAACTGGGGTTGGAGTATCCCCGATTGAAGGAAAATCAATA
Found at i:1950189 original size:210 final size:210
Alignment explanation
Indices: 1949827--1950209 Score: 608
Period size: 210 Copynumber: 1.8 Consensus size: 210
1949817 AAAATAACGA
* *
1949827 GGTTGGAGTATCCCCAATTATGAGAAATAAATATTTTGTAAATAAAGCCGGGGTTGGAGTATCCC
1 GGTTGGAGTATCCCCAATTATGAGAAATAAATATTTTGGAAATAAAGCCAGGGTTGGAGTATCCC
* * *
1949892 CTCGGAGGTGACGGGTTAGAGTATCCTCGATGAAATAACGAGGTTGGAGTATCCTCAGTTGTGAA
66 CTCGGAGGTAACGGGTTAGAGTATCCTCGATGAAATAACGAGGTTGGACTATCCTCAGCTGTGAA
*
1949957 AAATTAATGTTTTTGGAAATAAAATCGGGGTTGGAGTATCCCCGATTGAAGGAAAATTAGTGTTT
131 AAATTAATGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTGAAGGAAAATTAGTGTTT
1950022 TGAAACTAAAACCGG
196 TGAAACTAAAACCGG
* * * *
1950037 GGTTGGAGTATCCCCGATTGTG-GAAATCAATATTTTGGAAATAAAGCTAGGGTTGGAGTATCCC
1 GGTTGGAGTATCCCCAATTATGAGAAATAAATATTTTGGAAATAAAGCCAGGGTTGGAGTATCCC
* *
1950101 CTCGGAGGTAACGGGGTTGGAGTATCC-CTGATGAAATAACGAGGTTGGACTATCCTCGGCTGTG
66 CTCGGAGGTAAC-GGGTTAGAGTATCCTC-GATGAAATAACGAGGTTGGACTATCCTCAGCTGTG
* *
1950165 AAAAATTGATGTTTTTGGAAATAAAATCGGAGTTGGAGTCTCCCC
129 AAAAATTAATGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
1950210 TCGGAGGTAA
Statistics
Matches: 157, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
209 50 0.32
210 107 0.68
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (210 bp):
GGTTGGAGTATCCCCAATTATGAGAAATAAATATTTTGGAAATAAAGCCAGGGTTGGAGTATCCC
CTCGGAGGTAACGGGTTAGAGTATCCTCGATGAAATAACGAGGTTGGACTATCCTCAGCTGTGAA
AAATTAATGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTGAAGGAAAATTAGTGTTT
TGAAACTAAAACCGG
Found at i:1950263 original size:108 final size:107
Alignment explanation
Indices: 1949817--1950317 Score: 463
Period size: 108 Copynumber: 4.7 Consensus size: 107
1949807 TATCCCCTCA
* * * * * * * ** *
1949817 AAAATAACGAGGTTGGAGTATCCCCAATTATGAGAAATAAAT-ATTTTGTAAATAAAGCCGGGGT
1 AAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAATTAATGTTTTTGGAAATAAAATCGGAGT
* * *
1949881 TGGAGTATCCCCTCGGAGGTGACGGGTTAGAGTATCCTCGAT
66 TGGAGTATCCCCTCGGAGGTAACGGGTTGGAGTATCCCCGAT
* *
1949923 GAAATAACGAGGTTGGAGTATCCTC-AGTTGTGAAAAATTAATGTTTTTGGAAATAAAATCGGGG
1 AAAATAACGAGGTTGGAGTATCCTCGA-TTGTGAAAAATTAATGTTTTTGGAAATAAAATCGGAG
* * ** * ***
1949987 TTGGAGTATCCCCGATTGAAGG-AA--AATT--AGTGT-TTTGA-
65 TTGGAGTATCCCC--TCGGAGGTAACGGGTTGGAGTATCCCCGAT
* * * * * * *
1950025 AACTAA-AACCGGGGTTGGAGTATCCCCGATTGTG-GAAATCAAT-ATTTTGGAAATAAAGCTAG
1 AA--AATAA-CGAGGTTGGAGTATCCTCGATTGTGAAAAATTAATGTTTTTGGAAATAAA-ATCG
*
1950087 G-GTTGGAGTATCCCCTCGGAGGTAACGGGGTTGGAGTATCCCTGAT
62 GAGTTGGAGTATCCCCTCGGAGGTAAC-GGGTTGGAGTATCCCCGAT
* * ** *
1950133 GAAATAACGAGGTTGGACTATCCTCGGCTGTGAAAAATTGATGTTTTTGGAAATAAAATCGGAGT
1 AAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAATTAATGTTTTTGGAAATAAAATCGGAGT
*
1950198 TGGAGTCTCCCCTCGGAGGTAACGGGGTTGGAGTATCCCCGAT
66 TGGAGTATCCCCTCGGAGGTAAC-GGGTTGGAGTATCCCCGAT
* **
1950241 AAAATAACAAGGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGGAGT
1 AAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAATTAATGTTTTTGGAAATAAAATCGGAGT
1950306 TGGAGTA-CCCCT
66 TGGAGTATCCCCT
1950318 GATTAAAGGA
Statistics
Matches: 321, Mismatches: 53, Indels: 41
0.77 0.13 0.10
Matches are distributed among these distances:
100 5 0.02
101 2 0.01
102 28 0.09
103 15 0.05
104 29 0.09
105 2 0.01
106 63 0.20
107 49 0.15
108 123 0.38
109 5 0.02
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (107 bp):
AAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAATTAATGTTTTTGGAAATAAAATCGGAGT
TGGAGTATCCCCTCGGAGGTAACGGGTTGGAGTATCCCCGAT
Found at i:1950341 original size:52 final size:53
Alignment explanation
Indices: 1950274--1950374 Score: 152
Period size: 52 Copynumber: 1.9 Consensus size: 53
1950264 TCGATTGTGA
* *
1950274 AAAATTGGTGTTTTTGGAAATAAAATC-GGAGTTGGAGTACCCCTGATTAAAGG
1 AAAATTGGTGTTTTTGAAAATAAAACCAGGA-TTGGAGTACCCCTGATTAAAGG
*
1950327 AAAATTGGTG-TTTTGAAAATAAAACCAGGATTGGAGTATCCCTGATTA
1 AAAATTGGTGTTTTTGAAAATAAAACCAGGATTGGAGTACCCCTGATTA
1950375 TGAACAATTG
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
52 31 0.70
53 13 0.30
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.31
Consensus pattern (53 bp):
AAAATTGGTGTTTTTGAAAATAAAACCAGGATTGGAGTACCCCTGATTAAAGG
Found at i:1952947 original size:21 final size:21
Alignment explanation
Indices: 1952921--1952993 Score: 103
Period size: 21 Copynumber: 3.5 Consensus size: 21
1952911 GTTGGGACCT
* *
1952921 TGTATCGATACATTTGTA-GAA
1 TGTATCGATACA-TTCTACAAA
*
1952942 TGTATCGATACATTCCACAAA
1 TGTATCGATACATTCTACAAA
1952963 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
1952984 TGTATCGATA
1 TGTATCGATA
1952994 GATTTGGATA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
20 3 0.06
21 44 0.94
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (21 bp):
TGTATCGATACATTCTACAAA
Found at i:1957013 original size:3 final size:3
Alignment explanation
Indices: 1957005--1957038 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
1956995 TCTGAGTCAA
* *
1957005 CAT CAT CAT CAT CAT CAC CAT CAT CTT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
1957039 TTTAATTGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.29, C:0.38, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:1958730 original size:20 final size:20
Alignment explanation
Indices: 1958705--1958762 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
1958695 TACTGCCAGT
1958705 TTCATGTATCGATACATTGG
1 TTCATGTATCGATACATTGG
* *
1958725 TTCATGTATCGATATAAT-G
1 TTCATGTATCGATACATTGG
**
1958744 AACATGTATCGATACATTG
1 TTCATGTATCGATACATTG
1958763 TATCGATACA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (20 bp):
TTCATGTATCGATACATTGG
Found at i:1958766 original size:13 final size:13
Alignment explanation
Indices: 1958748--1958772 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1958738 ATAATGAACA
1958748 TGTATCGATACAT
1 TGTATCGATACAT
1958761 TGTATCGATACA
1 TGTATCGATACA
1958773 AAGCATAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1973104 original size:44 final size:44
Alignment explanation
Indices: 1973051--1973162 Score: 161
Period size: 44 Copynumber: 2.5 Consensus size: 44
1973041 GAGGGTTAAG
* * *
1973051 TAAGGTGGCTGGTAATGAATGCTTGACAGGGCTTAGGAGCAGAA
1 TAAGGTGGCTAGAAATGAATGCTTGACAAGGCTTAGGAGCAGAA
* * *
1973095 TAGGGTGGCTAGAAATGAATGCTTGCCAAGGCTTAGGAGCATAA
1 TAAGGTGGCTAGAAATGAATGCTTGACAAGGCTTAGGAGCAGAA
*
1973139 TAAGGTGGCTAGAAATGAGTGCTT
1 TAAGGTGGCTAGAAATGAATGCTT
1973163 AGTAGCCAAG
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 60 1.00
ACGTcount: A:0.30, C:0.12, G:0.34, T:0.24
Consensus pattern (44 bp):
TAAGGTGGCTAGAAATGAATGCTTGACAAGGCTTAGGAGCAGAA
Found at i:1978410 original size:71 final size:71
Alignment explanation
Indices: 1978289--1978444 Score: 249
Period size: 71 Copynumber: 2.2 Consensus size: 71
1978279 AAAATAATCC
* *
1978289 AAAGTATCGATACATAGGTATTTGTATCAATACATTAAGGTTGACCTAGGCTATAATGGTCAAAA
1 AAAGTATCGATACATAGGTATTTGTATCAATACATTAAGGTTGACCTAGGCTACAAAGGTCAAAA
*
1978354 CCTTAG
66 CCCTAG
* ** *
1978360 AAAGTATCGATATATAGGTATTTGTATTGATACATTAAGGTTGACTTAGGCTACAAAGGTCAAAA
1 AAAGTATCGATACATAGGTATTTGTATCAATACATTAAGGTTGACCTAGGCTACAAAGGTCAAAA
1978425 CCCTAG
66 CCCTAG
1978431 AAAGTATCGATACA
1 AAAGTATCGATACA
1978445 CATCTAGGTA
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
71 77 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (71 bp):
AAAGTATCGATACATAGGTATTTGTATCAATACATTAAGGTTGACCTAGGCTACAAAGGTCAAAA
CCCTAG
Found at i:1978463 original size:71 final size:71
Alignment explanation
Indices: 1978318--1978467 Score: 183
Period size: 71 Copynumber: 2.1 Consensus size: 71
1978308 ATTTGTATCA
* * * * * * **
1978318 ATACATTAAGGTTGACCTAGGCTATAATGGTCAAAACCTTAGAAAGTATCGATATATAGGTATTT
1 ATACATTAAGGTTGACCTAGGCTACAAAGGTCAAAACCCTAGAAAGTATCGATACACAGCTAGGT
* **
1978383 GTATTG
66 ATACCG
* *
1978389 ATACATTAAGGTTGACTTAGGCTACAAAGGTCAAAACCCTAGAAAGTATCGATACACATCTAGGT
1 ATACATTAAGGTTGACCTAGGCTACAAAGGTCAAAACCCTAGAAAGTATCGATACACAGCTAGGT
1978454 ATACCG
66 ATACCG
1978460 ATACATTA
1 ATACATTA
1978468 TACTTTGTAT
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
71 66 1.00
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.29
Consensus pattern (71 bp):
ATACATTAAGGTTGACCTAGGCTACAAAGGTCAAAACCCTAGAAAGTATCGATACACAGCTAGGT
ATACCG
Found at i:1978483 original size:13 final size:13
Alignment explanation
Indices: 1978467--1978498 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
1978457 CCGATACATT
*
1978467 ATACTTTGTATCG
1 ATACATTGTATCG
1978480 ATACATTGTATCG
1 ATACATTGTATCG
1978493 ATACAT
1 ATACAT
1978499 ACTCATTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (13 bp):
ATACATTGTATCG
Found at i:1979277 original size:166 final size:161
Alignment explanation
Indices: 1979104--1979712 Score: 582
Period size: 166 Copynumber: 3.7 Consensus size: 161
1979094 TGAAATAACT
* * **
1979104 TGAATTTTCTGAAACTGATTTAATATGAATTTAATGAAAATATTAGATGAATTCTAAAAAATTTT
1 TGAATTTT-TGAAACTGATTTAATATGAATTTAAT-AAAATATTTGATGAATT-TTAAAAATTAA
* * *
1979169 AAATCGA-GAAAAATCC-CCTCGAAAAATTTTACTG-AGAAGAAAACTCAGTTTTTCTAAAAAGG
63 AAACCAACG-AAAATCCTCC-CGAAAAAATTTAC-GAAGAAGAAAACTC-GTTTTTC-AAAAAGG
*
1979231 GAAATTTCAAGGAAAAATTCAAAAATCCATGAAAAGGAA
123 GAAGTTTCAAGGAAAAATTCAAAAATCCATGAAAAGGAA
* * * *
1979270 TGAATTTTTAAAAACGGATTTAATATGAATTAAAAAATAATATTTGATGAATTTTAAAAATTAAA
1 TGAATTTTT-GAAACTGATTTAATATGAATTTAATAA-AATATTTGATGAATTTTAAAAATTAAA
* * **
1979335 AACCAACGAAAATCCTCCCAAAAAAATTTACGAAGAAGAAAACTTCGTATTTCAGAAAAATGAGA
64 AACCAACGAAAATCCTCCCGAAAAAATTTACGAAGAAGAAAAC-TCGTTTTTCA-AAAAGGGA-A
*
1979400 GTTTCAAGGAAAAATTCAAAAATCCATAAAAATGG-A
126 GTTTCAAGGAAAAATTCAAAAATCCATGAAAA-GGAA
* * * * * *
1979436 TGAATTTTTGAAAACTAATTTACTATGAATTAAATACTAATATTTGATTAATTTTAAAAATTGAA
1 TGAATTTTTG-AAACTGATTTAATATGAATTTAATA-AAATATTTGATGAATTTTAAAAATTAAA
* *
1979501 AACCAATGAAAATCCTCCCGAAAAAATTTACGAAGAAGAAAACTCCGTATTTTAGAAAAAATGGG
64 AACCAACGAAAATCCTCCCGAAAAAATTTACGAAGAAGAAAACT-CGT-TTTT--CAAAAA-GGG
*
1979566 -AGTTTCAAGGAAAAAATTCAAAAATCCATGAAAATGAA
124 AAGTTTCAAGG-AAAAATTCAAAAATCCATGAAAAGGAA
**** * * * * * *
1979604 TGAAGTTGCAAAAACCGATTTAATATAAAATAAATAATAATATTTAAT-ATATTTTAAAAATGAA
1 TGAA-TTTTTGAAACTGATTTAATATGAATTTAATAA-AATATTTGATGA-ATTTTAAAAATTAA
* * * * *
1979668 AAACTAATGAAAATTCTCCCAAAAAAATTTACGGAGAAGAAAACT
63 AAACCAACGAAAATCCTCCCGAAAAAATTTACGAAGAAGAAAACT
1979713 TTATATTTGA
Statistics
Matches: 372, Mismatches: 50, Indels: 40
0.81 0.11 0.09
Matches are distributed among these distances:
164 2 0.01
165 57 0.15
166 179 0.48
167 17 0.05
168 113 0.30
169 4 0.01
ACGTcount: A:0.50, C:0.10, G:0.12, T:0.29
Consensus pattern (161 bp):
TGAATTTTTGAAACTGATTTAATATGAATTTAATAAAATATTTGATGAATTTTAAAAATTAAAAA
CCAACGAAAATCCTCCCGAAAAAATTTACGAAGAAGAAAACTCGTTTTTCAAAAAGGGAAGTTTC
AAGGAAAAATTCAAAAATCCATGAAAAGGAA
Found at i:1979728 original size:168 final size:167
Alignment explanation
Indices: 1979235--1979729 Score: 674
Period size: 166 Copynumber: 3.0 Consensus size: 167
1979225 AAAAGGGAAA
* *
1979235 TTTCAAGGAAAAATTCAAAAATCCATGAAAAGGAATGAATTTTTAAAAACGGATTTAATATGAAT
1 TTTCAAGGAAAAATTCAAAAATCCATGAAAATGAATGAATTTTTAAAAACCGATTTAATATGAAT
* * *
1979300 TAAAAAATAATATTTGATGA-ATTTTAAAAATTAAAAACCAACGAAAATCCTCCCAAAAAAATTT
66 TAAATAATAATATTTGAT-ATATTTTAAAAATGAAAAACCAATGAAAATCCTCCCAAAAAAATTT
1979364 ACGAAGAAGAAAACTTCGTATTTCAG-AAAAATGAGAG
130 ACGAAGAAGAAAACTTCGTATTTCAGAAAAAATGAGAG
* * * ** *
1979401 TTTCAAGGAAAAATTCAAAAATCCATAAAAATGGATGAATTTTTGAAAACTAATTTACTATGAAT
1 TTTCAAGGAAAAATTCAAAAATCCATGAAAATGAATGAATTTTTAAAAACCGATTTAATATGAAT
* *
1979466 TAAATACTAATATTTGAT-TAATTTTAAAAATTG-AAAACCAATGAAAATCCTCCCGAAAAAATT
66 TAAATAATAATATTTGATAT-ATTTTAAAAA-TGAAAAACCAATGAAAATCCTCCCAAAAAAATT
* * *
1979529 TACGAAGAAGAAAACTCCGTATTTTAGAAAAAATGGGAG
129 TACGAAGAAGAAAACTTCGTATTTCAGAAAAAATGAGAG
* ** *
1979568 TTTCAAGGAAAAAATTCAAAAATCCATGAAAATGAATGAAGTTGCAAAAACCGATTTAATATAAA
1 TTTCAAGG-AAAAATTCAAAAATCCATGAAAATGAATGAATTTTTAAAAACCGATTTAATATGAA
* * * *
1979633 ATAAATAATAATATTTAATATATTTTAAAAATGAAAAACTAATGAAAATTCTCCCAAAAAAATTT
65 TTAAATAATAATATTTGATATATTTTAAAAATGAAAAACCAATGAAAATCCTCCCAAAAAAATTT
* ** *
1979698 ACGGAGAAGAAAACTTTATATTTGAGAAAAAA
130 ACGAAGAAGAAAACTTCGTATTTCAGAAAAAA
1979730 AAGGAATTCT
Statistics
Matches: 286, Mismatches: 36, Indels: 12
0.86 0.11 0.04
Matches are distributed among these distances:
166 137 0.48
167 21 0.07
168 127 0.44
169 1 0.00
ACGTcount: A:0.51, C:0.10, G:0.11, T:0.28
Consensus pattern (167 bp):
TTTCAAGGAAAAATTCAAAAATCCATGAAAATGAATGAATTTTTAAAAACCGATTTAATATGAAT
TAAATAATAATATTTGATATATTTTAAAAATGAAAAACCAATGAAAATCCTCCCAAAAAAATTTA
CGAAGAAGAAAACTTCGTATTTCAGAAAAAATGAGAG
Found at i:1979876 original size:334 final size:333
Alignment explanation
Indices: 1979188--1979825 Score: 729
Period size: 334 Copynumber: 1.9 Consensus size: 333
1979178 AAAATCCCCT
* * ** *
1979188 CGAAAAATTTTACTG-AGAAGAAAACTCAGT-TTTT-CTAAAAA-GGGAAATTTCAAGGAAAAAT
1 CGAAAAAATTTAC-GAAGAAGAAAACTCCGTATTTTAGAAAAAATGGG-AGTTTCAAGGAAAAAT
* ** * * *
1979249 TCAAAAATCCATGAAAAGGAATGAATTTTTAAAAACGGATTTAATATGAATTAAAAAATAATATT
64 TCAAAAATCCATGAAAAGGAATGAAGTTGCAAAAACCGATTTAATATAAAATAAAAAATAATATT
* *
1979314 TGATGAATTTTAAAAATTAAAAACCAACGAAAATCCTCCCAAAAAAATTTACGAAGAAGAAAACT
129 TAATGAATTTTAAAAATGAAAAACCAACGAAAATCCTCCCAAAAAAATTTACGAAGAAGAAAACT
* ** * * * * ** *
1979379 TCGTATTTCAGAAAAATGAGAGTTTCAAGGAAAAATTCAAAAATCCATAAAAATGGATGAATTTT
194 TCATATTTCAGAAAAAAAAGAATTTAAAAGAAAAATTCAAAAATCCAAAAAAATAAAGGAATTTT
* * * * **
1979444 TGAAAACTAATTTACTATGAATTAAATACTAATATTTGATTAATTTTAAAAATTGAAAACCAATG
259 TCAAAACTAATTTACTAGGAATTAAATACTAAAATTTAAAGAATTTTAAAAATTGAAAACCAATG
*
1979509 AAAATCCTCC
324 AAAATCCTAC
1979519 CGAAAAAATTTACGAAGAAGAAAACTCCGTATTTTAGAAAAAATGGGAGTTTCAAGGAAAAAATT
1 CGAAAAAATTTACGAAGAAGAAAACTCCGTATTTTAGAAAAAATGGGAGTTTCAAGG-AAAAATT
* *
1979584 CAAAAATCCATGAAAATGAATGAAGTTGCAAAAACCGATTTAATATAAAATAAATAATAATATTT
65 CAAAAATCCATGAAAAGGAATGAAGTTGCAAAAACCGATTTAATATAAAATAAAAAATAATATTT
* * * *
1979649 AAT-ATATTTTAAAAATGAAAAACTAATGAAAATTCTCCCAAAAAAATTTACGGAGAAGAAAACT
130 AATGA-ATTTTAAAAATGAAAAACCAACGAAAATCCTCCCAAAAAAATTTACGAAGAAGAAAACT
* * *
1979713 TTATATTTGAGAAAAAAAAGGAATTCTAAAAG-AAAA-TCAATAA-CTCAAAAAAATAAAAGGAA
194 TCATATTTCAGAAAAAAAA-GAATT-TAAAAGAAAAATTCAAAAATC-CAAAAAAAT-AAAGGAA
* * **
1979775 TTTTTCAAAACTGATTTGA-TGGGTGTTAAATGA-TAAAATTTAAAGAATTTT
255 TTTTTCAAAACTAATTT-ACTAGGAATTAAAT-ACTAAAATTTAAAGAATTTT
1979826 TATGTTTAAA
Statistics
Matches: 253, Mismatches: 42, Indels: 20
0.80 0.13 0.06
Matches are distributed among these distances:
330 1 0.00
331 26 0.10
332 4 0.02
333 16 0.06
334 151 0.60
335 49 0.19
336 6 0.02
ACGTcount: A:0.50, C:0.09, G:0.12, T:0.28
Consensus pattern (333 bp):
CGAAAAAATTTACGAAGAAGAAAACTCCGTATTTTAGAAAAAATGGGAGTTTCAAGGAAAAATTC
AAAAATCCATGAAAAGGAATGAAGTTGCAAAAACCGATTTAATATAAAATAAAAAATAATATTTA
ATGAATTTTAAAAATGAAAAACCAACGAAAATCCTCCCAAAAAAATTTACGAAGAAGAAAACTTC
ATATTTCAGAAAAAAAAGAATTTAAAAGAAAAATTCAAAAATCCAAAAAAATAAAGGAATTTTTC
AAAACTAATTTACTAGGAATTAAATACTAAAATTTAAAGAATTTTAAAAATTGAAAACCAATGAA
AATCCTAC
Found at i:1984259 original size:17 final size:17
Alignment explanation
Indices: 1984164--1984315 Score: 77
Period size: 16 Copynumber: 8.9 Consensus size: 17
1984154 TAATATAATA
*
1984164 ATAAAAAATTAAAAATC
1 ATAAAAAAATAAAAATC
*
1984181 ACAAAAAAATCAATAAATC
1 ATAAAAAAAT-AA-AAATC
** *
1984200 AATTAAAAATTTCAAAAA-A
1 -A-TAAAAAAAT-AAAAATC
**
1984219 ATAAAAAAACCAAAAT-
1 ATAAAAAAATAAAAATC
**
1984235 ATTGAAAAATAAAAATC
1 ATAAAAAAATAAAAATC
1984252 ATAAAAAAATAAAAA--
1 ATAAAAAAATAAAAATC
*
1984267 ATTAAAGAAATCAAAGAA--
1 A-TAAAAAAAT-AAA-AATC
1984285 AT-AAAAAAT-AAAATC
1 ATAAAAAAATAAAAATC
*
1984300 ATCAAAAAATAAAAAT
1 ATAAAAAAATAAAAAT
1984316 TAGAAATCAT
Statistics
Matches: 104, Mismatches: 18, Indels: 26
0.70 0.12 0.18
Matches are distributed among these distances:
13 2 0.02
14 2 0.02
15 3 0.03
16 37 0.36
17 36 0.35
18 6 0.06
19 5 0.05
20 4 0.04
21 9 0.09
ACGTcount: A:0.72, C:0.07, G:0.02, T:0.19
Consensus pattern (17 bp):
ATAAAAAAATAAAAATC
Found at i:1984266 original size:24 final size:24
Alignment explanation
Indices: 1984239--1984339 Score: 91
Period size: 25 Copynumber: 4.1 Consensus size: 24
1984229 CAAAATATTG
1984239 AAAAATAAAAATCATAAAAAAATA
1 AAAAATAAAAATCATAAAAAAATA
*
1984263 AAAAATTAAAGAA--ATCAAAGAAATA
1 AAAAA-TAAA-AATCAT-AAAAAAATA
*
1984288 AAAAAT-AAAATCATCAAAAAATA
1 AAAAATAAAAATCATAAAAAAATA
* * *
1984311 AAAATTAGAAATCATTAAAAGTAATA
1 AAAAATAAAAATCA-TAAAA-AAATA
1984337 AAA
1 AAA
1984340 TCAAAAAGAA
Statistics
Matches: 62, Mismatches: 7, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
22 2 0.03
23 14 0.23
24 16 0.26
25 21 0.34
26 9 0.15
ACGTcount: A:0.72, C:0.05, G:0.04, T:0.19
Consensus pattern (24 bp):
AAAAATAAAAATCATAAAAAAATA
Found at i:1984266 original size:48 final size:48
Alignment explanation
Indices: 1984213--1984314 Score: 125
Period size: 49 Copynumber: 2.1 Consensus size: 48
1984203 TAAAAATTTC
* * *
1984213 AAAAAAATAAAAAAACCAAA-ATATTGAAAAATAAAAATCATAAAAAAAT
1 AAAAAATTAAAAAAACCAAAGA-AATAAAAAAT-AAAATCATAAAAAAAT
* * *
1984262 AAAAAATTAAAGAAATCAAAGAAATAAAAAATAAAATCATCAAAAAAT
1 AAAAAATTAAAAAAACCAAAGAAATAAAAAATAAAATCATAAAAAAAT
1984310 AAAAA
1 AAAAA
1984315 TTAGAAATCA
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
48 20 0.43
49 25 0.54
50 1 0.02
ACGTcount: A:0.75, C:0.06, G:0.03, T:0.16
Consensus pattern (48 bp):
AAAAAATTAAAAAAACCAAAGAAATAAAAAATAAAATCATAAAAAAAT
Found at i:1984300 original size:21 final size:23
Alignment explanation
Indices: 1984239--1984324 Score: 77
Period size: 23 Copynumber: 3.6 Consensus size: 23
1984229 CAAAATATTG
* *
1984239 AAAAATAAAAATCATAAAAAAATA
1 AAAAATAGAAATCA-CAAAAAATA
*
1984263 AAAAATTAAAGAAATCA-AAGAAATA
1 AAAAA-T--AGAAATCACAAAAAATA
1984288 AAAAATA-AAATCATCAAAAAATA
1 AAAAATAGAAATCA-CAAAAAATA
*
1984311 AAAATTAGAAATCA
1 AAAAATAGAAATCA
1984325 TTAAAAGTAA
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
21 6 0.12
22 1 0.02
23 13 0.25
24 12 0.23
25 13 0.25
27 7 0.13
ACGTcount: A:0.73, C:0.06, G:0.03, T:0.17
Consensus pattern (23 bp):
AAAAATAGAAATCACAAAAAATA
Found at i:1985312 original size:143 final size:143
Alignment explanation
Indices: 1985044--1985403 Score: 361
Period size: 143 Copynumber: 2.5 Consensus size: 143
1985034 GAACATTGGT
* * * * * *
1985044 AGCAGC-TCCAGCAGCGACAGCATCC---ACAAGCAGCTCCAACAGCTTCCACGAACATTGGCAG
1 AGCAGCTTCCAGCAGCGACAGCACCCAAAACCAGCAGATCCAGCAGCTTCCACGAACACTGACAG
* ** * * ** * *
1985105 CAGCTCTAGTAGCTTCCAACAGCGACAGCACCCGAAACCAGTAGCTCCAATAGCTTCCATGAACA
66 CAGCTCCAACAGCTTCCAACA-CCACAGCACCCAAAACCAACAGCTCCAACAGCTTCCACGAACA
*
1985170 CTGGCAACAACTCC
130 CCGGCAACAACTCC
* * * *
1985184 AGCAGTTTCCAGCAGTGACAGCACCCAAAACTAGTAGATCCAGCAGCTTCCACGAACACTGACAG
1 AGCAGCTTCCAGCAGCGACAGCACCCAAAACCAGCAGATCCAGCAGCTTCCACGAACACTGACAG
* *
1985249 CAGCTCCAACAGCTTCCAGC-CCACGAGCACTCAAAACCAACAGCTCCAACAGCTTCCACGAACA
66 CAGCTCCAACAGCTTCCAACACCAC-AGCACCCAAAACCAACAGCTCCAACAGCTTCCACGAACA
** * *
1985313 CCGGCAGTAGCTCT
130 CCGGCAACAACTCC
** ** * *
1985327 ATTAGCTTCCAGCAGCGACAGCACCTGAAACCAGCAGCTCCAGCAGCTTCCACGAACACCGACAG
1 AGCAGCTTCCAGCAGCGACAGCACCCAAAACCAGCAGATCCAGCAGCTTCCACGAACACTGACAG
*
1985392 TAGCTTCCAACA
66 CAGC-TCCAACA
1985404 ACGGCATCAT
Statistics
Matches: 178, Mismatches: 36, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
140 5 0.03
141 17 0.10
142 3 0.02
143 100 0.56
144 53 0.30
ACGTcount: A:0.32, C:0.36, G:0.18, T:0.14
Consensus pattern (143 bp):
AGCAGCTTCCAGCAGCGACAGCACCCAAAACCAGCAGATCCAGCAGCTTCCACGAACACTGACAG
CAGCTCCAACAGCTTCCAACACCACAGCACCCAAAACCAACAGCTCCAACAGCTTCCACGAACAC
CGGCAACAACTCC
Found at i:1985396 original size:72 final size:72
Alignment explanation
Indices: 1985044--1985385 Score: 354
Period size: 72 Copynumber: 4.8 Consensus size: 72
1985034 GAACATTGGT
* * *
1985044 AGCAGC-TCCAGCAGCGACAGCATCC---ACAAGCAGCTCCAACAGCTTCCACGAACATTGGCAG
1 AGCAGCTTCCAGCAGCGACAGCACCCAAAACCAGCAGCTCCAACAGCTTCCACGAACACTGGCAG
*
1985105 CAGCTCT
66 CAGCTCC
* * * * * * *
1985112 AGTAGCTTCCAACAGCGACAGCACCCGAAACCAGTAGCTCCAATAGCTTCCATGAACACTGGCAA
1 AGCAGCTTCCAGCAGCGACAGCACCCAAAACCAGCAGCTCCAACAGCTTCCACGAACACTGGCAG
*
1985177 CAACTCC
66 CAGCTCC
* * * * * * *
1985184 AGCAGTTTCCAGCAGTGACAGCACCCAAAACTAGTAGATCCAGCAGCTTCCACGAACACTGACAG
1 AGCAGCTTCCAGCAGCGACAGCACCCAAAACCAGCAGCTCCAACAGCTTCCACGAACACTGGCAG
1985249 CAGCTCC
66 CAGCTCC
* * * * *
1985256 AACAGCTTCCAGC--CCACGAGCACTCAAAACCAACAGCTCCAACAGCTTCCACGAACACCGGCA
1 AGCAGCTTCCAGCAGCGAC-AGCACCCAAAACCAGCAGCTCCAACAGCTTCCACGAACACTGGCA
* *
1985319 GTAGCTCT
65 GCAGCTCC
** ** *
1985327 ATTAGCTTCCAGCAGCGACAGCACCTGAAACCAGCAGCTCCAGCAGCTTCCACGAACAC
1 AGCAGCTTCCAGCAGCGACAGCACCCAAAACCAGCAGCTCCAACAGCTTCCACGAACAC
1985386 CGACAGTAGC
Statistics
Matches: 221, Mismatches: 46, Indels: 10
0.80 0.17 0.04
Matches are distributed among these distances:
68 5 0.02
69 17 0.08
70 2 0.01
71 54 0.24
72 140 0.63
73 3 0.01
ACGTcount: A:0.32, C:0.36, G:0.18, T:0.14
Consensus pattern (72 bp):
AGCAGCTTCCAGCAGCGACAGCACCCAAAACCAGCAGCTCCAACAGCTTCCACGAACACTGGCAG
CAGCTCC
Found at i:1987675 original size:52 final size:52
Alignment explanation
Indices: 1987597--1987725 Score: 204
Period size: 52 Copynumber: 2.5 Consensus size: 52
1987587 CGAAATATGA
*
1987597 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCAATACATTTCATAGTGTATCGATACATCTGGGC
* *
1987649 AAATTTGCCTGTATGTATCAATACATTTCATAGTGTATCGATACATCTGGGT
1 AAATTTGCCTGCATGTATCAATACATTTCATAGTGTATCGATACATCTGGGC
* * *
1987701 AAATTTTCCTACATCTATCAATACA
1 AAATTTGCCTGCATGTATCAATACA
1987726 AAGATCAGTG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCAATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:1987736 original size:52 final size:52
Alignment explanation
Indices: 1987597--1987745 Score: 165
Period size: 52 Copynumber: 2.9 Consensus size: 52
1987587 CGAAATATGA
* * * **
1987597 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTACATCTATCAATACATAACATAGTGTATCGATACATCTGGGC
** * ** *
1987649 AAATTTGCCTGTATGTATCAATACATTTCATAGTGTATCGATACATCTGGGT
1 AAATTTGCCTACATCTATCAATACATAACATAGTGTATCGATACATCTGGGC
* *
1987701 AAATTTTCCTACATCTATCAATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTACATCTATCAATACATAACAT-AGTGTATCGATACA
1987746 ATGTATCGAT
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
51 2 0.02
52 84 0.98
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTACATCTATCAATACATAACATAGTGTATCGATACATCTGGGC
Found at i:1987752 original size:13 final size:13
Alignment explanation
Indices: 1987734--1987758 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1987724 CAAAGATCAG
1987734 TGTATCGATACAA
1 TGTATCGATACAA
1987747 TGTATCGATACA
1 TGTATCGATACA
1987759 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1987821 original size:13 final size:13
Alignment explanation
Indices: 1987803--1987886 Score: 60
Period size: 13 Copynumber: 5.5 Consensus size: 13
1987793 AGCTTCGTAA
1987803 CGATACATTGTAT
1 CGATACATTGTAT
1987816 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
1987835 CGATACATTGTAT
1 CGATACATTGTAT
1987848 CGATACAACACTTATGTAT
1 CGAT---ACA--T-TGTAT
1987867 CGATACATTGTAT
1 CGATACATTGTAT
1987880 CGATACA
1 CGATACA
1987887 AATCGTTGAA
Statistics
Matches: 59, Mismatches: 0, Indels: 24
0.71 0.00 0.29
Matches are distributed among these distances:
13 26 0.44
14 1 0.02
15 2 0.03
16 8 0.14
17 2 0.03
18 1 0.02
19 19 0.32
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:1987835 original size:19 final size:18
Alignment explanation
Indices: 1987811--1987873 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
1987801 AACGATACAT
1987811 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
1987830 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
1987843 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
1987862 TGTATCGATACA
1 TGTATCGATACA
1987874 TTGTATCGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
16 2 0.05
18 1 0.03
19 23 0.61
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:1987844 original size:32 final size:32
Alignment explanation
Indices: 1987803--1987888 Score: 163
Period size: 32 Copynumber: 2.7 Consensus size: 32
1987793 AGCTTCGTAA
1987803 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
1987835 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
1987867 CGATACATTGTATCGATACAAA
1 CGATACATTGTATCGATACAAA
1987889 TCGTTGAAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 52 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:1991503 original size:13 final size:13
Alignment explanation
Indices: 1991485--1991510 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1991475 CAATTTTTTG
1991485 TGTATCGATACAT
1 TGTATCGATACAT
1991498 TGTATCGATACAT
1 TGTATCGATACAT
1991511 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1991522 original size:32 final size:33
Alignment explanation
Indices: 1991465--1991528 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
1991455 TACAAGCCAA
**
1991465 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
1991498 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
1991529 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:1992832 original size:23 final size:23
Alignment explanation
Indices: 1992805--1992853 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
1992795 AAAAGAAGAA
1992805 GTTAAAAAGCAGCTTGACACTGG
1 GTTAAAAAGCAGCTTGACACTGG
**
1992828 GTTAAAAAGCAGCTTGATGCTGG
1 GTTAAAAAGCAGCTTGACACTGG
1992851 GTT
1 GTT
1992854 CCTTGATGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.27
Consensus pattern (23 bp):
GTTAAAAAGCAGCTTGACACTGG
Found at i:1996670 original size:42 final size:42
Alignment explanation
Indices: 1996534--1997349 Score: 489
Period size: 42 Copynumber: 19.4 Consensus size: 42
1996524 CCTTACTCTA
* *
1996534 CCTGTCGGCTTTGACCCTAGAG-TTTGCCTCATCTAAAGTCTG
1 CCTGTCGGCTTTGACCCTGGAGACTT-CCTCATCTAAAGTCTG
* * * * * * * *
1996576 CTTGTTGGCTTTGACCTTAGTGACTT-TTCACCCTTAA-TCTG
1 CCTGTCGGCTTTGACCCTGGAGACTTCCTCA-TCTAAAGTCTG
* * *
1996617 TCTGTCGGCTTTGACCCTGGAGACTGCCTCATCTAAAGTCTT
1 CCTGTCGGCTTTGACCCTGGAGACTTCCTCATCTAAAGTCTG
* * * * * *
1996659 CCTGTCAGCTTTGA-CCTAAGAGACTTTCTTACCCT-CAGTCTG
1 CCTGTCGGCTTTGACCCT-GGAGACTTCCTCA-TCTAAAGTCTG
* * * *
1996701 CCTATCGGCTTTGACCTTGGAGAGTACCTCAT-TCAAAGTCTG
1 CCTGTCGGCTTTGACCCTGGAGACTTCCTCATCT-AAAGTCTG
* * * **
1996743 CTTGTTGGCTTTGACCCTGGAGACTTTCCT-ACCCTTCAGTCTG
1 CCTGTCGGCTTTGACCCTGGAGAC-TTCCTCA-TCTAAAGTCTG
* * * * * * *
1996786 CCTATCAGCTTTGACTCTGGAAACTACCCCGTCTAAAGTCTG
1 CCTGTCGGCTTTGACCCTGGAGACTTCCTCATCTAAAGTCTG
* * * *
1996828 CCTGTCGGCTTTAACCCTGGAGACTTTCCT-ACCCTCAA-TCTA
1 CCTGTCGGCTTTGACCCTGGAGAC-TTCCTCA-TCTAAAGTCTG
* * * * * * * *
1996870 TCTATTGGCTTTGACCTTGGAGACTACCCCATCTAAAATTTG
1 CCTGTCGGCTTTGACCCTGGAGACTTCCTCATCTAAAGTCTG
* * *
1996912 CCTGTCGGCTTTGAGCATGGAGACTGCCTCATCTATAA-TCTG
1 CCTGTCGGCTTTGACCCTGGAGACTTCCTCATCTA-AAGTCTG
* * * * * *
1996954 CCTATCAGCTTTGACCTTGGAGGCTTTCCT-ACCCT-TAGTCTG
1 CCTGTCGGCTTTGACCCTGGAGAC-TTCCTCA-TCTAAAGTCTG
* * * *
1996996 CCTGTCGACTTTGACCCTGGAGACTGCCTCATCTGAAGTTTG
1 CCTGTCGGCTTTGACCCTGGAGACTTCCTCATCTAAAGTCTG
* * * * * * * *
1997038 CTTGTCAGCTTTGACCCTAGAGACTTTCTTACCCT-CAGTTTG
1 CCTGTCGGCTTTGACCCTGGAGACTTCCTCA-TCTAAAGTCTG
* * * *
1997080 CCTGTCGGCTTTGACCTTGGAGGCTGCCTCATCTAAAGTTTG
1 CCTGTCGGCTTTGACCCTGGAGACTTCCTCATCTAAAGTCTG
* * *
1997122 CCTGTCGACTTTGACCCTGGAGACTTTCCT-ACCCT-CAGTCTG
1 CCTGTCGGCTTTGACCCTGGAGAC-TTCCTCA-TCTAAAGTCTG
* * * * *
1997164 CTTGTCGACTTTGACCTTGGAAACTGCCTCATCTAAAGTCTG
1 CCTGTCGGCTTTGACCCTGGAGACTTCCTCATCTAAAGTCTG
* * ** * *
1997206 CCTATCGACTTTGACCCTAAAGACTTTTTCC-CTTCT-CAGTCTG
1 CCTGTCGGCTTTGACCCTGGAGAC---TTCCTCATCTAAAGTCTG
* *
1997249 CCTGTCAGCTTTGACCCTGGAGACTACC-CTATCTAAAGTCTG
1 CCTGTCGGCTTTGACCCTGGAGACTTCCTC-ATCTAAAGTCTG
** * * *
1997291 CCTGTCGGCTTTGACCCTAAAGACTGCCTTATCTAAAGTCTA
1 CCTGTCGGCTTTGACCCTGGAGACTTCCTCATCTAAAGTCTG
*
1997333 CCTATCGGCTTTGACCC
1 CCTGTCGGCTTTGACCC
1997350 GAGAGAATCT
Statistics
Matches: 577, Mismatches: 162, Indels: 70
0.71 0.20 0.09
Matches are distributed among these distances:
40 5 0.01
41 58 0.10
42 424 0.73
43 82 0.14
44 5 0.01
45 3 0.01
ACGTcount: A:0.18, C:0.29, G:0.19, T:0.33
Consensus pattern (42 bp):
CCTGTCGGCTTTGACCCTGGAGACTTCCTCATCTAAAGTCTG
Found at i:1996882 original size:169 final size:167
Alignment explanation
Indices: 1996521--1996974 Score: 446
Period size: 169 Copynumber: 2.7 Consensus size: 167
1996511 CATCTTTTTA
* * * * * ** *
1996521 TACCCTTACTCTACCTGTCGGCTTTGACCCTAGAGTTTGCCTCATCTAAAGTCTGCTTGTTGGCT
1 TACCCTCAATCTACCTATCGGCTTTGACCTTGGAGACTACCTCATCTAAAGTCTGCTTGTTGGCT
* * * * * * * * *
1996586 TTGACCTTAGTGACTTTTCACCCTTAATCTGTCTGTCGGCTTTGACCCTGGAGACTGCCTCATCT
66 TTGACCCTAGAGACTTTCCACCCTTAATCTGCCTATCAGCTTTGACCCTGGAAACTACCCCATCT
* * *
1996651 AAAGTCTTCCTGTCAGCTTTGACCTAAGAGACTTTCT
131 AAAGTCTGCCTGTCAGCTTTAACCTAAGAGACTTTCC
* * *
1996688 TACCCTCAGTCTGCCTATCGGCTTTGACCTTGGAGAGTACCTCAT-TCAAAGTCTGCTTGTTGGC
1 TACCCTCAATCTACCTATCGGCTTTGACCTTGGAGACTACCTCATCT-AAAGTCTGCTTGTTGGC
* * * *
1996752 TTTGACCCTGGAGACTTTCCTACCCTTCAGTCTGCCTATCAGCTTTGACTCTGGAAACTACCCCG
65 TTTGACCCTAGAGACTTTCC-ACCCTT-AATCTGCCTATCAGCTTTGACCCTGGAAACTACCCCA
* *
1996817 TCTAAAGTCTGCCTGTCGGCTTTAACCCT-GGAGACTTTCC
128 TCTAAAGTCTGCCTGTCAGCTTTAA-CCTAAGAGACTTTCC
* * * * * * *
1996857 TACCCTCAATCTATCTATTGGCTTTGACCTTGGAGACTACCCCATCTAAAATTTGCCTGTCGGCT
1 TACCCTCAATCTACCTATCGGCTTTGACCTTGGAGACTACCTCATCTAAAGTCTGCTTGTTGGCT
* * * * * * *
1996922 TTGAGCATGGAGAC-TGCCTCATCTATAATCTGCCTATCAGCTTTGACCTTGGA
66 TTGACCCTAGAGACTTTCCAC-CCT-TAATCTGCCTATCAGCTTTGACCCTGGA
1996975 GGCTTTCCTA
Statistics
Matches: 235, Mismatches: 45, Indels: 13
0.80 0.15 0.04
Matches are distributed among these distances:
166 1 0.00
167 70 0.30
168 35 0.15
169 125 0.53
170 4 0.02
ACGTcount: A:0.19, C:0.29, G:0.19, T:0.34
Consensus pattern (167 bp):
TACCCTCAATCTACCTATCGGCTTTGACCTTGGAGACTACCTCATCTAAAGTCTGCTTGTTGGCT
TTGACCCTAGAGACTTTCCACCCTTAATCTGCCTATCAGCTTTGACCCTGGAAACTACCCCATCT
AAAGTCTGCCTGTCAGCTTTAACCTAAGAGACTTTCC
Found at i:1997262 original size:379 final size:378
Alignment explanation
Indices: 1996534--1997348 Score: 1027
Period size: 379 Copynumber: 2.2 Consensus size: 378
1996524 CCTTACTCTA
** * * * *
1996534 CCTGTCGGCTTTGACCCTAGAGTTTGCCTCATCTAAAGTCTGCTTGTTGGCTTTGACCTTAGTGA
1 CCTGTCGGCTTTGACCCTAGAGACTGCCTCATCTAAAGTCTGCCTATCGGCTTTGACCTTAGAGA
* * *
1996599 CTTTTCACCCTTAATCTGTCTGTCGGCTTTGACCCTGGAGACTGCCTCATCTAAAGTCTTCCTGT
66 CTTTCCACCCTTAATCTGCCTGTCGACTTTGACCCTGGAGACTGCCTCATCTAAAGTCTTCCTGT
1996664 CAGCTTTGACCTAAGAGACTTTCTTACCCTCAGTCTGCCTATCGGCTTTGACCTTGGAGAGTACC
131 CAGCTTTGACCTAAGAGACTTTCTTACCCTCAGTCTGCCTATCGGCTTTGACCTTGGAGAGTACC
* * *
1996729 TCATTCAAAGTCTGCTTGTTGGCTTTGACCCTGGAGACTTTCCTACCCTTCAGTCTGCCTATCAG
196 TCATTCAAAGTCTGCCTGTCGACTTTGACCCTGGAGACTTTCCTACCCTTCAGTCTGCCTATCAG
* * * **
1996794 CTTTGACTCTGGAAACTACCCCGTCTAAAGTCTGCCTGTCGGCTTTAACCCTGGAGACTTTCCTA
261 CTTTGACTCTGGAAACTACCCCATCTAAAGTCTGCCTATCGACTTTAACCCTAAAGACTTTCCTA
* ** * *
1996859 CCCTCAATCTATCTATTGGCTTTGACCTTGGAGACTACCCCATCTAAAATTTG
326 CCCTCAATCTACCTATCAGCTTTGACCCTGGAGACTACCCCATCTAAAATCTG
* * * * *
1996912 CCTGTCGGCTTTGAGCATGGAGACTGCCTCATCTATAA-TCTGCCTATCAGCTTTGACCTTGGAG
1 CCTGTCGGCTTTGACCCTAGAGACTGCCTCATCTA-AAGTCTGCCTATCGGCTTTGACCTTAGAG
* * * *
1996976 GCTTTCCTACCCTTAGTCTGCCTGTCGACTTTGACCCTGGAGACTGCCTCATCTGAAGT-TTGCT
65 ACTTTCC-ACCCTTAATCTGCCTGTCGACTTTGACCCTGGAGACTGCCTCATCTAAAGTCTT-CC
* *
1997040 TGTCAGCTTTGACCCT-AGAGACTTTCTTACCCTCAGTTTGCCTGTCGGCTTTGACCTTGGAG-G
128 TGTCAGCTTTGA-CCTAAGAGACTTTCTTACCCTCAGTCTGCCTATCGGCTTTGACCTTGGAGAG
* * *
1997103 CTGCCTCA-TCTAAAGTTTGCCTGTCGACTTTGACCCTGGAGACTTTCCTACCC-TCAGTCTGCT
192 -TACCTCATTC-AAAGTCTGCCTGTCGACTTTGACCCTGGAGACTTTCCTACCCTTCAGTCTGCC
* * * *
1997166 TGTC-GACTTTGAC-CTTGGAAACTGCCTCATCTAAAGTCTGCCTATCGACTTTGACCCTAAAGA
255 TATCAG-CTTTGACTC-TGGAAACTACCCCATCTAAAGTCTGCCTATCGACTTTAACCCTAAAGA
* * * * * * *
1997229 CTTT-TTCCCTTCTCAGTCTGCCTGTCAGCTTTGACCCTGGAGACTACCCTATCTAAAGTCTG
318 CTTTCCTACC--CTCAATCTACCTATCAGCTTTGACCCTGGAGACTACCCCATCTAAAATCTG
* * *
1997291 CCTGTCGGCTTTGACCCTAAAGACTGCCTTATCTAAAGTCTACCTATCGGCTTTGACC
1 CCTGTCGGCTTTGACCCTAGAGACTGCCTCATCTAAAGTCTGCCTATCGGCTTTGACC
1997349 CGAGAGAATC
Statistics
Matches: 372, Mismatches: 54, Indels: 21
0.83 0.12 0.05
Matches are distributed among these distances:
377 5 0.01
378 125 0.34
379 239 0.64
380 3 0.01
ACGTcount: A:0.18, C:0.29, G:0.19, T:0.33
Consensus pattern (378 bp):
CCTGTCGGCTTTGACCCTAGAGACTGCCTCATCTAAAGTCTGCCTATCGGCTTTGACCTTAGAGA
CTTTCCACCCTTAATCTGCCTGTCGACTTTGACCCTGGAGACTGCCTCATCTAAAGTCTTCCTGT
CAGCTTTGACCTAAGAGACTTTCTTACCCTCAGTCTGCCTATCGGCTTTGACCTTGGAGAGTACC
TCATTCAAAGTCTGCCTGTCGACTTTGACCCTGGAGACTTTCCTACCCTTCAGTCTGCCTATCAG
CTTTGACTCTGGAAACTACCCCATCTAAAGTCTGCCTATCGACTTTAACCCTAAAGACTTTCCTA
CCCTCAATCTACCTATCAGCTTTGACCCTGGAGACTACCCCATCTAAAATCTG
Found at i:1997289 original size:127 final size:127
Alignment explanation
Indices: 1997120--1997349 Score: 313
Period size: 127 Copynumber: 1.8 Consensus size: 127
1997110 ATCTAAAGTT
** * * * *
1997120 TGCCTGTCGACTTTGACCCTGGAGACTTTCCTACCCTCAGTCTGCTTGTCGACTTTGACCTTGGA
1 TGCCTGTCGACTTTGACCCTGGAGACTACCCTACCCTAAGTCTGCCTGTCGACTTTGACCCT-AA
*
1997185 A-ACTGCCTCATCTAAAGTCTGCCTATCGACTTTGACCCTAAAGACTTTTTCCCTTCTCAGTC
65 AGACTGCCTCATCTAAAGTCTACCTATCGACTTTGACCCTAAAGACTTTTTCCCTTCTCAGTC
* *
1997247 TGCCTGTC-AGCTTTGACCCTGGAGACTACCCTA-TCTAAAGTCTGCCTGTCGGCTTTGACCCTA
1 TGCCTGTCGA-CTTTGACCCTGGAGACTACCCTACCCT-AAGTCTGCCTGTCGACTTTGACCCTA
* *
1997310 AAGACTGCCTTATCTAAAGTCTACCTATCGGCTTTGACCC
64 AAGACTGCCTCATCTAAAGTCTACCTATCGACTTTGACCC
1997350 GAGAGAATCT
Statistics
Matches: 89, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
126 5 0.06
127 84 0.94
ACGTcount: A:0.19, C:0.31, G:0.17, T:0.32
Consensus pattern (127 bp):
TGCCTGTCGACTTTGACCCTGGAGACTACCCTACCCTAAGTCTGCCTGTCGACTTTGACCCTAAA
GACTGCCTCATCTAAAGTCTACCTATCGACTTTGACCCTAAAGACTTTTTCCCTTCTCAGTC
Found at i:1997862 original size:18 final size:18
Alignment explanation
Indices: 1997840--1997873 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
1997830 ATAAAAATTA
1997840 AAAAAAATAA-AAATCAC
1 AAAAAAATAATAAATCAC
1997857 AAAAAAATAATAAATCA
1 AAAAAAATAATAAATCA
1997874 ATTCAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.76, C:0.09, G:0.00, T:0.15
Consensus pattern (18 bp):
AAAAAAATAATAAATCAC
Found at i:1997880 original size:21 final size:20
Alignment explanation
Indices: 1997835--1997895 Score: 74
Period size: 21 Copynumber: 3.1 Consensus size: 20
1997825 TAATAATAAA
*
1997835 AATTAAAAAAAATAAAAATC
1 AATTCAAAAAAATAAAAATC
1997855 -A--CAAAAAAATAATAAATC
1 AATTCAAAAAAATAA-AAATC
1997873 AATTCAAAAAAATGAAAAATC
1 AATTCAAAAAAAT-AAAAATC
1997894 AA
1 AA
1997896 AAATTAAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
17 10 0.29
18 5 0.14
19 2 0.06
21 16 0.46
22 2 0.06
ACGTcount: A:0.72, C:0.08, G:0.02, T:0.18
Consensus pattern (20 bp):
AATTCAAAAAAATAAAAATC
Found at i:1997882 original size:39 final size:35
Alignment explanation
Indices: 1997826--1997953 Score: 102
Period size: 36 Copynumber: 3.5 Consensus size: 35
1997816 TAAATAATAT
1997826 AATAATAAAAATTAAAAAAAAT-AAAAATCACAAAAA
1 AATAATAAAAATT-AAAAAAATGAAAAATCA-AAAAA
1997862 AATAATAAATCAATTCAAAAAAATGAAAAATCAAAAATTAA
1 AATAATAAA--AATT-AAAAAAATGAAAAATC-AAAA--AA
* * *
1997903 AATATTAAAAA--AATAAAAATTAAAAATCATAAAA
1 AATAATAAAAATTAA-AAAAATGAAAAATCAAAAAA
* *
1997937 AATCA-AAAAATCAAAAA
1 AATAATAAAAATTAAAAA
1997954 TTAAAGAAAT
Statistics
Matches: 77, Mismatches: 6, Indels: 20
0.75 0.06 0.19
Matches are distributed among these distances:
33 5 0.06
34 8 0.10
35 2 0.03
36 14 0.18
37 13 0.17
38 12 0.16
39 12 0.16
40 1 0.01
41 10 0.13
ACGTcount: A:0.73, C:0.06, G:0.01, T:0.20
Consensus pattern (35 bp):
AATAATAAAAATTAAAAAAATGAAAAATCAAAAAA
Found at i:1997938 original size:55 final size:53
Alignment explanation
Indices: 1997856--1998001 Score: 170
Period size: 55 Copynumber: 2.7 Consensus size: 53
1997846 ATAAAAATCA
* * * *
1997856 CAAAAAAATAATAAATCAATTCA-AAAAAATGAAAAATCAAAAATTAAA-ATAT
1 CAAAAAAATAAAAAATAAAATCATAAAAAAT-AAAAATCAAAAATTAAAGAAAT
* *
1997908 TAAAAAAATAAAAATTAAAAATCATAAAAAATCAAAAAATCAAAAATTAAAGAAAT
1 CAAAAAAATAAAAAAT-AAAATCATAAAAAAT--AAAAATCAAAAATTAAAGAAAT
*
1997964 CAAAGAAATAAAAAATAAAATCATCAAAAAATAAAAAT
1 CAAAAAAATAAAAAATAAAATCAT-AAAAAATAAAAAT
1998002 TAGAAATCAT
Statistics
Matches: 79, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
52 13 0.16
53 5 0.06
54 13 0.16
55 25 0.32
56 23 0.29
ACGTcount: A:0.72, C:0.07, G:0.02, T:0.19
Consensus pattern (53 bp):
CAAAAAAATAAAAAATAAAATCATAAAAAATAAAAATCAAAAATTAAAGAAAT
Found at i:1997945 original size:47 final size:46
Alignment explanation
Indices: 1997879--1998003 Score: 137
Period size: 47 Copynumber: 2.7 Consensus size: 46
1997869 AATCAATTCA
* *
1997879 AAAAAATGAAAAATCAAAAATTAAAATATTAAAAAAAT-AAA-AATT
1 AAAAAATAAAAAATCAAAAATTAAAA-ATTAAAAAAATCAAAGAAAT
* *
1997924 AAAAATCATAAAAAATCAAAAAATCAAAAATTAAAGAAATCAAAGAAAT
1 AAAAA--ATAAAAAATC-AAAAATTAAAAATTAAAAAAATCAAAGAAAT
* *
1997973 AAAAAATAAAATCATCAAAAAATAAAAATTA
1 AAAAAATAAAA-AATCAAAAATTAAAAATTA
1998004 GAAATCATTA
Statistics
Matches: 67, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
45 5 0.07
47 38 0.57
48 16 0.24
49 8 0.12
ACGTcount: A:0.73, C:0.06, G:0.02, T:0.19
Consensus pattern (46 bp):
AAAAAATAAAAAATCAAAAATTAAAAATTAAAAAAATCAAAGAAAT
Found at i:1997963 original size:16 final size:15
Alignment explanation
Indices: 1997879--1998032 Score: 93
Period size: 16 Copynumber: 9.9 Consensus size: 15
1997869 AATCAATTCA
*
1997879 AAAAAATGAAAAA-T
1 AAAAAATCAAAAATT
* *
1997893 CAAAAATTAAAATATT
1 AAAAAATCAAAA-ATT
1997909 AAAAAAAT-AAAAATT
1 -AAAAAATCAAAAATT
* *
1997924 AAAAATCATAAAAAATC
1 AAAAA--ATCAAAAATT
1997941 AAAAAATCAAAAATT
1 AAAAAATCAAAAATT
*
1997956 AAAGAAATCAAAGAAAT
1 AAA-AAATCAAA-AATT
*
1997973 AAAAAAT-AAAATCATC
1 AAAAAATCAAAA--ATT
1997989 AAAAAAT-AAAAATT
1 AAAAAATCAAAAATT
* *
1998003 -AGAAATCATTAAAAGT
1 AAAAAATCA--AAAATT
1998019 AATAAAATCAAAAA
1 AA-AAAATCAAAAA
1998033 GAAATGGCAT
Statistics
Matches: 112, Mismatches: 13, Indels: 28
0.73 0.08 0.18
Matches are distributed among these distances:
13 5 0.04
14 19 0.17
15 18 0.16
16 40 0.36
17 24 0.21
18 6 0.05
ACGTcount: A:0.71, C:0.06, G:0.03, T:0.19
Consensus pattern (15 bp):
AAAAAATCAAAAATT
Found at i:1997977 original size:32 final size:31
Alignment explanation
Indices: 1997879--1997983 Score: 101
Period size: 31 Copynumber: 3.4 Consensus size: 31
1997869 AATCAATTCA
* * *
1997879 AAAAAATGAAAAATCAAAAAT--TAAAATATTA
1 AAAAAAT-AAAAATTAAAAATCATAAAA-AATC
1997910 AAAAAATAAAAATTAAAAATCATAAAAAATC
1 AAAAAATAAAAATTAAAAATCATAAAAAATC
*
1997941 AAAAAATCAAAAATTAAAGAAATCA-AAGAAAT-
1 AAAAAAT-AAAAATT-AA-AAATCATAAAAAATC
1997973 AAAAAATAAAA
1 AAAAAATAAAA
1997984 TCATCAAAAA
Statistics
Matches: 65, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
30 12 0.18
31 20 0.31
32 19 0.29
33 8 0.12
34 6 0.09
ACGTcount: A:0.74, C:0.05, G:0.03, T:0.18
Consensus pattern (31 bp):
AAAAAATAAAAATTAAAAATCATAAAAAATC
Found at i:1997989 original size:24 final size:25
Alignment explanation
Indices: 1997962--1998025 Score: 78
Period size: 24 Copynumber: 2.6 Consensus size: 25
1997952 AATTAAAGAA
1997962 ATCAAAGAAATAAAAAATA-AAATC
1 ATCAAAGAAATAAAAAATAGAAATC
*
1997986 ATCAAA-AAATAAAAATTAGAAATC
1 ATCAAAGAAATAAAAAATAGAAATC
* *
1998010 ATTAAAAGTAATAAAA
1 A-TCAAAGAAATAAAA
1998026 TCAAAAAGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
23 11 0.32
24 12 0.35
25 4 0.12
26 7 0.21
ACGTcount: A:0.69, C:0.06, G:0.05, T:0.20
Consensus pattern (25 bp):
ATCAAAGAAATAAAAAATAGAAATC
Found at i:1998866 original size:31 final size:31
Alignment explanation
Indices: 1998829--1998938 Score: 103
Period size: 31 Copynumber: 3.2 Consensus size: 31
1998819 TAGCATCAAT
*
1998829 AGCTTCCACAAACACTAACAGTAGCTCTAGC
1 AGCTTCCACAAACACAAACAGTAGCTCTAGC
*
1998860 AACTTCCAGCAGCGACAGCACCCGAAACCAGTAGCTCTAGC
1 AGCTTCCA-CA---A-A-CA--C-AAA-CAGTAGCTCTAGC
*
1998901 AGCTTCCACAAACACCAACAGTAGCTCTAGC
1 AGCTTCCACAAACACAAACAGTAGCTCTAGC
1998932 AGCTTCC
1 AGCTTCC
1998939 TGCCTACGAG
Statistics
Matches: 65, Mismatches: 4, Indels: 20
0.73 0.04 0.22
Matches are distributed among these distances:
31 27 0.42
32 4 0.06
33 1 0.02
35 3 0.05
36 2 0.03
37 3 0.05
39 1 0.02
40 4 0.06
41 20 0.31
ACGTcount: A:0.33, C:0.35, G:0.15, T:0.16
Consensus pattern (31 bp):
AGCTTCCACAAACACAAACAGTAGCTCTAGC
Found at i:1998905 original size:72 final size:71
Alignment explanation
Indices: 1998829--1998961 Score: 205
Period size: 72 Copynumber: 1.9 Consensus size: 71
1998819 TAGCATCAAT
*
1998829 AGCTTCCACAAACACTAACAGTAGCTCTAGCAACTTCCAGCAGCGAC-AGCACCCGAAACCAGTA
1 AGCTTCCACAAACACCAACAGTAGCTCTAGCAACTTCCAGC--CGACGAGCACCCGAAACCAGTA
1998893 GCTCTAGC
64 GCTCTAGC
* * *
1998901 AGCTTCCACAAACACCAACAGTAGCTCTAGCAGCTTCCTGCCTACGAGCACCCGAAACCAG
1 AGCTTCCACAAACACCAACAGTAGCTCTAGCAACTTCCAGCCGACGAGCACCCGAAACCAG
1998962 CAACTTCCAC
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
70 3 0.05
71 15 0.27
72 38 0.68
ACGTcount: A:0.32, C:0.36, G:0.17, T:0.15
Consensus pattern (71 bp):
AGCTTCCACAAACACCAACAGTAGCTCTAGCAACTTCCAGCCGACGAGCACCCGAAACCAGTAGC
TCTAGC
Found at i:1999582 original size:13 final size:13
Alignment explanation
Indices: 1999564--1999589 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1999554 CAAAGAATAG
1999564 ATGTATCGATACA
1 ATGTATCGATACA
1999577 ATGTATCGATACA
1 ATGTATCGATACA
1999590 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1999586 original size:34 final size:33
Alignment explanation
Indices: 1999543--1999609 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 33
1999533 AACTTCCTAG
*
1999543 ATGTATCGATACAAAGAATAGATGTATCGATACA
1 ATGTATCGATACAAAGAA-AAATGTATCGATACA
*
1999577 ATGTATCGATACACAGAAAAATGTATCGATACA
1 ATGTATCGATACAAAGAAAAATGTATCGATACA
1999610 TTTCCTTGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 14 0.45
34 17 0.55
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.25
Consensus pattern (33 bp):
ATGTATCGATACAAAGAAAAATGTATCGATACA
Found at i:1999653 original size:19 final size:18
Alignment explanation
Indices: 1999629--1999696 Score: 74
Period size: 19 Copynumber: 3.9 Consensus size: 18
1999619 TAGTAGCTAA
1999629 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
1999648 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
*
1999663 -T-TGTATCAATACAACAC
1 TTATGTATCGATACAA-AC
1999680 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
1999697 TTGTTGAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 13
0.73 0.04 0.23
Matches are distributed among these distances:
13 10 0.24
14 1 0.02
16 2 0.05
18 2 0.05
19 26 0.63
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:1999675 original size:32 final size:32
Alignment explanation
Indices: 1999632--1999694 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
1999622 TAGCTAATTA
* *
1999632 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCAATACAACACTTATGTATCGATACAT
1999664 TGTATCAATACAACACTTATGTATCGATACA
1 TGTATCAATACAACACTTATGTATCGATACA
1999695 AATTGTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (32 bp):
TGTATCAATACAACACTTATGTATCGATACAT
Found at i:1999756 original size:21 final size:21
Alignment explanation
Indices: 1999732--1999808 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
1999722 ATTGGGACCC
* *
1999732 TGTATCGATACATTTGTA-GAA
1 TGTATCGATACA-TTCTACAAA
*
1999753 TGTATCGATACATTCCACAAA
1 TGTATCGATACATTCTACAAA
1999774 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
1999795 TGTATCGATACATT
1 TGTATCGATACATT
1999809 TGGATAAATT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 3 0.06
21 48 0.94
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (21 bp):
TGTATCGATACATTCTACAAA
Found at i:2000740 original size:58 final size:58
Alignment explanation
Indices: 2000641--2000776 Score: 177
Period size: 58 Copynumber: 2.3 Consensus size: 58
2000631 TTCATGCAAA
* *
2000641 TTAAGGACTATTATGCAATTTCTTGCATTTTAGTGTTATTTAAGTCATTCTTTATGAT
1 TTAAGGACTATTATGCAATTCCTTGCATTTTAGTGTCATTTAAGTCATTCTTTATGAT
** * *
2000699 TTGGGGACTATTATGCAATTCCATT-CATTTTAG-GCTCATTTAAGTTATTTTTTATGAT
1 TTAAGGACTATTATGCAATTCC-TTGCATTTTAGTG-TCATTTAAGTCATTCTTTATGAT
*
2000757 TTAAGGATTATTATGCAATT
1 TTAAGGACTATTATGCAATT
2000777 TCACGCAATA
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
57 1 0.01
58 64 0.96
59 2 0.03
ACGTcount: A:0.26, C:0.10, G:0.15, T:0.49
Consensus pattern (58 bp):
TTAAGGACTATTATGCAATTCCTTGCATTTTAGTGTCATTTAAGTCATTCTTTATGAT
Found at i:2001126 original size:511 final size:504
Alignment explanation
Indices: 2000121--2001143 Score: 1929
Period size: 511 Copynumber: 2.0 Consensus size: 504
2000111 ATTTTCCCAT
2000121 AATGTTTTCATGCAAATTAAGGACTATTATGCAATTTCTTGCATTTTATTTAAGTCATTCTCTAT
1 AATGTTTTCATGCAAATTAAGGACTATTATGCAATTTCTTGCATTTTATTTAAGTCATTCTCTAT
*
2000186 GATTTGGGGACTATTATGCAATTCCATTCATTTTAGGCTTATTTAAGTTATTTTTATGATTTAAG
66 GATTTGGGGACTATTATGCAATTCCATTCATTTTAGGCTCATTTAAGTTATTTTTATGATTTAAG
2000251 GATTATTATGCAATTTCACGCAATATTAGGGCCATTCAAGTTATTTTCCATGATTGAAGGACTAT
131 GATTATTATGCAATTTCACGCAATATTAGGGCCATTCAAGTTATTTTCCATGATTGAAGGACTAT
2000316 TTAGCAATTTCATGCCTTTTAAAGGCTTTTAGGCTTAGTGTTGTAATTTCCATCAAAACCTACCT
196 TTAGCAATTTCATGCCTTTTAAAGGCTTTTAGGCTTAGTGTTGTAATTTCCATCAAAACCTACCT
2000381 AAAACTGAATCTTTTAGGGCTAGTTTTGTAATAAAACCTTTTAAGGTTACTTTTTGTACTTTTTG
261 AAAACTGAATCTTTTAGGGCTAGTTTTGTAATAAAACCTTTTAAGGTTACTTTTTGTACTTTTTG
*
2000446 TCAAAACATGCTAGGATTTTGGTTTTGATATAACAAAGTATGAATTAAATCGGTAAATGCTTTGA
326 TCAAAACATGCTAGGATCTTGGTTTTGATATAACAAAGTATGAATTAAATCGGTAAATGCTTTGA
*
2000511 AAAATCATAATAAGTTTTATTCACTTAAAAACACTCTAAAATCTTGCTCAAAATGATTTTCAATA
391 AAAATCATAATAAGTTTTATTCACTTAAAAACACTCTAAAACCTTGCTCAAAATGATTTTCAATA
2000576 TCAAAGATGTTTTAGAGGTAAGTACAAATGTTTTTCAAAATATAAATCA
456 TCAAAGATGTTTTAGAGGTAAGTACAAATGTTTTTCAAAATATAAATCA
2000625 AATGTTTTCATGCAAATTAAGGACTATTATGCAATTTCTTGCATTTTAGTGTTATTTAAGTCATT
1 AATGTTTTCATGCAAATTAAGGACTATTATGCAATTTCTTGCA---T--T-TTATTTAAGTCATT
*
2000690 CTTTATGATTTGGGGACTATTATGCAATTCCATTCATTTTAGGCTCATTTAAGTTATTTTTTATG
60 CTCTATGATTTGGGGACTATTATGCAATTCCATTCATTTTAGGCTCATTTAAGTTA-TTTTTATG
2000755 ATTTAAGGATTATTATGCAATTTCACGCAATATTAGGGCCATTCAAGTTATTTTCCATGATTGAA
124 ATTTAAGGATTATTATGCAATTTCACGCAATATTAGGGCCATTCAAGTTATTTTCCATGATTGAA
*
2000820 GGACTATTTAGCAATTTTATGCCTTTTAAAGGCTTTTAGGCTTAGTGTTGTAATTTCCATCAAAA
189 GGACTATTTAGCAATTTCATGCCTTTTAAAGGCTTTTAGGCTTAGTGTTGTAATTTCCATCAAAA
*
2000885 CCTACCTAAAACTGAATCTTTTAGGGCTAGTTTTGTAATAAAACCTTTTAAGGTTAGTTTTTGTA
254 CCTACCTAAAACTGAATCTTTTAGGGCTAGTTTTGTAATAAAACCTTTTAAGGTTACTTTTTGTA
2000950 CTTTTTGTCAAAACATGCTAGGATCTTGGTTTTGATATAACAAAGTATGAATTAAATCGGTAAAT
319 CTTTTTGTCAAAACATGCTAGGATCTTGGTTTTGATATAACAAAGTATGAATTAAATCGGTAAAT
2001015 GCTTTGAAAAATCATAATAAGTTTTATTCACTTAAAAACACTCTAAAACCTTGCTCAAAATGATT
384 GCTTTGAAAAATCATAATAAGTTTTATTCACTTAAAAACACTCTAAAACCTTGCTCAAAATGATT
2001080 TTCAATATCAAAGATGTTTTAGAGGTAAGTACAAATGTTTTTCAAAATATAAATCA
449 TTCAATATCAAAGATGTTTTAGAGGTAAGTACAAATGTTTTTCAAAATATAAATCA
2001136 AATGTTTT
1 AATGTTTT
2001144 TAAGTAAAAA
Statistics
Matches: 506, Mismatches: 6, Indels: 7
0.97 0.01 0.01
Matches are distributed among these distances:
504 43 0.08
507 1 0.00
509 1 0.00
510 68 0.13
511 393 0.78
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.41
Consensus pattern (504 bp):
AATGTTTTCATGCAAATTAAGGACTATTATGCAATTTCTTGCATTTTATTTAAGTCATTCTCTAT
GATTTGGGGACTATTATGCAATTCCATTCATTTTAGGCTCATTTAAGTTATTTTTATGATTTAAG
GATTATTATGCAATTTCACGCAATATTAGGGCCATTCAAGTTATTTTCCATGATTGAAGGACTAT
TTAGCAATTTCATGCCTTTTAAAGGCTTTTAGGCTTAGTGTTGTAATTTCCATCAAAACCTACCT
AAAACTGAATCTTTTAGGGCTAGTTTTGTAATAAAACCTTTTAAGGTTACTTTTTGTACTTTTTG
TCAAAACATGCTAGGATCTTGGTTTTGATATAACAAAGTATGAATTAAATCGGTAAATGCTTTGA
AAAATCATAATAAGTTTTATTCACTTAAAAACACTCTAAAACCTTGCTCAAAATGATTTTCAATA
TCAAAGATGTTTTAGAGGTAAGTACAAATGTTTTTCAAAATATAAATCA
Found at i:2007164 original size:153 final size:152
Alignment explanation
Indices: 2006974--2007326 Score: 539
Period size: 153 Copynumber: 2.3 Consensus size: 152
2006964 AATTACTATA
* * *
2006974 AAATCAGTTTTAAAAATTTAATTTATTTTATGAGTTTTAGAATTTTTCCTGTTATCACATTACAG
1 AAATTAGTTTTAAAAATTTAATTTATTTTATGAGTTTTAGAATTTTTCCTGTTATCAAAATACAG
* *
2007039 AGTTTTCTTCTTTGTAAATTTTTCGAG-AA-ATTTTTTTTAAGTTTATAATTTTCAAAATTCTTC
66 AGTTTTCTTCTCTGTAAATTTTTCG-GTAAGA-TTCTTTTAAGTTTATAATTTTCAAAATTCTTC
*
2007102 AAATATTATTCTTTAATTGATATT
129 AAATATTATTCTTTAATTGATACT
* * *
2007126 AAATTAGTTTTGAAATTTTCAATTTATTTTATGAGTTTTAGAATTTTTCTTGTTATCAAAATACA
1 AAATTAGTTTTAAAAATTT-AATTTATTTTATGAGTTTTAGAATTTTTCCTGTTATCAAAATACA
* *
2007191 GAGTTTTCTTCTCTGTAAATTTTTTGGTAAGATTCTTTTGAGTTTATAATTTTCAAAATTCTTCA
65 GAGTTTTCTTCTCTGTAAATTTTTCGGTAAGATTCTTTTAAGTTTATAATTTTCAAAATTCTTCA
* *
2007256 AATGTTATTGTTTAATTGATACT
130 AATATTATTCTTTAATTGATACT
2007279 AAATTAGTTTTAAAAACTTTAATTTATTTTATGAGTTTTAGAATTTTT
1 AAATTAGTTTTAAAAA-TTTAATTTATTTTATGAGTTTTAGAATTTTT
2007327 TCTATTTCCA
Statistics
Matches: 182, Mismatches: 15, Indels: 7
0.89 0.07 0.03
Matches are distributed among these distances:
152 17 0.09
153 161 0.88
154 4 0.02
ACGTcount: A:0.31, C:0.07, G:0.09, T:0.52
Consensus pattern (152 bp):
AAATTAGTTTTAAAAATTTAATTTATTTTATGAGTTTTAGAATTTTTCCTGTTATCAAAATACAG
AGTTTTCTTCTCTGTAAATTTTTCGGTAAGATTCTTTTAAGTTTATAATTTTCAAAATTCTTCAA
ATATTATTCTTTAATTGATACT
Found at i:2007524 original size:14 final size:15
Alignment explanation
Indices: 2007493--2007525 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
2007483 ATACATCAAT
2007493 TTTTTCCCATAAAGA
1 TTTTTCCCATAAAGA
*
2007508 TTTTTCTCATAAA-A
1 TTTTTCCCATAAAGA
2007522 TTTT
1 TTTT
2007526 ATAAGTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.30, C:0.15, G:0.03, T:0.52
Consensus pattern (15 bp):
TTTTTCCCATAAAGA
Found at i:2009500 original size:13 final size:13
Alignment explanation
Indices: 2009482--2009508 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2009472 ACATTATGCT
2009482 TTGTATCGATACA
1 TTGTATCGATACA
2009495 TTGTATCGATACA
1 TTGTATCGATACA
2009508 T
1 T
2009509 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2009523 original size:32 final size:33
Alignment explanation
Indices: 2009465--2009527 Score: 94
Period size: 32 Copynumber: 1.9 Consensus size: 33
2009455 CACCCAGATC
*
2009465 TATCGATACATTATGCTTTGTATCGATACATTG
1 TATCGATACATTATGCATTGTATCGATACATTG
2009498 TATCGATACATGT-T-CATTGTATCGATACAT
1 TATCGATACAT-TATGCATTGTATCGATACAT
2009528 GGACAATTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 15 0.54
33 12 0.43
34 1 0.04
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (33 bp):
TATCGATACATTATGCATTGTATCGATACATTG
Found at i:2009538 original size:20 final size:19
Alignment explanation
Indices: 2009492--2009548 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 19
2009482 TTGTATCGAT
*
2009492 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
*
2009511 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
2009530 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
2009549 AAATTGGCAG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.53
20 16 0.47
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:2009621 original size:20 final size:21
Alignment explanation
Indices: 2009577--2009627 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
2009567 CTACCACTGT
2009577 TTGTATCGATACATGGTATAA
1 TTGTATCGATACATGGTATAA
2009598 -TGTATCGATACAT-G-ATGAA
1 TTGTATCGATACATGGTAT-AA
*
2009617 TTGTATTGATA
1 TTGTATCGATA
2009628 AATTGCTTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 2 0.07
19 3 0.11
20 22 0.81
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (21 bp):
TTGTATCGATACATGGTATAA
Found at i:2016590 original size:52 final size:52
Alignment explanation
Indices: 2016505--2016629 Score: 205
Period size: 52 Copynumber: 2.4 Consensus size: 52
2016495 ATATGAAAAG
* *
2016505 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
* *
2016557 TTGCCTTCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
2016609 TTGCCTGCATCTATCGATACA
1 TTGCCTGCATGTATCGATACA
2016630 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:2016642 original size:52 final size:52
Alignment explanation
Indices: 2016505--2016649 Score: 177
Period size: 52 Copynumber: 2.8 Consensus size: 52
2016495 ATATGAAAAG
* * *
2016505 TTGCTTGCATGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATCTATCGATACA-TAAGATAGTGTATCGATACATCTGGGCAAAT
* * *** *
2016557 TTGCCTTCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATCTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAAT
2016609 TTGCCTGCATCTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATCTATCGATACATAAGAT-AGTGTATCGATACA
2016650 ATGTATCGAT
Statistics
Matches: 81, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
51 4 0.05
52 77 0.95
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (52 bp):
TTGCCTGCATCTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAAT
Found at i:2016656 original size:13 final size:13
Alignment explanation
Indices: 2016638--2016662 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2016628 CAAAGATCAG
2016638 TGTATCGATACAA
1 TGTATCGATACAA
2016651 TGTATCGATACA
1 TGTATCGATACA
2016663 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2016746 original size:13 final size:13
Alignment explanation
Indices: 2016728--2016752 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2016718 AAAAAAAATA
2016728 TGTATCGATACAT
1 TGTATCGATACAT
2016741 TGTATCGATACA
1 TGTATCGATACA
2016753 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2019369 original size:20 final size:20
Alignment explanation
Indices: 2019344--2019395 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
2019334 AAAACCCAGA
2019344 TGTATCGATACAATATTCCT
1 TGTATCGATACAATATTCCT
2019364 TGTATCGATACAATATTCCT
1 TGTATCGATACAATATTCCT
2019384 TGTATCGATACA
1 TGTATCGATACA
2019396 TTGTATCGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (20 bp):
TGTATCGATACAATATTCCT
Found at i:2019401 original size:13 final size:13
Alignment explanation
Indices: 2019383--2019409 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2019373 ACAATATTCC
2019383 TTGTATCGATACA
1 TTGTATCGATACA
2019396 TTGTATCGATACA
1 TTGTATCGATACA
2019409 T
1 T
2019410 GGGTTACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2021622 original size:13 final size:13
Alignment explanation
Indices: 2021604--2021628 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2021594 CATTATGCTT
2021604 TGTATCGATACAA
1 TGTATCGATACAA
2021617 TGTATCGATACA
1 TGTATCGATACA
2021629 TGTTCATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2021628 original size:33 final size:32
Alignment explanation
Indices: 2021583--2021647 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
2021573 ACTCACCCTG
*
2021583 ATGTATCAATACAT-TATGCTTTGTATCGATACA
1 ATGTATCAATACATGT-T-CATTGTATCGATACA
*
2021616 ATGTATCGATACATGTTCATTGTATCGATACA
1 ATGTATCAATACATGTTCATTGTATCGATACA
2021648 TGAACAATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 14 0.48
33 14 0.48
34 1 0.03
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.38
Consensus pattern (32 bp):
ATGTATCAATACATGTTCATTGTATCGATACA
Found at i:2021659 original size:20 final size:20
Alignment explanation
Indices: 2021613--2021668 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 20
2021603 TTGTATCGAT
*
2021613 ACAA-TGTATCGATACATGT
1 ACAATTGTATCGATACATGA
*
2021632 TC-ATTGTATCGATACATGA
1 ACAATTGTATCGATACATGA
2021651 ACAATTGTATCGATACAT
1 ACAATTGTATCGATACAT
2021669 AAAATTGGCA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
18 1 0.03
19 16 0.50
20 15 0.47
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (20 bp):
ACAATTGTATCGATACATGA
Found at i:2021742 original size:20 final size:20
Alignment explanation
Indices: 2021698--2021748 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
2021688 CTACCACTAT
*
2021698 TTGTATCGATACATGGTACA
1 TTGTATCGATACATGATACA
*
2021718 ATGTATCGATACATGATGA-A
1 TTGTATCGATACATGAT-ACA
2021738 TTGTATCGATA
1 TTGTATCGATA
2021749 AATTGCTTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 26 0.96
21 1 0.04
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (20 bp):
TTGTATCGATACATGATACA
Found at i:2023680 original size:13 final size:13
Alignment explanation
Indices: 2023662--2023687 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2023652 TACACAAAGT
2023662 ATGTATCGATACA
1 ATGTATCGATACA
2023675 ATGTATCGATACA
1 ATGTATCGATACA
2023688 CCAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2023685 original size:32 final size:33
Alignment explanation
Indices: 2023644--2023707 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
2023634 TAGCCAAACT
*
2023644 TGTATCGATACA-C-AAAGTATGTATCGATACAA
1 TGTATCGATACACCAAAAAT-TGTATCGATACAA
2023676 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
2023708 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 12 0.41
33 13 0.45
34 4 0.14
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAATTGTATCGATACAA
Found at i:2023772 original size:20 final size:22
Alignment explanation
Indices: 2023741--2023784 Score: 74
Period size: 20 Copynumber: 2.1 Consensus size: 22
2023731 GCTGTATTTT
2023741 CAAATATGTATCGATACA-TCA
1 CAAATATGTATCGATACATTCA
2023762 CAAAT-TGTATCGATACATTCA
1 CAAATATGTATCGATACATTCA
2023783 CA
1 CA
2023785 CGAGAAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (22 bp):
CAAATATGTATCGATACATTCA
Found at i:2025796 original size:54 final size:54
Alignment explanation
Indices: 2025677--2025938 Score: 214
Period size: 54 Copynumber: 4.9 Consensus size: 54
2025667 TATTAGGCTT
* * * *
2025677 TCAATTATGGGCCAATTTCACTAAA-CTTAA--TAATTAGCTACGTTGGGC-TTC
1 TCAAATATGGGCCAACTTCACTAAAGCTAAACCT-ACTAGCTACGTTGGGCTTTC
*
2025728 -CAAAATTATAGGCCAACTTCACTAAAGCTAAACCTACTAGCTACGTTGGGCTTTC
1 TC-AAA-TATGGGCCAACTTCACTAAAGCTAAACCTACTAGCTACGTTGGGCTTTC
* * * * *
2025783 TCAAATATGGGCCAACTTCACTAGAGCCAAACCTACCTA-CTAGGTTAGGCTTAAC
1 TCAAATATGGGCCAACTTCACTAAAGCTAAACCTA-CTAGCTACGTTGGGCTT-TC
* ** * * * **
2025838 -CAACTATAAGACAACTTCATTAGAGCTAAACCTACTAGCTACGTTTAGCTTTC
1 TCAAATATGGGCCAACTTCACTAAAGCTAAACCTACTAGCTACGTTGGGCTTTC
** * * * *
2025891 TCAACCATGGGCCAACTTCACTTAGGCTAAACCTATTAGCTATGTTGG
1 TCAAATATGGGCCAACTTCACTAAAGCTAAACCTACTAGCTACGTTGG
2025939 CTTAACAACT
Statistics
Matches: 167, Mismatches: 33, Indels: 19
0.76 0.15 0.09
Matches are distributed among these distances:
50 1 0.01
51 2 0.01
52 18 0.11
53 8 0.05
54 126 0.75
55 11 0.07
56 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.29
Consensus pattern (54 bp):
TCAAATATGGGCCAACTTCACTAAAGCTAAACCTACTAGCTACGTTGGGCTTTC
Found at i:2025855 original size:108 final size:106
Alignment explanation
Indices: 2025741--2026014 Score: 309
Period size: 108 Copynumber: 2.6 Consensus size: 106
2025731 AATTATAGGC
* *
2025741 CAACTTCACTAAAGCTAAACCTACTAGCTACGTTGGGCTTTCTCAAATATGGGCCAACTTCAC-T
1 CAACTTCACTAAAGCTAAACCTACTAGCTACGTTGAGCTTTCTCAAACATGGGCCAACTTCACTT
2025805 AGAGCCAAACCTACCTA-CTAGGTTAGGCTTAACCAACTATAAGA
66 AG-GCCAAACCTA-CTAGCTAGGTT-GGCTTAA-CAACTATAAGA
* * * *
2025849 CAACTTCATTAGAGCTAAACCTACTAGCTACGTTTAGCTTTCTCAACCATGGGCCAACTTCACTT
1 CAACTTCACTAAAGCTAAACCTACTAGCTACGTTGAGCTTTCTCAAACATGGGCCAACTTCACTT
* * * *
2025914 AGGCTAAACCTATTAGCTATGTTGGCTTAACAACTATAAGC
66 AGGCCAAACCTACTAGCTAGGTTGGCTTAACAACTATAAGA
* ** ** * * * * * *
2025955 CAACTTCAATGGAGCTAAATTTGCTAGCTATGTTAAGCTTTCTCAATCATAGGTCAACTT
1 CAACTTCACTAAAGCTAAACCTACTAGCTACGTTGAGCTTTCTCAAACATGGGCCAACTT
2026015 TGTTAAAGCA
Statistics
Matches: 144, Mismatches: 20, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
106 60 0.42
107 9 0.06
108 72 0.50
109 3 0.02
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (106 bp):
CAACTTCACTAAAGCTAAACCTACTAGCTACGTTGAGCTTTCTCAAACATGGGCCAACTTCACTT
AGGCCAAACCTACTAGCTAGGTTGGCTTAACAACTATAAGA
Found at i:2025994 original size:106 final size:107
Alignment explanation
Indices: 2025741--2026047 Score: 334
Period size: 106 Copynumber: 2.9 Consensus size: 107
2025731 AATTATAGGC
* * ** *
2025741 CAACTTCACTAAAGCTAAACCTACTAGCTACGTTGGGCTTTCTCAAATATGGGCCAACTTCAC-T
1 CAACTTCAATAGAGCTAAACCTACTAGCTACGTTAAGCTTTCTCAAACATGGGCCAACTTCACTT
* * *
2025805 AGAGCCAAACCTACCTA-CTAGGTTAGGCTTAACCAACTATAAGA
66 AG-GCAAAACCTA-TTAGCTATGTT-GGCTTAACCAACTATAAGA
* * *
2025849 CAACTTCATTAGAGCTAAACCTACTAGCTACGTTTAGCTTTCTCAACCATGGGCCAACTTCACTT
1 CAACTTCAATAGAGCTAAACCTACTAGCTACGTTAAGCTTTCTCAAACATGGGCCAACTTCACTT
* *
2025914 AGGCTAAACCTATTAGCTATGTTGGCTTAA-CAACTATAAGC
66 AGGCAAAACCTATTAGCTATGTTGGCTTAACCAACTATAAGA
* ** * * * * * **
2025955 CAACTTCAATGGAGCTAAATTTGCTAGCTATGTTAAGCTTTCTCAATCATAGGTCAACTT-TGTT
1 CAACTTCAATAGAGCTAAACCTACTAGCTACGTTAAGCTTTCTCAAACATGGGCCAACTTCACTT
*
2026019 AAAGCAAAACCTATTAGCTATGTTGGCTT
66 -AGGCAAAACCTATTAGCTATGTTGGCTT
2026048 TAATCCACTA
Statistics
Matches: 172, Mismatches: 24, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
105 2 0.01
106 86 0.50
107 9 0.05
108 72 0.42
109 3 0.02
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (107 bp):
CAACTTCAATAGAGCTAAACCTACTAGCTACGTTAAGCTTTCTCAAACATGGGCCAACTTCACTT
AGGCAAAACCTATTAGCTATGTTGGCTTAACCAACTATAAGA
Found at i:2026346 original size:107 final size:107
Alignment explanation
Indices: 2026143--2026347 Score: 227
Period size: 108 Copynumber: 1.9 Consensus size: 107
2026133 ACGTTAGGCA
* * * * ** *
2026143 TTCTTGACCATAGGCCAATTTTACTGAAGCAAACCAACCGACTATATTGGGTTTAGCCAACTATG
1 TTCTTAACCATAGGCCAACTTCACTGAAGCAAACCAACAGACTATATTGGGCATAACCAACTATG
* * * *
2026208 GGCCAACTTCACTAGAGCTAAACTTGTCAACTATGTTTGGTT
66 GGCCAACTTCACTAAAACTAAACCTGACAACTATGTTTGGTT
* *
2026250 TTCTTAACCATAGGCCAACTTCACTGAAGCTAAA-CATACTAG-CTATGTTGGGCATAACCAGCT
1 TTCTTAACCATAGGCCAACTTCACTGAAGC-AAACCA-AC-AGACTATATTGGGCATAACCAACT
* *
2026313 ATGGGCTAACTTTACTAAAACTAAACCT-ACAACTA
63 ATGGGCCAACTTCACTAAAACTAAACCTGACAACTA
2026348 GATTAGGCTT
Statistics
Matches: 80, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
107 35 0.44
108 44 0.55
109 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (107 bp):
TTCTTAACCATAGGCCAACTTCACTGAAGCAAACCAACAGACTATATTGGGCATAACCAACTATG
GGCCAACTTCACTAAAACTAAACCTGACAACTATGTTTGGTT
Found at i:2026360 original size:107 final size:106
Alignment explanation
Indices: 2026094--2026367 Score: 259
Period size: 107 Copynumber: 2.6 Consensus size: 106
2026084 TTGTTTACTT
* * * *
2026094 AACTATGGGCCT-ACTTTACTAGAGCTAAACCTATAGGCTACGTTAGGCATTCTTGACCATAGGC
1 AACTATGGG-CTAACTTTACTAGAGCTAAACCTACA-ACTACGTTAGGCTTTCTTAACCATAGGC
* * * ** *
2026158 CAATTTTACTGAAGCAAACCAACCGACTATATTGGGTTTAGCC
64 CAACTTCACTGAAGCAAACCAACAGACTATATTGGGCATAACC
* * * * * * *
2026201 AACTATGGGCCAACTTCACTAGAGCTAAACTTGTCAACTATGTTTGGTTTTCTTAACCATAGGCC
1 AACTATGGGCTAACTTTACTAGAGCTAAACCT-ACAACTACGTTAGGCTTTCTTAACCATAGGCC
*
2026266 AACTTCACTGAAGCTAAA-CATACTAG-CTATGTTGGGCATAACC
65 AACTTCACTGAAGC-AAACCA-AC-AGACTATATTGGGCATAACC
* * * *
2026309 AGCTATGGGCTAACTTTACTAAAACTAAACCTACAACTA-GATTAGGCTTTCTCAACCAT
1 AACTATGGGCTAACTTTACTAGAGCTAAACCTACAACTACG-TTAGGCTTTCTTAACCAT
2026368 TGATCAACTT
Statistics
Matches: 133, Mismatches: 28, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
106 2 0.02
107 85 0.64
108 45 0.34
109 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.29
Consensus pattern (106 bp):
AACTATGGGCTAACTTTACTAGAGCTAAACCTACAACTACGTTAGGCTTTCTTAACCATAGGCCA
ACTTCACTGAAGCAAACCAACAGACTATATTGGGCATAACC
Found at i:2027947 original size:20 final size:20
Alignment explanation
Indices: 2027922--2028045 Score: 88
Period size: 20 Copynumber: 5.8 Consensus size: 20
2027912 TTTTACCCAG
*
2027922 ATGTATCAATACATTTTTCA
1 ATGTATCGATACATTTTTCA
2027942 ATGTATCGATACATTATGTCTTTTACCCA
1 ATGTATCGATAC---A--T-TTTT---CA
2027971 GATGTATCGATACATTTTTCA
1 -ATGTATCGATACATTTTTCA
*** *
2027992 ATGTATCGATACATGCATGA
1 ATGTATCGATACATTTTTCA
* *
2028012 A-GTATCAATACATTCTTCA
1 ATGTATCGATACATTTTTCA
2028031 ATGTATCGATACATT
1 ATGTATCGATACATT
2028046 CTATCTTTTT
Statistics
Matches: 83, Mismatches: 10, Indels: 22
0.72 0.09 0.19
Matches are distributed among these distances:
19 15 0.18
20 40 0.48
21 2 0.02
23 1 0.01
24 4 0.05
25 2 0.02
26 4 0.05
27 1 0.01
29 2 0.02
30 12 0.14
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:2028046 original size:20 final size:20
Alignment explanation
Indices: 2027972--2028047 Score: 100
Period size: 20 Copynumber: 3.9 Consensus size: 20
2027962 TTTTACCCAG
*
2027972 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTCTTCA
* * *
2027992 ATGTATCGATACATGCATGA
1 ATGTATCGATACATTCTTCA
*
2028012 A-GTATCAATACATTCTTCA
1 ATGTATCGATACATTCTTCA
2028031 ATGTATCGATACATTCT
1 ATGTATCGATACATTCT
2028048 ATCTTTTTAC
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
19 15 0.33
20 31 0.67
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTCTTCA
Found at i:2028094 original size:90 final size:89
Alignment explanation
Indices: 2027924--2028095 Score: 290
Period size: 90 Copynumber: 1.9 Consensus size: 89
2027914 TTACCCAGAT
* *
2027924 GTATCAATACATTTTTCAATGTATCGATACATTATGTCTTTTACCCAGATGTATCGATACATTTT
1 GTATCAATACATTCTTCAATGTATCGATACATTATATCTTTTACCCAGATGTATCGATACATTTT
*
2027989 TCAATGTATCGATACATGCATGAA
66 TCAATGTATCAATACATGCATGAA
* *
2028013 GTATCAATACATTCTTCAATGTATCGATACATTCTATCTTTTTACCCAGATGTATCGATGCATTT
1 GTATCAATACATTCTTCAATGTATCGATACATTATATC-TTTTACCCAGATGTATCGATACATTT
2028078 TTCAATGTATCAATACAT
65 TTCAATGTATCAATACAT
2028096 CTAGTTAAAA
Statistics
Matches: 77, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
89 35 0.45
90 42 0.55
ACGTcount: A:0.31, C:0.18, G:0.11, T:0.40
Consensus pattern (89 bp):
GTATCAATACATTCTTCAATGTATCGATACATTATATCTTTTACCCAGATGTATCGATACATTTT
TCAATGTATCAATACATGCATGAA
Found at i:2029767 original size:79 final size:79
Alignment explanation
Indices: 2029676--2030004 Score: 383
Period size: 79 Copynumber: 4.2 Consensus size: 79
2029666 AATTTTAATA
* * * * * *
2029676 TTTTGGATATAAAAATGGGGTCAGAGTACCCCCTCATAAATAACGGGGTTGGAGTATCCCCGATT
1 TTTTGGAAATAAAAATAGGGTTAGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCTCGATT
* *
2029741 GTGGAAAATCGATA
66 GTAGAAAATCGATG
* * * *
2029755 TTTTGGAAAT-AAAATCAAGGTTGGAGTATCTCCTCAGAAATAACGGGGTTAGAGTATCCTCGAT
1 TTTTGGAAATAAAAAT-AGGGTTAGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCTCGAT
*
2029819 TGTAGAAAATTGATG
65 TGTAGAAAATCGATG
*** * * *
2029834 TTTTGGAAATAAAACCGGGGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCTCGATT
1 TTTTGGAAATAAAAATAGGGTTAGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCTCGATT
**
2029899 GTAGAAAATTAATG
66 GTAGAAAATCGATG
* * * * *
2029913 TTTTGGAAACAAAACTAGGGTTAGAATATCCTCTCAGAAATAACGGGGTTGGAGTAT-CTTGATT
1 TTTTGGAAATAAAAATAGGGTTAGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCTCGATT
*
2029977 GTAGAAAATCGGTG
66 GTAGAAAATCGATG
*
2029991 TTTTAGAAATAAAA
1 TTTTGGAAATAAAA
2030005 CATGAATGAA
Statistics
Matches: 212, Mismatches: 36, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
78 34 0.16
79 175 0.83
80 3 0.01
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (79 bp):
TTTTGGAAATAAAAATAGGGTTAGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCTCGATT
GTAGAAAATCGATG
Found at i:2032426 original size:50 final size:47
Alignment explanation
Indices: 2032352--2032483 Score: 156
Period size: 50 Copynumber: 2.7 Consensus size: 47
2032342 AAAAATGCCT
* * *
2032352 GAATGTATGATACATTGAAAAATGTATAGATACATCTAGGTAAAACC
1 GAATGTATGATACAATGAACAATGTATCGATACATCTAGGTAAAACC
*
2032399 AAGAATGTATCGATACAATGAACAATGTATCGATACATCTGGGTAAAACC
1 --GAATGTAT-GATACAATGAACAATGTATCGATACATCTAGGTAAAACC
* * * *
2032449 CAATGTATTTATATAATGAACAATATATCGATACA
1 GAATGTA-TGATACAATGAACAATGTATCGATACA
2032484 AATTGTGGAA
Statistics
Matches: 73, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
48 29 0.40
49 9 0.12
50 35 0.48
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.28
Consensus pattern (47 bp):
GAATGTATGATACAATGAACAATGTATCGATACATCTAGGTAAAACC
Found at i:2036141 original size:13 final size:13
Alignment explanation
Indices: 2036123--2036148 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2036113 TACACAAAGT
2036123 ATGTATCGATACA
1 ATGTATCGATACA
2036136 ATGTATCGATACA
1 ATGTATCGATACA
2036149 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2036146 original size:32 final size:33
Alignment explanation
Indices: 2036105--2036168 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
2036095 TAGCCAAACT
**
2036105 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
2036137 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
2036169 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:2041725 original size:13 final size:13
Alignment explanation
Indices: 2041707--2041732 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2041697 TACACAAAGT
2041707 ATGTATCGATACA
1 ATGTATCGATACA
2041720 ATGTATCGATACA
1 ATGTATCGATACA
2041733 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2041730 original size:32 final size:33
Alignment explanation
Indices: 2041689--2041752 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
2041679 TAGCCAAACT
**
2041689 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
2041721 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
2041753 TTGGCTTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:2047114 original size:29 final size:29
Alignment explanation
Indices: 2047081--2047226 Score: 101
Period size: 29 Copynumber: 5.2 Consensus size: 29
2047071 GACGCCTTTT
2047081 CCTTTCAAAGCCCACACAAGTCGGTGGCA
1 CCTTTCAAAGCCCACACAAGTCGGTGGCA
* * * * * *
2047110 CCTTTC--AGTCCTCA-AAGAGCAG-GACG
1 CCTTTCAAAGCCCACACAAG-TCGGTGGCA
2047136 CCTTTCAAAGCCCACACAAGTCGGTGGCA
1 CCTTTCAAAGCCCACACAAGTCGGTGGCA
* * * * * *
2047165 CCTCTC--AGTCCTCA-AAGAGCAG-GACA
1 CCTTTCAAAGCCCACACAAG-TCGGTGGCA
*
2047191 CCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAAAGCCCACACAAGTCGGTGGCA
2047220 CCTTTCA
1 CCTTTCA
2047227 GTCCTCAAAG
Statistics
Matches: 82, Mismatches: 25, Indels: 20
0.65 0.20 0.16
Matches are distributed among these distances:
26 22 0.27
27 16 0.20
28 15 0.18
29 29 0.35
ACGTcount: A:0.27, C:0.34, G:0.20, T:0.19
Consensus pattern (29 bp):
CCTTTCAAAGCCCACACAAGTCGGTGGCA
Found at i:2047142 original size:26 final size:26
Alignment explanation
Indices: 2047108--2047250 Score: 83
Period size: 26 Copynumber: 5.3 Consensus size: 26
2047098 AAGTCGGTGG
2047108 CACCTTTCAGTCCTCAAAGAGCAGGA
1 CACCTTTCAGTCCTCAAAGAGCAGGA
* * * * * *
2047134 CGCCTTTCAAAGCCCACACAAG-TCGGTGG
1 CACCTTTC--AGTCCTCA-AAGAGCAG-GA
*
2047163 CACCTCTCAGTCCTCAAAGAGCAGGA
1 CACCTTTCAGTCCTCAAAGAGCAGGA
* * * **
2047189 CACCTTTCAAAGCCCACACAAGTTGGTGG-
1 CACCTTTC--AGTCCTCA-AAG-AGCAGGA
2047218 CACCTTTCAGTCCTCAAAGAGCAGGA
1 CACCTTTCAGTCCTCAAAGAGCAGGA
*
2047244 CGCCTTT
1 CACCTTT
2047251 TAAAGCCCAC
Statistics
Matches: 82, Mismatches: 25, Indels: 20
0.65 0.20 0.16
Matches are distributed among these distances:
25 3 0.04
26 27 0.33
27 14 0.17
28 14 0.17
29 21 0.26
30 3 0.04
ACGTcount: A:0.27, C:0.33, G:0.20, T:0.20
Consensus pattern (26 bp):
CACCTTTCAGTCCTCAAAGAGCAGGA
Found at i:2047165 original size:55 final size:55
Alignment explanation
Indices: 2047051--2047535 Score: 537
Period size: 55 Copynumber: 8.4 Consensus size: 55
2047041 TCCTTTCACT
*
2047051 TTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTCGGTGGCACC
1 TTTCAGTCCTCAAAGAGCAGGACG------CCTTTCAAAGCCCACACAAGTTGGTGGCACC
*
2047112 TTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTCGGTGGCACC
1 TTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACC
* *
2047167 TCTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACC
1 TTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACC
* **
2047222 TTTCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATT
1 TTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACC
* *
2047277 TTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA-T
1 TTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACC
* ** *
2047331 TTTCCAGTCCTCAAAGAGCAGGATGTTTCTCCTTTCAAAGTGCACACAAGTTGGTGGCA-T
1 TTT-CAGTCCTCAAAGAGCAGGA-----CGCCTTTCAAAGCCCACACAAGTTGGTGGCACC
*
2047391 TTTCCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCCACACAAGTTGGTGGCACC
1 TTT-CAGTCCTCAAAGAGCAGGACGC-----C-TTTCAAAG-CCCACACAAGTTGGTGGCACC
* * *
2047454 -TTCAGTCCTCAAAGAGTAGGACACCTTCTCCTTTTAAAGCCTACACAAGTTGGTGGCA-C
1 TTTCAGTCCTCAAAGAGCAGGACGCCTT-T-C----AAAGCCCACACAAGTTGGTGGCACC
*
2047513 TTCCTAGTCCTCAAAGAGCAGGA
1 TTTC-AGTCCTCAAAGAGCAGGA
2047536 TGCTCTCTCC
Statistics
Matches: 377, Mismatches: 25, Indels: 44
0.85 0.06 0.10
Matches are distributed among these distances:
54 4 0.01
55 206 0.55
56 2 0.01
57 1 0.00
59 1 0.00
60 72 0.19
61 72 0.19
62 19 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (55 bp):
TTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACC
Found at i:2047670 original size:60 final size:59
Alignment explanation
Indices: 2047577--2047874 Score: 296
Period size: 60 Copynumber: 4.9 Consensus size: 59
2047567 GAGTAGGATG
*
2047577 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAATAGCAGGACGCCTTCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAA-AGCAGGACGCCTTCT
* ** **
2047637 CCTTTTAAAGCCCACACAAGCTGGTGGTTCCTTCAGTCCTCAAAGAGCAGGACATCTTCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAA-AGCAGGACGCCTTCT
* * * *
2047697 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCCAAAGGCAAGATG-CTT-T
1 CCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTCAGTCCT-CAAAAGCAGGACGCCTTCT
* * * * * * *
2047756 CTTTTTGCGAAGCCCACACAAGTTGGTGGTAGCTTCCAGTCCTCAAAGGATAGGACGCCTTGT
1 CCTTTT--AAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAAG-CAGGACGCCTTCT
* * *
2047819 -CTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGACGC
1 CCTTTT-AAAGCCCACACAAGTTGGTGGCAC-CTTCAGTCCTCAAA-AGCAGGACGC
2047875 ACTTTATTCT
Statistics
Matches: 196, Mismatches: 32, Indels: 19
0.79 0.13 0.08
Matches are distributed among these distances:
59 6 0.03
60 91 0.46
61 84 0.43
62 14 0.07
63 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (59 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAAGCAGGACGCCTTCT
Found at i:2047737 original size:336 final size:330
Alignment explanation
Indices: 2047228--2047871 Score: 865
Period size: 336 Copynumber: 1.9 Consensus size: 330
2047218 CACCTTTCAG
* **
2047228 TCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGA
1 TCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATCCTTCAGTCCTCAAAGA
* * **
2047293 GCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGTT
66 GCAGGACGCCTTTCAAAGCCCACACAAGCTGGTGG-ATTTTCCAGTCCTCAAAGAGCAGGACATT
** *
2047358 TCTCCTTTCAAAGTGCACACAAGTTGGTGGCATTTTCCAGTCCT-CAAAGAGCAGGATGCTTT-T
130 TCTCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCCAAAG-GCAAGATGCTTTCT
*
2047421 TCTTTTCAAAGCCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAA-GAGTAGGACACCTTCTC
194 T-TTTGCAAAG-CCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGGA-TAGGACACCTTCT-
*
2047484 CTTTT-AAAGCCTACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGATGCTCTCTCCTT
255 CTTTTCAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGATGCTCTCTCCTT
2047548 TCGCCTTTTTA
320 TCGCCTTTTTA
* * *
2047559 TCCTCAAAGAGTAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA-CCTTCAGTCCTCAAATA
1 TCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATCCTTCAGTCCTCAAAGA
2047623 GCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGCTGGTGG-TTCCTT-CAGTCCTCAAAGAGCA
66 GCAGGACGCCTT-T-C----AAAGCCCACACAAGCTGGTGGATT--TTCCAGTCCTCAAAGAGCA
*
2047686 GGACATCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTT-CAGTCCTCCAAAGGCAAGA
123 GGACAT-TTCTCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCCAAAGGCAAGA
* * * *
2047750 TGCTTTCTTTTTGCGAAGCCCACACAAGTTGGTGGTAGCTTCCAGTCCTCAAAGGATAGGACGCC
186 TGCTTTCTTTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGGATAGGACACC
* * **
2047815 TTGTCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGA
251 TTCTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGA
2047872 CGCACTTTAT
Statistics
Matches: 274, Mismatches: 24, Indels: 25
0.85 0.07 0.08
Matches are distributed among these distances:
330 25 0.09
331 45 0.16
332 1 0.00
334 2 0.01
335 46 0.17
336 142 0.52
337 13 0.05
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.27
Consensus pattern (330 bp):
TCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATCCTTCAGTCCTCAAAGA
GCAGGACGCCTTTCAAAGCCCACACAAGCTGGTGGATTTTCCAGTCCTCAAAGAGCAGGACATTT
CTCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCCAAAGGCAAGATGCTTTCTTT
TTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGGATAGGACACCTTCTCTTTTC
AAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGATGCTCTCTCCTTTCGCCT
TTTTA
Found at i:2047738 original size:214 final size:216
Alignment explanation
Indices: 2047361--2047753 Score: 580
Period size: 214 Copynumber: 1.8 Consensus size: 216
2047351 GGATGTTTCT
** ** * * *
2047361 CCTTTCAAAGTGCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTTTCTTT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGCTTCTCCTTT
* *
2047426 TCAAAGCCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGTAGGACACCTTCTCCTTTTAA
66 TCAAAGCCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACACCTTCTCCTTTTAA
* *
2047491 AGCCTACACAAGTTGGTGGCACTTCCTAGTCCT-CAAAGAGCAGGATGCTCTCTCCTTTCGCCTT
131 AGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCCAAAG-GCAAGATGCTCTCTCCTTTCGCCTT
2047555 TTTATCCTCAAAGAGTAGGATG
195 TTTATCCTCAAAGAGTAGGATG
*
2047577 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAATAGCAGGACGCCTTCTCCTT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACG-CTTCTCCTT
** *
2047641 TT-AAAG-CCCACACAAGCTGGTGGTTCCTTCAGTCCTCAAAGAGCAGGACATCTTCTCCTTTTA
65 TTCAAAGCCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACACCTTCTCCTTTTA
*
2047704 AAGCCCACACAAGTTGGTGGCACTT-TTCAGTCCTCCAAAGGCAAGATGCT
130 AAGCCCACACAAGTTGGTGGCACTTCCT-AGTCCTCCAAAGGCAAGATGCT
2047754 TTCTTTTTGC
Statistics
Matches: 158, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
213 1 0.01
214 91 0.58
215 28 0.18
216 38 0.24
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.27
Consensus pattern (216 bp):
CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGCTTCTCCTTT
TCAAAGCCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACACCTTCTCCTTTTAA
AGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCCAAAGGCAAGATGCTCTCTCCTTTCGCCTTT
TTATCCTCAAAGAGTAGGATG
Found at i:2047872 original size:61 final size:61
Alignment explanation
Indices: 2047579--2047874 Score: 327
Period size: 61 Copynumber: 4.9 Consensus size: 61
2047569 GTAGGATGCC
* *
2047579 TTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAATAGCAGGACGCCTTCTCCT
1 TTTCAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCT
* ** * **
2047640 TTT-AAAGCCCACACAAGCTGGTGGTTCCTTCAGTCCTCAAAGAGCAGGACATCTTCTCCT
1 TTTCAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCT
* * *
2047700 TTT-AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCCAAAG-GCAAGATG-CTT-TCTT
1 TTTCAAAGCCCACACAAGTTGGTGGCAC-TTTCAGTCCT-CAAAGAGCAGGACGCCTTCTCCT
* * * * *
2047759 TTTGCGAAGCCCACACAAGTTGGTGGTAGCTTCCAGTCCTCAAAG-GATAGGACGCCTTGT-CT
1 TTT-CAAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAGAG-CAGGACGCCTTCTCCT
* *
2047821 TTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGACGC
1 TTTCAAAGCCCACACAAGTTGGTGGCAC-TTTCAGTCCTCAAAGAGCAGGACGC
2047875 ACTTTATTCT
Statistics
Matches: 198, Mismatches: 27, Indels: 20
0.81 0.11 0.08
Matches are distributed among these distances:
59 6 0.03
60 85 0.43
61 92 0.46
62 14 0.07
63 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (61 bp):
TTTCAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCT
Found at i:2048855 original size:20 final size:19
Alignment explanation
Indices: 2048830--2048903 Score: 103
Period size: 20 Copynumber: 3.7 Consensus size: 19
2048820 TTTACCCAGA
2048830 TGTATCGATACATTTTGCAT
1 TGTATCGATACATTTT-CAT
*
2048850 TGTATCGATACATTGCTCAT
1 TGTATCGATACATT-TTCAT
*
2048870 TGTATCGATACATTTTACAA
1 TGTATCGATACATTTT-CAT
2048890 TGTATCGATACATT
1 TGTATCGATACATT
2048904 CAGGCATTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 1 0.02
20 47 0.96
21 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (19 bp):
TGTATCGATACATTTTCAT
Found at i:2051223 original size:51 final size:52
Alignment explanation
Indices: 2051167--2051404 Score: 274
Period size: 51 Copynumber: 4.6 Consensus size: 52
2051157 TTATGTTTCT
* *
2051167 CAATTTTTCATAATCGGGGGTACTCCAACCCCGGTTTTATTTCT-AAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAAACAC
* ** *
2051218 TAA-TTTTCTACAATCGGGGATACTCCAACTTC-GATTTACTTTC--AAAACAC
1 CAATTTTTC-ACAATCGGGGATACTCCAACCCCGGTTTTA-TTTCTAAAAACAC
* *
2051268 CAATTTTCCACAATCGGGGATACTCCAACCCCGGTTTTATTT-TCAAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAAACAC
* * * * *
2051319 CAA-TTTTCTATAATCGGGGATACTCCAACTCTGATTTTATTTCTAAAAATAC
1 CAATTTTTC-ACAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAAACAC
2051371 CAATTTTTTCACAATCGGGGATACTCCAACCCCG
1 CAA-TTTTTCACAATCGGGGATACTCCAACCCCG
2051405 TTAATCATCG
Statistics
Matches: 156, Mismatches: 21, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
50 47 0.30
51 73 0.47
52 10 0.06
53 21 0.13
54 5 0.03
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.33
Consensus pattern (52 bp):
CAATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAAACAC
Found at i:2051342 original size:101 final size:102
Alignment explanation
Indices: 2051167--2051404 Score: 349
Period size: 101 Copynumber: 2.3 Consensus size: 102
2051157 TTATGTTTCT
* * *
2051167 CAATTTTTCATAATCGGGGGTACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCTACAAT
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTCTACAAT
2051232 CGGGGATACTCCAACT-TCGA-TTTACTTTC-AAAACAC
66 CGGGGATACTCCAACTCT-GATTTTA-TTTCAAAAACAC
* *
2051268 CAATTTTCCACAATCGGGGATACTCCAACCCCGGTTTTATTT-TCAAAACACCAATTTTCTATAA
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTCT-AAAACACCAATTTTCTACAA
*
2051332 TCGGGGATACTCCAACTCTGATTTTATTTCTAAAAATAC
65 TCGGGGATACTCCAACTCTGATTTTATTTC-AAAAACAC
2051371 CAATTTTTTCACAATCGGGGATACTCCAACCCCG
1 CAA-TTTTTCACAATCGGGGATACTCCAACCCCG
2051405 TTAATCATCG
Statistics
Matches: 124, Mismatches: 7, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
100 1 0.01
101 80 0.65
102 5 0.04
103 9 0.07
104 29 0.23
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.33
Consensus pattern (102 bp):
CAATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTCTACAAT
CGGGGATACTCCAACTCTGATTTTATTTCAAAAACAC
Found at i:2051418 original size:27 final size:25
Alignment explanation
Indices: 2051384--2051459 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 25
2051374 TTTTTTCACA
2051384 ATCGGGGATACTCCAACCCCGTTAAT
1 ATCGGGGATACTCCAACCCCGTT-AT
2051410 CATCGGGGATACTCCAACCCCGTTAT
1 -ATCGGGGATACTCCAACCCCGTTAT
*
2051436 TTCCGATGGGATACTCCAACCCCG
1 AT-CG--GGGATACTCCAACCCCG
2051460 GCTTTATTCC
Statistics
Matches: 45, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
25 1 0.02
26 4 0.09
27 23 0.51
28 17 0.38
ACGTcount: A:0.24, C:0.34, G:0.20, T:0.22
Consensus pattern (25 bp):
ATCGGGGATACTCCAACCCCGTTAT
Found at i:2051629 original size:77 final size:79
Alignment explanation
Indices: 2051411--2051668 Score: 328
Period size: 79 Copynumber: 3.3 Consensus size: 79
2051401 CCCGTTAATC
* * ** *
2051411 ATCGGGGATACTCCAACCCCGTTATTTCCGATGGGATACTCCAACCCCGGCTTTATTCCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTCTTAAAAT
2051476 ATTGATTTCTCATA
66 ATTGATTTCTCATA
*
2051490 ATCGGGGATACTCCAACCCCGTTATTTAT-AAGGGGATACTCCAACCCCGATTTTATTCTTAAAA
1 ATCGGGGATACTCCAACCCCGTTATTT-TCGAGGGGATACTCCAACCCCGATTTTATTCTTAAAA
2051554 TATTGATTTCTCATA
65 TATTGATTTCTCATA
* * * *
2051569 ATCGGGGAGACTCC-A-CCCATTATTTTCGCA-GGGATACTCCAATCCCGATTTTATTTTTAAAA
1 ATCGGGGATACTCCAACCCCGTTATTTTCG-AGGGGATACTCCAACCCCGATTTTATTCTTAAAA
* *
2051631 CATCGATTT-TCCATA
65 TATTGATTTCT-CATA
* *
2051646 ATCGGGGATACTCTAGCCCCGTT
1 ATCGGGGATACTCCAACCCCGTT
2051669 GTTATCTCCA
Statistics
Matches: 156, Mismatches: 17, Indels: 12
0.84 0.09 0.06
Matches are distributed among these distances:
76 2 0.01
77 62 0.40
78 2 0.01
79 90 0.58
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.33
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTCTTAAAAT
ATTGATTTCTCATA
Found at i:2058070 original size:169 final size:170
Alignment explanation
Indices: 2057783--2058092 Score: 453
Period size: 169 Copynumber: 1.8 Consensus size: 170
2057773 GGGACCAAAG
* * *
2057783 AAAATCCCCTTGTAAAAAATTTATGGAGTAGAAAACTCCGTATTTCAAAAAGAAGAGAATTTCAA
1 AAAATCCCCCTGTAAAAAATTTACGAAGTAGAAAACTCCGTATTTCAAAAAGAAGAGAATTTCAA
* * * * *
2057848 GGAAAAAATTTAAAAACTAATAAAAATGAAGGAATTTTTTAAAATTGATTTAATTTAAAATAAAT
66 GGAAAAAATTCAAAAACTAATAAAAATGAAGGAATTTTTGAAAACTAATTTAATGTAAAATAAAT
*
2057913 AATATTATTTGATGAATTTAAAAAATTAAAAAAACCAAGA
131 AATAATATTTGATGAATTTAAAAAATTAAAAAAACCAAGA
* * * *
2057953 AAAATCCCCCTG-AAAAAACTTTACGAAGTAGAAAACTCTGTATTTCGAAAATAAGAGAATTTTA
1 AAAATCCCCCTGTAAAAAA-TTTACGAAGTAGAAAACTCCGTATTTCAAAAAGAAGAGAATTTCA
* *
2058017 A-GAAAAAATTCAAAAACTAATGAAAATGAAGGAATTTTTGAAAACTAATTTAATGTGAAATAAA
65 AGGAAAAAATTCAAAAACTAATAAAAATGAAGGAATTTTTGAAAACTAATTTAATGTAAAATAAA
*
2058081 TAGTAATATTTG
130 TAATAATATTTG
2058093 GAGAATATTG
Statistics
Matches: 123, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
169 72 0.59
170 51 0.41
ACGTcount: A:0.51, C:0.08, G:0.12, T:0.29
Consensus pattern (170 bp):
AAAATCCCCCTGTAAAAAATTTACGAAGTAGAAAACTCCGTATTTCAAAAAGAAGAGAATTTCAA
GGAAAAAATTCAAAAACTAATAAAAATGAAGGAATTTTTGAAAACTAATTTAATGTAAAATAAAT
AATAATATTTGATGAATTTAAAAAATTAAAAAAACCAAGA
Found at i:2058749 original size:30 final size:29
Alignment explanation
Indices: 2058703--2058760 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
2058693 AGTTAAGAAA
*
2058703 ATGACTAGGATGAAACCATCAGTCGAAAAT
1 ATGACTAGGATAAAACCATCAGTC-AAAAT
* *
2058733 ATGATTAGGATAAAACCATTAGTCAAAA
1 ATGACTAGGATAAAACCATCAGTCAAAA
2058761 GAAACAACTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 4 0.16
30 21 0.84
ACGTcount: A:0.47, C:0.14, G:0.17, T:0.22
Consensus pattern (29 bp):
ATGACTAGGATAAAACCATCAGTCAAAAT
Found at i:2058964 original size:31 final size:29
Alignment explanation
Indices: 2058884--2058965 Score: 83
Period size: 30 Copynumber: 2.7 Consensus size: 29
2058874 ATTAATCAAG
* * *
2058884 AAAATCACTAAGATGAAACCATTAGTTAA
1 AAAATAACTAAGGTGAAACCATAAGTTAA
** *
2058913 AAAGATAAGAAAGGTCAAACCATAAGTTAA
1 AAA-ATAACTAAGGTGAAACCATAAGTTAA
2058943 AGGAAATAACTAAGGTGAAACCA
1 A--AAATAACTAAGGTGAAACCA
2058966 ATTAGTGGAA
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
29 3 0.07
30 21 0.51
31 15 0.37
32 2 0.05
ACGTcount: A:0.54, C:0.12, G:0.16, T:0.18
Consensus pattern (29 bp):
AAAATAACTAAGGTGAAACCATAAGTTAA
Found at i:2059592 original size:55 final size:55
Alignment explanation
Indices: 2059448--2059699 Score: 182
Period size: 55 Copynumber: 4.6 Consensus size: 55
2059438 GATAGCCAAT
* * ** * * * *
2059448 ACTAACAGATTTGGATATGCCACCAAAAACTTTGAAAATTATTCCAATTATCACC
1 ACTAAAAGCTTTGGATACACCACTAAAAACTTTGAAAATTATTCTAGTTAACACC
* * * * * * * * *
2059503 ACTAGAAGCTTTAGATGCACCACCATAGAGTTTGAAAATTATTTTGGTTAACACC
1 ACTAAAAGCTTTGGATACACCACTAAAAACTTTGAAAATTATTCTAGTTAACACC
* * *
2059558 ACTAAAAGCTTTGGATACACCACTAAAAACTTTGACATTTATTCAAGTT-ACTACC
1 ACTAAAAGCTTTGGATACACCACTAAAAACTTTGAAAATTATTCTAGTTAAC-ACC
** * * ** ** * * * *
2059613 GTTAGAAGCTTTGAATATGCCACTAAAAGTTTTGAAAATTATTTTGGTTACCACT
1 ACTAAAAGCTTTGGATACACCACTAAAAACTTTGAAAATTATTCTAGTTAACACC
* *
2059668 ATTAAAAGCTTAGGATACACCACTAAAAACTT
1 ACTAAAAGCTTTGGATACACCACTAAAAACTT
2059700 ATCTTTTAAA
Statistics
Matches: 145, Mismatches: 50, Indels: 4
0.73 0.25 0.02
Matches are distributed among these distances:
54 2 0.01
55 142 0.98
56 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (55 bp):
ACTAAAAGCTTTGGATACACCACTAAAAACTTTGAAAATTATTCTAGTTAACACC
Found at i:2060216 original size:14 final size:14
Alignment explanation
Indices: 2060197--2060238 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
2060187 TAATTGTGTA
*
2060197 GATGCACATGAAAT
1 GATGCAAATGAAAT
2060211 GATGCAAATGCAAAT
1 GATGCAAATG-AAAT
2060226 GATAGCAAATGAA
1 GAT-GCAAATGAA
2060239 GCATATGTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 9 0.36
15 9 0.36
16 7 0.28
ACGTcount: A:0.48, C:0.12, G:0.21, T:0.19
Consensus pattern (14 bp):
GATGCAAATGAAAT
Found at i:2061382 original size:19 final size:20
Alignment explanation
Indices: 2061355--2061396 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
2061345 CATTTTCTTA
*
2061355 TTTCCTTTTT-TTCTTCC-CT
1 TTTCATTTTTCTT-TTCCTCT
2061374 TTTCATTTTTCTTTTCCTCT
1 TTTCATTTTTCTTTTCCTCT
2061394 TTT
1 TTT
2061397 TTGCACTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTCATTTTTCTTTTCCTCT
Found at i:2065597 original size:79 final size:78
Alignment explanation
Indices: 2065475--2065928 Score: 531
Period size: 79 Copynumber: 5.7 Consensus size: 78
2065465 CGGTGTTCTG
* * * * * *
2065475 GAAATAAAATCGGGGTTGGAGTATCCCCTTGGAAAA-AATAGGGTTAGAGTATCCCTAATTAT-A
1 GAAAT-AAACCGGGGTTGGAGTATCCCC-TCGAAAATAACAGGGTTGGAGTATCCCCAATTGTGA
*** *
2065538 GAAAATTGGTGTTTT-
64 G-AAATCAATATTTTA
* * * *
2065553 GAAAATAGAATCAGGGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCCCGATTGTGA
1 G-AAATA-AACCGGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCCAATTGTGA
2065618 GAAATCAATATTTTA
64 GAAATCAATATTTTA
* * *
2065633 GGAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCAATTGTGAG
1 GAAATAAA-CCGGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCCAATTGTGAG
2065698 AAATCAATATTTTA
65 AAATCAATATTTTA
* * *
2065712 GAAATAAAGCCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTAGAGTATCCCCAATTGTAAG
1 GAAATAAA-CCGGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCCAATTGTGAG
2065777 AAATCAATATTTTA
65 AAATCAATATTTTA
* * * *
2065791 GAAATAAAACCGGGGTTGGAGTATCCCCTC-AGAAATAAC-GGAGTTGGAGTATTCTCGATTGTA
1 GAAAT-AAACCGGGGTTGGAGTATCCCCTCGA-AAATAACAGG-GTTGGAGTATCCCCAATTGTG
2065854 AGAAATCAATATTTTA
63 AGAAATCAATATTTTA
* * *
2065870 GAAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGGGTATCCCCAAT
1 GAAATAAA-CCGGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCCAAT
2065929 GATTAACGGG
Statistics
Matches: 332, Mismatches: 32, Indels: 23
0.86 0.08 0.06
Matches are distributed among these distances:
78 15 0.05
79 309 0.93
80 8 0.02
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.26
Consensus pattern (78 bp):
GAAATAAACCGGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCCAATTGTGAGA
AATCAATATTTTA
Found at i:2065890 original size:237 final size:237
Alignment explanation
Indices: 2065475--2065928 Score: 664
Period size: 237 Copynumber: 1.9 Consensus size: 237
2065465 CGGTGTTCTG
* * * *
2065475 GAAATAAAATCGGGGTTGGAGTATCCCCTTGGAAAAAATAGGGTTAGAGTATCCCTAATTATAGA
1 GAAATAAAACCGGGGTTGGAGTATCCCCTTCGAAAAAACAGGGTTAGAGTATCCCCAATTATAGA
*** * * *
2065540 AAATTGGTGTTTTGAAAATAGAATCAGGGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGTA
66 AAATCAATATTTTGAAAATAAAACCAGGGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGTA
* *
2065605 TCCCCGATTGTGAGAAATCAATATTTTAGGAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAATA
131 TCCCCGATTGTAAGAAATCAATATTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAATA
2065670 ACGGGGTTGGAGTATCCCCAATTGTGAGAAATCAATATTTTA
196 ACGGGGTTGGAGTATCCCCAATTGTGAGAAATCAATATTTTA
* * *
2065712 GAAATAAAGCCGGGGTTGGAGTATCCCC-TCGAAAATAACGGGGTTAGAGTATCCCCAATTGTA-
1 GAAATAAAACCGGGGTTGGAGTATCCCCTTCGAAAA-AACAGGGTTAGAGTATCCCCAATTATAG
* *
2065775 AGAAATCAATATTTT-AGAAATAAAACCGGGGTTGGAGTATCCCCTCAGAAATAAC-GGAGTTGG
65 A-AAATCAATATTTTGA-AAATAAAACCAGGGTTGGAGTATCCCCTCAAAAATAACAGG-GTTGG
* *
2065838 AGTATTCTCGATTGTAAGAAATCAATATTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCTCGGA
127 AGTATCCCCGATTGTAAGAAATCAATATTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCTCGGA
*
2065903 AATAACGGGGTTGGGGTATCCCCAAT
192 AATAACGGGGTTGGAGTATCCCCAAT
2065929 GATTAACGGG
Statistics
Matches: 193, Mismatches: 20, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
236 10 0.05
237 183 0.95
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.26
Consensus pattern (237 bp):
GAAATAAAACCGGGGTTGGAGTATCCCCTTCGAAAAAACAGGGTTAGAGTATCCCCAATTATAGA
AAATCAATATTTTGAAAATAAAACCAGGGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGTA
TCCCCGATTGTAAGAAATCAATATTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAATA
ACGGGGTTGGAGTATCCCCAATTGTGAGAAATCAATATTTTA
Found at i:2065914 original size:28 final size:27
Alignment explanation
Indices: 2065880--2065952 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
2065870 GAAATAAAGC
**
2065880 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCAAGG-AATAA
* * *
2065908 CGGGGTTGGGGTATCCCCAATGATTAA
1 CGGGGTTGGAGTATCCCCAAGGAATAA
2065935 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
2065953 GATTATGAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
27 21 0.54
28 18 0.46
ACGTcount: A:0.21, C:0.22, G:0.34, T:0.23
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCCAAGGAATAA
Done.